Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: chr3
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: 36364294
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 2168405 characters in sequence are not A, C, G, or T
File 68 of 91
Found at i:24490816 original size:21 final size:21
Alignment explanation
Indices: 24490785--24490840 Score: 67
Period size: 21 Copynumber: 2.7 Consensus size: 21
24490775 TGTTTTTGTA
*
24490785 CATGACGTGTAACAACCTAAC
1 CATGAAGTGTAACAACCTAAC
* * *
24490806 CATGAATTGTAACAACTTAAT
1 CATGAAGTGTAACAACCTAAC
*
24490827 CATGACGTGTAACA
1 CATGAAGTGTAACA
24490841 TGTTTTCGTA
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.39, C:0.21, G:0.14, T:0.25
Consensus pattern (21 bp):
CATGAAGTGTAACAACCTAAC
Found at i:24491315 original size:81 final size:81
Alignment explanation
Indices: 24491180--24491342 Score: 308
Period size: 81 Copynumber: 2.0 Consensus size: 81
24491170 CCACGACACA
24491180 ACCTGCAACCACCACAACCTTAGACCCCCAATAAACCTTAACAAACCAAAGAAAATCAGTCACCA
1 ACCTGCAACCACCACAACCTTAGACCCCCAATAAACCTTAACAAACCAAAGAAAATCAGTCACCA
24491245 TATCTGATATCACCCC
66 TATCTGATATCACCCC
* *
24491261 ACCTGCAACCGCCACAACCTTAGACCCCCAATAAACCTTAACAAACCAAAGAAAATCAGTCACTA
1 ACCTGCAACCACCACAACCTTAGACCCCCAATAAACCTTAACAAACCAAAGAAAATCAGTCACCA
24491326 TATCTGATATCACCCC
66 TATCTGATATCACCCC
24491342 A
1 A
24491343 TTATCTCACT
Statistics
Matches: 80, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
81 80 1.00
ACGTcount: A:0.40, C:0.36, G:0.07, T:0.17
Consensus pattern (81 bp):
ACCTGCAACCACCACAACCTTAGACCCCCAATAAACCTTAACAAACCAAAGAAAATCAGTCACCA
TATCTGATATCACCCC
Found at i:24492131 original size:31 final size:31
Alignment explanation
Indices: 24492093--24492295 Score: 237
Period size: 31 Copynumber: 6.5 Consensus size: 31
24492083 GTTAACCCAT
* *
24492093 AATGTTGTAACACGCCCTGCATATAACGTAC
1 AATGTTGTAACACGCCATGCATATAACGTAA
*
24492124 AATGTTGTAACATGCCATGCATATAACGTAA
1 AATGTTGTAACACGCCATGCATATAACGTAA
* * *
24492155 AATGTTGTAACACACTATACATATAACGTAA
1 AATGTTGTAACACGCCATGCATATAACGTAA
* * * **
24492186 AATTTTGTAACACTCCGTGTGTATAACGTAA
1 AATGTTGTAACACGCCATGCATATAACGTAA
* *
24492217 AATGTTGTAACACGTCATGCATATAATGTAA
1 AATGTTGTAACACGCCATGCATATAACGTAA
* * *
24492248 AATGTTGTAACACGCCATGCGTATCAA-ATCA
1 AATGTTGTAACACGCCATGCATAT-AACGTAA
*
24492279 AATGTTGTTACACGCCA
1 AATGTTGTAACACGCCA
24492296 ACGCTGACAC
Statistics
Matches: 145, Mismatches: 26, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
31 143 0.99
32 2 0.01
ACGTcount: A:0.36, C:0.19, G:0.15, T:0.30
Consensus pattern (31 bp):
AATGTTGTAACACGCCATGCATATAACGTAA
Found at i:24493036 original size:23 final size:23
Alignment explanation
Indices: 24493006--24493133 Score: 103
Period size: 23 Copynumber: 5.5 Consensus size: 23
24492996 TGAATGCTGA
*
24493006 CGTGTCACAGATTCCCTCCATGG
1 CGTGTCACAAATTCCCTCCATGG
* *** * *
24493029 CGTGTCACAAACTCTGAACCTTGC
1 CGTGTCACAAATTC-CCTCCATGG
24493053 CGTGTCACAAATTCCCTCCATGG
1 CGTGTCACAAATTCCCTCCATGG
* ****
24493076 CATGTCACAAATTCTGAACATTGG
1 CGTGTCACAAATTCCCTCCA-TGG
* *
24493100 TGTGTCACAGATTCCCTCCATGG
1 CGTGTCACAAATTCCCTCCATGG
*
24493123 GGTGTCACAAA
1 CGTGTCACAAA
24493134 CTTTGAACCC
Statistics
Matches: 76, Mismatches: 27, Indels: 4
0.71 0.25 0.04
Matches are distributed among these distances:
23 43 0.57
24 33 0.43
ACGTcount: A:0.24, C:0.30, G:0.20, T:0.27
Consensus pattern (23 bp):
CGTGTCACAAATTCCCTCCATGG
Found at i:24493039 original size:47 final size:47
Alignment explanation
Indices: 24492974--24493187 Score: 241
Period size: 47 Copynumber: 4.6 Consensus size: 47
24492964 TGTCATAGAT
* * * **
24492974 CTCCATGGAGTCTGACAAACTCTGAATGCTGACGTGTCACAGATTCC
1 CTCCATGGCGTGTCACAAACTCTGAACCCTGACGTGTCACAGATTCC
* * *
24493021 CTCCATGGCGTGTCACAAACTCTGAACCTTGCCGTGTCACAAATTCC
1 CTCCATGGCGTGTCACAAACTCTGAACCCTGACGTGTCACAGATTCC
* * ** **
24493068 CTCCATGGCATGTCACAAATTCTGAACATTGGTGTGTCACAGATTCC
1 CTCCATGGCGTGTCACAAACTCTGAACCCTGACGTGTCACAGATTCC
* *
24493115 CTCCATGGGGTGTCACAAACTTTGAACCCT-ACTGTGTCACAGATTCC
1 CTCCATGGCGTGTCACAAACTCTGAACCCTGAC-GTGTCACAGATTCC
* * *
24493162 CTTCATGGCGTGTCATAAGCTCTGAA
1 CTCCATGGCGTGTCACAAACTCTGAA
24493188 TGCTAGCATG
Statistics
Matches: 139, Mismatches: 27, Indels: 2
0.83 0.16 0.01
Matches are distributed among these distances:
47 139 1.00
ACGTcount: A:0.24, C:0.29, G:0.20, T:0.28
Consensus pattern (47 bp):
CTCCATGGCGTGTCACAAACTCTGAACCCTGACGTGTCACAGATTCC
Found at i:24493200 original size:47 final size:47
Alignment explanation
Indices: 24492948--24493202 Score: 225
Period size: 47 Copynumber: 5.5 Consensus size: 47
24492938 CATGTCATAC
* * * * * *
24492948 ACTCTAAACCCTATCGTGTCATAGA-T--CTCCATGGAGTCTGACAA
1 ACTCTGAACCCTAGCGTGTCACAGATTCCCTCCATGGCGTGTCACAA
**
24492992 ACTCTGAATGCT-GACGTGTCACAGATTCCCTCCATGGCGTGTCACAA
1 ACTCTGAACCCTAG-CGTGTCACAGATTCCCTCCATGGCGTGTCACAA
* * *
24493039 ACTCTGAA-CCTTGCCGTGTCACAAATTCCCTCCATGGCATGTCACAA
1 ACTCTGAACCCTAG-CGTGTCACAGATTCCCTCCATGGCGTGTCACAA
* ** * * *
24493086 ATTCTGAACATTGGTGTGTCACAGATTCCCTCCATGGGGTGTCACAA
1 ACTCTGAACCCTAGCGTGTCACAGATTCCCTCCATGGCGTGTCACAA
* * *
24493133 ACTTTGAACCCTA-CTGTGTCACAGATTCCCTTCATGGCGTGTCATAA
1 ACTCTGAACCCTAGC-GTGTCACAGATTCCCTCCATGGCGTGTCACAA
* ** *
24493180 GCTCTGAATGCTAGCATGTCACA
1 ACTCTGAACCCTAGCGTGTCACA
24493203 AACTCTGAAT
Statistics
Matches: 169, Mismatches: 34, Indels: 13
0.78 0.16 0.06
Matches are distributed among these distances:
44 19 0.11
45 1 0.01
46 2 0.01
47 144 0.85
48 3 0.02
ACGTcount: A:0.25, C:0.28, G:0.19, T:0.28
Consensus pattern (47 bp):
ACTCTGAACCCTAGCGTGTCACAGATTCCCTCCATGGCGTGTCACAA
Found at i:24493206 original size:71 final size:71
Alignment explanation
Indices: 24493125--24493258 Score: 180
Period size: 71 Copynumber: 1.9 Consensus size: 71
24493115 CTCCATGGGG
* * * * *
24493125 TGTCACAAACTTTGAACCCT-ACTGTGTCACAGATTCCCTTCATGGCGTGTCATAAGCTCTGAAT
1 TGTCACAAACTCTGAACCCTGAC-GTGTCACAGATTCCCTCCATGGCATGTCACAAACTCTGAAT
24493189 GCTAGCA
65 GCTAGCA
** *
24493196 TGTCACAAACTCTGAATGCTGGCGTGTCACAGATTCCCTCCATGGCATGTCACAAACTCTGAA
1 TGTCACAAACTCTGAACCCTGACGTGTCACAGATTCCCTCCATGGCATGTCACAAACTCTGAA
24493259 CCCTACCGCG
Statistics
Matches: 54, Mismatches: 8, Indels: 2
0.84 0.12 0.03
Matches are distributed among these distances:
71 53 0.98
72 1 0.02
ACGTcount: A:0.26, C:0.28, G:0.19, T:0.28
Consensus pattern (71 bp):
TGTCACAAACTCTGAACCCTGACGTGTCACAGATTCCCTCCATGGCATGTCACAAACTCTGAATG
CTAGCA
Found at i:24493208 original size:24 final size:24
Alignment explanation
Indices: 24493172--24493226 Score: 74
Period size: 24 Copynumber: 2.3 Consensus size: 24
24493162 CTTCATGGCG
* *
24493172 TGTCATAAGCTCTGAATGCTAGCA
1 TGTCACAAACTCTGAATGCTAGCA
* *
24493196 TGTCACAAACTCTGAATGCTGGCG
1 TGTCACAAACTCTGAATGCTAGCA
24493220 TGTCACA
1 TGTCACA
24493227 GATTCCCTCC
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.27, C:0.24, G:0.22, T:0.27
Consensus pattern (24 bp):
TGTCACAAACTCTGAATGCTAGCA
Found at i:24493225 original size:118 final size:118
Alignment explanation
Indices: 24493075--24493305 Score: 327
Period size: 118 Copynumber: 2.0 Consensus size: 118
24493065 TCCCTCCATG
* * * ** *
24493075 GCATGTCACAAATTCTGAACATTGGTGTGTCACAGATTCCCTCCATGGGGTGTCACAAACTTTGA
1 GCATGTCACAAACTCTGAACACTGGCGTGTCACAGATTCCCTCCATGGCATGTCACAAACTCTGA
* * * * *
24493140 ACCCTACTGTGTCACAGATTCCCTTCATGGCGTGTCATAAGCTCTGAATGCTA
66 ACCCTACCGCGTCACAGATTCCCTCCATGGCGTGTCACAAACTCTGAATGCTA
**
24493193 GCATGTCACAAACTCTGAATGCTGGCGTGTCACAGATTCCCTCCATGGCATGTCACAAACTCTGA
1 GCATGTCACAAACTCTGAACACTGGCGTGTCACAGATTCCCTCCATGGCATGTCACAAACTCTGA
**
24493258 ACCCTACCGCGTCACAGATTTTCTCCATGGCGTGTCACAAACTCTGAA
66 ACCCTACCGCGTCACAGATTCCCTCCATGGCGTGTCACAAACTCTGAA
24493306 CACTGGTGTG
Statistics
Matches: 98, Mismatches: 15, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
118 98 1.00
ACGTcount: A:0.25, C:0.28, G:0.19, T:0.27
Consensus pattern (118 bp):
GCATGTCACAAACTCTGAACACTGGCGTGTCACAGATTCCCTCCATGGCATGTCACAAACTCTGA
ACCCTACCGCGTCACAGATTCCCTCCATGGCGTGTCACAAACTCTGAATGCTA
Found at i:24493244 original size:47 final size:47
Alignment explanation
Indices: 24493193--24493332 Score: 172
Period size: 47 Copynumber: 3.0 Consensus size: 47
24493183 CTGAATGCTA
**
24493193 GCATGTCACAAACTCTGAATGCTGGCGTGTCACAGATTCCCTCCATG
1 GCATGTCACAAACTCTGAACACTGGCGTGTCACAGATTCCCTCCATG
* ** * **
24493240 GCATGTCACAAACTCTGAACCCTACCGCGTCACAGATTTTCTCCATG
1 GCATGTCACAAACTCTGAACACTGGCGTGTCACAGATTCCCTCCATG
* * * *
24493287 GCGTGTCACAAACTCTGAACACTGGTGTGTCATAGATTCCTTCCAT
1 GCATGTCACAAACTCTGAACACTGGCGTGTCACAGATTCCCTCCAT
24493333 ACCGTGTCAC
Statistics
Matches: 76, Mismatches: 17, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
47 76 1.00
ACGTcount: A:0.24, C:0.30, G:0.19, T:0.27
Consensus pattern (47 bp):
GCATGTCACAAACTCTGAACACTGGCGTGTCACAGATTCCCTCCATG
Found at i:24493318 original size:118 final size:118
Alignment explanation
Indices: 24493075--24493422 Score: 322
Period size: 118 Copynumber: 3.0 Consensus size: 118
24493065 TCCCTCCATG
* * * ** *
24493075 GCATGTCACAAATTCTGAACATTGGTGTGTCACAGATTCCCTCCATGGGGTGTCACAAACTTTGA
1 GCATGTCACAAACTCTGAACACTGGCGTGTCACAGATTCCCTCCATGGCATGTCACAAACTCTGA
* * * * * **
24493140 ACCCTACTGTGTCACAGATTCCCTTCATGGCGTGTCATAAGCTCTGAATGCTA
66 ACCCTACCGCGTCACAGATTCCCTCCATGGCGTGTCACAAACTCTGAACACTA
**
24493193 GCATGTCACAAACTCTGAATGCTGGCGTGTCACAGATTCCCTCCATGGCATGTCACAAACTCTGA
1 GCATGTCACAAACTCTGAACACTGGCGTGTCACAGATTCCCTCCATGGCATGTCACAAACTCTGA
** *
24493258 ACCCTACCGCGTCACAGATTTTCTCCATGGCGTGTCACAAACTCTGAACACTG
66 ACCCTACCGCGTCACAGATTCCCTCCATGGCGTGTCACAAACTCTGAACACTA
** * * * ** ** * * *
24493311 GTGTGTCATAGATTCCT-TCCA-TACCGTGTCACAGATTCCTTCCATGACGTGTCACAAACTCTG
1 GCATGTCACAAACT-CTGAACACTGGCGTGTCACAGATTCCCTCCATGGCATGTCACAAACTCTG
* *** * * * * *
24493374 AACGCTGGAGTGTCATAGATTCCCTCCATGCCATGTCACAAACTTTGAA
65 AACCCTACCGCGTCACAGATTCCCTCCATGGCGTGTCACAAACTCTGAA
24493423 TGTTGCTATG
Statistics
Matches: 186, Mismatches: 43, Indels: 3
0.80 0.19 0.01
Matches are distributed among these distances:
117 75 0.40
118 109 0.59
119 2 0.01
ACGTcount: A:0.25, C:0.28, G:0.19, T:0.28
Consensus pattern (118 bp):
GCATGTCACAAACTCTGAACACTGGCGTGTCACAGATTCCCTCCATGGCATGTCACAAACTCTGA
ACCCTACCGCGTCACAGATTCCCTCCATGGCGTGTCACAAACTCTGAACACTA
Found at i:24493318 original size:165 final size:163
Alignment explanation
Indices: 24493031--24493422 Score: 423
Period size: 165 Copynumber: 2.4 Consensus size: 163
24493021 CTCCATGGCG
* * * *
24493031 TGTCACAAACTCTGAACCTTGCCGTGTCACAAATTCCCTCCATGGCATGTCACAAATTCTGAACA
1 TGTCACAAACTCTGAAGC-TGGCGTGTCACAGATTCCCTCCATGGCATGTCACAAACTCTGAACA
* *** * * * *
24493096 TTGGTGTGTCACAGATTCCCTCCATGGGGTGTCACAAACTTTGAACCCTACTGTGTCACAGATTC
65 CTACCGCGTCACAGATTCCCTCCATGGCGTGTCACAAACTCTGAACACTACTGTGTCACAGATT-
** *
24493161 CCTT-CATGGCGTGTCATAAG-CT-C-TGAATGCTAGCA
129 CCTTCCATACCGTGTCA-AAGACTCCTTCAATG--A-CA
*
24493196 TGTCACAAACTCTGAATGCTGGCGTGTCACAGATTCCCTCCATGGCATGTCACAAACTCTGAACC
1 TGTCACAAACTCTGAA-GCTGGCGTGTCACAGATTCCCTCCATGGCATGTCACAAACTCTGAACA
** ** *
24493261 CTACCGCGTCACAGATTTTCTCCATGGCGTGTCACAAACTCTGAACACTGGTGTGTCATAGATTC
65 CTACCGCGTCACAGATTCCCTCCATGGCGTGTCACAAACTCTGAACACTACTGTGTCACAGATTC
* * * *
24493326 CTTCCATACCGTGTCACAGATTCCTTCCATGACG
130 CTTCCATACCGTGTCAAAGACTCCTTCAATGACA
* * * *
24493360 TGTCACAAACTCTGAACGCTGGAGTGTCATAGATTCCCTCCATGCCATGTCACAAACTTTGAA
1 TGTCACAAACTCTGAA-GCTGGCGTGTCACAGATTCCCTCCATGGCATGTCACAAACTCTGAA
24493423 TGTTGCTATG
Statistics
Matches: 192, Mismatches: 30, Indels: 11
0.82 0.13 0.05
Matches are distributed among these distances:
164 65 0.34
165 121 0.63
166 2 0.01
167 4 0.02
ACGTcount: A:0.25, C:0.29, G:0.18, T:0.28
Consensus pattern (163 bp):
TGTCACAAACTCTGAAGCTGGCGTGTCACAGATTCCCTCCATGGCATGTCACAAACTCTGAACAC
TACCGCGTCACAGATTCCCTCCATGGCGTGTCACAAACTCTGAACACTACTGTGTCACAGATTCC
TTCCATACCGTGTCAAAGACTCCTTCAATGACA
Found at i:24493341 original size:23 final size:23
Alignment explanation
Indices: 24493313--24493366 Score: 83
Period size: 23 Copynumber: 2.3 Consensus size: 23
24493303 GAACACTGGT
*
24493313 GTGTCATAGATTCCTTCCAT-ACC
1 GTGTCACAGATTCCTTCCATGA-C
24493336 GTGTCACAGATTCCTTCCATGAC
1 GTGTCACAGATTCCTTCCATGAC
24493359 GTGTCACA
1 GTGTCACA
24493367 AACTCTGAAC
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
23 28 0.97
24 1 0.03
ACGTcount: A:0.22, C:0.30, G:0.17, T:0.31
Consensus pattern (23 bp):
GTGTCACAGATTCCTTCCATGAC
Found at i:24493387 original size:47 final size:47
Alignment explanation
Indices: 24493336--24493486 Score: 187
Period size: 47 Copynumber: 3.2 Consensus size: 47
24493326 CTTCCATACC
* * * *
24493336 GTGTCACAGATTCCTTCCATGACGTGTCACAAACTCTGAACGCTGGA
1 GTGTCACAGATTCCTTCCATGCCGTGTCACAAACTTTGAATGCTGTA
* * * *
24493383 GTGTCATAGATTCCCTCCATGCCATGTCACAAACTTTGAATGTTGCTA
1 GTGTCACAGATTCCTTCCATGCCGTGTCACAAACTTTGAATGCTG-TA
* * *
24493431 -TGTTACAGATTCCTTCCATGCCGTGTCATAAACTTTGAATGCTGTC
1 GTGTCACAGATTCCTTCCATGCCGTGTCACAAACTTTGAATGCTGTA
24493477 GTGTCACAGA
1 GTGTCACAGA
24493487 CTTTAAACCC
Statistics
Matches: 86, Mismatches: 16, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
46 1 0.01
47 84 0.98
48 1 0.01
ACGTcount: A:0.25, C:0.25, G:0.19, T:0.31
Consensus pattern (47 bp):
GTGTCACAGATTCCTTCCATGCCGTGTCACAAACTTTGAATGCTGTA
Found at i:24493389 original size:212 final size:212
Alignment explanation
Indices: 24492988--24493390 Score: 504
Period size: 212 Copynumber: 1.9 Consensus size: 212
24492978 ATGGAGTCTG
* * *
24492988 ACAAACTCTGAATGCTGACGTGTCACAGATTCCCTCCATGGCGTGTCACAAACTCTGAACCTTGC
1 ACAAACTCTGAATGCTGACGTGTCACAGATTCCCTCCATGGCATGTCACAAACTCTGAACCCTAC
* * *
24493053 CGTGTCACAAATTCCCTCCATGGCATGTCACAAATTCTGAACATTGGTGTGTCACAGATTCCCTC
66 CGCGTCACAAATTCCCTCCATGGCATGTCACAAACTCTGAACACTGGTGTGTCACAGATTCCCTC
*** ** * * * ** *
24493118 CATGGGGTGTCACAAACTTTGAACCCTACTGTGTCACAGATTCCCTTCATGGCGTGTCATAAGCT
131 CATACCGTGTCACAAACTTCCAACCATACTGTGTCACAAACTCCCAACATGGAGTGTCATAAGCT
24493183 CTGAATGCTAGCATGTC
196 CTGAATGCTAGCATGTC
*
24493200 ACAAACTCTGAATGCTGGCGTGTCACAGATTCCCTCCATGGCATGTCACAAACTCTGAACCCTAC
1 ACAAACTCTGAATGCTGACGTGTCACAGATTCCCTCCATGGCATGTCACAAACTCTGAACCCTAC
* ** * * *
24493265 CGCGTCACAGATTTTCTCCATGGCGTGTCACAAACTCTGAACACTGGTGTGTCATAGATTCCTTC
66 CGCGTCACAAATTCCCTCCATGGCATGTCACAAACTCTGAACACTGGTGTGTCACAGATTCCCTC
* ** ** *
24493330 CATACCGTGTCACAGA-TTCCTTCCATGAC-GTGTCACAAACTCTGAACGCTGGAGTGTCATA
131 CATACCGTGTCACAAACTTCCAACCAT-ACTGTGTCACAAACTCCCAAC-ATGGAGTGTCATA
24493391 GATTCCCTCC
Statistics
Matches: 159, Mismatches: 30, Indels: 4
0.82 0.16 0.02
Matches are distributed among these distances:
211 17 0.11
212 142 0.89
ACGTcount: A:0.25, C:0.29, G:0.19, T:0.27
Consensus pattern (212 bp):
ACAAACTCTGAATGCTGACGTGTCACAGATTCCCTCCATGGCATGTCACAAACTCTGAACCCTAC
CGCGTCACAAATTCCCTCCATGGCATGTCACAAACTCTGAACACTGGTGTGTCACAGATTCCCTC
CATACCGTGTCACAAACTTCCAACCATACTGTGTCACAAACTCCCAACATGGAGTGTCATAAGCT
CTGAATGCTAGCATGTC
Found at i:24493394 original size:117 final size:117
Alignment explanation
Indices: 24493101--24493458 Score: 299
Period size: 117 Copynumber: 3.1 Consensus size: 117
24493091 GAACATTGGT
*** * * * *
24493101 GTGTCACAGATTCCCTCCATGGGGTGTCACAAACTTTGAACCCTACTGTGTCACAGATTCCCTTC
1 GTGTCACAGATTCCCTCCATGACATGTCACAAACTCTGAACCCTACAGCGTCACAGATTCCCTCC
* * * * ** * * * **
24493166 ATGGCGTGTCATAAGCTCTGAATGCTAGC-ATGTCACAAACT-CTGAATGC-TGGC
66 ATGCCATGTCACAAACTCTGAACACT-GCTATGTCACAGATTCCT---TCCATACC
* * **
24493219 GTGTCACAGATTCCCTCCATGGCATGTCACAAACTCTGAACCCTACCGCGTCACAGATTTTCTCC
1 GTGTCACAGATTCCCTCCATGACATGTCACAAACTCTGAACCCTACAGCGTCACAGATTCCCTCC
* * * * *
24493284 ATGGCGTGTCACAAACTCTGAACACTGGTGTGTCATAGATTCCTTCCATACC
66 ATGCCATGTCACAAACTCTGAACACTGCTATGTCACAGATTCCTTCCATACC
* * * ** * *
24493336 GTGTCACAGATTCCTTCCATGACGTGTCACAAACTCTGAACGCTGGAGTGTCATAGATTCCCTCC
1 GTGTCACAGATTCCCTCCATGACATGTCACAAACTCTGAACCCTACAGCGTCACAGATTCCCTCC
* *** * *
24493401 ATGCCATGTCACAAACTTTGAATGTTGCTATGTTACAGATTCCTTCCATGCC
66 ATGCCATGTCACAAACTCTGAACACTGCTATGTCACAGATTCCTTCCATACC
24493453 GTGTCA
1 GTGTCA
24493459 TAAACTTTGA
Statistics
Matches: 195, Mismatches: 42, Indels: 7
0.80 0.17 0.03
Matches are distributed among these distances:
116 2 0.01
117 104 0.53
118 87 0.45
119 2 0.01
ACGTcount: A:0.24, C:0.28, G:0.19, T:0.29
Consensus pattern (117 bp):
GTGTCACAGATTCCCTCCATGACATGTCACAAACTCTGAACCCTACAGCGTCACAGATTCCCTCC
ATGCCATGTCACAAACTCTGAACACTGCTATGTCACAGATTCCTTCCATACC
Found at i:24493411 original size:70 final size:70
Alignment explanation
Indices: 24493268--24493413 Score: 213
Period size: 70 Copynumber: 2.1 Consensus size: 70
24493258 ACCCTACCGC
* * * *
24493268 GTCACAGATTTTCTCCATGGCGTGTCACAAACTCTGAACACTGGTGTGTCATAGATTCCTTCCAT
1 GTCACAGATTCTCTCCATGACGTGTCACAAACTCTGAACACTGGAGTGTCATAGATTCCCTCCAT
*
24493333 ACCGT
66 ACCAT
*
24493338 GTCACAGATTC-CTTCCATGACGTGTCACAAACTCTGAACGCTGGAGTGTCATAGATTCCCTCCA
1 GTCACAGATTCTC-TCCATGACGTGTCACAAACTCTGAACACTGGAGTGTCATAGATTCCCTCCA
*
24493402 TGCCAT
65 TACCAT
24493408 GTCACA
1 GTCACA
24493414 AACTTTGAAT
Statistics
Matches: 68, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
69 1 0.01
70 67 0.99
ACGTcount: A:0.24, C:0.29, G:0.18, T:0.29
Consensus pattern (70 bp):
GTCACAGATTCTCTCCATGACGTGTCACAAACTCTGAACACTGGAGTGTCATAGATTCCCTCCAT
ACCAT
Found at i:24493479 original size:24 final size:24
Alignment explanation
Indices: 24493452--24493508 Score: 69
Period size: 24 Copynumber: 2.4 Consensus size: 24
24493442 CCTTCCATGC
* * **
24493452 CGTGTCATAAACTTTGAATGCTGT
1 CGTGTCACAAACTTTAAACCCTGT
*
24493476 CGTGTCACAGACTTTAAACCCTGT
1 CGTGTCACAAACTTTAAACCCTGT
24493500 CGTGTCACA
1 CGTGTCACA
24493509 GCCATGTCAC
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.25, C:0.25, G:0.19, T:0.32
Consensus pattern (24 bp):
CGTGTCACAAACTTTAAACCCTGT
Found at i:24495816 original size:22 final size:22
Alignment explanation
Indices: 24495791--24495866 Score: 71
Period size: 22 Copynumber: 3.3 Consensus size: 22
24495781 TTATTTTATA
24495791 TTATTTTTTAAATATTAATAATT
1 TTATTTTTTAAATATTAATAA-T
24495814 TATATTTTATTTAAATATTAATAAT
1 T-TA-TTT-TTTAAATATTAATAAT
* ** * *
24495839 TGATCATCTAAATATTAATATT
1 TTATTTTTTAAATATTAATAAT
24495861 TTATTT
1 TTATTT
24495867 ATAATTTAAA
Statistics
Matches: 42, Mismatches: 8, Indels: 7
0.74 0.14 0.12
Matches are distributed among these distances:
22 17 0.40
23 2 0.05
24 3 0.07
25 5 0.12
26 15 0.36
ACGTcount: A:0.39, C:0.03, G:0.01, T:0.57
Consensus pattern (22 bp):
TTATTTTTTAAATATTAATAAT
Found at i:24495838 original size:29 final size:27
Alignment explanation
Indices: 24495785--24495839 Score: 94
Period size: 26 Copynumber: 2.1 Consensus size: 27
24495775 TTATTTTTAT
*
24495785 TTTATATTATTTTTTAAATATTAATAA
1 TTTATATTATTATTTAAATATTAATAA
24495812 TTTATATT-TTATTTAAATATTAATAA
1 TTTATATTATTATTTAAATATTAATAA
24495838 TT
1 TT
24495840 GATCATCTAA
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
26 19 0.70
27 8 0.30
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (27 bp):
TTTATATTATTATTTAAATATTAATAA
Found at i:24495979 original size:112 final size:112
Alignment explanation
Indices: 24495780--24495984 Score: 249
Period size: 112 Copynumber: 1.8 Consensus size: 112
24495770 ATTATTTATT
* * *
24495780 TTTATTTTATATTATTTTTTAAATATTAATAATTTATATTTTATTTAAATATTAATAATTGATCA
1 TTTATTTTATATTATTTTTAAAATATTAATAATTTATAATTTATTTAAATATTAATAATTAATCA
* *
24495845 TCTAAATATTAATATTTTATTTATAATTTAAAATGCTATTATGATTA
66 TCTAAATATTAATATATAATTTATAATTTAAAATGCTATTATGATTA
* *
24495892 TTTATTTTTATTTTATTTTTAAAATATT-AT-ATTTATAATTTATTTAAAATATTTATAATTTAA
1 TTTA-TTTTATATTATTTTTAAAATATTAATAATTTATAATTTATTT-AAATATTAATAA-TT-A
* *
24495955 AT-AT-TAATCTTTTAAT-TATAATTTATAATT
62 ATCATCTAA-ATATTAATATATAATTTATAATT
24495985 AATATTTAAT
Statistics
Matches: 79, Mismatches: 9, Indels: 10
0.81 0.09 0.10
Matches are distributed among these distances:
111 14 0.18
112 32 0.41
113 31 0.39
114 2 0.03
ACGTcount: A:0.39, C:0.02, G:0.01, T:0.58
Consensus pattern (112 bp):
TTTATTTTATATTATTTTTAAAATATTAATAATTTATAATTTATTTAAATATTAATAATTAATCA
TCTAAATATTAATATATAATTTATAATTTAAAATGCTATTATGATTA
Found at i:24495996 original size:18 final size:18
Alignment explanation
Indices: 24495973--24496101 Score: 67
Period size: 18 Copynumber: 7.2 Consensus size: 18
24495963 CTTTTAATTA
24495973 TAATTTATAATTAATATT
1 TAATTTATAATTAATATT
24495991 TAATTTATAATTTAA-ATGT
1 TAATTTATAA-TTAATAT-T
* *
24496010 T-A-TTATGATTATTTATT
1 TAATTTATAATTA-ATATT
24496027 T-ATTTAT-ATT--TATT
1 TAATTTATAATTAATATT
** *
24496041 TAATTTATTTTTAAACATT
1 TAATTTATAATT-AATATT
24496060 AATAATTTATAATTAAT-TT
1 --TAATTTATAATTAATATT
* *
24496079 AAAATTAATAATTAATCATT
1 -TAATTTATAATTAAT-ATT
24496099 TAA
1 TAA
24496102 ATATTAATAT
Statistics
Matches: 87, Mismatches: 10, Indels: 27
0.70 0.08 0.22
Matches are distributed among these distances:
14 5 0.06
15 6 0.07
16 5 0.06
17 11 0.13
18 33 0.38
19 13 0.15
20 4 0.05
21 10 0.11
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.55
Consensus pattern (18 bp):
TAATTTATAATTAATATT
Found at i:24495998 original size:25 final size:27
Alignment explanation
Indices: 24495942--24496007 Score: 93
Period size: 25 Copynumber: 2.6 Consensus size: 27
24495932 TATTTAAAAT
*
24495942 ATTTATAATTTAAATATTAATCTTTTA
1 ATTTATAATTTAAATATTAATCATTTA
*
24495969 A-TTATAATTTATA-ATTAAT-ATTTA
1 ATTTATAATTTAAATATTAATCATTTA
24495993 ATTTATAATTTAAAT
1 ATTTATAATTTAAAT
24496008 GTTATTATGA
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
24 5 0.15
25 17 0.50
26 11 0.32
27 1 0.03
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.55
Consensus pattern (27 bp):
ATTTATAATTTAAATATTAATCATTTA
Found at i:24496065 original size:21 final size:20
Alignment explanation
Indices: 24496041--24496118 Score: 57
Period size: 22 Copynumber: 3.5 Consensus size: 20
24496031 TATATTTATT
24496041 TAATTTATTTTTAAACATTAA
1 TAATTTATTTTTAAA-ATTAA
24496062 TAATTTATAATTAATTTAAAATTAA
1 TAA-TT-T-ATT--TTTAAAATTAA
* *
24496087 TAATTAATCATTTAAATATTAA
1 TAATTTAT-TTTTAAA-ATTAA
*
24496109 TATTTTATTT
1 TAATTTATTT
24496119 ACAATTTAAT
Statistics
Matches: 45, Mismatches: 5, Indels: 14
0.70 0.08 0.22
Matches are distributed among these distances:
21 10 0.22
22 15 0.33
23 1 0.02
24 5 0.11
25 8 0.18
26 6 0.13
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.53
Consensus pattern (20 bp):
TAATTTATTTTTAAAATTAA
Found at i:24496204 original size:42 final size:42
Alignment explanation
Indices: 24496075--24496204 Score: 167
Period size: 42 Copynumber: 3.1 Consensus size: 42
24496065 TTTATAATTA
* *
24496075 ATTTA-AAATTAATAATTAATCATTT--AAATATTAATATTTT
1 ATTTATAATTTAATCATTAA-CATTTGAAAATATTAATATTTT
* ** *
24496115 ATTTACAATTTAATCATTAATGTTTTAAAATATTAATATTTT
1 ATTTATAATTTAATCATTAACATTTGAAAATATTAATATTTT
*
24496157 ATTTATAATTTAATCATTGACATTTGAAAATATTAATATTTT
1 ATTTATAATTTAATCATTAACATTTGAAAATATTAATATTTT
24496199 ATTTAT
1 ATTTAT
24496205 TACGATTAAA
Statistics
Matches: 78, Mismatches: 9, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
40 8 0.10
41 12 0.15
42 58 0.74
ACGTcount: A:0.42, C:0.04, G:0.02, T:0.52
Consensus pattern (42 bp):
ATTTATAATTTAATCATTAACATTTGAAAATATTAATATTTT
Found at i:24496346 original size:26 final size:26
Alignment explanation
Indices: 24496317--24496383 Score: 109
Period size: 26 Copynumber: 2.6 Consensus size: 26
24496307 TTAGTAATTG
24496317 ATAATTTAAATATTAATATTTTATAT
1 ATAATTTAAATATTAATATTTTATAT
*
24496343 ATAATTT-AATCATTAATATTTTATTT
1 ATAATTTAAAT-ATTAATATTTTATAT
24496369 ATAATTTAAATATTA
1 ATAATTTAAATATTA
24496384 CTATGGTTCA
Statistics
Matches: 38, Mismatches: 1, Indels: 4
0.88 0.02 0.09
Matches are distributed among these distances:
25 3 0.08
26 32 0.84
27 3 0.08
ACGTcount: A:0.45, C:0.01, G:0.00, T:0.54
Consensus pattern (26 bp):
ATAATTTAAATATTAATATTTTATAT
Found at i:24502665 original size:42 final size:42
Alignment explanation
Indices: 24502619--24502742 Score: 176
Period size: 42 Copynumber: 3.0 Consensus size: 42
24502609 ATTGACTCGG
* * *
24502619 CTATGTGCGAGTAGGAGTGAGCATAAGTCGATGATGACCCGA
1 CTATGTGTGAGTAGGAGTGCGCATAAGCCGATGATGACCCGA
* *
24502661 CTATGTGTTAGTGGGAGTGCGCATAAGCCGATGATGACCCGA
1 CTATGTGTGAGTAGGAGTGCGCATAAGCCGATGATGACCCGA
* * *
24502703 CGATGTGTGAGTAAGAGTGCGCATAAGCCTATGATGACCC
1 CTATGTGTGAGTAGGAGTGCGCATAAGCCGATGATGACCC
24502743 AGCCATGTGC
Statistics
Matches: 72, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 72 1.00
ACGTcount: A:0.27, C:0.19, G:0.32, T:0.23
Consensus pattern (42 bp):
CTATGTGTGAGTAGGAGTGCGCATAAGCCGATGATGACCCGA
Found at i:24507507 original size:29 final size:26
Alignment explanation
Indices: 24507443--24507506 Score: 119
Period size: 26 Copynumber: 2.5 Consensus size: 26
24507433 ACCATATATC
*
24507443 CATCATCAACATGCACACCATCCCAT
1 CATCATCATCATGCACACCATCCCAT
24507469 CATCATCATCATGCACACCATCCCAT
1 CATCATCATCATGCACACCATCCCAT
24507495 CATCATCATCAT
1 CATCATCATCAT
24507507 CTCATATGCA
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 37 1.00
ACGTcount: A:0.33, C:0.41, G:0.03, T:0.23
Consensus pattern (26 bp):
CATCATCATCATGCACACCATCCCAT
Found at i:24507754 original size:99 final size:99
Alignment explanation
Indices: 24507583--24507781 Score: 319
Period size: 99 Copynumber: 2.0 Consensus size: 99
24507573 CTACGGTGGC
* * * *
24507583 ATAACATGGTACCTATCAGAGCACTTGGCAAGAGGTGCACTTCACTTAGGATCACGAAGCAATGG
1 ATAACATGGTACCTATCAGAGCACTCGACAAGAGGTGCACTTCACTCAGGATCACGAAGCAACGG
* *
24507648 AGCAGTCCCTTCCCTCCTTTTCCAAGCTCTTGGG
66 AGCAGTCCCTTCCCTCCTCTTCCAAGCTCCTGGG
*
24507682 ATAACATGGTACTTATCAGAGCACTCGACAAGAGGTGCACTTCACTCCA-GATCACGAAGCAACG
1 ATAACATGGTACCTATCAGAGCACTCGACAAGAGGTGCACTTCACT-CAGGATCACGAAGCAACG
24507746 GAGCAGTCCCTTCCCTCCTCTTCCAAGCTCCTGGG
65 GAGCAGTCCCTTCCCTCCTCTTCCAAGCTCCTGGG
24507781 A
1 A
24507782 CGTACCACTC
Statistics
Matches: 92, Mismatches: 7, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
99 91 0.99
100 1 0.01
ACGTcount: A:0.26, C:0.30, G:0.21, T:0.23
Consensus pattern (99 bp):
ATAACATGGTACCTATCAGAGCACTCGACAAGAGGTGCACTTCACTCAGGATCACGAAGCAACGG
AGCAGTCCCTTCCCTCCTCTTCCAAGCTCCTGGG
Found at i:24512276 original size:3 final size:3
Alignment explanation
Indices: 24512266--24512303 Score: 60
Period size: 3 Copynumber: 13.0 Consensus size: 3
24512256 CCATTATTAT
*
24512266 TAA T-A TAA TAA TAA TAA TAA TAG TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
24512304 ACAAAAAACT
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
2 2 0.06
3 30 0.94
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:24516132 original size:3 final size:3
Alignment explanation
Indices: 24516126--24516164 Score: 60
Period size: 3 Copynumber: 12.7 Consensus size: 3
24516116 TTGTTGTTAA
*
24516126 AAT AAT AAT AAT AAT AAT AACA AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AA-T AAT AAT AAT AAT AAT AA
24516165 ATATTAAACA
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
3 31 0.94
4 2 0.06
ACGTcount: A:0.69, C:0.03, G:0.00, T:0.28
Consensus pattern (3 bp):
AAT
Found at i:24516153 original size:16 final size:16
Alignment explanation
Indices: 24516132--24516167 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
24516122 TTAAAATAAT
24516132 AATAATAATAATAACA
1 AATAATAATAATAACA
*
24516148 AATAATAATAATAATA
1 AATAATAATAATAACA
24516164 AATA
1 AATA
24516168 TTAAACAAGG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.69, C:0.03, G:0.00, T:0.28
Consensus pattern (16 bp):
AATAATAATAATAACA
Found at i:24527719 original size:59 final size:59
Alignment explanation
Indices: 24527644--24528120 Score: 645
Period size: 59 Copynumber: 8.1 Consensus size: 59
24527634 AAATTAAGTT
* * * * * * *
24527644 GAACCTGTTTTAAGATAGGTCAAACCTAAATAAAGTTTAGGAATTTCAATATTTGAATC
1 GAACCTGTTTTAAGATAGGTCGAGCCTAGATCAAGTCTAGGAATTTCAATTTTTAAATC
* * * * *
24527703 AAACCTGTTTTGAGATAGGTCGAGCCTAGATTAAGTCTAGGAATTTCAATTTTTGATTC
1 GAACCTGTTTTAAGATAGGTCGAGCCTAGATCAAGTCTAGGAATTTCAATTTTTAAATC
* *
24527762 GAACCTGTTTTAAGATAGGTCGAGCCTAGATCAAGTTTAGAAATGTT-AATTTTTAAATC
1 GAACCTGTTTTAAGATAGGTCGAGCCTAGATCAAGTCTAGGAAT-TTCAATTTTTAAATC
* * *
24527821 GAACTTGTTTTAAGATAGGTCGAGCCTAGATCAAGTCTAAGAATTTCAATTTTTGAATC
1 GAACCTGTTTTAAGATAGGTCGAGCCTAGATCAAGTCTAGGAATTTCAATTTTTAAATC
24527880 GAACCTGTTTTAAGATAGGTCGAGCCTAGATCAAGTCTAGGAATGTT-AATTTTTTAAATC
1 GAACCTGTTTTAAGATAGGTCGAGCCTAGATCAAGTCTAGGAAT-TTCAA-TTTTTAAATC
* ** * *
24527940 GAACTTGTTTTAAGATAGGTCGAGCCTAGATCAAGTCTAAAAATTTTAATTTTTGAATC
1 GAACCTGTTTTAAGATAGGTCGAGCCTAGATCAAGTCTAGGAATTTCAATTTTTAAATC
* * * * *
24527999 GAACCTGTTTTAAAATAGGTCTAGCCTAGTTCAAGTTTAGGAATGTCAATTTTTTAAATC
1 GAACCTGTTTTAAGATAGGTCGAGCCTAGATCAAGTCTAGGAATTTCAA-TTTTTAAATC
*
24528059 GAACCTGTTTTAAGATAGGTCGAGCCTAGATCAA-TCTAGGAATTTCAATATTTAAATC
1 GAACCTGTTTTAAGATAGGTCGAGCCTAGATCAAGTCTAGGAATTTCAATTTTTAAATC
24528117 GAAC
1 GAAC
24528121 TTGTCGCGAG
Statistics
Matches: 368, Mismatches: 44, Indels: 13
0.87 0.10 0.03
Matches are distributed among these distances:
58 15 0.04
59 257 0.70
60 96 0.26
ACGTcount: A:0.33, C:0.13, G:0.18, T:0.35
Consensus pattern (59 bp):
GAACCTGTTTTAAGATAGGTCGAGCCTAGATCAAGTCTAGGAATTTCAATTTTTAAATC
Found at i:24538648 original size:91 final size:91
Alignment explanation
Indices: 24538516--24538698 Score: 357
Period size: 91 Copynumber: 2.0 Consensus size: 91
24538506 CTATCCCAAA
*
24538516 CCACACTCTCAATCTATGTATGCAGTTCTTTCACATATAATTCATGGATGGAATCTGATTTGTAT
1 CCACACTCTCAATCTATGTATGCAGTCCTTTCACATATAATTCATGGATGGAATCTGATTTGTAT
24538581 ACTTTTTACTTCCCTCTTATAGTTTT
66 ACTTTTTACTTCCCTCTTATAGTTTT
24538607 CCACACTCTCAATCTATGTATGCAGTCCTTTCACATATAATTCATGGATGGAATCTGATTTGTAT
1 CCACACTCTCAATCTATGTATGCAGTCCTTTCACATATAATTCATGGATGGAATCTGATTTGTAT
24538672 ACTTTTTACTTCCCTCTTATAGTTTT
66 ACTTTTTACTTCCCTCTTATAGTTTT
24538698 C
1 C
24538699 TAGTGAATTT
Statistics
Matches: 91, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
91 91 1.00
ACGTcount: A:0.24, C:0.22, G:0.11, T:0.43
Consensus pattern (91 bp):
CCACACTCTCAATCTATGTATGCAGTCCTTTCACATATAATTCATGGATGGAATCTGATTTGTAT
ACTTTTTACTTCCCTCTTATAGTTTT
Found at i:24540260 original size:30 final size:30
Alignment explanation
Indices: 24540224--24540287 Score: 128
Period size: 30 Copynumber: 2.1 Consensus size: 30
24540214 AACAATTAAG
24540224 TACTATTGTTCTAATCTTTGTAAACTTTCT
1 TACTATTGTTCTAATCTTTGTAAACTTTCT
24540254 TACTATTGTTCTAATCTTTGTAAACTTTCT
1 TACTATTGTTCTAATCTTTGTAAACTTTCT
24540284 TACT
1 TACT
24540288 TTAATTTAAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 34 1.00
ACGTcount: A:0.23, C:0.17, G:0.06, T:0.53
Consensus pattern (30 bp):
TACTATTGTTCTAATCTTTGTAAACTTTCT
Found at i:24545906 original size:23 final size:22
Alignment explanation
Indices: 24545880--24545929 Score: 64
Period size: 23 Copynumber: 2.2 Consensus size: 22
24545870 TTTTAGAGTT
24545880 TGTGAAACGAAACGGTGGGAATG
1 TGTGAAACGAAACGGTGGG-ATG
* * *
24545903 TGTGAGACGACATGGTGGGATG
1 TGTGAAACGAAACGGTGGGATG
24545925 TGTGA
1 TGTGA
24545930 TACATCATGG
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
22 8 0.33
23 16 0.67
ACGTcount: A:0.28, C:0.08, G:0.42, T:0.22
Consensus pattern (22 bp):
TGTGAAACGAAACGGTGGGATG
Found at i:24545928 original size:22 final size:22
Alignment explanation
Indices: 24545893--24545956 Score: 67
Period size: 22 Copynumber: 2.8 Consensus size: 22
24545883 GAAACGAAAC
24545893 GGTGGGAATGTGTGAGACGA-CAT
1 GGTGGG-ATGTGTGAGAC-ATCAT
*
24545916 GGTGGGATGTGTGATACATCAT
1 GGTGGGATGTGTGAGACATCAT
* *
24545938 GGTGAGAATATGTGAGACA
1 GGTG-GGATGTGTGAGACA
24545957 GGTGTGACAC
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
21 1 0.03
22 17 0.49
23 17 0.49
ACGTcount: A:0.28, C:0.08, G:0.39, T:0.25
Consensus pattern (22 bp):
GGTGGGATGTGTGAGACATCAT
Found at i:24546019 original size:81 final size:79
Alignment explanation
Indices: 24545922--24546172 Score: 247
Period size: 81 Copynumber: 3.2 Consensus size: 79
24545912 ACATGGTGGG
* * *
24545922 ATGTGTGATACATCATGGTGAGAATATGTGAGACAGGTGTGACACGGCAGGGTATAGAGTTTGTG
1 ATGTGTGACACGTCATGGTGAGAATATGTGAGAC-GGTGTGACACGGCAGGGT-TAGAGTGTGTG
* *
24545987 ACATGGCATGGTGGCA
64 ACATGCCATGGTGACA
* *
24546003 ATGTGTGACATGTCATGGTGAGAATATGTGAGACGAGTGTGACACGGTAGGGTTTAGAGTGTGTG
1 ATGTGTGACACGTCATGGTGAGAATATGTGAGACG-GTGTGACACGGCAGGG-TTAGAGTGTGTG
*** * *
24546068 ACACATCAGGGTGATA
64 ACATGCCATGGTGACA
* * * * * * *
24546084 ATGTGTGAGACGACACGATGAG-A-ATGTGACAGGGGTGTGACACGACAGGGTTAGAGTGTGTGA
1 ATGTGTGACACGTCATGGTGAGAATATGTGAGA-CGGTGTGACACGGCAGGGTTAGAGTGTGTGA
*
24546147 CATGCCATGGTCA-A
65 CATGCCATGGTGACA
*
24546161 ACGTGTGACACG
1 ATGTGTGACACG
24546173 AGAGGGTTAT
Statistics
Matches: 140, Mismatches: 27, Indels: 10
0.79 0.15 0.06
Matches are distributed among these distances:
77 11 0.08
78 21 0.15
79 21 0.15
80 3 0.02
81 83 0.59
82 1 0.01
ACGTcount: A:0.27, C:0.12, G:0.36, T:0.24
Consensus pattern (79 bp):
ATGTGTGACACGTCATGGTGAGAATATGTGAGACGGTGTGACACGGCAGGGTTAGAGTGTGTGAC
ATGCCATGGTGACA
Found at i:24546032 original size:23 final size:23
Alignment explanation
Indices: 24545983--24546033 Score: 68
Period size: 23 Copynumber: 2.2 Consensus size: 23
24545973 GTATAGAGTT
*
24545983 TGTGACATGGCATGGTGGCAATG
1 TGTGACATGGCATGGTGGCAATA
*
24546006 TGTGACATGTCATGGTGAG-AATA
1 TGTGACATGGCATGGTG-GCAATA
24546029 TGTGA
1 TGTGA
24546034 GACGAGTGTG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
23 24 0.96
24 1 0.04
ACGTcount: A:0.25, C:0.10, G:0.35, T:0.29
Consensus pattern (23 bp):
TGTGACATGGCATGGTGGCAATA
Found at i:24546317 original size:23 final size:23
Alignment explanation
Indices: 24546248--24546321 Score: 69
Period size: 23 Copynumber: 3.2 Consensus size: 23
24546238 TAGAGTGTGC
* * *
24546248 GACACGCCATGGAGAGAATCTGT
1 GACACGACATGGTGAGAATATGT
* **
24546271 GACACGACAGGGTGATG-ACGTGT
1 GACACGACATGGTGA-GAATATGT
*
24546294 GAGACGACATGGTGAGAATATGT
1 GACACGACATGGTGAGAATATGT
24546317 GACAC
1 GACAC
24546322 AGGTGTGACA
Statistics
Matches: 39, Mismatches: 10, Indels: 4
0.74 0.19 0.08
Matches are distributed among these distances:
22 1 0.03
23 37 0.95
24 1 0.03
ACGTcount: A:0.31, C:0.18, G:0.34, T:0.18
Consensus pattern (23 bp):
GACACGACATGGTGAGAATATGT
Found at i:24546318 original size:104 final size:102
Alignment explanation
Indices: 24546063--24546344 Score: 286
Period size: 104 Copynumber: 2.8 Consensus size: 102
24546053 GGTTTAGAGT
* * *
24546063 GTGTGACAC-ATCAGGGTGATAATGTGTGAGACGACACGATGAG-A-ATGTGACAGGGGTGTGAC
1 GTGTGACACGA-CAGGGTGATAATGTGTGAGACGACACGGTGAGAATATGTGACACGAGTGTGAC
* * * *
24546125 ACGACAGGGTTAGAGTGTGTGACATGCCATGGTCAAAC
65 ACAACAGGGTTAGAGTGTGCGACACGCCATGGACAAAC
* * * * * * * * *
24546163 GTGTGACACGAGAGGGTTATAATGTATGAAACGGCACAGTGATAATGTGTGATACGAGTGTGACA
1 GTGTGACACGACAGGGTGATAATGTGTGAGACGACACGGTGAGAATATGTGACACGAGTGTGACA
*
24546228 CAACAGGGTTTAGAGTGTGCGACACGCCATGGAGAGAATC
66 CAACAGGG-TTAGAGTGTGCGACACGCCATGGACA-AA-C
* * *
24546268 -TGTGACACGACAGGGTGATGACGTGTGAGACGACATGGTGAGAATATGTGACAC-AGGTGTGAC
1 GTGTGACACGACAGGGTGATAATGTGTGAGACGACACGGTGAGAATATGTGACACGA-GTGTGAC
* *
24546331 ACACCATGGTTAGA
65 ACAACAGGGTTAGA
24546345 ACTTGTGACA
Statistics
Matches: 144, Mismatches: 31, Indels: 11
0.77 0.17 0.06
Matches are distributed among these distances:
100 33 0.23
101 2 0.01
102 22 0.15
103 28 0.19
104 58 0.40
105 1 0.01
ACGTcount: A:0.30, C:0.15, G:0.34, T:0.21
Consensus pattern (102 bp):
GTGTGACACGACAGGGTGATAATGTGTGAGACGACACGGTGAGAATATGTGACACGAGTGTGACA
CAACAGGGTTAGAGTGTGCGACACGCCATGGACAAAC
Found at i:24546374 original size:23 final size:23
Alignment explanation
Indices: 24546348--24546401 Score: 65
Period size: 23 Copynumber: 2.3 Consensus size: 23
24546338 GGTTAGAACT
*
24546348 TGTGACACGGTA-AGGTCATAATG
1 TGTGACACGGCACA-GTCATAATG
* *
24546371 TGTGAAACGGCACAGTGATAATG
1 TGTGACACGGCACAGTCATAATG
24546394 TGTGACAC
1 TGTGACAC
24546402 AGGTGTGACA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
23 25 0.96
24 1 0.04
ACGTcount: A:0.31, C:0.15, G:0.30, T:0.24
Consensus pattern (23 bp):
TGTGACACGGCACAGTCATAATG
Found at i:24546384 original size:184 final size:183
Alignment explanation
Indices: 24546141--24546516 Score: 506
Period size: 184 Copynumber: 2.0 Consensus size: 183
24546131 GGGTTAGAGT
** * *
24546141 GTGTGACATGCCATGGTCAAACGTGTGACACGAGAGGGTTATAATGTATGAAACGGCACAGTGAT
1 GTGTGACACACCATGGTCAAACGTGTGACACGAGAAGGTCATAATGTATGAAACGGCACAGTGAT
*
24546206 AATGTGTGATAC-GAGTGTGACACAACAGGGTTTAGAGTGTGCGACACGCCATGGAGAGAATCTG
66 AATGTGTGACACAG-GTGTGACACAACAGGGTTTAGAGTGTGCGACACGCCATGGAGAGAATCTG
* * *
24546270 TGACACGA-CAGGGTGATGACGTGTGAGACGACATGGTGAGAATATGTGACACAG
130 TGACA-GAGCAAGGTGATGACGTGTGAGACGACACGGTGAAAATATGTGACACAG
* * *
24546324 GTGTGACACACCATGGTTAGAACTTGTGACACG-GTAAGGTCATAATGTGTGAAACGGCACAGTG
1 GTGTGACACACCATGGTCA-AACGTGTGACACGAG-AAGGTCATAATGTATGAAACGGCACAGTG
** * * *
24546388 ATAATGTGTGACACAGGTGTGACACTGCAGGGTTTAGAGTGTGTGACATGCCATGGAGGGAATCT
64 ATAATGTGTGACACAGGTGTGACACAACAGGGTTTAGAGTGTGCGACACGCCATGGAGAGAATCT
* * * * *
24546453 GTGACATAGCAAGGTGATGATGTGTGAGACGGCACGGTGAAAATATGTGAGACGG
129 GTGACAGAGCAAGGTGATGACGTGTGAGACGACACGGTGAAAATATGTGACACAG
24546508 GTGTGACAC
1 GTGTGACAC
24546517 GGCAGCGTTT
Statistics
Matches: 168, Mismatches: 21, Indels: 7
0.86 0.11 0.04
Matches are distributed among these distances:
183 18 0.11
184 149 0.89
185 1 0.01
ACGTcount: A:0.30, C:0.15, G:0.33, T:0.22
Consensus pattern (183 bp):
GTGTGACACACCATGGTCAAACGTGTGACACGAGAAGGTCATAATGTATGAAACGGCACAGTGAT
AATGTGTGACACAGGTGTGACACAACAGGGTTTAGAGTGTGCGACACGCCATGGAGAGAATCTGT
GACAGAGCAAGGTGATGACGTGTGAGACGACACGGTGAAAATATGTGACACAG
Found at i:24546663 original size:104 final size:103
Alignment explanation
Indices: 24546324--24546664 Score: 353
Period size: 104 Copynumber: 3.3 Consensus size: 103
24546314 TGTGACACAG
** * *
24546324 GTGTGACACACCATGGTTAGAACT-TGTGACACGGTAAGGTCATAATGTGTGAAACGGCACAGTG
1 GTGTGACATGCCATGGTGAGAA-TGTGTGACAAGGTAAGGTCATAATGTGTGAAACGGCACAGTG
* * *
24546388 ATAATGTGTGACACAGGTGTGACACTGCAGGGTTTAGAGT
65 ATAATGTGTGACACGGGTGTGACA-TGGAAGGTTTAGAGT
* * * * * * * *
24546428 GTGTGACATGCCATGGAGGGAATCTGTGACATA-GCAAGGTGATGATGTGTGAGACGGCACGGTG
1 GTGTGACATGCCATGGTGAGAATGTGTGACA-AGGTAAGGTCATAATGTGTGAAACGGCACAGTG
* * * * * *
24546492 AAAATATGTGAGACGGGTGTGACACGGCAGCGTTTAAAGT
65 ATAATGTGTGACACGGGTGTGACATGGAAG-GTTTAGAGT
* * * * * *
24546532 GTGTGACACGCCATGGTCAGAACGTGTGACAAGGTAGGGTCATAATGTGTGAAACGACATAGTGA
1 GTGTGACATGCCATGGTGAGAATGTGTGACAAGGTAAGGTCATAATGTGTGAAACGGCACAGTGA
24546597 TAATGTGTGACACGGGTGTGACATGGTAAGGTTTAGAGT
66 TAATGTGTGACACGGGTGTGACATGG-AAGGTTTAGAGT
* * *
24546636 GTGTGACATGCTAGGGTGAAAATGTGTGA
1 GTGTGACATGCCATGGTGAGAATGTGTGA
24546665 GACGACACGG
Statistics
Matches: 186, Mismatches: 46, Indels: 10
0.77 0.19 0.04
Matches are distributed among these distances:
103 4 0.02
104 180 0.97
105 2 0.01
ACGTcount: A:0.28, C:0.13, G:0.34, T:0.24
Consensus pattern (103 bp):
GTGTGACATGCCATGGTGAGAATGTGTGACAAGGTAAGGTCATAATGTGTGAAACGGCACAGTGA
TAATGTGTGACACGGGTGTGACATGGAAGGTTTAGAGT
Found at i:24546766 original size:23 final size:23
Alignment explanation
Indices: 24546721--24546800 Score: 108
Period size: 23 Copynumber: 3.5 Consensus size: 23
24546711 TAGAGTGTGG
**
24546721 GACACGCCAT-GGTCAAACATGT
1 GACACGCCATGGGTTGAACATGT
*
24546743 GACACGACATGGGTTGAACATGT
1 GACACGCCATGGGTTGAACATGT
* *
24546766 GACACGCCATGGGTTTAATATGT
1 GACACGCCATGGGTTGAACATGT
24546789 GACACGCCATGG
1 GACACGCCATGG
24546801 TGTGAAAGAA
Statistics
Matches: 51, Mismatches: 6, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
22 9 0.18
23 42 0.82
ACGTcount: A:0.29, C:0.23, G:0.28, T:0.21
Consensus pattern (23 bp):
GACACGCCATGGGTTGAACATGT
Found at i:24547297 original size:56 final size:55
Alignment explanation
Indices: 24547165--24547374 Score: 294
Period size: 55 Copynumber: 3.8 Consensus size: 55
24547155 CATATGGCAC
* * *
24547165 GTTGTGGGTTAACTGGTTTTTTTGGGTTTTTAGCATGTCACGGCTATTCCTAGTGT
1 GTTGTGGGTTAACTGG-TTTTTTGGGTTTTTAGCGTGTCACGGCTATTCTTAGCGT
* *
24547221 GTTGTGGGTTAACTGGTTTTTTGGGTTTTTAGCGTGTAACGGCTGTTCTTAGCGT
1 GTTGTGGGTTAACTGGTTTTTTGGGTTTTTAGCGTGTCACGGCTATTCTTAGCGT
* * ** * *
24547276 ATTGTGGGTTAACCGAATTTTTGGGTTTTTGGCGTGTCACGGCTATTCTTGGCGT
1 GTTGTGGGTTAACTGGTTTTTTGGGTTTTTAGCGTGTCACGGCTATTCTTAGCGT
* *
24547331 GTTGTGGGTAAACTGGTGTTTTGGGTTTTTAGCGTGTCACGGCT
1 GTTGTGGGTTAACTGGTTTTTTGGGTTTTTAGCGTGTCACGGCT
24547375 GTTGGTGTAA
Statistics
Matches: 134, Mismatches: 20, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
55 118 0.88
56 16 0.12
ACGTcount: A:0.12, C:0.12, G:0.32, T:0.44
Consensus pattern (55 bp):
GTTGTGGGTTAACTGGTTTTTTGGGTTTTTAGCGTGTCACGGCTATTCTTAGCGT
Found at i:24547432 original size:23 final size:23
Alignment explanation
Indices: 24547406--24547464 Score: 82
Period size: 23 Copynumber: 2.6 Consensus size: 23
24547396 TTATAGTGAT
*
24547406 TGGCATGTCACGACACTAATGCA
1 TGGCGTGTCACGACACTAATGCA
* *
24547429 TGGCGTGTCACGATACTGATGCA
1 TGGCGTGTCACGACACTAATGCA
*
24547452 TGGTGTGTCACGA
1 TGGCGTGTCACGA
24547465 ATTGATATGC
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 32 1.00
ACGTcount: A:0.24, C:0.22, G:0.29, T:0.25
Consensus pattern (23 bp):
TGGCGTGTCACGACACTAATGCA
Found at i:24547530 original size:31 final size:31
Alignment explanation
Indices: 24547490--24547550 Score: 95
Period size: 31 Copynumber: 2.0 Consensus size: 31
24547480 GTATCATGAC
* *
24547490 ATTTGACTTGATATGCATGGCGTGTTACAAT
1 ATTTGACTTGATATGCATGGCATGTAACAAT
*
24547521 ATTTTACTTGATATGCATGGCATGTAACAA
1 ATTTGACTTGATATGCATGGCATGTAACAA
24547551 CAATTTATTT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.30, C:0.13, G:0.20, T:0.38
Consensus pattern (31 bp):
ATTTGACTTGATATGCATGGCATGTAACAAT
Found at i:24549964 original size:81 final size:81
Alignment explanation
Indices: 24549827--24549978 Score: 200
Period size: 81 Copynumber: 1.9 Consensus size: 81
24549817 ATTAGATGAT
* * *
24549827 GCTGAAGGAGTCCATGTTCCTCAAGTTGATTCGGTAATCGATGCATCTGCGAGAGGGGAGGCAGA
1 GCTGAAAGAGTCCATGTTCCTCAAGTTGATTCGCTAATCGATGCATCTGCGAGAGGGAAGGCAGA
24549892 CCTTCACTCGCTCGAG
66 CCTTCACTCGCTCGAG
* * * **
24549908 GCTGAAAGAGTCCATGTTCCT-AAGGTTGATTCAGCT-ATTGATGCATCTGTGGGAGGGAAGGGG
1 GCTGAAAGAGTCCATGTTCCTCAA-GTTGATTC-GCTAATCGATGCATCTGCGAGAGGGAAGGCA
24549971 GACCTTCA
64 GACCTTCA
24549979 GTCCCTCATG
Statistics
Matches: 61, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
80 2 0.03
81 57 0.93
82 2 0.03
ACGTcount: A:0.23, C:0.20, G:0.32, T:0.25
Consensus pattern (81 bp):
GCTGAAAGAGTCCATGTTCCTCAAGTTGATTCGCTAATCGATGCATCTGCGAGAGGGAAGGCAGA
CCTTCACTCGCTCGAG
Found at i:24551611 original size:86 final size:85
Alignment explanation
Indices: 24551436--24551760 Score: 323
Period size: 86 Copynumber: 3.8 Consensus size: 85
24551426 ATTAATTTTG
* * * ** * * *
24551436 TGCCGTGTC-TCCCACAAGACTGCAACAATTTGGCGTGTCACGCC--AAGTCTGCATGCACTTAG
1 TGCCGTGTCACCCCACAAGACTGTAACAAGTCAGCATGTCACGCCATAAGTCTGCAT-TACTCAG
* * * **
24551498 TGTGTCACCACATTTGGGCAG
65 CGTGTCACCACAATTGGCCCC
* * *
24551519 TGCCGTGTCACCCCACAAGACTGTAACAAGTCAGCATGTCATGCCATAAGTCTGTATGTGCTCAG
1 TGCCGTGTCACCCCACAAGACTGTAACAAGTCAGCATGTCACGCCATAAGTCTGCAT-TACTCAG
*
24551584 CGTGTCACCGCAATTGGCCCC
65 CGTGTCACCACAATTGGCCCC
*
24551605 TGCCGTGTCACCCCACAAGACTGTAACAAGTCAGCATGTCACGCCAGAAGTCTGCATTCACTCAG
1 TGCCGTGTCACCCCACAAGACTGTAACAAGTCAGCATGTCACGCCATAAGTCTGCATT-ACTCAG
* * *
24551670 CGTGTCACCATAATTGGGCCT
65 CGTGTCACCACAATTGGCCCC
* * ** * * * * *
24551691 TGTCGTGTCATCAGACAAGACTGCAACAATTTAGCGTGTCACACCATAAGTCTGCATTTACTCAG
1 TGCCGTGTCACCCCACAAGACTGTAACAAGTCAGCATGTCACGCCATAAGTCTGCA-TTACTCAG
24551756 CGTGT
65 CGTGT
24551761 TACGCCATAA
Statistics
Matches: 202, Mismatches: 35, Indels: 7
0.83 0.14 0.03
Matches are distributed among these distances:
83 9 0.04
84 28 0.14
85 1 0.00
86 162 0.80
87 2 0.01
ACGTcount: A:0.24, C:0.29, G:0.22, T:0.25
Consensus pattern (85 bp):
TGCCGTGTCACCCCACAAGACTGTAACAAGTCAGCATGTCACGCCATAAGTCTGCATTACTCAGC
GTGTCACCACAATTGGCCCC
Found at i:24551740 original size:172 final size:169
Alignment explanation
Indices: 24551436--24551760 Score: 389
Period size: 172 Copynumber: 1.9 Consensus size: 169
24551426 ATTAATTTTG
* * ** * * *
24551436 TGCCGTGTCTCCCACAAGACTGCAACAATTTGGCGTGTCACGCCAAGTCTGCATGCACTTAGTGT
1 TGCCGTGTCCCCCACAAGACTGCAACAAGTCAGCATGTCACGCCAAGTCTGCATGCACTCAGCGT
* * * **
24551501 GTCACCACATTTGGGCAGTGCCGTGTCACCCCACAAGACTGTAACAAGTCAGCATGTCATGCCAT
66 GTCACCACAATTGGGCAGTGCCGTGTCACCACACAAGACTGCAACAAGTCAGCATGTCACACCAT
* *
24551566 AAGTCTGTATGTGCTCAGCGTGTCACCGCAATTGGCCCC
131 AAGTCTGCATGTACTCAGCGTGTCACCGCAATTGGCCCC
* *
24551605 TGCCGTGTCACCCCACAAGACTGTAACAAGTCAGCATGTCACGCCAGAAGTCTGCATTCACTCAG
1 TGCCGTGTC-CCCCACAAGACTGCAACAAGTCAGCATGTCACGCC--AAGTCTGCATGCACTCAG
* ** * * * * * *
24551670 CGTGTCACCATAATTGGGCCTTGTCGTGTCATCAGACAAGACTGCAACAATTTAGCGTGTCACAC
63 CGTGTCACCACAATTGGGCAGTGCCGTGTCACCACACAAGACTGCAACAAGTCAGCATGTCACAC
*
24551735 CATAAGTCTGCATTTACTCAGCGTGT
128 CATAAGTCTGCATGTACTCAGCGTGT
24551761 TACGCCATAA
Statistics
Matches: 127, Mismatches: 26, Indels: 3
0.81 0.17 0.02
Matches are distributed among these distances:
169 9 0.07
170 29 0.23
172 89 0.70
ACGTcount: A:0.24, C:0.29, G:0.22, T:0.25
Consensus pattern (169 bp):
TGCCGTGTCCCCCACAAGACTGCAACAAGTCAGCATGTCACGCCAAGTCTGCATGCACTCAGCGT
GTCACCACAATTGGGCAGTGCCGTGTCACCACACAAGACTGCAACAAGTCAGCATGTCACACCAT
AAGTCTGCATGTACTCAGCGTGTCACCGCAATTGGCCCC
Found at i:24551758 original size:31 final size:30
Alignment explanation
Indices: 24551723--24551825 Score: 102
Period size: 31 Copynumber: 3.3 Consensus size: 30
24551713 GCAACAATTT
24551723 AGCGTGTCACACCATAAGTCTGCATTTACTC
1 AGCGTGTCACACCATAAGTCTGC-TTTACTC
* * *
24551754 AGCGTGTTACGCCATAAGTCTGCTTTCAGTC
1 AGCGTGTCACACCATAAGTCTGCTTT-ACTC
* *
24551785 AGTGTGT--CACCATAAGCATCTGCTCTCACTC
1 AGCGTGTCACACCATAAG--TCTGCT-TTACTC
24551816 AGCGTGTCAC
1 AGCGTGTCAC
24551826 CAGAAAATGT
Statistics
Matches: 58, Mismatches: 8, Indels: 10
0.76 0.11 0.13
Matches are distributed among these distances:
29 8 0.14
30 3 0.05
31 45 0.78
32 1 0.02
33 1 0.02
ACGTcount: A:0.22, C:0.29, G:0.19, T:0.29
Consensus pattern (30 bp):
AGCGTGTCACACCATAAGTCTGCTTTACTC
Found at i:24577965 original size:18 final size:18
Alignment explanation
Indices: 24577942--24577976 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
24577932 ACCTCTCTCC
24577942 TTTTTCATTCTTTCATTT
1 TTTTTCATTCTTTCATTT
* *
24577960 TTTTTCCTTTTTTCATT
1 TTTTTCATTCTTTCATT
24577977 ATTATATTTT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.09, C:0.17, G:0.00, T:0.74
Consensus pattern (18 bp):
TTTTTCATTCTTTCATTT
Found at i:24580966 original size:119 final size:119
Alignment explanation
Indices: 24580739--24580970 Score: 283
Period size: 119 Copynumber: 1.9 Consensus size: 119
24580729 TAACAGCAAA
* * * *
24580739 CATGTCACGACTCGACACTCCCTTCGAGCCCGTGACATCCGCCGTGATGTCTCGATAGACATTCA
1 CATGTCACGACTCGACACTCCCTTCGAGCCCGTGACAACCGCCGCGATCTCCCGATAGACATTCA
* ** * *
24580804 TTATCCGAAATGTCAACCGAAACCTCGCAAGGCTCTTGCATCAGTTTTACATCT
66 TTACCCGAAATACCAACCGAAACCTCGCAAGACTCTTACATCAGTTTTACATCT
* *
24580858 CATGTCACGACTC-AGTACTCTCCTT-GAGCCCGTGACAACCGTCGCGATCTCCCGATAGACATT
1 CATGTCACGACTCGA-CACTC-CCTTCGAGCCCGTGACAACCGCCGCGATCTCCCGATAGACATT
* *
24580921 CATTACCC-AGAATACCAACCGAAACCTCGTAAGACT-TTAATATCAGTTTT
64 CATTACCCGA-AATACCAACCGAAACCTCGCAAGACTCTT-ACATCAGTTTT
24580971 CTCACCTCCT
Statistics
Matches: 96, Mismatches: 13, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
118 4 0.04
119 88 0.92
120 4 0.04
ACGTcount: A:0.26, C:0.31, G:0.16, T:0.26
Consensus pattern (119 bp):
CATGTCACGACTCGACACTCCCTTCGAGCCCGTGACAACCGCCGCGATCTCCCGATAGACATTCA
TTACCCGAAATACCAACCGAAACCTCGCAAGACTCTTACATCAGTTTTACATCT
Found at i:24584590 original size:31 final size:31
Alignment explanation
Indices: 24584548--24584677 Score: 197
Period size: 31 Copynumber: 4.2 Consensus size: 31
24584538 AAATTTGTCA
* * *
24584548 TAAAATATGGTAACACACCATGTATATAAAG
1 TAAAATGTGGTAACACGCCATGCATATAAAG
* *
24584579 TAAAATGTGGTAACATGCCATGCATATAACG
1 TAAAATGTGGTAACACGCCATGCATATAAAG
*
24584610 TAAAATGTGGTAACACGCCATGCATATAACG
1 TAAAATGTGGTAACACGCCATGCATATAAAG
*
24584641 TAAAATGTGGCAACACGCCATGCATATAAAG
1 TAAAATGTGGTAACACGCCATGCATATAAAG
24584672 TAAAAT
1 TAAAAT
24584678 ATTTTATAAA
Statistics
Matches: 91, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
31 91 1.00
ACGTcount: A:0.43, C:0.16, G:0.17, T:0.24
Consensus pattern (31 bp):
TAAAATGTGGTAACACGCCATGCATATAAAG
Found at i:24584645 original size:62 final size:62
Alignment explanation
Indices: 24584548--24584806 Score: 284
Period size: 62 Copynumber: 4.0 Consensus size: 62
24584538 AAATTTGTCA
* * *
24584548 TAAAATATGGTAACACACCATGTATATAAAGTAAAATGTGGTAACATGCCATGCATATAACG
1 TAAAATATGGTAACACACCATGCATATAACGTAAAATGTGGTAACACGCCATGCATATAACG
* * * *
24584610 TAAAATGTGGTAACACGCCATGCATATAACGTAAAATGTGGCAACACGCCATGCATATAAAG
1 TAAAATATGGTAACACACCATGCATATAACGTAAAATGTGGTAACACGCCATGCATATAACG
*
24584672 TAAAATATTTTATAAAATATGGTAACACGCCATGCATATAACGTAAAATGTGGTAACACGCCATG
1 ------------TAAAATATGGTAACACACCATGCATATAACGTAAAATGTGGTAACACGCCATG
*
24584737 CATATAACA
54 CATATAACG
* * * * *
24584746 TAAAATGTTGTAAGACACCATACATATAACGTAAAATGTTGTAACACGCCATGCATATAAC
1 TAAAATATGGTAACACACCATGCATATAACGTAAAATGTGGTAACACGCCATGCATATAAC
24584807 CAATATCGTG
Statistics
Matches: 168, Mismatches: 17, Indels: 24
0.80 0.08 0.11
Matches are distributed among these distances:
62 110 0.65
74 58 0.35
ACGTcount: A:0.42, C:0.17, G:0.15, T:0.25
Consensus pattern (62 bp):
TAAAATATGGTAACACACCATGCATATAACGTAAAATGTGGTAACACGCCATGCATATAACG
Found at i:24584719 original size:105 final size:105
Alignment explanation
Indices: 24584579--24584782 Score: 327
Period size: 105 Copynumber: 1.9 Consensus size: 105
24584569 GTATATAAAG
* * *
24584579 TAAAATGTGGTAACATGCCATGCATATAACGTAAAATGTGGTAACACGCCATGCATATAACGTAA
1 TAAAATATGGTAACACGCCATGCATATAACGTAAAATGTGGTAACACGCCATGCATATAACATAA
* *
24584644 AATGTGGCAACACGCCATGCATATAAAGTAAAATATTTTA
66 AATGTGGCAACACACCATACATATAAAGTAAAATATTTTA
24584684 TAAAATATGGTAACACGCCATGCATATAACGTAAAATGTGGTAACACGCCATGCATATAACATAA
1 TAAAATATGGTAACACGCCATGCATATAACGTAAAATGTGGTAACACGCCATGCATATAACATAA
* * * *
24584749 AATGTTGTAAGACACCATACATATAACGTAAAAT
66 AATGTGGCAACACACCATACATATAAAGTAAAAT
24584783 GTTGTAACAC
Statistics
Matches: 90, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
105 90 1.00
ACGTcount: A:0.43, C:0.17, G:0.16, T:0.25
Consensus pattern (105 bp):
TAAAATATGGTAACACGCCATGCATATAACGTAAAATGTGGTAACACGCCATGCATATAACATAA
AATGTGGCAACACACCATACATATAAAGTAAAATATTTTA
Found at i:24584726 original size:31 final size:31
Alignment explanation
Indices: 24584684--24584806 Score: 183
Period size: 31 Copynumber: 4.0 Consensus size: 31
24584674 AAATATTTTA
*
24584684 TAAAATATGGTAACACGCCATGCATATAACG
1 TAAAATGTGGTAACACGCCATGCATATAACG
*
24584715 TAAAATGTGGTAACACGCCATGCATATAACA
1 TAAAATGTGGTAACACGCCATGCATATAACG
* * * *
24584746 TAAAATGTTGTAAGACACCATACATATAACG
1 TAAAATGTGGTAACACGCCATGCATATAACG
*
24584777 TAAAATGTTGTAACACGCCATGCATATAAC
1 TAAAATGTGGTAACACGCCATGCATATAAC
24584807 CAATATCGTG
Statistics
Matches: 82, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 82 1.00
ACGTcount: A:0.42, C:0.19, G:0.15, T:0.24
Consensus pattern (31 bp):
TAAAATGTGGTAACACGCCATGCATATAACG
Found at i:24584731 original size:74 final size:74
Alignment explanation
Indices: 24584610--24584751 Score: 250
Period size: 74 Copynumber: 1.9 Consensus size: 74
24584600 GCATATAACG
*
24584610 TAAAATGTGGTAACACGCCATGCATATAACGTAAAATGTGGCAACACGCCATGCATATAA-AGTA
1 TAAAATATGGTAACACGCCATGCATATAACGTAAAATGTGGCAACACGCCATGCATATAACA-TA
24584674 AAATATTTTA
65 AAATATTTTA
*
24584684 TAAAATATGGTAACACGCCATGCATATAACGTAAAATGTGGTAACACGCCATGCATATAACATAA
1 TAAAATATGGTAACACGCCATGCATATAACGTAAAATGTGGCAACACGCCATGCATATAACATAA
24584749 AAT
66 AAT
24584752 GTTGTAAGAC
Statistics
Matches: 65, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
74 64 0.98
75 1 0.02
ACGTcount: A:0.43, C:0.17, G:0.15, T:0.25
Consensus pattern (74 bp):
TAAAATATGGTAACACGCCATGCATATAACGTAAAATGTGGCAACACGCCATGCATATAACATAA
AATATTTTA
Found at i:24584781 original size:136 final size:136
Alignment explanation
Indices: 24584547--24584805 Score: 419
Period size: 136 Copynumber: 1.9 Consensus size: 136
24584537 AAAATTTGTC
* * *
24584547 ATAAAATATGGTAACACACCATGTATATAAAGTAAAATGTGGTAACATGCCATGCATATAACGTA
1 ATAAAATATGGTAACACACCATGCATATAAAGTAAAATGTGGTAACACGCCATGCATATAACATA
* *
24584612 AAATGTGGTAACACGCCATGCATATAACGTAAAATGTGGCAACACGCCATGCATATAAAGTAAAA
66 AAATGTGGTAACACACCATACATATAACGTAAAATGTGGCAACACGCCATGCATATAAAGTAAAA
24584677 TATTTT
131 TATTTT
* *
24584683 ATAAAATATGGTAACACGCCATGCATATAACGTAAAATGTGGTAACACGCCATGCATATAACATA
1 ATAAAATATGGTAACACACCATGCATATAAAGTAAAATGTGGTAACACGCCATGCATATAACATA
* * * *
24584748 AAATGTTGTAAGACACCATACATATAACGTAAAATGTTGTAACACGCCATGCATATAA
66 AAATGTGGTAACACACCATACATATAACGTAAAATGTGGCAACACGCCATGCATATAA
24584806 CCAATATCGT
Statistics
Matches: 112, Mismatches: 11, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
136 112 1.00
ACGTcount: A:0.43, C:0.17, G:0.15, T:0.25
Consensus pattern (136 bp):
ATAAAATATGGTAACACACCATGCATATAAAGTAAAATGTGGTAACACGCCATGCATATAACATA
AAATGTGGTAACACACCATACATATAACGTAAAATGTGGCAACACGCCATGCATATAAAGTAAAA
TATTTT
Found at i:24585142 original size:63 final size:63
Alignment explanation
Indices: 24585038--24585157 Score: 152
Period size: 63 Copynumber: 1.9 Consensus size: 63
24585028 TAGCCCGATA
* * * * *
24585038 ACGATGGTGCTCAATAAAGAGTTGACAGAGCTCATATAGTTCAGAGATTTGAGAGAGCTGACG
1 ACGATGGTGCTCAATAAAGAGTTGACAAAGCTCAGACAGTTCAGAGAGTTAAGAGAGCTGACG
* * *
24585101 ACGATGGTGCTC-ATAAGAGAGTTGGCAAAGTTGAGACAGTTCAGAGAGTTAAGAGAG
1 ACGATGGTGCTCAATAA-AGAGTTGACAAAGCTCAGACAGTTCAGAGAGTTAAGAGAG
24585158 AAAGATGACC
Statistics
Matches: 48, Mismatches: 8, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
62 4 0.08
63 44 0.92
ACGTcount: A:0.34, C:0.12, G:0.31, T:0.23
Consensus pattern (63 bp):
ACGATGGTGCTCAATAAAGAGTTGACAAAGCTCAGACAGTTCAGAGAGTTAAGAGAGCTGACG
Found at i:24585714 original size:21 final size:21
Alignment explanation
Indices: 24585688--24585735 Score: 87
Period size: 21 Copynumber: 2.3 Consensus size: 21
24585678 CCACTATTAT
*
24585688 TAAGTAATAGGATAACTCAAA
1 TAAGTAATAGGAGAACTCAAA
24585709 TAAGTAATAGGAGAACTCAAA
1 TAAGTAATAGGAGAACTCAAA
24585730 TAAGTA
1 TAAGTA
24585736 TTTCTCTTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.52, C:0.08, G:0.17, T:0.23
Consensus pattern (21 bp):
TAAGTAATAGGAGAACTCAAA
Found at i:24585816 original size:14 final size:15
Alignment explanation
Indices: 24585797--24585825 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
24585787 GAAAATCACG
24585797 AAAGGA-GAAAATAA
1 AAAGGATGAAAATAA
24585811 AAAGGATGAAAATAA
1 AAAGGATGAAAATAA
24585826 GTAGATACAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 6 0.43
15 8 0.57
ACGTcount: A:0.69, C:0.00, G:0.21, T:0.10
Consensus pattern (15 bp):
AAAGGATGAAAATAA
Found at i:24585920 original size:21 final size:21
Alignment explanation
Indices: 24585896--24585940 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
24585886 AAACAGCCAT
**
24585896 TAATCAAATTTTTAATTACTG
1 TAATCAAATAATTAATTACTG
*
24585917 TAATCAAATAATTAATTATTG
1 TAATCAAATAATTAATTACTG
24585938 TAA
1 TAA
24585941 AGTGCAAAGA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.44, C:0.07, G:0.04, T:0.44
Consensus pattern (21 bp):
TAATCAAATAATTAATTACTG
Found at i:24586965 original size:2 final size:2
Alignment explanation
Indices: 24586958--24586987 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
24586948 TTATAATACA
24586958 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
24586988 CTTAGTAATT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:24595459 original size:26 final size:26
Alignment explanation
Indices: 24595428--24595532 Score: 90
Period size: 26 Copynumber: 4.0 Consensus size: 26
24595418 ATTTTAATTC
*
24595428 TAATTTTACCACTAGAAGTGGATGGA
1 TAATTTTACCACTAGAAGTAGATGGA
* * *
24595454 TAATTTTACCATTAGAATCTA-A-GAA
1 TAATTTTACCACTAGAA-GTAGATGGA
* * * *
24595479 TAATTTTACTACAAGAAGTAAATAGA
1 TAATTTTACCACTAGAAGTAGATGGA
24595505 TAATTTTACCA-TCAGAAAGTAGATGGA
1 TAATTTTACCACT-AG-AAGTAGATGGA
24595532 T
1 T
24595533 GCCTTAACCC
Statistics
Matches: 60, Mismatches: 14, Indels: 9
0.72 0.17 0.11
Matches are distributed among these distances:
24 2 0.03
25 17 0.28
26 30 0.50
27 11 0.18
ACGTcount: A:0.42, C:0.10, G:0.15, T:0.32
Consensus pattern (26 bp):
TAATTTTACCACTAGAAGTAGATGGA
Found at i:24595599 original size:36 final size:35
Alignment explanation
Indices: 24595545--24595616 Score: 81
Period size: 36 Copynumber: 2.0 Consensus size: 35
24595535 CTTAACCCAT
* * *
24595545 TAACCCATTAAAAATGGATAATCCACTAGAAGTGGA
1 TAACCCATCAAAAATGGATAA-CCACCAAAAGTGGA
* * *
24595581 TAACCCATCATAAGTGGATCACCACCAAAAGTGGA
1 TAACCCATCAAAAATGGATAACCACCAAAAGTGGA
24595616 T
1 T
24595617 GGATACTTGT
Statistics
Matches: 30, Mismatches: 6, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
35 13 0.43
36 17 0.57
ACGTcount: A:0.42, C:0.21, G:0.17, T:0.21
Consensus pattern (35 bp):
TAACCCATCAAAAATGGATAACCACCAAAAGTGGA
Found at i:24595696 original size:14 final size:15
Alignment explanation
Indices: 24595677--24595706 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
24595667 GTAGATGAAT
24595677 AATGAAAA-AATAAA
1 AATGAAAAGAATAAA
24595691 AATGAAAAGAATAAA
1 AATGAAAAGAATAAA
24595706 A
1 A
24595707 GGAATATAGA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 8 0.53
15 7 0.47
ACGTcount: A:0.77, C:0.00, G:0.10, T:0.13
Consensus pattern (15 bp):
AATGAAAAGAATAAA
Found at i:24609126 original size:2 final size:2
Alignment explanation
Indices: 24609119--24609148 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
24609109 AAATATTCTA
24609119 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
24609149 GATGAAAGGT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:24611048 original size:4 final size:4
Alignment explanation
Indices: 24611039--24611064 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
24611029 ATGGTTGCAA
24611039 TTCT TTCT TTCT TTCT TTCT TTCT TT
1 TTCT TTCT TTCT TTCT TTCT TTCT TT
24611065 TTTTTTTTTG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (4 bp):
TTCT
Found at i:24618177 original size:11 final size:11
Alignment explanation
Indices: 24618158--24618187 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
24618148 TTCATTGGAA
24618158 ATTTCCAACGG
1 ATTTCCAACGG
*
24618169 ATTTGCAACGG
1 ATTTCCAACGG
24618180 ATTTCCAA
1 ATTTCCAA
24618188 TAAATTTCTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.30, C:0.23, G:0.17, T:0.30
Consensus pattern (11 bp):
ATTTCCAACGG
Found at i:24618808 original size:26 final size:26
Alignment explanation
Indices: 24618778--24618827 Score: 66
Period size: 26 Copynumber: 1.9 Consensus size: 26
24618768 TTTCCAATGG
24618778 AATTTCCAATAG-AATTTTCCGTTGAA
1 AATTTCCAA-AGAAATTTTCCGTTGAA
* *
24618804 AATTTTCAACGAAATTTTCCGTTG
1 AATTTCCAAAGAAATTTTCCGTTG
24618828 GAAAGTAACT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 1 0.05
26 20 0.95
ACGTcount: A:0.32, C:0.16, G:0.12, T:0.40
Consensus pattern (26 bp):
AATTTCCAAAGAAATTTTCCGTTGAA
Found at i:24619352 original size:2 final size:2
Alignment explanation
Indices: 24619345--24619381 Score: 56
Period size: 2 Copynumber: 18.5 Consensus size: 2
24619335 GCTATAGAAA
* *
24619345 AT AT AT AT AA AT TT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
24619382 NNNNNNNNNN
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:24643305 original size:30 final size:30
Alignment explanation
Indices: 24643265--24643323 Score: 100
Period size: 30 Copynumber: 2.0 Consensus size: 30
24643255 TTCAACTGAT
*
24643265 TTTTCCGTTGGAAATAGGATTTCCAACGGA
1 TTTTCAGTTGGAAATAGGATTTCCAACGGA
*
24643295 TTTTCAGTTGGAAATAGGCTTTCCAACGG
1 TTTTCAGTTGGAAATAGGATTTCCAACGG
24643324 GAATTGTTCC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.25, C:0.17, G:0.24, T:0.34
Consensus pattern (30 bp):
TTTTCAGTTGGAAATAGGATTTCCAACGGA
Found at i:24643412 original size:44 final size:42
Alignment explanation
Indices: 24643342--24643470 Score: 109
Period size: 44 Copynumber: 3.0 Consensus size: 42
24643332 CCAACTATTT
* * * **
24643342 TTTCCGTTGGAAATAGGATTTTCAACGGATTTTTCGTTGGAAAA
1 TTTCCGTTGG-AATTGCATTTTCAACGAAAATTTCGTTGG-AAA
*
24643386 TTTCCGTTGGAATTGCCTTTTCCAACGAAAATTTCGTTGGAAA
1 TTTCCGTTGGAATTGCATTTT-CAACGAAAATTTCGTTGGAAA
** * * *
24643429 TTTCCAATGGAATT--ATTTTCCAATGAAATTTTCATTGGAAA
1 TTTCCGTTGGAATTGCATTTT-CAACGAAAATTTCGTTGGAAA
24643470 T
1 T
24643471 CCCTTGGAAA
Statistics
Matches: 72, Mismatches: 12, Indels: 5
0.81 0.13 0.06
Matches are distributed among these distances:
41 24 0.33
43 23 0.32
44 25 0.35
ACGTcount: A:0.29, C:0.14, G:0.18, T:0.40
Consensus pattern (42 bp):
TTTCCGTTGGAATTGCATTTTCAACGAAAATTTCGTTGGAAA
Found at i:24652609 original size:15 final size:15
Alignment explanation
Indices: 24652589--24652625 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 15
24652579 TTTACATATT
*
24652589 TTAATATTTAAATAA
1 TTAATATTAAAATAA
24652604 TTAATATTAAAAT-A
1 TTAATATTAAAATAA
24652618 TT-ATATTA
1 TTAATATTA
24652626 TTTTTATCAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 6 0.29
14 3 0.14
15 12 0.57
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (15 bp):
TTAATATTAAAATAA
Found at i:24656547 original size:10 final size:10
Alignment explanation
Indices: 24656529--24656560 Score: 55
Period size: 10 Copynumber: 3.2 Consensus size: 10
24656519 CTTCCAGCTA
24656529 CTTTATTTTT
1 CTTTATTTTT
*
24656539 CTTTTTTTTT
1 CTTTATTTTT
24656549 CTTTATTTTT
1 CTTTATTTTT
24656559 CT
1 CT
24656561 AATTTATGTG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.06, C:0.12, G:0.00, T:0.81
Consensus pattern (10 bp):
CTTTATTTTT
Found at i:24660385 original size:7 final size:7
Alignment explanation
Indices: 24660373--24660408 Score: 54
Period size: 7 Copynumber: 5.1 Consensus size: 7
24660363 AGTAGGGGCA
*
24660373 AGCAAGT
1 AGCAACT
*
24660380 AGCAAGT
1 AGCAACT
24660387 AGCAACT
1 AGCAACT
24660394 AGCAACT
1 AGCAACT
24660401 AGCAACT
1 AGCAACT
24660408 A
1 A
24660409 CTGGGAAAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
7 28 1.00
ACGTcount: A:0.44, C:0.22, G:0.19, T:0.14
Consensus pattern (7 bp):
AGCAACT
Found at i:24664800 original size:90 final size:90
Alignment explanation
Indices: 24664643--24664811 Score: 286
Period size: 90 Copynumber: 1.9 Consensus size: 90
24664633 AGATATACTA
* *
24664643 GGTATGGAACCTCTCATCTTCAGCTGACATTGAGATTTGAATTAGATGAAAGCATCTAAATAACC
1 GGTATGGAACCTCTCATCTTCAGCTGACATTCAGAATTGAATTAGATGAAAGCATCTAAATAACC
24664708 AGTGAGCAATAAAACACAGGTAGTT
66 AGTGAGCAATAAAACACAGGTAGTT
* *
24664733 GGTATGGAACTTCTCATCTTCAGCTGAC-TTACAGAATTGAATTAGATGAAAGCATCTAAATAGC
1 GGTATGGAACCTCTCATCTTCAGCTGACATT-CAGAATTGAATTAGATGAAAGCATCTAAATAAC
24664797 CAGTGAGCAATAAAA
65 CAGTGAGCAATAAAA
24664812 GCCAATGCAG
Statistics
Matches: 74, Mismatches: 4, Indels: 2
0.93 0.05 0.03
Matches are distributed among these distances:
89 2 0.03
90 72 0.97
ACGTcount: A:0.37, C:0.17, G:0.20, T:0.27
Consensus pattern (90 bp):
GGTATGGAACCTCTCATCTTCAGCTGACATTCAGAATTGAATTAGATGAAAGCATCTAAATAACC
AGTGAGCAATAAAACACAGGTAGTT
Found at i:24674470 original size:24 final size:23
Alignment explanation
Indices: 24674443--24674500 Score: 80
Period size: 23 Copynumber: 2.5 Consensus size: 23
24674433 AATCTAGTTA
* *
24674443 TATTAGAATAACAATTCCTAATTT
1 TATTAGGATAA-AATTCCTAATTG
*
24674467 TATTAGGATAAGATTCCTAATTG
1 TATTAGGATAAAATTCCTAATTG
24674490 TATTAGGATAA
1 TATTAGGATAA
24674501 GGTTATTGTA
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
23 21 0.68
24 10 0.32
ACGTcount: A:0.40, C:0.09, G:0.12, T:0.40
Consensus pattern (23 bp):
TATTAGGATAAAATTCCTAATTG
Found at i:24674486 original size:23 final size:23
Alignment explanation
Indices: 24674456--24674501 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
24674446 TAGAATAACA
*
24674456 ATTCCTAATTTTATTAGGATAAG
1 ATTCCTAATTGTATTAGGATAAG
24674479 ATTCCTAATTGTATTAGGATAAG
1 ATTCCTAATTGTATTAGGATAAG
24674502 GTTATTGTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.35, C:0.09, G:0.15, T:0.41
Consensus pattern (23 bp):
ATTCCTAATTGTATTAGGATAAG
Found at i:24677769 original size:24 final size:23
Alignment explanation
Indices: 24677742--24677799 Score: 80
Period size: 23 Copynumber: 2.5 Consensus size: 23
24677732 AATCTAGTTA
*
24677742 TATTAGAATAACAATTCCTAATTC
1 TATTAGGATAA-AATTCCTAATTC
* *
24677766 TATTAGGATAAGATTCCTAATTG
1 TATTAGGATAAAATTCCTAATTC
24677789 TATTAGGATAA
1 TATTAGGATAA
24677800 GGTTATTGTA
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
23 21 0.68
24 10 0.32
ACGTcount: A:0.40, C:0.10, G:0.12, T:0.38
Consensus pattern (23 bp):
TATTAGGATAAAATTCCTAATTC
Found at i:24677785 original size:23 final size:23
Alignment explanation
Indices: 24677755--24677800 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
24677745 TAGAATAACA
24677755 ATTCCTAATTCTATTAGGATAAG
1 ATTCCTAATTCTATTAGGATAAG
*
24677778 ATTCCTAATTGTATTAGGATAAG
1 ATTCCTAATTCTATTAGGATAAG
24677801 GTTATTGTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.35, C:0.11, G:0.15, T:0.39
Consensus pattern (23 bp):
ATTCCTAATTCTATTAGGATAAG
Found at i:24680862 original size:15 final size:15
Alignment explanation
Indices: 24680838--24680871 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
24680828 GAGCATGTAC
* *
24680838 TTAAAGGTTAATTGA
1 TTAAAAGTTAATTAA
24680853 TTAAAAGTTAATTAA
1 TTAAAAGTTAATTAA
24680868 TTAA
1 TTAA
24680872 TTTAATTTGC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.47, C:0.00, G:0.12, T:0.41
Consensus pattern (15 bp):
TTAAAAGTTAATTAA
Found at i:24694987 original size:33 final size:33
Alignment explanation
Indices: 24694926--24695012 Score: 111
Period size: 33 Copynumber: 2.6 Consensus size: 33
24694916 AAAAAAAATT
* * *
24694926 AAAATAAAATATATAATATACAAAATTATATTAA
1 AAAATAAAA-ATAAAATATATAAAATTATAATAA
* *
24694960 GAAATAAAAATAAAATATATAAGATTATAATAA
1 AAAATAAAAATAAAATATATAAAATTATAATAA
*
24694993 AAAATGAAAATAAAATATAT
1 AAAATAAAAATAAAATATAT
24695013 GACATTAAAA
Statistics
Matches: 46, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
33 38 0.83
34 8 0.17
ACGTcount: A:0.67, C:0.01, G:0.03, T:0.29
Consensus pattern (33 bp):
AAAATAAAAATAAAATATATAAAATTATAATAA
Found at i:24695259 original size:14 final size:15
Alignment explanation
Indices: 24695228--24695266 Score: 53
Period size: 14 Copynumber: 2.7 Consensus size: 15
24695218 TCTTCTTTAT
24695228 AATCATATTATCTGC
1 AATCATATTATCTGC
*
24695243 AATCATATTGT-TGC
1 AATCATATTATCTGC
*
24695257 AATCACATTA
1 AATCATATTA
24695267 CCTATAATTA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
14 11 0.52
15 10 0.48
ACGTcount: A:0.36, C:0.18, G:0.08, T:0.38
Consensus pattern (15 bp):
AATCATATTATCTGC
Found at i:24703447 original size:18 final size:19
Alignment explanation
Indices: 24703424--24703459 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
24703414 TAATTTATAA
24703424 TATTAA-ATTTTAATTATT
1 TATTAATATTTTAATTATT
*
24703442 TATTAATATTTTATTTAT
1 TATTAATATTTTAATTAT
24703460 AAATTGATTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 6 0.38
19 10 0.62
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (19 bp):
TATTAATATTTTAATTATT
Found at i:24703883 original size:21 final size:21
Alignment explanation
Indices: 24703859--24703931 Score: 69
Period size: 21 Copynumber: 3.5 Consensus size: 21
24703849 GGATATGATA
*
24703859 TAAATTTAAATTTTATTTGTT
1 TAAATTTAAATTTAATTTGTT
* *
24703880 TAAATTTAAA--TAAGGATTGAT
1 TAAATTTAAATTTAA--TTTGTT
* *
24703901 TACATTTAAATTTAATTTATT
1 TAAATTTAAATTTAATTTGTT
24703922 TAAATTTAAA
1 TAAATTTAAA
24703932 AGAAATATCA
Statistics
Matches: 40, Mismatches: 8, Indels: 8
0.71 0.14 0.14
Matches are distributed among these distances:
19 2 0.05
21 35 0.88
23 3 0.08
ACGTcount: A:0.42, C:0.01, G:0.05, T:0.51
Consensus pattern (21 bp):
TAAATTTAAATTTAATTTGTT
Found at i:24704469 original size:45 final size:45
Alignment explanation
Indices: 24704407--24704499 Score: 159
Period size: 45 Copynumber: 2.1 Consensus size: 45
24704397 AGATATGTTT
* *
24704407 TATTTTTTATTTGCTTTCTAAGGATATATTATATGTATTTTTATA
1 TATTTTTGATTTCCTTTCTAAGGATATATTATATGTATTTTTATA
*
24704452 TATTTTTGATTTCCTTTCTAATGATATATTATATGTATTTTTATA
1 TATTTTTGATTTCCTTTCTAAGGATATATTATATGTATTTTTATA
24704497 TAT
1 TAT
24704500 ATCATAAAAA
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
45 45 1.00
ACGTcount: A:0.27, C:0.05, G:0.08, T:0.60
Consensus pattern (45 bp):
TATTTTTGATTTCCTTTCTAAGGATATATTATATGTATTTTTATA
Found at i:24708652 original size:28 final size:29
Alignment explanation
Indices: 24708594--24708658 Score: 78
Period size: 28 Copynumber: 2.3 Consensus size: 29
24708584 GTAAATTTTT
** * *
24708594 AAAAATTACACTTTTACCCCCGTACAGTG
1 AAAAATTACACTTTTACCCCCAAAAACTG
*
24708623 AAAAATTACATTTTTA-CCCCAAAAACTG
1 AAAAATTACACTTTTACCCCCAAAAACTG
24708651 AAAAATTA
1 AAAAATTA
24708659 TCCATAAACA
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
28 16 0.52
29 15 0.48
ACGTcount: A:0.45, C:0.22, G:0.06, T:0.28
Consensus pattern (29 bp):
AAAAATTACACTTTTACCCCCAAAAACTG
Found at i:24714807 original size:112 final size:112
Alignment explanation
Indices: 24714610--24714834 Score: 432
Period size: 112 Copynumber: 2.0 Consensus size: 112
24714600 GAGAGGAATC
*
24714610 GGGAGAGATTGTTATATTGGAGGAATTCGAGGACAAGGCTTTGCTATATATGTGGGGAGGTGATC
1 GGGAGAGATTGTTATATTGGAGGAATTCAAGGACAAGGCTTTGCTATATATGTGGGGAGGTGATC
*
24714675 TCCAGCCATTATAACCACTATTTTTGGCTGCAGAGTGGCTGATGCTT
66 TCCAGCCATTATAACCACTATTTTTGGCTGCAGAGTGACTGATGCTT
24714722 GGGAGAGATTGTTATATTGGAGGAATTCAAGGACAAGGCTTTGCTATATATGTGGGGAGGTGATC
1 GGGAGAGATTGTTATATTGGAGGAATTCAAGGACAAGGCTTTGCTATATATGTGGGGAGGTGATC
24714787 TCCAGCCATTATAACCACTATTTTTGGCTGCAGAGTGACTGATGCTT
66 TCCAGCCATTATAACCACTATTTTTGGCTGCAGAGTGACTGATGCTT
24714834 G
1 G
24714835 TATCCTTTCT
Statistics
Matches: 111, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
112 111 1.00
ACGTcount: A:0.25, C:0.14, G:0.30, T:0.31
Consensus pattern (112 bp):
GGGAGAGATTGTTATATTGGAGGAATTCAAGGACAAGGCTTTGCTATATATGTGGGGAGGTGATC
TCCAGCCATTATAACCACTATTTTTGGCTGCAGAGTGACTGATGCTT
Found at i:24715114 original size:2 final size:2
Alignment explanation
Indices: 24715107--24715136 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
24715097 AAAATGATCA
24715107 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
24715137 GTGTGTGTGT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:24715141 original size:2 final size:2
Alignment explanation
Indices: 24715136--24715164 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
24715126 TATATATATA
24715136 TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
24715165 ATATGAATGA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.00, C:0.00, G:0.48, T:0.52
Consensus pattern (2 bp):
TG
Found at i:24716526 original size:13 final size:13
Alignment explanation
Indices: 24716508--24716533 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
24716498 TTTTGAAGTC
24716508 TGAAAAAAGATTT
1 TGAAAAAAGATTT
24716521 TGAAAAAAGATTT
1 TGAAAAAAGATTT
24716534 AGAATGAAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.54, C:0.00, G:0.15, T:0.31
Consensus pattern (13 bp):
TGAAAAAAGATTT
Found at i:24717910 original size:15 final size:16
Alignment explanation
Indices: 24717892--24717921 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
24717882 TTGTTATGTG
24717892 GATTTT-ATTTTTAAT
1 GATTTTAATTTTTAAT
24717907 GATTTTAATTTTTAA
1 GATTTTAATTTTTAA
24717922 AAATTAAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.30, C:0.00, G:0.07, T:0.63
Consensus pattern (16 bp):
GATTTTAATTTTTAAT
Found at i:24720414 original size:32 final size:32
Alignment explanation
Indices: 24720376--24720439 Score: 128
Period size: 32 Copynumber: 2.0 Consensus size: 32
24720366 GATTCGACAA
24720376 CACTATTTCTCTTCCCGAATCCATTTACTCTG
1 CACTATTTCTCTTCCCGAATCCATTTACTCTG
24720408 CACTATTTCTCTTCCCGAATCCATTTACTCTG
1 CACTATTTCTCTTCCCGAATCCATTTACTCTG
24720440 GAGAAGATTC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.19, C:0.34, G:0.06, T:0.41
Consensus pattern (32 bp):
CACTATTTCTCTTCCCGAATCCATTTACTCTG
Found at i:24722984 original size:15 final size:17
Alignment explanation
Indices: 24722954--24722986 Score: 52
Period size: 15 Copynumber: 2.1 Consensus size: 17
24722944 TAATTTACTC
24722954 ACTTTCTCACTGGCCAA
1 ACTTTCTCACTGGCCAA
24722971 ACTTTC-CA-TGGCCAA
1 ACTTTCTCACTGGCCAA
24722986 A
1 A
24722987 AAAAAAAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 8 0.50
16 2 0.12
17 6 0.38
ACGTcount: A:0.27, C:0.33, G:0.12, T:0.27
Consensus pattern (17 bp):
ACTTTCTCACTGGCCAA
Found at i:24728118 original size:21 final size:21
Alignment explanation
Indices: 24728093--24728133 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
24728083 ATTAATATTT
24728093 ATATAAGTAAATAAAAATATA
1 ATATAAGTAAATAAAAATATA
* * *
24728114 ATATAATTAATTAAACATAT
1 ATATAAGTAAATAAAAATAT
24728134 CAAAATCATA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.61, C:0.02, G:0.02, T:0.34
Consensus pattern (21 bp):
ATATAAGTAAATAAAAATATA
Found at i:24736740 original size:29 final size:30
Alignment explanation
Indices: 24736708--24736773 Score: 82
Period size: 29 Copynumber: 2.3 Consensus size: 30
24736698 TAAACAAACT
24736708 ATTTTAATTAAAATT-TTTTGATCAATTTG
1 ATTTTAATTAAAATTGTTTTGATCAATTTG
** *
24736737 ATTTTAA-TAGGATTGTTTTGATTAATTTG
1 ATTTTAATTAAAATTGTTTTGATCAATTTG
*
24736766 GTTTTAAT
1 ATTTTAAT
24736774 CGAATTATAT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
28 5 0.16
29 26 0.84
ACGTcount: A:0.30, C:0.02, G:0.12, T:0.56
Consensus pattern (30 bp):
ATTTTAATTAAAATTGTTTTGATCAATTTG
Found at i:24750659 original size:3 final size:3
Alignment explanation
Indices: 24750651--24750675 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
24750641 GGGATTTTAC
24750651 TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT T
24750676 TTTAATTTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:24752054 original size:63 final size:63
Alignment explanation
Indices: 24751976--24752156 Score: 240
Period size: 63 Copynumber: 2.9 Consensus size: 63
24751966 TATTGCCAAG
* *
24751976 ATACATTTTCAACATAACTAATTTAGCCAATTAAATGCACTTAGTTGGTTAAGATATGTTGAC
1 ATACATTTTCAACATAACTAATTTAGCCAATTAAATGTACTAAGTTGGTTAAGATATGTTGAC
* * * * *
24752039 ATACATTTTCAACATAA-TGAATTTCGCCAATTAAATATACTAAGTTGGTTAAGGTGTGTTGAG
1 ATACATTTTCAACATAACT-AATTTAGCCAATTAAATGTACTAAGTTGGTTAAGATATGTTGAC
** *
24752102 ATGTATTTTCAACATAGCTAATTTAGCCAATTAAATGTACTAAGTT-GTTGAAGAT
1 ATACATTTTCAACATAACTAATTTAGCCAATTAAATGTACTAAGTTGGTT-AAGAT
24752157 GTAAAATTCA
Statistics
Matches: 102, Mismatches: 13, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
62 4 0.04
63 97 0.95
64 1 0.01
ACGTcount: A:0.36, C:0.12, G:0.15, T:0.37
Consensus pattern (63 bp):
ATACATTTTCAACATAACTAATTTAGCCAATTAAATGTACTAAGTTGGTTAAGATATGTTGAC
Found at i:24752456 original size:49 final size:49
Alignment explanation
Indices: 24752396--24752504 Score: 159
Period size: 49 Copynumber: 2.2 Consensus size: 49
24752386 AAGGCGAAAG
24752396 GGTTTCAAGATGTGC-AGGTTAAAAAGTTCCAGGATTGGTAAGGTTAAAA-
1 GGTTTCAAGATGTGCAAGGTTAAAAAGTTCCAGGATT-GTAA-GTTAAAAT
* **
24752445 GGTTTCAAGATGTGCAAGGTTAAAAGGTTTTAGGATTGTAAGTTAAAAT
1 GGTTTCAAGATGTGCAAGGTTAAAAAGTTCCAGGATTGTAAGTTAAAAT
24752494 GGTTTCAAGAT
1 GGTTTCAAGAT
24752505 TGAGATGCAC
Statistics
Matches: 55, Mismatches: 3, Indels: 4
0.89 0.05 0.06
Matches are distributed among these distances:
48 7 0.13
49 30 0.55
50 18 0.33
ACGTcount: A:0.34, C:0.06, G:0.28, T:0.32
Consensus pattern (49 bp):
GGTTTCAAGATGTGCAAGGTTAAAAAGTTCCAGGATTGTAAGTTAAAAT
Found at i:24752505 original size:24 final size:24
Alignment explanation
Indices: 24752396--24752506 Score: 109
Period size: 25 Copynumber: 4.5 Consensus size: 24
24752386 AAGGCGAAAG
24752396 GGTTTCAAGATGTGC-AGGTTAAAA
1 GGTTTCAAGAT-TGCAAGGTTAAAA
* * * *
24752420 AGTTCCAGGATTGGTAAGGTTAAAA
1 GGTTTCAAGATT-GCAAGGTTAAAA
24752445 GGTTTCAAGATGTGCAAGGTTAAAA
1 GGTTTCAAGAT-TGCAAGGTTAAAA
* * *
24752470 GGTTTTAGGATTGTAA-GTTAAAA
1 GGTTTCAAGATTGCAAGGTTAAAA
24752493 TGGTTTCAAGATTG
1 -GGTTTCAAGATTG
24752507 AGATGCACGC
Statistics
Matches: 70, Mismatches: 13, Indels: 8
0.77 0.14 0.09
Matches are distributed among these distances:
23 8 0.11
24 24 0.34
25 37 0.53
26 1 0.01
ACGTcount: A:0.33, C:0.06, G:0.28, T:0.32
Consensus pattern (24 bp):
GGTTTCAAGATTGCAAGGTTAAAA
Found at i:24752595 original size:36 final size:35
Alignment explanation
Indices: 24752548--24752633 Score: 102
Period size: 35 Copynumber: 2.4 Consensus size: 35
24752538 TGGTAAGGTC
* **
24752548 AAAAGCCTTGAGGATTGAAAAAC-TGTTTCACTGTTG
1 AAAAGCCTTGAGGATTGAAAAACAAG--TCAAGGTTG
* *
24752584 AAAAGCCTTGAGAATTGGAAAACAAGTCAAGGTTG
1 AAAAGCCTTGAGGATTGAAAAACAAGTCAAGGTTG
24752619 AAAAGCCTTGAGGAT
1 AAAAGCCTTGAGGAT
24752634 CAGAAAGCAT
Statistics
Matches: 43, Mismatches: 6, Indels: 3
0.83 0.12 0.06
Matches are distributed among these distances:
35 21 0.49
36 21 0.49
37 1 0.02
ACGTcount: A:0.38, C:0.13, G:0.24, T:0.24
Consensus pattern (35 bp):
AAAAGCCTTGAGGATTGAAAAACAAGTCAAGGTTG
Found at i:24752709 original size:18 final size:18
Alignment explanation
Indices: 24752675--24752742 Score: 54
Period size: 17 Copynumber: 3.9 Consensus size: 18
24752665 ATTGGAGTAT
* *
24752675 GATTGAAAAGCCT-TAAG
1 GATTGGAAAGCTTGTAAG
24752692 GATTGGAAAGCTTGTAAG
1 GATTGGAAAGCTTGTAAG
* *
24752710 G-TTAGAAAG-TTTTAA-
1 GATTGGAAAGCTTGTAAG
*
24752725 GATTGGAGAGCATTGTAA
1 GATTGGAAAGC-TTGTAA
24752743 AATTAAAAGG
Statistics
Matches: 40, Mismatches: 7, Indels: 7
0.74 0.13 0.13
Matches are distributed among these distances:
15 1 0.03
16 11 0.28
17 18 0.45
18 10 0.25
ACGTcount: A:0.37, C:0.06, G:0.28, T:0.29
Consensus pattern (18 bp):
GATTGGAAAGCTTGTAAG
Found at i:24752712 original size:61 final size:61
Alignment explanation
Indices: 24752616--24752732 Score: 162
Period size: 61 Copynumber: 1.9 Consensus size: 61
24752606 CAAGTCAAGG
* * * *
24752616 TTGAAAAGCCTTGAGGATCAGAAAGCATGTCAGGTTATAAGGTTTAAAGATTGGAGTATGA
1 TTGAAAAGCCTTAAGGATCAGAAAGCATGTAAGGTTAGAAAGTTTAAAGATTGGAGTATGA
** * *
24752677 TTGAAAAGCCTTAAGGATTGGAAAGCTTGTAAGGTTAGAAAGTTTTAAGATTGGAG
1 TTGAAAAGCCTTAAGGATCAGAAAGCATGTAAGGTTAGAAAGTTTAAAGATTGGAG
24752733 AGCATTGTAA
Statistics
Matches: 48, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
61 48 1.00
ACGTcount: A:0.36, C:0.07, G:0.28, T:0.29
Consensus pattern (61 bp):
TTGAAAAGCCTTAAGGATCAGAAAGCATGTAAGGTTAGAAAGTTTAAAGATTGGAGTATGA
Found at i:24753186 original size:58 final size:58
Alignment explanation
Indices: 24753094--24753209 Score: 205
Period size: 58 Copynumber: 2.0 Consensus size: 58
24753084 AGTGGAAAGG
*
24753094 TGGAGACACAACCTCCAATAACATGAAATAGAAAACTACCACTAACAATAAAATAGGA
1 TGGAGACACAACCTCCAACAACATGAAATAGAAAACTACCACTAACAATAAAATAGGA
* *
24753152 TGGAGACACAACCTCCAACAACATGAAGTGGAAAACTACCACTAACAATAAAATAGGA
1 TGGAGACACAACCTCCAACAACATGAAATAGAAAACTACCACTAACAATAAAATAGGA
24753210 ACCACAATGA
Statistics
Matches: 55, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
58 55 1.00
ACGTcount: A:0.50, C:0.22, G:0.14, T:0.15
Consensus pattern (58 bp):
TGGAGACACAACCTCCAACAACATGAAATAGAAAACTACCACTAACAATAAAATAGGA
Found at i:24753426 original size:33 final size:34
Alignment explanation
Indices: 24753339--24753474 Score: 104
Period size: 33 Copynumber: 4.1 Consensus size: 34
24753329 ATATGGTTAG
* * *
24753339 AAGGTTAGCAGGTTTCAAGATAGGAAAGCATTGT
1 AAGGTAAGAAGGTTTCAAGATTGGAAAGCATTGT
* *
24753373 AAGGTTAA-AAGATTTCAAGATTGGGAAGC-TTGT
1 AAGG-TAAGAAGGTTTCAAGATTGGAAAGCATTGT
* ** *
24753406 AAGGTAAGAAGGTTTTAAGATTTAAAAG-TTTGT
1 AAGGTAAGAAGGTTTCAAGATTGGAAAGCATTGT
** * *
24753439 -ACTTAAG-AGGTGTCAAGATTGGAAAGC-TTGC
1 AAGGTAAGAAGGTTTCAAGATTGGAAAGCATTGT
24753470 AAGGT
1 AAGGT
24753475 TGCAATGCCT
Statistics
Matches: 78, Mismatches: 19, Indels: 12
0.72 0.17 0.11
Matches are distributed among these distances:
31 18 0.23
32 10 0.13
33 27 0.35
34 21 0.27
35 2 0.03
ACGTcount: A:0.36, C:0.07, G:0.28, T:0.29
Consensus pattern (34 bp):
AAGGTAAGAAGGTTTCAAGATTGGAAAGCATTGT
Found at i:24760203 original size:8 final size:8
Alignment explanation
Indices: 24760190--24760218 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
24760180 CAAAAATTGT
24760190 TTTTTTTA
1 TTTTTTTA
24760198 -TTTTTTA
1 TTTTTTTA
24760205 TTTTTTTA
1 TTTTTTTA
24760213 TTTTTT
1 TTTTTT
24760219 AAGGATGTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
7 7 0.35
8 13 0.65
ACGTcount: A:0.10, C:0.00, G:0.00, T:0.90
Consensus pattern (8 bp):
TTTTTTTA
Found at i:24760210 original size:15 final size:15
Alignment explanation
Indices: 24760190--24760219 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
24760180 CAAAAATTGT
24760190 TTTTTTTATTTTTTA
1 TTTTTTTATTTTTTA
24760205 TTTTTTTATTTTTTA
1 TTTTTTTATTTTTTA
24760220 AGGATGTTTC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.00, G:0.00, T:0.87
Consensus pattern (15 bp):
TTTTTTTATTTTTTA
Found at i:24765199 original size:16 final size:18
Alignment explanation
Indices: 24765174--24765211 Score: 53
Period size: 16 Copynumber: 2.2 Consensus size: 18
24765164 TTTTAAAAAT
24765174 TTTAAATAAATT-TT-TA
1 TTTAAATAAATTCTTGTA
*
24765190 TTTAATTAAATTCTTGTA
1 TTTAAATAAATTCTTGTA
24765208 TTTA
1 TTTA
24765212 TTTGAGTAAG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 11 0.58
17 2 0.11
18 6 0.32
ACGTcount: A:0.37, C:0.03, G:0.03, T:0.58
Consensus pattern (18 bp):
TTTAAATAAATTCTTGTA
Found at i:24780631 original size:47 final size:47
Alignment explanation
Indices: 24780561--24780652 Score: 132
Period size: 47 Copynumber: 2.0 Consensus size: 47
24780551 TTTTTTTTTA
* *
24780561 AGAATTAACATGAGTTATTTCGTGCATAACATA-AATTTCAAACTAAG
1 AGAAGTAACATGAGTTATCTCGTGCATAACA-AGAATTTCAAACTAAG
* *
24780608 AGAAGTAACTTGAGTTATCTCGTGCATAACAAGAGTTTCAAACTA
1 AGAAGTAACATGAGTTATCTCGTGCATAACAAGAATTTCAAACTA
24780653 GTAGAATTTA
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
46 1 0.03
47 39 0.98
ACGTcount: A:0.40, C:0.14, G:0.15, T:0.30
Consensus pattern (47 bp):
AGAAGTAACATGAGTTATCTCGTGCATAACAAGAATTTCAAACTAAG
Found at i:24783536 original size:2 final size:2
Alignment explanation
Indices: 24783529--24783574 Score: 92
Period size: 2 Copynumber: 23.0 Consensus size: 2
24783519 TCAATACTAA
24783529 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
24783571 AT AT
1 AT AT
24783575 TTCTACAGTT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:24786148 original size:70 final size:71
Alignment explanation
Indices: 24786016--24786155 Score: 165
Period size: 70 Copynumber: 2.0 Consensus size: 71
24786006 TAAATTTCCA
* ** * * * * **
24786016 TCTTCGCTCTAGACTTTCTTTTTGGGTTTTCATCCTAAAGCTTCATTTTTTTCACTCACTTTTTT
1 TCTTCGCTCTACACTGCCCTTTCGGGTTTTCACCCTAAAGCTTCATCTTTCACACTCACTTTTTT
24786081 -TTTTG
66 CTTTTG
* **
24786086 TCTTCGCTCTACACTGCCCTTTCGGGTTTTCACCCTAGAGCTTCATCTTTCACACTTGCTTTTTT
1 TCTTCGCTCTACACTGCCCTTTCGGGTTTTCACCCTAAAGCTTCATCTTTCACACTCACTTTTTT
24786151 CTTTT
66 CTTTT
24786156 TTTCTTTTTT
Statistics
Matches: 57, Mismatches: 12, Indels: 1
0.81 0.17 0.01
Matches are distributed among these distances:
70 53 0.93
71 4 0.07
ACGTcount: A:0.12, C:0.26, G:0.11, T:0.51
Consensus pattern (71 bp):
TCTTCGCTCTACACTGCCCTTTCGGGTTTTCACCCTAAAGCTTCATCTTTCACACTCACTTTTTT
CTTTTG
Found at i:24789801 original size:6 final size:6
Alignment explanation
Indices: 24789783--24789850 Score: 73
Period size: 6 Copynumber: 10.8 Consensus size: 6
24789773 TTTCATCTAT
* * * *
24789783 TTTTCTA TTTTTG TTTTTG TATTTA TTTTTA TTTTTA TATTTATA TTTATA
1 TTTT-TA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA T-TTT-TA TTTTTA
24789834 TTTTTA TTTTTA TTTTT
1 TTTTTA TTTTTA TTTTT
24789851 TTGAGAAATC
Statistics
Matches: 53, Mismatches: 6, Indels: 5
0.83 0.09 0.08
Matches are distributed among these distances:
6 41 0.77
7 9 0.17
8 3 0.06
ACGTcount: A:0.18, C:0.01, G:0.03, T:0.78
Consensus pattern (6 bp):
TTTTTA
Found at i:24789809 original size:18 final size:18
Alignment explanation
Indices: 24789788--24789850 Score: 81
Period size: 18 Copynumber: 3.4 Consensus size: 18
24789778 TCTATTTTTC
* *
24789788 TATTTTTGTTTTTGTATT
1 TATTTTTATTTTTATATT
24789806 TATTTTTATTTTTATATT
1 TATTTTTATTTTTATATT
*
24789824 TATATTTATATTTTTATTTT
1 TAT-TTT-TATTTTTATATT
24789844 TATTTTT
1 TATTTTT
24789851 TTGAGAAATC
Statistics
Matches: 40, Mismatches: 3, Indels: 4
0.85 0.06 0.09
Matches are distributed among these distances:
18 20 0.50
19 6 0.15
20 14 0.35
ACGTcount: A:0.19, C:0.00, G:0.03, T:0.78
Consensus pattern (18 bp):
TATTTTTATTTTTATATT
Found at i:24789823 original size:14 final size:14
Alignment explanation
Indices: 24789806--24789851 Score: 62
Period size: 14 Copynumber: 3.5 Consensus size: 14
24789796 TTTTTGTATT
24789806 TATTTTTATTTTTA
1 TATTTTTATTTTTA
*
24789820 TA--TTTATATTTA
1 TATTTTTATTTTTA
24789832 TATTTTTATTTTTA
1 TATTTTTATTTTTA
24789846 T-TTTTT
1 TATTTTT
24789852 TGAGAAATCC
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
12 11 0.39
13 5 0.18
14 12 0.43
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (14 bp):
TATTTTTATTTTTA
Found at i:24791409 original size:17 final size:17
Alignment explanation
Indices: 24791383--24791422 Score: 62
Period size: 17 Copynumber: 2.4 Consensus size: 17
24791373 TTTTTTTTAC
*
24791383 TCTTTATTCTTTCTTTT
1 TCTTTTTTCTTTCTTTT
24791400 TCTTTTTTCTTTCTTTT
1 TCTTTTTTCTTTCTTTT
*
24791417 TATTTT
1 TCTTTT
24791423 CATAATTTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.05, C:0.15, G:0.00, T:0.80
Consensus pattern (17 bp):
TCTTTTTTCTTTCTTTT
Found at i:24792980 original size:18 final size:18
Alignment explanation
Indices: 24792940--24792983 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
24792930 ATTATTTTTT
* *
24792940 TATTTTTTATTTTTTATA
1 TATTTTTTATTCTTGATA
24792958 TATTTTTTATTCTTGACTA
1 TATTTTTTATTCTTGA-TA
24792977 -ATTTTTT
1 TATTTTTT
24792984 TTATATAATA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
18 21 0.91
19 2 0.09
ACGTcount: A:0.20, C:0.05, G:0.02, T:0.73
Consensus pattern (18 bp):
TATTTTTTATTCTTGATA
Found at i:24793182 original size:2 final size:2
Alignment explanation
Indices: 24793170--24793199 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
24793160 CTTCAATACT
24793170 TA TA T- TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
24793200 GTTATTTCCT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 26 0.96
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Done.