Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D07
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: 56457815
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1765025 characters in sequence are not A, C, G, or T
File 45 of 189
Found at i:13192836 original size:114 final size:114
Alignment explanation
Indices: 13192686--13192894 Score: 319
Period size: 114 Copynumber: 1.8 Consensus size: 114
13192676 CAAAAATTTT
* * * * *
13192686 TTAGGAATGTGTTGGGCTGAGTAACCGGGGTAGGGTGTTTGGTTGTCATCTCTCTTCGCGTCAAA
1 TTAGGAATGCGTTGGGCTGAGTAACCGAGGTAGGGTGCTTGGTTGTCATCTCTATTCGCGTAAAA
*
13192751 AGGTTGAATATATTCTAAAGAAAAGAAAAACATATATAAATATAATAAA
66 AGGTTCAATATATTCTAAAGAAAAGAAAAACATATATAAATATAATAAA
* * * *
13192800 TTAGGAGTGCGTTGGGCTGAGTAACTGAGGTGGGGTGCTTGGTTGTTATCTCTATTCGCGTAAAA
1 TTAGGAATGCGTTGGGCTGAGTAACCGAGGTAGGGTGCTTGGTTGTCATCTCTATTCGCGTAAAA
*
13192865 AGGTTCAATATATTCTTAAGAAAAGAAAAA
66 AGGTTCAATATATTCTAAAGAAAAGAAAAA
13192895 AAAAGAGAAG
Statistics
Matches: 84, Mismatches: 11, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
114 84 1.00
ACGTcount: A:0.33, C:0.11, G:0.26, T:0.31
Consensus pattern (114 bp):
TTAGGAATGCGTTGGGCTGAGTAACCGAGGTAGGGTGCTTGGTTGTCATCTCTATTCGCGTAAAA
AGGTTCAATATATTCTAAAGAAAAGAAAAACATATATAAATATAATAAA
Found at i:13193724 original size:16 final size:17
Alignment explanation
Indices: 13193703--13193736 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
13193693 ACATAATTAT
*
13193703 TAGTAA-AAGGTTAATA
1 TAGTAATAAGGTAAATA
13193719 TAGTAATAAGGTAAATA
1 TAGTAATAAGGTAAATA
13193736 T
1 T
13193737 TAACTTTATA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.50, C:0.00, G:0.18, T:0.32
Consensus pattern (17 bp):
TAGTAATAAGGTAAATA
Found at i:13194660 original size:42 final size:42
Alignment explanation
Indices: 13194604--13194703 Score: 164
Period size: 42 Copynumber: 2.4 Consensus size: 42
13194594 CTATATGAAC
** *
13194604 GGCACTAAGTGTGCGAAATTAAAATAATGATGTTGGGTAATG
1 GGCACTAAGTGTGCGAAATTAAAATAATGATGTTGAATAACG
*
13194646 GGCACTAAGTGTGCGAAATTAAAATGATGATGTTGAATAACG
1 GGCACTAAGTGTGCGAAATTAAAATAATGATGTTGAATAACG
13194688 GGCACTAAGTGTGCGA
1 GGCACTAAGTGTGCGA
13194704 TACCGAGAGC
Statistics
Matches: 54, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
42 54 1.00
ACGTcount: A:0.35, C:0.10, G:0.29, T:0.26
Consensus pattern (42 bp):
GGCACTAAGTGTGCGAAATTAAAATAATGATGTTGAATAACG
Found at i:13201285 original size:24 final size:24
Alignment explanation
Indices: 13201258--13201304 Score: 85
Period size: 24 Copynumber: 2.0 Consensus size: 24
13201248 ACATAACCCA
13201258 AACAAACTAAACCCAATCAGCCCC
1 AACAAACTAAACCCAATCAGCCCC
*
13201282 AACAAACTAAACCCAATTAGCCC
1 AACAAACTAAACCCAATCAGCCC
13201305 ATTTACAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.47, C:0.38, G:0.04, T:0.11
Consensus pattern (24 bp):
AACAAACTAAACCCAATCAGCCCC
Found at i:13202440 original size:3 final size:3
Alignment explanation
Indices: 13202432--13202461 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
13202422 ACAAATTTCA
13202432 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
13202462 ACTCTTTTAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:13204707 original size:19 final size:20
Alignment explanation
Indices: 13204667--13204710 Score: 56
Period size: 19 Copynumber: 2.3 Consensus size: 20
13204657 GTCTCTCTAG
* *
13204667 GCATT-CATTTCATGCATTT
1 GCATTACATTGCATGCATAT
13204686 GCATTACATTGCAT-CATAT
1 GCATTACATTGCATGCATAT
13204705 GCATTA
1 GCATTA
13204711 GATTTTCACG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 15 0.68
20 7 0.32
ACGTcount: A:0.27, C:0.20, G:0.11, T:0.41
Consensus pattern (20 bp):
GCATTACATTGCATGCATAT
Found at i:13206772 original size:10 final size:10
Alignment explanation
Indices: 13206757--13206822 Score: 102
Period size: 10 Copynumber: 6.9 Consensus size: 10
13206747 AGTTCAGACT
13206757 AAAAAAAAAC
1 AAAAAAAAAC
13206767 AAAAAAAAAC
1 AAAAAAAAAC
*
13206777 -AAAAACAAC
1 AAAAAAAAAC
13206786 AAAAAAAAAC
1 AAAAAAAAAC
13206796 --AAAAAAAC
1 AAAAAAAAAC
13206804 AAAAAAAAAC
1 AAAAAAAAAC
13206814 AAAAAAAAA
1 AAAAAAAAA
13206823 ATCGAAGTCA
Statistics
Matches: 51, Mismatches: 2, Indels: 6
0.86 0.03 0.10
Matches are distributed among these distances:
8 8 0.16
9 8 0.16
10 35 0.69
ACGTcount: A:0.89, C:0.11, G:0.00, T:0.00
Consensus pattern (10 bp):
AAAAAAAAAC
Found at i:13206819 original size:18 final size:18
Alignment explanation
Indices: 13206759--13206820 Score: 115
Period size: 18 Copynumber: 3.4 Consensus size: 18
13206749 TTCAGACTAA
13206759 AAAAAAACAAAAAAAAAC
1 AAAAAAACAAAAAAAAAC
13206777 AAAAACAACAAAAAAAAAC
1 AAAAA-AACAAAAAAAAAC
13206796 AAAAAAACAAAAAAAAAC
1 AAAAAAACAAAAAAAAAC
13206814 AAAAAAA
1 AAAAAAA
13206821 AAATCGAAGT
Statistics
Matches: 43, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
18 25 0.58
19 18 0.42
ACGTcount: A:0.89, C:0.11, G:0.00, T:0.00
Consensus pattern (18 bp):
AAAAAAACAAAAAAAAAC
Found at i:13206821 original size:19 final size:19
Alignment explanation
Indices: 13206758--13206821 Score: 112
Period size: 19 Copynumber: 3.4 Consensus size: 19
13206748 GTTCAGACTA
13206758 AAAAAAAACAAAAAAAAAC
1 AAAAAAAACAAAAAAAAAC
*
13206777 AAAAACAACAAAAAAAAAC
1 AAAAAAAACAAAAAAAAAC
13206796 -AAAAAAACAAAAAAAAAC
1 AAAAAAAACAAAAAAAAAC
13206814 AAAAAAAA
1 AAAAAAAA
13206822 AATCGAAGTC
Statistics
Matches: 42, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
18 17 0.40
19 25 0.60
ACGTcount: A:0.89, C:0.11, G:0.00, T:0.00
Consensus pattern (19 bp):
AAAAAAAACAAAAAAAAAC
Found at i:13206839 original size:1 final size:1
Alignment explanation
Indices: 13206757--13206823 Score: 71
Period size: 1 Copynumber: 67.0 Consensus size: 1
13206747 AGTTCAGACT
* * * * * * *
13206757 AAAAAAAAACAAAAAAAAACAAAAACAACAAAAAAAAACAAAAAAACAAAAAAAAACAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
13206822 AA
1 AA
13206824 TCGAAGTCAA
Statistics
Matches: 52, Mismatches: 14, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
1 52 1.00
ACGTcount: A:0.90, C:0.10, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:13206855 original size:18 final size:19
Alignment explanation
Indices: 13206834--13206875 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 19
13206824 TCGAAGTCAA
* *
13206834 AAAAAAGGAAAA-AAGAAG
1 AAAAAAGAAAAATAAAAAG
13206852 AAAAAAGAAAAATAAAAAG
1 AAAAAAGAAAAATAAAAAG
13206871 AAAAA
1 AAAAA
13206876 GGAGAGGTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 11 0.52
19 10 0.48
ACGTcount: A:0.83, C:0.00, G:0.14, T:0.02
Consensus pattern (19 bp):
AAAAAAGAAAAATAAAAAG
Found at i:13207719 original size:9 final size:9
Alignment explanation
Indices: 13207705--13207735 Score: 55
Period size: 9 Copynumber: 3.6 Consensus size: 9
13207695 ACTTTGGGTC
13207705 AAAAAAATG
1 AAAAAAATG
13207714 AAAAAAAT-
1 AAAAAAATG
13207722 AAAAAAATG
1 AAAAAAATG
13207731 AAAAA
1 AAAAA
13207736 GTAAAAATGG
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
8 8 0.38
9 13 0.62
ACGTcount: A:0.84, C:0.00, G:0.06, T:0.10
Consensus pattern (9 bp):
AAAAAAATG
Found at i:13209019 original size:44 final size:44
Alignment explanation
Indices: 13208960--13210154 Score: 384
Period size: 44 Copynumber: 27.8 Consensus size: 44
13208950 AGAATTGCAG
*
13208960 ATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAATATGGTA
1 ATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAATATGGTA
* * * * *
13209004 ATCCTATCTCCCTGAGATTACAGTGGAGCGGATTAAAACCAAGG--
1 ATCTTATCTCCCTGAGATTACAGTGGAGCAGATT-GAA-TATGGTA
* * * * **
13209048 ATCTTATCTCTCTGA-AGTTACAGTAGAGTAGATCGTACCA-GG--
1 ATCTTATCTCCCTGAGA-TTACAGTGGAGCAGATTG-AATATGGTA
* * ** * * *
13209090 -TCTTATTTCCCTGAGATTACAGTGGAACAGACCGAAGAATTGCA
1 ATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAA-TATGGTA
* *
13209134 GATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAATATAGTA
1 -ATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAATATGGTA
* * *
13209179 ATCCTATC-CCCTGAGATTACAGTTGAGCGGATT-AA-A-GG--
1 ATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAATATGGTA
* * * **
13209217 ATCTTATCTCTCTGA-AGTTACAGTAGAGCAGATCGCACCA-GG--
1 ATCTTATCTCCCTGAGA-TTACAGTGGAGCAGATTG-AATATGGTA
* ** * * *
13209259 -TCTTATTTCCCTGAGATTACAGTGGAATAGACTGAAGAAT-TTCA
1 ATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAA-TATGGT-A
* * ** *
13209303 GATCTTATCTCCCTAAGATTACAGCGGAGCAGATTGAAGCTAGTA
1 -ATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAATATGGTA
* **
13209348 ATCCTATCTCCCTGAGATTACAGTGGAGTGGATT-AA-A-GG--
1 ATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAATATGGTA
* ** * **
13209387 ATCTTATCTCTCTGA-AGTTACAGTAAAGCAGATCGCACCA-GG--
1 ATCTTATCTCCCTGAGA-TTACAGTGGAGCAGATTG-AATATGGTA
* * * * * *
13209429 -TCTTATTTCCCTTAGATTACAGTGGAACAGACTGAAGAAT-TTCA
1 ATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAA-TATGGT-A
** * ** *
13209473 GATCTTATCTCCCTGAGATTACAACGGAGTAGATTGAAGCTAGTA
1 -ATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAATATGGTA
* * * *
13209518 AT-TATATCTCCCTGATATTACAGTGGAGCGGATTAAAACTAAGG--
1 ATCT-TATCTCCCTGAGATTACAGTGGAGCAGATT-GAA-TATGGTA
* * * * **
13209562 ATCTTATCTCTCTGA-AGTTACAGTAGAGTAGATCGCACCA-GG--
1 ATCTTATCTCCCTGAGA-TTACAGTGGAGCAGATTG-AATATGGTA
* * ** * *
13209604 -TCTTATTTCCCTGAGATTACAGTGGAACAGACCGAAGAAT-TTCA
1 ATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAA-TATGGT-A
* ** *
13209648 GATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTA
1 -ATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAATATGGTA
* * * *
13209693 ATCCTATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAGG--
1 ATCTTATCTCCCTGAGATTACAGTGGAGCAGATT-GAAT-ATGGTA
* * * * *
13209737 ATCTTATCTCTCTGA-AGTTACAGTAGAGTAGATCGCATCA-GG--
1 ATCTTATCTCCCTGAGA-TTACAGTGGAGCAGATTGAAT-ATGGTA
* ** ** ** * *
13209779 -TCTTATTTCTTTGAGATTACAGTGGAATAGACCGAAGAAT-TTCA
1 ATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAA-TATGGT-A
* ** *
13209823 GATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTA
1 -ATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAATATGGTA
* * * *
13209868 ATCCTATCTCTCTGAGATTACAGTGGAGCAGATTAAAATAAAGG--
1 ATCTTATCTCCCTGAGATTACAGTGGAGCAGATT-GAAT-ATGGTA
** * * *
13209912 ATCTTATCTCTTTGA-AGTTACAGTAGAGTAGATCG----T-GTCA
1 ATCTTATCTCCCTGAGA-TTACAGTGGAGCAGATTGAATATGGT-A
* ** *
13209952 GATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTA
1 -ATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAATATGGTA
* * * *
13209997 ATCCTATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAGG--
1 ATCTTATCTCCCTGAGATTACAGTGGAGCAGATT-GAAT-ATGGTA
* * * *
13210041 ATCTTATCTCTCTGAAGA-TACAGTAGAGTAGATCG----T-GTCA
1 ATCTTATCTCCCTG-AGATTACAGTGGAGCAGATTGAATATGGT-A
** *
13210081 GATCTTATCTCCCTGAGATTAC-----AGCAGATTGAAGCTAGTA
1 -ATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAATATGGTA
* *
13210121 ATCCTATCTCCCTGAGATTACAGTGGAGCGGATT
1 ATCTTATCTCCCTGAGATTACAGTGGAGCAGATT
13210155 AAAATAAAGG
Statistics
Matches: 845, Mismatches: 210, Indels: 192
0.68 0.17 0.15
Matches are distributed among these distances:
36 7 0.01
37 2 0.00
38 9 0.01
39 64 0.08
40 10 0.01
41 183 0.22
42 21 0.02
43 35 0.04
44 324 0.38
45 28 0.03
46 162 0.19
ACGTcount: A:0.31, C:0.19, G:0.21, T:0.29
Consensus pattern (44 bp):
ATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAATATGGTA
Found at i:13209649 original size:175 final size:174
Alignment explanation
Indices: 13208911--13209984 Score: 1680
Period size: 175 Copynumber: 6.2 Consensus size: 174
13208901 GTTCATTATA
** * *
13208911 CAGGTCTTATTTCCCTGAGATTATGGTGGAACAGACCAAAGAATTGCAGATCTTATCTCCCTGAG
1 CAGGTCTTATTTCCCTGAGATTACAGTGGAACAGACCGAAGAATTTCAGATCTTATCTCCCTGAG
** *
13208976 ATTACAGCGGAGCAGATTGAATATGGTAATCCTATCTCCCTGAGATTACAGTGGAGCGGATTAAA
66 ATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTACAGTGGAGCGGATTAAA
* *
13209041 ACCAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGTAC
131 A-TAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCAC
*
13209086 CAGGTCTTATTTCCCTGAGATTACAGTGGAACAGACCGAAGAATTGCAGATCTTATCTCCCTGAG
1 CAGGTCTTATTTCCCTGAGATTACAGTGGAACAGACCGAAGAATTTCAGATCTTATCTCCCTGAG
** *
13209151 ATTACAGCGGAGCAGATTGAATATAGTAATCCTATC-CCCTGAGATTACAGTTGAGCGGATT---
66 ATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTACAGTGGAGCGGATTAAA
*
13209212 A-AAGGATCTTATCTCTCTGAAGTTACAGTAGAGCAGATCGCAC
131 ATAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCAC
* * *
13209255 CAGGTCTTATTTCCCTGAGATTACAGTGGAATAGACTGAAGAATTTCAGATCTTATCTCCCTAAG
1 CAGGTCTTATTTCCCTGAGATTACAGTGGAACAGACCGAAGAATTTCAGATCTTATCTCCCTGAG
*
13209320 ATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTACAGTGGAGTGGATT---
66 ATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTACAGTGGAGCGGATTAAA
* *
13209382 A-AAGGATCTTATCTCTCTGAAGTTACAGTAAAGCAGATCGCAC
131 ATAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCAC
* *
13209425 CAGGTCTTATTTCCCTTAGATTACAGTGGAACAGACTGAAGAATTTCAGATCTTATCTCCCTGAG
1 CAGGTCTTATTTCCCTGAGATTACAGTGGAACAGACCGAAGAATTTCAGATCTTATCTCCCTGAG
* * ** *
13209490 ATTACAACGGAGTAGATTGAAGCTAGTAATTATATCTCCCTGATATTACAGTGGAGCGGATTAAA
66 ATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTACAGTGGAGCGGATTAAA
13209555 ACTAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCAC
131 A-TAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCAC
13209600 CAGGTCTTATTTCCCTGAGATTACAGTGGAACAGACCGAAGAATTTCAGATCTTATCTCCCTGAG
1 CAGGTCTTATTTCCCTGAGATTACAGTGGAACAGACCGAAGAATTTCAGATCTTATCTCCCTGAG
13209665 ATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTACAGTGGAGCGGATTAAA
66 ATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTACAGTGGAGCGGATTAAA
*
13209730 ATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCAT
131 AT-AAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCAC
** *
13209775 CAGGTCTTATTTCTTTGAGATTACAGTGGAATAGACCGAAGAATTTCAGATCTTATCTCCCTGAG
1 CAGGTCTTATTTCCCTGAGATTACAGTGGAACAGACCGAAGAATTTCAGATCTTATCTCCCTGAG
* *
13209840 ATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCTCTGAGATTACAGTGGAGCAGATTAAA
66 ATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTACAGTGGAGCGGATTAAA
* ***
13209905 ATAAAGGATCTTATCTCTTTGAAGTTACAGTAGAGTAGATCGTGT
131 AT-AAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCAC
* * * *
13209950 CAGATCTTATCTCCCTGAGATTACAGCGGAGCAGA
1 CAGGTCTTATTTCCCTGAGATTACAGTGGAACAGA
13209985 TTGAAGCTAG
Statistics
Matches: 842, Mismatches: 50, Indels: 14
0.93 0.06 0.02
Matches are distributed among these distances:
169 135 0.16
170 183 0.22
171 1 0.00
173 1 0.00
174 25 0.03
175 497 0.59
ACGTcount: A:0.31, C:0.19, G:0.22, T:0.29
Consensus pattern (174 bp):
CAGGTCTTATTTCCCTGAGATTACAGTGGAACAGACCGAAGAATTTCAGATCTTATCTCCCTGAG
ATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTACAGTGGAGCGGATTAAA
ATAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCAC
Found at i:13209977 original size:129 final size:129
Alignment explanation
Indices: 13209820--13210261 Score: 687
Period size: 129 Copynumber: 3.5 Consensus size: 129
13209810 CCGAAGAATT
*
13209820 TCAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCTCTGAGA
1 TCAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGA
* *
13209885 TTACAGTGGAGCAGATTAAAATAAAGGATCTTATCTCTTTGAAGTTACAGTAGAGTAGATCGTG
66 TTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGTG
13209949 TCAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGA
1 TCAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGA
*
13210014 TTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGATACAGTAGAGTAGATCGTG
66 TTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGTG
13210078 TCAGATCTTATCTCCCTGAGATT--A-C--AGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGA
1 TCAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGA
* **
13210138 TTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGTGTAGATCGCA
66 TTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGTG
* * * * * * * * * * *
13210202 TCAGGTTTTACCTCCCTGTGGTTACAGTGGAGTACATAGAAGCCAGTAATTCTATCTCCC
1 TCAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCC
13210262 CGACATTGCG
Statistics
Matches: 289, Mismatches: 19, Indels: 10
0.91 0.06 0.03
Matches are distributed among these distances:
124 113 0.39
126 2 0.01
127 1 0.00
129 173 0.60
ACGTcount: A:0.30, C:0.19, G:0.21, T:0.30
Consensus pattern (129 bp):
TCAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGA
TTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGTG
Found at i:13218587 original size:44 final size:44
Alignment explanation
Indices: 13218528--13218617 Score: 126
Period size: 44 Copynumber: 2.0 Consensus size: 44
13218518 ATTGAAACAA
* * * *
13218528 AATAAAAGTTTTGATAGTTTTACATTTAAAAATAATTATAATTT
1 AATAAAAGTTGTGATAATTATACATTTAAAAATAATTAGAATTT
* *
13218572 AATAGAAGTTGTGATAATTATACATTTAAAAATAGTTAGAATTT
1 AATAAAAGTTGTGATAATTATACATTTAAAAATAATTAGAATTT
13218616 AA
1 AA
13218618 ATTTAAATTT
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
44 40 1.00
ACGTcount: A:0.47, C:0.02, G:0.10, T:0.41
Consensus pattern (44 bp):
AATAAAAGTTGTGATAATTATACATTTAAAAATAATTAGAATTT
Found at i:13218892 original size:26 final size:27
Alignment explanation
Indices: 13218863--13218921 Score: 84
Period size: 26 Copynumber: 2.2 Consensus size: 27
13218853 AATAAACACC
*
13218863 AAAAATTTATTTTAAAAAT-AAAAATA
1 AAAAATGTATTTTAAAAATAAAAAATA
* *
13218889 AAAAAAGTATTTTAAAATTAAAAAATA
1 AAAAATGTATTTTAAAAATAAAAAATA
13218916 AAAAAT
1 AAAAAT
13218922 ATTTATTTAT
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 16 0.57
27 12 0.43
ACGTcount: A:0.68, C:0.00, G:0.02, T:0.31
Consensus pattern (27 bp):
AAAAATGTATTTTAAAAATAAAAAATA
Found at i:13218925 original size:25 final size:26
Alignment explanation
Indices: 13218870--13218920 Score: 84
Period size: 27 Copynumber: 1.9 Consensus size: 26
13218860 ACCAAAAATT
13218870 TATTTTAAAAATAAAAATAAAAAAAG
1 TATTTTAAAAATAAAAATAAAAAAAG
*
13218896 TATTTTAAAATTAAAAAATAAAAAA
1 TATTTTAAAAAT-AAAAATAAAAAA
13218921 TATTTATTTA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
26 11 0.48
27 12 0.52
ACGTcount: A:0.69, C:0.00, G:0.02, T:0.29
Consensus pattern (26 bp):
TATTTTAAAAATAAAAATAAAAAAAG
Found at i:13220701 original size:26 final size:26
Alignment explanation
Indices: 13220670--13220719 Score: 82
Period size: 26 Copynumber: 1.9 Consensus size: 26
13220660 AAACATAATT
13220670 TCAAATGAGAGACTTTTGAGTTTTCA
1 TCAAATGAGAGACTTTTGAGTTTTCA
* *
13220696 TCAAATGAGGGATTTTTGAGTTTT
1 TCAAATGAGAGACTTTTGAGTTTT
13220720 AGGTGAAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.28, C:0.08, G:0.22, T:0.42
Consensus pattern (26 bp):
TCAAATGAGAGACTTTTGAGTTTTCA
Found at i:13236250 original size:18 final size:20
Alignment explanation
Indices: 13236217--13236253 Score: 60
Period size: 18 Copynumber: 1.9 Consensus size: 20
13236207 TAGAAAAATC
13236217 TTATTATGTATAAATTATAA
1 TTATTATGTATAAATTATAA
13236237 TTATTA-GT-TAAATTATA
1 TTATTATGTATAAATTATA
13236254 GTTTCCAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 9 0.53
19 2 0.12
20 6 0.35
ACGTcount: A:0.43, C:0.00, G:0.05, T:0.51
Consensus pattern (20 bp):
TTATTATGTATAAATTATAA
Found at i:13236749 original size:17 final size:17
Alignment explanation
Indices: 13236727--13236759 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
13236717 AGTTTTGCTC
13236727 TAGT-AAATATCAAATAA
1 TAGTAAAAT-TCAAATAA
13236744 TAGTAAAATTCAAATA
1 TAGTAAAATTCAAATA
13236760 TATCAAATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.58, C:0.06, G:0.06, T:0.30
Consensus pattern (17 bp):
TAGTAAAATTCAAATAA
Found at i:13239718 original size:88 final size:88
Alignment explanation
Indices: 13239569--13239751 Score: 289
Period size: 88 Copynumber: 2.1 Consensus size: 88
13239559 ACAACTTCAA
*
13239569 GGAGATAGGAATACTGGCTTCAATGTACAACACTGTAACCTCAGGGAGGTAAAATTTGCCATCTT
1 GGAGATAGGAATACTGGCTTCAATGTACAACACTGTAACCTCAGGGAGGTAAAATCTGCCATCTT
*
13239634 CGATCTGCTCCACTACTGCCTAG
66 CGATCTACTCCACTACTGCCTAG
** *
13239657 GGAGATA-GAATTACTGGCTTCAATGTACTCCACTGTAGCC-CTAGGGAGGTAAAATCTGCCATC
1 GGAGATAGGAA-TACTGGCTTCAATGTACAACACTGTAACCTC-AGGGAGGTAAAATCTGCCATC
13239720 TTCGATCTACTCCACTACTGCCTAG
64 TTCGATCTACTCCACTACTGCCTAG
13239745 GGAGATA
1 GGAGATA
13239752 AGATCTGTAA
Statistics
Matches: 88, Mismatches: 5, Indels: 4
0.91 0.05 0.04
Matches are distributed among these distances:
87 4 0.05
88 84 0.95
ACGTcount: A:0.28, C:0.24, G:0.22, T:0.26
Consensus pattern (88 bp):
GGAGATAGGAATACTGGCTTCAATGTACAACACTGTAACCTCAGGGAGGTAAAATCTGCCATCTT
CGATCTACTCCACTACTGCCTAG
Found at i:13239744 original size:44 final size:44
Alignment explanation
Indices: 13239611--13239795 Score: 167
Period size: 44 Copynumber: 4.2 Consensus size: 44
13239601 CTGTAACCTC
* * * *
13239611 AGGGAGGTAAAATTTGCCATCTTCGATCTGCTCCACTACTGCCT
1 AGGGAGATAAAATCTGCCATCTTCAATCTACTCCACTACTGCCT
* * *** * *
13239655 AGGGAGATAGAAT-TACTGGCTTCAATGTACTCCACT-GTAGCCCT
1 AGGGAGATAAAATCTGCCATCTTCAATCTACTCCACTACT-G-CCT
* *
13239699 AGGGAGGTAAAATCTGCCATCTTCGATCTACTCCACTACTGCCT
1 AGGGAGATAAAATCTGCCATCTTCAATCTACTCCACTACTGCCT
* ** * * *
13239743 AGGGAGATAAGATCTGTAATCTTCAATCTATTCCACTGCTGCCC
1 AGGGAGATAAAATCTGCCATCTTCAATCTACTCCACTACTGCCT
13239787 AGGGAGATA
1 AGGGAGATA
13239796 GACCAGATAT
Statistics
Matches: 110, Mismatches: 27, Indels: 8
0.76 0.19 0.06
Matches are distributed among these distances:
42 1 0.01
43 17 0.15
44 73 0.66
45 18 0.16
46 1 0.01
ACGTcount: A:0.26, C:0.25, G:0.21, T:0.28
Consensus pattern (44 bp):
AGGGAGATAAAATCTGCCATCTTCAATCTACTCCACTACTGCCT
Found at i:13239791 original size:88 final size:86
Alignment explanation
Indices: 13239585--13239792 Score: 249
Period size: 88 Copynumber: 2.4 Consensus size: 86
13239575 AGGAATACTG
* ** * * *
13239585 GCTTCAATGTACAACACTGTAACCTCAGGGAGGTAAAATTTGCCATCTTCGATCTGCTCCACTAC
1 GCTTCAATCTACTCCACTGTAGCC-CAGGGAGGTAAAATCTGCCATCTTCGATCTACTCCACTAC
*
13239650 TGCCTAGGGAGATAGAATTACT
65 TGCCTAGGGAGATAGAATTAAT
*
13239672 GGCTTCAATGTACTCCACTGTAGCCCTAGGGAGGTAAAATCTGCCATCTTCGATCTACTCCACTA
1 -GCTTCAATCTACTCCACTGTAGCCC-AGGGAGGTAAAATCTGCCATCTTCGATCTACTCCACTA
*
13239737 CTGCCTAGGGAGATAAGATCTGTAAT
64 CTGCCTAGGGAGAT-AGA-AT-TAAT
*
13239763 -CTTCAATCTATTCCACTGCT-GCCCAGGGAG
1 GCTTCAATCTACTCCACTG-TAGCCCAGGGAG
13239793 ATAGACCAGA
Statistics
Matches: 106, Mismatches: 9, Indels: 10
0.85 0.07 0.08
Matches are distributed among these distances:
87 1 0.01
88 77 0.73
89 23 0.22
90 2 0.02
91 3 0.03
ACGTcount: A:0.26, C:0.26, G:0.20, T:0.27
Consensus pattern (86 bp):
GCTTCAATCTACTCCACTGTAGCCCAGGGAGGTAAAATCTGCCATCTTCGATCTACTCCACTACT
GCCTAGGGAGATAGAATTAAT
Found at i:13239987 original size:89 final size:89
Alignment explanation
Indices: 13239848--13240559 Score: 1034
Period size: 89 Copynumber: 8.0 Consensus size: 89
13239838 TCTACTGTGC
* * * * * *
13239848 TTGATCTACTTCACGCTAATACATGAAGACAAGGTCT-TTTCTTTTCGATCTACTCCACCACCAG
1 TTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGTTT-TCTTCGATCTACTTCGCCACCAG
* * *
13239912 TATGGGGAGACAAGATCTGGTATAT
65 TATGGGAAGACAAGATCTGTTATCT
** * * *
13239937 TTGATCTACTTCATACCAGTACATGAAGACAAGATCTGCTTTCTTAGATCTACTTCGCCGCCAGT
1 TTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGTTTTCTTCGATCTACTTCGCCACCAGT
**
13240002 ATGGGAAGGTAAGATCTGTTATCT
66 ATGGGAAGACAAGATCTGTTATCT
13240026 TTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGTTTTCTTCGATCTACTTCGCCACCAGT
1 TTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGTTTTCTTCGATCTACTTCGCCACCAGT
*
13240091 ATCGGAAGACAAGATCTGTTATCT
66 ATGGGAAGACAAGATCTGTTATCT
* * * * * * *
13240115 TTGAACCACTTCATGCCAGTACATGAAAATAAGATTTGTTTTCTTCGATCCACTTCGCCACCAGT
1 TTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGTTTTCTTCGATCTACTTCGCCACCAGT
*
13240180 ATAGGAAGACAAGATCTGTTATCT
66 ATGGGAAGACAAGATCTGTTATCT
* *
13240204 TTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGTTTTCTTCGATCTGCTTCACCACCAGT
1 TTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGTTTTCTTCGATCTACTTCGCCACCAGT
*
13240269 ATGGGAAGGCAAGATCTGTTATCT
66 ATGGGAAGACAAGATCTGTTATCT
* *
13240293 TTGATCTACTTCATGCCAGTACATGAAGACAAGATCTATTTTCTTCGATCTACTTCGCCACCAGT
1 TTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGTTTTCTTCGATCTACTTCGCCACCAGT
*
13240358 ATAGGAAGACAAGATCTGTTATCT
66 ATGGGAAGACAAGATCTGTTATCT
*
13240382 TTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGTTTTCTTCGATCTACTTTGCCACCAGT
1 TTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGTTTTCTTCGATCTACTTCGCCACCAGT
* * *
13240447 ATGGGAAGACAAGATATGGTATTT
66 ATGGGAAGACAAGATCTGTTATCT
* * * *
13240471 TTGATCTACTTCACGCCAGTACATGAAGAC--TATCTGCTTTCTTCGATCTGCTTCGCCGCCAGT
1 TTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGTTTTCTTCGATCTACTTCGCCACCAGT
*
13240534 ATGGGAAGGCAAGATCTGTTATCT
66 ATGGGAAGACAAGATCTGTTATCT
13240558 TT
1 TT
13240560 CAACTTGCTC
Statistics
Matches: 557, Mismatches: 65, Indels: 4
0.89 0.10 0.01
Matches are distributed among these distances:
87 50 0.09
89 505 0.91
90 2 0.00
ACGTcount: A:0.27, C:0.23, G:0.18, T:0.32
Consensus pattern (89 bp):
TTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGTTTTCTTCGATCTACTTCGCCACCAGT
ATGGGAAGACAAGATCTGTTATCT
Found at i:13241471 original size:8 final size:8
Alignment explanation
Indices: 13241458--13241498 Score: 61
Period size: 8 Copynumber: 5.5 Consensus size: 8
13241448 CCTTAGCCTC
13241458 TCATTTTT
1 TCATTTTT
13241466 TCA-TTTT
1 TCATTTTT
13241473 TCA--TTT
1 TCATTTTT
13241479 TCATTTTT
1 TCATTTTT
13241487 TCATTTTT
1 TCATTTTT
13241495 TCAT
1 TCAT
13241499 ATCACTTCTT
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
6 6 0.19
7 7 0.23
8 18 0.58
ACGTcount: A:0.15, C:0.15, G:0.00, T:0.71
Consensus pattern (8 bp):
TCATTTTT
Found at i:13241474 original size:7 final size:7
Alignment explanation
Indices: 13241462--13241494 Score: 50
Period size: 7 Copynumber: 4.7 Consensus size: 7
13241452 AGCCTCTCAT
13241462 TTTTTCA
1 TTTTTCA
13241469 TTTTTCA
1 TTTTTCA
13241476 -TTTTCA
1 TTTTTCA
13241482 TTTTTTCA
1 -TTTTTCA
13241490 TTTTT
1 TTTTT
13241495 TCATATCACT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
6 6 0.25
7 12 0.50
8 6 0.25
ACGTcount: A:0.12, C:0.12, G:0.00, T:0.76
Consensus pattern (7 bp):
TTTTTCA
Found at i:13244344 original size:19 final size:19
Alignment explanation
Indices: 13244304--13244348 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
13244294 ACCGCTTTTT
* *
13244304 ATGCATATGATGTAATGTA
1 ATGCAAATGATGAAATGTA
13244323 ATGCAAATGCATGAAATG-A
1 ATGCAAATG-ATGAAATGTA
13244342 ATGCAAA
1 ATGCAAA
13244349 AAGAGACATT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
19 16 0.70
20 7 0.30
ACGTcount: A:0.44, C:0.09, G:0.20, T:0.27
Consensus pattern (19 bp):
ATGCAAATGATGAAATGTA
Found at i:13244392 original size:13 final size:13
Alignment explanation
Indices: 13244374--13244400 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
13244364 TGGTTCAATT
13244374 CTTCACTAGAAAA
1 CTTCACTAGAAAA
13244387 CTTCACTAGAAAA
1 CTTCACTAGAAAA
13244400 C
1 C
13244401 AAATCTCTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.44, C:0.26, G:0.07, T:0.22
Consensus pattern (13 bp):
CTTCACTAGAAAA
Found at i:13252441 original size:12 final size:11
Alignment explanation
Indices: 13252403--13252447 Score: 56
Period size: 11 Copynumber: 4.1 Consensus size: 11
13252393 ACGTTAGCGA
*
13252403 AAAAAATAAAT
1 AAAATATAAAT
*
13252414 TAAATATAAA-
1 AAAATATAAAT
13252424 AAAATATGAAAT
1 AAAATAT-AAAT
13252436 AAAATATAAAT
1 AAAATATAAAT
13252447 A
1 A
13252448 GAATGATTTA
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
10 6 0.21
11 16 0.55
12 7 0.24
ACGTcount: A:0.73, C:0.00, G:0.02, T:0.24
Consensus pattern (11 bp):
AAAATATAAAT
Found at i:13254472 original size:5 final size:5
Alignment explanation
Indices: 13254462--13254491 Score: 60
Period size: 5 Copynumber: 6.0 Consensus size: 5
13254452 AAAACTTTTA
13254462 CTCCC CTCCC CTCCC CTCCC CTCCC CTCCC
1 CTCCC CTCCC CTCCC CTCCC CTCCC CTCCC
13254492 AACCCCCCAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 25 1.00
ACGTcount: A:0.00, C:0.80, G:0.00, T:0.20
Consensus pattern (5 bp):
CTCCC
Found at i:13254497 original size:15 final size:15
Alignment explanation
Indices: 13254464--13254497 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
13254454 AACTTTTACT
**
13254464 CCCCTCCCCTCCCCT
1 CCCCTCCCCTCCCAA
13254479 CCCCTCCCCTCCCAA
1 CCCCTCCCCTCCCAA
13254494 CCCC
1 CCCC
13254498 CCAATCTACC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.06, C:0.79, G:0.00, T:0.15
Consensus pattern (15 bp):
CCCCTCCCCTCCCAA
Found at i:13267881 original size:82 final size:82
Alignment explanation
Indices: 13267778--13267935 Score: 196
Period size: 82 Copynumber: 1.9 Consensus size: 82
13267768 TACATATTAG
* * *
13267778 TTTGGAAACAAAACAATATCAAATAAAAT-ATTGTTAAACGGTGGGAATAAATCCCGAAACATAT
1 TTTGGAAACAAAACAATATCAAAT-AAATCATTATTAAACGGTGGAAATAAATCCCGAAACAGAT
* *
13267842 TTTATTTTATTTCTTGTT
65 TTAATTTAATTTCTTGTT
* * *
13267860 TTTGGCAAA-AAAATCAA-ATCAAATAAATCTTTATTAAGCGGTGGAAATAAATCCTGAAACAGA
1 TTTGG-AAACAAAA-CAATATCAAATAAATCATTATTAAACGGTGGAAATAAATCCCGAAACAGA
13267923 TTTAATTTAATTT
64 TTTAATTTAATTT
13267936 AATTTCTTAT
Statistics
Matches: 65, Mismatches: 8, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
81 4 0.06
82 55 0.85
83 6 0.09
ACGTcount: A:0.42, C:0.11, G:0.12, T:0.35
Consensus pattern (82 bp):
TTTGGAAACAAAACAATATCAAATAAATCATTATTAAACGGTGGAAATAAATCCCGAAACAGATT
TAATTTAATTTCTTGTT
Found at i:13272851 original size:22 final size:24
Alignment explanation
Indices: 13272825--13272868 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
13272815 GAAAAATATT
13272825 AAATAT-ATA-TTTTTTATTTTTA
1 AAATATAATAGTTTTTTATTTTTA
13272847 AAATATAATAGTTTTTTATTTT
1 AAATATAATAGTTTTTTATTTT
13272869 AAGTTTATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 6 0.30
23 3 0.15
24 11 0.55
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.61
Consensus pattern (24 bp):
AAATATAATAGTTTTTTATTTTTA
Found at i:13272984 original size:9 final size:9
Alignment explanation
Indices: 13272970--13272995 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
13272960 TTGTTACAAT
13272970 AATTAATAC
1 AATTAATAC
13272979 AATTAATAC
1 AATTAATAC
13272988 AATTAATA
1 AATTAATA
13272996 ATTTGATAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.58, C:0.08, G:0.00, T:0.35
Consensus pattern (9 bp):
AATTAATAC
Found at i:13273016 original size:68 final size:68
Alignment explanation
Indices: 13272938--13273147 Score: 370
Period size: 68 Copynumber: 3.1 Consensus size: 68
13272928 TCAAGTTTGT
* * *
13272938 TTTACTAATCAAATATTAGATTTTGTTACAATAATTAATACAATTAATACAATTAATAATTTGAT
1 TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAATACAATTAATAATTTGAT
13273003 AAA
66 AAA
13273006 TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAATACAATTAATAATTTGAT
1 TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAATACAATTAATAATTTGAT
13273071 AAA
66 AAA
13273074 TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATT-A-ACAATTAATAATTTGAT
1 TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAATACAATTAATAATTTGAT
*
13273137 AAT
66 AAA
13273140 TTTACTAA
1 TTTACTAA
13273148 CAATTAATTT
Statistics
Matches: 138, Mismatches: 4, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
66 27 0.20
67 1 0.01
68 110 0.80
ACGTcount: A:0.46, C:0.09, G:0.04, T:0.41
Consensus pattern (68 bp):
TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAATACAATTAATAATTTGAT
AAA
Found at i:13273048 original size:9 final size:9
Alignment explanation
Indices: 13273036--13273063 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
13273026 TTTTATTACA
13273036 ACAATTAAT
1 ACAATTAAT
13273045 ACAATTAAT
1 ACAATTAAT
13273054 ACAATTAAT
1 ACAATTAAT
13273063 A
1 A
13273064 ATTTGATAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.57, C:0.11, G:0.00, T:0.32
Consensus pattern (9 bp):
ACAATTAAT
Found at i:13273157 original size:16 final size:16
Alignment explanation
Indices: 13273136--13273177 Score: 66
Period size: 16 Copynumber: 2.6 Consensus size: 16
13273126 AATAATTTGA
*
13273136 TAATTTTACTAACAAT
1 TAATTTTAATAACAAT
13273152 TAATTTTAATAACAAT
1 TAATTTTAATAACAAT
*
13273168 TAGTTTTAAT
1 TAATTTTAAT
13273178 TTTATTAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.43, C:0.07, G:0.02, T:0.48
Consensus pattern (16 bp):
TAATTTTAATAACAAT
Found at i:13273161 original size:22 final size:23
Alignment explanation
Indices: 13273151--13273212 Score: 72
Period size: 23 Copynumber: 2.7 Consensus size: 23
13273141 TTACTAACAA
* * *
13273151 TTAATTTTAAT-AACAATTAGTT
1 TTAATTTTAATAAAAAAATAATT
*
13273173 TTAATTTTATTAAAAAAATAATT
1 TTAATTTTAATAAAAAAATAATT
*
13273196 TTAATTTTAATTAAAAA
1 TTAATTTTAATAAAAAA
13273213 CGGGCCGGGC
Statistics
Matches: 33, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
22 10 0.30
23 23 0.70
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (23 bp):
TTAATTTTAATAAAAAAATAATT
Found at i:13274267 original size:22 final size:22
Alignment explanation
Indices: 13274242--13274287 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 22
13274232 TTTTTTCTTC
* *
13274242 TTCTTTTTCCTTTTATTTAATT
1 TTCTTTCTCATTTTATTTAATT
* *
13274264 TTCTTTCTCATTTTCTTTATTT
1 TTCTTTCTCATTTTATTTAATT
13274286 TT
1 TT
13274288 TATTCTTCTT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.11, C:0.15, G:0.00, T:0.74
Consensus pattern (22 bp):
TTCTTTCTCATTTTATTTAATT
Found at i:13274268 original size:28 final size:28
Alignment explanation
Indices: 13274234--13274303 Score: 72
Period size: 28 Copynumber: 2.5 Consensus size: 28
13274224 TCTTGCATTT
13274234 TTTTCTTCTTCTTTTTCCTTT-TATTTAA
1 TTTTCTTCTTCTTTTT-CTTTATATTTAA
* * *
13274262 TTTTCTT-TCTCATTTTCTTTATTTTTTA
1 TTTTCTTCT-TCTTTTTCTTTATATTTAA
13274290 TTCTTCTTCTTCTT
1 TT-TTCTTCTTCTT
13274304 CTCCTCCTCC
Statistics
Matches: 34, Mismatches: 4, Indels: 7
0.76 0.09 0.16
Matches are distributed among these distances:
27 5 0.15
28 20 0.59
29 8 0.24
30 1 0.03
ACGTcount: A:0.09, C:0.19, G:0.00, T:0.73
Consensus pattern (28 bp):
TTTTCTTCTTCTTTTTCTTTATATTTAA
Found at i:13280943 original size:21 final size:21
Alignment explanation
Indices: 13280919--13281029 Score: 80
Period size: 21 Copynumber: 5.3 Consensus size: 21
13280909 TATAAGTTTT
*
13280919 CGTTCAGCTCTTTTAAGCTTC
1 CGTTCAGCTCTTTTGAGCTTC
* * * * *
13280940 CGTTTAACCCTTATGAGTTTC
1 CGTTCAGCTCTTTTGAGCTTC
13280961 CGTTCAGCTCTTTTGAGCTTC
1 CGTTCAGCTCTTTTGAGCTTC
* * * * * *
13280982 TGTTTAACCCTTTTTG-GTTTT
1 CGTTCAGCTC-TTTTGAGCTTC
*
13281003 CGTTCAGCTCTTATGAGCTTC
1 CGTTCAGCTCTTTTGAGCTTC
*
13281024 CATTCA
1 CGTTCA
13281030 ACCCTTATGG
Statistics
Matches: 63, Mismatches: 25, Indels: 4
0.68 0.27 0.04
Matches are distributed among these distances:
20 4 0.06
21 54 0.86
22 5 0.08
ACGTcount: A:0.14, C:0.25, G:0.15, T:0.45
Consensus pattern (21 bp):
CGTTCAGCTCTTTTGAGCTTC
Found at i:13281023 original size:84 final size:84
Alignment explanation
Indices: 13280891--13281044 Score: 218
Period size: 84 Copynumber: 1.8 Consensus size: 84
13280881 TAGCTCTCAC
* * * *
13280891 GAGCTTCTGTTTAACTCATATAAGTTTTCGTTCAGCTCTTTTAAGCTTCCGTTTAACCCTTATGA
1 GAGCTTCTGTTTAACCCATATAAGTTTTCGTTCAGCTCTTATAAGCTTCCATTCAACCCTTATGA
13280956 GTTTCCGTTCAGCTCTTTT
66 GTTTCCGTTCAGCTCTTTT
* * ** * *
13280975 GAGCTTCTGTTTAACCCTTTTTGGTTTTCGTTCAGCTCTTATGAGCTTCCATTCAACCCTTATGG
1 GAGCTTCTGTTTAACCCATATAAGTTTTCGTTCAGCTCTTATAAGCTTCCATTCAACCCTTATGA
13281040 GTTTC
66 GTTTC
13281045 TATTTAACGC
Statistics
Matches: 60, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
84 60 1.00
ACGTcount: A:0.16, C:0.23, G:0.16, T:0.45
Consensus pattern (84 bp):
GAGCTTCTGTTTAACCCATATAAGTTTTCGTTCAGCTCTTATAAGCTTCCATTCAACCCTTATGA
GTTTCCGTTCAGCTCTTTT
Found at i:13281036 original size:21 final size:21
Alignment explanation
Indices: 13281012--13281071 Score: 66
Period size: 21 Copynumber: 2.9 Consensus size: 21
13281002 TCGTTCAGCT
13281012 CTTATGAGCTTCCATTCAACC
1 CTTATGAGCTTCCATTCAACC
* * * * *
13281033 CTTATGGGTTTCTATTTAACG
1 CTTATGAGCTTCCATTCAACC
*
13281054 CTTATGTGCTTCCATTCA
1 CTTATGAGCTTCCATTCA
13281072 GTCTTCGGGC
Statistics
Matches: 30, Mismatches: 9, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.20, C:0.25, G:0.13, T:0.42
Consensus pattern (21 bp):
CTTATGAGCTTCCATTCAACC
Found at i:13281043 original size:42 final size:42
Alignment explanation
Indices: 13280891--13281043 Score: 180
Period size: 42 Copynumber: 3.6 Consensus size: 42
13280881 TAGCTCTCAC
* * * **
13280891 GAGCTTCTGTTTAACTCATATAAGTTTTCGTTCAGCTCTTTT
1 GAGCTTCCGTTTAACCCTTATGGGTTTTCGTTCAGCTCTTTT
* * *
13280933 AAGCTTCCGTTTAACCCTTATGAGTTTCCGTTCAGCTCTTTT
1 GAGCTTCCGTTTAACCCTTATGGGTTTTCGTTCAGCTCTTTT
* * * *
13280975 GAGCTTCTGTTTAACCCTTTTTGGTTTTCGTTCAGCTCTTAT
1 GAGCTTCCGTTTAACCCTTATGGGTTTTCGTTCAGCTCTTTT
* *
13281017 GAGCTTCCATTCAACCCTTATGGGTTT
1 GAGCTTCCGTTTAACCCTTATGGGTTT
13281044 CTATTTAACG
Statistics
Matches: 93, Mismatches: 18, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
42 93 1.00
ACGTcount: A:0.16, C:0.23, G:0.16, T:0.45
Consensus pattern (42 bp):
GAGCTTCCGTTTAACCCTTATGGGTTTTCGTTCAGCTCTTTT
Found at i:13288269 original size:42 final size:42
Alignment explanation
Indices: 13288096--13288283 Score: 150
Period size: 42 Copynumber: 4.5 Consensus size: 42
13288086 GTTTACTTTC
* * *
13288096 CGTTTAGCTCTCACGAGCTTCTGTTTAACTCA-TATAAGTTTT
1 CGTTTAGCTCTTATGAGCTTCTGTTTAAC-CATTATAGGTTTT
* * * * *
13288138 CGTTCAGCTATTTTGAGCTT-TCGTTTAACCCTTA-CGAG-TTT
1 CGTTTAGCTCTTATGAGCTTCT-GTTTAACCATTATAG-GTTTT
* * * * * *
13288179 CTGTTCAGCTCTTTTAAGCTTCTGTTTAACCCTTTTTGGTTTT
1 C-GTTTAGCTCTTATGAGCTTCTGTTTAACCATTATAGGTTTT
*
13288222 CGTTTAGCTCTTATGAGCTTCTGTTCAACCATTATAGGTTTT
1 CGTTTAGCTCTTATGAGCTTCTGTTTAACCATTATAGGTTTT
* * *
13288264 TGTTTAGCACTTATGTGCTT
1 CGTTTAGCTCTTATGAGCTT
13288284 TCGTTCAGCC
Statistics
Matches: 117, Mismatches: 22, Indels: 14
0.76 0.14 0.09
Matches are distributed among these distances:
41 6 0.05
42 105 0.90
43 6 0.05
ACGTcount: A:0.17, C:0.20, G:0.16, T:0.47
Consensus pattern (42 bp):
CGTTTAGCTCTTATGAGCTTCTGTTTAACCATTATAGGTTTT
Found at i:13290510 original size:27 final size:27
Alignment explanation
Indices: 13290480--13290531 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 27
13290470 ACCGTCTCGA
* *
13290480 TGGACCATCTTGTGTTTAGTGTCCCAT
1 TGGACCATCTCGTGTTTACTGTCCCAT
*
13290507 TGGACTATCTCGTGTTTACTGTCCC
1 TGGACCATCTCGTGTTTACTGTCCC
13290532 GGCGGACTAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.13, C:0.25, G:0.21, T:0.40
Consensus pattern (27 bp):
TGGACCATCTCGTGTTTACTGTCCCAT
Found at i:13290538 original size:27 final size:27
Alignment explanation
Indices: 13290481--13290543 Score: 72
Period size: 27 Copynumber: 2.3 Consensus size: 27
13290471 CCGTCTCGAT
* * * **
13290481 GGACCATCTTGTGTTTAGTGTCCCATT
1 GGACTATCTCGTGTTTACTGTCCCAGC
*
13290508 GGACTATCTCGTGTTTACTGTCCCGGC
1 GGACTATCTCGTGTTTACTGTCCCAGC
13290535 GGACTATCT
1 GGACTATCT
13290544 ATGATGTCGT
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.14, C:0.25, G:0.24, T:0.37
Consensus pattern (27 bp):
GGACTATCTCGTGTTTACTGTCCCAGC
Found at i:13290710 original size:45 final size:45
Alignment explanation
Indices: 13290641--13290727 Score: 120
Period size: 45 Copynumber: 1.9 Consensus size: 45
13290631 GTCTTTCAGC
* * *
13290641 TATCATGATGCCATAGCGTATTTCAGTTATGGCCTTACTCATCCT
1 TATCATGATGCCATAACATATTTCAATTATGGCCTTACTCATCCT
* * *
13290686 TATCATGATGTCATAACATCTTTCAATTATGGTCTTACTCAT
1 TATCATGATGCCATAACATATTTCAATTATGGCCTTACTCAT
13290728 TTTAGGCATA
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
45 36 1.00
ACGTcount: A:0.25, C:0.22, G:0.13, T:0.40
Consensus pattern (45 bp):
TATCATGATGCCATAACATATTTCAATTATGGCCTTACTCATCCT
Found at i:13293147 original size:14 final size:14
Alignment explanation
Indices: 13293128--13293157 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
13293118 ATTAAATTAA
13293128 ATTTTTAAAAAAAT
1 ATTTTTAAAAAAAT
*
13293142 ATTTTTAAAAATAT
1 ATTTTTAAAAAAAT
13293156 AT
1 AT
13293158 ACCAAAATTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (14 bp):
ATTTTTAAAAAAAT
Found at i:13294697 original size:28 final size:28
Alignment explanation
Indices: 13294665--13294722 Score: 116
Period size: 28 Copynumber: 2.1 Consensus size: 28
13294655 TGAAAACTAA
13294665 GTCCTTTTCATGTAATTTTTATAGATTT
1 GTCCTTTTCATGTAATTTTTATAGATTT
13294693 GTCCTTTTCATGTAATTTTTATAGATTT
1 GTCCTTTTCATGTAATTTTTATAGATTT
13294721 GT
1 GT
13294723 GATCATGGAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.21, C:0.10, G:0.12, T:0.57
Consensus pattern (28 bp):
GTCCTTTTCATGTAATTTTTATAGATTT
Found at i:13300076 original size:21 final size:21
Alignment explanation
Indices: 13300037--13300078 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
13300027 TTTTCTTAGG
*
13300037 ATGTGAATTGGATGGAATTGA
1 ATGTGAATTGGATGAAATTGA
* *
13300058 ATGTGAATTGTATTAAATTGA
1 ATGTGAATTGGATGAAATTGA
13300079 GTTAAATTCA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.36, C:0.00, G:0.26, T:0.38
Consensus pattern (21 bp):
ATGTGAATTGGATGAAATTGA
Found at i:13301248 original size:15 final size:15
Alignment explanation
Indices: 13301223--13301257 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
13301213 GACTCTATTT
*
13301223 TAATT-ATATTAGGA
1 TAATTAATATTAAGA
13301237 TAATTAATATTAAGA
1 TAATTAATATTAAGA
13301252 TAATTA
1 TAATTA
13301258 TTAATGATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 5 0.26
15 14 0.74
ACGTcount: A:0.49, C:0.00, G:0.09, T:0.43
Consensus pattern (15 bp):
TAATTAATATTAAGA
Found at i:13302814 original size:18 final size:18
Alignment explanation
Indices: 13302793--13302827 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
13302783 ATAAAAAAAT
*
13302793 AAATATGTATATATATAA
1 AAATATGTACATATATAA
13302811 AAATATGTACATATATA
1 AAATATGTACATATATA
13302828 TATAGGTGTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.54, C:0.03, G:0.06, T:0.37
Consensus pattern (18 bp):
AAATATGTACATATATAA
Found at i:13303082 original size:36 final size:37
Alignment explanation
Indices: 13303042--13303123 Score: 98
Period size: 36 Copynumber: 2.2 Consensus size: 37
13303032 ATATAAATAC
*
13303042 ATATATATACT-TATAAAAATAA-AAATAT-GTATATGT
1 ATATATATA-TATATAAAAA-AAGAAATATAGTATACGT
*
13303078 ATATAGATATATATAAAAAAAGAAATATGAGTATACGT
1 ATATATATATATATAAAAAAAGAAATAT-AGTATACGT
13303116 ATATATAT
1 ATATATAT
13303124 TAAACAAATT
Statistics
Matches: 39, Mismatches: 3, Indels: 6
0.81 0.06 0.12
Matches are distributed among these distances:
35 3 0.08
36 22 0.56
38 14 0.36
ACGTcount: A:0.54, C:0.02, G:0.09, T:0.35
Consensus pattern (37 bp):
ATATATATATATATAAAAAAAGAAATATAGTATACGT
Found at i:13303267 original size:3 final size:3
Alignment explanation
Indices: 13303256--13303308 Score: 52
Period size: 3 Copynumber: 17.3 Consensus size: 3
13303246 CAATAATACC
* * * *
13303256 AAT ACT AAT AAT AGT AAG GAT AAT AAT AAT AAT AAT AAT AAT AGAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A-AT
*
13303302 GAT AAT A
1 AAT AAT A
13303309 CATTAAATTA
Statistics
Matches: 39, Mismatches: 10, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
3 37 0.95
4 2 0.05
ACGTcount: A:0.58, C:0.02, G:0.09, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:13309886 original size:4 final size:4
Alignment explanation
Indices: 13309877--13309941 Score: 62
Period size: 4 Copynumber: 15.5 Consensus size: 4
13309867 CAACCCAATT
*
13309877 TTTA TTTA TTTA TTTA TTTA TTTTC TTTA CTTTA TTTA -TTA CTTTA TTTTA
1 TTTA TTTA TTTA TTTA TTTA -TTTA TTTA -TTTA TTTA TTTA -TTTA -TTTA
13309928 TTT- TATTA TTTA TT
1 TTTA T-TTA TTTA TT
13309942 ACTTATTTGG
Statistics
Matches: 52, Mismatches: 3, Indels: 12
0.78 0.04 0.18
Matches are distributed among these distances:
3 4 0.08
4 33 0.63
5 15 0.29
ACGTcount: A:0.22, C:0.05, G:0.00, T:0.74
Consensus pattern (4 bp):
TTTA
Found at i:13310982 original size:23 final size:23
Alignment explanation
Indices: 13310956--13311022 Score: 66
Period size: 23 Copynumber: 2.8 Consensus size: 23
13310946 AGTATATCCC
*
13310956 TAAAGCATAAAAAATATAAATAA
1 TAAAGCAAAAAAAATATAAATAA
*
13310979 TAAATCAAAATCAAAATAAATAAATAA
1 TAAAGCAAAA--AAAAT--ATAAATAA
13311006 -AAAG-AAAAAAAATATAA
1 TAAAGCAAAAAAAATATAA
13311023 TTTGGGGACT
Statistics
Matches: 37, Mismatches: 3, Indels: 10
0.74 0.06 0.20
Matches are distributed among these distances:
21 4 0.11
23 13 0.35
25 9 0.24
26 3 0.08
27 8 0.22
ACGTcount: A:0.73, C:0.04, G:0.03, T:0.19
Consensus pattern (23 bp):
TAAAGCAAAAAAAATATAAATAA
Found at i:13311013 original size:19 final size:20
Alignment explanation
Indices: 13310973--13311019 Score: 53
Period size: 19 Copynumber: 2.5 Consensus size: 20
13310963 TAAAAAATAT
*
13310973 AAAT-AATAAATCAAAATCA
1 AAATAAATAAATCAAAAACA
*
13310992 AAATAAATAAAT-AAAAAGA
1 AAATAAATAAATCAAAAACA
*
13311011 AAAAAAATA
1 AAATAAATA
13311020 TAATTTGGGG
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
19 17 0.71
20 7 0.29
ACGTcount: A:0.77, C:0.04, G:0.02, T:0.17
Consensus pattern (20 bp):
AAATAAATAAATCAAAAACA
Found at i:13311014 original size:20 final size:20
Alignment explanation
Indices: 13310973--13311019 Score: 53
Period size: 20 Copynumber: 2.5 Consensus size: 20
13310963 TAAAAAATAT
* **
13310973 AAAT-AATAAATCAAAATCA
1 AAATAAATAAATAAAAAGAA
13310992 AAATAAATAAATAAAAAGAA
1 AAATAAATAAATAAAAAGAA
13311012 AAA-AAATA
1 AAATAAATA
13311020 TAATTTGGGG
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
19 9 0.38
20 15 0.62
ACGTcount: A:0.77, C:0.04, G:0.02, T:0.17
Consensus pattern (20 bp):
AAATAAATAAATAAAAAGAA
Found at i:13312637 original size:23 final size:22
Alignment explanation
Indices: 13312605--13312666 Score: 79
Period size: 22 Copynumber: 2.7 Consensus size: 22
13312595 CCCGGCCCGT
* *
13312605 TTTTTAATTAAAATTATAATTATA
1 TTTTT-ATTAAAATTAAAACTA-A
13312629 TTTTTATTAAAATTAAAACTAA
1 TTTTTATTAAAATTAAAACTAA
*
13312651 TTGTTATTAAAATTAA
1 TTTTTATTAAAATTAA
13312667 TTGTTATCAA
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
22 16 0.46
23 14 0.40
24 5 0.14
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.50
Consensus pattern (22 bp):
TTTTTATTAAAATTAAAACTAA
Found at i:13312661 original size:16 final size:16
Alignment explanation
Indices: 13312640--13312692 Score: 88
Period size: 16 Copynumber: 3.3 Consensus size: 16
13312630 TTTTATTAAA
*
13312640 ATTAAAACTAATTGTT
1 ATTAAAATTAATTGTT
13312656 ATTAAAATTAATTGTT
1 ATTAAAATTAATTGTT
*
13312672 ATCAAAATTAATTGTT
1 ATTAAAATTAATTGTT
13312688 ATTAA
1 ATTAA
13312693 CATTGTATCA
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 34 1.00
ACGTcount: A:0.45, C:0.04, G:0.06, T:0.45
Consensus pattern (16 bp):
ATTAAAATTAATTGTT
Found at i:13312841 original size:93 final size:93
Alignment explanation
Indices: 13312742--13313018 Score: 536
Period size: 93 Copynumber: 3.0 Consensus size: 93
13312732 TTTATAAAAT
13312742 CTAACATTTTGTTAGTAAAATTATTAATTGTTAATTGTATTAATTGTTAATAAAATTATCAAATT
1 CTAACATTTTGTTAGTAAAATTATTAATTGTTAATTGTATTAATTGTTAATAAAATTATCAAATT
13312807 ATATCAAATTATTAATTATTAATTGTTA
66 ATATCAAATTATTAATTATTAATTGTTA
13312835 CTAACATTTTGTTAGTAAAATTATTAATTGTTAATTGTATTAATTGTTAATAAAATTATCAAATT
1 CTAACATTTTGTTAGTAAAATTATTAATTGTTAATTGTATTAATTGTTAATAAAATTATCAAATT
13312900 ATATCAAATTATTAATTATTAATTGTTA
66 ATATCAAATTATTAATTATTAATTGTTA
*
13312928 CTAACATTTTGTTAGTAAAATTATTAATTGTTAATTGTATTAATTGTTAGTAAAATTATCAAATT
1 CTAACATTTTGTTAGTAAAATTATTAATTGTTAATTGTATTAATTGTTAATAAAATTATCAAATT
*
13312993 ATATCAAATTATTAATTGTTAATTGT
66 ATATCAAATTATTAATTATTAATTGT
13313019 ATTAATTGTT
Statistics
Matches: 182, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
93 182 1.00
ACGTcount: A:0.40, C:0.04, G:0.07, T:0.48
Consensus pattern (93 bp):
CTAACATTTTGTTAGTAAAATTATTAATTGTTAATTGTATTAATTGTTAATAAAATTATCAAATT
ATATCAAATTATTAATTATTAATTGTTA
Found at i:13312860 original size:33 final size:33
Alignment explanation
Indices: 13312820--13312960 Score: 109
Period size: 33 Copynumber: 4.5 Consensus size: 33
13312810 TCAAATTATT
13312820 AATTATTAATTGTTACTAACATTTTGTTAGTAA
1 AATTATTAATTGTTACTAACATTTTGTTAGTAA
* *** *
13312853 AATTATTAATTGTTAATTGTATTAATTGTTAATAA
1 AATTATTAATTGTTACTAACATT--TTGTTAGTAA
* * * ** *
13312888 AATTATCAA--ATTA-TATCA---AATTA-T-T
1 AATTATTAATTGTTACTAACATTTTGTTAGTAA
13312913 AATTATTAATTGTTACTAACATTTTGTTAGTAA
1 AATTATTAATTGTTACTAACATTTTGTTAGTAA
13312946 AATTATTAATTGTTA
1 AATTATTAATTGTTA
13312961 ATTGTATTAA
Statistics
Matches: 79, Mismatches: 19, Indels: 20
0.67 0.16 0.17
Matches are distributed among these distances:
25 8 0.10
26 1 0.01
27 6 0.08
28 4 0.05
31 3 0.04
32 3 0.04
33 37 0.47
35 17 0.22
ACGTcount: A:0.40, C:0.04, G:0.07, T:0.49
Consensus pattern (33 bp):
AATTATTAATTGTTACTAACATTTTGTTAGTAA
Found at i:13313075 original size:10 final size:10
Alignment explanation
Indices: 13313060--13313085 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
13313050 TTAGTAAAAT
13313060 TATCAAATTA
1 TATCAAATTA
13313070 TATCAAATTA
1 TATCAAATTA
13313080 TATCAA
1 TATCAA
13313086 GTTTACCTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.50, C:0.12, G:0.00, T:0.38
Consensus pattern (10 bp):
TATCAAATTA
Found at i:13315470 original size:43 final size:43
Alignment explanation
Indices: 13315419--13315624 Score: 245
Period size: 43 Copynumber: 4.8 Consensus size: 43
13315409 TACTAAAGGC
* * * *
13315419 CATGACCTTTAGCGGCCCCTTTCCCACAAATGCCGCTAAAGAT
1 CATGACCTTTAGCGGCGCTTTTTCCACAAATGCCGCTATAGAT
* * * *
13315462 CATGACCTTTAGCGGCGC-TTATCAAAAAAACGCCGCTATAGAT
1 CATGACCTTTAGCGGCGCTTTTTC-CACAAATGCCGCTATAGAT
*
13315505 CATGACTTTTAGCGGCGCTTTTTCCACAAATGCCGCTATAGAT
1 CATGACCTTTAGCGGCGCTTTTTCCACAAATGCCGCTATAGAT
* ** *
13315548 CTTGACCTTTAGCGGCGCTTTTTGAACAAACT-CCGCTACAGAT
1 CATGACCTTTAGCGGCGCTTTTTCCACAAA-TGCCGCTATAGAT
* *
13315591 CATGACTTTTAGCGGCGCTTTTTTCACAAATGCC
1 CATGACCTTTAGCGGCGCTTTTTCCACAAATGCC
13315625 TCTGAAACAT
Statistics
Matches: 138, Mismatches: 21, Indels: 8
0.83 0.13 0.05
Matches are distributed among these distances:
42 4 0.03
43 129 0.93
44 5 0.04
ACGTcount: A:0.25, C:0.28, G:0.18, T:0.29
Consensus pattern (43 bp):
CATGACCTTTAGCGGCGCTTTTTCCACAAATGCCGCTATAGAT
Found at i:13315535 original size:86 final size:86
Alignment explanation
Indices: 13315419--13315624 Score: 295
Period size: 86 Copynumber: 2.4 Consensus size: 86
13315409 TACTAAAGGC
* * * *
13315419 CATGACCTTTAGCGGCCCCTTTCCCACAAATGCCGCTAAAGATCATGACCTTTAGCGGCGCTTAT
1 CATGACTTTTAGCGGCGCTTTTTCCACAAATGCCGCTAAAGATCATGACCTTTAGCGGCGCTTAT
*
13315484 CAAAAAAACGCCGCTATAGAT
66 CAAAAAAACGCCGCTACAGAT
* * *
13315505 CATGACTTTTAGCGGCGCTTTTTCCACAAATGCCGCTATAGATCTTGACCTTTAGCGGCGCTTTT
1 CATGACTTTTAGCGGCGCTTTTTCCACAAATGCCGCTAAAGATCATGACCTTTAGCGGCGCTTAT
** * *
13315570 TGAACAAACTCCGCTACAGAT
66 CAAAAAAACGCCGCTACAGAT
*
13315591 CATGACTTTTAGCGGCGCTTTTTTCACAAATGCC
1 CATGACTTTTAGCGGCGCTTTTTCCACAAATGCC
13315625 TCTGAAACAT
Statistics
Matches: 107, Mismatches: 13, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
86 107 1.00
ACGTcount: A:0.25, C:0.28, G:0.18, T:0.29
Consensus pattern (86 bp):
CATGACTTTTAGCGGCGCTTTTTCCACAAATGCCGCTAAAGATCATGACCTTTAGCGGCGCTTAT
CAAAAAAACGCCGCTACAGAT
Found at i:13317748 original size:9 final size:9
Alignment explanation
Indices: 13317731--13317923 Score: 176
Period size: 9 Copynumber: 22.8 Consensus size: 9
13317721 CATGTATTAA
*
13317731 GTAAATTAT
1 GTAAGTTAT
13317740 GTAAGTTAT
1 GTAAGTTAT
*
13317749 GT--CTTAT
1 GTAAGTTAT
*
13317756 ATAAGTTAT
1 GTAAGTTAT
13317765 GTAAGTTAT
1 GTAAGTTAT
13317774 GT-A-TTAT
1 GTAAGTTAT
*
13317781 GTATGTTAT
1 GTAAGTTAT
*
13317790 GTAAGTTGT
1 GTAAGTTAT
*
13317799 GT-A-TGAT
1 GTAAGTTAT
*
13317806 GTATGTTAT
1 GTAAGTTAT
*
13317815 GTAAGTTGT
1 GTAAGTTAT
*
13317824 GT-AG-AAT
1 GTAAGTTAT
*
13317831 GTAAGCTAT
1 GTAAGTTAT
13317840 GTAAGTTAT
1 GTAAGTTAT
13317849 GTAAGTTAT
1 GTAAGTTAT
*
13317858 GTAAGTTGT
1 GTAAGTTAT
*
13317867 GT-A-TAAT
1 GTAAGTTAT
13317874 GTAAGTTAT
1 GTAAGTTAT
*
13317883 GAAAGTTAT
1 GTAAGTTAT
13317892 GT-A-TTAT
1 GTAAGTTAT
13317899 GTAAGTTAT
1 GTAAGTTAT
*
13317908 TTAAGTTAT
1 GTAAGTTAT
13317917 GTAAGTT
1 GTAAGTT
13317924 GTTGAAGTCT
Statistics
Matches: 146, Mismatches: 26, Indels: 24
0.74 0.13 0.12
Matches are distributed among these distances:
7 28 0.19
8 10 0.07
9 108 0.74
ACGTcount: A:0.32, C:0.01, G:0.22, T:0.46
Consensus pattern (9 bp):
GTAAGTTAT
Found at i:13317755 original size:16 final size:16
Alignment explanation
Indices: 13317736--13317766 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
13317726 ATTAAGTAAA
*
13317736 TTATGTAAGTTATGTC
1 TTATATAAGTTATGTC
13317752 TTATATAAGTTATGT
1 TTATATAAGTTATGT
13317767 AAGTTATGTA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.29, C:0.03, G:0.16, T:0.52
Consensus pattern (16 bp):
TTATATAAGTTATGTC
Found at i:13317764 original size:25 final size:25
Alignment explanation
Indices: 13317722--13317923 Score: 178
Period size: 25 Copynumber: 8.0 Consensus size: 25
13317712 ATATATATTC
* *
13317722 ATGTATTAAGTAAATTATGTAAGTT
1 ATGTATTATGTAAGTTATGTAAGTT
* *
13317747 ATGTCTTATATAAGTTATGTAAGTT
1 ATGTATTATGTAAGTTATGTAAGTT
*
13317772 ATGTATTATGTATGTTATGTAAGTT
1 ATGTATTATGTAAGTTATGTAAGTT
* * *
13317797 GTGTATGATGTATGTTATGTAAGTT
1 ATGTATTATGTAAGTTATGTAAGTT
* ** *
13317822 GTGTAGAATGTAAGCTATGTAAGTT
1 ATGTATTATGTAAGTTATGTAAGTT
* *
13317847 ATGTAAGTTATGTAAGTTGTGT-A-TA
1 ATGT-A-TTATGTAAGTTATGTAAGTT
*
13317872 ATGTAAGTTATGAAAGTTATGT-A-TT
1 ATGT-A-TTATGTAAGTTATGTAAGTT
*
13317897 ATGTAAGTTATTTAAGTTATGTAAGTT
1 ATGT-A-TTATGTAAGTTATGTAAGTT
13317924 GTTGAAGTCT
Statistics
Matches: 149, Mismatches: 24, Indels: 6
0.83 0.13 0.03
Matches are distributed among these distances:
25 133 0.89
26 3 0.02
27 13 0.09
ACGTcount: A:0.32, C:0.01, G:0.21, T:0.46
Consensus pattern (25 bp):
ATGTATTATGTAAGTTATGTAAGTT
Found at i:13317795 original size:34 final size:35
Alignment explanation
Indices: 13317691--13317919 Score: 126
Period size: 34 Copynumber: 6.7 Consensus size: 35
13317681 AGTATAAATG
* * *
13317691 AGTTATGTAAGTTATGATATGATATATAT-TCATGT-
1 AGTTATGTAAGTTATG-TA-GTTATGTATGTTATGTA
* * * *
13317726 A-TTAAGTAAATTATGTAAGTTATG--TCTTATATA
1 AGTTATGTAAGTTATGT-AGTTATGTATGTTATGTA
13317759 AGTTATGTAAGTTATGTA-TTATGTATGTTATGTA
1 AGTTATGTAAGTTATGTAGTTATGTATGTTATGTA
* * * *
13317793 AGTTGTGT-A-TGATGTATGTTATGTAAGTTGTGT-
1 AGTTATGTAAGTTATGTA-GTTATGTATGTTATGTA
* * *
13317826 AG-AATGTAAGCTATGTAAGTTATGTAAGTTATGTA
1 AGTTATGTAAGTTATGT-AGTTATGTATGTTATGTA
* * * *
13317861 AGTTGTGT-A-TAATGTAAGTTATGAAAGTTATGT-
1 AGTTATGTAAGTTATGT-AGTTATGTATGTTATGTA
*
13317894 A-TTATGTAAGTTATTTAAGTTATGTA
1 AGTTATGTAAGTTATGT-AGTTATGTA
13317920 AGTTGTTGAA
Statistics
Matches: 151, Mismatches: 28, Indels: 31
0.72 0.13 0.15
Matches are distributed among these distances:
31 1 0.01
32 23 0.15
33 13 0.09
34 106 0.70
35 5 0.03
36 3 0.02
ACGTcount: A:0.33, C:0.01, G:0.21, T:0.45
Consensus pattern (35 bp):
AGTTATGTAAGTTATGTAGTTATGTATGTTATGTA
Found at i:13317923 original size:34 final size:34
Alignment explanation
Indices: 13317731--13317923 Score: 151
Period size: 34 Copynumber: 5.5 Consensus size: 34
13317721 CATGTATTAA
* * *
13317731 GTAAATTATGTAAGTTATGTCTTATATAAGTTAT
1 GTAAGTTATGTAAGTTATGTATTATGTAAGTTAT
13317765 GTAAGTTATGT-A-TTATGTATGTTATGTAAGTTGTGTATGAT
1 GTAAGTTATGTAAGTTATGTA--TTATGTAA-----GT-T-AT
* * ** *
13317806 GTATGTTATGTAAGTTGTGTAGAATGTAAGCTAT
1 GTAAGTTATGTAAGTTATGTATTATGTAAGTTAT
* *
13317840 GTAAGTTATGTAAGTTATGTAAGTTGTGT-A-TAAT
1 GTAAGTTATGTAAGTTATGT-A-TTATGTAAGTTAT
*
13317874 GTAAGTTATGAAAGTTATGTATTATGTAAGTTAT
1 GTAAGTTATGTAAGTTATGTATTATGTAAGTTAT
*
13317908 TTAAGTTATGTAAGTT
1 GTAAGTTATGTAAGTT
13317924 GTTGAAGTCT
Statistics
Matches: 124, Mismatches: 20, Indels: 30
0.71 0.11 0.17
Matches are distributed among these distances:
32 11 0.09
33 3 0.02
34 75 0.60
35 3 0.02
36 4 0.03
39 2 0.02
40 1 0.01
41 18 0.15
42 1 0.01
43 6 0.05
ACGTcount: A:0.32, C:0.01, G:0.22, T:0.46
Consensus pattern (34 bp):
GTAAGTTATGTAAGTTATGTATTATGTAAGTTAT
Found at i:13318187 original size:21 final size:21
Alignment explanation
Indices: 13318163--13318239 Score: 75
Period size: 21 Copynumber: 3.5 Consensus size: 21
13318153 TAAGTTGTTT
13318163 ATTATGAAATTTGATCTTTAA
1 ATTATGAAATTTGATCTTTAA
*
13318184 ATTATGTAAGTTATGTAT-TTGTAA
1 ATTATG-AAATT-TG-ATCTT-TAA
* *
13318208 GTTATGAAATTTGATCTTTAT
1 ATTATGAAATTTGATCTTTAA
*
13318229 ATTATGTAATT
1 ATTATGAAATT
13318240 GATGTATTAT
Statistics
Matches: 45, Mismatches: 6, Indels: 10
0.74 0.10 0.16
Matches are distributed among these distances:
21 19 0.42
22 8 0.18
23 8 0.18
24 10 0.22
ACGTcount: A:0.34, C:0.03, G:0.13, T:0.51
Consensus pattern (21 bp):
ATTATGAAATTTGATCTTTAA
Found at i:13318190 original size:62 final size:63
Alignment explanation
Indices: 13318025--13318218 Score: 245
Period size: 64 Copynumber: 3.1 Consensus size: 63
13318015 TTATGTATTA
* **
13318025 TGTAAATTGTTTATTATAAAATTTGATCTTTAAATTATTTAAGTTATGTATTATGTAAAAT-C
1 TGTAAATTGTTTATTATAAAATTTGATCTTTAAATTATGTAAGTTATGTATTATGTAAGTTAC
* * * * *
13318087 TTTAAATTATGTAAGTTATAAAATTTGATATTTAAATTATGTAACTTATGTATTATGTAAGTTAC
1 TGTAAATTGT-TTA-TTATAAAATTTGATCTTTAAATTATGTAAGTTATGTATTATGTAAGTTAC
* *
13318152 -GTAAGTTGTTTATTATGAAATTTGATCTTTAAATTATGTAAGTTATGTATT-TGTAAGTTA-
1 TGTAAATTGTTTATTATAAAATTTGATCTTTAAATTATGTAAGTTATGTATTATGTAAGTTAC
13318212 TG-AAATT
1 TGTAAATT
13318219 TGATCTTTAT
Statistics
Matches: 112, Mismatches: 16, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
60 4 0.04
61 10 0.09
62 44 0.39
63 4 0.04
64 49 0.44
65 1 0.01
ACGTcount: A:0.36, C:0.03, G:0.12, T:0.49
Consensus pattern (63 bp):
TGTAAATTGTTTATTATAAAATTTGATCTTTAAATTATGTAAGTTATGTATTATGTAAGTTAC
Found at i:13318221 original size:45 final size:45
Alignment explanation
Indices: 13318138--13318259 Score: 158
Period size: 45 Copynumber: 2.7 Consensus size: 45
13318128 TAACTTATGT
* * *
13318138 ATTATGTAAGTTACGTAAGTTGTTTA-TTATGAAATTTGATCTTTAA
1 ATTATGTAAGTTATGT-ATTTG-TAAGTTATGAAATTTGATCTTTAA
*
13318184 ATTATGTAAGTTATGTATTTGTAAGTTATGAAATTTGATCTTTAT
1 ATTATGTAAGTTATGTATTTGTAAGTTATGAAATTTGATCTTTAA
13318229 ATTATGTAA-TTGATGTATTATGTAAGTTATG
1 ATTATGTAAGTT-ATGTATT-TGTAAGTTATG
13318260 TAAGAACATG
Statistics
Matches: 69, Mismatches: 4, Indels: 6
0.87 0.05 0.08
Matches are distributed among these distances:
44 4 0.06
45 39 0.57
46 26 0.38
ACGTcount: A:0.32, C:0.02, G:0.16, T:0.49
Consensus pattern (45 bp):
ATTATGTAAGTTATGTATTTGTAAGTTATGAAATTTGATCTTTAA
Found at i:13318260 original size:16 final size:16
Alignment explanation
Indices: 13318184--13318261 Score: 67
Period size: 16 Copynumber: 5.1 Consensus size: 16
13318174 TGATCTTTAA
13318184 ATTATGTAAGTTATGT
1 ATTATGTAAGTTATGT
*
13318200 ATT-TGTAAGTTATGAA
1 ATTATGTAAGTTATG-T
** *
13318216 ATT-TG-ATCTT-TAT
1 ATTATGTAAGTTATGT
13318229 ATTATGTAA-TTGATGT
1 ATTATGTAAGTT-ATGT
13318245 ATTATGTAAGTTATGT
1 ATTATGTAAGTTATGT
13318261 A
1 A
13318262 AGAACATGAT
Statistics
Matches: 49, Mismatches: 7, Indels: 12
0.72 0.10 0.18
Matches are distributed among these distances:
13 3 0.06
14 5 0.10
15 15 0.31
16 24 0.49
17 2 0.04
ACGTcount: A:0.32, C:0.01, G:0.17, T:0.50
Consensus pattern (16 bp):
ATTATGTAAGTTATGT
Found at i:13318300 original size:9 final size:9
Alignment explanation
Indices: 13318286--13318561 Score: 115
Period size: 9 Copynumber: 30.6 Consensus size: 9
13318276 GATCTTTAAC
*
13318286 TTATGTACG
1 TTATGTAAG
13318295 TTATGT-A-
1 TTATGTAAG
13318302 TTATGTAAG
1 TTATGTAAG
* *
13318311 TTATGCAAA
1 TTATGTAAG
13318320 TTATGTAAG
1 TTATGTAAG
13318329 TTATGTAAG
1 TTATGTAAG
**
13318338 AAATGTAAG
1 TTATGTAAG
*
13318347 TTATG-ATAT
1 TTATGTA-AG
* *
13318356 TTGATCTTTAAC
1 TT-A--TGTAAG
* *
13318368 TTATATACG
1 TTATGTAAG
13318377 TTATGT-A-
1 TTATGTAAG
13318384 TTATGTAAG
1 TTATGTAAG
* * *
13318393 TTCTTTAAA
1 TTATGTAAG
13318402 TTATGTAAG
1 TTATGTAAG
*
13318411 TTATGAAATTTG
1 TTATGTAA---G
* * * *
13318423 CTCTTTAAA
1 TTATGTAAG
13318432 TTATGTAA-
1 TTATGTAAG
13318440 TTAATGT-A-
1 TT-ATGTAAG
13318448 TTATGTAAG
1 TTATGTAAG
*
13318457 TTATGTAAA
1 TTATGTAAG
*
13318466 TTGTGTAAG
1 TTATGTAAG
13318475 TTATGTAAG
1 TTATGTAAG
**
13318484 AAATGTAAG
1 TTATGTAAG
*
13318493 TTATG-ATAT
1 TTATGTA-AG
* *
13318502 TTGATCTTTAAA
1 TT-A--TGTAAG
*
13318514 TTATGTACG
1 TTATGTAAG
13318523 TTATGT-A-
1 TTATGTAAG
13318530 TTATGTAAG
1 TTATGTAAG
*
13318539 TTATGTAAA
1 TTATGTAAG
*
13318548 TTACGTAAG
1 TTATGTAAG
13318557 TTATG
1 TTATG
13318562 AAATTTACTG
Statistics
Matches: 194, Mismatches: 51, Indels: 44
0.67 0.18 0.15
Matches are distributed among these distances:
7 22 0.11
8 11 0.06
9 142 0.73
10 2 0.01
11 2 0.01
12 13 0.07
13 2 0.01
ACGTcount: A:0.34, C:0.04, G:0.16, T:0.46
Consensus pattern (9 bp):
TTATGTAAG
Found at i:13318391 original size:64 final size:64
Alignment explanation
Indices: 13318319--13318479 Score: 200
Period size: 64 Copynumber: 2.5 Consensus size: 64
13318309 AGTTATGCAA
* * *
13318319 ATTATGTAAGTTATGTAAGA-AATGTAAGTTATGATATTTGATCTTTAACTTATATACGTT-ATG
1 ATTATGTAAGTTATGTAA-ATAATGTAAGTTATGAAATTTGATCTTTAAATTATATA-ATTAATG
13318382 T
64 T
* * * * *
13318383 ATTATGTAAGTTCTTTAAATTATGTAAGTTATGAAATTTGCTCTTTAAATTATGTAATTAATGT
1 ATTATGTAAGTTATGTAAATAATGTAAGTTATGAAATTTGATCTTTAAATTATATAATTAATGT
**
13318447 ATTATGTAAGTTATGTAAATTGTGTAAGTTATG
1 ATTATGTAAGTTATGTAAATAATGTAAGTTATG
13318480 TAAGAAATGT
Statistics
Matches: 84, Mismatches: 11, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
63 3 0.04
64 81 0.96
ACGTcount: A:0.34, C:0.04, G:0.16, T:0.47
Consensus pattern (64 bp):
ATTATGTAAGTTATGTAAATAATGTAAGTTATGAAATTTGATCTTTAAATTATATAATTAATGT
Found at i:13318467 original size:146 final size:146
Alignment explanation
Indices: 13318267--13318567 Score: 487
Period size: 146 Copynumber: 2.1 Consensus size: 146
13318257 ATGTAAGAAC
* * *
13318267 ATGATATTTGATCTTTAACTTATGTACGTTATGTATTATGTAAGTTATGCAAATTATGTAAGTTA
1 ATGAAATTTGATCTTTAAATTATGTACATTATGTATTATGTAAGTTATGCAAATTATGTAAGTTA
* *
13318332 TGTAAGAAATGTAAGTTATGATATTTGATCTTTAACTTATATACGTTATGTATTATGTAAGTTCT
66 TGTAAGAAATGTAAGTTATGATATTTGATCTTTAAATTATATACGTTATGTATTATGTAAGTTAT
* *
13318397 TTAAATTATGTAAGTT
131 GTAAATTACGTAAGTT
* * *
13318413 ATGAAATTTGCTCTTTAAATTATGTA-ATTAATGTATTATGTAAGTTATGTAAATTGTGTAAGTT
1 ATGAAATTTGATCTTTAAATTATGTACATT-ATGTATTATGTAAGTTATGCAAATTATGTAAGTT
*
13318477 ATGTAAGAAATGTAAGTTATGATATTTGATCTTTAAATTATGTACGTTATGTATTATGTAAGTTA
65 ATGTAAGAAATGTAAGTTATGATATTTGATCTTTAAATTATATACGTTATGTATTATGTAAGTTA
13318542 TGTAAATTACGTAAGTT
130 TGTAAATTACGTAAGTT
13318559 ATGAAATTT
1 ATGAAATTT
13318568 ACTGTCTTAA
Statistics
Matches: 143, Mismatches: 11, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
145 2 0.01
146 141 0.99
ACGTcount: A:0.34, C:0.04, G:0.16, T:0.46
Consensus pattern (146 bp):
ATGAAATTTGATCTTTAAATTATGTACATTATGTATTATGTAAGTTATGCAAATTATGTAAGTTA
TGTAAGAAATGTAAGTTATGATATTTGATCTTTAAATTATATACGTTATGTATTATGTAAGTTAT
GTAAATTACGTAAGTT
Found at i:13318473 original size:82 final size:82
Alignment explanation
Indices: 13318404--13318561 Score: 255
Period size: 82 Copynumber: 1.9 Consensus size: 82
13318394 TCTTTAAATT
*
13318404 ATGTAAGTTATGAAATTTGCTCTTTAAATTATGTA-ATTAATGTATTATGTAAGTTATGTAAATT
1 ATGTAAGTTATGAAATTTGATCTTTAAATTATGTACATT-ATGTATTATGTAAGTTATGTAAATT
*
13318468 GTGTAAGTTATGTAAGAA
65 ATGTAAGTTATGTAAGAA
* *
13318486 ATGTAAGTTATGATATTTGATCTTTAAATTATGTACGTTATGTATTATGTAAGTTATGTAAATTA
1 ATGTAAGTTATGAAATTTGATCTTTAAATTATGTACATTATGTATTATGTAAGTTATGTAAATTA
*
13318551 CGTAAGTTATG
66 TGTAAGTTATG
13318562 AAATTTACTG
Statistics
Matches: 70, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
82 68 0.97
83 2 0.03
ACGTcount: A:0.35, C:0.03, G:0.17, T:0.45
Consensus pattern (82 bp):
ATGTAAGTTATGAAATTTGATCTTTAAATTATGTACATTATGTATTATGTAAGTTATGTAAATTA
TGTAAGTTATGTAAGAA
Found at i:13318474 original size:18 final size:18
Alignment explanation
Indices: 13318286--13318566 Score: 142
Period size: 18 Copynumber: 17.1 Consensus size: 18
13318276 GATCTTTAAC
*
13318286 TTATGTACGTTATGT--A
1 TTATGTAAGTTATGTAAA
*
13318302 TTATGTAAGTTATGCAAA
1 TTATGTAAGTTATGTAAA
13318320 TTATGTAAGTTATGTAAGA
1 TTATGTAAGTTATGTAA-A
* *
13318339 -AATGTAAGTTATG-ATA
1 TTATGTAAGTTATGTAAA
*
13318355 TT-TG--A-TCT-T-TAAC
1 TTATGTAAGT-TATGTAAA
* *
13318368 TTATATACGTTATGT--A
1 TTATGTAAGTTATGTAAA
* *
13318384 TTATGTAAGTTCTTTAAA
1 TTATGTAAGTTATGTAAA
13318402 TTATGTAAGTTATG-AAA
1 TTATGTAAGTTATGTAAA
*
13318419 TT-TGCT---CT-T-TAAA
1 TTATG-TAAGTTATGTAAA
13318432 TTATGTAA-TTAATGT--A
1 TTATGTAAGTT-ATGTAAA
13318448 TTATGTAAGTTATGTAAA
1 TTATGTAAGTTATGTAAA
*
13318466 TTGTGTAAGTTATGTAAGA
1 TTATGTAAGTTATGTAA-A
* *
13318485 -AATGTAAGTTATG-ATA
1 TTATGTAAGTTATGTAAA
13318501 TT-TG--A-TCT-T-TAAA
1 TTATGTAAGT-TATGTAAA
*
13318514 TTATGTACGTTATGT--A
1 TTATGTAAGTTATGTAAA
13318530 TTATGTAAGTTATGTAAA
1 TTATGTAAGTTATGTAAA
*
13318548 TTACGTAAGTTATG-AAA
1 TTATGTAAGTTATGTAAA
13318565 TT
1 TT
13318567 TACTGTCTTA
Statistics
Matches: 200, Mismatches: 28, Indels: 73
0.66 0.09 0.24
Matches are distributed among these distances:
13 18 0.09
14 10 0.05
15 1 0.00
16 62 0.31
17 20 0.10
18 87 0.44
19 2 0.01
ACGTcount: A:0.35, C:0.04, G:0.16, T:0.46
Consensus pattern (18 bp):
TTATGTAAGTTATGTAAA
Found at i:13318569 original size:18 final size:18
Alignment explanation
Indices: 13318510--13318566 Score: 66
Period size: 16 Copynumber: 3.3 Consensus size: 18
13318500 ATTTGATCTT
* *
13318510 TAAATTATGTACGTTATG
1 TAAATTACGTAAGTTATG
*
13318528 T--ATTATGTAAGTTATG
1 TAAATTACGTAAGTTATG
13318544 TAAATTACGTAAGTTATG
1 TAAATTACGTAAGTTATG
13318562 -AAATT
1 TAAATT
13318567 TACTGTCTTA
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
16 15 0.43
17 5 0.14
18 15 0.43
ACGTcount: A:0.37, C:0.04, G:0.16, T:0.44
Consensus pattern (18 bp):
TAAATTACGTAAGTTATG
Found at i:13322964 original size:110 final size:102
Alignment explanation
Indices: 13322829--13323087 Score: 401
Period size: 110 Copynumber: 2.5 Consensus size: 102
13322819 AACTCTTTAA
* *
13322829 ATGCTTACTTTTATAATATACAGAATTTTAAATTAATAACTCTTTAAACTACTAATTAACTTGCT
1 ATGCATACTTTTATAATATATAGAATTTTAAATTAATAACTCTTTAAACTACTAATTAACTTGCT
13322894 GTTATATTAACAAAAAAAAAACACTACTCATCCACTTAGACTTAG
66 GTTATATTAAC--AAAAAAAACACTACTCAT-C-C----ACTTAG
*
13322939 ATGCATACTTTTATAATATATAGAATTTTAAATTAATAACACTTTAAACTACTAATTAACTTGCT
1 ATGCATACTTTTATAATATATAGAATTTTAAATTAATAACTCTTTAAACTACTAATTAACTTGCT
*
13323004 GTTATATTAACAAAAAAAGCACTACTCATCCACTTAG
66 GTTATATTAACAAAAAAAACACTACTCATCCACTTAG
*
13323041 ATGCACACTTTTATAATATATAGAATTTTAAATTAATAACTCTTTAA
1 ATGCATACTTTTATAATATATAGAATTTTAAATTAATAACTCTTTAA
13323088 TTTGTTATAA
Statistics
Matches: 143, Mismatches: 6, Indels: 8
0.91 0.04 0.05
Matches are distributed among these distances:
102 51 0.36
106 1 0.01
107 1 0.01
108 17 0.12
110 73 0.51
ACGTcount: A:0.42, C:0.15, G:0.05, T:0.37
Consensus pattern (102 bp):
ATGCATACTTTTATAATATATAGAATTTTAAATTAATAACTCTTTAAACTACTAATTAACTTGCT
GTTATATTAACAAAAAAAACACTACTCATCCACTTAG
Found at i:13325115 original size:14 final size:14
Alignment explanation
Indices: 13325098--13325143 Score: 58
Period size: 14 Copynumber: 3.2 Consensus size: 14
13325088 TGGAGGACCA
13325098 GAGGTGGATCGGTG
1 GAGGTGGATCGGTG
*
13325112 GAGGTCTTGA-CGGTG
1 GAGG--TGGATCGGTG
13325127 GAGGTGGATCGGTG
1 GAGGTGGATCGGTG
13325141 GAG
1 GAG
13325144 ACAGGCAGAC
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
13 3 0.11
14 12 0.44
15 9 0.33
16 3 0.11
ACGTcount: A:0.15, C:0.09, G:0.54, T:0.22
Consensus pattern (14 bp):
GAGGTGGATCGGTG
Found at i:13325297 original size:22 final size:22
Alignment explanation
Indices: 13325266--13325309 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
13325256 AAACTTAAAA
*
13325266 TAAAACTAAAACTAT-TATATTT
1 TAAAAATAAAA-TATATATATTT
13325288 TAAAAATAAAATATATATATTT
1 TAAAAATAAAATATATATATTT
13325310 AATATATTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 3 0.15
22 17 0.85
ACGTcount: A:0.55, C:0.05, G:0.00, T:0.41
Consensus pattern (22 bp):
TAAAAATAAAATATATATATTT
Found at i:13327539 original size:67 final size:67
Alignment explanation
Indices: 13327366--13327545 Score: 181
Period size: 67 Copynumber: 2.7 Consensus size: 67
13327356 CTATCCCGAC
* * * *
13327366 GACTCTATTAGTTGCCATAGTC-AAGCTATGGTCTTACACCTTTAACCCTATGTTTAATGTCCTA
1 GACTCTATTGGTTGCCATAGTCGAA-CTATGGTCTTACACATTTAACACTATGTTTAATATCCTA
13327430 GCG
65 GCG
* * * * *
13327433 GACTCTATTGGTTGCCATAGCCGAGCTATGATCTTACACA-TTATACACTATGTTTGATATCCTG
1 GACTCTATTGGTTGCCATAGTCGAACTATGGTCTTACACATTTA-ACACTATGTTTAATATCCTA
13327497 GCAG
65 GC-G
* *
13327501 G-CTACCTA-T-GTTGCCATAGTCGAACTATGGTTTTACACATGTAAC
1 GACT--CTATTGGTTGCCATAGTCGAACTATGGTCTTACACATTTAAC
13327546 CTCTTTTGAG
Statistics
Matches: 93, Mismatches: 14, Indels: 12
0.78 0.12 0.10
Matches are distributed among these distances:
66 3 0.03
67 81 0.87
68 6 0.06
69 3 0.03
ACGTcount: A:0.25, C:0.23, G:0.18, T:0.34
Consensus pattern (67 bp):
GACTCTATTGGTTGCCATAGTCGAACTATGGTCTTACACATTTAACACTATGTTTAATATCCTAG
CG
Found at i:13336767 original size:90 final size:91
Alignment explanation
Indices: 13336609--13336794 Score: 358
Period size: 90 Copynumber: 2.1 Consensus size: 91
13336599 TATAACTGGA
13336609 GTCT-TGCGATTTCCATTAGTAGTTGCTTGCCCACTGCTACTTGGAGGAAGATTCTTTTCTCTTG
1 GTCTGTGCGATTTCCATTAGTAGTTGCTTGCCCACTGCTACTTGGAGGAAGATTCTTTTCTCTTG
13336673 CAGGAGCATCCAAGTTAGGATTTTCT
66 CAGGAGCATCCAAGTTAGGATTTTCT
13336699 GTCTGTGCGATTTCCATTAGTAGTTGCTTG-CCACTGCTACTTGGAGGAAGATTCTTTTCTCTTG
1 GTCTGTGCGATTTCCATTAGTAGTTGCTTGCCCACTGCTACTTGGAGGAAGATTCTTTTCTCTTG
13336763 CAGGAGCATCCAAGTTAGGATTTTCT
66 CAGGAGCATCCAAGTTAGGATTTTCT
13336789 GTCTGT
1 GTCTGT
13336795 ATAAAGTCTT
Statistics
Matches: 95, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
90 70 0.74
91 25 0.26
ACGTcount: A:0.18, C:0.20, G:0.23, T:0.38
Consensus pattern (91 bp):
GTCTGTGCGATTTCCATTAGTAGTTGCTTGCCCACTGCTACTTGGAGGAAGATTCTTTTCTCTTG
CAGGAGCATCCAAGTTAGGATTTTCT
Found at i:13340871 original size:39 final size:39
Alignment explanation
Indices: 13340807--13340894 Score: 115
Period size: 39 Copynumber: 2.2 Consensus size: 39
13340797 AGATTTTGGG
* * *
13340807 TTGTTTGTTTGTTATTTATTGTTTGA-ATGTGTTGGGTTAT
1 TTGTTT-TTTGTTATTTATTCTTTGATA-GTGCTGAGTTAT
*
13340847 TTGTTTTTTGTTATTTGTTCTTTGATAGTGCTGAGTTAT
1 TTGTTTTTTGTTATTTATTCTTTGATAGTGCTGAGTTAT
13340886 TTGTTTTTT
1 TTGTTTTTT
13340895 TTAATGGAGT
Statistics
Matches: 43, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
39 36 0.84
40 7 0.16
ACGTcount: A:0.11, C:0.02, G:0.22, T:0.65
Consensus pattern (39 bp):
TTGTTTTTTGTTATTTATTCTTTGATAGTGCTGAGTTAT
Found at i:13342909 original size:61 final size:60
Alignment explanation
Indices: 13342811--13342938 Score: 168
Period size: 61 Copynumber: 2.1 Consensus size: 60
13342801 CACGACATCT
* * * *
13342811 ATGGATGTCAAGTTTATTGTCTACTACATGTTGAAATGACAACTCAATGAACTT-GACACCC
1 ATGGATGTCAAGTTCATTGTCTACTACATATTAAAATGA-AACTCAATGAA-TTCGACACAC
** *
13342872 ATGGATGTTGAGTTCATTGTCTACTACATATTAAAATGAAACTCAATGAATTCGACATAC
1 ATGGATGTCAAGTTCATTGTCTACTACATATTAAAATGAAACTCAATGAATTCGACACAC
13342932 ATGGATG
1 ATGGATG
13342939 CTAAATTCAC
Statistics
Matches: 59, Mismatches: 7, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
59 2 0.03
60 23 0.39
61 34 0.58
ACGTcount: A:0.34, C:0.16, G:0.17, T:0.32
Consensus pattern (60 bp):
ATGGATGTCAAGTTCATTGTCTACTACATATTAAAATGAAACTCAATGAATTCGACACAC
Found at i:13343639 original size:3 final size:3
Alignment explanation
Indices: 13343631--13343656 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
13343621 TCAACCATTG
13343631 TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TA
13343657 GTGTTAGAAA
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:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:13346444 original size:19 final size:20
Alignment explanation
Indices: 13346420--13346457 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
13346410 TTTAAAATTT
13346420 AAAATT-CAAAATATTTATA
1 AAAATTCCAAAATATTTATA
*
13346439 AAAATTCCAAAATTTTTAT
1 AAAATTCCAAAATATTTAT
13346458 TTTTTAAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 6 0.35
20 11 0.65
ACGTcount: A:0.53, C:0.08, G:0.00, T:0.39
Consensus pattern (20 bp):
AAAATTCCAAAATATTTATA
Found at i:13346481 original size:20 final size:20
Alignment explanation
Indices: 13346456--13346498 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
13346446 CAAAATTTTT
* * *
13346456 ATTTTTTAAAAAATTTTAAA
1 ATTTTTAAAAAAAATCTAAA
13346476 ATTTTTAAAAAAAATCTAAA
1 ATTTTTAAAAAAAATCTAAA
13346496 ATT
1 ATT
13346499 GTATATAAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.44
Consensus pattern (20 bp):
ATTTTTAAAAAAAATCTAAA
Found at i:13347054 original size:25 final size:25
Alignment explanation
Indices: 13347026--13347074 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
13347016 AAATAATAAG
*
13347026 ATTTGTTAACTCGACTCGACTCGAA
1 ATTTGTTAACTCGACTCAACTCGAA
* * *
13347051 ATTTTTTGACTCGATTCAACTCGA
1 ATTTGTTAACTCGACTCAACTCGA
13347075 TTAAAAAAAA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.27, C:0.22, G:0.14, T:0.37
Consensus pattern (25 bp):
ATTTGTTAACTCGACTCAACTCGAA
Found at i:13352471 original size:18 final size:20
Alignment explanation
Indices: 13352434--13352472 Score: 55
Period size: 18 Copynumber: 2.0 Consensus size: 20
13352424 ATTACAAAAT
*
13352434 AATTCAAAATCATTTTTAAA
1 AATTCAAAATCATTTATAAA
13352454 AATT-AAAAT-ATTTATAAA
1 AATTCAAAATCATTTATAAA
13352472 A
1 A
13352473 TTTATTTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 9 0.50
19 5 0.28
20 4 0.22
ACGTcount: A:0.56, C:0.05, G:0.00, T:0.38
Consensus pattern (20 bp):
AATTCAAAATCATTTATAAA
Found at i:13356842 original size:22 final size:24
Alignment explanation
Indices: 13356792--13356842 Score: 56
Period size: 24 Copynumber: 2.2 Consensus size: 24
13356782 TTGCAATGCT
13356792 TTTATATTTTAATAATTGAGTATTA
1 TTTATATTTTAAT-ATTGAGTATTA
13356817 -TTATATATTTAAT-TTGA-T-TTA
1 TTTATAT-TTTAATATTGAGTATTA
13356838 TTTAT
1 TTTAT
13356843 TTATAAATAA
Statistics
Matches: 24, Mismatches: 0, Indels: 7
0.77 0.00 0.23
Matches are distributed among these distances:
21 3 0.12
22 5 0.21
23 4 0.17
24 6 0.25
25 6 0.25
ACGTcount: A:0.33, C:0.00, G:0.06, T:0.61
Consensus pattern (24 bp):
TTTATATTTTAATATTGAGTATTA
Found at i:13358411 original size:33 final size:30
Alignment explanation
Indices: 13358374--13358437 Score: 74
Period size: 33 Copynumber: 2.0 Consensus size: 30
13358364 ATTTTAGTAA
*
13358374 TAATATAAAAAATATCATAACTTGTTAATATTT
1 TAATATAAAAAATAT-A-AA-TTGTAAATATTT
**
13358407 TAATATATGAAATATAAATTGTAAATATTT
1 TAATATAAAAAATATAAATTGTAAATATTT
13358437 T
1 T
13358438 TAAGTAATAA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
30 12 0.43
31 2 0.07
32 1 0.04
33 13 0.46
ACGTcount: A:0.48, C:0.03, G:0.05, T:0.44
Consensus pattern (30 bp):
TAATATAAAAAATATAAATTGTAAATATTT
Found at i:13360045 original size:15 final size:15
Alignment explanation
Indices: 13360018--13360055 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
13360008 TTAAAAATTA
13360018 ATAATATTTTTATAT
1 ATAATATTTTTATAT
13360033 ATAAT-TTTATTATAT
1 ATAATATTT-TTATAT
13360048 ATATATAT
1 ATA-ATAT
13360056 AATTTGTATT
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
14 3 0.15
15 14 0.70
16 2 0.10
17 1 0.05
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (15 bp):
ATAATATTTTTATAT
Found at i:13365559 original size:16 final size:17
Alignment explanation
Indices: 13365515--13365566 Score: 70
Period size: 18 Copynumber: 3.1 Consensus size: 17
13365505 AAAGGGAAAA
13365515 TTCCAAAAATGAAAAGT
1 TTCCAAAAATGAAAAGT
*
13365532 TTACCAAAAATGACAA-T
1 TT-CCAAAAATGAAAAGT
*
13365549 TTCCTAAAATGAAAAGT
1 TTCCAAAAATGAAAAGT
13365566 T
1 T
13365567 ATCAAGAATA
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
16 11 0.37
17 7 0.23
18 12 0.40
ACGTcount: A:0.50, C:0.13, G:0.10, T:0.27
Consensus pattern (17 bp):
TTCCAAAAATGAAAAGT
Found at i:13366480 original size:41 final size:40
Alignment explanation
Indices: 13366423--13366499 Score: 120
Period size: 41 Copynumber: 1.9 Consensus size: 40
13366413 CGTGCATTCG
*
13366423 GGGATTTAGCGGCGTTTTTTATGAA-GCGCCGCTAAAGCTCA
1 GGGATTTAGCGGCG-TTTTTAAGAATGCGCCGC-AAAGCTCA
13366464 GGGATTTAGCGGCGTTTTTAAGAATGCGCCGCAAAG
1 GGGATTTAGCGGCGTTTTTAAGAATGCGCCGCAAAG
13366500 AAACCTAAGC
Statistics
Matches: 34, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
40 13 0.38
41 21 0.62
ACGTcount: A:0.23, C:0.18, G:0.31, T:0.27
Consensus pattern (40 bp):
GGGATTTAGCGGCGTTTTTAAGAATGCGCCGCAAAGCTCA
Found at i:13368800 original size:134 final size:131
Alignment explanation
Indices: 13368619--13368881 Score: 481
Period size: 134 Copynumber: 2.0 Consensus size: 131
13368609 AGGGTTTCTA
*
13368619 AAGTGCAAAGCATAAAGGTGAATTGACTCAGAACGACCATAGTTGCACAATGTTATCAACCTCAA
1 AAGTGCAAAGCATAAAGGTGAATTGACTCAGAACGACCATAGCTGCACAATGTTATCAACCTCAA
13368684 GTGGTTGTTTTTCACTATAGAATTCTAAAAAGTTGTAATGACGTACATTGAACTATTGCCCATAA
66 GT-G--GTTTTTCACTATAGAATTCTAAAAAGTTGTAATGACGTACATTGAACTATTGCCCATAA
13368749 CCTC
128 CCTC
13368753 AAGTGCAAAGCATAAAGGTGAATTGACTCAGAACGACCATAGCTGCACAATGTTATCAACCTCAA
1 AAGTGCAAAGCATAAAGGTGAATTGACTCAGAACGACCATAGCTGCACAATGTTATCAACCTCAA
*
13368818 GTGGTTTTTCACTATAGAATTCTAAGAAGTTGTAATGACGTACATTGAACTATTGCCCATAACC
66 GTGGTTTTTCACTATAGAATTCTAAAAAGTTGTAATGACGTACATTGAACTATTGCCCATAACC
13368882 CACTTATTAA
Statistics
Matches: 127, Mismatches: 2, Indels: 3
0.96 0.02 0.02
Matches are distributed among these distances:
131 60 0.47
133 1 0.01
134 66 0.52
ACGTcount: A:0.35, C:0.19, G:0.17, T:0.28
Consensus pattern (131 bp):
AAGTGCAAAGCATAAAGGTGAATTGACTCAGAACGACCATAGCTGCACAATGTTATCAACCTCAA
GTGGTTTTTCACTATAGAATTCTAAAAAGTTGTAATGACGTACATTGAACTATTGCCCATAACCT
C
Found at i:13373204 original size:21 final size:22
Alignment explanation
Indices: 13373178--13373224 Score: 78
Period size: 21 Copynumber: 2.2 Consensus size: 22
13373168 CTCTGCTCAA
*
13373178 ACTCCACCTGCTGCGGAGTAC-
1 ACTCCACCTGCTGCGAAGTACT
13373199 ACTCCACCTGCTGCGAAGTACT
1 ACTCCACCTGCTGCGAAGTACT
13373221 ACTC
1 ACTC
13373225 ACTCCTTCTG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.21, C:0.38, G:0.19, T:0.21
Consensus pattern (22 bp):
ACTCCACCTGCTGCGAAGTACT
Found at i:13378506 original size:20 final size:21
Alignment explanation
Indices: 13378481--13378520 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
13378471 TCTTTCGTGG
13378481 AAAATTTTCCAGGT-TCTATC
1 AAAATTTTCCAGGTATCTATC
*
13378501 AAAATTTTCCGGGTATCTAT
1 AAAATTTTCCAGGTATCTAT
13378521 TGTATATAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 13 0.72
21 5 0.28
ACGTcount: A:0.30, C:0.17, G:0.12, T:0.40
Consensus pattern (21 bp):
AAAATTTTCCAGGTATCTATC
Found at i:13379379 original size:23 final size:23
Alignment explanation
Indices: 13379321--13379384 Score: 60
Period size: 23 Copynumber: 2.8 Consensus size: 23
13379311 TAAGGATTTG
13379321 ATTTGAATTAATTC-A-AATCCT
1 ATTTGAATTAATTCAATAATCCT
* *
13379342 ATTTCTATTTAAATTCAATAATCCT
1 ATTT-GAATT-AATTCAATAATCCT
* *
13379367 ATTTGGATTAATTTAATA
1 ATTTGAATTAATTCAATA
13379385 TTTTTCAAAA
Statistics
Matches: 33, Mismatches: 6, Indels: 6
0.73 0.13 0.13
Matches are distributed among these distances:
21 4 0.12
22 3 0.09
23 13 0.39
24 3 0.09
25 10 0.30
ACGTcount: A:0.38, C:0.11, G:0.05, T:0.47
Consensus pattern (23 bp):
ATTTGAATTAATTCAATAATCCT
Found at i:13380197 original size:46 final size:46
Alignment explanation
Indices: 13380140--13380233 Score: 188
Period size: 46 Copynumber: 2.0 Consensus size: 46
13380130 TTATTTTAAT
13380140 ATGGTTAAAATATGACATAAATTCTTTTACTTTTCTTAAATTTGTA
1 ATGGTTAAAATATGACATAAATTCTTTTACTTTTCTTAAATTTGTA
13380186 ATGGTTAAAATATGACATAAATTCTTTTACTTTTCTTAAATTTGTA
1 ATGGTTAAAATATGACATAAATTCTTTTACTTTTCTTAAATTTGTA
13380232 AT
1 AT
13380234 TTAGTCCTTA
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 48 1.00
ACGTcount: A:0.35, C:0.09, G:0.09, T:0.48
Consensus pattern (46 bp):
ATGGTTAAAATATGACATAAATTCTTTTACTTTTCTTAAATTTGTA
Found at i:13382995 original size:20 final size:21
Alignment explanation
Indices: 13382951--13382996 Score: 60
Period size: 20 Copynumber: 2.3 Consensus size: 21
13382941 TTATTAATTT
*
13382951 TTTAAAAAAACTATAAAAATA
1 TTTAAAAAAAATATAAAAATA
*
13382972 -TTAAAAAAAAT-TAGAAATA
1 TTTAAAAAAAATATAAAAATA
13382991 TTTAAA
1 TTTAAA
13382997 CATAGTTAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
19 7 0.32
20 15 0.68
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.30
Consensus pattern (21 bp):
TTTAAAAAAAATATAAAAATA
Found at i:13383509 original size:18 final size:17
Alignment explanation
Indices: 13383481--13383532 Score: 52
Period size: 18 Copynumber: 2.9 Consensus size: 17
13383471 ATTTTCTGTA
13383481 TTTTATAAATTTTAAGAAT
1 TTTTAT-AATTTTAA-AAT
* *
13383500 TTTTATAATTATTTAATT
1 TTTTATAATT-TTAAAAT
13383518 TTTTATAA-TTTAAAA
1 TTTTATAATTTTAAAA
13383533 AATCAAGTTC
Statistics
Matches: 28, Mismatches: 4, Indels: 5
0.76 0.11 0.14
Matches are distributed among these distances:
16 4 0.14
17 1 0.04
18 14 0.50
19 9 0.32
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (17 bp):
TTTTATAATTTTAAAAT
Found at i:13384099 original size:19 final size:19
Alignment explanation
Indices: 13384077--13384115 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
13384067 ACCATTGTTA
*
13384077 TCCATCGTAATAAAATTTT
1 TCCACCGTAATAAAATTTT
* *
13384096 TCCACCTTAATCAAATTTT
1 TCCACCGTAATAAAATTTT
13384115 T
1 T
13384116 TATTAACTTT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.33, C:0.21, G:0.03, T:0.44
Consensus pattern (19 bp):
TCCACCGTAATAAAATTTT
Found at i:13385038 original size:9 final size:9
Alignment explanation
Indices: 13385021--13385051 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
13385011 TCATGTTGAT
13385021 TCGAATAAC
1 TCGAATAAC
*
13385030 TCGATTAAC
1 TCGAATAAC
13385039 TCGAATAAC
1 TCGAATAAC
13385048 TCGA
1 TCGA
13385052 TTCGTTTAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.39, C:0.23, G:0.13, T:0.26
Consensus pattern (9 bp):
TCGAATAAC
Found at i:13390504 original size:24 final size:24
Alignment explanation
Indices: 13390472--13390518 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
13390462 TATTAGTTGA
*
13390472 AAGAAATGGAAATCGATTTTTTTT
1 AAGAAATGGAAATCAATTTTTTTT
*
13390496 AAGAAATGGAATTCAATTTTTTT
1 AAGAAATGGAAATCAATTTTTTT
13390519 CTCGAATTAG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.38, C:0.04, G:0.15, T:0.43
Consensus pattern (24 bp):
AAGAAATGGAAATCAATTTTTTTT
Found at i:13390605 original size:55 final size:55
Alignment explanation
Indices: 13390531--13390640 Score: 175
Period size: 55 Copynumber: 2.0 Consensus size: 55
13390521 CGAATTAGGT
* * * *
13390531 TTGAATTTTGAAATTGATATTGTTAAAATAAATTTATCTTAATGTCATCCTTGAC
1 TTGAATTTTAAAATCGATATTGCTAAAATAAATTTATCTGAATGTCATCCTTGAC
*
13390586 TTGAATTTTAAAATCGATATTGCTAAAATAGATTTATCTGAATGTCATCCTTGAC
1 TTGAATTTTAAAATCGATATTGCTAAAATAAATTTATCTGAATGTCATCCTTGAC
13390641 CTAAATAGGA
Statistics
Matches: 50, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
55 50 1.00
ACGTcount: A:0.35, C:0.11, G:0.12, T:0.43
Consensus pattern (55 bp):
TTGAATTTTAAAATCGATATTGCTAAAATAAATTTATCTGAATGTCATCCTTGAC
Found at i:13390881 original size:30 final size:30
Alignment explanation
Indices: 13390811--13390886 Score: 84
Period size: 30 Copynumber: 2.5 Consensus size: 30
13390801 CTTTAATTTG
**
13390811 ATTAATTTTTGTTCTCATATCTTTTGAATT
1 ATTAATTTTTAATCTCATATCTTTTGAATT
*
13390841 AGTTAA-TTTTAATCTCATATTTTTTGAATT
1 A-TTAATTTTTAATCTCATATCTTTTGAATT
*
13390871 -TTAAATTTTTAGTCTC
1 ATT-AATTTTTAATCTC
13390887 GATCCAAATA
Statistics
Matches: 39, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
28 2 0.05
29 2 0.05
30 31 0.79
31 4 0.10
ACGTcount: A:0.26, C:0.09, G:0.07, T:0.58
Consensus pattern (30 bp):
ATTAATTTTTAATCTCATATCTTTTGAATT
Found at i:13394462 original size:30 final size:30
Alignment explanation
Indices: 13394428--13394492 Score: 112
Period size: 30 Copynumber: 2.2 Consensus size: 30
13394418 ACTTATTTTA
13394428 TTGTTAATTTTGTTATTATTTTAAAGACAT
1 TTGTTAATTTTGTTATTATTTTAAAGACAT
* *
13394458 TTGTTAATTTTGTTATTATTTTGAAGGCAT
1 TTGTTAATTTTGTTATTATTTTAAAGACAT
13394488 TTGTT
1 TTGTT
13394493 TGTTAAGTTG
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 33 1.00
ACGTcount: A:0.25, C:0.03, G:0.14, T:0.58
Consensus pattern (30 bp):
TTGTTAATTTTGTTATTATTTTAAAGACAT
Found at i:13398381 original size:22 final size:23
Alignment explanation
Indices: 13398353--13398397 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
13398343 TTGCTGTAAA
* *
13398353 TATATTTA-TTTTATCGTTTTAT
1 TATATTTACTTATATCCTTTTAT
13398375 TATATTTACTTATATCCTTTTAT
1 TATATTTACTTATATCCTTTTAT
13398398 AATTTCAAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 8 0.40
23 12 0.60
ACGTcount: A:0.24, C:0.09, G:0.02, T:0.64
Consensus pattern (23 bp):
TATATTTACTTATATCCTTTTAT
Found at i:13399257 original size:73 final size:73
Alignment explanation
Indices: 13399138--13399281 Score: 252
Period size: 73 Copynumber: 2.0 Consensus size: 73
13399128 TCTCGAATTT
* *
13399138 AAAAAGGGGATCATGCCCAGTAAGTTAGGACACGATCTTTTCTTAATTCCCGAGATCGTTTAAAA
1 AAAAAAGGGATCATGCCCAGTAAGTTAGGACACGATCTCTTCTTAATTCCCGAGATCGTTTAAAA
*
13399203 TTTGAGAA
66 CTTGAGAA
*
13399211 AAAAAAGGGATCATGCCTAGTAAGTTAGGACACGATCTCTTCTTAATTCCCGAGATCGTTTAAAA
1 AAAAAAGGGATCATGCCCAGTAAGTTAGGACACGATCTCTTCTTAATTCCCGAGATCGTTTAAAA
13399276 CTTGAG
66 CTTGAG
13399282 TTTGAAGAGA
Statistics
Matches: 67, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
73 67 1.00
ACGTcount: A:0.34, C:0.17, G:0.20, T:0.28
Consensus pattern (73 bp):
AAAAAAGGGATCATGCCCAGTAAGTTAGGACACGATCTCTTCTTAATTCCCGAGATCGTTTAAAA
CTTGAGAA
Found at i:13400020 original size:21 final size:21
Alignment explanation
Indices: 13399994--13400060 Score: 86
Period size: 21 Copynumber: 3.3 Consensus size: 21
13399984 ACTTTTAAGT
13399994 AATAATACATGATAATTTTAG
1 AATAATACATGATAATTTTAG
* * *
13400015 AATAATA-AT-A-CATATTAA
1 AATAATACATGATAATTTTAG
13400033 AATAATACATGATAATTTTAG
1 AATAATACATGATAATTTTAG
13400054 AATAATA
1 AATAATA
13400061 ATACATATTA
Statistics
Matches: 37, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
18 12 0.32
19 3 0.08
20 3 0.08
21 19 0.51
ACGTcount: A:0.54, C:0.04, G:0.06, T:0.36
Consensus pattern (21 bp):
AATAATACATGATAATTTTAG
Found at i:13400036 original size:18 final size:19
Alignment explanation
Indices: 13400015--13400097 Score: 80
Period size: 18 Copynumber: 4.3 Consensus size: 19
13400005 ATAATTTTAG
13400015 AATAATA-ATACATATTAA
1 AATAATACATACATATTAA
* * *
13400033 AATAATACATGATAATTTTAG
1 AATAATACAT-A-CATATTAA
13400054 AATAATA-ATACATATTAA
1 AATAATACATACATATTAA
*
13400072 AATAATATATACATATATAA
1 AATAATACATACATAT-TAA
13400092 AGATAA
1 A-ATAA
13400098 AAGAAATAAA
Statistics
Matches: 53, Mismatches: 6, Indels: 9
0.78 0.09 0.13
Matches are distributed among these distances:
18 19 0.36
19 11 0.21
20 7 0.13
21 16 0.30
ACGTcount: A:0.58, C:0.05, G:0.04, T:0.34
Consensus pattern (19 bp):
AATAATACATACATATTAA
Found at i:13400037 original size:39 final size:39
Alignment explanation
Indices: 13399994--13400078 Score: 170
Period size: 39 Copynumber: 2.2 Consensus size: 39
13399984 ACTTTTAAGT
13399994 AATAATACATGATAATTTTAGAATAATAATACATATTAA
1 AATAATACATGATAATTTTAGAATAATAATACATATTAA
13400033 AATAATACATGATAATTTTAGAATAATAATACATATTAA
1 AATAATACATGATAATTTTAGAATAATAATACATATTAA
13400072 AATAATA
1 AATAATA
13400079 TATACATATA
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 46 1.00
ACGTcount: A:0.55, C:0.05, G:0.05, T:0.35
Consensus pattern (39 bp):
AATAATACATGATAATTTTAGAATAATAATACATATTAA
Found at i:13400078 original size:21 final size:21
Alignment explanation
Indices: 13400015--13400097 Score: 70
Period size: 21 Copynumber: 4.1 Consensus size: 21
13400005 ATAATTTTAG
13400015 AATAATAATACATATTAAAAT
1 AATAATAATACATATTAAAAT
* * *
13400036 AATACATGATA-AT-TT--TAG
1 AATA-ATAATACATATTAAAAT
13400054 AATAATAATACATATTAAAAT
1 AATAATAATACATATTAAAAT
13400075 AAT-AT-ATACATATATAAAGAT
1 AATAATAATACATAT-TAAA-AT
13400096 AA
1 AA
13400098 AAGAAATAAA
Statistics
Matches: 49, Mismatches: 6, Indels: 14
0.71 0.09 0.20
Matches are distributed among these distances:
17 5 0.10
18 7 0.14
19 10 0.20
20 8 0.16
21 14 0.29
22 5 0.10
ACGTcount: A:0.58, C:0.05, G:0.04, T:0.34
Consensus pattern (21 bp):
AATAATAATACATATTAAAAT
Found at i:13402500 original size:16 final size:17
Alignment explanation
Indices: 13402479--13402510 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
13402469 AAATATGCAA
13402479 TCACATAA-TTCATATT
1 TCACATAACTTCATATT
13402495 TCACATAACTTCATAT
1 TCACATAACTTCATAT
13402511 CATCAATTCA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.38, C:0.22, G:0.00, T:0.41
Consensus pattern (17 bp):
TCACATAACTTCATATT
Found at i:13402814 original size:43 final size:42
Alignment explanation
Indices: 13402671--13402841 Score: 170
Period size: 43 Copynumber: 4.0 Consensus size: 42
13402661 GACTCGTACA
* * *
13402671 ATGCCAACGTCCCAGACGTGGTCTTACATGTAATCACATATCG
1 ATGCCAACGTCCCAGACATGGTCTTACACGTAAACACA-ATCG
* *
13402714 ATGCC-ACTGTCCCAAACAGGGTCTTACAC--AAATCA-AATACG
1 ATGCCAAC-GTCCCAGACATGGTCTTACACGTAAA-CACAAT-CG
*
13402755 ATGCCAATGTCCCAGACATGGTCTTACACGTAAACACAAGTCG
1 ATGCCAACGTCCCAGACATGGTCTTACACGTAAACACAA-TCG
* * **
13402798 ATGCCAACGTCTCAGACGTGGTCTTACACAAAAACACATATCG
1 ATGCCAACGTCCCAGACATGGTCTTACACGTAAACACA-ATCG
13402841 A
1 A
13402842 AATCCTATGT
Statistics
Matches: 106, Mismatches: 13, Indels: 18
0.77 0.09 0.13
Matches are distributed among these distances:
40 2 0.02
41 29 0.27
42 7 0.07
43 66 0.62
44 2 0.02
ACGTcount: A:0.33, C:0.28, G:0.17, T:0.22
Consensus pattern (42 bp):
ATGCCAACGTCCCAGACATGGTCTTACACGTAAACACAATCG
Done.