Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01011015.1 Kokia drynarioides strain JFW-HI SEQ_125986, 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: 61894
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.33
Warning! 29 characters in sequence are not A, C, G, or T
Found at i:2356 original size:45 final size:45
Alignment explanation
Indices: 2283--2419 Score: 193
Period size: 45 Copynumber: 3.0 Consensus size: 45
2273 GCATAGCTCA
* * **
2283 TCAAGCCAAGGATATCAGCATCAGTTTGACGAGTCACTGCAATAC
1 TCAAGCCAAGGATATCAGCCTCAGTTTGACGAGCCACCACAATAC
* *
2328 TCAAGCCAAGGATATCAGCCTCAATTTGACGAGCCACCATAATAC
1 TCAAGCCAAGGATATCAGCCTCAGTTTGACGAGCCACCACAATAC
* * *
2373 TCAAGCAAAGGATATCAGGCTGAGTTTGACGAGCCACCACAATAC
1 TCAAGCCAAGGATATCAGCCTCAGTTTGACGAGCCACCACAATAC
2418 TC
1 TC
2420 TATTCCTCCC
Statistics
Matches: 81, Mismatches: 11, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
45 81 1.00
ACGTcount: A:0.34, C:0.26, G:0.19, T:0.20
Consensus pattern (45 bp):
TCAAGCCAAGGATATCAGCCTCAGTTTGACGAGCCACCACAATAC
Found at i:3827 original size:45 final size:45
Alignment explanation
Indices: 3754--3890 Score: 193
Period size: 45 Copynumber: 3.0 Consensus size: 45
3744 GCATAGCTCA
* * **
3754 TCAAGCCAAGGATATCAGCATCAGTTTGACGAGTCACTGCAATAC
1 TCAAGCCAAGGATATCAGCCTCAGTTTGACGAGCCACCACAATAC
* *
3799 TCAAGCCAAGGATATCAGCCTCAATTTGACGAGCCACCATAATAC
1 TCAAGCCAAGGATATCAGCCTCAGTTTGACGAGCCACCACAATAC
* * *
3844 TCAAGCAAAGGATATCAGGCTGAGTTTGACGAGCCACCACAATAC
1 TCAAGCCAAGGATATCAGCCTCAGTTTGACGAGCCACCACAATAC
3889 TC
1 TC
3891 TATTCCTCCC
Statistics
Matches: 81, Mismatches: 11, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
45 81 1.00
ACGTcount: A:0.34, C:0.26, G:0.19, T:0.20
Consensus pattern (45 bp):
TCAAGCCAAGGATATCAGCCTCAGTTTGACGAGCCACCACAATAC
Found at i:4208 original size:142 final size:142
Alignment explanation
Indices: 3952--4236 Score: 525
Period size: 142 Copynumber: 2.0 Consensus size: 142
3942 TGACAATGAG
* *
3952 CTTGACGAGCAACCTCGACGTAGACGCTGGTTACCACGAAGATATACCCCGAAAACCACATCATC
1 CTTGACGAGCAACCTCGACGTAGACGCTGGTCACCACGAAGATATACCCCGAAAACCACACCATC
*
4017 TAATAATGGATACTAGGGTTGTATCTAATAGTGTTTAAATTTGACTATTGATGAATTATAATGAT
66 TAATAATGGATACTAGGGTTGTACCTAATAGTGTTTAAATTTGACTATTGATGAATTATAATGAT
4082 GAATTTTTTCTC
131 GAATTTTTTCTC
*
4094 CTTGACGAGCAACCTCGACGTAGACGCTGGTCACCACGAAGATATACCCCGAGAACCACACCATC
1 CTTGACGAGCAACCTCGACGTAGACGCTGGTCACCACGAAGATATACCCCGAAAACCACACCATC
*
4159 TAATCATGGATACTAGGGTTGTACCTAATAGTGTTTAAATTTGACTATTGATGAATTATAATGAT
66 TAATAATGGATACTAGGGTTGTACCTAATAGTGTTTAAATTTGACTATTGATGAATTATAATGAT
4224 GAATTTTTTCTC
131 GAATTTTTTCTC
4236 C
1 C
4237 ATAATGTACA
Statistics
Matches: 138, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
142 138 1.00
ACGTcount: A:0.32, C:0.20, G:0.18, T:0.31
Consensus pattern (142 bp):
CTTGACGAGCAACCTCGACGTAGACGCTGGTCACCACGAAGATATACCCCGAAAACCACACCATC
TAATAATGGATACTAGGGTTGTACCTAATAGTGTTTAAATTTGACTATTGATGAATTATAATGAT
GAATTTTTTCTC
Found at i:4373 original size:28 final size:28
Alignment explanation
Indices: 4312--4403 Score: 114
Period size: 28 Copynumber: 3.3 Consensus size: 28
4302 CCTAGACTTG
* *
4312 AAACCCTAAACTTAAAA-TCTTAAACCAT
1 AAACACTAAACTTAAAACTC-TAAACCGT
*
4340 AAACACTAAACTTAAAACTCTAAGCCGT
1 AAACACTAAACTTAAAACTCTAAACCGT
* * *
4368 AGACACTAGACTTGAAACTCTAAACCGT
1 AAACACTAAACTTAAAACTCTAAACCGT
4396 AAACACTA
1 AAACACTA
4404 GATTGATTAA
Statistics
Matches: 55, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
28 53 0.96
29 2 0.04
ACGTcount: A:0.47, C:0.25, G:0.07, T:0.22
Consensus pattern (28 bp):
AAACACTAAACTTAAAACTCTAAACCGT
Found at i:7251 original size:15 final size:15
Alignment explanation
Indices: 7231--7262 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
7221 CCCACGTACG
7231 ATTGATTGACTTTCA
1 ATTGATTGACTTTCA
7246 ATTGATTGACTTTCA
1 ATTGATTGACTTTCA
7261 AT
1 AT
7263 GTACGATACT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.28, C:0.12, G:0.12, T:0.47
Consensus pattern (15 bp):
ATTGATTGACTTTCA
Found at i:8709 original size:30 final size:30
Alignment explanation
Indices: 8675--8735 Score: 95
Period size: 30 Copynumber: 2.0 Consensus size: 30
8665 ACTCCAAACA
*
8675 TTTTTAGTTTTCTCCCAAAACTTTTACTCC
1 TTTTTAATTTTCTCCCAAAACTTTTACTCC
* *
8705 TTTTTAATTTTCTCTCAAAATTTTTACTCC
1 TTTTTAATTTTCTCCCAAAACTTTTACTCC
8735 T
1 T
8736 CTCCCATCTC
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.21, C:0.23, G:0.02, T:0.54
Consensus pattern (30 bp):
TTTTTAATTTTCTCCCAAAACTTTTACTCC
Found at i:11371 original size:31 final size:29
Alignment explanation
Indices: 11336--11415 Score: 90
Period size: 29 Copynumber: 2.7 Consensus size: 29
11326 ATACTAAAAT
11336 TATACATGAATTATAG-TTTAGTGTGCAATTG
1 TATACATGAATT-TAGATTT--TGTGCAATTG
* *
11367 TATACATGAATTTTGATTTTGTGCAATTT
1 TATACATGAATTTAGATTTTGTGCAATTG
*
11396 TATACATGAAATTTTGATTT
1 TATACATG-AATTTAGATTT
11416 GATCCAATTC
Statistics
Matches: 45, Mismatches: 2, Indels: 5
0.87 0.04 0.10
Matches are distributed among these distances:
29 17 0.38
30 13 0.29
31 15 0.33
ACGTcount: A:0.31, C:0.06, G:0.15, T:0.47
Consensus pattern (29 bp):
TATACATGAATTTAGATTTTGTGCAATTG
Found at i:11390 original size:29 final size:30
Alignment explanation
Indices: 11357--11415 Score: 102
Period size: 29 Copynumber: 2.0 Consensus size: 30
11347 TATAGTTTAG
11357 TGTGCAATTGTATACATG-AATTTTGATTT
1 TGTGCAATTGTATACATGAAATTTTGATTT
*
11386 TGTGCAATTTTATACATGAAATTTTGATTT
1 TGTGCAATTGTATACATGAAATTTTGATTT
11416 GATCCAATTC
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
29 17 0.61
30 11 0.39
ACGTcount: A:0.29, C:0.07, G:0.15, T:0.49
Consensus pattern (30 bp):
TGTGCAATTGTATACATGAAATTTTGATTT
Found at i:11424 original size:30 final size:29
Alignment explanation
Indices: 11361--11424 Score: 85
Period size: 29 Copynumber: 2.2 Consensus size: 29
11351 GTTTAGTGTG
*
11361 CAATTGTATACATGAATTTTGATTTTGTG
1 CAATTGTATACATGAATTTTGATTTTGTC
*
11390 CAATTTTATACATGAAATTTTGA-TTTGATC
1 CAATTGTATACATG-AATTTTGATTTTG-TC
11420 CAATT
1 CAATT
11425 CTCGTAAATT
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
29 17 0.55
30 14 0.45
ACGTcount: A:0.31, C:0.09, G:0.12, T:0.47
Consensus pattern (29 bp):
CAATTGTATACATGAATTTTGATTTTGTC
Found at i:11762 original size:31 final size:32
Alignment explanation
Indices: 11707--11781 Score: 82
Period size: 31 Copynumber: 2.4 Consensus size: 32
11697 GATGCTTAAA
* *
11707 ATATTTAAAAAACTTAAATATAATG-CTAACTT
1 ATATTTAAATAACTTAAATATAATGACTAA-TG
* * *
11739 ATATTTAAATAA-TTTAATGTAATGATTAATG
1 ATATTTAAATAACTTAAATATAATGACTAATG
11770 ATATTTAAATAA
1 ATATTTAAATAA
11782 AAGAATGCAA
Statistics
Matches: 37, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
31 23 0.62
32 14 0.38
ACGTcount: A:0.49, C:0.04, G:0.05, T:0.41
Consensus pattern (32 bp):
ATATTTAAATAACTTAAATATAATGACTAATG
Found at i:18000 original size:19 final size:18
Alignment explanation
Indices: 17976--18028 Score: 52
Period size: 20 Copynumber: 2.7 Consensus size: 18
17966 TAATAAGAAA
17976 AGTATTTTACTTAAATTTT
1 AGTATTTTA-TTAAATTTT
*
17995 AGTATTAGTTATAAAATTTT
1 AGTATT--TTATTAAATTTT
*
18015 TGTATTTTAATTAA
1 AGTATTTT-ATTAA
18029 TCATAATTTT
Statistics
Matches: 28, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
18 2 0.07
19 10 0.36
20 13 0.46
21 3 0.11
ACGTcount: A:0.36, C:0.02, G:0.08, T:0.55
Consensus pattern (18 bp):
AGTATTTTATTAAATTTT
Found at i:22525 original size:141 final size:141
Alignment explanation
Indices: 22240--22656 Score: 452
Period size: 141 Copynumber: 3.0 Consensus size: 141
22230 TTTTAAGATC
* * * * *
22240 ACACTTTTTGGG-CGACACTTTTTTAAGTGTTGAGATAGATTTCTCA-ACATACGCTTTGGTCAA
1 ACAC-TTTTGGGCCAACACTTTCTTAAGTGTTGGGATAGACTTGT-AGACATACGCTTTGGTCAA
* * * *
22303 CT-TTTTGTATAAGGGTTGAGATATGTATGCCCAAGACAACGCTTAAATAAGAGTTCGTTTTGTC
64 CTCTTTTGTATAAGGGTTGAGATATGTATGCCTAAGGCAACGCTTAAATAAAAGTTCGTTTTGGC
* *
22367 CAACACTATGTCG
129 CAACACTATGGCA
* * * *
22380 ACACTTTTGAGG-TAACACTTTCTTAAGTGTTGGGATAGACTTGTAGACGTACGCTTTTGCCAAC
1 ACACTTTTG-GGCCAACACTTTCTTAAGTGTTGGGATAGACTTGTAGACATACGCTTTGGTCAAC
* * * * *
22444 TCTTTTTTACAAGGGTTGAGATATGCATGTCTAAGGTAACGCTTAAATAAAAG-TCGATTTTGGC
65 TCTTTTGTATAAGGGTTGAGATATGTATGCCTAAGGCAACGCTTAAATAAAAGTTCG-TTTTGGC
*
22508 CAATACTATGGCA
129 CAACACTATGGCA
* * * * *
22521 ACACTTTTGGGCCGACACTTTCCTAAAGTGTAGGGATAGACTTGTCGGCATACGCTTTGGTCAAC
1 ACACTTTTGGGCCAACACTTT-CTTAAGTGTTGGGATAGACTTGTAGACATACGCTTTGGTCAAC
* * * * *
22586 TC-TTTGTATAAGAGTTGGGATATGTATGCCTAAGGCAACGCTTAAATAAGAGTTGGCTTTT-TC
65 TCTTTTGTATAAGGGTTGAGATATGTATGCCTAAGGCAACGCTTAAATAAAAGTTCG-TTTTGGC
22649 CAACACTA
129 CAACACTA
22657 CGCCGACACT
Statistics
Matches: 228, Mismatches: 42, Indels: 13
0.81 0.15 0.05
Matches are distributed among these distances:
139 6 0.03
140 53 0.23
141 125 0.55
142 44 0.19
ACGTcount: A:0.27, C:0.18, G:0.21, T:0.34
Consensus pattern (141 bp):
ACACTTTTGGGCCAACACTTTCTTAAGTGTTGGGATAGACTTGTAGACATACGCTTTGGTCAACT
CTTTTGTATAAGGGTTGAGATATGTATGCCTAAGGCAACGCTTAAATAAAAGTTCGTTTTGGCCA
ACACTATGGCA
Found at i:22666 original size:141 final size:140
Alignment explanation
Indices: 22286--22668 Score: 457
Period size: 141 Copynumber: 2.7 Consensus size: 140
22276 AGATTTCTCA
* * *
22286 ACATACGCTTTGGTCAACTTTTTGTATAAGGGTTGAGATATGTATGCCCAAGACAACGCTTAAAT
1 ACATACGCTTTGGTCAACTCTTTGTATAAGGGTTGAGATATGTATGCCTAAGGCAACGCTTAAAT
* * * *
22351 AAGAGTTCGTTTTGTCCAACACTATGTCGACACTTTTGAGGTAACACTTTCTTAAGTGTTGGGAT
66 AAGAGTTCGTTTTGTCCAACACTATGCCGACACTTTTGAGGCAACACTTTCTAAAGTGTAGGGAT
22416 AGACTTGTAG
131 AGACTTGTAG
* * * * * * * *
22426 ACGTACGCTTTTGCCAACTCTTTTTTACAAGGGTTGAGATATGCATGTCTAAGGTAACGCTTAAA
1 ACATACGCTTTGGTCAACTC-TTTGTATAAGGGTTGAGATATGTATGCCTAAGGCAACGCTTAAA
* * * * * *
22491 TAAAAG-TCGATTTTGGCCAATACTATGGCAACACTTTTG-GGCCGACACTTTCCTAAAGTGTAG
65 TAAGAGTTCG-TTTTGTCCAACACTATGCCGACACTTTTGAGG-CAACACTTT-CTAAAGTGTAG
*
22554 GGATAGACTTGTCG
127 GGATAGACTTGTAG
* * *
22568 GCATACGCTTTGGTCAACTCTTTGTATAAGAGTTGGGATATGTATGCCTAAGGCAACGCTTAAAT
1 ACATACGCTTTGGTCAACTCTTTGTATAAGGGTTGAGATATGTATGCCTAAGGCAACGCTTAAAT
* *
22633 AAGAGTTGGCTTTT-TCCAACACTACGCCGACACTTT
66 AAGAGTTCG-TTTTGTCCAACACTATGCCGACACTTT
22669 CCTAAGTGTT
Statistics
Matches: 198, Mismatches: 40, Indels: 9
0.80 0.16 0.04
Matches are distributed among these distances:
140 21 0.11
141 133 0.67
142 44 0.22
ACGTcount: A:0.27, C:0.19, G:0.21, T:0.33
Consensus pattern (140 bp):
ACATACGCTTTGGTCAACTCTTTGTATAAGGGTTGAGATATGTATGCCTAAGGCAACGCTTAAAT
AAGAGTTCGTTTTGTCCAACACTATGCCGACACTTTTGAGGCAACACTTTCTAAAGTGTAGGGAT
AGACTTGTAG
Found at i:23153 original size:28 final size:26
Alignment explanation
Indices: 23115--23186 Score: 74
Period size: 28 Copynumber: 2.6 Consensus size: 26
23105 TTTAAATTTA
23115 AAACCTCAAACCTTAAACTAT-AAACTC
1 AAACCT-AAACCTTAAAC-ATGAAACTC
* *
23142 AAAGCCCTAAACCCTAAACATGAACCTC
1 AAA--CCTAAACCTTAAACATGAAACTC
23170 AAACCTATAACCTTAAA
1 AAACCTA-AACCTTAAA
23187 TCTTGAACCA
Statistics
Matches: 38, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
26 4 0.11
27 13 0.34
28 18 0.47
29 3 0.08
ACGTcount: A:0.47, C:0.31, G:0.03, T:0.19
Consensus pattern (26 bp):
AAACCTAAACCTTAAACATGAAACTC
Found at i:23536 original size:16 final size:16
Alignment explanation
Indices: 23510--23551 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
23500 ATACAATTCT
23510 ATTTAATGATTTTATAA
1 ATTT-ATGATTTTATAA
*
23527 ATTTATGATTTTATTA
1 ATTTATGATTTTATAA
*
23543 ATTAATGAT
1 ATTTATGAT
23552 ATATTAGATT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 19 0.83
17 4 0.17
ACGTcount: A:0.38, C:0.00, G:0.07, T:0.55
Consensus pattern (16 bp):
ATTTATGATTTTATAA
Found at i:27118 original size:2 final size:2
Alignment explanation
Indices: 27111--27138 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
27101 CATCATTAGT
27111 GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA
27139 TATTAGTGGG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:27744 original size:6 final size:6
Alignment explanation
Indices: 27733--27760 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
27723 TCATTATATT
27733 GGTGGC GGTGGC GGTGGC GGTGGC GGTG
1 GGTGGC GGTGGC GGTGGC GGTGGC GGTG
27761 CATGCATACA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.00, C:0.14, G:0.68, T:0.18
Consensus pattern (6 bp):
GGTGGC
Found at i:29820 original size:2 final size:2
Alignment explanation
Indices: 29813--29841 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
29803 CTTTTAACCT
29813 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
29842 TAATTCACTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:57498 original size:25 final size:26
Alignment explanation
Indices: 57450--57500 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
57440 ACAAAATATT
* *
57450 TTTTTTAATTTTTTCCTTTCATTTGA
1 TTTTTAAATTTTTTCATTTCATTTGA
*
57476 TTTTTAAATTTTTTTATTT-ATTTGA
1 TTTTTAAATTTTTTCATTTCATTTGA
57501 CATTTTTTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
25 6 0.27
26 16 0.73
ACGTcount: A:0.20, C:0.06, G:0.04, T:0.71
Consensus pattern (26 bp):
TTTTTAAATTTTTTCATTTCATTTGA
Found at i:57506 original size:26 final size:26
Alignment explanation
Indices: 57451--57506 Score: 60
Period size: 26 Copynumber: 2.2 Consensus size: 26
57441 CAAAATATTT
* * *
57451 TTTTTAATTTTTTCCTTTCATTTGAT
1 TTTTAAATTTTTTCATTTCATTTGAA
*
57477 TTTTAAATTTTTTTATTT-ATTTGACA
1 TTTTAAATTTTTTCATTTCATTTGA-A
57503 TTTT
1 TTTT
57507 TTTTTTTGCT
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
25 6 0.24
26 19 0.76
ACGTcount: A:0.20, C:0.07, G:0.04, T:0.70
Consensus pattern (26 bp):
TTTTAAATTTTTTCATTTCATTTGAA
Found at i:59028 original size:24 final size:25
Alignment explanation
Indices: 58993--59041 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
58983 AAATTATTGT
58993 AAAATTCTAAAC-AAATAAATACAA
1 AAAATTCTAAACTAAATAAATACAA
*
59017 AAAATT-TAAAACTTAATAAATACAA
1 AAAATTCT-AAACTAAATAAATACAA
59042 TATTGTTAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
23 1 0.05
24 10 0.45
25 11 0.50
ACGTcount: A:0.65, C:0.10, G:0.00, T:0.24
Consensus pattern (25 bp):
AAAATTCTAAACTAAATAAATACAA
Found at i:60067 original size:3 final size:3
Alignment explanation
Indices: 60059--60090 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
60049 TTGCAAGCCC
60059 CCA CCA CCA CCA CCA CCA CCA CCA CCA CCA CC
1 CCA CCA CCA CCA CCA CCA CCA CCA CCA CCA CC
60091 TCAAAAAGTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.31, C:0.69, G:0.00, T:0.00
Consensus pattern (3 bp):
CCA
Found at i:60741 original size:9 final size:10
Alignment explanation
Indices: 60721--60745 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
60711 TTGGTTGTTG
60721 TTTTTGGTTT
1 TTTTTGGTTT
60731 TTTTTGGTTT
1 TTTTTGGTTT
60741 TTTTT
1 TTTTT
60746 TATGATGGTG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.00, C:0.00, G:0.16, T:0.84
Consensus pattern (10 bp):
TTTTTGGTTT
Found at i:61868 original size:2 final size:2
Alignment explanation
Indices: 61861--61894 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
61851 CATGTAAAAT
61861 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Done.