Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D13
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: 60343961
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 596159 characters in sequence are not A, C, G, or T
File 162 of 204
Found at i:48956895 original size:13 final size:13
Alignment explanation
Indices: 48956879--48956916 Score: 51
Period size: 13 Copynumber: 2.9 Consensus size: 13
48956869 AGAAAAGTAA
48956879 AATAAAAAAATAC
1 AATAAAAAAATAC
*
48956892 AATAAAAGAAA-AG
1 AATAAAA-AAATAC
48956905 AATAAAAAAATA
1 AATAAAAAAATA
48956917 AATGTGAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
12 3 0.14
13 16 0.73
14 3 0.14
ACGTcount: A:0.79, C:0.03, G:0.05, T:0.13
Consensus pattern (13 bp):
AATAAAAAAATAC
Found at i:48963894 original size:3 final size:3
Alignment explanation
Indices: 48963886--48963940 Score: 101
Period size: 3 Copynumber: 18.3 Consensus size: 3
48963876 AAAAGGAAAA
*
48963886 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAA
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
48963934 AAG AAG A
1 AAG AAG A
48963941 GAAAATACCT
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 50 1.00
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:48993727 original size:89 final size:89
Alignment explanation
Indices: 48992708--48993712 Score: 1708
Period size: 89 Copynumber: 11.3 Consensus size: 89
48992698 GCAGCAGTGG
* * * * *
48992708 AGCAGGTTGAAAGATAACAGATATTGTCTTCATGTACTAGCGTGAAGTACATCAGAGATACCAGA
1 AGCAGG-TCAAAGAAAACAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAGAGATACCAGA
48992773 TCTTGCCTTCCCATACTGGTGGCGA
65 TCTTGCCTTCCCATACTGGTGGCGA
* * *
48992798 AGCTGGTTGAAAGATAACAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAGAGATACCAGA
1 AGCAGG-TCAAAGAAAACAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAGAGATACCAGA
48992863 TCTTGCCTTCCCATACTGGTGGCGA
65 TCTTGCCTTCCCATACTGGTGGCGA
*
48992888 AGCAGGTCAAAGAAAACAGATCTTGTCTTCATGTACTGGCGTGAAGTACATCAGAGATACCAGAT
1 AGCAGGTCAAAGAAAACAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAGAGATACCAGAT
48992953 CTTGCCTTCCCATACTGGTGGCGA
66 CTTGCCTTCCCATACTGGTGGCGA
48992977 AGCAGGTCAAAGAAAGA-AGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAGAGATACCAGA
1 AGCAGGTCAAAGAAA-ACAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAGAGATACCAGA
48993041 TCTTGCCTTCCCATACTGGTGGCGA
65 TCTTGCCTTCCCATACTGGTGGCGA
* *
48993066 AGCAGGTCAAAGAAAGCAGATTTTGTCTTCATGTACTGGCGTGAAGTAGATCAGAGATACCAGAT
1 AGCAGGTCAAAGAAAACAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAGAGATACCAGAT
48993131 CTTGCCTTCCCATACTGGTGGCGA
66 CTTGCCTTCCCATACTGGTGGCGA
* * * *
48993155 AGCAGGTCAAAGAAAGCAGATATTGTCTTCAAGTACTGGCGTGAAGTAGATTAGAGATACCAGAT
1 AGCAGGTCAAAGAAAACAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAGAGATACCAGAT
48993220 CTTGCCTTCCCATACTGGTGGCGA
66 CTTGCCTTCCCATACTGGTGGCGA
* *
48993244 AGCAGGTCAAATAAAGCAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAGAGATACCAGAT
1 AGCAGGTCAAAGAAAACAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAGAGATACCAGAT
48993309 CTTGCCTTCCCATACTGGTGGCGA
66 CTTGCCTTCCCATACTGGTGGCGA
* * *
48993333 AGCAGGTCAAAGAAAGCAGATCTTATCTTCATGTACTAGCGTGAAGTAGATCAGAGATACCAGAT
1 AGCAGGTCAAAGAAAACAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAGAGATACCAGAT
48993398 CTTGCCTTCCCATACTGGTGGCGA
66 CTTGCCTTCCCATACTGGTGGCGA
* *
48993422 AGTAGGTCAAA-AAAAGCAGACCTTGTCTTCATGTACTGGCGTGAAGTAGATCAGAGATACCAGA
1 AGCAGGTCAAAGAAAA-CAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAGAGATACCAGA
48993486 TCTTGCCTTCCCATACTGGTGGCGA
65 TCTTGCCTTCCCATACTGGTGGCGA
* *
48993511 AGCAAGTCAAAGAAAACAGATCTTGTCTTCATGTACTGGCTTGAAGTAGATCAGAGATACCAGAT
1 AGCAGGTCAAAGAAAACAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAGAGATACCAGAT
48993576 CTTGCCTTCCCATACTGGTGGCGA
66 CTTGCCTTCCCATACTGGTGGCGA
* *
48993600 AGCAGGTCAAAGAAAGCAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAGAGATAACAGAT
1 AGCAGGTCAAAGAAAACAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAGAGATACCAGAT
48993665 CTTGCCTTCCCATACTGGTGGCGA
66 CTTGCCTTCCCATACTGGTGGCGA
* *
48993689 AGCAGATCGAAGAAAACAGATCTT
1 AGCAGGTCAAAGAAAACAGATCTT
48993713 ACCTTCCCAT
Statistics
Matches: 874, Mismatches: 37, Indels: 9
0.95 0.04 0.01
Matches are distributed among these distances:
88 3 0.00
89 775 0.89
90 96 0.11
ACGTcount: A:0.30, C:0.21, G:0.25, T:0.25
Consensus pattern (89 bp):
AGCAGGTCAAAGAAAACAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAGAGATACCAGAT
CTTGCCTTCCCATACTGGTGGCGA
Found at i:48993785 original size:89 final size:89
Alignment explanation
Indices: 48993687--48994431 Score: 924
Period size: 89 Copynumber: 8.4 Consensus size: 89
48993677 TACTGGTGGC
* * * ** * *
48993687 GAAGCAGATCGAAGAAAACAGATCTTACCTTCCCATACTGGTGCCGAAGCAGATCGAAGAAAACA
1 GAAGTAGATCAAAGATAACAGATCTTGTCTTCCCATACTGGTGGCGAAGCAGATCGAAGAAAGCA
*
48993752 GATCTTGTCTTCATGTACTGGCAT
66 GATCTTGTCTTCATGTACTGGCGT
* * * *
48993776 GAAGTAGATCAAAGATAATAGATCTTGCCTTCCCATACTGGTGGCGAAACAGATCGAAGAAAACA
1 GAAGTAGATCAAAGATAACAGATCTTGTCTTCCCATACTGGTGGCGAAGCAGATCGAAGAAAGCA
*
48993841 GATCTTGTCTTCATGTATTGGCGT
66 GATCTTGTCTTCATGTACTGGCGT
* * *
48993865 GAAGTAGATCAAAGATAACAGATCTTGTCTTTCCATACTGGTGGTGAAACAGATCGAAGAAAGCA
1 GAAGTAGATCAAAGATAACAGATCTTGTCTTCCCATACTGGTGGCGAAGCAGATCGAAGAAAGCA
*
48993930 GATCTTATCTTCATGTACTGGCGT
66 GATCTTGTCTTCATGTACTGGCGT
* *
48993954 GAAGTAGATCAAAGGTAACAGATCTTGTCTTCCCATACTGGTGGCGAAACAGATCGAAGAAAGCA
1 GAAGTAGATCAAAGATAACAGATCTTGTCTTCCCATACTGGTGGCGAAGCAGATCGAAGAAAGCA
48994019 GATCTTGTCTTCATGTACTGGCGT
66 GATCTTGTCTTCATGTACTGGCGT
* * *
48994043 GAAGTAGATCAAAGGTAACATATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGGAAAAA
1 GAAGTAGATCAAAGATAACAGATCTTGTCTTCCCATACTGGTGGCGAAGCAGATCGAA-G--AAA
* * *
48994108 GCGGATCTTATCTTCATGTACTGTCGT
63 GCAGATCTTGTCTTCATGTACTGGCGT
* * *
48994135 GAAGTAGATCAAAGATAACAGACCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGAAAGTA
1 GAAGTAGATCAAAGATAACAGATCTTGTCTTCCCATACTGGTGGCGAAGCAGATCGAAGAAAGCA
*
48994200 GATCTTGTCTTCATGTATTGGCGT
66 GATCTTGTCTTCATGTACTGGCGT
* * *** * * * *
48994224 GAAGTAGATCGAAGA-AAGCGGATCTTGTCTTCATGTATTGG-CGTGAAGTAGATCGAAGAAAGC
1 GAAGTAGATCAAAGATAA-CAGATCTTGTCTTCCCATACTGGTGGCGAAGCAGATCGAAGAAAGC
* * * *
48994287 GGATCTTATCTTCATGTATTGGCAT
65 AGATCTTGTCTTCATGTACTGGCGT
* * *** * * *
48994312 GAAGTAGATCGAGGA-AAGCAGATCTTGTCTTCATGTATTGGT-GTGAAGTAGATCGAAGAAAGC
1 GAAGTAGATCAAAGATAA-CAGATCTTGTCTTCCCATACTGGTGGCGAAGCAGATCGAAGAAAGC
* *
48994375 AAATCTTGTCTTCATGTATTGGCGT
65 AGATCTTGTCTTCATGTACTGGCGT
*
48994400 GAAGTAGATCGAAGA-AAGCAGATCTTGTCTTC
1 GAAGTAGATCAAAGATAA-CAGATCTTGTCTTC
48994432 ATGTATTGGC
Statistics
Matches: 597, Mismatches: 54, Indels: 11
0.90 0.08 0.02
Matches are distributed among these distances:
88 155 0.26
89 358 0.60
90 1 0.00
91 1 0.00
92 82 0.14
ACGTcount: A:0.31, C:0.17, G:0.24, T:0.27
Consensus pattern (89 bp):
GAAGTAGATCAAAGATAACAGATCTTGTCTTCCCATACTGGTGGCGAAGCAGATCGAAGAAAGCA
GATCTTGTCTTCATGTACTGGCGT
Found at i:48993790 original size:267 final size:268
Alignment explanation
Indices: 48992717--48994503 Score: 1532
Period size: 267 Copynumber: 6.7 Consensus size: 268
48992707 GAGCAGGTTG
* * * * *
48992717 AAAGATAACAGATATTGTCTTCATGTACTAGCGTGAAGTACATCAGAGATACCAGATCTTGCCTT
1 AAAGAAAACAGATCTTGTCTTCATGTACTGGCTTGAAGTAGATCAGAGATACCAGATCTTGCCTT
* *
48992782 CCCATACTGGTGGCGAAGCTGGTTGAAAGATAA-CAGATCTTGTCTTCATGTACTGGCGTGAAGT
66 CCCATACTGGTGGCGAAGCAGG-TCAAAGA-AAGCAGATCTTGTCTTCATGTACTGGCGTGAAGT
* * *
48992846 AGATCAGAGATACCAGATCTTGCCTTCCCATACTGGTGGCGAAGCAGGTCAAAGAAAACAGATCT
129 AGATCAGAGATAACAGATCTTGCCTTCCCATACTGGTGGCGAAGTAGATCAAAGAAAACAGATCT
* * * * *
48992911 TGTCTTCATGTACTGGCGTGAAGTACATC-AGAGATACCAGATCTTGCCTTCCCATACTGGTGGC
194 TGTCTTCATATACTGGCGTGAAGTAGATCGAGAGAAACCAGATCTTGCCTTCACATACTGGTCGC
*
48992975 GAAGCAGGTC
259 GAAGCAGATC
*
48992985 AAAGAAAGA-AGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAGAGATACCAGATCTTGCCT
1 AAAGAAA-ACAGATCTTGTCTTCATGTACTGGCTTGAAGTAGATCAGAGATACCAGATCTTGCCT
*
48993049 TCCCATACTGGTGGCGAAGCAGGTCAAAGAAAGCAGATTTTGTCTTCATGTACTGGCGTGAAGTA
65 TCCCATACTGGTGGCGAAGCAGGTCAAAGAAAGCAGATCTTGTCTTCATGTACTGGCGTGAAGTA
* * * * *
48993114 GATCAGAGATACCAGATCTTGCCTTCCCATACTGGTGGCGAAGCAGGTCAAAGAAAGCAGATATT
130 GATCAGAGATAACAGATCTTGCCTTCCCATACTGGTGGCGAAGTAGATCAAAGAAAACAGATCTT
* * * *
48993179 GTCTTCA-AGTACTGGCGTGAAGTAGAT-TAGAGATACCAGATCTTGCCTTCCCATACTGGTGGC
195 GTCTTCATA-TACTGGCGTGAAGTAGATCGAGAGAAACCAGATCTTGCCTTCACATACTGGTCGC
*
48993242 GAAGCAGGTC
259 GAAGCAGATC
* * *
48993252 AAATAAAGCAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAGAGATACCAGATCTTGCCTT
1 AAAGAAAACAGATCTTGTCTTCATGTACTGGCTTGAAGTAGATCAGAGATACCAGATCTTGCCTT
* *
48993317 CCCATACTGGTGGCGAAGCAGGTCAAAGAAAGCAGATCTTATCTTCATGTACTAGCGTGAAGTAG
66 CCCATACTGGTGGCGAAGCAGGTCAAAGAAAGCAGATCTTGTCTTCATGTACTGGCGTGAAGTAG
* * *
48993382 ATCAGAGATACCAGATCTTGCCTTCCCATACTGGTGGCGAAGTAGGTCAAA-AAAAGCAGACCTT
131 ATCAGAGATAACAGATCTTGCCTTCCCATACTGGTGGCGAAGTAGATCAAAGAAAA-CAGATCTT
* * * *
48993446 GTCTTCATGTACTGGCGTGAAGTAGATC-AGAGATACCAGATCTTGCCTTCCCATACTGGTGGCG
195 GTCTTCATATACTGGCGTGAAGTAGATCGAGAGAAACCAGATCTTGCCTTCACATACTGGTCGCG
48993510 AAGCA-AGTC
260 AAGCAGA-TC
48993519 AAAGAAAACAGATCTTGTCTTCATGTACTGGCTTGAAGTAGATCAGAGATACCAGATCTTGCCTT
1 AAAGAAAACAGATCTTGTCTTCATGTACTGGCTTGAAGTAGATCAGAGATACCAGATCTTGCCTT
48993584 CCCATACTGGTGGCGAAGCAGGTCAAAGAAAGCAGATCTTGTCTTCATGTACTGGCGTGAAGTAG
66 CCCATACTGGTGGCGAAGCAGGTCAAAGAAAGCAGATCTTGTCTTCATGTACTGGCGTGAAGTAG
* * *
48993649 ATCAGAGATAACAGATCTTGCCTTCCCATACTGGTGGCGAAGCAGATCGAAGAAAACAGATCTTA
131 ATCAGAGATAACAGATCTTGCCTTCCCATACTGGTGGCGAAGTAGATCAAAGAAAACAGATCTTG
* ** * * * * * ** **
48993714 CCTTCCCATACTGGTGCCGAAGCAGATCGA-AGAAAACAGATCTTGTCTTCATGTACTGG-CATG
196 TCTTCATATACTGGCG-TGAAGTAGATCGAGAGAAACCAGATCTTGCCTTCACATACTGGTCGCG
*
48993777 AAGTAGATC
260 AAGCAGATC
* * * *** * ** * * *
48993786 AAAGATAATAGATCTTGCCTTCCCATACTGG-TGGCGAAACAGATC-GAAGAAAACAGATCTTGT
1 AAAGAAAACAGATCTTGTCTTCATGTACTGGCT--TGAAGTAGATCAG-AGATACCAGATCTTGC
*** * * * * * *
48993849 CTTCATGTATTGG-CGTGAAGTAGATCAAAGATAA-CAGATCTTGTCTTTCCA--TACTGGTGGT
63 CTTCCCATACTGGTGGCGAAGCAGGTCAAAGA-AAGCAGATCTTGTC-TT-CATGTACTGG-CGT
** ** *** * * **
48993910 GAAACAGATC-GAAGA-AAGCAGATCTTATCTTCATGTACTGG-CGTGAAGTAGATCAAAGGTAA
124 GAAGTAGATCAG-AGATAA-CAGATCTTGCCTTCCCATACTGGTGGCGAAGTAGATCAAAGAAAA
** * * ** * * **
48993972 CAGATCTTGTCTTCCCATACTGGTGGCGAAACAGATCGA-AGAAAGCAGATCTTGTCTTCATGTA
187 CAGATCTTGTCTTCATATACTGG-CGTGAAGTAGATCGAGAGAAACCAGATCTTGCCTTCACATA
* *
48994036 CTGG-CGTGAAGTAGATC
251 CTGGTCGCGAAGCAGATC
** * *** * * * * *
48994053 AAAGGTAACATATCTTGTCTTCCCATACTGG-TGGCGAAGTAGATCGAAGGAAAAAGCGGATCTT
1 AAAGAAAACAGATCTTGTCTTCATGTACTGGCT--TGAAGTAGATC--A-GAGATACCAGATCTT
** *** * * * * * *** * *
48994117 ATCTTCATGTACT-GTCGTGAAGTAGATCAAAGATAA-CAGACCTTGTCTTCCCATACTGGTGGC
61 GCCTTCCCATACTGGTGGCGAAGCAGGTCAAAGA-AAGCAGATCTTGTCTTCATGTACTGG-CGT
* * *** * * * * *
48994180 GAAGTAGATC-GAAGA-AAGTAGATCTTGTCTTCATGTATTGG-CGTGAAGTAGATCGAAGAAAG
124 GAAGTAGATCAG-AGATAA-CAGATCTTGCCTTCCCATACTGGTGGCGAAGTAGATCAAAGAAAA
* * * * * ** ** *
48994242 CGGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGA-AGAAAGCGGATCTTATCTTCATGTAT
187 CAGATCTTGTCTTCATATACTGGCGTGAAGTAGATCGAGAGAAACCAGATCTTGCCTTCACATAC
** *
48994306 TGG-CATGAAGTAGATC
252 TGGTCGCGAAGCAGATC
* * * * * * * *
48994322 GAGGAAAGCAGATCTTGTCTTCATGTATTGG-TGTGAAGTAGATC-GAAGAAAGCAAATCTTGTC
1 AAAGAAAACAGATCTTGTCTTCATGTACTGGCT-TGAAGTAGATCAG-AGATACCAGATCTTGCC
*** * * * * * * * *
48994385 TTCATGTATTGG-CGTGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGCATGAAGT
64 TTCCCATACTGGTGGCGAAGCAGGTCAAAGAAAGCAGATCTTGTCTTCATGTACTGGCGTGAAGT
* * * * * *
48994449 AGATCAAAGAGAGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGAAGA
129 AGATCAGAGATAACAGATCTTGCCTTCCCATACTGGTGGCGAAGTAGATCAAAGA
48994504 TACAAGTCTT
Statistics
Matches: 1324, Mismatches: 159, Indels: 75
0.85 0.10 0.05
Matches are distributed among these distances:
264 35 0.03
265 74 0.06
266 7 0.01
267 801 0.60
268 195 0.15
269 78 0.06
270 133 0.10
271 1 0.00
ACGTcount: A:0.30, C:0.19, G:0.25, T:0.26
Consensus pattern (268 bp):
AAAGAAAACAGATCTTGTCTTCATGTACTGGCTTGAAGTAGATCAGAGATACCAGATCTTGCCTT
CCCATACTGGTGGCGAAGCAGGTCAAAGAAAGCAGATCTTGTCTTCATGTACTGGCGTGAAGTAG
ATCAGAGATAACAGATCTTGCCTTCCCATACTGGTGGCGAAGTAGATCAAAGAAAACAGATCTTG
TCTTCATATACTGGCGTGAAGTAGATCGAGAGAAACCAGATCTTGCCTTCACATACTGGTCGCGA
AGCAGATC
Found at i:48994302 original size:88 final size:88
Alignment explanation
Indices: 48993606--48994475 Score: 885
Period size: 89 Copynumber: 9.8 Consensus size: 88
48993596 GCGAAGCAGG
** * *
48993606 TCAAAGAAAGCAGATCTTGTCTTCATGTACTGG-CGTGAAGTAGATC-AGAGATAA-CAGATCTT
1 TCAAAGAAA-CAGATCTTGTCTTCACATACTGGTGGCGAAGTAGATCGA-AGA-AAGCAGATCTT
* *** * * * *
48993668 GCCTTCCCATACTGGTGGCGAAGCAGA
63 GTCTTCATGTATTGG-CGTGAAGTAGA
* ** * * * *
48993695 TCGAAGAAAACAGATCTTACCTTCCCATACTGGTGCCGAAGCAGATCGAAGAAAACAGATCTTGT
1 TCAAAG-AAACAGATCTTGTCTTCACATACTGGTGGCGAAGTAGATCGAAGAAAGCAGATCTTGT
* *
48993760 CTTCATGTACTGGCATGAAGTAGA
65 CTTCATGTATTGGCGTGAAGTAGA
* * * ** *
48993784 TCAAAGATAATAGATCTTGCCTTCCCATACTGGTGGCGAAACAGATCGAAGAAAACAGATCTTGT
1 TCAAAGA-AACAGATCTTGTCTTCACATACTGGTGGCGAAGTAGATCGAAGAAAGCAGATCTTGT
48993849 CTTCATGTATTGGCGTGAAGTAGA
65 CTTCATGTATTGGCGTGAAGTAGA
* ** *
48993873 TCAAAGATAACAGATCTTGTCTTTC-CATACTGGTGGTGAAACAGATCGAAGAAAGCAGATCTTA
1 TCAAAGA-AACAGATCTTGTC-TTCACATACTGGTGGCGAAGTAGATCGAAGAAAGCAGATCTTG
*
48993937 TCTTCATGTACTGGCGTGAAGTAGA
64 TCTTCATGTATTGGCGTGAAGTAGA
* * **
48993962 TCAAAGGTAACAGATCTTGTCTTCCCATACTGGTGGCGAAACAGATCGAAGAAAGCAGATCTTGT
1 TCAAA-GAAACAGATCTTGTCTTCACATACTGGTGGCGAAGTAGATCGAAGAAAGCAGATCTTGT
*
48994027 CTTCATGTACTGGCGTGAAGTAGA
65 CTTCATGTATTGGCGTGAAGTAGA
* * * *
48994051 TCAAAGGTAACATATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGGAAAAAGCGGATCT
1 TCAAA-GAAACAGATCTTGTCTTCACATACTGGTGGCGAAGTAGATCGAA-G--AAAGCAGATCT
* * *
48994116 TATCTTCATGTACTGTCGTGAAGTAGA
62 TGTCTTCATGTATTGGCGTGAAGTAGA
* * *
48994143 TCAAAGATAACAGACCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGAAAGTAGATCTTGT
1 TCAAAGA-AACAGATCTTGTCTTCACATACTGGTGGCGAAGTAGATCGAAGAAAGCAGATCTTGT
48994208 CTTCATGTATTGGCGTGAAGTAGA
65 CTTCATGTATTGGCGTGAAGTAGA
* * ** * * * * *
48994232 TCGAAGAAAGCGGATCTTGTCTTCATGTATTGG-CGTGAAGTAGATCGAAGAAAGCGGATCTTAT
1 TCAAAGAAA-CAGATCTTGTCTTCACATACTGGTGGCGAAGTAGATCGAAGAAAGCAGATCTTGT
*
48994296 CTTCATGTATTGGCATGAAGTAGA
65 CTTCATGTATTGGCGTGAAGTAGA
* * ** * * *
48994320 TCGAGGAAAGCAGATCTTGTCTTCATGTATTGGT-GTGAAGTAGATCGAAGAAAGCAAATCTTGT
1 TCAAAGAAA-CAGATCTTGTCTTCACATACTGGTGGCGAAGTAGATCGAAGAAAGCAGATCTTGT
48994384 CTTCATGTATTGGCGTGAAGTAGA
65 CTTCATGTATTGGCGTGAAGTAGA
* ** * *
48994408 TCGAAGAAAGCAGATCTTGTCTTCATGTA-T--TGGCATGAAGTAGATCAAAGAGAGCAGATCTT
1 TCAAAGAAA-CAGATCTTGTCTTCACATACTGGTGGC--GAAGTAGATCGAAGAAAGCAGATCTT
48994470 GTCTTC
63 GTCTTC
48994476 CCATATTGGT
Statistics
Matches: 692, Mismatches: 72, Indels: 35
0.87 0.09 0.04
Matches are distributed among these distances:
85 1 0.00
86 1 0.00
87 1 0.00
88 193 0.28
89 374 0.54
90 39 0.06
91 3 0.00
92 80 0.12
ACGTcount: A:0.31, C:0.17, G:0.24, T:0.27
Consensus pattern (88 bp):
TCAAAGAAACAGATCTTGTCTTCACATACTGGTGGCGAAGTAGATCGAAGAAAGCAGATCTTGTC
TTCATGTATTGGCGTGAAGTAGA
Found at i:48999790 original size:11 final size:12
Alignment explanation
Indices: 48999775--48999807 Score: 50
Period size: 11 Copynumber: 2.8 Consensus size: 12
48999765 TAAAGAAAGT
48999775 TAAAATTTTAAA
1 TAAAATTTTAAA
48999787 -AAAATTTTAAA
1 TAAAATTTTAAA
48999798 TAATAATTTT
1 TAA-AATTTT
48999808 TGGGACCTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
11 11 0.58
12 2 0.11
13 6 0.32
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (12 bp):
TAAAATTTTAAA
Found at i:49000006 original size:17 final size:17
Alignment explanation
Indices: 48999981--49000013 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
48999971 ACAATTTCAC
48999981 TCAACTCCATGTTATAA
1 TCAACTCCATGTTATAA
*
48999998 TCAATTCCATGTTATA
1 TCAACTCCATGTTATA
49000014 GCTATTAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.33, C:0.21, G:0.06, T:0.39
Consensus pattern (17 bp):
TCAACTCCATGTTATAA
Found at i:49021288 original size:23 final size:23
Alignment explanation
Indices: 49021262--49021306 Score: 90
Period size: 23 Copynumber: 2.0 Consensus size: 23
49021252 ATCCCGAATC
49021262 GGTCTAACCTTATCCTCAGTCTT
1 GGTCTAACCTTATCCTCAGTCTT
49021285 GGTCTAACCTTATCCTCAGTCT
1 GGTCTAACCTTATCCTCAGTCT
49021307 AACACAACAG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.18, C:0.31, G:0.13, T:0.38
Consensus pattern (23 bp):
GGTCTAACCTTATCCTCAGTCTT
Found at i:49023187 original size:15 final size:15
Alignment explanation
Indices: 49023167--49023195 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
49023157 AAACAGTCTC
49023167 ATGAACATCAGCCTT
1 ATGAACATCAGCCTT
49023182 ATGAACATCAGCCT
1 ATGAACATCAGCCT
49023196 CCCTAACCTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.34, C:0.28, G:0.14, T:0.24
Consensus pattern (15 bp):
ATGAACATCAGCCTT
Found at i:49028432 original size:20 final size:20
Alignment explanation
Indices: 49028409--49028448 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
49028399 CATTTTAGAG
49028409 TTAAAATAAAATTAT-TTTTT
1 TTAAAA-AAAATTATCTTTTT
*
49028429 TTAAAAAACATTATCTTTTT
1 TTAAAAAAAATTATCTTTTT
49028449 ACTTTGCTCT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 7 0.39
20 11 0.61
ACGTcount: A:0.42, C:0.05, G:0.00, T:0.53
Consensus pattern (20 bp):
TTAAAAAAAATTATCTTTTT
Found at i:49028447 original size:19 final size:20
Alignment explanation
Indices: 49028409--49028448 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
49028399 CATTTTAGAG
*
49028409 TTAAAATAAAATTATTTTTT
1 TTAAAATAAAATTATCTTTT
*
49028429 TTAAAA-AACATTATCTTTT
1 TTAAAATAAAATTATCTTTT
49028448 T
1 T
49028449 ACTTTGCTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 12 0.67
20 6 0.33
ACGTcount: A:0.42, C:0.05, G:0.00, T:0.53
Consensus pattern (20 bp):
TTAAAATAAAATTATCTTTT
Found at i:49028780 original size:28 final size:27
Alignment explanation
Indices: 49028739--49028811 Score: 101
Period size: 28 Copynumber: 2.7 Consensus size: 27
49028729 TTAGACGTTT
* *
49028739 AAAAATTATTTTTTTAATTTTATTTTC
1 AAAAATTAATTTTTTAATTTTAATTTC
*
49028766 AAAAATTTAATTTTTTACTTTTAATTTC
1 AAAAA-TTAATTTTTTAATTTTAATTTC
*
49028794 AAAAATTAATTCTTTAAT
1 AAAAATTAATTTTTTAAT
49028812 AATTGAAGTT
Statistics
Matches: 40, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
27 16 0.40
28 24 0.60
ACGTcount: A:0.38, C:0.05, G:0.00, T:0.56
Consensus pattern (27 bp):
AAAAATTAATTTTTTAATTTTAATTTC
Found at i:49029350 original size:27 final size:27
Alignment explanation
Indices: 49029320--49029377 Score: 89
Period size: 27 Copynumber: 2.1 Consensus size: 27
49029310 CTGATAGGCG
*
49029320 GCACCAATGGTGTCATTCCCATGGGCA
1 GCACCAATGGTGCCATTCCCATGGGCA
* *
49029347 GCACCGATGGTGCCATTCCCATGGGCG
1 GCACCAATGGTGCCATTCCCATGGGCA
49029374 GCAC
1 GCAC
49029378 TAGTTGTGTT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.19, C:0.33, G:0.29, T:0.19
Consensus pattern (27 bp):
GCACCAATGGTGCCATTCCCATGGGCA
Found at i:49029708 original size:16 final size:17
Alignment explanation
Indices: 49029667--49029713 Score: 60
Period size: 16 Copynumber: 2.7 Consensus size: 17
49029657 AGTAAAAAAC
*
49029667 TAGTATTATTATTATGGT
1 TAGTATTATT-TTATAGT
49029685 TAGTTATTATTTT-TAGT
1 TAG-TATTATTTTATAGT
49029702 TAGTATTATTTT
1 TAGTATTATTTT
49029714 GAGTATAAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
16 9 0.33
17 6 0.22
18 5 0.19
19 7 0.26
ACGTcount: A:0.26, C:0.00, G:0.13, T:0.62
Consensus pattern (17 bp):
TAGTATTATTTTATAGT
Found at i:49035227 original size:11 final size:11
Alignment explanation
Indices: 49035211--49035236 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
49035201 CTTATGATTG
49035211 AATTGTATCCA
1 AATTGTATCCA
49035222 AATTGTATCCA
1 AATTGTATCCA
49035233 AATT
1 AATT
49035237 AAGTTATAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.38, C:0.15, G:0.08, T:0.38
Consensus pattern (11 bp):
AATTGTATCCA
Found at i:49038064 original size:286 final size:286
Alignment explanation
Indices: 49037469--49038420 Score: 1640
Period size: 286 Copynumber: 3.3 Consensus size: 286
49037459 GCATGTTGAA
49037469 AAAAAAGTTAGTAAAACACTCTTACTTCGGCCATTTCTTCGTATTTTTTTCTCCGCATTTTATTA
1 AAAAAAGTTAGTAAAACACTCTTACTTCGGCCATTTCTTCGTATTTTTTTCTCCGCATTTTATTA
49037534 CTTTAAAAAATTTCATAATTTCTAATTTTATAAATTTATTAATTTAGTGTGTTTTTTAAATTAAT
66 CTTTAAAAAATTTCATAATTTCTAATTTTATAAATTTATTAATTTAGTGTGTTTTTTAAATTAAT
* *
49037599 TTAGTGT-AAAAAAACGCTTATTCCTGCCCTTTGCTCGTATTATTTTCCCGAATTTTATTACTTT
131 TTAGTGTAAAAAAAACCCTTATTCCTGCCATTTGCTCGTATTATTTTCCCGAATTTTATTACTTT
* *
49037663 CAGTAAAAAAAATTATTTTCGTATTTTATTATTTTATATTATTTCAGTACATTTTGTTTGAAATA
196 CAATAAAAAAATTTATTTTCGTATTTTATTATTTTATATTATTTCAGTACATTTTGTTTGAAATA
49037728 TTTGTATTAATTATTTCTGAATTTTT
261 TTTGTATTAATTATTTCTGAATTTTT
* *
49037754 AAAAAAGTTAGTAAAACACTCTTACTTCGGCCATTTCTTCGTATTTTTTTCTCTGTATTTTATTA
1 AAAAAAGTTAGTAAAACACTCTTACTTCGGCCATTTCTTCGTATTTTTTTCTCCGCATTTTATTA
*
49037819 GTTTAAAAAATTTCATAATTTCTAATTTTATAAATTTATTAATTTAGTGTGTTTTTTAAATTAAT
66 CTTTAAAAAATTTCATAATTTCTAATTTTATAAATTTATTAATTTAGTGTGTTTTTTAAATTAAT
*
49037884 TTAGTGTAAAAAAAACCCTTATTCCTGCCATTTGCTCATATTATTTTCCCGAATTTTATTACTTT
131 TTAGTGTAAAAAAAACCCTTATTCCTGCCATTTGCTCGTATTATTTTCCCGAATTTTATTACTTT
* *
49037949 CAATAAAAAAATTTATTTTCGTATTTTATTATTTTATATTATTTCAGTAAATTTTATTTGAAATA
196 CAATAAAAAAATTTATTTTCGTATTTTATTATTTTATATTATTTCAGTACATTTTGTTTGAAATA
*
49038014 TTTGTATTAATTATTTCTAAATTTTT
261 TTTGTATTAATTATTTCTGAATTTTT
* * * *
49038040 AAAAAATTTAGTATAATACTCTTACTTCGGCCATTTCTTTGTATTTTTTTCTCCGCATTTTATTA
1 AAAAAAGTTAGTAAAACACTCTTACTTCGGCCATTTCTTCGTATTTTTTTCTCCGCATTTTATTA
* *
49038105 CTTTAAAAAATTTCATAATTTCTAATTTTATAAAATTATTAATTTAATGTGTTTTTTAAATTAAT
66 CTTTAAAAAATTTCATAATTTCTAATTTTATAAATTTATTAATTTAGTGTGTTTTTTAAATTAAT
* * * *
49038170 TTAGTGTAAAAAAAA-CCTTATTCATGTCATTTGCTCGTATTATTTCCCCAAATTTTATTACTTT
131 TTAGTGTAAAAAAAACCCTTATTCCTGCCATTTGCTCGTATTATTTTCCCGAATTTTATTACTTT
*
49038234 CAAT-AAAAAATTTATTTTCGTATTTTATTATTTTATATTATTTCAGTACATTTTGTTTCAAATA
196 CAATAAAAAAATTTATTTTCGTATTTTATTATTTTATATTATTTCAGTACATTTTGTTTGAAATA
49038298 TTTGTATTAATTATTTCTGAATTTTT
261 TTTGTATTAATTATTTCTGAATTTTT
* * * * *
49038324 AAAAAATTTTGTAAAACACTCTTACCTCAGCCATATCTTCGTATTTTTTTCTCCGCATTTTATTA
1 AAAAAAGTTAGTAAAACACTCTTACTTCGGCCATTTCTTCGTATTTTTTTCTCCGCATTTTATTA
49038389 CTTTAAAAAATTTCATAATTTCTAATTTTATA
66 CTTTAAAAAATTTCATAATTTCTAATTTTATA
49038421 TTTTTACTTT
Statistics
Matches: 630, Mismatches: 36, Indels: 3
0.94 0.05 0.00
Matches are distributed among these distances:
284 172 0.27
285 182 0.29
286 276 0.44
ACGTcount: A:0.32, C:0.12, G:0.07, T:0.50
Consensus pattern (286 bp):
AAAAAAGTTAGTAAAACACTCTTACTTCGGCCATTTCTTCGTATTTTTTTCTCCGCATTTTATTA
CTTTAAAAAATTTCATAATTTCTAATTTTATAAATTTATTAATTTAGTGTGTTTTTTAAATTAAT
TTAGTGTAAAAAAAACCCTTATTCCTGCCATTTGCTCGTATTATTTTCCCGAATTTTATTACTTT
CAATAAAAAAATTTATTTTCGTATTTTATTATTTTATATTATTTCAGTACATTTTGTTTGAAATA
TTTGTATTAATTATTTCTGAATTTTT
Found at i:49038875 original size:44 final size:44
Alignment explanation
Indices: 49038826--49038942 Score: 157
Period size: 44 Copynumber: 2.6 Consensus size: 44
49038816 CTCCCCTCTT
* *
49038826 CTTCTTCTTC-TTCTTTTTT-TTCTCATCTCATTTCCTTTTGTTTC
1 CTTCTTTTTCTTTCTTTTTTCTTCT--TCTCATTTCCTTTTCTTTC
* *
49038870 GTTCTTTTTCTTTCTTTTTTCTTCTTCTCCTTTCCTTTTCTTTC
1 CTTCTTTTTCTTTCTTTTTTCTTCTTCTCATTTCCTTTTCTTTC
49038914 CTTCTTTTTCTTTCTTTCTTTCTTCTTCT
1 CTTCTTTTTCTTTCTTT-TTTCTTCTTCT
49038943 TTCCCTCTCC
Statistics
Matches: 65, Mismatches: 5, Indels: 5
0.87 0.07 0.07
Matches are distributed among these distances:
44 41 0.63
45 20 0.31
46 4 0.06
ACGTcount: A:0.02, C:0.27, G:0.02, T:0.69
Consensus pattern (44 bp):
CTTCTTTTTCTTTCTTTTTTCTTCTTCTCATTTCCTTTTCTTTC
Found at i:49038883 original size:14 final size:14
Alignment explanation
Indices: 49038856--49038945 Score: 85
Period size: 14 Copynumber: 6.3 Consensus size: 14
49038846 TCTCATCTCA
* *
49038856 TTTCCTTTTGTTTC
1 TTTCTTTTTCTTTC
*
49038870 GTTCTTTTTCTTTC
1 TTTCTTTTTCTTTC
49038884 TTT-TTTCTTCTTCTCC
1 TTTCTTT-TTCTT-T-C
*
49038900 TTTCCTTTTCTTTC
1 TTTCTTTTTCTTTC
*
49038914 CTTCTTTTTCTTTC
1 TTTCTTTTTCTTTC
49038928 TTTCTTTCTTC-TTC
1 TTTCTTT-TTCTTTC
49038942 TTTC
1 TTTC
49038946 CCTCTCCTTC
Statistics
Matches: 63, Mismatches: 8, Indels: 10
0.78 0.10 0.12
Matches are distributed among these distances:
13 3 0.05
14 44 0.70
15 5 0.08
16 9 0.14
17 2 0.03
ACGTcount: A:0.00, C:0.27, G:0.02, T:0.71
Consensus pattern (14 bp):
TTTCTTTTTCTTTC
Found at i:49038927 original size:18 final size:18
Alignment explanation
Indices: 49038906--49038945 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
49038896 CTCCTTTCCT
*
49038906 TTTCTTTCCTTCTTTTTC
1 TTTCTTTCCTTCTTCTTC
*
49038924 TTTCTTTCTTTCTTCTTC
1 TTTCTTTCCTTCTTCTTC
49038942 TTTC
1 TTTC
49038946 CCTCTCCTTC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (18 bp):
TTTCTTTCCTTCTTCTTC
Found at i:49040211 original size:13 final size:13
Alignment explanation
Indices: 49040185--49040233 Score: 55
Period size: 13 Copynumber: 3.7 Consensus size: 13
49040175 ATCTCGTTAC
**
49040185 ATAAAAAAGAAAA
1 ATAAAAAATTAAA
49040198 ATAAAAAATTAAA
1 ATAAAAAATTAAA
49040211 ACT-AAAAATCTAAA
1 A-TAAAAAAT-TAAA
49040225 ATAAAAAAT
1 ATAAAAAAT
49040234 AGTAATTTTA
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
13 19 0.61
14 12 0.39
ACGTcount: A:0.76, C:0.04, G:0.02, T:0.18
Consensus pattern (13 bp):
ATAAAAAATTAAA
Found at i:49043119 original size:21 final size:21
Alignment explanation
Indices: 49043086--49043125 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
49043076 ATATATTGTT
*
49043086 TATATATAGTATACGTATGCA
1 TATATATAGTATACATATGCA
**
49043107 TATATATTTTATACATATG
1 TATATATAGTATACATATG
49043126 TTCTTATTTT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.38, C:0.07, G:0.10, T:0.45
Consensus pattern (21 bp):
TATATATAGTATACATATGCA
Found at i:49043268 original size:19 final size:20
Alignment explanation
Indices: 49043230--49043269 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
49043220 CGTATAAATC
* *
49043230 TATATTTTTTAATACTTACT
1 TATATTTTTTAACACATACT
49043250 TATA-TTTTTAACACATACT
1 TATATTTTTTAACACATACT
49043269 T
1 T
49043270 TCTAATTTAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 14 0.78
20 4 0.22
ACGTcount: A:0.33, C:0.12, G:0.00, T:0.55
Consensus pattern (20 bp):
TATATTTTTTAACACATACT
Found at i:49050313 original size:5 final size:6
Alignment explanation
Indices: 49050296--49050322 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
49050286 TATAGTCACA
49050296 CTCCCC CTCCCC CTCCCC CTCCCC CTC
1 CTCCCC CTCCCC CTCCCC CTCCCC CTC
49050323 TTTTAACCCA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.00, C:0.81, G:0.00, T:0.19
Consensus pattern (6 bp):
CTCCCC
Found at i:49059439 original size:13 final size:14
Alignment explanation
Indices: 49059421--49059458 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
49059411 TTTTTATAGT
49059421 TCTTCATAATA-TA
1 TCTTCATAATATTA
*
49059434 TCTTCAAAATATTA
1 TCTTCATAATATTA
*
49059448 TATTCATAATA
1 TCTTCATAATA
49059459 AATAGGGCCT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
13 10 0.48
14 11 0.52
ACGTcount: A:0.42, C:0.13, G:0.00, T:0.45
Consensus pattern (14 bp):
TCTTCATAATATTA
Found at i:49061140 original size:3 final size:3
Alignment explanation
Indices: 49061121--49061170 Score: 59
Period size: 3 Copynumber: 17.3 Consensus size: 3
49061111 AATTTATTTC
* * *
49061121 ATA AT- ATA ATA ACA ATA ATA TTA ATA ATA ACA ATA ATA ATA A-A ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
49061167 ATA A
1 ATA A
49061171 AATGTCATTT
Statistics
Matches: 39, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
2 4 0.10
3 35 0.90
ACGTcount: A:0.66, C:0.04, G:0.00, T:0.30
Consensus pattern (3 bp):
ATA
Found at i:49061149 original size:18 final size:18
Alignment explanation
Indices: 49061121--49061167 Score: 71
Period size: 18 Copynumber: 2.7 Consensus size: 18
49061111 AATTTATTTC
49061121 ATAAT-ATAATAACAATA
1 ATAATAATAATAACAATA
*
49061138 ATATTAATAATAACAATA
1 ATAATAATAATAACAATA
49061156 ATAATAA-AATAA
1 ATAATAATAATAA
49061168 TAAAATGTCA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
17 9 0.33
18 18 0.67
ACGTcount: A:0.66, C:0.04, G:0.00, T:0.30
Consensus pattern (18 bp):
ATAATAATAATAACAATA
Found at i:49063508 original size:42 final size:42
Alignment explanation
Indices: 49063444--49063526 Score: 139
Period size: 42 Copynumber: 2.0 Consensus size: 42
49063434 TATCTTGAGT
*
49063444 AGGGCTTGAGTTATGTAATTGAAATTGGAAAATAACATATAC
1 AGGGCTTGAGTTATGTAATTGAAATTAGAAAATAACATATAC
* *
49063486 AGGGGTTGAGTTATGTAATTGAAATTAGAAAATAGCATATA
1 AGGGCTTGAGTTATGTAATTGAAATTAGAAAATAACATATA
49063527 TTGGTTATGT
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
42 38 1.00
ACGTcount: A:0.41, C:0.05, G:0.23, T:0.31
Consensus pattern (42 bp):
AGGGCTTGAGTTATGTAATTGAAATTAGAAAATAACATATAC
Found at i:49065098 original size:30 final size:30
Alignment explanation
Indices: 49065058--49065142 Score: 91
Period size: 30 Copynumber: 2.8 Consensus size: 30
49065048 GAATAAGTTT
* *
49065058 CTCACACAAGCTGACATTATATCAGGGTTG
1 CTCACACAAGCTGACATTATATCAAGATTG
* * *
49065088 TTCTCACAAGCAGACATTA-ATTCAAGATTG
1 CTCACACAAGCTGACATTATA-TCAAGATTG
* *
49065118 CTCACACAAGATGAAATTATATCAA
1 CTCACACAAGCTGACATTATATCAA
49065143 TGAGATCCAT
Statistics
Matches: 43, Mismatches: 10, Indels: 4
0.75 0.18 0.07
Matches are distributed among these distances:
29 1 0.02
30 41 0.95
31 1 0.02
ACGTcount: A:0.38, C:0.21, G:0.14, T:0.27
Consensus pattern (30 bp):
CTCACACAAGCTGACATTATATCAAGATTG
Found at i:49071581 original size:36 final size:36
Alignment explanation
Indices: 49071532--49071636 Score: 113
Period size: 36 Copynumber: 2.9 Consensus size: 36
49071522 GGATGAGCGC
* * * *
49071532 ATCAGTTAGAATAGATCCGAAAAGCTGCTGAACGAA
1 ATCAGTCAGAATAGATCCGAAAGGCTACTGAACAAA
* ** * *
49071568 ATCAGTCAAAATAGATTTGAAAGGTTACTAAACAAA
1 ATCAGTCAGAATAGATCCGAAAGGCTACTGAACAAA
49071604 ATCAGTCAGAATAGA-CTCGAAAGGCTACTGAAC
1 ATCAGTCAGAATAGATC-CGAAAGGCTACTGAAC
49071637 TGAATAGAGT
Statistics
Matches: 54, Mismatches: 14, Indels: 2
0.77 0.20 0.03
Matches are distributed among these distances:
36 54 1.00
ACGTcount: A:0.44, C:0.16, G:0.19, T:0.21
Consensus pattern (36 bp):
ATCAGTCAGAATAGATCCGAAAGGCTACTGAACAAA
Found at i:49075322 original size:80 final size:80
Alignment explanation
Indices: 49075189--49075348 Score: 302
Period size: 80 Copynumber: 2.0 Consensus size: 80
49075179 ATTTATGAAG
*
49075189 TTTACATTGTTTATAAAATCCATGAGGGATTAATCCTCTTATGAGGGATTAACGAGTGGACGTGT
1 TTTACATTGTTTATAAAATCCATAAGGGATTAATCCTCTTATGAGGGATTAACGAGTGGACGTGT
49075254 GATTAATTAAATTCT
66 GATTAATTAAATTCT
*
49075269 TTTACATTGTTTATAAAATCCATAAGGGATTAATCCTTTTATGAGGGATTAACGAGTGGACGTGT
1 TTTACATTGTTTATAAAATCCATAAGGGATTAATCCTCTTATGAGGGATTAACGAGTGGACGTGT
49075334 GATTAATTAAATTCT
66 GATTAATTAAATTCT
49075349 ATGTAGGGTT
Statistics
Matches: 78, Mismatches: 2, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
80 78 1.00
ACGTcount: A:0.32, C:0.11, G:0.19, T:0.38
Consensus pattern (80 bp):
TTTACATTGTTTATAAAATCCATAAGGGATTAATCCTCTTATGAGGGATTAACGAGTGGACGTGT
GATTAATTAAATTCT
Found at i:49078844 original size:50 final size:50
Alignment explanation
Indices: 49078782--49079168 Score: 445
Period size: 50 Copynumber: 7.7 Consensus size: 50
49078772 TCACTCGATA
*
49078782 CACGTAGTAGCCTTCACATAGTACTAGACACGTGATCAAGTTTTACGGTT
1 CACGTAGTAGCCTTCACATAGTACTACACACGTGATCAAGTTTTACGGTT
* *
49078832 CACGTAGTAGCCTTCACATAGTACTACACACATGATCAGGTTTTACGGTT
1 CACGTAGTAGCCTTCACATAGTACTACACACGTGATCAAGTTTTACGGTT
* * * *
49078882 TACATAGTAGCCTTCAAATAGTACTATACACGTGATCAAGTTTTACGGTT
1 CACGTAGTAGCCTTCACATAGTACTACACACGTGATCAAGTTTTACGGTT
* * *
49078932 CATGTAGTAGCCTTCACTTAGTACTACACACGTGATCAAGTTTTACGGTA
1 CACGTAGTAGCCTTCACATAGTACTACACACGTGATCAAGTTTTACGGTT
* * * * *** *
49078982 CACATAGTAGCCTTCACTTAGTACTACACATGTAATCATCATTTATCGATT
1 CACGTAGTAGCCTTCACATAGTACTACACACGTGATCAAGTTTTA-CGGTT
* * * * *
49079033 CACGTAGTAGCCTTCACACAGTACTACACACATGACCAAAGCTTCT-CGGTA
1 CACGTAGTAGCCTTCACATAGTACTACACACGTGATC-AAG-TTTTACGGTT
* * * * * *
49079084 CACATTGTAGCCTTCACTTAGTACTACACATGTGA-CAATTATTTATCGGTA
1 CACGTAGTAGCCTTCACATAGTACTACACACGTGATCAAGT-TTTA-CGGTT
*
49079135 CACGTAGTAGCCTTCACACAGTACTACACACGTG
1 CACGTAGTAGCCTTCACATAGTACTACACACGTG
49079169 TTCACCGATG
Statistics
Matches: 280, Mismatches: 51, Indels: 11
0.82 0.15 0.03
Matches are distributed among these distances:
48 1 0.00
49 4 0.01
50 173 0.62
51 99 0.35
52 1 0.00
53 2 0.01
ACGTcount: A:0.30, C:0.24, G:0.16, T:0.30
Consensus pattern (50 bp):
CACGTAGTAGCCTTCACATAGTACTACACACGTGATCAAGTTTTACGGTT
Found at i:49082583 original size:49 final size:49
Alignment explanation
Indices: 49082527--49082651 Score: 207
Period size: 49 Copynumber: 2.6 Consensus size: 49
49082517 TTTATTTTCT
49082527 CGATGCCATAGTCCAA-TAATGGTCTTACACATAATCACATATCACATAC
1 CGATGCCATAGTCCAACT-ATGGTCTTACACATAATCACATATCACATAC
* *
49082576 CGATGCCATAGCCCAACTATGGTCTTACACGTAATCACATATCACATAC
1 CGATGCCATAGTCCAACTATGGTCTTACACATAATCACATATCACATAC
*
49082625 CGATGTCATAGTCCAACTATGGTCTTA
1 CGATGCCATAGTCCAACTATGGTCTTA
49082652 TACTGAATCA
Statistics
Matches: 71, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
49 70 0.99
50 1 0.01
ACGTcount: A:0.33, C:0.27, G:0.13, T:0.27
Consensus pattern (49 bp):
CGATGCCATAGTCCAACTATGGTCTTACACATAATCACATATCACATAC
Found at i:49082661 original size:49 final size:49
Alignment explanation
Indices: 49082527--49082672 Score: 199
Period size: 49 Copynumber: 3.0 Consensus size: 49
49082517 TTTATTTTCT
49082527 CGATGCCATAGTCCAA-TAATGGTCTTACACAT-AATCACATATCACATAC
1 CGATGCCATAGTCCAACT-ATGGTCTTACAC-TGAATCACATATCACATAC
*
49082576 CGATGCCATAGCCCAACTATGGTCTTACAC-GTAATCACATATCACATAC
1 CGATGCCATAGTCCAACTATGGTCTTACACTG-AATCACATATCACATAC
* * *
49082625 CGATGTCATAGTCCAACTATGGTCTTATACTGAATCATATTATCACAT
1 CGATGCCATAGTCCAACTATGGTCTTACACTGAATCACA-TATCACAT
49082673 TTTCACATGT
Statistics
Matches: 87, Mismatches: 5, Indels: 9
0.86 0.05 0.09
Matches are distributed among these distances:
49 77 0.89
50 10 0.11
ACGTcount: A:0.34, C:0.26, G:0.12, T:0.29
Consensus pattern (49 bp):
CGATGCCATAGTCCAACTATGGTCTTACACTGAATCACATATCACATAC
Found at i:49084796 original size:50 final size:50
Alignment explanation
Indices: 49084738--49085120 Score: 414
Period size: 50 Copynumber: 7.6 Consensus size: 50
49084728 TCGATACACG
*
49084738 TAGTAGCCTTCACATAGTACTAGC-CACGTGATCAAGTTTTACGGTTCACG
1 TAGTAGCCTTCACATAGTACTA-CACACGTGATCAAGTTTTACGGTTCACA
* *
49084788 TAGTAGCCTTCACATAGTACTACACACATGATCAAGTTTTACGGTTTACA
1 TAGTAGCCTTCACATAGTACTACACACGTGATCAAGTTTTACGGTTCACA
* *
49084838 TAGTAGCCTTCAAATAGTACTATACACGTGATCAAGTTTTACGGTTCACA
1 TAGTAGCCTTCACATAGTACTACACACGTGATCAAGTTTTACGGTTCACA
* * *
49084888 TAGTAGCCTTCACTTAGTACTACACACATGATCAAGTTTTACGGTACACA
1 TAGTAGCCTTCACATAGTACTACACACGTGATCAAGTTTTACGGTTCACA
** * * * *** *
49084938 TAGTAGCCTTCATTTAGTACTACACATGTAACCATCATTTATCGATTCACGA
1 TAGTAGCCTTCACATAGTACTACACACGTGATCAAGTTTTA-CGGTTCAC-A
* * *
49084990 -AGTAGCCTTCACATAGTACTACACACGTGACCAAAGCTTCT-CGGTACACA
1 TAGTAGCCTTCACATAGTACTACACACGTGATC-AAG-TTTTACGGTTCACA
* * * * * * * *
49085040 TTGTAGCCTCCACTTAGTACTACACATGTGA-CCATTATTTATCGGTACACG
1 TAGTAGCCTTCACATAGTACTACACACGTGATCAAGT-TTTA-CGGTTCACA
*
49085091 TAGTAGCCTTCACAGAGTACTACACACGTG
1 TAGTAGCCTTCACATAGTACTACACACGTG
49085121 TTCACCGATA
Statistics
Matches: 279, Mismatches: 45, Indels: 17
0.82 0.13 0.05
Matches are distributed among these distances:
48 1 0.00
49 4 0.01
50 171 0.61
51 99 0.35
52 2 0.01
53 2 0.01
ACGTcount: A:0.30, C:0.24, G:0.16, T:0.30
Consensus pattern (50 bp):
TAGTAGCCTTCACATAGTACTACACACGTGATCAAGTTTTACGGTTCACA
Found at i:49085603 original size:16 final size:16
Alignment explanation
Indices: 49085584--49085637 Score: 58
Period size: 16 Copynumber: 3.5 Consensus size: 16
49085574 CTTGACTCAA
49085584 ACTTTTGCACATTTAC
1 ACTTTTGCACATTTAC
* *
49085600 ACTTTTGC-C-TATAA
1 ACTTTTGCACATTTAC
* *
49085614 ACTTTTACATATTTAC
1 ACTTTTGCACATTTAC
49085630 ACTTTTGC
1 ACTTTTGC
49085638 CCCAAACCTC
Statistics
Matches: 29, Mismatches: 7, Indels: 4
0.73 0.17 0.10
Matches are distributed among these distances:
14 10 0.34
15 1 0.03
16 18 0.62
ACGTcount: A:0.26, C:0.22, G:0.06, T:0.46
Consensus pattern (16 bp):
ACTTTTGCACATTTAC
Found at i:49085618 original size:30 final size:30
Alignment explanation
Indices: 49085582--49085638 Score: 96
Period size: 30 Copynumber: 1.9 Consensus size: 30
49085572 TCCTTGACTC
*
49085582 AAACTTTTGCACATTTACACTTTTGCCTAT
1 AAACTTTTACACATTTACACTTTTGCCTAT
*
49085612 AAACTTTTACATATTTACACTTTTGCC
1 AAACTTTTACACATTTACACTTTTGCC
49085639 CCAAACCTCG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.28, C:0.23, G:0.05, T:0.44
Consensus pattern (30 bp):
AAACTTTTACACATTTACACTTTTGCCTAT
Found at i:49090819 original size:3 final size:3
Alignment explanation
Indices: 49090813--49090838 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
49090803 AATAATAGCA
49090813 ATG ATG ATG ATG ATG ATG ATG ATG AT
1 ATG ATG ATG ATG ATG ATG ATG ATG AT
49090839 AATAATAATA
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:0.31, T:0.35
Consensus pattern (3 bp):
ATG
Found at i:49090843 original size:3 final size:3
Alignment explanation
Indices: 49090837--49090872 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
49090827 GATGATGATG
49090837 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
49090873 GTGACAAAAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:49091047 original size:3 final size:3
Alignment explanation
Indices: 49091039--49091071 Score: 50
Period size: 3 Copynumber: 11.0 Consensus size: 3
49091029 ATAGACAATG
49091039 ATA ATA ATA ATA GATA A-A ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA
49091072 GTGAGAAAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
2 2 0.07
3 23 0.82
4 3 0.11
ACGTcount: A:0.67, C:0.00, G:0.03, T:0.30
Consensus pattern (3 bp):
ATA
Found at i:49091047 original size:21 final size:20
Alignment explanation
Indices: 49091022--49091072 Score: 52
Period size: 21 Copynumber: 2.5 Consensus size: 20
49091012 GTGCAATTTG
*
49091022 TAATATAATAGAC--AATGA
1 TAATATAATAGACAAAATAA
*
49091040 TAATAATAATAGATAAAATAA
1 TAAT-ATAATAGACAAAATAA
49091061 TAATAATAATAG
1 TAAT-ATAATAG
49091073 TGAGAAAAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
18 4 0.14
19 8 0.29
21 16 0.57
ACGTcount: A:0.61, C:0.02, G:0.08, T:0.29
Consensus pattern (20 bp):
TAATATAATAGACAAAATAA
Found at i:49093999 original size:3 final size:3
Alignment explanation
Indices: 49093993--49094026 Score: 59
Period size: 3 Copynumber: 11.3 Consensus size: 3
49093983 AGCATATGTT
*
49093993 ATA ATA ATT ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
49094027 ATGATAACAA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
ATA
Found at i:49095816 original size:41 final size:40
Alignment explanation
Indices: 49095759--49095877 Score: 127
Period size: 41 Copynumber: 2.9 Consensus size: 40
49095749 ATAATTTTTG
49095759 GGCCTTTAGCGGCGTTTTTTATAAAGCGCCGCTAATGCTC
1 GGCCTTTAGCGGCGTTTTTTATAAAGCGCCGCTAATGCTC
* *
49095799 TGGCCTTCAGCGGCGTTTTTGA-AGAAGCGCCG-TAATGCTC
1 -GGCCTTTAGCGGCGTTTTTTATA-AAGCGCCGCTAATGCTC
* *
49095839 GGTCTTTTAGCGGCATTTTTT-TGGAAAAGCGCCGCTAAT
1 GG-CCTTTAGCGGCGTTTTTTAT---AAAGCGCCGCTAAT
49095878 AATAAAATCT
Statistics
Matches: 65, Mismatches: 6, Indels: 12
0.78 0.07 0.14
Matches are distributed among these distances:
39 2 0.03
40 23 0.35
41 27 0.42
42 8 0.12
43 5 0.08
ACGTcount: A:0.18, C:0.23, G:0.27, T:0.32
Consensus pattern (40 bp):
GGCCTTTAGCGGCGTTTTTTATAAAGCGCCGCTAATGCTC
Found at i:49099335 original size:15 final size:15
Alignment explanation
Indices: 49099294--49099336 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
49099284 ACCACCAATT
49099294 TGTTTTCATTTCTAC
1 TGTTTTCATTTCTAC
*
49099309 TG-TTTCGGTTTCTAC
1 TGTTTTC-ATTTCTAC
*
49099324 TGTTTTCTTTTCT
1 TGTTTTCATTTCT
49099337 CTTATTTTGG
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
14 4 0.17
15 16 0.67
16 4 0.17
ACGTcount: A:0.07, C:0.19, G:0.12, T:0.63
Consensus pattern (15 bp):
TGTTTTCATTTCTAC
Found at i:49099973 original size:15 final size:16
Alignment explanation
Indices: 49099953--49099984 Score: 57
Period size: 15 Copynumber: 2.1 Consensus size: 16
49099943 ATAACTTATT
49099953 AATATATAT-TTTAAA
1 AATATATATCTTTAAA
49099968 AATATATATCTTTAAA
1 AATATATATCTTTAAA
49099984 A
1 A
49099985 TTTAATATGT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 9 0.56
16 7 0.44
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.44
Consensus pattern (16 bp):
AATATATATCTTTAAA
Found at i:49100000 original size:28 final size:26
Alignment explanation
Indices: 49099969--49100095 Score: 119
Period size: 22 Copynumber: 5.1 Consensus size: 26
49099959 TATTTTAAAA
49099969 ATATATATCTTTAAAATTT-A-A-TAT
1 ATATATAT-TTTAAAATTTAATATTAT
*
49099993 GTATATATTTTAAAATTTAAT-TTAT
1 ATATATATTTTAAAATTTAATATTAT
*
49100018 ATATATGTTTTGAAAATTTAATATATAT
1 ATATATATTTT-AAAATTTAATAT-TAT
* *
49100046 ACATATACTTTCAAAATTTAAT-TTAT
1 ATATATA-TTTTAAAATTTAATATTAT
49100072 AT-T-T-TTTTAAAATTTAATA-TAT
1 ATATATATTTTAAAATTTAATATTAT
49100094 AT
1 AT
49100096 TTTTAATATA
Statistics
Matches: 87, Mismatches: 8, Indels: 18
0.77 0.07 0.16
Matches are distributed among these distances:
22 18 0.21
23 10 0.11
24 9 0.10
25 13 0.15
26 14 0.16
27 2 0.02
28 18 0.21
29 3 0.03
ACGTcount: A:0.43, C:0.03, G:0.02, T:0.52
Consensus pattern (26 bp):
ATATATATTTTAAAATTTAATATTAT
Found at i:49100034 original size:49 final size:50
Alignment explanation
Indices: 49099969--49100095 Score: 165
Period size: 50 Copynumber: 2.6 Consensus size: 50
49099959 TATTTTAAAA
* *
49099969 ATATATATCTTTAAAATTTAATATGTAT-ATAT-TTT-AAAATTTAATTT
1 ATATATATTTTTAAAATTTAATATATATAATATATTTCAAAATTTAATTT
49100016 ATATATATGTTTTGAAAATTTAATATATATACATATACTTTCAAAATTTAATTT
1 ATATATAT-TTTT-AAAATTTAATATATATA-ATATA-TTTCAAAATTTAATTT
49100070 ATAT-T-TTTTTAAAATTTAATATATAT
1 ATATATATTTTTAAAATTTAATATATAT
49100096 TTTTAATATA
Statistics
Matches: 71, Mismatches: 2, Indels: 11
0.85 0.02 0.13
Matches are distributed among these distances:
47 8 0.11
48 3 0.04
49 15 0.21
50 16 0.23
51 8 0.11
52 1 0.01
53 4 0.06
54 16 0.23
ACGTcount: A:0.43, C:0.03, G:0.02, T:0.52
Consensus pattern (50 bp):
ATATATATTTTTAAAATTTAATATATATAATATATTTCAAAATTTAATTT
Found at i:49100044 original size:22 final size:20
Alignment explanation
Indices: 49099968--49100101 Score: 79
Period size: 20 Copynumber: 5.8 Consensus size: 20
49099958 ATATTTTAAA
*
49099968 AATATATATCTTTAAAATTT
1 AATATATATTTTTAAAATTT
49099988 AATATGTATATATTTTAAAATTT
1 AATA--TATAT-TTTTAAAATTT
49100011 AATTTATATATATGTTTTGAAAATTT
1 -A---ATATATAT-TTTT-AAAATTT
49100037 AATATATATACATATACTTTCAAAATTT
1 -A-ATATAT--AT-T--TTT-AAAATTT
*
49100065 AATTTATATTTTTTTAAAATTT
1 AA--TATATATTTTTAAAATTT
49100087 AATATATATTTTTAA
1 AATATATATTTTTAA
49100102 TATAAATTTT
Statistics
Matches: 94, Mismatches: 6, Indels: 28
0.73 0.05 0.22
Matches are distributed among these distances:
20 16 0.17
22 14 0.15
23 13 0.14
24 8 0.09
25 10 0.11
26 14 0.15
27 4 0.04
28 15 0.16
ACGTcount: A:0.43, C:0.03, G:0.02, T:0.52
Consensus pattern (20 bp):
AATATATATTTTTAAAATTT
Found at i:49100097 original size:28 final size:27
Alignment explanation
Indices: 49099969--49100095 Score: 98
Period size: 23 Copynumber: 5.1 Consensus size: 27
49099959 TATTTTAAAA
*
49099969 ATATATA-TCTTTAAAATTT-A-ATAT
1 ATATATATTTTTTAAAATTTAATATAT
*
49099993 GTATATA--TTTTAAAATTTAAT-T-T
1 ATATATATTTTTTAAAATTTAATATAT
*
49100016 ATATATATGTTTTGAAAATTTAATATAT
1 ATATATAT-TTTTTAAAATTTAATATAT
* * *
49100044 ATACATATACTTTCAAAATTT-A-AT-T
1 ATATATAT-TTTTTAAAATTTAATATAT
49100069 -TATAT-TTTTTTAAAATTTAATATAT
1 ATATATATTTTTTAAAATTTAATATAT
49100094 AT
1 AT
49100096 TTTTAATATA
Statistics
Matches: 81, Mismatches: 11, Indels: 20
0.72 0.10 0.18
Matches are distributed among these distances:
22 10 0.12
23 19 0.23
24 14 0.17
25 2 0.02
26 16 0.20
27 2 0.02
28 18 0.22
ACGTcount: A:0.43, C:0.03, G:0.02, T:0.52
Consensus pattern (27 bp):
ATATATATTTTTTAAAATTTAATATAT
Found at i:49100123 original size:53 final size:54
Alignment explanation
Indices: 49099994--49100123 Score: 137
Period size: 54 Copynumber: 2.4 Consensus size: 54
49099984 ATTTAATATG
*
49099994 TATATATTTTAAAATTTAATTTATATATATGTTTTGAAAATTTAATATATATACA
1 TATAAATTTT-AAATTTAATTTATATATATGTTTTGAAAATTTAATATATATACA
* *
49100049 TAT-ACTTTCAAAATTTAATTTATAT-T-T-TTTT-AAAATTTAATATATATTTTTA-A
1 TATAAATTT-TAAATTTAATTTATATATATGTTTTGAAAATTTAATATATA----TACA
49100102 TATAAATTTTAAATTTAATTTA
1 TATAAATTTTAAATTTAATTTA
49100124 ACGTAAATTT
Statistics
Matches: 64, Mismatches: 5, Indels: 14
0.77 0.06 0.17
Matches are distributed among these distances:
50 15 0.23
51 4 0.06
52 1 0.02
53 17 0.27
54 24 0.38
55 3 0.05
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.54
Consensus pattern (54 bp):
TATAAATTTTAAATTTAATTTATATATATGTTTTGAAAATTTAATATATATACA
Found at i:49100200 original size:20 final size:20
Alignment explanation
Indices: 49100175--49100254 Score: 79
Period size: 20 Copynumber: 3.6 Consensus size: 20
49100165 TTTAATATAT
49100175 TTTAATATATATATTGAAAA
1 TTTAATATATATATTGAAAA
*
49100195 TTTAATATATATGTATATACTTCTAAAA
1 -TT--TA-ATA--TATATA-TT-GAAAA
49100223 TTTAATATATATATTGAAAA
1 TTTAATATATATATTGAAAA
49100243 TTTAATATATAT
1 TTTAATATATAT
49100255 GTATATACTT
Statistics
Matches: 50, Mismatches: 2, Indels: 15
0.75 0.03 0.22
Matches are distributed among these distances:
20 16 0.32
21 4 0.08
22 6 0.12
23 2 0.04
24 6 0.12
25 2 0.04
26 6 0.12
27 4 0.08
28 4 0.08
ACGTcount: A:0.46, C:0.03, G:0.04, T:0.47
Consensus pattern (20 bp):
TTTAATATATATATTGAAAA
Found at i:49100212 original size:28 final size:28
Alignment explanation
Indices: 49100191--49100282 Score: 119
Period size: 28 Copynumber: 3.6 Consensus size: 28
49100181 ATATATATTG
49100191 AAAATTTAATATATATGTATATACTTCT
1 AAAATTTAATATATATGTATATACTTCT
*
49100219 AAAA-TT--TA-ATA--TATATA-TT-G
1 AAAATTTAATATATATGTATATACTTCT
49100239 AAAATTTAATATATATGTATATACTTCT
1 AAAATTTAATATATATGTATATACTTCT
49100267 AAAATTTAATATATAT
1 AAAATTTAATATATAT
49100283 TTTTAAAATT
Statistics
Matches: 54, Mismatches: 2, Indels: 16
0.75 0.03 0.22
Matches are distributed among these distances:
20 4 0.07
21 4 0.07
22 6 0.11
23 2 0.04
24 6 0.11
25 2 0.04
26 6 0.11
27 4 0.07
28 20 0.37
ACGTcount: A:0.47, C:0.04, G:0.03, T:0.46
Consensus pattern (28 bp):
AAAATTTAATATATATGTATATACTTCT
Found at i:49100230 original size:48 final size:48
Alignment explanation
Indices: 49100175--49100302 Score: 229
Period size: 48 Copynumber: 2.7 Consensus size: 48
49100165 TTTAATATAT
49100175 TTTAATATATATATTGAAAATTTAATATATATGTATATACTTCTAAAA
1 TTTAATATATATATTGAAAATTTAATATATATGTATATACTTCTAAAA
49100223 TTTAATATATATATTGAAAATTTAATATATATGTATATACTTCTAAAA
1 TTTAATATATATATTGAAAATTTAATATATATGTATATACTTCTAAAA
* * *
49100271 TTTAATATATATTTTTAAAATTTAATTTATAT
1 TTTAATATATATATTGAAAATTTAATATATAT
49100303 TTTTAATATA
Statistics
Matches: 77, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
48 77 1.00
ACGTcount: A:0.45, C:0.03, G:0.03, T:0.49
Consensus pattern (48 bp):
TTTAATATATATATTGAAAATTTAATATATATGTATATACTTCTAAAA
Found at i:49100302 original size:20 final size:20
Alignment explanation
Indices: 49100208--49100308 Score: 85
Period size: 20 Copynumber: 4.7 Consensus size: 20
49100198 AATATATATG
* *
49100208 TATATACTTCTAAAATTTAA
1 TATATATTTTTAAAATTTAA
* *
49100228 TATATATATTGAAAATTTAATA
1 TATATATTTTTAAAATTT-A-A
49100250 TATATGTATATACTTCTAAAATTTAA
1 TATA--TAT-T--TT-TAAAATTTAA
49100276 TATATATTTTTAAAATTTAA
1 TATATATTTTTAAAATTTAA
*
49100296 TTTATATTTTTAA
1 TATATATTTTTAA
49100309 TATAATTTTT
Statistics
Matches: 66, Mismatches: 7, Indels: 16
0.74 0.08 0.18
Matches are distributed among these distances:
20 36 0.55
21 3 0.05
22 5 0.08
23 1 0.02
24 6 0.09
26 5 0.08
27 3 0.05
28 7 0.11
ACGTcount: A:0.44, C:0.04, G:0.02, T:0.50
Consensus pattern (20 bp):
TATATATTTTTAAAATTTAA
Found at i:49100316 original size:12 final size:12
Alignment explanation
Indices: 49100291--49100326 Score: 54
Period size: 12 Copynumber: 2.9 Consensus size: 12
49100281 ATTTTTAAAA
*
49100291 TTTAATTTATATT
1 TTTAATATA-ATT
49100304 TTTAATATAATT
1 TTTAATATAATT
49100316 TTTAATATAAT
1 TTTAATATAAT
49100327 ACATACACAA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
12 14 0.64
13 8 0.36
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (12 bp):
TTTAATATAATT
Found at i:49100316 original size:18 final size:19
Alignment explanation
Indices: 49100268--49100316 Score: 55
Period size: 20 Copynumber: 2.6 Consensus size: 19
49100258 TATACTTCTA
* *
49100268 AAATTTAATATATATTTTT
1 AAATATAATTTATATTTTT
*
49100287 AAAATTTAATTTATATTTTT
1 -AAATATAATTTATATTTTT
49100307 -AATATAATTT
1 AAATATAATTT
49100317 TTAATATAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
18 9 0.33
20 18 0.67
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (19 bp):
AAATATAATTTATATTTTT
Found at i:49100388 original size:25 final size:25
Alignment explanation
Indices: 49100329--49100716 Score: 195
Period size: 25 Copynumber: 15.7 Consensus size: 25
49100319 AATATAATAC
* * * *
49100329 ATACACAACATACATAACTTACATA
1 ATACATAACTTACATAATTTTCATA
* *
49100354 ATA-TTGAACTCACATAATTTTCATA
1 ATACAT-AACTTACATAATTTTCATA
*
49100379 ATACATAACTTACTTAATTTTCATA
1 ATACATAACTTACATAATTTTCATA
* *
49100404 ATAAATAACTTACATAA---TAAT-
1 ATACATAACTTACATAATTTTCATA
49100425 ATAC--AACTTACATAATTTTCATA
1 ATACATAACTTACATAATTTTCATA
* *
49100448 ATACATAACTTACATAATGTTGA-A
1 ATACATAACTTACATAATTTTCATA
* * * *
49100472 CTCACATAATTTTCATAA--TACATA
1 AT-ACATAACTTACATAATTTTCATA
* * * **
49100496 ACTTACTTAATTTTCATAA--TAAATA
1 A--TACATAACTTACATAATTTTCATA
*
49100521 ACTTACATAACTTACATAA--TACATA
1 A--TACATAACTTACATAATTTTCATA
* *
49100546 ACTTACATAA-TATAC--AACTTACATA
1 A--TACATAACT-TACATAATTTTCATA
* * *
49100571 ATTTTCATAA--TACATAACTTACATA
1 A--TACATAACTTACATAATTTTCATA
** *
49100596 AT-GTTGAACTCACATAATTTTCATA
1 ATACAT-AACTTACATAATTTTCATA
*
49100621 ATACATAACTTACTTAATTTTCATA
1 ATACATAACTTACATAATTTTCATA
* * *
49100646 ATAAATAACTTACATAACTTACATA
1 ATACATAACTTACATAATTTTCATA
*
49100671 ATAATATACAACTTACATAATTTTCATA
1 AT-ACAT--AACTTACATAATTTTCATA
49100699 ATACATAACTTACATAAT
1 ATACATAACTTACATAAT
49100717 ATTGAACTCA
Statistics
Matches: 292, Mismatches: 47, Indels: 48
0.75 0.12 0.12
Matches are distributed among these distances:
19 11 0.04
21 3 0.01
22 7 0.02
23 14 0.05
24 4 0.01
25 225 0.77
26 6 0.02
27 3 0.01
28 19 0.07
ACGTcount: A:0.45, C:0.16, G:0.01, T:0.37
Consensus pattern (25 bp):
ATACATAACTTACATAATTTTCATA
Found at i:49100420 original size:41 final size:41
Alignment explanation
Indices: 49100338--49100929 Score: 271
Period size: 41 Copynumber: 13.4 Consensus size: 41
49100328 CATACACAAC
* * * * * *
49100338 ATACATAACTTACATAATATTGA-ACTCACATAATTTTCATA
1 ATACATAACTTACATAATTTTCATAAT-AAATAACTTACATA
*
49100379 ATACATAACTTACTTAATTTTCATAATAAATAACTTACATA
1 ATACATAACTTACATAATTTTCATAATAAATAACTTACATA
* *
49100420 ATAATATACAACTTACATAATTTTCATAATACATAACTTACATA
1 AT-ACAT--AACTTACATAATTTTCATAATAAATAACTTACATA
** * *
49100464 AT-GTTGAACTCACATAATTTTCATAATACATAACTTACTTAATTTTCATA
1 ATACAT-AACTTACATAATTTTCATAAT--A-AA-TAACTT-A----CATA
* * * *
49100514 ATAAATAACTTACATAACTTACATAATACATAACTTACATA
1 ATACATAACTTACATAATTTTCATAATAAATAACTTACATA
* * *
49100555 ATATACAACTTACATAATTTTCATAATACATAACTTACATA
1 ATACATAACTTACATAATTTTCATAATAAATAACTTACATA
** * *
49100596 AT-GTTGAACTCACATAATTTTCATAATACATAACTTACTTAATTTTCATA
1 ATACAT-AACTTACATAATTTTCATAAT--A-AA-TAACTT-A----CATA
* * *
49100646 ATAAATAACTTACATAACTTACATAATAATATACAACTTACATAATTTTCATA
1 ATACATAACTTACATAATTTTCATAATAA-AT--AACTT-----A----CATA
* * * * * *
49100699 ATACATAACTTACATAATATTGA-ACTCACATAATTTTCATA
1 ATACATAACTTACATAATTTTCATAAT-AAATAACTTACATA
*
49100740 ATACATAACTTACTTAATTTTCATAATAAATAACTTACATA
1 ATACATAACTTACATAATTTTCATAATAAATAACTTACATA
* * * *
49100781 ACTTACATAA--TACATAACTTACATAATATACAACTTACATAATTTTCATA
1 A--TACATAACTTACATAATTTTCAT-A-AT---A---A-ATAACTTACATA
* * * * * *
49100831 ATACATAACTTACATAATGTTGA-ACTCACATAATTTTCATA
1 ATACATAACTTACATAATTTTCATAAT-AAATAACTTACATA
* *
49100872 ATACATAACTTACTTAACTTTCATAATAAATAACTTACATA
1 ATACATAACTTACATAATTTTCATAATAAATAACTTACATA
*
49100913 ATACATAACTTAAATAA
1 ATACATAACTTACATAA
49100930 CTTACATAGC
Statistics
Matches: 426, Mismatches: 77, Indels: 96
0.71 0.13 0.16
Matches are distributed among these distances:
41 220 0.52
42 11 0.03
43 11 0.03
44 37 0.09
45 12 0.03
46 8 0.02
47 4 0.01
48 11 0.03
49 5 0.01
50 72 0.17
51 2 0.00
52 4 0.01
53 29 0.07
ACGTcount: A:0.45, C:0.16, G:0.01, T:0.37
Consensus pattern (41 bp):
ATACATAACTTACATAATTTTCATAATAAATAACTTACATA
Found at i:49100425 original size:19 final size:19
Alignment explanation
Indices: 49100401--49100440 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
49100391 CTTAATTTTC
*
49100401 ATAATAAATAACTTACATA
1 ATAATAAACAACTTACATA
*
49100420 ATAATATACAACTTACATA
1 ATAATAAACAACTTACATA
49100439 AT
1 AT
49100441 TTTCATAATA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.55, C:0.12, G:0.00, T:0.33
Consensus pattern (19 bp):
ATAATAAACAACTTACATA
Found at i:49100452 original size:16 final size:16
Alignment explanation
Indices: 49100338--49100929 Score: 148
Period size: 16 Copynumber: 38.1 Consensus size: 16
49100328 CATACACAAC
49100338 ATACATAACTTACATA
1 ATACATAACTTACATA
* *
49100354 ATA-TTGAACTCACATA
1 ATACAT-AACTTACATA
*
49100370 ATTTTCATAA--TACATA
1 A--TACATAACTTACATA
* * *
49100386 ACTTACTTAATTTTCATA
1 A--TACATAACTTACATA
*
49100404 ATAAATAACTTACATA
1 ATACATAACTTACATA
49100420 ATA-AT-A--TACA-A
1 ATACATAACTTACATA
* * *
49100431 CTTACATAATTTTCATA
1 -ATACATAACTTACATA
49100448 ATACATAACTTACATA
1 ATACATAACTTACATA
** *
49100464 AT-GTTGAACTCACATA
1 ATACAT-AACTTACATA
49100480 AT---T---TT-CATA
1 ATACATAACTTACATA
*
49100489 ATACATAACTTACTTA
1 ATACATAACTTACATA
* *
49100505 ATTTTCATAA--TAAATA
1 A--TACATAACTTACATA
49100521 ACTTACATAACTTACATA
1 A--TACATAACTTACATA
49100539 ATACATAACTTACATA
1 ATACATAACTTACATA
* *
49100555 ATATACAACTTACATA
1 ATACATAACTTACATA
49100571 AT---T---TT-CATA
1 ATACATAACTTACATA
49100580 ATACATAACTTACATA
1 ATACATAACTTACATA
** *
49100596 AT-GTTGAACTCACATA
1 ATACAT-AACTTACATA
*
49100612 ATTTTCATAA--TACATA
1 A--TACATAACTTACATA
* * *
49100628 ACTTACTTAATTTTCATA
1 A--TACATAACTTACATA
*
49100646 ATAAATAACTTACATA
1 ATACATAACTTACATA
*
49100662 ACTTACATAATAATATACA-A
1 A--TACAT-A-ACT-TACATA
* * *
49100682 CTTACATAATTTTCATA
1 -ATACATAACTTACATA
49100699 ATACATAACTTACATA
1 ATACATAACTTACATA
* *
49100715 ATA-TTGAACTCACATA
1 ATACAT-AACTTACATA
49100731 AT---T---TT-CATA
1 ATACATAACTTACATA
*
49100740 ATACATAACTTACTTA
1 ATACATAACTTACATA
* *
49100756 ATTTTCATAA--TAAATA
1 A--TACATAACTTACATA
49100772 ACTTACATAACTTACATA
1 A--TACATAACTTACATA
49100790 ATACATAACTTACATA
1 ATACATAACTTACATA
* *
49100806 ATATACAACTTACATA
1 ATACATAACTTACATA
49100822 AT---T---TT-CATA
1 ATACATAACTTACATA
49100831 ATACATAACTTACATA
1 ATACATAACTTACATA
** *
49100847 AT-GTTGAACTCACATA
1 ATACAT-AACTTACATA
*
49100863 ATTTTCATAA--TACATA
1 A--TACATAACTTACATA
* *
49100879 ACTTACTTAACTTTCATA
1 A--TACATAACTTACATA
*
49100897 ATAAATAACTTACATA
1 ATACATAACTTACATA
*
49100913 ATACATAACTTAAATA
1 ATACATAACTTACATA
49100929 A
1 A
49100930 CTTACATAGC
Statistics
Matches: 425, Mismatches: 82, Indels: 138
0.66 0.13 0.21
Matches are distributed among these distances:
9 24 0.06
10 6 0.01
11 1 0.00
12 10 0.02
13 2 0.00
14 4 0.01
15 15 0.04
16 287 0.68
17 4 0.01
18 56 0.13
19 9 0.02
20 3 0.01
21 4 0.01
ACGTcount: A:0.45, C:0.16, G:0.01, T:0.37
Consensus pattern (16 bp):
ATACATAACTTACATA
Found at i:49100675 original size:28 final size:28
Alignment explanation
Indices: 49100643--49100706 Score: 83
Period size: 28 Copynumber: 2.2 Consensus size: 28
49100633 CTTAATTTTC
*
49100643 ATAATAAATAACTTACATAACTTACATA
1 ATAATAAACAACTTACATAACTTACATA
* * *
49100671 ATAATATACAACTTACATAATTTTCATA
1 ATAATAAACAACTTACATAACTTACATA
49100699 ATACATAA
1 ATA-ATAA
49100707 CTTACATAAT
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
28 27 0.90
29 3 0.10
ACGTcount: A:0.52, C:0.14, G:0.00, T:0.34
Consensus pattern (28 bp):
ATAATAAACAACTTACATAACTTACATA
Found at i:49100760 original size:66 final size:66
Alignment explanation
Indices: 49100671--49100915 Score: 325
Period size: 66 Copynumber: 3.7 Consensus size: 66
49100661 AACTTACATA
* *
49100671 ATAATATACAACTTACATAATTTTCATAATACATAACTTACATAATATTGAACTCACATAATTTT
1 ATAATACACAACTTACATAATTTTCATAATAAATAACTTACATAATATTGAACTCACATAATTTT
49100736 C
66 C
* * * *
49100737 ATAATACATAACTTACTTAATTTTCATAATAAATAACTTACATAACTTACAT-AA-T-ACATAAC
1 ATAATACACAACTTACATAATTTTCATAATAAATAACTTACATAA--TA-TTGAACTCACATAAT
*
49100799 TTAC
63 TTTC
* * *
49100803 ATAATATACAACTTACATAATTTTCATAATACATAACTTACATAATGTTGAACTCACATAATTTT
1 ATAATACACAACTTACATAATTTTCATAATAAATAACTTACATAATATTGAACTCACATAATTTT
49100868 C
66 C
* * *
49100869 ATAATACATAACTTACTTAACTTTCATAATAAATAACTTACATAATA
1 ATAATACACAACTTACATAATTTTCATAATAAATAACTTACATAATA
49100916 CATAACTTAA
Statistics
Matches: 152, Mismatches: 21, Indels: 12
0.82 0.11 0.06
Matches are distributed among these distances:
63 1 0.01
64 3 0.02
65 1 0.01
66 141 0.93
67 1 0.01
68 4 0.03
69 1 0.01
ACGTcount: A:0.45, C:0.16, G:0.01, T:0.37
Consensus pattern (66 bp):
ATAATACACAACTTACATAATTTTCATAATAAATAACTTACATAATATTGAACTCACATAATTTT
C
Found at i:49100772 original size:251 final size:251
Alignment explanation
Indices: 49100338--49100920 Score: 1062
Period size: 251 Copynumber: 2.4 Consensus size: 251
49100328 CATACACAAC
*
49100338 ATACATAACTTACATAATATTGAACTCACATAATTTTCATAATACATAACTTACTTAATTTTC--
1 ATACATAACTTACATAATGTTGAACTCACATAATTTTCATAATACATAACTTACTTAATTTTCAT
49100401 -AT-AAT-A---A-ATAACTTACATAATAATATACAACTTACATAATTTTCATAATACATAACTT
66 AATAAATAACTTACATAACTTACATAATAATATACAACTTACATAATTTTCATAATACATAACTT
*
49100459 ACATAATGTTGAACTCACATAATTTTCATAATACATAACTTACTTAATTTTCATAATAAATAACT
131 ACATAATATTGAACTCACATAATTTTCATAATACATAACTTACTTAATTTTCATAATAAATAACT
49100524 TACATAACTTACATAATACATAACTTACATAATATACAACTTACATAATTTTCATA
196 TACATAACTTACATAATACATAACTTACATAATATACAACTTACATAATTTTCATA
49100580 ATACATAACTTACATAATGTTGAACTCACATAATTTTCATAATACATAACTTACTTAATTTTCAT
1 ATACATAACTTACATAATGTTGAACTCACATAATTTTCATAATACATAACTTACTTAATTTTCAT
49100645 AATAAATAACTTACATAACTTACATAATAATATACAACTTACATAATTTTCATAATACATAACTT
66 AATAAATAACTTACATAACTTACATAATAATATACAACTTACATAATTTTCATAATACATAACTT
49100710 ACATAATATTGAACTCACATAATTTTCATAATACATAACTTACTTAATTTTCATAATAAATAACT
131 ACATAATATTGAACTCACATAATTTTCATAATACATAACTTACTTAATTTTCATAATAAATAACT
49100775 TACATAACTTACATAATACATAACTTACATAATATACAACTTACATAATTTTCATA
196 TACATAACTTACATAATACATAACTTACATAATATACAACTTACATAATTTTCATA
*
49100831 ATACATAACTTACATAATGTTGAACTCACATAATTTTCATAATACATAACTTACTTAACTTTCAT
1 ATACATAACTTACATAATGTTGAACTCACATAATTTTCATAATACATAACTTACTTAATTTTCAT
49100896 AATAAATAACTTACATAA--TACATAA
66 AATAAATAACTTACATAACTTACATAA
49100921 CTTAAATAAC
Statistics
Matches: 329, Mismatches: 3, Indels: 11
0.96 0.01 0.03
Matches are distributed among these distances:
242 62 0.19
245 2 0.01
246 3 0.01
247 1 0.00
249 7 0.02
250 1 0.00
251 253 0.77
ACGTcount: A:0.45, C:0.16, G:0.01, T:0.37
Consensus pattern (251 bp):
ATACATAACTTACATAATGTTGAACTCACATAATTTTCATAATACATAACTTACTTAATTTTCAT
AATAAATAACTTACATAACTTACATAATAATATACAACTTACATAATTTTCATAATACATAACTT
ACATAATATTGAACTCACATAATTTTCATAATACATAACTTACTTAATTTTCATAATAAATAACT
TACATAACTTACATAATACATAACTTACATAATATACAACTTACATAATTTTCATA
Found at i:49100812 original size:25 final size:25
Alignment explanation
Indices: 49100318--49100937 Score: 161
Period size: 25 Copynumber: 25.1 Consensus size: 25
49100308 ATATAATTTT
* *
49100318 TAATATA-ATACATACACAACATACA
1 TAATATACATA-ATACATAACTTACA
* *
49100343 TAACT-TACATAATA-TTGAACTCACA
1 TAA-TATACATAATACAT-AACTTACA
* * *
49100368 TAATTTTCATAATACATAACTTACT
1 TAATATACATAATACATAACTTACA
* * *
49100393 TAATTTTCATAATAAATAACTTACA
1 TAATATACATAATACATAACTTACA
49100418 T-A-ATA-AT-ATAC--AACTTACA
1 TAATATACATAATACATAACTTACA
* *
49100437 TAATTTTCATAATACATAACTTACA
1 TAATATACATAATACATAACTTACA
* ** * * *
49100462 TAATGTTGA-ACTCACATAATTTTCA
1 TAATATACATAAT-ACATAACTTACA
* * *
49100487 T-A-ATACATAACTTACTTAATTTTCA
1 TAATATACATAA--TACATAACTTACA
49100512 TAATA-A-ATAACTTACATAACTTACA
1 TAATATACATAA--TACATAACTTACA
49100537 T-A-ATACATAACTTACATAA-TATACA
1 TAATATACATAA--TACATAACT-TACA
* *
49100562 -ACT-TACATAATTTTCATAA--TACA
1 TAATATACATAA--TACATAACTTACA
** *
49100585 TAACT-TACATAAT-GTTGAACTCACA
1 TAA-TATACATAATACAT-AACTTACA
* * *
49100610 TAATTTTCATAATACATAACTTACT
1 TAATATACATAATACATAACTTACA
* * *
49100635 TAATTTTCATAATAAATAACTTACA
1 TAATATACATAATACATAACTTACA
*
49100660 TAACT-TACATAATAATATACAACTTACA
1 TAA-TATACATAAT-ACAT--AACTTACA
* *
49100688 TAATTTTCATAATACATAACTTACA
1 TAATATACATAATACATAACTTACA
** * * *
49100713 TAATATTGA-ACTCACATAATTTTCA
1 TAATATACATAAT-ACATAACTTACA
* * *
49100738 T-A-ATACATAACTTACTTAATTTTCA
1 TAATATACATAA--TACATAACTTACA
49100763 TAATA-A-ATAACTTACATAACTTACA
1 TAATATACATAA--TACATAACTTACA
49100788 T-A-ATACATAACTTACATAA-TATACA
1 TAATATACATAA--TACATAACT-TACA
* *
49100813 -ACT-TACATAATTTTCATAA--TACA
1 TAATATACATAA--TACATAACTTACA
** *
49100836 TAACT-TACATAAT-GTTGAACTCACA
1 TAA-TATACATAATACAT-AACTTACA
* * *
49100861 TAATTTTCATAATACATAACTTACT
1 TAATATACATAATACATAACTTACA
* *
49100886 TAACT-TTCATAATAAATAACTTACA
1 TAA-TATACATAATACATAACTTACA
*
49100911 T-A-ATACATAACTTAAATAACTTACA
1 TAATATACATAA--TACATAACTTACA
49100936 TA
1 TA
49100938 GCTTAATTAT
Statistics
Matches: 465, Mismatches: 73, Indels: 113
0.71 0.11 0.17
Matches are distributed among these distances:
19 9 0.02
20 1 0.00
21 4 0.01
22 6 0.01
23 32 0.07
24 21 0.05
25 350 0.75
26 18 0.04
27 6 0.01
28 18 0.04
ACGTcount: A:0.45, C:0.16, G:0.01, T:0.37
Consensus pattern (25 bp):
TAATATACATAATACATAACTTACA
Found at i:49106521 original size:66 final size:66
Alignment explanation
Indices: 49106358--49106514 Score: 208
Period size: 66 Copynumber: 2.4 Consensus size: 66
49106348 GCAAATTACA
* * * *
49106358 CAACTTAAAGCAGAGGCAGCATCGAGAGAAGTTGAGGTTCAAAAAAGATATGAAGAACTTAAGCT
1 CAACTTAAAGCAGATGCAGCAGCGAGAGAAGCTGAGGTTCAAAAAAGATATGAAGAACTCAAGCT
49106423 G
66 G
* * *
49106424 CAACTTAAAGCAGATGCAGCAGTGAGAGAAGCTGAGGTTCAACGAAAG-TATGAAGAACTCCAGC
1 CAACTTAAAGCAGATGCAGCAGCGAGAGAAGCTGAGGTTCAA-AAAAGATATGAAGAACTCAAGC
49106488 TG
65 TG
* * *
49106490 CAGCTTAAAGTAGATGCGGCAGCGA
1 CAACTTAAAGCAGATGCAGCAGCGA
49106515 AGGAAGCAGA
Statistics
Matches: 79, Mismatches: 11, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
66 75 0.95
67 4 0.05
ACGTcount: A:0.39, C:0.17, G:0.27, T:0.17
Consensus pattern (66 bp):
CAACTTAAAGCAGATGCAGCAGCGAGAGAAGCTGAGGTTCAAAAAAGATATGAAGAACTCAAGCT
G
Found at i:49106958 original size:43 final size:42
Alignment explanation
Indices: 49106858--49107107 Score: 175
Period size: 43 Copynumber: 5.9 Consensus size: 42
49106848 CGTGTTTTAA
* * **
49106858 AAAAACGTCGCTAAA-GTCAGGGTCTTTAGCGGCGTTTGAAAG
1 AAAAACGCCGCTAAAGGTCAAGGTCTTTAGCGGCGTTTG-TTG
* ** *
49106900 AAAAGCGCCATTAAAGGTCAAGGTCTTTAGCGGTGTTTGTTG
1 AAAAACGCCGCTAAAGGTCAAGGTCTTTAGCGGCGTTTGTTG
* * * *
49106942 AAAAACCACCGCTAAAGGTC-AGGTTTTTTAGCGGCGTTTTTTCC
1 AAAAA-CGCCGCTAAAGGTCAAGG-TCTTTAGCGGCGTTTGTT-G
* * * *
49106986 ACAATCGCCACTAAAAGGTCATGGTCTTTA-CGGGCGTTTGTTG
1 AAAAACGCCGCT-AAAGGTCAAGGTCTTTAGC-GGCGTTTGTTG
* *
49107029 CAAAAACGCCGCTAAAGGTCATGGTCTTTAGTGGCGTTT-TTGG
1 -AAAAACGCCGCTAAAGGTCAAGGTCTTTAGCGGCGTTTGTT-G
* ** * * **
49107072 CAAAGTGCCGCTATAGGTCATGACCTTTAGCGGCGT
1 AAAAACGCCGCTAAAGGTCAAGGTCTTTAGCGGCGT
49107108 CTATTTCTAA
Statistics
Matches: 163, Mismatches: 35, Indels: 20
0.75 0.16 0.09
Matches are distributed among these distances:
42 50 0.31
43 78 0.48
44 33 0.20
45 2 0.01
ACGTcount: A:0.25, C:0.20, G:0.26, T:0.29
Consensus pattern (42 bp):
AAAAACGCCGCTAAAGGTCAAGGTCTTTAGCGGCGTTTGTTG
Found at i:49108819 original size:19 final size:17
Alignment explanation
Indices: 49108774--49108819 Score: 56
Period size: 20 Copynumber: 2.5 Consensus size: 17
49108764 AACTAAAACT
49108774 ATTTGAACAAATGACTA
1 ATTTGAACAAATGACTA
*
49108791 AATTGTAACAAATTGGACTA
1 ATTTG-AACAAA-T-GACTA
49108811 ATTTGAACA
1 ATTTGAACA
49108820 GAACTAAGAA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
17 4 0.17
18 6 0.25
19 5 0.21
20 9 0.38
ACGTcount: A:0.46, C:0.11, G:0.13, T:0.30
Consensus pattern (17 bp):
ATTTGAACAAATGACTA
Found at i:49110845 original size:19 final size:20
Alignment explanation
Indices: 49110813--49110850 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 20
49110803 TAAAGCTTAA
*
49110813 TTTAAATATATAAACTATAT
1 TTTAAACATATAAACTATAT
*
49110833 TTTAAACAT-TAAAGTATA
1 TTTAAACATATAAACTATA
49110851 ATCATTAAGA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 8 0.50
20 8 0.50
ACGTcount: A:0.50, C:0.05, G:0.03, T:0.42
Consensus pattern (20 bp):
TTTAAACATATAAACTATAT
Found at i:49114058 original size:14 final size:15
Alignment explanation
Indices: 49114039--49114078 Score: 50
Period size: 14 Copynumber: 2.9 Consensus size: 15
49114029 ATAAGGATAT
49114039 AATAAA-ATATTAAA
1 AATAAATATATTAAA
*
49114053 AATAAATATTTTAAA
1 AATAAATATATTAAA
49114068 AA-AAATA-ATTA
1 AATAAATATATTA
49114079 TTGCAATTGT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
13 3 0.13
14 11 0.48
15 9 0.39
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.33
Consensus pattern (15 bp):
AATAAATATATTAAA
Found at i:49115129 original size:3 final size:3
Alignment explanation
Indices: 49115112--49115161 Score: 50
Period size: 3 Copynumber: 17.3 Consensus size: 3
49115102 TTTAGGGTTT
* * * *
49115112 AAG AAG AGG AA- AAG AAG AAG AAG AAG AAG -AG GAG GAG GAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
49115158 AAG A
1 AAG A
49115162 GAAAAAATGG
Statistics
Matches: 42, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
2 4 0.10
3 38 0.90
ACGTcount: A:0.60, C:0.00, G:0.40, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:49115141 original size:23 final size:23
Alignment explanation
Indices: 49115112--49115161 Score: 73
Period size: 23 Copynumber: 2.2 Consensus size: 23
49115102 TTTAGGGTTT
49115112 AAGAAGAGGAAAAGAAGAAGAAG
1 AAGAAGAGGAAAAGAAGAAGAAG
** *
49115135 AAGAAGAGGAGGAGGAGAAGAAG
1 AAGAAGAGGAAAAGAAGAAGAAG
49115158 AAGA
1 AAGA
49115162 GAAAAAATGG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.60, C:0.00, G:0.40, T:0.00
Consensus pattern (23 bp):
AAGAAGAGGAAAAGAAGAAGAAG
Found at i:49115904 original size:20 final size:20
Alignment explanation
Indices: 49115881--49115919 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
49115871 CCACGTGACA
49115881 AGTTAACTGGCCACATCAGC
1 AGTTAACTGGCCACATCAGC
*
49115901 AGTTAACTTGCCACATCAG
1 AGTTAACTGGCCACATCAG
49115920 TGGTCCCGTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.31, C:0.28, G:0.18, T:0.23
Consensus pattern (20 bp):
AGTTAACTGGCCACATCAGC
Found at i:49117441 original size:46 final size:46
Alignment explanation
Indices: 49117338--49117590 Score: 433
Period size: 46 Copynumber: 5.6 Consensus size: 46
49117328 TACGTATGAT
* * *
49117338 CACTAATCAC-TTGTC-CCTGATCAGATAAGTGTAGCT-AGGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
49117381 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
*
49117427 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
49117473 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
*
49117519 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
49117565 CACTTATCACTTTGTCAC-TGATCAGA
1 CACTTATCACTTTGTCACTTGATCAGA
49117591 AGTACTCAAA
Statistics
Matches: 200, Mismatches: 7, Indels: 4
0.95 0.03 0.02
Matches are distributed among these distances:
43 9 0.05
44 5 0.03
45 28 0.14
46 158 0.79
ACGTcount: A:0.29, C:0.23, G:0.15, T:0.33
Consensus pattern (46 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
Found at i:49123982 original size:42 final size:42
Alignment explanation
Indices: 49123934--49124044 Score: 141
Period size: 42 Copynumber: 2.6 Consensus size: 42
49123924 AAAACGACAT
49123934 TAAAGAACATGATCTTTAGCGGCGCTTAACGAAAAACGCCGC
1 TAAAGAACATGATCTTTAGCGGCGCTTAACGAAAAACGCCGC
* * ** *** *
49123976 TAAAGAACCTGATCTTTAGCGGCGTTTTCCTTTAAGCGCCGC
1 TAAAGAACATGATCTTTAGCGGCGCTTAACGAAAAACGCCGC
*
49124018 TAAAGAACATGTTCTTTAGCGGCGCTT
1 TAAAGAACATGATCTTTAGCGGCGCTT
49124045 TTTTACAAAA
Statistics
Matches: 58, Mismatches: 11, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
42 58 1.00
ACGTcount: A:0.28, C:0.23, G:0.22, T:0.27
Consensus pattern (42 bp):
TAAAGAACATGATCTTTAGCGGCGCTTAACGAAAAACGCCGC
Found at i:49124455 original size:21 final size:21
Alignment explanation
Indices: 49124431--49124486 Score: 94
Period size: 21 Copynumber: 2.7 Consensus size: 21
49124421 TTAAACCTCT
*
49124431 GCTTCTCTCGCTGCAGCCTTC
1 GCTTCCCTCGCTGCAGCCTTC
*
49124452 GCTTCCCTCGCTGCAGCCTTT
1 GCTTCCCTCGCTGCAGCCTTC
49124473 GCTTCCCTCGCTGC
1 GCTTCCCTCGCTGC
49124487 CGCATCTACT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.04, C:0.45, G:0.20, T:0.32
Consensus pattern (21 bp):
GCTTCCCTCGCTGCAGCCTTC
Found at i:49129928 original size:9 final size:9
Alignment explanation
Indices: 49129902--49130140 Score: 253
Period size: 9 Copynumber: 26.3 Consensus size: 9
49129892 ATTTGCACGA
49129902 GTAAGTTAT
1 GTAAGTTAT
* *
49129911 TTAATTTAT
1 GTAAGTTAT
49129920 GTAAGTTAT
1 GTAAGTTAT
49129929 GTAAGTTAT
1 GTAAGTTAT
49129938 GTAAGTTAT
1 GTAAGTTAT
* *
49129947 TTAATTTAT
1 GTAAGTTAT
*
49129956 GTAGGTTAT
1 GTAAGTTAT
* *
49129965 GTAAGTCCAC
1 GTAAGT-TAT
* *
49129975 GGAATTTAT
1 GTAAGTTAT
49129984 GTAAGTTAT
1 GTAAGTTAT
49129993 GTAAGTTAT
1 GTAAGTTAT
* *
49130002 TTAATTTAT
1 GTAAGTTAT
49130011 GTAAGTTAT
1 GTAAGTTAT
49130020 GTAAGTTAT
1 GTAAGTTAT
* *
49130029 TTAATTTAT
1 GTAAGTTAT
49130038 GTAAGTTAT
1 GTAAGTTAT
* *
49130047 TTAATTTAT
1 GTAAGTTAT
*
49130056 GCAAGTTAT
1 GTAAGTTAT
* *
49130065 TTAATTTAT
1 GTAAGTTAT
*
49130074 GCAAGTTTAT
1 GTAAG-TTAT
49130084 GTAAGTTAT
1 GTAAGTTAT
49130093 GTAAGTTAT
1 GTAAGTTAT
* *
49130102 TTAATTTAT
1 GTAAGTTAT
49130111 GTAAGTTAT
1 GTAAGTTAT
49130120 GTAAGTTAT
1 GTAAGTTAT
* *
49130129 TTAATTTAT
1 GTAAGTTAT
49130138 GTA
1 GTA
49130141 GGTTTCTATA
Statistics
Matches: 183, Mismatches: 45, Indels: 4
0.79 0.19 0.02
Matches are distributed among these distances:
9 170 0.93
10 13 0.07
ACGTcount: A:0.33, C:0.02, G:0.16, T:0.49
Consensus pattern (9 bp):
GTAAGTTAT
Found at i:49130186 original size:8 final size:8
Alignment explanation
Indices: 49130173--49130225 Score: 52
Period size: 8 Copynumber: 6.0 Consensus size: 8
49130163 TTGTATGTTA
49130173 GTTATTAT
1 GTTATTAT
49130181 GTTATTAT
1 GTTATTAT
49130189 GTTATTATAT
1 GTTA-T-TAT
*
49130199 AAGTTATTTAA
1 --GTTA-TTAT
49130210 GTTATTAT
1 GTTATTAT
49130218 GTTATTAT
1 GTTATTAT
49130226 ATAAAGTATT
Statistics
Matches: 39, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
8 23 0.59
9 5 0.13
10 3 0.08
11 2 0.05
12 6 0.15
ACGTcount: A:0.30, C:0.00, G:0.11, T:0.58
Consensus pattern (8 bp):
GTTATTAT
Found at i:49130213 original size:29 final size:29
Alignment explanation
Indices: 49130172--49130278 Score: 135
Period size: 32 Copynumber: 3.6 Consensus size: 29
49130162 ATTGTATGTT
*
49130172 AGTTAT-TATGTTATTATGTTATTATATA
1 AGTTATGTAAGTTATTATGTTATTATATA
*
49130200 AGTTATTTAAGTTATTATGTTATTATATAA
1 AGTTATGTAAGTTATTATGTTATTATAT-A
*
49130230 AGTATTATGTAATTTATTATGTTATTATATGTA
1 AG--TTATGTAAGTTATTATGTTATTATA--TA
49130263 AGTTATGTAAGTTATT
1 AGTTATGTAAGTTATT
49130279 TAATTTATGT
Statistics
Matches: 69, Mismatches: 4, Indels: 9
0.84 0.05 0.11
Matches are distributed among these distances:
28 6 0.09
29 20 0.29
30 3 0.04
31 13 0.19
32 23 0.33
33 3 0.04
34 1 0.01
ACGTcount: A:0.34, C:0.00, G:0.12, T:0.54
Consensus pattern (29 bp):
AGTTATGTAAGTTATTATGTTATTATATA
Found at i:49130245 original size:37 final size:37
Alignment explanation
Indices: 49130172--49130245 Score: 87
Period size: 37 Copynumber: 2.0 Consensus size: 37
49130162 ATTGTATGTT
* * * *
49130172 AGTTATTATGTTATTATGTTATTATATAAGTTATTTA
1 AGTTATTATGTTATTATATAAGTATATAAGTAATTTA
*
49130209 AGTTATTATGTTATTATATAAAGTAT-TATGTAATTTA
1 AGTTATTATGTTATTATAT-AAGTATATAAGTAATTTA
49130246 TTATGTTATT
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
37 27 0.87
38 4 0.13
ACGTcount: A:0.35, C:0.00, G:0.11, T:0.54
Consensus pattern (37 bp):
AGTTATTATGTTATTATATAAGTATATAAGTAATTTA
Found at i:49130263 original size:22 final size:23
Alignment explanation
Indices: 49130181--49130305 Score: 63
Period size: 20 Copynumber: 5.6 Consensus size: 23
49130171 TAGTTATTAT
*
49130181 GTTAT-TATGTTATTATA--TAA
1 GTTATGTAAGTTATTATATGTAA
* *
49130201 GTTATTTAAGTTA-T-TATGTTA
1 GTTATGTAAGTTATTATATGTAA
*
49130222 -TTATATAAAG-TA-T-TATGTAA
1 GTTATGT-AAGTTATTATATGTAA
* *
49130242 TTTAT-TATGTTATTATATGTAA
1 GTTATGTAAGTTATTATATGTAA
49130264 GTTATGTAAGTTATTTAATTTATGTAA
1 GTTATGTAAGTTA-TT-A--TATGTAA
*
49130291 GTTATGCAAGCTTAT
1 GTTATGTAAG-TTAT
49130306 ATACAAGTTA
Statistics
Matches: 83, Mismatches: 8, Indels: 21
0.74 0.07 0.19
Matches are distributed among these distances:
19 4 0.05
20 23 0.28
21 16 0.19
22 11 0.13
23 6 0.07
24 2 0.02
25 1 0.01
27 17 0.20
28 3 0.04
ACGTcount: A:0.34, C:0.02, G:0.13, T:0.52
Consensus pattern (23 bp):
GTTATGTAAGTTATTATATGTAA
Found at i:49130271 original size:9 final size:9
Alignment explanation
Indices: 49130257--49130319 Score: 63
Period size: 9 Copynumber: 6.7 Consensus size: 9
49130247 TATGTTATTA
49130257 TATGTAAGT
1 TATGTAAGT
49130266 TATGTAAGT
1 TATGTAAGT
* *
49130275 TATTTAATT
1 TATGTAAGT
49130284 TATGTAAGT
1 TATGTAAGT
*
49130293 TATGCAAGCT
1 TATGTAAG-T
*
49130303 TATATACAAGT
1 TATGT--AAGT
49130314 TATGTA
1 TATGTA
49130320 TTATAACATA
Statistics
Matches: 43, Mismatches: 8, Indels: 6
0.75 0.14 0.11
Matches are distributed among these distances:
9 31 0.72
10 4 0.09
11 5 0.12
12 3 0.07
ACGTcount: A:0.35, C:0.05, G:0.16, T:0.44
Consensus pattern (9 bp):
TATGTAAGT
Found at i:49130561 original size:16 final size:16
Alignment explanation
Indices: 49130536--49130573 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
49130526 GAAAATGAAG
*
49130536 TAAA-TTTAATACTAA
1 TAAATTTTAATACAAA
49130551 TAAATTTTAATACAAA
1 TAAATTTTAATACAAA
49130567 TAAATTT
1 TAAATTT
49130574 AGAAAACTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
15 4 0.19
16 17 0.81
ACGTcount: A:0.53, C:0.05, G:0.00, T:0.42
Consensus pattern (16 bp):
TAAATTTTAATACAAA
Found at i:49130588 original size:13 final size:13
Alignment explanation
Indices: 49130570--49130597 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
49130560 ATACAAATAA
49130570 ATTTAGAAAACTT
1 ATTTAGAAAACTT
49130583 ATTTAGAAAACTT
1 ATTTAGAAAACTT
49130596 AT
1 AT
49130598 AAATTTAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.46, C:0.07, G:0.07, T:0.39
Consensus pattern (13 bp):
ATTTAGAAAACTT
Found at i:49130609 original size:17 final size:17
Alignment explanation
Indices: 49130583--49130615 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
49130573 TAGAAAACTT
*
49130583 ATTTAGAAAACTTATAA
1 ATTTAAAAAACTTATAA
49130600 ATTTAAAAAACTTATA
1 ATTTAAAAAACTTATA
49130616 CAGATATTAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.55, C:0.06, G:0.03, T:0.36
Consensus pattern (17 bp):
ATTTAAAAAACTTATAA
Found at i:49131462 original size:37 final size:37
Alignment explanation
Indices: 49131421--49131496 Score: 152
Period size: 37 Copynumber: 2.1 Consensus size: 37
49131411 GGAAAGAAGT
49131421 AAACAGAAGATTATTTAAGTACATTTAGATTCAAATC
1 AAACAGAAGATTATTTAAGTACATTTAGATTCAAATC
49131458 AAACAGAAGATTATTTAAGTACATTTAGATTCAAATC
1 AAACAGAAGATTATTTAAGTACATTTAGATTCAAATC
49131495 AA
1 AA
49131497 CTTAATATAA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 39 1.00
ACGTcount: A:0.47, C:0.11, G:0.11, T:0.32
Consensus pattern (37 bp):
AAACAGAAGATTATTTAAGTACATTTAGATTCAAATC
Found at i:49131689 original size:27 final size:29
Alignment explanation
Indices: 49131635--49131689 Score: 69
Period size: 30 Copynumber: 1.9 Consensus size: 29
49131625 TAATTATCAC
*
49131635 AACAATAAACTTAATAATAATTGATAAAGT
1 AACAATAAACTTAATAATAAAT-ATAAAGT
*
49131665 AACAATCAACTTAAT-ATAAAT-TAAA
1 AACAATAAACTTAATAATAAATATAAA
49131690 TCAGAAACTT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
27 4 0.17
29 5 0.22
30 14 0.61
ACGTcount: A:0.58, C:0.09, G:0.04, T:0.29
Consensus pattern (29 bp):
AACAATAAACTTAATAATAAATATAAAGT
Found at i:49132121 original size:17 final size:17
Alignment explanation
Indices: 49132075--49132121 Score: 58
Period size: 17 Copynumber: 2.7 Consensus size: 17
49132065 TGAAAAGCCA
49132075 AAAACCCGAAAATAACTC
1 AAAACCCG-AAATAACTC
* * *
49132093 AAAACTCAAAATAACTT
1 AAAACCCGAAATAACTC
49132110 AAAACCCGAAAT
1 AAAACCCGAAAT
49132122 GAGCTAAACA
Statistics
Matches: 24, Mismatches: 5, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
17 18 0.75
18 6 0.25
ACGTcount: A:0.57, C:0.23, G:0.04, T:0.15
Consensus pattern (17 bp):
AAAACCCGAAATAACTC
Found at i:49134285 original size:114 final size:115
Alignment explanation
Indices: 49134065--49134350 Score: 296
Period size: 114 Copynumber: 2.5 Consensus size: 115
49134055 GTTTTTAGAC
* * * * *
49134065 AAGCGCCACTAAAGTCTCTAAAACCTAAATTG-AAAACGACATCGTTTTCTTAACAGTTTTGCGG
1 AAGCGCCACTAAAGTCTCCAAAACCTAAACTGAAAAACGGCAACGTTTTCTTAACAGTCTTGCGG
* * * *
49134129 TACTTCTGATAAAGCGCCACTAAAGCTTCGTTACTACGGCGTTTTCCGA-A
66 CACTTATGATAAAGCGCCACTAAAGCTTCGCTACTACAGCGTTTTCC-ATA
* * * **
49134179 AATCGCCACTAATGTCTCGAAAAGATAAA-TGAAAAACGGCAACGTTTTCTTAACAGTCTTGCGG
1 AAGCGCCACTAAAGTCTCCAAAACCTAAACTGAAAAACGGCAACGTTTTCTTAACAGTCTTGCGG
* * ** * *
49134243 CGCTTATGATAAAGCGCCGCTAATTCTT-GACTA-TAGCAGCGTTTTTCATT
66 CACTTATGATAAAGCGCCACTAAAGCTTCG-CTACTA-CAGCGTTTTCCATA
* *
49134293 AAGCGCCACTAAAGTCCCCAAAACCTAAACT-AAAAACGGCAGCGTTTTTCTTAACAGT
1 AAGCGCCACTAAAGTCTCCAAAACCTAAACTGAAAAACGGCAACG-TTTTCTTAACAGT
49134351 TTTTGTGGCG
Statistics
Matches: 141, Mismatches: 25, Indels: 11
0.80 0.14 0.06
Matches are distributed among these distances:
113 6 0.04
114 121 0.86
115 14 0.10
ACGTcount: A:0.32, C:0.23, G:0.17, T:0.28
Consensus pattern (115 bp):
AAGCGCCACTAAAGTCTCCAAAACCTAAACTGAAAAACGGCAACGTTTTCTTAACAGTCTTGCGG
CACTTATGATAAAGCGCCACTAAAGCTTCGCTACTACAGCGTTTTCCATA
Found at i:49146704 original size:20 final size:20
Alignment explanation
Indices: 49146679--49146740 Score: 58
Period size: 20 Copynumber: 3.2 Consensus size: 20
49146669 AATAGACCCG
49146679 ACTATAATGTTGGTGTCATC
1 ACTATAATGTTGGTGTCATC
*** * *
49146699 ACTATAAT-AACGT-AC-CC
1 ACTATAATGTTGGTGTCATC
49146716 ACTATAATGTTGGTGTCATC
1 ACTATAATGTTGGTGTCATC
49146736 ACTAT
1 ACTAT
49146741 CCTTACGATG
Statistics
Matches: 29, Mismatches: 10, Indels: 6
0.64 0.22 0.13
Matches are distributed among these distances:
17 9 0.31
18 3 0.10
19 3 0.10
20 14 0.48
ACGTcount: A:0.31, C:0.19, G:0.15, T:0.35
Consensus pattern (20 bp):
ACTATAATGTTGGTGTCATC
Found at i:49149249 original size:16 final size:16
Alignment explanation
Indices: 49149228--49149262 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
49149218 ACTTGCGATC
49149228 CAAGTCAATGTAGGAA
1 CAAGTCAATGTAGGAA
*
49149244 CAAGTCAATGTATGAA
1 CAAGTCAATGTAGGAA
49149260 CAA
1 CAA
49149263 TAGAATTTGA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.46, C:0.14, G:0.20, T:0.20
Consensus pattern (16 bp):
CAAGTCAATGTAGGAA
Found at i:49152951 original size:46 final size:46
Alignment explanation
Indices: 49152816--49152982 Score: 154
Period size: 46 Copynumber: 3.6 Consensus size: 46
49152806 GATTTAATTA
* * ** ** *
49152816 TGTTATTTGAATTAATTATGTTTGATCTGCATATTCATATTGATTC
1 TGTTATTCGAAATAATTATGTCCGATCTATATATCCATATTGATTC
* * * *
49152862 TATTATTCGAAATAATAATGTCCGATCTGTATATCCATTTTGATTC
1 TGTTATTCGAAATAATTATGTCCGATCTATATATCCATATTGATTC
* * * ** *
49152908 TGTTATTCAAAATAATTACGTCCGATCTATCTATCTGTATTGATTT
1 TGTTATTCGAAATAATTATGTCCGATCTATATATCCATATTGATTC
* * *
49152954 TGTCATTCGAAATCATTATGTCCAATCTA
1 TGTTATTCGAAATAATTATGTCCGATCTA
49152983 CAAATCGTAT
Statistics
Matches: 97, Mismatches: 24, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
46 97 1.00
ACGTcount: A:0.29, C:0.14, G:0.11, T:0.46
Consensus pattern (46 bp):
TGTTATTCGAAATAATTATGTCCGATCTATATATCCATATTGATTC
Found at i:49160924 original size:17 final size:17
Alignment explanation
Indices: 49160904--49160936 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
49160894 TATTTTTTTA
49160904 TTTTTAATCAAATATAC
1 TTTTTAATCAAATATAC
49160921 TTTTTAATCAAATATA
1 TTTTTAATCAAATATA
49160937 TATTAAATAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.42, C:0.09, G:0.00, T:0.48
Consensus pattern (17 bp):
TTTTTAATCAAATATAC
Found at i:49161384 original size:21 final size:21
Alignment explanation
Indices: 49161359--49161415 Score: 71
Period size: 21 Copynumber: 2.7 Consensus size: 21
49161349 CCTTTGTTTC
49161359 TAATCTCATTGCTACAAT-AT
1 TAATCTCATTGCTACAATAAT
**
49161379 TCAATCTCATCACTACAATAAT
1 T-AATCTCATTGCTACAATAAT
*
49161401 TAATTTCATTGCTAC
1 TAATCTCATTGCTAC
49161416 CGCTGTTTTT
Statistics
Matches: 30, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
20 1 0.03
21 26 0.87
22 3 0.10
ACGTcount: A:0.35, C:0.23, G:0.04, T:0.39
Consensus pattern (21 bp):
TAATCTCATTGCTACAATAAT
Found at i:49161950 original size:16 final size:15
Alignment explanation
Indices: 49161929--49161987 Score: 50
Period size: 16 Copynumber: 3.7 Consensus size: 15
49161919 ATTTGAAAAC
49161929 AAATTAAAAATTTTAA
1 AAATTAAAAATTTT-A
*
49161945 AAATT-ATAATTGTTA
1 AAATTAAAAATT-TTA
49161960 AAA-TAAAAACTCTTTA
1 AAATTAAAAA-T-TTTA
49161976 AAATTCAAAAAT
1 AAATT-AAAAAT
49161988 AAAAATTATT
Statistics
Matches: 35, Mismatches: 2, Indels: 11
0.73 0.04 0.23
Matches are distributed among these distances:
14 1 0.03
15 12 0.34
16 14 0.40
17 3 0.09
18 5 0.14
ACGTcount: A:0.58, C:0.05, G:0.02, T:0.36
Consensus pattern (15 bp):
AAATTAAAAATTTTA
Found at i:49162010 original size:25 final size:24
Alignment explanation
Indices: 49161959--49162011 Score: 61
Period size: 25 Copynumber: 2.2 Consensus size: 24
49161949 TATAATTGTT
* *
49161959 AAAATAAAAACTCTTTAAAATTCA
1 AAAATAAAAACTCTTTAAAACTAA
* *
49161983 AAAATAAAAATTATTTTAAAACTAA
1 AAAATAAAAACT-CTTTAAAACTAA
49162008 AAAA
1 AAAA
49162012 ATTTCAAAAT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
24 11 0.46
25 13 0.54
ACGTcount: A:0.64, C:0.08, G:0.00, T:0.28
Consensus pattern (24 bp):
AAAATAAAAACTCTTTAAAACTAA
Found at i:49163342 original size:20 final size:20
Alignment explanation
Indices: 49163319--49163356 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
49163309 TTATATTTTT
*
49163319 TAAAATAGCTTTACTTTAGG
1 TAAAATAGATTTACTTTAGG
*
49163339 TAAAATATATTTACTTTA
1 TAAAATAGATTTACTTTA
49163357 ATATTAAATT
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:0.39, C:0.08, G:0.08, T:0.45
Consensus pattern (20 bp):
TAAAATAGATTTACTTTAGG
Found at i:49166477 original size:90 final size:90
Alignment explanation
Indices: 49166319--49166482 Score: 238
Period size: 90 Copynumber: 1.8 Consensus size: 90
49166309 TAATGGTGGA
* ** * * *
49166319 ATGTTAGAGGGATGATAAGAAAATGGCGATGGCGAAGGAGTCGAGAGGGATGAAGAAAAATGGTG
1 ATGTGAGAGGGACAATAAGAAAATGGCGATGGCGAAGGAGCCAAAAGGGATGAAGAAAAATGGTG
49166384 AAAAAGCCCCCTGTTTAGTAGTTGC
66 AAAAAGCCCCCTGTTTAGTAGTTGC
* * * *
49166409 ATGTGAGAGGGACAATAAGAAAATGGTGGTGGTGATGGAGCCAAAAGGGATGAAGAAAAATGGTG
1 ATGTGAGAGGGACAATAAGAAAATGGCGATGGCGAAGGAGCCAAAAGGGATGAAGAAAAATGGTG
49166474 AAAAAGCCC
66 AAAAAGCCC
49166483 TCCCTTTTTT
Statistics
Matches: 64, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
90 64 1.00
ACGTcount: A:0.38, C:0.09, G:0.35, T:0.18
Consensus pattern (90 bp):
ATGTGAGAGGGACAATAAGAAAATGGCGATGGCGAAGGAGCCAAAAGGGATGAAGAAAAATGGTG
AAAAAGCCCCCTGTTTAGTAGTTGC
Found at i:49168535 original size:17 final size:16
Alignment explanation
Indices: 49168513--49168548 Score: 54
Period size: 17 Copynumber: 2.2 Consensus size: 16
49168503 TTTTCAACGT
*
49168513 AAATTAAATTAAATTCA
1 AAATTAAAATAAATT-A
49168530 AAATTAAAATAAATTA
1 AAATTAAAATAAATTA
49168546 AAA
1 AAA
49168549 CAAATATTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 4 0.22
17 14 0.78
ACGTcount: A:0.67, C:0.03, G:0.00, T:0.31
Consensus pattern (16 bp):
AAATTAAAATAAATTA
Found at i:49171253 original size:41 final size:41
Alignment explanation
Indices: 49171151--49171253 Score: 161
Period size: 41 Copynumber: 2.5 Consensus size: 41
49171141 ACTGGCAATT
* * *
49171151 AGCCTGCTAGACGTAAAGTCCGAAATATTTCACCGGCGTCA
1 AGCCTGCTAGACGTAAAGTCTGAAACATTTCACCGGCATCA
49171192 AGCCTGCTAGACGTAAAGTCTGAAACATTTCACCGGCATCA
1 AGCCTGCTAGACGTAAAGTCTGAAACATTTCACCGGCATCA
* *
49171233 AGCTTGCTAGATGTAAAGTCT
1 AGCCTGCTAGACGTAAAGTCT
49171254 AAATTATCTC
Statistics
Matches: 57, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
41 57 1.00
ACGTcount: A:0.30, C:0.24, G:0.21, T:0.24
Consensus pattern (41 bp):
AGCCTGCTAGACGTAAAGTCTGAAACATTTCACCGGCATCA
Found at i:49173081 original size:13 final size:13
Alignment explanation
Indices: 49173063--49173087 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
49173053 CAATCAAATG
49173063 CACACAAAATAAA
1 CACACAAAATAAA
49173076 CACACAAAATAA
1 CACACAAAATAA
49173088 TATTAAAATA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.68, C:0.24, G:0.00, T:0.08
Consensus pattern (13 bp):
CACACAAAATAAA
Found at i:49180595 original size:30 final size:26
Alignment explanation
Indices: 49180542--49180595 Score: 63
Period size: 30 Copynumber: 1.9 Consensus size: 26
49180532 TATAAATGCA
*
49180542 TAAAATAATAATGTTATTTTAAGTTT
1 TAAAATAATAATGTTATTGTAAGTTT
49180568 TAAAATAAGTAATTTGTATATTGTAAGT
1 TAAAATAA-TAA--TGT-TATTGTAAGT
49180596 GTTGAATAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
26 8 0.35
27 3 0.13
29 3 0.13
30 9 0.39
ACGTcount: A:0.43, C:0.00, G:0.11, T:0.46
Consensus pattern (26 bp):
TAAAATAATAATGTTATTGTAAGTTT
Found at i:49181208 original size:14 final size:13
Alignment explanation
Indices: 49181166--49181212 Score: 67
Period size: 13 Copynumber: 3.5 Consensus size: 13
49181156 ATAATTATAA
49181166 TTATTTTTAAATT
1 TTATTTTTAAATT
49181179 TTATTTTTAAATT
1 TTATTTTTAAATT
**
49181192 TTATTTATTTTATT
1 TTATTT-TTAAATT
49181206 TTATTTT
1 TTATTTT
49181213 ATTGAAAAAG
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
13 20 0.65
14 11 0.35
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (13 bp):
TTATTTTTAAATT
Found at i:49181603 original size:15 final size:17
Alignment explanation
Indices: 49181563--49181608 Score: 60
Period size: 16 Copynumber: 2.8 Consensus size: 17
49181553 TTTATGTTAA
*
49181563 ATATATTTAATAATTTT
1 ATATAATTAATAATTTT
*
49181580 ATGTAATTAA-AATTTT
1 ATATAATTAATAATTTT
49181596 A-ATAATTAATAAT
1 ATATAATTAATAAT
49181609 ATATTTAAAG
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
15 7 0.28
16 10 0.40
17 8 0.32
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (17 bp):
ATATAATTAATAATTTT
Found at i:49184266 original size:13 final size:14
Alignment explanation
Indices: 49184248--49184280 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
49184238 AAGCTCAATT
49184248 TTTTTTATTTTCA-
1 TTTTTTATTTTCAC
*
49184261 TTTTTTCTTTTCAC
1 TTTTTTATTTTCAC
49184275 TTTTTT
1 TTTTTT
49184281 TAGAACAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 12 0.67
14 6 0.33
ACGTcount: A:0.09, C:0.12, G:0.00, T:0.79
Consensus pattern (14 bp):
TTTTTTATTTTCAC
Found at i:49186886 original size:21 final size:21
Alignment explanation
Indices: 49186831--49186886 Score: 55
Period size: 21 Copynumber: 2.8 Consensus size: 21
49186821 AAATAACTAA
*
49186831 ACTAA-ACTAATTAT-TTAAC
1 ACTAATACTAATAATATTAAC
*
49186850 ACTAATACT-ATGAATATTAAT
1 ACTAATACTAAT-AATATTAAC
*
49186871 ACTACTACTAATAATA
1 ACTAATACTAATAATA
49186887 AAATAATAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
19 7 0.23
20 5 0.17
21 16 0.53
22 2 0.07
ACGTcount: A:0.48, C:0.14, G:0.02, T:0.36
Consensus pattern (21 bp):
ACTAATACTAATAATATTAAC
Found at i:49193462 original size:19 final size:19
Alignment explanation
Indices: 49193440--49193488 Score: 62
Period size: 19 Copynumber: 2.6 Consensus size: 19
49193430 TGGGAACCGT
49193440 TTGTTGATAAGGGAACATC
1 TTGTTGATAAGGGAACATC
* ** *
49193459 TTGTTTATATTGGAACATT
1 TTGTTGATAAGGGAACATC
49193478 TTGTTGATAAG
1 TTGTTGATAAG
49193489 ATGCATTTTG
Statistics
Matches: 23, Mismatches: 7, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.29, C:0.06, G:0.22, T:0.43
Consensus pattern (19 bp):
TTGTTGATAAGGGAACATC
Found at i:49193736 original size:27 final size:27
Alignment explanation
Indices: 49193700--49193769 Score: 108
Period size: 27 Copynumber: 2.7 Consensus size: 27
49193690 AATTCATTAC
*
49193700 AAAAATTATAATTAAATTTTATTGTAA
1 AAAAAGTATAATTAAATTTTATTGTAA
*
49193727 AAAAAGTATAATTAAATTTTATTGTAT
1 AAAAAGTATAATTAAATTTTATTGTAA
49193754 AAAAAG--TAATTAAATT
1 AAAAAGTATAATTAAATT
49193770 AATTTAGTTA
Statistics
Matches: 41, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
25 10 0.24
27 31 0.76
ACGTcount: A:0.53, C:0.00, G:0.06, T:0.41
Consensus pattern (27 bp):
AAAAAGTATAATTAAATTTTATTGTAA
Found at i:49194262 original size:29 final size:30
Alignment explanation
Indices: 49194218--49194294 Score: 72
Period size: 30 Copynumber: 2.6 Consensus size: 30
49194208 TAAACAAATT
* *
49194218 TAAAGAAAT-AAATAAAATA-AAAACAT-G
1 TAAAAAAATAAAATAAAATATAAAACATCC
* *
49194245 TAAAAAAATAAAATTAAAA-ATAGAACTTCC
1 TAAAAAAATAAAA-TAAAATATAAAACATCC
49194275 TAAAAAAATAAAAATAAAAT
1 TAAAAAAAT-AAAATAAAAT
49194295 TTGAATCTAA
Statistics
Matches: 40, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
27 8 0.20
28 4 0.10
29 10 0.25
30 14 0.35
31 4 0.10
ACGTcount: A:0.70, C:0.05, G:0.04, T:0.21
Consensus pattern (30 bp):
TAAAAAAATAAAATAAAATATAAAACATCC
Found at i:49194636 original size:14 final size:15
Alignment explanation
Indices: 49194594--49194636 Score: 54
Period size: 15 Copynumber: 2.9 Consensus size: 15
49194584 AAATATTATT
*
49194594 AAAT-ATCAAATAATA
1 AAATAATCAAA-ATTA
49194609 AAATAATCAAAATTA
1 AAATAATCAAAATTA
49194624 AAATAAT-AAAATT
1 AAATAATCAAAATT
49194637 GGATATATAA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
14 6 0.23
15 14 0.54
16 6 0.23
ACGTcount: A:0.67, C:0.05, G:0.00, T:0.28
Consensus pattern (15 bp):
AAATAATCAAAATTA
Found at i:49199057 original size:9 final size:9
Alignment explanation
Indices: 49199043--49199073 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
49199033 GTTAAACGAA
49199043 TCGAGTTAT
1 TCGAGTTAT
*
49199052 TCGAGTTAA
1 TCGAGTTAT
49199061 TCGAGTTAT
1 TCGAGTTAT
49199070 TCGA
1 TCGA
49199074 ATCAACTCAA
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:0.26, C:0.13, G:0.23, T:0.39
Consensus pattern (9 bp):
TCGAGTTAT
Found at i:49208051 original size:22 final size:19
Alignment explanation
Indices: 49207989--49208036 Score: 57
Period size: 19 Copynumber: 2.6 Consensus size: 19
49207979 ATATTATTTT
*
49207989 TTTAAAA-AATA-AAGTAA
1 TTTAAAATAATATAAATAA
49208006 -TTATAAATAATATAAATAA
1 TTTA-AAATAATATAAATAA
49208025 TTTAAAATAATA
1 TTTAAAATAATA
49208037 ATAATTGAAC
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
16 3 0.12
17 3 0.12
18 4 0.15
19 13 0.50
20 3 0.12
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.35
Consensus pattern (19 bp):
TTTAAAATAATATAAATAA
Found at i:49209719 original size:4 final size:4
Alignment explanation
Indices: 49209710--49209738 Score: 58
Period size: 4 Copynumber: 7.2 Consensus size: 4
49209700 GCTACAATAA
49209710 AACT AACT AACT AACT AACT AACT AACT A
1 AACT AACT AACT AACT AACT AACT AACT A
49209739 TCAAATTAAC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.52, C:0.24, G:0.00, T:0.24
Consensus pattern (4 bp):
AACT
Found at i:49210013 original size:22 final size:22
Alignment explanation
Indices: 49209978--49210029 Score: 68
Period size: 22 Copynumber: 2.4 Consensus size: 22
49209968 TCGTTAGGTA
**
49209978 TCAATATCGCGATACCCAAACT
1 TCAATATCATGATACCCAAACT
* *
49210000 TCGATATCATGATACCCAATCT
1 TCAATATCATGATACCCAAACT
49210022 TCAATATC
1 TCAATATC
49210030 GCAATTCAAT
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.35, C:0.29, G:0.08, T:0.29
Consensus pattern (22 bp):
TCAATATCATGATACCCAAACT
Found at i:49212843 original size:44 final size:43
Alignment explanation
Indices: 49212755--49212843 Score: 99
Period size: 44 Copynumber: 2.0 Consensus size: 43
49212745 CATAGGATTC
* * *
49212755 CGATATGTGATTAAGTGTAAGACCACGTCTGGGACGTTTGCAT
1 CGATATGTGATTAAGTGTAAGACCACGTCTGAGACGATCGCAT
* * *
49212798 CGATTTGTGATTTACGTGTAAGACCATGTCTGAGAC-ATCGACAT
1 CGATATGTGA-TTAAGTGTAAGACCACGTCTGAGACGATCG-CAT
49212842 CG
1 CG
49212844 TATACGAGTT
Statistics
Matches: 38, Mismatches: 6, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
43 11 0.29
44 27 0.71
ACGTcount: A:0.26, C:0.18, G:0.26, T:0.30
Consensus pattern (43 bp):
CGATATGTGATTAAGTGTAAGACCACGTCTGAGACGATCGCAT
Found at i:49212925 original size:43 final size:43
Alignment explanation
Indices: 49212770--49212926 Score: 149
Period size: 43 Copynumber: 3.7 Consensus size: 43
49212760 TGTGATTAAG
* * *
49212770 TGTAAGACCACGTCTGGGACGTTTGCATCGAT-TTGTGATTTACG
1 TGTAAGACCACGTCTGGGACATTGGCATCGATATT-TGATTT-CA
* * * * ** *
49212814 TGTAAGACCATGTCTGAGACATCGACATCG-TATACGAGTTCA
1 TGTAAGACCACGTCTGGGACATTGGCATCGATATTTGATTTCA
* * *
49212856 TGTAAGACC-CTGTCAGGAACAGTGGCATCGATATTTGATTTCA
1 TGTAAGACCAC-GTCTGGGACATTGGCATCGATATTTGATTTCA
49212899 TGTAAGACCACGTCTGGGACATTGGCAT
1 TGTAAGACCACGTCTGGGACATTGGCAT
49212927 TGTATGAGCT
Statistics
Matches: 86, Mismatches: 23, Indels: 9
0.73 0.19 0.08
Matches are distributed among these distances:
42 23 0.27
43 37 0.43
44 26 0.30
ACGTcount: A:0.26, C:0.20, G:0.25, T:0.29
Consensus pattern (43 bp):
TGTAAGACCACGTCTGGGACATTGGCATCGATATTTGATTTCA
Found at i:49213967 original size:229 final size:230
Alignment explanation
Indices: 49213511--49213970 Score: 897
Period size: 229 Copynumber: 2.0 Consensus size: 230
49213501 ATATAAATGT
49213511 GGCTTATGATTAGATCATTTTAGTAAACTTGAGATATGATTGATGGACGAATTTTGATTGTGGTT
1 GGCTTATGATTAGATCATTTTAGTAAACTTGAGATATGATTGATGGACGAATTTTGATTGTGGTT
49213576 TATTTTTGACTTATTATTGGATTGTATAAATTGTAAAATGAATTGGTGTGAAAGCGGTAAATGAT
66 TATTTTTGACTTATTATTGGATTGTATAAATTGTAAAATGAATTGGTGTGAAAGCGGTAAATGAT
49213641 GTGATTATGTATTCGGCTAGTGATGAATTAAATATGTATACTTATGCTTATGATATAATTAATTG
131 GTGATTATGTATTCGGCTAGTGATGAATTAAATATGTATACTTATGCTTATGATATAATTAATTG
49213706 TAGTTTGGCTATCTTGATTCAGTTTGTAATGACAA
196 TAGTTTGGCTATCTTGATTCAGTTTGTAATGACAA
49213741 GGCTATATGATTAGATCATTTTAGTAAACTTGAGATATGATTGATGGACGAATTTTGATTGTGGT
1 GGCT-TATGATTAGATCATTTTAGTAAACTTGAGATATGATTGATGGACGAATTTTGATTGTGGT
49213806 TTATTTTTGACTTATTA-TGGATTGTATAAATTGTAAAATGAATTGGTGTGAAAGCGGTAAATGA
65 TTATTTTTGACTTATTATTGGATTGTATAAATTGTAAAATGAATTGGTGTGAAAGCGGTAAATGA
49213870 TGTGATTATGTATTCGGCTA-TGATGAATTAAATATGTATACTTATGCTTATGATATAATTAATT
130 TGTGATTATGTATTCGGCTAGTGATGAATTAAATATGTATACTTATGCTTATGATATAATTAATT
49213934 GTAGTTTGGCTATCTTGATTCAGTTTGTAATGACAA
195 GTAGTTTGGCTATCTTGATTCAGTTTGTAATGACAA
49213970 G
1 G
49213971 CATATACATA
Statistics
Matches: 229, Mismatches: 0, Indels: 3
0.99 0.00 0.01
Matches are distributed among these distances:
229 81 0.35
230 71 0.31
231 77 0.34
ACGTcount: A:0.31, C:0.06, G:0.21, T:0.42
Consensus pattern (230 bp):
GGCTTATGATTAGATCATTTTAGTAAACTTGAGATATGATTGATGGACGAATTTTGATTGTGGTT
TATTTTTGACTTATTATTGGATTGTATAAATTGTAAAATGAATTGGTGTGAAAGCGGTAAATGAT
GTGATTATGTATTCGGCTAGTGATGAATTAAATATGTATACTTATGCTTATGATATAATTAATTG
TAGTTTGGCTATCTTGATTCAGTTTGTAATGACAA
Found at i:49216465 original size:11 final size:12
Alignment explanation
Indices: 49216434--49216467 Score: 52
Period size: 13 Copynumber: 2.8 Consensus size: 12
49216424 GTTTACGAGG
49216434 ATATTATATATT
1 ATATTATATATT
49216446 ATATATATATATT
1 ATAT-TATATATT
49216459 A-ATTATATA
1 ATATTATATA
49216468 GTAACATTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
11 6 0.29
12 6 0.29
13 9 0.43
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (12 bp):
ATATTATATATT
Found at i:49217560 original size:34 final size:34
Alignment explanation
Indices: 49217522--49217698 Score: 140
Period size: 34 Copynumber: 5.1 Consensus size: 34
49217512 CAACTAGTGT
* *
49217522 TGGGCACAACCATCGTCGGTTGTCCGACTAGCGC
1 TGGGCACAACCATCGTCGGTTATCTGACTAGCGC
* * * * * *
49217556 TGGGCGCAA-CTTCTGTCAGTTTATCTAACCAGCGT
1 TGGGCACAACCATC-GTC-GGTTATCTGACTAGCGC
* * * * * *
49217591 TGGGTACAATCATCGTCTGTTATCCGATTAGCAC
1 TGGGCACAACCATCGTCGGTTATCTGACTAGCGC
* ** ** *
49217625 TGGGCGCAACTTTCGTCAATTTATCTGACTAGTGC
1 TGGGCACAACCATCGTC-GGTTATCTGACTAGCGC
49217660 TGGGCACAACCATCGTCGGTTATCTGACTAGCGC
1 TGGGCACAACCATCGTCGGTTATCTGACTAGCGC
49217694 TGGGC
1 TGGGC
49217699 GCAAAACATT
Statistics
Matches: 103, Mismatches: 36, Indels: 8
0.70 0.24 0.05
Matches are distributed among these distances:
33 3 0.03
34 51 0.50
35 46 0.45
36 3 0.03
ACGTcount: A:0.20, C:0.27, G:0.25, T:0.28
Consensus pattern (34 bp):
TGGGCACAACCATCGTCGGTTATCTGACTAGCGC
Found at i:49217628 original size:69 final size:69
Alignment explanation
Indices: 49217520--49217702 Score: 242
Period size: 69 Copynumber: 2.7 Consensus size: 69
49217510 TTCAACTAGT
* *
49217520 GTTGGGCACAACCATCGTCGGTTGTCCGACTAGCGCTGGGCGCAAC-TTCTGTCAGTTTATCTAA
1 GTTGGGCACAACCATCGTCGGTTATCCGACTAGCGCTGGGCGCAACTTTC-GTCAATTTATCTAA
49217584 CCAGC
65 CCAGC
* * * * * *
49217589 GTTGGGTACAATCATCGTCTGTTATCCGATTAGCACTGGGCGCAACTTTCGTCAATTTATCTGAC
1 GTTGGGCACAACCATCGTCGGTTATCCGACTAGCGCTGGGCGCAACTTTCGTCAATTTATCTAAC
* *
49217654 TAGT
66 CAGC
* *
49217658 GCTGGGCACAACCATCGTCGGTTATCTGACTAGCGCTGGGCGCAA
1 GTTGGGCACAACCATCGTCGGTTATCCGACTAGCGCTGGGCGCAA
49217703 AACATTGTTA
Statistics
Matches: 96, Mismatches: 17, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
69 93 0.97
70 3 0.03
ACGTcount: A:0.20, C:0.26, G:0.26, T:0.28
Consensus pattern (69 bp):
GTTGGGCACAACCATCGTCGGTTATCCGACTAGCGCTGGGCGCAACTTTCGTCAATTTATCTAAC
CAGC
Found at i:49227928 original size:21 final size:21
Alignment explanation
Indices: 49227902--49227942 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
49227892 AGACGAGCAA
* *
49227902 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
49227923 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
49227943 TTGAGCAGAT
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:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Done.