Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr06 132263754
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: 132263754
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 372 characters in sequence are not A, C, G, or T
File 283 of 433
Found at i:88199916 original size:40 final size:40
Alignment explanation
Indices: 88199848--88200053 Score: 236
Period size: 40 Copynumber: 5.2 Consensus size: 40
88199838 GGGATTTAAT
** * *
88199848 CGGATATAACCACTCGCAC-AAGGCCTTCGGGTCTTAGCC
1 CGGATATAGTCACTAGCACAAATGCCTTCGGGTCTTAGCC
* * *
88199887 CGGATATGGTCACTAGCATAAATGCCTTCGGGACTTAGCC
1 CGGATATAGTCACTAGCACAAATGCCTTCGGGTCTTAGCC
* * *
88199927 TGGATATAATCGCTAGCACAAATGCCTTCGGGTCTTAGCC
1 CGGATATAGTCACTAGCACAAATGCCTTCGGGTCTTAGCC
* * * *
88199967 CGGATATAG-CAACTCGCACAAATGCCTTCGGATCTCAGTC
1 CGGATATAGTC-ACTAGCACAAATGCCTTCGGGTCTTAGCC
* * *
88200007 CGGATATAGTCACTAGCATAAAAGCCTTCGGGACTTAGCC
1 CGGATATAGTCACTAGCACAAATGCCTTCGGGTCTTAGCC
88200047 CGGATAT
1 CGGATAT
88200054 CATTCGAATA
Statistics
Matches: 137, Mismatches: 27, Indels: 5
0.81 0.16 0.03
Matches are distributed among these distances:
39 15 0.11
40 121 0.88
41 1 0.01
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.24
Consensus pattern (40 bp):
CGGATATAGTCACTAGCACAAATGCCTTCGGGTCTTAGCC
Found at i:88201790 original size:40 final size:40
Alignment explanation
Indices: 88201731--88201938 Score: 227
Period size: 40 Copynumber: 5.2 Consensus size: 40
88201721 CAATTGAATG
* * * *
88201731 ATATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * * * *
88201771 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * **
88201811 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * **
88201851 AAATCCGGGCTAATACCCGAAGGCATTTGTGCAAGTCGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * **
88201891 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
88201931 ATATCCGG
1 ATATCCGG
88201939 TTGTATTCCG
Statistics
Matches: 144, Mismatches: 24, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 144 1.00
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
Found at i:88201869 original size:80 final size:80
Alignment explanation
Indices: 88201733--88201938 Score: 252
Period size: 80 Copynumber: 2.6 Consensus size: 80
88201723 ATTGAATGAT
* * ** * * *
88201733 ATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATTATATCCGGGTTAAGACCCGAAGGCAAT
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGCAAT
*
88201798 TGTGCTAGT-GACTAC
66 TGTGCAAGTCG-CTAC
* * * *
88201813 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTTAAATCCGGGCTAATACCCGAAGGCATT
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGCAAT
* *
88201878 TGTGCAAGTCGTTAT
66 TGTGCAAGTCGCTAC
* *
88201893 ATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTTATATCCGG
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGG
88201939 TTGTATTCCG
Statistics
Matches: 108, Mismatches: 17, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
80 107 0.99
81 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.25
Consensus pattern (80 bp):
ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGCAAT
TGTGCAAGTCGCTAC
Found at i:88209804 original size:40 final size:40
Alignment explanation
Indices: 88209745--88209952 Score: 227
Period size: 40 Copynumber: 5.2 Consensus size: 40
88209735 CAATTGAATG
* * * *
88209745 ATATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * * * *
88209785 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * **
88209825 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * **
88209865 AAATCCGGGCTAATACCCGAAGGCATTTGTGCAAGTCGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * **
88209905 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
88209945 ATATCCGG
1 ATATCCGG
88209953 TTGTATTCCG
Statistics
Matches: 144, Mismatches: 24, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 144 1.00
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
Found at i:88209883 original size:80 final size:80
Alignment explanation
Indices: 88209747--88209952 Score: 252
Period size: 80 Copynumber: 2.6 Consensus size: 80
88209737 ATTGAATGAT
* * ** * * *
88209747 ATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATTATATCCGGGTTAAGACCCGAAGGCAAT
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGCAAT
*
88209812 TGTGCTAGT-GACTAC
66 TGTGCAAGTCG-CTAC
* * * *
88209827 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTTAAATCCGGGCTAATACCCGAAGGCATT
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGCAAT
* *
88209892 TGTGCAAGTCGTTAT
66 TGTGCAAGTCGCTAC
* *
88209907 ATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTTATATCCGG
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGG
88209953 TTGTATTCCG
Statistics
Matches: 108, Mismatches: 17, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
80 107 0.99
81 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.25
Consensus pattern (80 bp):
ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGCAAT
TGTGCAAGTCGCTAC
Found at i:88216030 original size:40 final size:40
Alignment explanation
Indices: 88215971--88216178 Score: 218
Period size: 40 Copynumber: 5.2 Consensus size: 40
88215961 CAATTGAATG
* * * *
88215971 ATATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * * * *
88216011 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * **
88216051 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * **
88216091 AAATCCGGGCTAATACCCGAAGGCATTTGTGCAAGTCGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * * **
88216131 CTATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
88216171 ATATCCGG
1 ATATCCGG
88216179 TTGTATTCCG
Statistics
Matches: 142, Mismatches: 26, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 142 1.00
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
Found at i:88216109 original size:80 final size:80
Alignment explanation
Indices: 88215972--88216178 Score: 247
Period size: 80 Copynumber: 2.6 Consensus size: 80
88215962 AATTGAATGA
* * ** * * *
88215972 TATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATTATATCCGGGTTAAGACCCGAAGGCAA
1 TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGCAA
*
88216037 TTGTGCTAGT-G-AC
66 TTGTGCAAGTCGTAC
* * *
88216050 TACATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTTAAATCCGGGCTAATACCCGAAGGC
1 T--ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGC
* *
88216115 ATTTGTGCAAGTCGTTC
64 AATTGTGCAAGTCGTAC
* *
88216132 TATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTTATATCCGG
1 TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGG
88216179 TTGTATTCCG
Statistics
Matches: 109, Mismatches: 16, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
78 1 0.01
80 105 0.96
81 1 0.01
82 2 0.02
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.26
Consensus pattern (80 bp):
TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGCAA
TTGTGCAAGTCGTAC
Found at i:88224026 original size:40 final size:40
Alignment explanation
Indices: 88223967--88224174 Score: 227
Period size: 40 Copynumber: 5.2 Consensus size: 40
88223957 CAATTGAATG
* * * *
88223967 ATATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * * * *
88224007 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * **
88224047 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * **
88224087 AAATCCGGGCTAATACCCGAAGGCATTTGTGCAAGTCGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * **
88224127 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
88224167 ATATCCGG
1 ATATCCGG
88224175 TTGTATTCCG
Statistics
Matches: 144, Mismatches: 24, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 144 1.00
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
Found at i:88224105 original size:80 final size:80
Alignment explanation
Indices: 88223969--88224174 Score: 252
Period size: 80 Copynumber: 2.6 Consensus size: 80
88223959 ATTGAATGAT
* * ** * * *
88223969 ATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATTATATCCGGGTTAAGACCCGAAGGCAAT
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGCAAT
*
88224034 TGTGCTAGT-GACTAC
66 TGTGCAAGTCG-CTAC
* * * *
88224049 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTTAAATCCGGGCTAATACCCGAAGGCATT
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGCAAT
* *
88224114 TGTGCAAGTCGTTAT
66 TGTGCAAGTCGCTAC
* *
88224129 ATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTTATATCCGG
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGG
88224175 TTGTATTCCG
Statistics
Matches: 108, Mismatches: 17, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
80 107 0.99
81 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.25
Consensus pattern (80 bp):
ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGCAAT
TGTGCAAGTCGCTAC
Found at i:88230150 original size:25 final size:25
Alignment explanation
Indices: 88230117--88230170 Score: 101
Period size: 25 Copynumber: 2.2 Consensus size: 25
88230107 GATAAGGCCG
88230117 AGTG-GCCAACGTGATGAATGTGAA
1 AGTGTGCCAACGTGATGAATGTGAA
88230141 AGTGTGCCAACGTGATGAATGTGAA
1 AGTGTGCCAACGTGATGAATGTGAA
88230166 AGTGT
1 AGTGT
88230171 ATATATGTGA
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
24 4 0.14
25 25 0.86
ACGTcount: A:0.31, C:0.11, G:0.33, T:0.24
Consensus pattern (25 bp):
AGTGTGCCAACGTGATGAATGTGAA
Found at i:88230156 original size:47 final size:47
Alignment explanation
Indices: 88229907--88230145 Score: 397
Period size: 47 Copynumber: 5.1 Consensus size: 47
88229897 GATGTACAAG
* * *
88229907 GTGTGTATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAA
*
88229954 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAA
* *
88230001 GTGTGTATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAA
88230048 GTGTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAA
* * *
88230095 GTGTATATATGTGATAAGGCCGAGTGGCCAACGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAA
88230142 GTGT
1 GTGT
88230146 GCCAACGTGA
Statistics
Matches: 180, Mismatches: 12, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
47 180 1.00
ACGTcount: A:0.31, C:0.09, G:0.31, T:0.28
Consensus pattern (47 bp):
GTGTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAA
Found at i:88230156 original size:72 final size:72
Alignment explanation
Indices: 88230074--88230217 Score: 252
Period size: 72 Copynumber: 2.0 Consensus size: 72
88230064 AGGCCTAATG
* *
88230074 GCCAATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAGTGGCCAACGTGATGAATGTG
1 GCCAACGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAACGTGATGAATGTG
88230139 AAAGTGT
66 AAAGTGT
* *
88230146 GCCAACGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTG
1 GCCAACGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAACGTGATGAATGTG
88230211 AAAGTGT
66 AAAGTGT
88230218 ATATATGAGA
Statistics
Matches: 68, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
72 68 1.00
ACGTcount: A:0.33, C:0.10, G:0.31, T:0.27
Consensus pattern (72 bp):
GCCAACGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAACGTGATGAATGTG
AAAGTGT
Found at i:88230197 original size:47 final size:47
Alignment explanation
Indices: 88230146--88230325 Score: 270
Period size: 47 Copynumber: 3.8 Consensus size: 47
88230136 GTGAAAGTGT
*
88230146 GCCAACGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATG
1 GCCAATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATG
* *
88230193 GCCAATGTGATGAATGTGAAAGTGTATATATGAGATAAGACCTAATG
1 GCCAATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATG
* * * * *
88230240 GTCGATGTGATGGATGTGAAGGTGTATATATGTGATAAGGCCGAATG
1 GCCAATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATG
* *
88230287 GCCAATGTGATGGATGTGAAAGTGTATAAATGTGATAAG
1 GCCAATGTGATGAATGTGAAAGTGTATATATGTGATAAG
88230326 TCCCGAAGGG
Statistics
Matches: 119, Mismatches: 14, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
47 119 1.00
ACGTcount: A:0.34, C:0.08, G:0.30, T:0.28
Consensus pattern (47 bp):
GCCAATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATG
Found at i:88230211 original size:166 final size:166
Alignment explanation
Indices: 88229980--88230311 Score: 556
Period size: 166 Copynumber: 2.0 Consensus size: 166
88229970 AGGCCGAATG
* * *
88229980 GCCAATGTGATGAATGTGAAAGTGTGTATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTG
1 GCCAACGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTG
* *
88230045 AAAGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTATATATGTGAT
66 AAAGTGTATATATGAGATAAGACCTAATGGCCAATGTGATGAATGTGAAAGTGTATATATGTGAT
*
88230110 AAGGCCGAGTGGCCAACGTGATGAATGTGAAAGTGT
131 AAGGCCGAATGGCCAACGTGATGAATGTGAAAGTGT
88230146 GCCAACGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTG
1 GCCAACGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTG
* * * *
88230211 AAAGTGTATATATGAGATAAGACCTAATGGTCGATGTGATGGATGTGAAGGTGTATATATGTGAT
66 AAAGTGTATATATGAGATAAGACCTAATGGCCAATGTGATGAATGTGAAAGTGTATATATGTGAT
* *
88230276 AAGGCCGAATGGCCAATGTGATGGATGTGAAAGTGT
131 AAGGCCGAATGGCCAACGTGATGAATGTGAAAGTGT
88230312 ATAAATGTGA
Statistics
Matches: 154, Mismatches: 12, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
166 154 1.00
ACGTcount: A:0.32, C:0.09, G:0.31, T:0.28
Consensus pattern (166 bp):
GCCAACGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTG
AAAGTGTATATATGAGATAAGACCTAATGGCCAATGTGATGAATGTGAAAGTGTATATATGTGAT
AAGGCCGAATGGCCAACGTGATGAATGTGAAAGTGT
Found at i:88230250 original size:119 final size:119
Alignment explanation
Indices: 88230033--88230264 Score: 383
Period size: 119 Copynumber: 1.9 Consensus size: 119
88230023 AATGGCCGAT
88230033 GTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTG
1 GTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTG
* * *
88230098 TATATATGTGATAAGGCCGAGTGGCCAACGTGATGAATGTGAAAGTGTGCCAAC
66 TATATATGAGATAAGACCGAATGGCCAACGTGATGAATGTGAAAGTGTGCCAAC
88230152 GTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTG
1 GTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTG
* * * * * *
88230217 TATATATGAGATAAGACCTAATGGTCGATGTGATGGATGTGAAGGTGT
66 TATATATGAGATAAGACCGAATGGCCAACGTGATGAATGTGAAAGTGT
88230265 ATATATGTGA
Statistics
Matches: 104, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
119 104 1.00
ACGTcount: A:0.33, C:0.08, G:0.31, T:0.28
Consensus pattern (119 bp):
GTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTG
TATATATGAGATAAGACCGAATGGCCAACGTGATGAATGTGAAAGTGTGCCAAC
Found at i:88230306 original size:213 final size:213
Alignment explanation
Indices: 88229937--88230325 Score: 688
Period size: 213 Copynumber: 1.8 Consensus size: 213
88229927 CTAATGGCCG
88229937 ACGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAG
1 ACGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAG
* * *
88230002 TGTGTATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGG
66 TGTATATATGAGATAAGACCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGG
* *
88230067 CCTAATGGCCAATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAGTGGCCAACGTGAT
131 CCGAATGGCCAATGTGATGAATGTGAAAGTGTATAAATGTGATAAGGCCGAGTGGCCAACGTGAT
88230132 GAATGTGAAAGTGTGCCA
196 GAATGTGAAAGTGTGCCA
*
88230150 ACGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAG
1 ACGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAG
* * *
88230215 TGTATATATGAGATAAGACCTAATGGTCGATGTGATGGATGTGAAGGTGTATATATGTGATAAGG
66 TGTATATATGAGATAAGACCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGG
*
88230280 CCGAATGGCCAATGTGATGGATGTGAAAGTGTATAAATGTGATAAG
131 CCGAATGGCCAATGTGATGAATGTGAAAGTGTATAAATGTGATAAG
88230326 TCCCGAAGGG
Statistics
Matches: 166, Mismatches: 10, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
213 166 1.00
ACGTcount: A:0.33, C:0.08, G:0.30, T:0.28
Consensus pattern (213 bp):
ACGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAG
TGTATATATGAGATAAGACCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGG
CCGAATGGCCAATGTGATGAATGTGAAAGTGTATAAATGTGATAAGGCCGAGTGGCCAACGTGAT
GAATGTGAAAGTGTGCCA
Found at i:88245300 original size:43 final size:42
Alignment explanation
Indices: 88245252--88245333 Score: 103
Period size: 42 Copynumber: 1.9 Consensus size: 42
88245242 TCTCTGACGT
* * **
88245252 GGTCTTACATGTAATTCA-ATATCGATGCCTCTGTCCCAGACAG
1 GGTCTTACACG-AAATCAGATAT-GATGCCGATGTCCCAGACAG
88245295 GGTCTTACACGAAATCAGATATGATGCCGATGTCCCAGA
1 GGTCTTACACGAAATCAGATATGATGCCGATGTCCCAGA
88245334 GATGGTCCTA
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
42 20 0.59
43 14 0.41
ACGTcount: A:0.28, C:0.24, G:0.21, T:0.27
Consensus pattern (42 bp):
GGTCTTACACGAAATCAGATATGATGCCGATGTCCCAGACAG
Found at i:88245329 original size:42 final size:43
Alignment explanation
Indices: 88245252--88245390 Score: 108
Period size: 43 Copynumber: 3.3 Consensus size: 43
88245242 TCTCTGACGT
* * **
88245252 GGTCTTACATGTAATTCAATATCGATGCCTCTGTCCCAGACAG
1 GGTCTTACACGTAAATCAATATCGATGCCGATGTCCCAGACAG
* *
88245295 GGTCTTACACG-AAATCAGATAT-GATGCCGATGTCCCAGAGAT
1 GGTCTTACACGTAAATCA-ATATCGATGCCGATGTCCCAGACAG
* * * *
88245337 GGTCCTATACGTAAAT--ATCAATCGAGGCCTG-TGTCCCAGACAC
1 GGTCTTACACGTAAATCAAT--ATCGATGCC-GATGTCCCAGACAG
*
88245380 AGTCTTACACG
1 GGTCTTACACG
88245391 ATATCTCAGA
Statistics
Matches: 76, Mismatches: 14, Indels: 12
0.75 0.14 0.12
Matches are distributed among these distances:
40 2 0.03
42 32 0.42
43 41 0.54
44 1 0.01
ACGTcount: A:0.28, C:0.25, G:0.21, T:0.26
Consensus pattern (43 bp):
GGTCTTACACGTAAATCAATATCGATGCCGATGTCCCAGACAG
Found at i:88255922 original size:15 final size:16
Alignment explanation
Indices: 88255891--88255931 Score: 50
Period size: 15 Copynumber: 2.7 Consensus size: 16
88255881 AAACTGCTTG
*
88255891 AAAAAAA-TAAAGGAA
1 AAAAAAATTAAAGAAA
88255906 AAAAAAATTAAA-AAA
1 AAAAAAATTAAAGAAA
*
88255921 AAAACAATTAA
1 AAAAAAATTAA
88255932 TACCCCAGCA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
15 19 0.83
16 4 0.17
ACGTcount: A:0.80, C:0.02, G:0.05, T:0.12
Consensus pattern (16 bp):
AAAAAAATTAAAGAAA
Found at i:88259024 original size:2 final size:2
Alignment explanation
Indices: 88259007--88259059 Score: 88
Period size: 2 Copynumber: 26.5 Consensus size: 2
88258997 CAACACATTC
* *
88259007 AT AT AT AC AT AC 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
88259049 AT AT AT AT AT A
1 AT AT AT AT AT A
88259060 CTTTTCCACA
Statistics
Matches: 47, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
2 47 1.00
ACGTcount: A:0.51, C:0.04, G:0.00, T:0.45
Consensus pattern (2 bp):
AT
Found at i:88262488 original size:43 final size:41
Alignment explanation
Indices: 88262404--88262553 Score: 142
Period size: 43 Copynumber: 3.5 Consensus size: 41
88262394 TCTGAGACAT
* *
88262404 CGTGTAAGACCGTGTCTGGGACACAGGCCTCG-ATTGAGATTTA
1 CGTGTAAGACCATGTCTGGGACAC-GGCATCGTATT--GATTTA
*
88262447 CGTATAAGACCATGTCTGGGACATCGGCATCGTATCTGATTT-
1 CGTGTAAGACCATGTCTGGGACA-CGGCATCGTAT-TGATTTA
* * * *
88262489 CGTGTAAGACCTTATCTGGGACAGAGGCATCGATATTGAGTTA
1 CGTGTAAGACCATGTCTGGGACA-CGGCATCG-TATTGATTTA
* *
88262532 CATGTAAGACCATGTCCGGGAC
1 CGTGTAAGACCATGTCTGGGAC
88262554 GCCAACATTG
Statistics
Matches: 89, Mismatches: 13, Indels: 10
0.79 0.12 0.09
Matches are distributed among these distances:
42 32 0.36
43 53 0.60
44 3 0.03
45 1 0.01
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.27
Consensus pattern (41 bp):
CGTGTAAGACCATGTCTGGGACACGGCATCGTATTGATTTA
Found at i:88271213 original size:13 final size:13
Alignment explanation
Indices: 88271195--88271219 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
88271185 ACAAACGATA
88271195 AAATTTTCACACG
1 AAATTTTCACACG
88271208 AAATTTTCACAC
1 AAATTTTCACAC
88271220 ATATAATATA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.24, G:0.04, T:0.32
Consensus pattern (13 bp):
AAATTTTCACACG
Found at i:88273576 original size:21 final size:21
Alignment explanation
Indices: 88273551--88273609 Score: 68
Period size: 22 Copynumber: 2.8 Consensus size: 21
88273541 GTTTTAATAA
88273551 TTGTTTTAATATCATTTTTAT-
1 TTGTTTTAATAT-ATTTTTATG
88273572 TTGTTTTAATATTTATTTTTATG
1 TTGTTTTAATA--TATTTTTATG
*
88273595 TT-TTTAAATATATTT
1 TTGTTTTAATATATTT
88273610 GATTTATTAT
Statistics
Matches: 34, Mismatches: 1, Indels: 7
0.81 0.02 0.17
Matches are distributed among these distances:
20 5 0.15
21 11 0.32
22 15 0.44
23 3 0.09
ACGTcount: A:0.25, C:0.02, G:0.05, T:0.68
Consensus pattern (21 bp):
TTGTTTTAATATATTTTTATG
Found at i:88273592 original size:22 final size:22
Alignment explanation
Indices: 88273551--88273609 Score: 70
Period size: 21 Copynumber: 2.8 Consensus size: 22
88273541 GTTTTAATAA
*
88273551 TTGTTTTAATA-TCATTTTTAT
1 TTGTTTTAATATTTATTTTTAT
88273572 TTGTTTTAATATTTATTTTTAT
1 TTGTTTTAATATTTATTTTTAT
* *
88273594 GT-TTTTAA-ATATATTT
1 TTGTTTTAATATTTATTT
88273610 GATTTATTAT
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
20 7 0.21
21 17 0.50
22 10 0.29
ACGTcount: A:0.25, C:0.02, G:0.05, T:0.68
Consensus pattern (22 bp):
TTGTTTTAATATTTATTTTTAT
Found at i:88273626 original size:26 final size:24
Alignment explanation
Indices: 88273580--88273639 Score: 75
Period size: 26 Copynumber: 2.4 Consensus size: 24
88273570 ATTTGTTTTA
*
88273580 ATATTTATTTTTATGTTTTTAAAT
1 ATATTTATTTTTATATTTTTAAAT
88273604 ATATTTGATTTATTATATTTTTAAAT
1 ATATTT-ATTT-TTATATTTTTAAAT
* *
88273630 TTTTTTATTT
1 ATATTTATTT
88273640 AATGAAATAA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
24 6 0.19
25 8 0.26
26 17 0.55
ACGTcount: A:0.28, C:0.00, G:0.03, T:0.68
Consensus pattern (24 bp):
ATATTTATTTTTATATTTTTAAAT
Found at i:88281913 original size:31 final size:29
Alignment explanation
Indices: 88281847--88281914 Score: 75
Period size: 31 Copynumber: 2.3 Consensus size: 29
88281837 ATAAATCTCA
* *
88281847 AAAT-TATATATGAATTTTGATTTGGTTC
1 AAATATATATATGAATTTTAATTTGATTC
* *
88281875 AATTATATATATGAAATTTTAATTGTGATTT
1 AAATATATATATG-AATTTTAATT-TGATTC
88281906 AAATATATA
1 AAATATATA
88281915 CATAAAACTT
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
28 3 0.09
29 8 0.25
30 9 0.28
31 12 0.38
ACGTcount: A:0.40, C:0.01, G:0.10, T:0.49
Consensus pattern (29 bp):
AAATATATATATGAATTTTAATTTGATTC
Found at i:88281944 original size:31 final size:31
Alignment explanation
Indices: 88281867--88281946 Score: 81
Period size: 31 Copynumber: 2.6 Consensus size: 31
88281857 TGAATTTTGA
* **
88281867 TTTGGTTCAATTATATATATGAAATTTTAAT
1 TTTGGTTCAATTATATACATGAAAACTTAAT
* * * *
88281898 TGTGATTTAAATATATACAT-AAAACTTAATT
1 TTTGGTTCAATTATATACATGAAAACTTAA-T
88281929 TTTGGTTCAATTATATAC
1 TTTGGTTCAATTATATAC
88281947 CTTTAAAGAA
Statistics
Matches: 37, Mismatches: 11, Indels: 2
0.74 0.22 0.04
Matches are distributed among these distances:
30 7 0.19
31 30 0.81
ACGTcount: A:0.38, C:0.06, G:0.09, T:0.47
Consensus pattern (31 bp):
TTTGGTTCAATTATATACATGAAAACTTAAT
Found at i:88285747 original size:40 final size:40
Alignment explanation
Indices: 88285692--88285767 Score: 116
Period size: 40 Copynumber: 1.9 Consensus size: 40
88285682 CGGTACCTTG
*
88285692 TGGTGTGTAGGGTTGGATGGGTTAATTATATCCCCATACT
1 TGGTGTGTAGGGTTGGATGGGTCAATTATATCCCCATACT
* * *
88285732 TGGTGTGTAGGGTTGGGTGGGTCGATTCTATCCCCA
1 TGGTGTGTAGGGTTGGATGGGTCAATTATATCCCCA
88285768 CATGGTGTGT
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 32 1.00
ACGTcount: A:0.16, C:0.14, G:0.34, T:0.36
Consensus pattern (40 bp):
TGGTGTGTAGGGTTGGATGGGTCAATTATATCCCCATACT
Found at i:88288928 original size:14 final size:13
Alignment explanation
Indices: 88288904--88288956 Score: 54
Period size: 14 Copynumber: 3.9 Consensus size: 13
88288894 AGGAAAGTCC
88288904 ATTAGGTTAATTTA
1 ATTA-GTTAATTTA
88288918 AGTTAGTTAATTTA
1 A-TTAGTTAATTTA
*
88288932 ATTAGTTTAATTAA
1 ATTAG-TTAATTTA
*
88288946 AATA-TTAATTT
1 ATTAGTTAATTT
88288957 GGATTCGCAC
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
12 6 0.18
13 4 0.12
14 21 0.62
15 3 0.09
ACGTcount: A:0.40, C:0.00, G:0.09, T:0.51
Consensus pattern (13 bp):
ATTAGTTAATTTA
Found at i:88290648 original size:26 final size:26
Alignment explanation
Indices: 88290618--88290671 Score: 108
Period size: 26 Copynumber: 2.1 Consensus size: 26
88290608 AATAAACAAG
88290618 ATTAAAAAATAATATATATAGATGAA
1 ATTAAAAAATAATATATATAGATGAA
88290644 ATTAAAAAATAATATATATAGATGAA
1 ATTAAAAAATAATATATATAGATGAA
88290670 AT
1 AT
88290672 GAAATGAAAG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.61, C:0.00, G:0.07, T:0.31
Consensus pattern (26 bp):
ATTAAAAAATAATATATATAGATGAA
Found at i:88291234 original size:150 final size:150
Alignment explanation
Indices: 88290955--88291271 Score: 464
Period size: 150 Copynumber: 2.1 Consensus size: 150
88290945 AGAAAAGTTT
*
88290955 TGATTTTTTTT-TAA-AAAGGAGAAAGTTTAGATTTTTAAAATAAAAATTTGTTTTTAGTCATAT
1 TGATTTTTTTTATAAGAAAGGAGAAAGTTTAGATTTTTAAAATAAAAATCTGTTTTTAGTCATAT
*
88291018 TAAAGGAAAAGTTTAAATTCTTAAAACAAAGTTTTAATCTTTTTCAACTATTTCGAAATAAAGTT
66 TAAAGAAAAAGTTTAAATTCTTAAAACAAAGTTTTAATCTTTTTCAACTATTTCGAAATAAAGTT
*
88291083 TTGGTTTTTAAGAAAAATAG
131 TTGATTTTTAAGAAAAATAG
* * *
88291103 TG-TTTTTTTTATAAGAAA-GCGAATGTTTAGATTTTTAAAATAAAAATCTGTTTCTTAGTCATT
1 TGATTTTTTTTATAAGAAAGGAGAAAGTTTAGATTTTTAAAATAAAAATCTGTTT-TTAGTCATA
* * *
88291166 TTAAAGAAAAAGTTTAAAATTTTTTAAAA-AATGTTTTGATCTTTTTCAACTATTTCGAAATAAA
65 TTAAAGAAAAAGTTT-AAA-TTCTTAAAACAAAGTTTTAATCTTTTTCAACTATTTCGAAATAAA
*
88291230 GTTTTGATTTTTAAGAAAAGTAG
128 GTTTTGATTTTTAAGAAAAATAG
* *
88291253 TGATCTTTTTTAAAAGAAA
1 TGATTTTTTTTATAAGAAA
88291272 ACTTTGATTT
Statistics
Matches: 151, Mismatches: 12, Indels: 9
0.88 0.07 0.05
Matches are distributed among these distances:
147 8 0.05
148 37 0.25
149 25 0.17
150 59 0.39
151 22 0.15
ACGTcount: A:0.39, C:0.05, G:0.12, T:0.44
Consensus pattern (150 bp):
TGATTTTTTTTATAAGAAAGGAGAAAGTTTAGATTTTTAAAATAAAAATCTGTTTTTAGTCATAT
TAAAGAAAAAGTTTAAATTCTTAAAACAAAGTTTTAATCTTTTTCAACTATTTCGAAATAAAGTT
TTGATTTTTAAGAAAAATAG
Found at i:88292583 original size:3 final size:3
Alignment explanation
Indices: 88292575--88292651 Score: 154
Period size: 3 Copynumber: 25.7 Consensus size: 3
88292565 AAATATTTTA
88292575 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
88292623 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
88292652 AAGATCGAAT
Statistics
Matches: 74, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 74 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:88296179 original size:46 final size:46
Alignment explanation
Indices: 88296129--88296304 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
88296119 ATGGTTGGCA
88296129 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* * * *
88296175 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---CGA-GCG
*
88296222 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* *
88296268 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
88296305 GCGGGTTACA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 4 0.04
45 2 0.02
46 67 0.60
47 33 0.29
48 2 0.02
50 4 0.04
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.28
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
Found at i:88296284 original size:93 final size:93
Alignment explanation
Indices: 88296125--88296296 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
88296115 TAGGATGGTT
* *
88296125 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
88296190 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
*
88296218 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
88296283 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
88296297 ACTTATGGGC
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:0.20, C:0.22, G:0.30, T:0.27
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:88299260 original size:15 final size:15
Alignment explanation
Indices: 88299240--88299308 Score: 84
Period size: 15 Copynumber: 4.6 Consensus size: 15
88299230 GTATCTTGGG
88299240 TTTCTTTATCCTGGA
1 TTTCTTTATCCTGGA
* *
88299255 TCTCTTTATTCTGGA
1 TTTCTTTATCCTGGA
* *
88299270 TTTCTTTATTCTGGG
1 TTTCTTTATCCTGGA
* *
88299285 TTTCTCTATCTTGGA
1 TTTCTTTATCCTGGA
88299300 TTTCTTTAT
1 TTTCTTTAT
88299309 TCGGTTTTCT
Statistics
Matches: 45, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 45 1.00
ACGTcount: A:0.12, C:0.17, G:0.13, T:0.58
Consensus pattern (15 bp):
TTTCTTTATCCTGGA
Found at i:88299309 original size:30 final size:30
Alignment explanation
Indices: 88299231--88299318 Score: 99
Period size: 30 Copynumber: 3.0 Consensus size: 30
88299221 CATAGTATCG
* * * *
88299231 TATCTTGGGTTTCTTTATCCTGGATCTCTT
1 TATCTTGGATTTCTTTATTCTGGATTTCTC
*
88299261 TAT-TCTGGATTTCTTTATTCTGGGTTTCTC
1 TATCT-TGGATTTCTTTATTCTGGATTTCTC
*
88299291 TATCTTGGATTTCTTTATTC-GGTTTTCT
1 TATCTTGGATTTCTTTATTCTGGATTTCT
88299319 TGTTATCTTT
Statistics
Matches: 50, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
29 8 0.16
30 41 0.82
31 1 0.02
ACGTcount: A:0.10, C:0.17, G:0.16, T:0.57
Consensus pattern (30 bp):
TATCTTGGATTTCTTTATTCTGGATTTCTC
Found at i:88301750 original size:46 final size:46
Alignment explanation
Indices: 88301695--88301875 Score: 233
Period size: 46 Copynumber: 3.9 Consensus size: 46
88301685 TAGGATGGTT
88301695 GAGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
1 GAGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
* * *
88301741 GAGCGTCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAAC
1 GAGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---C
*
88301787 TAGGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
1 GA-GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
* ** *
88301834 GAACGCCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 GAGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
88301876 GCGGGTTACA
Statistics
Matches: 116, Mismatches: 12, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 4 0.03
45 2 0.02
46 71 0.61
47 33 0.28
48 2 0.02
50 4 0.03
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (46 bp):
GAGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
Found at i:88301856 original size:93 final size:93
Alignment explanation
Indices: 88301697--88301867 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 93
88301687 GGATGGTTGA
* *
88301697 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
88301762 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
88301790 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
88301855 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
88301868 ACTTATGGGC
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.27
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:88304050 original size:27 final size:27
Alignment explanation
Indices: 88304020--88304219 Score: 256
Period size: 27 Copynumber: 7.4 Consensus size: 27
88304010 TGGATAAGTT
* *
88304020 GTAGAATTACCAAAATACCCCTGTAAG
1 GTAGAATTACCGAAATACCCCTGTAGG
**
88304047 GTAGAATTACCGAAATAATCCTGTAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
**
88304074 GTAGAATTATTGAAATACCCCTGTAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
*
88304101 GTAGAATTACTGAAATACCCCTGTAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
* *
88304128 ATAGAATTACCGAAATACCCTTGTAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
* *
88304155 GTAGAAATATCGAAATACCCCTGTAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
* * * *
88304182 GTAGAATTATCGAGATACCCTTGTGGG
1 GTAGAATTACCGAAATACCCCTGTAGG
*
88304209 GTAAAATTACC
1 GTAGAATTACC
88304220 ATTTTGCCCC
Statistics
Matches: 151, Mismatches: 22, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 151 1.00
ACGTcount: A:0.35, C:0.17, G:0.21, T:0.26
Consensus pattern (27 bp):
GTAGAATTACCGAAATACCCCTGTAGG
Found at i:88304264 original size:27 final size:26
Alignment explanation
Indices: 88304220--88304273 Score: 81
Period size: 27 Copynumber: 2.0 Consensus size: 26
88304210 TAAAATTACC
88304220 ATTTTGCCCCTAGGGCGTTAAATGACT
1 ATTTTGCCCCTAGGGCG-TAAATGACT
* *
88304247 ATTTTGCCCCTCGTGCGTAAATGACT
1 ATTTTGCCCCTAGGGCGTAAATGACT
88304273 A
1 A
88304274 ACTTGTGTGA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
26 10 0.40
27 15 0.60
ACGTcount: A:0.22, C:0.24, G:0.20, T:0.33
Consensus pattern (26 bp):
ATTTTGCCCCTAGGGCGTAAATGACT
Found at i:88304906 original size:27 final size:26
Alignment explanation
Indices: 88304862--88304913 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
88304852 CTCGCTGCAA
*
88304862 TCTGGTGGCCTCGCCACATATATCTGT
1 TCTGGTGACCTCGCCACA-ATATCTGT
* *
88304889 TCTGGTGACTTCGTCACAATATCTG
1 TCTGGTGACCTCGCCACAATATCTG
88304914 GCAGCCTCGC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.17, C:0.27, G:0.21, T:0.35
Consensus pattern (26 bp):
TCTGGTGACCTCGCCACAATATCTGT
Found at i:88313490 original size:15 final size:15
Alignment explanation
Indices: 88313470--88313520 Score: 75
Period size: 15 Copynumber: 3.4 Consensus size: 15
88313460 TATGATATTG
88313470 TATCTTGGATTTCTT
1 TATCTTGGATTTCTT
*
88313485 TATCTTGGATTTCTC
1 TATCTTGGATTTCTT
*
88313500 TATCTTGGACTTCTT
1 TATCTTGGATTTCTT
*
88313515 AATCTT
1 TATCTT
88313521 AGTTTTCTTG
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 32 1.00
ACGTcount: A:0.16, C:0.18, G:0.12, T:0.55
Consensus pattern (15 bp):
TATCTTGGATTTCTT
Found at i:88313528 original size:30 final size:30
Alignment explanation
Indices: 88313470--88313528 Score: 82
Period size: 30 Copynumber: 2.0 Consensus size: 30
88313460 TATGATATTG
* * *
88313470 TATCTTGGATTTCTTTATCTTGGATTTCTC
1 TATCTTGGACTTCTTAATCTTAGATTTCTC
*
88313500 TATCTTGGACTTCTTAATCTTAGTTTTCT
1 TATCTTGGACTTCTTAATCTTAGATTTCT
88313529 TGTTATCTAT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.15, C:0.17, G:0.12, T:0.56
Consensus pattern (30 bp):
TATCTTGGACTTCTTAATCTTAGATTTCTC
Found at i:88316328 original size:50 final size:51
Alignment explanation
Indices: 88316268--88316403 Score: 166
Period size: 51 Copynumber: 2.7 Consensus size: 51
88316258 TTAGGTCATG
* * * * **
88316268 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAA-TTAGGTTGCA
1 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGACAACTTAGATCACA
* * *
88316318 TGTGTAGTACTATGTGCAGGCTACTATGCGTACCCGACAACTTTGATCACA
1 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGACAACTTAGATCACA
* *
88316369 TGTGTAGTATTAAGCGCAGGCTACTATGCGTACCA
1 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCA
88316404 AATAGCTTCG
Statistics
Matches: 72, Mismatches: 13, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
50 35 0.49
51 37 0.51
ACGTcount: A:0.26, C:0.20, G:0.24, T:0.29
Consensus pattern (51 bp):
TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGACAACTTAGATCACA
Found at i:88316419 original size:51 final size:50
Alignment explanation
Indices: 88316258--88316419 Score: 162
Period size: 51 Copynumber: 3.2 Consensus size: 50
88316248 TAAAATGGTT
** * * *
88316258 TTAGGTCATGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAA
1 TTAGGTCACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATAC
** * * *
88316308 TTAGGTTGCATGTGTAGTACTATGTGCAGGCTACTATGCGTACCCGACAAC
1 TTAGGTCACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGA-TAC
* * * * *
88316359 TTTGATCACATGTGTAGTATTAAGCGCAGGCTACTATGCGTACCAAATAGC
1 TTAGGTCACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATA-C
*
88316410 TTCGGTCACA
1 TTAGGTCACA
88316420 AGGGTGGTAA
Statistics
Matches: 88, Mismatches: 22, Indels: 3
0.78 0.19 0.03
Matches are distributed among these distances:
50 40 0.45
51 48 0.55
ACGTcount: A:0.27, C:0.20, G:0.24, T:0.30
Consensus pattern (50 bp):
TTAGGTCACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATAC
Found at i:88321177 original size:42 final size:42
Alignment explanation
Indices: 88321108--88321578 Score: 554
Period size: 42 Copynumber: 11.3 Consensus size: 42
88321098 AAGGAAAACA
**
88321108 TTCATTGCATTTAGAGGAATAGGTGTGGAGGGT-CATTTACTT
1 TTCATTGCATTTAGAGGCCTAGGTGTGGA-GGTCCATTTACTT
* * * *
88321150 TTCACTACACTTAGAGGCCTAGGTGTGGAGGTCTATTTACTT
1 TTCATTGCATTTAGAGGCCTAGGTGTGGAGGTCCATTTACTT
* *
88321192 TTCATTGTATTTAGAGGCCCAGGTGTGGAGGTCCATTTACTT
1 TTCATTGCATTTAGAGGCCTAGGTGTGGAGGTCCATTTACTT
* * * *
88321234 TTTATTGTATTTAGAGG-CTCAAGTGTGGAGGTCCATTTAATT
1 TTCATTGCATTTAGAGGCCT-AGGTGTGGAGGTCCATTTACTT
* * * *
88321276 TTCATTGCATTTAGAAGCCTAGGCGTAGAGGTTCATTTACTT
1 TTCATTGCATTTAGAGGCCTAGGTGTGGAGGTCCATTTACTT
** *
88321318 TT-ATTGCATTTAGAAACCCAGGTGTGGAGGTCCATTTACTT
1 TTCATTGCATTTAGAGGCCTAGGTGTGGAGGTCCATTTACTT
* *
88321359 TTCATTGCATTTAGAGGCCCAGGTGTGGAGGTTCATTTACTT
1 TTCATTGCATTTAGAGGCCTAGGTGTGGAGGTCCATTTACTT
* * * *
88321401 TTTATTGCATTTAAAGGCCTAGGTTTGGAGTTCCATTT-CTT
1 TTCATTGCATTTAGAGGCCTAGGTGTGGAGGTCCATTTACTT
** * *
88321442 TTCATTGCATTTAGAGGCCCGGGTGTGGAGGTCTATTGACTT
1 TTCATTGCATTTAGAGGCCTAGGTGTGGAGGTCCATTTACTT
* * * *
88321484 TTAATTGCATCTAAAGGCCTAGGTGTGGAGGTCCGTTTACTT
1 TTCATTGCATTTAGAGGCCTAGGTGTGGAGGTCCATTTACTT
* * * * *
88321526 TTCATTGCATTTAAAAGCCCAAGTGTGGATGTCCATTTACTT
1 TTCATTGCATTTAGAGGCCTAGGTGTGGAGGTCCATTTACTT
88321568 TTCATTGCATT
1 TTCATTGCATT
88321579 GTATATGAAG
Statistics
Matches: 363, Mismatches: 61, Indels: 10
0.84 0.14 0.02
Matches are distributed among these distances:
41 73 0.20
42 288 0.79
43 2 0.01
ACGTcount: A:0.22, C:0.16, G:0.24, T:0.39
Consensus pattern (42 bp):
TTCATTGCATTTAGAGGCCTAGGTGTGGAGGTCCATTTACTT
Found at i:88321385 original size:125 final size:126
Alignment explanation
Indices: 88321108--88321578 Score: 567
Period size: 125 Copynumber: 3.8 Consensus size: 126
88321098 AAGGAAAACA
*** * * * *
88321108 TTCATTGCATTTAGAGGAATAGGTGTGGAGGGT-CATTTACTTTTCACTACACTTAGAGGCCTAG
1 TTCATTGCATTTAGAGGCCCAGGTGTGGA-GGTCCATTTACTTTTCATTGCATTTAGAAGCCTAG
*
88321172 GTGTGGAGG-TCTATTTACTTTTCATTGTATTTAGAGGCCCAGGTGTGGAGGTCCATTTACTT
65 GTGTGGAGGTTC-ATTTACTTTTCATTGCATTTAGAGGCCCAGGTGTGGAGGTCCATTTACTT
* * * * *
88321234 TTTATTGTATTTAGAGGCTCAAGTGTGGAGGTCCATTTAATTTTCATTGCATTTAGAAGCCTAGG
1 TTCATTGCATTTAGAGGCCCAGGTGTGGAGGTCCATTTACTTTTCATTGCATTTAGAAGCCTAGG
* * **
88321299 CGTAGAGGTTCATTTACTTTT-ATTGCATTTAGAAACCCAGGTGTGGAGGTCCATTTACTT
66 TGTGGAGGTTCATTTACTTTTCATTGCATTTAGAGGCCCAGGTGTGGAGGTCCATTTACTT
* *
88321359 TTCATTGCATTTAGAGGCCCAGGTGTGGAGGTTCATTTACTTTTTATTGCATTTA-AAGGCCTAG
1 TTCATTGCATTTAGAGGCCCAGGTGTGGAGGTCCATTTACTTTTCATTGCATTTAGAA-GCCTAG
* * * *
88321423 GTTTGGA-GTTCCATTT-CTTTTCATTGCATTTAGAGGCCCGGGTGTGGAGGTCTATTGACTT
65 GTGTGGAGGTT-CATTTACTTTTCATTGCATTTAGAGGCCCAGGTGTGGAGGTCCATTTACTT
* * * * * * * *
88321484 TTAATTGCATCTAAAGGCCTAGGTGTGGAGGTCCGTTTACTTTTCATTGCATTTAAAAGCCCAAG
1 TTCATTGCATTTAGAGGCCCAGGTGTGGAGGTCCATTTACTTTTCATTGCATTTAGAAGCCTAGG
* *
88321549 TGTGGATGTCCATTTACTTTTCATTGCATT
66 TGTGGAGGTTCATTTACTTTTCATTGCATT
88321579 GTATATGAAG
Statistics
Matches: 295, Mismatches: 42, Indels: 16
0.84 0.12 0.05
Matches are distributed among these distances:
124 10 0.03
125 199 0.67
126 84 0.28
127 2 0.01
ACGTcount: A:0.22, C:0.16, G:0.24, T:0.39
Consensus pattern (126 bp):
TTCATTGCATTTAGAGGCCCAGGTGTGGAGGTCCATTTACTTTTCATTGCATTTAGAAGCCTAGG
TGTGGAGGTTCATTTACTTTTCATTGCATTTAGAGGCCCAGGTGTGGAGGTCCATTTACTT
Found at i:88321385 original size:167 final size:166
Alignment explanation
Indices: 88321108--88321578 Score: 588
Period size: 167 Copynumber: 2.8 Consensus size: 166
88321098 AAGGAAAACA
** * * * * *
88321108 TTCATTGCATTTAGAGGAATAGGTGTGGAGGGTCATTTACTTTTCACTACACTTAGAGGCCTAGG
1 TTCATTGCATTTAGAGGCCTAGGTGTGGA-GGTCATTTACTTTTAATTGCATTTAGAAGCCTAGG
* *
88321173 TGTGGAGGTCTATTTACTTTTCATTGTATTTAGAGGCCCAGGTGTGGAGGTCCATTTACTTTTTA
65 TGTGGAGGTCCATTTACTTTTCATTGCATTTAGAGGCCCAGGTGTGGAGGTCCATTTACTTTTTA
* *
88321238 TTGTATTTAGAGG-CTCAAGTGTGGAGGTCCATTTAATT
130 TTGCATTTAAAGGCCT-AAGTGTGGAGGTCCATTT-ATT
* * * * *
88321276 TTCATTGCATTTAGAAGCCTAGGCGTAGAGGTTCATTTACTTTT-ATTGCATTTAGAAACCCAGG
1 TTCATTGCATTTAGAGGCCTAGGTGTGGAGG-TCATTTACTTTTAATTGCATTTAGAAGCCTAGG
*
88321340 TGTGGAGGTCCATTTACTTTTCATTGCATTTAGAGGCCCAGGTGTGGAGGTTCATTTACTTTTTA
65 TGTGGAGGTCCATTTACTTTTCATTGCATTTAGAGGCCCAGGTGTGGAGGTCCATTTACTTTTTA
* * * *
88321405 TTGCATTTAAAGGCCTAGGTTTGGAGTTCCATTTCTT
130 TTGCATTTAAAGGCCTAAGTGTGGAGGTCCATTTATT
** * *
88321442 TTCATTGCATTTAGAGGCCCGGGTGTGGAGGTCTATTGACTTTTAATTGCATCTA-AAGGCCTAG
1 TTCATTGCATTTAGAGGCCTAGGTGTGGAGGTC-ATTTACTTTTAATTGCATTTAGAA-GCCTAG
* * * * * *
88321506 GTGTGGAGGTCCGTTTACTTTTCATTGCATTTAAAAGCCCAAGTGTGGATGTCCATTTACTTTTC
64 GTGTGGAGGTCCATTTACTTTTCATTGCATTTAGAGGCCCAGGTGTGGAGGTCCATTTACTTTTT
88321571 ATTGCATT
129 ATTGCATT
88321579 GTATATGAAG
Statistics
Matches: 262, Mismatches: 36, Indels: 11
0.85 0.12 0.04
Matches are distributed among these distances:
165 2 0.01
166 39 0.15
167 183 0.70
168 38 0.15
ACGTcount: A:0.22, C:0.16, G:0.24, T:0.39
Consensus pattern (166 bp):
TTCATTGCATTTAGAGGCCTAGGTGTGGAGGTCATTTACTTTTAATTGCATTTAGAAGCCTAGGT
GTGGAGGTCCATTTACTTTTCATTGCATTTAGAGGCCCAGGTGTGGAGGTCCATTTACTTTTTAT
TGCATTTAAAGGCCTAAGTGTGGAGGTCCATTTATT
Found at i:88322442 original size:21 final size:23
Alignment explanation
Indices: 88322394--88322442 Score: 59
Period size: 22 Copynumber: 2.3 Consensus size: 23
88322384 AGTTTTGATT
*
88322394 TTTTTTTAAAATAGAAAATTTAG
1 TTTTTTTAAAATAGAAAATATAG
*
88322417 -ATTTTTAAAATA-AAAATAT-G
1 TTTTTTTAAAATAGAAAATATAG
88322437 TTTTTT
1 TTTTTT
88322443 AGTCATATTA
Statistics
Matches: 22, Mismatches: 3, Indels: 4
0.76 0.10 0.14
Matches are distributed among these distances:
20 1 0.05
21 10 0.45
22 11 0.50
ACGTcount: A:0.43, C:0.00, G:0.06, T:0.51
Consensus pattern (23 bp):
TTTTTTTAAAATAGAAAATATAG
Found at i:88324093 original size:26 final size:26
Alignment explanation
Indices: 88324016--88324093 Score: 138
Period size: 26 Copynumber: 3.0 Consensus size: 26
88324006 TAAGAAATTC
*
88324016 TTCCCACTAGTTTTGCTTCATTCCCA
1 TTCCCACTAGTTTTGCTTCATTCCCT
88324042 TTCCCACTAGTTTTGCTTCATTCCCT
1 TTCCCACTAGTTTTGCTTCATTCCCT
*
88324068 TTCCCACTAGTTTTGCCTCATTCCCT
1 TTCCCACTAGTTTTGCTTCATTCCCT
88324094 GAAGTGAATG
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 50 1.00
ACGTcount: A:0.13, C:0.36, G:0.08, T:0.44
Consensus pattern (26 bp):
TTCCCACTAGTTTTGCTTCATTCCCT
Found at i:88324668 original size:29 final size:28
Alignment explanation
Indices: 88324636--88324702 Score: 89
Period size: 29 Copynumber: 2.3 Consensus size: 28
88324626 TCTTGTAATT
*
88324636 TTGATGTTTTTGGAAATTTTGAAAGTTAA
1 TTGAT-TTTTTGGAAAATTTGAAAGTTAA
* *
88324665 TTGATTTATGTGGAAAATTTGAAAGTTAG
1 TTGATTT-TTTGGAAAATTTGAAAGTTAA
88324694 TTGATTTTT
1 TTGATTTTT
88324703 AGATGTGGGT
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
28 3 0.09
29 30 0.91
ACGTcount: A:0.30, C:0.00, G:0.21, T:0.49
Consensus pattern (28 bp):
TTGATTTTTTGGAAAATTTGAAAGTTAA
Found at i:88325268 original size:27 final size:27
Alignment explanation
Indices: 88325235--88325286 Score: 79
Period size: 27 Copynumber: 1.9 Consensus size: 27
88325225 GTATGCGTAT
88325235 GATTG-AATAGTATATTGAATTGGAATG
1 GATTGAAATAGTATATTG-ATTGGAATG
*
88325262 GATTGAAATTGTATATTGATTGGAA
1 GATTGAAATAGTATATTGATTGGAA
88325287 ATTGAATTAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
27 12 0.52
28 11 0.48
ACGTcount: A:0.37, C:0.00, G:0.25, T:0.38
Consensus pattern (27 bp):
GATTGAAATAGTATATTGATTGGAATG
Found at i:88325294 original size:23 final size:24
Alignment explanation
Indices: 88325235--88325303 Score: 68
Period size: 27 Copynumber: 2.8 Consensus size: 24
88325225 GTATGCGTAT
*
88325235 GATTGAATAGTATATTGAATTGGAA
1 GATTGAATTGTATATTG-ATTGGAA
88325260 TGGATTGAAATTGTATATTGATTGGAA
1 --GATTG-AATTGTATATTGATTGGAA
* *
88325287 -ATTGAATTATGTATTGA
1 GATTGAATTGTATATTGA
88325304 AATACCCTAT
Statistics
Matches: 38, Mismatches: 3, Indels: 6
0.81 0.06 0.13
Matches are distributed among these distances:
23 11 0.29
24 4 0.11
27 12 0.32
28 11 0.29
ACGTcount: A:0.36, C:0.00, G:0.23, T:0.41
Consensus pattern (24 bp):
GATTGAATTGTATATTGATTGGAA
Found at i:88328571 original size:61 final size:62
Alignment explanation
Indices: 88328429--88328571 Score: 161
Period size: 60 Copynumber: 2.3 Consensus size: 62
88328419 ACAAGCTTTA
*
88328429 CTGGGCCTAAGCCCTATT-CAGAAATCAGAGTTAACTGGGCATTAGCCCATATCAATAACAAT
1 CTGGGCCT-AGCCCTATTACAGAAATCAGAGTTAACTGGGCACTAGCCCATATCAATAACAAT
* * * * *
88328491 CTGGGCCATAGCCC-CTTACAG-TATCAGAG-TATACTGGGC-CTAGCTCATATCAGTATCAAT
1 CTGGGCC-TAGCCCTATTACAGAAATCAGAGTTA-ACTGGGCACTAGCCCATATCAATAACAAT
88328551 CTGGGCCGTAGCCCTATTACA
1 CTGGGCC-TAGCCCTATTACA
88328572 AGTCGAGATA
Statistics
Matches: 69, Mismatches: 8, Indels: 9
0.80 0.09 0.10
Matches are distributed among these distances:
60 32 0.46
61 21 0.30
62 15 0.22
63 1 0.01
ACGTcount: A:0.29, C:0.27, G:0.20, T:0.25
Consensus pattern (62 bp):
CTGGGCCTAGCCCTATTACAGAAATCAGAGTTAACTGGGCACTAGCCCATATCAATAACAAT
Found at i:88328589 original size:60 final size:59
Alignment explanation
Indices: 88328452--88328603 Score: 157
Period size: 60 Copynumber: 2.5 Consensus size: 59
88328442 CTATTCAGAA
* *
88328452 ATCAGAGT-TAACTGGGCATTAGCCCATATCAATAACAATCTGGGCCATAGCCCCTTACAG
1 ATCAGAGTAT-ACTGGGC-CTAGCCCATATCAATAACAATCTGGGCCATAGCCCATTACAG
* * * *
88328512 TATCAGAGTATACTGGGCCTAGCTCATATCAGTATCAATCTGGGCCGTAGCCCTATTACA-
1 -ATCAGAGTATACTGGGCCTAGCCCATATCAATAACAATCTGGGCCATAGCCC-ATTACAG
* *
88328572 AGTC-GAGATATATTGGGCCTTGCCCATATCAA
1 A-TCAGAG-TATACTGGGCCTAGCCCATATCAA
88328604 CACAGTTGAC
Statistics
Matches: 77, Mismatches: 10, Indels: 9
0.80 0.10 0.09
Matches are distributed among these distances:
59 4 0.05
60 52 0.68
61 20 0.26
62 1 0.01
ACGTcount: A:0.29, C:0.25, G:0.20, T:0.26
Consensus pattern (59 bp):
ATCAGAGTATACTGGGCCTAGCCCATATCAATAACAATCTGGGCCATAGCCCATTACAG
Found at i:88331406 original size:15 final size:16
Alignment explanation
Indices: 88331383--88331416 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
88331373 TCAGTTTTCC
*
88331383 CTACTGTTTCAGT-TT
1 CTACAGTTTCAGTATT
88331398 CTACAGTTTCAGTATT
1 CTACAGTTTCAGTATT
88331414 CTA
1 CTA
88331417 GGGTTTTTAG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 12 0.71
16 5 0.29
ACGTcount: A:0.21, C:0.21, G:0.12, T:0.47
Consensus pattern (16 bp):
CTACAGTTTCAGTATT
Found at i:88332556 original size:61 final size:60
Alignment explanation
Indices: 88332480--88332632 Score: 181
Period size: 60 Copynumber: 2.5 Consensus size: 60
88332470 CCTATTCAAA
88332480 AATCAGAGT-TAACTGGGCCTTAGCCCATATCAATAACAATCTGGGCCATAGCCCT-TTAC
1 AATCAGAGTAT-ACTGGGCCTTAGCCCATATCAATAACAATCTGGGCCATAGCCCTATTAC
* * *
88332539 AGTATCAGAGTATACTGGGCC-TAGCTCATATCAGTATCAATCTGGGCCATAGCCCTATTAC
1 A--ATCAGAGTATACTGGGCCTTAGCCCATATCAATAACAATCTGGGCCATAGCCCTATTAC
**
88332600 AAGTC-GAGATATTTTGGGCCTT-GCCCATATCAA
1 AA-TCAGAG-TATACTGGGCCTTAGCCCATATCAA
88332633 CACAGTTGGC
Statistics
Matches: 80, Mismatches: 7, Indels: 13
0.80 0.07 0.13
Matches are distributed among these distances:
59 5 0.06
60 52 0.65
61 22 0.28
62 1 0.01
ACGTcount: A:0.29, C:0.25, G:0.19, T:0.27
Consensus pattern (60 bp):
AATCAGAGTATACTGGGCCTTAGCCCATATCAATAACAATCTGGGCCATAGCCCTATTAC
Found at i:88332585 original size:60 final size:62
Alignment explanation
Indices: 88332481--88332600 Score: 183
Period size: 60 Copynumber: 2.0 Consensus size: 62
88332471 CTATTCAAAA
88332481 ATCAGAGTTAACTGGGCCTTAGCCCATATCAATAACAATCTGGGCCATAGCCCT-TTACAGT
1 ATCAGAGTTAACTGGGCCTTAGCCCATATCAATAACAATCTGGGCCATAGCCCTATTACAGT
* * *
88332542 ATCAGAG-TATACTGGGCC-TAGCTCATATCAGTATCAATCTGGGCCATAGCCCTATTACA
1 ATCAGAGTTA-ACTGGGCCTTAGCCCATATCAATAACAATCTGGGCCATAGCCCTATTACA
88332601 AGTCGAGATA
Statistics
Matches: 54, Mismatches: 3, Indels: 4
0.89 0.05 0.07
Matches are distributed among these distances:
60 34 0.63
61 20 0.37
ACGTcount: A:0.29, C:0.26, G:0.18, T:0.27
Consensus pattern (62 bp):
ATCAGAGTTAACTGGGCCTTAGCCCATATCAATAACAATCTGGGCCATAGCCCTATTACAGT
Found at i:88333313 original size:8 final size:8
Alignment explanation
Indices: 88333286--88333316 Score: 53
Period size: 8 Copynumber: 3.9 Consensus size: 8
88333276 TTGAAATGCT
88333286 GGCTTTTC
1 GGCTTTTC
*
88333294 GGCATTTC
1 GGCTTTTC
88333302 GGCTTTTC
1 GGCTTTTC
88333310 GGCTTTT
1 GGCTTTT
88333317 GCCGATCTAG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.03, C:0.23, G:0.26, T:0.48
Consensus pattern (8 bp):
GGCTTTTC
Found at i:88336644 original size:22 final size:22
Alignment explanation
Indices: 88336622--88336693 Score: 67
Period size: 22 Copynumber: 3.2 Consensus size: 22
88336612 CTATTTCGAA
88336622 AAAAAGTTTTGATTTTTAAGAA-
1 AAAAAGTTTTGATTTTTAA-AAG
*
88336644 AAATAGTGATTT-ATTTTTAAAAG
1 AAAAAGT--TTTGATTTTTAAAAG
* * *
88336667 AGAAAGTTTAGATTTTTAAAAT
1 AAAAAGTTTTGATTTTTAAAAG
88336689 AAAAA
1 AAAAA
88336694 TCTGGTTTTT
Statistics
Matches: 40, Mismatches: 6, Indels: 8
0.74 0.11 0.15
Matches are distributed among these distances:
21 2 0.05
22 22 0.55
23 13 0.32
24 3 0.08
ACGTcount: A:0.49, C:0.00, G:0.12, T:0.39
Consensus pattern (22 bp):
AAAAAGTTTTGATTTTTAAAAG
Found at i:88337691 original size:27 final size:27
Alignment explanation
Indices: 88337661--88337722 Score: 97
Period size: 27 Copynumber: 2.3 Consensus size: 27
88337651 TAAGTAAGTG
* *
88337661 TTACATTTTAATGACACCATAAGGTTT
1 TTACATTTTAATGAAACCATAAGGGTT
*
88337688 TTACATTTTAATGAAACTATAAGGGTT
1 TTACATTTTAATGAAACCATAAGGGTT
88337715 TTACATTT
1 TTACATTT
88337723 GAATTTAGGT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.34, C:0.11, G:0.11, T:0.44
Consensus pattern (27 bp):
TTACATTTTAATGAAACCATAAGGGTT
Found at i:88339029 original size:29 final size:29
Alignment explanation
Indices: 88338996--88339054 Score: 109
Period size: 29 Copynumber: 2.0 Consensus size: 29
88338986 TCTACCTTGA
*
88338996 CACAAATTCTCAACAAACAAGTTCTTCAC
1 CACAAACTCTCAACAAACAAGTTCTTCAC
88339025 CACAAACTCTCAACAAACAAGTTCTTCAC
1 CACAAACTCTCAACAAACAAGTTCTTCAC
88339054 C
1 C
88339055 TCTTCCATAA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.41, C:0.34, G:0.03, T:0.22
Consensus pattern (29 bp):
CACAAACTCTCAACAAACAAGTTCTTCAC
Found at i:88339365 original size:17 final size:17
Alignment explanation
Indices: 88339343--88339376 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
88339333 TACTAAGTTC
88339343 ACCAAATAGTTCCTTTA
1 ACCAAATAGTTCCTTTA
*
88339360 ACCAAATAGTTTCTTTA
1 ACCAAATAGTTCCTTTA
88339377 CAAGCTTCAG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.35, C:0.21, G:0.06, T:0.38
Consensus pattern (17 bp):
ACCAAATAGTTCCTTTA
Found at i:88343252 original size:28 final size:28
Alignment explanation
Indices: 88343177--88343253 Score: 100
Period size: 28 Copynumber: 2.8 Consensus size: 28
88343167 TGAGTGTGAT
* * *
88343177 TTGGGCCTAATGGGCCACATAAATGTGA
1 TTGGGCCTAATGGGCCATATAAAAGAGA
*
88343205 ATGGGCCTAATGGGCCATATAAAAGAGA
1 TTGGGCCTAATGGGCCATATAAAAGAGA
* *
88343233 TTGGGCCTAGTGGGCTATATA
1 TTGGGCCTAATGGGCCATATA
88343254 TATATAGGTA
Statistics
Matches: 42, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 42 1.00
ACGTcount: A:0.30, C:0.16, G:0.30, T:0.25
Consensus pattern (28 bp):
TTGGGCCTAATGGGCCATATAAAAGAGA
Found at i:88349711 original size:28 final size:28
Alignment explanation
Indices: 88349679--88349790 Score: 95
Period size: 28 Copynumber: 4.0 Consensus size: 28
88349669 CATGACTGTA
*
88349679 AATGTAATTTGGGCCTAGT-GGCCATATG
1 AATGTAA-TTGGGCCTAATGGGCCATATG
* * *
88349707 AATGTGATTTGGGCCTAATGGGCCACATA
1 AATGT-AATTGGGCCTAATGGGCCATATG
* *
88349736 AATATGAA-TGGGCCTAATGGCCCATATG
1 AATGT-AATTGGGCCTAATGGGCCATATG
* *
88349764 AAAG-AGATTGGGCCTAGTGGGCCATAT
1 AATGTA-ATTGGGCCTAATGGGCCATAT
88349791 ATATAGGTAT
Statistics
Matches: 67, Mismatches: 13, Indels: 8
0.76 0.15 0.09
Matches are distributed among these distances:
26 1 0.01
27 1 0.01
28 51 0.76
29 14 0.21
ACGTcount: A:0.29, C:0.16, G:0.29, T:0.27
Consensus pattern (28 bp):
AATGTAATTGGGCCTAATGGGCCATATG
Found at i:88349803 original size:28 final size:28
Alignment explanation
Indices: 88349716--88349803 Score: 88
Period size: 28 Copynumber: 3.1 Consensus size: 28
88349706 GAATGTGATT
* * *
88349716 TGGGCCTAATGGGCCACATAAATATGAA
1 TGGGCCTAATGGGCCATATAAATAGGTA
* * *
88349744 TGGGCCTAATGGCCCATATGAAAGAGAT-
1 TGGGCCTAATGGGCCATAT-AAATAGGTA
* *
88349772 TGGGCCTAGTGGGCCATATATATAGGTA
1 TGGGCCTAATGGGCCATATAAATAGGTA
88349800 TGGG
1 TGGG
88349804 GGTTTGTCTG
Statistics
Matches: 47, Mismatches: 11, Indels: 4
0.76 0.18 0.06
Matches are distributed among these distances:
27 5 0.11
28 38 0.81
29 4 0.09
ACGTcount: A:0.30, C:0.16, G:0.31, T:0.24
Consensus pattern (28 bp):
TGGGCCTAATGGGCCATATAAATAGGTA
Found at i:88349803 original size:56 final size:56
Alignment explanation
Indices: 88349688--88349803 Score: 144
Period size: 56 Copynumber: 2.1 Consensus size: 56
88349678 AAATGTAATT
* * * *
88349688 TGGGCCTAGTGGCCATATGAATGTGATTTGGGCCTAATGGGCCACATAAATATGAA
1 TGGGCCTAATGGCCATATGAAAGAGATTTGGGCCTAATGGGCCACATAAATAGGAA
* * * *
88349744 TGGGCCTAATGGCCCATATGAAAGAGA-TTGGGCCTAGTGGGCCATATATATAGGTA
1 TGGGCCTAATGG-CCATATGAAAGAGATTTGGGCCTAATGGGCCACATAAATAGGAA
88349800 TGGG
1 TGGG
88349804 GGTTTGTCTG
Statistics
Matches: 51, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
56 39 0.76
57 12 0.24
ACGTcount: A:0.28, C:0.16, G:0.31, T:0.26
Consensus pattern (56 bp):
TGGGCCTAATGGCCATATGAAAGAGATTTGGGCCTAATGGGCCACATAAATAGGAA
Found at i:88352616 original size:16 final size:16
Alignment explanation
Indices: 88352591--88352621 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
88352581 AAATTGACCC
88352591 AAAATCATATTTTTGA
1 AAAATCATATTTTTGA
*
88352607 AAAATTATATTTTTG
1 AAAATCATATTTTTG
88352622 CCTCTAAACT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.03, G:0.06, T:0.48
Consensus pattern (16 bp):
AAAATCATATTTTTGA
Found at i:88361657 original size:29 final size:29
Alignment explanation
Indices: 88361567--88361651 Score: 161
Period size: 29 Copynumber: 2.9 Consensus size: 29
88361557 AGTTGGTTTG
*
88361567 ATTCTTCCATGAGTTCTTGAGCCAGAATT
1 ATTCTCCCATGAGTTCTTGAGCCAGAATT
88361596 ATTCTCCCATGAGTTCTTGAGCCAGAATT
1 ATTCTCCCATGAGTTCTTGAGCCAGAATT
88361625 ATTCTCCCATGAGTTCTTGAGCCAGAA
1 ATTCTCCCATGAGTTCTTGAGCCAGAA
88361652 CCATTCATGT
Statistics
Matches: 55, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
29 55 1.00
ACGTcount: A:0.25, C:0.24, G:0.18, T:0.34
Consensus pattern (29 bp):
ATTCTCCCATGAGTTCTTGAGCCAGAATT
Found at i:88363130 original size:16 final size:17
Alignment explanation
Indices: 88363099--88363131 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
88363089 TTCATAAGTA
88363099 TATATCAATCATTTCAT
1 TATATCAATCATTTCAT
88363116 TATATCAAT-ATTTCAT
1 TATATCAATCATTTCAT
88363132 GCACCATCAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.36, C:0.15, G:0.00, T:0.48
Consensus pattern (17 bp):
TATATCAATCATTTCAT
Found at i:88363729 original size:46 final size:46
Alignment explanation
Indices: 88363417--88363736 Score: 417
Period size: 46 Copynumber: 7.0 Consensus size: 46
88363407 TTTGACATGA
* * * *
88363417 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCA-TTTCATGTCAGGT
* * *
88363463 TGCCATGGTATTTTTCAACCATGGTCTTACACATTTCATGTCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATGTCAGGT
** * ** *
88363509 TGCCATTATATCTTTCAACCATGGTCTTATTCATTTCCCGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATGTCAGGT
* ** *
88363555 TGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCCCGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATGTCAGGT
* *
88363601 TGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATGTCAGGT
* *
88363647 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATGTCAGGT
* *
88363693 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATGTCAG
88363737 AGAGCACACT
Statistics
Matches: 251, Mismatches: 22, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
45 4 0.02
46 247 0.98
ACGTcount: A:0.21, C:0.24, G:0.14, T:0.41
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATGTCAGGT
Found at i:88369218 original size:39 final size:40
Alignment explanation
Indices: 88369114--88369310 Score: 269
Period size: 40 Copynumber: 5.0 Consensus size: 40
88369104 AGCCAGGTTA
* *
88369114 TAGTAGCTCGTACAAATGCCTTCGGGA-CTTA-TCCCGGATT
1 TAGTAACTCGCACAAATGCCTTC-GGATCTTAGT-CCGGATT
88369154 TAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGGATT
1 TAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGGATT
*
88369194 TAGTAA-TCGTACAAATGCCTTCGGATCTTAGTCCGGATT
1 TAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGGATT
*
88369233 TAGTAACTCGCACAATTGCCTTCGGATCTTAGTCCGGATT
1 TAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGGATT
* *
88369273 TAGTAACTTAGCACAAA-GCCTTCGGGA-CTTAGCCCGGA
1 TAGTAAC-TCGCACAAATGCCTTC-GGATCTTAGTCCGGA
88369311 CATCATTCGA
Statistics
Matches: 144, Mismatches: 8, Indels: 10
0.89 0.05 0.06
Matches are distributed among these distances:
39 41 0.28
40 92 0.64
41 11 0.08
ACGTcount: A:0.25, C:0.24, G:0.21, T:0.29
Consensus pattern (40 bp):
TAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGGATT
Found at i:88369232 original size:79 final size:79
Alignment explanation
Indices: 88369121--88369310 Score: 287
Period size: 79 Copynumber: 2.4 Consensus size: 79
88369111 TTATAGTAGC
88369121 TCGTACAAATGCCTTCGGGACTTATCCCGGATTTAGTAACTCGCACAAATGCCTTCGGATCTTAG
1 TCGTACAAATGCCTTCGGGACTTATCCCGGATTTAGTAACTCGCACAAATGCCTTCGGATCTTAG
88369186 TCCGGATTTAGTAA
66 TCCGGATTTAGTAA
*
88369200 TCGTACAAATGCCTTC-GGATCTTAGT-CCGGATTTAGTAACTCGCACAATTGCCTTCGGATCTT
1 TCGTACAAATGCCTTCGGGA-CTTA-TCCCGGATTTAGTAACTCGCACAAATGCCTTCGGATCTT
88369263 AGTCCGGATTTAGTAA
64 AGTCCGGATTTAGTAA
* * *
88369279 -CTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
1 TCGTA-CA-AATGCCTTCGGGACTTATCCCGGA
88369311 CATCATTCGA
Statistics
Matches: 101, Mismatches: 4, Indels: 11
0.87 0.03 0.09
Matches are distributed among these distances:
78 6 0.06
79 74 0.73
80 18 0.18
81 3 0.03
ACGTcount: A:0.25, C:0.25, G:0.21, T:0.29
Consensus pattern (79 bp):
TCGTACAAATGCCTTCGGGACTTATCCCGGATTTAGTAACTCGCACAAATGCCTTCGGATCTTAG
TCCGGATTTAGTAA
Found at i:88374772 original size:22 final size:22
Alignment explanation
Indices: 88374754--88374795 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
88374744 TATAATAATA
88374754 AAGTAAAT-ATAATAAAATAAAT
1 AAGTAAATGA-AATAAAATAAAT
88374776 AAGTAAATGAAAT-AAATAAA
1 AAGTAAATGAAATAAAATAAA
88374796 GAAAGAAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 7 0.37
22 11 0.58
23 1 0.05
ACGTcount: A:0.69, C:0.00, G:0.07, T:0.24
Consensus pattern (22 bp):
AAGTAAATGAAATAAAATAAAT
Found at i:88374776 original size:26 final size:28
Alignment explanation
Indices: 88374728--88374795 Score: 83
Period size: 26 Copynumber: 2.6 Consensus size: 28
88374718 CTTAATATTT
*
88374728 AAGTAAATAT-ATAGAATATAATAA-TA
1 AAGTAAATATAATAAAATATAATAAGTA
88374754 AAGTAAATATAATAAAATA-AATAAGTA
1 AAGTAAATATAATAAAATATAATAAGTA
88374781 AA-TGAAATA-AATAAA
1 AAGT-AAATATAATAAA
88374796 GAAAGAAAAA
Statistics
Matches: 38, Mismatches: 1, Indels: 6
0.84 0.02 0.13
Matches are distributed among these distances:
26 22 0.58
27 16 0.42
ACGTcount: A:0.66, C:0.00, G:0.07, T:0.26
Consensus pattern (28 bp):
AAGTAAATATAATAAAATATAATAAGTA
Found at i:88375873 original size:40 final size:40
Alignment explanation
Indices: 88375752--88375891 Score: 142
Period size: 40 Copynumber: 3.5 Consensus size: 40
88375742 GACTTCAAGT
* *
88375752 CGATGAGACACTGGGTGTCAAATTATCACTTCGAATATATT
1 CGATGAGACACTGGGTGTCAAATTATTACTTCGAAT-TATC
* * * * ** *
88375793 CGATGAGGCAGTGGGTG-CCAA-T-TTACTTTGGTTTAGC
1 CGATGAGACACTGGGTGTCAAATTATTACTTCGAATTATC
88375830 CGATGAGACACTGGGTGTCAAATTATTACTTCGAATTATC
1 CGATGAGACACTGGGTGTCAAATTATTACTTCGAATTATC
** *
88375870 CGATGAGGTACTGGGTGCCAAA
1 CGATGAGACACTGGGTGTCAAA
88375892 CTGGTGTGTT
Statistics
Matches: 77, Mismatches: 19, Indels: 7
0.75 0.18 0.07
Matches are distributed among these distances:
37 17 0.22
38 10 0.13
39 2 0.03
40 33 0.43
41 15 0.19
ACGTcount: A:0.27, C:0.17, G:0.26, T:0.30
Consensus pattern (40 bp):
CGATGAGACACTGGGTGTCAAATTATTACTTCGAATTATC
Found at i:88377957 original size:46 final size:45
Alignment explanation
Indices: 88377900--88378212 Score: 137
Period size: 46 Copynumber: 6.6 Consensus size: 45
88377890 TCACTTGTGT
* *
88377900 GAGCTAGTGTAAAATATGTCTGGGACATGCATCGGCCACATTATGA
1 GAGCCAGTGTAAAACATGTCTGGGACATGCATCGGCCACA-TATGA
* * * * * *
88377946 GAGCCAATGTAAAACCATGTCTGTGACATGGCATCGACATAGATACGA
1 GAGCCAGTGTAAAA-CATGTCTGGGACAT-GCATCGGC-CACATATGA
* * * * ** *
88377994 GTGCTAGTGTAAGACATGTTTGGGACATGCATCGGCCTTGAAATGTA
1 GAGCCAGTGTAAAACATGTCTGGGACATGCATCGGCC-ACATATG-A
* * * * *
88378041 -AGCCAGTGTAAGATATGTCTGGGACATGCATCGACTA-A-GTGA
1 GAGCCAGTGTAAAACATGTCTGGGACATGCATCGGCCACATATGA
* ** * * ** *
88378083 TGTGTTAGTGTAAGACCATGTCTAGGACATGGCATCAACACAGATATACGA
1 -GAGCCAGTGTAA-AACATGTCTGGGACAT-GCATCGGC-CACATAT--GA
* * * *
88378134 GAGCTAGTATAAGACCATGTCTGGGACATGGCATCGGCCTCGATAATGA
1 GAGCCAGTGTAA-AACATGTCTGGGACAT-GCATCGGCCAC-AT-ATGA
* * *
88378183 TAGCCAGTGTAATACCATGTCGGGGACATG
1 GAGCCAGTGTAA-AACATGTCTGGGACATG
88378213 GGATCGACAG
Statistics
Matches: 201, Mismatches: 50, Indels: 30
0.72 0.18 0.11
Matches are distributed among these distances:
42 1 0.00
43 2 0.01
44 9 0.04
45 12 0.06
46 60 0.30
47 26 0.13
48 23 0.11
49 30 0.15
50 34 0.17
51 4 0.02
ACGTcount: A:0.30, C:0.18, G:0.27, T:0.25
Consensus pattern (45 bp):
GAGCCAGTGTAAAACATGTCTGGGACATGCATCGGCCACATATGA
Found at i:88385644 original size:46 final size:46
Alignment explanation
Indices: 88385495--88385670 Score: 194
Period size: 46 Copynumber: 3.8 Consensus size: 46
88385485 TCACTTGTGT
* * * * * *
88385495 GAGCTACTGTAAGAAAAGTCTGGGACATGCATCGGCCAC-ATTATGA
1 GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGA-GACGA
* * *
88385541 GAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGACATAGAGACGA
1 GAGCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCTCGAGACGA
*
88385589 GTGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGACGTA
1 GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGACG-A
* *
88385636 -AGCAAGTGTAAGACATGTCTGGGATATGCATCGGC
1 GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGC
88385671 TAAGCAATGT
Statistics
Matches: 110, Mismatches: 16, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
46 59 0.54
47 27 0.25
48 23 0.21
49 1 0.01
ACGTcount: A:0.29, C:0.19, G:0.30, T:0.22
Consensus pattern (46 bp):
GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGACGA
Found at i:88385713 original size:46 final size:43
Alignment explanation
Indices: 88385497--88385713 Score: 157
Period size: 46 Copynumber: 4.7 Consensus size: 43
88385487 ACTTGTGTGA
* * * * ** *
88385497 GCTACTGTAAGAAAAGTCTGGGACATGCATCGGCCACATTATGAGA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCTA-AGCA--AGT
* *
88385543 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGACATAGAGACGAGT
1 GCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGGC-TA-AG-CAAGT
* *
88385591 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAG-ACGT
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGG-CT-AAGCAAGT
* *
88385635 AAGCAAGTGTAAGACATGTCTGGGATATGCATCGGCTAAGCAATGT
1 --GCTAGTGTAAGACATGTCTGGGACATGCATCGGCTAAGCAA-GT
* *
88385681 GTTAGTGTAAGACCACGTCTGGGACATGGCATC
1 GCTAGTGTAAGA-CATGTCTGGGACAT-GCATC
88385714 AACACGGATA
Statistics
Matches: 137, Mismatches: 22, Indels: 24
0.75 0.12 0.13
Matches are distributed among these distances:
44 14 0.10
45 15 0.11
46 58 0.42
47 27 0.20
48 21 0.15
49 2 0.01
ACGTcount: A:0.29, C:0.19, G:0.29, T:0.23
Consensus pattern (43 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCGGCTAAGCAAGT
Found at i:88388147 original size:6 final size:6
Alignment explanation
Indices: 88388116--88388382 Score: 232
Period size: 6 Copynumber: 44.5 Consensus size: 6
88388106 TTATTCGATT
* ** *
88388116 GCTCGA GCTCGG GCTTAG GCTTGG GCTCGG GCTCGG GCTCGG GCTCGG
1 GCTCGG GCTCGG GCTCGG GCTCGG GCTCGG GCTCGG GCTCGG GCTCGG
* *
88388164 GCTCGG GCTCGG GCTCAG GCTCAG GCTCGG GCTCGG GCTCGG GCTCGG
1 GCTCGG GCTCGG GCTCGG GCTCGG GCTCGG GCTCGG GCTCGG GCTCGG
* * * * *
88388212 GCTCGG GCTCAG GCTCAG GCTCAG GCTCAG GCTCGG GCTCGA GCTCGG
1 GCTCGG GCTCGG GCTCGG GCTCGG GCTCGG GCTCGG GCTCGG GCTCGG
* * ** * **
88388260 GCTCAG GCTCGG GCTCGG GCTCAG GCTCAA GCT-GAG GCTCTG GCTCTA
1 GCTCGG GCTCGG GCTCGG GCTCGG GCTCGG GCTCG-G GCTCGG GCTCGG
** * * * * * * * *
88388308 GCTCTA GCTCTG GCTCTG GATCAG GCTCGA GCTCGG GCTTGA GCTCTG
1 GCTCGG GCTCGG GCTCGG GCTCGG GCTCGG GCTCGG GCTCGG GCTCGG
* *
88388356 GCTCTG GCT-GG GCCTCAG GCTCGG GCT
1 GCTCGG GCTCGG G-CTCGG GCTCGG GCT
88388383 TTGGCTTGTA
Statistics
Matches: 223, Mismatches: 34, Indels: 8
0.84 0.13 0.03
Matches are distributed among these distances:
5 2 0.01
6 219 0.98
7 2 0.01
ACGTcount: A:0.08, C:0.31, G:0.40, T:0.21
Consensus pattern (6 bp):
GCTCGG
Found at i:88389021 original size:14 final size:14
Alignment explanation
Indices: 88389002--88389029 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
88388992 ATAAATTACA
88389002 TGTTAGAATAGTAT
1 TGTTAGAATAGTAT
88389016 TGTTAGAATAGTAT
1 TGTTAGAATAGTAT
88389030 CATTAGAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.36, C:0.00, G:0.21, T:0.43
Consensus pattern (14 bp):
TGTTAGAATAGTAT
Found at i:88389035 original size:14 final size:14
Alignment explanation
Indices: 88389004--88389037 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
88388994 AAATTACATG
**
88389004 TTAGAATAGTATTG
1 TTAGAATAGTATCA
88389018 TTAGAATAGTATCA
1 TTAGAATAGTATCA
88389032 TTAGAA
1 TTAGAA
88389038 AAAAAATGAC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.41, C:0.03, G:0.18, T:0.38
Consensus pattern (14 bp):
TTAGAATAGTATCA
Found at i:88393589 original size:40 final size:39
Alignment explanation
Indices: 88393464--88393591 Score: 143
Period size: 40 Copynumber: 3.3 Consensus size: 39
88393454 ATGCTGGAAA
* *
88393464 TTATAT-CGGGTTAAGA-CCGAAGGCAATTGTGCAAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCAA-TGG
* * * **
88393502 CTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCA
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGC-AATGG
*
88393542 TTCTATCCGGGCTAAGACCCGAAGGCATTTGTGCACATGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCA-ATGG
88393582 TTATATCCGG
1 TTATATCCGG
88393592 TTATATTCCG
Statistics
Matches: 72, Mismatches: 14, Indels: 6
0.78 0.15 0.07
Matches are distributed among these distances:
38 5 0.07
39 10 0.14
40 56 0.78
41 1 0.01
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (39 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCAATGG
Found at i:88395496 original size:31 final size:32
Alignment explanation
Indices: 88395416--88395505 Score: 103
Period size: 31 Copynumber: 2.8 Consensus size: 32
88395406 AGTCAGAGGT
* * * *
88395416 GTGCCACCTGTGTAATGGGCTTGACC-AGCAG
1 GTGCCGCCTGTGAAATGGGCATGACCAACCAG
* *
88395447 TGTGCTGCCTGTGGAATGGGCATGACCAACCA-
1 -GTGCCGCCTGTGAAATGGGCATGACCAACCAG
88395479 GTGCCGCCTGTGAAATGGGCATGACCA
1 GTGCCGCCTGTGAAATGGGCATGACCA
88395506 GTGGTGTGTT
Statistics
Matches: 50, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
31 25 0.50
32 22 0.44
33 3 0.06
ACGTcount: A:0.21, C:0.26, G:0.32, T:0.21
Consensus pattern (32 bp):
GTGCCGCCTGTGAAATGGGCATGACCAACCAG
Found at i:88409786 original size:12 final size:12
Alignment explanation
Indices: 88409769--88409795 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
88409759 TATTTTTTTG
88409769 TCTTCTTCTTCA
1 TCTTCTTCTTCA
88409781 TCTTCTTCTTCA
1 TCTTCTTCTTCA
88409793 TCT
1 TCT
88409796 CTTGCAGCCG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.07, C:0.33, G:0.00, T:0.59
Consensus pattern (12 bp):
TCTTCTTCTTCA
Found at i:88409928 original size:15 final size:16
Alignment explanation
Indices: 88409901--88409931 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
88409891 CAAAAACTGA
88409901 CCCTCATTCCTTCTTC
1 CCCTCATTCCTTCTTC
88409917 CCCTCA-TCCTTCTTC
1 CCCTCATTCCTTCTTC
88409932 ATTCCCGGCC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 9 0.60
16 6 0.40
ACGTcount: A:0.06, C:0.52, G:0.00, T:0.42
Consensus pattern (16 bp):
CCCTCATTCCTTCTTC
Found at i:88410161 original size:26 final size:26
Alignment explanation
Indices: 88410132--88410192 Score: 63
Period size: 26 Copynumber: 2.3 Consensus size: 26
88410122 TTTTCCCCAT
* *
88410132 TATTTTATTTTATT-TTATTTATTTTC
1 TATTTTATTTGATTCTT-TTCATTTTC
*
88410158 TATTTCT-TTTGCTTCTTTTCATTTTC
1 TATTT-TATTTGATTCTTTTCATTTTC
88410184 TATTTTATT
1 TATTTTATT
88410193 ATTGATTATT
Statistics
Matches: 29, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
25 1 0.03
26 25 0.86
27 3 0.10
ACGTcount: A:0.15, C:0.10, G:0.02, T:0.74
Consensus pattern (26 bp):
TATTTTATTTGATTCTTTTCATTTTC
Found at i:88413968 original size:110 final size:109
Alignment explanation
Indices: 88413560--88414018 Score: 358
Period size: 117 Copynumber: 4.1 Consensus size: 109
88413550 TCATACCTTA
* * * * * * *
88413560 AATATGAAAAACTGATATAAGATTCTTCAAAAAAAAATTAATAAAACAAATTAATCAAACCTTT-
1 AATATAAAAAATTGATATAAGA-T-ATC-AAAAAACATTAATAAAACAAACTAATCATACATTTA
* * * * * ** *
88413624 ATACAAACTTAAAGCTAATAAAACACAACAACAAAAAAATAACATTTC
63 ATATAAACTTAAATCTAATAAAACATAATAA-AAAAATATTTCCTTTC
* * *
88413672 AAGTAAATACAAAAAATTAATATAAGATATCACAAAAACATTAATAAAACAAATTAATCATACCT
1 AA-T--AT--AAAAAATTGATATAAGATATCA-AAAAACATTAATAAAACAAACTAATCATACAT
* * * * *
88413737 TTAATACAAA-TCTAAATCTAA-AATAACACAACAAAAAAATATCCTTCCCCTTA
60 TTAATATAAACT-TAAATCTAATAA-AACATAATAAAAAAATAT--TT-CCTTTC
*
88413790 AATATAAAAAAAAAGTTGATATAAGATA-CAACAATAACATTAATAAAATAAACTAATCATACAT
1 AATAT---AAAAAA-TTGATATAAGATATCAA-AA-AACATTAATAAAACAAACTAATCATACAT
*
88413854 TTAATATAAACTTAAATCTAATAAAACATAATAAAAAAATATTTCTTTTC
60 TTAATATAAACTTAAATCTAATAAAACATAATAAAAAAATATTTCCTTTC
* * * * *
88413904 AATATAAAAAATTGTTATAAGATATCATAAAAACAATAATAAAACACACAAATCATACTTTTAAT
1 AATATAAAAAATTGATATAAGATATCA-AAAAACATTAATAAAACAAACTAATCATACATTTAAT
*
88413969 ATAAACTTAAA-CTTAAT-AAA-ATACATAAAAAAA-ATTACCTTTC
65 ATAAACTTAAATC-TAATAAAACATA-ATAAAAAAATATTTCCTTTC
*
88414012 AAAATAA
1 AATATAA
88414019 TTTTTAACTC
Statistics
Matches: 292, Mismatches: 33, Indels: 48
0.78 0.09 0.13
Matches are distributed among these distances:
108 17 0.06
109 13 0.04
110 56 0.19
111 10 0.03
112 3 0.01
113 1 0.00
114 9 0.03
115 51 0.17
116 37 0.13
117 87 0.30
118 8 0.03
ACGTcount: A:0.57, C:0.13, G:0.02, T:0.27
Consensus pattern (109 bp):
AATATAAAAAATTGATATAAGATATCAAAAAACATTAATAAAACAAACTAATCATACATTTAATA
TAAACTTAAATCTAATAAAACATAATAAAAAAATATTTCCTTTC
Found at i:88419732 original size:40 final size:40
Alignment explanation
Indices: 88419667--88419763 Score: 108
Period size: 40 Copynumber: 2.5 Consensus size: 40
88419657 CCACCTCCGT
* * **
88419667 CCAACCCAACACACC--ATGTGGGGATAGAATTGACCCAC
1 CCAACCCTACACACCAAATATGGGGATAGAATCAACCCAC
* * * *
88419705 CCAGCCTTACACACCAAATATGGGGATATAATCAACCCAT
1 CCAACCCTACACACCAAATATGGGGATAGAATCAACCCAC
88419745 CCAACCCTACACACCAAAT
1 CCAACCCTACACACCAAAT
88419764 GGTACCGTAA
Statistics
Matches: 47, Mismatches: 10, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
38 12 0.26
40 35 0.74
ACGTcount: A:0.37, C:0.35, G:0.12, T:0.15
Consensus pattern (40 bp):
CCAACCCTACACACCAAATATGGGGATAGAATCAACCCAC
Found at i:88423950 original size:50 final size:50
Alignment explanation
Indices: 88423875--88424118 Score: 346
Period size: 50 Copynumber: 4.9 Consensus size: 50
88423865 GATGCTAGGA
*
88423875 AGATATGAGAGCTAGTGTAAGACCATGTCTCGGACATGGCATCGGCCTCG
1 AGATATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCG
*
88423925 AGATATGAGAGCTAGTGTAAGACCATGTCTGGGACATAGCATCGGCCTCG
1 AGATATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCG
* *
88423975 AGATATGAGAGCTAGTGTAAGACCATGTTTGGGACATGGCATCGGCATCG
1 AGATATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCG
* * * * * * *
88424025 ATAGATGAAAGCTAGTGTAAGATCATGTTTGGGACATGGCATTGGCCTTG
1 AGATATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCG
* * *
88424075 ATATACGAGAG-TCAATGTAAGACCATGTCTGGGACATGGCATCG
1 AGATATGAGAGCT-AGTGTAAGACCATGTCTGGGACATGGCATCG
88424119 ACTTTGATGT
Statistics
Matches: 174, Mismatches: 19, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
49 1 0.01
50 173 0.99
ACGTcount: A:0.28, C:0.18, G:0.30, T:0.24
Consensus pattern (50 bp):
AGATATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCG
Found at i:88424588 original size:23 final size:23
Alignment explanation
Indices: 88424558--88424604 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
88424548 TGATTATGTG
88424558 TGAGGCTTTTAGGTCGAATTAAA
1 TGAGGCTTTTAGGTCGAATTAAA
88424581 TGAGGCTTTTAGGTCGAATTAAA
1 TGAGGCTTTTAGGTCGAATTAAA
88424604 T
1 T
88424605 TGGGACATGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.30, C:0.09, G:0.26, T:0.36
Consensus pattern (23 bp):
TGAGGCTTTTAGGTCGAATTAAA
Found at i:88425019 original size:13 final size:13
Alignment explanation
Indices: 88425001--88425028 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
88424991 CCTTAATGAG
88425001 TATATTTTCAAAA
1 TATATTTTCAAAA
88425014 TATATTTTCAAAA
1 TATATTTTCAAAA
88425027 TA
1 TA
88425029 AACAAAAGGG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.46, C:0.07, G:0.00, T:0.46
Consensus pattern (13 bp):
TATATTTTCAAAA
Found at i:88429270 original size:46 final size:45
Alignment explanation
Indices: 88429210--88429475 Score: 339
Period size: 46 Copynumber: 6.0 Consensus size: 45
88429200 TTTGACATGA
* * * * * *
88429210 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTCTGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCTATCAGGT
*** *
88429256 TGCCATGGTATCTTTCAACCATGGTCTTGTTCATTTCATATCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTC-TATCAGGT
88429302 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTC-TATCAGGT
*
88429348 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCTATCAGGT
88429394 TGCCATGGTATCTTTCAACCATGGTCTT--ACA---C--TCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCTATCAGGT
88429432 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTC-TATCAG
88429476 AGAGCACACT
Statistics
Matches: 197, Mismatches: 13, Indels: 20
0.86 0.06 0.09
Matches are distributed among these distances:
38 34 0.17
40 3 0.02
43 1 0.01
44 3 0.02
45 4 0.02
46 149 0.76
47 3 0.02
ACGTcount: A:0.22, C:0.24, G:0.15, T:0.39
Consensus pattern (45 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCTATCAGGT
Found at i:88429439 original size:38 final size:38
Alignment explanation
Indices: 88429388--88429463 Score: 152
Period size: 38 Copynumber: 2.0 Consensus size: 38
88429378 ACATTTTATA
88429388 TCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACAC
1 TCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACAC
88429426 TCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACAC
1 TCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACAC
88429464 ATTTCATATC
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.21, C:0.26, G:0.18, T:0.34
Consensus pattern (38 bp):
TCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACAC
Found at i:88431629 original size:11 final size:11
Alignment explanation
Indices: 88431613--88431664 Score: 52
Period size: 11 Copynumber: 4.7 Consensus size: 11
88431603 TATACTAAAT
88431613 AAATAATAATA
1 AAATAATAATA
*
88431624 AAATAAT-ATT
1 AAATAATAATA
* *
88431634 AAATATCTCATA
1 AAATA-ATAATA
*
88431646 AAATATTAATA
1 AAATAATAATA
88431657 AAATAATA
1 AAATAATA
88431665 TTTATCTAAT
Statistics
Matches: 33, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
10 7 0.21
11 19 0.58
12 7 0.21
ACGTcount: A:0.63, C:0.04, G:0.00, T:0.33
Consensus pattern (11 bp):
AAATAATAATA
Found at i:88434564 original size:46 final size:45
Alignment explanation
Indices: 88434504--88434769 Score: 339
Period size: 46 Copynumber: 6.0 Consensus size: 45
88434494 TTTGACATGA
* * * * * *
88434504 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTCTGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCTATCAGGT
*** *
88434550 TGCCATGGTATCTTTCAACCATGGTCTTGTTCATTTCATATCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTC-TATCAGGT
88434596 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTC-TATCAGGT
*
88434642 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCTATCAGGT
88434688 TGCCATGGTATCTTTCAACCATGGTCTT--ACA---C--TCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCTATCAGGT
88434726 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTC-TATCAG
88434770 AGAGCACACT
Statistics
Matches: 197, Mismatches: 13, Indels: 20
0.86 0.06 0.09
Matches are distributed among these distances:
38 34 0.17
40 3 0.02
43 1 0.01
44 3 0.02
45 4 0.02
46 149 0.76
47 3 0.02
ACGTcount: A:0.22, C:0.24, G:0.15, T:0.39
Consensus pattern (45 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCTATCAGGT
Found at i:88434733 original size:38 final size:38
Alignment explanation
Indices: 88434682--88434757 Score: 152
Period size: 38 Copynumber: 2.0 Consensus size: 38
88434672 ACATTTTATA
88434682 TCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACAC
1 TCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACAC
88434720 TCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACAC
1 TCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACAC
88434758 ATTTCATATC
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.21, C:0.26, G:0.18, T:0.34
Consensus pattern (38 bp):
TCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACAC
Found at i:88436923 original size:11 final size:11
Alignment explanation
Indices: 88436907--88436958 Score: 52
Period size: 11 Copynumber: 4.7 Consensus size: 11
88436897 TATACTAAAT
88436907 AAATAATAATA
1 AAATAATAATA
*
88436918 AAATAAT-ATT
1 AAATAATAATA
* *
88436928 AAATATCTCATA
1 AAATA-ATAATA
*
88436940 AAATATTAATA
1 AAATAATAATA
88436951 AAATAATA
1 AAATAATA
88436959 TTTATCTAAT
Statistics
Matches: 33, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
10 7 0.21
11 19 0.58
12 7 0.21
ACGTcount: A:0.63, C:0.04, G:0.00, T:0.33
Consensus pattern (11 bp):
AAATAATAATA
Found at i:88442642 original size:29 final size:29
Alignment explanation
Indices: 88442609--88442798 Score: 265
Period size: 29 Copynumber: 6.6 Consensus size: 29
88442599 GTGACGAGAT
88442609 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
88442638 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
88442667 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
*
88442696 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* * ***
88442725 TGGCACTAAGTGTGCGAGCTCGAAGGGTA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* * * **
88442754 TGGCACTATGTGTGCGGGCT-TAAATCGCA
1 TGGCACTAAGTGTGCGTGCTGGAAAT-ATA
88442783 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
88442799 AAATCGAGTA
Statistics
Matches: 146, Mismatches: 14, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
28 2 0.01
29 144 0.99
ACGTcount: A:0.26, C:0.16, G:0.32, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATATA
Found at i:88444594 original size:27 final size:28
Alignment explanation
Indices: 88444564--88444663 Score: 121
Period size: 27 Copynumber: 3.5 Consensus size: 28
88444554 ATAGTGAGTC
88444564 CGCACACTTAGTGCTATAAAATC-AACT
1 CGCACACTTAGTGCTATAAAATCAAACT
* *
88444591 CGCACACCTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATAAAATCAAACT
* * *
88444619 CGCACACTTAGTGCTGTACAAATTTAAAACC
1 CGCACACTTAGTGCTATA-AAA--TCAAACT
88444650 CGCACACTTAGTGC
1 CGCACACTTAGTGC
88444664 AATCTCATGA
Statistics
Matches: 62, Mismatches: 7, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
27 21 0.34
28 20 0.32
29 2 0.03
31 19 0.31
ACGTcount: A:0.34, C:0.28, G:0.13, T:0.25
Consensus pattern (28 bp):
CGCACACTTAGTGCTATAAAATCAAACT
Found at i:88447922 original size:26 final size:26
Alignment explanation
Indices: 88447891--88447998 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
88447881 TGAAATGCCC
*
88447891 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
88447917 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
88447943 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
88447969 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
88447995 ATCA
1 ATCA
88447999 ATTTGTATCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.36, C:0.24, G:0.07, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:88457897 original size:16 final size:15
Alignment explanation
Indices: 88457860--88457890 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
88457850 ATTTAATTTA
*
88457860 ACTTAAATAAAAAAT
1 ACTTTAATAAAAAAT
88457875 ACTTTAATAAAAAAT
1 ACTTTAATAAAAAAT
88457890 A
1 A
88457891 TTTTTAAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.65, C:0.06, G:0.00, T:0.29
Consensus pattern (15 bp):
ACTTTAATAAAAAAT
Found at i:88459330 original size:24 final size:23
Alignment explanation
Indices: 88459303--88459350 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 23
88459293 AACAGAACAA
*
88459303 TCAAATATCAAAAATCATCTCATT
1 TCAAAAATCAAAAATCAT-TCATT
* *
88459327 TCAAAAATCATAGATCATTCATT
1 TCAAAAATCAAAAATCATTCATT
88459350 T
1 T
88459351 TCAATACAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
23 6 0.29
24 15 0.71
ACGTcount: A:0.44, C:0.19, G:0.02, T:0.35
Consensus pattern (23 bp):
TCAAAAATCAAAAATCATTCATT
Found at i:88462762 original size:40 final size:40
Alignment explanation
Indices: 88462717--88462884 Score: 162
Period size: 40 Copynumber: 4.2 Consensus size: 40
88462707 CGGAATATAA
*
88462717 CCGGATATAAGCA-TGTGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAAGCACT-AGCACAAATGCCTTCGGGTCTTAGC
* * *
88462757 CCGGATAGAATG-ACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAA-GCACTAGCACAAATGCCTTCGGGTCTTAGC
* *
88462797 CCGGATAT-AGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAAG-CACTAGCACAAATGCCTTCGGGTCTTAGC
*** * * * * *
88462837 CCGGATATAATTTCCAGCATAATTGTCTTCGGGGCTTAGC
1 CCGGATATAAGCACTAGCACAAATGCCTTCGGGTCTTAGC
88462877 CCGGATAT
1 CCGGATAT
88462885 CGTTCAATTT
Statistics
Matches: 107, Mismatches: 16, Indels: 10
0.80 0.12 0.08
Matches are distributed among these distances:
38 1 0.01
39 1 0.01
40 102 0.95
41 3 0.03
ACGTcount: A:0.24, C:0.26, G:0.24, T:0.26
Consensus pattern (40 bp):
CCGGATATAAGCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:88462867 original size:80 final size:80
Alignment explanation
Indices: 88462733--88462884 Score: 200
Period size: 80 Copynumber: 1.9 Consensus size: 80
88462723 ATAAGCATGT
* *
88462733 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTCGCACGAATGCCTTCGGGGCTTAGCC
88462798 CGGATATAGCCACTA
66 CGGATATAGCCACTA
* * ** * *
88462813 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGGCTTAG
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTC-GCACGAA-TGCCTTCGGGGCTTAG
88462876 CCCGGATAT
64 CCCGGATAT
88462885 CGTTCAATTT
Statistics
Matches: 62, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
79 3 0.05
80 59 0.95
ACGTcount: A:0.23, C:0.27, G:0.24, T:0.26
Consensus pattern (80 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTCGCACGAATGCCTTCGGGGCTTAGCC
CGGATATAGCCACTA
Found at i:88480503 original size:24 final size:24
Alignment explanation
Indices: 88480471--88480519 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
88480461 GGTGAGAAAT
88480471 GTCACATTTATTCTAATCACAAAA
1 GTCACATTTATTCTAATCACAAAA
88480495 GTCACATTTATTCTAATCACAAAA
1 GTCACATTTATTCTAATCACAAAA
88480519 G
1 G
88480520 CTTAAAATAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.41, C:0.20, G:0.06, T:0.33
Consensus pattern (24 bp):
GTCACATTTATTCTAATCACAAAA
Found at i:88482457 original size:23 final size:23
Alignment explanation
Indices: 88482415--88482544 Score: 199
Period size: 23 Copynumber: 5.7 Consensus size: 23
88482405 GCAAGTTCCT
*
88482415 TCGAGCTG-AATAGTAAGCTCTA
1 TCGAGCTGAAACAGTAAGCTCTA
*
88482437 TCGAGCTGAAACGGTAAGCTCTA
1 TCGAGCTGAAACAGTAAGCTCTA
*
88482460 TCAAGCTGAAACAGTAAGCTCTA
1 TCGAGCTGAAACAGTAAGCTCTA
*
88482483 TCGAGCTGAAACGGTAAGCTCTA
1 TCGAGCTGAAACAGTAAGCTCTA
88482506 TCGAGCTGAAACAGTAAGCTCTA
1 TCGAGCTGAAACAGTAAGCTCTA
* *
88482529 TTGAGCTAAAACAGTA
1 TCGAGCTGAAACAGTA
88482545 CGCTTTTACG
Statistics
Matches: 98, Mismatches: 9, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
22 8 0.08
23 90 0.92
ACGTcount: A:0.35, C:0.20, G:0.22, T:0.23
Consensus pattern (23 bp):
TCGAGCTGAAACAGTAAGCTCTA
Found at i:88485157 original size:26 final size:26
Alignment explanation
Indices: 88485126--88485177 Score: 95
Period size: 26 Copynumber: 2.0 Consensus size: 26
88485116 TCGGTACACA
*
88485126 AATCCTATTTCGGAGCATTAAACAAT
1 AATCCTATTTCAGAGCATTAAACAAT
88485152 AATCCTATTTCAGAGCATTAAACAAT
1 AATCCTATTTCAGAGCATTAAACAAT
88485178 CATCAATTCC
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.40, C:0.19, G:0.10, T:0.31
Consensus pattern (26 bp):
AATCCTATTTCAGAGCATTAAACAAT
Found at i:88487752 original size:40 final size:40
Alignment explanation
Indices: 88487653--88487847 Score: 153
Period size: 40 Copynumber: 4.8 Consensus size: 40
88487643 TTCGAATGGT
* * * * *
88487653 ATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACTAA
1 ATCCGGACTAAGTCCCGAAGGCATTTGTGC-GAGTTACCAA
* * *
88487694 ATCCGG-GTCAATTCCCGAAGGCATTTGTGCGAGTTACTAA
1 ATCCGGACT-AAGTCCCGAAGGCATTTGTGCGAGTTACCAA
* * *
88487734 ATCCGGACTAAGAT-CCGAAGGCCTTGGTGCGAGTTCCCAA
1 ATCCGGACTAAG-TCCCGAAGGCATTTGTGCGAGTTACCAA
** * **
88487774 ATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGCTATTATA
1 ATCCGGACTAAGTCCCGAAGGCATTTGTGCGAGTTACCA-A
* * * *
88487815 A-CCGGGCTATGTCCCGAAGGCTTTTGAGCGAGT
1 ATCCGGACTAAGTCCCGAAGGCATTTGTGCGAGT
88487848 CGCTATATCC
Statistics
Matches: 125, Mismatches: 24, Indels: 11
0.78 0.15 0.07
Matches are distributed among these distances:
39 1 0.01
40 95 0.76
41 29 0.23
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.26
Consensus pattern (40 bp):
ATCCGGACTAAGTCCCGAAGGCATTTGTGCGAGTTACCAA
Found at i:88487846 original size:80 final size:80
Alignment explanation
Indices: 88487653--88487847 Score: 232
Period size: 80 Copynumber: 2.4 Consensus size: 80
88487643 TTCGAATGGT
* * *
88487653 ATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACTAAATCCGGGTCAATTCCCGAAGGCAT
1 ATCCGGGCTAAGTCCCGAAGGCTTTTGTGC-GAGTGACCAAATCCGGGTCAAGTCCCGAAGGCAT
*
88487718 TTGTGCGAGTTACTAA
65 TTGTGCGAGCTACTAA
* * * ** *
88487734 ATCCGGACTAAGAT-CCGAAGGCCTTGGTGCGAGTTCCCAAATCCGGGTTAAGTCCCGAAGGCAT
1 ATCCGGGCTAAG-TCCCGAAGGCTTTTGTGCGAGTGACCAAATCCGGGTCAAGTCCCGAAGGCAT
*
88487798 TTGTGCGAGCTATTATA
65 TTGTGCGAGCTACTA-A
* *
88487815 A-CCGGGCTATGTCCCGAAGGCTTTTGAGCGAGT
1 ATCCGGGCTAAGTCCCGAAGGCTTTTGTGCGAGT
88487848 CGCTATATCC
Statistics
Matches: 95, Mismatches: 16, Indels: 7
0.81 0.14 0.06
Matches are distributed among these distances:
79 1 0.01
80 66 0.69
81 27 0.28
82 1 0.01
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.26
Consensus pattern (80 bp):
ATCCGGGCTAAGTCCCGAAGGCTTTTGTGCGAGTGACCAAATCCGGGTCAAGTCCCGAAGGCATT
TGTGCGAGCTACTAA
Found at i:88495807 original size:13 final size:13
Alignment explanation
Indices: 88495789--88495813 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
88495779 TAAATTATAT
88495789 GTGTGAAAATTTC
1 GTGTGAAAATTTC
88495802 GTGTGAAAATTT
1 GTGTGAAAATTT
88495814 TAGCGTTTTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.04, G:0.24, T:0.40
Consensus pattern (13 bp):
GTGTGAAAATTTC
Found at i:88501876 original size:35 final size:35
Alignment explanation
Indices: 88501770--88501876 Score: 124
Period size: 35 Copynumber: 3.1 Consensus size: 35
88501760 CACATAGGTA
* *
88501770 ATTACATGTAAGCTTATATTGAACTTGTATATTCG
1 ATTACATGTGAGCTTATATTGAATTTGTATATTCG
** * * * *
88501805 GCTGCATGTGAGGTTATGTTGAATTTGAATATTCG
1 ATTACATGTGAGCTTATATTGAATTTGTATATTCG
* *
88501840 ATTACATGTGAGTTTATATTGAATTTGTGTATTCG
1 ATTACATGTGAGCTTATATTGAATTTGTATATTCG
88501875 AT
1 AT
88501877 CATATGTAAG
Statistics
Matches: 57, Mismatches: 15, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
35 57 1.00
ACGTcount: A:0.27, C:0.08, G:0.21, T:0.44
Consensus pattern (35 bp):
ATTACATGTGAGCTTATATTGAATTTGTATATTCG
Found at i:88501897 original size:35 final size:35
Alignment explanation
Indices: 88501773--88501904 Score: 106
Period size: 35 Copynumber: 3.7 Consensus size: 35
88501763 ATAGGTAATT
* * * *
88501773 ACATGTAAGCTTATATTGAACTTGTATATTCG-GC
1 ACATGTAAGGTTATATTGAATTTGTGTATTCGATC
* * * ** *
88501807 TGCATGTGAGGTTATGTTGAATTTGAATATTCGATT
1 -ACATGTAAGGTTATATTGAATTTGTGTATTCGATC
* *
88501843 ACATGTGAGTTTATATTGAATTTGTGTATTCGATC
1 ACATGTAAGGTTATATTGAATTTGTGTATTCGATC
*
88501878 ATATGTAAGGTTA-ACTTGAATGTTGTG
1 ACATGTAAGGTTATA-TTGAAT-TTGTG
88501905 ACAACCCGAA
Statistics
Matches: 77, Mismatches: 17, Indels: 5
0.78 0.17 0.05
Matches are distributed among these distances:
34 1 0.01
35 71 0.92
36 5 0.06
ACGTcount: A:0.27, C:0.08, G:0.22, T:0.42
Consensus pattern (35 bp):
ACATGTAAGGTTATATTGAATTTGTGTATTCGATC
Found at i:88503492 original size:2 final size:2
Alignment explanation
Indices: 88503485--88503519 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
88503475 GGTGAAAATG
88503485 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 A
88503520 AGTTAAAATG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:88511003 original size:2 final size:2
Alignment explanation
Indices: 88510996--88511022 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
88510986 ATGATTTGTG
88510996 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 A
88511023 AGTTAAAATG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:88512160 original size:22 final size:22
Alignment explanation
Indices: 88512135--88512178 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
88512125 CTATATGTGA
88512135 TGTTCTATTGAATTTGAACTAT
1 TGTTCTATTGAATTTGAACTAT
88512157 TGTTCTATTGAATTTGAACTAT
1 TGTTCTATTGAATTTGAACTAT
88512179 AGGTTACATA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.27, C:0.09, G:0.14, T:0.50
Consensus pattern (22 bp):
TGTTCTATTGAATTTGAACTAT
Found at i:88515890 original size:46 final size:46
Alignment explanation
Indices: 88515738--88515955 Score: 185
Period size: 46 Copynumber: 4.7 Consensus size: 46
88515728 TTATTTCTAT
* * *
88515738 GCCAATGTAAGACATGTCTGGGACATGCATCGGCCAC-ATTATGAGA
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGA-GATGAGA
** * * * * *
88515784 GCCAGTGTAAGACCATACCTGAGACATGGCATTGGCATTGAGACGAGA
1 GCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCTCGAGATGAGA
* *
88515832 GCTAGTGTAAGACATGTCTGGGACACGCATCGGCCTCGAGATGTA-A
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATG-AGA
* * *
88515878 GCCAGTGTAAGACATGTCTGGGACGTGCATCGG-CTATGAGAT--GT
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCT-CGAGATGAGA
* *
88515922 GTCAGTGTAAGATGATGTCTGGGACATGGCATCG
1 GCCAGTGTAAGA-CATGTCTGGGACAT-GCATCG
88515956 ACACGGATAT
Statistics
Matches: 137, Mismatches: 27, Indels: 16
0.76 0.15 0.09
Matches are distributed among these distances:
44 11 0.08
45 14 0.10
46 66 0.48
47 22 0.16
48 23 0.17
49 1 0.01
ACGTcount: A:0.27, C:0.20, G:0.31, T:0.22
Consensus pattern (46 bp):
GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATGAGA
Found at i:88515990 original size:50 final size:47
Alignment explanation
Indices: 88515743--88515998 Score: 181
Period size: 46 Copynumber: 5.4 Consensus size: 47
88515733 TCTATGCCAA
* *
88515743 TGTAAGACATGTCTGGGACATGCATCGGC-CAC-ATTATG-AGAGCCAG
1 TGTAAGACATGTCTGGGACATGCATCGGCAC-CGA-GATGTAGAGCTAG
** * * ** *
88515789 TGTAAGACCATACCTGAGACATGGCATTGGCATTGAGACG-AGAGCTAG
1 TGTAAGA-CATGTCTGGGACAT-GCATCGGCACCGAGATGTAGAGCTAG
* *
88515837 TGTAAGACATGTCTGGGACACGCATCGGC-CTCGAGATGTA-AGCCAG
1 TGTAAGACATGTCTGGGACATGCATCGGCAC-CGAGATGTAGAGCTAG
* * *
88515883 TGTAAGACATGTCTGGGACGTGCATCGGCTA-TGAGATGT-G-TC-AG
1 TGTAAGACATGTCTGGGACATGCATCGGC-ACCGAGATGTAGAGCTAG
* * * *
88515927 TGTAAGATGATGTCTGGGACATGGCATCGACACGGATATGTAAGAGCTAG
1 TGTAAGA-CATGTCTGGGACAT-GCATCGGCACCGAGATGT-AGAGCTAG
*
88515977 TGTAAGACCATGTCTGAGACAT
1 TGTAAGA-CATGTCTGGGACAT
88515999 CTCATCGATA
Statistics
Matches: 163, Mismatches: 31, Indels: 28
0.73 0.14 0.13
Matches are distributed among these distances:
44 9 0.06
45 14 0.09
46 71 0.44
47 22 0.13
48 24 0.15
49 2 0.01
50 21 0.13
ACGTcount: A:0.28, C:0.19, G:0.30, T:0.23
Consensus pattern (47 bp):
TGTAAGACATGTCTGGGACATGCATCGGCACCGAGATGTAGAGCTAG
Found at i:88518952 original size:12 final size:12
Alignment explanation
Indices: 88518935--88518978 Score: 63
Period size: 12 Copynumber: 3.7 Consensus size: 12
88518925 CGTATAAGTA
88518935 CATCATTCAACT
1 CATCATTCAACT
*
88518947 CATCATTC-CCT
1 CATCATTCAACT
88518958 ACATCATTCAACT
1 -CATCATTCAACT
88518971 CATCATTC
1 CATCATTC
88518979 CCTTTTTATC
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
11 2 0.07
12 24 0.86
13 2 0.07
ACGTcount: A:0.30, C:0.36, G:0.00, T:0.34
Consensus pattern (12 bp):
CATCATTCAACT
Found at i:88518965 original size:24 final size:24
Alignment explanation
Indices: 88518933--88518981 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
88518923 CACGTATAAG
88518933 TACATCATTCAACTCATCATTCCC
1 TACATCATTCAACTCATCATTCCC
88518957 TACATCATTCAACTCATCATTCCC
1 TACATCATTCAACTCATCATTCCC
88518981 T
1 T
88518982 TTTTATCATA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.29, C:0.37, G:0.00, T:0.35
Consensus pattern (24 bp):
TACATCATTCAACTCATCATTCCC
Done.