Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_018403135.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_801.0, 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: 3997
ACGTcount: A:0.33, C:0.11, G:0.12, T:0.30
Warning! 577 characters in sequence are not A, C, G, or T
Found at i:357 original size:171 final size:169
Alignment explanation
Indices: 1--426 Score: 507
Period size: 171 Copynumber: 2.5 Consensus size: 169
* * * *
1 TAAATGGACATTTCTTGCCAATGAATATCTTTTTCTTCATATTTCTCGAGATAGATATTCAATTA
1 TAAATGGACTTTTCTTGCCAATGAATATCTTTTTCTTCATGTTTCT-GAGGTAGACATTCAATTA
*
66 TAATCTGTTTTAACAAAAAATAAAAAAAACTCAACTTAAAATCAAGTATGAGATTATAAAACTAT
65 TAATCTGTTTTAACAAAAAATAAAAAAAACTCAACTTAAAATCAAGTATGAGATTATAAAACCAT
* * * *
131 TTAAAGCGAGTAATATGGGTTTCGAAAGTTTGGACAACTA
130 TTAAAGCGAATAATAAGGCTTTCGAAAGTTAGGACAACTA
** * *
171 TAAATGGGTTTTTCTTGCCAATGAATAGCTTTTTCTTCATGTTTCTGGAGGTAGACATACAATTA
1 TAAATGGACTTTTCTTGCCAATGAATATCTTTTTCTTCATGTTTCT-GAGGTAGACATTCAATTA
* * * * *
236 TAGA-CTGTTTTAACCAAAAATGAAAAAAAATTCAACTTAAAGTTAATTATG-GCATTATAAAAC
65 TA-ATCTGTTTTAACAAAAAAT-AAAAAAAACTCAACTTAAAATCAAGTATGAG-ATTATAAAAC
* * ** *
299 CATTTAAAGCGAATAATAAGGCTTTTGAAGGTATAGG-TGAGTA
127 CATTTAAAGCGAATAATAAGGCTTTCGAAAGT-TAGGACAACTA
** * *
342 TAAATGGACTTTTCTTGAAAATGAATATCTTTTTCTTCATGTTTCCTAAGGTAAACATTCAATTA
1 TAAATGGACTTTTCTTGCCAATGAATATCTTTTTCTTCATGTTT-CTGAGGTAGACATTCAATTA
* *
407 TAATCTATTTTAATAAAAAA
65 TAATCTGTTTTAACAAAAAA
427 NNNNNNNNNN
Statistics
Matches: 215, Mismatches: 35, Indels: 11
0.82 0.13 0.04
Matches are distributed among these distances:
170 76 0.35
171 134 0.62
172 5 0.02
ACGTcount: A:0.39, C:0.12, G:0.13, T:0.36
Consensus pattern (169 bp):
TAAATGGACTTTTCTTGCCAATGAATATCTTTTTCTTCATGTTTCTGAGGTAGACATTCAATTAT
AATCTGTTTTAACAAAAAATAAAAAAAACTCAACTTAAAATCAAGTATGAGATTATAAAACCATT
TAAAGCGAATAATAAGGCTTTCGAAAGTTAGGACAACTA
Found at i:1417 original size:171 final size:171
Alignment explanation
Indices: 994--2438 Score: 1304
Period size: 171 Copynumber: 8.4 Consensus size: 171
984 NNNNNNNNNN
* * * ** *
994 CTTAAAGTCAATTATGAGATTATAAAACCATTCAAAGAGAGTAATAAGGCTTTCGATGGCATGGG
1 CTTAAAGTCAATTATGAGATTATAAAACTATTTAAAGCGAGTAATAAGGCTTTCGAAAGCATAGG
* * ** * * **
1059 TGACTATAAATGGGCTTTTCTTGCCAATGAATGGCTTTCTATTCATGTTTCTCAAGGTAGACATT
66 TGACTATAAATGGACTTTTCTTACCAATGAATATCTTTTTCTTCATGTTTCTTGAGGTAGACATT
********** * **
1124 CAATNNNNNNNNNNTTTGACCAAAAATGAAAAAAAAAATT-AA
131 CAATTATAATCTGTTTTAATAAAAAATG--AAAAAAAATTCAA
* * * * *
1166 CTCAAAGTCAATTATGAGATTATAAAACTATTTAAAGCGAGTAATAAGTCTTTGGAAGGTATAGG
1 CTTAAAGTCAATTATGAGATTATAAAACTATTTAAAGCGAGTAATAAGGCTTTCGAAAGCATAGG
* * * * * * * *
1231 TGGCTATAGATGGACTTTTCTTGCCAATAAATATCTTGTGCTTCACGTTTCTTGAGGTAGACAAT
66 TGACTATAAATGGACTTTTCTTACCAATGAATATCTTTTTCTTCATGTTTCTTGAGGTAGACATT
* * * *
1296 CAATGATAATCTATTTTAATAAAAAATGTAAATAAATTCAA
131 CAATTATAATCTGTTTTAATAAAAAATGAAAAAAAATTCAA
* * * ** *
1337 CTTCAAA-TCAACTATGAGATTATTAAACTATTTAAAGCGAGTAATAAAGCTTTCGAAAATATAA
1 CTT-AAAGTCAATTATGAGATTATAAAACTATTTAAAGCGAGTAATAAGGCTTTCGAAAGCATAG
* * ** * *
1401 GTGACTGTAAATGGACTTTTATTGTCAATGAATACCTTTTTCTTCACGTTTCTTGAGGTAGACAT
65 GTGACTATAAATGGACTTTTCTTACCAATGAATATCTTTTTCTTCATGTTTCTTGAGGTAGACAT
* * *
1466 TTAATTAAAATCTGTTTTAATAAAAAAT-AAAAAACATTCAA
130 TCAATTATAATCTGTTTTAATAAAAAATGAAAAAAAATTCAA
*
1507 CTTAAAGTCAATTATGAGATTATAAAACTATTTAAAGCGAGTAATAAGGCTTTCGAAGGCAT-GG
1 CTTAAAGTCAATTATGAGATTATAAAACTATTTAAAGCGAGTAATAAGGCTTTCGAAAGCATAGG
* * * ** * ** *
1571 ATGACTATAAATGGATTTTTTTTACCGACAAATAGT-TTTTTCTTCATGCTTCTCAACGTAGACA
66 -TGACTATAAATGGACTTTTCTTACCAATGAATA-TCTTTTTCTTCATGTTTCTTGAGGTAGACA
* *
1635 TTAAATTATAATCTATTTTAATAAAAAATGAAAAAAAAATTCAA
129 TTCAATTATAATCTGTTTTAATAAAAAATG-AAAAAAAATTCAA
* * * * ** ** * *
1679 CTTAACGTCAATTATGATATTGTAAAACCATTTAAAGTAAGTAATAAAACTTTTGAAGGCAT-GA
1 CTTAAAGTCAATTATGAGATTATAAAACTATTTAAAGCGAGTAATAAGGCTTTCGAAAGCATAG-
* * * *
1743 GTGATTATAAATGGGCTTTTC-TCCTCAATGAATATCATTTTT-TTCATGTTTTTTGAGGTAGAC
65 GTGACTATAAATGGACTTTTCTTAC-CAATGAATATC-TTTTTCTTCATGTTTCTTGAGGTAGAC
* ** * **
1806 ATTTACCTATAATCTGCTTTAACCAAAAATGAAAAAAAAATT-AA
128 ATTCAATTATAATCTGTTTTAATAAAAAATG-AAAAAAAATTCAA
* * * * * * *
1850 CTAAAAGTCAATTGTGAGGTTATAAAACCATTGAAAGTGAGTAATAAGGCTTT-TAAAGGCATAG
1 CTTAAAGTCAATTATGAGATTATAAAACTATTTAAAGCGAGTAATAAGGCTTTCGAAA-GCATAG
* * * **
1914 GTGACTATAAGTGAACTTTTCTTACCAATGAATATCTTTTTCTTTATGTTTCTCAAGGTAGACAT
65 GTGACTATAAATGGACTTTTCTTACCAATGAATATCTTTTTCTTCATGTTTCTTGAGGTAGACAT
*
1979 TCAATTATAATCTGTTTTAATAAAATATGAAAAAAAATTCAA
130 TCAATTATAATCTGTTTTAATAAAAAATGAAAAAAAATTCAA
* * * * * *
2021 TTTCAAA-TCAATTATAAGATTAT-AAATTCATTTAAAGCGACTAATAAGGCTTCCGAAAGC-TT
1 CTT-AAAGTCAATTATGAGATTATAAAACT-ATTTAAAGCGAGTAATAAGGCTTTCGAAAGCATA
* * * *
2083 GGACGACTATAAATGTG-CTTTT-TCTACCAATGAATGGT-TTTTTCTTAATGTTTCTTTAGGTA
64 GG-TGACTATAAATG-GACTTTTCT-TACCAATGAAT-ATCTTTTTCTTCATGTTTCTTGAGGTA
* * *
2145 GACATTCAATTATAATCTGTTTTAATCAAATATGTAAAAAAATTCAA
125 GACATTCAATTATAATCTGTTTTAATAAAAAATGAAAAAAAATTCAA
* * * * * * *
2192 CTTAAAGTCAATTATGAGATTATAAAACCATTTAGAGAGAGTAATAAGGCTTTGGAAGGCTTGGG
1 CTTAAAGTCAATTATGAGATTATAAAACTATTTAAAGCGAGTAATAAGGCTTTCGAAAGCATAGG
* ** ** * **
2257 TGACTATAAATGGGCTTTTCTTGTCAATGAATGGCTTTTTCTTCGTGTTTCTCAAGGTAGACATT
66 TGACTATAAATGGACTTTTCTTACCAATGAATATCTTTTTCTTCATGTTTCTTGAGGTAGACATT
* * ** *
2322 CAATTATAGTCTGTTTTGACCAAAAATGAAAAAAAAATCAA
131 CAATTATAATCTGTTTTAATAAAAAATGAAAAAAAATTCAA
* * * * * * *
2363 CGTAAAGAT-AATTATGACATTATAAACCCATTTAAAGCAAGTAATAAGGCTTTTGAAGGCATAG
1 CTTAAAG-TCAATTATGAGATTATAAAACTATTTAAAGCGAGTAATAAGGCTTTCGAAAGCATAG
*
2427 GTGAGTATAAAT
65 GTGACTATAAAT
2439 AGACAATTAC
Statistics
Matches: 1040, Mismatches: 203, Indels: 61
0.80 0.16 0.05
Matches are distributed among these distances:
169 4 0.00
170 173 0.17
171 575 0.55
172 282 0.27
173 6 0.01
ACGTcount: A:0.38, C:0.12, G:0.15, T:0.35
Consensus pattern (171 bp):
CTTAAAGTCAATTATGAGATTATAAAACTATTTAAAGCGAGTAATAAGGCTTTCGAAAGCATAGG
TGACTATAAATGGACTTTTCTTACCAATGAATATCTTTTTCTTCATGTTTCTTGAGGTAGACATT
CAATTATAATCTGTTTTAATAAAAAATGAAAAAAAATTCAA
Found at i:1975 original size:513 final size:510
Alignment explanation
Indices: 994--2438 Score: 1510
Period size: 513 Copynumber: 2.8 Consensus size: 510
984 NNNNNNNNNN
* * * * *
994 CTTAAAGTCAATTATGAGATTATAAAACCATTCAAAGAGAGTAATAAGGCTTTCGATGGCATGGG
1 CTTAAAGTCAATTATGAGATTATAAAACTATTTAAAGCGAGTAATAAGGCTTTCGAAGGCATGGA
* * * * *
1059 TGACTATAAATGGGCTTTTCTTGCCAATGAATGGCTTTCTATTCATGTTTCTCAAGGTAGACATT
66 TGACTATAAAT-GGCTTTTTTTACCAATGAATGGTTTTTTCTTCATGTTTCTCAAGGTAGACATT
********** * * *
1124 CAATNNNNNNNNNNTTTGACCAAAAATGAAAAAAAAAATT-AACTCAAAGTCAATTATGAGATTA
130 CAATTATAATCTATTTTAATCAAAAATG-AAAAAAAAATTCAACTTAAAGTCAATTATGAGATTA
* * * * * * *
1188 TAAAACTATTTAAAGCGAGTAATAAGTCTTTGGAAGGTAT-AGGTGGCTATAGATGGACTTTTCT
194 TAAAACCATTTAAAG-AAGTAATAAGACTTTGGAAGGCATGA-GTGACTATAAATGGGCTTTTC-
* * ** * * * *
1252 TGC-CAATAAATATCTTGTGCTTCACGTTTCTTGAGGTAGACAATCAATGATAATCTATTTTAAT
256 TCCTCAATGAATATCTT-TTTTTCATGTTTCTTGAGGTAGACATTCAAT-ATAATCTGTTTTAAC
* * * * * * *
1316 AAAAAATG-TAAATAAATTCAACTTCAAA-TCAACTATGAGATTATTAAACTATTTAAAGCGAGT
319 CAAAAATGAAAAAAAAATT-AACGT-AAAGTCAATTATGAGATTATAAAACCATTTAAAGCGAGT
* * ** * * * **
1379 AATAAAGCTTTCGAAA-ATATAAGTGACTGTAAATGGACTTTTATTGTCAATGAATACCTTTTTC
382 AATAAGGCTTT-TAAAGGCATAGGTGACTATAAATGAACTTTTATTACCAATGAATACCTTTTTC
** * *
1443 TTCACGTTTCTTGAGGTAGACATTTAATTAAAATCTGTTTTAATAAAAAAT-AAAAAACATTCAA
446 TTCACGTTTCTCAAGGTAGACATTCAATTAAAATCTGTTTTAATAAAAAATGAAAAAAAATTCAA
1507 CTTAAAGTCAATTATGAGATTATAAAACTATTTAAAGCGAGTAATAAGGCTTTCGAAGGCATGGA
1 CTTAAAGTCAATTATGAGATTATAAAACTATTTAAAGCGAGTAATAAGGCTTTCGAAGGCATGGA
* * ** * * *
1572 TGACTATAAATGGATTTTTTTTACCGACAAATAGTTTTTTCTTCATGCTTCTCAACGTAGACATT
66 TGACTATAAATGG-CTTTTTTTACCAATGAATGGTTTTTTCTTCATGTTTCTCAAGGTAGACATT
* * * * *
1637 AAATTATAATCTATTTTAATAAAAAATGAAAAAAAAATTCAACTTAACGTCAATTATGATATTGT
130 CAATTATAATCTATTTTAATCAAAAATGAAAAAAAAATTCAACTTAAAGTCAATTATGAGATTAT
* * *
1702 AAAACCATTTAAAGTAAGTAATAAAACTTTTGAAGGCATGAGTGATTATAAATGGGCTTTTCTCC
195 AAAACCATTTAAAG-AAGTAATAAGACTTTGGAAGGCATGAGTGACTATAAATGGGCTTTTCTCC
* * * *
1767 TCAATGAATATCATTTTTTTCATGTTTTTTGAGGTAGACATTTACCTATAATCTGCTTTAACCAA
259 TCAATGAATATC-TTTTTTTCATGTTTCTTGAGGTAGACATTCA-ATATAATCTGTTTTAACCAA
* * * *
1832 AAATGAAAAAAAAATTAAC-TAAAAGTCAATTGTGAGGTTATAAAACCATTGAAAGTGAGTAATA
322 AAATGAAAAAAAAATTAACGT-AAAGTCAATTATGAGATTATAAAACCATTTAAAGCGAGTAATA
* * * * *
1896 AGGCTTTTAAAGGCATAGGTGACTATAAGTGAACTTTTCTTACCAATGAATATCTTTTTCTTTAT
386 AGGCTTTTAAAGGCATAGGTGACTATAAATGAACTTTTATTACCAATGAATACCTTTTTCTTCAC
* *
1961 GTTTCTCAAGGTAGACATTCAATTATAATCTGTTTTAATAAAATATGAAAAAAAATTCAA
451 GTTTCTCAAGGTAGACATTCAATTAAAATCTGTTTTAATAAAAAATGAAAAAAAATTCAA
* * * * * * *
2021 TTTCAAA-TCAATTATAAGATTAT-AAATTCATTTAAAGCGACTAATAAGGCTTCCGAAAGCTTG
1 CTT-AAAGTCAATTATGAGATTATAAAACT-ATTTAAAGCGAGTAATAAGGCTTTCGAAGGCATG
* * * **
2084 GACGACTATAAATGTGCTTTTTCTACCAATGAATGGTTTTTTCTTAATGTTTCTTTAGGTAGACA
64 GATGACTATAAATG-GCTTTTTTTACCAATGAATGGTTTTTTCTTCATGTTTCTCAAGGTAGACA
* * *
2149 TTCAATTATAATCTGTTTTAATCAAATATG-TAAAAAAATTCAACTTAAAGTCAATTATGAGATT
128 TTCAATTATAATCTATTTTAATCAAAAATGAAAAAAAAATTCAACTTAAAGTCAATTATGAGATT
* * * *
2213 ATAAAACCATTTAGAGAGAGTAATAAGGCTTTGGAAGGCTTGGGTGACTATAAATGGGCTTTTCT
193 ATAAAACCATTTAAAGA-AGTAATAAGACTTTGGAAGGCATGAGTGACTATAAATGGGCTTTTCT
** ** * ** * *
2278 TGTCAATGAATGGCTTTTTCTTCGTGTTTCTCAAGGTAGACATTCAATTATAGTCTGTTTTGACC
257 CCTCAATGAATATCTTTTT-TTCATGTTTCTTGAGGTAGACATTCAA-TATAATCTGTTTTAACC
* * * *
2343 AAAAATGAAAAAAAAATCAACGTAAAGAT-AATTATGACATTATAAACCCATTTAAAGCAAGTAA
320 AAAAATGAAAAAAAAATTAACGTAAAG-TCAATTATGAGATTATAAAACCATTTAAAGCGAGTAA
* *
2407 TAAGGCTTTTGAAGGCATAGGTGAGTATAAAT
384 TAAGGCTTTTAAAGGCATAGGTGACTATAAAT
2439 AGACAATTAC
Statistics
Matches: 767, Mismatches: 147, Indels: 36
0.81 0.15 0.04
Matches are distributed among these distances:
512 28 0.04
513 585 0.76
514 150 0.20
515 4 0.01
ACGTcount: A:0.38, C:0.12, G:0.15, T:0.35
Consensus pattern (510 bp):
CTTAAAGTCAATTATGAGATTATAAAACTATTTAAAGCGAGTAATAAGGCTTTCGAAGGCATGGA
TGACTATAAATGGCTTTTTTTACCAATGAATGGTTTTTTCTTCATGTTTCTCAAGGTAGACATTC
AATTATAATCTATTTTAATCAAAAATGAAAAAAAAATTCAACTTAAAGTCAATTATGAGATTATA
AAACCATTTAAAGAAGTAATAAGACTTTGGAAGGCATGAGTGACTATAAATGGGCTTTTCTCCTC
AATGAATATCTTTTTTTCATGTTTCTTGAGGTAGACATTCAATATAATCTGTTTTAACCAAAAAT
GAAAAAAAAATTAACGTAAAGTCAATTATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCT
TTTAAAGGCATAGGTGACTATAAATGAACTTTTATTACCAATGAATACCTTTTTCTTCACGTTTC
TCAAGGTAGACATTCAATTAAAATCTGTTTTAATAAAAAATGAAAAAAAATTCAA
Found at i:2729 original size:291 final size:291
Alignment explanation
Indices: 2180--2713 Score: 741
Period size: 291 Copynumber: 1.8 Consensus size: 291
2170 TCAAATATGT
* *
2180 AAAAAAATTCAACTTAAAGTCAATTATGAGATTATAAAACCATTTAGAGAGAGTAATAAGGCTTT
1 AAAAAAATTCAACTTAAAGTCAAGTATGAGATTATAAAACCATTTAAAGAGAGTAATAAGGCTTT
* * * * * *** *
2245 GGAAGGCTTGGGTGACTATAAATGGGCTTTTCTTGTCAATGAATGGCTTTTTCTTCGTGTTTCTC
66 CGAAGGCATGGGTGACTACAAATGGACTTTTCTTGTCAATGAATAGCTTTTTCTTCACATTACTC
* * * *
2310 AAGGTAGACATTCAATTATAGTCTGTTTTGACCAAAAATGAAAAAAAAATCAACGTAAAGATAAT
131 AAGGTAGACATTCAATTATAATCTGTTTTAACAAAAAATGAAAAAAAAATCAACGTAAAGATAAC
* *
2375 TATGACATTATAAACCCATTTAAAGCAAGTAATAAGGCTTTTGAAGGCATAGGTGAGTATAAATA
196 TATGACATTATAAAACCATTTAAAGCAAGTAATAAGGCTTTCGAAGGCATAGGTGAGTATAAATA
2440 GACAATTACAATCCATTTTAATAAAAATATA
261 GACAATTACAATCCATTTTAATAAAAATATA
* *
2471 AAAAAAATTCAACTTCAAA-TCAAGTATGAGATTATAAAATCATTTAAAGCGAGTAATAAGGCTT
1 AAAAAAATTCAACTT-AAAGTCAAGTATGAGATTATAAAACCATTTAAAGAGAGTAATAAGGCTT
* * *
2535 TCGAATGCATGGGTGACTACAAATGGACTTTTCTTG-CTAATGAATATCTTTTTCTTCACATTAG
65 TCGAAGGCATGGGTGACTACAAATGGACTTTTCTTGTC-AATGAATAGCTTTTTCTTCACATTAC
* * * * **
2599 TCATGGTAGACATTCAATTATAATCTTTTTTAACAAAAAATGAAAAAAAATTGAATTTAAA-ATC
129 TCAAGGTAGACATTCAATTATAATCTGTTTTAACAAAAAATGAAAAAAAAATCAACGTAAAGAT-
* * *
2663 AACTATGAGATTATAAAACTATTTAAAGCAAGTAATAGGGCTTTCGAAGGC
193 AACTATGACATTATAAAACCATTTAAAGCAAGTAATAAGGCTTTCGAAGGC
2714 TTGGATGATT
Statistics
Matches: 209, Mismatches: 31, Indels: 6
0.85 0.13 0.02
Matches are distributed among these distances:
290 3 0.01
291 203 0.97
292 3 0.01
ACGTcount: A:0.41, C:0.12, G:0.15, T:0.32
Consensus pattern (291 bp):
AAAAAAATTCAACTTAAAGTCAAGTATGAGATTATAAAACCATTTAAAGAGAGTAATAAGGCTTT
CGAAGGCATGGGTGACTACAAATGGACTTTTCTTGTCAATGAATAGCTTTTTCTTCACATTACTC
AAGGTAGACATTCAATTATAATCTGTTTTAACAAAAAATGAAAAAAAAATCAACGTAAAGATAAC
TATGACATTATAAAACCATTTAAAGCAAGTAATAAGGCTTTCGAAGGCATAGGTGAGTATAAATA
GACAATTACAATCCATTTTAATAAAAATATA
Found at i:2759 original size:171 final size:170
Alignment explanation
Indices: 2442--3020 Score: 648
Period size: 171 Copynumber: 3.4 Consensus size: 170
2432 TATAAATAGA
* * * * *
2442 CAATTACAATCCATTTTAATAAAAATAT-AAAAAAAATTCAACTTCAAATCAAGTATGAGATTAT
1 CAATTATAATCTATTTTAACAAAAA-ATGAAAAAAAATTCAACTTAAAATCAATTATGAGATTAT
* * * *
2506 AAAA-TCATTTAAAGCGAGTAATAAGGCTTTCGAATGCATGGGTGACTACAAATGGACTTTTCTT
65 AAAACT-ATTTAAAGCAAGTAATAAGGCTTTCGAAGGCATGGGTGACTATAAATGGGCTTTTCTT
** **
2570 GCTAATGAATATCTTTTTCTTCACATTAGTCATGGTAGACATT
129 GCTAATGAATGGCTTTTTCTTCACATTTCTCA-GGTAGACATT
* * * *
2613 CAATTATAATCTTTTTTAACAAAAAATGAAAAAAAATTGAATTTAAAATCAACTATGAGATTATA
1 CAATTATAATCTATTTTAACAAAAAATGAAAAAAAATTCAACTTAAAATCAATTATGAGATTATA
* * * *
2678 AAACTATTTAAAGCAAGTAATAGGGCTTTCGAAGGCTTGGATGATTATAAATGGGCTTTT-TTAG
66 AAACTATTTAAAGCAAGTAATAAGGCTTTCGAAGGCATGGGTGACTATAAATGGGCTTTTCTT-G
* *
2742 CCAATGAATGGCTTTTTCTTAACATTTCTCGAGGTAGACATT
130 CTAATGAATGGCTTTTTCTTCACATTTCTC-AGGTAGACATT
* * * *
2784 CAATTATAAT-TCATTTTAATC-AAAAATGTAAAAGAATTCAACTTACAGTCAATTATGAGATTA
1 CAATTATAATCT-ATTTTAA-CAAAAAATGAAAAAAAATTCAACTTAAAATCAATTATGAGATTA
* * * *
2847 TAAAACTATTCAAAG-AGACTAATAAGGCTTTCGAAGGCATGGGTGACTATATATGAGCTTTTCT
64 TAAAACTATTTAAAGCA-AGTAATAAGGCTTTCGAAGGCATGGGTGACTATAAATGGGCTTTTCT
* **
2911 TGCTAATGAATGGCTTTCTCTTCATGTTTCTCAAGGTAGACATT
128 TGCTAATGAATGGCTTTTTCTTCACATTTCTC-AGGTAGACATT
** * * * * * * *
2955 CAATTATGGTCTGTTTTGACCAAAAATCAAAAATAATTCAACTTAAAGTTAATTATGAGATTATA
1 CAATTATAATCTATTTTAACAAAAAATGAAAAAAAATTCAACTTAAAATCAATTATGAGATTATA
3020 A
66 A
3021 CATCATTTAA
Statistics
Matches: 345, Mismatches: 53, Indels: 20
0.83 0.13 0.05
Matches are distributed among these distances:
170 7 0.02
171 332 0.96
172 6 0.02
ACGTcount: A:0.39, C:0.13, G:0.14, T:0.35
Consensus pattern (170 bp):
CAATTATAATCTATTTTAACAAAAAATGAAAAAAAATTCAACTTAAAATCAATTATGAGATTATA
AAACTATTTAAAGCAAGTAATAAGGCTTTCGAAGGCATGGGTGACTATAAATGGGCTTTTCTTGC
TAATGAATGGCTTTTTCTTCACATTTCTCAGGTAGACATT
Found at i:2872 original size:462 final size:462
Alignment explanation
Indices: 1993--2897 Score: 1134
Period size: 462 Copynumber: 2.0 Consensus size: 462
1983 TTATAATCTG
* * *
1993 TTTTAATAAAATATGAAAAAAAATTCAATTTCAAATCAATTATAAGATTATAAATTCATTTAAAG
1 TTTTAATAAAATATGAAAAAAAATTCAACTTCAAATCAAGTATAAGATTATAAAATCATTTAAAG
* * *
2058 CGACTAATAAGGCTTCCGAAAGCTTGGACGACTATAAATGTGCTTTTTCTACCAATGAATGGTTT
66 CGACTAATAAGGCTTCCGAAAGCATGGACGACTACAAATGTGCTTTTTCTACCAATGAATGATTT
* * * *
2123 TTTCTTAATGTTTCTTTAGGTAGACATTCAATTATAATCTGTTTTAATCAAATATGTAAAAAAAT
131 TTTCTTAATGTGTCTATAGGTAGACATTCAATTATAATCTGTTTTAATCAAAAATGAAAAAAAAT
* * * *
2188 TCAACTTAAAGTCAATTATGAGATTATAAAACCATTTAGAGAGAGTAATAAGGCTTTGGAAGGCT
196 TCAACTTAAAATCAACTATGAGATTATAAAACCATTTAAAGAGAGTAATAAGGCTTTCGAAGGCT
* * ****
2253 TGGGTGACTATAAATGGGCTTTTCTTGTCAATGAATGGCTTTTTCTTCGTGTTTCTCAAGGTAGA
261 TGGATGACTATAAATGGGCTTTTCTTGCCAATGAATGGCTTTTTCTTAACATTTCTCAAGGTAGA
* *
2318 CATTCAATTATAGTCTGTTTTGACCAAAAATGAAAAAAAAATCAACGTAAAGATAATTATGACAT
326 CATTCAATTATAGTCTATTTTAACCAAAAATGAAAAAAAAATCAACGTAAAGATAATTATGACAT
* * * * *
2383 TATAAACCCATTTAAAGCAAGTAATAAGGCTTTTGAAGGCATAGGTGAGTATAAATAGACAATTA
391 TATAAAACCATTCAAAGCAACTAATAAGGCTTTCGAAGGCATAGGTGACTATAAATAGACAATTA
2448 CAATCCA
456 CAATCCA
*
2455 TTTTAATAAAAATAT-AAAAAAAATTCAACTTCAAATCAAGTATGAGATTATAAAATCATTTAAA
1 TTTTAAT-AAAATATGAAAAAAAATTCAACTTCAAATCAAGTATAAGATTATAAAATCATTTAAA
* * * ** * *
2519 GCGAGTAATAAGGCTTTCGAATGCATGGGTGACTACAAATG-GAC-TTTTCTTGCTAATGAAT-A
65 GCGACTAATAAGGCTTCCGAAAGCATGGACGACTACAAATGTG-CTTTTTC-TACCAATGAATGA
*
2581 TCTTTTTCTTCACAT-TAGTC-AT-GGTAGACATTCAATTATAATCTTTTTTAA-CAAAAAATGA
128 T-TTTTTCTT-A-ATGT-GTCTATAGGTAGACATTCAATTATAATCTGTTTTAATC-AAAAATGA
* * * *
2642 AAAAAAATTGAATTTAAAATCAACTATGAGATTATAAAACTATTTAAAGCA-AGTAATAGGGCTT
188 AAAAAAATTCAACTTAAAATCAACTATGAGATTATAAAACCATTTAAAG-AGAGTAATAAGGCTT
*
2706 TCGAAGGCTTGGATGATTATAAATGGGCTTTT-TTAGCCAATGAATGGCTTTTTCTTAACATTTC
252 TCGAAGGCTTGGATGACTATAAATGGGCTTTTCTT-GCCAATGAATGGCTTTTTCTTAACATTTC
* * * * * * * *
2770 TCGAGGTAGACATTCAATTATAAT-TCATTTTAATCAAAAATGTAAAAGAATTCAACTTACAG-T
316 TCAAGGTAGACATTCAATTATAGTCT-ATTTTAACCAAAAATGAAAAAAAAATCAACGTAAAGAT
* * *
2833 CAATTATGAGATTATAAAACTATTCAAAG-AGACTAATAAGGCTTTCGAAGGCATGGGTGACTAT
380 -AATTATGACATTATAAAACCATTCAAAGCA-ACTAATAAGGCTTTCGAAGGCATAGGTGACTAT
2897 A
443 A
2898 TATGAGCTTT
Statistics
Matches: 378, Mismatches: 52, Indels: 26
0.83 0.11 0.06
Matches are distributed among these distances:
461 13 0.03
462 350 0.93
463 11 0.03
464 4 0.01
ACGTcount: A:0.39, C:0.12, G:0.15, T:0.34
Consensus pattern (462 bp):
TTTTAATAAAATATGAAAAAAAATTCAACTTCAAATCAAGTATAAGATTATAAAATCATTTAAAG
CGACTAATAAGGCTTCCGAAAGCATGGACGACTACAAATGTGCTTTTTCTACCAATGAATGATTT
TTTCTTAATGTGTCTATAGGTAGACATTCAATTATAATCTGTTTTAATCAAAAATGAAAAAAAAT
TCAACTTAAAATCAACTATGAGATTATAAAACCATTTAAAGAGAGTAATAAGGCTTTCGAAGGCT
TGGATGACTATAAATGGGCTTTTCTTGCCAATGAATGGCTTTTTCTTAACATTTCTCAAGGTAGA
CATTCAATTATAGTCTATTTTAACCAAAAATGAAAAAAAAATCAACGTAAAGATAATTATGACAT
TATAAAACCATTCAAAGCAACTAATAAGGCTTTCGAAGGCATAGGTGACTATAAATAGACAATTA
CAATCCA
Found at i:3334 original size:320 final size:313
Alignment explanation
Indices: 2766--3989 Score: 941
Period size: 320 Copynumber: 3.8 Consensus size: 313
2756 TTTCTTAACA
* * * * * * *
2766 TTTCTCGAGGTAGACATTCAATTATAAT-TCATTTTAATCAAAAATGTAAAAGAATTCAACTTAC
1 TTTCTCGAGGTAGACATTTAATTATAATCT-GTTTTAACCAAAAATGAAAAAAAACTCAACTTAA
* * * **
2830 AGTCAATTATGAGATTATAAAACTATTCAAAGAGA-CTAATAAGGCTTTCGAAGGCATGGGTGAC
65 AGTCAATTATGAGATTATAAAACCATTTAAAGAGAGC-AATAAGGCTTTGGAAGGCATTAGTGAC
* * ** *
2894 TATATATGAGCTTTTCTTGCTAATGAATGGCTTTCTCTTCATGTTTCTCAAGGTAGACATTCAAT
129 TATAAATGA-CTTTTCTTGCCAATGAATATCTTTTTCTTCA-GTTTCTCAAGGTAGACATTCAAT
** ** * * *
2959 TATGGTCTGTTTTGACCAAAAAT-CAAAAATAATTCAACTT-AAAGTTAATTATGAGATTATAAC
192 TATAATCTGTTTT-AAAAAAAATGTAAAAA-AATTCATCTTCAAA-TCAA-TATGAGATTATAA-
* * * *
3022 ATCATTTAAAATGAGTAATTATAATGGATGGACTTTTCTTGCCGATGAAT-TTTTTTGTCAAG
252 ACCATTTAAAGTGAGTAATTATAATGGAT-GACTTTTCTTGCCAATGAATATTTTTTGTCATG
* * *
3084 TTTCTCGAGATAGATATTTAATTATAAT-TGATTTTAACCAAAAATGAAAAAAAAAACTCAACCT
1 TTTCTCGAGGTAGACATTTAATTATAATCTG-TTTTAACCAAAAATG--AAAAAAAACTCAACTT
* *
3148 AAAGTCAATTATGAGATTATAAAACCATTTAAAGCGAGCAATAAGTCTTTGGAAGGCATTAGTGA
63 AAAGTCAATTATGAGATTATAAAACCATTTAAAGAGAGCAATAAGGCTTTGGAAGGCATTAGTGA
* * * *
3213 CTATAGATAGATTTTTTTTACCAATGAATATCTTTTTCTTCACGTTT-TCCAAGGTAGACATTCA
128 CTATAAAT-GACTTTTCTTGCCAATGAATATCTTTTTCTTCA-GTTTCT-CAAGGTAGACATTCA
*
3277 ATTATAATCTGTTTTAATAAAAAATGTAAAAAAATTCATCTTCAAATCACCTATGAGATTATTAA
190 ATTATAATCTGTTTTAA-AAAAAATGTAAAAAAATTCATCTTCAAATCA-ATATGAGATTA-TAA
*
3342 ACCATTTAAAGCGAGTAATATGACTTTCGAAGGCATGAGTGACTATAAATAGACTTTTCTTGCCA
252 ACCATTTAAAGTGAGTAAT-T-A---T---A---AT--G-G-------AT-GACTTTTCTTGCCA
***
3407 ATGAATGGCTTTTGCTTCATG
295 ATGAATATTTTTTG--TCATG
* * * * * *
3428 TTTCTCGAGGTAGACATTTAATTATAATCTGTTTTTAGCACAAATGAAAAGACATTCAACTTAAA
1 TTTCTCGAGGTAGACATTTAATTATAATCTGTTTTAACCAAAAATGAAAAAAAACTCAACTTAAA
* * * * *
3493 GTCAATTATGAGATTATAAAATCATTTAAAGTGTGTAATAAGGCTTTGGAAAGCA-TAGGTGACT
66 GTCAATTATGAGATTATAAAACCATTTAAAGAGAGCAATAAGGCTTTGGAAGGCATTA-GTGACT
* * * ** *
3557 ATAAATGAACTTTTCTTGCCAATGAAAATATTTTTCTTCAAATTTCTCGTGGTAGACATTTAATT
130 ATAAATG-ACTTTTCTTGCCAATGAATATCTTTTTCTTC-AGTTTCTCAAGGTAGACATTCAATT
* * * * * *
3622 TTAATCTATTTTAAGAAAAATGTAAAAAAATTAAT-TTCAAATCAATTTCGAGATTATCAAAGCA
193 ATAATCTGTTTTAAAAAAAATGTAAAAAAATTCATCTTCAAATCAATAT-GAGATTAT-AAACCA
* *
3686 TTTAAAGTGAG------TAAT--A-GACTTTTTTTGCCAATGAATATATTTTTCTTCATG
256 TTTAAAGTGAGTAATTATAATGGATGACTTTTCTTGCCAATGAATAT-TTTTT-GTCATG
* *
3737 TTTCTCGAGGTAGACATTTAACTATAATCTGTTTTAACCAAAAATGAAAAAAAA---AACTTACA
1 TTTCTCGAGGTAGACATTTAATTATAATCTGTTTTAACCAAAAATGAAAAAAAACTCAACTTAAA
* * * * * * * *
3799 GTCAATTGT-AGGGTTATAAAACCATTTAAAGTGAGTAATAAGGCTTTTGAAAGC-TTGGGTGGC
66 GTCAATTATGA-GATTATAAAACCATTTAAAGAGAGCAATAAGGCTTTGGAAGGCATT-AGTGAC
** * * * * *
3862 TATAAATCGACTTTTCTTGCCAATGAATGCCTCTTTCTTCATATTTC-CTTAGGCAGACATTTAA
129 TATAAAT-GACTTTTCTTGCCAATGAATATCTTTTTCTTCA-GTTTCTC-AAGGTAGACATTCAA
* * * * **
3926 CTGTAATCTATTTTAAACAAAAATATAAAAAAATTCAAGTT-AAAGTCAATTATGAGATTATAAA
191 TTATAATCTGTTTTAAA-AAAAATGTAAAAAAATTCATCTTCAAA-TCAA-TATGAGATTATAAA
3990 AATATTTA
Statistics
Matches: 743, Mismatches: 109, Indels: 119
0.77 0.11 0.12
Matches are distributed among these distances:
305 3 0.00
306 123 0.17
307 24 0.03
308 14 0.02
309 74 0.10
310 4 0.01
311 1 0.00
318 40 0.05
319 2 0.00
320 173 0.23
321 15 0.02
322 1 0.00
323 2 0.00
325 1 0.00
326 1 0.00
328 1 0.00
329 1 0.00
331 2 0.00
333 1 0.00
334 1 0.00
339 3 0.00
340 31 0.04
341 43 0.06
342 136 0.18
343 2 0.00
344 42 0.06
345 2 0.00
ACGTcount: A:0.37, C:0.13, G:0.14, T:0.36
Consensus pattern (313 bp):
TTTCTCGAGGTAGACATTTAATTATAATCTGTTTTAACCAAAAATGAAAAAAAACTCAACTTAAA
GTCAATTATGAGATTATAAAACCATTTAAAGAGAGCAATAAGGCTTTGGAAGGCATTAGTGACTA
TAAATGACTTTTCTTGCCAATGAATATCTTTTTCTTCAGTTTCTCAAGGTAGACATTCAATTATA
ATCTGTTTTAAAAAAAATGTAAAAAAATTCATCTTCAAATCAATATGAGATTATAAACCATTTAA
AGTGAGTAATTATAATGGATGACTTTTCTTGCCAATGAATATTTTTTGTCATG
Found at i:3410 original size:171 final size:167
Alignment explanation
Indices: 3052--3707 Score: 623
Period size: 171 Copynumber: 3.9 Consensus size: 167
3042 ATAATGGATG
* * * *
3052 GACTTTTCTTGCCGATGAAT-T-TTTTT-GTCAAGTTTCTCGAGATAGATATTTAATTATAAT-T
1 GACTTTTCTTGCCAATGAATATCTTTTTCTTC-AGTTTCTCGAGGTAGACATTTAATTATAATCT
* * * * *
3113 GATTTTAACCAAAAATGAAAAAAAAAACTCAACCT-AAAGTCAATTATGAGATTATAAAACCATT
65 G-TTTTAA-AAAAAATG--TAAAAAAATTCATCTTCAAA-TCAA-TATGAGATTATAAAACCATT
* * *
3177 TAAAGCGAGCAATAAGTCTTTGGAAGGCATTAGTGACTATAGATA
124 TAAAGCGAGTAATAAGACTTTGGAAGGCA-TAGTGACTATAAATA
* * * * *
3222 GATTTTTTTTACCAATGAATATCTTTTTCTTCACGTTT-TCCAAGGTAGACATTCAATTATAATC
1 GACTTTTCTTGCCAATGAATATCTTTTTCTTCA-GTTTCT-CGAGGTAGACATTTAATTATAATC
* *
3286 TGTTTTAATAAAAAATGTAAAAAAATTCATCTTCAAATCACCTATGAGATTATTAAACCATTTAA
64 TGTTTTAA-AAAAAATGTAAAAAAATTCATCTTCAAATCA-ATATGAGATTATAAAACCATTTAA
* *
3351 AGCGAGTAATATGACTTTCGAAGGCATGAGTGACTATAAATA
127 AGCGAGTAATAAGACTTTGGAAGGCAT-AGTGACTATAAATA
** *
3393 GACTTTTCTTGCCAATGAATGGCTTTTGCTTCATGTTTCTCGAGGTAGACATTTAATTATAATCT
1 GACTTTTCTTGCCAATGAATATCTTTTTCTTCA-GTTTCTCGAGGTAGACATTTAATTATAATCT
** * * * *
3458 GTTTTTAGCACAAATG-AAAAGACATTCAACTT-AAAGTCAATTATGAGATTATAAAATCATTTA
65 G-TTTTAAAAAAAATGTAAAA-AAATTCATCTTCAAA-TCAA-TATGAGATTATAAAACCATTTA
* * * *
3521 AAGTGTGTAATAAGGCTTTGGAAAGCATAGGTGACTATAAAT-
126 AAGCGAGTAATAAGACTTTGGAAGGCATA-GTGACTATAAATA
* * * * *
3563 GAACTTTTCTTGCCAATGAAAATATTTTTCTTCAAATTTCTCGTGGTAGACATTTAATTTTAATC
1 G-ACTTTTCTTGCCAATGAATATCTTTTTCTTC-AGTTTCTCGAGGTAGACATTTAATTATAATC
* * * * * *
3628 TATTTTAAGAAAAATGTAAAAAAATTAAT-TTCAAATCAATTTCGAGATTATCAAAGCATTTAAA
64 TGTTTTAAAAAAAATGTAAAAAAATTCATCTTCAAATCAATAT-GAGATTATAAAACCATTTAAA
*
3692 GTGAGTAAT-AGACTTT
128 GCGAGTAATAAGACTTT
3708 TTTTGCCAAT
Statistics
Matches: 401, Mismatches: 65, Indels: 42
0.79 0.13 0.08
Matches are distributed among these distances:
168 8 0.02
169 33 0.08
170 45 0.11
171 258 0.64
172 17 0.04
173 38 0.09
174 2 0.00
ACGTcount: A:0.38, C:0.12, G:0.14, T:0.36
Consensus pattern (167 bp):
GACTTTTCTTGCCAATGAATATCTTTTTCTTCAGTTTCTCGAGGTAGACATTTAATTATAATCTG
TTTTAAAAAAAATGTAAAAAAATTCATCTTCAAATCAATATGAGATTATAAAACCATTTAAAGCG
AGTAATAAGACTTTGGAAGGCATAGTGACTATAAATA
Found at i:3412 original size:491 final size:489
Alignment explanation
Indices: 2626--3531 Score: 1180
Period size: 491 Copynumber: 1.8 Consensus size: 489
2616 TTATAATCTT
* * ** *
2626 TTTTAACAAAAAATGAAAAAAAATTGAATTTAAAATCAACTATGAGATTATAAAACTATTTAAAG
1 TTTTAACAAAAAATGAAAAAAAACTCAACCTAAAATCAACTATGAGATTATAAAACCATTTAAAG
* * * * * *
2691 CAAGTAATAGGGCTTTCGAAGGCTTGGATGATTATAAATGGGCTTTTTTAGCCAATGAATGGCTT
66 CAAGCAATAAGGCTTTCGAAGGCTTAGATGACTATAAATGAGCTTTTTTAGCCAATGAATAGCTT
* * *
2756 TTTCTTAACATTTCTCGAGGTAGACATTCAATTATAATTCATTTTAATCAAAAATGTAAAAGAAT
131 TTTCTTAACATTTCTCAAGGTAGACATTCAATTATAATTCATTTTAATAAAAAATGTAAAAAAAT
* * * *
2821 TCAACTTACAGTCAATTATGAGATTATAAAACTATTCAAAGAGACTAATAAGGCTTTCGAAGGCA
196 TCAACTTACAATCAACTATGAGATTATAAAACCATTCAAAGAGACTAATAAGACTTTCGAAGGCA
* * *
2886 TGGGTGACTATATATGAGCTTTTCTTGCTAATGAATGGCTTTCT-CTTCATGTTTCTCAAGGTAG
261 TGAGTGACTATAAATGAGCTTTTCTTGCCAATGAATGGCTTT-TGCTTCATGTTTCTCAAGGTAG
** *
2950 ACATTCAATTATGGTCTGTTTTGACCAAAAATCAAAA-ATAATTCAACTTAAAGTTAATTATGAG
325 ACATTCAATTATAATCTGTTTTGACCAAAAATCAAAAGA-AATTCAACTTAAAGTCAATTATGAG
*
3014 ATTATAACATCATTTAAAATGAGTAATTATAATGGATGGACTTTTCTTGCCGATGAATTTTTTTG
389 ATTATAAAATCATTTAAAATGAGTAATTATAATGGATGGACTTTTCTTGCCGATGAATTTTTTTG
3079 TCAAGTTTCTCGAGATAGATATTTAATTATAATTGA
454 TCAAGTTTCTCGAGATAGATATTTAATTATAATTGA
* * *
3115 TTTTAACCAAAAATGAAAAAAAAAACTCAACCTAAAGTCAATTATGAGATTATAAAACCATTTAA
1 TTTTAACAAAAAATG--AAAAAAAACTCAACCTAAAATCAACTATGAGATTATAAAACCATTTAA
* * * * **
3180 AGCGAGCAATAAGTCTTTGGAAGGCATTAG-TGACTATAGATAGATTTTTTTTA-CCAATGAATA
64 AGCAAGCAATAAGGCTTTCGAAGGC-TTAGATGACTATAAAT-GAGCTTTTTTAGCCAATGAATA
* * * *
3243 TCTTTTTCTTCACGTTT-TCCAAGGTAGACATTCAATTATAA-TCTGTTTTAATAAAAAATGTAA
127 GCTTTTTCTTAACATTTCT-CAAGGTAGACATTCAATTATAATTC-ATTTTAATAAAAAATGTAA
* * * * * * *
3306 AAAAATTCATCTT-CAAATCACCTATGAGATTATTAAACCATTTAAAGCGAGTAATATGACTTTC
190 AAAAATTCAACTTAC-AATCAACTATGAGATTATAAAACCATTCAAAGAGACTAATAAGACTTTC
3370 GAAGGCATGAGTGACTATAAAT-AGACTTTTCTTGCCAATGAATGGCTTTTGCTTCATGTTTCTC
254 GAAGGCATGAGTGACTATAAATGAG-CTTTTCTTGCCAATGAATGGCTTTTGCTTCATGTTTCTC
* * * * * * *
3434 GAGGTAGACATTTAATTATAATCTGTTTTTAGCACAAATGAAAAGACATTCAACTTAAAGTCAAT
318 AAGGTAGACATTCAATTATAATCTGTTTTGACCAAAAATCAAAAGAAATTCAACTTAAAGTCAAT
* *
3499 TATGAGATTATAAAATCATTTAAAGTGTGTAAT
383 TATGAGATTATAAAATCATTTAAAATGAGTAAT
3532 AAGGCTTTGG
Statistics
Matches: 353, Mismatches: 54, Indels: 18
0.83 0.13 0.04
Matches are distributed among these distances:
489 14 0.04
490 7 0.02
491 320 0.91
492 12 0.03
ACGTcount: A:0.38, C:0.12, G:0.14, T:0.35
Consensus pattern (489 bp):
TTTTAACAAAAAATGAAAAAAAACTCAACCTAAAATCAACTATGAGATTATAAAACCATTTAAAG
CAAGCAATAAGGCTTTCGAAGGCTTAGATGACTATAAATGAGCTTTTTTAGCCAATGAATAGCTT
TTTCTTAACATTTCTCAAGGTAGACATTCAATTATAATTCATTTTAATAAAAAATGTAAAAAAAT
TCAACTTACAATCAACTATGAGATTATAAAACCATTCAAAGAGACTAATAAGACTTTCGAAGGCA
TGAGTGACTATAAATGAGCTTTTCTTGCCAATGAATGGCTTTTGCTTCATGTTTCTCAAGGTAGA
CATTCAATTATAATCTGTTTTGACCAAAAATCAAAAGAAATTCAACTTAAAGTCAATTATGAGAT
TATAAAATCATTTAAAATGAGTAATTATAATGGATGGACTTTTCTTGCCGATGAATTTTTTTGTC
AAGTTTCTCGAGATAGATATTTAATTATAATTGA
Found at i:3846 original size:138 final size:138
Alignment explanation
Indices: 3565--3838 Score: 349
Period size: 138 Copynumber: 2.0 Consensus size: 138
3555 CTATAAATGA
* * *
3565 ACTTTTCTTGCCAATGAAAATATTTTTCTTCAAATTTCTCGTGGTAGACATTTAATTTTAATCTA
1 ACTTTTCTTGCCAATGAAAATATTTTTCTTCAAATTTCTCGAGGTAGACATTTAACTATAATCTA
* * * * * *
3630 TTTTAAGAAAAATGTAAAAAAATTAATTTCAAATCAATTTCGAGATTATCAAAGCATTTAAAGTG
66 TTTTAACAAAAATGTAAAAAAATAAATTACAAATCAATTTAGAGATTATAAAACCATTTAAAGTG
3695 AGTAATAG
131 AGTAATAG
* * ** *
3703 ACTTTTTTTGCCAATGAATATATTTTTCTTCATGTTTCTCGAGGTAGACATTTAACTATAATCTG
1 ACTTTTCTTGCCAATGAAAATATTTTTCTTCAAATTTCTCGAGGTAGACATTTAACTATAATCTA
* *
3768 TTTTAACCAAAAATG-AAAAAAA-AAACTTAC-AGTCAATTGTAG-GGTTATAAAACCATTTAAA
66 TTTTAA-CAAAAATGTAAAAAAATAAA-TTACAAATCAATT-TAGAGATTATAAAACCATTTAAA
3829 GTGAGTAATA
128 GTGAGTAATA
3839 AGGCTTTTGA
Statistics
Matches: 117, Mismatches: 16, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
137 35 0.30
138 75 0.64
139 7 0.06
ACGTcount: A:0.39, C:0.12, G:0.12, T:0.38
Consensus pattern (138 bp):
ACTTTTCTTGCCAATGAAAATATTTTTCTTCAAATTTCTCGAGGTAGACATTTAACTATAATCTA
TTTTAACAAAAATGTAAAAAAATAAATTACAAATCAATTTAGAGATTATAAAACCATTTAAAGTG
AGTAATAG
Done.