Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01013621.1 Kokia drynarioides strain JFW-HI SEQ_128649, 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: 31219
ACGTcount: A:0.34, C:0.16, G:0.17, T:0.33
Warning! 76 characters in sequence are not A, C, G, or T
Found at i:704 original size:17 final size:17
Alignment explanation
Indices: 682--796 Score: 158
Period size: 17 Copynumber: 6.8 Consensus size: 17
672 TTGGATATTT
*
682 TAAATTTAAATTTATAA
1 TAAATTTAAATTTAAAA
*
699 TAAATTTAAATTTCAAA
1 TAAATTTAAATTTAAAA
*
716 TAAATTTAAATTTCAAA
1 TAAATTTAAATTTAAAA
* *
733 TAAACTTAATTTTAAAA
1 TAAATTTAAATTTAAAA
*
750 TAAATTCAAATTTAAAA
1 TAAATTTAAATTTAAAA
*
767 TAAATTTAATTTTAAAA
1 TAAATTTAAATTTAAAA
*
784 TAAATTCAAATTT
1 TAAATTTAAATTT
797 CAATAGGTCT
Statistics
Matches: 86, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 86 1.00
ACGTcount: A:0.53, C:0.04, G:0.00, T:0.43
Consensus pattern (17 bp):
TAAATTTAAATTTAAAA
Found at i:733 original size:7 final size:6
Alignment explanation
Indices: 680--796 Score: 72
Period size: 6 Copynumber: 20.5 Consensus size: 6
670 AATTGGATAT
680 TTTAAA TTTAAA TTTATAA --TAAA TTTAAA TTTCAAA --TAAA TTTAAA
1 TTTAAA TTTAAA TTTA-AA TTTAAA TTTAAA TTT-AAA TTTAAA TTTAAA
* * * * *
726 TTTCAAA --TAAA CTTAAT TTTAAA -ATAAA TTCAAA TTTAAA -ATAAA
1 TTT-AAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
* * *
771 TTTAAT TTTAAA -ATAAA TTCAAA TTT
1 TTTAAA TTTAAA TTTAAA TTTAAA TTT
797 CAATAGGTCT
Statistics
Matches: 84, Mismatches: 15, Indels: 24
0.68 0.12 0.20
Matches are distributed among these distances:
4 8 0.10
5 16 0.19
6 52 0.62
7 8 0.10
ACGTcount: A:0.52, C:0.04, G:0.00, T:0.44
Consensus pattern (6 bp):
TTTAAA
Found at i:5671 original size:3 final size:3
Alignment explanation
Indices: 5663--5690 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
5653 AACAATGGTC
5663 ATT ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT A
5691 GTCGGTGTTG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:6205 original size:15 final size:15
Alignment explanation
Indices: 6185--6214 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
6175 ATTTTTACAC
6185 TAATATTATTAAAAA
1 TAATATTATTAAAAA
*
6200 TAATATTTTTAAAAA
1 TAATATTATTAAAAA
6215 ATTCAAATCG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (15 bp):
TAATATTATTAAAAA
Found at i:13696 original size:23 final size:23
Alignment explanation
Indices: 13670--13713 Score: 79
Period size: 23 Copynumber: 1.9 Consensus size: 23
13660 AGTCAACAGC
13670 TTCTAGAAGGTCTAATCAGCAGT
1 TTCTAGAAGGTCTAATCAGCAGT
*
13693 TTCTAGAAGGTCTAGTCAGCA
1 TTCTAGAAGGTCTAATCAGCA
13714 AGAATGGACG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.30, C:0.18, G:0.23, T:0.30
Consensus pattern (23 bp):
TTCTAGAAGGTCTAATCAGCAGT
Found at i:14562 original size:17 final size:17
Alignment explanation
Indices: 14540--14573 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
14530 AGGCTGATAC
14540 TTAAATTAAGTTTCTTT
1 TTAAATTAAGTTTCTTT
* *
14557 TTAAATTTATTTTCTTT
1 TTAAATTAAGTTTCTTT
14574 AAATTCTTAG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.26, C:0.06, G:0.03, T:0.65
Consensus pattern (17 bp):
TTAAATTAAGTTTCTTT
Found at i:15051 original size:5 final size:5
Alignment explanation
Indices: 15041--15074 Score: 68
Period size: 5 Copynumber: 6.8 Consensus size: 5
15031 AACCCATTGT
15041 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTT
1 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTT
15075 TCGTCATTAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 29 1.00
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (5 bp):
TTTTA
Found at i:16946 original size:23 final size:23
Alignment explanation
Indices: 16912--16960 Score: 71
Period size: 23 Copynumber: 2.1 Consensus size: 23
16902 CTGACATGGC
*
16912 GTCCAATCAGCAGCTTCTAGAAG
1 GTCCAATCAGCAGCTTCCAGAAG
* *
16935 GTCCAATTAGCAGTTTCCAGAAG
1 GTCCAATCAGCAGCTTCCAGAAG
16958 GTC
1 GTC
16961 TAGTCAACAA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.29, C:0.24, G:0.22, T:0.24
Consensus pattern (23 bp):
GTCCAATCAGCAGCTTCCAGAAG
Found at i:17817 original size:17 final size:17
Alignment explanation
Indices: 17795--17828 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
17785 AGGCTGATAC
17795 TTAAATTAAGTTTCTTT
1 TTAAATTAAGTTTCTTT
* *
17812 TTAAATTTATTTTCTTT
1 TTAAATTAAGTTTCTTT
17829 AAATTCTTAG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.26, C:0.06, G:0.03, T:0.65
Consensus pattern (17 bp):
TTAAATTAAGTTTCTTT
Found at i:18635 original size:12 final size:12
Alignment explanation
Indices: 18618--18644 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
18608 AAAGAGATGT
18618 AAGAACAAATGC
1 AAGAACAAATGC
18630 AAGAACAAATGC
1 AAGAACAAATGC
18642 AAG
1 AAG
18645 CACAGGTGCA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.59, C:0.15, G:0.19, T:0.07
Consensus pattern (12 bp):
AAGAACAAATGC
Found at i:26107 original size:49 final size:49
Alignment explanation
Indices: 26032--26497 Score: 342
Period size: 49 Copynumber: 9.6 Consensus size: 49
26022 ACAGGTTGGG
* * *
26032 AGGGAAAGGTTTAAGTCGCAAAGGCGAACCTTATACCTCAGAAGCATGA
1 AGGGAAAGATTTAAGCCGCAACGGCGAACCTTATACCTCAGAAGCATGA
* *
26081 AGGGAAAGATTTAAGCCGCAACGGCGAATC-TAGTACCAC-GAAGCATGA
1 AGGGAAAGATTTAAGCCGCAACGGCGAACCTTA-TACCTCAGAAGCATGA
* * * *
26129 AGGGAAGGATTTAAGCTGCAACGGCGAATC-TAGTACCACA-AAGCATGA
1 AGGGAAAGATTTAAGCCGCAACGGCGAACCTTA-TACCTCAGAAGCATGA
* * * * * * *
26177 AGGGAAAGATTTAAGCCGTAATGGCAAATC-TAGTACCAC-GAAGGTATAA
1 AGGGAAAGATTTAAGCCGCAACGGCGAACCTTA-TACCTCAGAA-GCATGA
* * *
26226 AGGGAAAGGTTTAAGTCGCAACGGCGAACCTTGTACCTCAGAAGCATGA
1 AGGGAAAGATTTAAGCCGCAACGGCGAACCTTATACCTCAGAAGCATGA
* * * * *
26275 AGGGAAGGATTTAAGCCGCAATGGCGAA-TTTAGTACCAT-A-AAGATATAA
1 AGGGAAAGATTTAAGCCGCAACGGCGAACCTTA-TACC-TCAGAAG-CATGA
* * * * * * *
26324 AAGGAAAGGTTTAAGTCGCAATGGTGAACCTTGTACCTTAGAAGCATGA
1 AGGGAAAGATTTAAGCCGCAACGGCGAACCTTATACCTCAGAAGCATGA
* * * ** * * * *
26373 AAGGAAATATTTAAGCCGCAATGGCGAATTTTGTA-CAC-GAAGATATAA
1 AGGGAAAGATTTAAGCCGCAACGGCGAACCTTATACCTCAGAAG-CATGA
* * * ** **
26421 AAGGAAAGGTTTAAGTCGCAACGATGAACCTTGCACCTCAGAAGCATGA
1 AGGGAAAGATTTAAGCCGCAACGGCGAACCTTATACCTCAGAAGCATGA
* *
26470 AAGGAAAGATTTAAGTCGCAACGGCGAA
1 AGGGAAAGATTTAAGCCGCAACGGCGAA
26498 TCTAGTACCA
Statistics
Matches: 336, Mismatches: 66, Indels: 30
0.78 0.15 0.07
Matches are distributed among these distances:
47 4 0.01
48 128 0.38
49 190 0.57
50 14 0.04
ACGTcount: A:0.38, C:0.17, G:0.26, T:0.20
Consensus pattern (49 bp):
AGGGAAAGATTTAAGCCGCAACGGCGAACCTTATACCTCAGAAGCATGA
Found at i:26298 original size:98 final size:98
Alignment explanation
Indices: 26032--26613 Score: 691
Period size: 98 Copynumber: 6.1 Consensus size: 98
26022 ACAGGTTGGG
* *
26032 AGGGAAAGGTTTAAGTCGCAAAGGCGAACCTTATACCTCAGAAGCATGAAGGGAAAGATTTAAGC
1 AGGGAAAGGTTTAAGTCGCAACGGCGAACCTTGTACCTCAGAAGCATGAAGGGAAAGATTTAAGC
* * *
26097 CGCAACGGCGAATCTAGTACCACGAAG-CATGA
66 CGCAATGGCGAATCTAGTACCACGAAGATATAA
* * *
26129 AGGG-AAGGATTTAAG-CTGCAACGGCGAATCTAGTACCACA-AAGCATGAAGGGAAAGATTTAA
1 AGGGAAAGG-TTTAAGTC-GCAACGGCGAACCTTGTACCTCAGAAGCATGAAGGGAAAGATTTAA
* * *
26191 GCCGTAATGGCAAATCTAGTACCACGAAGGTATAA
64 GCCGCAATGGCGAATCTAGTACCACGAAGATATAA
*
26226 AGGGAAAGGTTTAAGTCGCAACGGCGAACCTTGTACCTCAGAAGCATGAAGGGAAGGATTTAAGC
1 AGGGAAAGGTTTAAGTCGCAACGGCGAACCTTGTACCTCAGAAGCATGAAGGGAAAGATTTAAGC
* **
26291 CGCAATGGCGAATTTAGTACCATAAAGATATAA
66 CGCAATGGCGAATCTAGTACCACGAAGATATAA
* * * * * *
26324 AAGGAAAGGTTTAAGTCGCAATGGTGAACCTTGTACCTTAGAAGCATGAAAGGAAATATTTAAGC
1 AGGGAAAGGTTTAAGTCGCAACGGCGAACCTTGTACCTCAGAAGCATGAAGGGAAAGATTTAAGC
* *
26389 CGCAATGGCGAATTTTGTA-CACGAAGATATAA
66 CGCAATGGCGAATCTAGTACCACGAAGATATAA
* ** * * *
26421 AAGGAAAGGTTTAAGTCGCAACGATGAACCTTGCACCTCAGAAGCATGAAAGGAAAGATTTAAGT
1 AGGGAAAGGTTTAAGTCGCAACGGCGAACCTTGTACCTCAGAAGCATGAAGGGAAAGATTTAAGC
*
26486 CGCAACGGCGAATCTAGTACCATC-AAGATATAA
66 CGCAATGGCGAATCTAGTACCA-CGAAGATATAA
*
26519 AGGGAAAGGTTTAAGTCGCAAC-G-G-----TG------AG-AGCATGAAAGGAAAGATTTAAGC
1 AGGGAAAGGTTTAAGTCGCAACGGCGAACCTTGTACCTCAGAAGCATGAAGGGAAAGATTTAAGC
* * *
26570 CGCAATGGCGAATCCAGTACCACGAAGGTATAG
66 CGCAATGGCGAATCTAGTACCACGAAGATATAA
26603 AGGGAAAGGTT
1 AGGGAAAGGTT
26614 ATGACCGTAA
Statistics
Matches: 430, Mismatches: 46, Indels: 31
0.85 0.09 0.06
Matches are distributed among these distances:
83 1 0.00
84 60 0.14
85 2 0.00
91 2 0.00
96 54 0.13
97 147 0.34
98 163 0.38
99 1 0.00
ACGTcount: A:0.38, C:0.16, G:0.26, T:0.19
Consensus pattern (98 bp):
AGGGAAAGGTTTAAGTCGCAACGGCGAACCTTGTACCTCAGAAGCATGAAGGGAAAGATTTAAGC
CGCAATGGCGAATCTAGTACCACGAAGATATAA
Found at i:26469 original size:195 final size:195
Alignment explanation
Indices: 26034--26613 Score: 690
Period size: 195 Copynumber: 3.0 Consensus size: 195
26024 AGGTTGGGAG
* *
26034 GGAAAGGTTTAAGTCGCAAAGGCGAACCTTATACCTCAGAAGCATGAAGGGAAAGATTTAAGCCG
1 GGAAAGGTTTAAGTCGCAACGGCGAACCTTGTACCTCAGAAGCATGAAGGGAAAGATTTAAGCCG
** * * * * *
26099 CAACGGCGAATCTAGTACCACGAAG-CAT-GAAGGGAAGGATTTAAG-CTGCAACGGCGAATCTA
66 CAACGGCGAATCTAGTACCATAAAGATATAAAAGGAAAGG-TTTAAGTC-GCAACGGTGAACCTA
* * *
26161 GTACCACAAAGCATGAAGGGAAAGATTTAAGCCGTAATGGCAAATCTAGTACCACGAAGGTATAA
129 GTACCACAAAGCATGAAAGGAAAGATTTAAGCCGCAATGGCAAATCTAGTACCACGAAGATATAA
*
26226 AG
194 AA
*
26228 GGAAAGGTTTAAGTCGCAACGGCGAACCTTGTACCTCAGAAGCATGAAGGGAAGGATTTAAGCCG
1 GGAAAGGTTTAAGTCGCAACGGCGAACCTTGTACCTCAGAAGCATGAAGGGAAAGATTTAAGCCG
* * * *
26293 CAATGGCGAATTTAGTACCATAAAGATATAAAAGGAAAGGTTTAAGTCGCAATGGTGAACCTTGT
66 CAACGGCGAATCTAGTACCATAAAGATATAAAAGGAAAGGTTTAAGTCGCAACGGTGAACCTAGT
** * * * *
26358 ACCTTAGAAGCATGAAAGGAAATATTTAAGCCGCAATGGCGAATTTTGTA-CACGAAGATATAAA
131 ACCACA-AAGCATGAAAGGAAAGATTTAAGCCGCAATGGCAAATCTAGTACCACGAAGATATAAA
26422 A
195 A
** * * *
26423 GGAAAGGTTTAAGTCGCAACGATGAACCTTGCACCTCAGAAGCATGAAAGGAAAGATTTAAGTCG
1 GGAAAGGTTTAAGTCGCAACGGCGAACCTTGTACCTCAGAAGCATGAAGGGAAAGATTTAAGCCG
* *
26488 CAACGGCGAATCTAGTACCATCAAGATATAAAGGGAAAGGTTTAAGTCGCAACGGTG-----AG-
66 CAACGGCGAATCTAGTACCATAAAGATATAAAAGGAAAGGTTTAAGTCGCAACGGTGAACCTAGT
* * * * *
26547 -------AGCATGAAAGGAAAGATTTAAGCCGCAATGGCGAATCCAGTACCACGAAGGTATAGAG
131 ACCACAAAGCATGAAAGGAAAGATTTAAGCCGCAATGGCAAATCTAGTACCACGAAGATATAAAA
26605 GGAAAGGTT
1 GGAAAGGTT
26614 ATGACCGTAA
Statistics
Matches: 338, Mismatches: 43, Indels: 22
0.84 0.11 0.05
Matches are distributed among these distances:
181 38 0.11
182 21 0.06
190 1 0.00
194 83 0.25
195 149 0.44
196 46 0.14
ACGTcount: A:0.38, C:0.16, G:0.26, T:0.19
Consensus pattern (195 bp):
GGAAAGGTTTAAGTCGCAACGGCGAACCTTGTACCTCAGAAGCATGAAGGGAAAGATTTAAGCCG
CAACGGCGAATCTAGTACCATAAAGATATAAAAGGAAAGGTTTAAGTCGCAACGGTGAACCTAGT
ACCACAAAGCATGAAAGGAAAGATTTAAGCCGCAATGGCAAATCTAGTACCACGAAGATATAAAA
Found at i:28258 original size:30 final size:29
Alignment explanation
Indices: 28204--28466 Score: 225
Period size: 30 Copynumber: 8.9 Consensus size: 29
28194 ATTTTGTTCA
**
28204 AAAATTATATTTTGACCCTCGAACTTTAT
1 AAAATTATATTTTGACCCTTAAACTTTAT
* *
28233 AAAATTTTATTTTCGACCCTTGAACTTTAT
1 AAAATTATATTTT-GACCCTTAAACTTTAT
* *
28263 TAAATT-TCATTTTCGACCCCTAAACTTTAT
1 AAAATTAT-ATTTT-GACCCTTAAACTTTAT
*
28293 AAAATTTTATTTTGACCCTTAAACTTTCCA-
1 AAAATTATATTTTGACCCTTAAACTTT--AT
* *
28323 AAAATTATATTTTAACCCTTAAACTTCCA-
1 AAAATTATATTTTGACCCTTAAACTT-TAT
* * *
28352 AAAATTATATTTTAACCCCT-AACTTTCT
1 AAAATTATATTTTGACCCTTAAACTTTAT
* *
28380 AAAACTTCA-CTTTTGACCCTTAAACTTTTT
1 AAAA-TT-ATATTTTGACCCTTAAACTTTAT
*
28410 GAAAATTATATTTTGACCAC-TAAACTTTTT
1 -AAAATTATATTTTGACC-CTTAAACTTTAT
* *
28440 GAAAATTATATTTTAACCC-CAAACTTT
1 -AAAATTATATTTTGACCCTTAAACTTT
28467 CAAAATTTAC
Statistics
Matches: 201, Mismatches: 20, Indels: 26
0.81 0.08 0.11
Matches are distributed among these distances:
28 9 0.04
29 66 0.33
30 119 0.59
31 7 0.03
ACGTcount: A:0.35, C:0.19, G:0.04, T:0.42
Consensus pattern (29 bp):
AAAATTATATTTTGACCCTTAAACTTTAT
Found at i:28415 original size:88 final size:88
Alignment explanation
Indices: 28278--28481 Score: 243
Period size: 88 Copynumber: 2.3 Consensus size: 88
28268 TTCATTTTCG
* * *
28278 ACCCCTAAACTTTATAAAATTTTATTTTGACCCTTAAACTTTCCAAAAATTATATTTTAACC-CT
1 ACCCCT-AACTTTCTAAAACTTCATTTTGACCCTTAAACTTTCCAAAAATTATATTTTAACCAC-
28342 TAAAC-TTCCAAAAATTATATTTTA
64 TAAACTTTCCAAAAATTATATTTTA
*** *
28366 ACCCCTAACTTTCTAAAACTTCACTTTTGACCCTTAAACTTTTTGAAAATTATATTTTGACCACT
1 ACCCCTAACTTTCTAAAACTTCA-TTTTGACCCTTAAACTTTCCAAAAATTATATTTTAACCACT
***
28431 AAACTTTTTGAAAATTATATTTTA
65 AAACTTTCCAAAAATTATATTTTA
* *
28455 ACCCCAAACTTTC-AAAATTTACATTTT
1 ACCCCTAACTTTCTAAAACTT-CATTTT
28482 TAACCTGTCT
Statistics
Matches: 100, Mismatches: 12, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
87 14 0.14
88 55 0.55
89 31 0.31
ACGTcount: A:0.36, C:0.20, G:0.02, T:0.41
Consensus pattern (88 bp):
ACCCCTAACTTTCTAAAACTTCATTTTGACCCTTAAACTTTCCAAAAATTATATTTTAACCACTA
AACTTTCCAAAAATTATATTTTA
Found at i:28464 original size:59 final size:58
Alignment explanation
Indices: 28204--28466 Score: 225
Period size: 59 Copynumber: 4.5 Consensus size: 58
28194 ATTTTGTTCA
* * * *
28204 AAAATTATATTTTGACCCTCGAACTTTATAAAATTTTATTTTCGACCCTTGAACTTTAT
1 AAAATTATATTTTGACCCTCAAACTTTATAAAATTATATTTT-GACCCTTAAACTTTCT
* * *
28263 TAAATT-TCATTTTCGACCC-CTAAACTTTATAAAATTTTATTTTGACCCTTAAACTTTCCA
1 AAAATTAT-ATTTT-GACCCTC-AAACTTTATAAAATTATATTTTGACCCTTAAACTTT-CT
* * * * *
28323 AAAATTATATTTTAACCCTTAAACTTCCA-AAAATTATATTTTAACCCCT-AACTTTCT
1 AAAATTATATTTTGACCCTCAAACTT-TATAAAATTATATTTTGACCCTTAAACTTTCT
* * * *
28380 AAAACTTCA-CTTTTGACCCTTAAACTTTTTGAAAATTATATTTTGACCAC-TAAACTTTTT
1 AAAA-TT-ATATTTTGACCCTCAAACTTTAT-AAAATTATATTTTGACC-CTTAAACTTTCT
*
28440 GAAAATTATATTTTAACCC-CAAACTTT
1 -AAAATTATATTTTGACCCTCAAACTTT
28467 CAAAATTTAC
Statistics
Matches: 167, Mismatches: 22, Indels: 30
0.76 0.10 0.14
Matches are distributed among these distances:
57 5 0.03
58 25 0.15
59 77 0.46
60 55 0.33
61 5 0.03
ACGTcount: A:0.35, C:0.19, G:0.04, T:0.42
Consensus pattern (58 bp):
AAAATTATATTTTGACCCTCAAACTTTATAAAATTATATTTTGACCCTTAAACTTTCT
Found at i:30190 original size:23 final size:23
Alignment explanation
Indices: 30160--30315 Score: 133
Period size: 23 Copynumber: 6.8 Consensus size: 23
30150 GTTGGGGAAA
30160 CAGTAAGCACACACAGTGC-AAT
1 CAGTAAGCACACACAGTGCAAAT
*
30182 CCAGTAAGCACACACAGTG-TAAT
1 -CAGTAAGCACACACAGTGCAAAT
* * * *
30205 CAGTAGGCGCACATAGCGCAAAT
1 CAGTAAGCACACACAGTGCAAAT
* * * *
30228 CAGTAGGCGCACATAGCGCAAAT
1 CAGTAAGCACACACAGTGCAAAT
* *
30251 CAGTAGGCACACGA-AGTGCAAAA
1 CAGTAAGCACAC-ACAGTGCAAAT
*
30274 CAGTAAGCACACGA-AATGCGAAA-
1 CAGTAAGCACAC-ACAGTGC-AAAT
30297 CAGTAAGCACACACAGTGC
1 CAGTAAGCACACACAGTGC
30316 TGAATAGTAA
Statistics
Matches: 117, Mismatches: 11, Indels: 10
0.85 0.08 0.07
Matches are distributed among these distances:
22 15 0.13
23 98 0.84
24 4 0.03
ACGTcount: A:0.40, C:0.26, G:0.22, T:0.12
Consensus pattern (23 bp):
CAGTAAGCACACACAGTGCAAAT
Found at i:31082 original size:29 final size:29
Alignment explanation
Indices: 31045--31103 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
31035 TCCATATGAA
31045 ACTAAACTCAATAAGCTTTAATTACATAT
1 ACTAAACTCAATAAGCTTTAATTACATAT
31074 ACTAAACTCAATAAGCTTTAATTACATAT
1 ACTAAACTCAATAAGCTTTAATTACATAT
31103 A
1 A
31104 TAATTCGACC
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:0.46, C:0.17, G:0.03, T:0.34
Consensus pattern (29 bp):
ACTAAACTCAATAAGCTTTAATTACATAT
Done.