Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01010650.1 Kokia drynarioides strain JFW-HI SEQ_125593, 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: 43789
ACGTcount: A:0.32, C:0.16, G:0.17, T:0.35
Warning! 75 characters in sequence are not A, C, G, or T
Found at i:132 original size:30 final size:28
Alignment explanation
Indices: 63--341 Score: 153
Period size: 30 Copynumber: 9.4 Consensus size: 28
53 TCCTTCGAAC
* *
63 TTTTTAAAATCACATTTTGACCCCAAACT
1 TTTTTAAAATTACATTTTGACCCCAAA-A
* *
92 TTTTTAAAATTATATTTTGACCTCTAAAA
1 TTTTTAAAATTACATTTTGACC-CCAAAA
* * *
121 TTTTGTAAAATTACATTTTGATCCTAAAC
1 TTTT-TAAAATTACATTTTGACCCCAAAA
*** * *
150 TTCCCAAAATTACATTTTTACCCTCCAAAC
1 TTTTTAAAATTACATTTTGA-CC-CCAAAA
* * * *
180 TTTTCAAAAATTACATTCTAATCGCCAAAA
1 TTTT-TAAAATTACATTTTGA-CCCCAAAA
* * * *
210 TTTTCTAAAATCACTTTTTGATCCCTAAAC
1 TTTT-TAAAATTACATTTTGA-CCCCAAAA
* * *
240 TTTTCCAAAATTACATTTTAACCCCTAAAC
1 TTTT-TAAAATTACATTTTGACCCC-AAAA
** * *
270 TTCTCCAAAATTACATTTTGACTCCTAAAC
1 TT-TTTAAAATTACATTTTGAC-CCCAAAA
* * *
300 TTCTTTAAAATCACATTTTGACCCTAAAC
1 TT-TTTAAAATTACATTTTGACCCCAAAA
329 TTTTCTAAAATTA
1 TTTT-TAAAATTA
342 TGTTTTAACC
Statistics
Matches: 200, Mismatches: 41, Indels: 18
0.77 0.16 0.07
Matches are distributed among these distances:
28 16 0.08
29 51 0.25
30 116 0.58
31 17 0.09
ACGTcount: A:0.35, C:0.22, G:0.03, T:0.40
Consensus pattern (28 bp):
TTTTTAAAATTACATTTTGACCCCAAAA
Found at i:138 original size:59 final size:58
Alignment explanation
Indices: 60--353 Score: 245
Period size: 60 Copynumber: 5.0 Consensus size: 58
50 TTTTCCTTCG
* *
60 AACTTTTTAAAATCACATTTTGACCCCAAACTTTTTTAAAATTATATTTTGACCTCTA
1 AACTTTTTAAAATTACATTTTGACCCCAAACTTTTCTAAAATTATATTTTGACCTCTA
* * * * * * * *
118 AAATTTTGTAAAATTACATTTTGATCCTAAAC-TTCCCAAAATTACATTTTTACCCTCCA
1 AACTTTT-TAAAATTACATTTTGACCCCAAACTTTTCTAAAATTATATTTTGA-CCTCTA
* * * * * *
177 AACTTTTCAAAAATTACATTCTAATCGCCAAAATTTTCTAAAATCACT-TTTTGATCC-CTA
1 AACTTTT-TAAAATTACATTTTGA-CCCCAAACTTTTCTAAAATTA-TATTTTGA-CCTCTA
* * * * *
237 AACTTTTCCAAAATTACATTTTAACCCCTAAACTTCTCCAAAATTACATTTTGA-CTCCTA
1 AACTTTT-TAAAATTACATTTTGACCCC-AAACTTTTCTAAAATTATATTTTGACCT-CTA
* * * *
297 AACTTCTTTAAAATCACATTTTGACCCTAAACTTTTCTAAAATTATGTTTTAACCTC
1 AACTT-TTTAAAATTACATTTTGACCCCAAACTTTTCTAAAATTATATTTTGACCTC
354 GAATTCTCTG
Statistics
Matches: 182, Mismatches: 43, Indels: 21
0.74 0.17 0.09
Matches are distributed among these distances:
58 22 0.12
59 69 0.38
60 73 0.40
61 18 0.10
ACGTcount: A:0.35, C:0.22, G:0.03, T:0.40
Consensus pattern (58 bp):
AACTTTTTAAAATTACATTTTGACCCCAAACTTTTCTAAAATTATATTTTGACCTCTA
Found at i:281 original size:90 final size:90
Alignment explanation
Indices: 117--351 Score: 273
Period size: 89 Copynumber: 2.6 Consensus size: 90
107 TTTGACCTCT
* * *
117 AAAATTTTGTAAAATTACATTTTGAT-CCTAAAC-TTCCCAAAATTACATTTTTACCCTCCAAAC
1 AAAATTTT-TAAAATCACATTTTGATCCCTAAACTTTTCCAAAATTACATTTTAACCCTCCAAAC
*
180 TTTTCAAAAATTACATTCT-AATCGCC
65 TTCTCAAAAATTACATTCTGAATC-CC
* *
206 AAAATTTTCTAAAATCACTTTTTGATCCCTAAACTTTTCCAAAATTACATTTTAACCC-CTAAAC
1 AAAATTTT-TAAAATCACATTTTGATCCCTAAACTTTTCCAAAATTACATTTTAACCCTCCAAAC
* * * *
270 TTCTCCAAAATTACATTTTGACTCCT
65 TTCTCAAAAATTACATTCTGAATCCC
* * **
296 AAACTTCTTTAAAATCACATTTTGA-CCCTAAACTTTTCTAAAATTATGTTTTAACC
1 AAAATT-TTTAAAATCACATTTTGATCCCTAAACTTTTCCAAAATTACATTTTAACC
352 TCGAATTCTC
Statistics
Matches: 126, Mismatches: 16, Indels: 8
0.84 0.11 0.05
Matches are distributed among these distances:
89 51 0.40
90 49 0.39
91 26 0.21
ACGTcount: A:0.36, C:0.23, G:0.03, T:0.39
Consensus pattern (90 bp):
AAAATTTTTAAAATCACATTTTGATCCCTAAACTTTTCCAAAATTACATTTTAACCCTCCAAACT
TCTCAAAAATTACATTCTGAATCCC
Found at i:6690 original size:70 final size:71
Alignment explanation
Indices: 6583--6717 Score: 184
Period size: 70 Copynumber: 1.9 Consensus size: 71
6573 GTGAAACAAG
* * * *
6583 AAAAATCTGAGGGGTTGCCTATAATAAATTATATTTTGT-CAGAGTTTATTGTCAAATAAACATG
1 AAAAATCTGAGGGGTTGCCTATAACAAACTATATTTTGTACAGAGTTGATTATCAAATAAACATG
6647 AAGGAA
66 AAGGAA
* *
6653 AAAAATCTGA-GGGTTGCCTATAAACAAACTGTGTTTTGTAACAGAGTTGATTATCAAATAAACA
1 AAAAATCTGAGGGGTTGCCTAT-AACAAACTATATTTTGT-ACAGAGTTGATTATCAAATAAACA
6717 T
64 T
6718 AAATGAAATT
Statistics
Matches: 56, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
69 11 0.20
70 23 0.41
72 22 0.39
ACGTcount: A:0.40, C:0.10, G:0.18, T:0.32
Consensus pattern (71 bp):
AAAAATCTGAGGGGTTGCCTATAACAAACTATATTTTGTACAGAGTTGATTATCAAATAAACATG
AAGGAA
Found at i:12746 original size:4 final size:4
Alignment explanation
Indices: 12732--12821 Score: 60
Period size: 4 Copynumber: 22.5 Consensus size: 4
12722 CAAATAAACG
* * *
12732 AGAA GGAA AGAA AGAAA AGAA AGAA AGAAA AGAA AGAA AG-A AGGA AGGA
1 AGAA AGAA AGAA AG-AA AGAA AGAA AG-AA AGAA AGAA AGAA AGAA AGAA
* * * * *
12781 AG-A AGGA AGAA TGAGA GGAA AGAA AG-A AGAA GGAG AGAA AG
1 AGAA AGAA AGAA AGA-A AGAA AGAA AGAA AGAA AGAA AGAA AG
12822 GTAATGTATT
Statistics
Matches: 70, Mismatches: 10, Indels: 12
0.76 0.11 0.13
Matches are distributed among these distances:
3 9 0.13
4 50 0.71
5 11 0.16
ACGTcount: A:0.64, C:0.00, G:0.34, T:0.01
Consensus pattern (4 bp):
AGAA
Found at i:12755 original size:13 final size:13
Alignment explanation
Indices: 12737--12773 Score: 74
Period size: 13 Copynumber: 2.8 Consensus size: 13
12727 AAACGAGAAG
12737 GAAAGAAAGAAAA
1 GAAAGAAAGAAAA
12750 GAAAGAAAGAAAA
1 GAAAGAAAGAAAA
12763 GAAAGAAAGAA
1 GAAAGAAAGAA
12774 GGAAGGAAGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (13 bp):
GAAAGAAAGAAAA
Found at i:12757 original size:17 final size:17
Alignment explanation
Indices: 12732--12808 Score: 66
Period size: 17 Copynumber: 4.5 Consensus size: 17
12722 CAAATAAACG
*
12732 AGAAGGAAAGAAAGAAA
1 AGAAAGAAAGAAAGAAA
12749 AGAAAGAAAGAAA-AGAA
1 AGAAAGAAAGAAAGA-AA
* *
12766 AGAAAGAAGGAAGGAAGA
1 AGAAAGAAAGAAAGAA-A
* * * *
12784 AGGAAGAATGAGAGGAA
1 AGAAAGAAAGAAAGAAA
12801 AGAAAGAA
1 AGAAAGAA
12809 GAAGGAGAGA
Statistics
Matches: 48, Mismatches: 9, Indels: 6
0.76 0.14 0.10
Matches are distributed among these distances:
16 1 0.02
17 34 0.71
18 13 0.27
ACGTcount: A:0.66, C:0.00, G:0.32, T:0.01
Consensus pattern (17 bp):
AGAAAGAAAGAAAGAAA
Found at i:16276 original size:45 final size:45
Alignment explanation
Indices: 16210--16346 Score: 202
Period size: 45 Copynumber: 3.0 Consensus size: 45
16200 GAGACGAGTA
* *
16210 GAGTATTGCGGTGGCTCGTCAAACTGAGCCTAATATCTTTGGCTT
1 GAGTATTGCGGTGGCTCGTCAAACTGAGCCTGATATCCTTGGCTT
* * * *
16255 GAGTATTGCGATGACTTGTCAAACTGAGCCTGATATCCTTGGTTT
1 GAGTATTGCGGTGGCTCGTCAAACTGAGCCTGATATCCTTGGCTT
* *
16300 GAGTATTGCGGTGGCTCATCAAACTGAGTCTGATATCCTTGGCTT
1 GAGTATTGCGGTGGCTCGTCAAACTGAGCCTGATATCCTTGGCTT
16345 GA
1 GA
16347 TGAGCTAGGG
Statistics
Matches: 80, Mismatches: 12, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
45 80 1.00
ACGTcount: A:0.21, C:0.19, G:0.26, T:0.34
Consensus pattern (45 bp):
GAGTATTGCGGTGGCTCGTCAAACTGAGCCTGATATCCTTGGCTT
Found at i:18293 original size:16 final size:16
Alignment explanation
Indices: 18272--18321 Score: 61
Period size: 16 Copynumber: 3.2 Consensus size: 16
18262 TCATAGAGAT
18272 ATTATTTTGGTAATTA
1 ATTATTTTGGTAATTA
*
18288 ATTATTTT-TTATATT-
1 ATTATTTTGGTA-ATTA
18303 A-TATTTTGGTAATTA
1 ATTATTTTGGTAATTA
18318 ATTA
1 ATTA
18322 GTTAGGTTTA
Statistics
Matches: 28, Mismatches: 2, Indels: 8
0.74 0.05 0.21
Matches are distributed among these distances:
14 9 0.32
15 6 0.21
16 13 0.46
ACGTcount: A:0.32, C:0.00, G:0.08, T:0.60
Consensus pattern (16 bp):
ATTATTTTGGTAATTA
Found at i:19006 original size:21 final size:20
Alignment explanation
Indices: 18977--19019 Score: 59
Period size: 21 Copynumber: 2.1 Consensus size: 20
18967 TCTTACTTGC
*
18977 TACTACTAACTAAATAAAAT
1 TACTACTAACAAAATAAAAT
*
18997 TACTAACTAACAAAATTAAAT
1 TACT-ACTAACAAAATAAAAT
19018 TA
1 TA
19020 AAGTAAATTA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 4 0.20
21 16 0.80
ACGTcount: A:0.56, C:0.14, G:0.00, T:0.30
Consensus pattern (20 bp):
TACTACTAACAAAATAAAAT
Found at i:19119 original size:23 final size:22
Alignment explanation
Indices: 19093--19170 Score: 59
Period size: 23 Copynumber: 3.3 Consensus size: 22
19083 CTATAACAAC
19093 ATTAAATAATAAATCAATTAAAA
1 ATTAAATAATAAATCAA-TAAAA
* *
19116 ATTAAATTAAACAAAACAA-AAAA
1 ATTAAA-T-AATAAATCAATAAAA
*
19139 ATTAAAATAATCAAATTAACTAACAA
1 ATT-AAATAAT-AAATCAA-TAA-AA
19165 ATTAAA
1 ATTAAA
19171 ATATTTTAAA
Statistics
Matches: 43, Mismatches: 5, Indels: 12
0.72 0.08 0.20
Matches are distributed among these distances:
22 2 0.05
23 19 0.44
24 4 0.09
25 13 0.30
26 5 0.12
ACGTcount: A:0.67, C:0.08, G:0.00, T:0.26
Consensus pattern (22 bp):
ATTAAATAATAAATCAATAAAA
Found at i:19413 original size:11 final size:11
Alignment explanation
Indices: 19391--19428 Score: 67
Period size: 11 Copynumber: 3.4 Consensus size: 11
19381 TTCTTCCTTC
19391 TTTCTTTCTTTT
1 TTTCTTT-TTTT
19403 TTTCTTTTTTT
1 TTTCTTTTTTT
19414 TTTCTTTTTTT
1 TTTCTTTTTTT
19425 TTTC
1 TTTC
19429 CTTCTTCTCA
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
11 19 0.73
12 7 0.27
ACGTcount: A:0.00, C:0.13, G:0.00, T:0.87
Consensus pattern (11 bp):
TTTCTTTTTTT
Found at i:20124 original size:25 final size:23
Alignment explanation
Indices: 20087--20137 Score: 57
Period size: 25 Copynumber: 2.1 Consensus size: 23
20077 GCCAACAAAA
*
20087 AATATCATCAAATATTATAATATTT
1 AATATCATCAAATA-CAT-ATATTT
* *
20112 AATATTATTAAATACATATATTT
1 AATATCATCAAATACATATATTT
20135 AAT
1 AAT
20138 TATTTATATG
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
23 9 0.39
24 2 0.09
25 12 0.52
ACGTcount: A:0.49, C:0.06, G:0.00, T:0.45
Consensus pattern (23 bp):
AATATCATCAAATACATATATTT
Found at i:24277 original size:18 final size:18
Alignment explanation
Indices: 24254--24291 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
24244 CAAACACCAC
24254 TTGATTGTCCTTTGTAAA
1 TTGATTGTCCTTTGTAAA
24272 TTGATTGTCCTTTGTAAA
1 TTGATTGTCCTTTGTAAA
24290 TT
1 TT
24292 TTGAAACAGA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.21, C:0.11, G:0.16, T:0.53
Consensus pattern (18 bp):
TTGATTGTCCTTTGTAAA
Found at i:26811 original size:6 final size:6
Alignment explanation
Indices: 26786--26824 Score: 51
Period size: 6 Copynumber: 6.5 Consensus size: 6
26776 ACAATTCATA
* * *
26786 TCACTT TCAATT CCAATT TCACTT TCACTT TCACTT TCA
1 TCACTT TCACTT TCACTT TCACTT TCACTT TCACTT TCA
26825 ATTTTGATCA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.23, C:0.31, G:0.00, T:0.46
Consensus pattern (6 bp):
TCACTT
Found at i:30435 original size:8 final size:9
Alignment explanation
Indices: 30412--30438 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
30402 TTAATTGCTT
30412 TTAAAAATA
1 TTAAAAATA
30421 TTAAAAATA
1 TTAAAAATA
30430 TTAAAAATA
1 TTAAAAATA
30439 AGTAGCAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (9 bp):
TTAAAAATA
Found at i:30855 original size:26 final size:27
Alignment explanation
Indices: 30826--30876 Score: 70
Period size: 26 Copynumber: 1.9 Consensus size: 27
30816 AAAAAAAAAT
*
30826 TAAAATTCT-ATAAATTAAA-AAATACA
1 TAAAATTATAATAAA-TAAATAAATACA
30852 TAAAATTATAATAAATAAATAAATA
1 TAAAATTATAATAAATAAATAAATA
30877 ATATAATAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
26 12 0.55
27 10 0.45
ACGTcount: A:0.65, C:0.04, G:0.00, T:0.31
Consensus pattern (27 bp):
TAAAATTATAATAAATAAATAAATACA
Found at i:30885 original size:23 final size:22
Alignment explanation
Indices: 30841--30885 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 22
30831 TTCTATAAAT
* *
30841 TAAAAAATACATAAAATTATAA
1 TAAAAAATAAATAAAATAATAA
*
30863 TAAATAAATAAATAATATAATAA
1 TAAA-AAATAAATAAAATAATAA
30886 ATGAAAACAT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
22 4 0.21
23 15 0.79
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.29
Consensus pattern (22 bp):
TAAAAAATAAATAAAATAATAA
Found at i:32524 original size:14 final size:14
Alignment explanation
Indices: 32505--32531 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
32495 CCCTTATATA
32505 TTATATATTTTTCG
1 TTATATATTTTTCG
32519 TTATATATTTTTC
1 TTATATATTTTTC
32532 TTTTTTTTTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.22, C:0.07, G:0.04, T:0.67
Consensus pattern (14 bp):
TTATATATTTTTCG
Found at i:34663 original size:13 final size:14
Alignment explanation
Indices: 34635--34669 Score: 54
Period size: 13 Copynumber: 2.6 Consensus size: 14
34625 ATAACAAGTA
*
34635 TTTTATCTTTTCTT
1 TTTTTTCTTTTCTT
34649 TTTTTTCTTTT-TT
1 TTTTTTCTTTTCTT
34662 TTTTTTCT
1 TTTTTTCT
34670 ATGAGCAAGT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
13 10 0.50
14 10 0.50
ACGTcount: A:0.03, C:0.11, G:0.00, T:0.86
Consensus pattern (14 bp):
TTTTTTCTTTTCTT
Found at i:41420 original size:31 final size:31
Alignment explanation
Indices: 41345--41421 Score: 91
Period size: 31 Copynumber: 2.5 Consensus size: 31
41335 AATATAACAT
* * * *
41345 TTGGTACCTGAACGTGATACTTTTTCTTAAT
1 TTGGTACCTAAACTTGACACTTTTTCTTAAG
* *
41376 TTGATACCTAAACTTGACACTTTTTTTTAAG
1 TTGGTACCTAAACTTGACACTTTTTCTTAAG
*
41407 TTGGTACTTAAACTT
1 TTGGTACCTAAACTT
41422 TTTGAGGTCC
Statistics
Matches: 38, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
31 38 1.00
ACGTcount: A:0.26, C:0.16, G:0.13, T:0.45
Consensus pattern (31 bp):
TTGGTACCTAAACTTGACACTTTTTCTTAAG
Found at i:41662 original size:30 final size:29
Alignment explanation
Indices: 41626--41729 Score: 122
Period size: 30 Copynumber: 3.5 Consensus size: 29
41616 ATTTAATAAA
41626 TTTAGGTACCAAATTGAATCTAAAAAAAAG
1 TTTAGGTACCAAATTGAATC-AAAAAAAAG
**
41656 TTTAGGTACCAAATTAGAA--AAAATGCTAAG
1 TTTAGGTACCAAATT-GAATCAAAA--AAAAG
* *
41686 TTCAGGTACCAAATTGAATCCAAAAAAAG
1 TTTAGGTACCAAATTGAATCAAAAAAAAG
41715 TTTAGGTACCAAATT
1 TTTAGGTACCAAATT
41730 AAAAAAAATA
Statistics
Matches: 62, Mismatches: 7, Indels: 11
0.77 0.09 0.14
Matches are distributed among these distances:
28 4 0.06
29 20 0.32
30 32 0.52
31 6 0.10
ACGTcount: A:0.46, C:0.12, G:0.14, T:0.27
Consensus pattern (29 bp):
TTTAGGTACCAAATTGAATCAAAAAAAAG
Found at i:41737 original size:60 final size:57
Alignment explanation
Indices: 41629--41798 Score: 193
Period size: 59 Copynumber: 2.9 Consensus size: 57
41619 TAATAAATTT
* *
41629 AGGTACCAAATTGAATCTAAAAAAAAGTTTAGGTACCAAATT-AGAAAAAATGCTAAGTTC
1 AGGTACCAAATTGAATC--AAAAAAAGTTTAGGTACCAAATTAAAAAAAAAT-C-AAGCTC
41689 AGGTACCAAATTGAATCCAAAAAAAGTTTAGGTACCAAATTAAAAAAAATATCAAGCTC
1 AGGTACCAAATTGAAT-CAAAAAAAGTTTAGGTACCAAATTAAAAAAAA-ATCAAGCTC
** * ** *
41748 AAATACCAAATTAAAT-AAAAAAA-TTTAAATACTAAATTAAAAAAAAATCAA
1 AGGTACCAAATTGAATCAAAAAAAGTTTAGGTACCAAATTAAAAAAAAATCAA
41799 ATTTAAATAT
Statistics
Matches: 99, Mismatches: 8, Indels: 11
0.84 0.07 0.09
Matches are distributed among these distances:
55 5 0.05
56 20 0.20
57 7 0.07
59 41 0.41
60 23 0.23
61 3 0.03
ACGTcount: A:0.55, C:0.12, G:0.09, T:0.24
Consensus pattern (57 bp):
AGGTACCAAATTGAATCAAAAAAAGTTTAGGTACCAAATTAAAAAAAAATCAAGCTC
Found at i:41778 original size:26 final size:28
Alignment explanation
Indices: 41721--41813 Score: 91
Period size: 29 Copynumber: 3.3 Consensus size: 28
41711 AAAGTTTAGG
** *
41721 TACCAAATTAAAAAAAATATCAAGCTCAAA
1 TACCAAATTAAAAAAAA-A-CAAATTTAAA
*
41751 TACCAAATT-AAATAAAA-AAATTTAAA
1 TACCAAATTAAAAAAAAACAAATTTAAA
*
41777 TACTAAATTAAAAAAAAATCAAATTTAAA
1 TACCAAATTAAAAAAAAA-CAAATTTAAA
*
41806 TATCAAAT
1 TACCAAAT
41814 ATTATATTAA
Statistics
Matches: 52, Mismatches: 8, Indels: 7
0.78 0.12 0.10
Matches are distributed among these distances:
26 14 0.27
27 7 0.13
28 1 0.02
29 21 0.40
30 9 0.17
ACGTcount: A:0.62, C:0.11, G:0.01, T:0.26
Consensus pattern (28 bp):
TACCAAATTAAAAAAAAACAAATTTAAA
Done.