Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D01
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: 64473564
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1880000 characters in sequence are not A, C, G, or T
File 164 of 213
Found at i:49198205 original size:25 final size:25
Alignment explanation
Indices: 49198134--49198206 Score: 92
Period size: 26 Copynumber: 2.8 Consensus size: 25
49198124 TATTTTCTTG
* *
49198134 AAATTTTACAAGGGGTAAAATCATCA
1 AAATTTTACTA-GGGTAAAATTATCA
* *
49198160 AAATTTTATTAAGGGTAAAATTGTCA
1 AAATTTTACT-AGGGTAAAATTATCA
49198186 AAATTTTACTAGGGTAAAATT
1 AAATTTTACTAGGGTAAAATT
49198207 TGGGTGAGAA
Statistics
Matches: 41, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
25 11 0.27
26 29 0.71
27 1 0.02
ACGTcount: A:0.44, C:0.07, G:0.15, T:0.34
Consensus pattern (25 bp):
AAATTTTACTAGGGTAAAATTATCA
Found at i:49211401 original size:11 final size:10
Alignment explanation
Indices: 49211383--49211445 Score: 54
Period size: 11 Copynumber: 5.8 Consensus size: 10
49211373 ACAAGCCGAA
49211383 ACACCACCAT
1 ACACCACCAT
49211393 ACAACCACCAT
1 AC-ACCACCAT
49211404 ATCACCACCAT
1 A-CACCACCAT
**
49211415 ACGACCAGTAT
1 AC-ACCACCAT
*
49211426 AACACCACCACA
1 -ACACCACCA-T
49211438 ACACCACC
1 ACACCACC
49211446 GTACCACCAT
Statistics
Matches: 43, Mismatches: 5, Indels: 9
0.75 0.09 0.16
Matches are distributed among these distances:
10 3 0.07
11 37 0.86
12 3 0.07
ACGTcount: A:0.41, C:0.46, G:0.03, T:0.10
Consensus pattern (10 bp):
ACACCACCAT
Found at i:49211410 original size:22 final size:22
Alignment explanation
Indices: 49211382--49211435 Score: 72
Period size: 22 Copynumber: 2.5 Consensus size: 22
49211372 TACAAGCCGA
49211382 AACACCACCATACAACCACCAT
1 AACACCACCATACAACCACCAT
* * **
49211404 ATCACCACCATACGACCAGTAT
1 AACACCACCATACAACCACCAT
49211426 AACACCACCA
1 AACACCACCA
49211436 CAACACCACC
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.43, C:0.43, G:0.04, T:0.11
Consensus pattern (22 bp):
AACACCACCATACAACCACCAT
Found at i:49216486 original size:37 final size:37
Alignment explanation
Indices: 49216431--49216565 Score: 193
Period size: 37 Copynumber: 3.7 Consensus size: 37
49216421 AGTACACAAG
* *
49216431 TAATCCAACCGA-AACACGCC-AGTCGCTCATAAGAGC
1 TAATCCACCCGATAACACGCCAAAT-GCTCATAAGAGC
*
49216467 TAATCCACCCGGTAACACGCCAAATGCTCATAAGAGC
1 TAATCCACCCGATAACACGCCAAATGCTCATAAGAGC
*
49216504 TAATCCACCCGATAACACGCCAAATGCTTATAAGAGC
1 TAATCCACCCGATAACACGCCAAATGCTCATAAGAGC
* *
49216541 TAATCCACCCGATAGCACACCAAAT
1 TAATCCACCCGATAACACGCCAAAT
49216566 TAGGATAGTA
Statistics
Matches: 90, Mismatches: 7, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
36 10 0.11
37 78 0.87
38 2 0.02
ACGTcount: A:0.37, C:0.33, G:0.14, T:0.16
Consensus pattern (37 bp):
TAATCCACCCGATAACACGCCAAATGCTCATAAGAGC
Found at i:49223812 original size:9 final size:9
Alignment explanation
Indices: 49223782--49223819 Score: 58
Period size: 9 Copynumber: 4.2 Consensus size: 9
49223772 TTGAGTTTTC
49223782 TAATTCGAA
1 TAATTCGAA
*
49223791 TAACTCGAA
1 TAATTCGAA
49223800 TAATTCGAA
1 TAATTCGAA
*
49223809 TAATCCGAA
1 TAATTCGAA
49223818 TA
1 TA
49223820 TCAAACTATA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.45, C:0.16, G:0.11, T:0.29
Consensus pattern (9 bp):
TAATTCGAA
Found at i:49224089 original size:30 final size:30
Alignment explanation
Indices: 49224032--49224089 Score: 71
Period size: 30 Copynumber: 1.9 Consensus size: 30
49224022 AAACCTTTTA
* *
49224032 TTTTCCCCCAAAATTTTTACTCCCTTCCAC
1 TTTTCCCCCAAAACTTTTACTACCTTCCAC
* * *
49224062 TTTTCCCCTAAAACTTTTATTATCTTCC
1 TTTTCCCCCAAAACTTTTACTACCTTCC
49224090 CATCCCACCT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
30 23 1.00
ACGTcount: A:0.21, C:0.34, G:0.00, T:0.45
Consensus pattern (30 bp):
TTTTCCCCCAAAACTTTTACTACCTTCCAC
Found at i:49238926 original size:30 final size:29
Alignment explanation
Indices: 49238869--49238929 Score: 77
Period size: 30 Copynumber: 2.1 Consensus size: 29
49238859 ATTTTTGCCC
*
49238869 TTATTGTTGTTTGTCTATTAATCTGTTTA
1 TTATTGTTATTTGTCTATTAATCTGTTTA
* * *
49238898 TTATTGTTTATTTGTGTATTTATTTGTTTA
1 TTATTG-TTATTTGTCTATTAATCTGTTTA
49238928 TT
1 TT
49238930 CTCTTGTTCT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
29 6 0.22
30 21 0.78
ACGTcount: A:0.16, C:0.03, G:0.13, T:0.67
Consensus pattern (29 bp):
TTATTGTTATTTGTCTATTAATCTGTTTA
Found at i:49243804 original size:22 final size:22
Alignment explanation
Indices: 49243761--49243805 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
49243751 AAAAAATTCA
* *
49243761 AAAAAAAAGAAAAAGGAGAAGG
1 AAAAAAAAGAAAAAGAAAAAGG
*
49243783 AAAAAAAAGTAAAAGAAAAAGG
1 AAAAAAAAGAAAAAGAAAAAGG
49243805 A
1 A
49243806 GAGGCCAAAG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.76, C:0.00, G:0.22, T:0.02
Consensus pattern (22 bp):
AAAAAAAAGAAAAAGAAAAAGG
Found at i:49244717 original size:7 final size:7
Alignment explanation
Indices: 49244707--49244739 Score: 57
Period size: 7 Copynumber: 4.7 Consensus size: 7
49244697 AAATCCTAAA
49244707 AAAAAAG
1 AAAAAAG
49244714 AAAAAAG
1 AAAAAAG
*
49244721 AAAAAGG
1 AAAAAAG
49244728 AAAAAAG
1 AAAAAAG
49244735 AAAAA
1 AAAAA
49244740 GAAGAGGCCA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (7 bp):
AAAAAAG
Found at i:49244730 original size:14 final size:14
Alignment explanation
Indices: 49244704--49244740 Score: 60
Period size: 14 Copynumber: 2.8 Consensus size: 14
49244694 TTTAAATCCT
49244704 AAAA-AAAAA-GAA
1 AAAAGAAAAAGGAA
49244716 AAAAGAAAAAGGAA
1 AAAAGAAAAAGGAA
49244730 AAAAGAAAAAG
1 AAAAGAAAAAG
49244741 AAGAGGCCAA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
12 4 0.17
13 5 0.22
14 14 0.61
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (14 bp):
AAAAGAAAAAGGAA
Found at i:49245989 original size:44 final size:44
Alignment explanation
Indices: 49245926--49247539 Score: 423
Period size: 44 Copynumber: 35.8 Consensus size: 44
49245916 AGATGGCGAA
*
49245926 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCAATAAT
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAG-CAATAAG
* * ** *
49245971 TC-TATCTCCTTGAAGTTGCAGTGGAGCGGATTAAAGTTACAAG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCAATAAG
* * * *
49246014 TCTTATATCCCTGAAGTTGCAGTGGAGCAGACTGAAGAAATCAAG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCAAT-AAG
* * * * * *
49246059 TCTTAATC-CCCTAAAGTTGTAGT-GAGGTAGACTGAAGAG-GATAAA
1 TCTT-ATCTCCCTGAAGTTGCAGTGGA-GCAGA-TTAA-AGCAATAAG
*
49246104 TCTTATCTCCCTGAAGTTGTAGTGGAGCAGATTAAAGCCAATAA-
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAG-CAATAAG
* * ** * ** *
49246148 TCTTATCTCCCTGAAGTTACAGTAGAGTGGATTGAAGTTACAAG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCAATAAG
* * * *
49246192 TCTTATCTCCCTAAAGTTGTAGTGGAGCAGACTGAAG--ATAGCGAG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCAATA---AG
* * * *
49246237 TCTTATGC-CCCTAAAGTTGCAGTGGGGCAAACTAAAG--ATGGCGAA-
1 TCTTAT-CTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCAAT----AAG
** *
49246282 TCTTATCTCCCTGAAGTTGCAGTGGATTAGATTAAAGCCAACAA-
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAG-CAATAAG
* * * * *
49246326 TCCTATCTCCCTGAAGTTGCAATGGAGCAGACTGAAG--ATAGCGAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCAATA---AG
* * * ** * * *
49246371 TCTTATTTCCCTAAAGTTGCAATGGAATAGGTTGAGGCTATAAATAATAG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGC----AAT-A-AG
* * ** * * *
49246421 ATCTCATCTCTCTGAAGTTTTAGTAGAGCAGA-TAATGGAA-AA-
1 -TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCAATAAG
* * **
49246463 TCTTATCTCCCTGAAGTTACAGTGGAGCAGATTGAAGTTATAAG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCAATAAG
* * * *
49246507 TCTTATCTCCCTAAAGTTGTAGTGGAGCAGACTGAAG--ATAGAG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCAATA-AG
* * * * *
49246550 AATCTCATTTCCCTGAAGTTGCAGTGGAACAAATTGAAGCTATAAATCACAG
1 --TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGC----AAT-A-AG
* * * * * *
49246602 ATCTTATCTCTCTAAAGTTGTAGTAGAGTAGATTAAAGCCAACAA-
1 -TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAG-CAATAAG
* * ** *
49246647 TCCTATCTCCCTGAAGTTGTAGTGGAGTGGACTAAAG---TCAAG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCAAT-AAG
* * * * * * * *
49246689 TCTTATCCCCCCGAAGTTGTAGTGGGGCAGACTGAAG-ATAGCAAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCA-A-TAAG
* * * *
49246734 TCTTATTTCCCTGAAGTTGTAGTGGAACAGATTAAAGCTATAAATTGCAAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGC----AA-T--AAG
* * ** * * *
49246785 TCTTATCTCTCTGAAGTTGCAGTAGATAAGATCATATC-A-AA-
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCAATAAG
* * * * **
49246826 CCTTATCTCCCTGAAGTTGCAGTGGAGTACG-TTGAAGGTACCAA-
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCA-GATT-AAAGCAATAAG
* * * *
49246870 TCTTATCTCTCTGAAGTTGCAGTAGAGCAGATTAAAACGAA-AAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGC-AATAAG
* ** * * * * *
49246914 TCCTATAC-CTTTGAATTTGTAGTAGGTCGGATCAAATTCACCAAAGC--CAAG
1 TCTTAT-CTCCCTGAA---GTTGCA-GT-GGAGCAGATT----AAAGCAATAAG
* * * * *
49246965 TCTTGTCTCCCTGAAGTTGCAGTGGAACAGGTTGAAG-ATATCAAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCA-AT-AAG
* * * * *
49247010 CCTTATCTTCCTGAAGCTGCAGTGGAGCAGATTGAAGCTACTAA-
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGC-AATAAG
* * *
49247054 TCTTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACGATGAA-
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCAAT-AAG
* * * *
49247098 TCCTATAC-CTCTGAAGTTGCAGTAGG-TCAGATTAAATCTACCATTACAAG
1 TCTTAT-CTCCCTGAAGTTGCAGT-GGAGCAGATTAAAGC-A--A-T--AAG
* * * *
49247148 TCTTATCTCCCTAAAGTTGCAGTGGAGCAGACTGAAG-ATATCAAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCA-AT-AAG
* * * * *
49247193 CCTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAG-ATACAAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCA-ATAAG
* * * *
49247237 TCTTAT-TCCCTTAAAGTTGCAGTGGGGCAGATTGAAA-CTACAAG
1 TCTTATCTCCC-TGAAGTTGCAGTGGAGCAGATT-AAAGCAATAAG
* * * * * *
49247281 TCTTGTCTACCAGAAGTTGTAGTGGAGTAGACTGAAGATGGC-A-AA-
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGA-TTAA-A--GCAATAAG
* * * * * * *
49247326 TCTCATTTCCTTAAAGTTGTAGTGGAGCAGATTGAAGCTATAAATTATATA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGC----AA-TA-A-G
* * * * * ** *
49247377 TCTTATCTCTCTAAAGTTACAGTAGAGTAGAGCATAGC-AT-A-
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCAATAAG
* * * * * * * *
49247418 CCCTACCTCCTTGAAGTTGCAGTGGAGCAAATTAAAGCCACAAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCAATAAG
* * * * * * *
49247462 CCTTATCTCCTTGAAG-TGCAGTGAAGTAGGTTGAAG--TTAAG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCAATAAG
*
49247503 TTTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAG
49247540 ATAGCGAGTC
Statistics
Matches: 1152, Mismatches: 296, Indels: 245
0.68 0.17 0.14
Matches are distributed among these distances:
41 97 0.08
42 63 0.05
43 43 0.04
44 403 0.35
45 318 0.28
46 26 0.02
47 13 0.01
48 13 0.01
49 15 0.01
50 31 0.03
51 121 0.11
52 5 0.00
53 4 0.00
ACGTcount: A:0.32, C:0.18, G:0.22, T:0.29
Consensus pattern (44 bp):
TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCAATAAG
Found at i:49246076 original size:45 final size:43
Alignment explanation
Indices: 49245924--49247362 Score: 520
Period size: 44 Copynumber: 31.9 Consensus size: 43
49245914 GGAGATGGCG
* * *
49245924 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCA-AT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAG--ATAC
* * * * *
49245968 AAT-TCTATCTCCTTGAAGTTGCAGTGGAGCGGATTAAAGTTAC
1 AATCT-TATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAC
* *
49246011 AAGTCTTATATCCCTGAAGTTGCAGTGGAGCAGACTGAAGAAATC
1 AA-TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATA-C
* * *
49246056 AAGTCTTAATC-CCCTAAAGTTGTAGT-GAGGTAGACTGAAGAGGATA-
1 AA-TCTT-ATCTCCCTGAAGTTGCAGTGGA-GCAGACTG-A-A-GATAC
* * * *
49246102 AATCTTATCTCCCTGAAGTTGTAGTGGAGCAGATTAAAGCCA-AT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAG--ATAC
* * ** * *
49246146 AATCTTATCTCCCTGAAGTTACAGTAGAGTGGATTGAAGTTAC
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAC
* *
49246189 AAGTCTTATCTCCCTAAAGTTGTAGTGGAGCAGACTGAAGATAGC
1 AA-TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATA-C
* * * * * *
49246234 GAGTCTTATGC-CCCTAAAGTTGCAGTGGGGCAAACTAAAGATGGC
1 -AATCTTAT-CTCCCTGAAGTTGCAGTGGAGCAGACTGAAGAT-AC
** * *
49246279 GAATCTTATCTCCCTGAAGTTGCAGTGGATTAGATTAAAGCCA-AC
1 -AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAG--ATAC
* *
49246324 AATCCTATCTCCCTGAAGTTGCAATGGAGCAGACTGAAGATAGC
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATA-C
* * * * * * *
49246368 GAATCTTATTTCCCTAAAGTTGCAATGGAATAGGTTGAGGCT-ATAAATAAT
1 -AATCTTATCTCCCTGAAGTTGCAGTGG---A-G--CAGACTGA-AGAT-AC
* * ** *
49246419 AGATCTCATCTCTCTGAAGTTTTAGTAGAGCAGA-T-AATGGA-A-
1 A-ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAA--GATAC
* * * *
49246461 AATCTTATCTCCCTGAAGTTACAGTGGAGCAGATTGAAGTTAT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAC
* * *
49246504 AAGTCTTATCTCCCTAAAGTTGTAGTGGAGCAGACTGAAGATAGAG
1 AA-TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGAT--AC
* * * * *
49246550 AATCTCATTTCCCTGAAGTTGCAGTGGAACAAATTGAAGCTATAAATCAC
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAG------AT-AC
* * * * * * *
49246600 AGATCTTATCTCTCTAAAGTTGTAGTAGAGTAGATTAAAGCCA-AC
1 A-ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAG--ATAC
* * ** *
49246645 AATCCTATCTCCCTGAAGTTGTAGTGGAGTGGACTAAAG-T-C
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAC
* * * *
49246686 AAGTCTTATCCCCCCGAAGTTGTAGTGGGGCAGACTGAAGATAGC
1 AA-TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATA-C
* * * * *
49246731 AAATCTTATTTCCCTGAAGTTGTAGTGGAACAGATTAAAGCTATAAATTGC
1 -AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAG--AT--A---C
* * ** * *
49246782 AAATCTTATCTCTCTGAAGTTGCAGTAGATAAGA-T-CATAT-C
1 -AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAC
* * * *
49246823 AAACCTTATCTCCCTGAAGTTGCAGTGGAGTACG-TTGAAGGTACC
1 -AATCTTATCTCCCTGAAGTTGCAGTGGAGCA-GACTGAAGATA-C
* * * * *
49246868 AATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATTAAAACGA-AA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACT-GAA-GATAC
* ** * * * * * * * **
49246912 AATCCTATAC-CTTTGAATTTGTAGTAGGTCGGATCAAATTCACCAAAGCC
1 AATCTTAT-CTCCCTGAA---GTTGCA-GT-GGAGCAGACTGA--AGATAC
* * **
49246962 AAGTCTTGTCTCCCTGAAGTTGCAGTGGAACAGGTTGAAGATATC
1 AA-TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATA-C
* * * * *
49247007 AAACCTTATCTTCCTGAAGCTGCAGTGGAGCAGATTGAAGCTAC
1 -AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAC
* * * *
49247051 TAATCTTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACGAT-G
1 -AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACT-GAA-GATAC
* * * * **
49247096 AATCCTATAC-CTCTGAAGTTGCAGTAGGTCAGATTAAATCT-ACCATTAC
1 AATCTTAT-CTCCCTGAAGTTGCAGT-GG--AG--CAGA-CTGAAGA-TAC
*
49247145 AAGTCTTATCTCCCTAAAGTTGCAGTGGAGCAGACTGAAGATATC
1 AA-TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATA-C
* **
49247190 AAACCTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAGATAC
1 -AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAC
* * *
49247234 AAATCTTAT-TCCCTTAAAGTTGCAGTGGGGCAGATTGAA-ACTAC
1 -AATCTTATCTCCC-TGAAGTTGCAGTGGAGCAGACTGAAGA-TAC
* * * * * *
49247278 AAGTCTTGTCTACCAGAAGTTGTAGTGGAGTAGACTGAAGATGGC
1 AA-TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGAT-AC
* * * * * *
49247323 AAATCTCATTTCCTTAAAGTTGTAGTGGAGCAGATTGAAG
1 -AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAG
49247363 CTATAAATTA
Statistics
Matches: 1056, Mismatches: 231, Indels: 215
0.70 0.15 0.14
Matches are distributed among these distances:
41 59 0.06
42 37 0.04
43 27 0.03
44 401 0.38
45 328 0.31
46 31 0.03
47 19 0.02
48 14 0.01
49 17 0.02
50 28 0.03
51 94 0.09
52 1 0.00
ACGTcount: A:0.32, C:0.18, G:0.22, T:0.28
Consensus pattern (43 bp):
AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAC
Found at i:49246137 original size:134 final size:133
Alignment explanation
Indices: 49245926--49246229 Score: 337
Period size: 134 Copynumber: 2.3 Consensus size: 133
49245916 AGATGGCGAA
* * * * *** * *
49245926 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCAATAATTC-TATCTCCTTGAAGTTGC
1 TCTTATCTCCCTAAAGTTGTAGTGGAGCAGACTGAAGAGGATAAATCTTATCTCCCTGAAGTTGC
* ** * * *
49245990 AGTGGAGCGGATTAAAGTTACA-AGTCTTATATCCCTGAAGTTGCAGTGGAGCAGACTGAAGAAA
66 AGTGGAGCAGATTAAAGCCA-ATAATCTTATATCCCTGAAGTTACAGTAGAGCAGACTGAAGAAA
49246054 TCAAG
130 -CAAG
*
49246059 TCTTAATC-CCCTAAAGTTGTAGT-GAGGTAGACTGAAGAGGATAAATCTTATCTCCCTGAAGTT
1 TCTT-ATCTCCCTAAAGTTGTAGTGGA-GCAGACTGAAGAGGATAAATCTTATCTCCCTGAAGTT
* * ** * **
49246122 GTAGTGGAGCAGATTAAAGCCAATAATCTTATCTCCCTGAAGTTACAGTAGAGTGGATTGAAGTT
64 GCAGTGGAGCAGATTAAAGCCAATAATCTTATATCCCTGAAGTTACAGTAGAGCAGACTGAAGAA
49246187 ACAAG
129 ACAAG
49246192 TCTTATCTCCCTAAAGTTGTAGTGGAGCAGACTGAAGA
1 TCTTATCTCCCTAAAGTTGTAGTGGAGCAGACTGAAGA
49246230 TAGCGAGTCT
Statistics
Matches: 141, Mismatches: 24, Indels: 12
0.80 0.14 0.07
Matches are distributed among these distances:
132 5 0.04
133 66 0.47
134 70 0.50
ACGTcount: A:0.31, C:0.17, G:0.23, T:0.29
Consensus pattern (133 bp):
TCTTATCTCCCTAAAGTTGTAGTGGAGCAGACTGAAGAGGATAAATCTTATCTCCCTGAAGTTGC
AGTGGAGCAGATTAAAGCCAATAATCTTATATCCCTGAAGTTACAGTAGAGCAGACTGAAGAAAC
AAG
Found at i:49246352 original size:134 final size:134
Alignment explanation
Indices: 49246146--49246391 Score: 350
Period size: 134 Copynumber: 1.8 Consensus size: 134
49246136 TAAAGCCAAT
* * ** *
49246146 AATCTTATCTCCCTGAAGTTACAGTAGAGTGGATTGAAGTTACAAGTCTTATCTCCCTAAAGTTG
1 AATCTTATCTCCCTGAAGTTACAGTAGAGTAGATTAAAGCAACAAGTCCTATCTCCCTAAAGTTG
* * *
49246211 TAGTGGAGCAGACTGAAGATAGCGAGTCTTATGCCCCTAAAGTTGCAGTGGGGCAAACTAAAGAT
66 CAATGGAGCAGACTGAAGATAGCGAATCTTATGCCCCTAAAGTTGCAGTGGGGCAAACTAAAGAT
49246276 GGCG
131 GGCG
* * * *
49246280 AATCTTATCTCCCTGAAGTTGCAGTGGATTAGATTAAAGCCAACAA-TCCTATCTCCCTGAAGTT
1 AATCTTATCTCCCTGAAGTTACAGTAGAGTAGATTAAAG-CAACAAGTCCTATCTCCCTAAAGTT
**
49246344 GCAATGGAGCAGACTGAAGATAGCGAATCTTATTTCCCTAAAGTTGCA
65 GCAATGGAGCAGACTGAAGATAGCGAATCTTATGCCCCTAAAGTTGCA
49246392 ATGGAATAGG
Statistics
Matches: 97, Mismatches: 14, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
134 93 0.96
135 4 0.04
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.28
Consensus pattern (134 bp):
AATCTTATCTCCCTGAAGTTACAGTAGAGTAGATTAAAGCAACAAGTCCTATCTCCCTAAAGTTG
CAATGGAGCAGACTGAAGATAGCGAATCTTATGCCCCTAAAGTTGCAGTGGGGCAAACTAAAGAT
GGCG
Found at i:49246516 original size:181 final size:180
Alignment explanation
Indices: 49245924--49246900 Score: 682
Period size: 178 Copynumber: 5.4 Consensus size: 180
49245914 GGAGATGGCG
* * * * *
49245924 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCAATAATTC-TATCTCCTTGAAGTT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTAAAG--TACAAGTCTTATCTCCCTGAAGTT
* * * * * * *
49245988 GCAGTGGAGCGGATTAAAGTTA-C-AAGTCTTATATCCCTGAAGTTGCAGTGGAGCAGACTGAAG
64 GCAGTGGAGCAGACTGAAGATAGCGAA-TCTTATTTCCCTGAAGTTGCAGTGGAACAGATTGAAG
* * * * * *
49246051 ----AAATCA-AG-TCTTAATC-CCCTAAAGTTGTAGT-GAGGTAGACTGAAGAGGATA
128 CTATAAATAACAGATCTT-ATCTCTCTGAAGTTGTAGTAGA-GAAGA-T-AA-TGCA-A
* * * *
49246102 AATCTTATCTCCCTGAAGTTGTAGTGGAGCAGATTAAAG-CCAATAATCTTATCTCCCTGAAGTT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTAAAGTAC-A-AGTCTTATCTCCCTGAAGTT
* * ** * * * * * * *
49246166 ACAGTAGAGTGGATTGAAGTTA-C-AAGTCTTATCTCCCTAAAGTTGTAGTGGAGCAGACTGAAG
64 GCAGTGGAGCAGACTGAAGATAGCGAA-TCTTATTTCCCTGAAGTTGCAGTGGAACAGATTGAAG
* * * * * * *
49246229 ------ATAGC-GAGTCTTATGC-CCCTAAAGTTGCAGTGGGGCAA-ACTAAAGATGGC-G
128 CTATAAATAACAGA-TCTTAT-CTCTCTGAAGTTGTAGTAGAG-AAGA-T--A-AT-GCAA
* * *
49246280 AATCTTATCTCCCTGAAGTTGCAGTGGATTAGATTAAAGCCAACAA-TCCTATCTCCCTGAAGTT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTAAAG--TACAAGTCTTATCTCCCTGAAGTT
* * * * * *
49246344 GCAATGGAGCAGACTGAAGATAGCGAATCTTATTTCCCTAAAGTTGCAATGGAATAGGTTGAGGC
64 GCAGTGGAGCAGACTGAAGATAGCGAATCTTATTTCCCTGAAGTTGCAGTGGAACAGATTGAAGC
* * * * *
49246409 TATAAATAATAGATCTCATCTCTCTGAAGTTTTAGTAGAGCAGATAATGGAA
129 TATAAATAACAGATCTTATCTCTCTGAAGTTGTAGTAGAGAAGATAATGCAA
* * * * *
49246461 AATCTTATCTCCCTGAAGTTACAGTGGAGCAGATTGAAGTTATAAGTCTTATCTCCCTAAAGTTG
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTAAAG-TACAAGTCTTATCTCCCTGAAGTTG
* * * *
49246526 TAGTGGAGCAGACTGAAGATAGAGAATCTCATTTCCCTGAAGTTGCAGTGGAACAAATTGAAGCT
65 CAGTGGAGCAGACTGAAGATAGCGAATCTTATTTCCCTGAAGTTGCAGTGGAACAGATTGAAGCT
* * * *
49246591 ATAAATCACAGATCTTATCTCTCTAAAGTTGTAGTAGAGTAGATTAAAGCCAA
130 ATAAATAACAGATCTTATCTCTCTGAAGTTGTAGTAGAGAAGA-TAATG-CAA
* * * * * *
49246644 CAATCCTATCTCCCTGAAGTTGTAGTGGAGTGGACTAAAGT-CAAGTCTTATCCCCCCGAAGTTG
1 -AATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTAAAGTACAAGTCTTATCTCCCTGAAGTTG
* * * * *
49246708 TAGTGGGGCAGACTGAAGATAGCAAATCTTATTTCCCTGAAGTTGTAGTGGAACAGATTAAAGCT
65 CAGTGGAGCAGACTGAAGATAGCGAATCTTATTTCCCTGAAGTTGCAGTGGAACAGATTGAAGCT
** * * *
49246773 ATAAATTGCAAATCTTATCTCTCTGAAGTTGCAGTAGATAAGATCATAT-C-A
130 ATAAATAACAGATCTTATCTCTCTGAAGTTGTAGTAGAGAAGAT-A-ATGCAA
* * *
49246824 AACCTTATCTCCCTGAAGTTGCAGTGGAGTACG-TTGAAGGTACCAA-TCTTATCTCTCTGAAGT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGTA-GATT-AAAGTA-CAAGTCTTATCTCCCTGAAGT
*
49246887 TGCAGTAGAGCAGA
63 TGCAGTGGAGCAGA
49246901 TTAAAACGAA
Statistics
Matches: 644, Mismatches: 118, Indels: 71
0.77 0.14 0.09
Matches are distributed among these distances:
176 4 0.01
177 5 0.01
178 199 0.31
179 62 0.10
180 15 0.02
181 174 0.27
182 122 0.19
183 4 0.01
184 35 0.05
185 22 0.03
186 2 0.00
ACGTcount: A:0.32, C:0.18, G:0.22, T:0.29
Consensus pattern (180 bp):
AATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTAAAGTACAAGTCTTATCTCCCTGAAGTTGC
AGTGGAGCAGACTGAAGATAGCGAATCTTATTTCCCTGAAGTTGCAGTGGAACAGATTGAAGCTA
TAAATAACAGATCTTATCTCTCTGAAGTTGTAGTAGAGAAGATAATGCAA
Found at i:49247058 original size:184 final size:182
Alignment explanation
Indices: 49246818--49247274 Score: 596
Period size: 184 Copynumber: 2.5 Consensus size: 182
49246808 AGATAAGATC
* * * *
49246818 ATATCAAACCTTATCTCCCTGAAGTTGCAGTGGAGTACGTTGAAGGTACCAATCTTATCTCTCTG
1 ATATCAAACCTTATCTCCCTGAAGTTGCAGTGGAGCA-GTTGAAGATACAAATCTTATCTCCCTG
* * * * *
49246883 AAGTTGCAGTAGAGCAGATTAAAACGAAAAATCCTATACCTTTGAATTTGTAGTAGGTCGGATCA
65 AAGTTGCAGTGGAGCAGATTAAAACGAAAAATCCTATACCTCTGAAGTTGCAGTAGGTCAGATCA
* * **
49246948 AAT-TCACCA-AAGCCAAGTCTTGTCTCCCTGAAGTTGCAGTGGAACAGGTTGAAG
130 AATCT-ACCATAA--CAAGTCTTATCTCCCTAAAGTTGCAGTGGAACAGACTGAAG
* * * *
49247002 ATATCAAACCTTATCTTCCTGAAGCTGCAGTGGAGCAGATTGAAGCTACTAATCTTATCTCCCTG
1 ATATCAAACCTTATCTCCCTGAAGTTGCAGTGGAGCAG-TTGAAGATACAAATCTTATCTCCCTG
* ** *
49247067 AAGTTGCAGTGGAGCGGATTAAAACGATGAATCCTATACCTCTGAAGTTGCAGTAGGTCAGATTA
65 AAGTTGCAGTGGAGCAGATTAAAACGAAAAATCCTATACCTCTGAAGTTGCAGTAGGTCAGATCA
* *
49247132 AATCTACCATTACAAGTCTTATCTCCCTAAAGTTGCAGTGGAGCAGACTGAAG
130 AATCTACCATAACAAGTCTTATCTCCCTAAAGTTGCAGTGGAACAGACTGAAG
49247185 ATATCAAACCTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAGATACAAATCTTAT-TCCCTT
1 ATATCAAACCTTATCTCCCTGAAGTTGCAGTGGAGCA-GTTGAAGATACAAATCTTATCTCCC-T
* * *
49247249 AAAGTTGCAGTGGGGCAGATTGAAAC
64 GAAGTTGCAGTGGAGCAGATTAAAAC
49247275 TACAAGTCTT
Statistics
Matches: 239, Mismatches: 29, Indels: 11
0.86 0.10 0.04
Matches are distributed among these distances:
182 4 0.02
183 112 0.47
184 121 0.51
185 2 0.01
ACGTcount: A:0.31, C:0.20, G:0.21, T:0.28
Consensus pattern (182 bp):
ATATCAAACCTTATCTCCCTGAAGTTGCAGTGGAGCAGTTGAAGATACAAATCTTATCTCCCTGA
AGTTGCAGTGGAGCAGATTAAAACGAAAAATCCTATACCTCTGAAGTTGCAGTAGGTCAGATCAA
ATCTACCATAACAAGTCTTATCTCCCTAAAGTTGCAGTGGAACAGACTGAAG
Found at i:49247267 original size:89 final size:90
Alignment explanation
Indices: 49246965--49247366 Score: 329
Period size: 89 Copynumber: 4.5 Consensus size: 90
49246955 CAAAGCCAAG
* * * * * *
49246965 TCTTGTCTCCCTGAAGTTGCAGTGGAACAGGTTGAAGA-TATCAAACCTTATCTTCCTGAAGCTG
1 TCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAGACTATCAAACCTTATCTCCCTGAAGTTG
* *
49247029 CAGTGGAGCAGATTGAAGCTACTAA
66 CAGTGGAGCAGATTGAAGATACAAA
* * * * * * *
49247054 TCTTATCTCCCTGAAGTTGCAGTGGAGCGGATT-AAAACGATGAATCC-TATAC-CTCTGAAGTT
1 TCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAGACTATCAAACCTTAT-CTCCCTGAAGTT
* * * *
49247116 GCAGTAGG-TCAGATTAAATCTACCATTACAAG
65 GCAGT-GGAGCAGATT-GA---A-GA-TACAAA
*
49247148 TCTTATCTCCCTAAAGTTGCAGTGGAGCAGACTGAAGA-TATCAAACCTTATCTCCCTGAAGTTG
1 TCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAGACTATCAAACCTTATCTCCCTGAAGTTG
*
49247212 CAGTGGAGCAGGTTGAAGATACAAA
66 CAGTGGAGCAGATTGAAGATACAAA
* ** * * *
49247237 TCTTAT-TCCCTTAAAGTTGCAGTGGGGCAGATTGAA-ACTA-CAAGTCTTGTCTACCAGAAGTT
1 TCTTATCTCCC-TAAAGTTGCAGTGGAGCAGATTGAAGACTATCAAACCTTATCTCCCTGAAGTT
* * * *
49247299 GTAGTGGAGTAGACTGAAGATGGCAAA
65 GCAGTGGAGCAGATTGAAGAT-ACAAA
* * * *
49247326 TCTCATTTCCTTAAAGTTGTAGTGGAGCAGATTGAAG-CTAT
1 TCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAGACTAT
49247367 AAATTATATA
Statistics
Matches: 248, Mismatches: 46, Indels: 37
0.75 0.14 0.11
Matches are distributed among these distances:
88 63 0.25
89 110 0.44
90 4 0.02
91 1 0.00
92 1 0.00
94 44 0.18
95 25 0.10
ACGTcount: A:0.30, C:0.19, G:0.23, T:0.29
Consensus pattern (90 bp):
TCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAGACTATCAAACCTTATCTCCCTGAAGTTG
CAGTGGAGCAGATTGAAGATACAAA
Found at i:49247299 original size:183 final size:180
Alignment explanation
Indices: 49246818--49247274 Score: 553
Period size: 183 Copynumber: 2.5 Consensus size: 180
49246808 AGATAAGATC
* * * * *
49246818 ATATCAAACCTTATCTCCCTGAAGTTGCAGTGGAGTACGTTGAAGGTACCAATCTTA-TCTCTCT
1 ATATCAAACCTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAGATACAAATCTTATTCCCT-T
* * * *
49246882 GAAGTTGCAGTAGAGCAGATTAAAACGAAAAATCCTATACCTTTGAATTTGTAGTAGGTCGGATC
65 GAAGTTGCAGTGGAGCAGATTAAAACG-AAAATCCTATACC--TGAAGTTGCAGTAGGTCAGATC
* * **
49246947 AAATTCACCAAAGCCAAGTCTTGTCTCCCTGAAGTTGCAGTGGAACAGGTTGAAG
127 AAATTCACCAAA-CCAAGTCTTATCTCCCTAAAGTTGCAGTGGAACAGACTGAAG
* * * * *
49247002 ATATCAAACCTTATCTTCCTGAAGCTGCAGTGGAGCAGATTGAAGCTACTAATCTTATCTCCC-T
1 ATATCAAACCTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAGATACAAATCTTAT-TCCCTT
* * *
49247066 GAAGTTGCAGTGGAGCGGATTAAAACGATGAATCCTATACCTCTGAAGTTGCAGTAGGTCAGATT
65 GAAGTTGCAGTGGAGCAGATTAAAACGA-AAATCCTATA-C-CTGAAGTTGCAGTAGGTCAGATC
* *
49247131 AAA-TCTACCATTA-CAAGTCTTATCTCCCTAAAGTTGCAGTGGAGCAGACTGAAG
127 AAATTC-ACCA-AACCAAGTCTTATCTCCCTAAAGTTGCAGTGGAACAGACTGAAG
*
49247185 ATATCAAACCTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAGATACAAATCTTATTCCCTTA
1 ATATCAAACCTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAGATACAAATCTTATTCCCTTG
* *
49247250 AAGTTGCAGTGGGGCAGATTGAAAC
66 AAGTTGCAGTGGAGCAGATTAAAAC
49247275 TACAAGTCTT
Statistics
Matches: 235, Mismatches: 30, Indels: 17
0.83 0.11 0.06
Matches are distributed among these distances:
182 4 0.02
183 115 0.49
184 110 0.47
185 2 0.01
186 4 0.02
ACGTcount: A:0.31, C:0.20, G:0.21, T:0.28
Consensus pattern (180 bp):
ATATCAAACCTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAGATACAAATCTTATTCCCTTG
AAGTTGCAGTGGAGCAGATTAAAACGAAAATCCTATACCTGAAGTTGCAGTAGGTCAGATCAAAT
TCACCAAACCAAGTCTTATCTCCCTAAAGTTGCAGTGGAACAGACTGAAG
Found at i:49247556 original size:45 final size:44
Alignment explanation
Indices: 49247424--49247557 Score: 94
Period size: 42 Copynumber: 3.1 Consensus size: 44
49247414 CATACCCTAC
* * * ** *
49247424 CTCCTTGAAGTTGCAGTGGAGCAAATTAAAGCCACAAACCTTAT
1 CTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATACAAATCTTAT
* * * * * * *
49247468 CTCCTTGAAG-TGCAGTGAAGTAGGTTGAAG-T-TAAGTTTTAT
1 CTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATACAAATCTTAT
* * *
49247509 CTCCCTGAAGTTGCAGTGGAGCAGATTAAAGATAGCGAGTCTTAT
1 CTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATA-CAAATCTTAT
49247554 CTCC
1 CTCC
49247558 TCGGAGCTGT
Statistics
Matches: 68, Mismatches: 18, Indels: 7
0.73 0.19 0.08
Matches are distributed among these distances:
41 15 0.22
42 16 0.24
43 16 0.24
44 10 0.15
45 11 0.16
ACGTcount: A:0.29, C:0.19, G:0.23, T:0.29
Consensus pattern (44 bp):
CTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATACAAATCTTAT
Found at i:49248127 original size:14 final size:14
Alignment explanation
Indices: 49248108--49248134 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
49248098 TCAGAGGTAG
49248108 TTTCTTTCCTTTTC
1 TTTCTTTCCTTTTC
49248122 TTTCTTTCCTTTT
1 TTTCTTTCCTTTT
49248135 TTATTGTTTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (14 bp):
TTTCTTTCCTTTTC
Found at i:49248924 original size:12 final size:11
Alignment explanation
Indices: 49248894--49248936 Score: 50
Period size: 12 Copynumber: 3.6 Consensus size: 11
49248884 AAAAATGATT
49248894 TTTATTTAATA
1 TTTATTTAATA
49248905 TTTCATTTAATA
1 TTT-ATTTAATA
*
49248917 TCTTATTTATTTA
1 T-TTATTTA-ATA
49248930 TTTATTT
1 TTTATTT
49248937 TCAATTTTTA
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
11 3 0.11
12 20 0.71
13 5 0.18
ACGTcount: A:0.28, C:0.05, G:0.00, T:0.67
Consensus pattern (11 bp):
TTTATTTAATA
Found at i:49253639 original size:43 final size:43
Alignment explanation
Indices: 49253591--49253676 Score: 172
Period size: 43 Copynumber: 2.0 Consensus size: 43
49253581 ACTACGACAA
49253591 AGGATTAGGGATATACGATGTTGATTTGGACAATCGAGATTAC
1 AGGATTAGGGATATACGATGTTGATTTGGACAATCGAGATTAC
49253634 AGGATTAGGGATATACGATGTTGATTTGGACAATCGAGATTAC
1 AGGATTAGGGATATACGATGTTGATTTGGACAATCGAGATTAC
49253677 TAAGAATCTA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 43 1.00
ACGTcount: A:0.33, C:0.09, G:0.28, T:0.30
Consensus pattern (43 bp):
AGGATTAGGGATATACGATGTTGATTTGGACAATCGAGATTAC
Found at i:49257606 original size:21 final size:21
Alignment explanation
Indices: 49257573--49257612 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
49257563 AGGTGAGCAC
* *
49257573 TTTGTGATCTTTTTGTGAGTG
1 TTTGTGAGCTTTTTATGAGTG
*
49257594 TTTGTGAGGTTTTTATGAG
1 TTTGTGAGCTTTTTATGAG
49257613 CATCCTATGA
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:0.12, C:0.03, G:0.30, T:0.55
Consensus pattern (21 bp):
TTTGTGAGCTTTTTATGAGTG
Found at i:49258156 original size:54 final size:54
Alignment explanation
Indices: 49258089--49258222 Score: 164
Period size: 54 Copynumber: 2.5 Consensus size: 54
49258079 TGGCTATGGC
* ** * * * *
49258089 AAGAAGACCATATAGTGTAAGACCTAGTTTAGGACTATGGCATCGT-ATGGGGAA
1 AAGAAGACAATATAGTGTAAGACCTAGTCCAGGACTATGGAACCATAAT-AGGAA
*
49258143 AAGAAGACAATATAGTGTAAGACCTAGTCCGGGACTATGGAACCATAATAGGAA
1 AAGAAGACAATATAGTGTAAGACCTAGTCCAGGACTATGGAACCATAATAGGAA
*
49258197 AAGAAGACAATATAATG-AAGACCTAG
1 AAGAAGACAATATAGTGTAAGACCTAG
49258223 CGCGAGACTA
Statistics
Matches: 70, Mismatches: 9, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
53 9 0.13
54 59 0.84
55 2 0.03
ACGTcount: A:0.42, C:0.13, G:0.25, T:0.20
Consensus pattern (54 bp):
AAGAAGACAATATAGTGTAAGACCTAGTCCAGGACTATGGAACCATAATAGGAA
Found at i:49258241 original size:53 final size:54
Alignment explanation
Indices: 49258139--49258242 Score: 142
Period size: 53 Copynumber: 1.9 Consensus size: 54
49258129 CATCGTATGG
* * *
49258139 GGAAAAGAAGACAATATAGTGTAAGACCTAGTCCGGGACTATGGAACCATAATA
1 GGAAAAGAAGACAATATAATGTAAGACCTAGTCCGAGACTATCGAACCATAATA
49258193 GGAAAAGAAGACAATATAATG-AAGACCTAG-CGCGAGACTA-CGACACCATA
1 GGAAAAGAAGACAATATAATGTAAGACCTAGTC-CGAGACTATCGA-ACCATA
49258243 TCGGCATAGG
Statistics
Matches: 45, Mismatches: 3, Indels: 5
0.85 0.06 0.09
Matches are distributed among these distances:
52 3 0.07
53 22 0.49
54 20 0.44
ACGTcount: A:0.44, C:0.17, G:0.23, T:0.15
Consensus pattern (54 bp):
GGAAAAGAAGACAATATAATGTAAGACCTAGTCCGAGACTATCGAACCATAATA
Found at i:49258285 original size:53 final size:53
Alignment explanation
Indices: 49258089--49258285 Score: 161
Period size: 54 Copynumber: 3.7 Consensus size: 53
49258079 TGGCTATGGC
* * * * * * * *
49258089 AAGAAGACCATATAGTGTAAGACCTAGTTTAGGACTATGGCATCGTATGGGGAA
1 AAGAAGACAATATAGTGTAAGACCTAGTCTGGGACTACGACACCATAT-AGGAA
* *
49258143 AAGAAGACAATATAGTGTAAGACCTAGTCCGGGACTATGGA-ACCATAATAGGAA
1 AAGAAGACAATATAGTGTAAGACCTAGTCTGGGACTA-CGACACCAT-ATAGGAA
* * *
49258197 AAGAAGACAATATAATG-AAGACCTAG-C-GCGAGACTACGACACCATATCGGCAT
1 AAGAAGACAATATAGTGTAAGACCTAGTCTG-G-GACTACGACACCATATAGG-AA
* * *
49258250 AGGAAGACCATACAGTGTAAGACCTAG-CTGGGACTA
1 AAGAAGACAATATAGTGTAAGACCTAGTCTGGGACTA
49258286 TGGCGTCATG
Statistics
Matches: 118, Mismatches: 17, Indels: 17
0.78 0.11 0.11
Matches are distributed among these distances:
51 1 0.01
52 8 0.07
53 38 0.32
54 67 0.57
55 4 0.03
ACGTcount: A:0.39, C:0.17, G:0.25, T:0.19
Consensus pattern (53 bp):
AAGAAGACAATATAGTGTAAGACCTAGTCTGGGACTACGACACCATATAGGAA
Found at i:49258432 original size:61 final size:59
Alignment explanation
Indices: 49258337--49258477 Score: 212
Period size: 61 Copynumber: 2.4 Consensus size: 59
49258327 GTACCAGGCG
* * *
49258337 ATGTGGAAGCCTTTGTGGCTGTTCTCTGATATATGTTAGCCTTAGTG-GTAGAATATGTTAT
1 ATGTGGAAGCCTTTGTGGCTGTTCTCTAATATATGTGAGCCTTAGTGACT-GAATATG-T-T
*
49258398 ATGTGGAAGCATTTGTGGCTGTTCTCTAATATATGTGAGCCTTAGTGACTGAATATGTT
1 ATGTGGAAGCCTTTGTGGCTGTTCTCTAATATATGTGAGCCTTAGTGACTGAATATGTT
49258457 ATGTGGAAGCCTTTGTGGCTG
1 ATGTGGAAGCCTTTGTGGCTG
49258478 CTCTGTTATA
Statistics
Matches: 74, Mismatches: 5, Indels: 4
0.89 0.06 0.05
Matches are distributed among these distances:
59 21 0.28
60 1 0.01
61 51 0.69
62 1 0.01
ACGTcount: A:0.21, C:0.12, G:0.28, T:0.39
Consensus pattern (59 bp):
ATGTGGAAGCCTTTGTGGCTGTTCTCTAATATATGTGAGCCTTAGTGACTGAATATGTT
Found at i:49275510 original size:49 final size:50
Alignment explanation
Indices: 49275448--49275549 Score: 170
Period size: 49 Copynumber: 2.1 Consensus size: 50
49275438 GTGGAATGAC
49275448 TATGTGACTAAATGAGTTTATAATTAAAAGGCAAAAAGCTGGAAGTTAAT
1 TATGTGACTAAATGAGTTTATAATTAAAAGGCAAAAAGCTGGAAGTTAAT
* * *
49275498 TATG-GACTAAATGAGTTTATATTTAATAGGCGAAAAGCTGGAAGTTAAT
1 TATGTGACTAAATGAGTTTATAATTAAAAGGCAAAAAGCTGGAAGTTAAT
49275547 TAT
1 TAT
49275550 AAATCATTTG
Statistics
Matches: 49, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
49 45 0.92
50 4 0.08
ACGTcount: A:0.41, C:0.06, G:0.21, T:0.32
Consensus pattern (50 bp):
TATGTGACTAAATGAGTTTATAATTAAAAGGCAAAAAGCTGGAAGTTAAT
Found at i:49280217 original size:20 final size:18
Alignment explanation
Indices: 49280179--49280217 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
49280169 ACTTAACTCA
49280179 AGTATTAAACAAAAAATT
1 AGTATTAAACAAAAAATT
*
49280197 AGTATATAAATAAAAATATT
1 AGTAT-TAAACAAAAA-ATT
49280217 A
1 A
49280218 AAGATAATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 5 0.28
19 9 0.50
20 4 0.22
ACGTcount: A:0.62, C:0.03, G:0.05, T:0.31
Consensus pattern (18 bp):
AGTATTAAACAAAAAATT
Found at i:49285206 original size:19 final size:19
Alignment explanation
Indices: 49285182--49285220 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
49285172 GTGACCCCTA
49285182 TTTCCAAAATTTTCAATTT
1 TTTCCAAAATTTTCAATTT
*
49285201 TTTCCAAAATTTTCTATTT
1 TTTCCAAAATTTTCAATTT
49285220 T
1 T
49285221 GCTTCCATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.28, C:0.15, G:0.00, T:0.56
Consensus pattern (19 bp):
TTTCCAAAATTTTCAATTT
Found at i:49310282 original size:11 final size:11
Alignment explanation
Indices: 49310266--49310290 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
49310256 GAGGGATAGT
49310266 AATGGTTTAGA
1 AATGGTTTAGA
49310277 AATGGTTTAGA
1 AATGGTTTAGA
49310288 AAT
1 AAT
49310291 AGTTGAGGGA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.40, C:0.00, G:0.24, T:0.36
Consensus pattern (11 bp):
AATGGTTTAGA
Found at i:49312949 original size:43 final size:43
Alignment explanation
Indices: 49312883--49313150 Score: 349
Period size: 43 Copynumber: 6.3 Consensus size: 43
49312873 TTTTCGAAAT
* * *
49312883 AAACACCGCTATAGATCATGACCTTTAGCGGCGCTTTTCCCAC
1 AAACGCCGCTATAGACCACGACCTTTAGCGGCGCTTTTCCCAC
* * * *
49312926 AAATGCCGCTATAAACCACGACCTTTAGCGGCGCTTTTCCAAG
1 AAACGCCGCTATAGACCACGACCTTTAGCGGCGCTTTTCCCAC
* * * *
49312969 AAACGCCGCTATAGACCTCAACGTTTAGCGGCGCTTTTCTCAC
1 AAACGCCGCTATAGACCACGACCTTTAGCGGCGCTTTTCCCAC
* *
49313012 AAACGCCGCTATAGACCACGACCTTTAGAGGTGCTTTTCCCAC
1 AAACGCCGCTATAGACCACGACCTTTAGCGGCGCTTTTCCCAC
*
49313055 AAACGCCGCTATAGACCACGACCTTTAGCAGCGCTTTTCCCAC
1 AAACGCCGCTATAGACCACGACCTTTAGCGGCGCTTTTCCCAC
* * * * * *
49313098 -AACGCCGCTATAAATCATGACCTTTAGCAGCGCTTTTCGCAA
1 AAACGCCGCTATAGACCACGACCTTTAGCGGCGCTTTTCCCAC
49313140 AAACGCCGCTA
1 AAACGCCGCTA
49313151 AAAACATAAC
Statistics
Matches: 195, Mismatches: 29, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
42 37 0.19
43 158 0.81
ACGTcount: A:0.26, C:0.32, G:0.18, T:0.24
Consensus pattern (43 bp):
AAACGCCGCTATAGACCACGACCTTTAGCGGCGCTTTTCCCAC
Found at i:49316625 original size:21 final size:21
Alignment explanation
Indices: 49316601--49316648 Score: 55
Period size: 20 Copynumber: 2.3 Consensus size: 21
49316591 GGGGAAATTA
*
49316601 GGGATTTTAGGGGAG-AAAGTT
1 GGGATTTGAGGGG-GTAAAGTT
*
49316622 GGGA-TTGCGGGGGTAAAGTT
1 GGGATTTGAGGGGGTAAAGTT
49316642 GGGATTT
1 GGGATTT
49316649 CGGGGGAGGG
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
19 1 0.04
20 16 0.70
21 6 0.26
ACGTcount: A:0.23, C:0.02, G:0.46, T:0.29
Consensus pattern (21 bp):
GGGATTTGAGGGGGTAAAGTT
Found at i:49316654 original size:21 final size:20
Alignment explanation
Indices: 49316616--49316654 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
49316606 TTTAGGGGAG
49316616 AAAGTTGGGATTGCGGGGGT
1 AAAGTTGGGATTGCGGGGGT
*
49316636 AAAGTTGGGATTTCGGGGG
1 AAAGTTGGGATTGCGGGGG
49316655 AGGGGATTTT
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:0.21, C:0.05, G:0.49, T:0.26
Consensus pattern (20 bp):
AAAGTTGGGATTGCGGGGGT
Found at i:49317900 original size:89 final size:88
Alignment explanation
Indices: 49317717--49317887 Score: 234
Period size: 89 Copynumber: 1.9 Consensus size: 88
49317707 CCCCAAACCA
* * * * *
49317717 TAAATCACTAACCACTAACCCTAAACCTTATTTAATATATAAATTAAAAAACACTAATTAATCTA
1 TAAATCCCTGACCCCTAACCCTAAACATCATTTAATATATAAATTAAAAAACACTAATTAATCTA
* *
49317782 AATCATAAATCCTAACCCGACCC
66 AACCATAAACCCTAACCCGACCC
* * *
49317805 TGAATCCCTGACCCCTAACCCCTAAACATCATTTAATATATAAATTAAAACATACTAATTAATCT
1 TAAATCCCTGACCCCTAA-CCCTAAACATCATTTAATATATAAATTAAAAAACACTAATTAATCT
*
49317870 AAACCCTAAACCCTAACC
65 AAACCATAAACCCTAACC
49317888 TGACATCAAA
Statistics
Matches: 71, Mismatches: 11, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
88 14 0.20
89 57 0.80
ACGTcount: A:0.44, C:0.27, G:0.02, T:0.27
Consensus pattern (88 bp):
TAAATCCCTGACCCCTAACCCTAAACATCATTTAATATATAAATTAAAAAACACTAATTAATCTA
AACCATAAACCCTAACCCGACCC
Found at i:49317934 original size:7 final size:7
Alignment explanation
Indices: 49317914--49317957 Score: 52
Period size: 7 Copynumber: 6.3 Consensus size: 7
49317904 AACCTTAAAT
49317914 CCCTAAC
1 CCCTAAC
* *
49317921 TCTTAAC
1 CCCTAAC
*
49317928 CTCTAAC
1 CCCTAAC
49317935 CCCTAAC
1 CCCTAAC
*
49317942 CCTTAAC
1 CCCTAAC
49317949 CCCTAAC
1 CCCTAAC
49317956 CC
1 CC
49317958 ATAAACCTTA
Statistics
Matches: 29, Mismatches: 8, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
7 29 1.00
ACGTcount: A:0.27, C:0.50, G:0.00, T:0.23
Consensus pattern (7 bp):
CCCTAAC
Found at i:49317938 original size:21 final size:21
Alignment explanation
Indices: 49317914--49317968 Score: 74
Period size: 21 Copynumber: 2.6 Consensus size: 21
49317904 AACCTTAAAT
* *
49317914 CCCTAACTCTTAACCTCTAAC
1 CCCTAACCCTTAACCCCTAAC
49317935 CCCTAACCCTTAACCCCTAAC
1 CCCTAACCCTTAACCCCTAAC
* *
49317956 CCATAAACCTTAA
1 CCCTAACCCTTAA
49317969 ATCACAACCC
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.33, C:0.44, G:0.00, T:0.24
Consensus pattern (21 bp):
CCCTAACCCTTAACCCCTAAC
Found at i:49318345 original size:20 final size:18
Alignment explanation
Indices: 49318312--49318348 Score: 56
Period size: 20 Copynumber: 1.9 Consensus size: 18
49318302 ATTGAATTTT
49318312 AATTAATATAAATAGACA
1 AATTAATATAAATAGACA
49318330 AATTAAATAGTAAATAGAC
1 AATT-AATA-TAAATAGAC
49318349 GGATAAAATG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 4 0.24
19 4 0.24
20 9 0.53
ACGTcount: A:0.59, C:0.05, G:0.08, T:0.27
Consensus pattern (18 bp):
AATTAATATAAATAGACA
Found at i:49318424 original size:41 final size:41
Alignment explanation
Indices: 49318364--49318638 Score: 406
Period size: 41 Copynumber: 6.7 Consensus size: 41
49318354 AAATGTTTTT
*
49318364 GCGGCGCTTTTCCAAAAACGCCGCTAAAGATCTGAGCATTA
1 GCGGCGCTTTTTCAAAAACGCCGCTAAAGATCTGAGCATTA
* * *
49318405 GCAGCGCTTCTTCAAAAACGCCGCAAAAGATCTGAGCATTA
1 GCGGCGCTTTTTCAAAAACGCCGCTAAAGATCTGAGCATTA
* * *
49318446 GCGGGGCTTTTTCAAAAATGCCGCTAAAGATCTGAGCAATA
1 GCGGCGCTTTTTCAAAAACGCCGCTAAAGATCTGAGCATTA
** * *
49318487 GCGGCGCTTCGTCAAAAACACCGCTAAAGATCTAAGCATTA
1 GCGGCGCTTTTTCAAAAACGCCGCTAAAGATCTGAGCATTA
*
49318528 GCGGCGCTTTTTCAAAAATGCCGCTAAAGATCTGAGCATTA
1 GCGGCGCTTTTTCAAAAACGCCGCTAAAGATCTGAGCATTA
* *
49318569 GCGGCTCTTTTTCAAAAATGCCGCTAAAGATCTGAGCATTA
1 GCGGCGCTTTTTCAAAAACGCCGCTAAAGATCTGAGCATTA
* *
49318610 GCGGCGCTTTTTTAAAAAAGCCGCTAAAG
1 GCGGCGCTTTTTCAAAAACGCCGCTAAAG
49318639 CCCCGAAAGG
Statistics
Matches: 208, Mismatches: 26, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
41 208 1.00
ACGTcount: A:0.31, C:0.24, G:0.21, T:0.24
Consensus pattern (41 bp):
GCGGCGCTTTTTCAAAAACGCCGCTAAAGATCTGAGCATTA
Found at i:49319301 original size:26 final size:26
Alignment explanation
Indices: 49319265--49319330 Score: 123
Period size: 26 Copynumber: 2.5 Consensus size: 26
49319255 TGGGGAGAAT
*
49319265 TGTAACACCCCAAAATAGGGCTTAGG
1 TGTAACACCCCAAAATAGGGCCTAGG
49319291 TGTAACACCCCAAAATAGGGCCTAGG
1 TGTAACACCCCAAAATAGGGCCTAGG
49319317 TGTAACACCCCAAA
1 TGTAACACCCCAAA
49319331 CCCGACCCAA
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
26 39 1.00
ACGTcount: A:0.36, C:0.27, G:0.20, T:0.17
Consensus pattern (26 bp):
TGTAACACCCCAAAATAGGGCCTAGG
Found at i:49319771 original size:10 final size:10
Alignment explanation
Indices: 49319756--49319785 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
49319746 AGAATACACT
49319756 TGTGCAGTTA
1 TGTGCAGTTA
49319766 TGTGCAGTTA
1 TGTGCAGTTA
*
49319776 TGTACAGTTA
1 TGTGCAGTTA
49319786 AACAGAAGGG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.23, C:0.10, G:0.27, T:0.40
Consensus pattern (10 bp):
TGTGCAGTTA
Found at i:49324255 original size:18 final size:17
Alignment explanation
Indices: 49324234--49324271 Score: 58
Period size: 18 Copynumber: 2.2 Consensus size: 17
49324224 TATTAAAGAA
*
49324234 TTTTATTAAATTATATAT
1 TTTTACTAAATTATAT-T
49324252 TTTTACTAAATTATATT
1 TTTTACTAAATTATATT
49324269 TTT
1 TTT
49324272 AATAATAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 4 0.21
18 15 0.79
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.63
Consensus pattern (17 bp):
TTTTACTAAATTATATT
Found at i:49324296 original size:120 final size:118
Alignment explanation
Indices: 49324115--49324772 Score: 907
Period size: 120 Copynumber: 5.5 Consensus size: 118
49324105 GAATATAATG
* * *
49324115 ATTTGATTAAATTATATATTTTTATTAAATTATATTTAAAAATAATTAATTTAAATTATATTTTA
1 ATTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATTTTAAATTATATTTTA
49324180 TAGTATTATATATTATGATTTTAGTAAATTC-TAAGAATATTTAATATTAAAGA
66 TAGTATTATATATTATGATTTTAGTAAATTCTTAAGAATATTTAATATT-AAGA
*
49324233 ATTTTATTAAATTATATATTTTTACTAAATTATATTTTTAATAATAATTATTTTAAATTATATTT
1 ATTTTATTAAATTATATATTTTTATTAAATTATA--TTTAATAATAATTATTTTAAATTATATTT
49324298 TATAGTATTATATATTATGATTTTAGTAAATTCATTTAAGAATATTTAATATTAAGA
64 TATAGTATTATATATTATGATTTTAGTAAATTC--TTAAGAATATTTAATATTAAGA
*
49324355 ATTTTATTAAATTATATATTTTTGTTAAATTATATTTAATAATAATTATTTTAAATTATATTTTA
1 ATTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATTTTAAATTATATTTTA
49324420 TAGTATTATATATTATGATTTTAGTAAATTCATTTAAGAATATTTAAATATTAAGA
66 TAGTATTATATATTATGATTTTAGTAAATTC--TTAAGAATATTT-AATATTAAGA
*
49324476 ATTTTATTAAATTATATATTTCTATTAAATTATATTTAATAATAATTATTTTAAATTATATTTTA
1 ATTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATTTTAAATTATATTTTA
* *
49324541 TAGTATTATATATTATAATTTTATTAAATTCATATAAGAATATTTAATATTAAGA
66 TAGTATTATATATTATGATTTTAGTAAATTC-T-TAAGAATATTTAATATTAAGA
* *
49324596 ATTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATGTTAAATTATCTTTTA
1 ATTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATTTTAAATTATATTTTA
* * * * ** * *
49324661 -A--ATTATTTA-T-TG-TTAATAATAATTTACCAAAACAAATTTCTGCTAATTATTAAGA
66 TAGTATTATATATTATGATT-TTAGTAAATT--CTTAA-GAATAT-T--TAA-TATTAAGA
* * *
49324716 ATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAAAAATTATGTTTAAAT
1 ATTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTAT-TTTAAAT
49324773 ATGATTAAAT
Statistics
Matches: 497, Mismatches: 27, Indels: 29
0.90 0.05 0.05
Matches are distributed among these distances:
114 2 0.00
115 10 0.02
116 5 0.01
117 9 0.02
118 32 0.06
119 4 0.01
120 263 0.53
121 119 0.24
122 36 0.07
123 17 0.03
ACGTcount: A:0.43, C:0.02, G:0.04, T:0.52
Consensus pattern (118 bp):
ATTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATTTTAAATTATATTTTA
TAGTATTATATATTATGATTTTAGTAAATTCTTAAGAATATTTAATATTAAGA
Found at i:49324503 original size:18 final size:17
Alignment explanation
Indices: 49324476--49324630 Score: 74
Period size: 18 Copynumber: 9.0 Consensus size: 17
49324466 AATATTAAGA
49324476 ATTTTATTAAATTATAT
1 ATTTTATTAAATTATAT
49324493 ATTTCTATTAAA-T-TAT
1 ATTT-TATTAAATTATAT
* *
49324509 A-TTTAAT-AATAAT-T
1 ATTTTATTAAATTATAT
* *
49324523 ATTTTAAATTATATTTTAT
1 ATTTT--ATTAAATTATAT
* *
49324542 AGTATTA-TATATTATA-
1 A-TTTTATTAAATTATAT
49324558 ATTTTATTAAATTCATAT
1 ATTTTATTAAATT-ATAT
*** *
49324576 AAGAATATTTAATATTA-AGA
1 -ATTTTA-TTAA-ATTATA-T
49324596 ATTTTATTAAATTATAT
1 ATTTTATTAAATTATAT
49324613 ATTTTTATTAAATTATAT
1 A-TTTTATTAAATTATAT
49324631 TTAATAATAA
Statistics
Matches: 102, Mismatches: 18, Indels: 35
0.66 0.12 0.23
Matches are distributed among these distances:
13 2 0.02
14 5 0.05
15 10 0.10
16 10 0.10
17 23 0.23
18 32 0.31
19 9 0.09
20 8 0.08
21 3 0.03
ACGTcount: A:0.43, C:0.01, G:0.02, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAATTATAT
Found at i:49324547 original size:22 final size:23
Alignment explanation
Indices: 49324522--49324564 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
49324512 TAATAATAAT
*
49324522 TATTTTAAATTAT-ATTTTATAG
1 TATTATAAATTATAATTTTATAG
*
49324544 TATTATATATTATAATTTTAT
1 TATTATAAATTATAATTTTAT
49324565 TAAATTCATA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 11 0.61
23 7 0.39
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.60
Consensus pattern (23 bp):
TATTATAAATTATAATTTTATAG
Found at i:49324606 original size:241 final size:239
Alignment explanation
Indices: 49324115--49324660 Score: 934
Period size: 241 Copynumber: 2.3 Consensus size: 239
49324105 GAATATAATG
* * *
49324115 ATTTGATTAAATTATATATTTTTATTAAATTATATTTAAAAATAATTAATTTAAATTATATTTTA
1 ATTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATTTTAAATTATATTTTA
49324180 TAGTATTATATATTATGATTTTAGTAAATTCTAAGAATATTTAATATTAAAGAATTTTATTAAAT
66 TAGTATTATATATTATGATTTTAGTAAATTCTAAGAATATTTAATATTAAAGAATTTTATTAAAT
*
49324245 TATATATTTTTACTAAATTATATTTTTAATAATAATTATTTTAAATTATATTTTATAGTATTATA
131 TATATATTTCTACTAAATTATA-TTTTAATAATAATTATTTTAAATTATATTTTATAGTATTATA
* *
49324310 TATTATGATTTTAGTAAATTCATTTAAGAATATTTAATATTAAGA
195 TATTATAATTTTAGTAAATTCATATAAGAATATTTAATATTAAGA
*
49324355 ATTTTATTAAATTATATATTTTTGTTAAATTATATTTAATAATAATTATTTTAAATTATATTTTA
1 ATTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATTTTAAATTATATTTTA
49324420 TAGTATTATATATTATGATTTTAGTAAATTCATTTAAGAATATTTAAATATT-AAGAATTTTATT
66 TAGTATTATATATTATGATTTTAGTAAATTC---TAAGAATATTT-AATATTAAAGAATTTTATT
*
49324484 AAATTATATATTTCTATTAAATTATA-TTTAATAATAATTATTTTAAATTATATTTTATAGTATT
127 AAATTATATATTTCTACTAAATTATATTTTAATAATAATTATTTTAAATTATATTTTATAGTATT
*
49324548 ATATATTATAATTTTATTAAATTCATATAAGAATATTTAATATTAAGA
192 ATATATTATAATTTTAGTAAATTCATATAAGAATATTTAATATTAAGA
* *
49324596 ATTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATGTTAAATTATCTTTTA
1 ATTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATTTTAAATTATATTTTA
49324661 AATTATTTAT
Statistics
Matches: 290, Mismatches: 12, Indels: 7
0.94 0.04 0.02
Matches are distributed among these distances:
240 92 0.32
241 145 0.50
243 47 0.16
244 6 0.02
ACGTcount: A:0.42, C:0.01, G:0.04, T:0.53
Consensus pattern (239 bp):
ATTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATTTTAAATTATATTTTA
TAGTATTATATATTATGATTTTAGTAAATTCTAAGAATATTTAATATTAAAGAATTTTATTAAAT
TATATATTTCTACTAAATTATATTTTAATAATAATTATTTTAAATTATATTTTATAGTATTATAT
ATTATAATTTTAGTAAATTCATATAAGAATATTTAATATTAAGA
Found at i:49324744 original size:18 final size:17
Alignment explanation
Indices: 49324716--49324750 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
49324706 ATTATTAAGA
*
49324716 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
49324733 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
49324751 TTAATAAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:49324750 original size:16 final size:16
Alignment explanation
Indices: 49324716--49324770 Score: 53
Period size: 15 Copynumber: 3.4 Consensus size: 16
49324706 ATTATTAAGA
49324716 ATTTT-ATTAAATTATAT
1 ATTTTAATTAAA--ATAT
49324733 ATTTTAATTAAAATAT
1 ATTTTAATTAAAATAT
*
49324749 A-TTTAATAAAAAT-T
1 ATTTTAATTAAAATAT
49324763 ATGTTTAA
1 AT-TTTAA
49324771 ATATGATTAA
Statistics
Matches: 34, Mismatches: 1, Indels: 7
0.81 0.02 0.17
Matches are distributed among these distances:
14 2 0.06
15 11 0.32
16 10 0.29
17 5 0.15
18 6 0.18
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (16 bp):
ATTTTAATTAAAATAT
Found at i:49324772 original size:241 final size:233
Alignment explanation
Indices: 49324115--49324772 Score: 797
Period size: 241 Copynumber: 2.7 Consensus size: 233
49324105 GAATATAATG
* *
49324115 ATTTGATTAAATTATATATTTTTATTAAATTATATTTAAAAATAATTAATTTAAATTATATTTTA
1 ATTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATAATT-ATTTAAATTATATTTTA
* * * * * *
49324180 TAGTATTATATATTATGATTTTAGTAAATT-C-TAA-GAATATTTAATATTAAAGAATTTTATTA
65 -A--ATTATTTA-TATG-TTATAATAATTTACAAAACAAATATTTAATATT-AAGAATTTTATTA
* *
49324242 AATTATATATTTTTACTAAATTATATTTTTAATAATAATTATTTTAAATTATATTTTATAGTATT
124 AATTATATA-TTTTATTAAA--ATATATTTAATAATAATTATTTTAAATTATATTTTATAGTATT
* *
49324307 ATATATTATGATTTTAGTAAATTCATTTAAGAATATTTAATATTAAGA
186 ATATATTATAATTTTAGTAAATTCATATAAGAATATTTAATATTAAGA
*
49324355 ATTTTATTAAATTATATATTTTTGTTAAATTATATTTAATAATAATTATTTTAAATTATATTTTA
1 ATTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTA-TTTAAATTATATTTTA
* * * * * *
49324420 TAGTATTATATATTATGATTTTAGTAAATT-CATTTAA-GAATATTTAAATATTAAGAATTTTAT
65 -A--ATTATTTA-TATG-TTATAATAATTTACA--AAACAAATATTT-AATATTAAGAATTTTAT
*
49324483 TAAATTATATATTTCTATTAAATTATATTTAATAATAATTATTTTAAATTATATTTTATAGTATT
122 TAAATTATATATTT-TATTAAAATATATTTAATAATAATTATTTTAAATTATATTTTATAGTATT
*
49324548 ATATATTATAATTTTATTAAATTCATATAAGAATATTTAATATTAAGA
186 ATATATTATAATTTTAGTAAATTCATATAAGAATATTTAATATTAAGA
*
49324596 ATTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATGTTAAATTATCTTTTA
1 ATTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTAT-TTAAATTATATTTTA
*
49324661 AATTATTTAT-TGTTAATAATAATTTACCAAAACAAATTTCTGCTAATTATTAAGAATTTTATTA
65 AATTATTTATATGTT-ATAATAATTTA-CAAAACAAATAT-T--TAA-TATTAAGAATTTTATTA
*
49324725 AATTATATATTTTAATTAAAATATATTTAATAAAAATTATGTTTAAAT
124 AATTATATATTTT-ATTAAAATATATTTAATAATAATTAT-TTTAAAT
49324773 ATGATTAAAT
Statistics
Matches: 381, Mismatches: 20, Indels: 33
0.88 0.05 0.08
Matches are distributed among these distances:
235 2 0.01
236 11 0.03
237 5 0.01
238 10 0.03
239 4 0.01
240 147 0.39
241 154 0.40
242 3 0.01
243 39 0.10
244 6 0.02
ACGTcount: A:0.43, C:0.02, G:0.04, T:0.52
Consensus pattern (233 bp):
ATTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATTTAAATTATATTTTAA
ATTATTTATATGTTATAATAATTTACAAAACAAATATTTAATATTAAGAATTTTATTAAATTATA
TATTTTATTAAAATATATTTAATAATAATTATTTTAAATTATATTTTATAGTATTATATATTATA
ATTTTAGTAAATTCATATAAGAATATTTAATATTAAGA
Found at i:49325007 original size:16 final size:16
Alignment explanation
Indices: 49324986--49325054 Score: 129
Period size: 16 Copynumber: 4.2 Consensus size: 16
49324976 GATTTGCTAT
49324986 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
49325002 TACACCTCTAATCCCAA
1 TACACCTCTAAT-CCAA
49325019 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
49325035 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
49325051 TACA
1 TACA
49325055 GCGAACCAAA
Statistics
Matches: 52, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
16 36 0.69
17 16 0.31
ACGTcount: A:0.38, C:0.38, G:0.00, T:0.25
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:49325028 original size:33 final size:32
Alignment explanation
Indices: 49324986--49325054 Score: 129
Period size: 33 Copynumber: 2.1 Consensus size: 32
49324976 GATTTGCTAT
49324986 TACACCTCTAATCCAATACACCTCTAATCCCAA
1 TACACCTCTAATCCAATACACCTCTAAT-CCAA
49325019 TACACCTCTAATCCAATACACCTCTAATCCAA
1 TACACCTCTAATCCAATACACCTCTAATCCAA
49325051 TACA
1 TACA
49325055 GCGAACCAAA
Statistics
Matches: 36, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
32 8 0.22
33 28 0.78
ACGTcount: A:0.38, C:0.38, G:0.00, T:0.25
Consensus pattern (32 bp):
TACACCTCTAATCCAATACACCTCTAATCCAA
Found at i:49327699 original size:47 final size:47
Alignment explanation
Indices: 49327647--49328103 Score: 644
Period size: 47 Copynumber: 9.6 Consensus size: 47
49327637 GATAATTGTG
*
49327647 ATGTGAATGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* * *
49327694 ATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGA
1 ATGTGAAAGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
49327741 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAA--GTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* *
49327790 ATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATGA
1 ATGTGAAA--GTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
49327839 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAA--GTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
49327888 ATGTGAAAGTGTATATATATGTGATAAGGCCCAATGGCCGATGTGATGA
1 ATGTGAAA--GTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* *
49327937 ATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGA
1 ATGTGAAAGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* * *
49327984 ATGTGAAAGTGTATATATTTGATGAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* * * * * * * *
49328031 ATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGG
1 ATGTGAAAGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* *
49328078 ATGTGAAAGTGTATAAATGTGATAAG
1 ATGTGAAAGTATATATATGTGATAAG
49328104 TCCCGAAGGG
Statistics
Matches: 378, Mismatches: 30, Indels: 4
0.92 0.07 0.01
Matches are distributed among these distances:
47 192 0.51
49 186 0.49
ACGTcount: A:0.33, C:0.09, G:0.29, T:0.29
Consensus pattern (47 bp):
ATGTGAAAGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
Found at i:49327707 original size:49 final size:49
Alignment explanation
Indices: 49327647--49328103 Score: 704
Period size: 49 Copynumber: 9.6 Consensus size: 49
49327637 GATAATTGTG
49327647 ATGTG-AA-TGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* *
49327694 ATGTGAAAGTG--TATATATGTGATAAGGCCGAATGGCCAATGTGATGA
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
49327741 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* *
49327790 ATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATGA
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
49327839 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
49327888 ATGTGAAAGTGTATATATATGTGATAAGGCCCAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
49327937 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATAGCCGATGTGATGA
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
49327984 ATGTGAAAGTGTATATAT-T-TGATGAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* * * * * * *
49328031 ATGTGAAAGTG--TATATATGTGACAGGGCCGAGTGGCCAACGTGATGG
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
49328078 ATGTGAAAGTGTATA-A-ATGTGATAAG
1 ATGTGAAAGTGTATATATATGTGATAAG
49328104 TCCCGAAGGG
Statistics
Matches: 377, Mismatches: 23, Indels: 20
0.90 0.05 0.05
Matches are distributed among these distances:
45 5 0.01
46 1 0.00
47 171 0.45
48 4 0.01
49 196 0.52
ACGTcount: A:0.33, C:0.09, G:0.29, T:0.29
Consensus pattern (49 bp):
ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
Found at i:49337625 original size:9 final size:9
Alignment explanation
Indices: 49337611--49337635 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
49337601 TTTAGGATTT
49337611 ATTTAATTA
1 ATTTAATTA
49337620 ATTTAATTA
1 ATTTAATTA
49337629 ATTTAAT
1 ATTTAAT
49337636 CATGAGTAGC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (9 bp):
ATTTAATTA
Found at i:49344124 original size:32 final size:31
Alignment explanation
Indices: 49344079--49344174 Score: 165
Period size: 31 Copynumber: 3.1 Consensus size: 31
49344069 CTTAGATAAT
49344079 TTTAAAGAGTTTTATTAGGATTCAATTACTC
1 TTTAAAGAGTTTTATTAGGATTCAATTACTC
49344110 TTTAAAGAGTTTTTATTAGGATTCAATTACTC
1 TTTAAAGAG-TTTTATTAGGATTCAATTACTC
* *
49344142 TTGAAAGAGTTTTATCAGGATTCAATTACTC
1 TTTAAAGAGTTTTATTAGGATTCAATTACTC
49344173 TT
1 TT
49344175 GTAATTTGCC
Statistics
Matches: 62, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
31 32 0.52
32 30 0.48
ACGTcount: A:0.31, C:0.10, G:0.14, T:0.45
Consensus pattern (31 bp):
TTTAAAGAGTTTTATTAGGATTCAATTACTC
Found at i:49344741 original size:10 final size:9
Alignment explanation
Indices: 49344728--49344822 Score: 68
Period size: 10 Copynumber: 10.0 Consensus size: 9
49344718 ATAAAAGCAA
49344728 AAAAAATAGC
1 AAAAAA-AGC
*
49344738 AAAAACAGC
1 AAAAAAAGC
*
49344747 AAAAAAAAC
1 AAAAAAAGC
49344756 AAAAAAAAGC
1 -AAAAAAAGC
*
49344766 AAAAAAGCGC
1 AAAAAA-AGC
49344776 AAAAAAAAG-
1 -AAAAAAAGC
*
49344785 AGTAAAAAGCGC
1 A--AAAAA-AGC
*
49344797 AAAAAAAAC
1 AAAAAAAGC
49344806 -AAAAAAGC
1 AAAAAAAGC
49344814 AAAAAAAGC
1 AAAAAAAGC
49344823 GCAAAAAAGA
Statistics
Matches: 67, Mismatches: 10, Indels: 17
0.71 0.11 0.18
Matches are distributed among these distances:
8 8 0.12
9 25 0.37
10 26 0.39
11 7 0.10
12 1 0.01
ACGTcount: A:0.74, C:0.13, G:0.12, T:0.02
Consensus pattern (9 bp):
AAAAAAAGC
Found at i:49344750 original size:19 final size:19
Alignment explanation
Indices: 49344720--49344771 Score: 68
Period size: 19 Copynumber: 2.6 Consensus size: 19
49344710 TTCTTTAAAT
*
49344720 AAAAGCAAAAAAAATAGCAAA
1 AAAAGCAAAAAAAACA--AAA
*
49344741 AACAGCAAAAAAAACAAAA
1 AAAAGCAAAAAAAACAAAA
49344760 AAAAGCAAAAAA
1 AAAAGCAAAAAA
49344772 GCGCAAAAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
19 14 0.50
21 14 0.50
ACGTcount: A:0.79, C:0.12, G:0.08, T:0.02
Consensus pattern (19 bp):
AAAAGCAAAAAAAACAAAA
Found at i:49344800 original size:29 final size:30
Alignment explanation
Indices: 49344720--49344829 Score: 93
Period size: 29 Copynumber: 3.8 Consensus size: 30
49344710 TTCTTTAAAT
* **
49344720 AAAAGCAAAAAAAATAGCAAAAACAGCAAA
1 AAAAACAAAAAAAAGCGCAAAAACAGCAAA
*
49344750 AAAAACAAAAAAAAGC-AAAAAAGC-GCAAA
1 AAAAACAAAAAAAAGCGCAAAAA-CAGCAAA
* ** * *
49344779 AAAAAGAGTAAAAAGCGCAAAAAAAAC-AA
1 AAAAACAAAAAAAAGCGCAAAAACAGCAAA
*
49344808 AAAAGC-AAAAAAAGCGCAAAAA
1 AAAAACAAAAAAAAGCGCAAAAA
49344830 AGATAGAGTA
Statistics
Matches: 63, Mismatches: 14, Indels: 8
0.74 0.16 0.09
Matches are distributed among these distances:
28 14 0.22
29 29 0.46
30 20 0.32
ACGTcount: A:0.74, C:0.13, G:0.12, T:0.02
Consensus pattern (30 bp):
AAAAACAAAAAAAAGCGCAAAAACAGCAAA
Found at i:49344811 original size:51 final size:49
Alignment explanation
Indices: 49344724--49344884 Score: 202
Period size: 51 Copynumber: 3.2 Consensus size: 49
49344714 TTAAATAAAA
* *
49344724 GCAAAAAAAATAGCAAAAA-CAGCAAAAAAAACAAAAAAAAGCAAAAAAGC
1 GCAAAAAAAAGAGTAAAAAGC-GCAAAAAAAAC-AAAAAAAGCAAAAAAGC
49344774 GCAAAAAAAAGAGTAAAAAGCGCAAAAAAAAC-AAAAAAGCAAAAAAAGC
1 GCAAAAAAAAGAGTAAAAAGCGCAAAAAAAACAAAAAAAGC-AAAAAAGC
*
49344823 GCAAAAAAGATAGAGTAAAAAGCGCAAAAAAAA-AGCAAAAAGCAAAAAAGC
1 GCAAAAAA-A-AGAGTAAAAAGCGCAAAAAAAACA-AAAAAAGCAAAAAAGC
*
49344874 AGAAAAAAAAA
1 -GCAAAAAAAA
49344885 AGTTGCCTAC
Statistics
Matches: 100, Mismatches: 4, Indels: 14
0.85 0.03 0.12
Matches are distributed among these distances:
48 8 0.08
49 16 0.16
50 30 0.30
51 32 0.32
52 14 0.14
ACGTcount: A:0.72, C:0.12, G:0.14, T:0.02
Consensus pattern (49 bp):
GCAAAAAAAAGAGTAAAAAGCGCAAAAAAAACAAAAAAAGCAAAAAAGC
Found at i:49344827 original size:19 final size:19
Alignment explanation
Indices: 49344738--49344831 Score: 77
Period size: 20 Copynumber: 4.8 Consensus size: 19
49344728 AAAAAATAGC
* *
49344738 AAAAACAGCAAAAAAAACAA
1 AAAAAGAGC-AAAAAAGCAA
49344758 AAAAA-AGCAAAAAAGCGCAAA
1 AAAAAGAGCAAAAAA--GC-AA
* *
49344779 AAAAAGAGTAAAAAGCGCAA
1 AAAAAGAGCAAAAA-AGCAA
49344799 AAAAA-A-CAAAAAAGCAA
1 AAAAAGAGCAAAAAAGCAA
*
49344816 AAAAAGCGCAAAAAAG
1 AAAAAGAGCAAAAAAG
49344832 ATAGAGTAAA
Statistics
Matches: 61, Mismatches: 6, Indels: 15
0.74 0.07 0.18
Matches are distributed among these distances:
17 9 0.15
18 11 0.18
19 12 0.20
20 13 0.21
21 9 0.15
22 7 0.11
ACGTcount: A:0.73, C:0.13, G:0.13, T:0.01
Consensus pattern (19 bp):
AAAAAGAGCAAAAAAGCAA
Found at i:49344828 original size:10 final size:10
Alignment explanation
Indices: 49344764--49344831 Score: 52
Period size: 9 Copynumber: 6.9 Consensus size: 10
49344754 ACAAAAAAAA
49344764 GCAAAAAAGC
1 GCAAAAAAGC
*
49344774 GCAAAAAAAAGA
1 GC--AAAAAAGC
*
49344786 G-TAAAAAGC
1 GCAAAAAAGC
*
49344795 GCAAAAAA-A
1 GCAAAAAAGC
*
49344804 ACAAAAAAGC
1 GCAAAAAAGC
*
49344814 -AAAAAAAGC
1 GCAAAAAAGC
49344823 GCAAAAAAG
1 GCAAAAAAG
49344832 ATAGAGTAAA
Statistics
Matches: 44, Mismatches: 9, Indels: 10
0.70 0.14 0.16
Matches are distributed among these distances:
9 22 0.50
10 14 0.32
12 8 0.18
ACGTcount: A:0.69, C:0.13, G:0.16, T:0.01
Consensus pattern (10 bp):
GCAAAAAAGC
Found at i:49344884 original size:15 final size:14
Alignment explanation
Indices: 49344848--49344886 Score: 51
Period size: 15 Copynumber: 2.7 Consensus size: 14
49344838 TAAAAAGCGC
49344848 AAAAAAAAAGCAAA
1 AAAAAAAAAGCAAA
* *
49344862 AAGCAAAAAAGCAGA
1 AA-AAAAAAAGCAAA
49344877 AAAAAAAAAG
1 AAAAAAAAAG
49344887 TTGCCTACCT
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
14 9 0.43
15 12 0.57
ACGTcount: A:0.79, C:0.08, G:0.13, T:0.00
Consensus pattern (14 bp):
AAAAAAAAAGCAAA
Found at i:49351666 original size:38 final size:39
Alignment explanation
Indices: 49351615--49351695 Score: 128
Period size: 38 Copynumber: 2.1 Consensus size: 39
49351605 ATTCATTGCA
49351615 TTTAGAGACCCAGGTATAGAGGTCCGTTTACTTTT-TAG
1 TTTAGAGACCCAGGTATAGAGGTCCGTTTACTTTTCTAG
* * *
49351653 TTTAGAGGCCCAGGTGTCGAGGTCCGTTTACTTTTCTAG
1 TTTAGAGACCCAGGTATAGAGGTCCGTTTACTTTTCTAG
49351692 TTTA
1 TTTA
49351696 CTTTTCATTG
Statistics
Matches: 39, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
38 32 0.82
39 7 0.18
ACGTcount: A:0.20, C:0.17, G:0.25, T:0.38
Consensus pattern (39 bp):
TTTAGAGACCCAGGTATAGAGGTCCGTTTACTTTTCTAG
Found at i:49351834 original size:83 final size:82
Alignment explanation
Indices: 49351695--49351939 Score: 355
Period size: 83 Copynumber: 2.9 Consensus size: 82
49351685 TTTCTAGTTT
* * *
49351695 ACTTTTCATTGCATCTAGAGATCCAGGTGTGGAGGTCATTTACTTTTCATTGCATTTAGAGACCT
1 ACTTTTCATTGCATCTAGAGA-CCAGGTGTAGAGGTCATTCACTTTTCATTGCATTTAGAGACCC
* *
49351760 AGGTATGGAGGTCCATTC
65 AAGTGTGGAGGTCCATTC
* *
49351778 ACTTTTCATCGCATCTAGAGACCTAGGTGTAGAGATCATTCACTTTTCATTGCATTTAGAGACCC
1 ACTTTTCATTGCATCTAGAGACC-AGGTGTAGAGGTCATTCACTTTTCATTGCATTTAGAGACCC
49351843 AAGTGTGGAGGTCCATTC
65 AAGTGTGGAGGTCCATTC
* * **
49351861 ACTTTTCATTGCATTTAAAGACCCAATTGTAGAGGTCCATTCACTTTTCATTGCATTTAGAGACC
1 ACTTTTCATTGCATCTAGAGA-CCAGGTGTAGAGGT-CATTCACTTTTCATTGCATTTAGAGACC
49351926 CAAGTGTGGAGGTC
64 CAAGTGTGGAGGTC
49351940 TGTTTACTTT
Statistics
Matches: 146, Mismatches: 13, Indels: 5
0.89 0.08 0.03
Matches are distributed among these distances:
82 2 0.01
83 100 0.68
84 44 0.30
ACGTcount: A:0.25, C:0.20, G:0.21, T:0.34
Consensus pattern (82 bp):
ACTTTTCATTGCATCTAGAGACCAGGTGTAGAGGTCATTCACTTTTCATTGCATTTAGAGACCCA
AGTGTGGAGGTCCATTC
Found at i:49351949 original size:42 final size:42
Alignment explanation
Indices: 49351695--49351978 Score: 335
Period size: 42 Copynumber: 6.9 Consensus size: 42
49351685 TTTCTAGTTT
* * *
49351695 ACTTTTCATTGCATCTAGAGATCCAGGTGTGGAGGT-CATTT
1 ACTTTTCATTGCATTTAGAGACCCAGGTGTGGAGGTCCATTC
* *
49351736 ACTTTTCATTGCATTTAGAGACCTAGGTATGGAGGTCCATTC
1 ACTTTTCATTGCATTTAGAGACCCAGGTGTGGAGGTCCATTC
* * * * *
49351778 ACTTTTCATCGCATCTAGAGACCTAGGTGTAGAGAT-CATTC
1 ACTTTTCATTGCATTTAGAGACCCAGGTGTGGAGGTCCATTC
*
49351819 ACTTTTCATTGCATTTAGAGACCCAAGTGTGGAGGTCCATTC
1 ACTTTTCATTGCATTTAGAGACCCAGGTGTGGAGGTCCATTC
* ** *
49351861 ACTTTTCATTGCATTTAAAGACCCAATTGTAGAGGTCCATTC
1 ACTTTTCATTGCATTTAGAGACCCAGGTGTGGAGGTCCATTC
* ** *
49351903 ACTTTTCATTGCATTTAGAGACCCAAGTGTGGAGGTCTGTTT
1 ACTTTTCATTGCATTTAGAGACCCAGGTGTGGAGGTCCATTC
* * *
49351945 ACTTTTC-TAG--TTTAGAGGCACAGGTGTGGAGGTC
1 ACTTTTCATTGCATTTAGAGACCCAGGTGTGGAGGTC
49351979 TGTTTACTTT
Statistics
Matches: 212, Mismatches: 29, Indels: 6
0.86 0.12 0.02
Matches are distributed among these distances:
39 21 0.10
41 69 0.33
42 122 0.58
ACGTcount: A:0.24, C:0.19, G:0.22, T:0.35
Consensus pattern (42 bp):
ACTTTTCATTGCATTTAGAGACCCAGGTGTGGAGGTCCATTC
Found at i:49352933 original size:114 final size:116
Alignment explanation
Indices: 49352746--49352955 Score: 309
Period size: 114 Copynumber: 1.8 Consensus size: 116
49352736 TTTTTTAAAT
* * *
49352746 GAGAAAGTTTAGATTTTGAAAGAAATAAACATTTGTTTTTTCTTTGTTATTTTAAAGGAAAGTTT
1 GAGAAAGTTTAGATTATGAAAGAAAAAAACA-TTGTTTTTTCTTAGTTATTTTAAAGGAAAGTTT
* * * *
49352811 AAATTTTTAAAACAAAGTTTTTATTTTTTTTTCAACTATTTCAAAGTAAAAG
65 AAAATTTTAAAACAAAATTTTGATTTGTTTTTCAACTATTTCAAAGTAAAAG
49352863 GAGAAAGTTTAGATTATGAAA-AATAAAAACA-TGTTTTTT-TTAGTTATTTTAAAGGAAAGTTT
1 GAGAAAGTTTAGATTATGAAAGAA-AAAAACATTGTTTTTTCTTAGTTATTTTAAAGGAAAGTTT
*
49352925 AAAATTTTAAAATAAAATTTTGATTTGTTTT
65 AAAATTTTAAAACAAAATTTTGATTTGTTTT
49352956 ACCTACTTGA
Statistics
Matches: 84, Mismatches: 8, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
114 48 0.57
115 8 0.10
116 2 0.02
117 26 0.31
ACGTcount: A:0.40, C:0.03, G:0.12, T:0.45
Consensus pattern (116 bp):
GAGAAAGTTTAGATTATGAAAGAAAAAAACATTGTTTTTTCTTAGTTATTTTAAAGGAAAGTTTA
AAATTTTAAAACAAAATTTTGATTTGTTTTTCAACTATTTCAAAGTAAAAG
Found at i:49353024 original size:123 final size:123
Alignment explanation
Indices: 49352879--49353114 Score: 316
Period size: 123 Copynumber: 1.9 Consensus size: 123
49352869 GTTTAGATTA
* * * *
49352879 TGAAAAATAAAAACATGTTTTTTTTAGTTATTTTAAAGGAAAGTTTAAAATTTTAAAATAAAATT
1 TGAAAAATAAAAACATGATTTTTTAAGTCATTTTAAAGGAAAGTTTAAAATTTTAAAACAAAATT
*
49352944 TTGATTTGTTTTACCTACTT-GAAAGTAAAAGTTTTAATCTTTAAGAAAAATAGTTTATTT
66 TTGATTT-TTTTAACTACTTCGAAA-T-AAAGTTTTAATCTTTAAGAAAAATAGTTTATTT
* * *
49353004 TGAAAAATAAAATC-T-ATTTTTTAAGTCATTTTAAAGGAAGGTTTAAAATTTTAAAACAAAGTT
1 TGAAAAATAAAAACATGATTTTTTAAGTCATTTTAAAGGAAAGTTTAAAATTTTAAAACAAAATT
* * * *
49353067 TTGATTTTTTTAACTATTTCGAAATAATGTTTTGATTTTTAAGAAAAA
66 TTGATTTTTTTAACTACTTCGAAATAAAGTTTTAATCTTTAAGAAAAA
49353115 CAATGATTTT
Statistics
Matches: 98, Mismatches: 12, Indels: 6
0.84 0.10 0.05
Matches are distributed among these distances:
121 20 0.20
122 11 0.11
123 53 0.54
124 1 0.01
125 13 0.13
ACGTcount: A:0.42, C:0.04, G:0.11, T:0.44
Consensus pattern (123 bp):
TGAAAAATAAAAACATGATTTTTTAAGTCATTTTAAAGGAAAGTTTAAAATTTTAAAACAAAATT
TTGATTTTTTTAACTACTTCGAAATAAAGTTTTAATCTTTAAGAAAAATAGTTTATTT
Found at i:49353079 original size:30 final size:31
Alignment explanation
Indices: 49353045--49353106 Score: 72
Period size: 31 Copynumber: 2.0 Consensus size: 31
49353035 TAAAGGAAGG
*
49353045 TTTAA-AATTTTAAAACAAAGTTTTGATTTT
1 TTTAACAATTTCAAAACAAAGTTTTGATTTT
* * * *
49353075 TTTAACTATTTCGAAATAATGTTTTGATTTT
1 TTTAACAATTTCAAAACAAAGTTTTGATTTT
49353106 T
1 T
49353107 AAGAAAAACA
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
30 5 0.19
31 21 0.81
ACGTcount: A:0.34, C:0.05, G:0.08, T:0.53
Consensus pattern (31 bp):
TTTAACAATTTCAAAACAAAGTTTTGATTTT
Found at i:49353261 original size:6 final size:6
Alignment explanation
Indices: 49353250--49353278 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
49353240 CATAGAAGTT
49353250 GGAAGA GGAAGA GGAAGA GGAAGA GGAAG
1 GGAAGA GGAAGA GGAAGA GGAAGA GGAAG
49353279 TGGTTTTTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.52, T:0.00
Consensus pattern (6 bp):
GGAAGA
Found at i:49356721 original size:22 final size:20
Alignment explanation
Indices: 49356691--49356730 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
49356681 AAATCCTAAA
49356691 GTCACGAAATTTATCGATACCT
1 GTCACGAAA--TATCGATACCT
*
49356713 GTCATGAAATATCGATAC
1 GTCACGAAATATCGATAC
49356731 TTTAAACCCA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 9 0.53
22 8 0.47
ACGTcount: A:0.35, C:0.20, G:0.15, T:0.30
Consensus pattern (20 bp):
GTCACGAAATATCGATACCT
Found at i:49359434 original size:18 final size:18
Alignment explanation
Indices: 49359401--49359453 Score: 61
Period size: 18 Copynumber: 2.9 Consensus size: 18
49359391 ATTCACCTAA
*
49359401 ACCCAATCCAAACCCAAGT
1 ACCCAA-CCCAACCCAAGT
** *
49359420 ATTCAACCCAACCCAATT
1 ACCCAACCCAACCCAAGT
49359438 ACCCAACCCAACCCAA
1 ACCCAACCCAACCCAA
49359454 TCATAAAAAT
Statistics
Matches: 28, Mismatches: 6, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
18 24 0.86
19 4 0.14
ACGTcount: A:0.42, C:0.45, G:0.02, T:0.11
Consensus pattern (18 bp):
ACCCAACCCAACCCAAGT
Found at i:49359602 original size:9 final size:9
Alignment explanation
Indices: 49359564--49359605 Score: 57
Period size: 9 Copynumber: 4.7 Consensus size: 9
49359554 TTCAATTCAA
*
49359564 TTAATCCGG
1 TTAATTCGG
49359573 TTAATTCGG
1 TTAATTCGG
*
49359582 GTAATTCGG
1 TTAATTCGG
*
49359591 TTAATTCTG
1 TTAATTCGG
49359600 TTAATT
1 TTAATT
49359606 TTTAACCAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
9 29 1.00
ACGTcount: A:0.24, C:0.12, G:0.19, T:0.45
Consensus pattern (9 bp):
TTAATTCGG
Found at i:49362115 original size:51 final size:49
Alignment explanation
Indices: 49362060--49362164 Score: 138
Period size: 51 Copynumber: 2.1 Consensus size: 49
49362050 AAACATGGTA
* * ** *
49362060 GTTATAATTGTTTTTGGGAAGAATATAATGTTTTTTTAATACTTTCTATAT
1 GTTATAATTCTTTTTGGAAAGAATAT-A-GCGTGTTTAATACTTTCTATAT
*
49362111 GTTATAATTCTTTTTGGAAAGAATATAGCGTGTTTAATGCTTTCTATAT
1 GTTATAATTCTTTTTGGAAAGAATATAGCGTGTTTAATACTTTCTATAT
49362160 GTTAT
1 GTTAT
49362165 GTATAAGATT
Statistics
Matches: 48, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
49 23 0.48
50 1 0.02
51 24 0.50
ACGTcount: A:0.29, C:0.06, G:0.15, T:0.50
Consensus pattern (49 bp):
GTTATAATTCTTTTTGGAAAGAATATAGCGTGTTTAATACTTTCTATAT
Found at i:49367898 original size:45 final size:45
Alignment explanation
Indices: 49367823--49367911 Score: 108
Period size: 45 Copynumber: 2.0 Consensus size: 45
49367813 GGATCTCTTG
*
49367823 ATCTTCCACTAAACTAACAAGTCAACAAGAACTATTTACCTCTCA
1 ATCTTCCACTAAACTAACAAGTCAACAAGAACTACTTACCTCTCA
* ** * *
49367868 ATCTTCCACTAAATTAATGAGTTAGA-AAGAACTACTTATCTCTC
1 ATCTTCCACTAAACTAACAAGTCA-ACAAGAACTACTTACCTCTC
49367912 GACCTTACAG
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
45 36 0.97
46 1 0.03
ACGTcount: A:0.38, C:0.25, G:0.07, T:0.30
Consensus pattern (45 bp):
ATCTTCCACTAAACTAACAAGTCAACAAGAACTACTTACCTCTCA
Found at i:49389192 original size:99 final size:99
Alignment explanation
Indices: 49389018--49389210 Score: 332
Period size: 99 Copynumber: 1.9 Consensus size: 99
49389008 AATTGGTTGA
*
49389018 AAAGAAATGGCTTGAATTTGACCTATTTCTTATCCACACGGCCTAAGACACGGGTGTGTGTCTTA
1 AAAGAAATGGCTTGAATTTGACCTATTTCTTATCCACACGGCCTAAGACAAGGGTGTGTGTCTTA
* *
49389083 GCCGTGTGTGACACAGGGCCATGAGACACAGTCG
66 GCCCTATGTGACACAGGGCCATGAGACACAGTCG
* *
49389117 AAAGAAATGGCTTGAATTTGACCTATTTCTTATCCACATGGCCTAAGATAAGGGTGTGTGTCTTA
1 AAAGAAATGGCTTGAATTTGACCTATTTCTTATCCACACGGCCTAAGACAAGGGTGTGTGTCTTA
*
49389182 GCCCTATGTGACACAGGGCCATGTGACAC
66 GCCCTATGTGACACAGGGCCATGAGACAC
49389211 GGCCTTGCAC
Statistics
Matches: 88, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
99 88 1.00
ACGTcount: A:0.27, C:0.21, G:0.25, T:0.27
Consensus pattern (99 bp):
AAAGAAATGGCTTGAATTTGACCTATTTCTTATCCACACGGCCTAAGACAAGGGTGTGTGTCTTA
GCCCTATGTGACACAGGGCCATGAGACACAGTCG
Found at i:49395798 original size:87 final size:87
Alignment explanation
Indices: 49395664--49395902 Score: 273
Period size: 87 Copynumber: 2.7 Consensus size: 87
49395654 TGTAATCTCC
* * **
49395664 TTAGAGTTTCTTCAATTGAAA-AAGTTCATGAGAGAGGACTTATAGTTTAAAAATATTTTTATAT
1 TTAGAGTTTCTTC-ATTTAAAGAAATTCATGAGAGAGGACTTATAGTTTAAAGTTATTTTTATAT
*
49395728 ACCACACTATTTGCAGGAGCTTT
65 ACCACACTATTTGCAGGAGCTCT
* * * * * *
49395751 TTAGAGTTTTTTCATTTAAAGAAATTAATGAGTGAGGGCTTATAGTTTGAAGTTATTTTTATACA
1 TTAGAGTTTCTTCATTTAAAGAAATTCATGAGAGAGGACTTATAGTTTAAAGTTATTTTTATATA
* ** *
49395816 CCTCACTATTTTTATGAGCTCT
66 CCACACTATTTGCAGGAGCTCT
** * * * *
49395838 TTAGAGTTTCTTCATTTGCAGAAATTCATAAGAGAGGTCTTATAATTTAAAGTTATTTATATATA
1 TTAGAGTTTCTTCATTTAAAGAAATTCATGAGAGAGGACTTATAGTTTAAAGTTATTTTTATATA
49395903 ATATGATATA
Statistics
Matches: 125, Mismatches: 26, Indels: 2
0.82 0.17 0.01
Matches are distributed among these distances:
86 6 0.05
87 119 0.95
ACGTcount: A:0.33, C:0.10, G:0.15, T:0.42
Consensus pattern (87 bp):
TTAGAGTTTCTTCATTTAAAGAAATTCATGAGAGAGGACTTATAGTTTAAAGTTATTTTTATATA
CCACACTATTTGCAGGAGCTCT
Found at i:49396144 original size:113 final size:113
Alignment explanation
Indices: 49395993--49396215 Score: 410
Period size: 113 Copynumber: 2.0 Consensus size: 113
49395983 ATGATTTCAA
49395993 CATAGTACTAAGCTTGTTTGGAACTGAAACAATATGGTAATGCACTTATATCATTCTAATGCATT
1 CATAGTACTAAGCTTGTTTGGAACTGAAACAATATGGTAATGCACTTATATCATTCTAATGCATT
49396058 TAGAACCTACTAATGTCACGGGGCTAGAACTTTAGTCTGGCAAATTGT
66 TAGAACCTACTAATGTCACGGGGCTAGAACTTTAGTCTGGCAAATTGT
* * *
49396106 CATAGTACTAAGCTTTTTTGGAGCTGAAACAATGTGGTAATGCACTTATATCATTCTAATGCATT
1 CATAGTACTAAGCTTGTTTGGAACTGAAACAATATGGTAATGCACTTATATCATTCTAATGCATT
*
49396171 TAGAACCTACTAATGTCACGGGGCTAGAACTTTATTCTGGCAAAT
66 TAGAACCTACTAATGTCACGGGGCTAGAACTTTAGTCTGGCAAAT
49396216 CCTGTGACTT
Statistics
Matches: 106, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
113 106 1.00
ACGTcount: A:0.31, C:0.17, G:0.18, T:0.33
Consensus pattern (113 bp):
CATAGTACTAAGCTTGTTTGGAACTGAAACAATATGGTAATGCACTTATATCATTCTAATGCATT
TAGAACCTACTAATGTCACGGGGCTAGAACTTTAGTCTGGCAAATTGT
Found at i:49398907 original size:53 final size:53
Alignment explanation
Indices: 49398827--49398935 Score: 191
Period size: 53 Copynumber: 2.1 Consensus size: 53
49398817 CATTCGAATG
*
49398827 TTTGTGAATTAAATGGAACACTAACAAGAGGTGGAAAACGATATTTTATCAAT
1 TTTGTGAATTAAATAGAACACTAACAAGAGGTGGAAAACGATATTTTATCAAT
* *
49398880 TTTGTGAATTAAATAGAACACTAACAAGAGGTGGAAAATGATATTTTATCACT
1 TTTGTGAATTAAATAGAACACTAACAAGAGGTGGAAAACGATATTTTATCAAT
49398933 TTT
1 TTT
49398936 ATAGACGACT
Statistics
Matches: 53, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
53 53 1.00
ACGTcount: A:0.40, C:0.09, G:0.17, T:0.33
Consensus pattern (53 bp):
TTTGTGAATTAAATAGAACACTAACAAGAGGTGGAAAACGATATTTTATCAAT
Found at i:49400849 original size:11 final size:11
Alignment explanation
Indices: 49400835--49400860 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
49400825 AAGGTTACTC
49400835 GGATGCAAGTT
1 GGATGCAAGTT
49400846 GGATGCAAGTT
1 GGATGCAAGTT
49400857 GGAT
1 GGAT
49400861 TACAAGTCTA
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:0.27, C:0.08, G:0.38, T:0.27
Consensus pattern (11 bp):
GGATGCAAGTT
Found at i:49406959 original size:737 final size:731
Alignment explanation
Indices: 49405412--49407603 Score: 3237
Period size: 737 Copynumber: 3.0 Consensus size: 731
49405402 TAACTCGACT
* * *
49405412 ATATTTAGAATCATTTCCCAATTGAAATTATGTCGAGATAACATAACTGATGAAGATATGTTAGA
1 ATATTTAGAATCACTTCCCAATTGAAATTATGTGGAGAGAACATAACTGATGAAGATATGTTAG-
* *
49405477 AAAAAACATACTCCACATTTCACGTAAATAATGTTGTCCTGTAGACACAATATCGTGAAAAAGGT
65 AAAAAACATACTTCACATTTCACGTAAATAATGTTGTCTTGTAGACACAATATCGTGAAAAAGGT
* * *
49405542 TTTAAGAAATATTTTGAATTAATATCTTGTCTTCTTCTGGATGAGCAAAATAATGAACTGTTAAT
130 TTTAAGAAATATTCTGAATTAATATCTTGTCTTCTTCTGGCTAAGCAAAATAATGAACTGTTAAT
49405607 GAAAAATCATGAGTCATGTCCAACTGACTCTACTCCAATCTCTGAAGCGAATGTGACATCATATA
195 GAAAAATCATGAGTCATGTCCAACTGACTCTACTCCAATCTCTGAAGCGAATGTGACATCATATA
* *
49405672 CTGAAACAGATAAAGGCCACACTAGTAGTCGTGGTTGAGGACATGGT--C-G--TGGTCACAGTC
260 ATGAAACAGATAAAGGCCACACTAGTAGTTGTGGTTGAGGACATGGTCGCGGTCTGGTCACAGT-
49405732 G-AGGTCGAGGACGTGGACGTAAGCGAGGTGGTCATTTCAAGAATACCCACTAGAACTGGGATCA
324 GAAGGTCGAGGACGTGGACGTAAGCGAGGTGGTCATTTCAAGAATACCCACTAGAACTGGGATCA
* *
49405796 TAAGGATGGAAAGAATGATAAAAAATACAACTAGAAAAGTGAAAAGTTTGTGTTATCGTTGTGAA
389 TAAGGATGGAAAGAATGAT-AAAAATACAACTAGGAAAGTGGAAAGTTTGTGTTATCGTTGTGAA
* * * * * *
49405861 GGTAAAAACCATTGGTCCCATACTTTTCATACATCAAAGCATCTTGTATAGCTATATCAACAATG
453 GGTAAAAACCATTGGTCCCGTACTTGTCGTACACCAAAGCATCTTGTATAACTATATCAACAATC
* * ** * *
49405926 ATTGAAGGATAAAAAGAAGAAAATAGAGACGAATTTTGTTTGGGAGAATGACAAAGGTGACTATG
518 ATTGAAGGATTAAAAGAAGAAAATAGAGACAAATTTT-TTTTTGAGAATGATAAAGATGA-TATG
*
49405991 GCATTGTTGGTACAACTCATTTGGAAGCTGTTAATTTCTTCACCACCCCTAAAGGGAATAATTGA
581 GCA-T-TTGGTACTACTCATTT-GAAG-TG-TAATTTCTTCACCACCCCTAAAGGGAATAATTGA
* * *
49406056 TCTTTTAATTTTATTATTATAGTTTTAAAGAGTAAATTTTATACAATTTTGTTATATTTTTAACA
641 TCTTTTAATTTTATTATTATAGTTTTAAAGAATAAATTTTATACAAGTTTGTTATGTTTTTAACA
49406121 ACATGATTATTATATTATGTTTTAAA
706 ACATGATTATTATATTATGTTTTAAA
* *
49406147 ATATTTAAAATCACTTCCCAATTGAAATTATGTGGAGAGAACATAACTGATGAGGATATGTTAGA
1 ATATTTAGAATCACTTCCCAATTGAAATTATGTGGAGAGAACATAACTGATGAAGATATGTTAGA
* *
49406212 AAAAACATACTTCACATTTCACGTAAATAATGTTGTCTTGCAGACACAATATCGTGACAAAGGTT
66 AAAAACATACTTCACATTTCACGTAAATAATGTTGTCTTGTAGACACAATATCGTGAAAAAGGTT
* * * *
49406277 TTAAGAAATATTCTGAATTAATATATTGTCTTCTTCTGGCCAAGCAAAATAATGAGCTATTAATG
131 TTAAGAAATATTCTGAATTAATATCTTGTCTTCTTCTGGCTAAGCAAAATAATGAACTGTTAATG
* *
49406342 AAAAATCATGAGTCATGTCCAACTGACTCTACTCCAATCTCTGAAGCGAATGTGACACCATGTAA
196 AAAAATCATGAGTCATGTCCAACTGACTCTACTCCAATCTCTGAAGCGAATGTGACATCATATAA
* * *
49406407 TGAAAAAGATAAAGGCCACACTAGTAGTTGTGGTCGAGGACATGGTCGCGGTCATGGTCACGGTG
261 TGAAACAGATAAAGGCCACACTAGTAGTTGTGGTTGAGGACATGGTCGCGGTC-TGGTCACAGTG
* * *
49406472 AAGGTCGAGGACGTAGACGTAAGCGAGGTGGTCATTTCAAGAATACCCACTAGTATTGGGATCAT
325 AAGGTCGAGGACGTGGACGTAAGCGAGGTGGTCATTTCAAGAATACCCACTAGAACTGGGATCAT
49406537 AAGGATGGAAAGAATGAT-AAAATACAACTAGGAAAGTGGAAAGTTTGTGTTATCGTTGTGAAGG
390 AAGGATGGAAAGAATGATAAAAATACAACTAGGAAAGTGGAAAGTTTGTGTTATCGTTGTGAAGG
* *
49406601 TAAAAACCATTGATCCCGTAGTTGTCGTACACCAAAGCATCTTGTATAACTATATCAACAATCAT
455 TAAAAACCATTGGTCCCGTACTTGTCGTACACCAAAGCATCTTGTATAACTATATCAACAATCAT
* *
49406666 TGAAGGATTTAAAGAAGAAAATAAAGACAAATTTTTTTTTGAGAATGATAAAGATGATTATGGCA
520 TGAAGGATTAAAAGAAGAAAATAGAGACAAATTTTTTTTTGAGAATGATAAAGATGA-TATGGCA
*
49406731 TCATTGGTACTACTCATTTGAAAGTTGTCAATTTCTTCACCACCCCTAAAGGGAGTAATTGATCT
584 T--TTGGTACTACTCATTTG-AAG-TGT-AATTTCTTCACCACCCCTAAAGGGAATAATTGATCT
* *
49406796 TTTAATTTTATTATTATAGTTTTAAAGAATAAATGTTATGCAAGTTTGTTATGTTTTTAACAACA
644 TTTAATTTTATTATTATAGTTTTAAAGAATAAATTTTATACAAGTTTGTTATGTTTTTAACAACA
49406861 TGATTATTATATTATGTTTTAAA
709 TGATTATTATATTATGTTTTAAA
*
49406884 ATATTTAGAATCACTTCCCAATTGAAATTATGTGGAGAGAACATAACTGATAAAGATATGTTAGA
1 ATATTTAGAATCACTTCCCAATTGAAATTATGTGGAGAGAACATAACTGATGAAGATATGTTAGA
* *
49406949 AAAAACATAC-TCTATATTTCACATAAATAATGTTGTCTTGTAGACACAATATCGTGAAAAAGGT
66 AAAAACATACTTC-ACATTTCACGTAAATAATGTTGTCTTGTAGACACAATATCGTGAAAAAGGT
* * * *
49407013 TTTAAGACATATTCTGAATTAATATCTTGTCTTCTTCTAGCTAAGCAAAATAATAAATTGTTAAT
130 TTTAAGAAATATTCTGAATTAATATCTTGTCTTCTTCTGGCTAAGCAAAATAATGAACTGTTAAT
* * *
49407078 GAAAAATCTTGAGTCATGTCCAACTGACTCTACTCCAATCTCTAAAGCAAATGTGACATCATATA
195 GAAAAATCATGAGTCATGTCCAACTGACTCTACTCCAATCTCTGAAGCGAATGTGACATCATATA
* * *
49407143 GTGAAACAGATAAAGGCCACATTAGTAGTTGTGGTTGAGGACATGGTCGTGGTCGTGGTCACAGT
260 ATGAAACAGATAAAGGCCACACTAGTAGTTGTGGTTGAGGACATGGTCGCGGTC-TGGTCACAGT
* *
49407208 CAAGGTCGAAGACGTGGACGTGGACGTCAGCGAGGTGGTCATTTCAAGAATACCCACTAGAACTG
324 GAAGGTC---GA---GGACGTGGACGTAAGCGAGGTGGTCATTTCAAGAATACCCACTAGAACTG
*
49407273 GGATCATAAGGATGGAAAGAATGATAAAAATACAACTGGGAAAGTGGAAAGTTTGTGTTATCGTT
383 GGATCATAAGGATGGAAAGAATGATAAAAATACAACTAGGAAAGTGGAAAGTTTGTGTTATCGTT
49407338 GTGAAGGTAAAAACCATTGGTCCCGTACTTGTCGTACACCAAAGCATCTTGTATAACTATATCAA
448 GTGAAGGTAAAAACCATTGGTCCCGTACTTGTCGTACACCAAAGCATCTTGTATAACTATATCAA
* * * *
49407403 CAATCATTGAAGGA-TAACAATAAGAAAGTAGAGACAAA-TTTTGTTT--G--T--T--ACA--A
513 CAATCATTGAAGGATTAA-AAGAAGAAAATAGAGACAAATTTTTTTTTGAGAATGATAAAGATGA
* * **
49407456 -CT--CATTTGG-A-T--GC---T--A-T-TAATTTCTTCACCACCCCTAAAGGGAATAAACGAT
577 TATGGCATTTGGTACTACTCATTTGAAGTGTAATTTCTTCACCACCCCTAAAGGGAATAATTGAT
49407507 CTTTTAATTTTATTATTATAGTTTTAAAGAATAAATTTTATACAAGTTTGTTATGTTTTTAACAA
642 CTTTTAATTTTATTATTATAGTTTTAAAGAATAAATTTTATACAAGTTTGTTATGTTTTTAACAA
49407572 CATGATTATTATATTATGTTTTAAA
707 CATGATTATTATATTATGTTTTAAA
49407597 ATATTTA
1 ATATTTA
49407604 TAAAAAATTT
Statistics
Matches: 1336, Mismatches: 102, Indels: 60
0.89 0.07 0.04
Matches are distributed among these distances:
713 126 0.09
714 1 0.00
715 1 0.00
717 1 0.00
720 1 0.00
723 1 0.00
725 1 0.00
726 1 0.00
727 4 0.00
729 3 0.00
731 1 0.00
733 1 0.00
734 225 0.17
735 61 0.05
736 6 0.00
737 465 0.35
738 132 0.10
739 2 0.00
740 90 0.07
741 1 0.00
743 80 0.06
744 132 0.10
ACGTcount: A:0.36, C:0.14, G:0.18, T:0.32
Consensus pattern (731 bp):
ATATTTAGAATCACTTCCCAATTGAAATTATGTGGAGAGAACATAACTGATGAAGATATGTTAGA
AAAAACATACTTCACATTTCACGTAAATAATGTTGTCTTGTAGACACAATATCGTGAAAAAGGTT
TTAAGAAATATTCTGAATTAATATCTTGTCTTCTTCTGGCTAAGCAAAATAATGAACTGTTAATG
AAAAATCATGAGTCATGTCCAACTGACTCTACTCCAATCTCTGAAGCGAATGTGACATCATATAA
TGAAACAGATAAAGGCCACACTAGTAGTTGTGGTTGAGGACATGGTCGCGGTCTGGTCACAGTGA
AGGTCGAGGACGTGGACGTAAGCGAGGTGGTCATTTCAAGAATACCCACTAGAACTGGGATCATA
AGGATGGAAAGAATGATAAAAATACAACTAGGAAAGTGGAAAGTTTGTGTTATCGTTGTGAAGGT
AAAAACCATTGGTCCCGTACTTGTCGTACACCAAAGCATCTTGTATAACTATATCAACAATCATT
GAAGGATTAAAAGAAGAAAATAGAGACAAATTTTTTTTTGAGAATGATAAAGATGATATGGCATT
TGGTACTACTCATTTGAAGTGTAATTTCTTCACCACCCCTAAAGGGAATAATTGATCTTTTAATT
TTATTATTATAGTTTTAAAGAATAAATTTTATACAAGTTTGTTATGTTTTTAACAACATGATTAT
TATATTATGTTTTAAA
Found at i:49412641 original size:45 final size:45
Alignment explanation
Indices: 49412578--49412775 Score: 235
Period size: 45 Copynumber: 4.4 Consensus size: 45
49412568 TACACGGTGG
* * * *
49412578 ATCAGCACACAAC-ACCACCCTTATAGTCAATAGTACTC-GGTGAA
1 ATCAGCACATAGCAACCACCCTTATACTCAATGGTAC-CGGGTGAA
* *
49412622 ATCAGCTCATAGCAACCACCTTTATACTCAATGGTACCGGGTGAA
1 ATCAGCACATAGCAACCACCCTTATACTCAATGGTACCGGGTGAA
* *
49412667 ATCAGCACATAGAAACCACCTTTATACTCAATGGTACCGGGTGAA
1 ATCAGCACATAGCAACCACCCTTATACTCAATGGTACCGGGTGAA
*
49412712 ATCAGCACATAGCAACCA-CCTATATAAC-CATTGGTATCC-GGTGAA
1 ATCAGCACATAGCAACCACCCT-TAT-ACTCAATGGTA-CCGGGTGAA
*
49412757 ATCAACACATAGCAACCAC
1 ATCAGCACATAGCAACCAC
49412776 ATTTATTTTC
Statistics
Matches: 136, Mismatches: 12, Indels: 10
0.86 0.08 0.06
Matches are distributed among these distances:
44 13 0.10
45 119 0.88
46 4 0.03
ACGTcount: A:0.36, C:0.28, G:0.15, T:0.21
Consensus pattern (45 bp):
ATCAGCACATAGCAACCACCCTTATACTCAATGGTACCGGGTGAA
Found at i:49412710 original size:90 final size:90
Alignment explanation
Indices: 49412578--49412826 Score: 274
Period size: 90 Copynumber: 2.8 Consensus size: 90
49412568 TACACGGTGG
* * * * *
49412578 ATCAGCACACA-ACACCACCCTTATAGTCAATAGTACTCGGTGAAATCAGCTCATAGCAACCACC
1 ATCAGCACATAGAAACCACCTTTATACTCAATAGTACTCGGTGAAATCAGCACATAGCAACCACC
*
49412642 TTTAT-ACTCAATGGTA-CCGGGTGAA
66 TATATAAC-CAATGGTATCC-GGTGAA
*
49412667 ATCAGCACATAGAAACCACCTTTATACTCAATGGTAC-CGGGTGAAATCAGCACATAGCAACCAC
1 ATCAGCACATAGAAACCACCTTTATACTCAATAGTACTC-GGTGAAATCAGCACATAGCAACCAC
*
49412731 CTATATAACCATTGGTATCCGGTGAA
65 CTATATAACCAATGGTATCCGGTGAA
* * * ** * * * *
49412757 ATCAACACATAGCAACCACATTTATTTTCATTAATA-TCGAGTGGAATCAGCACATAGCATCCAC
1 ATCAGCACATAGAAACCACCTTTATACTCAATAGTACTCG-GTGAAATCAGCACATAGCAACCAC
49412821 CTATAT
65 CTATAT
49412827 TTCCAACGAT
Statistics
Matches: 136, Mismatches: 18, Indels: 11
0.82 0.11 0.07
Matches are distributed among these distances:
89 12 0.09
90 120 0.88
91 4 0.03
ACGTcount: A:0.35, C:0.26, G:0.14, T:0.24
Consensus pattern (90 bp):
ATCAGCACATAGAAACCACCTTTATACTCAATAGTACTCGGTGAAATCAGCACATAGCAACCACC
TATATAACCAATGGTATCCGGTGAA
Found at i:49412839 original size:45 final size:44
Alignment explanation
Indices: 49412614--49412831 Score: 170
Period size: 45 Copynumber: 4.9 Consensus size: 44
49412604 TCAATAGTAC
* * * * *
49412614 TCGGTGAAATCAGCTCATAGCAACCACCTTTA-TACTCAATGGTA
1 TCGGTGAAATCAGCACATAGCAACCACCTATATTTC-CATTGATA
* * * * * *
49412658 CCGGGTGAAATCAGCACATAGAAACCACCTTTA-TACTCAATGGTA
1 TC-GGTGAAATCAGCACATAGCAACCACCTATATTTC-CATTGATA
* ** *
49412703 CCGGGTGAAATCAGCACATAGCAACCACCTATATAACCATTGGTA
1 TC-GGTGAAATCAGCACATAGCAACCACCTATATTTCCATTGATA
* * * * *
49412748 TCCGGTGAAATCAACACATAGCAACCACATTTATTTTCATTAATA
1 T-CGGTGAAATCAGCACATAGCAACCACCTATATTTCCATTGATA
* *
49412793 TCGAGTGGAATCAGCACATAGCATCCACCTATATTTCCA
1 TCG-GTGAAATCAGCACATAGCAACCACCTATATTTCCA
49412832 ACGATATCCG
Statistics
Matches: 148, Mismatches: 22, Indels: 7
0.84 0.12 0.04
Matches are distributed among these distances:
44 3 0.02
45 142 0.96
46 3 0.02
ACGTcount: A:0.34, C:0.25, G:0.15, T:0.25
Consensus pattern (44 bp):
TCGGTGAAATCAGCACATAGCAACCACCTATATTTCCATTGATA
Found at i:49413634 original size:18 final size:18
Alignment explanation
Indices: 49413581--49413634 Score: 58
Period size: 18 Copynumber: 3.1 Consensus size: 18
49413571 AACCTTTCAT
*
49413581 CTTTCATCTCCCT-TAAC
1 CTTTCATCTCCTTGTAAC
*
49413598 CTTCCATCTTCCTTG-AAC
1 CTTTCATC-TCCTTGTAAC
*
49413616 CTTTCATCTCATTGTAAC
1 CTTTCATCTCCTTGTAAC
49413634 C
1 C
49413635 CTTTTTTTCT
Statistics
Matches: 30, Mismatches: 4, Indels: 5
0.77 0.10 0.13
Matches are distributed among these distances:
17 12 0.40
18 18 0.60
ACGTcount: A:0.19, C:0.37, G:0.04, T:0.41
Consensus pattern (18 bp):
CTTTCATCTCCTTGTAAC
Found at i:49414580 original size:16 final size:16
Alignment explanation
Indices: 49414559--49414596 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
49414549 TAATTTATTA
49414559 AATAAAA-ATTATATTC
1 AATAAAATATTA-ATTC
*
49414575 ATTAAAATATTAATTC
1 AATAAAATATTAATTC
49414591 AATAAA
1 AATAAA
49414597 GGGTGAGTAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
16 15 0.79
17 4 0.21
ACGTcount: A:0.58, C:0.05, G:0.00, T:0.37
Consensus pattern (16 bp):
AATAAAATATTAATTC
Found at i:49416269 original size:9 final size:10
Alignment explanation
Indices: 49416254--49416279 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
49416244 TTTAAAATAT
49416254 TTAAAAAAAA
1 TTAAAAAAAA
49416264 TTAAAAAAAA
1 TTAAAAAAAA
49416274 TTAAAA
1 TTAAAA
49416280 GCATATAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (10 bp):
TTAAAAAAAA
Found at i:49416835 original size:16 final size:17
Alignment explanation
Indices: 49416814--49416851 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 17
49416804 TTTTATATGA
*
49416814 ATTTTACT-TTTATTTT
1 ATTTTACTATATATTTT
49416830 ATTTTACTACTATATTTT
1 ATTTTACTA-TATATTTT
49416848 ATTT
1 ATTT
49416852 AAATAAAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 8 0.42
18 11 0.58
ACGTcount: A:0.24, C:0.08, G:0.00, T:0.68
Consensus pattern (17 bp):
ATTTTACTATATATTTT
Found at i:49418515 original size:19 final size:19
Alignment explanation
Indices: 49418491--49418530 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
49418481 TATGTCTTTT
49418491 TTAATAGTTTAATGTTAAA
1 TTAATAGTTTAATGTTAAA
* * *
49418510 TTAATATTTTTATTTTAAA
1 TTAATAGTTTAATGTTAAA
49418529 TT
1 TT
49418531 TTAGAATTTT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.38, C:0.00, G:0.05, T:0.57
Consensus pattern (19 bp):
TTAATAGTTTAATGTTAAA
Found at i:49421060 original size:21 final size:22
Alignment explanation
Indices: 49421030--49421072 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
49421020 GTGCTTGTTA
* *
49421030 GTTATGTTTTA-ATTTTTAATG
1 GTTATATTTTACAATTTTAATG
49421051 GTTATATTTTACAATTTTAATG
1 GTTATATTTTACAATTTTAATG
49421073 AATTAATTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 10 0.53
22 9 0.47
ACGTcount: A:0.28, C:0.02, G:0.12, T:0.58
Consensus pattern (22 bp):
GTTATATTTTACAATTTTAATG
Found at i:49421520 original size:12 final size:12
Alignment explanation
Indices: 49421491--49421530 Score: 53
Period size: 13 Copynumber: 3.2 Consensus size: 12
49421481 AAACAATCAA
*
49421491 AAAATTTATTACT
1 AAAATTTACTA-T
49421504 AAAATTTACTAT
1 AAAATTTACTAT
49421516 AAAATATTACTAT
1 AAAAT-TTACTAT
49421529 AA
1 AA
49421531 CATTAAAGAA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
12 6 0.24
13 19 0.76
ACGTcount: A:0.53, C:0.07, G:0.00, T:0.40
Consensus pattern (12 bp):
AAAATTTACTAT
Found at i:49429788 original size:50 final size:50
Alignment explanation
Indices: 49429672--49429913 Score: 176
Period size: 50 Copynumber: 4.7 Consensus size: 50
49429662 GATAATAACA
* * * *
49429672 TGCCAAAGCCATGTCCCA-AGCATGGTCTTACAAGGGATGTT-TCTTGTAC--
1 TGCCAATGCCATGTCCCAGA-CATGGTCTTACACGGGA-GTTCTCATAT-CGG
* *
49429721 TGCCAATGCCATATCCCAGATATGGTCTTACACGGGAGTTCTCATATCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACACGGGAGTTCTCATATCGG
* *
49429771 TGCTC-ATGCCATGTCCCAAACATGGTCTT--ACGGGAGACCTT-TCATCTCGG
1 TGC-CAATGCCATGTCCCAGACATGGTCTTACACGGGAG---TTCTCATATCGG
* * ** *
49429821 TGCCAATGCCATGTCCTAGACATGGTCTTACATGGGACCTCTCATAACCTCAATGA
1 TGCCAATGCCATGTCCCAGACATGGTCTTACACGGGAGTTCTCAT-A--TC---GG
* *
49429877 TGCCAATGCCATGTCCCAGATATGGTCTTACATGGGA
1 TGCCAATGCCATGTCCCAGACATGGTCTTACACGGGA
49429914 TCTCTTTACC
Statistics
Matches: 156, Mismatches: 19, Indels: 29
0.76 0.09 0.14
Matches are distributed among these distances:
48 11 0.07
49 37 0.24
50 62 0.40
51 3 0.02
52 5 0.03
53 2 0.01
56 36 0.23
ACGTcount: A:0.24, C:0.27, G:0.21, T:0.28
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACACGGGAGTTCTCATATCGG
Found at i:49435245 original size:49 final size:49
Alignment explanation
Indices: 49435178--49435278 Score: 157
Period size: 49 Copynumber: 2.1 Consensus size: 49
49435168 AGTTAAGTTA
** *
49435178 GTTATCACTATAGTTTAGATTTATTTGCACTTTTAGTCCCATTACTTTT
1 GTTATCACTATAACTTAGATTTATCTGCACTTTTAGTCCCATTACTTTT
* *
49435227 GTTATCACTGTAACTTAGATTTATCTGCATTTTTAGTCCCATTACTTTT
1 GTTATCACTATAACTTAGATTTATCTGCACTTTTAGTCCCATTACTTTT
49435276 GTT
1 GTT
49435279 GTAAGATATT
Statistics
Matches: 47, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
49 47 1.00
ACGTcount: A:0.22, C:0.17, G:0.11, T:0.50
Consensus pattern (49 bp):
GTTATCACTATAACTTAGATTTATCTGCACTTTTAGTCCCATTACTTTT
Found at i:49442821 original size:40 final size:40
Alignment explanation
Indices: 49442737--49442961 Score: 278
Period size: 40 Copynumber: 5.7 Consensus size: 40
49442727 TTGAATGATG
* * * *
49442737 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * *
49442777 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
49442817 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* * *
49442856 TCCGGGTTAAGTCCCGATGGAATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
49442896 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
49442937 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
49442962 AACGAGGAGC
Statistics
Matches: 161, Mismatches: 19, Indels: 10
0.85 0.10 0.05
Matches are distributed among these distances:
39 34 0.21
40 117 0.73
41 10 0.06
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:49450834 original size:40 final size:40
Alignment explanation
Indices: 49450750--49450974 Score: 251
Period size: 40 Copynumber: 5.7 Consensus size: 40
49450740 TTGAATGATG
* * * * *
49450750 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGACTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* *
49450790 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGACTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
49450830 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGACTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
** * *
49450869 TCCGGGTTAAGTCCCGATGGCATTTCTGCGAGTTACTAAA
1 TCCGGACTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
49450909 TCCGGATTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGACTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
* *
49450950 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGACTAAGTCCCGAAGGCATTTG
49450975 AACGAGGAGC
Statistics
Matches: 159, Mismatches: 21, Indels: 10
0.84 0.11 0.05
Matches are distributed among these distances:
39 34 0.21
40 115 0.72
41 10 0.06
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGACTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:49450992 original size:80 final size:79
Alignment explanation
Indices: 49450757--49451007 Score: 199
Period size: 80 Copynumber: 3.2 Consensus size: 79
49450747 ATGTCCGGGC
* * * * * * ***
49450757 TAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGAT-CCGAAGGCATTTGTGCG
1 TAAGTCCCGAAGGCATTGGTGC-GAGTTACTAAATCCGGGCTAAG-TCCCGAAGGCATTTCAACG
* *
49450820 AGAT-ACTAATTCCGGGC
64 AG-TGACTAAATCC-GGT
* * **
49450837 TAAG-CCCGAAGGCATTGGTGCGAGTTACTAAATCCGGGTTAAGTCCCGATGGCATTTCTGCGAG
1 TAAGTCCCGAAGGCATTGGTGCGAGTTACTAAATCCGGGCTAAGTCCCGAAGGCATTTCAACGAG
*
49450901 TTACTAAATCCGGAT
66 TGACTAAATCCGG-T
* * *
49450916 TAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA-CCGGGCTATGTCCCGAAGGCATTTGAACGA
1 TAAGTCCCGAAGGCATTGGTGCGAGTTACTA-AATCCGGGCTAAGTCCCGAAGGCATTTCAACGA
*
49450980 G-GAGCTATATCCGGT
65 GTGA-CTAAATCCGGT
* *
49450995 TAAATTCCGAAGG
1 TAAGTCCCGAAGG
49451008 TACGTGATTT
Statistics
Matches: 142, Mismatches: 22, Indels: 15
0.79 0.12 0.08
Matches are distributed among these distances:
78 4 0.03
79 67 0.47
80 69 0.49
81 2 0.01
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (79 bp):
TAAGTCCCGAAGGCATTGGTGCGAGTTACTAAATCCGGGCTAAGTCCCGAAGGCATTTCAACGAG
TGACTAAATCCGGT
Found at i:49455612 original size:37 final size:37
Alignment explanation
Indices: 49455549--49455655 Score: 89
Period size: 37 Copynumber: 2.9 Consensus size: 37
49455539 ATTCCAAAAA
*
49455549 TAATATTATTTTAATAGTTTAATATTAA-ATTAAATT
1 TAATATTATCTTAATAGTTTAATATTAATATTAAATT
* * *
49455585 TAATACTTATCTTAATAGTGTT-TTATTAATTTTATATT
1 TAATA-TTATCTTAATAGT-TTAATATTAATATTAAATT
* *
49455623 AAAGTAATTATCTTAATA-TTAAAT-TTAAT-TTAA
1 TAA-T-ATTATCTTAATAGTTTAATATTAATATTAA
49455656 TGTTTATCTA
Statistics
Matches: 57, Mismatches: 8, Indels: 12
0.74 0.10 0.16
Matches are distributed among these distances:
36 8 0.14
37 24 0.42
38 12 0.21
39 12 0.21
40 1 0.02
ACGTcount: A:0.41, C:0.03, G:0.04, T:0.52
Consensus pattern (37 bp):
TAATATTATCTTAATAGTTTAATATTAATATTAAATT
Found at i:49462621 original size:30 final size:30
Alignment explanation
Indices: 49462568--49462878 Score: 291
Period size: 30 Copynumber: 10.4 Consensus size: 30
49462558 AATGTGAGCT
* *
49462568 TTTGTGGCTA-TCTCTGTTGAATGGAAACC
1 TTTGTGGCTATTCTCTGTTAAATGGAAGCC
* *
49462597 TTTTTGGCTATTCTCCGTTAAATGGAAGCC
1 TTTGTGGCTATTCTCTGTTAAATGGAAGCC
* * * * *
49462627 TTTCTGGTTGTTCTCTATTAAATAGAAGCC
1 TTTGTGGCTATTCTCTGTTAAATGGAAGCC
** * * * * *
49462657 TTCCTGGTTGTTCTCTATTAGATGGAAGTC
1 TTTGTGGCTATTCTCTGTTAAATGGAAGCC
* * *
49462687 TTTGTGTCTATTCTTTGTTAGATGGAAGCC
1 TTTGTGGCTATTCTCTGTTAAATGGAAGCC
* * *
49462717 TTTGTGGCTATTCTCCGCTAAATAGAAGCC
1 TTTGTGGCTATTCTCTGTTAAATGGAAGCC
* * * *
49462747 TTTCTGGTTGTTCTCTATTAAATGGAAGCC
1 TTTGTGGCTATTCTCTGTTAAATGGAAGCC
** * * * * *
49462777 TTCCTGGTTGTTCTCTATTAGATGGAAGTC
1 TTTGTGGCTATTCTCTGTTAAATGGAAGCC
* * *
49462807 TTTGTGTCTATTCTTTGTTAGATGGAAGCC
1 TTTGTGGCTATTCTCTGTTAAATGGAAGCC
49462837 TTTGTGGCTATTCTCTGTTAAATGGAAGCC
1 TTTGTGGCTATTCTCTGTTAAATGGAAGCC
49462867 TTTGTGGCTATT
1 TTTGTGGCTATT
49462879 TTTGTAGAAT
Statistics
Matches: 232, Mismatches: 49, Indels: 1
0.82 0.17 0.00
Matches are distributed among these distances:
29 9 0.04
30 223 0.96
ACGTcount: A:0.19, C:0.17, G:0.22, T:0.42
Consensus pattern (30 bp):
TTTGTGGCTATTCTCTGTTAAATGGAAGCC
Found at i:49462725 original size:120 final size:120
Alignment explanation
Indices: 49462588--49462869 Score: 510
Period size: 120 Copynumber: 2.4 Consensus size: 120
49462578 TCTCTGTTGA
* *
49462588 ATGGAAACCTTTTTGGCTATTCTCCGTTAAATGGAAGCCTTTCTGGTTGTTCTCTATTAAATAGA
1 ATGGAAGCCTTTGTGGCTATTCTCCGTTAAATGGAAGCCTTTCTGGTTGTTCTCTATTAAATAGA
49462653 AGCCTTCCTGGTTGTTCTCTATTAGATGGAAGTCTTTGTGTCTATTCTTTGTTAG
66 AGCCTTCCTGGTTGTTCTCTATTAGATGGAAGTCTTTGTGTCTATTCTTTGTTAG
* * *
49462708 ATGGAAGCCTTTGTGGCTATTCTCCGCTAAATAGAAGCCTTTCTGGTTGTTCTCTATTAAATGGA
1 ATGGAAGCCTTTGTGGCTATTCTCCGTTAAATGGAAGCCTTTCTGGTTGTTCTCTATTAAATAGA
49462773 AGCCTTCCTGGTTGTTCTCTATTAGATGGAAGTCTTTGTGTCTATTCTTTGTTAG
66 AGCCTTCCTGGTTGTTCTCTATTAGATGGAAGTCTTTGTGTCTATTCTTTGTTAG
*
49462828 ATGGAAGCCTTTGTGGCTATTCTCTGTTAAATGGAAGCCTTT
1 ATGGAAGCCTTTGTGGCTATTCTCCGTTAAATGGAAGCCTTT
49462870 GTGGCTATTT
Statistics
Matches: 154, Mismatches: 8, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
120 154 1.00
ACGTcount: A:0.20, C:0.17, G:0.21, T:0.42
Consensus pattern (120 bp):
ATGGAAGCCTTTGTGGCTATTCTCCGTTAAATGGAAGCCTTTCTGGTTGTTCTCTATTAAATAGA
AGCCTTCCTGGTTGTTCTCTATTAGATGGAAGTCTTTGTGTCTATTCTTTGTTAG
Found at i:49465069 original size:29 final size:30
Alignment explanation
Indices: 49465032--49465256 Score: 244
Period size: 29 Copynumber: 7.7 Consensus size: 30
49465022 TTCACAAAGG
* *
49465032 TAGCCACAAGGGCATCC-TTTTATAGAGAA
1 TAGCCACAAGGGCATCCATTTAACAGAGAA
*
49465061 TAGCTACAAGGGCATCCATTTAACAGAGAA
1 TAGCCACAAGGGCATCCATTTAACAGAGAA
* * *
49465091 TAGCCACAAAGGCTTCCATTTAACAAAG-A
1 TAGCCACAAGGGCATCCATTTAACAGAGAA
* * * *
49465120 TAGCCCCAAAGGCACCCATTTAACATAGAA
1 TAGCCACAAGGGCATCCATTTAACAGAGAA
* * *
49465150 TAGCCTCAA-AGCATCCATTTAATAGAGAA
1 TAGCCACAAGGGCATCCATTTAACAGAGAA
* *
49465179 TAGCCACAA-GGCGTCCATTTAACAAAGAA
1 TAGCCACAAGGGCATCCATTTAACAGAGAA
* * *
49465208 TAGCCAAAAAGGCATCCATTTAACAGAG-G
1 TAGCCACAAGGGCATCCATTTAACAGAGAA
*
49465237 TAGCCACAAAGGCATCCATT
1 TAGCCACAAGGGCATCCATT
49465257 ACACATACAA
Statistics
Matches: 167, Mismatches: 26, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
29 108 0.65
30 59 0.35
ACGTcount: A:0.40, C:0.24, G:0.17, T:0.20
Consensus pattern (30 bp):
TAGCCACAAGGGCATCCATTTAACAGAGAA
Found at i:49465139 original size:59 final size:59
Alignment explanation
Indices: 49465013--49465256 Score: 273
Period size: 59 Copynumber: 4.2 Consensus size: 59
49465003 ATGGCTACAT
* * * * * *
49465013 AGGCATCCA-TTCACAAAG-GTAGCCACAAGGGCATCC-TTTTATAGAGAATAGCTACAA
1 AGGCATCCATTTAACAAAGAATAGCCACAAAGGCATCCATTTAACAGAG-ATAGCCACAA
* * * * *
49465070 GGGCATCCATTTAACAGAGAATAGCCACAAAGGCTTCCATTTAACAAAGATAGCCCCAA
1 AGGCATCCATTTAACAAAGAATAGCCACAAAGGCATCCATTTAACAGAGATAGCCACAA
* * * *
49465129 AGGCACCCATTTAACATAGAATAGCCTCAAA-GCATCCATTTAATAGAGAATAGCCAC-A
1 AGGCATCCATTTAACAAAGAATAGCCACAAAGGCATCCATTTAACAGAG-ATAGCCACAA
* * *
49465187 AGGCGTCCATTTAACAAAGAATAGCCAAAAAGGCATCCATTTAACAGAGGTAGCCACAA
1 AGGCATCCATTTAACAAAGAATAGCCACAAAGGCATCCATTTAACAGAGATAGCCACAA
49465246 AGGCATCCATT
1 AGGCATCCATT
49465257 ACACATACAA
Statistics
Matches: 154, Mismatches: 27, Indels: 10
0.81 0.14 0.05
Matches are distributed among these distances:
57 8 0.05
58 55 0.36
59 84 0.55
60 7 0.05
ACGTcount: A:0.39, C:0.24, G:0.17, T:0.20
Consensus pattern (59 bp):
AGGCATCCATTTAACAAAGAATAGCCACAAAGGCATCCATTTAACAGAGATAGCCACAA
Found at i:49465164 original size:88 final size:88
Alignment explanation
Indices: 49465055--49465256 Score: 273
Period size: 88 Copynumber: 2.3 Consensus size: 88
49465045 ATCCTTTTAT
* * *
49465055 AGAGAATAGCTACAAGGGCATCCATTTAACAGAGAATAGCCACAAAGGCTTCCATTTAACAAAG-
1 AGAG-ATAGCCACAAAGGCATCCATTTAACAGAGAATAGCCAC-AAGGCGTCCATTTAACAAAGA
**
49465119 ATAGCCCCAAAGGCACCCATTTAAC
64 ATAGCCAAAAAGGCACCCATTTAAC
* * *
49465144 ATAGAATAGCCTCAAA-GCATCCATTTAATAGAGAATAGCCACAAGGCGTCCATTTAACAAAGAA
1 AGAG-ATAGCCACAAAGGCATCCATTTAACAGAGAATAGCCACAAGGCGTCCATTTAACAAAGAA
*
49465208 TAGCCAAAAAGGCATCCATTTAAC
65 TAGCCAAAAAGGCACCCATTTAAC
*
49465232 AGAGGTAGCCACAAAGGCATCCATT
1 AGAGATAGCCACAAAGGCATCCATT
49465257 ACACATACAA
Statistics
Matches: 99, Mismatches: 12, Indels: 5
0.85 0.10 0.04
Matches are distributed among these distances:
87 28 0.28
88 59 0.60
89 12 0.12
ACGTcount: A:0.41, C:0.23, G:0.17, T:0.19
Consensus pattern (88 bp):
AGAGATAGCCACAAAGGCATCCATTTAACAGAGAATAGCCACAAGGCGTCCATTTAACAAAGAAT
AGCCAAAAAGGCACCCATTTAAC
Found at i:49472766 original size:14 final size:15
Alignment explanation
Indices: 49472735--49472767 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
49472725 CCTTAATTAA
*
49472735 AATTTATTTGAGCTT
1 AATTTATTTCAGCTT
49472750 AATTTATTTCA-CTT
1 AATTTATTTCAGCTT
49472764 AATT
1 AATT
49472768 AATACTAATC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 7 0.41
15 10 0.59
ACGTcount: A:0.30, C:0.09, G:0.06, T:0.55
Consensus pattern (15 bp):
AATTTATTTCAGCTT
Found at i:49474369 original size:51 final size:51
Alignment explanation
Indices: 49474287--49474412 Score: 128
Period size: 51 Copynumber: 2.5 Consensus size: 51
49474277 ATGTCGCATG
* ** * * *
49474287 TGTAGTACTATGTGTAGTTTACTATGCGTATCAGATAGT-TTCGATCACGTC
1 TGTAGTACTATGTGCAGGCTACTACGCGTATCAGATAGTAAT-GATCACATC
* * * * * *
49474338 TGTAGTACTATATGCAGGCTACTACGTGTATCGGATGGTAATGGTCACATG
1 TGTAGTACTATGTGCAGGCTACTACGCGTATCAGATAGTAATGATCACATC
49474389 TGTAGTACTATGTGCAGGCTACTA
1 TGTAGTACTATGTGCAGGCTACTA
49474413 TGTGAACCGA
Statistics
Matches: 61, Mismatches: 13, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
51 60 0.98
52 1 0.02
ACGTcount: A:0.25, C:0.16, G:0.25, T:0.35
Consensus pattern (51 bp):
TGTAGTACTATGTGCAGGCTACTACGCGTATCAGATAGTAATGATCACATC
Found at i:49474474 original size:45 final size:45
Alignment explanation
Indices: 49474418--49474512 Score: 163
Period size: 45 Copynumber: 2.1 Consensus size: 45
49474408 TACTATGTGA
* *
49474418 ACCGAACATCATTGATTAGTAAGGTGGTTGCTATGTGCTGATTCC
1 ACCGAACATCATTGATTAATAAGGTGGTTGCTATGTGCTGAATCC
*
49474463 ACCGGACATCATTGATTAATAAGGTGGTTGCTATGTGCTGAATCC
1 ACCGAACATCATTGATTAATAAGGTGGTTGCTATGTGCTGAATCC
49474508 ACCGA
1 ACCGA
49474513 GTATCTGTTA
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
45 46 1.00
ACGTcount: A:0.26, C:0.19, G:0.24, T:0.31
Consensus pattern (45 bp):
ACCGAACATCATTGATTAATAAGGTGGTTGCTATGTGCTGAATCC
Found at i:49478858 original size:21 final size:21
Alignment explanation
Indices: 49478834--49478874 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
49478824 ATATGTGAAA
*
49478834 AATTCACATATGCTATGAATG
1 AATTCACATATGCCATGAATG
* *
49478855 AATTTACCTATGCCATGAAT
1 AATTCACATATGCCATGAAT
49478875 AAATACACTA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.37, C:0.17, G:0.12, T:0.34
Consensus pattern (21 bp):
AATTCACATATGCCATGAATG
Found at i:49482580 original size:16 final size:17
Alignment explanation
Indices: 49482543--49482579 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
49482533 AAACTGAATC
* *
49482543 TTTTCGATTTATTTAAT
1 TTTTCGATTTAATCAAT
49482560 TTTTCGATTTAATCAAT
1 TTTTCGATTTAATCAAT
49482577 TTT
1 TTT
49482580 CATATTCAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.24, C:0.08, G:0.05, T:0.62
Consensus pattern (17 bp):
TTTTCGATTTAATCAAT
Found at i:49482781 original size:24 final size:24
Alignment explanation
Indices: 49482749--49482796 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 24
49482739 ATAAGTCTAA
*
49482749 ACCCATTAA-AGTTTAAAATCCAAT
1 ACCCATTAATA-TTTAAAACCCAAT
49482773 ACCCATTAATATTTAAAACCCAAT
1 ACCCATTAATATTTAAAACCCAAT
49482797 TTGATCATTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 21 0.95
25 1 0.05
ACGTcount: A:0.46, C:0.23, G:0.02, T:0.29
Consensus pattern (24 bp):
ACCCATTAATATTTAAAACCCAAT
Found at i:49485562 original size:14 final size:14
Alignment explanation
Indices: 49485545--49485573 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
49485535 AACACAAAGC
49485545 AAACACTACAAACT
1 AAACACTACAAACT
49485559 AAACACTACAAACT
1 AAACACTACAAACT
49485573 A
1 A
49485574 GAGAAAGTCA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.59, C:0.28, G:0.00, T:0.14
Consensus pattern (14 bp):
AAACACTACAAACT
Found at i:49488523 original size:23 final size:22
Alignment explanation
Indices: 49488480--49488523 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 22
49488470 TTCTAAGCTG
49488480 ATATTCAATTCAATTCCACACCT
1 ATATTCAATTCAATT-CACACCT
49488503 ATATTCATTATTCAATT-ACAC
1 ATATTCA--ATTCAATTCACAC
49488524 TTAGTCAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
23 11 0.58
25 8 0.42
ACGTcount: A:0.36, C:0.25, G:0.00, T:0.39
Consensus pattern (22 bp):
ATATTCAATTCAATTCACACCT
Found at i:49488725 original size:51 final size:50
Alignment explanation
Indices: 49488657--49488853 Score: 218
Period size: 51 Copynumber: 3.9 Consensus size: 50
49488647 TCAATGATGT
* * *
49488657 TCGGTTCACATAGTAGCCTGCACATAGTACTACACATGTGACCATTACCA
1 TCGGTACACGTAGTAGCCTGCACATAGTACTACACATGTGACCATTACTA
* * * *
49488707 TCTGATACACGTAGTAGCCTGCACATAGTACTACACACGTGATCGA-AACTA
1 TC-GGTACACGTAGTAGCCTGCACATAGTACTACACATGTGA-CCATTACTA
*** * * *
49488758 TCCGGTACGTATAGTAGCCTACACATAGTACTACACATGCGACCTATTA-TT
1 T-CGGTACACGTAGTAGCCTGCACATAGTACTACACATGTGACC-ATTACTA
*
49488809 TCGGTACACGTAGTAGCCTGCACATAGTACTACACATATGACCAT
1 TCGGTACACGTAGTAGCCTGCACATAGTACTACACATGTGACCAT
49488854 CACTTTTACT
Statistics
Matches: 119, Mismatches: 23, Indels: 11
0.78 0.15 0.07
Matches are distributed among these distances:
49 2 0.02
50 39 0.33
51 74 0.62
52 4 0.03
ACGTcount: A:0.31, C:0.26, G:0.17, T:0.26
Consensus pattern (50 bp):
TCGGTACACGTAGTAGCCTGCACATAGTACTACACATGTGACCATTACTA
Found at i:49488881 original size:101 final size:102
Alignment explanation
Indices: 49488665--49488849 Score: 257
Period size: 101 Copynumber: 1.8 Consensus size: 102
49488655 GTTCGGTTCA
* *
49488665 CATAGTAGCCTGCACATAGTACTACACATGTGACCATTACCATCTGATACACGTAGTAGCCTGCA
1 CATAGTAGCCTACACATAGTACTACACATGCGACCATTACCATCTGATACACGTAGTAGCCTGCA
* * *
49488730 CATAGTACTACACACGTGATCGAAACTATCCGGTACG
66 CATAGTACTACACACATGATCCAAACTATACGGTACG
* ** *
49488767 TATAGTAGCCTACACATAGTACTACACATGCGACCTATTA-TTTC-GGTACACGTAGTAGCCTGC
1 CATAGTAGCCTACACATAGTACTACACATGCGACC-ATTACCATCTGATACACGTAGTAGCCTGC
*
49488830 ACATAGTACTACACATATGA
65 ACATAGTACTACACACATGA
49488850 CCATCACTTT
Statistics
Matches: 74, Mismatches: 8, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
101 36 0.49
102 34 0.46
103 4 0.05
ACGTcount: A:0.32, C:0.26, G:0.17, T:0.25
Consensus pattern (102 bp):
CATAGTAGCCTACACATAGTACTACACATGCGACCATTACCATCTGATACACGTAGTAGCCTGCA
CATAGTACTACACACATGATCCAAACTATACGGTACG
Found at i:49499045 original size:5 final size:5
Alignment explanation
Indices: 49499028--49499059 Score: 55
Period size: 5 Copynumber: 6.2 Consensus size: 5
49499018 AAAAATATGG
49499028 GGCCC GAGCCC GGCCC GGCCC GGCCC GGCCC G
1 GGCCC G-GCCC GGCCC GGCCC GGCCC GGCCC G
49499060 TTTTTAATTA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
5 21 0.81
6 5 0.19
ACGTcount: A:0.03, C:0.56, G:0.41, T:0.00
Consensus pattern (5 bp):
GGCCC
Found at i:49499140 original size:16 final size:16
Alignment explanation
Indices: 49499103--49499142 Score: 62
Period size: 16 Copynumber: 2.5 Consensus size: 16
49499093 TAAATAAAAT
* *
49499103 TAAAACTAATTGTTAT
1 TAAAATTAATTGTTAG
49499119 TAAAATTAATTGTTAG
1 TAAAATTAATTGTTAG
49499135 TAAAATTA
1 TAAAATTA
49499143 TCAAATTATT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.47, C:0.03, G:0.07, T:0.42
Consensus pattern (16 bp):
TAAAATTAATTGTTAG
Found at i:49499221 original size:59 final size:59
Alignment explanation
Indices: 49499153--49499292 Score: 271
Period size: 59 Copynumber: 2.4 Consensus size: 59
49499143 TCAAATTATT
*
49499153 AATTGTTAATTGTATTAATTGTTGTAATAAAATCTAACATTTGATTAGTAAATTTATCA
1 AATTATTAATTGTATTAATTGTTGTAATAAAATCTAACATTTGATTAGTAAATTTATCA
49499212 AATTATTAATTGTATTAATTGTTGTAATAAAATCTAACATTTGATTAGTAAATTTATCA
1 AATTATTAATTGTATTAATTGTTGTAATAAAATCTAACATTTGATTAGTAAATTTATCA
49499271 AATTATTAATTGTATTAATTGT
1 AATTATTAATTGTATTAATTGT
49499293 ATTAATTGTT
Statistics
Matches: 80, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
59 80 1.00
ACGTcount: A:0.39, C:0.04, G:0.09, T:0.47
Consensus pattern (59 bp):
AATTATTAATTGTATTAATTGTTGTAATAAAATCTAACATTTGATTAGTAAATTTATCA
Found at i:49499286 original size:9 final size:9
Alignment explanation
Indices: 49499274--49499301 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
49499264 TTTATCAAAT
49499274 TATTAATTG
1 TATTAATTG
49499283 TATTAATTG
1 TATTAATTG
49499292 TATTAATTG
1 TATTAATTG
49499301 T
1 T
49499302 TGTAACAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.32, C:0.00, G:0.11, T:0.57
Consensus pattern (9 bp):
TATTAATTG
Found at i:49499440 original size:24 final size:25
Alignment explanation
Indices: 49499398--49499447 Score: 68
Period size: 24 Copynumber: 2.0 Consensus size: 25
49499388 AAATAAACTT
*
49499398 AAAATAAAAAACTATTATAT-TTTA
1 AAAATAAAAAAATATTATATATTTA
49499422 AAAATAAAAAAA-ATATATATATTTA
1 AAAATAAAAAAATAT-TATATATTTA
49499447 A
1 A
49499448 TATTTTTCGG
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
23 2 0.09
24 16 0.70
25 5 0.22
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (25 bp):
AAAATAAAAAAATATTATATATTTA
Found at i:49499447 original size:25 final size:24
Alignment explanation
Indices: 49499398--49499445 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 24
49499388 AAATAAACTT
*
49499398 AAAATAAAAAACTATTATATTTTA
1 AAAATAAAAAAATATTATATTTTA
49499422 AAAATAAAAAAAATATATATATTT
1 AAAAT-AAAAAAATAT-TATATTT
49499446 AATATTTTTC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 5 0.24
25 9 0.43
26 7 0.33
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.35
Consensus pattern (24 bp):
AAAATAAAAAAATATTATATTTTA
Found at i:49508061 original size:20 final size:19
Alignment explanation
Indices: 49508014--49508101 Score: 62
Period size: 17 Copynumber: 4.8 Consensus size: 19
49508004 CAAGATAAAC
49508014 ATTAAATTAA--ATTTAAT
1 ATTAAATTAATTATTTAAT
49508031 ATTAAGA-TAATTACTTTAAT
1 ATTAA-ATTAATTA-TTTAAT
** *
49508051 ATTAAATTAATTAAATACT
1 ATTAAATTAATTATTTAAT
*
49508070 ATTAAGA-TAAATA-TTAA-
1 ATTAA-ATTAATTATTTAAT
*
49508087 ATTAAATTAAATATT
1 ATTAAATTAATTATT
49508102 AAATCTATTA
Statistics
Matches: 57, Mismatches: 6, Indels: 15
0.73 0.08 0.19
Matches are distributed among these distances:
16 1 0.02
17 19 0.33
18 4 0.07
19 15 0.26
20 18 0.32
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.43
Consensus pattern (19 bp):
ATTAAATTAATTATTTAAT
Found at i:49508078 original size:39 final size:37
Alignment explanation
Indices: 49508014--49508122 Score: 104
Period size: 39 Copynumber: 3.0 Consensus size: 37
49508004 CAAGATAAAC
*
49508014 ATTAAATTAA-ATTTAA--TATTAAGATAATTACTTTAA
1 ATTAAATTAATATTAAATCTATTAAGATAATTA--TTAA
*
49508050 TATTAAATT-A-ATTAAATACTATTAAGATAAATATTAA
1 -ATTAAATTAATATTAAAT-CTATTAAGATAATTATTAA
*
49508087 ATTAAATTAAATATTAAATCTATTAAAATAA-TATTA
1 ATTAAATT-AATATTAAATCTATTAAGATAATTATTA
49508123 TTTTTAAAAT
Statistics
Matches: 63, Mismatches: 3, Indels: 12
0.81 0.04 0.15
Matches are distributed among these distances:
36 14 0.22
37 17 0.27
38 12 0.19
39 20 0.32
ACGTcount: A:0.53, C:0.03, G:0.02, T:0.42
Consensus pattern (37 bp):
ATTAAATTAATATTAAATCTATTAAGATAATTATTAA
Found at i:49508116 original size:17 final size:16
Alignment explanation
Indices: 49508048--49508105 Score: 66
Period size: 17 Copynumber: 3.6 Consensus size: 16
49508038 TAATTACTTT
49508048 AATATTAAATTAATTA
1 AATATTAAATTAATTA
* *
49508064 AATACT--ATTAAGATA
1 AATATTAAATTAA-TTA
49508079 AATATTAAATTAAATTA
1 AATATTAAATT-AATTA
49508096 AATATTAAAT
1 AATATTAAAT
49508106 CTATTAAAAT
Statistics
Matches: 34, Mismatches: 4, Indels: 7
0.76 0.09 0.16
Matches are distributed among these distances:
14 5 0.15
15 7 0.21
16 5 0.15
17 15 0.44
18 2 0.06
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.40
Consensus pattern (16 bp):
AATATTAAATTAATTA
Done.