Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr13 124041150
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: 124041150
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 335 characters in sequence are not A, C, G, or T
File 64 of 410
Found at i:17651690 original size:40 final size:40
Alignment explanation
Indices: 17651605--17651755 Score: 141
Period size: 40 Copynumber: 3.8 Consensus size: 40
17651595 AATTGAATGA
* * * *
17651605 TATCCGGGCTAAGCCCCGAAGACAATTATGCTG-GAAATTA-
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC-GAGACA-TAC
* * *
17651645 TATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC-TAC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC--GAGACATAC
*
17651686 -ATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGACATTC
1 TATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGACATAC
*
17651725 TATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC
17651756 ACATGGTTAT
Statistics
Matches: 92, Mismatches: 12, Indels: 14
0.78 0.10 0.12
Matches are distributed among these distances:
38 3 0.03
39 5 0.05
40 80 0.87
41 3 0.03
42 1 0.01
ACGTcount: A:0.26, C:0.25, G:0.27, T:0.22
Consensus pattern (40 bp):
TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGACATAC
Found at i:17651739 original size:80 final size:80
Alignment explanation
Indices: 17651606--17651755 Score: 205
Period size: 80 Copynumber: 1.9 Consensus size: 80
17651596 ATTGAATGAT
* *
17651606 ATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAATTATATCCGGGTTAAGACCCGAAGGCAAT
1 ATCCGGGCTAAGACCCGAAGACAATTATGCTGGAAATTATATCCGGGCTAAGACCCGAAGGCAAT
17651671 TGTGCTAGTGGCTAC
66 TGTGCTAGTGGCTAC
* * * *
17651686 ATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGACATTCTATCCGGGCTAAGACCCGAAGGCA
1 ATCCGGGCTAAGACCCGAAGACAATT-ATGCTG-GAAATTATATCCGGGCTAAGACCCGAAGGCA
*
17651749 TTTGTGC
64 ATTGTGC
17651756 ACATGGTTAT
Statistics
Matches: 61, Mismatches: 7, Indels: 4
0.85 0.10 0.06
Matches are distributed among these distances:
79 4 0.07
80 57 0.93
ACGTcount: A:0.27, C:0.25, G:0.27, T:0.21
Consensus pattern (80 bp):
ATCCGGGCTAAGACCCGAAGACAATTATGCTGGAAATTATATCCGGGCTAAGACCCGAAGGCAAT
TGTGCTAGTGGCTAC
Found at i:17651769 original size:40 final size:40
Alignment explanation
Indices: 17651604--17651771 Score: 139
Period size: 40 Copynumber: 4.2 Consensus size: 40
17651594 AAATTGAATG
* * *
17651604 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTG-GAA--ATT
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCGAATGGTT
* * * * *
17651644 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATGGTT
* * **
17651684 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGA-CATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-ATGGTT
*
17651724 CTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACATGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-ATGGTT
17651764 ATATCCGG
1 ATATCCGG
17651772 TTATATTCCA
Statistics
Matches: 99, Mismatches: 24, Indels: 10
0.74 0.18 0.08
Matches are distributed among these distances:
37 2 0.02
38 3 0.03
39 4 0.04
40 90 0.91
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATGGTT
Found at i:17651770 original size:80 final size:80
Alignment explanation
Indices: 17651604--17651771 Score: 198
Period size: 80 Copynumber: 2.1 Consensus size: 80
17651594 AAATTGAATG
* *
17651604 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAATTATATCCGGGTTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTGGAAATTATATCCGGGCTAAGACCCGAAGGCA
*
17651669 ATTGTGCTAGTGGCT
66 ATTGTGCTAATGGCT
* * * * *
17651684 ACATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGACATTCTATCCGGGCTAAGACCCGAAGG
1 ATATCCGGGCTAAGACCCGAAGACAATT-ATGCTG-GAAATTATATCCGGGCTAAGACCCGAAGG
* *
17651747 CATTTGTGC-ACATGGTT
64 CAATTGTGCTA-ATGGCT
17651764 ATATCCGG
1 ATATCCGG
17651772 TTATATTCCA
Statistics
Matches: 74, Mismatches: 11, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
79 5 0.07
80 69 0.93
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.23
Consensus pattern (80 bp):
ATATCCGGGCTAAGACCCGAAGACAATTATGCTGGAAATTATATCCGGGCTAAGACCCGAAGGCA
ATTGTGCTAATGGCT
Found at i:17657431 original size:62 final size:62
Alignment explanation
Indices: 17657365--17657528 Score: 188
Period size: 62 Copynumber: 2.6 Consensus size: 62
17657355 GGTGCAGGGG
* * * * *
17657365 TCACATGGGCTGACACATGGGCGTGTGTCCAGGTCGTGTAACTTACTGACTTTGGATTTG-GA
1 TCACACGGGCTGACACATGGGCGTGTGTCCA-GTCGTGTAACTCACTAACTTTGAATCTGAGA
* * * *
17657427 TCACACAGGCTAACACACGGGCATGTGTCCAAGTCGTGTAACTCACTAACTTTGAATCTGAGA
1 TCACACGGGCTGACACATGGGCGTGTGTCC-AGTCGTGTAACTCACTAACTTTGAATCTGAGA
* *
17657490 -CATACGGGCTGACACATGGGCGTGCGTCCAGTCTGTGTA
1 TCACACGGGCTGACACATGGGCGTGTGTCCAGTC-GTGTA
17657529 GAGCCACACG
Statistics
Matches: 84, Mismatches: 15, Indels: 6
0.80 0.14 0.06
Matches are distributed among these distances:
61 4 0.05
62 77 0.92
63 3 0.04
ACGTcount: A:0.23, C:0.23, G:0.27, T:0.26
Consensus pattern (62 bp):
TCACACGGGCTGACACATGGGCGTGTGTCCAGTCGTGTAACTCACTAACTTTGAATCTGAGA
Found at i:17658272 original size:7 final size:7
Alignment explanation
Indices: 17658260--17658285 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
17658250 TCTCTTCCCA
17658260 TCCCACC
1 TCCCACC
17658267 TCCCACC
1 TCCCACC
17658274 TCCCACC
1 TCCCACC
17658281 TCCCA
1 TCCCA
17658286 TCTACCCCAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.15, C:0.69, G:0.00, T:0.15
Consensus pattern (7 bp):
TCCCACC
Found at i:17659766 original size:92 final size:93
Alignment explanation
Indices: 17659609--17659779 Score: 290
Period size: 92 Copynumber: 1.8 Consensus size: 93
17659599 CGCCCATAAG
* * *
17659609 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATGAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
17659674 ACGAGTT-GGATGCCTAGTTACATCTTA
66 ACGAGTTCGGATGCCTAGTTACATCTTA
* *
17659701 CGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
17659766 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
17659780 TCAACCATCC
Statistics
Matches: 73, Mismatches: 5, Indels: 1
0.92 0.06 0.01
Matches are distributed among these distances:
92 67 0.92
93 6 0.08
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.22
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTTA
Found at i:17659776 original size:46 final size:46
Alignment explanation
Indices: 17659602--17659776 Score: 196
Period size: 46 Copynumber: 3.8 Consensus size: 46
17659592 TGTAACCCGC
* * * *
17659602 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
* * * *
17659648 CCATGAGTGAACTCGGACTCAACTCAACGAGTT-GGATGCCTAGTTACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-ATTTGCAT
*
17659697 -C-TTA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
*
17659740 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
17659777 TGCTCAACCA
Statistics
Matches: 107, Mismatches: 14, Indels: 16
0.78 0.10 0.12
Matches are distributed among these distances:
43 6 0.06
44 2 0.02
45 4 0.04
46 84 0.79
47 5 0.05
48 2 0.02
49 4 0.04
ACGTcount: A:0.29, C:0.28, G:0.22, T:0.22
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
Found at i:17659795 original size:46 final size:46
Alignment explanation
Indices: 17659610--17659795 Score: 138
Period size: 46 Copynumber: 4.0 Consensus size: 46
17659600 GCCCATAAGC
* ** * *
17659610 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTC--GCATCCATGAGT
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCC-T-AGT
* *
17659656 GAACTCGGACTCAACTCAACGAGTT-GGATGC-CTAGTTA-CATCTTA-C
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCTC-A---ACCATCCTAGT
* * *
17659702 GAACTCGGACTCAACTCAACGAGTTCGGACAT-TTGCATCCAT--AAGT
1 GAACTCGGACTCAACTCAACGAGTTCGG--ATGCT-CAACCATCCTAGT
17659748 GAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCTAGT
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCTAGT
17659794 GA
1 GA
17659796 CATGTCACTT
Statistics
Matches: 111, Mismatches: 13, Indels: 32
0.71 0.08 0.21
Matches are distributed among these distances:
44 9 0.08
45 5 0.05
46 82 0.74
47 6 0.05
48 1 0.01
49 7 0.06
50 1 0.01
ACGTcount: A:0.28, C:0.28, G:0.22, T:0.23
Consensus pattern (46 bp):
GAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCTAGT
Found at i:17662188 original size:15 final size:15
Alignment explanation
Indices: 17662156--17662219 Score: 89
Period size: 15 Copynumber: 4.4 Consensus size: 15
17662146 CAAAGATAAC
17662156 AAGAAA-CC-GAATA
1 AAGAAATCCAGAATA
17662169 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
*
17662184 GAGAAATCCAGAATA
1 AAGAAATCCAGAATA
17662199 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
17662214 AAGAAA
1 AAGAAA
17662220 CCAAGATACG
Statistics
Matches: 45, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
13 6 0.13
14 3 0.07
15 35 0.78
16 1 0.02
ACGTcount: A:0.61, C:0.12, G:0.16, T:0.11
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:17665301 original size:93 final size:93
Alignment explanation
Indices: 17665142--17665313 Score: 299
Period size: 93 Copynumber: 1.8 Consensus size: 93
17665132 CGCCCATAAG
* * *
17665142 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATGAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
17665207 ACGAGTTCGGATGCCTAGTTACATCTTA
66 ACGAGTTCGGATGCCTAGTTACATCTTA
* *
17665235 CGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
17665300 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
17665314 TCAACCATCC
Statistics
Matches: 74, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.22
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTTA
Found at i:17665310 original size:46 final size:46
Alignment explanation
Indices: 17665135--17665310 Score: 205
Period size: 46 Copynumber: 3.8 Consensus size: 46
17665125 TGTAACCCGC
* * * *
17665135 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
* * * *
17665181 CCATGAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-ATTTGCAT
*
17665231 -C-TTA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
*
17665274 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
17665311 TGCTCAACCA
Statistics
Matches: 109, Mismatches: 14, Indels: 14
0.80 0.10 0.10
Matches are distributed among these distances:
43 6 0.06
44 2 0.02
45 2 0.02
46 62 0.57
47 29 0.27
48 2 0.02
49 2 0.02
50 4 0.04
ACGTcount: A:0.28, C:0.28, G:0.22, T:0.22
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
Found at i:17665329 original size:46 final size:46
Alignment explanation
Indices: 17665143--17665329 Score: 147
Period size: 46 Copynumber: 4.0 Consensus size: 46
17665133 GCCCATAAGC
* ** * *
17665143 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTC--GCATCCATGAGT
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCC-T-AGT
* *
17665189 GAACTCGGACTCAACTCAACGAGTTCGGATGC-CTAGTTA-CATCTTA-C
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCTC-A---ACCATCCTAGT
* * *
17665236 GAACTCGGACTCAACTCAACGAGTTCGGACAT-TTGCATCCAT--AAGT
1 GAACTCGGACTCAACTCAACGAGTTCGG--ATGCT-CAACCATCCTAGT
17665282 GAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCTAGT
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCTAGT
17665328 GA
1 GA
17665330 CATGTCACTT
Statistics
Matches: 113, Mismatches: 13, Indels: 30
0.72 0.08 0.19
Matches are distributed among these distances:
44 8 0.07
45 3 0.03
46 61 0.54
47 31 0.27
48 1 0.01
49 4 0.04
50 5 0.04
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.22
Consensus pattern (46 bp):
GAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCTAGT
Found at i:17674181 original size:40 final size:40
Alignment explanation
Indices: 17674115--17674265 Score: 155
Period size: 40 Copynumber: 3.8 Consensus size: 40
17674105 AAATTGAATG
* *
17674115 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGAAATT
* * ****
17674154 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGAAATT
* *
17674194 ACATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGACATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GAAATT
* *
17674234 CTATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC
17674266 ACATGGTTAT
Statistics
Matches: 90, Mismatches: 18, Indels: 7
0.78 0.16 0.06
Matches are distributed among these distances:
39 16 0.18
40 72 0.80
41 2 0.02
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGAAATT
Found at i:17674249 original size:80 final size:79
Alignment explanation
Indices: 17674117--17674265 Score: 203
Period size: 80 Copynumber: 1.9 Consensus size: 79
17674107 ATTGAATGAT
*
17674117 ATCCGGGCTAAGCCCGAAGACAATTATGCTGGAAATTATATCCGGGTTAAGACCCGAAGGCAATT
1 ATCCGGGCTAAGCCCGAAGACAATTATGCTGGAAATTATATCCGGGCTAAGACCCGAAGGCAATT
17674182 GTGCTAGTGGCTAC
66 GTGCTAGTGGCTAC
* * * *
17674196 ATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGACATTCTATCCGGGCTAAGACCCGAAGGCA
1 ATCCGGGCTAAG-CCCGAAGACAATT-ATGCTG-GAAATTATATCCGGGCTAAGACCCGAAGGCA
*
17674259 TTTGTGC
63 ATTGTGC
17674266 ACATGGTTAT
Statistics
Matches: 61, Mismatches: 6, Indels: 5
0.85 0.08 0.07
Matches are distributed among these distances:
79 16 0.26
80 45 0.74
ACGTcount: A:0.27, C:0.24, G:0.28, T:0.21
Consensus pattern (79 bp):
ATCCGGGCTAAGCCCGAAGACAATTATGCTGGAAATTATATCCGGGCTAAGACCCGAAGGCAATT
GTGCTAGTGGCTAC
Found at i:17674280 original size:80 final size:79
Alignment explanation
Indices: 17674115--17674281 Score: 196
Period size: 80 Copynumber: 2.1 Consensus size: 79
17674105 AAATTGAATG
*
17674115 ATATCCGGGCTAAGCCCGAAGACAATTATGCTGGAAATTATATCCGGGTTAAGACCCGAAGGCAA
1 ATATCCGGGCTAAGCCCGAAGACAATTATGCTGGAAATTATATCCGGGCTAAGACCCGAAGGCAA
*
17674180 TTGTGCTAGTGGCT
66 TTGTGCTAATGGCT
* * * * *
17674194 ACATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGACATTCTATCCGGGCTAAGACCCGAAGG
1 ATATCCGGGCTAAG-CCCGAAGACAATT-ATGCTG-GAAATTATATCCGGGCTAAGACCCGAAGG
* *
17674257 CATTTGTGC-ACATGGTT
63 CAATTGTGCTA-ATGGCT
17674274 ATATCCGG
1 ATATCCGG
17674282 TTATATTCCG
Statistics
Matches: 74, Mismatches: 10, Indels: 7
0.81 0.11 0.08
Matches are distributed among these distances:
79 18 0.24
80 56 0.76
ACGTcount: A:0.27, C:0.23, G:0.27, T:0.23
Consensus pattern (79 bp):
ATATCCGGGCTAAGCCCGAAGACAATTATGCTGGAAATTATATCCGGGCTAAGACCCGAAGGCAA
TTGTGCTAATGGCT
Found at i:17682190 original size:40 final size:40
Alignment explanation
Indices: 17682105--17682255 Score: 132
Period size: 40 Copynumber: 3.8 Consensus size: 40
17682095 AATTGAATGA
* ** * *
17682105 TATCCGGGCTAAGCCCCGAAGATAATTATGCTG-GAAATTA-
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC-GAGACA-TAC
* * *
17682145 TATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC-TAC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC--GAGACATAC
*
17682186 -ATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGACATTC
1 TATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGACATAC
*
17682225 TATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC
17682256 ACATGGTTAT
Statistics
Matches: 91, Mismatches: 13, Indels: 14
0.77 0.11 0.12
Matches are distributed among these distances:
38 3 0.03
39 5 0.05
40 79 0.87
41 3 0.03
42 1 0.01
ACGTcount: A:0.26, C:0.24, G:0.27, T:0.23
Consensus pattern (40 bp):
TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGACATAC
Found at i:17682269 original size:40 final size:40
Alignment explanation
Indices: 17682142--17682271 Score: 138
Period size: 40 Copynumber: 3.2 Consensus size: 40
17682132 ATGCTGGAAA
* * * *
17682142 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATGG
* * * **
17682182 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGA-CA
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-ATGG
*
17682222 TTCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACATGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-ATGG
17682262 TTATATCCGG
1 TTATATCCGG
17682272 TTATATTCCG
Statistics
Matches: 71, Mismatches: 17, Indels: 4
0.77 0.18 0.04
Matches are distributed among these distances:
39 2 0.03
40 69 0.97
ACGTcount: A:0.25, C:0.24, G:0.28, T:0.24
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATGG
Found at i:17688125 original size:47 final size:45
Alignment explanation
Indices: 17688068--17688326 Score: 186
Period size: 47 Copynumber: 5.6 Consensus size: 45
17688058 TGCCATATCA
17688068 CAGACATGGTCTTACACTGGCTCATATCTCAAGTCGATGCCATGTCC
1 CAGACAT-GTCTTACACTGGCTCATATCTCAAGTCGATG-CATGTCC
* *
17688115 CAGACATGGTCTTACACTGACT-ATCATCTCATAGTCGATGCATGTCT
1 CAGACAT-GTCTTACACTGGCTCAT-ATCTCA-AGTCGATGCATGTCC
* * * * * *
17688162 CAGACATGTCTCACACTGGCTTAAATTTTAAGGCCGATGCATGTCC
1 CAGACATGTCTTACACTGGCTCATATCTCAA-GTCGATGCATGTCC
* * * * *
17688208 TAGACATGTCTTACACTAGCAC-T-TGTCTAGATGCTGATGCCATGTCC
1 CAGACATGTCTTACACTGGCTCATATCTCAAG-T-C-GATG-CATGTCC
* * * *
17688255 CAAACATGGTCTTACACTAGCTCTCATAATGT--GGTCGATGCATGTCC
1 CAGACAT-GTCTTACACT-G-GCTCAT-ATCTCAAGTCGATGCATGTCC
* *
17688302 TAGACATGTCTTACACTAGCTCATA
1 CAGACATGTCTTACACTGGCTCATA
17688327 ATAACCCATA
Statistics
Matches: 169, Mismatches: 29, Indels: 32
0.73 0.13 0.14
Matches are distributed among these distances:
43 2 0.01
44 8 0.05
45 2 0.01
46 61 0.36
47 65 0.38
48 22 0.13
49 1 0.01
50 3 0.02
51 2 0.01
53 3 0.02
ACGTcount: A:0.25, C:0.26, G:0.18, T:0.30
Consensus pattern (45 bp):
CAGACATGTCTTACACTGGCTCATATCTCAAGTCGATGCATGTCC
Found at i:17688726 original size:30 final size:30
Alignment explanation
Indices: 17688665--17688726 Score: 79
Period size: 30 Copynumber: 2.1 Consensus size: 30
17688655 CTTTTTTGGT
* * *
17688665 AAAATGACCATTTTGCCCCTAGACTTTGAA
1 AAAATGACCATTTTACCCCTAGACATCGAA
* *
17688695 AAAATGACCATTTTATCCCTAGGCATCGAA
1 AAAATGACCATTTTACCCCTAGACATCGAA
17688725 AA
1 AA
17688727 TCGATTTTTA
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.37, C:0.23, G:0.13, T:0.27
Consensus pattern (30 bp):
AAAATGACCATTTTACCCCTAGACATCGAA
Found at i:17689861 original size:30 final size:29
Alignment explanation
Indices: 17689827--17689904 Score: 70
Period size: 29 Copynumber: 2.7 Consensus size: 29
17689817 GTTAACAATT
17689827 GGACTAGATTTTCAAATTTGAAAAGTAGAG
1 GGACTA-ATTTTCAAATTTGAAAAGTAGAG
* ** *
17689857 GGACTAA-ATTCTAGAAAAT-AAAAGTATAG
1 GGACTAATTTTC-A-AATTTGAAAAGTAGAG
*
17689886 GGACTAAATTTCAAATTTG
1 GGACTAATTTTCAAATTTG
17689905 TGTAGAGTAC
Statistics
Matches: 37, Mismatches: 7, Indels: 9
0.70 0.13 0.17
Matches are distributed among these distances:
28 6 0.16
29 19 0.51
30 12 0.32
ACGTcount: A:0.44, C:0.08, G:0.19, T:0.29
Consensus pattern (29 bp):
GGACTAATTTTCAAATTTGAAAAGTAGAG
Found at i:17696720 original size:26 final size:26
Alignment explanation
Indices: 17696688--17696738 Score: 102
Period size: 26 Copynumber: 2.0 Consensus size: 26
17696678 TTGGTAATTG
17696688 TAGATATGTGTGTTTGGTTGATTCGA
1 TAGATATGTGTGTTTGGTTGATTCGA
17696714 TAGATATGTGTGTTTGGTTGATTCG
1 TAGATATGTGTGTTTGGTTGATTCG
17696739 GCTAAGGTTC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.18, C:0.04, G:0.31, T:0.47
Consensus pattern (26 bp):
TAGATATGTGTGTTTGGTTGATTCGA
Found at i:17701707 original size:40 final size:40
Alignment explanation
Indices: 17701563--17701730 Score: 135
Period size: 40 Copynumber: 4.2 Consensus size: 40
17701553 TGGAATATAA
* ** *
17701563 CCGGATATAATCACGTGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCTCCAGCACAATTGCCTTCGGGTCTTAGC
* *
17701603 CCGGATAGAATGTCTC-GCACGAA-TGCCTTCGGGTCTTAGC
1 CCGGATATAATCTC-CAGCAC-AATTGCCTTCGGGTCTTAGC
* ** * * * *
17701643 CCGGATGTAGCCACTAGCGCAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCTCCAGCACAATTGCCTTCGGGTCTTAGC
* * *
17701683 CCGGATATAATTTCCAGCATAATTGTCTTCGGGAT-TTAGC
1 CCGGATATAATCTCCAGCACAATTGCCTTCGGG-TCTTAGC
*
17701723 CCAGATAT
1 CCGGATAT
17701731 CATTCAATTT
Statistics
Matches: 99, Mismatches: 24, Indels: 10
0.74 0.18 0.08
Matches are distributed among these distances:
39 2 0.02
40 94 0.95
41 3 0.03
ACGTcount: A:0.23, C:0.26, G:0.23, T:0.27
Consensus pattern (40 bp):
CCGGATATAATCTCCAGCACAATTGCCTTCGGGTCTTAGC
Found at i:17705187 original size:12 final size:12
Alignment explanation
Indices: 17705170--17705195 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
17705160 TGAATAGCTA
17705170 AAATCATCTCAG
1 AAATCATCTCAG
17705182 AAATCATCTCAG
1 AAATCATCTCAG
17705194 AA
1 AA
17705196 TTTCTTTGAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.46, C:0.23, G:0.08, T:0.23
Consensus pattern (12 bp):
AAATCATCTCAG
Found at i:17707774 original size:43 final size:42
Alignment explanation
Indices: 17707658--17707806 Score: 133
Period size: 43 Copynumber: 3.5 Consensus size: 42
17707648 TGTACAATGC
* *
17707658 CAATGTCCCAGACGTGGTCTTACATGT-AATCAAATATCAATG
1 CAATGTCCCAGACATGGTCTTACATGTAAATCAAATAT-GATG
* * * * * *
17707700 CCACTATTCCAAACAGGGTCTTACACG-AAATCAAATATGATG
1 -CAATGTCCCAGACATGGTCTTACATGTAAATCAAATATGATG
* *
17707742 TCGATGTCCCAGACATGGTCTTACATGTAAATCTCAAAT-CGATG
1 -CAATGTCCCAGACATGGTCTTACATGTAAA--TCAAATATGATG
*
17707786 CAACGTCCCAGACATGGTCTT
1 CAATGTCCCAGACATGGTCTT
17707807 TCACGAAATC
Statistics
Matches: 83, Mismatches: 19, Indels: 8
0.75 0.17 0.07
Matches are distributed among these distances:
42 22 0.27
43 51 0.61
44 4 0.05
45 6 0.07
ACGTcount: A:0.32, C:0.24, G:0.17, T:0.27
Consensus pattern (42 bp):
CAATGTCCCAGACATGGTCTTACATGTAAATCAAATATGATG
Found at i:17707805 original size:85 final size:85
Alignment explanation
Indices: 17707660--17707822 Score: 204
Period size: 85 Copynumber: 1.9 Consensus size: 85
17707650 TACAATGCCA
* * *
17707660 ATGTCCCAGACGTGGTCTTACATGTAATCAAATATCAATGCCACTATTCCAAACAGGGTCTTACA
1 ATGTCCCAGACATGGTCTTACATGTAATCAAATATCAATGCAACTATCCCAAACAGGGTCTTACA
17707725 CGAAATCAAATATGATGTCG
66 CGAAATCAAATATGATGTCG
* * * * * *
17707745 ATGTCCCAGACATGGTCTTACATGTAAATCTCAA-ATCGATGCAAC-GTCCCAGACATGGTCTTT
1 ATGTCCCAGACATGGTCTTACATGT-AATC-AAATATCAATGCAACTATCCCAAACAGGGTCTTA
*
17707808 CACGAAATCACATAT
64 CACGAAATCAAATAT
17707823 CGAAATCCTA
Statistics
Matches: 66, Mismatches: 10, Indels: 4
0.82 0.12 0.05
Matches are distributed among these distances:
85 51 0.77
86 13 0.20
87 2 0.03
ACGTcount: A:0.33, C:0.24, G:0.16, T:0.27
Consensus pattern (85 bp):
ATGTCCCAGACATGGTCTTACATGTAATCAAATATCAATGCAACTATCCCAAACAGGGTCTTACA
CGAAATCAAATATGATGTCG
Found at i:17713740 original size:19 final size:19
Alignment explanation
Indices: 17713716--17713801 Score: 124
Period size: 19 Copynumber: 4.7 Consensus size: 19
17713706 AATCTTTAAG
17713716 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
*
17713735 GATATGCAATCATAGATAT
1 GATATGCAATCTTAGATAT
* *
17713754 GATA--CATTTTTAGATAT
1 GATATGCAATCTTAGATAT
17713771 -ATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
17713789 GATATGCAATCTT
1 GATATGCAATCTT
17713802 GAAGATTGAT
Statistics
Matches: 58, Mismatches: 6, Indels: 6
0.83 0.09 0.09
Matches are distributed among these distances:
16 3 0.05
17 10 0.17
18 11 0.19
19 34 0.59
ACGTcount: A:0.37, C:0.10, G:0.14, T:0.38
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:17713837 original size:21 final size:21
Alignment explanation
Indices: 17713796--17713838 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
17713786 TATGATATGC
*
17713796 AATCTTGAAGATTGATCTTGT
1 AATCTTGAAGATTAATCTTGT
*
17713817 AATCTTGGAGATTTAAT-TTGT
1 AATCTTGAAGA-TTAATCTTGT
17713838 A
1 A
17713839 GATATCCTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 15 0.79
22 4 0.21
ACGTcount: A:0.30, C:0.07, G:0.19, T:0.44
Consensus pattern (21 bp):
AATCTTGAAGATTAATCTTGT
Found at i:17718935 original size:22 final size:22
Alignment explanation
Indices: 17718893--17718947 Score: 76
Period size: 22 Copynumber: 2.4 Consensus size: 22
17718883 TTCTATTTCA
17718893 AAAAAAAAAGAGAGAGAAAAAAAT
1 AAAAAAAAA-A-AGAGAAAAAAAT
17718917 AAAAAGAAAAAAGAG-AAAAAAT
1 AAAAA-AAAAAAGAGAAAAAAAT
17718939 AAAAAAAAA
1 AAAAAAAAA
17718948 TGGAGAGGCC
Statistics
Matches: 30, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
21 4 0.13
22 12 0.40
23 4 0.13
24 6 0.20
25 4 0.13
ACGTcount: A:0.84, C:0.00, G:0.13, T:0.04
Consensus pattern (22 bp):
AAAAAAAAAAAGAGAAAAAAAT
Found at i:17718954 original size:23 final size:23
Alignment explanation
Indices: 17718893--17718954 Score: 74
Period size: 22 Copynumber: 2.7 Consensus size: 23
17718883 TTCTATTTCA
17718893 AAAAAAAAAGAGAGAGAAAAAAAT
1 AAAAAAAAAG-GAGAGAAAAAAAT
*
17718917 AAAAAGAAAA-AAGAG-AAAAAAT
1 AAAAA-AAAAGGAGAGAAAAAAAT
17718939 AAAAAAAAATGGAGAG
1 AAAAAAAAA-GGAGAG
17718955 GCCAAGGTGG
Statistics
Matches: 33, Mismatches: 2, Indels: 7
0.79 0.05 0.17
Matches are distributed among these distances:
21 4 0.12
22 12 0.36
23 8 0.24
24 5 0.15
25 4 0.12
ACGTcount: A:0.77, C:0.00, G:0.18, T:0.05
Consensus pattern (23 bp):
AAAAAAAAAGGAGAGAAAAAAAT
Found at i:17718983 original size:37 final size:38
Alignment explanation
Indices: 17718932--17719006 Score: 125
Period size: 37 Copynumber: 2.0 Consensus size: 38
17718922 GAAAAAAGAG
*
17718932 AAAAAATAAAAAAAAATGGAGAGGCCAAGGTGGAAACT
1 AAAAAATAAAAAAAAATGGAGAGGCCAAGGTGAAAACT
*
17718970 AAAAAAT-AAAAAAAATGGATAGGCCAAGGTGAAAACT
1 AAAAAATAAAAAAAAATGGAGAGGCCAAGGTGAAAACT
17719007 CGCAAAAGGC
Statistics
Matches: 35, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
37 28 0.80
38 7 0.20
ACGTcount: A:0.59, C:0.08, G:0.21, T:0.12
Consensus pattern (38 bp):
AAAAAATAAAAAAAAATGGAGAGGCCAAGGTGAAAACT
Found at i:17719994 original size:44 final size:43
Alignment explanation
Indices: 17719938--17720679 Score: 309
Period size: 44 Copynumber: 16.9 Consensus size: 43
17719928 GATCCAAGAT
* *
17719938 GATTTGGCGTCTCTGTATTGTCAGGGAGCAGATCGAAGATACCA
1 GATTTGGCATCTCTGTATTGGCAGGGAGCAGATCGAAGATA-CA
* * *
17719982 GATTTGGCGTCTCTGTATTGGCAGGGAGCAAATCGAAGACATAGCT
1 GATTTGGCATCTCTGTATTGGCAGGGAGCAGATCGAAG--ATA-CA
* * * * * *
17720028 GATTTGGCTTTCACGTGT-TT-AC-GTTGAAGCAAATCTAAGAT---
1 GATTTGGC-ATCTC-TGTATTGGCAG--GGAGCAGATCGAAGATACA
* * * * **
17720069 GACTTAGCGTCTCTGTATTGGCAGAGAGCAGATCGAAGATGATT
1 GATTTGGCATCTCTGTATTGGCAGGGAGCAGATCGAAGAT-ACA
* *
17720113 GATTTGGCATCTCTGTATTCGGC-GGAGAGTAGATCGAAGACATAGCT
1 GATTTGGCATCTCTGTATT-GGCAGG-GAGCAGATCGAAG--ATA-CA
* * * ** * * *
17720160 GATTTAGC-TTTCATGTGTTTAC-GTTGAAGCAAATCTAAGAT---
1 GATTTGGCATCTC-TGTATTGGCAG--GGAGCAGATCGAAGATACA
*
17720201 GATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAGATAACA
1 GATTTGGCATCTCTGTATTGGCAGGGAGCAGATCGAAGAT-ACA
* * * *
17720245 GATTTGGCATCTCTGTATTGGCAGAGAGTAGATCAAAGATGATA
1 GATTTGGCATCTCTGTATTGGCAGGGAGCAGATCGAAGAT-ACA
* *
17720289 GATTTGGCATCTCTGTATTCG-ACGGAGAGCAGATCGAAGACATAGCT
1 GATTTGGCATCTCTGTATTGGCA-GG-GAGCAGATCGAAG--ATA-CA
* * * * *
17720336 GATTTGGCTTCCACGTGT-TT-AC-GTTGAAGCA-AGTCTAAGAT---
1 GATTTGGCAT-CTC-TGTATTGGCAG--GGAGCAGA-TCGAAGATACA
* *
17720377 GATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAGATAGTA
1 GATTTGGCATCTCTGTATTGGCAGGGAGCAGATCGAAGATA-CA
* * * * *
17720421 GATTTGGCATCTCTATATTGGTAGAGAGTAGATCAAAGATGACA
1 GATTTGGCATCTCTGTATTGGCAGGGAGCAGATCGAAGAT-ACA
* *
17720465 GATTTGGCATATCTGTATT--CAACGGAGAGCAGATCGAAGACATAGCT
1 GATTTGGCATCTCTGTATTGGC-A-GG-GAGCAGATCGAAG--ATA-CA
* * * *
17720512 GATTTGGCTTCCACGTGT-TT-AC-GTTGAAGCA-AGTCGAAGAT---
1 GATTTGGCAT-CTC-TGTATTGGCAG--GGAGCAGA-TCGAAGATACA
* * * *
17720553 GATTTCGCATCTCTGTATTGGCAGAGAGTAGATCGAAGATAATA
1 GATTTGGCATCTCTGTATTGGCAGGGAGCAGATCGAAGAT-ACA
* * * *
17720597 GATTTGGCGTCTCTGTATTGGCAGAGAGCATATCGAAGATAGAA
1 GATTTGGCATCTCTGTATTGGCAGGGAGCAGATCGAAGATA-CA
* * * *
17720641 GATTTGGCGTCTCTGTATTGTCAGAGAGCATATCGAAGA
1 GATTTGGCATCTCTGTATTGGCAGGGAGCAGATCGAAGA
17720680 GAAGAACAAC
Statistics
Matches: 538, Mismatches: 92, Indels: 136
0.70 0.12 0.18
Matches are distributed among these distances:
39 9 0.02
40 59 0.11
41 41 0.08
42 7 0.01
43 3 0.01
44 244 0.45
45 47 0.09
46 25 0.05
47 83 0.15
48 13 0.02
49 7 0.01
ACGTcount: A:0.28, C:0.15, G:0.27, T:0.29
Consensus pattern (43 bp):
GATTTGGCATCTCTGTATTGGCAGGGAGCAGATCGAAGATACA
Found at i:17720200 original size:132 final size:130
Alignment explanation
Indices: 17719921--17720283 Score: 530
Period size: 132 Copynumber: 2.8 Consensus size: 130
17719911 GTATTTACAC
* * * *
17719921 TGAAGCAGATCCAAGATGATTTGGCGTCTCTGTATTGTCAGGGAGCAGATCGAAGATACCAGATT
1 TGAAGCAAATCTAAGATGATTTGGCGTCTCTGTATTGGCAGAGAGCAGATCGAAGATA-CAGATT
* * * *
17719986 TGGCGTCTCTGTATTGGCAGG-GAGCAAATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTAC
65 TGGCATCTCTGTATTGGC-GGAGAGTAGATCGAAGACATAGCTGATTTAGCTTTCACGTGTTTAC
17720050 GT
129 GT
* * **
17720052 TGAAGCAAATCTAAGATGACTTAGCGTCTCTGTATTGGCAGAGAGCAGATCGAAGATGATTGATT
1 TGAAGCAAATCTAAGATGATTTGGCGTCTCTGTATTGGCAGAGAGCAGATCGAAGAT-ACAGATT
*
17720117 TGGCATCTCTGTATTCGGCGGAGAGTAGATCGAAGACATAGCTGATTTAGCTTTCATGTGTTTAC
65 TGGCATCTCTGTATT-GGCGGAGAGTAGATCGAAGACATAGCTGATTTAGCTTTCACGTGTTTAC
17720182 GT
129 GT
*
17720184 TGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAGATAACAGATT
1 TGAAGCAAATCTAAGATGATTTGGCGTCTCTGTATTGGCAGAGAGCAGATCGAAGAT-ACAGATT
* *
17720249 TGGCATCTCTGTATTGGCAGAGAGTAGATCAAAGA
65 TGGCATCTCTGTATTGGCGGAGAGTAGATCGAAGA
17720284 TGATAGATTT
Statistics
Matches: 208, Mismatches: 21, Indels: 6
0.89 0.09 0.03
Matches are distributed among these distances:
131 89 0.43
132 119 0.57
ACGTcount: A:0.28, C:0.16, G:0.27, T:0.29
Consensus pattern (130 bp):
TGAAGCAAATCTAAGATGATTTGGCGTCTCTGTATTGGCAGAGAGCAGATCGAAGATACAGATTT
GGCATCTCTGTATTGGCGGAGAGTAGATCGAAGACATAGCTGATTTAGCTTTCACGTGTTTACGT
Found at i:17720262 original size:176 final size:176
Alignment explanation
Indices: 17720078--17720679 Score: 938
Period size: 176 Copynumber: 3.4 Consensus size: 176
17720068 TGACTTAGCG
* * * *
17720078 TCTCTGTATTGGCAGAGAGCAGATCGAAGATGATTGATTTGGCATCTCTGTATTCGGCGGAGAGT
1 TCTCTGTATTGGCAGAGAGCAGATCAAAGATGATAGATTTGGCATCTCTGTATTCGACGGAGAGC
* * * *
17720143 AGATCGAAGACATAGCTGATTTAGCTTTCATGTGTTTACGTTGAAGCAAATCTAAGATGATTTGG
66 AGATCGAAGACATAGCTGATTTGGCTTCCACGTGTTTACGTTGAAGCAAGTCTAAGATGATTTGG
*
17720208 CATCTCTGTATTGGCAGAGAGCAGATCGAAGATAACAGATTTGGCA
131 CATCTCTGTATTGGCAGAGAGCAGATCGAAGATAATAGATTTGGCA
*
17720254 TCTCTGTATTGGCAGAGAGTAGATCAAAGATGATAGATTTGGCATCTCTGTATTCGACGGAGAGC
1 TCTCTGTATTGGCAGAGAGCAGATCAAAGATGATAGATTTGGCATCTCTGTATTCGACGGAGAGC
17720319 AGATCGAAGACATAGCTGATTTGGCTTCCACGTGTTTACGTTGAAGCAAGTCTAAGATGATTTGG
66 AGATCGAAGACATAGCTGATTTGGCTTCCACGTGTTTACGTTGAAGCAAGTCTAAGATGATTTGG
*
17720384 CATCTCTGTATTGGCAGAGAGCAGATCGAAGATAGTAGATTTGGCA
131 CATCTCTGTATTGGCAGAGAGCAGATCGAAGATAATAGATTTGGCA
* * * * * *
17720430 TCTCTATATTGGTAGAGAGTAGATCAAAGATGACAGATTTGGCATATCTGTATTCAACGGAGAGC
1 TCTCTGTATTGGCAGAGAGCAGATCAAAGATGATAGATTTGGCATCTCTGTATTCGACGGAGAGC
* *
17720495 AGATCGAAGACATAGCTGATTTGGCTTCCACGTGTTTACGTTGAAGCAAGTCGAAGATGATTTCG
66 AGATCGAAGACATAGCTGATTTGGCTTCCACGTGTTTACGTTGAAGCAAGTCTAAGATGATTTGG
* *
17720560 CATCTCTGTATTGGCAGAGAGTAGATCGAAGATAATAGATTTGGCG
131 CATCTCTGTATTGGCAGAGAGCAGATCGAAGATAATAGATTTGGCA
* * * * *
17720606 TCTCTGTATTGGCAGAGAGCATATCGAAGATAGA-AGATTTGGCGTCTCTGTATT-GTCAGAGAG
1 TCTCTGTATTGGCAGAGAGCAGATCAAAGAT-GATAGATTTGGCATCTCTGTATTCGACGGAGAG
*
17720669 CATATCGAAGA
65 CAGATCGAAGA
17720680 GAAGAACAAC
Statistics
Matches: 393, Mismatches: 32, Indels: 3
0.92 0.07 0.01
Matches are distributed among these distances:
175 16 0.04
176 375 0.95
177 2 0.01
ACGTcount: A:0.29, C:0.15, G:0.27, T:0.29
Consensus pattern (176 bp):
TCTCTGTATTGGCAGAGAGCAGATCAAAGATGATAGATTTGGCATCTCTGTATTCGACGGAGAGC
AGATCGAAGACATAGCTGATTTGGCTTCCACGTGTTTACGTTGAAGCAAGTCTAAGATGATTTGG
CATCTCTGTATTGGCAGAGAGCAGATCGAAGATAATAGATTTGGCA
Found at i:17720876 original size:44 final size:44
Alignment explanation
Indices: 17720732--17721010 Score: 199
Period size: 44 Copynumber: 6.2 Consensus size: 44
17720722 GATCCAAGAT
* *
17720732 GATTTGGCATTCCTGTGTTTACAGGGAACAGATCGAAGACATAGCA
1 GATTTGGCATCCCTGTGTTTACAGGGAACAGATTGAAG--ATAGCA
* * * * * * * ***
17720778 GATCTGACATTCCTATGCTTACAGCGAAGCAGATTAAAGATTTTA
1 GATTTGGCATCCCTGTGTTTACAGGGAA-CAGATTGAAGATAGCA
** * *
17720823 -ACATGGCATCCCTGTGTTTATAGGGAACA-AGTTGAAGATAACA
1 GATTTGGCATCCCTGTGTTTACAGGGAACAGA-TTGAAGATAGCA
* *
17720866 GATTTGGCATCCCTTTGTTTACAGGGAACAGATCGAAGACATAGCA
1 GATTTGGCATCCCTGTGTTTACAGGGAACAGATTGAAG--ATAGCA
* * * * * **
17720912 GATCTGACATTCCTGTGCTTACAGTGAAGCAGATTGAAGATTTCA
1 GATTTGGCATCCCTGTGTTTACAGGGAA-CAGATTGAAGATAGCA
* *
17720957 GCA--TGGCATCCCTGTGTTTATAGGGAACA-AGTTGAAGATAGTA
1 G-ATTTGGCATCCCTGTGTTTACAGGGAACAGA-TTGAAGATAGCA
17721000 GATTTGGCATC
1 GATTTGGCATC
17721011 TCCATATTCG
Statistics
Matches: 177, Mismatches: 45, Indels: 24
0.72 0.18 0.10
Matches are distributed among these distances:
42 3 0.02
43 22 0.12
44 75 0.42
45 9 0.05
46 51 0.29
47 17 0.10
ACGTcount: A:0.31, C:0.17, G:0.24, T:0.28
Consensus pattern (44 bp):
GATTTGGCATCCCTGTGTTTACAGGGAACAGATTGAAGATAGCA
Found at i:17720896 original size:134 final size:134
Alignment explanation
Indices: 17720732--17721010 Score: 477
Period size: 134 Copynumber: 2.1 Consensus size: 134
17720722 GATCCAAGAT
*
17720732 GATTTGGCATTCCTGTGTTTACAGGGAACAGATCGAAGACATAGCAGATCTGACATTCCTATGCT
1 GATTTGGCATCCCTGTGTTTACAGGGAACAGATCGAAGACATAGCAGATCTGACATTCCTATGCT
*
17720797 TACAGCGAAGCAGATTAAAGATTTTAACATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGAT
66 TACAGCGAAGCAGATTAAAGATTTCAACATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGAT
17720862 AACA
131 AACA
* *
17720866 GATTTGGCATCCCTTTGTTTACAGGGAACAGATCGAAGACATAGCAGATCTGACATTCCTGTGCT
1 GATTTGGCATCCCTGTGTTTACAGGGAACAGATCGAAGACATAGCAGATCTGACATTCCTATGCT
* * *
17720931 TACAGTGAAGCAGATTGAAGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGAT
66 TACAGCGAAGCAGATTAAAGATTTCAACATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGAT
**
17720996 AGTA
131 AACA
17721000 GATTTGGCATC
1 GATTTGGCATC
17721011 TCCATATTCG
Statistics
Matches: 136, Mismatches: 9, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
134 136 1.00
ACGTcount: A:0.31, C:0.17, G:0.24, T:0.28
Consensus pattern (134 bp):
GATTTGGCATCCCTGTGTTTACAGGGAACAGATCGAAGACATAGCAGATCTGACATTCCTATGCT
TACAGCGAAGCAGATTAAAGATTTCAACATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGAT
AACA
Found at i:17721155 original size:45 final size:44
Alignment explanation
Indices: 17721091--17721209 Score: 157
Period size: 45 Copynumber: 2.7 Consensus size: 44
17721081 CCAAGATGAT
* *
17721091 AGATTTGGCATCTTTGTATTAGACGGGGAGCAAATCGGAGATAAC
1 AGATTTGGCATCTCTGTATTAGACGGGGAGCAAATCGAAGA-AAC
* * *
17721136 AGATTTGGCATCTCTGTATTAGACGGGGAGCAGATTGAAGAAGC
1 AGATTTGGCATCTCTGTATTAGACGGGGAGCAAATCGAAGAAAC
* * *
17721180 AAATTTAGCGTCTCTGTATTAGACGGGGAG
1 AGATTTGGCATCTCTGTATTAGACGGGGAG
17721210 TAGATCAAAG
Statistics
Matches: 66, Mismatches: 8, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
44 29 0.44
45 37 0.56
ACGTcount: A:0.29, C:0.13, G:0.30, T:0.27
Consensus pattern (44 bp):
AGATTTGGCATCTCTGTATTAGACGGGGAGCAAATCGAAGAAAC
Found at i:17721207 original size:44 final size:45
Alignment explanation
Indices: 17721074--17721222 Score: 156
Period size: 45 Copynumber: 3.3 Consensus size: 45
17721064 TTTACATCAA
* * * * * *
17721074 AGCAGATCCAAGATGATAGATTTGGCATCTTTGTATTAGACGGGG
1 AGCAGATCGAAGATAACAAATTTAGCATCTCTGTATTAGACGGGG
* * * *
17721119 AGCAAATCGGAGATAACAGATTTGGCATCTCTGTATTAGACGGGG
1 AGCAGATCGAAGATAACAAATTTAGCATCTCTGTATTAGACGGGG
* * *
17721164 AGCAGATTGAAGA-AGCAAATTTAGCGTCTCTGTATTAGACGGGG
1 AGCAGATCGAAGATAACAAATTTAGCATCTCTGTATTAGACGGGG
* *
17721208 AGTAGATCAAAGATA
1 AGCAGATCGAAGATA
17721223 GCAGATATCG
Statistics
Matches: 87, Mismatches: 16, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
44 37 0.43
45 50 0.57
ACGTcount: A:0.33, C:0.13, G:0.28, T:0.26
Consensus pattern (45 bp):
AGCAGATCGAAGATAACAAATTTAGCATCTCTGTATTAGACGGGG
Found at i:17721633 original size:19 final size:19
Alignment explanation
Indices: 17721581--17721659 Score: 108
Period size: 19 Copynumber: 4.2 Consensus size: 19
17721571 AATCTTCAAG
17721581 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
* *
17721600 GATA--CATTTTTAGATAT
1 GATATGCAATCTTAGATAT
17721617 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
17721636 GATATGCAATCTTGAAGATAT
1 GATATGCAATCTT--AGATAT
17721657 GAT
1 GAT
17721660 CTTGTAATCT
Statistics
Matches: 52, Mismatches: 4, Indels: 6
0.84 0.06 0.10
Matches are distributed among these distances:
17 15 0.29
19 28 0.54
21 9 0.17
ACGTcount: A:0.37, C:0.09, G:0.16, T:0.38
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:17746340 original size:39 final size:39
Alignment explanation
Indices: 17746286--17746364 Score: 158
Period size: 39 Copynumber: 2.0 Consensus size: 39
17746276 GTGAGAAGTT
17746286 GGATTTTTGGGCCATATTGTATCAGCCTCCGGAATCTGA
1 GGATTTTTGGGCCATATTGTATCAGCCTCCGGAATCTGA
17746325 GGATTTTTGGGCCATATTGTATCAGCCTCCGGAATCTGA
1 GGATTTTTGGGCCATATTGTATCAGCCTCCGGAATCTGA
17746364 G
1 G
17746365 TTGATCCAAG
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 40 1.00
ACGTcount: A:0.20, C:0.20, G:0.27, T:0.33
Consensus pattern (39 bp):
GGATTTTTGGGCCATATTGTATCAGCCTCCGGAATCTGA
Found at i:17752824 original size:23 final size:23
Alignment explanation
Indices: 17752798--17752843 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
17752788 AGAGGAACCA
17752798 AAAGGCGTGTGCTGAGAAGGAGG
1 AAAGGCGTGTGCTGAGAAGGAGG
17752821 AAAGGCGTGTGCTGAGAAGGAGG
1 AAAGGCGTGTGCTGAGAAGGAGG
17752844 GACCTACCCT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.30, C:0.09, G:0.48, T:0.13
Consensus pattern (23 bp):
AAAGGCGTGTGCTGAGAAGGAGG
Found at i:17756400 original size:40 final size:40
Alignment explanation
Indices: 17756301--17756491 Score: 251
Period size: 40 Copynumber: 4.8 Consensus size: 40
17756291 TGGAAGATAA
* * * * **
17756301 CCGGGCTAAGTCCCGAAGGCATCTGCGCTAGTGACTAGTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
17756341 CCGGGC-AAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
*
17756380 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTAAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
* *
17756420 CCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACTCTAA-
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT-AAAT
* * *
17756460 CTGGGCTATGTCCCGAAGGCATTTGAGCGAGT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGT
17756492 AGCTATATCC
Statistics
Matches: 135, Mismatches: 14, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
39 33 0.24
40 100 0.74
41 2 0.01
ACGTcount: A:0.24, C:0.24, G:0.29, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
Found at i:17760327 original size:16 final size:15
Alignment explanation
Indices: 17760298--17760344 Score: 53
Period size: 14 Copynumber: 3.1 Consensus size: 15
17760288 AAAATAATAA
17760298 ATTATATCAA-TAAACT
1 ATTATAT-AATTAAA-T
*
17760314 ATTATATGATTAAAT
1 ATTATATAATTAAAT
17760329 A-TATATAATTAAAT
1 ATTATATAATTAAAT
17760343 AT
1 AT
17760345 GTATGTTAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
14 13 0.48
15 3 0.11
16 11 0.41
ACGTcount: A:0.51, C:0.04, G:0.02, T:0.43
Consensus pattern (15 bp):
ATTATATAATTAAAT
Found at i:17766009 original size:40 final size:40
Alignment explanation
Indices: 17765955--17766148 Score: 232
Period size: 40 Copynumber: 4.8 Consensus size: 40
17765945 TTATAGTGAT
* * * *
17765955 TCGCACGATTGCCTTCGGGTCTTAACCCGGATTTGGT-AAC
1 TCGCACGAATGCCTTCGGGTCTTAGCCCGGATAT-ATCAAC
* * *
17765995 TTGCACAAAGGCCTTCGGGTCTTAGCCCGGATATATCAAC
1 TCGCACGAATGCCTTCGGGTCTTAGCCCGGATATATCAAC
17766035 TCGCACGAATGCCTTCGGGTCTTAGCCCGGATATATCAAC
1 TCGCACGAATGCCTTCGGGTCTTAGCCCGGATATATCAAC
* *
17766075 TCGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAAT-TAC
1 TCGCACGAATGCCTTCGGGTCTTAGCCCGGATAT-ATCAAC
* * *
17766115 TAGCA-TAATTGCCTTCGGGACTTAGCCCGGATAT
1 TCGCACGAA-TGCCTTCGGGTCTTAGCCCGGATAT
17766149 CATTCCAATG
Statistics
Matches: 135, Mismatches: 16, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
39 3 0.02
40 130 0.96
41 2 0.01
ACGTcount: A:0.22, C:0.27, G:0.24, T:0.27
Consensus pattern (40 bp):
TCGCACGAATGCCTTCGGGTCTTAGCCCGGATATATCAAC
Found at i:17776676 original size:46 final size:46
Alignment explanation
Indices: 17776624--17776799 Score: 200
Period size: 46 Copynumber: 3.8 Consensus size: 46
17776614 TGGTTGAGCA
17776624 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
17776670 TTCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
* *
17776715 CATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
*
17776763 -CCTGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCC-GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
17776800 GCGGGTTACA
Statistics
Matches: 110, Mismatches: 10, Indels: 20
0.79 0.07 0.14
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 5 0.05
46 62 0.56
47 27 0.25
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.20, G:0.30, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:17776780 original size:93 final size:93
Alignment explanation
Indices: 17776621--17776791 Score: 290
Period size: 93 Copynumber: 1.8 Consensus size: 93
17776611 GGATGGTTGA
* *
17776621 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTTCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCTCGAACTCGTTGAGT
17776686 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* *
17776714 GCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC-CTGAGCTCGTTGAG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCTC-GAACTCGTTGAG
17776778 TTGAGTCCGAGTTC
65 TTGAGTCCGAGTTC
17776792 ACTTATGGGC
Statistics
Matches: 73, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
92 1 0.01
93 72 0.99
ACGTcount: A:0.20, C:0.20, G:0.30, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCTCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:17785286 original size:127 final size:126
Alignment explanation
Indices: 17785000--17785394 Score: 490
Period size: 127 Copynumber: 3.1 Consensus size: 126
17784990 GGCCAAACAC
* * * * * * * *
17785000 AAACTACTATAGAAAAAGAGCCTCCACGTGGAAGCTTTTTTTAGTAATTTTGCCGGCAGTGCGTC
1 AAACTACTGTAGAAAAAGAGCGTCCACTTGGGAGCTTTTTTCAGTAATTTTGCTGACAGTGCATC
* * **
17785065 CTGCTTGAAGCGTTTTTGACACTA-TTTTTCAAAATTGTCTTCTCAAAATTATTTTTT-TAG
66 CTGCTTGAAGCATTTTTGACACTATTTTTTCAGAACCGTCTTCTCAAAATTATTTTTTCT-G
* * * * *
17785125 GAACTACTGTAGAAAATGAGCGTTCA-TGTGGGAGCTTTTTTCAGTAATTTTGTTGATAGTGCAT
1 AAACTACTGTAGAAAAAGAGCGTCCACT-TGGGAGCTTTTTTCAGTAATTTTGCTGACAGTGCAT
* * * *
17785189 CCTGCTTGAAGCATATTTGAAAGTATTTTTTTTAGAACCGTCTTCTCAAAATTATTTTTTCTG
65 CCTGCTTGAAGCATTTTTGACACTA-TTTTTTCAGAACCGTCTTCTCAAAATTATTTTTTCTG
* *
17785252 AAACTACTGTAGAAAAAGAGCGTCCACTTGGGAGCTTCTTTCAGTAATTTTGCTAACAGTGCATC
1 AAACTACTGTAGAAAAAGAGCGTCCACTTGGGAGCTTTTTTCAGTAATTTTGCTGACAGTGCATC
* * * * *
17785317 CTGCTTGAACCATTTTTGACATTATCTTTTCAGAACGGTCTTCTCAAAATTAATTTTTCTG
66 CTGCTTGAAGCATTTTTGACACTATTTTTTCAGAACCGTCTTCTCAAAATTATTTTTTCTG
17785378 AAACTACTGTAGAAAAA
1 AAACTACTGTAGAAAAA
17785395 AATAAAATCC
Statistics
Matches: 229, Mismatches: 36, Indels: 9
0.84 0.13 0.03
Matches are distributed among these distances:
125 71 0.31
126 50 0.22
127 106 0.46
128 2 0.01
ACGTcount: A:0.28, C:0.17, G:0.17, T:0.38
Consensus pattern (126 bp):
AAACTACTGTAGAAAAAGAGCGTCCACTTGGGAGCTTTTTTCAGTAATTTTGCTGACAGTGCATC
CTGCTTGAAGCATTTTTGACACTATTTTTTCAGAACCGTCTTCTCAAAATTATTTTTTCTG
Found at i:17785503 original size:34 final size:33
Alignment explanation
Indices: 17785449--17785538 Score: 105
Period size: 33 Copynumber: 2.8 Consensus size: 33
17785439 CTAAATACAA
*
17785449 AATT-ATTT-AAAAAAA-ACTAAACCCTAATTT
1 AATTAATTTCAAAAAAACTCTAAACCCTAATTT
** *
17785479 AATTAATTTTCTTAAAAACTCTAAATCCTAATTT
1 AATTAA-TTTCAAAAAAACTCTAAACCCTAATTT
*
17785513 AATTAATTTGAAAAAAACTCTAAACC
1 AATTAATTTCAAAAAAACTCTAAACC
17785539 TTGATTTATT
Statistics
Matches: 48, Mismatches: 8, Indels: 5
0.79 0.13 0.08
Matches are distributed among these distances:
30 4 0.08
31 1 0.02
32 3 0.06
33 21 0.44
34 19 0.40
ACGTcount: A:0.49, C:0.14, G:0.01, T:0.36
Consensus pattern (33 bp):
AATTAATTTCAAAAAAACTCTAAACCCTAATTT
Found at i:17787993 original size:6 final size:6
Alignment explanation
Indices: 17787989--17788036 Score: 78
Period size: 6 Copynumber: 8.0 Consensus size: 6
17787979 AATTGAAATG
* *
17787989 AAAATA AAAAGA AAAAGA AAAAGA AAAAGA AAAAGA AAAATA AAAAGA
1 AAAAGA AAAAGA AAAAGA AAAAGA AAAAGA AAAAGA AAAAGA AAAAGA
17788037 TAGGAGGATT
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 39 1.00
ACGTcount: A:0.83, C:0.00, G:0.12, T:0.04
Consensus pattern (6 bp):
AAAAGA
Found at i:17788010 original size:18 final size:18
Alignment explanation
Indices: 17787989--17788036 Score: 87
Period size: 18 Copynumber: 2.7 Consensus size: 18
17787979 AATTGAAATG
17787989 AAAATAAAAAGAAAAAGA
1 AAAATAAAAAGAAAAAGA
*
17788007 AAAAGAAAAAGAAAAAGA
1 AAAATAAAAAGAAAAAGA
17788025 AAAATAAAAAGA
1 AAAATAAAAAGA
17788037 TAGGAGGATT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.83, C:0.00, G:0.12, T:0.04
Consensus pattern (18 bp):
AAAATAAAAAGAAAAAGA
Found at i:17796094 original size:10 final size:10
Alignment explanation
Indices: 17796062--17796095 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
17796052 CGTTTTGTCC
17796062 CTTTTTGGCT
1 CTTTTTGGCT
17796072 CATTTTTGGCT
1 C-TTTTTGGCT
*
17796083 CTTTTTGACT
1 CTTTTTGGCT
17796093 CTT
1 CTT
17796096 GGTGCTCTCC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
10 12 0.55
11 10 0.45
ACGTcount: A:0.06, C:0.21, G:0.15, T:0.59
Consensus pattern (10 bp):
CTTTTTGGCT
Found at i:17799965 original size:52 final size:51
Alignment explanation
Indices: 17799888--17800009 Score: 165
Period size: 52 Copynumber: 2.4 Consensus size: 51
17799878 AATTGGCCTT
** * *
17799888 TGCCC-TGTGGCCCACATAACTTGGCCCAAAATCTACACCTCCATGTGACA
1 TGCCCGTGTGGCCCACACGACCTGGCCCAAAATCCACACCTCCATGTGACA
* *
17799938 TGCCCGTGTAGGCCCACACGACCTGGCCCAAAATCCACACTTTCATGTGACA
1 TGCCCGTGT-GGCCCACACGACCTGGCCCAAAATCCACACCTCCATGTGACA
17799990 TGCCCGTGTGGGCCCACACG
1 TGCCCGTGT-GGCCCACACG
17800010 CCCAACTTGG
Statistics
Matches: 63, Mismatches: 7, Indels: 2
0.88 0.10 0.03
Matches are distributed among these distances:
50 5 0.08
51 3 0.05
52 55 0.87
ACGTcount: A:0.23, C:0.37, G:0.20, T:0.20
Consensus pattern (51 bp):
TGCCCGTGTGGCCCACACGACCTGGCCCAAAATCCACACCTCCATGTGACA
Found at i:17801411 original size:22 final size:21
Alignment explanation
Indices: 17801370--17801411 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 21
17801360 ATTATTACAC
* *
17801370 AATACACAATTCATAGTTCAT
1 AATACACAATTCACAATTCAT
17801391 AATATCACAATTCACAATTCA
1 AATA-CACAATTCACAATTCA
17801412 CATATAAAGC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 4 0.22
22 14 0.78
ACGTcount: A:0.45, C:0.21, G:0.02, T:0.31
Consensus pattern (21 bp):
AATACACAATTCACAATTCAT
Found at i:17802364 original size:2 final size:2
Alignment explanation
Indices: 17802359--17802400 Score: 75
Period size: 2 Copynumber: 21.0 Consensus size: 2
17802349 CTCTAAACGC
*
17802359 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT GT 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
17802401 GTATTATAAA
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (2 bp):
AT
Found at i:17803113 original size:3 final size:3
Alignment explanation
Indices: 17803105--17803130 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
17803095 AGGCAAACAA
17803105 AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AA
17803131 AGCGGACGAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:17806294 original size:46 final size:46
Alignment explanation
Indices: 17806244--17806372 Score: 215
Period size: 46 Copynumber: 2.8 Consensus size: 46
17806234 TGGTTGAGCA
*
17806244 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
17806290 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
* *
17806336 -CCTGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCC-GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
17806373 GCGGGTTACA
Statistics
Matches: 79, Mismatches: 3, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
45 2 0.03
46 77 0.97
ACGTcount: A:0.19, C:0.21, G:0.29, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
Found at i:17813414 original size:91 final size:90
Alignment explanation
Indices: 17813259--17813452 Score: 266
Period size: 91 Copynumber: 2.2 Consensus size: 90
17813249 GTAGTTTTTT
*
17813259 TGCAAACACTGGTGATTTATCCTCAAATTTACTAGCAGCTTTTATCTGCAAAAACGTTGTGTATT
1 TGCAAACACTGGTGATTTATCCACAAATTTACTAGCAGCTTTTATCTGCAAAAACGTTGTGTATT
*
17813324 CACGACCTACTAGA-AGCGTATTAACC
66 CAC-ACCTACTA-ACAACGTATTAACC
* * * * **
17813350 TGCAAACAGTGGTGATTTATCCACAAATTTATTGGCGGCTTTTATCTGCAAACCCGTTGTGTATT
1 TGCAAACACTGGTGATTTATCCACAAATTTACTAGCAGCTTTTATCTGCAAAAACGTTGTGTATT
*
17813415 CACAGCTACTAACAACGTATTAACC
66 CACACCTACTAACAACGTATTAACC
*
17813440 T-AAAACACTGGTG
1 TGCAAACACTGGTG
17813453 GTTCAACCAC
Statistics
Matches: 91, Mismatches: 11, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
89 11 0.12
90 19 0.21
91 61 0.67
ACGTcount: A:0.30, C:0.22, G:0.16, T:0.31
Consensus pattern (90 bp):
TGCAAACACTGGTGATTTATCCACAAATTTACTAGCAGCTTTTATCTGCAAAAACGTTGTGTATT
CACACCTACTAACAACGTATTAACC
Found at i:17834115 original size:46 final size:46
Alignment explanation
Indices: 17834063--17834234 Score: 263
Period size: 46 Copynumber: 3.7 Consensus size: 46
17834053 TTAGGCATCT
* * *
17834063 GAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAACATAC
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCC
*
17834109 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGGACGTCC
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCC
* *
17834155 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGCCC
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCC
* * *
17834201 GAGCTCGTTGAGTTGAGTCCGAATTCGCTTATGG
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
17834235 GCGGGTTACA
Statistics
Matches: 116, Mismatches: 10, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
46 116 1.00
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.30
Consensus pattern (46 bp):
GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCC
Found at i:17837793 original size:24 final size:23
Alignment explanation
Indices: 17837749--17837816 Score: 66
Period size: 24 Copynumber: 2.9 Consensus size: 23
17837739 CAGCCGACCC
* *
17837749 CTTTCCCCTTCCTTTTCCTTTC-T
1 CTTTTCCCTTCCCTTT-CTTTCTT
**
17837772 CTTTCTTTCTTCCCTATTCTTTCTT
1 CTTT-TCCCTTCCCT-TTCTTTCTT
17837797 CTTTTCCCTTCCCTTTCTTT
1 CTTTTCCCTTCCCTTTCTTT
17837817 TCCCCTTTCA
Statistics
Matches: 36, Mismatches: 6, Indels: 6
0.75 0.12 0.12
Matches are distributed among these distances:
23 10 0.28
24 19 0.53
25 7 0.19
ACGTcount: A:0.01, C:0.38, G:0.00, T:0.60
Consensus pattern (23 bp):
CTTTTCCCTTCCCTTTCTTTCTT
Found at i:17837812 original size:19 final size:19
Alignment explanation
Indices: 17837760--17837815 Score: 62
Period size: 18 Copynumber: 3.0 Consensus size: 19
17837750 TTTCCCCTTC
*
17837760 CTTTTCCTTTCTCTTTCTT
1 CTTTTCCCTTCTCTTTCTT
*
17837779 -TCTTCCCTAT-TCTTTCTT
1 CTTTTCCCT-TCTCTTTCTT
*
17837797 CTTTTCCCTTCCCTTTCTT
1 CTTTTCCCTTCTCTTTCTT
17837816 TTCCCCTTTC
Statistics
Matches: 30, Mismatches: 4, Indels: 6
0.75 0.10 0.15
Matches are distributed among these distances:
18 15 0.50
19 15 0.50
ACGTcount: A:0.02, C:0.36, G:0.00, T:0.62
Consensus pattern (19 bp):
CTTTTCCCTTCTCTTTCTT
Found at i:17839131 original size:34 final size:34
Alignment explanation
Indices: 17839088--17839156 Score: 138
Period size: 34 Copynumber: 2.0 Consensus size: 34
17839078 CTTGACTGGG
17839088 AGAAGAGAGAACACTGGTGTCATTAGCACCACCA
1 AGAAGAGAGAACACTGGTGTCATTAGCACCACCA
17839122 AGAAGAGAGAACACTGGTGTCATTAGCACCACCA
1 AGAAGAGAGAACACTGGTGTCATTAGCACCACCA
17839156 A
1 A
17839157 TGCTTACTTC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.39, C:0.23, G:0.23, T:0.14
Consensus pattern (34 bp):
AGAAGAGAGAACACTGGTGTCATTAGCACCACCA
Found at i:17843413 original size:24 final size:24
Alignment explanation
Indices: 17843381--17843430 Score: 100
Period size: 24 Copynumber: 2.1 Consensus size: 24
17843371 CGATCACTAC
17843381 TTGGGAACAAATGACCGAAAAGTT
1 TTGGGAACAAATGACCGAAAAGTT
17843405 TTGGGAACAAATGACCGAAAAGTT
1 TTGGGAACAAATGACCGAAAAGTT
17843429 TT
1 TT
17843431 ACTTAAATAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.40, C:0.12, G:0.24, T:0.24
Consensus pattern (24 bp):
TTGGGAACAAATGACCGAAAAGTT
Found at i:17845741 original size:40 final size:40
Alignment explanation
Indices: 17845686--17845953 Score: 367
Period size: 40 Copynumber: 6.7 Consensus size: 40
17845676 TAATTGAGGA
* *
17845686 TTATATCCGGGTTAAGTCCCAAAGGCTTTCGTACTGGTTG
1 TTATATCCGGGTTAAGTCCCGAAGGCATTCGTACTGGTTG
* * * *
17845726 TTATATCTGGGTTAAGTCCCAAAGCCATTCGTGCTGGTTG
1 TTATATCCGGGTTAAGTCCCGAAGGCATTCGTACTGGTTG
*
17845766 TTATATCCGGGTTAAGTCCCGAAGGCATTCGTGCTGGTTG
1 TTATATCCGGGTTAAGTCCCGAAGGCATTCGTACTGGTTG
* *
17845806 TTATATCCGGGTTAAGTCTCGAAGGCATTCGTGCTGGTTG
1 TTATATCCGGGTTAAGTCCCGAAGGCATTCGTACTGGTTG
* * *
17845846 TTATATCTGGGCTAAGTCCTGAAGGCATTCGTACTGGTTG
1 TTATATCCGGGTTAAGTCCCGAAGGCATTCGTACTGGTTG
** * *
17845886 TTATATCCGGGCCAAGTTCCGAAGGCACTCGTACTGG-TG
1 TTATATCCGGGTTAAGTCCCGAAGGCATTCGTACTGGTTG
* *
17845925 TTATATCTGGGCTAAGTCCCGAAGGCATT
1 TTATATCCGGGTTAAGTCCCGAAGGCATT
17845954 TGTGTTTGGA
Statistics
Matches: 206, Mismatches: 22, Indels: 1
0.90 0.10 0.00
Matches are distributed among these distances:
39 27 0.13
40 179 0.87
ACGTcount: A:0.20, C:0.20, G:0.27, T:0.33
Consensus pattern (40 bp):
TTATATCCGGGTTAAGTCCCGAAGGCATTCGTACTGGTTG
Found at i:17850592 original size:46 final size:47
Alignment explanation
Indices: 17850473--17850600 Score: 195
Period size: 46 Copynumber: 2.7 Consensus size: 47
17850463 GGTTGAACAT
* * *
17850473 CCGAACTTGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAAATGT
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAAACGC
* *
17850520 CGGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG-GGAACGC
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAAACGC
*
17850566 CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATG
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATG
17850601 AGTGGGTTAC
Statistics
Matches: 74, Mismatches: 7, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
46 37 0.50
47 37 0.50
ACGTcount: A:0.21, C:0.19, G:0.30, T:0.30
Consensus pattern (47 bp):
CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAAACGC
Found at i:17857543 original size:30 final size:30
Alignment explanation
Indices: 17857509--17857565 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
17857499 CCCGAGCCTA
17857509 GGGCAAAA-GTGTAATTATGCAAAAGTTTAG
1 GGGCAAAATG-GTAATTATGCAAAAGTTTAG
* *
17857539 GGGCAAAATGGTAATTTTGCCAAAGTT
1 GGGCAAAATGGTAATTATGCAAAAGTT
17857566 CGTATTAAGG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
30 23 0.96
31 1 0.04
ACGTcount: A:0.37, C:0.09, G:0.26, T:0.28
Consensus pattern (30 bp):
GGGCAAAATGGTAATTATGCAAAAGTTTAG
Found at i:17858111 original size:46 final size:47
Alignment explanation
Indices: 17857990--17858114 Score: 189
Period size: 46 Copynumber: 2.7 Consensus size: 47
17857980 TGAACATCCA
* * *
17857990 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAAATGTCGG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAAACGCCCG
* *
17858037 AACTCGTTGAGTTGAGTCCGAGTGCACTTATGGATG-GGAACGCCCG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAAACGCCCG
*
17858083 AGCTCGTTGAGTTGAGTCCGAGTTCACTTATG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATG
17858115 AGCAGGTTAC
Statistics
Matches: 71, Mismatches: 7, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
46 36 0.51
47 35 0.49
ACGTcount: A:0.22, C:0.18, G:0.30, T:0.30
Consensus pattern (47 bp):
AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAAACGCCCG
Found at i:17863964 original size:40 final size:40
Alignment explanation
Indices: 17863909--17864176 Score: 367
Period size: 40 Copynumber: 6.7 Consensus size: 40
17863899 TAATTGAGGA
* * *
17863909 TTATATCCGGGTTAAGTCCCGAAGGCTTTCGTGCTGGTTG
1 TTATATCCGGGCTAAGTCCTGAAGGCATTCGTGCTGGTTG
* *
17863949 TTATATCCAGGTTAAGTCCTGAAGGCATTCGTGCTGGTTG
1 TTATATCCGGGCTAAGTCCTGAAGGCATTCGTGCTGGTTG
* * *
17863989 TTATATCTGGGTTAAGTCCCGAAGGCATTCGTGCTGGTTG
1 TTATATCCGGGCTAAGTCCTGAAGGCATTCGTGCTGGTTG
* *
17864029 TTATATTCGGGCTAAGTCCTGAAGGCATTCGTGCTAGTTG
1 TTATATCCGGGCTAAGTCCTGAAGGCATTCGTGCTGGTTG
* *
17864069 TTATATCTGGGCCAAGTCCTGAAGGCATTCGTGCTGGTTG
1 TTATATCCGGGCTAAGTCCTGAAGGCATTCGTGCTGGTTG
* * * * *
17864109 TTATATCAGGGCCAAGTTCTAAAGGCATTCGTACTGG-TG
1 TTATATCCGGGCTAAGTCCTGAAGGCATTCGTGCTGGTTG
*
17864148 TTATATCCGGGCTAAGTCCCGAAGGCATT
1 TTATATCCGGGCTAAGTCCTGAAGGCATT
17864177 TGTGTTTGGA
Statistics
Matches: 204, Mismatches: 24, Indels: 1
0.89 0.10 0.00
Matches are distributed among these distances:
39 26 0.13
40 178 0.87
ACGTcount: A:0.20, C:0.19, G:0.28, T:0.33
Consensus pattern (40 bp):
TTATATCCGGGCTAAGTCCTGAAGGCATTCGTGCTGGTTG
Found at i:17869375 original size:14 final size:13
Alignment explanation
Indices: 17869340--17869405 Score: 53
Period size: 14 Copynumber: 5.0 Consensus size: 13
17869330 GATGTTTAAA
*
17869340 TACTTTTATTTAT
1 TACTTTTATTTTT
*
17869353 TATTTTTATGTTTT
1 TACTTTTAT-TTTT
17869367 TACTTTTATCTTTT
1 TACTTTTAT-TTTT
****
17869381 TAAAACTATTTTT
1 TACTTTTATTTTT
17869394 TA-TTTTATTTTT
1 TACTTTTATTTTT
17869406 ATTTAATTTT
Statistics
Matches: 41, Mismatches: 11, Indels: 3
0.75 0.20 0.05
Matches are distributed among these distances:
12 7 0.17
13 14 0.34
14 20 0.49
ACGTcount: A:0.21, C:0.06, G:0.02, T:0.71
Consensus pattern (13 bp):
TACTTTTATTTTT
Found at i:17892181 original size:19 final size:20
Alignment explanation
Indices: 17892154--17892196 Score: 61
Period size: 19 Copynumber: 2.2 Consensus size: 20
17892144 TCTTTTCGCA
* *
17892154 TTCATTCATTTGCATTACAT
1 TTCATTCATGTGCATTAAAT
17892174 TTCA-TCATGTGCATTAAAT
1 TTCATTCATGTGCATTAAAT
17892193 TTCA
1 TTCA
17892197 CAAAAAGACC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 17 0.81
20 4 0.19
ACGTcount: A:0.28, C:0.19, G:0.07, T:0.47
Consensus pattern (20 bp):
TTCATTCATGTGCATTAAAT
Found at i:17900287 original size:68 final size:68
Alignment explanation
Indices: 17900184--17900854 Score: 925
Period size: 68 Copynumber: 9.9 Consensus size: 68
17900174 ATCACTTTTC
* *
17900184 CCTGAAATGGCGTTGGAGCGGCTAAAAGCCACAGCAGATCTCCTTGAAGTTTCAGTGGATTTCTT
1 CCTGAAATGGCGTTGGAGCGGCTAAAAGCCACAGCAGATCTCCTTGAAGTTTCAGCGGATCTCTT
17900249 -TT
66 CTT
** ** *
17900251 CCCTGAAATGGCGTTGGAGCAACTAAAAGCCACAGCAGATCTCCTTGAAGTTTCAATGGATTTCT
1 -CCTGAAATGGCGTTGGAGCGGCTAAAAGCCACAGCAGATCTCCTTGAAGTTTCAGCGGATCTCT
17900316 T-TT
65 TCTT
* * *
17900319 CCCTGAAATGGCGTTGGAGCGGCTAAAAGCCACAGCAGGTCTCCTTGAAGTTTCAGTGGATTTCT
1 -CCTGAAATGGCGTTGGAGCGGCTAAAAGCCACAGCAGATCTCCTTGAAGTTTCAGCGGATCTCT
17900384 TCTT
65 TCTT
* * * * * *
17900388 CCTGAAATGGCATGGGAACGGCTAAAAGCCACAGCAGATCTCCTTGAAGTTTTAGCGAACCTCTT
1 CCTGAAATGGCGTTGGAGCGGCTAAAAGCCACAGCAGATCTCCTTGAAGTTTCAGCGGATCTCTT
17900453 CTT
66 CTT
* * *
17900456 CCTGAAATGGCATGGGAGCGGCTAAAAGCCACAACAGATCTCCTTGAAGTTTCAGCGGATCTCTT
1 CCTGAAATGGCGTTGGAGCGGCTAAAAGCCACAGCAGATCTCCTTGAAGTTTCAGCGGATCTCTT
17900521 CTT
66 CTT
* * *
17900524 CCTGAAATGGCGTTGGAGCGGTTAAAAGCCACAGCAGATCTCCTTGAAGTTTCAGCGAACCTCTT
1 CCTGAAATGGCGTTGGAGCGGCTAAAAGCCACAGCAGATCTCCTTGAAGTTTCAGCGGATCTCTT
17900589 CTT
66 CTT
* * * * * * *
17900592 CCTGAAATAGCATGGGAGCGGCTAAAAGTCACAACAGATCTCTTTGAAGTTTTAGCGGATCTCTT
1 CCTGAAATGGCGTTGGAGCGGCTAAAAGCCACAGCAGATCTCCTTGAAGTTTCAGCGGATCTCTT
17900657 -TT
66 CTT
* * * * ** *
17900659 CCCTGAAATGGCATTAGAGCGGTTAAAAGCCACAGCAGATCTCCTTGAAGTTTTAGCAAACCTCT
1 -CCTGAAATGGCGTTGGAGCGGCTAAAAGCCACAGCAGATCTCCTTGAAGTTTCAGCGGATCTCT
17900724 TCTT
65 TCTT
* * * *
17900728 CCTGAAATGGCGTTGGGGCGGCTAAAAGCCACAGTAGATCTCCTTGAAGTTTCAGCGAACCTCTT
1 CCTGAAATGGCGTTGGAGCGGCTAAAAGCCACAGCAGATCTCCTTGAAGTTTCAGCGGATCTCTT
17900793 CTT
66 CTT
*
17900796 CCTGAAATGGCGTTGGAGCGGCTAAAAGCCACAGCAGATCTCCTTGAAGTTTCAACGGA
1 CCTGAAATGGCGTTGGAGCGGCTAAAAGCCACAGCAGATCTCCTTGAAGTTTCAGCGGA
17900855 AGAAGATCAG
Statistics
Matches: 542, Mismatches: 58, Indels: 6
0.89 0.10 0.01
Matches are distributed among these distances:
67 2 0.00
68 536 0.99
69 4 0.01
ACGTcount: A:0.26, C:0.23, G:0.23, T:0.27
Consensus pattern (68 bp):
CCTGAAATGGCGTTGGAGCGGCTAAAAGCCACAGCAGATCTCCTTGAAGTTTCAGCGGATCTCTT
CTT
Found at i:17907170 original size:47 final size:47
Alignment explanation
Indices: 17907098--17907398 Score: 449
Period size: 47 Copynumber: 6.3 Consensus size: 47
17907088 CCCTTCGGGA
* * * * * * *
17907098 CTTATCACATTTATACACTTCCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
17907145 CCTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
17907192 CTTATCACATATATACACCTTCACATTCATCACATTGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
17907239 CTTATCACATATATACACCTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
17907286 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATAT--ACACTTTCACATTCATCACATCGGCCATTAGGC
17907335 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATAT--ACACTTTCACATTCATCACATCGGCCATTAGGC
17907384 CTTATCACATATATA
1 CTTATCACATATATA
17907399 TATCTCATAC
Statistics
Matches: 241, Mismatches: 11, Indels: 4
0.94 0.04 0.02
Matches are distributed among these distances:
47 146 0.61
49 95 0.39
ACGTcount: A:0.29, C:0.31, G:0.08, T:0.31
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:17911290 original size:47 final size:47
Alignment explanation
Indices: 17911219--17911351 Score: 173
Period size: 47 Copynumber: 2.8 Consensus size: 47
17911209 TAAGGTGCCA
* **
17911219 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCAT-ATCTC-AAGTTG
1 ATGCCATGTCCCAGACAT-GTCTTACACTGACT-ATCATCTCGAAGCCG
* *
17911266 ATGCCATGTCCCAGACATGATCTTACAGTGACTATCATCTCGTAGCCG
1 ATGCCATGTCCCAGACATG-TCTTACACTGACTATCATCTCGAAGCCG
17911314 ATG-CATGTCCCAGACATGTCTTACACTGACTATCATCT
1 ATGCCATGTCCCAGACATGTCTTACACTGACTATCATCT
17911352 GTCCCAGACA
Statistics
Matches: 77, Mismatches: 6, Indels: 7
0.86 0.07 0.08
Matches are distributed among these distances:
46 22 0.29
47 49 0.64
48 6 0.08
ACGTcount: A:0.25, C:0.29, G:0.17, T:0.29
Consensus pattern (47 bp):
ATGCCATGTCCCAGACATGTCTTACACTGACTATCATCTCGAAGCCG
Found at i:17911404 original size:47 final size:45
Alignment explanation
Indices: 17911351--17911471 Score: 138
Period size: 47 Copynumber: 2.6 Consensus size: 45
17911341 GACTATCATC
*
17911351 TGTCCCAGACATGTCTTACACTAGCTCTCTTCTCAA-T-GTCGATGTCA
1 TGTCCCAGACATGTCTTACACTAGCTCTC--AT-AAGTGGTCGATG-CA
* * *
17911398 TGTCCCATACATGGTCTTACACTGGCTCTCATAATGTGGTCGATGCT
1 TGTCCCAGACAT-GTCTTACACTAGCTCTCATAA-GTGGTCGATGCA
17911445 TGTCCCAGACATGTCTTACACTAGCTC
1 TGTCCCAGACATGTCTTACACTAGCTC
17911472 ACACTCATAT
Statistics
Matches: 64, Mismatches: 6, Indels: 9
0.81 0.08 0.11
Matches are distributed among these distances:
45 2 0.03
46 15 0.23
47 24 0.38
48 23 0.36
ACGTcount: A:0.21, C:0.29, G:0.17, T:0.33
Consensus pattern (45 bp):
TGTCCCAGACATGTCTTACACTAGCTCTCATAAGTGGTCGATGCA
Found at i:17911442 original size:126 final size:126
Alignment explanation
Indices: 17911225--17911466 Score: 319
Period size: 126 Copynumber: 1.9 Consensus size: 126
17911215 GCCAATGCCA
* *
17911225 TGTCCCAGACATGGTCTTACACTGGCTCATATCTCAAGTTGATGCCATGTCCCAGACATGATCTT
1 TGTCCCAGACATGGTCTTACACTAGCTCATATCTCAAGTCGATGCCATGTCCCAGACATGATCTT
* *
17911290 ACAGTGACTATCATCTCGTAGCCGATGCATGTCCCAGACATGTCTTACACTGACTATCATC
66 ACACTGACTATCATATCGTAGCCGATGCATGTCCCAGACATGTCTTACACTGACTATCATC
* * * *
17911351 TGTCCCAGACAT-GTCTTACACTAGCTC-TCTTCTCAATGTCGATGTCATGTCCCATACATGGTC
1 TGTCCCAGACATGGTCTTACACTAGCTCAT-ATCTCAA-GTCGATGCCATGTCCCAGACATGATC
* * * * *
17911414 TTACACTGGCTCTCATAAT-GTGGTCGATGCTTGTCCCAGACATGTCTTACACT
64 TTACACTGACTATCAT-ATCGTAGCCGATGCATGTCCCAGACATGTCTTACACT
17911467 AGCTCACACT
Statistics
Matches: 100, Mismatches: 13, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
124 1 0.01
125 20 0.20
126 78 0.78
127 1 0.01
ACGTcount: A:0.23, C:0.29, G:0.17, T:0.31
Consensus pattern (126 bp):
TGTCCCAGACATGGTCTTACACTAGCTCATATCTCAAGTCGATGCCATGTCCCAGACATGATCTT
ACACTGACTATCATATCGTAGCCGATGCATGTCCCAGACATGTCTTACACTGACTATCATC
Found at i:17921000 original size:55 final size:55
Alignment explanation
Indices: 17920887--17921047 Score: 198
Period size: 55 Copynumber: 2.9 Consensus size: 55
17920877 GCCGTAGGAA
* * * *
17920887 ACACTGACTTATCAACACGGTCATGGCACACACCCGTGCTACCTACACGTGGATG
1 ACACTGACTTATCAACACGGTCATGGCACACACCCGTGCTGCCTACCCATGGACG
* *
17920942 ACACTGACTTATCAACACGGTCACGGCACACACCCGTGCTGCCTGCCCATGGACG
1 ACACTGACTTATCAACACGGTCATGGCACACACCCGTGCTGCCTACCCATGGACG
* * * ** *
17920997 ACACTGTCTTTTTAACACGACCATGGCGCACACCCGTG-TGGCCTACCCATG
1 ACACTGACTTATCAACACGGTCATGGCACACACCCGTGCT-GCCTACCCATG
17921048 TACAACTTTG
Statistics
Matches: 91, Mismatches: 14, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
54 1 0.01
55 90 0.99
ACGTcount: A:0.24, C:0.35, G:0.20, T:0.20
Consensus pattern (55 bp):
ACACTGACTTATCAACACGGTCATGGCACACACCCGTGCTGCCTACCCATGGACG
Found at i:17926569 original size:4 final size:4
Alignment explanation
Indices: 17926560--17926601 Score: 84
Period size: 4 Copynumber: 10.5 Consensus size: 4
17926550 AAAAATTATA
17926560 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC AT
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC AT
17926602 TTATAACGAT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 38 1.00
ACGTcount: A:0.50, C:0.24, G:0.00, T:0.26
Consensus pattern (4 bp):
ATAC
Found at i:17931904 original size:5 final size:5
Alignment explanation
Indices: 17931890--17931926 Score: 51
Period size: 5 Copynumber: 7.8 Consensus size: 5
17931880 TAGCCATGTG
*
17931890 TTCT- TTCTC TTCTC TTCTC TTCTC TTCT- TTCTT TTCT
1 TTCTC TTCTC TTCTC TTCTC TTCTC TTCTC TTCTC TTCT
17931927 TTCCTTTTTA
Statistics
Matches: 31, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
4 8 0.26
5 23 0.74
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (5 bp):
TTCTC
Found at i:17932036 original size:39 final size:40
Alignment explanation
Indices: 17931993--17932069 Score: 120
Period size: 39 Copynumber: 1.9 Consensus size: 40
17931983 TTCATTTATG
* * *
17931993 TTTCATTTTATTTATTTATTATTATATA-ATATATATACA
1 TTTCATGTTATTTATTTATTATAACATATATATATATACA
17932032 TTTCATGTTATTTATTTATTATAACATATATATATATA
1 TTTCATGTTATTTATTTATTATAACATATATATATATA
17932070 TTAAGTTATC
Statistics
Matches: 34, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
39 25 0.74
40 9 0.26
ACGTcount: A:0.36, C:0.05, G:0.01, T:0.57
Consensus pattern (40 bp):
TTTCATGTTATTTATTTATTATAACATATATATATATACA
Found at i:17932055 original size:34 final size:34
Alignment explanation
Indices: 17931996--17932063 Score: 86
Period size: 34 Copynumber: 2.0 Consensus size: 34
17931986 ATTTATGTTT
* *
17931996 CATTTTATTTATTTATTATTATATAATATATATA
1 CATTTCATTTATTTATTATTATATAACATATATA
17932030 CATTTCATGTTATTTA-T-TTATTATAACATATATA
1 CATTTCAT-TTATTTATTATTA-TATAACATATATA
17932064 TATATATTAA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
33 3 0.10
34 20 0.67
35 7 0.23
ACGTcount: A:0.37, C:0.06, G:0.01, T:0.56
Consensus pattern (34 bp):
CATTTCATTTATTTATTATTATATAACATATATA
Found at i:17934483 original size:118 final size:117
Alignment explanation
Indices: 17934255--17934473 Score: 359
Period size: 118 Copynumber: 1.9 Consensus size: 117
17934245 AAGGATTATC
* *
17934255 ATTGTGTAACTGAATATCACTCCGGAAAAGCCAATGTCATGGCAGATGCTCTAAGTAAAAAAAAA
1 ATTGTGTAACTGAATATCACTCCAGAAAAGCCAATGTCATAGCAGATGCTCTAAGT-AAAAAAAA
*
17934320 CAAATGGTCGATCTAAGAGCAATGTTTTTTAGGTTAAGAGGTGGATAGAAATG
65 CAAATGATCGATCTAAGAGCAATGTTTTTTAGGTTAAGAGGTGGATAGAAATG
* *
17934373 ATTGTGTAACTGAATATCACTCTAGAAAAGCTAATGTCATAGCAGATGCTCTAAGT-AAAAAAAC
1 ATTGTGTAACTGAATATCACTCCAGAAAAGCCAATGTCATAGCAGATGCTCTAAGTAAAAAAAAC
* *
17934437 AAATGATTGGTCTAAGAGCAATGTTTTTTAGGTTAAG
66 AAATGATCGATCTAAGAGCAATGTTTTTTAGGTTAAG
17934474 TCTAGTGGAT
Statistics
Matches: 94, Mismatches: 7, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
116 42 0.45
118 52 0.55
ACGTcount: A:0.38, C:0.12, G:0.21, T:0.28
Consensus pattern (117 bp):
ATTGTGTAACTGAATATCACTCCAGAAAAGCCAATGTCATAGCAGATGCTCTAAGTAAAAAAAAC
AAATGATCGATCTAAGAGCAATGTTTTTTAGGTTAAGAGGTGGATAGAAATG
Found at i:17941137 original size:47 final size:46
Alignment explanation
Indices: 17941041--17941206 Score: 138
Period size: 47 Copynumber: 3.5 Consensus size: 46
17941031 AACCGATGCG
* * ** * *
17941041 TGTCCCAGACACGTCTTACATTGGCTA-TCATCGTCGAGGCCGATGCA
1 TGTCCCAGACATGTCTTACACTGGC-ACTCATAAT-GTGGCCGATCCA
** * *
17941088 TGTCCCAGACATGTCTTACACTGGCACTTGT-CTCTGTGCCGATACCA
1 TGTCCCAGACATGTCTTACACTGGCACTCATAATGTG-GCCGAT-CCA
* * *
17941135 TGTTCCAGACATGGTCTTATACTGGCACTCATAATGTGGCCGATGCA
1 TGTCCCAGACAT-GTCTTACACTGGCACTCATAATGTGGCCGATCCA
* *
17941182 TGTCCTAGACATTTCTTACACTGGC
1 TGTCCCAGACATGTCTTACACTGGC
17941207 GCACAATAAA
Statistics
Matches: 95, Mismatches: 19, Indels: 11
0.76 0.15 0.09
Matches are distributed among these distances:
45 1 0.01
46 19 0.20
47 50 0.53
48 22 0.23
49 3 0.03
ACGTcount: A:0.21, C:0.28, G:0.21, T:0.30
Consensus pattern (46 bp):
TGTCCCAGACATGTCTTACACTGGCACTCATAATGTGGCCGATCCA
Found at i:17946647 original size:29 final size:29
Alignment explanation
Indices: 17946615--17946687 Score: 101
Period size: 29 Copynumber: 2.5 Consensus size: 29
17946605 CTTCGAGCTC
*
17946615 GCACACCCAGTGCCGTATATTTCCAGCAT
1 GCACACCCAGTGCCATATATTTCCAGCAT
**
17946644 GCACACTTAGTGCCATATATTTCCAGCAT
1 GCACACCCAGTGCCATATATTTCCAGCAT
**
17946673 GCACACTTAGTGCCA
1 GCACACCCAGTGCCA
17946688 ATCTCGTCAC
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 41 1.00
ACGTcount: A:0.26, C:0.32, G:0.16, T:0.26
Consensus pattern (29 bp):
GCACACCCAGTGCCATATATTTCCAGCAT
Found at i:17952777 original size:40 final size:40
Alignment explanation
Indices: 17952717--17952879 Score: 170
Period size: 40 Copynumber: 4.1 Consensus size: 40
17952707 CGGGATTTAA
* ** *
17952717 CCGGATATAACCACAAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACAACTCGCACAATTGCCTTCGGGTCTTAGC
* *** *
17952757 CCGGATTTGGTAACTTGCACAATTGCCTTCGGGTCTTAGC
1 CCGGATATAACAACTCGCACAATTGCCTTCGGGTCTTAGC
17952797 CCGGATATAACAACTCGCACGAA-TGCCTTCGGGTCTTAGC
1 CCGGATATAACAACTCGCAC-AATTGCCTTCGGGTCTTAGC
* * * *
17952837 CCGGATATAATC-ACTAGCATAAATGCCTTC-GGACTTAGC
1 CCGGATATAA-CAACTCGCACAATTGCCTTCGGGTCTTAGC
17952876 CCGG
1 CCGG
17952880 GTATCATTCA
Statistics
Matches: 104, Mismatches: 16, Indels: 7
0.82 0.13 0.06
Matches are distributed among these distances:
39 14 0.13
40 87 0.84
41 3 0.03
ACGTcount: A:0.25, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
CCGGATATAACAACTCGCACAATTGCCTTCGGGTCTTAGC
Found at i:17952864 original size:80 final size:79
Alignment explanation
Indices: 17952717--17952879 Score: 193
Period size: 80 Copynumber: 2.1 Consensus size: 79
17952707 CGGGATTTAA
* * ** * *
17952717 CCGGATATAACCACAAGCACAATTGCCTTCGGGTCTTAACCCGGATTTGGTAACTTGCACAATTG
1 CCGGATATAACAACAAGCACAATTGCCTTCGGGTCTTAACCCGGATATAATAACTAGCACAAATG
*
17952782 CCTTCGGGTCTTAGC
66 CCTTC-GGACTTAGC
** * * *
17952797 CCGGATATAACAACTCGCACGAA-TGCCTTCGGGTCTTAGCCCGGATATAATCACTAGCATAAAT
1 CCGGATATAACAACAAGCAC-AATTGCCTTCGGGTCTTAACCCGGATATAATAACTAGCACAAAT
17952861 GCCTTCGGACTTAGC
65 GCCTTCGGACTTAGC
17952876 CCGG
1 CCGG
17952880 GTATCATTCA
Statistics
Matches: 70, Mismatches: 12, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
79 12 0.17
80 56 0.80
81 2 0.03
ACGTcount: A:0.25, C:0.28, G:0.21, T:0.25
Consensus pattern (79 bp):
CCGGATATAACAACAAGCACAATTGCCTTCGGGTCTTAACCCGGATATAATAACTAGCACAAATG
CCTTCGGACTTAGC
Found at i:17960891 original size:40 final size:40
Alignment explanation
Indices: 17960838--17960985 Score: 174
Period size: 40 Copynumber: 3.7 Consensus size: 40
17960828 TTAACCACAA
* * *** *
17960838 GCACAATTGCCTTCGGGTCTTAACCCGGATTTGGTAACTT
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAACAACTC
17960878 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAACAACTC
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAACAACTC
*
17960918 GCACGAA-TGCCTTCGGGTCTTAGCCCGGATATAATC-ACTA
1 GCAC-AATTGCCTTCGGGTCTTAGCCCGGATATAA-CAACTC
* * *
17960958 GCATAAATGCCTTCGGGACTTAGCCCGG
1 GCACAATTGCCTTCGGGTCTTAGCCCGG
17960986 GTATCATTCA
Statistics
Matches: 96, Mismatches: 9, Indels: 6
0.86 0.08 0.05
Matches are distributed among these distances:
39 2 0.02
40 91 0.95
41 3 0.03
ACGTcount: A:0.23, C:0.28, G:0.23, T:0.26
Consensus pattern (40 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATATAACAACTC
Found at i:17962958 original size:47 final size:45
Alignment explanation
Indices: 17962771--17963061 Score: 196
Period size: 47 Copynumber: 6.2 Consensus size: 45
17962761 TTGGGCTGTC
17962771 ACACTGGCTA-TCATCATCGAGGCCGATGCCATGTCCCAGACATGGTCTT
1 ACACTGGC-ACTCATC-TCG-GGCCGATG-CATGTCCCAGACAT-GTCTT
* * * * ** * *
17962820 ATACTAGCTCTCGTATATACATGCTGATGCATGTCTCAGACATGTCTT
1 ACACTGGCACTC--ATCT-CGGGCCGATGCATGTCCCAGACATGTCTT
* * *** * *
17962868 ACACTAGCA--CAACTCTTAACCGATGCGTGTCCCAGACACGTCTT
1 ACACTGGCACTCATCTC-GGGCCGATGCATGTCCCAGACATGTCTT
* *
17962912 ACACTGGCTA-TCATCGTCGAGGCAGATGCATGTCCCAAACATGTCTT
1 ACACTGGC-ACTCATC-TCG-GGCCGATGCATGTCCCAGACATGTCTT
* * *
17962959 ACACTGGCACTCGTCTCTGTGCCGATGCCATGTCCTAGACATGGTCTT
1 ACACTGGCACTCATCTC-GGGCCGATG-CATGTCCCAGACAT-GTCTT
* *
17963007 ATACTGGCACTCATAAT-GTGGCCGATGCATGTCCCAGACATGTCTT
1 ACACTGGCACTCAT-CTCG-GGCCGATGCATGTCCCAGACATGTCTT
17963053 ACACTGGCA
1 ACACTGGCA
17963062 TGCAAGAAAT
Statistics
Matches: 188, Mismatches: 39, Indels: 33
0.72 0.15 0.13
Matches are distributed among these distances:
43 1 0.01
44 30 0.16
45 1 0.01
46 26 0.14
47 62 0.33
48 36 0.19
49 22 0.12
50 7 0.04
51 3 0.02
ACGTcount: A:0.24, C:0.29, G:0.20, T:0.27
Consensus pattern (45 bp):
ACACTGGCACTCATCTCGGGCCGATGCATGTCCCAGACATGTCTT
Found at i:17963036 original size:94 final size:92
Alignment explanation
Indices: 17962792--17963061 Score: 262
Period size: 94 Copynumber: 2.9 Consensus size: 92
17962782 CATCATCGAG
* * ** * *
17962792 GCCGATGCCATGTCCCAGACATGGTCTTATACTAGCTCTCGTATATACAT-GCTGATGCATGTCT
1 GCCGATGCCATGTCCCAGACATGGTCTTATACTGGCACTC--ATA-ATGTGGCAGATGCATGTCC
*
17962856 CAGACATGTCTTACACTAGCACAACTCTTA
63 CAGACATGTCTTACACTGGCACAACTCTTA
* * * * ** *
17962886 ACCGATG-CGTGTCCCAGACA-CGTCTTACACTGGCTA-TCATCGTCGAGGCAGATGCATGTCCC
1 GCCGATGCCATGTCCCAGACATGGTCTTATACTGGC-ACTCATAAT-GTGGCAGATGCATGTCCC
* * *
17962948 AAACATGTCTTACACTGGCAC-TCGTCTCTGT
64 AGACATGTCTTACACTGGCACAAC-TCT-T-A
* *
17962979 GCCGATGCCATGTCCTAGACATGGTCTTATACTGGCACTCATAATGTGGCCGATGCATGTCCCAG
1 GCCGATGCCATGTCCCAGACATGGTCTTATACTGGCACTCATAATGTGGCAGATGCATGTCCCAG
17963044 ACATGTCTTACACTGGCA
66 ACATGTCTTACACTGGCA
17963062 TGCAAGAAAT
Statistics
Matches: 140, Mismatches: 27, Indels: 18
0.76 0.15 0.10
Matches are distributed among these distances:
90 3 0.02
91 35 0.25
92 14 0.10
93 18 0.13
94 53 0.38
95 17 0.12
ACGTcount: A:0.23, C:0.29, G:0.20, T:0.27
Consensus pattern (92 bp):
GCCGATGCCATGTCCCAGACATGGTCTTATACTGGCACTCATAATGTGGCAGATGCATGTCCCAG
ACATGTCTTACACTGGCACAACTCTTA
Found at i:17963444 original size:30 final size:30
Alignment explanation
Indices: 17963403--17963459 Score: 87
Period size: 30 Copynumber: 1.9 Consensus size: 30
17963393 AAATTCACAT
* *
17963403 CTTTGGAAAAATGACCATTTTGCCCCTAAA
1 CTTTGGAAAAATGACAATTTTACCCCTAAA
*
17963433 CTTTGGCAAAATGACAATTTTACCCCT
1 CTTTGGAAAAATGACAATTTTACCCCT
17963460 GTGCTCGAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.32, C:0.25, G:0.12, T:0.32
Consensus pattern (30 bp):
CTTTGGAAAAATGACAATTTTACCCCTAAA
Found at i:17977044 original size:14 final size:14
Alignment explanation
Indices: 17977025--17977072 Score: 64
Period size: 14 Copynumber: 3.5 Consensus size: 14
17977015 CTCGAATGAG
17977025 TTTTTTT-TACTTT
1 TTTTTTTCTACTTT
17977038 TTTTTTTCTACTTT
1 TTTTTTTCTACTTT
*
17977052 TTTTTTGCTA-TTT
1 TTTTTTTCTACTTT
17977065 TCTTTTTT
1 T-TTTTTT
17977073 TTTTCACTAT
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
13 11 0.35
14 20 0.65
ACGTcount: A:0.06, C:0.10, G:0.02, T:0.81
Consensus pattern (14 bp):
TTTTTTTCTACTTT
Found at i:17977065 original size:21 final size:20
Alignment explanation
Indices: 17977049--17977085 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 20
17977039 TTTTTTCTAC
*
17977049 TTTTTTTTT-GCTATTTTCT
1 TTTTTTTTTCACTATTTTCT
17977068 TTTTTTTTTCACTATTTT
1 TTTTTTTTTCACTATTTT
17977086 GCTGTCATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
19 9 0.56
20 7 0.44
ACGTcount: A:0.08, C:0.11, G:0.03, T:0.78
Consensus pattern (20 bp):
TTTTTTTTTCACTATTTTCT
Found at i:17977610 original size:2 final size:2
Alignment explanation
Indices: 17977603--17977641 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
17977593 TTATAGCGAA
17977603 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
17977642 ACTTGTTCTA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:17979253 original size:3 final size:3
Alignment explanation
Indices: 17979245--17979286 Score: 57
Period size: 3 Copynumber: 14.0 Consensus size: 3
17979235 ATCAAGTACT
* * *
17979245 TAA TAA TAA TAA TAA TAT TAA TAA TAA TAA TGA TAA TGA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
17979287 CATGTCATGT
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.60, C:0.00, G:0.05, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:17980975 original size:24 final size:23
Alignment explanation
Indices: 17980925--17980977 Score: 61
Period size: 23 Copynumber: 2.3 Consensus size: 23
17980915 TTTAAGATTT
* * * *
17980925 AAATTTAAATTCTCACAAAACTT
1 AAATTTAAAATCTCAAAAAAATC
17980948 AAATTTAAAATCTCAAAACAAATC
1 AAATTTAAAATCTCAAAA-AAATC
17980972 AAATTT
1 AAATTT
17980978 TTTATCATTT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
23 16 0.64
24 9 0.36
ACGTcount: A:0.53, C:0.15, G:0.00, T:0.32
Consensus pattern (23 bp):
AAATTTAAAATCTCAAAAAAATC
Found at i:17982948 original size:19 final size:19
Alignment explanation
Indices: 17982886--17982957 Score: 83
Period size: 20 Copynumber: 3.7 Consensus size: 19
17982876 AAAAATTACA
*
17982886 AAAAAATCAAAATAATTTT
1 AAAAATTCAAAATAATTTT
*
17982905 CAAAAATTGAAAATAATTTT
1 -AAAAATTCAAAATAATTTT
*
17982925 TAAAATTCAAAAT-ATTTAT
1 AAAAATTCAAAATAATTT-T
17982944 AAAAATTCTAAAAT
1 AAAAATTC-AAAAT
17982958 TTGTATTTTT
Statistics
Matches: 45, Mismatches: 5, Indels: 4
0.83 0.09 0.07
Matches are distributed among these distances:
18 4 0.09
19 19 0.42
20 22 0.49
ACGTcount: A:0.58, C:0.06, G:0.01, T:0.35
Consensus pattern (19 bp):
AAAAATTCAAAATAATTTT
Found at i:17982974 original size:18 final size:19
Alignment explanation
Indices: 17982953--17982994 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 19
17982943 TAAAAATTCT
*
17982953 AAAATTTGT-ATTTTTAAA
1 AAAATTTATAATTTTTAAA
*
17982971 AAAAATTATAATTTTTAAA
1 AAAATTTATAATTTTTAAA
17982990 AAAAT
1 AAAAT
17982995 CTAAAAAATA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
18 7 0.35
19 13 0.65
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (19 bp):
AAAATTTATAATTTTTAAA
Found at i:17983371 original size:21 final size:22
Alignment explanation
Indices: 17983334--17983374 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
17983324 ACCTTATCTA
17983334 AAGTTAAAAAGTCAAAATTATC
1 AAGTTAAAAAGTCAAAATTATC
*
17983356 AAGTTAAAAGGT-AAAATTA
1 AAGTTAAAAAGTCAAAATTA
17983375 CGTTGTTTTG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 7 0.39
22 11 0.61
ACGTcount: A:0.56, C:0.05, G:0.12, T:0.27
Consensus pattern (22 bp):
AAGTTAAAAAGTCAAAATTATC
Found at i:17992227 original size:42 final size:42
Alignment explanation
Indices: 17992163--17992248 Score: 145
Period size: 42 Copynumber: 2.0 Consensus size: 42
17992153 TACAATAAAC
17992163 ATTCCAATGGCAGTCCAATTAGGCTCAAAGCTCTTGCAGTTA
1 ATTCCAATGGCAGTCCAATTAGGCTCAAAGCTCTTGCAGTTA
* * *
17992205 ATTCTAATGGCAGTCCAATTAGGCTTAAAGCTTTTGCAGTTA
1 ATTCCAATGGCAGTCCAATTAGGCTCAAAGCTCTTGCAGTTA
17992247 AT
1 AT
17992249 CTCTCATTAC
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
42 41 1.00
ACGTcount: A:0.29, C:0.20, G:0.19, T:0.33
Consensus pattern (42 bp):
ATTCCAATGGCAGTCCAATTAGGCTCAAAGCTCTTGCAGTTA
Found at i:17996093 original size:41 final size:40
Alignment explanation
Indices: 17996048--17996225 Score: 144
Period size: 41 Copynumber: 4.3 Consensus size: 40
17996038 GCACAAACAT
* *
17996048 CCTTCGAAATCAAGCCCGATTCTTAGCACTGGCTCAAAAGC
1 CCTTCGAAA-CAAGCCCGATTATGAGCACTGGCTCAAAAGC
* * * * *
17996089 CCTTCGAGACCAAGCTCGGATTA-GACCACTGGCTCGAAGGC
1 CCTTCGA-AACAAGC-CCGATTATGAGCACTGGCTCAAAAGC
* * * *
17996130 CCTTCGGAACTAAGTCCGGTTATGA-CACTGGCTCTAAAGC
1 CCTTCGAAAC-AAGCCCGATTATGAGCACTGGCTCAAAAGC
** * * *
17996170 CCTTCGAAACTAAGTTCGGTTATTAGCACTGGCTCAAAGGC
1 CCTTCGAAAC-AAGCCCGATTATGAGCACTGGCTCAAAAGC
17996211 CCTTCGAAACCAAGC
1 CCTTCGAAA-CAAGC
17996226 TCGGATTTAA
Statistics
Matches: 111, Mismatches: 20, Indels: 12
0.78 0.14 0.08
Matches are distributed among these distances:
40 42 0.38
41 62 0.56
42 7 0.06
ACGTcount: A:0.27, C:0.30, G:0.21, T:0.22
Consensus pattern (40 bp):
CCTTCGAAACAAGCCCGATTATGAGCACTGGCTCAAAAGC
Found at i:17996269 original size:2 final size:2
Alignment explanation
Indices: 17996264--17996295 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
17996254 ACATATATGC
17996264 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
17996296 CACATCTGGA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:18004653 original size:40 final size:42
Alignment explanation
Indices: 18004609--18004710 Score: 124
Period size: 40 Copynumber: 2.5 Consensus size: 42
18004599 CGGATTAGAC
*
18004609 CACTGGCTCGAAGGCCCTTCGGAA-CTAAG-TCTAGTTATGA-
1 CACTGGCTCAAAGGCCCTTCGGAAGCTAAGTTC-AGTTATGAG
* *
18004649 CACTGGCTCTAAA-GCCCTTC-GAAGCTAAGTTCGGTTATTAG
1 CACTGGCTC-AAAGGCCCTTCGGAAGCTAAGTTCAGTTATGAG
18004690 CACTGGCTCAAAGGCCCTTCG
1 CACTGGCTCAAAGGCCCTTCG
18004711 AAACCAAGCT
Statistics
Matches: 53, Mismatches: 3, Indels: 10
0.80 0.05 0.15
Matches are distributed among these distances:
39 3 0.06
40 30 0.57
41 20 0.38
ACGTcount: A:0.24, C:0.27, G:0.24, T:0.25
Consensus pattern (42 bp):
CACTGGCTCAAAGGCCCTTCGGAAGCTAAGTTCAGTTATGAG
Found at i:18004755 original size:2 final size:2
Alignment explanation
Indices: 18004748--18004796 Score: 71
Period size: 2 Copynumber: 24.0 Consensus size: 2
18004738 TAGCATTCAC
**
18004748 AT AT AT AT GC 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
18004790 AT CAT AT
1 AT -AT AT
18004797 CACATCTGGA
Statistics
Matches: 42, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
2 40 0.95
3 2 0.05
ACGTcount: A:0.47, C:0.04, G:0.02, T:0.47
Consensus pattern (2 bp):
AT
Found at i:18009420 original size:31 final size:31
Alignment explanation
Indices: 18009379--18009441 Score: 92
Period size: 31 Copynumber: 2.0 Consensus size: 31
18009369 GTGGAGAAGA
18009379 TGAATAAGAAATCTTC-TCTCCACTATCACAC
1 TGAATAAGAAATCTTCTTC-CCACTATCACAC
* *
18009410 TGAATGAGAAATCTTCTTCCCACTGTCACAC
1 TGAATAAGAAATCTTCTTCCCACTATCACAC
18009441 T
1 T
18009442 ATCCTATTTA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
31 27 0.93
32 2 0.07
ACGTcount: A:0.32, C:0.29, G:0.10, T:0.30
Consensus pattern (31 bp):
TGAATAAGAAATCTTCTTCCCACTATCACAC
Found at i:18011365 original size:46 final size:46
Alignment explanation
Indices: 18011315--18011490 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
18011305 TGGTTGAGCA
18011315 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
18011361 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
18011406 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
18011454 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
18011491 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 63 0.57
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:18011471 original size:93 final size:93
Alignment explanation
Indices: 18011312--18011483 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
18011302 GGATGGTTGA
* *
18011312 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
18011377 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
18011405 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
18011470 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
18011484 CTTATGGGCG
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:18014023 original size:40 final size:40
Alignment explanation
Indices: 18013968--18014224 Score: 308
Period size: 40 Copynumber: 6.5 Consensus size: 40
18013958 CGGATGATAA
* *
18013968 CCGGGCTAAGTCCCGAAGACATTTGTGCTAGTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTATA-T
* *
18014008 CCGGGCTAAGCCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTATAT
*
18014048 CCGGGCTAAGTCCCGAAGGTATTTGTGCGAGTTG-CTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TGACTATAT
* * * * *
18014088 CCGAGCTATGTCCCGAAGGCATTTATGCTAGTGATTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTATAT
* *
18014128 CCGGGCTAAGACCCGAAGGCATTTGTACGAGTTG-CTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TGACTATAT
* *
18014168 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-TTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TGACTATAT
*
18014208 CC-GGCTAAATCCCGAAG
1 CCGGGCTAAGTCCCGAAG
18014225 ATACTTGGGT
Statistics
Matches: 189, Mismatches: 24, Indels: 9
0.85 0.11 0.04
Matches are distributed among these distances:
39 15 0.08
40 170 0.90
41 4 0.02
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.27
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTATAT
Found at i:18014103 original size:80 final size:80
Alignment explanation
Indices: 18013968--18014224 Score: 340
Period size: 80 Copynumber: 3.2 Consensus size: 80
18013958 CGGATGATAA
* * *
18013968 CCGGGCTAAGTCCCGAAGACATTTGTGCTAG-TGACTA-ATTCCGGGCTAAGCCCCGAAGGCATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTG-CTATA-TCCGGGCTAAGACCCGAAGGCATT
*
18014031 TGTGCGAGTTACTATAT
64 TGTGCGAGTTATTATAT
* * * * *
18014048 CCGGGCTAAGTCCCGAAGGTATTTGTGCGAGTTGCTATATCCGAGCTATGTCCCGAAGGCATTTA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTGCTATATCCGGGCTAAGACCCGAAGGCATTTG
* *
18014113 TGCTAGTGATTATAT
66 TGCGAGTTATTATAT
* *
18014128 CCGGGCTAAGACCCGAAGGCATTTGTACGAGTTGCTATATCCGGGCTAAGACCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTGCTATATCCGGGCTAAGACCCGAAGGCATTTG
*
18014193 TGCGAGTTGTTATAT
66 TGCGAGTTATTATAT
*
18014208 CC-GGCTAAATCCCGAAG
1 CCGGGCTAAGTCCCGAAG
18014225 ATACTTGGGT
Statistics
Matches: 153, Mismatches: 22, Indels: 5
0.85 0.12 0.03
Matches are distributed among these distances:
79 13 0.08
80 137 0.90
81 3 0.02
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.27
Consensus pattern (80 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTGCTATATCCGGGCTAAGACCCGAAGGCATTTG
TGCGAGTTATTATAT
Found at i:18014192 original size:120 final size:119
Alignment explanation
Indices: 18013971--18014225 Score: 386
Period size: 120 Copynumber: 2.1 Consensus size: 119
18013961 ATGATAACCG
* * *
18013971 GGCTAAGTCCCGAAGACATTTGTGCTAGTGACTAATTCCGGGCTAAGCCCCGAAGGCATTTGTGC
1 GGCTAAGTCCCGAAGACATTTATGCTAGTGACTAATTCCGGGCTAAGACCCGAAGGCATTTGTAC
* *
18014036 GAGTTACTATATCCGGGCTAAGTCCCGAAGGTATTTGTGCGAGTTGCTATATCC
66 GAGTTACTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATATCC
* * *
18014090 GAGCTATGTCCCGAAGGCATTTATGCTAGTGA-TTATATCCGGGCTAAGACCCGAAGGCATTTGT
1 G-GCTAAGTCCCGAAGACATTTATGCTAGTGACTAAT-TCCGGGCTAAGACCCGAAGGCATTTGT
* *
18014154 ACGAGTTGCTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATATCC
64 ACGAGTTACTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATATCC
*
18014210 GGCTAAATCCCGAAGA
1 GGCTAAGTCCCGAAGA
18014226 TACTTGGGTT
Statistics
Matches: 121, Mismatches: 13, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
119 16 0.13
120 105 0.87
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.27
Consensus pattern (119 bp):
GGCTAAGTCCCGAAGACATTTATGCTAGTGACTAATTCCGGGCTAAGACCCGAAGGCATTTGTAC
GAGTTACTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATATCC
Found at i:18014492 original size:22 final size:22
Alignment explanation
Indices: 18014452--18014493 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
18014442 GAATGTGCAT
*
18014452 ATATGAAGTTATTCATTTAGCC
1 ATATGAAGTTATACATTTAGCC
18014474 ATATGAATGTTATAC-TTTAG
1 ATATGAA-GTTATACATTTAG
18014494 TCAAAACTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 12 0.67
23 6 0.33
ACGTcount: A:0.33, C:0.10, G:0.14, T:0.43
Consensus pattern (22 bp):
ATATGAAGTTATACATTTAGCC
Found at i:18016368 original size:16 final size:16
Alignment explanation
Indices: 18016347--18016415 Score: 56
Period size: 16 Copynumber: 4.4 Consensus size: 16
18016337 CTTCATTAGA
18016347 TTTATAACTTGTAACT
1 TTTATAACTTGTAACT
* * *
18016363 TTTATATCTTCTAAGT
1 TTTATAACTTGTAACT
18016379 TTATATAA-TAT-TAGA--
1 TT-TATAACT-TGTA-ACT
18016394 TTTATAACTTGTAACT
1 TTTATAACTTGTAACT
18016410 TTTATA
1 TTTATA
18016416 TCTTCTAAGT
Statistics
Matches: 42, Mismatches: 4, Indels: 14
0.70 0.07 0.23
Matches are distributed among these distances:
14 7 0.17
15 5 0.12
16 24 0.57
17 6 0.14
ACGTcount: A:0.33, C:0.09, G:0.06, T:0.52
Consensus pattern (16 bp):
TTTATAACTTGTAACT
Found at i:18016410 original size:47 final size:48
Alignment explanation
Indices: 18016341--18016441 Score: 186
Period size: 47 Copynumber: 2.1 Consensus size: 48
18016331 AATTTTCTTC
*
18016341 ATTAGATTTATAACTTGTAACTTTTATATCTTCTAAGTTTATATAA-T
1 ATTAGATTTATAACTTGTAACTTTTATATCTTCTAAGTTTACATAATT
18016388 ATTAGATTTATAACTTGTAACTTTTATATCTTCTAAGTTTACATAATT
1 ATTAGATTTATAACTTGTAACTTTTATATCTTCTAAGTTTACATAATT
18016436 ATTAGA
1 ATTAGA
18016442 ACTACTACTA
Statistics
Matches: 52, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
47 45 0.87
48 7 0.13
ACGTcount: A:0.35, C:0.09, G:0.07, T:0.50
Consensus pattern (48 bp):
ATTAGATTTATAACTTGTAACTTTTATATCTTCTAAGTTTACATAATT
Found at i:18030631 original size:40 final size:40
Alignment explanation
Indices: 18030579--18030727 Score: 190
Period size: 40 Copynumber: 3.7 Consensus size: 40
18030569 TATAACCACA
* * * **
18030579 AGCACAATTGCCTTCGGGTCTTAACCCGGATTTGGTAACT
1 AGCACAAATGCCTTCGGGTCTTAGCCCGGATATAATAACT
* *
18030619 TGCACAAATGCCTTCGGGTCTTAGCCCGGATATAACAACT
1 AGCACAAATGCCTTCGGGTCTTAGCCCGGATATAATAACT
* * *
18030659 CGCACGAATGCCTTCGGGTCTTAGCCCGGATATAATCACT
1 AGCACAAATGCCTTCGGGTCTTAGCCCGGATATAATAACT
* *
18030699 AGCATAAATGCCTTCGGGACTTAGCCCGG
1 AGCACAAATGCCTTCGGGTCTTAGCCCGG
18030728 GTATCATTCA
Statistics
Matches: 94, Mismatches: 15, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 94 1.00
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.26
Consensus pattern (40 bp):
AGCACAAATGCCTTCGGGTCTTAGCCCGGATATAATAACT
Found at i:18044710 original size:57 final size:58
Alignment explanation
Indices: 18044570--18044717 Score: 158
Period size: 57 Copynumber: 2.6 Consensus size: 58
18044560 CTATTTACCT
* ** * * *
18044570 CATTATAGAAAGGATTTAGCCCAGACGGGTAATCCTAATATAATACCTCTCGAGTATA
1 CATTATATAAAGGATTTAGCCTGGACTGGTAATCCTAATATAATACCTCTCAAGCATA
* * * * *
18044628 CGTTATGATTAAGG-TTTAGCCTGGACTGGTAATCCTAAT-TGA-ACTCTTTTAAGCATA
1 CATTAT-ATAAAGGATTTAGCCTGGACTGGTAATCCTAATATAATAC-CTCTCAAGCATA
18044685 CATTATATAAAGGATTTAGCCTGGACTGGTAAT
1 CATTATATAAAGGATTTAGCCTGGACTGGTAAT
18044718 TCTGTTATAC
Statistics
Matches: 74, Mismatches: 13, Indels: 7
0.79 0.14 0.07
Matches are distributed among these distances:
56 8 0.11
57 34 0.46
58 27 0.36
59 5 0.07
ACGTcount: A:0.32, C:0.16, G:0.19, T:0.32
Consensus pattern (58 bp):
CATTATATAAAGGATTTAGCCTGGACTGGTAATCCTAATATAATACCTCTCAAGCATA
Found at i:18048906 original size:33 final size:33
Alignment explanation
Indices: 18048832--18048914 Score: 91
Period size: 32 Copynumber: 2.5 Consensus size: 33
18048822 TTATAAAACC
* * *
18048832 TAAAGATGAAGTAAAAATAGTATTAAAGAGAAA
1 TAAAGATAAAATAAAAATAGTATTAAAGACAAA
18048865 TAAA-ATAAAATAAAAAGTAAGT-TTAAA-ACAAA
1 TAAAGATAAAATAAAAA-T-AGTATTAAAGACAAA
18048897 TAAAGATAAAAGTAAAAA
1 TAAAGATAAAA-TAAAAA
18048915 CATTGAAATA
Statistics
Matches: 43, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
32 18 0.42
33 16 0.37
34 9 0.21
ACGTcount: A:0.66, C:0.01, G:0.12, T:0.20
Consensus pattern (33 bp):
TAAAGATAAAATAAAAATAGTATTAAAGACAAA
Found at i:18050978 original size:55 final size:55
Alignment explanation
Indices: 18050890--18051020 Score: 145
Period size: 55 Copynumber: 2.4 Consensus size: 55
18050880 ATATATGTGC
* * * *
18050890 ACGCCCGTGTTCATTTGACAGTATCGACCACGGCTTCTAGACACCGGCATGTCAA
1 ACGCCCGTGTTCTTTTGGCAGTATCAACCACGGCTTATAGACACCGGCATGTCAA
* * * * * ***
18050945 ATGCCCGTGTTTTTTTGGCAGTTTCAACCACGGCTTATAGACACGGGCGTGTTGC
1 ACGCCCGTGTTCTTTTGGCAGTATCAACCACGGCTTATAGACACCGGCATGTCAA
*
18051000 ACGCCCGTGTTGTTTTGGCAG
1 ACGCCCGTGTTCTTTTGGCAG
18051021 GATTGTCCAC
Statistics
Matches: 62, Mismatches: 14, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
55 62 1.00
ACGTcount: A:0.18, C:0.27, G:0.26, T:0.29
Consensus pattern (55 bp):
ACGCCCGTGTTCTTTTGGCAGTATCAACCACGGCTTATAGACACCGGCATGTCAA
Found at i:18057141 original size:37 final size:37
Alignment explanation
Indices: 18057091--18057164 Score: 91
Period size: 37 Copynumber: 2.0 Consensus size: 37
18057081 GATCGATGTC
*
18057091 GTTGTGATTAGCCAAATG-TAT-TGGCTTATAATGATTT
1 GTTGTGATTAGCC--ATGAGATGTGGCTTATAATGATTT
18057128 GTTGT-ATGTAGCCATGAGATGTGGCTTATAATGATTT
1 GTTGTGAT-TAGCCATGAGATGTGGCTTATAATGATTT
18057165 TGGCTTGTAA
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
35 3 0.09
36 4 0.12
37 26 0.79
ACGTcount: A:0.26, C:0.08, G:0.24, T:0.42
Consensus pattern (37 bp):
GTTGTGATTAGCCATGAGATGTGGCTTATAATGATTT
Found at i:18059074 original size:15 final size:14
Alignment explanation
Indices: 18059038--18059100 Score: 54
Period size: 15 Copynumber: 4.2 Consensus size: 14
18059028 TATGATATCG
*
18059038 TATCTTGGATTTTT
1 TATCTTGGATTCTT
*
18059052 GTACCTTGGATATCTT
1 -TATCTTGGAT-TCTT
*
18059068 TATCTTGGATTCCTC
1 TATCTTGGATT-CTT
*
18059083 TATCATGGATTTCTT
1 TATCTTGGA-TTCTT
18059098 TAT
1 TAT
18059101 TCTGGCTTTC
Statistics
Matches: 39, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
14 1 0.03
15 33 0.85
16 5 0.13
ACGTcount: A:0.17, C:0.16, G:0.14, T:0.52
Consensus pattern (14 bp):
TATCTTGGATTCTT
Found at i:18070303 original size:15 final size:15
Alignment explanation
Indices: 18070279--18070308 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
18070269 TCCTAAAAAA
*
18070279 TTCTATTTCTATTTT
1 TTCTAGTTCTATTTT
18070294 TTCTAGTTCTATTTT
1 TTCTAGTTCTATTTT
18070309 CTTAGGGCTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.13, C:0.13, G:0.03, T:0.70
Consensus pattern (15 bp):
TTCTAGTTCTATTTT
Found at i:18080632 original size:40 final size:40
Alignment explanation
Indices: 18080503--18080633 Score: 156
Period size: 40 Copynumber: 3.3 Consensus size: 40
18080493 TATGCTGGAA
* * *
18080503 ATTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTG
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTG
** * * *
18080543 GCTATATCCGGGCTAAGGCCCGAAGGCATTCGTGCGAGTT
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTG
*
18080583 ATTCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTG
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-GTG
*
18080623 ATTAAATCCGG
1 ATTATATCCGG
18080634 TTATATTCCG
Statistics
Matches: 74, Mismatches: 16, Indels: 2
0.80 0.17 0.02
Matches are distributed among these distances:
39 1 0.01
40 73 0.99
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTG
Found at i:18097470 original size:74 final size:74
Alignment explanation
Indices: 18097387--18097537 Score: 302
Period size: 74 Copynumber: 2.0 Consensus size: 74
18097377 AAATAAAAAG
18097387 TTTAATAATATTAAATATTGAAATTGAATTATAAATTTTTAGATATTAAAATATAATTTTATCAT
1 TTTAATAATATTAAATATTGAAATTGAATTATAAATTTTTAGATATTAAAATATAATTTTATCAT
18097452 AAATAATAT
66 AAATAATAT
18097461 TTTAATAATATTAAATATTGAAATTGAATTATAAATTTTTAGATATTAAAATATAATTTTATCAT
1 TTTAATAATATTAAATATTGAAATTGAATTATAAATTTTTAGATATTAAAATATAATTTTATCAT
18097526 AAATAATAT
66 AAATAATAT
18097535 TTT
1 TTT
18097538 GAAGAACCTA
Statistics
Matches: 77, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
74 77 1.00
ACGTcount: A:0.48, C:0.01, G:0.04, T:0.47
Consensus pattern (74 bp):
TTTAATAATATTAAATATTGAAATTGAATTATAAATTTTTAGATATTAAAATATAATTTTATCAT
AAATAATAT
Found at i:18098429 original size:19 final size:20
Alignment explanation
Indices: 18098405--18098443 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
18098395 CCAACCCTCA
*
18098405 AAACTTTTA-TTTTCCCCCT
1 AAACTTTTACTTTTCACCCT
18098424 AAACTTTTACTTTTCACCCT
1 AAACTTTTACTTTTCACCCT
18098444 TTACCCCAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 9 0.50
20 9 0.50
ACGTcount: A:0.23, C:0.31, G:0.00, T:0.46
Consensus pattern (20 bp):
AAACTTTTACTTTTCACCCT
Done.