Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr10 129486693
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: 129486693
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.32
Warning! 305 characters in sequence are not A, C, G, or T
File 397 of 444
Found at i:115250713 original size:81 final size:80
Alignment explanation
Indices: 115250550--115250732 Score: 233
Period size: 81 Copynumber: 2.3 Consensus size: 80
115250540 AGGTATTTCA
* * * * * *
115250550 GTAATTTCACAATCGAGGGTAAAACGGTAATTTTGTAAATCGAGGGTAAAATGGTAATTCTATAA
1 GTAATTTTACAATCGAGGGTAAAACGATAATTCTATAAATCAAGGGTAAAACGGTAATTCTATAA
115250615 ATCAAGGGTAAAATG
66 ATCAAGGGTAAAATG
*
115250630 GTAATTCTGTA-AATCGAGGGTAAAACGATAATTCTATAAATCAAGGGTAAAACGGTAATTCTGT
1 GTAATT-T-TACAATCGAGGGTAAAACGATAATTCTATAAATCAAGGGTAAAACGGTAATTCTAT
* ***
115250694 AAATCGAGGGTACTTTG
64 AAATCAAGGGTAAAATG
115250711 GTAATTTTACAAGTCGAGGGTA
1 GTAATTTTACAA-TCGAGGGTA
115250733 TTTCAATAAT
Statistics
Matches: 88, Mismatches: 11, Indels: 7
0.83 0.10 0.07
Matches are distributed among these distances:
79 2 0.02
80 9 0.10
81 76 0.86
82 1 0.01
ACGTcount: A:0.38, C:0.10, G:0.23, T:0.30
Consensus pattern (80 bp):
GTAATTTTACAATCGAGGGTAAAACGATAATTCTATAAATCAAGGGTAAAACGGTAATTCTATAA
ATCAAGGGTAAAATG
Found at i:115250716 original size:54 final size:54
Alignment explanation
Indices: 115250560--115250705 Score: 247
Period size: 54 Copynumber: 2.7 Consensus size: 54
115250550 GTAATTTCAC
* *
115250560 AATCGAGGGTAAAACGGTAATTTTGTAAATCGAGGGTAAAATGGTAATTCTATA
1 AATCAAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAATGGTAATTCTATA
* * *
115250614 AATCAAGGGTAAAATGGTAATTCTGTAAATCGAGGGTAAAACGATAATTCTATA
1 AATCAAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAATGGTAATTCTATA
115250668 AATCAAGGGTAAAACGGTAATTCTGTAAATCGAGGGTA
1 AATCAAGGGTAAAACGGTAATTCTGTAAATCGAGGGTA
115250706 CTTTGGTAAT
Statistics
Matches: 86, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
54 86 1.00
ACGTcount: A:0.40, C:0.09, G:0.23, T:0.27
Consensus pattern (54 bp):
AATCAAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAATGGTAATTCTATA
Found at i:115250731 original size:54 final size:54
Alignment explanation
Indices: 115250560--115250732 Score: 229
Period size: 54 Copynumber: 3.2 Consensus size: 54
115250550 GTAATTTCAC
* * *
115250560 AATCGAGGGTAAAACGGTAATTTTGTAAATCGAGGGTAAAATGGTAATTCTATA
1 AATCAAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAATGGTAATTCTACA
* * * *
115250614 AATCAAGGGTAAAATGGTAATTCTGTAAATCGAGGGTAAAACGATAATTCTATA
1 AATCAAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAATGGTAATTCTACA
*** *
115250668 AATCAAGGGTAAAACGGTAATTCTGTAAATCGAGGGTACTTTGGTAATTTTACA
1 AATCAAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAATGGTAATTCTACA
* *
115250722 AGTCGAGGGTA
1 AATCAAGGGTA
115250733 TTTCAATAAT
Statistics
Matches: 104, Mismatches: 15, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
54 104 1.00
ACGTcount: A:0.38, C:0.09, G:0.24, T:0.29
Consensus pattern (54 bp):
AATCAAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAATGGTAATTCTACA
Found at i:115259199 original size:18 final size:18
Alignment explanation
Indices: 115259178--115259245 Score: 66
Period size: 18 Copynumber: 3.8 Consensus size: 18
115259168 TCAGTATCCA
*
115259178 TCAATTATTCAATAACGG
1 TCAATTATTCAATAACAG
* *
115259196 TCAATTGTTCAGTAACAG
1 TCAATTATTCAATAACAG
* * *
115259214 TCAATCT-TGCAGTAACAA
1 TCAAT-TATTCAATAACAG
115259232 TCAATTATTCAATA
1 TCAATTATTCAATA
115259246 CCTTTATTTA
Statistics
Matches: 41, Mismatches: 7, Indels: 4
0.79 0.13 0.08
Matches are distributed among these distances:
17 1 0.02
18 39 0.95
19 1 0.02
ACGTcount: A:0.38, C:0.18, G:0.10, T:0.34
Consensus pattern (18 bp):
TCAATTATTCAATAACAG
Found at i:115259374 original size:12 final size:12
Alignment explanation
Indices: 115259357--115259381 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
115259347 TATATCGTAT
115259357 CGATAACAGTAA
1 CGATAACAGTAA
115259369 CGATAACAGTAA
1 CGATAACAGTAA
115259381 C
1 C
115259382 AGTAGCGATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.48, C:0.20, G:0.16, T:0.16
Consensus pattern (12 bp):
CGATAACAGTAA
Found at i:115259432 original size:6 final size:6
Alignment explanation
Indices: 115259421--115259452 Score: 55
Period size: 6 Copynumber: 5.3 Consensus size: 6
115259411 ACAAATCTGA
*
115259421 AACAGT AACAGT AACAGT AACAAT AACAGT AA
1 AACAGT AACAGT AACAGT AACAGT AACAGT AA
115259453 GGTACGGAGT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.56, C:0.16, G:0.12, T:0.16
Consensus pattern (6 bp):
AACAGT
Found at i:115262221 original size:18 final size:17
Alignment explanation
Indices: 115262206--115262260 Score: 60
Period size: 18 Copynumber: 3.2 Consensus size: 17
115262196 TAGCATAACC
115262206 TAAATTAATAAAATAAAA
1 TAAA-TAATAAAATAAAA
115262224 TAAATAATAAATAATAAAA
1 TAAATAAT-AA-AATAAAA
*
115262243 T-AA-AATAAAACAAAA
1 TAAATAATAAAATAAAA
115262258 TAA
1 TAA
115262261 TATCTTCCTA
Statistics
Matches: 33, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
15 7 0.21
16 3 0.09
17 7 0.21
18 8 0.24
19 8 0.24
ACGTcount: A:0.75, C:0.02, G:0.00, T:0.24
Consensus pattern (17 bp):
TAAATAATAAAATAAAA
Found at i:115262222 original size:5 final size:5
Alignment explanation
Indices: 115262212--115262260 Score: 57
Period size: 5 Copynumber: 10.0 Consensus size: 5
115262202 AACCTAAATT
* *
115262212 AATAA AATAA AAT-A AATAA TAA-AT AATAA AATAA AATAA AACAA AATAA
1 AATAA AATAA AATAA AATAA -AATAA AATAA AATAA AATAA AATAA AATAA
115262261 TATCTTCCTA
Statistics
Matches: 37, Mismatches: 4, Indels: 6
0.79 0.09 0.13
Matches are distributed among these distances:
4 6 0.16
5 29 0.78
6 2 0.05
ACGTcount: A:0.78, C:0.02, G:0.00, T:0.20
Consensus pattern (5 bp):
AATAA
Found at i:115263984 original size:50 final size:49
Alignment explanation
Indices: 115263907--115264334 Score: 396
Period size: 50 Copynumber: 8.8 Consensus size: 49
115263897 GTAAGATGCT
115263907 GATGCCATGTCCC-GAACATGGTCTTACACTGGCTCTCATACATCGGTGCC
1 GATGCCATGTCCCAG-ACATGGTCTTACACTGGCTCTCATA-ATCGGTGCC
* * * * ** *
115263957 GATGCCATGTCCCAAACATGGTATTACACTGACACAT-ATAA-CAATGTC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTC-TCATAATCGGTGCC
* * *
115264005 GATGCCATGTTCCAAACATGGTCTTACACTGGCTCTCAT-ATTGAG-GCC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATCG-GTGCC
* * * * *
115264053 GATTCCATATCCCAGACATGGTCTTACACTAGCTCTCATAAATTGGTACC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCAT-AATCGGTGCC
* * * *
115264103 AATGCCATGTCCCAGACATGGTCTTACACT-G-ACACAT-ATCGAG-GCT
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATCG-GTGCC
* * *
115264149 GATGCCATGTCCCAGGCATGGTCTTACACTGGCTCTCATAAACCGGTGAC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCAT-AATCGGTGCC
* * * * * *
115264199 GATGTCATGTCCCAGACATGGTCTTACGCT-G-ACACAT-ATTGAG-GCT
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATCG-GTGCC
* *
115264245 GATGTCATGTCCCAGACATGGTCTTACACTGGCTCTCATAAACTGGTGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATC-GGTGCC
* *
115264295 AATGCCATGTCCCAGACATGGTCTTACACTTGCTCTCATA
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATA
115264335 TCACCATGGT
Statistics
Matches: 304, Mismatches: 54, Indels: 40
0.76 0.14 0.10
Matches are distributed among these distances:
46 64 0.21
47 6 0.02
48 89 0.29
49 7 0.02
50 137 0.45
51 1 0.00
ACGTcount: A:0.25, C:0.28, G:0.20, T:0.27
Consensus pattern (49 bp):
GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATCGGTGCC
Found at i:115264147 original size:96 final size:96
Alignment explanation
Indices: 115264006--115264324 Score: 444
Period size: 96 Copynumber: 3.3 Consensus size: 96
115263996 AACAATGTCG
* * * * * *
115264006 ATGCCATGTTCCAAACATGGTCTTACACTGGCTCTCATATTGAGGCCGATTCCATATCCCAGACA
1 ATGCCATGTCCCAGACATGGTCTTACACT-G-ACACATATTGAGGCTGATTCCATGTCCCAGACA
* *
115264071 TGGTCTTACACTAGCTCTCATAAATTGGTACCA
64 TGGTCTTACACTGGCTCTCATAAACTGGTACCA
* * *
115264104 ATGCCATGTCCCAGACATGGTCTTACACTGACACATATCGAGGCTGATGCCATGTCCCAGGCATG
1 ATGCCATGTCCCAGACATGGTCTTACACTGACACATATTGAGGCTGATTCCATGTCCCAGACATG
* *
115264169 GTCTTACACTGGCTCTCATAAACCGGTGA-CG
66 GTCTTACACTGGCTCTCATAAACTGGT-ACCA
* *
115264200 ATGTCATGTCCCAGACATGGTCTTACGCTGACACATATTGAGGCTGATGT-CATGTCCCAGACAT
1 ATGCCATGTCCCAGACATGGTCTTACACTGACACATATTGAGGCTGAT-TCCATGTCCCAGACAT
*
115264264 GGTCTTACACTGGCTCTCATAAACTGGTGCCA
65 GGTCTTACACTGGCTCTCATAAACTGGTACCA
115264296 ATGCCATGTCCCAGACATGGTCTTACACT
1 ATGCCATGTCCCAGACATGGTCTTACACT
115264325 TGCTCTCATA
Statistics
Matches: 195, Mismatches: 23, Indels: 8
0.86 0.10 0.04
Matches are distributed among these distances:
96 166 0.85
97 2 0.01
98 27 0.14
ACGTcount: A:0.25, C:0.28, G:0.20, T:0.27
Consensus pattern (96 bp):
ATGCCATGTCCCAGACATGGTCTTACACTGACACATATTGAGGCTGATTCCATGTCCCAGACATG
GTCTTACACTGGCTCTCATAAACTGGTACCA
Found at i:115264212 original size:146 final size:145
Alignment explanation
Indices: 115263907--115264225 Score: 387
Period size: 146 Copynumber: 2.2 Consensus size: 145
115263897 GTAAGATGCT
* * * * *
115263907 GATGCCATGTCCC-GAACATGGTCTTACACTGGCTCTCATACATCGGTGCCGATGCCATGTCCCA
1 GATGTCATGTCCCAG-ACATGGTCTTACACTAGCTCTCATAAATCGGTACCAATGCCATGTCCCA
* *
115263971 AACATGGTATTACACTGACACATATAACAATGTCGATGCCATGTTCCAAACATGGTCTTACACTG
65 AACATGGTATTACACTGACACATAT-ACAAGGTCGATGCCATGTCCCAAACATGGTCTTACACTG
** *
115264036 GCTCTCATATTGAGGCC
129 GCTCTCATACCGAGGAC
* *
115264053 GAT-TCCATATCCCAGACATGGTCTTACACTAGCTCTCATAAATTGGTACCAATGCCATGTCCCA
1 GATGT-CATGTCCCAGACATGGTCTTACACTAGCTCTCATAAATCGGTACCAATGCCATGTCCCA
* * * **
115264117 GACATGGTCTTACACTGACACATAT-CGAGG-CTGATGCCATGTCCCAGGCATGGTCTTACACTG
65 AACATGGTATTACACTGACACATATACAAGGTC-GATGCCATGTCCCAAACATGGTCTTACACTG
115264180 GCTCTCATAAACCG-GTGAC
129 GCTCTCAT--ACCGAG-GAC
115264199 GATGTCATGTCCCAGACATGGTCTTAC
1 GATGTCATGTCCCAGACATGGTCTTAC
115264226 GCTGACACAT
Statistics
Matches: 148, Mismatches: 18, Indels: 14
0.82 0.10 0.08
Matches are distributed among these distances:
143 1 0.01
144 39 0.26
145 1 0.01
146 105 0.71
147 2 0.01
ACGTcount: A:0.26, C:0.28, G:0.19, T:0.27
Consensus pattern (145 bp):
GATGTCATGTCCCAGACATGGTCTTACACTAGCTCTCATAAATCGGTACCAATGCCATGTCCCAA
ACATGGTATTACACTGACACATATACAAGGTCGATGCCATGTCCCAAACATGGTCTTACACTGGC
TCTCATACCGAGGAC
Found at i:115267297 original size:40 final size:40
Alignment explanation
Indices: 115267213--115267406 Score: 180
Period size: 40 Copynumber: 4.8 Consensus size: 40
115267203 GGATATAGCG
* * * * *
115267213 ACTCGCTCAAAAGCCTTC-GGACATAGCCCGG-TTATAATA
1 ACTCGCACAAATGCCTTCGGGACTTAACCCGGATT-TAGTA
* * *
115267252 GCTCGCACAAATGCCTTCGGGACTTAACCCGGATTTGGGA
1 ACTCGCACAAATGCCTTCGGGACTTAACCCGGATTTAGTA
**
115267292 ACTCGCAC-AATAGCCTTC-GGATCTTAGTCCGGATTTAGTA
1 ACTCGCACAAAT-GCCTTCGGGA-CTTAACCCGGATTTAGTA
* * *
115267332 ACTCGCACAAATGCCTTCGGGAATTGACCCGGATTTAGTC
1 ACTCGCACAAATGCCTTCGGGACTTAACCCGGATTTAGTA
* * *
115267372 ACTTAGCACAAAAGCCTTCGGGACTTAGCCCGGAT
1 AC-TCGCACAAATGCCTTCGGGACTTAACCCGGAT
115267407 ACCATTCGAA
Statistics
Matches: 125, Mismatches: 23, Indels: 12
0.78 0.14 0.08
Matches are distributed among these distances:
39 21 0.17
40 69 0.55
41 35 0.28
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.24
Consensus pattern (40 bp):
ACTCGCACAAATGCCTTCGGGACTTAACCCGGATTTAGTA
Found at i:115267362 original size:80 final size:79
Alignment explanation
Indices: 115267213--115267404 Score: 224
Period size: 80 Copynumber: 2.4 Consensus size: 79
115267203 GGATATAGCG
* * *
115267213 ACTCGCTCAAAAGCCTTCGGACATAGCCCGGTTATAATAGCTCGCACAAATGCCTTCGGGACTTA
1 ACTCGCACAAAAGCCTTCGGACATAGCCCGGTTATAATAACTCGCACAAATGCCTTCGGGAATTA
115267278 ACCCGGATTTGGGA
66 ACCCGGATTTGGGA
* * * *
115267292 ACTCGCACAATAGCCTTCGGATCTTAGTCCGGATT-TAGTAACTCGCACAAATGCCTTCGGGAAT
1 ACTCGCACAAAAGCCTTCGGA-CATAGCCCGG-TTATAATAACTCGCACAAATGCCTTCGGGAAT
* * **
115267356 TGACCCGGATTTAGTC
64 TAACCCGGATTTGGGA
* *
115267372 ACTTAGCACAAAAGCCTTCGGGACTTAGCCCGG
1 AC-TCGCACAAAAGCCTTC-GGACATAGCCCGG
115267405 ATACCATTCG
Statistics
Matches: 95, Mismatches: 14, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
79 19 0.20
80 48 0.51
81 25 0.26
82 3 0.03
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (79 bp):
ACTCGCACAAAAGCCTTCGGACATAGCCCGGTTATAATAACTCGCACAAATGCCTTCGGGAATTA
ACCCGGATTTGGGA
Found at i:115274467 original size:40 final size:40
Alignment explanation
Indices: 115274423--115274605 Score: 194
Period size: 40 Copynumber: 4.5 Consensus size: 40
115274413 TCGCTTAAAA
* * *
115274423 GCCTTCGGGACATAGCCCGG-TTATAATAGCTCGCACAAAT
1 GCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCACAAAT
* * *
115274463 GCCTTCGGGACTTAACCCGGATTTGGGAACTCGCAC-AAT
1 GCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACAAAT
*
115274502 AGCCTTC-GGATCTTAGTCCGGATTTAGTAACTCGCACAAAT
1 -GCCTTCGGGA-CTTAGCCCGGATTTAGTAACTCGCACAAAT
* * * *
115274543 GCCTTCGGGAATT-GACCCGGATTTAGTCACTTAGCACAAAA
1 GCCTTCGGGACTTAG-CCCGGATTTAGTAAC-TCGCACAAAT
115274584 GCCTTCGGGACTTAGCCCGGAT
1 GCCTTCGGGACTTAGCCCGGAT
115274606 ACCATTCGAA
Statistics
Matches: 119, Mismatches: 16, Indels: 15
0.79 0.11 0.10
Matches are distributed among these distances:
39 7 0.06
40 76 0.64
41 35 0.29
42 1 0.01
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
GCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACAAAT
Found at i:115281702 original size:40 final size:40
Alignment explanation
Indices: 115281646--115281840 Score: 216
Period size: 40 Copynumber: 4.8 Consensus size: 40
115281636 GGATATAGCG
* * * *
115281646 ACTCGCTCAAAAGCCTTCGGGACATAGCCCGG-TTATAATA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATT-TAGTA
* * * *
115281686 GCTCGCACAAATGCCTTCGGGACTTAACCCGGATTTGGGA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTA
*
115281726 ACTCGCACAAATGCCTTC-GGATCTTAGTCCGGATTTAGTA
1 ACTCGCACAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTA
* *
115281766 ACTCGCACAAATGCCTTCGGGAATT-GACCCGGATTTAGTC
1 ACTCGCACAAATGCCTTCGGGACTTAG-CCCGGATTTAGTA
* *
115281806 ACTTAGCACAAAAGCCTTCGGGACTTAGCCCGGAT
1 AC-TCGCACAAATGCCTTCGGGACTTAGCCCGGAT
115281841 ACCATTCGAA
Statistics
Matches: 130, Mismatches: 19, Indels: 11
0.81 0.12 0.07
Matches are distributed among these distances:
39 4 0.03
40 93 0.72
41 32 0.25
42 1 0.01
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.24
Consensus pattern (40 bp):
ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTA
Found at i:115289070 original size:41 final size:40
Alignment explanation
Indices: 115288885--115289072 Score: 184
Period size: 40 Copynumber: 4.7 Consensus size: 40
115288875 GCGACTCACT
* * * * *
115288885 CAAAAGCCTTTGGGACATAGCCCGG-TTATAATAGCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
* * * *
115288925 CAAATGCCTTTGGGACTTAACCCGGATTTGGGAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* *
115288965 CAAATGCCTTC-AGATCTTAGTCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAACTCGCA
* * *
115289005 CAAATGCCTTCGGGAATT-GACCCGGATTTAGTCACTTAGCA
1 CAAATGCCTTCGGGACTTAG-CCCGGATTTAGTAAC-TCGCA
*
115289046 CAAAAGCCTTCGGGACTTAGCCCGGAT
1 CAAATGCCTTCGGGACTTAGCCCGGAT
115289073 ACCATTCGAA
Statistics
Matches: 122, Mismatches: 20, Indels: 11
0.80 0.13 0.07
Matches are distributed among these distances:
39 3 0.02
40 87 0.71
41 31 0.25
42 1 0.01
ACGTcount: A:0.27, C:0.26, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:115290138 original size:27 final size:27
Alignment explanation
Indices: 115290108--115290191 Score: 68
Period size: 27 Copynumber: 3.2 Consensus size: 27
115290098 ACAACATAAT
115290108 TAACATTTAAAACATCAATCAATGAGC
1 TAACATTTAAAACATCAATCAATGAGC
** * * **
115290135 TAACA--T-AAAGTTTAACCATAT-ATT
1 TAACATTTAAAACATCAATCA-ATGAGC
*
115290159 TAACATTTAAAACATCAATCAATGAGG
1 TAACATTTAAAACATCAATCAATGAGC
115290186 TAACAT
1 TAACAT
115290192 AAAGTTTAAC
Statistics
Matches: 40, Mismatches: 12, Indels: 10
0.65 0.19 0.16
Matches are distributed among these distances:
24 14 0.35
25 3 0.08
26 3 0.08
27 20 0.50
ACGTcount: A:0.48, C:0.15, G:0.07, T:0.30
Consensus pattern (27 bp):
TAACATTTAAAACATCAATCAATGAGC
Found at i:115290166 original size:51 final size:51
Alignment explanation
Indices: 115290107--115290206 Score: 191
Period size: 51 Copynumber: 2.0 Consensus size: 51
115290097 GACAACATAA
115290107 TTAACATTTAAAACATCAATCAATGAGCTAACATAAAGTTTAACCATATAT
1 TTAACATTTAAAACATCAATCAATGAGCTAACATAAAGTTTAACCATATAT
*
115290158 TTAACATTTAAAACATCAATCAATGAGGTAACATAAAGTTTAACCATAT
1 TTAACATTTAAAACATCAATCAATGAGCTAACATAAAGTTTAACCATAT
115290207 CGAACTCATA
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
51 48 1.00
ACGTcount: A:0.47, C:0.15, G:0.07, T:0.31
Consensus pattern (51 bp):
TTAACATTTAAAACATCAATCAATGAGCTAACATAAAGTTTAACCATATAT
Found at i:115303308 original size:40 final size:40
Alignment explanation
Indices: 115303264--115303448 Score: 198
Period size: 40 Copynumber: 4.6 Consensus size: 40
115303254 GCTACTCGCT
*
115303264 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCACA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCACA
* * *
115303304 CAAATGCCTTCGGGACTCAACCCGGATT-TAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGG-TTATAGTAACTCACA
* * *
115303344 CCAATGCCTTCGGG-CTTAGCCCGG-AATTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTA-TAGTAACTCACA
* * * *
115303383 CAAATGCCTTC-GGATCTTAGTCCGGATATAGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGTTATAGTAACTCA-CA
*
115303424 CAAAAGCCTTCGGGACTTAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCGG
115303449 ATATCATTCG
Statistics
Matches: 121, Mismatches: 16, Indels: 15
0.80 0.11 0.10
Matches are distributed among these distances:
38 2 0.02
39 30 0.25
40 62 0.51
41 24 0.20
42 3 0.02
ACGTcount: A:0.26, C:0.29, G:0.22, T:0.23
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCACA
Found at i:115303379 original size:79 final size:81
Alignment explanation
Indices: 115303245--115303449 Score: 240
Period size: 79 Copynumber: 2.6 Consensus size: 81
115303235 CGGAATTTAA
* * *
115303245 CCGGATATAGCT-ACTCGCTCAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCACACAAA
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCACACAAA
115303308 TGCCTTCGGGA-CTCAAC
65 TGCCTTC-GGATCTCAAC
* * *
115303325 CCGGATTTAGTAACTCGCACCAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTAACTCGCACAAAT
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCACACAAAT
* **
115303388 GCCTTCGGATCTTAGT
66 GCCTTCGGATCTCAAC
* * *
115303404 CCGGATATAGTCACTTAGCACAAAAGCCTTCGGGACTTAGCCCGGA
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGCCCGGA
115303450 TATCATTCGA
Statistics
Matches: 106, Mismatches: 14, Indels: 9
0.82 0.11 0.07
Matches are distributed among these distances:
78 3 0.03
79 47 0.44
80 45 0.42
81 11 0.10
ACGTcount: A:0.26, C:0.29, G:0.21, T:0.23
Consensus pattern (81 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCACACAAAT
GCCTTCGGATCTCAAC
Found at i:115308223 original size:13 final size:13
Alignment explanation
Indices: 115308205--115308229 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
115308195 TTCAAACTAC
115308205 TTTTTATTTTTTA
1 TTTTTATTTTTTA
115308218 TTTTTATTTTTT
1 TTTTTATTTTTT
115308230 CACAGATTTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (13 bp):
TTTTTATTTTTTA
Found at i:115320373 original size:28 final size:28
Alignment explanation
Indices: 115320341--115320438 Score: 110
Period size: 28 Copynumber: 3.5 Consensus size: 28
115320331 CAATAAGCCT
*
115320341 GCACACTTAGTGCTTAATAGTCGAACTC
1 GCACACTTAGTGCTTAATAATCGAACTC
* *
115320369 GCACACTTAGTGC-TATATAATCAAACTT
1 GCACACTTAGTGCTTA-ATAATCGAACTC
* *
115320397 GCACACTTAGTGCTGT-ATAATTTGAACCC
1 GCACACTTAGTGCT-TAATAA-TCGAACTC
115320426 GCACACTTAGTGC
1 GCACACTTAGTGC
115320439 CAATTTGTGA
Statistics
Matches: 59, Mismatches: 7, Indels: 7
0.81 0.10 0.10
Matches are distributed among these distances:
27 2 0.03
28 39 0.66
29 17 0.29
30 1 0.02
ACGTcount: A:0.30, C:0.24, G:0.16, T:0.30
Consensus pattern (28 bp):
GCACACTTAGTGCTTAATAATCGAACTC
Found at i:115328030 original size:28 final size:28
Alignment explanation
Indices: 115327998--115328096 Score: 112
Period size: 28 Copynumber: 3.5 Consensus size: 28
115327988 GCAATAAGCC
*
115327998 CGCACACTTAGTGCTTAATAGTCGAACT
1 CGCACACTTAGTGCTTAATAATCGAACT
*
115328026 CGCACACTTAGTGC-TATATAATCAAACT
1 CGCACACTTAGTGCTTA-ATAATCGAACT
* * *
115328054 TGCACACTTAGTGCTGT-ATAATTTGAACC
1 CGCACACTTAGTGCT-TAATAA-TCGAACT
115328083 CGCACACTTAGTGC
1 CGCACACTTAGTGC
115328097 CAATTTGTGA
Statistics
Matches: 60, Mismatches: 7, Indels: 7
0.81 0.09 0.09
Matches are distributed among these distances:
27 2 0.03
28 40 0.67
29 17 0.28
30 1 0.02
ACGTcount: A:0.29, C:0.25, G:0.16, T:0.29
Consensus pattern (28 bp):
CGCACACTTAGTGCTTAATAATCGAACT
Found at i:115331312 original size:2 final size:2
Alignment explanation
Indices: 115331305--115331331 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
115331295 TGATGCTTAT
115331305 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
115331332 GCATGTGTGA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:115332962 original size:40 final size:40
Alignment explanation
Indices: 115332907--115333130 Score: 270
Period size: 40 Copynumber: 5.5 Consensus size: 40
115332897 TATTCGGATG
*
115332907 ATATCCGGGCTAAGTCCCGAAGGCATTTGTACAAGTTACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
* *
115332947 ATATCCGGGCTAAGTCCCGAAGGCATTTTTGCGAGTAGTTGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGC-A--AGTTACT
* * * *
115332990 ATACCCGGGCTAAGTCCTGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
* ** * *
115333030 ATATCCGGGCTAAGCCCCGAAGGCATTCATGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
* * *
115333070 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
*
115333110 ATATCC-GGCTAAATCCCGAAG
1 ATATCCGGGCTAAGTCCCGAAG
115333131 ATACTTGGGT
Statistics
Matches: 159, Mismatches: 22, Indels: 7
0.85 0.12 0.04
Matches are distributed among these distances:
39 13 0.08
40 110 0.69
41 1 0.01
43 35 0.22
ACGTcount: A:0.25, C:0.24, G:0.26, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
Found at i:115333050 original size:83 final size:80
Alignment explanation
Indices: 115332911--115333130 Score: 275
Period size: 83 Copynumber: 2.7 Consensus size: 80
115332901 CGGATGATAT
* * **
115332911 CCGGGCTAAGTCCCGAAGGCATTTGTACAAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTGACTATATCCGGGCTAAGTCCCGAAGGCATTCA
115332976 TGCGAGTAGTTG-CTATAC
66 TGC---TAG-TGACTATAC
* * *
115332994 CCGGGCTAAGTCCTGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGCCCCGAAGGCATTCA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTGACTATATCCGGGCTAAGTCCCGAAGGCATTCA
*
115333059 TGCTAGTGACTATAT
66 TGCTAGTGACTATAC
* * *
115333074 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CTATATCC-GGCTAAATCCCGAAG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAG-TGACTATATCCGGGCTAAGTCCCGAAG
115333131 ATACTTGGGT
Statistics
Matches: 122, Mismatches: 13, Indels: 8
0.85 0.09 0.06
Matches are distributed among these distances:
79 15 0.12
80 44 0.36
81 2 0.02
83 61 0.50
ACGTcount: A:0.24, C:0.24, G:0.26, T:0.25
Consensus pattern (80 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTGACTATATCCGGGCTAAGTCCCGAAGGCATTCA
TGCTAGTGACTATAC
Found at i:115333398 original size:22 final size:22
Alignment explanation
Indices: 115333358--115333399 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
115333348 GAATGTGCAT
*
115333358 ATATGAAGTTATTCATTTAGCC
1 ATATGAAGTTATACATTTAGCC
115333380 ATATGAATGTTATAC-TTTAG
1 ATATGAA-GTTATACATTTAG
115333400 TCAAAACTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 12 0.67
23 6 0.33
ACGTcount: A:0.33, C:0.10, G:0.14, T:0.43
Consensus pattern (22 bp):
ATATGAAGTTATACATTTAGCC
Found at i:115336158 original size:40 final size:40
Alignment explanation
Indices: 115336095--115336269 Score: 171
Period size: 40 Copynumber: 4.3 Consensus size: 40
115336085 ATTATGTTTG
*
115336095 GCACTTAGTGTGCATATCGAGATAGCTTCGGCTATATAAA
1 GCACTTAGTGTGCGTATCGAGATAGCTTCGGCTATATAAA
*
115336135 GCACTTAGTGTGCGTATCAAGATAGCTTCGGCTATATAAA
1 GCACTTAGTGTGCGTATCGAGATAGCTTCGGCTATATAAA
* ** * * *
115336175 GAACTTAGTGTGCAAATC-AGAATAGCTTTGGTTATAT-AT
1 GCACTTAGTGTGCGTATCGAG-ATAGCTTCGGCTATATAAA
*
115336214 GACACTTAGTGTGCCAG-A-CTGAGATAGCTTCGGCTAT-GAAA
1 G-CACTTAGTGTG-C-GTATC-GAGATAGCTTCGGCTATATAAA
*
115336255 GACACTTAATGTGCG
1 G-CACTTAGTGTGCG
115336270 AGATATTGAG
Statistics
Matches: 113, Mismatches: 15, Indels: 15
0.79 0.10 0.10
Matches are distributed among these distances:
39 5 0.04
40 79 0.70
41 27 0.24
42 2 0.02
ACGTcount: A:0.30, C:0.17, G:0.23, T:0.30
Consensus pattern (40 bp):
GCACTTAGTGTGCGTATCGAGATAGCTTCGGCTATATAAA
Found at i:115345952 original size:24 final size:24
Alignment explanation
Indices: 115345925--115345990 Score: 123
Period size: 24 Copynumber: 2.8 Consensus size: 24
115345915 AGTTAACATA
*
115345925 TGGCACTATGTGTGCGGAATTAAG
1 TGGCACTATGTGTGCCGAATTAAG
115345949 TGGCACTATGTGTGCCGAATTAAG
1 TGGCACTATGTGTGCCGAATTAAG
115345973 TGGCACTATGTGTGCCGA
1 TGGCACTATGTGTGCCGA
115345991 TTTGGATGTT
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
24 41 1.00
ACGTcount: A:0.23, C:0.17, G:0.32, T:0.29
Consensus pattern (24 bp):
TGGCACTATGTGTGCCGAATTAAG
Found at i:115349188 original size:93 final size:93
Alignment explanation
Indices: 115349076--115349247 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
115349066 GCCCATAAGT
* *
115349076 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
115349141 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
115349169 GAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
115349234 CGAGTTCGGATGCC
66 CGAGTTCGGATGCC
115349248 CAAATATCCA
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.20
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:115349243 original size:46 final size:46
Alignment explanation
Indices: 115349068--115349243 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
115349058 TGTAACCCGC
* * *
115349068 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
* *
115349114 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACG-CTCG---CAT
* *
115349164 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
115349207 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
115349244 TGCCCAAATA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 2 0.02
46 68 0.61
47 32 0.29
48 2 0.02
49 1 0.01
50 3 0.03
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
Found at i:115351204 original size:31 final size:31
Alignment explanation
Indices: 115351166--115351228 Score: 126
Period size: 31 Copynumber: 2.0 Consensus size: 31
115351156 TTAGGGCCTC
115351166 AATGTTCAGGTTACCAACTAACTCTGGCTAT
1 AATGTTCAGGTTACCAACTAACTCTGGCTAT
115351197 AATGTTCAGGTTACCAACTAACTCTGGCTAT
1 AATGTTCAGGTTACCAACTAACTCTGGCTAT
115351228 A
1 A
115351229 CGCCAAAGTT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.30, C:0.22, G:0.16, T:0.32
Consensus pattern (31 bp):
AATGTTCAGGTTACCAACTAACTCTGGCTAT
Found at i:115352689 original size:24 final size:25
Alignment explanation
Indices: 115352635--115352689 Score: 67
Period size: 24 Copynumber: 2.2 Consensus size: 25
115352625 AAACTCCTTC
115352635 TGAGCTGATAAACAGTAAGCTCTGA
1 TGAGCTGATAAACAGTAAGCTCTGA
** * *
115352660 CAAGCTGA-GAACAGTAAGCTCTTA
1 TGAGCTGATAAACAGTAAGCTCTGA
115352684 TGAGCT
1 TGAGCT
115352690 AATATATCGG
Statistics
Matches: 24, Mismatches: 6, Indels: 1
0.77 0.19 0.03
Matches are distributed among these distances:
24 18 0.75
25 6 0.25
ACGTcount: A:0.35, C:0.18, G:0.24, T:0.24
Consensus pattern (25 bp):
TGAGCTGATAAACAGTAAGCTCTGA
Found at i:115360337 original size:48 final size:48
Alignment explanation
Indices: 115360192--115360337 Score: 202
Period size: 48 Copynumber: 3.0 Consensus size: 48
115360182 TTGGGCTATC
* * **
115360192 GGCACCGATATGCGATCCCATGTAAGACCACGTCTGGGACATGGCATT
1 GGCATCGATATGTGATCCCATGTAAGACCATATCTGGGACATGGCATT
* **
115360240 GGCATCGATATGTGATCCCATGTAAGACCATAACTGGGACATGATATT
1 GGCATCGATATGTGATCCCATGTAAGACCATATCTGGGACATGGCATT
* * *
115360288 GGCATCGATATGTGATCCCATGTAAGACAATATCCGGGATATGGCATT
1 GGCATCGATATGTGATCCCATGTAAGACCATATCTGGGACATGGCATT
115360336 GG
1 GG
115360338 TATTCTACCA
Statistics
Matches: 85, Mismatches: 13, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
48 85 1.00
ACGTcount: A:0.28, C:0.21, G:0.26, T:0.25
Consensus pattern (48 bp):
GGCATCGATATGTGATCCCATGTAAGACCATATCTGGGACATGGCATT
Found at i:115370144 original size:20 final size:21
Alignment explanation
Indices: 115370106--115370145 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
115370096 TGAGTCTTCA
*
115370106 AAAAAAAATAGAAATAAAAGT
1 AAAAAAAATAGAAAAAAAAGT
*
115370127 AAAAAAATTA-AAAAAAAAG
1 AAAAAAAATAGAAAAAAAAG
115370146 AGCTTAAAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.80, C:0.00, G:0.07, T:0.12
Consensus pattern (21 bp):
AAAAAAAATAGAAAAAAAAGT
Found at i:115374243 original size:14 final size:14
Alignment explanation
Indices: 115374226--115374255 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
115374216 TCAATGAAAG
*
115374226 AATTAAGAACACAT
1 AATTAAGAACAAAT
115374240 AATTAAGAACAAAT
1 AATTAAGAACAAAT
115374254 AA
1 AA
115374256 AATATTTTTC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.63, C:0.10, G:0.07, T:0.20
Consensus pattern (14 bp):
AATTAAGAACAAAT
Found at i:115384239 original size:43 final size:44
Alignment explanation
Indices: 115384142--115384288 Score: 147
Period size: 43 Copynumber: 3.4 Consensus size: 44
115384132 ATTGAGATGT
* * * * *
115384142 GATTATATGTAAGACCATGTTTGAGACATTGGCAT-TTTATTGA
1 GATTACATGTAAGACCATGTCTGGGACATTGGCATCGTTAATGA
*
115384185 GATTACATGTAAGACCATGTCTGGGACATTGGCATCGTTAAT-C
1 GATTACATGTAAGACCATGTCTGGGACATTGGCATCGTTAATGA
* * * ** * *
115384228 GATTTCGTGTAAGACCCTGTCTGGGACGGTGGCATCGAT-ATGT
1 GATTACATGTAAGACCATGTCTGGGACATTGGCATCGTTAATGA
*
115384271 GATAACATGTAAGACCAT
1 GATTACATGTAAGACCAT
115384289 ATATGGGATA
Statistics
Matches: 85, Mismatches: 17, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
42 2 0.02
43 79 0.93
44 4 0.05
ACGTcount: A:0.28, C:0.16, G:0.24, T:0.32
Consensus pattern (44 bp):
GATTACATGTAAGACCATGTCTGGGACATTGGCATCGTTAATGA
Found at i:115393324 original size:6 final size:6
Alignment explanation
Indices: 115393305--115393346 Score: 50
Period size: 6 Copynumber: 7.2 Consensus size: 6
115393295 GACGATGATG
* * *
115393305 TTTAAT TTTA-T TTTATT TTTATT TTCATT TTCATT TTTATT T
1 TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT T
115393347 CATGTTTTTA
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
5 5 0.15
6 28 0.85
ACGTcount: A:0.19, C:0.05, G:0.00, T:0.76
Consensus pattern (6 bp):
TTTATT
Found at i:115396078 original size:71 final size:71
Alignment explanation
Indices: 115395992--115396155 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
115395982 CGATTTGTCT
115395992 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
115396057 CTTTCA
66 CTTTCA
115396063 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
115396128 CTTTCA
66 CTTTCA
115396134 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
115396156 GATACATCTC
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:115396193 original size:71 final size:70
Alignment explanation
Indices: 115395992--115396189 Score: 258
Period size: 71 Copynumber: 2.8 Consensus size: 70
115395982 CGATTTGTCT
* * * *
115395992 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
115396057 CTTTCA
65 CTTTCA
* * * *
115396063 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
115396128 CTTTCA
65 CTTTCA
* *
115396134 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACACATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACACATGCGACCTAGCTAC
115396190 TACAGGGTGT
Statistics
Matches: 120, Mismatches: 6, Indels: 5
0.92 0.05 0.04
Matches are distributed among these distances:
68 22 0.18
69 1 0.01
70 1 0.01
71 96 0.80
ACGTcount: A:0.21, C:0.28, G:0.17, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACACATGCGACCTAGCTACATTTATC
TTTCA
Found at i:115403644 original size:71 final size:71
Alignment explanation
Indices: 115403558--115403721 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
115403548 CGATTTGTCT
115403558 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
115403623 CTTTCA
66 CTTTCA
115403629 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
115403694 CTTTCA
66 CTTTCA
115403700 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
115403722 GATACATCTC
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:115403759 original size:71 final size:70
Alignment explanation
Indices: 115403558--115403755 Score: 258
Period size: 71 Copynumber: 2.8 Consensus size: 70
115403548 CGATTTGTCT
* * * *
115403558 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
115403623 CTTTCA
65 CTTTCA
* * * *
115403629 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
115403694 CTTTCA
65 CTTTCA
* *
115403700 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACACATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACACATGCGACCTAGCTAC
115403756 TACAGGGTGT
Statistics
Matches: 120, Mismatches: 6, Indels: 5
0.92 0.05 0.04
Matches are distributed among these distances:
68 22 0.18
69 1 0.01
70 1 0.01
71 96 0.80
ACGTcount: A:0.21, C:0.28, G:0.17, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACACATGCGACCTAGCTACATTTATC
TTTCA
Found at i:115405076 original size:37 final size:38
Alignment explanation
Indices: 115405007--115405092 Score: 111
Period size: 37 Copynumber: 2.3 Consensus size: 38
115404997 CGGGTTGTCA
* * *
115405007 CACGAAGCCTGTGGGATTTAACCCGGATATAATACCAG
1 CACGAAGCCTGCGAGATTTAACCCGGACATAATACCAG
*
115405045 CACGAAGCCTGCGAGA-TTAACCCGGACATAATTCCAG
1 CACGAAGCCTGCGAGATTTAACCCGGACATAATACCAG
**
115405082 CATAAAGCCTG
1 CACGAAGCCTG
115405093 GGGGTCTTTA
Statistics
Matches: 42, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
37 28 0.67
38 14 0.33
ACGTcount: A:0.33, C:0.27, G:0.22, T:0.19
Consensus pattern (38 bp):
CACGAAGCCTGCGAGATTTAACCCGGACATAATACCAG
Found at i:115406711 original size:46 final size:46
Alignment explanation
Indices: 115406644--115406816 Score: 214
Period size: 46 Copynumber: 3.8 Consensus size: 46
115406634 TGTAACCCGC
*
115406644 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCAT
*
115406690 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG--G-C--GTTCGCAT
* * *
115406740 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGAC--TCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCAT
115406781 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
115406817 ATGCCCAAAT
Statistics
Matches: 110, Mismatches: 8, Indels: 20
0.80 0.06 0.14
Matches are distributed among these distances:
40 1 0.01
41 3 0.03
42 1 0.01
43 2 0.02
44 29 0.26
46 35 0.32
47 28 0.25
48 3 0.03
49 2 0.02
50 3 0.03
51 3 0.03
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCAT
Found at i:115406809 original size:91 final size:92
Alignment explanation
Indices: 115406652--115406821 Score: 306
Period size: 91 Copynumber: 1.8 Consensus size: 92
115406642 GCCCATAAGT
*
115406652 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACG-TCGCATCCATAAGTGAACTCGGACTCAACTCAA
115406717 CGAGTTCGGATGCCTAGTTACATCTCAC
65 CGAGTTCGGATGCCTAGTTACATCTCAC
*
115406745 GAACTCGGACTCAACTCAACGAGTTCGGAC-TCGCATCCATAAGTGAACTCGGACTCAACTCAAC
1 GAACTCGGACTCAACTCAACGAGCTCGGACGTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
115406809 GAGTTCGGATGCC
66 GAGTTCGGATGCC
115406822 CAAATATCCC
Statistics
Matches: 75, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
91 47 0.63
93 28 0.37
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.21
Consensus pattern (92 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
GAGTTCGGATGCCTAGTTACATCTCAC
Found at i:115409222 original size:30 final size:30
Alignment explanation
Indices: 115409178--115409267 Score: 94
Period size: 30 Copynumber: 3.0 Consensus size: 30
115409168 CAAAGATAAC
115409178 AAGAAAACC-GAATAAAGAAATCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
* *
115409207 GAGAAACCCAGAATAAAGAAATCC-AGAATA
1 AAGAAAACCAGAATAAAGAAATCCAAG-ATA
* * * *
115409237 AAGAGATCCAGGATAAAAGAAACCCAAGATA
1 AAGAAAACCAGAAT-AAAGAAATCCAAGATA
115409268 CGATACTATG
Statistics
Matches: 50, Mismatches: 7, Indels: 6
0.79 0.11 0.10
Matches are distributed among these distances:
29 9 0.18
30 27 0.54
31 12 0.24
32 2 0.04
ACGTcount: A:0.58, C:0.16, G:0.17, T:0.10
Consensus pattern (30 bp):
AAGAAAACCAGAATAAAGAAATCCAAGATA
Found at i:115409226 original size:15 final size:15
Alignment explanation
Indices: 115409178--115409258 Score: 85
Period size: 15 Copynumber: 5.4 Consensus size: 15
115409168 CAAAGATAAC
*
115409178 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
115409192 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
* *
115409207 GAGAAACCCAGAATA
1 AAGAAATCCAGAATA
115409222 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
* *
115409237 AAGAGATCCAGGATAA
1 AAGAAATCCAGAAT-A
115409253 AAGAAA
1 AAGAAA
115409259 CCCAAGATAC
Statistics
Matches: 55, Mismatches: 8, Indels: 6
0.80 0.12 0.09
Matches are distributed among these distances:
14 9 0.16
15 39 0.71
16 7 0.13
ACGTcount: A:0.59, C:0.14, G:0.17, T:0.10
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:115412327 original size:93 final size:93
Alignment explanation
Indices: 115412215--115412386 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
115412205 GCCCATAAGT
* *
115412215 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
115412280 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
115412308 GAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
115412373 CGAGTTCGGATGCC
66 CGAGTTCGGATGCC
115412387 CAAATATCCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.20
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:115412382 original size:46 final size:46
Alignment explanation
Indices: 115412207--115412382 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
115412197 TGTAACCCGC
* * *
115412207 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
* *
115412253 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACG-CTCG---CAT
* *
115412303 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
115412346 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
115412383 TGCCCAAATA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 2 0.02
46 68 0.61
47 32 0.29
48 2 0.02
49 1 0.01
50 3 0.03
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
Found at i:115414809 original size:30 final size:30
Alignment explanation
Indices: 115414765--115414853 Score: 101
Period size: 30 Copynumber: 3.0 Consensus size: 30
115414755 CAAAGATAAC
115414765 AAGAAAACC-GAATAAAGAAATCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
* *
115414794 GAGAAACCCAGAATAAAGAAATCC-AGAATA
1 AAGAAAACCAGAATAAAGAAATCCAAG-ATA
* * * *
115414824 AAGAGATCCAGGATAAAGAAACCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
115414854 CGATACTATG
Statistics
Matches: 50, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
29 9 0.18
30 39 0.78
31 2 0.04
ACGTcount: A:0.57, C:0.16, G:0.17, T:0.10
Consensus pattern (30 bp):
AAGAAAACCAGAATAAAGAAATCCAAGATA
Found at i:115414813 original size:15 final size:15
Alignment explanation
Indices: 115414765--115414844 Score: 92
Period size: 15 Copynumber: 5.4 Consensus size: 15
115414755 CAAAGATAAC
*
115414765 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
115414779 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
* *
115414794 GAGAAACCCAGAATA
1 AAGAAATCCAGAATA
115414809 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
* *
115414824 AAGAGATCCAGGATA
1 AAGAAATCCAGAATA
115414839 AAGAAA
1 AAGAAA
115414845 CCCAAGATAC
Statistics
Matches: 55, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
14 9 0.16
15 45 0.82
16 1 0.02
ACGTcount: A:0.59, C:0.14, G:0.17, T:0.10
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:115414853 original size:15 final size:15
Alignment explanation
Indices: 115414776--115414853 Score: 79
Period size: 15 Copynumber: 5.2 Consensus size: 15
115414766 AGAAAACCGA
115414776 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* *
115414791 ATAGAGAAA-CCCAG
1 ATAAAGAAATCCAAG
115414805 AATAAAGAAATCC-AG
1 -ATAAAGAAATCCAAG
* *
115414820 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
115414836 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
115414851 ATA
1 ATA
115414854 CGATACTATG
Statistics
Matches: 52, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
14 4 0.08
15 45 0.87
16 3 0.06
ACGTcount: A:0.56, C:0.15, G:0.17, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:115417917 original size:93 final size:93
Alignment explanation
Indices: 115417805--115417976 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
115417795 GCCCATAAGT
* *
115417805 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
115417870 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
115417898 GAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
115417963 CGAGTTCGGATGCC
66 CGAGTTCGGATGCC
115417977 CAAATATCCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.20
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:115417972 original size:46 final size:46
Alignment explanation
Indices: 115417797--115417972 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
115417787 TGTAACCCGC
* * *
115417797 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
* *
115417843 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACG-CTCG---CAT
* *
115417893 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
115417936 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
115417973 TGCCCAAATA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 2 0.02
46 68 0.61
47 32 0.29
48 2 0.02
49 1 0.01
50 3 0.03
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
Found at i:115423264 original size:13 final size:14
Alignment explanation
Indices: 115423248--115423283 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 14
115423238 CAATCTCATA
115423248 TCTCAATTTCAA-T
1 TCTCAATTTCAATT
115423261 TCTCAA-TTCAATT
1 TCTCAATTTCAATT
115423274 TCTC-ATTTCA
1 TCTCAATTTCA
115423284 TTCCAATAGC
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
12 6 0.29
13 15 0.71
ACGTcount: A:0.28, C:0.25, G:0.00, T:0.47
Consensus pattern (14 bp):
TCTCAATTTCAATT
Found at i:115423273 original size:18 final size:19
Alignment explanation
Indices: 115423235--115423275 Score: 59
Period size: 18 Copynumber: 2.2 Consensus size: 19
115423225 TGGTTCATGT
115423235 TTTCAATCTCATATCTCAA
1 TTTCAATCTCATATCTCAA
115423254 TTTCAATTCTCA-AT-TCAA
1 TTTCAA-TCTCATATCTCAA
115423272 TTTC
1 TTTC
115423276 TCATTTCATT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 8 0.38
19 8 0.38
20 5 0.24
ACGTcount: A:0.29, C:0.24, G:0.00, T:0.46
Consensus pattern (19 bp):
TTTCAATCTCATATCTCAA
Found at i:115423465 original size:39 final size:38
Alignment explanation
Indices: 115423398--115423532 Score: 101
Period size: 39 Copynumber: 3.4 Consensus size: 38
115423388 ACCAATATGG
* * *
115423398 CACCCAGTGCCTCATCGGATAGTTCGAAGCAATATTTGA
1 CACCCAGTGCCTCATCGGCTAG-CCGAAGAAATATTTGA
* * * *
115423437 CACCCAGTGTCTCATCGGCCTAGCCGAAGTAA-AGTTGG
1 CACCCAGTGCCTCATCGG-CTAGCCGAAGAAATATTTGA
* * * * *
115423475 TACCCAGTACCTCATCGAATCTATCCGAAGAAATATAGTGA
1 CACCCAGTGCCTCATCG--GCTAGCCGAAGAAATAT-TTGA
*
115423516 CACCCAGTGTCTCATCG
1 CACCCAGTGCCTCATCG
115423533 ACTCGAGGTC
Statistics
Matches: 73, Mismatches: 18, Indels: 8
0.74 0.18 0.08
Matches are distributed among these distances:
38 18 0.25
39 35 0.48
40 4 0.05
41 16 0.22
ACGTcount: A:0.28, C:0.28, G:0.20, T:0.24
Consensus pattern (38 bp):
CACCCAGTGCCTCATCGGCTAGCCGAAGAAATATTTGA
Found at i:115423798 original size:18 final size:19
Alignment explanation
Indices: 115423772--115423810 Score: 62
Period size: 18 Copynumber: 2.1 Consensus size: 19
115423762 TTTCAATTCA
115423772 ATTCAAATAATCAATATAT
1 ATTCAAATAATCAATATAT
*
115423791 ATTC-AATATTCAATATAT
1 ATTCAAATAATCAATATAT
115423809 AT
1 AT
115423811 ATCTATATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 15 0.79
19 4 0.21
ACGTcount: A:0.49, C:0.10, G:0.00, T:0.41
Consensus pattern (19 bp):
ATTCAAATAATCAATATAT
Found at i:115425125 original size:5 final size:5
Alignment explanation
Indices: 115425110--115425161 Score: 95
Period size: 5 Copynumber: 10.2 Consensus size: 5
115425100 TTCTTATGTT
115425110 TATATA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA
1 TATA-A TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA
115425161 T
1 T
115425162 TAAAACATAA
Statistics
Matches: 46, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
5 42 0.91
6 4 0.09
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (5 bp):
TATAA
Found at i:115429675 original size:13 final size:14
Alignment explanation
Indices: 115429659--115429694 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 14
115429649 CAATCTCATA
115429659 TCTCAATTTCAA-T
1 TCTCAATTTCAATT
115429672 TCTCAA-TTCAATT
1 TCTCAATTTCAATT
115429685 TCTC-ATTTCA
1 TCTCAATTTCA
115429695 TTCCAATAGC
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
12 6 0.29
13 15 0.71
ACGTcount: A:0.28, C:0.25, G:0.00, T:0.47
Consensus pattern (14 bp):
TCTCAATTTCAATT
Found at i:115429684 original size:18 final size:19
Alignment explanation
Indices: 115429646--115429686 Score: 59
Period size: 18 Copynumber: 2.2 Consensus size: 19
115429636 TGGTTCATGT
115429646 TTTCAATCTCATATCTCAA
1 TTTCAATCTCATATCTCAA
115429665 TTTCAATTCTCA-AT-TCAA
1 TTTCAA-TCTCATATCTCAA
115429683 TTTC
1 TTTC
115429687 TCATTTCATT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 8 0.38
19 8 0.38
20 5 0.24
ACGTcount: A:0.29, C:0.24, G:0.00, T:0.46
Consensus pattern (19 bp):
TTTCAATCTCATATCTCAA
Found at i:115429876 original size:39 final size:38
Alignment explanation
Indices: 115429809--115429943 Score: 101
Period size: 39 Copynumber: 3.4 Consensus size: 38
115429799 ACCAATATGG
* * *
115429809 CACCCAGTGCCTCATCGGATAGTTCGAAGCAATATTTGA
1 CACCCAGTGCCTCATCGGCTAG-CCGAAGAAATATTTGA
* * * *
115429848 CACCCAGTGTCTCATCGGCCTAGCCGAAGTAA-AGTTGG
1 CACCCAGTGCCTCATCGG-CTAGCCGAAGAAATATTTGA
* * * * *
115429886 TACCCAGTACCTCATCGAATCTATCCGAAGAAATATAGTGA
1 CACCCAGTGCCTCATCG--GCTAGCCGAAGAAATAT-TTGA
*
115429927 CACCCAGTGTCTCATCG
1 CACCCAGTGCCTCATCG
115429944 ACTCGAGGTC
Statistics
Matches: 73, Mismatches: 18, Indels: 8
0.74 0.18 0.08
Matches are distributed among these distances:
38 18 0.25
39 35 0.48
40 4 0.05
41 16 0.22
ACGTcount: A:0.28, C:0.28, G:0.20, T:0.24
Consensus pattern (38 bp):
CACCCAGTGCCTCATCGGCTAGCCGAAGAAATATTTGA
Found at i:115430209 original size:18 final size:19
Alignment explanation
Indices: 115430183--115430221 Score: 62
Period size: 18 Copynumber: 2.1 Consensus size: 19
115430173 TTTCAATTCA
115430183 ATTCAAATAATCAATATAT
1 ATTCAAATAATCAATATAT
*
115430202 ATTC-AATATTCAATATAT
1 ATTCAAATAATCAATATAT
115430220 AT
1 AT
115430222 ATCTATATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 15 0.79
19 4 0.21
ACGTcount: A:0.49, C:0.10, G:0.00, T:0.41
Consensus pattern (19 bp):
ATTCAAATAATCAATATAT
Found at i:115431532 original size:5 final size:5
Alignment explanation
Indices: 115431522--115431568 Score: 85
Period size: 5 Copynumber: 9.4 Consensus size: 5
115431512 TTATGTTTAT
*
115431522 ATATA ATATA ATACA ATATA ATATA ATATA ATATA ATATA ATATA AT
1 ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA AT
115431569 TAAAACATAA
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
5 40 1.00
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (5 bp):
ATATA
Found at i:115437135 original size:12 final size:12
Alignment explanation
Indices: 115437114--115437148 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
115437104 TAGCTTTTCA
*
115437114 AAAATAGAAATG
1 AAAATGGAAATG
115437126 AAAATGGAAATG
1 AAAATGGAAATG
*
115437138 AAAATGAAAAT
1 AAAATGGAAAT
115437149 TTACAATCCT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.66, C:0.00, G:0.17, T:0.17
Consensus pattern (12 bp):
AAAATGGAAATG
Found at i:115441781 original size:26 final size:26
Alignment explanation
Indices: 115441749--115441815 Score: 75
Period size: 26 Copynumber: 2.6 Consensus size: 26
115441739 TTTTAACCCA
115441749 GTAAAATTTTGAAAATTTTACCCT-CG
1 GTAAAATTTTGAAAATTTTA-CCTACG
* * *
115441775 GTAAAATTTT-AACTATTTTATCTATG
1 GTAAAATTTTGAA-AATTTTACCTACG
115441801 GTAAAATTTTGAAAA
1 GTAAAATTTTGAAAA
115441816 AAATCATTCA
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
25 4 0.12
26 28 0.82
27 2 0.06
ACGTcount: A:0.39, C:0.09, G:0.10, T:0.42
Consensus pattern (26 bp):
GTAAAATTTTGAAAATTTTACCTACG
Found at i:115441977 original size:12 final size:12
Alignment explanation
Indices: 115441957--115441990 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
115441947 GTATTGCAAG
*
115441957 TTTCTATTTTCA
1 TTTCCATTTTCA
*
115441969 TTTCCATTTCCA
1 TTTCCATTTTCA
115441981 TTTCCATTTT
1 TTTCCATTTT
115441991 TGGAAACCTA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.15, C:0.24, G:0.00, T:0.62
Consensus pattern (12 bp):
TTTCCATTTTCA
Found at i:115451931 original size:31 final size:26
Alignment explanation
Indices: 115451865--115451916 Score: 95
Period size: 26 Copynumber: 2.0 Consensus size: 26
115451855 ACAAGTAAGT
*
115451865 TCATATAATTAGTATTTAAATTATAC
1 TCATATAATTAGTATTTAAATTAAAC
115451891 TCATATAATTAGTATTTAAATTAAAC
1 TCATATAATTAGTATTTAAATTAAAC
115451917 GAGTCAATAA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.44, C:0.08, G:0.04, T:0.44
Consensus pattern (26 bp):
TCATATAATTAGTATTTAAATTAAAC
Found at i:115453898 original size:37 final size:37
Alignment explanation
Indices: 115453818--115453890 Score: 119
Period size: 37 Copynumber: 2.0 Consensus size: 37
115453808 TAGTGCCGAG
** *
115453818 GCGTGTTATCGGTTGGATTAGCTCTTATGAGCGTTTA
1 GCGTGTTATCAATTGGATTAGCTCTCATGAGCGTTTA
115453855 GCGTGTTATCAATTGGATTAGCTCTCATGAGCGTTT
1 GCGTGTTATCAATTGGATTAGCTCTCATGAGCGTTT
115453891 GTTGTGTTTC
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 33 1.00
ACGTcount: A:0.18, C:0.15, G:0.27, T:0.40
Consensus pattern (37 bp):
GCGTGTTATCAATTGGATTAGCTCTCATGAGCGTTTA
Found at i:115458052 original size:75 final size:75
Alignment explanation
Indices: 115457968--115458116 Score: 280
Period size: 75 Copynumber: 2.0 Consensus size: 75
115457958 AAGGGTTAAA
*
115457968 CAATTTATTTTTCCCATTGACTTTATCATGCTTGACTTTGAGGAAGATCTTGAAATTCTTATACT
1 CAATTTATTTTTCCCATTGACTTTATCATGCTTGACTTTGAAGAAGATCTTGAAATTCTTATACT
115458033 CTTAGGGAGG
66 CTTAGGGAGG
*
115458043 CAATTTATTTTTTCCATTGACTTTATCATGCTTGACTTTGAAGAAGATCTTGAAATTCTTATACT
1 CAATTTATTTTTCCCATTGACTTTATCATGCTTGACTTTGAAGAAGATCTTGAAATTCTTATACT
115458108 CTTAGGGAG
66 CTTAGGGAG
115458117 ACATTTCTTG
Statistics
Matches: 72, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
75 72 1.00
ACGTcount: A:0.26, C:0.15, G:0.16, T:0.42
Consensus pattern (75 bp):
CAATTTATTTTTCCCATTGACTTTATCATGCTTGACTTTGAAGAAGATCTTGAAATTCTTATACT
CTTAGGGAGG
Found at i:115474558 original size:40 final size:40
Alignment explanation
Indices: 115474484--115474560 Score: 102
Period size: 40 Copynumber: 1.9 Consensus size: 40
115474474 ACTATGTTTG
* *
115474484 GCACTTAGTGTGCGTTTCGAGATAACTTCGGCTATATATA
1 GCACTTAGTGTGCGATTCGAGATAACTTCAGCTATATATA
* *
115474524 GCACTTAGTGTGCGAATTGGA-ATAGCTTCAGCTATAT
1 GCACTTAGTGTGCG-ATTCGAGATAACTTCAGCTATAT
115474561 GTGGAACTAA
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
40 28 0.88
41 4 0.12
ACGTcount: A:0.26, C:0.17, G:0.23, T:0.34
Consensus pattern (40 bp):
GCACTTAGTGTGCGATTCGAGATAACTTCAGCTATATATA
Found at i:115475315 original size:118 final size:118
Alignment explanation
Indices: 115475107--115475345 Score: 478
Period size: 118 Copynumber: 2.0 Consensus size: 118
115475097 TTGGTATGTC
115475107 TTGAATTATGATTATAGCCATGAGATTTTGCTTGTAATTGTTGGTACTTGGCCAATTAAGTTGGC
1 TTGAATTATGATTATAGCCATGAGATTTTGCTTGTAATTGTTGGTACTTGGCCAATTAAGTTGGC
115475172 TTGAATTACATGTTTTATAAATGATATATGTGATGTATATAATGTCCTAAGTG
66 TTGAATTACATGTTTTATAAATGATATATGTGATGTATATAATGTCCTAAGTG
115475225 TTGAATTATGATTATAGCCATGAGATTTTGCTTGTAATTGTTGGTACTTGGCCAATTAAGTTGGC
1 TTGAATTATGATTATAGCCATGAGATTTTGCTTGTAATTGTTGGTACTTGGCCAATTAAGTTGGC
115475290 TTGAATTACATGTTTTATAAATGATATATGTGATGTATATAATGTCCTAAGTG
66 TTGAATTACATGTTTTATAAATGATATATGTGATGTATATAATGTCCTAAGTG
115475343 TTG
1 TTG
115475346 GCTTGTTTGG
Statistics
Matches: 121, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
118 121 1.00
ACGTcount: A:0.28, C:0.08, G:0.21, T:0.43
Consensus pattern (118 bp):
TTGAATTATGATTATAGCCATGAGATTTTGCTTGTAATTGTTGGTACTTGGCCAATTAAGTTGGC
TTGAATTACATGTTTTATAAATGATATATGTGATGTATATAATGTCCTAAGTG
Found at i:115478684 original size:23 final size:22
Alignment explanation
Indices: 115478638--115478799 Score: 119
Period size: 23 Copynumber: 7.0 Consensus size: 22
115478628 TGAGCTAATG
*
115478638 AACAGTAAGCTCTATTAGCTGA
1 AACAGTAAGCTCTATGAGCTGA
*
115478660 AACTGTAAGCTCTATCGAGCTGA
1 AACAGTAAGCTCTAT-GAGCTGA
** *
115478683 AATTGTAAGCTCTATCTAGCTGA
1 AACAGTAAGCTCTAT-GAGCTGA
* *
115478706 AA-AGTAAACTCATATAAGCTGA
1 AACAGTAAGCTC-TATGAGCTGA
* *
115478728 AACGGTAAGCTCCAATGAGCTGAA
1 AACAGTAAGCT-CTATGAGCTG-A
* *
115478752 AACAGTAAGCTCATACGAGTTGA
1 AACAGTAAGCTC-TATGAGCTGA
*
115478775 TATATCGGTAAGCTCATATGAGCTG
1 -A-A-CAGTAAGCTC-TATGAGCTG
115478800 TGGTGAGTCC
Statistics
Matches: 113, Mismatches: 18, Indels: 14
0.78 0.12 0.10
Matches are distributed among these distances:
22 29 0.26
23 47 0.42
24 19 0.17
25 1 0.01
26 17 0.15
ACGTcount: A:0.36, C:0.18, G:0.20, T:0.26
Consensus pattern (22 bp):
AACAGTAAGCTCTATGAGCTGA
Found at i:115478726 original size:45 final size:45
Alignment explanation
Indices: 115478642--115478759 Score: 123
Period size: 45 Copynumber: 2.6 Consensus size: 45
115478632 CTAATGAACA
* * * **
115478642 GTAAGCTCTATTAGCTGAAACTGTAAGCTCTATCGAGCTGAAATT
1 GTAAGCTCTATTAGCTGAAACAGTAAACTCTATCAAGCTGAAACG
115478687 GTAAGCTCTATCTAGCTGAAA-AGTAAACTCATAT-AAGCTGAAACG
1 GTAAGCTCTAT-TAGCTGAAACAGTAAACTC-TATCAAGCTGAAACG
* *
115478732 GTAAGCTCCAATGAGCTGAAAACAGTAA
1 GTAAGCT-CTATTAGCTG-AAACAGTAA
115478760 GCTCATACGA
Statistics
Matches: 61, Mismatches: 7, Indels: 8
0.80 0.09 0.11
Matches are distributed among these distances:
45 38 0.62
46 18 0.30
47 5 0.08
ACGTcount: A:0.37, C:0.18, G:0.19, T:0.25
Consensus pattern (45 bp):
GTAAGCTCTATTAGCTGAAACAGTAAACTCTATCAAGCTGAAACG
Found at i:115500458 original size:14 final size:13
Alignment explanation
Indices: 115500438--115500491 Score: 56
Period size: 14 Copynumber: 4.1 Consensus size: 13
115500428 AATATTTGAC
115500438 TTGTTCTTAATTA
1 TTGTTCTTAATTA
*
115500451 TGTGTTCTTAATTC
1 T-TGTTCTTAATTA
*
115500465 TTGTT-TTAATTC
1 TTGTTCTTAATTA
*
115500477 TTGTTTTATAATTA
1 TTGTTCT-TAATTA
115500491 T
1 T
115500492 GAACTAAACC
Statistics
Matches: 36, Mismatches: 2, Indels: 5
0.84 0.05 0.12
Matches are distributed among these distances:
12 12 0.33
13 6 0.17
14 18 0.50
ACGTcount: A:0.20, C:0.07, G:0.09, T:0.63
Consensus pattern (13 bp):
TTGTTCTTAATTA
Found at i:115500484 original size:12 final size:13
Alignment explanation
Indices: 115500437--115500481 Score: 65
Period size: 12 Copynumber: 3.5 Consensus size: 13
115500427 AAATATTTGA
115500437 CTTGTTCTTAATT
1 CTTGTTCTTAATT
*
115500450 ATGTGTTCTTAATT
1 CT-TGTTCTTAATT
115500464 CTTGTT-TTAATT
1 CTTGTTCTTAATT
115500476 CTTGTT
1 CTTGTT
115500482 TTATAATTAT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
12 12 0.41
13 5 0.17
14 12 0.41
ACGTcount: A:0.16, C:0.11, G:0.11, T:0.62
Consensus pattern (13 bp):
CTTGTTCTTAATT
Found at i:115500508 original size:140 final size:140
Alignment explanation
Indices: 115500340--115500614 Score: 496
Period size: 140 Copynumber: 2.0 Consensus size: 140
115500330 AGATGTTTTC
* ** *
115500340 TTTTATAATTATGAACTAAACCCCCTAAATACCTAAGGGGAATGAAACCTAAGATGGATCTTGTT
1 TTTTATAATTATGAACTAAACCCCCTAAATAACTAAGGGGAATGAAACCTAAGACAGATCTTATT
115500405 ATTATTATCTGAATTGTATGATAAATATTTGACTTGTTCTTAATTATGTGTTCTTAATTCTTGTT
66 ATTATTATCTGAATTGTATGATAAATATTTGACTTGTTCTTAATTATGTGTTCTTAATTCTTGTT
115500470 TTAATTCTTG
131 TTAATTCTTG
*
115500480 TTTTATAATTATGAACTAAACCCCCTAAATAACTAATGGGAATGAAACCTAAGACAGATCTTATT
1 TTTTATAATTATGAACTAAACCCCCTAAATAACTAAGGGGAATGAAACCTAAGACAGATCTTATT
*
115500545 ATTATTATCTGAATTGTATGATAAATATTTGACTTGTTCTTAATTTTGTGTTCTTAATTCTTGTT
66 ATTATTATCTGAATTGTATGATAAATATTTGACTTGTTCTTAATTATGTGTTCTTAATTCTTGTT
115500610 TTAAT
131 TTAAT
115500615 ATTCCAGGAT
Statistics
Matches: 129, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
140 129 1.00
ACGTcount: A:0.32, C:0.12, G:0.12, T:0.44
Consensus pattern (140 bp):
TTTTATAATTATGAACTAAACCCCCTAAATAACTAAGGGGAATGAAACCTAAGACAGATCTTATT
ATTATTATCTGAATTGTATGATAAATATTTGACTTGTTCTTAATTATGTGTTCTTAATTCTTGTT
TTAATTCTTG
Found at i:115500598 original size:14 final size:15
Alignment explanation
Indices: 115500579--115500608 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
115500569 ATATTTGACT
115500579 TGTTCTTAATT-TTG
1 TGTTCTTAATTCTTG
115500593 TGTTCTTAATTCTTG
1 TGTTCTTAATTCTTG
115500608 T
1 T
115500609 TTTAATATTC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 11 0.73
15 4 0.27
ACGTcount: A:0.13, C:0.10, G:0.13, T:0.63
Consensus pattern (15 bp):
TGTTCTTAATTCTTG
Found at i:115502059 original size:20 final size:20
Alignment explanation
Indices: 115502029--115502076 Score: 62
Period size: 20 Copynumber: 2.4 Consensus size: 20
115502019 AGGGGCACCA
115502029 AAGTGCAATTAGGAGCA-TG
1 AAGTGCAATTAGGAGCACTG
* *
115502048 AATGTGCGATTAGGGGCACTG
1 AA-GTGCAATTAGGAGCACTG
115502069 AAGTGCAA
1 AAGTGCAA
115502077 ACAGGGGCAC
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
19 2 0.08
20 18 0.75
21 4 0.17
ACGTcount: A:0.33, C:0.12, G:0.33, T:0.21
Consensus pattern (20 bp):
AAGTGCAATTAGGAGCACTG
Found at i:115502082 original size:20 final size:20
Alignment explanation
Indices: 115502059--115502206 Score: 79
Period size: 20 Copynumber: 7.4 Consensus size: 20
115502049 ATGTGCGATT
115502059 AGGGGCACTGAAGTGCAAAC
1 AGGGGCACTGAAGTGCAAAC
*
115502079 AGGGGCAC-GTAAGTGCAATC
1 AGGGGCACTG-AAGTGCAAAC
* * ** *
115502099 AAGGGTACCAAAGTACAAAC
1 AGGGGCACTGAAGTGCAAAC
* *
115502119 AGGGGCAC-GTATGTGCAATC
1 AGGGGCACTG-AAGTGCAAAC
* ** *
115502139 AGGGGTACCAAAGTACAAAC
1 AGGGGCACTGAAGTGCAAAC
*
115502159 AGGGGCA-TGTACA-TGCAATC
1 AGGGGCACTG-A-AGTGCAAAC
* * *
115502179 AAGGGTACTGAAGTACAAAC
1 AGGGGCACTGAAGTGCAAAC
*
115502199 AGAGGCAC
1 AGGGGCAC
115502207 GTAAGTACAA
Statistics
Matches: 91, Mismatches: 29, Indels: 16
0.67 0.21 0.12
Matches are distributed among these distances:
19 2 0.02
20 86 0.95
21 3 0.03
ACGTcount: A:0.37, C:0.20, G:0.30, T:0.14
Consensus pattern (20 bp):
AGGGGCACTGAAGTGCAAAC
Found at i:115502129 original size:40 final size:40
Alignment explanation
Indices: 115502069--115502259 Score: 258
Period size: 40 Copynumber: 4.8 Consensus size: 40
115502059 AGGGGCACTG
*
115502069 AAGTGCAAACAGGGGCACGTAAGTGCAATCAAGGGTACCA
1 AAGTACAAACAGGGGCACGTAAGTGCAATCAAGGGTACCA
* *
115502109 AAGTACAAACAGGGGCACGTATGTGCAATCAGGGGTACCA
1 AAGTACAAACAGGGGCACGTAAGTGCAATCAAGGGTACCA
* **
115502149 AAGTACAAACAGGGGCATGTACA-TGCAATCAAGGGTACTG
1 AAGTACAAACAGGGGCACGTA-AGTGCAATCAAGGGTACCA
* * * *
115502189 AAGTACAAACAGAGGCACGTAAGTACAATCAAGAGTACCG
1 AAGTACAAACAGGGGCACGTAAGTGCAATCAAGGGTACCA
* *
115502229 AAGTACAAACTGGGGCATGTAAGTGCAATCA
1 AAGTACAAACAGGGGCACGTAAGTGCAATCA
115502260 TTTAATAATT
Statistics
Matches: 132, Mismatches: 17, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
39 1 0.01
40 131 0.99
ACGTcount: A:0.39, C:0.19, G:0.27, T:0.15
Consensus pattern (40 bp):
AAGTACAAACAGGGGCACGTAAGTGCAATCAAGGGTACCA
Found at i:115502232 original size:20 final size:20
Alignment explanation
Indices: 115502174--115502236 Score: 58
Period size: 20 Copynumber: 3.1 Consensus size: 20
115502164 CATGTACATG
* *
115502174 CAATCAAGGGTACTGAAGTA
1 CAATCAAGAGTACCGAAGTA
* *
115502194 CAAAC-AGAG-GCACGTAAGTA
1 CAATCAAGAGTAC-CG-AAGTA
115502214 CAATCAAGAGTACCGAAGTA
1 CAATCAAGAGTACCGAAGTA
115502234 CAA
1 CAA
115502237 ACTGGGGCAT
Statistics
Matches: 33, Mismatches: 6, Indels: 8
0.70 0.13 0.17
Matches are distributed among these distances:
18 1 0.03
19 4 0.12
20 21 0.64
21 6 0.18
22 1 0.03
ACGTcount: A:0.44, C:0.19, G:0.22, T:0.14
Consensus pattern (20 bp):
CAATCAAGAGTACCGAAGTA
Found at i:115502409 original size:19 final size:19
Alignment explanation
Indices: 115502385--115502422 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
115502375 AAATACAGGG
115502385 ATATTTTGGTAATTTTCCA
1 ATATTTTGGTAATTTTCCA
115502404 ATATTTTGGTAATTTTCCA
1 ATATTTTGGTAATTTTCCA
115502423 TTCTCCTCGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.26, C:0.11, G:0.11, T:0.53
Consensus pattern (19 bp):
ATATTTTGGTAATTTTCCA
Found at i:115503501 original size:14 final size:14
Alignment explanation
Indices: 115503484--115503530 Score: 51
Period size: 14 Copynumber: 3.1 Consensus size: 14
115503474 TCTTTATTAA
115503484 AATATATTTAATTT
1 AATATATTTAATTT
115503498 AATAT-TTTAAATTATT
1 AATATATTT-AA-T-TT
115503514 AATAATATTTAATTT
1 AAT-ATATTTAATTT
115503529 AA
1 AA
115503531 AAAATTCTAA
Statistics
Matches: 28, Mismatches: 0, Indels: 9
0.76 0.00 0.24
Matches are distributed among these distances:
13 3 0.11
14 7 0.25
15 5 0.18
16 6 0.21
17 4 0.14
18 3 0.11
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (14 bp):
AATATATTTAATTT
Found at i:115514210 original size:13 final size:13
Alignment explanation
Indices: 115514192--115514217 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
115514182 GGGATTTGTT
115514192 TTAACTAAACTAA
1 TTAACTAAACTAA
115514205 TTAACTAAACTAA
1 TTAACTAAACTAA
115514218 GAATGCACAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.54, C:0.15, G:0.00, T:0.31
Consensus pattern (13 bp):
TTAACTAAACTAA
Found at i:115517176 original size:14 final size:14
Alignment explanation
Indices: 115517159--115517199 Score: 52
Period size: 12 Copynumber: 3.1 Consensus size: 14
115517149 AAAGTAGTTT
115517159 TAAAAAGATAAAAG
1 TAAAAAGATAAAAG
115517173 TAAAAAGA-AAAA-
1 TAAAAAGATAAAAG
*
115517185 TAATAA-ATAAAAG
1 TAAAAAGATAAAAG
115517198 TA
1 TA
115517200 TTTAAATATC
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
11 1 0.04
12 9 0.38
13 6 0.25
14 8 0.33
ACGTcount: A:0.73, C:0.00, G:0.10, T:0.17
Consensus pattern (14 bp):
TAAAAAGATAAAAG
Found at i:115522627 original size:13 final size:13
Alignment explanation
Indices: 115522609--115522634 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
115522599 GGGATTTGTT
115522609 TTAACTAAACTAA
1 TTAACTAAACTAA
115522622 TTAACTAAACTAA
1 TTAACTAAACTAA
115522635 GAATGCACAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.54, C:0.15, G:0.00, T:0.31
Consensus pattern (13 bp):
TTAACTAAACTAA
Found at i:115523571 original size:61 final size:61
Alignment explanation
Indices: 115523482--115523609 Score: 159
Period size: 61 Copynumber: 2.1 Consensus size: 61
115523472 GTGCTTCAAA
* * * * *
115523482 CCGTGTTAGAGTCTGTTGAATAGACACGGCCGTGTGGTCTACCCGTGTAAGGAAGTCCAGG
1 CCGTGTAAGAGTCTGCTGAACAGACACGGCCGTGTGCTATACCCGTGTAAGGAAGTCCAGG
* * * *
115523543 CCGTGTAAGAGTCTGCT-AACAGTACACGGGCTTGTGCTATACCTGTGTAGGGAAGTCCAGG
1 CCGTGTAAGAGTCTGCTGAACAG-ACACGGCCGTGTGCTATACCCGTGTAAGGAAGTCCAGG
115523604 CCGTGT
1 CCGTGT
115523610 TGATTTCCCA
Statistics
Matches: 57, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
60 4 0.07
61 53 0.93
ACGTcount: A:0.21, C:0.22, G:0.32, T:0.25
Consensus pattern (61 bp):
CCGTGTAAGAGTCTGCTGAACAGACACGGCCGTGTGCTATACCCGTGTAAGGAAGTCCAGG
Found at i:115528439 original size:26 final size:26
Alignment explanation
Indices: 115528410--115528495 Score: 75
Period size: 26 Copynumber: 3.2 Consensus size: 26
115528400 TGTAAATTGA
115528410 ATGATAGGCATTGACATGGAAATATC
1 ATGATAGGCATTGACATGGAAATATC
* * * * *
115528436 ATGAGAATGAGCATGGTAAATGTAAAT-TGA
1 ATGA-TA-G-GCATTG-ACATGGAAATAT-C
115528466 ATGATAGGCATTGACATGGAAATATC
1 ATGATAGGCATTGACATGGAAATATC
115528492 ATGA
1 ATGA
115528496 GAATGAGCAT
Statistics
Matches: 44, Mismatches: 10, Indels: 12
0.67 0.15 0.18
Matches are distributed among these distances:
26 16 0.36
27 7 0.16
28 2 0.05
29 7 0.16
30 12 0.27
ACGTcount: A:0.41, C:0.08, G:0.24, T:0.27
Consensus pattern (26 bp):
ATGATAGGCATTGACATGGAAATATC
Found at i:115528483 original size:56 final size:56
Alignment explanation
Indices: 115528397--115528511 Score: 230
Period size: 56 Copynumber: 2.1 Consensus size: 56
115528387 CATAATTGAA
115528397 AAATGTAAATTGAATGATAGGCATTGACATGGAAATATCATGAGAATGAGCATGGT
1 AAATGTAAATTGAATGATAGGCATTGACATGGAAATATCATGAGAATGAGCATGGT
115528453 AAATGTAAATTGAATGATAGGCATTGACATGGAAATATCATGAGAATGAGCATGGT
1 AAATGTAAATTGAATGATAGGCATTGACATGGAAATATCATGAGAATGAGCATGGT
115528509 AAA
1 AAA
115528512 GTCATGGGTA
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
56 59 1.00
ACGTcount: A:0.43, C:0.07, G:0.24, T:0.26
Consensus pattern (56 bp):
AAATGTAAATTGAATGATAGGCATTGACATGGAAATATCATGAGAATGAGCATGGT
Found at i:115532090 original size:42 final size:42
Alignment explanation
Indices: 115531965--115532128 Score: 193
Period size: 42 Copynumber: 3.9 Consensus size: 42
115531955 TACCATACCA
* * * *
115531965 ATGCGATATCCCAGATATGGTCTTACATGTAATCTCGTATCG
1 ATGCCATATCCCAGATATGGTCTTACACGAAATCTCATATCG
* * *
115532007 ATGCCAATAGCCCAGCTACGGTCTTACACGAAATCTCATATCG
1 ATGCC-ATATCCCAGATATGGTCTTACACGAAATCTCATATCG
* * * * * *
115532050 ATGTCATATCTCAGATGTGGTCTTATACGAAGTCTTATATCG
1 ATGCCATATCCCAGATATGGTCTTACACGAAATCTCATATCG
*
115532092 ATGCCATATCCCAGATATGGTCTTACACGTAATCTCA
1 ATGCCATATCCCAGATATGGTCTTACACGAAATCTCA
115532129 ATAACCCTAA
Statistics
Matches: 98, Mismatches: 23, Indels: 2
0.80 0.19 0.02
Matches are distributed among these distances:
42 63 0.64
43 35 0.36
ACGTcount: A:0.28, C:0.24, G:0.17, T:0.31
Consensus pattern (42 bp):
ATGCCATATCCCAGATATGGTCTTACACGAAATCTCATATCG
Found at i:115542629 original size:38 final size:38
Alignment explanation
Indices: 115542578--115542667 Score: 180
Period size: 38 Copynumber: 2.4 Consensus size: 38
115542568 AACATAGACA
115542578 TGTATGTTCGGCCACATGAATGAGTATATGAGTTGATG
1 TGTATGTTCGGCCACATGAATGAGTATATGAGTTGATG
115542616 TGTATGTTCGGCCACATGAATGAGTATATGAGTTGATG
1 TGTATGTTCGGCCACATGAATGAGTATATGAGTTGATG
115542654 TGTATGTTCGGCCA
1 TGTATGTTCGGCCA
115542668 TAGGTAGCCT
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 52 1.00
ACGTcount: A:0.24, C:0.12, G:0.29, T:0.34
Consensus pattern (38 bp):
TGTATGTTCGGCCACATGAATGAGTATATGAGTTGATG
Found at i:115543416 original size:40 final size:40
Alignment explanation
Indices: 115543264--115543409 Score: 163
Period size: 40 Copynumber: 3.6 Consensus size: 40
115543254 TCGAATGATG
* * *
115543264 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * * *
115543304 TTCAGACTAAGAT-CCGAAGGTATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
115543344 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
115543385 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
115543410 AACGAGTAGC
Statistics
Matches: 88, Mismatches: 14, Indels: 8
0.80 0.13 0.07
Matches are distributed among these distances:
39 1 0.01
40 77 0.88
41 10 0.11
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.28
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:115543416 original size:80 final size:80
Alignment explanation
Indices: 115543264--115543432 Score: 175
Period size: 80 Copynumber: 2.1 Consensus size: 80
115543254 TCGAATGATG
* ** *
115543264 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACTATATTCAGACTAAGATCCGAAGGTATTT
1 TCCGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTGACTATAACCAGACTAAGATCCGAAGGCATTT
**
115543329 GTGCGAGTTA-CTAAA
66 GAACGAG-TAGCTAAA
* * * * *
115543344 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAACCGGGCTATG-TCCCGAAGGCAT
1 TCCGGGTTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATAACCAGACTAAGAT-CCGAAGGCAT
*
115543407 TTGAACGAGTAGCTATA
64 TTGAACGAGTAGCTAAA
115543424 TCC-GGTTAA
1 TCCGGGTTAA
115543433 ACTCCGAAGG
Statistics
Matches: 74, Mismatches: 12, Indels: 7
0.80 0.13 0.08
Matches are distributed among these distances:
79 9 0.12
80 58 0.78
81 7 0.09
ACGTcount: A:0.26, C:0.20, G:0.26, T:0.28
Consensus pattern (80 bp):
TCCGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTGACTATAACCAGACTAAGATCCGAAGGCATTT
GAACGAGTAGCTAAA
Found at i:115546876 original size:48 final size:47
Alignment explanation
Indices: 115546820--115546948 Score: 170
Period size: 47 Copynumber: 2.7 Consensus size: 47
115546810 GTGCGAATTA
* * * *
115546820 TACCTTGATTTGGGTTCGGGCCATGGCATAGGTATTTTAGAGATGAGT
1 TACCTTGATTTGGCTTCGGGCCATGGTATAGGTA-TCTAGAGATAAGT
* *
115546868 TACCTTGATTTGGCTAT-GGGCCATGGTATAAGTATCTAGGGATAAGT
1 TACCTTGATTTGGCT-TCGGGCCATGGTATAGGTATCTAGAGATAAGT
*
115546915 TACCTTGATTTGGCTTCGTGCCATGGTATAGGTA
1 TACCTTGATTTGGCTTCGGGCCATGGTATAGGTA
115546949 CTTATCGATT
Statistics
Matches: 71, Mismatches: 8, Indels: 5
0.85 0.10 0.06
Matches are distributed among these distances:
46 1 0.01
47 40 0.56
48 29 0.41
49 1 0.01
ACGTcount: A:0.22, C:0.14, G:0.29, T:0.36
Consensus pattern (47 bp):
TACCTTGATTTGGCTTCGGGCCATGGTATAGGTATCTAGAGATAAGT
Found at i:115548968 original size:41 final size:41
Alignment explanation
Indices: 115548912--115548992 Score: 117
Period size: 41 Copynumber: 2.0 Consensus size: 41
115548902 GCCAATGAAT
*
115548912 ATATATAGCCGAAGCTATCTCAACCTCGCACACTAAGTGCA
1 ATATATAACCGAAGCTATCTCAACCTCGCACACTAAGTGCA
* ** *
115548953 ATATATAACCGAAGCTATCTCGATTTCGTACACTAAGTGC
1 ATATATAACCGAAGCTATCTCAACCTCGCACACTAAGTGC
115548993 CCATAATTAG
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
41 35 1.00
ACGTcount: A:0.33, C:0.26, G:0.15, T:0.26
Consensus pattern (41 bp):
ATATATAACCGAAGCTATCTCAACCTCGCACACTAAGTGCA
Found at i:115553162 original size:21 final size:21
Alignment explanation
Indices: 115553136--115553178 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
115553126 TCAAGTCTAC
115553136 ATTTCGTTCATACATGATTGA
1 ATTTCGTTCATACATGATTGA
*
115553157 ATTTCGTTCATACGTGATTGA
1 ATTTCGTTCATACATGATTGA
115553178 A
1 A
115553179 ATGCACCTGA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.28, C:0.14, G:0.16, T:0.42
Consensus pattern (21 bp):
ATTTCGTTCATACATGATTGA
Found at i:115559005 original size:19 final size:18
Alignment explanation
Indices: 115558968--115559011 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 18
115558958 ATACATACAG
115558968 TAAT-ATTTTTCTAATAA
1 TAATAATTTTTCTAATAA
*
115558985 TAATAATTTTATCTCATAA
1 TAATAATTTT-TCTAATAA
*
115559004 TACTAATT
1 TAATAATT
115559012 AAAATTTCAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 4 0.17
18 5 0.22
19 14 0.61
ACGTcount: A:0.41, C:0.09, G:0.00, T:0.50
Consensus pattern (18 bp):
TAATAATTTTTCTAATAA
Found at i:115560816 original size:10 final size:10
Alignment explanation
Indices: 115560801--115560830 Score: 60
Period size: 10 Copynumber: 3.0 Consensus size: 10
115560791 AACCTTGGTG
115560801 ATAAAAATAA
1 ATAAAAATAA
115560811 ATAAAAATAA
1 ATAAAAATAA
115560821 ATAAAAATAA
1 ATAAAAATAA
115560831 CAAATCAAGA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (10 bp):
ATAAAAATAA
Found at i:115568083 original size:42 final size:42
Alignment explanation
Indices: 115568037--115568228 Score: 190
Period size: 41 Copynumber: 4.6 Consensus size: 42
115568027 ATGAGTTTAT
* * *
115568037 GTGTAAGACCATATCTGGGATATGGCATCGTTATGAGATTTT
1 GTGTAAGACCATATCTGGGATATGGCATCGATATGAGATATC
* * *
115568079 GTGTAAGACCATGTCTGGGACATGGCATCGATATTAGA-ATC
1 GTGTAAGACCATATCTGGGATATGGCATCGATATGAGATATC
* * * *
115568120 GTGTAAGACCATGTCTAGGACATGGCATCAATATGAGA-ATC
1 GTGTAAGACCATATCTGGGATATGGCATCGATATGAGATATC
* * * * * **
115568161 ATGTAAGACCATAGCTGGGCTATTGGCATTGATGTGAGATCCC
1 GTGTAAGACCATATCTGGGATA-TGGCATCGATATGAGATATC
* *
115568204 ATGTAAAACCATATCTGGGATATGG
1 GTGTAAGACCATATCTGGGATATGG
115568229 TATTGGTATG
Statistics
Matches: 125, Mismatches: 23, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
41 55 0.44
42 50 0.40
43 20 0.16
ACGTcount: A:0.30, C:0.16, G:0.26, T:0.29
Consensus pattern (42 bp):
GTGTAAGACCATATCTGGGATATGGCATCGATATGAGATATC
Found at i:115569506 original size:12 final size:12
Alignment explanation
Indices: 115569489--115569522 Score: 68
Period size: 12 Copynumber: 2.8 Consensus size: 12
115569479 TGTTTTTGTC
115569489 CACACGGGCAGA
1 CACACGGGCAGA
115569501 CACACGGGCAGA
1 CACACGGGCAGA
115569513 CACACGGGCA
1 CACACGGGCA
115569523 TGTGTCTAGG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.32, C:0.35, G:0.32, T:0.00
Consensus pattern (12 bp):
CACACGGGCAGA
Found at i:115580269 original size:21 final size:21
Alignment explanation
Indices: 115580232--115580271 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
115580222 TTACTCCAAG
*
115580232 GAAGCCGATTGATCCATCTCA
1 GAAGCCGATTCATCCATCTCA
115580253 GAAGCCGGATTCA-CCATCT
1 GAAGCC-GATTCATCCATCT
115580272 AGACTGAAGA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 12 0.71
22 5 0.29
ACGTcount: A:0.28, C:0.30, G:0.20, T:0.23
Consensus pattern (21 bp):
GAAGCCGATTCATCCATCTCA
Found at i:115591476 original size:27 final size:27
Alignment explanation
Indices: 115591445--115591513 Score: 104
Period size: 27 Copynumber: 2.6 Consensus size: 27
115591435 ATAGTGAGTC
115591445 CGCACACTTAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTAT-TAATCAAACT
* *
115591472 TGCACACTTAGTGCTATTGATCAAACT
1 CGCACACTTAGTGCTATTAATCAAACT
115591499 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
115591514 GTACAAGTTT
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
26 4 0.11
27 34 0.89
ACGTcount: A:0.29, C:0.26, G:0.14, T:0.30
Consensus pattern (27 bp):
CGCACACTTAGTGCTATTAATCAAACT
Found at i:115595861 original size:20 final size:20
Alignment explanation
Indices: 115595836--115595875 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
115595826 GTTGGGCCTT
115595836 GCCCATATT-AACACAGTTGG
1 GCCCAT-TTCAACACAGTTGG
*
115595856 GCCCATTTCAATACAGTTGG
1 GCCCATTTCAACACAGTTGG
115595876 ACCATAACAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 2 0.11
20 16 0.89
ACGTcount: A:0.28, C:0.25, G:0.20, T:0.28
Consensus pattern (20 bp):
GCCCATTTCAACACAGTTGG
Found at i:115596532 original size:8 final size:8
Alignment explanation
Indices: 115596516--115596547 Score: 55
Period size: 8 Copynumber: 4.0 Consensus size: 8
115596506 CTCGAAATGC
115596516 CGGCTTTT
1 CGGCTTTT
*
115596524 CGGCATTT
1 CGGCTTTT
115596532 CGGCTTTT
1 CGGCTTTT
115596540 CGGCTTTT
1 CGGCTTTT
115596548 GCCGATCTAG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
8 22 1.00
ACGTcount: A:0.03, C:0.25, G:0.25, T:0.47
Consensus pattern (8 bp):
CGGCTTTT
Found at i:115597353 original size:21 final size:20
Alignment explanation
Indices: 115597328--115597367 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
115597318 TGTTTCGGCT
115597328 AGAAAAGAAAAGAAGGAGAAA
1 AGAAAAGAAAAGAA-GAGAAA
* *
115597349 AGAAAATAGAAGAAGAGAA
1 AGAAAAGAAAAGAAGAGAA
115597368 GGAAAAATTA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.70, C:0.00, G:0.28, T:0.03
Consensus pattern (20 bp):
AGAAAAGAAAAGAAGAGAAA
Found at i:115600022 original size:40 final size:40
Alignment explanation
Indices: 115599893--115600023 Score: 147
Period size: 40 Copynumber: 3.3 Consensus size: 40
115599883 TATGCTGGAA
* * *
115599893 ATTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTG
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTG
** * * *
115599933 GCTATATCCGGGCTAAGGCCCGAAGGCATTCGTGCGAGTT
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTG
* *
115599973 ATTCTATCCGGGCTAAGACCCAAAGGCATTTGTGC-ACGTG
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-GTG
*
115600013 ATTAAATCCGG
1 ATTATATCCGG
115600024 TTATATTCCG
Statistics
Matches: 73, Mismatches: 17, Indels: 2
0.79 0.18 0.02
Matches are distributed among these distances:
39 1 0.01
40 72 0.99
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTG
Found at i:115601659 original size:3 final size:3
Alignment explanation
Indices: 115601645--115601698 Score: 74
Period size: 3 Copynumber: 18.0 Consensus size: 3
115601635 TTCTTAGATT
* *
115601645 TTA TTAA TTA TTA TTG TTG TTA TTA TTA TTA TTA TT- TTA TTA TTA
1 TTA TT-A TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
115601690 TTA TTA TTA
1 TTA TTA TTA
115601699 GATTTAAAAT
Statistics
Matches: 47, Mismatches: 2, Indels: 4
0.89 0.04 0.08
Matches are distributed among these distances:
2 2 0.04
3 42 0.89
4 3 0.06
ACGTcount: A:0.30, C:0.00, G:0.04, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:115603151 original size:27 final size:27
Alignment explanation
Indices: 115603100--115603194 Score: 86
Period size: 27 Copynumber: 3.4 Consensus size: 27
115603090 ATGCCTTATT
*
115603100 GGTGTGTTTGGGAGGATATGA-TATACC
1 GGTGTGTTTGGGAGGTTAT-ATTATACC
*
115603127 GGTGTGTTTGGGAGGTTATATTATACT
1 GGTGTGTTTGGGAGGTTATATTATACC
* * *
115603154 AGTGTGTTAT-GGAGGATTTATATTATTTCG
1 GGTGTGTT-TGGGAGG--TTATATTA-TACC
115603184 GGTGTGTTTGG
1 GGTGTGTTTGG
115603195 ATTGGATATT
Statistics
Matches: 56, Mismatches: 6, Indels: 9
0.79 0.08 0.13
Matches are distributed among these distances:
26 1 0.02
27 35 0.62
28 1 0.02
29 9 0.16
30 10 0.18
ACGTcount: A:0.19, C:0.04, G:0.35, T:0.42
Consensus pattern (27 bp):
GGTGTGTTTGGGAGGTTATATTATACC
Found at i:115611348 original size:71 final size:72
Alignment explanation
Indices: 115611232--115611378 Score: 260
Period size: 71 Copynumber: 2.0 Consensus size: 72
115611222 ATAGTGGGGG
115611232 TTTATATAGATATGAGGGCACACGGCCGTAGGGCATGCCCAAGTGCCCTTATTTTAGCCCGTGTG
1 TTTATATAGATATGAGGGCACACGGCCGTAGGGCATGCCCAAGTGCCCTTATTTTAGCCCGTGTG
115611297 -CGTGAT
66 TCGTGAT
* *
115611303 TTTATATAGATATGAGGGCACACGGCCGTAGGGCATGCTCGAGTGCCCTTATTTTAGCCCGTGTG
1 TTTATATAGATATGAGGGCACACGGCCGTAGGGCATGCCCAAGTGCCCTTATTTTAGCCCGTGTG
115611368 TTCGTGAT
66 -TCGTGAT
115611376 TTT
1 TTT
115611379 CAAATTTGGG
Statistics
Matches: 72, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
71 63 0.88
73 9 0.12
ACGTcount: A:0.20, C:0.21, G:0.28, T:0.31
Consensus pattern (72 bp):
TTTATATAGATATGAGGGCACACGGCCGTAGGGCATGCCCAAGTGCCCTTATTTTAGCCCGTGTG
TCGTGAT
Found at i:115613001 original size:28 final size:28
Alignment explanation
Indices: 115612936--115613036 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
115612926 ATAGTGAATC
*
115612936 CGCACACTTAGTGCTATATGTATTC-AACT
1 CGCACACTTAGTGCTATA--TAATCAAACT
115612965 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
115612993 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAA--TCAAACT
115613023 CGCACACTTAGTGC
1 CGCACACTTAGTGC
115613037 CAATCTTGTC
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 4 0.06
28 23 0.36
29 18 0.28
30 19 0.30
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.30
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:115620956 original size:28 final size:28
Alignment explanation
Indices: 115620891--115620991 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
115620881 ATAGTGAATC
*
115620891 CGCACACTTAGTGCTATATGTATTC-AACT
1 CGCACACTTAGTGCTATA--TAATCAAACT
115620920 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
115620948 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAA--TCAAACT
115620978 CGCACACTTAGTGC
1 CGCACACTTAGTGC
115620992 CAATCTTGTC
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 4 0.06
28 23 0.36
29 18 0.28
30 19 0.30
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.30
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:115626669 original size:16 final size:16
Alignment explanation
Indices: 115626633--115626663 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
115626623 CGGCAAAAAC
115626633 CGAAATGCCGAAAAGT
1 CGAAATGCCGAAAAGT
*
115626649 CGAAATGCTGAAAAG
1 CGAAATGCCGAAAAG
115626664 CTGAAAGTTT
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:0.45, C:0.16, G:0.26, T:0.13
Consensus pattern (16 bp):
CGAAATGCCGAAAAGT
Found at i:115626922 original size:29 final size:29
Alignment explanation
Indices: 115626880--115627004 Score: 162
Period size: 29 Copynumber: 4.3 Consensus size: 29
115626870 GAAAGCATGT
115626880 ATATGAATGTGATTTGGGCCTAATGGGCC
1 ATATGAATGTGATTTGGGCCTAATGGGCC
*
115626909 ATATGAATGTGATTTGGGCCCAATGGGCC
1 ATATGAATGTGATTTGGGCCTAATGGGCC
* * * *
115626938 ATACGAATGTGATTTAGGCCAAATGGGCA
1 ATATGAATGTGATTTGGGCCTAATGGGCC
** *
115626967 ATATGAATAAGA-TTGGGCCTAGTGGGCC
1 ATATGAATGTGATTTGGGCCTAATGGGCC
*
115626995 ATATGCATGT
1 ATATGAATGT
115627005 ATGTAGACTT
Statistics
Matches: 81, Mismatches: 15, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
28 19 0.23
29 62 0.77
ACGTcount: A:0.28, C:0.14, G:0.30, T:0.28
Consensus pattern (29 bp):
ATATGAATGTGATTTGGGCCTAATGGGCC
Found at i:115628775 original size:40 final size:40
Alignment explanation
Indices: 115628693--115628916 Score: 292
Period size: 40 Copynumber: 5.5 Consensus size: 40
115628683 ACCCAAGTAT
* *
115628693 CTTCGGGATTTAG-CCGGATATAG-CAACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATGC
* ** *
115628732 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCATGAATAC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
115628772 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
* *
115628812 CTTCAGGACTTAGCCCGGGTATAG-CAACTACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTC-ACTA---GCACAAATGC
* *
115628855 CTTCGGGACTTAGCCCGGATATAGTAACTTGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
115628895 CTTCGGGACTTAGCCCGGATAT
1 CTTCGGGACTTAGCCCGGATAT
115628917 CATCCGAATA
Statistics
Matches: 162, Mismatches: 16, Indels: 13
0.85 0.08 0.07
Matches are distributed among these distances:
39 12 0.07
40 114 0.70
41 1 0.01
43 35 0.22
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.24
Consensus pattern (40 bp):
CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
Found at i:115628889 original size:83 final size:80
Alignment explanation
Indices: 115628693--115628916 Score: 299
Period size: 83 Copynumber: 2.8 Consensus size: 80
115628683 ACCCAAGTAT
* * * *
115628693 CTTCGGGATTTAG-CCGGATATAGCAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATATAGT
1 CTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGT
**
115628757 CACTAGCATGAATAC
66 CACTAGCACAAATAC
* * *
115628772 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGCCTTCAGGACTTAGCCCGGGTATAG-
1 CTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGT
*
115628836 CAACTACTCGCACAAATGC
66 C-ACTA---GCACAAATAC
*
115628855 CTTCGGGACTTAGCCCGGATATAGTAACTTGCACAAATGCCTTCGGGACTTAGCCCGGATAT
1 CTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATAT
115628917 CATCCGAATA
Statistics
Matches: 126, Mismatches: 14, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
79 13 0.10
80 48 0.38
83 65 0.52
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.24
Consensus pattern (80 bp):
CTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGT
CACTAGCACAAATAC
Found at i:115630264 original size:22 final size:23
Alignment explanation
Indices: 115630232--115630277 Score: 60
Period size: 22 Copynumber: 2.0 Consensus size: 23
115630222 ATCACCCCTC
115630232 CCTTTTCATTTCT-TTATTACTAA
1 CCTTTTCATTT-TATTATTACTAA
*
115630255 CCTTTT-ATTTTATTATTTCTAA
1 CCTTTTCATTTTATTATTACTAA
115630277 C
1 C
115630278 ATAAAACATT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
21 1 0.05
22 14 0.67
23 6 0.29
ACGTcount: A:0.22, C:0.20, G:0.00, T:0.59
Consensus pattern (23 bp):
CCTTTTCATTTTATTATTACTAA
Found at i:115632027 original size:21 final size:21
Alignment explanation
Indices: 115632003--115632042 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
115631993 CCAGTCCCAT
115632003 GCAT-CAGATAATAATAACATG
1 GCATGCAGA-AATAATAACATG
*
115632024 GCATGCAGAAATAGTAACA
1 GCATGCAGAAATAATAACA
115632043 GTCAAAAATG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 13 0.76
22 4 0.24
ACGTcount: A:0.47, C:0.15, G:0.17, T:0.20
Consensus pattern (21 bp):
GCATGCAGAAATAATAACATG
Found at i:115632124 original size:65 final size:64
Alignment explanation
Indices: 115632005--115632134 Score: 242
Period size: 65 Copynumber: 2.0 Consensus size: 64
115631995 AGTCCCATGC
115632005 ATCAGATAATAATAACATGGCATGCAGAAATAGTAACAGTCAAAAATGCATTCAGGTCAACCTT
1 ATCAGATAATAATAACATGGCATGCAGAAATAGTAACAGTCAAAAATGCATTCAGGTCAACCTT
*
115632069 ATCAGATAATAATAACATGGCATGCAGTAAATAGTAACAGTCAAACATGCATTCAGGTCAACCTT
1 ATCAGATAATAATAACATGGCATGCAG-AAATAGTAACAGTCAAAAATGCATTCAGGTCAACCTT
115632134 A
1 A
115632135 ACCCTAGGGG
Statistics
Matches: 64, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
64 27 0.42
65 37 0.58
ACGTcount: A:0.43, C:0.18, G:0.15, T:0.24
Consensus pattern (64 bp):
ATCAGATAATAATAACATGGCATGCAGAAATAGTAACAGTCAAAAATGCATTCAGGTCAACCTT
Found at i:115632193 original size:27 final size:26
Alignment explanation
Indices: 115632137--115632193 Score: 60
Period size: 26 Copynumber: 2.2 Consensus size: 26
115632127 CAACCTTAAC
* * * *
115632137 CCTAGGGGTATATCAGTAATTTTGCT
1 CCTAGAGGTAAATCAGTAATTTTCCA
*
115632163 CCTAGAGGTAAATCTGTAAATTTTCCA
1 CCTAGAGGTAAATCAGT-AATTTTCCA
115632190 CCTA
1 CCTA
115632194 TAAAGGTATT
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
26 14 0.56
27 11 0.44
ACGTcount: A:0.28, C:0.19, G:0.18, T:0.35
Consensus pattern (26 bp):
CCTAGAGGTAAATCAGTAATTTTCCA
Done.