Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A10
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: 111961792
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4980000 characters in sequence are not A, C, G, or T
File 283 of 344
Found at i:95020729 original size:45 final size:45
Alignment explanation
Indices: 95020663--95020757 Score: 147
Period size: 45 Copynumber: 2.1 Consensus size: 45
95020653 ATGTGCTGAC
*
95020663 TACTGTTACTGATTCGACACTTTGTGTGTCGAATACTATTACTGT
1 TACTGTTACAGATTCGACACTTTGTGTGTCGAATACTATTACTGT
* *
95020708 TACTGTTACAGATTC-AGCACTTTGTGTGTTGAATACTGTTACTGT
1 TACTGTTACAGATTCGA-CACTTTGTGTGTCGAATACTATTACTGT
95020753 TACTG
1 TACTG
95020758 CTACTGTTAC
Statistics
Matches: 46, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
44 1 0.02
45 45 0.98
ACGTcount: A:0.22, C:0.17, G:0.19, T:0.42
Consensus pattern (45 bp):
TACTGTTACAGATTCGACACTTTGTGTGTCGAATACTATTACTGT
Found at i:95020752 original size:6 final size:6
Alignment explanation
Indices: 95020741--95020775 Score: 52
Period size: 6 Copynumber: 5.7 Consensus size: 6
95020731 GTGTGTTGAA
*
95020741 TACTGT TACTGT TACTGC TACTGT TACTGAT TACT
1 TACTGT TACTGT TACTGT TACTGT TACTG-T TACT
95020776 ATTTAGGTAC
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
6 21 0.81
7 5 0.19
ACGTcount: A:0.20, C:0.20, G:0.14, T:0.46
Consensus pattern (6 bp):
TACTGT
Found at i:95025368 original size:15 final size:16
Alignment explanation
Indices: 95025334--95025369 Score: 56
Period size: 15 Copynumber: 2.3 Consensus size: 16
95025324 AGAGAATCTT
*
95025334 AAAATAGACAAATTAC
1 AAAATAGACAAATTAA
95025350 AAAATAGAC-AATTAA
1 AAAATAGACAAATTAA
95025365 AAAAT
1 AAAAT
95025370 GTATTCACAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 10 0.53
16 9 0.47
ACGTcount: A:0.67, C:0.08, G:0.06, T:0.19
Consensus pattern (16 bp):
AAAATAGACAAATTAA
Found at i:95027343 original size:47 final size:46
Alignment explanation
Indices: 95027201--95027355 Score: 140
Period size: 44 Copynumber: 3.4 Consensus size: 46
95027191 TCCGCTCCGT
95027201 TGCAACTTCAGGGAGAT-AGGATTG-GTAATCTTCAGTATGCTCCAC
1 TGCAACTTCAGGGAGATAAGGATTGTGT-ATCTTCAGTATGCTCCAC
* * *** *
95027246 TGCAACTTCAGGGAGATAA-GACCTGT-CA-CTTCAACCTGTTCCAC
1 TGCAACTTCAGGGAGATAAGGA-TTGTGTATCTTCAGTATGCTCCAC
* * *
95027290 TGCAACTTCAGCGAGATAAGGTTTGTGTATTCTTCAGTTTGCTCCAC
1 TGCAACTTCAGGGAGATAAGGATTGTGTA-TCTTCAGTATGCTCCAC
* * *
95027337 TACAACTTCAAGAAGATAA
1 TGCAACTTCAGGGAGATAA
95027356 AACTTACTAC
Statistics
Matches: 85, Mismatches: 18, Indels: 12
0.74 0.16 0.10
Matches are distributed among these distances:
44 33 0.39
45 22 0.26
46 3 0.04
47 27 0.32
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.29
Consensus pattern (46 bp):
TGCAACTTCAGGGAGATAAGGATTGTGTATCTTCAGTATGCTCCAC
Found at i:95027354 original size:91 final size:90
Alignment explanation
Indices: 95027201--95027405 Score: 236
Period size: 91 Copynumber: 2.3 Consensus size: 90
95027191 TCCGCTCCGT
* * * * *
95027201 TGCAACTTCAGGGAGAT-AGGATTGGTAATCTTCAGTATGCTCCACTGCAACTTCAGGGAGATAA
1 TGCAACTTCAGAGAGATAAGGTTTGGTAATCTTCAGTATGCTCCACTACAACTTCAAGAAGATAA
* *
95027265 GACCTGT-C-ACTTCAACCTGTTCCAC
66 -AACT-TACTACTTCAACCTGCTCCAC
* * *
95027290 TGCAACTTCAGCGAGATAAGGTTTGTGTATTCTTCAGTTTGCTCCACTACAACTTCAAGAAGATA
1 TGCAACTTCAGAGAGATAAGGTTTG-GTAATCTTCAGTATGCTCCACTACAACTTCAAGAAGATA
* *
95027355 AAACTTACTACTTCAACCTGCTCTAT
65 AAACTTACTACTTCAACCTGCTCCAC
* *
95027381 TGCAATTTCAGAGAGGTAAGGTTTG
1 TGCAACTTCAGAGAGATAAGGTTTG
95027406 CTTTCTTCGA
Statistics
Matches: 98, Mismatches: 14, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
89 17 0.17
90 10 0.10
91 71 0.72
ACGTcount: A:0.28, C:0.22, G:0.20, T:0.30
Consensus pattern (90 bp):
TGCAACTTCAGAGAGATAAGGTTTGGTAATCTTCAGTATGCTCCACTACAACTTCAAGAAGATAA
AACTTACTACTTCAACCTGCTCCAC
Found at i:95027826 original size:223 final size:222
Alignment explanation
Indices: 95027478--95027891 Score: 652
Period size: 223 Copynumber: 1.9 Consensus size: 222
95027468 CGCTGCAACT
* * ** *
95027478 TCAGGGAGATAAGACTGGTGGCTAAAATCTGCTCCCCGCCTACCTCAGGAAGATACGATTCACTG
1 TCAGGGAGATAAGACTAGCGGCTAAAATCTGCTCCCCGCCTACCTCAGGAAGATAAAATTCACCG
* * * *
95027543 TCTTCGATCTACTCCACTGCTATCTCAGGGAGATAATATCTTCAATCTTTAGTTTGCTTCCTTGC
66 TCTTCGATCTACTCCACTGCTAACTCAGGGAGATAAAATCTTCAATCTTCAGTCTGCTTCCTTGC
* *
95027608 TACCTCCGGAAGATAAGACTACAATCTCCAGCCTGCCCCCTTGCTACCTCAAGGAGATAAGACTA
131 TACCTCAGGAAGATAAGACTACAATCTCCAGCCTGCCCCATTGCTACCTCAAGGAGATAAGACTA
95027673 CAATATCCAACCTGGCCCCTTACTACC
196 CAATATCCAACCTGGCCCCTTACTACC
*
95027700 TCAGGGAGATAAGGCTAGCGGCTAAAATCTGCTCCCCTG-CTACCTC-GGAAAGATAAAATTCAC
1 TCAGGGAGATAAGACTAGCGGCTAAAATCTGCTCCCC-GCCTACCTCAGG-AAGATAAAATTCAC
* *
95027763 CGTTTTTCGATCTGCTCCACTGCTAACTCAGGGAGATAAAATCTTCAATCTTCAGTCTGCTTCCT
64 CG-TCTTCGATCTACTCCACTGCTAACTCAGGGAGATAAAATCTTCAATCTTCAGTCTGCTTCCT
*
95027828 TGCTACCTCAGGAAGATAAGACTACAATCTTCAGCCTGCCCCATTGCTACCTCAAGGAGATAAG
128 TGCTACCTCAGGAAGATAAGACTACAATCTCCAGCCTGCCCCATTGCTACCTCAAGGAGATAAG
95027892 GCTAATGGCT
Statistics
Matches: 174, Mismatches: 15, Indels: 5
0.90 0.08 0.03
Matches are distributed among these distances:
221 2 0.01
222 54 0.31
223 118 0.68
ACGTcount: A:0.27, C:0.29, G:0.18, T:0.26
Consensus pattern (222 bp):
TCAGGGAGATAAGACTAGCGGCTAAAATCTGCTCCCCGCCTACCTCAGGAAGATAAAATTCACCG
TCTTCGATCTACTCCACTGCTAACTCAGGGAGATAAAATCTTCAATCTTCAGTCTGCTTCCTTGC
TACCTCAGGAAGATAAGACTACAATCTCCAGCCTGCCCCATTGCTACCTCAAGGAGATAAGACTA
CAATATCCAACCTGGCCCCTTACTACC
Found at i:95027875 original size:44 final size:43
Alignment explanation
Indices: 95027602--95027891 Score: 160
Period size: 44 Copynumber: 6.5 Consensus size: 43
95027592 TAGTTTGCTT
* *
95027602 CCTTGCTACCTCCGGAAGATAAGACTACAATCTCCAGCCTGCCC
1 CCTTGCTACCTCAGGAAGATAAGACTACAATCTTCAGCCTG-CC
* * *
95027646 CCTTGCTACCTCAAGG-AGATAAGACTACAATATCCAACCTGGCC
1 CCTTGCTACCTC-AGGAAGATAAGACTACAATCTTCAGCCT-GCC
* * * ** ** **
95027690 CCTTACTACCTCAGGGAGATAAGGCTAGC-GGCTAAAATCTGCTC
1 CCTTGCTACCTCAGGAAGATAAGACTA-CAATCTTCAGCCTGC-C
* * * ** * *
95027734 CCCTGCTACCTC-GGAAAGATAAAATTCACCGTTTTTC-GATCTGCTC
1 CCTTGCTACCTCAGG-AAGATAAGACT-A-CAATCTTCAG-CCTGC-C
* * * * * *
95027780 CAC-TGCTAACTCAGGGAGATAAAATCTTCAATCTTCAGTCTGCTT
1 C-CTTGCTACCTCAGGAAGATAAGA-CTACAATCTTCAGCCTGC-C
95027825 CCTTGCTACCTCAGGAAGATAAGACTACAATCTTCAGCCTGCC
1 CCTTGCTACCTCAGGAAGATAAGACTACAATCTTCAGCCTGCC
95027868 CCATTGCTACCTCAAGG-AGATAAG
1 CC-TTGCTACCTC-AGGAAGATAAG
95027892 GCTAATGGCT
Statistics
Matches: 192, Mismatches: 38, Indels: 32
0.73 0.15 0.12
Matches are distributed among these distances:
43 9 0.05
44 114 0.59
45 39 0.20
46 26 0.14
47 4 0.02
ACGTcount: A:0.28, C:0.30, G:0.17, T:0.24
Consensus pattern (43 bp):
CCTTGCTACCTCAGGAAGATAAGACTACAATCTTCAGCCTGCC
Found at i:95027924 original size:223 final size:217
Alignment explanation
Indices: 95027461--95027924 Score: 599
Period size: 223 Copynumber: 2.1 Consensus size: 217
95027451 TAATCTTCAG
* * * * *
95027461 TCTACTCCGCTGCAACTTCAGGGAGATAAGACTGGTGGCTAAAATCTGCTCCCCGCCTACCTCAG
1 TCTACTCCCCTGCTACCTCAGGGAGATAAGACTAGCGGCTAAAATCTGCTCCCCGCCTACCTCAG
** * * *
95027526 GAAGATACGATTCACTGTCTTCGATCTACTCCACTGCTATCTCAGGGAGATAATATCTTCAATCT
66 GAAGATAAAATTCACCGTCTTCGATCTACTCCACTGCTAACTCAGGGAGATAAAATCTTCAATCT
* * * *
95027591 TTAGTTTGCTTCCTTGCTACCTCCGGAAGATAAGACTACAATCTCCAGCCTGCCCCCTTGCTACC
131 TCAGTCTGCTTCCTTGCTACCTCAGGAAGATAAGACTACAATCTCCAGCCTGCCCCATTGCTACC
*
95027656 TCAAGGAGATAAGACTACAATA
196 TCAAGGAGATAAGACTACAAAA
* * *
95027678 TCCAACCTGGCCCCTTACTACCTCAGGGAGATAAGGCTAGCGGCTAAAATCTGCTCCCCTG-CTA
1 T-CTA-CT--CCCC-TGCTACCTCAGGGAGATAAGACTAGCGGCTAAAATCTGCTCCCC-GCCTA
* *
95027742 CCTC-GGAAAGATAAAATTCACCGTTTTTCGATCTGCTCCACTGCTAACTCAGGGAGATAAAATC
60 CCTCAGG-AAGATAAAATTCACCG-TCTTCGATCTACTCCACTGCTAACTCAGGGAGATAAAATC
*
95027806 TTCAATCTTCAGTCTGCTTCCTTGCTACCTCAGGAAGATAAGACTACAATCTTCAGCCTGCCCCA
123 TTCAATCTTCAGTCTGCTTCCTTGCTACCTCAGGAAGATAAGACTACAATCTCCAGCCTGCCCCA
*
95027871 TTGCTACCTCAAGGAGATAAGGCTAATGGCTAAAA
188 TTGCTACCTCAAGGAGATAAGACT-A---C-AAAA
95027906 TCTACTCCCCTGCTACCTC
1 TCTACTCCCCTGCTACCTC
95027925 GGAAAGATAA
Statistics
Matches: 210, Mismatches: 24, Indels: 20
0.83 0.09 0.08
Matches are distributed among these distances:
217 1 0.00
218 2 0.01
219 2 0.01
221 5 0.02
222 58 0.28
223 128 0.61
224 5 0.02
226 2 0.01
227 3 0.01
228 4 0.02
ACGTcount: A:0.27, C:0.30, G:0.17, T:0.27
Consensus pattern (217 bp):
TCTACTCCCCTGCTACCTCAGGGAGATAAGACTAGCGGCTAAAATCTGCTCCCCGCCTACCTCAG
GAAGATAAAATTCACCGTCTTCGATCTACTCCACTGCTAACTCAGGGAGATAAAATCTTCAATCT
TCAGTCTGCTTCCTTGCTACCTCAGGAAGATAAGACTACAATCTCCAGCCTGCCCCATTGCTACC
TCAAGGAGATAAGACTACAAAA
Found at i:95028034 original size:178 final size:177
Alignment explanation
Indices: 95027646--95028207 Score: 795
Period size: 178 Copynumber: 3.2 Consensus size: 177
95027636 CAGCCTGCCC
* * * *
95027646 CCTTGCTACCTCAAGG-AGATAAGACTACAATATCCAACCTGGCCCCTTACTACCTCAGGGAGAT
1 CCTTGCTACCTC-AGGAAGATAAGACTACAATCTTCAGCCT-GCCCCTTGCTACCTCAGGGAGAT
* * *
95027710 AAGGCTAGCGGCTAAAATCTGCTCCCCTGCTACCTCGGAAAGATAAAATTCACCGTTTTTCGATC
64 AAGGCTAGTGGCTAAAATCTGCTCCCCTGCTACCTCGGAAAGATAAGATTCACCGTCTTT-GATC
* *
95027775 TGCTCCACTGCTAACTCAGGGAGATAAAATCTTCAATCTTCAGTCTGCTT
128 TGCTCCACTGCTATCTCAGGGAGATAAAATCTTTAATCTTCAGTCTGCTT
*
95027825 CCTTGCTACCTCAGGAAGATAAGACTACAATCTTCAGCCTGCCCCATTGCTACCTCAAGGAGATA
1 CCTTGCTACCTCAGGAAGATAAGACTACAATCTTCAGCCTGCCCC-TTGCTACCTCAGGGAGATA
* *
95027890 AGGCTAATGGCTAAAATCTACTCCCCTGCTACCTCGGAAAGATAAGATTCACCGTCTTTGATCTG
65 AGGCTAGTGGCTAAAATCTGCTCCCCTGCTACCTCGGAAAGATAAGATTCACCGTCTTTGATCTG
* *
95027955 TTCTACTGCTATCTCAGGGAGATAAAATCTTTAATCTTCAGTCTGCTT
130 CTCCACTGCTATCTCAGGGAGATAAAATCTTTAATCTTCAGTCTGCTT
* ** *
95028003 CCTTGCTAACTCAGGAAGATAAGACTACAATCTTTGGCCTGCTCTCTTGCTACCTCAGGGAGATA
1 CCTTGCTACCTCAGGAAGATAAGACTACAATCTTCAGCCTGC-CCCTTGCTACCTCAGGGAGATA
* ** * *
95028068 AGGCTGGTGGCTAAAATCTGCTCCCCTGCTACCTC-GAGAAGATAAGATTTGCCATCTTCGATCT
65 AGGCTAGTGGCTAAAATCTGCTCCCCTGCTACCTCGGA-AAGATAAGATTCACCGTCTTTGATCT
* * *
95028132 GCTCCACTGCTATCTCAGGGAGATGAGATCTTTAATCTTCAGTCTACTT
129 GCTCCACTGCTATCTCAGGGAGATAAAATCTTTAATCTTCAGTCTGCTT
* * *
95028181 TCTTGGTACCTCAAGAAGATAAGACTA
1 CCTTGCTACCTCAGGAAGATAAGACTA
95028208 ATGGCTAAAA
Statistics
Matches: 344, Mismatches: 35, Indels: 9
0.89 0.09 0.02
Matches are distributed among these distances:
177 2 0.01
178 236 0.69
179 106 0.31
ACGTcount: A:0.27, C:0.27, G:0.18, T:0.28
Consensus pattern (177 bp):
CCTTGCTACCTCAGGAAGATAAGACTACAATCTTCAGCCTGCCCCTTGCTACCTCAGGGAGATAA
GGCTAGTGGCTAAAATCTGCTCCCCTGCTACCTCGGAAAGATAAGATTCACCGTCTTTGATCTGC
TCCACTGCTATCTCAGGGAGATAAAATCTTTAATCTTCAGTCTGCTT
Found at i:95028220 original size:134 final size:134
Alignment explanation
Indices: 95028047--95028341 Score: 455
Period size: 134 Copynumber: 2.2 Consensus size: 134
95028037 TGGCCTGCTC
* * **
95028047 TCTTGCTACCTCAGGGAGATAAGGCTGGTGGCTAAAATCTGCTCCCCTGCTACCTCGAGAAGATA
1 TCTTGCTACCTCAGGAAGATAAGACTAATGGCTAAAATCTGCTCCCCTGCTACCTCGAGAAGATA
* * * *
95028112 AGATTTGCCATCTTCGATCTGCTCCACTGCTATCTCAGGGAGATGAGATCTTTAATCTTCAGTCT
66 AGATTCGCCATCTTCGATCTACTCCACTACTATCTCAGGGAGATGAGATCTTCAATCTTCAGTCT
95028177 ACTT
131 ACTT
* * *
95028181 TCTTGGTACCTCAAGAAGATAAGACTAATGGCTAAAATCTGCTCCCCTGCTACCTCGAGAATATA
1 TCTTGCTACCTCAGGAAGATAAGACTAATGGCTAAAATCTGCTCCCCTGCTACCTCGAGAAGATA
* *
95028246 AGATTCGCCATCTTCGATCTACTCTACTACTATCTCAGGGAGATGAGATCTTCAATCTTCAGTTT
66 AGATTCGCCATCTTCGATCTACTCCACTACTATCTCAGGGAGATGAGATCTTCAATCTTCAGTCT
*
95028311 GCTT
131 ACTT
*
95028315 CCTTGCTACCTCAGGAAGATAAGACTA
1 TCTTGCTACCTCAGGAAGATAAGACTA
95028342 CAATCTTCAG
Statistics
Matches: 144, Mismatches: 17, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
134 144 1.00
ACGTcount: A:0.26, C:0.25, G:0.19, T:0.30
Consensus pattern (134 bp):
TCTTGCTACCTCAGGAAGATAAGACTAATGGCTAAAATCTGCTCCCCTGCTACCTCGAGAAGATA
AGATTCGCCATCTTCGATCTACTCCACTACTATCTCAGGGAGATGAGATCTTCAATCTTCAGTCT
ACTT
Found at i:95028230 original size:312 final size:312
Alignment explanation
Indices: 95027875--95028449 Score: 882
Period size: 312 Copynumber: 1.8 Consensus size: 312
95027865 GCCCCATTGC
* *
95027875 TACCTCAAGGAGATAAGGCTAATGGCTAAAATCTACTCCCCTGCTACCTCG-GAAAGATAAGATT
1 TACCTCAAGAAGATAAGACTAATGGCTAAAATCTACTCCCCTGCTACCTCGAG-AAGATAAGATT
* * ** * *
95027939 CACCGTCTTTGATCTGTTCTACTGCTATCTCAGGGAGATAAAATCTTTAATCTTCAGTCTGCTTC
65 CACCATCTTCGATCTACTCTACTACTATCTCAGGGAGATAAAATCTTCAATCTTCAGTCTGCTTC
** * * * *
95028004 CTTGCTAACTCAGGAAGATAAGACTACAATCTTTGGCCTGCTCTCTTGCTACCTCAGGGAGATAA
130 CTTGCTAACTCAGGAAGATAAGACTACAATCTTCAGCCTACTCCCTTGCTACCCCAAGGAGATAA
* * *
95028069 GGCTGGTGGCTAAAATCTGCTCCCCTGCTACCTCGAGAAGATAAGATTTGCCATCTTCGATCTGC
195 GGCTAGTGGCTAAAATCTGCTCCCCTACTACCTCGAGAAGATAAGATTCGCCATCTTCGATCTGC
95028134 TCCACTGCTATCTCAGGGAGATGAGATCTTTAATCTTCAGTCTACTTTCTTGG
260 TCCACTGCTATCTCAGGGAGATGAGATCTTTAATCTTCAGTCTACTTTCTTGG
* *
95028187 TACCTCAAGAAGATAAGACTAATGGCTAAAATCTGCTCCCCTGCTACCTCGAGAATATAAGATTC
1 TACCTCAAGAAGATAAGACTAATGGCTAAAATCTACTCCCCTGCTACCTCGAGAAGATAAGATTC
* * * *
95028252 GCCATCTTCGATCTACTCTACTACTATCTCAGGGAGATGAGATCTTCAATCTTCAGTTTGCTTCC
66 ACCATCTTCGATCTACTCTACTACTATCTCAGGGAGATAAAATCTTCAATCTTCAGTCTGCTTCC
*
95028317 TTGCTACCTCAGGAAGATAAGACTACAATCTTCAGCCTACTCCCTTGCTACCCCAAGGAGATAAG
131 TTGCTAACTCAGGAAGATAAGACTACAATCTTCAGCCTACTCCCTTGCTACCCCAAGGAGATAAG
* * * *
95028382 TCTAGTGGCTAAAATTTGCTCCCCTACTACCTCGGGAAGCTAAGATTCGCCATCTTCGATCTGCT
196 GCTAGTGGCTAAAATCTGCTCCCCTACTACCTCGAGAAGATAAGATTCGCCATCTTCGATCTGCT
95028447 CCA
261 CCA
95028450 TTACTACCTC
Statistics
Matches: 234, Mismatches: 28, Indels: 2
0.89 0.11 0.01
Matches are distributed among these distances:
312 233 1.00
313 1 0.00
ACGTcount: A:0.26, C:0.26, G:0.18, T:0.30
Consensus pattern (312 bp):
TACCTCAAGAAGATAAGACTAATGGCTAAAATCTACTCCCCTGCTACCTCGAGAAGATAAGATTC
ACCATCTTCGATCTACTCTACTACTATCTCAGGGAGATAAAATCTTCAATCTTCAGTCTGCTTCC
TTGCTAACTCAGGAAGATAAGACTACAATCTTCAGCCTACTCCCTTGCTACCCCAAGGAGATAAG
GCTAGTGGCTAAAATCTGCTCCCCTACTACCTCGAGAAGATAAGATTCGCCATCTTCGATCTGCT
CCACTGCTATCTCAGGGAGATGAGATCTTTAATCTTCAGTCTACTTTCTTGG
Found at i:95028329 original size:45 final size:44
Alignment explanation
Indices: 95028279--95028381 Score: 116
Period size: 44 Copynumber: 2.3 Consensus size: 44
95028269 CTACTACTAT
* * ** * *
95028279 CTCAGGGAGATGAGATCTTCAATCTTCAGTTTGCTTCCTTGCTAC
1 CTCAGGGAGATAAGA-CTACAATCTTCAGCCTACTCCCTTGCTAC
*
95028324 CTCAGGAAGATAAGACTACAATCTTCAGCCTACTCCCTTGCTAC
1 CTCAGGGAGATAAGACTACAATCTTCAGCCTACTCCCTTGCTAC
* *
95028368 CCCAAGGAGATAAG
1 CTCAGGGAGATAAG
95028382 TCTAGTGGCT
Statistics
Matches: 48, Mismatches: 10, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
44 35 0.73
45 13 0.27
ACGTcount: A:0.27, C:0.27, G:0.18, T:0.27
Consensus pattern (44 bp):
CTCAGGGAGATAAGACTACAATCTTCAGCCTACTCCCTTGCTAC
Found at i:95029741 original size:11 final size:11
Alignment explanation
Indices: 95029727--95029780 Score: 57
Period size: 10 Copynumber: 5.5 Consensus size: 11
95029717 TTTTTCTCTT
95029727 TTTTTTATTGA
1 TTTTTTATTGA
95029738 --TTTT-TT-A
1 TTTTTTATTGA
95029745 TTTTTTATTGA
1 TTTTTTATTGA
95029756 TTTTTTATT-A
1 TTTTTTATTGA
*
95029766 TTATTT-TTGA
1 TTTTTTATTGA
95029776 TTTTT
1 TTTTT
95029781 GATTTTTGAT
Statistics
Matches: 36, Mismatches: 2, Indels: 11
0.73 0.04 0.22
Matches are distributed among these distances:
7 1 0.03
8 2 0.06
9 10 0.28
10 13 0.36
11 10 0.28
ACGTcount: A:0.17, C:0.00, G:0.06, T:0.78
Consensus pattern (11 bp):
TTTTTTATTGA
Found at i:95029747 original size:7 final size:7
Alignment explanation
Indices: 95029737--95029801 Score: 51
Period size: 7 Copynumber: 8.9 Consensus size: 7
95029727 TTTTTTATTG
95029737 ATTTTTT
1 ATTTTTT
95029744 ATTTTTT
1 ATTTTTT
95029751 ATTGATTTT
1 ATT--TTTT
95029760 -TTATTATT
1 ATT-TT-TT
*
95029768 ATTTTTG
1 ATTTTTT
*
95029775 ATTTTTG
1 ATTTTTT
*
95029782 ATTTTTG
1 ATTTTTT
95029789 ATTTTTT
1 ATTTTTT
*
95029796 GTTTTT
1 ATTTTT
95029802 GGGTCTGAAG
Statistics
Matches: 51, Mismatches: 3, Indels: 8
0.82 0.05 0.13
Matches are distributed among these distances:
7 39 0.76
8 6 0.12
9 6 0.12
ACGTcount: A:0.15, C:0.00, G:0.08, T:0.77
Consensus pattern (7 bp):
ATTTTTT
Found at i:95029748 original size:18 final size:18
Alignment explanation
Indices: 95029727--95029787 Score: 86
Period size: 18 Copynumber: 3.3 Consensus size: 18
95029717 TTTTTCTCTT
95029727 TTTTTTATTGATTTTTTA
1 TTTTTTATTGATTTTTTA
95029745 TTTTTTATTGATTTTTTA
1 TTTTTTATTGATTTTTTA
* *
95029763 TTATTATTTTTGATTTTTGA
1 TT-TT-TTATTGATTTTTTA
95029783 TTTTT
1 TTTTT
95029788 GATTTTTTGT
Statistics
Matches: 39, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
18 21 0.54
19 4 0.10
20 14 0.36
ACGTcount: A:0.16, C:0.00, G:0.07, T:0.77
Consensus pattern (18 bp):
TTTTTTATTGATTTTTTA
Found at i:95029796 original size:8 final size:7
Alignment explanation
Indices: 95029752--95029794 Score: 61
Period size: 7 Copynumber: 6.3 Consensus size: 7
95029742 TTATTTTTTA
95029752 TTGATTT
1 TTGATTT
* *
95029759 TTTATTA
1 TTGATTT
95029766 TT-ATTT
1 TTGATTT
95029772 TTGATTT
1 TTGATTT
95029779 TTGATTT
1 TTGATTT
95029786 TTGATTT
1 TTGATTT
95029793 TT
1 TT
95029795 TGTTTTTGGG
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
6 5 0.16
7 27 0.84
ACGTcount: A:0.16, C:0.00, G:0.09, T:0.74
Consensus pattern (7 bp):
TTGATTT
Found at i:95030370 original size:21 final size:19
Alignment explanation
Indices: 95030346--95030397 Score: 54
Period size: 19 Copynumber: 2.7 Consensus size: 19
95030336 ATAACCTTTG
95030346 TTTTATTATTTTTATTCTTCT
1 TTTTATTATTTTTATT-TT-T
95030367 TTTTA-T-TTTTTATTTTT
1 TTTTATTATTTTTATTTTT
*
95030384 TATTTTTTATTTTT
1 T-TTTATTATTTTT
95030398 TACTTTTGTT
Statistics
Matches: 27, Mismatches: 1, Indels: 7
0.77 0.03 0.20
Matches are distributed among these distances:
17 2 0.07
18 5 0.19
19 9 0.33
20 6 0.22
21 5 0.19
ACGTcount: A:0.13, C:0.04, G:0.00, T:0.83
Consensus pattern (19 bp):
TTTTATTATTTTTATTTTT
Found at i:95030375 original size:6 final size:6
Alignment explanation
Indices: 95030351--95030416 Score: 51
Period size: 7 Copynumber: 10.3 Consensus size: 6
95030341 CTTTGTTTTA
* * *
95030351 TTATTT TTATTC TTCTTT TTATTTT TTATTTT TTATTTT TTATTTT TTACTT
1 TTATTT TTATTT TTATTT TTA-TTT TTA-TTT TTA-TTT TTA-TTT TTATTT
* *
95030403 TTGTTT TTCTTT TT
1 TTATTT TTATTT TT
95030417 GGCTGCCTTT
Statistics
Matches: 51, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
6 24 0.47
7 27 0.53
ACGTcount: A:0.11, C:0.06, G:0.02, T:0.82
Consensus pattern (6 bp):
TTATTT
Found at i:95030410 original size:21 final size:20
Alignment explanation
Indices: 95030342--95030410 Score: 70
Period size: 21 Copynumber: 3.5 Consensus size: 20
95030332 CACTATAACC
*
95030342 TTTGTTTTATTA-TTTTTAT
1 TTTGTTTTTTTATTTTTTAT
* *
95030361 TCT-TCTTTTTATTTTTTAT
1 TTTGTTTTTTTATTTTTTAT
*
95030380 TTTTTATTTTTTATTTTTTACT
1 TTTGT-TTTTTTATTTTTTA-T
95030402 TTTGTTTTT
1 TTTGTTTTT
95030411 CTTTTTGGCT
Statistics
Matches: 40, Mismatches: 6, Indels: 6
0.77 0.12 0.12
Matches are distributed among these distances:
18 6 0.15
19 11 0.28
20 1 0.03
21 17 0.43
22 5 0.12
ACGTcount: A:0.12, C:0.04, G:0.03, T:0.81
Consensus pattern (20 bp):
TTTGTTTTTTTATTTTTTAT
Found at i:95030416 original size:7 final size:7
Alignment explanation
Indices: 95030366--95030404 Score: 69
Period size: 7 Copynumber: 5.4 Consensus size: 7
95030356 TTTATTCTTC
95030366 TTTTTAT
1 TTTTTAT
95030373 TTTTTAT
1 TTTTTAT
95030380 TTTTTAT
1 TTTTTAT
95030387 TTTTTAT
1 TTTTTAT
95030394 TTTTTACT
1 TTTTTA-T
95030402 TTT
1 TTT
95030405 GTTTTTCTTT
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
7 27 0.87
8 4 0.13
ACGTcount: A:0.13, C:0.03, G:0.00, T:0.85
Consensus pattern (7 bp):
TTTTTAT
Found at i:95035665 original size:16 final size:16
Alignment explanation
Indices: 95035644--95035695 Score: 77
Period size: 16 Copynumber: 3.2 Consensus size: 16
95035634 ACTTATTCGC
*
95035644 TGTATTGGATTAGAGA
1 TGTATTGGATTAGAGG
95035660 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
* *
95035676 TGTAATGGAATAGAGG
1 TGTATTGGATTAGAGG
95035692 TGTA
1 TGTA
95035696 ATAGCAAATC
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 33 1.00
ACGTcount: A:0.31, C:0.00, G:0.35, T:0.35
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:95035953 original size:18 final size:17
Alignment explanation
Indices: 95035931--95035965 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
95035921 TTATTATTAA
*
95035931 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
95035949 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
95035966 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:95036024 original size:61 final size:61
Alignment explanation
Indices: 95035946--95036265 Score: 238
Period size: 61 Copynumber: 5.3 Consensus size: 61
95035936 TTTTAATTAA
* *
95035946 AATATATAAT-TTAATAAAATTCTTAATAATTAATATTCTGATATGAATTTACTCAAATAAT
1 AATATATAATACT-ATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAATAAT
* * * * * * *
95036007 AATATATGATACTATAAAA-TATAAATTAACATAATTATTATTAAAT--ATATTA-T-AATTAA-
1 AATATATAATACTATAAAATTCTTAA-TAA-TTAA-TATTCTTATATGAAT-TTACTCAAATAAT
* *
95036066 AATATATAAT-TTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAATCAT
1 AATATATAATACT-ATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAATAAT
* ** * * * * *
95036127 AATATATGATACTATAAAA--GATAAT--TTAACATAATTATTAT-TAAATATATCTTAATTAA-
1 AATATATAATACTATAAAATTCTTAATAATT-A-AT-ATTCTTATATGAATTTA-CTCAAATAAT
* *
95036186 AATATATAAT-TTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAATCAT
1 AATATATAATACT-ATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAATAAT
*
95036247 AATATATTATACTATAAAA
1 AATATATAATACTATAAAA
95036266 GATAATTTGA
Statistics
Matches: 194, Mismatches: 40, Indels: 50
0.68 0.14 0.18
Matches are distributed among these distances:
57 11 0.06
58 9 0.05
59 48 0.25
60 43 0.22
61 63 0.32
62 10 0.05
63 10 0.05
ACGTcount: A:0.49, C:0.06, G:0.02, T:0.42
Consensus pattern (61 bp):
AATATATAATACTATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAATAAT
Found at i:95036079 original size:14 final size:15
Alignment explanation
Indices: 95036030--95036081 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
95036020 ATAAAATATA
95036030 AATTAACATA-ATTAT
1 AATTAA-ATATATTAT
*
95036045 TATTAAATATATTAT
1 AATTAAATATATTAT
95036060 AATTAAA-ATA-TAT
1 AATTAAATATATTAT
*
95036073 AATTTAATA
1 AATTAAATA
95036082 AAATTCTTAA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 9 0.28
14 7 0.22
15 16 0.50
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (15 bp):
AATTAAATATATTAT
Found at i:95036337 original size:120 final size:120
Alignment explanation
Indices: 95035917--95036326 Score: 723
Period size: 120 Copynumber: 3.4 Consensus size: 120
95035907 ATATTTAAAT
95035917 ATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAATAT
1 ATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAATAT
* * * *
95035982 TCTGATATGAATTTACTCAAATAATAATATATGATACTATAAAATATAAATTAAC
66 TCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATAATTTAAC
*
95036037 ATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAATAT
1 ATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAATAT
95036102 TCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATAATTTAAC
66 TCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATAATTTAAC
*
95036157 ATAATTATTATTAAATATATCTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAATAT
1 ATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAATAT
*
95036222 TCTTATATGAATTTACTCAAATCATAATATATTATACTATAAAAGATAATTTGAA-
66 TCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATAATTT-AAC
* *
95036277 ATAATTAATATTAAATATATTTTAATTAAAATATATGATTTAATAAAATT
1 ATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATT
95036327 TAAAATAATT
Statistics
Matches: 278, Mismatches: 11, Indels: 2
0.96 0.04 0.01
Matches are distributed among these distances:
120 276 0.99
121 2 0.01
ACGTcount: A:0.50, C:0.05, G:0.02, T:0.43
Consensus pattern (120 bp):
ATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAATAT
TCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATAATTTAAC
Found at i:95036415 original size:37 final size:38
Alignment explanation
Indices: 95036365--95036445 Score: 146
Period size: 38 Copynumber: 2.2 Consensus size: 38
95036355 TAAGTGAGTA
95036365 AGAATTGAACTCTAAAAA-AAAAAAAACATAACCATAT
1 AGAATTGAACTCTAAAAATAAAAAAAACATAACCATAT
95036402 AGAATTGAACTCTAAAAATAAAAAAAACATAACCATAT
1 AGAATTGAACTCTAAAAATAAAAAAAACATAACCATAT
*
95036440 TGAATT
1 AGAATT
95036446 ATCATCAACA
Statistics
Matches: 42, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
37 18 0.43
38 24 0.57
ACGTcount: A:0.59, C:0.12, G:0.06, T:0.22
Consensus pattern (38 bp):
AGAATTGAACTCTAAAAATAAAAAAAACATAACCATAT
Found at i:95039624 original size:15 final size:16
Alignment explanation
Indices: 95039590--95039625 Score: 56
Period size: 15 Copynumber: 2.3 Consensus size: 16
95039580 AGAGAATTTT
*
95039590 AAAATAGACAAATTAC
1 AAAATAGACAAATTAA
95039606 AAAATAGAC-AATTAA
1 AAAATAGACAAATTAA
95039621 AAAAT
1 AAAAT
95039626 GTATTCATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 10 0.53
16 9 0.47
ACGTcount: A:0.67, C:0.08, G:0.06, T:0.19
Consensus pattern (16 bp):
AAAATAGACAAATTAA
Found at i:95041708 original size:24 final size:24
Alignment explanation
Indices: 95041681--95041735 Score: 78
Period size: 24 Copynumber: 2.3 Consensus size: 24
95041671 AATAAACAGA
*
95041681 AAAATAGAAATAAAAACTAAAAAT
1 AAAATAGAAATAAAAAATAAAAAT
95041705 AAAACTA-AAATAAAAAATAAAAAT
1 AAAA-TAGAAATAAAAAATAAAAAT
95041729 -AAATAGA
1 AAAATAGA
95041736 CTCAATAGTC
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
22 2 0.07
23 4 0.14
24 20 0.71
25 2 0.07
ACGTcount: A:0.76, C:0.04, G:0.04, T:0.16
Consensus pattern (24 bp):
AAAATAGAAATAAAAAATAAAAAT
Found at i:95041720 original size:6 final size:6
Alignment explanation
Indices: 95041664--95041731 Score: 66
Period size: 6 Copynumber: 11.2 Consensus size: 6
95041654 ATGTCTAGAG
* * * * *
95041664 AAATAC AAATAA ACAGAA AAATAG AAATAA AAACTAA AAATAA AACT-A
1 AAATAA AAATAA AAATAA AAATAA AAATAA AAA-TAA AAATAA AAATAA
95041712 AAATAAA AAATAA AAATAA A
1 AAAT-AA AAATAA AAATAA A
95041732 TAGACTCAAT
Statistics
Matches: 50, Mismatches: 9, Indels: 6
0.77 0.14 0.09
Matches are distributed among these distances:
5 4 0.08
6 35 0.70
7 11 0.22
ACGTcount: A:0.76, C:0.06, G:0.03, T:0.15
Consensus pattern (6 bp):
AAATAA
Found at i:95043039 original size:13 final size:13
Alignment explanation
Indices: 95043021--95043046 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
95043011 AAAGATGGGG
95043021 AAAAAAAGAGAAA
1 AAAAAAAGAGAAA
95043034 AAAAAAAGAGAAA
1 AAAAAAAGAGAAA
95043047 GGTAAAAAGG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (13 bp):
AAAAAAAGAGAAA
Found at i:95043435 original size:20 final size:20
Alignment explanation
Indices: 95043397--95043435 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
95043387 CTCCTTCGCT
*
95043397 TCTCCCACGCCCATATGACC
1 TCTCCCACGCCCAGATGACC
* *
95043417 TCTCGCACGCCCAGGTGAC
1 TCTCCCACGCCCAGATGAC
95043436 TTTCCACACG
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.18, C:0.46, G:0.18, T:0.18
Consensus pattern (20 bp):
TCTCCCACGCCCAGATGACC
Found at i:95043658 original size:30 final size:30
Alignment explanation
Indices: 95043624--95043682 Score: 82
Period size: 30 Copynumber: 2.0 Consensus size: 30
95043614 GTATCCAGGC
*
95043624 CGTGTGGATTACACGATCATGTCGCCTGGT
1 CGTGTGGATTAAACGATCATGTCGCCTGGT
* * *
95043654 CGTGTGGATTAAACGGTCGTGTCGTCTGG
1 CGTGTGGATTAAACGATCATGTCGCCTGG
95043683 CTGTGTAACT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.15, C:0.20, G:0.34, T:0.31
Consensus pattern (30 bp):
CGTGTGGATTAAACGATCATGTCGCCTGGT
Found at i:95048110 original size:2 final size:2
Alignment explanation
Indices: 95048103--95048127 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
95048093 TTACAAAAAC
95048103 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
95048128 CTTTAGTATT
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:95048184 original size:15 final size:15
Alignment explanation
Indices: 95048169--95048225 Score: 60
Period size: 15 Copynumber: 3.6 Consensus size: 15
95048159 ATAGTTGTAT
95048169 CTTTACATAAGATATC
1 CTTT-CATAAGATATC
*
95048185 CTTTCATAAGATCTAC
1 CTTTCATAAGATAT-C
* *
95048201 CTTTTAATAAAATATC
1 C-TTTCATAAGATATC
95048217 CTTTCATAA
1 CTTTCATAA
95048226 AATTATGTTA
Statistics
Matches: 34, Mismatches: 5, Indels: 5
0.77 0.11 0.11
Matches are distributed among these distances:
15 16 0.47
16 8 0.24
17 10 0.29
ACGTcount: A:0.37, C:0.19, G:0.04, T:0.40
Consensus pattern (15 bp):
CTTTCATAAGATATC
Found at i:95048280 original size:21 final size:21
Alignment explanation
Indices: 95048255--95048295 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
95048245 ACAACTTTAC
95048255 ATAAAATTACATATTTATAAA
1 ATAAAATTACATATTTATAAA
* *
95048276 ATAAAATTATATCTTTATAA
1 ATAAAATTACATATTTATAA
95048296 TACAATTACT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.54, C:0.05, G:0.00, T:0.41
Consensus pattern (21 bp):
ATAAAATTACATATTTATAAA
Found at i:95048297 original size:19 final size:20
Alignment explanation
Indices: 95048255--95048304 Score: 57
Period size: 21 Copynumber: 2.5 Consensus size: 20
95048245 ACAACTTTAC
95048255 ATAAAATTACATATTTATAAA
1 ATAAAATTACATATTTAT-AA
* *
95048276 ATAAAATTATATCTTTAT-A
1 ATAAAATTACATATTTATAA
*
95048295 ATACAATTAC
1 ATAAAATTAC
95048305 TTTATCAATA
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
19 9 0.36
21 16 0.64
ACGTcount: A:0.52, C:0.08, G:0.00, T:0.40
Consensus pattern (20 bp):
ATAAAATTACATATTTATAA
Found at i:95051005 original size:22 final size:22
Alignment explanation
Indices: 95050980--95051045 Score: 59
Period size: 22 Copynumber: 3.2 Consensus size: 22
95050970 TTTTTGAGTT
95050980 AATTCATTTTTTAAATTTTATG
1 AATTCATTTTTTAAATTTTATG
* * * * *
95051002 AATTTAATATTTAGA---T-TC
1 AATTCATTTTTTAAATTTTATG
95051020 AATTCATTTTTTAAATTTTATG
1 AATTCATTTTTTAAATTTTATG
95051042 AATT
1 AATT
95051046 TAATATTTAG
Statistics
Matches: 30, Mismatches: 10, Indels: 8
0.62 0.21 0.17
Matches are distributed among these distances:
18 12 0.40
19 1 0.03
21 1 0.03
22 16 0.53
ACGTcount: A:0.35, C:0.05, G:0.05, T:0.56
Consensus pattern (22 bp):
AATTCATTTTTTAAATTTTATG
Found at i:95051024 original size:40 final size:40
Alignment explanation
Indices: 95050980--95051070 Score: 168
Period size: 40 Copynumber: 2.3 Consensus size: 40
95050970 TTTTTGAGTT
95050980 AATTCATTTTTTAAATTTTATGAATTTAATATTTAGATTC
1 AATTCATTTTTTAAATTTTATGAATTTAATATTTAGATTC
95051020 AATTCATTTTTTAAATTTTATGAATTTAATATTTAGATTC
1 AATTCATTTTTTAAATTTTATGAATTTAATATTTAGATTC
95051060 AA-T-ATTTTTTA
1 AATTCATTTTTTA
95051071 TCATACATGC
Statistics
Matches: 51, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
38 8 0.16
39 1 0.02
40 42 0.82
ACGTcount: A:0.35, C:0.04, G:0.04, T:0.56
Consensus pattern (40 bp):
AATTCATTTTTTAAATTTTATGAATTTAATATTTAGATTC
Found at i:95055819 original size:25 final size:24
Alignment explanation
Indices: 95055781--95055843 Score: 63
Period size: 25 Copynumber: 2.5 Consensus size: 24
95055771 ATAATAATGG
* *
95055781 TAATAATATTTAAAATATATGTACA
1 TAATAATA-ATAAAAGATATGTACA
* *
95055806 TGAATAATAATAAAAGGTATGTATA
1 T-AATAATAATAAAAGATATGTACA
95055831 TATATAATAATAA
1 TA-ATAATAATAA
95055844 TAATGGTAAT
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
24 1 0.03
25 24 0.75
26 7 0.22
ACGTcount: A:0.54, C:0.02, G:0.08, T:0.37
Consensus pattern (24 bp):
TAATAATAATAAAAGATATGTACA
Found at i:95055842 original size:3 final size:3
Alignment explanation
Indices: 95055834--95055977 Score: 69
Period size: 3 Copynumber: 48.3 Consensus size: 3
95055824 ATGTATATAT
* * * * * * * *
95055834 ATA ATA ATA ATA ATG GTA ATT AGA ATA ATA ATA GTA ATG ATA GT- ATC
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * ** *
95055881 A-A ATA ATC GTA ATA ATA ATA ATA ATA ATA ATA ATG AGG ATA AAA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * * * *
95055928 ATA ACA ATA AT- ATA TTA AGCA ACAA ATA ATA ATG ATA ATA GTA ATA
1 ATA ATA ATA ATA ATA ATA A-TA A-TA ATA ATA ATA ATA ATA ATA ATA
95055974 ATA A
1 ATA A
95055978 AGAAATGGGA
Statistics
Matches: 100, Mismatches: 37, Indels: 8
0.69 0.26 0.06
Matches are distributed among these distances:
2 4 0.04
3 92 0.92
4 4 0.04
ACGTcount: A:0.58, C:0.03, G:0.09, T:0.30
Consensus pattern (3 bp):
ATA
Found at i:95062687 original size:101 final size:101
Alignment explanation
Indices: 95062481--95062681 Score: 260
Period size: 101 Copynumber: 2.0 Consensus size: 101
95062471 ATTGTCGGAG
* * * **
95062481 AAGACCATAAGTGGGTTATGGCATTATGAACTTAAGACCATGGTTGGACCATGGCAGTGTTTACA
1 AAGACCATAAATGGGTTATGGCATTATGAACGTAAGACCATGGTTAGACCATGGCAGTAATTACA
* * **
95062546 TGTAAGACCATAGCTGAGCTATGGCATTTTAATGAA
66 TGTAAGACCATAACTGAGCTATGACATACTAATGAA
*
95062582 AAGACCATAAATGGGTTATGGCACTT-TGAACGTAAGACCATGGTTAGACCATGGCAGTAATTAT
1 AAGACCATAAATGGGTTATGGCA-TTATGAACGTAAGACCATGGTTAGACCATGGCAGTAATTAC
* * *
95062646 ATGTAAGACCATAATTGGGTTATGACACTACTAATG
65 ATGTAAGACCATAACTGAGCTATGACA-TACTAATG
95062682 TAAGACTATG
Statistics
Matches: 85, Mismatches: 13, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
101 77 0.91
102 8 0.09
ACGTcount: A:0.33, C:0.15, G:0.23, T:0.28
Consensus pattern (101 bp):
AAGACCATAAATGGGTTATGGCATTATGAACGTAAGACCATGGTTAGACCATGGCAGTAATTACA
TGTAAGACCATAACTGAGCTATGACATACTAATGAA
Found at i:95064177 original size:26 final size:26
Alignment explanation
Indices: 95064141--95064276 Score: 227
Period size: 26 Copynumber: 5.2 Consensus size: 26
95064131 TGATACAAAT
95064141 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
*
95064167 TGATAATAGGTTAGGTAAATGTCCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
95064193 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
95064219 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
95064245 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
95064271 TGATAA
1 TGATAA
95064277 GAATTTCATG
Statistics
Matches: 106, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 106 1.00
ACGTcount: A:0.34, C:0.07, G:0.24, T:0.35
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTCCA
Found at i:95065474 original size:16 final size:15
Alignment explanation
Indices: 95065448--95065477 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
95065438 ACTAGATTGG
95065448 CAAAAGCCGAAAAGC
1 CAAAAGCCGAAAAGC
95065463 CAAAATGCCGAAAAG
1 CAAAA-GCCGAAAAG
95065478 TCAGTATTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.53, C:0.23, G:0.20, T:0.03
Consensus pattern (15 bp):
CAAAAGCCGAAAAGC
Found at i:95065760 original size:28 final size:26
Alignment explanation
Indices: 95065715--95065789 Score: 78
Period size: 26 Copynumber: 2.8 Consensus size: 26
95065705 AAAAGTAGCT
* *
95065715 AAATTACTATAATACCCCTATGTATGGA
1 AAATTACTGTTATACCCCTA-G-ATGGA
* * *
95065743 AAATTACTGTTATGCCCCTAGGTGTA
1 AAATTACTGTTATACCCCTAGATGGA
*
95065769 AAATTACCGTTATACCCCTAG
1 AAATTACTGTTATACCCCTAG
95065790 GGTTAATTTT
Statistics
Matches: 40, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
26 22 0.55
27 1 0.03
28 17 0.43
ACGTcount: A:0.33, C:0.21, G:0.13, T:0.32
Consensus pattern (26 bp):
AAATTACTGTTATACCCCTAGATGGA
Found at i:95065934 original size:27 final size:27
Alignment explanation
Indices: 95065893--95066005 Score: 129
Period size: 27 Copynumber: 4.2 Consensus size: 27
95065883 GAGGAAGCGT
*
95065893 TCTGGTGGCTATGCCACAAATATCTGA
1 TCTGGTGGCTCTGCCACAAATATCTGA
*
95065920 TCTGGTGGCTCTGCCACAAATATCTGT
1 TCTGGTGGCTCTGCCACAAATATCTGA
* * *
95065947 TCTGGTGGCTCTGCCACGATTATCTATA
1 TCTGGTGGCTCTGCCACAAATATCT-GA
* * * *
95065975 TCTGGTGACTCTGTCAC-ATTATCTGT
1 TCTGGTGGCTCTGCCACAAATATCTGA
95066001 TCTGG
1 TCTGG
95066006 CAGCCATGTT
Statistics
Matches: 75, Mismatches: 10, Indels: 3
0.85 0.11 0.03
Matches are distributed among these distances:
26 5 0.07
27 55 0.73
28 15 0.20
ACGTcount: A:0.19, C:0.24, G:0.22, T:0.35
Consensus pattern (27 bp):
TCTGGTGGCTCTGCCACAAATATCTGA
Found at i:95065998 original size:54 final size:54
Alignment explanation
Indices: 95065891--95066005 Score: 151
Period size: 54 Copynumber: 2.1 Consensus size: 54
95065881 TGGAGGAAGC
*
95065891 GTTCTGGTGGCTATGCCACAAATATCTGATCTGGTGGCTCTGCCACAAATATCT
1 GTTCTGGTGGCTATGCCACAAATATCTGATCTGGTGACTCTGCCACAAATATCT
* * * * * *
95065945 GTTCTGGTGGCTCTGCCACGATTATCTATATCTGGTGACTCTGTCAC-ATTATCT
1 GTTCTGGTGGCTATGCCACAAATATCT-GATCTGGTGACTCTGCCACAAATATCT
95065999 GTTCTGG
1 GTTCTGG
95066006 CAGCCATGTT
Statistics
Matches: 53, Mismatches: 7, Indels: 2
0.85 0.11 0.03
Matches are distributed among these distances:
54 37 0.70
55 16 0.30
ACGTcount: A:0.18, C:0.23, G:0.23, T:0.36
Consensus pattern (54 bp):
GTTCTGGTGGCTATGCCACAAATATCTGATCTGGTGACTCTGCCACAAATATCT
Found at i:95069202 original size:43 final size:43
Alignment explanation
Indices: 95069094--95069202 Score: 112
Period size: 43 Copynumber: 2.5 Consensus size: 43
95069084 TACCGAGATG
* * * *
95069094 TGATTACATGTAAGACCATGTCTGGGACATTGGCATCGTTATA
1 TGATAACATGTAAGACCATATCTGGGACAATGGCATCGATATA
** * * *
95069137 TGATTTCGTGTAAGACTC-TATCTGGGGCAATGGCATCGATATG
1 TGATAACATGTAAGAC-CATATCTGGGACAATGGCATCGATATA
*
95069180 TGGTAACATGTAAGACCATATCT
1 TGATAACATGTAAGACCATATCT
95069203 AGGATATGGC
Statistics
Matches: 53, Mismatches: 11, Indels: 4
0.78 0.16 0.06
Matches are distributed among these distances:
42 1 0.02
43 51 0.96
44 1 0.02
ACGTcount: A:0.28, C:0.17, G:0.24, T:0.32
Consensus pattern (43 bp):
TGATAACATGTAAGACCATATCTGGGACAATGGCATCGATATA
Found at i:95070376 original size:27 final size:27
Alignment explanation
Indices: 95070328--95070486 Score: 166
Period size: 27 Copynumber: 5.9 Consensus size: 27
95070318 GCGAGGCTGC
* *
95070328 CAGATATTGTGAC-GAAGTCACCAGATA
1 CAGATATTGTGGCAG-AGCCACCAGATA
95070355 CAGATATTGTGGCAGAGCCACCAGA-A
1 CAGATATTGTGGCAGAGCCACCAGATA
*
95070381 CAGATATATGTGGCAGATCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
* * *
95070408 TAGATAATTGTGGCATAGCCACCAG-GA
1 CAGAT-ATTGTGGCAGAGCCACCAGATA
95070435 CAGATATATGTGGCAGAGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
* *
95070462 CAGATAATTTTGGCATAGCCACCAG
1 CAGAT-ATTGTGGCAGAGCCACCAG
95070487 GACGCTTCCT
Statistics
Matches: 112, Mismatches: 12, Indels: 16
0.80 0.09 0.11
Matches are distributed among these distances:
26 10 0.09
27 97 0.87
28 5 0.04
ACGTcount: A:0.34, C:0.21, G:0.24, T:0.21
Consensus pattern (27 bp):
CAGATATTGTGGCAGAGCCACCAGATA
Found at i:95070487 original size:54 final size:54
Alignment explanation
Indices: 95070346--95070489 Score: 227
Period size: 54 Copynumber: 2.7 Consensus size: 54
95070336 GTGACGAAGT
* * *
95070346 CACCAGATACAGAT-ATTGTGGCAGAGCCACCAGAACAGATATATGTGGCAGATC
1 CACCAGAT-CAGATAATTGTGGCATAGCCACCAGGACAGATATATGTGGCAGAGC
*
95070400 CACCAGATTAGATAATTGTGGCATAGCCACCAGGACAGATATATGTGGCAGAGC
1 CACCAGATCAGATAATTGTGGCATAGCCACCAGGACAGATATATGTGGCAGAGC
*
95070454 CACCAGATCAGATAATTTTGGCATAGCCACCAGGAC
1 CACCAGATCAGATAATTGTGGCATAGCCACCAGGAC
95070490 GCTTCCTCCA
Statistics
Matches: 83, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
53 4 0.05
54 79 0.95
ACGTcount: A:0.34, C:0.23, G:0.24, T:0.19
Consensus pattern (54 bp):
CACCAGATCAGATAATTGTGGCATAGCCACCAGGACAGATATATGTGGCAGAGC
Found at i:95072113 original size:26 final size:26
Alignment explanation
Indices: 95072084--95072191 Score: 164
Period size: 26 Copynumber: 4.2 Consensus size: 26
95072074 TAAAATGCCC
*
95072084 ATCATGGAACATTTAACTAAACCATT
1 ATCATGGAACATTTACCTAAACCATT
*
95072110 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAAACCATT
* *
95072136 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAAACCATT
95072162 ATCATGGAACATTTACCT-AACTCATT
1 ATCATGGAACATTTACCTAAAC-CATT
95072188 ATCA
1 ATCA
95072192 ATTTGTACCA
Statistics
Matches: 75, Mismatches: 6, Indels: 2
0.90 0.07 0.02
Matches are distributed among these distances:
25 2 0.03
26 73 0.97
ACGTcount: A:0.37, C:0.22, G:0.07, T:0.33
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAAACCATT
Found at i:95076123 original size:41 final size:39
Alignment explanation
Indices: 95076057--95076168 Score: 129
Period size: 37 Copynumber: 2.8 Consensus size: 39
95076047 TTCGACTTCG
*
95076057 AGTCGATGAGACACTGAGTGTCAATTTACTACTTTGGATTA
1 AGTCGATGAGACACTGGGTGTCAATTTA-TACTTTGG-TTA
* * * *
95076098 ATTCGATGAGGCACTGGGTGCCAA-TT-TACTTTGGTTG
1 AGTCGATGAGACACTGGGTGTCAATTTATACTTTGGTTA
*
95076135 AGCCGATGAGACACTGGGTGTCAATTTATTACTT
1 AGTCGATGAGACACTGGGTGTCAATTTA-TACTT
95076169 CGAATTATCT
Statistics
Matches: 59, Mismatches: 9, Indels: 7
0.79 0.12 0.09
Matches are distributed among these distances:
37 22 0.37
38 10 0.17
40 7 0.12
41 20 0.34
ACGTcount: A:0.25, C:0.16, G:0.25, T:0.34
Consensus pattern (39 bp):
AGTCGATGAGACACTGGGTGTCAATTTATACTTTGGTTA
Found at i:95076332 original size:19 final size:19
Alignment explanation
Indices: 95076305--95076342 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
95076295 ATATTATATA
95076305 TGAAATGAAA-ATGAGATTG
1 TGAAATGAAATATG-GATTG
*
95076324 TGAATTGAAATATGGATTG
1 TGAAATGAAATATGGATTG
95076343 AGACACATAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 14 0.82
20 3 0.18
ACGTcount: A:0.42, C:0.00, G:0.26, T:0.32
Consensus pattern (19 bp):
TGAAATGAAATATGGATTG
Found at i:95087344 original size:15 final size:17
Alignment explanation
Indices: 95087303--95087346 Score: 58
Period size: 15 Copynumber: 2.8 Consensus size: 17
95087293 AGATGGAAAT
95087303 AGAGTAAAAAT-TTTAG
1 AGAGTAAAAATATTTAG
*
95087319 AGAGTATAAATATTT-G
1 AGAGTAAAAATATTTAG
95087335 -GAGTAAAAATAT
1 AGAGTAAAAATAT
95087347 AAAATATTAT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
15 11 0.44
16 11 0.44
17 3 0.12
ACGTcount: A:0.50, C:0.00, G:0.18, T:0.32
Consensus pattern (17 bp):
AGAGTAAAAATATTTAG
Found at i:95096013 original size:21 final size:21
Alignment explanation
Indices: 95095989--95096076 Score: 58
Period size: 21 Copynumber: 4.1 Consensus size: 21
95095979 TAAGATTTAG
*
95095989 ATAATTTTTAAATATAATAAT
1 ATAATTGTTAAATATAATAAT
* *
95096010 ATAATTGGTAAA-AGT-AT-AG
1 ATAATTGTTAAATA-TAATAAT
*
95096029 ATAATCATGTTAAGTATAATAAT
1 ATAAT--TGTTAAATATAATAAT
95096052 ATATATT-TATAAATATAAATAAT
1 ATA-ATTGT-TAAATAT-AATAAT
95096075 AT
1 AT
95096077 TACTTAACTA
Statistics
Matches: 51, Mismatches: 7, Indels: 16
0.69 0.09 0.22
Matches are distributed among these distances:
19 6 0.12
20 3 0.06
21 18 0.35
22 10 0.20
23 12 0.24
24 2 0.04
ACGTcount: A:0.51, C:0.01, G:0.07, T:0.41
Consensus pattern (21 bp):
ATAATTGTTAAATATAATAAT
Found at i:95097358 original size:29 final size:30
Alignment explanation
Indices: 95097316--95097390 Score: 82
Period size: 31 Copynumber: 2.5 Consensus size: 30
95097306 GAAAACATTT
*
95097316 TATTTTTCATTTACTAT-TA-AATGTATACA
1 TATTTTTTATTTACTATGTATAATGTATA-A
* * *
95097345 TATTTTTTTTTTACTTTGTATAATTTATAA
1 TATTTTTTATTTACTATGTATAATGTATAA
95097375 TATTTTGTTATTTACT
1 TATTTT-TTATTTACT
95097391 TTGTGTTGTT
Statistics
Matches: 38, Mismatches: 5, Indels: 4
0.81 0.11 0.09
Matches are distributed among these distances:
29 14 0.37
30 9 0.24
31 15 0.39
ACGTcount: A:0.28, C:0.07, G:0.04, T:0.61
Consensus pattern (30 bp):
TATTTTTTATTTACTATGTATAATGTATAA
Found at i:95097600 original size:18 final size:18
Alignment explanation
Indices: 95097579--95097642 Score: 67
Period size: 18 Copynumber: 3.4 Consensus size: 18
95097569 TAAATTATCA
95097579 TTATTAATGATATATAAT
1 TTATTAATGATATATAAT
* *
95097597 TTATTGAAT-TTAATATTAT
1 TTATT-AATGAT-ATATAAT
95097616 CATTATTAATGATATATAAT
1 --TTATTAATGATATATAAT
95097636 TTATTAA
1 TTATTAA
95097643 ATTTAATGAT
Statistics
Matches: 37, Mismatches: 4, Indels: 10
0.73 0.08 0.20
Matches are distributed among these distances:
18 13 0.35
19 9 0.24
20 9 0.24
21 6 0.16
ACGTcount: A:0.42, C:0.02, G:0.05, T:0.52
Consensus pattern (18 bp):
TTATTAATGATATATAAT
Found at i:95097618 original size:39 final size:39
Alignment explanation
Indices: 95097572--95097649 Score: 147
Period size: 39 Copynumber: 2.0 Consensus size: 39
95097562 TATAACCTAA
*
95097572 ATTATCATTATTAATGATATATAATTTATTGAATTTAAT
1 ATTATCATTATTAATGATATATAATTTATTAAATTTAAT
95097611 ATTATCATTATTAATGATATATAATTTATTAAATTTAAT
1 ATTATCATTATTAATGATATATAATTTATTAAATTTAAT
95097650 GATATGGAAA
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
39 38 1.00
ACGTcount: A:0.42, C:0.03, G:0.04, T:0.51
Consensus pattern (39 bp):
ATTATCATTATTAATGATATATAATTTATTAAATTTAAT
Found at i:95099619 original size:47 final size:47
Alignment explanation
Indices: 95099513--95099619 Score: 151
Period size: 47 Copynumber: 2.3 Consensus size: 47
95099503 GGTTTAGCCA
* * * *
95099513 CATATCTGTTCTAGTAGTTTGACTGCAATTATGGTGGCTCGACCATT
1 CATATCTGTTCTGGCAGCTTGACTGCAATTATGGTGGCTCGACCACT
* *
95099560 CATATCTGTTCTGGCAGCTTGACTGCAATTATGGTGGCTTGACTACT
1 CATATCTGTTCTGGCAGCTTGACTGCAATTATGGTGGCTCGACCACT
*
95099607 CATATCTATTCTG
1 CATATCTGTTCTG
95099620 ACAGTTTATC
Statistics
Matches: 53, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
47 53 1.00
ACGTcount: A:0.21, C:0.21, G:0.21, T:0.38
Consensus pattern (47 bp):
CATATCTGTTCTGGCAGCTTGACTGCAATTATGGTGGCTCGACCACT
Found at i:95103605 original size:24 final size:24
Alignment explanation
Indices: 95103556--95103605 Score: 57
Period size: 24 Copynumber: 2.1 Consensus size: 24
95103546 ATAACAATAG
* *
95103556 TATTTTAATTTTAGAATATATATA
1 TATTTTAATTTTAAAATAAATATA
*
95103580 TATTTTATTTTTAAAAATAAAT-TA
1 TATTTTAATTTT-AAAATAAATATA
95103604 TA
1 TA
95103606 CAGATCCTGT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
24 15 0.68
25 7 0.32
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (24 bp):
TATTTTAATTTTAAAATAAATATA
Found at i:95113127 original size:45 final size:45
Alignment explanation
Indices: 95113025--95113195 Score: 215
Period size: 45 Copynumber: 3.9 Consensus size: 45
95113015 CGAATTCATC
* * *
95113025 CACCGGCATT-TCGCCTGCTAGGCTCGAA-GCCTG-ATA-TCATTT
1 CACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGT-ATTT
* **
95113067 CACCAGCATTATAGCCTGCTAGGCTCGGAGGCCCGAATAGTATTT
1 CACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATTT
* * *
95113112 CACCGGCATTGTAGCCTGCTAGGCTCAAAGGCACGAATAGTATCT
1 CACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATTT
*
95113157 CACCGGCATCATAGCCTGCTAGGCTCAAAGGCCCGAATA
1 CACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATA
95113196 TTACTGTACG
Statistics
Matches: 112, Mismatches: 13, Indels: 5
0.86 0.10 0.04
Matches are distributed among these distances:
42 9 0.08
43 16 0.14
44 4 0.04
45 82 0.73
46 1 0.01
ACGTcount: A:0.25, C:0.29, G:0.23, T:0.23
Consensus pattern (45 bp):
CACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATTT
Found at i:95116671 original size:49 final size:49
Alignment explanation
Indices: 95116612--95116843 Score: 302
Period size: 49 Copynumber: 4.7 Consensus size: 49
95116602 CTGGTAGGCA
* *
95116612 TAGTAGCCTGCACATAGTACTACACATGCGACCAATTATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACATGTGACCAATTATCCGGTACACG
95116661 TAGTAGCCTGCACTTAGTACTACACATGTGACCAATTATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACATGTGACCAATTATCCGGTACACG
* ** * *
95116710 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACATGTGACC-AATTATCCGGTACACG
* * * * * * *
95116760 TAGTAGCCTGTACTTAGTACTACACACGTGATCACAGTTTTCGGGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACATGTGA-C-CAATTATCCGGTACACG
*
95116811 TAGTAGCCTGCACTTAGTACTACACATGCGACC
1 TAGTAGCCTGCACTTAGTACTACACATGTGACC
95116844 TCACAATAGA
Statistics
Matches: 161, Mismatches: 19, Indels: 6
0.87 0.10 0.03
Matches are distributed among these distances:
49 80 0.50
50 43 0.27
51 37 0.23
52 1 0.01
ACGTcount: A:0.28, C:0.28, G:0.19, T:0.25
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACATGTGACCAATTATCCGGTACACG
Found at i:95116844 original size:101 final size:99
Alignment explanation
Indices: 95116599--95116844 Score: 323
Period size: 101 Copynumber: 2.5 Consensus size: 99
95116589 TAGCCAAAGC
* * * ** *
95116599 TATCTGGTAGGCATAGTAGCCTGCACATAGTACTACACATGCGACC-AATTATCCGGTACACGTA
1 TATCCGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTAACCATCCGATACACGTA
*
95116663 GTAGCCTGCACTTAGTACTACACATGTGACCAAT
66 GTAGCCTGCACTTAGTACTACACACGTGACCAAT
* * * * *
95116697 TATCCGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACGTA
1 TATCCGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTAACCATCCGATACACGTA
* *
95116762 GTAGCCTGTACTTAGTACTACACACGTGATCACAGT
66 GTAGCCTGCACTTAGTACTACACACGTGA-C-CAAT
* *
95116798 TTTCGGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCT
1 TATCCGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCT
95116845 CACAATAGAT
Statistics
Matches: 125, Mismatches: 20, Indels: 3
0.84 0.14 0.02
Matches are distributed among these distances:
98 39 0.31
99 41 0.33
100 1 0.01
101 44 0.35
ACGTcount: A:0.28, C:0.27, G:0.19, T:0.26
Consensus pattern (99 bp):
TATCCGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTAACCATCCGATACACGTA
GTAGCCTGCACTTAGTACTACACACGTGACCAAT
Found at i:95123572 original size:9 final size:9
Alignment explanation
Indices: 95123556--95123616 Score: 95
Period size: 9 Copynumber: 6.8 Consensus size: 9
95123546 GGTATTTTTC
95123556 GGTAATTCG
1 GGTAATTCG
*
95123565 GTTAATTCG
1 GGTAATTCG
*
95123574 GTTAATTCG
1 GGTAATTCG
*
95123583 GTTAATTCG
1 GGTAATTCG
95123592 GGTAATTCG
1 GGTAATTCG
95123601 GGTAATTCG
1 GGTAATTCG
95123610 GGTAATT
1 GGTAATT
95123617 TTTAACCAAA
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
9 50 1.00
ACGTcount: A:0.23, C:0.10, G:0.28, T:0.39
Consensus pattern (9 bp):
GGTAATTCG
Found at i:95125677 original size:21 final size:23
Alignment explanation
Indices: 95125653--95125709 Score: 68
Period size: 22 Copynumber: 2.6 Consensus size: 23
95125643 CTAGTGTATC
*
95125653 AATAATTTTTT-CAA-TAATTGT
1 AATAATTTTTTAAAAGTAATTGT
95125674 AAT-ATTTTTTAAAAGTAATTGT
1 AATAATTTTTTAAAAGTAATTGT
95125696 AAT-ATTATTTTAAA
1 AATAATT-TTTTAAA
95125710 TCTAAGACTT
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
20 7 0.22
21 5 0.16
22 13 0.41
23 7 0.22
ACGTcount: A:0.42, C:0.02, G:0.05, T:0.51
Consensus pattern (23 bp):
AATAATTTTTTAAAAGTAATTGT
Found at i:95125692 original size:22 final size:23
Alignment explanation
Indices: 95125667--95125709 Score: 79
Period size: 22 Copynumber: 1.9 Consensus size: 23
95125657 ATTTTTTCAA
95125667 TAATTGTAATATT-TTTTAAAAG
1 TAATTGTAATATTATTTTAAAAG
95125689 TAATTGTAATATTATTTTAAA
1 TAATTGTAATATTATTTTAAA
95125710 TCTAAGACTT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
22 13 0.65
23 7 0.35
ACGTcount: A:0.42, C:0.00, G:0.07, T:0.51
Consensus pattern (23 bp):
TAATTGTAATATTATTTTAAAAG
Found at i:95125792 original size:3 final size:3
Alignment explanation
Indices: 95125784--95125836 Score: 56
Period size: 3 Copynumber: 17.7 Consensus size: 3
95125774 AGTACTAACC
* *
95125784 AAT AAT AAT ACT AAT AAC AAT AA- AA- ACAT CAAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT A-AT -AAT AAT AAT AAT AAT
95125829 AAT AAT AA
1 AAT AAT AA
95125837 AGAAAATCTA
Statistics
Matches: 43, Mismatches: 4, Indels: 6
0.81 0.08 0.11
Matches are distributed among these distances:
2 3 0.07
3 37 0.86
4 2 0.05
5 1 0.02
ACGTcount: A:0.66, C:0.08, G:0.00, T:0.26
Consensus pattern (3 bp):
AAT
Found at i:95127508 original size:93 final size:93
Alignment explanation
Indices: 95127396--95127566 Score: 261
Period size: 93 Copynumber: 1.8 Consensus size: 93
95127386 GCCCCTAAGT
* ***
95127396 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCAGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCAGAAATTCGCATCCATAAGTGAACTCAGACTCAACTCAA
95127461 CGAGTTCGGATGCCTAGTTACATTTCAC
66 CGAGTTCGGATGCCTAGTTACATTTCAC
* * * *
95127489 GAACTCGGACTCAATTCAACGAGTTCAGAAATTCGTATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCAGAAATTCGCATCCATAAGTGAACTCAGACTCAACTCAA
*
95127554 CGAGTTTGGATGC
66 CGAGTTCGGATGC
95127567 TCAACCATCC
Statistics
Matches: 69, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
93 69 1.00
ACGTcount: A:0.30, C:0.26, G:0.20, T:0.23
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCAGAAATTCGCATCCATAAGTGAACTCAGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATTTCAC
Found at i:95127554 original size:46 final size:44
Alignment explanation
Indices: 95127391--95127559 Score: 151
Period size: 46 Copynumber: 3.7 Consensus size: 44
95127381 AACCCGCCCC
* ** *
95127391 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTC--GAATTCGTATCCA
* * * * *
95127437 TAAGTGAACTCAGACTCAACTCAACGAGTTCGGATGCCTAGTTACA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGAATTCGTA--TCCA
* * *
95127483 TTTCA-CGAACTCGGACTCAATTCAACGAGTTCAGAAATTCGTATCCA
1 --TAAGTGAACTCGGACTCAACTCAACGAGTTC-G-AATTCGTATCCA
95127530 TAAGTGAACTCGGACTCAACTCAACGAGTT
1 TAAGTGAACTCGGACTCAACTCAACGAGTT
95127560 TGGATGCTCA
Statistics
Matches: 97, Mismatches: 19, Indels: 14
0.75 0.15 0.11
Matches are distributed among these distances:
44 4 0.04
45 2 0.02
46 56 0.58
47 27 0.28
48 3 0.03
49 5 0.05
ACGTcount: A:0.31, C:0.26, G:0.20, T:0.24
Consensus pattern (44 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGAATTCGTATCCA
Found at i:95130270 original size:15 final size:15
Alignment explanation
Indices: 95130231--95130310 Score: 85
Period size: 15 Copynumber: 5.4 Consensus size: 15
95130221 GTATCTTGGG
*
95130231 TTTCTTTATCCTGGA
1 TTTCTTTATTCTGGA
*
95130246 TCTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
95130261 TTTCTTTATTCTAGG-
1 TTTCTTTATTCT-GGA
*
95130276 TTTCTCTA-TCTTGGA
1 TTTCTTTATTC-TGGA
*
95130291 TTTCTTTATTC-GGT
1 TTTCTTTATTCTGGA
95130305 TTTCTT
1 TTTCTT
95130311 GTTATCTTTG
Statistics
Matches: 55, Mismatches: 6, Indels: 9
0.79 0.09 0.13
Matches are distributed among these distances:
14 12 0.22
15 39 0.71
16 4 0.07
ACGTcount: A:0.11, C:0.17, G:0.12, T:0.59
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:95130300 original size:30 final size:30
Alignment explanation
Indices: 95130222--95130301 Score: 92
Period size: 30 Copynumber: 2.7 Consensus size: 30
95130212 CATAGTATCG
* * *
95130222 TATCTTGGGTTTCTTTATCCTGGATCTCTT
1 TATCTTGGATTTCTTTATTCTGGATCTCTC
*
95130252 TAT-TCTGGATTTCTTTATTCTAGG-TTTCTC
1 TATCT-TGGATTTCTTTATTCT-GGATCTCTC
95130282 TATCTTGGATTTCTTTATTC
1 TATCTTGGATTTCTTTATTC
95130302 GGTTTTCTTG
Statistics
Matches: 43, Mismatches: 4, Indels: 6
0.81 0.08 0.11
Matches are distributed among these distances:
29 1 0.02
30 39 0.91
31 3 0.07
ACGTcount: A:0.12, C:0.17, G:0.14, T:0.56
Consensus pattern (30 bp):
TATCTTGGATTTCTTTATTCTGGATCTCTC
Found at i:95133597 original size:3 final size:3
Alignment explanation
Indices: 95133591--95133616 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
95133581 AAACATAAGC
95133591 TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TA
95133617 TTATAAAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:95134707 original size:13 final size:13
Alignment explanation
Indices: 95134689--95134714 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
95134679 TTGGGTTTGT
95134689 TTAGTAGTTTGGG
1 TTAGTAGTTTGGG
95134702 TTAGTAGTTTGGG
1 TTAGTAGTTTGGG
95134715 CCGTTTTATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.15, C:0.00, G:0.38, T:0.46
Consensus pattern (13 bp):
TTAGTAGTTTGGG
Found at i:95135600 original size:16 final size:16
Alignment explanation
Indices: 95135579--95135610 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
95135569 GCAATGAGGG
95135579 TAAACAAGTACAATTA
1 TAAACAAGTACAATTA
95135595 TAAACAAGTACAATTA
1 TAAACAAGTACAATTA
95135611 GACAATTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.56, C:0.12, G:0.06, T:0.25
Consensus pattern (16 bp):
TAAACAAGTACAATTA
Found at i:95141307 original size:14 final size:14
Alignment explanation
Indices: 95141274--95141306 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
95141264 CAGTACTTAA
*
95141274 ATTTTTAATACTTC
1 ATTTTTAACACTTC
95141288 ATTTTTAACACTT-
1 ATTTTTAACACTTC
95141301 ATTTTT
1 ATTTTT
95141307 TCAATTTATC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 6 0.33
14 12 0.67
ACGTcount: A:0.27, C:0.12, G:0.00, T:0.61
Consensus pattern (14 bp):
ATTTTTAACACTTC
Found at i:95141645 original size:10 final size:9
Alignment explanation
Indices: 95141609--95141642 Score: 50
Period size: 10 Copynumber: 3.6 Consensus size: 9
95141599 GAAATTATGT
95141609 TTAAATTAGA
1 TTAAATTA-A
95141619 TTAAATTAA
1 TTAAATTAA
95141628 CTTAAATTAA
1 -TTAAATTAA
95141638 TTAAA
1 TTAAA
95141643 ATTTGTTTAA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
9 6 0.26
10 17 0.74
ACGTcount: A:0.53, C:0.03, G:0.03, T:0.41
Consensus pattern (9 bp):
TTAAATTAA
Found at i:95141652 original size:20 final size:19
Alignment explanation
Indices: 95141595--95141658 Score: 56
Period size: 20 Copynumber: 3.1 Consensus size: 19
95141585 GTAATGATTA
95141595 AATTGAAATTATGTTTAAATT
1 AATT-AAATT-TGTTTAAATT
***
95141616 AGATTAAATTAACTTAAATT
1 A-ATTAAATTTGTTTAAATT
95141636 AATTAAAATTTGTTTAAGATT
1 AATT-AAATTTGTTTAA-ATT
95141657 AA
1 AA
95141659 AATTAGATTT
Statistics
Matches: 34, Mismatches: 6, Indels: 6
0.74 0.13 0.13
Matches are distributed among these distances:
19 3 0.09
20 17 0.50
21 11 0.32
22 3 0.09
ACGTcount: A:0.47, C:0.02, G:0.08, T:0.44
Consensus pattern (19 bp):
AATTAAATTTGTTTAAATT
Found at i:95144766 original size:47 final size:47
Alignment explanation
Indices: 95144697--95144801 Score: 174
Period size: 47 Copynumber: 2.2 Consensus size: 47
95144687 AAACCTTAAA
*
95144697 TGTTCAAACCCGAGTTTGGTCTATATTTTAAATGAGTCTAATTTTTT
1 TGTTCAAACCCGAGCTTGGTCTATATTTTAAATGAGTCTAATTTTTT
* *
95144744 TGTTCAAATCCGAGCTTGGTCTATATTTTAAATGAGTCTATTTTTTT
1 TGTTCAAACCCGAGCTTGGTCTATATTTTAAATGAGTCTAATTTTTT
*
95144791 TATTCAAACCC
1 TGTTCAAACCC
95144802 ATTTTAAGAC
Statistics
Matches: 53, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
47 53 1.00
ACGTcount: A:0.26, C:0.15, G:0.13, T:0.46
Consensus pattern (47 bp):
TGTTCAAACCCGAGCTTGGTCTATATTTTAAATGAGTCTAATTTTTT
Found at i:95147456 original size:11 final size:11
Alignment explanation
Indices: 95147442--95147482 Score: 55
Period size: 11 Copynumber: 3.7 Consensus size: 11
95147432 TGTTTTCTCC
95147442 CTATTTTGCTA
1 CTATTTTGCTA
*
95147453 CTATTTTACTA
1 CTATTTTGCTA
* *
95147464 TTATGTTGCTA
1 CTATTTTGCTA
95147475 CTATTTTG
1 CTATTTTG
95147483 TTGTTATTGT
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
11 24 1.00
ACGTcount: A:0.20, C:0.15, G:0.10, T:0.56
Consensus pattern (11 bp):
CTATTTTGCTA
Found at i:95147572 original size:28 final size:27
Alignment explanation
Indices: 95147519--95147573 Score: 76
Period size: 28 Copynumber: 2.0 Consensus size: 27
95147509 ACTTATTTTA
95147519 TTGTTAATTTTTATTATTTTAAAGAAAT
1 TTGTTAATTTTTATTATTTT-AAGAAAT
95147547 TTGTTAATTTTGTTATTATTTT-AGAAA
1 TTGTTAA-TTT-TTATTATTTTAAGAAA
95147574 CATTTACTTG
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
28 12 0.48
29 3 0.12
30 10 0.40
ACGTcount: A:0.33, C:0.00, G:0.09, T:0.58
Consensus pattern (27 bp):
TTGTTAATTTTTATTATTTTAAGAAAT
Found at i:95153836 original size:3 final size:3
Alignment explanation
Indices: 95153828--95153856 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
95153818 AATCAAATTC
95153828 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
95153857 GACAACTTCT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:95160073 original size:34 final size:34
Alignment explanation
Indices: 95160030--95160097 Score: 127
Period size: 34 Copynumber: 2.0 Consensus size: 34
95160020 GGTAAAGTTG
*
95160030 GCATTATGCTACACTTGTAACACTTCATATCTTC
1 GCATTATGCTACACTTGTAACACTCCATATCTTC
95160064 GCATTATGCTACACTTGTAACACTCCATATCTTC
1 GCATTATGCTACACTTGTAACACTCCATATCTTC
95160098 AACTTAATCC
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.26, C:0.28, G:0.09, T:0.37
Consensus pattern (34 bp):
GCATTATGCTACACTTGTAACACTCCATATCTTC
Found at i:95160487 original size:21 final size:20
Alignment explanation
Indices: 95160458--95160501 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 20
95160448 TAATAATAGT
* *
95160458 TAATTAAAAATTGTAGTAATA
1 TAATAAAAAATTAT-GTAATA
*
95160479 TAATAAAAAAATATGTAATA
1 TAATAAAAAATTATGTAATA
95160499 TAA
1 TAA
95160502 CAGAAAAATG
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
20 9 0.45
21 11 0.55
ACGTcount: A:0.59, C:0.00, G:0.07, T:0.34
Consensus pattern (20 bp):
TAATAAAAAATTATGTAATA
Found at i:95160508 original size:20 final size:20
Alignment explanation
Indices: 95160473--95160510 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
95160463 AAAAATTGTA
*
95160473 GTAATATAATAAAAAAATAT
1 GTAATATAACAAAAAAATAT
*
95160493 GTAATATAACAGAAAAAT
1 GTAATATAACAAAAAAAT
95160511 GTTAAAATTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.63, C:0.03, G:0.08, T:0.26
Consensus pattern (20 bp):
GTAATATAACAAAAAAATAT
Found at i:95163583 original size:18 final size:18
Alignment explanation
Indices: 95163562--95163605 Score: 70
Period size: 18 Copynumber: 2.4 Consensus size: 18
95163552 ATAATCAGTA
95163562 ATTCAGTAACAGTCAAAT
1 ATTCAGTAACAGTCAAAT
* *
95163580 ATTCAGTAGCAGTCAATT
1 ATTCAGTAACAGTCAAAT
95163598 ATTCAGTA
1 ATTCAGTA
95163606 CCTTTATTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.39, C:0.16, G:0.14, T:0.32
Consensus pattern (18 bp):
ATTCAGTAACAGTCAAAT
Found at i:95163804 original size:51 final size:53
Alignment explanation
Indices: 95163713--95163823 Score: 154
Period size: 51 Copynumber: 2.1 Consensus size: 53
95163703 AGAATACACT
* *
95163713 GTAACAGTAACAGTAGCGGTACACAGAGTACCTCATCGGAACAAATCTGGAACA
1 GTAACAGTAACAGTAGAGGTA-ACAGAGTACCTCATCGGAACAAATCCGGAACA
* *
95163767 GTAACAGTAACAGTA-AGGT-ACGGAGTACCTCTTCGGAACAAATCCGGAACA
1 GTAACAGTAACAGTAGAGGTAACAGAGTACCTCATCGGAACAAATCCGGAACA
*
95163818 ATAACA
1 GTAACA
95163824 ATAAGGCGAC
Statistics
Matches: 52, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
51 34 0.65
53 3 0.06
54 15 0.29
ACGTcount: A:0.40, C:0.22, G:0.22, T:0.17
Consensus pattern (53 bp):
GTAACAGTAACAGTAGAGGTAACAGAGTACCTCATCGGAACAAATCCGGAACA
Found at i:95166205 original size:33 final size:35
Alignment explanation
Indices: 95166125--95166208 Score: 127
Period size: 35 Copynumber: 2.5 Consensus size: 35
95166115 TCTGACGATC
*
95166125 AGATTTGTGAATAGTGTTATGAACCTGACCAAATG
1 AGATTTGTGAATGGTGTTATGAACCTGACCAAATG
95166160 AGATTTGTGAATGGTGTTATGAACCTGACC-AA-G
1 AGATTTGTGAATGGTGTTATGAACCTGACCAAATG
**
95166193 ATTTTTGTGAATGGTG
1 AGATTTGTGAATGGTG
95166209 ATGTGAAATC
Statistics
Matches: 46, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
33 15 0.33
34 2 0.04
35 29 0.63
ACGTcount: A:0.30, C:0.10, G:0.26, T:0.35
Consensus pattern (35 bp):
AGATTTGTGAATGGTGTTATGAACCTGACCAAATG
Found at i:95166950 original size:17 final size:17
Alignment explanation
Indices: 95166924--95166957 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
95166914 ATTAAAAGCA
95166924 AAAACAAAAACAAAAAC
1 AAAACAAAAACAAAAAC
* *
95166941 AAAACCAAAACCAAAAC
1 AAAACAAAAACAAAAAC
95166958 TATTTTTCCT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.76, C:0.24, G:0.00, T:0.00
Consensus pattern (17 bp):
AAAACAAAAACAAAAAC
Found at i:95166957 original size:6 final size:6
Alignment explanation
Indices: 95166917--95166956 Score: 53
Period size: 6 Copynumber: 6.7 Consensus size: 6
95166907 AATTAAAATT
* * *
95166917 AAAAGC AAAAAC AAAAAC AAAAAC AAAACC AAAACC AAAA
1 AAAAAC AAAAAC AAAAAC AAAAAC AAAAAC AAAAAC AAAA
95166957 CTATTTTTCC
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
6 32 1.00
ACGTcount: A:0.78, C:0.20, G:0.03, T:0.00
Consensus pattern (6 bp):
AAAAAC
Found at i:95170335 original size:33 final size:32
Alignment explanation
Indices: 95170286--95170400 Score: 124
Period size: 33 Copynumber: 3.5 Consensus size: 32
95170276 ATGGACCTTT
* * * *
95170286 CCTTTTCTAGTTGTACACCCGAGGTGCACATT
1 CCTTTTCAAGTTGTACACACGAAGTGCACATA
* *
95170318 CCATTTTCAAGTGGTACACACGAAGTGTACATA
1 CC-TTTTCAAGTTGTACACACGAAGTGCACATA
* *
95170351 CCCTTTTCAATTTGTACACACAAAGTGCACATAA
1 -CCTTTTCAAGTTGTACACACGAAGTGCACAT-A
95170385 CCTTTTCAAG-TGTACA
1 CCTTTTCAAGTTGTACA
95170401 AATATAGTGT
Statistics
Matches: 69, Mismatches: 11, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
32 8 0.12
33 58 0.84
34 3 0.04
ACGTcount: A:0.29, C:0.25, G:0.15, T:0.31
Consensus pattern (32 bp):
CCTTTTCAAGTTGTACACACGAAGTGCACATA
Found at i:95170452 original size:33 final size:33
Alignment explanation
Indices: 95170410--95170490 Score: 110
Period size: 33 Copynumber: 2.5 Consensus size: 33
95170400 AAATATAGTG
* *
95170410 TACCTTTCCTTTTTA-AGTGGTATACACAAATTA
1 TACCTTTCCTTTTCATA-TGGTATACACAAAGTA
95170443 TACCTTTCCTTTTCATATGGTATACACAAAGTA
1 TACCTTTCCTTTTCATATGGTATACACAAAGTA
**
95170476 TACCTAACCTTTTCA
1 TACCTTTCCTTTTCA
95170491 AATTGTACCA
Statistics
Matches: 43, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
33 42 0.98
34 1 0.02
ACGTcount: A:0.30, C:0.22, G:0.07, T:0.41
Consensus pattern (33 bp):
TACCTTTCCTTTTCATATGGTATACACAAAGTA
Found at i:95171700 original size:13 final size:13
Alignment explanation
Indices: 95171682--95171707 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
95171672 ACACATAATT
95171682 GATAAAAATTTTC
1 GATAAAAATTTTC
95171695 GATAAAAATTTTC
1 GATAAAAATTTTC
95171708 ATACAATATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.08, G:0.08, T:0.38
Consensus pattern (13 bp):
GATAAAAATTTTC
Found at i:95176108 original size:144 final size:144
Alignment explanation
Indices: 95175908--95176202 Score: 572
Period size: 144 Copynumber: 2.0 Consensus size: 144
95175898 TTGAAACTCA
95175908 GTGTATATCAAATAACTTAAAGCAGTTAAATGCATATTAGACAGATTTATTATAAACAGATTTAT
1 GTGTATATCAAATAACTTAAAGCAGTTAAATGCATATTAGACAGATTTATTATAAACAGATTTAT
95175973 AACAGAACAGAACAGATACAACATATGATCCTACCCCCAACTGCTACACACCATCTTCGACCATC
66 AACAGAACAGAACAGATACAACATATGATCCTACCCCCAACTGCTACACACCATCTTCGACCATC
95176038 CGAACACACCATAT
131 CGAACACACCATAT
*
95176052 GTGTATATCAAATAACTTAAAGTAGTTAAATGCATATTAGACAGATTTATTATAAACAGATTTAT
1 GTGTATATCAAATAACTTAAAGCAGTTAAATGCATATTAGACAGATTTATTATAAACAGATTTAT
95176117 AACAGAACAGAACAGATACAACATATGATCCTACCCCCAACTGCTACACACCATCTTCGACCATC
66 AACAGAACAGAACAGATACAACATATGATCCTACCCCCAACTGCTACACACCATCTTCGACCATC
95176182 CGAACACACCATAT
131 CGAACACACCATAT
*
95176196 GGGTATA
1 GTGTATA
95176203 AAACACTCAT
Statistics
Matches: 149, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
144 149 1.00
ACGTcount: A:0.41, C:0.23, G:0.11, T:0.25
Consensus pattern (144 bp):
GTGTATATCAAATAACTTAAAGCAGTTAAATGCATATTAGACAGATTTATTATAAACAGATTTAT
AACAGAACAGAACAGATACAACATATGATCCTACCCCCAACTGCTACACACCATCTTCGACCATC
CGAACACACCATAT
Found at i:95180180 original size:19 final size:21
Alignment explanation
Indices: 95180156--95180197 Score: 61
Period size: 19 Copynumber: 2.1 Consensus size: 21
95180146 AAAGGATAGG
*
95180156 GAACGAACAAA-AA-GAAAAA
1 GAACGAAAAAATAAGGAAAAA
95180175 GAACGAAAAAATAAGGAAAAA
1 GAACGAAAAAATAAGGAAAAA
95180196 GA
1 GA
95180198 GAAAGAAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 10 0.50
20 2 0.10
21 8 0.40
ACGTcount: A:0.71, C:0.07, G:0.19, T:0.02
Consensus pattern (21 bp):
GAACGAAAAAATAAGGAAAAA
Found at i:95191438 original size:3 final size:3
Alignment explanation
Indices: 95191425--95191457 Score: 52
Period size: 3 Copynumber: 11.7 Consensus size: 3
95191415 ATAAAAATAG
95191425 AAT AA- AAT AAT AAT AA- AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
95191458 CTTACCAATA
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
2 4 0.14
3 24 0.86
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (3 bp):
AAT
Found at i:95191439 original size:11 final size:11
Alignment explanation
Indices: 95191425--95191457 Score: 57
Period size: 11 Copynumber: 2.9 Consensus size: 11
95191415 ATAAAAATAG
95191425 AATAAAATAAT
1 AATAAAATAAT
95191436 AATAAAATAAT
1 AATAAAATAAT
95191447 AATAATAATAA
1 AATAA-AATAA
95191458 CTTACCAATA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 16 0.76
12 5 0.24
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (11 bp):
AATAAAATAAT
Found at i:95192879 original size:19 final size:20
Alignment explanation
Indices: 95192839--95192881 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
95192829 TCATTAAATA
*
95192839 AAAAGTATCTAAAAATTACT
1 AAAAGTAGCTAAAAATTACT
*
95192859 AAAAGTAGCTTAAAA-TACT
1 AAAAGTAGCTAAAAATTACT
95192878 AAAA
1 AAAA
95192882 TATGAAAAGA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 8 0.38
20 13 0.62
ACGTcount: A:0.58, C:0.09, G:0.07, T:0.26
Consensus pattern (20 bp):
AAAAGTAGCTAAAAATTACT
Found at i:95204326 original size:240 final size:241
Alignment explanation
Indices: 95203902--95204345 Score: 683
Period size: 240 Copynumber: 1.8 Consensus size: 241
95203892 ATAGTCTTTA
* *
95203902 TTTTTGTGATATAAGCATTCAACTATATTTCTTTTTCATGGATTGGATCGTATGGGTGGTAAAGT
1 TTTTTGTGATATAAGCATTCAACTATATTTCGTTTTCATGGATTGGATCGTATAGGTGGTAAAGT
* * * *
95203967 CCCCAATATTCCTTTACTCTTGCCAGGATATCTCTTTGCAAGGTATTTAAGGGAGTGCAATGATG
66 CCCCAATATTCCTTTACTCTTACCAAGATATCTCTTTGCAAGATATTTAAGGGACTGCAATGATG
* ** ** * *
95204032 GATAGCATGGGTGATATTCTCTTTAGGTGTTTTGGTTGTCAATAGTTTTGACGCCTTATCACAGT
131 GATAGCATAGGCAATACACTCTTTAGGTGTTTTGGTTATCAATAGTTTTGACGCCTTATCACAGC
95204097 CTTATTATTTAAGGGATTGTAATGGTGGATAGCATGGGCGATACTC
196 CTTATTATTTAAGGGATTGTAATGGTGGATAGCATGGGCGATACTC
* * *
95204143 TTTTTGTGATATAAGCATTTAACTATATTTCGTTTTCATGGCTTGGATCGTATAGGTGGTAGAGT
1 TTTTTGTGATATAAGCATTCAACTATATTTCGTTTTCATGGATTGGATCGTATAGGTGGTAAAGT
* * * *
95204208 -CCCAATATTCCTTTATTCTTACTAAGATATCTCTTTGCAAGATATTTAAGGGACTGTAATGGTG
66 CCCCAATATTCCTTTACTCTTACCAAGATATCTCTTTGCAAGATATTTAAGGGACTGCAATGATG
* *
95204272 GATAGCGTAGGCAATACACTTTTTAGGTGTTTTGGTTATCAATAGTTTTGACGCCTTATCACAGC
131 GATAGCATAGGCAATACACTCTTTAGGTGTTTTGGTTATCAATAGTTTTGACGCCTTATCACAGC
95204337 CTTATTATT
196 CTTATTATT
95204346 CATTCTTTTG
Statistics
Matches: 181, Mismatches: 22, Indels: 1
0.89 0.11 0.00
Matches are distributed among these distances:
240 121 0.67
241 60 0.33
ACGTcount: A:0.24, C:0.14, G:0.21, T:0.40
Consensus pattern (241 bp):
TTTTTGTGATATAAGCATTCAACTATATTTCGTTTTCATGGATTGGATCGTATAGGTGGTAAAGT
CCCCAATATTCCTTTACTCTTACCAAGATATCTCTTTGCAAGATATTTAAGGGACTGCAATGATG
GATAGCATAGGCAATACACTCTTTAGGTGTTTTGGTTATCAATAGTTTTGACGCCTTATCACAGC
CTTATTATTTAAGGGATTGTAATGGTGGATAGCATGGGCGATACTC
Found at i:95207889 original size:17 final size:17
Alignment explanation
Indices: 95207869--95207937 Score: 120
Period size: 17 Copynumber: 4.0 Consensus size: 17
95207859 CAACGATATG
95207869 CAATCTTAGATATGATA
1 CAATCTTAGATATGATA
95207886 CAATCTTAGATATGATA
1 CAATCTTAGATATGATA
*
95207903 CAATCTTAGATATGATTG
1 CAATCTTAGATATGA-TA
95207921 CAATCTTAGATATGATA
1 CAATCTTAGATATGATA
95207938 TATAATCTTA
Statistics
Matches: 49, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
17 33 0.67
18 16 0.33
ACGTcount: A:0.39, C:0.12, G:0.13, T:0.36
Consensus pattern (17 bp):
CAATCTTAGATATGATA
Found at i:95207932 original size:35 final size:34
Alignment explanation
Indices: 95207869--95207937 Score: 120
Period size: 35 Copynumber: 2.0 Consensus size: 34
95207859 CAACGATATG
95207869 CAATCTTAGATATGATACAATCTTAGATATGATA
1 CAATCTTAGATATGATACAATCTTAGATATGATA
*
95207903 CAATCTTAGATATGATTGCAATCTTAGATATGATA
1 CAATCTTAGATATGA-TACAATCTTAGATATGATA
95207938 TATAATCTTA
Statistics
Matches: 33, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
34 15 0.45
35 18 0.55
ACGTcount: A:0.39, C:0.12, G:0.13, T:0.36
Consensus pattern (34 bp):
CAATCTTAGATATGATACAATCTTAGATATGATA
Found at i:95208497 original size:26 final size:26
Alignment explanation
Indices: 95208468--95208517 Score: 73
Period size: 26 Copynumber: 1.9 Consensus size: 26
95208458 TCTTATAAAT
* * *
95208468 ATTTTTTATTATATATTATATTTTAA
1 ATTTATTATTAAATATCATATTTTAA
95208494 ATTTATTATTAAATATCATATTTT
1 ATTTATTATTAAATATCATATTTT
95208518 TTTATATGCT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (26 bp):
ATTTATTATTAAATATCATATTTTAA
Found at i:95213659 original size:54 final size:54
Alignment explanation
Indices: 95213596--95213827 Score: 232
Period size: 54 Copynumber: 4.1 Consensus size: 54
95213586 AGTATCATAT
*
95213596 ATTATGATTTGAGTAAATTCATATAAAAATATTAATTATTAAGAATTTTATTAA
1 ATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAA
*
95213650 ATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAA
1 ATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAA
* * * * * * * * *
95213704 ATTATATATTTTAATTATAATAT-ATTTAATAATAATTATGTTAATTTATATTTTATAGTATCAT
1 ATTAT-GA-TTTGAGTA-AAT-TCATATAAGAAT-ATTA-ATT-ATTAAGAATTT-TA-T-T-A-
95213768 A
54 A
*
95213769 TATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAA
1 -ATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAA
95213824 ATTA
1 ATTA
95213828 CATATTTTAA
Statistics
Matches: 142, Mismatches: 22, Indels: 28
0.74 0.11 0.15
Matches are distributed among these distances:
54 61 0.43
55 2 0.01
56 7 0.05
57 12 0.08
58 5 0.04
59 4 0.03
60 16 0.11
61 4 0.03
62 5 0.04
63 12 0.08
64 7 0.05
65 2 0.01
66 5 0.04
ACGTcount: A:0.43, C:0.02, G:0.08, T:0.47
Consensus pattern (54 bp):
ATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAA
Found at i:95213696 original size:28 final size:27
Alignment explanation
Indices: 95213611--95213696 Score: 63
Period size: 28 Copynumber: 3.1 Consensus size: 27
95213601 GATTTGAGTA
*
95213611 AATTCATATAAAAATATTAATTATTAAG
1 AATTCATAT-AAAATATTGATTATTAAG
* * *
95213639 AATT-TTATTAAAT-TATGA-T-TTGAG
1 AATTCATATAAAATAT-TGATTATTAAG
95213663 TAAATTCATATAAGAATATTGATTATTAAG
1 --AATTCATATAA-AATATTGATTATTAAG
95213693 AATT
1 AATT
95213697 TTATTAAATT
Statistics
Matches: 43, Mismatches: 7, Indels: 16
0.65 0.11 0.24
Matches are distributed among these distances:
24 4 0.09
25 2 0.05
26 10 0.23
27 7 0.16
28 14 0.33
29 2 0.05
30 4 0.09
ACGTcount: A:0.47, C:0.02, G:0.08, T:0.43
Consensus pattern (27 bp):
AATTCATATAAAATATTGATTATTAAG
Found at i:95213733 original size:15 final size:15
Alignment explanation
Indices: 95213698--95213749 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
95213688 TTAAGAATTT
*
95213698 TATTAAATTAT-ATA
1 TATTTAATTATAATA
95213712 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
95213726 TATTTAATAATAAT-
1 TATTTAATTATAATA
95213740 TATGTTAATT
1 TAT-TTAATT
95213750 TATATTTTAT
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 8 0.25
14 8 0.25
15 16 0.50
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:95213775 original size:120 final size:120
Alignment explanation
Indices: 95213650--95213865 Score: 423
Period size: 120 Copynumber: 1.8 Consensus size: 120
95213640 ATTTTATTAA
*
95213650 ATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAAATTATATATTT
1 ATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAAATTACATATTT
95213715 TAATTATAATATATTTAATAATAATTATGTTAATTTATATTTTATAGTATCATAT
66 TAATTATAATATATTTAATAATAATTATGTTAATTTATATTTTATAGTATCATAT
95213770 ATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAAATTACATATTT
1 ATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAAATTACATATTT
95213835 TAATTATAATATATTTAATAATAATTATGTT
66 TAATTATAATATATTTAATAATAATTATGTT
95213866 TAAATATGAT
Statistics
Matches: 95, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
120 95 1.00
ACGTcount: A:0.42, C:0.02, G:0.07, T:0.49
Consensus pattern (120 bp):
ATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAAATTACATATTT
TAATTATAATATATTTAATAATAATTATGTTAATTTATATTTTATAGTATCATAT
Found at i:95214079 original size:45 final size:43
Alignment explanation
Indices: 95213979--95214088 Score: 120
Period size: 45 Copynumber: 2.6 Consensus size: 43
95213969 TTTTCCATTA
95213979 TGCTATTACACCTCTATT-C---CATTCAACCAAACACAAGAT
1 TGCTATTACACCTCTATTCCATACATTCAACCAAACACAAGAT
* * ***
95214018 TACTATTACGCCTCTATTCCATTACATTCAACCAAACAGTTGATT
1 TGCTATTACACCTCTATTCCA-TACATTCAACCAAACACAAGA-T
95214063 TGCTATTACACCTCTATTCCAATACA
1 TGCTATTACACCTCTATTCC-ATACA
95214089 CCTCTAATCC
Statistics
Matches: 57, Mismatches: 7, Indels: 8
0.79 0.10 0.11
Matches are distributed among these distances:
39 16 0.28
40 1 0.02
44 16 0.28
45 23 0.40
46 1 0.02
ACGTcount: A:0.33, C:0.29, G:0.05, T:0.33
Consensus pattern (43 bp):
TGCTATTACACCTCTATTCCATACATTCAACCAAACACAAGAT
Found at i:95214090 original size:16 final size:16
Alignment explanation
Indices: 95214069--95214120 Score: 95
Period size: 16 Copynumber: 3.2 Consensus size: 16
95214059 GATTTGCTAT
*
95214069 TACACCTCTATTCCAA
1 TACACCTCTAATCCAA
95214085 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
95214101 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
95214117 TACA
1 TACA
95214121 GCGAACCAAA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
16 35 1.00
ACGTcount: A:0.37, C:0.37, G:0.00, T:0.27
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:95218934 original size:26 final size:24
Alignment explanation
Indices: 95218899--95218949 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 24
95218889 TCACCTATAA
95218899 AATAATCTTTTAAAAAGAAAAATTTT
1 AATAATC-TTTAAAAAG-AAAATTTT
* *
95218925 AATATTCTTTAAAAAGATAATTTT
1 AATAATCTTTAAAAAGAAAATTTT
95218949 A
1 A
95218950 CTCTATGTCC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
24 8 0.35
25 9 0.39
26 6 0.26
ACGTcount: A:0.51, C:0.04, G:0.04, T:0.41
Consensus pattern (24 bp):
AATAATCTTTAAAAAGAAAATTTT
Found at i:95219497 original size:20 final size:20
Alignment explanation
Indices: 95219472--95219511 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
95219462 GGTTTTCACC
95219472 TTTGTTGGATT-AATTATTTA
1 TTTGTT-GATTAAATTATTTA
95219492 TTTGTTGATTAAATTATTTA
1 TTTGTTGATTAAATTATTTA
95219512 AAAGTTACTA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 4 0.21
20 15 0.79
ACGTcount: A:0.28, C:0.00, G:0.12, T:0.60
Consensus pattern (20 bp):
TTTGTTGATTAAATTATTTA
Found at i:95226221 original size:3 final size:3
Alignment explanation
Indices: 95226213--95226250 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
95226203 CTAAATATTG
95226213 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
95226251 GTTTCAAATC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:95226924 original size:9 final size:9
Alignment explanation
Indices: 95226896--95226946 Score: 57
Period size: 9 Copynumber: 5.7 Consensus size: 9
95226886 ATAAGTATAA
95226896 AATTAACCG
1 AATTAACCG
* *
95226905 AAGTAATCG
1 AATTAACCG
95226914 AATTAACCG
1 AATTAACCG
*
95226923 AACTAACCG
1 AATTAACCG
* *
95226932 AATCAACTG
1 AATTAACCG
95226941 AATTAA
1 AATTAA
95226947 AGTATTGAAT
Statistics
Matches: 33, Mismatches: 9, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
9 33 1.00
ACGTcount: A:0.47, C:0.20, G:0.12, T:0.22
Consensus pattern (9 bp):
AATTAACCG
Found at i:95228927 original size:41 final size:39
Alignment explanation
Indices: 95228792--95228927 Score: 96
Period size: 41 Copynumber: 3.5 Consensus size: 39
95228782 GCTAGTTTGT
* ** * *
95228792 CACCTAGTGCCTCATCGAATAATTTGAAGTAATAATTTGA
1 CACCCAGTGCCTCATCGAATAA-TCCAAGTAGTAAATTGA
* ** * * *
95228832 CACCCAGTGTCTCATCGGCTAAACC--GAAGTAAATTGG
1 CACCCAGTGCCTCATCGAATAATCCAAGTAGTAAATTGA
* *
95228869 CACCCAGGGCCTAATCGAATTAATCCAAAGTAGTAAATTGA
1 CACCCAGTGCCTCATCGAA-TAATCC-AAGTAGTAAATTGA
* *
95228910 CACCTAGTGTCTCATCGA
1 CACCCAGTGCCTCATCGA
95228928 TTCGAAGTCG
Statistics
Matches: 69, Mismatches: 23, Indels: 7
0.70 0.23 0.07
Matches are distributed among these distances:
37 22 0.32
38 5 0.07
40 18 0.26
41 24 0.35
ACGTcount: A:0.33, C:0.24, G:0.18, T:0.26
Consensus pattern (39 bp):
CACCCAGTGCCTCATCGAATAATCCAAGTAGTAAATTGA
Found at i:95229128 original size:24 final size:24
Alignment explanation
Indices: 95229083--95229129 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
95229073 TATATATACC
95229083 AATTCAATCAATATAAATTCAATA
1 AATTCAATCAATATAAATTCAATA
95229107 AATTC-ATCACATACTAAA-TCAAT
1 AATTCAATCA-ATA-TAAATTCAAT
95229130 CCATTTTAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
23 4 0.19
24 13 0.62
25 4 0.19
ACGTcount: A:0.51, C:0.17, G:0.00, T:0.32
Consensus pattern (24 bp):
AATTCAATCAATATAAATTCAATA
Found at i:95229548 original size:30 final size:28
Alignment explanation
Indices: 95229505--95229561 Score: 71
Period size: 30 Copynumber: 2.0 Consensus size: 28
95229495 TTATCTTAAA
*
95229505 TCCCTAATTTTCAAATTTTTCACAATTTAG
1 TCCCTAATTTTCAAA-ATTT-ACAATTTAG
95229535 TCCCT-ATTATTCAAAATTTACAATTTA
1 TCCCTAATT-TTCAAAATTTACAATTTA
95229562 TTCTACAATT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
28 8 0.32
29 6 0.24
30 11 0.44
ACGTcount: A:0.33, C:0.19, G:0.02, T:0.46
Consensus pattern (28 bp):
TCCCTAATTTTCAAAATTTACAATTTAG
Found at i:95229803 original size:17 final size:17
Alignment explanation
Indices: 95229781--95229833 Score: 54
Period size: 17 Copynumber: 3.1 Consensus size: 17
95229771 GAAACCCTAA
95229781 TTTTCTCCTCTCTTTCT
1 TTTTCTCCTCTCTTTCT
* *
95229798 TTTTCTCCT-ACTTTGT
1 TTTTCTCCTCTCTTTCT
* *
95229814 TTTTACTTCTCTGTTTCT
1 TTTT-CTCCTCTCTTTCT
95229832 TT
1 TT
95229834 CTCTATTTCT
Statistics
Matches: 28, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
16 9 0.32
17 13 0.46
18 6 0.21
ACGTcount: A:0.04, C:0.26, G:0.04, T:0.66
Consensus pattern (17 bp):
TTTTCTCCTCTCTTTCT
Found at i:95229848 original size:14 final size:15
Alignment explanation
Indices: 95229793--95229860 Score: 50
Period size: 16 Copynumber: 4.5 Consensus size: 15
95229783 TTCTCCTCTC
*
95229793 TTTCTTTTTCTCCTA
1 TTTCTTTTTCTTCTA
* *
95229808 CTTTGTTTTTACTTCTC
1 -TTTCTTTTT-CTTCTA
*
95229825 TGTT-TCTTTC-TCTA
1 T-TTCTTTTTCTTCTA
*
95229839 TTTCTTTTTCTTTTA
1 TTTCTTTTTCTTCTA
95229854 TTTCTTT
1 TTTCTTT
95229861 GTTTTATTAT
Statistics
Matches: 41, Mismatches: 7, Indels: 9
0.72 0.12 0.16
Matches are distributed among these distances:
13 2 0.05
14 9 0.22
15 11 0.27
16 13 0.32
17 6 0.15
ACGTcount: A:0.06, C:0.21, G:0.03, T:0.71
Consensus pattern (15 bp):
TTTCTTTTTCTTCTA
Found at i:95235364 original size:16 final size:15
Alignment explanation
Indices: 95235339--95235375 Score: 56
Period size: 16 Copynumber: 2.4 Consensus size: 15
95235329 CTATAATTTA
95235339 AATAAAATAATAATT
1 AATAAAATAATAATT
*
95235354 ATATAATATAATAATT
1 A-ATAAAATAATAATT
95235370 AATAAA
1 AATAAA
95235376 TTAAGAAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
15 5 0.26
16 14 0.74
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (15 bp):
AATAAAATAATAATT
Found at i:95241757 original size:21 final size:24
Alignment explanation
Indices: 95241715--95241757 Score: 56
Period size: 21 Copynumber: 1.9 Consensus size: 24
95241705 TTCAATTACA
*
95241715 ATTTCTCACATTTTCAATTCAATC
1 ATTTCTCACATTTTCAAGTCAATC
95241739 ATTTC-CAC-TTTTC-AGTCAA
1 ATTTCTCACATTTTCAAGTCAA
95241758 ATTTTCAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
21 5 0.28
22 5 0.28
23 3 0.17
24 5 0.28
ACGTcount: A:0.28, C:0.26, G:0.02, T:0.44
Consensus pattern (24 bp):
ATTTCTCACATTTTCAAGTCAATC
Found at i:95243093 original size:16 final size:15
Alignment explanation
Indices: 95243068--95243103 Score: 54
Period size: 16 Copynumber: 2.3 Consensus size: 15
95243058 TTATAATTTA
*
95243068 AATAAAATAATAATT
1 AATAATATAATAATT
95243083 ATATAATATAATAATT
1 A-ATAATATAATAATT
95243099 AATAA
1 AATAA
95243104 ATTAAGAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
15 5 0.26
16 14 0.74
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (15 bp):
AATAATATAATAATT
Found at i:95248069 original size:28 final size:29
Alignment explanation
Indices: 95248038--95248096 Score: 84
Period size: 29 Copynumber: 2.1 Consensus size: 29
95248028 ATACATTTTG
*
95248038 TATATTTAG-AATTTAGTCCCTCTACATT
1 TATATTCAGAAATTTAGTCCCTCTACATT
* *
95248066 TATATTCAGAAATTTAGTGCCTCTAGATT
1 TATATTCAGAAATTTAGTCCCTCTACATT
95248095 TA
1 TA
95248097 GATTAAAAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
28 8 0.30
29 19 0.70
ACGTcount: A:0.31, C:0.15, G:0.10, T:0.44
Consensus pattern (29 bp):
TATATTCAGAAATTTAGTCCCTCTACATT
Found at i:95248107 original size:29 final size:29
Alignment explanation
Indices: 95248047--95248108 Score: 79
Period size: 29 Copynumber: 2.1 Consensus size: 29
95248037 GTATATTTAG
* * *
95248047 AATTTAGTCCCTCTACATTTATATTCAGA
1 AATTTAGTCCCTCTACATTTAGATTAAAA
* *
95248076 AATTTAGTGCCTCTAGATTTAGATTAAAA
1 AATTTAGTCCCTCTACATTTAGATTAAAA
95248105 AATT
1 AATT
95248109 CAGATACAAT
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.35, C:0.15, G:0.10, T:0.40
Consensus pattern (29 bp):
AATTTAGTCCCTCTACATTTAGATTAAAA
Done.