Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01014021.1 Kokia drynarioides strain JFW-HI SEQ_129052, 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: 74123
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Warning! 67 characters in sequence are not A, C, G, or T
Found at i:2874 original size:68 final size:68
Alignment explanation
Indices: 2760--2896 Score: 265
Period size: 68 Copynumber: 2.0 Consensus size: 68
2750 AATTCTCTTG
2760 GGTTCGAGTTTGTGCTTTGTTCTCTCCTTGTAATTACCAACAAAAAAAACCAACCATAATTATAG
1 GGTTCGAGTTTGTGCTTTGTTCTCTCCTTGTAATTACCAACAAAAAAAACCAACCATAATTATAG
2825 TTA
66 TTA
2828 GGTTCGAGTTTGTGCTTTGTTCTCTCCTTGTAATTCACCAACAAAAAAAACCAACCATAATTATA
1 GGTTCGAGTTTGTGCTTTGTTCTCTCCTTGTAATT-ACCAACAAAAAAAACCAACCATAATTATA
2893 GTTA
65 GTTA
2897 TAACCATTAA
Statistics
Matches: 68, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
68 35 0.51
69 33 0.49
ACGTcount: A:0.32, C:0.20, G:0.13, T:0.35
Consensus pattern (68 bp):
GGTTCGAGTTTGTGCTTTGTTCTCTCCTTGTAATTACCAACAAAAAAAACCAACCATAATTATAG
TTA
Found at i:8172 original size:26 final size:24
Alignment explanation
Indices: 8126--8178 Score: 61
Period size: 26 Copynumber: 2.1 Consensus size: 24
8116 TAAAAAATAT
* *
8126 ATAAAATTATTAAATATTAAATAAA
1 ATAAAATTATTAAAAAATAAA-AAA
*
8151 ATAAATATTTTTAAAAAATAAAAAA
1 ATAAA-ATTATTAAAAAATAAAAAA
8176 ATA
1 ATA
8179 TAGGCAGACC
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
25 11 0.46
26 13 0.54
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (24 bp):
ATAAAATTATTAAAAAATAAAAAA
Found at i:12802 original size:3 final size:3
Alignment explanation
Indices: 12794--12834 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
12784 CTTGTTACGA
12794 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
12835 AAGAAGAGCA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:15850 original size:33 final size:33
Alignment explanation
Indices: 15807--15877 Score: 106
Period size: 33 Copynumber: 2.2 Consensus size: 33
15797 GTCCATCATG
*
15807 TACCCTTGATTCACAGAACCAGGATGAGACATA
1 TACCCCTGATTCACAGAACCAGGATGAGACATA
* * *
15840 TACCCCTGATTCGCATACCCAGGATGAGACATA
1 TACCCCTGATTCACAGAACCAGGATGAGACATA
15873 TACCC
1 TACCC
15878 TTCACTCATG
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.32, C:0.30, G:0.17, T:0.21
Consensus pattern (33 bp):
TACCCCTGATTCACAGAACCAGGATGAGACATA
Found at i:16144 original size:21 final size:20
Alignment explanation
Indices: 16120--16171 Score: 54
Period size: 18 Copynumber: 2.6 Consensus size: 20
16110 TTATTATCAG
* *
16120 CGCCGGCGTCTTTCTTTTCTC
1 CGCC-GCGTCTTTCTTCTCAC
16141 CG-C-CGTCTTTCTTCTCAC
1 CGCCGCGTCTTTCTTCTCAC
16159 CGCCGTCGTCTTT
1 CGCCG-CGTCTTT
16172 TTTAGGCGGA
Statistics
Matches: 26, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
18 15 0.58
19 1 0.04
20 1 0.04
21 9 0.35
ACGTcount: A:0.02, C:0.40, G:0.17, T:0.40
Consensus pattern (20 bp):
CGCCGCGTCTTTCTTCTCAC
Found at i:16149 original size:18 final size:18
Alignment explanation
Indices: 16126--16165 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
16116 TCAGCGCCGG
* *
16126 CGTCTTTCTTTTCTCCGC
1 CGTCTTTCTTCTCACCGC
16144 CGTCTTTCTTCTCACCGC
1 CGTCTTTCTTCTCACCGC
16162 CGTC
1 CGTC
16166 GTCTTTTTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.03, C:0.42, G:0.12, T:0.42
Consensus pattern (18 bp):
CGTCTTTCTTCTCACCGC
Found at i:16481 original size:3 final size:3
Alignment explanation
Indices: 16473--16501 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
16463 ATAGTGAATG
16473 TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
16502 CGAATACACT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:16937 original size:15 final size:15
Alignment explanation
Indices: 16917--16954 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
16907 TTTCTCTTCT
16917 TTCTTCTCCTCGGGC
1 TTCTTCTCCTCGGGC
* *
16932 TTCTTCTCCTTGGGT
1 TTCTTCTCCTCGGGC
16947 TTCTTCTC
1 TTCTTCTC
16955 AGGGTCTGGT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.00, C:0.34, G:0.16, T:0.50
Consensus pattern (15 bp):
TTCTTCTCCTCGGGC
Found at i:18509 original size:29 final size:28
Alignment explanation
Indices: 18452--18508 Score: 71
Period size: 28 Copynumber: 2.0 Consensus size: 28
18442 TTTTAAATTA
*
18452 ATAAAAATAAAATTATATTTTTATTTTT
1 ATAAAAATAAAATTATATTTGTATTTTT
18480 ATAAAAATAATAATT-TGATTTAGTATTTT
1 ATAAAAATAA-AATTAT-ATTT-GTATTTT
18509 AAAGATTATA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
28 11 0.44
29 8 0.32
30 6 0.24
ACGTcount: A:0.46, C:0.00, G:0.04, T:0.51
Consensus pattern (28 bp):
ATAAAAATAAAATTATATTTGTATTTTT
Found at i:19343 original size:243 final size:245
Alignment explanation
Indices: 18905--19390 Score: 940
Period size: 243 Copynumber: 2.0 Consensus size: 245
18895 TTTAAATTTA
18905 ATTTTAATTATTATCTAATTAATAAAATTAAAATTTTAAATCTAACGAATTAAACAAAATTTAGA
1 ATTTTAATTATTATCTAATTAATAAAATTAAAATTTTAAATCTAACGAATTAAACAAAATTTAGA
18970 TTATTCAAATTATTTTATTTTCCTTATGGAAGAAAACAAATATCCATAAATGATTTTGAAACATT
66 TTATTCAAATTATTTTATTTTCCTTATGGAAGAAAACAAATATCCATAAATGATTTTGAAACATT
19035 AAAAAGGTTGCAAGCCGTCGTGGATGTTTTTTGCGTAACAAAACAGCGCGCCGGATTGTTTTGTT
131 AAAAAGGTTGCAAGCCGTCGTGGATGTTTTTTGCGTAACAAAACAGCGCGCCGGATTGTTTTGTT
*
19100 GCTGAACATCAACATCATTGTGCGGATGCATGGTGCATATTGGATAAAAT
196 GCTGAACATCAACATCATAGTGCGGATGCATGGTGCATATTGGATAAAAT
19150 ATTTT-ATT-TTATCTAATTAATAAAATTAAAATTTTAAATCTAACGAATTAAACAAAATTTAGA
1 ATTTTAATTATTATCTAATTAATAAAATTAAAATTTTAAATCTAACGAATTAAACAAAATTTAGA
19213 TTATTCAAATTATTTTATTTTCCTTATGGAAGAAAACAAATATCCATAAATGATTTTGAAACATT
66 TTATTCAAATTATTTTATTTTCCTTATGGAAGAAAACAAATATCCATAAATGATTTTGAAACATT
19278 AAAAAGGTTGCAAGCCGTCGTGGATGTTTTTTGCGTAACAAAACAGCGCGCCGGATTGTTTTGTT
131 AAAAAGGTTGCAAGCCGTCGTGGATGTTTTTTGCGTAACAAAACAGCGCGCCGGATTGTTTTGTT
*
19343 GCTGAACATCAACATCATAGTGCGGATGCATGGTGCATATTGGCTAAA
196 GCTGAACATCAACATCATAGTGCGGATGCATGGTGCATATTGGATAAA
19391 TAATCTGATC
Statistics
Matches: 239, Mismatches: 2, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
243 231 0.97
244 3 0.01
245 5 0.02
ACGTcount: A:0.37, C:0.13, G:0.15, T:0.35
Consensus pattern (245 bp):
ATTTTAATTATTATCTAATTAATAAAATTAAAATTTTAAATCTAACGAATTAAACAAAATTTAGA
TTATTCAAATTATTTTATTTTCCTTATGGAAGAAAACAAATATCCATAAATGATTTTGAAACATT
AAAAAGGTTGCAAGCCGTCGTGGATGTTTTTTGCGTAACAAAACAGCGCGCCGGATTGTTTTGTT
GCTGAACATCAACATCATAGTGCGGATGCATGGTGCATATTGGATAAAAT
Found at i:26370 original size:33 final size:33
Alignment explanation
Indices: 26300--26366 Score: 84
Period size: 32 Copynumber: 2.1 Consensus size: 33
26290 TAAAAATTTT
* *
26300 AATTTTTAGAGGACTTAATAAAAATATTTCAAA
1 AATTTTGAGAGGACTTAATAAAAATATTTAAAA
*
26333 AATTTTGAG-GGACTTAATAAGAAT-TTCTAAAA
1 AATTTTGAGAGGACTTAATAAAAATATT-TAAAA
26365 AA
1 AA
26367 ATTTAGCAGT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
31 2 0.07
32 20 0.67
33 8 0.27
ACGTcount: A:0.48, C:0.06, G:0.12, T:0.34
Consensus pattern (33 bp):
AATTTTGAGAGGACTTAATAAAAATATTTAAAA
Found at i:33105 original size:17 final size:17
Alignment explanation
Indices: 33083--33148 Score: 78
Period size: 17 Copynumber: 3.8 Consensus size: 17
33073 CCTCTTTTTA
*
33083 ATTTTAAATTTAGATTT
1 ATTTTAAATTTAAATTT
**
33100 ATTTTAAATTTAAATCA
1 ATTTTAAATTTAAATTT
*
33117 ATCTTAAATTTAAATTT
1 ATTTTAAATTTAAATTT
*
33134 AATTTTAAAATTAAA
1 -ATTTTAAATTTAAA
33149 AAAGTTCAAA
Statistics
Matches: 40, Mismatches: 8, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
17 28 0.70
18 12 0.30
ACGTcount: A:0.45, C:0.03, G:0.02, T:0.50
Consensus pattern (17 bp):
ATTTTAAATTTAAATTT
Found at i:33858 original size:24 final size:24
Alignment explanation
Indices: 33822--33954 Score: 72
Period size: 24 Copynumber: 5.2 Consensus size: 24
33812 CAATAATTCT
*
33822 TAATAATATTAATAATTGTTTTAA
1 TAATAATAATAATAATTGTTTTAA
* * * *
33846 TAATAATAATAATATTAATGATATCAT
1 TAATAATAATAATA--ATTG-TTTTAA
* *
33873 TAATAATAAATAAT-TTTTTTTTAA
1 TAATAAT-AATAATAATTGTTTTAA
* **
33897 TAATCATTAATAATAATAAATGTTTCGA
1 T-A--A-TAATAATAATAATTGTTTTAA
*
33925 TAATAATAATAATAATAT-TATTAA
1 TAATAATAATAATAAT-TGTTTTAA
33949 TAATAA
1 TAATAA
33955 ATAAAAAAAG
Statistics
Matches: 79, Mismatches: 20, Indels: 20
0.66 0.17 0.17
Matches are distributed among these distances:
24 38 0.48
25 4 0.05
26 3 0.04
27 18 0.23
28 16 0.20
ACGTcount: A:0.50, C:0.02, G:0.03, T:0.44
Consensus pattern (24 bp):
TAATAATAATAATAATTGTTTTAA
Found at i:33929 original size:31 final size:31
Alignment explanation
Indices: 33868--33941 Score: 80
Period size: 31 Copynumber: 2.4 Consensus size: 31
33858 TATTAATGAT
* ***
33868 ATCATTAATAATAAATAATTTTTTTTTAATA
1 ATCATTAATAATAAATAATGTTTCGATAATA
33899 ATCATTAATAAT-AATAAATGTTTCGATAATA
1 ATCATTAATAATAAAT-AATGTTTCGATAATA
*
33930 AT-AATAATAATA
1 ATCATTAATAATA
33942 TTATTAATAA
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
30 11 0.31
31 25 0.69
ACGTcount: A:0.50, C:0.04, G:0.03, T:0.43
Consensus pattern (31 bp):
ATCATTAATAATAAATAATGTTTCGATAATA
Found at i:34967 original size:29 final size:29
Alignment explanation
Indices: 34924--35272 Score: 331
Period size: 29 Copynumber: 11.9 Consensus size: 29
34914 GGAGGTCCCT
* *
34924 AACTATCCAAAAATTCTATTTTCACCCTC-A
1 AACT-TCCAAAAATTCCATTTTGACCC-CAA
* *
34954 AACTTTCAAAAATTCCACTTTTGACCTCAA
1 AACTTCCAAAAATTCCA-TTTTGACCCCAA
* ** * **
34984 AACTTTCAAAAATTTTATTTTTACCCCCG
1 AACTTCCAAAAATTCCATTTTGACCCCAA
* * *
35013 AGCTTCGAAAAATCCCATTTTTGACCCCAA
1 AACTTCCAAAAATTCCA-TTTTGACCCCAA
* * **
35043 AACTTCCAAAAATTCCATTCTCACCCCCG
1 AACTTCCAAAAATTCCATTTTGACCCCAA
35072 AACTTCCAAAAATTCCATTTTGACCCCAA
1 AACTTCCAAAAATTCCATTTTGACCCCAA
35101 AACTTCCAAAAATTCCATTTTTGACCCCAA
1 AACTTCCAAAAATTCCA-TTTTGACCCCAA
* * *
35131 AACTTTCAAAAATTCTATTTTAACCCCAA
1 AACTTCCAAAAATTCCATTTTGACCCCAA
* * **
35160 AACTTCAAAAAATTCCATTTTTACCCCCG
1 AACTTCCAAAAATTCCATTTTGACCCCAA
* *
35189 AACTTCCAAAAATTCCATTTTGACCTCGA
1 AACTTCCAAAAATTCCATTTTGACCCCAA
* ** * **
35218 AACTTCCAAAAATACTGTTTTTACCCCCG
1 AACTTCCAAAAATTCCATTTTGACCCCAA
* *
35247 AGCTTCCAAAAATCCCATTTTCGACC
1 AACTTCCAAAAATTCCATTTT-GACC
35273 GCGAAACTCT
Statistics
Matches: 258, Mismatches: 56, Indels: 10
0.80 0.17 0.03
Matches are distributed among these distances:
29 178 0.69
30 80 0.31
ACGTcount: A:0.35, C:0.30, G:0.04, T:0.31
Consensus pattern (29 bp):
AACTTCCAAAAATTCCATTTTGACCCCAA
Found at i:35082 original size:88 final size:88
Alignment explanation
Indices: 34924--35267 Score: 361
Period size: 88 Copynumber: 3.9 Consensus size: 88
34914 GGAGGTCCCT
* * * * * * **
34924 AACTATCCAAAAATTCTA-TTTTCACCCTC-AAACTTTCAAAAATTCCACTTTTGACCTCAAAAC
1 AACT-TCCAAAAATTCCATTTTTGACCC-CAAAACTTCCAAAAATTCTA-TTTTAACCCCCGAAC
* **
34987 TTTCAAAAATTTTATTTTTACCCCCG
63 TTCCAAAAATTCCATTTTTACCCCCG
* * * * * *
35013 AGCTTCGAAAAATCCCATTTTTGACCCCAAAACTTCCAAAAATTCCATTCTCACCCCCGAACTTC
1 AACTTCCAAAAATTCCATTTTTGACCCCAAAACTTCCAAAAATTCTATTTTAACCCCCGAACTTC
* **
35078 CAAAAATTCCATTTTGACCCCAA
66 CAAAAATTCCATTTTTACCCCCG
* **
35101 AACTTCCAAAAATTCCATTTTTGACCCCAAAACTTTCAAAAATTCTATTTTAACCCCAAAACTTC
1 AACTTCCAAAAATTCCATTTTTGACCCCAAAACTTCCAAAAATTCTATTTTAACCCCCGAACTTC
*
35166 AAAAAATTCCATTTTTACCCCCG
66 CAAAAATTCCATTTTTACCCCCG
* * * * * *
35189 AACTTCCAAAAATTCCA-TTTTGACCTCGAAACTTCCAAAAATACTGTTTTTACCCCCGAGCTTC
1 AACTTCCAAAAATTCCATTTTTGACCCCAAAACTTCCAAAAATTCTATTTTAACCCCCGAACTTC
*
35253 CAAAAATCCCATTTT
66 CAAAAATTCCATTTT
35268 CGACCGCGAA
Statistics
Matches: 212, Mismatches: 41, Indels: 6
0.82 0.16 0.02
Matches are distributed among these distances:
87 51 0.24
88 133 0.63
89 28 0.13
ACGTcount: A:0.35, C:0.30, G:0.04, T:0.31
Consensus pattern (88 bp):
AACTTCCAAAAATTCCATTTTTGACCCCAAAACTTCCAAAAATTCTATTTTAACCCCCGAACTTC
CAAAAATTCCATTTTTACCCCCG
Found at i:35288 original size:58 final size:58
Alignment explanation
Indices: 34924--35323 Score: 421
Period size: 59 Copynumber: 6.8 Consensus size: 58
34914 GGAGGTCCCT
* * * * * *
34924 AACTATCCAAAAATTCTATTTTCACCCTCAAACTTTCAAAAATTCCACTTTTGACCTCAA
1 AACT-TCCAAAAATTCCATTTTTACCCCCGAACTTCCAAAAATTCCA-TTTTGACCCCAA
* ** * * *
34984 AACTTTCAAAAATTTTATTTTTACCCCCGAGCTTCGAAAAATCCCATTTTTGACCCCAA
1 AACTTCCAAAAATTCCATTTTTACCCCCGAACTTCCAAAAATTCCA-TTTTGACCCCAA
* *
35043 AACTTCCAAAAATTCCATTCTCACCCCCGAACTTCCAAAAATTCCATTTTGACCCCAA
1 AACTTCCAAAAATTCCATTTTTACCCCCGAACTTCCAAAAATTCCATTTTGACCCCAA
** * * *
35101 AACTTCCAAAAATTCCATTTTTGACCCCAAAACTTTCAAAAATTCTATTTTAACCCCAA
1 AACTTCCAAAAATTCCATTTTT-ACCCCCGAACTTCCAAAAATTCCATTTTGACCCCAA
* * *
35160 AACTTCAAAAAATTCCATTTTTACCCCCGAACTTCCAAAAATTCCATTTTGACCTCGA
1 AACTTCCAAAAATTCCATTTTTACCCCCGAACTTCCAAAAATTCCATTTTGACCCCAA
* ** * * * *
35218 AACTTCCAAAAATACTGTTTTTACCCCCGAGCTTCCAAAAATCCCATTTTCGACCGCGA
1 AACTTCCAAAAATTCCATTTTTACCCCCGAACTTCCAAAAATTCCATTTT-GACCCCAA
* *
35277 AAC-TCTC-AAAATTACC-TTTTTACCCTCGAA-TGTCCAAAGATTCCATT
1 AACTTC-CAAAAATT-CCATTTTTACCCCCGAACT-TCCAAAAATTCCATT
35324 CTCAACCTCG
Statistics
Matches: 288, Mismatches: 47, Indels: 12
0.83 0.14 0.03
Matches are distributed among these distances:
57 1 0.00
58 137 0.48
59 146 0.51
60 4 0.01
ACGTcount: A:0.34, C:0.30, G:0.05, T:0.31
Consensus pattern (58 bp):
AACTTCCAAAAATTCCATTTTTACCCCCGAACTTCCAAAAATTCCATTTTGACCCCAA
Found at i:54485 original size:23 final size:23
Alignment explanation
Indices: 54466--54531 Score: 78
Period size: 23 Copynumber: 2.9 Consensus size: 23
54456 GCTCTCTGTT
*
54466 ATTAGCACTGTGTGTGCTCTTTG
1 ATTAGCACTGTGTGTGCTCTTTA
* *
54489 ACTAGCACTTTGTGTGCTCTTTA
1 ATTAGCACTGTGTGTGCTCTTTA
* * *
54512 ATTAGTACTTTGTGTCCTCT
1 ATTAGCACTGTGTGTGCTCT
54532 CTGTTTAGCT
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 37 1.00
ACGTcount: A:0.15, C:0.20, G:0.20, T:0.45
Consensus pattern (23 bp):
ATTAGCACTGTGTGTGCTCTTTA
Found at i:54551 original size:46 final size:48
Alignment explanation
Indices: 54434--54558 Score: 121
Period size: 46 Copynumber: 2.6 Consensus size: 48
54424 CACTAGCGTG
* *
54434 CTCTCTGTTTAGCAC-GTCTCGTGCTCTCTGTTATTAGCACTGTGTGTG
1 CTCTCTGTTTAGCACTGTCT-GTGCTCTCTGTAATTAGCACTGTGTGTC
* ** * * * *
54482 CTCTTTGACTAGCACTTTGTGTGCTCT-T-TAATTAGTACTTTGTGTC
1 CTCTCTGTTTAGCACTGTCTGTGCTCTCTGTAATTAGCACTGTGTGTC
* *
54528 CTCTCTGTTTAGCTCTGTCTGTGCTCACTGT
1 CTCTCTGTTTAGCACTGTCTGTGCTCTCTGT
54559 TACCCAGCAT
Statistics
Matches: 58, Mismatches: 16, Indels: 6
0.73 0.20 0.08
Matches are distributed among these distances:
46 34 0.59
47 2 0.03
48 20 0.34
49 2 0.03
ACGTcount: A:0.11, C:0.24, G:0.20, T:0.45
Consensus pattern (48 bp):
CTCTCTGTTTAGCACTGTCTGTGCTCTCTGTAATTAGCACTGTGTGTC
Found at i:61653 original size:2 final size:2
Alignment explanation
Indices: 61648--61686 Score: 69
Period size: 2 Copynumber: 19.5 Consensus size: 2
61638 TTTTTTTTTA
*
61648 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT CT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
61687 GAATATTGGA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:69300 original size:2 final size:2
Alignment explanation
Indices: 69293--69318 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
69283 AAATAATACA
69293 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
69319 TTAAAAAATT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Done.