Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01005179.1 Kokia drynarioides strain JFW-HI SEQ_119036, 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: 51753
ACGTcount: A:0.33, C:0.17, G:0.15, T:0.34
Warning! 7 characters in sequence are not A, C, G, or T
Found at i:2856 original size:19 final size:19
Alignment explanation
Indices: 2826--2870 Score: 63
Period size: 19 Copynumber: 2.3 Consensus size: 19
2816 AGTTAAGAGA
* *
2826 AGTTGAATATAGTTACTGTC
1 AGTTG-ATATAGGTACTATC
2846 AGTTGATATAGGTACTATC
1 AGTTGATATAGGTACTATC
2865 AGTTGA
1 AGTTGA
2871 AGTCAGTTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 18 0.78
20 5 0.22
ACGTcount: A:0.31, C:0.09, G:0.22, T:0.38
Consensus pattern (19 bp):
AGTTGATATAGGTACTATC
Found at i:10084 original size:3 final size:3
Alignment explanation
Indices: 10076--10110 Score: 61
Period size: 3 Copynumber: 11.7 Consensus size: 3
10066 CTCCTTTTGC
*
10076 TCT TCT TCT TCT TCT TCT TCT TCT TTT TCT TCT TC
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TC
10111 AGATATCTGA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (3 bp):
TCT
Found at i:10665 original size:44 final size:44
Alignment explanation
Indices: 10617--10706 Score: 117
Period size: 44 Copynumber: 2.0 Consensus size: 44
10607 ATTAAAATAA
* * * *
10617 AATAGAAATTATGGTAATTATACATTTAAAAATAATTATAATTT
1 AATAGAAATTATGATAACTACACATTTAAAAATAATTAGAATTT
* * *
10661 AATAGAAGTTGTGATAACTACACGTTTAAAAATAATTAGAATTT
1 AATAGAAATTATGATAACTACACATTTAAAAATAATTAGAATTT
10705 AA
1 AA
10707 ATTACAATTA
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
44 39 1.00
ACGTcount: A:0.49, C:0.04, G:0.10, T:0.37
Consensus pattern (44 bp):
AATAGAAATTATGATAACTACACATTTAAAAATAATTAGAATTT
Found at i:15169 original size:22 final size:21
Alignment explanation
Indices: 15114--15169 Score: 58
Period size: 21 Copynumber: 2.6 Consensus size: 21
15104 AATTCAGTTT
15114 ATTTATATTTTAATTAATCATA
1 ATTTAT-TTTTAATTAATCATA
* * * *
15136 TTTTAGTTTTAATTTATCTTA
1 ATTTATTTTTAATTAATCATA
15157 ATTTATTTATTAA
1 ATTTATTT-TTAA
15170 GCTTAATTGT
Statistics
Matches: 27, Mismatches: 6, Indels: 2
0.77 0.17 0.06
Matches are distributed among these distances:
21 19 0.70
22 8 0.30
ACGTcount: A:0.34, C:0.04, G:0.02, T:0.61
Consensus pattern (21 bp):
ATTTATTTTTAATTAATCATA
Found at i:15723 original size:35 final size:37
Alignment explanation
Indices: 15675--15763 Score: 119
Period size: 39 Copynumber: 2.4 Consensus size: 37
15665 TGTTTAGAAC
* *
15675 TAAATTTTCGAATAA-GAAAATTTATTTTTGAGGAAT
1 TAAATTGTAGAATAATGAAAATTTATTTTTGAGGAAT
15711 T-AATTGTAGAATAGTAATGAAAATTTATTTTTGAGGAAT
1 TAAATTGTAG-A-A-TAATGAAAATTTATTTTTGAGGAAT
15750 TAAATTGTAGAATA
1 TAAATTGTAGAATA
15764 GTAATGATAA
Statistics
Matches: 46, Mismatches: 2, Indels: 9
0.81 0.04 0.16
Matches are distributed among these distances:
35 6 0.13
36 2 0.04
37 3 0.07
38 4 0.09
39 23 0.50
40 8 0.17
ACGTcount: A:0.43, C:0.01, G:0.16, T:0.40
Consensus pattern (37 bp):
TAAATTGTAGAATAATGAAAATTTATTTTTGAGGAAT
Found at i:15734 original size:39 final size:40
Alignment explanation
Indices: 15690--15770 Score: 155
Period size: 39 Copynumber: 2.0 Consensus size: 40
15680 TTTCGAATAA
15690 GAAAATTTATTTTTGAGGAATT-AATTGTAGAATAGTAAT
1 GAAAATTTATTTTTGAGGAATTAAATTGTAGAATAGTAAT
15729 GAAAATTTATTTTTGAGGAATTAAATTGTAGAATAGTAAT
1 GAAAATTTATTTTTGAGGAATTAAATTGTAGAATAGTAAT
15769 GA
1 GA
15771 TAAAATTGAA
Statistics
Matches: 41, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
39 22 0.54
40 19 0.46
ACGTcount: A:0.42, C:0.00, G:0.19, T:0.40
Consensus pattern (40 bp):
GAAAATTTATTTTTGAGGAATTAAATTGTAGAATAGTAAT
Found at i:16174 original size:17 final size:17
Alignment explanation
Indices: 16152--16190 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
16142 CTCCACCATG
* * *
16152 ACAAGAATTCTCTACGA
1 ACAAGAACTCTCAACAA
16169 ACAAGAACTCTCAACAA
1 ACAAGAACTCTCAACAA
16186 ACAAG
1 ACAAG
16191 TTCTTCACCT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.49, C:0.26, G:0.10, T:0.15
Consensus pattern (17 bp):
ACAAGAACTCTCAACAA
Found at i:23576 original size:24 final size:24
Alignment explanation
Indices: 23561--23628 Score: 127
Period size: 24 Copynumber: 2.8 Consensus size: 24
23551 ATGATACAGT
*
23561 TGCTGACTTGTCCCATGCTGTAGC
1 TGCTTACTTGTCCCATGCTGTAGC
23585 TGCTTACTTGTCCCATGCTGTAGC
1 TGCTTACTTGTCCCATGCTGTAGC
23609 TGCTTACTTGTCCCATGCTG
1 TGCTTACTTGTCCCATGCTG
23629 CTACATTGTT
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
24 43 1.00
ACGTcount: A:0.12, C:0.29, G:0.22, T:0.37
Consensus pattern (24 bp):
TGCTTACTTGTCCCATGCTGTAGC
Found at i:29899 original size:6 final size:6
Alignment explanation
Indices: 29884--29961 Score: 56
Period size: 6 Copynumber: 13.3 Consensus size: 6
29874 GACCCCAATC
* * * *
29884 TTTAAT TTTAAA TTT-AT TTTAAA TTTAAAA TTT-AT TTTAAG TTTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTT-AAA TTTAAA TTTAAA TTTAAA
* *
29931 TTTAAA TTT--A TTCGAAA TTTAAT TTTAAA TT
1 TTTAAA TTTAAA TT-TAAA TTTAAA TTTAAA TT
29962 GAGTTTAAAA
Statistics
Matches: 56, Mismatches: 10, Indels: 12
0.72 0.13 0.15
Matches are distributed among these distances:
4 3 0.05
5 8 0.14
6 36 0.64
7 9 0.16
ACGTcount: A:0.40, C:0.01, G:0.03, T:0.56
Consensus pattern (6 bp):
TTTAAA
Found at i:29911 original size:23 final size:23
Alignment explanation
Indices: 29884--29970 Score: 85
Period size: 23 Copynumber: 4.0 Consensus size: 23
29874 GACCCCAATC
29884 TTTAATTTTAAATTTATTTTAAA
1 TTTAATTTTAAATTTATTTTAAA
*
29907 TTT-A----AAATTTATTTTAAG
1 TTTAATTTTAAATTTATTTTAAA
* **
29925 TTTAAATTTAAATTTATTCGAAA
1 TTTAATTTTAAATTTATTTTAAA
* *
29948 TTTAATTTTAAATTGAGTTTAAA
1 TTTAATTTTAAATTTATTTTAAA
29971 AGTCCAACAT
Statistics
Matches: 50, Mismatches: 9, Indels: 10
0.72 0.13 0.14
Matches are distributed among these distances:
18 16 0.32
19 1 0.02
22 1 0.02
23 32 0.64
ACGTcount: A:0.40, C:0.01, G:0.05, T:0.54
Consensus pattern (23 bp):
TTTAATTTTAAATTTATTTTAAA
Found at i:29940 original size:18 final size:17
Alignment explanation
Indices: 29884--29934 Score: 75
Period size: 18 Copynumber: 2.9 Consensus size: 17
29874 GACCCCAATC
*
29884 TTTAATTTTAAATTTAT
1 TTTAAATTTAAATTTAT
29901 TTTAAATTTAAAATTTAT
1 TTTAAATTT-AAATTTAT
*
29919 TTTAAGTTTAAATTTA
1 TTTAAATTTAAATTTA
29935 AATTTATTCG
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
17 15 0.48
18 16 0.52
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (17 bp):
TTTAAATTTAAATTTAT
Found at i:31712 original size:29 final size:29
Alignment explanation
Indices: 31680--31925 Score: 118
Period size: 28 Copynumber: 8.5 Consensus size: 29
31670 AAACTATCTA
31680 AAAATTACATTTTGACCCCAAACTTTTCC
1 AAAATTACATTTTGACCCCAAACTTTTCC
* * ** *
31709 AAAAATTA-AATTTCATCCTTACAC--TTCC
1 -AAAATTACATTTTGA-CCCCAAACTTTTCC
* * * *
31737 AAAAATCACATTTTTACCATCAAAC-TTTCTA
1 -AAAATTACATTTTGACC-CCAAACTTTTC-C
* *
31768 AAAATTACATTTTGACCCCTAAACTTCTCA
1 AAAATTACATTTTGACCCC-AAACTTTTCC
* * * *
31798 AAAATCATATTTTTG-CCTCAAACTTTT-T
1 AAAATTACA-TTTTGACCCCAAACTTTTCC
* * *
31826 AAAATTTACATTTTGCCCCCAAACTTCTCA
1 AAAA-TTACATTTTGACCCCAAACTTTTCC
*
31856 AAAATTACATTTT-TCCCGCAAAC--TTCC
1 AAAATTACATTTTGACCC-CAAACTTTTCC
* * *
31883 AAAAATCACATTTT-TCCCCTAAACTTCT-C
1 -AAAATTACATTTTGACCCC-AAACTTTTCC
31912 AAAATTACATTTTG
1 AAAATTACATTTTG
31926 CCCTTGAACT
Statistics
Matches: 168, Mismatches: 31, Indels: 35
0.72 0.13 0.15
Matches are distributed among these distances:
27 3 0.02
28 57 0.34
29 50 0.30
30 50 0.30
31 8 0.05
ACGTcount: A:0.36, C:0.25, G:0.02, T:0.36
Consensus pattern (29 bp):
AAAATTACATTTTGACCCCAAACTTTTCC
Found at i:31830 original size:88 final size:86
Alignment explanation
Indices: 31670--31924 Score: 248
Period size: 88 Copynumber: 2.9 Consensus size: 86
31660 AAAGGTCCCT
* * * * * *
31670 AAACTATCTAAAAATTACATTTTGACCCCAAACTTTTCCAAAAATTAAATTTCATCCTTACACTT
1 AAACTTTCTAAAAATTACATTTTGACCCCAAACTTCT-CAAAAATCAAATTT-TTCCTCAAACTT
* * *
31735 CCAAAAATCACATTTTTACCATC
64 CTAAAAATTACATTTTTACCACC
*
31758 AAACTTTCTAAAAATTACATTTTGACCCCTAAACTTCTCAAAAATCATATTTTTGCCTCAAACTT
1 AAACTTTCTAAAAATTACATTTTGACCCC-AAACTTCTCAAAAATCAAATTTTT-CCTCAAAC-T
* * * *
31823 TTTAAAATTTACA-TTTTGCCCCC
63 TCTAAAAATTACATTTTTACCACC
* * *
31846 AAAC-TTCTCAAAAATTACATTTT-TCCCGCAAACTTC-CAAAAATCACATTTTTCCCCTAAACT
1 AAACTTTCT-AAAAATTACATTTTGACCC-CAAACTTCTCAAAAATCAAATTTTTCCTC-AAACT
*
31908 TCTCAAAATTACATTTT
63 TCTAAAAATTACATTTT
31925 GCCCTTGAAC
Statistics
Matches: 140, Mismatches: 20, Indels: 16
0.80 0.11 0.09
Matches are distributed among these distances:
85 14 0.10
86 22 0.16
87 15 0.11
88 72 0.51
89 17 0.12
ACGTcount: A:0.37, C:0.25, G:0.02, T:0.36
Consensus pattern (86 bp):
AAACTTTCTAAAAATTACATTTTGACCCCAAACTTCTCAAAAATCAAATTTTTCCTCAAACTTCT
AAAAATTACATTTTTACCACC
Found at i:31894 original size:28 final size:28
Alignment explanation
Indices: 31665--32075 Score: 215
Period size: 29 Copynumber: 14.2 Consensus size: 28
31655 TGCCAAAAGG
*
31665 TCCCT-AAACTATCTAAAAATTACATTTT
1 TCCCTCAAACT-TCCAAAAATTACATTTT
* * *
31693 GACCC-CAAACTTTTCCAAAAATTAAATTTCA
1 -TCCCTCAAAC--TTCCAAAAATTACATTT-T
* * *
31724 T-CCTTACACTTCCAAAAATCACATTTT
1 TCCCTCAAACTTCCAAAAATTACATTTT
* *
31751 TACCATCAAACTTTCTAAAAATTACATTTT
1 T-CCCTCAAAC-TTCCAAAAATTACATTTT
* * *
31781 GACCC-CTAAACTTCTCAAAAATCATATTTT
1 -TCCCTC-AAACTTC-CAAAAATTACATTTT
* ** *
31811 TGCCTCAAACTTTTTAAAATTTACATTTT
1 TCCCTCAAAC-TTCCAAAAATTACATTTT
* *
31840 GCCCCCAAACTTCTCAAAAATTACATTTT
1 TCCCTCAAACTTC-CAAAAATTACATTTT
* *
31869 TCCCGCAAACTTCCAAAAATCACATTTT
1 TCCCTCAAACTTCCAAAAATTACATTTT
31897 TCCC-CTAAACTTCTC-AAAATTACATTTT
1 TCCCTC-AAACTTC-CAAAAATTACATTTT
* ** *** * *
31925 GCCCTTGAACTTTTGAAAATCATATTTT
1 TCCCTCAAACTTCCAAAAATTACATTTT
*** * *
31953 TCCTCTTGTACTTCCAAAAATCATATTTT
1 TCC-CTCAAACTTCCAAAAATTACATTTT
*
31982 TACCCTCAAACTTCTTAAAAATTACATTTTT
1 T-CCCTCAAACTTC-CAAAAATTACA-TTTT
*
32013 GTCCC-CGAACTTCCAAAAATTACCATTTT
1 -TCCCTCAAACTTCCAAAAATTA-CATTTT
* * * * *
32042 ACCCACAAGCATCCAAAATTTACCATTTT
1 TCCCTCAAACTTCCAAAAATTA-CATTTT
*
32071 ACCCT
1 TCCCT
32076 TAATTTTCCA
Statistics
Matches: 294, Mismatches: 63, Indels: 50
0.72 0.15 0.12
Matches are distributed among these distances:
27 2 0.01
28 78 0.27
29 132 0.45
30 73 0.25
31 8 0.03
32 1 0.00
ACGTcount: A:0.35, C:0.26, G:0.03, T:0.36
Consensus pattern (28 bp):
TCCCTCAAACTTCCAAAAATTACATTTT
Found at i:31965 original size:29 final size:28
Alignment explanation
Indices: 31847--32032 Score: 108
Period size: 28 Copynumber: 6.5 Consensus size: 28
31837 TTTGCCCCCA
* * ***
31847 AACTTCTCAAAAATTACATTTTTCCCGCA
1 AACTTC-CAAAAATCATATTTTTCCCTTG
* * *
31876 AACTTCCAAAAATCACATTTTTCCCCTA
1 AACTTCCAAAAATCATATTTTTCCCTTG
* * *
31904 AACTTCTC-AAAATTACATTTTGCCCTTG
1 AACTTC-CAAAAATCATATTTTTCCCTTG
***
31932 AACTTTTGAAAATCATATTTTTCCTCTTG
1 AACTTCCAAAAATCATATTTTTCC-CTTG
* **
31961 TACTTCCAAAAATCATATTTTTACCCTCA
1 AACTTCCAAAAATCATATTTTT-CCCTTG
* *
31990 AACTTCTTAAAAATTACAT-TTTTGTCCC-CG
1 AACTTC-CAAAAA-T-CATATTTT-TCCCTTG
32020 AACTTCCAAAAAT
1 AACTTCCAAAAAT
32033 TACCATTTTA
Statistics
Matches: 127, Mismatches: 22, Indels: 17
0.77 0.13 0.10
Matches are distributed among these distances:
28 60 0.47
29 41 0.32
30 14 0.11
31 8 0.06
32 4 0.03
ACGTcount: A:0.33, C:0.25, G:0.04, T:0.38
Consensus pattern (28 bp):
AACTTCCAAAAATCATATTTTTCCCTTG
Found at i:32033 original size:29 final size:28
Alignment explanation
Indices: 31665--32041 Score: 172
Period size: 30 Copynumber: 13.0 Consensus size: 28
31655 TGCCAAAAGG
* * *
31665 TCCCTAAACTATCTAAAAATTACATTTTG
1 TCCCCAAACT-TCCAAAAATTACATTTTT
* * **
31694 ACCCCAAACTTTTCCAAAAATTAAATTTCA
1 TCCCCAAAC--TTCCAAAAATTACATTTTT
** * *
31724 TCCTTACACTTCCAAAAATCACATTTTT
1 TCCCCAAACTTCCAAAAATTACATTTTT
* * * *
31752 ACCATCAAACTTTCTAAAAATTACATTTTG
1 TCC-CCAAAC-TTCCAAAAATTACATTTTT
* * *
31782 ACCCCTAAACTTCTCAAAAATCATATTTTT
1 TCCCC-AAACTTC-CAAAAATTACATTTTT
* * ** * *
31812 GCCTCAAACTTTTTAAAATTTACATTTTG
1 TCCCCAAAC-TTCCAAAAATTACATTTTT
*
31841 CCCCCAAACTTCTCAAAAATTACA-TTTT
1 TCCCCAAACTTC-CAAAAATTACATTTTT
*
31869 TCCCGCAAACTTCCAAAAATCACA-TTTT
1 TCCC-CAAACTTCCAAAAATTACATTTTT
31897 TCCCCTAAACTTCTC-AAAATTACA-TTTT
1 TCCCC-AAACTTC-CAAAAATTACATTTTT
* ** ***
31925 GCCCTTGAACTTTTGAAAA-T-CATATTTT
1 TCCC-CAAACTTCCAAAAATTACAT-TTTT
*** * *
31953 TCCTCTTGTACTTCCAAAAATCATATTTTT
1 TCC-C-CAAACTTCCAAAAATTACATTTTT
* *
31983 ACCCTCAAACTTCTTAAAAATTACATTTTT
1 TCCC-CAAACTTC-CAAAAATTACATTTTT
*
32013 GTCCCCGAACTTCCAAAAATTACCATTTT
1 -TCCCCAAACTTCCAAAAATTA-CATTTT
32042 ACCCACAAGC
Statistics
Matches: 263, Mismatches: 64, Indels: 41
0.71 0.17 0.11
Matches are distributed among these distances:
26 2 0.01
27 2 0.01
28 80 0.30
29 82 0.31
30 91 0.35
31 6 0.02
ACGTcount: A:0.34, C:0.25, G:0.03, T:0.37
Consensus pattern (28 bp):
TCCCCAAACTTCCAAAAATTACATTTTT
Found at i:32361 original size:27 final size:27
Alignment explanation
Indices: 32331--32384 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
32321 TAACTATTGC
32331 TATAAACTGCCTATTCATATTTAATTT
1 TATAAACTGCCTATTCATATTTAATTT
32358 TATAAACTGCCTATTCATATTTAATTT
1 TATAAACTGCCTATTCATATTTAATTT
32385 ACATGCTCGT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.33, C:0.15, G:0.04, T:0.48
Consensus pattern (27 bp):
TATAAACTGCCTATTCATATTTAATTT
Found at i:33521 original size:2 final size:2
Alignment explanation
Indices: 33514--33540 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
33504 AACCCACATC
33514 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
33541 GGAATTTATC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:34831 original size:18 final size:17
Alignment explanation
Indices: 34808--34842 Score: 61
Period size: 18 Copynumber: 2.0 Consensus size: 17
34798 GAACAAATTT
34808 TTAATTAAATAAATTTAA
1 TTAATTAAA-AAATTTAA
34826 TTAATTAAAAAATTTAA
1 TTAATTAAAAAATTTAA
34843 ACCCTTAATC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 8 0.47
18 9 0.53
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (17 bp):
TTAATTAAAAAATTTAA
Found at i:35444 original size:6 final size:6
Alignment explanation
Indices: 35433--35461 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
35423 CAAAAGGGAA
35433 GAAGAT GAAGAT GAAGAT GAAGAT GAAGA
1 GAAGAT GAAGAT GAAGAT GAAGAT GAAGA
35462 AGAAAGACGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.34, T:0.14
Consensus pattern (6 bp):
GAAGAT
Found at i:35886 original size:36 final size:36
Alignment explanation
Indices: 35819--35887 Score: 95
Period size: 36 Copynumber: 1.9 Consensus size: 36
35809 TGTTTTTAAA
* * *
35819 AAATTTATACCTAAAAGTTTTGTATTTCAAAAACTT
1 AAATTAATACCTAAAAGTTTTGTAGTACAAAAACTT
35855 AAATTAATACCTAAAAGTTTT-TAGGTACAAAAA
1 AAATTAATACCTAAAAGTTTTGTA-GTACAAAAA
35888 AAACTTATAC
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
35 2 0.07
36 27 0.93
ACGTcount: A:0.46, C:0.10, G:0.07, T:0.36
Consensus pattern (36 bp):
AAATTAATACCTAAAAGTTTTGTAGTACAAAAACTT
Found at i:44335 original size:28 final size:28
Alignment explanation
Indices: 44287--44357 Score: 97
Period size: 28 Copynumber: 2.5 Consensus size: 28
44277 ATTGCATTAC
* *
44287 CATAAATGTGGAAGCCCGCAAGGACAAT
1 CATATATGTGGAAGTCCGCAAGGACAAT
* *
44315 CTTATATGTGGAAGTCTGCAAGGACAAT
1 CATATATGTGGAAGTCCGCAAGGACAAT
*
44343 CATATATATGGAAGT
1 CATATATGTGGAAGT
44358 ATGCCAAGAT
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 37 1.00
ACGTcount: A:0.37, C:0.15, G:0.24, T:0.24
Consensus pattern (28 bp):
CATATATGTGGAAGTCCGCAAGGACAAT
Done.