Multiple sequence alignment - TraesCS4D01G059400

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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 TraesCS4D01G059400 chr4D 100.000 4929 0 0 1 4929 35170393 35165465 0.000000e+00 9103.0
1 TraesCS4D01G059400 chr4D 74.919 307 64 10 4427 4728 404111289 404111587 1.440000e-25 128.0
2 TraesCS4D01G059400 chr4A 92.117 3184 132 45 1799 4929 567477267 567480384 0.000000e+00 4379.0
3 TraesCS4D01G059400 chr4A 91.801 866 46 9 808 1648 567476232 567477097 0.000000e+00 1182.0
4 TraesCS4D01G059400 chr4A 88.411 302 28 3 3 298 567472957 567473257 1.690000e-94 357.0
5 TraesCS4D01G059400 chr4A 86.667 180 17 4 291 464 567475716 567475894 5.040000e-45 193.0
6 TraesCS4D01G059400 chr4A 81.373 204 23 8 638 828 567476016 567476217 8.550000e-33 152.0
7 TraesCS4D01G059400 chr4A 74.013 304 66 10 4430 4728 61615914 61616209 1.450000e-20 111.0
8 TraesCS4D01G059400 chr4A 90.789 76 3 2 3419 3490 567478816 567478891 1.130000e-16 99.0
9 TraesCS4D01G059400 chr4A 94.737 38 1 1 473 510 567472949 567472913 1.920000e-04 58.4
10 TraesCS4D01G059400 chr4B 90.180 2393 115 56 2619 4929 50834306 50836660 0.000000e+00 3007.0
11 TraesCS4D01G059400 chr4B 89.689 1125 71 21 701 1784 50832423 50833543 0.000000e+00 1393.0
12 TraesCS4D01G059400 chr4B 89.861 789 55 14 1799 2576 50833527 50834301 0.000000e+00 990.0
13 TraesCS4D01G059400 chr4B 91.011 178 16 0 3 180 51121103 51120926 1.770000e-59 241.0
14 TraesCS4D01G059400 chr4B 75.325 308 63 10 4426 4728 500868715 500869014 8.610000e-28 135.0
15 TraesCS4D01G059400 chr4B 100.000 28 0 0 479 506 51121116 51121143 9.000000e-03 52.8
16 TraesCS4D01G059400 chr3B 77.303 304 54 12 4440 4737 673170230 673170524 1.100000e-36 165.0
17 TraesCS4D01G059400 chrUn 78.414 227 42 6 4445 4669 122077695 122077474 1.850000e-29 141.0
18 TraesCS4D01G059400 chr5D 78.509 228 40 8 4445 4669 1802225 1802004 1.850000e-29 141.0
19 TraesCS4D01G059400 chr5D 72.574 237 54 10 4436 4668 351806919 351807148 3.180000e-07 67.6
20 TraesCS4D01G059400 chr3A 75.658 304 59 12 4440 4737 647613747 647613453 2.390000e-28 137.0
21 TraesCS4D01G059400 chr5B 78.027 223 42 6 4449 4669 656280 656497 3.100000e-27 134.0
22 TraesCS4D01G059400 chr5B 74.613 323 61 17 4412 4722 682819933 682819620 6.700000e-24 122.0
23 TraesCS4D01G059400 chr5B 72.973 222 49 10 4451 4668 417153698 417153484 3.180000e-07 67.6
24 TraesCS4D01G059400 chr7D 73.958 288 60 11 4458 4739 566016090 566015812 8.730000e-18 102.0
25 TraesCS4D01G059400 chr5A 72.242 281 65 12 4451 4726 454271870 454271598 1.900000e-09 75.0
26 TraesCS4D01G059400 chr1B 94.444 36 0 2 4871 4905 626687980 626687946 2.000000e-03 54.7
27 TraesCS4D01G059400 chr1A 94.444 36 0 2 4871 4905 549712144 549712110 2.000000e-03 54.7


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 TraesCS4D01G059400 chr4D 35165465 35170393 4928 True 9103.000000 9103 100.000000 1 4929 1 chr4D.!!$R1 4928
1 TraesCS4D01G059400 chr4A 567472957 567480384 7427 False 1060.333333 4379 88.526333 3 4929 6 chr4A.!!$F2 4926
2 TraesCS4D01G059400 chr4B 50832423 50836660 4237 False 1796.666667 3007 89.910000 701 4929 3 chr4B.!!$F3 4228

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
55 62 0.036765 TTGTGCCGATGTACTGGTCC 60.037 55.000 0.00 0.0 0.00 4.46 F
304 2777 0.683504 ACGACCTAGGAGCCGTGAAT 60.684 55.000 17.98 0.0 33.69 2.57 F
1175 3781 0.535797 CTCCCCTCGTCCAAGGTAAC 59.464 60.000 0.00 0.0 34.34 2.50 F
1537 4150 0.950836 TTGGCGTCAATGACAGGTTG 59.049 50.000 14.24 0.0 32.09 3.77 F
2572 5254 2.230992 TGCATTTGGTGAGCCACATAAC 59.769 45.455 7.49 0.0 46.01 1.89 F
3093 5804 0.618458 TATGTCACTGAAGCCCCCAC 59.382 55.000 0.00 0.0 0.00 4.61 F
3890 6655 0.036577 GCTCATGCTGTGGTCAGACT 60.037 55.000 0.00 0.0 43.76 3.24 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1175 3781 0.595053 ACGTGATAAGATGAGCGCGG 60.595 55.000 8.83 0.0 42.69 6.46 R
1483 4096 0.678950 TCATGTGCCAGAACTCGTCA 59.321 50.000 0.00 0.0 0.00 4.35 R
3041 5752 1.142870 TGGCCTAAACAGCACAAGAGT 59.857 47.619 3.32 0.0 0.00 3.24 R
3049 5760 1.731720 CACTCTCTGGCCTAAACAGC 58.268 55.000 3.32 0.0 35.94 4.40 R
3537 6249 0.516877 TGAAGAAACATGAAGCGCGG 59.483 50.000 8.83 0.0 0.00 6.46 R
3898 6663 1.168407 GCTGCTGTGCTTCTTGGTGA 61.168 55.000 0.00 0.0 0.00 4.02 R
4846 7630 2.416162 GCTGGACAAGTACCTCTTCTCG 60.416 54.545 0.00 0.0 33.63 4.04 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
33 34 6.869315 TTGTCACCTTATTGAATGTTTCGA 57.131 33.333 0.00 0.00 0.00 3.71
40 41 7.113404 CACCTTATTGAATGTTTCGACTTTGTG 59.887 37.037 0.00 0.00 0.00 3.33
51 58 1.390123 CGACTTTGTGCCGATGTACTG 59.610 52.381 0.00 0.00 0.00 2.74
55 62 0.036765 TTGTGCCGATGTACTGGTCC 60.037 55.000 0.00 0.00 0.00 4.46
71 78 2.983192 TGGTCCTGATTGGTTTGACCTA 59.017 45.455 8.31 0.00 44.60 3.08
86 93 7.726291 TGGTTTGACCTATCATTTAAGGTGAAA 59.274 33.333 0.00 0.35 46.22 2.69
98 105 7.860373 TCATTTAAGGTGAAAATCTTTGTGTCG 59.140 33.333 0.00 0.00 0.00 4.35
102 109 5.063204 AGGTGAAAATCTTTGTGTCGATGA 58.937 37.500 0.00 0.00 0.00 2.92
119 126 3.684305 CGATGACACAACTAGATTTGGCA 59.316 43.478 0.00 0.00 0.00 4.92
124 131 5.301551 TGACACAACTAGATTTGGCAATGTT 59.698 36.000 0.00 0.00 0.00 2.71
127 134 4.832266 ACAACTAGATTTGGCAATGTTGGA 59.168 37.500 21.91 3.44 37.99 3.53
152 159 8.480643 AGCGGATGCATAATTACTTCTTATAC 57.519 34.615 0.00 0.00 46.23 1.47
153 160 8.094548 AGCGGATGCATAATTACTTCTTATACA 58.905 33.333 0.00 0.00 46.23 2.29
178 185 7.598118 CACATTGTGTGCAAAAATATGGACTTA 59.402 33.333 8.69 0.00 41.89 2.24
183 190 6.089417 GTGTGCAAAAATATGGACTTAGTTGC 59.911 38.462 0.00 0.00 41.65 4.17
192 199 2.948979 TGGACTTAGTTGCAGGTGTTTG 59.051 45.455 0.00 0.00 0.00 2.93
196 203 3.380320 ACTTAGTTGCAGGTGTTTGGTTC 59.620 43.478 0.00 0.00 0.00 3.62
231 238 5.382618 AAAGAAATCTTTGCGCAAGAGAT 57.617 34.783 27.43 27.43 45.11 2.75
234 241 0.737219 ATCTTTGCGCAAGAGATGGC 59.263 50.000 29.96 0.00 45.11 4.40
248 255 1.895798 AGATGGCACGATCCATACGAT 59.104 47.619 11.92 0.00 46.29 3.73
261 268 2.095853 CCATACGATGTCAAAGTGGCAC 59.904 50.000 10.29 10.29 33.31 5.01
262 269 1.424403 TACGATGTCAAAGTGGCACG 58.576 50.000 12.71 0.00 33.31 5.34
287 294 3.479006 CATCAAAGCGTCAACCTAAACG 58.521 45.455 0.00 0.00 41.68 3.60
293 300 2.094854 AGCGTCAACCTAAACGACCTAG 60.095 50.000 0.00 0.00 41.29 3.02
301 2774 0.813184 TAAACGACCTAGGAGCCGTG 59.187 55.000 17.98 0.50 35.28 4.94
304 2777 0.683504 ACGACCTAGGAGCCGTGAAT 60.684 55.000 17.98 0.00 33.69 2.57
306 2779 1.404843 GACCTAGGAGCCGTGAATCT 58.595 55.000 17.98 0.00 0.00 2.40
320 2793 1.269778 TGAATCTAAGAGGCGGCGATG 60.270 52.381 12.98 0.00 0.00 3.84
338 2816 2.286365 TGCCCGAGAAGACCAAAAAT 57.714 45.000 0.00 0.00 0.00 1.82
402 2881 2.228925 TGCATGCACTCTGCTTGTTTA 58.771 42.857 18.46 0.00 46.40 2.01
403 2882 2.622470 TGCATGCACTCTGCTTGTTTAA 59.378 40.909 18.46 0.00 46.40 1.52
433 2912 7.714377 TGTTTTGGCTTCAATGTTTCACATATT 59.286 29.630 0.00 0.00 37.97 1.28
434 2913 9.202273 GTTTTGGCTTCAATGTTTCACATATTA 57.798 29.630 0.00 0.00 37.97 0.98
461 2940 9.778741 TTTAAGAAACTAATGATGTGAGTGTCT 57.221 29.630 0.00 0.00 39.08 3.41
462 2941 7.664082 AAGAAACTAATGATGTGAGTGTCTG 57.336 36.000 0.00 0.00 36.88 3.51
463 2942 6.763355 AGAAACTAATGATGTGAGTGTCTGT 58.237 36.000 0.00 0.00 36.59 3.41
465 2944 5.991933 ACTAATGATGTGAGTGTCTGTCT 57.008 39.130 0.00 0.00 0.00 3.41
466 2945 7.468141 AACTAATGATGTGAGTGTCTGTCTA 57.532 36.000 0.00 0.00 0.00 2.59
467 2946 6.857956 ACTAATGATGTGAGTGTCTGTCTAC 58.142 40.000 0.00 0.00 0.00 2.59
469 2948 5.991933 ATGATGTGAGTGTCTGTCTACTT 57.008 39.130 0.00 0.00 0.00 2.24
470 2949 7.468141 AATGATGTGAGTGTCTGTCTACTTA 57.532 36.000 0.00 0.00 0.00 2.24
471 2950 7.652524 ATGATGTGAGTGTCTGTCTACTTAT 57.347 36.000 0.00 0.00 0.00 1.73
472 2951 7.468141 TGATGTGAGTGTCTGTCTACTTATT 57.532 36.000 0.00 0.00 0.00 1.40
473 2952 7.315890 TGATGTGAGTGTCTGTCTACTTATTG 58.684 38.462 0.00 0.00 0.00 1.90
474 2953 6.894339 TGTGAGTGTCTGTCTACTTATTGA 57.106 37.500 0.00 0.00 0.00 2.57
475 2954 7.284919 TGTGAGTGTCTGTCTACTTATTGAA 57.715 36.000 0.00 0.00 0.00 2.69
476 2955 7.896811 TGTGAGTGTCTGTCTACTTATTGAAT 58.103 34.615 0.00 0.00 0.00 2.57
477 2956 9.020731 TGTGAGTGTCTGTCTACTTATTGAATA 57.979 33.333 0.00 0.00 0.00 1.75
496 2975 8.601047 TTGAATATTTCAACCCCATACATGAA 57.399 30.769 0.00 0.00 44.21 2.57
497 2976 8.601047 TGAATATTTCAACCCCATACATGAAA 57.399 30.769 0.00 2.69 43.53 2.69
586 3113 7.832685 ACCTTCTTTTTACTCAAAACTACCTGT 59.167 33.333 0.00 0.00 33.39 4.00
619 3146 3.680777 TTTTCCCCTTTGAGGACAGTT 57.319 42.857 0.00 0.00 37.67 3.16
620 3147 2.951229 TTCCCCTTTGAGGACAGTTC 57.049 50.000 0.00 0.00 37.67 3.01
621 3148 1.064825 TCCCCTTTGAGGACAGTTCC 58.935 55.000 0.00 0.00 43.22 3.62
649 3181 6.554334 TTTTAAGAATCGGACACTCCTTTG 57.446 37.500 0.00 0.00 33.30 2.77
657 3189 5.988310 TCGGACACTCCTTTGTATTTAGA 57.012 39.130 0.00 0.00 33.30 2.10
665 3197 7.661847 ACACTCCTTTGTATTTAGAGAGGTTTG 59.338 37.037 0.00 0.00 0.00 2.93
737 3269 2.303311 AGGACAGTCCTTTTGTAGGCTC 59.697 50.000 17.31 0.00 46.91 4.70
802 3341 1.070786 GGCGAGTCAGTCCAAACCA 59.929 57.895 0.00 0.00 0.00 3.67
819 3358 0.962356 CCAGCTGAACAGGCCGAATT 60.962 55.000 17.39 0.00 0.00 2.17
1175 3781 0.535797 CTCCCCTCGTCCAAGGTAAC 59.464 60.000 0.00 0.00 34.34 2.50
1179 3785 1.804326 CTCGTCCAAGGTAACCGCG 60.804 63.158 0.00 0.00 37.17 6.46
1191 3797 2.545113 GGTAACCGCGCTCATCTTATCA 60.545 50.000 5.56 0.00 0.00 2.15
1346 3952 3.432252 ACGTCTGTCGGATGAAACATTTC 59.568 43.478 7.92 0.00 44.69 2.17
1355 3961 4.142600 CGGATGAAACATTTCTCTTCCCAC 60.143 45.833 5.97 0.00 38.02 4.61
1393 3999 1.228245 GCAGCCCTCTTGTGTTGGA 60.228 57.895 0.00 0.00 0.00 3.53
1442 4050 2.567985 TCATACTGATCGTAGCGGTCA 58.432 47.619 4.41 4.41 45.01 4.02
1443 4051 3.146847 TCATACTGATCGTAGCGGTCAT 58.853 45.455 4.92 0.00 46.01 3.06
1444 4052 3.058224 TCATACTGATCGTAGCGGTCATG 60.058 47.826 4.92 1.82 46.01 3.07
1483 4096 1.303317 GGTGGTTCGCATCCAAGGT 60.303 57.895 0.00 0.00 36.68 3.50
1537 4150 0.950836 TTGGCGTCAATGACAGGTTG 59.049 50.000 14.24 0.00 32.09 3.77
1648 4264 7.180322 AGATATCCACTGCTTGATATACCAG 57.820 40.000 0.00 0.00 35.00 4.00
1672 4341 9.424319 CAGTTTTAAGTTGTATCAGAAGCTCTA 57.576 33.333 0.00 0.00 0.00 2.43
1707 4376 8.319881 GTTTAGTACTTCTCCCCAACTTCTTAT 58.680 37.037 0.00 0.00 0.00 1.73
1708 4377 9.551339 TTTAGTACTTCTCCCCAACTTCTTATA 57.449 33.333 0.00 0.00 0.00 0.98
1709 4378 7.421087 AGTACTTCTCCCCAACTTCTTATAC 57.579 40.000 0.00 0.00 0.00 1.47
1742 4414 5.966742 AGCTCTTTTATGGTGAACCTTTC 57.033 39.130 0.37 0.00 36.82 2.62
1751 4423 4.088056 TGGTGAACCTTTCCGATTTACA 57.912 40.909 0.37 0.00 36.82 2.41
1755 4427 5.221087 GGTGAACCTTTCCGATTTACAACAA 60.221 40.000 0.00 0.00 0.00 2.83
1767 4439 4.848562 TTTACAACAACAACCACACACA 57.151 36.364 0.00 0.00 0.00 3.72
1768 4440 5.392767 TTTACAACAACAACCACACACAT 57.607 34.783 0.00 0.00 0.00 3.21
1769 4441 3.502191 ACAACAACAACCACACACATC 57.498 42.857 0.00 0.00 0.00 3.06
1770 4442 3.088532 ACAACAACAACCACACACATCT 58.911 40.909 0.00 0.00 0.00 2.90
1771 4443 4.265893 ACAACAACAACCACACACATCTA 58.734 39.130 0.00 0.00 0.00 1.98
1772 4444 4.702612 ACAACAACAACCACACACATCTAA 59.297 37.500 0.00 0.00 0.00 2.10
1773 4445 5.359576 ACAACAACAACCACACACATCTAAT 59.640 36.000 0.00 0.00 0.00 1.73
1774 4446 5.437289 ACAACAACCACACACATCTAATG 57.563 39.130 0.00 0.00 0.00 1.90
1775 4447 5.129634 ACAACAACCACACACATCTAATGA 58.870 37.500 0.00 0.00 0.00 2.57
1776 4448 5.008613 ACAACAACCACACACATCTAATGAC 59.991 40.000 0.00 0.00 0.00 3.06
1777 4449 4.973168 ACAACCACACACATCTAATGACT 58.027 39.130 0.00 0.00 0.00 3.41
1778 4450 5.376625 ACAACCACACACATCTAATGACTT 58.623 37.500 0.00 0.00 0.00 3.01
1779 4451 5.827797 ACAACCACACACATCTAATGACTTT 59.172 36.000 0.00 0.00 0.00 2.66
1780 4452 6.995686 ACAACCACACACATCTAATGACTTTA 59.004 34.615 0.00 0.00 0.00 1.85
1781 4453 7.173218 ACAACCACACACATCTAATGACTTTAG 59.827 37.037 2.40 2.40 38.98 1.85
1782 4454 6.173339 ACCACACACATCTAATGACTTTAGG 58.827 40.000 7.94 0.00 38.29 2.69
1783 4455 6.013725 ACCACACACATCTAATGACTTTAGGA 60.014 38.462 7.94 0.00 38.29 2.94
1784 4456 6.878923 CCACACACATCTAATGACTTTAGGAA 59.121 38.462 7.94 0.00 38.29 3.36
1785 4457 7.148407 CCACACACATCTAATGACTTTAGGAAC 60.148 40.741 7.94 0.00 38.29 3.62
1786 4458 6.879458 ACACACATCTAATGACTTTAGGAACC 59.121 38.462 7.94 0.00 38.29 3.62
1787 4459 6.316390 CACACATCTAATGACTTTAGGAACCC 59.684 42.308 7.94 0.00 38.29 4.11
1788 4460 5.823045 CACATCTAATGACTTTAGGAACCCC 59.177 44.000 7.94 0.00 38.29 4.95
1789 4461 5.731678 ACATCTAATGACTTTAGGAACCCCT 59.268 40.000 7.94 0.00 46.62 4.79
1790 4462 5.952347 TCTAATGACTTTAGGAACCCCTC 57.048 43.478 7.94 0.00 43.14 4.30
1791 4463 5.347124 TCTAATGACTTTAGGAACCCCTCA 58.653 41.667 7.94 0.00 43.14 3.86
1792 4464 5.788533 TCTAATGACTTTAGGAACCCCTCAA 59.211 40.000 7.94 0.00 43.14 3.02
1793 4465 5.333566 AATGACTTTAGGAACCCCTCAAA 57.666 39.130 0.00 0.00 43.14 2.69
1794 4466 4.799715 TGACTTTAGGAACCCCTCAAAA 57.200 40.909 0.00 0.00 43.14 2.44
1795 4467 5.132043 TGACTTTAGGAACCCCTCAAAAA 57.868 39.130 0.00 0.00 43.14 1.94
1945 4618 3.369471 GGCTCCAGTGTGAATTAGCACTA 60.369 47.826 12.30 0.95 43.27 2.74
1946 4619 3.619038 GCTCCAGTGTGAATTAGCACTAC 59.381 47.826 12.30 3.94 43.27 2.73
1960 4633 8.942338 AATTAGCACTACGAATTCAGATACAA 57.058 30.769 6.22 0.00 28.55 2.41
2002 4675 2.340210 TGCCTAGTGAACAAAGCACA 57.660 45.000 0.00 0.00 38.70 4.57
2024 4697 7.519488 GCACAATATGATGACACTAAGACATGG 60.519 40.741 0.00 0.00 32.78 3.66
2028 4701 3.118629 TGATGACACTAAGACATGGCTCC 60.119 47.826 0.00 0.00 32.78 4.70
2034 4707 4.042187 ACACTAAGACATGGCTCCTTTTCT 59.958 41.667 0.00 0.00 0.00 2.52
2036 4709 5.123027 CACTAAGACATGGCTCCTTTTCTTC 59.877 44.000 0.00 0.00 0.00 2.87
2063 4737 6.483307 TGAAAAGTACACTGAACTGAAGATGG 59.517 38.462 0.00 0.00 0.00 3.51
2087 4762 8.828751 TGGAATGTAAAACATACCTAACCTAGT 58.171 33.333 0.00 0.00 37.97 2.57
2143 4818 4.686091 GCAAGTGCTTTTCACCCTTTATTC 59.314 41.667 0.00 0.00 46.81 1.75
2319 5001 4.941873 TCTAGCACGAAATCTACTCTGTCA 59.058 41.667 0.00 0.00 0.00 3.58
2332 5014 9.634021 AATCTACTCTGTCATGTATCTTCAGTA 57.366 33.333 0.00 0.00 0.00 2.74
2509 5191 7.436376 TCAGATGTTGAGTTATTAGAGAATGCG 59.564 37.037 0.00 0.00 0.00 4.73
2572 5254 2.230992 TGCATTTGGTGAGCCACATAAC 59.769 45.455 7.49 0.00 46.01 1.89
2573 5255 2.493278 GCATTTGGTGAGCCACATAACT 59.507 45.455 7.49 0.00 46.01 2.24
2576 5258 4.846779 TTTGGTGAGCCACATAACTTTC 57.153 40.909 7.49 0.00 46.01 2.62
2577 5259 3.500448 TGGTGAGCCACATAACTTTCA 57.500 42.857 7.49 0.00 40.46 2.69
2578 5260 3.411446 TGGTGAGCCACATAACTTTCAG 58.589 45.455 7.49 0.00 40.46 3.02
2581 5263 4.319177 GTGAGCCACATAACTTTCAGAGT 58.681 43.478 1.01 0.00 35.65 3.24
2615 5298 6.231211 TCTTTTGAGCTTCCGTAGATTTTCT 58.769 36.000 0.00 0.00 0.00 2.52
2773 5459 6.638468 GCTTTATCTGTCCAGTTTCTTGTTTG 59.362 38.462 0.00 0.00 0.00 2.93
2900 5586 4.645921 GGTTGCAACGGCTGGTGC 62.646 66.667 29.03 29.03 41.91 5.01
2928 5614 6.524586 GCTGCAGTTAAACAATGTATGAAGTC 59.475 38.462 16.64 0.00 0.00 3.01
2929 5615 6.598525 TGCAGTTAAACAATGTATGAAGTCG 58.401 36.000 0.00 0.00 0.00 4.18
2933 5619 7.117812 CAGTTAAACAATGTATGAAGTCGGAGT 59.882 37.037 0.00 0.00 0.00 3.85
2938 5624 6.740110 ACAATGTATGAAGTCGGAGTATCTC 58.260 40.000 0.00 0.00 33.73 2.75
2949 5635 7.305813 AGTCGGAGTATCTCTCTATCTGTTA 57.694 40.000 0.00 0.00 42.40 2.41
2968 5654 8.877808 TCTGTTAGACTGTTATATGCTGAATG 57.122 34.615 0.00 0.00 0.00 2.67
2969 5655 8.695456 TCTGTTAGACTGTTATATGCTGAATGA 58.305 33.333 0.00 0.00 0.00 2.57
2970 5656 9.317936 CTGTTAGACTGTTATATGCTGAATGAA 57.682 33.333 0.00 0.00 0.00 2.57
2971 5657 9.836864 TGTTAGACTGTTATATGCTGAATGAAT 57.163 29.630 0.00 0.00 0.00 2.57
2981 5667 9.910267 TTATATGCTGAATGAATGGCTATATGT 57.090 29.630 0.00 0.00 0.00 2.29
3003 5689 6.521162 TGTTAGCTGTTCAGTGTCAAGATAA 58.479 36.000 0.00 0.00 0.00 1.75
3014 5700 6.073369 CAGTGTCAAGATAACATTTGTGACG 58.927 40.000 0.00 0.00 38.54 4.35
3020 5706 7.689812 GTCAAGATAACATTTGTGACGAAGATG 59.310 37.037 0.00 0.00 0.00 2.90
3049 5760 5.385617 GCAACTAACTGCATTACTCTTGTG 58.614 41.667 0.00 0.00 42.17 3.33
3093 5804 0.618458 TATGTCACTGAAGCCCCCAC 59.382 55.000 0.00 0.00 0.00 4.61
3096 5807 0.890996 GTCACTGAAGCCCCCACTTG 60.891 60.000 0.00 0.00 0.00 3.16
3327 6039 3.513515 GTGGGCTTTTAATCATTGGACCA 59.486 43.478 0.00 0.00 0.00 4.02
3354 6066 5.421374 AGGAGGTAACGTAGTAAATCTTGCT 59.579 40.000 0.00 0.00 45.00 3.91
3548 6292 1.064621 CCCAAATCCGCGCTTCATG 59.935 57.895 5.56 0.00 0.00 3.07
3552 6296 1.913403 CAAATCCGCGCTTCATGTTTC 59.087 47.619 5.56 0.00 0.00 2.78
3564 6308 6.417327 CGCTTCATGTTTCTTCATCTGATAC 58.583 40.000 0.00 0.00 0.00 2.24
3570 6314 5.724328 TGTTTCTTCATCTGATACGAGCTT 58.276 37.500 0.00 0.00 0.00 3.74
3572 6316 4.576216 TCTTCATCTGATACGAGCTTCC 57.424 45.455 0.00 0.00 0.00 3.46
3599 6344 6.346838 GCACTTGCTGAACAAAATGGTTTATC 60.347 38.462 0.00 0.00 37.96 1.75
3620 6365 3.030291 CCTATGCAAAATAGCCACCCAA 58.970 45.455 0.00 0.00 0.00 4.12
3666 6428 5.068234 TCTGTACTTCACCTATTTGTCGG 57.932 43.478 0.00 0.00 0.00 4.79
3676 6438 2.280628 CTATTTGTCGGTTCCAGAGGC 58.719 52.381 0.00 0.00 0.00 4.70
3682 6444 2.896443 GGTTCCAGAGGCCGAGAG 59.104 66.667 0.00 0.00 0.00 3.20
3698 6460 2.611473 CGAGAGCAGTTGAACACAGGAT 60.611 50.000 0.00 0.00 0.00 3.24
3699 6461 2.740981 GAGAGCAGTTGAACACAGGATG 59.259 50.000 0.00 0.00 46.00 3.51
3741 6506 8.472007 TGAACTTGGTTAGTTTCAAATATGGT 57.528 30.769 0.00 0.00 47.00 3.55
3782 6547 0.824759 CTTTACGGAGGAGGAGGTGG 59.175 60.000 0.00 0.00 0.00 4.61
3783 6548 0.616679 TTTACGGAGGAGGAGGTGGG 60.617 60.000 0.00 0.00 0.00 4.61
3853 6618 1.974249 TACGCGTGGAGACAGCTACG 61.974 60.000 24.59 0.10 44.46 3.51
3856 6621 0.661552 GCGTGGAGACAGCTACGATA 59.338 55.000 8.57 0.00 44.16 2.92
3890 6655 0.036577 GCTCATGCTGTGGTCAGACT 60.037 55.000 0.00 0.00 43.76 3.24
3898 6663 1.549620 CTGTGGTCAGACTCTGCTCAT 59.450 52.381 0.00 0.00 43.76 2.90
3915 6680 1.202794 TCATCACCAAGAAGCACAGCA 60.203 47.619 0.00 0.00 0.00 4.41
3941 6710 5.403897 ACGCGGATAGTTCATAATTTGTG 57.596 39.130 12.47 0.00 0.00 3.33
4035 6804 3.260380 AGTCAACTGAACTGGATCTGAGG 59.740 47.826 0.00 0.00 0.00 3.86
4156 6937 0.036010 CCTGGACGCAGAAGATGGTT 60.036 55.000 0.00 0.00 0.00 3.67
4534 7315 2.586079 CACTCGGGCGCCATGTAG 60.586 66.667 30.85 20.50 0.00 2.74
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 5.534278 TCAATAAGGTGACAATGCAAGTCAA 59.466 36.000 22.17 10.79 46.50 3.18
1 2 5.069318 TCAATAAGGTGACAATGCAAGTCA 58.931 37.500 18.16 18.16 43.23 3.41
33 34 1.071699 ACCAGTACATCGGCACAAAGT 59.928 47.619 0.00 0.00 0.00 2.66
40 41 0.753262 ATCAGGACCAGTACATCGGC 59.247 55.000 0.00 0.00 0.00 5.54
51 58 2.586648 AGGTCAAACCAATCAGGACC 57.413 50.000 0.00 0.00 46.54 4.46
55 62 8.408601 CCTTAAATGATAGGTCAAACCAATCAG 58.591 37.037 0.00 0.00 41.95 2.90
71 78 9.696917 GACACAAAGATTTTCACCTTAAATGAT 57.303 29.630 0.00 0.00 0.00 2.45
98 105 5.627499 TTGCCAAATCTAGTTGTGTCATC 57.373 39.130 0.00 0.00 0.00 2.92
102 109 5.509501 CCAACATTGCCAAATCTAGTTGTGT 60.510 40.000 0.00 0.00 34.62 3.72
115 122 1.001020 ATCCGCTCCAACATTGCCA 60.001 52.632 0.00 0.00 0.00 4.92
119 126 2.346766 TATGCATCCGCTCCAACATT 57.653 45.000 0.19 0.00 39.64 2.71
124 131 3.769739 AGTAATTATGCATCCGCTCCA 57.230 42.857 0.19 0.00 39.64 3.86
127 134 8.094548 TGTATAAGAAGTAATTATGCATCCGCT 58.905 33.333 0.19 0.00 39.64 5.52
153 160 6.100404 AGTCCATATTTTTGCACACAATGT 57.900 33.333 0.00 0.00 35.21 2.71
167 174 5.179452 ACACCTGCAACTAAGTCCATATT 57.821 39.130 0.00 0.00 0.00 1.28
172 179 2.293399 CCAAACACCTGCAACTAAGTCC 59.707 50.000 0.00 0.00 0.00 3.85
178 185 2.143876 AGAACCAAACACCTGCAACT 57.856 45.000 0.00 0.00 0.00 3.16
183 190 7.687941 ACAAGATATAAGAACCAAACACCTG 57.312 36.000 0.00 0.00 0.00 4.00
212 219 3.432782 CCATCTCTTGCGCAAAGATTTC 58.567 45.455 29.11 0.00 44.02 2.17
221 228 2.098842 GATCGTGCCATCTCTTGCGC 62.099 60.000 0.00 0.00 34.73 6.09
231 238 0.750249 ACATCGTATGGATCGTGCCA 59.250 50.000 1.72 1.72 43.23 4.92
234 241 4.026558 CACTTTGACATCGTATGGATCGTG 60.027 45.833 0.00 0.00 31.28 4.35
248 255 0.107643 TGGATCGTGCCACTTTGACA 59.892 50.000 0.00 0.00 31.66 3.58
261 268 1.062587 GGTTGACGCTTTGATGGATCG 59.937 52.381 0.00 0.00 0.00 3.69
262 269 2.359900 AGGTTGACGCTTTGATGGATC 58.640 47.619 0.00 0.00 0.00 3.36
287 294 1.404843 AGATTCACGGCTCCTAGGTC 58.595 55.000 9.08 1.83 0.00 3.85
293 300 1.539280 GCCTCTTAGATTCACGGCTCC 60.539 57.143 2.67 0.00 34.80 4.70
301 2774 1.423395 CATCGCCGCCTCTTAGATTC 58.577 55.000 0.00 0.00 0.00 2.52
304 2777 2.417516 GCATCGCCGCCTCTTAGA 59.582 61.111 0.00 0.00 0.00 2.10
320 2793 2.926586 GCAATTTTTGGTCTTCTCGGGC 60.927 50.000 0.00 0.00 0.00 6.13
323 2801 3.641437 TGGCAATTTTTGGTCTTCTCG 57.359 42.857 0.00 0.00 0.00 4.04
328 2806 8.462589 AATAAACATTTGGCAATTTTTGGTCT 57.537 26.923 0.00 0.00 0.00 3.85
358 2836 5.382618 AAAAGAAAGCATTGGCAGACTAG 57.617 39.130 0.00 0.00 44.61 2.57
388 2867 8.702438 CCAAAACATTATTAAACAAGCAGAGTG 58.298 33.333 0.00 0.00 0.00 3.51
402 2881 8.558700 GTGAAACATTGAAGCCAAAACATTATT 58.441 29.630 0.00 0.00 35.67 1.40
403 2882 7.714377 TGTGAAACATTGAAGCCAAAACATTAT 59.286 29.630 0.00 0.00 45.67 1.28
449 2928 7.539436 TCAATAAGTAGACAGACACTCACATC 58.461 38.462 0.00 0.00 0.00 3.06
471 2950 8.601047 TTCATGTATGGGGTTGAAATATTCAA 57.399 30.769 1.57 1.57 46.68 2.69
472 2951 8.601047 TTTCATGTATGGGGTTGAAATATTCA 57.399 30.769 0.00 0.00 34.20 2.57
473 2952 9.480053 CATTTCATGTATGGGGTTGAAATATTC 57.520 33.333 8.83 0.00 43.38 1.75
474 2953 8.431222 CCATTTCATGTATGGGGTTGAAATATT 58.569 33.333 16.91 0.00 43.38 1.28
475 2954 7.568366 ACCATTTCATGTATGGGGTTGAAATAT 59.432 33.333 23.95 5.79 45.56 1.28
476 2955 6.900186 ACCATTTCATGTATGGGGTTGAAATA 59.100 34.615 23.95 0.00 45.56 1.40
477 2956 5.725822 ACCATTTCATGTATGGGGTTGAAAT 59.274 36.000 23.95 4.39 45.56 2.17
478 2957 5.046735 CACCATTTCATGTATGGGGTTGAAA 60.047 40.000 23.95 4.44 45.56 2.69
479 2958 4.465660 CACCATTTCATGTATGGGGTTGAA 59.534 41.667 23.95 0.00 45.56 2.69
480 2959 4.022603 CACCATTTCATGTATGGGGTTGA 58.977 43.478 23.95 0.00 45.56 3.18
481 2960 4.389890 CACCATTTCATGTATGGGGTTG 57.610 45.455 23.95 14.59 45.56 3.77
485 2964 7.093988 TGACTAAAACACCATTTCATGTATGGG 60.094 37.037 23.95 17.71 45.56 4.00
486 2965 7.754924 GTGACTAAAACACCATTTCATGTATGG 59.245 37.037 20.75 20.75 46.48 2.74
487 2966 8.673626 GTGACTAAAACACCATTTCATGTATG 57.326 34.615 0.00 0.00 32.84 2.39
561 3040 8.221965 ACAGGTAGTTTTGAGTAAAAAGAAGG 57.778 34.615 0.00 0.00 38.43 3.46
603 3130 3.652581 GGAACTGTCCTCAAAGGGG 57.347 57.895 0.00 0.00 41.24 4.79
626 3153 6.059484 ACAAAGGAGTGTCCGATTCTTAAAA 58.941 36.000 0.00 0.00 42.75 1.52
631 3158 5.422214 AATACAAAGGAGTGTCCGATTCT 57.578 39.130 0.00 0.00 42.75 2.40
633 3160 6.942976 TCTAAATACAAAGGAGTGTCCGATT 58.057 36.000 0.00 0.00 42.75 3.34
635 3162 5.713389 TCTCTAAATACAAAGGAGTGTCCGA 59.287 40.000 0.00 0.00 42.75 4.55
636 3163 5.962433 TCTCTAAATACAAAGGAGTGTCCG 58.038 41.667 0.00 0.00 42.75 4.79
642 3174 7.550906 CCTCAAACCTCTCTAAATACAAAGGAG 59.449 40.741 0.00 0.00 0.00 3.69
645 3177 7.878127 TGTCCTCAAACCTCTCTAAATACAAAG 59.122 37.037 0.00 0.00 0.00 2.77
649 3181 6.937392 ACTGTCCTCAAACCTCTCTAAATAC 58.063 40.000 0.00 0.00 0.00 1.89
657 3189 2.407340 AGGACTGTCCTCAAACCTCT 57.593 50.000 23.49 0.00 45.66 3.69
745 3284 1.192146 GGGCGGTATATCAGGCTGGA 61.192 60.000 15.73 3.35 37.04 3.86
787 3326 1.070758 TCAGCTGGTTTGGACTGACTC 59.929 52.381 15.13 0.00 34.35 3.36
802 3341 1.003118 TGTAATTCGGCCTGTTCAGCT 59.997 47.619 0.00 0.00 0.00 4.24
1175 3781 0.595053 ACGTGATAAGATGAGCGCGG 60.595 55.000 8.83 0.00 42.69 6.46
1179 3785 4.742659 GGAAGAGAACGTGATAAGATGAGC 59.257 45.833 0.00 0.00 0.00 4.26
1191 3797 0.878961 GCCAACACGGAAGAGAACGT 60.879 55.000 0.00 0.00 45.25 3.99
1238 3844 8.576442 ACCAAGAACAAATATTACAGGTTTCAG 58.424 33.333 0.00 0.00 0.00 3.02
1346 3952 2.879103 TGCCTAAAAGGTGGGAAGAG 57.121 50.000 0.00 0.00 37.80 2.85
1355 3961 2.223044 GCTCGACGAAATGCCTAAAAGG 60.223 50.000 0.00 0.00 38.80 3.11
1393 3999 4.155826 CGGAACACCACACATCACAATAAT 59.844 41.667 0.00 0.00 0.00 1.28
1442 4050 3.202818 TCACCCTGCAGATTAACATCCAT 59.797 43.478 17.39 0.00 0.00 3.41
1443 4051 2.575735 TCACCCTGCAGATTAACATCCA 59.424 45.455 17.39 0.00 0.00 3.41
1444 4052 3.209410 CTCACCCTGCAGATTAACATCC 58.791 50.000 17.39 0.00 0.00 3.51
1483 4096 0.678950 TCATGTGCCAGAACTCGTCA 59.321 50.000 0.00 0.00 0.00 4.35
1523 4136 1.335324 GCAGTGCAACCTGTCATTGAC 60.335 52.381 11.09 9.93 37.80 3.18
1661 4323 8.594550 ACTAAACTAACCAAATAGAGCTTCTGA 58.405 33.333 0.00 0.00 0.00 3.27
1672 4341 7.017850 TGGGGAGAAGTACTAAACTAACCAAAT 59.982 37.037 0.00 0.00 37.50 2.32
1742 4414 4.039032 GTGTGGTTGTTGTTGTAAATCGG 58.961 43.478 0.00 0.00 0.00 4.18
1751 4423 5.592282 TCATTAGATGTGTGTGGTTGTTGTT 59.408 36.000 0.00 0.00 0.00 2.83
1755 4427 4.973168 AGTCATTAGATGTGTGTGGTTGT 58.027 39.130 0.00 0.00 0.00 3.32
1767 4439 5.970640 TGAGGGGTTCCTAAAGTCATTAGAT 59.029 40.000 0.00 0.00 45.05 1.98
1768 4440 5.347124 TGAGGGGTTCCTAAAGTCATTAGA 58.653 41.667 0.00 0.00 45.05 2.10
1769 4441 5.693769 TGAGGGGTTCCTAAAGTCATTAG 57.306 43.478 0.00 0.00 45.05 1.73
1770 4442 6.457159 TTTGAGGGGTTCCTAAAGTCATTA 57.543 37.500 0.00 0.00 45.05 1.90
1771 4443 5.333566 TTTGAGGGGTTCCTAAAGTCATT 57.666 39.130 0.00 0.00 45.05 2.57
1772 4444 5.333566 TTTTGAGGGGTTCCTAAAGTCAT 57.666 39.130 0.00 0.00 45.05 3.06
1773 4445 4.799715 TTTTGAGGGGTTCCTAAAGTCA 57.200 40.909 0.00 0.00 45.05 3.41
1820 4492 1.472480 TGGCGGCTAAAGCATTTCTTC 59.528 47.619 11.43 0.00 44.36 2.87
1956 4629 6.905736 TGCCCCTTTTGTATATCTCATTGTA 58.094 36.000 0.00 0.00 0.00 2.41
1960 4633 6.239402 GCATTTGCCCCTTTTGTATATCTCAT 60.239 38.462 0.00 0.00 34.31 2.90
1986 4659 7.907045 GTCATCATATTGTGCTTTGTTCACTAG 59.093 37.037 0.00 0.00 35.58 2.57
2002 4675 6.835174 AGCCATGTCTTAGTGTCATCATATT 58.165 36.000 0.00 0.00 0.00 1.28
2034 4707 7.822334 TCTTCAGTTCAGTGTACTTTTCAAGAA 59.178 33.333 0.00 0.00 0.00 2.52
2036 4709 7.539712 TCTTCAGTTCAGTGTACTTTTCAAG 57.460 36.000 0.00 1.59 0.00 3.02
2135 4810 7.869429 ACTTTTGTGCAAATCTGAGAATAAAGG 59.131 33.333 0.00 0.00 0.00 3.11
2576 5258 8.471361 AGCTCAAAAGAAAAAGAAAAACTCTG 57.529 30.769 0.00 0.00 33.37 3.35
2577 5259 9.144747 GAAGCTCAAAAGAAAAAGAAAAACTCT 57.855 29.630 0.00 0.00 35.13 3.24
2578 5260 8.383619 GGAAGCTCAAAAGAAAAAGAAAAACTC 58.616 33.333 0.00 0.00 0.00 3.01
2581 5263 6.871492 ACGGAAGCTCAAAAGAAAAAGAAAAA 59.129 30.769 0.00 0.00 0.00 1.94
2599 5282 3.863041 ACTCCAGAAAATCTACGGAAGC 58.137 45.455 0.00 0.00 0.00 3.86
2900 5586 7.307493 TCATACATTGTTTAACTGCAGCTAG 57.693 36.000 15.27 0.00 0.00 3.42
2928 5614 7.330946 CAGTCTAACAGATAGAGAGATACTCCG 59.669 44.444 0.00 0.00 45.96 4.63
2929 5615 8.154856 ACAGTCTAACAGATAGAGAGATACTCC 58.845 40.741 0.00 0.00 45.96 3.85
2938 5624 9.838975 CAGCATATAACAGTCTAACAGATAGAG 57.161 37.037 0.00 0.00 41.31 2.43
2949 5635 6.206243 GCCATTCATTCAGCATATAACAGTCT 59.794 38.462 0.00 0.00 0.00 3.24
2968 5654 6.708054 ACTGAACAGCTAACATATAGCCATTC 59.292 38.462 3.96 8.50 41.25 2.67
2969 5655 6.484643 CACTGAACAGCTAACATATAGCCATT 59.515 38.462 3.96 0.00 41.25 3.16
2970 5656 5.994054 CACTGAACAGCTAACATATAGCCAT 59.006 40.000 3.96 0.00 41.25 4.40
2971 5657 5.104941 ACACTGAACAGCTAACATATAGCCA 60.105 40.000 3.96 0.00 41.25 4.75
2981 5667 6.521162 TGTTATCTTGACACTGAACAGCTAA 58.479 36.000 1.46 0.00 0.00 3.09
3003 5689 4.212004 CACTGACATCTTCGTCACAAATGT 59.788 41.667 0.00 0.00 40.94 2.71
3014 5700 4.377841 GCAGTTAGTTGCACTGACATCTTC 60.378 45.833 5.51 0.00 43.90 2.87
3041 5752 1.142870 TGGCCTAAACAGCACAAGAGT 59.857 47.619 3.32 0.00 0.00 3.24
3049 5760 1.731720 CACTCTCTGGCCTAAACAGC 58.268 55.000 3.32 0.00 35.94 4.40
3093 5804 4.685165 CAGCGGAAGATCATGTATCTCAAG 59.315 45.833 7.75 4.74 44.56 3.02
3096 5807 3.583806 CCAGCGGAAGATCATGTATCTC 58.416 50.000 7.75 3.64 44.56 2.75
3327 6039 7.545489 CAAGATTTACTACGTTACCTCCTTCT 58.455 38.462 0.00 0.00 0.00 2.85
3472 6184 3.993081 GCTAGTATGCTAATGCTGACCAG 59.007 47.826 0.00 0.00 40.48 4.00
3537 6249 0.516877 TGAAGAAACATGAAGCGCGG 59.483 50.000 8.83 0.00 0.00 6.46
3548 6292 5.233263 GGAAGCTCGTATCAGATGAAGAAAC 59.767 44.000 0.00 0.00 0.00 2.78
3552 6296 4.297510 CAGGAAGCTCGTATCAGATGAAG 58.702 47.826 0.00 0.00 0.00 3.02
3564 6308 1.670406 AGCAAGTGCAGGAAGCTCG 60.670 57.895 6.00 0.00 45.94 5.03
3570 6314 1.761449 TTTGTTCAGCAAGTGCAGGA 58.239 45.000 6.00 0.00 45.16 3.86
3572 6316 2.798283 CCATTTTGTTCAGCAAGTGCAG 59.202 45.455 6.00 0.00 45.16 4.41
3599 6344 2.665165 TGGGTGGCTATTTTGCATAGG 58.335 47.619 0.00 0.00 34.04 2.57
3645 6406 4.817517 ACCGACAAATAGGTGAAGTACAG 58.182 43.478 0.00 0.00 39.66 2.74
3650 6411 3.670625 TGGAACCGACAAATAGGTGAAG 58.329 45.455 0.00 0.00 41.21 3.02
3666 6428 2.185608 GCTCTCGGCCTCTGGAAC 59.814 66.667 0.00 0.00 34.27 3.62
3676 6438 1.143305 CTGTGTTCAACTGCTCTCGG 58.857 55.000 0.00 0.00 0.00 4.63
3682 6444 2.693797 CACATCCTGTGTTCAACTGC 57.306 50.000 0.00 0.00 43.08 4.40
3698 6460 6.389830 AGTTCAATTGAATGCAACTACACA 57.610 33.333 23.05 0.00 36.72 3.72
3699 6461 6.144402 CCAAGTTCAATTGAATGCAACTACAC 59.856 38.462 23.05 7.70 36.72 2.90
3704 6466 5.989551 AACCAAGTTCAATTGAATGCAAC 57.010 34.783 23.05 11.22 36.72 4.17
3782 6547 2.600470 AGCCGCCTTCAAAACCCC 60.600 61.111 0.00 0.00 0.00 4.95
3783 6548 2.650778 CAGCCGCCTTCAAAACCC 59.349 61.111 0.00 0.00 0.00 4.11
3808 6573 1.131303 ATGGACCAAGACCAACGGGA 61.131 55.000 0.00 0.00 40.93 5.14
3811 6576 0.888736 TGCATGGACCAAGACCAACG 60.889 55.000 0.00 0.00 40.93 4.10
3820 6585 2.584064 CGTAGCCTGCATGGACCA 59.416 61.111 0.00 0.00 38.35 4.02
3853 6618 3.056304 GAGCGCAGAAAGGAGTGATATC 58.944 50.000 11.47 0.00 0.00 1.63
3856 6621 0.610174 TGAGCGCAGAAAGGAGTGAT 59.390 50.000 11.47 0.00 0.00 3.06
3890 6655 1.348696 TGCTTCTTGGTGATGAGCAGA 59.651 47.619 0.00 0.00 34.63 4.26
3898 6663 1.168407 GCTGCTGTGCTTCTTGGTGA 61.168 55.000 0.00 0.00 0.00 4.02
3915 6680 2.882927 TATGAACTATCCGCGTTGCT 57.117 45.000 4.92 0.00 0.00 3.91
4089 6867 6.437928 TCTTTGCTTTACTTTAGTCGTCGTA 58.562 36.000 0.00 0.00 0.00 3.43
4090 6868 5.284079 TCTTTGCTTTACTTTAGTCGTCGT 58.716 37.500 0.00 0.00 0.00 4.34
4091 6869 5.628193 TCTCTTTGCTTTACTTTAGTCGTCG 59.372 40.000 0.00 0.00 0.00 5.12
4092 6870 6.862090 TCTCTCTTTGCTTTACTTTAGTCGTC 59.138 38.462 0.00 0.00 0.00 4.20
4093 6871 6.746120 TCTCTCTTTGCTTTACTTTAGTCGT 58.254 36.000 0.00 0.00 0.00 4.34
4183 6964 1.220206 CAAGATGCTCGAGGGCACT 59.780 57.895 15.58 0.00 45.36 4.40
4777 7558 2.493973 GAGAGCTCGCAGGGTGAG 59.506 66.667 13.06 2.54 42.38 3.51
4846 7630 2.416162 GCTGGACAAGTACCTCTTCTCG 60.416 54.545 0.00 0.00 33.63 4.04


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

AutoCloner maintained by Alex Coulton.