Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A10
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: 111961792
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4980000 characters in sequence are not A, C, G, or T
File 197 of 344
Found at i:65719996 original size:152 final size:152
Alignment explanation
Indices: 65719720--65720014 Score: 590
Period size: 152 Copynumber: 1.9 Consensus size: 152
65719710 TTTAGAACTA
65719720 TTATTGTACTCTATAATCGTAACTATATAAAAAACACATCATGCAATATTCATTCCATTTTTTCT
1 TTATTGTACTCTATAATCGTAACTATATAAAAAACACATCATGCAATATTCATTCCATTTTTTCT
65719785 ATCATTGAGTTCAACATGAGCATACATATTCGTTTCATAATAACCTTCATTTACTAGCATGGATT
66 ATCATTGAGTTCAACATGAGCATACATATTCGTTTCATAATAACCTTCATTTACTAGCATGGATT
65719850 AATTTGGTAATGGATTAATTTG
131 AATTTGGTAATGGATTAATTTG
65719872 TTATTGTACTCTATAATCGTAACTATATAAAAAACACATCATGCAATATTCATTCCATTTTTTCT
1 TTATTGTACTCTATAATCGTAACTATATAAAAAACACATCATGCAATATTCATTCCATTTTTTCT
65719937 ATCATTGAGTTCAACATGAGCATACATATTCGTTTCATAATAACCTTCATTTACTAGCATGGATT
66 ATCATTGAGTTCAACATGAGCATACATATTCGTTTCATAATAACCTTCATTTACTAGCATGGATT
65720002 AATTTGGTAATGG
131 AATTTGGTAATGG
65720015 CACCCAGTGC
Statistics
Matches: 143, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
152 143 1.00
ACGTcount: A:0.34, C:0.16, G:0.11, T:0.40
Consensus pattern (152 bp):
TTATTGTACTCTATAATCGTAACTATATAAAAAACACATCATGCAATATTCATTCCATTTTTTCT
ATCATTGAGTTCAACATGAGCATACATATTCGTTTCATAATAACCTTCATTTACTAGCATGGATT
AATTTGGTAATGGATTAATTTG
Found at i:65720183 original size:40 final size:40
Alignment explanation
Indices: 65720069--65720190 Score: 117
Period size: 40 Copynumber: 3.1 Consensus size: 40
65720059 GCCCTAGTTA
* * *
65720069 GATAAACCAACGGTATCAAATGTGTGCCCAACACTAGTCA
1 GATAAACCAACGATATTAAATGTGTGCCCAACACTAGTCG
* * * * ***
65720109 GATAAAGCAAC-A-A-TGAGT-TGGGCCCAGTGCTAGTCG
1 GATAAACCAACGATATTAAATGTGTGCCCAACACTAGTCG
*
65720145 GATAAACCAACGATATTAAATGTGTGCTCAACACTAGTCG
1 GATAAACCAACGATATTAAATGTGTGCCCAACACTAGTCG
65720185 GATAAA
1 GATAAA
65720191 TAAACAATCA
Statistics
Matches: 60, Mismatches: 18, Indels: 8
0.70 0.21 0.09
Matches are distributed among these distances:
36 23 0.38
37 3 0.05
38 2 0.03
39 3 0.05
40 29 0.48
ACGTcount: A:0.37, C:0.20, G:0.21, T:0.21
Consensus pattern (40 bp):
GATAAACCAACGATATTAAATGTGTGCCCAACACTAGTCG
Found at i:65720210 original size:76 final size:74
Alignment explanation
Indices: 65720069--65720315 Score: 235
Period size: 76 Copynumber: 3.3 Consensus size: 74
65720059 GCCCTAGTTA
* * * * **
65720069 GATAAACCAACGGTATCAAATGTGTGCCCAACACTAGTCAGATAAAGCAACAATGAGTTGGGCCC
1 GATAAACCAACGATATCAAATGTGTG-CCAACACTAGTCGGATAAACCAACAATCA-TTTCGCCC
*
65720134 AGTGCTAGTCG
64 AGCGCTAGTCG
* **
65720145 GATAAACCAACGATATTAAATGTGTGCTCAACACTAGTCGGATAAATAAACAATCATTTCTGCCC
1 GATAAACCAACGATATCAAATGTGTGC-CAACACTAGTCGGATAAACCAACAATCATTTC-GCCC
*
65720210 AGCACTAGTCAG
64 AGCGCTAGTC-G
** * * * * * * *
65720222 G-TAAACTGATGATATCAGATGTGTGCCTAGCACTAGTTGGATATACCAACAAACATTTACGTCC
1 GATAAACCAACGATATCAAATGTGTGCC-AACACTAGTCGGATAAACCAACAATCATTT-CGCCC
65720286 AGCGCTAGTCG
64 AGCGCTAGTCG
*
65720297 AATAAACCAACGATATCAA
1 GATAAACCAACGATATCAA
65720316 GCATCATTTG
Statistics
Matches: 137, Mismatches: 28, Indels: 12
0.77 0.16 0.07
Matches are distributed among these distances:
75 5 0.04
76 129 0.94
77 3 0.02
ACGTcount: A:0.36, C:0.22, G:0.19, T:0.23
Consensus pattern (74 bp):
GATAAACCAACGATATCAAATGTGTGCCAACACTAGTCGGATAAACCAACAATCATTTCGCCCAG
CGCTAGTCG
Found at i:65727489 original size:38 final size:39
Alignment explanation
Indices: 65727428--65727525 Score: 117
Period size: 38 Copynumber: 2.5 Consensus size: 39
65727418 ATCGTGATCT
* * * *
65727428 GAAGCCCGAAGTCTAGCTAAAGCACATAAGTGC-AAACG
1 GAAGCCCGAAGGCTAACTAAAGCACACAAGTCCTAAACG
* *
65727466 GAAGCCCGAAGGCTAATTGAAGCACACAAGTCCTAAACG
1 GAAGCCCGAAGGCTAACTAAAGCACACAAGTCCTAAACG
* *
65727505 AAAGCCAGAAGGCTAACTAAA
1 GAAGCCCGAAGGCTAACTAAA
65727526 TCTCATCAGA
Statistics
Matches: 49, Mismatches: 10, Indels: 1
0.82 0.17 0.02
Matches are distributed among these distances:
38 27 0.55
39 22 0.45
ACGTcount: A:0.42, C:0.23, G:0.22, T:0.12
Consensus pattern (39 bp):
GAAGCCCGAAGGCTAACTAAAGCACACAAGTCCTAAACG
Found at i:65727516 original size:39 final size:38
Alignment explanation
Indices: 65727447--65727520 Score: 103
Period size: 39 Copynumber: 1.9 Consensus size: 38
65727437 AGTCTAGCTA
* * * *
65727447 AAGCACATAAGTGCAAACGGAAGCCCGAAGGCTAATTG
1 AAGCACACAAGTCCAAACGAAAGCCAGAAGGCTAATTG
65727485 AAGCACACAAGTCCTAAACGAAAGCCAGAAGGCTAA
1 AAGCACACAAGTCC-AAACGAAAGCCAGAAGGCTAA
65727521 CTAAATCTCA
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
38 12 0.39
39 19 0.61
ACGTcount: A:0.43, C:0.23, G:0.23, T:0.11
Consensus pattern (38 bp):
AAGCACACAAGTCCAAACGAAAGCCAGAAGGCTAATTG
Found at i:65730819 original size:49 final size:49
Alignment explanation
Indices: 65730734--65731264 Score: 818
Period size: 47 Copynumber: 10.9 Consensus size: 49
65730724 TAGTATGGCG
65730734 TAAT-GCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCC
65730780 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGTGATAAGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTG--TATATA--T-AT---GTGATAAGGCC
*
65730837 TAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCC
65730886 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCC
65730935 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCC
65730984 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCC
65731033 TAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCC
65731080 TAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCC
*
65731127 TAATAGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCC
* *
65731174 TAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGACAGGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCC
* * * * *
65731221 GAGTGGCCAACGTGATGGATGTGAAAGTGTATA-A-ATGTGATAAG
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAG
65731265 TCCCGAAGGG
Statistics
Matches: 459, Mismatches: 13, Indels: 25
0.92 0.03 0.05
Matches are distributed among these distances:
46 4 0.01
47 211 0.46
48 1 0.00
49 188 0.41
51 4 0.01
52 2 0.00
53 2 0.00
54 2 0.00
55 6 0.01
57 39 0.08
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.30
Consensus pattern (49 bp):
TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCC
Found at i:65730879 original size:27 final size:27
Alignment explanation
Indices: 65730789--65730879 Score: 82
Period size: 27 Copynumber: 3.3 Consensus size: 27
65730779 CTAATGGCCG
65730789 ATGTGATGAATGTGAAAGTGTATATAT
1 ATGTGATGAATGTGAAAGTGTATATAT
*
65730816 ATGTGAT-AAGGTGATAAG-GCCTA-ATGGCCA-
1 ATGTGATGAATGTGA-AAGTG--TATAT----AT
65730846 ATGTGATGAATGTGAAAGTGTATATAT
1 ATGTGATGAATGTGAAAGTGTATATAT
65730873 ATGTGAT
1 ATGTGAT
65730880 AAGGCCTAAT
Statistics
Matches: 51, Mismatches: 2, Indels: 22
0.68 0.03 0.29
Matches are distributed among these distances:
26 8 0.16
27 19 0.37
28 2 0.04
29 2 0.04
30 12 0.24
31 8 0.16
ACGTcount: A:0.35, C:0.04, G:0.27, T:0.33
Consensus pattern (27 bp):
ATGTGATGAATGTGAAAGTGTATATAT
Found at i:65731439 original size:37 final size:37
Alignment explanation
Indices: 65731383--65731461 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
65731373 CCGAGCTCTA
* * *
65731383 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
65731420 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
65731457 AAGAC
1 AAGAC
65731462 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:65744801 original size:47 final size:45
Alignment explanation
Indices: 65744733--65744881 Score: 120
Period size: 46 Copynumber: 3.2 Consensus size: 45
65744723 CCTAGACACA
* * * *
65744733 GTCTTACACTAGCTCATATCTC-AAGTCAATGCCATGTTCCAGGCAT
1 GTCTTACACT-GATCATATCTCGAAGCCAATG-CATGTCCCAGACAT
* * *
65744779 GGTCTTACACTGATTATCATCTCGTAGCCGATGCATGTCCCAGACAT
1 -GTCTTACACTGATCAT-ATCTCGAAGCCAATGCATGTCCCAGACAT
* * * *** *
65744826 GTCTTACACTGGCTTACATCTCGAAGTTGATGCATGTCCCATACAT
1 GTCTTACACT-GATCATATCTCGAAGCCAATGCATGTCCCAGACAT
65744872 GTCTTACACT
1 GTCTTACACT
65744882 AGCCCTCGTC
Statistics
Matches: 86, Mismatches: 13, Indels: 7
0.81 0.12 0.07
Matches are distributed among these distances:
46 49 0.57
47 31 0.36
48 6 0.07
ACGTcount: A:0.24, C:0.28, G:0.17, T:0.32
Consensus pattern (45 bp):
GTCTTACACTGATCATATCTCGAAGCCAATGCATGTCCCAGACAT
Found at i:65744836 original size:46 final size:46
Alignment explanation
Indices: 65744765--65744881 Score: 146
Period size: 46 Copynumber: 2.5 Consensus size: 46
65744755 AAGTCAATGC
* * *
65744765 CATGTTCCAGGCATGGTCTTACACT-GATTATCATCTCGTAGCCGATG
1 CATGTCCCAGACAT-GTCTTACACTGGATTA-CATCTCGAAGCCGATG
* **
65744812 CATGTCCCAGACATGTCTTACACTGGCTTACATCTCGAAGTTGATG
1 CATGTCCCAGACATGTCTTACACTGGATTACATCTCGAAGCCGATG
*
65744858 CATGTCCCATACATGTCTTACACT
1 CATGTCCCAGACATGTCTTACACT
65744882 AGCCCTCGTC
Statistics
Matches: 62, Mismatches: 7, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
46 46 0.74
47 16 0.26
ACGTcount: A:0.23, C:0.27, G:0.18, T:0.32
Consensus pattern (46 bp):
CATGTCCCAGACATGTCTTACACTGGATTACATCTCGAAGCCGATG
Found at i:65744904 original size:46 final size:44
Alignment explanation
Indices: 65744805--65744975 Score: 132
Period size: 46 Copynumber: 3.7 Consensus size: 44
65744795 TCATCTCGTA
* *
65744805 GCCGATGCATGTCCCAGACATGTCTTACACTGGCTTACATCTCGAA-
1 GCCGATGCATGTCCCAGACATGTCTTACACTGCCCT-C-TCTC-AAT
** *
65744851 GTTGATGCATGTCCCATACATGTCTTACACTAGCCCTCGTCTCAAT
1 GCCGATGCATGTCCCAGACATGTCTTACACT-GCCCTC-TCTCAAT
* * * *
65744897 GCCGATGCCATGTGCTAAACATGGTCTTACACTG-GCTCTCAT-AATGT
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTGCCCTCTC-TCAA--T
*
65744944 GGCCGATGCATGTCCCAGATATGTCTTACACT
1 -GCCGATGCATGTCCCAGACATGTCTTACACT
65744976 AGCTCACACA
Statistics
Matches: 101, Mismatches: 16, Indels: 16
0.76 0.12 0.12
Matches are distributed among these distances:
45 6 0.06
46 52 0.51
47 26 0.26
48 17 0.17
ACGTcount: A:0.23, C:0.29, G:0.19, T:0.29
Consensus pattern (44 bp):
GCCGATGCATGTCCCAGACATGTCTTACACTGCCCTCTCTCAAT
Found at i:65747679 original size:27 final size:26
Alignment explanation
Indices: 65747631--65747690 Score: 75
Period size: 27 Copynumber: 2.3 Consensus size: 26
65747621 GCGAAGCTGC
*
65747631 CAGATATTGTGACGAAGTCACCAGATA
1 CAGATATTGTGACGAAGCCACCAGA-A
* * *
65747658 CAGATATTGTGGCTAGGCCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
65747684 CAGATAT
1 CAGATAT
65747691 ATATATGTGG
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 8 0.28
27 21 0.72
ACGTcount: A:0.35, C:0.20, G:0.23, T:0.22
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:65747735 original size:71 final size:67
Alignment explanation
Indices: 65747658--65747799 Score: 185
Period size: 67 Copynumber: 2.1 Consensus size: 67
65747648 TCACCAGATA
* * * *
65747658 CAGATATTGTGGCTAGGCCACCAGAACAGATATATATATGTGGCAAAGCCATCAGATTGCAGCGA
1 CAGATATTGTGACGAAGCCACCAGAACAG----ATATATGTGGCAAAGCCACCAGATTGCAGCGA
65747723 GGCTGC
62 GGCTGC
* * *
65747729 CAGATATTGTGACGAAGTCACCAGAACAGATATATGTGGCGAGGCCACCAGATTGCAGCGAGGCT
1 CAGATATTGTGACGAAGCCACCAGAACAGATATATGTGGCAAAGCCACCAGATTGCAGCGAGGCT
65747794 GC
66 GC
65747796 CAGA
1 CAGA
65747800 ATGCTTCCTC
Statistics
Matches: 64, Mismatches: 7, Indels: 4
0.85 0.09 0.05
Matches are distributed among these distances:
67 39 0.61
71 25 0.39
ACGTcount: A:0.31, C:0.22, G:0.28, T:0.19
Consensus pattern (67 bp):
CAGATATTGTGACGAAGCCACCAGAACAGATATATGTGGCAAAGCCACCAGATTGCAGCGAGGCT
GC
Found at i:65747777 original size:27 final size:26
Alignment explanation
Indices: 65747729--65747780 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
65747719 GCGAGGCTGC
*
65747729 CAGATATTGTGACGAAGTCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
* *
65747755 CAGATATATGTGGCGAGGCCACCAGA
1 CAGATAT-TGTGACGAAGCCACCAGA
65747781 TTGCAGCGAG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.35, C:0.21, G:0.27, T:0.17
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:65748404 original size:26 final size:26
Alignment explanation
Indices: 65748375--65748438 Score: 74
Period size: 27 Copynumber: 2.4 Consensus size: 26
65748365 TCACACAAGT
*
65748375 TAGTCATTTACGCACGAGGGGCAAAA
1 TAGTCATTTACACACGAGGGGCAAAA
* *
65748401 TAGTCATTTAACACCCTAGGGGCAAAA
1 TAGTCATTT-ACACACGAGGGGCAAAA
* *
65748428 TGGTAATTTAC
1 TAGTCATTTAC
65748439 CCCATAAGGG
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
26 11 0.34
27 21 0.66
ACGTcount: A:0.34, C:0.19, G:0.22, T:0.25
Consensus pattern (26 bp):
TAGTCATTTACACACGAGGGGCAAAA
Found at i:65748466 original size:27 final size:27
Alignment explanation
Indices: 65748429--65748546 Score: 148
Period size: 27 Copynumber: 4.4 Consensus size: 27
65748419 GGGGCAAAAT
* *
65748429 GGTAATT-TACCCCATAAGGGTATCTC
1 GGTAATTCTACCCTATAAGGGTATTTC
* *
65748455 AGTAATTCTACCCTATAGGGGTATTTC
1 GGTAATTCTACCCTATAAGGGTATTTC
* * *
65748482 GATATTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTATAAGGGTATTTC
* *
65748509 GGTAATTCTACCTTATAGGGGTATTTC
1 GGTAATTCTACCCTATAAGGGTATTTC
65748536 GGTAATTCTAC
1 GGTAATTCTAC
65748547 AACTTATCCA
Statistics
Matches: 77, Mismatches: 14, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
26 6 0.08
27 71 0.92
ACGTcount: A:0.25, C:0.19, G:0.19, T:0.36
Consensus pattern (27 bp):
GGTAATTCTACCCTATAAGGGTATTTC
Found at i:65761684 original size:28 final size:26
Alignment explanation
Indices: 65761626--65761738 Score: 109
Period size: 27 Copynumber: 4.2 Consensus size: 26
65761616 AGCATGGCTG
* *
65761626 CCAGAACAGATAATGTGACAGAGTCA
1 CCAGAACAGATAATGTGGCAGAGCCA
*
65761652 TCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGA-ACAGATAAT-GTGGCAGAGCCA
*
65761680 CCAGAACAGATATATGTGGCAGAACCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
* * * *
65761707 ACAGATCAGATAATTTGTGGCATAGCTA
1 CCAGAACAGATAA--TGTGGCAGAGCCA
65761735 CCAG
1 CCAG
65761739 GACGCTTCCT
Statistics
Matches: 71, Mismatches: 11, Indels: 8
0.79 0.12 0.09
Matches are distributed among these distances:
26 5 0.07
27 37 0.52
28 29 0.41
ACGTcount: A:0.38, C:0.20, G:0.23, T:0.19
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:65761738 original size:55 final size:54
Alignment explanation
Indices: 65761617--65761738 Score: 138
Period size: 55 Copynumber: 2.2 Consensus size: 54
65761607 GAAATATGCA
* * ** *
65761617 GCATGGCTGCCAGAACAGATAATGTGACAGAGTCATCAGATACAGATAATCGTG
1 GCATAGCTACCAGAACAGATAATGTGACAGAACCAACAGATACAGATAATCGTG
* * * *
65761671 GCAGAGCCACCAGAACAGATATATGTGGCAGAACCAACAGAT-CAGATAATTTGTG
1 GCATAGCTACCAGAACAGATA-ATGTGACAGAACCAACAGATACAGATAA-TCGTG
65761726 GCATAGCTACCAG
1 GCATAGCTACCAG
65761739 GACGCTTCCT
Statistics
Matches: 55, Mismatches: 11, Indels: 3
0.80 0.16 0.04
Matches are distributed among these distances:
54 24 0.44
55 31 0.56
ACGTcount: A:0.36, C:0.20, G:0.25, T:0.19
Consensus pattern (54 bp):
GCATAGCTACCAGAACAGATAATGTGACAGAACCAACAGATACAGATAATCGTG
Found at i:65762194 original size:16 final size:16
Alignment explanation
Indices: 65762155--65762203 Score: 64
Period size: 16 Copynumber: 3.1 Consensus size: 16
65762145 CACCAAAATA
*
65762155 TCGACTTTTCGGCATT
1 TCGACTTTTCGGCTTT
65762171 TC-AGCTTTTCGGCTTT
1 TCGA-CTTTTCGGCTTT
*
65762187 TCGACTTTTCAGCTTT
1 TCGACTTTTCGGCTTT
65762203 T
1 T
65762204 GTCGATCTAG
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
15 1 0.03
16 27 0.93
17 1 0.03
ACGTcount: A:0.10, C:0.24, G:0.16, T:0.49
Consensus pattern (16 bp):
TCGACTTTTCGGCTTT
Found at i:65764758 original size:40 final size:40
Alignment explanation
Indices: 65764714--65764901 Score: 295
Period size: 40 Copynumber: 4.7 Consensus size: 40
65764704 AACCAGCACA
*
65764714 AATGCTTTCGGGACTTAACCCGGTTATAATAACCCACACG
1 AATGCCTTCGGGACTTAACCCGGTTATAATAACCCACACG
65764754 AATGCCTTCGGGACTTAACCCGGTTATAATAACCCACACG
1 AATGCCTTCGGGACTTAACCCGGTTATAATAACCCACACG
** *
65764794 AATGCCTTCGGGACTTAACCCGGTTATAATAACCCGTATG
1 AATGCCTTCGGGACTTAACCCGGTTATAATAACCCACACG
* * * *
65764834 AATGCCTTTGGAACTTAACCCGGTTATAGTAACCCGCACG
1 AATGCCTTCGGGACTTAACCCGGTTATAATAACCCACACG
*
65764874 AATGCCTTCGGGACTTAACCCGGCTATA
1 AATGCCTTCGGGACTTAACCCGGTTATA
65764902 TTTTTTTCCA
Statistics
Matches: 136, Mismatches: 12, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 136 1.00
ACGTcount: A:0.28, C:0.28, G:0.19, T:0.25
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGTTATAATAACCCACACG
Found at i:65772702 original size:27 final size:26
Alignment explanation
Indices: 65772665--65772777 Score: 145
Period size: 27 Copynumber: 4.2 Consensus size: 26
65772655 AGCATGGCTG
* *
65772665 CCAGAACAGATAATGTGACAGAGTCA
1 CCAGAACAGATAATGTGGCAGAGCCA
65772691 CCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGA-ACAGATAAT-GTGGCAGAGCCA
*
65772719 CTAGAACAGATATATGTGGCAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
*
65772746 CCAGATCAGATAATTTGTGGCAGAGCCA
1 CCAGAACAGATAA--TGTGGCAGAGCCA
65772774 CCAG
1 CCAG
65772778 GACGCTTCCT
Statistics
Matches: 77, Mismatches: 5, Indels: 8
0.86 0.06 0.09
Matches are distributed among these distances:
26 6 0.08
27 38 0.49
28 33 0.43
ACGTcount: A:0.36, C:0.22, G:0.25, T:0.17
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:65772750 original size:55 final size:54
Alignment explanation
Indices: 65772667--65772774 Score: 164
Period size: 55 Copynumber: 2.0 Consensus size: 54
65772657 CATGGCTGCC
*
65772667 AGAACAGATAATGTGACAGAGTCACCAGATACAGATAA-TCGTGGCAGAGCCACT
1 AGAACAGATAATGTGACAGAGCCACCAGAT-CAGATAATTCGTGGCAGAGCCACT
* *
65772721 AGAACAGATATATGTGGCAGAGCCACCAGATCAGATAATTTGTGGCAGAGCCAC
1 AGAACAGATA-ATGTGACAGAGCCACCAGATCAGATAATTCGTGGCAGAGCCAC
65772775 CAGGACGCTT
Statistics
Matches: 49, Mismatches: 3, Indels: 3
0.89 0.05 0.05
Matches are distributed among these distances:
54 17 0.35
55 32 0.65
ACGTcount: A:0.37, C:0.20, G:0.25, T:0.18
Consensus pattern (54 bp):
AGAACAGATAATGTGACAGAGCCACCAGATCAGATAATTCGTGGCAGAGCCACT
Found at i:65773227 original size:16 final size:16
Alignment explanation
Indices: 65773208--65773242 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
65773198 CTTTTTGGCA
*
65773208 TTTCAGCTTTTCGACT
1 TTTCAGCTCTTCGACT
*
65773224 TTTCGGCTCTTCGACT
1 TTTCAGCTCTTCGACT
65773240 TTT
1 TTT
65773243 GCCGATCTAG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.09, C:0.26, G:0.14, T:0.51
Consensus pattern (16 bp):
TTTCAGCTCTTCGACT
Found at i:65775351 original size:52 final size:52
Alignment explanation
Indices: 65775294--65775397 Score: 208
Period size: 52 Copynumber: 2.0 Consensus size: 52
65775284 ATGGAATTAG
65775294 CCTAGAAGGAAAGATATAAAATCCAAAGAGGGAACCCTAAAGAGAGGGAGGA
1 CCTAGAAGGAAAGATATAAAATCCAAAGAGGGAACCCTAAAGAGAGGGAGGA
65775346 CCTAGAAGGAAAGATATAAAATCCAAAGAGGGAACCCTAAAGAGAGGGAGGA
1 CCTAGAAGGAAAGATATAAAATCCAAAGAGGGAACCCTAAAGAGAGGGAGGA
65775398 TCCTTAGGCA
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
52 52 1.00
ACGTcount: A:0.48, C:0.13, G:0.29, T:0.10
Consensus pattern (52 bp):
CCTAGAAGGAAAGATATAAAATCCAAAGAGGGAACCCTAAAGAGAGGGAGGA
Found at i:65777205 original size:28 final size:29
Alignment explanation
Indices: 65777172--65777226 Score: 85
Period size: 29 Copynumber: 1.9 Consensus size: 29
65777162 ATCCGAAATA
65777172 CTGATA-TCATGGCCCAAAGCCAAATCAG
1 CTGATATTCATGGCCCAAAGCCAAATCAG
**
65777200 CTGATATTCATGGCCTGAAGCCAAATC
1 CTGATATTCATGGCCCAAAGCCAAATC
65777227 GGTATAACTC
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
28 6 0.25
29 18 0.75
ACGTcount: A:0.33, C:0.27, G:0.18, T:0.22
Consensus pattern (29 bp):
CTGATATTCATGGCCCAAAGCCAAATCAG
Found at i:65789683 original size:30 final size:30
Alignment explanation
Indices: 65789648--65789705 Score: 82
Period size: 30 Copynumber: 1.9 Consensus size: 30
65789638 CACGACCATG
* *
65789648 ACACACGGGCGTGTGG-TCTACCCGTGTGTC
1 ACACACGGACATGTGGATC-ACCCGTGTGTC
65789678 ACACACGGACATGTGGATCACCCGTGTG
1 ACACACGGACATGTGGATCACCCGTGTG
65789706 GAAGTGCCCA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
30 23 0.92
31 2 0.08
ACGTcount: A:0.19, C:0.29, G:0.31, T:0.21
Consensus pattern (30 bp):
ACACACGGACATGTGGATCACCCGTGTGTC
Found at i:65792941 original size:53 final size:54
Alignment explanation
Indices: 65792759--65792965 Score: 236
Period size: 53 Copynumber: 3.8 Consensus size: 54
65792749 ATTAAGGTTT
* * * *
65792759 AAGGATACCAAGTAAGACCATGCCAAGGCATGGCATTGGTAAGTTCTACAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGGTAAGTTCTATAAGGC
* * ** * * * *
65792813 AAGGAAATCATGTAAGACCATGTTAAGACATGGCATTGATAAACTACTATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGGT-AAGTTCTATAAGGC
* * * *
65792868 AAAGATCCCATGTAAGACCATGCCAAGGCATGGCAATGGTGAGTTC-ATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGGTAAGTTCTATAAGGC
* *
65792921 AAGGATACCACGTAAGACCATGACAAGACATGGCAATGGTAAGTT
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGGTAAGTT
65792966 TAGAAAGGAA
Statistics
Matches: 124, Mismatches: 28, Indels: 3
0.80 0.18 0.02
Matches are distributed among these distances:
53 46 0.37
54 36 0.29
55 42 0.34
ACGTcount: A:0.38, C:0.18, G:0.24, T:0.20
Consensus pattern (54 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGGTAAGTTCTATAAGGC
Found at i:65797613 original size:46 final size:47
Alignment explanation
Indices: 65797467--65797728 Score: 187
Period size: 46 Copynumber: 5.5 Consensus size: 47
65797457 TTTGTGCGCC
* * *
65797467 AGTGTAAGA-CATGTTTGGGACATGCATCGGGCACATTATGA-TAGCC
1 AGTGTAAGACCATGTCTGGGACATGCATCGGCCACATTATGAGT-GCT
* **** * * * *
65797513 AGTGTAAGACCATGTTTGGGACATGGCATCGGGGTTGA-GACGAGGGAT
1 AGTGTAAGACCATGTCTGGGACAT-GCATC-GGCCACATTATGAGTGCT
*
65797561 AGTGTAAGA-CATGTCTGGGACATGCATCAGCCACATTATGAGTGCT
1 AGTGTAAGACCATGTCTGGGACATGCATCGGCCACATTATGAGTGCT
* * *
65797607 AGTGTAAGA-CATGTCTGGGACATGCATCAG-CACGTATATACGAGAGCT
1 AGTGTAAGACCATGTCTGGGACATGCATCGGCCAC--AT-TATGAGTGCT
* * * ** * *
65797655 AATGTAAGACCATGTCTGGGGCATGGCATCGGCCTCGAAGATGA-TATCC
1 AGTGTAAGACCATGTCTGGGACAT-GCATCGGCCAC-ATTATGAGT-GCT
65797704 AGTGTAAGACCATGTCTGGGACATG
1 AGTGTAAGACCATGTCTGGGACATG
65797729 GCGTCGGCAA
Statistics
Matches: 171, Mismatches: 33, Indels: 22
0.76 0.15 0.10
Matches are distributed among these distances:
45 5 0.03
46 50 0.29
47 29 0.17
48 35 0.20
49 43 0.25
50 7 0.04
51 2 0.01
ACGTcount: A:0.28, C:0.18, G:0.30, T:0.24
Consensus pattern (47 bp):
AGTGTAAGACCATGTCTGGGACATGCATCGGCCACATTATGAGTGCT
Found at i:65797650 original size:94 final size:93
Alignment explanation
Indices: 65797467--65797728 Score: 287
Period size: 94 Copynumber: 2.8 Consensus size: 93
65797457 TTTGTGCGCC
* * *
65797467 AGTGTAAGACATGTTTGGGACATGCATCGGGCACATTATGATAGCCAGTGTAAGACCATGTTTGG
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCACATTATGATAGCCAGTGTAAGACCATGTCTGG
** *
65797532 GACATGGCATCGGGGTTGAGACGAGGGAT
66 GACAT-GCATCGACGTTGAGACGAGAGAT
* *
65797561 AGTGTAAGACATGTCTGGGACATGCATCAGCCACATTATGAGT-GCTAGTGTAAGA-CATGTCTG
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCACATTATGA-TAGCCAGTGTAAGACCATGTCTG
* *
65797624 GGACATGCATCAGCACGTAT-ATACGAGAGCT
65 GGACATGCATC-G-ACGT-TGAGACGAGAGAT
* * * ** *
65797655 AATGTAAGACCATGTCTGGGGCATGGCATCGGCCTCGAAGATGATATCCAGTGTAAGACCATGTC
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCAC-ATTATGATAGCCAGTGTAAGACCATGTC
65797720 TGGGACATG
63 TGGGACATG
65797729 GCGTCGGCAA
Statistics
Matches: 141, Mismatches: 18, Indels: 14
0.82 0.10 0.08
Matches are distributed among these distances:
92 5 0.04
93 14 0.10
94 67 0.48
95 15 0.11
96 10 0.07
97 15 0.11
98 15 0.11
ACGTcount: A:0.28, C:0.18, G:0.30, T:0.24
Consensus pattern (93 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCCACATTATGATAGCCAGTGTAAGACCATGTCTGG
GACATGCATCGACGTTGAGACGAGAGAT
Found at i:65803306 original size:14 final size:14
Alignment explanation
Indices: 65803287--65803314 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
65803277 GAATTAGGGA
65803287 TAAAGTTTCATTTT
1 TAAAGTTTCATTTT
65803301 TAAAGTTTCATTTT
1 TAAAGTTTCATTTT
65803315 CGAGCCTTGG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.29, C:0.07, G:0.07, T:0.57
Consensus pattern (14 bp):
TAAAGTTTCATTTT
Found at i:65803847 original size:55 final size:53
Alignment explanation
Indices: 65803729--65803861 Score: 160
Period size: 55 Copynumber: 2.5 Consensus size: 53
65803719 AGGATACCAA
* * *
65803729 GTAAGACCATGCCAAGGCATGGCATTGGTAAGTTCTACAAGGCAAGGAAATCAT
1 GTAAGACCATGCCAAGGCATGGCATTGATAACTACTACAAGGCAA-GAAATCAT
* * * *
65803783 GTAAGACCATGTCAAGACATGGCATTGATAAACTACTATAAGGTAA-AAATCCCAT
1 GTAAGACCATGCCAAGGCATGGCATTGAT-AACTACTACAAGGCAAGAAAT--CAT
65803838 GTAAGACCATGCCAAGGCATGGCA
1 GTAAGACCATGCCAAGGCATGGCA
65803862 ATGGTGAGTT
Statistics
Matches: 67, Mismatches: 9, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
53 4 0.06
54 26 0.39
55 37 0.55
ACGTcount: A:0.38, C:0.20, G:0.23, T:0.20
Consensus pattern (53 bp):
GTAAGACCATGCCAAGGCATGGCATTGATAACTACTACAAGGCAAGAAATCAT
Found at i:65803900 original size:53 final size:54
Alignment explanation
Indices: 65803718--65803924 Score: 209
Period size: 53 Copynumber: 3.8 Consensus size: 54
65803708 ATTAGGGTTT
* * * *
65803718 AAGGATACCAAGTAAGACCATGCCAAGGCATGGCATTGGTAAGTTCTACAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGGTAAGTTCTATAAGGC
* * * * * * * *
65803772 AAGGAAATCATGTAAGACCATGTCAAGACATGGCATTGATAAACTACTATAAGGT
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGGT-AAGTTCTATAAGGC
** * * *
65803827 AAAAATCCCATGTAAGACCATGCCAAGGCATGGCAATGGTGAGTTC-ATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGGTAAGTTCTATAAGGC
* * * *
65803880 AAGGATACCACGTAAGACCATGACAAGACCTGACAATGGTAAGTT
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGGTAAGTT
65803925 TAAAAAGGAA
Statistics
Matches: 120, Mismatches: 32, Indels: 3
0.77 0.21 0.02
Matches are distributed among these distances:
53 42 0.35
54 37 0.31
55 41 0.34
ACGTcount: A:0.38, C:0.19, G:0.23, T:0.20
Consensus pattern (54 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGGTAAGTTCTATAAGGC
Found at i:65807108 original size:13 final size:13
Alignment explanation
Indices: 65807090--65807117 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
65807080 ATAAAACATA
65807090 AATTCTACAATTT
1 AATTCTACAATTT
65807103 AATTCTACAATTT
1 AATTCTACAATTT
65807116 AA
1 AA
65807118 ACAATTTAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.43, C:0.14, G:0.00, T:0.43
Consensus pattern (13 bp):
AATTCTACAATTT
Found at i:65807416 original size:18 final size:17
Alignment explanation
Indices: 65807378--65807411 Score: 54
Period size: 15 Copynumber: 2.1 Consensus size: 17
65807368 AAACCCTAAT
65807378 TTTCCCTTTTCTTTTTC
1 TTTCCCTTTTCTTTTTC
65807395 TTT-CCTTTT-TTTTTC
1 TTTCCCTTTTCTTTTTC
65807410 TT
1 TT
65807412 CTTTCTTTCC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 8 0.47
16 6 0.35
17 3 0.18
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (17 bp):
TTTCCCTTTTCTTTTTC
Found at i:65809332 original size:22 final size:22
Alignment explanation
Indices: 65809304--65809350 Score: 94
Period size: 22 Copynumber: 2.1 Consensus size: 22
65809294 AAACATAAAA
65809304 TTCCTAATGACAAGTCATTTGT
1 TTCCTAATGACAAGTCATTTGT
65809326 TTCCTAATGACAAGTCATTTGT
1 TTCCTAATGACAAGTCATTTGT
65809348 TTC
1 TTC
65809351 TTAAGAATTC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.26, C:0.19, G:0.13, T:0.43
Consensus pattern (22 bp):
TTCCTAATGACAAGTCATTTGT
Found at i:65815833 original size:43 final size:43
Alignment explanation
Indices: 65815775--65815967 Score: 183
Period size: 43 Copynumber: 4.5 Consensus size: 43
65815765 AAAAACGCTG
* * *
65815775 CTATAGAACAAGACCTTTAGCGGTGCTTTTCCCAAAAATGCCA
1 CTATAGAACATGACCTTTAGCGGCGCTTTTCCCACAAATGCCA
* * * * ** *
65815818 CTATAGAATATGACCTTTAACGACACTTTTTTCACAAATGTCA
1 CTATAGAACATGACCTTTAGCGGCGCTTTTCCCACAAATGCCA
* * *
65815861 CTATAGAACATGACCTTTAACGGCGCCTTTT-TCACAAATGCCG
1 CTATAGAACATGACCTTTAGCGGCG-CTTTTCCCACAAATGCCA
* * *
65815904 CTAAAGAACATGACCTTTAGTGGCG-TTTTCCCCACAAACGCCA
1 CTATAGAACATGACCTTTAGCGGCGCTTTT-CCCACAAATGCCA
* * *
65815947 CTAAAGAACAAGACTTTTAGC
1 CTATAGAACATGACCTTTAGC
65815968 AATGCTTTTA
Statistics
Matches: 123, Mismatches: 24, Indels: 6
0.80 0.16 0.04
Matches are distributed among these distances:
41 4 0.03
43 114 0.93
44 5 0.04
ACGTcount: A:0.33, C:0.25, G:0.15, T:0.27
Consensus pattern (43 bp):
CTATAGAACATGACCTTTAGCGGCGCTTTTCCCACAAATGCCA
Found at i:65821925 original size:67 final size:64
Alignment explanation
Indices: 65821805--65821976 Score: 177
Period size: 64 Copynumber: 2.7 Consensus size: 64
65821795 TCTCTTCTAC
* * * * * * *
65821805 ACATGGTGAACACTTAGTACCACCCATGTGACCTAGC--CAGTTTATCCCGTAGCTCTATTGTCT
1 ACATGGTGTACACATAGAATCACCCATGCGACCTAGCTACA-TATATCCCATAGCTCTATTGTCT
* * * * *
65821868 ACATGGTGTCCTTCACCTGGAATCACGCATGCGACCTAGCTACATATATCCCATAGCTCTCTTGT
1 ACATGGTG---TACACATAGAATCACCCATGCGACCTAGCTACATATATCCCATAGCTCTATTGT
65821933 CT
63 CT
*
65821935 ACATGGTGTACACATAGTATCACCCATGCGACCTAGCTACAT
1 ACATGGTGTACACATAGAATCACCCATGCGACCTAGCTACAT
65821977 CATAATGTCT
Statistics
Matches: 88, Mismatches: 16, Indels: 9
0.78 0.14 0.08
Matches are distributed among these distances:
63 8 0.09
64 29 0.33
66 21 0.24
67 28 0.32
68 2 0.02
ACGTcount: A:0.25, C:0.30, G:0.17, T:0.28
Consensus pattern (64 bp):
ACATGGTGTACACATAGAATCACCCATGCGACCTAGCTACATATATCCCATAGCTCTATTGTCT
Found at i:65822746 original size:30 final size:30
Alignment explanation
Indices: 65822710--65822770 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
65822700 TCCTTAACTC
65822710 AAACTTTTGAAAAATTACAATTTTGCCCCT
1 AAACTTTTGAAAAATTACAATTTTGCCCCT
* * * *
65822740 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTTGAAAAATTACAATTTTGCCCCT
65822770 A
1 A
65822771 GGCTCGAGAA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.31, C:0.23, G:0.07, T:0.39
Consensus pattern (30 bp):
AAACTTTTGAAAAATTACAATTTTGCCCCT
Found at i:65825286 original size:36 final size:34
Alignment explanation
Indices: 65825232--65825314 Score: 121
Period size: 36 Copynumber: 2.4 Consensus size: 34
65825222 TAAATTATAG
* *
65825232 TTATGTAAGTTATGATATGATATATATTTATGTTAA
1 TTATGTAAGTTATAATATGACATATATTTATG-T-A
*
65825268 TTATGTAAATTATAATATGACATATATTTATGTA
1 TTATGTAAGTTATAATATGACATATATTTATGTA
65825302 TTATGTAAGTTAT
1 TTATGTAAGTTAT
65825315 GATCCAAAGT
Statistics
Matches: 43, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
34 13 0.30
35 1 0.02
36 29 0.67
ACGTcount: A:0.37, C:0.01, G:0.12, T:0.49
Consensus pattern (34 bp):
TTATGTAAGTTATAATATGACATATATTTATGTA
Found at i:65825390 original size:35 final size:35
Alignment explanation
Indices: 65825336--65825413 Score: 129
Period size: 35 Copynumber: 2.2 Consensus size: 35
65825326 TTTTTTTATT
*
65825336 CTTTAAATGCTTATATAAATTATGATAATCATAAA
1 CTTTAAATGCTTATATAAATTATCATAATCATAAA
* *
65825371 CTTTAAATGTTTATTTAAATTATCATAATCATAAA
1 CTTTAAATGCTTATATAAATTATCATAATCATAAA
65825406 CTTTAAAT
1 CTTTAAAT
65825414 ATTATTAAAA
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
35 40 1.00
ACGTcount: A:0.44, C:0.09, G:0.04, T:0.44
Consensus pattern (35 bp):
CTTTAAATGCTTATATAAATTATCATAATCATAAA
Found at i:65826292 original size:2 final size:2
Alignment explanation
Indices: 65826285--65826309 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
65826275 AAGCATAAGA
65826285 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
65826310 ACACCGTCCA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:65826478 original size:19 final size:19
Alignment explanation
Indices: 65826456--65826493 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
65826446 GATAAACAGT
65826456 ATTTTATAATATA-ATATTA
1 ATTTTA-AATATATATATTA
*
65826475 ATTTTAGATATATATATTA
1 ATTTTAAATATATATATTA
65826494 TATAAATAGT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 5 0.29
19 12 0.71
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.53
Consensus pattern (19 bp):
ATTTTAAATATATATATTA
Found at i:65826767 original size:2 final size:2
Alignment explanation
Indices: 65826760--65826789 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
65826750 GCATGTTTAA
*
65826760 AT AT AT AT AT AA AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
65826790 GCATCAGTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:65826774 original size:12 final size:12
Alignment explanation
Indices: 65826757--65826789 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
65826747 TATGCATGTT
65826757 TAAATATATATA
1 TAAATATATATA
65826769 TAAATATATATA
1 TAAATATATATA
*
65826781 TATATATAT
1 TAAATATAT
65826790 GCATCAGTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (12 bp):
TAAATATATATA
Found at i:65827051 original size:41 final size:39
Alignment explanation
Indices: 65826900--65827051 Score: 144
Period size: 39 Copynumber: 3.8 Consensus size: 39
65826890 GTATGCTAAC
* * * *
65826900 GCCGTTATAGATCGAGCATTAGCGGCGCTTTTTAAAAAAC
1 GCCGCTATAGATCGAGTATTAGCAGCGC-TTTTAAAAAAT
* **
65826940 GCCGCTATAGATCAAGTATTAGTGGCGCTTTTAAAAAAT
1 GCCGCTATAGATCGAGTATTAGCAGCGCTTTTAAAAAAT
** * *
65826979 GCTACTATAGATCGAGTATTAGCTGCACTTTTCAAAAAAAT
1 GCCGCTATAGATCGAGTATTAGCAGCGCTTTT--AAAAAAT
* *
65827020 GCCGCTATAGGTCGACTAATTAG-AGCGCTTTT
1 GCCGCTATAGATCGAGT-ATTAGCAGCGCTTTT
65827052 TGAAAAACGC
Statistics
Matches: 92, Mismatches: 17, Indels: 5
0.81 0.15 0.04
Matches are distributed among these distances:
39 36 0.39
40 24 0.26
41 27 0.29
42 5 0.05
ACGTcount: A:0.31, C:0.18, G:0.20, T:0.30
Consensus pattern (39 bp):
GCCGCTATAGATCGAGTATTAGCAGCGCTTTTAAAAAAT
Found at i:65827058 original size:41 final size:40
Alignment explanation
Indices: 65826900--65827064 Score: 154
Period size: 40 Copynumber: 4.1 Consensus size: 40
65826890 GTATGCTAAC
* * * *
65826900 GCCGTTATAGATCGAGCATTAGCGGCGCTTTTTAAAAAAC
1 GCCGCTATAGATCGAGTATTAGCAGCGCTTTTTAAAAAAT
* **
65826940 GCCGCTATAGATCAAGTATTAGTGGCGC-TTTTAAAAAAT
1 GCCGCTATAGATCGAGTATTAGCAGCGCTTTTTAAAAAAT
** * * *
65826979 GCTACTATAGATCGAGTATTAGCTGCACTTTTCAAAAAAAT
1 GCCGCTATAGATCGAGTATTAGCAGCGCTTTT-TAAAAAAT
* * * *
65827020 GCCGCTATAGGTCGACTAATTAG-AGCGCTTTTTGAAAAAC
1 GCCGCTATAGATCGAGT-ATTAGCAGCGCTTTTTAAAAAAT
65827060 GCCGC
1 GCCGC
65827065 AAAAAAATTA
Statistics
Matches: 101, Mismatches: 21, Indels: 6
0.79 0.16 0.05
Matches are distributed among these distances:
39 32 0.32
40 37 0.37
41 27 0.27
42 5 0.05
ACGTcount: A:0.32, C:0.19, G:0.21, T:0.28
Consensus pattern (40 bp):
GCCGCTATAGATCGAGTATTAGCAGCGCTTTTTAAAAAAT
Found at i:65827314 original size:146 final size:146
Alignment explanation
Indices: 65827047--65827314 Score: 337
Period size: 146 Copynumber: 1.8 Consensus size: 146
65827037 AATTAGAGCG
* * * * *
65827047 CTTTTTGAAAAACGCCGCAAAAAAATTAAGCACAACACTGTCGTTTTATGTTGTGCTTTAGCGGC
1 CTTTTTGAAAAACGCCGCAAAAAAATTAAGCACAACACCGCCATTTTATGTTGTGCATTAGCAGC
* ** * * *
65827112 GCTTTCTGAAAAATGCCGCTATAGATCGAGCATTAGAGGCGTTTTTCGAAAGACGCCATTATAGG
66 ACTTTCTGAAAAACACCACTATAGATCGAGCATTAGAGGCGTTTGTCGAAAAACGCCATTATAGG
65827177 TAGACTATTAGCGGTA
131 TAGACTATTAGCGGTA
*
65827193 CTTTTTGAAAAACGCCGCAAAAAAATTAAGCACAACGCCGCCATAACTTTA-G-TG-GCATTAGC
1 CTTTTTGAAAAACGCCGCAAAAAAATTAAGCACAACACCGCCAT---TTTATGTTGTGCATTAGC
* * *
65827255 AGCACTTTTTGAAAAACACCACTATAGATCGAGCTTTAGTGGCGCTTTGTC-AAAAACGCC
63 AGCACTTTCTGAAAAACACCACTATAGATCGAGCATTAGAGGCG-TTTGTCGAAAAACGCC
65827315 GCAAAAAACA
Statistics
Matches: 103, Mismatches: 15, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
146 91 0.88
147 7 0.07
148 1 0.01
149 4 0.04
ACGTcount: A:0.32, C:0.21, G:0.20, T:0.27
Consensus pattern (146 bp):
CTTTTTGAAAAACGCCGCAAAAAAATTAAGCACAACACCGCCATTTTATGTTGTGCATTAGCAGC
ACTTTCTGAAAAACACCACTATAGATCGAGCATTAGAGGCGTTTGTCGAAAAACGCCATTATAGG
TAGACTATTAGCGGTA
Found at i:65827590 original size:7 final size:7
Alignment explanation
Indices: 65827567--65827705 Score: 86
Period size: 7 Copynumber: 19.7 Consensus size: 7
65827557 TATAGATTAT
65827567 GGGTTTA
1 GGGTTTA
* *
65827574 GAGATTA
1 GGGTTTA
*
65827581 TGGTTTA
1 GGGTTTA
*
65827588 TGGTTTAA
1 GGGTTT-A
*
65827596 GGG-TTG
1 GGGTTTA
65827602 GGGTTTA
1 GGGTTTA
*
65827609 AGGTTTA
1 GGGTTTA
65827616 GAGG-TTA
1 G-GGTTTA
65827623 GGGTTTA
1 GGGTTTA
65827630 GGGTTTA
1 GGGTTTA
65827637 GGGTTTA
1 GGGTTTA
65827644 GGGTTTA
1 GGGTTTA
*
65827651 -TGTATTA
1 GGGT-TTA
* *
65827658 TGTTTTA
1 GGGTTTA
* *
65827665 TGATTTA
1 GGGTTTA
*
65827672 GGATTTA
1 GGGTTTA
*
65827679 GGGGTTA
1 GGGTTTA
*
65827686 GAGGTTAA
1 G-GGTTTA
*
65827694 GGGTTTT
1 GGGTTTA
65827701 GGGTT
1 GGGTT
65827706 CAAATTAATA
Statistics
Matches: 104, Mismatches: 21, Indels: 14
0.75 0.15 0.10
Matches are distributed among these distances:
6 7 0.07
7 86 0.83
8 11 0.11
ACGTcount: A:0.19, C:0.00, G:0.37, T:0.44
Consensus pattern (7 bp):
GGGTTTA
Found at i:65828568 original size:84 final size:84
Alignment explanation
Indices: 65828474--65828653 Score: 216
Period size: 84 Copynumber: 2.1 Consensus size: 84
65828464 ACTATTTCAT
* ** * *
65828474 AAACGCCACTAAAAATTTAATTCCCTATAGTGAAACGTCGACGTTTAAGACAAATGGGTATTGCA
1 AAACGCCACTAAAAATTTAATGCCCTATAAAGAAACGACGACATTTAAGACAAATGGGTATTGCA
*
65828539 ATTTTACGGCGTTTATGAA
66 ATTTTACGGCGTTAATGAA
* * * * * *
65828558 AAACGCCACTAAAAATTTAATGCTCTGTAAAGAAACGACGCCATTTAAGTCAAATTGGTATTGTA
1 AAACGCCACTAAAAATTTAATGCCCTATAAAGAAACGACGACATTTAAGACAAATGGGTATTGCA
**
65828623 ATTTTGTGGCGTTAATGAA
66 ATTTTACGGCGTTAATGAA
**
65828642 AAATACCACTAA
1 AAACGCCACTAA
65828654 CGAAACACCT
Statistics
Matches: 80, Mismatches: 16, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
84 80 1.00
ACGTcount: A:0.38, C:0.16, G:0.17, T:0.29
Consensus pattern (84 bp):
AAACGCCACTAAAAATTTAATGCCCTATAAAGAAACGACGACATTTAAGACAAATGGGTATTGCA
ATTTTACGGCGTTAATGAA
Found at i:65833398 original size:20 final size:22
Alignment explanation
Indices: 65833373--65833427 Score: 60
Period size: 20 Copynumber: 2.6 Consensus size: 22
65833363 ACGCCCATGT
65833373 AGAGGAGGCACATGC-C-TATA
1 AGAGGAGGCACATGCGCGTATA
* * * *
65833393 AGAGGAAGCACACGCGCGTGTG
1 AGAGGAGGCACATGCGCGTATA
65833415 AGAGGAGGCACAT
1 AGAGGAGGCACAT
65833428 AGCCGTGTAA
Statistics
Matches: 27, Mismatches: 6, Indels: 2
0.77 0.17 0.06
Matches are distributed among these distances:
20 13 0.48
21 1 0.04
22 13 0.48
ACGTcount: A:0.33, C:0.20, G:0.36, T:0.11
Consensus pattern (22 bp):
AGAGGAGGCACATGCGCGTATA
Found at i:65833434 original size:22 final size:21
Alignment explanation
Indices: 65833373--65833437 Score: 69
Period size: 22 Copynumber: 3.0 Consensus size: 21
65833363 ACGCCCATGT
*
65833373 AGAGGAGGCACATGCC-TATA
1 AGAGGAGGCACATGCCGTGTA
* * *
65833393 AGAGGAAGCACACGCGCGTGTG
1 AGAGGAGGCACATGC-CGTGTA
65833415 AGAGGAGGCACATAGCCGTGTA
1 AGAGGAGGCACAT-GCCGTGTA
65833437 A
1 A
65833438 CTCTCTGTCC
Statistics
Matches: 35, Mismatches: 7, Indels: 4
0.76 0.15 0.09
Matches are distributed among these distances:
20 13 0.37
21 1 0.03
22 19 0.54
23 2 0.06
ACGTcount: A:0.32, C:0.20, G:0.35, T:0.12
Consensus pattern (21 bp):
AGAGGAGGCACATGCCGTGTA
Found at i:65836645 original size:26 final size:26
Alignment explanation
Indices: 65836588--65836637 Score: 82
Period size: 26 Copynumber: 1.9 Consensus size: 26
65836578 ACATATTTTC
*
65836588 TCAAAATTTTACCAAGGGCAAAATCG
1 TCAAAATTTTACCAAGAGCAAAATCG
*
65836614 TCAAAATTTTACCAAGAGTAAAAT
1 TCAAAATTTTACCAAGAGCAAAAT
65836638 TGTTAAAAGC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.46, C:0.16, G:0.12, T:0.26
Consensus pattern (26 bp):
TCAAAATTTTACCAAGAGCAAAATCG
Found at i:65859597 original size:28 final size:28
Alignment explanation
Indices: 65859557--65859615 Score: 118
Period size: 28 Copynumber: 2.1 Consensus size: 28
65859547 ATATTAATAA
65859557 CATCGAAACACGTTAGCATCTTTGTTTT
1 CATCGAAACACGTTAGCATCTTTGTTTT
65859585 CATCGAAACACGTTAGCATCTTTGTTTT
1 CATCGAAACACGTTAGCATCTTTGTTTT
65859613 CAT
1 CAT
65859616 ACATGATCTT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.25, C:0.22, G:0.14, T:0.39
Consensus pattern (28 bp):
CATCGAAACACGTTAGCATCTTTGTTTT
Found at i:65861320 original size:31 final size:30
Alignment explanation
Indices: 65861275--65861338 Score: 85
Period size: 31 Copynumber: 2.1 Consensus size: 30
65861265 ATATAAAAAC
*
65861275 TTTAAATGTTTAATTA-AATTTTTCAAAATT
1 TTTAAAAGTTTAATTATAATTTTT-AAAATT
*
65861305 TTTAAAAGATTTAATTATAATTTTTTAAATT
1 TTTAAAAG-TTTAATTATAATTTTTAAAATT
65861336 TTT
1 TTT
65861339 GGAGGGCCAA
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
30 7 0.23
31 16 0.53
32 7 0.23
ACGTcount: A:0.39, C:0.02, G:0.03, T:0.56
Consensus pattern (30 bp):
TTTAAAAGTTTAATTATAATTTTTAAAATT
Found at i:65867102 original size:4 final size:4
Alignment explanation
Indices: 65867093--65867134 Score: 50
Period size: 4 Copynumber: 10.5 Consensus size: 4
65867083 TTGCTCGTAC
* *
65867093 ATAA ATAA ATAA ATAA CATGA A-AA ATAA ATAA ATGA ATAA AT
1 ATAA ATAA ATAA ATAA -ATAA ATAA ATAA ATAA ATAA ATAA AT
65867135 CCTTAAGTTA
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
3 2 0.06
4 27 0.84
5 3 0.09
ACGTcount: A:0.69, C:0.02, G:0.05, T:0.24
Consensus pattern (4 bp):
ATAA
Found at i:65867120 original size:16 final size:16
Alignment explanation
Indices: 65867096--65867134 Score: 62
Period size: 16 Copynumber: 2.4 Consensus size: 16
65867086 CTCGTACATA
65867096 AATAAATAAATAACATG
1 AATAAATAAATAA-ATG
65867113 AA-AAATAAATAAATG
1 AATAAATAAATAAATG
65867128 AATAAAT
1 AATAAAT
65867135 CCTTAAGTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
15 5 0.24
16 14 0.67
17 2 0.10
ACGTcount: A:0.69, C:0.03, G:0.05, T:0.23
Consensus pattern (16 bp):
AATAAATAAATAAATG
Found at i:65868770 original size:17 final size:17
Alignment explanation
Indices: 65868743--65868785 Score: 61
Period size: 16 Copynumber: 2.5 Consensus size: 17
65868733 AAAAAGAATA
65868743 AAAAGAAATAAACAAAAG
1 AAAA-AAATAAACAAAAG
*
65868761 AAAAAAAT-AAGAAAAG
1 AAAAAAATAAACAAAAG
65868777 AAAAAAATA
1 AAAAAAATA
65868786 GAGATAGAAG
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
16 15 0.65
17 4 0.17
18 4 0.17
ACGTcount: A:0.81, C:0.02, G:0.09, T:0.07
Consensus pattern (17 bp):
AAAAAAATAAACAAAAG
Found at i:65869876 original size:124 final size:125
Alignment explanation
Indices: 65869586--65869891 Score: 442
Period size: 124 Copynumber: 2.5 Consensus size: 125
65869576 ATTAACTATT
* *** *
65869586 AATTATGGAAAAAAGCTCCCATGTGGATACTCTTTTGCTAC-GTAGTATTTGAAAAAATAATTTT
1 AATTACGGAAAAAAGCTCCCATGTGGACGTTCTTTTGCTACAGTAGTATCTG-AAAAATAATTTT
65869650 GAGAAGATGTTTCTGAAAAAATAGTGTCAAAAACGCTTCAAGAAGGATGCACTGCTAGCAA
65 GAGAAGATGTTTCTGAAAAAATAGTGTCAAAAACGCTTCAAGAAGGATGCACTGCTAGCAA
* *
65869711 ATTTACGGAAAAAAGCTCACATGTGGACGCTT-TTTTGCTACAGTAGTATCTGAAAAATAATTTT
1 AATTACGGAAAAAAGCTCCCATGTGGACG-TTCTTTTGCTACAGTAGTATCTGAAAAATAATTTT
* * *
65869775 GAGAATATGTTTCT-AAACAAATAGTGTC-AAAACGCTTCAAGCAGGATGCACTG-TCAGTAA
65 GAGAAGATGTTTCTGAAA-AAATAGTGTCAAAAACGCTTCAAGAAGGATGCACTGCT-AGCAA
*
65869835 AATTACGGAAAAAAGCTCCCACGTGGACGTTCTTTTGCTACAGTAGTATCTGAAAAA
1 AATTACGGAAAAAAGCTCCCATGTGGACGTTCTTTTGCTACAGTAGTATCTGAAAAA
65869892 GCCTTAGGCT
Statistics
Matches: 163, Mismatches: 13, Indels: 11
0.87 0.07 0.06
Matches are distributed among these distances:
123 3 0.02
124 82 0.50
125 68 0.42
126 10 0.06
ACGTcount: A:0.37, C:0.15, G:0.19, T:0.29
Consensus pattern (125 bp):
AATTACGGAAAAAAGCTCCCATGTGGACGTTCTTTTGCTACAGTAGTATCTGAAAAATAATTTTG
AGAAGATGTTTCTGAAAAAATAGTGTCAAAAACGCTTCAAGAAGGATGCACTGCTAGCAA
Found at i:65871427 original size:34 final size:34
Alignment explanation
Indices: 65871389--65871457 Score: 138
Period size: 34 Copynumber: 2.0 Consensus size: 34
65871379 GCAAGGTTTG
65871389 GATAGCTAAGTAGAAGGTGTTGGAAAAGATATAT
1 GATAGCTAAGTAGAAGGTGTTGGAAAAGATATAT
65871423 GATAGCTAAGTAGAAGGTGTTGGAAAAGATATAT
1 GATAGCTAAGTAGAAGGTGTTGGAAAAGATATAT
65871457 G
1 G
65871458 GTATGTGGGA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.41, C:0.03, G:0.30, T:0.26
Consensus pattern (34 bp):
GATAGCTAAGTAGAAGGTGTTGGAAAAGATATAT
Found at i:65873328 original size:131 final size:130
Alignment explanation
Indices: 65873014--65873391 Score: 643
Period size: 131 Copynumber: 2.9 Consensus size: 130
65873004 ACATTTATTT
* * * * *
65873014 TAATAAAAATTATTGGTTAATTTAAAAGTACATTTATTGTATTAAAATTAAAAAAAGTAAAGTAC
1 TAATAAAAAATATTGGCTAATTTAAAAGAACATTTATTTTAATAAAATTAAAAAAAGTAAAGTAC
*
65873079 AATTAAAATATTAAAAACAACTTTTATTTTATTAATTAAAACTATATAAAAAATAAATATAAAAA
66 AATTAAAATATTAAAAACAACTTTTATTTTATTAATTGAAACTATATAAAAAATAAATATAAAAA
*
65873144 TAAT-AAAAATATTGGCTAATTTAAAAGAATATTTATTTTAATAAAATTAAAAAAAGTAAAGTAC
1 TAATAAAAAATATTGGCTAATTTAAAAGAACATTTATTTTAATAAAATTAAAAAAAGTAAAGTAC
65873208 AATTAAAATATTAAAAACAACTTTTATTTTATTAATTGAAACTATATAAAAAATTAAATATAAAA
66 AATTAAAATATTAAAAACAACTTTTATTTTATTAATTGAAACTATATAAAAAA-TAAATATAAAA
65873273 A
130 A
* *
65873274 TAATAAAAAATATTGGCTAATTTAAAAGAACATTTATTTTAATAAAATTAAAAAAAGTAATGTAA
1 TAATAAAAAATATTGGCTAATTTAAAAGAACATTTATTTTAATAAAATTAAAAAAAGTAAAGTAC
65873339 AATTAAAATATTAAAAACAACTTTTATTTTATT-ATATGAAACTATATAAAAAA
66 AATTAAAATATTAAAAACAACTTTTATTTTATTAAT-TGAAACTATATAAAAAA
65873392 AGTTTCTACA
Statistics
Matches: 235, Mismatches: 10, Indels: 5
0.94 0.04 0.02
Matches are distributed among these distances:
129 106 0.45
130 22 0.09
131 107 0.46
ACGTcount: A:0.56, C:0.04, G:0.05, T:0.36
Consensus pattern (130 bp):
TAATAAAAAATATTGGCTAATTTAAAAGAACATTTATTTTAATAAAATTAAAAAAAGTAAAGTAC
AATTAAAATATTAAAAACAACTTTTATTTTATTAATTGAAACTATATAAAAAATAAATATAAAAA
Found at i:65873523 original size:21 final size:22
Alignment explanation
Indices: 65873493--65873535 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
65873483 TCTTGGTTTA
**
65873493 GCTTCCGGTGGGGGTTGTGGTT
1 GCTTCCGGTGGGGACTGTGGTT
65873515 GCTT-CGGTGGGGACTGTGGTT
1 GCTTCCGGTGGGGACTGTGGTT
65873536 CCTCTGACAG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 15 0.79
22 4 0.21
ACGTcount: A:0.02, C:0.14, G:0.49, T:0.35
Consensus pattern (22 bp):
GCTTCCGGTGGGGACTGTGGTT
Found at i:65873824 original size:18 final size:18
Alignment explanation
Indices: 65873798--65873840 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
65873788 GACTGGGAAA
* *
65873798 AGGAAACATAAAAGGGTT
1 AGGATACATAAAAGGGCT
*
65873816 AGGATACATATAAGGGCT
1 AGGATACATAAAAGGGCT
65873834 AGGATAC
1 AGGATAC
65873841 GCACCTGGCA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.44, C:0.09, G:0.28, T:0.19
Consensus pattern (18 bp):
AGGATACATAAAAGGGCT
Found at i:65875711 original size:14 final size:11
Alignment explanation
Indices: 65875652--65875701 Score: 68
Period size: 11 Copynumber: 4.5 Consensus size: 11
65875642 TGAAAAAAGT
65875652 TGAGAGAAATT-
1 TGAGAG-AATTG
65875663 TGAGAGAATT-
1 TGAGAGAATTG
65875673 TGGAGAGAATTG
1 T-GAGAGAATTG
65875685 TGAGAGAATTG
1 TGAGAGAATTG
65875696 TGAGAG
1 TGAGAG
65875702 GACTATTGTG
Statistics
Matches: 37, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
10 5 0.14
11 31 0.84
12 1 0.03
ACGTcount: A:0.38, C:0.00, G:0.36, T:0.26
Consensus pattern (11 bp):
TGAGAGAATTG
Found at i:65878283 original size:17 final size:17
Alignment explanation
Indices: 65878241--65878292 Score: 56
Period size: 17 Copynumber: 3.2 Consensus size: 17
65878231 TAATATTAAG
65878241 TTAAATTT-TTA-G-AT
1 TTAAATTTATTATGTAT
*
65878255 TTAATTTTTATTATGTAT
1 TTAA-ATTTATTATGTAT
*
65878273 TTAAATTTATTATTTAT
1 TTAAATTTATTATGTAT
65878290 TTA
1 TTA
65878293 TTCAACAATG
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
14 4 0.13
15 3 0.10
16 3 0.10
17 15 0.48
18 6 0.19
ACGTcount: A:0.33, C:0.00, G:0.04, T:0.63
Consensus pattern (17 bp):
TTAAATTTATTATGTAT
Found at i:65883483 original size:40 final size:40
Alignment explanation
Indices: 65883246--65883469 Score: 269
Period size: 40 Copynumber: 5.6 Consensus size: 40
65883236 TGAATGATGT
* * * *
65883246 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
* * *
65883286 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTA-ATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-A
* *
65883326 CCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTCACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
65883364 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
65883405 CCGGGCTAAGTCCCGAAGGCATTTGTGTGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
65883445 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
65883470 AACGAGTAGC
Statistics
Matches: 161, Mismatches: 16, Indels: 14
0.84 0.08 0.07
Matches are distributed among these distances:
39 33 0.20
40 118 0.73
41 10 0.06
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:65883491 original size:119 final size:119
Alignment explanation
Indices: 65883245--65883502 Score: 292
Period size: 119 Copynumber: 2.2 Consensus size: 119
65883235 TTGAATGATG
* *
65883245 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATAACCGGACTAAGATCCGAAGGCATTT
* **
65883310 GTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTCACTAAA
66 GTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTCACTAAA
* * * *
65883364 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAACCGGGCTAAG-TCCCGAAGGCAT
1 TCCGGGTTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAACCGGACTAAGAT-CCGAAGGCAT
* * * * *
65883427 TTGTGTGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAGT-AGCTATA
64 TTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTGGAACGAGTCA-CTAAA
* *
65883484 TCC-GGTTAAATTCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
65883503 TATGTGATTT
Statistics
Matches: 118, Mismatches: 16, Indels: 10
0.82 0.11 0.07
Matches are distributed among these distances:
118 3 0.03
119 83 0.70
120 32 0.27
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (119 bp):
TCCGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATAACCGGACTAAGATCCGAAGGCATTT
GTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTCACTAAA
Found at i:65895878 original size:12 final size:13
Alignment explanation
Indices: 65895853--65895881 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
65895843 AATCTCTAAT
65895853 TTTTCCCTTTTTC
1 TTTTCCCTTTTTC
65895866 TTTTCCC-TTTTC
1 TTTTCCCTTTTTC
65895878 TTTT
1 TTTT
65895882 TCTCCCAATT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 9 0.56
13 7 0.44
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (13 bp):
TTTTCCCTTTTTC
Found at i:65895962 original size:20 final size:20
Alignment explanation
Indices: 65895941--65895977 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
65895931 ATTTATTTCT
65895941 TTTATGTT-TTATTATATGC
1 TTTATGTTATTATTATATGC
*
65895960 TTTATTTTATTATTATAT
1 TTTATGTTATTATTATAT
65895978 TATATTAATA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
19 7 0.44
20 9 0.56
ACGTcount: A:0.24, C:0.03, G:0.05, T:0.68
Consensus pattern (20 bp):
TTTATGTTATTATTATATGC
Found at i:65899245 original size:36 final size:36
Alignment explanation
Indices: 65899195--65899267 Score: 128
Period size: 36 Copynumber: 2.0 Consensus size: 36
65899185 GGAATACATC
*
65899195 AGGAAATTCACATACAGTTCAGATTTTACTATATTT
1 AGGAAATTCACATACAGTTCAGATTTTACTACATTT
*
65899231 AGGAAATTCGCATACAGTTCAGATTTTACTACATTT
1 AGGAAATTCACATACAGTTCAGATTTTACTACATTT
65899267 A
1 A
65899268 CTTTCCACCG
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
36 35 1.00
ACGTcount: A:0.36, C:0.15, G:0.12, T:0.37
Consensus pattern (36 bp):
AGGAAATTCACATACAGTTCAGATTTTACTACATTT
Found at i:65902647 original size:44 final size:44
Alignment explanation
Indices: 65902588--65902679 Score: 114
Period size: 44 Copynumber: 2.1 Consensus size: 44
65902578 CTGAAGTATC
*
65902588 AGTAACAGTACGACAC-ATAAAGTGCCTCATCGACAGAAAGTCGA
1 AGTAACAGTACGACACTAT-AAGTGCCTCATCGACACAAAGTCGA
* * * * *
65902632 AGTAACGGTAGGACACTATTAGTGCCTCATCGACTCAAGGTCGA
1 AGTAACAGTACGACACTATAAGTGCCTCATCGACACAAAGTCGA
65902676 AGTA
1 AGTA
65902680 TCCCTGTACA
Statistics
Matches: 41, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
44 39 0.95
45 2 0.05
ACGTcount: A:0.36, C:0.22, G:0.23, T:0.20
Consensus pattern (44 bp):
AGTAACAGTACGACACTATAAGTGCCTCATCGACACAAAGTCGA
Found at i:65912327 original size:17 final size:18
Alignment explanation
Indices: 65912276--65912327 Score: 52
Period size: 20 Copynumber: 2.8 Consensus size: 18
65912266 ATTAAAAAAA
65912276 TAATTAAATAATAAATAAG
1 TAATTAAA-AATAAATAAG
* *
65912295 TAATTTTAATACTAAATAAG
1 TAA--TTAAAAATAAATAAG
65912315 T-ATTAAAAATAAA
1 TAATTAAAAATAAA
65912328 AAAATATTTA
Statistics
Matches: 27, Mismatches: 4, Indels: 6
0.73 0.11 0.16
Matches are distributed among these distances:
17 9 0.33
19 4 0.15
20 10 0.37
21 4 0.15
ACGTcount: A:0.60, C:0.02, G:0.04, T:0.35
Consensus pattern (18 bp):
TAATTAAAAATAAATAAG
Found at i:65915336 original size:17 final size:16
Alignment explanation
Indices: 65915314--65915345 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
65915304 TTGATTAAAT
65915314 TATTAAAATATTATATA
1 TATTAAAATA-TATATA
65915331 TATTAAAATATATAT
1 TATTAAAATATATAT
65915346 TAAACGAATT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (16 bp):
TATTAAAATATATATA
Found at i:65916216 original size:16 final size:16
Alignment explanation
Indices: 65916180--65916215 Score: 56
Period size: 15 Copynumber: 2.3 Consensus size: 16
65916170 ATCTCATATC
*
65916180 TAAAACTTTGATATTA
1 TAAAACTTTGATAATA
65916196 TAAAAC-TTGATAATA
1 TAAAACTTTGATAATA
65916211 TAAAA
1 TAAAA
65916216 AAAAATGGGG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 13 0.68
16 6 0.32
ACGTcount: A:0.53, C:0.06, G:0.06, T:0.36
Consensus pattern (16 bp):
TAAAACTTTGATAATA
Found at i:65927023 original size:6 final size:6
Alignment explanation
Indices: 65927012--65927150 Score: 262
Period size: 6 Copynumber: 23.3 Consensus size: 6
65927002 TACGTTTGAA
65927012 ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT
1 ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT
65927060 ATATGT ATATGT ATATGT ATATGT ATAT-T ATATGT ATATGT ATATGT
1 ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT
*
65927107 ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT AGATGT AT
1 ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT AT
65927151 GTTTGTGACT
Statistics
Matches: 130, Mismatches: 2, Indels: 2
0.97 0.01 0.01
Matches are distributed among these distances:
5 5 0.04
6 125 0.96
ACGTcount: A:0.34, C:0.00, G:0.17, T:0.50
Consensus pattern (6 bp):
ATATGT
Found at i:65927744 original size:87 final size:89
Alignment explanation
Indices: 65927640--65927896 Score: 312
Period size: 87 Copynumber: 2.9 Consensus size: 89
65927630 CAATTATTCA
* *
65927640 AAATATCAAAATAGTAATTAAACAAATTGTCCCATTTAGATTAAATTATAATTAAAATAAGTTTA
1 AAATATCAAAATGGTAATTAAACCAATTGTCCCA-TTAGATTAAATTATAATTAAAATAAGTTTA
*
65927705 A-ATATGTCTTAATTAACTAA-AA-T
65 ATA-ATGCCTTAATTAACTAACAACT
* *
65927728 -AATATCAAAATGGTAATTCAACCAATTGTCCCACTTAAATTAAATTATAATTAAAATAAGTTTA
1 AAATATCAAAATGGTAATTAAACCAATTGTCCCA-TTAGATTAAATTATAATTAAAATAAGTTTA
65927792 ATAATGCCTTAATTAACTAACTAACT
65 ATAATGCCTTAATTAACTAAC-AACT
*
65927818 AAGCCAATATCAAAATGGTAATTAAACCAATTGT--C-TTAGATTAATTTATAATTAAAATAAGT
1 -A---AATATCAAAATGGTAATTAAACCAATTGTCCCATTAGATTAAATTATAATTAAAATAAGT
* * *
65927880 ATACTTATGCCTTAATT
62 TTAATAATGCCTTAATT
65927897 TTTAACTATA
Statistics
Matches: 148, Mismatches: 12, Indels: 15
0.85 0.07 0.09
Matches are distributed among these distances:
87 76 0.51
88 1 0.01
89 2 0.01
90 1 0.01
91 39 0.26
93 1 0.01
95 28 0.19
ACGTcount: A:0.46, C:0.11, G:0.07, T:0.36
Consensus pattern (89 bp):
AAATATCAAAATGGTAATTAAACCAATTGTCCCATTAGATTAAATTATAATTAAAATAAGTTTAA
TAATGCCTTAATTAACTAACAACT
Found at i:65927818 original size:95 final size:91
Alignment explanation
Indices: 65927718--65927896 Score: 241
Period size: 91 Copynumber: 1.9 Consensus size: 91
65927708 ATGTCTTAAT
* *
65927718 TAACTAAAATAATATCAAAATGGTAATTCAACCAATTGTCCCACTTAAATTAAATTATAATTAAA
1 TAACTAAAACAATATCAAAATGGTAATTAAACCAATTGT----CTTAAATTAAATTATAATTAAA
*
65927783 ATAAGTTTAATAATGCCTTAATTAACTAAC
62 ATAAGTATAATAATGCCTTAATTAACTAAC
** * *
65927813 TAACTAAGCCAATATCAAAATGGTAATTAAACCAATTGTCTTAGATTAATTTATAATTAAAATAA
1 TAACTAAAACAATATCAAAATGGTAATTAAACCAATTGTCTTAAATTAAATTATAATTAAAATAA
* *
65927878 GTATACTTATGCCTTAATT
66 GTATAATAATGCCTTAATT
65927897 TTTAACTATA
Statistics
Matches: 75, Mismatches: 9, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
91 40 0.53
95 35 0.47
ACGTcount: A:0.45, C:0.13, G:0.07, T:0.35
Consensus pattern (91 bp):
TAACTAAAACAATATCAAAATGGTAATTAAACCAATTGTCTTAAATTAAATTATAATTAAAATAA
GTATAATAATGCCTTAATTAACTAAC
Found at i:65927907 original size:24 final size:25
Alignment explanation
Indices: 65927879--65927929 Score: 95
Period size: 24 Copynumber: 2.1 Consensus size: 25
65927869 TTAAAATAAG
65927879 TATACTTATGCCTTAA-TTTTTAAC
1 TATACTTATGCCTTAATTTTTTAAC
65927903 TATACTTATGCCTTAATTTTTTAAC
1 TATACTTATGCCTTAATTTTTTAAC
65927928 TA
1 TA
65927930 ACTAACTAAG
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
24 16 0.62
25 10 0.38
ACGTcount: A:0.29, C:0.16, G:0.04, T:0.51
Consensus pattern (25 bp):
TATACTTATGCCTTAATTTTTTAAC
Found at i:65929843 original size:20 final size:20
Alignment explanation
Indices: 65929820--65929868 Score: 71
Period size: 20 Copynumber: 2.5 Consensus size: 20
65929810 GAACCACTCA
*
65929820 ATTTACTTTCTTACCATTCC
1 ATTTACTTACTTACCATTCC
* *
65929840 ATTTACTTACTTTCCATTTC
1 ATTTACTTACTTACCATTCC
65929860 ATTTACTTA
1 ATTTACTTA
65929869 GCATAAACTT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.22, C:0.24, G:0.00, T:0.53
Consensus pattern (20 bp):
ATTTACTTACTTACCATTCC
Found at i:65933044 original size:39 final size:40
Alignment explanation
Indices: 65932936--65933053 Score: 154
Period size: 40 Copynumber: 3.0 Consensus size: 40
65932926 TTTGATGTGA
65932936 AATTGTATCCGGGCTTAAAGACCCGCAGGCTTCGTGCTAG
1 AATTGTATCCGGGCTTAAAGACCCGCAGGCTTCGTGCTAG
* *
65932976 AATTGTATCCGGGCTTAAAGACCCACAGGCTTCGTGCTGG
1 AATTGTATCCGGGCTTAAAGACCCGCAGGCTTCGTGCTAG
* * *
65933016 AA-TGCTATCC-GGATTAAAAACCTGCAGGC-T-GTGCTAG
1 AATTG-TATCCGGGCTTAAAGACCCGCAGGCTTCGTGCTAG
65933053 A
1 A
65933054 TATGTGTTTC
Statistics
Matches: 70, Mismatches: 7, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
37 7 0.10
38 1 0.01
39 17 0.24
40 45 0.64
ACGTcount: A:0.25, C:0.24, G:0.26, T:0.25
Consensus pattern (40 bp):
AATTGTATCCGGGCTTAAAGACCCGCAGGCTTCGTGCTAG
Found at i:65936543 original size:21 final size:21
Alignment explanation
Indices: 65936517--65936558 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
65936507 AATTATTTTT
* *
65936517 ATATATTTTATTACGATATTA
1 ATATATGTTATTAAGATATTA
65936538 ATATATGTTATTAAGATATTA
1 ATATATGTTATTAAGATATTA
65936559 GTTATAATTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.40, C:0.02, G:0.07, T:0.50
Consensus pattern (21 bp):
ATATATGTTATTAAGATATTA
Found at i:65950777 original size:46 final size:47
Alignment explanation
Indices: 65950668--65950976 Score: 201
Period size: 46 Copynumber: 6.5 Consensus size: 47
65950658 TATGAGAGCC
* *** * *
65950668 AGTGTAAGATCATGTCTGGGACATGGCATCGGTATTGAGACG-AGAGCT
1 AGTGTAAGACCATGTCTGGGACAT-GCATCGACCTCGAGATGTA-AGCT
* *
65950716 AGTGTAAG-GCATGTCTGGGACATGCAACGACCTCGAGATGTAAGCT
1 AGTGTAAGACCATGTCTGGGACATGCATCGACCTCGAGATGTAAGCT
* *
65950762 AGTGTAAGA-CGTGTCTGGGACATGCATCGA-CTACGAGATGT--GTT
1 AGTGTAAGACCATGTCTGGGACATGCATCGACCT-CGAGATGTAAGCT
* * *
65950806 AGTGTAAGACCATGTCTGGGACATGGCATCGGCAC-GGATATGTGAGAGCT
1 AGTGTAAGACCATGTCTGGGACAT-GCATCGAC-CTCGAGATGT-A-AGCT
** * **
65950856 AGTGTAAGACCATGTCTGGGACATGGTGTCGGCCTCGACTTAG-ATAG-T
1 AGTGTAAGACCATGTCTGGGACAT-GCATCGACCTCGAGAT-GTA-AGCT
* * *
65950904 CAATGTAAGACCATGTCTAGGACATGACATCGA-CT--TGATGGATAAGCT
1 -AGTGTAAGACCATGTCTGGGACATG-CATCGACCTCGAGAT-G-TAAGCT
* *
65950952 AGGGTAAGACCATGTCCGGGACATG
1 AGTGTAAGACCATGTCTGGGACATG
65950977 GCATTAGCAT
Statistics
Matches: 209, Mismatches: 34, Indels: 37
0.75 0.12 0.13
Matches are distributed among these distances:
44 11 0.05
45 15 0.07
46 64 0.31
47 38 0.18
48 15 0.07
49 29 0.14
50 36 0.17
51 1 0.00
ACGTcount: A:0.27, C:0.18, G:0.31, T:0.24
Consensus pattern (47 bp):
AGTGTAAGACCATGTCTGGGACATGCATCGACCTCGAGATGTAAGCT
Found at i:65957157 original size:22 final size:22
Alignment explanation
Indices: 65957129--65957172 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
65957119 CTTACACTGA
65957129 CACATCTCGTAGCTGATGCATG
1 CACATCTCGTAGCTGATGCATG
65957151 CACATCTCGTAGCTGATGCATG
1 CACATCTCGTAGCTGATGCATG
65957173 TCCCAGACAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.23, C:0.27, G:0.23, T:0.27
Consensus pattern (22 bp):
CACATCTCGTAGCTGATGCATG
Found at i:65957229 original size:46 final size:45
Alignment explanation
Indices: 65957162--65957329 Score: 192
Period size: 46 Copynumber: 3.6 Consensus size: 45
65957152 ACATCTCGTA
*
65957162 GCTGATGCATGTCCCAGACATGTCTTATACTGGCTTACGTCTTGAG
1 GCTGATGCATGTCCCAGACATGTCTTACACTGGCTT-CGTCTTGAG
* * ** *
65957208 GCTGATGCATGTCCCAGACATGTCTTACACTAGCACTCGTCTCAAT
1 GCTGATGCATGTCCCAGACATGTCTTACACTGGC-TTCGTCTTGAG
* * ** *
65957254 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGTG
1 GCTGATG-CATGTCCCAGACAT-GTCTTACACTGGCT-TCGTCTTGAG
65957302 GCTGATGCATGTCCCAGACATGTCTTAC
1 GCTGATGCATGTCCCAGACATGTCTTAC
65957330 TCTAGCTCAC
Statistics
Matches: 101, Mismatches: 17, Indels: 8
0.80 0.13 0.06
Matches are distributed among these distances:
46 51 0.50
47 29 0.29
48 21 0.21
ACGTcount: A:0.21, C:0.28, G:0.21, T:0.29
Consensus pattern (45 bp):
GCTGATGCATGTCCCAGACATGTCTTACACTGGCTTCGTCTTGAG
Found at i:65957329 original size:94 final size:92
Alignment explanation
Indices: 65957165--65957335 Score: 254
Period size: 94 Copynumber: 1.8 Consensus size: 92
65957155 TCTCGTAGCT
* * **
65957165 GATGCATGTCCCAGACATGTCTTATACTGGCTTACGTCTTGAGGCTGATGCATGTCCCAGACATG
1 GATGCATGTCCCAGACATGTCTTACACTGGCTTACATAATGAGGCTGATGCATGTCCCAGACATG
65957230 TCTTACACTAGCACTCGTCTCAATGCC
66 TCTTACACTAGCACTCGTCTCAATGCC
*
65957257 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCT-CATAATGTGGCTGATGCATGTCCCAGAC
1 GATG-CATGTCCCAGACAT-GTCTTACACTGGCT-TACATAATGAGGCTGATGCATGTCCCAGAC
*
65957321 ATGTCTTACTCTAGC
63 ATGTCTTACACTAGC
65957336 TCACACAAAT
Statistics
Matches: 70, Mismatches: 6, Indels: 4
0.88 0.08 0.05
Matches are distributed among these distances:
92 4 0.06
93 14 0.20
94 51 0.73
95 1 0.01
ACGTcount: A:0.22, C:0.28, G:0.21, T:0.29
Consensus pattern (92 bp):
GATGCATGTCCCAGACATGTCTTACACTGGCTTACATAATGAGGCTGATGCATGTCCCAGACATG
TCTTACACTAGCACTCGTCTCAATGCC
Found at i:65958143 original size:123 final size:123
Alignment explanation
Indices: 65957924--65958170 Score: 406
Period size: 123 Copynumber: 2.0 Consensus size: 123
65957914 TAACCAAGAC
* *
65957924 TGTAACATCCCGATTTTAGGCTTAGTCAGAACAGTGGTTTTGGGACCACAAATTCAATGAGGAAA
1 TGTAACATCCCAATTTTAGGCTTAGTCAGAACAGTGGTTTTGGGACCACAAATTCAATGAGAAAA
* * *
65957989 ATTTCATTTTTATTATATTTTTATGGTCTACGATTTCACGTAATGATTTTGTGAAAAT
66 ATTTCATTTTTATTATATTTTTATGGTCTACGATTTCACGAAATAATTTCGTGAAAAT
* *
65958047 TGTAACATCCCAATTTTAGGCTTAGTCGGAATAGTGGTTTTGGGACCACAAATT-AGATGAGAAA
1 TGTAACATCCCAATTTTAGGCTTAGTCAGAACAGTGGTTTTGGGACCACAAATTCA-ATGAGAAA
*
65958111 AATTTTATTTTTATTATATTTTTATGGTCTACGATTTCACGAAATAATTTCGTGAAAAT
65 AATTTCATTTTTATTATATTTTTATGGTCTACGATTTCACGAAATAATTTCGTGAAAAT
65958170 T
1 T
65958171 TCGTTCGAAA
Statistics
Matches: 115, Mismatches: 8, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
122 1 0.01
123 114 0.99
ACGTcount: A:0.31, C:0.12, G:0.17, T:0.39
Consensus pattern (123 bp):
TGTAACATCCCAATTTTAGGCTTAGTCAGAACAGTGGTTTTGGGACCACAAATTCAATGAGAAAA
ATTTCATTTTTATTATATTTTTATGGTCTACGATTTCACGAAATAATTTCGTGAAAAT
Found at i:65968146 original size:19 final size:19
Alignment explanation
Indices: 65968109--65968147 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
65968099 GGAGAATTTT
*
65968109 TGTTTTTTAATATTATATA
1 TGTTTTTTAAAATTATATA
65968128 TGTTATTTTAAAATT-TATA
1 TGTT-TTTTAAAATTATATA
65968147 T
1 T
65968148 TCAAGTTTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 9 0.50
20 9 0.50
ACGTcount: A:0.33, C:0.00, G:0.05, T:0.62
Consensus pattern (19 bp):
TGTTTTTTAAAATTATATA
Found at i:65972042 original size:28 final size:29
Alignment explanation
Indices: 65971985--65972045 Score: 90
Period size: 28 Copynumber: 2.1 Consensus size: 29
65971975 TATGCATGAC
65971985 TATAAATGTGAATTGGGCCTGATGGACCA
1 TATAAATGTGAATTGGGCCTGATGGACCA
*
65972014 TATAAATGTG-ATTGGGCCT-AGTGGGCCA
1 TATAAATGTGAATTGGGCCTGA-TGGACCA
65972042 TATA
1 TATA
65972046 CAAGTATGTG
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
27 1 0.03
28 19 0.63
29 10 0.33
ACGTcount: A:0.30, C:0.13, G:0.28, T:0.30
Consensus pattern (29 bp):
TATAAATGTGAATTGGGCCTGATGGACCA
Found at i:65974149 original size:18 final size:18
Alignment explanation
Indices: 65974126--65974161 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
65974116 TCCGTAAATA
65974126 TTATTAATTAATATTTAC
1 TTATTAATTAATATTTAC
65974144 TTATTAATTAATATTTAC
1 TTATTAATTAATATTTAC
65974162 GAGTTAATTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.39, C:0.06, G:0.00, T:0.56
Consensus pattern (18 bp):
TTATTAATTAATATTTAC
Found at i:65974168 original size:18 final size:18
Alignment explanation
Indices: 65974128--65974185 Score: 64
Period size: 18 Copynumber: 3.1 Consensus size: 18
65974118 CGTAAATATT
*
65974128 ATTAATTAATATTTACTT
1 ATTAATTAATATTTACTG
65974146 ATTAATTAATATTTAC-G
1 ATTAATTAATATTTACTG
65974163 AGTTAATTATGATATTATACTG
1 A-TTAATTA--ATATT-TACTG
65974185 A
1 A
65974186 ATTTAGGTCT
Statistics
Matches: 34, Mismatches: 1, Indels: 6
0.83 0.02 0.15
Matches are distributed among these distances:
17 1 0.03
18 23 0.68
20 5 0.15
21 3 0.09
22 2 0.06
ACGTcount: A:0.40, C:0.05, G:0.07, T:0.48
Consensus pattern (18 bp):
ATTAATTAATATTTACTG
Found at i:65974574 original size:8 final size:8
Alignment explanation
Indices: 65974561--65974589 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
65974551 TGATTAAAAT
65974561 TAAAATTA
1 TAAAATTA
65974569 TAAAATTA
1 TAAAATTA
65974577 TAAAATTA
1 TAAAATTA
65974585 TAAAA
1 TAAAA
65974590 AGATATTAGT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (8 bp):
TAAAATTA
Found at i:65978814 original size:37 final size:36
Alignment explanation
Indices: 65978761--65978855 Score: 129
Period size: 37 Copynumber: 2.6 Consensus size: 36
65978751 ACATATGCCG
* *
65978761 TGGCGTGTTACTGGTTGGATTAGCTCTT-TGGAGTATT
1 TGGCGTGTTAC-GGTTGGATTAGCCCTTAT-GAGCATT
65978798 TGGCGTGTTAACGGTTGGATTAGCCCTTATGAGCATT
1 TGGCGTGTT-ACGGTTGGATTAGCCCTTATGAGCATT
*
65978835 TGGCGTGTTTCGGTTGGATTA
1 TGGCGTGTTACGGTTGGATTA
65978856 CTTGTGTACT
Statistics
Matches: 53, Mismatches: 3, Indels: 5
0.87 0.05 0.08
Matches are distributed among these distances:
36 11 0.21
37 39 0.74
38 3 0.06
ACGTcount: A:0.15, C:0.13, G:0.33, T:0.40
Consensus pattern (36 bp):
TGGCGTGTTACGGTTGGATTAGCCCTTATGAGCATT
Found at i:65982434 original size:47 final size:47
Alignment explanation
Indices: 65982336--65982463 Score: 157
Period size: 47 Copynumber: 2.7 Consensus size: 47
65982326 AATCGATAAG
* * *
65982336 TACCTATACCATGGCCCATAGCCAAAGCAAGGTAACTTATCCCAGAG
1 TACCTATACCATGGCCCATAGCCAAATCAAGGTAACTCATCCCAGAA
* * ****
65982383 TACCTATACCATGGGCCATAGCCAAATCAAGGTAACTCCTTTTTGAA
1 TACCTATACCATGGCCCATAGCCAAATCAAGGTAACTCATCCCAGAA
* *
65982430 TACCTATACCATAGCCCATAGCTAAATCAAGGTA
1 TACCTATACCATGGCCCATAGCCAAATCAAGGTA
65982464 TTATTCGCAC
Statistics
Matches: 69, Mismatches: 12, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
47 69 1.00
ACGTcount: A:0.34, C:0.27, G:0.15, T:0.23
Consensus pattern (47 bp):
TACCTATACCATGGCCCATAGCCAAATCAAGGTAACTCATCCCAGAA
Found at i:65983092 original size:29 final size:29
Alignment explanation
Indices: 65983028--65983093 Score: 71
Period size: 29 Copynumber: 2.3 Consensus size: 29
65983018 ATTTTATTTA
* *
65983028 TTTCACAATTTAACCCCTTAATTTACACT
1 TTTCTCAATTTAACCCCTTAATATACACT
* * *
65983057 TTTCTCAATTTAA-TCCTTAATATGCATT
1 TTTCTCAATTTAACCCCTTAATATACACT
65983085 TTTACTCAA
1 TTT-CTCAA
65983094 AATCACTTTA
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
28 14 0.45
29 17 0.55
ACGTcount: A:0.30, C:0.23, G:0.02, T:0.45
Consensus pattern (29 bp):
TTTCTCAATTTAACCCCTTAATATACACT
Found at i:66005143 original size:43 final size:44
Alignment explanation
Indices: 66005074--66005230 Score: 139
Period size: 43 Copynumber: 3.7 Consensus size: 44
66005064 AGCTCATACA
* *
66005074 ATGCCAAC-GTCCCAGACATGGCCTTACATGTAATCAAATATCG
1 ATGCCAACTGTCCCAGACAGGGTCTTACATGTAATCAAATATCG
* * *
66005117 ATGCC-ACTGTCCTAGACAGGGTCTTACACT-AAATCAAATA-CA
1 ATGCCAACTGTCCCAGACAGGGTCTTACA-TGTAATCAAATATCG
* * * * *
66005159 ATGCCGA-TGTCTCAGACATGGTCTTACATGTAAATCATATGTCG
1 ATGCCAACTGTCCCAGACAGGGTCTTACATGT-AATCAAATATCG
*
66005203 ATTCCAA-TGTCCCAGAC-GTGGTCTTACA
1 ATGCCAACTGTCCCAGACAG-GGTCTTACA
66005231 CGAAAACACA
Statistics
Matches: 91, Mismatches: 16, Indels: 13
0.76 0.13 0.11
Matches are distributed among these distances:
41 1 0.01
42 26 0.29
43 39 0.43
44 25 0.27
ACGTcount: A:0.31, C:0.25, G:0.17, T:0.27
Consensus pattern (44 bp):
ATGCCAACTGTCCCAGACAGGGTCTTACATGTAATCAAATATCG
Found at i:66005264 original size:86 final size:84
Alignment explanation
Indices: 66005069--66005238 Score: 198
Period size: 86 Copynumber: 2.0 Consensus size: 84
66005059 CAGAAAGCTC
* * * * *
66005069 ATACAATGCCAACGTCCCAGACATGGCCTTACATGTAATCAAATATCGATGCCACTGTCCTAGAC
1 ATACAATGCCGATGT-CTAGACATGGCCTTACATGTAATCAAATATCGATGCCAATGTCCCAGAC
* *
66005134 AGGGTCTTACACTAAATCAA
65 AGGGTCTTACACGAAAACAA
* * * *
66005154 ATACAATGCCGATGTCTCAGACATGGTCTTACATGTAAATCATATGTCGATTCCAATGTCCCAGA
1 ATACAATGCCGATGTCT-AGACATGGCCTTACATGT-AATCAAATATCGATGCCAATGTCCCAGA
66005219 C-GTGGTCTTACACGAAAACA
64 CAG-GGTCTTACACGAAAACA
66005239 CATATCGGAT
Statistics
Matches: 71, Mismatches: 11, Indels: 5
0.82 0.13 0.06
Matches are distributed among these distances:
84 1 0.01
85 31 0.44
86 39 0.55
ACGTcount: A:0.33, C:0.25, G:0.16, T:0.25
Consensus pattern (84 bp):
ATACAATGCCGATGTCTAGACATGGCCTTACATGTAATCAAATATCGATGCCAATGTCCCAGACA
GGGTCTTACACGAAAACAA
Found at i:66012311 original size:94 final size:92
Alignment explanation
Indices: 66012192--66012365 Score: 244
Period size: 94 Copynumber: 1.9 Consensus size: 92
66012182 ACAACTCTTA
* * *
66012192 GCCAATGCATGTCCTGGACATGTCTTACACTGGCT-TACGTTACGAGGCCAATGCATGTCCTAGG
1 GCCAATGCATGTCCTGGACATGTCTTACACTGGCTCT-CATAACGAGGCCAATGCATGTCCTAGA
66012256 CATGTCTTACACTAGCACTCGTCTCAAT
65 CATGTCTTACACTAGCACTCGTCTCAAT
* * *
66012284 GCCAATGCCATGTCC-GAGACATGGTCTTACACTGGCTCTCATAATGTGGCCGATGCATGTCCTA
1 GCCAATG-CATGTCCTG-GACAT-GTCTTACACTGGCTCTCATAACGAGGCCAATGCATGTCCTA
66012348 GACATGTCTTACACTAGC
63 GACATGTCTTACACTAGC
66012366 TCACATAAGT
Statistics
Matches: 72, Mismatches: 6, Indels: 6
0.86 0.07 0.07
Matches are distributed among these distances:
92 8 0.11
93 12 0.17
94 51 0.71
95 1 0.01
ACGTcount: A:0.23, C:0.28, G:0.21, T:0.28
Consensus pattern (92 bp):
GCCAATGCATGTCCTGGACATGTCTTACACTGGCTCTCATAACGAGGCCAATGCATGTCCTAGAC
ATGTCTTACACTAGCACTCGTCTCAAT
Found at i:66012373 original size:46 final size:45
Alignment explanation
Indices: 66012192--66012381 Score: 170
Period size: 46 Copynumber: 4.1 Consensus size: 45
66012182 ACAACTCTTA
* * * * * *
66012192 GCCAATGCATGTCCTGGACATGTCTTACACTGGCTTACGTTACGAG
1 GCCAATGCATGTCCTAGACATGTCTTACACTAGCTCAC-ATAAGTG
* *
66012238 GCCAATGCATGTCCTAGGCATGTCTTACACTAGCACTCGTC-TCAA-T-
1 GCCAATGCATGTCCTAGACATGTCTTACACTAG--CTC-ACAT-AAGTG
* * *
66012284 GCCAATGCCATGTCCGAGACATGGTCTTACACTGGCTCTCATAATGTG
1 GCCAATG-CATGTCCTAGACAT-GTCTTACACTAGCTCACATAA-GTG
*
66012332 GCCGATGCATGTCCTAGACATGTCTTACACTAGCTCACATAAGTG
1 GCCAATGCATGTCCTAGACATGTCTTACACTAGCTCACATAAGTG
*
66012377 ACCAA
1 GCCAA
66012382 AATGTCACGG
Statistics
Matches: 118, Mismatches: 16, Indels: 21
0.76 0.10 0.14
Matches are distributed among these distances:
45 10 0.08
46 60 0.51
47 27 0.23
48 20 0.17
49 1 0.01
ACGTcount: A:0.25, C:0.28, G:0.21, T:0.27
Consensus pattern (45 bp):
GCCAATGCATGTCCTAGACATGTCTTACACTAGCTCACATAAGTG
Found at i:66015409 original size:42 final size:43
Alignment explanation
Indices: 66015344--66015457 Score: 140
Period size: 42 Copynumber: 2.6 Consensus size: 43
66015334 GAAAGCTTGT
* * *
66015344 AATCAAATATTGATGCCACTGTCCCAGACAGGGTCTTACATG-A
1 AATCAAATA-CGATGCCAATGTCCCAGACAGGGTCTTACACGTA
*
66015387 AATCAAATACGATGCCAATGTCCCAGACATGGTCTTACACGTA
1 AATCAAATACGATGCCAATGTCCCAGACAGGGTCTTACACGTA
* * *
66015430 AATCATATGACAATGCCAACGTCCCAGA
1 AATCAAAT-ACGATGCCAATGTCCCAGA
66015458 TGTGGTCTTC
Statistics
Matches: 62, Mismatches: 7, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
42 28 0.45
43 17 0.27
44 17 0.27
ACGTcount: A:0.35, C:0.25, G:0.17, T:0.23
Consensus pattern (43 bp):
AATCAAATACGATGCCAATGTCCCAGACAGGGTCTTACACGTA
Found at i:66015457 original size:44 final size:42
Alignment explanation
Indices: 66015356--66015474 Score: 132
Period size: 44 Copynumber: 2.8 Consensus size: 42
66015346 TCAAATATTG
* * *
66015356 ATGCC-ACTGTCCCAGACAGGGTCTTACATGAAATCAAATACG
1 ATGCCAAC-GTCCCAGACATGGTCTTACACGAAATCAAATACA
* *
66015398 ATGCCAATGTCCCAGACATGGTCTTACACGTAAATCATATGACA
1 ATGCCAACGTCCCAGACATGGTCTTACACG-AAATCAAAT-ACA
** *
66015442 ATGCCAACGTCCCAGATGTGGTCTTCCACGAAA
1 ATGCCAACGTCCCAGACATGGTCTTACACGAAA
66015475 AAACATATCA
Statistics
Matches: 65, Mismatches: 9, Indels: 5
0.82 0.11 0.06
Matches are distributed among these distances:
42 25 0.38
43 12 0.18
44 28 0.43
ACGTcount: A:0.32, C:0.27, G:0.18, T:0.23
Consensus pattern (42 bp):
ATGCCAACGTCCCAGACATGGTCTTACACGAAATCAAATACA
Found at i:66020328 original size:27 final size:26
Alignment explanation
Indices: 66020268--66020375 Score: 126
Period size: 27 Copynumber: 4.0 Consensus size: 26
66020258 CATGGCTGCT
* *
66020268 AGAACAGATAATGTGACAGAGTCACC
1 AGAACAGATAATGTGGCAGAGCCACC
66020294 AGATACAGATAATCGTGGCAGAGCCACC
1 AGA-ACAGATAAT-GTGGCAGAGCCACC
*
66020322 AGAACAGATATATGTGGCAGAGCCCCC
1 AGAACAGATA-ATGTGGCAGAGCCACC
* *
66020349 AGATCAGATAATTTGTGGCATAGCCAC
1 AGAACAGATAA--TGTGGCAGAGCCAC
66020376 TAGGACGCTT
Statistics
Matches: 71, Mismatches: 6, Indels: 8
0.84 0.07 0.09
Matches are distributed among these distances:
26 4 0.06
27 38 0.54
28 29 0.41
ACGTcount: A:0.36, C:0.22, G:0.24, T:0.18
Consensus pattern (26 bp):
AGAACAGATAATGTGGCAGAGCCACC
Found at i:66020351 original size:55 final size:54
Alignment explanation
Indices: 66020268--66020375 Score: 146
Period size: 55 Copynumber: 2.0 Consensus size: 54
66020258 CATGGCTGCT
*
66020268 AGAACAGATAATGTGACAGAGTCACCAGATACAGATAA-TCGTGGCAGAGCCACC
1 AGAACAGATAATGTGACAGAGCCACCAGAT-CAGATAATTCGTGGCAGAGCCACC
* * * *
66020322 AGAACAGATATATGTGGCAGAGCCCCCAGATCAGATAATTTGTGGCATAGCCAC
1 AGAACAGATA-ATGTGACAGAGCCACCAGATCAGATAATTCGTGGCAGAGCCAC
66020376 TAGGACGCTT
Statistics
Matches: 47, Mismatches: 5, Indels: 3
0.85 0.09 0.05
Matches are distributed among these distances:
54 17 0.36
55 30 0.64
ACGTcount: A:0.36, C:0.22, G:0.24, T:0.18
Consensus pattern (54 bp):
AGAACAGATAATGTGACAGAGCCACCAGATCAGATAATTCGTGGCAGAGCCACC
Found at i:66024264 original size:42 final size:43
Alignment explanation
Indices: 66024199--66024317 Score: 129
Period size: 44 Copynumber: 2.8 Consensus size: 43
66024189 TCAAATATCA
* * *
66024199 ATGCC-ACTGTCCCAGATAGGGTCTTACACAAAATCA-AA-TATG
1 ATGCCAAC-GTCCCAGACATGGTCTTACACAAAATCATAAGT-CG
* *
66024241 ATGCCGATGTCCCA-ACCATGGTCTTACACATAAATCATAAGTCG
1 ATGCCAACGTCCCAGA-CATGGTCTTACACA-AAATCATAAGTCG
66024285 ATGCCAACGTCCCAGACATGGTCTTACACAAAA
1 ATGCCAACGTCCCAGACATGGTCTTACACAAAA
66024318 ACACATATAG
Statistics
Matches: 65, Mismatches: 6, Indels: 11
0.79 0.07 0.13
Matches are distributed among these distances:
41 1 0.02
42 23 0.35
43 10 0.15
44 29 0.45
45 2 0.03
ACGTcount: A:0.34, C:0.27, G:0.16, T:0.23
Consensus pattern (43 bp):
ATGCCAACGTCCCAGACATGGTCTTACACAAAATCATAAGTCG
Found at i:66024297 original size:44 final size:42
Alignment explanation
Indices: 66024156--66024317 Score: 141
Period size: 43 Copynumber: 3.8 Consensus size: 42
66024146 AGCTCGTACA
* * * *** *
66024156 ATGCCAACGTCCTAGACGTGGTTTTACATGTAATCAAATATCA
1 ATGCCAACGTCCCAGACATGGTCTTACACAAAATCAAATA-CG
* * *
66024199 ATGCC-ACTGTCCCAGATAGGGTCTTACACAAAATCAAATATG
1 ATGCCAAC-GTCCCAGACATGGTCTTACACAAAATCAAATACG
* *
66024241 ATGCCGATGTCCCA-ACCATGGTCTTACACATAAATCATAAGT-CG
1 ATGCCAACGTCCCAGA-CATGGTCTTACACA-AAATCA-AA-TACG
66024285 ATGCCAACGTCCCAGACATGGTCTTACACAAAA
1 ATGCCAACGTCCCAGACATGGTCTTACACAAAA
66024318 ACACATATAG
Statistics
Matches: 96, Mismatches: 16, Indels: 14
0.76 0.13 0.11
Matches are distributed among these distances:
41 1 0.01
42 25 0.26
43 39 0.41
44 29 0.30
45 2 0.02
ACGTcount: A:0.34, C:0.25, G:0.16, T:0.25
Consensus pattern (42 bp):
ATGCCAACGTCCCAGACATGGTCTTACACAAAATCAAATACG
Found at i:66036958 original size:27 final size:27
Alignment explanation
Indices: 66036928--66036981 Score: 99
Period size: 27 Copynumber: 2.0 Consensus size: 27
66036918 AAAAGAAGTT
*
66036928 AATGTGGCTTATAATGTAGGTAATTTG
1 AATGTGGCTTATAATGGAGGTAATTTG
66036955 AATGTGGCTTATAATGGAGGTAATTTG
1 AATGTGGCTTATAATGGAGGTAATTTG
66036982 CATTAAGCGG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.30, C:0.04, G:0.28, T:0.39
Consensus pattern (27 bp):
AATGTGGCTTATAATGGAGGTAATTTG
Found at i:66042698 original size:43 final size:43
Alignment explanation
Indices: 66042650--66042904 Score: 313
Period size: 43 Copynumber: 6.0 Consensus size: 43
66042640 TGCCGAGATG
66042650 TGATTACATGTAAGACCATGTCTGGGACATTGGCATTGTATTA
1 TGATTACATGTAAGACCATGTCTGGGACATTGGCATTGTATTA
66042693 TGATTACATGTAAGACCATGTCTGGGACATTGGCATTGTATTA
1 TGATTACATGTAAGACCATGTCTGGGACATTGGCATTGTATTA
* *
66042736 TGATTACATGTAAGACCATGTCTGGGACATTGGCATCGTTATTC
1 TGATTACATGTAAGACCATGTCTGGGACATTGGCATTG-TATTA
* *
66042780 T-ATTACATGTAAGACCATGTTTGGGACATTGGCA-T-CATTAA
1 TGATTACATGTAAGACCATGTCTGGGACATTGGCATTGTATT-A
* * * * * *
66042821 TCGATTTCGTGTAAGACCCTGTCTGGGACAATGGCATCG-ATATG
1 T-GATTACATGTAAGACCATGTCTGGGACATTGGCATTGTAT-TA
* * * *
66042865 TGGTAACATGTAAGACCATATCTGGGATA-TGGCATTGTAT
1 TGATTACATGTAAGACCATGTCTGGGACATTGGCATTGTAT
66042905 GAGTTAAATA
Statistics
Matches: 183, Mismatches: 21, Indels: 16
0.83 0.10 0.07
Matches are distributed among these distances:
40 3 0.02
41 1 0.01
42 7 0.04
43 163 0.89
44 8 0.04
45 1 0.01
ACGTcount: A:0.27, C:0.16, G:0.24, T:0.33
Consensus pattern (43 bp):
TGATTACATGTAAGACCATGTCTGGGACATTGGCATTGTATTA
Found at i:66047807 original size:30 final size:30
Alignment explanation
Indices: 66047771--66047827 Score: 105
Period size: 30 Copynumber: 1.9 Consensus size: 30
66047761 CGATGATTGT
66047771 TTAAGATTCGTAGGCCGAATATGTGTTCTG
1 TTAAGATTCGTAGGCCGAATATGTGTTCTG
*
66047801 TTAAGATTCGTTGGCCGAATATGTGTT
1 TTAAGATTCGTAGGCCGAATATGTGTT
66047828 TTGAGAAATT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.23, C:0.12, G:0.26, T:0.39
Consensus pattern (30 bp):
TTAAGATTCGTAGGCCGAATATGTGTTCTG
Found at i:66049773 original size:45 final size:45
Alignment explanation
Indices: 66049711--66049804 Score: 188
Period size: 45 Copynumber: 2.1 Consensus size: 45
66049701 AATTTTTGAG
66049711 TTTTTTTTGTGATTTTGTAAAATGCCATTGATGATAGCTTGATGT
1 TTTTTTTTGTGATTTTGTAAAATGCCATTGATGATAGCTTGATGT
66049756 TTTTTTTTGTGATTTTGTAAAATGCCATTGATGATAGCTTGATGT
1 TTTTTTTTGTGATTTTGTAAAATGCCATTGATGATAGCTTGATGT
66049801 TTTT
1 TTTT
66049805 GAGTCTTGAT
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 49 1.00
ACGTcount: A:0.21, C:0.06, G:0.19, T:0.53
Consensus pattern (45 bp):
TTTTTTTTGTGATTTTGTAAAATGCCATTGATGATAGCTTGATGT
Found at i:66050460 original size:43 final size:43
Alignment explanation
Indices: 66050399--66050530 Score: 167
Period size: 43 Copynumber: 3.1 Consensus size: 43
66050389 TGTTATTCCA
** * *
66050399 TGTAAGACCATGTTTGGGACATTTTCATTG-TATTATGATTACG
1 TGTAAGACCATGTTTGGGACATTGGCATCGTTATT-CGATTACG
*
66050442 TGTAAGACCATGTTTGGGACATTGGCATCGTTATTCGATTATG
1 TGTAAGACCATGTTTGGGACATTGGCATCGTTATTCGATTACG
* * * *
66050485 TGTAAGACCATGTCTAGGACATTGGCATCGTTATTTGGTTACG
1 TGTAAGACCATGTTTGGGACATTGGCATCGTTATTCGATTACG
66050528 TGT
1 TGT
66050531 GAGGAAATGC
Statistics
Matches: 78, Mismatches: 10, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
43 74 0.95
44 4 0.05
ACGTcount: A:0.23, C:0.14, G:0.24, T:0.39
Consensus pattern (43 bp):
TGTAAGACCATGTTTGGGACATTGGCATCGTTATTCGATTACG
Found at i:66051536 original size:16 final size:17
Alignment explanation
Indices: 66051504--66051542 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
66051494 ACTAACTGAT
*
66051504 AAAAAATAAACAGCTAA
1 AAAAAATAAACAACTAA
66051521 AAAAAATAAA-AACTAA
1 AAAAAATAAACAACTAA
66051537 ACAAAA
1 A-AAAA
66051543 GAATTTCCCC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 6 0.30
17 14 0.70
ACGTcount: A:0.77, C:0.10, G:0.03, T:0.10
Consensus pattern (17 bp):
AAAAAATAAACAACTAA
Found at i:66051542 original size:17 final size:17
Alignment explanation
Indices: 66051504--66051542 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 17
66051494 ACTAACTGAT
*
66051504 AAAAAATAAACAGCTAA
1 AAAAAATAAACAACTAA
66051521 AAAAAATAAA-AACTAA
1 AAAAAATAAACAACTAA
*
66051537 ACAAAA
1 AAAAAA
66051543 GAATTTCCCC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
16 10 0.50
17 10 0.50
ACGTcount: A:0.77, C:0.10, G:0.03, T:0.10
Consensus pattern (17 bp):
AAAAAATAAACAACTAA
Found at i:66060711 original size:67 final size:67
Alignment explanation
Indices: 66060602--66060816 Score: 358
Period size: 67 Copynumber: 3.1 Consensus size: 67
66060592 CATCATGTGT
*
66060602 ACAAGAGAGCTACGAGATACTATGTGGTAGCTAGGTCGCATGTGTGGTTCCAAGTGAAGGACACC
1 ACAAGAGAGCTACGAGATA--A-AT-GTAGCTAGGTCGCATGTGTGGTTCCAAGTGAAGGACACC
66060667 ATGTAG
62 ATGTAG
* *
66060673 ACAAGAGAGCTATGGGATAAATGTAGCTAGGTCGCATGTGTGGTTCCAAGTGAAGGACACCATGT
1 ACAAGAGAGCTACGAGATAAATGTAGCTAGGTCGCATGTGTGGTTCCAAGTGAAGGACACCATGT
66060738 AG
66 AG
*
66060740 ACAAGAGAGCTACGAGATAAATGTAGCTAGGTCACATGTGTGGTTCCAAGTGAAGGACACCATGT
1 ACAAGAGAGCTACGAGATAAATGTAGCTAGGTCGCATGTGTGGTTCCAAGTGAAGGACACCATGT
66060805 AG
66 AG
66060807 ACAAGAGAGC
1 ACAAGAGAGC
66060817 CGAATGTGTA
Statistics
Matches: 138, Mismatches: 6, Indels: 4
0.93 0.04 0.03
Matches are distributed among these distances:
67 119 0.86
68 1 0.01
69 1 0.01
71 17 0.12
ACGTcount: A:0.33, C:0.16, G:0.30, T:0.21
Consensus pattern (67 bp):
ACAAGAGAGCTACGAGATAAATGTAGCTAGGTCGCATGTGTGGTTCCAAGTGAAGGACACCATGT
AG
Found at i:66079724 original size:40 final size:40
Alignment explanation
Indices: 66079669--66079945 Score: 455
Period size: 40 Copynumber: 6.9 Consensus size: 40
66079659 GCATGAGCAT
*
66079669 TTGATATATCCGGGCTAAGACCCGAAGGCATTTATGCGAG
1 TTGATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG
66079709 TTGATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG
1 TTGATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG
66079749 TTGATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG
1 TTGATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG
*
66079789 TTGATATATCCGGGCTAAAACCCGAAGGCATTTGTGCGAG
1 TTGATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG
* * * *
66079829 TTGATATATCCAGGCTAAGACCCGAAGGCAATTATGCAAG
1 TTGATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG
*
66079869 TTGATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAG
1 TTGATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG
* * * *
66079909 TTGCTATACCCGGGTTAAGACCCGAAGGCAATTGTGC
1 TTGATATATCCGGGCTAAGACCCGAAGGCATTTGTGC
66079946 TTGCGGTTAT
Statistics
Matches: 220, Mismatches: 17, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 220 1.00
ACGTcount: A:0.27, C:0.21, G:0.28, T:0.24
Consensus pattern (40 bp):
TTGATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG
Found at i:66094806 original size:21 final size:21
Alignment explanation
Indices: 66094782--66094821 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
66094772 CCATTCAACC
66094782 ATGT-CCCTCAGTCACACAGCT
1 ATGTACCCT-AGTCACACAGCT
*
66094803 ATGTACCCTTGTCACACAG
1 ATGTACCCTAGTCACACAG
66094822 TTTGAACCCT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 13 0.76
22 4 0.24
ACGTcount: A:0.25, C:0.35, G:0.15, T:0.25
Consensus pattern (21 bp):
ATGTACCCTAGTCACACAGCT
Found at i:66097717 original size:43 final size:43
Alignment explanation
Indices: 66097669--66097823 Score: 265
Period size: 43 Copynumber: 3.6 Consensus size: 43
66097659 CCGGTATTAC
*
66097669 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCAGCACGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
*
66097712 GCCTGCTAGGCACGAAGGCCCGAATACACATCACTGGCACGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
* *
66097755 GCCTACTAGGCACGAAGGCCCGAATACACATCACCGGCACTAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
*
66097798 GCCTGCTAGGCACGAAGGCCTGAATA
1 GCCTGCTAGGCACGAAGGCCCGAATA
66097824 TAATACTAGC
Statistics
Matches: 105, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
43 105 1.00
ACGTcount: A:0.31, C:0.33, G:0.25, T:0.12
Consensus pattern (43 bp):
GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
Found at i:66097889 original size:38 final size:38
Alignment explanation
Indices: 66097821--66097895 Score: 96
Period size: 38 Copynumber: 2.0 Consensus size: 38
66097811 GAAGGCCTGA
* * * ** *
66097821 ATATAATACTAGCACTAGGCCTGCGGGATTTACCCCGG
1 ATATAATACCAGCACGAAGCCTGCAAGATTTAACCCGG
66097859 ATATAATACCAGCACGAAGCCTGCAAGATTTAACCCG
1 ATATAATACCAGCACGAAGCCTGCAAGATTTAACCCG
66097896 AATACACATC
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
38 31 1.00
ACGTcount: A:0.32, C:0.27, G:0.20, T:0.21
Consensus pattern (38 bp):
ATATAATACCAGCACGAAGCCTGCAAGATTTAACCCGG
Found at i:66100939 original size:40 final size:40
Alignment explanation
Indices: 66100884--66101049 Score: 255
Period size: 40 Copynumber: 4.2 Consensus size: 40
66100874 GGAATAAGAT
* *
66100884 CCGAAGGCATTTGTGCTAGTGACTATATCTGGGCTAAGTC
1 CCGAAGGCATTTGTGCGAGTGACTATATCCGGGCTAAGTC
66100924 CCGAAGGCATTTGTGCGAGTGACTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCGAGTGACTATATCCGGGCTAAGTC
*
66100964 CCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCGAGTGACTATATCCGGGCTAAGTC
* *
66101004 CCGAAGGCATTTGTGCGAGTTG-TTATATCC-GGCTAAATC
1 CCGAAGGCATTTGTGCGAG-TGACTATATCCGGGCTAAGTC
*
66101043 CAGAAGG
1 CCGAAGG
66101050 TACTTGGGTT
Statistics
Matches: 118, Mismatches: 7, Indels: 3
0.92 0.05 0.02
Matches are distributed among these distances:
39 14 0.12
40 103 0.87
41 1 0.01
ACGTcount: A:0.23, C:0.21, G:0.28, T:0.27
Consensus pattern (40 bp):
CCGAAGGCATTTGTGCGAGTGACTATATCCGGGCTAAGTC
Found at i:66108895 original size:40 final size:40
Alignment explanation
Indices: 66108847--66109052 Score: 308
Period size: 40 Copynumber: 5.2 Consensus size: 40
66108837 GGACTAAGAT
*
66108847 CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCGAGTGACTATATCCGGGCTAAGTC
*
66108887 CCAAAGGCATTTGTGCGAGTGACTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCGAGTGACTATATCCGGGCTAAGTC
* * *
66108927 CCGAAGGCATTTGTGTGAGTTACTATATTCGGGCTAAGTC
1 CCGAAGGCATTTGTGCGAGTGACTATATCCGGGCTAAGTC
*
66108967 CCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCGAGTGACTATATCCGGGCTAAGTC
* * *
66109007 CCGAAGGCATTTGTGCGAGTTG-TTATAT-CTGGCTAAATC
1 CCGAAGGCATTTGTGCGAG-TGACTATATCCGGGCTAAGTC
66109046 CCGAAGG
1 CCGAAGG
66109053 TACTTGGGTT
Statistics
Matches: 153, Mismatches: 12, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
39 16 0.10
40 136 0.89
41 1 0.01
ACGTcount: A:0.23, C:0.21, G:0.28, T:0.28
Consensus pattern (40 bp):
CCGAAGGCATTTGTGCGAGTGACTATATCCGGGCTAAGTC
Found at i:66113902 original size:43 final size:43
Alignment explanation
Indices: 66113841--66114008 Score: 266
Period size: 43 Copynumber: 3.9 Consensus size: 43
66113831 ACATATCATT
* *
66113841 TCACCGGCATTACGCCTGCTAGGCACGAAGGCCCGAATACACA
1 TCACCGGCATGAAGCCTGCTAGGCACGAAGGCCCGAATACACA
* *
66113884 TCACCAGCATGAAGCCTGCTAGGCACGAAGGCCCTAATACACA
1 TCACCGGCATGAAGCCTGCTAGGCACGAAGGCCCGAATACACA
* *
66113927 TCACTGGCACGAAGCCTGCTAGGCACGAAGGCCCGAATACACA
1 TCACCGGCATGAAGCCTGCTAGGCACGAAGGCCCGAATACACA
66113970 TCACCGGCACT-AAGCCTGCTAGGCACGAAGGCCCGAATA
1 TCACCGGCA-TGAAGCCTGCTAGGCACGAAGGCCCGAATA
66114009 TAATACCAGC
Statistics
Matches: 114, Mismatches: 10, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
43 114 1.00
ACGTcount: A:0.30, C:0.33, G:0.24, T:0.13
Consensus pattern (43 bp):
TCACCGGCATGAAGCCTGCTAGGCACGAAGGCCCGAATACACA
Found at i:66114055 original size:38 final size:38
Alignment explanation
Indices: 66114001--66114084 Score: 114
Period size: 38 Copynumber: 2.2 Consensus size: 38
66113991 GGCACGAAGG
* * *
66114001 CCCGAATATAATACCAGCACTAGGCCTGCGGGATTTAT
1 CCCGAATATAATACCAGCACGAAGCCTGCAGGATTTAT
* *
66114039 CCCGGATATAATACCAGCACGAAGCCTGCAGGATTTAA
1 CCCGAATATAATACCAGCACGAAGCCTGCAGGATTTAT
*
66114077 CCTGAATA
1 CCCGAATA
66114085 CACATCAAAT
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
38 39 1.00
ACGTcount: A:0.32, C:0.26, G:0.20, T:0.21
Consensus pattern (38 bp):
CCCGAATATAATACCAGCACGAAGCCTGCAGGATTTAT
Found at i:66122351 original size:7 final size:7
Alignment explanation
Indices: 66122339--66122391 Score: 88
Period size: 7 Copynumber: 7.4 Consensus size: 7
66122329 AAATAAAAGT
66122339 AAAGTCC
1 AAAGTCC
66122346 AAAGTCC
1 AAAGTCC
66122353 AAAGTCC
1 AAAGTCC
66122360 AAAGTCC
1 AAAGTCC
66122367 AAAGTCC
1 AAAGTCC
66122374 AAAAGTCC
1 -AAAGTCC
*
66122382 ATAGTCC
1 AAAGTCC
66122389 AAA
1 AAA
66122392 TAGTTTTAAA
Statistics
Matches: 43, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
7 36 0.84
8 7 0.16
ACGTcount: A:0.45, C:0.26, G:0.13, T:0.15
Consensus pattern (7 bp):
AAAGTCC
Done.