Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_018397429.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_1847.0, 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: 19503
ACGTcount: A:0.31, C:0.10, G:0.11, T:0.29
Warning! 3986 characters in sequence are not A, C, G, or T
Found at i:2616 original size:171 final size:171
Alignment explanation
Indices: 1884--5573 Score: 3088
Period size: 171 Copynumber: 21.7 Consensus size: 171
1874 NNNNNNNNNT
* * * * * * *
1884 ATTTAAAGTGAGTAATAAAGCTTTTGAAGGAATGGGAGACTATAAATAGACTTGTCTT-CTAAAC
1 ATTTAAAGCGAGTAATAAGGCTTTTGAAGGAATGGGTGACTATAAATGGACTTTTCTTGC-CAAT
* ** * * * * * *
1948 AAATGGATTTTT-TACACATTTCTCGAGGCA-AGTATTCAATTATAGTCTGTTTTAA-TGAAAAA
65 GAATGCCTTTTTCTTCACGTTTCTTGAAGTAGA-CATTCAATTATAGTCTGTTTTAACT-AAAAA
* * *
2010 TGT-TAAAAATTCAACTTAAAATCAACTT-TGAGATTATAAAATC
128 TGTAAAAAAATTGAACTTAAAATCAA-TTATGAGATTATAAAACC
* * * * * * *
2053 ATTTAAAGTGTGTAATAAGGCTTTTGAAGGAAT--GAGACTATAAATAGACTTTTCTTTCAAATA
1 ATTTAAAGCGAGTAATAAGGCTTTTGAAGGAATGGGTGACTATAAATGGACTTTTCTTGCCAATG
* ** * * * * ** * * *
2116 AAAGGGTTTTTATACATGTATCCCGAAGCAGACATTCAACTATAGCCTGTTTTAA-TGAAAAATG
66 AATGCCTTTTTCTTCACGTTTCTTGAAGTAGACATTCAATTATAGTCTGTTTTAACT-AAAAATG
* * **
2180 T-AAAAAATTCAGCTTAAAATCAATTATGAGACAATAAAACC
130 TAAAAAAATTGAACTTAAAATCAATTATGAGATTATAAAACC
* * * * *
2221 ATTTAAAGTGAGTACTAAGGCTTTTGTAGAAATGGGTGACTATAAATGGACTTTTCTTGCCAATA
1 ATTTAAAGCGAGTAATAAGGCTTTTGAAGGAATGGGTGACTATAAATGGACTTTTCTTGCCAATG
* ** * * *
2286 AATGTCTTTTTCTTCACGTTTC-ACAAGGTAGACATTCAATTATAATCTGTTTTAACCAAATATG
66 AATGCCTTTTTCTTCACGTTTCTTGAA-GTAGACATTCAATTATAGTCTGTTTTAACTAAAAATG
*
2350 TAAAAAAATT-AACTTAAAATCAATTTTGAGATTATAAAACC
130 TAAAAAAATTGAACTTAAAATCAATTATGAGATTATAAAACC
* * ***
2391 ATTTAAAGTC-AGTAATAAGGCTTTTGAAGGAATGAGTGACTATAAATAGACTTTTCTTATTAAT
1 ATTTAAAG-CGAGTAATAAGGCTTTTGAAGGAATGGGTGACTATAAATGGACTTTTCTTGCCAAT
* * * * * *
2455 GAATACCTTTTTCTTTACGTTTCTTGAAGTAGACATTCAATTATAATTTGTTTTATCTAATAATG
65 GAATGCCTTTTTCTTCACGTTTCTTGAAGTAGACATTCAATTATAGTCTGTTTTAACTAAAAATG
*
2520 TAAGAAAAATTGAACCTAAAATCAATTATGAGATT-TAAAACC
130 TAA-AAAAATTGAACTTAAAATCAATTATGAGATTATAAAACC
* * * * * * *
2562 ATTTAAAGCGTGAAATAAGGCTTTTGATGAAATGGGAGACTATAAAGGGACTTTTTTTGCCAATG
1 ATTTAAAGCGAGTAATAAGGCTTTTGAAGGAATGGGTGACTATAAATGGACTTTTCTTGCCAATG
* * *
2627 AATGTCC-TTTT-TTAACGGCTT-TT-AAGGTAGGCATTCAATTATAGTCTGTTTTAA-TGAAAA
66 AATG-CCTTTTTCTTCAC-GTTTCTTGAA-GTAGACATTCAATTATAGTCTGTTTTAACT-AAAA
* * * * *
2687 AAGT-TAAAAGTTCAACTTTAAATCAATTATGAGATTATAAAACC
127 ATGTAAAAAAATTGAACTTAAAATCAATTATGAGATTATAAAACC
* ** * * * *
2731 -TTCTAAAGTGAGTAGCAAGGC-TTTAAAGGAATGGGTGACTATAAATGCACTTTTCTTACAAAT
1 ATT-TAAAGCGAGTAATAAGGCTTTTGAAGGAATGGGTGACTATAAATGGACTTTTCTTGCCAA-
* * * ** * *
2794 TAAATAG-ATTTTT-TACACGTTTCTCAAAGCAG-CACTCAATTATA-TCTGTTTTAA-TAAAAA
64 TGAAT-GCCTTTTTCTTCACGTTTCTTGAAGTAGACATTCAATTATAGTCTGTTTTAACTAAAAA
* *
2854 --AAAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACC
128 TGTAAAAAAATTGAACTTAAAATCAATTATGAGATTATAAAACC
* * *** *
2896 AGTTAAAGCGAGTAATAAGGCTTTTGAAAGAATGAAAGACTATAAATAGACTTTTCTT-CCTAAT
1 ATTTAAAGCGAGTAATAAGGCTTTTGAAGGAATGGGTGACTATAAATGGACTTTTCTTGCC-AAT
* ** * * * * * *
2960 AAATGGGTTTTTCCAT-ATGTTTCCTGAGGCAG-CTATTCAATTATAGTCTGTTTTAA-TGAAAA
65 GAATGCCTTTTT-CTTCACGTTTCTTGAAGTAGAC-ATTCAATTATAGTCTGTTTTAACTAAAAA
* * * * ** *
3022 -CTATAAAAAATTCAACTTAAAATCAATTATAACACAATAAAATC
128 TGTA-AAAAAATTGAACTTAAAATCAATTATGAGATTATAAAACC
* * ** *
3066 ATTTAAAGCGGGTAAT-AGAGCTTTTGAAGGAACGAATGATTATAAATGGACTTTTCTGTG--AA
1 ATTTAAAGCGAGTAATAAG-GCTTTTGAAGGAATGGGTGACTATAAATGGACTTTTCT-TGCCAA
* * * * * * *
3128 TGAATGCCTTTTT-TGTAATGTTTCATGAGGTAGACATTCAATTATAATCTATTTTAACTAATAA
64 TGAATGCCTTTTTCT-TCACGTTTCTTGAAGTAGACATTCAATTATAGTCTGTTTTAACTAAAAA
* *
3192 TGTAAAAAAAATTGAACCTAAAATCAATTATAAGATTATAAAACC
128 TGT-AAAAAAATTGAACTTAAAATCAATTATGAGATTATAAAACC
** * * * * * *
3237 ATTTAAAGTAAGTCATAAGGCCTTCGAAGGAATAGGTGACTATAAATAGACTTTTCTTACCAATG
1 ATTTAAAGCGAGTAATAAGGCTTTTGAAGGAATGGGTGACTATAAATGGACTTTTCTTGCCAATG
* * * * * * *
3302 AATTCATTTTTCTTCACATTT-TTTAAGGTAGACATTCAATTATTGTCTATTTTAA-TCAAAAAA
66 AATGCCTTTTTCTTCACGTTTCTTGAA-GTAGACATTCAATTATAGTCTGTTTTAACT-AAAAAT
* * *
3365 GTAAAAAAAAATTGAACTTAAAATCAATTTTGAGCTTATAAAACT
129 GT--AAAAAAATTGAACTTAAAATCAATTATGAGATTATAAAACC
* ** * * * * * *
3410 ATTTAAAGTGAGTAATAAGATTTTTAAAAGAATGAGAGACTATAAATAGACTTTTCTTACCAATG
1 ATTTAAAGCGAGTAATAAGGCTTTTGAAGGAATGGGTGACTATAAATGGACTTTTCTTGCCAATG
** * * * * *
3475 AATGTATTTTTCTTCATGTTTC-TCAATGTAGATATTCAATTATAGTCTATTTTAACTAAAAATA
66 AATGCCTTTTTCTTCACGTTTCTTGAA-GTAGACATTCAATTATAGTCTGTTTTAACTAAAAATG
* *
3539 TAAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACT
130 TAAAAAAATTGAACTTAAAATCAATTATGAGATTATAAAACC
* * *
3581 ATTTAAAGCGAGTACTAAGGCTTTTGAAGGAATGAGAGACTATAAAT-GACGTTTTCTT-CCAAA
1 ATTTAAAGCGAGTAATAAGGCTTTTGAAGGAATGGGTGACTATAAATGGAC-TTTTCTTGCC-AA
* ** * * * * * *
3644 TAAATGAGTTTTTCCAT-ACGTTTCCTGAGGCA-AGCATTTAATTATAATCTGTTTTAA-TGAAA
64 TGAATGCCTTTTT-CTTCACGTTTCTTGAAGTAGA-CATTCAATTATAGTCTGTTTTAACT-AAA
* * **
3706 AATGT-AAAAAATTCAACTTAAAATCAATTATGAGACTATAAAATT
126 AATGTAAAAAAATTGAACTTAAAATCAATTATGAGATTATAAAACC
* * * * *
3751 ATTTAAAGCGAGTAAT-AGCGCTTTTGAAGGAATAGGTGATTGTCAATGGACTTTTCTTACCAAT
1 ATTTAAAGCGAGTAATAAG-GCTTTTGAAGGAATGGGTGACTATAAATGGACTTTTCTTGCCAAT
** * * * * * *
3815 GAATGGTTTTTTCTTCATGTTTCTCGAGGTAGACATTCAATTATAGCCTATTTTAACAAAAAATG
65 GAATGCCTTTTTCTTCACGTTTCTTGAAGTAGACATTCAATTATAGTCTGTTTTAACTAAAAATG
* * *
3880 TAAAACAATTGAACTTAAAATCAATTTTGAGATTATAAAACT
130 TAAAAAAATTGAACTTAAAATCAATTATGAGATTATAAAACC
* * * *
3922 ATTTAAAGCGAGTAATAAGGCTTTTGAAGGAATAGGTGACTATAAATGCACTTTTTTTGTCAATG
1 ATTTAAAGCGAGTAATAAGGCTTTTGAAGGAATGGGTGACTATAAATGGACTTTTCTTGCCAATG
* * * ********** *
3987 AGTTCATTTCTT-TTCACGTTTCTTGAAGTAGACATNNNNNNNNNNTCTGTTTTAACCAAAAATG
66 AATGCCTTT-TTCTTCACGTTTCTTGAAGTAGACATTCAATTATAGTCTGTTTTAACTAAAAATG
* * **
4051 TAAAGAAAATTGAACTTAAAATCAATTTTGAGATTCTAAAATG
130 TAAA-AAAATTGAACTTAAAATCAATTATGAGATTATAAAACC
* * *
4094 ATTTAAAGCGAGTAATAAGGCTTTTG-AGGAAATTGGAGACTATAAATGGACTTTCCTT-CTCAA
1 ATTTAAAGCGAGTAATAAGGCTTTTGAAGG-AATGGGTGACTATAAATGGACTTTTCTTGC-CAA
** * * * *
4157 TGAATTTCTTTTT-TACATGTTT-TTCGAGGTAGATATTCAATTATAGTCTGTTTTAA-TGAAAA
64 TGAATGCCTTTTTCTTCACGTTTCTT-GAAGTAGACATTCAATTATAGTCTGTTTTAACT-AAAA
* ** * * *
4219 ATATAAAAAAATACAGCTTAAAATCAATAATGAGGTTATAAAACC
127 ATGTAAAAAAATTGAACTTAAAATCAATTATGAGATTATAAAACC
* * *
4264 ATTTAAAGCGAGTAATAAGGCTTTT-ACAGGAATGAGTGACTATAAATAGA-----CTTACCAAT
1 ATTTAAAGCGAGTAATAAGGCTTTTGA-AGGAATGGGTGACTATAAATGGACTTTTCTTGCCAAT
* * * * * * *
4323 AAATACCTTTTTCTTCAAGTTT-TTCAAGGTGGACATTCAATTATTA-TCTGTTTTAACCAATAA
65 GAATGCCTTTTTCTTCACGTTTCTTGAA-GTAGACATTCAATTA-TAGTCTGTTTTAACTAAAAA
* * *
4386 TGTAAAAAAAACTGAACCTAAAATCAATTATGAGATTATAAAAAC
128 TGT-AAAAAAATTGAACTTAAAATCAATTATGAGATTATAAAACC
* * * * * * *
4431 TTTTAAAGCGAGTACTAAGGCTGTTGAAGAAATAGGAGACTATAAATAGACTTTTCTTGCCAATG
1 ATTTAAAGCGAGTAATAAGGCTTTTGAAGGAATGGGTGACTATAAATGGACTTTTCTTGCCAATG
* * * * * * * *
4496 AATACTTTTTTCTTTACGTCTCTTGATGTAGACATTCAATTATAATCTGTTTGAACTAAAAAAGT
66 AATGCCTTTTTCTTCACGTTTCTTGAAGTAGACATTCAATTATAGTCTGTTTTAACTAAAAATGT
* * *
4561 AAAAAAAAATTGAACTTAAAATTAATTTTGAAATTATAAAACC
131 --AAAAAAATTGAACTTAAAATCAATTATGAGATTATAAAACC
* * *
4604 ATTTAAAGTGAGTAATAAGGCTTTTGAAGGAATAGGTGACTATAAATGGACTTTTCTTGCCAATA
1 ATTTAAAGCGAGTAATAAGGCTTTTGAAGGAATGGGTGACTATAAATGGACTTTTCTTGCCAATG
*** ** * * *
4669 AATTTATTTTTCTTCATATTTCTCGAGGTAGACATTCAACTATAGTCTGTTTTAACTAAAAATGT
66 AATGCCTTTTTCTTCACGTTTCTTGAAGTAGACATTCAATTATAGTCTGTTTTAACTAAAAATGT
* * *
4734 AAAAAAAAAATTAAACTTAAAATGAATTTTGAGATTATAAAACC
131 ---AAAAAAATTGAACTTAAAATCAATTATGAGATTATAAAACC
* * * * * ** * *
4778 ATTTAAAGTGAGTAATAAAGCTTTTAAAGGAATGGGCGACTGTAAATCAACTTTTCTTACCGATG
1 ATTTAAAGCGAGTAATAAGGCTTTTGAAGGAATGGGTGACTATAAATGGACTTTTCTTGCCAATG
* * * *
4843 AATGCTTTTTTCTTCACATTTCTTG-AGATAGACATTCAATTACAGTCTGTTTTAACCAAAAATG
66 AATGCCTTTTTCTTCACGTTTCTTGAAG-TAGACATTCAATTATAGTCTGTTTTAACTAAAAATG
* * * **
4907 TAAAAAAATTGGACTTAAAATCAATTTTGATATTATAAAATT
130 TAAAAAAATTGAACTTAAAATCAATTATGAGATTATAAAACC
* * * * * * * * *
4949 ATTTAAAGCAAGCAATAAAGCTTTTGAAAGAATGAGTGACTATAAATGCACTTTTTTTGCCAGTA
1 ATTTAAAGCGAGTAATAAGGCTTTTGAAGGAATGGGTGACTATAAATGGACTTTTCTTGCCAATG
* * * * * *
5014 AATTCATTTTT-TTCACGTTTCTTGAGGTAGACAATCAATTATAGGCTATTTTAAC-AAAAACTG
66 AATGCCTTTTTCTTCACGTTTCTTGAAGTAGACATTCAATTATAGTCTGTTTTAACTAAAAA-TG
* * * *
5077 TAAAAATAATTAAACTTAAAATTAATTTTGAGATTATAAAACG
130 TAAAAA-AATTGAACTTAAAATCAATTATGAGATTATAAAACC
** * *
5120 ATTTAAAATGAGTAATAAGGC-TTTGAAGGAATCGGAGACTATAAATGGACTATTT-TT-CTCAA
1 ATTTAAAGCGAGTAATAAGGCTTTTGAAGGAATGGGTGACTATAAATGGACT-TTTCTTGC-CAA
** * * * *
5182 TGAATTTCTTTTTCTACATGTTT-TTCAAGGTA-AGCATTCAATGATAGTCTGTTTTAA-TGAAA
64 TGAATGCCTTTTTCTTCACGTTTCTTGAA-GTAGA-CATTCAATTATAGTCTGTTTTAACT-AAA
** *
5244 AATGTAAAAAAATACAACTTAAAATCAATAATGAGATTATAAAACC
126 AATGTAAAAAAATTGAACTTAAAATCAATTATGAGATTATAAAACC
* ** * *
5290 ATTTAAAACGAGTAATAAGAATTTTGAAGGAATGAGTGACTATAAATGGA-----CTTGCCAATA
1 ATTTAAAGCGAGTAATAAGGCTTTTGAAGGAATGGGTGACTATAAATGGACTTTTCTTGCCAATG
* * * * *
5350 AATACCTTATTCTTCACATTTCTT-AAGGTAGACATTCAATTATAATCTGTTTTAACTAATAATG
66 AATGCCTTTTTCTTCACGTTTCTTGAA-GTAGACATTCAATTATAGTCTGTTTTAACTAAAAATG
*
5414 TAAAAAAATTGAACTTAAAATCAATTATGAGATTATAAAAAC
130 TAAAAAAATTGAACTTAAAATCAATTATGAGATTATAAAACC
* * * * * * * * *
5456 TTTTAAAGCGAGTACTAGGGTTTTTGAAAGAATAGGAGACTATAAATTGACTTTTCTTGCCAATA
1 ATTTAAAGCGAGTAATAAGGCTTTTGAAGGAATGGGTGACTATAAATGGACTTTTCTTGCCAATG
* * * * * *
5521 AATGCTTTTTTCTTTATGTCTCTTGATGTAGACATTCAATTATAATCTGTTTT
66 AATGCCTTTTTCTTCACGTTTCTTGAAGTAGACATTCAATTATAGTCTGTTTT
5574 GNNNNNNNNN
Statistics
Matches: 2874, Mismatches: 532, Indels: 228
0.79 0.15 0.06
Matches are distributed among these distances:
164 1 0.00
165 80 0.03
166 219 0.08
167 139 0.05
168 197 0.07
169 131 0.05
170 681 0.24
171 744 0.26
172 239 0.08
173 293 0.10
174 150 0.05
ACGTcount: A:0.39, C:0.11, G:0.14, T:0.35
Consensus pattern (171 bp):
ATTTAAAGCGAGTAATAAGGCTTTTGAAGGAATGGGTGACTATAAATGGACTTTTCTTGCCAATG
AATGCCTTTTTCTTCACGTTTCTTGAAGTAGACATTCAATTATAGTCTGTTTTAACTAAAAATGT
AAAAAAATTGAACTTAAAATCAATTATGAGATTATAAAACC
Found at i:3280 original size:341 final size:334
Alignment explanation
Indices: 1884--5573 Score: 2470
Period size: 341 Copynumber: 10.8 Consensus size: 334
1874 NNNNNNNNNT
* * * * *
1884 ATTTAAAGTGAGTAATAAAGCTTTTGAAGGAATGGGAGACTATAAATAGACTTGTCTT-CTAAAC
1 ATTTAAAGCGAGTAATAAGGCTTTTGAAGGAATGGGAGACTATAAATAGACTTTTCTTGC-CAAT
** * * * * * *
1948 AAATGGATTTTT-TACACATTTCTCGAGGCAAGTATTCAATTATAGTCTGTTTTAATGAAAAATG
65 AAATGCCTTTTTCCATACGTTTCT-AAGGC-AGCATTCAATTATAGTCTGTTTTAATG-AAAATA
* * *
2012 TTAAAAATTCAACTTAAAATCAACTT-TGAGATTATAAAATCATTTAAAGTGTGTAATAAGGCTT
127 TAAAAAATTCAACTTAAAATCAA-TTATGAGATTATAAAATCATTTAAAGCGAGTAATAA-GCTT
* * * * * *
2076 TTGAAGGAATG-A-GACTATAAATAGACTTTTCTTTCAAATAAAAGGGTTTTTATACATGTATCC
190 TTGAAGGAATGAATGACTATAAATAGACTTTTC-TTCAAAT-GAATGCTTTTTTTA-ATGTTTCT
* * ** * *
2139 CGAAGCAGACATTCAACTATAGCCTGTTTTAA-TGAAAAATGT-AAAAAATTCAGCTTAAAATCA
252 CGAAGTAGACATTCAATTATAATCTATTTTAACT-AAAAATGTAAAAAAATTCAACTTAAAATCA
**
2202 ATTATGAGACAATAAAACC
316 ATTATGAGATTATAAAACC
* * * * * *
2221 ATTTAAAGTGAGTACTAAGGCTTTTGTAGAAATGGGTGACTATAAATGGACTTTTCTTGCCAATA
1 ATTTAAAGCGAGTAATAAGGCTTTTGAAGGAATGGGAGACTATAAATAGACTTTTCTTGCCAATA
* * * * * ** *
2286 AATGTCTTTTT-CTTCACGTTTCACAAGGTAGACATTCAATTATAATCTGTTTTAACCAAATATG
66 AATGCCTTTTTCCAT-ACGTTTC-TAAGGCAG-CATTCAATTATAGTCTGTTTTAATGAAA-ATA
* *
2350 TAAAAAAATT-AACTTAAAATCAATTTTGAGATTATAAAACCATTTAAAGTC-AGTAATAAGGCT
127 T-AAAAAATTCAACTTAAAATCAATTATGAGATTATAAAATCATTTAAAG-CGAGTAATAA-GCT
* * * *
2413 TTTGAAGGAATGAGTGACTATAAATAGACTTTTCTT-ATTAATGAATACCTTTTTCTTTACGTTT
189 TTTGAAGGAATGAATGACTATAAATAGACTTTTCTTCA--AATGAAT-GCTTTTT-TTAATGTTT
* * * * * * *
2477 CTTGAAGTAGACATTCAATTATAATTTGTTTTATCTAATAATGTAAGAAAAATTGAACCTAAAAT
250 CTCGAAGTAGACATTCAATTATAATCTATTTTAACTAAAAATGTAA-AAAAATTCAACTTAAAAT
2542 CAATTATGAGATT-TAAAACC
314 CAATTATGAGATTATAAAACC
* * * * ** * *
2562 ATTTAAAGCGTGAAATAAGGCTTTTGATGAAATGGGAGACTATAAAGGGACTTTTTTTGCCAATG
1 ATTTAAAGCGAGTAATAAGGCTTTTGAAGGAATGGGAGACTATAAATAGACTTTTCTTGCCAATA
* * *
2627 AATGTCCTTTTT-TA-ACGGCTTT-TAAGGTAGGCATTCAATTATAGTCTGTTTTAATGAAAAAA
66 AATG-CCTTTTTCCATAC-G-TTTCTAAGGCA-GCATTCAATTATAGTCTGTTTTAATGAAAATA
* * * * * **
2689 GTTAAAAGTTCAACTTTAAATCAATTATGAGATTATAAAA-CCTTCTAAAGTGAGTAGCAAGGC-
127 -TAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAATCATT-TAAAGCGAGTAATAA-GCT
* ** * * *
2752 TTTAAAGGAATGGGTGACTATAAAT-GCACTTTTCTTACAAATTAAATAG-ATTTTTTACACGTT
189 TTTGAAGGAATGAATGACTATAAATAG-ACTTTTCTT-CAAA-TGAAT-GCTTTTTTTA-ATGTT
* * * * *
2815 TCTCAAAGCAG-CACTCAATTAT-ATCTGTTTTAA-TAAAAA--AAAAAAAATTCAACTTAAAAT
249 TCTCGAAGTAGACATTCAATTATAATCTATTTTAACTAAAAATGTAAAAAAATTCAACTTAAAAT
2875 CAATTATGAGATTATAAAACC
314 CAATTATGAGATTATAAAACC
* * **
2896 AGTTAAAGCGAGTAATAAGGCTTTTGAAAGAATGAAAGACTATAAATAGACTTTTCTT-CCTAAT
1 ATTTAAAGCGAGTAATAAGGCTTTTGAAGGAATGGGAGACTATAAATAGACTTTTCTTGCC-AAT
** * *
2960 AAATGGGTTTTTCCATATGTTTCCTGAGGCAGCTATTCAATTATAGTCTGTTTTAATGAAAACTA
65 AAATGCCTTTTTCCATACGTTT-CTAAGGCAGC-ATTCAATTATAGTCTGTTTTAATGAAAA-TA
* * ** *
3025 TAAAAAATTCAACTTAAAATCAATTATAACACAATAAAATCATTTAAAGCGGGTAATAGAGCTTT
127 TAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAATCATTTAAAGCGAGTAATA-AGCTTT
* * * *
3090 TGAAGGAACGAATGATTATAAATGGACTTTTCTGT-GAATGAATGCCTTTTTTGTAATGTTTCAT
191 TGAAGGAATGAATGACTATAAATAGACTTTTCT-TCAAATGAATG-CTTTTTT-TAATGTTTC-T
* * * *
3154 -GAGGTAGACATTCAATTATAATCTATTTTAACTAATAATGTAAAAAAAATTGAACCTAAAATCA
252 CGAAGTAGACATTCAATTATAATCTATTTTAACTAAAAATGT-AAAAAAATTCAACTTAAAATCA
*
3218 ATTATAAGATTATAAAACC
316 ATTATGAGATTATAAAACC
** * * * * * * *
3237 ATTTAAAGTAAGTCATAAGGCCTTCGAAGGAATAGGTGACTATAAATAGACTTTTCTTACCAATG
1 ATTTAAAGCGAGTAATAAGGCTTTTGAAGGAATGGGAGACTATAAATAGACTTTTCTTGCCAATA
* * * * * * * * *
3302 AATTCATTTTT-CTTCACATTTTTTAAGGTAGACATTCAATTATTGTCTATTTTAATCAAAAAAG
66 AATGCCTTTTTCCAT-AC-GTTTCTAAGGCAG-CATTCAATTATAGTCTGTTTTAAT--GAAAA-
* * * * *
3366 TAAAAAAAAATTGAACTTAAAATCAATTTTGAGCTTATAAAA-CTATTTAAAGTGAGTAATAAGA
125 T-ATAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAATC-ATTTAAAGCGAGTAATAAG-
* * * * * *
3430 TTTTTAAAAGAATGAGA-GACTATAAATAGACTTTTCTTACCAATGAATGTATTTTTCTTCATGT
187 CTTTTGAAGGAATGA-ATGACTATAAATAGACTTTTCTT-CAAATGAATG-CTTTTT-TTAATGT
* * *
3494 TTCTC-AATGTAGATATTCAATTATAGTCTATTTTAACTAAAAATATAAAAAAATTCAACTTAAA
248 TTCTCGAA-GTAGACATTCAATTATAATCTATTTTAACTAAAAATGTAAAAAAATTCAACTTAAA
*
3558 ATCAATTATGAGATTATAAAACT
312 ATCAATTATGAGATTATAAAACC
* *
3581 ATTTAAAGCGAGTACTAAGGCTTTTGAAGGAATGAGAGACTATAAAT-GACGTTTTCTT-CCAAA
1 ATTTAAAGCGAGTAATAAGGCTTTTGAAGGAATGGGAGACTATAAATAGAC-TTTTCTTGCC-AA
** * * *
3644 TAAATGAGTTTTTCCATACGTTTCCTGAGGCAAGCATTTAATTATAATCTGTTTTAATGAAAAAT
64 TAAATGCCTTTTTCCATACGTTT-CTAAGGC-AGCATTCAATTATAGTCTGTTTTAATG-AAAAT
* * * *
3709 GTAAAAAATTCAACTTAAAATCAATTATGAGACTATAAAATTATTTAAAGCGAGTAATAGCGCTT
126 ATAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAATCATTTAAAGCGAGTAATA-AGCTT
* * * * * * * *
3774 TTGAAGGAAT-AGGTGATTGTCAATGGACTTTTCTTACCAATGAATGGTTTTTTCTTCATGTTTC
190 TTGAAGGAATGA-ATGACTATAAATAGACTTTTCTT-CAAATGAAT-GCTTTTT-TTAATGTTTC
* ** * * *
3838 TCGAGGTAGACATTCAATTATAGCCTATTTTAACAAAAAATGTAAAACAATTGAACTTAAAATCA
251 TCGAAGTAGACATTCAATTATAATCTATTTTAACTAAAAATGTAAAAAAATTCAACTTAAAATCA
* *
3903 ATTTTGAGATTATAAAACT
316 ATTATGAGATTATAAAACC
* * * *
3922 ATTTAAAGCGAGTAATAAGGCTTTTGAAGGAATAGGTGACTATAAAT-GCACTTTTTTTGTCAAT
1 ATTTAAAGCGAGTAATAAGGCTTTTGAAGGAATGGGAGACTATAAATAG-ACTTTTCTTGCCAAT
* * * * * * ********** **
3986 GAGTTCATTTCTT--TTCACGTTTCTTGAA-GTAGACATNNNNNNNNNNTCTGTTTTAACCAAAA
65 AAATGCCTTT-TTCCAT-ACGTTTC-T-AAGGCAG-CATTCAATTATAGTCTGTTTTAA-TGAAA
* * * * *
4048 ATGTAAAGAAAATTGAACTTAAAATCAATTTTGAGATTCTAAAATGATTTAAAGCGAGTAATAAG
124 ATAT-AA-AAAATTCAACTTAAAATCAATTATGAGATTATAAAATCATTTAAAGCGAGTAATAA-
* * * * *
4113 GCTTTTG-AGGAAATTGGA-GACTATAAATGGACTTTCCTTCTCAATGAAT-TTCTTTTTTACAT
186 GCTTTTGAAGG-AA-TGAATGACTATAAATAGACTTTTCTTC-AAATGAATGCT-TTTTTTA-AT
* * * * * * * *
4175 GTTTTTCGAGGTAGATATTCAATTATAGTCTGTTTTAA-TGAAAAATATAAAAAAATACAGCTTA
246 GTTTCTCGAAGTAGACATTCAATTATAATCTATTTTAACT-AAAAATGTAAAAAAATTCAACTTA
* *
4239 AAATCAATAATGAGGTTATAAAACC
310 AAATCAATTATGAGATTATAAAACC
* * *
4264 ATTTAAAGCGAGTAATAAGGCTTTT-ACAGGAATGAGTGACTATAAATAGA-----CTTACCAAT
1 ATTTAAAGCGAGTAATAAGGCTTTTGA-AGGAATGGGAGACTATAAATAGACTTTTCTTGCCAAT
* * ** **
4323 AAATACCTTTTTCTTCA-A-GTTTTTCAAGGTGGACATTCAATTATTA-TCTGTTTTAACCAATA
65 AAATGCCTTTTTC--CATACGTTTCT-AAGGCAG-CATTCAATTA-TAGTCTGTTTTAATGAA-A
* * * * * * *
4385 ATGTAAAAAAAACTGAACCTAAAATCAATTATGAGATTATAAAAACTTTTAAAGCGAGTACTAAG
124 A--TATAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAATCATTTAAAGCGAGTAATAA-
* * * * * * *
4450 GCTGTTGAAGAAATAGGA-GACTATAAATAGACTTTTCTTGCCAATGAATACTTTTTTCTTTACG
186 GCTTTTGAAGGAAT-GAATGACTATAAATAGACTTTTCTT-CAAATGAATGC-TTTTT-TTAATG
* * * * * * *
4514 TCTCTTGATGTAGACATTCAATTATAATCTGTTTGAACTAAAAAAGTAAAAAAAAATTGAACTTA
247 TTTCTCGAAGTAGACATTCAATTATAATCTATTTTAACTAAAAATGT--AAAAAAATTCAACTTA
* * *
4579 AAATTAATTTTGAAATTATAAAACC
310 AAATCAATTATGAGATTATAAAACC
* * * *
4604 ATTTAAAGTGAGTAATAAGGCTTTTGAAGGAATAGGTGACTATAAATGGACTTTTCTTGCCAATA
1 ATTTAAAGCGAGTAATAAGGCTTTTGAAGGAATGGGAGACTATAAATAGACTTTTCTTGCCAATA
*** * * * *
4669 AATTTATTTTTCTTCATA--TTTCTCGAGGTAGACATTCAACTATAGTCTGTTTTAACTAAAAAT
66 AATGCCTTTTTC--CATACGTTTCT-AAGGCAG-CATTCAATTATAGTCTGTTTTAA-TGAAAA-
* * * * * *
4732 GTAAAAAAAAAATTAAACTTAAAATGAATTTTGAGATTATAAAACCATTTAAAGTGAGTAATAAA
125 -T--ATAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAATCATTTAAAGCGAGTAAT-AA
* *** * ** * **
4797 GCTTTTAAAGGAATGGGCGACTGTAAATCA-ACTTTTCTTACCGATGAATGCTTTTTTCTTCACA
186 GCTTTTGAAGGAATGAATGACTATAAAT-AGACTTTTCTT-CAAATGAATGC-TTTTT-TTAATG
* * * * * **
4861 TTTCTTG-AGATAGACATTCAATTACAGTCTGTTTTAACCAAAAATGTAAAAAAATTGGACTTAA
247 TTTCTCGAAG-TAGACATTCAATTATAATCTATTTTAACTAAAAATGTAAAAAAATTCAACTTAA
* * **
4925 AATCAATTTTGATATTATAAAATT
311 AATCAATTATGAGATTATAAAACC
* * * * * * * *
4949 ATTTAAAGCAAGCAATAAAGCTTTTGAAAGAATGAGTGACTATAAAT-GCACTTTTTTTGCCAGT
1 ATTTAAAGCGAGTAATAAGGCTTTTGAAGGAATGGGAGACTATAAATAG-ACTTTTCTTGCCAAT
* * * * * * * * **
5013 AAATTCATTTTT--TTCACGTTTCTTGAGGTAGACAATCAATTATAGGCTATTTTAACAAAAACT
65 AAATGCCTTTTTCCAT-ACGTTTC-TAAGGCAG-CATTCAATTATAGTCTGTTTTAATGAAAA-T
* * * * **
5076 GTAAAAATAATTAAACTTAAAATTAATTTTGAGATTATAAAA-CGATTTAAAATGAGTAATAAGG
126 AT-AAAA-AATTCAACTTAAAATCAATTATGAGATTATAAAATC-ATTTAAAGCGAGTAATAA-G
* * * * *
5140 C-TTTGAAGGAATCGGA-GACTATAAATGGACTATTT-TTCTCAATGAATTTCTTTTTCTACATG
187 CTTTTGAAGGAAT-GAATGACTATAAATAGACT-TTTCTTC-AAATGAA-TGCTTTTTTTA-ATG
* * * * *
5202 TTTTTC-AAGGTA-AGCATTCAATGATAGTCTGTTTTAA-TGAAAAATGTAAAAAAATACAACTT
247 TTTCTCGAA-GTAGA-CATTCAATTATAATCTATTTTAACT-AAAAATGTAAAAAAATTCAACTT
*
5264 AAAATCAATAATGAGATTATAAAACC
309 AAAATCAATTATGAGATTATAAAACC
* ** * * *
5290 ATTTAAAACGAGTAATAAGAATTTTGAAGGAATGAGTGACTATAAATGGA-----CTTGCCAATA
1 ATTTAAAGCGAGTAATAAGGCTTTTGAAGGAATGGGAGACTATAAATAGACTTTTCTTGCCAATA
* * * * * *
5350 AATACCTTATT-CTTCACATTTCTTAAGGTAGACATTCAATTATAATCTGTTTTAACT-AATAAT
66 AATGCCTTTTTCCAT-ACGTTTC-TAAGGCAG-CATTCAATTATAGTCTGTTTTAA-TGAA-AAT
* * * * * * *
5413 GTAAAAAAATTGAACTTAAAATCAATTATGAGATTATAAAAACTTTTAAAGCGAGTACTAGGGTT
126 AT-AAAAAATTCAACTTAAAATCAATTATGAGATTATAAAATCATTTAAAGCGAGTAATA-AGCT
* * * * * * *
5478 TTTGAAAGAATAGGA-GACTATAAATTGACTTTTCTTGCCAATAAATGCTTTTTTCTTTATGTCT
189 TTTGAAGGAAT-GAATGACTATAAATAGACTTTTCTT-CAAATGAATGC-TTTTT-TTAATGTTT
* * *
5542 CTTGATGTAGACATTCAATTATAATCTGTTTT
250 CTCGAAGTAGACATTCAATTATAATCTATTTT
5574 GNNNNNNNNN
Statistics
Matches: 2704, Mismatches: 485, Indels: 328
0.77 0.14 0.09
Matches are distributed among these distances:
333 40 0.01
334 71 0.03
335 95 0.04
336 126 0.05
337 329 0.12
338 166 0.06
339 77 0.03
340 232 0.09
341 619 0.23
342 242 0.09
343 111 0.04
344 232 0.09
345 218 0.08
346 7 0.00
347 136 0.05
348 3 0.00
ACGTcount: A:0.39, C:0.11, G:0.14, T:0.35
Consensus pattern (334 bp):
ATTTAAAGCGAGTAATAAGGCTTTTGAAGGAATGGGAGACTATAAATAGACTTTTCTTGCCAATA
AATGCCTTTTTCCATACGTTTCTAAGGCAGCATTCAATTATAGTCTGTTTTAATGAAAATATAAA
AAATTCAACTTAAAATCAATTATGAGATTATAAAATCATTTAAAGCGAGTAATAAGCTTTTGAAG
GAATGAATGACTATAAATAGACTTTTCTTCAAATGAATGCTTTTTTTAATGTTTCTCGAAGTAGA
CATTCAATTATAATCTATTTTAACTAAAAATGTAAAAAAATTCAACTTAAAATCAATTATGAGAT
TATAAAACC
Found at i:5102 original size:16 final size:17
Alignment explanation
Indices: 5071--5103 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
5061 ATTTTAACAA
5071 AAACTGTAAAAATAATT
1 AAACTGTAAAAATAATT
*
5088 AAACT-TAAAATTAATT
1 AAACTGTAAAAATAATT
5104 TTGAGATTAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.58, C:0.06, G:0.03, T:0.33
Consensus pattern (17 bp):
AAACTGTAAAAATAATT
Found at i:7448 original size:172 final size:170
Alignment explanation
Indices: 6288--7447 Score: 684
Period size: 172 Copynumber: 6.8 Consensus size: 170
6278 NNNNNNNNNN
* *
6288 TGAGATTATAAAACCATTTAAAGTC-AGTAATAAGGCTTTTGAAGCAATGGGTGACTATAAATAG
1 TGAGATTATAAAACCATTTAAAG-CGAGTAATAAGGCTTTTGAAGGAAT-GGAGACTATAAATAG
** *** * * ** * * *
6352 ACTTTTCTTATTAATGAATACCTTTTTCTTTATGTTTCTTGAGGTAGACATTTAATTATAATTTG
64 ACTTTTCTTACCAATGAATGTATTTTTCTTCATATTTCTCAAGGTAGACATTCAATTATAGTCTG
* * ** *********** *
6417 TTTT-ATCTAATAATGTAAGAAAAATTGNNNNNNNNNNCAATTA
129 TTTTAAT-AAAAAAAATAA-AAAAATTCAACTTAAAATCAATTT
* * * * ** *
6460 TGAGATTATAAAACCATTTAAAGCGTGTAATAAGACTTTTGATGAAATGAGAGACTATAAAGGGG
1 TGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAGGAATG-GAGACTATAAATAGA
* * * * *
6525 CTTTTTTTGCCAATGAATGTCTTTTTTTTACGT-TTTCT-AAGGTAGACATTCAATTATAGTCTG
65 CTTTTCTTACCAATGAATGTATTTTTCTT-CATATTTCTCAAGGTAGACATTCAATTATAGTCTG
* * * * * *
6588 TTTTAATGAAAAAAGT-TAAAAGTTTAACTTAAAATCAATTA
129 TTTTAATAAAAAAAATAAAAAAATTCAACTTAAAATCAATTT
* * * * *
6629 TGAGATTATAAAA-CTTTCTAAAGTGAGTAGTAAGGC-TTTAAAGGAATTGGTGACTATAAAT-G
1 TGAGATTATAAAACCATT-TAAAGCGAGTAATAAGGCTTTTGAAGGAA-TGGAGACTATAAATAG
* * * * * * * *
6691 AACTTTTCTTACAAATAAATAG-ATTTTTCTACACATTTCTCAAAGCAGGCACTCAATTATAGTC
64 -ACTTTTCTTACCAATGAAT-GTATTTTTCTTCATATTTCTCAAGGTAGACATTCAATTATAGTC
* *****
6755 TGTTTTAATAAAAAACAT-AAAAAATTCAACTTAAAATCNNNNN
127 TGTTTTAATAAAAAAAATAAAAAAATTCAACTTAAAATCAATTT
***** *
6798 NNNNNTTATAAAACCAGTTAAAGCGAGTAATAAGGCTTTTGAAGGAATGGAAGACTATAAATAGA
1 TGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAGGAATGG-AGACTATAAATAGA
* * * * ** ** * *
6863 CTTTTTTTTTCTAATAAATGGGTTTTTCCACATGTTTC-CTAAGGCAG-CTATTCAATTATAGTC
65 C-TTTTCTTACCAATGAATGTATTTTTCTTCATATTTCTC-AAGGTAGAC-ATTCAATTATAGTC
* ** **
6926 TGTTTTAATGAAAACTAT-AAGCAATTCAACTTAAAATCAATTAT
127 TGTTTTAATAAAAAAAATAAAAAAATTCAACTTAAAATCAATT-T
* ** * * * * * *
6970 T-ACACAATAAAATCATTTAAAGCGGGTAATAGGGCTTTTGAAAGAACGGGTGACTATAAATAGA
1 TGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAGGAA-TGGAGACTATAAATAGA
** * * * *
7034 CTTTTCTGT--CAATGAATGCCTTTTTCATAAAATTTCAT-AAGGTAGACATTCAATTATAATCT
65 CTTTTCT-TACCAATGAATGTATTTTTCTTCATATTTC-TCAAGGTAGACATTCAATTATAGTCT
* ** * * *
7096 GTTTTAATAAATAATGTAAAAACAAATTGAACCTAAAATCAACTAT
128 GTTTTAATAAAAAAAAT-AAAA-AAATTCAACTTAAAATCAA-TTT
** * * * ********** *
7142 T-AGATTATAAAACCATTTAAAGTAAGTCATAAGGCCTTCGAAGGAATAGGNNNNNNNNNNTGGA
1 TGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAGGAAT-GGAGACTATAAATAGA
* * * ** * *
7206 CTTTTCTTGCCAATGAAT-TCATTTTTCTTCACATTTTTTGAGGTAGATATTCAATTATTGTCTG
65 CTTTTCTTACCAATGAATGT-ATTTTTCTTCATATTTCTCAAGGTAGACATTCAATTATAGTCTG
* *
7270 TTTTAACAAAAAAAATAAAAAAAATTGAACTTAAAATCAATTT
129 TTTTAATAAAAAAAAT-AAAAAAATTCAACTTAAAATCAATTT
* * * **
7313 TGAGCTTATAAAATCATTTAAAGTGAGTAATAAGATTTTTGAAGGAATAGGAGACTATAAATAGA
1 TGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAGGAAT-GGAGACTATAAATAGA
* * *
7378 GTTTTCTTACCAATGAATGTATTTTTCTTCATATTTCTCAAGATAGACATTCAATTATAGTCTAT
65 CTTTTCTTACCAATGAATGTATTTTTCTTCATATTTCTCAAGGTAGACATTCAATTATAGTCTGT
7443 TTTAA
130 TTTAA
7448 CCAAANNNNN
Statistics
Matches: 748, Mismatches: 205, Indels: 70
0.73 0.20 0.07
Matches are distributed among these distances:
167 2 0.00
168 45 0.06
169 171 0.23
170 32 0.04
171 169 0.23
172 268 0.36
173 61 0.08
ACGTcount: A:0.37, C:0.11, G:0.14, T:0.36
Consensus pattern (170 bp):
TGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAGGAATGGAGACTATAAATAGAC
TTTTCTTACCAATGAATGTATTTTTCTTCATATTTCTCAAGGTAGACATTCAATTATAGTCTGTT
TTAATAAAAAAAATAAAAAAATTCAACTTAAAATCAATTT
Found at i:7818 original size:170 final size:170
Alignment explanation
Indices: 7493--7818 Score: 377
Period size: 170 Copynumber: 1.9 Consensus size: 170
7483 NNNNNNNNNN
* * * *
7493 AATTATGAGATTATAAAACCATTTAAAGCGAGTACTAAGGCTTTTAAAGGAATGAGAAACTATAA
1 AATTACGAGACTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTAAAGGAATAAGAAACTATAA
* * *
7558 ATGAAGTTTTCTTCCAAATAAATGAGTTTTTTCACACGTTTCCTGAGGCAGGCATTCAATTATAA
66 ATGAACTTTTCTTCCAAATAAATGACTTTTTTCACACGTTTCCTGAGGCAGACATTCAATTATAA
* * ** *
7623 TATGTTTTAATGAGAAATATAAAAAATTCAACTTAAAATC
131 CATATTTTAACAAAAAATATAAAAAATTCAACTTAAAATC
* * ** * * *
7663 AATTACGAGACTATAAAACCATTTAAAGCGAGTAATAGGGCTTTTGAAGGAATAAGTGATTGTCA
1 AATTACGAGACTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTAAAGGAATAAGAAACTATAA
* * * * *
7728 ATGGACTTTTCTTACCAAA-GAATG-CTTTTTTCTACATGTTTCTTGAGGTAGACATTCAATTAT
66 ATGAACTTTTCTT-CCAAATAAATGACTTTTTTC-ACACGTTTCCTGAGGCAGACATTCAATTAT
* * *
7791 AGCCTATTTTAACAAAAAATGTAAAAAA
129 AACATATTTTAACAAAAAATATAAAAAA
7819 ATNNNNNNNN
Statistics
Matches: 127, Mismatches: 27, Indels: 4
0.80 0.17 0.03
Matches are distributed among these distances:
169 7 0.06
170 115 0.91
171 5 0.04
ACGTcount: A:0.40, C:0.12, G:0.15, T:0.33
Consensus pattern (170 bp):
AATTACGAGACTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTAAAGGAATAAGAAACTATAA
ATGAACTTTTCTTCCAAATAAATGACTTTTTTCACACGTTTCCTGAGGCAGACATTCAATTATAA
CATATTTTAACAAAAAATATAAAAAATTCAACTTAAAATC
Found at i:8540 original size:172 final size:171
Alignment explanation
Indices: 7889--8542 Score: 486
Period size: 172 Copynumber: 3.8 Consensus size: 171
7879 NNNNNNNNNN
* * * * * *
7889 AAAACCATTTAAAGCGAGTAATAAGGCTTTCGAAGGAATAGGTGACTATAAATGCACTTTTTTTG
1 AAAAACATTTAAAGCGAGTAATAAGGCTTTTGAAGGAATGGGAGACTATAAATGGACTTTTCTTG
* ** * * * *
7954 CCAATGAATTCATTTCTTTTCATGTTTCTTGAAGCAGATATTCAATTATAGTCTGTTTTAACTAA
66 CCAATAAATTTTTTTCTTTACA-GTTTCTTGAGGTAGACATTCAATTATAGTCTGTTTTAACTAA
* * *
8019 AAATGTAAAGAAAATTGAACTTAAAATCAATTTTGAGATTAT
130 AAAAGTAAAAAAAATTGAACTTAAAATCAATTATGAGATTAT
** * * * *
8061 AAAATGATTTAAAGCGAGTAATAAAGCTTTTGAGGGAATTGGAGACTATAAATGGACTTTT-TTT
1 AAAAACATTTAAAGCGAGTAATAAGGCTTTTGAAGGAATGGGAGACTATAAATGGACTTTTCTTG
* * * *
8125 CTCAATAAATTTCTTTT-TCTGCATGTTT-TTCGAGGTAGATATTCAATTATAGTTTGTTTTAA-
66 C-CAATAAATTT-TTTTCTTTACA-GTTTCTT-GAGGTAGACATTCAATTATAGTCTGTTTTAAC
** * * *
8187 TAAAAAA-TATAAAAAAATACAGCTTAAAATAAATAATGAGATTAT
127 TAAAAAAGTA-AAAAAAATTGAACTTAAAATCAATTATGAGATTAT
* ********** * * * *
8232 AAAACCATTTAAAGCGAGTANNNNNNNNNNTAAAGGAATGGGTGACTATAAATAGA-----CTTA
1 AAAAACATTTAAAGCGAGTAATAAGGCTTTTGAAGGAATGGGAGACTATAAATGGACTTTTCTTG
* * ** * ********** *
8292 CCAATAAATACCTTTTTCTTCA-AGTTTCTCAAGGTGGACATTNNNNNNNNNNCTGTTTTAACCA
66 CCAATAAAT--TTTTTTCTTTACAGTTTCTTGAGGTAGACATTCAATTATAGTCTGTTTTAACTA
* * *
8356 ATAATGTAAAAAAAATTGAACGTAAAATCAATTATGAGATTAT
129 AAAAAGTAAAAAAAATTGAACTTAAAATCAATTATGAGATTAT
* * *
8399 AAAAACTTTTAAAGCGAGTACTAAGGCTTTTGAAGAAATGGGAGACTATAAATGGACTTTTCTTG
1 AAAAACATTTAAAGCGAGTAATAAGGCTTTTGAAGGAATGGGAGACTATAAATGGACTTTTCTTG
** * *
8464 CCAATAAATACTTTTTTCTTTACA-CCTCTTGATGTAGACATTCAATTATAATCTGTTTTAACTA
66 CCAATAAAT--TTTTTTCTTTACAGTTTCTTGAGGTAGACATTCAATTATAGTCTGTTTTAACTA
8528 AAAAAGTAAAAAAAA
129 AAAAAGTAAAAAAAA
8543 ATTGNNNNNN
Statistics
Matches: 356, Mismatches: 109, Indels: 34
0.71 0.22 0.07
Matches are distributed among these distances:
166 29 0.08
167 82 0.23
168 4 0.01
170 2 0.01
171 78 0.22
172 157 0.44
173 4 0.01
ACGTcount: A:0.38, C:0.11, G:0.14, T:0.34
Consensus pattern (171 bp):
AAAAACATTTAAAGCGAGTAATAAGGCTTTTGAAGGAATGGGAGACTATAAATGGACTTTTCTTG
CCAATAAATTTTTTTCTTTACAGTTTCTTGAGGTAGACATTCAATTATAGTCTGTTTTAACTAAA
AAAGTAAAAAAAATTGAACTTAAAATCAATTATGAGATTAT
Found at i:9175 original size:171 final size:160
Alignment explanation
Indices: 8972--9285 Score: 344
Period size: 171 Copynumber: 1.9 Consensus size: 160
8962 ACATTCAATT
* * * * *
8972 ACAGTCTGTTTTAACCAAATATGTAAAAAAATTAAACTTAAAATTAATTTTGATATTATAAAACT
1 ACAGTCTGTTTTAACAAAAAATGTAAAAAAATTAAACTTAAAATCAATTTTGAGATTATAAAACG
* * * * *
9037 ATTTCAAGCGAGTAATAAGGCTTTTGAAGGAA-AGAGTGACTATAAATGCACTTTTCTTGC-CAA
66 ATTTAAAACGAATAATAAGACTTTTGAAGGAATAG-GAGACTATAAATGCACTTTT-TTGCTCAA
9100 TAAATTTATTTTTTTCACGTTTCTTGAGGTAG
129 TAAATTTATTTTTTTCACGTTTCTTGAGGTAG
9132 ACANNNNNNNNNNGTCTGTTTTAACAAAAAATGTAACAAAAATTAAACTTAAAATCAATTTTGAG
1 ACA----------GTCTGTTTTAACAAAAAATGTAA-AAAAATTAAACTTAAAATCAATTTTGAG
* * * *
9197 ATTATAAAACGATTTAAAATGAATAATAAGACTTTTGAGGGAATCGGAGACTATAAATGGACTTT
55 ATTATAAAACGATTTAAAACGAATAATAAGACTTTTGAAGGAATAGGAGACTATAAATGCACTTT
* * *
9262 TTTTCTCAATGAATTTCTTTTTTT
120 TTTGCTCAATAAATTTATTTTTTT
9286 ACATATTTTT
Statistics
Matches: 124, Mismatches: 17, Indels: 15
0.79 0.11 0.10
Matches are distributed among these distances:
160 3 0.02
170 24 0.19
171 96 0.77
172 1 0.01
ACGTcount: A:0.38, C:0.10, G:0.13, T:0.36
Consensus pattern (160 bp):
ACAGTCTGTTTTAACAAAAAATGTAAAAAAATTAAACTTAAAATCAATTTTGAGATTATAAAACG
ATTTAAAACGAATAATAAGACTTTTGAAGGAATAGGAGACTATAAATGCACTTTTTTGCTCAATA
AATTTATTTTTTTCACGTTTCTTGAGGTAG
Found at i:11377 original size:170 final size:169
Alignment explanation
Indices: 11007--11443 Score: 408
Period size: 170 Copynumber: 2.6 Consensus size: 169
10997 NNNNAAGTAA
* * **
11007 AAAAAATTAACCTTAAAATCAATTTTAAGATAATAAAATTATTTAAAGTGAGTAATAAGGCTTTG
1 AAAAAATTAACCTTAAAATCAATTTTGAGATTATAAAACCATTTAAAGTGAGTAATAAGGCTTTG
** * * * * * *
11072 AAAGAATGGGAGACTATAACTAGACTTTTCTTCCAAATAAATGGATTTTTTTACATGTTTCTCGA
66 AAAGAATAAGAGACTATAAATAGACTTTTCTTCCAAATAAATGGATTTTTTCACACGTATCCCAA
* * * *
11137 GGCAAGTATTCAATTATAGTCTGTTTTAATGAAAAATGT
131 GGCAAGCATTCAACTATAGTCTGTTTTAATAAAAAATAT
* ************
11176 TAAAAATNNNNNNNNNNNNCAATTTTGAGATTATAAAACCATTTAAAGTGAGTAATAAGGCTTTC
1 AAAAAATTAACCTTAAAATCAATTTTGAGATTATAAAACCATTTAAAGTGAGTAATAAGGCTTT-
* * * *
11241 GAAAGAATAAGAGATTATAAATTGACTTTTCTTTCAAATAAATTGATTTTTTCACACGTATCCCA
65 GAAAGAATAAGAGACTATAAATAGACTTTTCTTCCAAATAAATGGATTTTTTCACACGTATCCCA
*
11306 AGG-TAGACATTCAACTATAGTCTGTTTTAATAAAAAATAT
130 AGGCAAG-CATTCAACTATAGTCTGTTTTAATAAAAAATAT
* * * * ** * **
11346 AAAAAATTTAGCTTAAAATCAATTATGAGATTATAAAACCTTTTAAAGCAAGTACTAAGATTTTT
1 AAAAAATTAACCTTAAAATCAATTTTGAGATTATAAAACCATTTAAAGTGAGTAATAAG-GCTTT
* ** * *
11411 GAAGGAATGGGTGACTATAAATGGACTTTTCTT
65 GAAAGAATAAGAGACTATAAATAGACTTTTCTT
11444 GCTAATGAAT
Statistics
Matches: 205, Mismatches: 60, Indels: 5
0.76 0.22 0.02
Matches are distributed among these distances:
169 49 0.24
170 153 0.75
171 3 0.01
ACGTcount: A:0.40, C:0.10, G:0.13, T:0.35
Consensus pattern (169 bp):
AAAAAATTAACCTTAAAATCAATTTTGAGATTATAAAACCATTTAAAGTGAGTAATAAGGCTTTG
AAAGAATAAGAGACTATAAATAGACTTTTCTTCCAAATAAATGGATTTTTTCACACGTATCCCAA
GGCAAGCATTCAACTATAGTCTGTTTTAATAAAAAATAT
Found at i:11812 original size:171 final size:171
Alignment explanation
Indices: 10548--11814 Score: 734
Period size: 171 Copynumber: 7.4 Consensus size: 171
10538 NNNNNNNNNN
* * *
10548 GGCTTTTG-AAGAAATGGGAGACTATAAATAGACTTTTC-TGACCAATGATTGCTTTTTTCTTCA
1 GGCTTTTGAAAG-AATGAGAGACTATAAATGGACTTTTCTTG-CCAATGAATGCTTTTTTCTTCA
** * * *
10611 CATTTCTTAAGGTAGACATTCAATTATAGT-TCGTTTCAATGAAAAATGTAAAAAAATTTGACTT
64 TGTTTCTCAAGGTAGACATTCAATTATAGTCT-GTTTTAATGAAAAATGTAAAAAAATTTAACTT
* *********** *
10675 AAAATTAATNNNNNNNNNNCAAAACCTTTTAAAGTGAGTATTAA
128 AAAATCAATTTTGAGATTATAAAACCTTTTAAAGTGAGTAATAA
* * * ** *
10719 GGCTTTTGAAGGAATGAGAGACTATAAATGGAGTTTTCTTGCCAACGAATGCCCTTTTCTTCATA
1 GGCTTTTGAAAGAATGAGAGACTATAAATGGACTTTTCTTGCCAATGAATGCTTTTTTCTTCATG
* * * * * *
10784 TTGCTCAATGTAGACATTCAATTATAATCTATTTTAATTAGAAAA-GTAAAAAAAAAATTGAACT
66 TTTCTCAAGGTAGACATTCAATTATAGTCTGTTTTAATGA-AAAATGT---AAAAAAATTTAACT
* * **********
10848 TAAAATCAATTTTGAGATAATAAAACCATTTANNNNNNNNNNTAA
127 TAAAATCAATTTTGAGATTATAAAACCTTTTAAAGTGAGTAATAA
* * * * *
10893 GGCTTTTGAAGGAATCG-GTGACTATAAATGGACTTTTCTTGCTAATCAATGGC-TTTTTCTTTA
1 GGCTTTTGAAAGAAT-GAGAGACTATAAATGGACTTTTCTTGCCAATGAAT-GCTTTTTTCTTCA
* * * ********* *
10956 TGTTTCTCAATGTAAACATTCAATTATAATCTGTTNNNNNNNNNNAA-GTAAAAAAAATTAACCT
64 TGTTTCTCAAGGTAGACATTCAATTATAGTCTGTT-TTAATGAAAAATGTAAAAAAATTTAA-CT
* * *
11020 TAAAATCAATTTTAAGATAATAAAA-TTATTTAAAGTGAGTAATAA
127 TAAAATCAATTTTGAGATTATAAAACCT-TTTAAAGTGAGTAATAA
* * * * * *
11065 GGC-TTTGAAAGAATGGGAGACTATAACTAGACTTTTCTT-CCAAATAAATGGATTTTTT-TACA
1 GGCTTTTGAAAGAATGAGAGACTATAAATGGACTTTTCTTGCC-AATGAAT-GCTTTTTTCTTCA
* * * * *******
11127 TGTTTCTCGAGGCA-AGTATTCAATTATAGTCTGTTTTAATGAAAAATGT-TAAAAATNNNNNNN
64 TGTTTCTCAAGGTAGA-CATTCAATTATAGTCTGTTTTAATGAAAAATGTAAAAAAATTTAACTT
***** *
11190 NNNNNCAATTTTGAGATTATAAAACCATTTAAAGTGAGTAATAA
128 AAAATCAATTTTGAGATTATAAAACCTTTTAAAGTGAGTAATAA
* * * * * * * * * *
11234 GGCTTTCGAAAGAATAAGAGATTATAAATTGACTTTTCTTTCAAATAAATTGATTTTTTC-ACAC
1 GGCTTTTGAAAGAATGAGAGACTATAAATGGACTTTTCTTGCCAATGAA-TGCTTTTTTCTTCAT
* * * * * *
11298 GTATCCCAAGGTAGACATTCAACTATAGTCTGTTTTAATAAAAAATAT-AAAAAATTTAGCTTAA
65 GTTTCTCAAGGTAGACATTCAATTATAGTCTGTTTTAATGAAAAATGTAAAAAAATTTAACTTAA
* ** *
11362 AATCAATTATGAGATTATAAAACCTTTTAAAGCAAGTACTAA
130 AATCAATTTTGAGATTATAAAACCTTTTAAAGTGAGTAATAA
** * * * * * **
11404 GATTTTTGAAGGAATGGGTGACTATAAATGGACTTTTCTTGCTAATGAATTCTTTTTTCTTCACA
1 GGCTTTTGAAAGAATGAGAGACTATAAATGGACTTTTCTTGCCAATGAATGCTTTTTTCTTCATG
** * * * * ** * * *
11469 TTTCTTGAGGTCGATATTCAATTATAATATGTTTTAACCAAAAAAGTTAAACAAATTGAACTTAA
66 TTTCTCAAGGTAGACATTCAATTATAGTCTGTTTTAATGAAAAATG-TAAAAAAATTTAACTTAA
* **********
11534 AATTAATTTTGA-NNNNNNNNNNCTATTTAAAGTGAGTAATAA
130 AATCAATTTTGAGATTATAAAACCT-TTTAAAGTGAGTAATAA
* * * **********
11576 GACTTTCG-ATGAAAT-AGGAGACTATAAATGGACTTTTCTTGNNNNNNNNNNCTTTTTTCTTCA
1 GGCTTTTGAAAG-AATGA-GAGACTATAAATGGACTTTTCTTGCCAATGAATGCTTTTTTCTTCA
* * *
11639 TGTTTCTCGAGGTAAACATTCAATTATAGTCTGTTTGAATGAAAAATGTAAAAAAATTTAACTTA
64 TGTTTCTCAAGGTAGACATTCAATTATAGTCTGTTTTAATGAAAAATGTAAAAAAATTTAACTTA
* * * *
11704 AAATTAATTGTGAGATTATAAAACCTTTTAAAGCGAGTACTAA
129 AAATCAATTTTGAGATTATAAAACCTTTTAAAGTGAGTAATAA
* * * * * *
11747 GACTTTGGAAAGAATGAGTGACTATAAATAGACTTTTCTTGCCAATGAATGCGTTTCTCTTCATG
1 GGCTTTTGAAAGAATGAGAGACTATAAATGGACTTTTCTTGCCAATGAATGCTTTTTTCTTCATG
11812 TTT
66 TTT
11815 NNNNNNNNNN
Statistics
Matches: 808, Mismatches: 256, Indels: 64
0.72 0.23 0.06
Matches are distributed among these distances:
169 45 0.06
170 208 0.26
171 260 0.32
172 172 0.21
174 120 0.15
175 3 0.00
ACGTcount: A:0.36, C:0.11, G:0.13, T:0.35
Consensus pattern (171 bp):
GGCTTTTGAAAGAATGAGAGACTATAAATGGACTTTTCTTGCCAATGAATGCTTTTTTCTTCATG
TTTCTCAAGGTAGACATTCAATTATAGTCTGTTTTAATGAAAAATGTAAAAAAATTTAACTTAAA
ATCAATTTTGAGATTATAAAACCTTTTAAAGTGAGTAATAA
Found at i:13265 original size:171 final size:170
Alignment explanation
Indices: 12980--13842 Score: 839
Period size: 171 Copynumber: 5.0 Consensus size: 170
12970 NNNNNNAGTG
* ** * *
12980 AGTAATAAGGCTTTTAAAAGAATGGGTGACTATAAATAGACTTTTCTTGCTGATAAATTTA-TTT
1 AGTAATAAGGCTTTTGAAAGAATGGGTGACTATAAATAGACTTTTCTTGCCAATGAA-TGACTTT
* *
13044 TTCTTCACGA-TTCTTAAGGTAGACATTCAACTATAGTCTGTTTTAACTAAAAATGTAAAAAAAT
65 TTCTTCAC-ATTTCTTAAGGTAGACATTCAATTATAATCTGTTTTAACTAAAAATGTAAAAAAAT
* * *
13108 TGAAGTTAAAACCAATTTTGAGATTATAAAATCATTTAAACTA
129 TGAACTTAAAATCAATTATGAGATTATAAAATCATTTAAAC-A
* *
13151 AGTAATAAGGCTTTTGAAAGAATGGGTGACTTTAAATGGACTTTTCTTGCCAATGAATGACTTTT
1 AGTAATAAGGCTTTTGAAAGAATGGGTGACTATAAATAGACTTTTCTTGCCAATGAATGACTTTT
* * * *
13216 TCTTTACATTTCTTTAGGTAGACATTCAATTATAATTTTTTTTAACTAAAAATGTAAATAAAATT
66 TCTTCACATTTCTTAAGGTAGACATTCAATTATAATCTGTTTTAACTAAAAATGTAAA-AAAATT
* * * **
13281 GAA-TCTAAAATTAATTTTGAGATTACAAAA-CTATTTAAAGTG
130 GAACT-TAAAATCAATTATGAGATTATAAAATC-ATTTAAA-CA
*
13323 AGTAATAAGGCTTTTGAAAGAATGGGTGACTATAAATAGAC-TTTCTTTCCAATGAATG-CATTT
1 AGTAATAAGGCTTTTGAAAGAATGGGTGACTATAAATAGACTTTTCTTGCCAATGAATGAC-TTT
* * * * * ** * *
13386 CTCTTCATATTTCTCAAGTTAGACCTTCAATTATTGTCTGTTTTAACTAAAAATTTAAAAACATT
65 TTCTTCACATTTCTTAAGGTAGACATTCAATTATAATCTGTTTTAACTAAAAATGTAAAAAAATT
* ** * *
13451 CAACTTAAAATCAATTATGAGA-TGCAAAATCATTTGAAGCG
130 GAACTTAAAATCAATTATGAGATTATAAAATCATTT-AAACA
* * * * * *
13492 AGTAACAAGGCTTTTGAAGGAATGAGAGACTATAAATTGACTTTTCTT-CTCAATGAATGACTTA
1 AGTAATAAGGCTTTTGAAAGAATGGGTGACTATAAATAGACTTTTCTTGC-CAATGAATGACTTT
* ** * * * * * *
13556 TTCTACATGTTTCCTAAGGCAGGCATTCAATTATACTCTGTTTTAA-TAAAAAATATAAAAAATT
65 TTCTTCACATTTCTTAAGGTAGACATTCAATTATAATCTGTTTTAACT-AAAAATGTAAAAAAAT
* * * **
13620 TTAACTTAAAATCAATTATAAGGTTATAAAGCCATTTAAAGCA
129 TGAACTTAAAATCAATTATGAGATTATAAAATCATTTAAA-CA
* * * * * *
13663 AGTAATAAGGCTTTTGAAGGAATGTGTGACTATAAATGGACTTTTTTTGCCAACGAATGTCTTTT
1 AGTAATAAGGCTTTTGAAAGAATGGGTGACTATAAATAGACTTTTCTTGCCAATGAATGACTTTT
* * * * * * * **
13728 TATTCACGTTTCTCAAGGTCGACATTCAATTATATTATGTTTTCAAC-AATAAT-TCGAAATGAA
66 TCTTCACATTTCTTAAGGTAGACATTCAATTATAATCTGTTTT-AACTAAAAATGT--AAAAAAA
* * *
13791 TTTAACCTAAAATCAATTATGAGATTATAAAATCATTTAAAGCG
128 TTGAACTTAAAATCAATTATGAGATTATAAAATCATTTAAA-CA
13835 AGTAATAA
1 AGTAATAA
13843 NNNNNNNNNN
Statistics
Matches: 574, Mismatches: 97, Indels: 41
0.81 0.14 0.06
Matches are distributed among these distances:
169 49 0.09
170 117 0.20
171 278 0.48
172 130 0.23
ACGTcount: A:0.38, C:0.12, G:0.13, T:0.37
Consensus pattern (170 bp):
AGTAATAAGGCTTTTGAAAGAATGGGTGACTATAAATAGACTTTTCTTGCCAATGAATGACTTTT
TCTTCACATTTCTTAAGGTAGACATTCAATTATAATCTGTTTTAACTAAAAATGTAAAAAAATTG
AACTTAAAATCAATTATGAGATTATAAAATCATTTAAACA
Found at i:13758 original size:341 final size:340
Alignment explanation
Indices: 12980--13839 Score: 930
Period size: 341 Copynumber: 2.5 Consensus size: 340
12970 NNNNNNAGTG
* * ** * * *
12980 AGTAATAAGGCTTTTAAAAGAATGGGTGACTATAAATAGACTTTTCTTGCTGATAAATTTATTTT
1 AGTAATAAGGCTTTTGAAAGAATGGGTGACTATAAATAGACTTTTTTTGCCAATGAATGTCTTTT
* * * * * *
13045 TCTTCACGATTCTTAAGGTAGACATTCAACTATAGTCTGTTTTAACTAAAAATGTAAAAAAATTG
66 TCTTCACGTTTCTCAAGGTAGACATTCAATTATTGTCTGTTTTAACTAAAAAT-TTAAAAAATTC
* * * * * *
13110 AAGTTAAAACCAATTTTGAGATTATAAAATCATTTAAACTAAGTAATAAGGCTTTTGAAAGAATG
130 AACTTAAAATCAATTATGAGATTATAAAATCATTTAAGC-GAGTAACAAGGCTTTTGAAAGAATG
* * * * * * *
13175 GGTGACTTTAAATGGACTTTTCTTGCCAATGAATGACTTTTTCTTTACATTTCTTTAGGTAGACA
194 AGAGACTATAAATGGACTTTTCTTGCCAATGAATGACTTATTC-TTACATTTCCTAAGGCAGACA
* * * * * *
13240 TTCAATTATAATTTTTTTTAACTAAAAATGTAAATAAAATTGAATCTAAAATTAATTTTGAGATT
258 TTCAATTATAATCTGTTTTAACTAAAAATATAAATAAAATTGAATCTAAAATCAATTATAAGATT
* **
13305 ACAAAACTATTTAAAGTG
323 ACAAAACCATTTAAAGCA
*
13323 AGTAATAAGGCTTTTGAAAGAATGGGTGACTATAAATAGACTTTCTTT-CCAATGAATG-CATTT
1 AGTAATAAGGCTTTTGAAAGAATGGGTGACTATAAATAGACTTTTTTTGCCAATGAATGTC-TTT
* ** * *
13386 CTCTTCATATTTCTCAAGTTAGACCTTCAATTATTGTCTGTTTTAACTAAAAATTTAAAAACATT
65 TTCTTCACGTTTCTCAAGGTAGACATTCAATTATTGTCTGTTTTAACTAAAAATTTAAAAA-ATT
** *
13451 CAACTTAAAATCAATTATGAGA-TGCAAAATCATTTGAAGCGAGTAACAAGGCTTTTGAAGGAAT
129 CAACTTAAAATCAATTATGAGATTATAAAATCATTT-AAGCGAGTAACAAGGCTTTTGAAAGAAT
*
13515 GAGAGACTATAAATTGACTTTTCTT-CTCAATGAATGACTTATTC-TACATGTTTCCTAAGGCAG
193 GAGAGACTATAAATGGACTTTTCTTGC-CAATGAATGACTTATTCTTACA--TTTCCTAAGGCAG
* * * *
13578 GCATTCAATTATACTCTGTTTTAA-TAAAAAATATAAA-AAATTTTAA-CTTAAAATCAATTATA
255 ACATTCAATTATAATCTGTTTTAACT-AAAAATATAAATAAAATTGAATC-TAAAATCAATTATA
* * *
13640 AGGTTATAAAGCCATTTAAAGCA
318 AGATTACAAAACCATTTAAAGCA
* * * *
13663 AGTAATAAGGCTTTTGAAGGAATGTGTGACTATAAATGGACTTTTTTTGCCAACGAATGTCTTTT
1 AGTAATAAGGCTTTTGAAAGAATGGGTGACTATAAATAGACTTTTTTTGCCAATGAATGTCTTTT
* * * * * *
13728 TATTCACGTTTCTCAAGGTCGACATTCAATTATAT-TATGTTTTCAAC-AATAATTCGAAATGAA
66 TCTTCACGTTTCTCAAGGTAGACATTCAATTAT-TGTCTGTTTT-AACTAAAAATT-TAAA-AAA
* *
13791 TTTAACCTAAAATCAATTATGAGATTATAAAATCATTTAAAGCGAGTAA
127 TTCAACTTAAAATCAATTATGAGATTATAAAATCATTT-AAGCGAGTAA
13840 TAANNNNNNN
Statistics
Matches: 429, Mismatches: 73, Indels: 30
0.81 0.14 0.06
Matches are distributed among these distances:
339 5 0.01
340 81 0.19
341 167 0.39
342 109 0.25
343 67 0.16
ACGTcount: A:0.38, C:0.12, G:0.13, T:0.37
Consensus pattern (340 bp):
AGTAATAAGGCTTTTGAAAGAATGGGTGACTATAAATAGACTTTTTTTGCCAATGAATGTCTTTT
TCTTCACGTTTCTCAAGGTAGACATTCAATTATTGTCTGTTTTAACTAAAAATTTAAAAAATTCA
ACTTAAAATCAATTATGAGATTATAAAATCATTTAAGCGAGTAACAAGGCTTTTGAAAGAATGAG
AGACTATAAATGGACTTTTCTTGCCAATGAATGACTTATTCTTACATTTCCTAAGGCAGACATTC
AATTATAATCTGTTTTAACTAAAAATATAAATAAAATTGAATCTAAAATCAATTATAAGATTACA
AAACCATTTAAAGCA
Found at i:14422 original size:176 final size:173
Alignment explanation
Indices: 14124--14527 Score: 488
Period size: 176 Copynumber: 2.3 Consensus size: 173
14114 NNNNNNNNNN
* * * * * *
14124 ACTTAAAATTAATTATGAGATAACAAAACCTTTTAAAGTGAG-TATTGAGGCTTTTGACGGAATG
1 ACTTAAAATCAATTTTGAGATAATAAAACCATTTAAAGTGAGTTA-TAAGGCTTTTGAAGGAATG
* *
14188 AGAGACTATAAATAGAGTTTTCTTGCCAACGAATGCCCTTTTCTTCATATTGCTCAATGTAGATA
65 AGAGACTATAAATAGACTTTTCTTGCCAACGAATGCCCTTTTCTTCATATTGCTCAATGTAGACA
* * *
14253 TTCAATTATAATCTGTTTTAACTAGAAAAGTAAAAAAAAAAAATCAA
130 TTCAATCATAATCTGTTTTAACCAAAAAAGT---AAAAAAAAATCAA
*
14300 ACTTAAAATCAATTTTGAGATAATAAAACCATTTAAAGTGAGTTATAAGACTTTTGAAGGAAT-A
1 ACTTAAAATCAATTTTGAGATAATAAAACCATTTAAAGTGAGTTATAAGGCTTTTGAAGGAATGA
* * * * *** * * *
14364 GGTGACTATAAATGGACTTTTCTTGCTAATGAATGGTTTTTTCTTTATGTTTCTCAATGTAGACA
66 -GAGACTATAAATAGACTTTTCTTGCCAACGAATGCCCTTTTCTTCATATTGCTCAATGTAGACA
**
14429 TTCAATCATAATCTGTTTTAACCAAAAAAGTAAAAAAAAATTGA
130 TTCAATCATAATCTGTTTTAACCAAAAAAGTAAAAAAAAATCAA
* * * * *
14473 CCTTAAAATCAATTTTAAGATTATAAAACTATTTAAAGTGAGTAATAAGGCTTTT
1 ACTTAAAATCAATTTTGAGATAATAAAACCATTTAAAGTGAGTTATAAGGCTTTT
14528 NNNNNNNNNN
Statistics
Matches: 196, Mismatches: 30, Indels: 7
0.84 0.13 0.03
Matches are distributed among these distances:
173 60 0.31
175 1 0.01
176 133 0.68
177 2 0.01
ACGTcount: A:0.40, C:0.11, G:0.14, T:0.35
Consensus pattern (173 bp):
ACTTAAAATCAATTTTGAGATAATAAAACCATTTAAAGTGAGTTATAAGGCTTTTGAAGGAATGA
GAGACTATAAATAGACTTTTCTTGCCAACGAATGCCCTTTTCTTCATATTGCTCAATGTAGACAT
TCAATCATAATCTGTTTTAACCAAAAAAGTAAAAAAAAATCAA
Found at i:15109 original size:172 final size:170
Alignment explanation
Indices: 14836--15144 Score: 392
Period size: 172 Copynumber: 1.8 Consensus size: 170
14826 AACTATTGTC
* * *
14836 TGTTTTAATGAAAAATATAAAAAATTCAGCTTAAAATTAATTATGGGATTATAAAACCTTTTAAA
1 TGTTTTAATAAAAAATATAAAAAATTCAACTTAAAATTAATTATGAGATTATAAAACCTTTTAAA
* * * * * * *
14901 GCGAGTATTAAGATTTTTGAAGGAATGGGTGACTATAAATGGACTTTTCTTG-CGAATGAATTCC
66 GCGAGTAATAAGATCTTTCAAGAAATAGGAGACTATAAATGGACTTTTCTTGTC-AATGAATACC
14965 TTTTTCTTTACATTTCTTGATGTAGATATTCAATTATAATA
130 TTTTTCTTTACATTTCTTGATGTAGATATTCAATTATAATA
* * *
15006 TGTTTTAACTAAAAAAGT-TAAACAAATTGAACTTGAAATTAATTTTGAGATTATAAAA-CTATT
1 TGTTTTAA-TAAAAAA-TATAAA-AAATTCAACTTAAAATTAATTATGAGATTATAAAACCT-TT
* *
15069 TAAAGTGAGTAATAAGA-CTTTCAATTAAATAGGAGACTATAAATGGACTTTTCTTGTCAATGAA
62 TAAAGCGAGTAATAAGATCTTTCAA-GAAATAGGAGACTATAAATGGACTTTTCTTGTCAATGAA
*
15133 TACTTTTTTCTT
126 TACCTTTTTCTT
15145 CATGTTTCNN
Statistics
Matches: 117, Mismatches: 16, Indels: 10
0.82 0.11 0.07
Matches are distributed among these distances:
170 8 0.07
171 17 0.15
172 91 0.78
173 1 0.01
ACGTcount: A:0.38, C:0.09, G:0.14, T:0.39
Consensus pattern (170 bp):
TGTTTTAATAAAAAATATAAAAAATTCAACTTAAAATTAATTATGAGATTATAAAACCTTTTAAA
GCGAGTAATAAGATCTTTCAAGAAATAGGAGACTATAAATGGACTTTTCTTGTCAATGAATACCT
TTTTCTTTACATTTCTTGATGTAGATATTCAATTATAATA
Found at i:16262 original size:170 final size:169
Alignment explanation
Indices: 15686--17142 Score: 1253
Period size: 170 Copynumber: 8.5 Consensus size: 169
15676 NNNNNNNNNN
* * * * *
15686 AAAAAATTCAACTTAAAATCAATGATGAGATAATAAAACCTTTTGAAGCGAGTAATAAAGCTTTT
1 AAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTT
* * *
15751 AAAGGAATGGGTGTCTATAAATAGACCTTTT-TTGCCAATGAAT-TC-TTTTCTTCACGTTTCTT
66 GAAGGAAT-GGAGACTATAAATAGA-CTTTTCTTGCCAATGAATGTCTTTTTCTTCACGTTTCTT
* * * *
15813 GAGGTAAACATTCAATTATAATCTATTTTAACAAAAAAAAGT
129 AAGGTAAACATTCAATTATAATCTGTTTTAAC-TAAAAATGT
* * * * * * *
15855 AAAAAAAATTAAACTTAAAATTAATTTTGATAATATAAAACCATTTAAAGTGAGT-ATAAATTGA
1 --AAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAAT-AA--GG
* * * * * * * *
15919 CTTTTCTTCCAAAAGAATGGGTGACTATAAATTGACTTTTCTTACCAATGAATATATTTTTTTTC
61 C--TT-TT--GAAGGAAT-GGAGACTATAAATAGACTTTTCTTGCCAATGAATGTCTTTTTCTTC
* * **
15984 ATGTTTCTTAAGGTAAACATTCAATTATAGTCTGTTTTAACCT-AAAATAC
120 ACGTTTCTTAAGGTAAACATTCAATTATAATCTGTTTTAA-CTAAAAATGT
* *
16034 AAAACAATTCAACTTAAAATCAACTATGAGATTATAAAACCATTTAAAGCAAGTAATAAGGCTTT
1 AAAA-AATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTT
* ** * *
16099 TGAAGGAATGCGAGACTATAAATAGACTTTTCTT-CCAAATAAATGGGTTTTTCTACACATTTCT
65 TGAAGGAATG-GAGACTATAAATAGACTTTTCTTGCC-AATGAATGTCTTTTTCTTCACGTTTCT
* * *
16163 TAAGG-AAATCATTCAACTATAGTCTATTTTAA-TGAAAAATGT
128 TAAGGTAAA-CATTCAATTATAATCTGTTTTAACT-AAAAATGT
* *
16205 AAAAAATTCAACTTAAAATCAATTATGAGTTTATAAAACCATTTAAAGCGAGTAATAAAGCTTTT
1 AAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTT
* * * *
16270 GAAGGAATAGGTGACTATAAAT-GAACTTTTCTTACCAATGAATGTCTTTTTCTTCATGTTTAAT
66 GAAGGAAT-GGAGACTATAAATAG-ACTTTTCTTGCCAATGAATGTCTTTTTCTTCACGTTT-CT
* *
16334 GAA-GTTAACATTCAATTATAATCTGTTTTAACTAAAAATGT
128 TAAGGTAAACATTCAATTATAATCTGTTTTAACTAAAAATGT
* * * * * *
16375 AAAAGAAAAAAATTGAACTTCAAATAAATTTTGAGATTATAAAACCATTTAAAGTGTGTAATAAG
1 ------AAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAATAAG
* * * * * **
16440 ACTTTTGAAAGAATGG-GTCACTATAAATGGACTTTTCTTGCCGATGAATGTTTTTTTCTTCATA
60 GCTTTTGAAGGAATGGAG--ACTATAAATAGACTTTTCTTGCCAATGAATGTCTTTTTCTTCACG
* ** * *
16504 TTTCTTGAA-CTGGACATTCAATTGTAGTCTGTTTTAACTAAAAATGT
123 TTTCTT-AAGGTAAACATTCAATTATAATCTGTTTTAACTAAAAATGT
* **
16551 AAAACATTC-ACTTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAATAAGATTTT
1 AAAAAATTCAAC-TTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTT
* * * *
16615 TGAAGGAATGAGAGACTATAAATGGACTTTTCTT-CCAAATAAATAG-GTTTTTCTACACGTTTC
65 TGAAGGAATG-GAGACTATAAATAGACTTTTCTTGCC-AATGAAT-GTCTTTTTCTTCACGTTTC
* ** * * * *
16678 TCATCGTAGACATTCAATTATAATGTGTTTTAACCAAAAAAGT
127 TTAAGGTAAACATTCAATTATAATCTGTTTTAACTAAAAATGT
** * * * * *
16721 AAAAAA-AAATAC-T-ATATCAATTTTGAGATTATAAAATCATTTAAAGTGAATAATAAGGCTTT
1 AAAAAATTCA-ACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTT
* * * *
16783 TGAAGAAATAGGCGACTATCAATAGACTTTTCTTGCCAATGAATGTTTTTTTCTTCACGTTTCTT
65 TGAAGGAAT-GGAGACTATAAATAGACTTTTCTTGCCAATGAATGTCTTTTTCTTCACGTTTCTT
* * * * * * *
16848 GAGGCAGACATTCAATTATAATCTATTTTAACCAACAATGAA
129 AAGGTAAACATTCAATTATAATCTGTTTTAACTAAAAATG-T
* * * ** *
16890 ACAAAAATTGAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAACGAGTGACGATGCTTT
1 A-AAAAATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTT
* * * * * * *
16955 TGAAGCAATGGAAGACAATAAAT-GAACTTTTCTTGTCAATAAAT-ACTTTTTTTTCATGTTTCT
65 TGAAGGAATGG-AGACTATAAATAG-ACTTTTCTTGCCAATGAATGTCTTTTTCTTCACGTTTCT
** * * * *
17018 CGAGGTAGACATTTAATTATACTCTGTTTTAACTAAAAATAT
128 TAAGGTAAACATTCAATTATAATCTGTTTTAACTAAAAATGT
* * * ** * *
17060 AAAAAAATTGAACATAAAATCAATTATGCGATTATAAAATAATTTAAAGTGAGTAATAAAGCTTT
1 -AAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTT
17125 TGAAGGAATGGATGACTA
65 TGAAGGAATGGA-GACTA
17143 NNNNNNNNNN
Statistics
Matches: 1048, Mismatches: 183, Indels: 111
0.78 0.14 0.08
Matches are distributed among these distances:
167 1 0.00
168 124 0.12
169 13 0.01
170 352 0.34
171 193 0.18
172 73 0.07
173 3 0.00
174 3 0.00
175 5 0.00
176 144 0.14
177 10 0.01
178 76 0.07
179 7 0.01
180 43 0.04
181 1 0.00
ACGTcount: A:0.40, C:0.12, G:0.13, T:0.35
Consensus pattern (169 bp):
AAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTT
GAAGGAATGGAGACTATAAATAGACTTTTCTTGCCAATGAATGTCTTTTTCTTCACGTTTCTTAA
GGTAAACATTCAATTATAATCTGTTTTAACTAAAAATGT
Found at i:16509 original size:346 final size:340
Alignment explanation
Indices: 15686--17135 Score: 1324
Period size: 346 Copynumber: 4.2 Consensus size: 340
15676 NNNNNNNNNN
* * * * *
15686 AAAAAATTCAACTTAAAATCAATGATGAGATAATAAAACCTTTTGAAGCGAGTAATAA-AGCTTT
1 AAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGTGAGTAATAAGA-CTTT
** * *
15750 T-AAAGGAATGGGTGTCTATAAATAGACCTTTT-TTGCCAATGAA--TTCTTTTCTTCACGTTTC
65 TGAAA-GAATGGGTCACTATAAATAGA-CTTTTCTTGCCAATGAATGTTTTTTTCTTCACATTTC
* * * * *
15811 TTGAGGTAAACATTCAATTATAATCTATTTTAACAAAAAAAAGTAAAAAAAATTAAACTTAAAAT
128 TTAAGGCAAACATTCAATTATAATCTATTTTAAC-TAAAAATGT--AAAAAATTCAACTTAAAAT
* * * * * * *
15876 TAATTTTGATAATATAAAACCATTTAAAGTGAGT-ATAAATTGACTTTTCTTCCAAAAGAATGGG
190 CAATTATGAGATTATAAAACCATTTAAAGCGAGTAATAAA--GAC--TT-TT--GAAGGAAT-GG
* * * * * * * *
15940 TGACTATAAATTG-ACTTTTCTTACCAATGAATATATTTTTTTTCATGTTTCTTAAGGTAAACAT
247 AGACTATAAA-TGAACTTTTCTTACCAATAAATGTCTTTTTCTTCATGTTTCTGAAGTTAGACAT
*
16004 TCAATTATAGTCTGTTTTAACCT-AAAATACA
311 TCAATTATAATCTGTTTTAA-CTAAAAATA-A
* * ** *
16035 AAACAATTCAACTTAAAATCAACTATGAGATTATAAAACCATTTAAAGCAAGTAATAAGGCTTTT
1 AAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGTGAGTAATAAGACTTTT
* * ** * ** *
16100 GAAGGAATGCGAGACTATAAATAGACTTTTCTT-CCAAATAAATGGGTTTTTCTACACATTTCTT
66 GAAAGAATGGGTCACTATAAATAGACTTTTCTTGCC-AATGAATGTTTTTTTCTTCACATTTCTT
* *
16164 AAGG-AAATCATTCAACTATAGTCTATTTTAA-TGAAAAATGTAAAAAATTCAACTTAAAATCAA
130 AAGGCAAA-CATTCAATTATAATCTATTTTAACT-AAAAATGTAAAAAATTCAACTTAAAATCAA
* *
16227 TTATGAGTTTATAAAACCATTTAAAGCGAGTAATAAAG-CTTTTGAAGGAATAGGTGACTATAAA
193 TTATGAGATTATAAAACCATTTAAAGCGAGTAATAAAGACTTTTGAAGGAAT-GGAGACTATAAA
* *
16291 TGAACTTTTCTTACCAATGAATGTCTTTTTCTTCATGTTTAATGAAGTTA-ACATTCAATTATAA
257 TGAACTTTTCTTACCAATAAATGTCTTTTTCTTCATGTTT-CTGAAGTTAGACATTCAATTATAA
16355 TCTGTTTTAACTAAAAATGTAAAAGA
321 TCTGTTTTAACTAAAAA--T---A-A
* * * * *
16381 AAAAAATTGAACTTCAAATAAATTTTGAGATTATAAAACCATTTAAAGTGTGTAATAAGACTTTT
1 AAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGTGAGTAATAAGACTTTT
* * *
16446 GAAAGAATGGGTCACTATAAATGGACTTTTCTTGCCGATGAATGTTTTTTTCTTCATATTTCTTG
66 GAAAGAATGGGTCACTATAAATAGACTTTTCTTGCCAATGAATGTTTTTTTCTTCACATTTCTT-
* * * *
16511 AACTGG---ACATTCAATTGTAGTCTGTTTTAACTAAAAATGTAAAACATTC-ACTTTAAAATCA
130 AA--GGCAAACATTCAATTATAATCTATTTTAACTAAAAATGTAAAAAATTCAAC-TTAAAATCA
*
16572 ATTATGAGATTATAAAACCATTTAAAGCGAGTAAT-AAGATTTTTGAAGGAATGAGAGACTATAA
192 ATTATGAGATTATAAAACCATTTAAAGCGAGTAATAAAGACTTTTGAAGGAATG-GAGACTATAA
* * * * * *
16636 ATGGACTTTTCTT-CCAAATAAATAG-GTTTTTCTACACGTTTCTCATCG-TAGACATTCAATTA
256 ATGAACTTTTCTTACC-AATAAAT-GTCTTTTTCTTCATGTTTCTGA-AGTTAGACATTCAATTA
* *
16698 TAATGTGTTTTAACCAAAAAAGTAA
318 TAATCTGTTTTAA-CTAAAAA-TAA
* * * * * *
16723 AAAAAAAT--AC-T-ATATCAATTTTGAGATTATAAAATCATTTAAAGTGAATAATAAGGCTTTT
1 AAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGTGAGTAATAAGACTTTT
* * *
16784 G-AAGAAATAGG-CGACTATCAATAGACTTTTCTTGCCAATGAATGTTTTTTTCTTCACGTTTCT
66 GAAAG-AATGGGTC-ACTATAAATAGACTTTTCTTGCCAATGAATGTTTTTTTCTTCACATTTCT
* * * * * *
16847 TGAGGCAGACATTCAATTATAATCTATTTTAACCAACAATGAAACAAAAATTGAACTTAAAATCA
129 TAAGGCAAACATTCAATTATAATCTATTTTAACTAAAAATG-TA-AAAAATTCAACTTAAAATCA
* * ** * * *
16912 ATTATGAGATTATAAAACCATTTAAAACGAGTGACGATG-CTTTTGAAGCAATGGAAGACAATAA
192 ATTATGAGATTATAAAACCATTTAAAGCGAGTAATAAAGACTTTTGAAGGAATGG-AGACTATAA
** * * * *
16976 ATGAACTTTTCTTGTCAATAAAT-ACTTTTTTTTCATGTTTCTCG-AGGTAGACATTTAATTATA
256 ATGAACTTTTCTTACCAATAAATGTCTTTTTCTTCATGTTTCT-GAAGTTAGACATTCAATTATA
*
17039 CTCTGTTTTAACTAAAAATATA
320 ATCTGTTTTAACTAAAAATA-A
* * * **
17061 AAAAAATTGAACATAAAATCAATTATGCGATTATAAAATAATTTAAAGTGAGTAATAA-AGCTTT
1 AAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGTGAGTAATAAGA-CTTT
*
17125 TGAAGGAATGG
65 TGAAAGAATGG
17136 ATGACTANNN
Statistics
Matches: 921, Mismatches: 129, Indels: 109
0.79 0.11 0.09
Matches are distributed among these distances:
335 2 0.00
337 7 0.01
338 139 0.15
339 41 0.04
340 94 0.10
341 85 0.09
342 62 0.07
343 6 0.01
344 2 0.00
345 12 0.01
346 265 0.29
347 14 0.02
348 53 0.06
349 88 0.10
350 12 0.01
351 39 0.04
ACGTcount: A:0.40, C:0.12, G:0.13, T:0.35
Consensus pattern (340 bp):
AAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGTGAGTAATAAGACTTTT
GAAAGAATGGGTCACTATAAATAGACTTTTCTTGCCAATGAATGTTTTTTTCTTCACATTTCTTA
AGGCAAACATTCAATTATAATCTATTTTAACTAAAAATGTAAAAAATTCAACTTAAAATCAATTA
TGAGATTATAAAACCATTTAAAGCGAGTAATAAAGACTTTTGAAGGAATGGAGACTATAAATGAA
CTTTTCTTACCAATAAATGTCTTTTTCTTCATGTTTCTGAAGTTAGACATTCAATTATAATCTGT
TTTAACTAAAAATAA
Found at i:17879 original size:170 final size:171
Alignment explanation
Indices: 17347--17921 Score: 527
Period size: 170 Copynumber: 3.4 Consensus size: 171
17337 NNNNNNNNNN
* * * *
17347 TAAGGCTTTTGAAGGAATAGG-TGACTATCAATAGACTTTTTTTGCCAATGAATGCTTTTTTCTT
1 TAAGGCTTTTGAAGGAATAGGATGACTATAAATAGACTTTTCTTACCAATGAATGCCTTTTTCTT
* * ** * *
17411 CACATTTCTTGAGGCAGACATTCAATTATAATCTATTTTAACCCACAATGGAACAAAAATTGAAC
66 CACATTTCTTGAGGTAGACATTCAATTATAATCTGTTTTAACTAAAAATGTAA-AAAAATTGAAC
* * *
17476 TTAAAATCAATCATGAGATTATAGAAGCATTTAAAGCGAGTAA
130 TTAAAATCAATTATGAGATTATA-AACCATTTAAAGTGAGTAA
* * * * * * ** * *
17519 TGATGCTTTTGAAGCAAT-GGAAGACAATAAATGGACTTTTCTTGTCAATGAAT-ACTTTCTTTT
1 TAAGGCTTTTGAAGGAATAGGATGACTATAAATAGACTTTTCTTACCAATGAATGCCTTT-TTCT
** * * * *
17582 TCATGTTTCTTGAGGTAGACATTTAATTATACTCTGTTTTAACTAAAAATTTAAAACAATTGAAC
65 TCACATTTCTTGAGGTAGACATTCAATTATAATCTGTTTTAACTAAAAATGTAAAAAAATTGAAC
* * **
17647 ATAAAATCAATTATGCGATTATAAAATAATTTAAAGTGAGTAA
130 TTAAAATCAATTATGAGATTAT-AAACCATTTAAAGTGAGTAA
**********
17690 TAANNNNNNNNNNGGAAT-GGATGACTATAAATAGACTTTTC-TACCAATGAATGCCTTTTTCTT
1 TAAGGCTTTTGAAGGAATAGGATGACTATAAATAGACTTTTCTTACCAATGAATGCCTTTTTCTT
**** * * * * *
17753 CACATTTGACAAAGTTGACATCCAATTATAAACTGTTTTAACTAAAAATGTAAAAAAATTGAATT
66 CACATTTCTTGAGGTAGACATTCAATTATAATCTGTTTTAACTAAAAATGTAAAAAAATTGAACT
* *
17818 TAAAATTAATTTTGAGATTATCAAACCATTTAAAGTGAGTAA
131 TAAAATCAATTATGAGATTAT-AAACCATTTAAAGTGAGTAA
* *
17860 TAAGGCTTGTT-AAGGAATGGGA-GACTATAAAT-GTACTTTTCTTACCAATGAATGCTTTTTTC
1 TAAGGCTT-TTGAAGGAATAGGATGACTATAAATAG-ACTTTTCTTACCAATGAATGCCTTTTTC
17922 NNNNNNNNNN
Statistics
Matches: 314, Mismatches: 81, Indels: 17
0.76 0.20 0.04
Matches are distributed among these distances:
169 1 0.00
170 123 0.39
171 102 0.32
172 88 0.28
ACGTcount: A:0.37, C:0.12, G:0.14, T:0.35
Consensus pattern (171 bp):
TAAGGCTTTTGAAGGAATAGGATGACTATAAATAGACTTTTCTTACCAATGAATGCCTTTTTCTT
CACATTTCTTGAGGTAGACATTCAATTATAATCTGTTTTAACTAAAAATGTAAAAAAATTGAACT
TAAAATCAATTATGAGATTATAAACCATTTAAAGTGAGTAA
Found at i:19502 original size:171 final size:170
Alignment explanation
Indices: 19127--19503 Score: 423
Period size: 170 Copynumber: 2.2 Consensus size: 170
19117 CAACTTAAAA
* * ** * *
19127 TCAATTATAATGTGTTTTAACTAAAAAAGTAAAAAAATTAAATTTAATATCAATTTTGAGATTAT
1 TCAATTATAATCTGTTTTAACCAAAAAAGTAAAAAAATTAAAGATAAAATCAATTTTGAGATAAT
* * * *
19192 AAAACCATTTACAGCGAGTAATAAGGCTTTTGAAAAAATCAGAGACTATAAATAGACTTTTCTTA
66 AAAACCATTTAAAACGAGTAACAAGGCTTTTGAAAAAATCAGAGACTATAAATAGACTTCTCTTA
* * *
19257 CAATGAATGCTTTGTTCTTCATGTTTCTTGATGTAGACTT
131 CAATGAATGCTTTGTTCTTCAAGTTTCTCGATGTAGACAT
* * * *
19297 TCAATTATATTCTTTTTTAACCAAAAATGTAAAAAAATTGAAGATAAAATCAATTTTGAGATAAT
1 TCAATTATAATCTGTTTTAACCAAAAAAGTAAAAAAATTAAAGATAAAATCAATTTTGAGATAAT
* ** ** * **********
19362 AAAACCATTTAAAATGAGTAACAAGGCTTTTGAAGGAATGGGTGACTNNNNNNNNNNTTCTCTTG
66 AAAACCATTTAAAACGAGTAACAAGGCTTTTGAAAAAATCAGAGACTATAAATAGACTTCTCTT-
*
19427 CCAATGAATGCCTTT-TTCTTCAAGTTTCTCGATGTAGACAT
130 ACAATGAATG-CTTTGTTCTTCAAGTTTCTCGATGTAGACAT
19468 TCAATTATAATCTGTTTTAACCAAAAAAGTAAAAAA
1 TCAATTATAATCTGTTTTAACCAAAAAAGTAAAAAA
Statistics
Matches: 168, Mismatches: 37, Indels: 3
0.81 0.18 0.01
Matches are distributed among these distances:
170 99 0.59
171 65 0.39
172 4 0.02
ACGTcount: A:0.39, C:0.11, G:0.12, T:0.35
Consensus pattern (170 bp):
TCAATTATAATCTGTTTTAACCAAAAAAGTAAAAAAATTAAAGATAAAATCAATTTTGAGATAAT
AAAACCATTTAAAACGAGTAACAAGGCTTTTGAAAAAATCAGAGACTATAAATAGACTTCTCTTA
CAATGAATGCTTTGTTCTTCAAGTTTCTCGATGTAGACAT
Done.