Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_018402664.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_5731.0, 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: 2790
ACGTcount: A:0.38, C:0.12, G:0.14, T:0.36
Found at i:92 original size:21 final size:21
Alignment explanation
Indices: 68--110 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
58 AATGAATGGG
* *
68 TGACTATAAATGGATTTTTCT
1 TGACAATAAATGGACTTTTCT
* *
89 TGACAATGAATGGCCTTTTCT
1 TGACAATAAATGGACTTTTCT
110 T
1 T
111 CACTTTTCTC
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.26, C:0.14, G:0.16, T:0.44
Consensus pattern (21 bp):
TGACAATAAATGGACTTTTCT
Found at i:283 original size:170 final size:169
Alignment explanation
Indices: 1--546 Score: 720
Period size: 170 Copynumber: 3.2 Consensus size: 169
* * *
1 AACTTAAAATCAATTATGAGATTACAACACAATTTAAAGTGAGTAATAAAGCTTTTGAATGAATG
1 AACTTAAAATCAATTATGAGATTACAAAACTATTTAAAGTGAGTAAT-AAGCTTTTGAAGGAATG
* * * * * *
66 GGTGACTATAAATGGATTTTTCTTGACAATGAATGGCCTTTTCTTCACTTTTCTCGGGGTAGATA
65 GGTGACTATAAATGGACTTTTCTTGCCAATGAATGGCTTTTTCTTCACTTTTCTCGAGGCAGACA
** **
131 TTCAAACATAATCTGTTTTAATGAAAAATGTAAAAAAATC
130 TTCAATTATAATCTGTTTTAACCAAAAATGTAAAAAAATC
* * *
171 AACTTAAAATCAATTATGAAATTATAAAACTATTTAAAGTGGGTAATAAGGCTTTTGAAGGAATG
1 AACTTAAAATCAATTATGAGATTACAAAACTATTTAAAGTGAGTAATAA-GCTTTTGAAGGAATG
* * * * * *
236 GGTTACTAAAAATAGACTTTTCTTGCCAATAAATGACTTTTTCTTCACGTTTTCT-GAGGCAGGC
65 GGTGACTATAAATGGACTTTTCTTGCCAATGAATGGCTTTTTCTTCAC-TTTTCTCGAGGCAGAC
* *
300 ATTCAATTTTAATCTG-TTTAACCAAAAATGTAAAAAACTTC
129 ATTCAATTATAATCTGTTTTAACCAAAAATGTAAAAAA-ATC
* * *
341 AAATTAAAATCAATTATGAGATTACAAAACTATTTAAAGTAAGCAATACAGCTTTTGAAGGAATG
1 AACTTAAAATCAATTATGAGATTACAAAACTATTTAAAGTGAGTAATA-AGCTTTTGAAGGAATG
* * *
406 GGTGACTATAAATGGACTTTTCTTGCCAATGAATGGCTTTTTCTTCACGTGTCTCAAGGCA-AGC
65 GGTGACTATAAATGGACTTTTCTTGCCAATGAATGGCTTTTTCTTCACTTTTCTCGAGGCAGA-C
* *
470 ATGCAATTATAATCTGTTTTAGCCAAAAATGTAAAAAAATTC
129 ATTCAATTATAATCTGTTTTAACCAAAAATGTAAAAAAA-TC
512 AACTTAAAATCAATTATGAGATTACAAAACTATTT
1 AACTTAAAATCAATTATGAGATTACAAAACTATTT
547 TGCTTCACGT
Statistics
Matches: 324, Mismatches: 44, Indels: 15
0.85 0.11 0.04
Matches are distributed among these distances:
169 25 0.08
170 236 0.73
171 63 0.19
ACGTcount: A:0.39, C:0.13, G:0.14, T:0.34
Consensus pattern (169 bp):
AACTTAAAATCAATTATGAGATTACAAAACTATTTAAAGTGAGTAATAAGCTTTTGAAGGAATGG
GTGACTATAAATGGACTTTTCTTGCCAATGAATGGCTTTTTCTTCACTTTTCTCGAGGCAGACAT
TCAATTATAATCTGTTTTAACCAAAAATGTAAAAAAATC
Found at i:942 original size:171 final size:169
Alignment explanation
Indices: 758--2785 Score: 1307
Period size: 171 Copynumber: 12.0 Consensus size: 169
748 TTTTAATAAG
* * ** *
758 AAATGTAAAAAAATTCAACCTAAAATCAATTTTGAGATTGTAAAACCATTTAAAGCGCA-TAATA
1 AAATGT-AAAAAATTCAACTTAAAATCAATTATGAGATTACAAAACCATTTAAAGTG-AGTAATA
* * *
822 AGGCTTTTGAAGGCATGGGTGACTATAAATAGACATTTCTTGTCAATGAATAACTTTTTCTTTAC
64 AGGCTTTTGAAGGAATGGGTGACTATAAATAGACTTTTCTTGTCAATGAATGACTTTTTCTTTAC
* * * *
887 ATTTTTTGAGGCAGACATTCAATTAGAATATGTTGTAACCAA
129 ATTTTCTAAGGCAGACATTCAATTATAATCTGTT-TAACCAA
* * * * ** * * * *
929 AAATACTAAAAAATTCAACTCAAAATCAATGATGAGAATACAAATTCAATTAAAATGAGCAATGA
1 AAAT-GTAAAAAATTCAACTTAAAATCAATTATGAGATTACAAAACCATTTAAAGTGAGTAATAA
* * * * * * *
994 GGCTTTTGAAGAAATGGGTGACTAGAAATTGACTTTTCTTGCCAATGAATGCCTTTTTCTTCACG
65 GGCTTTTGAAGGAATGGGTGACTATAAATAGACTTTTCTTGTCAATGAATGACTTTTTCTTTACA
* *
1059 TTTCCTGA-GCAGACATTCAATTATAATCTGTTTAACC-A
130 TTTTCTAAGGCAGACATTCAATTATAATCTGTTTAACCAA
* * * * * * *
1097 AAATGTAAAAAAACTCAATTTAAAATCAATTATTATATTACAAAACTATTTAATGTGATTAATAA
1 AAATGT-AAAAAATTCAACTTAAAATCAATTATGAGATTACAAAACCATTTAAAGTGAGTAATAA
* * * *
1162 GGCTTCT-AAGAGGATGGGTGACTATAAATGGACTTTTCTTG-CTAATGAATGCCTTTTT-TTTA
65 GGCTTTTGAAG-GAATGGGTGACTATAAATAGACTTTTCTTGTC-AATGAATGACTTTTTCTTTA
* * * *
1224 CATTTTTTGAGGCAGACAATCAATTATAATCTGTTTTAATCAA
128 CATTTTCTAAGGCAGACATTCAATTATAATCTG-TTTAACCAA
* * * * * *
1267 AAATATAAATAAATTTAACTTAAAATCAATTATGAGTTTATAAAATCATTTAAAGCGAGTAATAA
1 AAATGTAAA-AAATTCAACTTAAAATCAATTATGAGATTACAAAACCATTTAAAGTGAGTAATAA
** * * * * * * * * *
1332 GGCTTTTTGAAGGCTTGCGCGACTATAAGTGGACTTTT-TAT-ACTAATGGATTACTTTTGCTTA
65 GGC-TTTTGAAGGAATGGGTGACTATAAATAGACTTTTCT-TGTC-AATGAATGACTTTTTCTTT
* * ** * * * *
1395 ATATTTTCCAAGATAAACATTCAATTATAAAATAT-TTTAATCAG
127 ACATTTTCTAAGGCAGACATTCAATTAT--AATCTGTTTAACCAA
* * *
1439 AAATGTAAACAATTCAACTTAAAATCAATTTTGAGATTACAAAATCATTTAAAGTGAGTAATAAG
1 AAATGTAAAAAATTCAACTTAAAATCAATTATGAGATTACAAAACCATTTAAAGTGAGTAATAAG
* * * * * *
1504 GCTTTTGAAGGAATTGGTGACTATAAATAAACTTTTCATGCCAATGAATGGCTTTTT-ATT-CAT
66 GCTTTTGAAGGAATGGGTGACTATAAATAGACTTTTCTTGTCAATGAATGACTTTTTCTTTACAT
* * * **
1567 GTTTCACAAGGAAAACATTCAATTATAATCTGTTTACATGAA
131 -TTTC-TAAGGCAGACATTCAATTATAATCTGTTTA-ACCAA
* * * * *
1609 GAATGCAAAAAAAATCAACTTAAAATCAATTATGAGATTACAACACGATTTAAAGTGAGTAATAA
1 AAATG-TAAAAAATTCAACTTAAAATCAATTATGAGATTACAAAACCATTTAAAGTGAGTAATAA
* * * * ** * *
1674 GGCTATTGAAGGAATGGATGACTATAAGT-GAAATTTTCTCATCAATGAATGACTTTTTTTTTTT
65 GGCTTTTGAAGGAATGGGTGACTATAAATAG-ACTTTTCTTGTCAATGAATGAC-TTTTTCTTTA
* * * * * *
1738 TATGTTTCCTAAGGAAGATAGTCAATTATAATCTGTTTTATCTAA
128 CAT-TTT-CTAAGGCAGACATTCAATTATAATCTG-TTTAACCAA
* * * **
1783 AAATGTTAAAAAGTTCAGCCTAAAATCAATTATGAGATTGTAAAACCATTTAAAGTGAGTAATAA
1 AAATG-TAAAAAATTCAACTTAAAATCAATTATGAGATTACAAAACCATTTAAAGTGAGTAATAA
* * * * * * *
1848 GGCTTTCGAAAGCATGGGTGACTATAAATAGACTTTTTTTTATCAATGAAT-AGCTTTGTCTTCA
65 GGCTTTTGAAGGAATGGGTGACTATAAATAGAC-TTTTCTTGTCAATGAATGA-CTTTTTCTTTA
* * * * * * *
1912 CGTTTCCCATGGTAGACATTCAATTATAAT-TATTTTAACCCA
128 CATTTTCTAAGGCAGACATTCAATTATAATCT-GTTTAACCAA
* *
1954 AAATGTAAAAAAATTTAACTTAAAATCAATTATGAGATTACAAAACCATTTAAAGCGTA-TAATA
1 AAATGT-AAAAAATTCAACTTAAAATCAATTATGAGATTACAAAACCATTTAAAGTG-AGTAATA
* ** ** * ** * * * * * * * **
2018 AGGCTTTCGAAGGTTTGACTAACTGCAAATGGACTTTTCATATCGATGGATTG-CATTTGCTCCA
64 AGGCTTTTGAAGGAATGGGTGACTATAAATAGACTTTTCTTGTCAAT-GAATGACTTTTTCTTTA
* ** * * * **
2082 CGTTTTCTAAGGTGGACATGCAATTATAATATATTTTAATGACA
128 CATTTTCTAAGGCAGACATTCAATTATAATCT-GTTTAACCA-A
* * * **
2126 AAA-GTAAAAAAAATTCAACTTAACATCAATTATGAGATTATAAAACTATTTAAAGCAAGTAATA
1 AAATGT--AAAAAATTCAACTTAAAATCAATTATGAGATTACAAAACCATTTAAAGTGAGTAATA
** * * * * * * * *
2190 AGG-TTTTCGAAGGCTTAGATGACTATAAATGGGCTTTTCTTCTCATTGAATGGCTTTCTC-TT-
64 AGGCTTTT-GAAGGAATGGGTGACTATAAATAGACTTTTCTTGTCAATGAATGACTTTTTCTTTA
** * * **
2252 CATATTTCTTAAGGTGGACAATCAATTATATTCTGTTTTAATTAA
128 CAT-TTTC-TAAGGCAGACATTCAATTATAATCTG-TTTAACCAA
* ** * * * * * **
2297 AAATGTATAAATATTTGACCTAAAATCATTTATGAAATTA-TAAACCATATAAAGCAAGTAATAA
1 AAATGTA-AAAAATTCAACTTAAAATCAATTATGAGATTACAAAACCATTTAAAGTGAGTAATAA
* * * * *
2361 AGCTTTCGAAGGCATGGGTGACTATAAATGGACTTTTCTTGTCAATGAATGGCTTTTTC-TT-CA
65 GGCTTTTGAAGGAATGGGTGACTATAAATAGACTTTTCTTGTCAATGAATGACTTTTTCTTTACA
* * **
2424 TATT-T----------TTCGA-GGTAATCTGTTTTAACCAA
130 TTTTCTAAGGCAGACATTCAATTATAATCTG-TTTAACCAA
* * * * * * * * *
2453 ATATGTATGATAATTCAACCTAAAATCAATTATGATATTATAAAACCATTTTAAGTGACTAGTAA
1 AAATGTA-AAAAATTCAACTTAAAATCAATTATGAGATTACAAAACCATTTAAAGTGAGTAATAA
* *
2518 GGCTTTTGAAGGAATAGGTGACTATAAATGGACTTTTCTTG-CTAATGAAT-AGCTTTTT-TTT-
65 GGCTTTTGAAGGAATGGGTGACTATAAATAGACTTTTCTTGTC-AATGAATGA-CTTTTTCTTTA
* * *
2579 CATGTTTCCCAAGGTA-ACCATACAATTATAATCCT-TTTAACCAA
128 CAT-TTT-CTAAGGCAGA-CATTCAATTATAAT-CTGTTTAACCAA
* * * * * * * *
2623 TATTGTAAAGACATTCAACTTAAAATCAATTATAAGGTTATAAAACTATTGAAAGTGAGT-ATAA
1 AAATGTAAA-AAATTCAACTTAAAATCAATTATGAGATTACAAAACCATTTAAAGTGAGTAATAA
** * * ** *
2687 GGCTTTTGAAGGCTTGAGTGACTATAAAT-GAGCTTTTCTTGTCAATAAATGGGTTTTTCTTCAC
65 GGCTTTTGAAGGAATGGGTGACTATAAATAGA-CTTTTCTTGTCAATGAATGACTTTTTCTTTAC
* * * *
2751 GTTTTTTAAGGTAAACATTCAATTATAATCTGTTT
129 ATTTTCTAAGGCAGACATTCAATTATAATCTGTTT
2786 TAATA
Statistics
Matches: 1454, Mismatches: 327, Indels: 154
0.75 0.17 0.08
Matches are distributed among these distances:
156 47 0.03
157 75 0.05
158 2 0.00
167 16 0.01
168 125 0.09
169 96 0.07
170 320 0.22
171 439 0.30
172 188 0.13
173 4 0.00
174 120 0.08
175 22 0.02
ACGTcount: A:0.38, C:0.12, G:0.14, T:0.36
Consensus pattern (169 bp):
AAATGTAAAAAATTCAACTTAAAATCAATTATGAGATTACAAAACCATTTAAAGTGAGTAATAAG
GCTTTTGAAGGAATGGGTGACTATAAATAGACTTTTCTTGTCAATGAATGACTTTTTCTTTACAT
TTTCTAAGGCAGACATTCAATTATAATCTGTTTAACCAA
Found at i:1849 original size:516 final size:508
Alignment explanation
Indices: 747--2789 Score: 1432
Period size: 516 Copynumber: 4.0 Consensus size: 508
737 ATTGTATTCC
* *
747 GTTTTAAT-AAGAAATGTAAAAAAATTCAACCTAAAATCAATTTTGAGATTGTAAAACCATTTAA
1 GTTTTAATCAA-AAATGTTAAAAAATTCAACCTAAAATCAATTATGAGATTGTAAAACCATTTAA
* *
811 AGCGCA-TAATAAGGCTTTTGAAGGCATGGGTGACTATAAATAGACATTTCTTGT-C-AATGAAT
65 AGCG-AGTAATAAGGCTTTTGAAGGCATGGGTGACTATAAATAGACATTT-TTATACTAATGGAT
* * * *** * * * * * *
873 AACTTTTTCTTTACATTTTTTGAGGCAGACATTCAATTAGAATATGTTGTAACCAAAAATACTAA
128 TACTTTTGCTTAACATTTTCCAAGGTAGACATTCAATTATAAAATATTTTAACC-AAAAT-GTAA
* * * * * * * *
938 AAAATTCAACTCAAAATCAATGATGAGAATACAAATTCAATTAAAATGAGCAATGAGGCTTTTGA
191 AAAATTCAACTTAAAATCAATTATGAGATTACAAAATCATTTAAAGTGAGTAATAAGGCTTTTGA
* ** * * *
1003 AGAAATGGGTGACTAGAAATTGACTTTTCTTGCCAATGAATGCCTTTTTCTTCACGTTTCCTGAG
256 AGGAATGGGTGACTAGAAATAAACTTTTCATGCCAATGAATGCCTTTTTATTCACGTTTCCAGAG
* * * * * * *
1068 CAGACATTCAATTATAATCTGTTTAACCAAAATGTAAAAAAACTCAATTTAAAATCAATTATTAT
321 AAAACATTCAATTATAATCTGTTTAACCAAAATGCAAAAAAAATCAACTTAAAATCAATTATGAG
* * * * * * *
1133 ATTACAAAACTATTTAATGTGATTAATAAGGCTTCTAAGAGGATGGGTGACTATAAATGGACTTT
386 ATTACAAAACGATTTAAAGTGAGTAATAAGGCTTCTAAGAGAATGGATGACTATAAATGAAATTT
* * *
1198 TCTTGCTAATGAATGCCTTTTTTTTACATTTTTTGAGGCAGACAATCAATTATAATCT
451 TCTTGCTAATGAATGCCTTTTTTTTACATTTTCTAAGGAAGACAATCAATTATAATCT
* * * * * *
1256 GTTTTAATCAAAAAT-ATAAATAAATTTAACTTAAAATCAATTATGAGTTTATAAAATCATTTAA
1 GTTTTAATCAAAAATGTTAAA-AAATTCAACCTAAAATCAATTATGAGATTGTAAAACCATTTAA
* * * * *
1320 AGCGAGTAATAAGGCTTTTTGAAGGCTTGCGCGACTATAAGTGGAC-TTTTTATACTAATGGATT
65 AGCGAGTAATAAGGC-TTTTGAAGGCATGGGTGACTATAAATAGACATTTTTATACTAATGGATT
* * * * *
1384 ACTTTTGCTTAATATTTTCCAAGATAAACATTCAATTATAAAATATTTTAATCAGAAATGTAAAC
129 ACTTTTGCTTAACATTTTCCAAGGTAGACATTCAATTATAAAATATTTTAACCA-AAATGTAAAA
*
1449 AATTCAACTTAAAATCAATTTTGAGATTACAAAATCATTTAAAGTGAGTAATAAGGCTTTTGAAG
193 AATTCAACTTAAAATCAATTATGAGATTACAAAATCATTTAAAGTGAGTAATAAGGCTTTTGAAG
* * * *
1514 GAATTGGTGACTATAAATAAACTTTTCATGCCAATGAATGGCTTTTTATTCATGTTTCACA-AGG
258 GAATGGGTGACTAGAAATAAACTTTTCATGCCAATGAATGCCTTTTTATTCACGTTTC-CAGA-G
**
1578 AAAACATTCAATTATAATCTGTTTACATGAAGAATGCAAAAAAAATCAACTTAAAATCAATTATG
321 AAAACATTCAATTATAATCTGTTTA-ACCAA-AATGCAAAAAAAATCAACTTAAAATCAATTATG
* *
1643 AGATTACAACACGATTTAAAGTGAGTAATAAGGCTAT-TGAAG-GAATGGATGACTATAAGTGAA
384 AGATTACAAAACGATTTAAAGTGAGTAATAAGGCT-TCT-AAGAGAATGGATGACTATAAATGAA
* ** * *
1706 ATTTTC-T-CATCAATGAATGACTTTTTTTTTTTTATGTTTCCTAAGGAAGATAGTCAATTATAA
447 ATTTTCTTGC-T-AATGAATG-C-CTTTTTTTTACAT-TTT-CTAAGGAAGACAATCAATTATAA
1769 TCT
506 TCT
* *
1772 GTTTT-ATCTAAAAATGTTAAAAAGTTCAGCCTAAAATCAATTATGAGATTGTAAAACCATTTAA
1 GTTTTAATC-AAAAATGTTAAAAAATTCAACCTAAAATCAATTATGAGATTGTAAAACCATTTAA
* * * * * *
1836 AGTGAGTAATAAGGCTTTCGAAAGCATGGGTGACTATAAATAGACTTTTTTTTA-TCAAT-GAAT
65 AGCGAGTAATAAGGCTTTTGAAGGCATGGGTGACTATAAATAGACATTTTTATACT-AATGGATT
* * * * *
1899 AGC-TTTGTCTTCACGTTTCCCATGGTAGACATTCAATTAT-AATTATTTTAACCCAAAATGTAA
129 A-CTTTTG-CTTAACATTTTCCAAGGTAGACATTCAATTATAAAATATTTTAA-CCAAAATGT-A
* * * *
1962 AAAAATTTAACTTAAAATCAATTATGAGATTACAAAACCATTTAAAGCGTA-TAATAAGGCTTTC
190 AAAAATTCAACTTAAAATCAATTATGAGATTACAAAATCATTTAAAGTG-AGTAATAAGGCTTTT
** ** * ** ** * * * ** *
2026 GAAGGTTTGACTAACT-GCAAATGGACTTTTCATATCGATGGATTG-CATTTGCTCCACGTTTTC
254 GAAGGAATGGGTGACTAG-AAATAAACTTTTCATGCCAAT-GAATGCCTTTTTATTCACG-TTTC
* *** * * * * * *
2089 TA-AGGTGGACATGCAATTATAATATATTTTAATGACAAAA-GTAAAAAAAATTCAACTTAACAT
316 CAGA-GAAAACATTCAATTATAATCT-GTTTAA--CCAAAATGCAAAAAAAA-TCAACTTAAAAT
* * ** * * ** *
2152 CAATTATGAGATTATAAAACTATTTAAAGCAAGTAATAAGGTTTTCGAAG-GCTTAGATGACTAT
376 CAATTATGAGATTACAAAACGATTTAAAGTGAGTAATAAGG-CTTCTAAGAGAATGGATGACTAT
*** * * * * **
2216 AAATGGGCTTTTCTT-CTCATTGAATGGCTTTCTCTT-CATATTTCTTAAGGTGGACAATCAATT
440 AAATGAAATTTTCTTGCT-AATGAATGCCTTTTTTTTACAT-TTTC-TAAGGAAGACAATCAATT
*
2279 ATATTCT
502 ATAATCT
* * ** * * * *
2286 GTTTTAATTAAAAATG-TATAAATATTTGACCTAAAATCATTTATGAAATTAT-AAACCATATAA
1 GTTTTAATCAAAAATGTTA-AAAAATTCAACCTAAAATCAATTATGAGATTGTAAAACCATTTAA
* * * * * * * *
2349 AGCAAGTAATAAAGCTTTCGAAGGCATGGGTGACTATAAATGGACTTTTCTTGT-C-AATGAATG
65 AGCGAGTAATAAGGCTTTTGAAGGCATGGGTGACTATAAATAGACATTT-TTATACTAATGGATT
* * * * * * * *
2412 GCTTTTTCTTCATATTTTTCGAGGT--A-A-TC----------TGTTTTAACCAAATATGTATGA
129 ACTTTTGCTTAACATTTTCCAAGGTAGACATTCAATTATAAAATATTTTAACCAAA-ATGTA-AA
* * * * * * * *
2463 TAATTCAACCTAAAATCAATTATGATATTATAAAACCATTTTAAGTGACTAGTAAGGCTTTTGAA
192 AAATTCAACTTAAAATCAATTATGAGATTACAAAATCATTTAAAGTGAGTAATAAGGCTTTTGAA
* * ** * * * *
2528 GGAATAGGTGACTATAAATGGACTTTTCTTGCTAATGAATAG-CTTTTTTTTCATGTTTCCCA-A
257 GGAATGGGTGACTAGAAATAAACTTTTCATGCCAATGAAT-GCCTTTTTATTCACGTTT-CCAGA
* * * * * * * *
2591 GGTAACCATACAATTATAATCCT-TTTAACCAATATTGTAAAGACATTCAACTTAAAATCAATTA
320 -GAAAACATTCAATTATAAT-CTGTTTAACCAA-AATGCAAAAAAAATCAACTTAAAATCAATTA
* * * * * * * *
2655 TAAGGTTATAAAACTATTGAAAGTGAGT-ATAAGGCTTTTGAAG-G-CTTGAGTGACTATAAATG
382 TGAGATTACAAAACGATTTAAAGTGAGTAATAAGGCTTCT-AAGAGAATGGA-TGACTATAAATG
** * ** * * * *
2717 AGCTTTTCTTG-TCAATAAATGGGTTTTTCTTCACGTTTTTTAAGGTAA-ACATTCAATTATAAT
445 AAATTTTCTTGCT-AATGAATGCCTTTTT-TTTACATTTTCTAAGG-AAGACAATCAATTATAAT
2780 CT
507 CT
2782 GTTTTAAT
1 GTTTTAAT
2790 A
Statistics
Matches: 1218, Mismatches: 256, Indels: 133
0.76 0.16 0.08
Matches are distributed among these distances:
495 5 0.00
496 75 0.06
497 45 0.04
498 27 0.02
499 117 0.10
500 1 0.00
508 9 0.01
509 178 0.15
510 103 0.08
511 5 0.00
512 106 0.09
513 66 0.05
514 75 0.06
515 62 0.05
516 240 0.20
517 99 0.08
518 5 0.00
ACGTcount: A:0.38, C:0.12, G:0.14, T:0.36
Consensus pattern (508 bp):
GTTTTAATCAAAAATGTTAAAAAATTCAACCTAAAATCAATTATGAGATTGTAAAACCATTTAAA
GCGAGTAATAAGGCTTTTGAAGGCATGGGTGACTATAAATAGACATTTTTATACTAATGGATTAC
TTTTGCTTAACATTTTCCAAGGTAGACATTCAATTATAAAATATTTTAACCAAAATGTAAAAAAT
TCAACTTAAAATCAATTATGAGATTACAAAATCATTTAAAGTGAGTAATAAGGCTTTTGAAGGAA
TGGGTGACTAGAAATAAACTTTTCATGCCAATGAATGCCTTTTTATTCACGTTTCCAGAGAAAAC
ATTCAATTATAATCTGTTTAACCAAAATGCAAAAAAAATCAACTTAAAATCAATTATGAGATTAC
AAAACGATTTAAAGTGAGTAATAAGGCTTCTAAGAGAATGGATGACTATAAATGAAATTTTCTTG
CTAATGAATGCCTTTTTTTTACATTTTCTAAGGAAGACAATCAATTATAATCT
Found at i:2594 original size:157 final size:156
Alignment explanation
Indices: 2314--2595 Score: 377
Period size: 157 Copynumber: 1.8 Consensus size: 156
2304 TAAATATTTG
* * * *
2314 ACCTAAAATCATTTATGAAATTATAAACCATATAAAGCAAGTAATAAAGCTTTCGAAGGCATGGG
1 ACCTAAAATCAATTATGAAATTATAAACCATATAAAGCAACTAATAAAGCTTTCGAAGGAATAGG
* ** *
2379 TGACTATAAATGGACTTTTCTTGTCAATGAATGGCTTTTTCTTCATATTTTTCGAGGTAATCTGT
66 TGACTATAAATGGACTTTTCTTGTCAATGAATAGCTTTTTCTTCATATTTCCCAAGGTAATCTGT
2444 TTTAACCAAATATGTATGATAATTCA
131 TTTAACCAAATATGTATGATAATTCA
* * * ** * * *
2470 ACCTAAAATCAATTATGATATTATAAAACCATTTTAAGTGACTAGTAAGGCTTTTGAAGGAATAG
1 ACCTAAAATCAATTATGAAATTAT-AAACCATATAAAGCAACTAATAAAGCTTTCGAAGGAATAG
* *
2535 GTGACTATAAATGGACTTTTCTTG-CTAATGAATAGCTTTTTTTTCATGTTTCCCAAGGTAA
65 GTGACTATAAATGGACTTTTCTTGTC-AATGAATAGCTTTTTCTTCATATTTCCCAAGGTAA
2596 CCATACAATT
Statistics
Matches: 106, Mismatches: 18, Indels: 3
0.83 0.14 0.02
Matches are distributed among these distances:
156 23 0.22
157 83 0.78
ACGTcount: A:0.35, C:0.13, G:0.15, T:0.37
Consensus pattern (156 bp):
ACCTAAAATCAATTATGAAATTATAAACCATATAAAGCAACTAATAAAGCTTTCGAAGGAATAGG
TGACTATAAATGGACTTTTCTTGTCAATGAATAGCTTTTTCTTCATATTTCCCAAGGTAATCTGT
TTTAACCAAATATGTATGATAATTCA
Found at i:2764 original size:169 final size:170
Alignment explanation
Indices: 2465--2780 Score: 397
Period size: 169 Copynumber: 1.9 Consensus size: 170
2455 ATGTATGATA
* * **
2465 ATTCAACCTAAAATCAATTATGATATTATAAAACCATTTTAAGTGACTAGTAAGGCTTTTGAAGG
1 ATTCAACCTAAAATCAATTATAAGATTATAAAACCATTGAAAGTGACTAGTAAGGCTTTTGAAGG
* * *
2530 AATAGGTGACTATAAATGGACTTTTCTTGCTAATGAATAGCTTTTTTTTCATGTTTCCCAAGGTA
66 AATAGGTGACTATAAATGGACTTTTCTTGCTAATAAATAGCTTTTTCTTCACGTTTCCCAAGGTA
*
2595 ACCATACAATTATAATCCTTTTAACCAATATTGTAAAGAC
131 AACATACAATTATAATCCTTTTAACCAATATTGTAAAGAC
* * * *
2635 ATTCAACTTAAAATCAATTATAAGGTTATAAAACTATTGAAAGTGAGTA-TAAGGCTTTTGAAGG
1 ATTCAACCTAAAATCAATTATAAGATTATAAAACCATTGAAAGTGACTAGTAAGGCTTTTGAAGG
* * * * ***
2699 -CTTGAGTGACTATAAAT-GAGCTTTTCTTG-TCAATAAATGGGTTTTTCTTCACGTTTTTTAAG
66 AATAG-GTGACTATAAATGGA-CTTTTCTTGCT-AATAAATAGCTTTTTCTTCACGTTTCCCAAG
*
2761 GTAAACATTCAATTATAATC
128 GTAAACATACAATTATAATC
2781 TGTTTTAATA
Statistics
Matches: 123, Mismatches: 20, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
168 5 0.04
169 77 0.63
170 41 0.33
ACGTcount: A:0.35, C:0.13, G:0.14, T:0.37
Consensus pattern (170 bp):
ATTCAACCTAAAATCAATTATAAGATTATAAAACCATTGAAAGTGACTAGTAAGGCTTTTGAAGG
AATAGGTGACTATAAATGGACTTTTCTTGCTAATAAATAGCTTTTTCTTCACGTTTCCCAAGGTA
AACATACAATTATAATCCTTTTAACCAATATTGTAAAGAC
Done.