Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_018399159.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_2432.0, 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: 6623
ACGTcount: A:0.33, C:0.12, G:0.12, T:0.30
Warning! 888 characters in sequence are not A, C, G, or T
Found at i:585 original size:172 final size:170
Alignment explanation
Indices: 388--720 Score: 409
Period size: 172 Copynumber: 1.9 Consensus size: 170
378 TAAGCTGCTG
* *
388 AAGGCATGGGTAACTATAAATGGACTTTCCTTACTAATGAATGAC-TTTTTCCTCAAGTTTCCCA
1 AAGGCATGGGTAACTATAAATGGACTTTCCTTACCAATG-ATAACGTTTTTCCTCAAGTTTCCCA
* * * * *
452 AGGTAGACTTTCAATTATAATCTGTTTTAAC-AAAACATATAAAAAAAATTCAACATAAAATGAA
65 AGGAAGACATTCAATTATAATATATTTTAACTAAAA-ATAT--AAAAAATTCAACATAAAATCAA
* *
516 TTATGAGATTATAAAACGATTTAAAGCGAGCAATAAGGTTTTCA
127 TTATAAGATTATAAAACCATTTAAAGCGAGCAATAAGGTTTTCA
* * * * * * ** *
560 AAGGTATGGGTGACTATAAATGGACTTTTCTTGCCAATGATAACGTTTTTCTTCAGGTTTCTTAG
1 AAGGCATGGGTAACTATAAATGGACTTTCCTTACCAATGATAACGTTTTTCCTCAAGTTTCCCAA
* * *
625 GGAAGACATTCAATTATAATATATTTTCACTAAAAATGTAAAAAATTCAATATAAAATCAATTAT
66 GGAAGACATTCAATTATAATATATTTTAACTAAAAATATAAAAAATTCAACATAAAATCAATTAT
* *
690 AAGATTATAAAACCATTTAAAGTGAGTAATA
131 AAGATTATAAAACCATTTAAAGCGAGCAATA
721 NNNNNNNNNN
Statistics
Matches: 136, Mismatches: 23, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
170 51 0.38
171 4 0.03
172 77 0.57
173 4 0.03
ACGTcount: A:0.41, C:0.12, G:0.14, T:0.34
Consensus pattern (170 bp):
AAGGCATGGGTAACTATAAATGGACTTTCCTTACCAATGATAACGTTTTTCCTCAAGTTTCCCAA
GGAAGACATTCAATTATAATATATTTTAACTAAAAATATAAAAAATTCAACATAAAATCAATTAT
AAGATTATAAAACCATTTAAAGCGAGCAATAAGGTTTTCA
Found at i:1348 original size:170 final size:170
Alignment explanation
Indices: 1064--1823 Score: 744
Period size: 170 Copynumber: 4.5 Consensus size: 170
1054 NNNNNNNNNN
* * * * * * * * **
1064 TTTAAAGCGAGTAATTAGGCTTTCGAAGGCTTGAGTGACTAGAAATAGACTTTTCTTGTTAATGA
1 TTTAAAGTGAGTAATAAGGCTATCAAAGGCATGGGTAACTAGAAATGGACTTTTCTTGCCAATGA
* * * * *
1129 AAGGCTTTTTCTTCACGTTTCCTAAGGCAGATATTCAATTATAATCTGTTTTAGCTAAAAATGTA
66 ATGCCTTTTTCTTCACGTTTCTTAAGACAGATATTCAATTATAATCTGTTTTAACTAAAAATGTA
* **********
1194 AAAAATTTANNNNNNNNNNAATTATGAGATTATAAAACCA
131 AAAAATTCAACTTAAAATCAATTATGAGATTATAAAACCA
* * * *
1234 TTTAAAGTGTGTAATAAGGCTATCAAAGGCATGGGTGACCATAAATGGACTTTTCTTGCCAATGA
1 TTTAAAGTGAGTAATAAGGCTATCAAAGGCATGGGTAACTAGAAATGGACTTTTCTTGCCAATGA
* * * * *
1299 TTGCCCTTTTCTTCACATTTCTTGAGGCAG-TCATTCAATTATAATCTGTTTTAACTAAAAA--T
66 ATGCCTTTTTCTTCACGTTTCTTAAGACAGAT-ATTCAATTATAATCTGTTTTAACTAAAAATGT
*
1361 AAAATAATTCAACTTAAAATCAATTATGAAATTATAAAACCA
130 AAAA-AATTCAACTTAAAATCAATTATGAGATTATAAAACCA
* * * * * * * *
1403 TTTAAAATGAGTAATTAGGCTTTTGAAA-GCATAGGTAACTAGAAATGTACCTTTCTTGCCAACG
1 TTTAAAGTGAGTAATAAGGC-TATCAAAGGCATGGGTAACTAGAAATGGACTTTTCTTGCCAATG
* * * * *
1467 AATG-GTTGTTTCTTCACGTTTCTTGAGACAGACATTCAATTATAATCTGTTTTAACCAAAAAGG
65 AATGCCTT-TTTCTTCACGTTTCTTAAGACAGATATTCAATTATAATCTGTTTTAACTAAAAATG
*
1531 TAAAAAAATTCAACCTAAAATCAATTATGAGATTATAAAACCA
129 T-AAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACCA
* * * * * *
1574 TCTAAAGTGAGTAATTAGGCTTTCGAAGG-ATTGAGTAACTAGAAATGGGCTTTTCTTGCCAATG
1 TTTAAAGTGAGTAATAAGGCTATCAAAGGCA-TGGGTAACTAGAAATGGACTTTTCTTGCCAATG
* * * * * *
1638 AACGGCTTTTTCTAT-ACGTTTCTTAAGACAGATATTCAATTGTAATCTGTTTTAGCAAAAAATA
65 AATGCCTTTTTCT-TCACGTTTCTTAAGACAGATATTCAATTATAATCTGTTTTAACTAAAAATG
1702 TAAAAAATTCAACTTAAATAT-AATTATGAGATTATAAAACCA
129 TAAAAAATTCAACTTAAA-ATCAATTATGAGATTATAAAACCA
* * * * * * * **
1744 TTTAAAGCGCGTAGTAAGGCTATAAAAGGCATGGGTGACTATAAATAGACTTTTCTTGCCTCTGA
1 TTTAAAGTGAGTAATAAGGCTATCAAAGGCATGGGTAACTAGAAATGGACTTTTCTTGCCAATGA
*
1809 CTGCCTTTTTCTTCA
66 ATGCCTTTTTCTTCA
1824 ATTATAATCT
Statistics
Matches: 484, Mismatches: 91, Indels: 30
0.80 0.15 0.05
Matches are distributed among these distances:
168 6 0.01
169 125 0.26
170 210 0.43
171 136 0.28
172 7 0.01
ACGTcount: A:0.36, C:0.14, G:0.15, T:0.34
Consensus pattern (170 bp):
TTTAAAGTGAGTAATAAGGCTATCAAAGGCATGGGTAACTAGAAATGGACTTTTCTTGCCAATGA
ATGCCTTTTTCTTCACGTTTCTTAAGACAGATATTCAATTATAATCTGTTTTAACTAAAAATGTA
AAAAATTCAACTTAAAATCAATTATGAGATTATAAAACCA
Found at i:1848 original size:148 final size:148
Alignment explanation
Indices: 1672--1971 Score: 381
Period size: 148 Copynumber: 2.0 Consensus size: 148
1662 AAGACAGATA
* * * *
1672 TTCAATTGTAATCTGTTTTAGCAAAAAATATAAAAAATTCAACTTAAATAT-AATTATGAGATTA
1 TTCAATTATAATCTGTTTTAACAAAAAATATAAAAAATTCAACATAAA-ATCAATTATGAGATAA
* * * ** *
1736 TAAAACCATTTAAAGCGCGTAGTAAGGCTATAAAAGGCATGGGTGACTATAAAT-AGACTTTTCT
65 CAAAACCATTTAAAGCGAGTAATAAGGCTATAAAAGGCAAAGGTGACCATAAATGA-ACTTTTCT
*
1800 TGCCTCTGACT-GCCTTTTTC
129 TGCCACTGA-TAGCCTTTTTC
* * *
1820 TTCAATTATAATCTGTTTTAACTAAAAATGTAAAAAATTCAACATAAAATCAATTATTAGATAAC
1 TTCAATTATAATCTGTTTTAACAAAAAATATAAAAAATTCAACATAAAATCAATTATGAGATAAC
* * * *
1885 AAAACTATTTAAAGTGAGTAATAAGGCTTTCAAAGGCAAAGGTGACCATAAATGAACTTTTCTTG
66 AAAACCATTTAAAGCGAGTAATAAGGCTATAAAAGGCAAAGGTGACCATAAATGAACTTTTCTTG
*
1950 CCAGTGATAGCCTTTTTC
131 CCACTGATAGCCTTTTTC
1968 TTCA
1 TTCA
1972 TGTTTCTTGT
Statistics
Matches: 130, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
147 3 0.02
148 126 0.97
149 1 0.01
ACGTcount: A:0.39, C:0.14, G:0.13, T:0.34
Consensus pattern (148 bp):
TTCAATTATAATCTGTTTTAACAAAAAATATAAAAAATTCAACATAAAATCAATTATGAGATAAC
AAAACCATTTAAAGCGAGTAATAAGGCTATAAAAGGCAAAGGTGACCATAAATGAACTTTTCTTG
CCACTGATAGCCTTTTTC
Found at i:2057 original size:489 final size:488
Alignment explanation
Indices: 1332--2241 Score: 1185
Period size: 489 Copynumber: 1.9 Consensus size: 488
1322 GAGGCAGTCA
* * *
1332 TTCAATTATAATCTGTTTTAACTAAAAATAAAATAATTCAACTTAAAATCAATTATGAAATTATA
1 TTCAATTATAATCTGTTTTAACTAAAAATAAAATAATTCAACATAAAATCAATTATGAAATAACA
* * * * *
1397 AAACCATTTAAAATGAGTAATTAGGCTTTTGAAAGCATAGGTAACTAGAAATGTACCTTTCTTGC
66 AAACCATTTAAAATGAGTAATAAGGCTTTTCAAAGCAAAGGTAACCAGAAATGAACCTTTCTTGC
* * *
1462 CAACGAATGGTTGTTTCTTCACGTTTCTTGAGACAGACATTCAATTATAATCTGTTTTAACCAAA
131 CAACGAATGCTTGTTTCTTCACGTTTCTTGAGACAGACATTCAATTATAACCTATTTTAACCAAA
* *
1527 AAGGTAAAAAAATTCAACCTAAAATCAATTATGAGATTATAAAACCATCTAAAGTGAGTAATTAG
196 AAGGTAAAAAAATTCAACCTAAAATCAATTATGAGATTATAAAACCATCTAAAGCGACTAATTAG
* * *
1592 GCTTTCGA-AGGATTGAGTAACTAGAAATGGGCTTTTCTTGCCAATGAACG-GCTTTTTCTAT-A
261 GCTTTCGAGAGCA-TGAGTAACTAGAAATGGACCTTTCTTGCCAATGAA-GTGCTTTTT-T-TCA
* * * * *
1654 CGTTTCTTAAGACAGATATTCAATTGTAATCTGTTTTAGCAAAAAATATAAAAA-A-TTCAACTT
322 CATTTCTTAAGACAGACATTCAATTATAATCTGTTTTAACAAAAAATATAAAAATATTTAAAC-T
*
1717 AAATAT-AATTATGAGATTATAAAACCATTTAAAGCGCGTAGTAAGGCTATAAAAGGCATGGGTG
386 AAA-ATCAATTATAAGATTATAAAACCATTTAAAGCGCGTAGTAAGGCTATAAAAGGCATGGGTG
1781 ACTATAAATAGACTTTTCTTGCCTCTGACTGCCTTTTTC
450 ACTATAAATAGACTTTTCTTGCCTCTGACTGCCTTTTTC
* *
1820 TTCAATTATAATCTGTTTTAACTAAAAATGTAAAA-AATTCAACATAAAATCAATTATTAGATAA
1 TTCAATTATAATCTGTTTTAACTAAAAA--TAAAATAATTCAACATAAAATCAATTATGAAATAA
* * * * *
1884 CAAAACTATTTAAAGTGAGTAATAAGGC-TTTCAAAGGCAAAGGTGACCATAAATGAACTTTTCT
64 CAAAACCATTTAAAATGAGTAATAAGGCTTTTCAAA-GCAAAGGTAACCAGAAATGAACCTTTCT
** * * *
1948 TGCCAGTG-ATAGCCTT-TTTCTTCATGTTTCTTGTGGCA-ATCATTCAATTATAACCTATTTTA
128 TGCCAACGAAT-G-CTTGTTTCTTCACGTTTCTTGAGACAGA-CATTCAATTATAACCTATTTTA
* * * * * * *
2010 ACTAGAAATGTAAAACAATTCTACCTAAAATCAATTATGATATTATAAAACCATTTAAAGCGACT
190 ACCAAAAAGGTAAAAAAATTCAACCTAAAATCAATTATGAGATTATAAAACCATCTAAAGCGACT
* * * *
2075 AATTAGGCTTTTGAGAGCATGGGTAACTATAAATGGACCTTTCTTGCTAATGAAGTGCTTTTTTT
255 AATTAGGCTTTCGAGAGCATGAGTAACTAGAAATGGACCTTTCTTGCCAATGAAGTGCTTTTTTT
* * ** *
2140 CACATTTTTTGAGGTAGACATTCAATTATAATCTGTTTTAATAAAAAATATAAAAATATTTAAAC
320 CACATTTCTTAAGACAGACATTCAATTATAATCTGTTTTAACAAAAAATATAAAAATATTTAAAC
2205 TAAAATCAATTATAAGATTATAAAACCATTTAAAGCG
385 TAAAATCAATTATAAGATTATAAAACCATTTAAAGCG
2242 AGTGATTAGA
Statistics
Matches: 360, Mismatches: 50, Indels: 23
0.83 0.12 0.05
Matches are distributed among these distances:
487 1 0.00
488 87 0.24
489 257 0.71
490 15 0.04
ACGTcount: A:0.39, C:0.14, G:0.13, T:0.35
Consensus pattern (488 bp):
TTCAATTATAATCTGTTTTAACTAAAAATAAAATAATTCAACATAAAATCAATTATGAAATAACA
AAACCATTTAAAATGAGTAATAAGGCTTTTCAAAGCAAAGGTAACCAGAAATGAACCTTTCTTGC
CAACGAATGCTTGTTTCTTCACGTTTCTTGAGACAGACATTCAATTATAACCTATTTTAACCAAA
AAGGTAAAAAAATTCAACCTAAAATCAATTATGAGATTATAAAACCATCTAAAGCGACTAATTAG
GCTTTCGAGAGCATGAGTAACTAGAAATGGACCTTTCTTGCCAATGAAGTGCTTTTTTTCACATT
TCTTAAGACAGACATTCAATTATAATCTGTTTTAACAAAAAATATAAAAATATTTAAACTAAAAT
CAATTATAAGATTATAAAACCATTTAAAGCGCGTAGTAAGGCTATAAAAGGCATGGGTGACTATA
AATAGACTTTTCTTGCCTCTGACTGCCTTTTTC
Found at i:2227 original size:170 final size:170
Alignment explanation
Indices: 1820--3568 Score: 1554
Period size: 171 Copynumber: 10.2 Consensus size: 170
1810 TGCCTTTTTC
* *
1820 TTCAATTATAATCTGTTTTAACTAAAAATGTAAAAAATTC-AACATAAAATCAATTATTAGATAA
1 TTCAATTATAATCTGTTTTAA-TAAAAATGTAAAAAATTCAAAC-TAAAATCAATTATGAGATTA
* * * * * ** * * *
1884 CAAAACTATTTAAAGTGAGTAATAAGGC-TTTCAAAGGCAAAGGTGACCATAAATGAACTTTTCT
64 TAAAACCATTTAAAGCGAGTAATTAGGCTTTTGAAAGGCATGGGTAACTATAAATGGACTTTTCT
* * * * * *
1948 TGCCAGTG-ATAGCCTTTTTCTTCATGTTTCTTGTGGCA-ATCA
129 TGCCAATGAAT-GGCTTTTTCTTCACGTTTCCTGAGGTAGA-CA
* * * * * *
1990 TTCAATTATAACCTATTTTAACTAGAAATGTAAAACAATTCTACCTAAAATCAATTATGATATTA
1 TTCAATTATAATCTGTTTTAA-TAAAAATGTAAAA-AATTCAAACTAAAATCAATTATGAGATTA
* * *
2055 TAAAACCATTTAAAGCGACTAATTAGGCTTTTGAGA-GCATGGGTAACTATAAATGGACCTTTCT
64 TAAAACCATTTAAAGCGAGTAATTAGGCTTTTGAAAGGCATGGGTAACTATAAATGGACTTTTCT
* * **
2119 TGCTAATGAA-GTGCTTTTT-TTCACATTTTTTGAGGTAGACA
129 TGCCAATGAATG-GCTTTTTCTTCACGTTTCCTGAGGTAGACA
* * *
2160 TTCAATTATAATCTGTTTTAATAAAAAATATAAAAATATTTAAACTAAAATCAATTATAAGATTA
1 TTCAATTATAATCTGTTTTAAT-AAAAATGTAAAAA-ATTCAAACTAAAATCAATTATGAGATTA
* * * * * * *
2225 TAAAACCATTTAAAGCGAGTGATTAGACTTTCG-AAGGCTTGGGTGACTAGAAATGGATTTTTCT
64 TAAAACCATTTAAAGCGAGTAATTAGGCTTTTGAAAGGCATGGGTAACTATAAATGGACTTTTCT
* * * * ** * *
2289 TGCCAATAAATAGCTTTTTCTTTACGTTTCTTGATATCGATA
129 TGCCAATGAATGGCTTTTTCTTCACGTTTCCTGAGGTAGACA
* ** * * *
2331 TTCAATTATAATTTGTTTTAACCAAAATGTAAAAAAATC-AACTTAAATTTAATTATGAGATTAT
1 TTCAATTATAATCTGTTTTAATAAAAATGTAAAAAATTCAAAC-TAAAATCAATTATGAGATTAT
* * * * *
2395 AAAACCATTTGAAGC-ATGTAA-TAAGCCTTTGAAAGGCATGGGTGACTATAAATGGACTTTTGT
65 AAAACCATTTAAAGCGA-GTAATTAGGCTTTTGAAAGGCATGGGTAACTATAAATGGACTTTTCT
** * * *
2458 TGCCAATG-ATAACCTTTTTCCTCACATTTCCTGAGGTAAACA
129 TGCCAATGAAT-GGCTTTTTCTTCACGTTTCCTGAGGTAGACA
* * *
2500 TTCAATTATAATCTGTTTTTACAGAAAATG-AAAAAACTTCAACCTAAAATCAATTATGAGATTA
1 TTCAATTATAATCTGTTTTAATA-AAAATGTAAAAAA-TTCAAACTAAAATCAATTATGAGATTA
* * * * * *
2564 TAAAACTATTTGAAGCGAGTAATTATGATTTTG-AAGGCATGGGTAAATATAAATGGACTTTTTT
64 TAAAACCATTTAAAGCGAGTAATTAGGCTTTTGAAAGGCATGGGTAACTATAAATGGAC-TTTTC
* * ** * * * *
2628 TTACCAAAGAATATCTTTTTCTTAATGTTTCCCGAGGCAGACA
128 TTGCCAATGAATGGCTTTTTCTTCACGTTTCCTGAGGTAGACA
* * * * * * * *
2671 TTTAATTATAATATGTTTTAACTATATATGTAAAAATAATTCCATCTAAAATCAATTATAACATT
1 TTCAATTATAATCTGTTTTAA-TAAAAATGT-AAAA-AATTCAAACTAAAATCAATTATGAGATT
* * * * * * *
2736 ATAAAATCATTTAAAGTGAGTAACTAAGCTTTT-AAAGGCATGAGCAACTATAAATGGACCTTTC
63 ATAAAACCATTTAAAGCGAGTAATTAGGCTTTTGAAAGGCATGGGTAACTATAAATGGACTTTTC
*
2800 TTGCCAATGAATGGCTTTTCCTTCACGTTTCCTGA-GTGAGACA
128 TTGCCAATGAATGGCTTTTTCTTCACGTTTCCTGAGGT-AGACA
* * * * *
2843 CTCAATTATAATCTGTTTAAACCAAAAATGTAAAACAATTCAACCTAAAATCGATTATGAGATTA
1 TTCAATTATAATCTGTTTTAA-TAAAAATGTAAAA-AATTCAAACTAAAATCAATTATGAGATTA
* * * * * * *
2908 TAAAACCATTTAAAGCGAGTAATTTA-GCTTTCG-AAGGCTTGGGTGACTAGAAATGAAATCTTC
64 TAAAACCATTTAAAGCGAGTAA-TTAGGCTTTTGAAAGGCATGGGTAACTATAAATGGACTTTTC
* * * * *
2971 TTGCCAATGAATGGCTTTTTTTTCACGTCTCTTGAGGCAGATA
128 TTGCCAATGAATGGCTTTTTCTTCACGTTTCCTGAGGTAGACA
*
3014 TTCAATTATAATCTGTTTTAACTAAAAATGTAAACAAATT-AAACCAAAAATCAATTATGAGATT
1 TTCAATTATAATCTGTTTTAA-TAAAAATGTAAA-AAATTCAAA-CTAAAATCAATTATGAGATT
* * *
3078 ATAACACCATTTAAAGCGAGTAATTAAGCTTTT-AAAGGCATGAGTAACTATAAATGGACTTTTC
63 ATAAAACCATTTAAAGCGAGTAATTAGGCTTTTGAAAGGCATGGGTAACTATAAATGGACTTTTC
* * * * * * * * *
3142 TTACCAACGAGTGACATTTTCCTT-AAGTTTCCTAAGGTCGACT
128 TTGCCAATGAATGGC-TTTTTCTTCACGTTTCCTGAGGTAGACA
* * * * * * **
3185 TTCAATGATAATCTATTTTAACACAATATATAAAAAATTCAATA-TACAATCAATTACAAGATTA
1 TTCAATTATAATCTGTTTTAATA-AAAATGTAAAAAATTCAA-ACTAAAATCAATTATGAGATTA
* * * * * * * * *
3249 TAAAACCATTTAAAGTGAGTAATAAGGC-TTTCAATGACATGGGTGACCATAAACGAACTTTTCT
64 TAAAACCATTTAAAGCGAGTAATTAGGCTTTTGAAAGGCATGGGTAACTATAAATGGACTTTTCT
* * *
3313 TGCTAATG-ATAGCCTTTTTCTTTCACGTTTCCTGAGGTAGTCA
129 TGCCAATGAAT-GGCTTTTTC-TTCACGTTTCCTGAGGTAGACA
* * * *
3356 TTTAATTATAATCTGTTTTAACAAAATATGTAAAAAATTCAACCTAAAATCAATTATGACATTAT
1 TTCAATTATAATCTGTTTTAATAAAA-ATGTAAAAAATTCAAACTAAAATCAATTATGAGATTAT
** * * *
3421 AAAACCATTTAAAATGAGTAATTAGGATTTTGAAA-GCATGGATAACTATAAATGGCCATTTT-T
65 AAAACCATTTAAAGCGAGTAATTAGGCTTTTGAAAGGCATGGGTAACTATAAATGGAC-TTTTCT
* *
3484 TACCAATGAATGGATTTTTCTTCACGTTT-CTAGAGGTAGACA
129 TGCCAATGAATGGCTTTTTCTTCACGTTTCCT-GAGGTAGACA
*
3526 TTCAATTATAATCTGTTTTAATCGAAAATGTAAAAACATTCAA
1 TTCAATTATAATCTGTTTTAAT-AAAAATGTAAAAA-ATTCAA
3569 CNNNNNNNNN
Statistics
Matches: 1264, Mismatches: 264, Indels: 101
0.78 0.16 0.06
Matches are distributed among these distances:
168 12 0.01
169 132 0.10
170 380 0.30
171 572 0.45
172 92 0.07
173 74 0.06
174 2 0.00
ACGTcount: A:0.38, C:0.14, G:0.13, T:0.35
Consensus pattern (170 bp):
TTCAATTATAATCTGTTTTAATAAAAATGTAAAAAATTCAAACTAAAATCAATTATGAGATTATA
AAACCATTTAAAGCGAGTAATTAGGCTTTTGAAAGGCATGGGTAACTATAAATGGACTTTTCTTG
CCAATGAATGGCTTTTTCTTCACGTTTCCTGAGGTAGACA
Found at i:2270 original size:489 final size:492
Alignment explanation
Indices: 1329--3569 Score: 1760
Period size: 512 Copynumber: 4.4 Consensus size: 492
1319 CTTGAGGCAG
* *
1329 TCATTCAATTATAATCTGTTTTAACTAAAAA--TAAAATAATTCAACTTAAAATCAATTATGAAA
1 TCATTCAATTATAATCTGTTTTAACTAAAAATGTAAAACAATTCAACTTAAAATCAATTATGAGA
* * * * * *
1392 TTATAAAACCATTTAAAATGAGTAATTAGGCTTTTGAAA-GCATAGGTAACTAGAAATGTACCTT
66 TTATAAAACCATTTAAAGTGAGTAATAAGGC-TTTCAAAGGCATAGGTGACTAGAAATGAACTTT
* * *
1456 TCTTGCCAACGAATG-GTTGTTTCTTCACGTTTCTTGAGACAGA-CATTCAATTATAATCTGTTT
130 TCTTGCCAATGAATGCCTT-TTTCTTCACGTTTCTTGAGGCAGATCATTCAATTATAATCTGTTT
* * * * *
1519 TAACCAAAAAGGTAAAAAAATTCAACCTAAAATCAATTATGAGATTATAAAACCATCTAAAGTGA
194 TAACTAAAAATGTAAAACAATTCAACCTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGA
* * * *
1584 GTAATTAGGCTTTCGAAGG-ATTGAGTAACTAGAAATGGGCTTTTCTTGCCAATGAACG-GCTTT
259 GTAATTAGGCTTTTGAAGGCA-TGAGTAACTATAAATGGACTTTTCTTACCAATGAA-GTGCTTT
* * * * * *
1647 TTCTATACGTTTCTTAAGACAGATATTCAATTGTAATCTGTTTTAGCAAAAAATATAAAAAATTC
322 TTCT-TA-ATTTCCTAAGGCAGACATTCAATTATAATCTGTTTTAACAAAAAATATAAAAAATTC
* * * * *
1712 -AACTTAAATAT-AATTATGAGATTATAAAACCATTTAAAGCGCGTAGTAAGGCTATAAAAGGCA
385 AAAC-TAAA-ATCAATTATAAGATTATAAAACCATTTAAAGCGAGTA-TTAGACTTTAAAAGGCA
* * *
1775 TGGGTGACTATAAATAGACTTTTCTTGCC-T-CTGAC-TGCCTTTT
447 TGGGTGACTATAAATGGACTTTTCTTGCCATAATGACTTTCCTTTT
* *
1818 TC-TTCAATTATAATCTGTTTTAACTAAAAATGTAAAA-AATTCAACATAAAATCAATTATTAGA
1 TCATTCAATTATAATCTGTTTTAACTAAAAATGTAAAACAATTCAACTTAAAATCAATTATGAGA
* * * * * *
1881 TAACAAAACTATTTAAAGTGAGTAATAAGGCTTTCAAAGGCAAAGGTGACCATAAATGAACTTTT
66 TTATAAAACCATTTAAAGTGAGTAATAAGGCTTTCAAAGGCATAGGTGACTAGAAATGAACTTTT
* * * * *
1946 CTTGCCAGTG-ATAGCCTTTTTCTTCATGTTTCTTGTGGCA-ATCATTCAATTATAACCTATTTT
131 CTTGCCAATGAAT-GCCTTTTTCTTCACGTTTCTTGAGGCAGATCATTCAATTATAATCTGTTTT
* * * *
2009 AACTAGAAATGTAAAACAATTCTACCTAAAATCAATTATGATATTATAAAACCATTTAAAGCGAC
195 AACTAAAAATGTAAAACAATTCAACCTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAG
* * * *
2074 TAATTAGGCTTTTG-AGAGCATGGGTAACTATAAATGGACCTTTCTTGCTAATGAAGTGCTTTTT
260 TAATTAGGCTTTTGAAG-GCATGAGTAACTATAAATGGACTTTTCTTACCAATGAAGTGCTTTTT
** * * * *
2138 -TTCACATTTTTTGAGGTAGACATTCAATTATAATCTGTTTTAATAAAAAATATAAAAATATTTA
324 CTT-A-ATTTCCTAAGGCAGACATTCAATTATAATCTGTTTTAACAAAAAATATAAAAA-ATTCA
** *
2202 AACTAAAATCAATTATAAGATTATAAAACCATTTAAAGCGAGTGATTAGACTTTCGAAGGCTTGG
386 AACTAAAATCAATTATAAGATTATAAAACCATTTAAAGCGAGT-ATTAGACTTTAAAAGGCATGG
* *
2267 GTGACTAGAAATGGATTTTTCTTGCCAATAAAT-AGCTTTTTCTTTACGTTTCTTGAT
450 GTGACTATAAATGGACTTTTCTTGCC-AT-AATGA-C--TTTC----C---T-TT--T
* * * * *
2324 ATCGATATTCAATTATAATTTGTTTTAAC-CAAAATGTAAAA-AAATCAACTTAAATTTAATTAT
1 -TC---ATTCAATTATAATCTGTTTTAACTAAAAATGTAAAACAATTCAACTTAAAATCAATTAT
* * * * * * *
2387 GAGATTATAAAACCATTTGAAG-CATGTAATAAGCCTTTGAAAGGCATGGGTGACTATAAATGGA
62 GAGATTATAAAACCATTTAAAGTGA-GTAATAAGGCTTTCAAAGGCATAGGTGACTAGAAATGAA
* * * * * * *
2451 CTTTTGTTGCCAATG-ATAACCTTTTTCCTCACATTTCCTGAGGTA-AACATTCAATTATAATCT
126 CTTTTCTTGCCAATGAAT-GCCTTTTTCTTCACGTTTCTTGAGGCAGATCATTCAATTATAATCT
* * *
2514 GTTTTTAC-AGAAAATG-AAAA-AACTTCAACCTAAAATCAATTATGAGATTATAAAACTATTTG
190 GTTTTAACTA-AAAATGTAAAACAA-TTCAACCTAAAATCAATTATGAGATTATAAAACCATTTA
* * * * * *
2576 AAGCGAGTAATTATGATTTTGAAGGCATGGGTAAATATAAATGGACTTTTTTTTACCAAAGAA-T
253 AAGCGAGTAATTAGGCTTTTGAAGGCATGAGTAACTATAAATGGAC-TTTTCTTACCAATGAAGT
* ** * * * * * *
2640 ATCTTTTTCTTAATGTTTCCCGAGGCAGACATTTAATTATAATATGTTTTAACTATATATGTAAA
317 -GCTTTTTCTTAA--TTTCCTAAGGCAGACATTCAATTATAATCTGTTTTAACAAAAAATAT-AA
* * * * * * *
2705 AATAATTCCATCTAAAATCAATTATAACATTATAAAATCATTTAAAGTGAGTAACTA-AGCTTTT
378 AA-AATTCAAACTAAAATCAATTATAAGATTATAAAACCATTTAAAGCGAGT-ATTAGA-CTTTA
* ** * *
2769 AAAGGCATGAGCAACTATAAATGGACCTTTCTTGCCAATGAATGGCTTTTCCTTCACGTT
440 AAAGGCATGGGTGACTATAAATGGACTTTTCTTGCC-AT-AATGAC-TTTCCTT----TT
* * *
2829 TCCTGAGTGAGACACTCAATTATAATCTGTTTAAACCAAAAATGTAAAACAATTCAACCTAAAAT
1 T-C--A-T-------TCAATTATAATCTGTTTTAACTAAAAATGTAAAACAATTCAACTTAAAAT
* * * * * *
2894 CGATTATGAGATTATAAAACCATTTAAAGCGAGTAATTTA-GCTTTCGAAGGCTTGGGTGACTAG
55 CAATTATGAGATTATAAAACCATTTAAAGTGAGTAA-TAAGGCTTTCAAAGGCATAGGTGACTAG
* * * * *
2958 AAATGAAATCTTCTTGCCAATGAATGGCTTTTTTTTCACGTCTCTTGAGGCAGAT-ATTCAATTA
119 AAATGAACTTTTCTTGCCAATGAATGCCTTTTTCTTCACGTTTCTTGAGGCAGATCATTCAATTA
* * *
3022 TAATCTGTTTTAACTAAAAATGT-AAACAAATTAAACCAAAAATCAATTATGAGATTATAACACC
184 TAATCTGTTTTAACTAAAAATGTAAAAC-AATTCAACCTAAAATCAATTATGAGATTATAAAACC
* * *
3086 ATTTAAAGCGAGTAATTAAGCTTTTAAAGGCATGAGTAACTATAAATGGACTTTTCTTACCAACG
248 ATTTAAAGCGAGTAATTAGGCTTTTGAAGGCATGAGTAACTATAAATGGACTTTTCTTACCAATG
* * * * * *
3151 -AGTGACATTTTCCTTAAGTTTCCTAAGGTC-GACTTTCAATGATAATCTATTTTAACACAATAT
313 AAGTG-C-TTTTTCTTAA-TTTCCTAAGG-CAGACATTCAATTATAATCTGTTTTAACAAAAAAT
* * * * *
3214 ATAAAAAATTCAATA-TACAATCAATTACAAGATTATAAAACCATTTAAAGTGAGTAATAAGGCT
374 ATAAAAAATTCAA-ACTAAAATCAATTATAAGATTATAAAACCATTTAAAGCGAGT-ATTAGACT
* * * * * * * **
3278 TTCAATGACATGGGTGACCATAAACGAACTTTTCTTGCTAATGATAGCCTTTTTCTTTCACGTTT
437 TTAAAAGGCATGGGTGACTATAAATGGACTTTTCTTGC-CAT-A-A-----TGACTTTC-C--TT
3343 CCTGAGGT
491 --T----T
* *
3351 AGTCATTTAATTATAATCTGTTTTAAC-AAAATATGTAAAA-AATTCAACCTAAAATCAATTATG
1 --TCATTCAATTATAATCTGTTTTAACTAAAA-ATGTAAAACAATTCAACTTAAAATCAATTATG
* * * * * * * **
3414 ACATTATAAAACCATTTAAAATGAGTAATTAGGATTTTGAAA-GCAT-GGATAACTATAAATGGC
63 AGATTATAAAACCATTTAAAGTGAGTAATAAGG-CTTTCAAAGGCATAGG-TGACTAGAAATGAA
* ** * *
3477 CATTTT-TTACCAATGAATGGATTTTTCTTCACGTTTCTAGAGGTAGA-CATTCAATTATAATCT
126 C-TTTTCTTGCCAATGAATGCCTTTTTCTTCACGTTTCTTGAGGCAGATCATTCAATTATAATCT
*
3540 GTTTTAA-TCGAAAATGTAAAA-ACATTCAAC
190 GTTTTAACT-AAAAATGTAAAACA-ATTCAAC
3570 NNNNNNNNNN
Statistics
Matches: 1407, Mismatches: 241, Indels: 185
0.77 0.13 0.10
Matches are distributed among these distances:
487 1 0.00
488 89 0.06
489 300 0.21
490 12 0.01
491 1 0.00
492 1 0.00
493 2 0.00
496 2 0.00
500 1 0.00
503 2 0.00
504 5 0.00
505 3 0.00
506 1 0.00
507 4 0.00
508 2 0.00
509 82 0.06
510 162 0.12
511 72 0.05
512 321 0.23
513 56 0.04
514 178 0.13
515 92 0.07
516 2 0.00
517 4 0.00
518 5 0.00
520 3 0.00
521 1 0.00
522 1 0.00
523 1 0.00
524 1 0.00
ACGTcount: A:0.38, C:0.14, G:0.13, T:0.35
Consensus pattern (492 bp):
TCATTCAATTATAATCTGTTTTAACTAAAAATGTAAAACAATTCAACTTAAAATCAATTATGAGA
TTATAAAACCATTTAAAGTGAGTAATAAGGCTTTCAAAGGCATAGGTGACTAGAAATGAACTTTT
CTTGCCAATGAATGCCTTTTTCTTCACGTTTCTTGAGGCAGATCATTCAATTATAATCTGTTTTA
ACTAAAAATGTAAAACAATTCAACCTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGT
AATTAGGCTTTTGAAGGCATGAGTAACTATAAATGGACTTTTCTTACCAATGAAGTGCTTTTTCT
TAATTTCCTAAGGCAGACATTCAATTATAATCTGTTTTAACAAAAAATATAAAAAATTCAAACTA
AAATCAATTATAAGATTATAAAACCATTTAAAGCGAGTATTAGACTTTAAAAGGCATGGGTGACT
ATAAATGGACTTTTCTTGCCATAATGACTTTCCTTTT
Found at i:3442 original size:341 final size:338
Alignment explanation
Indices: 1820--3569 Score: 1625
Period size: 341 Copynumber: 5.1 Consensus size: 338
1810 TGCCTTTTTC
* * *
1820 TTCAATTATAATCTGTTTTAACTA-AAAATGTAAAAAATTCAACATAAAATCAATTATTAGATAA
1 TTCAATTATAATCTGTTTTAAC-ACAAAATATAAAAAATTCAACATAAAATCAATTATAAGATTA
* * * ** *
1884 CAAAACTATTTAAAGTGAGTAATAAGGCTTTCAAAGGCAAAGGTGACCATAAATGAACTTTTCTT
65 TAAAACCATTTAAAGCGAGTAATAAGGCTTTC-AAGGCATGGGTGACTATAAATGAACTTTTCTT
* * * * * * *
1949 GCCAGTGATAGCCTTTTTC-TTCATGTTTCTTGTGGCAATCATTCAATTATAACCTATTTTAACT
129 GCCAATGATAGCCTTTTTCTTTCACGTTTCTTGAGGCAGTCATTTAATTATAATCTGTTTTAAC-
* * * *
2013 AGAAATGTAAAACAATTCTACCTAAAATCAATTATGATATTATAAAACCATTTAAAGCGACTAAT
193 AAAAATGTAAAA-AATTCAACCTAAAATCAATTATGACATTATAAAACCATTTAAAGCGAGTAAT
* * * * * *
2078 TAGGCTTTT-GAGAGCATGGGTAACTATAAATGGACCTTTCTTGCTAATGAAGTGCTTTT-TTTC
257 TAAGCTTTTAAAG-GCATGAGTAACTATAAATGGACTTTTCTTGCCAATGAA-TGCTTTTCCTTC
**
2141 ACA-TTTTTTGAGGTAGACA
320 A-AGTTTCCTGAGGTAGACA
* * *
2160 TTCAATTATAATCTGTTTTAATAAAAAATATAAAAATATTTAA-ACTAAAATCAATTATAAGATT
1 TTCAATTATAATCTGTTTTAACACAAAATATAAAAA-ATTCAACA-TAAAATCAATTATAAGATT
* * * * * * *
2224 ATAAAACCATTTAAAGCGAGTGATTAGACTTTCGAAGGCTTGGGTGACTAGAAATGGATTTTTCT
64 ATAAAACCATTTAAAGCGAGTAATAAGGCTTTC-AAGGCATGGGTGACTATAAATGAACTTTTCT
* * *
2289 TGCCAATAAATAG-CTTTTTCTTT-ACGTTTCTTGA--TA-TCGATATTCAATTATAATTTGTTT
128 TGCCAAT-GATAGCCTTTTTCTTTCACGTTTCTTGAGGCAGTC-AT-TT-AATTATAATCTGTTT
* * * * * * *
2349 TAACCAAAATGTAAAAAAATCAACTTAAATTTAATTATGAGATTATAAAACCATTTGAAGC-ATG
189 TAACAAAAATGTAAAAAATTCAACCTAAAATCAATTATGACATTATAAAACCATTTAAAGCGA-G
* * * * **
2413 TAA-TAAGCCTTTGAAAGGCATGGGTGACTATAAATGGACTTTTGTTGCCAATGATAACCTTTTT
253 TAATTAAG-CTTTTAAAGGCATGAGTAACTATAAATGGACTTTTCTTGCCAATGA-ATGC-TTTT
*
2477 CC-TCACA-TTTCCTGAGGTAAACA
315 CCTTCA-AGTTTCCTGAGGTAGACA
* * * * *
2500 TTCAATTATAATCTGTTTTTACAGAAAATGA-AAAAACTTCAACCTAAAATCAATTATGAGATTA
1 TTCAATTATAATCTGTTTTAACACAAAAT-ATAAAAAATTCAACATAAAATCAATTATAAGATTA
* * * ** * * * * *
2564 TAAAACTATTTGAAGCGAGTAATTATGATTTTGAAGGCATGGGTAAATATAAATGGACTTTTTTT
65 TAAAACCATTTAAAGCGAGTAA-TAAGGCTTTCAAGGCATGGGTGACTATAAATGAAC-TTTTCT
* * * * * ** * *
2629 TACCAAAGAATA-TCTTTTTC-TTAATGTTTCCCGAGGCAGACATTTAATTATAATATGTTTTAA
128 TGCCAATG-ATAGCCTTTTTCTTTCACGTTTCTTGAGGCAGTCATTTAATTATAATCTGTTTTAA
* * * * * * *
2692 CTATATATGTAAAAATAATTCCATCTAAAATCAATTATAACATTATAAAATCATTTAAAGTGAGT
192 C-AAAAATGT-AAAA-AATTCAACCTAAAATCAATTATGACATTATAAAACCATTTAAAGCGAGT
* * *
2757 AACTAAGCTTTTAAAGGCATGAGCAACTATAAATGGACCTTTCTTGCCAATGAATGGCTTTTCCT
254 AATTAAGCTTTTAAAGGCATGAGTAACTATAAATGGACTTTTCTTGCCAATGAAT-GCTTTTCCT
*
2822 TCACGTTTCCTGA-GTGAGACA
318 TCAAGTTTCCTGAGGT-AGACA
* * * * * *
2843 CTCAATTATAATCTGTTTAAAC-CAAAAATGTAAAACAATTCAACCTAAAATCGATTATGAGATT
1 TTCAATTATAATCTGTTTTAACAC-AAAATATAAAA-AATTCAACATAAAATCAATTATAAGATT
* * * * *
2907 ATAAAACCATTTAAAGCGAGTAATTTA-GCTTTCGAAGGCTTGGGTGACTAGAAATGAAATCTTC
64 ATAAAACCATTTAAAGCGAGTAA-TAAGGCTTTC-AAGGCATGGGTGACTATAAATGAACTTTTC
* * *
2971 TTGCCAATGA-ATGGCTTTTT-TTTCACGTCTCTTGAGGCAGAT-ATTCAATTATAATCTGTTTT
127 TTGCCAATGATA-GCCTTTTTCTTTCACGTTTCTTGAGGCAG-TCATTTAATTATAATCTGTTTT
* * * *
3033 AACTAAAAATGTAAACAAATTAAACCAAAAATCAATTATGAGATTATAACACCATTTAAAGCGAG
190 AAC-AAAAATGTAAA-AAATTCAACCTAAAATCAATTATGACATTATAAAACCATTTAAAGCGAG
* * *
3098 TAATTAAGCTTTTAAAGGCATGAGTAACTATAAATGGACTTTTCTTACCAACGAGTGACATTTTC
253 TAATTAAGCTTTTAAAGGCATGAGTAACTATAAATGGACTTTTCTTGCCAATGAATG-C-TTTTC
* * *
3163 CTT-AAGTTTCCTAAGGTCGACT
316 CTTCAAGTTTCCTGAGGTAGACA
* * * * * *
3185 TTCAATGATAATCTATTTTAACACAATATATAAAAAATTCAATATACAATCAATTACAAGATTAT
1 TTCAATTATAATCTGTTTTAACACAAAATATAAAAAATTCAACATAAAATCAATTATAAGATTAT
* * * *
3250 AAAACCATTTAAAGTGAGTAATAAGGCTTTCAATGACATGGGTGACCATAAACGAACTTTTCTTG
66 AAAACCATTTAAAGCGAGTAATAAGGCTTTCAA-GGCATGGGTGACTATAAATGAACTTTTCTTG
* * *
3315 CTAATGATAGCCTTTTTCTTTCACGTTTCCTGAGGTAGTCATTTAATTATAATCTGTTTTAACAA
130 CCAATGATAGCCTTTTTCTTTCACGTTTCTTGAGGCAGTCATTTAATTATAATCTGTTTTAACAA
**
3380 AATATGTAAAAAATTCAACCTAAAATCAATTATGACATTATAAAACCATTTAAAATGAGTAATTA
195 AA-ATGTAAAAAATTCAACCTAAAATCAATTATGACATTATAAAACCATTTAAAGCGAGTAATTA
* * * * * *
3445 GGATTTTGAAA-GCATG-GATAACTATAAATGGCCATTTT-TTACCAATGAATGGATTTTTCTTC
259 AGCTTTT-AAAGGCATGAG-TAACTATAAATGGAC-TTTTCTTGCCAATGAAT-GCTTTTCCTTC
*
3507 ACGTTT-CTAGAGGTAGACA
320 AAGTTTCCT-GAGGTAGACA
* *
3526 TTCAATTATAATCTGTTTTAATC-GAAAATGTAAAAACATTCAAC
1 TTCAATTATAATCTGTTTTAA-CACAAAATATAAAAA-ATTCAAC
3570 NNNNNNNNNN
Statistics
Matches: 1142, Mismatches: 208, Indels: 118
0.78 0.14 0.08
Matches are distributed among these distances:
338 6 0.01
339 147 0.13
340 166 0.15
341 337 0.30
342 217 0.19
343 196 0.17
344 73 0.06
ACGTcount: A:0.38, C:0.14, G:0.13, T:0.35
Consensus pattern (338 bp):
TTCAATTATAATCTGTTTTAACACAAAATATAAAAAATTCAACATAAAATCAATTATAAGATTAT
AAAACCATTTAAAGCGAGTAATAAGGCTTTCAAGGCATGGGTGACTATAAATGAACTTTTCTTGC
CAATGATAGCCTTTTTCTTTCACGTTTCTTGAGGCAGTCATTTAATTATAATCTGTTTTAACAAA
AATGTAAAAAATTCAACCTAAAATCAATTATGACATTATAAAACCATTTAAAGCGAGTAATTAAG
CTTTTAAAGGCATGAGTAACTATAAATGGACTTTTCTTGCCAATGAATGCTTTTCCTTCAAGTTT
CCTGAGGTAGACA
Found at i:4131 original size:171 final size:168
Alignment explanation
Indices: 3815--5712 Score: 1056
Period size: 171 Copynumber: 11.1 Consensus size: 168
3805 ACAAAAATGT
* * * * *** * *
3815 AAAAAATTTAACTTAAAATTAATTATGAGATTATAAAACCATTTGAAGTGCGTAATAAGGCTTT-
1 AAAAAATTCAACTTAAAATCAATTATGAGATTATAAAATCATTTAAAGCAAGTAATTA-GATTTC
* * * * * * *
3879 GAAAGGCATGGGTGACTATTAATGGACTTTTGTTGCTAATG-ATAACCTTTTTCCTCACATTTCT
65 G-AAGGCATGAGTAACTATAAATGGACTTTTCTTGCCAATGAAT-GCCTTTTT-CTCACGTTTC-
* * * * * *
3943 GAAGGCAGACCTTCAATTATAATCTATTTTCATAGAAAA-CAA
126 CAAGGTAGACATTCAATTATAATCTGTTTTCAGAGAAAATGAA
* **
3985 AAATAAATTCAA-TCTAAAATCAATTACGAGATTATAAAATCATTTGCAGCAAGTAATTACGATT
1 AAA-AAATTCAACT-TAAAATCAATTATGAGATTATAAAATCATTTAAAGCAAGTAATTA-GATT
* * * * * *
4049 TTGAAGGCATGGGTAAATGTAAATGGACTTTTTTTGCCAATGAATGCCTTTTTCTCAACGGTTTT
63 TCGAAGGCATGAGTAACTATAAATGGACTTTTCTTGCCAATGAATGCCTTTTTCTC-AC-GTTTC
* *
4114 CAAGGTAGACATTCAATTATAATCTGTTTTCAGAAAAAATGTA
126 CAAGGTAGACATTCAATTATAATCTGTTTTCAGAGAAAATGAA
* * * ** * *
4157 AAAACATTCAACTTAAAATCAATTATGAGATTATAAAATTATTTAATGTGAGTAATAAGGCTTTC
1 AAAAAATTCAACTTAAAATCAATTATGAGATTATAAAATCATTTAAAGCAAGTAATTA-GATTTC
* * * * * * * *
4222 GAAGGCTTAAGTGATTATAAATGGACTTTCCTTGCCAATTAATGGCTATTTCTTCACGTTTCCTA
65 GAAGGCATGAGTAACTATAAATGGACTTTTCTTGCCAATGAATGCCTTTTTC-TCACGTTTCC-A
* * *
4287 AGGTAGACATTCAATTATATTCTGTTTTCATTA-AAAATGTA
128 AGGTAGACATTCAATTATAATCTGTTTTCA-GAGAAAATGAA
* * * * * **
4328 AAAGAATTAAACTTAAAATCAATTATGAGACTGTAAAA-CTATTTAAAGCAAGTAACTAAGCGTT
1 AAAAAATTCAACTTAAAATCAATTATGAGATTATAAAATC-ATTTAAAGCAAGTAA-TTAGATTT
* * * * * * * *
4392 CGAAGGCTTGGGTAACTATAAATAGACTTTTCTTACCAATGACTGACTGTTTTTTTCATGTTTCC
64 CGAAGGCATGAGTAACTATAAATGGACTTTTCTTGCCAATGAATG-C-CTTTTTCTCACGTTT-C
* *
4457 CAAGG-AAACATTCAATTATAATCTGTTTT-AGCGAAATAT-ATA
126 CAAGGTAGACATTCAATTATAATCTGTTTTCAGAGAAA-ATGA-A
* * * * * *
4499 AAAAAATTCAACCTAAAATCTATTATGAGATTATAAAACCATTTAAATCGAGTAATTAGAATTTT
1 AAAAAATTCAACTTAAAATCAATTATGAGATTATAAAATCATTTAAAGCAAGTAATTAG-ATTTC
** * * * ** *
4564 GAACACATGAGTGACTATAAATGGACTTTTCTCGCCAATGAATGGCTTTTTCTTCATATTTCTTA
65 GAAGGCATGAGTAACTATAAATGGACTTTTCTTGCCAATGAATGCCTTTTTC-TCACGTTTC-CA
* * * * * *
4629 AAGCAAACATTCAACTT-TAATCTGTTTTAACCA-AAAATGTA
128 AGGTAGACATTCAA-TTATAATCTGTTTTCA-GAGAAAATGAA
* * ** * * * *
4670 AAACAATTCAACCTAAAATCAATTATGTCATTAGAAAA-CTAATTAAAACGAGTAATTAGGCATT
1 AAAAAATTCAACTTAAAATCAATTATGAGATTATAAAATC-ATTTAAAGCAAGTAATTA-G-ATT
* * * * ** * *
4734 T-GCAGGCATGGGTAACTATAAATGGACCTTTCCTGCCAATGAATTACTTTTTCTTCATGTTCCC
63 TCGAAGGCATGAGTAACTATAAATGGACTTTTCTTGCCAATGAATGCCTTTTTC-TCACGTTTCC
* * ** * * * *
4798 TAAGGTAGACAGTCAATAATAATCTAATTTAATTA-AAAAGGTA
127 -AAGGTAGACATTCAATTATAATCTGTTTTCA-GAGAAAATGAA
* * ** * *
4841 CAAAAATTCAACCTAAAATCAATTATGAG-TCTATAAAA-CTATTTAAAGTGAGTCATTAGGTTT
1 AAAAAATTCAACTTAAAATCAATTATGAGAT-TATAAAATC-ATTTAAAGCAAGTAATTA-GATT
* * * * * * * *
4904 TCGAAGGCTTCAGTGACTAGAAATGGACTTTTTTTTACCAATTAATGAC-TTTTCTTCACGTTTC
63 TCGAAGGCATGAGTAACTATAAATGGAC-TTTTCTTGCCAATGAATGCCTTTTTC-TCACGTTTC
** * * * * *
4968 TTGAGGTAAAAATTCAATTGA-AATATGTTTTCACA-AAAATG-T
126 -CAAGGTAGACATTCAATT-ATAATCTGTTTTCAGAGAAAATGAA
* * ** * *
5010 AAAAAATTCAACTTAAAATTAATTATGA-ATTATAAAACCATTTAAAGCGCGTAATAAGGCTTTC
1 AAAAAATTCAACTTAAAATCAATTATGAGATTATAAAATCATTTAAAGCAAGTAATTA-GATTTC
* * * *** * * **
5074 AAAGGCATGGGTGACTATAAATGGACTTTTCTTGCTTGTGAATGTCTTTTTCTTCACTTTTTCTG
65 GAAGGCATGAGTAACTATAAATGGACTTTTCTTGCCAATGAATGCCTTTTTC-TCAC-GTTTCCA
* * *
5139 AGGCAGACATTCAATTATAATCAGTTTT-A-ACAAAAT-ATA
128 AGGTAGACATTCAATTATAATCTGTTTTCAGAGAAAATGA-A
* * * * * * *
5178 TAAAAAATTCAA-TATAAAATTAATTATAAGATTGTAAAACCATTTAAAGCGAGTAATAAGGCTT
1 -AAAAAATTCAACT-TAAAATCAATTATGAGATTATAAAATCATTTAAAGCAAGTAATTA-GATT
* * * * * * * * * *
5242 TCAAAGGTATGGGTGACTATAAACGAACATTTCTTGCCAATG-ATAGTCTTTTTTTTCATGTTTC
63 TCGAAGGCATGAGTAACTATAAATGGACTTTTCTTGCCAATGAAT-G-CCTTTTTCTCACGTTTC
* ** * * * * * *
5306 TAGAGACAGTCATTCAATTATAATTTGTTTTAACAAAAAATGTA
126 CA-AGGTAGACATTCAATTATAATCTGTTTTCAGAGAAAATGAA
* * * * * * * *
5350 AAAACATTTAACCTAAAATCAACTATGATAATATAAAA-CTATTTAAAGCGAGTAATTAGGCTTT
1 AAAAAATTCAACTTAAAATCAATTATGAGATTATAAAATC-ATTTAAAGCAAGTAATTA-G-ATT
* * * *
5414 TC-AAAGCATGGGTAACTATAAATGGACCTTTCTTGCCAATGAATGGCTTTTTCTTCACGTTTCT
63 TCGAAGGCATGAGTAACTATAAATGGACTTTTCTTGCCAATGAATGCCTTTTTC-TCACGTTTC-
** * *
5478 TGAGGTAGACATTCAATTATAATCTGTTTTAACTA-AAAAT-ATA
126 CAAGGTAGACATTCAATTATAATCTGTTTTCA-GAGAAAATGA-A
* * ** * **
5521 AAAATATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGTGAGTGATTAGGCTTCG
1 AAAAAATTCAACTTAAAATCAATTATGAGATTATAAAATCATTTAAAGCAAGTAATTAGATTTC-
* * * * * * ** **
5586 GAAGGCTTGGGTTACTAGAAATGGACTTTTCTTACTAATGAAT-TTTTTTTCTTCACGTTTCTTG
65 GAAGGCATGAGTAACTATAAATGGACTTTTCTTGCCAATGAATGCCTTTTTC-TCACGTTTC-CA
* * * * * *
5650 TGGCAGATATTCAATTATAATTTGTTTT-A-ACCAAAATG-T
128 AGGTAGACATTCAATTATAATCTGTTTTCAGA-GAAAATGAA
*
5689 AAAAAATTCAACTTAAAATTAATT
1 AAAAAATTCAACTTAAAATCAATT
5713 TTAAGGCTTT
Statistics
Matches: 1376, Mismatches: 284, Indels: 138
0.77 0.16 0.08
Matches are distributed among these distances:
166 1 0.00
167 21 0.02
168 104 0.08
169 78 0.06
170 186 0.14
171 909 0.66
172 71 0.05
173 6 0.00
ACGTcount: A:0.37, C:0.13, G:0.13, T:0.36
Consensus pattern (168 bp):
AAAAAATTCAACTTAAAATCAATTATGAGATTATAAAATCATTTAAAGCAAGTAATTAGATTTCG
AAGGCATGAGTAACTATAAATGGACTTTTCTTGCCAATGAATGCCTTTTTCTCACGTTTCCAAGG
TAGACATTCAATTATAATCTGTTTTCAGAGAAAATGAA
Found at i:4470 original size:342 final size:339
Alignment explanation
Indices: 3807--5712 Score: 1722
Period size: 342 Copynumber: 5.6 Consensus size: 339
3797 NNNNNNNNAC
* * * * *
3807 AAAAATGTAAAAAATTTAACTTAAAATTAATTATGAGATTATAAAACCATTTGAAGTGCGTAATA
1 AAAAATATAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGTGAGTAATA
* * * * * * *
3872 AGGCTTT-GAAAGGCATGGGTGACTATTAATGGACTTTTGTTGCTAATGATAA--CCTTTTTCCT
66 AGGCTTTCG-AAGGCTTGAGTGACTATAAATGGACTTTTCTTGCCAAT--TAATGGCTTTTTCTT
* * * * ***
3934 CACATTT-CTGAAGGCAGACCTTCAATTATAATCTATTTTCATAGAAAACAAAAATAAATTCAA-
128 CACGTTTCCT-AAGGCAGACATTCAATTATAATCTGTTTTCACA-AAAATGTAAA-AAATTCAAC
* ** * * * *
3997 TCTAAAATCAATTACGAGATTATAAAA-TCATTTGCAGCAAGTAATTACGATTTTGAAGGCATGG
190 T-TAAAATCAATTATGAGATTATAAAACT-ATTTAAAGCGAGTAATTAAGCTTTCGAAGGCATGG
* * * * * *
4061 GTAAATGTAAATGGACTTTTTTTGCCAATGAATGCCTTTTTC-TCAACGGTTT-TCAAGGTAGAC
253 GTAACTATAAATGGACTTTTCTTGCCAATGAATGACTTTTTCTTC-A-TGTTTCCCAAGGTAGAC
* *
4124 ATTCAATTATAATCTGTTTTCAGA
316 ATTCAATTATAATCTGTTTTAACA
* ** *
4148 AAAAATGTAAAAACATTCAACTTAAAATCAATTATGAGATTATAAAATTATTTAATGTGAGTAAT
1 AAAAATATAAAAA-ATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGTGAGTAAT
* * * *
4213 AAGGCTTTCGAAGGCTTAAGTGATTATAAATGGACTTTCCTTGCCAATTAATGGCTATTTCTTCA
65 AAGGCTTTCGAAGGCTTGAGTGACTATAAATGGACTTTTCTTGCCAATTAATGGCTTTTTCTTCA
* * * *
4278 CGTTTCCTAAGGTAGACATTCAATTATATTCTGTTTTCATTAAAAATGTAAAAGAATTAAACTTA
130 CGTTTCCTAAGGCAGACATTCAATTATAATCTGTTTTCA-CAAAAATGTAAAA-AATTCAACTTA
* * * * * *
4343 AAATCAATTATGAGACTGTAAAACTATTTAAAGCAAGTAACTAAGCGTTCGAAGGCTTGGGTAAC
193 AAATCAATTATGAGATTATAAAACTATTTAAAGCGAGTAATTAAGCTTTCGAAGGCATGGGTAAC
* * * * *
4408 TATAAATAGACTTTTCTTACCAATGACTGACTGTTTTTTTCATGTTTCCCAAGG-AAACATTCAA
258 TATAAATGGACTTTTCTTGCCAATGAATGACT-TTTTCTTCATGTTTCCCAAGGTAGACATTCAA
* *
4472 TTATAATCTGTTTTAGCG
322 TTATAATCTGTTTTAACA
* * *
4490 AAATATATAAAAAAATTCAACCTAAAATCTATTATGAGATTATAAAACCATTTAAA-TCGAGTAA
1 AAAAATAT-AAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGT-GAGTAA
* ** * ** * * *
4554 TTAGAATTTTGAACACATGAGTGACTATAAATGGACTTTTCTCGCCAATGAATGGCTTTTTCTTC
64 TAAGGCTTTCGAAGGCTTGAGTGACTATAAATGGACTTTTCTTGCCAATTAATGGCTTTTTCTTC
** * * * * *
4619 ATATTTCTTAAAGCAAACATTCAACTT-TAATCTGTTTTAACCAAAAATGTAAAACAATTCAACC
129 ACGTTTCCTAAGGCAGACATTCAA-TTATAATCTGTTTTCA-CAAAAATGTAAAA-AATTCAACT
** * * * * *
4683 TAAAATCAATTATGTCATTAGAAAACTAATTAAAACGAGTAATTAGGCATTT-GCAGGCATGGGT
191 TAAAATCAATTATGAGATTATAAAACTATTTAAAGCGAGTAATTAAGC-TTTCGAAGGCATGGGT
* * * *
4747 AACTATAAATGGACCTTTCCTGCCAATGAATTACTTTTTCTTCATG-TTCCCTAAGGTAGACAGT
255 AACTATAAATGGACTTTTCTTGCCAATGAATGACTTTTTCTTCATGTTTCCC-AAGGTAGACATT
* ** **
4811 CAATAATAATCTAATTTAATT
319 CAATTATAATCTGTTTTAACA
** * * *
4832 AAAAAGGTACAAAAATTCAACCTAAAATCAATTATGAG-TCTATAAAACTATTTAAAGTGAGTCA
1 AAAAATATA-AAAAATTCAACTTAAAATCAATTATGAGAT-TATAAAACCATTTAAAGTGAGTAA
* * * * * * *
4896 TTAGGTTTTCGAAGGCTTCAGTGACTAGAAATGGACTTTTTTTTACCAATTAATGAC-TTTTCTT
64 TAAGGCTTTCGAAGGCTTGAGTGACTATAAATGGAC-TTTTCTTGCCAATTAATGGCTTTTTCTT
* * * * * *
4960 CACGTTTCTTGAGGTAAAAATTCAATTGA-AATATGTTTTCACAAAAATGTAAAAAATTCAACTT
128 CACGTTTCCTAAGGCAGACATTCAATT-ATAATCTGTTTTCACAAAAATGTAAAAAATTCAACTT
* * * * *
5024 AAAATTAATTATGA-ATTATAAAACCATTTAAAGCGCGTAA-TAAGGCTTTCAAAGGCATGGGTG
192 AAAATCAATTATGAGATTATAAAACTATTTAAAGCGAGTAATTAA-GCTTTCGAAGGCATGGGTA
*** * * ** *
5087 ACTATAAATGGACTTTTCTTGCTTGTGAATGTCTTTTTCTTCACT-TTTTCTGAGGCAGACATTC
256 ACTATAAATGGACTTTTCTTGCCAATGAATGACTTTTTCTTCA-TGTTTCCCAAGGTAGACATTC
*
5151 AATTATAATCAGTTTTAACA
320 AATTATAATCTGTTTTAACA
* * * * *
5171 AAATATATAAAAAATTCAA-TATAAAATTAATTATAAGATTGTAAAACCATTTAAAGCGAGTAAT
1 AAAAATATAAAAAATTCAACT-TAAAATCAATTATGAGATTATAAAACCATTTAAAGTGAGTAAT
* * * * * * * *
5235 AAGGCTTTCAAAGG-TATGGGTGACTATAAACGAACATTTCTTGCCAA-TGATAGTCTTTTTTTT
65 AAGGCTTTCGAAGGCT-TGAGTGACTATAAATGGACTTTTCTTGCCAATTAAT-GGCTTTTTCTT
* * * * * *
5298 CATGTTT-CTAGAGACAGTCATTCAATTATAATTTGTTTTAACAAAAAATGTAAAAACATTTAAC
128 CACGTTTCCTA-AGGCAGACATTCAATTATAATCTGTTTTCAC-AAAAATGTAAAAA-ATTCAAC
* * * * * *
5362 CTAAAATCAACTATGATAATATAAAACTATTTAAAGCGAGTAATTAGGCTTTTC-AAAGCATGGG
190 TTAAAATCAATTATGAGATTATAAAACTATTTAAAGCGAGTAATTAAGC-TTTCGAAGGCATGGG
* * * ***
5426 TAACTATAAATGGACCTTTCTTGCCAATGAATGGCTTTTTCTTCACGTTTCTTGAGGTAGACATT
254 TAACTATAAATGGACTTTTCTTGCCAATGAATGACTTTTTCTTCATGTTTCCCAAGGTAGACATT
*
5491 CAATTATAATCTGTTTTAACT
319 CAATTATAATCTGTTTTAACA
*
5512 AAAAATATAAAAATATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGTGAGTGAT
1 AAAAATATAAAAA-ATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGTGAGTAAT
* * * * * * * **
5577 TAGGC-TTCGGAAGGCTTGGGTTACTAGAAATGGACTTTTCTTACTAATGAAT-TTTTTTTCTTC
65 AAGGCTTTC-GAAGGCTTGAGTGACTATAAATGGACTTTTCTTGCCAATTAATGGCTTTTTCTTC
* ** * * * *
5640 ACGTTTCTTGTGGCAGATATTCAATTATAATTTGTTTTAACCAAAATGTAAAAAATTCAACTTAA
129 ACGTTTCCTAAGGCAGACATTCAATTATAATCTGTTTTCACAAAAATGTAAAAAATTCAACTTAA
*
5705 AATTAATT
194 AATCAATT
5713 TTAAGGCTTT
Statistics
Matches: 1261, Mismatches: 257, Indels: 96
0.78 0.16 0.06
Matches are distributed among these distances:
336 3 0.00
337 14 0.01
338 109 0.09
339 128 0.10
340 64 0.05
341 209 0.17
342 686 0.54
343 46 0.04
344 2 0.00
ACGTcount: A:0.38, C:0.13, G:0.13, T:0.36
Consensus pattern (339 bp):
AAAAATATAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGTGAGTAATA
AGGCTTTCGAAGGCTTGAGTGACTATAAATGGACTTTTCTTGCCAATTAATGGCTTTTTCTTCAC
GTTTCCTAAGGCAGACATTCAATTATAATCTGTTTTCACAAAAATGTAAAAAATTCAACTTAAAA
TCAATTATGAGATTATAAAACTATTTAAAGCGAGTAATTAAGCTTTCGAAGGCATGGGTAACTAT
AAATGGACTTTTCTTGCCAATGAATGACTTTTTCTTCATGTTTCCCAAGGTAGACATTCAATTAT
AATCTGTTTTAACA
Found at i:5966 original size:309 final size:310
Alignment explanation
Indices: 5407--6003 Score: 679
Period size: 309 Copynumber: 1.9 Consensus size: 310
5397 GCGAGTAATT
5407 AGGCTTTTCAAAGCATGGGTAACTATAAATGGACCTTTCTTGCCAATGAATGGCTTTTTCTTCAC
1 AGGCTTTTCAAAGCATGGGTAACTATAAATGGACCTTTCTTGCCAATGAATGGCTTTTTCTTCAC
* *** * * *
5472 GTTTCTTGAGGTAGACATTCAATTATAATCTGTTTTAACTAAAAATATAAAAATATTCAACTTAA
66 ATTTCCCAACGTAGACATTCAATTATAATCTGTTTTAACTAAAAAGATAAAAATATTCAACCTAA
** ** * * * * * * * *
5537 AATCAATTATGAGATTATAAAACCATTTAAAGTGAGTGATTAGGCTTCGGAAGGCTTGGGTTACT
131 AATCAATTACAAGAACATAAAACCATTTAAAGCGAGTAATTACGATTCGGAAGACATGGGTAAAT
* * * * *
5602 AGAAATGGACTTTTCTTACTAATGAATTTTTTTTCTTCACGTTTCTTGTGGCAGATATTCAATTA
196 AGAAATAGACTTTTCTTACCAATGAATCTTTTTTCTTAACGTTTCTTGCGGCAGATATTCAATTA
* *
5667 TAATTTGTTTTAACCA-AAATGTAAAAAATTCAACTTAAAATTAATTTTA
261 TAATCTATTTTAACCATAAATGTAAAAAATTCAACTTAAAATTAATTTTA
* * * * *
5716 AGGC-TTTCAAAGGCATGGGTGACTATAAATGGACTTTTGTTGCCATTG-ATAGTCTTTTTCTTC
1 AGGCTTTTCAAA-GCATGGGTAACTATAAATGGACCTTTCTTGCCAATGAAT-GGCTTTTTCTTC
* * * *
5779 ACATTTCCCAACGTAGACATTCAATTATAATTTTTTTTCAC-AGAAAAGGTAAAAA-ATGT-AAC
64 ACATTTCCCAACGTAGACATTCAATTATAATCTGTTTTAACTA-AAAAGATAAAAATAT-TCAAC
* **
5841 CTAAAATCAATTACAAGAACATAAAACTATTTGAAA-CGAGTAATTACGATTTTGAAGACATGGG
127 CTAAAATCAATTACAAGAACATAAAACCATTT-AAAGCGAGTAATTACGATTCGGAAGACATGGG
* * * * *
5905 TAAATATAAATAGACTTTTTTTGCCATTGAATGCTTTTTTCTTAATGTTT-TTCGCGGCAGATAT
191 TAAATAGAAATAGACTTTTCTTACCAATGAAT-CTTTTTTCTTAACGTTTCTT-GCGGCAGATAT
*
5969 TCAATTATAATCTATTTTAATCATAAATGTAAAAA
254 TCAATTATAATCTATTTTAACCATAAATGTAAAAA
6004 CAATTCCACC
Statistics
Matches: 236, Mismatches: 44, Indels: 15
0.80 0.15 0.05
Matches are distributed among these distances:
308 87 0.37
309 138 0.58
310 11 0.05
ACGTcount: A:0.35, C:0.13, G:0.14, T:0.38
Consensus pattern (310 bp):
AGGCTTTTCAAAGCATGGGTAACTATAAATGGACCTTTCTTGCCAATGAATGGCTTTTTCTTCAC
ATTTCCCAACGTAGACATTCAATTATAATCTGTTTTAACTAAAAAGATAAAAATATTCAACCTAA
AATCAATTACAAGAACATAAAACCATTTAAAGCGAGTAATTACGATTCGGAAGACATGGGTAAAT
AGAAATAGACTTTTCTTACCAATGAATCTTTTTTCTTAACGTTTCTTGCGGCAGATATTCAATTA
TAATCTATTTTAACCATAAATGTAAAAAATTCAACTTAAAATTAATTTTA
Found at i:6312 original size:650 final size:650
Alignment explanation
Indices: 5064--6335 Score: 1496
Period size: 650 Copynumber: 2.0 Consensus size: 650
5054 AAGCGCGTAA
*
5064 TAAGGCTTTCAAAGGCATGGGTGACTATAAATGGACTTTTCTTGCTTGTGAATGTCTTTTTCTTC
1 TAAGGCTTTCAAAGGCATGGGTGACTATAAATGGACTTTTCTTGCATGTGAATGTCTTTTTCTTC
* * ** * * *
5129 ACTTTTTCTGAGGCAGACATTCAATTATAATCAGTTTTAACAAAATATATAAAAAATTCAATATA
66 ACATTTCCCAACGCAGACATTCAATTATAATCAGTTTTAACAAAATAGATAAAAAATTCAACATA
* * *** * * ** * *
5194 AAATTAATTATAAGATTGTAAAACCATTTAAAGCGAGTAATAAGGCTTTCAAAGGTATGGGTGAC
131 AAATCAATTACAAGAACATAAAACCATTTAAAGCGAGTAATAACGATTTCAAAGACATGGGTAAA
* *
5259 TATAAACGAACATTTCTTGCCAATGATAGTCTTTTTTTTCATGTTTCTAGAGACAGTCATTCAAT
196 TATAAAAGAACATTTCTTGCCAATGATAGTCTTTTTTTTAATGTTTCTAGAGACAGTCATTCAAT
* * * *
5324 TATAATTTGTTTTAACAAAAAATGTAAAAACATTTAACCTAAAATCAACTATGATAATATAAAAC
261 TATAATCTATTTTAACAAAAAATGTAAAAACATTCAACCTAAAATCAACTATGACAATATAAAAC
* * * *
5389 TATTTAAAGCGAGTAATTAGGCTTTTCAAAGCATGGGTAACTATAAATGGACCTTTCTTGCCAAT
326 CATTTAAAGCAAGTAATCAGGCTTTTCAAAACATGGGTAACTATAAATGGACCTTTCTTGCCAAT
* *
5454 GAATGGCTTTTTCTTCACGTTTCTTGAGGTAGACATTCAATTATAATCTGTTTTAACTAAAAATA
391 GAATGGCTTTTTCTTCACGTTTCTAGAGGTAGACATTCAATTATAATCTGTTTTAACTAAAAAGA
* * * *
5519 TAAAAATATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGTGAGTGATTAGGCTT
456 TAAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAATGATTAGACTT
* * * ** *
5584 CGGAAGGCTTGGGTTACTAGAAATGGACTTTTCTTACTAATGAATTTTTTTTCTTCACGTTTCTT
521 CGGAAGGCTTGAGTGACTAGAAATGGACTTTTCTTACTAATAAATGCTTTCTCTTCACGTTTCTT
** * *
5649 GTGGCAGATATTCAATTATAATTTGTTTTAACCAAAATGTAAAAAATTCAACTTAAAATTAATTT
586 AAGGCAAATATTCAATTATAATATGTTTTAACCAAAATGTAAAAAATTCAACTTAAAATTAATTT
*
5714 TAAGGCTTTCAAAGGCATGGGTGACTATAAATGGACTTTTGTTGCCAT-TG-ATAGTCTTTTTCT
1 TAAGGCTTTCAAAGGCATGGGTGACTATAAATGGACTTTTCTTG-CATGTGAAT-GTCTTTTTCT
* *** * *
5777 TCACATTTCCCAACGTAGACATTCAATTATAATTTTTTTTCACAGAAA-AGGTAAAAAATGT-AA
64 TCACATTTCCCAACGCAGACATTCAATTATAATCAGTTTTAACA-AAATAGATAAAAAAT-TCAA
* * * **
5840 CCTAAAATCAATTACAAGAACATAAAACTATTTGAAA-CGAGTAATTACGATTTTGAAGACATGG
127 CATAAAATCAATTACAAGAACATAAAACCATTT-AAAGCGAGTAATAACGATTTCAAAGACATGG
* * * * * * *
5904 GTAAATATAAATAG-ACTTTTTTTGCCATTGA-A-TGCTTTTTTCTTAATGTTTTTCGCGGCAGA
191 GTAAATATAAA-AGAACATTTCTTGCCAATGATAGT-CTTTTTT-TTAATGTTTCTAGAGACAG-
* * * * *
5966 T-ATTCAATTATAATCTATTTTAATC-ATAAATGTAAAAACAATTCCACCTGAAGTCAA-TTTGA
252 TCATTCAATTATAATCTATTTTAA-CAAAAAATGTAAAAAC-ATTCAACCTAAAATCAACTATGA
* * *
6028 CATTATAAAACCATTTAAAGCAAGTAATCAGGCTTTT-AACAATATGTGTAACTATAAATGGACC
315 CAATATAAAACCATTTAAAGCAAGTAATCAGGCTTTTCAA-AACATGGGTAACTATAAATGGACC
*********
6092 TTTCTTGCCAATGAATGGCTTTTTCTTNNNNNNNNNNAG-GGTAGACATTCAATTATAATCTGTT
379 TTTCTTGCCAATGAATGGCTTTTTCTT-CACGTTTCTAGAGGTAGACATTCAATTATAATCTGTT
*
6156 TTAACTAAAAAGGTAAAAAAATTCAACTT-AAATC-ATGTATGAGATTATAAAACCATTTAAAGC
443 TTAACTAAAAAGATAAAAAAATTCAACTTAAAATCAAT-TATGAGATTATAAAACCATTTAAAGC
* * *
6219 GAATGATTAAGATTTC-GAAGGCTTGAGTGACTAGATATGGACTTTTCTTGCTAATAAATGGCTT
507 GAATGATT-AGACTTCGGAAGGCTTGAGTGACTAGAAATGGACTTTTCTTACTAATAAAT-GCTT
* * *
6283 TCTCTTCATGTTTCTTAAGGTAAATATTCAATTATAATATGTTTTAGCCAAAA
570 TCTCTTCACGTTTCTTAAGGCAAATATTCAATTATAATATGTTTTAACCAAAA
6336 ATATAAANNN
Statistics
Matches: 518, Mismatches: 88, Indels: 32
0.81 0.14 0.05
Matches are distributed among these distances:
648 3 0.01
649 87 0.17
650 402 0.78
651 26 0.05
ACGTcount: A:0.36, C:0.13, G:0.14, T:0.36
Consensus pattern (650 bp):
TAAGGCTTTCAAAGGCATGGGTGACTATAAATGGACTTTTCTTGCATGTGAATGTCTTTTTCTTC
ACATTTCCCAACGCAGACATTCAATTATAATCAGTTTTAACAAAATAGATAAAAAATTCAACATA
AAATCAATTACAAGAACATAAAACCATTTAAAGCGAGTAATAACGATTTCAAAGACATGGGTAAA
TATAAAAGAACATTTCTTGCCAATGATAGTCTTTTTTTTAATGTTTCTAGAGACAGTCATTCAAT
TATAATCTATTTTAACAAAAAATGTAAAAACATTCAACCTAAAATCAACTATGACAATATAAAAC
CATTTAAAGCAAGTAATCAGGCTTTTCAAAACATGGGTAACTATAAATGGACCTTTCTTGCCAAT
GAATGGCTTTTTCTTCACGTTTCTAGAGGTAGACATTCAATTATAATCTGTTTTAACTAAAAAGA
TAAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAATGATTAGACTT
CGGAAGGCTTGAGTGACTAGAAATGGACTTTTCTTACTAATAAATGCTTTCTCTTCACGTTTCTT
AAGGCAAATATTCAATTATAATATGTTTTAACCAAAATGTAAAAAATTCAACTTAAAATTAATTT
Done.