Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr1
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: 106989029
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3754247 characters in sequence are not A, C, G, or T
File 283 of 322
Found at i:93953361 original size:47 final size:47
Alignment explanation
Indices: 93953167--93953473 Score: 191
Period size: 47 Copynumber: 6.5 Consensus size: 47
93953157 TTGCCAATGC
* * * *
93953167 CATGTCCCAGACATGGTCTTACACTGGCTATCTTCATCGAGGCCGATG
1 CATGTCCCAGACA-CGTCTTACACTGGCTACCATCATTGAGGCCGATG
* * * * * * * * *
93953215 CCATGTCCTAGACATGGTCTTACACTAGCTCCCGT-GTATAAGTTCTGATG
1 -CATGTCCCAGACA-CGTCTTACACTGGCTACCATCAT-TGAG-GCCGATG
* * * * * *
93953265 CATGTCCCAAACATGTCTTACACTAGC-ACGAAGC-TT-A-GCCTATG
1 CATGTCCCAGACACGTCTTACACTGGCTAC-CATCATTGAGGCCGATG
* *
93953309 CATGTCCCAGGCACTTCTTACACTGGCTACCATCATTGAGGCCGATG
1 CATGTCCCAGACACGTCTTACACTGGCTACCATCATTGAGGCCGATG
* *
93953356 CATGTCCCAAACACGTCTTACACTGGC-ACTCATC-TCT-ACGCCGATG
1 CATGTCCCAGACACGTCTTACACTGGCTAC-CATCAT-TGAGGCCGATG
* * * * * *
93953402 CCATGTCCTAGACATGGTCTTACACTGGCTATCAT-AATGTGGCTGATG
1 -CATGTCCCAGACA-CGTCTTACACTGGCTACCATCATTGAGGCCGATG
*
93953450 CATGTCCCAGACCCGTCTTACACT
1 CATGTCCCAGACACGTCTTACACT
93953474 AGCCCTCGTC
Statistics
Matches: 200, Mismatches: 43, Indels: 33
0.72 0.16 0.12
Matches are distributed among these distances:
44 28 0.14
45 4 0.02
46 23 0.12
47 60 0.30
48 37 0.19
49 43 0.22
50 5 0.03
ACGTcount: A:0.23, C:0.30, G:0.19, T:0.27
Consensus pattern (47 bp):
CATGTCCCAGACACGTCTTACACTGGCTACCATCATTGAGGCCGATG
Found at i:93953467 original size:94 final size:93
Alignment explanation
Indices: 93953208--93953525 Score: 333
Period size: 94 Copynumber: 3.4 Consensus size: 93
93953198 CTTCATCGAG
* * * *
93953208 GCCGATGCCATGTCCTAGACATGGTCTTACACTAGCTCCCGTGTATAA-GT-TCTGATGCATGTC
1 GCCGATGCCATGTCCTAGACATGGTCTTACACTGGCT---AT-CATAATGTGGCTGATGCATGTC
* ** *
93953271 CCAAACATGTCTTACACTAGCACGAAGCT-TA
62 CCAAACACGTCTTACACTAGCACTCATCTCTA
* * * * * * *
93953302 GCCTATG-CATGTCCCAGGCACT--TCTTACACTGGCTACCATCATTGAGGCCGATGCATGTCCC
1 GCCGATGCCATGTCCTAGACA-TGGTCTTACACTGGCTATCAT-AATGTGGCTGATGCATGTCCC
*
93953364 AAACACGTCTTACACTGGCACTCATCTCTA
64 AAACACGTCTTACACTAGCACTCATCTCTA
93953394 CGCCGATGCCATGTCCTAGACATGGTCTTACACTGGCTATCATAATGTGGCTGATGCATGTCCCA
1 -GCCGATGCCATGTCCTAGACATGGTCTTACACTGGCTATCATAATGTGGCTGATGCATGTCCCA
* * * * *
93953459 GACCCGTCTTACACTAGCCCTCGTCTCAA
65 AACACGTCTTACACTAGCACTCATCTCTA
93953488 TGCCGATGCCATGTCCTAGACATGGTCTTACACTGGCT
1 -GCCGATGCCATGTCCTAGACATGGTCTTACACTGGCT
93953526 CTCACATAAC
Statistics
Matches: 185, Mismatches: 30, Indels: 18
0.79 0.13 0.08
Matches are distributed among these distances:
88 2 0.01
89 1 0.01
90 1 0.01
91 35 0.19
92 14 0.08
93 18 0.10
94 97 0.52
95 17 0.09
ACGTcount: A:0.23, C:0.31, G:0.19, T:0.27
Consensus pattern (93 bp):
GCCGATGCCATGTCCTAGACATGGTCTTACACTGGCTATCATAATGTGGCTGATGCATGTCCCAA
ACACGTCTTACACTAGCACTCATCTCTA
Found at i:93968101 original size:29 final size:29
Alignment explanation
Indices: 93968062--93968140 Score: 106
Period size: 29 Copynumber: 2.7 Consensus size: 29
93968052 CTTAATAATC
*
93968062 AACCACGCACACTTAGTGCCATGTACTTT-A
1 AACC-CGCACACTTAGTGCCATGCA-TTTCA
*
93968092 AACTCGCACACTTAGTGCCATGCATTTCA
1 AACCCGCACACTTAGTGCCATGCATTTCA
*
93968121 AGCCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
93968141 ATCTCACAAC
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
28 3 0.07
29 38 0.86
30 3 0.07
ACGTcount: A:0.28, C:0.33, G:0.15, T:0.24
Consensus pattern (29 bp):
AACCCGCACACTTAGTGCCATGCATTTCA
Found at i:93981064 original size:27 final size:27
Alignment explanation
Indices: 93980983--93981073 Score: 110
Period size: 27 Copynumber: 3.4 Consensus size: 27
93980973 GGATAAGTTA
*
93980983 TAGAATTACCGAAATACCCCTGTAAGG
1 TAGAATTACCGAAATACCCCTGTAGGG
* *
93981010 TAGAAATACCAAAATACCCCTGTAGGG
1 TAGAATTACCGAAATACCCCTGTAGGG
* * **
93981037 TAGAATTACCGAGATACCCTTGCGGGG
1 TAGAATTACCGAAATACCCCTGTAGGG
*
93981064 TAAAATTACC
1 TAGAATTACC
93981074 ATTTTGCCCC
Statistics
Matches: 54, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 54 1.00
ACGTcount: A:0.36, C:0.22, G:0.20, T:0.22
Consensus pattern (27 bp):
TAGAATTACCGAAATACCCCTGTAGGG
Found at i:93984056 original size:47 final size:45
Alignment explanation
Indices: 93983858--93984164 Score: 212
Period size: 47 Copynumber: 6.5 Consensus size: 45
93983848 TTGCCAATGC
* *
93983858 CATGTCCCAGACATAGTCTTACACTGGCTATCTTCATCGAGGCCGATG
1 CATGTCCCAGACA-CGTCTTACACTGGCTA-C-TCATTGAGGCCGATG
* * * * *
93983906 CCATGTCCCAGACATGGTCTTACACTAGCT-CTCGTGTATAGGTGCTGATG
1 -CATGTCCCAGACA-CGTCTTACACTGGCTACTCAT-T-GA-G-GCCGATG
* * * ** *
93983956 CATGTCCCAGACATGTATTACACTAG-TACGAAGCTT-A-TCCGATG
1 CATGTCCCAGACACGTCTTACACTGGCTACTCA--TTGAGGCCGATG
93984000 CATGTCCCAGACACGTCTTACACTGGCTACAATCATTGAGGCCGATG
1 CATGTCCCAGACACGTCTTACACTGGCTAC--TCATTGAGGCCGATG
* * *
93984047 CATGTCCCAGACACGTCTTACAGTGGC-ACTCATCTCTACGCCGATG
1 CATGTCCCAGACACGTCTTACACTGGCTACTCAT-T-GAGGCCGATG
* * * * *
93984093 CCATGTCCTAGACATGGTCTTACACTGGCTA-TCGTAATGTGGCTGATG
1 -CATGTCCCAGACA-CGTCTTACACTGGCTACTC--ATTGAGGCCGATG
93984141 CATGTCCCAGACACGTCTTACACT
1 CATGTCCCAGACACGTCTTACACT
93984165 AGCCCTCGTC
Statistics
Matches: 207, Mismatches: 32, Indels: 41
0.74 0.11 0.15
Matches are distributed among these distances:
44 32 0.15
45 6 0.03
46 24 0.12
47 60 0.29
48 33 0.16
49 44 0.21
50 8 0.04
ACGTcount: A:0.23, C:0.29, G:0.21, T:0.27
Consensus pattern (45 bp):
CATGTCCCAGACACGTCTTACACTGGCTACTCATTGAGGCCGATG
Found at i:93984146 original size:94 final size:93
Alignment explanation
Indices: 93983858--93984216 Score: 343
Period size: 94 Copynumber: 3.8 Consensus size: 93
93983848 TTGCCAATGC
* * * *
93983858 CATGTCCCAGACATAGTCTTACACTGGCTA-TCTTCATCGAGGCCGATGCCATGTCCCAGACATG
1 CATGTCCCAGACA-CGTCTTACACTAGC-ACTCATC-TCTA-GCCGATGCCATGTCCCAGACATG
* * **
93983922 GTCTTACACTAGCTCTCGTGTATAGGTGCTGATG
62 GTCTTACACTGGCTATCGTCAAT-GG-GCTGATG
* * * ** * * *
93983956 CATGTCCCAGACATGTATTACACTAGTACGAAGCT-TATCCGATG-CATGTCCCAGACA-CGTCT
1 CATGTCCCAGACACGTCTTACACTAGCACTCATCTCTAGCCGATGCCATGTCCCAGACATGGTCT
* * *
93984018 TACACTGGCTA-CAATCATTGAGGCCGATG
66 TACACTGGCTATC-GTCAATG-GGCTGATG
* * *
93984047 CATGTCCCAGACACGTCTTACAGTGGCACTCATCTCTACGCCGATGCCATGTCCTAGACATGGTC
1 CATGTCCCAGACACGTCTTACACTAGCACTCATCTCTA-GCCGATGCCATGTCCCAGACATGGTC
93984112 TTACACTGGCTATCGT-AATGTGGCTGATG
65 TTACACTGGCTATCGTCAATG-GGCTGATG
* * * *
93984141 CATGTCCCAGACACGTCTTACACTAGCCCTCGTCTCAATGCCGATGCCATGTCCTAGACATGGTC
1 CATGTCCCAGACACGTCTTACACTAGCACTCATCTCTA-GCCGATGCCATGTCCCAGACATGGTC
93984206 TTACACTGGCT
65 TTACACTGGCT
93984217 CTCACATAAC
Statistics
Matches: 214, Mismatches: 39, Indels: 20
0.78 0.14 0.07
Matches are distributed among these distances:
91 35 0.16
92 18 0.08
93 19 0.09
94 98 0.46
95 17 0.08
96 3 0.01
97 11 0.05
98 13 0.06
ACGTcount: A:0.23, C:0.29, G:0.21, T:0.27
Consensus pattern (93 bp):
CATGTCCCAGACACGTCTTACACTAGCACTCATCTCTAGCCGATGCCATGTCCCAGACATGGTCT
TACACTGGCTATCGTCAATGGGCTGATG
Found at i:93984192 original size:47 final size:46
Alignment explanation
Indices: 93983849--93984219 Score: 204
Period size: 47 Copynumber: 7.9 Consensus size: 46
93983839 CGGGTTAAGT
* * * * * *
93983849 TGCCAATGCCATGTCCCAGACATAGTCTTACACTGGCTATCTTCATCGA
1 TGCCGATG-CATGTCCCAGACATCGTCTTACACTAGCTCTCGTC-T-AA
* * *
93983898 GGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCGTGTATA
1 TGCCGATG-CATGTCCCAGACATCGTCTTACACTAGCTCTCGTCTA-A
* * * * *
93983946 GGTGCTGATGCATGTCCCAGACAT-GTATTACACTAG-T-ACGAAGCTTA
1 --TGCCGATGCATGTCCCAGACATCGTCTTACACTAGCTCTCG--TCTAA
* * *
93983993 T-CCGATGCATGTCCCAGACA-CGTCTTACACTGGCTACAATCAT-TGA
1 TGCCGATGCATGTCCCAGACATCGTCTTACACTAGCT-C--TCGTCTAA
* * * * * *
93984039 GGCCGATGCATGTCCCAGACA-CGTCTTACAGTGGCACTCATCTCTA
1 TGCCGATGCATGTCCCAGACATCGTCTTACACTAGCTCTCGTCT-AA
* * * * *
93984085 CGCCGATGCCATGTCCTAGACATGGTCTTACACTGGCTATCG--TAA
1 TGCCGATG-CATGTCCCAGACATCGTCTTACACTAGCTCTCGTCTAA
* *
93984130 TGTGGCTGATGCATGTCCCAGACA-CGTCTTACACTAGCCCTCGTCTCAA
1 --T-GCCGATGCATGTCCCAGACATCGTCTTACACTAGCTCTCGTCT-AA
* * *
93984179 TGCCGATGCCATGTCCTAGACATGGTCTTACACTGGCTCTC
1 TGCCGATG-CATGTCCCAGACATCGTCTTACACTAGCTCTC
93984220 ACATAACCAA
Statistics
Matches: 252, Mismatches: 46, Indels: 49
0.73 0.13 0.14
Matches are distributed among these distances:
44 32 0.13
45 4 0.02
46 35 0.14
47 71 0.28
48 50 0.20
49 54 0.21
50 6 0.02
ACGTcount: A:0.23, C:0.30, G:0.21, T:0.27
Consensus pattern (46 bp):
TGCCGATGCATGTCCCAGACATCGTCTTACACTAGCTCTCGTCTAA
Found at i:94002625 original size:16 final size:17
Alignment explanation
Indices: 94002594--94002626 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
94002584 TTCATAAGTA
94002594 TATATCAATCATTTCAT
1 TATATCAATCATTTCAT
94002611 TATATCAAT-ATTTCAT
1 TATATCAATCATTTCAT
94002627 GCTCCATCAT
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:94002982 original size:46 final size:46
Alignment explanation
Indices: 94002922--94003131 Score: 312
Period size: 46 Copynumber: 4.6 Consensus size: 46
94002912 TGTCATAGTG
* * * * *
94002922 TCTTTCAACTATGGTCTTACTCATTTTCTTTCAGGTTGCCATGGTA
1 TCTTTCAACCATGGTCTTACACATTTTATATCATGTTGCCATGGTA
* *
94002968 TCTTTTAACCATGGTCTTACACATTTTATATCCTGTTGCCATGGTA
1 TCTTTCAACCATGGTCTTACACATTTTATATCATGTTGCCATGGTA
* *
94003014 TCTTTCAACCATGGTCTTACACATTTTATATCCTGTTGCCATGTTA
1 TCTTTCAACCATGGTCTTACACATTTTATATCATGTTGCCATGGTA
* *
94003060 TCTTTGAACCATGGTCTTACACATTTCATATCATGTTGCCATGGTA
1 TCTTTCAACCATGGTCTTACACATTTTATATCATGTTGCCATGGTA
*
94003106 TCTTTCAACCATGGTCTTACAAATTT
1 TCTTTCAACCATGGTCTTACACATTT
94003132 CATTTCAAAA
Statistics
Matches: 149, Mismatches: 15, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
46 149 1.00
ACGTcount: A:0.22, C:0.22, G:0.13, T:0.43
Consensus pattern (46 bp):
TCTTTCAACCATGGTCTTACACATTTTATATCATGTTGCCATGGTA
Found at i:94004912 original size:46 final size:47
Alignment explanation
Indices: 94004806--94004927 Score: 147
Period size: 46 Copynumber: 2.6 Consensus size: 47
94004796 TGTCTTCGAC
** * *
94004806 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATATATCTAAT
1 ATGGACTTACATGGCTCATTCCTGTCTCCAAAGCC--A-ATATATCTAAT
* *
94004856 ATGGGCTTACATGGCTCATTCCTGTCTCCAAAGCC-ATATATCTGAT
1 ATGGACTTACATGGCTCATTCCTGTCTCCAAAGCCAATATATCTAAT
*
94004902 ATGGACTTACATGGCTCATTTCTGTC
1 ATGGACTTACATGGCTCATTCCTGTC
94004928 CTGTCCTGTC
Statistics
Matches: 64, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
46 34 0.53
50 30 0.47
ACGTcount: A:0.26, C:0.23, G:0.15, T:0.36
Consensus pattern (47 bp):
ATGGACTTACATGGCTCATTCCTGTCTCCAAAGCCAATATATCTAAT
Found at i:94009257 original size:46 final size:48
Alignment explanation
Indices: 94009153--94009272 Score: 154
Period size: 48 Copynumber: 2.5 Consensus size: 48
94009143 TGTCTTCGAC
** * * *
94009153 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATATATATT
1 ATGGACTTACATGGCTCATTCCTGTCTCCAAAGCCATATATATAGATT
* *
94009201 ATGGGCTTACATGGCTCATTCCTGTCTCCAAAGCCATATATCT-GA-T
1 ATGGACTTACATGGCTCATTCCTGTCTCCAAAGCCATATATATAGATT
*
94009247 ATGGACTTACATGGCTCATTTCTGTC
1 ATGGACTTACATGGCTCATTCCTGTC
94009273 CTGTCCTGTC
Statistics
Matches: 63, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
46 25 0.40
47 1 0.02
48 37 0.59
ACGTcount: A:0.26, C:0.23, G:0.15, T:0.37
Consensus pattern (48 bp):
ATGGACTTACATGGCTCATTCCTGTCTCCAAAGCCATATATATAGATT
Found at i:94014074 original size:50 final size:48
Alignment explanation
Indices: 94013991--94014122 Score: 162
Period size: 46 Copynumber: 2.8 Consensus size: 48
94013981 TTATCTTTGA
* * * *
94013991 CATGATGCCATAGTGTCTTTCAACTATGGTCTTACTCATTCATTTTC-TGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTA-T-ATTC-TTTTCATGT
*
94014041 CATGTTGCCATGGTATCTTGCAACCATGGTC-T-TATTCTTTTCATGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATATTCTTTTCATGT
*
94014087 CACGTTGCCATGGTATCTTTCAACCATGGTCTTATA
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATA
94014123 CATTTCATAT
Statistics
Matches: 72, Mismatches: 7, Indels: 8
0.83 0.08 0.09
Matches are distributed among these distances:
45 5 0.07
46 36 0.50
47 2 0.03
48 2 0.03
49 1 0.01
50 26 0.36
ACGTcount: A:0.20, C:0.23, G:0.16, T:0.42
Consensus pattern (48 bp):
CATGTTGCCATGGTATCTTTCAACCATGGTCTTATATTCTTTTCATGT
Found at i:94020176 original size:44 final size:46
Alignment explanation
Indices: 94020092--94020182 Score: 107
Period size: 44 Copynumber: 2.0 Consensus size: 46
94020082 TAAGATCCGA
* *
94020092 TATGTGTTTTCGTGTAAGACCACGTCTGAGACACTGGCATCG-ATT
1 TATGTGTTTACGTGTAAGACCACGTCTGAGACACTAGCATCGTATT
** *
94020137 TATG-GTTTACGTGTAAGACCATTTCTGGGACA-TCAGCATCGTATT
1 TATGTGTTTACGTGTAAGACCACGTCTGAGACACT-AGCATCGTATT
94020182 T
1 T
94020183 GATCTCGTGT
Statistics
Matches: 39, Mismatches: 5, Indels: 4
0.81 0.10 0.08
Matches are distributed among these distances:
43 1 0.03
44 30 0.77
45 8 0.21
ACGTcount: A:0.23, C:0.19, G:0.23, T:0.35
Consensus pattern (46 bp):
TATGTGTTTACGTGTAAGACCACGTCTGAGACACTAGCATCGTATT
Found at i:94020227 original size:42 final size:42
Alignment explanation
Indices: 94020143--94020241 Score: 105
Period size: 42 Copynumber: 2.4 Consensus size: 42
94020133 GATTTATGGT
* *
94020143 TTACGTGTAAGACCATTTCTGGGACATCAGCATCGTATTTGA
1 TTACGTGTAAGACCATATCTAGGACATCAGCATCGTATTTGA
* *
94020185 TCT-CGTGTAAGACCCTATCTAGGACAGT-AGCATTG-ATATTGA
1 T-TACGTGTAAGACCATATCTAGGACA-TCAGCATCGTAT-TTGA
*
94020227 TTACATGTAAGACCA
1 TTACGTGTAAGACCA
94020242 CGTTTGGGAT
Statistics
Matches: 47, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
41 3 0.06
42 42 0.89
43 2 0.04
ACGTcount: A:0.29, C:0.19, G:0.20, T:0.31
Consensus pattern (42 bp):
TTACGTGTAAGACCATATCTAGGACATCAGCATCGTATTTGA
Found at i:94022376 original size:16 final size:16
Alignment explanation
Indices: 94022325--94022369 Score: 63
Period size: 16 Copynumber: 2.8 Consensus size: 16
94022315 GGCAAATCCC
*
94022325 GAAATGCCAAAAAGCC
1 GAAATGCCAAAAAGCT
* *
94022341 AAAATGCCGAAAAGCT
1 GAAATGCCAAAAAGCT
94022357 GAAATGCCAAAAA
1 GAAATGCCAAAAA
94022370 TTTGAAAGTT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.53, C:0.20, G:0.18, T:0.09
Consensus pattern (16 bp):
GAAATGCCAAAAAGCT
Found at i:94022630 original size:29 final size:29
Alignment explanation
Indices: 94022588--94022712 Score: 171
Period size: 29 Copynumber: 4.3 Consensus size: 29
94022578 GAAAGCATGA
*
94022588 ATATGAGTGTGATTTGGGCCTAATGGGCC
1 ATATGAATGTGATTTGGGCCTAATGGGCC
94022617 ATATGAATGTGATTTGGGCCTAATGGGCC
1 ATATGAATGTGATTTGGGCCTAATGGGCC
* * *
94022646 ATACGAATGTGATTTGGGCCTAATGCGCT
1 ATATGAATGTGATTTGGGCCTAATGGGCC
* **
94022675 ATATGAATGAGA-TTGGGCCTAGCGGGCC
1 ATATGAATGTGATTTGGGCCTAATGGGCC
*
94022703 ATATGCATGT
1 ATATGAATGT
94022713 TTGTAGACTT
Statistics
Matches: 84, Mismatches: 12, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
28 20 0.24
29 64 0.76
ACGTcount: A:0.24, C:0.15, G:0.31, T:0.30
Consensus pattern (29 bp):
ATATGAATGTGATTTGGGCCTAATGGGCC
Found at i:94026331 original size:50 final size:49
Alignment explanation
Indices: 94026161--94026405 Score: 238
Period size: 49 Copynumber: 4.9 Consensus size: 49
94026151 TCTATTGTGA
*
94026161 GGTCACGTGTGTAGTACTAAGTGCAGGCAACTACATGTACCAGATAATT
1 GGTCACGTGTGTAGTACTAAGTGCAGGCTACTACATGTACCAGATAATT
* * * *** *
94026210 GGTCGCATGTGTAGTACTAAGTCCAGGCTACTATGCGTACCCGATAACTT
1 GGTCACGTGTGTAGTACTAAGTGCAGGCTACTACATGTACCAGATAA-TT
* * * * *** **
94026260 CGATCACGTGTGTAGTGCTAAGTGTAGGCTACTACGTGTATTTGATGGTT
1 -GGTCACGTGTGTAGTACTAAGTGCAGGCTACTACATGTACCAGATAATT
* * *
94026310 AGGTCACGTGTGTAGTACTAAGTGTAGGCTACTACATGTATCGGATAATT
1 -GGTCACGTGTGTAGTACTAAGTGCAGGCTACTACATGTACCAGATAATT
* * * * *
94026360 GGTCGCATGTGTAATACTAAGTGCAGGCTACTAGACGTACCAGATA
1 GGTCACGTGTGTAGTACTAAGTGCAGGCTACTACATGTACCAGATA
94026406 GCCTTGTCTA
Statistics
Matches: 157, Mismatches: 37, Indels: 4
0.79 0.19 0.02
Matches are distributed among these distances:
49 77 0.49
50 46 0.29
51 34 0.22
ACGTcount: A:0.27, C:0.18, G:0.26, T:0.29
Consensus pattern (49 bp):
GGTCACGTGTGTAGTACTAAGTGCAGGCTACTACATGTACCAGATAATT
Found at i:94031721 original size:27 final size:27
Alignment explanation
Indices: 94031686--94031739 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
94031676 TGTCATATGA
*
94031686 AATTGAATGGAAAATTATTATCACATG
1 AATTGAATGGAAAATTACTATCACATG
** *
94031713 AATTGAATGTTAAATTACTATTACATG
1 AATTGAATGGAAAATTACTATCACATG
94031740 GGTTGTATGA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.43, C:0.07, G:0.13, T:0.37
Consensus pattern (27 bp):
AATTGAATGGAAAATTACTATCACATG
Found at i:94035543 original size:17 final size:17
Alignment explanation
Indices: 94035521--94035556 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
94035511 GATCACTCTG
94035521 TCCCTCACTTCTTCTAA
1 TCCCTCACTTCTTCTAA
94035538 TCCCTCACTTCTTCTAA
1 TCCCTCACTTCTTCTAA
94035555 TC
1 TC
94035557 AGTTTTGGTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.17, C:0.42, G:0.00, T:0.42
Consensus pattern (17 bp):
TCCCTCACTTCTTCTAA
Found at i:94035958 original size:16 final size:16
Alignment explanation
Indices: 94035937--94035974 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
94035927 TTGGCAAATC
*
94035937 CCGAAATGGCAAAAAG
1 CCGAAATGCCAAAAAG
94035953 CCGAAATGCCAAAAAG
1 CCGAAATGCCAAAAAG
*
94035969 CTGAAA
1 CCGAAA
94035975 GTTTGGCTAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.50, C:0.21, G:0.21, T:0.08
Consensus pattern (16 bp):
CCGAAATGCCAAAAAG
Found at i:94043757 original size:54 final size:53
Alignment explanation
Indices: 94043567--94043768 Score: 176
Period size: 55 Copynumber: 3.8 Consensus size: 53
94043557 TTTCCTTTTT
* * * * * * *
94043567 GAACTTACCATTGGCATGTCTTGACATGGTCTTACGTGGTATCATTGCCTTAT-
1 GAACTCACCAATGCCATGCCTTGACATGGTCTTACATGAT-TCCTTGCCTTATA
* * * *
94043620 GAACTCACCAACGCCATGCCTTGGCAAGGTCTTACATTGGA--CCTTTACCTTATA
1 GAACTCACCAATGCCATGCCTTGACATGGTCTTACA-T-GATTCC-TTGCCTTATA
* * *
94043674 GTAACTCATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTGTA
1 G-AACTCACCAATGCCATGCCTTGACATGGTCTTACATGA-TTCCTTGCCTTATA
* * *
94043729 GAACTTATCAATGCCATGCCTTGGCATGGTCTTACATGAT
1 GAACTCACCAATGCCATGCCTTGACATGGTCTTACATGAT
94043769 ATTCTTGTCT
Statistics
Matches: 120, Mismatches: 21, Indels: 16
0.76 0.13 0.10
Matches are distributed among these distances:
52 1 0.01
53 39 0.32
54 38 0.32
55 40 0.33
56 2 0.02
ACGTcount: A:0.23, C:0.24, G:0.18, T:0.34
Consensus pattern (53 bp):
GAACTCACCAATGCCATGCCTTGACATGGTCTTACATGATTCCTTGCCTTATA
Found at i:94043808 original size:47 final size:47
Alignment explanation
Indices: 94043753--94044008 Score: 191
Period size: 47 Copynumber: 5.5 Consensus size: 47
94043743 CATGCCTTGG
* *
94043753 CATGGTCTTACATGATATTCTTGTCTTACCAAATGCCATGTTCCAAA
1 CATGGTCTTACATGGTATCCTTGTCTTACCAAATGCCATGTTCCAAA
* * * *
94043800 CATGGTCTTACATGGTACCCTTGTCTTACCAAATGTCATGTTTCGAA
1 CATGGTCTTACATGGTATCCTTGTCTTACCAAATGCCATGTTCCAAA
** ***
94043847 CATGGTCTTACATGGTATCCTTGTCTTAGTGCC-AATGCCA-CATCTTGA
1 CATGGTCTTACATGGTATCCTTGTCTTA---CCAAATGCCATGTTCCAAA
** * * * * * **
94043895 TGTGGTCTTACATGGAATCCTTAATCAATGCC-GATGCCATG-TCTTAA
1 CATGGTCTTACATGGTATCCTT-GTC-TTACCAAATGCCATGTTCCAAA
* * * ***
94043942 CATGGTCTTACACGGGATCCTTGCCTTACC-AATGCCATG-TCTTGA
1 CATGGTCTTACATGGTATCCTTGTCTTACCAAATGCCATGTTCCAAA
94043987 CATGGTCTTACATGGTATCCTT
1 CATGGTCTTACATGGTATCCTT
94044009 AACCGTCAAT
Statistics
Matches: 168, Mismatches: 35, Indels: 14
0.77 0.16 0.06
Matches are distributed among these distances:
45 36 0.21
46 1 0.01
47 99 0.59
48 21 0.12
49 8 0.05
50 3 0.02
ACGTcount: A:0.23, C:0.24, G:0.18, T:0.35
Consensus pattern (47 bp):
CATGGTCTTACATGGTATCCTTGTCTTACCAAATGCCATGTTCCAAA
Found at i:94049222 original size:55 final size:53
Alignment explanation
Indices: 94049097--94049281 Score: 171
Period size: 55 Copynumber: 3.4 Consensus size: 53
94049087 TTACCATTGG
* * * * *
94049097 CATGTCTTGACATGGTCTTAC-GTGGTATCATTGCCTTAT-GAACTCACCAACGC
1 CATGCCTTGACATGGTCTTACATTGG-A-CCTTGCCTTATAGAACTCATCAATGC
* * *
94049150 CATGCCTTGGCAAGGTCTTACATTGGACCTTTACCTTATAGTAACTCATCAATGC
1 CATGCCTTGACATGGTCTTACATTGGACC-TTGCCTTATAG-AACTCATCAATGC
* * *
94049205 CATGTCTTGACATGGTCTTACA-T-GATTTCCTTGCCTTGTAGAACTTATCAATGC
1 CATGCCTTGACATGGTCTTACATTGGA---CCTTGCCTTATAGAACTCATCAATGC
*
94049259 CATGCCTTGGCATGGTCTTACAT
1 CATGCCTTGACATGGTCTTACAT
94049282 GATATCCTTA
Statistics
Matches: 108, Mismatches: 16, Indels: 14
0.78 0.12 0.10
Matches are distributed among these distances:
52 1 0.01
53 29 0.27
54 37 0.34
55 39 0.36
56 2 0.02
ACGTcount: A:0.23, C:0.25, G:0.18, T:0.35
Consensus pattern (53 bp):
CATGCCTTGACATGGTCTTACATTGGACCTTGCCTTATAGAACTCATCAATGC
Found at i:94049273 original size:54 final size:54
Alignment explanation
Indices: 94049083--94049290 Score: 197
Period size: 54 Copynumber: 3.9 Consensus size: 54
94049073 TTTCCTTTTT
* * * * * * *
94049083 GAACTTACCATTGGCATGTCTTGACATGGTCTTACGTGGTATCATTGCCTTAT-
1 GAACTCACCAATGCCATGCCTTGACATGGTCTTACATGATATCCTTGCCTTATA
* * * * *
94049136 GAACTCACCAACGCCATGCCTTGGCAAGGTCTTACATTG-GA-CCTTTACCTTATA
1 GAACTCACCAATGCCATGCCTTGACATGGTCTTACA-TGATATCC-TTGCCTTATA
* * * *
94049190 GTAACTCATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTGTA
1 G-AACTCACCAATGCCATGCCTTGACATGGTCTTACATGATATCCTTGCCTTATA
* * *
94049245 GAACTTATCAATGCCATGCCTTGGCATGGTCTTACATGATATCCTT
1 GAACTCACCAATGCCATGCCTTGACATGGTCTTACATGATATCCTT
94049291 ATCTTACCAA
Statistics
Matches: 125, Mismatches: 24, Indels: 11
0.78 0.15 0.07
Matches are distributed among these distances:
52 1 0.01
53 37 0.30
54 46 0.37
55 39 0.31
56 2 0.02
ACGTcount: A:0.23, C:0.25, G:0.18, T:0.35
Consensus pattern (54 bp):
GAACTCACCAATGCCATGCCTTGACATGGTCTTACATGATATCCTTGCCTTATA
Found at i:94061523 original size:27 final size:27
Alignment explanation
Indices: 94061493--94061651 Score: 165
Period size: 27 Copynumber: 5.9 Consensus size: 27
94061483 ATTACCAAAG
* *
94061493 TACCCCCGATTTACATAATTACCATTT
1 TACCCTCGATTTACAAAATTACCATTT
* * *
94061520 TACCCTCGATTTATAAAATTATCGTTT
1 TACCCTCGATTTACAAAATTACCATTT
* * *
94061547 TACCCTCGATTTATAGAATTACTATTT
1 TACCCTCGATTTACAAAATTACCATTT
* * *
94061574 TACCCTTGATTTACAGAATTACTATTT
1 TACCCTCGATTTACAAAATTACCATTT
* ***
94061601 TACCCTCGATTTACAAAATTACTAAAA
1 TACCCTCGATTTACAAAATTACCATTT
* *
94061628 TACCCTTGGTTTACAAAATTACCA
1 TACCCTCGATTTACAAAATTACCA
94061652 AAATACCCTC
Statistics
Matches: 113, Mismatches: 19, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 113 1.00
ACGTcount: A:0.33, C:0.22, G:0.06, T:0.39
Consensus pattern (27 bp):
TACCCTCGATTTACAAAATTACCATTT
Found at i:94061537 original size:54 final size:54
Alignment explanation
Indices: 94061480--94061661 Score: 175
Period size: 54 Copynumber: 3.4 Consensus size: 54
94061470 CTCAACTTGT
* * * * * *
94061480 AAAATTACCAAAGTACCCCCGATTTACATAATTACCATTTTACCCTCGATTTAT
1 AAAATTACCAAATTACCCTCGATTTACAAAATTACTATTTTACCCTTGATTTAC
* *** * *
94061534 AAAATTATCGTTTTACCCTCGATTTATAGAATTACTATTTTACCCTTGATTTAC
1 AAAATTACCAAATTACCCTCGATTTACAAAATTACTATTTTACCCTTGATTTAC
* * ** *** *
94061588 AGAATTACTATTTTACCCTCGATTTACAAAATTACTAAAATACCCTTGGTTTAC
1 AAAATTACCAAATTACCCTCGATTTACAAAATTACTATTTTACCCTTGATTTAC
*
94061642 AAAATTACCAAAATACCCTC
1 AAAATTACCAAATTACCCTC
94061662 AATCAGTAAA
Statistics
Matches: 102, Mismatches: 26, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
54 102 1.00
ACGTcount: A:0.35, C:0.23, G:0.06, T:0.36
Consensus pattern (54 bp):
AAAATTACCAAATTACCCTCGATTTACAAAATTACTATTTTACCCTTGATTTAC
Found at i:94061654 original size:27 final size:27
Alignment explanation
Indices: 94061601--94061933 Score: 192
Period size: 27 Copynumber: 12.3 Consensus size: 27
94061591 ATTACTATTT
* * * *
94061601 TACCCTCGATTTACAAAATTACTAAAA
1 TACCCTTGGTTTATAAAATTACCAAAA
*
94061628 TACCCTTGGTTTACAAAATTACCAAAA
1 TACCCTTGGTTTATAAAATTACCAAAA
*** *
94061655 TACCC-TCAATCAGTAAAATTACCAAAA
1 TACCCTTGGTTTA-TAAAATTACCAAAA
* * * *
94061682 TACCC-TGGTCTGTAAAATTGCTAAAA
1 TACCCTTGGTTTATAAAATTACCAAAA
* *
94061708 TACCCCTGGTTTGTAAAATTACCAAAA
1 TACCCTTGGTTTATAAAATTACCAAAA
* * * *
94061735 TACCCCTAGTTTGTAAAATTACCAACA
1 TACCCTTGGTTTATAAAATTACCAAAA
* * * *
94061762 TACCAC-TGGTTTGTGAAATTATCGAAA
1 TACC-CTTGGTTTATAAAATTACCAAAA
*** * *
94061789 TACCCTCAATTTGTAAAATTACAAAAA
1 TACCCTTGGTTTATAAAATTACCAAAA
* * *
94061816 TA-CCTCTGATTTACAAAATTA-TAGAAA
1 TACCCT-TGGTTTATAAAATTACCA-AAA
* * *
94061843 TACCCTTGACTTTCTAAAAATTA-TAGAAA
1 TACCCTTG-GTTTAT-AAAATTACCA-AAA
* * *
94061872 TACCATTGGTTTACAAAATTACTAAAA
1 TACCCTTGGTTTATAAAATTACCAAAA
* * *
94061899 TACCCTTGGTTTGTAGATTTACCAAAA
1 TACCCTTGGTTTATAAAATTACCAAAA
*
94061926 CACCCTTG
1 TACCCTTG
94061934 TAGGGTGAAA
Statistics
Matches: 244, Mismatches: 52, Indels: 20
0.77 0.16 0.06
Matches are distributed among these distances:
26 25 0.10
27 187 0.77
28 12 0.05
29 20 0.08
ACGTcount: A:0.40, C:0.20, G:0.09, T:0.31
Consensus pattern (27 bp):
TACCCTTGGTTTATAAAATTACCAAAA
Found at i:94061659 original size:81 final size:81
Alignment explanation
Indices: 94061455--94061661 Score: 193
Period size: 81 Copynumber: 2.6 Consensus size: 81
94061445 TTAGTTTACC
* * * ** * * *
94061455 AATTATTGTAATACCCTCAACTTGTAAAATTACCAAAGTACCCCCGATTTACATAATTACCATTT
1 AATTATCGTAATACCCTCGATTTACAAAATTACCAAAATACCCTCGATTTACAGAATTACCATTT
*
94061520 TACCCTCGATTTATAA
66 TACCCTCGATTTACAA
** * * * *** * *
94061536 AATTATCGTTTTACCCTCGATTTATAGAATTACTATTTTACCCTTGATTTACAGAATTACTATTT
1 AATTATCGTAATACCCTCGATTTACAAAATTACCAAAATACCCTCGATTTACAGAATTACCATTT
94061601 TACCCTCGATTTACAA
66 TACCCTCGATTTACAA
* *
94061617 AATTA-C-TAAAATACCCTTGGTTTACAAAATTACCAAAATACCCTC
1 AATTATCGT--AATACCCTCGATTTACAAAATTACCAAAATACCCTC
94061662 AATCAGTAAA
Statistics
Matches: 97, Mismatches: 27, Indels: 4
0.76 0.21 0.03
Matches are distributed among these distances:
79 1 0.01
80 1 0.01
81 95 0.98
ACGTcount: A:0.35, C:0.22, G:0.06, T:0.37
Consensus pattern (81 bp):
AATTATCGTAATACCCTCGATTTACAAAATTACCAAAATACCCTCGATTTACAGAATTACCATTT
TACCCTCGATTTACAA
Found at i:94061726 original size:80 final size:81
Alignment explanation
Indices: 94061615--94061782 Score: 223
Period size: 80 Copynumber: 2.1 Consensus size: 81
94061605 CTCGATTTAC
*
94061615 AAAATTACTAAAATACCCTTGGTTTACAAAATTACCAAAATA-CCCTCAATCAGTAAAATTACCA
1 AAAATTACTAAAATACCCCTGGTTTACAAAATTACCAAAATACCCCT-AATCAGTAAAATTACCA
94061679 AAATACC-CTGGTCTGT
65 AAATACCACTGGTCTGT
* ** * **
94061695 AAAATTGCTAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCAA
1 AAAATTACTAAAATACCCCTGGTTTACAAAATTACCAAAATACCCCTAATCAGTAAAATTACCAA
* *
94061760 CATACCACTGGTTTGT
66 AATACCACTGGTCTGT
*
94061776 GAAATTA
1 AAAATTA
94061783 TCGAAATACC
Statistics
Matches: 75, Mismatches: 11, Indels: 3
0.84 0.12 0.03
Matches are distributed among these distances:
80 58 0.77
81 17 0.23
ACGTcount: A:0.40, C:0.21, G:0.10, T:0.29
Consensus pattern (81 bp):
AAAATTACTAAAATACCCCTGGTTTACAAAATTACCAAAATACCCCTAATCAGTAAAATTACCAA
AATACCACTGGTCTGT
Found at i:94061885 original size:56 final size:55
Alignment explanation
Indices: 94061777--94061906 Score: 149
Period size: 56 Copynumber: 2.4 Consensus size: 55
94061767 CTGGTTTGTG
* * *
94061777 AAATTATCGAAATACCC-TCAATTTGTAAAATTACAAAAATACCTCTGATTTACA
1 AAATTATAGAAATACCCTTGAATTTCTAAAATTACAAAAATACCTCTGATTTACA
* * * *
94061831 AAATTATAGAAATACCCTTGACTTTCTAAAAATTATAGAAATACCAT-TGGTTTACA
1 AAATTATAGAAATACCCTTGAATTTCT-AAAATTACAAAAATACC-TCTGATTTACA
94061887 AAATTACTA-AAATACCCTTG
1 AAATTA-TAGAAATACCCTTG
94061907 GTTTGTAGAT
Statistics
Matches: 65, Mismatches: 7, Indels: 6
0.83 0.09 0.08
Matches are distributed among these distances:
54 16 0.25
55 6 0.09
56 40 0.62
57 3 0.05
ACGTcount: A:0.44, C:0.17, G:0.07, T:0.32
Consensus pattern (55 bp):
AAATTATAGAAATACCCTTGAATTTCTAAAATTACAAAAATACCTCTGATTTACA
Found at i:94062036 original size:27 final size:27
Alignment explanation
Indices: 94061927--94062038 Score: 72
Period size: 27 Copynumber: 4.1 Consensus size: 27
94061917 TTACCAAAAC
* *
94061927 ACCCTTGTAGGGTGAAATGACTAA-AAT
1 ACCCCTGTAGGGTAAAATGAC-AATAAT
* * *
94061954 ACCCCTATTA-GGTAAAAAGATC-GTAA-
1 ACCCCT-GTAGGGTAAAATGA-CAATAAT
* *
94061980 AGCCCCTGTAGGGTAAAGTGACCATAAT
1 A-CCCCTGTAGGGTAAAATGACAATAAT
*
94062008 ACCCCTGTATGGTAAAATGACGAAT-AT
1 ACCCCTGTAGGGTAAAATGAC-AATAAT
94062035 ACCC
1 ACCC
94062039 TTATGTTCCG
Statistics
Matches: 65, Mismatches: 12, Indels: 16
0.70 0.13 0.17
Matches are distributed among these distances:
26 4 0.06
27 55 0.85
28 6 0.09
ACGTcount: A:0.37, C:0.21, G:0.20, T:0.23
Consensus pattern (27 bp):
ACCCCTGTAGGGTAAAATGACAATAAT
Found at i:94062792 original size:31 final size:31
Alignment explanation
Indices: 94062754--94062877 Score: 221
Period size: 31 Copynumber: 4.0 Consensus size: 31
94062744 GATTCAAANA
94062754 GATATGATTTATGATAAGGCTTCGGCCCAGT
1 GATATGATTTATGATAAGGCTTCGGCCCAGT
*
94062785 GATATGATTTATGATAAGGCTTCGGCCCGGT
1 GATATGATTTATGATAAGGCTTCGGCCCAGT
*
94062816 GATATGATTTATGATAAGGCTTCAGCCCAGT
1 GATATGATTTATGATAAGGCTTCGGCCCAGT
*
94062847 GATATGATTTATGAAAAGGCTTCGGCCCAGT
1 GATATGATTTATGATAAGGCTTCGGCCCAGT
94062878 ACCCGTTAAA
Statistics
Matches: 88, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
31 88 1.00
ACGTcount: A:0.27, C:0.16, G:0.26, T:0.31
Consensus pattern (31 bp):
GATATGATTTATGATAAGGCTTCGGCCCAGT
Found at i:94065403 original size:50 final size:50
Alignment explanation
Indices: 94065288--94065621 Score: 351
Period size: 50 Copynumber: 6.8 Consensus size: 50
94065278 GGTTATATAC
* * * ** ** *
94065288 GAGCTAGTGCAAGACCATGTTTGTAACATGGCATCGGCATTG-T-TATGT
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCACCGATGTATGA
* *
94065336 GAGCCAATGTAAGACCATGTCTGGGACATGGCATTGGCACCGATGTATGA
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCACCGATGTATGA
* * **
94065386 GAGCCAGTGTAGGACCATGTCTGGGACATGACATCAACACCGATGTATGA
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCACCGATGTATGA
* * * *
94065436 GAGCTAGTGTAAGACCATGTCTGGGAACATGGCATCAGC-CTC-A-ATATGC
1 GAGCCAGTGTAAGACCATGTCTGGG-ACATGGCATCGGCAC-CGATGTATGA
* * ** ** *
94065485 GAGCCAGTGTAAGACCATGTTTGGAACATGGCATCAACATTG-T-TATGT
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCACCGATGTATGA
*
94065533 GAGCCAGAGTAAGACCATGTCTGGGACATGGCATCGGCACCGATGTATGA
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCACCGATGTATGA
94065583 GAGCCAGTGTAAGACCATGTCAT-GGACATGGCATCGGCA
1 GAGCCAGTGTAAGACCATGTC-TGGGACATGGCATCGGCA
94065622 TTTTTCCCTT
Statistics
Matches: 238, Mismatches: 38, Indels: 18
0.81 0.13 0.06
Matches are distributed among these distances:
48 84 0.35
49 28 0.12
50 113 0.47
51 13 0.05
ACGTcount: A:0.28, C:0.20, G:0.28, T:0.23
Consensus pattern (50 bp):
GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCACCGATGTATGA
Found at i:94085858 original size:6 final size:6
Alignment explanation
Indices: 94085815--94085858 Score: 54
Period size: 6 Copynumber: 7.5 Consensus size: 6
94085805 AATAAAATTG
* * *
94085815 AAATGA AAATAG AAATAA AAAGAA AAATAA AAAT-A AAATAA AAA
1 AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA AAA
94085859 AAGATAAGAG
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
5 5 0.16
6 27 0.84
ACGTcount: A:0.80, C:0.00, G:0.07, T:0.14
Consensus pattern (6 bp):
AAATAA
Found at i:94095893 original size:30 final size:30
Alignment explanation
Indices: 94095834--94095917 Score: 161
Period size: 30 Copynumber: 2.8 Consensus size: 30
94095824 CTGAATCTAA
94095834 ATCACCATACATCCAAGATACAT-TGCATT
1 ATCACCATACATCCAAGATACATATGCATT
94095863 ATCACCATACATCCAAGATACATATGCATT
1 ATCACCATACATCCAAGATACATATGCATT
94095893 ATCACCATACATCCAAGATACATAT
1 ATCACCATACATCCAAGATACATAT
94095918 ACAATGCAAT
Statistics
Matches: 54, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
29 23 0.43
30 31 0.57
ACGTcount: A:0.40, C:0.27, G:0.06, T:0.26
Consensus pattern (30 bp):
ATCACCATACATCCAAGATACATATGCATT
Found at i:94096368 original size:5 final size:5
Alignment explanation
Indices: 94096358--94096390 Score: 66
Period size: 5 Copynumber: 6.6 Consensus size: 5
94096348 AAGATTCTCA
94096358 AATCT AATCT AATCT AATCT AATCT AATCT AAT
1 AATCT AATCT AATCT AATCT AATCT AATCT AAT
94096391 AGTTATTAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 28 1.00
ACGTcount: A:0.42, C:0.18, G:0.00, T:0.39
Consensus pattern (5 bp):
AATCT
Found at i:94102378 original size:14 final size:14
Alignment explanation
Indices: 94102359--94102391 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
94102349 CACTTAAAAA
*
94102359 TATTTTATTTTTTT
1 TATTTTATTATTTT
94102373 TATTTTATTATTTT
1 TATTTTATTATTTT
94102387 TATTT
1 TATTT
94102392 AATAATAAAG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (14 bp):
TATTTTATTATTTT
Found at i:94102449 original size:422 final size:422
Alignment explanation
Indices: 94101665--94102462 Score: 1569
Period size: 422 Copynumber: 1.9 Consensus size: 422
94101655 TTATTACGAG
94101665 ATAATAACAAAAGTAATCTAATCATGATGATCATAGACATTATGTATATTATTAATTATTATATA
1 ATAATAACAAAAGTAATCTAATCATGATGATCATAGACATTATGTATATTATTAATTATTATATA
94101730 ATAATAACAAGTGTAATCTAATCATGTATACAGTTCATTACAATTTTTATCACTTAATTAGTGTT
66 ATAATAACAAGTGTAATCTAATCATGTATACAGTTCATTACAATTTTTATCACTTAATTAGTGTT
94101795 ACAATTATACAAAATAAACTAGGATTTAGCACTATAAATAACTGCATTAGCAAAGCATTTTCATT
131 ACAATTATACAAAATAAACTAGGATTTAGCACTATAAATAACTGCATTAGCAAAGCATTTTCATT
94101860 CAAGTAACCTTTATAAAATCACTGGAAAAATATGTTTTTAGGATTATTAAATAGGTTCTGTTTTC
196 CAAGTAACCTTTATAAAATCACTGGAAAAATATGTTTTTAGGATTATTAAATAGGTTCTGTTTTC
*
94101925 ATCACTTAAAAATATTTTACTTTTTTTATTTTATTATTTGTATTTAATAATAAAGTTAATATCGC
261 ATCACTTAAAAATATTTTACTTTTTTTATTTTATTATTTGTATTTAATAATAAAGTTAATATCAC
94101990 CAAACATCTCCAAACTATGACCCTCATTCTAAATTAGTCCATAAGCTTCAAATCATTCTAATTGT
326 CAAACATCTCCAAACTATGACCCTCATTCTAAATTAGTCCATAAGCTTCAAATCATTCTAATTGT
94102055 ATCAAGGTTATATCAATTAGGTCCTTTTGTTA
391 ATCAAGGTTATATCAATTAGGTCCTTTTGTTA
94102087 ATAATAACAAAAGTAATCTAATCATGATGATCATAGACATTATGTATATTATTAATTATTATATA
1 ATAATAACAAAAGTAATCTAATCATGATGATCATAGACATTATGTATATTATTAATTATTATATA
94102152 ATAATAACAAGTGTAATCTAATCATGTATACAGTTCATTACAATTTTTATCACTTAATTAGTGTT
66 ATAATAACAAGTGTAATCTAATCATGTATACAGTTCATTACAATTTTTATCACTTAATTAGTGTT
94102217 ACAATTATACAAAATAAACTAGGATTTAGCACTATAAATAACTGCATTAGCAAAGCATTTTCATT
131 ACAATTATACAAAATAAACTAGGATTTAGCACTATAAATAACTGCATTAGCAAAGCATTTTCATT
94102282 CAAGTAACCTTTATAAAATCACTGGAAAAATATGTTTTTAGGATTATTAAATAGGTTCTGTTTTC
196 CAAGTAACCTTTATAAAATCACTGGAAAAATATGTTTTTAGGATTATTAAATAGGTTCTGTTTTC
* *
94102347 ATCACTTAAAAATATTTTATTTTTTTTATTTTATTATTTTTATTTAATAATAAAGTTAATATCAC
261 ATCACTTAAAAATATTTTACTTTTTTTATTTTATTATTTGTATTTAATAATAAAGTTAATATCAC
94102412 CAAACATCTCCAAACTATGACCCTCATTCTAAATTAGTCCATAAGCTTCAA
326 CAAACATCTCCAAACTATGACCCTCATTCTAAATTAGTCCATAAGCTTCAA
94102463 TTATATCAAT
Statistics
Matches: 373, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
422 373 1.00
ACGTcount: A:0.39, C:0.13, G:0.09, T:0.39
Consensus pattern (422 bp):
ATAATAACAAAAGTAATCTAATCATGATGATCATAGACATTATGTATATTATTAATTATTATATA
ATAATAACAAGTGTAATCTAATCATGTATACAGTTCATTACAATTTTTATCACTTAATTAGTGTT
ACAATTATACAAAATAAACTAGGATTTAGCACTATAAATAACTGCATTAGCAAAGCATTTTCATT
CAAGTAACCTTTATAAAATCACTGGAAAAATATGTTTTTAGGATTATTAAATAGGTTCTGTTTTC
ATCACTTAAAAATATTTTACTTTTTTTATTTTATTATTTGTATTTAATAATAAAGTTAATATCAC
CAAACATCTCCAAACTATGACCCTCATTCTAAATTAGTCCATAAGCTTCAAATCATTCTAATTGT
ATCAAGGTTATATCAATTAGGTCCTTTTGTTA
Found at i:94104191 original size:17 final size:18
Alignment explanation
Indices: 94104164--94104197 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
94104154 TAATTATTTT
94104164 ATTAATAATATTAATGAA
1 ATTAATAATATTAATGAA
94104182 ATTAAT-ATATTAATGA
1 ATTAATAATATTAATGA
94104198 TTACTACATT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 10 0.62
18 6 0.38
ACGTcount: A:0.53, C:0.00, G:0.06, T:0.41
Consensus pattern (18 bp):
ATTAATAATATTAATGAA
Found at i:94104200 original size:15 final size:16
Alignment explanation
Indices: 94104164--94104210 Score: 51
Period size: 15 Copynumber: 2.9 Consensus size: 16
94104154 TAATTATTTT
94104164 ATTAATAATATTAATGAA
1 ATTAAT-ATATTAATG-A
94104182 ATTAATATATTAATG-
1 ATTAATATATTAATGA
* *
94104197 ATTACTACATTAAT
1 ATTAATATATTAAT
94104211 TATATAAAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
15 12 0.44
17 9 0.33
18 6 0.22
ACGTcount: A:0.49, C:0.04, G:0.04, T:0.43
Consensus pattern (16 bp):
ATTAATATATTAATGA
Found at i:94108408 original size:96 final size:101
Alignment explanation
Indices: 94108283--94108531 Score: 287
Period size: 96 Copynumber: 2.5 Consensus size: 101
94108273 GATTTTTAAA
* * ** *
94108283 TTTTAGGG-TTTTAAGGAAAAAAATTAAATAAATTAGGGTTTAGTGTTTGTTAATTAAATTAATT
1 TTTTAGGGTTTTTAAGG-AAAAAATCAAATAAATTAGGGTTTAGGGTTACTTAAGTAAATTAATT
*
94108347 ACT-AATTTT-AAAAAATTAGATT-A-TA-GTTTAGTG
65 A-TAAATTTTAAAAAAATTAGATTAATTAGGTTTAGGG
* *
94108380 -TTTATGGTTTTTAAGGAAAAAATCAAATAAATTAGGGTTTAGGGTTACTTGAGTAAATTAATTA
1 TTTTAGGGTTTTTAAGGAAAAAATCAAATAAATTAGGGTTTAGGGTTACTTAAGTAAATTAATTA
94108444 TAAATTTTAAAAAAATTAGATTAAGATTTTAGGGTTTAGGG
66 TAAATTTTAAAAAAATTAGATT-A-A--TTA-GGTTTAGGG
* * *
94108485 TTTTAGGGTATTTAAGAAAAAAATCAAATAAATTAGGGTTTGGGGTT
1 TTTTAGGGTTTTTAAGGAAAAAATCAAATAAATTAGGGTTTAGGGTT
94108532 TAGGGTAACT
Statistics
Matches: 128, Mismatches: 12, Indels: 15
0.83 0.08 0.10
Matches are distributed among these distances:
95 1 0.01
96 54 0.42
97 21 0.16
100 1 0.01
103 2 0.02
105 7 0.05
106 42 0.33
ACGTcount: A:0.40, C:0.02, G:0.18, T:0.40
Consensus pattern (101 bp):
TTTTAGGGTTTTTAAGGAAAAAATCAAATAAATTAGGGTTTAGGGTTACTTAAGTAAATTAATTA
TAAATTTTAAAAAAATTAGATTAATTAGGTTTAGGG
Found at i:94108797 original size:126 final size:126
Alignment explanation
Indices: 94108576--94109099 Score: 762
Period size: 126 Copynumber: 4.2 Consensus size: 126
94108566 AAAAGCTTCT
* * *
94108576 ACGTGGACGCTCTTTTGCTACAGTAGTCTCTGAAAAAATAAATTTGAGAAGACGTGTCTGCGCAA
1 ACGTGGACGCTCTTTTGCTACAATAGTCTCTGAAAAAATAATTTTGAGAAGACGTGTCTGCACAA
* *
94108641 ATAGTGTCAAAAACGCTTCAATCAGGATGCATTGTCAGCAAAAGTACTGAAAGAAGCTCCC
66 ATAGTGTCAAAAACGCTTCAAGCAGGATGCATTTTCAGCAAAAGTACTGAAAGAAGCTCCC
* * * * * **
94108702 ACGTGGACACTCTTTTGCTACAGTAGTATCTGAAAAAATAACTTTGAAAAGACGTGTCTGTGCAA
1 ACGTGGACGCTCTTTTGCTACAATAGTCTCTGAAAAAATAATTTTGAGAAGACGTGTCTGCACAA
* * * *
94108767 ATAGTGTAAAAAACGCTTCAAGCAGTATGCATTTTCAGCAAAATTACTGGAAGAAGCTCCC
66 ATAGTGTCAAAAACGCTTCAAGCAGGATGCATTTTCAGCAAAAGTACTGAAAGAAGCTCCC
* * * *
94108828 ACGTAGATGCTCTTTTACTACAATGGTCTCTGAAAAAATAATTTTGAGAAGACGTGTCTGCACAA
1 ACGTGGACGCTCTTTTGCTACAATAGTCTCTGAAAAAATAATTTTGAGAAGACGTGTCTGCACAA
* * *
94108893 ATAGTGGT-AAAAACGCTTCAAGCAGTATGCATTTTCAGCAAAATTACTGGAAGAAGCTCCC
66 ATAGT-GTCAAAAACGCTTCAAGCAGGATGCATTTTCAGCAAAAGTACTGAAAGAAGCTCCC
* * * * *
94108954 ACGTAGATGCTCTTTTACTACAATGGTCTCTGAAAAAATAATTTTGAGAAGACGTGTCTGCATAA
1 ACGTGGACGCTCTTTTGCTACAATAGTCTCTGAAAAAATAATTTTGAGAAGACGTGTCTGCACAA
*
94109019 ATAGTGTCAAAAACGCTTCAATCAGGATGCATTTTCAGCAAAAGTACTGAAAGAAGCTCCC
66 ATAGTGTCAAAAACGCTTCAAGCAGGATGCATTTTCAGCAAAAGTACTGAAAGAAGCTCCC
*
94109080 ACGTGGACTCTCTTTTGCTA
1 ACGTGGACGCTCTTTTGCTA
94109100 TAGTTTTTTC
Statistics
Matches: 365, Mismatches: 31, Indels: 4
0.91 0.08 0.01
Matches are distributed among these distances:
125 2 0.01
126 361 0.99
127 2 0.01
ACGTcount: A:0.34, C:0.19, G:0.19, T:0.27
Consensus pattern (126 bp):
ACGTGGACGCTCTTTTGCTACAATAGTCTCTGAAAAAATAATTTTGAGAAGACGTGTCTGCACAA
ATAGTGTCAAAAACGCTTCAAGCAGGATGCATTTTCAGCAAAAGTACTGAAAGAAGCTCCC
Found at i:94112304 original size:116 final size:116
Alignment explanation
Indices: 94112129--94112508 Score: 670
Period size: 116 Copynumber: 3.3 Consensus size: 116
94112119 TTTATATTTT
* * *
94112129 ATTACATGAAATAATATAAAAATATTCAAAATATTTCTTTATTTAAAATAATTTTCATTTTATTA
1 ATTACATGAAATAATATAAAAATATTCAAAATATTGCCTTATTTAAAATAATTTCCATTTTATTA
* *
94112194 AAAATATAAAAGTAAATTATAATTACTTTATTTAAAACAACCTTTTATATT
66 AAAATATAAAAGTAAATTATAATTACTTTATTTAAAACAACCTTTTATCTA
* *
94112245 ATCACATGAAATAATATAAAAATATTCAAAATGTTGCCTTATTTAAAATAATTTCCATTTTATTA
1 ATTACATGAAATAATATAAAAATATTCAAAATATTGCCTTATTTAAAATAATTTCCATTTTATTA
*
94112310 AAAATATAAAAGTAAATTATAATTATTTTATTTAAAACAACCTTTTATCTA
66 AAAATATAAAAGTAAATTATAATTACTTTATTTAAAACAACCTTTTATCTA
94112361 ATTACATGAAATAATATAAAAATATTCAAAATATTGCCTTATTTAAAATAATTTCCATTTTATTA
1 ATTACATGAAATAATATAAAAATATTCAAAATATTGCCTTATTTAAAATAATTTCCATTTTATTA
*
94112426 AAAATATAAAAGTAAAATATAATTACTTTATTTAAAACAACCTTTTATCTA
66 AAAATATAAAAGTAAATTATAATTACTTTATTTAAAACAACCTTTTATCTA
*
94112477 ATTACATGAAATAATATAAAAAGATTCAAAAT
1 ATTACATGAAATAATATAAAAATATTCAAAAT
94112509 TTTTGTACAA
Statistics
Matches: 251, Mismatches: 13, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
116 251 1.00
ACGTcount: A:0.48, C:0.08, G:0.03, T:0.40
Consensus pattern (116 bp):
ATTACATGAAATAATATAAAAATATTCAAAATATTGCCTTATTTAAAATAATTTCCATTTTATTA
AAAATATAAAAGTAAATTATAATTACTTTATTTAAAACAACCTTTTATCTA
Found at i:94112493 original size:61 final size:61
Alignment explanation
Indices: 94112312--94112497 Score: 194
Period size: 61 Copynumber: 3.1 Consensus size: 61
94112302 TTTTATTAAA
* *
94112312 AATATAAAAGTAAATTATAATTATTTTATTTAAAACAACCTTTTATCTAATTACATGAAAT
1 AATATAAAAGTAAAATATAATTACTTTATTTAAAACAACCTTTTATCTAATTACATGAAAT
* * * * * *
94112373 AATATAAAAATATTCAAA-AT-ATTGCCTTATTTAAAATAA--TTTCCAT-T--TT--ATTAAA-
1 AATATAAAAGTA---AAATATAATTACTTTATTTAAAACAACCTTT-TATCTAATTACATGAAAT
94112428 AATATAAAAGTAAAATATAATTACTTTATTTAAAACAACCTTTTATCTAATTACATGAAAT
1 AATATAAAAGTAAAATATAATTACTTTATTTAAAACAACCTTTTATCTAATTACATGAAAT
94112489 AATATAAAA
1 AATATAAAA
94112498 AGATTCAAAA
Statistics
Matches: 97, Mismatches: 14, Indels: 28
0.70 0.10 0.20
Matches are distributed among these distances:
52 3 0.03
53 2 0.02
54 16 0.16
55 13 0.13
56 9 0.09
58 4 0.04
60 9 0.09
61 22 0.23
62 15 0.15
63 2 0.02
64 2 0.02
ACGTcount: A:0.49, C:0.09, G:0.03, T:0.39
Consensus pattern (61 bp):
AATATAAAAGTAAAATATAATTACTTTATTTAAAACAACCTTTTATCTAATTACATGAAAT
Found at i:94112922 original size:18 final size:18
Alignment explanation
Indices: 94112896--94112938 Score: 68
Period size: 18 Copynumber: 2.4 Consensus size: 18
94112886 GACTAGAAAA
* *
94112896 AGGAAACATATAAGGGCT
1 AGGATACATAAAAGGGCT
94112914 AGGATACATAAAAGGGCT
1 AGGATACATAAAAGGGCT
94112932 AGGATAC
1 AGGATAC
94112939 GTACCTGGCA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.44, C:0.12, G:0.28, T:0.16
Consensus pattern (18 bp):
AGGATACATAAAAGGGCT
Found at i:94113565 original size:7 final size:7
Alignment explanation
Indices: 94113555--94113581 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
94113545 GTTAAATAAA
94113555 AAATACT
1 AAATACT
94113562 AAATACT
1 AAATACT
94113569 AAATACT
1 AAATACT
94113576 AAATAC
1 AAATAC
94113582 GAATCCACTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.59, C:0.15, G:0.00, T:0.26
Consensus pattern (7 bp):
AAATACT
Found at i:94113566 original size:14 final size:14
Alignment explanation
Indices: 94113547--94113580 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
94113537 AAATATTAGT
94113547 TAAATAAAAAATAC
1 TAAATAAAAAATAC
**
94113561 TAAATACTAAATAC
1 TAAATAAAAAATAC
94113575 TAAATA
1 TAAATA
94113581 CGAATCCACT
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:0.65, C:0.09, G:0.00, T:0.26
Consensus pattern (14 bp):
TAAATAAAAAATAC
Found at i:94114698 original size:15 final size:15
Alignment explanation
Indices: 94114678--94114708 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
94114668 TTTTTATTTT
*
94114678 AAAAAATAAATTTAG
1 AAAAAATAAAATTAG
94114693 AAAAAATAAAATTAG
1 AAAAAATAAAATTAG
94114708 A
1 A
94114709 GCTTTTTTGA
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:0.71, C:0.00, G:0.06, T:0.23
Consensus pattern (15 bp):
AAAAAATAAAATTAG
Found at i:94114783 original size:11 final size:11
Alignment explanation
Indices: 94114739--94114777 Score: 60
Period size: 11 Copynumber: 3.5 Consensus size: 11
94114729 GAGATTTTTT
* *
94114739 AGAGGAATTTA
1 AGAGAAATTTG
94114750 AGAGAAATTTG
1 AGAGAAATTTG
94114761 AGAGAAATTTG
1 AGAGAAATTTG
94114772 AGAGAA
1 AGAGAA
94114778 TATTGAAAGA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
11 26 1.00
ACGTcount: A:0.49, C:0.00, G:0.28, T:0.23
Consensus pattern (11 bp):
AGAGAAATTTG
Found at i:94115651 original size:35 final size:34
Alignment explanation
Indices: 94115593--94115687 Score: 93
Period size: 35 Copynumber: 2.7 Consensus size: 34
94115583 ATAAATTTAG
* **
94115593 TATAAATACAATTTAATTTATATTTGATTATTTGAT
1 TATAAATATAATTTAA-AAATATTTGA-TATTTGAT
* *
94115629 T-TAAATATAATTTGTAAAATATTTTGATATTTTAT
1 TATAAATATAATTT-AAAAATA-TTTGATATTTGAT
*
94115664 TATGAATATAATTTAAAAATATTT
1 TATAAATATAATTTAAAAATATTT
94115688 AAATTTTATT
Statistics
Matches: 49, Mismatches: 7, Indels: 8
0.77 0.11 0.12
Matches are distributed among these distances:
34 3 0.06
35 28 0.57
36 18 0.37
ACGTcount: A:0.42, C:0.01, G:0.05, T:0.52
Consensus pattern (34 bp):
TATAAATATAATTTAAAAATATTTGATATTTGAT
Found at i:94115672 original size:36 final size:35
Alignment explanation
Indices: 94115615--94115687 Score: 94
Period size: 35 Copynumber: 2.1 Consensus size: 35
94115605 TTAATTTATA
*
94115615 TTTGATTATTTGATTTAAATATAATTTGTAAAATAT
1 TTTGATTATTTGATTTAAATATAATTT-AAAAATAT
* *
94115651 TTTGA-TATTTTATTATGAATATAATTTAAAAATAT
1 TTTGATTATTTGATT-TAAATATAATTTAAAAATAT
94115686 TT
1 TT
94115688 AAATTTTATT
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
35 17 0.52
36 16 0.48
ACGTcount: A:0.40, C:0.00, G:0.07, T:0.53
Consensus pattern (35 bp):
TTTGATTATTTGATTTAAATATAATTTAAAAATAT
Found at i:94115908 original size:21 final size:21
Alignment explanation
Indices: 94115884--94115932 Score: 71
Period size: 21 Copynumber: 2.3 Consensus size: 21
94115874 CATTGTTTCT
* *
94115884 AATCTCACCGCTATAGTATCC
1 AATCTCACCGCTACAGTAACC
*
94115905 AATCTCACCGCTACAGTAACT
1 AATCTCACCGCTACAGTAACC
94115926 AATCTCA
1 AATCTCA
94115933 TCGTCACCTC
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.33, C:0.33, G:0.08, T:0.27
Consensus pattern (21 bp):
AATCTCACCGCTACAGTAACC
Found at i:94119010 original size:91 final size:91
Alignment explanation
Indices: 94118855--94119038 Score: 341
Period size: 91 Copynumber: 2.0 Consensus size: 91
94118845 TACTAAAACT
*
94118855 TTCAATTGAGCAATTTATAAACCATGATAGTTCAAATCAAAACAAATCACTCTTTGATATTTAAA
1 TTCAATTGAGCAATTCATAAACCATGATAGTTCAAATCAAAACAAATCACTCTTTGATATTTAAA
94118920 TACATAACTCTGTCACTAATATCGCA
66 TACATAACTCTGTCACTAATATCGCA
*
94118946 TTCAATTGAGCAATTCATAAACCATGATAGTTTAAATCAAAACAAATCACTCTTTGATATTTAAA
1 TTCAATTGAGCAATTCATAAACCATGATAGTTCAAATCAAAACAAATCACTCTTTGATATTTAAA
*
94119011 TACATAACTCTGTCACTAATATTGCA
66 TACATAACTCTGTCACTAATATCGCA
94119037 TT
1 TT
94119039 TACAGAGCAT
Statistics
Matches: 90, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
91 90 1.00
ACGTcount: A:0.40, C:0.18, G:0.08, T:0.34
Consensus pattern (91 bp):
TTCAATTGAGCAATTCATAAACCATGATAGTTCAAATCAAAACAAATCACTCTTTGATATTTAAA
TACATAACTCTGTCACTAATATCGCA
Found at i:94119576 original size:20 final size:20
Alignment explanation
Indices: 94119553--94119598 Score: 74
Period size: 20 Copynumber: 2.3 Consensus size: 20
94119543 AGGAAGAAAT
* *
94119553 GTGCAAACAGAGGCACCAAA
1 GTGCAAACAAAGACACCAAA
94119573 GTGCAAACAAAGACACCAAA
1 GTGCAAACAAAGACACCAAA
94119593 GTGCAA
1 GTGCAA
94119599 TCCCGTACAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.48, C:0.24, G:0.22, T:0.07
Consensus pattern (20 bp):
GTGCAAACAAAGACACCAAA
Found at i:94120441 original size:41 final size:42
Alignment explanation
Indices: 94120390--94120474 Score: 145
Period size: 44 Copynumber: 2.0 Consensus size: 42
94120380 GAAGGTAAGG
94120390 GTCTTGATCTA-TTTTTTTTAAAAAGTCCCATGGAAGAAAAA
1 GTCTTGATCTATTTTTTTTTAAAAAGTCCCATGGAAGAAAAA
94120431 GTCTTGATCTATTTTTTTTTTTAAAAAGTCCCATGGAAGAAAAA
1 GTCTTGATCTA--TTTTTTTTTAAAAAGTCCCATGGAAGAAAAA
94120475 AAAATATCTA
Statistics
Matches: 41, Mismatches: 0, Indels: 3
0.93 0.00 0.07
Matches are distributed among these distances:
41 11 0.27
44 30 0.73
ACGTcount: A:0.35, C:0.12, G:0.14, T:0.39
Consensus pattern (42 bp):
GTCTTGATCTATTTTTTTTTAAAAAGTCCCATGGAAGAAAAA
Found at i:94121971 original size:48 final size:48
Alignment explanation
Indices: 94121911--94122043 Score: 149
Period size: 48 Copynumber: 2.8 Consensus size: 48
94121901 TAGGGTTATG
* * * *
94121911 TGTGGTCCCATGTAAGACCAGGTCTGGGACATGGCATTAGCATCGATC
1 TGTGATCCCATGTAAGACCATGTCTGGGACATGGCATTAGCATCAATA
* * *
94121959 TGTGATCCCATGTAAGACCATATCTGGGATATGGCATTGGCATCAATA
1 TGTGATCCCATGTAAGACCATGTCTGGGACATGGCATTAGCATCAATA
* **** *
94122007 TATGATTTTGTATAAGACCATGTCTGGGACATGGCAT
1 TGTGATCCCATGTAAGACCATGTCTGGGACATGGCAT
94122044 CGATATGAGC
Statistics
Matches: 70, Mismatches: 15, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
48 70 1.00
ACGTcount: A:0.26, C:0.19, G:0.26, T:0.29
Consensus pattern (48 bp):
TGTGATCCCATGTAAGACCATGTCTGGGACATGGCATTAGCATCAATA
Found at i:94122065 original size:42 final size:41
Alignment explanation
Indices: 94122019--94122128 Score: 100
Period size: 43 Copynumber: 2.6 Consensus size: 41
94122009 TGATTTTGTA
*
94122019 TAAGACCATGTCTGGGACATGGCATCGATATGAGCCAT-CGTG
1 TAAGACCATGTCTGGGACATGGCATCGATATGAG--ATCCATG
* * * *
94122061 TAAGACCATAG-CTAGG-CTATCGGCTTCGATCTGTGATCCCATG
1 TAAGACCAT-GTCTGGGAC-AT-GGCATCGATATGAGAT-CCATG
94122104 TAAGACCATGTCTGGGACATGGCAT
1 TAAGACCATGTCTGGGACATGGCAT
94122129 TGGCATCGTT
Statistics
Matches: 54, Mismatches: 7, Indels: 14
0.72 0.09 0.19
Matches are distributed among these distances:
41 3 0.06
42 20 0.37
43 30 0.56
44 1 0.02
ACGTcount: A:0.25, C:0.23, G:0.26, T:0.25
Consensus pattern (41 bp):
TAAGACCATGTCTGGGACATGGCATCGATATGAGATCCATG
Found at i:94122153 original size:48 final size:48
Alignment explanation
Indices: 94122092--94122183 Score: 87
Period size: 48 Copynumber: 1.9 Consensus size: 48
94122082 GGCTTCGATC
* ** *
94122092 TGTGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGTTC
1 TGTGATCCCATGTAAGACCATGTCTGGGACATGGCATTAGCATCAATA
* * * * *
94122140 TAG-GATCCCATGTAAGACCATATTTGGAATATGGCATTGGCATC
1 T-GTGATCCCATGTAAGACCATGTCTGGGACATGGCATTAGCATC
94122184 TTACTATATG
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
48 38 0.97
49 1 0.03
ACGTcount: A:0.25, C:0.21, G:0.25, T:0.29
Consensus pattern (48 bp):
TGTGATCCCATGTAAGACCATGTCTGGGACATGGCATTAGCATCAATA
Found at i:94123294 original size:41 final size:41
Alignment explanation
Indices: 94123218--94123354 Score: 213
Period size: 41 Copynumber: 3.4 Consensus size: 41
94123208 GTTTTAGTAA
* * * *
94123218 AAAACGCCGCGAAAAA-TAGAGAATTAGCAGCGCTTTTGGC
1 AAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTTGGC
*
94123258 AAAACGCCACTAAAAACCAGAGCATTAGCGGCGCTTTTGGC
1 AAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTTGGC
*
94123299 AAAACGCCGCCAAAAACCAGAGCATTAGCGGCGCTTTTGGC
1 AAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTTGGC
94123340 AAAACGCCGCTAAAA
1 AAAACGCCGCTAAAA
94123355 GTCATATAAC
Statistics
Matches: 88, Mismatches: 8, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
40 14 0.16
41 74 0.84
ACGTcount: A:0.36, C:0.26, G:0.23, T:0.15
Consensus pattern (41 bp):
AAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTTGGC
Found at i:94123547 original size:21 final size:21
Alignment explanation
Indices: 94123523--94123603 Score: 90
Period size: 21 Copynumber: 3.7 Consensus size: 21
94123513 ATAGTTTATG
94123523 GTTTATGGTTTAAGATATATA
1 GTTTATGGTTTAAGATATATA
* *
94123544 GTTTAAGGTTTAAGATTTATTA
1 GTTTATGGTTTAAGATATA-TA
*
94123566 GTTAACTATGGTTTAAGATATATG
1 GTT---TATGGTTTAAGATATATA
*
94123590 GTTTAGGGTTTAAG
1 GTTTATGGTTTAAG
94123604 GTTTAGGAGT
Statistics
Matches: 50, Mismatches: 6, Indels: 8
0.78 0.09 0.12
Matches are distributed among these distances:
21 27 0.54
22 5 0.10
24 4 0.08
25 14 0.28
ACGTcount: A:0.31, C:0.01, G:0.22, T:0.46
Consensus pattern (21 bp):
GTTTATGGTTTAAGATATATA
Found at i:94123576 original size:46 final size:46
Alignment explanation
Indices: 94123526--94123619 Score: 143
Period size: 46 Copynumber: 2.0 Consensus size: 46
94123516 GTTTATGGTT
**
94123526 TATGGTTTAAGATATATAGTTTAAGGTTTAAGATTTATTAGTTAAC
1 TATGGTTTAAGATATATAGTTTAAGGTTTAAGATTTAGGAGTTAAC
* * *
94123572 TATGGTTTAAGATATATGGTTTAGGGTTTAAGGTTTAGGAGTTAAC
1 TATGGTTTAAGATATATAGTTTAAGGTTTAAGATTTAGGAGTTAAC
94123618 TA
1 TA
94123620 GTATTTGAAG
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
46 43 1.00
ACGTcount: A:0.32, C:0.02, G:0.22, T:0.44
Consensus pattern (46 bp):
TATGGTTTAAGATATATAGTTTAAGGTTTAAGATTTAGGAGTTAAC
Found at i:94123675 original size:7 final size:7
Alignment explanation
Indices: 94123663--94123737 Score: 55
Period size: 7 Copynumber: 10.7 Consensus size: 7
94123653 GGGATTATAA
94123663 TTTAGGG
1 TTTAGGG
94123670 TTTAGGG
1 TTTAGGG
*
94123677 GTTAGGG
1 TTTAGGG
94123684 -TT-GGAG
1 TTTAGG-G
*
94123690 TTTAAGG
1 TTTAGGG
*
94123697 TGTAAGGG
1 T-TTAGGG
*
94123705 TTTGGGG
1 TTTAGGG
*
94123712 TTAAGGG
1 TTTAGGG
*
94123719 TTAAGGG
1 TTTAGGG
*
94123726 TTTAGAG
1 TTTAGGG
94123733 TTTAG
1 TTTAG
94123738 AAAAATAATA
Statistics
Matches: 54, Mismatches: 10, Indels: 8
0.75 0.14 0.11
Matches are distributed among these distances:
5 2 0.04
6 3 0.06
7 43 0.80
8 6 0.11
ACGTcount: A:0.20, C:0.00, G:0.43, T:0.37
Consensus pattern (7 bp):
TTTAGGG
Found at i:94123705 original size:21 final size:22
Alignment explanation
Indices: 94123669--94123736 Score: 72
Period size: 21 Copynumber: 3.2 Consensus size: 22
94123659 ATAATTTAGG
*
94123669 GTTTAGGGGTT-AGGG-TTGGA
1 GTTTAAGGGTTAAGGGTTTGGA
94123689 GTTTAA-GGTGTAAGGGTTTGG-
1 GTTTAAGGGT-TAAGGGTTTGGA
* *
94123710 GGTTAAGGGTTAAGGGTTTAGA
1 GTTTAAGGGTTAAGGGTTTGGA
94123732 GTTTA
1 GTTTA
94123737 GAAAAATAAT
Statistics
Matches: 39, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
19 3 0.08
20 6 0.15
21 19 0.49
22 11 0.28
ACGTcount: A:0.21, C:0.00, G:0.43, T:0.37
Consensus pattern (22 bp):
GTTTAAGGGTTAAGGGTTTGGA
Found at i:94124255 original size:23 final size:23
Alignment explanation
Indices: 94124194--94124256 Score: 76
Period size: 23 Copynumber: 2.7 Consensus size: 23
94124184 TAATATCCTA
*
94124194 TATATGTAATTGTATTTAAATTT
1 TATATGTAATTGTATTAAAATTT
*
94124217 T-TAATTTATATT-TATTAAAATTT
1 TAT-ATGTA-ATTGTATTAAAATTT
94124240 TATATGTAATTGTATTA
1 TATATGTAATTGTATTA
94124257 GCATTTTTTA
Statistics
Matches: 33, Mismatches: 3, Indels: 8
0.75 0.07 0.18
Matches are distributed among these distances:
22 4 0.12
23 25 0.76
24 4 0.12
ACGTcount: A:0.37, C:0.00, G:0.06, T:0.57
Consensus pattern (23 bp):
TATATGTAATTGTATTAAAATTT
Found at i:94129512 original size:43 final size:43
Alignment explanation
Indices: 94129450--94129559 Score: 166
Period size: 44 Copynumber: 2.5 Consensus size: 43
94129440 TTTAATTTTT
*
94129450 ATGACCTTTAGCGGTGTTTTTTGGAAAAGCGCCGCTAAAGGTC
1 ATGACCTTTAGCGGCGTTTTTTGGAAAAGCGCCGCTAAAGGTC
* * *
94129493 CTGACCTTTGGCGGCGTTTTGTGGGAAAAGCGCCGCTAAAGGTC
1 ATGACCTTTAGCGGCGTTTT-TTGGAAAAGCGCCGCTAAAGGTC
94129537 ATGACCTTTAGCGGCGTTGTTTT
1 ATGACCTTTAGCGGCGTT-TTTT
94129560 CAAGTAAACG
Statistics
Matches: 58, Mismatches: 7, Indels: 3
0.85 0.10 0.04
Matches are distributed among these distances:
43 17 0.29
44 39 0.67
45 2 0.03
ACGTcount: A:0.19, C:0.20, G:0.30, T:0.31
Consensus pattern (43 bp):
ATGACCTTTAGCGGCGTTTTTTGGAAAAGCGCCGCTAAAGGTC
Found at i:94130132 original size:31 final size:31
Alignment explanation
Indices: 94130089--94130165 Score: 136
Period size: 31 Copynumber: 2.5 Consensus size: 31
94130079 GTGTCCCAAG
*
94130089 CCACACGGGCGTGTGTGATCACACGGCCTAC
1 CCACACGAGCGTGTGTGATCACACGGCCTAC
*
94130120 CCACACGAGCGTGTGTGATCACACGGCCTAG
1 CCACACGAGCGTGTGTGATCACACGGCCTAC
94130151 CCACACGAGCGTGTG
1 CCACACGAGCGTGTG
94130166 ACCTTCCAAA
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
31 44 1.00
ACGTcount: A:0.21, C:0.34, G:0.30, T:0.16
Consensus pattern (31 bp):
CCACACGAGCGTGTGTGATCACACGGCCTAC
Found at i:94133220 original size:15 final size:17
Alignment explanation
Indices: 94133185--94133219 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 17
94133175 ATACTTAACT
94133185 AATTATCAAATTAATAAA
1 AATTATCAAATT-ATAAA
94133203 AATTATCAAATTA-AAA
1 AATTATCAAATTATAAA
94133219 A
1 A
94133220 TCAATAAAAC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 4 0.24
17 1 0.06
18 12 0.71
ACGTcount: A:0.63, C:0.06, G:0.00, T:0.31
Consensus pattern (17 bp):
AATTATCAAATTATAAA
Found at i:94152239 original size:6 final size:6
Alignment explanation
Indices: 94152228--94152414 Score: 163
Period size: 6 Copynumber: 30.8 Consensus size: 6
94152218 AACCAAAATG
*
94152228 AGAATC AGAATC AGAATC AGTAA-C AGAATC AGAATC AGAATC A-ATATT
1 AGAATC AGAATC AGAATC AG-AATC AGAATC AGAATC AGAATC AGA-ATC
* *
94152276 AGTAA-C AGAATC AGAATC AGAATC AGAATT AG-GTGAC AGAATC AGAATC
1 AG-AATC AGAATC AGAATC AGAATC AGAATC AGAAT--C AGAATC AGAATC
* * * *
94152325 AGAATC AATAAT- AGAATC AGAATT AGAATC AGTATT AGTAA-C AGAATC
1 AGAATC -AGAATC AGAATC AGAATC AGAATC AGAATC AG-AATC AGAATC
* *
94152373 AGAATC AGAATC AGAATT AG-GTGAC AGAATC AGAATC AGAAT
1 AGAATC AGAATC AGAATC AGAAT--C AGAATC AGAATC AGAAT
94152415 GTGAATGCAA
Statistics
Matches: 147, Mismatches: 18, Indels: 32
0.75 0.09 0.16
Matches are distributed among these distances:
5 13 0.09
6 119 0.81
7 12 0.08
8 3 0.02
ACGTcount: A:0.49, C:0.13, G:0.18, T:0.21
Consensus pattern (6 bp):
AGAATC
Found at i:94152243 original size:30 final size:30
Alignment explanation
Indices: 94152207--94152414 Score: 225
Period size: 30 Copynumber: 7.1 Consensus size: 30
94152197 AAGAAACATT
* *
94152207 ATCAGAATT-GGAACCAAAATGAGAATCAGA
1 ATCAGAATTAGGAA-CAGAATCAGAATCAGA
* *
94152237 ATCAGAATCAGTAACAGAATCAGAATCAGA
1 ATCAGAATTAGGAACAGAATCAGAATCAGA
*
94152267 ATCA-ATATTAGTAACAGAATCAGAATCAGA
1 ATCAGA-ATTAGGAACAGAATCAGAATCAGA
*
94152297 ATCAGAATTAGGTGACAGAATCAGAATCAGA
1 ATCAGAATTAGG-AACAGAATCAGAATCAGA
* *
94152328 ATC--AA-T---AATAGAATCAGAATTAGA
1 ATCAGAATTAGGAACAGAATCAGAATCAGA
* *
94152352 ATCAGTATTAGTAACAGAATCAGAATCAGA
1 ATCAGAATTAGGAACAGAATCAGAATCAGA
*
94152382 ATCAGAATTAGGTGACAGAATCAGAATCAGA
1 ATCAGAATTAGG-AACAGAATCAGAATCAGA
94152413 AT
1 AT
94152415 GTGAATGCAA
Statistics
Matches: 151, Mismatches: 16, Indels: 21
0.80 0.09 0.11
Matches are distributed among these distances:
24 18 0.12
26 1 0.01
27 1 0.01
28 1 0.01
29 3 0.02
30 84 0.56
31 43 0.28
ACGTcount: A:0.49, C:0.13, G:0.18, T:0.21
Consensus pattern (30 bp):
ATCAGAATTAGGAACAGAATCAGAATCAGA
Found at i:94152328 original size:85 final size:85
Alignment explanation
Indices: 94152228--94152414 Score: 338
Period size: 85 Copynumber: 2.2 Consensus size: 85
94152218 AACCAAAATG
*
94152228 AGAATCAGAATCAGAATCAGTAACAGAATCAGAATCAGAATCAATATTAGTAACAGAATCAGAAT
1 AGAATCAGAATCAGAATCAATAACAGAATCAGAATCAGAATCAATATTAGTAACAGAATCAGAAT
94152293 CAGAATCAGAATTAGGTGAC
66 CAGAATCAGAATTAGGTGAC
* * *
94152313 AGAATCAGAATCAGAATCAATAATAGAATCAGAATTAGAATCAGTATTAGTAACAGAATCAGAAT
1 AGAATCAGAATCAGAATCAATAACAGAATCAGAATCAGAATCAATATTAGTAACAGAATCAGAAT
94152378 CAGAATCAGAATTAGGTGAC
66 CAGAATCAGAATTAGGTGAC
94152398 AGAATCAGAATCAGAAT
1 AGAATCAGAATCAGAAT
94152415 GTGAATGCAA
Statistics
Matches: 98, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
85 98 1.00
ACGTcount: A:0.49, C:0.13, G:0.18, T:0.21
Consensus pattern (85 bp):
AGAATCAGAATCAGAATCAATAACAGAATCAGAATCAGAATCAATATTAGTAACAGAATCAGAAT
CAGAATCAGAATTAGGTGAC
Found at i:94152818 original size:22 final size:22
Alignment explanation
Indices: 94152770--94152828 Score: 64
Period size: 22 Copynumber: 2.7 Consensus size: 22
94152760 GTAAATACGT
*
94152770 TTGGCACGAAGCCATAGTCAAG
1 TTGGCACAAAGCCATAGTCAAG
* * * *
94152792 ATGGCACAAAGCCATATTTAGG
1 TTGGCACAAAGCCATAGTCAAG
*
94152814 TTGGCACAGAGCCAT
1 TTGGCACAAAGCCAT
94152829 TAATAACGGG
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.32, C:0.22, G:0.25, T:0.20
Consensus pattern (22 bp):
TTGGCACAAAGCCATAGTCAAG
Found at i:94152952 original size:65 final size:65
Alignment explanation
Indices: 94152848--94152976 Score: 222
Period size: 65 Copynumber: 2.0 Consensus size: 65
94152838 GTCTATAATC
*
94152848 GGCACGAAGCCCACAACAACGGCACACAGCCTTCGGTAGCGTGATCGGCACTTAGCCATCGATCT
1 GGCACGAAGCCCACAACAACGGCACACAACCTTCGGTAGCGTGATCGGCACTTAGCCATCGATCT
* * *
94152913 GGCACGAAGTCTACAACAACGGCACACAACCTTCTGTAGCGTGATCGGCACTTAGCCATCGATC
1 GGCACGAAGCCCACAACAACGGCACACAACCTTCGGTAGCGTGATCGGCACTTAGCCATCGATC
94152977 GATCAACAGA
Statistics
Matches: 60, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
65 60 1.00
ACGTcount: A:0.27, C:0.33, G:0.23, T:0.17
Consensus pattern (65 bp):
GGCACGAAGCCCACAACAACGGCACACAACCTTCGGTAGCGTGATCGGCACTTAGCCATCGATCT
Found at i:94153060 original size:27 final size:26
Alignment explanation
Indices: 94152981--94153063 Score: 112
Period size: 27 Copynumber: 3.1 Consensus size: 26
94152971 TCGATCGATC
* * *
94152981 AACAGATATTGTGACAGAGTCACCAA
1 AACAGATATTGTGGCAGAGCCACCAG
94153007 ATACAGATATTGTGGCAGAGCCACCAG
1 A-ACAGATATTGTGGCAGAGCCACCAG
*
94153034 AACAGATATTTGTGGCATAGCCACCAG
1 AACAGATA-TTGTGGCAGAGCCACCAG
94153061 AAC
1 AAC
94153064 GCTTCCTCCG
Statistics
Matches: 51, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
26 8 0.16
27 43 0.84
ACGTcount: A:0.37, C:0.22, G:0.22, T:0.19
Consensus pattern (26 bp):
AACAGATATTGTGGCAGAGCCACCAG
Found at i:94153292 original size:27 final size:27
Alignment explanation
Indices: 94153262--94153457 Score: 239
Period size: 27 Copynumber: 7.3 Consensus size: 27
94153252 GGGGCAAAAT
* * *
94153262 GGTAATTTTACCCCACAAGGGTATCTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
94153289 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
94153316 GGTATTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
94153343 GATAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* * *
94153370 GGTAATTCTATCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* * *
94153397 AGTAATTCTACCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* * *
94153424 AGAAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
94153451 AGTAATT
1 GGTAATT
94153458 TCACAATTGA
Statistics
Matches: 152, Mismatches: 17, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 152 1.00
ACGTcount: A:0.26, C:0.20, G:0.19, T:0.35
Consensus pattern (27 bp):
GGTAATTCTACCCTACAAGGGTATTTC
Found at i:94153406 original size:81 final size:82
Alignment explanation
Indices: 94153264--94153457 Score: 275
Period size: 81 Copynumber: 2.4 Consensus size: 82
94153254 GGCAAAATGG
* * * * * *
94153264 TAATTTTACCCCACAAGGGTATCTCGGTAATTCTACCCTACAGGGGTATTTCGGTATTTCTACCC
1 TAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCC
94153329 TACAAGGGTATTTC-GA
66 TACAAGGGTATTTCAGA
* *
94153345 TAATTCTACCCTACAGGGGTATTTCGGTAATTCTATCCTATAGGGGTATTTCAGTAATTCTACCC
1 TAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCC
* *
94153410 TATAGGGGTATTTCAGA
66 TACAAGGGTATTTCAGA
*
94153427 -AATTCTACCCTACAGGGGTATTTCAGTAATT
1 TAATTCTACCCTACAGGGGTATTTCGGTAATT
94153458 TCACAATTGA
Statistics
Matches: 101, Mismatches: 11, Indels: 2
0.89 0.10 0.02
Matches are distributed among these distances:
81 99 0.98
82 2 0.02
ACGTcount: A:0.26, C:0.21, G:0.19, T:0.35
Consensus pattern (82 bp):
TAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCC
TACAAGGGTATTTCAGA
Found at i:94153418 original size:54 final size:54
Alignment explanation
Indices: 94153262--94153457 Score: 268
Period size: 54 Copynumber: 3.6 Consensus size: 54
94153252 GGGGCAAAAT
* * * * *
94153262 GGTAATTTTACCCCACAAGGGTATCTCGGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTC
* *
94153316 GGTATTTCTACCCTACAAGGGTATTTC-GATAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTCAG-TAATTCTACCCTACAGGGGTATTTC
* * *
94153370 GGTAATTCTATCCTATAGGGGTATTTCAGTAATTCTACCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTC
* *
94153424 AGAAATTCTACCCTACAGGGGTATTTCAGTAATT
1 GGTAATTCTACCCTACAGGGGTATTTCAGTAATT
94153458 TCACAATTGA
Statistics
Matches: 127, Mismatches: 13, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
53 1 0.01
54 125 0.98
55 1 0.01
ACGTcount: A:0.26, C:0.20, G:0.19, T:0.35
Consensus pattern (54 bp):
GGTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTC
Found at i:94153496 original size:27 final size:27
Alignment explanation
Indices: 94153466--94153813 Score: 379
Period size: 27 Copynumber: 13.0 Consensus size: 27
94153456 TTTCACAATT
* *
94153466 GAGGGTAAAATGGTAATTCTATAAATC
1 GAGGGTAAAACGGTAATTCTGTAAATC
* *
94153493 GAGGGTAAAACGATAATTTTGTAAA-C
1 GAGGGTAAAACGGTAATTCTGTAAATC
* *
94153519 TGAGGGTAAACCAGTAATTCTGTAAATC
1 -GAGGGTAAAACGGTAATTCTGTAAATC
* * * **
94153547 AAGAGTAAAACGGTAATTTTACAAATC
1 GAGGGTAAAACGGTAATTCTGTAAATC
*
94153574 GAAGGTAAAACGGTAATTCTGTAAA--
1 GAGGGTAAAACGGTAATTCTGTAAATC
* *
94153599 -NGGGTAAAATGGTAATTCTGTAAA-C
1 GAGGGTAAAACGGTAATTCTGTAAATC
*
94153624 TGAGGGTAAAACGGTAATTCTGTAAATT
1 -GAGGGTAAAACGGTAATTCTGTAAATC
* **
94153652 GAGGGTAAAACGGTAATTTTACAAATC
1 GAGGGTAAAACGGTAATTCTGTAAATC
* *
94153679 AAGGGTAAAACGGTAATTCTATAAATC
1 GAGGGTAAAACGGTAATTCTGTAAATC
*
94153706 GAGGG-AAAACAGTAATTCTGTAAA-C
1 GAGGGTAAAACGGTAATTCTGTAAATC
* *
94153731 TGTGGGTAAAACGGTAATTTTGTAAATC
1 -GAGGGTAAAACGGTAATTCTGTAAATC
* *
94153759 GAGGGTAAAACAGTAATTCTATAAA-C
1 GAGGGTAAAACGGTAATTCTGTAAATC
94153785 TGAGGGTAAAACGGTAATTCTGTAAATC
1 -GAGGGTAAAACGGTAATTCTGTAAATC
94153813 G
1 G
94153814 GGAGTACTTT
Statistics
Matches: 264, Mismatches: 46, Indels: 22
0.80 0.14 0.07
Matches are distributed among these distances:
24 21 0.08
25 1 0.00
26 23 0.09
27 216 0.82
28 3 0.01
ACGTcount: A:0.40, C:0.10, G:0.22, T:0.27
Consensus pattern (27 bp):
GAGGGTAAAACGGTAATTCTGTAAATC
Found at i:94153563 original size:107 final size:108
Alignment explanation
Indices: 94153452--94153813 Score: 452
Period size: 107 Copynumber: 3.4 Consensus size: 108
94153442 GGGTATTTCA
* * *
94153452 GTAATTTCAC-AATTGAGGGTAAAATGGTAATTCTATAAATCGAGGGTAAAACGATAATTTTGTA
1 GTAATTTCACAAATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAACGATAATTCTGTA
* * * *
94153516 AACTGAGGGTAAACCAGTAATTCTGTAAATCAAGAGTAAAACG
66 AACTGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACG
* * * * * *
94153559 GTAATTTTACAAATCGAAGGTAAAACGGTAATTCTGTAAA---NGGGTAAAATGGTAATTCTGTA
1 GTAATTTCACAAATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAACGATAATTCTGTA
*
94153621 AACTGAGGGTAAAACGGTAATTCTGTAAATTGAGGGTAAAACG
66 AACTGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACG
* *
94153664 GTAATTTTACAAATCAAGGGTAAAACGGTAATTCTATAAATCGAGGG-AAAAC-AGTAATTCTGT
1 GTAATTTCACAAATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAACGA-TAATTCTGT
* * *
94153727 AAACTGTGGGTAAAACGGTAATTTTGTAAATCGAGGGTAAAACA
65 AAACTGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACG
* *
94153771 GTAA-TTCTATAAA-CTGAGGGTAAAACGGTAATTCTGTAAATCG
1 GTAATTTC-ACAAATC-GAGGGTAAAACGGTAATTCTATAAATCG
94153814 GGAGTACTTT
Statistics
Matches: 220, Mismatches: 28, Indels: 14
0.84 0.11 0.05
Matches are distributed among these distances:
105 93 0.42
106 3 0.01
107 96 0.44
108 28 0.13
ACGTcount: A:0.40, C:0.10, G:0.22, T:0.28
Consensus pattern (108 bp):
GTAATTTCACAAATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAACGATAATTCTGTA
AACTGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACG
Found at i:94153633 original size:132 final size:132
Alignment explanation
Indices: 94153468--94153812 Score: 462
Period size: 132 Copynumber: 2.6 Consensus size: 132
94153458 TCACAATTGA
* * * *
94153468 GGGTAAAATGGTAATTCTATAAATCGAGGGTAAAACGATAATTTTGTAAACTGAGGGTAAACCAG
1 GGGTAAAATGGTAATTCTGTAAATCGAGGGTAAAACGATAATTCTGTAAACTGAGGGTAAAACGG
* * *
94153533 TAATTCTGTAAATCAAGAGTAAAACGGTAATTTTACAAATCGAAGGTAAAACGGTAATTCTGTAA
66 TAATTCTGTAAATCAAGAGTAAAACGGTAATTCTACAAATCG-AGGGAAAACAGTAATTCTGTAA
*
94153598 A-N
130 ACT
* *
94153600 GGGTAAAATGGTAATTCTGTAAA-CTGAGGGTAAAACGGTAATTCTGTAAATTGAGGGTAAAACG
1 GGGTAAAATGGTAATTCTGTAAATC-GAGGGTAAAACGATAATTCTGTAAACTGAGGGTAAAACG
* ** * *
94153664 GTAATTTTACAAATCAAGGGTAAAACGGTAATTCTATAAATCGAGGGAAAACAGTAATTCTGTAA
65 GTAATTCTGTAAATCAAGAGTAAAACGGTAATTCTACAAATCGAGGGAAAACAGTAATTCTGTAA
94153729 ACTGT
130 AC--T
* * *
94153734 GGGTAAAACGGTAATTTTGTAAATCGAGGGTAAAAC-AGTAATTCTATAAACTGAGGGTAAAACG
1 GGGTAAAATGGTAATTCTGTAAATCGAGGGTAAAACGA-TAATTCTGTAAACTGAGGGTAAAACG
94153798 GTAATTCTGTAAATC
65 GTAATTCTGTAAATC
94153813 GGGAGTACTT
Statistics
Matches: 184, Mismatches: 23, Indels: 10
0.85 0.11 0.05
Matches are distributed among these distances:
131 22 0.12
132 93 0.51
134 68 0.37
135 1 0.01
ACGTcount: A:0.40, C:0.10, G:0.22, T:0.28
Consensus pattern (132 bp):
GGGTAAAATGGTAATTCTGTAAATCGAGGGTAAAACGATAATTCTGTAAACTGAGGGTAAAACGG
TAATTCTGTAAATCAAGAGTAAAACGGTAATTCTACAAATCGAGGGAAAACAGTAATTCTGTAAA
CT
Found at i:94155198 original size:27 final size:27
Alignment explanation
Indices: 94155152--94155334 Score: 196
Period size: 27 Copynumber: 6.8 Consensus size: 27
94155142 TAAGACCTTA
* * *
94155152 ATTTTTAAAATTACTAAAATACCCCCA
1 ATTTGTAAAATTACTGAAATACCCCCG
*
94155179 ACTTGTAAAATTACTGAAATACCCCCGG
1 ATTTGTAAAATTACTGAAATACCCCC-G
*
94155207 A-TTGTAAAATTACTAAAATA-CCCCG
1 ATTTGTAAAATTACTGAAATACCCCCG
94155232 ATTTGTAAAATTA-TCGAAATACCCCC-
1 ATTTGTAAAATTACT-GAAATACCCCCG
* * *
94155258 AGTTTGTAAAATTAATGAAATACTCTCG
1 A-TTTGTAAAATTACTGAAATACCCCCG
* * *
94155286 GTTTGTAAAATTACTAAAATACCCTCG
1 ATTTGTAAAATTACTGAAATACCCCCG
94155313 ATTTGTAAAATTA-TCGAAATAC
1 ATTTGTAAAATTACT-GAAATAC
94155335 TCTTGTAGTG
Statistics
Matches: 134, Mismatches: 14, Indels: 16
0.82 0.09 0.10
Matches are distributed among these distances:
25 3 0.02
26 22 0.16
27 107 0.80
28 2 0.01
ACGTcount: A:0.40, C:0.19, G:0.09, T:0.32
Consensus pattern (27 bp):
ATTTGTAAAATTACTGAAATACCCCCG
Found at i:94155292 original size:80 final size:81
Alignment explanation
Indices: 94155168--94155334 Score: 273
Period size: 80 Copynumber: 2.1 Consensus size: 81
94155158 AAAATTACTA
*
94155168 AAATACCCCCAACTTGTAAAATTACTGAAATACCCCCGGATTGTAAAATTACTAAAATACCC-CG
1 AAATACCCCCAACTTGTAAAATTAATGAAATACCCCCGGATTGTAAAATTACTAAAATACCCTCG
94155232 ATTTGTAAAATTATCG
66 ATTTGTAAAATTATCG
** * * *
94155248 AAATACCCCCAGTTTGTAAAATTAATGAAATACTCTCGGTTTGTAAAATTACTAAAATACCCTCG
1 AAATACCCCCAACTTGTAAAATTAATGAAATACCCCCGGATTGTAAAATTACTAAAATACCCTCG
94155313 ATTTGTAAAATTATCG
66 ATTTGTAAAATTATCG
94155329 AAATAC
1 AAATAC
94155335 TCTTGTAGTG
Statistics
Matches: 80, Mismatches: 6, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
80 56 0.70
81 24 0.30
ACGTcount: A:0.40, C:0.20, G:0.10, T:0.30
Consensus pattern (81 bp):
AAATACCCCCAACTTGTAAAATTAATGAAATACCCCCGGATTGTAAAATTACTAAAATACCCTCG
ATTTGTAAAATTATCG
Found at i:94155318 original size:54 final size:53
Alignment explanation
Indices: 94155181--94155363 Score: 180
Period size: 54 Copynumber: 3.4 Consensus size: 53
94155171 TACCCCCAAC
* * *
94155181 TTGTAAAATTACTGAAATACCCCCGGA-TTGTAAAATTACTAAAATAC-CCCGAT
1 TTGTAAAATTACTGAAATA-CCCC-GATTTGTAAAATTAATGAAATACTCTCGAT
* *
94155234 TTGTAAAATTA-TCGAAATACCCCCAGTTTGTAAAATTAATGAAATACTCTCGGT
1 TTGTAAAATTACT-GAAATACCCCGA-TTTGTAAAATTAATGAAATACTCTCGAT
* *
94155288 TTGTAAAATTACTAAAATACCCTCGATTTGTAAAATT-ATCGAAATACTCTTG-T
1 TTGTAAAATTACTGAAATACCC-CGATTTGTAAAATTAAT-GAAATACTCTCGAT
*
94155341 AGTGTAAAATTA-TCGAAATACCC
1 -TTGTAAAATTACT-GAAATACCC
94155364 TTGTAGAGTA
Statistics
Matches: 111, Mismatches: 10, Indels: 17
0.80 0.07 0.12
Matches are distributed among these distances:
51 1 0.01
52 5 0.05
53 39 0.35
54 63 0.57
55 3 0.03
ACGTcount: A:0.39, C:0.17, G:0.11, T:0.32
Consensus pattern (53 bp):
TTGTAAAATTACTGAAATACCCCGATTTGTAAAATTAATGAAATACTCTCGAT
Found at i:94155346 original size:27 final size:27
Alignment explanation
Indices: 94155235--94155512 Score: 287
Period size: 27 Copynumber: 10.3 Consensus size: 27
94155225 TACCCCGATT
** *
94155235 TGTAAAATTATCGAAATACCCCCAGT-T
1 TGTAAAATTATCGAAATA-CCCTTGTAG
* * *
94155262 TGTAAAATTAAT-GAAATACTCTCGGT-T
1 TGTAAAATT-ATCGAAATACCCT-TGTAG
* * *
94155289 TGTAAAATTA-CTAAAATACCCTCG-ATT
1 TGTAAAATTATC-GAAATACCCTTGTA-G
*
94155316 TGTAAAATTATCGAAATACTCTTGTAG
1 TGTAAAATTATCGAAATACCCTTGTAG
94155343 TGTAAAATTATCGAAATACCCTTGTAG
1 TGTAAAATTATCGAAATACCCTTGTAG
* * *
94155370 AGTAAAATTACCGAAATACCCTTATAG
1 TGTAAAATTATCGAAATACCCTTGTAG
*
94155397 TGTAAAATTATTGAAATACCCTTGTAG
1 TGTAAAATTATCGAAATACCCTTGTAG
*
94155424 TGTAAAATTATCGAAATATCCTTGTAG
1 TGTAAAATTATCGAAATACCCTTGTAG
* * * *
94155451 TGTAAAATTACCAAAATACCCTTTTAA
1 TGTAAAATTATCGAAATACCCTTGTAG
*
94155478 TGTAAAATTATCGAAATACCCCTGTAG
1 TGTAAAATTATCGAAATACCCTTGTAG
*
94155505 AGTAAAAT
1 TGTAAAAT
94155513 GACTATTTTG
Statistics
Matches: 212, Mismatches: 31, Indels: 16
0.82 0.12 0.06
Matches are distributed among these distances:
26 4 0.02
27 204 0.96
28 4 0.02
ACGTcount: A:0.40, C:0.15, G:0.12, T:0.33
Consensus pattern (27 bp):
TGTAAAATTATCGAAATACCCTTGTAG
Found at i:94155351 original size:81 final size:81
Alignment explanation
Indices: 94155182--94155512 Score: 345
Period size: 81 Copynumber: 4.1 Consensus size: 81
94155172 ACCCCCAACT
* * * *
94155182 TGTAAAATTA-CTGAAATACCCCCGG-ATTGTAAAATTACTAAAATACCCCGATTTGTAAAATTA
1 TGTAAAATTATC-GAAATACCCTCGGTAGTGTAAAATTACCAAAATACCCTGATTTGTAAAATTA
* *
94155245 TCGAAATACCCCCAGT-T
65 TCGAAATA-CCCCTGTAG
* * *
94155262 TGTAAAATTAAT-GAAATACTCTCGGT-TTGTAAAATTACTAAAATACCCTCGATTTGTAAAATT
1 TGTAAAATT-ATCGAAATACCCTCGGTAGTGTAAAATTACCAAAATACCCT-GATTTGTAAAATT
* *
94155325 ATCGAAATACTCTTGTAG
64 ATCGAAATACCCCTGTAG
* * * * *
94155343 TGTAAAATTATCGAAATACCCT-TGTAGAGTAAAATTACCGAAATACCCTTATAGTGTAAAATTA
1 TGTAAAATTATCGAAATACCCTCGGTAGTGTAAAATTACCAAAATACCCTGAT-TTGTAAAATTA
* *
94155407 TTGAAATACCCTTGTAG
65 TCGAAATACCCCTGTAG
* * *
94155424 TGTAAAATTATCGAAATATCCT-TGTAGTGTAAAATTACCAAAATACCCT-TTTAATGTAAAATT
1 TGTAAAATTATCGAAATACCCTCGGTAGTGTAAAATTACCAAAATACCCTGATT--TGTAAAATT
94155487 ATCGAAATACCCCTGTAG
64 ATCGAAATACCCCTGTAG
*
94155505 AGTAAAAT
1 TGTAAAAT
94155513 GACTATTTTG
Statistics
Matches: 216, Mismatches: 25, Indels: 19
0.83 0.10 0.07
Matches are distributed among these distances:
80 53 0.25
81 163 0.75
ACGTcount: A:0.40, C:0.16, G:0.12, T:0.32
Consensus pattern (81 bp):
TGTAAAATTATCGAAATACCCTCGGTAGTGTAAAATTACCAAAATACCCTGATTTGTAAAATTAT
CGAAATACCCCTGTAG
Found at i:94155615 original size:34 final size:34
Alignment explanation
Indices: 94155562--94155654 Score: 150
Period size: 34 Copynumber: 2.7 Consensus size: 34
94155552 ATGAATTTGG
*
94155562 CTGATTTGACTGTGGTTGTATGACTGTGTTTTAA
1 CTGAATTGACTGTGGTTGTATGACTGTGTTTTAA
*
94155596 CTGAATTGACTGTGATTGTATGACTGTGTTTTAA
1 CTGAATTGACTGTGGTTGTATGACTGTGTTTTAA
* *
94155630 CTGACTTGACTGTGGTTATATGACT
1 CTGAATTGACTGTGGTTGTATGACT
94155655 AACATGCTTT
Statistics
Matches: 54, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
34 54 1.00
ACGTcount: A:0.20, C:0.11, G:0.25, T:0.44
Consensus pattern (34 bp):
CTGAATTGACTGTGGTTGTATGACTGTGTTTTAA
Found at i:94158563 original size:24 final size:24
Alignment explanation
Indices: 94158536--94158582 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
94158526 CTAGATTTCC
**
94158536 TCCCTTACCTGCTCCTAAATCCTA
1 TCCCTTACCAACTCCTAAATCCTA
*
94158560 TCCCTTATCAACTCCTAAATCCT
1 TCCCTTACCAACTCCTAAATCCT
94158583 CTCCTGACAG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.23, C:0.40, G:0.02, T:0.34
Consensus pattern (24 bp):
TCCCTTACCAACTCCTAAATCCTA
Found at i:94160981 original size:24 final size:24
Alignment explanation
Indices: 94160949--94160994 Score: 83
Period size: 24 Copynumber: 1.9 Consensus size: 24
94160939 TCCGAGGTGC
94160949 AGCCAACACCGAAAAACCTTCCGT
1 AGCCAACACCGAAAAACCTTCCGT
*
94160973 AGCCAACACTGAAAAACCTTCC
1 AGCCAACACCGAAAAACCTTCC
94160995 ACAAACCTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.39, C:0.37, G:0.11, T:0.13
Consensus pattern (24 bp):
AGCCAACACCGAAAAACCTTCCGT
Found at i:94164684 original size:27 final size:27
Alignment explanation
Indices: 94164649--94164760 Score: 131
Period size: 27 Copynumber: 4.1 Consensus size: 27
94164639 AGCATGGCTG
* *
94164649 CCAGA-ACAGATAATGTGACAGAGTCA
1 CCAGATACAGATAATGTGGCAGAGCCA
*
94164675 CCAGATACAGATAATTGTGGCAGAACCA
1 CCAGATACAGATAA-TGTGGCAGAGCCA
*
94164703 CCA-AAACAGATATATGTGGCAGAGCCA
1 CCAGATACAGATA-ATGTGGCAGAGCCA
*
94164730 CCAGAT-CAGATAATTGTGGCATAGCCA
1 CCAGATACAGATAA-TGTGGCAGAGCCA
94164757 CCAG
1 CCAG
94164761 GATGCTTCCT
Statistics
Matches: 74, Mismatches: 7, Indels: 9
0.82 0.08 0.10
Matches are distributed among these distances:
26 6 0.08
27 53 0.72
28 15 0.20
ACGTcount: A:0.38, C:0.22, G:0.22, T:0.17
Consensus pattern (27 bp):
CCAGATACAGATAATGTGGCAGAGCCA
Found at i:94164743 original size:54 final size:54
Alignment explanation
Indices: 94164653--94164759 Score: 162
Period size: 54 Copynumber: 2.0 Consensus size: 54
94164643 TGGCTGCCAG
*
94164653 AACAGATAATGTGACAGAGTCACCAGATACAGATAATTGTGGCAGAACCACCAA
1 AACAGATAATGTGACAGAGCCACCAGATACAGATAATTGTGGCAGAACCACCAA
* * *
94164707 AACAGATATATGTGGCAGAGCCACCAGAT-CAGATAATTGTGGCATAGCCACCA
1 AACAGATA-ATGTGACAGAGCCACCAGATACAGATAATTGTGGCAGAACCACCA
94164760 GGATGCTTCC
Statistics
Matches: 48, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
54 30 0.62
55 18 0.38
ACGTcount: A:0.39, C:0.21, G:0.21, T:0.18
Consensus pattern (54 bp):
AACAGATAATGTGACAGAGCCACCAGATACAGATAATTGTGGCAGAACCACCAA
Found at i:94165582 original size:46 final size:46
Alignment explanation
Indices: 94165532--94165936 Score: 713
Period size: 46 Copynumber: 8.8 Consensus size: 46
94165522 TGATTGAGCA
*
94165532 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
*
94165578 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
*
94165624 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
*
94165670 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
94165716 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
94165762 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
94165808 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
*
94165854 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
94165900 CCCGAGCTCGTTGAGTTGAG-CTTGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTC-CGAGTTCACTTATGG
94165937 GCGGGTTACA
Statistics
Matches: 352, Mismatches: 6, Indels: 2
0.98 0.02 0.01
Matches are distributed among these distances:
45 1 0.00
46 351 1.00
ACGTcount: A:0.21, C:0.19, G:0.29, T:0.31
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:94166581 original size:28 final size:28
Alignment explanation
Indices: 94166533--94166637 Score: 128
Period size: 27 Copynumber: 3.9 Consensus size: 28
94166523 CTGCCAGAAT
* *
94166533 AGATAA-TGTGACAGAGTCACCAGATAC
1 AGATAATTGTGGCAGAGCCACCAGATAC
*
94166560 AGATAATCGTGGCAGAGCCACCAGA-AC
1 AGATAATTGTGGCAGAGCCACCAGATAC
*
94166587 AGA-AATATGTGGCAGAGCCACTAGAT-C
1 AGATAAT-TGTGGCAGAGCCACCAGATAC
*
94166614 AGATAATTGTGGCATAGCCACCAG
1 AGATAATTGTGGCAGAGCCACCAG
94166638 GACGCTTCCT
Statistics
Matches: 67, Mismatches: 7, Indels: 8
0.82 0.09 0.10
Matches are distributed among these distances:
26 3 0.04
27 46 0.69
28 18 0.27
ACGTcount: A:0.37, C:0.21, G:0.25, T:0.17
Consensus pattern (28 bp):
AGATAATTGTGGCAGAGCCACCAGATAC
Found at i:94168082 original size:24 final size:24
Alignment explanation
Indices: 94168055--94168104 Score: 82
Period size: 24 Copynumber: 2.1 Consensus size: 24
94168045 CTAGATTTCC
**
94168055 TCCCTTATCTGCTCCTAAATCCTA
1 TCCCTTATCAACTCCTAAATCCTA
94168079 TCCCTTATCAACTCCTAAATCCTA
1 TCCCTTATCAACTCCTAAATCCTA
94168103 TC
1 TC
94168105 TTGACAGACT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.24, C:0.38, G:0.02, T:0.36
Consensus pattern (24 bp):
TCCCTTATCAACTCCTAAATCCTA
Found at i:94169584 original size:22 final size:21
Alignment explanation
Indices: 94169559--94169600 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
94169549 CAGCCGTGTA
94169559 CCTCCTCTCACACGGGCATGTG
1 CCTCCT-TCACACGGGCATGTG
**
94169581 CCTCCTTCACTTGGGCATGT
1 CCTCCTTCACACGGGCATGT
94169601 TTCGGAATTA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 12 0.67
22 6 0.33
ACGTcount: A:0.12, C:0.38, G:0.21, T:0.29
Consensus pattern (21 bp):
CCTCCTTCACACGGGCATGTG
Found at i:94180973 original size:40 final size:40
Alignment explanation
Indices: 94180929--94181190 Score: 337
Period size: 39 Copynumber: 6.7 Consensus size: 40
94180919 GCTCCTCGTT
* *
94180929 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGT-ATCTCGCA
* * *
94180969 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
94181009 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
94181048 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
94181087 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
* *
94181126 CAAATGCCTTC-GGATCTTAGTCCGGATATT-GTCA-CTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGA-ATTAGT-ATC-TCGCA
94181167 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
94181191 CATCATTCAA
Statistics
Matches: 205, Mismatches: 9, Indels: 17
0.89 0.04 0.07
Matches are distributed among these distances:
38 2 0.01
39 128 0.62
40 64 0.31
41 11 0.05
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
Found at i:94190881 original size:53 final size:52
Alignment explanation
Indices: 94190729--94190884 Score: 163
Period size: 52 Copynumber: 3.0 Consensus size: 52
94190719 TGACGAAAAA
* * *
94190729 GATGTGATATATGATTCAGTATAAGACCATAGCCGGGCTATGGCATCGGTAC
1 GATGTGATATGTGATTCAGTATAAGACCATAGCTGGGATATGGCATCGGTAC
* * * * **
94190781 AATGTGAT-TCGTG-TTCCCGTATAAGACCATAGCTAGGTTATGGCATCGGTGT
1 GATGTGATAT-GTGATT-CAGTATAAGACCATAGCTGGGATATGGCATCGGTAC
* * *
94190833 GATGTGATAATGTGATTCTGTATAAGACCATATCTGGGATATGACATCGGTA
1 GATGTGAT-ATGTGATTCAGTATAAGACCATAGCTGGGATATGGCATCGGTA
94190885 TGTGATCCGT
Statistics
Matches: 84, Mismatches: 15, Indels: 9
0.78 0.14 0.08
Matches are distributed among these distances:
51 3 0.04
52 46 0.55
53 32 0.38
54 3 0.04
ACGTcount: A:0.28, C:0.15, G:0.26, T:0.31
Consensus pattern (52 bp):
GATGTGATATGTGATTCAGTATAAGACCATAGCTGGGATATGGCATCGGTAC
Found at i:94191700 original size:20 final size:20
Alignment explanation
Indices: 94191675--94191727 Score: 88
Period size: 20 Copynumber: 2.6 Consensus size: 20
94191665 TGCACATGGG
94191675 CAGGCCACACGGGCATGTTC
1 CAGGCCACACGGGCATGTTC
* *
94191695 CAGGCCACACGGACGTGTTC
1 CAGGCCACACGGGCATGTTC
94191715 CAGGCCACACGGG
1 CAGGCCACACGGG
94191728 TGTAATATCC
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.21, C:0.36, G:0.32, T:0.11
Consensus pattern (20 bp):
CAGGCCACACGGGCATGTTC
Found at i:94199549 original size:40 final size:40
Alignment explanation
Indices: 94199482--94199713 Score: 365
Period size: 40 Copynumber: 5.8 Consensus size: 40
94199472 ATAACCACAA
* * * * *
94199482 GCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTT
*
94199522 GCACGAATGCCTTCGGGTCTTAGCCCGGATATATCAACTT
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTT
* *
94199562 GCACAATTGCCTTCGGGTCTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTT
*
94199602 GCACAAATGCCTTCGGGTCTTAGCCCAGATATATGTCAACTT
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATA--TCAACTT
94199644 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTT
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTT
94199684 GCACAAATGCCTTCGGGTCTTAGCCCGGAT
1 GCACAAATGCCTTCGGGTCTTAGCCCGGAT
94199714 GTATTCAAAT
Statistics
Matches: 177, Mismatches: 13, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
40 139 0.79
42 38 0.21
ACGTcount: A:0.23, C:0.28, G:0.22, T:0.27
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTT
Found at i:94199675 original size:82 final size:80
Alignment explanation
Indices: 94199482--94199709 Score: 375
Period size: 82 Copynumber: 2.8 Consensus size: 80
94199472 ATAACCACAA
* * * *
94199482 GCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCACGAATGCCTTCGGGTCTTAGCC
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCACAAATGCCTTCGGGTCTTAGCC
*
94199547 CGGATATATCAACTT
66 CAGATATATCAACTT
94199562 GCACAATTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCACAAATGCCTTCGGGTCTTAGCC
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCACAAATGCCTTCGGGTCTTAGCC
94199627 CAGATATATGTCAACTT
66 CAGATATA--TCAACTT
* *
94199644 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTTGCACAAATGCCTTCGGGTCTTAGCC
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCACAAATGCCTTCGGGTCTTAGCC
94199709 C
66 C
94199710 GGATGTATTC
Statistics
Matches: 139, Mismatches: 7, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
80 68 0.49
82 71 0.51
ACGTcount: A:0.23, C:0.29, G:0.21, T:0.27
Consensus pattern (80 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCACAAATGCCTTCGGGTCTTAGCC
CAGATATATCAACTT
Found at i:94199681 original size:122 final size:120
Alignment explanation
Indices: 94199482--94199713 Score: 383
Period size: 122 Copynumber: 1.9 Consensus size: 120
94199472 ATAACCACAA
* * * *
94199482 GCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCACGAATGCCTTCGGGTCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCAGATATAGCAACTCGCACAAATGCCTTCGGGTCTTAGCC
*
94199547 CGGATATATCAACTTGCACAATTGCCTTCGGGTCTTAGCCCGGATATATCAACTC
66 CGGATATATCAACTTGCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
* *
94199602 GCACAAATGCCTTCGGGTCTTAGCCCAGATATATGTCAACTTGCACAAATGCCTTCGGGTCTTAG
1 GCACAAATGCCTTCGGGTCTTAACCCAGATATA-G-CAACTCGCACAAATGCCTTCGGGTCTTAG
94199667 CCCGGATATATCAACTTGCACAAATGCCTTCGGGTCTTAGCCCGGAT
64 CCCGGATATATCAACTTGCACAAATGCCTTCGGGTCTTAGCCCGGAT
94199714 GTATTCAAAT
Statistics
Matches: 103, Mismatches: 7, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
120 29 0.28
121 1 0.01
122 73 0.71
ACGTcount: A:0.23, C:0.28, G:0.22, T:0.27
Consensus pattern (120 bp):
GCACAAATGCCTTCGGGTCTTAACCCAGATATAGCAACTCGCACAAATGCCTTCGGGTCTTAGCC
CGGATATATCAACTTGCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
Found at i:94209451 original size:64 final size:64
Alignment explanation
Indices: 94209373--94209500 Score: 229
Period size: 64 Copynumber: 2.0 Consensus size: 64
94209363 GAATAACATC
94209373 AAATTCATCAAACGGAAAAAGCATCAAGTCCGCCGGAAAACAGGAACCTCGAATTACTAGGGGA
1 AAATTCATCAAACGGAAAAAGCATCAAGTCCGCCGGAAAACAGGAACCTCGAATTACTAGGGGA
* * *
94209437 AAATTCATCAAACGGCAAAAGCATCAAGTCCGCTGGAAAACAGGAACCTCGAATTTCTAGGGGA
1 AAATTCATCAAACGGAAAAAGCATCAAGTCCGCCGGAAAACAGGAACCTCGAATTACTAGGGGA
94209501 CATTTCTTAC
Statistics
Matches: 61, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
64 61 1.00
ACGTcount: A:0.41, C:0.22, G:0.22, T:0.16
Consensus pattern (64 bp):
AAATTCATCAAACGGAAAAAGCATCAAGTCCGCCGGAAAACAGGAACCTCGAATTACTAGGGGA
Found at i:94213808 original size:39 final size:40
Alignment explanation
Indices: 94213657--94213826 Score: 207
Period size: 40 Copynumber: 4.3 Consensus size: 40
94213647 GGACTAAGAT
* * *
94213657 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTACTAAATCCGGGTTAAGTC
* * *
94213697 CCGAGGGCATTCGTGCGAGTTATTAAAGCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTACTAAATCCGGGTTAAGTC
** *
94213737 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTACGTC
1 CCGAAGGCATTCGTGCGAGTTACTAAATCCGGGTTAAGTC
* * * * *
94213777 CCGAAGGCA-TGGTGTGAGTTACTAAAACCGGGCTATGTC
1 CCGAAGGCATTCGTGCGAGTTACTAAATCCGGGTTAAGTC
94213816 CCGAAGGCATT
1 CCGAAGGCATT
94213827 TGAACGAGGA
Statistics
Matches: 112, Mismatches: 17, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
39 32 0.29
40 80 0.71
ACGTcount: A:0.24, C:0.22, G:0.30, T:0.25
Consensus pattern (40 bp):
CCGAAGGCATTCGTGCGAGTTACTAAATCCGGGTTAAGTC
Found at i:94213846 original size:79 final size:80
Alignment explanation
Indices: 94213679--94213861 Score: 208
Period size: 79 Copynumber: 2.3 Consensus size: 80
94213669 GTGCGAGATA
* * * *
94213679 CTAAATCCGGGTTAAGTCCCGAGGGCATTCGTGCGAGTTATTAAAGCCGGGTTAAGTCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
** **
94213744 CATTCGTGCGAGTTG
66 CATTCGAACGAGGAG
* * * * *
94213759 TTAAATCCGGGTTACGTCCCGAAGGCA-TGGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
*
94213823 CATTTGAACGAGGAG
66 CATTCGAACGAGGAG
* *
94213838 CTATATCC-GGTTAAATCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGG
94213862 TACGCGAATT
Statistics
Matches: 85, Mismatches: 18, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
78 14 0.16
79 47 0.55
80 24 0.28
ACGTcount: A:0.25, C:0.21, G:0.30, T:0.24
Consensus pattern (80 bp):
CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
CATTCGAACGAGGAG
Found at i:94216113 original size:27 final size:28
Alignment explanation
Indices: 94216078--94216152 Score: 75
Period size: 27 Copynumber: 2.8 Consensus size: 28
94216068 TAGAGAGTCT
*
94216078 ATCGGGACATTAAACAAGT-GG-TAGTTC
1 ATCGAGACATTAAACAA-TAGGATAGTTC
* *
94216105 ATTGAGACAATAAA-AATAGGATAGTTC
1 ATCGAGACATTAAACAATAGGATAGTTC
* *
94216132 ATCGAAACATTAAACACTAGG
1 ATCGAGACATTAAACAATAGG
94216153 TCGGCCGTCA
Statistics
Matches: 38, Mismatches: 7, Indels: 5
0.76 0.14 0.10
Matches are distributed among these distances:
25 1 0.03
26 4 0.11
27 28 0.74
28 5 0.13
ACGTcount: A:0.43, C:0.13, G:0.20, T:0.24
Consensus pattern (28 bp):
ATCGAGACATTAAACAATAGGATAGTTC
Found at i:94222211 original size:27 final size:27
Alignment explanation
Indices: 94222181--94222286 Score: 117
Period size: 27 Copynumber: 3.9 Consensus size: 27
94222171 GGCTGCCAAA
* *
94222181 ACAGATAATGTGACAGAGTCACCAGAT
1 ACAGATAATGTGGCAGAGCCACCAGAT
* * *
94222208 ACAGATGATCGTGGCAAAGCCATCAGA-
1 ACAGATAAT-GTGGCAGAGCCACCAGAT
94222235 ACAGATATATGTGGCAGAGCCACCAGAT
1 ACAGATA-ATGTGGCAGAGCCACCAGAT
*
94222263 -CAGATAATTGTGGCATAGCCACCA
1 ACAGATAA-TGTGGCAGAGCCACCA
94222287 AGACGCTTCC
Statistics
Matches: 66, Mismatches: 9, Indels: 8
0.80 0.11 0.10
Matches are distributed among these distances:
26 1 0.02
27 50 0.76
28 15 0.23
ACGTcount: A:0.37, C:0.22, G:0.24, T:0.18
Consensus pattern (27 bp):
ACAGATAATGTGGCAGAGCCACCAGAT
Found at i:94222276 original size:54 final size:54
Alignment explanation
Indices: 94222180--94222283 Score: 147
Period size: 54 Copynumber: 1.9 Consensus size: 54
94222170 TGGCTGCCAA
* *
94222180 AACAGATAATGTGACAGAGTCACCAGATACAGATGATCGTGGCAAAGCCATCAG
1 AACAGATAATGTGACAGAGCCACCAGATACAGATAATCGTGGCAAAGCCATCAG
* * *
94222234 AACAGATATATGTGGCAGAGCCACCAGAT-CAGATAATTGTGGCATAGCCA
1 AACAGATA-ATGTGACAGAGCCACCAGATACAGATAATCGTGGCAAAGCCA
94222284 CCAAGACGCT
Statistics
Matches: 44, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
54 26 0.59
55 18 0.41
ACGTcount: A:0.38, C:0.20, G:0.24, T:0.18
Consensus pattern (54 bp):
AACAGATAATGTGACAGAGCCACCAGATACAGATAATCGTGGCAAAGCCATCAG
Found at i:94229041 original size:16 final size:16
Alignment explanation
Indices: 94229022--94229052 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
94229012 TTTTTTAATC
94229022 CTTTGTTTTCGAAAAT
1 CTTTGTTTTCGAAAAT
*
94229038 CTTTGTTTTTGAAAA
1 CTTTGTTTTCGAAAA
94229053 GCAATTCCAC
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:0.26, C:0.10, G:0.13, T:0.52
Consensus pattern (16 bp):
CTTTGTTTTCGAAAAT
Found at i:94229559 original size:27 final size:27
Alignment explanation
Indices: 94229529--94229635 Score: 119
Period size: 27 Copynumber: 3.9 Consensus size: 27
94229519 GGCTGCCAAA
* *
94229529 ACAGATAATGTGACAGAGTCACCAGAT
1 ACAGATAATGTGGCAGAGCCACCAGAT
*
94229556 ACAGATAATCGTGGCAGAGCCACTAGA-
1 ACAGATAAT-GTGGCAGAGCCACCAGAT
* *
94229583 ACTGATATATGTGGCAGAGCCTCCAGAT
1 ACAGATA-ATGTGGCAGAGCCACCAGAT
*
94229611 -CAGATAATTGTGGCATAGCCACCAG
1 ACAGATAA-TGTGGCAGAGCCACCAG
94229636 GACGCTTCCT
Statistics
Matches: 67, Mismatches: 9, Indels: 8
0.80 0.11 0.10
Matches are distributed among these distances:
26 1 0.01
27 50 0.75
28 16 0.24
ACGTcount: A:0.35, C:0.21, G:0.24, T:0.20
Consensus pattern (27 bp):
ACAGATAATGTGGCAGAGCCACCAGAT
Found at i:94230869 original size:17 final size:17
Alignment explanation
Indices: 94230849--94230881 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
94230839 GTTGATGAGG
94230849 AAAGAAAAAAGAAGAAA
1 AAAGAAAAAAGAAGAAA
*
94230866 AAAGAAAAAGGAAGAA
1 AAAGAAAAAAGAAGAA
94230882 TGGTCAGGAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (17 bp):
AAAGAAAAAAGAAGAAA
Found at i:94231649 original size:50 final size:50
Alignment explanation
Indices: 94231586--94231680 Score: 145
Period size: 50 Copynumber: 1.9 Consensus size: 50
94231576 CGAAGCTCTA
* * *
94231586 TGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTAACAATC
1 TGGTACACATAGTAGCCTACACTTAGTACTACACACGCGACCTAACAATC
* *
94231636 TGGTACACGTAGTAGCCTACACTTAGTACTACACACGTGACCTAA
1 TGGTACACATAGTAGCCTACACTTAGTACTACACACGCGACCTAA
94231681 AACCGTCTTT
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
50 40 1.00
ACGTcount: A:0.31, C:0.27, G:0.18, T:0.24
Consensus pattern (50 bp):
TGGTACACATAGTAGCCTACACTTAGTACTACACACGCGACCTAACAATC
Found at i:94234174 original size:50 final size:50
Alignment explanation
Indices: 94234097--94234338 Score: 308
Period size: 50 Copynumber: 4.9 Consensus size: 50
94234087 GGGTAAAATA
* * *
94234097 CCGATGCCATGTCCGAGACATGGTCTTACACTAGCTCTCATATATCGGTA
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATATCGGTG
*
94234147 CTGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATATCGGTG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATATCGGTG
* * * * *
94234197 CCAATGCCATGTTCTAGTCATGGTCTTACACTAGCTCTCATATATCGGTG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATATCGGTG
* * * **
94234247 CCGATGCCATGTCCCAGACAAGGTCTTACATTGGCTCACATA-A-CAATG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATATCGGTG
* * * *
94234295 CCAATGCCATGTTCCAAACATGGTCTTACACTGGCTCGCATATA
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATA
94234339 ACCCTAGTAT
Statistics
Matches: 165, Mismatches: 26, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
48 39 0.24
49 2 0.01
50 124 0.75
ACGTcount: A:0.24, C:0.28, G:0.19, T:0.29
Consensus pattern (50 bp):
CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATATCGGTG
Found at i:94236421 original size:20 final size:19
Alignment explanation
Indices: 94236398--94236446 Score: 55
Period size: 20 Copynumber: 2.6 Consensus size: 19
94236388 ATTAATTATT
*
94236398 TATAAAATTTATTTAGAATA
1 TATAAAATATATTTA-AATA
*
94236418 TATAAACTATATTTAAATA
1 TATAAAATATATTTAAATA
*
94236437 T-TTAAATATA
1 TATAAAATATA
94236447 ACCATTAAAT
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
18 7 0.28
19 5 0.20
20 13 0.52
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.45
Consensus pattern (19 bp):
TATAAAATATATTTAAATA
Found at i:94236442 original size:19 final size:19
Alignment explanation
Indices: 94236398--94236446 Score: 57
Period size: 19 Copynumber: 2.6 Consensus size: 19
94236388 ATTAATTATT
*
94236398 TATA-AAATTTATTTAGAA
1 TATATAAATATATTTAGAA
94236416 TATATAAACTATATTTA-AA
1 TATATAAA-TATATTTAGAA
*
94236435 TATTTAAATATA
1 TATATAAATATA
94236447 ACCATTAAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
18 8 0.30
19 12 0.44
20 7 0.26
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.45
Consensus pattern (19 bp):
TATATAAATATATTTAGAA
Found at i:94239220 original size:28 final size:28
Alignment explanation
Indices: 94239178--94239279 Score: 116
Period size: 28 Copynumber: 3.6 Consensus size: 28
94239168 TAATTATATG
** *
94239178 TGGCACTTAACGTGCGAAGTATCGGGGA
1 TGGCACTTAGTGTGCGAAGTATCGAGGA
* * *
94239206 TGGCACTTAGTGTGCGATA-CATCCAGAA
1 TGGCACTTAGTGTGCGA-AGTATCGAGGA
*
94239234 TGGCACTTAGTGTGCGAAGTAACGAGGA
1 TGGCACTTAGTGTGCGAAGTATCGAGGA
*
94239262 TGGAACTTAGTGTGCGAA
1 TGGCACTTAGTGTGCGAA
94239280 ACATCCAGAA
Statistics
Matches: 61, Mismatches: 11, Indels: 4
0.80 0.14 0.05
Matches are distributed among these distances:
27 1 0.02
28 59 0.97
29 1 0.02
ACGTcount: A:0.27, C:0.17, G:0.32, T:0.24
Consensus pattern (28 bp):
TGGCACTTAGTGTGCGAAGTATCGAGGA
Found at i:94239264 original size:56 final size:56
Alignment explanation
Indices: 94239178--94239308 Score: 183
Period size: 56 Copynumber: 2.4 Consensus size: 56
94239168 TAATTATATG
** * * * *
94239178 TGGCACTTAACGTGCGAAGTATCGGGGATGGCACTTAGTGTGCGATACATCCAGAA
1 TGGCACTTAGTGTGCGAAGTAACGAGGATGGAACTTAGTGTGCGAAACATCCAGAA
94239234 TGGCACTTAGTGTGCGAAGTAACGAGGATGGAACTTAGTGTGCGAAACATCCAGAA
1 TGGCACTTAGTGTGCGAAGTAACGAGGATGGAACTTAGTGTGCGAAACATCCAGAA
* *
94239290 CGACACTTAGTGTGC-AAGT
1 TGGCACTTAGTGTGCGAAGT
94239309 TATCAAATAT
Statistics
Matches: 67, Mismatches: 8, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
55 4 0.06
56 63 0.94
ACGTcount: A:0.29, C:0.18, G:0.30, T:0.23
Consensus pattern (56 bp):
TGGCACTTAGTGTGCGAAGTAACGAGGATGGAACTTAGTGTGCGAAACATCCAGAA
Found at i:94239297 original size:28 final size:28
Alignment explanation
Indices: 94239209--94239304 Score: 95
Period size: 28 Copynumber: 3.4 Consensus size: 28
94239199 TCGGGGATGG
* * *
94239209 CACTTAGTGTGCGATACATCCAGAATGG
1 CACTTAGTGTGCGAAACATCCAGAACGA
** * * **
94239237 CACTTAGTGTGCGAAGTAACGAGGATGGA
1 CACTTAGTGTGCGAAACATCCA-GAACGA
94239266 -ACTTAGTGTGCGAAACATCCAGAACGA
1 CACTTAGTGTGCGAAACATCCAGAACGA
94239293 CACTTAGTGTGC
1 CACTTAGTGTGC
94239305 AAGTTATCAA
Statistics
Matches: 52, Mismatches: 14, Indels: 4
0.74 0.20 0.06
Matches are distributed among these distances:
27 4 0.08
28 45 0.87
29 3 0.06
ACGTcount: A:0.30, C:0.20, G:0.27, T:0.23
Consensus pattern (28 bp):
CACTTAGTGTGCGAAACATCCAGAACGA
Found at i:94239418 original size:32 final size:32
Alignment explanation
Indices: 94239382--94239474 Score: 105
Period size: 32 Copynumber: 2.9 Consensus size: 32
94239372 TGAGTATGAG
**
94239382 ATTGGTACGGGATGATACAGGTATCTACGAAA
1 ATTGGTACAAGATGATACAGGTATCTACGAAA
* * *
94239414 ATTGGTACAATATGGTACAGGTATGTACGAAA
1 ATTGGTACAAGATGATACAGGTATCTACGAAA
* * * *
94239446 ATTGGTACAATATGGTACATGTATGTACG
1 ATTGGTACAAGATGATACAGGTATCTACG
94239475 GAGATTCAAT
Statistics
Matches: 55, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
32 55 1.00
ACGTcount: A:0.34, C:0.11, G:0.26, T:0.29
Consensus pattern (32 bp):
ATTGGTACAAGATGATACAGGTATCTACGAAA
Found at i:94241345 original size:17 final size:17
Alignment explanation
Indices: 94241323--94241356 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
94241313 AATAAAAGTG
94241323 TCCATCTTCTCAATTTA
1 TCCATCTTCTCAATTTA
94241340 TCCATCTTCTCAATTTA
1 TCCATCTTCTCAATTTA
94241357 GTCCCTCCTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.24, C:0.29, G:0.00, T:0.47
Consensus pattern (17 bp):
TCCATCTTCTCAATTTA
Found at i:94242532 original size:33 final size:33
Alignment explanation
Indices: 94242490--94242556 Score: 116
Period size: 33 Copynumber: 2.0 Consensus size: 33
94242480 TGTTTTTGCT
* *
94242490 GTTCATTCGAATGGAGAGAGAGACCATGACACC
1 GTTCATTCGAATGGAGAGAAAGACCATGAAACC
94242523 GTTCATTCGAATGGAGAGAAAGACCATGAAACC
1 GTTCATTCGAATGGAGAGAAAGACCATGAAACC
94242556 G
1 G
94242557 ATTGCATGTG
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.36, C:0.19, G:0.27, T:0.18
Consensus pattern (33 bp):
GTTCATTCGAATGGAGAGAAAGACCATGAAACC
Found at i:94253218 original size:101 final size:101
Alignment explanation
Indices: 94253043--94253332 Score: 420
Period size: 101 Copynumber: 2.9 Consensus size: 101
94253033 TATTCAAACA
* *
94253043 TAAGACCATGGTTGGACCATGGTAGTTTTTATATGTAAGTCCATAGTTGGGCTATGGCATTCTTA
1 TAAGACCATGGTTGGACCATGGTAGTGTTTATATGTAAGTCCATAGTTGGGCTATGACATTCTTA
*
94253108 TGATAAGACCATATCTGGGTTATGGT-ACTATGGACG
66 TGATAAGACCATAACTGGGTTAT-GTCACTATGGACG
* *
94253144 TAAGACCATGGCTGGACCATGGTAGTGTTTATATGTAAGTCCATAGTTGGGTTATGACATTCTTA
1 TAAGACCATGGTTGGACCATGGTAGTGTTTATATGTAAGTCCATAGTTGGGCTATGACATTCTTA
* * * *
94253209 TGATAAGACCCTAAGTAGATTATGTCACTATGGACG
66 TGATAAGACCATAACTGGGTTATGTCACTATGGACG
* * * * * *
94253245 TAAGACCATGGTTGGACTATGGCAGTGTTTATATGTAAGACCATAGCTAGGCTATGACATTCTAA
1 TAAGACCATGGTTGGACCATGGTAGTGTTTATATGTAAGTCCATAGTTGGGCTATGACATTCTTA
*
94253310 TAATAAGACCATAACTGGGTTAT
66 TGATAAGACCATAACTGGGTTAT
94253333 AGCACTACAA
Statistics
Matches: 166, Mismatches: 22, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
100 2 0.01
101 164 0.99
ACGTcount: A:0.29, C:0.14, G:0.24, T:0.33
Consensus pattern (101 bp):
TAAGACCATGGTTGGACCATGGTAGTGTTTATATGTAAGTCCATAGTTGGGCTATGACATTCTTA
TGATAAGACCATAACTGGGTTATGTCACTATGGACG
Found at i:94253368 original size:101 final size:100
Alignment explanation
Indices: 94253043--94253399 Score: 396
Period size: 101 Copynumber: 3.6 Consensus size: 100
94253033 TATTCAAACA
* * * * *
94253043 TAAGACCATGGTTGGACCATGGTAGTTTTTATATGTAAGTCCATAGTTGGGCTATGGCATTCTTA
1 TAAGACCATGGCTGGACCATGGCAGTGTTTATATGTAAGACCATAGTTGGGCTATGACATTCTTA
* *
94253108 TGATAAGACCATATCTGGGTTATGGTACTATGGACG
66 TGATAAGACCATAACTGGGTTAT-GCACTATGGACG
* * *
94253144 TAAGACCATGGCTGGACCATGGTAGTGTTTATATGTAAGTCCATAGTTGGGTTATGACATTCTTA
1 TAAGACCATGGCTGGACCATGGCAGTGTTTATATGTAAGACCATAGTTGGGCTATGACATTCTTA
* * * *
94253209 TGATAAGACCCTAAGTAGATTATGTCACTATGGACG
66 TGATAAGACCATAACTGGGTTATG-CACTATGGACG
* * * * *
94253245 TAAGACCATGGTTGGACTATGGCAGTGTTTATATGTAAGACCATAGCTAGGCTATGACATTCTAA
1 TAAGACCATGGCTGGACCATGGCAGTGTTTATATGTAAGACCATAGTTGGGCTATGACATTCTTA
* *** *
94253310 TAATAAGACCATAACTGGGTTATAGCACTACAAATG
66 TGATAAGACCATAACTGGGTTAT-GCACTATGGACG
* * * * *
94253346 TAAGACCGTGGCAGGGCCATGGCA--ATATATATGTAAGACCATAG-TGGGACTATG
1 TAAGACCATGGCTGGACCATGGCAGTGTTTATATGTAAGACCATAGTTGGG-CTATG
94253400 GCACAATAGA
Statistics
Matches: 218, Mismatches: 35, Indels: 8
0.84 0.13 0.03
Matches are distributed among these distances:
98 3 0.01
99 23 0.11
100 1 0.00
101 190 0.87
102 1 0.00
ACGTcount: A:0.30, C:0.15, G:0.24, T:0.31
Consensus pattern (100 bp):
TAAGACCATGGCTGGACCATGGCAGTGTTTATATGTAAGACCATAGTTGGGCTATGACATTCTTA
TGATAAGACCATAACTGGGTTATGCACTATGGACG
Done.