Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032254.1 Gossypioides kirkii chromosome KI_12
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: 43711324
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 1700 characters in sequence are not A, C, G, or T
File 40 of 135
Found at i:14968925 original size:16 final size:17
Alignment explanation
Indices: 14968869--14968945 Score: 93
Period size: 18 Copynumber: 4.3 Consensus size: 17
14968859 AATTTGATTG
*
14968869 AATTTAAAATTTAAAACA
1 AATTT-AAATTTAAAATA
14968887 AATTTAAATTTAAAAATATA
1 AATTTAAATTT--AAA-ATA
14968907 AATTTAAATTT-AAATA
1 AATTTAAATTTAAAATA
14968923 AATTTAAATTTAAAAATA
1 AATTTAAATTT-AAAATA
14968941 AATTT
1 AATTT
14968946 GAATCAATTT
Statistics
Matches: 53, Mismatches: 1, Indels: 10
0.83 0.02 0.16
Matches are distributed among these distances:
16 14 0.26
17 8 0.15
18 15 0.28
19 3 0.06
20 13 0.25
ACGTcount: A:0.58, C:0.01, G:0.00, T:0.40
Consensus pattern (17 bp):
AATTTAAATTTAAAATA
Found at i:14968930 original size:36 final size:38
Alignment explanation
Indices: 14968869--14968940 Score: 121
Period size: 36 Copynumber: 1.9 Consensus size: 38
14968859 AATTTGATTG
14968869 AATTTAAAATTTAAAACAAATTTAAATTTAAAAATATA
1 AATTTAAAATTTAAAACAAATTTAAATTTAAAAATATA
*
14968907 AATTT-AAATTT-AAATAAATTTAAATTTAAAAATA
1 AATTTAAAATTTAAAACAAATTTAAATTTAAAAATA
14968941 AATTTGAATC
Statistics
Matches: 33, Mismatches: 1, Indels: 2
0.92 0.03 0.06
Matches are distributed among these distances:
36 22 0.67
37 6 0.18
38 5 0.15
ACGTcount: A:0.60, C:0.01, G:0.00, T:0.39
Consensus pattern (38 bp):
AATTTAAAATTTAAAACAAATTTAAATTTAAAAATATA
Found at i:14968942 original size:22 final size:22
Alignment explanation
Indices: 14968900--14968943 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
14968890 TTAAATTTAA
**
14968900 AAATATAAATTTAAATTTAAAT
1 AAATATAAATTTAAAAATAAAT
*
14968922 AAATTTAAATTTAAAAATAAAT
1 AAATATAAATTTAAAAATAAAT
14968944 TTGAATCAAT
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:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (22 bp):
AAATATAAATTTAAAAATAAAT
Found at i:14968970 original size:28 final size:28
Alignment explanation
Indices: 14968891--14968970 Score: 79
Period size: 28 Copynumber: 2.8 Consensus size: 28
14968881 AAAACAAATT
*
14968891 TAAATTTAAAAATATAAATTTAAATTTAAA
1 TAAATTT-AAACT-TAAATTTAAATTTAAA
* ** *
14968921 TAAATTTAAATTTAAAAATAAATTTGAA
1 TAAATTTAAACTTAAATTTAAATTTAAA
* *
14968949 TCAATTTAAACTTAATTTTAAA
1 TAAATTTAAACTTAAATTTAAA
14968971 ATCCAAAATT
Statistics
Matches: 41, Mismatches: 9, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
28 30 0.73
29 4 0.10
30 7 0.17
ACGTcount: A:0.55, C:0.03, G:0.01, T:0.41
Consensus pattern (28 bp):
TAAATTTAAACTTAAATTTAAATTTAAA
Found at i:14974972 original size:35 final size:35
Alignment explanation
Indices: 14974921--14974993 Score: 137
Period size: 35 Copynumber: 2.1 Consensus size: 35
14974911 CGTATCGTTG
*
14974921 ACACTCCGCTCGTCCTAAATAGAATGAATCGACCA
1 ACACTCCGCTCATCCTAAATAGAATGAATCGACCA
14974956 ACACTCCGCTCATCCTAAATAGAATGAATCGACCA
1 ACACTCCGCTCATCCTAAATAGAATGAATCGACCA
14974991 ACA
1 ACA
14974994 TTGCTGCCAA
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 37 1.00
ACGTcount: A:0.37, C:0.32, G:0.12, T:0.19
Consensus pattern (35 bp):
ACACTCCGCTCATCCTAAATAGAATGAATCGACCA
Found at i:14976542 original size:33 final size:34
Alignment explanation
Indices: 14976475--14976546 Score: 137
Period size: 34 Copynumber: 2.1 Consensus size: 34
14976465 TGGTGTTGTT
14976475 TATGAGTATGTTTGAGGGTTATTGTGGAACTGAA
1 TATGAGTATGTTTGAGGGTTATTGTGGAACTGAA
14976509 TATGAGTATGTTTGAGGGTTATTG-GGAACTGAA
1 TATGAGTATGTTTGAGGGTTATTGTGGAACTGAA
14976542 TATGA
1 TATGA
14976547 ACATGTTCCA
Statistics
Matches: 38, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
33 14 0.37
34 24 0.63
ACGTcount: A:0.28, C:0.03, G:0.32, T:0.38
Consensus pattern (34 bp):
TATGAGTATGTTTGAGGGTTATTGTGGAACTGAA
Found at i:14976553 original size:33 final size:34
Alignment explanation
Indices: 14976482--14976553 Score: 119
Period size: 33 Copynumber: 2.1 Consensus size: 34
14976472 GTTTATGAGT
**
14976482 ATGTTTGAGGGTTATTGTGGAACTGAATATGAGT
1 ATGTTTGAGGGTTATTGTGGAACTGAATATGAAC
14976516 ATGTTTGAGGGTTATTG-GGAACTGAATATGAAC
1 ATGTTTGAGGGTTATTGTGGAACTGAATATGAAC
14976549 ATGTT
1 ATGTT
14976554 CCATTTTGTA
Statistics
Matches: 36, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
33 19 0.53
34 17 0.47
ACGTcount: A:0.28, C:0.04, G:0.31, T:0.38
Consensus pattern (34 bp):
ATGTTTGAGGGTTATTGTGGAACTGAATATGAAC
Found at i:14988145 original size:5 final size:5
Alignment explanation
Indices: 14988135--14988186 Score: 104
Period size: 5 Copynumber: 10.4 Consensus size: 5
14988125 ATTTCTCGTA
14988135 TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT
1 TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT
14988185 TA
1 TA
14988187 CAAGTTTCTA
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 47 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (5 bp):
TATAT
Found at i:14988329 original size:31 final size:32
Alignment explanation
Indices: 14988284--14988371 Score: 124
Period size: 32 Copynumber: 2.8 Consensus size: 32
14988274 CACTTGAATG
*
14988284 TGACATTTTTTTTTTAATTTGGTACCTAAATT
1 TGACACTTTTTTTTTAATTTGGTACCTAAATT
**
14988316 TGACACTTTTTTTTTAATTTGGTATTTAAATT
1 TGACACTTTTTTTTTAATTTGGTACCTAAATT
* *
14988348 TGATAC-TTTTTCTTAATTTGGTAC
1 TGACACTTTTTTTTTAATTTGGTAC
14988372 TTAATTTTTT
Statistics
Matches: 50, Mismatches: 6, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
31 16 0.32
32 34 0.68
ACGTcount: A:0.24, C:0.09, G:0.10, T:0.57
Consensus pattern (32 bp):
TGACACTTTTTTTTTAATTTGGTACCTAAATT
Found at i:14988440 original size:25 final size:27
Alignment explanation
Indices: 14988403--14988459 Score: 73
Period size: 27 Copynumber: 2.2 Consensus size: 27
14988393 TGATATCTGA
14988403 ACTTGAC-TCTTTTT-CTTAATTTGGT
1 ACTTGACTTCTTTTTGCTTAATTTGGT
* * *
14988428 ACTTGACTTTTTTTTGTTTGATTTGGT
1 ACTTGACTTCTTTTTGCTTAATTTGGT
14988455 ACTTG
1 ACTTG
14988460 TCAAATGTTT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
25 7 0.26
26 6 0.22
27 14 0.52
ACGTcount: A:0.14, C:0.12, G:0.16, T:0.58
Consensus pattern (27 bp):
ACTTGACTTCTTTTTGCTTAATTTGGT
Found at i:14997015 original size:18 final size:17
Alignment explanation
Indices: 14996992--14997038 Score: 58
Period size: 17 Copynumber: 2.7 Consensus size: 17
14996982 GAATTTGTTC
*
14996992 TAAATTTAAATTCATTTT
1 TAAATTTAAATTCA-CTT
* *
14997010 TAAATTTCAATTTACTT
1 TAAATTTAAATTCACTT
14997027 TAAATTTAAATT
1 TAAATTTAAATT
14997039 TATTGTAAAT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
17 13 0.52
18 12 0.48
ACGTcount: A:0.40, C:0.06, G:0.00, T:0.53
Consensus pattern (17 bp):
TAAATTTAAATTCACTT
Found at i:14997025 original size:52 final size:51
Alignment explanation
Indices: 14996954--14997054 Score: 139
Period size: 52 Copynumber: 2.0 Consensus size: 51
14996944 ACTGCGTTCA
* * * * *
14996954 ATTTTTAATTTTAATTTACTTTAAGTTTGAATTTGTTCTAAATTTAAATTC
1 ATTTTTAATTTCAATTTACTTTAAATTTAAATTTATTCTAAATTAAAATTC
*
14997005 ATTTTTAAATTTCAATTTACTTTAAATTTAAATTTATTGTAAATTAAAAT
1 ATTTTT-AATTTCAATTTACTTTAAATTTAAATTTATTCTAAATTAAAAT
14997055 AAAAGGTCCA
Statistics
Matches: 43, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
51 6 0.14
52 37 0.86
ACGTcount: A:0.37, C:0.05, G:0.04, T:0.54
Consensus pattern (51 bp):
ATTTTTAATTTCAATTTACTTTAAATTTAAATTTATTCTAAATTAAAATTC
Found at i:14999019 original size:29 final size:28
Alignment explanation
Indices: 14998876--14999132 Score: 171
Period size: 29 Copynumber: 8.8 Consensus size: 28
14998866 GAAAGTCCCT
* *
14998876 AAACTGTCCAAAAATTATATTTTGACCCTC
1 AAACT-TCCAAAAATTACATTTT-ACCCCC
* * *
14998906 GAACTTCCTAAAAATTATATTTTAACCCTC
1 AAACTTCC-AAAAATTACATTTT-ACCCCC
*
14998936 GAACTTCCTAAAAATTACATTTTGA-CCCC
1 AAACTTCC-AAAAATTACATTTT-ACCCCC
* * *
14998965 AAAATATCCTAAAAATCATATTTTTACCCCC
1 AAACT-TCC-AAAAATTACA-TTTTACCCCC
* *
14998996 AAACTTCCTAAAAGTTACATTTTACCCCT
1 AAACTTCC-AAAAATTACATTTTACCCCC
* * *
14999025 AAACTTTC-AAAATTACATTTTTACTCCT
1 AAACTTCCAAAAATTACA-TTTTACCCCC
* * * *
14999053 AAATTTTCC-AAAATTATATTTTTACCACT
1 AAA-CTTCCAAAAATTACA-TTTTACCCCC
*
14999082 GAACTTCCAAAAATTACCATTTTACCCCC
1 AAACTTCCAAAAATTA-CATTTTACCCCC
*
14999111 AAAC-TCTCAAAAATTTCATTTT
1 AAACTTC-CAAAAATTACATTTT
14999133 TGACCCAAAT
Statistics
Matches: 189, Mismatches: 29, Indels: 20
0.79 0.12 0.08
Matches are distributed among these distances:
27 8 0.04
28 24 0.13
29 73 0.39
30 72 0.38
31 12 0.06
ACGTcount: A:0.37, C:0.25, G:0.03, T:0.36
Consensus pattern (28 bp):
AAACTTCCAAAAATTACATTTTACCCCC
Found at i:14999124 original size:58 final size:57
Alignment explanation
Indices: 14998884--14999287 Score: 200
Period size: 58 Copynumber: 6.9 Consensus size: 57
14998874 CTAAACTGTC
* * * * *
14998884 CAAAAA-TTATATTTTGACCCTCGAACTTCCTAAAAATTA-TATTTTAACCCTCGAACTTC
1 CAAAAATTTAT-TTTTGACCCT-AAACTTCCT-AAAATTACCATTTT-ACCCCCAAACTTT
* * * * * *
14998943 CTAAAAA-TTACATTTTGACCCCAAAATATCCTAAAAAT-CATATTTTTACCCCCAAACTTC
1 C-AAAAATTTA-TTTTTGACCCTAAACT-TCCTAAAATTAC-CA-TTTTACCCCCAAACTTT
* * * * * * *
14999003 CTAAAAGTTACATTTT-ACCCCTAAACTTTC-AAAATTA-CATTTTTACTCCTAAATTTT
1 CAAAAATTTA-TTTTTGA-CCCTAAACTTCCTAAAATTACCA-TTTTACCCCCAAACTTT
* * * *
14999060 CCAAAATTATATTTTT-ACCACTGAACTTCCAAAAATTACCATTTTACCCCCAAACTCT
1 CAAAAATT-TATTTTTGACC-CTAAACTTCCTAAAATTACCATTTTACCCCCAAACTTT
* * *
14999118 CAAAAATTTCATTTTTGACCC-AAATTTTTCTAAAATTACCATTTTTACCCCCAAAATTT
1 CAAAAATTT-ATTTTTGACCCTAAA-CTTCCTAAAATTACCA-TTTTACCCCCAAACTTT
** * ** * * *
14999177 TTAAAATTCCATTTTTGA-CCTCAATTTTTCCCTAAAATTACCATTTTACCCTCGAA-TGT
1 CAAAAATT-TATTTTTGACCCT-AA-ACTT-CCTAAAATTACCATTTTACCCCCAAACTTT
* * *
14999236 CTAAAATTTCATTTTTAACCCTGAACTTTCCTAAAATTACCATTTTACCCCC
1 CAAAAATTT-ATTTTTGACCCTAAAC-TTCCTAAAATTACCATTTTACCCCC
14999288 TCTCGAGTAT
Statistics
Matches: 272, Mismatches: 48, Indels: 51
0.73 0.13 0.14
Matches are distributed among these distances:
56 2 0.01
57 37 0.14
58 78 0.29
59 69 0.25
60 70 0.26
61 16 0.06
ACGTcount: A:0.35, C:0.25, G:0.03, T:0.38
Consensus pattern (57 bp):
CAAAAATTTATTTTTGACCCTAAACTTCCTAAAATTACCATTTTACCCCCAAACTTT
Found at i:14999133 original size:29 final size:30
Alignment explanation
Indices: 14998984--14999172 Score: 126
Period size: 29 Copynumber: 6.5 Consensus size: 30
14998974 TAAAAATCAT
* *
14998984 ATTTTTACCCCCAAACTTCCTAAAAGTT-AC
1 ATTTTTACCCCCAAACTTTC-AAAAATTAAC
*
14999014 A-TTTTACCCCTAAACTTTC-AAAATT-AC
1 ATTTTTACCCCCAAACTTTCAAAAATTAAC
* * * * *
14999041 ATTTTTACTCCTAAATTTTCCAAAATT-AT
1 ATTTTTACCCCCAAACTTTCAAAAATTAAC
* ** * *
14999070 ATTTTTACCACTGAACTTCCAAAAATTACC
1 ATTTTTACCCCCAAACTTTCAAAAATTAAC
* *
14999100 A-TTTTACCCCCAAACTCTCAAAAATT-TC
1 ATTTTTACCCCCAAACTTTCAAAAATTAAC
* * *
14999128 ATTTTTGA--CCCAAATTTTTCTAAAATTACC
1 ATTTTT-ACCCCCAAA-CTTTCAAAAATTAAC
14999158 ATTTTTACCCCCAAA
1 ATTTTTACCCCCAAA
14999173 ATTTTTAAAA
Statistics
Matches: 126, Mismatches: 24, Indels: 17
0.75 0.14 0.10
Matches are distributed among these distances:
27 8 0.06
28 24 0.19
29 78 0.62
30 10 0.08
31 6 0.05
ACGTcount: A:0.35, C:0.26, G:0.02, T:0.38
Consensus pattern (30 bp):
ATTTTTACCCCCAAACTTTCAAAAATTAAC
Found at i:14999163 original size:30 final size:30
Alignment explanation
Indices: 14999127--14999223 Score: 112
Period size: 31 Copynumber: 3.2 Consensus size: 30
14999117 TCAAAAATTT
14999127 CATTTTTGACCCAAATTTTTCTAAAATTAC
1 CATTTTTGACCCAAATTTTTCTAAAATTAC
*
14999157 CATTTTT-ACCCCCAAAATTTT-TAAAATT-C
1 CATTTTTGA--CCCAAATTTTTCTAAAATTAC
14999186 CATTTTTGACCTC-AATTTTTCCCTAAAATTAC
1 CATTTTTGACC-CAAATTTTT--CTAAAATTAC
14999218 CATTTT
1 CATTTT
14999224 ACCCTCGAAT
Statistics
Matches: 57, Mismatches: 2, Indels: 14
0.78 0.03 0.19
Matches are distributed among these distances:
28 8 0.14
29 10 0.18
30 15 0.26
31 17 0.30
32 7 0.12
ACGTcount: A:0.31, C:0.23, G:0.02, T:0.44
Consensus pattern (30 bp):
CATTTTTGACCCAAATTTTTCTAAAATTAC
Found at i:14999190 original size:59 final size:57
Alignment explanation
Indices: 14999091--14999287 Score: 225
Period size: 59 Copynumber: 3.4 Consensus size: 57
14999081 TGAACTTCCA
* *
14999091 AAAATTACCATTTTACCCCCAAACTCTCAAAAATTTCATTTTTGACCCAAATTTTTCT
1 AAAATTACCATTTTACCCCCAAAATCTCTAAAATTTCATTTTTGACCC-AATTTTTCT
* * *
14999149 AAAATTACCATTTTTACCCCCAAAATTTTTAAAATTCCATTTTTGACCTCAATTTTTCCCT
1 AAAATTACCA-TTTTACCCCCAAAATCTCTAAAATTTCATTTTTGACC-CAATTTTT--CT
* * * * * *
14999210 AAAATTACCATTTTACCCTC-GAATGTCTAAAATTTCATTTTTAACCCTGAACTTTCCT
1 AAAATTACCATTTTACCCCCAAAATCTCTAAAATTTCATTTTTGACCC--AATTTTTCT
14999268 AAAATTACCATTTTACCCCC
1 AAAATTACCATTTTACCCCC
14999288 TCTCGAGTAT
Statistics
Matches: 119, Mismatches: 14, Indels: 12
0.82 0.10 0.08
Matches are distributed among these distances:
58 32 0.27
59 60 0.50
60 15 0.13
61 12 0.10
ACGTcount: A:0.32, C:0.26, G:0.03, T:0.39
Consensus pattern (57 bp):
AAAATTACCATTTTACCCCCAAAATCTCTAAAATTTCATTTTTGACCCAATTTTTCT
Found at i:14999206 original size:146 final size:147
Alignment explanation
Indices: 14998916--14999232 Score: 318
Period size: 146 Copynumber: 2.2 Consensus size: 147
14998906 GAACTTCCTA
14998916 AAAATTATATTTTAACCCTCGAACTTCCTAAAAATTACATTTTGACCCCAAAATATCCTAAAAAT
1 AAAATTATATTTTAACCCTCGAACTTCCTAAAAATTACATTTTGACCCCAAAATATCCTAAAAAT
* *
14998981 CATATTTTTACCCCCAAACTTCCTAAAAGTTACATTTTACCCCTAAACTTTCAAAATTACATTTT
66 CATATTTTGA-CCCCAAACTTCCTAAAAGTTACATTTTACCCCAAAACTTTCAAAATTACATTTT
14999046 TACTCCTAAATTTT-CC-
130 TACTCCTAAATTTTCCCT
* * *
14999062 AAAATTATATTTTTACCACT-GAACTTCC-AAAAATTACCATTTT-ACCCCCAAA-CT-CTCAAA
1 AAAATTATATTTTAACC-CTCGAACTTCCTAAAAATTA-CATTTTGACCCCAAAATATCCT-AAA
* * * *
14999122 AATTTCAT-TTTTGA-CCCAAATTTTTCTAAAA-TTACCATTTTTACCCCCAAAATTTTTAAAAT
63 AA--TCATATTTTGACCCCAAA-CTTCCTAAAAGTTA-CA-TTTTA-CCCCAAAACTTTCAAAAT
* *
14999184 TCCATTTTTGA--CCTCAATTTTTCCCT
122 TACATTTTT-ACTCCT-AAATTTTCCCT
*
14999210 AAAATTACCATTTT-ACCCTCGAA
1 AAAATTA-TATTTTAACCCTCGAA
14999233 TGTCTAAAAT
Statistics
Matches: 144, Mismatches: 12, Indels: 28
0.78 0.07 0.15
Matches are distributed among these distances:
143 11 0.08
144 16 0.11
145 29 0.20
146 63 0.44
147 7 0.05
148 13 0.09
149 5 0.03
ACGTcount: A:0.36, C:0.25, G:0.02, T:0.38
Consensus pattern (147 bp):
AAAATTATATTTTAACCCTCGAACTTCCTAAAAATTACATTTTGACCCCAAAATATCCTAAAAAT
CATATTTTGACCCCAAACTTCCTAAAAGTTACATTTTACCCCAAAACTTTCAAAATTACATTTTT
ACTCCTAAATTTTCCCT
Found at i:14999242 original size:28 final size:29
Alignment explanation
Indices: 14999207--14999285 Score: 92
Period size: 28 Copynumber: 2.7 Consensus size: 29
14999197 TCAATTTTTC
14999207 CCTAAAATTACCATTTTACCCTCGAA-TGT
1 CCTAAAATTACCATTTTACCCT-GAACTGT
* *
14999236 -CTAAAATT-TCATTTTTAACCCTGAACTTT
1 CCTAAAATTACCA-TTTT-ACCCTGAACTGT
14999265 CCTAAAATTACCATTTTACCC
1 CCTAAAATTACCATTTTACCC
14999286 CCTCTCGAGT
Statistics
Matches: 42, Mismatches: 3, Indels: 10
0.76 0.05 0.18
Matches are distributed among these distances:
27 2 0.05
28 15 0.36
29 11 0.26
30 12 0.29
31 2 0.05
ACGTcount: A:0.32, C:0.27, G:0.04, T:0.38
Consensus pattern (29 bp):
CCTAAAATTACCATTTTACCCTGAACTGT
Found at i:14999271 original size:30 final size:30
Alignment explanation
Indices: 14998872--14999273 Score: 107
Period size: 29 Copynumber: 13.7 Consensus size: 30
14998862 CCTTGAAAGT
* * *
14998872 CCCTAAACTGTCC-AAAAATT-ATATTTTGA
1 CCCTAAACTTTCCTAAAATTTCAT-TTTTAA
* *
14998901 CCCTCGAAC-TTCCTAAAAATT-ATATTTTAA
1 CCCT-AAACTTTCCTAAAATTTCAT-TTTTAA
* * *
14998931 CCCTCGAAC-TTCCTAAAAATTACA-TTTTGA
1 CCCT-AAACTTTCCT-AAAATTTCATTTTTAA
* * * * *
14998961 CCCCAAAATATCCTAAAA-ATCATATTTTTAC
1 CCCTAAACTTTCCTAAAATTTC--ATTTTTAA
* * *
14998992 CCCCAAAC-TTCCTAAAAGTTACA-TTTTAC
1 CCCTAAACTTTCCTAAAA-TTTCATTTTTAA
*
14999021 CCCTAAACTTT-C-AAAATTACATTTTT-A
1 CCCTAAACTTTCCTAAAATTTCATTTTTAA
*
14999048 CTCCTAAATTTTCC-AAAATTAT-ATTTTT-A
1 C-CCTAAACTTTCCTAAAATT-TCATTTTTAA
* * * *
14999077 CCACTGAAC-TTCCAAAAATTACCA-TTTTAC
1 CC-CTAAACTTTCCTAAAATT-TCATTTTTAA
* * * *
14999107 CCCCAAACTCT-CAAAAATTTCATTTTTGA
1 CCCTAAACTTTCCTAAAATTTCATTTTTAA
* * * *
14999136 CCC-AAATTTTTCTAAAATTACCATTTTTAC
1 CCCTAAACTTTCCTAAAATT-TCATTTTTAA
* * * * *
14999166 CCCCAAAATTT-TTAAAATTCCATTTTTGA
1 CCCTAAACTTTCCTAAAATTTCATTTTTAA
** *
14999195 -CCTCAATTTTTCCCTAAAATTACCA-TTTT-A
1 CCCT-AAACTTT-CCTAAAATT-TCATTTTTAA
* *
14999225 CCCTCGAA-TGT-CTAAAATTTCATTTTTAA
1 CCCT-AAACTTTCCTAAAATTTCATTTTTAA
*
14999254 CCCTGAACTTTCCTAAAATT
1 CCCTAAACTTTCCTAAAATT
14999274 ACCATTTTAC
Statistics
Matches: 289, Mismatches: 51, Indels: 65
0.71 0.13 0.16
Matches are distributed among these distances:
27 8 0.03
28 47 0.16
29 103 0.36
30 88 0.30
31 38 0.13
32 5 0.02
ACGTcount: A:0.35, C:0.25, G:0.03, T:0.38
Consensus pattern (30 bp):
CCCTAAACTTTCCTAAAATTTCATTTTTAA
Found at i:14999285 original size:29 final size:29
Alignment explanation
Indices: 14998872--14999285 Score: 196
Period size: 30 Copynumber: 14.1 Consensus size: 29
14998862 CCTTGAAAGT
* * * *
14998872 CCCTAAACTGTCCAAAAATTATATTTTGA
1 CCCTAAACTTTCCTAAAATTACATTTTTA
* * *
14998901 CCCTCGAAC-TTCCTAAAAATTATATTTTAA
1 CCCT-AAACTTTCCT-AAAATTACATTTTTA
* *
14998931 CCCTCGAAC-TTCCTAAAAATTACATTTTGA
1 CCCT-AAACTTTCCT-AAAATTACATTTTTA
* * * * *
14998961 CCCCAAAATATCCTAAAAATCATATTTTTA
1 CCCTAAACTTTCCT-AAAATTACATTTTTA
*
14998991 CCCCCAAAC-TTCCTAAAAGTTACA-TTTTA
1 -CCCTAAACTTTCCTAAAA-TTACATTTTTA
14999020 CCCCTAAACTTT-C-AAAATTACATTTTTA
1 -CCCTAAACTTTCCTAAAATTACATTTTTA
* *
14999048 CTCCTAAATTTTCC-AAAATTATATTTTTA
1 C-CCTAAACTTTCCTAAAATTACATTTTTA
* *
14999077 CCACTGAAC-TTCCAAAAATTACCA-TTTTA
1 CC-CTAAACTTTCCTAAAATTA-CATTTTTA
* * * *
14999106 CCCCCAAACTCT-CAAAAATTTCATTTTTGA
1 -CCCTAAACTTTCCTAAAATTACATTTTT-A
* *
14999136 CCC-AAATTTTTCTAAAATTACCATTTTTA
1 CCCTAAACTTTCCTAAAATTA-CATTTTTA
* * * *
14999165 CCCCCAAAATTT-TTAAAATTCCATTTTTGA
1 -CCCTAAACTTTCCTAAAATTACATTTTT-A
**
14999195 -CCTCAATTTTTCCCTAAAATTACCA-TTTTA
1 CCCT-AAACTTT-CCTAAAATTA-CATTTTTA
* * *
14999225 CCCTCGAA-TGT-CTAAAATTTCATTTTTAA
1 CCCT-AAACTTTCCTAAAATTACATTTTT-A
*
14999254 CCCTGAACTTTCCTAAAATTACCA-TTTTA
1 CCCTAAACTTTCCTAAAATTA-CATTTTTA
14999283 CCC
1 CCC
14999286 CCTCTCGAGT
Statistics
Matches: 309, Mismatches: 45, Indels: 62
0.74 0.11 0.15
Matches are distributed among these distances:
27 8 0.03
28 47 0.15
29 109 0.35
30 112 0.36
31 31 0.10
32 2 0.01
ACGTcount: A:0.35, C:0.25, G:0.03, T:0.37
Consensus pattern (29 bp):
CCCTAAACTTTCCTAAAATTACATTTTTA
Found at i:15004501 original size:5 final size:5
Alignment explanation
Indices: 15004491--15004538 Score: 57
Period size: 5 Copynumber: 10.2 Consensus size: 5
15004481 ATAAATAAAT
* *
15004491 AAAGA AAAGA AAAGA AAAGA AAA-A AGAGA AAA-A AGA-A AAAGA AAAGA
1 AAAGA AAAGA AAAGA AAAGA AAAGA AAAGA AAAGA AAAGA AAAGA AAAGA
15004538 A
1 A
15004539 GAGGTCGAGG
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
4 9 0.24
5 28 0.76
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (5 bp):
AAAGA
Found at i:15005603 original size:48 final size:49
Alignment explanation
Indices: 15005344--15005755 Score: 409
Period size: 48 Copynumber: 8.4 Consensus size: 49
15005334 GTTAATGGTA
* * *
15005344 GATCCAGTACCACAAAAACACAAAGGGAAAGATCTAAGACCACAACGGCG
1 GATCCAGTACCACGAAGACAC-AAGGGAAAGATCTAAGACCGCAACGGCG
* * * * * * *
15005394 GATCCAGTACCGCGAAGACACTAGAGAAAGATCTAAG-CCACGACGACT
1 GATCCAGTACCACGAAGACACAAGGGAAAGATCTAAGACCGCAACGGCG
* * * **
15005442 GATCCAGTACCACAAAGATACAGAAGGCAAAGATCTAAGACCGCAACGGTA
1 GATCCAGTACCACGAAG--ACACAAGGGAAAGATCTAAGACCGCAACGGCG
* * ** *
15005493 GATCCAGTACCACAAAGATACAGAAGGGAAAGATCTAAGACCATAACGGCA
1 GATCCAGTACCACGAAG--ACACAAGGGAAAGATCTAAGACCGCAACGGCG
* * * *
15005544 GATCCAATACCACGAACACACAAGGGAAAGATCTAAG-CCGCGATGGCG
1 GATCCAGTACCACGAAGACACAAGGGAAAGATCTAAGACCGCAACGGCG
* * * * *
15005592 GATCCAGTACCACAAAAACACGACGGGCAAGATCTAAGACCGCAACGACG
1 GATCCAGTACCACGAAGACAC-AAGGGAAAGATCTAAGACCGCAACGGCG
* * * *
15005642 GATCCAGTACCGCGAAGACACAAAGGAAAGATCTAAG-TCGCGACGGCG
1 GATCCAGTACCACGAAGACACAAGGGAAAGATCTAAGACCGCAACGGCG
* * * *
15005690 GATCCAGTATCACGAAGACACAAAGGAAAGATCTAAG-CCGCAATGACG
1 GATCCAGTACCACGAAGACACAAGGGAAAGATCTAAGACCGCAACGGCG
15005738 GATCCAGTACCACGAAGA
1 GATCCAGTACCACGAAGA
15005756 TTTGAAGGGA
Statistics
Matches: 301, Mismatches: 56, Indels: 12
0.82 0.15 0.03
Matches are distributed among these distances:
48 114 0.38
49 60 0.20
50 60 0.20
51 67 0.22
ACGTcount: A:0.41, C:0.25, G:0.23, T:0.11
Consensus pattern (49 bp):
GATCCAGTACCACGAAGACACAAGGGAAAGATCTAAGACCGCAACGGCG
Found at i:15005646 original size:98 final size:98
Alignment explanation
Indices: 15005344--15005753 Score: 407
Period size: 98 Copynumber: 4.2 Consensus size: 98
15005334 GTTAATGGTA
* * * *
15005344 GATCCAGTACCACAAAAACACAAAGGGAAAGATCTAAGACCACAACGGCGGATCCAGTACCGCGA
1 GATCCAGTACCACGAAAACAC-AAGGGAAAGATCTAAGACCGCAACGGCGGATCCAGTACCACAA
* * * * *
15005409 AGACAC-TAGAGAAAGATCTAAGCCACGACGACT
65 AAACACGAAGGGAAAGATCTAAGCCACAACGACG
* * * **
15005442 GATCCAGTACCACAAAGATACAGAAGGCAAAGATCTAAGACCGCAACGGTAGATCCAGTACCACA
1 GATCCAGTACCACGAA-A-ACACAAGGGAAAGATCTAAGACCGCAACGGCGGATCCAGTACCACA
* * *
15005507 AAGATACA-GAAGGGAAAGATCTAAGACCATAACGGCA
64 AA-A-ACACGAAGGGAAAGATCTAAG-CCACAACGACG
* * * *
15005544 GATCCAATACCACGAACACACAAGGGAAAGATCTAAG-CCGCGATGGCGGATCCAGTACCACAAA
1 GATCCAGTACCACGAAAACACAAGGGAAAGATCTAAGACCGCAACGGCGGATCCAGTACCACAAA
* * *
15005608 AACACGACGGGCAAGATCTAAGACCGCAACGACG
66 AACACGAAGGGAAAGATCTAAG-CCACAACGACG
* * * * * * *
15005642 GATCCAGTACCGCGAAGACACAAAGGAAAGATCTAAG-TCGCGACGGCGGATCCAGTATCACGAA
1 GATCCAGTACCACGAAAACACAAGGGAAAGATCTAAGACCGCAACGGCGGATCCAGTACCACAAA
* * * *
15005706 GACAC-AAAGGAAAGATCTAAGCCGCAATGACG
66 AACACGAAGGGAAAGATCTAAGCCACAACGACG
15005738 GATCCAGTACCACGAA
1 GATCCAGTACCACGAA
15005754 GATTTGAAGG
Statistics
Matches: 262, Mismatches: 43, Indels: 16
0.82 0.13 0.05
Matches are distributed among these distances:
96 25 0.10
97 16 0.06
98 100 0.38
99 62 0.24
100 21 0.08
101 17 0.06
102 21 0.08
ACGTcount: A:0.41, C:0.26, G:0.23, T:0.11
Consensus pattern (98 bp):
GATCCAGTACCACGAAAACACAAGGGAAAGATCTAAGACCGCAACGGCGGATCCAGTACCACAAA
AACACGAAGGGAAAGATCTAAGCCACAACGACG
Found at i:15006132 original size:103 final size:103
Alignment explanation
Indices: 15005871--15006134 Score: 426
Period size: 103 Copynumber: 2.6 Consensus size: 103
15005861 GATCAGATAA
* * **
15005871 AAAAATAATAACAAGTTTTTATCTCTCTGAAGTTGTAGTAAGAGCAAGATGAAGC-TTTAAACAT
1 AAAAATAATAGCAAGTCTTTATCTCTCTGAAGTTGTAGTAAGAGCAAGATGAAGCATCAAAACAT
*
15005935 CAATTCCTATCCTCTTGAAGTTGCAGTAAAGTTGGATT
66 CAATTCCTATCCTCTTGAAATTGCAGTAAAGTTGGATT
* *
15005973 --AAACAATAGCAAGTCTTTATTTCTCTGAAGTTGTAGTAAGAGCAAGATGAAGCATCAAAACAT
1 AAAAATAATAGCAAGTCTTTATCTCTCTGAAGTTGTAGTAAGAGCAAGATGAAGCATCAAAACAT
*
15006036 CAATTTCTATCCTCTTGAAATTGCAGTAAAGTTGGATT
66 CAATTCCTATCCTCTTGAAATTGCAGTAAAGTTGGATT
*
15006074 AAAAATAATAGCAAGTCTTTATCTCTCTGAAGTTGTAGTAAGAGCAAGATGAAACATCAAA
1 AAAAATAATAGCAAGTCTTTATCTCTCTGAAGTTGTAGTAAGAGCAAGATGAAGCATCAAA
15006135 CCTTATTTTT
Statistics
Matches: 148, Mismatches: 11, Indels: 5
0.90 0.07 0.03
Matches are distributed among these distances:
100 49 0.33
101 43 0.29
103 56 0.38
ACGTcount: A:0.38, C:0.14, G:0.17, T:0.31
Consensus pattern (103 bp):
AAAAATAATAGCAAGTCTTTATCTCTCTGAAGTTGTAGTAAGAGCAAGATGAAGCATCAAAACAT
CAATTCCTATCCTCTTGAAATTGCAGTAAAGTTGGATT
Found at i:15006455 original size:78 final size:77
Alignment explanation
Indices: 15006212--15006468 Score: 291
Period size: 78 Copynumber: 3.3 Consensus size: 77
15006202 AGTGAAGTTA
* * **
15006212 CATCATCAACCAATCTATTACCCCGAGCTTGGGGCAGGTTGCAACCATTTGATCTTTTACCCCTG
1 CATCATCAACCAATCTCTTACCCCGAGC-TGGGGCAGATTGCAACCATTTGATCTTTTACCCCAA
*
15006277 GCCTGGGACAGAT
65 GCCTGGGGCAGAT
* * * * **
15006290 CATCATCAACCAATCTCTTACCCCGAGCCT-GGGCAAATTGTAACCATTTAATCTTTTATCCGGA
1 CATCATCAACCAATCTCTTACCCCGAG-CTGGGGCAGATTGCAACCATTTGATCTTTTACCCCAA
*
15006354 GCTTGGGGCAGAT
65 GCCTGGGGCAGAT
** * ** * *
15006367 CATTGTCAACCAATCTCTTACCCCGAGCTAGGGGCAGATTACAGTCATTCGATCTCTTACCCCAA
1 CATCATCAACCAATCTCTTACCCCGAGCT-GGGGCAGATTGCAACCATTTGATCTTTTACCCCAA
15006432 GCCTGGGGCAGAT
65 GCCTGGGGCAGAT
*
15006445 CACCATCAACCAATCTCCTTACCC
1 CATCATCAACCAATCT-CTTACCC
15006469 TGATCACGGG
Statistics
Matches: 147, Mismatches: 28, Indels: 7
0.81 0.15 0.04
Matches are distributed among these distances:
76 2 0.01
77 62 0.42
78 75 0.51
79 8 0.05
ACGTcount: A:0.25, C:0.31, G:0.18, T:0.26
Consensus pattern (77 bp):
CATCATCAACCAATCTCTTACCCCGAGCTGGGGCAGATTGCAACCATTTGATCTTTTACCCCAAG
CCTGGGGCAGAT
Found at i:15006461 original size:39 final size:39
Alignment explanation
Indices: 15006212--15006468 Score: 152
Period size: 39 Copynumber: 6.6 Consensus size: 39
15006202 AGTGAAGTTA
* * *
15006212 CATCATCAACCAATCTATTACCCCGAGCTTGGGGCAGGT
1 CATCATCAACCAATCTCTTACCCCGAGCCTGGGGCAGAT
* * *
15006251 --T--GCAACCATTTGATCTTTTACCCCTG-GCCTGGGACAGAT
1 CATCATCAACCA----ATCTCTTACCCC-GAGCCTGGGGCAGAT
*
15006290 CATCATCAACCAATCTCTTACCCCGAGCCT-GGGCAAAT
1 CATCATCAACCAATCTCTTACCCCGAGCCTGGGGCAGAT
** * * *** * * * *
15006328 TGTAACCATTTAATCTTTTATCCGGAGCTTGGGGCAGAT
1 CATCATCAACCAATCTCTTACCCCGAGCCTGGGGCAGAT
**
15006367 CATTGTCAACCAATCTCTTACCCCGAG-CTAGGGGCAGAT
1 CATCATCAACCAATCTCTTACCCCGAGCCT-GGGGCAGAT
* ** * *
15006406 TA-CAGTCATTCGATCTCTTACCCCAAGCCTGGGGCAGAT
1 CATCA-TCAACCAATCTCTTACCCCGAGCCTGGGGCAGAT
*
15006445 CACCATCAACCAATCTCCTTACCC
1 CATCATCAACCAATCT-CTTACCC
15006469 TGATCACGGG
Statistics
Matches: 158, Mismatches: 44, Indels: 31
0.68 0.19 0.13
Matches are distributed among these distances:
35 6 0.04
37 1 0.01
38 27 0.17
39 105 0.66
40 12 0.08
41 1 0.01
43 6 0.04
ACGTcount: A:0.25, C:0.31, G:0.18, T:0.26
Consensus pattern (39 bp):
CATCATCAACCAATCTCTTACCCCGAGCCTGGGGCAGAT
Found at i:15006856 original size:206 final size:206
Alignment explanation
Indices: 15006557--15007362 Score: 1059
Period size: 206 Copynumber: 3.9 Consensus size: 206
15006547 AAGGCTCAAA
* * * *
15006557 GTGAGCAAATCTTCAAACCCTAGCTTCCTGATGAGATATTGAGAAGCAGGTCGAAGTAATAAAAT
1 GTGAGCAAATCTTCAAACCCCAACTTCCTGATGAGATACTGAGAAGCAGGTCGAAGCAATAAAAT
* *
15006622 GGTTAGCTTCCTGAGGAGATACTGAGAAGTGGACCAAATTCGTCTTCCTGATGAGATACAGAGAA
66 GGTTAGCTTCCTGATGAGACACTGAGAAGTGGACCAAATTCGTCTTCCTGATGAGATACAGAGAA
15006687 GCAGATTGAAACAAATGATGCGGTCATCTTCCTGATGAGATACTAAGAAGAAGACCAAATCAAAC
131 GCAGATTGAAACAAATGATGCGGTCATCTTCCTGATGAGATACTAAGAAGAAGACCAAATCAAAC
15006752 CCACGCTCGAT
196 CCACGCTCGAT
* * * * *
15006763 GTGAGCAAATCTTCGAACCCCAGCTTCTTGATGAGATACTGAGAAGCCGGTCGAAGTAATAAAAT
1 GTGAGCAAATCTTCAAACCCCAACTTCCTGATGAGATACTGAGAAGCAGGTCGAAGCAATAAAAT
* * *
15006828 GGTCAGCTTCCTGATGAGACATTGAGAAGTGGACCAAATTCGTCTTCCTGATGAGGTACAGAGAA
66 GGTTAGCTTCCTGATGAGACACTGAGAAGTGGACCAAATTCGTCTTCCTGATGAGATACAGAGAA
* * ** * * * * *
15006893 GCGGATTGAAACAAACGGGGCCGTTATCTTCCTGATGAGATAC-AGAGAAGTATACCAACTC--A
131 GCAGATTGAAACAAATGATGCGGTCATCTTCCTGATGAGATACTA-AGAAGAAGACCAAATCAAA
**
15006955 ---GGGCTCGAT
195 CCCACGCTCGAT
* * *
15006964 GTGAGCAAATCTTCGAACCCCAACTTTCTGATGAGATACTGAGAAACAGGTCGAAGCAATAAAAT
1 GTGAGCAAATCTTCAAACCCCAACTTCCTGATGAGATACTGAGAAGCAGGTCGAAGCAATAAAAT
** *
15007029 GGTTAGCTTTTTGATGAGATACTGAGAAGTGGACCAAATTCGTCTTCCTGATGAGATACAGAGAA
66 GGTTAGCTTCCTGATGAGACACTGAGAAGTGGACCAAATTCGTCTTCCTGATGAGATACAGAGAA
* *
15007094 GCAGATTGAAACAAGTGATGCGGTCATCTTCTTGATGAGATACTAAGAAGAAGACCAAATCAAAC
131 GCAGATTGAAACAAATGATGCGGTCATCTTCCTGATGAGATACTAAGAAGAAGACCAAATCAAAC
15007159 CCACGCTCGAT
196 CCACGCTCGAT
* * *
15007170 GTGGGCAAATTTTCAAACCTCAACTTCCTGATGAGATACTGAGAAGCAGGTCGAAGCAATAAAAT
1 GTGAGCAAATCTTCAAACCCCAACTTCCTGATGAGATACTGAGAAGCAGGTCGAAGCAATAAAAT
* * * * * * * *
15007235 GGTTAGCTGCCTGATGAGACACGGAGAAGTGAATCAAATCCGTCTTCTTGATGAAACACAGAGAA
66 GGTTAGCTTCCTGATGAGACACTGAGAAGTGGACCAAATTCGTCTTCCTGATGAGATACAGAGAA
** * * * * * * * *
15007300 GTGGA-TCACAACAAGTGATGCGATCATCTTCTTGATGAGATAATGAGAAGAAGGCCAAGTCAA
131 GCAGATTGA-AACAAATGATGCGGTCATCTTCCTGATGAGATACTAAGAAGAAGACCAAATCAA
15007363 TGAAACCAGA
Statistics
Matches: 521, Mismatches: 71, Indels: 16
0.86 0.12 0.03
Matches are distributed among these distances:
201 173 0.33
202 1 0.00
203 1 0.00
204 1 0.00
205 3 0.01
206 342 0.66
ACGTcount: A:0.34, C:0.19, G:0.24, T:0.23
Consensus pattern (206 bp):
GTGAGCAAATCTTCAAACCCCAACTTCCTGATGAGATACTGAGAAGCAGGTCGAAGCAATAAAAT
GGTTAGCTTCCTGATGAGACACTGAGAAGTGGACCAAATTCGTCTTCCTGATGAGATACAGAGAA
GCAGATTGAAACAAATGATGCGGTCATCTTCCTGATGAGATACTAAGAAGAAGACCAAATCAAAC
CCACGCTCGAT
Found at i:15007281 original size:407 final size:407
Alignment explanation
Indices: 15006511--15007288 Score: 1277
Period size: 407 Copynumber: 1.9 Consensus size: 407
15006501 GGAGGCGGTC
15006511 ATCTTCCTGATGAGATACAGAGAAGTATACCAACTCAAGGCTCAAAGTGAGCAAATCTTCAAACC
1 ATCTTCCTGATGAGATACAGAGAAGTATACCAACTCAAGGCTCAAAGTGAGCAAATCTTCAAACC
* * * * *
15006576 CTAGCTTCCTGATGAGATATTGAGAAGCAGGTCGAAGTAATAAAATGGTTAGCTTCCTGAGGAGA
66 CCAACTTCCTGATGAGATACTGAGAAACAGGTCGAAGCAATAAAATGGTTAGCTTCCTGAGGAGA
15006641 TACTGAGAAGTGGACCAAATTCGTCTTCCTGATGAGATACAGAGAAGCAGATTGAAACAAATGAT
131 TACTGAGAAGTGGACCAAATTCGTCTTCCTGATGAGATACAGAGAAGCAGATTGAAACAAATGAT
15006706 GCGGTCATCTTCCTGATGAGATACTAAGAAGAAGACCAAATCAAACCCACGCTCGATGTGAGCAA
196 GCGGTCATCTTCCTGATGAGATACTAAGAAGAAGACCAAATCAAACCCACGCTCGATGTGAGCAA
* * * * *
15006771 ATCTTCGAACCCCAGCTTCTTGATGAGATACTGAGAAGCCGGTCGAAGTAATAAAATGGTCAGCT
261 ATCTTCAAACCCCAACTTCCTGATGAGATACTGAGAAGCAGGTCGAAGCAATAAAATGGTCAGCT
* ** * *
15006836 TCCTGATGAGACATTGAGAAGTGGACCAAATTCGTCTTCCTGATGAGGTACAGAGAAGCGGATTG
326 GCCTGATGAGACACGGAGAAGTGAACCAAATCCGTCTTCCTGATGAGGTACAGAGAAGCGGATTG
15006901 AAACAAACGGGGCCGTT
391 AAACAAACGGGGCCGTT
* * * *
15006918 ATCTTCCTGATGAGATACAGAGAAGTATACCAACTCAGGGCTCGATGTGAGCAAATCTTCGAACC
1 ATCTTCCTGATGAGATACAGAGAAGTATACCAACTCAAGGCTCAAAGTGAGCAAATCTTCAAACC
* ** *
15006983 CCAACTTTCTGATGAGATACTGAGAAACAGGTCGAAGCAATAAAATGGTTAGCTTTTTGATGAGA
66 CCAACTTCCTGATGAGATACTGAGAAACAGGTCGAAGCAATAAAATGGTTAGCTTCCTGAGGAGA
*
15007048 TACTGAGAAGTGGACCAAATTCGTCTTCCTGATGAGATACAGAGAAGCAGATTGAAACAAGTGAT
131 TACTGAGAAGTGGACCAAATTCGTCTTCCTGATGAGATACAGAGAAGCAGATTGAAACAAATGAT
* *
15007113 GCGGTCATCTTCTTGATGAGATACTAAGAAGAAGACCAAATCAAACCCACGCTCGATGTGGGCAA
196 GCGGTCATCTTCCTGATGAGATACTAAGAAGAAGACCAAATCAAACCCACGCTCGATGTGAGCAA
* * *
15007178 ATTTTCAAACCTCAACTTCCTGATGAGATACTGAGAAGCAGGTCGAAGCAATAAAATGGTTAGCT
261 ATCTTCAAACCCCAACTTCCTGATGAGATACTGAGAAGCAGGTCGAAGCAATAAAATGGTCAGCT
* *
15007243 GCCTGATGAGACACGGAGAAGTGAATCAAATCCGTCTTCTTGATGA
326 GCCTGATGAGACACGGAGAAGTGAACCAAATCCGTCTTCCTGATGA
15007289 AACACAGAGA
Statistics
Matches: 340, Mismatches: 31, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
407 340 1.00
ACGTcount: A:0.34, C:0.19, G:0.23, T:0.23
Consensus pattern (407 bp):
ATCTTCCTGATGAGATACAGAGAAGTATACCAACTCAAGGCTCAAAGTGAGCAAATCTTCAAACC
CCAACTTCCTGATGAGATACTGAGAAACAGGTCGAAGCAATAAAATGGTTAGCTTCCTGAGGAGA
TACTGAGAAGTGGACCAAATTCGTCTTCCTGATGAGATACAGAGAAGCAGATTGAAACAAATGAT
GCGGTCATCTTCCTGATGAGATACTAAGAAGAAGACCAAATCAAACCCACGCTCGATGTGAGCAA
ATCTTCAAACCCCAACTTCCTGATGAGATACTGAGAAGCAGGTCGAAGCAATAAAATGGTCAGCT
GCCTGATGAGACACGGAGAAGTGAACCAAATCCGTCTTCCTGATGAGGTACAGAGAAGCGGATTG
AAACAAACGGGGCCGTT
Found at i:15007741 original size:6 final size:6
Alignment explanation
Indices: 15007732--15007780 Score: 55
Period size: 6 Copynumber: 8.3 Consensus size: 6
15007722 GAATTTGTTC
* ** *
15007732 TAAATT TAAATT CATTTT TAAATT TAAATT T-ACTT TAAATT TAAATT
1 TAAATT TAAATT TAAATT TAAATT TAAATT TAAATT TAAATT TAAATT
15007779 TA
1 TA
15007781 TTGTAAATTA
Statistics
Matches: 34, Mismatches: 8, Indels: 2
0.77 0.18 0.05
Matches are distributed among these distances:
5 4 0.12
6 30 0.88
ACGTcount: A:0.43, C:0.04, G:0.00, T:0.53
Consensus pattern (6 bp):
TAAATT
Found at i:15007743 original size:17 final size:15
Alignment explanation
Indices: 15007695--15007794 Score: 58
Period size: 17 Copynumber: 6.0 Consensus size: 15
15007685 CTGCGTCCAA
*
15007695 TTTTT-AATTTTAAT
1 TTTTTAAATTTAAAT
* *
15007709 TTACTTTAAGTTTGAAT
1 TT--TTTAAATTTAAAT
15007726 TTGTTCTAAATTTAAATT
1 TT-TT-TAAATTTAAA-T
15007744 CATTTTTAAATTTAAAT
1 --TTTTTAAATTTAAAT
15007761 TTACTTTAAATTTAAAT
1 TT--TTTAAATTTAAAT
*
15007778 TTATTGTAAATTAAAAT
1 TT-TT-TAAATTTAAAT
15007795 AAAATGTCCA
Statistics
Matches: 69, Mismatches: 7, Indels: 17
0.74 0.08 0.18
Matches are distributed among these distances:
14 2 0.03
15 2 0.03
16 7 0.10
17 43 0.62
18 11 0.16
19 2 0.03
20 2 0.03
ACGTcount: A:0.37, C:0.04, G:0.04, T:0.55
Consensus pattern (15 bp):
TTTTTAAATTTAAAT
Found at i:15007755 original size:18 final size:17
Alignment explanation
Indices: 15007732--15007778 Score: 67
Period size: 17 Copynumber: 2.7 Consensus size: 17
15007722 GAATTTGTTC
*
15007732 TAAATTTAAATTCATTTT
1 TAAATTTAAATTCA-CTT
*
15007750 TAAATTTAAATTTACTT
1 TAAATTTAAATTCACTT
15007767 TAAATTTAAATT
1 TAAATTTAAATT
15007779 TATTGTAAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
17 14 0.52
18 13 0.48
ACGTcount: A:0.43, C:0.04, G:0.00, T:0.53
Consensus pattern (17 bp):
TAAATTTAAATTCACTT
Found at i:15007779 original size:52 final size:51
Alignment explanation
Indices: 15007694--15007794 Score: 139
Period size: 52 Copynumber: 2.0 Consensus size: 51
15007684 ACTGCGTCCA
* * * * *
15007694 ATTTTTAATTTTAATTTACTTTAAGTTTGAATTTGTTCTAAATTTAAATTC
1 ATTTTTAATTTAAATTTACTTTAAATTTAAATTTATTCTAAATTAAAATTC
*
15007745 ATTTTTAAATTTAAATTTACTTTAAATTTAAATTTATTGTAAATTAAAAT
1 ATTTTT-AATTTAAATTTACTTTAAATTTAAATTTATTCTAAATTAAAAT
15007795 AAAATGTCCA
Statistics
Matches: 43, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
51 6 0.14
52 37 0.86
ACGTcount: A:0.38, C:0.04, G:0.04, T:0.54
Consensus pattern (51 bp):
ATTTTTAATTTAAATTTACTTTAAATTTAAATTTATTCTAAATTAAAATTC
Found at i:15009561 original size:58 final size:58
Alignment explanation
Indices: 15009433--15009625 Score: 182
Period size: 58 Copynumber: 3.3 Consensus size: 58
15009423 GAACTTCTTG
* ** * *
15009433 AAAATTACA-TTTT-ACCCCTAAACTTTCAAAAATTACATTTTAACCCTTAAACTTTTA
1 AAAATTACATTTTTAACCTCTAAACTTTTTAAAATTACATTTTTACCC-TAAACTTTCA
* *
15009490 AAAATTACATTTTT-ACCTCTAAACTTTTTAAAATTACATTTTTACCACTGAACTTTCC
1 AAAATTACATTTTTAACCTCTAAACTTTTTAAAATTACATTTTTACC-CTAAACTTTCA
* * ** *
15009548 AAAATTCCATTTTTGACC-C-AGATTTTTTTAAAATTACCTTTTTACCCTCAAAC-TTCTA
1 AAAATTACATTTTTAACCTCTA-AACTTTTTAAAATTACATTTTTACCCT-AAACTTTC-A
*
15009606 AAAATTCCATTTTTAACCTC
1 AAAATTACATTTTTAACCTC
15009626 GATTTTTCCC
Statistics
Matches: 115, Mismatches: 14, Indels: 12
0.82 0.10 0.09
Matches are distributed among these distances:
57 15 0.13
58 95 0.83
59 5 0.04
ACGTcount: A:0.35, C:0.22, G:0.02, T:0.41
Consensus pattern (58 bp):
AAAATTACATTTTTAACCTCTAAACTTTTTAAAATTACATTTTTACCCTAAACTTTCA
Found at i:15009581 original size:87 final size:86
Alignment explanation
Indices: 15009401--15009620 Score: 230
Period size: 87 Copynumber: 2.5 Consensus size: 86
15009391 CCAAAATTCC
* * * * *
15009401 TAAAAATTATATTTTGACCCTCGAACTTCTTGAAAATTACA-TTTTACCCCTAAACTTTCAAAAA
1 TAAAAATTACATTTTTACCCTCAAACTT-TTAAAAATTACATTTTTACCACTAAACTTTCAAAAA
15009465 TTACATTTTAACCCTTAAACTTT
65 TTACATTTTAACCC-TAAACTTT
* * *
15009488 TAAAAATTACATTTTTA-CCTCTAAACTTTTTAAAATTACATTTTTACCACTGAACTTTCCAAAA
1 TAAAAATTACATTTTTACCCTC-AAACTTTTAAAAATTACATTTTTACCACTAAACTTTCAAAAA
* * **
15009552 TTCCATTTTTGACCC-AGATTTTT
65 TTACA-TTTTAACCCTA-AACTTT
* * * *
15009575 TTAAAATTACCTTTTTACCCTCAAACTTCTAAAAATTCCATTTTTA
1 TAAAAATTACATTTTTACCCTCAAACTTTTAAAAATTACATTTTTA
15009621 ACCTCGATTT
Statistics
Matches: 112, Mismatches: 16, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
86 16 0.14
87 84 0.75
88 12 0.11
ACGTcount: A:0.35, C:0.20, G:0.03, T:0.42
Consensus pattern (86 bp):
TAAAAATTACATTTTTACCCTCAAACTTTTAAAAATTACATTTTTACCACTAAACTTTCAAAAAT
TACATTTTAACCCTAAACTTT
Found at i:15009609 original size:29 final size:29
Alignment explanation
Indices: 15009363--15009625 Score: 164
Period size: 29 Copynumber: 9.0 Consensus size: 29
15009353 GGAGGTCCCA
* * * *
15009363 AAACTGTCAAAAAATTATATTTTGACCCCC
1 AAACT-TCTAAAAATTACATTTTTACCCTC
* * *
15009393 AAAATTCCTAAAAATTATATTTTGACCCTC
1 AAACTT-CTAAAAATTACATTTTTACCCTC
* *
15009423 GAACTTCTTGAAAATTACA-TTTTACCC-C
1 AAACTTC-TAAAAATTACATTTTTACCCTC
* *
15009451 TAAACTT-TCAAAAATTACATTTTAACCCTT
1 -AAACTTCT-AAAAATTACATTTTTACCCTC
*
15009481 AAACTTTTAAAAATTACATTTTTA-CCTC
1 AAACTTCTAAAAATTACATTTTTACCCTC
* *
15009509 TAAACTTTTTAAAATTACATTTTTACCACT-
1 -AAACTTCTAAAAATTACATTTTTACC-CTC
* * *
15009539 GAACTT-TCCAAAATTCCATTTTTGA-CC-C
1 AAACTTCT-AAAAATTACATTTTT-ACCCTC
** * * *
15009567 AGATTTTTTTAAAATTACCTTTTTACCCTC
1 A-AACTTCTAAAAATTACATTTTTACCCTC
* *
15009597 AAACTTCTAAAAATTCCATTTTTAACCTC
1 AAACTTCTAAAAATTACATTTTTACCCTC
15009626 GATTTTTCCC
Statistics
Matches: 185, Mismatches: 31, Indels: 35
0.74 0.12 0.14
Matches are distributed among these distances:
27 1 0.01
28 16 0.09
29 122 0.66
30 44 0.24
31 2 0.01
ACGTcount: A:0.36, C:0.22, G:0.03, T:0.40
Consensus pattern (29 bp):
AAACTTCTAAAAATTACATTTTTACCCTC
Found at i:15009630 original size:58 final size:58
Alignment explanation
Indices: 15009461--15009682 Score: 206
Period size: 58 Copynumber: 3.8 Consensus size: 58
15009451 TAAACTTTCA
* * * **
15009461 AAAATTACATTTTAACCCTTAAACTTTTAAAAATTACATTTTT-ACCTCTA-AACTTTTT
1 AAAATTACATTTTTACCCTCAAAC-TTTAAAAATTCCATTTTTAACCTC-AGATTTTTTT
* * *
15009519 AAAATTACATTTTTACCACT-GAACTTTCCAAAATTCCATTTTTGACC-CAGATTTTTTT
1 AAAATTACATTTTTACC-CTCAAACTTT-AAAAATTCCATTTTTAACCTCAGATTTTTTT
* **
15009577 AAAATTACCTTTTTACCCTCAAACTTCTAAAAATTCCATTTTTAACCTC-GATTTTTCCCA
1 AAAATTACATTTTTACCCTCAAACTT-TAAAAATTCCATTTTTAACCTCAGATTTTT--TT
*
15009637 AAAATTACCA-TTTTACCCTCAAA-TGTTTAAAATTCCATTTTTAACC
1 AAAATTA-CATTTTTACCCTCAAACT-TTAAAAATTCCATTTTTAACC
15009683 CTGAACTTTC
Statistics
Matches: 139, Mismatches: 14, Indels: 21
0.80 0.08 0.12
Matches are distributed among these distances:
57 6 0.04
58 84 0.60
59 27 0.19
60 21 0.15
61 1 0.01
ACGTcount: A:0.34, C:0.22, G:0.02, T:0.42
Consensus pattern (58 bp):
AAAATTACATTTTTACCCTCAAACTTTAAAAATTCCATTTTTAACCTCAGATTTTTTT
Found at i:15009634 original size:87 final size:90
Alignment explanation
Indices: 15009401--15009650 Score: 209
Period size: 87 Copynumber: 2.8 Consensus size: 90
15009391 CCAAAATTCC
* * * * * *
15009401 TAAAAATTATATTTTGACC-CTCGAACTTCTTGAAAATTACA-TTTTACCCCTAAACTTT--CAA
1 TAAAAATTACATTTTTACCTCT-AAACTTC-TAAAAATTACATTTTTACCACTGAACTTTCCCAA
* **
15009462 AAATTA-CA-TTTTAACCCTTA-AACTTT
64 AAATTACCATTTTTGACCC--AGATTTTT
* *
15009488 TAAAAATTACATTTTTACCTCTAAACTTTTTAAAATTACATTTTTACCACTGAACTTT-CC-AAA
1 TAAAAATTACATTTTTACCTCTAAACTTCTAAAAATTACATTTTTACCACTGAACTTTCCCAAAA
15009551 ATT-CCATTTTTGACCCAGATTTTT
66 ATTACCATTTTTGACCCAGATTTTT
* * * * **
15009575 TTAAAATTACCTTTTTACC-CTCAAACTTCTAAAAATTCCATTTTTAAC-CTCGATTTTTCCCAA
1 TAAAAATTACATTTTTACCTCT-AAACTTCTAAAAATTACATTTTTACCACT-GAACTTTCCCAA
15009638 AAATTACCATTTT
64 AAATTACCATTTT
15009651 ACCCTCAAAT
Statistics
Matches: 134, Mismatches: 18, Indels: 19
0.78 0.11 0.11
Matches are distributed among these distances:
86 15 0.11
87 93 0.69
88 13 0.10
89 6 0.04
90 7 0.05
ACGTcount: A:0.34, C:0.21, G:0.03, T:0.42
Consensus pattern (90 bp):
TAAAAATTACATTTTTACCTCTAAACTTCTAAAAATTACATTTTTACCACTGAACTTTCCCAAAA
ATTACCATTTTTGACCCAGATTTTT
Found at i:15009684 original size:29 final size:27
Alignment explanation
Indices: 15009461--15009684 Score: 112
Period size: 29 Copynumber: 7.7 Consensus size: 27
15009451 TAAACTTTCA
* * *
15009461 AAAATTACATTTTAACCCTTAAACTTTT
1 AAAATTCCATTTTTACCCTCAAA-TTTT
*
15009489 AAAAATTACATTTTTA-CCTCTAAACTTTTT
1 -AAAATTCCATTTTTACCCTC-AAA--TTTT
* * * *
15009519 AAAATTACATTTTTACCACTGAACTTTCC
1 AAAATTCCATTTTTACC-CTCAAATTT-T
** **
15009548 AAAATTCCATTTTTGACCCAGATTTTTTT
1 AAAATTCCATTTTT-ACCCTCA-AATTTT
*
15009577 AAAATTACC-TTTTTACCCTCAAACTTCTA
1 AAAATT-CCATTTTTACCCTCAAA-TT-TT
* * *
15009606 AAAATTCCATTTTTAACCTCGATTTTT
1 AAAATTCCATTTTTACCCTCAAATTTT
15009633 CCCAAAAATTACCA-TTTTACCCTCAAATGTTT
1 ----AAAATT-CCATTTTTACCCTCAAAT-TTT
15009665 AAAATTCCATTTTTAACCCT
1 AAAATTCCATTTTT-ACCCT
15009685 GAACTTTCCC
Statistics
Matches: 153, Mismatches: 23, Indels: 38
0.71 0.11 0.18
Matches are distributed among these distances:
27 4 0.03
28 27 0.18
29 82 0.54
30 15 0.10
31 19 0.12
32 6 0.04
ACGTcount: A:0.34, C:0.22, G:0.02, T:0.42
Consensus pattern (27 bp):
AAAATTCCATTTTTACCCTCAAATTTT
Found at i:15009697 original size:59 final size:59
Alignment explanation
Indices: 15009453--15009712 Score: 175
Period size: 58 Copynumber: 4.5 Consensus size: 59
15009443 TTTACCCCTA
* * * * *
15009453 AACTTT-CAAAAATTA-CATTTTAACCCTTAAACTTTTAAAAATTACATTTTT-ACCTCTA
1 AACTTTCCCAAAATTACCATTTT-ACCCTCAAACTTCTAAAAATTCCATTTTTAACCTC-G
** * * *
15009511 AACTTT-TTAAAATTA-CATTTTTACCACT-GAACTT-TCCAAAATTCCATTTTTGACC-C-
1 AACTTTCCCAAAATTACCA-TTTTACC-CTCAAACTTCT-AAAAATTCCATTTTTAACCTCG
* *** *
15009567 AGATTTTTTTAAAATTACCTTTTTACCCTCAAACTTCTAAAAATTCCATTTTTAACCTCG
1 A-ACTTTCCCAAAATTACCATTTTACCCTCAAACTTCTAAAAATTCCATTTTTAACCTCG
** *
15009627 ATTTTTCCCAAAAATTACCATTTTACCCTCAAA-TGT-TTAAAATTCCATTTTTAACC-CTG
1 AACTTTCCC-AAAATTACCATTTTACCCTCAAACT-TCTAAAAATTCCATTTTTAACCTC-G
* *
15009686 AACTTTCCCAAAATTATCATTTAACCC
1 AACTTTCCCAAAATTACCATTTTACCC
15009713 CCTCCAAGTG
Statistics
Matches: 168, Mismatches: 20, Indels: 28
0.78 0.09 0.13
Matches are distributed among these distances:
56 1 0.01
57 7 0.04
58 92 0.55
59 44 0.26
60 24 0.14
ACGTcount: A:0.34, C:0.23, G:0.02, T:0.41
Consensus pattern (59 bp):
AACTTTCCCAAAATTACCATTTTACCCTCAAACTTCTAAAAATTCCATTTTTAACCTCG
Found at i:15011004 original size:22 final size:22
Alignment explanation
Indices: 15010956--15010997 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
15010946 AAGCAATAAC
* *
15010956 AAAATAGTAACAATATAATAGA
1 AAAATAGTAACAAAACAATAGA
15010978 AAAATAGTAACAAAACAATA
1 AAAATAGTAACAAAACAATA
15010998 TTAAAATGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.67, C:0.07, G:0.07, T:0.19
Consensus pattern (22 bp):
AAAATAGTAACAAAACAATAGA
Found at i:15018537 original size:30 final size:30
Alignment explanation
Indices: 15018502--15018595 Score: 125
Period size: 30 Copynumber: 3.1 Consensus size: 30
15018492 CAAAACAGGT
** *
15018502 TGAGAAGATTGTAGGGTTGACGAAGGTGCA
1 TGAGAAGATTGTACTGTTGATGAAGGTGCA
* * *
15018532 TGAGAAGATTGGACTGTTGATGGAGGCGCA
1 TGAGAAGATTGTACTGTTGATGAAGGTGCA
*
15018562 TGAGAAGATTGTACTGTTGGTGAAGGTGCA
1 TGAGAAGATTGTACTGTTGATGAAGGTGCA
15018592 TGAG
1 TGAG
15018596 CTGTCAAAGA
Statistics
Matches: 54, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 54 1.00
ACGTcount: A:0.28, C:0.07, G:0.39, T:0.26
Consensus pattern (30 bp):
TGAGAAGATTGTACTGTTGATGAAGGTGCA
Found at i:15024048 original size:10 final size:10
Alignment explanation
Indices: 15024027--15024058 Score: 57
Period size: 10 Copynumber: 3.3 Consensus size: 10
15024017 CCCTTCTAAC
15024027 AAATAT-ATA
1 AAATATAATA
15024036 AAATATAATA
1 AAATATAATA
15024046 AAATATAATA
1 AAATATAATA
15024056 AAA
1 AAA
15024059 ACATATATTA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
9 6 0.27
10 16 0.73
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (10 bp):
AAATATAATA
Found at i:15024884 original size:26 final size:26
Alignment explanation
Indices: 15024854--15024905 Score: 77
Period size: 26 Copynumber: 2.0 Consensus size: 26
15024844 ATTGCGATGG
* *
15024854 TTGATTTCATTAACTAATTCTATTAA
1 TTGATTTAATCAACTAATTCTATTAA
*
15024880 TTGATTTAATCAACTGATTCTATTAA
1 TTGATTTAATCAACTAATTCTATTAA
15024906 AGCCTCGAGA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.35, C:0.12, G:0.06, T:0.48
Consensus pattern (26 bp):
TTGATTTAATCAACTAATTCTATTAA
Found at i:15029162 original size:18 final size:18
Alignment explanation
Indices: 15029128--15029166 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
15029118 CTATTTTTAA
*
15029128 AAATTAAATATACTATTT
1 AAATTAAATAGACTATTT
15029146 AAATTGAAATAGA-TATTT
1 AAATT-AAATAGACTATTT
15029164 AAA
1 AAA
15029167 AATGCAAACA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 13 0.68
19 6 0.32
ACGTcount: A:0.54, C:0.03, G:0.05, T:0.38
Consensus pattern (18 bp):
AAATTAAATAGACTATTT
Found at i:15029548 original size:17 final size:17
Alignment explanation
Indices: 15029513--15029555 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
15029503 CTTTCATGAC
* *
15029513 CTTTAACCTTCCATGTT
1 CTTTAACTTTCCATATT
*
15029530 CTTTAACTTTTCATATT
1 CTTTAACTTTCCATATT
15029547 CTTGTAACT
1 CTT-TAACT
15029556 ATTTTTTTCT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
17 17 0.77
18 5 0.23
ACGTcount: A:0.21, C:0.23, G:0.05, T:0.51
Consensus pattern (17 bp):
CTTTAACTTTCCATATT
Found at i:15029673 original size:8 final size:8
Alignment explanation
Indices: 15029660--15029685 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
15029650 TGTAATACAA
15029660 ATTCTCAT
1 ATTCTCAT
15029668 ATTCTCAT
1 ATTCTCAT
15029676 ATTCTCAT
1 ATTCTCAT
15029684 AT
1 AT
15029686 CCATCATTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.27, C:0.23, G:0.00, T:0.50
Consensus pattern (8 bp):
ATTCTCAT
Found at i:15034952 original size:17 final size:16
Alignment explanation
Indices: 15034932--15034974 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 16
15034922 CTCCCTTGAC
*
15034932 CTTTAACTTTGCATCTT
1 CTTTAACTTT-CATATT
15034949 CTTTAACATTTCATATT
1 CTTTAAC-TTTCATATT
15034966 CTTATAACT
1 CTT-TAACT
15034975 ATTTTTTCCT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
17 16 0.70
18 7 0.30
ACGTcount: A:0.26, C:0.21, G:0.02, T:0.51
Consensus pattern (16 bp):
CTTTAACTTTCATATT
Found at i:15039158 original size:596 final size:596
Alignment explanation
Indices: 15037288--15039273 Score: 3147
Period size: 584 Copynumber: 3.3 Consensus size: 596
15037278 AATTGTTGAA
*
15037288 ATTTAGTCTCGGAATGTAATTTTAAACTAGGATTGTTTGTAATTTC-GTGTTGTTCGCCAAAACT
1 ATTTAGTCTTGGAATGTAATTTTAAACTAGGATTGTTTGTAA-TTCGGTGTTGTTCGCCAAAACT
* ** * * *
15037352 TAGTGTTTATAGGTTATGTGTTCAGTGTGGTAAGACCCAAGATTCAAATTCGATGAATTAGATTG
65 TAGTGTTTATAGGTTATGTGTTCTGTGTGGTAAGACCCAAGATTCGGATTCGATGAATCAAATCG
* *
15037417 AGTTGAGGGTGTTACAGTCGCTAAATCAAGTTCTCAATTGAAGGAAGTATAACTGCCTTTACTAA
130 AGTTGAAGGTGTTACAGTCGCTAAATCAAGTTCTCAATTGAAAGAAGTATAACTG-CTTTACTAA
*
15037482 TAGTTGAGATCCAATCAGGAGAAGTTTCGACGTATATTCCTACTAATGTGATTTCCATTACAAAT
194 TAGTTGAGACCCAATCAGGAGAAGTTTCGACGTATATTCCTACTAATGTGATTTCCATTACAAAT
15037547 GGACAAATATTCTTATTCGTCGATCTATTCAATGCTGGAATCAGACTTGATATTAATAAGGGGAT
259 GGACAAATATTCTTATTCGTCGATCTATTCAATGCTGGAATCAGACTTGATATTAATAAGGGGA-
* * * * * *
15037612 TTTTCATCTCCAGAATAGGACCCACAACGTAAATTAAAGTTATAAAACAAGTGGTTGGTAAATCA
323 TTTTCGTCTCTAGAGTAGGACCCACGACTTAAATTAAAGTTATAAAACAAGTTGTTGGTAAATCA
*
15037677 AAATTGAAATTAATCTAATTCGTCGAATTAGAAACTTTTGTACTGCTAATCTCGATAAAGCTACT
388 AAATTGAAATTAACCTAATTCGTCGAATTAGAAACTTTTGTACTGCTAATCTCGATAAAGCTACT
* * * *
15037742 CAAAATTAGTTAGCACATGGAAAACAAGTTTGTTTATACATTTTACTTTTTAAGGTTGTTAATTA
453 CAAAATTAGTTGGCACGTGGAAAACAAGTTTGTTTATACATTTTACTTTTTAAAGTTGTTATTTA
* *
15037807 AAATTATTTACAGTTATTAAATGCATAACGATATTTAACAGATAGTTTAGTTAAATTGAAATCAG
518 AAATTATTTACAGTTATTAAAAGCATAACGATATTTAACGGATAGTTTAGTTAAATTGAAATCAG
15037872 ATTTATCTAACGAT
583 ATTTATCTAACGAT
*
15037886 ATTTAGTCTTGGAATGTAATTTTAAACTAGGATTGTTTGTAATTTGGTGTTGTTCGCCAAAACTT
1 ATTTAGTCTTGGAATGTAATTTTAAACTAGGATTGTTTGTAATTCGGTGTTGTTCGCCAAAACTT
* *
15037951 AGTGTTTATAGGTTATGTGTTCTGTGTGGTAAGACTCAAGATTCGGATTCGATGAATCAGATCGA
66 AGTGTTTATAGGTTATGTGTTCTGTGTGGTAAGACCCAAGATTCGGATTCGATGAATCAAATCGA
* * * * *
15038016 GTTGAGGGTGTTACATTCACTAAATAAAGTTCTCAATTGAAAGAAGTATAATTGCTTTACTAATA
131 GTTGAAGGTGTTACAGTCGCTAAATCAAGTTCTCAATTGAAAGAAGTATAACTGCTTTACTAATA
* * * * *
15038081 GTTGAGACCTAATCAAGAGAAATTTTGACGTATATTCCTACTAATGTGATTTCCATTACAAATAG
196 GTTGAGACCCAATCAGGAGAAGTTTCGACGTATATTCCTACTAATGTGATTTCCATTACAAATGG
* * *
15038146 ACAAATATTTTTATTCTTCGATCTATTCAATGTTGGAATCAGACTTGATATTAATAAGGGGATTT
261 ACAAATATTCTTATTCGTCGATCTATTCAATGCTGGAATCAGACTTGATATTAATAAGGGGATTT
*
15038211 TCGTCTCTAGAGTAGGATCCACGACTTAAATTAAAGTTAT-----AAGTTGTTGGTAAATCAAAA
326 TCGTCTCTAGAGTAGGACCCACGACTTAAATTAAAGTTATAAAACAAGTTGTTGGTAAATCAAAA
*
15038271 TTGGAATTAACCTAATTCGTCGAATTAGAAACTTTTGTACTGCTAATCTCGATAAAGCTACTC-A
391 TTGAAATTAACCTAATTCGTCGAATTAGAAACTTTTGTACTGCTAATCTCGATAAAGCTACTCAA
15038335 AA--A--TGGCACGTGGAAAACAAGTTTG--TATACATTTTACTTTTTAAAGTTGTTATTTAAAA
456 AATTAGTTGGCACGTGGAAAACAAGTTTGTTTATACATTTTACTTTTTAAAGTTGTTATTTAAAA
* * * * *
15038394 TTATTTACTGTTATTAAACGTATAACAATATTAAACGGATAGTTTAGTTAAATTGAAATCAGATT
521 TTATTTACAGTTATTAAAAGCATAACGATATTTAACGGATAGTTTAGTTAAATTGAAATCAGATT
15038459 TATCTAACGAT
586 TATCTAACGAT
* *
15038470 TTTTAGTCCTGGAATGTAATTTTAAACTAGGATTGTTTGTAATTCGGTGTTGTTCGCCAAAACTT
1 ATTTAGTCTTGGAATGTAATTTTAAACTAGGATTGTTTGTAATTCGGTGTTGTTCGCCAAAACTT
* * * *
15038535 AGTGTTTATAGGTTATGTATTCTGTGTGGTAAGACCCATGATTCGGGTTAGATGAATCAAATCGA
66 AGTGTTTATAGGTTATGTGTTCTGTGTGGTAAGACCCAAGATTCGGATTCGATGAATCAAATCGA
* * * ** * *
15038600 GTTGAAGGTGTTATAGTTGCTAAATCAAGTTCTCAAATGATGGAAGTACAACTGCTTTGCTAATA
131 GTTGAAGGTGTTACAGTCGCTAAATCAAGTTCTCAATTGAAAGAAGTATAACTGCTTTACTAATA
* *
15038665 GTTGAGACCCATTCAGGAGAAGTTTCGACGTATATTCTTACTAATGTGATTTCCATTACAAATGG
196 GTTGAGACCCAATCAGGAGAAGTTTCGACGTATATTCCTACTAATGTGATTTCCATTACAAATGG
* * *
15038730 ACAAATATCCTTATCCGTCGATCTATTCAATGCTGGAATCAGACTTGATATTAGTAAGGGGATTT
261 ACAAATATTCTTATTCGTCGATCTATTCAATGCTGGAATCAGACTTGATATTAATAAGGGGATTT
* * *
15038795 TCGTCTCTAGAGTAGGACCCATGATTTAAATTAAAGTTATAAAACAAGTTATTGGTAAATCAAAA
326 TCGTCTCTAGAGTAGGACCCACGACTTAAATTAAAGTTATAAAACAAGTTGTTGGTAAATCAAAA
* *
15038860 TTGAAATTAACCTAATTCGTCGAATTAGAAACTTTTGTACTGCTAATCTCGTTAAAACTACTCAA
391 TTGAAATTAACCTAATTCGTCGAATTAGAAACTTTTGTACTGCTAATCTCGATAAAGCTACTCAA
*
15038925 AATTAGTTGGCACGTGGAAAACAAGTTTGTTTATACATTTTTCTTTTTAAAGTTGTTATTTAAAA
456 AATTAGTTGGCACGTGGAAAACAAGTTTGTTTATACATTTTACTTTTTAAAGTTGTTATTTAAAA
*
15038990 TTATTTACCGTTATTAAAAGCATAACGATATTTAACGGATAGTTTAGTTAAATTGAAATCAGATT
521 TTATTTACAGTTATTAAAAGCATAACGATATTTAACGGATAGTTTAGTTAAATTGAAATCAGATT
15039055 TATCTAACGAT
586 TATCTAACGAT
15039066 ATTTAGTCTTGGAATGTAATTTTAAACTAGGATTGTTTGTAATTCGGTGTTGTTCGCCAAAACTT
1 ATTTAGTCTTGGAATGTAATTTTAAACTAGGATTGTTTGTAATTCGGTGTTGTTCGCCAAAACTT
* * *
15039131 AGTGTTTATAGATTATGTGTTCTGTGTGGTAAGATCCAAGATTTGGATTCGATGAAT-AAGATCG
66 AGTGTTTATAGGTTATGTGTTCTGTGTGGTAAGACCCAAGATTCGGATTCGATGAATCAA-ATCG
*
15039195 AGTT-AATGGTGTTACAGTCGCTAAATCAAGTTCTCAATTGAAAGAAATATAACTGCTTTACTAA
130 AGTTGAA-GGTGTTACAGTCGCTAAATCAAGTTCTCAATTGAAAGAAGTATAACTGCTTTACTAA
15039259 TAGTTGAGACCCAAT
194 TAGTTGAGACCCAAT
15039274 TGGCACGTGA
Statistics
Matches: 1267, Mismatches: 106, Indels: 32
0.90 0.08 0.02
Matches are distributed among these distances:
584 430 0.34
586 20 0.02
588 1 0.00
589 79 0.06
590 6 0.00
591 80 0.06
592 1 0.00
594 22 0.02
595 4 0.00
596 325 0.26
597 131 0.10
598 168 0.13
ACGTcount: A:0.33, C:0.13, G:0.18, T:0.37
Consensus pattern (596 bp):
ATTTAGTCTTGGAATGTAATTTTAAACTAGGATTGTTTGTAATTCGGTGTTGTTCGCCAAAACTT
AGTGTTTATAGGTTATGTGTTCTGTGTGGTAAGACCCAAGATTCGGATTCGATGAATCAAATCGA
GTTGAAGGTGTTACAGTCGCTAAATCAAGTTCTCAATTGAAAGAAGTATAACTGCTTTACTAATA
GTTGAGACCCAATCAGGAGAAGTTTCGACGTATATTCCTACTAATGTGATTTCCATTACAAATGG
ACAAATATTCTTATTCGTCGATCTATTCAATGCTGGAATCAGACTTGATATTAATAAGGGGATTT
TCGTCTCTAGAGTAGGACCCACGACTTAAATTAAAGTTATAAAACAAGTTGTTGGTAAATCAAAA
TTGAAATTAACCTAATTCGTCGAATTAGAAACTTTTGTACTGCTAATCTCGATAAAGCTACTCAA
AATTAGTTGGCACGTGGAAAACAAGTTTGTTTATACATTTTACTTTTTAAAGTTGTTATTTAAAA
TTATTTACAGTTATTAAAAGCATAACGATATTTAACGGATAGTTTAGTTAAATTGAAATCAGATT
TATCTAACGAT
Found at i:15039836 original size:5 final size:5
Alignment explanation
Indices: 15039826--15039850 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
15039816 ATCCAAGTCC
15039826 AAGCA AAGCA AAGCA AAGCA AAGCA
1 AAGCA AAGCA AAGCA AAGCA AAGCA
15039851 TGGCGGCGAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.60, C:0.20, G:0.20, T:0.00
Consensus pattern (5 bp):
AAGCA
Found at i:15043341 original size:93 final size:93
Alignment explanation
Indices: 15043190--15043367 Score: 268
Period size: 93 Copynumber: 1.9 Consensus size: 93
15043180 TGGTGCTTCT
** ** * * *
15043190 TGTGTGAATGTTGATGATGAGAAGACTCTTGTTGCATCTCCAACAGGTTCATCTGCTGAAAGGAA
1 TGTGTGAATGTTGATGATGAGAAGAAGCCAGTAGCATCTCCAACAGGTTCATCAGCTGAAAGAAA
15043255 GTTAACTCCTGTAGCTGGTGGTTCATCA
66 GTTAACTCCTGTAGCTGGTGGTTCATCA
15043283 TGTGTGAATGTTGATGATG-GAATGAAGCCAGTAGCATCTCCAACAGGTTCATCAGCTGAAAGAA
1 TGTGTGAATGTTGATGATGAGAA-GAAGCCAGTAGCATCTCCAACAGGTTCATCAGCTGAAAGAA
*
15043347 AGTTAACTTCTGTAGCTGGTG
65 AGTTAACTCCTGTAGCTGGTG
15043368 AGGTTTTGTC
Statistics
Matches: 76, Mismatches: 8, Indels: 2
0.88 0.09 0.02
Matches are distributed among these distances:
92 3 0.04
93 73 0.96
ACGTcount: A:0.27, C:0.16, G:0.26, T:0.30
Consensus pattern (93 bp):
TGTGTGAATGTTGATGATGAGAAGAAGCCAGTAGCATCTCCAACAGGTTCATCAGCTGAAAGAAA
GTTAACTCCTGTAGCTGGTGGTTCATCA
Found at i:15056712 original size:58 final size:58
Alignment explanation
Indices: 15056619--15056740 Score: 192
Period size: 58 Copynumber: 2.1 Consensus size: 58
15056609 TTAAGAGAGG
* *
15056619 TCATTATGACCTCAAATGTATACTCAAAGCGAAAACTTCATTTATGGCTACGTGTACA
1 TCATTATGACCTCAAATGTATACTCAAAGCAAAAACTTCATTTATGGCTACATGTACA
* * *
15056677 TCATTATGACCTCAAATGTATACTTAAAGCAAAAACTTTATTTATGGTTACATGTACA
1 TCATTATGACCTCAAATGTATACTCAAAGCAAAAACTTCATTTATGGCTACATGTACA
15056735 T-ATTAT
1 TCATTAT
15056741 CATACACCGA
Statistics
Matches: 59, Mismatches: 5, Indels: 1
0.91 0.08 0.02
Matches are distributed among these distances:
57 5 0.08
58 54 0.92
ACGTcount: A:0.36, C:0.17, G:0.11, T:0.35
Consensus pattern (58 bp):
TCATTATGACCTCAAATGTATACTCAAAGCAAAAACTTCATTTATGGCTACATGTACA
Found at i:15060875 original size:21 final size:21
Alignment explanation
Indices: 15060851--15060892 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
15060841 GCGCAATCTA
*
15060851 TAGATTTTCAAAAGCAAACTG
1 TAGATTTTCAAAAGAAAACTG
15060872 TAGATTTTCAAAAGAAAACTG
1 TAGATTTTCAAAAGAAAACTG
15060893 AGGCATCTGT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.45, C:0.12, G:0.14, T:0.29
Consensus pattern (21 bp):
TAGATTTTCAAAAGAAAACTG
Found at i:15062535 original size:12 final size:12
Alignment explanation
Indices: 15062518--15062559 Score: 50
Period size: 13 Copynumber: 3.3 Consensus size: 12
15062508 ATAACAACTT
15062518 ATAAAATAAAAA
1 ATAAAATAAAAA
15062530 ATAAAAATAAAAA
1 AT-AAAATAAAAA
15062543 CA-AAAATAAGAAA
1 -ATAAAATAA-AAA
15062556 ATAA
1 ATAA
15062560 CAATTTTTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
12 10 0.38
13 15 0.58
14 1 0.04
ACGTcount: A:0.81, C:0.02, G:0.02, T:0.14
Consensus pattern (12 bp):
ATAAAATAAAAA
Found at i:15062538 original size:13 final size:13
Alignment explanation
Indices: 15062520--15062559 Score: 55
Period size: 12 Copynumber: 3.1 Consensus size: 13
15062510 AACAACTTAT
15062520 AAAATAAAAAATA
1 AAAATAAAAAATA
*
15062533 AAAAT-AAAAACA
1 AAAATAAAAAATA
15062545 AAAATAAGAAAATA
1 AAAATAA-AAAATA
15062559 A
1 A
15062560 CAATTTTTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
12 11 0.48
13 6 0.26
14 6 0.26
ACGTcount: A:0.82, C:0.03, G:0.03, T:0.12
Consensus pattern (13 bp):
AAAATAAAAAATA
Found at i:15066621 original size:12 final size:12
Alignment explanation
Indices: 15066600--15066631 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
15066590 TTGATTAATG
15066600 TTTAAA-TTATT
1 TTTAAATTTATT
15066611 TTTAAATTTATT
1 TTTAAATTTATT
15066623 TTTAAATTT
1 TTTAAATTT
15066632 TAAATTTATC
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 6 0.30
12 14 0.70
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (12 bp):
TTTAAATTTATT
Found at i:15066639 original size:6 final size:6
Alignment explanation
Indices: 15066611--15066762 Score: 95
Period size: 6 Copynumber: 25.0 Consensus size: 6
15066601 TTAAATTATT
** *
15066611 TTTAAA TTTATT TTTAAA TTTTAAA TTT--A TCTTAAA TTTAAA TTTATCTAT
1 TTTAAA TTTAAA TTTAAA -TTTAAA TTTAAA T-TTAAA TTTAAA TTTA---AA
*
15066662 TTTAAA TTTAAA TTT-AC TTTAAA TTTAAAA TTT--A TCTTAAA TTTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTT-AAA TTTAAA T-TTAAA TTTAAA
* * *
15066709 TTTATCTAT TTTAAA TTTAAA TTT-AC TTTAAA TTTAAA ATT-AA -TTAAA
1 TTTA---AA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
15066757 TTTAAA
1 TTTAAA
15066763 ATTGAATTAA
Statistics
Matches: 115, Mismatches: 13, Indels: 36
0.70 0.08 0.22
Matches are distributed among these distances:
4 6 0.05
5 16 0.14
6 67 0.58
7 16 0.14
9 10 0.09
ACGTcount: A:0.42, C:0.04, G:0.00, T:0.54
Consensus pattern (6 bp):
TTTAAA
Found at i:15066652 original size:17 final size:18
Alignment explanation
Indices: 15066611--15066746 Score: 163
Period size: 17 Copynumber: 7.3 Consensus size: 18
15066601 TTAAATTATT
*
15066611 TTTAAATTTATTTTTAAA
1 TTTAAATTTATCTTTAAA
15066629 TTTTAAATTTATC-TTAAA
1 -TTTAAATTTATCTTTAAA
15066647 TTTAAATTTATCTATTTTAAA
1 TTTAAATTTATC---TTTAAA
15066668 TTTAAATTTA-CTTTAAA
1 TTTAAATTTATCTTTAAA
15066685 TTTAAAATTTATC-TTAAA
1 TTT-AAATTTATCTTTAAA
15066703 TTTAAATTTATCTATTTTAAA
1 TTTAAATTTATC---TTTAAA
15066724 TTTAAATTTA-CTTTAAA
1 TTTAAATTTATCTTTAAA
15066741 TTTAAA
1 TTTAAA
15066747 ATTAATTAAA
Statistics
Matches: 106, Mismatches: 1, Indels: 22
0.82 0.01 0.17
Matches are distributed among these distances:
17 42 0.40
18 20 0.19
19 12 0.11
20 2 0.02
21 30 0.28
ACGTcount: A:0.40, C:0.04, G:0.00, T:0.55
Consensus pattern (18 bp):
TTTAAATTTATCTTTAAA
Found at i:15066693 original size:56 final size:56
Alignment explanation
Indices: 15066611--15066762 Score: 254
Period size: 56 Copynumber: 2.7 Consensus size: 56
15066601 TTAAATTATT
* *
15066611 TTTAAATTTATTTTTAAATTTTAAATTTATCTTAAATTTAAATTTATCTATTTTAAA
1 TTTAAATTTA-CTTTAAATTTAAAATTTATCTTAAATTTAAATTTATCTATTTTAAA
15066668 TTTAAATTTACTTTAAATTTAAAATTTATCTTAAATTTAAATTTATCTATTTTAAA
1 TTTAAATTTACTTTAAATTTAAAATTTATCTTAAATTTAAATTTATCTATTTTAAA
*
15066724 TTTAAATTTACTTTAAATTTAAAA-TTA-ATTAAATTTAAA
1 TTTAAATTTACTTTAAATTTAAAATTTATCTTAAATTTAAA
15066763 ATTGAATTAA
Statistics
Matches: 92, Mismatches: 3, Indels: 3
0.94 0.03 0.03
Matches are distributed among these distances:
54 11 0.12
55 3 0.03
56 68 0.74
57 10 0.11
ACGTcount: A:0.42, C:0.04, G:0.00, T:0.54
Consensus pattern (56 bp):
TTTAAATTTACTTTAAATTTAAAATTTATCTTAAATTTAAATTTATCTATTTTAAA
Found at i:15066772 original size:17 final size:16
Alignment explanation
Indices: 15066663--15066778 Score: 79
Period size: 17 Copynumber: 6.6 Consensus size: 16
15066653 TTTATCTATT
* *
15066663 TTAAATTTAAATTTACT
1 TTAAATTTAAAATTA-A
*
15066680 TTAAATTTAAAATTTATC
1 TTAAATTTAAAA-TTA-A
*
15066698 TTAAATTTAAATTTATCTATT
1 TTAAATTTAAA---AT-TA-A
* *
15066719 TTAAATTTAAATTTACT
1 TTAAATTTAAAATTA-A
15066736 TTAAATTTAAAATTAA
1 TTAAATTTAAAATTAA
15066752 TTAAATTTAAAATTGAA
1 TTAAATTTAAAATT-AA
*
15066769 TTAAACTTAA
1 TTAAATTTAA
15066779 TTAAATGAAT
Statistics
Matches: 84, Mismatches: 9, Indels: 12
0.80 0.09 0.11
Matches are distributed among these distances:
16 14 0.17
17 39 0.46
18 15 0.18
20 1 0.01
21 15 0.18
ACGTcount: A:0.46, C:0.04, G:0.01, T:0.49
Consensus pattern (16 bp):
TTAAATTTAAAATTAA
Found at i:15066807 original size:19 final size:20
Alignment explanation
Indices: 15066785--15066822 Score: 69
Period size: 19 Copynumber: 1.9 Consensus size: 20
15066775 TTAATTAAAT
15066785 GAATGTCCAT-TTACAAAAA
1 GAATGTCCATATTACAAAAA
15066804 GAATGTCCATATTACAAAA
1 GAATGTCCATATTACAAAA
15066823 GCCCGAATGA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 10 0.56
20 8 0.44
ACGTcount: A:0.47, C:0.16, G:0.11, T:0.26
Consensus pattern (20 bp):
GAATGTCCATATTACAAAAA
Found at i:15067562 original size:12 final size:13
Alignment explanation
Indices: 15067530--15067573 Score: 65
Period size: 12 Copynumber: 3.5 Consensus size: 13
15067520 TTTTATCAAC
15067530 AATAAT-ATTAAT
1 AATAATAATTAAT
*
15067542 AATAGTAATTAAT
1 AATAATAATTAAT
15067555 -ATAATAATTAAT
1 AATAATAATTAAT
15067567 AATAATA
1 AATAATA
15067574 TTTTTTAATT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
12 16 0.57
13 12 0.43
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (13 bp):
AATAATAATTAAT
Found at i:15067572 original size:18 final size:17
Alignment explanation
Indices: 15067530--15067574 Score: 54
Period size: 18 Copynumber: 2.5 Consensus size: 17
15067520 TTTTATCAAC
*
15067530 AATAATATTAATAATAGT
1 AATAATA-TAATAATAAT
15067548 AATTAATATAATAATTAAT
1 AA-TAATATAATAA-TAAT
15067567 AATAATAT
1 AATAATAT
15067575 TTTTTAATTA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
18 14 0.58
19 10 0.42
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (17 bp):
AATAATATAATAATAAT
Found at i:15068720 original size:58 final size:58
Alignment explanation
Indices: 15068650--15068762 Score: 185
Period size: 58 Copynumber: 1.9 Consensus size: 58
15068640 GCTCTCTAGT
15068650 CCCTAAACTTTCCAAAATCCCATTTT-AACCCAGA-TTCTACCAAAAATTACCATTTAAC
1 CCCTAAACTTTCCAAAATCCCATTTTCAACCCAGATTTC-ACCAAAAATTA-CATTTAAC
*
15068708 CCCTAAACTTTCCAAAATCCCATTTTCAACCCCGATTTCACCAAAAATTACATTT
1 CCCTAAACTTTCCAAAATCCCATTTTCAACCCAGATTTCACCAAAAATTACATTT
15068763 TTACCCTCAA
Statistics
Matches: 52, Mismatches: 1, Indels: 4
0.91 0.02 0.07
Matches are distributed among these distances:
58 31 0.60
59 18 0.35
60 3 0.06
ACGTcount: A:0.36, C:0.32, G:0.02, T:0.30
Consensus pattern (58 bp):
CCCTAAACTTTCCAAAATCCCATTTTCAACCCAGATTTCACCAAAAATTACATTTAAC
Found at i:15068724 original size:29 final size:29
Alignment explanation
Indices: 15068650--15068739 Score: 73
Period size: 29 Copynumber: 3.1 Consensus size: 29
15068640 GCTCTCTAGT
*
15068650 CCCTAAACTTTCCAAAA-TCCCATTTTAA
1 CCCTAAACTTTCCAAAATTACCATTTTAA
*
15068678 CCC-AGA-TTCTACCAAAAATTACCA-TTTAA
1 CCCTAAACTT-T-CC-AAAATTACCATTTTAA
*
15068707 CCCCTAAACTTTCCAAAA-TCCCATTTTCAA
1 -CCCTAAACTTTCCAAAATTACCATTTT-AA
15068737 CCC
1 CCC
15068740 CGATTTCACC
Statistics
Matches: 49, Mismatches: 4, Indels: 17
0.70 0.06 0.24
Matches are distributed among these distances:
26 2 0.04
27 3 0.06
28 9 0.18
29 19 0.39
30 11 0.22
31 3 0.06
32 2 0.04
ACGTcount: A:0.36, C:0.34, G:0.01, T:0.29
Consensus pattern (29 bp):
CCCTAAACTTTCCAAAATTACCATTTTAA
Found at i:15072300 original size:29 final size:28
Alignment explanation
Indices: 15072268--15072601 Score: 108
Period size: 29 Copynumber: 11.5 Consensus size: 28
15072258 GATTTTACTA
*
15072268 AAAATTACCATTTTACCCTCAAACTTTCT
1 AAAATTACCATTTTACCCTC-AACTTTCC
** *
15072297 AAAA-CCCCATTTTTAACCC-CGA-TTTCACC
1 AAAATTACCA-TTTT-ACCCTCAACTTT--CC
*
15072326 AAAATTACCATTTTACCCTTAAACTTTCC
1 AAAATTACCATTTTACCC-TCAACTTTCC
* *
15072355 AAAA-TCCCATTTTTAACCC-CGA-TTTCAC
1 AAAATTACCA-TTTT-ACCCTCAACTTTC-C
*
15072383 TAAAAATTACCTTTTTACCCTCGAACTTTCC
1 --AAAATTACCATTTTACCCTC-AACTTTCC
*
15072414 AAAA-T-CCTATTTTTAACCC-CGA-TTTCAC
1 AAAATTACC-A-TTTT-ACCCTCAACTTTC-C
*
15072442 TAAAAATTACCTTTTTACCCTCGAACTTTCC
1 --AAAATTACCATTTTACCCTC-AACTTTCC
* * *
15072473 AAAA-T-CTCGTTTTCAACCTCGA-TTTCACC
1 AAAATTAC-CATTTT-ACCCTCAACTTT--CC
*
15072502 AAAAATTACCATTTTACCCCCAAACTTTCC
1 -AAAATTACCATTTTACCCTC-AACTTTCC
* * * *
15072532 AAAATT-CTATTTTAACCTCGA-TTTCATAA
1 AAAATTACCATTTTACCCTCAACTTTC---C
*
15072561 AAAATTACCA-TTTACCCCTGAACTTTCC
1 AAAATTACCATTTTA-CCCTCAACTTTCC
*
15072589 AAAA-TCCCATTTT
1 AAAATTACCATTTT
15072602 TAACCCCGAT
Statistics
Matches: 225, Mismatches: 36, Indels: 89
0.64 0.10 0.25
Matches are distributed among these distances:
26 4 0.02
27 22 0.10
28 41 0.18
29 72 0.32
30 50 0.22
31 22 0.10
32 14 0.06
ACGTcount: A:0.33, C:0.29, G:0.03, T:0.35
Consensus pattern (28 bp):
AAAATTACCATTTTACCCTCAACTTTCC
Found at i:15072411 original size:59 final size:59
Alignment explanation
Indices: 15072231--15072639 Score: 535
Period size: 59 Copynumber: 7.0 Consensus size: 59
15072221 CTAGTCCCCA
** * *
15072231 AACTTTCCAAAATCCCA-TTTTAACCATGATTTTACTAAAAATTACCATTTTACCCTCA
1 AACTTTCCAAAATCCCATTTTTAACCCCGATTTCACTAAAAATTACCATTTTACCCTCG
* * * **
15072289 AACTTTCTAAAACCCCATTTTTAACCCCGATTTCAC-CAAAATTACCATTTTACCCTTA
1 AACTTTCCAAAATCCCATTTTTAACCCCGATTTCACTAAAAATTACCATTTTACCCTCG
*
15072347 AACTTTCCAAAATCCCATTTTTAACCCCGATTTCACTAAAAATTACCTTTTTACCCTCG
1 AACTTTCCAAAATCCCATTTTTAACCCCGATTTCACTAAAAATTACCATTTTACCCTCG
* *
15072406 AACTTTCCAAAATCCTATTTTTAACCCCGATTTCACTAAAAATTACCTTTTTACCCTCG
1 AACTTTCCAAAATCCCATTTTTAACCCCGATTTCACTAAAAATTACCATTTTACCCTCG
* * * * * * *
15072465 AACTTTCCAAAATCTCGTTTTCAACCTCGATTTCACCAAAAATTACCATTTTACCCCCA
1 AACTTTCCAAAATCCCATTTTTAACCCCGATTTCACTAAAAATTACCATTTTACCCTCG
* * *
15072524 AACTTTCCAAAATTCTA-TTTTAACCTCGATTTCA-TAAAAAATTACCA-TTTACCC-CTG
1 AACTTTCCAAAATCCCATTTTTAACCCCGATTTCACT-AAAAATTACCATTTTACCCTC-G
*
15072581 AACTTTCCAAAATCCCATTTTTAACCCCGATTTCACCAAAAATTA-CATTTTTACCCTCG
1 AACTTTCCAAAATCCCATTTTTAACCCCGATTTCACTAAAAATTACCA-TTTTACCCTCG
15072640 GAAGTTAAAA
Statistics
Matches: 308, Mismatches: 34, Indels: 17
0.86 0.09 0.05
Matches are distributed among these distances:
56 1 0.00
57 24 0.08
58 120 0.39
59 162 0.53
60 1 0.00
ACGTcount: A:0.33, C:0.29, G:0.03, T:0.35
Consensus pattern (59 bp):
AACTTTCCAAAATCCCATTTTTAACCCCGATTTCACTAAAAATTACCATTTTACCCTCG
Found at i:15072435 original size:117 final size:117
Alignment explanation
Indices: 15072230--15072638 Score: 547
Period size: 117 Copynumber: 3.5 Consensus size: 117
15072220 TCTAGTCCCC
** * *
15072230 AAACTTTCCAAAATCCCA-TTTTAACCATGATTTTACTAAAAATTACCATTTTACCCTCAAACTT
1 AAACTTTCCAAAATCCCATTTTTAACCCCGATTTCACCAAAAATTACCATTTTACCCTCAAACTT
* * * *
15072294 TCTAAAACCCCATTTTTAACCCCGATTTCACCAAAATTACCATTTTACCCTT
66 TCCAAAATCCTATTTTTAACCCCGATTTCACAAAAATTACCATTTTACCCTT
* * *
15072346 AAACTTTCCAAAATCCCATTTTTAACCCCGATTTCACTAAAAATTACCTTTTTACCCTCGAACTT
1 AAACTTTCCAAAATCCCATTTTTAACCCCGATTTCACCAAAAATTACCATTTTACCCTCAAACTT
* *
15072411 TCCAAAATCCTATTTTTAACCCCGATTTCACTAAAAATTACCTTTTTACCCTC
66 TCCAAAATCCTATTTTTAACCCCGATTTCAC-AAAAATTACCATTTTACCCTT
* * * * * *
15072464 GAACTTTCCAAAATCTCGTTTTCAACCTCGATTTCACCAAAAATTACCATTTTACCCCCAAACTT
1 AAACTTTCCAAAATCCCATTTTTAACCCCGATTTCACCAAAAATTACCATTTTACCCTCAAACTT
* * * *
15072529 TCCAAAATTCTA-TTTTAACCTCGATTTCATAAAAAATTACCA-TTTACCCCT
66 TCCAAAATCCTATTTTTAACCCCGATTTCA-CAAAAATTACCATTTTACCCTT
*
15072580 GAACTTTCCAAAATCCCATTTTTAACCCCGATTTCACCAAAAATTA-CATTTTTACCCTC
1 AAACTTTCCAAAATCCCATTTTTAACCCCGATTTCACCAAAAATTACCA-TTTTACCCTC
15072639 GGAAGTTAAA
Statistics
Matches: 258, Mismatches: 31, Indels: 8
0.87 0.10 0.03
Matches are distributed among these distances:
115 2 0.01
116 76 0.29
117 95 0.37
118 85 0.33
ACGTcount: A:0.33, C:0.29, G:0.03, T:0.35
Consensus pattern (117 bp):
AAACTTTCCAAAATCCCATTTTTAACCCCGATTTCACCAAAAATTACCATTTTACCCTCAAACTT
TCCAAAATCCTATTTTTAACCCCGATTTCACAAAAATTACCATTTTACCCTT
Found at i:15080180 original size:20 final size:20
Alignment explanation
Indices: 15080132--15080180 Score: 57
Period size: 19 Copynumber: 2.5 Consensus size: 20
15080122 TCTTTAATAA
*
15080132 AATTT-ATAAATGTAATTTT
1 AATTTAATAAATATAATTTT
* *
15080151 -ATTTATTAAATATTATTTT
1 AATTTAATAAATATAATTTT
15080170 AATTTAATAAA
1 AATTTAATAAA
15080181 AATATGATTA
Statistics
Matches: 24, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
18 4 0.17
19 11 0.46
20 9 0.38
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (20 bp):
AATTTAATAAATATAATTTT
Found at i:15083607 original size:23 final size:25
Alignment explanation
Indices: 15083579--15083637 Score: 77
Period size: 25 Copynumber: 2.4 Consensus size: 25
15083569 ATACTGATAT
15083579 ATAATAATTAATTTTTAAC-AAAAA
1 ATAATAATTAATTTTTAACTAAAAA
*
15083603 A-AATAAATAAAATTTTTAACTAAAAA
1 ATAAT-AAT-TAATTTTTAACTAAAAA
15083629 ATAATAATT
1 ATAATAATT
15083638 TACTCTTTAA
Statistics
Matches: 29, Mismatches: 2, Indels: 7
0.76 0.05 0.18
Matches are distributed among these distances:
23 3 0.10
24 4 0.14
25 10 0.34
26 9 0.31
27 3 0.10
ACGTcount: A:0.61, C:0.03, G:0.00, T:0.36
Consensus pattern (25 bp):
ATAATAATTAATTTTTAACTAAAAA
Found at i:15088965 original size:23 final size:23
Alignment explanation
Indices: 15088938--15089074 Score: 136
Period size: 23 Copynumber: 6.0 Consensus size: 23
15088928 TTACCATTCA
*
15088938 GCACTGTGTGTGCTTACTGTTTC
1 GCACTGTGTGTGCCTACTGTTTC
* * *
15088961 TCACTTTGTGTGCTTACTGTTTC
1 GCACTGTGTGTGCCTACTGTTTC
* *
15088984 GCACTTTGTGTGCCTATTGTTTC
1 GCACTGTGTGTGCCTACTGTTTC
15089007 GCACT-TCGTGTGCCTACTGATTT-
1 GCACTGT-GTGTGCCTACTG-TTTC
* * * *
15089030 GCGCTATGTGCGCCTACTGATT-
1 GCACTGTGTGTGCCTACTGTTTC
*
15089052 GCACTGTGTGTGCTTACTGTTTC
1 GCACTGTGTGTGCCTACTGTTTC
15089075 CCCAGCACTT
Statistics
Matches: 96, Mismatches: 14, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
22 20 0.21
23 72 0.75
24 4 0.04
ACGTcount: A:0.10, C:0.23, G:0.23, T:0.43
Consensus pattern (23 bp):
GCACTGTGTGTGCCTACTGTTTC
Found at i:15088994 original size:46 final size:46
Alignment explanation
Indices: 15088938--15089074 Score: 152
Period size: 46 Copynumber: 3.0 Consensus size: 46
15088928 TTACCATTCA
* * *
15088938 GCACTGTGTGTGCTTACTGTTTCTCACTTTGTGTGCTTACTGTTTC
1 GCACTTTGTGTGCCTACTGTTTCGCACTTTGTGTGCTTACTGTTTC
* * *
15088984 GCACTTTGTGTGCCTATTGTTTCGCACTTCGTGTGCCTACTGATTT-
1 GCACTTTGTGTGCCTACTGTTTCGCACTTTGTGTGCTTACTG-TTTC
* * * * *
15089030 GCGCTATGTGCGCCTACTGATT-GCACTGTGTGTGCTTACTGTTTC
1 GCACTTTGTGTGCCTACTGTTTCGCACTTTGTGTGCTTACTGTTTC
15089075 CCCAGCACTT
Statistics
Matches: 75, Mismatches: 14, Indels: 5
0.80 0.15 0.05
Matches are distributed among these distances:
44 3 0.04
45 16 0.21
46 53 0.71
47 3 0.04
ACGTcount: A:0.10, C:0.23, G:0.23, T:0.43
Consensus pattern (46 bp):
GCACTTTGTGTGCCTACTGTTTCGCACTTTGTGTGCTTACTGTTTC
Found at i:15092957 original size:47 final size:46
Alignment explanation
Indices: 15092882--15092981 Score: 130
Period size: 47 Copynumber: 2.2 Consensus size: 46
15092872 GAATGCAAAT
* * *
15092882 ATAATAAAAAAGACTAAAGGATATAATCATCGACATGATAAGTCG-C
1 ATAATAAAAAAAACTAAAGGATATAATCATCAACATAATAAGT-GAC
* *
15092928 ATAATAAAAATAAATTAAATGATATAATCATCAACATAATAAGTGAC
1 ATAATAAAAA-AAACTAAAGGATATAATCATCAACATAATAAGTGAC
15092975 ATAATAA
1 ATAATAA
15092982 CCACTAAAAG
Statistics
Matches: 47, Mismatches: 5, Indels: 3
0.85 0.09 0.05
Matches are distributed among these distances:
46 11 0.23
47 36 0.77
ACGTcount: A:0.55, C:0.10, G:0.10, T:0.25
Consensus pattern (46 bp):
ATAATAAAAAAAACTAAAGGATATAATCATCAACATAATAAGTGAC
Found at i:15095589 original size:7 final size:7
Alignment explanation
Indices: 15095577--15095607 Score: 53
Period size: 7 Copynumber: 4.4 Consensus size: 7
15095567 AACAAAAACC
15095577 ATATTAA
1 ATATTAA
15095584 ATATTAA
1 ATATTAA
15095591 ATATTAA
1 ATATTAA
*
15095598 ACATTAA
1 ATATTAA
15095605 ATA
1 ATA
15095608 AAACTAATGT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.39
Consensus pattern (7 bp):
ATATTAA
Found at i:15110897 original size:26 final size:26
Alignment explanation
Indices: 15110866--15110917 Score: 79
Period size: 26 Copynumber: 2.0 Consensus size: 26
15110856 ACGAATTTTC
*
15110866 TCAAAATTTTA-CTAGGGGTAAAATTG
1 TCAAAATTTTATC-AGAGGTAAAATTG
15110892 TCAAAATTTTATCAGAGGTAAAATTG
1 TCAAAATTTTATCAGAGGTAAAATTG
15110918 AAATGAAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
26 23 0.96
27 1 0.04
ACGTcount: A:0.40, C:0.08, G:0.17, T:0.35
Consensus pattern (26 bp):
TCAAAATTTTATCAGAGGTAAAATTG
Found at i:15113644 original size:20 final size:20
Alignment explanation
Indices: 15113621--15113664 Score: 79
Period size: 20 Copynumber: 2.2 Consensus size: 20
15113611 AATTGACTAA
15113621 ATTACTAAATTTTAAATGAT
1 ATTACTAAATTTTAAATGAT
*
15113641 ATTATTAAATTTTAAATGAT
1 ATTACTAAATTTTAAATGAT
15113661 ATTA
1 ATTA
15113665 ACGTGACAGT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.45, C:0.02, G:0.05, T:0.48
Consensus pattern (20 bp):
ATTACTAAATTTTAAATGAT
Found at i:15117870 original size:2 final size:2
Alignment explanation
Indices: 15117863--15117887 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
15117853 TATCTTTCTT
15117863 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
15117888 TATTTGACAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:15119854 original size:22 final size:23
Alignment explanation
Indices: 15119795--15119856 Score: 81
Period size: 23 Copynumber: 2.7 Consensus size: 23
15119785 GAGGTATCGA
15119795 AATTAAATTATAATTTTTAAGAT
1 AATTAAATTATAATTTTTAAGAT
* *
15119818 AATAAAAATATAATTTTTAA-AT
1 AATTAAATTATAATTTTTAAGAT
* *
15119840 GATTAAATTAAAATTTT
1 AATTAAATTATAATTTT
15119857 ATCATCTTTA
Statistics
Matches: 33, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
22 15 0.45
23 18 0.55
ACGTcount: A:0.52, C:0.00, G:0.03, T:0.45
Consensus pattern (23 bp):
AATTAAATTATAATTTTTAAGAT
Found at i:15122853 original size:41 final size:41
Alignment explanation
Indices: 15122792--15122887 Score: 156
Period size: 41 Copynumber: 2.3 Consensus size: 41
15122782 GAATTTTATT
*
15122792 TTAACAAGAATTCTAATCACCCAATTCTAACAATCTCTACC
1 TTAACAAGAATTCTAATCACCCAATTCTAACAATCTCCACC
* *
15122833 TTAACAAGAATTGTAGTCACCCAATTCTAACAATCTCCACC
1 TTAACAAGAATTCTAATCACCCAATTCTAACAATCTCCACC
*
15122874 TTGACAAGAATTCT
1 TTAACAAGAATTCT
15122888 CTACGAACAA
Statistics
Matches: 50, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
41 50 1.00
ACGTcount: A:0.38, C:0.27, G:0.06, T:0.29
Consensus pattern (41 bp):
TTAACAAGAATTCTAATCACCCAATTCTAACAATCTCCACC
Found at i:15122899 original size:17 final size:17
Alignment explanation
Indices: 15122877--15122915 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 17
15122867 CTCCACCTTG
* *
15122877 ACAAGAATTCTCTACGA
1 ACAAGAACTCTCAACGA
15122894 ACAAGAACTCTCAACGA
1 ACAAGAACTCTCAACGA
15122911 ACAAG
1 ACAAG
15122916 TTCTACACCT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.46, C:0.26, G:0.13, T:0.15
Consensus pattern (17 bp):
ACAAGAACTCTCAACGA
Found at i:15124363 original size:11 final size:11
Alignment explanation
Indices: 15124347--15124371 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
15124337 TATTCTAATT
15124347 AAAATAAAATA
1 AAAATAAAATA
15124358 AAAATAAAATA
1 AAAATAAAATA
15124369 AAA
1 AAA
15124372 GAAGTCTAGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (11 bp):
AAAATAAAATA
Found at i:15124582 original size:35 final size:35
Alignment explanation
Indices: 15124516--15124616 Score: 114
Period size: 35 Copynumber: 2.9 Consensus size: 35
15124506 TGTATGTGAT
* * ** *
15124516 TAAGTATATGTTTGCAGTTGTGATATGAAATTGAA
1 TAAGTATATGTGTACAAATGTGGTATGAAATTGAA
* * *
15124551 TAAGTATATG-GATATAAATGTGGTATAAAATTTAA
1 TAAGTATATGTG-TACAAATGTGGTATGAAATTGAA
15124586 TAAGTATATGTGTACAAATGTGGTATGAAAT
1 TAAGTATATGTGTACAAATGTGGTATGAAAT
15124617 GATTATGTAA
Statistics
Matches: 54, Mismatches: 10, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
35 53 0.98
36 1 0.02
ACGTcount: A:0.40, C:0.02, G:0.21, T:0.38
Consensus pattern (35 bp):
TAAGTATATGTGTACAAATGTGGTATGAAATTGAA
Found at i:15125532 original size:55 final size:55
Alignment explanation
Indices: 15125448--15125560 Score: 226
Period size: 55 Copynumber: 2.1 Consensus size: 55
15125438 GTAATAGAGC
15125448 TTTTGTAAGCTTGTATAAAACCTAGAAATGAAGACATATCGATTTATACACCTAT
1 TTTTGTAAGCTTGTATAAAACCTAGAAATGAAGACATATCGATTTATACACCTAT
15125503 TTTTGTAAGCTTGTATAAAACCTAGAAATGAAGACATATCGATTTATACACCTAT
1 TTTTGTAAGCTTGTATAAAACCTAGAAATGAAGACATATCGATTTATACACCTAT
15125558 TTT
1 TTT
15125561 ACTTATATTT
Statistics
Matches: 58, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
55 58 1.00
ACGTcount: A:0.37, C:0.14, G:0.12, T:0.36
Consensus pattern (55 bp):
TTTTGTAAGCTTGTATAAAACCTAGAAATGAAGACATATCGATTTATACACCTAT
Found at i:15143053 original size:20 final size:20
Alignment explanation
Indices: 15143028--15143069 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
15143018 TTTCTAACAT
*
15143028 ATAA-TTTATATATTAAAATA
1 ATAATTTTATA-AATAAAATA
15143048 ATAATTTTATAAATAAAATA
1 ATAATTTTATAAATAAAATA
15143068 AT
1 AT
15143070 TTAAGTAGGA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 14 0.70
21 6 0.30
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (20 bp):
ATAATTTTATAAATAAAATA
Found at i:15144980 original size:23 final size:23
Alignment explanation
Indices: 15144940--15144996 Score: 84
Period size: 21 Copynumber: 2.6 Consensus size: 23
15144930 TAATACAAAA
15144940 ATAT-ATTAAAATATA-AAAATT
1 ATATAATTAAAATATATAAAATT
15144961 ATA-AATTAAAATATATAAAATT
1 ATATAATTAAAATATATAAAATT
*
15144983 ATATATTTAAAATA
1 ATATAATTAAAATA
15144997 AATTTCAGTA
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
21 14 0.44
22 9 0.28
23 9 0.28
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (23 bp):
ATATAATTAAAATATATAAAATT
Found at i:15146168 original size:20 final size:21
Alignment explanation
Indices: 15146131--15146178 Score: 53
Period size: 20 Copynumber: 2.3 Consensus size: 21
15146121 AAAATTAGTA
* *
15146131 AAAAAATATTTATCAAATTTT
1 AAAAATTATTTATCAAATATT
*
15146152 AAAAATTATTT-TTAAATATT
1 AAAAATTATTTATCAAATATT
*
15146172 AAGAATT
1 AAAAATT
15146179 GTACAAATTC
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
20 13 0.57
21 10 0.43
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.44
Consensus pattern (21 bp):
AAAAATTATTTATCAAATATT
Found at i:15147038 original size:16 final size:16
Alignment explanation
Indices: 15146995--15147038 Score: 51
Period size: 12 Copynumber: 3.0 Consensus size: 16
15146985 TTAAATGTAT
*
15146995 ATAAATATTTAAAAAA
1 ATAAATATATAAAAAA
15147011 ATAAA-A-AT--AAAA
1 ATAAATATATAAAAAA
15147023 ATAAATATATAAAAAA
1 ATAAATATATAAAAAA
15147039 TTCAGAAATA
Statistics
Matches: 23, Mismatches: 1, Indels: 8
0.72 0.03 0.25
Matches are distributed among these distances:
12 9 0.39
13 1 0.04
14 3 0.13
15 1 0.04
16 9 0.39
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (16 bp):
ATAAATATATAAAAAA
Found at i:15147216 original size:19 final size:19
Alignment explanation
Indices: 15147189--15147245 Score: 60
Period size: 19 Copynumber: 2.9 Consensus size: 19
15147179 AAATACTTGT
*
15147189 TTTTTAATTTTTATAATTA
1 TTTTCAATTTTTATAATTA
*
15147208 TTTTCAATTTATATATATTA
1 TTTTCAATTTTTATA-ATTA
* * *
15147228 TTTTGACTTTTTAAAATT
1 TTTTCAATTTTTATAATT
15147246 TATAATTATA
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
19 16 0.52
20 15 0.48
ACGTcount: A:0.32, C:0.04, G:0.02, T:0.63
Consensus pattern (19 bp):
TTTTCAATTTTTATAATTA
Found at i:15149490 original size:17 final size:18
Alignment explanation
Indices: 15149452--15149495 Score: 54
Period size: 18 Copynumber: 2.5 Consensus size: 18
15149442 TTATTTAATT
15149452 AATTAAATTAATTTTCTC
1 AATTAAATTAATTTTCTC
* *
15149470 AATTAGATTACTTTT-TC
1 AATTAAATTAATTTTCTC
*
15149487 AATTCAATT
1 AATTAAATT
15149496 CTAATTCTAT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
17 9 0.41
18 13 0.59
ACGTcount: A:0.36, C:0.11, G:0.02, T:0.50
Consensus pattern (18 bp):
AATTAAATTAATTTTCTC
Found at i:15151478 original size:44 final size:44
Alignment explanation
Indices: 15151415--15151502 Score: 140
Period size: 44 Copynumber: 2.0 Consensus size: 44
15151405 ACTAAATAAT
* *
15151415 CTATGAAGTGTGTTTTTAAGTCAATTGTTGCTATCTATTTATAG
1 CTATGAAGTGTGTTTTTAAGTCAACTGATGCTATCTATTTATAG
* *
15151459 CTATGAAGTGTGTTTTTAAGTCAACTGATGCTCTTTATTTATAG
1 CTATGAAGTGTGTTTTTAAGTCAACTGATGCTATCTATTTATAG
15151503 GGAGAGATAC
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
44 40 1.00
ACGTcount: A:0.25, C:0.10, G:0.18, T:0.47
Consensus pattern (44 bp):
CTATGAAGTGTGTTTTTAAGTCAACTGATGCTATCTATTTATAG
Found at i:15155730 original size:1 final size:1
Alignment explanation
Indices: 15155724--15155749 Score: 52
Period size: 1 Copynumber: 26.0 Consensus size: 1
15155714 GAGAGAGAGA
15155724 GGGGGGGGGGGGGGGGGGGGGGGGGG
1 GGGGGGGGGGGGGGGGGGGGGGGGGG
15155750 TATGAAGGAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 25 1.00
ACGTcount: A:0.00, C:0.00, G:1.00, T:0.00
Consensus pattern (1 bp):
G
Found at i:15156138 original size:2 final size:2
Alignment explanation
Indices: 15156131--15156156 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
15156121 GTATAAAACA
15156131 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
15156157 TAATTTTTAG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:15158720 original size:25 final size:24
Alignment explanation
Indices: 15158692--15158738 Score: 60
Period size: 24 Copynumber: 1.9 Consensus size: 24
15158682 TTTCTAATAC
*
15158692 AATTT-TTAATAGATTTTAATTAACT
1 AATTTATT-ATAG-TTTAAATTAACT
15158717 AATTTATTATAGTTTAAATTAA
1 AATTTATTATAGTTTAAATTAA
15158739 ACATAAATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
24 9 0.45
25 9 0.45
26 2 0.10
ACGTcount: A:0.43, C:0.02, G:0.04, T:0.51
Consensus pattern (24 bp):
AATTTATTATAGTTTAAATTAACT
Found at i:15165601 original size:18 final size:17
Alignment explanation
Indices: 15165578--15165635 Score: 80
Period size: 18 Copynumber: 3.3 Consensus size: 17
15165568 TTCAATAATA
15165578 TTTTTATCTCAAAAGTG
1 TTTTTATCTCAAAAGTG
* *
15165595 CTTTTTATCTCAAAAATAT
1 -TTTTTATCTCAAAAGT-G
15165614 TTTTTATCTCAAAAGTG
1 TTTTTATCTCAAAAGTG
15165631 TTTTT
1 TTTTT
15165636 GAGAAACAAT
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
17 5 0.14
18 30 0.86
ACGTcount: A:0.29, C:0.12, G:0.07, T:0.52
Consensus pattern (17 bp):
TTTTTATCTCAAAAGTG
Found at i:15165614 original size:35 final size:35
Alignment explanation
Indices: 15165569--15165635 Score: 109
Period size: 36 Copynumber: 1.9 Consensus size: 35
15165559 AATATTTTGT
*
15165569 TCAATAATA-TTTTTATCTCAAAAGTGCTTTTTATC
1 TCAAAAATATTTTTTATCTCAAAAGTG-TTTTTATC
15165604 TCAAAAATATTTTTTATCTCAAAAGTGTTTTT
1 TCAAAAATATTTTTTATCTCAAAAGTGTTTTT
15165636 GAGAAACAAT
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
35 13 0.43
36 17 0.57
ACGTcount: A:0.33, C:0.12, G:0.06, T:0.49
Consensus pattern (35 bp):
TCAAAAATATTTTTTATCTCAAAAGTGTTTTTATC
Found at i:15168092 original size:30 final size:30
Alignment explanation
Indices: 15168054--15168133 Score: 90
Period size: 30 Copynumber: 2.7 Consensus size: 30
15168044 AAGTAGCAGA
*
15168054 TACTTGACCGTAAAAATTAACGTTACTTGT
1 TACTTGACCATAAAAATTAACGTTACTTGT
* * * *
15168084 TTCTTGACCATAAGAGA-TAGCGTTATTTGT
1 TACTTGACCATAA-AAATTAACGTTACTTGT
*
15168114 TACTTGACCATAAGAATTAA
1 TACTTGACCATAAAAATTAA
15168134 AATTATAAAT
Statistics
Matches: 39, Mismatches: 9, Indels: 4
0.75 0.17 0.08
Matches are distributed among these distances:
29 1 0.03
30 36 0.92
31 2 0.05
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.36
Consensus pattern (30 bp):
TACTTGACCATAAAAATTAACGTTACTTGT
Found at i:15172138 original size:41 final size:43
Alignment explanation
Indices: 15172093--15172237 Score: 109
Period size: 43 Copynumber: 3.4 Consensus size: 43
15172083 AAGAACATGG
* *
15172093 TCTTTACCGACGCTATTTAT-GCAAA-GCCACT-AAAAACATTA
1 TCTTTACCGACGCT-TTTATCACAAACGCCACTAAAAAACATAA
** *
15172134 TCTTTAGTGACGCTTTTATCACAAACGCCGCTAAAAAACATAA
1 TCTTTACCGACGCTTTTATCACAAACGCCACTAAAAAACATAA
* * * * * * * *
15172177 TCTTTAAC-AGCACTTTTATAAAAAACACCGCTAAAGAACATGA
1 TCTTTACCGA-CGCTTTTATCACAAACGCCACTAAAAAACATAA
* *
15172220 TCTTTAACGGCGCTTTTA
1 TCTTTACCGACGCTTTTA
15172238 CCATAAATGT
Statistics
Matches: 84, Mismatches: 15, Indels: 8
0.79 0.14 0.07
Matches are distributed among these distances:
40 5 0.06
41 16 0.19
42 6 0.07
43 57 0.68
ACGTcount: A:0.37, C:0.23, G:0.11, T:0.30
Consensus pattern (43 bp):
TCTTTACCGACGCTTTTATCACAAACGCCACTAAAAAACATAA
Found at i:15172193 original size:43 final size:43
Alignment explanation
Indices: 15172146--15172341 Score: 178
Period size: 43 Copynumber: 4.6 Consensus size: 43
15172136 TTTAGTGACG
* *
15172146 CTTTTATCACAAACGCCGCTAAAAAACATAATCTTTAACAGCA
1 CTTTTATCACAAACGCCGCTAAAAAACATGATCTTTAACGGCA
* * * * *
15172189 CTTTTATAAAAAACACCGCTAAAGAACATGATCTTTAACGGCG
1 CTTTTATCACAAACGCCGCTAAAAAACATGATCTTTAACGGCA
* * * * * * * *
15172232 CTTTTACCATAAATGTCGCTAAAGAACATGGTCATTAACGACA
1 CTTTTATCACAAACGCCGCTAAAAAACATGATCTTTAACGGCA
* * * *
15172275 CTTTTCTCACAAATGCCGC-AAAAGAACATGGTCTTTAACGGCG
1 CTTTTATCACAAACGCCGCTAAAA-AACATGATCTTTAACGGCA
* * *
15172318 TTTTTCTCACAAACACCGCTAAAA
1 CTTTTATCACAAACGCCGCTAAAA
15172342 TTAACAGATT
Statistics
Matches: 123, Mismatches: 28, Indels: 3
0.80 0.18 0.02
Matches are distributed among these distances:
42 3 0.02
43 116 0.94
44 4 0.03
ACGTcount: A:0.37, C:0.24, G:0.12, T:0.27
Consensus pattern (43 bp):
CTTTTATCACAAACGCCGCTAAAAAACATGATCTTTAACGGCA
Found at i:15179926 original size:36 final size:37
Alignment explanation
Indices: 15179886--15179968 Score: 100
Period size: 36 Copynumber: 2.3 Consensus size: 37
15179876 AAACATAAAA
15179886 TTAAAATAATTT-AATTGTTTTTAGTTTATATAAATT
1 TTAAAATAATTTAAATTGTTTTTAGTTTATATAAATT
* * *
15179922 TTAAAAT--TTTAGAATTTTTTTTAGTTTATGTAAGTT
1 TTAAAATAATTTA-AATTGTTTTTAGTTTATATAAATT
*
15179958 GTAAAATAATT
1 TTAAAATAATT
15179969 GTTAATATTA
Statistics
Matches: 39, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
34 3 0.08
36 34 0.87
38 2 0.05
ACGTcount: A:0.37, C:0.00, G:0.08, T:0.54
Consensus pattern (37 bp):
TTAAAATAATTTAAATTGTTTTTAGTTTATATAAATT
Found at i:15180128 original size:41 final size:41
Alignment explanation
Indices: 15180083--15180289 Score: 195
Period size: 41 Copynumber: 5.0 Consensus size: 41
15180073 ACATAAAGAT
*
15180083 CGCTAATGTTCTTG-CCTTTAACGGTGTTTTCTTATAAACGC
1 CGCTAATGCTC-TGACCTTTAACGGTGTTTTCTTATAAACGC
* * * * *
15180124 CGCTAATGCTCTGAACTTTAGCGGTATTTT-TTCGTAAACAC
1 CGCTAATGCTCTGACCTTTAACGGTGTTTTCTT-ATAAACGC
* * * *
15180165 CGTTAATGCTCTGATCTTTAACGGCT-TTTTCTCATAAAAGC
1 CGCTAATGCTCTGACCTTTAACGG-TGTTTTCTTATAAACGC
* * * * *
15180206 CGCTAATGCTCTGACTTTTAGCGGCGTTTCCTCATAAACGC
1 CGCTAATGCTCTGACCTTTAACGGTGTTTTCTTATAAACGC
* * *
15180247 TGCTAATGCTCTGACCTTTAACGGCGTTTTTCCTATAAACGC
1 CGCTAATGCTCTGACCTTTAACGGTG-TTTTCTTATAAACGC
15180289 C
1 C
15180290 ATTATTGCTT
Statistics
Matches: 133, Mismatches: 27, Indels: 11
0.78 0.16 0.06
Matches are distributed among these distances:
40 4 0.03
41 115 0.86
42 14 0.11
ACGTcount: A:0.22, C:0.25, G:0.17, T:0.37
Consensus pattern (41 bp):
CGCTAATGCTCTGACCTTTAACGGTGTTTTCTTATAAACGC
Found at i:15180244 original size:82 final size:82
Alignment explanation
Indices: 15180074--15180278 Score: 227
Period size: 82 Copynumber: 2.5 Consensus size: 82
15180064 CTGTTTTTCA
* * * * *
15180074 CATAAAGATCGCTAATGTTCTTG-CCTTTAACGG-TGTTTTCTTATAAACGCCGCTAATGCTCTG
1 CATAAACACCGCTAATGCTC-TGACCTTTAACGGCT-TTTTCTCATAAAAGCCGCTAATGCTCTG
* **
15180137 AACTTTAGCGGTATTTTTT
64 AACTTTAGCGGCATTTCCT
* * *
15180156 CGTAAACACCGTTAATGCTCTGATCTTTAACGGCTTTTTCTCATAAAAGCCGCTAATGCTCTG-A
1 CATAAACACCGCTAATGCTCTGACCTTTAACGGCTTTTTCTCATAAAAGCCGCTAATGCTCTGAA
*
15180220 CTTTTAGCGGCGTTTCCT
66 C-TTTAGCGGCATTTCCT
* *
15180238 CATAAACGCTGCTAATGCTCTGACCTTTAACGGCGTTTTTC
1 CATAAACACCGCTAATGCTCTGACCTTTAACGGC-TTTTTC
15180279 CTATAAACGC
Statistics
Matches: 102, Mismatches: 17, Indels: 7
0.81 0.13 0.06
Matches are distributed among these distances:
81 4 0.04
82 91 0.89
83 7 0.07
ACGTcount: A:0.22, C:0.23, G:0.17, T:0.37
Consensus pattern (82 bp):
CATAAACACCGCTAATGCTCTGACCTTTAACGGCTTTTTCTCATAAAAGCCGCTAATGCTCTGAA
CTTTAGCGGCATTTCCT
Found at i:15182721 original size:2 final size:2
Alignment explanation
Indices: 15182657--15182703 Score: 94
Period size: 2 Copynumber: 23.5 Consensus size: 2
15182647 TGTCATAGCA
15182657 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
15182699 AT AT A
1 AT AT A
15182704 AATCCTAAAA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 45 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:15185881 original size:253 final size:253
Alignment explanation
Indices: 15185525--15186031 Score: 689
Period size: 253 Copynumber: 2.0 Consensus size: 253
15185515 TTTTTAGTGT
* *
15185525 ATTTGATGTATTATATTTTTTAATTTATTTTTATATAAAAAATAATTTAAAAAATTTAATACGGA
1 ATTTGATGTATTATATTTTTTAATTTATTTTTATATAAAAAATAATTAAAAAAATTTAATACAGA
* ** *
15185590 CGAGTAAGGTTACGCTCAAGTGTAGCATTTTTAATTTGGATCGGGCTTGGGTAGAACTTTAGGCC
66 CGAGTAAGATTACGCTCAAGTGTAGCATTTTTAATTTGGATCAAGCTTGGATAGAACTTTAGGCC
* * * * **
15185655 CTTTTTCGAGTTGGGCTCGAGCCTAGAAAACAAGCCTAAAATTTTTTATTGACCCAGCCCTACCC
131 CCTTTTCAAGTCGGGCTCGAGCCTAAAAAACAAGCCTAAAATTTTGCATTGACCCAGCCCTACCC
* * *
15185720 ATGATCAAG-TTTAGATAAGATATTTCAAAATAGTTATATAAGGGTCTAATC-TTTACAA
196 ATAAT-AAGATTTAGATAAGACATTTCAAAATAGTCATATAAGGGTCTAA-CATTTACAA
* *
15185778 ATTTGATGTATTATA-TTTTTAATTTGTTTTTATATGAAAAATAATCTAAAAAAATTTAATACAG
1 ATTTGATGTATTATATTTTTTAATTTATTTTTATATAAAAAATAAT-TAAAAAAATTTAATACAG
* * * * * *
15185842 ATGGGTAAGATTAGGCTCGAGTTTAG-ATTTTTTAATTTGGGTCAAGCTTGGATAGAACTTTAGG
65 ACGAGTAAGATTACGCTCAAGTGTAGCA-TTTTTAATTTGGATCAAGCTTGGATAGAACTTTAGG
* *
15185906 CCCCTTTTCAAGTCGGGCTCGAGCCTAAAAAACAAGCCTAAGATTTTGCATTGACCTAGCCCTAC
129 CCCCTTTTCAAGTCGGGCTCGAGCCTAAAAAACAAGCCTAAAATTTTGCATTGACCCAGCCCTAC
* * * *
15185971 CCATAATTAGATTTAGATAATACCTTTCAAAATAGTCATATAGGGGTCTAACATTTACAA
194 CCATAATAAGATTTAGATAAGACATTTCAAAATAGTCATATAAGGGTCTAACATTTACAA
15186031 A
1 A
15186032 AGTACTCAAA
Statistics
Matches: 221, Mismatches: 29, Indels: 8
0.86 0.11 0.03
Matches are distributed among these distances:
252 32 0.14
253 189 0.86
ACGTcount: A:0.34, C:0.14, G:0.16, T:0.36
Consensus pattern (253 bp):
ATTTGATGTATTATATTTTTTAATTTATTTTTATATAAAAAATAATTAAAAAAATTTAATACAGA
CGAGTAAGATTACGCTCAAGTGTAGCATTTTTAATTTGGATCAAGCTTGGATAGAACTTTAGGCC
CCTTTTCAAGTCGGGCTCGAGCCTAAAAAACAAGCCTAAAATTTTGCATTGACCCAGCCCTACCC
ATAATAAGATTTAGATAAGACATTTCAAAATAGTCATATAAGGGTCTAACATTTACAA
Found at i:15189659 original size:15 final size:15
Alignment explanation
Indices: 15189639--15189677 Score: 53
Period size: 14 Copynumber: 2.7 Consensus size: 15
15189629 TGCTTTGGAG
15189639 GATATTCTTGTTCAT
1 GATATTCTTGTTCAT
*
15189654 GATATTC-TGTTGAT
1 GATATTCTTGTTCAT
*
15189668 TATATTCTTG
1 GATATTCTTG
15189678 AAACTTGCAG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
14 12 0.57
15 9 0.43
ACGTcount: A:0.21, C:0.10, G:0.15, T:0.54
Consensus pattern (15 bp):
GATATTCTTGTTCAT
Found at i:15192434 original size:18 final size:18
Alignment explanation
Indices: 15192413--15192447 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
15192403 ATATTTTTAA
*
15192413 TTAAATTTATATTTAATC
1 TTAAATTTAGATTTAATC
*
15192431 TTAATTTTAGATTTAAT
1 TTAAATTTAGATTTAAT
15192448 TCTGATAAAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.37, C:0.03, G:0.03, T:0.57
Consensus pattern (18 bp):
TTAAATTTAGATTTAATC
Found at i:15193321 original size:29 final size:30
Alignment explanation
Indices: 15193289--15193354 Score: 80
Period size: 30 Copynumber: 2.2 Consensus size: 30
15193279 TAATTTAATG
* *
15193289 TGCAATTGTATAAAT-AAACTTTGATTTTA
1 TGCAATTGTATAAATCAAAATTTGATTTGA
* *
15193318 TGCAATTTTATACATCAAAATTTGATTTGA
1 TGCAATTGTATAAATCAAAATTTGATTTGA
*
15193348 TCCAATT
1 TGCAATT
15193355 CTTGTAAATT
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
29 13 0.42
30 18 0.58
ACGTcount: A:0.36, C:0.11, G:0.09, T:0.44
Consensus pattern (30 bp):
TGCAATTGTATAAATCAAAATTTGATTTGA
Found at i:15193574 original size:29 final size:30
Alignment explanation
Indices: 15193542--15193600 Score: 84
Period size: 31 Copynumber: 2.0 Consensus size: 30
15193532 TCACGTGTAT
* *
15193542 AATTGCATA-AAATTAAAATTCATGTATAC
1 AATTACATATAAATCAAAATTCATGTATAC
15193571 AATTACATATTAAATCAAAATTCATGTATA
1 AATTACATA-TAAATCAAAATTCATGTATA
15193601 ATTTTAAAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
29 8 0.31
31 18 0.69
ACGTcount: A:0.49, C:0.10, G:0.05, T:0.36
Consensus pattern (30 bp):
AATTACATATAAATCAAAATTCATGTATAC
Found at i:15197355 original size:4 final size:4
Alignment explanation
Indices: 15197346--15197384 Score: 51
Period size: 4 Copynumber: 9.8 Consensus size: 4
15197336 TAAGAACAGA
* * *
15197346 GTAT GTAT GTAT GCAT GTAG GTAT GCAT GTAT GTAT GTA
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTA
15197385 CATGATTCCT
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
4 29 1.00
ACGTcount: A:0.26, C:0.05, G:0.28, T:0.41
Consensus pattern (4 bp):
GTAT
Found at i:15197369 original size:12 final size:12
Alignment explanation
Indices: 15197348--15197382 Score: 61
Period size: 12 Copynumber: 2.9 Consensus size: 12
15197338 AGAACAGAGT
15197348 ATGTATGTATGC
1 ATGTATGTATGC
*
15197360 ATGTAGGTATGC
1 ATGTATGTATGC
15197372 ATGTATGTATG
1 ATGTATGTATG
15197383 TACATGATTC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.26, C:0.06, G:0.29, T:0.40
Consensus pattern (12 bp):
ATGTATGTATGC
Found at i:15199255 original size:97 final size:97
Alignment explanation
Indices: 15199089--15199282 Score: 388
Period size: 97 Copynumber: 2.0 Consensus size: 97
15199079 GCGTTTGGAG
15199089 AAGGTACTTACCTTAGTAGCTGTTTTAACATCCAATCGTAGCTTAGGTCAAAGCGTGAATATGAA
1 AAGGTACTTACCTTAGTAGCTGTTTTAACATCCAATCGTAGCTTAGGTCAAAGCGTGAATATGAA
15199154 AAATTTATTAATCAGATCATTATTTTTTATAT
66 AAATTTATTAATCAGATCATTATTTTTTATAT
15199186 AAGGTACTTACCTTAGTAGCTGTTTTAACATCCAATCGTAGCTTAGGTCAAAGCGTGAATATGAA
1 AAGGTACTTACCTTAGTAGCTGTTTTAACATCCAATCGTAGCTTAGGTCAAAGCGTGAATATGAA
15199251 AAATTTATTAATCAGATCATTATTTTTTATAT
66 AAATTTATTAATCAGATCATTATTTTTTATAT
15199283 TCTAATTTAG
Statistics
Matches: 97, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
97 97 1.00
ACGTcount: A:0.34, C:0.13, G:0.14, T:0.38
Consensus pattern (97 bp):
AAGGTACTTACCTTAGTAGCTGTTTTAACATCCAATCGTAGCTTAGGTCAAAGCGTGAATATGAA
AAATTTATTAATCAGATCATTATTTTTTATAT
Found at i:15202489 original size:82 final size:82
Alignment explanation
Indices: 15202391--15202546 Score: 222
Period size: 82 Copynumber: 1.9 Consensus size: 82
15202381 AAGAGAGTCG
* * * ** * *
15202391 AAGTTAAATTGTAATTTTTATAATAATAAAAATATAATTTTTAGAGGATTAAATCAAAATGTTGT
1 AAGTTAAATTATAATTTTTATAATAATAAAAATATAATTGTTAAAAAATTAAATAAAAATGTTAT
15202456 CATTTTTAAGGGGGTCA
66 CATTTTTAAGGGGGTCA
* * *
15202473 AAGTTAAATTATAATTTTTATGATAATAAAAATGTAATTGTTAAAAAATTAAATAAAAATTTTAT
1 AAGTTAAATTATAATTTTTATAATAATAAAAATATAATTGTTAAAAAATTAAATAAAAATGTTAT
15202538 CATTTTTAA
66 CATTTTTAA
15202547 ATAGGATCAA
Statistics
Matches: 64, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
82 64 1.00
ACGTcount: A:0.46, C:0.03, G:0.10, T:0.42
Consensus pattern (82 bp):
AAGTTAAATTATAATTTTTATAATAATAAAAATATAATTGTTAAAAAATTAAATAAAAATGTTAT
CATTTTTAAGGGGGTCA
Found at i:15202572 original size:82 final size:82
Alignment explanation
Indices: 15202391--15202575 Score: 212
Period size: 82 Copynumber: 2.3 Consensus size: 82
15202381 AAGAGAGTCG
* * * ** * *
15202391 AAGTTAAATTGTAATTTTTATAATAATAAAAATATAATTTTTAGAGGATTAAATCAAAATGTTGT
1 AAGTTAAATTATAATTTTTATAATAATAAAAATATAATTGTTAAAAAATTAAATAAAAATGTTAT
* *
15202456 CATTTTTAAGGGGGTCA
66 CATTTTTAAGAGGATCA
* * *
15202473 AAGTTAAATTATAATTTTTATGATAATAAAAATGTAATTGTTAAAAAATTAAATAAAAATTTTAT
1 AAGTTAAATTATAATTTTTATAATAATAAAAATATAATTGTTAAAAAATTAAATAAAAATGTTAT
*
15202538 CATTTTTAAATAGGATCA
66 CATTTTT-AAGAGGATCA
*
15202556 AAGTGT-AATT-TTATTTTTAT
1 AAGT-TAAATTATAATTTTTAT
15202576 TAATTTAAAA
Statistics
Matches: 87, Mismatches: 14, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
82 71 0.82
83 15 0.17
84 1 0.01
ACGTcount: A:0.44, C:0.03, G:0.11, T:0.43
Consensus pattern (82 bp):
AAGTTAAATTATAATTTTTATAATAATAAAAATATAATTGTTAAAAAATTAAATAAAAATGTTAT
CATTTTTAAGAGGATCA
Found at i:15205855 original size:23 final size:21
Alignment explanation
Indices: 15205822--15205863 Score: 50
Period size: 23 Copynumber: 1.9 Consensus size: 21
15205812 TTTTAAATAA
15205822 AAAAATAAGGA-TCAAATTCTT
1 AAAAATAAGGACT-AAATTCTT
15205843 AAAAATAAGAGGACTAAATTC
1 AAAAAT-A-AGGACTAAATTC
15205864 AAAATGTATT
Statistics
Matches: 18, Mismatches: 0, Indels: 4
0.82 0.00 0.18
Matches are distributed among these distances:
21 6 0.33
22 1 0.06
23 10 0.56
24 1 0.06
ACGTcount: A:0.55, C:0.10, G:0.12, T:0.24
Consensus pattern (21 bp):
AAAAATAAGGACTAAATTCTT
Found at i:15206046 original size:18 final size:17
Alignment explanation
Indices: 15206020--15206059 Score: 64
Period size: 18 Copynumber: 2.4 Consensus size: 17
15206010 ATTCAATCGG
15206020 TTTTT-TATTTTTAAAA
1 TTTTTCTATTTTTAAAA
15206036 TATTTTCTATTTTTAAAA
1 T-TTTTCTATTTTTAAAA
15206054 TTTTTC
1 TTTTTC
15206060 AATGATTTAT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
16 1 0.05
17 9 0.41
18 12 0.55
ACGTcount: A:0.28, C:0.05, G:0.00, T:0.68
Consensus pattern (17 bp):
TTTTTCTATTTTTAAAA
Found at i:15222676 original size:41 final size:41
Alignment explanation
Indices: 15222619--15222702 Score: 159
Period size: 41 Copynumber: 2.0 Consensus size: 41
15222609 ATAGTCAATA
15222619 TTTATAAAGTTTTCTATGGTTTTGCAAATGAAATCTTTTAC
1 TTTATAAAGTTTTCTATGGTTTTGCAAATGAAATCTTTTAC
*
15222660 TTTATAAAGTTTTCTATGGTTTTGTAAATGAAATCTTTTAC
1 TTTATAAAGTTTTCTATGGTTTTGCAAATGAAATCTTTTAC
15222701 TT
1 TT
15222703 AAAATTGAAC
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 42 1.00
ACGTcount: A:0.29, C:0.08, G:0.12, T:0.51
Consensus pattern (41 bp):
TTTATAAAGTTTTCTATGGTTTTGCAAATGAAATCTTTTAC
Found at i:15223122 original size:19 final size:20
Alignment explanation
Indices: 15223076--15223124 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 20
15223066 GAAAATAAAA
*
15223076 TTTTATTTTATTAATTACTT
1 TTTTATTTTATCAATTACTT
** *
15223096 TTAAATTTTATCAATT-GTT
1 TTTTATTTTATCAATTACTT
15223115 TTTTATTTTA
1 TTTTATTTTA
15223125 ATTCTAAAAT
Statistics
Matches: 23, Mismatches: 6, Indels: 1
0.77 0.20 0.03
Matches are distributed among these distances:
19 10 0.43
20 13 0.57
ACGTcount: A:0.27, C:0.04, G:0.02, T:0.67
Consensus pattern (20 bp):
TTTTATTTTATCAATTACTT
Found at i:15224281 original size:31 final size:31
Alignment explanation
Indices: 15224246--15224304 Score: 91
Period size: 31 Copynumber: 1.9 Consensus size: 31
15224236 GTTATTTAGT
* * *
15224246 ACCTGAGTTTGATTTTAATATTTAATTTGAC
1 ACCTGAATTTAATTTTAATATTCAATTTGAC
15224277 ACCTGAATTTAATTTTAATATTCAATTT
1 ACCTGAATTTAATTTTAATATTCAATTT
15224305 ATTACACAGA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.32, C:0.10, G:0.08, T:0.49
Consensus pattern (31 bp):
ACCTGAATTTAATTTTAATATTCAATTTGAC
Found at i:15229340 original size:23 final size:22
Alignment explanation
Indices: 15229296--15229340 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 22
15229286 ATTGCGTGAC
*
15229296 AATAAAAAATTTAAAATTAAAA
1 AATAAAAAATTTAAAATAAAAA
*
15229318 AATATAAAAATTTATAA-AAAAA
1 AATA-AAAAATTTAAAATAAAAA
15229340 A
1 A
15229341 TGAATTGTCA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 9 0.45
23 11 0.55
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (22 bp):
AATAAAAAATTTAAAATAAAAA
Found at i:15232747 original size:2 final size:2
Alignment explanation
Indices: 15232740--15232777 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
15232730 CACTAATCAA
15232740 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
15232778 TATGCATTTG
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:15232861 original size:19 final size:18
Alignment explanation
Indices: 15232837--15232875 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 18
15232827 TCAAAATTTT
15232837 ATTTTAATATAATATT-TAC
1 ATTTTAAT-T-ATATTATAC
15232856 ATTTTAATTATATTATAC
1 ATTTTAATTATATTATAC
15232874 AT
1 AT
15232876 ACTTCATTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 5 0.26
18 6 0.32
19 8 0.42
ACGTcount: A:0.41, C:0.05, G:0.00, T:0.54
Consensus pattern (18 bp):
ATTTTAATTATATTATAC
Done.