Multiple sequence alignment - TraesCS7D01G334700

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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 TraesCS7D01G334700 chr7D 100.000 3070 0 0 1 3070 426643162 426646231 0.000000e+00 5670.0
1 TraesCS7D01G334700 chr7D 82.496 1851 204 60 494 2276 426449923 426451721 0.000000e+00 1513.0
2 TraesCS7D01G334700 chr7D 84.065 1412 151 38 887 2276 426496392 426497751 0.000000e+00 1293.0
3 TraesCS7D01G334700 chr7D 84.147 1331 143 35 967 2276 426517864 426519147 0.000000e+00 1227.0
4 TraesCS7D01G334700 chr7D 80.733 1692 217 61 633 2276 426632229 426633859 0.000000e+00 1218.0
5 TraesCS7D01G334700 chr7D 94.589 462 22 2 10 471 426517008 426517466 0.000000e+00 712.0
6 TraesCS7D01G334700 chr7D 88.690 336 34 3 7 340 426453422 426453755 1.020000e-109 407.0
7 TraesCS7D01G334700 chr7D 79.022 634 84 36 633 1233 426547467 426548084 3.710000e-104 388.0
8 TraesCS7D01G334700 chr7D 85.163 337 23 14 361 695 426453740 426454051 1.370000e-83 320.0
9 TraesCS7D01G334700 chr7D 85.932 263 22 7 617 879 426517488 426517735 1.810000e-67 267.0
10 TraesCS7D01G334700 chr7D 89.655 58 2 4 2381 2435 16130579 16130635 1.530000e-08 71.3
11 TraesCS7D01G334700 chr7B 94.532 1463 70 6 700 2156 443731910 443733368 0.000000e+00 2250.0
12 TraesCS7D01G334700 chr7B 84.197 1563 170 41 613 2122 443689814 443691352 0.000000e+00 1447.0
13 TraesCS7D01G334700 chr7B 85.271 1127 117 29 967 2074 443696487 443697583 0.000000e+00 1116.0
14 TraesCS7D01G334700 chr7B 94.568 718 33 4 1 716 443729834 443730547 0.000000e+00 1105.0
15 TraesCS7D01G334700 chr7B 84.404 981 107 28 887 1850 443702178 443703129 0.000000e+00 922.0
16 TraesCS7D01G334700 chr7B 85.426 446 37 15 435 879 443694029 443694447 3.630000e-119 438.0
17 TraesCS7D01G334700 chr7B 91.429 105 7 2 2380 2483 719139101 719139204 3.190000e-30 143.0
18 TraesCS7D01G334700 chr7B 88.000 50 6 0 2386 2435 729432300 729432251 3.310000e-05 60.2
19 TraesCS7D01G334700 chr7A 83.559 1697 191 49 444 2082 507014941 507013275 0.000000e+00 1507.0
20 TraesCS7D01G334700 chr7A 83.569 1558 177 39 613 2122 507023261 507021735 0.000000e+00 1386.0
21 TraesCS7D01G334700 chr7A 85.498 924 99 22 1230 2124 506854997 506854080 0.000000e+00 931.0
22 TraesCS7D01G334700 chr7A 92.833 586 34 4 2484 3067 78679766 78680345 0.000000e+00 843.0
23 TraesCS7D01G334700 chr7A 84.900 351 45 3 7 357 506964441 506964099 6.300000e-92 348.0
24 TraesCS7D01G334700 chr7A 89.416 274 20 6 973 1240 506873484 506873214 1.360000e-88 337.0
25 TraesCS7D01G334700 chr7A 90.164 61 6 0 489 549 506851470 506851410 2.540000e-11 80.5
26 TraesCS7D01G334700 chr7A 91.071 56 5 0 494 549 506971425 506971370 3.280000e-10 76.8
27 TraesCS7D01G334700 chr2B 84.953 1369 129 43 940 2276 753834731 753836054 0.000000e+00 1315.0
28 TraesCS7D01G334700 chr2B 84.737 190 17 7 613 799 753834366 753834546 2.430000e-41 180.0
29 TraesCS7D01G334700 chr2B 85.185 81 8 4 2387 2465 512756132 512756210 2.540000e-11 80.5
30 TraesCS7D01G334700 chr2D 94.872 585 25 5 2484 3067 119098834 119099414 0.000000e+00 909.0
31 TraesCS7D01G334700 chr2D 93.718 589 30 4 2484 3070 560601161 560600578 0.000000e+00 876.0
32 TraesCS7D01G334700 chr3D 93.813 598 33 3 2475 3070 530153712 530153117 0.000000e+00 896.0
33 TraesCS7D01G334700 chr3D 88.060 67 3 3 2370 2435 584729726 584729664 1.180000e-09 75.0
34 TraesCS7D01G334700 chr6D 93.434 594 33 6 2480 3070 457152598 457152008 0.000000e+00 876.0
35 TraesCS7D01G334700 chr6D 93.232 591 38 2 2482 3070 11797622 11797032 0.000000e+00 869.0
36 TraesCS7D01G334700 chr6D 90.141 71 6 1 156 225 218388545 218388615 1.170000e-14 91.6
37 TraesCS7D01G334700 chr1D 93.333 585 31 3 2484 3067 457799330 457799907 0.000000e+00 857.0
38 TraesCS7D01G334700 chr5D 92.857 588 34 3 2483 3067 373943238 373943820 0.000000e+00 846.0
39 TraesCS7D01G334700 chr5D 92.699 589 34 5 2484 3070 553956453 553955872 0.000000e+00 841.0
40 TraesCS7D01G334700 chr6A 88.732 71 7 1 156 225 297630726 297630796 5.450000e-13 86.1
41 TraesCS7D01G334700 chr3B 94.444 54 3 0 2382 2435 267435725 267435672 1.960000e-12 84.2
42 TraesCS7D01G334700 chr3B 80.233 86 10 4 2370 2453 208046607 208046527 1.190000e-04 58.4
43 TraesCS7D01G334700 chr6B 91.228 57 5 0 2379 2435 32107235 32107291 9.130000e-11 78.7
44 TraesCS7D01G334700 chr3A 86.441 59 5 3 2379 2435 682941778 682941721 9.190000e-06 62.1


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 TraesCS7D01G334700 chr7D 426643162 426646231 3069 False 5670.000000 5670 100.000000 1 3070 1 chr7D.!!$F5 3069
1 TraesCS7D01G334700 chr7D 426496392 426497751 1359 False 1293.000000 1293 84.065000 887 2276 1 chr7D.!!$F2 1389
2 TraesCS7D01G334700 chr7D 426632229 426633859 1630 False 1218.000000 1218 80.733000 633 2276 1 chr7D.!!$F4 1643
3 TraesCS7D01G334700 chr7D 426449923 426454051 4128 False 746.666667 1513 85.449667 7 2276 3 chr7D.!!$F6 2269
4 TraesCS7D01G334700 chr7D 426517008 426519147 2139 False 735.333333 1227 88.222667 10 2276 3 chr7D.!!$F7 2266
5 TraesCS7D01G334700 chr7D 426547467 426548084 617 False 388.000000 388 79.022000 633 1233 1 chr7D.!!$F3 600
6 TraesCS7D01G334700 chr7B 443729834 443733368 3534 False 1677.500000 2250 94.550000 1 2156 2 chr7B.!!$F4 2155
7 TraesCS7D01G334700 chr7B 443689814 443697583 7769 False 1000.333333 1447 84.964667 435 2122 3 chr7B.!!$F3 1687
8 TraesCS7D01G334700 chr7B 443702178 443703129 951 False 922.000000 922 84.404000 887 1850 1 chr7B.!!$F1 963
9 TraesCS7D01G334700 chr7A 507013275 507014941 1666 True 1507.000000 1507 83.559000 444 2082 1 chr7A.!!$R4 1638
10 TraesCS7D01G334700 chr7A 507021735 507023261 1526 True 1386.000000 1386 83.569000 613 2122 1 chr7A.!!$R5 1509
11 TraesCS7D01G334700 chr7A 78679766 78680345 579 False 843.000000 843 92.833000 2484 3067 1 chr7A.!!$F1 583
12 TraesCS7D01G334700 chr7A 506851410 506854997 3587 True 505.750000 931 87.831000 489 2124 2 chr7A.!!$R6 1635
13 TraesCS7D01G334700 chr2B 753834366 753836054 1688 False 747.500000 1315 84.845000 613 2276 2 chr2B.!!$F2 1663
14 TraesCS7D01G334700 chr2D 119098834 119099414 580 False 909.000000 909 94.872000 2484 3067 1 chr2D.!!$F1 583
15 TraesCS7D01G334700 chr2D 560600578 560601161 583 True 876.000000 876 93.718000 2484 3070 1 chr2D.!!$R1 586
16 TraesCS7D01G334700 chr3D 530153117 530153712 595 True 896.000000 896 93.813000 2475 3070 1 chr3D.!!$R1 595
17 TraesCS7D01G334700 chr6D 457152008 457152598 590 True 876.000000 876 93.434000 2480 3070 1 chr6D.!!$R2 590
18 TraesCS7D01G334700 chr6D 11797032 11797622 590 True 869.000000 869 93.232000 2482 3070 1 chr6D.!!$R1 588
19 TraesCS7D01G334700 chr1D 457799330 457799907 577 False 857.000000 857 93.333000 2484 3067 1 chr1D.!!$F1 583
20 TraesCS7D01G334700 chr5D 373943238 373943820 582 False 846.000000 846 92.857000 2483 3067 1 chr5D.!!$F1 584
21 TraesCS7D01G334700 chr5D 553955872 553956453 581 True 841.000000 841 92.699000 2484 3070 1 chr5D.!!$R1 586

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
600 608 0.611618 TTCCAGCCACCGAATTGCAT 60.612 50.0 0.0 0.0 0.0 3.96 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2554 5079 0.032416 GTAGAGGCCAGTCCACCCTA 60.032 60.0 5.01 0.0 37.29 3.53 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
110 111 5.693555 TGCATACGAAAGCATGATCTAGAAG 59.306 40.000 0.00 0.00 37.01 2.85
111 112 5.923114 GCATACGAAAGCATGATCTAGAAGA 59.077 40.000 0.00 0.00 37.01 2.87
112 113 6.422100 GCATACGAAAGCATGATCTAGAAGAA 59.578 38.462 0.00 0.00 37.01 2.52
169 171 6.477360 ACTTCTTGTGTTTCGTTTTTGTTGTT 59.523 30.769 0.00 0.00 0.00 2.83
212 214 5.834460 TGTACTACTGTTATTCTCCCTCCA 58.166 41.667 0.00 0.00 0.00 3.86
235 237 5.643777 CACGACAAGAAAAATAGGATGGAGT 59.356 40.000 0.00 0.00 0.00 3.85
324 328 5.931146 CAGAGCAAAGAGATAGACAACAGTT 59.069 40.000 0.00 0.00 0.00 3.16
600 608 0.611618 TTCCAGCCACCGAATTGCAT 60.612 50.000 0.00 0.00 0.00 3.96
1268 2843 8.110271 TGCTTCTACATATACTCTGCCTACTAT 58.890 37.037 0.00 0.00 0.00 2.12
1269 2845 8.962679 GCTTCTACATATACTCTGCCTACTATT 58.037 37.037 0.00 0.00 0.00 1.73
1322 2920 7.667043 ACTGTACGATTTACAAATGACATGT 57.333 32.000 0.00 0.00 34.81 3.21
1358 2956 2.372690 CGTTCTCCTGGACGCAACG 61.373 63.158 13.42 13.42 34.47 4.10
1370 2968 4.344865 GCAACGCCCTTCTCCCCA 62.345 66.667 0.00 0.00 0.00 4.96
1387 2985 0.179089 CCAGGCGAGAAGGATGTGAG 60.179 60.000 0.00 0.00 0.00 3.51
1416 3014 3.000819 CCCTCACCGGCTACACCA 61.001 66.667 0.00 0.00 39.03 4.17
1457 3057 4.803426 CTCGAGCACGACTGCCCC 62.803 72.222 0.88 0.00 45.53 5.80
1658 3258 1.140589 CGCAGAGCTCAACCTCGAT 59.859 57.895 17.77 0.00 36.95 3.59
1663 3263 0.174389 GAGCTCAACCTCGATGCTCA 59.826 55.000 9.40 0.00 46.41 4.26
1715 3315 2.361104 GGGATGGCCAACTGCGAA 60.361 61.111 10.96 0.00 42.61 4.70
1820 3426 2.202837 GGTAAGGCGCCGTTCGAT 60.203 61.111 22.74 6.66 41.67 3.59
1850 3456 1.683790 CGATGAGGTTCGACAACGCC 61.684 60.000 0.00 0.00 41.62 5.68
1907 3513 1.847737 ACCTCCGACCAGACTCTCTAT 59.152 52.381 0.00 0.00 0.00 1.98
1970 3576 2.028484 GACGGTGAGGTGTTCGCA 59.972 61.111 0.00 0.00 38.08 5.10
1973 3579 2.946762 GGTGAGGTGTTCGCAAGC 59.053 61.111 0.00 0.00 38.08 4.01
2018 3624 1.202099 TGGGAAACATACCTCCGCCA 61.202 55.000 0.00 0.00 31.97 5.69
2097 3718 1.228831 CCCAAGTGGATGCAACCCA 60.229 57.895 10.94 8.83 37.39 4.51
2171 4295 5.175126 CGACTACTCGTGTTGATTTCTTTGT 59.825 40.000 6.09 0.00 35.00 2.83
2172 4296 6.287107 ACTACTCGTGTTGATTTCTTTGTG 57.713 37.500 6.09 0.00 0.00 3.33
2177 4307 6.043327 TCGTGTTGATTTCTTTGTGTACAG 57.957 37.500 0.00 0.00 0.00 2.74
2184 4314 6.274579 TGATTTCTTTGTGTACAGTGTCGTA 58.725 36.000 0.00 0.00 0.00 3.43
2189 4319 6.452242 TCTTTGTGTACAGTGTCGTATCAAT 58.548 36.000 0.00 0.00 0.00 2.57
2200 4331 7.064609 ACAGTGTCGTATCAATAGAATGTTTGG 59.935 37.037 0.00 0.00 0.00 3.28
2202 4334 5.006261 TGTCGTATCAATAGAATGTTTGGCG 59.994 40.000 0.00 0.00 0.00 5.69
2205 4337 4.924305 ATCAATAGAATGTTTGGCGCAT 57.076 36.364 10.83 0.00 0.00 4.73
2206 4338 4.717233 TCAATAGAATGTTTGGCGCATT 57.283 36.364 10.83 0.00 39.04 3.56
2210 4342 3.932545 AGAATGTTTGGCGCATTTGTA 57.067 38.095 10.83 0.00 36.77 2.41
2213 4345 4.457603 AGAATGTTTGGCGCATTTGTAGTA 59.542 37.500 10.83 0.00 36.77 1.82
2218 4350 1.271434 TGGCGCATTTGTAGTACCCAA 60.271 47.619 10.83 0.00 0.00 4.12
2234 4368 1.558741 CCAAACATGTGTGTGTGTGC 58.441 50.000 14.95 0.00 41.21 4.57
2245 4379 3.980775 GTGTGTGTGTGCAATAAATGGTC 59.019 43.478 0.00 0.00 0.00 4.02
2253 4387 5.689961 GTGTGCAATAAATGGTCTTTTTCGT 59.310 36.000 0.00 0.00 0.00 3.85
2255 4389 4.683781 TGCAATAAATGGTCTTTTTCGTGC 59.316 37.500 0.00 0.00 31.57 5.34
2276 4410 8.402472 TCGTGCTTGTTTTAATGGGAAATATAG 58.598 33.333 0.00 0.00 0.00 1.31
2277 4411 7.167468 CGTGCTTGTTTTAATGGGAAATATAGC 59.833 37.037 0.00 0.00 0.00 2.97
2278 4412 7.167468 GTGCTTGTTTTAATGGGAAATATAGCG 59.833 37.037 0.00 0.00 0.00 4.26
2279 4413 7.067615 TGCTTGTTTTAATGGGAAATATAGCGA 59.932 33.333 0.00 0.00 0.00 4.93
2281 4415 8.514330 TTGTTTTAATGGGAAATATAGCGAGT 57.486 30.769 0.00 0.00 0.00 4.18
2282 4416 8.149973 TGTTTTAATGGGAAATATAGCGAGTC 57.850 34.615 0.00 0.00 0.00 3.36
2285 4419 5.568620 AATGGGAAATATAGCGAGTCCTT 57.431 39.130 0.00 0.00 0.00 3.36
2286 4420 4.602340 TGGGAAATATAGCGAGTCCTTC 57.398 45.455 0.00 0.00 0.00 3.46
2303 4437 9.941664 CGAGTCCTTCGTTCTTAATAAAGTATA 57.058 33.333 0.00 0.00 44.27 1.47
2329 4463 9.495572 AAAGTGTATTTGTTTTTCCAAAGTCAA 57.504 25.926 0.00 0.00 37.71 3.18
2330 4464 9.495572 AAGTGTATTTGTTTTTCCAAAGTCAAA 57.504 25.926 0.00 0.00 37.71 2.69
2331 4465 9.665719 AGTGTATTTGTTTTTCCAAAGTCAAAT 57.334 25.926 14.75 14.75 37.71 2.32
2337 4471 9.898152 TTTGTTTTTCCAAAGTCAAATATTCCT 57.102 25.926 0.00 0.00 31.06 3.36
2344 4478 8.292444 TCCAAAGTCAAATATTCCTATGTTGG 57.708 34.615 9.07 9.07 33.50 3.77
2345 4479 8.112822 TCCAAAGTCAAATATTCCTATGTTGGA 58.887 33.333 12.11 12.11 37.79 3.53
2346 4480 8.917088 CCAAAGTCAAATATTCCTATGTTGGAT 58.083 33.333 9.50 0.00 35.83 3.41
2347 4481 9.956720 CAAAGTCAAATATTCCTATGTTGGATC 57.043 33.333 0.00 0.00 35.83 3.36
2348 4482 9.699410 AAAGTCAAATATTCCTATGTTGGATCA 57.301 29.630 0.00 0.00 35.83 2.92
2349 4483 9.699410 AAGTCAAATATTCCTATGTTGGATCAA 57.301 29.630 0.00 0.00 35.83 2.57
2350 4484 9.347240 AGTCAAATATTCCTATGTTGGATCAAG 57.653 33.333 0.00 0.00 35.83 3.02
2351 4485 8.078596 GTCAAATATTCCTATGTTGGATCAAGC 58.921 37.037 0.00 0.00 35.83 4.01
2352 4486 8.000709 TCAAATATTCCTATGTTGGATCAAGCT 58.999 33.333 0.00 0.00 35.83 3.74
2353 4487 8.636213 CAAATATTCCTATGTTGGATCAAGCTT 58.364 33.333 0.00 0.00 35.83 3.74
2354 4488 9.866655 AAATATTCCTATGTTGGATCAAGCTTA 57.133 29.630 0.00 0.00 35.83 3.09
2358 4492 9.678260 ATTCCTATGTTGGATCAAGCTTATATC 57.322 33.333 0.00 5.52 35.83 1.63
2359 4493 8.206126 TCCTATGTTGGATCAAGCTTATATCA 57.794 34.615 17.97 5.73 0.00 2.15
2360 4494 8.316946 TCCTATGTTGGATCAAGCTTATATCAG 58.683 37.037 17.97 8.86 0.00 2.90
2361 4495 6.814506 ATGTTGGATCAAGCTTATATCAGC 57.185 37.500 17.97 0.30 40.44 4.26
2362 4496 5.065914 TGTTGGATCAAGCTTATATCAGCC 58.934 41.667 17.97 6.22 41.12 4.85
2363 4497 4.292186 TGGATCAAGCTTATATCAGCCC 57.708 45.455 17.97 0.39 41.12 5.19
2364 4498 3.009473 TGGATCAAGCTTATATCAGCCCC 59.991 47.826 17.97 6.18 41.12 5.80
2365 4499 3.265479 GGATCAAGCTTATATCAGCCCCT 59.735 47.826 17.97 0.00 41.12 4.79
2366 4500 4.471386 GGATCAAGCTTATATCAGCCCCTA 59.529 45.833 17.97 0.00 41.12 3.53
2367 4501 4.891992 TCAAGCTTATATCAGCCCCTAC 57.108 45.455 0.00 0.00 41.12 3.18
2368 4502 4.231273 TCAAGCTTATATCAGCCCCTACA 58.769 43.478 0.00 0.00 41.12 2.74
2369 4503 4.658435 TCAAGCTTATATCAGCCCCTACAA 59.342 41.667 0.00 0.00 41.12 2.41
2370 4504 5.310594 TCAAGCTTATATCAGCCCCTACAAT 59.689 40.000 0.00 0.00 41.12 2.71
2371 4505 5.428184 AGCTTATATCAGCCCCTACAATC 57.572 43.478 5.26 0.00 41.12 2.67
2372 4506 5.097234 AGCTTATATCAGCCCCTACAATCT 58.903 41.667 5.26 0.00 41.12 2.40
2373 4507 5.549619 AGCTTATATCAGCCCCTACAATCTT 59.450 40.000 5.26 0.00 41.12 2.40
2374 4508 6.730977 AGCTTATATCAGCCCCTACAATCTTA 59.269 38.462 5.26 0.00 41.12 2.10
2375 4509 7.404396 AGCTTATATCAGCCCCTACAATCTTAT 59.596 37.037 5.26 0.00 41.12 1.73
2376 4510 8.705594 GCTTATATCAGCCCCTACAATCTTATA 58.294 37.037 0.00 0.00 33.21 0.98
2378 4512 5.763876 ATCAGCCCCTACAATCTTATACC 57.236 43.478 0.00 0.00 0.00 2.73
2379 4513 4.827789 TCAGCCCCTACAATCTTATACCT 58.172 43.478 0.00 0.00 0.00 3.08
2380 4514 5.224441 TCAGCCCCTACAATCTTATACCTT 58.776 41.667 0.00 0.00 0.00 3.50
2381 4515 6.387127 TCAGCCCCTACAATCTTATACCTTA 58.613 40.000 0.00 0.00 0.00 2.69
2382 4516 7.023120 TCAGCCCCTACAATCTTATACCTTAT 58.977 38.462 0.00 0.00 0.00 1.73
2383 4517 7.180408 TCAGCCCCTACAATCTTATACCTTATC 59.820 40.741 0.00 0.00 0.00 1.75
2384 4518 7.181125 CAGCCCCTACAATCTTATACCTTATCT 59.819 40.741 0.00 0.00 0.00 1.98
2385 4519 7.739904 AGCCCCTACAATCTTATACCTTATCTT 59.260 37.037 0.00 0.00 0.00 2.40
2386 4520 9.043548 GCCCCTACAATCTTATACCTTATCTTA 57.956 37.037 0.00 0.00 0.00 2.10
2417 4551 9.871238 ATATTTACTAATTAGAGGCACCATACG 57.129 33.333 19.38 0.00 0.00 3.06
2418 4552 6.964807 TTACTAATTAGAGGCACCATACGA 57.035 37.500 19.38 0.00 0.00 3.43
2419 4553 5.864418 ACTAATTAGAGGCACCATACGAA 57.136 39.130 19.38 0.00 0.00 3.85
2420 4554 5.598769 ACTAATTAGAGGCACCATACGAAC 58.401 41.667 19.38 0.00 0.00 3.95
2421 4555 4.755266 AATTAGAGGCACCATACGAACT 57.245 40.909 0.00 0.00 0.00 3.01
2422 4556 4.755266 ATTAGAGGCACCATACGAACTT 57.245 40.909 0.00 0.00 0.00 2.66
2423 4557 2.674796 AGAGGCACCATACGAACTTC 57.325 50.000 0.00 0.00 0.00 3.01
2424 4558 1.207329 AGAGGCACCATACGAACTTCC 59.793 52.381 0.00 0.00 0.00 3.46
2425 4559 0.981183 AGGCACCATACGAACTTCCA 59.019 50.000 0.00 0.00 0.00 3.53
2426 4560 1.559682 AGGCACCATACGAACTTCCAT 59.440 47.619 0.00 0.00 0.00 3.41
2427 4561 1.670811 GGCACCATACGAACTTCCATG 59.329 52.381 0.00 0.00 0.00 3.66
2428 4562 2.356135 GCACCATACGAACTTCCATGT 58.644 47.619 0.00 0.00 0.00 3.21
2429 4563 2.747446 GCACCATACGAACTTCCATGTT 59.253 45.455 0.00 0.00 0.00 2.71
2430 4564 3.936453 GCACCATACGAACTTCCATGTTA 59.064 43.478 0.00 0.00 0.00 2.41
2431 4565 4.393680 GCACCATACGAACTTCCATGTTAA 59.606 41.667 0.00 0.00 0.00 2.01
2432 4566 5.065988 GCACCATACGAACTTCCATGTTAAT 59.934 40.000 0.00 0.00 0.00 1.40
2433 4567 6.715464 CACCATACGAACTTCCATGTTAATC 58.285 40.000 0.00 0.00 0.00 1.75
2434 4568 5.820947 ACCATACGAACTTCCATGTTAATCC 59.179 40.000 0.00 0.00 0.00 3.01
2435 4569 5.820423 CCATACGAACTTCCATGTTAATCCA 59.180 40.000 0.00 0.00 0.00 3.41
2436 4570 6.238374 CCATACGAACTTCCATGTTAATCCAC 60.238 42.308 0.00 0.00 0.00 4.02
2437 4571 4.647611 ACGAACTTCCATGTTAATCCACA 58.352 39.130 0.00 0.00 0.00 4.17
2438 4572 5.253330 ACGAACTTCCATGTTAATCCACAT 58.747 37.500 0.00 0.00 37.93 3.21
2439 4573 5.354234 ACGAACTTCCATGTTAATCCACATC 59.646 40.000 0.00 0.00 35.03 3.06
2440 4574 5.353956 CGAACTTCCATGTTAATCCACATCA 59.646 40.000 0.00 0.00 35.03 3.07
2441 4575 6.128035 CGAACTTCCATGTTAATCCACATCAA 60.128 38.462 0.00 0.00 35.03 2.57
2442 4576 6.515272 ACTTCCATGTTAATCCACATCAAC 57.485 37.500 0.00 0.00 35.03 3.18
2443 4577 6.009589 ACTTCCATGTTAATCCACATCAACA 58.990 36.000 0.00 0.00 35.03 3.33
2444 4578 6.493115 ACTTCCATGTTAATCCACATCAACAA 59.507 34.615 0.00 0.00 35.03 2.83
2445 4579 6.907853 TCCATGTTAATCCACATCAACAAA 57.092 33.333 0.00 0.00 35.03 2.83
2446 4580 7.295322 TCCATGTTAATCCACATCAACAAAA 57.705 32.000 0.00 0.00 35.03 2.44
2447 4581 7.905265 TCCATGTTAATCCACATCAACAAAAT 58.095 30.769 0.00 0.00 35.03 1.82
2448 4582 8.373981 TCCATGTTAATCCACATCAACAAAATT 58.626 29.630 0.00 0.00 35.03 1.82
2449 4583 9.650539 CCATGTTAATCCACATCAACAAAATTA 57.349 29.630 0.00 0.00 35.03 1.40
2456 4590 8.986477 ATCCACATCAACAAAATTAGTTTAGC 57.014 30.769 0.00 0.00 0.00 3.09
2457 4591 7.375053 TCCACATCAACAAAATTAGTTTAGCC 58.625 34.615 0.00 0.00 0.00 3.93
2458 4592 6.307800 CCACATCAACAAAATTAGTTTAGCCG 59.692 38.462 0.00 0.00 0.00 5.52
2459 4593 6.861055 CACATCAACAAAATTAGTTTAGCCGT 59.139 34.615 0.00 0.00 0.00 5.68
2460 4594 7.381139 CACATCAACAAAATTAGTTTAGCCGTT 59.619 33.333 0.00 0.00 0.00 4.44
2461 4595 8.569641 ACATCAACAAAATTAGTTTAGCCGTTA 58.430 29.630 0.00 0.00 0.00 3.18
2462 4596 9.061610 CATCAACAAAATTAGTTTAGCCGTTAG 57.938 33.333 0.00 0.00 0.00 2.34
2463 4597 8.380743 TCAACAAAATTAGTTTAGCCGTTAGA 57.619 30.769 0.00 0.00 0.00 2.10
2464 4598 9.005777 TCAACAAAATTAGTTTAGCCGTTAGAT 57.994 29.630 0.00 0.00 0.00 1.98
2465 4599 9.620660 CAACAAAATTAGTTTAGCCGTTAGATT 57.379 29.630 0.00 0.00 0.00 2.40
2564 5089 6.839657 GCACATATATAGGTATAGGGTGGACT 59.160 42.308 0.00 0.00 35.12 3.85
2580 5105 1.903183 GGACTGGCCTCTACTTGTCTT 59.097 52.381 3.32 0.00 0.00 3.01
2581 5106 2.303311 GGACTGGCCTCTACTTGTCTTT 59.697 50.000 3.32 0.00 0.00 2.52
2618 5147 2.354328 ACGAGGGGGAGAGAGAGATAT 58.646 52.381 0.00 0.00 0.00 1.63
2773 5305 4.649674 GGTAGTCCCTTAGTCATGACATCA 59.350 45.833 27.02 9.48 0.00 3.07
2782 5314 3.748083 AGTCATGACATCAGCAAACTGT 58.252 40.909 27.02 0.00 44.77 3.55
3028 11240 3.224324 GCCCGATACTCCGCCTCA 61.224 66.667 0.00 0.00 0.00 3.86
3033 11245 1.068250 GATACTCCGCCTCAGCACC 59.932 63.158 0.00 0.00 39.83 5.01
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
136 138 9.843334 AAAACGAAACACAAGAAGTATTTTGTA 57.157 25.926 0.00 0.00 39.68 2.41
149 151 4.318831 GGCAACAACAAAAACGAAACACAA 60.319 37.500 0.00 0.00 0.00 3.33
151 153 3.727518 GGCAACAACAAAAACGAAACAC 58.272 40.909 0.00 0.00 0.00 3.32
169 171 7.116075 AGTACAAATCAGGTATACAAATGGCA 58.884 34.615 5.01 0.00 0.00 4.92
200 202 3.095912 TCTTGTCGTGGAGGGAGAATA 57.904 47.619 0.00 0.00 0.00 1.75
201 203 1.938585 TCTTGTCGTGGAGGGAGAAT 58.061 50.000 0.00 0.00 0.00 2.40
212 214 5.805728 ACTCCATCCTATTTTTCTTGTCGT 58.194 37.500 0.00 0.00 0.00 4.34
276 279 4.488126 TCAAAATTGAAGTTCAGCTCCG 57.512 40.909 5.56 0.00 33.55 4.63
346 350 2.159435 GCAAATCCGATTACAAAGCCGT 60.159 45.455 0.00 0.00 0.00 5.68
347 351 2.159448 TGCAAATCCGATTACAAAGCCG 60.159 45.455 0.00 0.00 0.00 5.52
349 353 6.407475 AATTTGCAAATCCGATTACAAAGC 57.593 33.333 24.28 9.97 34.22 3.51
350 354 6.813152 AGGAATTTGCAAATCCGATTACAAAG 59.187 34.615 24.28 2.62 34.22 2.77
400 404 0.673644 ATGCACACCTTACAGTCGGC 60.674 55.000 0.00 0.00 0.00 5.54
600 608 3.628942 CGCCCAGAATCTTTGATTGATGA 59.371 43.478 0.00 0.00 0.00 2.92
1020 2570 4.704833 AGCAGCGCGACCCAACAT 62.705 61.111 12.10 0.00 0.00 2.71
1240 2809 5.144100 AGGCAGAGTATATGTAGAAGCAGT 58.856 41.667 0.00 0.00 0.00 4.40
1243 2812 6.827586 AGTAGGCAGAGTATATGTAGAAGC 57.172 41.667 0.00 0.00 0.00 3.86
1260 2835 9.852091 GTAACCATACATAGTACAATAGTAGGC 57.148 37.037 0.00 0.00 32.02 3.93
1322 2920 1.146930 GGAAGCATCGCATCCCTGA 59.853 57.895 0.00 0.00 40.10 3.86
1370 2968 1.965754 GCCTCACATCCTTCTCGCCT 61.966 60.000 0.00 0.00 0.00 5.52
1416 3014 2.541794 CGGACTTGATGTCGTCGATGAT 60.542 50.000 11.16 0.00 46.24 2.45
1577 3177 0.955919 GGCCTTTCTTGGTGGACTCG 60.956 60.000 0.00 0.00 0.00 4.18
1663 3263 1.227089 GAGAGCGCGGTCATGTCAT 60.227 57.895 36.38 17.64 0.00 3.06
1715 3315 0.178941 AGACACGGTCCCTGTAGGTT 60.179 55.000 0.00 0.00 36.75 3.50
1742 3342 1.046472 AGGGGTCGATGTCGCCATTA 61.046 55.000 9.78 0.00 39.83 1.90
1820 3426 2.125952 CTCATCGGCGTCTGCACA 60.126 61.111 6.85 0.00 45.35 4.57
1850 3456 4.319622 CGCTCGATAAGGTTCCTGTAGTAG 60.320 50.000 0.00 0.00 0.00 2.57
1963 3569 1.010125 GCAAAGTCGCTTGCGAACA 60.010 52.632 19.36 0.00 42.09 3.18
1970 3576 2.564721 GGCCTTGGCAAAGTCGCTT 61.565 57.895 14.04 0.00 0.00 4.68
1973 3579 1.213537 CATGGCCTTGGCAAAGTCG 59.786 57.895 14.04 0.00 42.43 4.18
1979 3585 1.607178 CTTCACCATGGCCTTGGCA 60.607 57.895 32.27 19.28 40.68 4.92
2018 3624 0.040204 CCTCCACTGGCATTCCCTTT 59.960 55.000 0.00 0.00 0.00 3.11
2087 3705 2.124151 ATCGGGCTGGGTTGCATC 60.124 61.111 0.00 0.00 34.04 3.91
2127 3752 9.866936 GTAGTCGTTACAAATTGTACATTTCAA 57.133 29.630 5.19 0.00 31.69 2.69
2129 3754 9.737025 GAGTAGTCGTTACAAATTGTACATTTC 57.263 33.333 5.19 0.00 31.69 2.17
2150 3778 6.287107 ACACAAAGAAATCAACACGAGTAG 57.713 37.500 0.00 0.00 0.00 2.57
2161 3789 5.652744 ACGACACTGTACACAAAGAAATC 57.347 39.130 0.00 0.00 0.00 2.17
2166 4290 6.706055 ATTGATACGACACTGTACACAAAG 57.294 37.500 0.00 0.00 32.18 2.77
2171 4295 7.768240 ACATTCTATTGATACGACACTGTACA 58.232 34.615 0.00 0.00 0.00 2.90
2172 4296 8.630278 AACATTCTATTGATACGACACTGTAC 57.370 34.615 0.00 0.00 0.00 2.90
2177 4307 6.192360 GCCAAACATTCTATTGATACGACAC 58.808 40.000 0.00 0.00 0.00 3.67
2184 4314 4.924305 ATGCGCCAAACATTCTATTGAT 57.076 36.364 4.18 0.00 0.00 2.57
2189 4319 3.932545 ACAAATGCGCCAAACATTCTA 57.067 38.095 4.18 0.00 36.74 2.10
2200 4331 2.226912 TGTTTGGGTACTACAAATGCGC 59.773 45.455 15.67 0.00 39.68 6.09
2202 4334 5.160641 CACATGTTTGGGTACTACAAATGC 58.839 41.667 15.67 7.81 39.68 3.56
2205 4337 5.066634 CACACACATGTTTGGGTACTACAAA 59.933 40.000 16.04 10.73 37.39 2.83
2206 4338 4.576873 CACACACATGTTTGGGTACTACAA 59.423 41.667 16.04 0.00 37.39 2.41
2210 4342 2.948979 CACACACACATGTTTGGGTACT 59.051 45.455 19.06 0.00 37.39 2.73
2213 4345 1.476085 CACACACACACATGTTTGGGT 59.524 47.619 14.13 14.13 42.48 4.51
2218 4350 4.645762 TTATTGCACACACACACATGTT 57.354 36.364 0.00 0.00 36.72 2.71
2234 4368 6.420604 ACAAGCACGAAAAAGACCATTTATTG 59.579 34.615 0.00 0.00 0.00 1.90
2245 4379 5.751028 TCCCATTAAAACAAGCACGAAAAAG 59.249 36.000 0.00 0.00 0.00 2.27
2253 4387 7.067615 TCGCTATATTTCCCATTAAAACAAGCA 59.932 33.333 0.00 0.00 0.00 3.91
2255 4389 8.621286 ACTCGCTATATTTCCCATTAAAACAAG 58.379 33.333 0.00 0.00 0.00 3.16
2276 4410 5.575995 ACTTTATTAAGAACGAAGGACTCGC 59.424 40.000 0.00 0.00 41.79 5.03
2277 4411 8.853469 ATACTTTATTAAGAACGAAGGACTCG 57.147 34.615 0.00 0.00 42.73 4.18
2303 4437 9.495572 TTGACTTTGGAAAAACAAATACACTTT 57.504 25.926 0.00 0.00 39.39 2.66
2304 4438 9.495572 TTTGACTTTGGAAAAACAAATACACTT 57.504 25.926 0.00 0.00 39.39 3.16
2305 4439 9.665719 ATTTGACTTTGGAAAAACAAATACACT 57.334 25.926 0.00 0.00 39.39 3.55
2311 4445 9.898152 AGGAATATTTGACTTTGGAAAAACAAA 57.102 25.926 0.00 0.00 37.96 2.83
2318 4452 8.748412 CCAACATAGGAATATTTGACTTTGGAA 58.252 33.333 8.77 0.00 32.05 3.53
2319 4453 8.112822 TCCAACATAGGAATATTTGACTTTGGA 58.887 33.333 11.42 11.42 36.21 3.53
2320 4454 8.292444 TCCAACATAGGAATATTTGACTTTGG 57.708 34.615 8.37 8.37 33.93 3.28
2321 4455 9.956720 GATCCAACATAGGAATATTTGACTTTG 57.043 33.333 0.00 0.00 41.92 2.77
2322 4456 9.699410 TGATCCAACATAGGAATATTTGACTTT 57.301 29.630 0.00 0.00 41.92 2.66
2323 4457 9.699410 TTGATCCAACATAGGAATATTTGACTT 57.301 29.630 0.00 0.00 41.92 3.01
2324 4458 9.347240 CTTGATCCAACATAGGAATATTTGACT 57.653 33.333 0.00 0.00 41.92 3.41
2325 4459 8.078596 GCTTGATCCAACATAGGAATATTTGAC 58.921 37.037 0.00 0.00 41.92 3.18
2326 4460 8.000709 AGCTTGATCCAACATAGGAATATTTGA 58.999 33.333 0.00 0.00 41.92 2.69
2327 4461 8.174733 AGCTTGATCCAACATAGGAATATTTG 57.825 34.615 0.00 0.00 41.92 2.32
2328 4462 8.773033 AAGCTTGATCCAACATAGGAATATTT 57.227 30.769 0.00 0.00 41.92 1.40
2332 4466 9.678260 GATATAAGCTTGATCCAACATAGGAAT 57.322 33.333 9.86 0.00 41.92 3.01
2333 4467 8.659527 TGATATAAGCTTGATCCAACATAGGAA 58.340 33.333 9.86 0.00 41.92 3.36
2334 4468 8.206126 TGATATAAGCTTGATCCAACATAGGA 57.794 34.615 9.86 0.00 43.01 2.94
2335 4469 7.065563 GCTGATATAAGCTTGATCCAACATAGG 59.934 40.741 9.86 0.00 40.20 2.57
2336 4470 7.065563 GGCTGATATAAGCTTGATCCAACATAG 59.934 40.741 12.02 5.61 43.06 2.23
2337 4471 6.881065 GGCTGATATAAGCTTGATCCAACATA 59.119 38.462 12.02 0.00 43.06 2.29
2338 4472 5.709164 GGCTGATATAAGCTTGATCCAACAT 59.291 40.000 12.02 0.00 43.06 2.71
2339 4473 5.065914 GGCTGATATAAGCTTGATCCAACA 58.934 41.667 12.02 0.00 43.06 3.33
2340 4474 4.457257 GGGCTGATATAAGCTTGATCCAAC 59.543 45.833 12.02 4.39 43.06 3.77
2341 4475 4.507335 GGGGCTGATATAAGCTTGATCCAA 60.507 45.833 12.02 0.00 43.06 3.53
2342 4476 3.009473 GGGGCTGATATAAGCTTGATCCA 59.991 47.826 12.02 1.39 43.06 3.41
2343 4477 3.265479 AGGGGCTGATATAAGCTTGATCC 59.735 47.826 12.02 4.07 43.06 3.36
2344 4478 4.566426 AGGGGCTGATATAAGCTTGATC 57.434 45.455 12.02 12.22 43.06 2.92
2345 4479 4.846367 TGTAGGGGCTGATATAAGCTTGAT 59.154 41.667 12.02 1.90 43.06 2.57
2346 4480 4.231273 TGTAGGGGCTGATATAAGCTTGA 58.769 43.478 12.02 0.00 43.06 3.02
2347 4481 4.623932 TGTAGGGGCTGATATAAGCTTG 57.376 45.455 12.02 0.00 43.06 4.01
2348 4482 5.549619 AGATTGTAGGGGCTGATATAAGCTT 59.450 40.000 12.02 3.48 43.06 3.74
2349 4483 5.097234 AGATTGTAGGGGCTGATATAAGCT 58.903 41.667 12.02 0.00 43.06 3.74
2350 4484 5.428184 AGATTGTAGGGGCTGATATAAGC 57.572 43.478 3.08 3.08 42.75 3.09
2352 4486 8.989131 GGTATAAGATTGTAGGGGCTGATATAA 58.011 37.037 0.00 0.00 0.00 0.98
2353 4487 8.352181 AGGTATAAGATTGTAGGGGCTGATATA 58.648 37.037 0.00 0.00 0.00 0.86
2354 4488 7.199765 AGGTATAAGATTGTAGGGGCTGATAT 58.800 38.462 0.00 0.00 0.00 1.63
2355 4489 6.571624 AGGTATAAGATTGTAGGGGCTGATA 58.428 40.000 0.00 0.00 0.00 2.15
2356 4490 5.415961 AGGTATAAGATTGTAGGGGCTGAT 58.584 41.667 0.00 0.00 0.00 2.90
2357 4491 4.827789 AGGTATAAGATTGTAGGGGCTGA 58.172 43.478 0.00 0.00 0.00 4.26
2358 4492 5.568620 AAGGTATAAGATTGTAGGGGCTG 57.431 43.478 0.00 0.00 0.00 4.85
2359 4493 7.257146 AGATAAGGTATAAGATTGTAGGGGCT 58.743 38.462 0.00 0.00 0.00 5.19
2360 4494 7.497773 AGATAAGGTATAAGATTGTAGGGGC 57.502 40.000 0.00 0.00 0.00 5.80
2391 4525 9.871238 CGTATGGTGCCTCTAATTAGTAAATAT 57.129 33.333 12.19 3.44 0.00 1.28
2392 4526 9.081204 TCGTATGGTGCCTCTAATTAGTAAATA 57.919 33.333 12.19 1.10 0.00 1.40
2393 4527 7.959175 TCGTATGGTGCCTCTAATTAGTAAAT 58.041 34.615 12.19 1.89 0.00 1.40
2394 4528 7.350744 TCGTATGGTGCCTCTAATTAGTAAA 57.649 36.000 12.19 0.00 0.00 2.01
2395 4529 6.964807 TCGTATGGTGCCTCTAATTAGTAA 57.035 37.500 12.19 0.00 0.00 2.24
2396 4530 6.548622 AGTTCGTATGGTGCCTCTAATTAGTA 59.451 38.462 12.19 0.00 0.00 1.82
2397 4531 5.363005 AGTTCGTATGGTGCCTCTAATTAGT 59.637 40.000 12.19 0.00 0.00 2.24
2398 4532 5.844004 AGTTCGTATGGTGCCTCTAATTAG 58.156 41.667 6.11 6.11 0.00 1.73
2399 4533 5.864418 AGTTCGTATGGTGCCTCTAATTA 57.136 39.130 0.00 0.00 0.00 1.40
2400 4534 4.755266 AGTTCGTATGGTGCCTCTAATT 57.245 40.909 0.00 0.00 0.00 1.40
2401 4535 4.443034 GGAAGTTCGTATGGTGCCTCTAAT 60.443 45.833 0.00 0.00 0.00 1.73
2402 4536 3.118884 GGAAGTTCGTATGGTGCCTCTAA 60.119 47.826 0.00 0.00 0.00 2.10
2403 4537 2.429610 GGAAGTTCGTATGGTGCCTCTA 59.570 50.000 0.00 0.00 0.00 2.43
2404 4538 1.207329 GGAAGTTCGTATGGTGCCTCT 59.793 52.381 0.00 0.00 0.00 3.69
2405 4539 1.066430 TGGAAGTTCGTATGGTGCCTC 60.066 52.381 0.00 0.00 0.00 4.70
2406 4540 0.981183 TGGAAGTTCGTATGGTGCCT 59.019 50.000 0.00 0.00 0.00 4.75
2407 4541 1.670811 CATGGAAGTTCGTATGGTGCC 59.329 52.381 9.66 0.00 0.00 5.01
2408 4542 2.356135 ACATGGAAGTTCGTATGGTGC 58.644 47.619 17.74 0.00 0.00 5.01
2409 4543 6.238374 GGATTAACATGGAAGTTCGTATGGTG 60.238 42.308 15.63 3.91 33.07 4.17
2410 4544 5.820947 GGATTAACATGGAAGTTCGTATGGT 59.179 40.000 17.74 15.11 33.07 3.55
2411 4545 5.820423 TGGATTAACATGGAAGTTCGTATGG 59.180 40.000 17.74 1.91 33.07 2.74
2412 4546 6.315144 TGTGGATTAACATGGAAGTTCGTATG 59.685 38.462 13.96 13.96 33.07 2.39
2413 4547 6.411376 TGTGGATTAACATGGAAGTTCGTAT 58.589 36.000 0.00 0.00 33.07 3.06
2414 4548 5.795972 TGTGGATTAACATGGAAGTTCGTA 58.204 37.500 0.00 0.00 33.07 3.43
2415 4549 4.647611 TGTGGATTAACATGGAAGTTCGT 58.352 39.130 0.00 0.00 33.07 3.85
2416 4550 5.353956 TGATGTGGATTAACATGGAAGTTCG 59.646 40.000 0.00 0.00 40.87 3.95
2417 4551 6.757897 TGATGTGGATTAACATGGAAGTTC 57.242 37.500 0.00 0.00 40.87 3.01
2418 4552 6.493115 TGTTGATGTGGATTAACATGGAAGTT 59.507 34.615 0.00 0.00 40.87 2.66
2419 4553 6.009589 TGTTGATGTGGATTAACATGGAAGT 58.990 36.000 0.00 0.00 40.87 3.01
2420 4554 6.513806 TGTTGATGTGGATTAACATGGAAG 57.486 37.500 0.00 0.00 40.87 3.46
2421 4555 6.907853 TTGTTGATGTGGATTAACATGGAA 57.092 33.333 0.00 0.00 40.87 3.53
2422 4556 6.907853 TTTGTTGATGTGGATTAACATGGA 57.092 33.333 0.00 0.00 40.87 3.41
2423 4557 8.550710 AATTTTGTTGATGTGGATTAACATGG 57.449 30.769 0.00 0.00 40.87 3.66
2430 4564 9.423061 GCTAAACTAATTTTGTTGATGTGGATT 57.577 29.630 0.00 0.00 0.00 3.01
2431 4565 8.034804 GGCTAAACTAATTTTGTTGATGTGGAT 58.965 33.333 0.00 0.00 0.00 3.41
2432 4566 7.375053 GGCTAAACTAATTTTGTTGATGTGGA 58.625 34.615 0.00 0.00 0.00 4.02
2433 4567 6.307800 CGGCTAAACTAATTTTGTTGATGTGG 59.692 38.462 0.00 0.00 0.00 4.17
2434 4568 6.861055 ACGGCTAAACTAATTTTGTTGATGTG 59.139 34.615 0.00 0.00 0.00 3.21
2435 4569 6.977213 ACGGCTAAACTAATTTTGTTGATGT 58.023 32.000 0.00 0.00 0.00 3.06
2436 4570 7.867445 AACGGCTAAACTAATTTTGTTGATG 57.133 32.000 0.00 0.00 0.00 3.07
2437 4571 9.005777 TCTAACGGCTAAACTAATTTTGTTGAT 57.994 29.630 0.00 0.00 0.00 2.57
2438 4572 8.380743 TCTAACGGCTAAACTAATTTTGTTGA 57.619 30.769 0.00 0.00 0.00 3.18
2439 4573 9.620660 AATCTAACGGCTAAACTAATTTTGTTG 57.379 29.630 0.00 0.00 0.00 3.33
2453 4587 9.787435 ACCATTAAATTGATAATCTAACGGCTA 57.213 29.630 0.00 0.00 0.00 3.93
2454 4588 8.691661 ACCATTAAATTGATAATCTAACGGCT 57.308 30.769 0.00 0.00 0.00 5.52
2554 5079 0.032416 GTAGAGGCCAGTCCACCCTA 60.032 60.000 5.01 0.00 37.29 3.53
2580 5105 7.214381 CCCCTCGTATATTTGTACATCTTGAA 58.786 38.462 0.00 0.00 0.00 2.69
2581 5106 6.239487 CCCCCTCGTATATTTGTACATCTTGA 60.239 42.308 0.00 0.00 0.00 3.02
2600 5125 4.266714 CGTTATATCTCTCTCTCCCCCTC 58.733 52.174 0.00 0.00 0.00 4.30
2618 5147 6.945218 ACTTGGGTGTGTATTTATACCGTTA 58.055 36.000 0.00 0.00 34.01 3.18
2634 5163 5.221722 ACTGCATATGTATAGGACTTGGGTG 60.222 44.000 4.29 0.00 0.00 4.61
2773 5305 2.438021 TCCTACCACTCAACAGTTTGCT 59.562 45.455 0.00 0.00 32.17 3.91
2782 5314 0.753867 TGCACGTTCCTACCACTCAA 59.246 50.000 0.00 0.00 0.00 3.02
2808 5340 1.375326 GTGGCTCTCGGGAAGGTTT 59.625 57.895 0.00 0.00 0.00 3.27
2839 5371 5.220739 GCATATTGAGCTCGACATTCACTTT 60.221 40.000 5.59 0.00 0.00 2.66
3028 11240 3.444805 GTCTCTCGCTCGGGTGCT 61.445 66.667 0.00 0.00 0.00 4.40
3033 11245 4.180946 CCACGGTCTCTCGCTCGG 62.181 72.222 0.00 0.00 0.00 4.63


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

AutoCloner maintained by Alex Coulton.