Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168164.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_403, 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: 28624
ACGTcount: A:0.25, C:0.26, G:0.22, T:0.27
Found at i:214 original size:45 final size:45
Alignment explanation
Indices: 112--226 Score: 117
Period size: 45 Copynumber: 2.6 Consensus size: 45
102 GAGGCATGGG
* * *
112 CACGTGCCGATGGTGGTCCAGGCAAGTGCCCGTACCAATGGCCAA
1 CACGTGTCGATGGTGGTCAAGGCAAGTGCCCGCACCAATGGCCAA
*** *
157 CTTATGAT-GATGGTGGTCAAGGCATGTGCCCGCACCAA-GGCCCAA
1 CACGTG-TCGATGGTGGTCAAGGCAAGTGCCCGCACCAATGG-CCAA
* *
202 CACGTGTCGATGGTGCTCGAGGCAA
1 CACGTGTCGATGGTGGTCAAGGCAA
227 CCGTCAGCAC
Statistics
Matches: 54, Mismatches: 13, Indels: 6
0.74 0.18 0.08
Matches are distributed among these distances:
44 3 0.06
45 51 0.94
ACGTcount: A:0.23, C:0.28, G:0.31, T:0.18
Consensus pattern (45 bp):
CACGTGTCGATGGTGGTCAAGGCAAGTGCCCGCACCAATGGCCAA
Found at i:7814 original size:21 final size:21
Alignment explanation
Indices: 7776--7815 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
7766 ACCAAGGCCC
*
7776 AGCATGTGCTGACGGTGTTCG
1 AGCATGTGCTGACAGTGTTCG
*
7797 AGCATGTGCTGATAGTGTT
1 AGCATGTGCTGACAGTGTT
7816 TGAGGTAACC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.17, C:0.15, G:0.35, T:0.33
Consensus pattern (21 bp):
AGCATGTGCTGACAGTGTTCG
Found at i:8216 original size:159 final size:162
Alignment explanation
Indices: 7963--8282 Score: 398
Period size: 159 Copynumber: 2.0 Consensus size: 162
7953 CAACCGCCTG
* * * *
7963 CACCAAGGCCCAGCATGTGCCGATAGTGATCAAGGCAACTGCACGCACCAGGGACCATATTCTAT
1 CACCAAGGCCCAACATGTGCCAACAGTGATCAAGGCAACTGCACACACCAGGGACCATATTCTAT
* * * *
8028 CGATGTTGATCGAGGCATGGCATATGTCGATGGTGGTCCAGGCAAGTGCCTATACCAATGGCCAG
66 CGATGCTCATCGAGGCATGGCATATGTCGATGGTGCTCCAGGCAAGTGCCTATACCAAGGGCCAG
* *
8093 CTTGTGAT-GATGGTGGTCGAGGCATGTGCCCT
131 CTTGTG-TCGATGGCGGTCGAGGCAAGTGCCCT
* * * * * *
8125 CACCAAGGCCCAACAT-T-CCAACAGTGCTCGAGGCAACTGCCCACACCAAGGG-CCATCTTTTG
1 CACCAAGGCCCAACATGTGCCAACAGTGATCAAGGCAACTGCACACACC-AGGGACCATATTCTA
* * * *
8187 TCGATGCTCATCGAGGCAT-GCATGTGTCGATGGTGCTCGAGGCAAGTGTCTATACCAGGGGCCA
65 TCGATGCTCATCGAGGCATGGCATATGTCGATGGTGCTCCAGGCAAGTGCCTATACCAAGGGCCA
*
8251 GCTTGTGTCGATGGCGGTCGAGGTAAGTGCCC
130 GCTTGTGTCGATGGCGGTCGAGGCAAGTGCCC
8283 GTACCAAAGG
Statistics
Matches: 135, Mismatches: 21, Indels: 7
0.83 0.13 0.04
Matches are distributed among these distances:
158 1 0.01
159 66 0.49
160 48 0.36
161 5 0.04
162 15 0.11
ACGTcount: A:0.23, C:0.27, G:0.29, T:0.22
Consensus pattern (162 bp):
CACCAAGGCCCAACATGTGCCAACAGTGATCAAGGCAACTGCACACACCAGGGACCATATTCTAT
CGATGCTCATCGAGGCATGGCATATGTCGATGGTGCTCCAGGCAAGTGCCTATACCAAGGGCCAG
CTTGTGTCGATGGCGGTCGAGGCAAGTGCCCT
Found at i:8337 original size:13 final size:13
Alignment explanation
Indices: 8319--8343 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
8309 ATGGTTGATG
8319 CATGTGCCATCAC
1 CATGTGCCATCAC
8332 CATGTGCCATCA
1 CATGTGCCATCA
8344 TGTGCCGTTG
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:0.24, C:0.36, G:0.16, T:0.24
Consensus pattern (13 bp):
CATGTGCCATCAC
Found at i:9227 original size:149 final size:149
Alignment explanation
Indices: 8937--9229 Score: 367
Period size: 150 Copynumber: 2.0 Consensus size: 149
8927 GGCATAGCAG
* *
8937 AAATATGAAGATGTGCCTAAACCCACCTACCACCTGATCGTGGCGTGCATGGTGCTCGGCCTGAG
1 AAATATGAAGATGTGCCTAAACCCACCTACCACCCGATCGTGGCGTGCATGGTGCTCGGCCCGAG
* * * * * * *
9002 CTTAGGACACCCGTGCGTGGTGTGCAGGCACTAGGGAGTGCTCACGTGACTTCACTAGCCATAAA
66 CTCAGGACACCCGCGCGTGGTGCGCAGGCACTAGGGAGGGCTCACATGAATTCACTAGCCACAAA
9067 AATGGTATTGGCATGGTAA
131 AATGGTATTGGCATGGTAA
* * * *
9086 AAATATGAAGATGTTCCTAAACCCACCTACCACCCGATCGTGGCGTGCATTGGTGTTTGGCCCGG
1 AAATATGAAGATGTGCCTAAACCCACCTACCACCCGATCGTGGCGTGCA-TGGTGCTCGGCCCGA
** * * * *
9151 GCTCAGGACACCCGCGCGTGGTGCGTGGGC-GTTGAGGAGGGCTCATATGAATTCA-TGGGCCAC
65 GCTCAGGACACCCGCGCGTGGTGCGCAGGCACTAG-GGAGGGCTCACATGAATTCACT-AGCCAC
9214 AAAAATGGT-TTGGCAT
128 AAAAATGGTATTGGCAT
9230 ATGGAGTTCA
Statistics
Matches: 122, Mismatches: 19, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
149 57 0.47
150 65 0.53
ACGTcount: A:0.24, C:0.24, G:0.29, T:0.23
Consensus pattern (149 bp):
AAATATGAAGATGTGCCTAAACCCACCTACCACCCGATCGTGGCGTGCATGGTGCTCGGCCCGAG
CTCAGGACACCCGCGCGTGGTGCGCAGGCACTAGGGAGGGCTCACATGAATTCACTAGCCACAAA
AATGGTATTGGCATGGTAA
Found at i:9516 original size:171 final size:172
Alignment explanation
Indices: 9261--9695 Score: 414
Period size: 171 Copynumber: 2.5 Consensus size: 172
9251 AGCTTCAATT
* * **
9261 GGATTGAGGGTTGTGGTAGCAGGACCCGTAATAGGATCCG-CAGCACGCAGAG-GGGAACCTGAC
1 GGATCGAGGGTTGTGGTAGCAGGACCCGCAGCAGGAT-CGACAGCACGCAGAGAGGGAACCTGAC
* * * **
9324 CGATCCTCAGCTTACGCATCCTGCCTCTTTGGCTGG-TGTAGTGCCTGCCCGCTTGTTTCATAGG
65 CGATCCTCAGCTTACGCATCCTACCTCTTTGGCTGGCT-CAGTGCCTGCACGCTCATTTCATAGG
* * * * *
9388 TTGACTTAGGCATATGGAGTCCATTCCTAGTCTAAGATCGGACC
129 TTAACTTAGGCATATAGAGTCCATTCCCAGTCAAAGATCAGACC
* **
9432 GGATCGAGGGTTGTGGTAGCAGGACCCACAGCAGGATCGACAGCACGCAGAGAGGG-A-CTGGGT
1 GGATCGAGGGTTGTGGTAGCAGGACCCGCAGCAGGATCGACAGCACGCAGAGAGGGAACCT-GAC
* ** * * **
9495 CGATCCTCGGCTTGTGCATCCTACCTCTTTGGTTGGCTCAGTGCCTGCATGCTCATTTTGTAGGT
65 CGATCCTCAGCTTACGCATCCTACCTCTTTGGCTGGCTCAGTGCCTGCACGCTCATTTCATAGGT
* * *
9560 TAACTTAGGCATATAGAGTTCATTCCCAGTCAAAGCTTAGACC
130 TAACTTAGGCATATAGAGTCCATTCCCAGTCAAAGATCAGACC
* * * * * ** * * * * *
9603 GAACCGAGGGTTGGGGCAGCAAGACTTGCAGCAGGATCGATAGCACACAGA-AGGGGACCAGATC
1 GGATCGAGGGTTGTGGTAGCAGGACCCGCAGCAGGATCGACAGCACGCAGAGAGGGAACCTGACC
* * * *
9667 AATCGTCGGCTTACGTATCCTACCTCTTT
66 GATCCTCAGCTTACGCATCCTACCTCTTT
9696 AGCCGACTCA
Statistics
Matches: 214, Mismatches: 44, Indels: 12
0.79 0.16 0.04
Matches are distributed among these distances:
170 8 0.04
171 201 0.94
172 5 0.02
ACGTcount: A:0.22, C:0.25, G:0.29, T:0.24
Consensus pattern (172 bp):
GGATCGAGGGTTGTGGTAGCAGGACCCGCAGCAGGATCGACAGCACGCAGAGAGGGAACCTGACC
GATCCTCAGCTTACGCATCCTACCTCTTTGGCTGGCTCAGTGCCTGCACGCTCATTTCATAGGTT
AACTTAGGCATATAGAGTCCATTCCCAGTCAAAGATCAGACC
Found at i:17020 original size:19 final size:19
Alignment explanation
Indices: 16996--17033 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
16986 GTTGGGCCAA
16996 GCCCACAACCAGAGCTTCT
1 GCCCACAACCAGAGCTTCT
*
17015 GCCCACAACCATAGCTTCT
1 GCCCACAACCAGAGCTTCT
17034 ACTTGCACCA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.26, C:0.42, G:0.13, T:0.18
Consensus pattern (19 bp):
GCCCACAACCAGAGCTTCT
Found at i:18191 original size:45 final size:45
Alignment explanation
Indices: 18142--18242 Score: 118
Period size: 45 Copynumber: 2.2 Consensus size: 45
18132 TATGTGCCCA
18142 CACCAAGGCCCAG-A-ACGTACCGATGGTCTTCGAGGTAACC-GTCCG
1 CACCAAGGCCCAGCATACGT--CGATGGTCTTCGAGGTAACCGGT-CG
* * *
18187 CACCATGGCCCAGCATATGTCGATGGTGTTCGAGGTAACCGGTCG
1 CACCAAGGCCCAGCATACGTCGATGGTCTTCGAGGTAACCGGTCG
18232 CACCAAAGGCC
1 CACC-AAGGCC
18243 ATCTTCTATC
Statistics
Matches: 48, Mismatches: 4, Indels: 7
0.81 0.07 0.12
Matches are distributed among these distances:
45 37 0.77
46 8 0.17
47 3 0.06
ACGTcount: A:0.24, C:0.32, G:0.28, T:0.17
Consensus pattern (45 bp):
CACCAAGGCCCAGCATACGTCGATGGTCTTCGAGGTAACCGGTCG
Found at i:18290 original size:293 final size:293
Alignment explanation
Indices: 17727--18329 Score: 635
Period size: 293 Copynumber: 2.1 Consensus size: 293
17717 TGAACGAGAC
*
17727 AAGTGCTCGCACCAAGGGCTAGCTTGTGTCGATGGTGGTTGAGACACGTGCCTACACCAAGGCCC
1 AAGTGCTCGCACCAAGGGCTAGCTTGTGTCAATGGTGGTTGAGACACGTGCCTACACCAAGGCCC
* * * * **
17792 AGCACGTACCGATGGTGGTCGAGGCAACCACCAGCACCAATTCGAGGCATGTGCCCGTACCAAGG
66 AACACATACCAATGGTGGTCGAGGCAACCACCAGCACCAACTCGAGGCATGTGCCCACACCAAGG
* * * * * * * *
17857 CCCAGCACGTGCCGATGGTGTTCGAGGCAATCGCCCACACCAAGGGCCATCTTCTATCGATGGTT
131 CCCAGAACGTACCGATGGTCTTCGAGGCAACCGCCCACACCAAGGCCCAGCATATATCGATGGTT
* * * *
17922 ATCGAGGCAACTGCCTACACCAAGGCCCAACATATGCTAATGGTGTTCAATGCAACTACCCGCAC
196 ATCGAGGCAACGGCCTACACCAAGGCCCAACATATGCTAATGGTGATCAAGGCAACTACCCACAC
* * *
17987 TAATGGCCATCTTCTGCCAATGGTGGTCGAGGA
261 TAAGGGCCATCATCTACCAATGGTGGTCGAGGA
* * * *
18020 AAGTGCTCGCACCAAGGGCTGGCTTGTGTCAATGGTGGTTGAGGCATGTGGCC-GCACCAAGGCC
1 AAGTGCTCGCACCAAGGGCTAGCTTGTGTCAATGGTGGTTGAGACACGT-GCCTACACCAAGGCC
* * * * * * *
18084 CAACATATGCCAATGGTGGTTGAGGCAACCGCCTGCACCAGCTCGAGGTATGTGCCCACACCAAG
65 CAACACATACCAATGGTGGTCGAGGCAACCACCAGCACCAACTCGAGGCATGTGCCCACACCAAG
* * * * *
18149 GCCCAGAACGTACCGATGGTCTTCGAGGTAACCGTCCGCACCATGGCCCAGCATATGTCGATGGT
130 GCCCAGAACGTACCGATGGTCTTCGAGGCAACCGCCCACACCAAGGCCCAGCATATATCGATGGT
* * * * * *
18214 GT-TCGAGGTAACCGGTC-GCACCAAAGG-CCATCTTCTAT-C-AATGGTGATCGAGGCAACCT-
195 -TATCGAGGCAA-CGGCCTACACC-AAGGCCCAAC--ATATGCTAATGGTGATCAAGGCAA-CTA
* * * * *
18273 CCTACATTAGGGGCCATCATCTACCGATGGTGGTCGAGGT
254 CCCACACTAAGGGCCATCATCTACCAATGGTGGTCGAGGA
* *
18313 AAGTGCCCACACCAAGG
1 AAGTGCTCGCACCAAGG
18330 CCCAACATGT
Statistics
Matches: 252, Mismatches: 51, Indels: 14
0.79 0.16 0.04
Matches are distributed among these distances:
293 235 0.93
294 14 0.06
295 3 0.01
ACGTcount: A:0.24, C:0.29, G:0.28, T:0.20
Consensus pattern (293 bp):
AAGTGCTCGCACCAAGGGCTAGCTTGTGTCAATGGTGGTTGAGACACGTGCCTACACCAAGGCCC
AACACATACCAATGGTGGTCGAGGCAACCACCAGCACCAACTCGAGGCATGTGCCCACACCAAGG
CCCAGAACGTACCGATGGTCTTCGAGGCAACCGCCCACACCAAGGCCCAGCATATATCGATGGTT
ATCGAGGCAACGGCCTACACCAAGGCCCAACATATGCTAATGGTGATCAAGGCAACTACCCACAC
TAAGGGCCATCATCTACCAATGGTGGTCGAGGA
Found at i:18349 original size:45 final size:45
Alignment explanation
Indices: 18296--18416 Score: 145
Period size: 45 Copynumber: 2.7 Consensus size: 45
18286 CCATCATCTA
*
18296 CCGATGGTGGTCGAGGTAAGT-GCCCACACCAAGGCCCAACATGTG
1 CCGATGGTGCTCGAGGTAA-TCGCCCACACCAAGGCCCAACATGTG
* * *
18341 CCGGTGGTGCTAGAGGTAATCGCCCACACCAAGGCCCAGCATGTG
1 CCGATGGTGCTCGAGGTAATCGCCCACACCAAGGCCCAACATGTG
* * * * *
18386 TCGATGGTGTTCGAGGCAACCGCACACACCA
1 CCGATGGTGCTCGAGGTAATCGCCCACACCA
18417 GGGATCATTT
Statistics
Matches: 64, Mismatches: 11, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
44 1 0.02
45 63 0.98
ACGTcount: A:0.24, C:0.31, G:0.30, T:0.16
Consensus pattern (45 bp):
CCGATGGTGCTCGAGGTAATCGCCCACACCAAGGCCCAACATGTG
Found at i:19489 original size:25 final size:26
Alignment explanation
Indices: 19435--19490 Score: 87
Period size: 26 Copynumber: 2.2 Consensus size: 26
19425 TAGGTTGACT
*
19435 TAAGCATACGGAGTTCATTCCCAGTT
1 TAAGCATACGGAGTTCATTCCCAGTC
*
19461 TAAGCATATGGAGTTCATT-CCAGTC
1 TAAGCATACGGAGTTCATTCCCAGTC
19486 TAAGC
1 TAAGC
19491 TCGGACCGAA
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
25 10 0.36
26 18 0.64
ACGTcount: A:0.29, C:0.21, G:0.20, T:0.30
Consensus pattern (26 bp):
TAAGCATACGGAGTTCATTCCCAGTC
Found at i:19746 original size:352 final size:342
Alignment explanation
Indices: 18998--19817 Score: 866
Period size: 352 Copynumber: 2.4 Consensus size: 342
18988 GCAAGATTGG
* *
18998 CAGCACATAGA-AGGGGATCAGGTCGATCCTCAACTTGCACATCCTGCCTCTCTGGTCGACTCAG
1 CAGCACATAGAGA-GGGATCAGGTCGATCCTCAACTTGCACATCCTGCCTCTTTGGCCGACTCAG
* **
19062 TGCCCCGCACGCTCGTTTTGTAGGTTGACTTAGGCATACATAA-TTCATTCCCAGTCTAAGCATA
65 TG--CCGCACGCTCATTTCATAGGTTGACTTAGGCATACA-AAGTTCATTCCCAGTCTAAGCATA
* * * *
19126 CGGAGTTCATTCCCAGTCTATGCTTAGACCAGACCGAGGGTTGGGCCAGCAGGATCGATAGGACG
127 CGGAGTTCATTCCCAGTCTAAGCTCAGACCAGACCGAGGGTTGGGCCAGCAGGATCGACAGCACG
* * * * * *
19191 CAGAGAGGGATCGGGCTGATCCTTGGCTTACACATCTTGCTTCTCTGGCTGGCTCAGAGCCCGCA
192 CAGAGAGGGATCGGGCTGATCCTCGACTTACACATCCTACTCCTCTGGCTGACTCAGAGCCCGCA
* * *
19256 TGCTCATTTCATGAGTTGACTTAGGCATACGGAGTTCATTCCTAGTCTAAGCCCCAGTCAGATTG
257 CGCTCATTTCATGAGTTGACTTAGGCATACGGAGTTCATTCCTAGTCTAAACCCCAGTCAGACTG
19321 AAGGACCTGTAGCAGGATCGA
322 AAGGACCTGTAGCAGGATCGA
* * ** * * *
19342 CAGCATACAGAG-GGAGATTGGGTCGATCCTCAGCTTGTACATCCTACCTCTTTGGCCGACTCAG
1 CAGCACATAGAGAGG-GATCAGGTCGATCCTCAACTTGCACATCCTGCCTCTTTGGCCGACTCAG
** * * ** * *
19406 TGCCTTATGCTCAATTTCATAGGTTGACTTAAGCATACGGAGTTCATTCCCAGTTTAAGCATATG
65 TGCCGCACGCTC-ATTTCATAGGTTGACTTAGGCATACAAAGTTCATTCCCAGTCTAAGCATACG
* *
19471 GAGTTCATT-CCAGTCTAAGCTCGGACC-GAATCGAGGGTTGAGGCAGTAGGACCCGTAGCAGGA
129 GAGTTCATTCCCAGTCTAAGCTCAGACCAG-ACCGAGGGTT------G--GG--CC--AGCAGGA
* * * *
19534 TCGACAGCATGCAGAGAGGGATTGGGTTGATCCTCGACTTACGCATCCTAC-CCTCTGGCTGACT
181 TCGACAGCACGCAGAGAGGGATCGGGCTGATCCTCGACTTACACATCCTACTCCTCTGGCTGACT
** * * * * * *
19598 CAGTTCCCGTACGCTCGTTTCATGGGTTGACTTAGGCCTA-TGTGTTCATTCCTAGTCTAAACCC
246 CAGAGCCCGCACGCTCATTTCATGAGTTGACTTAGGCATACGGAGTTCATTCCTAGTCTAAACCC
* * *
19662 TAGTCGGACTGAGGGA-CTCGTAGCAGGATCGA
311 CAGTCAGACTGAAGGACCT-GTAGCAGGATCGA
* * * * *
19694 CAGCACATAGAGAGGGATCAGATTGATCCTCAACTTACACATTCTGCCTCTTTGGCC-AGCTTAG
1 CAGCACATAGAGAGGGATCAGGTCGATCCTCAACTTGCACATCCTGCCTCTTTGGCCGA-CTCAG
* *
19758 TGCTCGCACGCTCATTTCATGGGTTGACTTAGGCATACAAAGTTCATTCCCAATCTAAGC
65 TGC-CGCACGCTCATTTCATAGGTTGACTTAGGCATACAAAGTTCATTCCCAGTCTAAGC
19818 CCCAGCCAGA
Statistics
Matches: 384, Mismatches: 71, Indels: 34
0.79 0.15 0.07
Matches are distributed among these distances:
341 1 0.00
342 32 0.08
343 53 0.14
344 53 0.14
348 1 0.00
350 2 0.01
351 3 0.01
352 139 0.36
353 52 0.14
354 48 0.12
ACGTcount: A:0.23, C:0.26, G:0.25, T:0.26
Consensus pattern (342 bp):
CAGCACATAGAGAGGGATCAGGTCGATCCTCAACTTGCACATCCTGCCTCTTTGGCCGACTCAGT
GCCGCACGCTCATTTCATAGGTTGACTTAGGCATACAAAGTTCATTCCCAGTCTAAGCATACGGA
GTTCATTCCCAGTCTAAGCTCAGACCAGACCGAGGGTTGGGCCAGCAGGATCGACAGCACGCAGA
GAGGGATCGGGCTGATCCTCGACTTACACATCCTACTCCTCTGGCTGACTCAGAGCCCGCACGCT
CATTTCATGAGTTGACTTAGGCATACGGAGTTCATTCCTAGTCTAAACCCCAGTCAGACTGAAGG
ACCTGTAGCAGGATCGA
Found at i:25887 original size:44 final size:44
Alignment explanation
Indices: 25838--25938 Score: 123
Period size: 44 Copynumber: 2.3 Consensus size: 44
25828 AGAAGATGGC
* *
25838 CCTTGGTGTGGGATGTTACCTTGAACACCATCGGTACATGCTGA-
1 CCTTGGTGTGGGA-CTTACCTTGAACACCATCGATACATGCTGAG
* * * *
25882 CCTTGGTATAGGCACTTGCCTTGAACACCATCGATACATGTTGAG
1 CCTTGGTGT-GGGACTTACCTTGAACACCATCGATACATGCTGAG
25927 CCTTGGTGTGGG
1 CCTTGGTGTGGG
25939 CAAATACCTC
Statistics
Matches: 47, Mismatches: 8, Indels: 4
0.80 0.14 0.07
Matches are distributed among these distances:
44 36 0.77
45 11 0.23
ACGTcount: A:0.20, C:0.23, G:0.28, T:0.30
Consensus pattern (44 bp):
CCTTGGTGTGGGACTTACCTTGAACACCATCGATACATGCTGAG
Found at i:25956 original size:45 final size:44
Alignment explanation
Indices: 25854--25957 Score: 118
Period size: 44 Copynumber: 2.3 Consensus size: 44
25844 TGTGGGATGT
* **
25854 TACCTTGAACACCATCGGTACATGCTGACCTTGGTATAGGCACT
1 TACCTTGAACACCATCGATACATGCTGACCTTGGTATAGGCAAA
* * * *
25898 TGCCTTGAACACCATCGATACATGTTGAGCCTTGGTGTGGGCAAA
1 TACCTTGAACACCATCGATACATGCTGA-CCTTGGTATAGGCAAA
* *
25943 TACCTCGACCACCAT
1 TACCTTGAACACCAT
25958 TAGCACTTAC
Statistics
Matches: 49, Mismatches: 10, Indels: 1
0.82 0.17 0.02
Matches are distributed among these distances:
44 25 0.51
45 24 0.49
ACGTcount: A:0.25, C:0.28, G:0.21, T:0.26
Consensus pattern (44 bp):
TACCTTGAACACCATCGATACATGCTGACCTTGGTATAGGCAAA
Done.