Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008375.1 Hibiscus syriacus cultivar Beakdansim tig00111132_pilon, whole genome shotgun sequence
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: 1210889
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 2 of 7
Found at i:195194 original size:100 final size:100
Alignment explanation
Indices: 195021--195465 Score: 639
Period size: 100 Copynumber: 4.5 Consensus size: 100
195011 CATGTACTTT
** * *
195021 AAGAAAACACAATCCATGT-AAATTGAATTGC-AACCATTGATAAAGAAATGAATCTTTCGATCT
1 AAGAAAACACAATCCATGTGAAA-ACAATT-CTACCCATTGATAAAGAAAGGAATCTTTCGATCT
* *
195084 CAGCCATACATTCATAATCCATATGAATTGTGCTTAC
64 CAGCCATACATTCACAATCCATATGAATTGTGCTTGC
* * * *
195121 AAGAAAACACAATCCATGTGAAAACAATTCTAACAATTGATAAAGAAAGGAATATTTTGATCTCA
1 AAGAAAACACAATCCATGTGAAAACAATTCTACCCATTGATAAAGAAAGGAATCTTTCGATCTCA
*
195186 GCCATACATTCACAATCCATGA-GAATTGTTCTTGC
66 GCCATACATTCACAATCCAT-ATGAATTGTGCTTGC
*
195221 AAGAAAACACAATCCATGTGAAAACAATTCTACCCATTGATTAAGAAAGGAATCTTTCGATCTCA
1 AAGAAAACACAATCCATGTGAAAACAATTCTACCCATTGATAAAGAAAGGAATCTTTCGATCTCA
* *
195286 GCCATACATTCACAATCCATGTGAATTGTGCTTGT
66 GCCATACATTCACAATCCATATGAATTGTGCTTGC
* * * *
195321 AAGAAAACACAATCTATGTGAAAATAATTCTACCCATTGAT-TA-AAATGAATCTTTCGATCTCA
1 AAGAAAACACAATCCATGTGAAAACAATTCTACCCATTGATAAAGAAAGGAATCTTTCGATCTCA
*
195384 GCCATACATTCACAATCCATGTGAATTGTGCTTGC
66 GCCATACATTCACAATCCATATGAATTGTGCTTGC
* *
195419 AAGAAAACACAATCCATGTGAAAACAATTCTACCTATTGATTAAGAA
1 AAGAAAACACAATCCATGTGAAAACAATTCTACCCATTGATAAAGAA
195466 TTGACTCTTT
Statistics
Matches: 313, Mismatches: 26, Indels: 12
0.89 0.07 0.03
Matches are distributed among these distances:
98 91 0.29
99 3 0.01
100 215 0.69
101 4 0.01
ACGTcount: A:0.40, C:0.19, G:0.13, T:0.28
Consensus pattern (100 bp):
AAGAAAACACAATCCATGTGAAAACAATTCTACCCATTGATAAAGAAAGGAATCTTTCGATCTCA
GCCATACATTCACAATCCATATGAATTGTGCTTGC
Found at i:197902 original size:12 final size:12
Alignment explanation
Indices: 197885--197910 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
197875 CTAAGATTCA
197885 ATTGGAATTTAC
1 ATTGGAATTTAC
197897 ATTGGAATTTAC
1 ATTGGAATTTAC
197909 AT
1 AT
197911 ATTGCCTACC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.35, C:0.08, G:0.15, T:0.42
Consensus pattern (12 bp):
ATTGGAATTTAC
Found at i:206333 original size:35 final size:35
Alignment explanation
Indices: 206287--206361 Score: 141
Period size: 35 Copynumber: 2.1 Consensus size: 35
206277 TTCATATTCA
*
206287 AAATTCCAAAATAGTTTAATTACATTCTAAACCCT
1 AAATTCCAAAATAATTTAATTACATTCTAAACCCT
206322 AAATTCCAAAATAATTTAATTACATTCTAAACCCT
1 AAATTCCAAAATAATTTAATTACATTCTAAACCCT
206357 AAATT
1 AAATT
206362 GAAGTATTTT
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
35 39 1.00
ACGTcount: A:0.45, C:0.19, G:0.01, T:0.35
Consensus pattern (35 bp):
AAATTCCAAAATAATTTAATTACATTCTAAACCCT
Found at i:206404 original size:34 final size:35
Alignment explanation
Indices: 206357--206432 Score: 118
Period size: 34 Copynumber: 2.2 Consensus size: 35
206347 TCTAAACCCT
206357 AAATTGAAGTATTTTGGAATTTAGGGTTTAAAATG
1 AAATTGAAGTATTTTGGAATTTAGGGTTTAAAATG
* * *
206392 -AATTGAATTATTTTGGAATTTTGGGTTTAGAATG
1 AAATTGAAGTATTTTGGAATTTAGGGTTTAAAATG
206426 AAATTGA
1 AAATTGA
206433 GGAATGTGTT
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
34 31 0.84
35 6 0.16
ACGTcount: A:0.36, C:0.00, G:0.22, T:0.42
Consensus pattern (35 bp):
AAATTGAAGTATTTTGGAATTTAGGGTTTAAAATG
Found at i:207201 original size:88 final size:87
Alignment explanation
Indices: 207098--207263 Score: 278
Period size: 88 Copynumber: 1.9 Consensus size: 87
207088 ATTTTAAGAA
* *
207098 CTAAAATTATAATTATATTATTACAAATAACTCATCATATTTGTAGAAATTTAAGATAAATATTT
1 CTAAAATTATAATTATATTATTACAAATAACTCATCATATTTATAGAAATTTAAGATAAA-ATTG
*
207163 TTAGTAATAACTTTCAATTTGTT
65 ATAGTAATAACTTTCAATTTGTT
* *
207186 CTAAAATTATGATTATATTATTACAAATAACTCATCATATTTATAGAAATTTAATATAAAATTGA
1 CTAAAATTATAATTATATTATTACAAATAACTCATCATATTTATAGAAATTTAAGATAAAATTGA
207251 TAGTAATAACTTT
66 TAGTAATAACTTT
207264 TAATCTGTAA
Statistics
Matches: 73, Mismatches: 5, Indels: 1
0.92 0.06 0.01
Matches are distributed among these distances:
87 16 0.22
88 57 0.78
ACGTcount: A:0.44, C:0.08, G:0.05, T:0.43
Consensus pattern (87 bp):
CTAAAATTATAATTATATTATTACAAATAACTCATCATATTTATAGAAATTTAAGATAAAATTGA
TAGTAATAACTTTCAATTTGTT
Found at i:207630 original size:15 final size:16
Alignment explanation
Indices: 207603--207633 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
207593 TATTTTGATA
207603 TTCAAATATTATATTT
1 TTCAAATATTATATTT
207619 TTCAAA-ATTATATTT
1 TTCAAATATTATATTT
207634 AATGTTTAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 9 0.60
16 6 0.40
ACGTcount: A:0.39, C:0.06, G:0.00, T:0.55
Consensus pattern (16 bp):
TTCAAATATTATATTT
Found at i:208552 original size:29 final size:30
Alignment explanation
Indices: 208488--208545 Score: 82
Period size: 30 Copynumber: 2.0 Consensus size: 30
208478 AAAACGGTCA
**
208488 AGTGAGCAAAATGATTTAATTGTAAAGTTC
1 AGTGAGCAAAATGATCAAATTGTAAAGTTC
*
208518 AGTGAGCAAATTGATCAAATTG-AAAGTT
1 AGTGAGCAAAATGATCAAATTGTAAAGTT
208546 GGGTGAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
29 6 0.24
30 19 0.76
ACGTcount: A:0.41, C:0.07, G:0.21, T:0.31
Consensus pattern (30 bp):
AGTGAGCAAAATGATCAAATTGTAAAGTTC
Found at i:215097 original size:6 final size:6
Alignment explanation
Indices: 215050--215107 Score: 80
Period size: 6 Copynumber: 9.7 Consensus size: 6
215040 CTCTCTTTGA
* * *
215050 CAACAA CAACAG CAACAA CAACAG CAACAG AAACAG CAACAG CAACAG
1 CAACAG CAACAG CAACAG CAACAG CAACAG CAACAG CAACAG CAACAG
*
215098 AAACAG CAAC
1 CAACAG CAAC
215108 GAAGACTATG
Statistics
Matches: 45, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
6 45 1.00
ACGTcount: A:0.57, C:0.31, G:0.12, T:0.00
Consensus pattern (6 bp):
CAACAG
Found at i:221312 original size:15 final size:16
Alignment explanation
Indices: 221282--221314 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
221272 ATTTTTCTTA
*
221282 ATAAAATATGTTATTT
1 ATAAAATATATTATTT
221298 ATAAAA-ATATTATTT
1 ATAAAATATATTATTT
221313 AT
1 AT
221315 GAGTTACCTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 10 0.62
16 6 0.38
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (16 bp):
ATAAAATATATTATTT
Found at i:221762 original size:16 final size:18
Alignment explanation
Indices: 221741--221786 Score: 69
Period size: 19 Copynumber: 2.6 Consensus size: 18
221731 TATAATTGCT
221741 TAATTTTATTT-AAAA-A
1 TAATTTTATTTAAAAATA
221757 TAATTTTATTCTAAAAATA
1 TAATTTTATT-TAAAAATA
221776 TAATTTTATTT
1 TAATTTTATTT
221787 TATTTAAATA
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
16 10 0.37
17 1 0.04
18 5 0.19
19 11 0.41
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.54
Consensus pattern (18 bp):
TAATTTTATTTAAAAATA
Found at i:221794 original size:40 final size:43
Alignment explanation
Indices: 221719--221806 Score: 128
Period size: 40 Copynumber: 2.1 Consensus size: 43
221709 TATACATATA
221719 TATTCTAAAAAATATAATTGCTTAATTTTATTTAAAAATAATTT
1 TATTCTAAAAAATATAATT-CTTAATTTTATTTAAAAATAATTT
* *
221763 TATTCT-AAAAATATAATT-TT-ATTTTATTTAAATATGATTT
1 TATTCTAAAAAATATAATTCTTAATTTTATTTAAAAATAATTT
221803 TATT
1 TATT
221807 TTATTTTATT
Statistics
Matches: 42, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
40 22 0.52
41 2 0.05
43 12 0.29
44 6 0.14
ACGTcount: A:0.42, C:0.03, G:0.02, T:0.52
Consensus pattern (43 bp):
TATTCTAAAAAATATAATTCTTAATTTTATTTAAAAATAATTT
Found at i:221811 original size:26 final size:26
Alignment explanation
Indices: 221778--221831 Score: 99
Period size: 26 Copynumber: 2.1 Consensus size: 26
221768 TAAAAATATA
*
221778 ATTTTATTTTATTTAAATATGATTTT
1 ATTTTATTTTATTTAAATATAATTTT
221804 ATTTTATTTTATTTAAATATAATTTT
1 ATTTTATTTTATTTAAATATAATTTT
221830 AT
1 AT
221832 CTAAAATATA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (26 bp):
ATTTTATTTTATTTAAATATAATTTT
Found at i:221830 original size:16 final size:16
Alignment explanation
Indices: 221741--221844 Score: 68
Period size: 16 Copynumber: 6.3 Consensus size: 16
221731 TATAATTGCT
*
221741 TAATTTTATTTAAAAA
1 TAATTTTATTTAAATA
221757 TAATTTTATTCTAAAAATA
1 TAATTTTATT-T--AAATA
* *
221776 TAATTTTATTT-TATT
1 TAATTTTATTTAAATA
* * * *
221791 TAAATATGATTT-TATT
1 T-AATTTTATTTAAATA
*
221807 TTATTTTATTTAAATA
1 TAATTTTATTTAAATA
*
221823 TAATTTTATCTAAAATA
1 TAATTTTAT-TTAAATA
221840 TAATT
1 TAATT
221845 AAACTTAAAA
Statistics
Matches: 70, Mismatches: 12, Indels: 11
0.75 0.13 0.12
Matches are distributed among these distances:
15 10 0.14
16 33 0.47
17 12 0.17
18 1 0.01
19 14 0.20
ACGTcount: A:0.41, C:0.02, G:0.01, T:0.56
Consensus pattern (16 bp):
TAATTTTATTTAAATA
Found at i:221840 original size:17 final size:16
Alignment explanation
Indices: 221809--221844 Score: 54
Period size: 17 Copynumber: 2.2 Consensus size: 16
221799 ATTTTATTTT
*
221809 ATTTTATTTAAATATA
1 ATTTTATTAAAATATA
221825 ATTTTATCTAAAATATA
1 ATTTTAT-TAAAATATA
221842 ATT
1 ATT
221845 AAACTTAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 7 0.39
17 11 0.61
ACGTcount: A:0.44, C:0.03, G:0.00, T:0.53
Consensus pattern (16 bp):
ATTTTATTAAAATATA
Found at i:223104 original size:14 final size:14
Alignment explanation
Indices: 223085--223126 Score: 66
Period size: 14 Copynumber: 3.0 Consensus size: 14
223075 AACAGACTTG
223085 TCTGTTTTCTACAT
1 TCTGTTTTCTACAT
* *
223099 TCTGTTTTATACAG
1 TCTGTTTTCTACAT
223113 TCTGTTTTCTACAT
1 TCTGTTTTCTACAT
223127 GGTATCAGGT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
14 24 1.00
ACGTcount: A:0.17, C:0.19, G:0.10, T:0.55
Consensus pattern (14 bp):
TCTGTTTTCTACAT
Found at i:227278 original size:160 final size:159
Alignment explanation
Indices: 227011--227329 Score: 613
Period size: 160 Copynumber: 2.0 Consensus size: 159
227001 CCCAGGAGCT
227011 GGACTTATATTTAGAAAAATCAAGACAGAACAATGAAGGTTTATATGGATGCAAGCTGGGAGGTG
1 GGACTTATATTTAGAAAAATCAAGACAGAACAATGAAGGTTTATATGGATGCAAGCTGGGAGGTG
227076 AATTAACTGATAGAAGGTCGGTTAGTGGCTACTGTACCTACGTTTGGGGTAATTTGGTGACTTGG
66 AATTAACTGATAGAAGGTCGGTTAGTGGCTACTGTACCTACGTTTGGGGTAATTTGGTGACTTGG
227141 AGAAGTAA-AAACAAGCCGTTGTCTCTTG
131 AGAAGTAAGAAACAAGCCGTTGTCTCTTG
227169 GGACTTATATTTAGAAAAAATCAAGACAGAACAATGAAGGTTTATATGGATGCAAGCTGGGGAGG
1 GGACTTATATTTAG-AAAAATCAAGACAGAACAATGAAGGTTTATATGGATGCAAGCT-GGGAGG
227234 TGAATTAACTGATAGAAGGTCGGTTAGTGGCTACTGTACCTACGTTTGGGGTAATTTGGTGACTT
64 TGAATTAACTGATAGAAGGTCGGTTAGTGGCTACTGTACCTACGTTTGGGGTAATTTGGTGACTT
227299 GGAGAAGTAAGAAACAAGCCGTTGTCTCTTG
129 GGAGAAGTAAGAAACAAGCCGTTGTCTCTTG
227330 AAGTAGTGCT
Statistics
Matches: 158, Mismatches: 0, Indels: 3
0.98 0.00 0.02
Matches are distributed among these distances:
158 14 0.09
159 43 0.27
160 81 0.51
161 20 0.13
ACGTcount: A:0.32, C:0.12, G:0.28, T:0.28
Consensus pattern (159 bp):
GGACTTATATTTAGAAAAATCAAGACAGAACAATGAAGGTTTATATGGATGCAAGCTGGGAGGTG
AATTAACTGATAGAAGGTCGGTTAGTGGCTACTGTACCTACGTTTGGGGTAATTTGGTGACTTGG
AGAAGTAAGAAACAAGCCGTTGTCTCTTG
Found at i:232789 original size:20 final size:20
Alignment explanation
Indices: 232764--232802 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
232754 GAGCTGAGCT
232764 GCTGCAGCTGAGCTGCCAGA
1 GCTGCAGCTGAGCTGCCAGA
232784 GCTGCAGCTGAGCTGCCAG
1 GCTGCAGCTGAGCTGCCAG
232803 CTTCACCATT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.18, C:0.31, G:0.36, T:0.15
Consensus pattern (20 bp):
GCTGCAGCTGAGCTGCCAGA
Found at i:234028 original size:19 final size:20
Alignment explanation
Indices: 233944--234032 Score: 144
Period size: 20 Copynumber: 4.5 Consensus size: 20
233934 TCCTATTACT
233944 TGGTAATCTTTTATTTCCAC
1 TGGTAATCTTTTATTTCCAC
233964 TGGTAATCTTTTATTTCCAC
1 TGGTAATCTTTTATTTCCAC
* *
233984 CGGTAATCTTTTATTCCCAC
1 TGGTAATCTTTTATTTCCAC
234004 TGGTAATCTTTTA-TTCCAC
1 TGGTAATCTTTTATTTCCAC
*
234023 TAGTAATCTT
1 TGGTAATCTT
234033 ACCTCCGTGA
Statistics
Matches: 64, Mismatches: 5, Indels: 1
0.91 0.07 0.01
Matches are distributed among these distances:
19 14 0.22
20 50 0.78
ACGTcount: A:0.21, C:0.21, G:0.10, T:0.47
Consensus pattern (20 bp):
TGGTAATCTTTTATTTCCAC
Found at i:236689 original size:2 final size:2
Alignment explanation
Indices: 236677--236708 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
236667 TTTTACTTGT
236677 TA TA TA T- TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
236709 CACAAGGATA
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 28 0.97
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:238648 original size:157 final size:157
Alignment explanation
Indices: 237738--239439 Score: 3044
Period size: 157 Copynumber: 11.0 Consensus size: 157
237728 AGAGTAATGC
237738 TATACTCCAATAATATTACTCTCAAATATAATCTTACATTATGTGAATCAAATATTCCTGCACTC
1 TATACTCCAATAATATTACTCTCAAATATAATCTTACATTATGTGAATCAAATATTCCTGCACTC
237803 TAAGAAGAGTTTATACGAGTAAGAAGAAGAATCTTTGACAAATCAATCAGTGCTTGTTACTTTCT
66 TAAGAAGAGTTTATACGAGTAAGAAGAAGAATCTTTGACAAATCAATCAGTGCTTGTTACTTTCT
237868 CATCAGATAAGTGAAAAATAAGAGATT
131 CATCAGATAAGTGAAAAATAAGAGATT
**
237895 TATACTCCAAT-A-ATTACTCT-AAA-ATAATCTTACATTATACGAATCAAATA-TCCTGCACTC
1 TATACTCCAATAATATTACTCTCAAATATAATCTTACATTATGTGAATCAAATATTCCTGCACTC
237955 TAAGAAGAGTTTTATACGAGTAAGAAGAAGAATCTTTGACAAATCAATCAGTGCTTGTTACTTTC
66 TAAGAAGAG-TTTATACGAGTAAGAAGAAGAATCTTTGACAAATCAATCAGTGCTTGTTACTTTC
238020 TCATCAGATAAGTGAAAAATAAGAGATT
130 TCATCAGATAAGTGAAAAATAAGAGATT
*
238048 TATACTCCAATAATATTA--CTCAAATATAATCTTACATTATGTGAATAAAATATTCCTGCACTC
1 TATACTCCAATAATATTACTCTCAAATATAATCTTACATTATGTGAATCAAATATTCCTGCACTC
238111 TAAGAAGAGTTTATACGAGT---AAGAAGAATCTTTGACAAATCAATCAGTGCTTGTTACTTTCT
66 TAAGAAGAGTTTATACGAGTAAGAAGAAGAATCTTTGACAAATCAATCAGTGCTTGTTACTTTCT
238173 CATCAGATAAGTGAAAAATAAGAGA-T
131 CATCAGATAAGTGAAAAATAAGAGATT
**
238199 TATACTCCAATAATATTACTCTCAAATATAATCTTACATTATACGAATC-AATATTCCTGCACTC
1 TATACTCCAATAATATTACTCTCAAATATAATCTTACATTATGTGAATCAAATATTCCTGCACTC
238263 TAAGAAGAGTTTATACGAGTAAGAAGAAGAATCTTTGACAAATCAATCAGTGCTTGTTA----CT
66 TAAGAAGAGTTTATACGAGTAAGAAGAAGAATCTTTGACAAATCAATCAGTGCTTGTTACTTTCT
238324 CATCAGATAAGTGAAAAATAAGAGATT
131 CATCAGATAAGTGAAAAATAAGAGATT
*
238351 TATACTCCAATAATATTACTCTC-AA-ATAATCTTACATTATGTGAATCAAATATTCTTGCACTC
1 TATACTCCAATAATATTACTCTCAAATATAATCTTACATTATGTGAATCAAATATTCCTGCACTC
238414 TAAGAAGAGTTTA-ACGAGTAAGAAGAAGAATCTTTGACAAATCAATCAGTGCTTGTTACTTTCT
66 TAAGAAGAGTTTATACGAGTAAGAAGAAGAATCTTTGACAAATCAATCAGTGCTTGTTACTTTCT
238478 CATCAGATAAGTGAAAAATAAGAGATT
131 CATCAGATAAGTGAAAAATAAGAGATT
**
238505 TATACTCCAATAATATTACTCTCAAATATAATCTTACATTATACGAATCAAATATTCCTGCACTC
1 TATACTCCAATAATATTACTCTCAAATATAATCTTACATTATGTGAATCAAATATTCCTGCACTC
238570 TAAGAAGAGTTTATACGAGTAAGAAGAAGAATCTTTGACAAATCAATCAGTGCTTGTTACTTTCT
66 TAAGAAGAGTTTATACGAGTAAGAAGAAGAATCTTTGACAAATCAATCAGTGCTTGTTACTTTCT
238635 CATCAGATAAGTGAAAAATAAGAGATT
131 CATCAGATAAGTGAAAAATAAGAGATT
*
238662 TATACTCCAATAATATTA--CTCAAATATAA--TTACATTATGTGAATAAAATATTCCTGCACTC
1 TATACTCCAATAATATTACTCTCAAATATAATCTTACATTATGTGAATCAAATATTCCTGCACTC
*
238723 TAAGAAGAGTTTATACGAGTAAGAAAAAGAATCTTTGACAAATC-ATCAGTGCTTGTTACTTTCA
66 TAAGAAGAGTTTATACGAGTAAGAAGAAGAATCTTTGACAAATCAATCAGTGCTTGTTACTTTC-
238787 TCATCAGATAAGTGAAAAATAAGAGATT
130 TCATCAGATAAGTGAAAAATAAGAGATT
**
238815 TATACTCCAATAATA-TACTCTCAAATATAATCTTACATTATACGAATCAAATATTCCTGCACTC
1 TATACTCCAATAATATTACTCTCAAATATAATCTTACATTATGTGAATCAAATATTCCTGCACTC
*
238879 TAAGAAGAGTTTATATGAGTAAGAAGAAGAATCTTTGACAAATCAATCAGTGCTTGTTACTTTCT
66 TAAGAAGAGTTTATACGAGTAAGAAGAAGAATCTTTGACAAATCAATCAGTGCTTGTTACTTTCT
238944 CATCAGATAAGTGAAAAATAAGAGATT
131 CATCAGATAAGTGAAAAATAAGAGATT
238971 TATACTCCAATAATATTACTCTCAAATATAATCTTACATTATGTGAATCAAATATTCCTGCACTC
1 TATACTCCAATAATATTACTCTCAAATATAATCTTACATTATGTGAATCAAATATTCCTGCACTC
239036 TAAGAAGAGTTTATACGAGTAAGAAGAAGAATCTTTGACAAATCAATCAGTGCTTGTTACTTTCT
66 TAAGAAGAGTTTATACGAGTAAGAAGAAGAATCTTTGACAAATCAATCAGTGCTTGTTACTTTCT
239101 CATCAGATAAGTGAAAAATAAGAGATT
131 CATCAGATAAGTGAAAAATAAGAGATT
**
239128 TATACTCCAATAATATTACTCTCAAATATAATCTTACATTATACGAATCAAATATTCCTGCACTC
1 TATACTCCAATAATATTACTCTCAAATATAATCTTACATTATGTGAATCAAATATTCCTGCACTC
*
239193 T-A-AAGAGTTTATACAAGTAAGAAGAAGAATCTTTGACAAATCAATCAGTGCTTGTTACTTTCT
66 TAAGAAGAGTTTATACGAGTAAGAAGAAGAATCTTTGACAAATCAATCAGTGCTTGTTACTTTCT
239256 CATCAGATAAGTGAAAAATAAGAGATT
131 CATCAGATAAGTGAAAAATAAGAGATT
239283 TATACTCCAATAATATTACTCTCAAATATAATCTTACATTATGTGAATCAAATATTCCTGCACTC
1 TATACTCCAATAATATTACTCTCAAATATAATCTTACATTATGTGAATCAAATATTCCTGCACTC
*
239348 TAAGAAAAGTTTATACGAGTAAGAAGAAGAATCTTTGACAAATCAATCAGTGCTTGTTACTTTCT
66 TAAGAAGAGTTTATACGAGTAAGAAGAAGAATCTTTGACAAATCAATCAGTGCTTGTTACTTTCT
239413 CATCAGATAAGTGAAAAATAAGAGATT
131 CATCAGATAAGTGAAAAATAAGAGATT
239440 GTGAACATCA
Statistics
Matches: 1483, Mismatches: 33, Indels: 58
0.94 0.02 0.04
Matches are distributed among these distances:
150 65 0.04
151 75 0.05
152 166 0.11
153 262 0.18
154 70 0.05
155 247 0.17
156 184 0.12
157 414 0.28
ACGTcount: A:0.40, C:0.15, G:0.12, T:0.32
Consensus pattern (157 bp):
TATACTCCAATAATATTACTCTCAAATATAATCTTACATTATGTGAATCAAATATTCCTGCACTC
TAAGAAGAGTTTATACGAGTAAGAAGAAGAATCTTTGACAAATCAATCAGTGCTTGTTACTTTCT
CATCAGATAAGTGAAAAATAAGAGATT
Found at i:246298 original size:15 final size:14
Alignment explanation
Indices: 246269--246306 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 14
246259 TGTTAAATTT
246269 TATTAAA-ACTTAAA
1 TATTAAATA-TTAAA
246283 TATTATAATATTAAA
1 TATTA-AATATTAAA
246298 TATTAAATA
1 TATTAAATA
246307 CGCATGTCTC
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
14 9 0.41
15 12 0.55
16 1 0.05
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (14 bp):
TATTAAATATTAAA
Found at i:246299 original size:7 final size:7
Alignment explanation
Indices: 246269--246306 Score: 51
Period size: 7 Copynumber: 5.3 Consensus size: 7
246259 TGTTAAATTT
246269 TATTAAA
1 TATTAAA
246276 -ACTTAAA
1 TA-TTAAA
246283 TATTATAA
1 TATTA-AA
246291 TATTAAA
1 TATTAAA
246298 TATTAAA
1 TATTAAA
246305 TA
1 TA
246307 CGCATGTCTC
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
6 1 0.04
7 19 0.68
8 8 0.29
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (7 bp):
TATTAAA
Found at i:246438 original size:11 final size:11
Alignment explanation
Indices: 246424--246519 Score: 50
Period size: 11 Copynumber: 8.2 Consensus size: 11
246414 TCTATTTAAA
246424 TATTTAATCAT
1 TATTTAATCAT
* *
246435 TATTAAATAAT
1 TATTTAATCAT
246446 TATTAGTAATCAT
1 TATT--TAATCAT
* *
246459 TGTTAAATCAT
1 TATTTAATCAT
* *
246470 TA-TTAGTAAT
1 TATTTAATCAT
246480 TATTATAATTTCAT
1 TATT-TAA--TCAT
246494 TATTACTAATCAT
1 TATT--TAATCAT
* *
246507 TACTAAATCAT
1 TATTTAATCAT
246518 TA
1 TA
246520 GTATCAAATC
Statistics
Matches: 63, Mismatches: 15, Indels: 14
0.68 0.16 0.15
Matches are distributed among these distances:
10 7 0.11
11 29 0.46
12 2 0.03
13 15 0.24
14 7 0.11
15 3 0.05
ACGTcount: A:0.41, C:0.08, G:0.03, T:0.48
Consensus pattern (11 bp):
TATTTAATCAT
Found at i:246455 original size:24 final size:24
Alignment explanation
Indices: 246428--246519 Score: 114
Period size: 24 Copynumber: 3.8 Consensus size: 24
246418 TTTAAATATT
*
246428 TAATCATTATTAAATAATTATTAG
1 TAATCATTATTAAATCATTATTAG
*
246452 TAATCATTGTTAAATCATTATTAG
1 TAATCATTATTAAATCATTATTAG
* * *
246476 TAATTATTA-TAATTTCATTATTAC
1 TAATCATTATTAA-ATCATTATTAG
*
246500 TAATCATTACTAAATCATTA
1 TAATCATTATTAAATCATTA
246520 GTATCAAATC
Statistics
Matches: 58, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
23 3 0.05
24 52 0.90
25 3 0.05
ACGTcount: A:0.41, C:0.09, G:0.03, T:0.47
Consensus pattern (24 bp):
TAATCATTATTAAATCATTATTAG
Found at i:246617 original size:15 final size:15
Alignment explanation
Indices: 246586--246627 Score: 77
Period size: 15 Copynumber: 2.9 Consensus size: 15
246576 TATCATTACT
246586 AAATCATTAAA-ATA
1 AAATCATTAAATATA
246600 AAATCATTAAATATA
1 AAATCATTAAATATA
246615 AAATCATTAAATA
1 AAATCATTAAATA
246628 ATAATAAAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
14 11 0.41
15 16 0.59
ACGTcount: A:0.62, C:0.07, G:0.00, T:0.31
Consensus pattern (15 bp):
AAATCATTAAATATA
Found at i:247858 original size:195 final size:193
Alignment explanation
Indices: 247525--247915 Score: 748
Period size: 195 Copynumber: 2.0 Consensus size: 193
247515 GCCAAATTTG
247525 AAAGAACTATATTTCGATTTAGTTAGAATGCTTATCTGGATCCAGTTATTCAATATCCCTTTAGA
1 AAAGAACTATATTTCGATTTAGTTAGAATGCTTATCTGGATCCAGTTATTCAATATCCCTTTAGA
247590 GTTATTTTCAAAACGGTTGAGTTACATTGCTAGTGCAATTGGTAAACCTTTTCTTATAGATTTGA
66 GTTATTTTCAAAACGGTTGAGTTACATTGCTAGTGCAATTGGTAAACCTTTTCTTATAGATTTGA
247655 TCACGACATCAAGAGAGAGACTAGAATTTGCCTGAGTCTATGTTGAAATCCCAGTTGGTTCCA
131 TCACGACATCAAGAGAGAGACTAGAATTTGCCTGAGTCTATGTTGAAATCCCAGTTGGTTCCA
247718 AAAGAACTATATTTCGA-TTAGTTAGAATGCTTATCTGGATCCAGTTATTCAATATCCCTTTAGA
1 AAAGAACTATATTTCGATTTAGTTAGAATGCTTATCTGGATCCAGTTATTCAATATCCCTTTAGA
247782 GTTATTTTCAAAAACGAGGTTGAGTTACATTGCTAGTGCAATTGGTAAACCTTTTCTTATAGATT
66 GTTATTTTC-AAAAC--GGTTGAGTTACATTGCTAGTGCAATTGGTAAACCTTTTCTTATAGATT
247847 TGATCACGACATCAAGAGAGAGACTAGAATTTGCCTGAGTCTATGTTGAAATCCCAGTTGGTTCC
128 TGATCACGACATCAAGAGAGAGACTAGAATTTGCCTGAGTCTATGTTGAAATCCCAGTTGGTTCC
247912 A
193 A
247913 AAA
1 AAA
247916 TTCCTGATCA
Statistics
Matches: 195, Mismatches: 0, Indels: 4
0.98 0.00 0.02
Matches are distributed among these distances:
192 56 0.29
193 22 0.11
195 117 0.60
ACGTcount: A:0.31, C:0.16, G:0.18, T:0.35
Consensus pattern (193 bp):
AAAGAACTATATTTCGATTTAGTTAGAATGCTTATCTGGATCCAGTTATTCAATATCCCTTTAGA
GTTATTTTCAAAACGGTTGAGTTACATTGCTAGTGCAATTGGTAAACCTTTTCTTATAGATTTGA
TCACGACATCAAGAGAGAGACTAGAATTTGCCTGAGTCTATGTTGAAATCCCAGTTGGTTCCA
Found at i:252532 original size:21 final size:20
Alignment explanation
Indices: 252505--252644 Score: 100
Period size: 21 Copynumber: 6.8 Consensus size: 20
252495 AATCAGTTTC
*
252505 CAAAATCGCAACGCGATTCTT
1 CAAAATCGCAATGCGATT-TT
* * *
252526 GAAAATCGCAATGCGATAGTA
1 CAAAATCGCAATGCGAT-TTT
* *
252547 CAAATTCGCATTGCGATTTT
1 CAAAATCGCAATGCGATTTT
* * *
252567 CCAAAATTGCAATGCGAATAT
1 -CAAAATCGCAATGCGATTTT
* *
252588 GAAAATCGCATTGCGATTTT
1 CAAAATCGCAATGCGATTTT
* * *
252608 CCAAAATCGCAACGCGAATAT
1 -CAAAATCGCAATGCGATTTT
* *
252629 GAAAATCGCAACGCGA
1 CAAAATCGCAATGCGA
252645 ACACATAAAT
Statistics
Matches: 91, Mismatches: 25, Indels: 7
0.74 0.20 0.06
Matches are distributed among these distances:
20 31 0.34
21 60 0.66
ACGTcount: A:0.37, C:0.21, G:0.18, T:0.24
Consensus pattern (20 bp):
CAAAATCGCAATGCGATTTT
Found at i:252606 original size:41 final size:41
Alignment explanation
Indices: 252527--252638 Score: 165
Period size: 41 Copynumber: 2.7 Consensus size: 41
252517 GCGATTCTTG
252527 AAAATCGCAATGCG-ATA-GTACAAATTCGCATTGCGATTTTCC
1 AAAATCGCAATGCGAATATG-A-AAA-TCGCATTGCGATTTTCC
*
252569 AAAATTGCAATGCGAATATGAAAATCGCATTGCGATTTTCC
1 AAAATCGCAATGCGAATATGAAAATCGCATTGCGATTTTCC
*
252610 AAAATCGCAACGCGAATATGAAAATCGCA
1 AAAATCGCAATGCGAATATGAAAATCGCA
252639 ACGCGAACAC
Statistics
Matches: 65, Mismatches: 3, Indels: 5
0.89 0.04 0.07
Matches are distributed among these distances:
41 44 0.68
42 16 0.25
43 4 0.06
44 1 0.02
ACGTcount: A:0.38, C:0.20, G:0.17, T:0.25
Consensus pattern (41 bp):
AAAATCGCAATGCGAATATGAAAATCGCATTGCGATTTTCC
Found at i:252639 original size:20 final size:20
Alignment explanation
Indices: 252446--252663 Score: 95
Period size: 20 Copynumber: 10.8 Consensus size: 20
252436 AAATGACCAA
252446 CAAAATCGCAACGCGAA-AT
1 CAAAATCGCAACGCGAATAT
* **
252465 AAAAATCGCAACGCG-ATCCC
1 CAAAATCGCAACGCGAAT-AT
* ** * *
252485 CAGAATCGCAAATC-AGTTT
1 CAAAATCGCAACGCGAATAT
* *
252504 CCAAAATCGCAACGCGATTCTT
1 -CAAAATCGCAACGCGAAT-AT
* *
252526 GAAAATCGCAATGCG-ATAGT
1 CAAAATCGCAACGCGAATA-T
* ** * *
252546 ACAAATTCGCATTGCGATTTT
1 -CAAAATCGCAACGCGAATAT
* *
252567 CCAAAATTGCAATGCGAATAT
1 -CAAAATCGCAACGCGAATAT
* ** * *
252588 GAAAATCGCATTGCGATTTT
1 CAAAATCGCAACGCGAATAT
252608 CCAAAATCGCAACGCGAATAT
1 -CAAAATCGCAACGCGAATAT
* *
252629 GAAAATCGCAACGCGAACA-
1 CAAAATCGCAACGCGAATAT
252648 CATAAATCGCAACGCG
1 CA-AAATCGCAACGCG
252664 TATCCGTAAA
Statistics
Matches: 146, Mismatches: 42, Indels: 21
0.70 0.20 0.10
Matches are distributed among these distances:
18 1 0.01
19 15 0.10
20 69 0.47
21 58 0.40
22 3 0.02
ACGTcount: A:0.39, C:0.24, G:0.17, T:0.20
Consensus pattern (20 bp):
CAAAATCGCAACGCGAATAT
Found at i:252673 original size:20 final size:20
Alignment explanation
Indices: 252611--252804 Score: 203
Period size: 20 Copynumber: 9.7 Consensus size: 20
252601 CGATTTTCCA
* ** *
252611 AAATCGCAACGCGAATATGA
1 AAATCGCAACGCGTATCCGT
* *
252631 AAATCGCAACGCG-AACACAT
1 AAATCGCAACGCGTATC-CGT
252651 AAATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
*
252671 AAATCGCAACGTGTATCCGT
1 AAATCGCAACGCGTATCCGT
**
252691 AAATCGCAACGCGTATGGGT
1 AAATCGCAACGCGTATCCGT
**
252711 AAATCGCAATACGTATCCGT
1 AAATCGCAACGCGTATCCGT
* *
252731 ATATCGCAACGCGTATCCAT
1 AAATCGCAACGCGTATCCGT
* * *
252751 AAATCGCAACG-ATAATACAT
1 AAATCGCAACGCGT-ATCCGT
252771 AAAATCGCAACGCGTATCCGT
1 -AAATCGCAACGCGTATCCGT
252792 AAATCGCAACGCG
1 AAATCGCAACGCG
252805 ATATTTAAAG
Statistics
Matches: 144, Mismatches: 25, Indels: 10
0.80 0.14 0.06
Matches are distributed among these distances:
19 2 0.01
20 124 0.86
21 17 0.12
22 1 0.01
ACGTcount: A:0.37, C:0.26, G:0.19, T:0.19
Consensus pattern (20 bp):
AAATCGCAACGCGTATCCGT
Found at i:252695 original size:60 final size:60
Alignment explanation
Indices: 252631--252804 Score: 231
Period size: 60 Copynumber: 2.9 Consensus size: 60
252621 GCGAATATGA
* * *
252631 AAATCGCAACGCGAACACATAAATCGCAACGCGTATCCGTAAATCGCAACGTGTATCCGT
1 AAATCGCAACGCGAATACATAAATCGCAACGCGTATCCGTAAATCGCAACGCGTATCCAT
* *** ** *
252691 AAATCGCAACGCGTATGGGTAAATCGCAATACGTATCCGTATATCGCAACGCGTATCCAT
1 AAATCGCAACGCGAATACATAAATCGCAACGCGTATCCGTAAATCGCAACGCGTATCCAT
**
252751 AAATCGCAACGATAATACATAAAATCGCAACGCGTATCCGTAAATCGCAACGCG
1 AAATCGCAACGCGAATACAT-AAATCGCAACGCGTATCCGTAAATCGCAACGCG
252805 ATATTTAAAG
Statistics
Matches: 94, Mismatches: 19, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
60 64 0.68
61 30 0.32
ACGTcount: A:0.36, C:0.26, G:0.18, T:0.20
Consensus pattern (60 bp):
AAATCGCAACGCGAATACATAAATCGCAACGCGTATCCGTAAATCGCAACGCGTATCCAT
Found at i:253216 original size:33 final size:33
Alignment explanation
Indices: 253177--253247 Score: 106
Period size: 33 Copynumber: 2.2 Consensus size: 33
253167 TTCACTTAGA
* *
253177 TTTCATTTCGCGTTACGATTCTGTCGTTGCGAT
1 TTTCATTTCGCGTTACGATTCTCTCGTTCCGAT
* *
253210 TTTCATTTCGCGTTGCTATTCTCTCGTTCCGAT
1 TTTCATTTCGCGTTACGATTCTCTCGTTCCGAT
253243 TTTCA
1 TTTCA
253248 AGTTAGTATT
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.11, C:0.24, G:0.17, T:0.48
Consensus pattern (33 bp):
TTTCATTTCGCGTTACGATTCTCTCGTTCCGAT
Found at i:253352 original size:20 final size:19
Alignment explanation
Indices: 253327--253431 Score: 78
Period size: 20 Copynumber: 5.6 Consensus size: 19
253317 TGCAGAAGAG
253327 TCGCAACGAGATAAATGAAA
1 TCGCAACGAGA-AAATGAAA
* **
253347 TCGCAACGAGAGAATGACTG
1 TCGCAACGAGAAAATGA-AA
253367 TCGCAACGAGAGAAATGAAAA
1 TCGCAACGAGA-AAATG-AAA
*
253388 GCGCAACGAG---A-G-AA
1 TCGCAACGAGAAAATGAAA
*
253402 TCGCAACGCG-AAATGAAAA
1 TCGCAACGAGAAAATG-AAA
253421 TCGCAACGAGA
1 TCGCAACGAGA
253432 GAATCGCGTT
Statistics
Matches: 66, Mismatches: 10, Indels: 18
0.70 0.11 0.19
Matches are distributed among these distances:
14 10 0.15
16 2 0.03
17 2 0.03
19 16 0.24
20 22 0.33
21 13 0.20
22 1 0.02
ACGTcount: A:0.45, C:0.19, G:0.26, T:0.10
Consensus pattern (19 bp):
TCGCAACGAGAAAATGAAA
Found at i:253383 original size:40 final size:41
Alignment explanation
Indices: 253326--253402 Score: 129
Period size: 40 Copynumber: 1.9 Consensus size: 41
253316 TTGCAGAAGA
* *
253326 GTCGCAACGAGATAAATG-AAATCGCAACGAGAGAATGACT
1 GTCGCAACGAGAGAAATGAAAAGCGCAACGAGAGAATGACT
253366 GTCGCAACGAGAGAAATGAAAAGCGCAACGAGAGAAT
1 GTCGCAACGAGAGAAATGAAAAGCGCAACGAGAGAAT
253403 CGCAACGCGA
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
40 17 0.50
41 17 0.50
ACGTcount: A:0.44, C:0.17, G:0.27, T:0.12
Consensus pattern (41 bp):
GTCGCAACGAGAGAAATGAAAAGCGCAACGAGAGAATGACT
Found at i:253459 original size:19 final size:18
Alignment explanation
Indices: 253435--253519 Score: 69
Period size: 19 Copynumber: 5.1 Consensus size: 18
253425 AACGAGAGAA
253435 TCGCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCA-T
253454 TCGCGTTGCGA--TTC--
1 TCGCGTTGCGATTTTCAT
* *
253468 TCTCGTTGCGATTGTCAT
1 TCGCGTTGCGATTTTCAT
253486 CTCGCGTTGCGA--TTC--
1 -TCGCGTTGCGATTTTCAT
*
253501 TCTCGTTGCGATTTTCAT
1 TCGCGTTGCGATTTTCAT
253519 T
1 T
253520 TCAACCAAAA
Statistics
Matches: 52, Mismatches: 5, Indels: 19
0.68 0.07 0.25
Matches are distributed among these distances:
14 20 0.38
16 5 0.10
17 5 0.10
18 1 0.02
19 21 0.40
ACGTcount: A:0.09, C:0.25, G:0.22, T:0.44
Consensus pattern (18 bp):
TCGCGTTGCGATTTTCAT
Found at i:253476 original size:14 final size:14
Alignment explanation
Indices: 253457--253513 Score: 69
Period size: 14 Copynumber: 3.7 Consensus size: 14
253447 TTTCATTTCG
253457 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
253471 CGTTGCGATTGTCATCT
1 CGTTGCGA-T-TC-TCT
253488 CGCGTTGCGATTCTCT
1 --CGTTGCGATTCTCT
253504 CGTTGCGATT
1 CGTTGCGATT
253514 TTCATTTCAA
Statistics
Matches: 38, Mismatches: 0, Indels: 10
0.79 0.00 0.21
Matches are distributed among these distances:
14 18 0.47
15 1 0.03
16 5 0.13
17 5 0.13
18 1 0.03
19 8 0.21
ACGTcount: A:0.09, C:0.26, G:0.25, T:0.40
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:253480 original size:33 final size:33
Alignment explanation
Indices: 253438--253521 Score: 150
Period size: 33 Copynumber: 2.5 Consensus size: 33
253428 GAGAGAATCG
253438 CGTTGCGATTTTCATTTCGCGTTGCGATTCTCT
1 CGTTGCGATTTTCATTTCGCGTTGCGATTCTCT
* *
253471 CGTTGCGATTGTCATCTCGCGTTGCGATTCTCT
1 CGTTGCGATTTTCATTTCGCGTTGCGATTCTCT
253504 CGTTGCGATTTTCATTTC
1 CGTTGCGATTTTCATTTC
253522 AACCAAAAGA
Statistics
Matches: 47, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 47 1.00
ACGTcount: A:0.10, C:0.25, G:0.21, T:0.44
Consensus pattern (33 bp):
CGTTGCGATTTTCATTTCGCGTTGCGATTCTCT
Found at i:255525 original size:184 final size:183
Alignment explanation
Indices: 255207--255585 Score: 690
Period size: 184 Copynumber: 2.1 Consensus size: 183
255197 TAGATTGCTT
*
255207 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTATTCTTTAACACTGTGAAATAGTATT
1 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTATTCTATAACACTGTGAAATAGTATT
255272 TGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGT
66 TGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGT
255337 GTATTCTTTAACAC-TGAAATAGTATTTGTCTTTGTTTTGTCTTTTGGTTGAA
131 GTATTCTTTAACACGTGAAATAGTATTTGTCTTTGTTTTGTCTTTTGGTTGAA
*
255389 AGTAAATTTGTTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTATAACACTGTGAAATA-T
1 AGTAAATTT-ATTCGGTTGCTGCCAATTCTGCTAAAC--TGTATTCTATAACACTGTGAAATAGT
255453 ATTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAAC
63 ATTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAAC
255518 TGTGTATTCTTTAACACTGTGAAATAGTATTTGTCTTTGTTTTGTCTTTTGGTTGAA
128 TGTGTATTCTTTAACAC-GTGAAATAGTATTTGTCTTTGTTTTGTCTTTTGGTTGAA
255575 AGTAAATTTAT
1 AGTAAATTTAT
255586 CCATTCAAGT
Statistics
Matches: 189, Mismatches: 3, Indels: 7
0.95 0.02 0.04
Matches are distributed among these distances:
182 9 0.05
183 26 0.14
184 83 0.44
185 24 0.13
186 47 0.25
ACGTcount: A:0.23, C:0.13, G:0.18, T:0.46
Consensus pattern (183 bp):
AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTATTCTATAACACTGTGAAATAGTATT
TGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGT
GTATTCTTTAACACGTGAAATAGTATTTGTCTTTGTTTTGTCTTTTGGTTGAA
Found at i:255549 original size:93 final size:93
Alignment explanation
Indices: 255207--255583 Score: 692
Period size: 93 Copynumber: 4.1 Consensus size: 93
255197 TAGATTGCTT
*
255207 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAAC--TGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
255270 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
255298 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACAC--TGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
255361 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
*
255389 AGTAAATTTGTTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTATAACACTGTGAAATA-T
1 AGTAAATTTG-TTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGT
255453 ATTTGTCTTTGTTTTGTCTTTTGGTTGAA
65 ATTTGTCTTTGTTTTGTCTTTTGGTTGAA
255482 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
255547 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
255575 AGTAAATTT
1 AGTAAATTT
255584 ATCCATTCAA
Statistics
Matches: 277, Mismatches: 3, Indels: 10
0.96 0.01 0.03
Matches are distributed among these distances:
91 83 0.30
92 93 0.34
93 94 0.34
94 7 0.03
ACGTcount: A:0.23, C:0.13, G:0.18, T:0.46
Consensus pattern (93 bp):
AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
TTTGTCTTTGTTTTGTCTTTTGGTTGAA
Found at i:255667 original size:19 final size:19
Alignment explanation
Indices: 255627--255754 Score: 125
Period size: 19 Copynumber: 7.3 Consensus size: 19
255617 TAGTTTACTT
* *
255627 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAAC-CAAAA
255647 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
**
255666 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAACCAAAA
255685 TCGCAA--CG--A-CAAAA
1 TCGCAACGCGAAACCAAAA
255699 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
*
255718 TCGCAA--CG--A-CAAGA
1 TCGCAACGCGAAACCAAAA
255732 TCGCAACGCGAAACC-AAA
1 TCGCAACGCGAAACCAAAA
255750 TCGCA
1 TCGCA
255755 TTGCGATTTT
Statistics
Matches: 91, Mismatches: 7, Indels: 22
0.76 0.06 0.18
Matches are distributed among these distances:
14 20 0.22
15 2 0.02
16 4 0.04
17 4 0.04
18 9 0.10
19 39 0.43
20 13 0.14
ACGTcount: A:0.46, C:0.29, G:0.16, T:0.09
Consensus pattern (19 bp):
TCGCAACGCGAAACCAAAA
Found at i:255700 original size:14 final size:14
Alignment explanation
Indices: 255681--255739 Score: 64
Period size: 14 Copynumber: 3.9 Consensus size: 14
255671 ACGCGAAATG
255681 AAAATCGCAACGAC
1 AAAATCGCAACGAC
255695 AAAATCGCAACGCGAAACC
1 AAAATCGCAA--CG--A-C
255714 AAAATCGCAACGAC
1 AAAATCGCAACGAC
*
255728 AAGATCGCAACG
1 AAAATCGCAACG
255740 CGAAACCAAA
Statistics
Matches: 39, Mismatches: 1, Indels: 10
0.78 0.02 0.20
Matches are distributed among these distances:
14 22 0.56
15 1 0.03
16 2 0.05
17 2 0.05
18 1 0.03
19 11 0.28
ACGTcount: A:0.47, C:0.29, G:0.17, T:0.07
Consensus pattern (14 bp):
AAAATCGCAACGAC
Found at i:255703 original size:33 final size:33
Alignment explanation
Indices: 255661--255754 Score: 154
Period size: 33 Copynumber: 2.9 Consensus size: 33
255651 AACGCGAAAC
**
255661 CAAAATCGCAACGCGAAATGAAAATCGCAACGA
1 CAAAATCGCAACGCGAAACCAAAATCGCAACGA
255694 CAAAATCGCAACGCGAAACCAAAATCGCAACGA
1 CAAAATCGCAACGCGAAACCAAAATCGCAACGA
*
255727 CAAGATCGCAACGCGAAACC-AAATCGCA
1 CAAAATCGCAACGCGAAACCAAAATCGCA
255755 TTGCGATTTT
Statistics
Matches: 58, Mismatches: 3, Indels: 1
0.94 0.05 0.02
Matches are distributed among these distances:
32 8 0.14
33 50 0.86
ACGTcount: A:0.47, C:0.29, G:0.17, T:0.07
Consensus pattern (33 bp):
CAAAATCGCAACGCGAAACCAAAATCGCAACGA
Found at i:255777 original size:19 final size:19
Alignment explanation
Indices: 255750--255884 Score: 119
Period size: 19 Copynumber: 7.6 Consensus size: 19
255740 CGAAACCAAA
*
255750 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
255769 TCGCGTTGCGA--TTC-TT
1 TCGCGTTGCGATTTTCATT
255785 T--CGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
* *
255802 TCGCATTGCGA--TTC-TG
1 TCGCGTTGCGATTTTCATT
255818 T--CGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
**
255835 TCGCGTTGCGATTTTGGTT
1 TCGCGTTGCGATTTTCATT
* *
255854 TTGCGTTGCGATTTTAAGTT
1 TCGCGTTGCGATTTTCA-TT
*
255874 TCGTGTTGCGA
1 TCGCGTTGCGA
255885 AAGTAAACTA
Statistics
Matches: 93, Mismatches: 12, Indels: 21
0.74 0.10 0.17
Matches are distributed among these distances:
14 15 0.16
16 11 0.12
17 11 0.12
19 45 0.48
20 11 0.12
ACGTcount: A:0.11, C:0.19, G:0.24, T:0.47
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:255791 original size:14 final size:14
Alignment explanation
Indices: 255772--255828 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
255762 TTTCATTTCG
255772 CGTTGCGATTCTTT
1 CGTTGCGATTCTTT
255786 CGTTGCGATTTTCATTT
1 CGTTGCGA--TTC-TTT
*
255803 CGCATTGCGATTCTGT
1 CG--TTGCGATTCTTT
255819 CGTTGCGATT
1 CGTTGCGATT
255829 TTCATTTCGC
Statistics
Matches: 37, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
14 16 0.43
16 7 0.19
17 8 0.22
19 6 0.16
ACGTcount: A:0.11, C:0.21, G:0.23, T:0.46
Consensus pattern (14 bp):
CGTTGCGATTCTTT
Found at i:255797 original size:33 final size:33
Alignment explanation
Indices: 255755--255847 Score: 168
Period size: 33 Copynumber: 2.8 Consensus size: 33
255745 CCAAATCGCA
*
255755 TTGCGATTTTCATTTCGCGTTGCGATTCTTTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTGTCG
*
255788 TTGCGATTTTCATTTCGCATTGCGATTCTGTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTGTCG
255821 TTGCGATTTTCATTTCGCGTTGCGATT
1 TTGCGATTTTCATTTCGCGTTGCGATT
255848 TTGGTTTTGC
Statistics
Matches: 57, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 57 1.00
ACGTcount: A:0.11, C:0.20, G:0.22, T:0.47
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCGTTGCGATTCTGTCG
Found at i:257804 original size:13 final size:14
Alignment explanation
Indices: 257788--257822 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
257778 ATTGTTTAAT
257788 TGATTTGT-AAAGA
1 TGATTTGTAAAAGA
*
257801 TGATTTGTAAAAGT
1 TGATTTGTAAAAGA
257815 TGATTTGT
1 TGATTTGT
257823 GTAATTGATG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
13 8 0.40
14 12 0.60
ACGTcount: A:0.31, C:0.00, G:0.23, T:0.46
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:257952 original size:19 final size:19
Alignment explanation
Indices: 257928--258027 Score: 147
Period size: 19 Copynumber: 5.5 Consensus size: 19
257918 AAAATTGACT
257928 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
257947 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
257966 ATCGCAA--CG--A-GAGA
1 ATCGCAATGCGAAATGAAA
257980 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
257999 ATCGCAATGCGGAAATGAAA
1 ATCGCAATGC-GAAATGAAA
258019 ATCGCAATG
1 ATCGCAATG
258028 GGAGAATCGC
Statistics
Matches: 73, Mismatches: 2, Indels: 11
0.85 0.02 0.13
Matches are distributed among these distances:
14 10 0.14
15 1 0.01
16 2 0.03
17 2 0.03
18 1 0.01
19 39 0.53
20 18 0.25
ACGTcount: A:0.45, C:0.17, G:0.23, T:0.15
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:258057 original size:53 final size:53
Alignment explanation
Indices: 257928--258044 Score: 209
Period size: 53 Copynumber: 2.2 Consensus size: 53
257918 AAAATTGACT
257928 ATCGCAATGCGAAATGAAAATCGCAATGC-GAAATGAAAATCGCAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGA
* *
257980 ATCGCAATGCGAAATGAAAATCGCAATGCGGAAATGAAAATCGCAATGGGAGA
1 ATCGCAATGCGAAATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGA
258033 ATCGCAATGCGA
1 ATCGCAATGCGA
258045 TTTTAATTTC
Statistics
Matches: 62, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
52 29 0.47
53 33 0.53
ACGTcount: A:0.44, C:0.17, G:0.25, T:0.15
Consensus pattern (53 bp):
ATCGCAATGCGAAATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGA
Found at i:258095 original size:19 final size:19
Alignment explanation
Indices: 258034--258200 Score: 168
Period size: 19 Copynumber: 9.6 Consensus size: 19
258024 AATGGGAGAA
* *
258034 TCGCAATGCGATTTTAATT
1 TCGCATTGCGATTTTCATT
*
258053 TCGCA-TGCGA--TTC-TC
1 TCGCATTGCGATTTTCATT
258068 TCG--TTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
258085 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
*
258104 TCGCATTGCGA--TTC-TC
1 TCGCATTGCGATTTTCATT
258120 TCG--TTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
258137 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
*
258156 TCGCATTGCGA--TTC-TC
1 TCGCATTGCGATTTTCATT
258172 TCG--TTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
258189 TCCGCATTGCGA
1 T-CGCATTGCGA
258201 AATGTAATGG
Statistics
Matches: 124, Mismatches: 7, Indels: 33
0.76 0.04 0.20
Matches are distributed among these distances:
14 17 0.14
15 4 0.03
16 19 0.15
17 16 0.13
18 7 0.06
19 55 0.44
20 6 0.05
ACGTcount: A:0.15, C:0.23, G:0.18, T:0.44
Consensus pattern (19 bp):
TCGCATTGCGATTTTCATT
Found at i:258132 original size:52 final size:52
Alignment explanation
Indices: 258034--258200 Score: 300
Period size: 52 Copynumber: 3.2 Consensus size: 52
258024 AATGGGAGAA
* *
258034 TCGCAATGCGATTTTAATTTCGCA-TGCGATTCTCTCGTTGCGATTTTCATT
1 TCGCATTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATT
258085 TCGCATTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATT
1 TCGCATTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATT
258137 TCGCATTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATT
1 TCGCATTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATT
258189 TCCGCATTGCGA
1 T-CGCATTGCGA
258201 AATGTAATGG
Statistics
Matches: 112, Mismatches: 2, Indels: 2
0.97 0.02 0.02
Matches are distributed among these distances:
51 22 0.20
52 80 0.71
53 10 0.09
ACGTcount: A:0.15, C:0.23, G:0.18, T:0.44
Consensus pattern (52 bp):
TCGCATTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATT
Found at i:258179 original size:33 final size:33
Alignment explanation
Indices: 258040--258200 Score: 150
Period size: 33 Copynumber: 4.7 Consensus size: 33
258030 AGAATCGCAA
*
258040 TGCGATTTTAATTTCGCA-TGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCATTGCGATTCTCTCGT
*
258072 TGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCAT
1 TGCGATTTTCATTTCGCATTGCGA--TTC-TCTCG--T
* * * * *
258110 TGCGATTCTCTCGTTGCG-ATTTTC-ATT-TCGCAT
1 TGCGATT-T-TCATTTCGCA-TTGCGATTCTCTCGT
258143 TGCGATTTTCATTTCGCATTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCATTGCGATTCTCTCGT
258176 TGCGATTTTCATTTCCGCATTGCGA
1 TGCGATTTTCATTT-CGCATTGCGA
258201 AATGTAATGG
Statistics
Matches: 103, Mismatches: 13, Indels: 24
0.74 0.09 0.17
Matches are distributed among these distances:
31 9 0.09
32 22 0.21
33 31 0.30
34 10 0.10
35 5 0.05
36 4 0.04
37 2 0.02
38 8 0.08
39 3 0.03
40 9 0.09
ACGTcount: A:0.14, C:0.23, G:0.18, T:0.45
Consensus pattern (33 bp):
TGCGATTTTCATTTCGCATTGCGATTCTCTCGT
Found at i:258283 original size:19 final size:19
Alignment explanation
Indices: 258259--258355 Score: 134
Period size: 19 Copynumber: 5.4 Consensus size: 19
258249 AAAATTGACT
258259 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
258278 ATCGCAATGCGAAATG-AA
1 ATCGCAATGCGAAATGAAA
*
258296 ATCGCAA--CG--A-GAGA
1 ATCGCAATGCGAAATGAAA
258310 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
258329 ATCGCAATGCGGAAATGAAA
1 ATCGCAATGC-GAAATGAAA
258349 ATCGCAA
1 ATCGCAA
258356 CGAGAGAATC
Statistics
Matches: 69, Mismatches: 2, Indels: 13
0.82 0.02 0.15
Matches are distributed among these distances:
13 1 0.01
14 9 0.13
16 4 0.06
18 10 0.14
19 29 0.42
20 16 0.23
ACGTcount: A:0.45, C:0.18, G:0.23, T:0.14
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:258335 original size:51 final size:53
Alignment explanation
Indices: 258259--258374 Score: 218
Period size: 51 Copynumber: 2.2 Consensus size: 53
258249 AAAATTGACT
258259 ATCGCAATGCGAAATGAAAATCGCAATGC-GAAATG-AAATCGCAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGA
258310 ATCGCAATGCGAAATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGA
258363 ATCGCAATGCGA
1 ATCGCAATGCGA
258375 TTTTCATTTC
Statistics
Matches: 63, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
51 29 0.46
52 6 0.10
53 28 0.44
ACGTcount: A:0.44, C:0.18, G:0.24, T:0.14
Consensus pattern (53 bp):
ATCGCAATGCGAAATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGA
Found at i:260884 original size:24 final size:24
Alignment explanation
Indices: 260850--260896 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
260840 TGAAAATATC
260850 ATCAAAATCCGTG-TATTGACCAAT
1 ATCAAAATCCG-GATATTGACCAAT
*
260874 ATCAAAGTCCGGATATTGACCAA
1 ATCAAAATCCGGATATTGACCAA
260897 GACCAATTTC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 1 0.05
24 20 0.95
ACGTcount: A:0.38, C:0.21, G:0.15, T:0.26
Consensus pattern (24 bp):
ATCAAAATCCGGATATTGACCAAT
Found at i:261595 original size:20 final size:20
Alignment explanation
Indices: 261567--261808 Score: 261
Period size: 20 Copynumber: 12.1 Consensus size: 20
261557 AGTGTTGTGA
*
261567 TTACAGATTCTCGTTGCGAT
1 TTACGGATTCTCGTTGCGAT
*
261587 TTACGGATTATCGTTGCGAT
1 TTACGGATTCTCGTTGCGAT
*
261607 TTACAGATTCTCGTTGCGAT
1 TTACGGATTCTCGTTGCGAT
*
261627 TTACGGATTATCGTTGCGAT
1 TTACGGATTCTCGTTGCGAT
*
261647 TTACAGATTCTCGTTGCGAT
1 TTACGGATTCTCGTTGCGAT
*
261667 TTACGGATTATCGTTGCGAT
1 TTACGGATTCTCGTTGCGAT
* *
261687 TTACGGATACGCGTTGCGAT
1 TTACGGATTCTCGTTGCGAT
* * * *
261707 ATACGGATACGCATTGCGAT
1 TTACGGATTCTCGTTGCGAT
* *
261727 TTACGGATACGCGTTGCGAT
1 TTACGGATTCTCGTTGCGAT
* * *
261747 ATACGGATACACGTTGCGAT
1 TTACGGATTCTCGTTGCGAT
* *
261767 TTATGTG-TTCGCGTTGCGAT
1 TTACG-GATTCTCGTTGCGAT
* ** *
261787 TTTCATATTCGCGTTGCGAT
1 TTACGGATTCTCGTTGCGAT
261807 TT
1 TT
261809 TGGAAAATCG
Statistics
Matches: 193, Mismatches: 27, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
20 192 0.99
21 1 0.01
ACGTcount: A:0.20, C:0.18, G:0.24, T:0.37
Consensus pattern (20 bp):
TTACGGATTCTCGTTGCGAT
Found at i:261825 original size:21 final size:21
Alignment explanation
Indices: 261795--261877 Score: 78
Period size: 21 Copynumber: 4.0 Consensus size: 21
261785 ATTTTCATAT
*
261795 TCGCGTTGCGATTTTGGAAAA
1 TCGCATTGCGATTTTGGAAAA
* * * **
261816 TCGCAATGCGAATTTGTACTA
1 TCGCATTGCGATTTTGGAAAA
*
261837 TCGCATTGCGATTTT-CAAGAA
1 TCGCATTGCGATTTTGGAA-AA
*
261858 TCGCGTTGCGATTTTGGAAA
1 TCGCATTGCGATTTTGGAAA
261878 CTGATTTGCG
Statistics
Matches: 47, Mismatches: 13, Indels: 4
0.73 0.20 0.06
Matches are distributed among these distances:
20 1 0.02
21 44 0.94
22 2 0.04
ACGTcount: A:0.25, C:0.17, G:0.24, T:0.34
Consensus pattern (21 bp):
TCGCATTGCGATTTTGGAAAA
Found at i:261868 original size:42 final size:43
Alignment explanation
Indices: 261775--261873 Score: 100
Period size: 42 Copynumber: 2.4 Consensus size: 43
261765 ATTTATGTGT
* *
261775 TCGCGTTGCG-ATTT-TCATATTCGCGTTGCGATTTTGGAAAA
1 TCGCGTTGCGAATTTGTCATATTCGCATTGCGATTTTGCAAAA
**
261816 TCGCAATGCGAATTTGT-ACTA-TCGCATTGCGATTTT-CAAGAA
1 TCGCGTTGCGAATTTGTCA-TATTCGCATTGCGATTTTGCAA-AA
*
261858 TCGCGTTGCGATTTTG
1 TCGCGTTGCGAATTTG
261874 GAAACTGATT
Statistics
Matches: 47, Mismatches: 7, Indels: 7
0.77 0.11 0.11
Matches are distributed among these distances:
41 10 0.21
42 34 0.72
43 3 0.06
ACGTcount: A:0.21, C:0.18, G:0.23, T:0.37
Consensus pattern (43 bp):
TCGCGTTGCGAATTTGTCATATTCGCATTGCGATTTTGCAAAA
Found at i:262227 original size:16 final size:17
Alignment explanation
Indices: 262205--262247 Score: 61
Period size: 16 Copynumber: 2.6 Consensus size: 17
262195 TTCGTATATT
*
262205 TATAAATAATAATAAGA
1 TATAAATAATAATAAAA
*
262222 TA-AAATAAAAATAAAA
1 TATAAATAATAATAAAA
262238 TATAAATAAT
1 TATAAATAAT
262248 TCAATTATAA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
16 14 0.64
17 8 0.36
ACGTcount: A:0.70, C:0.00, G:0.02, T:0.28
Consensus pattern (17 bp):
TATAAATAATAATAAAA
Found at i:263628 original size:48 final size:48
Alignment explanation
Indices: 263557--263652 Score: 192
Period size: 48 Copynumber: 2.0 Consensus size: 48
263547 TGACGTAGAT
263557 TGGTCAAAAAGAAATCACAAGCCTCTGTTGTCTCTCCCTCAACAATGG
1 TGGTCAAAAAGAAATCACAAGCCTCTGTTGTCTCTCCCTCAACAATGG
263605 TGGTCAAAAAGAAATCACAAGCCTCTGTTGTCTCTCCCTCAACAATGG
1 TGGTCAAAAAGAAATCACAAGCCTCTGTTGTCTCTCCCTCAACAATGG
263653 CGAATGCAAT
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
48 48 1.00
ACGTcount: A:0.31, C:0.27, G:0.17, T:0.25
Consensus pattern (48 bp):
TGGTCAAAAAGAAATCACAAGCCTCTGTTGTCTCTCCCTCAACAATGG
Found at i:265248 original size:18 final size:16
Alignment explanation
Indices: 265234--265264 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
265224 ATTTGATATT
265234 TAATTTAGTAATGATA
1 TAATTTAGTAATGATA
*
265250 TGATTTAGTAATGAT
1 TAATTTAGTAATGAT
265265 TACTAATAAT
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:0.39, C:0.00, G:0.16, T:0.45
Consensus pattern (16 bp):
TAATTTAGTAATGATA
Found at i:265329 original size:20 final size:21
Alignment explanation
Indices: 265292--265336 Score: 58
Period size: 20 Copynumber: 2.2 Consensus size: 21
265282 TATAAATATT
*
265292 TAATGATTTAGATTTGA-TAC
1 TAATGATTTAGATATGATTAC
265312 TAATGATTTAG-TAATGATTAC
1 TAATGATTTAGAT-ATGATTAC
265333 TAAT
1 TAAT
265337 AATAGTGATT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
19 1 0.05
20 14 0.64
21 7 0.32
ACGTcount: A:0.38, C:0.04, G:0.13, T:0.44
Consensus pattern (21 bp):
TAATGATTTAGATATGATTAC
Found at i:265492 original size:15 final size:15
Alignment explanation
Indices: 265472--265526 Score: 65
Period size: 16 Copynumber: 3.4 Consensus size: 15
265462 CTAATATAAA
*
265472 TTAAACAATATATTT
1 TTAAACAAAATATTT
265487 TTAAACAACAATAATATT
1 TTAAACAA-AAT-AT-TT
265505 TTAAACAAAATATTTT
1 TTAAACAAAATA-TTT
265521 TTAAAC
1 TTAAAC
265527 GGGAATAAAT
Statistics
Matches: 35, Mismatches: 1, Indels: 7
0.81 0.02 0.16
Matches are distributed among these distances:
15 8 0.23
16 11 0.31
17 6 0.17
18 10 0.29
ACGTcount: A:0.51, C:0.09, G:0.00, T:0.40
Consensus pattern (15 bp):
TTAAACAAAATATTT
Found at i:265498 original size:18 final size:18
Alignment explanation
Indices: 265475--265526 Score: 74
Period size: 18 Copynumber: 3.0 Consensus size: 18
265465 ATATAAATTA
265475 AACAATATATTTTTAAAC
1 AACAATATATTTTTAAAC
265493 AACAATA-ATATTTTAAAC
1 AACAATATAT-TTTTAAAC
265511 AA-AATAT-TTTTTAAAC
1 AACAATATATTTTTAAAC
265527 GGGAATAAAT
Statistics
Matches: 32, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
16 8 0.25
17 7 0.22
18 17 0.53
ACGTcount: A:0.52, C:0.10, G:0.00, T:0.38
Consensus pattern (18 bp):
AACAATATATTTTTAAAC
Found at i:265543 original size:31 final size:30
Alignment explanation
Indices: 265467--265553 Score: 84
Period size: 34 Copynumber: 2.8 Consensus size: 30
265457 ATAATCTAAT
*
265467 ATAAATTAAACAATATATTTTTAAACAACA
1 ATAAATTAAACAAAATATTTTTAAACAACA
***
265497 ATAATATTTTAAACAAAATATTTTTTAAACGGGA
1 ATAA-A--TTAAACAAAATA-TTTTTAAACAACA
* *
265531 ATAAATTAAACAAATTAATTTTA
1 ATAAATTAAACAAAATATTTTTA
265554 TATAATCTAA
Statistics
Matches: 47, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
30 9 0.19
31 12 0.26
33 12 0.26
34 14 0.30
ACGTcount: A:0.53, C:0.07, G:0.03, T:0.37
Consensus pattern (30 bp):
ATAAATTAAACAAAATATTTTTAAACAACA
Found at i:265991 original size:45 final size:46
Alignment explanation
Indices: 265936--266092 Score: 167
Period size: 46 Copynumber: 3.4 Consensus size: 46
265926 GTTTAAACAC
* *
265936 ACTAAAAAACTAATTAAATAATTTTTT-TACATATATATAACTTAA
1 ACTAACAAACTAATTAAATAATTTTTTATAAATATATATAACTTAA
*
265981 ACTAACAAACTAATTAACTAATTTTTTATAAATATATATAACTTAA
1 ACTAACAAACTAATTAAATAATTTTTTATAAATATATATAACTTAA
* * ** * *
266027 AATAACAAACTAATATAATATAA-CTTAAACTAACAAACTA-ATAATTTAA
1 ACTAACAAACTAAT-TAA-ATAATTTTTTA-TAA-ATA-TATATAACTTAA
266076 ACTAACAAACTAATTAA
1 ACTAACAAACTAATTAA
266093 CTAAAATTTT
Statistics
Matches: 95, Mismatches: 11, Indels: 9
0.83 0.10 0.08
Matches are distributed among these distances:
45 25 0.26
46 30 0.32
47 6 0.06
48 9 0.09
49 23 0.24
50 2 0.02
ACGTcount: A:0.54, C:0.11, G:0.00, T:0.34
Consensus pattern (46 bp):
ACTAACAAACTAATTAAATAATTTTTTATAAATATATATAACTTAA
Found at i:266049 original size:28 final size:27
Alignment explanation
Indices: 266011--266069 Score: 100
Period size: 28 Copynumber: 2.1 Consensus size: 27
266001 ATTTTTTATA
266011 AATATATATAACTTAAAATAACAAACT
1 AATATATATAACTTAAAATAACAAACT
*
266038 AATATAATATAACTTAAACTAACAAACT
1 AATAT-ATATAACTTAAAATAACAAACT
266066 AATA
1 AATA
266070 ATTTAAACTA
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
27 5 0.17
28 25 0.83
ACGTcount: A:0.59, C:0.12, G:0.00, T:0.29
Consensus pattern (27 bp):
AATATATATAACTTAAAATAACAAACT
Found at i:266075 original size:21 final size:21
Alignment explanation
Indices: 266046--266094 Score: 80
Period size: 21 Copynumber: 2.3 Consensus size: 21
266036 CTAATATAAT
266046 ATAACTTAAACTAACAAACTA
1 ATAACTTAAACTAACAAACTA
*
266067 ATAATTTAAACTAACAAACTA
1 ATAACTTAAACTAACAAACTA
266088 ATTAACT
1 A-TAACT
266095 AAAATTTTGT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
21 21 0.84
22 4 0.16
ACGTcount: A:0.55, C:0.16, G:0.00, T:0.29
Consensus pattern (21 bp):
ATAACTTAAACTAACAAACTA
Found at i:266097 original size:21 final size:21
Alignment explanation
Indices: 266042--266097 Score: 69
Period size: 21 Copynumber: 2.6 Consensus size: 21
266032 CAAACTAATA
266042 TAATATAACTTAAACTAACAAAC
1 TAAT-TAAC-TAAACTAACAAAC
*
266065 TAA-TAATTTAAACTAACAAAC
1 TAATTAA-CTAAACTAACAAAC
266086 TAATTAACTAAA
1 TAATTAACTAAA
266098 ATTTTGTTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
21 23 0.79
22 3 0.10
23 3 0.10
ACGTcount: A:0.57, C:0.14, G:0.00, T:0.29
Consensus pattern (21 bp):
TAATTAACTAAACTAACAAAC
Found at i:266168 original size:17 final size:18
Alignment explanation
Indices: 266135--266168 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
266125 AACAAACTAA
266135 TAATTTATAATAATAAAC
1 TAATTTATAATAATAAAC
*
266153 TAATTTA-AATATTAAA
1 TAATTTATAATAATAAA
266169 AATTACCTCA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.41
Consensus pattern (18 bp):
TAATTTATAATAATAAAC
Found at i:266219 original size:19 final size:20
Alignment explanation
Indices: 266195--266246 Score: 63
Period size: 19 Copynumber: 2.7 Consensus size: 20
266185 AACTTTTCTC
*
266195 CCTTTCTC-CTTCTTCCTTT
1 CCTTTCTCTCTTCTCCCTTT
*
266214 CCTTTCCCTCTTCTCCCTTT
1 CCTTTCTCTCTTCTCCCTTT
*
266234 -CTTTCTTTCTTCT
1 CCTTTCTCTCTTCT
266247 GCTCCATGTG
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
19 18 0.64
20 10 0.36
ACGTcount: A:0.00, C:0.42, G:0.00, T:0.58
Consensus pattern (20 bp):
CCTTTCTCTCTTCTCCCTTT
Found at i:266487 original size:39 final size:40
Alignment explanation
Indices: 266444--266536 Score: 116
Period size: 40 Copynumber: 2.4 Consensus size: 40
266434 TCATCGGGCG
266444 TGCATGGCGACCTAGGCTTT-GGCTGCTTCTCGTTCTGAT
1 TGCATGGCGACCTAGGCTTTGGGCTGCTTCTCGTTCTGAT
* * * * *
266483 TGCATGGTGACCTAGGGTTTGGGCTGCTTGTTGTTTTGAT
1 TGCATGGCGACCTAGGCTTTGGGCTGCTTCTCGTTCTGAT
* *
266523 TGTAGGGCGACCTA
1 TGCATGGCGACCTA
266537 CTGCTTGGAC
Statistics
Matches: 45, Mismatches: 8, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
39 18 0.40
40 27 0.60
ACGTcount: A:0.12, C:0.19, G:0.32, T:0.37
Consensus pattern (40 bp):
TGCATGGCGACCTAGGCTTTGGGCTGCTTCTCGTTCTGAT
Found at i:267472 original size:60 final size:60
Alignment explanation
Indices: 267362--267474 Score: 147
Period size: 60 Copynumber: 1.9 Consensus size: 60
267352 GTGGGGTAAC
* *
267362 CATTTTGTAACCTTTAATGGTTGAAGGACTCAACAAAGCAAAACTCTATAGTCAGAAGAT
1 CATTTTGTAACCTTTAATAGTTGAAGGACTCAACAAAGCAAAACACTATAGTCAGAAGAT
* * * * *
267422 CATTTTGTAACTTTTAATAGTTGATA-GACTTAATAAAGCAATACAGTATAGTC
1 CATTTTGTAACCTTTAATAGTTGA-AGGACTCAACAAAGCAAAACACTATAGTC
267475 GATGGACCAT
Statistics
Matches: 45, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
60 44 0.98
61 1 0.02
ACGTcount: A:0.38, C:0.14, G:0.15, T:0.33
Consensus pattern (60 bp):
CATTTTGTAACCTTTAATAGTTGAAGGACTCAACAAAGCAAAACACTATAGTCAGAAGAT
Found at i:269520 original size:21 final size:22
Alignment explanation
Indices: 269496--269539 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 22
269486 AGTACATGAA
*
269496 TGGTGTAA-AAATTATAGGAAT
1 TGGTATAAGAAATTATAGGAAT
*
269517 TGGTATAATGAAATTATATGAAT
1 TGGTATAA-GAAATTATAGGAAT
269540 AAGTGAAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 7 0.37
23 12 0.63
ACGTcount: A:0.43, C:0.00, G:0.20, T:0.36
Consensus pattern (22 bp):
TGGTATAAGAAATTATAGGAAT
Found at i:270119 original size:21 final size:23
Alignment explanation
Indices: 270093--270152 Score: 79
Period size: 23 Copynumber: 2.7 Consensus size: 23
270083 TCCTTAAGGA
*
270093 GTGGTCATTCGGGACA-T-ATAT
1 GTGGTCATTCGGGACATTCATAC
* *
270114 GTGGTCCTTCGGGACATTCCTAC
1 GTGGTCATTCGGGACATTCATAC
270137 GTGGTCATTCGGGACA
1 GTGGTCATTCGGGACA
270153 AATTCTATAT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
21 15 0.45
22 1 0.03
23 17 0.52
ACGTcount: A:0.18, C:0.22, G:0.30, T:0.30
Consensus pattern (23 bp):
GTGGTCATTCGGGACATTCATAC
Found at i:274774 original size:16 final size:16
Alignment explanation
Indices: 274733--274770 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
274723 AAACTATAAG
*
274733 ACATGATATATGTGATT
1 ACATG-TATAAGTGATT
274750 ACATGTATAAGTGA-T
1 ACATGTATAAGTGATT
274765 ACATGT
1 ACATGT
274771 TATATGATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
15 7 0.35
16 8 0.40
17 5 0.25
ACGTcount: A:0.37, C:0.08, G:0.18, T:0.37
Consensus pattern (16 bp):
ACATGTATAAGTGATT
Found at i:274943 original size:30 final size:30
Alignment explanation
Indices: 274906--274975 Score: 90
Period size: 30 Copynumber: 2.4 Consensus size: 30
274896 AGAGTCGAGG
* *
274906 GTTACCTATGTCTTT-GAGATATATAGACA
1 GTTACCTATGTCTTTCAAGACATATAGACA
*
274935 GTTTACCTA-GTCTTTCAAGACATATGGACA
1 G-TTACCTATGTCTTTCAAGACATATAGACA
274965 GTTACCTATGT
1 GTTACCTATGT
274976 TCTTCGGAAC
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
29 14 0.40
30 21 0.60
ACGTcount: A:0.29, C:0.17, G:0.17, T:0.37
Consensus pattern (30 bp):
GTTACCTATGTCTTTCAAGACATATAGACA
Found at i:275193 original size:2 final size:2
Alignment explanation
Indices: 275186--275210 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
275176 TATTGATTTG
275186 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 T
275211 CGTATGACTG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:276729 original size:70 final size:70
Alignment explanation
Indices: 276616--276756 Score: 282
Period size: 70 Copynumber: 2.0 Consensus size: 70
276606 TTCTGAATTT
276616 CGATCCCAAGCAAGGTCTGAATCGATGACATCCTCTGCTAGAGGAATAAAATAGATGAGAGCTAG
1 CGATCCCAAGCAAGGTCTGAATCGATGACATCCTCTGCTAGAGGAATAAAATAGATGAGAGCTAG
276681 ACAGA
66 ACAGA
276686 CGATCCCAAGCAAGGTCTGAATCGATGACATCCTCTGCTAGAGGAATAAAATAGATGAGAGCTAG
1 CGATCCCAAGCAAGGTCTGAATCGATGACATCCTCTGCTAGAGGAATAAAATAGATGAGAGCTAG
276751 ACAGA
66 ACAGA
276756 C
1 C
276757 TCAATCAGTA
Statistics
Matches: 71, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
70 71 1.00
ACGTcount: A:0.37, C:0.21, G:0.24, T:0.18
Consensus pattern (70 bp):
CGATCCCAAGCAAGGTCTGAATCGATGACATCCTCTGCTAGAGGAATAAAATAGATGAGAGCTAG
ACAGA
Found at i:280286 original size:16 final size:16
Alignment explanation
Indices: 280245--280282 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
280235 AAACTATGAG
*
280245 ACATGATATATGTGATT
1 ACATG-TATAAGTGATT
280262 ACATGTATAAGTGA-T
1 ACATGTATAAGTGATT
280277 ACATGT
1 ACATGT
280283 TATATGATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
15 7 0.35
16 8 0.40
17 5 0.25
ACGTcount: A:0.37, C:0.08, G:0.18, T:0.37
Consensus pattern (16 bp):
ACATGTATAAGTGATT
Found at i:280490 original size:28 final size:29
Alignment explanation
Indices: 280414--280490 Score: 68
Period size: 29 Copynumber: 2.6 Consensus size: 29
280404 TCGAGGTTAC
* * *
280414 CTATGTCTTTCGAGATATATGGACAATGTAC
1 CTATGTC-TTCG-GAGACATGGACAATGTAA
**
280445 CTATGTCTTTTGAGACATGGACAAT-TAA
1 CTATGTCTTCGGAGACATGGACAATGTAA
280473 CTATGTTCTTCGGA-ACAT
1 CTATG-TCTTCGGAGACAT
280491 ATTAGTCATT
Statistics
Matches: 38, Mismatches: 7, Indels: 5
0.76 0.14 0.10
Matches are distributed among these distances:
28 11 0.29
29 18 0.47
30 2 0.05
31 7 0.18
ACGTcount: A:0.29, C:0.17, G:0.18, T:0.36
Consensus pattern (29 bp):
CTATGTCTTCGGAGACATGGACAATGTAA
Found at i:281272 original size:18 final size:18
Alignment explanation
Indices: 281239--281273 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
281229 GGAAGATGAT
*
281239 GATGTTATATGGATGTAA
1 GATGTTATAAGGATGTAA
*
281257 GATGTTATAAGTATGTA
1 GATGTTATAAGGATGTA
281274 TAGTTGAGTT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.34, C:0.00, G:0.26, T:0.40
Consensus pattern (18 bp):
GATGTTATAAGGATGTAA
Found at i:282464 original size:22 final size:23
Alignment explanation
Indices: 282439--282483 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
282429 GAGTACATGA
*
282439 TGGTGTAAT-AAATTATAGGAAT
1 TGGTATAATGAAATTATAGGAAT
*
282461 TGGTATAATGAAATTATATGAAT
1 TGGTATAATGAAATTATAGGAAT
282484 AAGTGAAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 8 0.40
23 12 0.60
ACGTcount: A:0.42, C:0.00, G:0.20, T:0.38
Consensus pattern (23 bp):
TGGTATAATGAAATTATAGGAAT
Found at i:283295 original size:2 final size:2
Alignment explanation
Indices: 283288--283320 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
283278 TTTTATAATA
283288 AT AT AT AT AT AT AT AT AT -T AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
283321 GTATGTATGT
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 29 0.97
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
AT
Found at i:283309 original size:15 final size:15
Alignment explanation
Indices: 283275--283320 Score: 62
Period size: 15 Copynumber: 3.3 Consensus size: 15
283265 CTAAAATGTA
*
283275 ATATTTTATA-ATA-
1 ATATTATATATATAT
283288 ATA-TATATATATAT
1 ATATTATATATATAT
283302 ATATTATATATATAT
1 ATATTATATATATAT
283317 ATAT
1 ATAT
283321 GTATGTATGT
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
12 5 0.17
13 6 0.21
14 3 0.10
15 15 0.52
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
ATATTATATATATAT
Found at i:283325 original size:4 final size:4
Alignment explanation
Indices: 283318--283352 Score: 70
Period size: 4 Copynumber: 8.8 Consensus size: 4
283308 TATATATATA
283318 TATG TATG TATG TATG TATG TATG TATG TATG TAT
1 TATG TATG TATG TATG TATG TATG TATG TATG TAT
283353 TTGTTACATG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 31 1.00
ACGTcount: A:0.26, C:0.00, G:0.23, T:0.51
Consensus pattern (4 bp):
TATG
Found at i:287390 original size:54 final size:54
Alignment explanation
Indices: 287271--287402 Score: 130
Period size: 54 Copynumber: 2.5 Consensus size: 54
287261 GTATATGATT
* * *
287271 TATGTGAATATGTTCTATG-GAAT-AATGATAATTTGAATAATGTATATGAAAAAC
1 TATGAGAA-ATGTTCAATGTGAATAAATGATAAGTTGAATAATGTATA-GAAAAAC
* * **
287325 TATGAG-TATGTTCAATGTGAATAAATGATAAGTTGAGTAATGTGATA-AAATGC
1 TATGAGAAATGTTCAATGTGAATAAATGATAAGTTGAATAATGT-ATAGAAAAAC
287378 TATGAGAAATGTT-ATATGTGAATAA
1 TATGAGAAATGTTCA-ATGTGAATAA
287403 TAATAAATTT
Statistics
Matches: 65, Mismatches: 8, Indels: 10
0.78 0.10 0.12
Matches are distributed among these distances:
52 9 0.14
53 15 0.23
54 38 0.58
55 3 0.05
ACGTcount: A:0.42, C:0.03, G:0.20, T:0.36
Consensus pattern (54 bp):
TATGAGAAATGTTCAATGTGAATAAATGATAAGTTGAATAATGTATAGAAAAAC
Found at i:290057 original size:24 final size:24
Alignment explanation
Indices: 290021--290078 Score: 82
Period size: 24 Copynumber: 2.5 Consensus size: 24
290011 TCATTTGGGA
* *
290021 CAAA-TCTATATGGCACTTTGGTG
1 CAAATTCTACATGGCACTTCGGTG
*
290044 CATATTCTACATGGCACTTCGGTG
1 CAAATTCTACATGGCACTTCGGTG
290068 CAAATTCTACA
1 CAAATTCTACA
290079 CGATAGTTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
23 3 0.10
24 27 0.90
ACGTcount: A:0.28, C:0.22, G:0.17, T:0.33
Consensus pattern (24 bp):
CAAATTCTACATGGCACTTCGGTG
Found at i:296517 original size:23 final size:23
Alignment explanation
Indices: 296474--296533 Score: 66
Period size: 23 Copynumber: 2.6 Consensus size: 23
296464 CATTTTATAT
*** *
296474 GGCACTTCGGTGCATTTCTACGC
1 GGCACTTCGGTGCAAACCTACAC
* *
296497 GGTACTTCGGTGCAAACCTACAT
1 GGCACTTCGGTGCAAACCTACAC
296520 GGCACTTCGGTGCA
1 GGCACTTCGGTGCA
296534 TTTATACGAG
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
23 30 1.00
ACGTcount: A:0.18, C:0.28, G:0.27, T:0.27
Consensus pattern (23 bp):
GGCACTTCGGTGCAAACCTACAC
Found at i:298436 original size:58 final size:59
Alignment explanation
Indices: 298371--298592 Score: 235
Period size: 58 Copynumber: 3.9 Consensus size: 59
298361 ATTTATGTAA
* *
298371 ATATGTTCTATGGGAATAAATGATAAATTTGAATAAT-TCTATATGAAAAACTATGAGT
1 ATATGTTCTATGTGAATAAATGATAAATTTGAATAATATCTATATGAAATACTATGAGT
* * * * *
298429 ATATGTTCTATGTGAATAAATGAT-AAGTTGAGTAATGT-GATATGAAATGCTATGAG-
1 ATATGTTCTATGTGAATAAATGATAAATTTGAATAATATCTATATGAAATACTATGAGT
* * * * *
298485 AAATTGTTCTATGTGAATAAATAATAAATTT-AGGT-ATAGCTATGTGAAATACTATGAGT
1 ATA-TGTTCTATGTGAATAAATGATAAATTTGA-ATAATATCTATATGAAATACTATGAGT
* * *
298544 ATATGTTTTATGTGAACAAATGATAAA-TTGAATAATA-CTATGTGAAATA
1 ATATGTTCTATGTGAATAAATGATAAATTTGAATAATATCTATATGAAATA
298593 ATTAAATGGT
Statistics
Matches: 137, Mismatches: 19, Indels: 17
0.79 0.11 0.10
Matches are distributed among these distances:
56 2 0.01
57 63 0.46
58 70 0.51
59 2 0.01
ACGTcount: A:0.41, C:0.05, G:0.18, T:0.36
Consensus pattern (59 bp):
ATATGTTCTATGTGAATAAATGATAAATTTGAATAATATCTATATGAAATACTATGAGT
Found at i:298566 original size:115 final size:116
Alignment explanation
Indices: 298369--298579 Score: 293
Period size: 115 Copynumber: 1.8 Consensus size: 116
298359 TGATTTATGT
* *
298369 AAATATGTTCTATGGGAATAAATGATAAATTTGAATAATTCTATATGAAAAACTATGAGTATATG
1 AAATATGTTCTATGGGAATAAATAATAAATTTGAATAATGCTATATGAAAAACTATGAGTATATG
* * *
298434 TTCTATGTGAATAAATGATAAGTTGAGTAATGTGATATGAAATGCTATGAG
66 TTCTATGTGAACAAATGATAAATTGAATAATGTGATATGAAATGCTATGAG
* * * *
298485 AAAT-TGTTCTATGTGAATAAATAATAAATTT-AGGT-ATAGCTATGTGAAATACTATGAGTATA
1 AAATATGTTCTATGGGAATAAATAATAAATTTGA-ATAAT-GCTATATGAAAAACTATGAGTATA
*
298547 TGTTTTATGTGAACAAATGATAAATTGAATAAT
64 TGTTCTATGTGAACAAATGATAAATTGAATAAT
298580 ACTATGTGAA
Statistics
Matches: 83, Mismatches: 10, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
114 3 0.04
115 76 0.92
116 4 0.05
ACGTcount: A:0.42, C:0.04, G:0.18, T:0.36
Consensus pattern (116 bp):
AAATATGTTCTATGGGAATAAATAATAAATTTGAATAATGCTATATGAAAAACTATGAGTATATG
TTCTATGTGAACAAATGATAAATTGAATAATGTGATATGAAATGCTATGAG
Found at i:298698 original size:23 final size:23
Alignment explanation
Indices: 298672--298743 Score: 65
Period size: 23 Copynumber: 3.1 Consensus size: 23
298662 GGATCTACGC
*
298672 GGTCTTTCGGGACAATTCTATGT
1 GGTCTTTCGAGACAATTCTATGT
* * * *
298695 GGTCCTTCGAGATAAATTGTATGC
1 GGTCTTTCGAGA-CAATTCTATGT
*
298719 GGTCATTT-GAGACAAATCTATGT
1 GGTC-TTTCGAGACAATTCTATGT
298742 GG
1 GG
298744 CACTTCGATG
Statistics
Matches: 37, Mismatches: 10, Indels: 4
0.73 0.20 0.08
Matches are distributed among these distances:
23 19 0.51
24 16 0.43
25 2 0.05
ACGTcount: A:0.24, C:0.15, G:0.26, T:0.35
Consensus pattern (23 bp):
GGTCTTTCGAGACAATTCTATGT
Found at i:298730 original size:24 final size:24
Alignment explanation
Indices: 298665--298740 Score: 66
Period size: 24 Copynumber: 3.2 Consensus size: 24
298655 AGTTGAGGGA
* * *
298665 TCTACGCGGTCTTTCGGGAC-AAT
1 TCTATGCGGTCATTCGAGACAAAT
* * *
298688 TCTATGTGGTCCTTCGAGATAAAT
1 TCTATGCGGTCATTCGAGACAAAT
* *
298712 TGTATGCGGTCATTTGAGACAAA-
1 TCTATGCGGTCATTCGAGACAAAT
298735 TCTATG
1 TCTATG
298741 TGGCACTTCG
Statistics
Matches: 41, Mismatches: 11, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
23 20 0.49
24 21 0.51
ACGTcount: A:0.24, C:0.18, G:0.24, T:0.34
Consensus pattern (24 bp):
TCTATGCGGTCATTCGAGACAAAT
Found at i:298762 original size:24 final size:24
Alignment explanation
Indices: 298731--298793 Score: 83
Period size: 24 Copynumber: 2.7 Consensus size: 24
298721 TCATTTGAGA
*
298731 CAAA-TCTATGTGGCACTTCGATG
1 CAAATTCTACGTGGCACTTCGATG
* * *
298754 CATATTCTACGTGGTACTTCGGTG
1 CAAATTCTACGTGGCACTTCGATG
298778 CAAATTCTACGTGGCA
1 CAAATTCTACGTGGCA
298794 GTTTCGACTG
Statistics
Matches: 33, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
23 3 0.09
24 30 0.91
ACGTcount: A:0.24, C:0.22, G:0.22, T:0.32
Consensus pattern (24 bp):
CAAATTCTACGTGGCACTTCGATG
Found at i:300564 original size:32 final size:32
Alignment explanation
Indices: 300523--300595 Score: 83
Period size: 32 Copynumber: 2.3 Consensus size: 32
300513 ACATTATCAA
* *
300523 AATGAAACATTGACACTCATGTGCATTATTTG
1 AATGAAACATTGACACTCATATGCATTATATG
* * **
300555 AATGTAACATTGACTCTGTTATGCATTATATG
1 AATGAAACATTGACACTCATATGCATTATATG
*
300587 AATGCAACA
1 AATGAAACA
300596 CTGGTAGTAT
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.36, C:0.15, G:0.15, T:0.34
Consensus pattern (32 bp):
AATGAAACATTGACACTCATATGCATTATATG
Found at i:301582 original size:20 final size:20
Alignment explanation
Indices: 301555--301665 Score: 177
Period size: 20 Copynumber: 5.5 Consensus size: 20
301545 CAAAATGAGT
301555 AGTATCGATACTCTACTTAC
1 AGTATCGATACTCTACTTAC
* *
301575 AATATCGATACTCTACTTGC
1 AGTATCGATACTCTACTTAC
301595 AGTATCGATACTCTACTTAC
1 AGTATCGATACTCTACTTAC
*
301615 AGTATCGATACTCTACTTGC
1 AGTATCGATACTCTACTTAC
**
301635 AGTATCGATACTCTACTTGT
1 AGTATCGATACTCTACTTAC
301655 AGTATCGATAC
1 AGTATCGATAC
301666 CCTAGGGTCA
Statistics
Matches: 85, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 85 1.00
ACGTcount: A:0.29, C:0.23, G:0.13, T:0.35
Consensus pattern (20 bp):
AGTATCGATACTCTACTTAC
Found at i:301659 original size:40 final size:40
Alignment explanation
Indices: 301555--301665 Score: 195
Period size: 40 Copynumber: 2.8 Consensus size: 40
301545 CAAAATGAGT
*
301555 AGTATCGATACTCTACTTACAATATCGATACTCTACTTGC
1 AGTATCGATACTCTACTTACAGTATCGATACTCTACTTGC
301595 AGTATCGATACTCTACTTACAGTATCGATACTCTACTTGC
1 AGTATCGATACTCTACTTACAGTATCGATACTCTACTTGC
**
301635 AGTATCGATACTCTACTTGTAGTATCGATAC
1 AGTATCGATACTCTACTTACAGTATCGATAC
301666 CCTAGGGTCA
Statistics
Matches: 68, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 68 1.00
ACGTcount: A:0.29, C:0.23, G:0.13, T:0.35
Consensus pattern (40 bp):
AGTATCGATACTCTACTTACAGTATCGATACTCTACTTGC
Found at i:305005 original size:47 final size:48
Alignment explanation
Indices: 304942--305055 Score: 126
Period size: 48 Copynumber: 2.4 Consensus size: 48
304932 GTAACCATGC
*
304942 AAATAACCTTATGAGCTTACGG-A-TT-AATGGCAAGTATATTGAAAAAA
1 AAATAAGCTTATGAGCTTACGGAATTTAAATGGCAAGTATATTG--AAAA
* * * * **
304989 AAATAAGCTTACGAGCTTATGGAATTTAAATGGTAAGTATTTTGGTAA
1 AAATAAGCTTATGAGCTTACGGAATTTAAATGGCAAGTATATTGAAAA
305037 AAATAAGCTTATGAGCTTA
1 AAATAAGCTTATGAGCTTA
305056 TGGGATAAAA
Statistics
Matches: 56, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
47 19 0.34
48 21 0.38
49 2 0.04
50 14 0.25
ACGTcount: A:0.41, C:0.09, G:0.18, T:0.32
Consensus pattern (48 bp):
AAATAAGCTTATGAGCTTACGGAATTTAAATGGCAAGTATATTGAAAA
Found at i:321123 original size:48 final size:49
Alignment explanation
Indices: 321070--321166 Score: 178
Period size: 49 Copynumber: 2.0 Consensus size: 49
321060 CTAATATTAA
321070 ACCTAAAAG-TTTTTAATATTTTATTTGAATAATTGAAAATTAAAAATT
1 ACCTAAAAGTTTTTTAATATTTTATTTGAATAATTGAAAATTAAAAATT
*
321118 ACCTAAAAGTTTTTTAATATTTTATTTGAATAATTGCAAATTAAAAATT
1 ACCTAAAAGTTTTTTAATATTTTATTTGAATAATTGAAAATTAAAAATT
321167 TACAAGACTA
Statistics
Matches: 47, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
48 9 0.19
49 38 0.81
ACGTcount: A:0.44, C:0.05, G:0.06, T:0.44
Consensus pattern (49 bp):
ACCTAAAAGTTTTTTAATATTTTATTTGAATAATTGAAAATTAAAAATT
Found at i:321929 original size:2 final size:2
Alignment explanation
Indices: 321924--322031 Score: 71
Period size: 2 Copynumber: 54.0 Consensus size: 2
321914 TTTTTTTTAG
*
321924 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T TT AT -T AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* * * * * *
321964 CAGT TT AT -T CAT TT AT AT AT AT AT AT AT TT ACT AT TT TT AT TT
1 -A-T AT AT AT -AT AT AT AT AT AT AT AT AT AT A-T AT AT AT AT AT
* *
322007 TT AT -T AT TT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
322032 TTTTTTACTT
Statistics
Matches: 85, Mismatches: 13, Indels: 16
0.75 0.11 0.14
Matches are distributed among these distances:
1 4 0.05
2 76 0.89
3 4 0.05
4 1 0.01
ACGTcount: A:0.38, C:0.03, G:0.01, T:0.58
Consensus pattern (2 bp):
AT
Found at i:321988 original size:38 final size:38
Alignment explanation
Indices: 321939--322034 Score: 124
Period size: 38 Copynumber: 2.5 Consensus size: 38
321929 TATATATATA
321939 TATATATATATATATATTTTATTATCA-GTTTATTCATT
1 TATATATATATATATATTTTATTATCATGTTTATT-ATT
* * * *
321977 TATATATATATATAT-TTACTATTTTTATTTTTATTATT
1 TATATATATATATATATT-TTATTATCATGTTTATTATT
322015 TATATATATATATATATTTT
1 TATATATATATATATATTTT
322035 TTTACTTTTT
Statistics
Matches: 50, Mismatches: 5, Indels: 6
0.82 0.08 0.10
Matches are distributed among these distances:
37 2 0.04
38 40 0.80
39 8 0.16
ACGTcount: A:0.34, C:0.03, G:0.01, T:0.61
Consensus pattern (38 bp):
TATATATATATATATATTTTATTATCATGTTTATTATT
Found at i:322048 original size:18 final size:18
Alignment explanation
Indices: 322027--322091 Score: 55
Period size: 18 Copynumber: 3.7 Consensus size: 18
322017 TATATATATA
322027 TATATTTTTTTACTTTTT
1 TATATTTTTTTACTTTTT
* *
322045 TATATTATTTTA-TTTAT
1 TATATTTTTTTACTTTTT
* *
322062 TGT-TTTTTTTTCTTCTTCT
1 TATATTTTTTTACTT-TT-T
322081 T-TATTTTTTTA
1 TATATTTTTTTA
322092 TATTTATTTT
Statistics
Matches: 36, Mismatches: 7, Indels: 7
0.72 0.14 0.14
Matches are distributed among these distances:
16 6 0.17
17 8 0.22
18 13 0.36
19 9 0.25
ACGTcount: A:0.15, C:0.06, G:0.02, T:0.77
Consensus pattern (18 bp):
TATATTTTTTTACTTTTT
Found at i:322127 original size:46 final size:45
Alignment explanation
Indices: 322035--322130 Score: 106
Period size: 46 Copynumber: 2.1 Consensus size: 45
322025 TATATATTTT
* * * * *
322035 TTTACTTTTTTATATTATTTTATTTATTGTTTTTTTTTCTTCTTC
1 TTTATTTTTTTATATTATTTTACTTACTATTTTTTTTGCTTCTTC
322080 TTTATTTTTTTATATTTATTTTACTTACTATTTTATCTTTGC-T-TTC
1 TTTATTTTTTTATA-TTATTTTACTTACTATTTT-T-TTTGCTTCTTC
322126 TTTAT
1 TTTAT
322131 CTTATCTTTT
Statistics
Matches: 43, Mismatches: 5, Indels: 5
0.81 0.09 0.09
Matches are distributed among these distances:
45 13 0.30
46 24 0.56
47 2 0.05
48 4 0.09
ACGTcount: A:0.16, C:0.09, G:0.02, T:0.73
Consensus pattern (45 bp):
TTTATTTTTTTATATTATTTTACTTACTATTTTTTTTGCTTCTTC
Found at i:322521 original size:30 final size:31
Alignment explanation
Indices: 322465--322526 Score: 117
Period size: 31 Copynumber: 2.0 Consensus size: 31
322455 ATGAACTCTA
322465 GTTTTATGATTTGTCTCAATTGTAAAACCGT
1 GTTTTATGATTTGTCTCAATTGTAAAACCGT
322496 GTTTTATGATTTGTCTCAA-TGTAAAACCGT
1 GTTTTATGATTTGTCTCAATTGTAAAACCGT
322526 G
1 G
322527 AAAGGGGCAA
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
30 12 0.39
31 19 0.61
ACGTcount: A:0.26, C:0.13, G:0.18, T:0.44
Consensus pattern (31 bp):
GTTTTATGATTTGTCTCAATTGTAAAACCGT
Found at i:322816 original size:32 final size:32
Alignment explanation
Indices: 322744--322837 Score: 127
Period size: 31 Copynumber: 2.9 Consensus size: 32
322734 TGAGGGCATC
*
322744 TTTGAAGATTCAACATCAAATGTTGGAGCATTT
1 TTTG-AGATTCAACATCAAATGTTGGGGCATTT
*
322777 TTT-AGATTTAACATCAAATGTTGGGGCATTT
1 TTTGAGATTCAACATCAAATGTTGGGGCATTT
* * *
322808 TTTGAGATTCAACATCGAATATTAGGGCAT
1 TTTGAGATTCAACATCAAATGTTGGGGCAT
322838 ATTGGGAATT
Statistics
Matches: 54, Mismatches: 6, Indels: 3
0.86 0.10 0.05
Matches are distributed among these distances:
31 29 0.54
32 22 0.41
33 3 0.06
ACGTcount: A:0.32, C:0.12, G:0.19, T:0.37
Consensus pattern (32 bp):
TTTGAGATTCAACATCAAATGTTGGGGCATTT
Found at i:325137 original size:71 final size:73
Alignment explanation
Indices: 324996--325137 Score: 261
Period size: 71 Copynumber: 2.0 Consensus size: 73
324986 ATGTCCTATC
324996 TTACAATGGTGTTTGAATTTAAAACCTTTAAAAATGAAAATTATTTCTTTATTCGGAATCTCTAA
1 TTACAATGGTGTTTGAATTTAAAACCTTTAAAAATG-AAATTATTTCTTTATTCGGAATCTCTAA
325061 ATTATTTCT
65 ATTATTTCT
325070 TTACAATGGTGTTTGAATTTAAAACCTTT-AAAATG-AATTATTTCTTTATTCGGAATCTCTAAA
1 TTACAATGGTGTTTGAATTTAAAACCTTTAAAAATGAAATTATTTCTTTATTCGGAATCTCTAAA
325133 TTATT
66 TTATT
325138 GAGATGGTTT
Statistics
Matches: 68, Mismatches: 0, Indels: 3
0.96 0.00 0.04
Matches are distributed among these distances:
71 33 0.49
73 6 0.09
74 29 0.43
ACGTcount: A:0.35, C:0.11, G:0.10, T:0.45
Consensus pattern (73 bp):
TTACAATGGTGTTTGAATTTAAAACCTTTAAAAATGAAATTATTTCTTTATTCGGAATCTCTAAA
TTATTTCT
Found at i:329856 original size:181 final size:180
Alignment explanation
Indices: 329291--330117 Score: 1079
Period size: 180 Copynumber: 4.6 Consensus size: 180
329281 GATCTAAATA
*** * * *
329291 AAAAATGTATCGATCCATATTAATATAATAAGTAAAAATATGA-AAAATCGGT-T-TAATTATGA
1 AAAAATGTATCGATCCATAACGATATAACAGGTAAAAATATGACAAAATCGGTCTCGAA--ATGA
* ** * ** *
329353 TAAAACCGGTAAAGTACTACCGG--ATATTGAAAGTATCGATTAGATTAAATAAGTATCGACACT
64 -CAAACCGGTAAAGCGCTACCGGATATATTGAAAGTGTCGA-TACTTTATATAAGTATCGACACT
*
329416 TTGAGAATTTAAAAGAGAAGCAGTAATAGCGCCTA-AAA-TGTCGATACTTTAT
127 TTGGGAATTTAAAAGAGAAGCAGTAATAGCGCCTATAAAGTGTCGATACTTTAT
* * *
329468 AAAAATGTATTGATCCATAACGATATAACA-GTAAAAATATGATAAAA-CATGTCTCGAAATGAC
1 AAAAATGTATCGATCCATAACGATATAACAGGTAAAAATATGACAAAATC-GGTCTCGAAATGAC
* * * * *
329531 AAAACCGATAAAGCGCTACC-AATTTATTGAAAGTGTCAATACTTTAATATAAGTATCGATACTT
65 -AAACCGGTAAAGCGCTACCGGATATATTGAAAGTGTCGATACTTT-ATATAAGTATCGACACTT
* * * * * *
329595 TGGGAATTTCAAAGAGAAGCAGTAATATCGTCTATAAATTGTCAATACTTTAC
128 TGGGAATTTAAAAGAGAAGCAGTAATAGCGCCTATAAAGTGTCGATACTTTAT
* *
329648 AAAAATGTATTGATCCATAACGATATAACTGGTAAAAATATGACAAAATCGGTCTCGAAATGACA
1 AAAAATGTATCGATCCATAACGATATAACAGGTAAAAATATGACAAAATCGGTCTCGAAATGACA
* *
329713 AACCGGTAAAGCG-TACTGGATATATTGAAAGTGTCGATACTTTCATATAAGTATCAACACTTTG
66 AACCGGTAAAGCGCTACCGGATATATTGAAAGTGTCGATACTTT-ATATAAGTATCGACACTTTG
329777 GGAATTTAAAAGAGAAGCAGTAATAGCGCCTATAAAGTGTCGATACTTTAT
130 GGAATTTAAAAGAGAAGCAGTAATAGCGCCTATAAAGTGTCGATACTTTAT
* * *
329828 AAAAAATGTATCGATCCATAATGATATAACAGGTAAAAATATGATAAAACCGGTCTCGAAATGAC
1 -AAAAATGTATCGATCCATAACGATATAACAGGTAAAAATATGACAAAATCGGTCTCGAAATGAC
*
329893 AAAACCGGTAAAGCGCTACCGAATATATTGAAAGTGTCGATACTTTTATATAAGTATCGACACTT
65 -AAACCGGTAAAGCGCTACCGGATATATTGAAAGTGTCGATAC-TTTATATAAGTATCGACACTT
*
329958 TGGGAATTTAAAAGAGAAGCAGTAATAGCGTCTATAAAGTGTCGATACTTTAT
128 TGGGAATTTAAAAGAGAAGCAGTAATAGCGCCTATAAAGTGTCGATACTTTAT
* *
330011 AAAAATGTATCGATCCATAAC-ATATAACAGGT-AAAA-ATGACAAATTCGGTCTCGAAATGAAA
1 AAAAATGTATCGATCCATAACGATATAACAGGTAAAAATATGACAAAATCGGTCTCGAAATGACA
* * *
330073 AAACGGTAAAGCGCTACTGGATATATTGAAAGTGTCAATACTTTA
66 AACCGGTAAAGCGCTACCGGATATATTGAAAGTGTCGATACTTTA
330118 ATAGTACGCG
Statistics
Matches: 573, Mismatches: 60, Indels: 34
0.86 0.09 0.05
Matches are distributed among these distances:
176 13 0.02
177 59 0.10
178 98 0.17
179 29 0.05
180 143 0.25
181 99 0.17
182 35 0.06
183 94 0.16
184 3 0.01
ACGTcount: A:0.42, C:0.13, G:0.17, T:0.28
Consensus pattern (180 bp):
AAAAATGTATCGATCCATAACGATATAACAGGTAAAAATATGACAAAATCGGTCTCGAAATGACA
AACCGGTAAAGCGCTACCGGATATATTGAAAGTGTCGATACTTTATATAAGTATCGACACTTTGG
GAATTTAAAAGAGAAGCAGTAATAGCGCCTATAAAGTGTCGATACTTTAT
Found at i:329992 original size:363 final size:356
Alignment explanation
Indices: 329401--330116 Score: 1155
Period size: 363 Copynumber: 2.0 Consensus size: 356
329391 ATTAGATTAA
*
329401 ATAAGTATCGACACTTTGAGAATTTAAAAGAGAAGCAGTAATAGCGCCTAAAATGTCGATACTTT
1 ATAAGTATCAACACTTTGAGAATTTAAAAGAGAAGCAGTAATAGCGCCTAAAATGTCGATACTTT
* *
329466 ATAAAAATGTATTGATCCATAACGATATAACAGTAAAAATATGATAAAACATGTCTCGAAATGAC
66 ATAAAAATGTATCGATCCATAACGATATAACAGTAAAAATATGATAAAACAGGTCTCGAAATGAC
* *
329531 AAAACCGATAAAGCGCTACCAATTTATTGAAAGTGTCAATACTTTAATATAAGTATCGATACTTT
131 AAAACCGATAAAGCGCTACCAATATATTGAAAGTGTCAATACTTTAATATAAGTATCGACACTTT
* * * *
329596 GGGAATTTCAAAGAGAAGCAGTAATATCGTCTATAAATTGTCAATACTTTACAAAAATGTATTGA
196 GGGAATTTAAAAGAGAAGCAGTAATAGCGTCTATAAAGTGTCAATACTTTACAAAAATGTATCGA
* * *
329661 TCCATAACGATATAACTGGTAAAAATATGACAAAATCGGTCTCGAAATGACAAACCGGTAAAGCG
261 TCCATAAC-ATATAACAGGT-AAAA-ATGACAAAATCGGTCTCGAAATGAAAAAACGGTAAAGCG
*
329726 -TACTGGATATATTGAAAGTGTCGATACTTTCAT
323 CTACTGGATATATTGAAAGTGTCAATACTTTCAT
*
329759 ATAAGTATCAACACTTTGGGAATTTAAAAGAGAAGCAGTAATAGCGCCTATAAAGTGTCGATACT
1 ATAAGTATCAACACTTTGAGAATTTAAAAGAGAAGCAGTAATAGCGCCTA-AAA-TGTCGATACT
* *
329824 TTATAAAAAATGTATCGATCCATAATGATATAACAGGTAAAAATATGATAAAACCGGTCTCGAAA
64 TTAT-AAAAATGTATCGATCCATAACGATATAACA-GTAAAAATATGATAAAACAGGTCTCGAAA
* * *
329889 TGACAAAACCGGTAAAGCGCTACCGAATATATTGAAAGTGTCGATACTTTTATATAAGTATCGAC
127 TGACAAAACCGATAAAGCGCTACC-AATATATTGAAAGTGTCAATACTTTAATATAAGTATCGAC
* *
329954 ACTTTGGGAATTTAAAAGAGAAGCAGTAATAGCGTCTATAAAGTGTCGATACTTTATAAAAATGT
191 ACTTTGGGAATTTAAAAGAGAAGCAGTAATAGCGTCTATAAAGTGTCAATACTTTACAAAAATGT
*
330019 ATCGATCCATAACATATAACAGGTAAAAATGACAAATTCGGTCTCGAAATGAAAAAACGGTAAAG
256 ATCGATCCATAACATATAACAGGTAAAAATGACAAAATCGGTCTCGAAATGAAAAAACGGTAAAG
330084 CGCTACTGGATATATTGAAAGTGTCAATACTTT
321 CGCTACTGGATATATTGAAAGTGTCAATACTTT
330117 AATAGTACGC
Statistics
Matches: 330, Mismatches: 22, Indels: 9
0.91 0.06 0.02
Matches are distributed among these distances:
358 48 0.15
359 3 0.01
360 50 0.15
361 61 0.18
362 60 0.18
363 108 0.33
ACGTcount: A:0.41, C:0.14, G:0.17, T:0.28
Consensus pattern (356 bp):
ATAAGTATCAACACTTTGAGAATTTAAAAGAGAAGCAGTAATAGCGCCTAAAATGTCGATACTTT
ATAAAAATGTATCGATCCATAACGATATAACAGTAAAAATATGATAAAACAGGTCTCGAAATGAC
AAAACCGATAAAGCGCTACCAATATATTGAAAGTGTCAATACTTTAATATAAGTATCGACACTTT
GGGAATTTAAAAGAGAAGCAGTAATAGCGTCTATAAAGTGTCAATACTTTACAAAAATGTATCGA
TCCATAACATATAACAGGTAAAAATGACAAAATCGGTCTCGAAATGAAAAAACGGTAAAGCGCTA
CTGGATATATTGAAAGTGTCAATACTTTCAT
Found at i:332458 original size:33 final size:33
Alignment explanation
Indices: 332416--332482 Score: 116
Period size: 33 Copynumber: 2.0 Consensus size: 33
332406 AAATAGATGG
332416 AGTGGTGAAAGAAGTTGAGGTGTTAAGGGGTGA
1 AGTGGTGAAAGAAGTTGAGGTGTTAAGGGGTGA
* *
332449 AGTGGTGAAAGAAGTTGAGGTGTTGAGTGGTGA
1 AGTGGTGAAAGAAGTTGAGGTGTTAAGGGGTGA
332482 A
1 A
332483 CTAAAGATGG
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:0.30, C:0.00, G:0.45, T:0.25
Consensus pattern (33 bp):
AGTGGTGAAAGAAGTTGAGGTGTTAAGGGGTGA
Found at i:334272 original size:19 final size:19
Alignment explanation
Indices: 334226--334274 Score: 80
Period size: 19 Copynumber: 2.6 Consensus size: 19
334216 AATCTAGGGT
*
334226 TAATTTTGAATAAGATTTA
1 TAATTTTGTATAAGATTTA
*
334245 TAATTTTGTATACGATTTA
1 TAATTTTGTATAAGATTTA
334264 TAATTTTGTAT
1 TAATTTTGTAT
334275 GTGAATGTAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.35, C:0.02, G:0.10, T:0.53
Consensus pattern (19 bp):
TAATTTTGTATAAGATTTA
Found at i:335356 original size:200 final size:201
Alignment explanation
Indices: 334721--336057 Score: 1968
Period size: 200 Copynumber: 6.8 Consensus size: 201
334711 GTAAACAAAT
*
334721 GTGTCGATACATTTATAAAAACGTATCGATCCCAAAAACATCGAAA-CCATAATTATAATGTAAT
1 GTGTCGATATATTTATAAAAA-GTATCGATCCCAAAAACATCGAAACCCATAATTATAATGTAAT
* *
334785 AGGTAATTTTTCAATGTAACCGGTAT-AATATACCGGTTTTATGTGAGAATAGGTTTACATAATG
65 AGGTAATTTTTCAATGTAACCGGTATAAATATACCGGTTTTATGAGAGAATAGGTCTACATAATG
*
334849 TATCGACACTTTTTAAGTTTGTGTCGATACTTTTTGTCCAGAATGAATGCCCAAACTGGGTGCAC
130 TATCGACACTTTTTAAGTTTGTGTCGATACTTTTTGTCCAGAATGAATGCCCAAACTAGGTGCAC
334914 GCATAAA
195 GCATAAA
* * *
334921 GTGTCGATACATTTATAAAAAGTATAGATCCCAAAAACATCGAAACTCATAATTATAATGTAATA
1 GTGTCGATATATTTATAAAAAGTATCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATA
* *
334986 GGTAATTTTTCAATGTAACCGGTATAAATATATC-GTTTTAAGAGAGAATAGGTCTACATAATGT
66 GGTAATTTTTCAATGTAACCGGTATAAATATACCGGTTTTATGAGAGAATAGGTCTACATAATGT
*
335050 ATCGACAC-TTTTATGTTTGTGTCGATACTTTTT-TCCAGAATGAATGCCCAAACTAGGTGCACG
131 ATCGACACTTTTTAAGTTTGTGTCGATACTTTTTGTCCAGAATGAATGCCCAAACTAGGTGCACG
335113 CATAAA
196 CATAAA
*
335119 GTGTCGATATATTTATAAAAAGTATCGATCCCAAAAATATCGAAACCCATAATTATAATGTAATA
1 GTGTCGATATATTTATAAAAAGTATCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATA
** * *
335184 GGTAATTTTTCAATGTAACTAGTATAAATATACCGGTTTTATAAGAGAATATGTCTACATAATGT
66 GGTAATTTTTCAATGTAACCGGTATAAATATACCGGTTTTATGAGAGAATAGGTCTACATAATGT
* *
335249 ATCAACACTTTTTAAGTTTGTGTCGATACTTTTTGTCTAGAATGAATGCCCAAACTAGGTGCACG
131 ATCGACACTTTTTAAGTTTGTGTCGATACTTTTTGTCCAGAATGAATGCCCAAACTAGGTGCACG
335314 CAT-AA
196 CATAAA
* * * * * *
335319 GTGTCAATATATTTATAAAAACTATCGATCTCAAAAATATCGAAACTCATAATTATAAAGTAATA
1 GTGTCGATATATTTATAAAAAGTATCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATA
* * * *
335384 CGTAATTTTTCAATGTAACCGGTATAAATATATCGGTTTTATGAGAGAATAGGTATACATAATGC
66 GGTAATTTTTCAATGTAACCGGTATAAATATACCGGTTTTATGAGAGAATAGGTCTACATAATGT
* *
335449 ATCGACACTTTTTAAG-TTGTATCGATACTTTTTGTCCAGAATGAATGCCCGAACTAGGTGCACG
131 ATCGACACTTTTTAAGTTTGTGTCGATACTTTTTGTCCAGAATGAATGCCCAAACTAGGTGCACG
*
335513 CAAAAA
196 CATAAA
*
335519 GTGTCGATATATTTATAAAAA--A---AT---------ATCGAAACCCATAATTATAATGTTATA
1 GTGTCGATATATTTATAAAAAGTATCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATA
* * * *
335570 GGTAATTTTTCAATGAAACCGGTATAAATATACAGGTTTTATGAGAGAATATGTCTCCATAATGT
66 GGTAATTTTTCAATGTAACCGGTATAAATATACCGGTTTTATGAGAGAATAGGTCTACATAATGT
* *
335635 ATCGACATTTTTTAAGTTTGTGTCGATACTTTTTGTCTAGAATGAATG------CTAGGTGCACG
131 ATCGACACTTTTTAAGTTTGTGTCGATACTTTTTGTCCAGAATGAATGCCCAAACTAGGTGCACG
335694 CATAAA
196 CATAAA
335700 GTGTCG--ATATTTATAAAAAGTATCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATA
1 GTGTCGATATATTTATAAAAAGTATCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATA
* *
335763 GGTAATTTTTCAATGTAACCGGTATATATATACCGGTTTTATGAGAGAATAGGTCTACATATTGT
66 GGTAATTTTTCAATGTAACCGGTATAAATATACCGGTTTTATGAGAGAATAGGTCTACATAATGT
* *
335828 ATCGACACTTTTTAAATTTGTGTCGATACTTTTT-T-CAGAATGAATGCCCAAACTAGGTGCATG
131 ATCGACACTTTTTAAGTTTGTGTCGATACTTTTTGTCCAGAATGAATGCCCAAACTAGGTGCACG
335891 CATAAA
196 CATAAA
* *
335897 GTGTCGATA-ATTTATAAAAAGTATCGATCCCAAAAACATCGAAACCGATAATTAAAATGTAATA
1 GTGTCGATATATTTATAAAAAGTATCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATA
* * * * *
335961 GGTAAATTTCCAATGTAA-CGGTAT-AATATACCAGTTTTAAGAGAAAATAGGTCTACATAATGT
66 GGTAATTTTTCAATGTAACCGGTATAAATATACCGGTTTTATGAGAGAATAGGTCTACATAATGT
* * *
336024 ATCGAAAATTTTTAAATTTGTGTCGATACTTTTT
131 ATCGACACTTTTTAAGTTTGTGTCGATACTTTTT
336058 TAAATTTCAC
Statistics
Matches: 1031, Mismatches: 77, Indels: 62
0.88 0.07 0.05
Matches are distributed among these distances:
179 13 0.01
181 23 0.02
184 2 0.00
186 96 0.09
187 29 0.03
191 10 0.01
192 1 0.00
193 117 0.11
195 2 0.00
196 66 0.06
197 28 0.03
198 197 0.19
199 129 0.13
200 279 0.27
201 39 0.04
ACGTcount: A:0.37, C:0.14, G:0.16, T:0.34
Consensus pattern (201 bp):
GTGTCGATATATTTATAAAAAGTATCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATA
GGTAATTTTTCAATGTAACCGGTATAAATATACCGGTTTTATGAGAGAATAGGTCTACATAATGT
ATCGACACTTTTTAAGTTTGTGTCGATACTTTTTGTCCAGAATGAATGCCCAAACTAGGTGCACG
CATAAA
Found at i:335458 original size:399 final size:399
Alignment explanation
Indices: 334721--336057 Score: 1953
Period size: 398 Copynumber: 3.4 Consensus size: 399
334711 GTAAACAAAT
*
334721 GTGTCGATACATTTATAAAAACGTATCGATCCCAAAAACATCGAAA-CCATAATTATAATGTAAT
1 GTGTCGATATATTTATAAAAA-GTATCGATCCCAAAAACATCGAAACCCATAATTATAATGTAAT
** *
334785 AGGTAATTTTTCAATGTAACCGGTATAATATACCGGTTTTATGTGAGAATAGGTTTACATAATGT
65 AGGTAATTTTTCAATGTAACCGGTATAATATACCGGTTTTATAAGAGAATAGGTCTACATAATGT
* * *
334850 ATCGACACTTTTTAAGTTTGTGTCGATACTTTTTGTCCAGAATGAATGCCCAAACTGGGTGCACG
130 ATCAACACTTTTTAAGTTTGTGTCGATACTTTTTGTCTAGAATGAATGCCCAAACTAGGTGCACG
* *
334915 CATAAAGTGTCGATACATTTATAAAAAGTATAGATCCCAAAAACATCGAAACTCATAATTATAAT
195 CATAAAGTGTC-ATATATTTATAAAAAGTATCGATCCCAAAAACATCGAAACTCATAATTATAAT
*
334980 GTAATAGGTAATTTTTCAATGTAACCGGTATAAATATATC-GTTTTAAGAGAGAATAGGTCTACA
259 GTAATAGGTAATTTTTCAATGTAACCGGTATAAATATATCGGTTTTATGAGAGAATAGGTCTACA
*
335044 TAATGTATCGACAC-TTTTATGTTTGTGTCGATACTTTTTTCCAGAATGAATGCCCAAACTAGGT
324 TAATGTATCGACACTTTTTAAGTTTGTGTCGATACTTTTTTCCAGAATGAATGCCCAAACTAGGT
335108 GCACGCATAAA
389 GCACGCATAAA
*
335119 GTGTCGATATATTTATAAAAAGTATCGATCCCAAAAATATCGAAACCCATAATTATAATGTAATA
1 GTGTCGATATATTTATAAAAAGTATCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATA
** *
335184 GGTAATTTTTCAATGTAACTAGTATAAATATACCGGTTTTATAAGAGAATATGTCTACATAATGT
66 GGTAATTTTTCAATGTAACCGGTAT-AATATACCGGTTTTATAAGAGAATAGGTCTACATAATGT
335249 ATCAACACTTTTTAAGTTTGTGTCGATACTTTTTGTCTAGAATGAATGCCCAAACTAGGTGCACG
130 ATCAACACTTTTTAAGTTTGTGTCGATACTTTTTGTCTAGAATGAATGCCCAAACTAGGTGCACG
* * * *
335314 CAT-AAGTGTCAATATATTTATAAAAACTATCGATCTCAAAAATATCGAAACTCATAATTATAAA
195 CATAAAGTGTC-ATATATTTATAAAAAGTATCGATCCCAAAAACATCGAAACTCATAATTATAAT
* *
335378 GTAATACGTAATTTTTCAATGTAACCGGTATAAATATATCGGTTTTATGAGAGAATAGGTATACA
259 GTAATAGGTAATTTTTCAATGTAACCGGTATAAATATATCGGTTTTATGAGAGAATAGGTCTACA
* * *
335443 TAATGCATCGACACTTTTTAAG-TTGTATCGATACTTTTTGTCCAGAATGAATGCCCGAACTAGG
324 TAATGTATCGACACTTTTTAAGTTTGTGTCGATACTTTTT-TCCAGAATGAATGCCCAAACTAGG
*
335507 TGCACGCAAAAA
388 TGCACGCATAAA
*
335519 GTGTCGATATATTTATAAAAA--A---AT---------ATCGAAACCCATAATTATAATGTTATA
1 GTGTCGATATATTTATAAAAAGTATCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATA
* * * * *
335570 GGTAATTTTTCAATGAAACCGGTATAAATATACAGGTTTTATGAGAGAATATGTCTCCATAATGT
66 GGTAATTTTTCAATGTAACCGGTAT-AATATACCGGTTTTATAAGAGAATAGGTCTACATAATGT
* *
335635 ATCGACATTTTTTAAGTTTGTGTCGATACTTTTTGTCTAGAATGAATG------CTAGGTGCACG
130 ATCAACACTTTTTAAGTTTGTGTCGATACTTTTTGTCTAGAATGAATGCCCAAACTAGGTGCACG
* *
335694 CATAAAGTGTC-GATATTTATAAAAAGTATCGATCCCAAAAACATCGAAACCCATAATTATAATG
195 CATAAAGTGTCATATATTTATAAAAAGTATCGATCCCAAAAACATCGAAACTCATAATTATAATG
* *
335758 TAATAGGTAATTTTTCAATGTAACCGGTATATATATACCGGTTTTATGAGAGAATAGGTCTACAT
260 TAATAGGTAATTTTTCAATGTAACCGGTATAAATATATCGGTTTTATGAGAGAATAGGTCTACAT
* *
335823 ATTGTATCGACACTTTTTAAATTTGTGTCGATACTTTTTT-CAGAATGAATGCCCAAACTAGGTG
325 AATGTATCGACACTTTTTAAGTTTGTGTCGATACTTTTTTCCAGAATGAATGCCCAAACTAGGTG
*
335887 CATGCATAAA
390 CACGCATAAA
* *
335897 GTGTCGATA-ATTTATAAAAAGTATCGATCCCAAAAACATCGAAACCGATAATTAAAATGTAATA
1 GTGTCGATATATTTATAAAAAGTATCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATA
* * * *
335961 GGTAAATTTCCAATGTAA-CGGTATAATATACCAGTTTTA-AGAGAAAATAGGTCTACATAATGT
66 GGTAATTTTTCAATGTAACCGGTATAATATACCGGTTTTATA-AGAGAATAGGTCTACATAATGT
* *
336024 ATCGAA-AATTTTTAAATTTGTGTCGATACTTTTT
130 ATC-AACACTTTTTAAGTTTGTGTCGATACTTTTT
336058 TAAATTTCAC
Statistics
Matches: 849, Mismatches: 67, Indels: 55
0.87 0.07 0.06
Matches are distributed among these distances:
377 11 0.01
378 40 0.05
379 128 0.15
380 30 0.04
381 7 0.01
382 2 0.00
386 131 0.15
389 61 0.07
390 7 0.01
391 39 0.05
395 2 0.00
397 23 0.03
398 156 0.18
399 151 0.18
400 61 0.07
ACGTcount: A:0.37, C:0.14, G:0.16, T:0.34
Consensus pattern (399 bp):
GTGTCGATATATTTATAAAAAGTATCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATA
GGTAATTTTTCAATGTAACCGGTATAATATACCGGTTTTATAAGAGAATAGGTCTACATAATGTA
TCAACACTTTTTAAGTTTGTGTCGATACTTTTTGTCTAGAATGAATGCCCAAACTAGGTGCACGC
ATAAAGTGTCATATATTTATAAAAAGTATCGATCCCAAAAACATCGAAACTCATAATTATAATGT
AATAGGTAATTTTTCAATGTAACCGGTATAAATATATCGGTTTTATGAGAGAATAGGTCTACATA
ATGTATCGACACTTTTTAAGTTTGTGTCGATACTTTTTTCCAGAATGAATGCCCAAACTAGGTGC
ACGCATAAA
Found at i:335787 original size:193 final size:193
Alignment explanation
Indices: 335537--336058 Score: 766
Period size: 193 Copynumber: 2.7 Consensus size: 193
335527 ATATTTATAA
* * *
335537 AAAAATATCGAAACCCATAATTATAATGTTATAGGTAATTTTTCAATGAAACCGGTATAAATATA
1 AAAAACATCGAAACCCATAATTATAATGTAATAGGTAATTTTTCAATGTAACCGGTATAAATATA
* * * *
335602 CAGGTTTTATGAGAGAATATGTCTCCATAATGTATCGACATTTTTTAAGTTTGTGTCGATACTTT
66 CAGGTTTTATGAGAGAATAGGTCTACATAATGTATCGACAATTTTTAAATTTGTGTCGATACTTT
335667 TTGTCTAGAATGAATG-CTAGGTGCACGCATAAAGTGTCGAT-ATTTATAAAAAGTATCGATCCC
131 TT-TC-AGAATGAATGACTAGGTGCACGCATAAAGTGTCGATAATTTATAAAAAGTATCGATCCC
*
335730 AAAAACATCGAAACCCATAATTATAATGTAATAGGTAATTTTTCAATGTAACCGGTATATATATA
1 AAAAACATCGAAACCCATAATTATAATGTAATAGGTAATTTTTCAATGTAACCGGTATAAATATA
* * *
335795 CCGGTTTTATGAGAGAATAGGTCTACATATTGTATCGACACTTTTTAAATTTGTGTCGATACTTT
66 CAGGTTTTATGAGAGAATAGGTCTACATAATGTATCGACAATTTTTAAATTTGTGTCGATACTTT
*
335860 TTTCAGAATGAATGCCCAAACTAGGTGCATGCATAAAGTGTCGATAATTTATAAAAAGTATCGAT
131 TTTCAGAATGAATG-----ACTAGGTGCACGCATAAAGTGTCGATAATTTATAAAAAGTATCGAT
335925 CCC
191 CCC
* * * *
335928 AAAAACATCGAAACCGATAATTAAAATGTAATAGGTAAATTTCCAATGTAA-CGGTAT-AATATA
1 AAAAACATCGAAACCCATAATTATAATGTAATAGGTAATTTTTCAATGTAACCGGTATAAATATA
* * *
335991 CCA-GTTTTAAGAGAAAATAGGTCTACATAATGTATCGAAAATTTTTAAATTTGTGTCGATACTT
66 -CAGGTTTTATGAGAGAATAGGTCTACATAATGTATCGACAATTTTTAAATTTGTGTCGATACTT
336055 TTTT
130 TTTT
336059 AAATTTCACG
Statistics
Matches: 299, Mismatches: 22, Indels: 13
0.90 0.07 0.04
Matches are distributed among these distances:
191 10 0.03
192 2 0.01
193 122 0.41
196 65 0.22
197 31 0.10
198 69 0.23
ACGTcount: A:0.37, C:0.13, G:0.16, T:0.34
Consensus pattern (193 bp):
AAAAACATCGAAACCCATAATTATAATGTAATAGGTAATTTTTCAATGTAACCGGTATAAATATA
CAGGTTTTATGAGAGAATAGGTCTACATAATGTATCGACAATTTTTAAATTTGTGTCGATACTTT
TTTCAGAATGAATGACTAGGTGCACGCATAAAGTGTCGATAATTTATAAAAAGTATCGATCCC
Found at i:340577 original size:199 final size:198
Alignment explanation
Indices: 340232--341617 Score: 1853
Period size: 199 Copynumber: 7.0 Consensus size: 198
340222 TTCAGTAATC
* * *
340232 TCCAGAATGAATGCCCAACCGAGGTGCATGAATAAAGTGTTGATACATTTATTAAAAGTATCGAT
1 TCCAGAATGAATG-CCAA-CGAGGTGCACGAATAAAGTGTCGATACATTTATAAAAAGTATCGAT
* *
340297 CCCAAAAACATCGAATA-AGATAATTATAATGTAATAGGTAAATTTACAATGTAACCGGTAGATA
64 CCCAAAAACATCGAA-ACCGATAATTATAATGTAATAGGTAAATTTACAATGTAACCGGTAGAAA
* * ** * *
340361 TGTATCAATTAATTAGAAAATATGTCTACATAATATATCGACACTTTTTAAA-TTGTGTCGATAC
128 TATACCGGTTAATTAGAAAATAGGTCTACATAATGTATCGACACTTTTTAAATTTGTGTCGATAC
340425 TTTTTG
193 TTTTTG
340431 TCCAGAATGAATGACCAACCGAGGTGCACGAATAAAGTGTCGATACATTTATAAAAAGTATCGAT
1 TCCAGAATGAATG-CCAA-CGAGGTGCACGAATAAAGTGTCGATACATTTATAAAAAGTATCGAT
*
340496 CCCAAAAACATCGAATA-AGATAATTATAATGTAATAGGTAAATTTACAATGTAACCGGTAGAAA
64 CCCAAAAACATCGAA-ACCGATAATTATAATGTAATAGGTAAATTTACAATGTAACCGGTAGAAA
*
340560 TATACCGGTTTATTAGAAAATAGGTCTACATAATGTATCGACACTTTTTAAATTTGTGTCGATAC
128 TATACCGGTTAATTAGAAAATAGGTCTACATAATGTATCGACACTTTTTAAATTTGTGTCGATAC
*
340625 GTTTTG
193 TTTTTG
* * * * *
340631 ACCAGAATGAATGCCCAACGAGGTGCACAAATAAAGTATCGATACATTTATAAAACGTATTGATC
1 TCCAGAATGAATG-CCAACGAGGTGCACGAATAAAGTGTCGATACATTTATAAAAAGTATCGATC
* * *
340696 CCAAAAACATCGAAACCGATAAATATAATGTAATAGGTAAATTTTCAATATAACCGGTAGAAATA
65 CCAAAAACATCGAAACCGATAATTATAATGTAATAGGTAAATTTACAATGTAACCGGTAGAAATA
* * * * * *
340761 TACCGGATAATTAGAGAATAGGTCTACATCATGTATCGACACTTGTGAAATTTGTGTCGATATTT
130 TACCGGTTAATTAGAAAATAGGTCTACATAATGTATCGACACTTTTTAAATTTGTGTCGATACTT
340826 TTTG
195 TTTG
* * **
340830 TCCAGAATGAATGCCTAA-AAGAGTGCAC-ACATAAAGTGTCGATACATTGA-AAATGGTATCGA
1 TCCAGAATGAATGCC-AACGAG-GTGCACGA-ATAAAGTGTCGATACATTTATAAAAAGTATCGA
* *
340892 TCCCAAAAACATCGAAACCGAAAATTATAATGTAATAGGTAACTTTACAATGTAACCGGTAGAAA
63 TCCCAAAAACATCGAAACCGATAATTATAATGTAATAGGTAAATTTACAATGTAACCGGTAGAAA
*
340957 TATACCGGTTAATTAGAAAATATGTCTACATAATGTATCGACACTTTTTAAATTTGTGTCGATAC
128 TATACCGGTTAATTAGAAAATAGGTCTACATAATGTATCGACACTTTTTAAATTTGTGTCGATAC
*
341022 GTTTTG
193 TTTTTG
* * * * * ** *
341028 ACCAGAAAGAATGCCCAACG-GG-GTACGAATAAAGTATCAATACATTTA-AAATTGTATTGATC
1 TCCAGAATGAATG-CCAACGAGGTGCACGAATAAAGTGTCGATACATTTATAAAAAGTATCGATC
* *
341090 TCAAAAACATCGAAACCGATAATTATAATGTAATAGGTAACTTTACAATGTAACCGGTAGAAATA
65 CCAAAAACATCGAAACCGATAATTATAATGTAATAGGTAAATTTACAATGTAACCGGTAGAAATA
* * * **
341155 TACCGGTTAATTAGAAAATAGGTCTACATCATTTATCGACACTTGTGGAATTTGTGTCGATACTT
130 TACCGGTTAATTAGAAAATAGGTCTACATAATGTATCGACACTTTTTAAATTTGTGTCGATACTT
341220 TTTG
195 TTTG
* * * * **
341224 TCTAGAATGAATGCCTAA-AAGAGTGCACGCATAAAGTGTTGATACATTTA-AAATTGTATCGAT
1 TCCAGAATGAATGCC-AACGAG-GTGCACGAATAAAGTGTCGATACATTTATAAAAAGTATCGAT
* *
341287 CCCAAAAACATCGAAACTGATAATTATAATGTAATAGGTAACTTTACAATGTAACCGGTAGAAAT
64 CCCAAAAACATCGAAACCGATAATTATAATGTAATAGGTAAATTTACAATGTAACCGGTAGAAAT
* * * * *
341352 ATACTGGTTAATTAGAAAATAAGTCTACATAATGTAT--AGACTTTTTAAATTTGCGTCGATACG
129 ATACCGGTTAATTAGAAAATAGGTCTACATAATGTATCGACACTTTTTAAATTTGTGTCGATACT
341415 TTTTG
194 TTTTG
* ** * * *
341420 ACCAGAAAAAATGCCTAACGGGGTGTACGAATAAAGTGTCAATACATTTATAAAAAGTATCGATC
1 TCCAGAATGAATGCC-AACGAGGTGCACGAATAAAGTGTCGATACATTTATAAAAAGTATCGATC
* * * *
341485 CCATAAACATCGAAACCGATAAATATAATATAATAGGTAAATTTTCAATGTAACCGGTAGAAATA
65 CCAAAAACATCGAAACCGATAATTATAATGTAATAGGTAAATTTACAATGTAACCGGTAGAAATA
* * * *
341550 TACCGGTTAATTAGAAAATAGGTCTACATAATGTATCGACACTGTTTAAAGTTGTGTCAAGACTT
130 TACCGGTTAATTAGAAAATAGGTCTACATAATGTATCGACACTTTTTAAATTTGTGTCGATACTT
341615 TTT
195 TTT
341618 TAAATTACCC
Statistics
Matches: 1053, Mismatches: 118, Indels: 32
0.88 0.10 0.03
Matches are distributed among these distances:
195 2 0.00
196 233 0.22
197 109 0.10
198 281 0.27
199 395 0.38
200 33 0.03
ACGTcount: A:0.39, C:0.14, G:0.16, T:0.30
Consensus pattern (198 bp):
TCCAGAATGAATGCCAACGAGGTGCACGAATAAAGTGTCGATACATTTATAAAAAGTATCGATCC
CAAAAACATCGAAACCGATAATTATAATGTAATAGGTAAATTTACAATGTAACCGGTAGAAATAT
ACCGGTTAATTAGAAAATAGGTCTACATAATGTATCGACACTTTTTAAATTTGTGTCGATACTTT
TTG
Found at i:341251 original size:394 final size:396
Alignment explanation
Indices: 340233--341592 Score: 1991
Period size: 394 Copynumber: 3.4 Consensus size: 396
340223 TCAGTAATCT
* * * * ** *
340233 CCAGAATGAATGCCCAACCGAGGTGCATGAATAAAGTGTTGATACATTTATTAAAAGTATCGATC
1 CCAGAAAGAATGCCCAA-CG-GGTGTACGAATAAAGTATCAATACATTTATAAAAAGTATCGATC
* * *
340298 CCAAAAACATCGAATA-AGATAATTATAATGTAATAGGTAAATTTACAATGTAACCGGTAGATAT
64 CCAAAAACATCGAA-ACCGATAAATATAATGTAATAGGTAAATTTACAATGTAACCGGTAGAAAT
* * ** * * * *
340362 GTATCAATTAATTAGAAAATATGTCTACATAATATATCGACACTTTTTAAA-TTGTGTCGATACT
128 ATACCGGTTAATTAGAAAATAGGTCTACATAATGTATCGACACTTGTGAAATTTGTGTCGATACT
** *
340426 TTTTGTCCAGAATGAATGACC-AACCGAGGTGCACGA-ATAAAGTGTCGATACATTTATAAAAAG
193 TTTTGTCCAGAATGAATG-CCTAAAAGA-GTGCAC-ACATAAAGTGTCGATACATTTA-AAATAG
*
340489 TATCGATCCCAAAAACATCGAATA-AGATAATTATAATGTAATAGGTAAATTTACAATGTAACCG
254 TATCGATCCCAAAAACATCGAA-ACAGATAATTATAATGTAATAGGTAACTTTACAATGTAACCG
* *
340553 GTAGAAATATACCGGTTTATTAGAAAATAGGTCTACATAATGTATCGACACTTTTTAAATTTGTG
318 GTAGAAATATACCGGTTAATTAGAAAATAAGTCTACATAATGTATCGACACTTTTTAAATTTGTG
340618 TCGATACGTTTTGA
383 TCGATACGTTTTGA
* * * * * *
340632 CCAGAATGAATGCCCAACGAGGTGCACAAATAAAGTATCGATACATTTATAAAACGTATTGATCC
1 CCAGAAAGAATGCCCAACG-GGTGTACGAATAAAGTATCAATACATTTATAAAAAGTATCGATCC
* *
340697 CAAAAACATCGAAACCGATAAATATAATGTAATAGGTAAATTTTCAATATAACCGGTAGAAATAT
65 CAAAAACATCGAAACCGATAAATATAATGTAATAGGTAAATTTACAATGTAACCGGTAGAAATAT
* * * *
340762 ACCGGATAATTAGAGAATAGGTCTACATCATGTATCGACACTTGTGAAATTTGTGTCGATATTTT
130 ACCGGTTAATTAGAAAATAGGTCTACATAATGTATCGACACTTGTGAAATTTGTGTCGATACTTT
* *
340827 TTGTCCAGAATGAATGCCTAAAAGAGTGCACACATAAAGTGTCGATACATTGAAAATGGTATCGA
195 TTGTCCAGAATGAATGCCTAAAAGAGTGCACACATAAAGTGTCGATACATTTAAAATAGTATCGA
* *
340892 TCCCAAAAACATCGAAACCGAAAATTATAATGTAATAGGTAACTTTACAATGTAACCGGTAGAAA
260 TCCCAAAAACATCGAAACAGATAATTATAATGTAATAGGTAACTTTACAATGTAACCGGTAGAAA
*
340957 TATACCGGTTAATTAGAAAATATGTCTACATAATGTATCGACACTTTTTAAATTTGTGTCGATAC
325 TATACCGGTTAATTAGAAAATAAGTCTACATAATGTATCGACACTTTTTAAATTTGTGTCGATAC
341022 GTTTTGA
390 GTTTTGA
** * *
341029 CCAGAAAGAATGCCCAACGGG-GTACGAATAAAGTATCAATACATTTA-AAATTGTATTGATCTC
1 CCAGAAAGAATGCCCAACGGGTGTACGAATAAAGTATCAATACATTTATAAAAAGTATCGATCCC
* *
341092 AAAAACATCGAAACCGATAATTATAATGTAATAGGTAACTTTACAATGTAACCGGTAGAAATATA
66 AAAAACATCGAAACCGATAAATATAATGTAATAGGTAAATTTACAATGTAACCGGTAGAAATATA
* * *
341157 CCGGTTAATTAGAAAATAGGTCTACATCATTTATCGACACTTGTGGAATTTGTGTCGATACTTTT
131 CCGGTTAATTAGAAAATAGGTCTACATAATGTATCGACACTTGTGAAATTTGTGTCGATACTTTT
* * * *
341222 TGTCTAGAATGAATGCCTAAAAGAGTGCACGCATAAAGTGTTGATACATTTAAAATTGTATCGAT
196 TGTCCAGAATGAATGCCTAAAAGAGTGCACACATAAAGTGTCGATACATTTAAAATAGTATCGAT
*
341287 CCCAAAAACATCGAAACTGATAATTATAATGTAATAGGTAACTTTACAATGTAACCGGTAGAAAT
261 CCCAAAAACATCGAAACAGATAATTATAATGTAATAGGTAACTTTACAATGTAACCGGTAGAAAT
* * *
341352 ATACTGGTTAATTAGAAAATAAGTCTACATAATGTAT--AGACTTTTTAAATTTGCGTCGATACG
326 ATACCGGTTAATTAGAAAATAAGTCTACATAATGTATCGACACTTTTTAAATTTGTGTCGATACG
341415 TTTTGA
391 TTTTGA
* * *
341421 CCAGAAAAAATGCCTAACGGGGTGTACGAATAAAGTGTCAATACATTTATAAAAAGTATCGATCC
1 CCAGAAAGAATGCCCAAC-GGGTGTACGAATAAAGTATCAATACATTTATAAAAAGTATCGATCC
* * *
341486 CATAAACATCGAAACCGATAAATATAATATAATAGGTAAATTTTCAATGTAACCGGTAGAAATAT
65 CAAAAACATCGAAACCGATAAATATAATGTAATAGGTAAATTTACAATGTAACCGGTAGAAATAT
341551 ACCGGTTAATTAGAAAATAGGTCTACATAATGTATCGACACT
130 ACCGGTTAATTAGAAAATAGGTCTACATAATGTATCGACACT
341593 GTTTAAAGTT
Statistics
Matches: 878, Mismatches: 75, Indels: 20
0.90 0.08 0.02
Matches are distributed among these distances:
392 46 0.05
393 3 0.00
394 317 0.36
395 134 0.15
396 3 0.00
397 160 0.18
398 164 0.19
399 51 0.06
ACGTcount: A:0.40, C:0.14, G:0.16, T:0.30
Consensus pattern (396 bp):
CCAGAAAGAATGCCCAACGGGTGTACGAATAAAGTATCAATACATTTATAAAAAGTATCGATCCC
AAAAACATCGAAACCGATAAATATAATGTAATAGGTAAATTTACAATGTAACCGGTAGAAATATA
CCGGTTAATTAGAAAATAGGTCTACATAATGTATCGACACTTGTGAAATTTGTGTCGATACTTTT
TGTCCAGAATGAATGCCTAAAAGAGTGCACACATAAAGTGTCGATACATTTAAAATAGTATCGAT
CCCAAAAACATCGAAACAGATAATTATAATGTAATAGGTAACTTTACAATGTAACCGGTAGAAAT
ATACCGGTTAATTAGAAAATAAGTCTACATAATGTATCGACACTTTTTAAATTTGTGTCGATACG
TTTTGA
Found at i:343218 original size:19 final size:19
Alignment explanation
Indices: 343194--343257 Score: 119
Period size: 19 Copynumber: 3.4 Consensus size: 19
343184 TTGTAGGGGA
343194 AATTTTGTATACGATTCAT
1 AATTTTGTATACGATTCAT
343213 AATTTTGTATACGATTCAT
1 AATTTTGTATACGATTCAT
*
343232 AATTTTGTATACGATTTAT
1 AATTTTGTATACGATTCAT
343251 AATTTTG
1 AATTTTG
343258 AATGTGAATG
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
19 44 1.00
ACGTcount: A:0.31, C:0.08, G:0.11, T:0.50
Consensus pattern (19 bp):
AATTTTGTATACGATTCAT
Found at i:344288 original size:15 final size:15
Alignment explanation
Indices: 344268--344303 Score: 72
Period size: 15 Copynumber: 2.4 Consensus size: 15
344258 GTGTTTTAGT
344268 GCATTCGCGAGTGAA
1 GCATTCGCGAGTGAA
344283 GCATTCGCGAGTGAA
1 GCATTCGCGAGTGAA
344298 GCATTC
1 GCATTC
344304 ATAGACTCAC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.25, C:0.22, G:0.31, T:0.22
Consensus pattern (15 bp):
GCATTCGCGAGTGAA
Found at i:346382 original size:200 final size:199
Alignment explanation
Indices: 346007--346531 Score: 698
Period size: 200 Copynumber: 2.6 Consensus size: 199
345997 GTAAAAATAT
* * *
346007 GTGTCGATACATTT-TCTAAAAGTATCGACCCCAAAAACATCAAAACCAATAATTATAATGTAAT
1 GTGTCGATACATTTAT-TAAAAGTATCGATCCCAAAAACATCGAAACCGATAATTATAATGTAAT
* * * * *
346071 AGGTAAATTAACAATGTAACCGATATAAATATACCGGTTAATTACAAAACAGGTAAACATAATGT
65 AGGTAAATTTACAATGTAACCGATATAAATATACCGGTTTATTAGAAAATAGGTCAACATAATGT
* * *
346136 ATCGACACTTGTGGAATTTGTGTCGATACTTATTGTCAAGAATGAATGCCCAAACGAGGTGCACG
130 ATCAACACTTGTGAAATATGTGTCGATACTTATTGTCAAGAATGAATGCCC-AACGAGGTGCACG
346201 CATAAA
194 CATAAA
* *
346207 GTGTCGATACATTTATTAAAAGTATCGATCCCAAAAACATCGAAACCGATAATAATGATGTAATA
1 GTGTCGATACATTTATTAAAAGTATCGATCCCAAAAACATCGAAACCGATAATTATAATGTAATA
* * *
346272 GGTAAATTTACAATGTAACCGATATAAATATACTGGTTTTATGAGAGAATAGGTCAACATAATGT
66 GGTAAATTTACAATGTAACCGATATAAATATACCGG-TTTATTAGAAAATAGGTCAACATAATGT
* * * * * * * *
346337 ATCAACACTTTTTAAATATGTGTCGATA-TTTTTTTCCATAATGAATGCCCAACTAGGTGCACGT
130 ATCAACACTTGTGAAATATGTGTCGATACTTATTGTCAAGAATGAATGCCCAACGAGGTGCACGC
346401 ATAAA
195 ATAAA
* *
346406 GTGTCGATACATTTA--AAATTGTATCGATCCCAAAAACATCGAAAACGATAATTATAATGTAAT
1 GTGTCGATACATTTATTAAA-AGTATCGATCCCAAAAACATCGAAACCGATAATTATAATGTAAT
* * * * *
346469 AGGTAAATTTGCAATGTCACCGGTATAAATAAACCGGTTTAGTTAGAAAATAGGTCAATATAA
65 AGGTAAATTTACAATGTAACCGATATAAATATACCGGTTTA-TTAGAAAATAGGTCAACATAA
346532 GCGCTACCTA
Statistics
Matches: 285, Mismatches: 36, Indels: 10
0.86 0.11 0.03
Matches are distributed among these distances:
197 7 0.02
198 90 0.32
199 32 0.11
200 110 0.39
201 46 0.16
ACGTcount: A:0.40, C:0.15, G:0.15, T:0.30
Consensus pattern (199 bp):
GTGTCGATACATTTATTAAAAGTATCGATCCCAAAAACATCGAAACCGATAATTATAATGTAATA
GGTAAATTTACAATGTAACCGATATAAATATACCGGTTTATTAGAAAATAGGTCAACATAATGTA
TCAACACTTGTGAAATATGTGTCGATACTTATTGTCAAGAATGAATGCCCAACGAGGTGCACGCA
TAAA
Found at i:346628 original size:87 final size:87
Alignment explanation
Indices: 346526--346688 Score: 272
Period size: 87 Copynumber: 1.9 Consensus size: 87
346516 AAATAGGTCA
* * * *
346526 ATATAAGCGCTACCTATTACATTATATAAGCGCTACCTAATATGTTATTGTACTTGATAATATTT
1 ATATAAGCACTACCTATTACATTATATAAGCGATACCTAATATGTTATTGAACTAGATAATATTT
346591 CCGGTTAAATGCCTATTTTATT
66 CCGGTTAAATGCCTATTTTATT
*
346613 ATATAAGCACTACCTATTACATTATATAAGCGATACCTAATATGTTATTGAACTAGATGATATTT
1 ATATAAGCACTACCTATTACATTATATAAGCGATACCTAATATGTTATTGAACTAGATAATATTT
*
346678 TCGGTTAAATG
66 CCGGTTAAATG
346689 ATATAACATA
Statistics
Matches: 70, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
87 70 1.00
ACGTcount: A:0.34, C:0.15, G:0.12, T:0.39
Consensus pattern (87 bp):
ATATAAGCACTACCTATTACATTATATAAGCGATACCTAATATGTTATTGAACTAGATAATATTT
CCGGTTAAATGCCTATTTTATT
Found at i:346660 original size:23 final size:23
Alignment explanation
Indices: 346610--346654 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
346600 TGCCTATTTT
*
346610 ATTATATAAGCACTACCTATTAC
1 ATTATATAAGCACTACCTAATAC
346633 ATTATATAAGCGA-TACCTAATA
1 ATTATATAAGC-ACTACCTAATA
346655 TGTTATTGAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 19 0.95
24 1 0.05
ACGTcount: A:0.42, C:0.18, G:0.07, T:0.33
Consensus pattern (23 bp):
ATTATATAAGCACTACCTAATAC
Found at i:348897 original size:25 final size:25
Alignment explanation
Indices: 348864--348947 Score: 87
Period size: 25 Copynumber: 3.2 Consensus size: 25
348854 AATAATAATA
348864 ATAATTAAACTAAAATTTCAAAATT
1 ATAATTAAACTAAAATTTCAAAATT
* * *
348889 GTGATTAAATCGAAAAATATTCTCAAAATT
1 ATAATTAAA-C--TAAA-ATT-TCAAAATT
*
348919 ATAATTAAATTAAAATTTCAAAATT
1 ATAATTAAACTAAAATTTCAAAATT
348944 ATAA
1 ATAA
348948 ACTCTCGGAA
Statistics
Matches: 47, Mismatches: 7, Indels: 10
0.73 0.11 0.16
Matches are distributed among these distances:
25 19 0.40
26 4 0.09
27 3 0.06
28 3 0.06
29 3 0.06
30 15 0.32
ACGTcount: A:0.54, C:0.07, G:0.04, T:0.36
Consensus pattern (25 bp):
ATAATTAAACTAAAATTTCAAAATT
Done.