Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01006431.1 Kokia drynarioides strain JFW-HI SEQ_121013, 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: 73510
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Warning! 1 characters in sequence are not A, C, G, or T
Found at i:2624 original size:34 final size:34
Alignment explanation
Indices: 2585--2663 Score: 95
Period size: 34 Copynumber: 2.3 Consensus size: 34
2575 ACTCATTTTC
*
2585 ATGCATCATTTTAAACATCATATTTGGTTTCATA
1 ATGCATCATTTTAAACATCATATCTGGTTTCATA
* * * * *
2619 ATGCATCACTGTAGACATCATATCTGGTTTCCTT
1 ATGCATCATTTTAAACATCATATCTGGTTTCATA
*
2653 TTGCATCATTT
1 ATGCATCATTT
2664 GGTTTTGTTC
Statistics
Matches: 36, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
34 36 1.00
ACGTcount: A:0.27, C:0.19, G:0.11, T:0.43
Consensus pattern (34 bp):
ATGCATCATTTTAAACATCATATCTGGTTTCATA
Found at i:4762 original size:88 final size:88
Alignment explanation
Indices: 4663--4834 Score: 317
Period size: 88 Copynumber: 2.0 Consensus size: 88
4653 AGAAAAAAAA
*
4663 AAAAAAAAGCTTTAAAATGGATACATGGTCAAGTGCTAGGCCATGTGGTCTTCATGGTCAAGTGG
1 AAAAAAAAGCTTTAAAATGGATACATGGCCAAGTGCTAGGCCATGTGGTCTTCATGGTCAAGTGG
*
4728 TCAAGTCATGTGAGCCACAAGGT
66 TCAAGTCATGTAAGCCACAAGGT
*
4751 AAAAAAAAGCTTTAAAATGGATACATGGCCAAGTGCTAGGCCATGTGGTCTTCATGGTCAATTGG
1 AAAAAAAAGCTTTAAAATGGATACATGGCCAAGTGCTAGGCCATGTGGTCTTCATGGTCAAGTGG
4816 TCAAGTCATGTAAGCCACA
66 TCAAGTCATGTAAGCCACA
4835 CGGTCGTGTC
Statistics
Matches: 81, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
88 81 1.00
ACGTcount: A:0.34, C:0.17, G:0.24, T:0.25
Consensus pattern (88 bp):
AAAAAAAAGCTTTAAAATGGATACATGGCCAAGTGCTAGGCCATGTGGTCTTCATGGTCAAGTGG
TCAAGTCATGTAAGCCACAAGGT
Found at i:8048 original size:12 final size:12
Alignment explanation
Indices: 8033--8072 Score: 50
Period size: 12 Copynumber: 3.6 Consensus size: 12
8023 AAATATAATG
8033 TAAAAATTAAAT
1 TAAAAATTAAAT
8045 TAAAAA-TAAA-
1 TAAAAATTAAAT
8055 -AAAAATTAAAT
1 TAAAAATTAAAT
*
8066 AAAAAAT
1 TAAAAAT
8073 GGATAAATTA
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
9 5 0.20
10 4 0.16
11 4 0.16
12 12 0.48
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (12 bp):
TAAAAATTAAAT
Found at i:11299 original size:13 final size:13
Alignment explanation
Indices: 11281--11308 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
11271 AACTTTTGGT
11281 AGTTAGATTCATG
1 AGTTAGATTCATG
11294 AGTTAGATTCATG
1 AGTTAGATTCATG
11307 AG
1 AG
11309 CTTAATACCT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.32, C:0.07, G:0.25, T:0.36
Consensus pattern (13 bp):
AGTTAGATTCATG
Found at i:11704 original size:40 final size:40
Alignment explanation
Indices: 11649--11729 Score: 162
Period size: 40 Copynumber: 2.0 Consensus size: 40
11639 TAATCGGCCA
11649 TAGTTTTTTGTTTTAGCCATGAATGATCAGATTGTGCTAT
1 TAGTTTTTTGTTTTAGCCATGAATGATCAGATTGTGCTAT
11689 TAGTTTTTTGTTTTAGCCATGAATGATCAGATTGTGCTAT
1 TAGTTTTTTGTTTTAGCCATGAATGATCAGATTGTGCTAT
11729 T
1 T
11730 TTTCATTCAT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 41 1.00
ACGTcount: A:0.22, C:0.10, G:0.20, T:0.48
Consensus pattern (40 bp):
TAGTTTTTTGTTTTAGCCATGAATGATCAGATTGTGCTAT
Found at i:17329 original size:48 final size:48
Alignment explanation
Indices: 17268--17369 Score: 159
Period size: 48 Copynumber: 2.1 Consensus size: 48
17258 GTGGCACATA
* ** *
17268 ATCAATAATATTCTTCTTTTATTCTTTTTATATCTTTTGTAAACTCTT
1 ATCATTAATATTCTTCTTTTATTCTTTCCATATCCTTTGTAAACTCTT
*
17316 ATCATTAATATTCTTTTTTTATTCTTTCCATATCCTTTGTAAACTCTT
1 ATCATTAATATTCTTCTTTTATTCTTTCCATATCCTTTGTAAACTCTT
17364 ATCATT
1 ATCATT
17370 GTATTTTAAT
Statistics
Matches: 49, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
48 49 1.00
ACGTcount: A:0.25, C:0.17, G:0.02, T:0.57
Consensus pattern (48 bp):
ATCATTAATATTCTTCTTTTATTCTTTCCATATCCTTTGTAAACTCTT
Found at i:19134 original size:29 final size:29
Alignment explanation
Indices: 19069--19130 Score: 74
Period size: 29 Copynumber: 2.2 Consensus size: 29
19059 AATGATCTTA
19069 AAATTATTAAAATTATTTTTTAAAAATA-T
1 AAATTATTAAAATTA-TTTTTAAAAATATT
* **
19098 AAAATATTAAAATTA-TTTTAAATTTATT
1 AAATTATTAAAATTATTTTTAAAAATATT
19126 AAATT
1 AAATT
19131 TATTTTTTTT
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
27 9 0.32
28 5 0.18
29 14 0.50
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (29 bp):
AAATTATTAAAATTATTTTTAAAAATATT
Found at i:19168 original size:52 final size:49
Alignment explanation
Indices: 19066--19170 Score: 122
Period size: 52 Copynumber: 2.1 Consensus size: 49
19056 GCAAATGATC
*
19066 TTAAAATTATTAAAATTATTTTTTAAAAATATAAAATATTAAAATTATT
1 TTAAAATTATTAAAATTATTTTTTAAAAATATAAAATATTAAAATAATT
* * **
19115 TTAAATTTATTAAATTTATTTTTTTTTGAAATAATAAAATTATT-AAATAATT
1 TTAAAATTATTAAAATTA--TTTTTTAAAAAT-ATAAAA-TATTAAAATAATT
19167 TTAA
1 TTAA
19171 TTTCCAATTT
Statistics
Matches: 47, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
49 16 0.34
51 10 0.21
52 17 0.36
53 4 0.09
ACGTcount: A:0.49, C:0.00, G:0.01, T:0.50
Consensus pattern (49 bp):
TTAAAATTATTAAAATTATTTTTTAAAAATATAAAATATTAAAATAATT
Found at i:24835 original size:16 final size:18
Alignment explanation
Indices: 24804--24839 Score: 58
Period size: 16 Copynumber: 2.1 Consensus size: 18
24794 TTCAAAAAAT
24804 AATTTTAATAATTTTAAA
1 AATTTTAATAATTTTAAA
24822 AATTTT-AT-ATTTTAAA
1 AATTTTAATAATTTTAAA
24838 AA
1 AA
24840 CAATTTTAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 10 0.56
17 2 0.11
18 6 0.33
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (18 bp):
AATTTTAATAATTTTAAA
Found at i:26627 original size:18 final size:19
Alignment explanation
Indices: 26588--26628 Score: 50
Period size: 20 Copynumber: 2.2 Consensus size: 19
26578 AAAAAGTATC
26588 ATATTTTTTTATTAATAAAT
1 ATATTTTTTTATTAAT-AAT
26608 ATATTATTTTTA-TAAT-AT
1 ATATT-TTTTTATTAATAAT
26626 ATA
1 ATA
26629 GCATGTACAA
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
18 5 0.25
20 9 0.45
21 6 0.30
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (19 bp):
ATATTTTTTTATTAATAAT
Found at i:28827 original size:13 final size:13
Alignment explanation
Indices: 28809--28833 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
28799 TTTTGGACCC
28809 AATTTGATATTTG
1 AATTTGATATTTG
28822 AATTTGATATTT
1 AATTTGATATTT
28834 TTTTCTTAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.00, G:0.12, T:0.56
Consensus pattern (13 bp):
AATTTGATATTTG
Found at i:31862 original size:16 final size:16
Alignment explanation
Indices: 31837--31877 Score: 73
Period size: 16 Copynumber: 2.6 Consensus size: 16
31827 ATTTATTAAC
31837 ATAAAAAATATTTTTT
1 ATAAAAAATATTTTTT
*
31853 ATAAATAATATTTTTT
1 ATAAAAAATATTTTTT
31869 ATAAAAAAT
1 ATAAAAAAT
31878 TATAATCTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (16 bp):
ATAAAAAATATTTTTT
Found at i:32525 original size:15 final size:17
Alignment explanation
Indices: 32493--32525 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
32483 TTTAGATGAA
32493 AGGTGTGTTTATATATT
1 AGGTGTGTTTATATATT
32510 AGGTGT-TTTATA-ATT
1 AGGTGTGTTTATATATT
32525 A
1 A
32526 TAGCAGAGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 4 0.25
16 6 0.38
17 6 0.38
ACGTcount: A:0.27, C:0.00, G:0.21, T:0.52
Consensus pattern (17 bp):
AGGTGTGTTTATATATT
Found at i:33791 original size:8 final size:8
Alignment explanation
Indices: 33778--33826 Score: 57
Period size: 8 Copynumber: 6.2 Consensus size: 8
33768 TTTTCAATAA
33778 ATAAAAAT
1 ATAAAAAT
33786 ATAAAAAT
1 ATAAAAAT
33794 AT-AAAAT
1 ATAAAAAT
*
33801 ATTAAAAT
1 ATAAAAAT
33809 A-AAACAAT
1 ATAAA-AAT
*
33817 ATAAATAT
1 ATAAAAAT
33825 AT
1 AT
33827 TTAAAAAAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
7 9 0.25
8 24 0.67
9 3 0.08
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.29
Consensus pattern (8 bp):
ATAAAAAT
Found at i:33797 original size:16 final size:16
Alignment explanation
Indices: 33778--33826 Score: 57
Period size: 15 Copynumber: 3.1 Consensus size: 16
33768 TTTTCAATAA
33778 ATAAAAATATAAAAAT
1 ATAAAAATATAAAAAT
*
33794 AT-AAAATATTAAAAT
1 ATAAAAATATAAAAAT
*
33809 A-AAACAATATAAATAT
1 ATAAA-AATATAAAAAT
33825 AT
1 AT
33827 TTAAAAAAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 5
0.77 0.09 0.14
Matches are distributed among these distances:
15 15 0.56
16 12 0.44
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.29
Consensus pattern (16 bp):
ATAAAAATATAAAAAT
Found at i:33810 original size:21 final size:21
Alignment explanation
Indices: 33786--33842 Score: 64
Period size: 23 Copynumber: 2.7 Consensus size: 21
33776 AAATAAAAAT
33786 ATAAAAATATAAAATATTAAA
1 ATAAAAATATAAAATATTAAA
*
33807 ATAAAACAATATAAATATATTTAA
1 AT-AAA-AATATAAA-ATATTAAA
33831 A-AAAAAT-TAAAA
1 ATAAAAATATAAAA
33843 ACTAATATCG
Statistics
Matches: 32, Mismatches: 1, Indels: 8
0.78 0.02 0.20
Matches are distributed among these distances:
19 1 0.03
20 4 0.12
21 5 0.16
22 6 0.19
23 8 0.25
24 8 0.25
ACGTcount: A:0.70, C:0.02, G:0.00, T:0.28
Consensus pattern (21 bp):
ATAAAAATATAAAATATTAAA
Found at i:33817 original size:23 final size:24
Alignment explanation
Indices: 33781--33836 Score: 73
Period size: 23 Copynumber: 2.4 Consensus size: 24
33771 TCAATAAATA
33781 AAAATATAAAAATATAAA-ATA-TT
1 AAAATA-AAAAATATAAATATATTT
33804 AAAATAAAACAATATAAATATATTT
1 AAAATAAAA-AATATAAATATATTT
33829 AAAA-AAAA
1 AAAATAAAA
33837 TTAAAAACTA
Statistics
Matches: 30, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
22 3 0.10
23 14 0.47
24 7 0.23
25 6 0.20
ACGTcount: A:0.71, C:0.02, G:0.00, T:0.27
Consensus pattern (24 bp):
AAAATAAAAAATATAAATATATTT
Found at i:38500 original size:18 final size:20
Alignment explanation
Indices: 38477--38513 Score: 60
Period size: 18 Copynumber: 1.9 Consensus size: 20
38467 AGCTTCCCTC
38477 CCCTTT-CTTTTA-ATTTTA
1 CCCTTTGCTTTTATATTTTA
38495 CCCTTTGCTTTTATATTTT
1 CCCTTTGCTTTTATATTTT
38514 TTGCTTTAGC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 6 0.35
19 6 0.35
20 5 0.29
ACGTcount: A:0.14, C:0.22, G:0.03, T:0.62
Consensus pattern (20 bp):
CCCTTTGCTTTTATATTTTA
Found at i:42868 original size:3 final size:3
Alignment explanation
Indices: 42860--42893 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
42850 CATCTTCCTG
42860 CAA CAA CAA CAA CAA CAA CAA CAA CAA CAA CAA C
1 CAA CAA CAA CAA CAA CAA CAA CAA CAA CAA CAA C
42894 CCCCATTAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.65, C:0.35, G:0.00, T:0.00
Consensus pattern (3 bp):
CAA
Found at i:45275 original size:2 final size:2
Alignment explanation
Indices: 45268--45293 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
45258 ACTACTCTTT
45268 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
45294 ATCAAATAGG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:52411 original size:32 final size:32
Alignment explanation
Indices: 52347--52412 Score: 80
Period size: 32 Copynumber: 2.1 Consensus size: 32
52337 TGTTGCTGGT
* *
52347 ACAAAACTCAAAACCATCCCTGCCCACGACCC
1 ACAAAACTCAAAACCATCCCCGCCCACCACCC
* *
52379 ACAAGACT-AAAATCATCCCCGTCCCACCACCC
1 ACAAAACTCAAAACCATCCCCG-CCCACCACCC
52411 AC
1 AC
52413 GTGGGTACAC
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
31 11 0.38
32 18 0.62
ACGTcount: A:0.36, C:0.47, G:0.06, T:0.11
Consensus pattern (32 bp):
ACAAAACTCAAAACCATCCCCGCCCACCACCC
Found at i:64921 original size:34 final size:34
Alignment explanation
Indices: 64861--64926 Score: 105
Period size: 34 Copynumber: 1.9 Consensus size: 34
64851 AAGTGAGGCT
* *
64861 GAGAGGTAAGCGTGTATTGGTCGATTAGTTAACC
1 GAGAGGTAAGCGTGTATTGATCGATTAATTAACC
*
64895 GAGAGGTAAGCGTGTATTGATTGATTAATTAA
1 GAGAGGTAAGCGTGTATTGATCGATTAATTAA
64927 GTAGTTAGAG
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
34 29 1.00
ACGTcount: A:0.30, C:0.08, G:0.30, T:0.32
Consensus pattern (34 bp):
GAGAGGTAAGCGTGTATTGATCGATTAATTAACC
Found at i:67145 original size:22 final size:22
Alignment explanation
Indices: 67113--67154 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
67103 TTAGCCCACG
*
67113 TCAAAATATAAAAATAAAAATT
1 TCAAAAAATAAAAATAAAAATT
67135 TCAAAAAATAAAAATAAAAA
1 TCAAAAAATAAAAATAAAAA
67155 AATATTTAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.74, C:0.05, G:0.00, T:0.21
Consensus pattern (22 bp):
TCAAAAAATAAAAATAAAAATT
Found at i:67293 original size:11 final size:10
Alignment explanation
Indices: 67258--67295 Score: 58
Period size: 10 Copynumber: 3.6 Consensus size: 10
67248 CTATTCTAGA
67258 ATTATAAAAAT
1 ATTA-AAAAAT
67269 ATTAAAAAAT
1 ATTAAAAAAT
67279 ATTAAAAAAT
1 ATTAAAAAAT
67289 AATTAAA
1 -ATTAAA
67296 CTTTATAAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
10 16 0.62
11 10 0.38
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (10 bp):
ATTAAAAAAT
Found at i:67327 original size:40 final size:40
Alignment explanation
Indices: 67259--67350 Score: 116
Period size: 40 Copynumber: 2.3 Consensus size: 40
67249 TATTCTAGAA
*
67259 TTATAAAAA-TATTAAAAAATATTAAAAAATAATTAAACT
1 TTATAAAAATTATTAAAAAATATTAAAAAATAATAAAACT
* * *
67298 TTATAAAAATTATTAGAAATTAATT-AAAAATAATAAAATT
1 TTATAAAAATTATTAAAAAAT-ATTAAAAAATAATAAAACT
*
67338 TTATAAAATTTAT
1 TTATAAAAATTAT
67351 ATGAAATATT
Statistics
Matches: 46, Mismatches: 5, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
39 9 0.20
40 34 0.74
41 3 0.07
ACGTcount: A:0.60, C:0.01, G:0.01, T:0.38
Consensus pattern (40 bp):
TTATAAAAATTATTAAAAAATATTAAAAAATAATAAAACT
Found at i:67334 original size:30 final size:30
Alignment explanation
Indices: 67262--67335 Score: 85
Period size: 30 Copynumber: 2.5 Consensus size: 30
67252 TCTAGAATTA
*
67262 TAAAAATATTAAAAAATATTAAAAAATAAT
1 TAAAAATAATAAAAAATATTAAAAAATAAT
** * * * *
67292 TAAACTTTATAAAAATTATTAGAAATTAAT
1 TAAAAATAATAAAAAATATTAAAAAATAAT
67322 TAAAAATAATAAAA
1 TAAAAATAATAAAA
67336 TTTTATAAAA
Statistics
Matches: 34, Mismatches: 10, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
30 34 1.00
ACGTcount: A:0.65, C:0.01, G:0.01, T:0.32
Consensus pattern (30 bp):
TAAAAATAATAAAAAATATTAAAAAATAAT
Found at i:67592 original size:11 final size:11
Alignment explanation
Indices: 67576--67605 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
67566 TCTGATGATT
67576 TTTTATAAATA
1 TTTTATAAATA
*
67587 TTTTATAAATT
1 TTTTATAAATA
67598 TTTTATAA
1 TTTTATAA
67606 TTCTAAAATA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (11 bp):
TTTTATAAATA
Found at i:69397 original size:2 final size:2
Alignment explanation
Indices: 69390--69415 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
69380 CTAAGCCTAT
69390 AC AC AC AC AC AC AC AC AC AC AC AC AC
1 AC AC AC AC AC AC AC AC AC AC AC AC AC
69416 CATAATCATC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:71192 original size:3 final size:3
Alignment explanation
Indices: 71184--71211 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
71174 AGTTGGGGGT
71184 TGA TGA TGA TGA TGA TGA TGA TGA TGA T
1 TGA TGA TGA TGA TGA TGA TGA TGA TGA T
71212 CTTCTTCATG
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:0.32, C:0.00, G:0.32, T:0.36
Consensus pattern (3 bp):
TGA
Found at i:71550 original size:2 final size:2
Alignment explanation
Indices: 71545--71576 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
71535 TCAATTCTGC
*
71545 GA GA GA GA GA GA GA GA GA GA GA GA GA AA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
71577 TATGCATGTG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.53, C:0.00, G:0.47, T:0.00
Consensus pattern (2 bp):
GA
Done.