Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01011139.1 Kokia drynarioides strain JFW-HI SEQ_126112, 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: 36151
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.35
Found at i:576 original size:59 final size:59
Alignment explanation
Indices: 504--951 Score: 405
Period size: 59 Copynumber: 7.6 Consensus size: 59
494 CTAAACCTTT
* * * *
504 CAAAATTCTCATTTTAAAACCCGAACCTTTCAAAAATTACCA-TTTACCACTCGAACTTC
1 CAAAAATCCCATTTTTAACCCCGAACCTTTCAAAAATTACCATTTTACC-CTCGAACTTC
* * * *
563 CAAAAATCCCATTTTTAACCTCGAACCTTTTAAAAATCACCATTTTACCC-CTAAGCTTC
1 CAAAAATCCCATTTTTAACCCCGAACCTTTCAAAAATTACCATTTTACCCTCGAA-CTTC
* * * *
622 CAAAAATCCCATTTTTAACCCCGAACCTTCCAAAAAATACCATTTTACCCTTGAACTCC
1 CAAAAATCCCATTTTTAACCCCGAACCTTTCAAAAATTACCATTTTACCCTCGAACTTC
* * * *
681 CAAAAATCCCATTTTTACCCCTCG-AGCTTCCAAAAATT-CCATTTTTAAACC-CGAACCTTC
1 CAAAAATCCCATTTTTAACCC-CGAACCTTTCAAAAATTACCA-TTTT-ACCCTCGAA-CTTC
* * * ** * **
741 CAAAAATTACCA-TTTT-ACCCCTAAACTCCCAAAAA-TCCCATTTTTACCCCTTAAACTTC
1 CAAAAA-TCCCATTTTTAACCCCGAACCTTTCAAAAATTACCA-TTTTA-CCCTCGAACTTC
* *
800 CAAAAATCCCATTTTTAACCCCAAACCTTTCAAAAATCACCATTTTACCCTCGAACTTC
1 CAAAAATCCCATTTTTAACCCCGAACCTTTCAAAAATTACCATTTTACCCTCGAACTTC
** * * * * * *
859 CAAAAATCAAATTTTTAGCCCCGAACC-TTCCAAAATAACCATTTTACCCCCAAACTAC
1 CAAAAATCCCATTTTTAACCCCGAACCTTTCAAAAATTACCATTTTACCCTCGAACTTC
* * *
917 AAAAAATCCCA-TTTTACCCCCGAA-CTTCCAAAAAT
1 CAAAAATCCCATTTTTAACCCCGAACCTTTCAAAAAT
952 CCAATTTTTA
Statistics
Matches: 319, Mismatches: 54, Indels: 34
0.78 0.13 0.08
Matches are distributed among these distances:
56 1 0.00
57 19 0.06
58 47 0.15
59 197 0.62
60 48 0.15
61 7 0.02
ACGTcount: A:0.36, C:0.32, G:0.03, T:0.29
Consensus pattern (59 bp):
CAAAAATCCCATTTTTAACCCCGAACCTTTCAAAAATTACCATTTTACCCTCGAACTTC
Found at i:652 original size:89 final size:87
Alignment explanation
Indices: 555--1077 Score: 449
Period size: 89 Copynumber: 5.9 Consensus size: 87
545 ATTTACCACT
* **
555 CGAA-CTTCCAAAAATCCCATTTTTAACCTCGAACCTTTTAAAAATCACCA-TTTTACCCCTAAG
1 CGAACCTTCCAAAAATCCCA-TTTTAACCCCGAA-CTTCCAAAAATC-CCATTTTTACCCCTAAG
618 CTTCCAAAAATCCCATTTTTAACCC
63 CTTCCAAAAATCCCATTTTTAACCC
* * * *
643 CGAACCTTCCAAAAAATACCATTTT-ACCCTTGAACTCCCAAAAATCCCATTTTTACCCCTCGAG
1 CGAACCTTCC-AAAAATCCCATTTTAACCC-CGAACTTCCAAAAATCCCATTTTTACCCCT-AAG
* *
707 CTTCCAAAAATTCCATTTTTAAACC
63 CTTCCAAAAATCCCATTTTTAACCC
* * * *
732 CGAACCTTCCAAAAATTACCATTTT-ACCCCTAAACTCCCAAAAATCCCATTTTTACCCCTTAAA
1 CGAACCTTCCAAAAA-TCCCATTTTAACCCC-GAACTTCCAAAAATCCCATTTTTACCCC-TAAG
796 CTTCCAAAAATCCCATTTTTAACCC
63 CTTCCAAAAATCCCATTTTTAACCC
* * ** * *
821 CAAACCTTTCAAAAATCACCATTTT-ACCCTCGAACTTCCAAAAATCAAATTTTTAGCCCCGAAC
1 CGAACCTTCCAAAAATC-CCATTTTAACCC-CGAACTTCCAAAAATCCCATTTTTA-CCCCTAAG
*
885 CTTCC-AAAATAACCA-TTTT-ACCC
63 CTTCCAAAAAT-CCCATTTTTAACCC
* * * * * * * * * *
908 CCAAACTACAAAAAATCCCATTTTACCCCCGAACTTCCAAAAATCCAATTTTTAATCGCGAACCT
1 CGAACCTTCCAAAAATCCCATTTTAACCCCGAACTTCCAAAAATCCCATTTTT-ACCCCTAAGCT
*
973 TCCAAAAATTACCA-TTTT-ACCC
65 TCCAAAAA-TCCCATTTTTAACCC
* * * * * * *
995 TC-AAACTTCCAAAAATCTCATTTTTGACCCCAAACCTTCCAAAAATTACCA-TTTTACCTCTGA
1 -CGAACCTTCCAAAAATCCCA-TTTTAACCCCGAA-CTTCCAAAAA-TCCCATTTTTACCCCTAA
1058 GCTTCCAAAAATCCCATTTT
62 GCTTCCAAAAATCCCATTTT
1078 CGACCTCAAA
Statistics
Matches: 366, Mismatches: 48, Indels: 42
0.80 0.11 0.09
Matches are distributed among these distances:
86 41 0.11
87 58 0.16
88 70 0.19
89 179 0.49
90 18 0.05
ACGTcount: A:0.35, C:0.32, G:0.03, T:0.29
Consensus pattern (87 bp):
CGAACCTTCCAAAAATCCCATTTTAACCCCGAACTTCCAAAAATCCCATTTTTACCCCTAAGCTT
CCAAAAATCCCATTTTTAACCC
Found at i:668 original size:30 final size:29
Alignment explanation
Indices: 513--1077 Score: 360
Period size: 30 Copynumber: 19.2 Consensus size: 29
503 TCAAAATTCT
* *
513 CATTTTAAAACCCGAACCTTTCAAAAATTAC
1 CATTTT-AACCCCGAACCTTCCAAAAA-TAC
*
544 CA-TTT-ACCACTCGAA-CTTCCAAAAATCC
1 CATTTTAACC-C-CGAACCTTCCAAAAATAC
* **
572 CATTTTTAACCTCGAACCTTTTAAAAATCAC
1 CA-TTTTAACCCCGAACCTTCCAAAAAT-AC
* * *
603 CATTTT-ACCCCTAAGCTTCCAAAAATCC
1 CATTTTAACCCCGAACCTTCCAAAAATAC
631 CATTTTTAACCCCGAACCTTCCAAAAAATAC
1 CA-TTTTAACCCCGAACCTTCC-AAAAATAC
* * *
662 CATTTT-ACCCTTGAA-CTCCCAAAAATCC
1 CATTTTAACCC-CGAACCTTCCAAAAATAC
* * *
690 CATTTTTACCCCTCG-AGCTTCCAAAAATTC
1 CA-TTTTAACCC-CGAACCTTCCAAAAATAC
*
720 CATTTTTAAACCCGAACCTTCCAAAAATTAC
1 CA-TTTTAACCCCGAACCTTCCAAAAA-TAC
* * * *
751 CATTTT-ACCCCTAAACTCCCAAAAATCC
1 CATTTTAACCCCGAACCTTCCAAAAATAC
* * * *
779 CATTTTTACCCCTTAAACTTCCAAAAATCC
1 CATTTTAACCCC-GAACCTTCCAAAAATAC
* *
809 CATTTTTAACCCCAAACCTTTCAAAAATCAC
1 CA-TTTTAACCCCGAACCTTCCAAAAAT-AC
840 CATTTT-ACCCTCGAA-CTTCCAAAAAT-C
1 CATTTTAACCC-CGAACCTTCCAAAAATAC
* *
867 AAATTTTTAGCCCCGAACCTTCC-AAAATAAC
1 -CA-TTTTAACCCCGAACCTTCCAAAAAT-AC
* * * * *
898 CATTTT-ACCCCCAAACTACAAAAAATCC
1 CATTTTAACCCCGAACCTTCCAAAAATAC
*
926 CATTTTACCCCCGAA-CTTCCAAAAAT-C
1 CATTTTAACCCCGAACCTTCCAAAAATAC
* *
953 CAATTTTTAATCGCGAACCTTCCAAAAATTAC
1 C-A-TTTTAACCCCGAACCTTCCAAAAA-TAC
*
985 CATTTT-ACCCTC-AAACTTCCAAAAAT-C
1 CATTTTAACCC-CGAACCTTCCAAAAATAC
* *
1012 TCATTTTTGACCCCAAACCTTCCAAAAATTAC
1 -CA-TTTTAACCCCGAACCTTCCAAAAA-TAC
* * *
1044 CATTTT-ACCTCTG-AGCTTCCAAAAATCC
1 CATTTTAACC-CCGAACCTTCCAAAAATAC
1072 CATTTT
1 CATTTT
1078 CGACCTCAAA
Statistics
Matches: 428, Mismatches: 64, Indels: 87
0.74 0.11 0.15
Matches are distributed among these distances:
27 4 0.01
28 64 0.15
29 153 0.36
30 165 0.39
31 39 0.09
32 3 0.01
ACGTcount: A:0.35, C:0.32, G:0.03, T:0.29
Consensus pattern (29 bp):
CATTTTAACCCCGAACCTTCCAAAAATAC
Found at i:1002 original size:59 final size:57
Alignment explanation
Indices: 605--1077 Score: 292
Period size: 59 Copynumber: 8.1 Consensus size: 57
595 AAAATCACCA
* * * *
605 TTTT-ACCCCTAAGCTTCCAAAAA-TCCCATTTTTAACCCCGAACCTTCCAAAAAATACCA-
1 TTTTAACCCCGAACCTTCCAAAAATTACCA-TTTT-ACCCC-AAACTTCC-AAAAAT-CCAT
* * * * *
664 TTTT-ACCCTTGAA-CTCCCAAAAA-TCCCATTTTTACCCCTCGAGCTTCCAAAAATTCCAT
1 TTTTAACCC-CGAACCTTCCAAAAATTACCA-TTTTA-CCC-CAAACTTCCAAAAA-TCCAT
* *
723 TTTTAAACCCGAACCTTCCAAAAATTACCATTTTACCCCTAAACTCCCAAAAATCCCAT
1 TTTTAACCCCGAACCTTCCAAAAATTACCATTTTACCCC-AAACTTCCAAAAAT-CCAT
* * * *
782 TTTT-ACCCCTTAAACTTCCAAAAA-TCCCATTTTTAACCCCAAACCTTTCAAAAATCACCA-
1 TTTTAACCCC-GAACCTTCCAAAAATTACCA-TTTT-ACCCCAAA-CTTCCAAAAAT--CCAT
* * * *
842 TTTT-ACCCTCGAA-CTTCCAAAAATCA-AATTTTTAGCCCCGAACCTTCCAAAATAACCA-
1 TTTTAACCC-CGAACCTTCCAAAAATTACCA-TTTTA-CCCC-AAACTTCCAAAA-ATCCAT
* * * * * *
900 TTTT-ACCCCCAAAC-TACAAAAAATCCCATTTTACCCCCGAACTTCCAAAAATCCAAT
1 TTTTAACCCCGAACCTTCCAAAAATTACCATTTTA-CCCCAAACTTCCAAAAATCC-AT
* *
957 TTTTAATCGCGAACCTTCCAAAAATTACCATTTTACCCTCAAACTTCCAAAAATCTCAT
1 TTTTAACCCCGAACCTTCCAAAAATTACCATTTTACCC-CAAACTTCCAAAAATC-CAT
* * ** *
1016 TTTTGACCCCAAACCTTCCAAAAATTACCATTTTACCTCTGAGCTTCCAAAAATCCCAT
1 TTTTAACCCCGAACCTTCCAAAAATTACCATTTTACC-CCAAACTTCCAAAAAT-CCAT
1075 TTT
1 TTT
1078 CGACCTCAAA
Statistics
Matches: 333, Mismatches: 51, Indels: 60
0.75 0.11 0.14
Matches are distributed among these distances:
55 3 0.01
56 11 0.03
57 23 0.07
58 42 0.13
59 196 0.59
60 50 0.15
61 8 0.02
ACGTcount: A:0.35, C:0.33, G:0.03, T:0.29
Consensus pattern (57 bp):
TTTTAACCCCGAACCTTCCAAAAATTACCATTTTACCCCAAACTTCCAAAAATCCAT
Found at i:1097 original size:59 final size:59
Alignment explanation
Indices: 557--1117 Score: 261
Period size: 59 Copynumber: 9.5 Consensus size: 59
547 TTACCACTCG
* * * ** *
557 AACTTCCAAAAA-TCCCATTTTTAACCTCGAACCTTTTAAAAATCACCATTTT--ACCCCTA
1 AACTTCCAAAAATTACCA-TTTTACCCTC-AAACTTCCAAAAATC-CCATTTTCGACCCCAA
* * * * ***
616 AGCTTCCAAAAA-TCCCATTTTTAACCC-CGAACCTTCCAAAAAATACCATTTT--ACCCTTG
1 AACTTCCAAAAATTACCA-TTTT-ACCCTC-AAACTTCC-AAAAATCCCATTTTCGACCCCAA
* * * * * ** * *
675 AACTCCCAAAAA-TCCCATTTTTACCCCTCGAGCTTCCAAAAATTCCATTTTTAAACCCGA
1 AACTTCCAAAAATTACCA-TTTTA-CCCTCAAACTTCCAAAAATCCCATTTTCGACCCCAA
* * * *
735 ACCTTCCAAAAATTACCATTTTACCC-CTAAACTCCCAAAAATCCCATTTT-TACCCCTTA
1 AACTTCCAAAAATTACCATTTTACCCTC-AAACTTCCAAAAATCCCATTTTCGACCCC-AA
* * *
794 AACTTCCAAAAA-TCCCATTTTTAACCC-CAAACCTTTCAAAAATCACCATTTT--ACCCTC-G
1 AACTTCCAAAAATTACCA-TTTT-ACCCTCAAA-CTTCCAAAAATC-CCATTTTCGACCC-CAA
* * * * *
853 AACTTCCAAAAATCA-AATTTTTAGCCC-CGAACCTTCC-AAAATAACCATTTT--ACCCCCA
1 AACTTCCAAAAATTACCA-TTTTA-CCCTC-AAACTTCCAAAAAT-CCCATTTTCGACCCCAA
* * * * * * ** * * *
911 AAC-TACAAAAAATCCCATTTTACCCCCGAACTTCCAAAAATCCAATTTTTAATCGCGA
1 AACTTCCAAAAATTACCATTTTACCCTCAAACTTCCAAAAATCCCATTTTCGACCCCAA
* * *
969 ACCTTCCAAAAATTACCATTTTACCCTCAAACTTCCAAAAATCTCATTTTTGACCCCAA
1 AACTTCCAAAAATTACCATTTTACCCTCAAACTTCCAAAAATCCCATTTTCGACCCCAA
* * * *
1028 ACCTTCCAAAAATTACCATTTTA-CCTCTGAGCTTCCAAAAATCCCATTTTCGACCTCAA
1 AACTTCCAAAAATTACCATTTTACCCTC-AAACTTCCAAAAATCCCATTTTCGACCCCAA
* *
1087 AAC-TCTC-AAAATTGCCCTTTTTACCCTCAAA
1 AACTTC-CAAAAATT-ACCATTTTACCCTCAAA
1118 TGTTTTAAAT
Statistics
Matches: 401, Mismatches: 72, Indels: 58
0.76 0.14 0.11
Matches are distributed among these distances:
56 15 0.04
57 19 0.05
58 62 0.15
59 240 0.60
60 53 0.13
61 12 0.03
ACGTcount: A:0.35, C:0.32, G:0.03, T:0.29
Consensus pattern (59 bp):
AACTTCCAAAAATTACCATTTTACCCTCAAACTTCCAAAAATCCCATTTTCGACCCCAA
Found at i:14936 original size:5 final size:5
Alignment explanation
Indices: 14900--14929 Score: 60
Period size: 5 Copynumber: 6.0 Consensus size: 5
14890 GTCTTTGTAA
14900 ATTTT ATTTT ATTTT ATTTT ATTTT ATTTT
1 ATTTT ATTTT ATTTT ATTTT ATTTT ATTTT
14930 TTATTTTTAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 25 1.00
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (5 bp):
ATTTT
Found at i:15083 original size:20 final size:19
Alignment explanation
Indices: 15058--15114 Score: 69
Period size: 20 Copynumber: 2.9 Consensus size: 19
15048 TTAGTCCATA
15058 TTATTTTTTATTGTTTATAT
1 TTATTTTTTATT-TTTATAT
* *
15078 TTATTTGTTTATTTTAACAT
1 TTATTT-TTTATTTTTATAT
*
15098 TTAATTTTTATTTTTAT
1 TTATTTTTTATTTTTAT
15115 TTTTGTTAAT
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
19 9 0.29
20 16 0.52
21 6 0.19
ACGTcount: A:0.23, C:0.02, G:0.04, T:0.72
Consensus pattern (19 bp):
TTATTTTTTATTTTTATAT
Found at i:15135 original size:16 final size:15
Alignment explanation
Indices: 15116--15145 Score: 51
Period size: 15 Copynumber: 1.9 Consensus size: 15
15106 TATTTTTATT
15116 TTTGTTAATTTATTTA
1 TTTGTT-ATTTATTTA
15132 TTTGTTATTTATTT
1 TTTGTTATTTATTT
15146 TCATGCCTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.20, C:0.00, G:0.07, T:0.73
Consensus pattern (15 bp):
TTTGTTATTTATTTA
Found at i:15231 original size:15 final size:16
Alignment explanation
Indices: 15213--15244 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
15203 CATTTAATTA
15213 TTATTCA-TTATTTAT
1 TTATTCAGTTATTTAT
15228 TTATT-AGTTATTTAT
1 TTATTCAGTTATTTAT
15243 TT
1 TT
15245 TCTTTGTTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 1 0.06
15 15 0.94
ACGTcount: A:0.25, C:0.03, G:0.03, T:0.69
Consensus pattern (16 bp):
TTATTCAGTTATTTAT
Found at i:15299 original size:20 final size:20
Alignment explanation
Indices: 15276--15313 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
15266 CTTTTGTTTA
*
15276 ATTTCATTTATTTTTTATGT
1 ATTTCATTTATTTCTTATGT
*
15296 ATTTTATTTATTTCTTAT
1 ATTTCATTTATTTCTTAT
15314 TTTTATGCTA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.21, C:0.05, G:0.03, T:0.71
Consensus pattern (20 bp):
ATTTCATTTATTTCTTATGT
Found at i:17085 original size:16 final size:17
Alignment explanation
Indices: 17066--17106 Score: 52
Period size: 15 Copynumber: 2.6 Consensus size: 17
17056 ATCTTAAAAT
17066 ATAATAATAATTTCT-C
1 ATAATAATAATTTCTCC
*
17082 ATAAAAAT-ATTTCTCC
1 ATAATAATAATTTCTCC
17098 A-AATAATAA
1 ATAATAATAA
17107 ATTGATAGAA
Statistics
Matches: 21, Mismatches: 2, Indels: 4
0.78 0.07 0.15
Matches are distributed among these distances:
15 11 0.52
16 10 0.48
ACGTcount: A:0.51, C:0.12, G:0.00, T:0.37
Consensus pattern (17 bp):
ATAATAATAATTTCTCC
Found at i:17439 original size:23 final size:22
Alignment explanation
Indices: 17413--17457 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 22
17403 TATTTTTTTT
17413 TTCTTTCTTTTTGTAATTATTCC
1 TTCTTTCTTTTTGTAATT-TTCC
* *
17436 TTCTTTTTTTTTTTAATTTTCC
1 TTCTTTCTTTTTGTAATTTTCC
17458 GGGAAAATAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 4 0.20
23 16 0.80
ACGTcount: A:0.11, C:0.16, G:0.02, T:0.71
Consensus pattern (22 bp):
TTCTTTCTTTTTGTAATTTTCC
Found at i:24529 original size:31 final size:31
Alignment explanation
Indices: 24465--24558 Score: 98
Period size: 31 Copynumber: 3.0 Consensus size: 31
24455 CGGTTTACAC
* * * *
24465 TTTGGTCACTCAAGTATTAATAAGTTTACAA
1 TTTGGTCACTCAACTATTAGTAAATTTATAA
* * *
24496 TTTGGTCACTTAATTATTAGTAAAATTATAA
1 TTTGGTCACTCAACTATTAGTAAATTTATAA
** *
24527 TTTAATTACTCAACTATTAGTAAATTTATAA
1 TTTGGTCACTCAACTATTAGTAAATTTATAA
24558 T
1 T
24559 AGTCACTCTT
Statistics
Matches: 51, Mismatches: 12, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
31 51 1.00
ACGTcount: A:0.38, C:0.10, G:0.09, T:0.44
Consensus pattern (31 bp):
TTTGGTCACTCAACTATTAGTAAATTTATAA
Found at i:27540 original size:29 final size:29
Alignment explanation
Indices: 27508--27584 Score: 77
Period size: 28 Copynumber: 2.7 Consensus size: 29
27498 CTTTAATTAA
* * *
27508 ATAAATGATCAAAACGTAATATTTCAAGC
1 ATAAGTGATCAAAAAGTAATATTTCAAAC
*
27537 ATAAGTGA-CTAAAAAGTAA-ATTTTAAAC
1 ATAAGTGATC-AAAAAGTAATATTTCAAAC
* *
27565 ATAAGTGATTAAAATGTAAT
1 ATAAGTGATCAAAAAGTAAT
27585 CTGAGGTAAA
Statistics
Matches: 39, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
28 24 0.62
29 15 0.38
ACGTcount: A:0.51, C:0.08, G:0.12, T:0.30
Consensus pattern (29 bp):
ATAAGTGATCAAAAAGTAATATTTCAAAC
Found at i:27568 original size:28 final size:29
Alignment explanation
Indices: 27518--27584 Score: 82
Period size: 28 Copynumber: 2.3 Consensus size: 29
27508 ATAAATGATC
* *
27518 AAAACGTAATATTTCAAGCATAAGTGACT
1 AAAAAGTAATATTTCAAACATAAGTGACT
* *
27547 AAAAAGTAA-ATTTTAAACATAAGTGATT
1 AAAAAGTAATATTTCAAACATAAGTGACT
*
27575 AAAATGTAAT
1 AAAAAGTAAT
27585 CTGAGGTAAA
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
28 24 0.75
29 8 0.25
ACGTcount: A:0.51, C:0.07, G:0.12, T:0.30
Consensus pattern (29 bp):
AAAAAGTAATATTTCAAACATAAGTGACT
Found at i:27942 original size:24 final size:24
Alignment explanation
Indices: 27901--27947 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 24
27891 TCAAAACCAA
* * *
27901 AAATAAATTGTTTGTTCGGAAAGG
1 AAATAAATTATTTATTCGAAAAGG
*
27925 AAATATATTATTTATTCGAAAAG
1 AAATAAATTATTTATTCGAAAAG
27948 AAAGAAGTGG
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.43, C:0.04, G:0.17, T:0.36
Consensus pattern (24 bp):
AAATAAATTATTTATTCGAAAAGG
Done.