Multiple sequence alignment - TraesCS6B01G281500

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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 TraesCS6B01G281500 chr6B 100.000 2849 0 0 1 2849 507619683 507622531 0.000000e+00 5262.0
1 TraesCS6B01G281500 chr6B 96.902 1033 21 3 842 1874 364901574 364902595 0.000000e+00 1720.0
2 TraesCS6B01G281500 chr6B 88.742 151 16 1 374 524 364883059 364883208 1.740000e-42 183.0
3 TraesCS6B01G281500 chr6B 93.860 114 5 2 2219 2331 364902804 364902916 1.360000e-38 171.0
4 TraesCS6B01G281500 chr6B 95.385 65 2 1 2158 2222 364902712 364902775 5.020000e-18 102.0
5 TraesCS6B01G281500 chr6B 81.481 108 5 5 714 821 364899822 364899914 1.090000e-09 75.0
6 TraesCS6B01G281500 chr6D 97.712 2404 44 4 13 2407 316826673 316824272 0.000000e+00 4124.0
7 TraesCS6B01G281500 chr6D 96.663 1049 22 6 827 1874 237427303 237428339 0.000000e+00 1731.0
8 TraesCS6B01G281500 chr6D 96.575 292 10 0 2558 2849 316824280 316823989 4.270000e-133 484.0
9 TraesCS6B01G281500 chr6D 87.311 331 37 5 51 378 459039881 459040209 9.640000e-100 374.0
10 TraesCS6B01G281500 chr6D 86.875 320 42 0 57 376 202942603 202942922 2.700000e-95 359.0
11 TraesCS6B01G281500 chr6D 86.728 324 35 4 56 378 231732038 231731722 1.260000e-93 353.0
12 TraesCS6B01G281500 chr6D 93.860 114 5 2 2219 2331 237428554 237428666 1.360000e-38 171.0
13 TraesCS6B01G281500 chr6D 96.364 55 2 0 2158 2212 237428463 237428517 1.090000e-14 91.6
14 TraesCS6B01G281500 chr6D 100.000 31 0 0 545 575 237427230 237427260 1.100000e-04 58.4
15 TraesCS6B01G281500 chr6A 96.187 1049 25 7 827 1874 306047747 306046713 0.000000e+00 1701.0
16 TraesCS6B01G281500 chr6A 90.476 231 22 0 545 775 306048097 306047867 3.570000e-79 305.0
17 TraesCS6B01G281500 chr6A 92.982 114 6 2 2219 2331 306046500 306046388 6.310000e-37 165.0
18 TraesCS6B01G281500 chr6A 94.118 68 4 0 2158 2225 306046593 306046526 1.400000e-18 104.0
19 TraesCS6B01G281500 chr2D 82.233 833 136 12 1009 1835 419052017 419051191 0.000000e+00 708.0
20 TraesCS6B01G281500 chr2B 82.091 832 139 10 1009 1835 491355103 491354277 0.000000e+00 702.0
21 TraesCS6B01G281500 chr2B 87.888 322 38 1 58 379 679249243 679248923 7.450000e-101 377.0
22 TraesCS6B01G281500 chr2A 81.709 831 144 8 1009 1835 570724218 570725044 0.000000e+00 686.0
23 TraesCS6B01G281500 chr4D 87.267 322 41 0 58 379 392732195 392731874 4.480000e-98 368.0
24 TraesCS6B01G281500 chr4D 94.030 67 4 0 1621 1687 177490196 177490130 5.020000e-18 102.0
25 TraesCS6B01G281500 chr7A 86.392 316 43 0 61 376 508807463 508807778 2.100000e-91 346.0
26 TraesCS6B01G281500 chr7A 96.753 154 5 0 2405 2558 155307584 155307737 1.010000e-64 257.0
27 TraesCS6B01G281500 chr7B 85.373 335 44 4 56 388 3865521 3865852 2.720000e-90 342.0
28 TraesCS6B01G281500 chr7B 97.279 147 4 0 2413 2559 26033410 26033264 1.690000e-62 250.0
29 TraesCS6B01G281500 chr7B 95.333 150 7 0 2407 2556 606149853 606150002 3.670000e-59 239.0
30 TraesCS6B01G281500 chr7B 92.537 67 5 0 1621 1687 348950684 348950750 2.340000e-16 97.1
31 TraesCS6B01G281500 chr1D 85.538 325 47 0 56 380 127492741 127492417 9.780000e-90 340.0
32 TraesCS6B01G281500 chr1D 79.452 146 30 0 2661 2806 434373629 434373774 1.400000e-18 104.0
33 TraesCS6B01G281500 chr5D 95.833 168 5 2 2399 2565 497958402 497958236 1.300000e-68 270.0
34 TraesCS6B01G281500 chr1B 98.000 150 3 0 2408 2557 511449892 511449743 7.830000e-66 261.0
35 TraesCS6B01G281500 chr5B 97.351 151 4 0 2408 2558 81181831 81181681 1.010000e-64 257.0
36 TraesCS6B01G281500 chr4B 96.689 151 5 0 2408 2558 333517319 333517469 4.710000e-63 252.0
37 TraesCS6B01G281500 chr4B 75.385 130 29 3 2678 2806 620972626 620972753 3.070000e-05 60.2
38 TraesCS6B01G281500 chr4A 92.763 152 10 1 2408 2559 621736580 621736730 4.780000e-53 219.0
39 TraesCS6B01G281500 chr5A 93.396 106 7 0 2408 2513 22060793 22060898 1.060000e-34 158.0
40 TraesCS6B01G281500 chr7D 95.122 41 2 0 2643 2683 252245149 252245189 6.590000e-07 65.8


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 TraesCS6B01G281500 chr6B 507619683 507622531 2848 False 5262.00 5262 100.00000 1 2849 1 chr6B.!!$F2 2848
1 TraesCS6B01G281500 chr6B 364899822 364902916 3094 False 517.00 1720 91.90700 714 2331 4 chr6B.!!$F3 1617
2 TraesCS6B01G281500 chr6D 316823989 316826673 2684 True 2304.00 4124 97.14350 13 2849 2 chr6D.!!$R2 2836
3 TraesCS6B01G281500 chr6D 237427230 237428666 1436 False 513.00 1731 96.72175 545 2331 4 chr6D.!!$F3 1786
4 TraesCS6B01G281500 chr6A 306046388 306048097 1709 True 568.75 1701 93.44075 545 2331 4 chr6A.!!$R1 1786
5 TraesCS6B01G281500 chr2D 419051191 419052017 826 True 708.00 708 82.23300 1009 1835 1 chr2D.!!$R1 826
6 TraesCS6B01G281500 chr2B 491354277 491355103 826 True 702.00 702 82.09100 1009 1835 1 chr2B.!!$R1 826
7 TraesCS6B01G281500 chr2A 570724218 570725044 826 False 686.00 686 81.70900 1009 1835 1 chr2A.!!$F1 826

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
143 144 1.308877 AGGTCCCCAATGCATAGGTT 58.691 50.0 13.23 0.0 0.0 3.5 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1981 3696 0.389817 CGGGTGCACGAATCTCTCAA 60.39 55.0 11.45 0.0 35.47 3.02 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
50 51 6.099557 ACATCTTAGGGAGAGAGAAGAAATGG 59.900 42.308 0.00 0.00 37.93 3.16
70 71 2.769095 GGCACATCCTTAGACCTCTTCT 59.231 50.000 0.00 0.00 38.51 2.85
77 78 5.599999 TCCTTAGACCTCTTCTAATGCAC 57.400 43.478 0.00 0.00 44.35 4.57
143 144 1.308877 AGGTCCCCAATGCATAGGTT 58.691 50.000 13.23 0.00 0.00 3.50
245 246 8.754991 TCATTTAAGTGTTTTTCCTAGGTTCA 57.245 30.769 9.08 0.00 0.00 3.18
276 277 3.347216 CATTGTTTCTTCCTCGGGTCAT 58.653 45.455 0.00 0.00 0.00 3.06
280 281 2.939103 GTTTCTTCCTCGGGTCATCATG 59.061 50.000 0.00 0.00 0.00 3.07
331 332 5.392380 GGCACATCAGATTTTTCACCTACAG 60.392 44.000 0.00 0.00 0.00 2.74
358 359 3.868369 GCCTTAGCACATGTACAAGGTGA 60.868 47.826 26.23 10.39 38.41 4.02
393 394 2.436173 GCCTTATGGAGCCTAAGTGTCT 59.564 50.000 0.00 0.00 34.57 3.41
423 424 4.039151 TGTACACTTTAACGACGGTTCA 57.961 40.909 0.00 0.00 37.58 3.18
457 458 2.870411 AGTCACGCGCTAATTTATTCCC 59.130 45.455 5.73 0.00 0.00 3.97
460 461 3.311322 TCACGCGCTAATTTATTCCCAAG 59.689 43.478 5.73 0.00 0.00 3.61
468 469 7.075741 CGCTAATTTATTCCCAAGAAATACCG 58.924 38.462 0.00 0.00 35.09 4.02
838 2515 1.846124 AATCCACCCACTCCACCGT 60.846 57.895 0.00 0.00 0.00 4.83
903 2583 7.061673 CGCACTATGCTTCTTCTTCTATATCAC 59.938 40.741 0.00 0.00 42.25 3.06
1443 3123 1.000993 AGACCAGCTCCTCACCGAT 59.999 57.895 0.00 0.00 0.00 4.18
1584 3264 0.392706 TTGAGAAGAAGCAGGTCGCA 59.607 50.000 0.00 0.00 46.13 5.10
1619 3299 1.371558 GCTCCAGGTTCCTCGTTGT 59.628 57.895 0.00 0.00 0.00 3.32
1674 3354 2.766400 CGCGGAGGGAGAGAGTGAC 61.766 68.421 0.00 0.00 46.37 3.67
1780 3460 3.430862 GGGTGATTGCGCGCTCAA 61.431 61.111 33.29 19.92 34.92 3.02
1885 3600 9.268282 ACTTATCTTCCAGTTATCCTTCACTTA 57.732 33.333 0.00 0.00 0.00 2.24
1935 3650 0.669318 TCGACATCGGAAAGGTGTGC 60.669 55.000 0.73 0.00 45.82 4.57
1981 3696 5.065914 CCATTATCTGGTCCATCGAATTGT 58.934 41.667 0.00 0.00 40.49 2.71
2006 3721 1.352156 GATTCGTGCACCCGTCTGAC 61.352 60.000 12.15 0.00 0.00 3.51
2031 3746 1.199624 GCAGTGTTTTTCCAGCAACG 58.800 50.000 0.00 0.00 0.00 4.10
2055 3770 2.344950 CGGGCAGCTCAGATCATTATC 58.655 52.381 0.00 0.00 0.00 1.75
2058 3773 3.517100 GGGCAGCTCAGATCATTATCCTA 59.483 47.826 0.00 0.00 31.98 2.94
2128 3869 6.768381 GGATTTTATCGGAGAATGGAGACTTT 59.232 38.462 0.00 0.00 43.58 2.66
2131 3872 9.853177 ATTTTATCGGAGAATGGAGACTTTTAT 57.147 29.630 0.00 0.00 43.58 1.40
2136 3877 8.662781 TCGGAGAATGGAGACTTTTATAATTG 57.337 34.615 0.00 0.00 0.00 2.32
2137 3878 8.265055 TCGGAGAATGGAGACTTTTATAATTGT 58.735 33.333 0.00 0.00 0.00 2.71
2138 3879 8.338259 CGGAGAATGGAGACTTTTATAATTGTG 58.662 37.037 0.00 0.00 0.00 3.33
2139 3880 8.131731 GGAGAATGGAGACTTTTATAATTGTGC 58.868 37.037 0.00 0.00 0.00 4.57
2140 3881 8.814038 AGAATGGAGACTTTTATAATTGTGCT 57.186 30.769 0.00 0.00 0.00 4.40
2141 3882 9.905713 AGAATGGAGACTTTTATAATTGTGCTA 57.094 29.630 0.00 0.00 0.00 3.49
2142 3883 9.937175 GAATGGAGACTTTTATAATTGTGCTAC 57.063 33.333 0.00 0.00 0.00 3.58
2143 3884 9.686683 AATGGAGACTTTTATAATTGTGCTACT 57.313 29.630 0.00 0.00 0.00 2.57
2144 3885 8.718102 TGGAGACTTTTATAATTGTGCTACTC 57.282 34.615 0.00 0.00 0.00 2.59
2145 3886 8.318412 TGGAGACTTTTATAATTGTGCTACTCA 58.682 33.333 0.00 0.00 0.00 3.41
2146 3887 9.331282 GGAGACTTTTATAATTGTGCTACTCAT 57.669 33.333 0.00 0.00 0.00 2.90
2148 3889 9.890629 AGACTTTTATAATTGTGCTACTCATCA 57.109 29.630 0.00 0.00 0.00 3.07
2155 3896 6.839124 AATTGTGCTACTCATCAATTTCCA 57.161 33.333 0.00 0.00 35.18 3.53
2156 3897 5.885230 TTGTGCTACTCATCAATTTCCAG 57.115 39.130 0.00 0.00 0.00 3.86
2179 3920 8.048534 CAGTTATGGAAGAGTCATTGAACAAT 57.951 34.615 0.00 0.00 0.00 2.71
2409 4197 4.157817 GCTGCATTTGCCAACGAG 57.842 55.556 0.00 0.00 41.18 4.18
2410 4198 1.286880 GCTGCATTTGCCAACGAGT 59.713 52.632 0.00 0.00 41.18 4.18
2411 4199 1.005294 GCTGCATTTGCCAACGAGTG 61.005 55.000 0.00 0.00 41.18 3.51
2412 4200 1.005294 CTGCATTTGCCAACGAGTGC 61.005 55.000 0.00 0.00 41.96 4.40
2413 4201 1.286880 GCATTTGCCAACGAGTGCT 59.713 52.632 0.00 0.00 39.28 4.40
2414 4202 1.005294 GCATTTGCCAACGAGTGCTG 61.005 55.000 0.00 0.00 39.28 4.41
2415 4203 1.005294 CATTTGCCAACGAGTGCTGC 61.005 55.000 0.00 0.00 0.00 5.25
2416 4204 1.174712 ATTTGCCAACGAGTGCTGCT 61.175 50.000 0.00 0.00 0.00 4.24
2417 4205 0.533978 TTTGCCAACGAGTGCTGCTA 60.534 50.000 0.00 0.00 0.00 3.49
2418 4206 1.227999 TTGCCAACGAGTGCTGCTAC 61.228 55.000 0.00 0.00 0.00 3.58
2419 4207 1.667830 GCCAACGAGTGCTGCTACA 60.668 57.895 0.00 0.00 0.00 2.74
2420 4208 1.901650 GCCAACGAGTGCTGCTACAC 61.902 60.000 0.00 1.90 41.02 2.90
2421 4209 0.599991 CCAACGAGTGCTGCTACACA 60.600 55.000 11.44 0.00 43.23 3.72
2422 4210 0.508641 CAACGAGTGCTGCTACACAC 59.491 55.000 11.44 5.07 43.23 3.82
2423 4211 0.104120 AACGAGTGCTGCTACACACA 59.896 50.000 11.44 0.00 43.23 3.72
2424 4212 0.597637 ACGAGTGCTGCTACACACAC 60.598 55.000 11.44 0.00 43.23 3.82
2425 4213 1.608966 CGAGTGCTGCTACACACACG 61.609 60.000 11.44 8.02 43.23 4.49
2426 4214 0.318699 GAGTGCTGCTACACACACGA 60.319 55.000 11.44 0.00 43.23 4.35
2427 4215 0.597637 AGTGCTGCTACACACACGAC 60.598 55.000 11.44 0.00 43.23 4.34
2428 4216 1.660264 TGCTGCTACACACACGACG 60.660 57.895 0.00 0.00 0.00 5.12
2429 4217 2.372690 GCTGCTACACACACGACGG 61.373 63.158 0.00 0.00 0.00 4.79
2430 4218 1.007734 CTGCTACACACACGACGGT 60.008 57.895 0.00 0.00 0.00 4.83
2431 4219 0.596600 CTGCTACACACACGACGGTT 60.597 55.000 0.00 0.00 0.00 4.44
2432 4220 0.872451 TGCTACACACACGACGGTTG 60.872 55.000 0.00 0.00 0.00 3.77
2433 4221 0.872881 GCTACACACACGACGGTTGT 60.873 55.000 0.00 0.00 0.00 3.32
2434 4222 0.850217 CTACACACACGACGGTTGTG 59.150 55.000 23.67 23.67 42.99 3.33
2435 4223 0.528033 TACACACACGACGGTTGTGG 60.528 55.000 27.46 19.52 41.64 4.17
2436 4224 1.519676 CACACACGACGGTTGTGGA 60.520 57.895 27.46 0.00 41.64 4.02
2437 4225 1.519898 ACACACGACGGTTGTGGAC 60.520 57.895 27.46 0.00 41.64 4.02
2438 4226 2.278989 ACACGACGGTTGTGGACG 60.279 61.111 27.46 8.12 41.64 4.79
2439 4227 2.026445 CACGACGGTTGTGGACGA 59.974 61.111 18.86 0.00 33.69 4.20
2440 4228 1.372499 CACGACGGTTGTGGACGAT 60.372 57.895 18.86 0.00 33.69 3.73
2441 4229 1.080974 ACGACGGTTGTGGACGATC 60.081 57.895 0.00 0.00 0.00 3.69
2442 4230 1.211969 CGACGGTTGTGGACGATCT 59.788 57.895 0.00 0.00 0.00 2.75
2443 4231 0.797249 CGACGGTTGTGGACGATCTC 60.797 60.000 0.00 0.00 0.00 2.75
2444 4232 0.458025 GACGGTTGTGGACGATCTCC 60.458 60.000 0.00 4.71 39.97 3.71
2445 4233 1.516386 CGGTTGTGGACGATCTCCG 60.516 63.158 0.00 0.00 43.03 4.63
2450 4238 2.748647 TGGACGATCTCCGCACGA 60.749 61.111 0.00 0.00 43.03 4.35
2451 4239 2.119029 TGGACGATCTCCGCACGAT 61.119 57.895 0.00 0.00 43.03 3.73
2452 4240 1.658717 GGACGATCTCCGCACGATG 60.659 63.158 0.00 0.00 43.32 3.84
2453 4241 1.355563 GACGATCTCCGCACGATGA 59.644 57.895 0.00 0.00 43.32 2.92
2454 4242 0.248498 GACGATCTCCGCACGATGAA 60.248 55.000 0.00 0.00 43.32 2.57
2455 4243 0.248661 ACGATCTCCGCACGATGAAG 60.249 55.000 0.00 0.00 43.32 3.02
2456 4244 1.543941 CGATCTCCGCACGATGAAGC 61.544 60.000 0.00 0.00 0.00 3.86
2457 4245 0.528466 GATCTCCGCACGATGAAGCA 60.528 55.000 0.00 0.00 0.00 3.91
2458 4246 0.105593 ATCTCCGCACGATGAAGCAT 59.894 50.000 0.00 0.00 0.00 3.79
2459 4247 0.744281 TCTCCGCACGATGAAGCATA 59.256 50.000 0.00 0.00 0.00 3.14
2460 4248 1.341209 TCTCCGCACGATGAAGCATAT 59.659 47.619 0.00 0.00 0.00 1.78
2461 4249 1.723542 CTCCGCACGATGAAGCATATC 59.276 52.381 0.00 0.00 0.00 1.63
2462 4250 1.068434 TCCGCACGATGAAGCATATCA 59.932 47.619 0.00 0.00 0.00 2.15
2463 4251 1.866601 CCGCACGATGAAGCATATCAA 59.133 47.619 0.00 0.00 32.06 2.57
2464 4252 2.481568 CCGCACGATGAAGCATATCAAT 59.518 45.455 0.00 0.00 32.06 2.57
2465 4253 3.424039 CCGCACGATGAAGCATATCAATC 60.424 47.826 0.00 0.00 32.06 2.67
2466 4254 3.424039 CGCACGATGAAGCATATCAATCC 60.424 47.826 0.00 0.00 32.06 3.01
2467 4255 3.424039 GCACGATGAAGCATATCAATCCG 60.424 47.826 0.00 0.00 32.06 4.18
2468 4256 3.742882 CACGATGAAGCATATCAATCCGT 59.257 43.478 0.00 0.00 35.70 4.69
2469 4257 3.990469 ACGATGAAGCATATCAATCCGTC 59.010 43.478 0.00 0.00 32.49 4.79
2470 4258 3.369147 CGATGAAGCATATCAATCCGTCC 59.631 47.826 0.00 0.00 32.06 4.79
2471 4259 3.836365 TGAAGCATATCAATCCGTCCA 57.164 42.857 0.00 0.00 0.00 4.02
2472 4260 4.356405 TGAAGCATATCAATCCGTCCAT 57.644 40.909 0.00 0.00 0.00 3.41
2473 4261 4.067192 TGAAGCATATCAATCCGTCCATG 58.933 43.478 0.00 0.00 0.00 3.66
2474 4262 2.430465 AGCATATCAATCCGTCCATGC 58.570 47.619 0.00 0.00 39.19 4.06
2475 4263 1.129251 GCATATCAATCCGTCCATGCG 59.871 52.381 0.00 0.00 30.62 4.73
2476 4264 2.416747 CATATCAATCCGTCCATGCGT 58.583 47.619 0.00 0.00 0.00 5.24
2477 4265 2.148916 TATCAATCCGTCCATGCGTC 57.851 50.000 0.00 0.00 0.00 5.19
2478 4266 0.875908 ATCAATCCGTCCATGCGTCG 60.876 55.000 0.00 0.00 0.00 5.12
2479 4267 1.518352 CAATCCGTCCATGCGTCGA 60.518 57.895 0.00 0.00 0.00 4.20
2480 4268 0.875908 CAATCCGTCCATGCGTCGAT 60.876 55.000 0.00 0.00 0.00 3.59
2481 4269 0.179084 AATCCGTCCATGCGTCGATT 60.179 50.000 0.00 0.00 0.00 3.34
2482 4270 0.597637 ATCCGTCCATGCGTCGATTC 60.598 55.000 0.00 0.00 0.00 2.52
2483 4271 1.518352 CCGTCCATGCGTCGATTCA 60.518 57.895 0.00 0.00 0.00 2.57
2484 4272 1.081556 CCGTCCATGCGTCGATTCAA 61.082 55.000 0.00 0.00 0.00 2.69
2485 4273 0.718904 CGTCCATGCGTCGATTCAAA 59.281 50.000 0.00 0.00 0.00 2.69
2486 4274 1.267038 CGTCCATGCGTCGATTCAAAG 60.267 52.381 0.00 0.00 0.00 2.77
2487 4275 1.732259 GTCCATGCGTCGATTCAAAGT 59.268 47.619 0.00 0.00 0.00 2.66
2488 4276 1.731709 TCCATGCGTCGATTCAAAGTG 59.268 47.619 0.00 0.00 0.00 3.16
2489 4277 1.731709 CCATGCGTCGATTCAAAGTGA 59.268 47.619 0.00 0.00 0.00 3.41
2490 4278 2.159430 CCATGCGTCGATTCAAAGTGAA 59.841 45.455 0.00 0.00 41.09 3.18
2491 4279 2.941891 TGCGTCGATTCAAAGTGAAC 57.058 45.000 0.00 0.00 39.45 3.18
2492 4280 1.529438 TGCGTCGATTCAAAGTGAACC 59.471 47.619 0.00 0.00 39.45 3.62
2493 4281 1.798813 GCGTCGATTCAAAGTGAACCT 59.201 47.619 0.00 0.00 39.45 3.50
2494 4282 2.991190 GCGTCGATTCAAAGTGAACCTA 59.009 45.455 0.00 0.00 39.45 3.08
2495 4283 3.181533 GCGTCGATTCAAAGTGAACCTAC 60.182 47.826 0.00 0.00 39.45 3.18
2496 4284 3.985279 CGTCGATTCAAAGTGAACCTACA 59.015 43.478 0.00 0.00 39.45 2.74
2497 4285 4.143389 CGTCGATTCAAAGTGAACCTACAC 60.143 45.833 0.00 0.00 39.45 2.90
2510 4298 7.592439 GTGAACCTACACTGTTAAATACTCC 57.408 40.000 0.00 0.00 37.73 3.85
2511 4299 7.156673 GTGAACCTACACTGTTAAATACTCCA 58.843 38.462 0.00 0.00 37.73 3.86
2512 4300 7.822822 GTGAACCTACACTGTTAAATACTCCAT 59.177 37.037 0.00 0.00 37.73 3.41
2513 4301 8.038944 TGAACCTACACTGTTAAATACTCCATC 58.961 37.037 0.00 0.00 0.00 3.51
2514 4302 6.570692 ACCTACACTGTTAAATACTCCATCG 58.429 40.000 0.00 0.00 0.00 3.84
2515 4303 6.154021 ACCTACACTGTTAAATACTCCATCGT 59.846 38.462 0.00 0.00 0.00 3.73
2516 4304 6.475727 CCTACACTGTTAAATACTCCATCGTG 59.524 42.308 0.00 0.00 0.00 4.35
2517 4305 4.630069 ACACTGTTAAATACTCCATCGTGC 59.370 41.667 0.00 0.00 0.00 5.34
2518 4306 3.863424 ACTGTTAAATACTCCATCGTGCG 59.137 43.478 0.00 0.00 0.00 5.34
2519 4307 2.605818 TGTTAAATACTCCATCGTGCGC 59.394 45.455 0.00 0.00 0.00 6.09
2520 4308 2.588027 TAAATACTCCATCGTGCGCA 57.412 45.000 5.66 5.66 0.00 6.09
2521 4309 1.290203 AAATACTCCATCGTGCGCAG 58.710 50.000 12.22 5.26 0.00 5.18
2522 4310 0.175760 AATACTCCATCGTGCGCAGT 59.824 50.000 12.22 5.77 0.00 4.40
2523 4311 0.175760 ATACTCCATCGTGCGCAGTT 59.824 50.000 12.22 0.00 0.00 3.16
2524 4312 0.457853 TACTCCATCGTGCGCAGTTC 60.458 55.000 12.22 0.00 0.00 3.01
2525 4313 2.792290 CTCCATCGTGCGCAGTTCG 61.792 63.158 12.22 12.20 42.12 3.95
2526 4314 3.112075 CCATCGTGCGCAGTTCGT 61.112 61.111 12.22 0.00 41.07 3.85
2527 4315 2.391821 CATCGTGCGCAGTTCGTC 59.608 61.111 12.22 0.00 41.07 4.20
2528 4316 2.809601 ATCGTGCGCAGTTCGTCC 60.810 61.111 12.22 0.00 41.07 4.79
2533 4321 4.789075 GCGCAGTTCGTCCGGCTA 62.789 66.667 0.30 0.00 41.07 3.93
2534 4322 2.104331 CGCAGTTCGTCCGGCTAT 59.896 61.111 0.00 0.00 0.00 2.97
2535 4323 1.518572 CGCAGTTCGTCCGGCTATT 60.519 57.895 0.00 0.00 0.00 1.73
2536 4324 1.752501 CGCAGTTCGTCCGGCTATTG 61.753 60.000 0.00 0.00 0.00 1.90
2537 4325 0.739813 GCAGTTCGTCCGGCTATTGT 60.740 55.000 0.00 0.00 0.00 2.71
2538 4326 1.278238 CAGTTCGTCCGGCTATTGTC 58.722 55.000 0.00 0.00 0.00 3.18
2539 4327 0.179145 AGTTCGTCCGGCTATTGTCG 60.179 55.000 0.00 0.00 41.54 4.35
2540 4328 0.457337 GTTCGTCCGGCTATTGTCGT 60.457 55.000 0.00 0.00 40.05 4.34
2541 4329 0.179156 TTCGTCCGGCTATTGTCGTC 60.179 55.000 0.00 0.00 40.05 4.20
2542 4330 1.588139 CGTCCGGCTATTGTCGTCC 60.588 63.158 0.00 0.00 40.05 4.79
2543 4331 1.514087 GTCCGGCTATTGTCGTCCA 59.486 57.895 0.00 0.00 40.05 4.02
2544 4332 0.804933 GTCCGGCTATTGTCGTCCAC 60.805 60.000 0.00 0.00 40.05 4.02
2545 4333 1.216977 CCGGCTATTGTCGTCCACA 59.783 57.895 0.00 0.00 40.05 4.17
2546 4334 1.082117 CCGGCTATTGTCGTCCACAC 61.082 60.000 0.00 0.00 40.05 3.82
2547 4335 0.389296 CGGCTATTGTCGTCCACACA 60.389 55.000 0.00 0.00 36.42 3.72
2548 4336 1.359848 GGCTATTGTCGTCCACACAG 58.640 55.000 0.00 0.00 33.41 3.66
2549 4337 0.721718 GCTATTGTCGTCCACACAGC 59.278 55.000 0.00 0.00 36.58 4.40
2550 4338 1.939381 GCTATTGTCGTCCACACAGCA 60.939 52.381 0.00 0.00 40.71 4.41
2551 4339 1.995484 CTATTGTCGTCCACACAGCAG 59.005 52.381 0.00 0.00 33.41 4.24
2552 4340 0.106708 ATTGTCGTCCACACAGCAGT 59.893 50.000 0.00 0.00 33.41 4.40
2553 4341 0.107897 TTGTCGTCCACACAGCAGTT 60.108 50.000 0.00 0.00 33.41 3.16
2554 4342 0.107897 TGTCGTCCACACAGCAGTTT 60.108 50.000 0.00 0.00 0.00 2.66
2555 4343 0.582005 GTCGTCCACACAGCAGTTTC 59.418 55.000 0.00 0.00 0.00 2.78
2556 4344 0.874175 TCGTCCACACAGCAGTTTCG 60.874 55.000 0.00 0.00 0.00 3.46
2557 4345 1.151777 CGTCCACACAGCAGTTTCGT 61.152 55.000 0.00 0.00 0.00 3.85
2558 4346 1.014352 GTCCACACAGCAGTTTCGTT 58.986 50.000 0.00 0.00 0.00 3.85
2559 4347 1.400494 GTCCACACAGCAGTTTCGTTT 59.600 47.619 0.00 0.00 0.00 3.60
2560 4348 1.400142 TCCACACAGCAGTTTCGTTTG 59.600 47.619 0.00 0.00 0.00 2.93
2561 4349 1.191096 CACACAGCAGTTTCGTTTGC 58.809 50.000 0.00 0.00 40.57 3.68
2592 4380 9.726438 ACTACATCTACTTGCAGTTAATCTTTT 57.274 29.630 0.00 0.00 0.00 2.27
2603 4391 6.015856 TGCAGTTAATCTTTTCCCGATTTTCA 60.016 34.615 0.00 0.00 33.47 2.69
2617 4405 8.712285 TCCCGATTTTCATTTTACTACTAGTG 57.288 34.615 5.39 0.00 0.00 2.74
2641 4429 8.404000 GTGTAGTACTAGAACTAGCTATTTGCA 58.596 37.037 1.87 0.00 45.94 4.08
2656 4444 1.065436 TGCATGTGTGTTGCAACGG 59.935 52.632 23.79 10.24 46.48 4.44
2725 4513 9.903682 GTATACCTTACGCTCATTGTATTCTAA 57.096 33.333 0.00 0.00 0.00 2.10
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 2.017559 GCGCCTCTTCGGGTGTCTAT 62.018 60.000 0.00 0.00 38.94 1.98
8 9 4.508128 TAAGCGGCGCCTCTTCGG 62.508 66.667 33.45 13.82 0.00 4.30
9 10 3.255379 GTAAGCGGCGCCTCTTCG 61.255 66.667 33.45 16.72 0.00 3.79
10 11 1.491505 GATGTAAGCGGCGCCTCTTC 61.492 60.000 33.45 23.65 0.00 2.87
11 12 1.521681 GATGTAAGCGGCGCCTCTT 60.522 57.895 32.24 32.24 0.00 2.85
50 51 5.599999 TTAGAAGAGGTCTAAGGATGTGC 57.400 43.478 0.00 0.00 42.74 4.57
77 78 1.908066 GCACCTCGTTTAAGCACCGG 61.908 60.000 0.00 0.00 0.00 5.28
143 144 7.447238 AGGATGCTTAGCTACAACAAGTTAAAA 59.553 33.333 5.60 0.00 0.00 1.52
193 194 2.605030 CCCACCAATGCATGTAAAACG 58.395 47.619 0.00 0.00 0.00 3.60
199 200 0.251922 AGAAGCCCACCAATGCATGT 60.252 50.000 0.00 0.00 0.00 3.21
245 246 1.371635 GAAACAATGCCAAGCGCGT 60.372 52.632 8.43 0.00 42.08 6.01
276 277 2.973710 AGATGAGAGAGATGGGCATGA 58.026 47.619 0.00 0.00 0.00 3.07
280 281 6.013812 AGGTAATTAAGATGAGAGAGATGGGC 60.014 42.308 0.00 0.00 0.00 5.36
331 332 0.107214 TACATGTGCTAAGGCTGCCC 60.107 55.000 16.57 0.00 39.59 5.36
393 394 3.555139 CGTTAAAGTGTACAACCCGAACA 59.445 43.478 0.00 0.00 0.00 3.18
423 424 4.630069 AGCGCGTGACTTTTACTCATTAAT 59.370 37.500 8.43 0.00 0.00 1.40
613 614 5.048846 TGGAATCTAAGGGGAGCAATAAC 57.951 43.478 0.00 0.00 0.00 1.89
838 2515 2.198827 CCTGATTGGCCTGTTGTGTA 57.801 50.000 3.32 0.00 0.00 2.90
903 2583 3.726782 GCCTTTAACGCTGTACCATTTCG 60.727 47.826 0.00 0.00 0.00 3.46
954 2634 2.350134 GTTGGGGTCTCGGGGTTC 59.650 66.667 0.00 0.00 0.00 3.62
1443 3123 3.371063 GCAGAGACGTGGGGACGA 61.371 66.667 0.00 0.00 36.85 4.20
1619 3299 3.292500 CTCTCCTGCTCTGCACGCA 62.293 63.158 5.86 5.86 33.79 5.24
1674 3354 2.279120 GAGATGAGCCGTGCGGAG 60.279 66.667 15.45 0.00 37.50 4.63
1838 3518 0.803380 GCAATTCATTCAGCGGGCAC 60.803 55.000 0.00 0.00 0.00 5.01
1845 3525 6.095860 TGGAAGATAAGTGGCAATTCATTCAG 59.904 38.462 2.32 0.00 0.00 3.02
1935 3650 0.982852 TGGGCACATCTGGGAGTAGG 60.983 60.000 0.00 0.00 0.00 3.18
1981 3696 0.389817 CGGGTGCACGAATCTCTCAA 60.390 55.000 11.45 0.00 35.47 3.02
2055 3770 9.152595 GGAGAACATGAACTAGTACTTTTTAGG 57.847 37.037 0.00 0.00 0.00 2.69
2058 3773 9.274206 GAAGGAGAACATGAACTAGTACTTTTT 57.726 33.333 0.00 0.00 0.00 1.94
2131 3872 7.611467 ACTGGAAATTGATGAGTAGCACAATTA 59.389 33.333 0.00 0.00 37.30 1.40
2132 3873 6.435277 ACTGGAAATTGATGAGTAGCACAATT 59.565 34.615 0.00 0.00 38.58 2.32
2133 3874 5.948162 ACTGGAAATTGATGAGTAGCACAAT 59.052 36.000 0.00 0.00 33.00 2.71
2134 3875 5.316167 ACTGGAAATTGATGAGTAGCACAA 58.684 37.500 0.00 0.00 0.00 3.33
2135 3876 4.910195 ACTGGAAATTGATGAGTAGCACA 58.090 39.130 0.00 0.00 0.00 4.57
2136 3877 5.886960 AACTGGAAATTGATGAGTAGCAC 57.113 39.130 0.00 0.00 0.00 4.40
2137 3878 6.543465 CCATAACTGGAAATTGATGAGTAGCA 59.457 38.462 0.00 0.00 46.37 3.49
2138 3879 6.963796 CCATAACTGGAAATTGATGAGTAGC 58.036 40.000 0.00 0.00 46.37 3.58
2153 3894 5.939883 TGTTCAATGACTCTTCCATAACTGG 59.060 40.000 0.00 0.00 44.64 4.00
2154 3895 7.439157 TTGTTCAATGACTCTTCCATAACTG 57.561 36.000 0.00 0.00 0.00 3.16
2155 3896 8.517878 CAATTGTTCAATGACTCTTCCATAACT 58.482 33.333 0.00 0.00 0.00 2.24
2156 3897 8.299570 ACAATTGTTCAATGACTCTTCCATAAC 58.700 33.333 4.92 0.00 0.00 1.89
2402 4190 0.599991 TGTGTAGCAGCACTCGTTGG 60.600 55.000 11.09 0.00 39.89 3.77
2403 4191 0.508641 GTGTGTAGCAGCACTCGTTG 59.491 55.000 11.09 0.00 39.89 4.10
2404 4192 0.104120 TGTGTGTAGCAGCACTCGTT 59.896 50.000 11.09 0.00 39.89 3.85
2405 4193 0.597637 GTGTGTGTAGCAGCACTCGT 60.598 55.000 11.09 0.00 39.89 4.18
2406 4194 1.608966 CGTGTGTGTAGCAGCACTCG 61.609 60.000 11.09 9.90 42.91 4.18
2407 4195 0.318699 TCGTGTGTGTAGCAGCACTC 60.319 55.000 11.09 8.46 39.89 3.51
2408 4196 0.597637 GTCGTGTGTGTAGCAGCACT 60.598 55.000 11.09 0.00 39.89 4.40
2409 4197 1.853319 GTCGTGTGTGTAGCAGCAC 59.147 57.895 0.00 4.04 39.65 4.40
2410 4198 1.660264 CGTCGTGTGTGTAGCAGCA 60.660 57.895 0.00 0.00 0.00 4.41
2411 4199 2.372690 CCGTCGTGTGTGTAGCAGC 61.373 63.158 0.00 0.00 0.00 5.25
2412 4200 0.596600 AACCGTCGTGTGTGTAGCAG 60.597 55.000 0.00 0.00 0.00 4.24
2413 4201 0.872451 CAACCGTCGTGTGTGTAGCA 60.872 55.000 0.00 0.00 0.00 3.49
2414 4202 0.872881 ACAACCGTCGTGTGTGTAGC 60.873 55.000 0.00 0.00 0.00 3.58
2415 4203 0.850217 CACAACCGTCGTGTGTGTAG 59.150 55.000 14.31 0.00 41.22 2.74
2416 4204 0.528033 CCACAACCGTCGTGTGTGTA 60.528 55.000 18.69 0.00 44.00 2.90
2417 4205 1.812093 CCACAACCGTCGTGTGTGT 60.812 57.895 18.69 9.00 44.00 3.72
2418 4206 1.519676 TCCACAACCGTCGTGTGTG 60.520 57.895 15.18 15.18 44.00 3.82
2419 4207 1.519898 GTCCACAACCGTCGTGTGT 60.520 57.895 13.13 4.16 44.00 3.72
2420 4208 2.582265 CGTCCACAACCGTCGTGTG 61.582 63.158 8.59 8.59 44.90 3.82
2421 4209 2.079020 ATCGTCCACAACCGTCGTGT 62.079 55.000 0.00 0.00 32.26 4.49
2422 4210 1.342082 GATCGTCCACAACCGTCGTG 61.342 60.000 0.00 0.00 0.00 4.35
2423 4211 1.080974 GATCGTCCACAACCGTCGT 60.081 57.895 0.00 0.00 0.00 4.34
2424 4212 0.797249 GAGATCGTCCACAACCGTCG 60.797 60.000 0.00 0.00 0.00 5.12
2425 4213 0.458025 GGAGATCGTCCACAACCGTC 60.458 60.000 6.39 0.00 46.10 4.79
2426 4214 1.590147 GGAGATCGTCCACAACCGT 59.410 57.895 6.39 0.00 46.10 4.83
2427 4215 4.496670 GGAGATCGTCCACAACCG 57.503 61.111 6.39 0.00 46.10 4.44
2434 4222 1.658717 CATCGTGCGGAGATCGTCC 60.659 63.158 2.13 2.13 42.85 4.79
2435 4223 0.248498 TTCATCGTGCGGAGATCGTC 60.248 55.000 0.00 0.00 41.72 4.20
2436 4224 0.248661 CTTCATCGTGCGGAGATCGT 60.249 55.000 0.00 0.00 41.72 3.73
2437 4225 1.543941 GCTTCATCGTGCGGAGATCG 61.544 60.000 0.00 0.00 42.76 3.69
2438 4226 0.528466 TGCTTCATCGTGCGGAGATC 60.528 55.000 0.00 0.00 0.00 2.75
2439 4227 0.105593 ATGCTTCATCGTGCGGAGAT 59.894 50.000 0.00 0.00 0.00 2.75
2440 4228 0.744281 TATGCTTCATCGTGCGGAGA 59.256 50.000 0.00 0.00 0.00 3.71
2441 4229 1.723542 GATATGCTTCATCGTGCGGAG 59.276 52.381 0.00 0.00 0.00 4.63
2442 4230 1.068434 TGATATGCTTCATCGTGCGGA 59.932 47.619 0.00 0.00 0.00 5.54
2443 4231 1.501169 TGATATGCTTCATCGTGCGG 58.499 50.000 0.00 0.00 0.00 5.69
2444 4232 3.424039 GGATTGATATGCTTCATCGTGCG 60.424 47.826 0.00 0.00 0.00 5.34
2445 4233 3.424039 CGGATTGATATGCTTCATCGTGC 60.424 47.826 0.00 0.00 0.00 5.34
2446 4234 3.742882 ACGGATTGATATGCTTCATCGTG 59.257 43.478 0.00 0.00 31.15 4.35
2447 4235 3.990469 GACGGATTGATATGCTTCATCGT 59.010 43.478 0.00 0.00 33.26 3.73
2448 4236 3.369147 GGACGGATTGATATGCTTCATCG 59.631 47.826 0.00 0.00 0.00 3.84
2449 4237 4.318332 TGGACGGATTGATATGCTTCATC 58.682 43.478 0.00 0.00 0.00 2.92
2450 4238 4.356405 TGGACGGATTGATATGCTTCAT 57.644 40.909 0.00 0.00 0.00 2.57
2451 4239 3.836365 TGGACGGATTGATATGCTTCA 57.164 42.857 0.00 0.00 0.00 3.02
2452 4240 3.120060 GCATGGACGGATTGATATGCTTC 60.120 47.826 0.00 0.00 38.23 3.86
2453 4241 2.816087 GCATGGACGGATTGATATGCTT 59.184 45.455 0.00 0.00 38.23 3.91
2454 4242 2.430465 GCATGGACGGATTGATATGCT 58.570 47.619 0.00 0.00 38.23 3.79
2455 4243 1.129251 CGCATGGACGGATTGATATGC 59.871 52.381 0.00 0.00 37.98 3.14
2456 4244 2.413112 GACGCATGGACGGATTGATATG 59.587 50.000 0.00 0.00 37.37 1.78
2457 4245 2.688507 GACGCATGGACGGATTGATAT 58.311 47.619 0.00 0.00 37.37 1.63
2458 4246 1.601914 CGACGCATGGACGGATTGATA 60.602 52.381 0.00 0.00 37.37 2.15
2459 4247 0.875908 CGACGCATGGACGGATTGAT 60.876 55.000 0.00 0.00 37.37 2.57
2460 4248 1.518352 CGACGCATGGACGGATTGA 60.518 57.895 0.00 0.00 37.37 2.57
2461 4249 0.875908 ATCGACGCATGGACGGATTG 60.876 55.000 0.00 0.00 37.37 2.67
2462 4250 0.179084 AATCGACGCATGGACGGATT 60.179 50.000 0.00 0.00 37.37 3.01
2463 4251 0.597637 GAATCGACGCATGGACGGAT 60.598 55.000 0.00 0.00 37.37 4.18
2464 4252 1.226859 GAATCGACGCATGGACGGA 60.227 57.895 0.00 0.00 37.37 4.69
2465 4253 1.081556 TTGAATCGACGCATGGACGG 61.082 55.000 0.00 0.00 37.37 4.79
2466 4254 0.718904 TTTGAATCGACGCATGGACG 59.281 50.000 0.00 0.00 39.50 4.79
2467 4255 1.732259 ACTTTGAATCGACGCATGGAC 59.268 47.619 0.00 0.00 0.00 4.02
2468 4256 1.731709 CACTTTGAATCGACGCATGGA 59.268 47.619 0.00 0.00 0.00 3.41
2469 4257 1.731709 TCACTTTGAATCGACGCATGG 59.268 47.619 0.00 0.00 0.00 3.66
2470 4258 3.155998 GTTCACTTTGAATCGACGCATG 58.844 45.455 0.00 0.00 38.79 4.06
2471 4259 2.159627 GGTTCACTTTGAATCGACGCAT 59.840 45.455 0.00 0.00 38.79 4.73
2472 4260 1.529438 GGTTCACTTTGAATCGACGCA 59.471 47.619 0.00 0.00 38.79 5.24
2473 4261 1.798813 AGGTTCACTTTGAATCGACGC 59.201 47.619 0.00 0.00 42.12 5.19
2474 4262 3.985279 TGTAGGTTCACTTTGAATCGACG 59.015 43.478 7.60 0.00 43.20 5.12
2475 4263 4.989168 AGTGTAGGTTCACTTTGAATCGAC 59.011 41.667 5.70 5.70 44.92 4.20
2476 4264 4.988540 CAGTGTAGGTTCACTTTGAATCGA 59.011 41.667 0.00 0.00 44.92 3.59
2477 4265 4.750098 ACAGTGTAGGTTCACTTTGAATCG 59.250 41.667 0.00 0.00 44.92 3.34
2478 4266 6.619801 AACAGTGTAGGTTCACTTTGAATC 57.380 37.500 0.00 0.00 44.92 2.52
2479 4267 8.514330 TTTAACAGTGTAGGTTCACTTTGAAT 57.486 30.769 0.00 0.00 44.92 2.57
2480 4268 7.925043 TTTAACAGTGTAGGTTCACTTTGAA 57.075 32.000 0.00 0.00 44.92 2.69
2481 4269 9.048446 GTATTTAACAGTGTAGGTTCACTTTGA 57.952 33.333 0.00 0.00 44.92 2.69
2482 4270 9.052759 AGTATTTAACAGTGTAGGTTCACTTTG 57.947 33.333 0.00 0.00 44.92 2.77
2483 4271 9.269453 GAGTATTTAACAGTGTAGGTTCACTTT 57.731 33.333 0.00 0.00 44.92 2.66
2484 4272 7.876582 GGAGTATTTAACAGTGTAGGTTCACTT 59.123 37.037 0.00 0.00 44.92 3.16
2486 4274 7.156673 TGGAGTATTTAACAGTGTAGGTTCAC 58.843 38.462 0.00 0.00 38.46 3.18
2487 4275 7.305813 TGGAGTATTTAACAGTGTAGGTTCA 57.694 36.000 0.00 0.00 0.00 3.18
2488 4276 7.222224 CGATGGAGTATTTAACAGTGTAGGTTC 59.778 40.741 0.00 0.00 0.00 3.62
2489 4277 7.039882 CGATGGAGTATTTAACAGTGTAGGTT 58.960 38.462 0.00 0.00 0.00 3.50
2490 4278 6.154021 ACGATGGAGTATTTAACAGTGTAGGT 59.846 38.462 0.00 0.00 0.00 3.08
2491 4279 6.475727 CACGATGGAGTATTTAACAGTGTAGG 59.524 42.308 0.00 0.00 0.00 3.18
2492 4280 6.019801 GCACGATGGAGTATTTAACAGTGTAG 60.020 42.308 0.00 0.00 0.00 2.74
2493 4281 5.808540 GCACGATGGAGTATTTAACAGTGTA 59.191 40.000 0.00 0.00 0.00 2.90
2494 4282 4.630069 GCACGATGGAGTATTTAACAGTGT 59.370 41.667 0.00 0.00 0.00 3.55
2495 4283 4.259810 CGCACGATGGAGTATTTAACAGTG 60.260 45.833 0.00 0.00 0.00 3.66
2496 4284 3.863424 CGCACGATGGAGTATTTAACAGT 59.137 43.478 0.00 0.00 0.00 3.55
2497 4285 3.302480 GCGCACGATGGAGTATTTAACAG 60.302 47.826 0.30 0.00 0.00 3.16
2498 4286 2.605818 GCGCACGATGGAGTATTTAACA 59.394 45.455 0.30 0.00 0.00 2.41
2499 4287 2.605818 TGCGCACGATGGAGTATTTAAC 59.394 45.455 5.66 0.00 0.00 2.01
2500 4288 2.863740 CTGCGCACGATGGAGTATTTAA 59.136 45.455 5.66 0.00 0.00 1.52
2501 4289 2.159156 ACTGCGCACGATGGAGTATTTA 60.159 45.455 5.66 0.00 36.15 1.40
2502 4290 1.290203 CTGCGCACGATGGAGTATTT 58.710 50.000 5.66 0.00 0.00 1.40
2503 4291 0.175760 ACTGCGCACGATGGAGTATT 59.824 50.000 5.66 0.00 36.15 1.89
2504 4292 0.175760 AACTGCGCACGATGGAGTAT 59.824 50.000 5.66 0.00 36.98 2.12
2505 4293 0.457853 GAACTGCGCACGATGGAGTA 60.458 55.000 5.66 0.00 36.98 2.59
2506 4294 1.738099 GAACTGCGCACGATGGAGT 60.738 57.895 5.66 0.00 39.92 3.85
2507 4295 2.792290 CGAACTGCGCACGATGGAG 61.792 63.158 5.66 0.00 0.00 3.86
2508 4296 2.809174 CGAACTGCGCACGATGGA 60.809 61.111 5.66 0.00 0.00 3.41
2509 4297 3.071459 GACGAACTGCGCACGATGG 62.071 63.158 23.36 8.92 46.04 3.51
2510 4298 2.391821 GACGAACTGCGCACGATG 59.608 61.111 23.36 9.31 46.04 3.84
2511 4299 2.809601 GGACGAACTGCGCACGAT 60.810 61.111 23.36 7.53 46.04 3.73
2516 4304 4.789075 TAGCCGGACGAACTGCGC 62.789 66.667 5.05 0.00 46.04 6.09
2518 4306 0.739813 ACAATAGCCGGACGAACTGC 60.740 55.000 5.05 0.00 0.00 4.40
2519 4307 1.278238 GACAATAGCCGGACGAACTG 58.722 55.000 5.05 0.00 0.00 3.16
2520 4308 0.179145 CGACAATAGCCGGACGAACT 60.179 55.000 5.05 0.00 0.00 3.01
2521 4309 0.457337 ACGACAATAGCCGGACGAAC 60.457 55.000 5.05 0.00 0.00 3.95
2522 4310 0.179156 GACGACAATAGCCGGACGAA 60.179 55.000 5.05 0.00 0.00 3.85
2523 4311 1.430632 GACGACAATAGCCGGACGA 59.569 57.895 5.05 0.00 0.00 4.20
2524 4312 1.588139 GGACGACAATAGCCGGACG 60.588 63.158 5.05 0.77 0.00 4.79
2525 4313 0.804933 GTGGACGACAATAGCCGGAC 60.805 60.000 5.05 0.00 0.00 4.79
2526 4314 1.252215 TGTGGACGACAATAGCCGGA 61.252 55.000 5.05 0.00 0.00 5.14
2527 4315 1.082117 GTGTGGACGACAATAGCCGG 61.082 60.000 0.00 0.00 35.91 6.13
2528 4316 0.389296 TGTGTGGACGACAATAGCCG 60.389 55.000 0.00 0.00 35.91 5.52
2529 4317 1.359848 CTGTGTGGACGACAATAGCC 58.640 55.000 0.00 0.00 35.91 3.93
2530 4318 0.721718 GCTGTGTGGACGACAATAGC 59.278 55.000 10.75 10.75 38.88 2.97
2531 4319 1.995484 CTGCTGTGTGGACGACAATAG 59.005 52.381 0.00 0.00 35.91 1.73
2532 4320 1.343142 ACTGCTGTGTGGACGACAATA 59.657 47.619 0.00 0.00 35.91 1.90
2533 4321 0.106708 ACTGCTGTGTGGACGACAAT 59.893 50.000 0.00 0.00 35.91 2.71
2534 4322 0.107897 AACTGCTGTGTGGACGACAA 60.108 50.000 0.00 0.00 35.91 3.18
2535 4323 0.107897 AAACTGCTGTGTGGACGACA 60.108 50.000 0.00 0.00 0.00 4.35
2536 4324 0.582005 GAAACTGCTGTGTGGACGAC 59.418 55.000 0.00 0.00 0.00 4.34
2537 4325 0.874175 CGAAACTGCTGTGTGGACGA 60.874 55.000 0.00 0.00 0.00 4.20
2538 4326 1.151777 ACGAAACTGCTGTGTGGACG 61.152 55.000 2.91 5.20 0.00 4.79
2539 4327 1.014352 AACGAAACTGCTGTGTGGAC 58.986 50.000 2.91 0.00 0.00 4.02
2540 4328 1.400142 CAAACGAAACTGCTGTGTGGA 59.600 47.619 2.91 0.00 0.00 4.02
2541 4329 1.826327 CAAACGAAACTGCTGTGTGG 58.174 50.000 0.00 0.00 0.00 4.17
2542 4330 1.191096 GCAAACGAAACTGCTGTGTG 58.809 50.000 0.00 0.00 35.62 3.82
2543 4331 0.100503 GGCAAACGAAACTGCTGTGT 59.899 50.000 0.00 0.00 38.65 3.72
2544 4332 0.100325 TGGCAAACGAAACTGCTGTG 59.900 50.000 0.00 0.00 38.65 3.66
2545 4333 0.814457 TTGGCAAACGAAACTGCTGT 59.186 45.000 0.00 0.00 38.65 4.40
2546 4334 1.199624 GTTGGCAAACGAAACTGCTG 58.800 50.000 0.00 0.00 38.65 4.41
2547 4335 0.814457 TGTTGGCAAACGAAACTGCT 59.186 45.000 0.00 0.00 39.30 4.24
2548 4336 0.920664 GTGTTGGCAAACGAAACTGC 59.079 50.000 0.00 0.00 39.30 4.40
2549 4337 2.559998 AGTGTTGGCAAACGAAACTG 57.440 45.000 0.00 0.00 39.30 3.16
2550 4338 3.011119 TGTAGTGTTGGCAAACGAAACT 58.989 40.909 0.00 0.07 39.30 2.66
2551 4339 3.408288 TGTAGTGTTGGCAAACGAAAC 57.592 42.857 0.00 5.44 39.30 2.78
2552 4340 3.880490 AGATGTAGTGTTGGCAAACGAAA 59.120 39.130 0.00 0.00 39.30 3.46
2553 4341 3.472652 AGATGTAGTGTTGGCAAACGAA 58.527 40.909 0.00 0.00 39.30 3.85
2554 4342 3.120321 AGATGTAGTGTTGGCAAACGA 57.880 42.857 0.00 0.00 39.30 3.85
2555 4343 3.994392 AGTAGATGTAGTGTTGGCAAACG 59.006 43.478 0.00 0.00 39.30 3.60
2556 4344 5.689819 CAAGTAGATGTAGTGTTGGCAAAC 58.310 41.667 0.00 0.00 36.78 2.93
2557 4345 4.215399 GCAAGTAGATGTAGTGTTGGCAAA 59.785 41.667 0.00 0.00 0.00 3.68
2558 4346 3.751175 GCAAGTAGATGTAGTGTTGGCAA 59.249 43.478 0.00 0.00 0.00 4.52
2559 4347 3.244387 TGCAAGTAGATGTAGTGTTGGCA 60.244 43.478 0.00 0.00 0.00 4.92
2560 4348 3.334691 TGCAAGTAGATGTAGTGTTGGC 58.665 45.455 0.00 0.00 0.00 4.52
2592 4380 8.316214 ACACTAGTAGTAAAATGAAAATCGGGA 58.684 33.333 1.57 0.00 0.00 5.14
2617 4405 9.400638 CATGCAAATAGCTAGTTCTAGTACTAC 57.599 37.037 2.88 3.83 45.94 2.73
2641 4429 1.152860 TCCCCGTTGCAACACACAT 60.153 52.632 28.01 0.00 0.00 3.21
2750 4538 0.248289 ACTTCCACCACCCGTATTCG 59.752 55.000 0.00 0.00 0.00 3.34
2801 4589 3.626930 TGCCCATACCCAAATCACTTAC 58.373 45.455 0.00 0.00 0.00 2.34


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

AutoCloner maintained by Alex Coulton.