Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr11
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: 102024878
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 3234766 characters in sequence are not A, C, G, or T
File 35 of 310
Found at i:9860677 original size:91 final size:90
Alignment explanation
Indices: 9860524--9860728 Score: 236
Period size: 91 Copynumber: 2.3 Consensus size: 90
9860514 TCCGCTCCGT
* * * * *
9860524 TGCAACTTCAGGGAGAT-AGGATTGGTAATCTTCAGTATGCTCCACTGCAACTTCAGGGAGATAA
1 TGCAACTTCAGAGAGATAAGGTTTGGTAATCTTCAGTATGCTCCACTACAACTTCAAGAAGATAA
* *
9860588 GACCTGT-C-ACTTCAACCTGTTCCAC
66 -AACT-TACTACTTCAACCTGCTCCAC
* * *
9860613 TGCAACTTCAGCGAGATAAGGTTTGTGTATTCTTCAGTTTGCTCCACTACAACTTCAAGAAGATA
1 TGCAACTTCAGAGAGATAAGGTTTG-GTAATCTTCAGTATGCTCCACTACAACTTCAAGAAGATA
* *
9860678 AAACTTACTACTTCAACCTGCTCTAT
65 AAACTTACTACTTCAACCTGCTCCAC
* *
9860704 TGCAATTTCAGAGAGGTAAGGTTTG
1 TGCAACTTCAGAGAGATAAGGTTTG
9860729 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:9861149 original size:223 final size:222
Alignment explanation
Indices: 9860801--9861214 Score: 652
Period size: 223 Copynumber: 1.9 Consensus size: 222
9860791 CGCTGCAACT
* * ** *
9860801 TCAGGGAGATAAGACTGGTGGCTAAAATCTGCTCCCCGCCTACCTCAGGAAGATACGATTCACTG
1 TCAGGGAGATAAGACTAGCGGCTAAAATCTGCTCCCCGCCTACCTCAGGAAGATAAAATTCACCG
* * * *
9860866 TCTTCGATCTACTCCACTGCTATCTCAGGGAGATAATATCTTCAATCTTTAGTTTGCTTCCTTGC
66 TCTTCGATCTACTCCACTGCTAACTCAGGGAGATAAAATCTTCAATCTTCAGTCTGCTTCCTTGC
* *
9860931 TACCTCCGGAAGATAAGACTACAATCTCCAGCCTGCCCCCTTGCTACCTCAAGGAGATAAGACTA
131 TACCTCAGGAAGATAAGACTACAATCTCCAGCCTGCCCCATTGCTACCTCAAGGAGATAAGACTA
9860996 CAATATCCAACCTGGCCCCTTACTACC
196 CAATATCCAACCTGGCCCCTTACTACC
*
9861023 TCAGGGAGATAAGGCTAGCGGCTAAAATCTGCTCCCCTG-CTACCTC-GGAAAGATAAAATTCAC
1 TCAGGGAGATAAGACTAGCGGCTAAAATCTGCTCCCC-GCCTACCTCAGG-AAGATAAAATTCAC
* *
9861086 CGTTTTTCGATCTGCTCCACTGCTAACTCAGGGAGATAAAATCTTCAATCTTCAGTCTGCTTCCT
64 CG-TCTTCGATCTACTCCACTGCTAACTCAGGGAGATAAAATCTTCAATCTTCAGTCTGCTTCCT
*
9861151 TGCTACCTCAGGAAGATAAGACTACAATCTTCAGCCTGCCCCATTGCTACCTCAAGGAGATAAG
128 TGCTACCTCAGGAAGATAAGACTACAATCTCCAGCCTGCCCCATTGCTACCTCAAGGAGATAAG
9861215 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:9861198 original size:44 final size:43
Alignment explanation
Indices: 9860925--9861214 Score: 160
Period size: 44 Copynumber: 6.5 Consensus size: 43
9860915 TAGTTTGCTT
* *
9860925 CCTTGCTACCTCCGGAAGATAAGACTACAATCTCCAGCCTGCCC
1 CCTTGCTACCTCAGGAAGATAAGACTACAATCTTCAGCCTG-CC
* * *
9860969 CCTTGCTACCTCAAGG-AGATAAGACTACAATATCCAACCTGGCC
1 CCTTGCTACCTC-AGGAAGATAAGACTACAATCTTCAGCCT-GCC
* * * ** ** **
9861013 CCTTACTACCTCAGGGAGATAAGGCTAGC-GGCTAAAATCTGCTC
1 CCTTGCTACCTCAGGAAGATAAGACTA-CAATCTTCAGCCTGC-C
* * * ** * *
9861057 CCCTGCTACCTC-GGAAAGATAAAATTCACCGTTTTTC-GATCTGCTC
1 CCTTGCTACCTCAGG-AAGATAAGACT-A-CAATCTTCAG-CCTGC-C
* * * * * *
9861103 CAC-TGCTAACTCAGGGAGATAAAATCTTCAATCTTCAGTCTGCTT
1 C-CTTGCTACCTCAGGAAGATAAGA-CTACAATCTTCAGCCTGC-C
9861148 CCTTGCTACCTCAGGAAGATAAGACTACAATCTTCAGCCTGCC
1 CCTTGCTACCTCAGGAAGATAAGACTACAATCTTCAGCCTGCC
9861191 CCATTGCTACCTCAAGG-AGATAAG
1 CC-TTGCTACCTC-AGGAAGATAAG
9861215 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:9861247 original size:223 final size:217
Alignment explanation
Indices: 9860784--9861247 Score: 599
Period size: 223 Copynumber: 2.1 Consensus size: 217
9860774 TAATCTTCAG
* * * * *
9860784 TCTACTCCGCTGCAACTTCAGGGAGATAAGACTGGTGGCTAAAATCTGCTCCCCGCCTACCTCAG
1 TCTACTCCCCTGCTACCTCAGGGAGATAAGACTAGCGGCTAAAATCTGCTCCCCGCCTACCTCAG
** * * *
9860849 GAAGATACGATTCACTGTCTTCGATCTACTCCACTGCTATCTCAGGGAGATAATATCTTCAATCT
66 GAAGATAAAATTCACCGTCTTCGATCTACTCCACTGCTAACTCAGGGAGATAAAATCTTCAATCT
* * * *
9860914 TTAGTTTGCTTCCTTGCTACCTCCGGAAGATAAGACTACAATCTCCAGCCTGCCCCCTTGCTACC
131 TCAGTCTGCTTCCTTGCTACCTCAGGAAGATAAGACTACAATCTCCAGCCTGCCCCATTGCTACC
*
9860979 TCAAGGAGATAAGACTACAATA
196 TCAAGGAGATAAGACTACAAAA
* * *
9861001 TCCAACCTGGCCCCTTACTACCTCAGGGAGATAAGGCTAGCGGCTAAAATCTGCTCCCCTG-CTA
1 T-CTA-CT--CCCC-TGCTACCTCAGGGAGATAAGACTAGCGGCTAAAATCTGCTCCCC-GCCTA
* *
9861065 CCTC-GGAAAGATAAAATTCACCGTTTTTCGATCTGCTCCACTGCTAACTCAGGGAGATAAAATC
60 CCTCAGG-AAGATAAAATTCACCG-TCTTCGATCTACTCCACTGCTAACTCAGGGAGATAAAATC
*
9861129 TTCAATCTTCAGTCTGCTTCCTTGCTACCTCAGGAAGATAAGACTACAATCTTCAGCCTGCCCCA
123 TTCAATCTTCAGTCTGCTTCCTTGCTACCTCAGGAAGATAAGACTACAATCTCCAGCCTGCCCCA
*
9861194 TTGCTACCTCAAGGAGATAAGGCTAATGGCTAAAA
188 TTGCTACCTCAAGGAGATAAGACT-A---C-AAAA
9861229 TCTACTCCCCTGCTACCTC
1 TCTACTCCCCTGCTACCTC
9861248 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:9861357 original size:178 final size:177
Alignment explanation
Indices: 9860969--9861530 Score: 795
Period size: 178 Copynumber: 3.2 Consensus size: 177
9860959 CAGCCTGCCC
* * * *
9860969 CCTTGCTACCTCAAGG-AGATAAGACTACAATATCCAACCTGGCCCCTTACTACCTCAGGGAGAT
1 CCTTGCTACCTC-AGGAAGATAAGACTACAATCTTCAGCCT-GCCCCTTGCTACCTCAGGGAGAT
* * *
9861033 AAGGCTAGCGGCTAAAATCTGCTCCCCTGCTACCTCGGAAAGATAAAATTCACCGTTTTTCGATC
64 AAGGCTAGTGGCTAAAATCTGCTCCCCTGCTACCTCGGAAAGATAAGATTCACCGTCTTT-GATC
* *
9861098 TGCTCCACTGCTAACTCAGGGAGATAAAATCTTCAATCTTCAGTCTGCTT
128 TGCTCCACTGCTATCTCAGGGAGATAAAATCTTTAATCTTCAGTCTGCTT
*
9861148 CCTTGCTACCTCAGGAAGATAAGACTACAATCTTCAGCCTGCCCCATTGCTACCTCAAGGAGATA
1 CCTTGCTACCTCAGGAAGATAAGACTACAATCTTCAGCCTGCCCC-TTGCTACCTCAGGGAGATA
* *
9861213 AGGCTAATGGCTAAAATCTACTCCCCTGCTACCTCGGAAAGATAAGATTCACCGTCTTTGATCTG
65 AGGCTAGTGGCTAAAATCTGCTCCCCTGCTACCTCGGAAAGATAAGATTCACCGTCTTTGATCTG
* *
9861278 TTCTACTGCTATCTCAGGGAGATAAAATCTTTAATCTTCAGTCTGCTT
130 CTCCACTGCTATCTCAGGGAGATAAAATCTTTAATCTTCAGTCTGCTT
* ** *
9861326 CCTTGCTAACTCAGGAAGATAAGACTACAATCTTTGGCCTGCTCTCTTGCTACCTCAGGGAGATA
1 CCTTGCTACCTCAGGAAGATAAGACTACAATCTTCAGCCTGC-CCCTTGCTACCTCAGGGAGATA
* ** * *
9861391 AGGCTGGTGGCTAAAATCTGCTCCCCTGCTACCTC-GAGAAGATAAGATTTGCCATCTTCGATCT
65 AGGCTAGTGGCTAAAATCTGCTCCCCTGCTACCTCGGA-AAGATAAGATTCACCGTCTTTGATCT
* * *
9861455 GCTCCACTGCTATCTCAGGGAGATGAGATCTTTAATCTTCAGTCTACTT
129 GCTCCACTGCTATCTCAGGGAGATAAAATCTTTAATCTTCAGTCTGCTT
* * *
9861504 TCTTGGTACCTCAAGAAGATAAGACTA
1 CCTTGCTACCTCAGGAAGATAAGACTA
9861531 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:9861543 original size:134 final size:134
Alignment explanation
Indices: 9861370--9861664 Score: 455
Period size: 134 Copynumber: 2.2 Consensus size: 134
9861360 TGGCCTGCTC
* * **
9861370 TCTTGCTACCTCAGGGAGATAAGGCTGGTGGCTAAAATCTGCTCCCCTGCTACCTCGAGAAGATA
1 TCTTGCTACCTCAGGAAGATAAGACTAATGGCTAAAATCTGCTCCCCTGCTACCTCGAGAAGATA
* * * *
9861435 AGATTTGCCATCTTCGATCTGCTCCACTGCTATCTCAGGGAGATGAGATCTTTAATCTTCAGTCT
66 AGATTCGCCATCTTCGATCTACTCCACTACTATCTCAGGGAGATGAGATCTTCAATCTTCAGTCT
9861500 ACTT
131 ACTT
* * *
9861504 TCTTGGTACCTCAAGAAGATAAGACTAATGGCTAAAATCTGCTCCCCTGCTACCTCGAGAATATA
1 TCTTGCTACCTCAGGAAGATAAGACTAATGGCTAAAATCTGCTCCCCTGCTACCTCGAGAAGATA
* *
9861569 AGATTCGCCATCTTCGATCTACTCTACTACTATCTCAGGGAGATGAGATCTTCAATCTTCAGTTT
66 AGATTCGCCATCTTCGATCTACTCCACTACTATCTCAGGGAGATGAGATCTTCAATCTTCAGTCT
*
9861634 GCTT
131 ACTT
*
9861638 CCTTGCTACCTCAGGAAGATAAGACTA
1 TCTTGCTACCTCAGGAAGATAAGACTA
9861665 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:9861553 original size:312 final size:312
Alignment explanation
Indices: 9861198--9861772 Score: 882
Period size: 312 Copynumber: 1.8 Consensus size: 312
9861188 GCCCCATTGC
* *
9861198 TACCTCAAGGAGATAAGGCTAATGGCTAAAATCTACTCCCCTGCTACCTCG-GAAAGATAAGATT
1 TACCTCAAGAAGATAAGACTAATGGCTAAAATCTACTCCCCTGCTACCTCGAG-AAGATAAGATT
* * ** * *
9861262 CACCGTCTTTGATCTGTTCTACTGCTATCTCAGGGAGATAAAATCTTTAATCTTCAGTCTGCTTC
65 CACCATCTTCGATCTACTCTACTACTATCTCAGGGAGATAAAATCTTCAATCTTCAGTCTGCTTC
** * * * *
9861327 CTTGCTAACTCAGGAAGATAAGACTACAATCTTTGGCCTGCTCTCTTGCTACCTCAGGGAGATAA
130 CTTGCTAACTCAGGAAGATAAGACTACAATCTTCAGCCTACTCCCTTGCTACCCCAAGGAGATAA
* * *
9861392 GGCTGGTGGCTAAAATCTGCTCCCCTGCTACCTCGAGAAGATAAGATTTGCCATCTTCGATCTGC
195 GGCTAGTGGCTAAAATCTGCTCCCCTACTACCTCGAGAAGATAAGATTCGCCATCTTCGATCTGC
9861457 TCCACTGCTATCTCAGGGAGATGAGATCTTTAATCTTCAGTCTACTTTCTTGG
260 TCCACTGCTATCTCAGGGAGATGAGATCTTTAATCTTCAGTCTACTTTCTTGG
* *
9861510 TACCTCAAGAAGATAAGACTAATGGCTAAAATCTGCTCCCCTGCTACCTCGAGAATATAAGATTC
1 TACCTCAAGAAGATAAGACTAATGGCTAAAATCTACTCCCCTGCTACCTCGAGAAGATAAGATTC
* * * *
9861575 GCCATCTTCGATCTACTCTACTACTATCTCAGGGAGATGAGATCTTCAATCTTCAGTTTGCTTCC
66 ACCATCTTCGATCTACTCTACTACTATCTCAGGGAGATAAAATCTTCAATCTTCAGTCTGCTTCC
*
9861640 TTGCTACCTCAGGAAGATAAGACTACAATCTTCAGCCTACTCCCTTGCTACCCCAAGGAGATAAG
131 TTGCTAACTCAGGAAGATAAGACTACAATCTTCAGCCTACTCCCTTGCTACCCCAAGGAGATAAG
* * * *
9861705 TCTAGTGGCTAAAATTTGCTCCCCTACTACCTCGGGAAGCTAAGATTCGCCATCTTCGATCTGCT
196 GCTAGTGGCTAAAATCTGCTCCCCTACTACCTCGAGAAGATAAGATTCGCCATCTTCGATCTGCT
9861770 CCA
261 CCA
9861773 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:9861652 original size:45 final size:44
Alignment explanation
Indices: 9861602--9861704 Score: 116
Period size: 44 Copynumber: 2.3 Consensus size: 44
9861592 CTACTACTAT
* * ** * *
9861602 CTCAGGGAGATGAGATCTTCAATCTTCAGTTTGCTTCCTTGCTAC
1 CTCAGGGAGATAAGA-CTACAATCTTCAGCCTACTCCCTTGCTAC
*
9861647 CTCAGGAAGATAAGACTACAATCTTCAGCCTACTCCCTTGCTAC
1 CTCAGGGAGATAAGACTACAATCTTCAGCCTACTCCCTTGCTAC
* *
9861691 CCCAAGGAGATAAG
1 CTCAGGGAGATAAG
9861705 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:9863064 original size:11 final size:11
Alignment explanation
Indices: 9863050--9863103 Score: 57
Period size: 10 Copynumber: 5.5 Consensus size: 11
9863040 TTTTTCTCTT
9863050 TTTTTTATTGA
1 TTTTTTATTGA
9863061 --TTTT-TT-A
1 TTTTTTATTGA
9863068 TTTTTTATTGA
1 TTTTTTATTGA
9863079 TTTTTTATT-A
1 TTTTTTATTGA
*
9863089 TTATTT-TTGA
1 TTTTTTATTGA
9863099 TTTTT
1 TTTTT
9863104 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:9863070 original size:7 final size:7
Alignment explanation
Indices: 9863060--9863124 Score: 51
Period size: 7 Copynumber: 8.9 Consensus size: 7
9863050 TTTTTTATTG
9863060 ATTTTTT
1 ATTTTTT
9863067 ATTTTTT
1 ATTTTTT
9863074 ATTGATTTT
1 ATT--TTTT
9863083 -TTATTATT
1 ATT-TT-TT
*
9863091 ATTTTTG
1 ATTTTTT
*
9863098 ATTTTTG
1 ATTTTTT
*
9863105 ATTTTTG
1 ATTTTTT
9863112 ATTTTTT
1 ATTTTTT
*
9863119 GTTTTT
1 ATTTTT
9863125 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:9863071 original size:18 final size:18
Alignment explanation
Indices: 9863050--9863110 Score: 86
Period size: 18 Copynumber: 3.3 Consensus size: 18
9863040 TTTTTCTCTT
9863050 TTTTTTATTGATTTTTTA
1 TTTTTTATTGATTTTTTA
9863068 TTTTTTATTGATTTTTTA
1 TTTTTTATTGATTTTTTA
* *
9863086 TTATTATTTTTGATTTTTGA
1 TT-TT-TTATTGATTTTTTA
9863106 TTTTT
1 TTTTT
9863111 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:9863119 original size:8 final size:7
Alignment explanation
Indices: 9863075--9863117 Score: 61
Period size: 7 Copynumber: 6.3 Consensus size: 7
9863065 TTATTTTTTA
9863075 TTGATTT
1 TTGATTT
* *
9863082 TTTATTA
1 TTGATTT
9863089 TT-ATTT
1 TTGATTT
9863095 TTGATTT
1 TTGATTT
9863102 TTGATTT
1 TTGATTT
9863109 TTGATTT
1 TTGATTT
9863116 TT
1 TT
9863118 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:9863693 original size:21 final size:19
Alignment explanation
Indices: 9863669--9863720 Score: 54
Period size: 19 Copynumber: 2.7 Consensus size: 19
9863659 ATAACCTTTG
9863669 TTTTATTATTTTTATTCTTCT
1 TTTTATTATTTTTATT-TT-T
9863690 TTTTA-T-TTTTTATTTTT
1 TTTTATTATTTTTATTTTT
*
9863707 TATTTTTTATTTTT
1 T-TTTATTATTTTT
9863721 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:9863698 original size:6 final size:6
Alignment explanation
Indices: 9863674--9863739 Score: 51
Period size: 7 Copynumber: 10.3 Consensus size: 6
9863664 CTTTGTTTTA
* * *
9863674 TTATTT TTATTC TTCTTT TTATTTT TTATTTT TTATTTT TTATTTT TTACTT
1 TTATTT TTATTT TTATTT TTA-TTT TTA-TTT TTA-TTT TTA-TTT TTATTT
* *
9863726 TTGTTT TTCTTT TT
1 TTATTT TTATTT TT
9863740 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:9863733 original size:21 final size:20
Alignment explanation
Indices: 9863665--9863733 Score: 70
Period size: 21 Copynumber: 3.5 Consensus size: 20
9863655 CACTATAACC
*
9863665 TTTGTTTTATTA-TTTTTAT
1 TTTGTTTTTTTATTTTTTAT
* *
9863684 TCT-TCTTTTTATTTTTTAT
1 TTTGTTTTTTTATTTTTTAT
*
9863703 TTTTTATTTTTTATTTTTTACT
1 TTTGT-TTTTTTATTTTTTA-T
9863725 TTTGTTTTT
1 TTTGTTTTT
9863734 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:9863739 original size:7 final size:7
Alignment explanation
Indices: 9863689--9863727 Score: 69
Period size: 7 Copynumber: 5.4 Consensus size: 7
9863679 TTTATTCTTC
9863689 TTTTTAT
1 TTTTTAT
9863696 TTTTTAT
1 TTTTTAT
9863703 TTTTTAT
1 TTTTTAT
9863710 TTTTTAT
1 TTTTTAT
9863717 TTTTTACT
1 TTTTTA-T
9863725 TTT
1 TTT
9863728 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:9868988 original size:16 final size:16
Alignment explanation
Indices: 9868967--9869018 Score: 77
Period size: 16 Copynumber: 3.2 Consensus size: 16
9868957 ACTTATTCGC
*
9868967 TGTATTGGATTAGAGA
1 TGTATTGGATTAGAGG
9868983 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
* *
9868999 TGTAATGGAATAGAGG
1 TGTATTGGATTAGAGG
9869015 TGTA
1 TGTA
9869019 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:9869275 original size:18 final size:17
Alignment explanation
Indices: 9869254--9869288 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
9869244 TTATTATTAA
*
9869254 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
9869272 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
9869289 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:9869344 original size:157 final size:157
Alignment explanation
Indices: 9869148--9869457 Score: 575
Period size: 157 Copynumber: 2.0 Consensus size: 157
9869138 CCCTTAGCAT
*
9869148 AAATTTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTATTATCAA
1 AAATTTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTAATATCAA
*
9869213 TAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTTTAATTAAAATATATAA
66 TAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAATATATAA
9869278 TTTAATAAAATTCTTAATAATTACCAG
131 TTTAATAAAATTCTTAATAATTACCAG
* * *
9869305 AAATTTGTTTTGGTAAATTATTATTGTTATTGTTATTTAAATTTTGATAAGATTATTAATATGAA
1 AAATTTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTAATATCAA
9869370 TAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAATATATAA
66 TAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAATATATAA
9869435 TTTAATAAAATTCTTAATAATTA
131 TTTAATAAAATTCTTAATAATTA
9869458 ATATTCTTAT
Statistics
Matches: 148, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
157 148 1.00
ACGTcount: A:0.45, C:0.03, G:0.05, T:0.47
Consensus pattern (157 bp):
AAATTTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTAATATCAA
TAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAATATATAA
TTTAATAAAATTCTTAATAATTACCAG
Found at i:9869428 original size:16 final size:16
Alignment explanation
Indices: 9869391--9869432 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
9869381 TTAATCATAT
*
9869391 TTAAACATA-ATTATTA
1 TTAAA-ATATATTATAA
9869407 TT-AAATATATTATAA
1 TTAAAATATATTATAA
9869422 TTAAAATATAT
1 TTAAAATATAT
9869433 AATTTAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 3 0.13
15 10 0.43
16 10 0.43
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (16 bp):
TTAAAATATATTATAA
Found at i:9869439 original size:14 final size:15
Alignment explanation
Indices: 9869400--9869441 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
9869390 TTTAAACATA
*
9869400 ATTATTATTAAATAT
1 ATTATAATTAAATAT
9869415 ATTATAATTAAA-AT
1 ATTATAATTAAATAT
*
9869429 A-TATAATTTAATA
1 ATTATAATTAAATA
9869442 AAATTCTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 9 0.38
14 4 0.17
15 11 0.46
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
ATTATAATTAAATAT
Found at i:9869678 original size:39 final size:41
Alignment explanation
Indices: 9869605--9869690 Score: 149
Period size: 39 Copynumber: 2.1 Consensus size: 41
9869595 TAAGTGAGTA
9869605 AGAATTGAACTCTAAAAATAAAAAAAAAAACATAACCATAT
1 AGAATTGAACTCTAAAAATAAAAAAAAAAACATAACCATAT
9869646 AGAATTGAACTCT-AAAA-AAAAAAAAAAACATAACCATAT
1 AGAATTGAACTCTAAAAATAAAAAAAAAAACATAACCATAT
*
9869685 TGAATT
1 AGAATT
9869691 ATCATCAACA
Statistics
Matches: 44, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
39 27 0.61
40 4 0.09
41 13 0.30
ACGTcount: A:0.62, C:0.12, G:0.06, T:0.21
Consensus pattern (41 bp):
AGAATTGAACTCTAAAAATAAAAAAAAAAACATAACCATAT
Found at i:9872870 original size:15 final size:16
Alignment explanation
Indices: 9872836--9872871 Score: 56
Period size: 15 Copynumber: 2.3 Consensus size: 16
9872826 AGAGAATTTT
*
9872836 AAAATAGACAAATTAC
1 AAAATAGACAAATTAA
9872852 AAAATAGAC-AATTAA
1 AAAATAGACAAATTAA
9872867 AAAAT
1 AAAAT
9872872 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:9874954 original size:24 final size:24
Alignment explanation
Indices: 9874927--9874981 Score: 78
Period size: 24 Copynumber: 2.3 Consensus size: 24
9874917 AATAAACAGA
*
9874927 AAAATAGAAATAAAAACTAAAAAT
1 AAAATAGAAATAAAAAATAAAAAT
9874951 AAAACTA-AAATAAAAAATAAAAAT
1 AAAA-TAGAAATAAAAAATAAAAAT
9874975 -AAATAGA
1 AAAATAGA
9874982 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:9874966 original size:6 final size:6
Alignment explanation
Indices: 9874910--9874977 Score: 66
Period size: 6 Copynumber: 11.2 Consensus size: 6
9874900 ATGTCTAGAG
* * * * *
9874910 AAATAC AAATAA ACAGAA AAATAG AAATAA AAACTAA AAATAA AACT-A
1 AAATAA AAATAA AAATAA AAATAA AAATAA AAA-TAA AAATAA AAATAA
9874958 AAATAAA AAATAA AAATAA A
1 AAAT-AA AAATAA AAATAA A
9874978 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:9876285 original size:13 final size:13
Alignment explanation
Indices: 9876267--9876292 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
9876257 AAAGATGGGG
9876267 AAAAAAAGAGAAA
1 AAAAAAAGAGAAA
9876280 AAAAAAAGAGAAA
1 AAAAAAAGAGAAA
9876293 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:9876681 original size:20 final size:20
Alignment explanation
Indices: 9876643--9876681 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
9876633 CTCCTTCGCT
*
9876643 TCTCCCACGCCCATATGACC
1 TCTCCCACGCCCAGATGACC
* *
9876663 TCTCGCACGCCCAGGTGAC
1 TCTCCCACGCCCAGATGAC
9876682 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:9876904 original size:30 final size:30
Alignment explanation
Indices: 9876870--9876928 Score: 82
Period size: 30 Copynumber: 2.0 Consensus size: 30
9876860 GTATCCAGGC
*
9876870 CGTGTGGATTACACGATCATGTCGCCTGGT
1 CGTGTGGATTAAACGATCATGTCGCCTGGT
* * *
9876900 CGTGTGGATTAAACGGTCGTGTCGTCTGG
1 CGTGTGGATTAAACGATCATGTCGCCTGG
9876929 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:9881356 original size:2 final size:2
Alignment explanation
Indices: 9881349--9881377 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
9881339 TTACAAAAAC
9881349 AT AT 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 AT AT A
9881378 CTTTTTTAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:9881430 original size:15 final size:15
Alignment explanation
Indices: 9881415--9881471 Score: 60
Period size: 15 Copynumber: 3.6 Consensus size: 15
9881405 ATAGTTGTAT
9881415 CTTTACATAAGATATC
1 CTTT-CATAAGATATC
*
9881431 CTTTCATAAGATCTAC
1 CTTTCATAAGATAT-C
* *
9881447 CTTTTAATAAAATATC
1 C-TTTCATAAGATATC
9881463 CTTTCATAA
1 CTTTCATAA
9881472 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:9881526 original size:21 final size:21
Alignment explanation
Indices: 9881501--9881541 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
9881491 ACAACTTTAC
9881501 ATAAAATTACATATTTATAAA
1 ATAAAATTACATATTTATAAA
* *
9881522 ATAAAATTATATCTTTATAA
1 ATAAAATTACATATTTATAA
9881542 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:9881543 original size:19 final size:20
Alignment explanation
Indices: 9881501--9881550 Score: 57
Period size: 21 Copynumber: 2.5 Consensus size: 20
9881491 ACAACTTTAC
9881501 ATAAAATTACATATTTATAAA
1 ATAAAATTACATATTTAT-AA
* *
9881522 ATAAAATTATATCTTTAT-A
1 ATAAAATTACATATTTATAA
*
9881541 ATACAATTAC
1 ATAAAATTAC
9881551 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:9884251 original size:22 final size:22
Alignment explanation
Indices: 9884226--9884291 Score: 59
Period size: 22 Copynumber: 3.2 Consensus size: 22
9884216 TTTTTGAGTT
9884226 AATTCATTTTTTAAATTTTATG
1 AATTCATTTTTTAAATTTTATG
* * * * *
9884248 AATTTAATATTTAGA---T-TC
1 AATTCATTTTTTAAATTTTATG
9884266 AATTCATTTTTTAAATTTTATG
1 AATTCATTTTTTAAATTTTATG
9884288 AATT
1 AATT
9884292 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:9884270 original size:40 final size:40
Alignment explanation
Indices: 9884226--9884316 Score: 168
Period size: 40 Copynumber: 2.3 Consensus size: 40
9884216 TTTTTGAGTT
9884226 AATTCATTTTTTAAATTTTATGAATTTAATATTTAGATTC
1 AATTCATTTTTTAAATTTTATGAATTTAATATTTAGATTC
9884266 AATTCATTTTTTAAATTTTATGAATTTAATATTTAGATTC
1 AATTCATTTTTTAAATTTTATGAATTTAATATTTAGATTC
9884306 AA-T-ATTTTTTA
1 AATTCATTTTTTA
9884317 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:9888853 original size:3 final size:3
Alignment explanation
Indices: 9888840--9888871 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
9888830 TTAATATATG
*
9888840 ATA ACA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
9888872 GTTAAAATGC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.66, C:0.03, G:0.00, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:9889068 original size:25 final size:24
Alignment explanation
Indices: 9889030--9889092 Score: 63
Period size: 25 Copynumber: 2.5 Consensus size: 24
9889020 ATAATAATGG
* *
9889030 TAATAATATTTAAAATATATGTACA
1 TAATAATA-ATAAAAGATATGTACA
* *
9889055 TGAATAATAATAAAAGGTATGTATA
1 T-AATAATAATAAAAGATATGTACA
9889080 TATATAATAATAA
1 TA-ATAATAATAA
9889093 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:9889091 original size:3 final size:3
Alignment explanation
Indices: 9889083--9889229 Score: 75
Period size: 3 Copynumber: 49.3 Consensus size: 3
9889073 ATGTATATAT
* * * * * * * *
9889083 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
* * * ** *
9889130 A-A ATA ATC GTA ATA ATA ATA ATA ATA ATA ATA ATA ATG AGG ATA AAA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * * * *
9889177 ATA ATA ACA ATA AT- ATA TTA AGCA ACAA ATA ATA ATG ATA ATA GTA
1 ATA ATA ATA ATA ATA ATA ATA A-TA A-TA ATA ATA ATA ATA ATA ATA
9889223 ATA ATA A
1 ATA ATA A
9889230 AGAAATGGGA
Statistics
Matches: 103, Mismatches: 37, Indels: 8
0.70 0.25 0.05
Matches are distributed among these distances:
2 4 0.04
3 95 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:9895939 original size:101 final size:101
Alignment explanation
Indices: 9895733--9895933 Score: 260
Period size: 101 Copynumber: 2.0 Consensus size: 101
9895723 ATTGTCGGAG
* * * **
9895733 AAGACCATAAGTGGGTTATGGCATTATGAACTTAAGACCATGGTTGGACCATGGCAGTGTTTACA
1 AAGACCATAAATGGGTTATGGCATTATGAACGTAAGACCATGGTTAGACCATGGCAGTAATTACA
* * **
9895798 TGTAAGACCATAGCTGAGCTATGGCATTTTAATGAA
66 TGTAAGACCATAACTGAGCTATGACATACTAATGAA
*
9895834 AAGACCATAAATGGGTTATGGCACTT-TGAACGTAAGACCATGGTTAGACCATGGCAGTAATTAT
1 AAGACCATAAATGGGTTATGGCA-TTATGAACGTAAGACCATGGTTAGACCATGGCAGTAATTAC
* * *
9895898 ATGTAAGACCATAATTGGGTTATGACACTACTAATG
65 ATGTAAGACCATAACTGAGCTATGACA-TACTAATG
9895934 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:9897430 original size:26 final size:26
Alignment explanation
Indices: 9897394--9897529 Score: 227
Period size: 26 Copynumber: 5.2 Consensus size: 26
9897384 TGATACAAAT
9897394 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
*
9897420 TGATAATAGGTTAGGTAAATGTCCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
9897446 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
9897472 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
9897498 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
9897524 TGATAA
1 TGATAA
9897530 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:9898727 original size:16 final size:15
Alignment explanation
Indices: 9898701--9898730 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
9898691 ACTAGATTGG
9898701 CAAAAGCCGAAAAGC
1 CAAAAGCCGAAAAGC
9898716 CAAAATGCCGAAAAG
1 CAAAA-GCCGAAAAG
9898731 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:9899013 original size:28 final size:26
Alignment explanation
Indices: 9898968--9899042 Score: 78
Period size: 26 Copynumber: 2.8 Consensus size: 26
9898958 AAAAGTAGCT
* *
9898968 AAATTACTATAATACCCCTATGTATGGA
1 AAATTACTGTTATACCCCTA-G-ATGGA
* * *
9898996 AAATTACTGTTATGCCCCTAGGTGTA
1 AAATTACTGTTATACCCCTAGATGGA
*
9899022 AAATTACCGTTATACCCCTAG
1 AAATTACTGTTATACCCCTAG
9899043 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:9899187 original size:27 final size:27
Alignment explanation
Indices: 9899146--9899258 Score: 129
Period size: 27 Copynumber: 4.2 Consensus size: 27
9899136 GAGGAAGCGT
*
9899146 TCTGGTGGCTATGCCACAAATATCTGA
1 TCTGGTGGCTCTGCCACAAATATCTGA
*
9899173 TCTGGTGGCTCTGCCACAAATATCTGT
1 TCTGGTGGCTCTGCCACAAATATCTGA
* * *
9899200 TCTGGTGGCTCTGCCACGATTATCTATA
1 TCTGGTGGCTCTGCCACAAATATCT-GA
* * * *
9899228 TCTGGTGACTCTGTCAC-ATTATCTGT
1 TCTGGTGGCTCTGCCACAAATATCTGA
9899254 TCTGG
1 TCTGG
9899259 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:9899251 original size:54 final size:54
Alignment explanation
Indices: 9899144--9899258 Score: 151
Period size: 54 Copynumber: 2.1 Consensus size: 54
9899134 TGGAGGAAGC
*
9899144 GTTCTGGTGGCTATGCCACAAATATCTGATCTGGTGGCTCTGCCACAAATATCT
1 GTTCTGGTGGCTATGCCACAAATATCTGATCTGGTGACTCTGCCACAAATATCT
* * * * * *
9899198 GTTCTGGTGGCTCTGCCACGATTATCTATATCTGGTGACTCTGTCAC-ATTATCT
1 GTTCTGGTGGCTATGCCACAAATATCT-GATCTGGTGACTCTGCCACAAATATCT
9899252 GTTCTGG
1 GTTCTGG
9899259 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:9902455 original size:43 final size:43
Alignment explanation
Indices: 9902347--9902455 Score: 112
Period size: 43 Copynumber: 2.5 Consensus size: 43
9902337 TACCGAGATG
* * * *
9902347 TGATTACATGTAAGACCATGTCTGGGACATTGGCATCGTTATA
1 TGATAACATGTAAGACCATATCTGGGACAATGGCATCGATATA
** * * *
9902390 TGATTTCGTGTAAGACTC-TATCTGGGGCAATGGCATCGATATG
1 TGATAACATGTAAGAC-CATATCTGGGACAATGGCATCGATATA
*
9902433 TGGTAACATGTAAGACCATATCT
1 TGATAACATGTAAGACCATATCT
9902456 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:9903629 original size:27 final size:27
Alignment explanation
Indices: 9903581--9903739 Score: 166
Period size: 27 Copynumber: 5.9 Consensus size: 27
9903571 GCGAGGCTGC
* *
9903581 CAGATATTGTGAC-GAAGTCACCAGATA
1 CAGATATTGTGGCAG-AGCCACCAGATA
9903608 CAGATATTGTGGCAGAGCCACCAGA-A
1 CAGATATTGTGGCAGAGCCACCAGATA
*
9903634 CAGATATATGTGGCAGATCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
* * *
9903661 TAGATAATTGTGGCATAGCCACCAG-GA
1 CAGAT-ATTGTGGCAGAGCCACCAGATA
9903688 CAGATATATGTGGCAGAGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
* *
9903715 CAGATAATTTTGGCATAGCCACCAG
1 CAGAT-ATTGTGGCAGAGCCACCAG
9903740 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:9903740 original size:54 final size:54
Alignment explanation
Indices: 9903599--9903742 Score: 227
Period size: 54 Copynumber: 2.7 Consensus size: 54
9903589 GTGACGAAGT
* * *
9903599 CACCAGATACAGAT-ATTGTGGCAGAGCCACCAGAACAGATATATGTGGCAGATC
1 CACCAGAT-CAGATAATTGTGGCATAGCCACCAGGACAGATATATGTGGCAGAGC
*
9903653 CACCAGATTAGATAATTGTGGCATAGCCACCAGGACAGATATATGTGGCAGAGC
1 CACCAGATCAGATAATTGTGGCATAGCCACCAGGACAGATATATGTGGCAGAGC
*
9903707 CACCAGATCAGATAATTTTGGCATAGCCACCAGGAC
1 CACCAGATCAGATAATTGTGGCATAGCCACCAGGAC
9903743 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:9905366 original size:26 final size:26
Alignment explanation
Indices: 9905337--9905444 Score: 164
Period size: 26 Copynumber: 4.2 Consensus size: 26
9905327 TAAAATGCCC
*
9905337 ATCATGGAACATTTAACTAAACCATT
1 ATCATGGAACATTTACCTAAACCATT
*
9905363 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAAACCATT
* *
9905389 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAAACCATT
9905415 ATCATGGAACATTTACCT-AACTCATT
1 ATCATGGAACATTTACCTAAAC-CATT
9905441 ATCA
1 ATCA
9905445 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:9909376 original size:41 final size:39
Alignment explanation
Indices: 9909310--9909421 Score: 129
Period size: 37 Copynumber: 2.8 Consensus size: 39
9909300 TTCGACTTCG
*
9909310 AGTCGATGAGACACTGAGTGTCAATTTACTACTTTGGATTA
1 AGTCGATGAGACACTGGGTGTCAATTTA-TACTTTGG-TTA
* * * *
9909351 ATTCGATGAGGCACTGGGTGCCAA-TT-TACTTTGGTTG
1 AGTCGATGAGACACTGGGTGTCAATTTATACTTTGGTTA
*
9909388 AGCCGATGAGACACTGGGTGTCAATTTATTACTT
1 AGTCGATGAGACACTGGGTGTCAATTTA-TACTT
9909422 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:9909585 original size:19 final size:19
Alignment explanation
Indices: 9909558--9909595 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
9909548 ATATTATATA
9909558 TGAAATGAAA-ATGAGATTG
1 TGAAATGAAATATG-GATTG
*
9909577 TGAATTGAAATATGGATTG
1 TGAAATGAAATATGGATTG
9909596 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:9920597 original size:15 final size:17
Alignment explanation
Indices: 9920556--9920599 Score: 58
Period size: 15 Copynumber: 2.8 Consensus size: 17
9920546 AGATGGAAAT
9920556 AGAGTAAAAAT-TTTAG
1 AGAGTAAAAATATTTAG
*
9920572 AGAGTATAAATATTT-G
1 AGAGTAAAAATATTTAG
9920588 -GAGTAAAAATAT
1 AGAGTAAAAATAT
9920600 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:9929266 original size:21 final size:21
Alignment explanation
Indices: 9929242--9929329 Score: 58
Period size: 21 Copynumber: 4.1 Consensus size: 21
9929232 TAAGATTTAG
*
9929242 ATAATTTTTAAATATAATAAT
1 ATAATTGTTAAATATAATAAT
* *
9929263 ATAATTGGTAAA-AGT-AT-AG
1 ATAATTGTTAAATA-TAATAAT
*
9929282 ATAATCATGTTAAGTATAATAAT
1 ATAAT--TGTTAAATATAATAAT
9929305 ATATATT-TATAAATATAAATAAT
1 ATA-ATTGT-TAAATAT-AATAAT
9929328 AT
1 AT
9929330 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:9930611 original size:29 final size:30
Alignment explanation
Indices: 9930569--9930643 Score: 82
Period size: 31 Copynumber: 2.5 Consensus size: 30
9930559 GAAAACATTT
*
9930569 TATTTTTCATTTACTAT-TA-AATGTATACA
1 TATTTTTTATTTACTATGTATAATGTATA-A
* * *
9930598 TATTTTTTTTTTACTTTGTATAATTTATAA
1 TATTTTTTATTTACTATGTATAATGTATAA
9930628 TATTTTGTTATTTACT
1 TATTTT-TTATTTACT
9930644 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:9930853 original size:18 final size:18
Alignment explanation
Indices: 9930832--9930895 Score: 67
Period size: 18 Copynumber: 3.4 Consensus size: 18
9930822 TAAATTATCA
9930832 TTATTAATGATATATAAT
1 TTATTAATGATATATAAT
* *
9930850 TTATTGAAT-TTAATATTAT
1 TTATT-AATGAT-ATATAAT
9930869 CATTATTAATGATATATAAT
1 --TTATTAATGATATATAAT
9930889 TTATTAA
1 TTATTAA
9930896 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:9930871 original size:39 final size:39
Alignment explanation
Indices: 9930825--9930902 Score: 147
Period size: 39 Copynumber: 2.0 Consensus size: 39
9930815 TATAACCTAA
*
9930825 ATTATCATTATTAATGATATATAATTTATTGAATTTAAT
1 ATTATCATTATTAATGATATATAATTTATTAAATTTAAT
9930864 ATTATCATTATTAATGATATATAATTTATTAAATTTAAT
1 ATTATCATTATTAATGATATATAATTTATTAAATTTAAT
9930903 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:9932872 original size:47 final size:47
Alignment explanation
Indices: 9932766--9932872 Score: 151
Period size: 47 Copynumber: 2.3 Consensus size: 47
9932756 GGTTTAGCCA
* * * *
9932766 CATATCTGTTCTAGTAGTTTGACTGCAATTATGGTGGCTCGACCATT
1 CATATCTGTTCTGGCAGCTTGACTGCAATTATGGTGGCTCGACCACT
* *
9932813 CATATCTGTTCTGGCAGCTTGACTGCAATTATGGTGGCTTGACTACT
1 CATATCTGTTCTGGCAGCTTGACTGCAATTATGGTGGCTCGACCACT
*
9932860 CATATCTATTCTG
1 CATATCTGTTCTG
9932873 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:9934010 original size:41 final size:40
Alignment explanation
Indices: 9933964--9934045 Score: 112
Period size: 41 Copynumber: 2.0 Consensus size: 40
9933954 TTAGACCCAA
* *
9933964 ATTTATT-TGGGCTGGAGGGAAAAGGCATGAAATCAGCAGG
1 ATTTATTAT-GGCTGGACGGAAAAGGCATGAAATCAACAGG
*
9934004 ANTTTATTATGGCTGGACGGAAAGGGCATGAAATCAACAGG
1 A-TTTATTATGGCTGGACGGAAAAGGCATGAAATCAACAGG
9934045 A
1 A
9934046 AAATTGATGA
Statistics
Matches: 37, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
40 1 0.03
41 35 0.95
42 1 0.03
ACGTcount: A:0.34, C:0.11, G:0.32, T:0.22
Consensus pattern (40 bp):
ATTTATTATGGCTGGACGGAAAAGGCATGAAATCAACAGG
Found at i:9936899 original size:24 final size:24
Alignment explanation
Indices: 9936850--9936899 Score: 57
Period size: 24 Copynumber: 2.1 Consensus size: 24
9936840 ATAACAATAG
* *
9936850 TATTTTAATTTTAGAATATATATA
1 TATTTTAATTTTAAAATAAATATA
*
9936874 TATTTTATTTTTAAAAATAAAT-TA
1 TATTTTAATTTT-AAAATAAATATA
9936898 TA
1 TA
9936900 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:9946421 original size:45 final size:45
Alignment explanation
Indices: 9946319--9946489 Score: 215
Period size: 45 Copynumber: 3.9 Consensus size: 45
9946309 CGAATTCATC
* * *
9946319 CACCGGCATT-TCGCCTGCTAGGCTCGAA-GCCTG-ATA-TCATTT
1 CACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGT-ATTT
* **
9946361 CACCAGCATTATAGCCTGCTAGGCTCGGAGGCCCGAATAGTATTT
1 CACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATTT
* * *
9946406 CACCGGCATTGTAGCCTGCTAGGCTCAAAGGCACGAATAGTATCT
1 CACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATTT
*
9946451 CACCGGCATCATAGCCTGCTAGGCTCAAAGGCCCGAATA
1 CACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATA
9946490 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:9950020 original size:50 final size:49
Alignment explanation
Indices: 9949906--9950081 Score: 181
Period size: 50 Copynumber: 3.5 Consensus size: 49
9949896 CTGGTAGGCA
* * * ** *
9949906 TAGTAGCCTGCACATAGTACTACACATGCGACCAATTATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAACCATCCGATACACG
*
9949955 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACC-AACCATCCGATACACG
* **** * * * *
9950005 TAGTAGCCTGTACTTAGTACTACACACGTGATCACAGTTTTCGGGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACACGTGA-C-CAACCATCCGATACACG
9950056 TAGTAGCCTGCACTTAGTACTACACA
1 TAGTAGCCTGCACTTAGTACTACACA
9950082 TGCGACCTCA
Statistics
Matches: 107, Mismatches: 17, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
49 30 0.28
50 42 0.39
51 34 0.32
52 1 0.01
ACGTcount: A:0.29, C:0.27, G:0.18, T:0.26
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACCAACCATCCGATACACG
Found at i:9950089 original size:101 final size:99
Alignment explanation
Indices: 9949906--9950089 Score: 251
Period size: 101 Copynumber: 1.8 Consensus size: 99
9949896 CTGGTAGGCA
* *
9949906 TAGTAGCCTGCACATAGTACTACACATGCGACCAATTATCCGGTACACGTAGTAGCCTGCACTTA
1 TAGTAGCCTGCACATAGTACTACACACGCGACCAATTATCCGGTACACATAGTAGCCTGCACTTA
*
9949971 GTACTACACACGTGACCTAACCATCTGATACACG
66 GTACTACACACGCGACCTAACCATCTGATACACG
* * * * * * *
9950005 TAGTAGCCTGTACTTAGTACTACACACGTGATCACAGTTTTCGGGTACGCATAGTAGCCTGCACT
1 TAGTAGCCTGCACATAGTACTACACACGCGA-C-CAATTATCCGGTACACATAGTAGCCTGCACT
*
9950070 TAGTACTACACATGCGACCT
64 TAGTACTACACACGCGACCT
9950090 CACAATAGAT
Statistics
Matches: 72, Mismatches: 11, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
99 27 0.38
100 1 0.01
101 44 0.61
ACGTcount: A:0.28, C:0.28, G:0.18, T:0.26
Consensus pattern (99 bp):
TAGTAGCCTGCACATAGTACTACACACGCGACCAATTATCCGGTACACATAGTAGCCTGCACTTA
GTACTACACACGCGACCTAACCATCTGATACACG
Found at i:9956818 original size:9 final size:9
Alignment explanation
Indices: 9956802--9956862 Score: 95
Period size: 9 Copynumber: 6.8 Consensus size: 9
9956792 GGTATTTTTC
9956802 GGTAATTCG
1 GGTAATTCG
*
9956811 GTTAATTCG
1 GGTAATTCG
*
9956820 GTTAATTCG
1 GGTAATTCG
*
9956829 GTTAATTCG
1 GGTAATTCG
9956838 GGTAATTCG
1 GGTAATTCG
9956847 GGTAATTCG
1 GGTAATTCG
9956856 GGTAATT
1 GGTAATT
9956863 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:9958924 original size:21 final size:23
Alignment explanation
Indices: 9958900--9958956 Score: 68
Period size: 22 Copynumber: 2.6 Consensus size: 23
9958890 CTAGTGTATC
*
9958900 AATAATTTTTT-CAA-TAATTGT
1 AATAATTTTTTAAAAGTAATTGT
9958921 AAT-ATTTTTTAAAAGTAATTGT
1 AATAATTTTTTAAAAGTAATTGT
9958943 AAT-ATTATTTTAAA
1 AATAATT-TTTTAAA
9958957 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:9958939 original size:22 final size:23
Alignment explanation
Indices: 9958914--9958956 Score: 79
Period size: 22 Copynumber: 1.9 Consensus size: 23
9958904 ATTTTTTCAA
9958914 TAATTGTAATATT-TTTTAAAAG
1 TAATTGTAATATTATTTTAAAAG
9958936 TAATTGTAATATTATTTTAAA
1 TAATTGTAATATTATTTTAAA
9958957 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:9959039 original size:3 final size:3
Alignment explanation
Indices: 9959031--9959083 Score: 56
Period size: 3 Copynumber: 17.7 Consensus size: 3
9959021 AGTACTAACC
* *
9959031 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
9959076 AAT AAT AA
1 AAT AAT AA
9959084 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:9960755 original size:93 final size:93
Alignment explanation
Indices: 9960643--9960813 Score: 261
Period size: 93 Copynumber: 1.8 Consensus size: 93
9960633 GCCCCTAAGT
* ***
9960643 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCAGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCAGAAATTCGCATCCATAAGTGAACTCAGACTCAACTCAA
9960708 CGAGTTCGGATGCCTAGTTACATTTCAC
66 CGAGTTCGGATGCCTAGTTACATTTCAC
* * * *
9960736 GAACTCGGACTCAATTCAACGAGTTCAGAAATTCGTATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCAGAAATTCGCATCCATAAGTGAACTCAGACTCAACTCAA
*
9960801 CGAGTTTGGATGC
66 CGAGTTCGGATGC
9960814 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:9960801 original size:46 final size:44
Alignment explanation
Indices: 9960638--9960806 Score: 151
Period size: 46 Copynumber: 3.7 Consensus size: 44
9960628 AACCCGCCCC
* ** *
9960638 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTC--GAATTCGTATCCA
* * * * *
9960684 TAAGTGAACTCAGACTCAACTCAACGAGTTCGGATGCCTAGTTACA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGAATTCGTA--TCCA
* * *
9960730 TTTCA-CGAACTCGGACTCAATTCAACGAGTTCAGAAATTCGTATCCA
1 --TAAGTGAACTCGGACTCAACTCAACGAGTTC-G-AATTCGTATCCA
9960777 TAAGTGAACTCGGACTCAACTCAACGAGTT
1 TAAGTGAACTCGGACTCAACTCAACGAGTT
9960807 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:9963517 original size:15 final size:15
Alignment explanation
Indices: 9963478--9963557 Score: 85
Period size: 15 Copynumber: 5.4 Consensus size: 15
9963468 GTATCTTGGG
*
9963478 TTTCTTTATCCTGGA
1 TTTCTTTATTCTGGA
*
9963493 TCTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
9963508 TTTCTTTATTCTAGG-
1 TTTCTTTATTCT-GGA
*
9963523 TTTCTCTA-TCTTGGA
1 TTTCTTTATTC-TGGA
*
9963538 TTTCTTTATTC-GGT
1 TTTCTTTATTCTGGA
9963552 TTTCTT
1 TTTCTT
9963558 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:9963547 original size:30 final size:30
Alignment explanation
Indices: 9963469--9963548 Score: 92
Period size: 30 Copynumber: 2.7 Consensus size: 30
9963459 CATAGTATCG
* * *
9963469 TATCTTGGGTTTCTTTATCCTGGATCTCTT
1 TATCTTGGATTTCTTTATTCTGGATCTCTC
*
9963499 TAT-TCTGGATTTCTTTATTCTAGG-TTTCTC
1 TATCT-TGGATTTCTTTATTCT-GGATCTCTC
9963529 TATCTTGGATTTCTTTATTC
1 TATCTTGGATTTCTTTATTC
9963549 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:9966844 original size:3 final size:3
Alignment explanation
Indices: 9966838--9966863 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
9966828 AAACATAAGC
9966838 TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TA
9966864 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:9967954 original size:13 final size:13
Alignment explanation
Indices: 9967936--9967961 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
9967926 TTGGGTTTGT
9967936 TTAGTAGTTTGGG
1 TTAGTAGTTTGGG
9967949 TTAGTAGTTTGGG
1 TTAGTAGTTTGGG
9967962 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:9968847 original size:16 final size:16
Alignment explanation
Indices: 9968826--9968857 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
9968816 GCAATGAGGG
9968826 TAAACAAGTACAATTA
1 TAAACAAGTACAATTA
9968842 TAAACAAGTACAATTA
1 TAAACAAGTACAATTA
9968858 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:9971963 original size:30 final size:30
Alignment explanation
Indices: 9971927--9971984 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
9971917 TGTTAATTTA
* *
9971927 TAACTTTGTTGAGGGGGGATCTGCTCTTCC
1 TAACTTTGTTGAGGAGGGATCAGCTCTTCC
*
9971957 TAACTTTGTTGATGAGGGATCAGCTCTT
1 TAACTTTGTTGAGGAGGGATCAGCTCTT
9971985 ATTGGATAAG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.17, C:0.17, G:0.28, T:0.38
Consensus pattern (30 bp):
TAACTTTGTTGAGGAGGGATCAGCTCTTCC
Found at i:9974583 original size:14 final size:14
Alignment explanation
Indices: 9974550--9974582 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
9974540 CAGTACTTAA
*
9974550 ATTTTTAATACTTC
1 ATTTTTAACACTTC
9974564 ATTTTTAACACTT-
1 ATTTTTAACACTTC
9974577 ATTTTT
1 ATTTTT
9974583 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:9974921 original size:10 final size:9
Alignment explanation
Indices: 9974885--9974918 Score: 50
Period size: 10 Copynumber: 3.6 Consensus size: 9
9974875 GAAATTATGT
9974885 TTAAATTAGA
1 TTAAATTA-A
9974895 TTAAATTAA
1 TTAAATTAA
9974904 CTTAAATTAA
1 -TTAAATTAA
9974914 TTAAA
1 TTAAA
9974919 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:9974928 original size:20 final size:19
Alignment explanation
Indices: 9974871--9974934 Score: 56
Period size: 20 Copynumber: 3.1 Consensus size: 19
9974861 GTAATGATTA
9974871 AATTGAAATTATGTTTAAATT
1 AATT-AAATT-TGTTTAAATT
***
9974892 AGATTAAATTAACTTAAATT
1 A-ATTAAATTTGTTTAAATT
9974912 AATTAAAATTTGTTTAAGATT
1 AATT-AAATTTGTTTAA-ATT
9974933 AA
1 AA
9974935 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:9978043 original size:47 final size:47
Alignment explanation
Indices: 9977974--9978078 Score: 174
Period size: 47 Copynumber: 2.2 Consensus size: 47
9977964 AAACCTTAAA
*
9977974 TGTTCAAACCCGAGTTTGGTCTATATTTTAAATGAGTCTAATTTTTT
1 TGTTCAAACCCGAGCTTGGTCTATATTTTAAATGAGTCTAATTTTTT
* *
9978021 TGTTCAAATCCGAGCTTGGTCTATATTTTAAATGAGTCTATTTTTTT
1 TGTTCAAACCCGAGCTTGGTCTATATTTTAAATGAGTCTAATTTTTT
*
9978068 TATTCAAACCC
1 TGTTCAAACCC
9978079 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:9980733 original size:11 final size:11
Alignment explanation
Indices: 9980719--9980759 Score: 55
Period size: 11 Copynumber: 3.7 Consensus size: 11
9980709 TGTTTTCTCC
9980719 CTATTTTGCTA
1 CTATTTTGCTA
*
9980730 CTATTTTACTA
1 CTATTTTGCTA
* *
9980741 TTATGTTGCTA
1 CTATTTTGCTA
9980752 CTATTTTG
1 CTATTTTG
9980760 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:9986722 original size:7 final size:7
Alignment explanation
Indices: 9986702--9986747 Score: 67
Period size: 7 Copynumber: 6.4 Consensus size: 7
9986692 TATATTATAA
9986702 CTCTCTC
1 CTCTCTC
9986709 C-CTCTC
1 CTCTCTC
9986715 CTCTCTC
1 CTCTCTC
9986722 CTCTCTC
1 CTCTCTC
9986729 CTCTCTC
1 CTCTCTC
9986736 CATCTCTTC
1 C-TCTC-TC
9986745 CTC
1 CTC
9986748 AATCCAACAC
Statistics
Matches: 36, Mismatches: 0, Indels: 5
0.88 0.00 0.12
Matches are distributed among these distances:
6 6 0.17
7 21 0.58
8 6 0.17
9 3 0.08
ACGTcount: A:0.02, C:0.57, G:0.00, T:0.41
Consensus pattern (7 bp):
CTCTCTC
Found at i:9992735 original size:34 final size:34
Alignment explanation
Indices: 9992692--9992759 Score: 127
Period size: 34 Copynumber: 2.0 Consensus size: 34
9992682 GGTAAAGTTG
*
9992692 GCATTATGCTACACTTGTAACACTTCATATCTTC
1 GCATTATGCTACACTTGTAACACTCCATATCTTC
9992726 GCATTATGCTACACTTGTAACACTCCATATCTTC
1 GCATTATGCTACACTTGTAACACTCCATATCTTC
9992760 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:9993149 original size:21 final size:20
Alignment explanation
Indices: 9993120--9993163 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 20
9993110 TAATAATAGT
* *
9993120 TAATTAAAAATTGTAGTAATA
1 TAATAAAAAATTAT-GTAATA
*
9993141 TAATAAAAAAATATGTAATA
1 TAATAAAAAATTATGTAATA
9993161 TAA
1 TAA
9993164 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:9993170 original size:20 final size:20
Alignment explanation
Indices: 9993135--9993172 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
9993125 AAAAATTGTA
*
9993135 GTAATATAATAAAAAAATAT
1 GTAATATAACAAAAAAATAT
*
9993155 GTAATATAACAGAAAAAT
1 GTAATATAACAAAAAAAT
9993173 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:9996130 original size:18 final size:18
Alignment explanation
Indices: 9996109--9996152 Score: 70
Period size: 18 Copynumber: 2.4 Consensus size: 18
9996099 ATAATCAGTA
9996109 ATTCAGTAACAGTCAAAT
1 ATTCAGTAACAGTCAAAT
* *
9996127 ATTCAGTAGCAGTCAATT
1 ATTCAGTAACAGTCAAAT
9996145 ATTCAGTA
1 ATTCAGTA
9996153 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:9996351 original size:51 final size:53
Alignment explanation
Indices: 9996260--9996370 Score: 154
Period size: 51 Copynumber: 2.1 Consensus size: 53
9996250 AGAATACACT
* *
9996260 GTAACAGTAACAGTAGCGGTACACAGAGTACCTCATCGGAACAAATCTGGAACA
1 GTAACAGTAACAGTAGAGGTA-ACAGAGTACCTCATCGGAACAAATCCGGAACA
* *
9996314 GTAACAGTAACAGTA-AGGT-ACGGAGTACCTCTTCGGAACAAATCCGGAACA
1 GTAACAGTAACAGTAGAGGTAACAGAGTACCTCATCGGAACAAATCCGGAACA
*
9996365 ATAACA
1 GTAACA
9996371 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:9998752 original size:33 final size:35
Alignment explanation
Indices: 9998672--9998755 Score: 127
Period size: 35 Copynumber: 2.5 Consensus size: 35
9998662 TCTGACGATC
*
9998672 AGATTTGTGAATAGTGTTATGAACCTGACCAAATG
1 AGATTTGTGAATGGTGTTATGAACCTGACCAAATG
9998707 AGATTTGTGAATGGTGTTATGAACCTGACC-AA-G
1 AGATTTGTGAATGGTGTTATGAACCTGACCAAATG
**
9998740 ATTTTTGTGAATGGTG
1 AGATTTGTGAATGGTG
9998756 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:9999497 original size:17 final size:17
Alignment explanation
Indices: 9999471--9999504 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
9999461 ATTAAAAGCA
9999471 AAAACAAAAACAAAAAC
1 AAAACAAAAACAAAAAC
* *
9999488 AAAACCAAAACCAAAAC
1 AAAACAAAAACAAAAAC
9999505 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:9999504 original size:6 final size:6
Alignment explanation
Indices: 9999464--9999503 Score: 53
Period size: 6 Copynumber: 6.7 Consensus size: 6
9999454 AATTAAAATT
* * *
9999464 AAAAGC AAAAAC AAAAAC AAAAAC AAAACC AAAACC AAAA
1 AAAAAC AAAAAC AAAAAC AAAAAC AAAAAC AAAAAC AAAA
9999504 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:10002888 original size:33 final size:32
Alignment explanation
Indices: 10002839--10002953 Score: 124
Period size: 33 Copynumber: 3.5 Consensus size: 32
10002829 ATGGACCTTT
* * * *
10002839 CCTTTTCTAGTTGTACACCCGAGGTGCACATT
1 CCTTTTCAAGTTGTACACACGAAGTGCACATA
* *
10002871 CCATTTTCAAGTGGTACACACGAAGTGTACATA
1 CC-TTTTCAAGTTGTACACACGAAGTGCACATA
* *
10002904 CCCTTTTCAATTTGTACACACAAAGTGCACATAA
1 -CCTTTTCAAGTTGTACACACGAAGTGCACAT-A
10002938 CCTTTTCAAG-TGTACA
1 CCTTTTCAAGTTGTACA
10002954 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:10003005 original size:33 final size:33
Alignment explanation
Indices: 10002963--10003043 Score: 110
Period size: 33 Copynumber: 2.5 Consensus size: 33
10002953 AAATATAGTG
* *
10002963 TACCTTTCCTTTTTA-AGTGGTATACACAAATTA
1 TACCTTTCCTTTTCATA-TGGTATACACAAAGTA
10002996 TACCTTTCCTTTTCATATGGTATACACAAAGTA
1 TACCTTTCCTTTTCATATGGTATACACAAAGTA
**
10003029 TACCTAACCTTTTCA
1 TACCTTTCCTTTTCA
10003044 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:10004253 original size:13 final size:13
Alignment explanation
Indices: 10004235--10004260 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
10004225 ACACATAATT
10004235 GATAAAAATTTTC
1 GATAAAAATTTTC
10004248 GATAAAAATTTTC
1 GATAAAAATTTTC
10004261 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:10007540 original size:144 final size:144
Alignment explanation
Indices: 10007340--10007634 Score: 572
Period size: 144 Copynumber: 2.0 Consensus size: 144
10007330 TTGAAACTCA
10007340 GTGTATATCAAATAACTTAAAGCAGTTAAATGCATATTAGACAGATTTATTATAAACAGATTTAT
1 GTGTATATCAAATAACTTAAAGCAGTTAAATGCATATTAGACAGATTTATTATAAACAGATTTAT
10007405 AACAGAACAGAACAGATACAACATATGATCCTACCCCCAACTGCTACACACCATCTTCGACCATC
66 AACAGAACAGAACAGATACAACATATGATCCTACCCCCAACTGCTACACACCATCTTCGACCATC
10007470 CGAACACACCATAT
131 CGAACACACCATAT
*
10007484 GTGTATATCAAATAACTTAAAGTAGTTAAATGCATATTAGACAGATTTATTATAAACAGATTTAT
1 GTGTATATCAAATAACTTAAAGCAGTTAAATGCATATTAGACAGATTTATTATAAACAGATTTAT
10007549 AACAGAACAGAACAGATACAACATATGATCCTACCCCCAACTGCTACACACCATCTTCGACCATC
66 AACAGAACAGAACAGATACAACATATGATCCTACCCCCAACTGCTACACACCATCTTCGACCATC
10007614 CGAACACACCATAT
131 CGAACACACCATAT
*
10007628 GGGTATA
1 GTGTATA
10007635 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:10011612 original size:19 final size:21
Alignment explanation
Indices: 10011588--10011629 Score: 61
Period size: 19 Copynumber: 2.1 Consensus size: 21
10011578 AAAGGATAGG
*
10011588 GAACGAACAAA-AA-GAAAAA
1 GAACGAAAAAATAAGGAAAAA
10011607 GAACGAAAAAATAAGGAAAAA
1 GAACGAAAAAATAAGGAAAAA
10011628 GA
1 GA
10011630 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:10016877 original size:31 final size:32
Alignment explanation
Indices: 10016812--10016891 Score: 119
Period size: 31 Copynumber: 2.5 Consensus size: 32
10016802 TCCATATATG
*
10016812 CATATACATTATATATATAATCAAGAACCACA
1 CATATATATTATATATATAATCAAGAACCACA
10016844 CATATATATTATATATATAA-CAA-AACCCACA
1 CATATATATTATATATATAATCAAGAA-CCACA
*
10016875 CATATGTATTATATATA
1 CATATATATTATATATA
10016892 ATACAACCTA
Statistics
Matches: 45, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
30 2 0.04
31 24 0.53
32 19 0.42
ACGTcount: A:0.49, C:0.16, G:0.03, T:0.33
Consensus pattern (32 bp):
CATATATATTATATATATAATCAAGAACCACA
Found at i:10023887 original size:32 final size:32
Alignment explanation
Indices: 10023846--10023908 Score: 126
Period size: 32 Copynumber: 2.0 Consensus size: 32
10023836 TTTGCAAGAG
10023846 CTCGATCAAATTTTACACCATTAGCGACTATA
1 CTCGATCAAATTTTACACCATTAGCGACTATA
10023878 CTCGATCAAATTTTACACCATTAGCGACTAT
1 CTCGATCAAATTTTACACCATTAGCGACTAT
10023909 GTAATCACTG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.33, C:0.25, G:0.10, T:0.32
Consensus pattern (32 bp):
CTCGATCAAATTTTACACCATTAGCGACTATA
Found at i:10026170 original size:22 final size:23
Alignment explanation
Indices: 10026142--10026212 Score: 90
Period size: 23 Copynumber: 3.1 Consensus size: 23
10026132 TTGTTTTTTC
10026142 TTTTCTTTTCTTCC-TTTTGTTT
1 TTTTCTTTTCTTCCATTTTGTTT
*
10026164 TTTTCTTTTCTTCCATTTTGCTT
1 TTTTCTTTTCTTCCATTTTGTTT
* * * *
10026187 TTTGCTTTGCTGCCATTTTGTGT
1 TTTTCTTTTCTTCCATTTTGTTT
10026210 TTT
1 TTT
10026213 AGTGGTAACC
Statistics
Matches: 42, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
22 14 0.33
23 28 0.67
ACGTcount: A:0.03, C:0.18, G:0.10, T:0.69
Consensus pattern (23 bp):
TTTTCTTTTCTTCCATTTTGTTT
Found at i:10032065 original size:46 final size:46
Alignment explanation
Indices: 10032015--10032182 Score: 189
Period size: 46 Copynumber: 3.6 Consensus size: 46
10032005 TGGTTGAGCA
* * *
10032015 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTAAACG
* * *
10032061 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTAA--A--CG
* *
10032108 TCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGTGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTAAACG
* *
10032154 ACCGAGCTCGTTGAGTTGAGTCCGAGTTC
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC
10032183 TATTAGGGGC
Statistics
Matches: 103, Mismatches: 12, Indels: 14
0.80 0.09 0.11
Matches are distributed among these distances:
43 6 0.06
45 3 0.03
46 56 0.54
47 29 0.28
48 3 0.03
50 6 0.06
ACGTcount: A:0.21, C:0.20, G:0.29, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTAAACG
Found at i:10032171 original size:93 final size:93
Alignment explanation
Indices: 10032012--10032182 Score: 279
Period size: 93 Copynumber: 1.8 Consensus size: 93
10032002 GGATGGTTGA
* * *
10032012 GCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGACCGAACTCGTTGAGT
10032077 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* ** *
10032105 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGTGAACGACCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGACCGAACTCGTTGAGT
10032170 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
10032183 TATTAGGGGC
Statistics
Matches: 71, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGACCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:10032449 original size:19 final size:20
Alignment explanation
Indices: 10032412--10032449 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
10032402 ATAAGGTGGT
10032412 AAGATGATGAATGATGTTTA
1 AAGATGATGAATGATGTTTA
10032432 AAGATG-TGATAT-ATGTTT
1 AAGATGATGA-ATGATGTTT
10032450 TGGTGGTATC
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.37, C:0.00, G:0.24, T:0.39
Consensus pattern (20 bp):
AAGATGATGAATGATGTTTA
Found at i:10039647 original size:46 final size:46
Alignment explanation
Indices: 10039597--10039722 Score: 189
Period size: 46 Copynumber: 2.7 Consensus size: 46
10039587 TGGTTGAGCA
*
10039597 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
** * *
10039643 TCCGAATTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACG
1 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* *
10039689 CCCGAGCTCGTTGAGTTGAGTTCGAGTTCACTTA
1 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
10039723 GGGGCGGGTT
Statistics
Matches: 70, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
46 70 1.00
ACGTcount: A:0.21, C:0.20, G:0.28, T:0.32
Consensus pattern (46 bp):
TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:10039984 original size:19 final size:20
Alignment explanation
Indices: 10039947--10039984 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
10039937 AAAAGGTGGT
10039947 AAGATGATGAATGATGTTTA
1 AAGATGATGAATGATGTTTA
10039967 AAGATG-TGATAT-ATGTTT
1 AAGATGATGA-ATGATGTTT
10039985 TGGTGGTACC
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.37, C:0.00, G:0.24, T:0.39
Consensus pattern (20 bp):
AAGATGATGAATGATGTTTA
Found at i:10044917 original size:37 final size:37
Alignment explanation
Indices: 10044876--10044947 Score: 117
Period size: 37 Copynumber: 1.9 Consensus size: 37
10044866 TTTAGCTCGG
* *
10044876 ATAATCCCCGCACGTAGTCATCGGGTCTTACCCGGGC
1 ATAATCCCCACACGTAGCCATCGGGTCTTACCCGGGC
*
10044913 ATAATCTCCACACGTAGCCATCGGGTCTTACCCGG
1 ATAATCCCCACACGTAGCCATCGGGTCTTACCCGG
10044948 AATATATTTC
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
37 32 1.00
ACGTcount: A:0.21, C:0.35, G:0.22, T:0.22
Consensus pattern (37 bp):
ATAATCCCCACACGTAGCCATCGGGTCTTACCCGGGC
Found at i:10045146 original size:48 final size:48
Alignment explanation
Indices: 10045081--10045186 Score: 158
Period size: 48 Copynumber: 2.2 Consensus size: 48
10045071 CGGCCACAAT
* * * *
10045081 ATATACACATCTTATACATATTTCACATTAGCCATTCGGCTTTACCAC
1 ATATACATATCTCATACATATTTCACACTAGCCATTCAGCTTTACCAC
10045129 ATATACATATCTCATACATATTTCACACTAGCCATTCAGCTTTACCAC
1 ATATACATATCTCATACATATTTCACACTAGCCATTCAGCTTTACCAC
* *
10045177 ACATATATAT
1 ATATACATAT
10045187 ATTTATCTTG
Statistics
Matches: 52, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
48 52 1.00
ACGTcount: A:0.34, C:0.26, G:0.05, T:0.35
Consensus pattern (48 bp):
ATATACATATCTCATACATATTTCACACTAGCCATTCAGCTTTACCAC
Found at i:10050755 original size:28 final size:28
Alignment explanation
Indices: 10050719--10050775 Score: 78
Period size: 28 Copynumber: 2.0 Consensus size: 28
10050709 CTCAGAATTA
*
10050719 GGCACACGGGCGTGTGTCTCAGCCGTGT
1 GGCACACGGGCGTATGTCTCAGCCGTGT
* **
10050747 GGCATACGGGCGTATGTCTTGGCCGTGT
1 GGCACACGGGCGTATGTCTCAGCCGTGT
10050775 G
1 G
10050776 AAACTTGCAC
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.11, C:0.25, G:0.40, T:0.25
Consensus pattern (28 bp):
GGCACACGGGCGTATGTCTCAGCCGTGT
Found at i:10051722 original size:22 final size:22
Alignment explanation
Indices: 10051696--10051768 Score: 110
Period size: 22 Copynumber: 3.3 Consensus size: 22
10051686 TAGGATATTC
10051696 TATGATATGTTCTGATATGAAA
1 TATGATATGTTCTGATATGAAA
*
10051718 TATGATATGTTCTGATATGAAG
1 TATGATATGTTCTGATATGAAA
* *
10051740 TATGATATGTTTTGATATGAGA
1 TATGATATGTTCTGATATGAAA
*
10051762 TACGATA
1 TATGATA
10051769 ACCTTCAATA
Statistics
Matches: 46, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 46 1.00
ACGTcount: A:0.34, C:0.04, G:0.21, T:0.41
Consensus pattern (22 bp):
TATGATATGTTCTGATATGAAA
Found at i:10051780 original size:44 final size:44
Alignment explanation
Indices: 10051696--10051780 Score: 100
Period size: 44 Copynumber: 1.9 Consensus size: 44
10051686 TAGGATATTC
* ** *
10051696 TATGATATGTTCTGATATGAAATATGATATGTTCTGATATGAAG
1 TATGATATGTTCTGATATGAAATACGATACCTTCTAATATGAAG
* *
10051740 TATGATATGTTTTGATATGAGATACGATAACCTTC-AATATG
1 TATGATATGTTCTGATATGAAATACGAT-ACCTTCTAATATG
10051781 TTATATGATA
Statistics
Matches: 34, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
44 30 0.88
45 4 0.12
ACGTcount: A:0.34, C:0.07, G:0.19, T:0.40
Consensus pattern (44 bp):
TATGATATGTTCTGATATGAAATACGATACCTTCTAATATGAAG
Found at i:10057915 original size:46 final size:44
Alignment explanation
Indices: 10057763--10057971 Score: 145
Period size: 46 Copynumber: 4.5 Consensus size: 44
10057753 ATTGTGAGCT
* * * *
10057763 AGTGTAAGACATGTCTGGGACATGCATCGGCCAC-ATCATGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCAGCTACGA-GAT-A-AGTC
** * * **
10057809 AGTGTAAGACCATGTCTCAGACATGGCTTCAGC-ATTGAGACGAGTGC
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCAGCTA-CGAGATAAGT-C
*
10057856 TAGTGTAATACATGTCTGGGACATGCATCAGCCT-CGAGACGTAAGTC
1 -AGTGTAAGACATGTCTGGGACATGCATCAG-CTACGAGA--TAAGTC
* * *
10057903 AGTTTAAGACATGTCTAGGACATGCATCAGCTACGAGATGAGTC
1 AGTGTAAGACATGTCTGGGACATGCATCAGCTACGAGATAAGTC
* *
10057947 AGTGTAATACCATGTCTGGAACATG
1 AGTGTAAGA-CATGTCTGGGACATG
10057972 ACATTGGCAC
Statistics
Matches: 127, Mismatches: 24, Indels: 25
0.72 0.14 0.14
Matches are distributed among these distances:
44 12 0.09
45 15 0.12
46 53 0.42
47 28 0.22
48 18 0.14
49 1 0.01
ACGTcount: A:0.29, C:0.21, G:0.26, T:0.24
Consensus pattern (44 bp):
AGTGTAAGACATGTCTGGGACATGCATCAGCTACGAGATAAGTC
Found at i:10063832 original size:40 final size:40
Alignment explanation
Indices: 10063788--10064679 Score: 1707
Period size: 40 Copynumber: 22.3 Consensus size: 40
10063778 GCTCCTCGTT
* * *
10063788 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAATTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
10063828 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
10063868 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
10063908 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
10063948 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
10063988 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
10064028 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
10064068 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
10064108 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
10064148 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
10064188 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
10064228 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
10064268 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
10064308 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
10064348 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
10064388 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
10064428 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
10064468 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
10064508 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
10064548 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
10064588 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* * *
10064628 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
10064667 CAAATGCCTTCGG
1 CAAATGCCTTCGG
10064680 ATCTTAGTCC
Statistics
Matches: 845, Mismatches: 6, Indels: 3
0.99 0.01 0.00
Matches are distributed among these distances:
39 35 0.04
40 808 0.96
41 2 0.00
ACGTcount: A:0.27, C:0.27, G:0.20, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:10076734 original size:22 final size:22
Alignment explanation
Indices: 10076700--10076769 Score: 68
Period size: 22 Copynumber: 3.2 Consensus size: 22
10076690 ATAGGGGTAA
* *
10076700 GATATGCTATGATATGAAATAT
1 GATACGCTCTGATATGAAATAT
* **
10076722 GATACGTTCTGATGCGAAATAT
1 GATACGCTCTGATATGAAATAT
* * *
10076744 AATATGCTCTGATATGAGATAT
1 GATACGCTCTGATATGAAATAT
10076766 GATA
1 GATA
10076770 AGCTTCAATA
Statistics
Matches: 36, Mismatches: 12, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
22 36 1.00
ACGTcount: A:0.37, C:0.09, G:0.20, T:0.34
Consensus pattern (22 bp):
GATACGCTCTGATATGAAATAT
Found at i:10079540 original size:21 final size:19
Alignment explanation
Indices: 10079510--10079559 Score: 57
Period size: 21 Copynumber: 2.6 Consensus size: 19
10079500 ATCGAGAACT
*
10079510 GTTTTAATTTAGTAATCTATG
1 GTTTTTATTTA-TAAT-TATG
*
10079531 GTTTTTATTTATAATTCTG
1 GTTTTTATTTATAATTATG
10079550 G-TTTTATTTA
1 GTTTTTATTTA
10079560 ACAATTTGTA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
18 9 0.33
19 4 0.15
20 4 0.15
21 10 0.37
ACGTcount: A:0.24, C:0.04, G:0.12, T:0.60
Consensus pattern (19 bp):
GTTTTTATTTATAATTATG
Found at i:10079556 original size:18 final size:20
Alignment explanation
Indices: 10079510--10079559 Score: 59
Period size: 18 Copynumber: 2.5 Consensus size: 20
10079500 ATCGAGAACT
10079510 GTTTTAATTTAGTAATCTATG
1 GTTTT-ATTTAGTAATCTATG
*
10079531 GTTTTTATTTA-TAAT-TCTG
1 G-TTTTATTTAGTAATCTATG
10079550 GTTTTATTTA
1 GTTTTATTTA
10079560 ACAATTTGTA
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
18 9 0.33
19 4 0.15
20 4 0.15
21 6 0.22
22 4 0.15
ACGTcount: A:0.24, C:0.04, G:0.12, T:0.60
Consensus pattern (20 bp):
GTTTTATTTAGTAATCTATG
Found at i:10079973 original size:22 final size:22
Alignment explanation
Indices: 10079948--10079991 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
10079938 ATGTGGGTAA
10079948 GATATGCTATGATATGAAATAC
1 GATATGCTATGATATGAAATAC
* *
10079970 GATATGCTTTGATATGAGATAC
1 GATATGCTATGATATGAAATAC
10079992 TATAACCTCT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.36, C:0.09, G:0.20, T:0.34
Consensus pattern (22 bp):
GATATGCTATGATATGAAATAC
Found at i:10083003 original size:12 final size:12
Alignment explanation
Indices: 10082986--10083010 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
10082976 TGAATCTTGG
10082986 TGGAAAATTGCT
1 TGGAAAATTGCT
10082998 TGGAAAATTGCT
1 TGGAAAATTGCT
10083010 T
1 T
10083011 TAATGGTGTC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.32, C:0.08, G:0.24, T:0.36
Consensus pattern (12 bp):
TGGAAAATTGCT
Found at i:10084372 original size:24 final size:24
Alignment explanation
Indices: 10084340--10084389 Score: 82
Period size: 24 Copynumber: 2.1 Consensus size: 24
10084330 TCATCTCTCT
**
10084340 AAGCAAGGCCCCGTAGATGTAGGG
1 AAGCAAGGCCCCACAGATGTAGGG
10084364 AAGCAAGGCCCCACAGATGTAGGG
1 AAGCAAGGCCCCACAGATGTAGGG
10084388 AA
1 AA
10084390 ATTGAACTAT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.34, C:0.22, G:0.34, T:0.10
Consensus pattern (24 bp):
AAGCAAGGCCCCACAGATGTAGGG
Found at i:10086888 original size:4 final size:4
Alignment explanation
Indices: 10086874--10086905 Score: 55
Period size: 4 Copynumber: 7.8 Consensus size: 4
10086864 ATAACATTAA
10086874 AATT AATTT AATT AATT AATT AATT AATT AAT
1 AATT AA-TT AATT AATT AATT AATT AATT AAT
10086906 CTCCTTCTAA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 23 0.85
5 4 0.15
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (4 bp):
AATT
Found at i:10088546 original size:45 final size:45
Alignment explanation
Indices: 10088479--10088577 Score: 128
Period size: 45 Copynumber: 2.2 Consensus size: 45
10088469 CACCTAAAAC
* *
10088479 GAGTAAGACCATAACTGAAAGATGCTATGGTATTATGATA-AAGAT
1 GAGTAAGACCATAACTGAAAGATGCTATGGCATCATGATATAA-AT
* * * *
10088524 GAGTAAGATCATAGCTGTAAGATGTTATGGCATCATGATATAAAT
1 GAGTAAGACCATAACTGAAAGATGCTATGGCATCATGATATAAAT
10088569 GAGTAAGAC
1 GAGTAAGAC
10088578 TATGGCTTAA
Statistics
Matches: 46, Mismatches: 7, Indels: 2
0.84 0.13 0.04
Matches are distributed among these distances:
45 44 0.96
46 2 0.04
ACGTcount: A:0.40, C:0.09, G:0.23, T:0.27
Consensus pattern (45 bp):
GAGTAAGACCATAACTGAAAGATGCTATGGCATCATGATATAAAT
Found at i:10088790 original size:27 final size:27
Alignment explanation
Indices: 10088734--10088791 Score: 64
Period size: 27 Copynumber: 2.1 Consensus size: 27
10088724 AGTCCAACGA
**
10088734 GACATTAAACACAAGATAGCTTGATGG
1 GACATTAAACACAAGATAGCTTGACAG
**
10088761 GACATTAAACACGGGATAG-TATGACAG
1 GACATTAAACACAAGATAGCT-TGACAG
10088788 GACA
1 GACA
10088792 CTGAACAAGG
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
26 1 0.04
27 25 0.96
ACGTcount: A:0.41, C:0.16, G:0.24, T:0.19
Consensus pattern (27 bp):
GACATTAAACACAAGATAGCTTGACAG
Found at i:10098941 original size:30 final size:30
Alignment explanation
Indices: 10098895--10098988 Score: 143
Period size: 30 Copynumber: 3.1 Consensus size: 30
10098885 TTTTATTATG
*
10098895 CCAATATCTCGATACCCATATCTTTGACTTT
1 CCAATAT-TTGATACCCATATCTTTGACTTT
10098926 CCAATATTTGATACCCATATCTTTGACTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
* * *
10098956 CTATTATTTGATACCCATATCTTTGATTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
10098986 CCA
1 CCA
10098989 TAAATATGGA
Statistics
Matches: 58, Mismatches: 5, Indels: 1
0.91 0.08 0.02
Matches are distributed among these distances:
30 51 0.88
31 7 0.12
ACGTcount: A:0.26, C:0.24, G:0.06, T:0.44
Consensus pattern (30 bp):
CCAATATTTGATACCCATATCTTTGACTTT
Found at i:10098950 original size:15 final size:15
Alignment explanation
Indices: 10098905--10098982 Score: 61
Period size: 15 Copynumber: 5.2 Consensus size: 15
10098895 CCAATATCTC
10098905 GATACCCATATCTTT
1 GATACCCATATCTTT
** *
10098920 GACTTTCCA-ATATTT
1 GA-TACCCATATCTTT
10098935 GATACCCATATCTTT
1 GATACCCATATCTTT
** * *
10098950 GACTTTCTAT-TATTT
1 GA-TACCCATATCTTT
10098965 GATACCCATATCTTT
1 GATACCCATATCTTT
10098980 GAT
1 GAT
10098983 TTTCCATAAA
Statistics
Matches: 45, Mismatches: 14, Indels: 8
0.67 0.21 0.12
Matches are distributed among these distances:
14 8 0.18
15 29 0.64
16 8 0.18
ACGTcount: A:0.26, C:0.22, G:0.08, T:0.45
Consensus pattern (15 bp):
GATACCCATATCTTT
Found at i:10103602 original size:30 final size:30
Alignment explanation
Indices: 10103556--10103649 Score: 143
Period size: 30 Copynumber: 3.1 Consensus size: 30
10103546 TTTTATTATG
*
10103556 CCAATATCTCGATACCCATATCTTTGACTTT
1 CCAATAT-TTGATACCCATATCTTTGACTTT
10103587 CCAATATTTGATACCCATATCTTTGACTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
* * *
10103617 CTATTATTTGATACCCATATCTTTGATTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
10103647 CCA
1 CCA
10103650 TAAATATGGA
Statistics
Matches: 58, Mismatches: 5, Indels: 1
0.91 0.08 0.02
Matches are distributed among these distances:
30 51 0.88
31 7 0.12
ACGTcount: A:0.26, C:0.24, G:0.06, T:0.44
Consensus pattern (30 bp):
CCAATATTTGATACCCATATCTTTGACTTT
Found at i:10103611 original size:15 final size:15
Alignment explanation
Indices: 10103566--10103643 Score: 61
Period size: 15 Copynumber: 5.2 Consensus size: 15
10103556 CCAATATCTC
10103566 GATACCCATATCTTT
1 GATACCCATATCTTT
** *
10103581 GACTTTCCA-ATATTT
1 GA-TACCCATATCTTT
10103596 GATACCCATATCTTT
1 GATACCCATATCTTT
** * *
10103611 GACTTTCTAT-TATTT
1 GA-TACCCATATCTTT
10103626 GATACCCATATCTTT
1 GATACCCATATCTTT
10103641 GAT
1 GAT
10103644 TTTCCATAAA
Statistics
Matches: 45, Mismatches: 14, Indels: 8
0.67 0.21 0.12
Matches are distributed among these distances:
14 8 0.18
15 29 0.64
16 8 0.18
ACGTcount: A:0.26, C:0.22, G:0.08, T:0.45
Consensus pattern (15 bp):
GATACCCATATCTTT
Found at i:10109788 original size:3 final size:3
Alignment explanation
Indices: 10109780--10109877 Score: 74
Period size: 3 Copynumber: 32.0 Consensus size: 3
10109770 CAACCAACAA
** * *
10109780 AAT AAT AAT AA- AGG AAT AAT AAT CAT AAT TAT AAT AAT AAT AATT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA-T
* * * *
10109825 AGT AAT AA- ATAT AAT GAAT AAT AAC AGT AAT AAT AAT AAT GAAG AAT
1 AAT AAT AAT A-AT AAT -AAT AAT AAT AAT AAT AAT AAT AAT -AAT AAT
10109872 AAT AAT
1 AAT AAT
10109878 TAAAAATAAA
Statistics
Matches: 74, Mismatches: 15, Indels: 12
0.73 0.15 0.12
Matches are distributed among these distances:
2 2 0.03
3 64 0.86
4 8 0.11
ACGTcount: A:0.60, C:0.02, G:0.07, T:0.31
Consensus pattern (3 bp):
AAT
Done.