Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01008203.1 Kokia drynarioides strain JFW-HI SEQ_122865, 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: 8223
ACGTcount: A:0.34, C:0.19, G:0.19, T:0.28
Found at i:1887 original size:15 final size:15
Alignment explanation
Indices: 1860--1894 Score: 54
Period size: 15 Copynumber: 2.3 Consensus size: 15
1850 GGCATCTTTT
1860 AAAAAAAAGGAAAAG
1 AAAAAAAAGGAAAAG
1875 AAAATAAAA-GAAAAG
1 AAAA-AAAAGGAAAAG
1890 AAAAA
1 AAAAA
1895 GGAAGAGAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
14 1 0.05
15 14 0.74
16 4 0.21
ACGTcount: A:0.83, C:0.00, G:0.14, T:0.03
Consensus pattern (15 bp):
AAAAAAAAGGAAAAG
Found at i:3283 original size:112 final size:111
Alignment explanation
Indices: 3121--3445 Score: 391
Period size: 112 Copynumber: 2.9 Consensus size: 111
3111 ATAGGTAAAT
* * *
3121 TTAATCCTTTTCATTCATACGAGCTTTGCCTAAAATAAAAGTCAAATTTATCCACCTTACAACCT
1 TTAA-CCTTTTCATTCATACGAGCTTTGCCTCAAATAAAATTCAATTTTATCCACCTTACAACCT
*
3186 GGTTCAAGCATTTTTGCATCGAAATAACGGTTAGTGGACCAATGATTC
65 -GTTCAAGCATTTTTGCATTGAAATAACGGTTAGTGGACCAATGATTC
* * * * **
3234 TTAACCTTTTCATTCGTACGAGCTTTACCTCTAATGAAATTTTATTTTATCCACCTTACAACCAT
1 TTAACCTTTTCATTCATACGAGCTTTGCCTCAAATAAAATTCAATTTTATCCACCTTACAACC-T
** * * * * *
3299 GTTCAAGCACGTTTGTATTGAAATAACAGTCACTGGACTAATGATTC
65 GTTCAAGCATTTTTGCATTGAAATAACGGTTAGTGGACCAATGATTC
* ** * *
3346 TTAATCTTTTCATTCACGCGAGCCTTGCCTCCAATAAAATTCAATTTTATCCACCTTACAACCCT
1 TTAACCTTTTCATTCATACGAGCTTTGCCTCAAATAAAATTCAATTTTATCCACCTTACAA-CCT
* *
3411 GTTCAAGCATTTTT-CATTGCAATGACGGTTAGTGG
65 GTTCAAGCATTTTTGCATTGAAATAACGGTTAGTGG
3446 TCTAAGAATA
Statistics
Matches: 175, Mismatches: 35, Indels: 6
0.81 0.16 0.03
Matches are distributed among these distances:
111 15 0.09
112 153 0.87
113 7 0.04
ACGTcount: A:0.29, C:0.22, G:0.13, T:0.36
Consensus pattern (111 bp):
TTAACCTTTTCATTCATACGAGCTTTGCCTCAAATAAAATTCAATTTTATCCACCTTACAACCTG
TTCAAGCATTTTTGCATTGAAATAACGGTTAGTGGACCAATGATTC
Found at i:3959 original size:49 final size:49
Alignment explanation
Indices: 3871--4256 Score: 271
Period size: 49 Copynumber: 7.9 Consensus size: 49
3861 ATCTAGGAAA
* * * * *
3871 CATGAAGATATAAAGGGAAAGGTAGAGGCCACAATGGCGAACTCGGTAC
1 CATGAAGATTTAATGGGAAAGGTTGAGGCCGCAACGGCGAACTCGGTAC
* * * *
3920 CATGGAGATTTAATGGGAAAGGTTGAGGTCGTAAGGGCGAAGC-CGGTAC
1 CATGAAGATTTAATGGGAAAGGTTGAGGCCGCAACGGCGAA-CTCGGTAC
* * * *
3969 CATGGAGATTTGAA-GGGAAAGGTTGAGGCCGCAATGGCGAACCCGATAC
1 CATGAAGATTT-AATGGGAAAGGTTGAGGCCGCAACGGCGAACTCGGTAC
* ** * * **** ** * *
4018 CTAAGAAGACATGATGGGAAAGATTGAGGTTATAACAACGAAATCAGTAC
1 C-ATGAAGATTTAATGGGAAAGGTTGAGGCCGCAACGGCGAACTCGGTAC
* ** * * *
4068 CAT-AAAATGAAATGGGAAAGGTTGAGGCTGCAAAGGCGAA-TCTGATAC
1 CATGAAGATTTAATGGGAAAGGTTGAGGCCGCAACGGCGAACTC-GGTAC
* * * *
4116 CATGGAGATTTGAA-GGGAAAGGTTGAGGCCGCAATGACAAACTCGGTAC
1 CATGAAGATTT-AATGGGAAAGGTTGAGGCCGCAACGGCGAACTCGGTAC
* * * *
4165 CTTAGAAGATGTGATGGG-AAGGATTGAGGCCGTAACGGCGAACTCGGTAC
1 CAT-GAAGATTTAATGGGAAAGG-TTGAGGCCGCAACGGCGAACTCGGTAC
* * * *
4215 CACGAAGATATAATGAGAAAGGTTGAGGCCGCAACGACGAAC
1 CATGAAGATTTAATGGGAAAGGTTGAGGCCGCAACGGCGAAC
4257 CCAGTACCTT
Statistics
Matches: 256, Mismatches: 68, Indels: 26
0.73 0.19 0.07
Matches are distributed among these distances:
47 2 0.01
48 32 0.12
49 148 0.58
50 74 0.29
ACGTcount: A:0.35, C:0.15, G:0.32, T:0.18
Consensus pattern (49 bp):
CATGAAGATTTAATGGGAAAGGTTGAGGCCGCAACGGCGAACTCGGTAC
Found at i:4205 original size:99 final size:98
Alignment explanation
Indices: 4079--4367 Score: 296
Period size: 99 Copynumber: 2.9 Consensus size: 98
4069 ATAAAATGAA
* *
4079 ATGGGAAAGG-TTGAGGCTGCAAAGGCGAATCTGATACCATGGAGATTTGAAGGGAAAGGTTGAG
1 ATGGG-AAGGATTGAGGCCGCAAAGGCGAATCTGATACCATGGAGATAT-AAGGGAAAGGTTGAG
* * *
4143 GCCGCAATGACAAACTCGGTACCTTAGAAGATGTG
64 GCCGCAACGACAAACCCAGTACCTTAGAAGATGTG
* * * * * *
4178 ATGGGAAGGATTGAGGCCGTAACGGCGAA-CTCGGTACCACGAAGATATAATGAGAAAGGTTGAG
1 ATGGGAAGGATTGAGGCCGCAAAGGCGAATCT-GATACCATGGAGATATAA-GGGAAAGGTTGAG
*
4242 GCCGCAACGACGAACCCAGTACCTTAGAAGATGTG
64 GCCGCAACGACAAACCCAGTACCTTAGAAGATGTG
* * * ** * * *
4277 ATGGG-AGGATTGAGACCACAATGGCGAATCCAATACCATGGAAATATAAAGGAAAGGTTGAGGT
1 ATGGGAAGGATTGAGGCCGCAAAGGCGAATCTGATACCATGGAGATATAAGGGAAAGGTTGAGGC
* * ** *
4341 CACAACAATGAACCTAGTACCTTAGAA
66 CGCAACGACAAACCCAGTACCTTAGAA
4368 ACATGACGAG
Statistics
Matches: 157, Mismatches: 29, Indels: 10
0.80 0.15 0.05
Matches are distributed among these distances:
97 35 0.22
98 40 0.25
99 82 0.52
ACGTcount: A:0.35, C:0.17, G:0.30, T:0.18
Consensus pattern (98 bp):
ATGGGAAGGATTGAGGCCGCAAAGGCGAATCTGATACCATGGAGATATAAGGGAAAGGTTGAGGC
CGCAACGACAAACCCAGTACCTTAGAAGATGTG
Found at i:4215 original size:147 final size:146
Alignment explanation
Indices: 3885--4248 Score: 397
Period size: 147 Copynumber: 2.5 Consensus size: 146
3875 AAGATATAAA
* * * * * *
3885 GGGAAAGGTAGAGGCCACAATGGCGAACTCGGTACCATGGAGATTTAATGGGAAAGGTTGAGG-T
1 GGGAAAGATTGAGGCCATAACGGCGAACTCGGTACCAT-AAGA-TAAATGGGAAAGGTTGAGGCT
* * * * *
3949 CGTAAGGGCGAAGCCGGTACCATGGAGATTTGAAGGGAAAGGTTGAGGCCGCAATGGCGAACCCG
64 -GCAAAGGCGAAGCCGATACCATGGAGATTTGAAGGGAAAGGTTGAGGCCGCAATGACAAACCCG
4014 ATACCTAAGAAGACATGAT
128 ATACCTAAGAAGACATGAT
** ** * * *
4033 GGGAAAGATTGAGGTTATAACAACGAAATCAGTACCATAAAATGAAATGGGAAAGGTTGAGGCTG
1 GGGAAAGATTGAGGCCATAACGGCGAACTCGGTACCATAAGAT-AAATGGGAAAGGTTGAGGCTG
* * * *
4098 CAAAGGCGAATCTGATACCATGGAGATTTGAAGGGAAAGGTTGAGGCCGCAATGACAAACTCGGT
65 CAAAGGCGAAGCCGATACCATGGAGATTTGAAGGGAAAGGTTGAGGCCGCAATGACAAACCCGAT
* **
4163 ACCTTAGAAGATGTGAT
130 ACCTAAGAAGACATGAT
* * * * *
4180 GGGAAGGATTGAGGCCGTAACGGCGAACTCGGTACCACGAAGATATAATGAGAAAGGTTGAGGCC
1 GGGAAAGATTGAGGCCATAACGGCGAACTCGGTACCA-TAAGATA-AATGGGAAAGGTTGAGGCT
4245 GCAA
64 GCAA
4249 CGACGAACCC
Statistics
Matches: 175, Mismatches: 37, Indels: 8
0.80 0.17 0.04
Matches are distributed among these distances:
146 1 0.01
147 120 0.69
148 54 0.31
ACGTcount: A:0.34, C:0.15, G:0.33, T:0.18
Consensus pattern (146 bp):
GGGAAAGATTGAGGCCATAACGGCGAACTCGGTACCATAAGATAAATGGGAAAGGTTGAGGCTGC
AAAGGCGAAGCCGATACCATGGAGATTTGAAGGGAAAGGTTGAGGCCGCAATGACAAACCCGATA
CCTAAGAAGACATGAT
Found at i:4264 original size:196 final size:196
Alignment explanation
Indices: 3885--4264 Score: 410
Period size: 196 Copynumber: 1.9 Consensus size: 196
3875 AAGATATAAA
* * *
3885 GGGAAAGGTAGAGGCCACAATGGCGAACTCGGTACCATGGAGATTTAATGGGAAAGGTTGAGGTC
1 GGGAAAGGTAGAGGCCACAAAGGCGAACTCGATACCATGGAGATTTAATGGGAAAGGTTGAGGCC
* * * * * *
3950 GTAAGGGCGAAGCCGGTACCATGGAGATTTGAAGGGAAAGGTTGAGGCCGCAATGGCGAACCCGA
66 GCAAGGACGAAACCGGTACCATGAAGATGTGAAGGGAAAGGTTGAGGCCGCAACGGCGAACCCGA
* * ** * *
4015 TACCTAAGAAGACATGATGGGAAAGATTGAGGTTATAACAACGAAATCAGTACCATAAAATGAAA
131 TACCTAAGAAGACATAATGAGAAAGATTGAGGCCACAACAACGAAACCAGTACCATAAAATGAAA
4080 T
196 T
* **
4081 GGGAAAGGTTGAGGCTGCAAAGGCGAA-TCTGATACCATGGAGATTTGAA-GGGAAAGGTTGAGG
1 GGGAAAGGTAGAGGCCACAAAGGCGAACTC-GATACCATGGAGATTT-AATGGGAAAGGTTGAGG
* * * *
4144 CCGCAATGAC-AAACTCGGTACCTTAGAAGATGTGATGGG-AAGGATTGAGGCCGTAACGGCGAA
64 CCGCAAGGACGAAAC-CGGTACCAT-GAAGATGTGAAGGGAAAGG-TTGAGGCCGCAACGGCGAA
* * * * * * * *
4207 CTCGGTACC-ACGAAGATATAATGAGAAAGGTTGAGGCCGCAACGACGAACCCAGTACC
126 CCCGATACCTAAGAAGACATAATGAGAAAGATTGAGGCCACAACAACGAAACCAGTACC
4265 TTAGAAGATG
Statistics
Matches: 149, Mismatches: 30, Indels: 10
0.79 0.16 0.05
Matches are distributed among these distances:
195 5 0.03
196 107 0.72
197 37 0.25
ACGTcount: A:0.34, C:0.16, G:0.32, T:0.17
Consensus pattern (196 bp):
GGGAAAGGTAGAGGCCACAAAGGCGAACTCGATACCATGGAGATTTAATGGGAAAGGTTGAGGCC
GCAAGGACGAAACCGGTACCATGAAGATGTGAAGGGAAAGGTTGAGGCCGCAACGGCGAACCCGA
TACCTAAGAAGACATAATGAGAAAGATTGAGGCCACAACAACGAAACCAGTACCATAAAATGAAA
T
Found at i:4290 original size:49 final size:49
Alignment explanation
Indices: 4138--4290 Score: 168
Period size: 49 Copynumber: 3.1 Consensus size: 49
4128 AAGGGAAAGG
* *
4138 TTGAGGCCGCAATGACAAACTCGGTACCTTAGAAGATGTGATGGGAAGGA
1 TTGAGGCCGCAACGACGAACTCGGTACCTTAGAAGATGTGATGGG-AGGA
* * * * *
4188 TTGAGGCCGTAACGGCGAACTCGGTACC--ACGAAGATATAATGAGAAAGG-
1 TTGAGGCCGCAACGACGAACTCGGTACCTTA-GAAGATGTGATG-G-GAGGA
* *
4237 TTGAGGCCGCAACGACGAACCCAGTACCTTAGAAGATGTGATGGGAGGA
1 TTGAGGCCGCAACGACGAACTCGGTACCTTAGAAGATGTGATGGGAGGA
4286 TTGAG
1 TTGAG
4291 ACCACAATGG
Statistics
Matches: 83, Mismatches: 14, Indels: 13
0.75 0.13 0.12
Matches are distributed among these distances:
48 4 0.05
49 40 0.48
50 38 0.46
51 1 0.01
ACGTcount: A:0.32, C:0.18, G:0.32, T:0.18
Consensus pattern (49 bp):
TTGAGGCCGCAACGACGAACTCGGTACCTTAGAAGATGTGATGGGAGGA
Found at i:4733 original size:78 final size:78
Alignment explanation
Indices: 4605--6305 Score: 1749
Period size: 78 Copynumber: 21.7 Consensus size: 78
4595 CATCACCATT
*
4605 CAATCTCTTACCCCGATCATGGGGCAGATTGAAGCATCCAATCTTTTACCTTAATCAGAAGGCAG
1 CAATCTCTTACCCCGATCATGGGGCAGATTGAAGCATCCAATCTTTTACCCTAATCAGAAGGCAG
*
4670 ATTGAAGACACAT
66 ATTGAAGACACAC
* * *
4683 CAATCTCTTACCCTGATCATGGGGCAGATTGAAGCATCCAATCTTTTACCTTAATCAGAAGGTAG
1 CAATCTCTTACCCCGATCATGGGGCAGATTGAAGCATCCAATCTTTTACCCTAATCAGAAGGCAG
*
4748 ATTGAAGACACAA
66 ATTGAAGACACAC
* *
4761 CAATCTCTTACCCCGATCATGGGGCAGATTGAAGCATCCGATCTTTTACCCTAATCA-AAGGATA
1 CAATCTCTTACCCCGATCATGGGGCAGATTGAAGCATCCAATCTTTTACCCTAATCAGAAGG-CA
4825 GATTGAAGACACAC
65 GATTGAAGACACAC
* * *
4839 CAATCTCTTACCCCGATCATGGGGTAAATTGAAGCATCCAATCTTTTACCCTAATCA-AAGGGTA
1 CAATCTCTTACCCCGATCATGGGGCAGATTGAAGCATCCAATCTTTTACCCTAATCAGAA-GGCA
4903 GATTGAAGACACAC
65 GATTGAAGACACAC
* * * **
4917 CAATCTCTTACCCCGATCATGGGGAAAATTTAAGCATCTGATCTTTTACCCTAATCAGAAGGCAG
1 CAATCTCTTACCCCGATCATGGGGCAGATTGAAGCATCCAATCTTTTACCCTAATCAGAAGGCAG
4982 ATTGAAGACACAC
66 ATTGAAGACACAC
* * * * *
4995 CAATCTCTTACCCTGATCATGGGGCAAATT-ACAGTCGTCAAATCTCTTAACCC-AATCA-AAGG
1 CAATCTCTTACCCCGATCATGGGGCAGATTGA-AG-CATCCAATCT-TTTACCCTAATCAGAA-G
* * * *
5057 GAAAATAGAAGACACGC
62 GCAGATTGAAGACACAC
* * * *
5074 CAATCTCTTACCCCGATCATGGGGCAGATT-ACAGTCGTCCAATCTCTTACCCCAATCAGAGGGC
1 CAATCTCTTACCCCGATCATGGGGCAGATTGA-AG-CATCCAATCTTTTACCCTAATCAGAAGGC
* * *
5138 AAATAGAAGACACAT
64 AGATTGAAGACACAC
* ** * * * * *
5153 CAATCTTTTACCTTGGTTATGAGGCAGATTGAAGCATCCAATCTTTTACCCTAATTAGAAGGCAT
1 CAATCTCTTACCCCGATCATGGGGCAGATTGAAGCATCCAATCTTTTACCCTAATCAGAAGGCAG
5218 ATTGAAGACACAC
66 ATTGAAGACACAC
** * * ** * * * * *
5231 CAATCTCTTACCCCGATCATGGGATAGATAGTAGTTGTCCAATCTCTTACCCCAATTAGAGGGTA
1 CAATCTCTTACCCCGATCATGGGGCAGATTGAAG-CATCCAATCTTTTACCCTAATCAGAAGGCA
* *
5296 AATTGAAAACATCATC
65 GATTGAAGACA-CA-C
* * * * * *
5312 CAATCTCTTACCCCGATCACGAGGCAGATTGAAACAACCAATCTTTTACCCTAATTAGAGGGCAG
1 CAATCTCTTACCCCGATCATGGGGCAGATTGAAGCATCCAATCTTTTACCCTAATCAGAAGGCAG
**
5377 ATTGAAGACA-TT
66 ATTGAAGACACAC
* * * * * *
5389 CAATCTTTTACCCCAATCATGAGGCAGATTGAAGCATCCGATCTTTTACCCTAATTAGAGGGCAG
1 CAATCTCTTACCCCGATCATGGGGCAGATTGAAGCATCCAATCTTTTACCCTAATCAGAAGGCAG
*
5454 ATTGAAGACACTC
66 ATTGAAGACACAC
* ** * *
5467 CAATCTCTTACCCCGATCATGGGACAGATTGAAGCATCTGATCTTTTACCCTAATCAGAGGGTAG
1 CAATCTCTTACCCCGATCATGGGGCAGATTGAAGCATCCAATCTTTTACCCTAATCAGAAGGCAG
5532 ATTGAAGACACAC
66 ATTGAAGACACAC
* * * * * * *
5545 CAATCTCTTACCCCGATCATGGGACAGATTACAACCGTCCAATCTCTTACCCTAATTAGAGGGCA
1 CAATCTCTTACCCCGATCATGGGGCAGATT-GAAGCATCCAATCTTTTACCCTAATCAGAAGGCA
5610 GATTGTAA-ACATCATC
65 GATTG-AAGACA-CA-C
** * * * *
5626 CAATCTCTTACCCCGATCATGGGGCAGATTGAAATATCCAATCTCTTACCCTAATTAGAGGGCAA
1 CAATCTCTTACCCCGATCATGGGGCAGATTGAAGCATCCAATCTTTTACCCTAATCAGAAGGCAG
*
5691 ATTAAAGACACAC
66 ATTGAAGACACAC
* * * * * *
5704 CAATCTCTTACCCCAATCATGGGGCAGATAGAAGCATTCGATCTTTTACCCTAATCAGAGGGTAG
1 CAATCTCTTACCCCGATCATGGGGCAGATTGAAGCATCCAATCTTTTACCCTAATCAGAAGGCAG
5769 ATTGAAGACACAC
66 ATTGAAGACACAC
* * * * *
5782 TAATCTCTTACCCCAATCATGAGGCAGATTGAAGCATCCGATCTTTTACCCTAATCA-AAGGGTA
1 CAATCTCTTACCCCGATCATGGGGCAGATTGAAGCATCCAATCTTTTACCCTAATCAGAA-GGCA
*
5846 GATTGAAGATACAC
65 GATTGAAGACACAC
* ** * * *
5860 CAATCTCTTATCCCGATCATGGTACAGATAGAAGCATTCGATCTTTTACCCTAATCAG-AGCGCA
1 CAATCTCTTACCCCGATCATGGGGCAGATTGAAGCATCCAATCTTTTACCCTAATCAGAAG-GCA
* *
5924 GATTGAAGACATAT
65 GATTGAAGACACAC
* * * * * * ** * * *
5938 TAATCTCTTGCCCTGATCATGGGACATATTGAACCATCTGATATTTTACCCTAATCAGAGGGTAG
1 CAATCTCTTACCCCGATCATGGGGCAGATTGAAGCATCCAATCTTTTACCCTAATCAGAAGGCAG
6003 ATTGAAGACACAC
66 ATTGAAGACACAC
** * * * * * * *
6016 CAATCTCTTACCTTGATCATGAGGCAGATTGAAACATCCGATCTTTTATCATAATCAG-AGGGAA
1 CAATCTCTTACCCCGATCATGGGGCAGATTGAAGCATCCAATCTTTTACCCTAATCAGAAGGCAG
*
6080 ATTGAAGAGACAC
66 ATTGAAGACACAC
* * * * *
6093 CAATCTCTTACCCCGATTATGGGGCAGATTGAAGAATTCAATCTTTTACCCTAATCAGAGGGTTA
1 CAATCTCTTACCCCGATCATGGGGCAGATTGAAGCATCCAATCTTTTACCCTAATCAGAAGG-CA
*
6158 GATTGAAAACACAC
65 GATTGAAGACACAC
* * * * * *
6172 CAATCTTTTACCCTGATCACGGGGCAGGTTGAAGCCATCCAATCTCTTACCCGATAAT--G-GGG
1 CAATCTCTTACCCCGATCATGGGGCAGATTGAAG-CATCCAATCTTTTACCC--TAATCAGAAGG
**
6234 CAGATTGAAGATGTCATC
63 CAGATTGAAGA-CACA-C
* * *
6252 CAATCTCTTACCCCGAT-ATGGGACAGGTTAAAGCCACCATCCAATCTTTTACCC
1 CAATCTCTTACCCCGATCATGGGGCAGATTGAAG----CATCCAATCTTTTACCC
6306 CTAAACCAAG
Statistics
Matches: 1385, Mismatches: 205, Indels: 62
0.84 0.12 0.04
Matches are distributed among these distances:
77 139 0.10
78 804 0.58
79 249 0.18
80 114 0.08
81 58 0.04
82 21 0.02
ACGTcount: A:0.32, C:0.24, G:0.17, T:0.26
Consensus pattern (78 bp):
CAATCTCTTACCCCGATCATGGGGCAGATTGAAGCATCCAATCTTTTACCCTAATCAGAAGGCAG
ATTGAAGACACAC
Found at i:5041 original size:39 final size:38
Alignment explanation
Indices: 4994--5125 Score: 124
Period size: 39 Copynumber: 3.4 Consensus size: 38
4984 TGAAGACACA
4994 CCAATCTCTTACCCTGATCATGGGGCAAATTACAGTCGT
1 CCAATCTCTTACCC-GATCATGGGGCAAATTACAGTCGT
* * ** * * *
5033 CAAATCTCTTAACCCAATCAAAGGG-AAAATAGAAGACACG-
1 CCAATCTCTT-ACCCGATCATGGGGCAAATTA-CAG--TCGT
*
5073 CCAATCTCTTACCCCGATCATGGGGCAGATTACAGTCGT
1 CCAATCTCTTA-CCCGATCATGGGGCAAATTACAGTCGT
5112 CCAATCTCTTACCC
1 CCAATCTCTTACCC
5126 CAATCAGAGG
Statistics
Matches: 71, Mismatches: 15, Indels: 15
0.70 0.15 0.15
Matches are distributed among these distances:
38 10 0.14
39 30 0.42
40 25 0.35
41 6 0.08
ACGTcount: A:0.31, C:0.30, G:0.16, T:0.23
Consensus pattern (38 bp):
CCAATCTCTTACCCGATCATGGGGCAAATTACAGTCGT
Found at i:6293 original size:41 final size:42
Alignment explanation
Indices: 6206--6306 Score: 116
Period size: 41 Copynumber: 2.5 Consensus size: 42
6196 CAGGTTGAAG
* * **
6206 CCATCCAATCTCTTA-CCCGATAATGGGGCAGATTGAAGATG
1 CCATCCAATCTCTTACCCCGATAATGGGACAGATTAAAGACA
* * *
6247 TCATCCAATCTCTTACCCCGAT-ATGGGACAGGTTAAAGCCA
1 CCATCCAATCTCTTACCCCGATAATGGGACAGATTAAAGACA
*
6288 CCATCCAATCTTTTACCCC
1 CCATCCAATCTCTTACCCC
6307 TAAACCAAGA
Statistics
Matches: 50, Mismatches: 9, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
41 44 0.88
42 6 0.12
ACGTcount: A:0.28, C:0.31, G:0.16, T:0.26
Consensus pattern (42 bp):
CCATCCAATCTCTTACCCCGATAATGGGACAGATTAAAGACA
Done.