Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01012942.1 Kokia drynarioides strain JFW-HI SEQ_127960, 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: 8534
ACGTcount: A:0.34, C:0.15, G:0.17, T:0.34
Found at i:1053 original size:3 final size:3
Alignment explanation
Indices: 1045--1093 Score: 62
Period size: 3 Copynumber: 15.7 Consensus size: 3
1035 ACCTTTCGAT
* *
1045 TTA TTA TTA TTA TTA TTA TTA TTCA TTTA ATA CTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TT-A -TTA TTA TTA TTA TTA TTA TTA
1092 TT
1 TT
1094 CATTTAATAC
Statistics
Matches: 41, Mismatches: 3, Indels: 4
0.85 0.06 0.08
Matches are distributed among these distances:
3 37 0.90
4 2 0.05
5 2 0.05
ACGTcount: A:0.33, C:0.04, G:0.00, T:0.63
Consensus pattern (3 bp):
TTA
Found at i:1081 original size:26 final size:26
Alignment explanation
Indices: 1043--1103 Score: 104
Period size: 26 Copynumber: 2.3 Consensus size: 26
1033 TGACCTTTCG
* *
1043 ATTTATTATTATTATTATTATTATTC
1 ATTTAATACTATTATTATTATTATTC
1069 ATTTAATACTATTATTATTATTATTC
1 ATTTAATACTATTATTATTATTATTC
1095 ATTTAATAC
1 ATTTAATAC
1104 GTTCTTGATA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 33 1.00
ACGTcount: A:0.34, C:0.07, G:0.00, T:0.59
Consensus pattern (26 bp):
ATTTAATACTATTATTATTATTATTC
Found at i:1797 original size:6 final size:6
Alignment explanation
Indices: 1751--1818 Score: 54
Period size: 6 Copynumber: 11.5 Consensus size: 6
1741 AGGTTTTTAT
* * *
1751 TTTAAA TTTTAAA TTTGAAA -ATAAC TTTAAA CTTAAA -TTAAA TTTAAA
1 TTTAAA -TTTAAA TTT-AAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
1799 TTTTAAA --TAAA TTTAAA TTT
1 -TTTAAA TTTAAA TTTAAA TTT
1819 TAAACAAATT
Statistics
Matches: 50, Mismatches: 5, Indels: 13
0.74 0.07 0.19
Matches are distributed among these distances:
4 4 0.08
5 7 0.14
6 24 0.48
7 15 0.30
ACGTcount: A:0.49, C:0.03, G:0.01, T:0.47
Consensus pattern (6 bp):
TTTAAA
Found at i:1798 original size:17 final size:17
Alignment explanation
Indices: 1752--1832 Score: 76
Period size: 17 Copynumber: 4.6 Consensus size: 17
1742 GGTTTTTATT
1752 TTAAATTTTAAATTTGAAA
1 TTAAA-TTTAAATTT-AAA
* * *
1771 ATAACTTTAAACTTAAA
1 TTAAATTTAAATTTAAA
1788 TTAAATTTAAATTTTAAA
1 TTAAATTTAAA-TTTAAA
1806 -TAAATTTAAATTTTAAA
1 TTAAATTTAAA-TTTAAA
*
1823 -CAAATTTAAA
1 TTAAATTTAAA
1833 GGGAGTATGG
Statistics
Matches: 54, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
17 38 0.70
18 13 0.24
19 3 0.06
ACGTcount: A:0.52, C:0.04, G:0.01, T:0.43
Consensus pattern (17 bp):
TTAAATTTAAATTTAAA
Found at i:1814 original size:34 final size:36
Alignment explanation
Indices: 1752--1832 Score: 96
Period size: 34 Copynumber: 2.3 Consensus size: 36
1742 GGTTTTTATT
*
1752 TTAAATTTTAAATTTGAAAATAACTTTAAA-CTTAAA
1 TTAAA-TTTAAATTTGAAAATAAATTTAAATCTTAAA
* *
1788 TTAAATTTAAATTT-TAAATAAATTTAAATTTTAAA
1 TTAAATTTAAATTTGAAAATAAATTTAAATCTTAAA
*
1823 -CAAATTTAAA
1 TTAAATTTAAA
1833 GGGAGTATGG
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
34 21 0.52
35 14 0.35
36 5 0.12
ACGTcount: A:0.52, C:0.04, G:0.01, T:0.43
Consensus pattern (36 bp):
TTAAATTTAAATTTGAAAATAAATTTAAATCTTAAA
Found at i:2195 original size:29 final size:26
Alignment explanation
Indices: 2161--2256 Score: 84
Period size: 29 Copynumber: 3.3 Consensus size: 26
2151 TTATTTATTT
2161 TAAATTTATAATAATTTTAAATTTGAAAA
1 TAAATTTA-AATAA-TTTAAATTT-AAAA
* *
2190 TAAATTTAAACTTAAATTAAATTTAAATT
1 TAAATTTAAA--TAATTTAAATTTAAA-A
2219 TAAATTTAAAATAAATTTAAATTTTAAAA
1 TAAATTT-AAAT-AATTTAAA-TTTAAAA
*
2248 CAAATTTAA
1 TAAATTTAA
2257 TCTTAAAATA
Statistics
Matches: 56, Mismatches: 5, Indels: 13
0.76 0.07 0.18
Matches are distributed among these distances:
28 8 0.14
29 36 0.64
30 12 0.21
ACGTcount: A:0.54, C:0.02, G:0.01, T:0.43
Consensus pattern (26 bp):
TAAATTTAAATAATTTAAATTTAAAA
Found at i:2198 original size:35 final size:35
Alignment explanation
Indices: 2159--2274 Score: 110
Period size: 35 Copynumber: 3.2 Consensus size: 35
2149 CTTTATTTAT
*
2159 TTTAAA-TTTATAATAATTTTAAATTTGAAAATAAA
1 TTTAAACTTTATAATAAATTTAAATTT-AAAATAAA
*
2194 TTTAAACTTAAATTAAATTTAAATTTAAATTTAAAATAAA
1 TTTAAACTT-TA-T-AA--TAAATTTAAATTTAAAATAAA
* * *
2234 TTTAAATTTTAAAACAAATTT-AATCTTAAAATAAA
1 TTTAAACTTTATAATAAATTTAAAT-TTAAAATAAA
2269 TTTAAA
1 TTTAAA
2275 ATGAATTTGG
Statistics
Matches: 68, Mismatches: 6, Indels: 14
0.77 0.07 0.16
Matches are distributed among these distances:
34 3 0.04
35 28 0.41
36 2 0.03
37 3 0.04
38 1 0.01
39 3 0.04
40 16 0.24
41 12 0.18
ACGTcount: A:0.53, C:0.03, G:0.01, T:0.43
Consensus pattern (35 bp):
TTTAAACTTTATAATAAATTTAAATTTAAAATAAA
Found at i:2204 original size:6 final size:6
Alignment explanation
Indices: 2159--2242 Score: 79
Period size: 6 Copynumber: 14.5 Consensus size: 6
2149 CTTTATTTAT
* * *
2159 TTTAAA TTTATAA --TAAT TTTAAA TTTGAAA -ATAAA TTTAAA CTTAAA
1 TTTAAA TTTA-AA TTTAAA TTTAAA TTT-AAA TTTAAA TTTAAA TTTAAA
*
2206 -TTAAA TTTAAA TTTAAA TTTAAA -ATAAA TTTAAA TTT
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTT
2243 TAAAACAAAT
Statistics
Matches: 64, Mismatches: 7, Indels: 14
0.75 0.08 0.16
Matches are distributed among these distances:
4 1 0.02
5 14 0.22
6 44 0.69
7 5 0.08
ACGTcount: A:0.51, C:0.01, G:0.01, T:0.46
Consensus pattern (6 bp):
TTTAAA
Found at i:2219 original size:23 final size:23
Alignment explanation
Indices: 2190--2242 Score: 88
Period size: 23 Copynumber: 2.3 Consensus size: 23
2180 AATTTGAAAA
*
2190 TAAATTTAAACTTAAATTAAATT
1 TAAATTTAAACTTAAAATAAATT
*
2213 TAAATTTAAATTTAAAATAAATT
1 TAAATTTAAACTTAAAATAAATT
2236 TAAATTT
1 TAAATTT
2243 TAAAACAAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 28 1.00
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (23 bp):
TAAATTTAAACTTAAAATAAATT
Found at i:2242 original size:17 final size:17
Alignment explanation
Indices: 2159--2274 Score: 108
Period size: 17 Copynumber: 6.4 Consensus size: 17
2149 CTTTATTTAT
* *
2159 TTTAAATTTATAATAAT
1 TTTAAATTTAAAATAAA
2176 TTTAAATTTGAAAATAAA
1 TTTAAATTT-AAAATAAA
*
2194 TTTAAACTTAAATTAAATTTAAA
1 TTTAAA--T---TTAAA-ATAAA
2217 TTTAAATTTAAAATAAA
1 TTTAAATTTAAAATAAA
*
2234 TTTAAATTTTAAAACAAA
1 TTTAAA-TTTAAAATAAA
2252 TTT-AATCTTAAAATAAA
1 TTTAAAT-TTAAAATAAA
2269 TTTAAA
1 TTTAAA
2275 ATGAATTTGG
Statistics
Matches: 83, Mismatches: 6, Indels: 19
0.77 0.06 0.18
Matches are distributed among these distances:
16 1 0.01
17 33 0.40
18 32 0.39
20 1 0.01
21 1 0.01
22 3 0.04
23 12 0.14
ACGTcount: A:0.53, C:0.03, G:0.01, T:0.43
Consensus pattern (17 bp):
TTTAAATTTAAAATAAA
Found at i:2253 original size:58 final size:58
Alignment explanation
Indices: 2159--2274 Score: 178
Period size: 58 Copynumber: 2.0 Consensus size: 58
2149 CTTTATTTAT
* * * *
2159 TTTAAATTTATAATAATTTTAAATTTGAAAATAAATTTAAACTTAAATTAAATTTAAA
1 TTTAAATTTAAAATAAATTTAAATTTGAAAACAAATTTAAACTTAAAATAAATTTAAA
* *
2217 TTTAAATTTAAAATAAATTTAAATTTTAAAACAAATTTAATCTTAAAATAAATTTAAA
1 TTTAAATTTAAAATAAATTTAAATTTGAAAACAAATTTAAACTTAAAATAAATTTAAA
2275 ATGAATTTGG
Statistics
Matches: 52, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
58 52 1.00
ACGTcount: A:0.53, C:0.03, G:0.01, T:0.43
Consensus pattern (58 bp):
TTTAAATTTAAAATAAATTTAAATTTGAAAACAAATTTAAACTTAAAATAAATTTAAA
Found at i:2268 original size:29 final size:27
Alignment explanation
Indices: 2177--2282 Score: 104
Period size: 29 Copynumber: 3.7 Consensus size: 27
2167 TATAATAATT
2177 TTAAATTTGAAAATAAATTTAAACTTAAA
1 TTAAATTT-AAAATAAATTT-AACTTAAA
* **
2206 TTAAATTTAAATTTAAATTTAAAATAAA
1 TTAAATTTAAA-ATAAATTTAACTTAAA
*
2234 TTTAAATTTTAAAACAAATTTAATCTTAAA
1 -TTAAA-TTTAAAATAAATTTAA-CTTAAA
* *
2264 ATAAATTTAAAATGAATTT
1 TTAAATTTAAAATAAATTT
2283 GGGCCTGATC
Statistics
Matches: 63, Mismatches: 10, Indels: 9
0.77 0.12 0.11
Matches are distributed among these distances:
28 21 0.33
29 32 0.51
30 10 0.16
ACGTcount: A:0.54, C:0.03, G:0.02, T:0.42
Consensus pattern (27 bp):
TTAAATTTAAAATAAATTTAACTTAAA
Found at i:2276 original size:11 final size:11
Alignment explanation
Indices: 2190--2241 Score: 68
Period size: 11 Copynumber: 4.5 Consensus size: 11
2180 AATTTGAAAA
*
2190 TAAATTTAAACT
1 TAAA-TTAAATT
2202 TAAATTAAATT
1 TAAATTAAATT
2213 TAAATTTAAATT
1 TAAA-TTAAATT
*
2225 TAAAATAAATT
1 TAAATTAAATT
2236 TAAATT
1 TAAATT
2242 TTAAAACAAA
Statistics
Matches: 36, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
11 21 0.58
12 15 0.42
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (11 bp):
TAAATTAAATT
Found at i:4246 original size:30 final size:30
Alignment explanation
Indices: 4212--4268 Score: 96
Period size: 30 Copynumber: 1.9 Consensus size: 30
4202 CTTGATCTGG
*
4212 CACATGACCGTGTGCCTAGCCCATGTGGCT
1 CACATGACCGTGTGCCCAGCCCATGTGGCT
*
4242 CACATGGCCGTGTGCCCAGCCCATGTG
1 CACATGACCGTGTGCCCAGCCCATGTG
4269 AGAGGGTCCA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.16, C:0.35, G:0.28, T:0.21
Consensus pattern (30 bp):
CACATGACCGTGTGCCCAGCCCATGTGGCT
Found at i:4650 original size:26 final size:26
Alignment explanation
Indices: 4614--4666 Score: 97
Period size: 26 Copynumber: 2.0 Consensus size: 26
4604 AAAAGAAAAT
4614 GGTTACATACACATGGTTCATAAGTA
1 GGTTACATACACATGGTTCATAAGTA
*
4640 GGTTATATACACATGGTTCATAAGTA
1 GGTTACATACACATGGTTCATAAGTA
4666 G
1 G
4667 TTTGCGTCGG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.34, C:0.13, G:0.21, T:0.32
Consensus pattern (26 bp):
GGTTACATACACATGGTTCATAAGTA
Found at i:5476 original size:19 final size:19
Alignment explanation
Indices: 5454--5517 Score: 53
Period size: 18 Copynumber: 3.5 Consensus size: 19
5444 AAAAAGTTTC
*
5454 AAATTTTTTAGAAAT-TTAA
1 AAATTATTTA-AAATATTAA
*
5473 AAATTATTTAAAGTATTAA
1 AAATTATTTAAAATATTAA
** *
5492 AAA-TATAAAAAATATTCA
1 AAATTATTTAAAATATTAA
5510 AAA-TATTT
1 AAATTATTT
5518 TTTATGCTTT
Statistics
Matches: 36, Mismatches: 8, Indels: 3
0.77 0.17 0.06
Matches are distributed among these distances:
18 20 0.56
19 16 0.44
ACGTcount: A:0.55, C:0.02, G:0.03, T:0.41
Consensus pattern (19 bp):
AAATTATTTAAAATATTAA
Found at i:5495 original size:27 final size:27
Alignment explanation
Indices: 5465--5516 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 27
5455 AATTTTTTAG
* * * *
5465 AAATTTAAAAATTATTTAAAGTATTAA
1 AAATATAAAAAATATTCAAAATATTAA
5492 AAATATAAAAAATATTCAAAATATT
1 AAATATAAAAAATATTCAAAATATT
5517 TTTTATGCTT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 21 1.00
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.37
Consensus pattern (27 bp):
AAATATAAAAAATATTCAAAATATTAA
Found at i:5512 original size:9 final size:9
Alignment explanation
Indices: 5465--5516 Score: 52
Period size: 9 Copynumber: 5.8 Consensus size: 9
5455 AATTTTTTAG
5465 AAAT-TTAA
1 AAATATTAA
*
5473 AAATTATTTA
1 AAA-TATTAA
*
5483 AAGTATTAA
1 AAATATTAA
*
5492 AAATATAAA
1 AAATATTAA
*
5501 AAATATTCA
1 AAATATTAA
5510 AAATATT
1 AAATATT
5517 TTTTATGCTT
Statistics
Matches: 35, Mismatches: 7, Indels: 3
0.78 0.16 0.07
Matches are distributed among these distances:
8 3 0.09
9 27 0.77
10 5 0.14
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.37
Consensus pattern (9 bp):
AAATATTAA
Found at i:6898 original size:96 final size:96
Alignment explanation
Indices: 6724--6905 Score: 244
Period size: 96 Copynumber: 1.9 Consensus size: 96
6714 TAGGATGTTT
* * * *
6724 GATTATCTCGATTTGAATAAAGATTGCACCTAGTAAGTTAAGGCGCAAATTTTCAGAATTGAAGA
1 GATTATCTCGATTTAAAGAAAAATTGCACCTAGTAAGTTAAGGCGCAAATTTTCAGAATCGAAGA
*
6789 TAAGGAAACATTGCCTCGATTATGGGTATTC
66 TAAAGAAACATTGCCTCGATTATGGGTATTC
* *
6820 GATTATTTCGATTTAAAGAAAAATTGCACCTAGTAAGTTAAGGCGCAAATTTT-TGAAACTCGAA
1 GATTATCTCGATTTAAAGAAAAATTGCACCTAGTAAGTTAAGGCGCAAATTTTCAG-AA-TCGAA
*
6884 -ATAAA-AGAATATTGCCTCGATT
64 GATAAAGA-AACATTGCCTCGATT
6906 TTAAAGTTTT
Statistics
Matches: 75, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
95 2 0.03
96 69 0.92
97 4 0.05
ACGTcount: A:0.37, C:0.13, G:0.19, T:0.31
Consensus pattern (96 bp):
GATTATCTCGATTTAAAGAAAAATTGCACCTAGTAAGTTAAGGCGCAAATTTTCAGAATCGAAGA
TAAAGAAACATTGCCTCGATTATGGGTATTC
Found at i:7295 original size:29 final size:26
Alignment explanation
Indices: 7261--7356 Score: 68
Period size: 29 Copynumber: 3.3 Consensus size: 26
7251 AAAAAAACGG
7261 AATTTTTGGACATCCAAGGGTAAAATGGT
1 AATTTTTGGACAT-C--GGGTAAAATGGT
*
7290 AATTTTTAGGAAAATCGGGATCAAAAATGG-
1 AATTTTT-GG-ACATCGGG-T--AAAATGGT
*
7320 AATTTTTGGACATTCGGGGGTGAAATGGT
1 AATTTTTGGACA-TC--GGGTAAAATGGT
7349 AATTTTTG
1 AATTTTTG
7357 AAAGTTTTGA
Statistics
Matches: 55, Mismatches: 3, Indels: 18
0.72 0.04 0.24
Matches are distributed among these distances:
28 11 0.20
29 20 0.36
30 11 0.20
31 13 0.24
ACGTcount: A:0.33, C:0.07, G:0.26, T:0.33
Consensus pattern (26 bp):
AATTTTTGGACATCGGGTAAAATGGT
Found at i:7304 original size:60 final size:58
Alignment explanation
Indices: 7161--7356 Score: 171
Period size: 60 Copynumber: 3.3 Consensus size: 58
7151 ATTCTCGGGA
* * * * * *
7161 GTAAAATGGTAATTTTGGGAAAGTTCGGGATTAAAAATA-GAATTTTTAGACA-CTCAAGA
1 GTAAAATGGTAATTTTTGGAAAATT--GGAATAAAAAAAGGAATTTTTGGACATC-CAAGG
* * *
7220 GTAAAATGATAACTTTTGAAAAAATTGGAATAAAAAAACGGAATTTTTGGACATCCAAGG
1 GTAAAATGGTAATTTTTG-GAAAATTGGAATAAAAAAA-GGAATTTTTGGACATCCAAGG
* * * * * **
7280 GTAAAATGGTAATTTTTAGGAAAATCGGGATCAAAAATGGAATTTTTGGACATTCGGGG
1 GTAAAATGGTAATTTTT-GGAAAATTGGAATAAAAAAAGGAATTTTTGGACATCCAAGG
*
7339 GTGAAATGGTAATTTTTG
1 GTAAAATGGTAATTTTTG
7357 AAAGTTTTGA
Statistics
Matches: 112, Mismatches: 20, Indels: 11
0.78 0.14 0.08
Matches are distributed among these distances:
58 11 0.10
59 49 0.44
60 50 0.45
61 2 0.02
ACGTcount: A:0.40, C:0.07, G:0.23, T:0.31
Consensus pattern (58 bp):
GTAAAATGGTAATTTTTGGAAAATTGGAATAAAAAAAGGAATTTTTGGACATCCAAGG
Found at i:7375 original size:59 final size:56
Alignment explanation
Indices: 7312--7649 Score: 243
Period size: 59 Copynumber: 5.8 Consensus size: 56
7302 AATCGGGATC
*
7312 AAAAATGGAATTTTTGGACATTCGGGGGT-GAAATGGTAATTTTTGAAAGTTTTGAGGTT
1 AAAAATGGAATTTTTGGA-ATTCGGGGGTAAAAATGG-AATTTTT-AAAGTTTTG-GGTT
* * * * *
7371 AAAAATGGATTTTTTGGAGGTTCGAGGGTAAAAATGCAATTTTCAAAAGTTTTGGGGTT
1 AAAAATGGAATTTTTGGA-ATTCGGGGGTAAAAATGGAATTTT-TAAAGTTTT-GGGTT
* * * *
7430 AAAAATGAAATTTTTGGAAGTTTCGGGGTTAAAAATGGAATTTTTAGAAG-TTCGGGGT
1 AAAAATGGAATTTTTGGAA--TTCGGGGGTAAAAATGGAATTTTTA-AAGTTTTGGGTT
* * ** *
7488 AAAAATGTAATTTTTGGAAGTTTTGGGGGTCAAAAATGGAATTTTGGAAG-TTTGGGGT
1 AAAAATGGAATTTTTGGAA--TTCGGGGGT-AAAAATGGAATTTTTAAAGTTTTGGGTT
** * * * ** *
7546 AAAAATATAATTTTTGGAAGTTTTGGGGTTAAAAATGGAATTTTTGGAAGTTCAGGGGT
1 AAAAATGGAATTTTTGGAA--TTCGGGGGTAAAAATGGAATTTTT-AAAGTTTTGGGTT
** *
7605 AAAAATATAATTTTTGGAAGTTTC-GAGGTCAAAAATGGAATTTTT
1 AAAAATGGAATTTTTGGAA--TTCGGGGGT-AAAAATGGAATTTTT
7650 GGATAGTTTA
Statistics
Matches: 239, Mismatches: 30, Indels: 20
0.83 0.10 0.07
Matches are distributed among these distances:
57 14 0.06
58 76 0.32
59 120 0.50
60 29 0.12
ACGTcount: A:0.33, C:0.03, G:0.27, T:0.36
Consensus pattern (56 bp):
AAAAATGGAATTTTTGGAATTCGGGGGTAAAAATGGAATTTTTAAAGTTTTGGGTT
Found at i:7386 original size:30 final size:30
Alignment explanation
Indices: 7312--7658 Score: 329
Period size: 30 Copynumber: 11.8 Consensus size: 30
7302 AATCGGGATC
* *
7312 AAAAATGGAATTTTTGGACA--TTCGGGGGT
1 AAAAATGGAATTTTTGGA-AGTTTTGGGGTT
* * *
7341 -GAAATGGTAATTTTTGAAAGTTTTGAGGTT
1 AAAAATGG-AATTTTTGGAAGTTTTGGGGTT
* * *
7371 AAAAATGGATTTTTTGG-AGGTTCGAGGG-T
1 AAAAATGGAATTTTTGGAAGTTTTG-GGGTT
* ***
7400 AAAAATGCAATTTTCAAAAGTTTTGGGGTT
1 AAAAATGGAATTTTTGGAAGTTTTGGGGTT
* *
7430 AAAAATGAAATTTTTGGAAGTTTCGGGGTT
1 AAAAATGGAATTTTTGGAAGTTTTGGGGTT
* *
7460 AAAAATGGAATTTTTAGAAG-TTCGGGG-T
1 AAAAATGGAATTTTTGGAAGTTTTGGGGTT
* *
7488 AAAAATGTAATTTTTGGAAGTTTTGGGGGTC
1 AAAAATGGAATTTTTGGAAGTTTT-GGGGTT
7519 AAAAATGGAA-TTTTGGAAG-TTTGGGG-T
1 AAAAATGGAATTTTTGGAAGTTTTGGGGTT
**
7546 AAAAATATAATTTTTGGAAGTTTTGGGGTT
1 AAAAATGGAATTTTTGGAAGTTTTGGGGTT
**
7576 AAAAATGGAATTTTTGGAAGTTCAGGGG-T
1 AAAAATGGAATTTTTGGAAGTTTTGGGGTT
** * * *
7605 AAAAATATAATTTTTGGAAGTTTCGAGGTC
1 AAAAATGGAATTTTTGGAAGTTTTGGGGTT
7635 AAAAATGGAATTTTTGGATAGTTT
1 AAAAATGGAATTTTTGGA-AGTTT
7659 AGGGACCTTC
Statistics
Matches: 258, Mismatches: 45, Indels: 28
0.78 0.14 0.08
Matches are distributed among these distances:
27 8 0.03
28 39 0.15
29 73 0.28
30 118 0.46
31 20 0.08
ACGTcount: A:0.33, C:0.03, G:0.27, T:0.37
Consensus pattern (30 bp):
AAAAATGGAATTTTTGGAAGTTTTGGGGTT
Found at i:7650 original size:59 final size:59
Alignment explanation
Indices: 7381--7662 Score: 333
Period size: 59 Copynumber: 4.8 Consensus size: 59
7371 AAAAATGGAT
* * *** **
7381 TTTTTGG-AGGTTCGAGGGT-AAAAATGCAATTTTCAAAAGTTTTGGGGTTAAAAATGA-AA
1 TTTTTGGAAGTTTCG-GGGTCAAAAATGGAATTTTTGGAAGTTCAGGGG-TAAAAAT-ATAA
* * *
7440 TTTTTGGAAGTTTCGGGGTTAAAAATGGAATTTTTAGAAGTTC-GGGGTAAAAATGTAA
1 TTTTTGGAAGTTTCGGGGTCAAAAATGGAATTTTTGGAAGTTCAGGGGTAAAAATATAA
* *
7498 TTTTTGGAAGTTTTGGGGGTCAAAAATGGAA-TTTTGGAAGTT-TGGGGTAAAAATATAA
1 TTTTTGGAAG-TTTCGGGGTCAAAAATGGAATTTTTGGAAGTTCAGGGGTAAAAATATAA
* *
7556 TTTTTGGAAGTTTTGGGGTTAAAAATGGAATTTTTGGAAGTTCAGGGGTAAAAATATAA
1 TTTTTGGAAGTTTCGGGGTCAAAAATGGAATTTTTGGAAGTTCAGGGGTAAAAATATAA
* *
7615 TTTTTGGAAGTTTCGAGGTCAAAAATGGAATTTTTGGATAGTTTAGGG
1 TTTTTGGAAGTTTCGGGGTCAAAAATGGAATTTTTGGA-AGTTCAGGG
7663 ACCTTCAGGG
Statistics
Matches: 198, Mismatches: 17, Indels: 15
0.86 0.07 0.07
Matches are distributed among these distances:
57 18 0.09
58 64 0.32
59 83 0.42
60 33 0.17
ACGTcount: A:0.33, C:0.03, G:0.28, T:0.37
Consensus pattern (59 bp):
TTTTTGGAAGTTTCGGGGTCAAAAATGGAATTTTTGGAAGTTCAGGGGTAAAAATATAA
Done.