Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01011470.1 Kokia drynarioides strain JFW-HI SEQ_126454, 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: 56148
ACGTcount: A:0.35, C:0.15, G:0.16, T:0.34
Warning! 1 characters in sequence are not A, C, G, or T
Found at i:759 original size:18 final size:19
Alignment explanation
Indices: 717--765 Score: 57
Period size: 18 Copynumber: 2.7 Consensus size: 19
707 TTTATTTATT
717 TTAAATTTTAAATCTGAAA
1 TTAAATTTTAAATCTGAAA
* *
736 AT-AATTTTAAA-CTTAAA
1 TTAAATTTTAAATCTGAAA
*
753 TTAAATTTAAAAT
1 TTAAATTTTAAAT
766 AAATTTAAAG
Statistics
Matches: 24, Mismatches: 4, Indels: 4
0.75 0.12 0.12
Matches are distributed among these distances:
17 6 0.25
18 17 0.71
19 1 0.04
ACGTcount: A:0.51, C:0.04, G:0.02, T:0.43
Consensus pattern (19 bp):
TTAAATTTTAAATCTGAAA
Found at i:763 original size:17 final size:18
Alignment explanation
Indices: 717--763 Score: 51
Period size: 17 Copynumber: 2.6 Consensus size: 18
707 TTTATTTATT
717 TTAAATTTTAAATCTGAAA
1 TTAAA-TTTAAATCTGAAA
* * *
736 ATAATTTTAAA-CTTAAA
1 TTAAATTTAAATCTGAAA
753 TTAAATTTAAA
1 TTAAATTTAAA
764 ATAAATTTAA
Statistics
Matches: 23, Mismatches: 5, Indels: 2
0.77 0.17 0.07
Matches are distributed among these distances:
17 14 0.61
18 6 0.26
19 3 0.13
ACGTcount: A:0.51, C:0.04, G:0.02, T:0.43
Consensus pattern (18 bp):
TTAAATTTAAATCTGAAA
Found at i:1379 original size:2 final size:2
Alignment explanation
Indices: 1372--1407 Score: 56
Period size: 2 Copynumber: 18.5 Consensus size: 2
1362 TAGATTACCA
*
1372 AT AT AT AT AT AT AT AT AT AT AT AT -T AT AT TT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1408 ATTTTAATCT
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
1 1 0.03
2 30 0.97
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
AT
Found at i:1482 original size:2 final size:2
Alignment explanation
Indices: 1475--1508 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
1465 AATTATTTTC
*
1475 AT AT AT AT AT AT AT AT AT AT AT AT AT AT TT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1509 TTATTTAATT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
AT
Found at i:1513 original size:10 final size:10
Alignment explanation
Indices: 1475--1515 Score: 55
Period size: 10 Copynumber: 4.1 Consensus size: 10
1465 AATTATTTTC
*
1475 ATATATATAT
1 ATATATATTT
*
1485 ATATATATAT
1 ATATATATTT
1495 ATATATATTT
1 ATATATATTT
*
1505 ATATTTATTT
1 ATATATATTT
1515 A
1 A
1516 ATTAAAAAAC
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
10 29 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (10 bp):
ATATATATTT
Found at i:3284 original size:7 final size:7
Alignment explanation
Indices: 3274--3299 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
3264 ATTTTTTTTC
3274 TTTTGGG
1 TTTTGGG
3281 TTTTGGG
1 TTTTGGG
3288 TTTTGGG
1 TTTTGGG
3295 TTTTG
1 TTTTG
3300 AATTTTGGAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.00, C:0.00, G:0.38, T:0.62
Consensus pattern (7 bp):
TTTTGGG
Found at i:3305 original size:14 final size:14
Alignment explanation
Indices: 3274--3339 Score: 60
Period size: 14 Copynumber: 4.7 Consensus size: 14
3264 ATTTTTTTTC
**
3274 TTTTGGGTTTTGGG
1 TTTTGGGTTTTGAA
3288 TTTTGGGTTTTGAA
1 TTTTGGGTTTTGAA
* *
3302 TTTTGGATTTTAAA
1 TTTTGGGTTTTGAA
* * *
3316 ATTCGGGTTTTGAG
1 TTTTGGGTTTTGAA
*
3330 TTATGGGTTT
1 TTTTGGGTTT
3340 CAAATTTTAG
Statistics
Matches: 40, Mismatches: 12, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
14 40 1.00
ACGTcount: A:0.14, C:0.02, G:0.30, T:0.55
Consensus pattern (14 bp):
TTTTGGGTTTTGAA
Found at i:7802 original size:48 final size:46
Alignment explanation
Indices: 7749--7883 Score: 128
Period size: 42 Copynumber: 3.0 Consensus size: 46
7739 TAAACTAATA
7749 TATTACTAATTCATAAAATAATATAATATAATATATTATTACTATTAC
1 TATTACT-ATTCATAAAATAATATAATATAATATA-TATTACTATTAC
* *
7797 TATTACTATTACATAATAT-A-ATAATAT-AT-TAGTATT--TATTAG
1 TATTACTATT-CATAAAATAATATAATATAATATA-TATTACTATTAC
*
7839 TATTACTGATACATAAAATAATAT--TATAATATATA--ACTATTAC
1 TATTACT-ATTCATAAAATAATATAATATAATATATATTACTATTAC
7882 TA
1 TA
7884 AAAATATTAA
Statistics
Matches: 73, Mismatches: 6, Indels: 21
0.73 0.06 0.21
Matches are distributed among these distances:
42 22 0.30
43 14 0.19
44 10 0.14
45 2 0.03
46 7 0.10
47 4 0.05
48 14 0.19
ACGTcount: A:0.47, C:0.07, G:0.02, T:0.44
Consensus pattern (46 bp):
TATTACTATTCATAAAATAATATAATATAATATATATTACTATTAC
Found at i:7816 original size:38 final size:36
Alignment explanation
Indices: 7771--7862 Score: 96
Period size: 38 Copynumber: 2.4 Consensus size: 36
7761 ATAAAATAAT
7771 ATAATATAAT-ATATTATTACTATTACTATTACTATTAC
1 ATAATATAATAATA-TATTACTATT--TATTACTATTAC
* *
7809 ATAATATAATAATATATTAGTATTTATTAGTATTAC
1 ATAATATAATAATATATTACTATTTATTACTATTAC
*
7845 TGATACATAAAATAATAT
1 --ATA-ATATAATAATAT
7863 TATAATATAT
Statistics
Matches: 47, Mismatches: 3, Indels: 7
0.82 0.05 0.12
Matches are distributed among these distances:
36 11 0.23
38 22 0.47
39 14 0.30
ACGTcount: A:0.46, C:0.07, G:0.03, T:0.45
Consensus pattern (36 bp):
ATAATATAATAATATATTACTATTTATTACTATTAC
Found at i:8410 original size:29 final size:29
Alignment explanation
Indices: 8376--8439 Score: 128
Period size: 29 Copynumber: 2.2 Consensus size: 29
8366 TAATAATGAG
8376 TATATTATTTAAGTTTGCACTTAATATAA
1 TATATTATTTAAGTTTGCACTTAATATAA
8405 TATATTATTTAAGTTTGCACTTAATATAA
1 TATATTATTTAAGTTTGCACTTAATATAA
8434 TATATT
1 TATATT
8440 TGATTTTTGA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 35 1.00
ACGTcount: A:0.38, C:0.06, G:0.06, T:0.50
Consensus pattern (29 bp):
TATATTATTTAAGTTTGCACTTAATATAA
Found at i:8744 original size:16 final size:15
Alignment explanation
Indices: 8704--8753 Score: 64
Period size: 15 Copynumber: 3.3 Consensus size: 15
8694 CCAAAATGAG
*
8704 TTATTATATTTAAAA
1 TTATAATATTTAAAA
* *
8719 TTAAAATATTTATAAC
1 TTATAATATTTA-AAA
8735 TTATAATATTTAAAA
1 TTATAATATTTAAAA
8750 TTAT
1 TTAT
8754 TTGAATCCAT
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
15 16 0.55
16 13 0.45
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (15 bp):
TTATAATATTTAAAA
Found at i:15409 original size:20 final size:20
Alignment explanation
Indices: 15384--15438 Score: 80
Period size: 20 Copynumber: 2.9 Consensus size: 20
15374 TTTAAATTCA
*
15384 TTTTTAAATTTAAATTTATC
1 TTTTTAAATTTAAATTTAGC
15404 TTTTTAAATTTAAATTT-GC
1 TTTTTAAATTTAAATTTAGC
15423 --TTTAAATTTAAATTTA
1 TTTTTAAATTTAAATTTA
15439 ATCAAATTTG
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
17 15 0.45
19 1 0.03
20 17 0.52
ACGTcount: A:0.36, C:0.04, G:0.02, T:0.58
Consensus pattern (20 bp):
TTTTTAAATTTAAATTTAGC
Found at i:17388 original size:29 final size:28
Alignment explanation
Indices: 17350--17552 Score: 178
Period size: 29 Copynumber: 7.0 Consensus size: 28
17340 GAGGTCCCTA
**
17350 AACTGTCCAAAAATTATATTTTTACCCTCG
1 AACT-TCCAAAAATTCCATTTTTACCC-CG
* *
17380 AACTTCC-AAAATTTCATTTTCAACCCCG
1 AACTTCCAAAAATTCCATTTT-TACCCCG
*
17408 AAACTTCAAAAAATT-CATTTTTTACCCTCG
1 -AACTTCCAAAAATTCCA-TTTTTACCC-CG
* * *
17438 AACTTTCAAAAATTCCATTTGTGACCCCAA
1 AACTTCCAAAAATTCCATTT-TTACCCC-G
*
17468 AACTTCCAAAAATTCCATTTTTACCCCTA
1 AACTTCCAAAAATTCCATTTTTACCCC-G
* **
17497 AACTTCCAAAAATTCCATTTTCGACCCTAA
1 AACTTCCAAAAATTCCATTTT-TACCC-CG
17527 AACTTCCAAAAATTCCA-TTTTACCCC
1 AACTTCCAAAAATTCCATTTTTACCCC
17553 CGAAAATCCA
Statistics
Matches: 147, Mismatches: 16, Indels: 23
0.79 0.09 0.12
Matches are distributed among these distances:
28 17 0.12
29 66 0.45
30 64 0.44
ACGTcount: A:0.35, C:0.29, G:0.03, T:0.33
Consensus pattern (28 bp):
AACTTCCAAAAATTCCATTTTTACCCCG
Found at i:17465 original size:59 final size:60
Alignment explanation
Indices: 17349--17547 Score: 241
Period size: 59 Copynumber: 3.4 Consensus size: 60
17339 GGAGGTCCCT
* * * *
17349 AAACTGTCCAAAAATT--ATATTTTTACCCTCGAAC-TTCCAAAATTTCATTTTCAACCCCG
1 AAACT-TCCAAAAATTCCAT-TTTTTACCCTCGAACTTTCAAAAATTCCATTTTCGACCCCA
*
17408 AAACTTCAAAAAATT-CATTTTTTACCCTCGAACTTTCAAAAATTCCATTTGT-GACCCCA
1 AAACTTCCAAAAATTCCATTTTTTACCCTCGAACTTTCAAAAATTCCATTT-TCGACCCCA
* * *
17467 AAACTTCCAAAAATTCCA-TTTTTACCC-CTAAACTTCCAAAAATTCCATTTTCGACCCTA
1 AAACTTCCAAAAATTCCATTTTTTACCCTC-GAACTTTCAAAAATTCCATTTTCGACCCCA
17526 AAACTTCCAAAAATTCCATTTT
1 AAACTTCCAAAAATTCCATTTT
17548 ACCCCCGAAA
Statistics
Matches: 124, Mismatches: 9, Indels: 13
0.85 0.06 0.09
Matches are distributed among these distances:
58 26 0.21
59 92 0.74
60 6 0.05
ACGTcount: A:0.36, C:0.27, G:0.04, T:0.34
Consensus pattern (60 bp):
AAACTTCCAAAAATTCCATTTTTTACCCTCGAACTTTCAAAAATTCCATTTTCGACCCCA
Found at i:19627 original size:16 final size:16
Alignment explanation
Indices: 19606--19668 Score: 74
Period size: 16 Copynumber: 3.9 Consensus size: 16
19596 CACAAGAATT
19606 GAATAAGGTTGTAATA
1 GAATAAGGTTGTAATA
* *
19622 GAATAAGATTGTAATG
1 GAATAAGGTTGTAATA
19638 GAA-AAGAGTTGTAATA
1 GAATAAG-GTTGTAATA
* *
19654 AAATAAAGTTGTAAT
1 GAATAAGGTTGTAAT
19669 CAGTAATTCA
Statistics
Matches: 39, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
15 3 0.08
16 34 0.87
17 2 0.05
ACGTcount: A:0.48, C:0.00, G:0.22, T:0.30
Consensus pattern (16 bp):
GAATAAGGTTGTAATA
Found at i:23036 original size:6 final size:6
Alignment explanation
Indices: 23025--23063 Score: 51
Period size: 6 Copynumber: 6.5 Consensus size: 6
23015 TGATCAAAAT
* * *
23025 TGAAAG TGAAAG TGAAAG TGAAAT TGGAAT TGAAAG TGA
1 TGAAAG TGAAAG TGAAAG TGAAAG TGAAAG TGAAAG TGA
23064 TATGAATTGT
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:0.46, C:0.00, G:0.31, T:0.23
Consensus pattern (6 bp):
TGAAAG
Found at i:23212 original size:41 final size:40
Alignment explanation
Indices: 23167--23265 Score: 105
Period size: 38 Copynumber: 2.5 Consensus size: 40
23157 GACCTTGAGT
** * *
23167 CGATGAGACACTGGGTGTCATTATTTTACTTCGGATAGATC
1 CGATGAGACACTGGGTGTCACCACTTTACTTCGGATAG-GC
** *
23208 CGATGAGGTACT-GG-GT-ACCACTTTACTTCGGTTAGGC
1 CGATGAGACACTGGGTGTCACCACTTTACTTCGGATAGGC
23245 CGATGAGACACTGGGTGTCAC
1 CGATGAGACACTGGGTGTCAC
23266 TTTATTGCTT
Statistics
Matches: 46, Mismatches: 9, Indels: 7
0.74 0.15 0.11
Matches are distributed among these distances:
37 11 0.24
38 17 0.37
39 4 0.09
40 4 0.09
41 10 0.22
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.29
Consensus pattern (40 bp):
CGATGAGACACTGGGTGTCACCACTTTACTTCGGATAGGC
Found at i:23258 original size:37 final size:38
Alignment explanation
Indices: 23191--23269 Score: 97
Period size: 37 Copynumber: 2.1 Consensus size: 38
23181 GTGTCATTAT
* **
23191 TTTACTTCGGATAGATCCGATGAGGTACTGGGTACCAC
1 TTTACTTCGGATAGAGCCGATGAGACACTGGGTACCAC
* **
23229 TTTACTTCGGTTAG-GCCGATGAGACACTGGGTGTCAC
1 TTTACTTCGGATAGAGCCGATGAGACACTGGGTACCAC
23266 TTTA
1 TTTA
23270 TTGCTTTGAA
Statistics
Matches: 35, Mismatches: 6, Indels: 1
0.83 0.14 0.02
Matches are distributed among these distances:
37 22 0.63
38 13 0.37
ACGTcount: A:0.22, C:0.20, G:0.27, T:0.32
Consensus pattern (38 bp):
TTTACTTCGGATAGAGCCGATGAGACACTGGGTACCAC
Found at i:25236 original size:3 final size:3
Alignment explanation
Indices: 25230--25267 Score: 67
Period size: 3 Copynumber: 12.7 Consensus size: 3
25220 TGACACCACC
*
25230 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT GTT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
25268 CCGTCTCTAT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.32, C:0.00, G:0.03, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:28668 original size:46 final size:46
Alignment explanation
Indices: 28598--28685 Score: 158
Period size: 46 Copynumber: 1.9 Consensus size: 46
28588 TATAAAGTGG
28598 GGTCCAATTAAAATATCATAAAATGTGTTTTACATATTTTTATTTA
1 GGTCCAATTAAAATATCATAAAATGTGTTTTACATATTTTTATTTA
* *
28644 GGTCCAATTAAAATATCGTTAAATGTGTTTTACATATTTTTA
1 GGTCCAATTAAAATATCATAAAATGTGTTTTACATATTTTTA
28686 CTTGGATAAA
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
46 40 1.00
ACGTcount: A:0.35, C:0.09, G:0.10, T:0.45
Consensus pattern (46 bp):
GGTCCAATTAAAATATCATAAAATGTGTTTTACATATTTTTATTTA
Found at i:38562 original size:24 final size:23
Alignment explanation
Indices: 38529--38591 Score: 92
Period size: 24 Copynumber: 2.7 Consensus size: 23
38519 TCATTAGCAT
38529 TGTTCGTGAACATGTTTCA-TTATA
1 TGTTCGTGAACATGTTT-ATTTA-A
*
38553 TGTTCATGAACATGTTTATTTAA
1 TGTTCGTGAACATGTTTATTTAA
38576 TGTTCGTGAACATGTT
1 TGTTCGTGAACATGTT
38592 CGATTAAGTT
Statistics
Matches: 36, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
23 17 0.47
24 19 0.53
ACGTcount: A:0.25, C:0.11, G:0.17, T:0.46
Consensus pattern (23 bp):
TGTTCGTGAACATGTTTATTTAA
Found at i:38585 original size:23 final size:24
Alignment explanation
Indices: 38529--38591 Score: 94
Period size: 23 Copynumber: 2.7 Consensus size: 24
38519 TCATTAGCAT
38529 TGTTCGTGAACATGTTTCATTATA
1 TGTTCGTGAACATGTTTCATTATA
*
38553 TGTTCATGAACATGTTT-ATT-TAA
1 TGTTCGTGAACATGTTTCATTAT-A
38576 TGTTCGTGAACATGTT
1 TGTTCGTGAACATGTT
38592 CGATTAAGTT
Statistics
Matches: 36, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
22 1 0.03
23 19 0.53
24 16 0.44
ACGTcount: A:0.25, C:0.11, G:0.17, T:0.46
Consensus pattern (24 bp):
TGTTCGTGAACATGTTTCATTATA
Found at i:40028 original size:6 final size:6
Alignment explanation
Indices: 40017--40041 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
40007 AACGAAGCCA
40017 AGAAGC AGAAGC AGAAGC AGAAGC A
1 AGAAGC AGAAGC AGAAGC AGAAGC A
40042 ATTTGGATAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.52, C:0.16, G:0.32, T:0.00
Consensus pattern (6 bp):
AGAAGC
Found at i:40821 original size:19 final size:19
Alignment explanation
Indices: 40797--40834 Score: 60
Period size: 19 Copynumber: 2.0 Consensus size: 19
40787 ACCCATATTT
40797 TTTAATTTTATTT-TTCAAA
1 TTTAATTTT-TTTGTTCAAA
40816 TTTAATTTTTTTGTTCAAA
1 TTTAATTTTTTTGTTCAAA
40835 CCCTTACAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 3 0.17
19 15 0.83
ACGTcount: A:0.29, C:0.05, G:0.03, T:0.63
Consensus pattern (19 bp):
TTTAATTTTTTTGTTCAAA
Found at i:43847 original size:28 final size:28
Alignment explanation
Indices: 43815--43908 Score: 66
Period size: 28 Copynumber: 3.2 Consensus size: 28
43805 ATGGCTCCGT
43815 TATTAATGGGAGATAGTACTTATGCTCG
1 TATTAATGGGAGATAGTACTTATGCTCG
* * * **
43843 TATT-ATAGGTA-TTGGGTTCAAGTATGGCTCCG
1 TATTAAT-GGGAGAT-AG-T-ACTTAT-GCT-CG
43875 TTATTAATGGGAGATAGTACTTATGCTCG
1 T-ATTAATGGGAGATAGTACTTATGCTCG
43904 TATTA
1 TATTA
43909 TAGGTATTGG
Statistics
Matches: 47, Mismatches: 10, Indels: 18
0.63 0.13 0.24
Matches are distributed among these distances:
27 3 0.06
28 12 0.26
29 4 0.09
30 7 0.15
31 7 0.15
32 4 0.09
33 7 0.15
34 3 0.06
ACGTcount: A:0.27, C:0.11, G:0.24, T:0.38
Consensus pattern (28 bp):
TATTAATGGGAGATAGTACTTATGCTCG
Found at i:43893 original size:61 final size:61
Alignment explanation
Indices: 43798--43919 Score: 244
Period size: 61 Copynumber: 2.0 Consensus size: 61
43788 CAACTCTTTA
43798 TTCAAGTATGGCTCCGTTATTAATGGGAGATAGTACTTATGCTCGTATTATAGGTATTGGG
1 TTCAAGTATGGCTCCGTTATTAATGGGAGATAGTACTTATGCTCGTATTATAGGTATTGGG
43859 TTCAAGTATGGCTCCGTTATTAATGGGAGATAGTACTTATGCTCGTATTATAGGTATTGGG
1 TTCAAGTATGGCTCCGTTATTAATGGGAGATAGTACTTATGCTCGTATTATAGGTATTGGG
43920 AATTCTATTC
Statistics
Matches: 61, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
61 61 1.00
ACGTcount: A:0.25, C:0.11, G:0.26, T:0.38
Consensus pattern (61 bp):
TTCAAGTATGGCTCCGTTATTAATGGGAGATAGTACTTATGCTCGTATTATAGGTATTGGG
Found at i:46866 original size:13 final size:13
Alignment explanation
Indices: 46848--46873 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
46838 CAGGTAGCTG
46848 ATATTTTAACTAA
1 ATATTTTAACTAA
46861 ATATTTTAACTAA
1 ATATTTTAACTAA
46874 GCCATTGTCA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.08, G:0.00, T:0.46
Consensus pattern (13 bp):
ATATTTTAACTAA
Found at i:48397 original size:22 final size:22
Alignment explanation
Indices: 48345--48397 Score: 61
Period size: 22 Copynumber: 2.4 Consensus size: 22
48335 AATATGTTTC
* *
48345 ATGCCAACCCTATATATGTTAT
1 ATGCAAACCCTATATATGATAT
* *
48367 GTACAAACCCTATATATGATAT
1 ATGCAAACCCTATATATGATAT
*
48389 ATGCGAACC
1 ATGCAAACC
48398 ACTGTACATG
Statistics
Matches: 24, Mismatches: 7, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.36, C:0.23, G:0.11, T:0.30
Consensus pattern (22 bp):
ATGCAAACCCTATATATGATAT
Done.