Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01005637.1 Kokia drynarioides strain JFW-HI SEQ_119799, 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: 36008
ACGTcount: A:0.34, C:0.18, G:0.16, T:0.33
Warning! 12 characters in sequence are not A, C, G, or T
Found at i:37 original size:15 final size:16
Alignment explanation
Indices: 12--47 Score: 56
Period size: 15 Copynumber: 2.3 Consensus size: 16
2 ATGTGAAGTA
12 TATTATTTAAAATTAT
1 TATTATTTAAAATTAT
*
28 TATT-TTTAAATTTAT
1 TATTATTTAAAATTAT
43 TATTA
1 TATTA
48 AAATAAAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
15 14 0.78
16 4 0.22
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (16 bp):
TATTATTTAAAATTAT
Found at i:956 original size:2 final size:2
Alignment explanation
Indices: 949--973 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
939 TTTTCTTTCA
949 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
974 AAGTTTCAAA
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:1668 original size:23 final size:23
Alignment explanation
Indices: 1594--1698 Score: 79
Period size: 23 Copynumber: 4.5 Consensus size: 23
1584 TAAACGGAAC
* *
1594 AAACAGAGAGTAC-CGAAGTACT
1 AAACAGAGAGCACACAAAGTACT
* * *
1616 GAACAGAGAGCACA-TAAGTGCT
1 AAACAGAGAGCACACAAAGTACT
* *
1638 GGGCAACAGAGAGCACACAAAGTGCT
1 ---AAACAGAGAGCACACAAAGTACT
*
1664 AAACAGAGAGTACACAAAGTACT
1 AAACAGAGAGCACACAAAGTACT
* *
1687 GATCAGAGAGCA
1 AAACAGAGAGCA
1699 TGCTAGTGTT
Statistics
Matches: 66, Mismatches: 12, Indels: 9
0.76 0.14 0.10
Matches are distributed among these distances:
22 17 0.26
23 29 0.44
25 13 0.20
26 7 0.11
ACGTcount: A:0.44, C:0.19, G:0.26, T:0.11
Consensus pattern (23 bp):
AAACAGAGAGCACACAAAGTACT
Found at i:5894 original size:2 final size:2
Alignment explanation
Indices: 5887--5917 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
5877 CCATTCACAA
5887 AT AT AT 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 AT AT AT A
5918 GCTTAATGCT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:27941 original size:136 final size:136
Alignment explanation
Indices: 27697--27966 Score: 445
Period size: 136 Copynumber: 2.0 Consensus size: 136
27687 CACCCAATTT
* *
27697 AGTAACAGCTCTCCACAATCTTATCCCCATGAAAGTGTATAAATATCAGTTAAATAGAAACACTT
1 AGTAACAGCTCTCCACAATCTTATCACCATGAAAGTGTATAAATATCAGTCAAATAGAAACACTT
27762 CCCAAAACATCACAATTGCAAAAAGAAAACAGTAATGCGATTACCGATAAACTTACTTAAGGCAA
66 CCCAAAACATCACAATTGCAAAAAGAAAACAGTAATGCGATTACCGATAAACTTACTTAAGGCAA
27827 TTCAGC
131 TTCAGC
* * *
27833 AGTAACAGCTCTCCACAA-CGTTATCAGCATGAAGGTGTATAAATGTCAGTCAAATA-AGAACAC
1 AGTAACAGCTCTCCACAATC-TTATCACCATGAAAGTGTATAAATATCAGTCAAATAGA-AACAC
* *
27896 TTCCCAACACATCACAATTGCAAAAGGAAAACAGTAATGCGATTACCGATAAACTTACTTAAGGC
64 TTCCCAAAACATCACAATTGCAAAAAGAAAACAGTAATGCGATTACCGATAAACTTACTTAAGGC
27961 AATTCA
129 AATTCA
27967 ACCCTTCCTC
Statistics
Matches: 125, Mismatches: 7, Indels: 4
0.92 0.05 0.03
Matches are distributed among these distances:
135 2 0.02
136 123 0.98
ACGTcount: A:0.42, C:0.22, G:0.13, T:0.23
Consensus pattern (136 bp):
AGTAACAGCTCTCCACAATCTTATCACCATGAAAGTGTATAAATATCAGTCAAATAGAAACACTT
CCCAAAACATCACAATTGCAAAAAGAAAACAGTAATGCGATTACCGATAAACTTACTTAAGGCAA
TTCAGC
Found at i:29910 original size:58 final size:58
Alignment explanation
Indices: 29785--29928 Score: 164
Period size: 58 Copynumber: 2.5 Consensus size: 58
29775 ACCAAATGTA
* * * **
29785 AAAATAATTATCAAATTCAAAGCTTAACTTGATAAAAAAAAATTCATGCCCTAATACG
1 AAAATAATTATCAAATTCAAGGTTTAAATTGATAAAAAAAAATTCAAACCCTAATACG
** * * **
29843 GTAACAATTATCAAATTTAAGGTTTAAATTGA-ACAAAAAAAATTCAAACCCTAATATT
1 AAAATAATTATCAAATTCAAGGTTTAAATTGATA-AAAAAAAATTCAAACCCTAATACG
*
29901 AAAATAATTATCAAATTCAAGATTTAAA
1 AAAATAATTATCAAATTCAAGGTTTAAA
29929 AAAATGATTT
Statistics
Matches: 69, Mismatches: 16, Indels: 2
0.79 0.18 0.02
Matches are distributed among these distances:
57 1 0.01
58 68 0.99
ACGTcount: A:0.51, C:0.12, G:0.06, T:0.30
Consensus pattern (58 bp):
AAAATAATTATCAAATTCAAGGTTTAAATTGATAAAAAAAAATTCAAACCCTAATACG
Found at i:31628 original size:21 final size:21
Alignment explanation
Indices: 31612--31654 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
31602 CAAGACTTGC
31612 GAACTGAGACCCGAGACCCGA
1 GAACTGAGACCCGAGACCCGA
*
31633 GAACTGAGACCTGAGACCCGA
1 GAACTGAGACCCGAGACCCGA
31654 G
1 G
31655 CCCCGAGATT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.33, C:0.30, G:0.30, T:0.07
Consensus pattern (21 bp):
GAACTGAGACCCGAGACCCGA
Found at i:31629 original size:7 final size:7
Alignment explanation
Indices: 31617--31747 Score: 75
Period size: 7 Copynumber: 18.7 Consensus size: 7
31607 CTTGCGAACT
31617 GAGACCC
1 GAGACCC
31624 GAGACCC
1 GAGACCC
* *
31631 GAGAACT
1 GAGACCC
*
31638 GAGACCT
1 GAGACCC
31645 GAGACCC
1 GAGACCC
*
31652 GAGCCCC
1 GAGACCC
**
31659 GAGATTC
1 GAGACCC
* *
31666 AATACCC
1 GAGACCC
* *
31673 GAGGCAC
1 GAGACCC
31680 GAGACCC
1 GAGACCC
* ***
31687 AAGATAA
1 GAGACCC
*
31694 GGGACCC
1 GAGACCC
31701 GAGACCC
1 GAGACCC
**
31708 -ATGACTA
1 GA-GACCC
31715 GAGACCC
1 GAGACCC
*
31722 GAGACAC
1 GAGACCC
31729 GAGACCC
1 GAGACCC
*
31736 AAGACCC
1 GAGACCC
31743 GAGAC
1 GAGAC
31748 ACCAAACCCC
Statistics
Matches: 86, Mismatches: 36, Indels: 4
0.68 0.29 0.03
Matches are distributed among these distances:
6 1 0.01
7 84 0.98
8 1 0.01
ACGTcount: A:0.34, C:0.34, G:0.27, T:0.06
Consensus pattern (7 bp):
GAGACCC
Found at i:31756 original size:14 final size:14
Alignment explanation
Indices: 31696--31756 Score: 61
Period size: 14 Copynumber: 4.4 Consensus size: 14
31686 CAAGATAAGG
*
31696 GACCCGAGACCCAT
1 GACCCGAGACCCAA
** *
31710 GACTAGAGACCCGA
1 GACCCGAGACCCAA
*
31724 GACACGAGACCCAA
1 GACCCGAGACCCAA
31738 GACCCGAGACACCAA
1 GACCCGAGAC-CCAA
31753 -ACCC
1 GACCC
31757 CAAACCACAA
Statistics
Matches: 38, Mismatches: 8, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
14 34 0.89
15 4 0.11
ACGTcount: A:0.36, C:0.39, G:0.21, T:0.03
Consensus pattern (14 bp):
GACCCGAGACCCAA
Found at i:31756 original size:21 final size:21
Alignment explanation
Indices: 31716--31756 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
31706 CCATGACTAG
* *
31716 AGACCCGAGACACGAGACCCA
1 AGACCCGAGACACCAAACCCA
31737 AGACCCGAGACACCAAACCC
1 AGACCCGAGACACCAAACCC
31757 CAAACCACAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.39, C:0.41, G:0.20, T:0.00
Consensus pattern (21 bp):
AGACCCGAGACACCAAACCCA
Found at i:31759 original size:7 final size:7
Alignment explanation
Indices: 31749--31861 Score: 59
Period size: 7 Copynumber: 16.1 Consensus size: 7
31739 ACCCGAGACA
31749 CCAAACC
1 CCAAACC
31756 CCAAACC
1 CCAAACC
*
31763 ACAAACC
1 CCAAACC
* *
31770 ACAAAAC
1 CCAAACC
*
31777 CC-AATC
1 CCAAACC
31783 CCATAACC
1 CCA-AACC
* *
31791 AC-TACC
1 CCAAACC
*
31797 CCTAAAAC
1 CC-AAACC
*
31805 CCAAACA
1 CCAAACC
31812 CCAAACC
1 CCAAACC
*
31819 CTAAACC
1 CCAAACC
**
31826 CCAAATA
1 CCAAACC
31833 CCAAACC
1 CCAAACC
**
31840 ATAAACC
1 CCAAACC
*
31847 CCAAGCC
1 CCAAACC
*
31854 ACAAACC
1 CCAAACC
31861 C
1 C
31862 TCGAGCCAAT
Statistics
Matches: 75, Mismatches: 27, Indels: 8
0.68 0.25 0.07
Matches are distributed among these distances:
6 9 0.12
7 58 0.77
8 8 0.11
ACGTcount: A:0.47, C:0.46, G:0.01, T:0.06
Consensus pattern (7 bp):
CCAAACC
Found at i:31818 original size:28 final size:27
Alignment explanation
Indices: 31749--31858 Score: 73
Period size: 28 Copynumber: 3.9 Consensus size: 27
31739 ACCCGAGACA
31749 CCAAACCCCAAACCACAAACCACAAAAC
1 CCAAA-CCCAAACCACAAACCACAAAAC
* * *
31777 CCAATCCCATAACCAC-TACCCCTAAAAC
1 CCAAACCCA-AACCACAAACCAC-AAAAC
*
31805 CCAAACACCAAACC-CTAAACCCCAAATA-
1 CCAAAC-CCAAACCAC-AAACCACAAA-AC
* * *
31833 CCAAACCATAAACCCCAAGCCACAAA
1 CCAAACC-CAAACCACAAACCACAAA
31859 CCCTCGAGCC
Statistics
Matches: 66, Mismatches: 8, Indels: 16
0.73 0.09 0.18
Matches are distributed among these distances:
27 10 0.15
28 46 0.70
29 10 0.15
ACGTcount: A:0.48, C:0.45, G:0.01, T:0.06
Consensus pattern (27 bp):
CCAAACCCAAACCACAAACCACAAAAC
Found at i:31828 original size:21 final size:21
Alignment explanation
Indices: 31796--31850 Score: 83
Period size: 21 Copynumber: 2.6 Consensus size: 21
31786 TAACCACTAC
*
31796 CCCTAAAACCCAAACACCAAA
1 CCCTAAACCCCAAACACCAAA
*
31817 CCCTAAACCCCAAATACCAAA
1 CCCTAAACCCCAAACACCAAA
*
31838 CCATAAACCCCAA
1 CCCTAAACCCCAA
31851 GCCACAAACC
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.49, C:0.44, G:0.00, T:0.07
Consensus pattern (21 bp):
CCCTAAACCCCAAACACCAAA
Found at i:32854 original size:21 final size:21
Alignment explanation
Indices: 32830--32910 Score: 65
Period size: 21 Copynumber: 3.9 Consensus size: 21
32820 CTTGATAGTT
32830 CAAAACCATGAACCCTAAAAC
1 CAAAACCATGAACCCTAAAAC
* * *
32851 CAAAACTATAAACCCTAAATC
1 CAAAACCATGAACCCTAAAAC
** * * * *
32872 TTATACCCTCAACCCT-AAAT
1 CAAAACCATGAACCCTAAAAC
*
32892 CAAAACCCTGAACCCTAAA
1 CAAAACCATGAACCCTAAA
32911 CCTTAACCCT
Statistics
Matches: 44, Mismatches: 15, Indels: 2
0.72 0.25 0.03
Matches are distributed among these distances:
20 14 0.32
21 30 0.68
ACGTcount: A:0.47, C:0.33, G:0.02, T:0.17
Consensus pattern (21 bp):
CAAAACCATGAACCCTAAAAC
Found at i:32869 original size:7 final size:7
Alignment explanation
Indices: 32840--32925 Score: 50
Period size: 7 Copynumber: 12.6 Consensus size: 7
32830 CAAAACCATG
32840 AACCCTA
1 AACCCTA
* *
32847 AAACCAA
1 AACCCTA
**
32854 AACTATA
1 AACCCTA
32861 AACCCTA
1 AACCCTA
* *
32868 AATCTTA
1 AACCCTA
* *
32875 TACCCTC
1 AACCCTA
32882 AACCCTA
1 AACCCTA
* *
32889 AA-TCAA
1 AACCCTA
*
32895 AACCCTG
1 AACCCTA
32902 AACCCTA
1 AACCCTA
*
32909 AA-CCTT
1 AACCCTA
32915 AACCCTA
1 AACCCTA
32922 AACC
1 AACC
32926 TGATCCTTGA
Statistics
Matches: 53, Mismatches: 24, Indels: 4
0.65 0.30 0.05
Matches are distributed among these distances:
6 9 0.17
7 44 0.83
ACGTcount: A:0.44, C:0.36, G:0.01, T:0.19
Consensus pattern (7 bp):
AACCCTA
Found at i:32918 original size:13 final size:13
Alignment explanation
Indices: 32861--32926 Score: 51
Period size: 13 Copynumber: 4.9 Consensus size: 13
32851 CAAAACTATA
*
32861 AACCCTAAATCTT
1 AACCCTAAACCTT
* *
32874 ATACCCTCAACCCT
1 A-ACCCTAAACCTT
** * *
32888 AAATCAAAACCCTG
1 AACCCTAAA-CCTT
32902 AACCCTAAACCTT
1 AACCCTAAACCTT
32915 AACCCTAAACCT
1 AACCCTAAACCT
32927 GATCCTTGAG
Statistics
Matches: 38, Mismatches: 13, Indels: 4
0.69 0.24 0.07
Matches are distributed among these distances:
13 20 0.53
14 18 0.47
ACGTcount: A:0.39, C:0.38, G:0.02, T:0.21
Consensus pattern (13 bp):
AACCCTAAACCTT
Found at i:32918 original size:20 final size:20
Alignment explanation
Indices: 32859--32925 Score: 80
Period size: 20 Copynumber: 3.3 Consensus size: 20
32849 ACCAAAACTA
32859 TAAACCCTAAATCTTATACCC
1 TAAACCCTAAATCTTA-ACCC
* **
32880 TCAACCCTAAATCAAAACCC
1 TAAACCCTAAATCTTAACCC
* *
32900 TGAACCCTAAACCTTAACCC
1 TAAACCCTAAATCTTAACCC
32920 TAAACC
1 TAAACC
32926 TGATCCTTGA
Statistics
Matches: 38, Mismatches: 8, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
20 25 0.66
21 13 0.34
ACGTcount: A:0.40, C:0.37, G:0.01, T:0.21
Consensus pattern (20 bp):
TAAACCCTAAATCTTAACCC
Found at i:33526 original size:177 final size:177
Alignment explanation
Indices: 33230--33585 Score: 595
Period size: 177 Copynumber: 2.0 Consensus size: 177
33220 CAATAAACAA
* * *
33230 TTTTTTTAACAAAGGAATAAAATGAATTATGAGAATTGAACCGAACTTTTAACATATGTAGGCTA
1 TTTTTTTAACAAAGGAATAAAAAGAATTATGAGAATTGAACCGAACCTTTAACATATATAGGCTA
* * *
33295 TTTCATACAGCCATATGTAAAGTACATTAAATGCATAATACATTGACAATAACTCTACATGCATA
66 TTTCATACAGCCATATATAAAATACATTAAATGCATAATACATTGACAATAACTCTACATGCACA
*
33360 ACCATTTTAATAAGCATAAATGGGAACAATTTGTGACATTCAACATG
131 ACCATTTTAATAAGCATAAATGGGAACAATTTGTAACATTCAACATG
* *
33407 TTTTTTTAGCAAAGGAATAAAAAGAATTATGAGAATTGAACTGAACCTTTAACATATATAGGCTA
1 TTTTTTTAACAAAGGAATAAAAAGAATTATGAGAATTGAACCGAACCTTTAACATATATAGGCTA
* * *
33472 TTTCGTACAGCCATATATAAAATACATTAAATGCATAATACCTTGACAATAACTCTCCATGCACA
66 TTTCATACAGCCATATATAAAATACATTAAATGCATAATACATTGACAATAACTCTACATGCACA
*
33537 ACTATTTTAATAAGCATAAATGGGAACAATTTGTAACATTCAACATG
131 ACCATTTTAATAAGCATAAATGGGAACAATTTGTAACATTCAACATG
33584 TT
1 TT
33586 GAATTCAATT
Statistics
Matches: 166, Mismatches: 13, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
177 166 1.00
ACGTcount: A:0.41, C:0.15, G:0.12, T:0.32
Consensus pattern (177 bp):
TTTTTTTAACAAAGGAATAAAAAGAATTATGAGAATTGAACCGAACCTTTAACATATATAGGCTA
TTTCATACAGCCATATATAAAATACATTAAATGCATAATACATTGACAATAACTCTACATGCACA
ACCATTTTAATAAGCATAAATGGGAACAATTTGTAACATTCAACATG
Found at i:35817 original size:7 final size:7
Alignment explanation
Indices: 35805--35899 Score: 56
Period size: 7 Copynumber: 14.1 Consensus size: 7
35795 GGCTAAATGA
35805 TTAGGGT
1 TTAGGGT
35812 TTAGGGT
1 TTAGGGT
* *
35819 TGAGGCT
1 TTAGGGT
35826 TTAGGGT
1 TTAGGGT
35833 TTAGGG-
1 TTAGGGT
*
35839 CTAGGGT
1 TTAGGGT
*
35846 TT-GGAGG
1 TTAGG-GT
*
35853 TTAGGGG
1 TTAGGGT
*
35860 TTAAGGT
1 TTAGGGT
*
35867 TTAAGG-
1 TTAGGGT
*
35873 TTAAGG-
1 TTAGGGT
*
35879 TTAAGGT
1 TTAGGGT
35886 TTA-GGT
1 TTAGGGT
*
35892 TTAAGGT
1 TTAGGGT
35899 T
1 T
35900 GGGTTTCGAG
Statistics
Matches: 74, Mismatches: 9, Indels: 10
0.80 0.10 0.11
Matches are distributed among these distances:
6 25 0.34
7 47 0.64
8 2 0.03
ACGTcount: A:0.20, C:0.02, G:0.40, T:0.38
Consensus pattern (7 bp):
TTAGGGT
Found at i:35866 original size:13 final size:12
Alignment explanation
Indices: 35858--35899 Score: 57
Period size: 13 Copynumber: 3.3 Consensus size: 12
35848 GGAGGTTAGG
35858 GGTTAAGGTTTAA
1 GGTTAAGG-TTAA
35871 GGTTAAGGTTAA
1 GGTTAAGGTTAA
*
35883 GGTTTAGGTTTAA
1 GGTTAAGG-TTAA
35896 GGTT
1 GGTT
35900 GGGTTTCGAG
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
12 11 0.41
13 16 0.59
ACGTcount: A:0.26, C:0.00, G:0.33, T:0.40
Consensus pattern (12 bp):
GGTTAAGGTTAA
Found at i:35876 original size:6 final size:6
Alignment explanation
Indices: 35858--35899 Score: 57
Period size: 6 Copynumber: 6.7 Consensus size: 6
35848 GGAGGTTAGG
*
35858 GGTTAA GGTTTAA GGTTAA GGTTAA GGTTTA GGTTTAA GGTT
1 GGTTAA GG-TTAA GGTTAA GGTTAA GGTTAA GG-TTAA GGTT
35900 GGGTTTCGAG
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
6 21 0.66
7 11 0.34
ACGTcount: A:0.26, C:0.00, G:0.33, T:0.40
Consensus pattern (6 bp):
GGTTAA
Found at i:35882 original size:19 final size:19
Alignment explanation
Indices: 35858--35899 Score: 68
Period size: 19 Copynumber: 2.2 Consensus size: 19
35848 GGAGGTTAGG
35858 GGTTAAGGTTTAAGG-TTAA
1 GGTTAAGGTTT-AGGTTTAA
35877 GGTTAAGGTTTAGGTTTAA
1 GGTTAAGGTTTAGGTTTAA
35896 GGTT
1 GGTT
35900 GGGTTTCGAG
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
18 3 0.14
19 19 0.86
ACGTcount: A:0.26, C:0.00, G:0.33, T:0.40
Consensus pattern (19 bp):
GGTTAAGGTTTAGGTTTAA
Found at i:35904 original size:12 final size:12
Alignment explanation
Indices: 35858--35905 Score: 53
Period size: 12 Copynumber: 3.8 Consensus size: 12
35848 GGAGGTTAGG
35858 GGTTAAGGTTTAA
1 GGTT-AGGTTTAA
35871 GGTTAAGG-TTAA
1 GGTT-AGGTTTAA
35883 GGTTTAGGTTTAA
1 GG-TTAGGTTTAA
*
35896 GGTTGGGTTT
1 GGTTAGGTTT
35906 CGAGTGTTGA
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
12 16 0.50
13 16 0.50
ACGTcount: A:0.23, C:0.00, G:0.35, T:0.42
Consensus pattern (12 bp):
GGTTAGGTTTAA
Found at i:35963 original size:8 final size:7
Alignment explanation
Indices: 35945--35975 Score: 53
Period size: 7 Copynumber: 4.3 Consensus size: 7
35935 TAGGGTTTGA
35945 TTTAAGG
1 TTTAAGG
35952 TTTAAGGG
1 TTTAA-GG
35960 TTTAAGG
1 TTTAAGG
35967 TTTAAGG
1 TTTAAGG
35974 TT
1 TT
35976 CAGTATCTGA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
7 16 0.70
8 7 0.30
ACGTcount: A:0.26, C:0.00, G:0.29, T:0.45
Consensus pattern (7 bp):
TTTAAGG
Found at i:35965 original size:15 final size:15
Alignment explanation
Indices: 35945--35973 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
35935 TAGGGTTTGA
35945 TTTAAGGTTTAAGGG
1 TTTAAGGTTTAAGGG
35960 TTTAAGGTTTAAGG
1 TTTAAGGTTTAAGG
35974 TTCAGTATCT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.28, C:0.00, G:0.31, T:0.41
Consensus pattern (15 bp):
TTTAAGGTTTAAGGG
Done.