Multiple sequence alignment - TraesCS7D01G327800

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Download Multiple Sequence Alignment: (Fasta) (Clustal)


BLAST Results


Shown here are the results of a BLAST search against the genome using the input sequence. The pipeline uses this to extract flanking regions for cloning. If the result of the multiple sequence alignment is not as expected, these results could be used for further investigation.

qseqid sseqid percentage.identical alignment.length no.mismatch no.gap.openings qstart qend sstart send evalue bitscore
0 TraesCS7D01G327800 chr7D 100.000 2528 0 0 1 2528 418970094 418967567 0.000000e+00 4669.0
1 TraesCS7D01G327800 chr7D 90.000 200 17 2 2329 2528 75292846 75292650 3.230000e-64 255.0
2 TraesCS7D01G327800 chr7B 94.997 1639 48 10 685 2318 434840865 434839256 0.000000e+00 2542.0
3 TraesCS7D01G327800 chr7B 94.214 674 24 4 1 662 434841531 434840861 0.000000e+00 1014.0
4 TraesCS7D01G327800 chr7B 93.617 47 2 1 2341 2387 116134046 116134001 4.510000e-08 69.4
5 TraesCS7D01G327800 chr7A 92.599 1243 50 17 682 1899 514661760 514662985 0.000000e+00 1748.0
6 TraesCS7D01G327800 chr7A 89.744 468 44 4 196 662 514661303 514661767 1.670000e-166 595.0
7 TraesCS7D01G327800 chr7A 84.034 119 15 3 2325 2442 386346131 386346016 7.390000e-21 111.0
8 TraesCS7D01G327800 chr4D 87.000 200 24 2 2329 2528 497189903 497190100 9.100000e-55 224.0
9 TraesCS7D01G327800 chr1B 85.930 199 14 9 2329 2526 385220968 385221153 1.530000e-47 200.0
10 TraesCS7D01G327800 chr5D 91.045 67 5 1 53 118 364368059 364367993 3.460000e-14 89.8
11 TraesCS7D01G327800 chr2B 92.982 57 3 1 54 110 561568801 561568746 5.800000e-12 82.4
12 TraesCS7D01G327800 chr2B 90.000 60 3 2 2329 2387 30311227 30311170 9.700000e-10 75.0
13 TraesCS7D01G327800 chr2A 93.750 48 2 1 2340 2387 101837216 101837262 1.250000e-08 71.3
14 TraesCS7D01G327800 chr2A 84.722 72 3 7 2338 2407 503001529 503001464 5.840000e-07 65.8
15 TraesCS7D01G327800 chr6A 87.719 57 4 3 2329 2384 135249957 135250011 2.100000e-06 63.9
16 TraesCS7D01G327800 chr6D 97.143 35 1 0 2284 2318 363028175 363028141 2.720000e-05 60.2
17 TraesCS7D01G327800 chr1D 96.970 33 1 0 2286 2318 77368384 77368352 3.510000e-04 56.5


These results show the homologous regions that are presented in the multiple sequence alignment. HSPs from the BLAST search that are within 2000 bases of each other have been grouped together. Homologous regions that are purely upstream or downstream may be removed if they don't overlap both primers.

query scaffold start end length rev.comp avg.bitscore max.bitscore avg.percent.identical query.start query.end num_hsp groupid homo_length
0 TraesCS7D01G327800 chr7D 418967567 418970094 2527 True 4669.0 4669 100.0000 1 2528 1 chr7D.!!$R2 2527
1 TraesCS7D01G327800 chr7B 434839256 434841531 2275 True 1778.0 2542 94.6055 1 2318 2 chr7B.!!$R2 2317
2 TraesCS7D01G327800 chr7A 514661303 514662985 1682 False 1171.5 1748 91.1715 196 1899 2 chr7A.!!$F1 1703

AutoCloner calculated primer pairs

These primer pairs were selected by Autocloner to minimize primer penalty (calculated by Primer3), whilst remaining within the specified product range where possible.

Download AutoCloner chosen primers as CSV: (Forward) (Reverse)
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
161 172 0.958876 GAGGACCGGCGGAAAAACAT 60.959 55.0 35.78 15.11 0.0 2.71 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1995 2035 0.181114 TTTCCCTCCTCGCATCCATG 59.819 55.0 0.0 0.0 0.0 3.66 R

All possible primers

Listed here are all possible primers based on the multiple sequence alignment and SNPs generated previously. A lower penalty score indicates a better primer. If the AutoCloner primers did not work during PCR or sequencing, these could be used as alternatives.

Download all possible primers: (Forward) (Reverse)
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
37 38 2.044551 GCTTTCCCCTGCCTCCTG 60.045 66.667 0.00 0.00 0.00 3.86
159 170 1.598685 TGAGGACCGGCGGAAAAAC 60.599 57.895 35.78 18.78 0.00 2.43
161 172 0.958876 GAGGACCGGCGGAAAAACAT 60.959 55.000 35.78 15.11 0.00 2.71
165 176 2.587956 GACCGGCGGAAAAACATAAAC 58.412 47.619 35.78 4.79 0.00 2.01
168 179 2.727278 CCGGCGGAAAAACATAAACAAC 59.273 45.455 24.41 0.00 0.00 3.32
180 193 6.481954 AACATAAACAACGATGTCTTCCTC 57.518 37.500 0.00 0.00 39.40 3.71
181 194 5.547465 ACATAAACAACGATGTCTTCCTCA 58.453 37.500 0.00 0.00 39.40 3.86
277 290 2.797156 CCGGAATCGCTCTTATGACTTG 59.203 50.000 0.00 0.00 34.56 3.16
406 419 5.184864 TCCTCCAATAATGTTTGAATGCGTT 59.815 36.000 0.00 0.00 0.00 4.84
485 499 6.037391 ACATGCAAGTTTGAAGTTCAAAATGG 59.963 34.615 28.05 25.35 46.53 3.16
489 503 6.313658 GCAAGTTTGAAGTTCAAAATGGTCTT 59.686 34.615 28.05 22.57 46.53 3.01
490 504 7.674705 GCAAGTTTGAAGTTCAAAATGGTCTTG 60.675 37.037 30.87 30.87 46.53 3.02
514 528 2.355108 GCAGTAGTTGGGCTCTGATCAA 60.355 50.000 0.00 0.00 0.00 2.57
657 671 6.206829 GGTCAAGCCACTCAAGTAAATTAAGT 59.793 38.462 0.00 0.00 37.17 2.24
658 672 7.078228 GTCAAGCCACTCAAGTAAATTAAGTG 58.922 38.462 0.00 0.00 37.64 3.16
659 673 5.629079 AGCCACTCAAGTAAATTAAGTGC 57.371 39.130 0.00 0.00 36.79 4.40
660 674 5.316987 AGCCACTCAAGTAAATTAAGTGCT 58.683 37.500 0.00 0.00 36.79 4.40
661 675 5.770162 AGCCACTCAAGTAAATTAAGTGCTT 59.230 36.000 0.00 0.00 36.79 3.91
662 676 6.072452 AGCCACTCAAGTAAATTAAGTGCTTC 60.072 38.462 0.00 0.00 36.79 3.86
663 677 6.293955 GCCACTCAAGTAAATTAAGTGCTTCA 60.294 38.462 0.00 0.00 36.79 3.02
664 678 7.575720 GCCACTCAAGTAAATTAAGTGCTTCAT 60.576 37.037 0.00 0.00 36.79 2.57
665 679 8.299570 CCACTCAAGTAAATTAAGTGCTTCATT 58.700 33.333 0.00 0.00 36.79 2.57
666 680 9.334693 CACTCAAGTAAATTAAGTGCTTCATTC 57.665 33.333 0.00 0.00 31.87 2.67
667 681 8.230486 ACTCAAGTAAATTAAGTGCTTCATTCG 58.770 33.333 0.00 0.00 0.00 3.34
668 682 7.021196 TCAAGTAAATTAAGTGCTTCATTCGC 58.979 34.615 0.00 0.00 0.00 4.70
669 683 6.494893 AGTAAATTAAGTGCTTCATTCGCA 57.505 33.333 0.00 0.00 34.52 5.10
670 684 6.908825 AGTAAATTAAGTGCTTCATTCGCAA 58.091 32.000 0.00 0.00 39.39 4.85
671 685 7.367285 AGTAAATTAAGTGCTTCATTCGCAAA 58.633 30.769 0.00 0.00 39.39 3.68
672 686 7.865385 AGTAAATTAAGTGCTTCATTCGCAAAA 59.135 29.630 0.00 0.00 39.39 2.44
673 687 7.475771 AAATTAAGTGCTTCATTCGCAAAAA 57.524 28.000 0.00 0.00 39.39 1.94
726 740 4.111489 GCGTATGCGTTTACACCTAATC 57.889 45.455 4.81 0.00 40.81 1.75
883 902 1.705337 CCCCTTTATCACACGCTGCG 61.705 60.000 21.91 21.91 0.00 5.18
968 995 3.276857 TCTCATCCATTTCTTGCTGCTC 58.723 45.455 0.00 0.00 0.00 4.26
1032 1059 2.185350 CAAGCCGATCACGAGCCT 59.815 61.111 0.00 0.00 42.66 4.58
1549 1576 1.202521 TGTAGCTCGTATGTGCATGGG 60.203 52.381 11.32 0.00 37.07 4.00
1554 1581 1.412710 CTCGTATGTGCATGGGGTAGT 59.587 52.381 0.00 0.00 0.00 2.73
1555 1582 2.626266 CTCGTATGTGCATGGGGTAGTA 59.374 50.000 0.00 0.00 0.00 1.82
1556 1583 2.626266 TCGTATGTGCATGGGGTAGTAG 59.374 50.000 0.00 0.00 0.00 2.57
1873 1913 1.066757 TGGTAATCCGTTACGCGCATA 59.933 47.619 5.73 0.00 40.89 3.14
1906 1946 5.007724 GTCACCGTGTTCAATTTTCTTCTCT 59.992 40.000 0.00 0.00 0.00 3.10
1907 1947 5.007626 TCACCGTGTTCAATTTTCTTCTCTG 59.992 40.000 0.00 0.00 0.00 3.35
1910 1950 5.007626 CCGTGTTCAATTTTCTTCTCTGTCA 59.992 40.000 0.00 0.00 0.00 3.58
1911 1951 6.132056 CGTGTTCAATTTTCTTCTCTGTCAG 58.868 40.000 0.00 0.00 0.00 3.51
1912 1952 6.238211 CGTGTTCAATTTTCTTCTCTGTCAGT 60.238 38.462 0.00 0.00 0.00 3.41
1938 1978 6.479990 TCCAAGATACGTAAGCAAATCAGATG 59.520 38.462 0.00 0.00 45.62 2.90
1944 1984 3.562973 CGTAAGCAAATCAGATGAGCCAT 59.437 43.478 4.18 0.00 0.00 4.40
1946 1986 2.219458 AGCAAATCAGATGAGCCATCG 58.781 47.619 8.84 5.57 44.67 3.84
1971 2011 2.068821 GCAGCTCTCCTCCCATCCA 61.069 63.158 0.00 0.00 0.00 3.41
1972 2012 1.417288 GCAGCTCTCCTCCCATCCAT 61.417 60.000 0.00 0.00 0.00 3.41
1976 2016 1.771746 TCTCCTCCCATCCATGGCC 60.772 63.158 6.96 0.00 46.70 5.36
1977 2017 1.773391 CTCCTCCCATCCATGGCCT 60.773 63.158 6.96 0.00 46.70 5.19
1978 2018 2.065470 CTCCTCCCATCCATGGCCTG 62.065 65.000 6.96 7.02 46.70 4.85
1980 2020 1.648302 CCTCCCATCCATGGCCTGAA 61.648 60.000 6.96 0.00 46.70 3.02
1981 2021 0.481567 CTCCCATCCATGGCCTGAAT 59.518 55.000 6.96 0.00 46.70 2.57
1982 2022 0.479815 TCCCATCCATGGCCTGAATC 59.520 55.000 6.96 0.00 46.70 2.52
1983 2023 0.481567 CCCATCCATGGCCTGAATCT 59.518 55.000 6.96 0.00 46.70 2.40
1984 2024 1.133262 CCCATCCATGGCCTGAATCTT 60.133 52.381 6.96 0.00 46.70 2.40
1985 2025 1.961394 CCATCCATGGCCTGAATCTTG 59.039 52.381 6.96 0.00 41.75 3.02
1986 2026 2.662866 CATCCATGGCCTGAATCTTGT 58.337 47.619 6.96 0.00 0.00 3.16
1987 2027 2.425143 TCCATGGCCTGAATCTTGTC 57.575 50.000 6.96 0.00 0.00 3.18
1988 2028 1.918262 TCCATGGCCTGAATCTTGTCT 59.082 47.619 6.96 0.00 0.00 3.41
1989 2029 2.309755 TCCATGGCCTGAATCTTGTCTT 59.690 45.455 6.96 0.00 0.00 3.01
1990 2030 2.686915 CCATGGCCTGAATCTTGTCTTC 59.313 50.000 3.32 0.00 0.00 2.87
1991 2031 3.349927 CATGGCCTGAATCTTGTCTTCA 58.650 45.455 3.32 0.00 0.00 3.02
1992 2032 3.063510 TGGCCTGAATCTTGTCTTCAG 57.936 47.619 3.32 6.16 45.94 3.02
2009 2049 2.281345 GGCCATGGATGCGAGGAG 60.281 66.667 18.40 0.00 0.00 3.69
2022 2062 1.068250 GAGGAGGGAAAGGATCGCG 59.932 63.158 0.00 0.00 45.24 5.87
2108 2148 7.056635 CCAGATTTATGTCATAACTTCTGGGT 58.943 38.462 30.96 9.88 43.46 4.51
2133 2173 9.366216 GTCCTATTTGATTCCCAAAATGTTAAC 57.634 33.333 0.00 0.00 46.64 2.01
2142 2182 9.150348 GATTCCCAAAATGTTAACTTGGTATTG 57.850 33.333 18.64 11.01 38.35 1.90
2152 2192 8.877864 TGTTAACTTGGTATTGAGATGGAATT 57.122 30.769 7.22 0.00 0.00 2.17
2193 2233 2.570365 GCATCACAGGTGCAATGGA 58.430 52.632 5.27 0.80 42.08 3.41
2194 2234 0.454600 GCATCACAGGTGCAATGGAG 59.545 55.000 5.27 0.00 42.08 3.86
2214 2254 8.992835 ATGGAGAAAACAAGCTCAAATTTATC 57.007 30.769 0.00 0.00 32.83 1.75
2290 2333 8.909923 TCCTATGTCTAGATACATTCGTTTGAA 58.090 33.333 0.00 0.00 40.52 2.69
2318 2361 3.373226 TTCCGGACGGAGGAAGTG 58.627 61.111 13.64 0.00 46.06 3.16
2319 2362 2.939261 TTCCGGACGGAGGAAGTGC 61.939 63.158 13.64 0.00 46.06 4.40
2320 2363 3.691342 CCGGACGGAGGAAGTGCA 61.691 66.667 4.40 0.00 37.50 4.57
2321 2364 2.579201 CGGACGGAGGAAGTGCAT 59.421 61.111 0.00 0.00 0.00 3.96
2322 2365 1.079127 CGGACGGAGGAAGTGCATT 60.079 57.895 0.00 0.00 0.00 3.56
2323 2366 1.084370 CGGACGGAGGAAGTGCATTC 61.084 60.000 0.00 0.00 37.17 2.67
2324 2367 0.250513 GGACGGAGGAAGTGCATTCT 59.749 55.000 0.00 0.00 38.07 2.40
2325 2368 1.339151 GGACGGAGGAAGTGCATTCTT 60.339 52.381 0.00 0.00 38.07 2.52
2326 2369 2.427506 GACGGAGGAAGTGCATTCTTT 58.572 47.619 0.00 0.00 38.07 2.52
2327 2370 2.814336 GACGGAGGAAGTGCATTCTTTT 59.186 45.455 0.00 0.00 38.07 2.27
2328 2371 4.000988 GACGGAGGAAGTGCATTCTTTTA 58.999 43.478 0.00 0.00 38.07 1.52
2329 2372 4.394729 ACGGAGGAAGTGCATTCTTTTAA 58.605 39.130 0.00 0.00 38.07 1.52
2330 2373 4.455877 ACGGAGGAAGTGCATTCTTTTAAG 59.544 41.667 0.00 0.00 38.07 1.85
2331 2374 4.142600 CGGAGGAAGTGCATTCTTTTAAGG 60.143 45.833 0.00 0.00 38.07 2.69
2332 2375 5.010282 GGAGGAAGTGCATTCTTTTAAGGA 58.990 41.667 0.00 0.00 38.07 3.36
2333 2376 5.124617 GGAGGAAGTGCATTCTTTTAAGGAG 59.875 44.000 0.00 0.00 38.07 3.69
2334 2377 5.012893 AGGAAGTGCATTCTTTTAAGGAGG 58.987 41.667 0.00 0.00 38.07 4.30
2335 2378 5.010282 GGAAGTGCATTCTTTTAAGGAGGA 58.990 41.667 0.00 0.00 38.07 3.71
2336 2379 5.476945 GGAAGTGCATTCTTTTAAGGAGGAA 59.523 40.000 0.00 0.00 38.07 3.36
2337 2380 6.015434 GGAAGTGCATTCTTTTAAGGAGGAAA 60.015 38.462 0.00 0.00 38.07 3.13
2338 2381 6.581171 AGTGCATTCTTTTAAGGAGGAAAG 57.419 37.500 0.00 0.00 34.87 2.62
2339 2382 6.306987 AGTGCATTCTTTTAAGGAGGAAAGA 58.693 36.000 0.00 0.00 39.42 2.52
2340 2383 6.207614 AGTGCATTCTTTTAAGGAGGAAAGAC 59.792 38.462 0.00 0.00 40.49 3.01
2341 2384 5.476945 TGCATTCTTTTAAGGAGGAAAGACC 59.523 40.000 0.00 0.00 40.49 3.85
2342 2385 5.105716 GCATTCTTTTAAGGAGGAAAGACCC 60.106 44.000 0.00 0.00 40.49 4.46
2343 2386 5.656549 TTCTTTTAAGGAGGAAAGACCCA 57.343 39.130 0.00 0.00 40.49 4.51
2344 2387 4.981812 TCTTTTAAGGAGGAAAGACCCAC 58.018 43.478 0.00 0.00 37.06 4.61
2345 2388 3.412237 TTTAAGGAGGAAAGACCCACG 57.588 47.619 0.00 0.00 40.05 4.94
2346 2389 2.314071 TAAGGAGGAAAGACCCACGA 57.686 50.000 0.00 0.00 40.05 4.35
2347 2390 0.685660 AAGGAGGAAAGACCCACGAC 59.314 55.000 0.00 0.00 40.05 4.34
2348 2391 1.192803 AGGAGGAAAGACCCACGACC 61.193 60.000 0.00 0.00 40.05 4.79
2349 2392 1.192803 GGAGGAAAGACCCACGACCT 61.193 60.000 0.00 0.00 40.05 3.85
2350 2393 0.246910 GAGGAAAGACCCACGACCTC 59.753 60.000 0.00 0.00 40.05 3.85
2351 2394 0.178929 AGGAAAGACCCACGACCTCT 60.179 55.000 0.00 0.00 40.05 3.69
2352 2395 0.037232 GGAAAGACCCACGACCTCTG 60.037 60.000 0.00 0.00 0.00 3.35
2353 2396 0.670854 GAAAGACCCACGACCTCTGC 60.671 60.000 0.00 0.00 0.00 4.26
2354 2397 1.407656 AAAGACCCACGACCTCTGCA 61.408 55.000 0.00 0.00 0.00 4.41
2355 2398 1.194781 AAGACCCACGACCTCTGCAT 61.195 55.000 0.00 0.00 0.00 3.96
2356 2399 1.153549 GACCCACGACCTCTGCATC 60.154 63.158 0.00 0.00 0.00 3.91
2357 2400 1.888436 GACCCACGACCTCTGCATCA 61.888 60.000 0.00 0.00 0.00 3.07
2358 2401 1.153489 CCCACGACCTCTGCATCAG 60.153 63.158 0.00 0.00 0.00 2.90
2359 2402 1.607801 CCCACGACCTCTGCATCAGA 61.608 60.000 0.00 0.00 38.25 3.27
2360 2403 0.247460 CCACGACCTCTGCATCAGAA 59.753 55.000 0.00 0.00 40.18 3.02
2361 2404 1.354040 CACGACCTCTGCATCAGAAC 58.646 55.000 0.00 0.00 40.18 3.01
2362 2405 0.109086 ACGACCTCTGCATCAGAACG 60.109 55.000 0.00 12.39 40.18 3.95
2363 2406 0.171231 CGACCTCTGCATCAGAACGA 59.829 55.000 0.00 0.00 40.18 3.85
2364 2407 1.202348 CGACCTCTGCATCAGAACGAT 60.202 52.381 0.00 0.00 40.18 3.73
2373 2416 2.473816 CATCAGAACGATGCATACGGT 58.526 47.619 18.34 13.97 44.95 4.83
2374 2417 2.203800 TCAGAACGATGCATACGGTC 57.796 50.000 21.43 21.43 46.03 4.79
2378 2421 3.944422 GAACGATGCATACGGTCATTT 57.056 42.857 23.01 9.88 45.18 2.32
2379 2422 4.273005 GAACGATGCATACGGTCATTTT 57.727 40.909 23.01 9.35 45.18 1.82
2380 2423 5.398176 GAACGATGCATACGGTCATTTTA 57.602 39.130 23.01 0.00 45.18 1.52
2381 2424 5.985781 GAACGATGCATACGGTCATTTTAT 58.014 37.500 23.01 0.00 45.18 1.40
2382 2425 6.371809 AACGATGCATACGGTCATTTTATT 57.628 33.333 18.34 2.97 34.93 1.40
2383 2426 7.485418 AACGATGCATACGGTCATTTTATTA 57.515 32.000 18.34 0.00 34.93 0.98
2384 2427 7.485418 ACGATGCATACGGTCATTTTATTAA 57.515 32.000 18.34 0.00 34.93 1.40
2385 2428 7.921787 ACGATGCATACGGTCATTTTATTAAA 58.078 30.769 18.34 0.00 34.93 1.52
2386 2429 8.399425 ACGATGCATACGGTCATTTTATTAAAA 58.601 29.630 18.34 4.16 34.93 1.52
2387 2430 8.891928 CGATGCATACGGTCATTTTATTAAAAG 58.108 33.333 0.00 1.39 33.22 2.27
2388 2431 9.730420 GATGCATACGGTCATTTTATTAAAAGT 57.270 29.630 0.00 2.86 33.22 2.66
2389 2432 9.730420 ATGCATACGGTCATTTTATTAAAAGTC 57.270 29.630 0.00 1.58 33.22 3.01
2390 2433 8.952278 TGCATACGGTCATTTTATTAAAAGTCT 58.048 29.630 7.59 0.00 33.22 3.24
2394 2437 8.556213 ACGGTCATTTTATTAAAAGTCTAGCA 57.444 30.769 7.59 0.00 33.22 3.49
2395 2438 9.005777 ACGGTCATTTTATTAAAAGTCTAGCAA 57.994 29.630 7.59 0.00 33.22 3.91
2396 2439 9.834628 CGGTCATTTTATTAAAAGTCTAGCAAA 57.165 29.630 7.59 0.00 33.22 3.68
2402 2445 9.974980 TTTTATTAAAAGTCTAGCAAACCAAGG 57.025 29.630 0.00 0.00 0.00 3.61
2403 2446 8.700439 TTATTAAAAGTCTAGCAAACCAAGGT 57.300 30.769 0.00 0.00 0.00 3.50
2404 2447 7.597288 ATTAAAAGTCTAGCAAACCAAGGTT 57.403 32.000 0.00 0.00 40.45 3.50
2405 2448 5.515797 AAAAGTCTAGCAAACCAAGGTTC 57.484 39.130 4.73 0.00 37.35 3.62
2406 2449 3.857157 AGTCTAGCAAACCAAGGTTCA 57.143 42.857 4.73 0.00 37.35 3.18
2407 2450 3.477530 AGTCTAGCAAACCAAGGTTCAC 58.522 45.455 4.73 0.74 37.35 3.18
2408 2451 2.223377 GTCTAGCAAACCAAGGTTCACG 59.777 50.000 4.73 0.00 37.35 4.35
2409 2452 1.535462 CTAGCAAACCAAGGTTCACGG 59.465 52.381 4.73 0.00 37.35 4.94
2410 2453 0.395173 AGCAAACCAAGGTTCACGGT 60.395 50.000 4.73 0.41 37.35 4.83
2411 2454 0.248866 GCAAACCAAGGTTCACGGTG 60.249 55.000 4.73 0.56 37.35 4.94
2412 2455 0.248866 CAAACCAAGGTTCACGGTGC 60.249 55.000 4.73 0.00 37.35 5.01
2413 2456 0.681564 AAACCAAGGTTCACGGTGCA 60.682 50.000 4.73 0.00 37.35 4.57
2414 2457 1.101049 AACCAAGGTTCACGGTGCAG 61.101 55.000 2.51 0.00 32.09 4.41
2415 2458 1.525995 CCAAGGTTCACGGTGCAGT 60.526 57.895 2.51 0.00 0.00 4.40
2416 2459 0.250124 CCAAGGTTCACGGTGCAGTA 60.250 55.000 2.51 0.00 0.00 2.74
2417 2460 0.865769 CAAGGTTCACGGTGCAGTAC 59.134 55.000 2.51 0.00 0.00 2.73
2418 2461 0.466543 AAGGTTCACGGTGCAGTACA 59.533 50.000 2.51 0.00 0.00 2.90
2419 2462 0.033504 AGGTTCACGGTGCAGTACAG 59.966 55.000 2.51 0.00 0.00 2.74
2420 2463 1.566018 GGTTCACGGTGCAGTACAGC 61.566 60.000 2.82 2.82 43.56 4.40
2421 2464 0.600255 GTTCACGGTGCAGTACAGCT 60.600 55.000 11.81 0.00 44.86 4.24
2422 2465 0.319555 TTCACGGTGCAGTACAGCTC 60.320 55.000 11.81 7.75 44.86 4.09
2423 2466 2.088763 CACGGTGCAGTACAGCTCG 61.089 63.158 18.76 18.76 44.86 5.03
2424 2467 2.258591 CGGTGCAGTACAGCTCGT 59.741 61.111 11.81 0.00 44.86 4.18
2425 2468 1.801913 CGGTGCAGTACAGCTCGTC 60.802 63.158 11.81 0.27 44.86 4.20
2426 2469 1.801913 GGTGCAGTACAGCTCGTCG 60.802 63.158 11.81 0.00 43.65 5.12
2427 2470 1.209383 GTGCAGTACAGCTCGTCGA 59.791 57.895 11.81 0.00 34.99 4.20
2428 2471 0.386858 GTGCAGTACAGCTCGTCGAA 60.387 55.000 11.81 0.00 34.99 3.71
2429 2472 0.109735 TGCAGTACAGCTCGTCGAAG 60.110 55.000 11.81 0.00 34.99 3.79
2430 2473 0.798771 GCAGTACAGCTCGTCGAAGG 60.799 60.000 2.52 0.00 0.00 3.46
2431 2474 0.803117 CAGTACAGCTCGTCGAAGGA 59.197 55.000 0.00 0.00 0.00 3.36
2432 2475 1.088306 AGTACAGCTCGTCGAAGGAG 58.912 55.000 9.74 9.74 33.54 3.69
2437 2480 4.966005 CTCGTCGAAGGAGCACAA 57.034 55.556 0.00 0.00 0.00 3.33
2438 2481 3.195041 CTCGTCGAAGGAGCACAAA 57.805 52.632 0.00 0.00 0.00 2.83
2439 2482 1.497991 CTCGTCGAAGGAGCACAAAA 58.502 50.000 0.00 0.00 0.00 2.44
2440 2483 1.864711 CTCGTCGAAGGAGCACAAAAA 59.135 47.619 0.00 0.00 0.00 1.94
2441 2484 1.864711 TCGTCGAAGGAGCACAAAAAG 59.135 47.619 0.00 0.00 0.00 2.27
2442 2485 1.597663 CGTCGAAGGAGCACAAAAAGT 59.402 47.619 0.00 0.00 0.00 2.66
2443 2486 2.798283 CGTCGAAGGAGCACAAAAAGTA 59.202 45.455 0.00 0.00 0.00 2.24
2444 2487 3.246699 CGTCGAAGGAGCACAAAAAGTAA 59.753 43.478 0.00 0.00 0.00 2.24
2445 2488 4.260456 CGTCGAAGGAGCACAAAAAGTAAA 60.260 41.667 0.00 0.00 0.00 2.01
2446 2489 5.575019 GTCGAAGGAGCACAAAAAGTAAAA 58.425 37.500 0.00 0.00 0.00 1.52
2447 2490 6.206498 GTCGAAGGAGCACAAAAAGTAAAAT 58.794 36.000 0.00 0.00 0.00 1.82
2448 2491 7.357303 GTCGAAGGAGCACAAAAAGTAAAATA 58.643 34.615 0.00 0.00 0.00 1.40
2449 2492 7.858879 GTCGAAGGAGCACAAAAAGTAAAATAA 59.141 33.333 0.00 0.00 0.00 1.40
2450 2493 8.407064 TCGAAGGAGCACAAAAAGTAAAATAAA 58.593 29.630 0.00 0.00 0.00 1.40
2451 2494 9.191995 CGAAGGAGCACAAAAAGTAAAATAAAT 57.808 29.630 0.00 0.00 0.00 1.40
2468 2511 7.701809 AAATAAATAAACAACACCACAACCG 57.298 32.000 0.00 0.00 0.00 4.44
2469 2512 4.985538 AAATAAACAACACCACAACCGA 57.014 36.364 0.00 0.00 0.00 4.69
2470 2513 3.974871 ATAAACAACACCACAACCGAC 57.025 42.857 0.00 0.00 0.00 4.79
2471 2514 1.535833 AAACAACACCACAACCGACA 58.464 45.000 0.00 0.00 0.00 4.35
2472 2515 1.535833 AACAACACCACAACCGACAA 58.464 45.000 0.00 0.00 0.00 3.18
2473 2516 1.757682 ACAACACCACAACCGACAAT 58.242 45.000 0.00 0.00 0.00 2.71
2474 2517 1.403679 ACAACACCACAACCGACAATG 59.596 47.619 0.00 0.00 0.00 2.82
2475 2518 1.673400 CAACACCACAACCGACAATGA 59.327 47.619 0.00 0.00 0.00 2.57
2476 2519 2.045561 ACACCACAACCGACAATGAA 57.954 45.000 0.00 0.00 0.00 2.57
2477 2520 1.673920 ACACCACAACCGACAATGAAC 59.326 47.619 0.00 0.00 0.00 3.18
2478 2521 1.673400 CACCACAACCGACAATGAACA 59.327 47.619 0.00 0.00 0.00 3.18
2479 2522 2.098280 CACCACAACCGACAATGAACAA 59.902 45.455 0.00 0.00 0.00 2.83
2480 2523 2.357637 ACCACAACCGACAATGAACAAG 59.642 45.455 0.00 0.00 0.00 3.16
2481 2524 2.616376 CCACAACCGACAATGAACAAGA 59.384 45.455 0.00 0.00 0.00 3.02
2482 2525 3.548014 CCACAACCGACAATGAACAAGAC 60.548 47.826 0.00 0.00 0.00 3.01
2483 2526 3.064682 CACAACCGACAATGAACAAGACA 59.935 43.478 0.00 0.00 0.00 3.41
2484 2527 3.692101 ACAACCGACAATGAACAAGACAA 59.308 39.130 0.00 0.00 0.00 3.18
2485 2528 4.201910 ACAACCGACAATGAACAAGACAAG 60.202 41.667 0.00 0.00 0.00 3.16
2486 2529 3.804036 ACCGACAATGAACAAGACAAGA 58.196 40.909 0.00 0.00 0.00 3.02
2487 2530 3.560068 ACCGACAATGAACAAGACAAGAC 59.440 43.478 0.00 0.00 0.00 3.01
2488 2531 3.362986 CCGACAATGAACAAGACAAGACG 60.363 47.826 0.00 0.00 0.00 4.18
2489 2532 3.489416 CGACAATGAACAAGACAAGACGA 59.511 43.478 0.00 0.00 0.00 4.20
2490 2533 4.150627 CGACAATGAACAAGACAAGACGAT 59.849 41.667 0.00 0.00 0.00 3.73
2491 2534 5.333339 CGACAATGAACAAGACAAGACGATT 60.333 40.000 0.00 0.00 0.00 3.34
2492 2535 6.128929 CGACAATGAACAAGACAAGACGATTA 60.129 38.462 0.00 0.00 0.00 1.75
2493 2536 7.490962 ACAATGAACAAGACAAGACGATTAA 57.509 32.000 0.00 0.00 0.00 1.40
2494 2537 7.925993 ACAATGAACAAGACAAGACGATTAAA 58.074 30.769 0.00 0.00 0.00 1.52
2495 2538 7.855904 ACAATGAACAAGACAAGACGATTAAAC 59.144 33.333 0.00 0.00 0.00 2.01
2496 2539 6.912203 TGAACAAGACAAGACGATTAAACA 57.088 33.333 0.00 0.00 0.00 2.83
2497 2540 7.490962 TGAACAAGACAAGACGATTAAACAT 57.509 32.000 0.00 0.00 0.00 2.71
2498 2541 7.572759 TGAACAAGACAAGACGATTAAACATC 58.427 34.615 0.00 0.00 0.00 3.06
2499 2542 7.441157 TGAACAAGACAAGACGATTAAACATCT 59.559 33.333 0.00 0.00 0.00 2.90
2500 2543 8.827177 AACAAGACAAGACGATTAAACATCTA 57.173 30.769 0.00 0.00 0.00 1.98
2501 2544 9.436957 AACAAGACAAGACGATTAAACATCTAT 57.563 29.630 0.00 0.00 0.00 1.98
2502 2545 9.088512 ACAAGACAAGACGATTAAACATCTATC 57.911 33.333 0.00 0.00 0.00 2.08
2503 2546 9.087424 CAAGACAAGACGATTAAACATCTATCA 57.913 33.333 0.00 0.00 0.00 2.15
2504 2547 9.823647 AAGACAAGACGATTAAACATCTATCAT 57.176 29.630 0.00 0.00 0.00 2.45
2516 2559 9.923143 TTAAACATCTATCATATTAGTGGACCG 57.077 33.333 0.00 0.00 0.00 4.79
2517 2560 5.967088 ACATCTATCATATTAGTGGACCGC 58.033 41.667 0.00 0.00 0.00 5.68
2518 2561 5.105310 ACATCTATCATATTAGTGGACCGCC 60.105 44.000 0.08 0.00 0.00 6.13
2519 2562 4.412843 TCTATCATATTAGTGGACCGCCA 58.587 43.478 0.08 0.00 43.47 5.69
2527 2570 2.034999 TGGACCGCCATCCAAACC 59.965 61.111 1.01 0.00 46.08 3.27
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
69 80 6.765989 CGTTCTCAGTAATGGAAATGGGATAA 59.234 38.462 0.00 0.00 0.00 1.75
86 97 3.782046 ACCGATGTATTTCCGTTCTCAG 58.218 45.455 0.00 0.00 0.00 3.35
118 129 1.550524 TCAGGTGACCTCTCCAATTCG 59.449 52.381 0.00 0.00 32.20 3.34
124 135 4.876752 ACCTCAGGTGACCTCTCC 57.123 61.111 0.00 0.00 32.98 3.71
159 170 6.536582 AGATGAGGAAGACATCGTTGTTTATG 59.463 38.462 0.00 0.00 45.77 1.90
161 172 6.037786 AGATGAGGAAGACATCGTTGTTTA 57.962 37.500 0.00 0.00 45.77 2.01
165 176 3.620374 CCAAGATGAGGAAGACATCGTTG 59.380 47.826 0.00 0.00 45.77 4.10
168 179 3.193263 CACCAAGATGAGGAAGACATCG 58.807 50.000 0.00 0.00 45.77 3.84
180 193 3.817709 ACAAAAACACCCACCAAGATG 57.182 42.857 0.00 0.00 0.00 2.90
181 194 4.835284 AAACAAAAACACCCACCAAGAT 57.165 36.364 0.00 0.00 0.00 2.40
485 499 1.946283 GCCCAACTACTGCCTCAAGAC 60.946 57.143 0.00 0.00 0.00 3.01
489 503 0.545309 AGAGCCCAACTACTGCCTCA 60.545 55.000 0.00 0.00 0.00 3.86
490 504 0.107945 CAGAGCCCAACTACTGCCTC 60.108 60.000 0.00 0.00 0.00 4.70
514 528 3.319405 GGAGATCATGTCCACGTCTGTAT 59.681 47.826 0.00 0.00 33.84 2.29
672 686 8.272866 GTCGCACAGTAAGCAATTTTTATTTTT 58.727 29.630 0.00 0.00 0.00 1.94
673 687 7.436673 TGTCGCACAGTAAGCAATTTTTATTTT 59.563 29.630 0.00 0.00 0.00 1.82
674 688 6.920758 TGTCGCACAGTAAGCAATTTTTATTT 59.079 30.769 0.00 0.00 0.00 1.40
675 689 6.442952 TGTCGCACAGTAAGCAATTTTTATT 58.557 32.000 0.00 0.00 0.00 1.40
676 690 6.007936 TGTCGCACAGTAAGCAATTTTTAT 57.992 33.333 0.00 0.00 0.00 1.40
677 691 5.237561 TCTGTCGCACAGTAAGCAATTTTTA 59.762 36.000 13.59 0.00 46.03 1.52
678 692 4.036262 TCTGTCGCACAGTAAGCAATTTTT 59.964 37.500 13.59 0.00 46.03 1.94
679 693 3.563808 TCTGTCGCACAGTAAGCAATTTT 59.436 39.130 13.59 0.00 46.03 1.82
680 694 3.138304 TCTGTCGCACAGTAAGCAATTT 58.862 40.909 13.59 0.00 46.03 1.82
681 695 2.766313 TCTGTCGCACAGTAAGCAATT 58.234 42.857 13.59 0.00 46.03 2.32
682 696 2.455674 TCTGTCGCACAGTAAGCAAT 57.544 45.000 13.59 0.00 46.03 3.56
683 697 2.455674 ATCTGTCGCACAGTAAGCAA 57.544 45.000 13.59 0.00 46.03 3.91
724 738 3.270433 ACTCTTTGTGGGGGATTGATGAT 59.730 43.478 0.00 0.00 0.00 2.45
725 739 2.649312 ACTCTTTGTGGGGGATTGATGA 59.351 45.455 0.00 0.00 0.00 2.92
726 740 2.756760 CACTCTTTGTGGGGGATTGATG 59.243 50.000 0.00 0.00 42.68 3.07
854 873 2.990830 GATAAAGGGGGCGGACGAGC 62.991 65.000 0.00 0.00 0.00 5.03
855 874 1.069258 GATAAAGGGGGCGGACGAG 59.931 63.158 0.00 0.00 0.00 4.18
1032 1059 0.250424 CACCACCACTGTCATCTGCA 60.250 55.000 0.00 0.00 0.00 4.41
1461 1488 1.215647 GATGAACCGCTCCGACTGT 59.784 57.895 0.00 0.00 0.00 3.55
1906 1946 4.021807 TGCTTACGTATCTTGGAACTGACA 60.022 41.667 0.00 0.00 0.00 3.58
1907 1947 4.491676 TGCTTACGTATCTTGGAACTGAC 58.508 43.478 0.00 0.00 0.00 3.51
1910 1950 6.170506 TGATTTGCTTACGTATCTTGGAACT 58.829 36.000 0.00 0.00 0.00 3.01
1911 1951 6.312918 TCTGATTTGCTTACGTATCTTGGAAC 59.687 38.462 0.00 0.00 0.00 3.62
1912 1952 6.403049 TCTGATTTGCTTACGTATCTTGGAA 58.597 36.000 0.00 0.00 0.00 3.53
1946 1986 4.774503 AGGAGAGCTGCGCTTGCC 62.775 66.667 19.14 5.17 39.88 4.52
1949 1989 3.780173 GGGAGGAGAGCTGCGCTT 61.780 66.667 9.73 0.00 39.88 4.68
1953 1993 1.417288 ATGGATGGGAGGAGAGCTGC 61.417 60.000 0.00 0.00 0.00 5.25
1971 2011 3.618351 CTGAAGACAAGATTCAGGCCAT 58.382 45.455 5.01 0.00 46.45 4.40
1972 2012 3.063510 CTGAAGACAAGATTCAGGCCA 57.936 47.619 5.01 0.00 46.45 5.36
1977 2017 3.349927 CATGGCCTGAAGACAAGATTCA 58.650 45.455 3.32 0.00 35.45 2.57
1978 2018 2.686915 CCATGGCCTGAAGACAAGATTC 59.313 50.000 3.32 0.00 0.00 2.52
1980 2020 1.918262 TCCATGGCCTGAAGACAAGAT 59.082 47.619 6.96 0.00 0.00 2.40
1981 2021 1.361204 TCCATGGCCTGAAGACAAGA 58.639 50.000 6.96 0.00 0.00 3.02
1982 2022 2.022195 CATCCATGGCCTGAAGACAAG 58.978 52.381 6.96 0.00 0.00 3.16
1983 2023 1.956636 GCATCCATGGCCTGAAGACAA 60.957 52.381 6.96 0.00 0.00 3.18
1984 2024 0.394762 GCATCCATGGCCTGAAGACA 60.395 55.000 6.96 0.00 0.00 3.41
1985 2025 1.442526 CGCATCCATGGCCTGAAGAC 61.443 60.000 6.96 0.00 0.00 3.01
1986 2026 1.153107 CGCATCCATGGCCTGAAGA 60.153 57.895 6.96 0.00 0.00 2.87
1987 2027 1.153107 TCGCATCCATGGCCTGAAG 60.153 57.895 6.96 5.45 0.00 3.02
1988 2028 1.153107 CTCGCATCCATGGCCTGAA 60.153 57.895 6.96 0.00 0.00 3.02
1989 2029 2.507452 CTCGCATCCATGGCCTGA 59.493 61.111 6.96 1.16 0.00 3.86
1990 2030 2.593725 CCTCGCATCCATGGCCTG 60.594 66.667 6.96 8.34 0.00 4.85
1991 2031 2.769621 TCCTCGCATCCATGGCCT 60.770 61.111 6.96 0.00 0.00 5.19
1992 2032 2.281345 CTCCTCGCATCCATGGCC 60.281 66.667 6.96 0.00 0.00 5.36
1993 2033 2.281345 CCTCCTCGCATCCATGGC 60.281 66.667 6.96 0.00 0.00 4.40
1994 2034 1.699054 TTCCCTCCTCGCATCCATGG 61.699 60.000 4.97 4.97 0.00 3.66
1995 2035 0.181114 TTTCCCTCCTCGCATCCATG 59.819 55.000 0.00 0.00 0.00 3.66
2009 2049 1.134788 TCTTTCTCGCGATCCTTTCCC 60.135 52.381 10.36 0.00 0.00 3.97
2022 2062 1.447945 GCTCCAAGGCAGTCTTTCTC 58.552 55.000 0.00 0.00 32.41 2.87
2052 2092 2.590575 ACACGGCCGTCACCTTTG 60.591 61.111 31.80 18.40 0.00 2.77
2108 2148 9.320295 AGTTAACATTTTGGGAATCAAATAGGA 57.680 29.630 8.61 0.00 43.95 2.94
2133 2173 8.651389 TCTACCTAATTCCATCTCAATACCAAG 58.349 37.037 0.00 0.00 0.00 3.61
2142 2182 4.888917 GGTGCTCTACCTAATTCCATCTC 58.111 47.826 0.00 0.00 46.51 2.75
2183 2223 2.036346 AGCTTGTTTTCTCCATTGCACC 59.964 45.455 0.00 0.00 0.00 5.01
2190 2230 7.040755 TCGATAAATTTGAGCTTGTTTTCTCCA 60.041 33.333 0.00 0.00 0.00 3.86
2192 2232 7.803189 TGTCGATAAATTTGAGCTTGTTTTCTC 59.197 33.333 0.00 0.00 0.00 2.87
2193 2233 7.648142 TGTCGATAAATTTGAGCTTGTTTTCT 58.352 30.769 0.00 0.00 0.00 2.52
2194 2234 7.851822 TGTCGATAAATTTGAGCTTGTTTTC 57.148 32.000 0.00 0.00 0.00 2.29
2214 2254 8.168626 CACGAATATATATGGAAAACCATGTCG 58.831 37.037 11.39 11.47 0.00 4.35
2248 2291 7.055378 AGACATAGGAAGTACATCGTAACTCT 58.945 38.462 4.79 5.19 0.00 3.24
2255 2298 8.549338 TGTATCTAGACATAGGAAGTACATCG 57.451 38.462 0.00 0.00 0.00 3.84
2264 2307 8.459911 TCAAACGAATGTATCTAGACATAGGA 57.540 34.615 0.00 0.00 39.16 2.94
2290 2333 1.403249 CCGTCCGGAATTAGTTGACGT 60.403 52.381 5.23 0.00 45.29 4.34
2318 2361 5.105716 GGGTCTTTCCTCCTTAAAAGAATGC 60.106 44.000 0.00 0.00 41.70 3.56
2319 2362 6.010219 TGGGTCTTTCCTCCTTAAAAGAATG 58.990 40.000 0.00 0.00 41.70 2.67
2320 2363 6.010850 GTGGGTCTTTCCTCCTTAAAAGAAT 58.989 40.000 0.00 0.00 41.70 2.40
2321 2364 5.382616 GTGGGTCTTTCCTCCTTAAAAGAA 58.617 41.667 0.00 0.00 41.70 2.52
2322 2365 4.504340 CGTGGGTCTTTCCTCCTTAAAAGA 60.504 45.833 0.00 0.00 38.76 2.52
2323 2366 3.751698 CGTGGGTCTTTCCTCCTTAAAAG 59.248 47.826 0.00 0.00 36.25 2.27
2324 2367 3.391955 TCGTGGGTCTTTCCTCCTTAAAA 59.608 43.478 0.00 0.00 36.25 1.52
2325 2368 2.974099 TCGTGGGTCTTTCCTCCTTAAA 59.026 45.455 0.00 0.00 36.25 1.52
2326 2369 2.301009 GTCGTGGGTCTTTCCTCCTTAA 59.699 50.000 0.00 0.00 36.25 1.85
2327 2370 1.897802 GTCGTGGGTCTTTCCTCCTTA 59.102 52.381 0.00 0.00 36.25 2.69
2328 2371 0.685660 GTCGTGGGTCTTTCCTCCTT 59.314 55.000 0.00 0.00 36.25 3.36
2329 2372 1.192803 GGTCGTGGGTCTTTCCTCCT 61.193 60.000 0.00 0.00 36.25 3.69
2330 2373 1.192803 AGGTCGTGGGTCTTTCCTCC 61.193 60.000 0.00 0.00 36.25 4.30
2331 2374 0.246910 GAGGTCGTGGGTCTTTCCTC 59.753 60.000 0.00 0.00 35.45 3.71
2332 2375 0.178929 AGAGGTCGTGGGTCTTTCCT 60.179 55.000 0.00 0.00 36.25 3.36
2333 2376 0.037232 CAGAGGTCGTGGGTCTTTCC 60.037 60.000 0.00 0.00 0.00 3.13
2334 2377 0.670854 GCAGAGGTCGTGGGTCTTTC 60.671 60.000 0.00 0.00 0.00 2.62
2335 2378 1.371558 GCAGAGGTCGTGGGTCTTT 59.628 57.895 0.00 0.00 0.00 2.52
2336 2379 1.194781 ATGCAGAGGTCGTGGGTCTT 61.195 55.000 0.00 0.00 0.00 3.01
2337 2380 1.608717 GATGCAGAGGTCGTGGGTCT 61.609 60.000 0.00 0.00 0.00 3.85
2338 2381 1.153549 GATGCAGAGGTCGTGGGTC 60.154 63.158 0.00 0.00 0.00 4.46
2339 2382 1.892819 CTGATGCAGAGGTCGTGGGT 61.893 60.000 0.00 0.00 32.44 4.51
2340 2383 1.153489 CTGATGCAGAGGTCGTGGG 60.153 63.158 0.00 0.00 32.44 4.61
2341 2384 0.247460 TTCTGATGCAGAGGTCGTGG 59.753 55.000 0.00 0.00 41.75 4.94
2342 2385 1.354040 GTTCTGATGCAGAGGTCGTG 58.646 55.000 0.00 0.00 41.75 4.35
2343 2386 0.109086 CGTTCTGATGCAGAGGTCGT 60.109 55.000 0.00 0.00 41.75 4.34
2344 2387 0.171231 TCGTTCTGATGCAGAGGTCG 59.829 55.000 0.00 0.00 41.75 4.79
2345 2388 2.593346 ATCGTTCTGATGCAGAGGTC 57.407 50.000 0.00 0.00 41.75 3.85
2354 2397 2.100749 TGACCGTATGCATCGTTCTGAT 59.899 45.455 0.19 0.00 38.01 2.90
2355 2398 1.474879 TGACCGTATGCATCGTTCTGA 59.525 47.619 0.19 0.00 0.00 3.27
2356 2399 1.921243 TGACCGTATGCATCGTTCTG 58.079 50.000 0.19 0.00 0.00 3.02
2357 2400 2.890808 ATGACCGTATGCATCGTTCT 57.109 45.000 0.19 0.00 0.00 3.01
2358 2401 3.944422 AAATGACCGTATGCATCGTTC 57.056 42.857 0.19 5.82 0.00 3.95
2359 2402 6.371809 AATAAAATGACCGTATGCATCGTT 57.628 33.333 0.19 0.00 0.00 3.85
2360 2403 7.485418 TTAATAAAATGACCGTATGCATCGT 57.515 32.000 0.19 0.00 0.00 3.73
2361 2404 8.775220 TTTTAATAAAATGACCGTATGCATCG 57.225 30.769 0.19 7.03 0.00 3.84
2362 2405 9.730420 ACTTTTAATAAAATGACCGTATGCATC 57.270 29.630 0.19 0.00 0.00 3.91
2363 2406 9.730420 GACTTTTAATAAAATGACCGTATGCAT 57.270 29.630 3.79 3.79 0.00 3.96
2364 2407 8.952278 AGACTTTTAATAAAATGACCGTATGCA 58.048 29.630 0.00 0.00 0.00 3.96
2368 2411 9.656040 TGCTAGACTTTTAATAAAATGACCGTA 57.344 29.630 0.00 0.00 0.00 4.02
2369 2412 8.556213 TGCTAGACTTTTAATAAAATGACCGT 57.444 30.769 0.00 0.00 0.00 4.83
2370 2413 9.834628 TTTGCTAGACTTTTAATAAAATGACCG 57.165 29.630 0.00 0.00 0.00 4.79
2376 2419 9.974980 CCTTGGTTTGCTAGACTTTTAATAAAA 57.025 29.630 0.00 0.00 0.00 1.52
2377 2420 9.138596 ACCTTGGTTTGCTAGACTTTTAATAAA 57.861 29.630 0.00 0.00 0.00 1.40
2378 2421 8.700439 ACCTTGGTTTGCTAGACTTTTAATAA 57.300 30.769 0.00 0.00 0.00 1.40
2379 2422 8.700439 AACCTTGGTTTGCTAGACTTTTAATA 57.300 30.769 0.00 0.00 0.00 0.98
2380 2423 7.286775 TGAACCTTGGTTTGCTAGACTTTTAAT 59.713 33.333 6.49 0.00 0.00 1.40
2381 2424 6.603997 TGAACCTTGGTTTGCTAGACTTTTAA 59.396 34.615 6.49 0.00 0.00 1.52
2382 2425 6.038936 GTGAACCTTGGTTTGCTAGACTTTTA 59.961 38.462 6.49 0.00 0.00 1.52
2383 2426 4.953579 TGAACCTTGGTTTGCTAGACTTTT 59.046 37.500 6.49 0.00 0.00 2.27
2384 2427 4.338400 GTGAACCTTGGTTTGCTAGACTTT 59.662 41.667 6.49 0.00 0.00 2.66
2385 2428 3.883489 GTGAACCTTGGTTTGCTAGACTT 59.117 43.478 6.49 0.00 0.00 3.01
2386 2429 3.477530 GTGAACCTTGGTTTGCTAGACT 58.522 45.455 6.49 0.00 0.00 3.24
2387 2430 2.223377 CGTGAACCTTGGTTTGCTAGAC 59.777 50.000 6.49 0.00 0.00 2.59
2388 2431 2.489971 CGTGAACCTTGGTTTGCTAGA 58.510 47.619 6.49 0.00 0.00 2.43
2389 2432 1.535462 CCGTGAACCTTGGTTTGCTAG 59.465 52.381 6.49 0.00 0.00 3.42
2390 2433 1.134037 ACCGTGAACCTTGGTTTGCTA 60.134 47.619 6.49 0.00 29.87 3.49
2391 2434 0.395173 ACCGTGAACCTTGGTTTGCT 60.395 50.000 6.49 0.00 29.87 3.91
2392 2435 0.248866 CACCGTGAACCTTGGTTTGC 60.249 55.000 6.49 2.51 32.48 3.68
2393 2436 0.248866 GCACCGTGAACCTTGGTTTG 60.249 55.000 6.49 2.08 32.48 2.93
2394 2437 0.681564 TGCACCGTGAACCTTGGTTT 60.682 50.000 6.49 0.00 32.48 3.27
2395 2438 1.077357 TGCACCGTGAACCTTGGTT 60.077 52.632 4.52 4.52 32.48 3.67
2396 2439 1.525995 CTGCACCGTGAACCTTGGT 60.526 57.895 1.65 0.00 36.10 3.67
2397 2440 0.250124 TACTGCACCGTGAACCTTGG 60.250 55.000 1.65 0.00 0.00 3.61
2398 2441 0.865769 GTACTGCACCGTGAACCTTG 59.134 55.000 1.65 0.00 0.00 3.61
2399 2442 0.466543 TGTACTGCACCGTGAACCTT 59.533 50.000 1.65 0.00 0.00 3.50
2400 2443 0.033504 CTGTACTGCACCGTGAACCT 59.966 55.000 1.65 0.00 0.00 3.50
2401 2444 1.566018 GCTGTACTGCACCGTGAACC 61.566 60.000 18.75 0.00 0.00 3.62
2402 2445 0.600255 AGCTGTACTGCACCGTGAAC 60.600 55.000 24.38 0.00 34.99 3.18
2403 2446 0.319555 GAGCTGTACTGCACCGTGAA 60.320 55.000 24.38 0.00 34.99 3.18
2404 2447 1.289066 GAGCTGTACTGCACCGTGA 59.711 57.895 24.38 0.00 34.99 4.35
2405 2448 2.088763 CGAGCTGTACTGCACCGTG 61.089 63.158 24.38 7.26 34.99 4.94
2406 2449 2.258591 CGAGCTGTACTGCACCGT 59.741 61.111 24.38 5.76 34.99 4.83
2407 2450 1.801913 GACGAGCTGTACTGCACCG 60.802 63.158 24.38 25.17 37.33 4.94
2408 2451 1.801913 CGACGAGCTGTACTGCACC 60.802 63.158 24.38 15.03 34.99 5.01
2409 2452 0.386858 TTCGACGAGCTGTACTGCAC 60.387 55.000 24.38 17.82 34.99 4.57
2410 2453 0.109735 CTTCGACGAGCTGTACTGCA 60.110 55.000 24.38 2.06 34.99 4.41
2411 2454 0.798771 CCTTCGACGAGCTGTACTGC 60.799 60.000 16.28 16.28 0.00 4.40
2412 2455 0.803117 TCCTTCGACGAGCTGTACTG 59.197 55.000 0.00 0.00 0.00 2.74
2413 2456 1.088306 CTCCTTCGACGAGCTGTACT 58.912 55.000 0.00 0.00 0.00 2.73
2414 2457 3.607777 CTCCTTCGACGAGCTGTAC 57.392 57.895 0.00 0.00 0.00 2.90
2420 2463 1.497991 TTTTGTGCTCCTTCGACGAG 58.502 50.000 0.00 4.62 0.00 4.18
2421 2464 1.864711 CTTTTTGTGCTCCTTCGACGA 59.135 47.619 0.00 0.00 0.00 4.20
2422 2465 1.597663 ACTTTTTGTGCTCCTTCGACG 59.402 47.619 0.00 0.00 0.00 5.12
2423 2466 4.806342 TTACTTTTTGTGCTCCTTCGAC 57.194 40.909 0.00 0.00 0.00 4.20
2424 2467 5.821516 TTTTACTTTTTGTGCTCCTTCGA 57.178 34.783 0.00 0.00 0.00 3.71
2425 2468 8.568732 TTTATTTTACTTTTTGTGCTCCTTCG 57.431 30.769 0.00 0.00 0.00 3.79
2442 2485 9.245962 CGGTTGTGGTGTTGTTTATTTATTTTA 57.754 29.630 0.00 0.00 0.00 1.52
2443 2486 7.980099 TCGGTTGTGGTGTTGTTTATTTATTTT 59.020 29.630 0.00 0.00 0.00 1.82
2444 2487 7.435784 GTCGGTTGTGGTGTTGTTTATTTATTT 59.564 33.333 0.00 0.00 0.00 1.40
2445 2488 6.919115 GTCGGTTGTGGTGTTGTTTATTTATT 59.081 34.615 0.00 0.00 0.00 1.40
2446 2489 6.039493 TGTCGGTTGTGGTGTTGTTTATTTAT 59.961 34.615 0.00 0.00 0.00 1.40
2447 2490 5.356190 TGTCGGTTGTGGTGTTGTTTATTTA 59.644 36.000 0.00 0.00 0.00 1.40
2448 2491 4.158025 TGTCGGTTGTGGTGTTGTTTATTT 59.842 37.500 0.00 0.00 0.00 1.40
2449 2492 3.695060 TGTCGGTTGTGGTGTTGTTTATT 59.305 39.130 0.00 0.00 0.00 1.40
2450 2493 3.280295 TGTCGGTTGTGGTGTTGTTTAT 58.720 40.909 0.00 0.00 0.00 1.40
2451 2494 2.708051 TGTCGGTTGTGGTGTTGTTTA 58.292 42.857 0.00 0.00 0.00 2.01
2452 2495 1.535833 TGTCGGTTGTGGTGTTGTTT 58.464 45.000 0.00 0.00 0.00 2.83
2453 2496 1.535833 TTGTCGGTTGTGGTGTTGTT 58.464 45.000 0.00 0.00 0.00 2.83
2454 2497 1.403679 CATTGTCGGTTGTGGTGTTGT 59.596 47.619 0.00 0.00 0.00 3.32
2455 2498 1.673400 TCATTGTCGGTTGTGGTGTTG 59.327 47.619 0.00 0.00 0.00 3.33
2456 2499 2.045561 TCATTGTCGGTTGTGGTGTT 57.954 45.000 0.00 0.00 0.00 3.32
2457 2500 1.673920 GTTCATTGTCGGTTGTGGTGT 59.326 47.619 0.00 0.00 0.00 4.16
2458 2501 1.673400 TGTTCATTGTCGGTTGTGGTG 59.327 47.619 0.00 0.00 0.00 4.17
2459 2502 2.045561 TGTTCATTGTCGGTTGTGGT 57.954 45.000 0.00 0.00 0.00 4.16
2460 2503 2.616376 TCTTGTTCATTGTCGGTTGTGG 59.384 45.455 0.00 0.00 0.00 4.17
2461 2504 3.064682 TGTCTTGTTCATTGTCGGTTGTG 59.935 43.478 0.00 0.00 0.00 3.33
2462 2505 3.275143 TGTCTTGTTCATTGTCGGTTGT 58.725 40.909 0.00 0.00 0.00 3.32
2463 2506 3.961477 TGTCTTGTTCATTGTCGGTTG 57.039 42.857 0.00 0.00 0.00 3.77
2464 2507 4.035208 GTCTTGTCTTGTTCATTGTCGGTT 59.965 41.667 0.00 0.00 0.00 4.44
2465 2508 3.560068 GTCTTGTCTTGTTCATTGTCGGT 59.440 43.478 0.00 0.00 0.00 4.69
2466 2509 3.362986 CGTCTTGTCTTGTTCATTGTCGG 60.363 47.826 0.00 0.00 0.00 4.79
2467 2510 3.489416 TCGTCTTGTCTTGTTCATTGTCG 59.511 43.478 0.00 0.00 0.00 4.35
2468 2511 5.597813 ATCGTCTTGTCTTGTTCATTGTC 57.402 39.130 0.00 0.00 0.00 3.18
2469 2512 7.490962 TTAATCGTCTTGTCTTGTTCATTGT 57.509 32.000 0.00 0.00 0.00 2.71
2470 2513 7.855409 TGTTTAATCGTCTTGTCTTGTTCATTG 59.145 33.333 0.00 0.00 0.00 2.82
2471 2514 7.925993 TGTTTAATCGTCTTGTCTTGTTCATT 58.074 30.769 0.00 0.00 0.00 2.57
2472 2515 7.490962 TGTTTAATCGTCTTGTCTTGTTCAT 57.509 32.000 0.00 0.00 0.00 2.57
2473 2516 6.912203 TGTTTAATCGTCTTGTCTTGTTCA 57.088 33.333 0.00 0.00 0.00 3.18
2474 2517 7.797819 AGATGTTTAATCGTCTTGTCTTGTTC 58.202 34.615 2.91 0.00 30.56 3.18
2475 2518 7.730364 AGATGTTTAATCGTCTTGTCTTGTT 57.270 32.000 2.91 0.00 30.56 2.83
2476 2519 9.088512 GATAGATGTTTAATCGTCTTGTCTTGT 57.911 33.333 12.38 0.00 35.60 3.16
2477 2520 9.087424 TGATAGATGTTTAATCGTCTTGTCTTG 57.913 33.333 12.38 0.00 35.60 3.02
2478 2521 9.823647 ATGATAGATGTTTAATCGTCTTGTCTT 57.176 29.630 12.38 7.86 35.60 3.01
2490 2533 9.923143 CGGTCCACTAATATGATAGATGTTTAA 57.077 33.333 0.00 0.00 0.00 1.52
2491 2534 8.033038 GCGGTCCACTAATATGATAGATGTTTA 58.967 37.037 0.00 0.00 0.00 2.01
2492 2535 6.874134 GCGGTCCACTAATATGATAGATGTTT 59.126 38.462 0.00 0.00 0.00 2.83
2493 2536 6.398918 GCGGTCCACTAATATGATAGATGTT 58.601 40.000 0.00 0.00 0.00 2.71
2494 2537 5.105310 GGCGGTCCACTAATATGATAGATGT 60.105 44.000 0.00 0.00 0.00 3.06
2495 2538 5.105351 TGGCGGTCCACTAATATGATAGATG 60.105 44.000 0.00 0.00 37.47 2.90
2496 2539 5.023452 TGGCGGTCCACTAATATGATAGAT 58.977 41.667 0.00 0.00 37.47 1.98
2497 2540 4.412843 TGGCGGTCCACTAATATGATAGA 58.587 43.478 0.00 0.00 37.47 1.98
2498 2541 4.801330 TGGCGGTCCACTAATATGATAG 57.199 45.455 0.00 0.00 37.47 2.08
2499 2542 4.161565 GGATGGCGGTCCACTAATATGATA 59.838 45.833 4.06 0.00 46.92 2.15
2500 2543 3.055094 GGATGGCGGTCCACTAATATGAT 60.055 47.826 4.06 0.00 46.92 2.45
2501 2544 2.301870 GGATGGCGGTCCACTAATATGA 59.698 50.000 4.06 0.00 46.92 2.15
2502 2545 2.038426 TGGATGGCGGTCCACTAATATG 59.962 50.000 7.28 0.00 46.92 1.78
2503 2546 2.334977 TGGATGGCGGTCCACTAATAT 58.665 47.619 7.28 0.00 46.92 1.28
2504 2547 1.796017 TGGATGGCGGTCCACTAATA 58.204 50.000 7.28 0.00 46.92 0.98
2505 2548 2.615244 TGGATGGCGGTCCACTAAT 58.385 52.632 7.28 0.00 46.92 1.73
2506 2549 4.138665 TGGATGGCGGTCCACTAA 57.861 55.556 7.28 0.00 46.92 2.24
2510 2553 2.034999 GGTTTGGATGGCGGTCCA 59.965 61.111 7.28 7.28 46.28 4.02


Based at the University of Bristol with support from BBSRC. BBSRC icon Bristol icon

AutoCloner maintained by Alex Coulton.