Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01007990.1 Kokia drynarioides strain JFW-HI SEQ_122642, 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: 77850
ACGTcount: A:0.35, C:0.16, G:0.16, T:0.33
Warning! 60 characters in sequence are not A, C, G, or T
Found at i:12946 original size:14 final size:14
Alignment explanation
Indices: 12927--12956 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
12917 AAATAGATCT
12927 TAGGTTATAATCGG
1 TAGGTTATAATCGG
12941 TAGGTTATAATCGG
1 TAGGTTATAATCGG
12955 TA
1 TA
12957 TGTAGGCAAG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.30, C:0.07, G:0.27, T:0.37
Consensus pattern (14 bp):
TAGGTTATAATCGG
Found at i:13597 original size:22 final size:24
Alignment explanation
Indices: 13549--13597 Score: 57
Period size: 22 Copynumber: 2.1 Consensus size: 24
13539 AACAGTATTT
*
13549 TTAAAAAACATCAACAAAAATTGA
1 TTAAAAAACATCAACAAAAATTAA
* *
13573 TTAAAATA-ATCAAC-AATATTAA
1 TTAAAAAACATCAACAAAAATTAA
13595 TTA
1 TTA
13598 TTTGAATTAA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
22 9 0.41
23 6 0.27
24 7 0.32
ACGTcount: A:0.59, C:0.10, G:0.02, T:0.29
Consensus pattern (24 bp):
TTAAAAAACATCAACAAAAATTAA
Found at i:13991 original size:15 final size:16
Alignment explanation
Indices: 13971--14004 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
13961 TTTTCAAAAT
*
13971 AATTTATA-ATTTTAG
1 AATTTATATATTTAAG
13986 AATTTATATATTTAAG
1 AATTTATATATTTAAG
14002 AAT
1 AAT
14005 GAATTTTTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 8 0.47
16 9 0.53
ACGTcount: A:0.44, C:0.00, G:0.06, T:0.50
Consensus pattern (16 bp):
AATTTATATATTTAAG
Found at i:14545 original size:33 final size:32
Alignment explanation
Indices: 14440--14555 Score: 121
Period size: 33 Copynumber: 3.6 Consensus size: 32
14430 CATCTAAAAT
* *
14440 TTTAAATTAATTTATATTTTATGTATTATTATA
1 TTTAAATT-ATTTAAATATTATGTATTATTATA
*
14473 -TTAAATTATTTAAATAATTCATGTATCATTA-A
1 TTTAAATTATTTAAAT-ATT-ATGTATTATTATA
* *
14505 ATTAAATTATTTAAATATTATTTATTATTATA
1 TTTAAATTATTTAAATATTATGTATTATTATA
*
14537 TTTAAAATT-TTAAAATATT
1 TTT-AAATTATTTAAATATT
14556 TTATGTGTAA
Statistics
Matches: 71, Mismatches: 7, Indels: 11
0.80 0.08 0.12
Matches are distributed among these distances:
31 16 0.23
32 25 0.35
33 30 0.42
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.54
Consensus pattern (32 bp):
TTTAAATTATTTAAATATTATGTATTATTATA
Found at i:14569 original size:65 final size:65
Alignment explanation
Indices: 14441--14572 Score: 160
Period size: 65 Copynumber: 2.0 Consensus size: 65
14431 ATCTAAAATT
* * * *
14441 TTAAATTAATTTATATTTTATGTATTATTATATTAAATTATTTAAATAATTCATGTATCATTAAA
1 TTAAATTAATTTAAATATTATGTATTATTATATTAAATTATTAAAATAATTCATGTATAATTAAA
* * * *
14506 TTAAATT-ATTTAAATATTATTTATTATTATATTTAAAATT-TTAAAATATTTTATGTGTAATTA
1 TTAAATTAATTTAAATATTATGTATTATTATA-TT-AAATTATTAAAATAATTCATGTATAATTA
14569 AA
64 AA
14571 TT
1 TT
14573 TACAAATAAT
Statistics
Matches: 57, Mismatches: 8, Indels: 4
0.83 0.12 0.06
Matches are distributed among these distances:
64 21 0.37
65 31 0.54
66 5 0.09
ACGTcount: A:0.42, C:0.02, G:0.03, T:0.54
Consensus pattern (65 bp):
TTAAATTAATTTAAATATTATGTATTATTATATTAAATTATTAAAATAATTCATGTATAATTAAA
Found at i:32669 original size:18 final size:18
Alignment explanation
Indices: 32646--32682 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
32636 TTTGTGATCA
32646 AAATTGAAAGTGAAAGTG
1 AAATTGAAAGTGAAAGTG
* *
32664 AAATTGGAATTGAAAGTG
1 AAATTGAAAGTGAAAGTG
32682 A
1 A
32683 TATGAATTCT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.49, C:0.00, G:0.27, T:0.24
Consensus pattern (18 bp):
AAATTGAAAGTGAAAGTG
Found at i:35169 original size:197 final size:193
Alignment explanation
Indices: 34775--35169 Score: 479
Period size: 196 Copynumber: 2.0 Consensus size: 193
34765 ATTTTTTGGA
* * *
34775 TTGTTCATTTGTTTCTCTTCTTCTTGTTTGTTTCCTAAGAAAATGCAAAAATAACTTCAAAAAAC
1 TTGTTCATTTGTCTCTCTTCTTCTTATTTGTTTCCCAAGAAAATGCAAAAATAACTTCAAAAAAC
*
34840 CATAAATGTTTTACTAGATTTGAAGATTTGATTAAGTTTTTGCCTTCTCTCACCAAACTCATACC
66 CATAAATGTTTTACTAAATTTGAAGATTTGATTAAG--TTT--CTTCTCTCACCAAACTCATACC
* *
34905 GGAATTGAATTGAGTCCTTGAAAGTGTTTGGAGAAAGAAACAGTTGATTTTAGACTCCTTTTTGT
127 GGAATTGAATTGAGTCCTTAAAAGTGTTTGAAGAAAGAAACAGTTGATTTTAGACTCCTTTTTGT
34970 TT
192 TT
* *
34972 TTGTTCATTTGTCTCTTTTCTTCTTATTTGTTTCCCAAGAAAATGCAAAAATAACTTCAAGAAAC
1 TTGTTCATTTGTCTCTCTTCTTCTTATTTGTTTCCCAAGAAAATGCAAAAATAACTTCAAAAAAC
*** * * *
35037 CATTTTTTTTTTATATTTCTAAATTTGAGGATTTGATTAAG-TT-TTCTCTCACCAAACTCATTC
66 CA-TAAATGTTT-TA---CTAAATTTGAAGATTTGATTAAGTTTCTTCTCTCACCAAACTCATAC
** * ** * * * *
35100 TTGAGTTGAATTGAGTTTTTAAAAGTGTTTGAAGGAAGAAGCAGTTGATTTTGGACTTCTTTCTT
126 CGGAATTGAATTGAGTCCTTAAAAGTGTTTGAAGAAAGAAACAGTTGATTTTAGACTCCTTT-TT
35165 GTTT
190 GTTT
35169 T
1 T
35170 CTTGCTATTT
Statistics
Matches: 169, Mismatches: 23, Indels: 12
0.83 0.11 0.06
Matches are distributed among these distances:
196 70 0.41
197 69 0.41
198 5 0.03
199 4 0.02
202 21 0.12
ACGTcount: A:0.28, C:0.14, G:0.14, T:0.43
Consensus pattern (193 bp):
TTGTTCATTTGTCTCTCTTCTTCTTATTTGTTTCCCAAGAAAATGCAAAAATAACTTCAAAAAAC
CATAAATGTTTTACTAAATTTGAAGATTTGATTAAGTTTCTTCTCTCACCAAACTCATACCGGAA
TTGAATTGAGTCCTTAAAAGTGTTTGAAGAAAGAAACAGTTGATTTTAGACTCCTTTTTGTTT
Found at i:35371 original size:25 final size:27
Alignment explanation
Indices: 35334--35389 Score: 71
Period size: 25 Copynumber: 2.1 Consensus size: 27
35324 AAACAAGGAG
*
35334 AAAAGAAATAAATAAACAA-AAAA-AA
1 AAAAGAAAGAAATAAACAAGAAAACAA
* *
35359 AAAAGAAAGAAATTACCAAGAAAACAA
1 AAAAGAAAGAAATAAACAAGAAAACAA
35386 AAAA
1 AAAA
35390 AATAAATCGA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
25 16 0.62
26 4 0.15
27 6 0.23
ACGTcount: A:0.79, C:0.07, G:0.07, T:0.07
Consensus pattern (27 bp):
AAAAGAAAGAAATAAACAAGAAAACAA
Found at i:35396 original size:25 final size:24
Alignment explanation
Indices: 35334--35396 Score: 63
Period size: 25 Copynumber: 2.5 Consensus size: 24
35324 AAACAAGGAG
*
35334 AAAAGAAATAAATAAACAAAAAAA
1 AAAAAAAATAAATAAACAAAAAAA
* * * *
35358 AAAAAGAAAGAAATTACCAAGAAAAC
1 AAAAA-AAATAAATAAACAA-AAAAA
35384 AAAAAAAATAAAT
1 AAAAAAAATAAAT
35397 CGAAAATCAA
Statistics
Matches: 31, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
24 4 0.13
25 18 0.58
26 9 0.29
ACGTcount: A:0.78, C:0.06, G:0.06, T:0.10
Consensus pattern (24 bp):
AAAAAAAATAAATAAACAAAAAAA
Found at i:36857 original size:18 final size:18
Alignment explanation
Indices: 36836--36900 Score: 55
Period size: 18 Copynumber: 3.7 Consensus size: 18
36826 AAATAATATT
36836 TAAAATTTCAAATATTTA
1 TAAAATTTCAAATATTTA
*
36854 TAAAAATTCCAAA-ATTTA
1 T-AAAATTTCAAATATTTA
** *
36872 T-ATTTTTAAAATA-TTA
1 TAAAATTTCAAATATTTA
36888 TAAAATTTTCAAA
1 TAAAA-TTTCAAA
36901 AAAATTCTAA
Statistics
Matches: 35, Mismatches: 8, Indels: 8
0.69 0.16 0.16
Matches are distributed among these distances:
16 10 0.29
17 2 0.06
18 13 0.37
19 10 0.29
ACGTcount: A:0.51, C:0.06, G:0.00, T:0.43
Consensus pattern (18 bp):
TAAAATTTCAAATATTTA
Found at i:36859 original size:19 final size:18
Alignment explanation
Indices: 36837--36873 Score: 56
Period size: 19 Copynumber: 2.0 Consensus size: 18
36827 AATAATATTT
*
36837 AAAATTTCAAATATTTATA
1 AAAATTCCAAA-ATTTATA
36856 AAAATTCCAAAATTTATA
1 AAAATTCCAAAATTTATA
36874 TTTTTAAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 7 0.41
19 10 0.59
ACGTcount: A:0.54, C:0.08, G:0.00, T:0.38
Consensus pattern (18 bp):
AAAATTCCAAAATTTATA
Found at i:37334 original size:20 final size:20
Alignment explanation
Indices: 37271--37343 Score: 83
Period size: 20 Copynumber: 3.4 Consensus size: 20
37261 AATTATATTG
37271 TTGTTTTGATGCTGTTTTTATTA
1 TTGTTTTGATGC--TTTTT-TTA
* *
37294 TTATTTTGGTTGCTGTTTTTTA
1 TTGTTTT-GATGCT-TTTTTTA
37316 TTGTTTTGATGCTTTTTTTA
1 TTGTTTTGATGCTTTTTTTA
37336 TTGTTTTG
1 TTGTTTTG
37344 GTTGTTATTT
Statistics
Matches: 44, Mismatches: 4, Indels: 7
0.80 0.07 0.13
Matches are distributed among these distances:
20 15 0.34
21 5 0.11
22 10 0.23
23 10 0.23
24 4 0.09
ACGTcount: A:0.10, C:0.04, G:0.18, T:0.68
Consensus pattern (20 bp):
TTGTTTTGATGCTTTTTTTA
Found at i:37420 original size:43 final size:43
Alignment explanation
Indices: 37339--37465 Score: 130
Period size: 43 Copynumber: 2.8 Consensus size: 43
37329 TTTTTTATTG
* * *
37339 TTTTGGTTGTTATTTTCGTGTTGTTTTTGCAGTTATTTTTGTTGCTA
1 TTTTGGTTGTTA-TTT-ATGTTG--TTTGCTGTTATTTTTGCTGCTA
* *
37386 TTTTTGTTGTT-TTTAATGTTGTTTGCTGTTATTTTTGCTGCTG
1 TTTTGGTTGTTATTT-ATGTTGTTTGCTGTTATTTTTGCTGCTA
* *
37429 TTTTGGTTGTTATTTTTGTTGTTTGGATGTTATTTTT
1 TTTTGGTTGTTATTTATGTTGTTT-GCTGTTATTTTT
37466 TTATGCGTTT
Statistics
Matches: 69, Mismatches: 9, Indels: 7
0.81 0.11 0.08
Matches are distributed among these distances:
43 37 0.54
44 14 0.20
45 8 0.12
47 10 0.14
ACGTcount: A:0.08, C:0.05, G:0.21, T:0.66
Consensus pattern (43 bp):
TTTTGGTTGTTATTTATGTTGTTTGCTGTTATTTTTGCTGCTA
Found at i:37446 original size:24 final size:23
Alignment explanation
Indices: 37337--37444 Score: 62
Period size: 24 Copynumber: 4.8 Consensus size: 23
37327 CTTTTTTTAT
* *
37337 TGTTTTGGTTGTTATTTTCGTGT
1 TGTTTTTGTTGTTATTTTCGTGC
** *
37360 TGTTTTTGCAGTTATTTTTGTTGC
1 TGTTTTTGTTGTTATTTTCG-TGC
* **
37384 TATTTTTGTTG-T-TTTTAATG-
1 TGTTTTTGTTGTTATTTTCGTGC
* * *
37404 T-TGTTTGCTGTTATTTTTGCTGC
1 TGTTTTTGTTGTTATTTTCG-TGC
*
37427 TGTTTTGGTTGTTATTTT
1 TGTTTTTGTTGTTATTTT
37445 TGTTGTTTGG
Statistics
Matches: 62, Mismatches: 17, Indels: 11
0.69 0.19 0.12
Matches are distributed among these distances:
19 7 0.11
20 2 0.03
21 6 0.10
22 6 0.10
23 18 0.29
24 23 0.37
ACGTcount: A:0.07, C:0.06, G:0.21, T:0.66
Consensus pattern (23 bp):
TGTTTTTGTTGTTATTTTCGTGC
Found at i:39223 original size:14 final size:13
Alignment explanation
Indices: 39189--39213 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
39179 ATTAAATTTT
39189 ATATATTTTTAAA
1 ATATATTTTTAAA
39202 ATATATTTTTAA
1 ATATATTTTTAA
39214 TAATCAATTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (13 bp):
ATATATTTTTAAA
Found at i:42142 original size:6 final size:6
Alignment explanation
Indices: 42127--42158 Score: 55
Period size: 6 Copynumber: 5.3 Consensus size: 6
42117 AGAAAATTGA
*
42127 AAAAAG AAAAAA AAAAAG AAAAAG AAAAAG AA
1 AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG AA
42159 TAGTACTGGT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (6 bp):
AAAAAG
Found at i:42359 original size:19 final size:21
Alignment explanation
Indices: 42335--42374 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 21
42325 TTAGTGATTT
42335 TTTTC-AATTT-TTAATTTTA
1 TTTTCAAATTTATTAATTTTA
42354 TTTTCAAATTTAATTAATTTT
1 TTTTCAAATTT-ATTAATTTT
42375 GATGATGTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 5 0.28
20 5 0.28
22 8 0.44
ACGTcount: A:0.30, C:0.05, G:0.00, T:0.65
Consensus pattern (21 bp):
TTTTCAAATTTATTAATTTTA
Found at i:44071 original size:5 final size:6
Alignment explanation
Indices: 44056--44080 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
44046 TCTCTCCATT
44056 TTTTTG TTTTTG TTTTTG TTTTTG T
1 TTTTTG TTTTTG TTTTTG TTTTTG T
44081 GGGGGATAAG
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:0.00, C:0.00, G:0.16, T:0.84
Consensus pattern (6 bp):
TTTTTG
Found at i:45389 original size:14 final size:14
Alignment explanation
Indices: 45372--45414 Score: 50
Period size: 14 Copynumber: 2.9 Consensus size: 14
45362 AAATATTGAA
45372 AATAATTTTATATT
1 AATAATTTTATATT
*
45386 AATACTTTTATATTT
1 AATAATTTTATA-TT
*
45401 TATAATTTTTATAT
1 AATAA-TTTTATAT
45415 ATAAGATATA
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
14 11 0.46
15 6 0.25
16 7 0.29
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.60
Consensus pattern (14 bp):
AATAATTTTATATT
Found at i:48113 original size:33 final size:35
Alignment explanation
Indices: 48070--48135 Score: 100
Period size: 33 Copynumber: 1.9 Consensus size: 35
48060 TTCTTTACTT
*
48070 AAAAAGAGTTTTCATGCTTAG-A-ATTTTTTTTAA
1 AAAAAAAGTTTTCATGCTTAGAAGATTTTTTTTAA
*
48103 AAAAAAAGTTTTCATGTTTAGAAGATTTTTTTT
1 AAAAAAAGTTTTCATGCTTAGAAGATTTTTTTT
48136 TTTTTATTTC
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
33 19 0.66
34 1 0.03
35 9 0.31
ACGTcount: A:0.36, C:0.05, G:0.12, T:0.47
Consensus pattern (35 bp):
AAAAAAAGTTTTCATGCTTAGAAGATTTTTTTTAA
Found at i:56761 original size:11 final size:11
Alignment explanation
Indices: 56747--56806 Score: 66
Period size: 11 Copynumber: 5.5 Consensus size: 11
56737 AGGTCCAAAC
*
56747 AATAACAACAA
1 AATAATAACAA
*
56758 AATAGTAACAA
1 AATAATAACAA
*
56769 TATAATAACAA
1 AATAATAACAA
* *
56780 AATGACAACAA
1 AATAATAACAA
*
56791 AACAATAACAA
1 AATAATAACAA
56802 AATAA
1 AATAA
56807 AAGCAAAAAA
Statistics
Matches: 38, Mismatches: 11, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
11 38 1.00
ACGTcount: A:0.68, C:0.13, G:0.03, T:0.15
Consensus pattern (11 bp):
AATAATAACAA
Found at i:56790 original size:33 final size:33
Alignment explanation
Indices: 56751--56814 Score: 85
Period size: 33 Copynumber: 1.9 Consensus size: 33
56741 CCAAACAATA
* * *
56751 ACAACAAAATAGTAACAATATAATAA-CAAAATG
1 ACAACAAAACAATAACAAAATAA-AAGCAAAATG
56784 ACAACAAAACAATAACAAAATAAAAGCAAAA
1 ACAACAAAACAATAACAAAATAAAAGCAAAA
56815 AAAATTAGGC
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
32 2 0.07
33 25 0.93
ACGTcount: A:0.69, C:0.14, G:0.05, T:0.12
Consensus pattern (33 bp):
ACAACAAAACAATAACAAAATAAAAGCAAAATG
Found at i:56813 original size:22 final size:22
Alignment explanation
Indices: 56772--56814 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
56762 GTAACAATAT
*
56772 AATAACAAAATGACAACAAAAC
1 AATAACAAAATGAAAACAAAAC
56794 AATAACAAAAT-AAAAGCAAAA
1 AATAACAAAATGAAAA-CAAAA
56815 AAAATTAGGC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 3 0.16
22 16 0.84
ACGTcount: A:0.72, C:0.14, G:0.05, T:0.09
Consensus pattern (22 bp):
AATAACAAAATGAAAACAAAAC
Found at i:67965 original size:6 final size:6
Alignment explanation
Indices: 67950--67980 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
67940 ATCTCATATT
*
67950 TCCACA TCCACG TCCACA TCCACA TCCACA T
1 TCCACA TCCACA TCCACA TCCACA TCCACA T
67981 TCACCAAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.29, C:0.48, G:0.03, T:0.19
Consensus pattern (6 bp):
TCCACA
Found at i:68322 original size:15 final size:16
Alignment explanation
Indices: 68291--68323 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
68281 CCTAACTCGT
68291 TTTTAATTTTATAATA
1 TTTTAATTTTATAATA
*
68307 TTTTATTTTTAT-ATA
1 TTTTAATTTTATAATA
68322 TT
1 TT
68324 ATGTAATTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 5 0.31
16 11 0.69
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (16 bp):
TTTTAATTTTATAATA
Found at i:77813 original size:16 final size:15
Alignment explanation
Indices: 77772--77850 Score: 79
Period size: 15 Copynumber: 5.3 Consensus size: 15
77762 ACAAGAAAAT
* *
77772 CCAAA-ACAAAAGTC
1 CCAAATACAAATGGC
*
77786 CCAATTACAAATGGC
1 CCAAATACAAATGGC
77801 CCAAATAACAAATGGC
1 CCAAAT-ACAAATGGC
** *
77817 CCAGTTACAGATGGC
1 CCAAATACAAATGGC
*
77832 CCAAATACAAATGGT
1 CCAAATACAAATGGC
77847 CCAA
1 CCAA
Statistics
Matches: 52, Mismatches: 11, Indels: 3
0.79 0.17 0.05
Matches are distributed among these distances:
14 4 0.08
15 35 0.67
16 13 0.25
ACGTcount: A:0.44, C:0.27, G:0.14, T:0.15
Consensus pattern (15 bp):
CCAAATACAAATGGC
Found at i:77825 original size:31 final size:31
Alignment explanation
Indices: 77776--77850 Score: 98
Period size: 31 Copynumber: 2.5 Consensus size: 31
77766 GAAAATCCAA
* *
77776 AACAAAAGTCCCAATTACAAATGGCCCAAAT
1 AACAAATGGCCCAATTACAAATGGCCCAAAT
* *
77807 AACAAATGGCCCAGTTACAGATGGCCCAAAT
1 AACAAATGGCCCAATTACAAATGGCCCAAAT
*
77838 -ACAAATGGTCCAA
1 AACAAATGGCCCAA
Statistics
Matches: 38, Mismatches: 6, Indels: 1
0.84 0.13 0.02
Matches are distributed among these distances:
30 11 0.29
31 27 0.71
ACGTcount: A:0.44, C:0.25, G:0.15, T:0.16
Consensus pattern (31 bp):
AACAAATGGCCCAATTACAAATGGCCCAAAT
Done.