Multiple sequence alignment - TraesCS3D01G044300

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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 TraesCS3D01G044300 chr3D 100.000 2765 0 0 1 2765 17121028 17123792 0.000000e+00 5107.0
1 TraesCS3D01G044300 chr3A 88.106 2001 102 67 2 1901 19761784 19759819 0.000000e+00 2252.0
2 TraesCS3D01G044300 chr3A 81.419 296 17 12 1953 2222 19759821 19759538 1.000000e-49 207.0
3 TraesCS3D01G044300 chr3A 82.022 178 11 11 2116 2287 19747825 19747663 6.210000e-27 132.0
4 TraesCS3D01G044300 chr3B 89.533 1672 99 29 388 2012 24522816 24524458 0.000000e+00 2049.0
5 TraesCS3D01G044300 chr3B 93.455 382 19 5 548 927 69601603 69601226 1.860000e-156 562.0
6 TraesCS3D01G044300 chr3B 89.600 375 22 10 1437 1805 24546350 24546713 6.980000e-126 460.0
7 TraesCS3D01G044300 chr3B 87.339 387 28 9 16 385 24522101 24522483 9.150000e-115 424.0
8 TraesCS3D01G044300 chr3B 84.783 276 13 13 2388 2663 24552837 24553083 1.640000e-62 250.0
9 TraesCS3D01G044300 chr3B 88.587 184 11 3 2021 2202 24552421 24552596 6.000000e-52 215.0
10 TraesCS3D01G044300 chr3B 92.623 122 7 1 1804 1923 24552195 24552316 1.020000e-39 174.0
11 TraesCS3D01G044300 chr3B 92.982 114 4 2 2066 2179 24525997 24526106 2.200000e-36 163.0
12 TraesCS3D01G044300 chr3B 83.333 156 7 3 2388 2539 24526229 24526369 2.890000e-25 126.0
13 TraesCS3D01G044300 chr3B 93.750 48 3 0 2021 2068 24524504 24524551 3.820000e-09 73.1
14 TraesCS3D01G044300 chr5D 93.386 378 21 3 548 925 151215903 151215530 8.650000e-155 556.0
15 TraesCS3D01G044300 chr5D 90.794 315 24 4 613 927 546563971 546563662 1.530000e-112 416.0
16 TraesCS3D01G044300 chr4D 91.623 382 25 6 548 927 27524250 27524626 3.160000e-144 521.0
17 TraesCS3D01G044300 chr7B 91.005 378 29 4 548 924 165109143 165109516 3.180000e-139 505.0
18 TraesCS3D01G044300 chr5B 90.551 381 31 4 548 927 405547206 405546830 1.480000e-137 499.0
19 TraesCS3D01G044300 chr2B 89.211 380 26 5 548 927 690757883 690758247 6.980000e-126 460.0
20 TraesCS3D01G044300 chr7D 89.103 312 26 6 619 928 24390489 24390794 5.590000e-102 381.0


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 TraesCS3D01G044300 chr3D 17121028 17123792 2764 False 5107.00 5107 100.000000 1 2765 1 chr3D.!!$F1 2764
1 TraesCS3D01G044300 chr3A 19759538 19761784 2246 True 1229.50 2252 84.762500 2 2222 2 chr3A.!!$R2 2220
2 TraesCS3D01G044300 chr3B 24522101 24526369 4268 False 567.02 2049 89.387400 16 2539 5 chr3B.!!$F2 2523
3 TraesCS3D01G044300 chr3B 24552195 24553083 888 False 213.00 250 88.664333 1804 2663 3 chr3B.!!$F3 859

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
407 766 0.031585 TGAGCTTGCTTGCTTGCTTG 59.968 50.0 12.17 0.0 44.17 4.01 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2322 4331 0.451783 GCTTGCAAGATGTTACCCCG 59.548 55.0 30.39 0.0 0.0 5.73 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
84 90 2.358737 CACCACTCCGGGCAGAAC 60.359 66.667 0.00 0.00 40.22 3.01
141 152 2.907696 TCTCCTCTAGCGGCTACTAGAT 59.092 50.000 5.42 0.00 45.76 1.98
207 218 2.622962 GGTTTTCCTGTTCCGCGGG 61.623 63.158 27.83 8.93 45.18 6.13
208 219 2.981350 TTTTCCTGTTCCGCGGGC 60.981 61.111 27.83 19.09 43.46 6.13
248 270 2.940410 TCTGTTCACGTTTGGAGGTTTC 59.060 45.455 0.00 0.00 0.00 2.78
250 272 2.680841 TGTTCACGTTTGGAGGTTTCTG 59.319 45.455 0.00 0.00 0.00 3.02
251 273 2.940410 GTTCACGTTTGGAGGTTTCTGA 59.060 45.455 0.00 0.00 0.00 3.27
252 274 3.485463 TCACGTTTGGAGGTTTCTGAT 57.515 42.857 0.00 0.00 0.00 2.90
253 275 3.399330 TCACGTTTGGAGGTTTCTGATC 58.601 45.455 0.00 0.00 0.00 2.92
258 280 4.253685 GTTTGGAGGTTTCTGATCGATCA 58.746 43.478 25.80 25.80 35.16 2.92
338 367 5.049818 CGATCCTACTGCTTCATTTCATTCC 60.050 44.000 0.00 0.00 0.00 3.01
339 368 5.178096 TCCTACTGCTTCATTTCATTCCA 57.822 39.130 0.00 0.00 0.00 3.53
340 369 5.759059 TCCTACTGCTTCATTTCATTCCAT 58.241 37.500 0.00 0.00 0.00 3.41
341 370 6.189859 TCCTACTGCTTCATTTCATTCCATT 58.810 36.000 0.00 0.00 0.00 3.16
342 371 6.319658 TCCTACTGCTTCATTTCATTCCATTC 59.680 38.462 0.00 0.00 0.00 2.67
385 414 1.446907 CCCTCGCCATGATATTCTGC 58.553 55.000 0.00 0.00 0.00 4.26
393 752 3.557475 GCCATGATATTCTGCTCTGAGCT 60.557 47.826 28.04 12.24 42.97 4.09
407 766 0.031585 TGAGCTTGCTTGCTTGCTTG 59.968 50.000 12.17 0.00 44.17 4.01
420 779 1.485294 TTGCTTGGCTCGGGTTCCTA 61.485 55.000 0.00 0.00 0.00 2.94
423 782 1.123928 CTTGGCTCGGGTTCCTATCT 58.876 55.000 0.00 0.00 0.00 1.98
485 852 1.866601 TCTGGCATCGCGATTTGTATG 59.133 47.619 21.14 10.07 0.00 2.39
486 853 1.599071 CTGGCATCGCGATTTGTATGT 59.401 47.619 21.14 0.00 0.00 2.29
642 1009 0.676466 TGTAGGTTGATGCTTGGCCG 60.676 55.000 0.00 0.00 0.00 6.13
667 1034 4.855715 TGGATTGCCAAAAATTCACGTA 57.144 36.364 0.00 0.00 42.49 3.57
679 1046 4.921470 AATTCACGTACAATGAACGGAG 57.079 40.909 10.82 0.00 44.48 4.63
751 1131 1.306997 GACCAGGGACCAGGATCCA 60.307 63.158 15.82 0.00 40.96 3.41
754 1134 0.990282 CCAGGGACCAGGATCCATGT 60.990 60.000 15.82 10.38 46.88 3.21
817 1197 3.496130 GCAATCAGAATTCGATCGGATGT 59.504 43.478 16.41 2.99 34.98 3.06
879 1262 3.845259 GACCCGAGCCGCACCATA 61.845 66.667 0.00 0.00 0.00 2.74
881 1264 3.849951 CCCGAGCCGCACCATACT 61.850 66.667 0.00 0.00 0.00 2.12
887 1270 1.153168 GCCGCACCATACTCACCAT 60.153 57.895 0.00 0.00 0.00 3.55
888 1271 1.439353 GCCGCACCATACTCACCATG 61.439 60.000 0.00 0.00 0.00 3.66
928 1320 3.119424 CGTTCCTCTCACCCTTCTTCTAC 60.119 52.174 0.00 0.00 0.00 2.59
967 1360 4.192429 TCGCATTCTGAATCTCTGACAA 57.808 40.909 0.00 0.00 0.00 3.18
994 1394 0.107312 CTTCCCCTGCTGATCCAGTG 60.107 60.000 0.00 0.00 33.43 3.66
1068 1471 4.415332 TTCTCGCACGACCTCGCC 62.415 66.667 0.00 0.00 44.43 5.54
1781 2212 5.470777 CCAGATAGTACCAGCAGTAGTACTC 59.529 48.000 0.00 0.00 44.54 2.59
1782 2213 5.177881 CAGATAGTACCAGCAGTAGTACTCG 59.822 48.000 0.00 0.00 44.54 4.18
1856 2295 7.011482 CCATGGTTGCTTGTAAGTAGTAAGATC 59.989 40.741 2.57 0.00 0.00 2.75
1940 2381 3.543665 GGACGGACAGAGTATGAGTACT 58.456 50.000 0.00 0.00 43.76 2.73
1984 2426 2.081161 GCATGGGATGGGAGGAGGT 61.081 63.158 0.00 0.00 0.00 3.85
2015 2457 0.107081 TGTCGTTGGTTAGTGGGTGG 59.893 55.000 0.00 0.00 0.00 4.61
2152 4102 2.512301 GCGTCGCAGCATGTCTCTC 61.512 63.158 13.44 0.00 39.31 3.20
2156 4106 0.455005 TCGCAGCATGTCTCTCTCTG 59.545 55.000 0.00 0.00 39.31 3.35
2157 4107 0.173029 CGCAGCATGTCTCTCTCTGT 59.827 55.000 0.00 0.00 39.31 3.41
2158 4108 1.798446 CGCAGCATGTCTCTCTCTGTC 60.798 57.143 0.00 0.00 39.31 3.51
2159 4109 1.477700 GCAGCATGTCTCTCTCTGTCT 59.522 52.381 0.00 0.00 39.31 3.41
2160 4110 2.480073 GCAGCATGTCTCTCTCTGTCTC 60.480 54.545 0.00 0.00 39.31 3.36
2161 4111 3.018856 CAGCATGTCTCTCTCTGTCTCT 58.981 50.000 0.00 0.00 0.00 3.10
2162 4112 3.018856 AGCATGTCTCTCTCTGTCTCTG 58.981 50.000 0.00 0.00 0.00 3.35
2163 4113 2.099592 GCATGTCTCTCTCTGTCTCTGG 59.900 54.545 0.00 0.00 0.00 3.86
2165 4115 1.074566 TGTCTCTCTCTGTCTCTGGCA 59.925 52.381 0.00 0.00 0.00 4.92
2179 4131 3.578272 GGCACGCACGGAACACAA 61.578 61.111 0.00 0.00 0.00 3.33
2181 4133 1.937362 GCACGCACGGAACACAAAC 60.937 57.895 0.00 0.00 0.00 2.93
2260 4269 7.655490 AGATCGTGTAGTACTACTTGTTTTGT 58.345 34.615 28.56 10.52 37.00 2.83
2261 4270 7.594015 AGATCGTGTAGTACTACTTGTTTTGTG 59.406 37.037 28.56 11.23 37.00 3.33
2264 4273 3.872560 AGTACTACTTGTTTTGTGCGC 57.127 42.857 0.00 0.00 0.00 6.09
2265 4274 3.199677 AGTACTACTTGTTTTGTGCGCA 58.800 40.909 5.66 5.66 0.00 6.09
2267 4276 2.285083 ACTACTTGTTTTGTGCGCAGA 58.715 42.857 12.22 6.80 0.00 4.26
2268 4277 2.680841 ACTACTTGTTTTGTGCGCAGAA 59.319 40.909 16.95 16.95 0.00 3.02
2269 4278 2.869233 ACTTGTTTTGTGCGCAGAAT 57.131 40.000 21.53 1.47 0.00 2.40
2271 4280 3.520569 ACTTGTTTTGTGCGCAGAATTT 58.479 36.364 21.53 0.00 0.00 1.82
2272 4281 3.306703 ACTTGTTTTGTGCGCAGAATTTG 59.693 39.130 21.53 11.73 0.00 2.32
2273 4282 3.156511 TGTTTTGTGCGCAGAATTTGA 57.843 38.095 21.53 2.71 0.00 2.69
2275 4284 3.115554 GTTTTGTGCGCAGAATTTGAGT 58.884 40.909 21.53 0.00 0.00 3.41
2276 4285 2.404265 TTGTGCGCAGAATTTGAGTG 57.596 45.000 16.95 0.00 0.00 3.51
2277 4286 1.592064 TGTGCGCAGAATTTGAGTGA 58.408 45.000 12.22 0.00 0.00 3.41
2278 4287 1.946081 TGTGCGCAGAATTTGAGTGAA 59.054 42.857 12.22 0.00 0.00 3.18
2279 4288 2.357323 TGTGCGCAGAATTTGAGTGAAA 59.643 40.909 12.22 0.00 0.00 2.69
2280 4289 3.181492 TGTGCGCAGAATTTGAGTGAAAA 60.181 39.130 12.22 0.00 0.00 2.29
2281 4290 3.180387 GTGCGCAGAATTTGAGTGAAAAC 59.820 43.478 12.22 0.00 0.00 2.43
2283 4292 3.795150 GCGCAGAATTTGAGTGAAAACCA 60.795 43.478 0.30 0.00 0.00 3.67
2284 4293 3.730715 CGCAGAATTTGAGTGAAAACCAC 59.269 43.478 0.00 0.00 46.03 4.16
2299 4308 8.617761 GTGAAAACCACGACAAGTATTTTAAA 57.382 30.769 0.00 0.00 35.86 1.52
2300 4309 9.074443 GTGAAAACCACGACAAGTATTTTAAAA 57.926 29.630 2.51 2.51 35.86 1.52
2301 4310 9.635520 TGAAAACCACGACAAGTATTTTAAAAA 57.364 25.926 4.44 0.00 33.23 1.94
2302 4311 9.890085 GAAAACCACGACAAGTATTTTAAAAAC 57.110 29.630 4.44 5.16 33.23 2.43
2303 4312 7.667984 AACCACGACAAGTATTTTAAAAACG 57.332 32.000 4.44 5.49 0.00 3.60
2304 4313 6.200808 ACCACGACAAGTATTTTAAAAACGG 58.799 36.000 4.44 5.84 0.00 4.44
2307 4316 6.575942 CACGACAAGTATTTTAAAAACGGAGG 59.424 38.462 4.44 0.00 0.00 4.30
2310 4319 7.210718 ACAAGTATTTTAAAAACGGAGGGAG 57.789 36.000 4.44 0.00 0.00 4.30
2314 4323 7.452562 AGTATTTTAAAAACGGAGGGAGTACA 58.547 34.615 4.44 0.00 0.00 2.90
2364 4374 0.390603 CCGCATGGTTTCCTCGTACA 60.391 55.000 0.00 0.00 0.00 2.90
2380 4392 4.520846 CACCATTCTTCGCGGCGC 62.521 66.667 24.21 24.21 0.00 6.53
2469 4506 2.213483 CGGCGAGCATTAACTACGG 58.787 57.895 0.00 0.00 0.00 4.02
2470 4507 1.213094 CGGCGAGCATTAACTACGGG 61.213 60.000 0.00 0.00 0.00 5.28
2471 4508 0.179092 GGCGAGCATTAACTACGGGT 60.179 55.000 0.00 0.00 0.00 5.28
2472 4509 0.928229 GCGAGCATTAACTACGGGTG 59.072 55.000 0.00 0.00 0.00 4.61
2473 4510 1.567504 CGAGCATTAACTACGGGTGG 58.432 55.000 0.00 0.00 0.00 4.61
2474 4511 1.134907 CGAGCATTAACTACGGGTGGT 60.135 52.381 0.00 0.00 0.00 4.16
2475 4512 2.277084 GAGCATTAACTACGGGTGGTG 58.723 52.381 0.00 0.00 0.00 4.17
2476 4513 1.903860 AGCATTAACTACGGGTGGTGA 59.096 47.619 0.00 0.00 0.00 4.02
2477 4514 2.093658 AGCATTAACTACGGGTGGTGAG 60.094 50.000 0.00 0.00 0.00 3.51
2478 4515 2.901249 CATTAACTACGGGTGGTGAGG 58.099 52.381 0.00 0.00 0.00 3.86
2479 4516 2.307496 TTAACTACGGGTGGTGAGGA 57.693 50.000 0.00 0.00 0.00 3.71
2480 4517 1.843368 TAACTACGGGTGGTGAGGAG 58.157 55.000 0.00 0.00 0.00 3.69
2481 4518 0.903454 AACTACGGGTGGTGAGGAGG 60.903 60.000 0.00 0.00 0.00 4.30
2482 4519 2.682494 TACGGGTGGTGAGGAGGC 60.682 66.667 0.00 0.00 0.00 4.70
2483 4520 3.233919 TACGGGTGGTGAGGAGGCT 62.234 63.158 0.00 0.00 0.00 4.58
2540 4592 4.828296 GGACCTGGCCCCATGCTG 62.828 72.222 0.00 0.00 40.92 4.41
2564 4617 2.599216 GCTGACTATCGGCTCAAGC 58.401 57.895 2.29 0.00 45.06 4.01
2565 4618 0.103937 GCTGACTATCGGCTCAAGCT 59.896 55.000 1.46 0.00 45.06 3.74
2566 4619 1.867698 GCTGACTATCGGCTCAAGCTC 60.868 57.143 1.46 0.00 45.06 4.09
2567 4620 1.680735 CTGACTATCGGCTCAAGCTCT 59.319 52.381 1.46 0.00 41.70 4.09
2569 4622 2.159184 TGACTATCGGCTCAAGCTCTTG 60.159 50.000 1.46 3.32 41.70 3.02
2570 4623 1.137872 ACTATCGGCTCAAGCTCTTGG 59.862 52.381 9.48 2.61 40.78 3.61
2571 4624 1.410517 CTATCGGCTCAAGCTCTTGGA 59.589 52.381 9.48 0.28 40.78 3.53
2572 4625 0.177604 ATCGGCTCAAGCTCTTGGAG 59.822 55.000 9.48 7.09 40.78 3.86
2573 4626 1.449246 CGGCTCAAGCTCTTGGAGG 60.449 63.158 9.48 2.84 40.78 4.30
2574 4627 1.077858 GGCTCAAGCTCTTGGAGGG 60.078 63.158 9.48 0.79 40.78 4.30
2575 4628 1.748500 GCTCAAGCTCTTGGAGGGC 60.749 63.158 9.48 0.00 40.78 5.19
2576 4629 1.989620 CTCAAGCTCTTGGAGGGCT 59.010 57.895 9.48 0.00 40.78 5.19
2577 4630 0.392729 CTCAAGCTCTTGGAGGGCTG 60.393 60.000 2.60 0.00 40.78 4.85
2578 4631 1.378250 CAAGCTCTTGGAGGGCTGG 60.378 63.158 2.60 0.00 36.95 4.85
2579 4632 1.539869 AAGCTCTTGGAGGGCTGGA 60.540 57.895 2.60 0.00 36.37 3.86
2580 4633 1.136329 AAGCTCTTGGAGGGCTGGAA 61.136 55.000 2.60 0.00 36.37 3.53
2581 4634 0.918310 AGCTCTTGGAGGGCTGGAAT 60.918 55.000 0.70 0.00 34.82 3.01
2582 4635 0.033699 GCTCTTGGAGGGCTGGAATT 60.034 55.000 0.00 0.00 0.00 2.17
2583 4636 1.618074 GCTCTTGGAGGGCTGGAATTT 60.618 52.381 0.00 0.00 0.00 1.82
2584 4637 2.373224 CTCTTGGAGGGCTGGAATTTC 58.627 52.381 0.00 0.00 0.00 2.17
2585 4638 1.005924 TCTTGGAGGGCTGGAATTTCC 59.994 52.381 8.59 8.59 36.96 3.13
2586 4639 0.041090 TTGGAGGGCTGGAATTTCCC 59.959 55.000 12.90 0.00 40.36 3.97
2592 4645 2.815158 GGGCTGGAATTTCCCTTTACA 58.185 47.619 12.90 0.00 35.03 2.41
2593 4646 3.169908 GGGCTGGAATTTCCCTTTACAA 58.830 45.455 12.90 0.00 35.03 2.41
2594 4647 3.195610 GGGCTGGAATTTCCCTTTACAAG 59.804 47.826 12.90 3.01 35.03 3.16
2595 4648 4.086457 GGCTGGAATTTCCCTTTACAAGA 58.914 43.478 12.90 0.00 35.03 3.02
2596 4649 4.526650 GGCTGGAATTTCCCTTTACAAGAA 59.473 41.667 12.90 0.00 35.03 2.52
2597 4650 5.187772 GGCTGGAATTTCCCTTTACAAGAAT 59.812 40.000 12.90 0.00 35.03 2.40
2598 4651 6.333416 GCTGGAATTTCCCTTTACAAGAATC 58.667 40.000 12.90 0.00 35.03 2.52
2599 4652 6.153510 GCTGGAATTTCCCTTTACAAGAATCT 59.846 38.462 12.90 0.00 35.03 2.40
2618 4671 2.686835 GAGGGCTGGAGTGAGGCT 60.687 66.667 0.00 0.00 38.57 4.58
2663 4716 2.415010 CTGACTCAGGCCCGATCG 59.585 66.667 8.51 8.51 0.00 3.69
2664 4717 2.044352 TGACTCAGGCCCGATCGA 60.044 61.111 18.66 0.00 0.00 3.59
2665 4718 2.069465 CTGACTCAGGCCCGATCGAG 62.069 65.000 18.66 3.84 0.00 4.04
2666 4719 2.835431 ACTCAGGCCCGATCGAGG 60.835 66.667 18.66 16.91 0.00 4.63
2673 4726 3.686045 CCCGATCGAGGGCTAGGC 61.686 72.222 18.66 8.00 45.72 3.93
2674 4727 2.912542 CCGATCGAGGGCTAGGCA 60.913 66.667 18.66 0.00 0.00 4.75
2675 4728 2.647875 CGATCGAGGGCTAGGCAG 59.352 66.667 19.14 8.85 0.00 4.85
2676 4729 1.899054 CGATCGAGGGCTAGGCAGA 60.899 63.158 19.14 13.92 0.00 4.26
2677 4730 1.247419 CGATCGAGGGCTAGGCAGAT 61.247 60.000 19.14 17.80 0.00 2.90
2678 4731 0.530288 GATCGAGGGCTAGGCAGATC 59.470 60.000 22.77 22.77 0.00 2.75
2679 4732 1.247419 ATCGAGGGCTAGGCAGATCG 61.247 60.000 23.16 23.16 33.13 3.69
2680 4733 1.899054 CGAGGGCTAGGCAGATCGA 60.899 63.158 24.19 0.00 33.46 3.59
2681 4734 1.247419 CGAGGGCTAGGCAGATCGAT 61.247 60.000 24.19 0.00 33.46 3.59
2682 4735 1.840737 GAGGGCTAGGCAGATCGATA 58.159 55.000 19.14 0.00 0.00 2.92
2683 4736 2.383855 GAGGGCTAGGCAGATCGATAT 58.616 52.381 19.14 0.00 0.00 1.63
2684 4737 2.100584 GAGGGCTAGGCAGATCGATATG 59.899 54.545 19.14 15.64 0.00 1.78
2685 4738 1.137872 GGGCTAGGCAGATCGATATGG 59.862 57.143 20.77 5.97 0.00 2.74
2686 4739 1.137872 GGCTAGGCAGATCGATATGGG 59.862 57.143 20.77 0.00 0.00 4.00
2687 4740 1.472376 GCTAGGCAGATCGATATGGGC 60.472 57.143 20.77 14.14 0.00 5.36
2688 4741 2.106566 CTAGGCAGATCGATATGGGCT 58.893 52.381 20.77 19.68 38.06 5.19
2689 4742 0.901124 AGGCAGATCGATATGGGCTC 59.099 55.000 20.77 4.66 0.00 4.70
2690 4743 0.610174 GGCAGATCGATATGGGCTCA 59.390 55.000 20.77 0.00 0.00 4.26
2691 4744 1.674221 GGCAGATCGATATGGGCTCAC 60.674 57.143 20.77 3.61 0.00 3.51
2692 4745 1.274728 GCAGATCGATATGGGCTCACT 59.725 52.381 20.77 0.00 0.00 3.41
2693 4746 2.673610 GCAGATCGATATGGGCTCACTC 60.674 54.545 20.77 0.00 0.00 3.51
2694 4747 1.815613 AGATCGATATGGGCTCACTCG 59.184 52.381 12.94 12.94 34.59 4.18
2695 4748 0.244994 ATCGATATGGGCTCACTCGC 59.755 55.000 14.04 0.00 33.82 5.03
2696 4749 1.106944 TCGATATGGGCTCACTCGCA 61.107 55.000 14.04 2.94 33.82 5.10
2697 4750 0.665670 CGATATGGGCTCACTCGCAG 60.666 60.000 7.39 0.00 32.36 5.18
2698 4751 0.390860 GATATGGGCTCACTCGCAGT 59.609 55.000 0.00 0.00 32.36 4.40
2699 4752 0.390860 ATATGGGCTCACTCGCAGTC 59.609 55.000 0.00 0.00 32.36 3.51
2700 4753 0.684479 TATGGGCTCACTCGCAGTCT 60.684 55.000 0.00 0.00 32.36 3.24
2701 4754 1.548357 ATGGGCTCACTCGCAGTCTT 61.548 55.000 0.00 0.00 32.36 3.01
2702 4755 1.446966 GGGCTCACTCGCAGTCTTC 60.447 63.158 0.00 0.00 0.00 2.87
2703 4756 1.803519 GGCTCACTCGCAGTCTTCG 60.804 63.158 0.00 0.00 0.00 3.79
2704 4757 1.081108 GCTCACTCGCAGTCTTCGT 60.081 57.895 0.00 0.00 0.00 3.85
2705 4758 0.168348 GCTCACTCGCAGTCTTCGTA 59.832 55.000 0.00 0.00 0.00 3.43
2706 4759 1.202200 GCTCACTCGCAGTCTTCGTAT 60.202 52.381 0.00 0.00 0.00 3.06
2707 4760 2.710760 CTCACTCGCAGTCTTCGTATC 58.289 52.381 0.00 0.00 0.00 2.24
2708 4761 1.400846 TCACTCGCAGTCTTCGTATCC 59.599 52.381 0.00 0.00 0.00 2.59
2709 4762 1.402259 CACTCGCAGTCTTCGTATCCT 59.598 52.381 0.00 0.00 0.00 3.24
2710 4763 1.671845 ACTCGCAGTCTTCGTATCCTC 59.328 52.381 0.00 0.00 0.00 3.71
2711 4764 0.656259 TCGCAGTCTTCGTATCCTCG 59.344 55.000 0.00 0.00 0.00 4.63
2712 4765 0.317103 CGCAGTCTTCGTATCCTCGG 60.317 60.000 0.00 0.00 0.00 4.63
2713 4766 0.739561 GCAGTCTTCGTATCCTCGGT 59.260 55.000 0.00 0.00 0.00 4.69
2714 4767 1.945394 GCAGTCTTCGTATCCTCGGTA 59.055 52.381 0.00 0.00 0.00 4.02
2715 4768 2.357009 GCAGTCTTCGTATCCTCGGTAA 59.643 50.000 0.00 0.00 0.00 2.85
2716 4769 3.791455 GCAGTCTTCGTATCCTCGGTAAC 60.791 52.174 0.00 0.00 0.00 2.50
2717 4770 3.376234 CAGTCTTCGTATCCTCGGTAACA 59.624 47.826 0.00 0.00 0.00 2.41
2718 4771 4.012374 AGTCTTCGTATCCTCGGTAACAA 58.988 43.478 0.00 0.00 0.00 2.83
2719 4772 4.460382 AGTCTTCGTATCCTCGGTAACAAA 59.540 41.667 0.00 0.00 0.00 2.83
2720 4773 4.560427 GTCTTCGTATCCTCGGTAACAAAC 59.440 45.833 0.00 0.00 0.00 2.93
2721 4774 4.218200 TCTTCGTATCCTCGGTAACAAACA 59.782 41.667 0.00 0.00 0.00 2.83
2722 4775 4.517952 TCGTATCCTCGGTAACAAACAA 57.482 40.909 0.00 0.00 0.00 2.83
2723 4776 5.075858 TCGTATCCTCGGTAACAAACAAT 57.924 39.130 0.00 0.00 0.00 2.71
2724 4777 5.481105 TCGTATCCTCGGTAACAAACAATT 58.519 37.500 0.00 0.00 0.00 2.32
2725 4778 6.629128 TCGTATCCTCGGTAACAAACAATTA 58.371 36.000 0.00 0.00 0.00 1.40
2726 4779 7.267128 TCGTATCCTCGGTAACAAACAATTAT 58.733 34.615 0.00 0.00 0.00 1.28
2727 4780 7.765360 TCGTATCCTCGGTAACAAACAATTATT 59.235 33.333 0.00 0.00 0.00 1.40
2728 4781 8.392612 CGTATCCTCGGTAACAAACAATTATTT 58.607 33.333 0.00 0.00 0.00 1.40
2732 4785 9.896263 TCCTCGGTAACAAACAATTATTTTTAC 57.104 29.630 6.07 6.07 0.00 2.01
2733 4786 9.902196 CCTCGGTAACAAACAATTATTTTTACT 57.098 29.630 10.94 0.00 0.00 2.24
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 2.035176 GGATGTAATAACGTGTCGTGCG 60.035 50.000 0.00 0.00 39.99 5.34
11 12 7.872138 AGGTGAATTCTTCCAGGATGTAATAA 58.128 34.615 17.72 0.00 0.00 1.40
13 14 6.332976 AGGTGAATTCTTCCAGGATGTAAT 57.667 37.500 17.72 0.00 0.00 1.89
14 15 5.779241 AGGTGAATTCTTCCAGGATGTAA 57.221 39.130 17.72 0.00 0.00 2.41
38 44 2.608970 ATCGACCAAGGCGGAATGGG 62.609 60.000 0.00 0.00 41.17 4.00
44 50 1.153168 ATCCAATCGACCAAGGCGG 60.153 57.895 0.00 0.00 42.50 6.13
84 90 0.721718 GGACGCTGAAATCTTGTCCG 59.278 55.000 0.00 0.00 39.67 4.79
141 152 0.336392 TCTCTGCCCTGCCTCTAGAA 59.664 55.000 0.00 0.00 0.00 2.10
190 201 2.951458 CCCGCGGAACAGGAAAAC 59.049 61.111 30.73 0.00 0.00 2.43
207 218 1.448717 GAGGAAGGTTCGCTCCTGC 60.449 63.158 0.00 0.00 42.34 4.85
208 219 0.610687 AAGAGGAAGGTTCGCTCCTG 59.389 55.000 0.00 0.00 42.34 3.86
338 367 2.421107 CCAGTCCCTGTCTCCATGAATG 60.421 54.545 0.00 0.00 0.00 2.67
339 368 1.842562 CCAGTCCCTGTCTCCATGAAT 59.157 52.381 0.00 0.00 0.00 2.57
340 369 1.203300 TCCAGTCCCTGTCTCCATGAA 60.203 52.381 0.00 0.00 0.00 2.57
341 370 0.413434 TCCAGTCCCTGTCTCCATGA 59.587 55.000 0.00 0.00 0.00 3.07
342 371 1.504912 ATCCAGTCCCTGTCTCCATG 58.495 55.000 0.00 0.00 0.00 3.66
385 414 0.109689 GCAAGCAAGCAAGCTCAGAG 60.110 55.000 3.26 0.00 45.89 3.35
393 752 1.364901 GAGCCAAGCAAGCAAGCAA 59.635 52.632 3.19 0.00 36.85 3.91
407 766 0.831307 ACAAGATAGGAACCCGAGCC 59.169 55.000 0.00 0.00 0.00 4.70
420 779 0.904649 TGGCTCGACATGGACAAGAT 59.095 50.000 0.00 0.00 0.00 2.40
423 782 1.026182 GCATGGCTCGACATGGACAA 61.026 55.000 14.17 0.00 46.40 3.18
590 957 4.591498 TCCTAGTTTACTTCTCACCTTGCA 59.409 41.667 0.00 0.00 0.00 4.08
667 1034 2.876079 GCTCCCTTTCTCCGTTCATTGT 60.876 50.000 0.00 0.00 0.00 2.71
751 1131 3.971453 CTCACTCGCGCGACCACAT 62.971 63.158 31.40 9.23 0.00 3.21
754 1134 3.396911 GATCTCACTCGCGCGACCA 62.397 63.158 31.40 14.38 0.00 4.02
758 1138 1.592560 GATTCGATCTCACTCGCGCG 61.593 60.000 26.76 26.76 38.52 6.86
817 1197 0.466543 ACCGTGCTGTACAAACCTCA 59.533 50.000 0.00 0.00 0.00 3.86
871 1254 1.439353 GGCATGGTGAGTATGGTGCG 61.439 60.000 0.00 0.00 33.62 5.34
877 1260 4.796110 AAATAGGTGGCATGGTGAGTAT 57.204 40.909 0.00 0.00 0.00 2.12
879 1262 4.796110 ATAAATAGGTGGCATGGTGAGT 57.204 40.909 0.00 0.00 0.00 3.41
881 1264 5.311913 TGGATATAAATAGGTGGCATGGTGA 59.688 40.000 0.00 0.00 0.00 4.02
887 1270 4.967084 ACGTGGATATAAATAGGTGGCA 57.033 40.909 0.00 0.00 0.00 4.92
888 1271 4.694037 GGAACGTGGATATAAATAGGTGGC 59.306 45.833 0.00 0.00 0.00 5.01
967 1360 0.825010 CAGCAGGGGAAGCAAGTTGT 60.825 55.000 4.48 0.00 0.00 3.32
994 1394 0.396695 TCCTCCTCCACCATCGTACC 60.397 60.000 0.00 0.00 0.00 3.34
1380 1807 4.410400 GGGCAGGTGAACCTCCCG 62.410 72.222 16.49 2.14 45.34 5.14
1523 1950 0.592247 GCTGTTGCCGTTGTGAACAG 60.592 55.000 0.00 0.00 46.20 3.16
1524 1951 1.431440 GCTGTTGCCGTTGTGAACA 59.569 52.632 0.00 0.00 0.00 3.18
1714 2141 2.360100 CCTGCTCTGCTGCTTGCT 60.360 61.111 0.00 0.00 43.37 3.91
1740 2167 3.431725 GTTACCCAGCAGCGCACC 61.432 66.667 11.47 0.00 0.00 5.01
1767 2194 3.439476 ACTTGTACGAGTACTACTGCTGG 59.561 47.826 14.42 0.00 37.00 4.85
1768 2195 4.681835 ACTTGTACGAGTACTACTGCTG 57.318 45.455 14.42 0.00 37.00 4.41
1781 2212 1.790623 ACAGTGCGCTTAACTTGTACG 59.209 47.619 9.73 0.00 0.00 3.67
1782 2213 3.872560 AACAGTGCGCTTAACTTGTAC 57.127 42.857 9.73 0.00 0.00 2.90
1856 2295 4.395854 TCACATGGATTGGTTGATCTTTCG 59.604 41.667 0.00 0.00 0.00 3.46
1864 2303 3.439825 TCACGATTCACATGGATTGGTTG 59.560 43.478 0.00 0.00 0.00 3.77
1867 2306 2.355756 GGTCACGATTCACATGGATTGG 59.644 50.000 0.00 0.00 0.00 3.16
1984 2426 1.474320 CCAACGACACAACCAGAAGGA 60.474 52.381 0.00 0.00 38.69 3.36
1989 2431 2.286833 CACTAACCAACGACACAACCAG 59.713 50.000 0.00 0.00 0.00 4.00
2015 2457 0.598158 CACAACACCACATGCCTTGC 60.598 55.000 0.00 0.00 0.00 4.01
2152 4102 1.735920 GTGCGTGCCAGAGACAGAG 60.736 63.158 0.00 0.00 0.00 3.35
2156 4106 3.858868 TTCCGTGCGTGCCAGAGAC 62.859 63.158 0.00 0.00 0.00 3.36
2157 4107 3.611674 TTCCGTGCGTGCCAGAGA 61.612 61.111 0.00 0.00 0.00 3.10
2158 4108 3.414700 GTTCCGTGCGTGCCAGAG 61.415 66.667 0.00 0.00 0.00 3.35
2159 4109 4.228567 TGTTCCGTGCGTGCCAGA 62.229 61.111 0.00 0.00 0.00 3.86
2160 4110 4.012895 GTGTTCCGTGCGTGCCAG 62.013 66.667 0.00 0.00 0.00 4.85
2161 4111 4.840005 TGTGTTCCGTGCGTGCCA 62.840 61.111 0.00 0.00 0.00 4.92
2162 4112 3.114647 TTTGTGTTCCGTGCGTGCC 62.115 57.895 0.00 0.00 0.00 5.01
2163 4113 1.937362 GTTTGTGTTCCGTGCGTGC 60.937 57.895 0.00 0.00 0.00 5.34
2165 4115 0.806241 AAAGTTTGTGTTCCGTGCGT 59.194 45.000 0.00 0.00 0.00 5.24
2234 4243 7.806960 ACAAAACAAGTAGTACTACACGATCTC 59.193 37.037 29.87 5.43 38.48 2.75
2235 4244 7.594015 CACAAAACAAGTAGTACTACACGATCT 59.406 37.037 29.87 9.69 38.48 2.75
2237 4246 6.145048 GCACAAAACAAGTAGTACTACACGAT 59.855 38.462 29.87 14.96 38.48 3.73
2239 4248 5.608843 CGCACAAAACAAGTAGTACTACACG 60.609 44.000 29.87 22.59 38.48 4.49
2241 4250 4.209703 GCGCACAAAACAAGTAGTACTACA 59.790 41.667 29.87 0.00 38.48 2.74
2243 4252 4.370049 TGCGCACAAAACAAGTAGTACTA 58.630 39.130 5.66 0.00 0.00 1.82
2244 4253 3.199677 TGCGCACAAAACAAGTAGTACT 58.800 40.909 5.66 0.00 0.00 2.73
2250 4259 2.869233 ATTCTGCGCACAAAACAAGT 57.131 40.000 5.66 0.00 0.00 3.16
2251 4260 3.551082 TCAAATTCTGCGCACAAAACAAG 59.449 39.130 5.66 0.00 0.00 3.16
2260 4269 3.371168 GTTTTCACTCAAATTCTGCGCA 58.629 40.909 10.98 10.98 0.00 6.09
2261 4270 2.726241 GGTTTTCACTCAAATTCTGCGC 59.274 45.455 0.00 0.00 0.00 6.09
2264 4273 4.970003 GTCGTGGTTTTCACTCAAATTCTG 59.030 41.667 0.00 0.00 43.94 3.02
2265 4274 4.638421 TGTCGTGGTTTTCACTCAAATTCT 59.362 37.500 0.00 0.00 43.94 2.40
2267 4276 4.974368 TGTCGTGGTTTTCACTCAAATT 57.026 36.364 0.00 0.00 43.94 1.82
2268 4277 4.398044 ACTTGTCGTGGTTTTCACTCAAAT 59.602 37.500 0.00 0.00 43.94 2.32
2269 4278 3.754323 ACTTGTCGTGGTTTTCACTCAAA 59.246 39.130 0.00 0.00 43.94 2.69
2271 4280 2.980568 ACTTGTCGTGGTTTTCACTCA 58.019 42.857 0.00 0.00 43.94 3.41
2272 4281 5.668558 AATACTTGTCGTGGTTTTCACTC 57.331 39.130 0.00 0.00 43.94 3.51
2273 4282 6.445357 AAAATACTTGTCGTGGTTTTCACT 57.555 33.333 0.00 0.00 43.94 3.41
2275 4284 9.635520 TTTTTAAAATACTTGTCGTGGTTTTCA 57.364 25.926 0.55 0.00 31.58 2.69
2276 4285 9.890085 GTTTTTAAAATACTTGTCGTGGTTTTC 57.110 29.630 0.55 0.00 31.58 2.29
2277 4286 8.585436 CGTTTTTAAAATACTTGTCGTGGTTTT 58.415 29.630 0.55 0.00 32.87 2.43
2278 4287 7.220491 CCGTTTTTAAAATACTTGTCGTGGTTT 59.780 33.333 0.55 0.00 0.00 3.27
2279 4288 6.692249 CCGTTTTTAAAATACTTGTCGTGGTT 59.308 34.615 0.55 0.00 0.00 3.67
2280 4289 6.038050 TCCGTTTTTAAAATACTTGTCGTGGT 59.962 34.615 0.55 0.00 0.00 4.16
2281 4290 6.428799 TCCGTTTTTAAAATACTTGTCGTGG 58.571 36.000 0.55 0.00 0.00 4.94
2283 4292 6.293571 CCCTCCGTTTTTAAAATACTTGTCGT 60.294 38.462 0.55 0.00 0.00 4.34
2284 4293 6.073112 TCCCTCCGTTTTTAAAATACTTGTCG 60.073 38.462 0.55 0.00 0.00 4.35
2286 4295 6.774170 ACTCCCTCCGTTTTTAAAATACTTGT 59.226 34.615 0.55 0.00 0.00 3.16
2287 4296 7.210718 ACTCCCTCCGTTTTTAAAATACTTG 57.789 36.000 0.55 0.00 0.00 3.16
2288 4297 7.938490 TGTACTCCCTCCGTTTTTAAAATACTT 59.062 33.333 0.55 0.00 0.00 2.24
2289 4298 7.452562 TGTACTCCCTCCGTTTTTAAAATACT 58.547 34.615 0.55 0.00 0.00 2.12
2290 4299 7.671495 TGTACTCCCTCCGTTTTTAAAATAC 57.329 36.000 0.55 2.88 0.00 1.89
2291 4300 7.553760 GGATGTACTCCCTCCGTTTTTAAAATA 59.446 37.037 0.55 0.00 38.19 1.40
2292 4301 6.376299 GGATGTACTCCCTCCGTTTTTAAAAT 59.624 38.462 0.55 0.00 38.19 1.82
2293 4302 5.706833 GGATGTACTCCCTCCGTTTTTAAAA 59.293 40.000 0.00 0.00 38.19 1.52
2294 4303 5.247862 GGATGTACTCCCTCCGTTTTTAAA 58.752 41.667 0.00 0.00 38.19 1.52
2295 4304 4.621274 CGGATGTACTCCCTCCGTTTTTAA 60.621 45.833 14.50 0.00 45.30 1.52
2296 4305 3.119029 CGGATGTACTCCCTCCGTTTTTA 60.119 47.826 14.50 0.00 45.30 1.52
2297 4306 2.354403 CGGATGTACTCCCTCCGTTTTT 60.354 50.000 14.50 0.00 45.30 1.94
2298 4307 1.206371 CGGATGTACTCCCTCCGTTTT 59.794 52.381 14.50 0.00 45.30 2.43
2299 4308 0.822164 CGGATGTACTCCCTCCGTTT 59.178 55.000 14.50 0.00 45.30 3.60
2300 4309 2.501492 CGGATGTACTCCCTCCGTT 58.499 57.895 14.50 0.00 45.30 4.44
2301 4310 4.254721 CGGATGTACTCCCTCCGT 57.745 61.111 14.50 0.00 45.30 4.69
2303 4312 2.728817 CGCGGATGTACTCCCTCC 59.271 66.667 0.00 0.00 41.49 4.30
2304 4313 2.027751 GCGCGGATGTACTCCCTC 59.972 66.667 8.83 0.00 41.49 4.30
2322 4331 0.451783 GCTTGCAAGATGTTACCCCG 59.548 55.000 30.39 0.00 0.00 5.73
2325 4334 2.032178 GGATCGCTTGCAAGATGTTACC 59.968 50.000 30.39 18.48 0.00 2.85
2348 4358 2.465860 TGGTGTACGAGGAAACCATG 57.534 50.000 0.00 0.00 37.77 3.66
2350 4360 2.635915 AGAATGGTGTACGAGGAAACCA 59.364 45.455 0.00 0.00 46.26 3.67
2411 4444 3.190849 CGGTGAGACATGCAGGCG 61.191 66.667 0.00 0.00 0.00 5.52
2459 4496 2.764572 CTCCTCACCACCCGTAGTTAAT 59.235 50.000 0.00 0.00 0.00 1.40
2469 4506 2.607750 TCCAGCCTCCTCACCACC 60.608 66.667 0.00 0.00 0.00 4.61
2470 4507 2.664081 CCTCCAGCCTCCTCACCAC 61.664 68.421 0.00 0.00 0.00 4.16
2471 4508 2.284921 CCTCCAGCCTCCTCACCA 60.285 66.667 0.00 0.00 0.00 4.17
2472 4509 3.086600 CCCTCCAGCCTCCTCACC 61.087 72.222 0.00 0.00 0.00 4.02
2473 4510 3.791586 GCCCTCCAGCCTCCTCAC 61.792 72.222 0.00 0.00 0.00 3.51
2482 4519 3.866582 GTGATCCCGGCCCTCCAG 61.867 72.222 0.00 0.00 0.00 3.86
2539 4591 1.447217 CCGATAGTCAGCATGGGCA 59.553 57.895 0.00 0.00 44.61 5.36
2540 4592 1.963338 GCCGATAGTCAGCATGGGC 60.963 63.158 0.00 0.00 39.62 5.36
2541 4593 0.320247 GAGCCGATAGTCAGCATGGG 60.320 60.000 0.00 0.00 36.16 4.00
2542 4594 0.390492 TGAGCCGATAGTCAGCATGG 59.610 55.000 0.00 0.00 36.16 3.66
2543 4595 2.133553 CTTGAGCCGATAGTCAGCATG 58.866 52.381 0.00 0.00 37.54 4.06
2544 4596 1.539929 GCTTGAGCCGATAGTCAGCAT 60.540 52.381 0.00 0.00 34.31 3.79
2546 4598 0.103937 AGCTTGAGCCGATAGTCAGC 59.896 55.000 0.00 0.00 43.38 4.26
2549 4602 2.468831 CAAGAGCTTGAGCCGATAGTC 58.531 52.381 4.22 0.00 42.93 2.59
2559 4612 1.681666 CAGCCCTCCAAGAGCTTGA 59.318 57.895 11.61 0.00 42.93 3.02
2560 4613 1.378250 CCAGCCCTCCAAGAGCTTG 60.378 63.158 3.27 3.27 40.13 4.01
2561 4614 1.136329 TTCCAGCCCTCCAAGAGCTT 61.136 55.000 0.00 0.00 33.70 3.74
2562 4615 0.918310 ATTCCAGCCCTCCAAGAGCT 60.918 55.000 0.00 0.00 37.32 4.09
2563 4616 0.033699 AATTCCAGCCCTCCAAGAGC 60.034 55.000 0.00 0.00 0.00 4.09
2564 4617 2.373224 GAAATTCCAGCCCTCCAAGAG 58.627 52.381 0.00 0.00 0.00 2.85
2565 4618 1.005924 GGAAATTCCAGCCCTCCAAGA 59.994 52.381 7.23 0.00 36.28 3.02
2566 4619 1.478631 GGAAATTCCAGCCCTCCAAG 58.521 55.000 7.23 0.00 36.28 3.61
2567 4620 0.041090 GGGAAATTCCAGCCCTCCAA 59.959 55.000 14.68 0.00 38.64 3.53
2569 4622 4.686695 GGGAAATTCCAGCCCTCC 57.313 61.111 14.68 0.00 38.64 4.30
2572 4625 2.815158 TGTAAAGGGAAATTCCAGCCC 58.185 47.619 14.68 0.00 38.64 5.19
2573 4626 4.086457 TCTTGTAAAGGGAAATTCCAGCC 58.914 43.478 14.68 0.00 46.24 4.85
2574 4627 5.722021 TTCTTGTAAAGGGAAATTCCAGC 57.278 39.130 14.68 0.00 46.24 4.85
2575 4628 7.363268 CCAGATTCTTGTAAAGGGAAATTCCAG 60.363 40.741 14.68 0.68 46.24 3.86
2576 4629 6.437162 CCAGATTCTTGTAAAGGGAAATTCCA 59.563 38.462 14.68 0.00 46.24 3.53
2577 4630 6.663523 TCCAGATTCTTGTAAAGGGAAATTCC 59.336 38.462 2.79 2.79 46.24 3.01
2578 4631 7.148000 CCTCCAGATTCTTGTAAAGGGAAATTC 60.148 40.741 0.00 0.00 46.24 2.17
2579 4632 6.665248 CCTCCAGATTCTTGTAAAGGGAAATT 59.335 38.462 0.00 0.00 46.24 1.82
2580 4633 6.190587 CCTCCAGATTCTTGTAAAGGGAAAT 58.809 40.000 0.00 0.00 46.24 2.17
2581 4634 5.516591 CCCTCCAGATTCTTGTAAAGGGAAA 60.517 44.000 4.71 0.00 46.24 3.13
2582 4635 4.018415 CCCTCCAGATTCTTGTAAAGGGAA 60.018 45.833 4.71 0.00 46.24 3.97
2583 4636 3.523564 CCCTCCAGATTCTTGTAAAGGGA 59.476 47.826 4.71 0.00 46.24 4.20
2584 4637 3.891049 CCCTCCAGATTCTTGTAAAGGG 58.109 50.000 0.00 0.00 46.24 3.95
2585 4638 3.054065 AGCCCTCCAGATTCTTGTAAAGG 60.054 47.826 0.00 0.00 46.24 3.11
2587 4640 3.308402 CCAGCCCTCCAGATTCTTGTAAA 60.308 47.826 0.00 0.00 0.00 2.01
2588 4641 2.239654 CCAGCCCTCCAGATTCTTGTAA 59.760 50.000 0.00 0.00 0.00 2.41
2589 4642 1.839994 CCAGCCCTCCAGATTCTTGTA 59.160 52.381 0.00 0.00 0.00 2.41
2590 4643 0.622665 CCAGCCCTCCAGATTCTTGT 59.377 55.000 0.00 0.00 0.00 3.16
2591 4644 0.914644 TCCAGCCCTCCAGATTCTTG 59.085 55.000 0.00 0.00 0.00 3.02
2592 4645 1.211456 CTCCAGCCCTCCAGATTCTT 58.789 55.000 0.00 0.00 0.00 2.52
2593 4646 0.043940 ACTCCAGCCCTCCAGATTCT 59.956 55.000 0.00 0.00 0.00 2.40
2594 4647 0.179936 CACTCCAGCCCTCCAGATTC 59.820 60.000 0.00 0.00 0.00 2.52
2595 4648 0.252881 TCACTCCAGCCCTCCAGATT 60.253 55.000 0.00 0.00 0.00 2.40
2596 4649 0.690411 CTCACTCCAGCCCTCCAGAT 60.690 60.000 0.00 0.00 0.00 2.90
2597 4650 1.305633 CTCACTCCAGCCCTCCAGA 60.306 63.158 0.00 0.00 0.00 3.86
2598 4651 2.365586 CCTCACTCCAGCCCTCCAG 61.366 68.421 0.00 0.00 0.00 3.86
2599 4652 2.284921 CCTCACTCCAGCCCTCCA 60.285 66.667 0.00 0.00 0.00 3.86
2618 4671 4.736631 CTGACGAGACGCGCACGA 62.737 66.667 22.34 4.77 46.04 4.35
2663 4716 1.840737 TATCGATCTGCCTAGCCCTC 58.159 55.000 0.00 0.00 0.00 4.30
2664 4717 2.106566 CATATCGATCTGCCTAGCCCT 58.893 52.381 0.00 0.00 0.00 5.19
2665 4718 1.137872 CCATATCGATCTGCCTAGCCC 59.862 57.143 0.00 0.00 0.00 5.19
2666 4719 1.137872 CCCATATCGATCTGCCTAGCC 59.862 57.143 0.00 0.00 0.00 3.93
2667 4720 1.472376 GCCCATATCGATCTGCCTAGC 60.472 57.143 0.00 0.00 0.00 3.42
2668 4721 2.100584 GAGCCCATATCGATCTGCCTAG 59.899 54.545 0.00 0.00 0.00 3.02
2669 4722 2.103373 GAGCCCATATCGATCTGCCTA 58.897 52.381 0.00 0.00 0.00 3.93
2670 4723 0.901124 GAGCCCATATCGATCTGCCT 59.099 55.000 0.00 1.52 0.00 4.75
2671 4724 0.610174 TGAGCCCATATCGATCTGCC 59.390 55.000 0.00 0.00 0.00 4.85
2672 4725 1.274728 AGTGAGCCCATATCGATCTGC 59.725 52.381 0.00 0.35 0.00 4.26
2673 4726 2.415224 CGAGTGAGCCCATATCGATCTG 60.415 54.545 0.00 1.71 36.86 2.90
2674 4727 1.815613 CGAGTGAGCCCATATCGATCT 59.184 52.381 0.00 0.00 36.86 2.75
2675 4728 1.734047 GCGAGTGAGCCCATATCGATC 60.734 57.143 0.00 0.00 36.86 3.69
2676 4729 0.244994 GCGAGTGAGCCCATATCGAT 59.755 55.000 2.16 2.16 36.86 3.59
2677 4730 1.106944 TGCGAGTGAGCCCATATCGA 61.107 55.000 9.46 0.00 36.86 3.59
2678 4731 0.665670 CTGCGAGTGAGCCCATATCG 60.666 60.000 2.11 2.11 37.40 2.92
2679 4732 0.390860 ACTGCGAGTGAGCCCATATC 59.609 55.000 0.00 0.00 36.02 1.63
2680 4733 0.390860 GACTGCGAGTGAGCCCATAT 59.609 55.000 0.00 0.00 36.02 1.78
2681 4734 0.684479 AGACTGCGAGTGAGCCCATA 60.684 55.000 0.00 0.00 36.02 2.74
2682 4735 1.548357 AAGACTGCGAGTGAGCCCAT 61.548 55.000 0.00 0.00 36.02 4.00
2683 4736 2.159819 GAAGACTGCGAGTGAGCCCA 62.160 60.000 0.00 0.00 36.02 5.36
2684 4737 1.446966 GAAGACTGCGAGTGAGCCC 60.447 63.158 0.00 0.00 36.02 5.19
2685 4738 1.803519 CGAAGACTGCGAGTGAGCC 60.804 63.158 0.00 0.00 36.02 4.70
2686 4739 0.168348 TACGAAGACTGCGAGTGAGC 59.832 55.000 10.59 0.00 37.71 4.26
2687 4740 2.539953 GGATACGAAGACTGCGAGTGAG 60.540 54.545 10.59 0.00 0.00 3.51
2688 4741 1.400846 GGATACGAAGACTGCGAGTGA 59.599 52.381 10.59 0.00 0.00 3.41
2689 4742 1.402259 AGGATACGAAGACTGCGAGTG 59.598 52.381 10.59 0.00 46.39 3.51
2690 4743 1.671845 GAGGATACGAAGACTGCGAGT 59.328 52.381 10.59 0.00 46.39 4.18
2691 4744 1.333347 CGAGGATACGAAGACTGCGAG 60.333 57.143 10.59 0.00 46.39 5.03
2692 4745 0.656259 CGAGGATACGAAGACTGCGA 59.344 55.000 10.59 0.00 46.39 5.10
2693 4746 0.317103 CCGAGGATACGAAGACTGCG 60.317 60.000 0.00 0.00 46.39 5.18
2694 4747 0.739561 ACCGAGGATACGAAGACTGC 59.260 55.000 0.00 0.00 46.39 4.40
2695 4748 3.376234 TGTTACCGAGGATACGAAGACTG 59.624 47.826 0.00 0.00 46.39 3.51
2696 4749 3.614092 TGTTACCGAGGATACGAAGACT 58.386 45.455 0.00 0.00 46.39 3.24
2697 4750 4.361451 TTGTTACCGAGGATACGAAGAC 57.639 45.455 0.00 0.00 46.39 3.01
2698 4751 4.218200 TGTTTGTTACCGAGGATACGAAGA 59.782 41.667 0.00 0.00 46.39 2.87
2699 4752 4.487948 TGTTTGTTACCGAGGATACGAAG 58.512 43.478 0.00 0.00 46.39 3.79
2700 4753 4.517952 TGTTTGTTACCGAGGATACGAA 57.482 40.909 0.00 0.00 46.39 3.85
2701 4754 4.517952 TTGTTTGTTACCGAGGATACGA 57.482 40.909 0.00 0.00 46.39 3.43
2702 4755 5.789710 AATTGTTTGTTACCGAGGATACG 57.210 39.130 0.00 0.00 46.39 3.06
2706 4759 9.896263 GTAAAAATAATTGTTTGTTACCGAGGA 57.104 29.630 0.51 0.00 0.00 3.71
2707 4760 9.902196 AGTAAAAATAATTGTTTGTTACCGAGG 57.098 29.630 18.08 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.