Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_018403288.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_962.0, 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: 14168
ACGTcount: A:0.22, C:0.08, G:0.08, T:0.22
Warning! 5786 characters in sequence are not A, C, G, or T
Found at i:470 original size:171 final size:171
Alignment explanation
Indices: 5--676 Score: 720
Period size: 171 Copynumber: 3.9 Consensus size: 171
1 GTGA
** ** *
5 TATAAATGGACTTTTCTTATTAATGAATGCTTGTTTCCTTGTGTTTCTTGAGGTAGACATTCAAT
1 TATAAATGGACTTTTCTTACCAATGAATGCTTGTTTCCTCATGTTTCTTGAGGTAAACATTCAAT
* * *******
70 TATAGTCTGTTTTAACCAAAAATCTAAAATAATTCAGCTTAAAATCAATTATGAGATTNNNNNNN
66 TATAGTCTGTTTTAACCAAAAATCTAAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAAT
*** *
135 NNNTTAAAGCGAGTAATAAGGCTTTTAAAGGAATAGGAGAC
131 CATTTAAAGCGAGTAATAAGGCTTTTGAAGGAATAGGAGAC
* * * *
176 TATAAATGGACTTTGCTTGCCAATGAATGCTT-TTTCTTCATGGTTCTTGAGGTAAACATTCAAT
1 TATAAATGGACTTTTCTTACCAATGAATGCTTGTTTCCTCATGTTTCTTGAGGTAAACATTCAAT
* * * * * * *
240 GATGGTCTCTTTTAACTAAAAATCTAAAAATATTCAACTTAAAATTAATTATAAGATTATAAAAT
66 TATAGTCTGTTTTAACCAAAAATCTAAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAAT
* *
305 CATTTAAAGCGAGTAATAAGCCTTTTGAACGAAT-GGTTA-AC
131 CATTTAAAGCGAGTAATAAGGCTTTTGAAGGAATAGG--AGAC
* * *
346 TATAAATAGACTTTTCTTATCAATGAATGCTTGTTTCCTCATGTTTCTTGAGGTAGACATTCAAT
1 TATAAATGGACTTTTCTTACCAATGAATGCTTGTTTCCTCATGTTTCTTGAGGTAAACATTCAAT
* * * * * *
411 TATAGCCTGTTTCAACCAAGAATCTAAAAAAAATCAATTTAAAATCAATTATGAGATTATAAAAC
66 TATAGTCTGTTTTAACCAAAAATCTAAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAAT
* *
476 CATTTTAAGCGAGTAATAAGACTTTTGAAGGAATAGGAGAC
131 CATTTAAAGCGAGTAATAAGGCTTTTGAAGGAATAGGAGAC
********** * * * ** *
517 TATAAANNNNNNNNNNTTGCCAATGAATGCTTGTTTCTTCAGGTTTCTCAAGGTAAATATTCAAT
1 TATAAATGGACTTTTCTTACCAATGAATGCTTGTTTCCTCATGTTTCTTGAGGTAAACATTCAAT
* ** * * *
582 TATAGTCTGTTGTAATTAAAAATGTAAAACAATTCAACTTAAAAGCAATTATGAGATTATAAAAT
66 TATAGTCTGTTTTAACCAAAAATCTAAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAAT
*
647 AATTTAAAGCGAGTAATAAGGCTTTTGAAG
131 CATTTAAAGCGAGTAATAAGGCTTTTGAAG
677 NNNNNNNNNN
Statistics
Matches: 409, Mismatches: 87, Indels: 10
0.81 0.17 0.02
Matches are distributed among these distances:
169 2 0.00
170 135 0.33
171 270 0.66
172 2 0.00
ACGTcount: A:0.37, C:0.12, G:0.14, T:0.35
Consensus pattern (171 bp):
TATAAATGGACTTTTCTTACCAATGAATGCTTGTTTCCTCATGTTTCTTGAGGTAAACATTCAAT
TATAGTCTGTTTTAACCAAAAATCTAAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAAT
CATTTAAAGCGAGTAATAAGGCTTTTGAAGGAATAGGAGAC
Found at i:1560 original size:169 final size:171
Alignment explanation
Indices: 1205--1570 Score: 515
Period size: 169 Copynumber: 2.2 Consensus size: 171
1195 NNNNNNNCAG
* * * * *
1205 CTTAAAGTCAATTATGAGATTATAAAACTATTTAAATCGAGTAATGAGGCTTTTGAAAGAATAGG
1 CTTAAAATAAATTATGAGATTATAAAACAATTTAAAGCGAGTAATAAGGCTTTTGAAAGAATAGG
** *
1270 AGACTATAAATGGGCTTTTCTTGTCAATGAAGACTTTTTTCTTTACATTTCTCAAGGTAAACATT
66 AGACTATAAATGGGCTTTTCTTACCAATGAAGACTTTTTTCTTCACATTTCTCAAGGTAAACATT
** *
1335 CAATTATTGTCTCTTTTAACAAAAAATCTAAAAAAATTCAA
131 CAATTATAATCTATTTTAACAAAAAATCTAAAAAAATTCAA
* *
1376 CTTAAAATAAATTATGACATTATAAAACAATTTAAAGCGAGTAATAAGGCTTTTGAAAGAATATG
1 CTTAAAATAAATTATGAGATTATAAAACAATTTAAAGCGAGTAATAAGGCTTTTGAAAGAATAGG
** ** *
1441 AGACTATAAATGGAG-TTTTC-TACCAATGAATG-C-TTTTTCTTCATGTTTCTTGAGGTAAATA
66 AGACTATAAATGG-GCTTTTCTTACCAATGAA-GACTTTTTTCTTCACATTTCTCAAGGTAAACA
1502 TTCAATTATAATCTATTTTAACAAAAAATCTAAAAAAATTCAA
129 TTCAATTATAATCTATTTTAACAAAAAATCTAAAAAAATTCAA
*
1545 CTTAAAATTAATTATGAGATTATAAA
1 CTTAAAATAAATTATGAGATTATAAA
1571 NNNNNNNNNN
Statistics
Matches: 173, Mismatches: 20, Indels: 6
0.87 0.10 0.03
Matches are distributed among these distances:
169 86 0.50
170 9 0.05
171 77 0.45
172 1 0.01
ACGTcount: A:0.41, C:0.11, G:0.12, T:0.36
Consensus pattern (171 bp):
CTTAAAATAAATTATGAGATTATAAAACAATTTAAAGCGAGTAATAAGGCTTTTGAAAGAATAGG
AGACTATAAATGGGCTTTTCTTACCAATGAAGACTTTTTTCTTCACATTTCTCAAGGTAAACATT
CAATTATAATCTATTTTAACAAAAAATCTAAAAAAATTCAA
Found at i:3184 original size:171 final size:171
Alignment explanation
Indices: 2477--3323 Score: 604
Period size: 171 Copynumber: 5.0 Consensus size: 171
2467 AATGTAAACG
* *
2477 AATTCAGCTTAAAATCAATTATGAGATTGTAAAACCATTTAAAGCGAGTAATATGACTTTTGAAG
1 AATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAATATGACTTTTGAAG
* * * * *
2542 GAAT-GTGTGACTATAAAT-GAAATTGTT-TTGCCAGTGAATTCCTTTTTCTTCATGTTTCTCAA
66 GAATAG-ATGACTATAAATAG-ACTT-TTCTTGCCAATGAATGCCTTTTTCTTCACGTTTCTCAA
********** *
2604 GNNNNNNNNNNAACTATAGCCTGTTTTAACT-AAAATTATAAAAA
128 GGTAAACATTCAACTATAGCCTGTTTTAACTAAAAATGA-AAAAA
* * * * *******
2648 AATTCAACTTAAAATCAATTATTAGCTTACAAAACTATTTAAAGCGAGT-A-ATGANNNNNNNNN
1 AATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAATATGA--CTTTTGA
* * * ** * * *
2711 NGGAATAAAAGACTATAAATAGACTTTTCTTATCAATGAATGCTTTTTTCTTTACGTTTCTTAAG
64 AGGAATAGATGACTATAAATAGACTTTTCTTGCCAATGAATGCCTTTTTCTTCACGTTTCTCAAG
* * * * **
2776 CTAAACATTCAATTATTA-TCTATTTTAA-TGAAAAATTTAAAAA
129 GTAAACATTCAACTA-TAGCCTGTTTTAACT-AAAAATGAAAAAA
* * ** *
2819 AACTCAACTTAAAATCAATTATGACATTATAAAATAATTTAAAGCGAGTAATAACG-CTTTTGAA
1 AATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAAT-ATGACTTTTGAA
* * * *
2883 GAAATAAGA-GACTATAAATGGACTTTTCTTGCCAAAGAATG-CTTTTTCTTCACGTTTCTTAAG
65 GGAAT-AGATGACTATAAATAGACTTTTCTTGCCAATGAATGCCTTTTTCTTCACGTTTCTCAAG
* * * ********
2946 GTAAACATTCAATTATAGTCTATTTTAACTAAAAAANNNNNNN
129 GTAAACATTCAACTATAGCCTGTTTTAACTAAAAATGAAAAAA
*** * *
2989 NNNTCAACTTAAAATTAATTATGAGATTATAAAACCATTTAAAGGGAGTAATATGACTTTTGAAG
1 AATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAATATGACTTTTGAAG
* * * * * *
3054 GAATGGATGACTAGAAATAGACTTTTTTTGCCAGTCAATGCCTTTTTCTTCATGTTTCTCAAGGT
66 GAATAGATGACTATAAATAGACTTTTCTTGCCAATGAATGCCTTTTTCTTCACGTTTCTCAAGGT
* *
3119 AGACATTCAACTATAGCCTGTTTTAGCTAAAAATGAAAAAA
131 AAACATTCAACTATAGCCTGTTTTAACTAAAAATGAAAAAA
*********** * *
3160 AATTCAACTTAAAATCAATTATGAGNNNNNNNNNNTATTTAAAGCGAGTAATAAGCCTTTTGAAG
1 AATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAATATGACTTTTGAAG
* * * * ** **
3225 GAATAGGTAATTATAAATGGACTTTTCTTATCAATGAATG-CTTGTTTCCTT-GTGTTTCTCAAG
66 GAATAGATGACTATAAATAGACTTTTCTTGCCAATGAATGCCTT-TTT-CTTCACGTTTCTCAAG
* *
3288 GTAAACATTCAATTATAGTCTGTTTTAACTAAAAAT
129 GTAAACATTCAACTATAGCCTGTTTTAACTAAAAAT
3324 CTAAAAANNN
Statistics
Matches: 518, Mismatches: 139, Indels: 38
0.75 0.20 0.05
Matches are distributed among these distances:
169 10 0.02
170 138 0.27
171 353 0.68
172 15 0.03
174 2 0.00
ACGTcount: A:0.37, C:0.12, G:0.12, T:0.35
Consensus pattern (171 bp):
AATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAATATGACTTTTGAAG
GAATAGATGACTATAAATAGACTTTTCTTGCCAATGAATGCCTTTTTCTTCACGTTTCTCAAGGT
AAACATTCAACTATAGCCTGTTTTAACTAAAAATGAAAAAA
Found at i:3810 original size:171 final size:170
Alignment explanation
Indices: 3431--4600 Score: 1164
Period size: 171 Copynumber: 6.8 Consensus size: 170
3421 NNNNNNNNNN
* *
3431 CTCGCTTTAAATGGTTTTATAATCTCATAATTGATTTTAAATTGAATTTTTTTAGATTTTTAGGT
1 CTCGCTTTAAATGGTTTTATAATCTCATAATTGATTTTAAGTTGAATTTTTTTAGATTTTTAGTT
** * ** *
3496 AAAATAGACTATAATTGAATGTTTACCTCAAGAAACATGAAG-AAAAAGCATTCATTGGTAGGAA
66 AAAATAGACTATAATTGAATG-TTACCTTGAGAAACATAAAGAAAAAAGCATTCATTGACAAGAA
* * *
3560 AAGTCCATTTATAATGTCATATTCCTTCTAAAGCCTTATTA
130 AAGTCCATTTATAATCTCATATTCCTTCAAAAGCCTCATTA
* ** * * * *
3601 CTCGTTTTAAATTATTTTATACTATCATAATTGATTTTAAGTTGATTTTTTTTAGATTTCTCA-T
1 CTCGCTTTAAATGGTTTTATAATCTCATAATTGATTTTAAGTTGAATTTTTTTAGATTT-TTAGT
* * *
3665 TAAAATAGACAATAATTGAATGATTACCTTGAGAAACATAAAGAAAAAAGAATTCATTCACAAGA
65 TAAAATAGACTATAATTGAATG-TTACCTTGAGAAACATAAAGAAAAAAGCATTCATTGACAAGA
* * *
3730 AAAGACAATTTATAATCTCATATTCCTTAAAAAGCCTCATTA
129 AAAGTCCATTTATAATCTCATATTCCTTCAAAAGCCTCATTA
* * *
3772 CTCGCTATAAATGGATTTATAATCTCATAATTGATTTTAAGTTG-ATTGTTTTTAGATTTTTATT
1 CTCGCTTTAAATGGTTTTATAATCTCATAATTGATTTTAAGTTGAATT-TTTTTAGATTTTTAGT
* ** * * * *
3836 TAAAATAGACTATATTTGAATAGTTAAATTGGGAAACATAAGGAAACAAGCATTCATTGATAA-A
65 TAAAATAGACTATAATTGAAT-GTTACCTTGAGAAACATAAAGAAAAAAGCATTCATTGACAAGA
* * *
3900 CAAAGTCCATTTATAGTCAC-TCATTCCTTCAAAAGGCTTC-TTA
129 -AAAGTCCATTTATAATCTCAT-ATTCCTTCAAAA-GCCTCATTA
* * * *
3943 CTCGCTTTAAATAGTGTTATAATCTCATAATTGATTTTAAGTAGAATGTTTTT-GCATTTTTAGT
1 CTCGCTTTAAATGGTTTTATAATCTCATAATTGATTTTAAGTTGAATTTTTTTAG-ATTTTTAGT
* * * * * * ** *
4007 TAAAACAGGCTATAGTTGAATGTCTACCTTGAGAAACATAAAGAAAAAGGCATTTACTGGGAAAA
65 TAAAATAGACTATAATTGAATGT-TACCTTGAGAAACATAAAGAAAAAAGCATTCATTGACAAGA
** * * * *
4072 AAAGTGTATTTATAGTCACCTATTCCTTCAAAAG-CTATATTA
129 AAAGTCCATTTATAATCTCATATTCCTTCAAAAGCCT-CATTA
* *
4114 CTCGCTTTAAATGGTTTTATAATCTCATAATTAATTTTAAGTTGAATTTGTTTTACATTTTTCA-
1 CTCGCTTTAAATGGTTTTATAATCTCATAATTGATTTTAAGTTGAATTT-TTTTAGATTTTT-AG
* * * ** ** * * *
4178 TTAAAATAGAATATAATTGGATGCTTACC-TCAGGAAATGTGCAG-AAAATGCCGTTCATTGAGA
64 TTAAAATAGACTATAATTGAATG-TTACCTTGA-GAAACATAAAGAAAAAAG-CATTCATTGACA
*
4241 AGAAAAGTCCATTTATAGTCATCA-ATTCCTTCAAAAGCCTCATTA
126 AGAAAAGTCCATTTATAATC-TCATATTCCTTCAAAAGCCTCATTA
** * *
4286 CTCGCTTTACATTATTTTTTTATAATCTCATAATTGATTTTGAGTTGAGTTTTTTTAGATTTTTC
1 CTCGCTTTA-A--ATGGTTTTATAATCTCATAATTGATTTTAAGTTGAATTTTTTTAGATTTTT-
* * * * * *
4351 A-TTAAAACAGA-TAATAATTGAATGTCTAACTCGAGAAACGTAAAGAAAAATGCATTCATTGGC
62 AGTTAAAATAGACT-ATAATTGAATGT-TACCTTGAGAAACATAAAGAAAAAAGCATTCATTGAC
*
4414 AAGAAAAGTCCATTTATAATCTCGTATTCCTTCAAAAGCCTCATTA
125 AAGAAAAGTCCATTTATAATCTCATATTCCTTCAAAAGCCTCATTA
* * * * *
4460 CTGGCTTTAAATGGTTTTATAATCTCATAATTCATTTTACGTTGAATTCTTTTACATTTTTAGTT
1 CTCGCTTTAAATGGTTTTATAATCTCATAATTGATTTTAAGTTGAATTTTTTTAGATTTTTAGTT
* * * ** * * **
4525 AAAACAGACTATATTTGAATGGCTACCTCAAGAAACTTGAAA-AAAGAAGCATTCATTGGTAAGA
66 AAAATAGACTATAATTGAAT-GTTACCTTGAGAAACAT-AAAGAAAAAAGCATTCATTGACAAGA
4589 AAAGTCCATTTA
129 AAAGTCCATTTA
4601 NNNNNNNNNN
Statistics
Matches: 828, Mismatches: 137, Indels: 69
0.80 0.13 0.07
Matches are distributed among these distances:
169 1 0.00
170 101 0.12
171 470 0.57
172 104 0.13
173 11 0.01
174 100 0.12
175 41 0.05
ACGTcount: A:0.36, C:0.13, G:0.13, T:0.38
Consensus pattern (170 bp):
CTCGCTTTAAATGGTTTTATAATCTCATAATTGATTTTAAGTTGAATTTTTTTAGATTTTTAGTT
AAAATAGACTATAATTGAATGTTACCTTGAGAAACATAAAGAAAAAAGCATTCATTGACAAGAAA
AGTCCATTTATAATCTCATATTCCTTCAAAAGCCTCATTA
Found at i:4085 original size:342 final size:337
Alignment explanation
Indices: 3431--4600 Score: 1291
Period size: 342 Copynumber: 3.4 Consensus size: 337
3421 NNNNNNNNNN
* * *
3431 CTCGCTTTAAATGGTTTTATAATCTCATAATTGATTTTAAATTGAATTTTTTTAGATTTTTAGGT
1 CTCGCTTTAAATGGTTTTATAATCTCATAATTGATTTTAAGTTGAATTTTTTTACATTTTTAGTT
* * * *
3496 AAAATAGACTATAATTGAATGTTTACCTCAAGAAACATGAAGAAAAAGCATTCATTGGTAGGAAA
66 AAAATAGACTATAATTGAATGCTTACCTCAGGAAACATGAAGAAAAAGCATTCATTGATA-AAAA
* * * * * *
3561 AGTCCATTTATAATGTCAT-ATTCCTTCTAAAGCCTTATTACTCGTTTTAAATTATTTTATACTA
130 AGTCCATTTAT-A-GTCATCATTCCTTCAAAAGGCTTCTTACTCGCTTTAAA-TATTTTATAATC
* * * * *
3625 TCATAATTGATTTTAAGTTGATTTTTTTTAGATTTCTCATTAAAATAGACAATAATTGAATGAT-
192 TCATAATTGATTTTAAGTTGAATTTTTTTAGATTT-TTATTAAAACAGGCTATAATTGAATG-TC
* ** *
3689 TACCTTGAGAAACATAAAGAAAAAAGAATTCATTCACAAGAAAAGACAATTTATAATCTCATATT
255 TACCTTGAGAAACATAAAGAAAAAAGCATTCATTGGCAAGAAAAGTCAATTTATAATCTCATATT
*
3754 CCTTAAAAAGCCTCATTA
320 CCTTCAAAAGCCTCATTA
* * * *
3772 CTCGCTATAAATGGATTTATAATCTCATAATTGATTTTAAGTTG-ATTGTTTTTAGATTTTTATT
1 CTCGCTTTAAATGGTTTTATAATCTCATAATTGATTTTAAGTTGAATT-TTTTTACATTTTTAGT
* ** **
3836 TAAAATAGACTATATTTGAATAG-TTAAATTGGGAAACAT-AAGGAAACAAGCATTCATTGATAA
65 TAAAATAGACTATAATTGAAT-GCTTACCTCAGGAAACATGAA-GAAA-AAGCATTCATTGATAA
*
3899 ACAAAGTCCATTTATAGTCACTCATTCCTTCAAAAGGCTTCTTACTCGCTTTAAATAGTGTTATA
127 A-AAAGTCCATTTATAGTCA-TCATTCCTTCAAAAGGCTTCTTACTCGCTTTAAATA-TTTTATA
* * *
3964 ATCTCATAATTGATTTTAAGTAGAATGTTTTT-GCATTTTTAGTTAAAACAGGCTATAGTTGAAT
189 ATCTCATAATTGATTTTAAGTTGAATTTTTTTAG-ATTTTTA-TTAAAACAGGCTATAATTGAAT
* * * * * ** * * *
4028 GTCTACCTTGAGAAACATAAAGAAAAAGGCATTTACTGGGAAAAAAAGTGTATTTATAGTCACCT
252 GTCTACCTTGAGAAACATAAAGAAAAAAGCATTCATTGGCAAGAAAAGTCAATTTATAATCTCAT
*
4093 ATTCCTTCAAAAG-CTATATTA
317 ATTCCTTCAAAAGCCT-CATTA
*
4114 CTCGCTTTAAATGGTTTTATAATCTCATAATTAATTTTAAGTTGAATTTGTTTTACATTTTTCA-
1 CTCGCTTTAAATGGTTTTATAATCTCATAATTGATTTTAAGTTGAATTT-TTTTACATTTTT-AG
* * ** * * * *
4178 TTAAAATAGAATATAATTGGATGCTTACCTCAGGAAATGTGCAGAAAATGCCGTTCATTGAGAAG
64 TTAAAATAGACTATAATTGAATGCTTACCTCAGGAAACATGAAGAAAAAG-CATTCATTGATAA-
* *
4243 AAAAGTCCATTTATAGTCATCAATTCCTTCAAAA-GCCTCATTACTCGCTTTACATTATTTTTTT
127 AAAAGTCCATTTATAGTCATC-ATTCCTTCAAAAGGCTTC-TTACTCGCTTTA-A--A-TATTTT
* * *
4307 ATAATCTCATAATTGATTTTGAGTTGAGTTTTTTTAGATTTTTCATTAAAACA-GATAATAATTG
186 ATAATCTCATAATTGATTTTAAGTTGAATTTTTTTAGATTTTT-ATTAAAACAGGCT-ATAATTG
* * * * *
4371 AATGTCTAACTCGAGAAACGTAAAGAAAAATGCATTCATTGGCAAGAAAAGTCCATTTATAATCT
249 AATGTCTACCTTGAGAAACATAAAGAAAAAAGCATTCATTGGCAAGAAAAGTCAATTTATAATCT
*
4436 CGTATTCCTTCAAAAGCCTCATTA
314 CATATTCCTTCAAAAGCCTCATTA
* * * *
4460 CTGGCTTTAAATGGTTTTATAATCTCATAATTCATTTTACGTTGAATTCTTTTACATTTTTAGTT
1 CTCGCTTTAAATGGTTTTATAATCTCATAATTGATTTTAAGTTGAATTTTTTTACATTTTTAGTT
* * * * * *
4525 AAAACAGACTATATTTGAATGGC-TACCTCAAGAAACTTGAAAAAAGAAGCATTCATTGGTAAGA
66 AAAATAGACTATAATTGAAT-GCTTACCTCAGGAAACATGAAGAAA-AAGCATTCATTGATAA-A
4589 AAAGTCCATTTA
128 AAAGTCCATTTA
4601 NNNNNNNNNN
Statistics
Matches: 696, Mismatches: 101, Indels: 60
0.81 0.12 0.07
Matches are distributed among these distances:
340 9 0.01
341 101 0.15
342 227 0.33
343 100 0.14
344 5 0.01
345 73 0.10
346 176 0.25
347 5 0.01
ACGTcount: A:0.36, C:0.13, G:0.13, T:0.38
Consensus pattern (337 bp):
CTCGCTTTAAATGGTTTTATAATCTCATAATTGATTTTAAGTTGAATTTTTTTACATTTTTAGTT
AAAATAGACTATAATTGAATGCTTACCTCAGGAAACATGAAGAAAAAGCATTCATTGATAAAAAA
GTCCATTTATAGTCATCATTCCTTCAAAAGGCTTCTTACTCGCTTTAAATATTTTATAATCTCAT
AATTGATTTTAAGTTGAATTTTTTTAGATTTTTATTAAAACAGGCTATAATTGAATGTCTACCTT
GAGAAACATAAAGAAAAAAGCATTCATTGGCAAGAAAAGTCAATTTATAATCTCATATTCCTTCA
AAAGCCTCATTA
Found at i:8325 original size:171 final size:171
Alignment explanation
Indices: 7959--8333 Score: 421
Period size: 171 Copynumber: 2.2 Consensus size: 171
7949 NNNNNNNNNN
* * **
7959 ATTCCTTCAAAAGCCTTATTACTCGCTTGAAATTATTTTATAATGTCATAATTGATTTTAAGTAG
1 ATTCCTTCAAAAGCCTTATTACTCGCTTTAAATGATTTTATAACCTCATAATTGATTTTAAGTAG
* * * *
8024 AATTTTTTTAGATTTCTCGTTAAAATAGACAACAATTGAATGTTTACCTTGAGAAACGTAAAGAA
66 AATTTTTTTAGATTTCTAGTTAAAATAGACAACAATTAAATGTTTACATAGAGAAACGTAAAGAA
* * * *
8089 AAAAGAATTCATTGGTAAGAAAAGTCCATTTATAGTCTCCT
131 AAAAGAATTCATTGATAAAAAAAATCCATTTATAGTCACCT
********** * *
8130 ATTCCTTCNNNNNNNNNNTTACTCGCTTTAAATGGTTTTATAACCTCATAATTGATTTTACGCT-
1 ATTCCTTCAAAAGCCTTATTACTCGCTTTAAATGATTTTATAACCTCATAATTGATTTTAAG-TA
* * * * *
8194 GAATTTTTTTAGATTTCTATTTCAAATAGACTATAATTAAATGTTTACATCAG-GAAACGTAAGG
65 GAATTTTTTTAGATTTCTAGTTAAAATAGACAACAATTAAATGTTTACAT-AGAGAAACGTAAAG
* * *
8258 AAACAAGCATTCATTGATAAAAAAAATCTATTTATAGTCACCT
129 AAAAAAGAATTCATTGATAAAAAAAATCCATTTATAGTCACCT
*
8301 ATTCCTTCAAAAGGCTTATTACTCGCTTTAAAT
1 ATTCCTTCAAAAGCCTTATTACTCGCTTTAAAT
8334 AGTTNNNNNN
Statistics
Matches: 160, Mismatches: 42, Indels: 4
0.78 0.20 0.02
Matches are distributed among these distances:
171 158 0.99
172 2 0.01
ACGTcount: A:0.35, C:0.14, G:0.11, T:0.37
Consensus pattern (171 bp):
ATTCCTTCAAAAGCCTTATTACTCGCTTTAAATGATTTTATAACCTCATAATTGATTTTAAGTAG
AATTTTTTTAGATTTCTAGTTAAAATAGACAACAATTAAATGTTTACATAGAGAAACGTAAAGAA
AAAAGAATTCATTGATAAAAAAAATCCATTTATAGTCACCT
Done.