Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_018403210.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_879.0, 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: 28071
ACGTcount: A:0.26, C:0.11, G:0.11, T:0.27
Warning! 6989 characters in sequence are not A, C, G, or T
Found at i:1979 original size:173 final size:170
Alignment explanation
Indices: 1625--2580 Score: 978
Period size: 173 Copynumber: 5.5 Consensus size: 170
1615 ATTTCTTTAG
* * * * *
1625 AAGAAAAGTCTACTTATAGCCTCCCA-TCACTTCAAAAGACTTATTACTCGCTGTAAATGGTCTT
1 AAGAAAAGTCCATTTATAGTCTCCCATTC-CTTCAAAAG-CTTATTACTCGCTTTAAATGGTTTT
* * * * * *
1689 ATAATCTCAAAATTAATTTTAAGTTTAA-TTTTTTTACATTTTTGGTTAAAATAGATAACAATTG
64 ATAATCTCAAAATTGATTTTAAGTTAAATTTTTTTTACTTTTTTGATTAAAACAGAT-ATAATTG
* * *
1753 AATGTTTACCCTAAGAAACATGAAGAAAAAAGAATTCATTGGC
128 AATGTCTACCTTAAGAAACATGAAGAAAAAAGCATTCATTGGC
*
1796 AAGAAAAGTCCATTTATAGTCTCCCATTCCTTCAAAAGCTTTATTACTCACTTTAAATGGTTTTA
1 AAGAAAAGTCCATTTATAGTCTCCCATTCCTTCAAAAGC-TTATTACTCGCTTTAAATGGTTTTA
*
1861 TAATCTCAAAATTAATTTTAAGTTCAAATTTTTTTTACTTTTTTGATTAAAACAGAGTATAATTG
65 TAATCTCAAAATTGATTTTAAGTT-AAATTTTTTTTACTTTTTTGATTAAAACAGA-TATAATTG
* *
1926 AATGTCTACGTTAAGAAACGTGAAGAAAAAAGCATTCATTGGC
128 AATGTCTACCTTAAGAAACATGAAGAAAAAAGCATTCATTGGC
* * * * *
1969 AAGAAAAGTCCATTTATAGTCACCCATTCTTTCTAAACCTTTATTACTCGCTTTAAATGATTTTA
1 AAGAAAAGTCCATTTATAGTCTCCCATTCCTTCAAAAGC-TTATTACTCGCTTTAAATGGTTTTA
** * * * * *
2034 TAATCTCCTAATTGATTTTAAGTT-GAGTTGTTTAACATTTTTCG-TTAAAACAGAT-TGCAATT
65 TAATCTCAAAATTGATTTTAAGTTAAATTTTTTTTAC-TTTTTTGATTAAAACAGATAT--AATT
* * * *
2096 GAATGTGTACCTCAAAAAACATGAAGAAAAAAGCATTCAGTGGC
127 GAATGTCTACCTTAAGAAACATGAAGAAAAAAGCATTCATTGGC
* * *
2140 AAGAAAAGTCCATTTATAGTCACCCATTCCTTCAAAAAGGCTTATTATTCGCTTTAAATAGTTTT
1 AAGAAAAGTCCATTTATAGTCTCCCATTCCTTC-AAAA-GCTTATTACTCGCTTTAAATGGTTTT
* * * * * *
2205 ATAATCTCCAAAATTGATTTTAA-TATTAATGTTTCTTACATTTTT-AGTTAAAATAGACAGTAA
64 ATAATCT-CAAAATTGATTTTAAGT-TAAATTTTTTTTACTTTTTTGA-TTAAAACAGATA-TAA
* * * * * * * * *
2268 TTAAATTTTTACATTAAGAAATATCAAGAAAAAAGTATTTATTGTC
125 TTGAATGTCTACCTTAAGAAACATGAAGAAAAAAGCATTCATTGGC
** * * * * *
2314 AAGAAAAGTCTGTTTACAGTCTCCCATTTCGTCAAAAGCCTTATTGCTCGCTTTAAATAGTTTTA
1 AAGAAAAGTCCATTTATAGTCTCCCATTCCTTCAAAAG-CTTATTACTCGCTTTAAATGGTTTTA
*
2379 TAATCTCAAAATTGATTTTAAGTTGAATTTTTTTTTACTTTTTT-AGTTAAAACAGATTATAATT
65 TAATCTCAAAATTGATTTTAAGTT-AAATTTTTTTTACTTTTTTGA-TTAAAACAGA-TATAATT
* ** *
2443 GAATGTCTACATTTAA-AAATGTGAAGAAAAAAGCATTCGTTGGC
127 GAATGTCTAC-CTTAAGAAACATGAAGAAAAAAGCATTCATTGGC
* * * *
2487 AAAAAAAGTCCATTTATAGTCAT-CCATTCTTTCAAAACCCTTATTATTCGCTTTAAATGGTTTT
1 AAGAAAAGTCCATTTATAGTC-TCCCATTCCTTCAAAA-GCTTATTACTCGCTTTAAATGGTTTT
* ** * *
2551 ATGATCTCCTATTTGATTTTAAGTTGAATT
64 ATAATCTCAAAATTGATTTTAAGTTAAATT
2581 GTNNNNNNNN
Statistics
Matches: 653, Mismatches: 108, Indels: 47
0.81 0.13 0.06
Matches are distributed among these distances:
169 1 0.00
170 2 0.00
171 170 0.26
172 62 0.09
173 332 0.51
174 85 0.13
176 1 0.00
ACGTcount: A:0.36, C:0.14, G:0.12, T:0.38
Consensus pattern (170 bp):
AAGAAAAGTCCATTTATAGTCTCCCATTCCTTCAAAAGCTTATTACTCGCTTTAAATGGTTTTAT
AATCTCAAAATTGATTTTAAGTTAAATTTTTTTTACTTTTTTGATTAAAACAGATATAATTGAAT
GTCTACCTTAAGAAACATGAAGAAAAAAGCATTCATTGGC
Found at i:2401 original size:345 final size:343
Alignment explanation
Indices: 1656--2575 Score: 1068
Period size: 345 Copynumber: 2.7 Consensus size: 343
1646 TCCCATCACT
* * * * *
1656 TCAAAAGACTTATTACTCGCTGTAAATGGTCTTATAATCTCAAAATTAATTTTAAGTTTAATTTT
1 TCAAAAGCCTTATTACTCGCTTTAAAT-GTTTTATAATCTCAAAATTGATTTTAAGTTGAATTTT
* * * * *
1721 TTTACATTTTTGGTTAAAATAGATAACAATTGAATGTTTACC-CTAAGAAACATGAAGAAAAAAG
65 TTTACATTTTTAGTTAAAACAGATTACAATTGAATGTCTACCTC-AAAAAACATGAAGAAAAAAG
* * * * *
1785 AATTCATTGGCAAGAAAAGTCCATTTATAGTCTCCCATTCCTTCAAAAGCTTTATTACTCACTTT
129 CATTCAGTGGCAAGAAAAGTCCATTTATAGTCACCCATTCCTTCAAAAGC-TTATTATTCGCTTT
* * * *
1850 AAATGGTTTTATAATCT-CAAAATTAATTTTAAGTTCAAATTTTTTTTACTTTTTTGATTAAAAC
193 AAATGGTTTTATAATCTCCAAAATTGATTTTAAGTTCAAATGTTTCTTACTTTTTAGATTAAAAC
* * * * *
1914 AGAGTATAATTGAATGTCTACGTTAAGAAACGTGAAGAAAAAAGCATTCATTGGCAAGAAAAGTC
258 AGAGCATAATTAAATGTCTACATTAAGAAACATCAAGAAAAAAGCATTCATTGGCAAGAAAAGTC
* *
1979 CATTTATAGTCACCCATTCTT
323 CATTTACAGTCACCCATTCTG
* ** * *
2000 TCTAAA-CCTTTATTACTCGCTTTAAATGATTTTATAATCTCCTAATTGATTTTAAGTTGAGTTG
1 TCAAAAGCC-TTATTACTCGCTTTAAATG-TTTTATAATCTCAAAATTGATTTTAAGTTGAATTT
* * * *
2064 TTTAACATTTTTCGTTAAAACAGATTGCAATTGAATGTGTACCTCAAAAAACATGAAGAAAAAAG
64 TTTTACATTTTTAGTTAAAACAGATTACAATTGAATGTCTACCTCAAAAAACATGAAGAAAAAAG
2129 CATTCAGTGGCAAGAAAAGTCCATTTATAGTCACCCATTCCTTCAAAAAGGCTTATTATTCGCTT
129 CATTCAGTGGCAAGAAAAGTCCATTTATAGTCACCCATTCCTTC-AAAA-GCTTATTATTCGCTT
* *
2194 TAAATAGTTTTATAATCTCCAAAATTGATTTTAA-TAT-TAATGTTTCTTACATTTTTAG-TTAA
192 TAAATGGTTTTATAATCTCCAAAATTGATTTTAAGT-TCAAATGTTTCTTAC-TTTTTAGATTAA
* * * * * * *
2256 AATAGA-CAGTAATTAAATTTTTACATTAAGAAATATCAAGAAAAAAGTATTTATTGTCAAGAAA
255 AACAGAGCA-TAATTAAATGTCTACATTAAGAAACATCAAGAAAAAAGCATTCATTGGCAAGAAA
** *
2320 AGTCTGTTTACAGTCTCCCATT-TCG
319 AGTCCATTTACAGTCACCCATTCT-G
*
2345 TCAAAAGCCTTATTGCTCGCTTTAAATAGTTTTATAATCTCAAAATTGATTTTAAGTTGAATTTT
1 TCAAAAGCCTTATTACTCGCTTTAAAT-GTTTTATAATCTCAAAATTGATTTTAAGTTGAA--TT
* * * ** **
2410 TTTTTACTTTTTTAGTTAAAACAGATTATAATTGAATGTCTACATTTAAAAATGTGAAGAAAAAA
63 TTTTTACATTTTTAGTTAAAACAGATTACAATTGAATGTCTACCTCAAAAAACATGAAGAAAAAA
* * * *
2475 GCATTC-GTTGGCAAAAAAAGTCCATTTATAGTCATCCATTCTTTCAAAACCCTTATTATTCGCT
128 GCATTCAG-TGGCAAGAAAAGTCCATTTATAGTCACCCATTCCTTCAAAA-GCTTATTATTCGCT
* * *
2539 TTAAATGGTTTTATGATCTCC-TATTTGATTTTAAGTT
191 TTAAATGGTTTTATAATCTCCAAAATTGATTTTAAGTT
2576 GAATTGTNNN
Statistics
Matches: 489, Mismatches: 71, Indels: 31
0.83 0.12 0.05
Matches are distributed among these distances:
343 2 0.00
344 149 0.30
345 179 0.37
346 64 0.13
347 95 0.19
ACGTcount: A:0.36, C:0.14, G:0.12, T:0.39
Consensus pattern (343 bp):
TCAAAAGCCTTATTACTCGCTTTAAATGTTTTATAATCTCAAAATTGATTTTAAGTTGAATTTTT
TTACATTTTTAGTTAAAACAGATTACAATTGAATGTCTACCTCAAAAAACATGAAGAAAAAAGCA
TTCAGTGGCAAGAAAAGTCCATTTATAGTCACCCATTCCTTCAAAAGCTTATTATTCGCTTTAAA
TGGTTTTATAATCTCCAAAATTGATTTTAAGTTCAAATGTTTCTTACTTTTTAGATTAAAACAGA
GCATAATTAAATGTCTACATTAAGAAACATCAAGAAAAAAGCATTCATTGGCAAGAAAAGTCCAT
TTACAGTCACCCATTCTG
Found at i:3454 original size:171 final size:170
Alignment explanation
Indices: 2817--5740 Score: 2209
Period size: 171 Copynumber: 17.0 Consensus size: 170
2807 NNNNNNNNNN
* * * ** **
2817 TTTTACATTTTT-AGTTAAAACAGACTACAATTGAATGTGGATGTTGAGAAACGTGAAGAAAAAA
1 TTTTATATTTTTCA-TTAAAACAGATTATAATTGAATGTCTACCTTGAGAAACGTGAAG-AAAAA
** * * * * * *
2881 ATATTCATTGGGAAAAAAAGTCCATTTATAGTCTCTCATTCCTTCGAAAGTCTTATTACTCGCTT
64 GCATTCATTGGCAAGAAAAGTCCATTTATAGTCTCCCATTCCTTCAAAAGCCTTATTACTAGCTT
********** * *
2946 TAANNNNNNNNNNAATCTCAAAATTGATTTTGAGTTCAATTT
129 TAAATGGTTTTATAATCTCAAAATTGATTTTAAGTTGAATTT
* ** * * * * * *
2988 TTTTTTACTTTTTTGGTTAAAACAAATTATAATTGAATCTCTACATCGAAAAACATGAAGAAAAA
1 TTTTATA--TTTTTCATTAAAACAGATTATAATTGAATGTCTACCTTGAGAAACGTGAAG-AAAA
* * * * * *****
3053 AGCATTCATTGGCACG-AACGACCCATTTATTGTCACCCATTCCTTCAAAAGCCTTATTANNNNN
63 AGCATTCATTGGCAAGAAAAG-TCCATTTATAGTCTCCCATTCCTTCAAAAGCCTTATTACTAGC
***** * *
3117 NNNNNATGGTTTTATAATCGCAAAATTGATTTTAAGTTCAATCTGT
127 TTTAAATGGTTTTATAATCTCAAAATTGATTTTAAGTTGAAT-T-T
* * * *** * *
3163 TTTTATTTTTTTC-TTAAAACAAATTATAATTGAATGTTTATAATGAGAAACGTGTAGAAAAATC
1 TTTTATATTTTTCATTAAAACAGATTATAATTGAATGTCTACCTTGAGAAACGTGAAGAAAAAGC
* * * * * * *
3227 TATTTATTTGG-AATAAAAGTCTATTTAGAGTCTCCTATTCCTTCAAAAGTCTTATTACTAGCCT
66 -ATTCA-TTGGCAAGAAAAGTCCATTTATAGTCTCCCATTCCTTCAAAAGCCTTATTACTAGCTT
* *
3291 TAAATGGCTTTATAATCTCATAATTG-TATTTAAGTTGAATTT
129 TAAATGGTTTTATAATCTCAAAATTGAT-TTTAAGTTGAATTT
* * * ** * *
3333 CTTTATATTTTTCATTCAAACAGATTATAATTGAATGCCTACCTCAACAAACGTGTAGAAAAAGC
1 TTTTATATTTTTCATTAAAACAGATTATAATTGAATGTCTACCTTGAGAAACGTGAAGAAAAAG-
* * *
3398 CATTCATTGGTAAGAAAAGTCCATTTATAGTCTCTCATTCCTTTAAAAGCCTTATTACTCA-CTT
65 CATTCATTGGCAAGAAAAGTCCATTTATAGTCTCCCATTCCTTCAAAAGCCTTATTACT-AGCTT
* *
3462 TAAATGGTTTTAAAATCTCATAATTGATTTTAAGTTGAA-TT
129 TAAATGGTTTTATAATCTCAAAATTGATTTTAAGTTGAATTT
* * * * * * * *
3503 TTTTATATTTTTCATTAAAACAGACTATAATTAAATG-CTTGCCTTAAAAAACATGTACACAAAC
1 TTTTATATTTTTCATTAAAACAGATTATAATTGAATGTC-TACCTTGAGAAACGTG-A-AGAAAA
* * * ** * *
3567 A-CATTTATTTAG-AAGAAAAGTCTACGTATAGTCTCTCATTCCTTCAAAAGCCTTATTACTCGC
63 AGCATTCA-TTGGCAAGAAAAGTCCATTTATAGTCTCCCATTCCTTCAAAAGCCTTATTACTAGC
* *
3630 TTTAAACGGTTTTATAATCTCAAAATTGATTTTAAGTTTAATTT
127 TTTAAATGGTTTTATAATCTCAAAATTGATTTTAAGTTGAATTT
* * * *
3674 TTTT-TACGTTTTT-ATTTAAAACAGATAATAATTGAATGGT-TACCTCGGGAAACATGAAGAAA
1 TTTTATA--TTTTTCA-TTAAAACAGATTATAATTGAAT-GTCTACCTTGAGAAACGTGAAG-AA
* * *
3736 AAAGCATTCATTGGCAAGAAAAGTCCATTTATAGTCTCCCACTCATTCAAAA-CTCTTATTACTC
61 AAAGCATTCATTGGCAAGAAAAGTCCATTTATAGTCTCCCATTCCTTCAAAAGC-CTTATTACTA
* *
3800 GCTTTAAATGGTTTTATAATTTCAAAATTGATTTTAAGTT-CATTT
125 GCTTTAAATGGTTTTATAATCTCAAAATTGATTTTAAGTTGAATTT
* ** * * * * * *
3845 TTTTTTCAATTTTTTGGTTAAAACAGATTACAATTGACTGTCTACGTTAAGAAATGTAAAGAAAA
1 TTTTAT--A-TTTTTCATTAAAACAGATTATAATTGAATGTCTACCTTGAGAAACGTGAAGAAAA
** * * * * * * * *
3910 CAATATTCACTGGCAATAAAAGTCCATTTATAGTCACCTATTGCTTCAAAATCGTTATTACTTGC
63 -AGCATTCATTGGCAAGAAAAGTCCATTTATAGTCTCCCATTCCTTCAAAAGCCTTATTACTAGC
* *
3975 TTTAAACGGTTTTATAATCTCAAAATTGATTTTAAGTTTAATTTT
127 TTTAAATGGTTTTATAATCTCAAAATTGATTTTAAGTTGAA-TTT
* * * * **
4020 TTTTACATTTTT-ATTTAAAATAGATAATAATTGAATGTTTACCTTGAGAAATATGAAGAAAAAA
1 TTTTATATTTTTCA-TTAAAACAGATTATAATTGAATGTCTACCTTGAGAAACGTGAAG-AAAAA
* * *
4084 GCATTCAATGGCAAGAAAAGTCCATTTATAGTCTCCCACTCCTTCAAAA-CTCTTATTACTCGCT
64 GCATTCATTGGCAAGAAAAGTCCATTTATAGTCTCCCATTCCTTCAAAAGC-CTTATTACTAGCT
*
4148 TTAAATGGTTTTATAATCTCAAAATTGATTTTAAGTTCAATTT
128 TTAAATGGTTTTATAATCTCAAAATTGATTTTAAGTTGAATTT
* ** * * * * * *
4191 TTTTTTCAATTTTTTGGTTAAAACAGATTACAATTGAATGTTTACGTTAAGAAATGTAAAGACAA
1 TTTTAT--A-TTTTTCATTAAAACAGATTATAATTGAATGTCTACCTTGAGAAACGTGAAGA-AA
* * * * * * * *
4256 CAA-CATTCACTAGCCAGAAAAGTTCATTTATAGTCACCCATTGCTTCAAAATCGTTATTACTCA
62 -AAGCATTCATTGGCAAGAAAAGTCCATTTATAGTCTCCCATTCCTTCAAAAGCCTTATTACT-A
* ** *
4320 -CTTAAAATGGTTTTATAATCTCCTAATTGATTTTAAGTTGAATTG
125 GCTTTAAATGGTTTTATAATCTCAAAATTGATTTTAAGTTGAATTT
* * * *
4365 TTTTATAGTTTTT-ATTAAAACAGACTATAATTGAATGTATACTTTGAGAAATGTGAAGAAAAAA
1 TTTTATA-TTTTTCATTAAAACAGATTATAATTGAATGTCTACCTTGAGAAACGTGAAG-AAAAA
* * * * * * *
4429 GCATTCATTGGTAAGAAAAGTCAATTTACAGT-TGCCCACTT-CTTCAAAAGGCTGATTACTCGA
64 GCATTCATTGGCAAGAAAAGTCCATTTATAGTCT-CCCA-TTCCTTCAAAAGCCTTATTACTAGC
*
4492 TTTAAATAGTTTTATAATCTCAAAATTGATTTTAAGCTT-AATTT
127 TTTAAATGGTTTTATAATCTCAAAATTGATTTTAAG-TTGAATTT
* * * * ** * * *
4536 TTCTACAGTTTTCATTAAAATAGACAATAATTGAATGTTTACATTGAGAAACATGAAGAAAAAAG
1 TTTTATATTTTTCATTAAAACAGATTATAATTGAATGTCTACCTTGAGAAACGTGAAG-AAAAAG
* * * * * *
4601 CATTCATTGACAAGAGAAA-TCTATTTATAGTCTCCCATTTCTTCAATATCCTTATTACTCGCTT
65 CATTCATTGGCAAGA-AAAGTCCATTTATAGTCTCCCATTCCTTCAAAAGCCTTATTACTAGCTT
4665 TAAATGGTTTTGATAATCTCAAAATTGATTTTAAGTT-AATTT
129 TAAATGGTTTT-ATAATCTCAAAATTGATTTTAAGTTGAATTT
* ** * * * * *
4707 TTTTTTACTTTTTTGGTTAAAACATGATTATGATTGAATGTCTACATTAAAAAACGTGAAAAAAA
1 TTTTATA--TTTTTCATTAAAACA-GATTATAATTGAATGTCTACCTTGAGAAACGTGAAGAAAA
* * * * * *
4772 AGCATTCATTGGCAAGAAAAGTCCATTCATAGTCACCCATTCTTTCAAAACCCTTATTACTCGTT
63 AGCATTCATTGGCAAGAAAAGTCCATTTATAGTCTCCCATTCCTTCAAAAGCCTTATTACTAGCT
* * * *
4837 TTAAATGGTTTAATAATCTGC-TAATTGACTTTAAGTTGAATTG
128 TTAAATGGTTTTATAATCT-CAAAATTGATTTTAAGTTGAATTT
* * * * * * *
4880 TTTTACATTTTTCATTAAAACAGACTACAATTGTATGTGTACCTCGAGAAATGTGAAGAAAAAAG
1 TTTTATATTTTTCATTAAAACAGATTATAATTGAATGTCTACCTTGAGAAACGTGAAG-AAAAAG
** * ** * * *
4945 CATTCATTGAAAAGAAAAGTCCATTTATAGTCACTTATTCTTTTAAAAGGCTTATTACTCA-CTT
65 CATTCATTGGCAAGAAAAGTCCATTTATAGTCTCCCATTCCTTCAAAAGCCTTATTACT-AGCTT
* *
5009 TAAATGGTTTTATAATCTCAAAATTGATTTTGAGTTCAATTT
129 TAAATGGTTTTATAATCTCAAAATTGATTTTAAGTTGAATTT
* * * * * **
5051 TTTTTTACTTTTTTAGTTAAAACAGATCATAATTGAATCTCTACATTGAGAAATATGAAGAAAAC
1 TTTTATA-TTTTTCA-TTAAAACAGATTATAATTGAATGTCTACCTTGAGAAACGTGAAGAAAA-
* * * * * *
5116 AGTATTCATTGGCACGAAATGTCCATTTATTGTCAT-CAATTCCTTCAAAAGCATTATTACTCA-
63 AGCATTCATTGGCAAGAAAAGTCCATTTATAGTC-TCCCATTCCTTCAAAAGCCTTATTACT-AG
** *
5179 CTTTAAATTATTTTATAATCTCAAAATTGATTTTAAGTTCAATCTAT
126 CTTTAAATGGTTTTATAATCTCAAAATTGATTTTAAGTTGAAT-T-T
* * * ** * * *
5226 TTTTAT-TTTTTGC-TTAAAACATATTACAATTGAATGTCTGCGATGAGAAACTTGTAGTAAAAC
1 TTTTATATTTTT-CATTAAAACAGATTATAATTGAATGTCTACCTTGAGAAACGTGAAG-AAAAA
* * * * ** * * * *
5289 CCATTTATTTGG-AATAAAAATTTATTTATAGTCTTCTATTCCTTTAAAAGCCTTATTACTAGCC
64 GCATTCA-TTGGCAAGAAAAGTCCATTTATAGTCTCCCATTCCTTCAAAAGCCTTATTACTAGCT
* * * *
5353 TTAAAAGGCTTTATAATCTCATAATTG-TATTTAAGTTAAATTT
128 TTAAATGGTTTTATAATCTCAAAATTGAT-TTTAAGTTGAATTT
* ** ** * * *
5396 CTTTATATTTTTCATTAAAACAGATTATAATTGAATGGATACCTCAACAAACGCGTAGAAAAAGC
1 TTTTATATTTTTCATTAAAACAGATTATAATTGAATGTCTACCTTGAGAAACGTGAAGAAAAAG-
* ** * * *
5461 CATTTATTGGCAAGAAAAAACCATTTATAGTATCCCATTCCTTTAAAAGCCTTGTTACTCA-CTT
65 CATTCATTGGCAAGAAAAGTCCATTTATAGTCTCCCATTCCTTCAAAAGCCTTATTACT-AGCTT
* * * ********
5525 TAAATGGTTTTAAAATCTTATAATTGATTTTAA-NNNNNNNN
129 TAAATGGTTTTATAATCTCAAAATTGATTTTAAGTTGAATTT
** * * * ** * *
5566 NNTTACATTTTTCATTAAAACAGACTATAATTAAATG-CT-TGTCTCAGAAAACGTGTAGACAAA
1 TTTTATATTTTTCATTAAAACAGATTATAATTGAATGTCTACCT-TGAG-AAACGTGAAGA-AAA
* * * * * * *
5629 CA-TATTTATTCAG-AAGAAAAGTCTACTTACAGTCTCCCATTCCTTCAAAAGCCTTATTACTCG
63 -AGCATTCATT-GGCAAGAAAAGTCCATTTATAGTCTCCCATTCCTTCAAAAGCCTTATTACTAG
* * * *
5692 TTTTAAACGATTTTATAATCTCAAAATTGATTTTAAGTTCAATTT
126 CTTTAAATGGTTTTATAATCTCAAAATTGATTTTAAGTTGAATTT
5737 TTTT
1 TTTT
5741 TTNNNNNNNN
Statistics
Matches: 2190, Mismatches: 468, Indels: 190
0.77 0.16 0.07
Matches are distributed among these distances:
168 1 0.00
169 3 0.00
170 321 0.15
171 639 0.29
172 554 0.25
173 479 0.22
174 171 0.08
175 22 0.01
ACGTcount: A:0.35, C:0.14, G:0.11, T:0.39
Consensus pattern (170 bp):
TTTTATATTTTTCATTAAAACAGATTATAATTGAATGTCTACCTTGAGAAACGTGAAGAAAAAGC
ATTCATTGGCAAGAAAAGTCCATTTATAGTCTCCCATTCCTTCAAAAGCCTTATTACTAGCTTTA
AATGGTTTTATAATCTCAAAATTGATTTTAAGTTGAATTT
Found at i:4033 original size:345 final size:342
Alignment explanation
Indices: 2831--5741 Score: 2282
Period size: 345 Copynumber: 8.5 Consensus size: 342
2821 ACATTTTTAG
* ** * * * * *
2831 TTAAAACAGACTACAATTGAATGTGGATGTTGAGAAACGTGAAGAAAAAAATATTCATTGGGAAA
1 TTAAAACAGATTACAATTGAATGTCTACGTTGAGAAATGTAAAGAAAACAATATTCATT-GGAAG
* * * **********
2896 AAAAGTCCATTTATAGTC-TCTCATTCCTTCGAAAGT-CTTATTACTCGCTTTAANNNNNNNNNN
65 AAAAGTCTATTTATAGTCACCT-ATTCCTTC-AAAATCCTTATTACTCGCTTTAAATGGTTTTAT
* * * * *
2959 AATCTCAAAATTGATTTTGAGTTCAATTTTTTTTTACTTTTTTGGTTAAAACAAATTATAATTGA
128 AATCTCAAAATTGATTTTAAGTTTAA-TTTTTTTTACATTTTT-ATTAAAACAGATTATAATTGA
* * * * * * * *
3024 ATCTCTACATCGAAAAACATGAAGAAAAAAGCATTCATTGGCACG-AACGACCCATTTATTGTCA
191 ATGTCTACCTCGAGAAACATGAAGAAAAAAGCATTCATTGGCAAGAAAAG-TCCATTTATAGTCT
********** *
3088 CCCATTCCTTCAAAAGCCTTATTANNNNNNNNNNATGGTTTTATAATCGCAAAATTGATTTTAAG
255 CCCATTCCTTCAAAAGCCTTATTACTCGCTTTAAATGGTTTTATAATCTCAAAATTGATTTTAAG
* *
3153 TTCAATCTGTTTTT-ATTTTTTTC-
320 TTC-ATTTTTTTTTCA-TTTTTTCA
* * * *** * ** * *
3176 TTAAAACAAATTATAATTGAATGTTTATAATGAGAAACGTGTAGAAAA-ATCTATTTATTTGGAA
1 TTAAAACAGATTACAATTGAATGTCTACGTTGAGAAATGTAAAGAAAACA-ATATTCA-TTGGAA
* * * * * *
3240 TAAAAGTCTATTTAGAGTCTCCTATTCCTTCAAAAGT-CTTATTACTAGCCTTAAATGGCTTTAT
64 GAAAAGTCTATTTATAGTCACCTATTCCTTCAAAA-TCCTTATTACTCGCTTTAAATGGTTTTAT
* * * * *
3304 AATCTCATAATTG-TATTTAAGTTGAA-TTTCTTTATATTTTTCATTCAAACAGATTATAATTGA
128 AATCTCAAAATTGAT-TTTAAGTTTAATTTTTTTTACATTTTT-ATTAAAACAGATTATAATTGA
* * * * * *
3367 ATGCCTACCTCAACAAACGTGTAG-AAAAAGCCATTCATTGGTAAGAAAAGTCCATTTATAGTCT
191 ATGTCTACCTCGAGAAACATGAAGAAAAAAG-CATTCATTGGCAAGAAAAGTCCATTTATAGTCT
* * * * *
3431 CTCATTCCTTTAAAAGCCTTATTACTCACTTTAAATGGTTTTAAAATCTCATAATTGATTTTAAG
255 CCCATTCCTTCAAAAGCCTTATTACTCGCTTTAAATGGTTTTATAATCTCAAAATTGATTTTAAG
* * *
3496 TTGAATTTTTTAT-A-TTTTTCA
320 TTCATTTTTTTTTCATTTTTTCA
* * * * * * * * * *
3517 TTAAAACAGACTATAATTAAATG-CTTGCCTTAAAAAACATGTACA-CAAACACAT-TT-ATTTA
1 TTAAAACAGATTACAATTGAATGTC-TACGTT-GAGAA-ATGTAAAGAAAACA-ATATTCA-TTG
** * * *
3578 GAAGAAAAGTCTACGTATAGTC-TCTCATTCCTTCAAAAGCCTTATTACTCGCTTTAAACGGTTT
61 GAAGAAAAGTCTATTTATAGTCACCT-ATTCCTTCAAAATCCTTATTACTCGCTTTAAATGGTTT
* *
3642 TATAATCTCAAAATTGATTTTAAGTTTAATTTTTTTTACGTTTTTATTTAAAACAGATAATAATT
125 TATAATCTCAAAATTGATTTTAAGTTTAATTTTTTTTACATTTTTA-TTAAAACAGATTATAATT
*
3707 GAATGGT-TACCTCGGGAAACATGAAGAAAAAAGCATTCATTGGCAAGAAAAGTCCATTTATAGT
189 GAAT-GTCTACCTCGAGAAACATGAAGAAAAAAGCATTCATTGGCAAGAAAAGTCCATTTATAGT
* * *
3771 CTCCCACTCATTCAAAA-CTCTTATTACTCGCTTTAAATGGTTTTATAATTTCAAAATTGATTTT
253 CTCCCATTCCTTCAAAAGC-CTTATTACTCGCTTTAAATGGTTTTATAATCTCAAAATTGATTTT
**
3835 AAGTTCATTTTTTTTTCAATTTTTTGG
317 AAGTTCATTTTTTTTTC-ATTTTTTCA
* * * *
3862 TTAAAACAGATTACAATTGACTGTCTACGTTAAGAAATGTAAAGAAAACAATATTCACTGGCAAT
1 TTAAAACAGATTACAATTGAATGTCTACGTTGAGAAATGTAAAGAAAACAATATTCATTGG-AAG
* * * * *
3927 AAAAGTCCATTTATAGTCACCTATTGCTTCAAAATCGTTATTACTTGCTTTAAACGGTTTTATAA
65 AAAAGTCTATTTATAGTCACCTATTCCTTCAAAATCCTTATTACTCGCTTTAAATGGTTTTATAA
* *
3992 TCTCAAAATTGATTTTAAGTTTAATTTTTTTTACATTTTTATTTAAAATAGATAATAATTGAATG
130 TCTCAAAATTGATTTTAAGTTTAATTTTTTTTACATTTTTA-TTAAAACAGATTATAATTGAATG
* * * *
4057 TTTACCTTGAGAAATATGAAGAAAAAAGCATTCAATGGCAAGAAAAGTCCATTTATAGTCTCCCA
194 TCTACCTCGAGAAACATGAAGAAAAAAGCATTCATTGGCAAGAAAAGTCCATTTATAGTCTCCCA
*
4122 CTCCTTCAAAA-CTCTTATTACTCGCTTTAAATGGTTTTATAATCTCAAAATTGATTTTAAGTTC
259 TTCCTTCAAAAGC-CTTATTACTCGCTTTAAATGGTTTTATAATCTCAAAATTGATTTTAAGTTC
**
4186 AATTTTTTTTTCAATTTTTTGG
323 -ATTTTTTTTTC-ATTTTTTCA
* * * * * **
4208 TTAAAACAGATTACAATTGAATGTTTACGTTAAGAAATGTAAAGACAACAACATTCACTAGCCAG
1 TTAAAACAGATTACAATTGAATGTCTACGTTGAGAAATGTAAAGAAAACAATATTCA-TTGGAAG
* * * * *
4273 AAAAGT-TCATTTATAGTCACCCATTGCTTCAAAATCGTTATTACTCACTTAAAATGGTTTTATA
65 AAAAGTCT-ATTTATAGTCACCTATTCCTTCAAAATCCTTATTACTCGCTTTAAATGGTTTTATA
** * * * *
4337 ATCTCCTAATTGATTTTAAGTTGAATTGTTTTATA-GTTTTTATTAAAACAGACTATAATTGAAT
129 ATCTCAAAATTGATTTTAAGTTTAATT-TTTTTTACATTTTTATTAAAACAGATTATAATTGAAT
* * * ** * * *
4401 GTATACTTTGAGAAATGTGAAGAAAAAAGCATTCATTGGTAAGAAAAGTCAATTTACAGT-TGCC
193 GTCTACCTCGAGAAACATGAAGAAAAAAGCATTCATTGGCAAGAAAAGTCCATTTATAGTCT-CC
* * * *
4465 CACTT-CTTCAAAAGGCTGATTACTCGATTTAAATAGTTTTATAATCTCAAAATTGATTTTAAGC
257 CA-TTCCTTCAAAAGCCTTATTACTCGCTTTAAATGGTTTTATAATCTCAAAATTGATTTTAAG-
* * * *
4529 TT-AATTTTTCTACA-GTTTTCA
320 TTCATTTTTTTTTCATTTTTTCA
* ** * * * ** * * *
4550 TTAAAATAGACAATAATTGAATGTTTACATTGAGAAACATGAAGAAAA-AAGCATTCATTGACAA
1 TTAAAACAGATTACAATTGAATGTCTACGTTGAGAAATGTAAAGAAAACAA-TATTCATTG-GAA
* * * *
4614 GAGAAA-TCTATTTATAGTCTCCCATTTCTTCAATATCCTTATTACTCGCTTTAAATGGTTTTGA
64 GA-AAAGTCTATTTATAGTCACCTATTCCTTCAAAATCCTTATTACTCGCTTTAAATGGTTTT-A
* * *
4678 TAATCTCAAAATTGATTTTAAG-TTAATTTTTTTTTACTTTTTTGGTTAAAACATGATTATGATT
127 TAATCTCAAAATTGATTTTAAGTTTAA-TTTTTTTTACATTTTT-ATTAAAACA-GATTATAATT
* ** * * *
4742 GAATGTCTACATTAAAAAACGTGAA-AAAAAAGCATTCATTGGCAAGAAAAGTCCATTCATAGTC
189 GAATGTCTACCTCGAGAAACATGAAGAAAAAAGCATTCATTGGCAAGAAAAGTCCATTTATAGTC
* * * * * * *
4806 ACCCATTCTTTCAAAACCCTTATTACTCGTTTTAAATGGTTTAATAATCTGC-TAATTGACTTTA
254 TCCCATTCCTTCAAAAGCCTTATTACTCGCTTTAAATGGTTTTATAATCT-CAAAATTGATTTTA
* * * *
4870 AGTTGAATTGTTTTACA-TTTTTCA
318 AGTTCATTTTTTTTTCATTTTTTCA
* * * * * * * *
4894 TTAAAACAGACTACAATTGTATGTGTACCTCGAGAAATGTGAAGAAAA-AAGCATTCATTGAAAA
1 TTAAAACAGATTACAATTGAATGTCTACGTTGAGAAATGTAAAGAAAACAA-TATTCATTG-GAA
* * * * ** *
4958 GAAAAGTCCATTTATAGTCACTTATTCTTTTAAAAGGCTTATTACTCACTTTAAATGGTTTTATA
64 GAAAAGTCTATTTATAGTCACCTATTCCTTCAAAATCCTTATTACTCGCTTTAAATGGTTTTATA
* * * *
5023 ATCTCAAAATTGATTTTGAGTTCAATTTTTTTTTACTTTTTTAGTTAAAACAGATCATAATTGAA
129 ATCTCAAAATTGATTTTAAGTTTAA-TTTTTTTTACATTTTTA-TTAAAACAGATTATAATTGAA
* * * * * * * * *
5088 TCTCTACATTGAGAAATATGAAGAAAACAGTATTCATTGGCACGAAATGTCCATTTATTGTCAT-
192 TGTCTACCTCGAGAAACATGAAGAAAAAAGCATTCATTGGCAAGAAAAGTCCATTTATAGTC-TC
* * * **
5152 CAATTCCTTCAAAAGCATTATTACTCACTTTAAATTATTTTATAATCTCAAAATTGATTTTAAGT
256 CCATTCCTTCAAAAGCCTTATTACTCGCTTTAAATGGTTTTATAATCTCAAAATTGATTTTAAGT
* *
5217 TCAATCTATTTTT-ATTTTTTGC-
321 TC-ATTTTTTTTTCATTTTTT-CA
* * * *
5239 TTAAAACATATTACAATTGAATGTCTGCGATGAGAAACTTGT--AGTAAAACCCAT-TT-ATTTG
1 TTAAAACAGATTACAATTGAATGTCTACGTTGAGAAA--TGTAAAG-AAAA-CAATATTCA-TTG
* * * ** * * * * * *
5300 GAATAAAAATTTATTTATAGTCTTCTATTCCTTTAAAAGCCTTATTACTAGCCTTAAAAGGCTTT
61 GAAGAAAAGTCTATTTATAGTCACCTATTCCTTCAAAATCCTTATTACTCGCTTTAAATGGTTTT
* * * *
5365 ATAATCTCATAATTG-TATTTAAG-TTAAATTTCTTTATATTTTTCATTAAAACAGATTATAATT
126 ATAATCTCAAAATTGAT-TTTAAGTTTAATTTTTTTTACATTTTT-ATTAAAACAGATTATAATT
** * * ** * * **
5428 GAATGGATACCTCAACAAACGCGTAG-AAAAAGCCATTTATTGGCAAGAAAAAACCATTTATAGT
189 GAATGTCTACCTCGAGAAACATGAAGAAAAAAG-CATTCATTGGCAAGAAAAGTCCATTTATAGT
* * * * * * *
5492 ATCCCATTCCTTTAAAAGCCTTGTTACTCACTTTAAATGGTTTTAAAATCTTATAATTGATTTTA
253 CTCCCATTCCTTCAAAAGCCTTATTACTCGCTTTAAATGGTTTTATAATCTCAAAATTGATTTTA
********** *
5557 A-NNNNNNNNNNTTACA-TTTTTCA
318 AGTTCATTTTTTTTTCATTTTTTCA
* * * * * * ** * *
5580 TTAAAACAGACTATAATTAAATG-CT-TGTCTCAGAAAACGTGTAGACAAAC-ATATTTATTCAG
1 TTAAAACAGATTACAATTGAATGTCTACGT-TGAG-AAATGTAAAGA-AAACAATATTCATT-GG
* * * * * * * *
5642 AAGAAAAGTCTACTTACAGTCTCCCATTCCTTCAAAAGCCTTATTACTCGTTTTAAACGATTTTA
62 AAGAAAAGTCTATTTATAGTCACCTATTCCTTCAAAATCCTTATTACTCGCTTTAAATGGTTTTA
*
5707 TAATCTCAAAATTGATTTTAAGTTCAATTTTTTTT
127 TAATCTCAAAATTGATTTTAAGTTTAATTTTTTTT
5742 TNNNNNNNNN
Statistics
Matches: 2089, Mismatches: 395, Indels: 167
0.79 0.15 0.06
Matches are distributed among these distances:
339 5 0.00
340 20 0.01
341 213 0.10
342 291 0.14
343 356 0.17
344 363 0.17
345 648 0.31
346 182 0.09
347 10 0.00
348 1 0.00
ACGTcount: A:0.35, C:0.14, G:0.11, T:0.38
Consensus pattern (342 bp):
TTAAAACAGATTACAATTGAATGTCTACGTTGAGAAATGTAAAGAAAACAATATTCATTGGAAGA
AAAGTCTATTTATAGTCACCTATTCCTTCAAAATCCTTATTACTCGCTTTAAATGGTTTTATAAT
CTCAAAATTGATTTTAAGTTTAATTTTTTTTACATTTTTATTAAAACAGATTATAATTGAATGTC
TACCTCGAGAAACATGAAGAAAAAAGCATTCATTGGCAAGAAAAGTCCATTTATAGTCTCCCATT
CCTTCAAAAGCCTTATTACTCGCTTTAAATGGTTTTATAATCTCAAAATTGATTTTAAGTTCATT
TTTTTTTCATTTTTTCA
Found at i:7033 original size:21 final size:21
Alignment explanation
Indices: 6991--7033 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
6981 AAGAAACATG
*
6991 AAGAAAAATACATTCATTACC
1 AAGAAAAATACATTCATAACC
* * *
7012 AAGAAAAGTCCATTTATAACC
1 AAGAAAAATACATTCATAACC
7033 A
1 A
7034 CCCATTCCTT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.51, C:0.19, G:0.07, T:0.23
Consensus pattern (21 bp):
AAGAAAAATACATTCATAACC
Found at i:7069 original size:171 final size:171
Alignment explanation
Indices: 6709--8774 Score: 1765
Period size: 171 Copynumber: 12.1 Consensus size: 171
6699 CGTTTAAAAC
* * * *
6709 AAGCCTTGTTATTCACTTTAAACGGTTTTGA-AATCTCATATTTGATTTTAAGTTGAA-TTTTTT
1 AAGCCTTATTACTCACTTTAAATGGTTTT-ATAATCTCATAATTGATTTTAAGTTGAATTTTTTT
** * * * * * * * * *
6772 ACATTTTTCATTTAAACAAACT-ATAATTAAATGCCTACCT-TAGAAA-ACG-TGACAAACACAT
65 ACATTTTTTGTTAAAACAGA-TAATAATTGAATGTCTACCTCAAGAAACATGAAGAAAAAGACAT
** * * *
6833 TTGTTCAG-AAGAAAAGTCTATTTATAGTCTCTCATTCCTTCAA
129 TCATT-AGCAAGAAAAGTCCATTTATAGTCACCCATTCCTTCAA
* * *
6876 AAGCCTTATCACTCACTTTAAATGGTCTTATAATCTCATAATTAATTTTAAGTTGAATTTTTTTA
1 AAGCCTTATTACTCACTTTAAATGGTTTTATAATCTCATAATTGATTTTAAGTTGAATTTTTTTA
* * * *
6941 TATTTTTTGTTAAAACAGATAATAATTGAATGTGTGCCTCAAGAAACATGAAGAAAAATACATTC
66 CATTTTTTGTTAAAACAGATAATAATTGAATGTCTACCTCAAGAAACATGAAGAAAAAGACATTC
* ** *
7006 ATTACCAAGAAAAGTCCATTTATAACCACCCATTCCTTAAA
131 ATTAGCAAGAAAAGTCCATTTATAGTCACCCATTCCTTCAA
* *
7047 AAGGCTTATTACTCAGTTTAAATGGTTTTATAATCTCATAACTT-ATTTTAAGTTGAATTTTTTT
1 AAGCCTTATTACTCACTTTAAATGGTTTTATAATCTCATAA-TTGATTTTAAGTTGAATTTTTTT
* * * ** * * *
7111 GCATTTTTGGTTAAAACAGACT-CTAATTGAATGTCTACCTTGAGAAACAGGAACAAAAA-CCGA
65 ACATTTTTTGTTAAAACAGA-TAATAATTGAATGTCTACCTCAAGAAACATGAAGAAAAAGAC-A
* * *
7174 TTCATTTGCAAGAAAAGTCCATTTATGGTCACCCATTCTTTCAA
128 TTCATTAGCAAGAAAAGTCCATTTATAGTCACCCATTCCTTCAA
* * * * *
7218 AAGGCTTATTACTCGCTTTAAATGGTTTTATAATCTCATAACTAATTTTTAGTTGAATTTTTTTA
1 AAGCCTTATTACTCACTTTAAATGGTTTTATAATCTCATAATTGATTTTAAGTTGAATTTTTTTA
* * * ** * * * * *
7283 TATTTTTAGTTAAAGCAGACGATAATTGAATGTCTACCTCGAGAAAAATAAAGAAAAAGGCTTTC
66 CATTTTTTGTTAAAACAGATAATAATTGAATGTCTACCTCAAGAAACATGAAGAAAAAGACATTC
* * * * *
7348 ATTGGCAAGAAAAGTCTATTTATTGTTACCCATTCCATCAA
131 ATTAGCAAGAAAAGTCCATTTATAGTCACCCATTCCTTCAA
* * * * *
7389 AAGCCTTATTACTTACTTTCAATAGTTTTATAATCTCAAAATTAATTTTAAGTTGAATTTTTTTA
1 AAGCCTTATTACTCACTTTAAATGGTTTTATAATCTCATAATTGATTTTAAGTTGAATTTTTTTA
* ** * * * * * * * **
7454 TATTTTTCATTAAAACGGATTATAATTGAATGCCTACATTAGGAAACATGTAGAAAAACTCATTT
66 CATTTTTTGTTAAAACAGATAATAATTGAATGTCTACCTCAAGAAACATGAAGAAAAAGACA-TT
* * ** *
7519 C-TTTG-AAGGAAAACTCCATTTATAGT-TTCCATTCCTTCAC
130 CATTAGCAA-GAAAAGTCCATTTATAGTCACCCATTCCTTCAA
* * *
7559 AAGCCTTATTGCTCACTTTAAATGGTTTTATAATCTCATAATTAATTTTAAGTTGAATTTTTATA
1 AAGCCTTATTACTCACTTTAAATGGTTTTATAATCTCATAATTGATTTTAAGTTGAATTTTTTTA
* * * * ** * **
7624 TACTCTTGGTTAAAACAGACT-ATAATTGAACATCTACCTCGAGAAATGTGAAGAAAAA-AGCAT
66 CATTTTTTGTTAAAACAGA-TAATAATTGAATGTCTACCTCAAGAAACATGAAGAAAAAGA-CAT
* * * * *
7687 TCATTGGTAAGAAAAGTTCATTTATAGTCGCCCATTCTTTCAA
129 TCATTAGCAAGAAAAGTCCATTTATAGTCACCCATTCCTTCAA
* * * * *
7730 AAGACTTATTACTCGCTTGAAATCGTTTTATAATCTTC-TAATTGACTTTAAGTTGAATTTTTTT
1 AAGCCTTATTACTCACTTTAAATGGTTTTATAATC-TCATAATTGATTTTAAGTTGAATTTTTTT
* * * * *
7794 --ATATTTTGATTAAAACAGATAATAATTGGATGTCTACATCAAGAAACATAAAGAAAAAGAGAT
65 ACATTTTTTG-TTAAAACAGATAATAATTGAATGTCTACCTCAAGAAACATGAAGAAAAAGACAT
* * * *
7857 TCATTGGTAAGAAAAGTCTA-TTATAGTCACCCATTGCTTCAA
129 TCATTAGCAAGAAAAGTCCATTTATAGTCACCCATTCCTTCAA
** * * * * * *
7899 AAGGATTATTACTCGCTTTAAATGGTTTTATAACCTCAAAACTGATTTCAAGTTGAATTTTTTTG
1 AAGCCTTATTACTCACTTTAAATGGTTTTATAATCTCATAATTGATTTTAAGTTGAATTTTTTTA
* * * * ** *
7964 CATTTTTGGTTAAAACAGACAATAATTGAATGTCTATCTCAAGAAACATGAAGAAAAGGGTATTT
66 CATTTTTTGTTAAAACAGATAATAATTGAATGTCTACCTCAAGAAACATGAAGAAAAAGACATTC
*
8029 ACTT-GCAA-AAAAGGTCCATTTATAGTCACCCATTCTTTCAA
131 A-TTAGCAAGAAAA-GTCCATTTATAGTCACCCATTCCTTCAA
* * * * * * * * *
8070 AA-CACTTATTGCTCGCTTTAAAGGGTTTGATTATCTCAGAACTGATTTGAAGTTAAATATTTTT
1 AAGC-CTTATTACTCACTTTAAATGGTTTTATAATCTCATAATTGATTTTAAGTTGAAT-TTTTT
* * * ** * *
8134 TACATTTTCTGTTAAAACAGA-ATATAATTGAATGCCTATCTTGAGAAACGTGAAGAAAAAAACA
64 TACATTTTTTGTTAAAACAGATA-ATAATTGAATGTCTACCTCAAGAAACATGAAGAAAAAGACA
* * *
8198 TTCATT-GATAAGAAAAGTCCATTTAT-GTCTCTCATTCCTTCAA
128 TTCATTAG-CAAGAAAAGTCCATTTATAGTCACCCATTCCTTCAA
* * **
8241 AAGCCTTATTACTCACTTTGAATGGTTTTATAATCTCAAAATTGATTTTAAGTTCTATTTTTTTA
1 AAGCCTTATTACTCACTTTAAATGGTTTTATAATCTCATAATTGATTTTAAGTTGAATTTTTTTA
* ** * * * **
8306 -ATTTTTTGCTTAAAACAGATTATAATTGAATGTCTATGTTAAGACAA-GTGTAGAAAAACCCAT
66 CATTTTTTG-TTAAAACAGATAATAATTGAATGTCTACCTCAAGA-AACATGAAGAAAAAGACAT
* * * * *
8369 TTATTTGGAAGAAAAGTCCATTTATAGTCTCCCATTCTTTCAA
129 TCATTAGCAAGAAAAGTCCATTTATAGTCACCCATTCCTTCAA
* * *
8412 AAGCCTTATTACT-AATCTTAAATAGTTTTATATTCTCATAATTGCA-TTTAAGTTGAATTTTTT
1 AAGCCTTATTACTCACT-TTAAATGGTTTTATAATCTCATAATTG-ATTTTAAGTTGAATTTTTT
** * * * * *
8475 TACATTTTTCATGAAAACAGACT-ATAATTG-ATAGCCTACCTCAAGAAACGTGTAGAAAAAGCC
64 TACATTTTTTGTTAAAACAGA-TAATAATTGAAT-GTCTACCTCAAGAAACATGAAGAAAAAGAC
* * * *
8538 ATTCATT-GACAAGAAAAGTCCATTTATAATCTCCTATTCCCTCAA
127 ATTCATTAG-CAAGAAAAGTCCATTTATAGTCACCCATTCCTTCAA
** * * * *
8583 AAGCCTTGGTACTAACTTTAAATGGTTTTAAAATCTCATATTTGATTTTAAGTT-AAATTTTTTA
1 AAGCCTTATTACTCACTTTAAATGGTTTTATAATCTCATAATTGATTTTAAGTTGAATTTTTTTA
*** * * * * * * * *
8647 CATTTTTCACTAAAATAAACT-ATAATTAAATGCCTACCTC-AGAAAACGTGTAGACAAACACAT
66 CATTTTTTGTTAAAACAGA-TAATAATTGAATGTCTACCTCAAG-AAACATGAAGAAAAAGACAT
** * * * *
8710 TTGTTCAG-AAAAAAAGTCTATTTATAGTCGCTCATTCCTTCAA
129 TCATT-AGCAAGAAAAGTCCATTTATAGTCACCCATTCCTTCAA
*
8753 AAGCCTTATTACTCGCTTTAAA
1 AAGCCTTATTACTCACTTTAAA
8775 NNNNNNNNNN
Statistics
Matches: 1559, Mismatches: 286, Indels: 105
0.80 0.15 0.05
Matches are distributed among these distances:
166 1 0.00
167 49 0.03
168 37 0.02
169 97 0.06
170 438 0.28
171 841 0.54
172 92 0.06
173 4 0.00
ACGTcount: A:0.36, C:0.15, G:0.12, T:0.38
Consensus pattern (171 bp):
AAGCCTTATTACTCACTTTAAATGGTTTTATAATCTCATAATTGATTTTAAGTTGAATTTTTTTA
CATTTTTTGTTAAAACAGATAATAATTGAATGTCTACCTCAAGAAACATGAAGAAAAAGACATTC
ATTAGCAAGAAAAGTCCATTTATAGTCACCCATTCCTTCAA
Found at i:9553 original size:171 final size:171
Alignment explanation
Indices: 8889--10120 Score: 1249
Period size: 171 Copynumber: 7.3 Consensus size: 171
8879 NNNNNNNNNN
* * * * * *
8889 TTTTTTTACATTTTTAGTTAAAATAGATTATAATTGAATGTTTACCTCAAGAAAAATGAAGAAAA
1 TTTTTTTACATTTTTGGTTAAAACAGACTATAATTGAATGTCTACCTTAAGAAACATGAAGAAAA
** * * *** *
8954 AGGAAATT-ATTGGTAAGAAAAGTCCATTTGTACAAACCCATTCTTTCAAAA--CTTTATTACTC
66 A-GTCATTCATTGGCAAGAAAAGTCCATTTATAGTCACCCATTCCTTCAAAAGGC-TTATTACTC
*
9016 ACTTTAAATGGTTTTATAATCTCATAATTGATTTTAAGTT--A
129 GCTTTAAATGGTTTTATAATCTCATAATTGATTTTAAGTTGAA
* ** * * *
9057 TTTTTTT-TATTTTTTATTAAAACAGACTATAATT-AAGTGCCTACCTTAGGAAACATGTAGAAA
1 TTTTTTTACATTTTTGGTTAAAACAGACTATAATTGAA-TGTCTACCTTAAGAAACATGAAGAAA
** * *
9120 AAGTCATTCATTGATAA-AGAAAGTGCATTTATAGTCACCCATTCCTTCAAAA-GCTTTATTATT
65 AAGTCATTCATTGGCAAGA-AAAGTCCATTTATAGTCACCCATTCCTTCAAAAGGC-TTATTACT
*
9183 CGCTTTAAATGGTTTTATAATCTCATAACTGATTTTAAGTTGAA
128 CGCTTTAAATGGTTTTATAATCTCATAATTGATTTTAAGTTGAA
** * * *
9227 TTTTTTTACATTTTT--TTAAAACAGAGAATAATTGAATGTGTACCTCAAGAAACATGAAAAAAA
1 TTTTTTTACATTTTTGGTTAAAACAGACTATAATTGAATGTCTACCTTAAGAAACATGAAGAAAA
* * * * *
9290 AGT-ATTCATTGACAAGAAAAGTGCATTTATAGTCACCCATTCCTTAAAAAGGATTATTACTTAG
66 AGTCATTCATTGGCAAGAAAAGTCCATTTATAGTCACCCATTCCTTCAAAAGGCTTATTAC-TCG
* * *
9354 -TTTAAATGGTTATATAATCTCATAACTGATTTTAGGTTGAA
130 CTTTAAATGGTTTTATAATCTCATAATTGATTTTAAGTTGAA
* * * * * *
9395 TTTTTTTACATTTTTGGTTAAGACAAACTATAATTGAATGTCTACCTTGAGACACATGAACAGAA
1 TTTTTTTACATTTTTGGTTAAAACAGACTATAATTGAATGTCTACCTTAAGAAACATGAAGAAAA
* * * * *
9460 AGTGATTCATTGGCAAGAGAAGTCCATTTAT-GATCACCAATTCTTTCAAAAGGCTTATCACTCG
66 AGTCATTCATTGGCAAGAAAAGTCCATTTATAG-TCACCCATTCCTTCAAAAGGCTTATTACTCG
* * * *
9524 CTTTAAATGGTTTTATAATCTCATAACTGATTTTATGGTAAA
130 CTTTAAATGGTTTTATAATCTCATAATTGATTTTAAGTTGAA
* * * * *
9566 CTTTTTTACATTTTTGGCTAAAACAGACAATAATTGAATGTCTACCTCAAGAAACATAAAGAAAA
1 TTTTTTTACATTTTTGGTTAAAACAGACTATAATTGAATGTCTACCTTAAGAAACATGAAGAAAA
* * * * ** * * *
9631 GGGCTTTCATTGGCAAGAAAAGTCTATTTATAGTCACTTATTCCGTCAAAAGCCTTATTACTCAC
66 AGTCATTCATTGGCAAGAAAAGTCCATTTATAGTCACCCATTCCTTCAAAAGGCTTATTACTCGC
*
9696 TTTAAATGGTTTTATAATCTCAAAATTGATTTTAAGTTGAA
131 TTTAAATGGTTTTATAATCTCATAATTGATTTTAAGTTGAA
* ** * * * * * * * * *
9737 -TTTTTTATATTTTTCATTACAACAAATTATAATTGAATGCCTGCATCAGGAAACATGTAAAAAA
1 TTTTTTTACATTTTTGGTTAAAACAGACTATAATTGAATGTCTACCTTAAGAAACATG-AAGAAA
* ** * * * * * *
9801 AACTCATTTC-TTGAAAAAAAAAGTCCATTTATATTCTCTCATTTCTTCAAAAGCCTTATTACTC
65 AAGTCA-TTCATTGGCAAGAAAAGTCCATTTATAGTCACCCATTCCTTCAAAAGGCTTATTACTC
*
9865 TCTTTAAATGGTTTTATAATCTCATAATTGATTTTAAGTTGAA
129 GCTTTAAATGGTTTTATAATCTCATAATTGATTTTAAGTTGAA
* * * * ** * *
9908 TTCTTTTACACTCTTGGTTAAAACAGATTATAATTGAACATTTACCTTGAGAAACATGAAGAAAA
1 TTTTTTTACATTTTTGGTTAAAACAGACTATAATTGAATGTCTACCTTAAGAAACATGAAGAAAA
* ** * *
9973 AG-CATTCATTGGTAAGAAAAGTTTATTTATAGTCGCTCATTCCTTCAAAAGGCTTATTACTCGC
66 AGTCATTCATTGGCAAGAAAAGTCCATTTATAGTCACCCATTCCTTCAAAAGGCTTATTACTCGC
* *
10037 TTTAAATGGTTTTACAATCTTC-TAATTGATTTTAAGTTAAA
131 TTTAAATGGTTTTATAATC-TCATAATTGATTTTAAGTTGAA
* ** * *
10078 TTTTTTTACACTTTTCATTAAAATAGAATATAATTGAATGTCT
1 TTTTTTTACATTTTTGGTTAAAACAGACTATAATTGAATGTCT
10121 NNNNNNNNNN
Statistics
Matches: 882, Mismatches: 160, Indels: 42
0.81 0.15 0.04
Matches are distributed among these distances:
166 7 0.01
167 78 0.09
168 158 0.18
169 47 0.05
170 216 0.24
171 332 0.38
172 44 0.05
ACGTcount: A:0.36, C:0.13, G:0.12, T:0.39
Consensus pattern (171 bp):
TTTTTTTACATTTTTGGTTAAAACAGACTATAATTGAATGTCTACCTTAAGAAACATGAAGAAAA
AGTCATTCATTGGCAAGAAAAGTCCATTTATAGTCACCCATTCCTTCAAAAGGCTTATTACTCGC
TTTAAATGGTTTTATAATCTCATAATTGATTTTAAGTTGAA
Found at i:10881 original size:171 final size:170
Alignment explanation
Indices: 10537--10974 Score: 374
Period size: 171 Copynumber: 2.6 Consensus size: 170
10527 GTCTACCTTG
* * ** * * * *
10537 AGAAACATGAAGAAAAAGGCTTTCATTGGCAAGCAAAA-TTCATTTATAGTCACCCGTT-CTATC
1 AGAAAC-TGAAGAAAAAAGCATTCATTGATAA-AAAAAGTTCATTTATAGTTACTCATTCCT-TC
********** *
10600 -AAAAGCCTTATTACCTGCTTTAAATAGTTTTATAATCNNNNNNNNNNTTTTAAGTTGAATTTTT
63 AAAAAG-CTTATTACCTGCTTTAAATAGTTTTATAATCTGATAATTGATTTTAAGTTAAATTTTT
* * * * *
10664 TTATATTTTTCATTAAAATAGAGTATAATTGAATGCCTGCCTCA
127 TTACACTCTTCATTAAAATAGACTATAATTGAACGCCTGCCTCA
** * **
10708 AGAAACAT-ATAGAAAAACTCATTTATTTGA-AGGAAAAG-TCTATTTATAGTCT-CTCATTCCT
1 AGAAAC-TGA-AGAAAAAAGCATTCA-TTGATAAAAAAAGTTC-ATTTATAGT-TACTCATTCCT
*
10769 TC-AAAAGCCTTATTACACT-CTTTAAATGGTTTTATAATCTGATAATTGATTTTAAGTTAAATT
61 TCAAAAAG-CTTATTAC-CTGCTTTAAATAGTTTTATAATCTGATAATTGATTTTAAGTTAAATT
** * *
10832 TTTTTACACTCTTGGTTAAAATAGACTATAATTGAACGTC-GATCTCA
124 TTTTTACACTCTTCATTAAAATAGACTATAATTGAACGCCTG-CCTCA
*
10879 AGAAACTGAAGAAAAAAGCATTCATTGATAAAAAAAGTTCATTTATAGTTACTTATTCCTTCAAA
1 AGAAACTGAAGAAAAAAGCATTCATTGATAAAAAAAGTTCATTTATAGTTACTCATTCCTTCAAA
*
10944 AAGCTTATTACTTGCTTTAAATAGTTTTATA
66 AAGCTTATTACCTGCTTTAAATAGTTTTATA
10975 NNNNNNNNNN
Statistics
Matches: 214, Mismatches: 39, Indels: 29
0.76 0.14 0.10
Matches are distributed among these distances:
169 6 0.03
170 70 0.33
171 131 0.61
172 7 0.03
ACGTcount: A:0.36, C:0.13, G:0.11, T:0.37
Consensus pattern (170 bp):
AGAAACTGAAGAAAAAAGCATTCATTGATAAAAAAAGTTCATTTATAGTTACTCATTCCTTCAAA
AAGCTTATTACCTGCTTTAAATAGTTTTATAATCTGATAATTGATTTTAAGTTAAATTTTTTTAC
ACTCTTCATTAAAATAGACTATAATTGAACGCCTGCCTCA
Found at i:12054 original size:170 final size:171
Alignment explanation
Indices: 11753--13620 Score: 1748
Period size: 171 Copynumber: 11.0 Consensus size: 171
11743 NNNNNNNNNN
* * * *
11753 TTGGTTAAAACAGACTATAATTGAATGTCTACCTTGAGAAACGTAAAGAAAAAATCATTCATTAA
1 TTGGTTAAAACAGACTATAATTGAATGTCTACCTTAAGAAACATGAAGAAAAAATCATTCATT-G
* * * * * * *
11818 G-AAGAAAAGTCTATTTATAGTCACCTATTCTTTCAAAAGCCATAATACTCGCTCTAAATGGTTT
65 GTAAGAAAAGTCCATTTATAGTCTCCCATTCCTTCAAAAGCCTTATTACTCGCTTTAAATGGTTT
*
11882 TATAATCTCATAATTGATTTTAAGTTGAA-TTTTTTACACTT
130 TATAATCTCATAATTGATTTTAAGTTGAATTTTTTTACATTT
* * *
11923 TTGGTTAAAACAGGCTATAATTGAATGTCTACCTTAAGAAATATAAAGAAAGAAAT-ATTCATTG
1 TTGGTTAAAACAGACTATAATTGAATGTCTACCTTAAGAAACATGAAGAAA-AAATCATTCATTG
* * * * *
11987 GTAAGAAAAGTCCATTTATAGTCTCTCATTCCATCGAAAGCCTTATTTCTCGCTTTAAATAGTTT
65 GTAAGAAAAGTCCATTTATAGTCTCCCATTCCTTCAAAAGCCTTATTACTCGCTTTAAATGGTTT
* * *
12052 TATAATCTCGTAATTGATTTT-AGATTGAAATTCTTTTACATTA
130 TATAATCTCATAATTGATTTTAAG-TTG-AATTTTTTTACATTT
* * * * *
12095 TTAGTTAAAACAGATTATAATTGAATGTCTACCTCATGAAACATGAAGAAGAAGA-CATTCATTG
1 TTGGTTAAAACAGACTATAATTGAATGTCTACCTTAAGAAACATGAAGAA-AAAATCATTCATTG
* * ** * * *
12159 GCAAGAAAAGTCCA-TTATAGTCAT-CCATTCCTTCAAAAGCTTTATTACTTACTTTAAGTAGTG
65 GTAAGAAAAGTCCATTTATAGTC-TCCCATTCCTTCAAAAGCCTTATTACTCGCTTTAAATGGTT
* *
12222 TTATAATCTCATAATTAATTTTAAGTTGAATTTTTTTTATATTT
129 TTATAATCTCATAATTGATTTTAAGTTGAA-TTTTTTTACATTT
** * *** * * ** * *
12266 TTCATTAAAACAGACTATAATTGAATGCCTGTGTCAAAAAATGTGCAA-AAAAATTCATTCATTA
1 TTGGTTAAAACAGACTATAATTGAATGTCTACCTTAAGAAACATG-AAGAAAAAATCATTCATTG
* ** * *
12330 GTAAGAAAAGTCCATTTACAGTCTCTAATTCCTTTAAAAGCCTTATTACTTGCTTTAAAT-GTTT
65 GTAAGAAAAGTCCATTTATAGTCTCCCATTCCTTCAAAAGCCTTATTACTCGCTTTAAATGGTTT
* *
12394 TATAATCTCATAATTAATTTGAAGTTGAATTTTTTTACATTT
130 TATAATCTCATAATTGATTTTAAGTTGAATTTTTTTACATTT
* * * * *
12436 TTAGTTAAAATAGACTATAATTGAATG-CTTCTCTCAAGAAACATGAAG-AAAAATGGATTCATT
1 TTGGTTAAAACAGACTATAATTGAATGTCTAC-CTTAAGAAACATGAAGAAAAAAT-CATTCATT
* * * * * * * *
12499 GGCAAGAAAAGTACATTTATAGTCACCTATTCCTTCAAAAGGCTTATGACTTGCTTTCAATGGTT
64 GGTAAGAAAAGTCCATTTATAGTCTCCCATTCCTTCAAAAGCCTTATTACTCGCTTTAAATGGTT
* **
12564 TTATACTCTCATAATTGATTTTAAGTTGACCTTTTTTACATTT
129 TTATAATCTCATAATTGATTTTAAGTTGAATTTTTTTACATTT
* * ** * * * *
12607 TCT-ATTAAAACAGACTATAATTGAATGTCTGCAATAGGAAACGTGTAAG-AAAACTCATTTATT
1 T-TGGTTAAAACAGACTATAATTGAATGTCTACCTTAAGAAACATG-AAGAAAAAATCATTCA-T
* * * * * * *
12670 TGGAAAAAAAAGTTCATTTATAGTATCCCATTGCTTCGAAAGCCTTATTACTCGTTTTAAAT-GT
63 TGGTAAGAAAAGTCCATTTATAGTCTCCCATTCCTTCAAAAGCCTTATTACTCGCTTTAAATGGT
* ** *
12734 TTTAAAATCTCATAACAGATTTTAAGTTGAATTTTTTTATATTT
128 TTTATAATCTCATAATTGATTTTAAGTTGAATTTTTTTACATTT
* * * * * * *
12778 TTGGTAAAAACAAACTATAATTCAGTG-CTTACCTCT-AGAAACAAGAATAAAAAAGCATTCATT
1 TTGGTTAAAACAGACTATAATTGAATGTC-TACCT-TAAGAAACATGAAGAAAAAATCATTCATT
* ** * ** * *
12841 GATAAGAAAAGTTTATTTATAGTCACCCATTCCTTCAAAAGGTTTATTACTCACTTTCAATGGTT
64 GGTAAGAAAAGTCCATTTATAGTCTCCCATTCCTTCAAAAGCCTTATTACTCGCTTTAAATGGTT
* *
12906 TTATAATCTCATAACTGATTTTAAGTTGAATTTTTTTACGTTT
129 TTATAATCTCATAATTGATTTTAAGTTGAATTTTTTTACATTT
** * * *** *
12949 TCAGTTAAAACAGACTATAATTGAATGTCTACCTTTAGAAATATGAA-AAAAAGGGATTCATTAG
1 TTGGTTAAAACAGACTATAATTGAATGTCTACCTTAAGAAACATGAAGAAAAAATCATTCATTGG
* * * * *
13013 TAAGAGAAGTCCATTTATAGT-TACGCATTCCTTCAAAAAG-CATATTACTCACTTTAAATGGCT
66 TAAGAAAAGTCCATTTATAGTCT-CCCATTCCTTC-AAAAGCCTTATTACTCGCTTTAAATGGTT
* * *
13076 CTATAATCTCATAACTGATTTTAAGTTAAATTTTTTTTACATTT
129 TTATAATCTCATAATTGATTTTAAGTTGAA-TTTTTTTACATTT
* * * * **
13120 TTGGTTAAAACAGACAATAATTGAATGTTTACCTCAAGAAACATGAATAAATGGA-CATTCATTG
1 TTGGTTAAAACAGACTATAATTGAATGTCTACCTTAAGAAACATGAAGAAA-AAATCATTCATTG
* * * * *
13184 GTAAGAAAAATCAATTTATAGTCACCCATT-C--C---A---TCATTACTCTCTTTAAATGGTTT
65 GTAAGAAAAGTCCATTTATAGTCTCCCATTCCTTCAAAAGCCTTATTACTCGCTTTAAATGGTTT
* ** *
13240 TATAATCTCAAAATTGATTTTAAGTCAAATTTTTTTATATTT
130 TATAATCTCATAATTGATTTTAAGTTGAATTTTTTTACATTT
* * * * * * ** * *
13282 CTCGTTAAAACAGACTATAATTGAATGCCTGCCTTAGGAAACGTGTCGAAAAACTCATTTCTTTG
1 TTGGTTAAAACAGACTATAATTGAATGTCTACCTTAAGAAACATGAAGAAAAAATCA-TTCATTG
** * * * *
13347 G-AAGAAAAGTTTATTTATAGTTTCTCATTCCTTTAAAAGCCTTATTACTCGTTTTAAATGGTTT
65 GTAAGAAAAGTCCATTTATAGTCTCCCATTCCTTCAAAAGCCTTATTACTCGCTTTAAATGGTTT
*
13411 TATAATCTCATAATTGATTTTAAGTTGACTTTTTTTTTACATTT
130 TATAATCTCATAATTGATTTTAAGTTGA--ATTTTTTTACATTT
** ** * * * * * * *
13455 TTCATCGAAATAGGCTATAATTGAATGCCTACCATGAGAAACATGTA-AAAAAATCCATTCATTA
1 TTGGTTAAAACAGACTATAATTGAATGTCTACCTTAAGAAACATGAAGAAAAAAT-CATTCATTG
* * *
13519 GCAAGAAAAGTCCATTTATAGTCACCCGTT-CTTGCAAAAGCCTTATTACTTCGCTTTAAATGGT
65 GTAAGAAAAGTCCATTTATAGTCTCCCATTCCTT-CAAAAGCCTTATTAC-TCGCTTTAAATGGT
*
13583 TTTATAATCTCATAATTGATTTTAGGTTGAATTTTTTT
128 TTTATAATCTCATAATTGATTTTAAGTTGAATTTTTTT
13621 TTAGCCCTCA
Statistics
Matches: 1381, Mismatches: 265, Indels: 102
0.79 0.15 0.06
Matches are distributed among these distances:
162 75 0.05
163 52 0.04
165 1 0.00
168 1 0.00
169 13 0.01
170 377 0.27
171 498 0.36
172 236 0.17
173 86 0.06
174 42 0.03
ACGTcount: A:0.36, C:0.14, G:0.12, T:0.39
Consensus pattern (171 bp):
TTGGTTAAAACAGACTATAATTGAATGTCTACCTTAAGAAACATGAAGAAAAAATCATTCATTGG
TAAGAAAAGTCCATTTATAGTCTCCCATTCCTTCAAAAGCCTTATTACTCGCTTTAAATGGTTTT
ATAATCTCATAATTGATTTTAAGTTGAATTTTTTTACATTT
Found at i:14275 original size:47 final size:47
Alignment explanation
Indices: 14219--14551 Score: 290
Period size: 47 Copynumber: 7.2 Consensus size: 47
14209 CACGGCAGGA
* * * *
14219 TTCAAAGTTTGTGACACGGCATGGAGGGAATCTATGACACTCTAGAG
1 TTCAGAGTTTGTGACACGCCATGGAGGGAATCTGTGACACTCCAGAG
** * * *
14266 TTCAGAGTTTGTGACACGGTATGGAAGGAATCTGTGACACGCCAAAG
1 TTCAGAGTTTGTGACACGCCATGGAGGGAATCTGTGACACTCCAGAG
* * * * * *
14313 TTCAAAG-TT-TGACATGCCATGGAGCGAATTTGTGGCA-TGCCAGTG
1 TTCAGAGTTTGTGACACGCCATGGAGGGAATCTGTGACACT-CCAGAG
* * * *
14358 TTCAGAGTTTGTGACACGGCATGGATGGAATCTGTGACACGCTAGAG
1 TTCAGAGTTTGTGACACGCCATGGAGGGAATCTGTGACACTCCAGAG
* * *
14405 TTCAGAG-TT-TGACACGCCATGGAGGGAATCTATGACACGT-TAGTG
1 TTCAGAGTTTGTGACACGCCATGGAGGGAATCTGTGACAC-TCCAGAG
* * * * *
14450 TTCAAAGTTTGTGACACACCAGGGAGAGAATCTGTGACACGCCA-ATG
1 TTCAGAGTTTGTGACACGCCATGGAGGGAATCTGTGACACTCCAGA-G
* *
14497 TTCAGAG-TT-TGACACGCCATGGAGGAAATCTGTGACACGT-CAGGG
1 TTCAGAGTTTGTGACACGCCATGGAGGGAATCTGTGACAC-TCCAGAG
*
14542 TTTAGAGTTT
1 TTCAGAGTTT
14552 AACACGTCGA
Statistics
Matches: 225, Mismatches: 49, Indels: 25
0.75 0.16 0.08
Matches are distributed among these distances:
45 101 0.45
46 12 0.05
47 112 0.50
ACGTcount: A:0.28, C:0.18, G:0.29, T:0.26
Consensus pattern (47 bp):
TTCAGAGTTTGTGACACGCCATGGAGGGAATCTGTGACACTCCAGAG
Found at i:14361 original size:45 final size:44
Alignment explanation
Indices: 14230--14557 Score: 287
Period size: 45 Copynumber: 7.2 Consensus size: 44
14220 TCAAAGTTTG
* * * * *
14230 TGACACGGCATGGAGGGAATCTATGACACTCTAGAGTTCAGAGTTT
1 TGACACGCCATGGA-GGAATCTGTGACACGCCAGTGTTCAGAG-TT
** ** *
14276 GTGACACGGTATGGAAGGAATCTGTGACACGCCAAAGTTCAAAGTT
1 -TGACACGCCATGG-AGGAATCTGTGACACGCCAGTGTTCAGAGTT
* * * *
14322 TGACATGCCATGGAGCGAATTTGTGGCATGCCAGTGTTCAGAGTTT
1 TGACACGCCATGGAG-GAATCTGTGACACGCCAGTGTTCAGAG-TT
* * *
14368 GTGACACGGCATGGATGGAATCTGTGACACGCTAGAGTTCAGAGTT
1 -TGACACGCCATGGA-GGAATCTGTGACACGCCAGTGTTCAGAGTT
* ** *
14414 TGACACGCCATGGAGGGAATCTATGACACGTTAGTGTTCAAAGTTT
1 TGACACGCCATGGA-GGAATCTGTGACACGCCAGTGTTCAGAG-TT
* * *
14460 GTGACACACCAGGGAGAGAATCTGTGACACGCCAATGTTCAGAGTT
1 -TGACACGCCATGGAG-GAATCTGTGACACGCCAGTGTTCAGAGTT
* * *
14506 TGACACGCCATGGAGGAAATCTGTGACACGTCAGGGTTTAGAGTT
1 TGACACGCCATGGAGG-AATCTGTGACACGCCAGTGTTCAGAGTT
*
14551 TAACACG
1 TGACACG
14558 TCGACATTCA
Statistics
Matches: 230, Mismatches: 42, Indels: 20
0.79 0.14 0.07
Matches are distributed among these distances:
44 3 0.01
45 111 0.48
46 11 0.05
47 103 0.45
48 2 0.01
ACGTcount: A:0.28, C:0.18, G:0.29, T:0.25
Consensus pattern (44 bp):
TGACACGCCATGGAGGAATCTGTGACACGCCAGTGTTCAGAGTT
Found at i:14365 original size:92 final size:92
Alignment explanation
Indices: 14230--14551 Score: 369
Period size: 92 Copynumber: 3.5 Consensus size: 92
14220 TCAAAGTTTG
* * * * * *
14230 TGACACGGCATGGAGGGAATCTATGACACTCTAGAGTTCAGAGTTTGTGACACGGTATGGAAGGA
1 TGACACGCCATGGAGCGAATCTATGACACGCCAGTGTTCAGAGTTTGTGACACGGCATGGAAGGA
*
14295 ATCTGTGACACGCCAAAGTTCAAAGTT
66 ATCTGTGACACGCCAAAGTTCAGAGTT
* * * * * *
14322 TGACATGCCATGGAGCGAATTTGTGGCATGCCAGTGTTCAGAGTTTGTGACACGGCATGGATGGA
1 TGACACGCCATGGAGCGAATCTATGACACGCCAGTGTTCAGAGTTTGTGACACGGCATGGAAGGA
* *
14387 ATCTGTGACACGCTAGAGTTCAGAGTT
66 ATCTGTGACACGCCAAAGTTCAGAGTT
* ** * ** *
14414 TGACACGCCATGGAGGGAATCTATGACACGTTAGTGTTCAAAGTTTGTGACACACCA-GGGAGAG
1 TGACACGCCATGGAGCGAATCTATGACACGCCAGTGTTCAGAGTTTGTGACACGGCATGGAAG-G
*
14478 AATCTGTGACACGCCAATGTTCAGAGTT
65 AATCTGTGACACGCCAAAGTTCAGAGTT
* * * *
14506 TGACACGCCATGGAG-GAAATCTGTGACACGTCAGGGTTTAGAGTTT
1 TGACACGCCATGGAGCG-AATCTATGACACGCCAGTGTTCAGAGTTT
14552 AACACGTCGA
Statistics
Matches: 192, Mismatches: 36, Indels: 4
0.83 0.16 0.02
Matches are distributed among these distances:
91 4 0.02
92 188 0.98
ACGTcount: A:0.28, C:0.18, G:0.29, T:0.25
Consensus pattern (92 bp):
TGACACGCCATGGAGCGAATCTATGACACGCCAGTGTTCAGAGTTTGTGACACGGCATGGAAGGA
ATCTGTGACACGCCAAAGTTCAGAGTT
Found at i:15061 original size:171 final size:171
Alignment explanation
Indices: 14770--15442 Score: 865
Period size: 171 Copynumber: 3.9 Consensus size: 171
14760 TTTTAAATTC
* * * * *
14770 ATTTTAAGTTGAATTTTTTTACATTTTTGGTTAAAACAGATTATAATTGAATGTCCACCTTGAGA
1 ATTTTAAGTTGAATGTTTTTACATTTTTGATTAAAACAGACTATAATTGAATGTCTACCTTAAGA
* *
14835 AATATGAA-ATAAAAGGCATTCATTGGCAAGAAAAGTCCATTTATAGTCACCCATTCTTTCAAAA
66 AATATGAAGA-AAAAAGCATTCATTGGCAAGAAAAGTCCATTTATAGTCACCCATTCCTTCAAAA
* * * *
14899 GCCTTATTACTCGCTTTAAATGGTTTTCTAATGTTATAATTG
130 GCCTTATTACTCGCTTTAAATGGTTTTATAATCTCATAACTG
* * * **
14941 ATTTTAAGTTGAATGTTTTTACATTTTTCATTAAAACAGGCTATAATTGAATG-CTTGCCTTGGG
1 ATTTTAAGTTGAATGTTTTTACATTTTTGATTAAAACAGACTATAATTGAATGTC-TACCTTAAG
* * ** * * *
15005 AAATGTGTAGAAAAATCCATTCATTAGTAAGAAAAGTCCATTTATAGTCTCCCATTCCTTCAAAA
65 AAATATGAAGAAAAAAGCATTCATTGGCAAGAAAAGTCCATTTATAGTCACCCATTCCTTCAAAA
** *
15070 ATCTTATTACTGGCTTTAAAT-GTTTTATAATCTCATAACTG
130 GCCTTATTACTCGCTTTAAATGGTTTTATAATCTCATAACTG
* *
15111 ATTTTAAGTTGAATTTTTTTACATTTTT-AGTTAAAACAAACTATAATTGAATG-CTTACCTTAA
1 ATTTTAAGTTGAATGTTTTTACATTTTTGA-TTAAAACAGACTATAATTGAATGTC-TACCTTAA
* *
15174 GAAATGA-GAAGAAAAAAGCATTCATTGGCAAGAAAAGTCCATTTATAGTCTCCCATTCCTTAAA
64 GAAAT-ATGAAGAAAAAAGCATTCATTGGCAAGAAAAGTCCATTTATAGTCACCCATTCCTTCAA
* *
15238 AAGGCTTATTACTCGCTTTAAATGGTTTTGTAATCTCATAACTG
128 AAGCCTTATTACTCGCTTTAAATGGTTTTATAATCTCATAACTG
* * *
15282 ATTCTAAGTTGAA-GTTTTTTACATTTTTGATTAAAACAGACTATAACTGAATGTCTACCTCAAG
1 ATTTTAAGTTGAATG-TTTTTACATTTTTGATTAAAACAGACTATAATTGAATGTCTACCTTAAG
* * * * *
15346 AAACATGAAGAAAAAAGCATTCAATGACAAGAAAAGTTCATTTCTAGTCACCCATTCCTTCAAAA
65 AAATATGAAGAAAAAAGCATTCATTGGCAAGAAAAGTCCATTTATAGTCACCCATTCCTTCAAAA
* *
15411 GCCTTATTGCTCGTTTTAAATGGTTTTATAAT
130 GCCTTATTACTCGCTTTAAATGGTTTTATAAT
15443 GAGAAATTTT
Statistics
Matches: 437, Mismatches: 56, Indels: 18
0.86 0.11 0.04
Matches are distributed among these distances:
169 1 0.00
170 149 0.34
171 284 0.65
172 3 0.01
ACGTcount: A:0.35, C:0.15, G:0.13, T:0.38
Consensus pattern (171 bp):
ATTTTAAGTTGAATGTTTTTACATTTTTGATTAAAACAGACTATAATTGAATGTCTACCTTAAGA
AATATGAAGAAAAAAGCATTCATTGGCAAGAAAAGTCCATTTATAGTCACCCATTCCTTCAAAAG
CCTTATTACTCGCTTTAAATGGTTTTATAATCTCATAACTG
Found at i:15402 original size:341 final size:342
Alignment explanation
Indices: 14770--15442 Score: 910
Period size: 341 Copynumber: 2.0 Consensus size: 342
14760 TTTTAAATTC
* * * *
14770 ATTTTAAGTTGAATTTTTTTACATTTTTGGTTAAAACAGATTATAATTGAATGTCCACCTTGAGA
1 ATTTTAAGTTGAATTTTTTTACATTTTTAGTTAAAACAAACTATAATTGAATGTCCACCTTAAGA
* * *
14835 AATATGAAATAAAAGGCATTCATTGGCAAGAAAAGTCCATTTATAGTCACCCATTCTTTCAAAAG
66 AATATGAAATAAAAAGCATTCATTGGCAAGAAAAGTCCATTTATAGTCACCCATTCCTTAAAAAG
* * * *
14900 CCTTATTACTCGCTTTAAATGGTTTTCTAATGTTATAATTGATTTTAAGTTGAATGTTTTTACAT
131 CCTTATTACTCGCTTTAAATGGTTTTCTAATCTCATAACTGATTCTAAGTTGAATGTTTTTACAT
* * * *** ** * * *
14965 TTTTCATTAAAACAGGCTATAATTGAATGCTTGCCTTGGGAAATGTGTAGAAAAATCCATTCATT
196 TTTTCATTAAAACAGACTATAACTGAATGCTTACCTCAAGAAACATGAAGAAAAAACCATTCATG
* * * *
15030 AGTAAGAAAAGTCCATTTATAGTCTCCCATTCCTTCAAAAATCTTATTACTGGCTTTAAAT-GTT
261 AGCAAGAAAAGTCCATTTATAGTCACCCATTCCTTCAAAAACCTTATTACTCGCTTTAAATGGTT
15094 TTATAATCTCATAACTG
326 TTATAATCTCATAACTG
*
15111 ATTTTAAGTTGAATTTTTTTACATTTTTAGTTAAAACAAACTATAATTGAATG-CTTACCTTAAG
1 ATTTTAAGTTGAATTTTTTTACATTTTTAGTTAAAACAAACTATAATTGAATGTC-CACCTTAAG
*
15175 AAATGA-GAAGA-AAAAAGCATTCATTGGCAAGAAAAGTCCATTTATAGTCTCCCATTCCTTAAA
65 AAAT-ATGAA-ATAAAAAGCATTCATTGGCAAGAAAAGTCCATTTATAGTCACCCATTCCTTAAA
* *
15238 AAGGCTTATTACTCGCTTTAAATGGTTTTGTAATCTCATAACTGATTCTAAGTTGAA-GTTTTTT
128 AAGCCTTATTACTCGCTTTAAATGGTTTTCTAATCTCATAACTGATTCTAAGTTGAATG-TTTTT
* *
15302 ACATTTTTGATTAAAACAGACTATAACTGAATG-TCTACCTCAAGAAACATGAAGAAAAAAGCAT
192 ACATTTTTCATTAAAACAGACTATAACTGAATGCT-TACCTCAAGAAACATGAAGAAAAAACCAT
* * * * *
15366 TCAATGA-CAAGAAAAGTTCATTTCTAGTCACCCATTCCTTCAAAAGCCTTATTGCTCGTTTTAA
256 TC-ATGAGCAAGAAAAGTCCATTTATAGTCACCCATTCCTTCAAAAACCTTATTACTCGCTTTAA
15430 ATGGTTTTATAAT
320 ATGGTTTTATAAT
15443 GAGAAATTTT
Statistics
Matches: 288, Mismatches: 37, Indels: 13
0.85 0.11 0.04
Matches are distributed among these distances:
340 3 0.01
341 270 0.94
342 15 0.05
ACGTcount: A:0.35, C:0.15, G:0.13, T:0.38
Consensus pattern (342 bp):
ATTTTAAGTTGAATTTTTTTACATTTTTAGTTAAAACAAACTATAATTGAATGTCCACCTTAAGA
AATATGAAATAAAAAGCATTCATTGGCAAGAAAAGTCCATTTATAGTCACCCATTCCTTAAAAAG
CCTTATTACTCGCTTTAAATGGTTTTCTAATCTCATAACTGATTCTAAGTTGAATGTTTTTACAT
TTTTCATTAAAACAGACTATAACTGAATGCTTACCTCAAGAAACATGAAGAAAAAACCATTCATG
AGCAAGAAAAGTCCATTTATAGTCACCCATTCCTTCAAAAACCTTATTACTCGCTTTAAATGGTT
TTATAATCTCATAACTG
Found at i:16135 original size:23 final size:23
Alignment explanation
Indices: 16107--16181 Score: 64
Period size: 23 Copynumber: 3.3 Consensus size: 23
16097 GTTCAGAGTT
16107 TGTGACACGGCATGGAGGGAATC
1 TGTGACACGGCATGGAGGGAATC
* ** **
16130 TGTGACACGCCA--GAGTTCAAAG
1 TGTGACACGGCATGGAG-GGAATC
* *
16152 TTTGACACAGCATGGAGGGAATC
1 TGTGACACGGCATGGAGGGAATC
16175 TGTGACA
1 TGTGACA
16182 TGCTAGTGTT
Statistics
Matches: 36, Mismatches: 13, Indels: 6
0.65 0.24 0.11
Matches are distributed among these distances:
21 3 0.08
22 11 0.31
23 19 0.53
24 3 0.08
ACGTcount: A:0.29, C:0.19, G:0.32, T:0.20
Consensus pattern (23 bp):
TGTGACACGGCATGGAGGGAATC
Found at i:16197 original size:92 final size:93
Alignment explanation
Indices: 16036--16384 Score: 359
Period size: 92 Copynumber: 3.8 Consensus size: 93
16026 GTGACAGGGT
* * * * * * *
16036 TGTGACACGGCAGGGCTCAAAGTTTGTGACACA-ACATGGAGGAAATCTATGACACT-CTAGAGT
1 TGTGACACGTCAGAGTTCAAAG-TT-TGACACAGCCATGGAGGAAATCTGTGACA-TGCCAGTGT
*
16099 TCAGAGTTTGTGACACGGCATGGAGGGAATC
63 TTAGAGTTTGTGACACGGCATGGAGGGAATC
* * *
16130 TGTGACACGCCAGAGTTCAAAGTTTGACACAG-CATGGAGGGAATCTGTGACATGCTAGTGTTTA
1 TGTGACACGTCAGAGTTCAAAGTTTGACACAGCCATGGAGGAAATCTGTGACATGCCAGTGTTTA
* *
16194 GAGTTTGTGACACGGAATGGAGGGAATT
66 GAGTTTGTGACACGGCATGGAGGGAATC
* * * * * **
16222 TGTGACACGTCAGAGTTCAGAGTTTGACA-TGCCATGGAGGGAATTTGTCACACACCAGTGTTTA
1 TGTGACACGTCAGAGTTCAAAGTTTGACACAGCCATGGAGGAAATCTGTGACATGCCAGTGTTTA
* * * *
16286 AAGTTTGTGACATGCCACAGG-GGGAATC
66 GAGTTTGTGACACGGCA-TGGAGGGAATC
* * * * *
16314 TGTGACATGTCAGTGTTCAAAGTTTGACAC-GTCATGGAGGAAATTTGTGACATGCCAGGGTTTA
1 TGTGACACGTCAGAGTTCAAAGTTTGACACAGCCATGGAGGAAATCTGTGACATGCCAGTGTTTA
16378 GAGTTTG
66 GAGTTTG
16385 ACACGCCAGC
Statistics
Matches: 217, Mismatches: 33, Indels: 12
0.83 0.13 0.05
Matches are distributed among these distances:
91 2 0.01
92 192 0.88
93 4 0.02
94 19 0.09
ACGTcount: A:0.28, C:0.16, G:0.30, T:0.26
Consensus pattern (93 bp):
TGTGACACGTCAGAGTTCAAAGTTTGACACAGCCATGGAGGAAATCTGTGACATGCCAGTGTTTA
GAGTTTGTGACACGGCATGGAGGGAATC
Found at i:16381 original size:137 final size:137
Alignment explanation
Indices: 16052--16392 Score: 368
Period size: 137 Copynumber: 2.5 Consensus size: 137
16042 ACGGCAGGGC
* * * * *
16052 TCAAAGTTTGTGACAC-AACATGGAGGAAATCTATGACACTCTAGAGTTCAGAGTTTGTGACACG
1 TCAAAGTTTGTGACACGGA-ATGGAGGAAATTTGTGACACGCCAGAGTTCAGAG-TT-TGACACG
* * * *
16116 GCATGGAGGGAATCTGTGACACGCCAGAGTTCAAAGTTTGACACAGCATGGAGGGAATCTGTGAC
63 CCATGGAGGGAATCTGTCACACACCAGAGTTCAAAGTTTGACACAGCAAGGAGGGAATCTGTGAC
16181 ATGCTAGTGT
128 ATGCTAGTGT
* * * * *
16191 TTAGAGTTTGTGACACGGAATGGAGGGAATTTGTGACACGTCAGAGTTCAGAGTTTGACATGCCA
1 TCAAAGTTTGTGACACGGAATGGAGGAAATTTGTGACACGCCAGAGTTCAGAGTTTGACACGCCA
* * * **
16256 TGGAGGGAATTTGTCACACACCAGTGTTTAAAGTTTGTGACATGCCACAGG-GGGAATCTGTGAC
66 TGGAGGGAATCTGTCACACACCAGAGTTCAAAGTTTGACACA-G-CA-AGGAGGGAATCTGTGAC
16320 ATG-TCAGTGT
128 ATGCT-AGTGT
** * * *
16330 TCAAAG-TT-TGACACGTCATGGAGGAAATTTGTGACATGCCAGGGTTTAGAGTTTGACACGCCA
1 TCAAAGTTTGTGACACGGAATGGAGGAAATTTGTGACACGCCAGAGTTCAGAGTTTGACACGCCA
16393 GCATTCAAGG
Statistics
Matches: 168, Mismatches: 29, Indels: 12
0.80 0.14 0.06
Matches are distributed among these distances:
137 90 0.54
138 6 0.04
139 69 0.41
140 3 0.02
ACGTcount: A:0.28, C:0.16, G:0.29, T:0.26
Consensus pattern (137 bp):
TCAAAGTTTGTGACACGGAATGGAGGAAATTTGTGACACGCCAGAGTTCAGAGTTTGACACGCCA
TGGAGGGAATCTGTCACACACCAGAGTTCAAAGTTTGACACAGCAAGGAGGGAATCTGTGACATG
CTAGTGT
Found at i:16389 original size:45 final size:45
Alignment explanation
Indices: 16036--16392 Score: 259
Period size: 47 Copynumber: 7.8 Consensus size: 45
16026 GTGACAGGGT
* * * ** *
16036 TGTGACACGGCAGGGCTCAAAGTTTGTGACACAACATGGAGGAAATC
1 TGTGACACGCCAGTGTTCAAAG-TT-TGACACGCCATGGAGGGAATC
* * * * * *
16083 TATGACACTCTAGAGTTCAGAGTTTGTGACACGGCATGGAGGGAATC
1 TGTGACACGCCAGTGTTCAAAG-TT-TGACACGCCATGGAGGGAATC
*
16130 TGTGACACGCCAGAGTTCAAAGTTTGACACAG-CATGGAGGGAATC
1 TGTGACACGCCAGTGTTCAAAGTTTGACAC-GCCATGGAGGGAATC
* * * * ** *
16175 TGTGACATGCTAGTGTTTAGAGTTTGTGACACGGAATGGAGGGAATT
1 TGTGACACGCCAGTGTTCAAAG-TT-TGACACGCCATGGAGGGAATC
* * * * *
16222 TGTGACACGTCAGAGTTCAGAGTTTGACATGCCATGGAGGGAATT
1 TGTGACACGCCAGTGTTCAAAGTTTGACACGCCATGGAGGGAATC
* * * * *
16267 TGTCACACACCAGTGTTTAAAGTTTGTGACATGCCACAGG-GGGAATC
1 TGTGACACGCCAGTGTTCAAAG-TT-TGACACGCCA-TGGAGGGAATC
* * * * *
16314 TGTGACATGTCAGTGTTCAAAGTTTGACACGTCATGGAGGAAATT
1 TGTGACACGCCAGTGTTCAAAGTTTGACACGCCATGGAGGGAATC
* * * *
16359 TGTGACATGCCAGGGTTTAGAGTTTGACACGCCA
1 TGTGACACGCCAGTGTTCAAAGTTTGACACGCCA
16393 GCATTCAAGG
Statistics
Matches: 250, Mismatches: 52, Indels: 18
0.78 0.16 0.06
Matches are distributed among these distances:
44 2 0.01
45 112 0.45
46 12 0.05
47 122 0.49
48 2 0.01
ACGTcount: A:0.28, C:0.17, G:0.29, T:0.26
Consensus pattern (45 bp):
TGTGACACGCCAGTGTTCAAAGTTTGACACGCCATGGAGGGAATC
Found at i:17085 original size:172 final size:174
Alignment explanation
Indices: 16592--17769 Score: 748
Period size: 169 Copynumber: 6.9 Consensus size: 174
16582 TCTCATTTTA
* * * *
16592 AATTAATTTTAAATT-AAATTTTTTTACATATTTTG-TTAAAACAGACTATAATTGAATGTCCAC
1 AATTGATTTTAAGTTGAATTTTTTTTACAT-TTTTGATTAAAACAGACTATAATTGAATGTCTAC
* * ** *
16655 CCTAAGAAAT-ATGAA-ATAAAAGGCATTCA-TGGGCAAGAAAAGTCCATTTATAGTCACCCATT
65 CTTAAGAAATGATGAAGA-AAAAAGCATTCATTGATCAAGAAAAGTCCATTTATAGTCACCTATT
* * *
16717 CCTTCAAAAGCCTTATTACTCACTTTAAATGGTTTTATAATCTCAT
129 CCTTCAAAAACCTTATTACTCGCTTTAAATGATTTTATAATCTCAT
* * * * ** * **
16763 AATTTATTTTAAGTTTAA--TTTTTTACA-TTTTCAATAAAACTTATTATAATTGAATG-CTTGG
1 AATTGATTTTAAGTTGAATTTTTTTTACATTTTTGATTAAAACAGACTATAATTGAATGTC-TAC
* * * * * ** *
16824 C-TAGGGAAATG-TGCACAAAAAA-CTATTCATTGA-GAAGAAATGTGTATTTACAGTCACCTAT
65 CTTA-AGAAATGATGAAGAAAAAAGC-ATTCATTGATCAAGAAAAGTCCATTTATAGTCACCTAT
*
16885 TCTTTCAAAAACCTTATTACTCGCTTTAAATGATTTTATAATCTCAT
128 TCCTTCAAAAACCTTATTACTCGCTTTAAATGATTTTATAATCTCAT
*
16932 AATTGATTTTAAGTTGAATTTTTTTTACATTTTTGATTAAAACAGACAATAATTGAATG-CTTAC
1 AATTGATTTTAAGTTGAATTTTTTTTACATTTTTGATTAAAACAGACTATAATTGAATGTC-TAC
* *
16996 CTTGAGAAATGA-GAAGAAAAAAGCATTCATT-ATCAAGAAAAGTCCATTTATAGTCTTCC-ATT
65 CTTAAGAAATGATGAAGAAAAAAGCATTCATTGATCAAGAAAAGTCCATTTATAGTC-ACCTATT
* * * *
17058 CCTTTAAAAACCTTACTGCTCGCTTTAAATAATTTTATAATCTCAT
129 CCTTCAAAAACCTTATTACTCGCTTTAAATGATTTTATAATCTCAT
* *
17104 AATTGATTTTAAGTTGAATTTGTTTTTACATTTTT-AGTTAAAACAAATTATAATTGAATGTCTA
1 AATTGATTTTAAGTTGAATTT-TTTTTACATTTTTGA-TTAAAACAGACTATAATTGAATGTCTA
* * * * * *
17168 GCTTAAGAAA-CATGAAGAAAAAAGGAGTCATTGGT-AAGAAAAGTCCATTTTTAGTCACCTATT
64 CCTTAAGAAATGATGAAGAAAAAAGCATTCATTGATCAAGAAAAGTCCATTTATAGTCACCTATT
** * * * *
17231 CCTTCAAAAGGCTCATTACTCTCTTTCAAT-AGTTTTATGATCTCAT
129 CCTTCAAAAACCTTATTACTCGCTTTAAATGA-TTTTATAATCTCAT
* ********** * *
17277 AATTGATTTTAAATTGAA-TTTTTTTACANNNNNNNNNNAAATAGACTATAATTGAATG-CTTGC
1 AATTGATTTTAAGTTGAATTTTTTTTACATTTTTGATTAAAACAGACTATAATTGAATGTC-TAC
* * * * * * * *
17340 CTTAGGAAA-CATGTAG-AAAAAGTTATTCATTGA-GAAGAAAAGTCCATTTACATTCACCCATT
65 CTTAAGAAATGATGAAGAAAAAAG-CATTCATTGATCAAGAAAAGTCCATTTATAGTCACCTATT
* * * * * **********
17402 TCTTTAAAAGCCTTATTACTCCCTTTAAATGGTTNNNNNNNNNNAT
129 CCTTCAAAAACCTTATTACTCGCTTTAAATGATTTTATAATCTCAT
* * * * *
17448 AATTGATTTTAAGTTGAA-TTTTTTGACA-TTTT-ACTTAAAACAGACAATAATTAAATATCTAG
1 AATTGATTTTAAGTTGAATTTTTTTTACATTTTTGA-TTAAAACAGACTATAATTGAATGTCTAC
* * ********* * *
17510 CTTGAGAAA-CATGAAGANNNNNNNNNNT-ATTGGT-AAGAAAAGTCCATTTATAGTCTCCTATT
65 CTTAAGAAATGATGAAGA-AAAAAGCATTCATTGATCAAGAAAAGTCCATTTATAGTCACCTATT
* ** *
17572 CCTGT-AAAAGCCTTATTGTTCGCTTTAAAT-AGTTTTATAATCTCGT
129 CCT-TCAAAAACCTTATTACTCGCTTTAAATGA-TTTTATAATCTCAT
* * * * * * * *
17618 AGTTGATTTTAAGTT-AA-ATCTCTTACA-TTTTGGTTAAAACAGA-TAATAATTAAATGTTTAA
1 AATTGATTTTAAGTTGAATTTTTTTTACATTTTTGATTAAAACAGACT-ATAATTGAATGTCTAC
* * * * * * * * *
17679 CTTGAGAAA-CATGAAGAAACAAG-ATTTAATTG-GCAAAAAAAGT-AATTTATAGTCTCTTATT
65 CTTAAGAAATGATGAAGAAAAAAGCA-TTCATTGATCAAGAAAAGTCCATTTATAGTCACCTATT
* *
17740 CCTTCAAAAGCCTTATTACTCACTTTAAAT
129 CCTTCAAAAACCTTATTACTCGCTTTAAAT
17770 AGTTTTANNN
Statistics
Matches: 782, Mismatches: 184, Indels: 85
0.74 0.18 0.08
Matches are distributed among these distances:
167 1 0.00
168 50 0.06
169 182 0.23
170 118 0.15
171 151 0.19
172 139 0.18
173 139 0.18
174 2 0.00
ACGTcount: A:0.36, C:0.13, G:0.11, T:0.37
Consensus pattern (174 bp):
AATTGATTTTAAGTTGAATTTTTTTTACATTTTTGATTAAAACAGACTATAATTGAATGTCTACC
TTAAGAAATGATGAAGAAAAAAGCATTCATTGATCAAGAAAAGTCCATTTATAGTCACCTATTCC
TTCAAAAACCTTATTACTCGCTTTAAATGATTTTATAATCTCAT
Found at i:17115 original size:341 final size:344
Alignment explanation
Indices: 16592--17301 Score: 832
Period size: 341 Copynumber: 2.1 Consensus size: 344
16582 TCTCATTTTA
* * *
16592 AATTAATTTTAAATT-AAATTTTTTTACATATTTTGTTAAAACAGACTATAATTGAATGTCCACC
1 AATTGATTTTAAATTGAATTTTTTTTACATATTTTGTTAAAACAGACAATAATTGAATGTCCACC
* *
16656 CTAAGAAATATGAAATAAAAGGCATTCATGGGCAAGAAAAGTCCATTTATAGTCACCCATTCCTT
66 CTAAGAAATATGAAATAAAAAGCATTCATGAGCAAGAAAAGTCCATTTATAGTCACCCATTCCTT
* * ** * *
16721 CAAAAGCCTTATTACTCACTTTAAATGGTTTTATAATCTCATAATTTATTTTAAGTTTAA-T-TT
131 CAAAAACCTTACTACTCACTTTAAATAATTTTATAATCTCATAATTGATTTTAAGTTGAATTGTT
** * * ** *
16784 TTTACATTTTCA-ATAAAACTTATTATAATTGAATG-CTTGGC-TAGGGAAATGTGCACAAAAAA
196 TTTACATTTTCAGATAAAACAAATTATAATTGAATGTC-TAGCTTA-AGAAACATGAACAAAAAA
* * * ** * *
16846 CTATTCATTGAG-AAGAAATGTGTATTTACAGTCACCTATTCTTTCAAAAACCTTATTACTCGCT
259 CGAGTCATTG-GTAAGAAAAGTCCATTTACAGTCACCTATTCCTTCAAAAACCTCATTACTCGCT
16910 TTAAAT-GATTTTATAATCTCAT
323 TTAAATAG-TTTTATAATCTCAT
* *
16932 AATTGATTTTAAGTTGAATTTTTTTTACAT-TTTTGATTAAAACAGACAATAATTGAATG-CTTA
1 AATTGATTTTAAATTGAATTTTTTTTACATATTTTG-TTAAAACAGACAATAATTGAATGTC-CA
* * * * **
16995 CCTTGAGAAATGA-GAAGA-AAAAAGCATTCATTATCAAGAAAAGTCCATTTATAGTCTTCCATT
64 CCCTAAGAAAT-ATGAA-ATAAAAAGCATTCATGAGCAAGAAAAGTCCATTTATAGTCACCCATT
* * *
17058 CCTTTAAAAACCTTACTGCTCGCTTTAAATAATTTTATAATCTCATAATTGATTTTAAGTTGAAT
127 CCTTCAAAAACCTTACTACTCACTTTAAATAATTTTATAATCTCATAATTGATTTTAAGTTGAA-
* * *
17123 TTGTTTTTACATTTTTAGTTAAAACAAATTATAATTGAATGTCTAGCTTAAGAAACATGAAGAAA
191 TTGTTTTTACATTTTCAGATAAAACAAATTATAATTGAATGTCTAGCTTAAGAAACATGAACAAA
* ** ** *
17188 AAAGGAGTCATTGGTAAGAAAAGTCCATTTTTAGTCACCTATTCCTTCAAAAGGCTCATTACTCT
256 AAACGAGTCATTGGTAAGAAAAGTCCATTTACAGTCACCTATTCCTTCAAAAACCTCATTACTCG
* *
17253 CTTTCAATAGTTTTATGATCTCAT
321 CTTTAAATAGTTTTATAATCTCAT
17277 AATTGATTTTAAATTGAATTTTTTT
1 AATTGATTTTAAATTGAATTTTTTT
17302 ACANNNNNNN
Statistics
Matches: 309, Mismatches: 48, Indels: 21
0.82 0.13 0.06
Matches are distributed among these distances:
340 19 0.06
341 142 0.46
342 2 0.01
343 1 0.00
344 14 0.05
345 127 0.41
346 4 0.01
ACGTcount: A:0.36, C:0.13, G:0.11, T:0.39
Consensus pattern (344 bp):
AATTGATTTTAAATTGAATTTTTTTTACATATTTTGTTAAAACAGACAATAATTGAATGTCCACC
CTAAGAAATATGAAATAAAAAGCATTCATGAGCAAGAAAAGTCCATTTATAGTCACCCATTCCTT
CAAAAACCTTACTACTCACTTTAAATAATTTTATAATCTCATAATTGATTTTAAGTTGAATTGTT
TTTACATTTTCAGATAAAACAAATTATAATTGAATGTCTAGCTTAAGAAACATGAACAAAAAACG
AGTCATTGGTAAGAAAAGTCCATTTACAGTCACCTATTCCTTCAAAAACCTCATTACTCGCTTTA
AATAGTTTTATAATCTCAT
Found at i:19496 original size:170 final size:170
Alignment explanation
Indices: 18951--19682 Score: 568
Period size: 170 Copynumber: 4.3 Consensus size: 170
18941 NNNNNNNNNN
* * *
18951 AAATGGTTTTATAATCTCATAATTGATTTTAAGTTGAAA-TGTTTTACATTTTTCATTAAAACAG
1 AAATGATTTTATAATCTCATAATTGATTTTAAGTT-AAATTTTTTTACATTTTTAATT-AAACAG
* * * * **
19015 ACTATAATTGAATGAT-TGCC-TCAGGAAATGTGTAGAAAAATCCATTCA-TTGATAAGAAAAGT
64 ACTATAATTGAATG-TCTACCTTGA-GAAATATGAAGAAAAAAGCATTCATTTGA-AAGAAAAGT
* * *********** *
19077 CCATTTATAGTCTCTCNNNNNNNNNNNAGCCTTATTACTCGCTTT
126 CCATTTATAGTCACCCATTCCTTCAAAAGCCTTATTACTCACTTT
* *
19122 AAATG-TTTTATAATCTCATAATTGATTTTAAGTT-GATTTTTTTACATTTTTAGTTAAACCAGA
1 AAATGATTTTATAATCTCATAATTGATTTTAAGTTAAATTTTTTTACATTTTTAATTAAA-CAGA
* * * * * * * *
19185 CTATAATTGAATG-CTTATCTCGAGAAGTAAGACGAAAAAAGCATTCATTGGCAAG-AAAGTCTA
65 CTATAATTGAATGTC-TACCTTGAGAAATATGAAGAAAAAAGCATTCATTTGAAAGAAAAGTCCA
** *
19248 TTTATAGTTGCCCATTCCTTCAAAAGGCTTATTACTCACTTT
129 TTTATAGTCACCCATTCCTTCAAAAGCCTTATTACTCACTTT
* * **********
19290 CAATGGTTTTATAATCTCATNNNNNNNNNNAAGTTAAATTTTTTTACATTTTTAATTAAACAGA-
1 AAATGATTTTATAATCTCATAATTGATTTTAAGTTAAATTTTTTTACATTTTTAATTAAACAGAC
* * * * *
19354 TAATAATTGTATGTCTACCTTGAGAAATATGAAGAAAAAGGTAGTCATTTGTAAGAAAAGTCCAT
66 T-ATAATTGAATGTCTACCTTGAGAAATATGAAGAAAAAAGCATTCATTTGAAAGAAAAGTCCAT
** * *
19419 TTATAGTCACTTATTCCTTTAAAAGCCTTATTACTCATTTT
130 TTATAGTCACCCATTCCTTCAAAAGCCTTATTACTCACTTT
* * * * ********* *
19460 AATTGATTTTTTAATCTCAAAATTGATTTTAAGTTAAATTTTTTTATANNNNNNNNNNAAATAGA
1 AAATGATTTTATAATCTCATAATTGATTTTAAGTTAAATTTTTTTACA-TTTTTAATTAAACAGA
* * * *
19525 CTATAATTAAATGTCTACCTCT-AGAAACATGAAG-AAAATGCATTCATTTGAAAGACAAGTCCA
65 CTATAATTGAATGTCTACCT-TGAGAAATATGAAGAAAAAAGCATTCATTTGAAAGAAAAGTCCA
* *
19588 TTTATAGTCTCCCATTCCTTCAAAAGCTTTATTACTCACTTT
129 TTTATAGTCACCCATTCCTTCAAAAGCCTTATTACTCACTTT
* * * *
19630 AAATGATTTTATAATTTCATAATTAATTTTAAGTTGAATTGTTTTACATTTTT
1 AAATGATTTTATAATCTCATAATTGATTTTAAGTTAAATTTTTTTACATTTTT
19683 GGTCAAAATA
Statistics
Matches: 428, Mismatches: 119, Indels: 30
0.74 0.21 0.05
Matches are distributed among these distances:
168 42 0.10
169 117 0.27
170 229 0.54
171 38 0.09
172 2 0.00
ACGTcount: A:0.34, C:0.12, G:0.11, T:0.39
Consensus pattern (170 bp):
AAATGATTTTATAATCTCATAATTGATTTTAAGTTAAATTTTTTTACATTTTTAATTAAACAGAC
TATAATTGAATGTCTACCTTGAGAAATATGAAGAAAAAAGCATTCATTTGAAAGAAAAGTCCATT
TATAGTCACCCATTCCTTCAAAAGCCTTATTACTCACTTT
Found at i:20704 original size:172 final size:162
Alignment explanation
Indices: 20456--20795 Score: 327
Period size: 172 Copynumber: 2.0 Consensus size: 162
20446 TTTTTTTTAA
*
20456 TTTTTTACTTAAAACAGAATATAATTGAATGTCTACAATAAGAAATGTGTAAAAAAACCTATTTA
1 TTTTTTA-TTAAAACAGAATATAATTGAATGTCTACAATAAGAAACGTGTAAAAAAACCTATTTA
20521 TTTAGAAGAAAAG-TCTATTTATAGGCTCTCATTCCTTCAAAAG-CTTTATTACT-AGCCTTAAA
65 TTTAGAAGAAAAGTTC-ATTTATAGGCTCTCATTCCTTCAAAAGTC-TTATTACTCA-CCTTAAA
* * *
20583 TGATTTTATAATCTCATAATTG-TATTTAAGTTGAAT
127 TGATTTCAAAATCTCAGAATTGAT-TTTAAGTTGAAT
* * *
20619 TTTTTTNNNNNNNNNNATTAAAACAGACTATAATTGAATG-CTTAC-CTCAAGAAACGTGTATAA
1 TTTTTT----------ATTAAAACAGAATATAATTGAATGTC-TACAAT-AAGAAACGTGTAAAA
* * * *
20682 AAA-GTCATTTA-TTGGCAAGAAAAGTTCATTTATAGTCTCTCATTCCTTCAAAAGTCTTGTTAC
54 AAACCT-ATTTATTTAG-AAGAAAAGTTCATTTATAGGCTCTCATTCCTTCAAAAGTCTTATTAC
* * *
20745 TCACTTTAAATGGTTTCAAAATTTCAGAATTGATTTTAAGTTGAAT
117 TCACCTTAAATGATTTCAAAATCTCAGAATTGATTTTAAGTTGAAT
20791 TTTTT
1 TTTTT
20796 ACANNNNNNN
Statistics
Matches: 145, Mismatches: 14, Indels: 27
0.78 0.08 0.15
Matches are distributed among these distances:
163 6 0.04
171 6 0.04
172 127 0.88
173 6 0.04
ACGTcount: A:0.35, C:0.12, G:0.11, T:0.39
Consensus pattern (162 bp):
TTTTTTATTAAAACAGAATATAATTGAATGTCTACAATAAGAAACGTGTAAAAAAACCTATTTAT
TTAGAAGAAAAGTTCATTTATAGGCTCTCATTCCTTCAAAAGTCTTATTACTCACCTTAAATGAT
TTCAAAATCTCAGAATTGATTTTAAGTTGAAT
Found at i:23305 original size:23 final size:23
Alignment explanation
Indices: 23279--23355 Score: 61
Period size: 23 Copynumber: 3.3 Consensus size: 23
23269 TCAGATTTTG
23279 GTGACACATCATGGAGGGAATCT
1 GTGACACATCATGGAGGGAATCT
* * * *
23302 GTGACAC-TC-TAGAGTTTAGAGTTT
1 GTGACACATCATGGAG---GGAATCT
23326 GTGACACGA-CATGGAGGGAATCT
1 GTGACAC-ATCATGGAGGGAATCT
23349 GTGACAC
1 GTGACAC
23356 GTCAGAGTTC
Statistics
Matches: 40, Mismatches: 8, Indels: 12
0.67 0.13 0.20
Matches are distributed among these distances:
21 4 0.10
22 2 0.05
23 18 0.45
24 11 0.28
25 1 0.03
26 4 0.10
ACGTcount: A:0.29, C:0.17, G:0.30, T:0.25
Consensus pattern (23 bp):
GTGACACATCATGGAGGGAATCT
Found at i:23348 original size:47 final size:46
Alignment explanation
Indices: 23252--23423 Score: 163
Period size: 47 Copynumber: 3.7 Consensus size: 46
23242 TGTGACAGGG
* * * *
23252 CTGTCACACGGCAGGGTTCAGATTTTGGTGACAC-ATCATGGAGGGAAT
1 CTGTGACACGTCAGAGTTCAGA-GTT-GTGACACGA-CATGGAGGGAAT
*
23300 CTGTGACAC-TCTAGAGTTTAGAGTTTGTGACACGACATGGAGGGAAT
1 CTGTGACACGTC-AGAGTTCAGAG-TTGTGACACGACATGGAGGGAAT
* * *
23347 CTGTGACACGTCAGAGTTCAGAGTT-TGACAGGGCATGGATGGAAT
1 CTGTGACACGTCAGAGTTCAGAGTTGTGACACGACATGGAGGGAAT
* *
23392 CTCTGACACGACAGTA-TTCAGAGTTTGTGACA
1 CTGTGACACGTCAG-AGTTCAGAG-TTGTGACA
23424 TGCCATTGTT
Statistics
Matches: 106, Mismatches: 11, Indels: 15
0.80 0.08 0.11
Matches are distributed among these distances:
45 36 0.34
46 5 0.05
47 44 0.42
48 21 0.20
ACGTcount: A:0.27, C:0.17, G:0.30, T:0.26
Consensus pattern (46 bp):
CTGTGACACGTCAGAGTTCAGAGTTGTGACACGACATGGAGGGAAT
Found at i:23391 original size:45 final size:45
Alignment explanation
Indices: 23280--23418 Score: 158
Period size: 45 Copynumber: 3.0 Consensus size: 45
23270 CAGATTTTGG
*
23280 TGACAC-ATCATGGAGGGAATCTGTGACAC-TCTAGAGTTTAGAGTTT
1 TGACACGA-CATGGAGGGAATCTGTGACACGTC-AGAGTTCAGAG-TT
23326 GTGACACGACATGGAGGGAATCTGTGACACGTCAGAGTTCAGAGTT
1 -TGACACGACATGGAGGGAATCTGTGACACGTCAGAGTTCAGAGTT
* * * * *
23372 TGACAGGGCATGGATGGAATCTCTGACACGACAGTA-TTCAGAGTT
1 TGACACGACATGGAGGGAATCTGTGACACGTCAG-AGTTCAGAGTT
23417 TG
1 TG
23419 TGACATGCCA
Statistics
Matches: 83, Mismatches: 6, Indels: 8
0.86 0.06 0.08
Matches are distributed among these distances:
45 40 0.48
46 3 0.04
47 37 0.45
48 3 0.04
ACGTcount: A:0.28, C:0.17, G:0.29, T:0.26
Consensus pattern (45 bp):
TGACACGACATGGAGGGAATCTGTGACACGTCAGAGTTCAGAGTT
Found at i:23507 original size:45 final size:46
Alignment explanation
Indices: 23417--23517 Score: 141
Period size: 45 Copynumber: 2.2 Consensus size: 46
23407 ATTCAGAGTT
**
23417 TGTGACATGCCATTGTTCAGAGTTGGTGACACGACATGGAGGGAATC
1 TGTGACATGCCAGAGTTCAGAGTT-GTGACACGACATGGAGGGAATC
* *
23464 TGTGACATGCCAGAGTTCAGAGTT-TGACACGGCATGGATGGAATC
1 TGTGACATGCCAGAGTTCAGAGTTGTGACACGACATGGAGGGAATC
*
23509 TATGACATG
1 TGTGACATG
23518 GCAGGGTNNN
Statistics
Matches: 49, Mismatches: 5, Indels: 2
0.88 0.09 0.04
Matches are distributed among these distances:
45 27 0.55
47 22 0.45
ACGTcount: A:0.27, C:0.17, G:0.31, T:0.26
Consensus pattern (46 bp):
TGTGACATGCCAGAGTTCAGAGTTGTGACACGACATGGAGGGAATC
Found at i:24470 original size:23 final size:23
Alignment explanation
Indices: 24442--24518 Score: 86
Period size: 23 Copynumber: 3.3 Consensus size: 23
24432 TCAGAGTTTG
24442 GTGACACGCCATGGAGAGAATCT
1 GTGACACGCCATGGAGAGAATCT
* * *
24465 GTGACACTCCA--GAGTTCAGAGTTT
1 GTGACACGCCATGGAG---AGAATCT
24489 GTGACACGCCATGGAGAGAATCT
1 GTGACACGCCATGGAGAGAATCT
24512 GTGACAC
1 GTGACAC
24519 TTCAGAGTTC
Statistics
Matches: 43, Mismatches: 6, Indels: 10
0.73 0.10 0.17
Matches are distributed among these distances:
21 3 0.07
23 22 0.51
24 15 0.35
26 3 0.07
ACGTcount: A:0.29, C:0.22, G:0.29, T:0.21
Consensus pattern (23 bp):
GTGACACGCCATGGAGAGAATCT
Found at i:24494 original size:24 final size:24
Alignment explanation
Indices: 24464--24541 Score: 72
Period size: 24 Copynumber: 3.3 Consensus size: 24
24454 GGAGAGAATC
24464 TGTGACACTCCAGAGTTCAGAGTT
1 TGTGACACTCCAGAGTTCAGAGTT
* * *
24488 TGTGACACGCCATGGAG---AGAATC
1 TGTGACACTCCA--GAGTTCAGAGTT
* *
24511 TGTGACACTTCAGAGTTCATAGTT
1 TGTGACACTCCAGAGTTCAGAGTT
24535 TGTGACA
1 TGTGACA
24542 TGGCATGGAG
Statistics
Matches: 41, Mismatches: 8, Indels: 10
0.69 0.14 0.17
Matches are distributed among these distances:
21 3 0.07
23 14 0.34
24 21 0.51
26 3 0.07
ACGTcount: A:0.27, C:0.19, G:0.26, T:0.28
Consensus pattern (24 bp):
TGTGACACTCCAGAGTTCAGAGTT
Found at i:24507 original size:47 final size:47
Alignment explanation
Indices: 24430--25001 Score: 479
Period size: 47 Copynumber: 12.3 Consensus size: 47
24420 ACACTACGAG
* *
24430 GTTCAGAGTTTGGTGACACGCCATGGAGAGAATCTGTGACACTCCAGA
1 GTTCAGAGTTT-GTGACACGCCATGGAGGGAATCTGTGACACGCCAGA
* **
24478 GTTCAGAGTTTGTGACACGCCATGGAGAGAATCTGTGACACTTCAGA
1 GTTCAGAGTTTGTGACACGCCATGGAGGGAATCTGTGACACGCCAGA
* * * * * *
24525 GTTCATAGTTTGTGACATGGCATGGAGGGAATCTATGGCACGCCAAA
1 GTTCAGAGTTTGTGACACGCCATGGAGGGAATCTGTGACACGCCAGA
* * * * * * *
24572 GTTCAGAG-TT-TGAGACGACATGGATGAAATCTTTGACATGACAGTA
1 GTTCAGAGTTTGTGACACGCCATGGAGGGAATCTGTGACACGCCAG-A
* * * * ** *
24618 -TTTAGAGTTTGTGACACACCATGGAGGGAATTTGTGACATGATAGG
1 GTTCAGAGTTTGTGACACGCCATGGAGGGAATCTGTGACACGCCAGA
24664 GTTCA-AGGTTTGTGACACGCCATGGAGGGAATCTGTGACACGCCAGA
1 GTTCAGA-GTTTGTGACACGCCATGGAGGGAATCTGTGACACGCCAGA
* * * * * *
24711 GTTCAGAG-TT-TGACACGGCATAGATGGAATCTATGACACGACAGG
1 GTTCAGAGTTTGTGACACGCCATGGAGGGAATCTGTGACACGCCAGA
* * *
24756 GTTCATG-GTATGTGACACACCATGGAGGGAATCTGTGACACGCCAGT
1 GTTCA-GAGTTTGTGACACGCCATGGAGGGAATCTGTGACACGCCAGA
* ** *
24803 GTTCAGAGTTGGTGACAC-AAACT--TGGGAATCTGTGACACGCCAGA
1 GTTCAGAGTTTGTGACACGCCA-TGGAGGGAATCTGTGACACGCCAGA
* * * * * **
24848 GTTTAGAG-TT-TGACATAG-CATGGATGGAATTTGTGACATGGTAGTA
1 GTTCAGAGTTTGTGACA-CGCCATGGAGGGAATCTGTGACACGCCAG-A
* * * * *
24894 -TTCAGAGTTTGTGGCACGCCATGGAGGGAATGTCTGACACGACAGG
1 GTTCAGAGTTTGTGACACGCCATGGAGGGAATCTGTGACACGCCAGA
* * * *
24940 GTTCAGGGTTTGTGACACGCCATGGAGGGAATCTGTGAGACGCTAGT
1 GTTCAGAGTTTGTGACACGCCATGGAGGGAATCTGTGACACGCCAGA
* *
24987 GTTTAGAGTTGGTGA
1 GTTCAGAGTTTGTGA
25002 TATGACAGCG
Statistics
Matches: 415, Mismatches: 89, Indels: 41
0.76 0.16 0.08
Matches are distributed among these distances:
43 6 0.01
44 2 0.00
45 113 0.27
46 16 0.04
47 266 0.64
48 12 0.03
ACGTcount: A:0.27, C:0.17, G:0.31, T:0.26
Consensus pattern (47 bp):
GTTCAGAGTTTGTGACACGCCATGGAGGGAATCTGTGACACGCCAGA
Found at i:24626 original size:139 final size:139
Alignment explanation
Indices: 24479--24996 Score: 548
Period size: 139 Copynumber: 3.7 Consensus size: 139
24469 CACTCCAGAG
* * * * * *
24479 TTCAGAGTTTGTGACACGCCATGGAGAGAATCTGTGACACTTCAGAGTTCATAGTTTGTGACATG
1 TTCAGAGTTTGTGACACACCATGGAGGGAATCTGTGACACGTCAGGGTTCAGAGTTTGTGACACG
* * * * * *
24544 GCATGGAGGGAATCTATGGCACGCCAAAGTTCAGAGTTTGAGACGACATGGATGAAATCTTTGAC
66 CCATGGAGGGAATCTGTGACACGCCAGAGTTCAGAGTTTGACACGACATGGATGGAATCTTTGAC
24609 ATGACAGTA
131 ATGACAGTA
* * *
24618 TTTAGAGTTTGTGACACACCATGGAGGGAATTTGTGACATGAT-AGGGTTCA-AGGTTTGTGACA
1 TTCAGAGTTTGTGACACACCATGGAGGGAATCTGTGACACG-TCAGGGTTCAGA-GTTTGTGACA
* * *
24681 CGCCATGGAGGGAATCTGTGACACGCCAGAGTTCAGAGTTTGACACGGCATAGATGGAATCTATG
64 CGCCATGGAGGGAATCTGTGACACGCCAGAGTTCAGAGTTTGACACGACATGGATGGAATCTTTG
* **
24746 ACACGACAGGG
129 ACATGACAGTA
* * * *
24757 TTCATG-GTATGTGACACACCATGGAGGGAATCTGTGACACGCCAGTGTTCAGAGTTGGTGACAC
1 TTCA-GAGTTTGTGACACACCATGGAGGGAATCTGTGACACGTCAGGGTTCAGAGTTTGTGACAC
** * * *
24821 -AAACT--TGGGAATCTGTGACACGCCAGAGTTTAGAGTTTGACA-TAGCATGGATGGAAT-TTG
65 GCCA-TGGAGGGAATCTGTGACACGCCAGAGTTCAGAGTTTGACACGA-CATGGATGGAATCTT-
**
24881 TGACATGGTAGTA
127 TGACATGACAGTA
* * * * * *
24894 TTCAGAGTTTGTGGCACGCCATGGAGGGAATGTCTGACACGACAGGGTTCAGGGTTTGTGACACG
1 TTCAGAGTTTGTGACACACCATGGAGGGAATCTGTGACACGTCAGGGTTCAGAGTTTGTGACACG
* * * *
24959 CCATGGAGGGAATCTGTGAGACGCTAGTGTTTAGAGTT
66 CCATGGAGGGAATCTGTGACACGCCAGAGTTCAGAGTT
24997 GGTGATATGA
Statistics
Matches: 312, Mismatches: 55, Indels: 24
0.80 0.14 0.06
Matches are distributed among these distances:
136 2 0.01
137 108 0.35
138 3 0.01
139 196 0.63
140 3 0.01
ACGTcount: A:0.27, C:0.16, G:0.30, T:0.26
Consensus pattern (139 bp):
TTCAGAGTTTGTGACACACCATGGAGGGAATCTGTGACACGTCAGGGTTCAGAGTTTGTGACACG
CCATGGAGGGAATCTGTGACACGCCAGAGTTCAGAGTTTGACACGACATGGATGGAATCTTTGAC
ATGACAGTA
Found at i:24641 original size:92 final size:94
Alignment explanation
Indices: 24418--24977 Score: 359
Period size: 92 Copynumber: 6.0 Consensus size: 94
24408 GACAGGGCTA
* * * *
24418 TGACACTAC-GAGGTTCAGAGTTTGGTGACACGCCATGGAGAGAATCTGTGACACTCCAGAGTTC
1 TGACACTACAGA-GTTCAGAGTTT-GTGACACGCCATGGAGGGAATCTATGACACGCCAAAGTTC
*
24482 AGAGTTTGTGACACGCCATGGAGAGAATCTG
64 AGAGTTTGTGACACGACATGGAGAGAATCTG
* * * * *
24513 TGACACTTCAGAGTTCATAGTTTGTGACATGGCATGGAGGGAATCTATGGCACGCCAAAGTTCAG
1 TGACACTACAGAGTTCAGAGTTTGTGACACGCCATGGAGGGAATCTATGACACGCCAAAGTTCAG
* *
24578 AG-TT-TGAGACGACATGGATGA-AATCTT
66 AGTTTGTGACACGACATGGA-GAGAATCTG
* * * * * ** **
24605 TGACA-TGACAGTA-TTTAGAGTTTGTGACACACCATGGAGGGAATTTGTGACATGATAGGGTTC
1 TGACACT-ACAG-AGTTCAGAGTTTGTGACACGCCATGGAGGGAATCTATGACACGCCAAAGTTC
* *
24668 A-AGGTTTGTGACACGCCATGGAGGGAATCTG
64 AGA-GTTTGTGACACGACATGGAGAGAATCTG
** * * * * **
24699 TGACACGCCAGAGTTCAGAG-TT-TGACACGGCATAGATGGAATCTATGACACGACAGGGTTCAT
1 TGACACTACAGAGTTCAGAGTTTGTGACACGCCATGGAGGGAATCTATGACACGCCAAAGTTCA-
* *
24762 G-GTATGTGACAC-ACCATGGAGGGAATCTG
65 GAGTTTGTGACACGA-CATGGAGAGAATCTG
** * * ** * * * *
24791 TGACACGCCAGTGTTCAGAGTTGGTGACAC-AAACT--TGGGAATCTGTGACACGCCAGAGTTTA
1 TGACACTACAGAGTTCAGAGTTTGTGACACGCCA-TGGAGGGAATCTATGACACGCCAAAGTTCA
* *
24853 GAG-TT-TGACA-TAGCATGGATG-GAATTTG
65 GAGTTTGTGACACGA-CATGGA-GAGAATCTG
** * * * * **
24881 TGACA-TGGTAGTA-TTCAGAGTTTGTGGCACGCCATGGAGGGAATGTCTGACACGACAGGGTTC
1 TGACACT-ACAG-AGTTCAGAGTTTGTGACACGCCATGGAGGGAATCTATGACACGCCAAAGTTC
* * *
24944 AGGGTTTGTGACACGCCATGGAGGGAATCTG
64 AGAGTTTGTGACACGACATGGAGAGAATCTG
24975 TGA
1 TGA
24978 GACGCTAGTG
Statistics
Matches: 363, Mismatches: 74, Indels: 57
0.73 0.15 0.12
Matches are distributed among these distances:
90 41 0.11
91 6 0.02
92 185 0.51
93 16 0.04
94 95 0.26
95 18 0.05
96 2 0.01
ACGTcount: A:0.28, C:0.17, G:0.30, T:0.25
Consensus pattern (94 bp):
TGACACTACAGAGTTCAGAGTTTGTGACACGCCATGGAGGGAATCTATGACACGCCAAAGTTCAG
AGTTTGTGACACGACATGGAGAGAATCTG
Found at i:25587 original size:31 final size:31
Alignment explanation
Indices: 25552--25764 Score: 221
Period size: 31 Copynumber: 6.9 Consensus size: 31
25542 CTGCATATCA
* *
25552 TGTCACGACATTTGACTTGTTATGCATGGCC
1 TGTCACGACATTTTACTTGTTATGCATGGCG
* * *
25583 TGTCACCACATTTGACTTGTTATGCATGTCG
1 TGTCACGACATTTTACTTGTTATGCATGGCG
* * * *
25614 TGTGACCATATTTTACTTGTTATGCATGGCA
1 TGTCACGACATTTTACTTGTTATGCATGGCG
*
25645 TGTTACCG-CATTTTACTTGTTATGCATGGCG
1 TGTCA-CGACATTTTACTTGTTATGCATGGCG
* * * *
25676 TGTCATGACCTTTTACTTGTTATACATGACG
1 TGTCACGACATTTTACTTGTTATGCATGGCG
* * *
25707 TGTCACTACCTTTTACTTGTTATGCATGGCA
1 TGTCACGACATTTTACTTGTTATGCATGGCG
* * * *
25738 TGCCACTACCTTTAACTTGTTATGCAT
1 TGTCACGACATTTTACTTGTTATGCAT
25765 NNNNNNNNNN
Statistics
Matches: 156, Mismatches: 24, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
30 1 0.01
31 154 0.99
32 1 0.01
ACGTcount: A:0.20, C:0.21, G:0.18, T:0.40
Consensus pattern (31 bp):
TGTCACGACATTTTACTTGTTATGCATGGCG
Found at i:25709 original size:93 final size:93
Alignment explanation
Indices: 25560--25739 Score: 252
Period size: 93 Copynumber: 1.9 Consensus size: 93
25550 CATGTCACGA
* * * *
25560 CATTTGACTTGTTATGCATGGCCTGTCACCACATTTGACTTGTTATGCATGTCGTGTGACCATAT
1 CATTTGACTTGTTATGCATGGCCTGTCACCACATTTGACTTGTTATACATGACGTGTCACCACAT
25625 TTTACTTGTTATGCATGGCATGTTACCG
66 TTTACTTGTTATGCATGGCATGTTACCG
* * ** * * * *
25653 CATTTTACTTGTTATGCATGGCGTGTCATGACCTTTTACTTGTTATACATGACGTGTCACTACCT
1 CATTTGACTTGTTATGCATGGCCTGTCACCACATTTGACTTGTTATACATGACGTGTCACCACAT
25718 TTTACTTGTTATGCATGGCATG
66 TTTACTTGTTATGCATGGCATG
25740 CCACTACCTT
Statistics
Matches: 75, Mismatches: 12, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.19, C:0.20, G:0.19, T:0.41
Consensus pattern (93 bp):
CATTTGACTTGTTATGCATGGCCTGTCACCACATTTGACTTGTTATACATGACGTGTCACCACAT
TTTACTTGTTATGCATGGCATGTTACCG
Found at i:25756 original size:93 final size:93
Alignment explanation
Indices: 25550--25764 Score: 250
Period size: 93 Copynumber: 2.3 Consensus size: 93
25540 GTCTGCATAT
* * * * *
25550 CATGTCACGACATTTGACTTGTTATGCATGGCCTGTCACCACATTTGACTTGTTATGCATGTCGT
1 CATGCCACCACATTTAACTTGTTATGCATGGCCTGTCACCACATTTGACTTGTTATACATGACGT
* *
25615 GTGACCATATTTTACTTGTTATGCATGG
66 GTCACCACATTTTACTTGTTATGCATGG
** * * * ** * *
25643 CATGTTACCGCATTTTACTTGTTATGCATGGCGTGTCATGACCTTTTACTTGTTATACATGACGT
1 CATGCCACCACATTTAACTTGTTATGCATGGCCTGTCACCACATTTGACTTGTTATACATGACGT
* *
25708 GTCACTACCTTTTACTTGTTATGCATGG
66 GTCACCACATTTTACTTGTTATGCATGG
* *
25736 CATGCCACTACCTTTAACTTGTTATGCAT
1 CATGCCACCACATTTAACTTGTTATGCAT
25765 NNNNNNNNNN
Statistics
Matches: 101, Mismatches: 21, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
93 101 1.00
ACGTcount: A:0.20, C:0.21, G:0.18, T:0.40
Consensus pattern (93 bp):
CATGCCACCACATTTAACTTGTTATGCATGGCCTGTCACCACATTTGACTTGTTATACATGACGT
GTCACCACATTTTACTTGTTATGCATGG
Found at i:25913 original size:31 final size:31
Alignment explanation
Indices: 25873--25970 Score: 106
Period size: 31 Copynumber: 3.2 Consensus size: 31
25863 NNATGCGGTG
* * *
25873 ACACACCATGCATAATAAGTAAAATGTGGTC
1 ACACGCCATGCATAACAAGTAAAATGTCGTC
* *
25904 ACACGCCATGCATAACAAGTCAAATGTCGTG
1 ACACGCCATGCATAACAAGTAAAATGTCGTC
* * * * *
25935 ACAGGCCATGAATAACTAGTCAAATGTCGTG
1 ACACGCCATGCATAACAAGTAAAATGTCGTC
25966 ACACG
1 ACACG
25971 ATATGCAGAT
Statistics
Matches: 58, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 58 1.00
ACGTcount: A:0.38, C:0.22, G:0.19, T:0.20
Consensus pattern (31 bp):
ACACGCCATGCATAACAAGTAAAATGTCGTC
Found at i:27360 original size:23 final size:23
Alignment explanation
Indices: 27289--27365 Score: 75
Period size: 23 Copynumber: 3.3 Consensus size: 23
27279 AACTCTAGCA
*
27289 TGTCACAGATTCCCTCCATGCCG
1 TGTCACAGATTCCCTCCATGGCG
* *** *
27312 TGTCACCA-ACTCTGAACAATGGCG
1 TGTCA-CAGATTC-CCTCCATGGCG
27336 TGTCACAGATTCCCTCCATGGCG
1 TGTCACAGATTCCCTCCATGGCG
27359 TGTCACA
1 TGTCACA
27366 AGCTCTAAAT
Statistics
Matches: 40, Mismatches: 11, Indels: 6
0.70 0.19 0.11
Matches are distributed among these distances:
23 24 0.60
24 16 0.40
ACGTcount: A:0.22, C:0.34, G:0.19, T:0.25
Consensus pattern (23 bp):
TGTCACAGATTCCCTCCATGGCG
Found at i:27460 original size:47 final size:48
Alignment explanation
Indices: 27408--27515 Score: 166
Period size: 47 Copynumber: 2.3 Consensus size: 48
27398 NNNNNNNGTG
* * *
27408 TCAAACTATGAACTCTGACGTGTCACAGATTCCCTCCATG-CTGTGTCA
1 TCAAACTCTGAACTCTGAAGTGTCACAAATTCCCTCCATGAC-GTGTCA
27456 -CAAACTCTGAACTCTGAAGTGTCACAAATTCCCTCCATGACGTGTCA
1 TCAAACTCTGAACTCTGAAGTGTCACAAATTCCCTCCATGACGTGTCA
27503 TCAAACTCTGAAC
1 TCAAACTCTGAAC
27516 CCTACCGTGT
Statistics
Matches: 55, Mismatches: 3, Indels: 4
0.89 0.05 0.06
Matches are distributed among these distances:
47 42 0.76
48 13 0.24
ACGTcount: A:0.29, C:0.30, G:0.15, T:0.27
Consensus pattern (48 bp):
TCAAACTCTGAACTCTGAAGTGTCACAAATTCCCTCCATGACGTGTCA
Done.