Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold2421
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: 22311
ACGTcount: A:0.32, C:0.20, G:0.15, T:0.32
Found at i:8974 original size:27 final size:27
Alignment explanation
Indices: 8932--9010 Score: 113
Period size: 27 Copynumber: 2.9 Consensus size: 27
8922 TGGCATTCCT
* *
8932 TTTTAAGTCCATAACTCCATGGCAACC
1 TTTTAAGTCCACAACTCCGTGGCAACC
8959 TTTTAAGTCCACAACTCCGTGGCAACC
1 TTTTAAGTCCACAACTCCGTGGCAACC
* *
8986 TTATAAAGACCACAACTCCGTGGCA
1 TT-TTAAGTCCACAACTCCGTGGCA
9011 GCCCTTTTTA
Statistics
Matches: 47, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
27 27 0.57
28 20 0.43
ACGTcount: A:0.30, C:0.30, G:0.14, T:0.25
Consensus pattern (27 bp):
TTTTAAGTCCACAACTCCGTGGCAACC
Found at i:9004 original size:28 final size:27
Alignment explanation
Indices: 8944--9450 Score: 133
Period size: 28 Copynumber: 18.1 Consensus size: 27
8934 TTAAGTCCAT
* * *
8944 AACTCCATGGCAACCTTTTAAGTCCAC
1 AACTCCGTGGCAACCTTTAAAGACCAC
8971 AACTCCGTGGCAACCTTATAAAGACCAC
1 AACTCCGTGGCAACCTT-TAAAGACCAC
*
8999 AACTCCGTGGCAGCCCTTTTTAAAGACCAC
1 AACTCCGTGGCA-ACC--TTTAAAGACCAC
* *** *
9029 AAGTCAAAGGCATCCTTTCAAAGACCAC
1 AACTCCGTGGCAACCTTT-AAAGACCAC
* * *
9057 AAGTCAG-GG-ACACCTTTTCAAAGACCAA
1 AACTCCGTGGCA-ACC-TTT-AAAGACCAC
* * * *
9085 AAGTCAGTGGCACCCTTTCAAAGCCCAC
1 AACTCCGTGGCAACCTTT-AAAGACCAC
* ** * *
9113 AAGTTGGTGGCATCCTTTCAAAGCCCAC
1 AACTCCGTGGCAACCTTT-AAAGACCAC
* * * *
9141 AAATCAGTGGCATCCTTTCAAAGCCCAC
1 AACTCCGTGGCAACCTTT-AAAGACCAC
* * * * *
9169 AAGTCAGTGGCATCTTTTCAAAGCCCAC
1 AACTCCGTGGCAACCTTT-AAAGACCAC
* * * * *
9197 AAGTCAGT-GCATCTTTTCAAAGCCCAC
1 AACTCCGTGGCAACCTTT-AAAGACCAC
* ** * *
9224 AAGTTAGTGGCATCCTTTCAAAGCCCAC
1 AACTCCGTGGCAACCTTT-AAAGACCAC
* * * *
9252 AAGTCAGTGGCAATCTTTTCAAAGCCCAC
1 AACTCCGTGGCAA-CCTTT-AAAGACCAC
* * *
9281 AAGTCAGTGGCACCCTTTTAAAG-CTCAC
1 AACTCCGTGGCAACC-TTTAAAGAC-CAC
* ** * *
9309 AAGTTAGTGGCATCCTTTCAAAGCCCAC
1 AACTCCGTGGCAACCTTT-AAAGACCAC
* * * * * *
9337 AAGTCAGTGGCATCTTTTCTAAGCCCAC
1 AACTCCGTGGCAACCTTT-AAAGACCAC
* * * *
9365 AAGTCAGTGGCACCCTTTTAAAGCCCAC
1 AACTCCGTGGCAACC-TTTAAAGACCAC
* * ** *
9393 AAATCAGTGGCGTCCTTTCAAAGCCCAC
1 AACTCCGTGGCAACCTTT-AAAGACCAC
* * *
9421 AAGTCAGTGGC-ACTCTTTCAAAGCCCAC
1 AACTCCGTGGCAAC-CTTT-AAAGACCAC
9449 AA
1 AA
9451 GTTAGTGGCA
Statistics
Matches: 419, Mismatches: 43, Indels: 35
0.84 0.09 0.07
Matches are distributed among these distances:
26 1 0.00
27 57 0.14
28 299 0.71
29 41 0.10
30 19 0.05
31 2 0.00
ACGTcount: A:0.30, C:0.30, G:0.17, T:0.23
Consensus pattern (27 bp):
AACTCCGTGGCAACCTTTAAAGACCAC
Found at i:9089 original size:56 final size:56
Alignment explanation
Indices: 8951--14150 Score: 4869
Period size: 56 Copynumber: 91.9 Consensus size: 56
8941 CATAACTCCA
* * * * * * *
8951 TGGCAACCTTTT--AAGTCCACAACTCCGTGGCAACCTTAT-AAAGACCACAACTCCG
1 TGGC-ACCTTTTCAAAGCCCACAAGTCAGTGGCATCCTT-TCAAAGCCCACAAGTCAG
* * ** *
9006 TGGCAGCCCTTTTTAAAGACCACAAGTCAAAGGCATCCTTTCAAAGACCACAAGTCAG
1 TGGCA--CCTTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAG
* * * **
9064 -GGACACCTTTTCAAAGACCAAAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTTGG
1 TGG-CACCTTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAG
*
9120 TGGCATCC-TTTCAAAGCCCACAAATCAGTGGCATCCTTTCAAAGCCCACAAGTCAG
1 TGGCA-CCTTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAG
* * *
9176 TGGCATCTTTTCAAAGCCCACAAGTCAGT-GCATCTTTTCAAAGCCCACAAGTTAG
1 TGGCACCTTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAG
*
9231 TGGCATCC-TTTCAAAGCCCACAAGTCAGTGGCAATCTTTTCAAAGCCCACAAGTCAG
1 TGGCA-CCTTTTCAAAGCCCACAAGTCAGTGGC-ATCCTTTCAAAGCCCACAAGTCAG
* *
9288 TGGCACCCTTTT-AAAGCTCACAAGTTAGTGGCATCCTTTCAAAGCCCACAAGTCAG
1 TGGCA-CCTTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAG
* * * * *
9344 TGGCATCTTTTCTAAGCCCACAAGTCAGTGGCACCCTTTTAAAGCCCACAAATCAG
1 TGGCACCTTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAG
*
9400 TGGCGTCC-TTTCAAAGCCCACAAGTCAGTGGCA-CTCTTTCAAAGCCCACAAGTTAGTGGCATG
1 TGGC-ACCTTTTCAAAGCCCACAAGTCAGTGGCATC-CTTTCAAAGCCCAC-A---AGT--CA-G
*
9463 TCAGTAGCACCCTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAG
1 T--G--GCACCTTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAG
* * * * * *
9523 TGGCATCTCTTCAAAAGCTCACAAGTTAGTGGCAT-TTTTCCAAAGCCCACAAGTCAA
1 TGGCACCTTTTC-AAAGCCCACAAGTCAGTGGCATCCTTT-CAAAGCCCACAAGTCAG
* * * * * * *
9580 TGGTACCCTTT-AAAGCCCACAAATTACTGGCATCCTTTCAAAGCCCACAAGTTAA
1 TGGCACCTTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAG
** * *
9635 TGGCTTCTTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTTAG
1 TGGCACCTTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAG
* * *
9691 TGGCATCC-TTTCAAAGCCCACAAGTCAATGGCAT-CTCTTCAAAAACCCACAAGTCAA
1 TGGCA-CCTTTTCAAAGCCCACAAGTCAGTGGCATCCT-TTC-AAAGCCCACAAGTCAG
* * * * *
9748 TGGCATCTTTTCAAAGCCCACAAGTCAGTAGCACCCTTT-AAAGCCTACAAGTTAG
1 TGGCACCTTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAG
* *
9803 TGGCATCC-TTTCAAAGCCCACAAGTCAGTGACATCTTTTCAAAGCCCACAAGTCAG
1 TGGCA-CCTTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAG
*
9859 TGGCA-CTCTTTCAAAGCCCACAAGTTAGTGGCATGTCAGTAGCACCCTTTCAAAGCCCACAAGT
1 TGGCACCT-TTTCAAAGCCCAC-A---AGT--CA-GT--G--GCATCCTTTCAAAGCCCACAAGT
9923 CAG
54 CAG
* * *
9926 TGGCATCC-TTTCAAAGCCCACAAGTCAGTGGCAT-ATCTTCAAAAGCTCACAAGTTAG
1 TGGCA-CCTTTTCAAAGCCCACAAGTCAGTGGCATCCT-TTC-AAAGCCCACAAGTCAG
* * * * * * *
9983 TGGCA-TTTTTCCAAAGCTCACAAGTCAATGGTACCCTTTTAAAGCCCACAAGTTAG
1 TGGCACCTTTT-CAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAG
* * * * *
10039 TGGCATCC-TTTCAAAGCCCATAAGTTAATGGCTTCTTTTCAAA-CTCCACAAGTCAG
1 TGGCA-CCTTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGC-CCACAAGTCAG
* * *
10095 TGGCACCCTTTCAAAGCCCACAAGTTAGTGGCATCCTTTCAAAGCCCACAAGTCAA
1 TGGCACCTTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAG
* * * * * *
10151 TGGCATCTCTTCAAAAACCCACAAGTCAATGGAATCTTTTCAAAGCCCACAAGTCAG
1 TGGCACCTTTTC-AAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAG
* * *
10208 TGGCACCCTTT-AAAGCCTACAAGTTAGTGGCATCCTTTCAAAGCCCACAAGTCAG
1 TGGCACCTTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAG
* *
10263 TGACATCTTTTCAAAGCCCACAAGTCAGTGGCA-CTCTTTCAAAGCCCACAAGTTAGTGGCATG
1 TGGCACCTTTTCAAAGCCCACAAGTCAGTGGCATC-CTTTCAAAGCCCAC-A---AGT--CA-G
* *
10326 TCAGTAGCACCCTTTCAAAGCCCACAAGTCAGTGGCATCTTTTCAAAGCCCACAAGTCAG
1 T--G--GCACCTTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAG
* * * * * * *
10386 TGGCATCTCTTCAAAAGCTCACAAGTTAGTGCCAT-TTTTCCAAAGCCCACAAGTCAA
1 TGGCACCTTTTC-AAAGCCCACAAGTCAGTGGCATCCTTT-CAAAGCCCACAAGTCAG
* * * *
10443 TGGTACCCTTTT-AAAGCCCACAAGTTAGTGGCATCCTTTCAAAGCCCACAAGTTAA
1 TGGCA-CCTTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAG
* * * *
10499 TCGCTTCC-TTTCAAAGCCCACAAGGT-AGTGGCACCCTTTCAAAGCCCACAAGTAAG
1 TGGC-ACCTTTTCAAAGCCCACAA-GTCAGTGGCATCCTTTCAAAGCCCACAAGTCAG
* *
10555 TGGCATCC-TTTCGAAGGCCCACAAGTTAGTGGCATCCTTTCAAAG-CCACAAGTCAG
1 TGGCA-CCTTTTC-AAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAG
* * *
10611 TGGCATCTTTTCAAAGCCCACAAGTCAGTAGCA-CTCTTTCAAAGCCCACAAGTTAG
1 TGGCACCTTTTCAAAGCCCACAAGTCAGTGGCATC-CTTTCAAAGCCCACAAGTCAG
* * * *
10667 TGGCATCC-TTTCAAAACCCACAAGTCAGTGGCATCTTTTCGAAA-ACCACAAGTTAG
1 TGGCA-CCTTTTCAAAGCCCACAAGTCAGTGGCATCCTTTC-AAAGCCCACAAGTCAG
* * *
10723 TGGCACCCTTTCCAAGCCTACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAG
1 TGGCACCTTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAG
* *
10779 TGGCATCTCTTCAAAAGCCCACAAGTCAGTGGCAT-CTCTTCAAAAGCCCACAAGTCAG
1 TGGCACCTTTTC-AAAGCCCACAAGTCAGTGGCATCCT-TTC-AAAGCCCACAAGTCAG
* * * * * *
10837 TGGCATCATTTCAAAGCCCACAAGTCAGCGGCACCCTTTTAAAGCCCACAAGTTAG
1 TGGCACCTTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAG
* * * **
10893 TGGCATCC-TTTCAAATCACACAAGTTAGTGGCAT-CTCTTCAAAAGAACACAAGTCAG
1 TGGCA-CCTTTTCAAAGCCCACAAGTCAGTGGCATCCT-TTC-AAAGCCCACAAGTCAG
* * *
10950 TGGCATCTCTTCAAAAGACCC-TAAGTCAGTGGCATCCTTTCAAAGCCCAC-AGTCAG
1 TGGCACCTTTTC-AAAG-CCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAG
* * * *
11006 TGGCATCTTATCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTTAG
1 TGGCACCTTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAG
* * * *
11062 TGGCATCC-TTTCAACGCCCACAAGTCAGTGGCACCCTTTTAAAGCCCACAAGTTAG
1 TGGCA-CCTTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAG
* * * * *
11118 TGGCATCC-TTTCAAAACTCACAAGTCAGTGGTATCCTTTCAAAGCCCACAGGTTAG
1 TGGCA-CCTTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAG
* ** * *
11174 TGGCATCTTTTCAAAGCAAACAAGTCAATGGCATCTTTTCAAAAGCCCACAAGTCAG
1 TGGCACCTTTTCAAAGCCCACAAGTCAGTGGCATCCTTTC-AAAGCCCACAAGTCAG
* * * * * * * *
11231 TGGCATCTTTTCAAAGCCCATAAATGAGTGGCACCCTTTCAAAACCCATAAGTTAG
1 TGGCACCTTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAG
* * * * * *
11287 TGACATCTTTTCAAAACACACAAGTTAGTGGCAT-CTCTTCAAAAGACCACAAGTCAG
1 TGGCACCTTTTCAAAGCCCACAAGTCAGTGGCATCCT-TTC-AAAGCCCACAAGTCAG
* * * * * * *
11344 TGGTATCTCTTCAAAAGACCACAGGTTAGTGGCATCCTTTCAAAGCCCACAAGTTAG
1 TGGCACCTTTTC-AAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAG
* * * *
11401 TGGCATCTTTTCAAAGCCCACAAGTCAGTGACACCCTTTCAAAGCCCACAAGTTAG
1 TGGCACCTTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAG
* *
11457 TGGCATCC-TTTCAAAAGCCCATAAGTCAGTGGCATCCTTTCAAAG-CCACAAGTCAA
1 TGGCA-CCTTTTC-AAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAG
* * * * * * * *
11513 TGGCATCTCTTAAAAACCCACAAGTCAATGGCATCTCTTTAAAAACCCACAAGTCAA
1 TGGCACCTTTTCAAAGCCCACAAGTCAGTGGCATC-CTTTCAAAGCCCACAAGTCAG
* * * * * * *
11570 TGGCATCTTTTTAAAACCCACAAGTCAGTGACACCCTTT-AAAGCCTACAAGTTAG
1 TGGCACCTTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAG
* *
11625 TGGCATCC-TTTCAAAGCCCACAAGTCAGTGGCAT-CTCTTCAAAAGACCACAAGTTAG
1 TGGCA-CCTTTTCAAAGCCCACAAGTCAGTGGCATCCT-TTC-AAAGCCCACAAGTCAG
* * * * *
11682 TGGCATCTCTTTAAAAGCCCACAAGT-ACTGGCAACTTTTCAAAGCCCACAAGTCAG
1 TGGCACCT-TTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAG
* * * *
11738 TGGCACCCTTTCAAAGCCCACAAGTTAGTGGCATCCTTTTAAAGCCCACAAGTTAG
1 TGGCACCTTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAG
*** * * * *
11794 TAATACCCTTTCAAAGCCCACAAGTTAGTGGTATCCTTTTAAAGCCCACAAGTCAG
1 TGGCACCTTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAG
* * * * *
11850 TGGCATCTTTTCAAAGCCCACAAGTCAGTGGTA-CCTTTTCAATGCCCATAAGTTAG
1 TGGCACCTTTTCAAAGCCCACAAGTCAGTGGCATCC-TTTCAAAGCCCACAAGTCAG
*
11906 TGGCATCC-TTTC-AAGCCCACAAGTCAGTGGCATCCTTTCAAAGCTCACAAGTCAG
1 TGGCA-CCTTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAG
* * *
11961 TGGCATCTCTTCAAAAGCCCACAAGTTAGTGGCATCCTTTCAAAGCCCACAAGTCAG
1 TGGCACCTTTTC-AAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAG
* * * * * *
12018 TGGCACCTTTTCAAAGCCTACAAGTTAGTAGCATCCTTTGAAAGCCTACAAGTTAG
1 TGGCACCTTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAG
* * * * * * * *
12074 TTGCATCTCTTCAAAAGCTCACAAGTTAGTGGCAT-TTTTCTAAGGCCCACAAGTTAG
1 TGGCACCTTTTC-AAAGCCCACAAGTCAGTGGCATCCTTTC-AAAGCCCACAAGTCAG
* * * * * *
12131 TGGTACCCTTTT-AAATCCCATAAGTTAGTGGCATCCTTTCAAAGCCCACAAGTTAA
1 TGGCA-CCTTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAG
** * * * *
12187 TGGCTTCTTTTCAAAGCCCATAAGTAAGTGGCACCCTTTCAAAGCCCACAAGTAAG
1 TGGCACCTTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAG
* * *
12243 TGGCA-TTCTTTCAAAGTCCACAAGTTAGTGGCATCCTTTCAAAGCCCACAAGTCAG
1 TGGCACCT-TTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAG
* * * * * *
12299 TGGCATCTTTTCAAAGCCCACAAGTTAGTAGCA-CTCTATGAAAGCCCACAAGTTAG
1 TGGCACCTTTTCAAAGCCCACAAGTCAGTGGCATC-CTTTCAAAGCCCACAAGTCAG
* ** * *
12355 TGGCATCC-TTTCAAAGCCCACAAGTCAGTGGCATCTTTTTTGAAGACCACAAGTTAG
1 TGGCA-CCTTTTCAAAGCCCACAAGTCAGTGGCATC-CTTTCAAAGCCCACAAGTCAG
* * * * *
12412 TGGCACCCTTTCAAAGCCCACAAGTCAATGGCATCTTTTCGAAA-ACCACAAGTTAG
1 TGGCACCTTTTCAAAGCCCACAAGTCAGTGGCATCCTTTC-AAAGCCCACAAGTCAG
* * * *
12468 TGGCACCCTTTCAAAGCCTAC-AGTTAGTGGCATCCTTTCAAAGCCTACAAGTCAG
1 TGGCACCTTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAG
* * * **
12523 TGGCATCTCTTCAAAAGCCCATAAGTCAGTGGCATATTTTCAAAGCCCACAAGTCAG
1 TGGCACCTTTTC-AAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAG
* * *
12580 TGGCACCCTTTT-AAAGCCCACAAGTCAGTGGCACCCTTTTAAAGCCCACAAGTTAG
1 TGGCA-CCTTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAG
* * * ** *
12636 TGGCATCC-TTTCAAAACCCACAGGTTAGTGGCAT-CTCTTCAAAAGAACACAAGTTAG
1 TGGCA-CCTTTTCAAAGCCCACAAGTCAGTGGCATCCT-TTC-AAAGCCCACAAGTCAG
* * * * * * *
12693 TGGCATCTCTTCAAAAGACCATAAGTTAGTGGTATCCTTTCAAAACCCACAAGTCAG
1 TGGCACCTTTTC-AAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAG
* * * * * * * * *
12750 TGGCATCTTATCAAAGCTCATAAGTTAATGGCTTCTTTTCAAAGCCC-CAAGTTAG
1 TGGCACCTTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAG
* * * *
12805 TGGCATCC-TTTCAAAGCCCACAAGGTTAGTGACACCCTTTCAAAGCCCACAAGTTAG
1 TGGCA-CCTTTTCAAAGCCCACAA-GTCAGTGGCATCCTTTCAAAGCCCACAAGTCAG
* * * * * * *
12862 TGGCATCC-TTTCAAAACTCACAAGTCAGTGGTATCATTACAAAGCGCACAAGTTAG
1 TGGCA-CCTTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAG
* * * *
12918 TGGCAACTTTTCAAAGCCCACAAGTCAGTGGCAT-CTCTTCAAAAACTCATAAGTCAG
1 TGGCACCTTTTCAAAGCCCACAAGTCAGTGGCATCCT-TTC-AAAGCCCACAAGTCAG
* * * * * * *
12975 TGGCATCTTTTCAAAGCCCATAAATGAATGGCACCCTTTCAAAGCCCACAAGTTAG
1 TGGCACCTTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAG
* * * * *
13031 TGACATCTTTTCAAAACCCACAAGTTAGTGGCAT-CTCTTCAAAAGACCACAAGTCAG
1 TGGCACCTTTTCAAAGCCCACAAGTCAGTGGCATCCT-TTC-AAAGCCCACAAGTCAG
* * * * * *
13088 TGGCATCTCTTCAAAAGACCACAGGTTAGTGGCATCCTTTCAAAGCCCACAAGTTAG
1 TGGCACCTTTTC-AAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAG
* * *
13145 TGGCATCTTTTCAAAG-CCACAAGTCAGTGGCATGCTTTCAAAGCCCACAAGTTAG
1 TGGCACCTTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAG
* *
13200 TGGCATCC-TTTCAAAGCCCATAAGTGAGTGGCATCCTTTCAAAGCCCACAAGTCTA-
1 TGGCA-CCTTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTC-AG
* * * *
13256 TGGCATCTCTTCAAAAG-CCAAAAGTCA-TGGCATCTTTTCAAAGCCCACAAGTCAG
1 TGGCACCTTTTC-AAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAG
* * * * *
13311 TGGCACCCTTT-AAAACCTACAAGTTAGTGGCATCCTTTCAAAGCCCACAAGTTAG
1 TGGCACCTTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAG
* * * * * * *
13366 TGACATCTCTTCGAAAGACCACAAGTTAGTGGCATCTCTTTAAAAGCCCACAAGT-AA
1 TGGCACCTTTTC-AAAGCCCACAAGTCAGTGGCATC-CTTTCAAAGCCCACAAGTCAG
* * * * *
13423 TGGTAACTTTTCAAAACCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTTAG
1 TGGCACCTTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAG
* * * ** * *
13479 TGGCATCTTTTTAAAGCCCACAAGTTAGTAACACCCTTTCAAAG-CCACAAGTTAG
1 TGGCACCTTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAG
* * * *
13534 TGGTATCCTTTT-AAAGCCCACAAGTCAGTTGGCATCTTTTCAAAG-GCACAAGTTAG
1 TGGCA-CCTTTTCAAAGCCCACAAGTCAG-TGGCATCCTTTCAAAGCCCACAAGTCAG
* * * *
13590 TGGCACCTTTTCAATGCCCATAAGTTAGTGGCATCCTTTCAAAGCCCATAAGTCAG
1 TGGCACCTTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAG
* * *
13646 TGGCATC-TTTCAAAGCTCACAAGTCAGTGGCAT-CTCTTCAAAGCCTACAAGTCAG
1 TGGCACCTTTTCAAAGCCCACAAGTCAGTGGCATCCT-TTCAAAGCCCACAAGTCAG
** * * * *
13701 TGGCATATTTTCAAAGCCCACAAGTCAGTGCCA-CATTTTC-AAGCCTACAAGTTAG
1 TGGCACCTTTTCAAAGCCCACAAGTCAGTGGCATC-CTTTCAAAGCCCACAAGTCAG
*
13756 TGGCATCC-TTTCAAAGCCCACAAGTCAGTGGCAT-CTCTTCAAAAGACCACAAGTCAG
1 TGGCA-CCTTTTCAAAGCCCACAAGTCAGTGGCATCCT-TTC-AAAGCCCACAAGTCAG
* * * * * *
13813 TGGCATCTCTTCAAAAGACCACAAGTCAGTGGCAT-CTTTTAAAGCCCACATGTTAG
1 TGGCACCTTTTC-AAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAG
** * * *
13869 TGGCATATTTTCAAAGCCCACAAGTCAGTGGCAACCCTTTCAAAGCCCATAAGTTAG
1 TGGCACCTTTTCAAAGCCCACAAGTCAGTGGC-ATCCTTTCAAAGCCCACAAGTCAG
* * * *
13926 TGGCA-TTCTTTCAAAGCCCAAAAGTCAGCGGCATCCTTTCAAAGCCCACAAGTTAG
1 TGGCACCT-TTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAG
* * * *
13982 TGGCACCCTTTCAAAGCCCACAAGTCAATGGCATACCATTTCAAAGCCTACACAAAATCAA
1 TGGCACCTTTTCAAAGCCCACAAGTCAGTGGCAT-CC-TTTCAAAGCC--CAC-AAGTCAG
* * * * * *
14043 TGGCACCCTTCCAAAGCCCATAAGTCAGTGGCACCCTTTTAAAGCCTACAAGTCAG
1 TGGCACCTTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAG
* ** * *
14099 TGGTACCCCTTCAAAGCCCATAAGTCAGTGGCATCCCCTTTTAAAGCCCACA
1 TGGCACCTTTTCAAAGCCCACAAGTCAGTGGCAT--CCTTTCAAAGCCCACA
14151 CAAGTCGGTG
Statistics
Matches: 4295, Mismatches: 642, Indels: 413
0.80 0.12 0.08
Matches are distributed among these distances:
53 3 0.00
54 23 0.01
55 762 0.18
56 1997 0.46
57 1028 0.24
58 249 0.06
59 19 0.00
60 19 0.00
61 40 0.01
62 6 0.00
63 15 0.00
65 3 0.00
66 5 0.00
67 123 0.03
68 2 0.00
69 1 0.00
ACGTcount: A:0.31, C:0.28, G:0.17, T:0.25
Consensus pattern (56 bp):
TGGCACCTTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAG
Found at i:9132 original size:84 final size:84
Alignment explanation
Indices: 9037--14150 Score: 5057
Period size: 84 Copynumber: 60.2 Consensus size: 84
9027 ACAAGTCAAA
* * * *
9037 GGCATCCTTTCAAAGACCACAAGTCAG-GGACACCTTTTCAAAGACCAAAAGTCAGTGGCACCCT
1 GGCATCCTTTCAAAGCCCACAAGTCAGTGG-CACCTTTTCAAAGCCCACAAGTCAGTGGCATCCT
*
9101 TTCAAAGCCCACAAGTTGGT
65 TTCAAAGCCCACAAGTTAGT
* *
9121 GGCATCCTTTCAAAGCCCACAAATCAGTGGCATCC-TTTCAAAGCCCACAAGTCAGTGGCATCTT
1 GGCATCCTTTCAAAGCCCACAAGTCAGTGGCA-CCTTTTCAAAGCCCACAAGTCAGTGGCATCCT
*
9185 TTCAAAGCCCACAAGTCAGT
65 TTCAAAGCCCACAAGTTAGT
* * *
9205 -GCATCTTTTCAAAGCCCACAAGTTAGTGGCATCC-TTTCAAAGCCCACAAGTCAGTGGCAATCT
1 GGCATCCTTTCAAAGCCCACAAGTCAGTGGCA-CCTTTTCAAAGCCCACAAGTCAGTGGC-ATCC
*
9268 TTTCAAAGCCCACAAGTCAGT
64 TTTCAAAGCCCACAAGTTAGT
* * * * *
9289 GGCACCCTTTTAAAGCTCACAAGTTAGTGGCATCC-TTTCAAAGCCCACAAGTCAGTGGCATCTT
1 GGCATCCTTTCAAAGCCCACAAGTCAGTGGCA-CCTTTTCAAAGCCCACAAGTCAGTGGCATCCT
* *
9353 TTCTAAGCCCACAAGTCAGT
65 TTCAAAGCCCACAAGTTAGT
* * * *
9373 GGCACCCTTTTAAAGCCCACAAATCAGTGGCGTCC-TTTCAAAGCCCACAAGTCAGTGGCA-CTC
1 GGCATCCTTTCAAAGCCCACAAGTCAGTGGC-ACCTTTTCAAAGCCCACAAGTCAGTGGCATC-C
9436 TTTCAAAGCCCACAAGTTAGT
64 TTTCAAAGCCCACAAGTTAGT
9457 GGCATGTCAGTAGCACCCTTTCAAAGCCCACAAGTCAGTGGCATCC-TTTCAAAGCCCACAAGTC
1 -G---G-CA-T-----CCTTTCAAAGCCCACAAGTCAGTGGCA-CCTTTTCAAAGCCCACAAGTC
*
9521 AGTGGCAT-CTCTTCAAAAGCTCACAAGTTAGT
54 AGTGGCATCCT-TTC-AAAGCCCACAAGTTAGT
* * * * * * *
9553 GGCAT-TTTTCCAAAGCCCACAAGTCAATGGTACCCTTT-AAAGCCCACAAATTACTGGCATCCT
1 GGCATCCTTT-CAAAGCCCACAAGTCAGTGGCACCTTTTCAAAGCCCACAAGTCAGTGGCATCCT
*
9616 TTCAAAGCCCACAAGTTAAT
65 TTCAAAGCCCACAAGTTAGT
* * * *
9636 GGCTTCTTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTTAGTGGCATCCTT
1 GGCATCCTTTCAAAGCCCACAAGTCAGTGGCACCTTTTCAAAGCCCACAAGTCAGTGGCATCCTT
* *
9701 TCAAAGCCCACAAGTCAAT
66 TCAAAGCCCACAAGTTAGT
* * * * *
9720 GGCAT-CTCTTCAAAAACCCACAAGTCAATGGCATCTTTTCAAAGCCCACAAGTCAGTAGCACCC
1 GGCATCCT-TTC-AAAGCCCACAAGTCAGTGGCACCTTTTCAAAGCCCACAAGTCAGTGGCATCC
*
9784 TTT-AAAGCCTACAAGTTAGT
64 TTTCAAAGCCCACAAGTTAGT
* *
9804 GGCATCCTTTCAAAGCCCACAAGTCAGTGACATCTTTTCAAAGCCCACAAGTCAGTGGCA-CTCT
1 GGCATCCTTTCAAAGCCCACAAGTCAGTGGCACCTTTTCAAAGCCCACAAGTCAGTGGCATC-CT
9868 TTCAAAGCCCACAAGTTAGT
65 TTCAAAGCCCACAAGTTAGT
9888 GGCATGTCAGTAGCACCCTTTCAAAGCCCACAAGTCAGTGGCATCC-TTTCAAAGCCCACAAGTC
1 -G---G-CA-T-----CCTTTCAAAGCCCACAAGTCAGTGGCA-CCTTTTCAAAGCCCACAAGTC
* *
9952 AGTGGCAT-ATCTTCAAAAGCTCACAAGTTAGT
54 AGTGGCATCCT-TTC-AAAGCCCACAAGTTAGT
* * * * *
9984 GGCAT-TTTTCCAAAGCTCACAAGTCAATGGTACCCTTTT-AAAGCCCACAAGTTAGTGGCATCC
1 GGCATCCTTT-CAAAGCCCACAAGTCAGTGGCA-CCTTTTCAAAGCCCACAAGTCAGTGGCATCC
* *
10047 TTTCAAAGCCCATAAGTTAAT
64 TTTCAAAGCCCACAAGTTAGT
* * * *
10068 GGCTTCTTTTCAAA-CTCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTTAGTGGCATCCT
1 GGCATCCTTTCAAAGC-CCACAAGTCAGTGGCACCTTTTCAAAGCCCACAAGTCAGTGGCATCCT
* *
10132 TTCAAAGCCCACAAGTCAAT
65 TTCAAAGCCCACAAGTTAGT
* * * * *
10152 GGCAT-CTCTTCAAAAACCCACAAGTCAATGGAATCTTTTCAAAGCCCACAAGTCAGTGGCACCC
1 GGCATCCT-TTC-AAAGCCCACAAGTCAGTGGCACCTTTTCAAAGCCCACAAGTCAGTGGCATCC
*
10216 TTT-AAAGCCTACAAGTTAGT
64 TTTCAAAGCCCACAAGTTAGT
* *
10236 GGCATCCTTTCAAAGCCCACAAGTCAGTGACATCTTTTCAAAGCCCACAAGTCAGTGGCA-CTCT
1 GGCATCCTTTCAAAGCCCACAAGTCAGTGGCACCTTTTCAAAGCCCACAAGTCAGTGGCATC-CT
10300 TTCAAAGCCCACAAGTTAGT
65 TTCAAAGCCCACAAGTTAGT
*
10320 GGCATGTCAGTAGCACCCTTTCAAAGCCCACAAGTCAGTGGCATCTTTTCAAAGCCCACAAGTCA
1 -G---G-CA-T-----CCTTTCAAAGCCCACAAGTCAGTGGCACCTTTTCAAAGCCCACAAGTCA
*
10385 GTGGCAT-CTCTTCAAAAGCTCACAAGTTAGT
55 GTGGCATCCT-TTC-AAAGCCCACAAGTTAGT
* * * * *
10416 GCCAT-TTTTCCAAAGCCCACAAGTCAATGGTACCCTTTT-AAAGCCCACAAGTTAGTGGCATCC
1 GGCATCCTTT-CAAAGCCCACAAGTCAGTGGCA-CCTTTTCAAAGCCCACAAGTCAGTGGCATCC
*
10479 TTTCAAAGCCCACAAGTTAAT
64 TTTCAAAGCCCACAAGTTAGT
* * * *
10500 CGCTTCCTTTCAAAGCCCACAAGGT-AGTGGCACCCTTTCAAAGCCCACAAGTAAGTGGCATCCT
1 GGCATCCTTTCAAAGCCCACAA-GTCAGTGGCACCTTTTCAAAGCCCACAAGTCAGTGGCATCCT
*
10564 TTCGAAGGCCCACAAGTTAGT
65 TTC-AAAGCCCACAAGTTAGT
* *
10585 GGCATCCTTTCAAAG-CCACAAGTCAGTGGCATCTTTTCAAAGCCCACAAGTCAGTAGCA-CTCT
1 GGCATCCTTTCAAAGCCCACAAGTCAGTGGCACCTTTTCAAAGCCCACAAGTCAGTGGCATC-CT
10648 TTCAAAGCCCACAAGTTAGT
65 TTCAAAGCCCACAAGTTAGT
* * * * *
10668 GGCATCCTTTCAAAACCCACAAGTCAGTGGCATCTTTTCGAAA-ACCACAAGTTAGTGGCACCCT
1 GGCATCCTTTCAAAGCCCACAAGTCAGTGGCACCTTTTC-AAAGCCCACAAGTCAGTGGCATCCT
* * *
10732 TTCCAAGCCTACAAGTCAGT
65 TTCAAAGCCCACAAGTTAGT
* *
10752 GGCATCCTTTCAAAGCCCACAAGTCAGTGGCATCTCTTCAAAAGCCCACAAGTCAGTGGCAT-CT
1 GGCATCCTTTCAAAGCCCACAAGTCAGTGGCACCTTTTC-AAAGCCCACAAGTCAGTGGCATCCT
*
10816 CTTCAAAAGCCCACAAGTCAGT
65 -TTC-AAAGCCCACAAGTTAGT
* * *
10838 GGCATCATTTCAAAGCCCACAAGTCAGCGGCACCCTTTT-AAAGCCCACAAGTTAGTGGCATCCT
1 GGCATCCTTTCAAAGCCCACAAGTCAGTGGCA-CCTTTTCAAAGCCCACAAGTCAGTGGCATCCT
* *
10902 TTCAAATCACACAAGTTAGT
65 TTCAAAGCCCACAAGTTAGT
** * * *
10922 GGCAT-CTCTTCAAAAGAACACAAGTCAGTGGCATCTCTTCAAAAGACCC-TAAGTCAGTGGCAT
1 GGCATCCT-TTC-AAAGCCCACAAGTCAGTGGCACCTTTTC-AAAG-CCCACAAGTCAGTGGCAT
*
10985 CCTTTCAAAGCCCAC-AGTCAGT
62 CCTTTCAAAGCCCACAAGTTAGT
* *
11007 GGCAT-CTTATCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTTAGTGGCATCCT
1 GGCATCCTT-TCAAAGCCCACAAGTCAGTGGCACCTTTTCAAAGCCCACAAGTCAGTGGCATCCT
* *
11071 TTCAACGCCCACAAGTCAGT
65 TTCAAAGCCCACAAGTTAGT
* * * * * *
11091 GGCACCCTTTTAAAGCCCACAAGTTAGTGGCATCC-TTTCAAAACTCACAAGTCAGTGGTATCCT
1 GGCATCCTTTCAAAGCCCACAAGTCAGTGGCA-CCTTTTCAAAGCCCACAAGTCAGTGGCATCCT
*
11155 TTCAAAGCCCACAGGTTAGT
65 TTCAAAGCCCACAAGTTAGT
* ** * * *
11175 GGCATCTTTTCAAAGCAAACAAGTCAATGGCATCTTTTCAAAAGCCCACAAGTCAGTGGCATCTT
1 GGCATCCTTTCAAAGCCCACAAGTCAGTGGCACCTTTTC-AAAGCCCACAAGTCAGTGGCATCCT
* * *
11240 TTCAAAGCCCATAAATGAGT
65 TTCAAAGCCCACAAGTTAGT
* * * * * * * * *
11260 GGCACCCTTTCAAAACCCATAAGTTAGTGACATCTTTTCAAAACACACAAGTTAGTGGCAT-CTC
1 GGCATCCTTTCAAAGCCCACAAGTCAGTGGCACCTTTTCAAAGCCCACAAGTCAGTGGCATCCT-
* *
11324 TTCAAAAGACCACAAGTCAGT
65 TTC-AAAGCCCACAAGTTAGT
* * * * *
11345 GGTAT-CTCTTCAAAAGACCACAGGTTAGTGGCATCC-TTTCAAAGCCCACAAGTTAGTGGCATC
1 GGCATCCT-TTC-AAAGCCCACAAGTCAGTGGCA-CCTTTTCAAAGCCCACAAGTCAGTGGCATC
* *
11408 TTTTCAAAGCCCACAAGTCAGT
63 CTTTCAAAGCCCACAAGTTAGT
* * * *
11430 GACACCCTTTCAAAGCCCACAAGTTAGTGGCATCC-TTTCAAAAGCCCATAAGTCAGTGGCATCC
1 GGCATCCTTTCAAAGCCCACAAGTCAGTGGCA-CCTTTTC-AAAGCCCACAAGTCAGTGGCATCC
* *
11494 TTTCAAAG-CCACAAGTCAAT
64 TTTCAAAGCCCACAAGTTAGT
* * * * * * * *
11514 GGCAT-CTCTTAAAAACCCACAAGTCAATGGCATCTCTTTAAAAACCCACAAGTCAATGGCATCT
1 GGCATCCT-TTCAAAGCCCACAAGTCAGTGGCACCT-TTTCAAAGCCCACAAGTCAGTGGCATCC
* * *
11578 TTTTAAAACCCACAAGTCAGT
64 TTTCAAAGCCCACAAGTTAGT
* * * *
11599 GACACCCTTT-AAAGCCTACAAGTTAGTGGCATCC-TTTCAAAGCCCACAAGTCAGTGGCAT-CT
1 GGCATCCTTTCAAAGCCCACAAGTCAGTGGCA-CCTTTTCAAAGCCCACAAGTCAGTGGCATCCT
*
11661 CTTCAAAAGACCACAAGTTAGT
65 -TTC-AAAGCCCACAAGTTAGT
* * * *
11683 GGCATCTCTTTAAAAGCCCACAAGT-ACTGGCAACTTTTCAAAGCCCACAAGTCAGTGGCACCCT
1 GGCATC-CTTTCAAAGCCCACAAGTCAGTGGCACCTTTTCAAAGCCCACAAGTCAGTGGCATCCT
11747 TTCAAAGCCCACAAGTTAGT
65 TTCAAAGCCCACAAGTTAGT
* * *** * * *
11767 GGCATCCTTTTAAAGCCCACAAGTTAGTAATACCCTTTCAAAGCCCACAAGTTAGTGGTATCCTT
1 GGCATCCTTTCAAAGCCCACAAGTCAGTGGCACCTTTTCAAAGCCCACAAGTCAGTGGCATCCTT
* *
11832 TTAAAGCCCACAAGTCAGT
66 TCAAAGCCCACAAGTTAGT
* * * * *
11851 GGCATCTTTTCAAAGCCCACAAGTCAGTGGTACCTTTTCAATGCCCATAAGTTAGTGGCATCCTT
1 GGCATCCTTTCAAAGCCCACAAGTCAGTGGCACCTTTTCAAAGCCCACAAGTCAGTGGCATCCTT
*
11916 TC-AAGCCCACAAGTCAGT
66 TCAAAGCCCACAAGTTAGT
* * * *
11934 GGCATCCTTTCAAAGCTCACAAGTCAGTGGCATCTCTTCAAAAGCCCACAAGTTAGTGGCATCCT
1 GGCATCCTTTCAAAGCCCACAAGTCAGTGGCACCTTTTC-AAAGCCCACAAGTCAGTGGCATCCT
*
11999 TTCAAAGCCCACAAGTCAGT
65 TTCAAAGCCCACAAGTTAGT
* * * * * * *
12019 GGCA-CCTTTTCAAAGCCTACAAGTTAGTAGCATCC-TTTGAAAGCCTACAAGTTAGTTGCAT-C
1 GGCATCC-TTTCAAAGCCCACAAGTCAGTGGCA-CCTTTTCAAAGCCCACAAGTCAGTGGCATCC
*
12081 TCTTCAAAAGCTCACAAGTTAGT
64 T-TTC-AAAGCCCACAAGTTAGT
* * * * * * *
12104 GGCAT-TTTTCTAAGGCCCACAAGTTAGTGGTACCCTTTT-AAATCCCATAAGTTAGTGGCATCC
1 GGCATCCTTTC-AAAGCCCACAAGTCAGTGGCA-CCTTTTCAAAGCCCACAAGTCAGTGGCATCC
*
12167 TTTCAAAGCCCACAAGTTAAT
64 TTTCAAAGCCCACAAGTTAGT
* * * * * * *
12188 GGCTTCTTTTCAAAGCCCATAAGTAAGTGGCACCCTTTCAAAGCCCACAAGTAAGTGGCATTCTT
1 GGCATCCTTTCAAAGCCCACAAGTCAGTGGCACCTTTTCAAAGCCCACAAGTCAGTGGCATCCTT
*
12253 TCAAAGTCCACAAGTTAGT
66 TCAAAGCCCACAAGTTAGT
* * *
12272 GGCATCCTTTCAAAGCCCACAAGTCAGTGGCATCTTTTCAAAGCCCACAAGTTAGTAGCA-CTCT
1 GGCATCCTTTCAAAGCCCACAAGTCAGTGGCACCTTTTCAAAGCCCACAAGTCAGTGGCATC-CT
* *
12336 ATGAAAGCCCACAAGTTAGT
65 TTCAAAGCCCACAAGTTAGT
* ** * * *
12356 GGCATCCTTTCAAAGCCCACAAGTCAGTGGCATCTTTTTTGAAGACCACAAGTTAGTGGCACCCT
1 GGCATCCTTTCAAAGCCCACAAGTCAGTGGCA-CCTTTTCAAAGCCCACAAGTCAGTGGCATCCT
* *
12421 TTCAAAGCCCACAAGTCAAT
65 TTCAAAGCCCACAAGTTAGT
* * * * * *
12441 GGCATCTTTTCGAAA-ACCACAAGTTAGTGGCACCCTTTCAAAGCCTAC-AGTTAGTGGCATCCT
1 GGCATCCTTTC-AAAGCCCACAAGTCAGTGGCACCTTTTCAAAGCCCACAAGTCAGTGGCATCCT
* *
12504 TTCAAAGCCTACAAGTCAGT
65 TTCAAAGCCCACAAGTTAGT
* ** *
12524 GGCAT-CTCTTCAAAAGCCCATAAGTCAGTGGCATATTTTCAAAGCCCACAAGTCAGTGGCACCC
1 GGCATCCT-TTC-AAAGCCCACAAGTCAGTGGCACCTTTTCAAAGCCCACAAGTCAGTGGCATCC
* *
12588 TTTTAAAGCCCACAAGTCAGT
64 TTTCAAAGCCCACAAGTTAGT
* * * * * *
12609 GGCACCCTTTTAAAGCCCACAAGTTAGTGGCATCC-TTTCAAAACCCACAGGTTAGTGGCAT-CT
1 GGCATCCTTTCAAAGCCCACAAGTCAGTGGCA-CCTTTTCAAAGCCCACAAGTCAGTGGCATCCT
**
12672 CTTCAAAAGAACACAAGTTAGT
65 -TTC-AAAGCCCACAAGTTAGT
* * * * *
12694 GGCAT-CTCTTCAAAAGACCATAAGTTAGTGGTATCC-TTTCAAAACCCACAAGTCAGTGGCAT-
1 GGCATCCT-TTC-AAAGCCCACAAGTCAGTGGCA-CCTTTTCAAAGCCCACAAGTCAGTGGCATC
* * *
12756 CTTATCAAAGCTCATAAGTTAAT
63 CTT-TCAAAGCCCACAAGTTAGT
* * * * * *
12779 GGCTTCTTTTCAAAGCCC-CAAGTTAGTGGCATCC-TTTCAAAGCCCACAAGGTTAGTGACACCC
1 GGCATCCTTTCAAAGCCCACAAGTCAGTGGCA-CCTTTTCAAAGCCCACAA-GTCAGTGGCATCC
12842 TTTCAAAGCCCACAAGTTAGT
64 TTTCAAAGCCCACAAGTTAGT
* * * * * * * * * *
12863 GGCATCCTTTCAAAACTCACAAGTCAGTGGTATCATTACAAAGCGCACAAGTTAGTGGCAACTTT
1 GGCATCCTTTCAAAGCCCACAAGTCAGTGGCACCTTTTCAAAGCCCACAAGTCAGTGGCATCCTT
*
12928 TCAAAGCCCACAAGTCAGT
66 TCAAAGCCCACAAGTTAGT
* * * * * * * * *
12947 GGCAT-CTCTTCAAAAACTCATAAGTCAGTGGCATCTTTTCAAAGCCCATAAATGAATGGCACCC
1 GGCATCCT-TTC-AAAGCCCACAAGTCAGTGGCACCTTTTCAAAGCCCACAAGTCAGTGGCATCC
13011 TTTCAAAGCCCACAAGTTAGT
64 TTTCAAAGCCCACAAGTTAGT
* * * * * * *
13032 GACATCTTTTCAAAACCCACAAGTTAGTGGCATCTCTTCAAAAGACCACAAGTCAGTGGCAT-CT
1 GGCATCCTTTCAAAGCCCACAAGTCAGTGGCACCTTTTC-AAAGCCCACAAGTCAGTGGCATCCT
* *
13096 CTTCAAAAGACCACAGGTTAGT
65 -TTC-AAAGCCCACAAGTTAGT
* * *
13118 GGCATCCTTTCAAAGCCCACAAGTTAGTGGCATCTTTTCAAAG-CCACAAGTCAGTGGCATGCTT
1 GGCATCCTTTCAAAGCCCACAAGTCAGTGGCACCTTTTCAAAGCCCACAAGTCAGTGGCATCCTT
13182 TCAAAGCCCACAAGTTAGT
66 TCAAAGCCCACAAGTTAGT
* *
13201 GGCATCCTTTCAAAGCCCATAAGTGAGTGGCATCC-TTTCAAAGCCCACAAGTCTA-TGGCAT-C
1 GGCATCCTTTCAAAGCCCACAAGTCAGTGGCA-CCTTTTCAAAGCCCACAAGTC-AGTGGCATCC
* *
13263 TCTTCAAAAG-CCAAAAGTCA-T
64 T-TTC-AAAGCCCACAAGTTAGT
* * * * *
13284 GGCATCTTTTCAAAGCCCACAAGTCAGTGGCACCCTTT-AAAACCTACAAGTTAGTGGCATCCTT
1 GGCATCCTTTCAAAGCCCACAAGTCAGTGGCACCTTTTCAAAGCCCACAAGTCAGTGGCATCCTT
13348 TCAAAGCCCACAAGTTAGT
66 TCAAAGCCCACAAGTTAGT
* * * * * * * *
13367 GACAT-CTCTTCGAAAGACCACAAGTTAGTGGCATCTCTTTAAAAGCCCACAAGT-AATGGTAAC
1 GGCATCCT-TTC-AAAGCCCACAAGTCAGTGGCACCT-TTTCAAAGCCCACAAGTCAGTGGCATC
* * *
13430 TTTTCAAAACCCACAAGTCAGT
63 CTTTCAAAGCCCACAAGTTAGT
* * * * * ** *
13452 GGCACCCTTTCAAAGCCCACAAGTTAGTGGCATCTTTTTAAAGCCCACAAGTTAGTAACACCCTT
1 GGCATCCTTTCAAAGCCCACAAGTCAGTGGCACCTTTTCAAAGCCCACAAGTCAGTGGCATCCTT
13517 TCAAAG-CCACAAGTTAGT
66 TCAAAGCCCACAAGTTAGT
* * * * *
13535 GGTATCCTTTTAAAGCCCACAAGTCAGTTGGCATCTTTTCAAAG-GCACAAGTTAGTGGCA-CCT
1 GGCATCCTTTCAAAGCCCACAAGTCAG-TGGCACCTTTTCAAAGCCCACAAGTCAGTGGCATCC-
* *
13598 TTTCAATGCCCATAAGTTAGT
64 TTTCAAAGCCCACAAGTTAGT
* * *
13619 GGCATCCTTTCAAAGCCCATAAGTCAGTGGCATC-TTTCAAAGCTCACAAGTCAGTGGCAT-CTC
1 GGCATCCTTTCAAAGCCCACAAGTCAGTGGCACCTTTTCAAAGCCCACAAGTCAGTGGCATCCT-
* *
13682 TTCAAAGCCTACAAGTCAGT
65 TTCAAAGCCCACAAGTTAGT
** * * * *
13702 GGCATATTTTCAAAGCCCACAAGTCAGTGCCACATTTTC-AAGCCTACAAGTTAGTGGCATCCTT
1 GGCATCCTTTCAAAGCCCACAAGTCAGTGGCACCTTTTCAAAGCCCACAAGTCAGTGGCATCCTT
*
13766 TCAAAGCCCACAAGTCAGT
66 TCAAAGCCCACAAGTTAGT
* * * *
13785 GGCAT-CTCTTCAAAAGACCACAAGTCAGTGGCATCTCTTCAAAAGACCACAAGTCAGTGGCAT-
1 GGCATCCT-TTC-AAAGCCCACAAGTCAGTGGCACCTTTTC-AAAGCCCACAAGTCAGTGGCATC
* *
13848 CTTTTAAAGCCCACATGTTAGT
63 CTTTCAAAGCCCACAAGTTAGT
** * * * *
13870 GGCATATTTTCAAAGCCCACAAGTCAGTGGCAACCCTTTCAAAGCCCATAAGTTAGTGGCATTCT
1 GGCATCCTTTCAAAGCCCACAAGTCAGTGGC-ACCTTTTCAAAGCCCACAAGTCAGTGGCATCCT
* * *
13935 TTCAAAGCCCAAAAGTCAGC
65 TTCAAAGCCCACAAGTTAGT
* * *
13955 GGCATCCTTTCAAAGCCCACAAGTTAGTGGCACCCTTTCAAAGCCCACAAGTCAATGGCATACCA
1 GGCATCCTTTCAAAGCCCACAAGTCAGTGGCACCTTTTCAAAGCCCACAAGTCAGTGGCAT-CC-
* * *
14020 TTTCAAAGCCTACACAAAATCAAT
64 TTTCAAAGCC--CAC-AAGTTAGT
* * * * * * *
14044 GGCACCCTTCCAAAGCCCATAAGTCAGTGGCACCCTTTT-AAAGCCTACAAGTCAGTGGTACCCC
1 GGCATCCTTTCAAAGCCCACAAGTCAGTGGCA-CCTTTTCAAAGCCCACAAGTCAGTGGCATCCT
* *
14108 TTCAAAGCCCATAAGTCAGT
65 TTCAAAGCCCACAAGTTAGT
*
14128 GGCATCCCCTTTTAAAGCCCACA
1 GGCAT--CCTTTCAAAGCCCACA
14151 CAAGTCGGTG
Statistics
Matches: 4251, Mismatches: 580, Indels: 396
0.81 0.11 0.08
Matches are distributed among these distances:
81 5 0.00
82 50 0.01
83 734 0.17
84 1745 0.41
85 1078 0.25
86 317 0.07
87 18 0.00
88 7 0.00
89 57 0.01
90 10 0.00
91 6 0.00
92 2 0.00
94 5 0.00
95 168 0.04
96 49 0.01
ACGTcount: A:0.31, C:0.28, G:0.17, T:0.25
Consensus pattern (84 bp):
GGCATCCTTTCAAAGCCCACAAGTCAGTGGCACCTTTTCAAAGCCCACAAGTCAGTGGCATCCTT
TCAAAGCCCACAAGTTAGT
Found at i:9451 original size:28 final size:27
Alignment explanation
Indices: 9020--9461 Score: 519
Period size: 28 Copynumber: 15.8 Consensus size: 27
9010 AGCCCTTTTT
* **
9020 AAAGACCACAAGTCAAAGGCATCCTTTC
1 AAAGCCCACAAGTCAGTGGCAT-CTTTC
* *
9048 AAAGACCACAAGTCAG-GGACACCTTTTC
1 AAAGCCCACAAGTCAGTGG-CATC-TTTC
* * *
9076 AAAGACCAAAAGTCAGTGGCACCCTTTC
1 AAAGCCCACAAGTCAGTGGCA-TCTTTC
**
9104 AAAGCCCACAAGTTGGTGGCATCCTTTC
1 AAAGCCCACAAGTCAGTGGCAT-CTTTC
*
9132 AAAGCCCACAAATCAGTGGCATCCTTTC
1 AAAGCCCACAAGTCAGTGGCAT-CTTTC
9160 AAAGCCCACAAGTCAGTGGCATCTTTTC
1 AAAGCCCACAAGTCAGTGGCATC-TTTC
9188 AAAGCCCACAAGTCAGT-GCATCTTTTC
1 AAAGCCCACAAGTCAGTGGCATC-TTTC
*
9215 AAAGCCCACAAGTTAGTGGCATCCTTTC
1 AAAGCCCACAAGTCAGTGGCAT-CTTTC
9243 AAAGCCCACAAGTCAGTGGCAATCTTTTC
1 AAAGCCCACAAGTCAGTGGC-ATC-TTTC
* *
9272 AAAGCCCACAAGTCAGTGGCACCCTTTT
1 AAAGCCCACAAGTCAGTGGCA-TCTTTC
* *
9300 AAAGCTCACAAGTTAGTGGCATCCTTTC
1 AAAGCCCACAAGTCAGTGGCAT-CTTTC
9328 AAAGCCCACAAGTCAGTGGCATCTTTTC
1 AAAGCCCACAAGTCAGTGGCATC-TTTC
* * *
9356 TAAGCCCACAAGTCAGTGGCACCCTTTT
1 AAAGCCCACAAGTCAGTGGCA-TCTTTC
* *
9384 AAAGCCCACAAATCAGTGGCGTCCTTTC
1 AAAGCCCACAAGTCAGTGGCAT-CTTTC
9412 AAAGCCCACAAGTCAGTGGCACTCTTTC
1 AAAGCCCACAAGTCAGTGGCA-TCTTTC
*
9440 AAAGCCCACAAGTTAGTGGCAT
1 AAAGCCCACAAGTCAGTGGCAT
9462 GTCAGTAGCA
Statistics
Matches: 365, Mismatches: 33, Indels: 33
0.85 0.08 0.08
Matches are distributed among these distances:
27 32 0.09
28 299 0.82
29 34 0.09
ACGTcount: A:0.31, C:0.29, G:0.18, T:0.23
Consensus pattern (27 bp):
AAAGCCCACAAGTCAGTGGCATCTTTC
Found at i:9478 original size:39 final size:39
Alignment explanation
Indices: 9423--9500 Score: 129
Period size: 39 Copynumber: 2.0 Consensus size: 39
9413 AAGCCCACAA
* * *
9423 GTCAGTGGCACTCTTTCAAAGCCCACAAGTTAGTGGCAT
1 GTCAGTAGCACCCTTTCAAAGCCCACAAGTCAGTGGCAT
9462 GTCAGTAGCACCCTTTCAAAGCCCACAAGTCAGTGGCAT
1 GTCAGTAGCACCCTTTCAAAGCCCACAAGTCAGTGGCAT
9501 CCTTTCAAAG
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 36 1.00
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (39 bp):
GTCAGTAGCACCCTTTCAAAGCCCACAAGTCAGTGGCAT
Found at i:9504 original size:28 final size:28
Alignment explanation
Indices: 9462--9892 Score: 514
Period size: 28 Copynumber: 15.4 Consensus size: 28
9452 TTAGTGGCAT
* *
9462 GTCAGTAGCACCCTTTCAAAGCCCACAA
1 GTCAGTGGCATCCTTTCAAAGCCCACAA
9490 GTCAGTGGCATCCTTTCAAAGCCCACAA
1 GTCAGTGGCATCCTTTCAAAGCCCACAA
*
9518 GTCAGTGGCAT-CTCTTCAAAAGCTCACAA
1 GTCAGTGGCATCCT-TTC-AAAGCCCACAA
* *
9547 GTTAGTGGCAT-TTTTCCAAAGCCCACAA
1 GTCAGTGGCATCCTTT-CAAAGCCCACAA
* * *
9575 GTCAATGGTACCCTTT-AAAGCCCACAA
1 GTCAGTGGCATCCTTTCAAAGCCCACAA
* * *
9602 ATTACTGGCATCCTTTCAAAGCCCACAA
1 GTCAGTGGCATCCTTTCAAAGCCCACAA
* * * *
9630 GTTAATGGCTTCTTTTCAAAGCCCACAA
1 GTCAGTGGCATCCTTTCAAAGCCCACAA
*
9658 GTCAGTGGCACCCTTTCAAAGCCCACAA
1 GTCAGTGGCATCCTTTCAAAGCCCACAA
*
9686 GTTAGTGGCATCCTTTCAAAGCCCACAA
1 GTCAGTGGCATCCTTTCAAAGCCCACAA
* *
9714 GTCAATGGCAT-CTCTTCAAAAACCCACAA
1 GTCAGTGGCATCCT-TTC-AAAGCCCACAA
* *
9743 GTCAATGGCATCTTTTCAAAGCCCACAA
1 GTCAGTGGCATCCTTTCAAAGCCCACAA
* * *
9771 GTCAGTAGCACCCTTT-AAAGCCTACAA
1 GTCAGTGGCATCCTTTCAAAGCCCACAA
*
9798 GTTAGTGGCATCCTTTCAAAGCCCACAA
1 GTCAGTGGCATCCTTTCAAAGCCCACAA
* *
9826 GTCAGTGACATCTTTTCAAAGCCCACAA
1 GTCAGTGGCATCCTTTCAAAGCCCACAA
9854 GTCAGTGGCA-CTCTTTCAAAGCCCACAA
1 GTCAGTGGCATC-CTTTCAAAGCCCACAA
*
9882 GTTAGTGGCAT
1 GTCAGTGGCAT
9893 GTCAGTAGCA
Statistics
Matches: 345, Mismatches: 47, Indels: 21
0.84 0.11 0.05
Matches are distributed among these distances:
27 50 0.14
28 245 0.71
29 49 0.14
30 1 0.00
ACGTcount: A:0.31, C:0.29, G:0.16, T:0.24
Consensus pattern (28 bp):
GTCAGTGGCATCCTTTCAAAGCCCACAA
Found at i:9909 original size:39 final size:39
Alignment explanation
Indices: 9854--9931 Score: 129
Period size: 39 Copynumber: 2.0 Consensus size: 39
9844 AAGCCCACAA
* * *
9854 GTCAGTGGCACTCTTTCAAAGCCCACAAGTTAGTGGCAT
1 GTCAGTAGCACCCTTTCAAAGCCCACAAGTCAGTGGCAT
9893 GTCAGTAGCACCCTTTCAAAGCCCACAAGTCAGTGGCAT
1 GTCAGTAGCACCCTTTCAAAGCCCACAAGTCAGTGGCAT
9932 CCTTTCAAAG
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 36 1.00
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (39 bp):
GTCAGTAGCACCCTTTCAAAGCCCACAAGTCAGTGGCAT
Found at i:9935 original size:28 final size:28
Alignment explanation
Indices: 9893--10324 Score: 489
Period size: 28 Copynumber: 15.4 Consensus size: 28
9883 TTAGTGGCAT
* *
9893 GTCAGTAGCACCCTTTCAAAGCCCACAA
1 GTCAGTGGCATCCTTTCAAAGCCCACAA
9921 GTCAGTGGCATCCTTTCAAAGCCCACAA
1 GTCAGTGGCATCCTTTCAAAGCCCACAA
* *
9949 GTCAGTGGCAT-ATCTTCAAAAGCTCACAA
1 GTCAGTGGCATCCT-TTC-AAAGCCCACAA
* * *
9978 GTTAGTGGCAT-TTTTCCAAAGCTCACAA
1 GTCAGTGGCATCCTTT-CAAAGCCCACAA
* * * *
10006 GTCAATGGTACCCTTTTAAAGCCCACAA
1 GTCAGTGGCATCCTTTCAAAGCCCACAA
* *
10034 GTTAGTGGCATCCTTTCAAAGCCCATAA
1 GTCAGTGGCATCCTTTCAAAGCCCACAA
* * * *
10062 GTTAATGGCTTCTTTTCAAA-CTCCACAA
1 GTCAGTGGCATCCTTTCAAAGC-CCACAA
*
10090 GTCAGTGGCACCCTTTCAAAGCCCACAA
1 GTCAGTGGCATCCTTTCAAAGCCCACAA
*
10118 GTTAGTGGCATCCTTTCAAAGCCCACAA
1 GTCAGTGGCATCCTTTCAAAGCCCACAA
* *
10146 GTCAATGGCAT-CTCTTCAAAAACCCACAA
1 GTCAGTGGCATCCT-TTC-AAAGCCCACAA
* * *
10175 GTCAATGGAATCTTTTCAAAGCCCACAA
1 GTCAGTGGCATCCTTTCAAAGCCCACAA
* *
10203 GTCAGTGGCACCCTTT-AAAGCCTACAA
1 GTCAGTGGCATCCTTTCAAAGCCCACAA
*
10230 GTTAGTGGCATCCTTTCAAAGCCCACAA
1 GTCAGTGGCATCCTTTCAAAGCCCACAA
* *
10258 GTCAGTGACATCTTTTCAAAGCCCACAA
1 GTCAGTGGCATCCTTTCAAAGCCCACAA
10286 GTCAGTGGCA-CTCTTTCAAAGCCCACAA
1 GTCAGTGGCATC-CTTTCAAAGCCCACAA
*
10314 GTTAGTGGCAT
1 GTCAGTGGCAT
10325 GTCAGTAGCA
Statistics
Matches: 342, Mismatches: 50, Indels: 23
0.82 0.12 0.06
Matches are distributed among these distances:
27 29 0.08
28 263 0.77
29 49 0.14
30 1 0.00
ACGTcount: A:0.31, C:0.28, G:0.16, T:0.25
Consensus pattern (28 bp):
GTCAGTGGCATCCTTTCAAAGCCCACAA
Found at i:10341 original size:39 final size:39
Alignment explanation
Indices: 10286--10363 Score: 129
Period size: 39 Copynumber: 2.0 Consensus size: 39
10276 AAGCCCACAA
* * *
10286 GTCAGTGGCACTCTTTCAAAGCCCACAAGTTAGTGGCAT
1 GTCAGTAGCACCCTTTCAAAGCCCACAAGTCAGTGGCAT
10325 GTCAGTAGCACCCTTTCAAAGCCCACAAGTCAGTGGCAT
1 GTCAGTAGCACCCTTTCAAAGCCCACAAGTCAGTGGCAT
10364 CTTTTCAAAG
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 36 1.00
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (39 bp):
GTCAGTAGCACCCTTTCAAAGCCCACAAGTCAGTGGCAT
Found at i:10369 original size:28 final size:28
Alignment explanation
Indices: 10338--14150 Score: 3750
Period size: 28 Copynumber: 135.5 Consensus size: 28
10328 AGTAGCACCC
10338 TTTCAAAGCCCACAAGTCAGTGGCATCT
1 TTTCAAAGCCCACAAGTCAGTGGCATCT
10366 TTTCAAAGCCCACAAGTCAGTGGCATCT
1 TTTCAAAGCCCACAAGTCAGTGGCATCT
* * * *
10394 CTTCAAAAGCTCACAAGTTAGTGCCAT-T
1 TTTC-AAAGCCCACAAGTCAGTGGCATCT
* * *
10422 TTTCCAAAGCCCACAAGTCAATGGTACCCT
1 TTT-CAAAGCCCACAAGTCAGTGGCA-TCT
* *
10452 TTT-AAAGCCCACAAGTTAGTGGCATCC
1 TTTCAAAGCCCACAAGTCAGTGGCATCT
* * * * *
10479 TTTCAAAGCCCACAAGTTAATCGCTTCC
1 TTTCAAAGCCCACAAGTCAGTGGCATCT
* *
10507 TTTCAAAGCCCACAAGGT-AGTGGCACCC
1 TTTCAAAGCCCACAA-GTCAGTGGCATCT
* *
10535 TTTCAAAGCCCACAAGTAAGTGGCATCC
1 TTTCAAAGCCCACAAGTCAGTGGCATCT
* * *
10563 TTTCGAAGGCCCACAAGTTAGTGGCATCC
1 TTTC-AAAGCCCACAAGTCAGTGGCATCT
10592 TTTCAAAG-CCACAAGTCAGTGGCATCT
1 TTTCAAAGCCCACAAGTCAGTGGCATCT
*
10619 TTTCAAAGCCCACAAGTCAGTAGCA-CT
1 TTTCAAAGCCCACAAGTCAGTGGCATCT
* *
10646 CTTTCAAAGCCCACAAGTTAGTGGCATCC
1 -TTTCAAAGCCCACAAGTCAGTGGCATCT
*
10675 TTTCAAAACCCACAAGTCAGTGGCATCT
1 TTTCAAAGCCCACAAGTCAGTGGCATCT
* * * *
10703 TTTCGAAA-ACCACAAGTTAGTGGCACCC
1 TTTC-AAAGCCCACAAGTCAGTGGCATCT
* * *
10731 TTTCCAAGCCTACAAGTCAGTGGCATCC
1 TTTCAAAGCCCACAAGTCAGTGGCATCT
10759 TTTCAAAGCCCACAAGTCAGTGGCATCT
1 TTTCAAAGCCCACAAGTCAGTGGCATCT
*
10787 CTTCAAAAGCCCACAAGTCAGTGGCATCT
1 TTTC-AAAGCCCACAAGTCAGTGGCATCT
* *
10816 CTTCAAAAGCCCACAAGTCAGTGGCATCA
1 TTTC-AAAGCCCACAAGTCAGTGGCATCT
* *
10845 TTTCAAAGCCCACAAGTCAGCGGCACCCT
1 TTTCAAAGCCCACAAGTCAGTGGCA-TCT
* *
10874 TTT-AAAGCCCACAAGTTAGTGGCATCC
1 TTTCAAAGCCCACAAGTCAGTGGCATCT
* * *
10901 TTTCAAATCACACAAGTTAGTGGCATCT
1 TTTCAAAGCCCACAAGTCAGTGGCATCT
* **
10929 CTTCAAAAGAACACAAGTCAGTGGCATCT
1 TTTC-AAAGCCCACAAGTCAGTGGCATCT
* * *
10958 CTTCAAAAGACCC-TAAGTCAGTGGCATCC
1 TTTC-AAAG-CCCACAAGTCAGTGGCATCT
10987 TTTCAAAGCCCAC-AGTCAGTGGCATCT
1 TTTCAAAGCCCACAAGTCAGTGGCATCT
* * *
11014 TATCAAAGCCCACAAGTCAGTGGCACCC
1 TTTCAAAGCCCACAAGTCAGTGGCATCT
* *
11042 TTTCAAAGCCCACAAGTTAGTGGCATCC
1 TTTCAAAGCCCACAAGTCAGTGGCATCT
* *
11070 TTTCAACGCCCACAAGTCAGTGGCACCCT
1 TTTCAAAGCCCACAAGTCAGTGGCA-TCT
* *
11099 TTT-AAAGCCCACAAGTTAGTGGCATCC
1 TTTCAAAGCCCACAAGTCAGTGGCATCT
* * * *
11126 TTTCAAAACTCACAAGTCAGTGGTATCC
1 TTTCAAAGCCCACAAGTCAGTGGCATCT
* *
11154 TTTCAAAGCCCACAGGTTAGTGGCATCT
1 TTTCAAAGCCCACAAGTCAGTGGCATCT
** *
11182 TTTCAAAGCAAACAAGTCAATGGCATCT
1 TTTCAAAGCCCACAAGTCAGTGGCATCT
11210 TTTCAAAAGCCCACAAGTCAGTGGCATCT
1 TTTC-AAAGCCCACAAGTCAGTGGCATCT
* * * * *
11239 TTTCAAAGCCCATAAATGAGTGGCACCC
1 TTTCAAAGCCCACAAGTCAGTGGCATCT
* * * *
11267 TTTCAAAACCCATAAGTTAGTGACATCT
1 TTTCAAAGCCCACAAGTCAGTGGCATCT
* * *
11295 TTTCAAAACACACAAGTTAGTGGCATCT
1 TTTCAAAGCCCACAAGTCAGTGGCATCT
* * *
11323 CTTCAAAAGACCACAAGTCAGTGGTATCT
1 TTTC-AAAGCCCACAAGTCAGTGGCATCT
* * * * *
11352 CTTCAAAAGACCACAGGTTAGTGGCATCC
1 TTTC-AAAGCCCACAAGTCAGTGGCATCT
*
11381 TTTCAAAGCCCACAAGTTAGTGGCATCT
1 TTTCAAAGCCCACAAGTCAGTGGCATCT
* * *
11409 TTTCAAAGCCCACAAGTCAGTGACACCC
1 TTTCAAAGCCCACAAGTCAGTGGCATCT
* *
11437 TTTCAAAGCCCACAAGTTAGTGGCATCC
1 TTTCAAAGCCCACAAGTCAGTGGCATCT
* *
11465 TTTCAAAAGCCCATAAGTCAGTGGCATCC
1 TTTC-AAAGCCCACAAGTCAGTGGCATCT
*
11494 TTTCAAAG-CCACAAGTCAATGGCATCT
1 TTTCAAAGCCCACAAGTCAGTGGCATCT
* * * *
11521 CTTAAAAACCCACAAGTCAATGGCATCT
1 TTTCAAAGCCCACAAGTCAGTGGCATCT
* * *
11549 CTTTAAAAACCCACAAGTCAATGGCATCT
1 -TTTCAAAGCCCACAAGTCAGTGGCATCT
* * * * *
11578 TTTTAAAACCCACAAGTCAGTGACACCC
1 TTTCAAAGCCCACAAGTCAGTGGCATCT
* * *
11606 TTT-AAAGCCTACAAGTTAGTGGCATCC
1 TTTCAAAGCCCACAAGTCAGTGGCATCT
11633 TTTCAAAGCCCACAAGTCAGTGGCATCT
1 TTTCAAAGCCCACAAGTCAGTGGCATCT
* * *
11661 CTTCAAAAGACCACAAGTTAGTGGCATCT
1 TTTC-AAAGCCCACAAGTCAGTGGCATCT
* * *
11690 CTTTAAAAGCCCACAAGT-ACTGGCAACT
1 -TTTCAAAGCCCACAAGTCAGTGGCATCT
* *
11718 TTTCAAAGCCCACAAGTCAGTGGCACCC
1 TTTCAAAGCCCACAAGTCAGTGGCATCT
*
11746 TTTCAAAGCCCACAAGTTAGTGGCATCCT
1 TTTCAAAGCCCACAAGTCAGTGGCAT-CT
* *** * *
11775 TTT-AAAGCCCACAAGTTAGTAATACCC
1 TTTCAAAGCCCACAAGTCAGTGGCATCT
* *
11802 TTTCAAAGCCCACAAGTTAGTGGTATCCT
1 TTTCAAAGCCCACAAGTCAGTGGCAT-CT
11831 TTT-AAAGCCCACAAGTCAGTGGCATCT
1 TTTCAAAGCCCACAAGTCAGTGGCATCT
* *
11858 TTTCAAAGCCCACAAGTCAGTGGTACCT
1 TTTCAAAGCCCACAAGTCAGTGGCATCT
* * * *
11886 TTTCAATGCCCATAAGTTAGTGGCATCC
1 TTTCAAAGCCCACAAGTCAGTGGCATCT
*
11914 TTTC-AAGCCCACAAGTCAGTGGCATCC
1 TTTCAAAGCCCACAAGTCAGTGGCATCT
*
11941 TTTCAAAGCTCACAAGTCAGTGGCATCT
1 TTTCAAAGCCCACAAGTCAGTGGCATCT
* * *
11969 CTTCAAAAGCCCACAAGTTAGTGGCATCC
1 TTTC-AAAGCCCACAAGTCAGTGGCATCT
*
11998 TTTCAAAGCCCACAAGTCAGTGGCACCT
1 TTTCAAAGCCCACAAGTCAGTGGCATCT
* * * *
12026 TTTCAAAGCCTACAAGTTAGTAGCATCC
1 TTTCAAAGCCCACAAGTCAGTGGCATCT
* * * *
12054 TTTGAAAGCCTACAAGTTAGTTGCATCT
1 TTTCAAAGCCCACAAGTCAGTGGCATCT
* * *
12082 CTTCAAAAGCTCACAAGTTAGTGGCAT-T
1 TTTC-AAAGCCCACAAGTCAGTGGCATCT
* * * *
12110 TTTCTAAGGCCCACAAGTTAGTGGTACCCT
1 TTTC-AAAGCCCACAAGTCAGTGGCA-TCT
* * * *
12140 TTT-AAATCCCATAAGTTAGTGGCATCC
1 TTTCAAAGCCCACAAGTCAGTGGCATCT
* * *
12167 TTTCAAAGCCCACAAGTTAATGGCTTCT
1 TTTCAAAGCCCACAAGTCAGTGGCATCT
* * * *
12195 TTTCAAAGCCCATAAGTAAGTGGCACCC
1 TTTCAAAGCCCACAAGTCAGTGGCATCT
*
12223 TTTCAAAGCCCACAAGTAAGTGGCAT-T
1 TTTCAAAGCCCACAAGTCAGTGGCATCT
* * *
12250 CTTTCAAAGTCCACAAGTTAGTGGCATCC
1 -TTTCAAAGCCCACAAGTCAGTGGCATCT
12279 TTTCAAAGCCCACAAGTCAGTGGCATCT
1 TTTCAAAGCCCACAAGTCAGTGGCATCT
* *
12307 TTTCAAAGCCCACAAGTTAGTAGCA-CT
1 TTTCAAAGCCCACAAGTCAGTGGCATCT
* * * *
12334 CTATGAAAGCCCACAAGTTAGTGGCATCC
1 -TTTCAAAGCCCACAAGTCAGTGGCATCT
12363 TTTCAAAGCCCACAAGTCAGTGGCATCTT
1 TTTCAAAGCCCACAAGTCAGTGGCATC-T
** * * * *
12392 TTTTGAAGACCACAAGTTAGTGGCACCC
1 TTTCAAAGCCCACAAGTCAGTGGCATCT
*
12420 TTTCAAAGCCCACAAGTCAATGGCATCT
1 TTTCAAAGCCCACAAGTCAGTGGCATCT
* * * *
12448 TTTCGAAA-ACCACAAGTTAGTGGCACCC
1 TTTC-AAAGCCCACAAGTCAGTGGCATCT
* * *
12476 TTTCAAAGCCTAC-AGTTAGTGGCATCC
1 TTTCAAAGCCCACAAGTCAGTGGCATCT
*
12503 TTTCAAAGCCTACAAGTCAGTGGCATCT
1 TTTCAAAGCCCACAAGTCAGTGGCATCT
* * *
12531 CTTCAAAAGCCCATAAGTCAGTGGCATAT
1 TTTC-AAAGCCCACAAGTCAGTGGCATCT
*
12560 TTTCAAAGCCCACAAGTCAGTGGCACCCT
1 TTTCAAAGCCCACAAGTCAGTGGCA-TCT
*
12589 TTT-AAAGCCCACAAGTCAGTGGCACCCT
1 TTTCAAAGCCCACAAGTCAGTGGCA-TCT
* *
12617 TTT-AAAGCCCACAAGTTAGTGGCATCC
1 TTTCAAAGCCCACAAGTCAGTGGCATCT
* * *
12644 TTTCAAAACCCACAGGTTAGTGGCATCT
1 TTTCAAAGCCCACAAGTCAGTGGCATCT
* ** *
12672 CTTCAAAAGAACACAAGTTAGTGGCATCT
1 TTTC-AAAGCCCACAAGTCAGTGGCATCT
* * * * * *
12701 CTTCAAAAGACCATAAGTTAGTGGTATCC
1 TTTC-AAAGCCCACAAGTCAGTGGCATCT
*
12730 TTTCAAAACCCACAAGTCAGTGGCATCT
1 TTTCAAAGCCCACAAGTCAGTGGCATCT
* * * * * *
12758 TATCAAAGCTCATAAGTTAATGGCTTCT
1 TTTCAAAGCCCACAAGTCAGTGGCATCT
* *
12786 TTTCAAAGCCC-CAAGTTAGTGGCATCC
1 TTTCAAAGCCCACAAGTCAGTGGCATCT
* * * *
12813 TTTCAAAGCCCACAAGGTTAGTGACACCC
1 TTTCAAAGCCCACAA-GTCAGTGGCATCT
* *
12842 TTTCAAAGCCCACAAGTTAGTGGCATCC
1 TTTCAAAGCCCACAAGTCAGTGGCATCT
* * * *
12870 TTTCAAAACTCACAAGTCAGTGGTATCA
1 TTTCAAAGCCCACAAGTCAGTGGCATCT
* * * *
12898 TTACAAAGCGCACAAGTTAGTGGCAACT
1 TTTCAAAGCCCACAAGTCAGTGGCATCT
12926 TTTCAAAGCCCACAAGTCAGTGGCATCT
1 TTTCAAAGCCCACAAGTCAGTGGCATCT
* * * *
12954 CTTCAAAAACTCATAAGTCAGTGGCATCT
1 TTTC-AAAGCCCACAAGTCAGTGGCATCT
* * * * * *
12983 TTTCAAAGCCCATAAATGAATGGCACCC
1 TTTCAAAGCCCACAAGTCAGTGGCATCT
* *
13011 TTTCAAAGCCCACAAGTTAGTGACATCT
1 TTTCAAAGCCCACAAGTCAGTGGCATCT
* *
13039 TTTCAAAACCCACAAGTTAGTGGCATCT
1 TTTCAAAGCCCACAAGTCAGTGGCATCT
* *
13067 CTTCAAAAGACCACAAGTCAGTGGCATCT
1 TTTC-AAAGCCCACAAGTCAGTGGCATCT
* * * * *
13096 CTTCAAAAGACCACAGGTTAGTGGCATCC
1 TTTC-AAAGCCCACAAGTCAGTGGCATCT
*
13125 TTTCAAAGCCCACAAGTTAGTGGCATCT
1 TTTCAAAGCCCACAAGTCAGTGGCATCT
13153 TTTCAAAG-CCACAAGTCAGTGGCATGC-
1 TTTCAAAGCCCACAAGTCAGTGGCAT-CT
* *
13180 TTTCAAAGCCCACAAGTTAGTGGCATCC
1 TTTCAAAGCCCACAAGTCAGTGGCATCT
* * *
13208 TTTCAAAGCCCATAAGTGAGTGGCATCC
1 TTTCAAAGCCCACAAGTCAGTGGCATCT
13236 TTTCAAAGCCCACAAGTCTA-TGGCATCT
1 TTTCAAAGCCCACAAGTC-AGTGGCATCT
* *
13264 CTTCAAAAG-CCAAAAGTCA-TGGCATCT
1 TTTC-AAAGCCCACAAGTCAGTGGCATCT
* *
13291 TTTCAAAGCCCACAAGTCAGTGGCACCC
1 TTTCAAAGCCCACAAGTCAGTGGCATCT
* * * *
13319 TTT-AAAACCTACAAGTTAGTGGCATCC
1 TTTCAAAGCCCACAAGTCAGTGGCATCT
* *
13346 TTTCAAAGCCCACAAGTTAGTGACATCT
1 TTTCAAAGCCCACAAGTCAGTGGCATCT
* * *
13374 CTTCGAAAGACCACAAGTTAGTGGCATCT
1 TTTC-AAAGCCCACAAGTCAGTGGCATCT
* * * *
13403 CTTTAAAAGCCCACAAGT-AATGGTAACT
1 -TTTCAAAGCCCACAAGTCAGTGGCATCT
* * *
13431 TTTCAAAACCCACAAGTCAGTGGCACCC
1 TTTCAAAGCCCACAAGTCAGTGGCATCT
*
13459 TTTCAAAGCCCACAAGTTAGTGGCATCT
1 TTTCAAAGCCCACAAGTCAGTGGCATCT
* * ** * *
13487 TTTTAAAGCCCACAAGTTAGTAACACCC
1 TTTCAAAGCCCACAAGTCAGTGGCATCT
* *
13515 TTTCAAAG-CCACAAGTTAGTGGTATCCT
1 TTTCAAAGCCCACAAGTCAGTGGCAT-CT
13543 TTT-AAAGCCCACAAGTCAGTTGGCATCT
1 TTTCAAAGCCCACAAGTCAG-TGGCATCT
* * *
13571 TTTCAAAG-GCACAAGTTAGTGGCACCT
1 TTTCAAAGCCCACAAGTCAGTGGCATCT
* * * *
13598 TTTCAATGCCCATAAGTTAGTGGCATCC
1 TTTCAAAGCCCACAAGTCAGTGGCATCT
*
13626 TTTCAAAGCCCATAAGTCAGTGGCATC-
1 TTTCAAAGCCCACAAGTCAGTGGCATCT
*
13653 TTTCAAAGCTCACAAGTCAGTGGCATCT
1 TTTCAAAGCCCACAAGTCAGTGGCATCT
* * *
13681 CTTCAAAGCCTACAAGTCAGTGGCATAT
1 TTTCAAAGCCCACAAGTCAGTGGCATCT
*
13709 TTTCAAAGCCCACAAGTCAGTGCCA-CAT
1 TTTCAAAGCCCACAAGTCAGTGGCATC-T
* * *
13737 TTTC-AAGCCTACAAGTTAGTGGCATCC
1 TTTCAAAGCCCACAAGTCAGTGGCATCT
13764 TTTCAAAGCCCACAAGTCAGTGGCATCT
1 TTTCAAAGCCCACAAGTCAGTGGCATCT
* *
13792 CTTCAAAAGACCACAAGTCAGTGGCATCT
1 TTTC-AAAGCCCACAAGTCAGTGGCATCT
* *
13821 CTTCAAAAGACCACAAGTCAGTGGCATCT
1 TTTC-AAAGCCCACAAGTCAGTGGCATCT
* * *
13850 TTT-AAAGCCCACATGTTAGTGGCATAT
1 TTTCAAAGCCCACAAGTCAGTGGCATCT
* *
13877 TTTCAAAGCCCACAAGTCAGTGGCAACCC
1 TTTCAAAGCCCACAAGTCAGTGGC-ATCT
* *
13906 TTTCAAAGCCCATAAGTTAGTGGCAT-T
1 TTTCAAAGCCCACAAGTCAGTGGCATCT
* * *
13933 CTTTCAAAGCCCAAAAGTCAGCGGCATCC
1 -TTTCAAAGCCCACAAGTCAGTGGCATCT
* * *
13962 TTTCAAAGCCCACAAGTTAGTGGCACCC
1 TTTCAAAGCCCACAAGTCAGTGGCATCT
* *
13990 TTTCAAAGCCCACAAGTCAATGGCATACCA
1 TTTCAAAGCCCACAAGTCAGTGGCAT--CT
* * * *
14020 TTTCAAAGCCTACACAAAATCAATGGCACCC
1 TTTCAAAGCC--CAC-AAGTCAGTGGCATCT
* * *
14051 TTCCAAAGCCCATAAGTCAGTGGCACCCT
1 TTTCAAAGCCCACAAGTCAGTGGCA-TCT
* * * *
14080 TTT-AAAGCCTACAAGTCAGTGGTACCC
1 TTTCAAAGCCCACAAGTCAGTGGCATCT
* *
14107 CTTCAAAGCCCATAAGTCAGTGGCATCCCCT
1 TTTCAAAGCCCACAAGTCAGTGGCAT---CT
14138 TTT-AAAGCCCACA
1 TTTCAAAGCCCACA
14151 CAAGTCGGTG
Statistics
Matches: 3183, Mismatches: 510, Indels: 182
0.82 0.13 0.05
Matches are distributed among these distances:
26 4 0.00
27 413 0.13
28 2001 0.63
29 705 0.22
30 33 0.01
31 13 0.00
32 3 0.00
33 11 0.00
ACGTcount: A:0.31, C:0.27, G:0.17, T:0.25
Consensus pattern (28 bp):
TTTCAAAGCCCACAAGTCAGTGGCATCT
Found at i:14334 original size:25 final size:25
Alignment explanation
Indices: 14306--14380 Score: 77
Period size: 25 Copynumber: 3.2 Consensus size: 25
14296 ATTAGCTCAA
14306 TGTCGCTAGCCTTGAATCAGCACAT
1 TGTCGCTAGCCTTGAATCAGCACAT
* * * *
14331 TGTC-C-A-CCTT-TATTAGCTCAA
1 TGTCGCTAGCCTTGAATCAGCACAT
*
14352 TGTCGCTGGCCTTGAATCAGCACAT
1 TGTCGCTAGCCTTGAATCAGCACAT
14377 TGTC
1 TGTC
14381 CACTTTTCCC
Statistics
Matches: 37, Mismatches: 9, Indels: 8
0.69 0.17 0.15
Matches are distributed among these distances:
21 11 0.30
22 5 0.14
23 1 0.03
24 5 0.14
25 15 0.41
ACGTcount: A:0.21, C:0.28, G:0.19, T:0.32
Consensus pattern (25 bp):
TGTCGCTAGCCTTGAATCAGCACAT
Found at i:14350 original size:46 final size:47
Alignment explanation
Indices: 14263--14474 Score: 259
Period size: 48 Copynumber: 4.5 Consensus size: 47
14253 AAGTCCGATA
* * *
14263 TCGCTGGCATTGAATCAGCATATTG-GCACCTTT-ATTAGCTCAATG
1 TCGCTGGCCTTGAATCAGCACATTGTCCACCTTTCATTAGCTCAATG
*
14308 TCGCTAGCCTTGAATCAGCACATTGTCCACCTTT-ATTAGCTCAATG
1 TCGCTGGCCTTGAATCAGCACATTGTCCACCTTTCATTAGCTCAATG
* *
14354 TCGCTGGCCTTGAATCAGCACATTGTCCACTTTTCCCTTAGCTCAATG
1 TCGCTGGCCTTGAATCAGCACATTGTCCACCTTT-CATTAGCTCAATG
* * * * *
14402 TCGCTGGCCTTGAATCATCACATTGTCAACTTTTCCCTTAGCTCGATG
1 TCGCTGGCCTTGAATCAGCACATTGTCCACCTTT-CATTAGCTCAATG
* **
14450 TCGTTGGCCTTGAATTGGCACATTG
1 TCGCTGGCCTTGAATCAGCACATTG
14475 GCACTCTTCT
Statistics
Matches: 150, Mismatches: 14, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
45 22 0.15
46 51 0.34
48 77 0.51
ACGTcount: A:0.21, C:0.27, G:0.18, T:0.34
Consensus pattern (47 bp):
TCGCTGGCCTTGAATCAGCACATTGTCCACCTTTCATTAGCTCAATG
Found at i:14355 original size:21 final size:22
Alignment explanation
Indices: 14288--14357 Score: 70
Period size: 21 Copynumber: 3.1 Consensus size: 22
14278 CAGCATATTG
14288 GCACCTTTATTAGCTCAATGTC
1 GCACCTTTATTAGCTCAATGTC
* * * *
14310 GCTAGCCTTGAATCAGCACATTGTC
1 GC-A-CCTT-TATTAGCTCAATGTC
14335 -CACCTTTATTAGCTCAATGTC
1 GCACCTTTATTAGCTCAATGTC
14356 GC
1 GC
14358 TGGCCTTGAA
Statistics
Matches: 36, Mismatches: 8, Indels: 8
0.69 0.15 0.15
Matches are distributed among these distances:
21 11 0.31
22 7 0.19
23 2 0.06
24 5 0.14
25 11 0.31
ACGTcount: A:0.23, C:0.29, G:0.16, T:0.33
Consensus pattern (22 bp):
GCACCTTTATTAGCTCAATGTC
Found at i:14424 original size:94 final size:92
Alignment explanation
Indices: 14263--14474 Score: 255
Period size: 94 Copynumber: 2.3 Consensus size: 92
14253 AAGTCCGATA
* * *
14263 TCGCTGGCATTGAATCAGCATATTGGCACCTTTATTAGCTCAATGTCGCTAGCCTTGAATCAGCA
1 TCGCTGGCCTTGAATCAGCACATTGCCACCTTTATTAGCTCAATGTCGCTAGCCTTGAATCAGCA
*
14328 CATTGTCCACCTTT-ATTAGCTCAATG
66 CATTGTCAACCTTTCATTAGCTCAATG
* * *
14354 TCGCTGGCCTTGAATCAGCACATTGTCCACTTTTCCCTTAGCTCAATGTCGCTGGCCTTGAATCA
1 TCGCTGGCCTTGAATCAGCACATTG-CCACCTTT--ATTAGCTCAATGTCGCTAGCCTTGAATCA
* * * *
14419 TCACATTGTCAACTTTTCCCTTAGCTCGATG
63 GCACATTGTCAACCTTT-CATTAGCTCAATG
* **
14450 TCGTTGGCCTTGAATTGGCACATTG
1 TCGCTGGCCTTGAATCAGCACATTG
14475 GCACTCTTCT
Statistics
Matches: 102, Mismatches: 14, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
91 23 0.23
92 6 0.06
94 41 0.40
96 32 0.31
ACGTcount: A:0.21, C:0.27, G:0.18, T:0.34
Consensus pattern (92 bp):
TCGCTGGCCTTGAATCAGCACATTGCCACCTTTATTAGCTCAATGTCGCTAGCCTTGAATCAGCA
CATTGTCAACCTTTCATTAGCTCAATG
Found at i:15198 original size:20 final size:19
Alignment explanation
Indices: 15173--15337 Score: 105
Period size: 20 Copynumber: 8.8 Consensus size: 19
15163 TTTTACCCAG
15173 ATGTATCGATACAGTTTTCA
1 ATGTATCGATACA-TTTTCA
* *
15193 ATGTATCGATAC-TGTATGA
1 ATGTATCGATACAT-TTTCA
*
15212 ATTTATCGATACATTCTTCA
1 ATGTATCGATACATT-TTCA
15232 ATGTATCGATACATTTT--
1 ATGTATCGATACATTTTCA
*** *
15249 AT-T-TTTTTAC----CCA
1 ATGTATCGATACATTTTCA
15262 GATGTATCGATACATTTTTCA
1 -ATGTATCGATACA-TTTTCA
* * *
15283 ATGTATCAATACATGTATGA
1 ATGTATCGATACAT-TTTCA
15303 ATGTATCGATACATTATTCA
1 ATGTATCGATACATT-TTCA
*
15323 ATGTATCGTTACATT
1 ATGTATCGATACATT
15338 CTATCTTTTT
Statistics
Matches: 109, Mismatches: 21, Indels: 30
0.68 0.13 0.19
Matches are distributed among these distances:
14 2 0.02
15 5 0.05
16 5 0.05
17 2 0.02
18 1 0.01
19 19 0.17
20 73 0.67
21 2 0.02
ACGTcount: A:0.31, C:0.15, G:0.12, T:0.42
Consensus pattern (19 bp):
ATGTATCGATACATTTTCA
Found at i:15336 original size:91 final size:92
Alignment explanation
Indices: 15162--15386 Score: 359
Period size: 90 Copynumber: 2.5 Consensus size: 92
15152 AAAAGTCACA
* *
15162 TTTTTACCCAGATGTATCGATACAGTTTTCAATGTATCGATAC-TGTATGAATTTATCGATACAT
1 TTTTTACCCAGATGTATCGATACATTTTTCAATGTATCGATACATGTATGAATGTATCGATACAT
* *
15226 TCTTCAATGTATCGATACATTTTAT-T
66 TATTCAATGTATCGATACATTCTATCT
*
15252 TTTTTACCCAGATGTATCGATACATTTTTCAATGTATCAATACATGTATGAATGTATCGATACAT
1 TTTTTACCCAGATGTATCGATACATTTTTCAATGTATCGATACATGTATGAATGTATCGATACAT
*
15317 TATTCAATGTATCGTTACATTCTATCT
66 TATTCAATGTATCGATACATTCTATCT
*
15344 TTTTT--CCAAATGTATCGATACATTTTTCAATGTATCGATACAT
1 TTTTTACCCAGATGTATCGATACATTTTTCAATGTATCGATACAT
15387 CTAGTTAAAT
Statistics
Matches: 125, Mismatches: 8, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
90 77 0.62
91 42 0.34
92 6 0.05
ACGTcount: A:0.30, C:0.16, G:0.11, T:0.43
Consensus pattern (92 bp):
TTTTTACCCAGATGTATCGATACATTTTTCAATGTATCGATACATGTATGAATGTATCGATACAT
TATTCAATGTATCGATACATTCTATCT
Found at i:19041 original size:23 final size:23
Alignment explanation
Indices: 19015--19071 Score: 71
Period size: 22 Copynumber: 2.5 Consensus size: 23
19005 TTATAATAAC
*
19015 TTAAACTCGATTTAATCCGAATA
1 TTAAACTCGATTTAATCCAAATA
* * *
19038 TTAAACTC-AATTAATTCAAATG
1 TTAAACTCGATTTAATCCAAATA
19060 TTAAACTCGATT
1 TTAAACTCGATT
19072 GCTCTGTTAC
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
22 18 0.64
23 10 0.36
ACGTcount: A:0.40, C:0.16, G:0.07, T:0.37
Consensus pattern (23 bp):
TTAAACTCGATTTAATCCAAATA
Found at i:20506 original size:41 final size:41
Alignment explanation
Indices: 20442--20523 Score: 105
Period size: 41 Copynumber: 2.0 Consensus size: 41
20432 TCAAAGACAT
* *
20442 GGAAATCAATTGGAGTAACTTTACA-AGTGATGGTATTTGAA
1 GGAAATCAATTGAAGTAACTTTACATA-TGATAGTATTTGAA
*
20483 GGAAATCAATT-AACGTAAGTTTACATATGATAGTATTTGAA
1 GGAAATCAATTGAA-GTAACTTTACATATGATAGTATTTGAA
20524 TATCATTGAT
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
40 1 0.03
41 34 0.94
42 1 0.03
ACGTcount: A:0.39, C:0.07, G:0.21, T:0.33
Consensus pattern (41 bp):
GGAAATCAATTGAAGTAACTTTACATATGATAGTATTTGAA
Done.