Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01011171.1 Kokia drynarioides strain JFW-HI SEQ_126147, 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: 39147
ACGTcount: A:0.36, C:0.17, G:0.15, T:0.32
Warning! 11 characters in sequence are not A, C, G, or T
Found at i:1830 original size:27 final size:27
Alignment explanation
Indices: 1800--1875 Score: 66
Period size: 26 Copynumber: 2.9 Consensus size: 27
1790 TCTAAATTTG
1800 TTTTTATCCAATTTGGTACCTTGACAA
1 TTTTTATCCAATTTGGTACCTTGACAA
* * * ** ***
1827 TTTTTCT-TAATTTGTTACCTAAATTT
1 TTTTTATCCAATTTGGTACCTTGACAA
1853 TTTTTATCCAATTTGGTA-CTTGA
1 TTTTTATCCAATTTGGTACCTTGA
1876 ACTTGGTATT
Statistics
Matches: 35, Mismatches: 13, Indels: 3
0.69 0.25 0.06
Matches are distributed among these distances:
26 21 0.60
27 14 0.40
ACGTcount: A:0.24, C:0.14, G:0.09, T:0.53
Consensus pattern (27 bp):
TTTTTATCCAATTTGGTACCTTGACAA
Found at i:1856 original size:26 final size:26
Alignment explanation
Indices: 1773--1857 Score: 62
Period size: 26 Copynumber: 3.2 Consensus size: 26
1763 GAACTTGATA
* *
1773 TTTTTCCTAATTTGTTATCTAAATTT
1 TTTTTCTTAATTTGTTACCTAAATTT
* * * ** ***
1799 GTTTTTATCCAATTTGGTACCTTGACAA
1 -TTTTTCT-TAATTTGTTACCTAAATTT
1827 TTTTTCTTAATTTGTTACCTAAATTT
1 TTTTTCTTAATTTGTTACCTAAATTT
1853 TTTTT
1 TTTTT
1858 ATCCAATTTG
Statistics
Matches: 39, Mismatches: 18, Indels: 3
0.65 0.30 0.05
Matches are distributed among these distances:
26 17 0.44
27 11 0.28
28 11 0.28
ACGTcount: A:0.22, C:0.13, G:0.07, T:0.58
Consensus pattern (26 bp):
TTTTTCTTAATTTGTTACCTAAATTT
Found at i:1863 original size:53 final size:53
Alignment explanation
Indices: 1772--1875 Score: 174
Period size: 54 Copynumber: 2.0 Consensus size: 53
1762 TGAACTTGAT
*
1772 ATTTTTCCTAATTTGTTATCTAAATTTGTTTTTATCCAATTTGGTACCTTGACA
1 ATTTTTCCTAATTTGTTACCTAAATTTGTTTTTATCCAATTTGGTA-CTTGACA
*
1826 ATTTTTCTTAATTTGTTACCTAAATTT-TTTTTATCCAATTTGGTACTTGA
1 ATTTTTCCTAATTTGTTACCTAAATTTGTTTTTATCCAATTTGGTACTTGA
1876 ACTTGGTATT
Statistics
Matches: 48, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
52 5 0.10
53 18 0.38
54 25 0.52
ACGTcount: A:0.24, C:0.13, G:0.09, T:0.54
Consensus pattern (53 bp):
ATTTTTCCTAATTTGTTACCTAAATTTGTTTTTATCCAATTTGGTACTTGACA
Found at i:22181 original size:16 final size:17
Alignment explanation
Indices: 22157--22189 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
22147 GTTTTGCAAT
*
22157 TGCAGAAACAT-GAAAA
1 TGCAAAAACATGGAAAA
22173 TGCAAAAACATGGAAAA
1 TGCAAAAACATGGAAAA
22190 ATTAGTGTGC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.58, C:0.12, G:0.18, T:0.12
Consensus pattern (17 bp):
TGCAAAAACATGGAAAA
Found at i:29779 original size:94 final size:94
Alignment explanation
Indices: 29618--29808 Score: 373
Period size: 94 Copynumber: 2.0 Consensus size: 94
29608 AGGCGATAGC
29618 AATATGATCACTGCTACAATTCTTACTATTTTGATACAATTCTTATCTCTTTTTTATTGAAATCA
1 AATATGATCACTGCTACAATTCTTACTATTTTGATACAATTCTTATCTCTTTTTTATTGAAATCA
29683 TTTCTTGGGTTTTTTAAAAATATAAATTT
66 TTTCTTGGGTTTTTTAAAAATATAAATTT
*
29712 AATATGATCACTGCTACAATTCTTACTATTTTGATACAATTCTTTTCTCTTTTTTATTGAAATCA
1 AATATGATCACTGCTACAATTCTTACTATTTTGATACAATTCTTATCTCTTTTTTATTGAAATCA
29777 TTTCTTGGGTTTTTTAAAAATATAAATTT
66 TTTCTTGGGTTTTTTAAAAATATAAATTT
29806 AAT
1 AAT
29809 TATTAAATTC
Statistics
Matches: 96, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
94 96 1.00
ACGTcount: A:0.31, C:0.13, G:0.07, T:0.49
Consensus pattern (94 bp):
AATATGATCACTGCTACAATTCTTACTATTTTGATACAATTCTTATCTCTTTTTTATTGAAATCA
TTTCTTGGGTTTTTTAAAAATATAAATTT
Found at i:34929 original size:433 final size:433
Alignment explanation
Indices: 34123--34992 Score: 1704
Period size: 433 Copynumber: 2.0 Consensus size: 433
34113 AAAGAAGATG
*
34123 AGTTTATAACATATGATGACAATATGCAAAAAGATTGAGAATAAACAAACGCTATTCGTTTTACA
1 AGTTTATAACATATGATGACAATATGCAAAAAGATTGAGAATAAACAAACGATATTCGTTTTACA
34188 ATATAATAAAATGACTTATAAATGCTTGAATTCAAGTTGGAATATTAATTTAAATGCAATTAATT
66 ATATAATAAAATGACTTATAAATGCTTGAATTCAAGTTGGAATATTAATTTAAATGCAATTAATT
34253 AGGCGATAAATTTTAAAAATAATTACATAAGTTCAAATTCTTGAGTGCTCAACGAGTTTCTTAAT
131 AGGCGATAAATTTTAAAAATAATTACATAAGTTCAAATTCTTGAGTGCTCAACGAGTTTCTTAAT
*
34318 GTTTTTAGAATAGATTTGAGTCCCTAATAATGGGCCAGTAAGTTTCAGATAGTTTGTTTAAAGTG
196 GTTTTTAGAATAGATTTGAGTCCCTAATAATGGGCCAGTAAGTTTCAGATAGTTTGTCTAAAGTG
34383 AGCATCAACAGCAAGAAAATGTCTACATGAACGAATTGCATGATTTAATCTTAATTTAGGTGTTT
261 AGCATCAACAGCAAGAAAATGTCTACATGAACGAATTGCATGATTTAATCTTAATTTAGGTGTTT
34448 TGAATTTATTATGTTGCTGTACTAACCTTAACTATATTGCGGATATTGATTTTGAAGCGAGAGAA
326 TGAATTTATTATGTTGCTGTACTAACCTTAACTATATTGCGGATATTGATTTTGAAGCGAGAGAA
34513 TTGGTGAAGGCTCGAAATCGAAGAGCAAGGAGAAGGTGATCGA
391 TTGGTGAAGGCTCGAAATCGAAGAGCAAGGAGAAGGTGATCGA
34556 AGTTTATAACATATGATGACAATATGCAAAAAGATTGAGAATAAACAAACGATATTCGTTTTACA
1 AGTTTATAACATATGATGACAATATGCAAAAAGATTGAGAATAAACAAACGATATTCGTTTTACA
34621 ATATAATAAAATGACTTATAAATGCTTGAATTCAAGTTGGAATATTAATTTAAATGCAATTAATT
66 ATATAATAAAATGACTTATAAATGCTTGAATTCAAGTTGGAATATTAATTTAAATGCAATTAATT
34686 AGGCGATAAATTTTAAAAATAATTACATAAGTTCAAATTCTTGAGTGCTCAACGAGTTTCTTAAT
131 AGGCGATAAATTTTAAAAATAATTACATAAGTTCAAATTCTTGAGTGCTCAACGAGTTTCTTAAT
34751 GTTTTTAGAATAGATTTGAGTCCCTAATAATGGGCCAGTAAGTTTCAGATAGTTTGTCTAAAGTG
196 GTTTTTAGAATAGATTTGAGTCCCTAATAATGGGCCAGTAAGTTTCAGATAGTTTGTCTAAAGTG
*
34816 AGCATCAACAGCAAGAAAATGTCTACATGAACGAATTGCATGATTTAATTTTAATTTAGGTGTTT
261 AGCATCAACAGCAAGAAAATGTCTACATGAACGAATTGCATGATTTAATCTTAATTTAGGTGTTT
*
34881 TGATTTTATTATGTTGCTGTACTAACCTTAACTATATTGCGGATATTGATTTTGAAGCGAGAGAA
326 TGAATTTATTATGTTGCTGTACTAACCTTAACTATATTGCGGATATTGATTTTGAAGCGAGAGAA
34946 TTGGTGAAGGCTCGAAATCGAAGAGCAAGGAGAAGGTGATCGA
391 TTGGTGAAGGCTCGAAATCGAAGAGCAAGGAGAAGGTGATCGA
34989 AGTT
1 AGTT
34993 GTCAATTTGT
Statistics
Matches: 433, Mismatches: 4, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
433 433 1.00
ACGTcount: A:0.37, C:0.11, G:0.19, T:0.34
Consensus pattern (433 bp):
AGTTTATAACATATGATGACAATATGCAAAAAGATTGAGAATAAACAAACGATATTCGTTTTACA
ATATAATAAAATGACTTATAAATGCTTGAATTCAAGTTGGAATATTAATTTAAATGCAATTAATT
AGGCGATAAATTTTAAAAATAATTACATAAGTTCAAATTCTTGAGTGCTCAACGAGTTTCTTAAT
GTTTTTAGAATAGATTTGAGTCCCTAATAATGGGCCAGTAAGTTTCAGATAGTTTGTCTAAAGTG
AGCATCAACAGCAAGAAAATGTCTACATGAACGAATTGCATGATTTAATCTTAATTTAGGTGTTT
TGAATTTATTATGTTGCTGTACTAACCTTAACTATATTGCGGATATTGATTTTGAAGCGAGAGAA
TTGGTGAAGGCTCGAAATCGAAGAGCAAGGAGAAGGTGATCGA
Found at i:36016 original size:62 final size:63
Alignment explanation
Indices: 35950--36075 Score: 218
Period size: 63 Copynumber: 2.0 Consensus size: 63
35940 AACGTTGATG
*
35950 TATTGTTAGTTTTTGTAC-CGTGTTTAGCGTATTTTGACATATTTGGTATGTTGGACATGTGC
1 TATTGTTAGTTTTTGTACTCGCGTTTAGCGTATTTTGACATATTTGGTATGTTGGACATGTGC
* *
36012 TATTGTTAGTTTTTGTACTTGCGTTTAGCGTATTTTGATATATTTGGTATGTTGGACATGTGC
1 TATTGTTAGTTTTTGTACTCGCGTTTAGCGTATTTTGACATATTTGGTATGTTGGACATGTGC
36075 T
1 T
36076 CTGATCGGTA
Statistics
Matches: 60, Mismatches: 3, Indels: 1
0.94 0.05 0.02
Matches are distributed among these distances:
62 18 0.30
63 42 0.70
ACGTcount: A:0.17, C:0.09, G:0.24, T:0.50
Consensus pattern (63 bp):
TATTGTTAGTTTTTGTACTCGCGTTTAGCGTATTTTGACATATTTGGTATGTTGGACATGTGC
Found at i:38045 original size:7 final size:7
Alignment explanation
Indices: 38033--38076 Score: 65
Period size: 7 Copynumber: 6.6 Consensus size: 7
38023 ATCCTTTATT
38033 TTTAGGG
1 TTTAGGG
38040 TTTAGGG
1 TTTAGGG
38047 -TTAGGG
1 TTTAGGG
*
38053 TTTAAGG
1 TTTAGGG
38060 TTTAGGG
1 TTTAGGG
38067 -TTAGGG
1 TTTAGGG
38073 TTTA
1 TTTA
38077 TGGTCAGGGT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
6 12 0.36
7 21 0.64
ACGTcount: A:0.18, C:0.00, G:0.39, T:0.43
Consensus pattern (7 bp):
TTTAGGG
Found at i:38061 original size:20 final size:20
Alignment explanation
Indices: 38033--38076 Score: 79
Period size: 20 Copynumber: 2.2 Consensus size: 20
38023 ATCCTTTATT
*
38033 TTTAGGGTTTAGGGTTAGGG
1 TTTAAGGTTTAGGGTTAGGG
38053 TTTAAGGTTTAGGGTTAGGG
1 TTTAAGGTTTAGGGTTAGGG
38073 TTTA
1 TTTA
38077 TGGTCAGGGT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.18, C:0.00, G:0.39, T:0.43
Consensus pattern (20 bp):
TTTAAGGTTTAGGGTTAGGG
Found at i:38076 original size:13 final size:13
Alignment explanation
Indices: 38034--38074 Score: 57
Period size: 13 Copynumber: 3.2 Consensus size: 13
38024 TCCTTTATTT
38034 TTAGGGTTTAGGG
1 TTAGGGTTTAGGG
*
38047 TTAGGGTTTAAGGT
1 TTAGGGTTT-AGGG
38061 TTAGGG-TTAGGG
1 TTAGGGTTTAGGG
38073 TT
1 TT
38075 TATGGTCAGG
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
12 5 0.20
13 11 0.44
14 9 0.36
ACGTcount: A:0.17, C:0.00, G:0.41, T:0.41
Consensus pattern (13 bp):
TTAGGGTTTAGGG
Found at i:38403 original size:12 final size:12
Alignment explanation
Indices: 38374--38407 Score: 61
Period size: 11 Copynumber: 2.9 Consensus size: 12
38364 TAGGGTTCAA
38374 GGTTTAGGGTTG
1 GGTTTAGGGTTG
38386 GG-TTAGGGTTG
1 GGTTTAGGGTTG
38397 GGTTTAGGGTT
1 GGTTTAGGGTT
38408 TATGGTCAGG
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 11 0.52
12 10 0.48
ACGTcount: A:0.09, C:0.00, G:0.50, T:0.41
Consensus pattern (12 bp):
GGTTTAGGGTTG
Found at i:38708 original size:7 final size:7
Alignment explanation
Indices: 38696--38760 Score: 70
Period size: 7 Copynumber: 10.1 Consensus size: 7
38686 ATCCTTTATT
38696 TTTAGGG
1 TTTAGGG
38703 TTTAGGG
1 TTTAGGG
38710 TTTAGGG
1 TTTAGGG
38717 -TT-GGG
1 TTTAGGG
*
38722 -TTAAGG
1 TTTAGGG
38728 TTTAGGG
1 TTTAGGG
38735 -TT-GGG
1 TTTAGGG
38740 TTTAGGG
1 TTTAGGG
*
38747 TTTATGG
1 TTTAGGG
38754 -TTAGGG
1 TTTAGGG
38760 T
1 T
38761 CTAAAAATTT
Statistics
Matches: 49, Mismatches: 4, Indels: 10
0.78 0.06 0.16
Matches are distributed among these distances:
5 8 0.16
6 13 0.27
7 28 0.57
ACGTcount: A:0.14, C:0.00, G:0.43, T:0.43
Consensus pattern (7 bp):
TTTAGGG
Found at i:38731 original size:18 final size:18
Alignment explanation
Indices: 38708--38760 Score: 70
Period size: 18 Copynumber: 2.8 Consensus size: 18
38698 TAGGGTTTAG
38708 GGTTTAGGGTTGGGTTAA
1 GGTTTAGGGTTGGGTTAA
*
38726 GGTTTAGGGTTGGGTTTAG
1 GGTTTAGGGTTGGG-TTAA
*
38745 GGTTTATGGTTAGGGT
1 GGTTTAGGGTT-GGGT
38761 CTAAAAATTT
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
18 14 0.45
19 14 0.45
20 3 0.10
ACGTcount: A:0.13, C:0.00, G:0.45, T:0.42
Consensus pattern (18 bp):
GGTTTAGGGTTGGGTTAA
Found at i:38741 original size:12 final size:13
Alignment explanation
Indices: 38697--38748 Score: 65
Period size: 12 Copynumber: 4.2 Consensus size: 13
38687 TCCTTTATTT
38697 TTAGGGTTTAGGG
1 TTAGGGTTTAGGG
38710 TTTAGGG-TT-GGG
1 -TTAGGGTTTAGGG
*
38722 TTAAGGTTTAGGG
1 TTAGGGTTTAGGG
38735 TT-GGGTTTAGGG
1 TTAGGGTTTAGGG
38747 TT
1 TT
38749 TATGGTTAGG
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
11 5 0.15
12 16 0.47
13 7 0.21
14 6 0.18
ACGTcount: A:0.13, C:0.00, G:0.44, T:0.42
Consensus pattern (13 bp):
TTAGGGTTTAGGG
Found at i:38931 original size:341 final size:336
Alignment explanation
Indices: 37758--39147 Score: 2499
Period size: 341 Copynumber: 4.2 Consensus size: 336
37748 AAACAAATAA
*
37758 CTAAACATTTTGAATTTGAAGCTTATATAACATGTACTCCAAAGACATAGACATACAAAAAACTT
1 CTAAAAATTTTGAATTTGAAGCTTATATAACATGTACTCCAAAGACATAGACATACAAAAAACTT
37823 CAAACAATTTCATTGCACACATGTGCAAAAACAGTTAACAGCCACTTTTGTGCTAAAACAGGCTT
66 CAAACAATTTCATTGCACACATGTGCAAAAACAGTTAACAGCCACTTTTGTGCTAAAACAGGCTT
37888 AAGCAAAATGGCTTACGAACCATGTTAGATTCAACCCCAATAGTATAGCACCTAATAAACATATG
131 AAGCAAAATGGCTTACGAACCATGTTAGATTCAACCCCAATAGTATAGCACCTAATAAACATATG
*
37953 GGTGGATGTATAGTGATTATTAAGGATAAATTTACGCGTACAATAACTAGAATGCTGTAAATAAT
196 GGTGGATGTATAGTGATTATTAAGGATAAATTTATGCGTACAATAACTAGAATGCTGTAAATAAT
38018 GATTGATCCTTTATTTTTAGGGTTTAGGG-TTAGGGTTTAAGGTTTA-----GGG-TTAGGGTTT
261 GATTGATCCTTTATTTTTAGGGTTTAGGGTTTAGGGTTTAAGGTTTAGGGTTGGGTTTAGGGTTT
38076 ATGGTCAGGGT
326 ATGGTCAGGGT
38087 CTAAAAATTTTGAATTTGAAGCTTATATAACATGTACTCCAAAGACATAGACATACAAAAAACTT
1 CTAAAAATTTTGAATTTGAAGCTTATATAACATGTACTCCAAAGACATAGACATACAAAAAACTT
38152 CAAACAATTTCATTGCACACATGTGCAAAAACAGTTAACAGCCACTTTTGTGCTAAAACAGGCTT
66 CAAACAATTTCATTGCACACATGTGCAAAAACAGTTAACAGCCACTTTTGTGCTAAAACAGGCTT
38217 AAGCAAAATGGCTTACGAACCATGTTAGATTCAACCCCAATAGTATAGCACCTAATAAACATATG
131 AAGCAAAATGGCTTACGAACCATGTTAGATTCAACCCCAATAGTATAGCACCTAATAAACATATG
38282 GGTGGATGTATAGTGATTATTAAGGATAAATTTATGCGTACAATAACTAGAATGCTGTAAATAAT
196 GGTGGATGTATAGTGATTATTAAGGATAAATTTATGCGTACAATAACTAGAATGCTGTAAATAAT
* * *
38347 GATTGATCCTTTATTTTTAGGGTTCAAGGTTTAGGG-TT--GGGTTAGGGTTGGGTTTAGGGTTT
261 GATTGATCCTTTATTTTTAGGGTTTAGGGTTTAGGGTTTAAGGTTTAGGGTTGGGTTTAGGGTTT
38409 ATGGTCAGGGT
326 ATGGTCAGGGT
* *
38420 CTAAAAATTTTGAATTTGAAACTTATATAACATGTACTCCAAAGACACAGACATACAAAAAACTT
1 CTAAAAATTTTGAATTTGAAGCTTATATAACATGTACTCCAAAGACATAGACATACAAAAAACTT
38485 CAAACAATTTCATTGCACACATGTGCAAAAACATGTTAACAGCCACTTTTGTGCTAAAACAGGCT
66 CAAACAATTTCATTGCACACATGTGCAAAAACA-GTTAACAGCCACTTTTGTGCTAAAACAGGCT
38550 TAAGCAAAATGGCTTACGAACCATGTTAGATTCAACCCCAATAGTATAGCACCTAATAAACATAT
130 TAAGCAAAATGGCTTACGAACCATGTTAGATTCAACCCCAATAGTATAGCACCTAATAAACATAT
38615 GGGTGGATGTATAGTGATTATTAAGGATAAATTTATGCGTACAATAACTAGAATGCTGTAAATAA
195 GGGTGGATGTATAGTGATTATTAAGGATAAATTTATGCGTACAATAACTAGAATGCTGTAAATAA
38680 TGATTGATCCTTTATTTTTAGGGTTTAGGGTTTAGGGTTGGGTTAAGGTTTAGGGTTGGGTTTAG
260 TGATTGATCCTTTATTTTTAGGGTTTAGGGTTTAGGG-T---TTAAGGTTTAGGGTTGGGTTTAG
*
38745 GGTTTATGGTTAGGGT
321 GGTTTATGGTCAGGGT
*
38761 CTAAAAATTTTGAATTTGAAGCTTATATAACATGTACTCCAAAGACACAGACATACAAAAAACTT
1 CTAAAAATTTTGAATTTGAAGCTTATATAACATGTACTCCAAAGACATAGACATACAAAAAACTT
38826 CAAACAATTTCATTGCACACATGTGCAAAAACATGTTAACAGCCACTTTTGTGCTAAAACAGGCT
66 CAAACAATTTCATTGCACACATGTGCAAAAACA-GTTAACAGCCACTTTTGTGCTAAAACAGGCT
*
38891 TAAGCAAAATGGCTTACGAACCATGTTAGATTCAACCCCAATAGTATAGAACCTAATAAACATAT
130 TAAGCAAAATGGCTTACGAACCATGTTAGATTCAACCCCAATAGTATAGCACCTAATAAACATAT
38956 GGGTGGATGTATAGTGATTATTAAGGATAAATTTATGCGTACAATAACTAGAATGCTGTAAATAA
195 GGGTGGATGTATAGTGATTATTAAGGATAAATTTATGCGTACAATAACTAGAATGCTGTAAATAA
* *
39021 TGATTGATCCTTTATTTTTA------A-GGTTTAGGGTTTAGGGTTTAGCGTTGGGTTTAGGGTT
260 TGATTGATCCTTTATTTTTAGGGTTTAGGGTTTAGGGTTTAAGGTTTAGGGTTGGGTTTAGGGTT
39079 TATGGTCAGGGT
325 TATGGTCAGGGT
39091 CTAAAAATTTTGAATTTGAAGCTTATATAACATGTACTCCAAAGACATAGACATACA
1 CTAAAAATTTTGAATTTGAAGCTTATATAACATGTACTCCAAAGACATAGACATACA
Statistics
Matches: 1029, Mismatches: 17, Indels: 29
0.96 0.02 0.03
Matches are distributed among these distances:
327 5 0.00
329 287 0.28
330 98 0.10
332 3 0.00
333 117 0.11
334 205 0.20
335 1 0.00
339 2 0.00
341 311 0.30
ACGTcount: A:0.36, C:0.14, G:0.19, T:0.31
Consensus pattern (336 bp):
CTAAAAATTTTGAATTTGAAGCTTATATAACATGTACTCCAAAGACATAGACATACAAAAAACTT
CAAACAATTTCATTGCACACATGTGCAAAAACAGTTAACAGCCACTTTTGTGCTAAAACAGGCTT
AAGCAAAATGGCTTACGAACCATGTTAGATTCAACCCCAATAGTATAGCACCTAATAAACATATG
GGTGGATGTATAGTGATTATTAAGGATAAATTTATGCGTACAATAACTAGAATGCTGTAAATAAT
GATTGATCCTTTATTTTTAGGGTTTAGGGTTTAGGGTTTAAGGTTTAGGGTTGGGTTTAGGGTTT
ATGGTCAGGGT
Found at i:39052 original size:7 final size:7
Alignment explanation
Indices: 39037--39080 Score: 56
Period size: 7 Copynumber: 6.6 Consensus size: 7
39027 ATCCTTTATT
*
39037 TTTAAGG
1 TTTAGGG
39044 TTTAGGG
1 TTTAGGG
39051 TTTAGGG
1 TTTAGGG
*
39058 TTTAGCG
1 TTTAGGG
39065 -TT-GGG
1 TTTAGGG
39070 TTTAGGG
1 TTTAGGG
39077 TTTA
1 TTTA
39081 TGGTCAGGGT
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
5 2 0.06
6 4 0.12
7 26 0.81
ACGTcount: A:0.16, C:0.02, G:0.36, T:0.45
Consensus pattern (7 bp):
TTTAGGG
Done.