Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01001444.1 Kokia drynarioides strain JFW-HI SEQ_112956, whole genome shotgun sequence
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: 83493
ACGTcount: A:0.34, C:0.17, G:0.16, T:0.33
Warning! 1 characters in sequence are not A, C, G, or T
Found at i:736 original size:30 final size:30
Alignment explanation
Indices: 643--956 Score: 174
Period size: 30 Copynumber: 10.6 Consensus size: 30
633 AACTTTTTCT
* *
643 AAATTGCCATTTTACCCCT-AAAC-TTCTAA
1 AAATTACCATTTTACCCCTCGAACTTTC-AA
*** * *
672 AAA--ACCATTTTTGACCTCAAACTTTTCCA
1 AAATTACCATTTTACCCCTCGAAC-TTTCAA
701 AAATTACCATTTTACCCCTCGAACTTTCAA
1 AAATTACCATTTTACCCCTCGAACTTTCAA
* *
731 AAATTACCATTTTACCCTTCAAACTTT-AA
1 AAATTACCATTTTACCCCTCGAACTTTCAA
* * *
760 AAATT-TCATTTTTGA-TCC-CGAACTTTTCCA
1 AAATTACCA-TTTT-ACCCCTCGAAC-TTTCAA
* *
790 AAATTACCATTTTACCCCT-AAACTTTTAA
1 AAATTACCATTTTACCCCTCGAACTTTCAA
***
819 AAA-TACCATTTTTTACCTCGAAACTTTCAA
1 AAATTACCATTTTACCCCTCG-AACTTTCAA
* * *
849 AAATT-CCTTTTTTAACCC-C-ACACTTTTCCA
1 AAATTACC-ATTTTACCCCTCGA-AC-TTTCAA
879 AAATTACCATTTTACCCC-CGAAC-TTCAA
1 AAATTACCATTTTACCCCTCGAACTTTCAA
* *** *
907 AAAAT-CTCATTTTTTTACCTCGAACTTTTCCA
1 AAATTAC-CA-TTTTACCCCTCGAAC-TTTCAA
*
939 AAATTATCATTTTACCCC
1 AAATTACCATTTTACCCC
957 AAAACTTCAA
Statistics
Matches: 214, Mismatches: 45, Indels: 50
0.69 0.15 0.16
Matches are distributed among these distances:
27 11 0.05
28 33 0.15
29 38 0.18
30 89 0.42
31 33 0.15
32 10 0.05
ACGTcount: A:0.33, C:0.27, G:0.03, T:0.37
Consensus pattern (30 bp):
AAATTACCATTTTACCCCTCGAACTTTCAA
Found at i:774 original size:89 final size:87
Alignment explanation
Indices: 643--909 Score: 314
Period size: 89 Copynumber: 3.0 Consensus size: 87
633 AACTTTTTCT
* *
643 AAATTGCCATTTTACCC-CTAAACTTCTAAAAA-ACCATTTTTGACCTCAAACTTTTCCAAAATT
1 AAATTACCATTTTACCCTC-AAACTT-TAAAAATTCCATTTTTGACC-CAAACTTTTCCAAAATT
706 ACCATTTTACCCCTCGAACTTTCAA
63 ACCATTTTACCCCTCGAACTTTCAA
* *
731 AAATTACCATTTTACCCTTCAAACTTTAAAAATTTCATTTTTGATCCCGAACTTTTCCAAAATTA
1 AAATTACCATTTTACCC-TCAAACTTTAAAAATTCCATTTTTGA-CCCAAACTTTTCCAAAATTA
* *
796 CCATTTTACCCCT-AAACTTTTAA
64 CCATTTTACCCCTCGAACTTTCAA
* * *
819 AAA-TACCATTTTTTA-CCTCGAAACTTTCAAAAATTCCTTTTTTAACCCCACACTTTTCCAAAA
1 AAATTACCA--TTTTACCCTC-AAACTTT-AAAAATTCCATTTTTGA-CCCAAACTTTTCCAAAA
882 TTACCATTTTACCCC-CGAAC-TTCAA
61 TTACCATTTTACCCCTCGAACTTTCAA
907 AAA
1 AAA
910 ATCTCATTTT
Statistics
Matches: 156, Mismatches: 14, Indels: 18
0.83 0.07 0.10
Matches are distributed among these distances:
87 7 0.04
88 49 0.31
89 97 0.62
90 3 0.02
ACGTcount: A:0.34, C:0.27, G:0.03, T:0.36
Consensus pattern (87 bp):
AAATTACCATTTTACCCTCAAACTTTAAAAATTCCATTTTTGACCCAAACTTTTCCAAAATTACC
ATTTTACCCCTCGAACTTTCAA
Found at i:910 original size:59 final size:57
Alignment explanation
Indices: 610--1038 Score: 242
Period size: 59 Copynumber: 7.3 Consensus size: 57
600 CTGAACTATC
* * * * * **
610 CAAAAATTTCTTTTTTGACCCTAAACTTTTTCTAAATTGCCATTTTACCCCTAAACTT
1 CAAAAATTCCTTTTTT-ACCCCAAACTTTTCCAAAATTACCATTTTACCCCCGAACTT
* * *
668 CTAAAAA-ACCATTTTTGACCTCAAACTTTTCCAAAATTACCATTTTACCCCTCGAACTTT
1 C-AAAAATTCC-TTTTTTACCCCAAACTTTTCCAAAATTACCATTTTACCCC-CGAAC-TT
* * * *
728 CAAAAATTACC-ATTTTACCCTTCAAAC-TTT-AAAAATT-TCATTTTTGA-TCCCGAACTTTT
1 CAAAAATT-CCTTTTTTACCC--CAAACTTTTCCAAAATTACCA-TTTT-ACCCCCGAAC--TT
* * * *
787 CCAAAATTACC-ATTTTACCCCTAAACTTTT--AAAAATACCATTTTTTA-CCTCGAAACTTT
1 CAAAAATT-CCTTTTTTACCCC-AAACTTTTCCAAAATTACCA--TTTTACCCCCG-AAC-TT
*
846 CAAAAATTCCTTTTTTAACCCCACACTTTTCCAAAATTACCATTTTACCCCCGAACTT
1 CAAAAATTCCTTTTTT-ACCCCAAACTTTTCCAAAATTACCATTTTACCCCCGAACTT
* * * * **
904 CAAAAAATCTCATTTTTTTACCTCGAACTTTTCCAAAATTATCATTTTACCCCAAAACTT
1 C-AAAAAT-TC-CTTTTTTACCCCAAACTTTTCCAAAATTACCATTTTACCCCCGAACTT
* * *
964 CAAAAAATTCCATTTTTAACCCTAAA-----CCAAAATTACCATTTTACCCTCGAA-TAT
1 C-AAAAATTCC-TTTTTTACCCCAAACTTTTCCAAAATTACCATTTTACCCCCGAACT-T
*
1018 CTAAAAGTTCCATTTTTTACC
1 C-AAAAATTCC-TTTTTTACC
1039 TCGAACCTCT
Statistics
Matches: 299, Mismatches: 46, Indels: 56
0.75 0.11 0.14
Matches are distributed among these distances:
53 1 0.00
54 40 0.13
57 1 0.00
58 52 0.17
59 114 0.38
60 69 0.23
61 22 0.07
ACGTcount: A:0.34, C:0.26, G:0.03, T:0.38
Consensus pattern (57 bp):
CAAAAATTCCTTTTTTACCCCAAACTTTTCCAAAATTACCATTTTACCCCCGAACTT
Found at i:910 original size:89 final size:88
Alignment explanation
Indices: 677--943 Score: 296
Period size: 89 Copynumber: 3.0 Consensus size: 88
667 TCTAAAAAAC
* *
677 CATTTTTG-ACCTCAAACTTTTCCAAAATTACCATTTTACCCCTCGAACTTTCAAAAATTACCA-
1 CATTTTTGAACC-CCAACTTTTCCAAAATTACCATTTTACCCC-CGAAC-TTCAAAAAATACCAT
740 -TTTTACCCTTC-AAACTTT-AAAAATTT
63 TTTTTA-CC-TCGAAACTTTCAAAAA-TT
* * ** **
766 CATTTTTGATCCCGAACTTTTCCAAAATTACCATTTTACCCCTAAACTTTTAAAAATACCATTTT
1 CATTTTTGAACCCCAACTTTTCCAAAATTACCATTTTACCCCCGAACTTCAAAAAATACCATTTT
831 TTACCTCGAAACTTTCAAAAATT
66 TTACCTCGAAACTTTCAAAAATT
* *
854 CCTTTTTTAACCCCACACTTTTCCAAAATTACCATTTTACCCCCGAACTTCAAAAAAT-CTCATT
1 CATTTTTGAACCCCA-ACTTTTCCAAAATTACCATTTTACCCCCGAACTTCAAAAAATAC-CA-T
*
918 TTTTTACCTCG-AACTTTTCCAAAATT
63 TTTTTACCTCGAAAC-TTTCAAAAATT
944 ATCATTTTAC
Statistics
Matches: 153, Mismatches: 16, Indels: 17
0.82 0.09 0.09
Matches are distributed among these distances:
87 13 0.08
88 26 0.17
89 90 0.59
90 24 0.16
ACGTcount: A:0.33, C:0.27, G:0.03, T:0.38
Consensus pattern (88 bp):
CATTTTTGAACCCCAACTTTTCCAAAATTACCATTTTACCCCCGAACTTCAAAAAATACCATTTT
TTACCTCGAAACTTTCAAAAATT
Found at i:971 original size:89 final size:88
Alignment explanation
Indices: 680--979 Score: 226
Period size: 89 Copynumber: 3.4 Consensus size: 88
670 AAAAAACCAT
* * * * *
680 TTTTGACCTCAAACTTTTCCAAAATTACCATTTTACCCCTCGAACTTTCAAAAATTACCA--TTT
1 TTTTAACCCCAAAC-TTTCAAAAATTACCATTTTACCCC-CAAAC-TTCAAAAAATACCATTTTT
*
743 TACCCTTC-AAACTTT-AAAAATTTC-A
63 TA-CC-TCGAAACTTTCAAAAATTCCTA
* * * * * **
768 TTTTTGATCCCGAACTTTTCCAAAATTACCATTTTACCCCTAAACTTTTAAAAATACCATTTTTT
1 -TTTTAACCCCAAAC-TTTCAAAAATTACCATTTTACCCCCAAACTTCAAAAAATACCATTTTTT
*
833 ACCTCGAAACTTTCAAAAATTCCTT
64 ACCTCGAAACTTTCAAAAATTCCTA
* * *
858 TTTTAACCCCACACTTTTCCAAAATTACCATTTTACCCCCGAACTTCAAAAAAT-CTCATTTTTT
1 TTTTAACCCCAAAC-TTTCAAAAATTACCATTTTACCCCCAAACTTCAAAAAATAC-CA-TTTTT
* *
922 TACCTCG-AACTTTTCCAAAATT-ATCA
63 TACCTCGAAAC-TTTCAAAAATTCCT-A
948 TTTT-ACCCCAAAAC-TTCAAAAAATT-CCATTTT
1 TTTTAACCCC-AAACTTTC-AAAAATTACCATTTT
980 TAACCCTAAA
Statistics
Matches: 177, Mismatches: 23, Indels: 23
0.79 0.10 0.10
Matches are distributed among these distances:
87 13 0.07
88 23 0.13
89 112 0.63
90 29 0.16
ACGTcount: A:0.33, C:0.26, G:0.02, T:0.38
Consensus pattern (88 bp):
TTTTAACCCCAAACTTTCAAAAATTACCATTTTACCCCCAAACTTCAAAAAATACCATTTTTTAC
CTCGAAACTTTCAAAAATTCCTA
Found at i:1069 original size:29 final size:31
Alignment explanation
Indices: 1001--1069 Score: 83
Period size: 29 Copynumber: 2.4 Consensus size: 31
991 CAAAATTACC
* *
1001 ATTTTACCCTCGAATATCTAAAAGTTCCATT
1 ATTTTACCCTCGAACATCTAAAAGATCCATT
*
1032 -TTTTA-CCTCGAACCTCTAAAA-AT-CATT
1 ATTTTACCCTCGAACATCTAAAAGATCCATT
1059 ATTTTACCCTC
1 ATTTTACCCTC
1070 AAAATATTCA
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
27 4 0.12
28 6 0.18
29 18 0.55
30 5 0.15
ACGTcount: A:0.30, C:0.26, G:0.04, T:0.39
Consensus pattern (31 bp):
ATTTTACCCTCGAACATCTAAAAGATCCATT
Found at i:1080 original size:114 final size:114
Alignment explanation
Indices: 876--1082 Score: 269
Period size: 114 Copynumber: 1.8 Consensus size: 114
866 CCACACTTTT
* * *
876 CCAAAATTACCATTTTACCCCCGAACTTCAAAAAATCTCATTTTTTTACCTCGAACTTTTCCAAA
1 CCAAAATTACCATTTTACCCCCGAACTTCAAAAAATCTCATTTTTTTACCTCGAACCTCTCAAAA
* *
941 ATTATCATTTTACCCCAAAACTTCAAAAAATTCCATTTTTAACCCTAAA
66 ATCATCATTTTACCCCAAAAATTCAAAAAATTCCATTTTTAACCCTAAA
* * *
990 CCAAAATTACCATTTTACCCTCGAA-TATCTAAAAGT-TCCA-TTTTTTACCTCGAACCTCT-AA
1 CCAAAATTACCATTTTACCCCCGAACT-TCAAAAAATCT-CATTTTTTTACCTCGAACCTCTCAA
*
1051 AAATCATTATTTTACCCTCAAAATATTCAAAA
64 AAATCATCATTTTACCC-CAAAA-ATTCAAAA
1083 TTACCGTTTT
Statistics
Matches: 80, Mismatches: 9, Indels: 8
0.82 0.09 0.08
Matches are distributed among these distances:
112 16 0.20
113 24 0.30
114 40 0.50
ACGTcount: A:0.37, C:0.26, G:0.02, T:0.34
Consensus pattern (114 bp):
CCAAAATTACCATTTTACCCCCGAACTTCAAAAAATCTCATTTTTTTACCTCGAACCTCTCAAAA
ATCATCATTTTACCCCAAAAATTCAAAAAATTCCATTTTTAACCCTAAA
Found at i:2173 original size:17 final size:17
Alignment explanation
Indices: 2151--2188 Score: 76
Period size: 17 Copynumber: 2.2 Consensus size: 17
2141 ACTACTCCTT
2151 CGTGAGGTCTTCACCTC
1 CGTGAGGTCTTCACCTC
2168 CGTGAGGTCTTCACCTC
1 CGTGAGGTCTTCACCTC
2185 CGTG
1 CGTG
2189 CAGGATAGTG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.11, C:0.34, G:0.26, T:0.29
Consensus pattern (17 bp):
CGTGAGGTCTTCACCTC
Found at i:2896 original size:71 final size:71
Alignment explanation
Indices: 2780--2923 Score: 261
Period size: 71 Copynumber: 2.0 Consensus size: 71
2770 TTGAACACTA
* *
2780 AGGCATGATCATATGCGTACCTTTCTTATGTAAAGAAATTTGTTTTCTAGTAAAATTTTCTACTA
1 AGGCACGATCATATGCGTACCTTTCTTATGTAAAGAAATTTGTTTTCTAGTAAAATTTTCTAATA
2845 GAATTG
66 GAATTG
*
2851 AGGCACGATCATATGCGTACCTTTCTTATGTAAAGGAATTTGTTTTCTAGTAAAATTTTCTAATA
1 AGGCACGATCATATGCGTACCTTTCTTATGTAAAGAAATTTGTTTTCTAGTAAAATTTTCTAATA
2916 GAATTG
66 GAATTG
2922 AG
1 AG
2924 CTATGAGTCA
Statistics
Matches: 70, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
71 70 1.00
ACGTcount: A:0.31, C:0.12, G:0.17, T:0.40
Consensus pattern (71 bp):
AGGCACGATCATATGCGTACCTTTCTTATGTAAAGAAATTTGTTTTCTAGTAAAATTTTCTAATA
GAATTG
Found at i:7330 original size:49 final size:49
Alignment explanation
Indices: 7260--7958 Score: 491
Period size: 49 Copynumber: 14.1 Consensus size: 49
7250 TACAAGTCAT
* * *
7260 TACCACAAAGATTTTAAAGGGAAAGATTTAAGCCGCAACAGCGAATCCAG
1 TACCACGAAGA-TTTGAAGGGAAAGATTTAAGCCGCAACGGCGAATCCAG
* * * *
7310 TACCACGAAGATTTGGAGGGAAAGGTTTAAGTCGTCGCAACAGCGAA-CCTTG
1 TACCACGAAGATTTGAAGGGAAAGATTTAAG-C--CGCAACGGCGAATCC-AG
* * * * *
7362 TACCTCAGAAGCA--TAAAAGGAAATATTTAAGCCGCAACAGCGAATCCAG
1 TACCAC-GAAG-ATTTGAAGGGAAAGATTTAAGCCGCAACGGCGAATCCAG
* * * *
7411 TACCACGAAGATTTGGAGGGAAAGGTTTAAGTCGTCGCAACAGCGAA-CCTTG
1 TACCACGAAGATTTGAAGGGAAAGATTTAAG-C--CGCAACGGCGAATCC-AG
* * * * * * *
7463 TACCTCAGAAGCA--TAAAAGGAAATATTTAAGTCGCAACGGTGAATCCGG
1 TACCAC-GAAG-ATTTGAAGGGAAAGATTTAAGCCGCAACGGCGAATCCAG
* * * *
7512 TACCACGAAGATTTGGAGGGAAAGGTTTAAGTCGCAACGGCGAA-CCTTG
1 TACCACGAAGATTTGAAGGGAAAGATTTAAGCCGCAACGGCGAATCC-AG
* * * *
7561 TACCTCAGAAGCA--TAAAGGGAAATATTTAAGCCACAACGGCGAATCCAG
1 TACCAC-GAAG-ATTTGAAGGGAAAGATTTAAGCCGCAACGGCGAATCCAG
* * * *
7610 TACCACGAAGATTTGAAGGGAAAGGTTTAAGTCACAACGGCGAA-CCTTG
1 TACCACGAAGATTTGAAGGGAAAGATTTAAGCCGCAACGGCGAATCC-AG
* ** *
7659 TACCTCAGAA-ACATGAAGGGAAAGATTTAAGCCGCAACAGCGAATCCAG
1 TACCAC-GAAGATTTGAAGGGAAAGATTTAAGCCGCAACGGCGAATCCAG
* * *
7708 TACCACGAAGATTTGGAGGGAAAGGTTTAAGTCGCAACGGCGAATCCAG
1 TACCACGAAGATTTGAAGGGAAAGATTTAAGCCGCAACGGCGAATCCAG
* * * *
7757 TACCACAAAGATTTGAAGGGAAA-AGTTTAAGTCACAACGGCGAA-CCTTG
1 TACCACGAAGATTTGAAGGGAAAGA-TTTAAGCCGCAACGGCGAATCC-AG
* * *
7806 TACCTTA-GAAGCA--TAAAAGGAAAGATTTAAGCCGCAACGGTGAATCCAG
1 TACC--ACGAAG-ATTTGAAGGGAAAGATTTAAGCCGCAACGGCGAATCCAG
* ** * * *
7855 TACCACGAAGATTTGAAGGGAAAGGTTTAAGTAGAAACAGCGAA-CCTTG
1 TACCACGAAGATTTGAAGGGAAAGATTTAAGCCGCAACGGCGAATCC-AG
* * * * *
7904 TACCTCAGAAGCA--TGAAGGGAAAGATTCAAGCCGTAACGACGAATCTAG
1 TACCAC-GAAG-ATTTGAAGGGAAAGATTTAAGCCGCAACGGCGAATCCAG
7953 TACCAC
1 TACCAC
7959 AAGGATATAG
Statistics
Matches: 509, Mismatches: 98, Indels: 85
0.74 0.14 0.12
Matches are distributed among these distances:
47 5 0.01
48 27 0.05
49 358 0.70
50 38 0.07
51 9 0.02
52 62 0.12
53 8 0.02
54 2 0.00
ACGTcount: A:0.37, C:0.20, G:0.24, T:0.19
Consensus pattern (49 bp):
TACCACGAAGATTTGAAGGGAAAGATTTAAGCCGCAACGGCGAATCCAG
Found at i:7760 original size:98 final size:98
Alignment explanation
Indices: 7274--7751 Score: 758
Period size: 98 Copynumber: 4.8 Consensus size: 98
7264 ACAAAGATTT
*
7274 TAAAGGGAAAGATTTAAGCCGCAACAGCGAATCCAGTACCACGAAGATTTGGAGGGAAAGGTTTA
1 TAAAGGGAAATATTTAAGCCGCAACAGCGAATCCAGTACCACGAAGATTTGGAGGGAAAGGTTTA
*
7339 AGTCGTCGCAACAGCGAACCTTGTACCTCAGAAGCA
66 A---GTCGCAACGGCGAACCTTGTACCTCAGAAGCA
*
7375 TAAAAGGAAATATTTAAGCCGCAACAGCGAATCCAGTACCACGAAGATTTGGAGGGAAAGGTTTA
1 TAAAGGGAAATATTTAAGCCGCAACAGCGAATCCAGTACCACGAAGATTTGGAGGGAAAGGTTTA
*
7440 AGTCGTCGCAACAGCGAACCTTGTACCTCAGAAGCA
66 A---GTCGCAACGGCGAACCTTGTACCTCAGAAGCA
* * * * *
7476 TAAAAGGAAATATTTAAGTCGCAACGGTGAATCCGGTACCACGAAGATTTGGAGGGAAAGGTTTA
1 TAAAGGGAAATATTTAAGCCGCAACAGCGAATCCAGTACCACGAAGATTTGGAGGGAAAGGTTTA
7541 AGTCGCAACGGCGAACCTTGTACCTCAGAAGCA
66 AGTCGCAACGGCGAACCTTGTACCTCAGAAGCA
* * *
7574 TAAAGGGAAATATTTAAGCCACAACGGCGAATCCAGTACCACGAAGATTTGAAGGGAAAGGTTTA
1 TAAAGGGAAATATTTAAGCCGCAACAGCGAATCCAGTACCACGAAGATTTGGAGGGAAAGGTTTA
* *
7639 AGTCACAACGGCGAACCTTGTACCTCAGAAACA
66 AGTCGCAACGGCGAACCTTGTACCTCAGAAGCA
* *
7672 TGAAGGGAAAGATTTAAGCCGCAACAGCGAATCCAGTACCACGAAGATTTGGAGGGAAAGGTTTA
1 TAAAGGGAAATATTTAAGCCGCAACAGCGAATCCAGTACCACGAAGATTTGGAGGGAAAGGTTTA
7737 AGTCGCAACGGCGAA
66 AGTCGCAACGGCGAA
7752 TCCAGTACCA
Statistics
Matches: 356, Mismatches: 21, Indels: 3
0.94 0.06 0.01
Matches are distributed among these distances:
98 195 0.55
101 161 0.45
ACGTcount: A:0.36, C:0.20, G:0.26, T:0.18
Consensus pattern (98 bp):
TAAAGGGAAATATTTAAGCCGCAACAGCGAATCCAGTACCACGAAGATTTGGAGGGAAAGGTTTA
AGTCGCAACGGCGAACCTTGTACCTCAGAAGCA
Found at i:7907 original size:147 final size:147
Alignment explanation
Indices: 7260--7898 Score: 650
Period size: 147 Copynumber: 4.3 Consensus size: 147
7250 TACAAGTCAT
* * * * *
7260 TACCACAAAGATTTTAAAGGGAAAGATTTAAGCCGCAACAGCGAATCCAGTACCACGAAGATTTG
1 TACCACGAAGA-TTTGAAGGGAAAGGTTTAAGTCGCAACAGCGAATCCAGTACCACAAAGATTTG
* * * * *
7325 GAGGGAAAGGTTTAAGTCGTCGCAACAGCGAACCTTGTACCTCAGAAGCATAAAAGGAAATATTT
65 AAGGGAAAAGTTTAA---GTCACAACGGCGAACCTTGTACCTCAGAAGCATAAAAGGAAAGATTT
7390 AAGCCGCAACAGCGAATCCAG
127 AAGCCGCAACAGCGAATCCAG
* * *
7411 TACCACGAAGATTTGGAGGGAAAGGTTTAAGTCGTCGCAACAGCGAA-CCTTGTACCTCAGAAGC
1 TACCACGAAGATTTGAAGGGAAAGGTTTAA---GTCGCAACAGCGAATCC-AGTACCACA-AAG-
* * * * * * ** *
7475 A--TAAAAGGAAATA-TTTAAGTCGCAACGGTGAATCC-GGTACCAC-GAAG-ATTTGGAGGGAA
60 ATTTGAAGGGAAA-AGTTTAAGTCACAACGGCGAA-CCTTGTACCTCAGAAGCA--TAAAAGGAA
* * * *
7534 AGGTTTAAGTCGCAACGGCGAA-CCTTG
121 AGATTTAAGCCGCAACAGCGAATCC-AG
* * ** * * * *
7561 TACCTCAGAAGCA--TAAAGGGAAATATTTAAGCCACAACGGCGAATCCAGTACCACGAAGATTT
1 TACCAC-GAAG-ATTTGAAGGGAAAGGTTTAAGTCGCAACAGCGAATCCAGTACCACAAAGATTT
* * * *
7624 GAAGGGAAAGGTTTAAGTCACAACGGCGAACCTTGTACCTCAGAAACATGAAGGGAAAGATTTAA
64 GAAGGGAAAAGTTTAAGTCACAACGGCGAACCTTGTACCTCAGAAGCATAAAAGGAAAGATTTAA
7689 GCCGCAACAGCGAATCCAG
129 GCCGCAACAGCGAATCCAG
* *
7708 TACCACGAAGATTTGGAGGGAAAGGTTTAAGTCGCAACGGCGAATCCAGTACCACAAAGATTTGA
1 TACCACGAAGATTTGAAGGGAAAGGTTTAAGTCGCAACAGCGAATCCAGTACCACAAAGATTTGA
*
7773 AGGGAAAAGTTTAAGTCACAACGGCGAACCTTGTACCTTAGAAGCATAAAAGGAAAGATTTAAGC
66 AGGGAAAAGTTTAAGTCACAACGGCGAACCTTGTACCTCAGAAGCATAAAAGGAAAGATTTAAGC
* *
7838 CGCAACGGTGAATCCAG
131 CGCAACAGCGAATCCAG
* *
7855 TACCACGAAGATTTGAAGGGAAAGGTTTAAGTAGAAACAGCGAA
1 TACCACGAAGATTTGAAGGGAAAGGTTTAAGTCGCAACAGCGAA
7899 CCTTGTACCT
Statistics
Matches: 398, Mismatches: 67, Indels: 50
0.77 0.13 0.10
Matches are distributed among these distances:
145 2 0.01
146 9 0.02
147 241 0.61
148 8 0.02
149 7 0.02
150 77 0.19
151 16 0.04
152 3 0.01
153 31 0.08
154 3 0.01
155 1 0.00
ACGTcount: A:0.37, C:0.19, G:0.25, T:0.19
Consensus pattern (147 bp):
TACCACGAAGATTTGAAGGGAAAGGTTTAAGTCGCAACAGCGAATCCAGTACCACAAAGATTTGA
AGGGAAAAGTTTAAGTCACAACGGCGAACCTTGTACCTCAGAAGCATAAAAGGAAAGATTTAAGC
CGCAACAGCGAATCCAG
Found at i:7975 original size:147 final size:146
Alignment explanation
Indices: 7260--7976 Score: 543
Period size: 147 Copynumber: 4.8 Consensus size: 146
7250 TACAAGTCAT
* * * **
7260 TACCACAAAGATTTTAAAGGGAAAGATTTAAGCCGCAACAGCGAATCCAGTACCAC-GAAGATTT
1 TACCACGAAGA-TTTGAAGGGAAAGGTTTAAGTAGCAACAGCGAATCCAGTACCACAGAAGA-TT
* * * * * * *
7324 GGAGGGAAAGGTTTAAGTCGTCGCAACAGCGAACCTTGTACCTCAGAAGCATA-A-AAGGAAATA
64 GAAGGGAAAGATTTAA---GTCACAACGGCGAACCTTGTA-C-CACAAG-ATATAGAGGGAAAGA
7387 TTTAAGCCGCAACAGCGAATCCAG
123 TTTAAGCCGCAACAGCGAATCCAG
* * * *
7411 TACCACGAAGATTTGGAGGGAAAGGTTTAAGTCGTCGCAACAGCGAA-CCTTGTACCTCAGAAGC
1 TACCACGAAGATTTGAAGGGAAAGGTTTAA---GTAGCAACAGCGAATCC-AGTACCACAGAAG-
* * * * * * * * *
7475 A-TAAAAGGAAATATTTAAGTCGCAACGGTGAATCC-GGTACCACGAAGATTTGGAGGGAAAGGT
61 ATTGAAGGGAAAGATTTAAGTCACAACGGCGAA-CCTTGTACCAC-AAGATATAGAGGGAAAGAT
* * *
7538 TTAAGTCGCAACGGCGAA-CCTTG
124 TTAAGCCGCAACAGCGAATCC-AG
* * ** * *
7561 TACCTCAGAAGCA--TAAAGGGAAATATTTAAGCCA-CAACGGCGAATCCAGTACCAC-GAAGAT
1 TACCAC-GAAG-ATTTGAAGGGAAAGGTTTAAG-TAGCAACAGCGAATCCAGTACCACAGAAGA-
* * * *
7622 TTGAAGGGAAAGGTTTAAGTCACAACGGCGAACCTTGTACCTC-AGAAACATGAAGGGAAAGATT
62 TTGAAGGGAAAGATTTAAGTCACAACGGCGAACCTTGTACCACAAGATATA-G-AGGGAAAGATT
7686 TAAGCCGCAACAGCGAATCCAG
125 TAAGCCGCAACAGCGAATCCAG
* * *
7708 TACCACGAAGATTTGGAGGGAAAGGTTTAAGTCGCAACGGCGAATCCAGTACCACA-AAGATTTG
1 TACCACGAAGATTTGAAGGGAAAGGTTTAAGTAGCAACAGCGAATCCAGTACCACAGAAGA-TTG
* *
7772 AAGGGAAA-AGTTTAAGTCACAACGGCGAACCTTGTACCTTAGAAGCATA-A-AAGGAAAGATTT
65 AAGGGAAAGA-TTTAAGTCACAACGGCGAACCTTGTACC--ACAAG-ATATAGAGGGAAAGATTT
* *
7834 AAGCCGCAACGGTGAATCCAG
126 AAGCCGCAACAGCGAATCCAG
* * *
7855 TACCACGAAGATTTGAAGGGAAAGGTTTAAGTAGAAACAGCGAA-CCTTGTACCTCAGAAGCA-T
1 TACCACGAAGATTTGAAGGGAAAGGTTTAAGTAGCAACAGCGAATCC-AGTACCACAGAAG-ATT
* * ** * * *
7918 GAAGGGAAAGATTCAAGCCGTAACGACGAATCTAGTACCACAAGGATATAGAGGGAAAG
64 GAAGGGAAAGATTTAAGTCACAACGGCGAACCTTGTACCACAA-GATATAGAGGGAAAG
7977 GTTACAACCG
Statistics
Matches: 450, Mismatches: 79, Indels: 78
0.74 0.13 0.13
Matches are distributed among these distances:
145 11 0.02
146 15 0.03
147 272 0.60
148 12 0.03
149 7 0.02
150 76 0.17
151 18 0.04
152 3 0.01
153 31 0.07
154 4 0.01
155 1 0.00
ACGTcount: A:0.38, C:0.19, G:0.25, T:0.19
Consensus pattern (146 bp):
TACCACGAAGATTTGAAGGGAAAGGTTTAAGTAGCAACAGCGAATCCAGTACCACAGAAGATTGA
AGGGAAAGATTTAAGTCACAACGGCGAACCTTGTACCACAAGATATAGAGGGAAAGATTTAAGCC
GCAACAGCGAATCCAG
Found at i:8379 original size:39 final size:39
Alignment explanation
Indices: 8334--8605 Score: 239
Period size: 39 Copynumber: 7.0 Consensus size: 39
8324 GGTGAAGTTA
* *
8334 CATCATCAACCAATCTTTTACCCCGAGCCTGGGGCAGAT
1 CATCATCAACCAATCTCTTACCCCGAGCTTGGGGCAGAT
8373 CATCATCAACCAATCTCTTACCCCGAGCTTGGGGCAGAT
1 CATCATCAACCAATCTCTTACCCCGAGCTTGGGGCAGAT
* **** *
8412 --TGCAGCCATTTGATCTTTTACCCCGAGCTTGGGGCAGAT
1 CAT-CA-TCAACCAATCTCTTACCCCGAGCTTGGGGCAGAT
* * * * *
8451 CATCGTCAACCAGTCTCTTACCCCGAGCCTGAGGCAAAT
1 CATCATCAACCAATCTCTTACCCCGAGCTTGGGGCAGAT
* *
8490 CATCATCAACCAATATCTTACCCCGAGTTTGGGGCAGAT
1 CATCATCAACCAATCTCTTACCCCGAGCTTGGGGCAGAT
* **** *
8529 --TGCAGCCATTTGATCTCTTACCACGAGCTTGGGGCAGAT
1 CAT-CA-TCAACCAATCTCTTACCCCGAGCTTGGGGCAGAT
* * * * *
8568 CACCATCAGCCAATCTCTT-TCCCGATCATGGGGCAGAT
1 CATCATCAACCAATCTCTTACCCCGAGCTTGGGGCAGAT
8606 GGCAATCATG
Statistics
Matches: 181, Mismatches: 44, Indels: 17
0.75 0.18 0.07
Matches are distributed among these distances:
37 2 0.01
38 19 0.10
39 156 0.86
40 3 0.02
41 1 0.01
ACGTcount: A:0.24, C:0.31, G:0.20, T:0.25
Consensus pattern (39 bp):
CATCATCAACCAATCTCTTACCCCGAGCTTGGGGCAGAT
Found at i:8550 original size:117 final size:117
Alignment explanation
Indices: 8334--8586 Score: 407
Period size: 117 Copynumber: 2.2 Consensus size: 117
8324 GGTGAAGTTA
* * * *
8334 CATCATCAACCAATCTTTTACCCCGAGCCTGGGGCAGATCATCATCAACCAATCTCTTACCCCGA
1 CATCATCAACCAATCTCTTACCCCGAGCCTGAGGCAAATCATCATCAACCAATATCTTACCCCGA
* *
8399 GCTTGGGGCAGATTGCAGCCATTTGATCTTTTACCCCGAGCTTGGGGCAGAT
66 GCTTGGGGCAGATTGCAGCCATTTGATCTCTTACCACGAGCTTGGGGCAGAT
* *
8451 CATCGTCAACCAGTCTCTTACCCCGAGCCTGAGGCAAATCATCATCAACCAATATCTTACCCCGA
1 CATCATCAACCAATCTCTTACCCCGAGCCTGAGGCAAATCATCATCAACCAATATCTTACCCCGA
*
8516 GTTTGGGGCAGATTGCAGCCATTTGATCTCTTACCACGAGCTTGGGGCAGAT
66 GCTTGGGGCAGATTGCAGCCATTTGATCTCTTACCACGAGCTTGGGGCAGAT
* *
8568 CACCATCAGCCAATCTCTT
1 CATCATCAACCAATCTCTT
8587 TCCCGATCAT
Statistics
Matches: 123, Mismatches: 13, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
117 123 1.00
ACGTcount: A:0.24, C:0.31, G:0.19, T:0.25
Consensus pattern (117 bp):
CATCATCAACCAATCTCTTACCCCGAGCCTGAGGCAAATCATCATCAACCAATATCTTACCCCGA
GCTTGGGGCAGATTGCAGCCATTTGATCTCTTACCACGAGCTTGGGGCAGAT
Found at i:9102 original size:34 final size:32
Alignment explanation
Indices: 9064--9143 Score: 88
Period size: 34 Copynumber: 2.4 Consensus size: 32
9054 AATTAAGTCC
* *
9064 AAATTTTAATTTTAAATAAGTTTGAATTTATTTT
1 AAATTTAAATTTT--ATAAGTTTGAATTTACTTT
* *
9098 AAATTTAAATTCATTTTGAGTTTGAATTTACTTT
1 AAATTTAAATT--TTATAAGTTTGAATTTACTTT
9132 AAATTTAAATTT
1 AAATTTAAATTT
9144 ATTTTCAATT
Statistics
Matches: 40, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
32 1 0.03
34 37 0.93
36 2 0.05
ACGTcount: A:0.38, C:0.03, G:0.06, T:0.54
Consensus pattern (32 bp):
AAATTTAAATTTTATAAGTTTGAATTTACTTT
Found at i:9108 original size:17 final size:17
Alignment explanation
Indices: 9088--9153 Score: 78
Period size: 17 Copynumber: 3.9 Consensus size: 17
9078 AATAAGTTTG
9088 AATTTATTTTAAATTTA
1 AATTTATTTTAAATTTA
* * * *
9105 AATTCATTTTGAGTTTG
1 AATTTATTTTAAATTTA
*
9122 AATTTACTTTAAATTTA
1 AATTTATTTTAAATTTA
*
9139 AATTTATTTTCAATT
1 AATTTATTTTAAATT
9154 AACATACAAG
Statistics
Matches: 38, Mismatches: 11, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
17 38 1.00
ACGTcount: A:0.35, C:0.05, G:0.05, T:0.56
Consensus pattern (17 bp):
AATTTATTTTAAATTTA
Found at i:9148 original size:34 final size:34
Alignment explanation
Indices: 9082--9148 Score: 116
Period size: 34 Copynumber: 2.0 Consensus size: 34
9072 ATTTTAAATA
*
9082 AGTTTGAATTTATTTTAAATTTAAATTCATTTTG
1 AGTTTGAATTTACTTTAAATTTAAATTCATTTTG
*
9116 AGTTTGAATTTACTTTAAATTTAAATTTATTTT
1 AGTTTGAATTTACTTTAAATTTAAATTCATTTT
9149 CAATTAACAT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 31 1.00
ACGTcount: A:0.33, C:0.03, G:0.07, T:0.57
Consensus pattern (34 bp):
AGTTTGAATTTACTTTAAATTTAAATTCATTTTG
Found at i:9852 original size:3 final size:3
Alignment explanation
Indices: 9844--9878 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
9834 ATAAATTCAT
9844 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
9879 TATTAACAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:11060 original size:29 final size:28
Alignment explanation
Indices: 10981--11538 Score: 265
Period size: 30 Copynumber: 18.8 Consensus size: 28
10971 TAGGTCCTTG
*
10981 AACTATCCAAAAATTCCATTTTTGA-CCACA
1 AACT-TCCAAAAATTCCA-TTTT-ACCCTCA
* *
11011 AACTTTTCC-AAAATTAGCATTTTACCCCTCG
1 AAC--TTCCAAAAATT-CCATTTTA-CCCTCA
*
11042 AACTTCCAAAAATTCCATTTTTGACCC-CG
1 AACTTCCAAAAATTCCA-TTTT-ACCCTCA
11071 AACTTTTCC-AAAATTACCATTTTACCCTCA
1 AAC--TTCCAAAAATT-CCATTTTACCCTCA
* * *
11101 AACTT-CTAAAATACCATTTTTAACCAT-A
1 AACTTCCAAAAATTCCA-TTTT-ACCCTCA
*
11129 AACTTTTCC-AAAATTACTATTTTACCCCTCA
1 AAC--TTCCAAAAATT-CCATTTTA-CCCTCA
* *
11160 AAGTTTCAAAAATTCCATTTTTTTAACCCT-A
1 AACTTCCAAAAATTCCA---TTTT-ACCCTCA
*
11191 AACTTTTCAAAAATTACCATTTTACCCCTCA
1 AAC-TTCCAAAAATT-CCATTTTA-CCCTCA
* * *
11222 AACTACCAAAAATTTCATTTTTGACACT-A
1 AACTTCCAAAAATTCCA-TTTT-ACCCTCA
**
11251 AACTTTTCC-AAAATTACCATTTTACCCTTG
1 AAC--TTCCAAAAATT-CCATTTTACCCTCA
* *
11281 AACTTCTAAAAATAT-CATTTTTAACCTCA
1 AACTTCCAAAAAT-TCCA-TTTTACCCTCA
* *
11310 AACTTTTCC-AAAATTATCATTTTACCCTCG
1 AAC--TTCCAAAAATT-CCATTTTACCCTCA
*
11340 AACTTCCAAAAATTACATTTTTGACCCT-A
1 AACTTCCAAAAATTCCA-TTTT-ACCCTCA
* *
11369 AACTTTTCC-AAAATTACATTTTACCTCTTA
1 AAC--TTCCAAAAATTCCATTTTACC-CTCA
11399 AACTTCCAAAAATTCCATTTTTGACCCT-A
1 AACTTCCAAAAATTCCA-TTTT-ACCCTCA
11428 AACTTTTCC-AAAATTACCATTTTACCCTC-
1 AAC--TTCCAAAAATT-CCATTTTACCCTCA
* * * *
11457 GACTTCAAAAAATCCCATTTTTTTA-CCTCG
1 AACTTCCAAAAATTCCA---TTTTACCCTCA
*
11487 AACTTTTCC-AAAATTACCA-TTTACCCTCG
1 AAC--TTCCAAAAATT-CCATTTTACCCTCA
11516 AACTTCCAAAAATTCCATTTTAC
1 AACTTCCAAAAATTCCATTTTAC
11539 ACCACATAAA
Statistics
Matches: 422, Mismatches: 38, Indels: 138
0.71 0.06 0.23
Matches are distributed among these distances:
27 17 0.04
28 53 0.13
29 104 0.25
30 156 0.37
31 62 0.15
32 26 0.06
33 4 0.01
ACGTcount: A:0.35, C:0.26, G:0.03, T:0.37
Consensus pattern (28 bp):
AACTTCCAAAAATTCCATTTTACCCTCA
Found at i:11318 original size:59 final size:59
Alignment explanation
Indices: 10980--11536 Score: 666
Period size: 59 Copynumber: 9.4 Consensus size: 59
10970 GTAGGTCCTT
* *
10980 GAACTATCCAAAAATTCCATTTTTGACCACAAACTTTTCCAAAATTAGCATTTTACCCCTC
1 GAACT-TCCAAAAATTCCATTTTTGACCTCAAACTTTTCCAAAATTACCATTTTA-CCCTC
* *
11041 GAACTTCCAAAAATTCCATTTTTGACCCCGAACTTTTCCAAAATTACCATTTTACCCTC
1 GAACTTCCAAAAATTCCATTTTTGACCTCAAACTTTTCCAAAATTACCATTTTACCCTC
* * * * *
11100 AAACTT-CTAAAATACCATTTTTAACCAT-AAACTTTTCCAAAATTACTATTTTACCCCTC
1 GAACTTCCAAAAATTCCATTTTTGACC-TCAAACTTTTCCAAAATTACCATTTTA-CCCTC
* * * * *
11159 AAAGTTTCAAAAATTCCATTTTTTTAACC-CTAAACTTTTCAAAAATTACCATTTTACCCCTC
1 GAACTTCCAAAAATTCCA--TTTTTGACCTC-AAACTTTTCCAAAATTACCATTTTA-CCCTC
* * * *
11221 AAACTACCAAAAATTTCATTTTTGACACT-AAACTTTTCCAAAATTACCATTTTACCCTT
1 GAACTTCCAAAAATTCCATTTTTGAC-CTCAAACTTTTCCAAAATTACCATTTTACCCTC
* * *
11280 GAACTTCTAAAAATAT-CATTTTTAACCTCAAACTTTTCCAAAATTATCATTTTACCCTC
1 GAACTTCCAAAAAT-TCCATTTTTGACCTCAAACTTTTCCAAAATTACCATTTTACCCTC
* *
11339 GAACTTCCAAAAATTACATTTTTGACC-CTAAACTTTTCCAAAATTA-CATTTTACCTCTT
1 GAACTTCCAAAAATTCCATTTTTGACCTC-AAACTTTTCCAAAATTACCATTTTACC-CTC
*
11398 AAACTTCCAAAAATTCCATTTTTGACC-CTAAACTTTTCCAAAATTACCATTTTACCCTC
1 GAACTTCCAAAAATTCCATTTTTGACCTC-AAACTTTTCCAAAATTACCATTTTACCCTC
* * * *
11457 G-ACTTCAAAAAATCCCATTTTTTTACCTCGAACTTTTCCAAAATTACCA-TTTACCCTC
1 GAACTTCCAAAAATTCCA-TTTTTGACCTCAAACTTTTCCAAAATTACCATTTTACCCTC
11515 GAACTTCCAAAAATTCCATTTT
1 GAACTTCCAAAAATTCCATTTT
11537 ACACCACATA
Statistics
Matches: 437, Mismatches: 41, Indels: 39
0.85 0.08 0.08
Matches are distributed among these distances:
58 81 0.19
59 201 0.46
60 97 0.22
61 6 0.01
62 52 0.12
ACGTcount: A:0.34, C:0.26, G:0.03, T:0.37
Consensus pattern (59 bp):
GAACTTCCAAAAATTCCATTTTTGACCTCAAACTTTTCCAAAATTACCATTTTACCCTC
Found at i:13086 original size:30 final size:30
Alignment explanation
Indices: 13052--13126 Score: 134
Period size: 30 Copynumber: 2.5 Consensus size: 30
13042 AACGACCTCC
13052 CACACGAT-CGTGTGGCACACACAGCCTACA
1 CACACG-TCCGTGTGGCACACACAGCCTACA
13082 CACACGTCCGTGTGGCACACACAGCCTACA
1 CACACGTCCGTGTGGCACACACAGCCTACA
13112 CACACGTCCGTGTGG
1 CACACGTCCGTGTGG
13127 TAGCCCGTGT
Statistics
Matches: 44, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
29 1 0.02
30 43 0.98
ACGTcount: A:0.25, C:0.37, G:0.23, T:0.15
Consensus pattern (30 bp):
CACACGTCCGTGTGGCACACACAGCCTACA
Found at i:14783 original size:14 final size:14
Alignment explanation
Indices: 14766--14800 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
14756 AATCTTCTTC
14766 TATGAGTTCGCATG
1 TATGAGTTCGCATG
*
14780 TATGAGTTTGCATG
1 TATGAGTTCGCATG
*
14794 TAAGAGT
1 TATGAGT
14801 CTGAATCTAG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.26, C:0.09, G:0.29, T:0.37
Consensus pattern (14 bp):
TATGAGTTCGCATG
Found at i:15937 original size:3 final size:3
Alignment explanation
Indices: 15929--15954 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
15919 GTCCAAACAA
15929 AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AA
15955 ATCCATTTAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:16879 original size:50 final size:49
Alignment explanation
Indices: 16825--17430 Score: 219
Period size: 50 Copynumber: 12.1 Consensus size: 49
16815 TTAAAGTTAT
* *
16825 AGTGGAATAGAGTGAATCTACAATAGCAAATCCTATCTCCCTGAAGATAC
1 AGTGGAATAGA-TGAAGCTACAATAGCAAATCCTATCTCCCTGAAGATGC
* * * *
16875 AGTGGAGCA-AGATGAAGCTACAAT-GTCAAATCCCATATCCCTAAAGATGT
1 AGTGGA--ATAGATGAAGCTACAATAG-CAAATCCTATCTCCCTGAAGATGC
* * * * * *
16925 AGTGGATTAGATTGAAGCTATAGTGGTAAA-CCTTATCTCCCTAAAGATGC
1 AGTGGAATAGA-TGAAGCTACAATAGCAAATCC-TATCTCCCTGAAGATGC
* * * * * * *
16975 AGTAGAGAA-ATATGAAGCTACTACATCAAATCCTATATCCTTAAAGATGC
1 AGT-G-GAATAGATGAAGCTACAATAGCAAATCCTATCTCCCTGAAGATGC
* * * * ** *
17025 AATGG-ATCAAATTGAAACCACAATAGCAAATATTATCTCCTTGAAGATGC
1 AGTGGAAT-AGA-TGAAGCTACAATAGCAAATCCTATCTCCCTGAAGATGC
* * * * *
17075 AGTGGAGCA-AGATGAGGCTACAACATCAAATCCTATATCCTTGAAG-TAGC
1 AGTGGA--ATAGATGAAGCTACAATAGCAAATCCTATCTCCCTGAAGAT-GC
* * * * * *
17125 AGTGG-ATCAGATTGAAACTACAGTATCATATCTTATCTCCCTGAAGATGT
1 AGTGGAAT-AGA-TGAAGCTACAATAGCAAATCCTATCTCCCTGAAGATGC
* * ** ** * *
17175 AGTGGAGCA-AGAAGAAGCTACAACATTAAATCCTAAATCCCTTAAGTTGC
1 AGTGGA--ATAGATGAAGCTACAATAGCAAATCCTATCTCCCTGAAGATGC
* * * * * * *
17225 AGTGGATCATA-TTGAA-ATAACAATAACAAATACTATCTCCTTAAAGAAGC
1 AGTGGA--ATAGATGAAGCT-ACAATAGCAAATCCTATCTCCCTGAAGATGC
* * * * * * * * * *
17275 AGTGGAGTAAGATGAAGCTACAACATCGACTCATGTATCCATGAAGTTGC
1 AGTGGAAT-AGATGAAGCTACAATAGCAAATCCTATCTCCCTGAAGATGC
* * * * * * **
17325 AATGGAATGGAGTGAAGTTATAGTAGCAAATCCTATCTCCTTGAAGATAT
1 AGTGGAATAGA-TGAAGCTACAATAGCAAATCCTATCTCCCTGAAGATGC
* * * * * * *
17375 AGTGGAGCA-AGATAAACCTACAACATCAAATCCTATATCCCTGAAGTTAC
1 AGTGGA--ATAGATGAAGCTACAATAGCAAATCCTATCTCCCTGAAGATGC
17425 AGTGGA
1 AGTGGA
17431 TCCGATTCAA
Statistics
Matches: 399, Mismatches: 125, Indels: 64
0.68 0.21 0.11
Matches are distributed among these distances:
47 2 0.01
48 2 0.01
49 17 0.04
50 353 0.88
51 19 0.05
52 4 0.01
53 2 0.01
ACGTcount: A:0.38, C:0.18, G:0.18, T:0.25
Consensus pattern (49 bp):
AGTGGAATAGATGAAGCTACAATAGCAAATCCTATCTCCCTGAAGATGC
Found at i:17005 original size:150 final size:150
Alignment explanation
Indices: 16702--17010 Score: 356
Period size: 150 Copynumber: 2.1 Consensus size: 150
16692 CTATAGTAGT
* * *
16702 AAATCTTATCTCCCTGAAGATCTAGTGGAGCAAGATGAAGTTACAACGTCAAATCCTATATCCCT
1 AAATCCTATCTCCCTGAAGATCTAGTGGAGCAAGATGAAGCTACAACGTCAAATCCCATATCCCT
* * * * * * *
16767 AAGGATGCAATGGATCATATTGAAACTATGATTGTAAATCTCATCTCCTTAAAGTTATAGTGGAA
66 AAAGATGCAATGGATCAGATTGAAACTATGATGGTAAACCTCATCTCCCTAAAGATACAGTGGAA
* *
16832 TAGAGTGAATCTACAATAGC
131 TAGAGTGAAGCTACAACAGC
*
16852 AAATCCTATCTCCCTGAAGATAC-AGTGGAGCAAGATGAAGCTACAATGTCAAATCCCATATCCC
1 AAATCCTATCTCCCTGAAGAT-CTAGTGGAGCAAGATGAAGCTACAACGTCAAATCCCATATCCC
* * * * * *
16916 TAAAGATGTAGTGGATTAGATTGAAGCTAT-AGTGGTAAACCTTATCTCCCTAAAGATGCAGTAG
65 TAAAGATGCAATGGATCAGATTGAAACTATGA-TGGTAAACCTCATCTCCCTAAAGATACAGT-G
* * *
16980 AGAA-ATA-TGAAGCTACTACATC
128 -GAATAGAGTGAAGCTACAACAGC
17002 AAATCCTAT
1 AAATCCTAT
17011 ATCCTTAAAG
Statistics
Matches: 133, Mismatches: 22, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
149 1 0.01
150 125 0.94
151 4 0.03
152 3 0.02
ACGTcount: A:0.37, C:0.18, G:0.17, T:0.28
Consensus pattern (150 bp):
AAATCCTATCTCCCTGAAGATCTAGTGGAGCAAGATGAAGCTACAACGTCAAATCCCATATCCCT
AAAGATGCAATGGATCAGATTGAAACTATGATGGTAAACCTCATCTCCCTAAAGATACAGTGGAA
TAGAGTGAAGCTACAACAGC
Found at i:17505 original size:100 final size:100
Alignment explanation
Indices: 16837--17494 Score: 570
Period size: 100 Copynumber: 6.6 Consensus size: 100
16827 TGGAATAGAG
* * * * **
16837 TGAATCTACAATAGCAAATCCTATCTCCCTGAAGATACAGTGGAGCAAGATGAAGCTACAATGTC
1 TGAAACTACAGTAGCAAAACTTATCTCCCTGAAGATACAGTGGAGCAAGATGAAGCTACAACATC
* * * * *
16902 AAATCCCATATCCCTAAAGATGTAGTGGATTAGAT
66 AAATCCTATATCCCTGAAGTTGCAGTGGATCAGAT
* * * * * * * * * * *
16937 TGAAGCTATAGTGGTAAACCTTATCTCCCTAAAGATGCAGTAGAGAAATATGAAGCTACTACATC
1 TGAAACTACAGTAGCAAAACTTATCTCCCTGAAGATACAGTGGAGCAAGATGAAGCTACAACATC
* * * * *
17002 AAATCCTATATCCTTAAAGATGCAATGGATCAAAT
66 AAATCCTATATCCCTGAAGTTGCAGTGGATCAGAT
* * * * *
17037 TGAAACCACAATAGCAAATA-TTATCTCCTTGAAGATGCAGTGGAGCAAGATGAGGCTACAACAT
1 TGAAACTACAGTAGCAAA-ACTTATCTCCCTGAAGATACAGTGGAGCAAGATGAAGCTACAACAT
* *
17101 CAAATCCTATATCCTTGAAGTAGCAGTGGATCAGAT
65 CAAATCCTATATCCCTGAAGTTGCAGTGGATCAGAT
* * * ** * *
17137 TGAAACTACAGTATCATATCTTATCTCCCTGAAGATGTAGTGGAGCAAGAAGAAGCTACAACATT
1 TGAAACTACAGTAGCAAAACTTATCTCCCTGAAGATACAGTGGAGCAAGATGAAGCTACAACATC
* * *
17202 AAATCCTAAATCCCTTAAGTTGCAGTGGATCATAT
66 AAATCCTATATCCCTGAAGTTGCAGTGGATCAGAT
* * * * *
17237 TGAAA-TAACAATAACAAATAC-TATCTCCTTAAAGA-AGCAGTGGAGTAAGATGAAGCTACAAC
1 TGAAACT-ACAGTAGCAAA-ACTTATCTCCCTGAAGATA-CAGTGGAGCAAGATGAAGCTACAAC
* * * * * * * *
17299 ATCGACTCATGTATCCATGAAGTTGCAATGGAAT-GGAG
63 ATCAAATCCTATATCCCTGAAGTTGCAGTGG-ATCAGAT
** * * * * * * *
17337 TGAAGTTATAGTAGCAAATCCTATCTCCTTGAAGATATAGTGGAGCAAGATAAACCTACAACATC
1 TGAAACTACAGTAGCAAAACTTATCTCCCTGAAGATACAGTGGAGCAAGATGAAGCTACAACATC
* *
17402 AAATCCTATATCCCTGAAGTTACAGTGGATCCGAT
66 AAATCCTATATCCCTGAAGTTGCAGTGGATCAGAT
* ** * * *
17437 TCAAGTTACAGTAGCAAAACTCATCTCCCTAAAGATACAGTAGAGCAAGATGAAGCTA
1 TGAAACTACAGTAGCAAAACTTATCTCCCTGAAGATACAGTGGAGCAAGATGAAGCTA
17495 AGATGTCAAA
Statistics
Matches: 441, Mismatches: 107, Indels: 20
0.78 0.19 0.04
Matches are distributed among these distances:
99 4 0.01
100 432 0.98
101 5 0.01
ACGTcount: A:0.38, C:0.19, G:0.18, T:0.25
Consensus pattern (100 bp):
TGAAACTACAGTAGCAAAACTTATCTCCCTGAAGATACAGTGGAGCAAGATGAAGCTACAACATC
AAATCCTATATCCCTGAAGTTGCAGTGGATCAGAT
Found at i:21992 original size:25 final size:25
Alignment explanation
Indices: 21964--22012 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
21954 GTGTGCCTCG
*
21964 TATTCTTCTCTCAGTTAAACTTTGC
1 TATTCTTCTCTCAATTAAACTTTGC
* * *
21989 TATTTTTTTTTCAATTAAACTTTG
1 TATTCTTCTCTCAATTAAACTTTG
22013 ATCATTCCAG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.22, C:0.16, G:0.06, T:0.55
Consensus pattern (25 bp):
TATTCTTCTCTCAATTAAACTTTGC
Found at i:23906 original size:27 final size:27
Alignment explanation
Indices: 23865--23947 Score: 112
Period size: 27 Copynumber: 3.0 Consensus size: 27
23855 ATTTGCTAAT
* * *
23865 TAACGAATAATGCGATAAAGATCGCTAG
1 TAAC-AATAACGCGATAAAGATCGCCAA
*
23893 TAACAATAACGCGATAAAGATCACCAA
1 TAACAATAACGCGATAAAGATCGCCAA
*
23920 TAACAATAACACGATAAAGATCGCCAA
1 TAACAATAACGCGATAAAGATCGCCAA
23947 T
1 T
23948 CCCCTCGGTA
Statistics
Matches: 49, Mismatches: 6, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
27 45 0.92
28 4 0.08
ACGTcount: A:0.48, C:0.19, G:0.14, T:0.18
Consensus pattern (27 bp):
TAACAATAACGCGATAAAGATCGCCAA
Found at i:24237 original size:43 final size:43
Alignment explanation
Indices: 24136--24263 Score: 150
Period size: 43 Copynumber: 3.0 Consensus size: 43
24126 TATCATGCTC
*
24136 TCAATCAATCACATACTATCAATATTAGGAAACAATGTTCCAA
1 TCAATCAATCACATACTTTCAATATTAGGAAACAATGTTCCAA
* *** * *
24179 TCATTTGTTCACATACTTTCAATAATAGGAAACAGTGTTCCACA
1 TCAATCAATCACATACTTTCAATATTAGGAAACAATGTTCCA-A
* *
24223 -CAATCAATCTCATACTTTCAATTTTAGGAAAACAATGTTCC
1 TCAATCAATCACATACTTTCAATATTAGG-AAACAATGTTCC
24264 TCTCAATGTC
Statistics
Matches: 68, Mismatches: 15, Indels: 3
0.79 0.17 0.03
Matches are distributed among these distances:
43 56 0.82
44 12 0.18
ACGTcount: A:0.38, C:0.21, G:0.09, T:0.32
Consensus pattern (43 bp):
TCAATCAATCACATACTTTCAATATTAGGAAACAATGTTCCAA
Found at i:28539 original size:15 final size:15
Alignment explanation
Indices: 28521--28551 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
28511 ATTGTTTAGT
*
28521 GTTTTAAGGTTTAAG
1 GTTTTAAGGGTTAAG
28536 GTTTTAAGGGTTAAG
1 GTTTTAAGGGTTAAG
28551 G
1 G
28552 CTATTGATTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.26, C:0.00, G:0.32, T:0.42
Consensus pattern (15 bp):
GTTTTAAGGGTTAAG
Found at i:28624 original size:23 final size:23
Alignment explanation
Indices: 28596--28639 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
28586 AAATTTTAAA
* *
28596 TTAGGGTATTATGTTTTAATTGT
1 TTAGGGTATTAGGGTTTAATTGT
*
28619 TTAGGGTTTTAGGGTTTAATT
1 TTAGGGTATTAGGGTTTAATT
28640 TTATTTAATT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.20, C:0.00, G:0.25, T:0.55
Consensus pattern (23 bp):
TTAGGGTATTAGGGTTTAATTGT
Found at i:30657 original size:21 final size:20
Alignment explanation
Indices: 30610--30657 Score: 51
Period size: 21 Copynumber: 2.3 Consensus size: 20
30600 GTATTTACAT
* *
30610 AAAAATTATAAAAATTATTA
1 AAAAATTATAAAAATAAATA
*
30630 ATTAAATTATAAAAATGAAATA
1 A-AAAATTATAAAAAT-AAATA
30652 AAAAAT
1 AAAAAT
30658 AAATAATATT
Statistics
Matches: 22, Mismatches: 4, Indels: 3
0.76 0.14 0.10
Matches are distributed among these distances:
20 1 0.05
21 17 0.77
22 4 0.18
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.31
Consensus pattern (20 bp):
AAAAATTATAAAAATAAATA
Found at i:30903 original size:22 final size:23
Alignment explanation
Indices: 30856--30903 Score: 71
Period size: 23 Copynumber: 2.1 Consensus size: 23
30846 CTTTGAGAGC
* *
30856 TTTAGAGAGAAATTTGTGTGAAA
1 TTTAGAGAGAAATTTGAGCGAAA
30879 TTTAGAGAGAAA-TTGAGCGAAA
1 TTTAGAGAGAAATTTGAGCGAAA
30901 TTT
1 TTT
30904 GTGTGAAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 11 0.48
23 12 0.52
ACGTcount: A:0.40, C:0.02, G:0.25, T:0.33
Consensus pattern (23 bp):
TTTAGAGAGAAATTTGAGCGAAA
Found at i:35887 original size:29 final size:29
Alignment explanation
Indices: 35845--35925 Score: 126
Period size: 29 Copynumber: 2.8 Consensus size: 29
35835 TTTGCCTCAG
* *
35845 GTTACATTTTAGTCACTTATGTTTAAAAT
1 GTTACGTTTTAGTCACTTATGTTTAAAAA
*
35874 GTTACGTTTTAGTCACTTATATTTAAAAA
1 GTTACGTTTTAGTCACTTATGTTTAAAAA
*
35903 GTTACGTTTTAGTCTCTTATGTT
1 GTTACGTTTTAGTCACTTATGTT
35926 AGTATTTTGT
Statistics
Matches: 47, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 47 1.00
ACGTcount: A:0.27, C:0.11, G:0.12, T:0.49
Consensus pattern (29 bp):
GTTACGTTTTAGTCACTTATGTTTAAAAA
Found at i:48794 original size:21 final size:21
Alignment explanation
Indices: 48770--48813 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 21
48760 TTAGAGTTTG
48770 ATTAATTAAGATTATTTTAAT
1 ATTAATTAAGATTATTTTAAT
* ***
48791 ATTATTTTTTATTATTTTAAT
1 ATTAATTAAGATTATTTTAAT
48812 AT
1 AT
48814 AATATATTTT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.61
Consensus pattern (21 bp):
ATTAATTAAGATTATTTTAAT
Found at i:48805 original size:10 final size:11
Alignment explanation
Indices: 48775--48813 Score: 53
Period size: 11 Copynumber: 3.6 Consensus size: 11
48765 GTTTGATTAA
*
48775 TTAAGATTATT
1 TTAATATTATT
48786 TTAATATTATT
1 TTAATATTATT
*
48797 TT-TTATTATT
1 TTAATATTATT
48807 TTAATAT
1 TTAATAT
48814 AATATATTTT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
10 9 0.38
11 15 0.62
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.64
Consensus pattern (11 bp):
TTAATATTATT
Found at i:48827 original size:23 final size:21
Alignment explanation
Indices: 48780--48830 Score: 75
Period size: 23 Copynumber: 2.3 Consensus size: 21
48770 ATTAATTAAG
*
48780 ATTATTTTAATATTATTTTTT
1 ATTATTTTAATATTATATTTT
48801 ATTATTTTAATATAATATATTTT
1 ATTATTTTAATAT--TATATTTT
48824 ATTATTT
1 ATTATTT
48831 AATTCATGAT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
21 13 0.48
23 14 0.52
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (21 bp):
ATTATTTTAATATTATATTTT
Found at i:49928 original size:27 final size:26
Alignment explanation
Indices: 49888--49938 Score: 66
Period size: 27 Copynumber: 1.9 Consensus size: 26
49878 TAATATAAAT
*
49888 AAATAGAATGTGTAAGAAAATGTGATG
1 AAATAGAATATGTAAGAAAA-GTGATG
* *
49915 AAATAGTATATGTATGAAAAGTGA
1 AAATAGAATATGTAAGAAAAGTGA
49939 GAATGAGATT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
26 4 0.19
27 17 0.81
ACGTcount: A:0.49, C:0.00, G:0.24, T:0.27
Consensus pattern (26 bp):
AAATAGAATATGTAAGAAAAGTGATG
Found at i:52174 original size:25 final size:25
Alignment explanation
Indices: 52121--52175 Score: 67
Period size: 25 Copynumber: 2.2 Consensus size: 25
52111 CTTGTAGATA
* *
52121 AATATTAAATTAAGATAATCACTTT
1 AATATTAAATTAAGAAAATCACTTC
*
52146 AATATTAAATTAATAAAAT-ACTATC
1 AATATTAAATTAAGAAAATCACT-TC
52171 AATAT
1 AATAT
52176 AAGTATTAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
24 3 0.12
25 23 0.88
ACGTcount: A:0.53, C:0.07, G:0.02, T:0.38
Consensus pattern (25 bp):
AATATTAAATTAAGAAAATCACTTC
Found at i:53378 original size:16 final size:16
Alignment explanation
Indices: 53338--53378 Score: 64
Period size: 16 Copynumber: 2.6 Consensus size: 16
53328 GATGCTAGTA
* *
53338 AAGTCATGCCATGCAC
1 AAGTCATGTCATACAC
53354 AAGTCATGTCATACAC
1 AAGTCATGTCATACAC
53370 AAGTCATGT
1 AAGTCATGT
53379 ACCCAACATA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.34, C:0.24, G:0.17, T:0.24
Consensus pattern (16 bp):
AAGTCATGTCATACAC
Found at i:54206 original size:30 final size:30
Alignment explanation
Indices: 54170--54227 Score: 107
Period size: 30 Copynumber: 1.9 Consensus size: 30
54160 ATGTGTTCAG
*
54170 TCATCTTGTGACTTCTCATTTCCTTAGTAC
1 TCATCTTGTGACTACTCATTTCCTTAGTAC
54200 TCATCTTGTGACTACTCATTTCCTTAGT
1 TCATCTTGTGACTACTCATTTCCTTAGT
54228 TTTAGCTACT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.17, C:0.26, G:0.10, T:0.47
Consensus pattern (30 bp):
TCATCTTGTGACTACTCATTTCCTTAGTAC
Found at i:54698 original size:13 final size:13
Alignment explanation
Indices: 54680--54704 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
54670 TCAAATGAGT
54680 AATTGAACTTGAA
1 AATTGAACTTGAA
54693 AATTGAACTTGA
1 AATTGAACTTGA
54705 GTTAGAAAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.44, C:0.08, G:0.16, T:0.32
Consensus pattern (13 bp):
AATTGAACTTGAA
Found at i:55111 original size:48 final size:50
Alignment explanation
Indices: 55033--55157 Score: 173
Period size: 48 Copynumber: 2.5 Consensus size: 50
55023 ATTTCAAAAA
* *
55033 TAATATTATTTTAATAGATTTAATATTAAATTAAATTTAATACTTATC-T-
1 TAATAATATTTTATTA-ATTTAATATTAAATTAAATTTAATACTTATCTTG
*
55082 TAATAATATTTTATTAATTTAATATTAAATTAAATTTAATATTTATCTTG
1 TAATAATATTTTATTAATTTAATATTAAATTAAATTTAATACTTATCTTG
*
55132 TAGATAAATATTCTATTAATTTAATA
1 TA-AT-AATATTTTATTAATTTAATA
55158 ATATTTAATA
Statistics
Matches: 68, Mismatches: 4, Indels: 5
0.88 0.05 0.06
Matches are distributed among these distances:
48 30 0.44
49 15 0.22
50 2 0.03
51 2 0.03
52 19 0.28
ACGTcount: A:0.43, C:0.03, G:0.02, T:0.51
Consensus pattern (50 bp):
TAATAATATTTTATTAATTTAATATTAAATTAAATTTAATACTTATCTTG
Found at i:57168 original size:63 final size:64
Alignment explanation
Indices: 57060--57248 Score: 227
Period size: 63 Copynumber: 3.0 Consensus size: 64
57050 ATAGATATGT
* *
57060 TGAAAATAGAGAAATGAGAAATCATTTGGAAATGATTATGATTTTCTCCAAAATGAAAATGAAAA
1 TGAAAATAGAGAAATG-GAAATCATTTGGAAATAATTATGGTTTTCTCCAAAATGAAAATGAAAA
*
57125 TGAAAATAGAGAAATGGAAA-CATTTGGAAATAATTACGGTTTTCTCCAAAATGAAAAT----A
1 TGAAAATAGAGAAATGGAAATCATTTGGAAATAATTATGGTTTTCTCCAAAATGAAAATGAAAA
**
57184 -G-AAAT-GAAGAAAT-GAAATCATTTGGAAATGAA-TATGGTTTTCTCCAAAAACAAAAATGAA
1 TGAAAATAG-AGAAATGGAAATCATTTGGAAAT-AATTATGGTTTTCTCC-AAAATGAAAATGAA
57244 AA
63 AA
57246 TGA
1 TGA
57249 CATGAAAAAT
Statistics
Matches: 108, Mismatches: 6, Indels: 21
0.80 0.04 0.16
Matches are distributed among these distances:
56 5 0.05
57 33 0.31
58 12 0.11
59 1 0.01
62 1 0.01
63 36 0.33
64 4 0.04
65 16 0.15
ACGTcount: A:0.49, C:0.07, G:0.17, T:0.26
Consensus pattern (64 bp):
TGAAAATAGAGAAATGGAAATCATTTGGAAATAATTATGGTTTTCTCCAAAATGAAAATGAAAA
Found at i:57178 original size:57 final size:59
Alignment explanation
Indices: 57060--57246 Score: 206
Period size: 57 Copynumber: 3.1 Consensus size: 59
57050 ATAGATATGT
* *
57060 TGAAAATAGAGAAATGAGAAATCATTTGGAAATGATTATGATTTTCTCCAAAATGAAAATGAAAA
1 TGAAAATAGAGAAATG-GAAATCATTTGGAAATAATTATGGTTTTCTCC---A--AAAATGAAAA
*
57125 TGAAAATAGAGAAATGGAAA-CATTTGGAAATAATTACGGTTTTCTCC-AAAATGAAAA
1 TGAAAATAGAGAAATGGAAATCATTTGGAAATAATTATGGTTTTCTCCAAAAATGAAAA
**
57182 T-AGAAAT-GAAGAAAT-GAAATCATTTGGAAATGAA-TATGGTTTTCTCCAAAAACAAAAA
1 TGA-AAATAG-AGAAATGGAAATCATTTGGAAAT-AATTATGGTTTTCTCCAAAAATGAAAA
57240 TGAAAAT
1 TGAAAAT
57247 GACATGAAAA
Statistics
Matches: 110, Mismatches: 6, Indels: 19
0.81 0.04 0.14
Matches are distributed among these distances:
56 6 0.05
57 44 0.40
58 15 0.14
59 1 0.01
63 24 0.22
64 4 0.04
65 16 0.15
ACGTcount: A:0.49, C:0.07, G:0.17, T:0.27
Consensus pattern (59 bp):
TGAAAATAGAGAAATGGAAATCATTTGGAAATAATTATGGTTTTCTCCAAAAATGAAAA
Done.