Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01010677.1 Kokia drynarioides strain JFW-HI SEQ_125623, 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: 26898
ACGTcount: A:0.32, C:0.16, G:0.17, T:0.35
Warning! 91 characters in sequence are not A, C, G, or T
Found at i:1301 original size:20 final size:20
Alignment explanation
Indices: 1250--1302 Score: 70
Period size: 20 Copynumber: 2.6 Consensus size: 20
1240 TTATTTTTTT
*
1250 AAAAATTCGAAAATATAAAA
1 AAAAATTCGAAAATAGAAAA
* *
1270 AACATTTCGAAAATAGAAAA
1 AAAAATTCGAAAATAGAAAA
*
1290 AAAAATTAGAAAA
1 AAAAATTCGAAAA
1303 AATTTGAAAA
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.68, C:0.06, G:0.08, T:0.19
Consensus pattern (20 bp):
AAAAATTCGAAAATAGAAAA
Found at i:2581 original size:84 final size:84
Alignment explanation
Indices: 2493--3712 Score: 1941
Period size: 84 Copynumber: 14.5 Consensus size: 84
2483 TAAATTTAAA
2493 ATTTGATAAAAATTGTAATATAATAATAATTTTTTATTTAAATATTTAAAATTAGTAAATAATGT
1 ATTTGATAAAAATTGTAATATAATAATAATTTTTTATTTAAATATTTAAAATTAGTAAATAATGT
*
2558 ATTGTCAAATCAACAAATT
66 ATTGTCAAATCAACACATT
*
2577 ATTTGATAAAAATTATAATATAATAATAATTTTTTATTTAAATATTTAAAATTAGTAAATAATGT
1 ATTTGATAAAAATTGTAATATAATAATAATTTTTTATTTAAATATTTAAAATTAGTAAATAATGT
*
2642 ATTTTCAAATCAACACATT
66 ATTGTCAAATCAACACATT
*
2661 ATTTGATAAAAATTATAATATAATAAT-ATTTTTTGATTTAAATATTTAAAATTAGTAAATAATG
1 ATTTGATAAAAATTGTAATATAATAATAATTTTTT-ATTTAAATATTTAAAATTAGTAAATAATG
2725 TATTGTCAAATCAACACATT
65 TATTGTCAAATCAACACATT
* * * *
2745 ATTTTATAAAAATTGTAAAATAATAATAATTTTTGATTTAAATATTTAAAATTAGTAAAAAATGT
1 ATTTGATAAAAATTGTAATATAATAATAATTTTTTATTTAAATATTTAAAATTAGTAAATAATGT
2810 ATTGTCAAATCAACACATT
66 ATTGTCAAATCAACACATT
* *
2829 ATTTGATAAAAATTATAATATAATAATAATTTTTGATTTAAATATTTAAAATTAGTAAATAA-GT
1 ATTTGATAAAAATTGTAATATAATAATAATTTTTTATTTAAATATTTAAAATTAGTAAATAATGT
2893 ATTGTCAAATCAACACATT
66 ATTGTCAAATCAACACATT
* *
2912 ATTTGATAAAAATTGTAATACAATAATAATTTTTGA-TTAAATATTTAAAATTAGTAAATAATGT
1 ATTTGATAAAAATTGTAATATAATAATAATTTTTTATTTAAATATTTAAAATTAGTAAATAATGT
* *
2976 ATTATCAAATTAACACATT
66 ATTGTCAAATCAACACATT
* * * *
2995 ATTTAATAAAAATTGTAATATAATAATAATTTTTTATTTAAATA-TGAAAATTTGATAAATAATA
1 ATTTGATAAAAATTGTAATATAATAATAATTTTTTATTTAAATATTTAAAATTAG-TAAATAATG
3059 TATTGTCAAATCAACACATT
65 TATTGTCAAATCAACACATT
* *
3079 ATTTGATAAAAATTGTAATATAATAATAAATTTTTATTTAAATATTTAAATTTAGTAAATAATGT
1 ATTTGATAAAAATTGTAATATAATAATAATTTTTTATTTAAATATTTAAAATTAGTAAATAATGT
3144 ATTGTCAAATCAACACATT
66 ATTGTCAAATCAACACATT
3163 ATTTGATAAAAATTGTAATATAATAATAATTTTTTATTTAAATATTTAAAATTAGTAAATAATGT
1 ATTTGATAAAAATTGTAATATAATAATAATTTTTTATTTAAATATTTAAAATTAGTAAATAATGT
* *
3228 ATTATCAAATCAACATATT
66 ATTGTCAAATCAACACATT
* * * *
3247 ATTTGATAAAAATTATAATATAATAATAATTTTTTATTTAAATA-TGAAAATTTGATAAATAATT
1 ATTTGATAAAAATTGTAATATAATAATAATTTTTTATTTAAATATTTAAAATTAG-TAAATAATG
3311 TATTGTCAAATCAACACATT
65 TATTGTCAAATCAACACATT
* * *
3331 ATTTGATAAAAGTTGTAATATAATAATAATTTTTTATTTAAATATTTAAATTTAGTAAATAATGC
1 ATTTGATAAAAATTGTAATATAATAATAATTTTTTATTTAAATATTTAAAATTAGTAAATAATGT
*
3396 ATTGTCAAATCAACATATT
66 ATTGTCAAATCAACACATT
* * * *
3415 ATTTGATAAAAAATATAATATAATAATAATTTTTTATTTAAATA-TGAAAATTTGATAAATAATG
1 ATTTGATAAAAATTGTAATATAATAATAATTTTTTATTTAAATATTTAAAATTAG-TAAATAATG
3479 TATTGTCAAATCAACACATT
65 TATTGTCAAATCAACACATT
* *
3499 ATTTGATAAAAATTGTAATATAATAATAATATTTTATTTAAATATTTAAATTTAGTAAATAATGT
1 ATTTGATAAAAATTGTAATATAATAATAATTTTTTATTTAAATATTTAAAATTAGTAAATAATGT
**
3564 ATTGTCAAATCAACGGATT
66 ATTGTCAAATCAACACATT
* *
3583 ATTTGATAAAAATTGTAATATAATAATAATTTTTTATTTAAATA-TGAAAATTTGATAAATAATG
1 ATTTGATAAAAATTGTAATATAATAATAATTTTTTATTTAAATATTTAAAATTAG-TAAATAATG
* *
3647 TATTGTTAAATAAACACATT
65 TATTGTCAAATCAACACATT
*
3667 ATTTGATATAAATTGTAATATAATAATAATCTTTTTTATTTAAATA
1 ATTTGATAAAAATTGTAATATAATAATAA--TTTTTTATTTAAATA
3713 ATGTTAAATT
Statistics
Matches: 1049, Mismatches: 74, Indels: 24
0.91 0.06 0.02
Matches are distributed among these distances:
82 25 0.02
83 144 0.14
84 838 0.80
85 27 0.03
86 15 0.01
ACGTcount: A:0.47, C:0.04, G:0.06, T:0.43
Consensus pattern (84 bp):
ATTTGATAAAAATTGTAATATAATAATAATTTTTTATTTAAATATTTAAAATTAGTAAATAATGT
ATTGTCAAATCAACACATT
Found at i:3833 original size:12 final size:12
Alignment explanation
Indices: 3816--3894 Score: 77
Period size: 12 Copynumber: 5.9 Consensus size: 12
3806 AAACATGTTC
*
3816 ATTAATTTTCAA
1 ATTAATTTTTAA
3828 ATTAATTTCAACTTAA
1 ATTAATTT----TTAA
3844 ATTAATTTTTAA
1 ATTAATTTTTAA
3856 ATTAATTTCAACTTAA
1 ATTAATTT----TTAA
3872 ATTAATTTTTAA
1 ATTAATTTTTAA
3884 ATTAATTTTTA
1 ATTAATTTTTA
3895 CACAAATATT
Statistics
Matches: 58, Mismatches: 1, Indels: 16
0.77 0.01 0.21
Matches are distributed among these distances:
12 35 0.60
16 23 0.40
ACGTcount: A:0.42, C:0.06, G:0.00, T:0.52
Consensus pattern (12 bp):
ATTAATTTTTAA
Found at i:3847 original size:16 final size:16
Alignment explanation
Indices: 3826--3879 Score: 80
Period size: 16 Copynumber: 3.6 Consensus size: 16
3816 ATTAATTTTC
3826 AAATTAATTTCAACTT
1 AAATTAATTTCAACTT
3842 AAATTAATTT----TT
1 AAATTAATTTCAACTT
3854 AAATTAATTTCAACTT
1 AAATTAATTTCAACTT
3870 AAATTAATTT
1 AAATTAATTT
3880 TTAAATTAAT
Statistics
Matches: 34, Mismatches: 0, Indels: 8
0.81 0.00 0.19
Matches are distributed among these distances:
12 12 0.35
16 22 0.65
ACGTcount: A:0.44, C:0.07, G:0.00, T:0.48
Consensus pattern (16 bp):
AAATTAATTTCAACTT
Found at i:3862 original size:40 final size:39
Alignment explanation
Indices: 3816--3894 Score: 97
Period size: 40 Copynumber: 2.0 Consensus size: 39
3806 AAACATGTTC
*
3816 ATTAATTTTCAAATTAATTTCAA-CTTAAATTAATTTTTAA
1 ATTAA-TTTCAAATTAAATT-AATCTTAAATTAATTTTTAA
* *
3856 ATTAATTTCAACTTAAATTAATTTTTAAATTAATTTTTA
1 ATTAATTTCAAATTAAATTAA-TCTTAAATTAATTTTTA
3895 CACAAATATT
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
38 2 0.06
39 12 0.35
40 20 0.59
ACGTcount: A:0.42, C:0.06, G:0.00, T:0.52
Consensus pattern (39 bp):
ATTAATTTCAAATTAAATTAATCTTAAATTAATTTTTAA
Found at i:3901 original size:28 final size:28
Alignment explanation
Indices: 3816--3891 Score: 143
Period size: 28 Copynumber: 2.7 Consensus size: 28
3806 AAACATGTTC
*
3816 ATTAATTTTCAAATTAATTTCAACTTAA
1 ATTAATTTTTAAATTAATTTCAACTTAA
3844 ATTAATTTTTAAATTAATTTCAACTTAA
1 ATTAATTTTTAAATTAATTTCAACTTAA
3872 ATTAATTTTTAAATTAATTT
1 ATTAATTTTTAAATTAATTT
3892 TTACACAAAT
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
28 47 1.00
ACGTcount: A:0.42, C:0.07, G:0.00, T:0.51
Consensus pattern (28 bp):
ATTAATTTTTAAATTAATTTCAACTTAA
Found at i:6844 original size:24 final size:22
Alignment explanation
Indices: 6812--6869 Score: 62
Period size: 24 Copynumber: 2.5 Consensus size: 22
6802 TCTTTTGATT
6812 ATTTTAATTTATTTCTTAAAATTA
1 ATTTTAATTTATTT-TTAAAA-TA
*
6836 ATTTTAATTAATATTTTTAATATA
1 ATTTTAATT--TATTTTTAAAATA
*
6860 TTTTTAATTT
1 ATTTTAATTT
6870 GTCGATAATA
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
22 1 0.03
24 19 0.63
25 5 0.17
26 5 0.17
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (22 bp):
ATTTTAATTTATTTTTAAAATA
Found at i:7810 original size:60 final size:59
Alignment explanation
Indices: 7626--7875 Score: 220
Period size: 60 Copynumber: 4.2 Consensus size: 59
7616 GTCAACATAA
* * * * ** * *
7626 AAAAAAATT-ATTTTTTTACCAAATAAAAAGGGGGTGTCAGCTATGGCATGACCAATAC
1 AAAAAAATTGAATTTTTTACTAGACAAAAATAGGGTGTCAGCCATGGCATGACCAACAC
* ** * * **
7684 TAAAAAAAATTTGAATTTTTTATTTCACAAAAATAGGGTGTCGGCCATTGCATGGTCAACACC
1 --AAAAAAA-TTGAATTTTTTACTAGACAAAAATAGGGTGTCAGCCATGGCATGACCAACA-C
* * * *
7747 AAAAAAATTGATTTTTTTACTAGATAAAAA-AGGGGGTGTCGGTCATGGCATTG-CCAACAC
1 AAAAAAATTGAATTTTTTACTAGACAAAAATA--GGGTGTCAGCCATGGCA-TGACCAACAC
7807 AAAAAAATTTGAATTTTTTATCT-GACAAAAATAGGGTGTCAGCCATGGCATGACCAACAC
1 AAAAAAA-TTGAATTTTTTA-CTAGACAAAAATAGGGTGTCAGCCATGGCATGACCAACAC
7867 AAAAAAATT
1 AAAAAAATT
7876 TCAACACCAA
Statistics
Matches: 154, Mismatches: 26, Indels: 21
0.77 0.13 0.10
Matches are distributed among these distances:
59 5 0.03
60 62 0.40
61 47 0.31
62 39 0.25
63 1 0.01
ACGTcount: A:0.40, C:0.14, G:0.17, T:0.28
Consensus pattern (59 bp):
AAAAAAATTGAATTTTTTACTAGACAAAAATAGGGTGTCAGCCATGGCATGACCAACAC
Found at i:7843 original size:121 final size:119
Alignment explanation
Indices: 7598--7875 Score: 355
Period size: 121 Copynumber: 2.3 Consensus size: 119
7588 AGGGGAAGTT
* *
7598 GGTGTCGGCCATTACATGGTCAACATAAAAAAAAATTATTTTTTTACCAAATAAAAAGGGGGTGT
1 GGTGTCGGCCATTGCATGGTCAAC--ACAAAAAAATTATTTTTTTACCAAATAAAAAGGGGGTGT
* *
7663 CAGCTATGGCATGACCAATACTAAAAAAAATTTGAATTTTTTATTTCACAAAAATAG
64 CAGCTATGGCATGACCAACAC-AAAAAAAATTTGAATTTTTTATCTCACAAAAATAG
* *
7720 GGTGTCGGCCATTGCATGGTCAACACCAAAAAAATTGATTTTTTTACTAGATAAAAAAGGGGGTG
1 GGTGTCGGCCATTGCATGGTCAACA-CAAAAAAATT-ATTTTTTTACCAAAT-AAAAAGGGGGTG
* *
7785 TC-GGTCATGGCATTG-CCAACAC-AAAAAAATTTGAATTTTTTATCTGACAAAAATAG
63 TCAGCT-ATGGCA-TGACCAACACAAAAAAAATTTGAATTTTTTATCTCACAAAAATAG
* * **
7841 GGTGTCAGCCATGGCATGACCAACACAAAAAAATT
1 GGTGTCGGCCATTGCATGGTCAACACAAAAAAATT
7876 TCAACACCAA
Statistics
Matches: 139, Mismatches: 12, Indels: 12
0.85 0.07 0.07
Matches are distributed among these distances:
120 11 0.08
121 62 0.45
122 38 0.27
123 26 0.19
124 2 0.01
ACGTcount: A:0.39, C:0.15, G:0.18, T:0.28
Consensus pattern (119 bp):
GGTGTCGGCCATTGCATGGTCAACACAAAAAAATTATTTTTTTACCAAATAAAAAGGGGGTGTCA
GCTATGGCATGACCAACACAAAAAAAATTTGAATTTTTTATCTCACAAAAATAG
Found at i:7876 original size:60 final size:60
Alignment explanation
Indices: 7657--7876 Score: 241
Period size: 60 Copynumber: 3.6 Consensus size: 60
7647 AATAAAAAGG
* * * *
7657 GGGTGTCAGCTATGGCATGACCAATACTAAAAAAAATTTGAATTTTTTATTTCACAAAAATA
1 GGGTGTCAGCCATGGCATGACCAACAC--AAAAAAATTTGAATTTTTTATCTGACAAAAATA
* * ** * *
7719 GGGTGTCGGCCATTGCATGGTCAACACCAAAAAAA-TTGATTTTTTTA-CTAGATAAAAA-A
1 GGGTGTCAGCCATGGCATGACCAACA-CAAAAAAATTTGAATTTTTTATCT-GACAAAAATA
* *
7778 GGGGGTGTCGGTCATGGCATTG-CCAACACAAAAAAATTTGAATTTTTTATCTGACAAAAATA
1 --GGGTGTCAGCCATGGCA-TGACCAACACAAAAAAATTTGAATTTTTTATCTGACAAAAATA
7840 GGGTGTCAGCCATGGCATGACCAACACAAAAAAATTT
1 GGGTGTCAGCCATGGCATGACCAACACAAAAAAATTT
7877 CAACACCAAA
Statistics
Matches: 132, Mismatches: 17, Indels: 20
0.78 0.10 0.12
Matches are distributed among these distances:
59 4 0.03
60 57 0.43
61 45 0.34
62 25 0.19
63 1 0.01
ACGTcount: A:0.38, C:0.15, G:0.19, T:0.28
Consensus pattern (60 bp):
GGGTGTCAGCCATGGCATGACCAACACAAAAAAATTTGAATTTTTTATCTGACAAAAATA
Found at i:7882 original size:16 final size:16
Alignment explanation
Indices: 7861--7892 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
7851 ATGGCATGAC
7861 CAACACAAAAAAATTT
1 CAACACAAAAAAATTT
*
7877 CAACACCAAAAAATTT
1 CAACACAAAAAAATTT
7893 TGAAAATTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.59, C:0.22, G:0.00, T:0.19
Consensus pattern (16 bp):
CAACACAAAAAAATTT
Found at i:7911 original size:79 final size:76
Alignment explanation
Indices: 7801--7944 Score: 211
Period size: 79 Copynumber: 1.9 Consensus size: 76
7791 ATGGCATTGC
7801 CAACACAAAAAAATTTGAATTTTTTATCTGACAAAAATA-GGGTGTC-AGCCATGGCATGACCAA
1 CAACACAAAAAAATTTGAATTTTTTATCTGACAAAAA-AGGGGTGTCGA-CCATGGCATGACCAA
7864 CACAAAAAAATTT
64 CACAAAAAAATTT
* *
7877 CAACACCAAAAAATTTTGAAAATTTTTTATCTGACAAAAAAGGGGTGTCGACCATTGCATGACCA
1 CAACA-CAAAAAAATTTG--AATTTTTTATCTGACAAAAAAGGGGTGTCGACCATGGCATGACCA
7942 ACA
63 ACA
7945 AAGGGGTGTC
Statistics
Matches: 61, Mismatches: 2, Indels: 7
0.87 0.03 0.10
Matches are distributed among these distances:
76 5 0.08
77 11 0.18
78 1 0.02
79 43 0.70
80 1 0.02
ACGTcount: A:0.43, C:0.18, G:0.14, T:0.25
Consensus pattern (76 bp):
CAACACAAAAAAATTTGAATTTTTTATCTGACAAAAAAGGGGTGTCGACCATGGCATGACCAACA
CAAAAAAATTT
Found at i:7939 original size:28 final size:28
Alignment explanation
Indices: 7908--7968 Score: 104
Period size: 29 Copynumber: 2.1 Consensus size: 28
7898 ATTTTTTATC
7908 TGACAAAAAAGGGGTGTCGACCATTGCA
1 TGACAAAAAAGGGGTGTCGACCATTGCA
*
7936 TGACCAACAAAGGGGTGTCGACCATTGCA
1 TGA-CAAAAAAGGGGTGTCGACCATTGCA
7965 TGAC
1 TGAC
7969 CAACACCAAA
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
28 4 0.13
29 27 0.87
ACGTcount: A:0.33, C:0.21, G:0.28, T:0.18
Consensus pattern (28 bp):
TGACAAAAAAGGGGTGTCGACCATTGCA
Found at i:7977 original size:35 final size:29
Alignment explanation
Indices: 7915--7973 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
7905 ATCTGACAAA
7915 AAAGGGGTGTCGACCATTGCATGACCAAC
1 AAAGGGGTGTCGACCATTGCATGACCAAC
7944 AAAGGGGTGTCGACCATTGCATGACCAAC
1 AAAGGGGTGTCGACCATTGCATGACCAAC
7973 A
1 A
7974 CCAAAAAATT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.32, C:0.24, G:0.27, T:0.17
Consensus pattern (29 bp):
AAAGGGGTGTCGACCATTGCATGACCAAC
Found at i:8162 original size:106 final size:108
Alignment explanation
Indices: 7964--8169 Score: 287
Period size: 106 Copynumber: 1.9 Consensus size: 108
7954 CGACCATTGC
* *
7964 ATGACCAACACCAAAAAATTTTGAAATTTTTTTATCTGAAAAAATGGGGTGTCGGTCATTGCATG
1 ATGACCAACACCAAAAAA-TTTGAAATTTTTTTATCTGAAAAAATGGGGTGTCAGCCATTGCATG
* **
8029 GCCAACATCCAAAATTTTGATTCTTTTTATCAGATAAATAGGCA
65 GCCAACAACCAAAATTTAAATTCTTTTTATCAGATAAATAGGCA
8073 ATGACCAACACCAAAAAA-TTG-AA-TTTTTTATCTGACAAAAA-GGGAGTGTCAGCCATTGCAT
1 ATGACCAACACCAAAAAATTTGAAATTTTTTTATCTGA-AAAAATGGG-GTGTCAGCCATTGCAT
*
8134 GGCCAATAACCAAAAATTTAAATT-TTTTTATCAGAT
64 GGCCAACAACC-AAAATTTAAATTCTTTTTATCAGAT
8170 TAAAAAGGGG
Statistics
Matches: 88, Mismatches: 6, Indels: 9
0.85 0.06 0.09
Matches are distributed among these distances:
105 15 0.17
106 42 0.48
107 13 0.15
109 18 0.20
ACGTcount: A:0.38, C:0.16, G:0.15, T:0.32
Consensus pattern (108 bp):
ATGACCAACACCAAAAAATTTGAAATTTTTTTATCTGAAAAAATGGGGTGTCAGCCATTGCATGG
CCAACAACCAAAATTTAAATTCTTTTTATCAGATAAATAGGCA
Found at i:8195 original size:60 final size:60
Alignment explanation
Indices: 8082--8199 Score: 150
Period size: 60 Copynumber: 2.0 Consensus size: 60
8072 AATGACCAAC
* * **
8082 ACCAAAAAATTGAATTTTTTATCTGACAAAAAGGGAGTGTCAGCCATTGCATGGCCAATA
1 ACCAAAAAATTAAATTTTTTATCAGACAAAAAGGGAGTGTCAGCCATACCATGGCCAATA
* *
8142 ACCAAAAATTTAAATTTTTTTATCAGATTAAAAAGGG-GTGTCA-CCATACCATGGCCAA
1 ACCAAAAAATTAAA-TTTTTTATCAGA-CAAAAAGGGAGTGTCAGCCATACCATGGCCAA
8200 CACCATTTTT
Statistics
Matches: 50, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
60 25 0.50
61 17 0.34
62 8 0.16
ACGTcount: A:0.39, C:0.17, G:0.16, T:0.28
Consensus pattern (60 bp):
ACCAAAAAATTAAATTTTTTATCAGACAAAAAGGGAGTGTCAGCCATACCATGGCCAATA
Found at i:8665 original size:20 final size:20
Alignment explanation
Indices: 8640--8677 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
8630 ATCATTACTA
*
8640 ATTAATTAGGTTTTAATTCC
1 ATTAATGAGGTTTTAATTCC
8660 ATTAATGAGGTTTTAATT
1 ATTAATGAGGTTTTAATT
8678 TAGTTTTAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.32, C:0.05, G:0.13, T:0.50
Consensus pattern (20 bp):
ATTAATGAGGTTTTAATTCC
Found at i:8988 original size:19 final size:19
Alignment explanation
Indices: 8964--9025 Score: 61
Period size: 19 Copynumber: 3.3 Consensus size: 19
8954 AGAAAAAAGT
8964 TTTTTTTTATATTTTTATA
1 TTTTTTTTATATTTTTATA
* * *
8983 TTTTTTTAATAATGTTATA
1 TTTTTTTTATATTTTTATA
* * * *
9002 ATTTTTATATTTTTTTAAA
1 TTTTTTTTATATTTTTATA
9021 TTTTT
1 TTTTT
9026 AAATATTAAA
Statistics
Matches: 32, Mismatches: 11, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
19 32 1.00
ACGTcount: A:0.26, C:0.00, G:0.02, T:0.73
Consensus pattern (19 bp):
TTTTTTTTATATTTTTATA
Found at i:10614 original size:30 final size:29
Alignment explanation
Indices: 10580--10710 Score: 140
Period size: 30 Copynumber: 4.4 Consensus size: 29
10570 TTTTAAGGCT
10580 AAAATGTGATTTTTAAAAAGTTTGGGGATC
1 AAAATGTGATTTTTAAAAAGTTTGGGG-TC
* *
10610 AAAATGTGATTTTTGGAAAATTTTGGGGTC
1 AAAATGTGATTTTT-AAAAAGTTTGGGGTC
* **
10640 AAAATGTAATTTTGGAAAAGTTTGGGGTC
1 AAAATGTGATTTTTAAAAAGTTTGGGGTC
* *
10669 AAAATGT-AATTTTAGAAAAGTTTAGGAGTC
1 AAAATGTGATTTTTA-AAAAGTTT-GGGGTC
*
10699 -AAATGTAATTTT
1 AAAATGTGATTTT
10711 GGGAAAAATT
Statistics
Matches: 87, Mismatches: 10, Indels: 8
0.83 0.10 0.08
Matches are distributed among these distances:
28 4 0.05
29 35 0.40
30 37 0.43
31 11 0.13
ACGTcount: A:0.37, C:0.03, G:0.23, T:0.37
Consensus pattern (29 bp):
AAAATGTGATTTTTAAAAAGTTTGGGGTC
Found at i:10622 original size:60 final size:58
Alignment explanation
Indices: 10542--10711 Score: 184
Period size: 58 Copynumber: 2.9 Consensus size: 58
10532 TCTCGGAGAA
* * *
10542 TTTGGGGTC-AAATGTAATTTTAGAAATTTTTTAAGGCT-AAAATGTGATTTTTAAAAAG
1 TTTGGGGTCAAAATGTAATTTTAGAAA-ATTTT-AGGCTCAAAATGTAATTTTGAAAAAG
* * * * *
10600 TTTGGGGATCAAAATGTGATTTTTGGAAAATTTTGGGGTCAAAATGTAATTTTGGAAAAG
1 TTTGGGG-TCAAAATGT-AATTTTAGAAAATTTTAGGCTCAAAATGTAATTTTGAAAAAG
* *
10660 TTTGGGGTCAAAATGTAATTTTAGAAAAGTTTAGGAGTC-AAATGTAATTTTG
1 TTTGGGGTCAAAATGTAATTTTAGAAAATTTTAGG-CTCAAAATGTAATTTTG
10712 GGAAAAATTA
Statistics
Matches: 95, Mismatches: 12, Indels: 10
0.81 0.10 0.09
Matches are distributed among these distances:
58 35 0.37
59 17 0.18
60 34 0.36
61 9 0.09
ACGTcount: A:0.35, C:0.04, G:0.23, T:0.39
Consensus pattern (58 bp):
TTTGGGGTCAAAATGTAATTTTAGAAAATTTTAGGCTCAAAATGTAATTTTGAAAAAG
Found at i:10700 original size:59 final size:58
Alignment explanation
Indices: 10542--10717 Score: 185
Period size: 60 Copynumber: 3.0 Consensus size: 58
10532 TCTCGGAGAA
* *** * * **
10542 TTTGGGGTC-AAATGTAATTTTAGAAATTTTTTAAGGCTAAAATGTGATTTTTAAAAAG
1 TTTGGGGTCAAAATGTAATTTTAGAAAATTTAGGAGTC-AAAATGTAATTTTGGAAAAG
* * * *
10600 TTTGGGGATCAAAATGTGATTTTTGGAAAATTTTGGGGTCAAAATGTAATTTTGGAAAAG
1 TTTGGGG-TCAAAATGT-AATTTTAGAAAATTTAGGAGTCAAAATGTAATTTTGGAAAAG
10660 TTTGGGGTCAAAATGTAATTTTAGAAAAGTTTAGGAGTC-AAATGTAATTTTGGGAAAA
1 TTTGGGGTCAAAATGTAATTTTAGAAAA-TTTAGGAGTCAAAATGTAATTTT-GGAAAA
10718 ATTAAGGGAC
Statistics
Matches: 99, Mismatches: 14, Indels: 9
0.81 0.11 0.07
Matches are distributed among these distances:
58 29 0.29
59 25 0.25
60 30 0.30
61 15 0.15
ACGTcount: A:0.36, C:0.03, G:0.23, T:0.38
Consensus pattern (58 bp):
TTTGGGGTCAAAATGTAATTTTAGAAAATTTAGGAGTCAAAATGTAATTTTGGAAAAG
Found at i:10717 original size:30 final size:29
Alignment explanation
Indices: 10580--10717 Score: 170
Period size: 29 Copynumber: 4.7 Consensus size: 29
10570 TTTTAAGGCT
* **
10580 AAAATGTGATTTTTAAAAAGTTTGGGGATC
1 AAAATGTAATTTTGGAAAAGTTTGGGG-TC
* *
10610 AAAATGTGATTTTTGGAAAATTTTGGGGTC
1 AAAATGT-AATTTTGGAAAAGTTTGGGGTC
10640 AAAATGTAATTTTGGAAAAGTTTGGGGTC
1 AAAATGTAATTTTGGAAAAGTTTGGGGTC
* *
10669 AAAATGTAATTTTAGAAAAGTTTAGGAGTC
1 AAAATGTAATTTTGGAAAAGTTT-GGGGTC
10699 -AAATGTAATTTTGGGAAAA
1 AAAATGTAATTTT-GGAAAA
10718 ATTAAGGGAC
Statistics
Matches: 95, Mismatches: 10, Indels: 6
0.86 0.09 0.05
Matches are distributed among these distances:
29 54 0.57
30 26 0.27
31 15 0.16
ACGTcount: A:0.38, C:0.03, G:0.24, T:0.36
Consensus pattern (29 bp):
AAAATGTAATTTTGGAAAAGTTTGGGGTC
Found at i:11370 original size:2 final size:2
Alignment explanation
Indices: 11365--11399 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
11355 TATATATATA
11365 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
11400 AAATCTATTC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.00, C:0.00, G:0.49, T:0.51
Consensus pattern (2 bp):
TG
Found at i:12555 original size:48 final size:48
Alignment explanation
Indices: 12457--12656 Score: 156
Period size: 48 Copynumber: 4.4 Consensus size: 48
12447 GATTTGGTCG
* *
12457 ACTTCTCTATATCTCATCAAGAAGATGACCGCTTTACTGCTTTGACCC
1 ACTTCTCTATATCTCATCAAGAAGATGACCGCTTCACTGATTTGACCC
* * * *
12505 ACTTCTCTGTATCTCATCAAGAAGATGACTGCTTCATTGATTT-ATTCC
1 ACTTCTCTATATCTCATCAAGAAGATGACCGCTTCACTGATTTGA-CCC
* * * * *
12553 ACTTCTCTATATTTCATC-AG--GAAGACGGATT---TGGTTT-----
1 ACTTCTCTATATCTCATCAAGAAGATGACCGCTTCACTGATTTGACCC
* * * *
12590 ACTTCTCTGTATCTCATCAGGAAGATGACCGCTTTA-TTACTTTGACCC
1 ACTTCTCTATATCTCATCAAGAAGATGACCGCTTCACTGA-TTTGACCC
12638 ACTTCTCTATATCTCATCA
1 ACTTCTCTATATCTCATCA
12657 GGAAAATGGG
Statistics
Matches: 119, Mismatches: 21, Indels: 24
0.73 0.13 0.15
Matches are distributed among these distances:
37 16 0.13
38 1 0.01
40 8 0.07
42 6 0.05
43 3 0.03
45 8 0.07
47 3 0.03
48 74 0.62
ACGTcount: A:0.24, C:0.25, G:0.13, T:0.38
Consensus pattern (48 bp):
ACTTCTCTATATCTCATCAAGAAGATGACCGCTTCACTGATTTGACCC
Found at i:12594 original size:85 final size:85
Alignment explanation
Indices: 12505--12660 Score: 235
Period size: 85 Copynumber: 1.8 Consensus size: 85
12495 GCTTTGACCC
* * *
12505 ACTTCTCTGTATCTCATCAAGAAGATGACTGCTTCATTGA-TTT-ATTCCACTTCTCTATATTTC
1 ACTTCTCTGTATCTCATCAAGAAGATGACCGCTTCATT-ACTTTGA-CCCACTTCTCTATATCTC
12568 ATCAGGAAGACGGATTTGGTTT
64 ATCAGGAAGACGGATTTGGTTT
* *
12590 ACTTCTCTGTATCTCATCAGGAAGATGACCGCTTTATTACTTTGACCCACTTCTCTATATCTCAT
1 ACTTCTCTGTATCTCATCAAGAAGATGACCGCTTCATTACTTTGACCCACTTCTCTATATCTCAT
12655 CAGGAA
66 CAGGAA
12661 AATGGGGTTT
Statistics
Matches: 64, Mismatches: 5, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
84 1 0.02
85 62 0.97
86 1 0.02
ACGTcount: A:0.25, C:0.23, G:0.14, T:0.38
Consensus pattern (85 bp):
ACTTCTCTGTATCTCATCAAGAAGATGACCGCTTCATTACTTTGACCCACTTCTCTATATCTCAT
CAGGAAGACGGATTTGGTTT
Found at i:12614 original size:133 final size:133
Alignment explanation
Indices: 12371--12656 Score: 405
Period size: 133 Copynumber: 2.1 Consensus size: 133
12361 GATTTGGTCT
* * *
12371 ACTTCTCTGTATCTCATCAGGAAGACGATCGCTTCATTTATTTTGATCCACTTCTCTGTATCTCA
1 ACTTCTCTGTATCTCATCAAGAAGACGATCGCTTCATTGATTTT-ATCCACTTCTCTATATCTCA
* *
12436 TCAGAAAGATGGATTTGGTCGACTTCTCTATATCTCATCAAGAAGATGACCGCTTTACTGCTTTG
65 TCAGAAAGACGGATTTGGTCGACTTCTCTATATCTCATCAAGAAGATGACCGCTTTACTACTTTG
12501 ACCC
130 ACCC
* *
12505 ACTTCTCTGTATCTCATCAAGAAGATGA-CTGCTTCATTGA-TTTATTCCACTTCTCTATATTTC
1 ACTTCTCTGTATCTCATCAAGAAGACGATC-GCTTCATTGATTTTA-TCCACTTCTCTATATCTC
* ** * * *
12568 ATCAGGAAGACGGATTTGGTTTACTTCTCTGTATCTCATCAGGAAGATGACCGCTTTATTACTTT
64 ATCAGAAAGACGGATTTGGTCGACTTCTCTATATCTCATCAAGAAGATGACCGCTTTACTACTTT
12633 GACCC
129 GACCC
*
12638 ACTTCTCTATATCTCATCA
1 ACTTCTCTGTATCTCATCA
12657 GGAAAATGGG
Statistics
Matches: 136, Mismatches: 14, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
132 1 0.01
133 100 0.74
134 35 0.26
ACGTcount: A:0.24, C:0.24, G:0.14, T:0.37
Consensus pattern (133 bp):
ACTTCTCTGTATCTCATCAAGAAGACGATCGCTTCATTGATTTTATCCACTTCTCTATATCTCAT
CAGAAAGACGGATTTGGTCGACTTCTCTATATCTCATCAAGAAGATGACCGCTTTACTACTTTGA
CCC
Found at i:12768 original size:48 final size:46
Alignment explanation
Indices: 12700--12868 Score: 158
Period size: 48 Copynumber: 3.8 Consensus size: 46
12690 CGCTTCATCT
* *
12700 ATTTGGTCTACTTATCTGTATCTCATCAGGAAGATGACCGCTTTATTG
1 ATTTGATCTACTTCTCTGTATCTCATCAGGAAGATGA--GCTTTATTG
* *
12748 ATTTAATCTACTTCTTTGTATCTCATCAGG-A-A-G-GC---A--G
1 ATTTGATCTACTTCTCTGTATCTCATCAGGAAGATGAGCTTTATTG
*
12785 ATTTGGTCTACTTCTCTGTATCTCATCAGGAAGATGATTGCTTTATTG
1 ATTTGATCTACTTCTCTGTATCTCATCAGGAAGATGA--GCTTTATTG
* * * *
12833 CTTTGACCCACTTCTCTATATCTCATCAGGAAGATG
1 ATTTGATCTACTTCTCTGTATCTCATCAGGAAGATG
12869 GGGTTTGAAG
Statistics
Matches: 98, Mismatches: 12, Indels: 22
0.74 0.09 0.17
Matches are distributed among these distances:
37 28 0.29
38 1 0.01
39 2 0.02
40 1 0.01
42 2 0.02
43 2 0.02
45 1 0.01
46 2 0.02
47 1 0.01
48 58 0.59
ACGTcount: A:0.24, C:0.20, G:0.17, T:0.39
Consensus pattern (46 bp):
ATTTGATCTACTTCTCTGTATCTCATCAGGAAGATGAGCTTTATTG
Found at i:12846 original size:85 final size:85
Alignment explanation
Indices: 12700--12865 Score: 251
Period size: 85 Copynumber: 2.0 Consensus size: 85
12690 CGCTTCATCT
* * *
12700 ATTTGGTCTACTTATCTGTATCTCATCAGGAAGATGACCGCTTTATTGATTTAATCTACTTCTTT
1 ATTTGGTCTACTTATCTGTATCTCATCAGGAAGATGACCGCTTTATTGATTTAACCCACTTCTCT
*
12765 GTATCTCATCAGGAAGGCAG
66 ATATCTCATCAGGAAGGCAG
* ** * *
12785 ATTTGGTCTACTTCTCTGTATCTCATCAGGAAGATGATTGCTTTATTGCTTTGACCCACTTCTCT
1 ATTTGGTCTACTTATCTGTATCTCATCAGGAAGATGACCGCTTTATTGATTTAACCCACTTCTCT
12850 ATATCTCATCAGGAAG
66 ATATCTCATCAGGAAG
12866 ATGGGGTTTG
Statistics
Matches: 72, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
85 72 1.00
ACGTcount: A:0.23, C:0.20, G:0.17, T:0.39
Consensus pattern (85 bp):
ATTTGGTCTACTTATCTGTATCTCATCAGGAAGATGACCGCTTTATTGATTTAACCCACTTCTCT
ATATCTCATCAGGAAGGCAG
Found at i:12998 original size:208 final size:208
Alignment explanation
Indices: 12505--13119 Score: 882
Period size: 208 Copynumber: 3.0 Consensus size: 208
12495 GCTTTGACCC
* * * * *
12505 ACTTCTCTGTATCTCATCAAGAAGATGACTGCTTCATTGATTTATTCCACTTCTCTATATTTCAT
1 ACTTCTCTGTATCTCATCAGGAAGATGACCGCTTCATTGATTTAATCCACTTCTCTGTATCTCAT
* * * *
12570 CAGGAAGACGGATTTGGTTTACTTCTCTGTATCTCATCAGGAAGATGACCGCTTTATTACTTTGA
66 CAGGAAGGCGGATTTGGTCTACTTCTCTGTATCTCATCAGGAAGATGACAGCTTTATTGCTTTGA
* *
12635 CCCACTTCTCTATATCTCATCAGGAAAATGGGGTTT--A-TC-CACTT-ACATTGAGCTTCGCTT
131 CCCACTTCTCTATATCTCATCAGGAAGATGGGGTTTGAAGTCTCA-TTCATATTGAGCTTCGCTT
12695 CATCT-ATTTGGTCT
195 CAT-TGATTTGGTCT
* * * *
12709 ACTTATCTGTATCTCATCAGGAAGATGACCGCTTTATTGATTTAATCTACTTCTTTGTATCTCAT
1 ACTTCTCTGTATCTCATCAGGAAGATGACCGCTTCATTGATTTAATCCACTTCTCTGTATCTCAT
* **
12774 CAGGAAGGCAGATTTGGTCTACTTCTCTGTATCTCATCAGGAAGATGATTGCTTTATTGCTTTGA
66 CAGGAAGGCGGATTTGGTCTACTTCTCTGTATCTCATCAGGAAGATGACAGCTTTATTGCTTTGA
* *
12839 CCCACTTCTCTATATCTCATCAGGAAGATGGGGTTTGAAGTCTTATTCATATTGTGCTTCGCTTC
131 CCCACTTCTCTATATCTCATCAGGAAGATGGGGTTTGAAGTCTCATTCATATTGAGCTTCGCTTC
*
12904 GTTGATTTGGTCT
196 ATTGATTTGGTCT
12917 ACTTCTCTGTATCTCATCAGGAAGATGACCGCTTCATTGATTTAATCCACTTCTCTGTATCTCAT
1 ACTTCTCTGTATCTCATCAGGAAGATGACCGCTTCATTGATTTAATCCACTTCTCTGTATCTCAT
* * * * *
12982 TAGGAAGGCGGATTTGGTCCACTTCTCTGTATCTTATCAGGAAGATCACAGTTTTATTGCTTTGA
66 CAGGAAGGCGGATTTGGTCTACTTCTCTGTATCTCATCAGGAAGATGACAGCTTTATTGCTTTGA
* ** * * *
13047 TCCACTTCTCTATATCTCATCAGGAAGATAAGGTTTGAAGTCTCATTCGTATTGAGTTTCGTTTC
131 CCCACTTCTCTATATCTCATCAGGAAGATGGGGTTTGAAGTCTCATTCATATTGAGCTTCGCTTC
13112 ATTGATTT
196 ATTGATTT
13120 TGTAACAGTC
Statistics
Matches: 364, Mismatches: 41, Indels: 8
0.88 0.10 0.02
Matches are distributed among these distances:
204 150 0.41
206 1 0.00
207 5 0.01
208 208 0.57
ACGTcount: A:0.23, C:0.21, G:0.17, T:0.40
Consensus pattern (208 bp):
ACTTCTCTGTATCTCATCAGGAAGATGACCGCTTCATTGATTTAATCCACTTCTCTGTATCTCAT
CAGGAAGGCGGATTTGGTCTACTTCTCTGTATCTCATCAGGAAGATGACAGCTTTATTGCTTTGA
CCCACTTCTCTATATCTCATCAGGAAGATGGGGTTTGAAGTCTCATTCATATTGAGCTTCGCTTC
ATTGATTTGGTCT
Found at i:13050 original size:85 final size:85
Alignment explanation
Indices: 12907--13073 Score: 244
Period size: 85 Copynumber: 2.0 Consensus size: 85
12897 TCGCTTCGTT
* * *
12907 GATTTGGTCTACTTCTCTGTATCTCATCAGGAAGATGACCGCTTCATTGATTTAATCCACTTCTC
1 GATTTGGTCCACTTCTCTGTATCTCATCAGGAAGATCACAGCTTCATTGATTTAATCCACTTCTC
* *
12972 TGTATCTCATTAGGAAGGCG
66 TATATCTCATCAGGAAGGCG
* * * * *
12992 GATTTGGTCCACTTCTCTGTATCTTATCAGGAAGATCACAGTTTTATTGCTTTGATCCACTTCTC
1 GATTTGGTCCACTTCTCTGTATCTCATCAGGAAGATCACAGCTTCATTGATTTAATCCACTTCTC
13057 TATATCTCATCAGGAAG
66 TATATCTCATCAGGAAG
13074 ATAAGGTTTG
Statistics
Matches: 72, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
85 72 1.00
ACGTcount: A:0.23, C:0.22, G:0.17, T:0.38
Consensus pattern (85 bp):
GATTTGGTCCACTTCTCTGTATCTCATCAGGAAGATCACAGCTTCATTGATTTAATCCACTTCTC
TATATCTCATCAGGAAGGCG
Found at i:15233 original size:36 final size:36
Alignment explanation
Indices: 15138--15222 Score: 143
Period size: 36 Copynumber: 2.4 Consensus size: 36
15128 AACAGGCATA
*
15138 ACCTTTGGGTCAACAGGGAGTAAAACGAGCATCATG
1 ACCTTTGGGTCAACAGGGAGTAAAACGAGAATCATG
* *
15174 ACCTTTGCGTCAACAGGGAGTAAAATGAGAATCATG
1 ACCTTTGGGTCAACAGGGAGTAAAACGAGAATCATG
15210 ACCTTTGGGTCAA
1 ACCTTTGGGTCAA
15223 TAAAGAGTAA
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
36 45 1.00
ACGTcount: A:0.33, C:0.19, G:0.26, T:0.22
Consensus pattern (36 bp):
ACCTTTGGGTCAACAGGGAGTAAAACGAGAATCATG
Found at i:17011 original size:84 final size:85
Alignment explanation
Indices: 16792--17035 Score: 305
Period size: 85 Copynumber: 2.9 Consensus size: 85
16782 GATTTGGTTT
* * * *
16792 ACTTCTTTATATCTCATCTGGAAGATCACTGCTTTATTGATTTAATTCACTTCTCTGTATCTCAT
1 ACTTCTATGTATCTCATCAGGAAGATCACTGCTTTATTGATTTAATCCACTTCTCTGTATCTCAT
* *
16857 CAGGTAGATGGATTTGACCC
66 CAGGAAGATGAATTTGACCC
* * *
16877 ACTTCTCTGTATCTCATCAGGAAGATGA-TCGCTTCATTGATTTAATCCACTTCTCTGTATCTCA
1 ACTTCTATGTATCTCATCAGGAAGATCACT-GCTTTATTGATTTAATCCACTTCTCTGTATCTCA
* *
16941 TCAGGAAGGTGAATTTG-TCC
65 TCAGGAAGATGAATTTGACCC
* * * *
16961 ACTTCTATGTATCTCATCAGGAAGATTACTGTTTTATT-ACTTTGACCCACTTCTCTGTATCTCA
1 ACTTCTATGTATCTCATCAGGAAGATCACTGCTTTATTGA-TTTAATCCACTTCTCTGTATCTCA
*
17025 TTAGGAAGATG
65 TCAGGAAGATG
17036 GGGTTTAAAG
Statistics
Matches: 138, Mismatches: 18, Indels: 7
0.85 0.11 0.04
Matches are distributed among these distances:
83 1 0.01
84 66 0.48
85 71 0.51
ACGTcount: A:0.24, C:0.21, G:0.15, T:0.39
Consensus pattern (85 bp):
ACTTCTATGTATCTCATCAGGAAGATCACTGCTTTATTGATTTAATCCACTTCTCTGTATCTCAT
CAGGAAGATGAATTTGACCC
Found at i:17125 original size:48 final size:48
Alignment explanation
Indices: 17084--17250 Score: 214
Period size: 48 Copynumber: 3.5 Consensus size: 48
17074 GATTTGGTCT
17084 ACTTCTCTGTATCTCATCAGGAAAATGACTGCTTCATTGATTTAATCC
1 ACTTCTCTGTATCTCATCAGGAAAATGACTGCTTCATTGATTTAATCC
* *
17132 ACTTCTCTGTATCTCATCAAGAAAATGACTACTTCATTGATTTAATCC
1 ACTTCTCTGTATCTCATCAGGAAAATGACTGCTTCATTGATTTAATCC
* * * * *
17180 ATTTCTCTGTATCTTATCAGGAAGATGA-TCGCCTT-ATTGCTTTGA-CC
1 ACTTCTCTGTATCTCATCAGGAAAATGACT-G-CTTCATTGATTTAATCC
*
17227 TACTTCTCTGTATCTTATCAGGAA
1 -ACTTCTCTGTATCTCATCAGGAA
17251 GATAGGGTTT
Statistics
Matches: 106, Mismatches: 10, Indels: 6
0.87 0.08 0.05
Matches are distributed among these distances:
47 3 0.03
48 100 0.94
49 3 0.03
ACGTcount: A:0.26, C:0.22, G:0.13, T:0.39
Consensus pattern (48 bp):
ACTTCTCTGTATCTCATCAGGAAAATGACTGCTTCATTGATTTAATCC
Found at i:17874 original size:85 final size:85
Alignment explanation
Indices: 17722--17882 Score: 234
Period size: 85 Copynumber: 1.9 Consensus size: 85
17712 CGCTTAATTG
* *
17722 ATTTCGTCTACTTCTCTGTATCTCATCAGGAAGATGATTGCTTCATTGATTTAATCCACTTCTCT
1 ATTTCGTCCACTTCTCTGTATCTCATAAGGAAGATGATTGCTTCATTGATTTAATCCACTTCTCT
17787 GTATCTCATCAAGAAGGCGA
66 GTATCTCATCAAGAAGGCGA
* * * * * *
17807 ATTTGGTCCACTTCTCTGTATTTCATAAGGAAGTTGATTGCTTTATTGCTTTGA-CCTACTTCTC
1 ATTTCGTCCACTTCTCTGTATCTCATAAGGAAGATGATTGCTTCATTGATTTAATCC-ACTTCTC
17871 TGTATCTCATCA
65 TGTATCTCATCA
17883 GAAATATAGG
Statistics
Matches: 67, Mismatches: 8, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
84 2 0.03
85 65 0.97
ACGTcount: A:0.22, C:0.22, G:0.15, T:0.41
Consensus pattern (85 bp):
ATTTCGTCCACTTCTCTGTATCTCATAAGGAAGATGATTGCTTCATTGATTTAATCCACTTCTCT
GTATCTCATCAAGAAGGCGA
Found at i:17911 original size:208 final size:208
Alignment explanation
Indices: 17654--18557 Score: 1204
Period size: 208 Copynumber: 4.3 Consensus size: 208
17644 TGGATTTGGT
*
17654 CCACTTCTCTGTATCTCATCA-AGAAGAT-GGAGTTTGAAGTCTCATTCGTATTAAGCTTCGCTT
1 CCACTTCTCTGTATCTCATCAGA-AAGATAGG-GTTTGAAGTCTCATTCGTATTGAGCTTCGCTT
* * **
17717 AATTGATTTCGTCTACTTCTCTGTATCTCATCAGGAAGATGATTGCTTCATTGATTTAATCCACT
64 CATTGATTTGGTCTACTTCTCTGTATCTCATCAGGAAGATGACCGCTTCATTGATTTAATCCACT
* * * * *
17782 TCTCTGTATCTCATCAAGAAGGCGAATTTGGTCCACTTCTCTGTATTTCATAAGGAAGTTGATTG
129 TCTCTGTATCTCATCAAGAAGGCGGATTTGGTCCACTTCTCTGTATCTCATTAGGAAGATGACTG
17847 CTTTATTGCTTTGAC
194 CTTTATTGCTTTGAC
* * **
17862 CTACTTCTCTGTATCTCATCAGAAATATAGGGTTTGAAGTCTCATTCGTATTGAGCTTTTCTTCA
1 CCACTTCTCTGTATCTCATCAGAAAGATAGGGTTTGAAGTCTCATTCGTATTGAGCTTCGCTTCA
* * *
17927 TTGATTTGTTCTACTTCTCTGTATCTTATTAGGAAGATGACCGCTTCATTGATTTAATCCACTTC
66 TTGATTTGGTCTACTTCTCTGTATCTCATCAGGAAGATGACCGCTTCATTGATTTAATCCACTTC
* * * * *
17992 TCTGTATCTCATCAAGAATGTGGATTTGGTCCACTTCTTTGTATCTCATTAGGAAGATGGCCGCT
131 TCTGTATCTCATCAAGAAGGCGGATTTGGTCCACTTCTCTGTATCTCATTAGGAAGATGACTGCT
*
18057 TTATTACTTTGAC
196 TTATTGCTTTGAC
* * * *
18070 CCATTTCTCTATATCTCATCAGGAAGATGGGGTTTGAAGTCTCATTCGTATTGAGCTTCGCTTCA
1 CCACTTCTCTGTATCTCATCAGAAAGATAGGGTTTGAAGTCTCATTCGTATTGAGCTTCGCTTCA
* *
18135 TTGATTTGGTCTACTTCTCTATATCTCATCAGGAAGATGATCGCTTCATTGATTTAATCCACTTC
66 TTGATTTGGTCTACTTCTCTGTATCTCATCAGGAAGATGACCGCTTCATTGATTTAATCCACTTC
* * * * * **
18200 TGTGTATCTTATTAGGAAGGCGGATTTGGTTCACTTCTCTGTATCTCATTAGGAAGATGGTTGCT
131 TCTGTATCTCATCAAGAAGGCGGATTTGGTCCACTTCTCTGTATCTCATTAGGAAGATGACTGCT
*
18265 TTATTGTTTTGAC
196 TTATTGCTTTGAC
* * * *
18278 CCACTTCTCTGTATCTCATTAGGAAGATAGGGTTTGAAGTCTCATTCATATTGAGCTTTGCTTCA
1 CCACTTCTCTGTATCTCATCAGAAAGATAGGGTTTGAAGTCTCATTCGTATTGAGCTTCGCTTCA
* *
18343 TTAATTTGGTCTACTTCTCTGTATCTCATCAGGAAGATGACTGCTTCATTGATTTAATCCACTTC
66 TTGATTTGGTCTACTTCTCTGTATCTCATCAGGAAGATGACCGCTTCATTGATTTAATCCACTTC
* * * ** * ** **
18408 TCTGTATCTCCTTAGGAAGGCGGATTTGGTTTACTTCTCTGTATCTCATCACAAAGATGACAACT
131 TCTGTATCTCATCAAGAAGGCGGATTTGGTCCACTTCTCTGTATCTCATTAGGAAGATGACTGCT
18473 TTATTGCTTTGAC
196 TTATTGCTTTGAC
* * * ** **
18486 CCACTTCTCTGTATCTCATCA-AGAAGATGAGAGTTTGAAGTTTCACTCACATTGAGCTTTACTT
1 CCACTTCTCTGTATCTCATCAGA-AAGAT-AGGGTTTGAAGTCTCATTCGTATTGAGCTTCGCTT
18550 CATT-ATTT
64 CATTGATTT
18558 TAATCTGCTT
Statistics
Matches: 615, Mismatches: 77, Indels: 8
0.88 0.11 0.01
Matches are distributed among these distances:
208 578 0.94
209 37 0.06
ACGTcount: A:0.23, C:0.20, G:0.17, T:0.40
Consensus pattern (208 bp):
CCACTTCTCTGTATCTCATCAGAAAGATAGGGTTTGAAGTCTCATTCGTATTGAGCTTCGCTTCA
TTGATTTGGTCTACTTCTCTGTATCTCATCAGGAAGATGACCGCTTCATTGATTTAATCCACTTC
TCTGTATCTCATCAAGAAGGCGGATTTGGTCCACTTCTCTGTATCTCATTAGGAAGATGACTGCT
TTATTGCTTTGAC
Found at i:18078 original size:85 final size:85
Alignment explanation
Indices: 17929--18090 Score: 218
Period size: 85 Copynumber: 1.9 Consensus size: 85
17919 TTTCTTCATT
* * * *
17929 GATTTGTTCTACTTCTCTGTATCTTATTAGGAAGATGACCGCTTCATTGATTTAATCCACTTCTC
1 GATTTGGTCCACTTCTCTGTATCTCATTAGGAAGATGACCGCTTCATTGATTTAACCCACTTCTC
*
17994 TGTATCTCATCAAGAATGTG
66 TATATCTCATCAAGAATGTG
* * * * *
18014 GATTTGGTCCACTTCTTTGTATCTCATTAGGAAGATGGCCGCTTTATT-ACTTTGACCCATTTCT
1 GATTTGGTCCACTTCTCTGTATCTCATTAGGAAGATGACCGCTTCATTGA-TTTAACCCACTTCT
18078 CTATATCTCATCA
65 CTATATCTCATCA
18091 GGAAGATGGG
Statistics
Matches: 66, Mismatches: 10, Indels: 2
0.85 0.13 0.03
Matches are distributed among these distances:
84 1 0.02
85 65 0.98
ACGTcount: A:0.22, C:0.22, G:0.15, T:0.41
Consensus pattern (85 bp):
GATTTGGTCCACTTCTCTGTATCTCATTAGGAAGATGACCGCTTCATTGATTTAACCCACTTCTC
TATATCTCATCAAGAATGTG
Found at i:18172 original size:416 final size:418
Alignment explanation
Indices: 16877--18557 Score: 1569
Period size: 416 Copynumber: 4.0 Consensus size: 418
16867 GATTTGACCC
16877 ACTTCTCTGTATCTCATCAGGAAGATGATCGCTTCATTGATTTAATCCACTTCTCTGTATCTCAT
1 ACTTCTCTGTATCTCATCAGGAAGATGATCGCTTCATTGATTTAATCCACTTCTCTGTATCTCAT
* * * * * *
16942 CAGGAAGGTGAATTT-GTCCACTTCTATGTATCTCATCAGGAAGATT-ACTGTTTTATTACTTTG
66 CAAGAAGGCGAATTTGGTCCACTTCTCTGTATCTCATCAGGAAGATTGATTGCTTTATTGCTTTG
* *
17005 ACCCACTTCTCTGTATCTCATTAGGAAGATGGGGTTTAAAGTCTCATTCGTATTGAGCTTCACTT
131 ACCCACTTCTCTGTATCTCATTAGGAAGATAGGGTTTGAAGTCTCATTCGTATTGAGCTTCACTT
* * *
17070 CGTTGATTTGGTCTACTTCTCTGTATCTCATCAGGAAAATGACTGCTTCATTGATTTAATCCACT
196 CATTGATTTGGTCTACTTCTCTGTATCTCATCAGGAAGATGACCGCTTCATTGATTTAATCCACT
* * *
17135 TCTCTGTATCTCATCAAGAAAATGACTACTTCATTGATTTAATCCATTTCTCTGTATCTTATCAG
261 TCTCTGTATCTCATCAAG--AATG------T--TGGATTTAATCCACTTCTCTGTATCTCATCAG
* * * * * *
17200 GAAGATGATCGCCTTATTGCTTTGACCTACTTCTCTGTATCTTATCAGGAAGATAGG-GTTTGAA
316 GAAGATGACCGCTTTATTACTTTGACCCACTTCTCTGTATCTCATCAAGAAGAT-GGAGTTTGAA
* *
17264 GTCTCATTCGTATTGAGCTTCATTTCATTGATTTGATCT
380 GTCTCATTCGTATTGAGCTTCACTTCATTGATTTGGTCT
* * * * * * *
17303 ACTTCTCTGTATCTCATCATGAAGACGACCGCATCATTAATTTAATCCACTTCTTTGTATCTAAT
1 ACTTCTCTGTATCTCATCAGGAAGATGATCGCTTCATTGATTTAATCCACTTCTCTGTATCTCAT
* * *
17368 CAAGAAGGCGAATTTGGTCCACTTCTCTGTATCTCATCAGGAAGATGGAGTTTGAAGTGTCATTT
66 CAAGAAGGCGAATTTGGTCCACTTCTCTGTATCTCATCAGGAAGATTGA--TTG--CT-TTA-TT
* * * * * ** *** * * *
17433 G-TATTGA--GA-TTCGCT-TATTTGATTTGG--TCTACTTTTCTGTA-TCTCA-TCAAGAAGAT
125 GCT-TTGACCCACTTCTCTGTATCTCATTAGGAAGATAGGGTT-TGAAGTCTCATTC--GTA-TT
* * ** * * *
17489 GA-C--CACTTTATTGCTTT-AACTCACTTCTCTATATCTCATCAGAAATATGGGGTTTGAAGTC
185 GAGCTTCACTTCATTGATTTGGTCT-ACTTCTCTGTATCTCATCAG-GA-A----G-ATG-A---
** * * *
17550 TCATTCGCTTCATTGATTTGGTCTACTTCTTTGTATCTCATCAGGAAGATGATCGCTTTATTGAT
238 -C---CGCTTCATTGATTTAATCCACTTCTCTGTATCTCATC---AAGA--AT-G---T-TGGAT
* * ** **
17615 TTAATCCATTTCTTTGTA--T-ATCA-GAA-AT----G---T-GGA-TTTGGTCCACTTCTCTGT
289 TTAATCCACTTCTCTGTATCTCATCAGGAAGATGACCGCTTTATTACTTTGACCCACTTCTCTGT
* * * *
17666 ATCTCATCAAGAAGATGGAGTTTGAAGTCTCATTCGTATTAAGCTTCGCTTAATTGATTTCGTCT
354 ATCTCATCAAGAAGATGGAGTTTGAAGTCTCATTCGTATTGAGCTTCACTTCATTGATTTGGTCT
*
17731 ACTTCTCTGTATCTCATCAGGAAGATGATTGCTTCATTGATTTAATCCACTTCTCTGTATCTCAT
1 ACTTCTCTGTATCTCATCAGGAAGATGATCGCTTCATTGATTTAATCCACTTCTCTGTATCTCAT
* *
17796 CAAGAAGGCGAATTTGGTCCACTTCTCTGTATTTCATAAGGAAG-TTGATTGCTTTATTGCTTTG
66 CAAGAAGGCGAATTTGGTCCACTTCTCTGTATCTCATCAGGAAGATTGATTGCTTTATTGCTTTG
* * * * **
17860 ACCTACTTCTCTGTATCTCATCAGAAATATAGGGTTTGAAGTCTCATTCGTATTGAGCTTTTCTT
131 ACCCACTTCTCTGTATCTCATTAGGAAGATAGGGTTTGAAGTCTCATTCGTATTGAGCTTCACTT
* * *
17925 CATTGATTTGTTCTACTTCTCTGTATCTTATTAGGAAGATGACCGCTTCATTGATTTAATCCACT
196 CATTGATTTGGTCTACTTCTCTGTATCTCATCAGGAAGATGACCGCTTCATTGATTTAATCCACT
** * * *
17990 TCTCTGTATCTCATCAAGAATG-TGGATTTGGTCCACTTCTTTGTATCTCATTAGGAAGATGGCC
261 TCTCTGTATCTCATCAAGAATGTTGGATTTAATCCACTTCTCTGTATCTCATCAGGAAGATGACC
* * * *
18054 GCTTTATTACTTTGACCCATTTCTCTATATCTCATCAGGAAGATGGGGTTTGAAGTCTCATTCGT
326 GCTTTATTACTTTGACCCACTTCTCTGTATCTCATCAAGAAGATGGAGTTTGAAGTCTCATTCGT
*
18119 ATTGAGCTTCGCTTCATTGATTTGGTCT
391 ATTGAGCTTCACTTCATTGATTTGGTCT
* * *
18147 ACTTCTCTATATCTCATCAGGAAGATGATCGCTTCATTGATTTAATCCACTTCTGTGTATCTTAT
1 ACTTCTCTGTATCTCATCAGGAAGATGATCGCTTCATTGATTTAATCCACTTCTCTGTATCTCAT
* * * * * * *
18212 TAGGAAGGCGGATTTGGTTCACTTCTCTGTATCTCATTAGGAAGA-TGGTTGCTTTATTGTTTTG
66 CAAGAAGGCGAATTTGGTCCACTTCTCTGTATCTCATCAGGAAGATTGATTGCTTTATTGCTTTG
* **
18276 ACCCACTTCTCTGTATCTCATTAGGAAGATAGGGTTTGAAGTCTCATTCATATTGAGCTTTGCTT
131 ACCCACTTCTCTGTATCTCATTAGGAAGATAGGGTTTGAAGTCTCATTCGTATTGAGCTTCACTT
* *
18341 CATTAATTTGGTCTACTTCTCTGTATCTCATCAGGAAGATGACTGCTTCATTGATTTAATCCACT
196 CATTGATTTGGTCTACTTCTCTGTATCTCATCAGGAAGATGACCGCTTCATTGATTTAATCCACT
* * * ** ** ** ** *
18406 TCTCTGTATCTCCTTAGGAA-GGCGGATTTGGTTTACTTCTCTGTATCTCATCACAAAGATGACA
261 TCTCTGTATCTCATCAAGAATGTTGGATTTAATCCACTTCTCTGTATCTCATCAGGAAGATGACC
* * * * *
18470 ACTTTATTGCTTTGACCCACTTCTCTGTATCTCATCAAGAAGATGAGAGTTTGAAGTTTCACTCA
326 GCTTTATTACTTTGACCCACTTCTCTGTATCTCATCAAGAAGATG-GAGTTTGAAGTCTCATTCG
* *
18535 CATTGAGCTTTACTTCATT-ATTT
390 TATTGAGCTTCACTTCATTGATTT
18558 TAATCTGCTT
Statistics
Matches: 1023, Mismatches: 166, Indels: 142
0.77 0.12 0.11
Matches are distributed among these distances:
402 19 0.02
404 1 0.00
405 3 0.00
406 3 0.00
407 3 0.00
408 2 0.00
410 4 0.00
411 1 0.00
413 33 0.03
414 1 0.00
415 2 0.00
416 404 0.39
417 31 0.03
420 1 0.00
421 9 0.01
422 4 0.00
423 2 0.00
424 5 0.00
425 13 0.01
426 80 0.08
427 77 0.08
428 207 0.20
429 8 0.01
430 15 0.01
431 5 0.00
432 2 0.00
433 4 0.00
434 8 0.01
435 1 0.00
437 2 0.00
438 3 0.00
439 5 0.00
440 1 0.00
442 55 0.05
443 3 0.00
445 5 0.00
446 1 0.00
ACGTcount: A:0.23, C:0.20, G:0.17, T:0.40
Consensus pattern (418 bp):
ACTTCTCTGTATCTCATCAGGAAGATGATCGCTTCATTGATTTAATCCACTTCTCTGTATCTCAT
CAAGAAGGCGAATTTGGTCCACTTCTCTGTATCTCATCAGGAAGATTGATTGCTTTATTGCTTTG
ACCCACTTCTCTGTATCTCATTAGGAAGATAGGGTTTGAAGTCTCATTCGTATTGAGCTTCACTT
CATTGATTTGGTCTACTTCTCTGTATCTCATCAGGAAGATGACCGCTTCATTGATTTAATCCACT
TCTCTGTATCTCATCAAGAATGTTGGATTTAATCCACTTCTCTGTATCTCATCAGGAAGATGACC
GCTTTATTACTTTGACCCACTTCTCTGTATCTCATCAAGAAGATGGAGTTTGAAGTCTCATTCGT
ATTGAGCTTCACTTCATTGATTTGGTCT
Found at i:18199 original size:48 final size:48
Alignment explanation
Indices: 18127--18218 Score: 121
Period size: 48 Copynumber: 1.9 Consensus size: 48
18117 GTATTGAGCT
** *
18127 TCGCTTCATTGATTTGGTCTACTTCTCTATATCTCATCAGGAAGATGA
1 TCGCTTCATTGATTTAATCCACTTCTCTATATCTCATCAGGAAGATGA
* * * *
18175 TCGCTTCATTGATTTAATCCACTTCTGTGTATCTTATTAGGAAG
1 TCGCTTCATTGATTTAATCCACTTCTCTATATCTCATCAGGAAG
18219 GCGGATTTGG
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
48 37 1.00
ACGTcount: A:0.23, C:0.20, G:0.16, T:0.41
Consensus pattern (48 bp):
TCGCTTCATTGATTTAATCCACTTCTCTATATCTCATCAGGAAGATGA
Found at i:18282 original size:85 final size:85
Alignment explanation
Indices: 18137--18303 Score: 228
Period size: 85 Copynumber: 2.0 Consensus size: 85
18127 TCGCTTCATT
* *
18137 GATTTGGTCTACTTCTCTATATCTCATCAGGAAGATGATCGCTTCATTGATTTAATCCACTTCTG
1 GATTTGGTCTACTTCTCTATATCTCATCAGGAAGATGATCGCTTCATTGATTTAACCCACTTCTC
*
18202 TGTATCTTATTAGGAAGGCG
66 TGTATCTCATTAGGAAGGCG
* * * * * * *
18222 GATTTGGT-TCACTTCTCTGTATCTCATTAGGAAGATGGTTGCTTTATTGTTTTGACCCACTTCT
1 GATTTGGTCT-ACTTCTCTATATCTCATCAGGAAGATGATCGCTTCATTGATTTAACCCACTTCT
18286 CTGTATCTCATTAGGAAG
65 CTGTATCTCATTAGGAAG
18304 ATAGGGTTTG
Statistics
Matches: 71, Mismatches: 10, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
84 1 0.01
85 70 0.99
ACGTcount: A:0.22, C:0.19, G:0.19, T:0.41
Consensus pattern (85 bp):
GATTTGGTCTACTTCTCTATATCTCATCAGGAAGATGATCGCTTCATTGATTTAACCCACTTCTC
TGTATCTCATTAGGAAGGCG
Found at i:18490 original size:85 final size:85
Alignment explanation
Indices: 18346--18502 Score: 233
Period size: 85 Copynumber: 1.8 Consensus size: 85
18336 TGCTTCATTA
** ** *
18346 ATTTGGTCTACTTCTCTGTATCTCATCAGGAAGATGACTGCTTCATTGATTTAATCCACTTCTCT
1 ATTTGGTCTACTTCTCTGTATCTCATCACAAAGATGACAACTTCATTGATTTAACCCACTTCTCT
18411 GTATCTCCTTAGGAAGGCGG
66 GTATCTCCTTAGGAAGGCGG
* * * *
18431 ATTTGGTTTACTTCTCTGTATCTCATCACAAAGATGACAACTTTATTGCTTTGACCCACTTCTCT
1 ATTTGGTCTACTTCTCTGTATCTCATCACAAAGATGACAACTTCATTGATTTAACCCACTTCTCT
18496 GTATCTC
66 GTATCTC
18503 ATCAAGAAGA
Statistics
Matches: 63, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
85 63 1.00
ACGTcount: A:0.22, C:0.24, G:0.15, T:0.39
Consensus pattern (85 bp):
ATTTGGTCTACTTCTCTGTATCTCATCACAAAGATGACAACTTCATTGATTTAACCCACTTCTCT
GTATCTCCTTAGGAAGGCGG
Found at i:18740 original size:90 final size:91
Alignment explanation
Indices: 18602--18769 Score: 250
Period size: 90 Copynumber: 1.9 Consensus size: 91
18592 TTGTCATTGT
* * * *
18602 GGCTTCAATTTGCTCCTCTTCAACTTAGGGATGTAAGATTCGTCTTTGCAACTTCAATC-A-CCC
1 GGCTTCAATCTACTCCTCTTCAACTTAGGGATATAAGATTCGCCTTTGCAACTTCAATCTAGCCC
18665 TTTACAGCTTTGAGATTTTCTTTTAC
66 TTTACAGCTTTGAGATTTTCTTTTAC
* * *
18691 GGCTTCAATCTACTTCTTTTCAACTTTAGGGATATAAGATTCGCCTTTGCAGCTTCAATCTAGCC
1 GGCTTCAATCTACTCCTCTTCAAC-TTAGGGATATAAGATTCGCCTTTGCAACTTCAATCTAGCC
18756 CTTTACAGCTTTGA
65 CTTTACAGCTTTGA
18770 AATTCGCCTT
Statistics
Matches: 69, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
89 20 0.29
90 32 0.46
91 1 0.01
92 16 0.23
ACGTcount: A:0.22, C:0.24, G:0.15, T:0.39
Consensus pattern (91 bp):
GGCTTCAATCTACTCCTCTTCAACTTAGGGATATAAGATTCGCCTTTGCAACTTCAATCTAGCCC
TTTACAGCTTTGAGATTTTCTTTTAC
Found at i:19987 original size:7 final size:8
Alignment explanation
Indices: 19970--19999 Score: 51
Period size: 8 Copynumber: 3.6 Consensus size: 8
19960 CGACCTCTCC
19970 TTTTTATT
1 TTTTTATT
19978 TTTTTATTT
1 TTTTTA-TT
19987 TTTTTATT
1 TTTTTATT
19995 TTTTT
1 TTTTT
20000 TGGGTGAGAT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
8 13 0.62
9 8 0.38
ACGTcount: A:0.10, C:0.00, G:0.00, T:0.90
Consensus pattern (8 bp):
TTTTTATT
Found at i:19991 original size:10 final size:9
Alignment explanation
Indices: 19970--20000 Score: 55
Period size: 9 Copynumber: 3.6 Consensus size: 9
19960 CGACCTCTCC
19970 TTTTTA-TT
1 TTTTTATTT
19978 TTTTTATTT
1 TTTTTATTT
19987 TTTTTATTT
1 TTTTTATTT
19996 TTTTT
1 TTTTT
20001 GGGTGAGATC
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
8 6 0.27
9 16 0.73
ACGTcount: A:0.10, C:0.00, G:0.00, T:0.90
Consensus pattern (9 bp):
TTTTTATTT
Found at i:20905 original size:14 final size:14
Alignment explanation
Indices: 20871--20910 Score: 55
Period size: 14 Copynumber: 2.8 Consensus size: 14
20861 TTTCAACCCC
20871 TTTTTCTTTTTTCT
1 TTTTTCTTTTTTCT
20885 TTCTTTCTTTTTT-T
1 TT-TTTCTTTTTTCT
20899 TATTTTCTTTTT
1 T-TTTTCTTTTT
20911 ATAACATGTC
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
14 13 0.54
15 11 0.46
ACGTcount: A:0.03, C:0.12, G:0.00, T:0.85
Consensus pattern (14 bp):
TTTTTCTTTTTTCT
Found at i:24465 original size:30 final size:30
Alignment explanation
Indices: 24431--24614 Score: 167
Period size: 30 Copynumber: 6.2 Consensus size: 30
24421 ATTTAGTGTC
24431 AAAATGTAATTTTGGAAAAGTTTAAGGGTT
1 AAAATGTAATTTTGGAAAAGTTTAAGGGTT
* * ** **
24461 AAAATATGATTTTCAAAAAGTTTGGGGGTT
1 AAAATGTAATTTTGGAAAAGTTTAAGGGTT
** * * *
24491 AAAATG-AGATTTTTAAAAAATTTAGGGGTC
1 AAAATGTA-ATTTTGGAAAAGTTTAAGGGTT
24521 AAAATGTAATTTTGGAAAAGTTT-AGGGTT
1 AAAATGTAATTTTGGAAAAGTTTAAGGGTT
* * *
24550 AAAATGTAATTTTGGAAAAGTGTAAGGATC
1 AAAATGTAATTTTGGAAAAGTTTAAGGGTT
* * * *
24580 ACAATGTGATATTGGAAAA-TTTTAGTGGTT
1 AAAATGTAATTTTGGAAAAGTTTAAG-GGTT
24610 AAAAT
1 AAAAT
24615 ATGAGGGTCA
Statistics
Matches: 122, Mismatches: 28, Indels: 8
0.77 0.18 0.05
Matches are distributed among these distances:
29 30 0.25
30 91 0.75
31 1 0.01
ACGTcount: A:0.40, C:0.02, G:0.22, T:0.35
Consensus pattern (30 bp):
AAAATGTAATTTTGGAAAAGTTTAAGGGTT
Found at i:24586 original size:59 final size:59
Alignment explanation
Indices: 24422--24614 Score: 199
Period size: 60 Copynumber: 3.2 Consensus size: 59
24412 TCTCAGAGAA
* * * * **
24422 TTTAGTGTCAAAATGTAATTTTGGAAAAGTTTAAGGGTTAAAATATGATTTTCAAAAAG
1 TTTAGGGTTAAAATGTAATTTTGGAAAAGTTTAAGGGTCAAAATGTGATTTTGGAAAAG
* ** * * *
24481 TTTGGGGGTTAAAATG-AGATTTTTAAAAAATTTAGGGGTCAAAATGTAATTTTGGAAAAG
1 TTT-AGGGTTAAAATGTA-ATTTTGGAAAAGTTTAAGGGTCAAAATGTGATTTTGGAAAAG
* * * * *
24541 TTTAGGGTTAAAATGTAATTTTGGAAAAGTGTAAGGATCACAATGTGATATTGGAAAAT
1 TTTAGGGTTAAAATGTAATTTTGGAAAAGTTTAAGGGTCAAAATGTGATTTTGGAAAAG
24600 TTTAGTGGTTAAAAT
1 TTTAG-GGTTAAAAT
24615 ATGAGGGTCA
Statistics
Matches: 107, Mismatches: 23, Indels: 7
0.78 0.17 0.05
Matches are distributed among these distances:
59 52 0.49
60 55 0.51
ACGTcount: A:0.39, C:0.03, G:0.22, T:0.36
Consensus pattern (59 bp):
TTTAGGGTTAAAATGTAATTTTGGAAAAGTTTAAGGGTCAAAATGTGATTTTGGAAAAG
Done.