Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_018399294.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_2562.0, 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: 10188
ACGTcount: A:0.28, C:0.09, G:0.10, T:0.26
Warning! 2732 characters in sequence are not A, C, G, or T
Found at i:515 original size:170 final size:170
Alignment explanation
Indices: 1--538 Score: 548
Period size: 170 Copynumber: 3.2 Consensus size: 170
* * * *
1 AACCATTTAAAGCGAGTAATAAAGCTTTTGAAGGAATTGGTAACTATAAATGAACTTTTCTTGCC
1 AACCATTTAAAGCGAGGAATAAAGCTTTTGAAGGAATGGGTGACTATAAATGGACTTTTCTTGCC
* *
66 AACGACTGCTTTTTTCTTTATGTTTCTTGAGGTAAACATTCAAATATAGT-TAGTTTTAACTAAA
66 AACGAATGC-TTTTTCTTTATGTTTCTTGAGGTAAACATTCAATTATAGTCT-GTTTTAA-TAAA
* * *
130 AAA-G-AAAAAAATTTAACTTAAAATCTATTATGAGGTTATAA
128 AAATGTAAAAAAATTTAACTTAAAATCAATTATGAGATGATAA
* ********** * *
171 AATCATTTAAAGCGNNNNNNNNNNCTTTTGAAAGAATGGGTGACTACAAATGGACTTTTCTTGCC
1 AACCATTTAAAGCGAGGAATAAAGCTTTTGAAGGAATGGGTGACTATAAATGGACTTTTCTTGCC
* * * * * * * ***
236 CATGGATGCTTTTTTCTTTATGTTTCTTGAGATAGACATTTAATTATAGTCGGTTTTAACCTAAA
66 AACGAATGC-TTTTTCTTTATGTTTCTTGAGGTAAACATTCAATTATAGTCTGTTTTAATAAAAA
* *
301 ATGTAAAAAAATTTAACTTAAAATAAATTACGAGATTG-TAA
130 ATGTAAAAAAATTTAACTTAAAATCAATTATGAGA-TGATAA
* * * *
342 AACCATTTAAAGTGAGGAATAAGGCTTTTGAAGGAATGGGTGACTATATATGGACTTTTATTGCC
1 AACCATTTAAAGCGAGGAATAAAGCTTTTGAAGGAATGGGTGACTATAAATGGACTTTTCTTGCC
* *
407 AACGAATGGC-TTTTCTTCATGTTT-TCTGAGGCAAACATTCAATTATAGTCTGTTTTAATAAAA
66 AACGAAT-GCTTTTTCTTTATGTTTCT-TGAGGTAAACATTCAATTATAGTCTGTTTTAATAAAA
** * * *
470 AATGTAAAGCAATTCAGCCTAAAATCAATTATGAGATGATAA
129 AATGTAAAAAAATTTAACTTAAAATCAATTATGAGATGATAA
* *
512 AACCATTTAAAGCAAGTAATAAAGCTT
1 AACCATTTAAAGCGAGGAATAAAGCTT
539 NNNNNNNNNN
Statistics
Matches: 289, Mismatches: 72, Indels: 14
0.77 0.19 0.04
Matches are distributed among these distances:
169 7 0.02
170 196 0.68
171 83 0.29
172 3 0.01
ACGTcount: A:0.36, C:0.12, G:0.15, T:0.35
Consensus pattern (170 bp):
AACCATTTAAAGCGAGGAATAAAGCTTTTGAAGGAATGGGTGACTATAAATGGACTTTTCTTGCC
AACGAATGCTTTTTCTTTATGTTTCTTGAGGTAAACATTCAATTATAGTCTGTTTTAATAAAAAA
TGTAAAAAAATTTAACTTAAAATCAATTATGAGATGATAA
Found at i:1343 original size:170 final size:168
Alignment explanation
Indices: 840--2050 Score: 1167
Period size: 170 Copynumber: 7.1 Consensus size: 168
830 NNNAATGCCT
* * * * * *
840 TTTAAAGCGAGGACTAAGGCTTTTGAAGGAATGAGAGACTATAAATGGACTTTTCTTGCCACTGA
1 TTTAAAGTGAGTAATAAGGCTTTTAAAGGAATGAGAGACTATAAATAGACTTTTCTTGCCAATGA
* * *
905 ATGGTTTTTCCTTGATGTTTCTTGAGGTAGACA-TCAATTATAGTCTGTTTTAACTAAAAATGTA
66 AT-GCTTTT-CTTCATGTTTCTTAAGGTAGACATTCAATTATAGTCTGTTTTAACTAAAAATGTA
* * *
969 AACAAATTGAACATAAAATCAATTGTGAGATTATAAAACGA
129 AA-AAATTGAACTTAAAATCAATTATGAGATTATAAAACCA
** * * * * *
1010 TTTAAAACGAGCAATAAGGCTTTTGAAGAAAT-AGAAGACTATAACTTA-ACTTTTCTTGCCAGT
1 TTTAAAGTGAGTAATAAGGCTTTTAAAGGAATGAG-AGACTATAA-ATAGACTTTTCTTGCCAAT
* * *
1073 GAATGCTTATTTTATCACGTTTCTTAAGGTAGACACTCAATTATAGTCTGTTTTAA-TGAAAAAT
64 GAATGCTT-TTCT-TCATGTTTCTTAAGGTAGACATTCAATTATAGTCTGTTTTAACT-AAAAAT
* * * * *
1137 GTATAAAAATTTAACTTAAAATTAATTATAAGATTATAATACCT
126 GTA-AAAAATTGAACTTAAAATCAATTATGAGATTATAAAACCA
* *
1181 TTTAAAGTGAG-AACTAAGGCTTTTAAAGGAATGAAAGACTATAAATAGACTTTTCTTGCCACTG
1 TTTAAAGTGAGTAA-TAAGGCTTTTAAAGGAATGAGAGACTATAAATAGACTTTTCTTGCCAATG
* * *
1245 AATGCCTTTTCTTCATGTTTCTTTAGGTAGACATTTAATTATAGTCTGTTTTAACCAAAAATGTA
65 AATG-CTTTTCTTCATGTTTCTTAAGGTAGACATTCAATTATAGTCTGTTTTAACTAAAAATGTA
*
1310 AACAAATTGAACCTAAAATCAATTATGAGATTATAAAACCA
129 AA-AAATTGAACTTAAAATCAATTATGAGATTATAAAACCA
* * * *
1351 TCTAAAATGAGTAATAAGGCTTTTAAAGGAATG-GAAGACTACAAATTA-ACTTTTCTTGCTAAT
1 TTTAAAGTGAGTAATAAGGCTTTTAAAGGAATGAG-AGACTATAAA-TAGACTTTTCTTGCCAAT
* * * * *
1414 GAATGCTTATTTTATCACGTTTCTTGAGGTAGACACTCAATTATAGTCTGTTTTAACAAAAAATG
64 GAATGCTT-TTCT-TCATGTTTCTTAAGGTAGACATTCAATTATAGTCTGTTTTAACTAAAAATG
* * ** *
1479 TATAAAAATTCAACTTAAAATCAATTATAAGATTATAATGCCT
127 TA-AAAAATTGAACTTAAAATCAATTATGAGATTATAAAACCA
* * * * * * * *
1522 TTTAATGCGAGGACTAAGGC-TTTGATGGAATGGGTGACTATAAAT-GAACTTTTCTTGCCAATG
1 TTTAAAGTGAGTAATAAGGCTTTTAAAGGAATGAGAGACTATAAATAG-ACTTTTCTTGCCAATG
* * * * * * *
1585 AATGTTGTTTTTTTCATATTTCTTTAGGTAAATATTCAATTATAGTCTGTTTTAACTAAAAATAT
65 AATG--CTTTTCTTCATGTTTCTTAAGGTAGACATTCAATTATAGTCTGTTTTAACTAAAAATGT
* * *
1650 AAAAAATTAAACTTGAAATCAATTATGAGATTATAAAATCA
128 AAAAAATTGAACTTAAAATCAATTATGAGATTATAAAACCA
* * ***
1691 TTTAAAAG-GAGTAAAAAGGCTTTTGAAA-GAATGAGAGACTATAAAT-GAACTTTTTTTTATAA
1 TTT-AAAGTGAGTAATAAGGCTTTT-AAAGGAATGAGAGACTATAAATAG-AC-TTTTCTTGCCA
* * * ** * * *
1753 ATAAATAAGTTTTTCTACATGTTTCCCAAGGCA-AGCATTCAATTGTAGTATGTTTTAA-TAAAA
62 ATGAAT--GCTTTTCTTCATGTTTCTTAAGGTAGA-CATTCAATTATAGTCTGTTTTAACT-AAA
* * *
1816 AATGTAACAAATTCAACCTAAAATCAATTATGAGATTATAAAACCA
123 AATGTAAAAAATTGAACTTAAAATCAATTATGAGATTATAAAACCA
* ** *
1862 TTTAAAGTGAGTAATAAGGCTTTTGAAA-GAAT-AGGTGACTATAGTTGGACTTTTCTTGCCAAT
1 TTTAAAGTGAGTAATAAGGCTTTT-AAAGGAATGA-GAGACTATAAATAGACTTTTCTTGCCAAT
** * * *
1925 GAATGCCTTTTTCTTCATGTTTCACAAGGTTGACATTTAAATATAGTCTGTTTTAACTAAAAATG
64 GAATG-C-TTTTCTTCATGTTTCTTAAGGTAGACATTCAATTATAGTCTGTTTTAACTAAAAATG
* * *
1990 TAAAAAAGATTGAACATAAAATCAATTTTGAGATAATAAAACCA
127 T-AAAAA-ATTGAACTTAAAATCAATTATGAGATTATAAAACCA
2034 TTTAAAGTGAGTAATAA
1 TTTAAAGTGAGTAATAA
2051 ANNNNNNNNN
Statistics
Matches: 863, Mismatches: 137, Indels: 80
0.80 0.13 0.07
Matches are distributed among these distances:
168 1 0.00
169 57 0.07
170 390 0.45
171 354 0.41
172 60 0.07
173 1 0.00
ACGTcount: A:0.39, C:0.11, G:0.14, T:0.36
Consensus pattern (168 bp):
TTTAAAGTGAGTAATAAGGCTTTTAAAGGAATGAGAGACTATAAATAGACTTTTCTTGCCAATGA
ATGCTTTTCTTCATGTTTCTTAAGGTAGACATTCAATTATAGTCTGTTTTAACTAAAAATGTAAA
AAATTGAACTTAAAATCAATTATGAGATTATAAAACCA
Found at i:1460 original size:341 final size:340
Alignment explanation
Indices: 837--2050 Score: 1462
Period size: 341 Copynumber: 3.6 Consensus size: 340
827 NNNNNNAATG
* * *
837 CCTTTTAAAGCGAGGACTAAGGCTTTTGAAGGAATGAGAGACTATAAATGGACTTTTCTTGCCAC
1 CCTTTTAAAGCGAGAACTAAGGCTTTTAAAGGAATGAGAGACTATAAATGGACTTTTCTTGCCAA
** * *
902 TGAATGGTTTTTCCTTGATGTTTCTTGAGGTAGACA-TCAATTATAGTCTGTTTTAACTAAAAAT
66 TGAATGCCTTTT-CTTCATGTTTCTTTAGGTAGACATTCAATTATAGTCTGTTTTAACTAAAAAT
* * * *
966 GTAAACAAATTGAACATAAAATCAATTGTGAGATTATAAAACGATTTAAAACGAGCAATAAGGCT
130 GTAAACAAATTGAACATAAAATCAATTATGAGATTATAAAACCATTTAAAATGAGTAATAAGGCT
* * * * *
1031 TTTGAAGAAATAGAAGACTATAACTTAACTTTTCTTGCCAGTGAATGCTTATTTTATCACGTTTC
195 TTTAAAGGAAT-GAAGACTATAAATTAACTTTTCTTGCTAATGAATGCTTATTTTATCACGTTTC
* * *
1096 TTAAGGTAGACACTCAATTATAGTCTGTTTTAATGAAAAATGTATAAAAATTTAACTTAAAATTA
259 TTAAGGTAGACACTCAATTATAGTCTGTTTTAATAAAAAATGTATAAAAATTCAACTTAAAATCA
1161 ATTATAAGATTATAATA
324 ATTATAAGATTATAATA
* * * *
1178 CCTTTTAAAGTGAGAACTAAGGCTTTTAAAGGAATGAAAGACTATAAATAGACTTTTCTTGCCAC
1 CCTTTTAAAGCGAGAACTAAGGCTTTTAAAGGAATGAGAGACTATAAATGGACTTTTCTTGCCAA
* *
1243 TGAATGCCTTTTCTTCATGTTTCTTTAGGTAGACATTTAATTATAGTCTGTTTTAACCAAAAATG
66 TGAATGCCTTTTCTTCATGTTTCTTTAGGTAGACATTCAATTATAGTCTGTTTTAACTAAAAATG
* *
1308 TAAACAAATTGAACCTAAAATCAATTATGAGATTATAAAACCATCTAAAATGAGTAATAAGGCTT
131 TAAACAAATTGAACATAAAATCAATTATGAGATTATAAAACCATTTAAAATGAGTAATAAGGCTT
*
1373 TTAAAGGAATGGAAGACTACAAATTAACTTTTCTTGCTAATGAATGCTTATTTTATCACGTTTCT
196 TTAAAGGAAT-GAAGACTATAAATTAACTTTTCTTGCTAATGAATGCTTATTTTATCACGTTTCT
* *
1438 TGAGGTAGACACTCAATTATAGTCTGTTTTAACAAAAAATGTATAAAAATTCAACTTAAAATCAA
260 TAAGGTAGACACTCAATTATAGTCTGTTTTAATAAAAAATGTATAAAAATTCAACTTAAAATCAA
*
1503 TTATAAGATTATAATG
325 TTATAAGATTATAATA
* * * * * * *
1519 CCTTTTAATGCGAGGACTAAGGC-TTTGATGGAATGGGTGACTATAAATGAACTTTTCTTGCCAA
1 CCTTTTAAAGCGAGAACTAAGGCTTTTAAAGGAATGAGAGACTATAAATGGACTTTTCTTGCCAA
** * * * *
1583 TGAATGTTGTTTTTTTCATATTTCTTTAGGTAAATATTCAATTATAGTCTGTTTTAACTAAAAAT
66 TGAATG-CCTTTTCTTCATGTTTCTTTAGGTAGACATTCAATTATAGTCTGTTTTAACTAAAAAT
* * * * * * *
1648 ATAAA-AAATTAAACTTGAAATCAATTATGAGATTATAAAATCATTTAAAAGGAGTAAAAAGGCT
130 GTAAACAAATTGAACATAAAATCAATTATGAGATTATAAAACCATTTAAAATGAGTAATAAGGCT
* * ** * *
1712 TTTGAAA-GAATGAGAGACTATAAATGAACTTTTTTTTATAAATAAATAAG-TT-TTTCTA-CAT
195 TTT-AAAGGAATGA-AGACTATAAATTAACTTTTCTTGCT-AATGAAT--GCTTATTT-TATCAC
** * * * * * *
1773 GTTTCCCAAGGCA-AGCATTCAATTGTAGTATGTTTTAATAAAAAATGTA-ACAAATTCAACCTA
254 GTTTCTTAAGGTAGA-CACTCAATTATAGTCTGTTTTAATAAAAAATGTATAAAAATTCAACTTA
* *
1836 AAATCAATTATGAGATTATAAAA
318 AAATCAATTATAAGATTATAATA
* * * **
1859 CCATTTAAAGTGAGTAA-TAAGGCTTTTGAAA-GAAT-AGGTGACTATAGTTGGACTTTTCTTGC
1 CCTTTTAAAGCGAG-AACTAAGGCTTTT-AAAGGAATGA-GAGACTATAAATGGACTTTTCTTGC
*** * * *
1921 CAATGAATGCCTTTTTCTTCATGTTTCACAAGGTTGACATTTAAATATAGTCTGTTTTAACTAAA
63 CAATGAATGCC-TTTTCTTCATGTTTCTTTAGGTAGACATTCAATTATAGTCTGTTTTAACTAAA
* * * *
1986 AATGTAAAAAAGATTGAACATAAAATCAATTTTGAGATAATAAAACCATTTAAAGTGAGTAATAA
127 AATGTAAACAA-ATTGAACATAAAATCAATTATGAGATTATAAAACCATTTAAAATGAGTAATAA
2051 ANNNNNNNNN
Statistics
Matches: 748, Mismatches: 109, Indels: 30
0.84 0.12 0.03
Matches are distributed among these distances:
339 2 0.00
340 189 0.25
341 505 0.68
342 7 0.01
343 45 0.06
ACGTcount: A:0.39, C:0.11, G:0.14, T:0.36
Consensus pattern (340 bp):
CCTTTTAAAGCGAGAACTAAGGCTTTTAAAGGAATGAGAGACTATAAATGGACTTTTCTTGCCAA
TGAATGCCTTTTCTTCATGTTTCTTTAGGTAGACATTCAATTATAGTCTGTTTTAACTAAAAATG
TAAACAAATTGAACATAAAATCAATTATGAGATTATAAAACCATTTAAAATGAGTAATAAGGCTT
TTAAAGGAATGAAGACTATAAATTAACTTTTCTTGCTAATGAATGCTTATTTTATCACGTTTCTT
AAGGTAGACACTCAATTATAGTCTGTTTTAATAAAAAATGTATAAAAATTCAACTTAAAATCAAT
TATAAGATTATAATA
Found at i:2890 original size:171 final size:168
Alignment explanation
Indices: 2390--2890 Score: 497
Period size: 170 Copynumber: 2.9 Consensus size: 168
2380 NNNNNNNNNN
* * * *
2390 CAAGTAATAAGGCTTTTGAAGGTATGGGTGACTATAAATAGACTTTTCTTACCATTGAAT-GCTT
1 CAAGTAATAAGGCTTTTGAAGG-AT-TGAGACTATAAATAGACTTTTCTTACCAATGAATGGC-A
* * *
2454 TTTTTCTTCACATTTCTCGAGATAAACTTTCAATTATAGTCTGTTTTAAAAAAATATATAAAACA
63 TTTTT-TTCACATTTCTCTAGGTAAACATTCAATTATAGTCTGTTTTAAAAAAA-ATAT-AAACA
* * * * * *
2519 AATTCAACTTGAAGTCAATTATTAGCTCAAAAAACCATTTAAAG
125 AATTCAACTTAAAGTCAATTATGAGATTATAAAACCATTAAAAG
* * * * * *
2563 CAAATAATAAGGCTTTTGAAGGCTTGAGTGACTATAAATGGACTTTTCGTGCCAATAAATGGCAT
1 CAAGTAATAAGGCTTTTGAAGGATTGA--GACTATAAATAGACTTTTCTTACCAATGAATGGCAT
** * * * * * * * *
2628 TTGCTTCAC-GTTCCCTAAGGCAAACAGTCAGTTATAGCCT-TTTTAACCAAAAATATAAAAAAA
64 TTTTTTCACATTTCTCT-AGGTAAACATTCAATTATAGTCTGTTTTAA-AAAAAATATAAACAAA
*
2691 TTCAACTTAAAGTCAATTATGTGATTATAAAACCATTAAAAG
127 TTCAACTTAAAGTCAATTATGAGATTATAAAACCATTAAAAG
* * * * * *
2733 CGAGTAATAAGACTTTTCAAGGAATATGAGACTATAAAAAGACTTTTCTTCCCAGTGAATGGC-T
1 CAAGTAATAAGGCTTTTGAAGG-AT-TGAGACTATAAATAGACTTTTCTTACCAATGAATGGCAT
* *
2797 TTTTTTACACATTTCTCTAGGTAAACATTCAATTATAGTCTGTTTTAATGAAAAATATAAACACA
64 TTTTTT-CACATTTCTCTAGGTAAACATTCAATTATAGTCTGTTTTAA-AAAAAATATAAACAAA
*
2862 TTCAACTTAAAATCAATTATGAGATTATA
127 TTCAACTTAAAGTCAATTATGAGATTATA
2891 NNNNNNNNNN
Statistics
Matches: 263, Mismatches: 55, Indels: 22
0.77 0.16 0.06
Matches are distributed among these distances:
169 5 0.02
170 109 0.41
171 67 0.25
172 30 0.11
173 50 0.19
174 2 0.01
ACGTcount: A:0.38, C:0.15, G:0.13, T:0.34
Consensus pattern (168 bp):
CAAGTAATAAGGCTTTTGAAGGATTGAGACTATAAATAGACTTTTCTTACCAATGAATGGCATTT
TTTTCACATTTCTCTAGGTAAACATTCAATTATAGTCTGTTTTAAAAAAAATATAAACAAATTCA
ACTTAAAGTCAATTATGAGATTATAAAACCATTAAAAG
Found at i:3945 original size:170 final size:170
Alignment explanation
Indices: 3647--4773 Score: 1083
Period size: 170 Copynumber: 6.6 Consensus size: 170
3637 ACGGTTCTTG
* * * * * * *
3647 AGGTATACATTCAGTTACAGTCTGTTTTAACTAAAAAATGTGAAACAATTTAACTTAAAATCAAT
1 AGGTAGACATTCAATTATAGTCTGTTTTAA-T-GAAAATGTAAAAAAATTCAACTTAAAATCAAT
* * *
3712 TATGAGATTATAAAACCAATTAAAGCGAGTAATAAGGCTTTTGATAGAATTGGTGACTATAAATA
64 TATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAAGAATAGGTGACTATAAATA
* **
3777 GATTTTTCTTTTCAATGAATGGCTTTTT-TGCACTTTTTCTA
129 GACTTTTCTTGCCAATGAATGGCTTTTTCTGCACTTTTTCTA
* * * * *
3818 AAGCAGACATTCATTTATAGTCTGTTTTAATGATGAATGTAAAAAAAATCAACTTAAAATCAATT
1 AGGTAGACATTCAATTATAGTCTGTTTTAATGA-AAATGTAAAAAAATTCAACTTAAAATCAATT
** *
3883 ATGAG-TCTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAAGAATTAGCAG-TTATAAAT
65 ATGAGAT-TATAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAAGAA-TAGGTGACTATAAAT
* * *
3946 GGACTTTTCTTGCCAATGAATGGCTTTTTCTGCACGTTTCCT-
128 AGACTTTTCTTGCCAATGAATGGCTTTTTCTGCACTTTTTCTA
* * * *
3988 AGGTAAACATTCAATTATAGTATGGTTTAATGAAGAATGTAAAAAAATTGAACTTAAAATCAATT
1 AGGTAGACATTCAATTATAGTCTGTTTTAATGAA-AATGTAAAAAAATTCAACTTAAAATCAATT
* * ** * * * * **
4053 ATGAGTTTATAAAATCATTTAAAATGAGTAATAAGGTTTTTGCAGGAATGGGTGACTATAAACGG
65 ATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAAGAATAGGTGACTATAAATAG
* ** * *
4118 ACTTTTCTTACCAATGAATACCTTTTTCTTCA-TGTTTCTTCA
130 ACTTTTCTTGCCAATGAATGGCTTTTTCTGCACTTTTTC-T-A
* * * * * * * *
4160 A-GTAGGCATTCAATTATAATCTATCTTAATGAATATGTAAAAATATTAAACGTAAAATCAATTA
1 AGGTAGACATTCAATTATAGTCTGTTTTAATGAAAATGTAAAAAAATTCAACTTAAAATCAATTA
* * * * * * *
4224 TGAAATTATAAAACTATTTAAAGCGAGTAATATGGTTTTTGAAGGAATGGGAGACTATAAATAGA
66 TGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAAGAATAGGTGACTATAAATAGA
* *
4289 CTTTTCTTGCCAATGAAT-GCTTTTTGCTTCA-TATTTCTTA
131 CTTTTCTTGCCAATGAATGGCTTTTT-CTGCACTTTTTC-TA
* * ** * *
4329 AGGTAGACATTTAGTTATAGTCTGTTTTAACCAAAAATGTAAAAAAATTTAACCTAAAATCAATT
1 AGGTAGACATTCAATTATAGTCTGTTTTAA-TGAAAATGTAAAAAAATTCAACTTAAAATCAATT
** * * *
4394 ATGAGATTATAAAATTATTTAAAGCGAGTAATAAGGCTTTTGTAGGAATAGGTGACTATAGAT-G
65 ATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAAGAATAGGTGACTATAAATAG
* * * * *
4458 AATTTT-TTTCTCAAT-AACTTGCTTTTTCTACA-TATTTCCTA
130 ACTTTTCTTGC-CAATGAA-TGGCTTTTTCTGCACT-TTTTCTA
* * *
4499 AGGCAGACATTCAATTATAGTCTGTTTTCATGAATAATGTAAAACAATTCAACTTAAAATCAATT
1 AGGTAGACATTCAATTATAGTCTGTTTTAATGAA-AATGTAAAAAAATTCAACTTAAAATCAATT
* * * * * *
4564 ATGAGATTATAAAATCGTTGAAAGCGAGTAATAAGGCTTTTGCAAGAATGGGTGACTATAAATGG
65 ATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAAGAATAGGTGACTATAAATAG
* * * * * *
4629 ACTTTCCTTGCCAATGAATGCTCTTTTTTTTCAC-GTTTCTTG
130 ACTTTTCTTGCCAATGAATG-GCTTTTTCTGCACTTTTTC-TA
* * ** * * * *
4671 AGGTAGACGTTCAATTATAGTCAGTTTTAACCAATAATGTAAAAAATGTTGAACCTATAATCAAT
1 AGGTAGACATTCAATTATAGTCTGTTTTAATGAA-AATGTAAAAAA-ATTCAACTTAAAATCAAT
* *
4736 TATGAAATTATAAAACCATTTAAAGCGAGTAATGAGGC
64 TATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGC
4774 CTTNNNNNNN
Statistics
Matches: 789, Mismatches: 142, Indels: 48
0.81 0.15 0.05
Matches are distributed among these distances:
169 23 0.03
170 494 0.63
171 170 0.22
172 55 0.07
173 47 0.06
ACGTcount: A:0.37, C:0.12, G:0.15, T:0.36
Consensus pattern (170 bp):
AGGTAGACATTCAATTATAGTCTGTTTTAATGAAAATGTAAAAAAATTCAACTTAAAATCAATTA
TGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAAGAATAGGTGACTATAAATAGA
CTTTTCTTGCCAATGAATGGCTTTTTCTGCACTTTTTCTA
Found at i:4566 original size:341 final size:337
Alignment explanation
Indices: 3616--4773 Score: 1289
Period size: 341 Copynumber: 3.4 Consensus size: 337
3606 NNNNNNNNTC
* * * * *
3616 CCAATGAATGCTTTTTTCTTCACGGTTCTTGAGGTATACATTCAGTTACAGTCTGTTTTAACTAA
1 CCAATGAATGCTTTTTTCTTCACGTTTCTTGAGGTAGACATTCAATTATAGTCTGTTTTAAC-CA
* * * *
3681 AAAATGTGAAACAATTTAACTTAAAATCAATTATGAGATTATAAAACCAATTAAAGCGAGTAATA
65 AAAATGTAAAAAAATTTAACCTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAATA
* * * *
3746 AGGCTTTTGATA-GAATTGGTGACTATAAAT-AGATTTTTCTTTTCAATGAATGGCTTTTT-TGC
130 AGGCTTTTG-TAGGAATAGGTGACTATAAATGA-ATTTTT-TTCTCAATGAATAGCTTTTTCTAC
* * *
3808 ACTTTTTCTAAAGCAGACATTCATTTATAGTCTGTTTTAATG-ATGAATGTAAAAAAAATCAACT
192 A-TTTTCCT-AAGCAGACATTCAATTATAGTCTGTTTTAATGAAT-AATGT-AAAAAATTCAACT
* * * *
3872 TAAAATCAATTATG-AGTCTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAAGAATTAGC
253 TAAAATCAATTATGAAAT-TATAAAACTATTTAAAGCGAGTAATAAGGCTTTTG-AAGAA-TGGG
*
3936 AG-TTATAAATGGACTTTTCTTG
315 AGACTATAAATGGACTTTTCTTG
* * * * * **
3958 CCAATGAATGGC-TTTTTCTGCACGTTTCCT-AGGTAAACATTCAATTATAGTATGGTTTAATGA
1 CCAATGAAT-GCTTTTTTCTTCACGTTTCTTGAGGTAGACATTCAATTATAGTCTGTTTTAACCA
* * * * * **
4021 AGAATGTAAAAAAATTGAACTTAAAATCAATTATGAGTTTATAAAATCATTTAAAATGAGTAATA
65 AAAATGTAAAAAAATTTAACCTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAATA
* * * * * * * *
4086 AGGTTTTTGCAGGAATGGGTGACTATAAACGGACTTTTCTTAC-CAATGAATACCTTTTTCTTCA
130 AGGCTTTTGTAGGAATAGGTGACTATAAA-TGAATTTT-TTTCTCAATGAATAGCTTTTTCTACA
* * * * * * * *
4150 TGTTTCTTCAAGTAGGCATTCAATTATAATCTATCTTAATGAAT-ATGTAAAAATATTAAACGTA
193 T-TTTCCT-AAGCAGACATTCAATTATAGTCTGTTTTAATGAATAATGTAAAAA-ATTCAACTTA
* *
4214 AAATCAATTATGAAATTATAAAACTATTTAAAGCGAGTAATATGGTTTTTGAAGGAATGGGAGAC
255 AAATCAATTATGAAATTATAAAACTATTTAAAGCGAGTAATAAGGCTTTTGAA-GAATGGGAGAC
*
4279 TATAAATAGACTTTTCTTG
319 TATAAATGGACTTTTCTTG
* ** * * *
4298 CCAATGAATGCTTTTTGCTTCATATTTCTTAAGGTAGACATTTAGTTATAGTCTGTTTTAACCAA
1 CCAATGAATGCTTTTTTCTTCACGTTTCTTGAGGTAGACATTCAATTATAGTCTGTTTTAACCAA
**
4363 AAATGTAAAAAAATTTAACCTAAAATCAATTATGAGATTATAAAATTATTTAAAGCGAGTAATAA
66 AAATGTAAAAAAATTTAACCTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAATAA
* *
4428 GGCTTTTGTAGGAATAGGTGACTATAGATGAATTTTTTTCTCAAT-AACTTGCTTTTTCTACATA
131 GGCTTTTGTAGGAATAGGTGACTATAAATGAATTTTTTTCTCAATGAA-TAGCTTTTTCTACAT-
*
4492 TTTCCTAAGGCAGACATTCAATTATAGTCTGTTTTCATGAATAATGTAAAACAATTCAACTTAAA
194 TTTCCTAA-GCAGACATTCAATTATAGTCTGTTTTAATGAATAATGTAAAA-AATTCAACTTAAA
* * * *
4557 ATCAATTATGAGATTATAAAA-TCGTTGAAAGCGAGTAATAAGGCTTTTGCAAGAATGGGTGACT
257 ATCAATTATGAAATTATAAAACT-ATTTAAAGCGAGTAATAAGGCTTTTG-AAGAATGGGAGACT
*
4621 ATAAATGGACTTTCCTTG
320 ATAAATGGACTTTTCTTG
* * *
4639 CCAATGAATGCTCTTTTTTTTCACGTTTCTTGAGGTAGACGTTCAATTATAGTCAGTTTTAACCA
1 CCAATGAATGCT-TTTTTCTTCACGTTTCTTGAGGTAGACATTCAATTATAGTCTGTTTTAACCA
* * *
4704 ATAATGT-AAAAAATGTTGAACCTATAATCAATTATGAAATTATAAAACCATTTAAAGCGAGTAA
65 AAAATGTAAAAAAAT-TT-AACCTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAA
*
4768 TGAGGC
128 TAAGGC
4774 CTTNNNNNNN
Statistics
Matches: 681, Mismatches: 111, Indels: 47
0.81 0.13 0.06
Matches are distributed among these distances:
339 21 0.03
340 249 0.37
341 280 0.41
342 82 0.12
343 49 0.07
ACGTcount: A:0.37, C:0.12, G:0.15, T:0.36
Consensus pattern (337 bp):
CCAATGAATGCTTTTTTCTTCACGTTTCTTGAGGTAGACATTCAATTATAGTCTGTTTTAACCAA
AAATGTAAAAAAATTTAACCTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAATAA
GGCTTTTGTAGGAATAGGTGACTATAAATGAATTTTTTTCTCAATGAATAGCTTTTTCTACATTT
TCCTAAGCAGACATTCAATTATAGTCTGTTTTAATGAATAATGTAAAAAATTCAACTTAAAATCA
ATTATGAAATTATAAAACTATTTAAAGCGAGTAATAAGGCTTTTGAAGAATGGGAGACTATAAAT
GGACTTTTCTTG
Found at i:6673 original size:171 final size:167
Alignment explanation
Indices: 6292--7630 Score: 1143
Period size: 171 Copynumber: 7.9 Consensus size: 167
6282 NNNNNNNNNN
*
6292 ATTATGAGATTATAAAACTATTTAAAGCAAGTAATAAGGCTTTTGAAGGAATGGTGACTATAAAT
1 ATTATGAGATTATAAAACTATTTAAAGCGAGTAATAAGGCTTTTGAAGGAATGGTGACTATAAAT
* * * * * * * * *
6357 GGAATTTTTTTTCTCAATGAATGGTGTTTC-TAATGTTTCCTGAGGCAGACATTCAATTATCGTC
66 GGACTTTTCTTGC-CAATGAATGCT-TTTCTTCACGTTTCTTGAGGTAGACATTCAATTATAGTC
* * * ** *
6421 TGTTTTAATGAAGAATGCAAAACAATTTTACTTAAAAAT-A
129 TGTTTTAACGAAAAATGTAAAA-AATTGAACCT-AAAATCA
* * * *
6461 ATTATGAGATTATAAAACCAATTAAAGCGAGTAATAAGGCTTTTGCAGGAATAGGTGGCTATAAA
1 ATTATGAGATTATAAAACTATTTAAAGCGAGTAATAAGGCTTTTGAAGGAAT-GGTGACTATAAA
* * * *
6526 TGGACTTTTCTTGCCAATGAATGCCTTGTCTTCACGTTTCTTGAGGTAGACATTTAATTATACTA
65 TGGACTTTTCTTGCCAATGAATG-CTTTTCTTCACGTTTCTTGAGGTAGACATTCAATTATAGTC
* * *
6591 TGTTTTAACCAATAATGTGCAAAACATTGAACCTAAAATCA
129 TGTTTTAACGAAAAATGT--AAAAAATTGAACCTAAAATCA
* * * * *
6632 ATTATCAGATTATAAAACTATTTAAAGCCAGTAACAAGGCTTTTGATGGAATGAGAGACTATAAA
1 ATTATGAGATTATAAAACTATTTAAAGCGAGTAATAAGGCTTTTGAAGGAATG-GTGACTATAAA
* * * ** * *
6697 TATG-CTTTTCTTGCCACTGAATGCTTTTTTTTCATATTGCTTGAGGTAGACATTCAATTATGGT
65 T-GGACTTTTCTTGCCAATGAATGC-TTTTCTTCACGTTTCTTGAGGTAGACATTCAATTATAGT
* *
6761 CTGTTTTAACTAAAAATATAAACAAATTGAACCTAAAATCA
128 CTGTTTTAACGAAAAATGTAAA-AAATTGAACCTAAAATCA
** * ***
6802 ATTATGAGATTATAAAACTATTTAAAAAGAGTAATAAGGTTTTTGAAGGAATAAAAGACTATAAA
1 ATTATGAGATTATAAAACTATTTAAAGCGAGTAATAAGGCTTTTGAAGGAAT-GGTGACTATAAA
** * * *
6867 TTAACTTTTCTTGCCAATGAATGCTTATTTTATCACATTTCTTGAGGTAGACACTCAATTATAGT
65 TGGACTTTTCTTGCCAATGAATGCTT-TTCT-TCACGTTTCTTGAGGTAGACATTCAATTATAGT
* * * *
6932 CTGTTTTAAAGAAAAATATATAAAAATTCAACTTAAAATCA
128 CTGTTTTAACGAAAAATGTA-AAAAATTGAACCTAAAATCA
* ** * * * *
6973 ATTATAAGATTATAATGCCT-TTTAAAGCGAGGACTAAGGTTTTTAAAGGAATGAGTGACTATAA
1 ATTATGAGATTATAA-AACTATTTAAAGCGAGTAATAAGGCTTTTGAAGGAATG-GTGACTATAA
* * * * *
7037 ATGAACTTTTCTTGCTAATGAATGTTATTTCCTTCACATTTCTTGAGGTAAACATTCAATTATAG
64 ATGGACTTTTCTTGCCAATGAATGCT-TTT-CTTCACGTTTCTTGAGGTAGACATTCAATTATAG
* * *
7102 TCTGTTTTAATGAAAAATGTAAAAAAATTGAACTTGAAATCA
127 TCTGTTTTAACGAAAAATGT-AAAAAATTGAACCTAAAATCA
* *
7144 ATTATGAGATTATAAAA-TCATTTAAAGCGAGTAATAAGGCTTTTGAAAGAATGAGAGACTATAA
1 ATTATGAGATTATAAAACT-ATTTAAAGCGAGTAATAAGGCTTTTGAAGGAATG-GTGACTATAA
** * * * *** *** * *
7208 ATAAACTTTT-TTACAAATAAATAAGTTTCTTACACGTTTCCCAAGGGA-AGCATTTAATTATAG
64 ATGGACTTTTCTTGCCAATGAATGCTTTTCTT-CACGTTTCTTGAGGTAGA-CATTCAATTATAG
** * *
7271 TCTGTTTTAATAAAAAATGTAAAAAATTCAACCGAAAATCA
127 TCTGTTTTAACGAAAAATGTAAAAAATTGAACCTAAAATCA
* * * **
7312 ATTATGAGATTATAAAACCATTTAAAGCGAGTAATAAGCCTTTTGAAAGAATAGGTGACTATAGT
1 ATTATGAGATTATAAAACTATTTAAAGCGAGTAATAAGGCTTTTGAAGGAAT-GGTGACTATAAA
* * *** * *
7377 TAGACTTTTCTTGCCAATGAATGCCTTTTTCTTCATGTTTCACAAGGTAGACATTTAAATATAGT
65 TGGACTTTTCTTGCCAATGAATG-C-TTTTCTTCACGTTTCTTGAGGTAGACATTCAATTATAGT
* *
7442 CTGTTTTAACTAAAAATGTAAAAAAGATTG-ACCATAAAATTA
128 CTGTTTTAACGAAAAATGT-AAAAA-ATTGAACC-TAAAATCA
* * * **********
7484 ATTTTGAGATAATAAAACCATTTAANNNNNNNNNNAAGGCTTTTGAAGGAATGAGTGACTATAAA
1 ATTATGAGATTATAAAACTATTTAAAGCGAGTAATAAGGCTTTTGAAGGAATG-GTGACTATAAA
* * * * *
7549 TGAAACTTTCCTAT--TAATGAATGCCTTTTTCTTTATGTTTCTTGAGGTAGACAATT-AATTAT
65 TG-GACTTTTCT-TGCCAATGAATG-C-TTTTCTTCACGTTTCTTGAGGTAGAC-ATTCAATTAT
** *
7611 AGTCTACTTTAACTAAAAAT
125 AGTCTGTTTTAACGAAAAAT
7631 NNNNNNNNNN
Statistics
Matches: 968, Mismatches: 165, Indels: 71
0.80 0.14 0.06
Matches are distributed among these distances:
168 86 0.09
169 122 0.13
170 218 0.23
171 406 0.42
172 125 0.13
173 10 0.01
174 1 0.00
ACGTcount: A:0.38, C:0.12, G:0.14, T:0.35
Consensus pattern (167 bp):
ATTATGAGATTATAAAACTATTTAAAGCGAGTAATAAGGCTTTTGAAGGAATGGTGACTATAAAT
GGACTTTTCTTGCCAATGAATGCTTTTCTTCACGTTTCTTGAGGTAGACATTCAATTATAGTCTG
TTTTAACGAAAAATGTAAAAAATTGAACCTAAAATCA
Found at i:6971 original size:341 final size:337
Alignment explanation
Indices: 6292--7615 Score: 1228
Period size: 341 Copynumber: 3.9 Consensus size: 337
6282 NNNNNNNNNN
* *
6292 ATTATGAGATTATAAAACTATTTAAAGCAAGTAATAAGGCTTTTGAAGGAATG-GTGACTATAAA
1 ATTATGAGATTATAAAACTATTTAAAGCGAGTAACAAGGCTTTTGAAGGAATGAGTGACTATAAA
* * * * * * * * * *
6356 TGGAATTTTTTTTCTCAATGAATGGTGTTTC-TAATGTTTCCTGAGGCAGACATTCAATTATCGT
66 TAGACTTTTCTTGC-CAATGAAT-GTTTTTCTTCATATTTCTTGAGGTAGACATTCAATTATAGT
* ** * ** * *
6420 CTGTTTTAATGAAGAATGCAAAACAATTTTACTTAAAAAT-AATTATGAGATTATAAAACCAATT
129 CTGTTTTAATGAAAAATATAAAAAAATTGAACCT-AAAATCAATTATGAGATTATAAAACCATTT
* * * * **
6484 AAAGCGAGTAATAAGGCTTTTGCAGGAATAGGTGGCTATAAATGGACTTTTCTTGCCAATGAATG
193 AAAGCGAGTAATAAGGCTTTTGAAGGAATAAGAGACTATAAATAAACTTTTCTTGCCAATGAATG
* * * * * *
6549 CCTTGTCT-TCACGTTTCTTGAGGTAGACATTTAATTATACTATGTTTTAACCAATAATGTGCAA
258 -CTTTTTTATCACGTTTCTTGAGGTAGACATTTAATTATAGTCTGTTTTAA-AAAAAATGT--AA
* *
6613 AACATTGAACCTAAAATCA
319 AAAATTCAACCTAAAATCA
* * * *
6632 ATTATCAGATTATAAAACTATTTAAAGCCAGTAACAAGGCTTTTGATGGAATGAGAGACTATAAA
1 ATTATGAGATTATAAAACTATTTAAAGCGAGTAACAAGGCTTTTGAAGGAATGAGTGACTATAAA
* * * *
6697 TATG-CTTTTCTTGCCACTGAATGCTTTTTTTTCATATTGCTTGAGGTAGACATTCAATTATGGT
66 TA-GACTTTTCTTGCCAATGAATG-TTTTTCTTCATATTTCTTGAGGTAGACATTCAATTATAGT
* *
6761 CTGTTTTAACT-AAAAATATAAACAAATTGAACCTAAAATCAATTATGAGATTATAAAACTATTT
129 CTGTTTTAA-TGAAAAATATAAAAAAATTGAACCTAAAATCAATTATGAGATTATAAAACCATTT
** * * *
6825 AAAAAGAGTAATAAGGTTTTTGAAGGAATAAAAGACTATAAATTAACTTTTCTTGCCAATGAATG
193 AAAGCGAGTAATAAGGCTTTTGAAGGAATAAGAGACTATAAATAAACTTTTCTTGCCAATGAATG
* * * *
6890 CTTATTTTATCACATTTCTTGAGGTAGACACTCAATTATAGTCTGTTTTAAAGAAAAATATATAA
258 CTT-TTTTATCACGTTTCTTGAGGTAGACATTTAATTATAGTCTGTTTTAAA-AAAAATGTA-AA
*
6955 AAATTCAACTTAAAATCA
320 AAATTCAACCTAAAATCA
* ** * * *
6973 ATTATAAGATTATAATGCCT-TTTAAAGCGAG-GACTAAGGTTTTTAAAGGAATGAGTGACTATA
1 ATTATGAGATTATAA-AACTATTTAAAGCGAGTAAC-AAGGCTTTTGAAGGAATGAGTGACTATA
* * *
7036 AAT-GAACTTTTCTTGCTAATGAATGTTATTTCCTTCACATTTCTTGAGGTAAACATTCAATTAT
64 AATAG-ACTTTTCTTGCCAATGAATGTT-TTT-CTTCATATTTCTTGAGGTAGACATTCAATTAT
* * * *
7100 AGTCTGTTTTAATGAAAAATGTAAAAAAATTGAACTTGAAATCAATTATGAGATTATAAAATCAT
126 AGTCTGTTTTAATGAAAAATATAAAAAAATTGAACCTAAAATCAATTATGAGATTATAAAACCAT
* * * * *
7165 TTAAAGCGAGTAATAAGGCTTTTGAAAGAATGAGAGACTATAAATAAACTTTT-TTACAAATAAA
191 TTAAAGCGAGTAATAAGGCTTTTGAAGGAATAAGAGACTATAAATAAACTTTTCTTGCCAATGAA
* *** *
7229 TAAG-TTTCTTA-CACGTTTCCCAAGGGA-AGCATTTAATTATAGTCTGTTTTAATAAAAAATGT
256 T--GCTTTTTTATCACGTTTCTTGAGGTAGA-CATTTAATTATAGTCTGTTTTAA-AAAAAATGT
*
7291 AAAAAATTCAACCGAAAATCA
317 AAAAAATTCAACCTAAAATCA
* * * * *
7312 ATTATGAGATTATAAAACCATTTAAAGCGAGTAATAAGCCTTTTGAAAGAAT-AGGTGACTATAG
1 ATTATGAGATTATAAAACTATTTAAAGCGAGTAACAAGGCTTTTGAAGGAATGA-GTGACTATAA
* * *** * *
7376 TTAGACTTTTCTTGCCAATGAATGCCTTTTTCTTCATGTTTCACAAGGTAGACATTTAAATATAG
65 ATAGACTTTTCTTGCCAATGAATG--TTTTTCTTCATATTTCTTGAGGTAGACATTCAATTATAG
* * * *
7441 TCTGTTTTAACT-AAAAATGTAAAAAAGATTG-ACCATAAAATTAATTTTGAGATAATAAAACCA
128 TCTGTTTTAA-TGAAAAATATAAAAAA-ATTGAACC-TAAAATCAATTATGAGATTATAAAACCA
********** * * * *
7504 TTTAANNNNNNNNNNAAGGCTTTTGAAGGAATGAGTGACTATAAATGAAACTTTCCTAT--TAAT
190 TTTAAAGCGAGTAATAAGGCTTTTGAAGGAATAAGAGACTATAAAT-AAACTTTTCT-TGCCAAT
* * *
7567 GAATGCCTTTTTCT-TTATGTTTCTTGAGGTAGACAATTAATTATAGTCT
253 GAATG-CTTTTT-TATCACGTTTCTTGAGGTAGACATTTAATTATAGTCT
7616 ACTTTAACTA
Statistics
Matches: 802, Mismatches: 144, Indels: 74
0.79 0.14 0.07
Matches are distributed among these distances:
338 2 0.00
339 141 0.18
340 180 0.22
341 270 0.34
342 206 0.26
343 3 0.00
ACGTcount: A:0.38, C:0.11, G:0.15, T:0.35
Consensus pattern (337 bp):
ATTATGAGATTATAAAACTATTTAAAGCGAGTAACAAGGCTTTTGAAGGAATGAGTGACTATAAA
TAGACTTTTCTTGCCAATGAATGTTTTTCTTCATATTTCTTGAGGTAGACATTCAATTATAGTCT
GTTTTAATGAAAAATATAAAAAAATTGAACCTAAAATCAATTATGAGATTATAAAACCATTTAAA
GCGAGTAATAAGGCTTTTGAAGGAATAAGAGACTATAAATAAACTTTTCTTGCCAATGAATGCTT
TTTTATCACGTTTCTTGAGGTAGACATTTAATTATAGTCTGTTTTAAAAAAAATGTAAAAAATTC
AACCTAAAATCA
Found at i:8033 original size:170 final size:170
Alignment explanation
Indices: 7748--8064 Score: 451
Period size: 170 Copynumber: 1.9 Consensus size: 170
7738 TTAAATGATT
* *
7748 TTATAATCTCATAATTGATTTCAAGTTCAATTTTTTTTACATTTTTCTTTAAAACAGACTATAAT
1 TTATAATCTCATAATTGATTTCAAGTTCAATTTTTTATACATTTTTCATTAAAACAGACTATAAT
* * * * *
7813 TGAATGTTTACCTTAAGAAATGTGAAGGAAATAACTTTCATTAGCAAGAAAAGTTCATTTATAGT
66 TGAATGTCTACCTCAAGAAAGGTGAA-GAAATAACATTCATTAGCAAGAAAAGTTAATTTATAGT
7878 CACTCATTCCTTCAAAAGCCTAGTCCCCGCTTTAAAAGGCA
130 CACTCATTCCTTCAAAAGCCTAGTCCCCGCTTTAAAAGGCA
* * *
7919 TTATAATCTTATAATTGATTTTAAGTTGAA-TTTTTATACATTTTTCATTAAAACAGACTATAAT
1 TTATAATCTCATAATTGATTTCAAGTTCAATTTTTTATACATTTTTCATTAAAACAGACTATAAT
*
7983 TGAGTGTCTACCTCAAGAAAGGTGATA-AAATAAGCATTCATT-GACAAGAAAAGTTAATTTATA
66 TGAATGTCTACCTCAAGAAAGGTGA-AGAAATAA-CATTCATTAG-CAAGAAAAGTTAATTTATA
** *
8046 GTCTTTTATTCCTTCAAAA
128 GTCACTCATTCCTTCAAAA
8065 ACCTTATTAC
Statistics
Matches: 129, Mismatches: 14, Indels: 7
0.86 0.09 0.05
Matches are distributed among these distances:
169 7 0.05
170 94 0.73
171 28 0.22
ACGTcount: A:0.37, C:0.14, G:0.11, T:0.38
Consensus pattern (170 bp):
TTATAATCTCATAATTGATTTCAAGTTCAATTTTTTATACATTTTTCATTAAAACAGACTATAAT
TGAATGTCTACCTCAAGAAAGGTGAAGAAATAACATTCATTAGCAAGAAAAGTTAATTTATAGTC
ACTCATTCCTTCAAAAGCCTAGTCCCCGCTTTAAAAGGCA
Found at i:8588 original size:171 final size:168
Alignment explanation
Indices: 8290--8866 Score: 658
Period size: 171 Copynumber: 3.4 Consensus size: 168
8280 NNNNNNNNNN
* **
8290 AAACAGACTGTAATTGAATGTCTACCTCAAGAAACGTGAAGAAAAAAGCATTCAGTGTTAAGAAA
1 AAACAGACTATAATTGAATGTCTACCTCAAGAAACGTGAAG-AAAAAGCATTCAGTGGCAAGAAA
* * * * * * * **
8355 ATTCTATTTATAGTCTC-CTACTCTTTCAAAAGCCTTAATCCTCGCTTTAAAAGGCATTATAATC
65 GTTCAATTTATAGTCTCTC-ATTCCTTCAAAAGCCTTATTACTCGCTTTAAATGGTTTTATAATC
* * * *
8419 TTATAATTGATTTTAAGTTTAATTTTTATATATGTTTTGTTA
129 TCATAATTGATTTTAGGTTCAATTTTT-TACAT-TTTTGTTA
* * * *
8461 AAACAGACTATAATTGAATGTTTACCTTAAGAAACGTGATA-AAATAAGTATTCATTGGCAAGAA
1 AAACAGACTATAATTGAATGTCTACCTCAAGAAACGTGA-AGAAA-AAGCATTCAGTGGCAAGAA
*
8525 AGTTCAATTTATAGTCTCTCATTCCTTCAAAAGCCTTATTACTCGTTTTAAATGGTTTTATAATC
64 AGTTCAATTTATAGTCTCTCATTCCTTCAAAAGCCTTATTACTCGCTTTAAATGGTTTTATAATC
8590 TCATAATTGATTTTAGGTTCAATTTGTTTACATTTTTAGTTA
129 TCATAATTGATTTTAGGTTCAATTT-TTTACATTTTT-GTTA
* * **
8632 AAACAGACCATAATTGAATGTCTACCTCAAGCAATATGAAGAAAAAGCATTCAGTGGCAAGAAAA
1 AAACAGACTATAATTGAATGTCTACCTCAAGAAACGTGAAGAAAAAGCATTCAGTGGCAAG-AAA
* * * *
8697 G--CATATTTATAGTCTCTCATTCCGTCGAAAGCCTTGTTACTCGCTTTAAATAGTTTTATAATC
65 GTTCA-ATTTATAGTCTCTCATTCCTTCAAAAGCCTTATTACTCGCTTTAAATGGTTTTATAATC
* *
8760 TCATAATTGATTTTGGGTTCAATGTTTTTTACATTATTGGTTA
129 TCATAATTGATTTTAGGTTCAA--TTTTTTACATT-TTTGTTA
* * * * * * * *
8803 AAACAGAGTATAATTAAATGTTTACCTTAAGAAACATGAAGACAAGGCATTCATTGGCAAGAAA
1 AAACAGACTATAATTGAATGTCTACCTCAAGAAACGTGAAGAAAAAGCATTCAGTGGCAAGAAA
8867 AGTCCATTTA
Statistics
Matches: 349, Mismatches: 46, Indels: 23
0.83 0.11 0.06
Matches are distributed among these distances:
169 2 0.01
170 101 0.29
171 237 0.68
172 9 0.03
ACGTcount: A:0.36, C:0.14, G:0.14, T:0.37
Consensus pattern (168 bp):
AAACAGACTATAATTGAATGTCTACCTCAAGAAACGTGAAGAAAAAGCATTCAGTGGCAAGAAAG
TTCAATTTATAGTCTCTCATTCCTTCAAAAGCCTTATTACTCGCTTTAAATGGTTTTATAATCTC
ATAATTGATTTTAGGTTCAATTTTTTACATTTTTGTTA
Done.