Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_018397439.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_309.0, 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: 18029
ACGTcount: A:0.38, C:0.11, G:0.13, T:0.33
Warning! 970 characters in sequence are not A, C, G, or T
Found at i:488 original size:171 final size:168
Alignment explanation
Indices: 108--587 Score: 462
Period size: 171 Copynumber: 2.8 Consensus size: 168
98 NNNATAGGTG
* * * *
108 ACTATAAATAGACTTTTCTTACCAATGAATGCCTTTCTCTT-TGCGTTTCACTAAGTAGTCATTT
1 ACTATAAATAGACTTTTCTTACCAATGAATG-CTTT-T-TTATCCTTTTCACTAGGTAGACATTT
* * * * *
172 AATTATAATATGTTTTAACCAAAAATATAAAAAGAATTGAACATAAACTAACTTTTGAGATTATA
63 AATTATAATATGTTTTAACCAAAAATGTAAAAA-AATTGAACTTAAAATAAATTTTGAAATTATA
********** * *
237 AAATCATTTAAAGCGAGTAATNNNNNNNNNNAAGGAATGGGTG
127 AAA-CATTTAAAGCGAGTAATAAGGCTTTCAAAGCAATGGGTA
* * * *
280 ACTACAAATAGACTTTTCTTACCAATAAATACTTTTTTATCAACTTTTCACTAGGTTGACATTTA
1 ACTATAAATAGACTTTTCTTACCAATGAATGCTTTTTTATC--CTTTTCACTAGGTAGACATTTA
* *
345 ATTATAATATGTTTTAATCAAAAATGTTAAAAAATTGAACTTAAAATAAATTTTGAAATTATAAA
64 ATTATAATATGTTTTAACCAAAAATGTAAAAAAATTGAACTTAAAATAAATTTTGAAATTATAAA
410 ACAATTTAAAGCGAGTAATAAGGCTTTCAAAGCAATGGGTA
129 AC-ATTTAAAGCGAGTAATAAGGCTTTCAAAGCAATGGGTA
* * * * * *
451 ACTATAAATGGACTTTTCTTGCCGATGAATGCTTTTTTCTTCTTGTTTC-TTGAGGTAGACATTT
1 ACTATAAATAGACTTTTCTTACCAATGAATGCTTTTTT-ATCCT-TTTCACT-AGGTAGACATTT
* * * * * * *
515 AATTCTAGTCTGTTTTAACCAAAAATGTAAAAAAATTCAACTAAAAATCAATTAT-AAGATTATA
63 AATTATAATATGTTTTAACCAAAAATGTAAAAAAATTGAACTTAAAATAAATTTTGAA-ATTATA
579 AAACCATTT
127 AAA-CATTT
588 NNNNNNNNNN
Statistics
Matches: 253, Mismatches: 46, Indels: 19
0.80 0.14 0.06
Matches are distributed among these distances:
169 2 0.01
170 7 0.03
171 166 0.66
172 78 0.31
ACGTcount: A:0.39, C:0.12, G:0.11, T:0.36
Consensus pattern (168 bp):
ACTATAAATAGACTTTTCTTACCAATGAATGCTTTTTTATCCTTTTCACTAGGTAGACATTTAAT
TATAATATGTTTTAACCAAAAATGTAAAAAAATTGAACTTAAAATAAATTTTGAAATTATAAAAC
ATTTAAAGCGAGTAATAAGGCTTTCAAAGCAATGGGTA
Found at i:1206 original size:172 final size:171
Alignment explanation
Indices: 836--1207 Score: 390
Period size: 172 Copynumber: 2.2 Consensus size: 171
826 NNNNNNNNNN
* * * *
836 AGACTTTTCTTATCAATGAATGTC-TTTTTCTTCATGTTTCTTGATATAAACATTCAATTATAAT
1 AGACTTTTCTTCTC-ATGAATGGCTTTTTTATTCATGTTTCTTGAGATAAACATTCAATTATAAT
* ** *
900 CTGTTTTAACTAAAATGTAAAAAAAATTAAAGTTAAAATCAACTATGAGATTATAAAACCATTTA
65 CTGTTTTAACCAAAATGTAAAAAAAATTAAACATAAAATCAACTATGAGAATATAAAACCATTTA
965 AACTGAGTAATACGACTTTTGAAAGAATGGGTCACTATAAAT
130 AACTGAGTAATACGACTTTTGAAAGAATGGGTCACTATAAAT
* * * * * *
1007 GGACTTTAT-TTGCTAATGAAT-GCTTTTTTATTCATGTTTCTTGAGGTAGACATTTAATTATAC
1 AGACTTT-TCTT-CTCATGAATGGCTTTTTTATTCATGTTTCTTGAGATAAACATTCAATTATAA
* * ** *
1070 TCTGTTTTAACCAATAATGTAAAAAAAATTACACATCAAATCAGTTATGAGAATATAAAACCGTT
64 TCTGTTTTAACCAA-AATGTAAAAAAAATTAAACATAAAATCAACTATGAGAATATAAAACCATT
* ********** * *
1135 TAAAGTGAGTAATANNNNNNNNNNAGGAATGGGTGACTATAAAT
128 TAAACTGAGTAATACGACTTTTGAAAGAATGGGTCACTATAAAT
*
1179 AGACTTTTCTTCTCATGATTGGCTTTTTT
1 AGACTTTTCTTCTCATGAATGGCTTTTTT
1208 TGTATTTTTC
Statistics
Matches: 160, Mismatches: 35, Indels: 11
0.78 0.17 0.05
Matches are distributed among these distances:
170 1 0.01
171 68 0.43
172 91 0.57
ACGTcount: A:0.36, C:0.11, G:0.13, T:0.37
Consensus pattern (171 bp):
AGACTTTTCTTCTCATGAATGGCTTTTTTATTCATGTTTCTTGAGATAAACATTCAATTATAATC
TGTTTTAACCAAAATGTAAAAAAAATTAAACATAAAATCAACTATGAGAATATAAAACCATTTAA
ACTGAGTAATACGACTTTTGAAAGAATGGGTCACTATAAAT
Found at i:2329 original size:171 final size:170
Alignment explanation
Indices: 1851--8198 Score: 5270
Period size: 171 Copynumber: 37.2 Consensus size: 170
1841 NNNNNNNNNN
* * **
1851 TCTGTTTTAACCAAAAATGT-AAAAAATTTAACTTAAAATCAATTATCAGATTATAAAAACTTTT
1 TCTGTTTTAACCAAAAATGTAAAAAAATTGAACTTAAAATCAATT-TGAGATTAT-AAAACCATT
* ** * * * ** *
1915 TAAAGCGAATACCAAGACATTTGAAGGAATGGGTGACTATAAATAAACTTTTCTAACTAATGAAT
64 TAAAGCGAGTAATAAGGCTTTTGAAGGAATGGGTGACTATAAATAGACTTTTCTTGCCAATGAAT
* ** * *
1980 GCCTTTTTCTTCACATTTCATGAAGTAGACATTCAATTATAA
129 GTCTTTTTCTTCATGTTTCTTGAGGTAGACATTCAATTATAA
* * * ** * * *
2022 TCT-TTTCAATCAAAAATATAAAAATGTTAAACATAAAATCAGTTCT-ATGATTATAAAACCATT
1 TCTGTTTTAACCAAAAATGTAAAAAAATTGAACTTAAAATCAATT-TGA-GATTATAAAACCATT
* * ********* * *
2085 TAAAGTGAGCAATAANNNNNNNNNNA-GAATGGGTGACTATAAATAGACTTTTCTTGCTAATGAC
64 TAAAGCGAGTAATAA-GGCTTTTGAAGGAATGGGTGACTATAAATAGACTTTTCTTGCCAATGAA
* *
2149 TGCCTTTTTCTTCATGTTTCATGAGGTAGACATTCAATTATAA
128 TGTCTTTTTCTTCATGTTTCTTGAGGTAGACATTCAATTATAA
* * *
2192 TCTGTATTAACCAAAAATGTAAGAAAAATTGAACTTAAAATCAATTTGGGATTGTAAAACCATTT
1 TCTGTTTTAACCAAAAATGTAA-AAAAATTGAACTTAAAATCAATTTGAGATTATAAAACCATTT
* * * * *
2257 AAAGCGAGTAATTAGGCTTTTCAAGGAATGGGTGGCTATAAATAAACTTTTCTTACCAATGAATG
65 AAAGCGAGTAATAAGGCTTTTGAAGGAATGGGTGACTATAAATAGACTTTTCTTGCCAATGAATG
* * *
2322 TCTTTTTCTTCATATCTCTTGACGTAGACATTCAATTATAA
130 TCTTTTTCTTCATGTTTCTTGAGGTAGACATTCAATTATAA
* * * *
2363 TCTGTTTTAACCAAAAAAGTAAAAAATTTGAACTTAAAATCAATTTTGAGATTATAACACCATCT
1 TCTGTTTTAACCAAAAATGTAAAAAAATTGAACTTAAAATCAA-TTTGAGATTATAAAACCATTT
* * ** *
2428 AAAGCGAGTAATAAGGCTATTAAAGGAATGCAT-AGCTATAAATGGACTTTTCTTGCCAATGAAT
65 AAAGCGAGTAATAAGGCTTTTGAAGGAATGGGTGA-CTATAAATAGACTTTTCTTGCCAATGAAT
* * * *
2492 G-CTTTATTCTTCACGTTTTTTGATGTAGACATTCAACTATAA
129 GTCTTT-TTCTTCATGTTTCTTGAGGTAGACATTCAATTATAA
* * * * *
2534 TCTGTTTTAACCCAAAA-GTAAAAATATTGAA-TATAAAATCAATTTTAAAATAATAAAACCATT
1 TCTGTTTTAACCAAAAATGTAAAAAAATTGAACT-TAAAATCAA-TTTGAGATTATAAAACCATT
* * *
2597 TAACA-CGAGTAATAAGGCTTTTGAAGGAATGAGTGACTATAAATGGACTTTT-TGTGCTAATGA
64 TAA-AGCGAGTAATAAGGCTTTTGAAGGAATGGGTGACTATAAATAGACTTTTCT-TGCCAATGA
** ** * ** * * * *
2660 ATGAGTTTTTCTTCACATCTCTCAATGTAGATATTCACTTACAA
127 ATGTCTTTTTCTTCATGTTTCTTGAGGTAGACATTCAATTATAA
* ** * *
2704 TCTGTTTTAACCAAAAAAGTAAAAAAAATTGAACACAAAATCAACTTTGAGATAATAAAATCATT
1 TCTGTTTTAACCAAAAATGT-AAAAAAATTGAACTTAAAATCAA-TTTGAGATTATAAAACCATT
* * * * * * * *
2769 TAAGGTGAGTAATAAGGCTTTTAAAGCAATGAGTGACTATAAATGGATTTTTCTTGCCAAAGAAT
64 TAAAGCGAGTAATAAGGCTTTTGAAGGAATGGGTGACTATAAATAGACTTTTCTTGCCAATGAAT
* ** ** *
2834 G-CATTTTTCTTTATAATTCTCAAGGTAGACATTCAATTATAG
129 GTC-TTTTTCTTCATGTTTCTTGAGGTAGACATTCAATTATAA
* * * * * * *
2876 TATGTTATAACCAAAAATGTAAAAAAATTCAACTTAAAATTAATTTTCAGATTATAAAACTATTA
1 TCTGTTTTAACCAAAAATGTAAAAAAATTGAACTTAAAATCAA-TTTGAGATTATAAAACCATTT
* *
2941 AAAGCAAGTAATAAGGCTTTTGAAGGAAT-GGTGACTATAAATAGACTTTT-TTGTCAATGAAT-
65 AAAGCGAGTAATAAGGCTTTTGAAGGAATGGGTGACTATAAATAGACTTTTCTTGCCAATGAATG
* * *
3003 TCATTTTTCTTAAAATG-TT-TTCAGGTAGACATTCAATTATAG
130 TC-TTTTTCTT--CATGTTTCTTGAGGTAGACATTCAATTATAA
* * * * * *
3045 TTTGTTTTAACTAAAAAAGTAAACAAATTGTACTTAAAATCAATTTTGATATTATAAAACCATTT
1 TCTGTTTTAACCAAAAATGTAAAAAAATTGAACTTAAAATCAA-TTTGAGATTATAAAACCATTT
* ** * * * * * *
3110 AAAGCGAGTAATAAGGCTTTTAAAAAAATAGGTAACAATAAATAGACTTTTCTTACTAATGAATA
65 AAAGCGAGTAATAAGGCTTTTGAAGGAATGGGTGACTATAAATAGACTTTTCTTGCCAATGAATG
* * * *
3175 CCTTTTTCTTCATATTT-TTCAATGTAGACATTCAATTATAA
130 TCTTTTTCTTCATGTTTCTT-GAGGTAGACATTCAATTATAA
* ** * * * **
3216 TCTGTTGTAATGAAAAAAGTGAAAAAATTGAACATAAAATCAATTTTGAGAAAATAAAACCATTT
1 TCTGTTTTAACCAAAAATGTAAAAAAATTGAACTTAAAATCAA-TTTGAGATTATAAAACCATTT
* ** * * *
3281 AAAGCGAGTAATAAGGCTTTTGAAAGAATATGTCACTATAAATAGACTTCTCTTGCTAATGAATG
65 AAAGCGAGTAATAAGGCTTTTGAAGGAATGGGTGACTATAAATAGACTTTTCTTGCCAATGAATG
** * **
3346 -CTTTTTCTTCACATCTCTTGACATAGACATTCAATTATAA
130 TCTTTTTCTTCATGTTTCTTGAGGTAGACATTCAATTATAA
* * * *
3386 TCTGTTTTAACACCAAAA-GTAAAAATATTGAACATAAAATCAATTTTGAGATTATAAAACTATT
1 TCTGTTTTAAC-CAAAAATGTAAAAAAATTGAACTTAAAATCAA-TTTGAGATTATAAAACCATT
* *
3450 TAAAGCGAGTAATAAGGCTTTTGAAGGAATTGGTGACTATAAATAAACTTTTCTTGCCAATGAAT
64 TAAAGCGAGTAATAAGGCTTTTGAAGGAATGGGTGACTATAAATAGACTTTTCTTGCCAATGAAT
* * * * *
3515 ATCTTTTTCTTCACGTTTCTCGATGTAGACATTCAACTATAA
129 GTCTTTTTCTTCATGTTTCTTGAGGTAGACATTCAATTATAA
* * * * * *
3557 TCTGTTTTAACCAAAAAAGTAAAAATATTGAACATAAATTGAATTTTGAGATAATAAAACCATTT
1 TCTGTTTTAACCAAAAATGTAAAAAAATTGAACTTAAAATCAA-TTTGAGATTATAAAACCATTT
* * ** ** * * *
3622 AAAGTGAGAAATAATCCTTTCAAAGAAATGTGTGACTATAAATGGACTTTTCTTGCCAATGAATG
65 AAAGCGAGTAATAAGGCTTTTGAAGGAATGGGTGACTATAAATAGACTTTTCTTGCCAATGAATG
* * *
3687 TCTTTTTCTTCATATATT-TTGATGTAGACATTCTATTATAA
130 TCTTTTTCTTCATGT-TTCTTGAGGTAGACATTCAATTATAA
* ** * *
3728 TCTGTTTTAACCAAAAATATAAAAAAAATTGAACACAAAATAAATTTTGAGATAATAAAACCATT
1 TCTGTTTTAACCAAAAATGT-AAAAAAATTGAACTTAAAATCAA-TTTGAGATTATAAAACCATT
* * *
3793 TAAAGCGAGTAATAAGGGTTTGGAAGGAATGGGTGACTATAAAT-GAACTTTTCTTGTCAATGAA
64 TAAAGCGAGTAATAAGGCTTTTGAAGGAATGGGTGACTATAAATAG-ACTTTTCTTGCCAATGAA
* * * * *
3857 TGTCTTTTTCTTCACGTTTCTCGATGTAGATATTTCAACTATAA
128 TGTCTTTTTCTTCATGTTTCTTGAGGTAGACA-TTCAATTATAA
* * * * * *
3901 TCTATTTTAATCAAATAA-GTAAAAATATTGAGCATAAAATCAATTTTGAGATAATAAAACCATT
1 TCTGTTTTAACCAAA-AATGTAAAAAAATTGAACTTAAAATCAA-TTTGAGATTATAAAACCATT
* * ** * * * * *
3965 TAAAGTGAGTAATAAGGCCTTTGAAAAAATAGGTGACTATATATAAACTTTTCCTACCAATGAAT
64 TAAAGCGAGTAATAAGGCTTTTGAAGGAATGGGTGACTATAAATAGACTTTTCTTGCCAATGAAT
* * * * *
4030 GCCTTTTTCTTCATATTTTTTGATGTAGAAATTCAATTATAA
129 GTCTTTTTCTTCATGTTTCTTGAGGTAGACATTCAATTATAA
* ** * * * *
4072 TCTGTTCTAATGAAAAA-GTAAAAAAAATGAGCATAAAATCAAATTTGAGATAATAAAACCATTT
1 TCTGTTTTAACCAAAAATGTAAAAAAATTGAACTTAAAATC-AATTTGAGATTATAAAACCATTT
* * * *
4136 ACAA-CGAGTAATAAGG-TATTTGAAAGAATTGGTGACTATAAATGGACTTTTCTTGCTAATGAA
65 A-AAGCGAGTAATAAGGCT-TTTGAAGGAATGGGTGACTATAAATAGACTTTTCTTGCCAATGAA
* ** * *
4199 TGCCTTTTTCTTCACATCTCTTGATGTAGACATTCAATTATAA
128 TGTCTTTTTCTTCATGTTTCTTGAGGTAGACATTCAATTATAA
* * * * *
4242 TATGTTTTAACTAAAAAAGTAAAAAAAAATTGAACTTAAAAAT-ATTTTTGAGATTATAAAATCA
1 TCTGTTTTAACCAAAAATGT--AAAAAAATTGAACTT-AAAATCA-ATTTGAGATTATAAAACCA
** * ** * * * *
4306 TTTAAAATGAGTAATAAGGCTTCTGAAGGAATAAGTGTCTATAAATGGACTTTTCCTACCAATGA
62 TTTAAAGCGAGTAATAAGGCTTTTGAAGGAATGGGTGACTATAAATAGACTTTTCTTGCCAATGA
* * * * *
4371 ATGCCTTTTTCTTCATGTTTCTCGATGTAGACATTAAACTATAA
127 ATGTCTTTTTCTTCATGTTTCTTGAGGTAGACATTCAATTATAA
* ** ** * * * * *
4415 TCTATTTTAATAAAAAAAATAAAAATATTGAACATAAAATCAATTTTGTGGTAATAAAACCATTT
1 TCTGTTTTAACCAAAAATGTAAAAAAATTGAACTTAAAATCAA-TTTGAGATTATAAAACCATTT
* * * * * * * *
4480 -AAGTGAGTAATAAAGCTTTCGAAGGAATGAGTGACTATAAATGGATTTTTTTTACCAATGAATG
65 AAAGCGAGTAATAAGGCTTTTGAAGGAATGGGTGACTATAAATAGACTTTTCTTGCCAATGAATG
* ** * ** *
4544 CCTTTTTCTTCACATCTCTCAACGTAGACATTCAATTATAA
130 TCTTTTTCTTCATGTTTCTTGAGGTAGACATTCAATTATAA
* * * * * *
4585 TCTATTTTAACTAAAAAAGTAAAAATAATTGAACATAAAATCAATTTTCAGATAATAAAACCATT
1 TCTGTTTTAACCAAAAATGTAAAAA-AATTGAACTTAAAATCAA-TTTGAGATTATAAAACCATT
* * * * *
4650 TAAAGTGAGTAATAAGACTTTTGAAGGAATGGGTGACTATAAATGGACTTTTCTTGTCAATAAAT
64 TAAAGCGAGTAATAAGGCTTTTGAAGGAATGGGTGACTATAAATAGACTTTTCTTGCCAATGAAT
* * * *
4715 GTCTTTTTCTTCACGTCTCTTGACGTAGATATTCAATTATAA
129 GTCTTTTTCTTCATGTTTCTTGAGGTAGACATTCAATTATAA
* * * * *
4757 TCTGTTTTAATCAAGAAA-GTAAAACAAATTAAACTTAAAATCACTTTTAAGATTATAAAACTAT
1 TCTGTTTTAACCAA-AAATGTAAAA-AAATTGAACTTAAAATCA-ATTTGAGATTATAAAACCAT
* * * * * ** * **
4821 TTCAAGCGAGTAGTAAGGCTTTTAAAAGAATGAGAAACTATAAATCA-ACTTTTGTTTTCAATGA
63 TTAAAGCGAGTAATAAGGCTTTTGAAGGAATGGGTGACTATAAAT-AGACTTTTCTTGCCAATGA
* * * * *
4885 ATG-CTTTTTTTTTCACGTTTCTT-AGGGTAAACATTTAA-T-CAA
127 ATGTC-TTTTTCTTCATGTTTCTTGA-GGTAGACATTCAATTATAA
* * * * * * **********
4927 T-TCTTTTAACAAAAAATGT-AAAACATTTAACTTAAAATCAATTATAAAATNNNNNNNNNNTTT
1 TCTGTTTTAACCAAAAATGTAAAAAAATTGAACTTAAAATCAATT-TGAGATTATAAAACCATTT
* * * * * * **
4990 AAAGTGAGTAATAAGGCTTTTAAAAGAATAGGAGGCTATAAATTTACTTTTCTTGCCAATGAATG
65 AAAGCGAGTAATAAGGCTTTTGAAGGAATGGGTGACTATAAATAGACTTTTCTTGCCAATGAATG
* ** *
5055 TCTTTTTCTTTACATTTCATGAGGTAGACATTCAATTATAA
130 TCTTTTTCTTCATGTTTCTTGAGGTAGACATTCAATTATAA
* * ********** *
5096 TCTGGTTTAAGCAAANNNNNNNNNNAATTGAACTTAAAATCAATTTTGAGATTATAAAACTATTT
1 TCTGTTTTAACCAAAAATGTAAAAAAATTGAACTTAAAATCAA-TTTGAGATTATAAAACCATTT
** * ** *
5161 AAATTGAGTAATACGGCTTTTGAAGGAATGGGTGACTATAAATAGACTTTTCTTATCAAGGAATG
65 AAAGCGAGTAATAAGGCTTTTGAAGGAATGGGTGACTATAAATAGACTTTTCTTGCCAATGAATG
* * ** * *
5226 CCTTTTTCTTCACGTTTCTCAAAGTTGACATTCAATTATAA
130 TCTTTTTCTTCATGTTTCTTGAGGTAGACATTCAATTATAA
* * ** * * *
5267 TTTGTTTTAA-CTAAAATACAAAAAAATTGAACTTATAATCAATTTTGAGAGTATAAAACTATTT
1 TCTGTTTTAACCAAAAATGTAAAAAAATTGAACTTAAAATCAA-TTTGAGATTATAAAACCATTT
* * * * * *
5331 ATAGTGAGTAATATGGCTTTTGAAGGGATGGGTGACTAGAAATAGACTTTTCTTACCAATGAATG
65 AAAGCGAGTAATAAGGCTTTTGAAGGAATGGGTGACTATAAATAGACTTTTCTTGCCAATGAATG
** * *
5396 TCTTTTTCTTCATGTTTCTCAATGTAGAGATTCAATTATAA
130 TCTTTTTCTTCATGTTTCTTGAGGTAGACATTCAATTATAA
* * *
5437 T-TCGTTTTAATCAATAATGTAAAAATAATTGAA-TCTAAAATCAATTATGAGATTGTAAAACCA
1 TCT-GTTTTAACCAAAAATGTAAAAA-AATTGAACT-TAAAATCAATT-TGAGATTATAAAACCA
* * * *
5500 TATAAAGCGAGTAATAAGGCTTTTGAAGGAATGAGAGACTATAAATGGACTTTTCTTGCCAATGA
62 TTTAAAGCGAGTAATAAGGCTTTTGAAGGAATGGGTGACTATAAATAGACTTTTCTTGCCAATGA
* * * * * * *
5565 AAG-CTTTTTTTTTCACGTTTCTTGAGCTAAACTTTAAATTATAGCA
127 ATGTC-TTTTTCTTCATGTTTCTTGAGGTAGACATTCAATTATA--A
* * * * *
5611 T-T-TTTTAACAAAAAATATAAAAAAATTAAATTTAAAATCAATTATGAGATTATAAAACCATAT
1 TCTGTTTTAACCAAAAATGTAAAAAAATTGAACTTAAAATCAATT-TGAGATTATAAAACCATTT
* * * *
5674 AAAACGTGTAATAAGGCTTTTGAAGGAATGGGTGACTATAAATGGACTTTTCTTGCCAATGAATA
65 AAAGCGAGTAATAAGGCTTTTGAAGGAATGGGTGACTATAAATAGACTTTTCTTGCCAATGAATG
* * * *
5739 CCTTTTTCTTTACGTTT-TATGAGGTAGAAATTCAATTATAA
130 TCTTTTTCTTCATGTTTCT-TGAGGTAGACATTCAATTATAA
* ** * * **********
5780 TCTATTTTAACCAAAAATACATAAAAATTAAACTTAAAATCAATTTTGAGATTANNNNNNNNNNT
1 TCTGTTTTAACCAAAAATGTAAAAAAATTGAACTTAAAATCAA-TTTGAGATTATAAAACCATTT
* *** * * *
5845 AAAGCGAGTAATAAGGCTTTTGAACGAATGAAAGACTATAAATATATTTTTCATGCCAATGAATG
65 AAAGCGAGTAATAAGGCTTTTGAAGGAATGGGTGACTATAAATAGACTTTTCTTGCCAATGAATG
* ** * ** * **
5910 -CTTTTTTTTCACATCTCTCAAGGTAGACATTCAATTGTGG
130 TCTTTTTCTTCATGTTTCTTGAGGTAGACATTCAATTATAA
* **** * * ** *
5950 TATGTTTTGTTAAAAAATATAAAAAAATTCAACTTAAAATCAATTACAAGTTTATAAAACCATTT
1 TCTGTTTTAACCAAAAATGTAAAAAAATTGAACTTAAAATCAATT-TGAGATTATAAAACCATTT
* ** * * * *
6015 AAAGCGAGTAATAAAGCTTTTGAAGGAATAAGAGACTATAAATGGAGTTCTT-TT-CCAAATAAA
65 AAAGCGAGTAATAAGGCTTTTGAAGGAATGGGTGACTATAAATAGACTT-TTCTTGCC-AATGAA
* * ** * * * *
6078 TGTGTTTTTCTACATGTTTCTCAAGGGAGGCATTGAATTATAG
128 TGTCTTTTTCTTCATGTTTCTTGAGGTAGACATTCAATTATAA
* * *
6121 TCTGTTTT-ACTGAAAAATG-AAAAAAATTTAATTTAAAATCAATTATGAGATTATAAAACCATT
1 TCTGTTTTAAC-CAAAAATGTAAAAAAATTGAACTTAAAATCAATT-TGAGATTATAAAACCATT
* * * * ** *
6184 TAAAGCAAGTTATAAGGCTTATGAAAGAATGGACGACTATAAAT-GAACTTTTCTTGCCAATCAA
64 TAAAGCGAGTAATAAGGCTTTTGAAGGAATGGGTGACTATAAATAG-ACTTTTCTTGCCAATGAA
** * ** * * *
6248 TACCTCTTTCTTCACATTTCTTAATGTAGACAATCAATTATAA
128 TGTCTTTTTCTTCATGTTTCTTGAGGTAGACATTCAATTATAA
* * *
6291 TCTGTTTTAACCAAAAA-GTAAAAAAAAAAATTGAACTTAATATGGATTTTGAGATTATAAAACC
1 TCTGTTTTAACCAAAAATGT----AAAAAAATTGAACTTAAAAT-CAATTTGAGATTATAAAACC
* * * * * * *
6355 ATTTAAAGTGGGTAATAACGCTTTTAAAGGAATGAGTGACTATAAATAAACTTTTCTTACCAATG
61 ATTTAAAGCGAGTAATAAGGCTTTTGAAGGAATGGGTGACTATAAATAGACTTTTCTTGCCAATG
* * *
6420 AATGTCATTTTCTTCATGTTTGTTGAGGCAGACATTCAATTATAA
126 AATGTCTTTTTCTTCATGTTTCTTGAGGTAGACATTCAATTATAA
* *
6465 TCTGTTTTAACTAAAAATGTAAAAAAAATTGAACTTAAAATCAATTATAAGATTATAAAACCATT
1 TCTGTTTTAACCAAAAATGT-AAAAAAATTGAACTTAAAATCAATT-TGAGATTATAAAACCATT
* ** * * * * * *
6530 TAAACCGAGTAATAAGGCTTTTGAAAAAATTGATGACTCTAAACAAACTTTCCTTGCCAATGAAT
64 TAAAGCGAGTAATAAGGCTTTTGAAGGAATGGGTGACTATAAATAGACTTTTCTTGCCAATGAAT
* ** * *
6595 G-CTTTTTTCTTCACGTTTCTCAAGGTAAACATTCAATTATAC
129 GTC-TTTTTCTTCATGTTTCTTGAGGTAGACATTCAATTATAA
* * * * * * * * *
6637 TTTGCTTTAACTAAAAATGT-AAAAATTTCAAGTTAAAATGAATTATGAGTTTATAAAACTATTT
1 TCTGTTTTAACCAAAAATGTAAAAAAATTGAACTTAAAATCAATT-TGAGATTATAAAACCATTT
* * * * **
6701 AAACCGAGTAAGAGGGCTTTTGAAGGAATAGGTGACTATAAATAGACTTTTCTTGTGAATGAATG
65 AAAGCGAGTAATAAGGCTTTTGAAGGAATGGGTGACTATAAATAGACTTTTCTTGCCAATGAATG
* *
6766 -CTTTTTCCTTCATGTTTCATGAGGTAGATATTCAATTATAA
130 TCTTTTT-CTTCATGTTTCTTGAGGTAGACATTCAATTATAA
* * * **
6807 TCTGTTTTAACTAATAATGAAAAAAAATTGAACCCAAAATCAATTATGAGATTAT-AAACCATTT
1 TCTGTTTTAACCAAAAATGTAAAAAAATTGAACTTAAAATCAATT-TGAGATTATAAAACCATTT
* * * *
6871 AAAGTGAGTAATAAGGCCTTTGAAGGAATAGGTGACTATAAATGGAC-TTTCTTGCCAATGAAT-
65 AAAGCGAGTAATAAGGCTTTTGAAGGAATGGGTGACTATAAATAGACTTTTCTTGCCAATGAATG
* * * * * **
6934 TCATTTTTTTTTCATATTTTTTAAGGTAGACATCCAATTATTG
130 TC--TTTTTCTTCATGTTTCTTGAGGTAGACATTCAATTATAA
** * * * ** *
6977 TCTGTTTTAATAAAAAAAGTAAAAAAAAATTGAATTTAAAATTAATTTTGACCTTATAAAATCAT
1 TCTGTTTTAACCAAAAATGT--AAAAAAATTGAACTTAAAATCAA-TTTGAGATTATAAAACCAT
* * * * *
7042 TTAAAGTGAGTAATAAAGTTTTTGAAGGAATGGGAGACTATCAATAGACTTTTCTTGCCAATGAA
63 TTAAAGCGAGTAATAAGGCTTTTGAAGGAATGGGTGACTATAAATAGACTTTTCTTGCCAATGAA
* * ** *
7107 TTTATTTTTCTTCATGTTTCTCAAGGTAGACATTCAATTATAG
128 TGTCTTTTTCTTCATGTTTCTTGAGGTAGACATTCAATTATAA
* * * * *
7150 TATGTTTTAACTAAAAATATAAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACAATTT
1 TCTGTTTTAACCAAAAATGTAAAAAAATTGAACTTAAAATCAATT-TGAGATTATAAAACCATTT
** * * ** * * * *
7215 AAAATGAGTAATAAGACTTTAGAAGGAATACGAGACTATAAATGGACTTTTCTT-CTAAATAAAT
65 AAAGCGAGTAATAAGGCTTTTGAAGGAATGGGTGACTATAAATAGACTTTTCTTGC-CAATGAAT
** *
7279 GAGTTTTTCTATACA--TTTCTTGAGGTA-AGCATTCAATTATAG
129 GTCTTTTTCT-T-CATGTTTCTTGAGGTAGA-CATTCAATTATAA
* **
7321 TCTATTTTAATGAAAAATGT-AAAAAATT-ATACTT-AAATCAATTATGAGATTATAAAACCATT
1 TCTGTTTTAACCAAAAATGTAAAAAAATTGA-ACTTAAAATCAATT-TGAGATTATAAAACCATT
* * * **
7383 TAAAGCGAGTGATAAGGCTTATGAAGGAATGGGTGACTATAAATGGACTTTTCTCACCAATGAAT
64 TAAAGCGAGTAATAAGGCTTTTGAAGGAATGGGTGACTATAAATAGACTTTTCTTGCCAATGAAT
* * * * *
7448 G-CATGTTTCTTTACGTTTCTTGAGGTAGACATTCGATTATAG
129 GTC-TTTTTCTTCATGTTTCTTGAGGTAGACATTCAATTATAA
* * * * *
7490 TCTGTTTTAATCAAAAATATAAAAAAATTTAACTTAAAATTAATTATGAGATTATAAAACTATTT
1 TCTGTTTTAACCAAAAATGTAAAAAAATTGAACTTAAAATCAATT-TGAGATTATAAAACCATTT
* ** * * * *
7555 AAAGCGAGTATTAAGGCTTTTGAAGGAATAAAG-GACTATAAATTGACTTTTCTTTCAAATAAAT
65 AAAGCGAGTAATAAGGCTTTTGAAGGAAT-GGGTGACTATAAATAGACTTTTCTTGCCAATGAAT
* ** * * ** * *
7619 AG---GTTT-AACACGTTT-TTCAAGAAAGGCATTCAATTATAG
129 -GTCTTTTTCTTCATGTTTCTT-GAGGTAGACATTCAATTATAA
** * * * *
7658 TCTG-TTTAATAAAAAATGTGAAAAAATTCAACTAAAAATCAATTATGAGATTATAAAACCATAT
1 TCTGTTTTAACCAAAAATGTAAAAAAATTGAACTTAAAATCAATT-TGAGATTATAAAACCATTT
* * *
7722 AAAGCGAGTAATAAGGCTTTTGAAGAAATGGGTGACTATAAAT-GAACTTTTCTTACCAATAAAT
65 AAAGCGAGTAATAAGGCTTTTGAAGGAATGGGTGACTATAAATAG-ACTTTTCTTGCCAATGAAT
* ** *
7786 -ACTTTTTTCTTCATGTTTCACGAGGTAGATATTCAATTATAA
129 GTC-TTTTTCTTCATGTTTCTTGAGGTAGACATTCAATTATAA
* * ** * * *
7828 TCTATTTCAACCAAAAACATAAAAAAATTGGACTTATAATCAATTTTGAGATTATAAAATCATTT
1 TCTGTTTTAACCAAAAATGTAAAAAAATTGAACTTAAAATCAA-TTTGAGATTATAAAACCATTT
* * * *
7893 AAAGTGAGTAATAAGGCTTTTGAAGGAATGAGTGACCATAAATAGACTTTT-TTGCCAATGAATA
65 AAAGCGAGTAATAAGGCTTTTGAAGGAATGGGTGACTATAAATAGACTTTTCTTGCCAATGAATG
* * * * **
7957 CCTTTTTCTTTACGTTTCTTAACATAGACATTCAATTATAA
130 TCTTTTTCTTCATGTTTCTTGAGGTAGACATTCAATTATAA
* * * *
7998 -CTCGTTTTAACCAATAATGTAAAAAAAAATTGAACCTAAAAGCAATTATGAGATTATAAAATCA
1 TCT-GTTTTAACCAAAAATGT--AAAAAAATTGAACTTAAAATCAATT-TGAGATTATAAAACCA
* * * * *
8062 TTTAAAATC-AGTAATAAGGCTTGTGAAGGAATGGGAGACTATAAATAGACTTTTCTTGTCAATA
62 TTT-AAAGCGAGTAATAAGGCTTTTGAAGGAATGGGTGACTATAAATAGACTTTTCTTGCCAATG
* ** ** * *
8126 AAT-TTTTTTTCTTCACATTTCTCAAGGTATACATTCAATTATTA
126 AATGTCTTTTTCTTCATGTTTCTTGAGGTAGACATTCAATTATAA
* *
8170 TCTGTTTTAACCAAAAAAGCAAAAAAATT
1 TCTGTTTTAACCAAAAATGTAAAAAAATT
8199 CATTATAAAA
Statistics
Matches: 5032, Mismatches: 994, Indels: 303
0.80 0.16 0.05
Matches are distributed among these distances:
166 4 0.00
167 211 0.04
168 36 0.01
169 304 0.06
170 1457 0.29
171 1535 0.31
172 1045 0.21
173 275 0.05
174 159 0.03
175 6 0.00
ACGTcount: A:0.39, C:0.12, G:0.13, T:0.35
Consensus pattern (170 bp):
TCTGTTTTAACCAAAAATGTAAAAAAATTGAACTTAAAATCAATTTGAGATTATAAAACCATTTA
AAGCGAGTAATAAGGCTTTTGAAGGAATGGGTGACTATAAATAGACTTTTCTTGCCAATGAATGT
CTTTTTCTTCATGTTTCTTGAGGTAGACATTCAATTATAA
Found at i:8484 original size:170 final size:168
Alignment explanation
Indices: 8200--9639 Score: 1076
Period size: 170 Copynumber: 8.4 Consensus size: 168
8190 AAAAAAATTC
* * * * * *
8200 ATTATAAAACCATTTAAAGCGAGTAGTAAGGCTTTT-TAGAGAATGATAGAATATAAATGAAGTT
1 ATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAG-GAATGAGAGACTATAAATGGACTT
* ** * * ** *
8264 TTCTTCCAAATAAATGAGTTTTTCCACACGTTTCCTAAGTCAGACATTCAATTATAGTTTGTTTT
65 TTCTT-GAAATAAATGAGTTTTT-CTTACGTTTCTTGAGAGAGACATTCAATTATAGTCTGTTTT
* *
8329 AATGAAAAATATAAAAAATTTAACTTAAAATCAATTATGAG
128 AATAAAAAATATAAAAAATTGAACTTAAAATCAATTATGAG
* * * *
8370 ACTATAAAATCATTTAAAGCGAGTAATAAGGCTTTTAAAGGAATGGGAGACTATAAATGGACTTT
1 ATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAGGAATGAGAGACTATAAATGGACTTT
* * * *
8435 CCTTCGAAATAAATGAGTTTTTCTATATGTTTTTTGAGAGAGACATTCAATTGTAGTCTGTTTTA
66 TCTT-GAAATAAATGAGTTTTTCT-TACGTTTCTTGAGAGAGACATTCAATTATAGTCTGTTTTA
* * * * * * *
8500 ATGAAAAGTAT-AGAAATTCAACTGAAAATTAATTATAAG
129 ATAAAAAATATAAAAAATTGAACTTAAAATCAATTATGAG
* * * * *
8539 ATTATAAAACTATTTAAAGCGAGTAATAGGGCTTTTGAAGGAATGGGTGACTATAAATGAACTTT
1 ATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAGGAATGAGAGACTATAAATGGACTTT
* * ** *** * *
8604 TCTTGCTAATGAATGCCTTTTT-TTAACGTTTCACAAG-GTAGACATTCAATTATAATCTATTTT
66 TCTTG-AAATAAATGAGTTTTTCTT-ACGTTTCTTGAGAG-AGACATTCAATTATAGTCTGTTTT
* *
8667 AA-ATAAAAATGTATAAAAATTGAACTTAAAATCAATTTTGAG
128 AATA-AAAAATATA-AAAAATTGAACTTAAAATCAATTATGAG
* * * * * * * *
8709 ATTATATAACCATTTAAAGTGAGTAATATGGCTTTTAAAGTAATAAGTGACTATAAATAGACTTT
1 ATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAGGAATGAGAGACTATAAATGGACTTT
* * * * * **
8774 TCTTGCCAATAAATGCA-TTTTTCTTCATGTTTCATGAGATAAACATTCAATTATAACCTGTTTT
66 TCTTG-AAATAAATG-AGTTTTTCTT-ACGTTTCTTGAGAGAGACATTCAATTATAGTCTGTTTT
* * * * *
8838 AACTAATAATATAAAAAAAATTAAACCTAATATCAATTATGAG
128 AA-TAA-AAAATATAAAAAATTGAACTTAAAATCAATTATGAG
** * * * * * * * *
8881 ATTATAAAATTATTTAAAGCGAGTAGTACGGCTTGTGAAGGGATAAGAAACTATAAATGGGCTTC
1 ATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAGGAATGAGAGACTATAAATGGACTTT
* * *** * * * *
8946 TCTTGGCAATGAATTCTTTTTTTCTCATGTTTCTTGAG-GTAGACATTCAAATATAGTCTATTTT
66 TCTT-GAAAT-AAATGAGTTTTTCTTACGTTTCTTGAGAG-AGACATTCAATTATAGTCTGTTTT
* * *
9010 AACTAAAAAAGTAAAAGAAAATTGAACATAAAATCAATTTTGAG
128 AA-TAAAAAA-TATAA-AAAATTGAACTTAAAATCAATTATGAG
* * * * * *
9054 AGTATAAATCCATTTAAACCAAGTAATAAGGCTTTTGAAAGAATG-GAAGACTATAAATGAACTT
1 ATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAGGAATGAG-AGACTATAAATGGACTT
* ** * * ** * * **
9118 TTCTTGACAATGAATGCCTTTTTCTTCACATTTCATGAGTTAGACATTTACTTATAAACTGTTTT
65 TTCTTGA-AATAAATGAGTTTTTCTT-ACGTTTCTTGAGAGAGACATTCAATTATAGTCTG-TTT
* * *
9183 TACTAAAAAAGTAAAAAAAAATTGAACTTAAAATCAATTTTGAG
127 TAATAAAAAA-T-ATAAAAAATTGAACTTAAAATCAATTATGAG
* * *
9227 ATTGTAAAACCATATAAAGCGAGTAATAAGGCTTTTGAAGAAATGAGAGACTATAAATGGACTTT
1 ATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAGGAATGAGAGACTATAAATGGACTTT
* * * * * * *
9292 TCTTGCCAATGAAT-ACTTTTTTCTT-CGTGTTTCTTCAAATAAACATTCAATTATAGTCTG-TT
66 TCTTG-AAATAAATGA-GTTTTTCTTAC--GTTTCTTGAGAGAGACATTCAATTATAGTCTGTTT
* * * * *
9354 TAAGT-TAAAATGTAAAAACATTCAACGTATAATCAATTATGAG
127 TAA-TAAAAAATATAAAAA-ATTGAACTTAAAATCAATTATGAG
* * * *
9397 TTTATAAAACCATTTAAAGCAAGTAGTAAGGCCTTTGAAGGAATGAGAGACTATAAATGGACTTT
1 ATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAGGAATGAGAGACTATAAATGGAC-TT
* * ** ** *
9462 TTTTTCAAATAAATGAGTTTTTTCAACACCGTTT-TCAAGGGA-AGCATTC-ATTATAGTCTGTT
65 TTCTTGAAATAAATGAG-TTTTTC-TTA-CGTTTCTTGAGAGAGA-CATTCAATTATAGTCTGTT
* * ** *
9524 TTAGTAAAAAATGATACAAAACTCAAACTT-AAATCCAATTTTGAG
126 TTAATAAAAAAT-ATA-AAAAATTGAACTTAAAAT-CAATTATGAG
* * * * * *
9569 ATTAATAAAACTATTTAAAGTGAGTAATAAGGCTTTTGAAGGAATGGGTGACTATAAATAGATTT
1 ATT-ATAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAGGAATGAGAGACTATAAATGGACTT
9634 TTCTTG
65 TTCTTG
9640 CTAATGAGTA
Statistics
Matches: 1004, Mismatches: 220, Indels: 90
0.76 0.17 0.07
Matches are distributed among these distances:
167 2 0.00
168 38 0.04
169 102 0.10
170 304 0.30
171 81 0.08
172 164 0.16
173 302 0.30
174 11 0.01
ACGTcount: A:0.39, C:0.11, G:0.14, T:0.35
Consensus pattern (168 bp):
ATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAGGAATGAGAGACTATAAATGGACTTT
TCTTGAAATAAATGAGTTTTTCTTACGTTTCTTGAGAGAGACATTCAATTATAGTCTGTTTTAAT
AAAAAATATAAAAAATTGAACTTAAAATCAATTATGAG
Found at i:9110 original size:173 final size:170
Alignment explanation
Indices: 8200--9639 Score: 1078
Period size: 173 Copynumber: 8.4 Consensus size: 170
8190 AAAAAAATTC
* * * * * *
8200 ATTATAAAACCATTTAAAGCGAGTAGTAAGGCTTTTTAGAGAATGATAGAATATAAATGAAGTTT
1 ATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAAGAATGA-AGACTATAAATGGACTTT
* * * * * * * * *
8265 TCTT-CCAAATAAATGAGTTTTTCCACACGTTTCCT-AAGTCAGACATTCAATTATAGTTTGTTT
65 TCTTGGC-AATGAATG-CTTTTTTCTCATGTTTCATGAGGT-AGACATTCAATTATAGTCTGTTT
* * *
8328 TAA-TGAAAAA-TATAAAAAATTTAACTTAAAATCAATTATGAG
127 TAACTAAAAAAGTAAAAAAAATTGAACTTAAAATCAATTATGAG
* * *
8370 ACTATAAAATCATTTAAAGCGAGTAATAAGGCTTTT-AAAGGAATGGGAGACTATAAATGGACTT
1 ATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAA-GAAT-GAAGACTATAAATGGACTT
* * * * ** * ** *
8434 TCCTTCGAAATAAATGAGTTTTTCTATATGTTTTTTGAGAG-AGACATTCAATTGTAGTCTGTTT
64 TTCTTGGCAATGAATGCTTTTTTCT-CATGTTTCATGAG-GTAGACATTCAATTATAGTCTGTTT
* * * * * * *
8498 TAA-T-GAAAAGT-ATAGAAATTCAACTGAAAATTAATTATAAG
127 TAACTAAAAAAGTAAAAAAAATTGAACTTAAAATCAATTATGAG
* * * ** *
8539 ATTATAAAACTATTTAAAGCGAGTAATAGGGCTTTTGAAGGAATGGGTGACTATAAATGAACTTT
1 ATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAAGAAT-GAAGACTATAAATGGACTTT
* * ** * *
8604 TCTT-GCTAATGAATGCCTTTTTT-TAACGTTTCACAAGGTAGACATTCAATTATAATCTATTTT
65 TCTTGGC-AATGAATG-CTTTTTTCTCATGTTTCATGAGGTAGACATTCAATTATAGTCTGTTTT
* * * *
8667 AAATAAAAATGT-ATAAAAATTGAACTTAAAATCAATTTTGAG
128 AACTAAAAAAGTAAAAAAAATTGAACTTAAAATCAATTATGAG
* * * *
8709 ATTATATAACCATTTAAAGTGAGTAATATGGCTTTT-AAAGTAAT-AAGTGACTATAAATAGACT
1 ATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAAG-AATGAA--GACTATAAATGGACT
* * * * * **
8772 TTTCTTGCCAATAAATGCATTTTTCTTCATGTTTCATGAGATAAACATTCAATTATAACCTGTTT
63 TTTCTTGGCAATGAATGCTTTTTTC-TCATGTTTCATGAGGTAGACATTCAATTATAGTCTGTTT
* * * *
8837 TAACTAATAATA-TAAAAAAAATTAAACCTAATATCAATTATGAG
127 TAACTAA-AAAAGTAAAAAAAATTGAACTTAAAATCAATTATGAG
** * * * * * *
8881 ATTATAAAATTATTTAAAGCGAGTAGTACGGCTTGTGAAGGGAT-AAGAAACTATAAATGGGCTT
1 ATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAAGAATGAAG--ACTATAAATGGACTT
* * * * *
8945 CTCTTGGCAATGAATTCTTTTTTTCTCATGTTTCTTGAGGTAGACATTCAAATATAGTCTATTTT
64 TTCTTGGCAATGAATGC-TTTTTTCTCATGTTTCATGAGGTAGACATTCAATTATAGTCTGTTTT
* *
9010 AACTAAAAAAGTAAAAGAAAATTGAACATAAAATCAATTTTGAG
128 AACTAAAAAAGTAAAA-AAAATTGAACTTAAAATCAATTATGAG
* * * * *
9054 AGTATAAATCCATTTAAACCAAGTAATAAGGCTTTTGAAAGAATGGAAGACTATAAATGAACTTT
1 ATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAAGAAT-GAAGACTATAAATGGACTTT
* * ** * * * ** *
9119 TCTTGACAATGAATGCCTTTTTCTTCACATTTCATGAGTTAGACATTTACTTATAAACTGTTTTT
65 TCTTGGCAATGAATGCTTTTTTC-TCATGTTTCATGAGGTAGACATTCAATTATAGTCTGTTTTA
*
9184 ACTAAAAAAGTAAAAAAAAATTGAACTTAAAATCAATTTTGAG
129 ACTAAAAAAGT-AAAAAAAATTGAACTTAAAATCAATTATGAG
* *
9227 ATTGTAAAACCATATAAAGCGAGTAATAAGGCTTTTG-AAGAAATGAGAGACTATAAATGGACTT
1 ATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAAG-AATGA-AGACTATAAATGGACTT
* * * * * ** *
9291 TTCTTGCCAATGAATACTTTTTTCTTCGTGTTTCTTCAAATAAACATTCAATTATAGTCTG-TTT
64 TTCTTGGCAATGAATGCTTTTTTC-TCATGTTTCATGAGGTAGACATTCAATTATAGTCTGTTTT
* * * * * * *
9355 AAGTTAAAATGT-AAAAACATTCAACGTATAATCAATTATGAG
128 AACTAAAAAAGTAAAAAAAATTGAACTTAAAATCAATTATGAG
* * * * *
9397 TTTATAAAACCATTTAAAGCAAGTAGTAAGGCCTTTGAAGGAATGAGAGACTATAAATGGACTTT
1 ATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAAGAATGA-AGACTATAAATGGACTTT
** * * * * * *
9462 T-TTTTCAAATAAATGAGTTTTTTCAACACCGTTTTCAAG-GGAAG-CATTC-ATTATAGTCTGT
65 TCTTGGC-AATGAATG-CTTTTTTC-TCA-TG-TTTCATGAGGTAGACATTCAATTATAGTCTGT
* * * ** *
9523 TTT-AGTAAAAAA-TGATACAAAACTCAAACTT-AAATCCAATTTTGAG
125 TTTAACTAAAAAAGT-A-AAAAAAATTGAACTTAAAAT-CAATTATGAG
* * * ** * *
9569 ATTAATAAAACTATTTAAAGTGAGTAATAAGGCTTTTGAAGGAATGGGTGACTATAAATAGATTT
1 ATT-ATAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAAGAAT-GAAGACTATAAATGGACTT
9634 TTCTTG
64 TTCTTG
9640 CTAATGAGTA
Statistics
Matches: 1005, Mismatches: 219, Indels: 88
0.77 0.17 0.07
Matches are distributed among these distances:
167 1 0.00
168 31 0.03
169 114 0.11
170 298 0.30
171 65 0.06
172 175 0.17
173 311 0.31
174 7 0.01
175 3 0.00
ACGTcount: A:0.39, C:0.11, G:0.14, T:0.35
Consensus pattern (170 bp):
ATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAAGAATGAAGACTATAAATGGACTTTT
CTTGGCAATGAATGCTTTTTTCTCATGTTTCATGAGGTAGACATTCAATTATAGTCTGTTTTAAC
TAAAAAAGTAAAAAAAATTGAACTTAAAATCAATTATGAG
Found at i:10992 original size:170 final size:171
Alignment explanation
Indices: 10679--11080 Score: 501
Period size: 170 Copynumber: 2.3 Consensus size: 171
10669 TGAGTACCTT
* * *
10679 TTTCTTAACGTTTCTC-AACGTAGACATTCAATTATAATCTGTTTTAACTAAAAAAGTAAAAAGA
1 TTTCTTCATGTTTCTCTAA-GTAGACATTCAATTATAATCTG-TTTAACCAAAAAAGTAAAAAGA
* *
10743 ATTGAACTTTAAATCAATTTTGAGATTATAAAATCATTTAAAGTGAGTAATAACACTTTTAAAGC
64 ATTGAACTTCAAATCAATTATGAGATTATAAAATCATTTAAAGTGAGTAATAACACTTTTAAAGC
*** *** *
10808 AATGGGTGACTATAAATAGACTTTTCTTGTTAATGAATG-TCTG
129 AATGAAAGACTATAAATAGACTTTTCTTACCAATGAATGCT-TA
* *
10851 TTTCTTCATGTTTCT-TGATGTAGACATTCAATTATAATCTAGTTTAACCAAAATA-TAAAAA-A
1 TTTCTTCATGTTTCTCT-AAGTAGACATTCAATTATAATCT-GTTTAACCAAAAAAGTAAAAAGA
* ** *
10913 AGTTGAACTTCAAATCAATTATGAGATTAT-AAATCATTTAAAGTGAGTAATTAGGCTTTTGAAG
64 A-TTGAACTTCAAATCAATTATGAGATTATAAAATCATTTAAAGTGAGTAATAACACTTTTAAAG
*
10977 GAATGAAAGACTATAAATAGACTTTTCTTACCAATGAATGCTTA
128 CAATGAAAGACTATAAATAGACTTTTCTTACCAATGAATGCTTA
* * *
11021 TTTCTTCATGTTTCTCTAAGTAGACATTCAATTATAGTCTTTTTTAACCAAAAATGTAAA
1 TTTCTTCATGTTTCTCTAAGTAGACATTCAATTATAATC-TGTTTAACCAAAAAAGTAAA
11081 NNNNNNNNNN
Statistics
Matches: 198, Mismatches: 24, Indels: 17
0.83 0.10 0.07
Matches are distributed among these distances:
170 112 0.57
171 39 0.20
172 45 0.23
173 2 0.01
ACGTcount: A:0.38, C:0.12, G:0.12, T:0.38
Consensus pattern (171 bp):
TTTCTTCATGTTTCTCTAAGTAGACATTCAATTATAATCTGTTTAACCAAAAAAGTAAAAAGAAT
TGAACTTCAAATCAATTATGAGATTATAAAATCATTTAAAGTGAGTAATAACACTTTTAAAGCAA
TGAAAGACTATAAATAGACTTTTCTTACCAATGAATGCTTA
Found at i:12796 original size:173 final size:171
Alignment explanation
Indices: 12357--13156 Score: 564
Period size: 171 Copynumber: 4.7 Consensus size: 171
12347 NNNNNNNAAT
* *
12357 TATAATCTGGTTTAACAAAAAAATATAAATAAAATTGAACCTAAAATCAATTTTGAGATTACAAA
1 TATAATCTGTTTTAAC-AAAAAATATAAATAAAATTGAACTTAAAATCAATTTTGAGATTACAAA
*
12422 ACTATTTAAAGTGAGTAACAAGGCTTTTGAAAGAATGGGTGACTATAAATAAACTTTTCTTGCTA
65 AC-ATTTAAAGTGAGTAACAAGGCTTTTGAAAGAATGGGTGACTATAAATAAACTTTTCTTGCCA
*
12487 ATAAATTTATTTTTCTTCATGTTTTTCGAGGTAGAAAGTCAAC
129 ATAAATTTATTTTTCTTCATGTTCTTCGAGGTAGAAAGTCAAC
* * * * *******
12530 TATAGTTTGTTTTAACCAACAATATAAA-AAAATTGAACTTAAAATCAATTTTGAGANNNNNNNN
1 TATAATCTGTTTTAACAAAAAATATAAATAAAATTGAACTTAAAATCAATTTTGAGA-TTACAAA
** * * * * *
12594 NNATTTAAACTAAGTAATAAGGCTTTTGAAAGAATGGGTGACTATTAATGAACTTTTCTTGCCAA
65 ACATTTAAAGTGAGTAACAAGGCTTTTGAAAGAATGGGTGACTATAAATAAACTTTTCTTGCCAA
* * * *
12659 TGAATGTCTCTTTTTTTTACAT-TTCTT-GAGGTAGACAGTCAA-
130 TAAAT-T-TATTTTTCTT-CATGTTCTTCGAGGTAGAAAGTCAAC
* * *
12701 TCATAATCTATTTTAACAAAAAATGTAAATAAAATTGAACTTAAAATCAATTTTGGGATTACAAA
1 T-ATAATCTGTTTTAACAAAAAATATAAATAAAATTGAACTTAAAATCAATTTTGAGATTACAAA
* * * * **
12766 ATCATTTAAAGTGAGTAACAAGGTTTTTGAAAGAATTGGTGATTATAAATAGACTTTT-TTGGTA
65 A-CATTTAAAGTGAGTAACAAGGCTTTTGAAAGAATGGGTGACTATAAATAAACTTTTCTTGCCA
* ** * * * *** *
12830 ATGAATGGATTTCTCTTCATATTTCTT-AAGGTAGACCTTCAAT
129 ATAAATTTATTTTTCTTCAT-GTTCTTCGAGGTAGAAAGTCAAC
* * * ********** *
12873 TATAAACTGTTTTAACCAAAAATTTAAA-AANNNNNNNNNNAAAATCAATTATGAGATTACAAAA
1 TATAATCTGTTTTAACAAAAAATATAAATAAAATTGAACTTAAAATCAATTTTGAGATTACAAAA
** * * * * *
12937 CCATTTAAAGCAATTAATAAGGCTTTTGAAGGAATGGGAGATTATAAA-AGAACTTTTCTT-CTC
66 -CATTTAAAGTGAGTAACAAGGCTTTTGAAAGAATGGGTGACTATAAATA-AACTTTTCTTGC-C
* * * * * * * ** * *
13000 AATGAA-TGACTTTTTCTACATG-CCTCCTAAGGCAGGCATTCAAA
128 AATAAATTTA-TTTTTCTTCATGTTCTTC-GAGGTAGAAAGTCAAC
* * * * * * * **
13044 TA-AAGACTGTTTTAATAAAAAATGTAAA-AAAATTTAATTTAAAATCAATTATGAGAATGTAAA
1 TATAA-TCTGTTTTAACAAAAAATATAAATAAAATTGAACTTAAAATCAATTTTGAGATTACAAA
* * *
13107 GCTATTTAAAGTGAGTAATAAGGCTTTTGAAGGAATGGGTGACTATAAAT
65 AC-ATTTAAAGTGAGTAACAAGGCTTTTGAAAGAATGGGTGACTATAAAT
13157 NNNNNNNNNN
Statistics
Matches: 487, Mismatches: 121, Indels: 39
0.75 0.19 0.06
Matches are distributed among these distances:
169 6 0.01
170 80 0.16
171 243 0.50
172 57 0.12
173 98 0.20
174 3 0.01
ACGTcount: A:0.40, C:0.10, G:0.14, T:0.34
Consensus pattern (171 bp):
TATAATCTGTTTTAACAAAAAATATAAATAAAATTGAACTTAAAATCAATTTTGAGATTACAAAA
CATTTAAAGTGAGTAACAAGGCTTTTGAAAGAATGGGTGACTATAAATAAACTTTTCTTGCCAAT
AAATTTATTTTTCTTCATGTTCTTCGAGGTAGAAAGTCAAC
Found at i:13007 original size:343 final size:345
Alignment explanation
Indices: 12358--13156 Score: 762
Period size: 343 Copynumber: 2.3 Consensus size: 345
12348 NNNNNNAATT
*
12358 ATAATCTGGTTTAACAAAAAAATATAAATAAAATTGAACCTAAAATCAATTTTGAGATTACAAAA
1 ATAATCTAGTTTAACAAAAAAATATAAATAAAATTGAACCTAAAATCAATTTTGAGATTACAAAA
12423 CTATTTAAAGTGAGTAACAAGGCTTTTGAAAGAATGGGTGACTATAAATAAACTTTTCTTGCTAA
66 CTATTTAAAGTGAGTAACAAGGCTTTTGAAAGAATGGGTGACTATAAATAAACTTTTCTTGCTAA
** * * * *** *
12488 TAAATTTATTTTTCTTCATGTTTTTCGAGGTAGAAAGTCAACTATAGTTTGTTTTAACCAACAAT
131 TAAATGGATTTCTCTTCATATTTTTCAAGGTAGAAAGTCAACTATAAACTGTTTTAACCAAAAAT
* **********
12553 ATAAAAAAATTGAACTTAAAATCAATTTTGAGANNNNNNNNNNATTTAAACTAAGTAATAAGGCT
196 ATAAAAAAATTGAACTTAAAATCAATTATGAGATTACAAAACCATTTAAACTAAGTAATAAGGCT
* * *
12618 TTTGAAAGAATGGGTGACTATTAATGAACTTTTCTTGCCAATGAATGTCTCTTTTTTTTACATTT
261 TTTGAAAGAATGGGAGACTATAAAAGAACTTTTCTTGCCAATGAATGTCTCTTTTTTTTACATTT
12683 CTTGAGGTAGACAGTCAATC
326 CTTGAGGTAGACAGTCAATC
* * * *
12703 ATAATCTATTTTAAC-AAAAAATGTAAATAAAATTGAACTTAAAATCAATTTTGGGATTACAAAA
1 ATAATCTAGTTTAACAAAAAAATATAAATAAAATTGAACCTAAAATCAATTTTGAGATTACAAAA
* * * * *
12767 -TCATTTAAAGTGAGTAACAAGGTTTTTGAAAGAATTGGTGATTATAAATAGACTTTT-TTGGTA
66 CT-ATTTAAAGTGAGTAACAAGGCTTTTGAAAGAATGGGTGACTATAAATAAACTTTTCTTGCTA
* *** *
12830 ATGAATGGATTTCTCTTCATATTTCTT-AAGGTAGACCTTCAATTATAAACTGTTTTAACCAAAA
130 ATAAATGGATTTCTCTTCATATTT-TTCAAGGTAGAAAGTCAACTATAAACTGTTTTAACCAAAA
* ********** *
12894 ATTTAAAAANNNNNNNNNNAAAATCAATTATGAGATTACAAAACCATTTAAAGC-AATTAATAAG
194 ATATAAAAAAATTGAACTTAAAATCAATTATGAGATTACAAAACCATTTAAA-CTAAGTAATAAG
* * * *
12958 GCTTTTGAAGGAATGGGAGATTATAAAAGAACTTTTCTT-CTCAATGAATG--AC-TTTTTCTAC
258 GCTTTTGAAAGAATGGGAGACTATAAAAGAACTTTTCTTGC-CAATGAATGTCTCTTTTTTTTAC
* * * * * *
13019 ATGCCTCCTAAGGCAGGCATTCAA--
322 AT--TTCTTGAGGTAGACAGTCAATC
* * * * ** * * **
13043 ATAAAGACT-GTTTTAA-TAAAAAATGTAAA-AAAATTTAATTTAAAATCAATTATGAGAATGTA
1 AT-AA-TCTAG-TTTAACAAAAAAATATAAATAAAATTGAACCTAAAATCAATTTTGAGATTACA
* * *
13105 AAGCTATTTAAAGTGAGTAATAAGGCTTTTGAAGGAATGGGTGACTATAAAT
63 AAACTATTTAAAGTGAGTAACAAGGCTTTTGAAAGAATGGGTGACTATAAAT
13157 NNNNNNNNNN
Statistics
Matches: 368, Mismatches: 75, Indels: 26
0.78 0.16 0.06
Matches are distributed among these distances:
340 12 0.03
341 73 0.20
342 35 0.10
343 135 0.37
344 100 0.27
345 13 0.04
ACGTcount: A:0.40, C:0.10, G:0.14, T:0.34
Consensus pattern (345 bp):
ATAATCTAGTTTAACAAAAAAATATAAATAAAATTGAACCTAAAATCAATTTTGAGATTACAAAA
CTATTTAAAGTGAGTAACAAGGCTTTTGAAAGAATGGGTGACTATAAATAAACTTTTCTTGCTAA
TAAATGGATTTCTCTTCATATTTTTCAAGGTAGAAAGTCAACTATAAACTGTTTTAACCAAAAAT
ATAAAAAAATTGAACTTAAAATCAATTATGAGATTACAAAACCATTTAAACTAAGTAATAAGGCT
TTTGAAAGAATGGGAGACTATAAAAGAACTTTTCTTGCCAATGAATGTCTCTTTTTTTTACATTT
CTTGAGGTAGACAGTCAATC
Found at i:13728 original size:173 final size:172
Alignment explanation
Indices: 13332--14079 Score: 538
Period size: 173 Copynumber: 4.4 Consensus size: 172
13322 TTATGATGTT
* * * *
13332 ATAAAA-TCATTTAAAGCGAGTAACAAGGCTTTTGAAGAAATGGGAGACTATAAATAGACTTTTC
1 ATAAAACT-ATTTAAAGTGAGTAATAAGGCTTTTGAAGGAATGGGAGACTATAAATAGACTTTCC
** * * * ** * * * * *
13396 TAACCAACGAAT-GCTTTTTTCCTCACATTTCTTAAGGTAGACATT-AGATTATAGTCTATTTCA
65 TTGCCAACAAATAGC-CTTTTCTTCATGTTTCTCAATGTAGACATTCA-ATTATAATCTGTTTTA
* * * ** * * *
13459 ATAAAAAATGT-AAAAACATTTGAGTTAAAATTAATTATGAGATA
128 ACAAAAAAAGTAAAAAAAATTAAACTTAAAATCAATTTTGAGATA
* * * * * * *
13503 ACAAAACCT-TTTAAAGCGAGCATTAAGGCTTTTGAAGGAATGAGAGACTATAAATAGAGTTTTC
1 ATAAAA-CTATTTAAAGTGAGTAATAAGGCTTTTGAAGGAATGGGAGACTATAAATAGACTTTCC
* * **********
13567 TTGCTAACGAAT-GCCCTTTTCTTCATGTTTCTCAATGTAGACATNNNNNNNNNNTCTGTTTTAA
65 TTGCCAACAAATAG-CCTTTTCTTCATGTTTCTCAATGTAGACATTCAATTATAATCTGTTTTAA
*
13631 CAAAAAAAGTAAAAAAAAGTTAAACTTAATATCAATTTTGAGATA
129 CAAAAAAAGTAAAAAAAA-TTAAACTTAAAATCAATTTTGAGATA
* * * *
13676 ATCAAA-TCATTTAAAGTGAGTAATATGGCTTTTGAAGGAACGGGAGACTATAAATGGACTTTCC
1 ATAAAACT-ATTTAAAGTGAGTAATAAGGCTTTTGAAGGAATGGGAGACTATAAATAGACTTTCC
* * * *
13740 TTGCCAATAAATAGCTTTTTCTTTATGTTTCTCGATGTAGACATTCAATTATAATCTGTTTTAAC
65 TTGCCAACAAATAGCCTTTTCTTCATGTTTCTCAATGTAGACATTCAATTATAATCTGTTTTAAC
* * * *
13805 TAAAAAAGTAAAACAAATTGAACTTAAAATCAATTTTGAGATT
130 AAAAAAAGTAAAAAAAATTAAACTTAAAATCAATTTTGAGATA
*
13848 ATAAAACTATTTAAAGTGAGTAATAAGGCTTTTGAAGGAATGGGAGACTATAAAT-GAACTTTTC
1 ATAAAACTATTTAAAGTGAGTAATAAGGCTTTTGAAGGAATGGGAGACTATAAATAG-ACTTTCC
* ** ** * * * * * *
13912 TAT--CAA-ATAACAGGGTTTTTCCACACGTATT-TCGAGGTA-AGCATTCAACTATAGTTTGTT
65 T-TGCCAACA-AATA-GCCTTTTCTTCATGT-TTCTCAATGTAGA-CATTCAATTATAATCTGTT
** * * * * * *
13972 TTAATGAAAAATGT--AAAAAATTCAGCTTAAAATCAATTATGAAAGA
125 TTAACAAAAAAAGTAAAAAAAATTAAACTTAAAATCAATTTTGAGATA
* * * *
14018 ATAAAACCATTTAAAGTGAGTAATAAGGCTTTTGTAA-AAATGGGTGACTATAAATGGACTTT
1 ATAAAACTATTTAAAGTGAGTAATAAGGCTTTTG-AAGGAATGGGAGACTATAAATAGACTTT
14080 TCTTATTGTG
Statistics
Matches: 464, Mismatches: 95, Indels: 37
0.78 0.16 0.06
Matches are distributed among these distances:
170 80 0.17
171 115 0.25
172 131 0.28
173 137 0.30
174 1 0.00
ACGTcount: A:0.39, C:0.11, G:0.15, T:0.33
Consensus pattern (172 bp):
ATAAAACTATTTAAAGTGAGTAATAAGGCTTTTGAAGGAATGGGAGACTATAAATAGACTTTCCT
TGCCAACAAATAGCCTTTTCTTCATGTTTCTCAATGTAGACATTCAATTATAATCTGTTTTAACA
AAAAAAGTAAAAAAAATTAAACTTAAAATCAATTTTGAGATA
Found at i:13897 original size:172 final size:169
Alignment explanation
Indices: 13303--15715 Score: 955
Period size: 172 Copynumber: 14.2 Consensus size: 169
13293 NNNNNNAAAC
* * * * * *
13303 AAATTTAACCTAAAATCAGTTATGATG-TTATAAAA-TCATTTAAAGCGAGTAACAAGGCTTTTG
1 AAATTGAACTTAAAATCAATTATGA-GATAATAAAACT-ATTTAAAGTGAGTAATAAGGCTTTTG
* * ** * * *
13366 AAGAAATGGGAGACTATAAATAGACTTTTCTAACCAACGAATGCTTTTTTCCTCACATTTCTTAA
64 AAGGAATGGGAGACTATAAATGGACTTTTCTTGCCAACAAATGC-TTTTTCCTCACGTTTCTCAA
* *
13431 GGTAGACATT-AGATTATAGTCTATTTCAATAAAAAATGTAAAA
128 GGTAGACATTCA-ATTATAGTCTGTTTTAATAAAAAA-GTAAAA
* * * * * * *
13474 ACATTTG-AGTTAAAATTAATTATGAGATAACAAAACCT-TTTAAAGCGAGCATTAAGGCTTTTG
1 A-AATTGAACTTAAAATCAATTATGAGATAATAAAA-CTATTTAAAGTGAGTAATAAGGCTTTTG
* * * * * * * *
13537 AAGGAATGAGAGACTATAAATAGAGTTTTCTTGCTAACGAATGCCCTTTTCTTCATGTTTCTCAA
64 AAGGAATGGGAGACTATAAATGGACTTTTCTTGCCAACAAATG-CTTTTTCCTCACGTTTCTCAA
* ********** *
13602 TGTAGACATNNNNNNNNNNTCTGTTTTAACAAAAAAAGTAAAAA
128 GGTAGACATTCAATTATAGTCTGTTTTAA-TAAAAAAGT-AAAA
* * * * *
13646 AAAGTTAAACTTAATATCAATTTTGAGATAATCAAA-TCATTTAAAGTGAGTAATATGGCTTTTG
1 AAA-TTGAACTTAAAATCAATTATGAGATAATAAAACT-ATTTAAAGTGAGTAATAAGGCTTTTG
* * * * * * *
13710 AAGGAACGGGAGACTATAAATGGACTTTCCTTGCCAATAAATAGCTTTTTCTTTATGTTTCTCGA
64 AAGGAATGGGAGACTATAAATGGACTTTTCTTGCCAACAAAT-GCTTTTTCCTCACGTTTCTCAA
* *
13775 TGTAGACATTCAATTATAATCTGTTTTAACTAAAAAAGTAAAA
128 GGTAGACATTCAATTATAGTCTGTTTTAA-TAAAAAAGTAAAA
* *
13818 CAAATTGAACTTAAAATCAATTTTGAGATTATAAAACTATTTAAAGTGAGTAATAAGGCTTTTGA
1 -AAATTGAACTTAAAATCAATTATGAGATAATAAAACTATTTAAAGTGAGTAATAAGGCTTTTGA
* * * * * * *
13883 AGGAATGGGAGACTATAAATGAACTTTTCTAT-CAAATAACAGGGTTTTTCCACACGTATT-TCG
65 AGGAATGGGAGACTATAAATGGACTTTTCT-TGCCAACAA-ATGCTTTTTCCTCACGT-TTCTCA
* * *
13946 AGGTA-AGCATTCAACTATAGTTTGTTTTAATGAAAAATGT-AAA
127 AGGTAGA-CATTCAATTATAGTCTGTTTTAAT-AAAAAAGTAAAA
* * * * *
13989 AAATTCAGCTTAAAATCAATTATGAAAGAATAAAACCATTTAAAGTGAGTAATAAGGCTTTTGTA
1 AAATTGAACTTAAAATCAATTATGAGATAATAAAACTATTTAAAGTGAGTAATAAGGCTTTTG-A
* * * * * * **
14054 A-AAATGGGTGACTATAAATGGACTTTTCTT-------ATTG--TGTTCAC-GAGGTAGACATTC
65 AGGAATGGGAGACTATAAATGGACTTTTCTTGCCAACAAATGCTTTTTC-CTCACGT-TTC--TC
* * * * * * *
14108 AA-TTATA-ATCTGTCGTAACTA-AATATG---TAAAAAAATTAACTTAAATCA
126 AAGGTAGACA--T-TC--AATTATAGTCTGTTTTAATAAAA--AA-GTAAA--A
* * * ** *
14156 ATATTTGAGA-TTATAAAACTATTTAAAGTGAG-TAATAAGGCT-TTTAAA--G-G-AATAGGTG
1 A-AATTGA-ACTTA-AAATC-AATT--A-TGAGATAATAAAACTATTTAAAGTGAGTAATAAG-G
* * * * ** ** * * * **
14214 AC-TATAAATAGACTTTTGTTACTAATGAAT-GTCTTTT-TT---ATC--ATG-TTTCTTAAGGT
58 -CTTTTGAA-GGA-ATGGGAGACT-ATAAATGGACTTTTCTTGCCAACAAATGCTTT-TT--CCT
** * * ** *** * ** * * *** *
14270 -A-GACTCTCAA-ATATAATTTGTTTTATCCAAT-AATATTAA-AACAATTAAACCTA
116 CACGTTTCTCAAGGTAGACATTCAATTAT--AGTCTGTTTTAATAAAAAAGTAA--AA
* * *
14323 AAA------------TCAATTATGAGATTATAAAACCATTTAAAGCT-TGTAATAAGG-TCTTTG
1 AAATTGAACTTAAAATCAATTATGAGATAATAAAACTATTTAAAG-TGAGTAATAAGGCT-TTTG
* * * * ** *
14374 ATGCAATGGGAGACTATAAAGGGACTTTTCTTGTCAATGAATGTCTTTTT-CTCATGTTT-TCCA
64 AAGGAATGGGAGACTATAAATGGACTTTTCTTGCCAACAAATG-CTTTTTCCTCACGTTTCT-CA
* *
14437 AGGTAGACATTCAATTATAGTCTATTTTAATGAAAAATGT-AAA
127 AGGTAGACATTCAATTATAGTCTGTTTTAAT-AAAAAAGTAAAA
* * * * * *
14480 AAGTTCAACTTAAAATCAATTATGATATTATAAAACCT-TTTAAAGTGAGTAGTAAGGCTTTTAA
1 AAATTGAACTTAAAATCAATTATGAGATAATAAAA-CTATTTAAAGTGAGTAATAAGGCTTTTGA
* * * * * * * * * *
14544 AGGAATGGGTGACTATAAATGAACTTTTCTTTCAAATAAATGAGTTTTTTCACATGTTTTTCAAG
65 AGGAATGGGAGACTATAAATGGACTTTTCTTGCCAACAAATG-CTTTTTCCTCACGTTTCTCAAG
* * *
14609 GTAGGCACTCAATTATAGTCTGTTTTAATGAAAAA-TATAAA
129 GTAGACATTCAATTATAGTCTGTTTTAATAAAAAAGTA-AAA
* * * ***
14650 AAATTCAACTTAAAATCAATTATGAGATTATAAAA-TCAGTTAAAACAAGTAATAAGGCTTTTGA
1 AAATTGAACTTAAAATCAATTATGAGATAATAAAACT-ATTTAAAGTGAGTAATAAGGCTTTTGA
* ** * * * * *
14714 AGAAATGAAAGACTATAAATGGACTTTTATT-CCTAATAAATGGGTTTTTCCAT-ATGTTTCTCG
65 AGGAATGGGAGACTATAAATGGACTTTTCTTGCC-AACAAAT-GCTTTTTCC-TCACGTTTCTCA
** * * *
14777 AGACAGGCATTTAATTATAGTCTGTTTTAATGAAAAATGT-AAA
127 AGGTAGACATTCAATTATAGTCTGTTTTAAT-AAAAAAGTAAAA
* * * * *
14820 AACTTCAACTTAAAATCAATTATGAGACAATAAAACTATTTAAAGCGGGTAATAAGGCTTTTGAA
1 AAATTGAACTTAAAATCAATTATGAGATAATAAAACTATTTAAAGTGAGTAATAAGGCTTTTGAA
** * * ** ** * * * * *
14885 AAAATGAGTGACTATAAATACACTTTTCTTGCCAATGAATTCATTTCTT-TTCATGTTTCTTAAA
66 GGAATGGGAGACTATAAATGGACTTTTCTTGCCAACAAATGC-TTT-TTCCTCACGTTTCTCAAG
*
14949 GTAGACATTCAATTATAGTCTATTTTAATAAAAAATGTAAAGA
129 GTAGACATTCAATTATAGTCTGTTTTAATAAAAAA-GTAAA-A
** * * * *
14992 AAATTGAACTTAAAATCTTTTTTGAGATTATAAAA-TGATTTAAAGCGAGTAATAAGGTTTTTGA
1 AAATTGAACTTAAAATCAATTATGAGATAATAAAACT-ATTTAAAGTGAGTAATAAGGCTTTTGA
* * * * * * * * *
15056 GGGAATTGGAGACTCTGAATGGACTTTTCTT-CTCAATGAATTTCTTTTT-CTATATGTTT-TCT
65 AGGAATGGGAGACTATAAATGGACTTTTCTTGC-CAA-CAAATGCTTTTTCCT-CACGTTTCTC-
* * *
15118 GAGGCAGACATTCAATTATAGTCTGTTTTAATGAAAAATGTAAAA
126 AAGGTAGACATTCAATTATAGTCTGTTTTAAT-AAAAAAGTAAAA
* ** * * * * * *
15163 ACATAACAACTTAAAATCAATAATGAGATTATAAAACCATTTAGAGCGAGTAATAAGGCTTTTAA
1 AAAT-TGAACTTAAAATCAATTATGAGATAATAAAACTATTTAAAGTGAGTAATAAGGCTTTTGA
* * * * * * * *
15228 AAGAATGGGTGACTATAAATGGA-----CTTACCAATAAATACCTCTTTCTTCACATTTCTCAAG
65 AGGAATGGGAGACTATAAATGGACTTTTCTTGCCAACAAAT-GCTTTTTCCTCACGTTTCTCAAG
* * * * * *
15288 GTGGACATTCAATTATAATCTATTTTAACCAATAATGTAAAAA
129 GTAGACATTCAATTATAGTCTGTTTTAA-TAAAAAAGT-AAAA
* * * *
15331 AAATTGAACCTAAAATCAATTATGAGATTATAAAAACT-TTTAAAGCGAGTATTAAGGCTTTTGA
1 AAATTGAACTTAAAATCAATTATGAGATAAT-AAAACTATTTAAAGTGAGTAATAAGGCTTTTGA
* * ** * * * * ** *
15395 AGGAATAGGAGACTATAAATGGACTTTTCTTTCCAAGGAATGCTTTTTTCTTTATGTCTCTTGAT
65 AGGAATGGGAGACTATAAATGGACTTTTCTTGCCAACAAATGC-TTTTTCCTCACGTTTCTCAAG
* *
15460 GTAGACATTCAATTATAATCTGTTTTGACTAAAAAAGTAATAA
129 GTAGACATTCAATTATAGTCTGTTTT-AATAAAAAAGTAA-AA
* * * * *
15503 AAATTTGAACTTAAAATTAATTTTGAGATTATAAAACCATTTAAAGTGAGTAATCAGGCTTTTGA
1 AAA-TTGAACTTAAAATCAATTATGAGATAATAAAACTATTTAAAGTGAGTAATAAGGCTTTTGA
* * * * * * * * **
15568 AGGGATAGGTGATTATAAATGGACTTTTCTTTCCAATAAATTTACTTTTT-TTCATATTTCTCAA
65 AGGAATGGGAGACTATAAATGGACTTTTCTTGCCAACAAA--TGCTTTTTCCTCACGTTTCTCAA
* * * *
15632 GGTAAACATTCAACTATAGTCTGTTTTAACCAAATATA-TAAAAA
128 GGTAGACATTCAATTATAGTCTGTTTTAA-TAAA-AAAGT-AAAA
* *
15676 AAATTGAACTT-AAATCAATTTTGAGATTATAAAACTATTT
1 AAATTGAACTTAAAATCAATTATGAGATAATAAAACTATTT
15716 GAAGGAATTG
Statistics
Matches: 1701, Mismatches: 385, Indels: 312
0.71 0.16 0.13
Matches are distributed among these distances:
149 4 0.00
150 7 0.00
151 10 0.01
152 14 0.01
153 4 0.00
154 5 0.00
155 5 0.00
156 2 0.00
157 7 0.00
158 14 0.01
159 12 0.01
160 16 0.01
161 6 0.00
162 6 0.00
163 7 0.00
164 3 0.00
165 6 0.00
166 11 0.01
167 128 0.08
168 32 0.02
169 101 0.06
170 405 0.24
171 191 0.11
172 420 0.25
173 272 0.16
174 11 0.01
175 2 0.00
ACGTcount: A:0.39, C:0.11, G:0.14, T:0.36
Consensus pattern (169 bp):
AAATTGAACTTAAAATCAATTATGAGATAATAAAACTATTTAAAGTGAGTAATAAGGCTTTTGAA
GGAATGGGAGACTATAAATGGACTTTTCTTGCCAACAAATGCTTTTTCCTCACGTTTCTCAAGGT
AGACATTCAATTATAGTCTGTTTTAATAAAAAAGTAAAA
Found at i:14660 original size:170 final size:169
Alignment explanation
Indices: 14096--15715 Score: 1319
Period size: 170 Copynumber: 9.5 Consensus size: 169
14086 TGTGTTCACG
* ** * *
14096 AGGTAGACATTCAATTATAATCTGTCGTAACT-AAATATGTAAAAAAATT-AACTT-AAATCAAT
1 AGGTAGACATTCAATTATAGTCTGTTTTAA-TGAAAAATAT-AAAAAATTCAACTTAAAATCAAT
* * * * *
14158 ATTTGAGATTATAAAACTATTTAAAGTGAGTAATAAGGCTTTTAAAGGAATAGGTGACTATAAAT
64 -TATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAGGAATGGGTGACTATAAAT
* * * * *
14223 AGACTTTTGTTACTAATGAATGTCTTTTTT-ATCATGTTTCTT-A
128 GGACTTTTCTTTC-AATAAATGACTTTTTTCA-CATGTTT-TTCA
* * * * * * *
14266 AGGTAGAC-TCTCAAATATAATTTGTTTT-ATCCAATAATATTAAAACAATTAAACCTAAAATCA
1 AGGTAGACAT-TCAATTATAGTCTGTTTTAAT-GAAAAATA-TAAAA-AATTCAACTTAAAATCA
** * * *
14329 ATTATGAGATTATAAAACCATTTAAAGCTTGTAATAAGG-TCTTTGATGCAATGGGAGACTATAA
62 ATTATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCT-TTTGAAGGAATGGGTGACTATAA
* * * * *
14393 AGGGACTTTTCTTGTCAATGAATGTC-TTTTTCTCATGTTTTCCA
126 ATGGACTTTTCTT-TCAATAAATGACTTTTTTCACATGTTTTTCA
* * *
14437 AGGTAGACATTCAATTATAGTCTATTTTAATGAAAAATGTAAAAAGTTCAACTTAAAATCAATTA
1 AGGTAGACATTCAATTATAGTCTGTTTTAATGAAAAATATAAAAAATTCAACTTAAAATCAATTA
* * * * * *
14502 TGATATTATAAAACCTTTTAAAGTGAGTAGTAAGGCTTTTAAAGGAATGGGTGACTATAAATGAA
66 TGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAGGAATGGGTGACTATAAATGGA
*
14567 CTTTTCTTTCAAATAAATGAGTTTTTTCACATGTTTTTCA
131 CTTTTCTTTC-AATAAATGACTTTTTTCACATGTTTTTCA
* *
14607 AGGTAGGCACTCAATTATAGTCTGTTTTAATGAAAAATATAAAAAATTCAACTTAAAATCAATTA
1 AGGTAGACATTCAATTATAGTCTGTTTTAATGAAAAATATAAAAAATTCAACTTAAAATCAATTA
* * * * * ***
14672 TGAGATTATAAAATCAGTTAAAACAAGTAATAAGGCTTTTGAAGAAATGAAAGACTATAAATGGA
66 TGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAGGAATGGGTGACTATAAATGGA
* * ** * * * *
14737 CTTTTATTCCTAATAAATGGGTTTTTCCATATGTTTCTCG
131 CTTTTCTTTC-AATAAATGACTTTTTTCACATGTTTTTCA
** * * * *
14777 AGACAGGCATTTAATTATAGTCTGTTTTAATGAAAAATGTAAAAACTTCAACTTAAAATCAATTA
1 AGGTAGACATTCAATTATAGTCTGTTTTAATGAAAAATATAAAAAATTCAACTTAAAATCAATTA
** * * ** * **
14842 TGAGACAATAAAACTATTTAAAGCGGGTAATAAGGCTTTTGAAAAAATGAGTGACTATAAATACA
66 TGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAGGAATGGGTGACTATAAATGGA
* * * *
14907 CTTTTCTTGCCAATGAAT-TCATTTCTTT-TCATGTTTCTT-A
131 CTTTTCTT-TCAATAAATGAC-TTT-TTTCACATGTTT-TTCA
* * * * * **
14947 AAGTAGACATTCAATTATAGTCTATTTTAATAAAAAATGTAAAGAAAATTGAACTTAAAATCTTT
1 AGGTAGACATTCAATTATAGTCTGTTTTAATGAAAAATAT-AA-AAAATTCAACTTAAAATCAAT
* ** * * * * * *
15012 TTTGAGATTATAAAATGATTTAAAGCGAGTAATAAGGTTTTTGAGGGAATTGGAGACTCTGAATG
64 TATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAGGAATGGGTGACTATAAATG
* ** * *
15077 GACTTTTCTTCTCAATGAATTTC-TTTTTCTATATG-TTTTCTG
129 GACTTTTCTT-TCAATAAATGACTTTTTTC-ACATGTTTTTC-A
* * *
15119 AGGCAGACATTCAATTATAGTCTGTTTTAATGAAAAATGTAAAAACATAACAACTTAAAATCAAT
1 AGGTAGACATTCAATTATAGTCTGTTTTAATGAAAAATATAAAAA-AT-TCAACTTAAAATCAAT
* * * *
15184 AATGAGATTATAAAACCATTTAGAGCGAGTAATAAGGCTTTTAAAAGAATGGGTGACTATAAATG
64 TATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAGGAATGGGTGACTATAAATG
* *
15249 GAC-TTAC---CAATAAAT-ACCTCTTTCTTCACA--TTTCTCA
129 GACTTTTCTTTCAATAAATGA-CT-TTT-TTCACATGTTTTTCA
* * * ** * * * *
15286 AGGTGGACATTCAATTATAATCTATTTTAACCAATAATGTAAAAAAAATTGAACCTAAAATCAAT
1 AGGTAGACATTCAATTATAGTCTGTTTTAATGAA-AA-ATATAAAAAATTCAACTTAAAATCAAT
* * * * *
15351 TATGAGATTATAAAAACTTTTAAAGCGAGTATTAAGGCTTTTGAAGGAATAGGAGACTATAAATG
64 TATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAGGAATGGGTGACTATAAATG
** ** * *
15416 GACTTTTCTTTCCAAGGAATG-CTTTTTTCTTTATGTCTCTT-G
129 GACTTTTCTTT-CAATAAATGACTTTTTTC-ACATGT-TTTTCA
* * * * * * *
15458 ATGTAGACATTCAATTATAATCTGTTTTGACTAAAAAAGTAATAAAAATTTGAACTTAAAATTAA
1 AGGTAGACATTCAATTATAGTCTGTTTT-AATGAAAAA-T-ATAAAAAATTCAACTTAAAATCAA
* * * * * *
15523 TTTTGAGATTATAAAACCATTTAAAGTGAGTAATCAGGCTTTTGAAGGGATAGGTGATTATAAAT
63 TTATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAGGAATGGGTGACTATAAAT
* * * *
15588 GGACTTTTCTTTCCAATAAATTTACTTTTTT-TCATATTTCTCA
128 GGACTTTTCTTT-CAATAAA-TGACTTTTTTCACATGTTTTTCA
* * ** * *
15631 AGGTAAACATTCAACTATAGTCTGTTTTAACCAAATATATAAAAAAAATTGAACTT-AAATCAAT
1 AGGTAGACATTCAATTATAGTCTGTTTTAATGAAA-A-ATATAAAAAATTCAACTTAAAATCAAT
* *
15695 TTTGAGATTATAAAACTATTT
64 TATGAGATTATAAAACCATTT
15716 GAAGGAATTG
Statistics
Matches: 1162, Mismatches: 234, Indels: 107
0.77 0.16 0.07
Matches are distributed among these distances:
167 108 0.09
168 14 0.01
169 100 0.09
170 377 0.32
171 93 0.08
172 321 0.28
173 140 0.12
174 2 0.00
175 7 0.01
ACGTcount: A:0.39, C:0.11, G:0.14, T:0.37
Consensus pattern (169 bp):
AGGTAGACATTCAATTATAGTCTGTTTTAATGAAAAATATAAAAAATTCAACTTAAAATCAATTA
TGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAGGAATGGGTGACTATAAATGGA
CTTTTCTTTCAATAAATGACTTTTTTCACATGTTTTTCA
Found at i:15999 original size:172 final size:171
Alignment explanation
Indices: 15713--17974 Score: 1813
Period size: 172 Copynumber: 13.2 Consensus size: 171
15703 TATAAAACTA
* * *
15713 TTTGAAGGAATTG-GTGACTGTAAATCGACTTTTCTTACTAATGAATGT-CTTTTTCTTCACGTT
1 TTTGAAGGAA-TGAGTGACTATAAAT-GACTTTTCTTGCCAATGAAT-TCCTTTTTCTTCACGTT
* * * * *
15776 TCTTGAGATAGACATTCAATTATAGCCTATTTTAACT-AAAAATGTAAAAAAAATTAAACTTAAA
63 TCTTAAGATAGACATTCAATTATAGTCTGTTTTAA-TAAAAAATATAAAAAAAATTGAACTTAAA
* * * *
15840 ATCAATTTTGAAATTATAAAACTATTTAAAACGAGCAATTAGGCT
127 ATCAATTTTGAGATTATAAAACTATTTAAAGCGAGTAATAAGGCT
* * **
15885 TTTGAAGGAATGAGTGACTATAAATGCACTTTTCTTACCAATGAATTCATTTTTCTTCATATTTC
1 TTTGAAGGAATGAGTGACTATAAATG-ACTTTTCTTGCCAATGAATTCCTTTTTCTTCACGTTTC
* * * *
15950 TTGAGATAGACAATCAATTATAGTCTGTTTTAATAAAAAATATAAAAAAAATTAAACTTAAAATG
65 TTAAGATAGACATTCAATTATAGTCTGTTTTAATAAAAAATATAAAAAAAATTGAACTTAAAATC
* * *
16015 AATTTCGAGATTATAAAACCATTTAAAGTGAGTAATAAGGCT
130 AATTTTGAGATTATAAAACTATTTAAAGCGAGTAATAAGGCT
* * * *
16057 TTT-AAGAGAATCAGAGACTATAAATGAACTTTTCTT-CTCAATGAATT-TTTTTTCTACACGTT
1 TTTGAAG-GAATGAGTGACTATAAATG-ACTTTTCTTGC-CAATGAATTCCTTTTTCTTCACGTT
* * * ** **
16119 TCTTGAGACAAGA-ATTCAATTATAGTCTGTTTTAATAAAAAATGT-AAAAAAATACAGTTTAAA
63 TCTTAAGA-TAGACATTCAATTATAGTCTGTTTTAATAAAAAATATAAAAAAAATTGAACTTAAA
** * * * *
16182 ATCAATAATGAGATTATAAAACTATTTAAAACAAATAATAAGGAT
127 ATCAATTTTGAGATTATAAAACTATTTAAAGCGAGTAATAAGGCT
* * * * *
16227 TTTGAAAGAATGAGTGACTATAAATAGA-----CTTGCCAATAAATACCTTTTTCATCACATTTC
1 TTTGAAGGAATGAGTGACTATAAAT-GACTTTTCTTGCCAATGAATTCCTTTTTCTTCACGTTTC
* * * * * *
16287 TTAA-AGCAGATATTCAATTATAATCTATTTTAACT-AATAATGT-AAAAAAATTGAACTTAAAA
65 TTAAGA-TAGACATTCAATTATAGTCTGTTTTAA-TAAAAAATATAAAAAAAATTGAACTTAAAA
* * *
16349 TCAATTATGAGATTATAAAGACT-TTTAAAGCGAGTACTAGGGCT
128 TCAATTTTGAGATTATAAA-ACTATTTAAAGCGAGTAATAAGGCT
* * * * * * * * * *
16393 TTTGAAAGAATGGGAGACTATAAATAGATTTTTCTTGCCAAAGAATGCTTTTTTTTTTACGTCTC
1 TTTGAAGGAATGAGTGACTATAAAT-GACTTTTCTTGCCAATGAATTCCTTTTTCTTCACGTTTC
* * * * *
16458 TTAATG-TGGACATTCAATTATAAT-T-TTTT-ATGAGCAAAAA-AGGAAAAACAATAGAACTTA
65 TTAA-GATAGACATTCAATTATAGTCTGTTTTAAT-A--AAAAATA-TAAAAAAAATTGAACTTA
* * *
16518 AAATCAATTTTGAAATTATAAAA-TCATTTAAAGTGATTAATAAGGCT
125 AAATCAATTTTGAGATTATAAAACT-ATTTAAAGCGAGTAATAAGGCT
* * * **
16565 TTTGAAAGAATGGGTGACTATAAATGAACTTTTCTTGCCAATAAATTTATTTTTCTTCACGTTTC
1 TTTGAAGGAATGAGTGACTATAAATG-ACTTTTCTTGCCAATGAATTCCTTTTTCTTCACGTTTC
* * * * * * *
16630 TCAAGGTAGACATTCAACTATAGTATGTTTAAACT-AAAAATAT-AAAAAACTTGAACTCAAAAT
65 TTAAGATAGACATTCAATTATAGTCTGTTTTAA-TAAAAAATATAAAAAAAATTGAACTTAAAAT
* * *
16693 CAATTTTGAGATTATAAAA-TCATTTACA-CTAAATAATAAGGCT
129 CAATTTTGAGATTATAAAACT-ATTTAAAGC-GAGTAATAAGGCT
* * * * * *
16736 TTCGAAAGAATGAGTGACTATAAATGGACTTTTCTTACCAATGAATACCTTGTTCTTTACGTTTC
1 TTTGAAGGAATGAGTGACTATAAAT-GACTTTTCTTGCCAATGAATTCCTTTTTCTTCACGTTTC
* * * * * * *
16801 TTGAGGTAGACATTCAATTATAATTTGTTTTAATTAAAAACATAAATAAAATTGAA-TCTAAAAT
65 TTAAGATAGACATTCAATTATAGTCTGTTTTAATAAAAAATATAAAAAAAATTGAACT-TAAAAT
* * * *
16865 CAATTTTGAGATTACAAAACCATTTAAAGTGAGCAATAAGGCT
129 CAATTTTGAGATTATAAAACTATTTAAAGCGAGTAATAAGGCT
* * * * * * *
16908 TTTGAAAGAATGGGAGACTATAAATAGAC-TTTCTTGCCAATGGATGT-ATTTCTCTTCATGTTT
1 TTTGAAGGAATGAGTGACTATAAAT-GACTTTTCTTGCCAATGAAT-TCCTTTTTCTTCACGTTT
* * * * * * * *
16971 CTCAAGGTAGACCTCCAATTATAGTTTGTTTTAACT--AAAAT-TTAAAAATATTCAACTTAAAA
64 CTTAAGATAGACATTCAATTATAGTCTGTTTTAA-TAAAAAATATAAAAAAAATTGAACTTAAAA
* * * * *
17033 TCAATTATGAGATGACAAAACCATTTAAAGCGAGCAATAAGGCT
128 TCAATTTTGAGATTATAAAACTATTTAAAGCGAGTAATAAGGCT
* ** * * * *
17077 TTTGAAGGAATAAGACACTATAAATGGA-TTGTTCTT-CTCAATAAATGT-CTTTTTCTACATGA
1 TTTGAAGGAATGAGTGACTATAAAT-GACTT-TTCTTGC-CAATGAAT-TCCTTTTTCTTCACGT
* ** * *
17139 TTCCTAAGGCAGGCATTCAATTATAGTCTGTTTTAATAAAAAATAT-AAAAAAATTTAACTTAAA
62 TTCTTAAGATAGACATTCAATTATAGTCTGTTTTAATAAAAAATATAAAAAAAATTGAACTTAAA
* **
17203 ATCAATTATGAGATTATAAAGTTATTTAAAGCGAGTAATAAGGCT
127 ATCAATTTTGAGATTATAAAACTATTTAAAGCGAGTAATAAGGCT
* * * * *
17248 TTTGAAGGAAT-AGGTGACTATAAATGGACTCTTCTTGTCAACGAATGCCTTTTGCTTCACGTTT
1 TTTGAAGGAATGA-GTGACTATAAAT-GACTTTTCTTGCCAATGAATTCCTTTTTCTTCACGTTT
* * * * * * ** * *
17312 CTCAAGGTAGACATTCAATTATAATATGTTTTAA-ATAATAATACAAAATGAATTTAACCTAAAA
64 CTTAAGATAGACATTCAATTATAGTCTGTTTTAATA-AAAAATATAAAAAAAATTGAACTTAAAA
* * * *
17376 TTAATTATGCGATTATAAAATTATTTAAAGCGAGTAATAAGGCT
128 TCAATTTTGAGATTATAAAACTATTTAAAGCGAGTAATAAGGCT
* * *
17420 TTCGTAGGAATG-GTAGACTATAAATAGACTTTTC-TGACCAATG-ATTACTTTTTTCTTTACAC
1 TTTGAAGGAATGAGT-GACTATAAAT-GACTTTTCTTG-CCAATGAATT-CCTTTTTC-TT-CAC
** * * * * *
17482 -TTT-TTAAGATAGACATTCAATTATAGTCCATTTCAATGAAAAATGTAAAAACATTTG-ACTTA
60 GTTTCTTAAGATAGACATTCAATTATAGTCTGTTTTAATAAAAAATATAAAAAAAATTGAACTTA
* * * * * *
17544 AAATTAATTATGAGATAACAAAACCT-TTTAAAGTGAGTACTAAGGCT
125 AAATCAATTTTGAGATTATAAAA-CTATTTAAAGCGAGTAATAAGGCT
* ** * * * * *
17591 TTTGAAGGAATGAGAGACTATAAATGAAGTTTCTTGCCAACGAATGCCCTTTTCTTCATGTTGCT
1 TTTGAAGGAATGAGTGACTATAAATGACTTTTCTTGCCAATGAATTCCTTTTTCTTCACGTTTCT
* * *
17656 CAATG-TAGACATTCAATTATAATCTGTTTTAACTAAAAAGGTA-AAAAAAAATTGAACTTAAAA
66 TAA-GATAGACATTCAATTATAGTCTGTTTTAA-TAAAAA-ATATAAAAAAAATTGAACTTAAAA
* * ***
17719 TCAATATTT-AGATAATAAAACCATTTAAAATAAGTAATAAGGCT
128 TCAAT-TTTGAGATTATAAAACTATTTAAAGCGAGTAATAAGGCT
* * ** ** * *
17763 TTTGGAGGAATGGGTGACTATAAATAGACTTTTCTTGTTAATGAATGGCTTTTTCTTTATGTTTC
1 TTTGAAGGAATGAGTGACTATAAAT-GACTTTTCTTGCCAATGAATTCCTTTTTCTTCACGTTTC
* * * * * * *
17828 TCAATG-TAGACATTTAATTATAATCTGTTTTAACCAAGAAAGTA-AAAAAAACTTGACCTTAAA
65 TTAA-GATAGACATTCAATTATAGTCTGTTTTAA-TAA-AAAATATAAAAAAAATTGAACTTAAA
*
17891 ATCAATTTTGAGATTAT-AAACTATTTAAAGTGAGTAATAAGGCT
127 ATCAATTTTGAGATTATAAAACTATTTAAAGCGAGTAATAAGGCT
* *
17935 TTTGAAGGAATGTGAGACTATAAATAGACTTTTCTT-CCAA
1 TTTGAAGGAATGAGTGACTATAAAT-GACTTTTCTTGCCAA
17975 ATAAATGGGT
Statistics
Matches: 1707, Mismatches: 303, Indels: 161
0.79 0.14 0.07
Matches are distributed among these distances:
165 14 0.01
166 118 0.07
167 5 0.00
168 3 0.00
169 90 0.05
170 174 0.10
171 538 0.32
172 648 0.38
173 106 0.06
174 9 0.01
175 1 0.00
176 1 0.00
ACGTcount: A:0.40, C:0.12, G:0.13, T:0.36
Consensus pattern (171 bp):
TTTGAAGGAATGAGTGACTATAAATGACTTTTCTTGCCAATGAATTCCTTTTTCTTCACGTTTCT
TAAGATAGACATTCAATTATAGTCTGTTTTAATAAAAAATATAAAAAAAATTGAACTTAAAATCA
ATTTTGAGATTATAAAACTATTTAAAGCGAGTAATAAGGCT
Found at i:16759 original size:343 final size:340
Alignment explanation
Indices: 15728--18029 Score: 1893
Period size: 343 Copynumber: 6.7 Consensus size: 340
15718 AGGAATTGGT
* * * * * *
15728 GACTGTAAATCGACTTTTCTTACTAATGAATG-TCTTTTTCTTCACGTTTCTTGAGATAGACATT
1 GACTATAAATAGACTTTTCTTGCCAATGAATGCT-TTTTTCTTTACGTTTCTTAAG-TAGACATT
** * * * *
15792 CAATTATAGCCTATTTTA-ACTAAAAATGTAAAAAAAATTAAACTTAAAATCAATTTTGAAATTA
64 CAATTATAATCTGTTTTATA--AAAAAAGT-AAAAAAATTGAACTTAAAATCAATTTTGAGATTA
** * * *
15856 TAAAA-CTATTTAAAACGAGCAATTAGGCTTTTGAAGGAATGAGTGACTATAAATGCACTTTTCT
126 TAAAATC-ATTTAAAGTGAGTAATAAGGCTTTTGAAGGAATGAGTGACTATAAATGAACTTTTCT
* * ** ** * * *
15920 TACCAATGAATTCATTTTTCTTCATATTTCTTGAGATAGACAATCAATTATAGTCTGTTTTAA-T
190 TGCCAATGAATGCATTTTTCTTCACGTTTCTCAAGGTAGACATTCAATTATAATCTGTTTTAACT
* * *
15984 AAAAAATATAAAAAAAATTAAACTTAAAATGAATT-TCGAGATTATAAAACCATTTAAAGTGAGT
255 -AAAAATAT-AAAAAAATTGAACTTAAAATCAATTAT-GAGATTATAAAACCATTTAAAGCGAGT
*
16048 AATAAGGCTTTT-AAGAGAATCAGA
317 AATAAGGCTTTTGAA-AGAATGAGA
* ** **
16072 GACTATAAAT-GAACTTTTCTT-CTCAATGAAT-TTTTTTTCTACACGTTTCTTGAGACAAGA-A
1 GACTATAAATAG-ACTTTTCTTGC-CAATGAATGCTTTTTTCTTTACGTTTCTT-A-AGTAGACA
* * ** ** **
16133 TTCAATTATAGTCTGTTTTAATAAAAAATGTAAAAAAATACAGTTTAAAATCAATAATGAGATTA
62 TTCAATTATAATCTGTTTT-ATAAAAAAAGTAAAAAAATTGAACTTAAAATCAATTTTGAGATTA
*** * * *
16198 TAAAA-CTATTTAAAACAAATAATAAGGATTTTGAAAGAATGAGTGACTATAAAT-AGA-----C
126 TAAAATC-ATTTAAAGTGAGTAATAAGGCTTTTGAAGGAATGAGTGACTATAAATGA-ACTTTTC
* * * * * * * * * *
16256 TTGCCAATAAATACCTTTTTCATCACATTTCTTAAAGCAGATATTCAATTATAATCTATTTTAAC
189 TTGCCAATGAATGCATTTTTCTTCACGTTTCTCAAGGTAGACATTCAATTATAATCTGTTTTAAC
* * *
16321 TAATAATGTAAAAAAATTGAACTTAAAATCAATTATGAGATTATAAAGA-CTTTTAAAGCGAGTA
254 TAAAAATATAAAAAAATTGAACTTAAAATCAATTATGAGATTATAAA-ACCATTTAAAGCGAGTA
* * *
16385 CTAGGGCTTTTGAAAGAATGGGA
318 ATAAGGCTTTTGAAAGAATGAGA
* * * * *
16408 GACTATAAATAGATTTTTCTTGCCAAAGAATGCTTTTTTTTTTACGTCTCTTAATGTGGACATTC
1 GACTATAAATAGACTTTTCTTGCCAATGAATGCTTTTTTCTTTACGTTTCTTAA-GTAGACATTC
* * *
16473 AATTATAAT-T-TTTTATGAGCAAAAAAGGAAAAACAATAGAACTTAAAATCAATTTTGAAATTA
65 AATTATAATCTGTTTTAT-A--AAAAAAGTAAAAA-AATTGAACTTAAAATCAATTTTGAGATTA
* * *
16536 TAAAATCATTTAAAGTGATTAATAAGGCTTTTGAAAGAATGGGTGACTATAAATGAACTTTTCTT
126 TAAAATCATTTAAAGTGAGTAATAAGGCTTTTGAAGGAATGAGTGACTATAAATGAACTTTTCTT
* ** * * * *
16601 GCCAATAAATTTATTTTTCTTCACGTTTCTCAAGGTAGACATTCAACTATAGTATGTTTAAACTA
191 GCCAATGAATGCATTTTTCTTCACGTTTCTCAAGGTAGACATTCAATTATAATCTGTTTTAACTA
* * * * * * *
16666 AAAATATAAAAAACTTGAACTCAAAATCAATTTTGAGATTATAAAATCATTTACA-CTAAATAAT
256 AAAATATAAAAAAATTGAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGC-GAGTAAT
* *
16730 AAGGCTTTCGAAAGAATGAGT
320 AAGGCTTTTGAAAGAATGAGA
* * * * * *
16751 GACTATAAATGGACTTTTCTTACCAATGAATACCTTGTTCTTTACGTTTCTTGAGGTAGACATTC
1 GACTATAAATAGACTTTTCTTGCCAATGAATGCTTTTTTCTTTACGTTTCTT-AAGTAGACATTC
* *
16816 AATTATAATTTGTTTTAATTAAAAACA-TAAATAAAATTGAA-TCTAAAATCAATTTTGAGATTA
65 AATTATAATCTGTTTT-A-TAAAAAAAGTAAA-AAAATTGAACT-TAAAATCAATTTTGAGATTA
* * * * * *
16879 CAAAACCATTTAAAGTGAGCAATAAGGCTTTTGAAAGAATGGGAGACTATAAAT-AGAC-TTTCT
126 TAAAATCATTTAAAGTGAGTAATAAGGCTTTTGAAGGAATGAGTGACTATAAATGA-ACTTTTCT
* * * * * * * *
16942 TGCCAATGGATGTATTTCTCTTCATGTTTCTCAAGGTAGACCTCCAATTATAGTTTGTTTTAACT
190 TGCCAATGAATGCATTTTTCTTCACGTTTCTCAAGGTAGACATTCAATTATAATCTGTTTTAACT
* * * * * *
17007 -AAAATTTAAAAATATTCAACTTAAAATCAATTATGAGATGACAAAACCATTTAAAGCGAGCAAT
255 AAAAATATAAAAAAATTGAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAAT
* *
17071 AAGGCTTTTGAAGGAATAAGA
320 AAGGCTTTTGAAAGAATGAGA
* * * ** * * * * *
17092 CACTATAAATGGA-TTGTTCTT-CTCAATAAATG-TCTTTTTCTACATGATTCCTAAGGCAGGCA
1 GACTATAAATAGACTT-TTCTTGC-CAATGAATGCT-TTTTTCTTTACGTTTCTTAA-GTAGACA
* * *
17154 TTCAATTATAGTCTGTTTTAATAAAAAATA-TAAAAAAATTTAACTTAAAATCAATTATGAGATT
62 TTCAATTATAATCTGTTTT-ATAAAAAA-AGTAAAAAAATTGAACTTAAAATCAATTTTGAGATT
* * * * *
17218 ATAAAGTTATTTAAAGCGAGTAATAAGGCTTTTGAAGGAAT-AGGTGACTATAAATGGACTCTTC
125 ATAAAATCATTTAAAGTGAGTAATAAGGCTTTTGAAGGAATGA-GTGACTATAAATGAACTTTTC
* * * * * *
17282 TTGTCAACGAATGCCTTTTGCTTCACGTTTCTCAAGGTAGACATTCAATTATAATATGTTTTAAA
189 TTGCCAATGAATGCATTTTTCTTCACGTTTCTCAAGGTAGACATTCAATTATAATCTGTTTTAAC
* * * * * * * **
17347 TAATAATACAAAATGAATTTAACCTAAAATTAATTATGCGATTATAAAATTATTTAAAGCGAGTA
254 TAAAAATATAAAA-AAATTGAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTA
* * *
17412 ATAAGGCTTTCGTAGGAATG-GTA
318 ATAAGGCTTTTGAAAGAATGAG-A
* * *
17435 GACTATAAATAGACTTTTC-TGACCAATGATTACTTTTTTCTTTACACTTT-TTAAGATAGACAT
1 GACTATAAATAGACTTTTCTTG-CCAATGAATGCTTTTTTCTTTAC-GTTTCTTAAG-TAGACAT
* ** * * * * * * *
17498 TCAATTATAGTCCATTTCAATGAAAAATGTAAAAACATTTG-ACTTAAAATTAATTATGAGATAA
63 TCAATTATAATCTGTTT-TATAAAAAAAGTAAAAA-AATTGAACTTAAAATCAATTTTGAGATTA
* * * * * *
17562 CAAAACCTTTTAAAGTGAGTACTAAGGCTTTTGAAGGAATGAGAGACTATAAATGAA-GTTTCTT
126 TAAAATCATTTAAAGTGAGTAATAAGGCTTTTGAAGGAATGAGTGACTATAAATGAACTTTTCTT
* ** * * *
17626 GCCAACGAATGCCCTTTTCTTCATGTTGCTCAATGTAGACATTCAATTATAATCTGTTTTAACTA
191 GCCAATGAATGCATTTTTCTTCACGTTTCTCAAGGTAGACATTCAATTATAATCTGTTTTAACTA
* * * ***
17691 AAAAGGTAAAAAAAAATTGAACTTAAAATCAA-TATTTAGATAATAAAACCATTTAAAATAAGTA
256 AAAA--TATAAAAAAATTGAACTTAAAATCAATTA-TGAGATTATAAAACCATTTAAAGCGAGTA
* * * *
17755 ATAAGGCTTTTGGAGGAATGGGT
318 ATAAGGCTTTTGAAAGAATGAGA
** * *
17778 GACTATAAATAGACTTTTCTTGTTAATGAATGGC-TTTTTCTTTATGTTTCTCAATGTAGACATT
1 GACTATAAATAGACTTTTCTTGCCAATGAAT-GCTTTTTTCTTTACGTTTCTTAA-GTAGACATT
* * *
17842 TAATTATAATCTGTTTTA-ACCAAGAAAGTAAAAAAAACTTGACCTTAAAATCAATTTTGAGATT
64 CAATTATAATCTGTTTTATA--AAAAAAGT-AAAAAAA-TTGAACTTAAAATCAATTTTGAGATT
* * *
17906 ATAAACT-ATTTAAAGTGAGTAATAAGGCTTTTGAAGGAATGTGAGACTATAAAT-AGACTTTTC
125 ATAAAATCATTTAAAGTGAGTAATAAGGCTTTTGAAGGAATGAGTGACTATAAATGA-ACTTTTC
* ** * * * * *
17969 TT-CCAAATAAATGGGTTTTT-TACATGTTTCTCGAGGTA-AGTATTCAATTATAGTCTGTTTT
189 TTGCC-AATGAATGCATTTTTCTTCACGTTTCTCAAGGTAGA-CATTCAATTATAATCTGTTTT
Statistics
Matches: 1579, Mismatches: 301, Indels: 156
0.78 0.15 0.08
Matches are distributed among these distances:
334 2 0.00
335 6 0.00
336 92 0.06
337 101 0.06
338 71 0.04
339 2 0.00
340 83 0.05
341 188 0.12
342 223 0.14
343 616 0.39
344 148 0.09
345 44 0.03
346 2 0.00
347 1 0.00
ACGTcount: A:0.39, C:0.12, G:0.13, T:0.36
Consensus pattern (340 bp):
GACTATAAATAGACTTTTCTTGCCAATGAATGCTTTTTTCTTTACGTTTCTTAAGTAGACATTCA
ATTATAATCTGTTTTATAAAAAAAGTAAAAAAATTGAACTTAAAATCAATTTTGAGATTATAAAA
TCATTTAAAGTGAGTAATAAGGCTTTTGAAGGAATGAGTGACTATAAATGAACTTTTCTTGCCAA
TGAATGCATTTTTCTTCACGTTTCTCAAGGTAGACATTCAATTATAATCTGTTTTAACTAAAAAT
ATAAAAAAATTGAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCT
TTTGAAAGAATGAGA
Done.