Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01012414.1 Kokia drynarioides strain JFW-HI SEQ_127418, 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: 15753
ACGTcount: A:0.34, C:0.19, G:0.19, T:0.28
Found at i:98 original size:25 final size:25
Alignment explanation
Indices: 41--98 Score: 62
Period size: 25 Copynumber: 2.3 Consensus size: 25
31 TAACCTAATT
*
41 TTTATAAATAAAATAAATTCCAATAA
1 TTTA-AAATAAAATAAAATCCAATAA
* * * *
67 ATAAAAATAAATTAAAATCCATTAA
1 TTTAAAATAAAATAAAATCCAATAA
92 TTTAAAA
1 TTTAAAA
99 GTCCAATTGC
Statistics
Matches: 25, Mismatches: 7, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
25 23 0.92
26 2 0.08
ACGTcount: A:0.60, C:0.07, G:0.00, T:0.33
Consensus pattern (25 bp):
TTTAAAATAAAATAAAATCCAATAA
Found at i:1406 original size:23 final size:22
Alignment explanation
Indices: 1365--1431 Score: 66
Period size: 23 Copynumber: 2.9 Consensus size: 22
1355 GCTACCCTTT
*
1365 TTTTATTTTTCTTTATATTTTATA
1 TTTTATTATT-TTTATATTTT-TA
1389 TTTTATTATTTTTATATTAATTTA
1 TTTTATTATTTTTATATT--TTTA
1413 -TTTATTATTTATTA-ATTTT
1 TTTTATTATTT-TTATATTTT
1432 GTTCTTTATG
Statistics
Matches: 39, Mismatches: 1, Indels: 9
0.80 0.02 0.18
Matches are distributed among these distances:
21 2 0.05
23 21 0.54
24 14 0.36
25 2 0.05
ACGTcount: A:0.25, C:0.01, G:0.00, T:0.73
Consensus pattern (22 bp):
TTTTATTATTTTTATATTTTTA
Found at i:1414 original size:19 final size:19
Alignment explanation
Indices: 1390--1430 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
1380 TATTTTATAT
*
1390 TTTA-TTATTTTTATATTAA
1 TTTATTTATTATT-TATTAA
1409 TTTATTTATTATTTATTAA
1 TTTATTTATTATTTATTAA
1428 TTT
1 TTT
1431 TGTTCTTTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 13 0.65
20 7 0.35
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (19 bp):
TTTATTTATTATTTATTAA
Found at i:1667 original size:17 final size:17
Alignment explanation
Indices: 1647--1682 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
1637 TATTTCAAAT
* *
1647 TTATTTTAAGTTTACAA
1 TTATTTTAAATTTAAAA
1664 TTATTTTAAATTTAAAA
1 TTATTTTAAATTTAAAA
1681 TT
1 TT
1683 TTAAAATATG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.39, C:0.03, G:0.03, T:0.56
Consensus pattern (17 bp):
TTATTTTAAATTTAAAA
Found at i:10534 original size:18 final size:18
Alignment explanation
Indices: 10511--10546 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
10501 CATCTAATAC
*
10511 TGTTCCTTGTAATTATTT
1 TGTTCCTTGTAAATATTT
10529 TGTTCCTTGTAAATATTT
1 TGTTCCTTGTAAATATTT
10547 GACAATTTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.19, C:0.11, G:0.11, T:0.58
Consensus pattern (18 bp):
TGTTCCTTGTAAATATTT
Found at i:11015 original size:49 final size:49
Alignment explanation
Indices: 10952--11330 Score: 346
Period size: 49 Copynumber: 7.7 Consensus size: 49
10942 CTCAGTTCCT
*
10952 CGAAG-CATGAAGGGAAAAGATTTAAGCCGCAAAGGCGAATCCAGTACCA
1 CGAAGACATGAAGGG-AAAGATTTAAGCCGCAATGGCGAATCCAGTACCA
* * * * * * *
11001 CGAAGA-TTGGAGGGAAAGGTTTAAGTCGCAATGGTGAA-CCTTGTACCT
1 CGAAGACATGAAGGGAAAGATTTAAGCCGCAATGGCGAATCC-AGTACCA
* * *
11049 CAGAAG-CATGAAGGGAAAGATTTAACCCGCAACGACGAATCCAGTACCA
1 C-GAAGACATGAAGGGAAAGATTTAAGCCGCAATGGCGAATCCAGTACCA
** * * * *
11098 CGAAGATGTAAAGGGAAAGGTTTAAGTCGCAATGGCGAA-CCTTA-TACCT
1 CGAAGACATGAAGGGAAAGATTTAAGCCGCAATGGCGAATCC--AGTACCA
* *
11147 C-AGAGACATGAAAGGGAAAGATTTAAGCCGCAACGGCGAATCTAGTACCA
1 CGA-AGACATG-AAGGGAAAGATTTAAGCCGCAATGGCGAATCCAGTACCA
* * * * *
11197 CGAAGACACGAAGGGAAAGGTTTAAGTCGCAATGGAGAA-CCTTA-TACCT
1 CGAAGACATGAAGGGAAAGATTTAAGCCGCAATGGCGAATCC--AGTACCA
11246 C-AGAGACATGAAGGGAAAGATTTAAGCCGCAATGGCGAATCCAGTACCA
1 CGA-AGACATGAAGGGAAAGATTTAAGCCGCAATGGCGAATCCAGTACCA
* * * *
11295 CGAAGACACGAAGGGAAAGGTTTAAGTCACAATGGC
1 CGAAGACATGAAGGGAAAGATTTAAGCCGCAATGGC
11331 AAACGTTATA
Statistics
Matches: 260, Mismatches: 51, Indels: 38
0.74 0.15 0.11
Matches are distributed among these distances:
47 2 0.01
48 36 0.14
49 176 0.68
50 44 0.17
51 2 0.01
ACGTcount: A:0.37, C:0.19, G:0.27, T:0.17
Consensus pattern (49 bp):
CGAAGACATGAAGGGAAAGATTTAAGCCGCAATGGCGAATCCAGTACCA
Found at i:11129 original size:98 final size:98
Alignment explanation
Indices: 10949--11391 Score: 592
Period size: 98 Copynumber: 4.5 Consensus size: 98
10939 GGTCTCAGTT
* ** *
10949 CCTC-GAAGCATGAAGGGAAAAGATTTAAGCCGCAAAGGCGAATCCAGTACCACGAAGA-TTGGA
1 CCTCAGAAGCATGAAGGG-AAAGATTTAAGCCGCAACGGCGAATCCAGTACCACGAAGACACGAA
* *
11012 GGGAAAGGTTTAAGTCGCAATGGTGAACCTTGTA
65 GGGAAAGGTTTAAGTCGCAATGGCGAACCTTATA
* * ****
11046 CCTCAGAAGCATGAAGGGAAAGATTTAACCCGCAACGACGAATCCAGTACCACGAAGATGTAAAG
1 CCTCAGAAGCATGAAGGGAAAGATTTAAGCCGCAACGGCGAATCCAGTACCACGAAGACACGAAG
11111 GGAAAGGTTTAAGTCGCAATGGCGAACCTTATA
66 GGAAAGGTTTAAGTCGCAATGGCGAACCTTATA
*
11144 CCTCAG-AGACATGAAAGGGAAAGATTTAAGCCGCAACGGCGAATCTAGTACCACGAAGACACGA
1 CCTCAGAAG-CATG-AAGGGAAAGATTTAAGCCGCAACGGCGAATCCAGTACCACGAAGACACGA
*
11208 AGGGAAAGGTTTAAGTCGCAATGGAGAACCTTATA
64 AGGGAAAGGTTTAAGTCGCAATGGCGAACCTTATA
*
11243 CCTCAG-AGACATGAAGGGAAAGATTTAAGCCGCAATGGCGAATCCAGTACCACGAAGACACGAA
1 CCTCAGAAG-CATGAAGGGAAAGATTTAAGCCGCAACGGCGAATCCAGTACCACGAAGACACGAA
* * *
11307 GGGAAAGGTTTAAGTCACAATGGCAAACGTTATA
65 GGGAAAGGTTTAAGTCGCAATGGCGAACCTTATA
* * * **
11341 CCTCAGAAG-ATTGAA-AGAAAAATTTAAGCCGCAACGACGAATTTAGTACCA
1 CCTCAGAAGCA-TGAAGGGAAAGATTTAAGCCGCAACGGCGAATCCAGTACCA
11392 TGCAGATTAA
Statistics
Matches: 312, Mismatches: 28, Indels: 12
0.89 0.08 0.03
Matches are distributed among these distances:
97 74 0.24
98 146 0.47
99 92 0.29
ACGTcount: A:0.38, C:0.19, G:0.25, T:0.17
Consensus pattern (98 bp):
CCTCAGAAGCATGAAGGGAAAGATTTAAGCCGCAACGGCGAATCCAGTACCACGAAGACACGAAG
GGAAAGGTTTAAGTCGCAATGGCGAACCTTATA
Found at i:11296 original size:197 final size:197
Alignment explanation
Indices: 10949--11391 Score: 614
Period size: 197 Copynumber: 2.3 Consensus size: 197
10939 GGTCTCAGTT
* * ** *
10949 CCTC-GAAG-CATG-AAGGGAAAAGATTTAAGCCGCAAAGGCGAATCCAGTACCACGAAGATTGG
1 CCTCAGAAGACATGAAAGGG-AAAGATTTAAGCCGCAACGGCGAATCTAGTACCACGAAGAACGA
* *
11011 AGGGAAAGGTTTAAGTCGCAATGGTGAACCTTGTACCTCAGAAGCATGAAGGGAAAGATTTAACC
65 AGGGAAAGGTTTAAGTCGCAATGGAGAACCTTATACCTCAGAAGCATGAAGGGAAAGATTTAACC
*** * *
11076 CGCAACGACGAATCCAGTACCACGAAGATGTAAAGGGAAAGGTTTAAGTCGCAATGGCGAACCTT
130 CGCAACGACGAATCCAGTACCACGAAGACACAAAGGGAAAGGTTTAAGTCACAATGGCAAACCTT
11141 ATA
195 ATA
11144 CCTCAG-AGACATGAAAGGGAAAGATTTAAGCCGCAACGGCGAATCTAGTACCACGAAGACACGA
1 CCTCAGAAGACATGAAAGGGAAAGATTTAAGCCGCAACGGCGAATCTAGTACCACGAAGA-ACGA
*
11208 AGGGAAAGGTTTAAGTCGCAATGGAGAACCTTATACCTCAG-AGACATGAAGGGAAAGATTTAAG
65 AGGGAAAGGTTTAAGTCGCAATGGAGAACCTTATACCTCAGAAG-CATGAAGGGAAAGATTTAAC
* * * *
11272 CCGCAATGGCGAATCCAGTACCACGAAGACACGAAGGGAAAGGTTTAAGTCACAATGGCAAACGT
129 CCGCAACGACGAATCCAGTACCACGAAGACACAAAGGGAAAGGTTTAAGTCACAATGGCAAACCT
11337 TATA
194 TATA
* * * *
11341 CCTCAGAAGA-TTGAAA--GAAAAATTTAAGCCGCAACGACGAATTTAGTACCA
1 CCTCAGAAGACATGAAAGGGAAAGATTTAAGCCGCAACGGCGAATCTAGTACCA
11392 TGCAGATTAA
Statistics
Matches: 221, Mismatches: 21, Indels: 12
0.87 0.08 0.05
Matches are distributed among these distances:
195 38 0.17
196 45 0.20
197 135 0.61
198 3 0.01
ACGTcount: A:0.38, C:0.19, G:0.25, T:0.17
Consensus pattern (197 bp):
CCTCAGAAGACATGAAAGGGAAAGATTTAAGCCGCAACGGCGAATCTAGTACCACGAAGAACGAA
GGGAAAGGTTTAAGTCGCAATGGAGAACCTTATACCTCAGAAGCATGAAGGGAAAGATTTAACCC
GCAACGACGAATCCAGTACCACGAAGACACAAAGGGAAAGGTTTAAGTCACAATGGCAAACCTTA
TA
Found at i:11854 original size:17 final size:16
Alignment explanation
Indices: 11834--11922 Score: 87
Period size: 17 Copynumber: 5.6 Consensus size: 16
11824 CATTTCAAAT
*
11834 TTATTTTAAGTTTACAA
1 TTATTTTAAATTTA-AA
*
11851 TTA-TGTAAATTTAAA
1 TTATTTTAAATTTAAA
11866 TTTATTTTAAATTTAAA
1 -TTATTTTAAATTTAAA
* *
11883 TT-TATTAAATTTATAT
1 TTATTTTAAATTTA-AA
11899 TTATTTTAAATTTAAA
1 TTATTTTAAATTTAAA
11915 --ATTTTAAA
1 TTATTTTAAA
11923 ATATGGTTCT
Statistics
Matches: 61, Mismatches: 7, Indels: 11
0.77 0.09 0.14
Matches are distributed among these distances:
14 8 0.13
15 12 0.20
16 17 0.28
17 24 0.39
ACGTcount: A:0.42, C:0.01, G:0.02, T:0.55
Consensus pattern (16 bp):
TTATTTTAAATTTAAA
Found at i:11865 original size:6 final size:6
Alignment explanation
Indices: 11856--11914 Score: 56
Period size: 6 Copynumber: 10.7 Consensus size: 6
11846 TACAATTATG
* *
11856 TAAATT TAAATT T-ATTT TAAATT TAAATT T--A-T TAAATT TATATT
1 TAAATT TAAATT TAAATT TAAATT TAAATT TAAATT TAAATT TAAATT
*
11900 T-ATTT TAAATT TAAA
1 TAAATT TAAATT TAAA
11915 ATTTTAAAAT
Statistics
Matches: 42, Mismatches: 6, Indels: 10
0.72 0.10 0.17
Matches are distributed among these distances:
3 2 0.05
4 1 0.02
5 8 0.19
6 31 0.74
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (6 bp):
TAAATT
Found at i:11890 original size:26 final size:26
Alignment explanation
Indices: 11861--11912 Score: 79
Period size: 26 Copynumber: 2.0 Consensus size: 26
11851 TTATGTAAAT
11861 TTAAATTTAT-TTTAAATTTAAATTTA
1 TTAAATTTATATTT-AATTTAAATTTA
*
11887 TTAAATTTATATTTATTTTAAATTTA
1 TTAAATTTATATTTAATTTAAATTTA
11913 AAATTTTAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
26 21 0.88
27 3 0.12
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (26 bp):
TTAAATTTATATTTAATTTAAATTTA
Found at i:11901 original size:32 final size:31
Alignment explanation
Indices: 11825--11922 Score: 126
Period size: 32 Copynumber: 3.0 Consensus size: 31
11815 CCCAATTTGC
*
11825 ATTTCAAATTTATTTTAAGTTTACAATTATGTAA
1 ATTT-AAATTTATTTTAAATTTA-AATTAT-TAA
11859 ATTTAAATTTATTTTAAATTTAAATTTATTAA
1 ATTTAAATTTATTTTAAATTTAAA-TTATTAA
*
11891 ATTTATATTTATTTTAAATTTAAAATT-TTAA
1 ATTTAAATTTATTTTAAATTT-AAATTATTAA
11922 A
1 A
11923 ATATGGTTCT
Statistics
Matches: 60, Mismatches: 2, Indels: 7
0.87 0.03 0.10
Matches are distributed among these distances:
31 5 0.08
32 27 0.45
33 24 0.40
34 4 0.07
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.54
Consensus pattern (31 bp):
ATTTAAATTTATTTTAAATTTAAATTATTAA
Found at i:13831 original size:30 final size:30
Alignment explanation
Indices: 13761--13832 Score: 81
Period size: 30 Copynumber: 2.4 Consensus size: 30
13751 AACAATCTAG
* * *
13761 AAATCATATTTTGACCCCTAAATTATCCAT
1 AAATCACATTTTAACCCCTAAATTATCAAT
** * *
13791 AAATTGCATTTTAACCCCTAAATTTTTAAT
1 AAATCACATTTTAACCCCTAAATTATCAAT
13821 AAATCACATTTT
1 AAATCACATTTT
13833 TGTCCCTAAA
Statistics
Matches: 33, Mismatches: 9, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
30 33 1.00
ACGTcount: A:0.38, C:0.19, G:0.03, T:0.40
Consensus pattern (30 bp):
AAATCACATTTTAACCCCTAAATTATCAAT
Found at i:13920 original size:59 final size:58
Alignment explanation
Indices: 13840--14156 Score: 239
Period size: 59 Copynumber: 5.4 Consensus size: 58
13830 TTTTGTCCCT
* * * * * *
13840 AAAC-TTCCAAAAATCAGATTTTTGACATCAAATTTTCCAAAAATTGTATTTTTGCCCCT
1 AAACTTTCCAAAATTC-CATTTTTAAC-TCAAATTTTCCAAAAATTATATTTTTACCCCC
* * * * * *
13899 AAA-TATTTCAAAATTCCATTTTTAACCTTAAATTTTCTAAAACTTACACTTTTACCCCC
1 AAACT-TTCCAAAATTCCATTTTTAA-CTCAAATTTTCCAAAAATTATATTTTTACCCCC
* * * **
13958 AAACTTTCCAAAATTCTATTTTTAACCCTACAA-TTTCCAAAAAATATATTTTTACCCTT
1 AAACTTTCCAAAATTCCATTTTTAACTC-A-AATTTTCCAAAAATTATATTTTTACCCCC
** * *
14017 AAACTTTCCAAAATTCCATTTTTAACCTTGAATTTTCCAAAAAATACT-TTTTTGCCCCC
1 AAACTTTCCAAAATTCCATTTTTAA-CTCAAATTTTCCAAAAATTA-TATTTTTACCCCC
* * * * * * *
14076 AAACTTTCTAAAATTCCATTTTTGACCCTAAATTTTCAAAAAATTACATTTTTACTCCT
1 AAACTTTCCAAAATTCCATTTTTAACTC-AAATTTTCCAAAAATTATATTTTTACCCCC
* *
14135 AAACTAT-CGAAATTACCATTTT
1 AAACTTTCCAAAATT-CCATTTT
14157 ACCCCCAATA
Statistics
Matches: 202, Mismatches: 44, Indels: 24
0.75 0.16 0.09
Matches are distributed among these distances:
58 9 0.04
59 178 0.88
60 15 0.07
ACGTcount: A:0.36, C:0.22, G:0.03, T:0.40
Consensus pattern (58 bp):
AAACTTTCCAAAATTCCATTTTTAACTCAAATTTTCCAAAAATTATATTTTTACCCCC
Found at i:13979 original size:118 final size:118
Alignment explanation
Indices: 13761--14156 Score: 358
Period size: 118 Copynumber: 3.3 Consensus size: 118
13751 AACAATCTAG
* * * * * *
13761 AAATCATATTTTGACCCCTAAA-TTATCCATAAATTGCA-TTTTAACCCCTAAATTTT-TAATAA
1 AAATTATATTTTTACCCCTAAACTT-TCCA-AAATTCCATTTTTAA-CCTTAAATTTTCCAAAAA
* ** * * * *
13823 ATCACATTTTTGTCCCTAAAC-TTCCAAAAATCAGATTTTTGA-CATCAAATTTTCCAA
63 AT-ACACTTTTACCCCCAAACTTTCCAAAATTC-CATTTTTGACCCT-AAATTTTCCAA
* * * * **
13880 AAATTGTATTTTTGCCCCTAAA-TATTTCAAAATTCCATTTTTAACCTTAAATTTTCTAAAACTT
1 AAATTATATTTTTACCCCTAAACT-TTCCAAAATTCCATTTTTAACCTTAAATTTTCCAAAAAAT
* *
13944 ACACTTTTACCCCCAAACTTTCCAAAATTCTATTTTTAACCCTACAA-TTTCCAA
65 ACACTTTTACCCCCAAACTTTCCAAAATTCCATTTTTGACCCTA-AATTTTCCAA
* * *
13998 AAAATATATTTTTACCCTTAAACTTTCCAAAATTCCATTTTTAACCTTGAATTTTCCAAAAAATA
1 AAATTATATTTTTACCCCTAAACTTTCCAAAATTCCATTTTTAACCTTAAATTTTCCAAAAAATA
** * * *
14063 CTTTTTTGCCCCCAAACTTTCTAAAATTCCATTTTTGACCCTAAATTTTCAAA
66 CACTTTTACCCCCAAACTTTCCAAAATTCCATTTTTGACCCTAAATTTTCCAA
* * * *
14116 AAATTACATTTTTACTCCTAAACTAT-CGAAATTACCATTTT
1 AAATTATATTTTTACCCCTAAACTTTCCAAAATT-CCATTTT
14157 ACCCCCAATA
Statistics
Matches: 228, Mismatches: 40, Indels: 19
0.79 0.14 0.07
Matches are distributed among these distances:
117 8 0.04
118 171 0.75
119 48 0.21
120 1 0.00
ACGTcount: A:0.35, C:0.22, G:0.03, T:0.40
Consensus pattern (118 bp):
AAATTATATTTTTACCCCTAAACTTTCCAAAATTCCATTTTTAACCTTAAATTTTCCAAAAAATA
CACTTTTACCCCCAAACTTTCCAAAATTCCATTTTTGACCCTAAATTTTCCAA
Found at i:14119 original size:30 final size:29
Alignment explanation
Indices: 13769--14214 Score: 203
Period size: 30 Copynumber: 15.1 Consensus size: 29
13759 AGAAATCATA
* * *
13769 TTTTGACCCCTAAATTATCCATAAATTGCA-
1 TTTTGA-CCCTAAATT-TTCAAAAATTCCAT
* *
13799 TTTTAACCCCTAAATTTTTAATAAA-TCACAT
1 TTTTGA-CCCTAAATTTTCAA-AAATTC-CAT
* * * *
13830 TTTTGTCCCTAAACTTCCAAAAA-TCAGAT
1 TTTTGACCCTAAATTTTCAAAAATTC-CAT
* **
13859 TTTTGA-CATCAAATTTTCCAAAAATTGTAT
1 TTTTGACCCT-AAATTTT-CAAAAATTCCAT
*
13889 TTTTGCCCCTAAATATTTC-AAAATTCCAT
1 TTTTGACCCTAAAT-TTTCAAAAATTCCAT
* * * * *
13918 TTTTAACCTTAAATTTTCTAAAACTTACAC
1 TTTTGACCCTAAATTTTC-AAAAATTCCAT
* * * *
13948 TTTT-ACCCCCAAACTTTCCAAAATTCTAT
1 TTTTGA-CCCTAAATTTTCAAAAATTCCAT
* * * **
13977 TTTTAACCCTACAATTTCCAAAAAATATAT
1 TTTTGACCCTA-AATTTTCAAAAATTCCAT
* *
14007 TTTT-ACCCTTAAACTTTCCAAAATTCCAT
1 TTTTGACCC-TAAATTTTCAAAAATTCCAT
* * * * * *
14036 TTTTAACCTTGAATTTTCCAAAAAATACTT
1 TTTTGACCCTAAATTTT-CAAAAATTCCAT
* * * *
14066 TTTTGCCCCCAAACTTTCTAAAATTCCAT
1 TTTTGACCCTAAATTTTCAAAAATTCCAT
*
14095 TTTTGACCCTAAATTTTCAAAAAATTACAT
1 TTTTGACCCTAAATTTTC-AAAAATTCCAT
* * *
14125 TTTT-ACTCCTAAACTATC-GAAATTACCA-
1 TTTTGAC-CCTAAATTTTCAAAAATT-CCAT
** * *
14153 TTTT-ACCCCCAATATCCAAAAATTCCAT
1 TTTTGACCCTAAATTTTCAAAAATTCCAT
* *
14181 TTTTGACCTCAAAATTTCCAAAAATTACCAT
1 TTTTGACC-CTAAATTTTCAAAAATT-CCAT
14212 TTT
1 TTT
14215 ACCCTCAAAT
Statistics
Matches: 309, Mismatches: 83, Indels: 47
0.70 0.19 0.11
Matches are distributed among these distances:
27 8 0.03
28 26 0.08
29 111 0.36
30 147 0.48
31 17 0.06
ACGTcount: A:0.35, C:0.23, G:0.03, T:0.39
Consensus pattern (29 bp):
TTTTGACCCTAAATTTTCAAAAATTCCAT
Found at i:14302 original size:29 final size:29
Alignment explanation
Indices: 14144--14301 Score: 87
Period size: 29 Copynumber: 5.4 Consensus size: 29
14134 TAAACTATCG
*
14144 AAATTACCATTTTACCCCC-AATATCCAA
1 AAATTACCATTTTACCCCCAAATATTCAA
* *
14172 AAATT-CCATTTTTGACCTCAAAAT-TTCCAA
1 AAATTACCA-TTTT-ACCCCCAAATATT-CAA
* *
14202 AAATTACCATTTTACCCTCAAAT-GTCTAA
1 AAATTACCATTTTACCCCCAAATATTC-AA
* * * **
14231 AAATT-CTATTTTCAACCCCGAACCT-TTTGA
1 AAATTACCATTTT--ACCCCCAA-ATATTCAA
* * *
14261 AAATTATCATTTTACCCCCGAATATTGAA
1 AAATTACCATTTTACCCCCAAATATTCAA
14290 AAATT-CCATTTT
1 AAATTACCATTTT
14302 TGACCTCGAA
Statistics
Matches: 97, Mismatches: 22, Indels: 22
0.69 0.16 0.16
Matches are distributed among these distances:
27 3 0.03
28 23 0.24
29 34 0.35
30 27 0.28
31 10 0.10
ACGTcount: A:0.36, C:0.25, G:0.04, T:0.35
Consensus pattern (29 bp):
AAATTACCATTTTACCCCCAAATATTCAA
Done.