Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01009518.1 Kokia drynarioides strain JFW-HI SEQ_124229, 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: 26738
ACGTcount: A:0.34, C:0.16, G:0.15, T:0.35
Warning! 1 characters in sequence are not A, C, G, or T
Found at i:760 original size:17 final size:16
Alignment explanation
Indices: 723--787 Score: 67
Period size: 17 Copynumber: 3.9 Consensus size: 16
713 AAATAAATTT
*
723 TAAATTTAAATTTCAAC
1 TAAATTTAAATTT-AAA
740 TAAATTTAAATTTAGAA
1 TAAATTTAAATTTA-AA
* *
757 TAAACTTAATTTTAAAA
1 TAAATTTAAATTT-AAA
*
774 TAAATTTAAGTTTA
1 TAAATTTAAATTTA
788 TTGGGCCCAG
Statistics
Matches: 41, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
16 2 0.05
17 38 0.93
18 1 0.02
ACGTcount: A:0.49, C:0.05, G:0.03, T:0.43
Consensus pattern (16 bp):
TAAATTTAAATTTAAA
Found at i:770 original size:23 final size:22
Alignment explanation
Indices: 718--772 Score: 58
Period size: 23 Copynumber: 2.4 Consensus size: 22
708 ATTTAAAATA
*
718 AATTTTAAATTTAAATTTCAACT
1 AATTTTAAATTTAAA-TTAAACT
*
741 AAATTTAAATTTAGAA-TAAACTT
1 AATTTTAAATTTA-AATTAAAC-T
764 AATTTTAAA
1 AATTTTAAA
773 ATAAATTTAA
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
22 4 0.15
23 21 0.78
24 2 0.07
ACGTcount: A:0.49, C:0.05, G:0.02, T:0.44
Consensus pattern (22 bp):
AATTTTAAATTTAAATTAAACT
Found at i:6452 original size:18 final size:17
Alignment explanation
Indices: 6429--6462 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
6419 ATCTCTTAAC
6429 AAAAATTACAAAATAATA
1 AAAAATT-CAAAATAATA
*
6447 AAAAATTTAAAATAAT
1 AAAAATTCAAAATAAT
6463 TTTTAAATTC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.71, C:0.03, G:0.00, T:0.26
Consensus pattern (17 bp):
AAAAATTCAAAATAATA
Found at i:6497 original size:27 final size:27
Alignment explanation
Indices: 6446--6498 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 27
6436 ACAAAATAAT
* *
6446 AAAAAATTTAAAATAATTTTTAAATTC
1 AAAAAATTTAAAATAATTCTAAAATTC
* *
6473 AAAATATTTATAATAATTCTAAAATT
1 AAAAAATTTAAAATAATTCTAAAATT
6499 TGTAATTTTA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.55, C:0.04, G:0.00, T:0.42
Consensus pattern (27 bp):
AAAAAATTTAAAATAATTCTAAAATTC
Found at i:6540 original size:9 final size:9
Alignment explanation
Indices: 6524--6628 Score: 105
Period size: 9 Copynumber: 12.1 Consensus size: 9
6514 ATTATATATT
6524 TTTAAAAAA
1 TTTAAAAAA
*
6533 TCTAAAAAA
1 TTTAAAAAA
6542 TATATAAAAAA
1 T-T-TAAAAAA
6553 -TT--AAAA
1 TTTAAAAAA
6559 TTTAAAAAA
1 TTTAAAAAA
6568 TTTAAAAAA
1 TTTAAAAAA
6577 TTT-AAAAA
1 TTTAAAAAA
*
6585 TTT-AAGAA
1 TTTAAAAAA
6593 TTTAAAAAA
1 TTTAAAAAA
*
6602 TTT-AAGAA
1 TTTAAAAAA
*
6610 TTTAAAAAT
1 TTTAAAAAA
*
6619 TTTATAAAA
1 TTTAAAAAA
6628 T
1 T
6629 AATCATTTTG
Statistics
Matches: 80, Mismatches: 9, Indels: 14
0.78 0.09 0.14
Matches are distributed among these distances:
6 4 0.05
7 2 0.03
8 23 0.29
9 44 0.55
11 7 0.09
ACGTcount: A:0.62, C:0.01, G:0.02, T:0.35
Consensus pattern (9 bp):
TTTAAAAAA
Found at i:6567 original size:17 final size:17
Alignment explanation
Indices: 6546--6622 Score: 106
Period size: 17 Copynumber: 4.6 Consensus size: 17
6536 AAAAAATATA
6546 TAAAAAA-TTAA-AATT
1 TAAAAAATTTAAGAATT
*
6561 TAAAAAATTTAAAAAATT
1 TAAAAAATTT-AAGAATT
6579 T-AAAAATTTAAGAATT
1 TAAAAAATTTAAGAATT
6595 TAAAAAATTTAAGAATT
1 TAAAAAATTTAAGAATT
*
6612 TAAAAATTTTA
1 TAAAAAATTTA
6623 TAAAATAATC
Statistics
Matches: 56, Mismatches: 2, Indels: 6
0.88 0.03 0.09
Matches are distributed among these distances:
15 7 0.12
16 9 0.16
17 35 0.62
18 5 0.09
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.36
Consensus pattern (17 bp):
TAAAAAATTTAAGAATT
Found at i:6575 original size:25 final size:25
Alignment explanation
Indices: 6529--6628 Score: 114
Period size: 26 Copynumber: 3.9 Consensus size: 25
6519 ATATTTTTAA
*
6529 AAAATCTAAAAAATATATAAAAAA-TT
1 AAAATTTAAAAAAT-T-TAAAAAATTT
6555 AAAATTTAAAAAATTTAAAAAATTT
1 AAAATTTAAAAAATTTAAAAAATTT
*
6580 AAAAATTT-AAGAATTTAAAAAATTT
1 -AAAATTTAAAAAATTTAAAAAATTT
* *
6605 AAGAATTTAAAAATTTTATAAAAT
1 AA-AATTTAAAAAATTTAAAAAAT
6629 AATCATTTTG
Statistics
Matches: 65, Mismatches: 5, Indels: 8
0.83 0.06 0.10
Matches are distributed among these distances:
24 9 0.14
25 24 0.37
26 32 0.49
ACGTcount: A:0.63, C:0.01, G:0.02, T:0.34
Consensus pattern (25 bp):
AAAATTTAAAAAATTTAAAAAATTT
Found at i:6620 original size:8 final size:8
Alignment explanation
Indices: 6546--6620 Score: 89
Period size: 8 Copynumber: 9.1 Consensus size: 8
6536 AAAAAATATA
*
6546 TAAAAAAT
1 TAAAAATT
6554 T-AAAATT
1 TAAAAATT
6561 TAAAAAATT
1 T-AAAAATT
6570 TAAAAAATT
1 T-AAAAATT
6579 TAAAAATT
1 TAAAAATT
*
6587 TAAGAATT
1 TAAAAATT
6595 TAAAAAATT
1 T-AAAAATT
*
6604 TAAGAATT
1 TAAAAATT
6612 TAAAAATT
1 TAAAAATT
6620 T
1 T
6621 TATAAAATAA
Statistics
Matches: 59, Mismatches: 5, Indels: 6
0.84 0.07 0.09
Matches are distributed among these distances:
7 6 0.10
8 30 0.51
9 23 0.39
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.36
Consensus pattern (8 bp):
TAAAAATT
Found at i:11736 original size:19 final size:20
Alignment explanation
Indices: 11700--11738 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
11690 AAAGTTTGTA
11700 ACAAAAAATAATAATTTAAAG
1 ACAAAAAATAAT-ATTTAAAG
*
11721 ACAAAAAGTAAT-TTTAAA
1 ACAAAAAATAATATTTAAA
11739 AAAAACTAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 6 0.35
21 11 0.65
ACGTcount: A:0.64, C:0.05, G:0.05, T:0.26
Consensus pattern (20 bp):
ACAAAAAATAATATTTAAAG
Found at i:13133 original size:40 final size:40
Alignment explanation
Indices: 13045--13120 Score: 143
Period size: 40 Copynumber: 1.9 Consensus size: 40
13035 GTTTAATAGT
*
13045 GTTCACAGTATCACGACTAGTACAGTAACAATGTTGCAAC
1 GTTCACAGTATCACGACTAGTACAATAACAATGTTGCAAC
13085 GTTCACAGTATCACGACTAGTACAATAACAATGTTG
1 GTTCACAGTATCACGACTAGTACAATAACAATGTTG
13121 TAGCGTTTAC
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
40 35 1.00
ACGTcount: A:0.36, C:0.21, G:0.17, T:0.26
Consensus pattern (40 bp):
GTTCACAGTATCACGACTAGTACAATAACAATGTTGCAAC
Found at i:16000 original size:28 final size:27
Alignment explanation
Indices: 15976--16027 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
15966 TTCATATAAC
15976 TTTATT-TTTTTTATG-TATTTTATATA
1 TTTATTATTTTTTATGCTA-TTTATATA
*
16002 TTTTTTATTTTTTATGCTATTTATAT
1 TTTATTATTTTTTATGCTATTTATAT
16028 CTTTGCTTTA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
26 5 0.22
27 16 0.70
28 2 0.09
ACGTcount: A:0.21, C:0.02, G:0.04, T:0.73
Consensus pattern (27 bp):
TTTATTATTTTTTATGCTATTTATATA
Found at i:16189 original size:22 final size:22
Alignment explanation
Indices: 16162--16231 Score: 70
Period size: 22 Copynumber: 3.0 Consensus size: 22
16152 TATGATTATA
16162 TTATTATTTAATTTATTACTAT
1 TTATTATTTAATTTATTACTAT
* * *
16184 TTATTATTTTATTGTGTTATTAAT
1 TTATTATTTAATT-TATTACT-AT
16208 TGTATTCATTTAATTTATT-CTAT
1 T-TATT-ATTTAATTTATTACTAT
16231 T
1 T
16232 CATGCATGTT
Statistics
Matches: 38, Mismatches: 6, Indels: 7
0.75 0.12 0.14
Matches are distributed among these distances:
22 12 0.32
23 8 0.21
24 4 0.11
25 7 0.18
26 7 0.18
ACGTcount: A:0.27, C:0.04, G:0.04, T:0.64
Consensus pattern (22 bp):
TTATTATTTAATTTATTACTAT
Found at i:17192 original size:650 final size:652
Alignment explanation
Indices: 16198--17473 Score: 1956
Period size: 650 Copynumber: 2.0 Consensus size: 652
16188 TATTTTATTG
*
16198 TGTTATTAATTGTATTCATTTAATTTATTCTATTCATGCATGTTTTTATTTTGCCATTATAATTA
1 TGTTATTAAATGTATTCATTTAATTTATTCTATTCATGCATGTTTTTATTTTGCCATTATAATTA
* *
16263 TAAATTATGTACATATTTATTTATTTTTACATGACATTTTAATTCTTTTAAAATACATAAATTGT
66 TAAATTATGTACATATTTATTTATTTTTACACGACATTTTAATTCTTTTAAAATACATAAACTGT
* * * *
16328 CTTAAAAAATTGAGACAATGTTCTTTATTTTTGAAATTCGAGAGGATCATGCCCTAGCTCATTGG
131 CTTAAAAAATCGAGACAATGTTCTTTATTTTAGAAATTCGAGAGGATCATGCCCTAACTCACTGG
* ** *
16393 GTGTGGTTTTTTTTTTTTTTTTGAACCAAGATAATTGGATACTTTATTTAAAATTAAAATATATG
196 GTGTGG-----TTTTTTTCTTTGAACCAAGATAATTGGATACCCTATTTAAAATTAAAATATACG
*
16458 AGATTTTGGGATAATATTTAGAAATGCTTGTCATCTTCGAAAATTCAAATTGTTGTGTCCTAACT
256 AGATTTTGGGATAATATTTAGAAATGCTTGTCATCTTCGAAAATTCAAATTATTGTGTCCTAACT
*
16523 TACTAGATGTGACTTTTCTTCTCGATTAACTCAAAATAACGAGCTTTCTTCGTAAAATTTAATGT
321 TACTAGATGTGACTTTTCTTCTCGATTAACTCAAAATAACGAGCTTTCTTCATAAAATTTAATGT
* * * *
16588 TTTAAACATCATTGAAACATGTCATTCATGCACCTAAGGATCACAATTTAAATTTTTCTTGAGTT
386 TTTAAACAACATTAAAACATGTCATTCATACACCTAAAGATCACAATTTAAATTTTTCTTGAG-T
16653 TTTTTATTTTCAACAATTAAGACGTTAAATAATCGATTAAGTACCAATTCTGGGCATGTGAGGGT
450 TTTTTATTTTCAACAATTAAGACGTTAAATAATCGATTAAGTACCAATTCTGGGCATGTGAGGGT
*
16718 GCTAATCCTTCCTCATGTATAA-CAGAC-TCTCAAACCCGTTTTATGGTTTCAAAGACCAAAATT
515 GCTAATCATTCCTCATGTATAATC-GACTTC-CAAACCCGTTTTATGGTTTCAAAGACCAAAATT
16781 ATTGTTGATGATATTTAAAAGATGATCCAATCACACCTATTTTATTACAATTTATTATTTTATTG
578 ATTGTTGATGATATTTAAAAGATGATCCAATCACACCTATTTTATTACAATTTATTATTTTATTG
16846 TGTTATTAAT
643 TGTTATTAAT
* * *
16856 TGTTATTAAATGTATTCATTTAATTTATTCTATTCATGCTTGTTTTTATTTTGCCATTGTAATTG
1 TGTTATTAAATGTATTCATTTAATTTATTCTATTCATGCATGTTTTTATTTTGCCATTATAATTA
* * * *
16921 TAAATTATTTACATA-TTATTTATTTTTGCACGACATTTTAATTATTTTTTAAATACATAAACTG
66 TAAATTATGTACATATTTATTTATTTTTACACGACATTTTAATT-CTTTTAAAATACATAAACTG
* * *
16985 TTTTAAAAAATCGAGGCAAT-TTTTTTATTTCTAG-AATTCGAGAGGATCATGCCCTAACTCACT
130 TCTTAAAAAATCGAGACAATGTTCTTTATTT-TAGAAATTCGAGAGGATCATGCCCTAACTCACT
* * *
17048 GGGTGTGG-TTTTTTCTTTGAATCGAGATAATT-GATACCCTATTTAAAATTGAAATATACGAGA
194 GGGTGTGGTTTTTTTCTTTGAACCAAGATAATTGGATACCCTATTTAAAATTAAAATATACGAGA
* *
17111 TTTTGGGATAAT-TGTTAGAAATGCTTGTTATTTTCGAAAATTCAAATTATTGTGTCCTAACTTA
259 TTTTGGGATAATAT-TTAGAAATGCTTGTCATCTTCGAAAATTCAAATTATTGTGTCCTAACTTA
* *
17175 CTAGATGTGACTTTTCTTCTCGATTAACTCGAAATAACGAGCTTTCTTCATAAAATTTAATTTTT
323 CTAGATGTGACTTTTCTTCTCGATTAACTCAAAATAACGAGCTTTCTTCATAAAATTTAATGTTT
** *
17240 TAAACAACATTAAAACATGTCATTCATACATTTAAAGATCGCAATTTAAATTTTTCTTGAGTTTT
388 TAAACAACATTAAAACATGTCATTCATACACCTAAAGATCACAATTTAAATTTTTCTTGAGTTTT
* * *
17305 TTATTTTCAACAATTAAGACGTTAAATAATTGATTAGGTACCAATTTTGGGCATGTGAGGGTGCT
453 TTATTTTCAACAATTAAGACGTTAAATAATCGATTAAGTACCAATTCTGGGCATGTGAGGGTGCT
* * * * * * *
17370 AATTATTTCTCATGTGTAATCGACTTCCGAACCTGTTTTATTGTTTTAAAGACCAAAATTATTGT
518 AATCATTCCTCATGTATAATCGACTTCCAAACCCGTTTTATGGTTTCAAAGACCAAAATTATTGT
*
17435 TGATGATATTTAAAAGATGATCCAATCATACCTATTTTA
583 TGATGATATTTAAAAGATGATCCAATCACACCTATTTTA
17474 AAAATATTGG
Statistics
Matches: 564, Mismatches: 49, Indels: 19
0.89 0.08 0.03
Matches are distributed among these distances:
649 157 0.28
650 205 0.36
651 21 0.04
657 70 0.12
658 111 0.20
ACGTcount: A:0.32, C:0.13, G:0.13, T:0.43
Consensus pattern (652 bp):
TGTTATTAAATGTATTCATTTAATTTATTCTATTCATGCATGTTTTTATTTTGCCATTATAATTA
TAAATTATGTACATATTTATTTATTTTTACACGACATTTTAATTCTTTTAAAATACATAAACTGT
CTTAAAAAATCGAGACAATGTTCTTTATTTTAGAAATTCGAGAGGATCATGCCCTAACTCACTGG
GTGTGGTTTTTTTCTTTGAACCAAGATAATTGGATACCCTATTTAAAATTAAAATATACGAGATT
TTGGGATAATATTTAGAAATGCTTGTCATCTTCGAAAATTCAAATTATTGTGTCCTAACTTACTA
GATGTGACTTTTCTTCTCGATTAACTCAAAATAACGAGCTTTCTTCATAAAATTTAATGTTTTAA
ACAACATTAAAACATGTCATTCATACACCTAAAGATCACAATTTAAATTTTTCTTGAGTTTTTTA
TTTTCAACAATTAAGACGTTAAATAATCGATTAAGTACCAATTCTGGGCATGTGAGGGTGCTAAT
CATTCCTCATGTATAATCGACTTCCAAACCCGTTTTATGGTTTCAAAGACCAAAATTATTGTTGA
TGATATTTAAAAGATGATCCAATCACACCTATTTTATTACAATTTATTATTTTATTGTGTTATTA
AT
Found at i:18309 original size:27 final size:27
Alignment explanation
Indices: 18279--18335 Score: 80
Period size: 27 Copynumber: 2.1 Consensus size: 27
18269 TTCACCAATA
* *
18279 TGTT-GGCGAGCTAGGGGTTTGCTAGTT
1 TGTTCGGCAAGCT-GGGGTTCGCTAGTT
18306 TGTTCGGCAAGCTGGGGTTCGCTAGTT
1 TGTTCGGCAAGCTGGGGTTCGCTAGTT
18333 TGT
1 TGT
18336 GTGACAAACA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
27 20 0.74
28 7 0.26
ACGTcount: A:0.11, C:0.14, G:0.39, T:0.37
Consensus pattern (27 bp):
TGTTCGGCAAGCTGGGGTTCGCTAGTT
Found at i:20304 original size:5 final size:5
Alignment explanation
Indices: 20289--20363 Score: 57
Period size: 5 Copynumber: 15.6 Consensus size: 5
20279 TATATCAGAA
* * * * *
20289 CATAT CTTAT CATAT CAGAG CATA- C-TAT -AAAT CATAT CATAT TATAT
1 CATAT CATAT CATAT CATAT CATAT CATAT CATAT CATAT CATAT CATAT
* * *
20336 CATAT CATGT TATAT CATGT CATAT CAT
1 CATAT CATAT CATAT CATAT CATAT CAT
20364 GTTTTACCCT
Statistics
Matches: 52, Mismatches: 15, Indels: 6
0.71 0.21 0.08
Matches are distributed among these distances:
3 2 0.04
4 3 0.06
5 47 0.90
ACGTcount: A:0.37, C:0.17, G:0.05, T:0.40
Consensus pattern (5 bp):
CATAT
Found at i:20339 original size:15 final size:15
Alignment explanation
Indices: 20319--20360 Score: 66
Period size: 15 Copynumber: 2.8 Consensus size: 15
20309 CATACTATAA
20319 ATCATATCATATTAT
1 ATCATATCATATTAT
*
20334 ATCATATCATGTTAT
1 ATCATATCATATTAT
*
20349 ATCATGTCATAT
1 ATCATATCATAT
20361 CATGTTTTAC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.36, C:0.14, G:0.05, T:0.45
Consensus pattern (15 bp):
ATCATATCATATTAT
Found at i:22465 original size:218 final size:218
Alignment explanation
Indices: 22087--22524 Score: 858
Period size: 218 Copynumber: 2.0 Consensus size: 218
22077 AACTAAATTA
22087 AATTACTTAACATAATTTCACAATCTTAACTCAAAAATCTAAATATGACCACGTTGAGAATCATT
1 AATTACTTAACATAATTTCACAATCTTAACTCAAAAATCTAAATATGACCACGTTGAGAATCATT
22152 AACCTAATTTCTTCTAACCCGATTTTCGGGATGTGACAAATATGACCTTGCAAGATTTCAATGCG
66 AACCTAATTTCTTCTAACCCGATTTTCGGGATGTGACAAATATGACCTTGCAAGATTTCAATGCG
22217 AGTCCCCTATTAAAAAGAAAGTTTTCAAGAGAGGATTTATAAACATCATTTTTAAATTGTTTTCA
131 AGTCCCCTATTAAAAAGAAAGTTTTCAAGAGAGGATTTATAAACATCATTTTTAAATTGTTTTCA
*
22282 CAAAAATACGTTTTTCAGATGCG
196 CAAAAATACATTTTTCAGATGCG
22305 AATTACTTAACATAATTTCACAATCTTAACTCAAAAATCTAAATATGACCACGTTGAGAATCATT
1 AATTACTTAACATAATTTCACAATCTTAACTCAAAAATCTAAATATGACCACGTTGAGAATCATT
22370 AACCTAATTTCTTCTAACCCGATTTTCGGGATGTGACAAATATGACCTTGCAAGATTTCAATGCG
66 AACCTAATTTCTTCTAACCCGATTTTCGGGATGTGACAAATATGACCTTGCAAGATTTCAATGCG
*
22435 AGTCCCCTATTAAAAAGAAAGTTTTCAAGAGAGGATTTATAAACATCATTTTTAAATTTTTTTCA
131 AGTCCCCTATTAAAAAGAAAGTTTTCAAGAGAGGATTTATAAACATCATTTTTAAATTGTTTTCA
22500 CAAAAATACATTTTTCAGATGCG
196 CAAAAATACATTTTTCAGATGCG
22523 AA
1 AA
22525 CTGGGTCTTG
Statistics
Matches: 218, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
218 218 1.00
ACGTcount: A:0.37, C:0.17, G:0.12, T:0.34
Consensus pattern (218 bp):
AATTACTTAACATAATTTCACAATCTTAACTCAAAAATCTAAATATGACCACGTTGAGAATCATT
AACCTAATTTCTTCTAACCCGATTTTCGGGATGTGACAAATATGACCTTGCAAGATTTCAATGCG
AGTCCCCTATTAAAAAGAAAGTTTTCAAGAGAGGATTTATAAACATCATTTTTAAATTGTTTTCA
CAAAAATACATTTTTCAGATGCG
Found at i:25018 original size:39 final size:39
Alignment explanation
Indices: 24947--25034 Score: 104
Period size: 39 Copynumber: 2.3 Consensus size: 39
24937 TCGTACATAG
* * * *
24947 GGTTCGCATATAAGGTTTGCATACAAGTTTCACGTCTAC
1 GGTTTGCATATAAGGTTCGCATACAAGGTTCACATCTAC
** * *
24986 GGTTTGCATATAAGGTTCGCATACGGGGTTCACATTTAG
1 GGTTTGCATATAAGGTTCGCATACAAGGTTCACATCTAC
25025 GGTTTGCATA
1 GGTTTGCATA
25035 CGAGGTTCAC
Statistics
Matches: 41, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
39 41 1.00
ACGTcount: A:0.24, C:0.17, G:0.25, T:0.34
Consensus pattern (39 bp):
GGTTTGCATATAAGGTTCGCATACAAGGTTCACATCTAC
Done.