Multiple sequence alignment - TraesCS6A01G155300

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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 TraesCS6A01G155300 chr6A 100.000 6224 0 0 1 6224 143970667 143964444 0.000000e+00 11494.0
1 TraesCS6A01G155300 chr6A 94.595 74 4 0 3648 3721 143966946 143966873 1.420000e-21 115.0
2 TraesCS6A01G155300 chr6A 94.595 74 4 0 3722 3795 143967020 143966947 1.420000e-21 115.0
3 TraesCS6A01G155300 chr6D 96.072 2902 81 17 839 3721 115550130 115547243 0.000000e+00 4697.0
4 TraesCS6A01G155300 chr6D 95.345 1869 55 12 3722 5562 115547315 115545451 0.000000e+00 2940.0
5 TraesCS6A01G155300 chr6D 97.598 666 16 0 5559 6224 115545417 115544752 0.000000e+00 1142.0
6 TraesCS6A01G155300 chr6D 85.571 700 61 26 152 837 365733710 365734383 0.000000e+00 697.0
7 TraesCS6A01G155300 chr6D 96.327 245 9 0 4468 4712 162229148 162228904 2.700000e-108 403.0
8 TraesCS6A01G155300 chr6D 81.951 410 40 22 31 430 365733382 365733767 3.620000e-82 316.0
9 TraesCS6A01G155300 chr6B 92.090 2187 96 34 839 2972 204927939 204925777 0.000000e+00 3009.0
10 TraesCS6A01G155300 chr6B 94.440 1331 43 11 4243 5562 204924583 204923273 0.000000e+00 2019.0
11 TraesCS6A01G155300 chr6B 96.396 666 24 0 5559 6224 204923239 204922574 0.000000e+00 1098.0
12 TraesCS6A01G155300 chr6B 90.726 744 45 13 2995 3721 204925698 204924962 0.000000e+00 970.0
13 TraesCS6A01G155300 chr6B 92.308 455 22 4 3722 4164 204925036 204924583 8.800000e-178 634.0
14 TraesCS6A01G155300 chr6B 100.000 60 0 0 2958 3017 204925752 204925693 1.830000e-20 111.0
15 TraesCS6A01G155300 chr6B 78.322 143 19 7 181 323 125811522 125811652 1.440000e-11 82.4
16 TraesCS6A01G155300 chr5A 84.541 828 84 27 29 838 600355051 600355852 0.000000e+00 780.0
17 TraesCS6A01G155300 chr5A 84.800 125 17 2 276 398 680470539 680470663 2.360000e-24 124.0
18 TraesCS6A01G155300 chr5A 95.349 43 2 0 3597 3639 646358248 646358206 1.120000e-07 69.4
19 TraesCS6A01G155300 chr1D 85.043 702 64 24 152 838 224397438 224396763 0.000000e+00 676.0
20 TraesCS6A01G155300 chr5D 86.115 641 52 21 211 838 46088885 46088269 0.000000e+00 656.0
21 TraesCS6A01G155300 chr4A 84.517 704 65 25 152 838 56265418 56266094 0.000000e+00 656.0
22 TraesCS6A01G155300 chr2A 84.255 705 67 27 152 840 277608411 277609087 0.000000e+00 647.0
23 TraesCS6A01G155300 chr2A 88.655 476 35 11 376 838 32943451 32942982 4.210000e-156 562.0
24 TraesCS6A01G155300 chr2A 80.779 411 47 19 29 430 32943960 32943573 6.100000e-75 292.0
25 TraesCS6A01G155300 chr2A 79.518 415 46 19 29 425 277608070 277608463 6.190000e-65 259.0
26 TraesCS6A01G155300 chr2A 83.465 127 19 2 174 299 746858387 746858512 3.940000e-22 117.0
27 TraesCS6A01G155300 chr1A 84.948 671 61 26 152 807 219383969 219383324 1.460000e-180 643.0
28 TraesCS6A01G155300 chr1A 80.292 411 49 19 29 430 219384299 219383912 1.320000e-71 281.0
29 TraesCS6A01G155300 chr1A 79.851 268 35 12 149 400 516170820 516170556 1.780000e-40 178.0
30 TraesCS6A01G155300 chr3A 83.488 648 63 28 152 782 614233094 614232474 1.170000e-156 564.0
31 TraesCS6A01G155300 chr3A 78.694 291 47 13 148 430 614233172 614232889 4.960000e-41 180.0
32 TraesCS6A01G155300 chr2D 82.266 406 40 19 34 430 503572837 503572455 7.780000e-84 322.0
33 TraesCS6A01G155300 chr7D 73.920 671 98 44 224 840 617978249 617978896 1.370000e-46 198.0
34 TraesCS6A01G155300 chr5B 79.798 198 33 5 127 323 192178854 192179045 3.030000e-28 137.0


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 TraesCS6A01G155300 chr6A 143964444 143970667 6223 True 3908.000000 11494 96.396667 1 6224 3 chr6A.!!$R1 6223
1 TraesCS6A01G155300 chr6D 115544752 115550130 5378 True 2926.333333 4697 96.338333 839 6224 3 chr6D.!!$R2 5385
2 TraesCS6A01G155300 chr6D 365733382 365734383 1001 False 506.500000 697 83.761000 31 837 2 chr6D.!!$F1 806
3 TraesCS6A01G155300 chr6B 204922574 204927939 5365 True 1306.833333 3009 94.326667 839 6224 6 chr6B.!!$R1 5385
4 TraesCS6A01G155300 chr5A 600355051 600355852 801 False 780.000000 780 84.541000 29 838 1 chr5A.!!$F1 809
5 TraesCS6A01G155300 chr1D 224396763 224397438 675 True 676.000000 676 85.043000 152 838 1 chr1D.!!$R1 686
6 TraesCS6A01G155300 chr5D 46088269 46088885 616 True 656.000000 656 86.115000 211 838 1 chr5D.!!$R1 627
7 TraesCS6A01G155300 chr4A 56265418 56266094 676 False 656.000000 656 84.517000 152 838 1 chr4A.!!$F1 686
8 TraesCS6A01G155300 chr2A 277608070 277609087 1017 False 453.000000 647 81.886500 29 840 2 chr2A.!!$F2 811
9 TraesCS6A01G155300 chr2A 32942982 32943960 978 True 427.000000 562 84.717000 29 838 2 chr2A.!!$R1 809
10 TraesCS6A01G155300 chr1A 219383324 219384299 975 True 462.000000 643 82.620000 29 807 2 chr1A.!!$R2 778
11 TraesCS6A01G155300 chr3A 614232474 614233172 698 True 372.000000 564 81.091000 148 782 2 chr3A.!!$R1 634

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
314 535 0.036010 CAACTCCGGTCAAGCTCCAT 60.036 55.000 0.00 0.0 0.00 3.41 F
751 1061 0.466124 GCGGAGAGGATAAGGTTGCT 59.534 55.000 0.00 0.0 0.00 3.91 F
1490 1810 0.176680 TTCTGCGATTGCCCTCTCTC 59.823 55.000 1.50 0.0 41.78 3.20 F
2282 2660 0.104855 TGCTCTCCACACCATATCGC 59.895 55.000 0.00 0.0 0.00 4.58 F
3212 3662 1.073199 GTGGTTCCACTCCACCCAG 59.927 63.158 13.97 0.0 46.63 4.45 F
4674 5156 0.037697 ACGCATCTGTAACCGCTTCA 60.038 50.000 0.00 0.0 0.00 3.02 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1283 1602 0.391263 GCTTCCGGTGGTACTCCTTG 60.391 60.000 0.00 0.0 40.32 3.61 R
2122 2500 0.654683 GAGCATTGTGATCGGACAGC 59.345 55.000 0.00 0.0 0.00 4.40 R
3212 3662 1.040339 AGCATCCTCCTCGGTCTGAC 61.040 60.000 0.00 0.0 0.00 3.51 R
3224 3674 1.076024 TGAAGGCCAAGAAAGCATCCT 59.924 47.619 5.01 0.0 0.00 3.24 R
4866 5348 1.215647 GACGAACTGAGGCGATGGT 59.784 57.895 4.09 0.0 0.00 3.55 R
5756 6288 0.249120 TCGGTTGCCTGGACACTATG 59.751 55.000 0.00 0.0 0.00 2.23 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
18 19 1.377987 TATCCACAAACGGGGCTGC 60.378 57.895 0.00 0.00 0.00 5.25
19 20 1.847798 TATCCACAAACGGGGCTGCT 61.848 55.000 0.00 0.00 0.00 4.24
20 21 1.847798 ATCCACAAACGGGGCTGCTA 61.848 55.000 0.00 0.00 0.00 3.49
21 22 2.332654 CCACAAACGGGGCTGCTAC 61.333 63.158 0.00 0.00 0.00 3.58
22 23 1.599518 CACAAACGGGGCTGCTACA 60.600 57.895 0.00 0.00 0.00 2.74
23 24 1.149627 ACAAACGGGGCTGCTACAA 59.850 52.632 0.00 0.00 0.00 2.41
24 25 0.466555 ACAAACGGGGCTGCTACAAA 60.467 50.000 0.00 0.00 0.00 2.83
25 26 0.887933 CAAACGGGGCTGCTACAAAT 59.112 50.000 0.00 0.00 0.00 2.32
26 27 1.135402 CAAACGGGGCTGCTACAAATC 60.135 52.381 0.00 0.00 0.00 2.17
27 28 0.037590 AACGGGGCTGCTACAAATCA 59.962 50.000 0.00 0.00 0.00 2.57
32 33 3.189287 CGGGGCTGCTACAAATCATATTC 59.811 47.826 0.00 0.00 0.00 1.75
83 84 1.903783 AATTACAACGACGCCACGGC 61.904 55.000 0.00 0.00 37.61 5.68
103 104 2.168621 CAACGAGTCAACGCAGCG 59.831 61.111 14.82 14.82 36.70 5.18
104 105 2.279252 AACGAGTCAACGCAGCGT 60.279 55.556 16.61 16.61 43.97 5.07
107 108 2.710971 CGAGTCAACGCAGCGTCAG 61.711 63.158 23.22 17.12 39.99 3.51
120 129 2.427320 GTCAGTGCAGTCCCAGCA 59.573 61.111 0.00 0.00 40.19 4.41
121 130 1.670406 GTCAGTGCAGTCCCAGCAG 60.670 63.158 0.00 0.00 43.63 4.24
136 154 1.669115 GCAGAGCTCTCCAACGCAA 60.669 57.895 14.96 0.00 0.00 4.85
170 390 3.126879 CGGCGAGCTCCATTGCAA 61.127 61.111 8.47 0.00 34.99 4.08
171 391 2.475466 CGGCGAGCTCCATTGCAAT 61.475 57.895 5.99 5.99 34.99 3.56
174 394 2.028130 CGAGCTCCATTGCAATCCC 58.972 57.895 9.53 0.00 34.99 3.85
175 395 0.749091 CGAGCTCCATTGCAATCCCA 60.749 55.000 9.53 0.00 34.99 4.37
179 399 2.105528 CCATTGCAATCCCAGCGC 59.894 61.111 9.53 0.00 33.85 5.92
180 400 2.712944 CCATTGCAATCCCAGCGCA 61.713 57.895 9.53 0.00 33.85 6.09
197 417 3.709633 AGCTCCGATGCAGCACCA 61.710 61.111 1.53 0.00 39.56 4.17
214 435 2.594592 AACGCTCCGGCAAAGCTT 60.595 55.556 11.45 0.00 37.62 3.74
236 457 3.741476 GCAACTCCGGCCAAGCTG 61.741 66.667 2.24 2.06 34.23 4.24
268 489 3.570638 CGGAGCTCCAATGCAGCG 61.571 66.667 31.67 11.74 42.14 5.18
270 491 3.129502 GAGCTCCAATGCAGCGCA 61.130 61.111 11.47 5.73 44.86 6.09
301 522 0.449388 CGAAGCTCCATTGCAACTCC 59.551 55.000 0.00 0.00 34.99 3.85
303 524 0.962356 AAGCTCCATTGCAACTCCGG 60.962 55.000 0.00 0.00 34.99 5.14
304 525 1.675641 GCTCCATTGCAACTCCGGT 60.676 57.895 0.00 0.00 0.00 5.28
305 526 1.648467 GCTCCATTGCAACTCCGGTC 61.648 60.000 0.00 0.00 0.00 4.79
314 535 0.036010 CAACTCCGGTCAAGCTCCAT 60.036 55.000 0.00 0.00 0.00 3.41
315 536 0.693049 AACTCCGGTCAAGCTCCATT 59.307 50.000 0.00 0.00 0.00 3.16
321 542 1.509923 GTCAAGCTCCATTGCAGCC 59.490 57.895 0.00 0.00 37.63 4.85
329 550 2.589540 CATTGCAGCCCTACCGGA 59.410 61.111 9.46 0.00 0.00 5.14
330 551 1.524621 CATTGCAGCCCTACCGGAG 60.525 63.158 9.46 0.28 0.00 4.63
331 552 3.406595 ATTGCAGCCCTACCGGAGC 62.407 63.158 9.46 5.31 35.40 4.70
333 554 4.228567 GCAGCCCTACCGGAGCTC 62.229 72.222 9.46 4.71 35.48 4.09
334 555 3.541713 CAGCCCTACCGGAGCTCC 61.542 72.222 23.79 23.79 35.48 4.70
335 556 4.075793 AGCCCTACCGGAGCTCCA 62.076 66.667 31.67 12.35 33.30 3.86
336 557 2.844839 GCCCTACCGGAGCTCCAT 60.845 66.667 31.67 21.17 35.14 3.41
337 558 2.873525 GCCCTACCGGAGCTCCATC 61.874 68.421 31.67 5.96 35.14 3.51
338 559 2.565645 CCCTACCGGAGCTCCATCG 61.566 68.421 31.67 19.96 35.14 3.84
339 560 1.528542 CCTACCGGAGCTCCATCGA 60.529 63.158 31.67 12.91 35.14 3.59
340 561 1.519751 CCTACCGGAGCTCCATCGAG 61.520 65.000 31.67 20.73 39.33 4.04
341 562 0.820074 CTACCGGAGCTCCATCGAGT 60.820 60.000 31.67 20.72 38.49 4.18
342 563 1.101635 TACCGGAGCTCCATCGAGTG 61.102 60.000 31.67 13.64 38.49 3.51
343 564 2.418910 CCGGAGCTCCATCGAGTGT 61.419 63.158 31.67 0.00 38.49 3.55
344 565 1.064946 CGGAGCTCCATCGAGTGTC 59.935 63.158 31.67 1.29 38.49 3.67
345 566 1.064946 GGAGCTCCATCGAGTGTCG 59.935 63.158 28.43 0.00 38.49 4.35
376 619 0.813821 GAAGCTCCATTGCAACTCCC 59.186 55.000 0.00 0.00 34.99 4.30
415 711 2.047274 GCGTAGTCCAAGGCAGCA 60.047 61.111 0.00 0.00 0.00 4.41
440 736 2.202932 CTTCGGCTCCATGGGTCG 60.203 66.667 17.83 17.83 0.00 4.79
497 793 4.228567 TTGCGGCGTCACTGGTCA 62.229 61.111 9.37 0.00 0.00 4.02
513 809 2.180769 CAACGGCGAGATCGTGGA 59.819 61.111 16.62 0.00 40.96 4.02
521 817 1.803943 GAGATCGTGGAGTCGCAGT 59.196 57.895 0.00 0.00 0.00 4.40
619 926 1.153524 TTGGGTTGGCTCATGCAGT 59.846 52.632 0.00 0.00 41.91 4.40
625 932 2.034687 GGCTCATGCAGTGGTGGT 59.965 61.111 0.00 0.00 41.91 4.16
672 979 2.114670 GCGGCTTGCTTATCCTGCA 61.115 57.895 0.00 0.00 41.73 4.41
675 982 0.590195 GGCTTGCTTATCCTGCATCG 59.410 55.000 0.00 0.00 40.34 3.84
720 1030 0.485099 AGCGGTAGGAGATGAGGGAT 59.515 55.000 0.00 0.00 0.00 3.85
721 1031 1.711375 AGCGGTAGGAGATGAGGGATA 59.289 52.381 0.00 0.00 0.00 2.59
725 1035 3.764218 GGTAGGAGATGAGGGATACGAA 58.236 50.000 0.00 0.00 37.60 3.85
751 1061 0.466124 GCGGAGAGGATAAGGTTGCT 59.534 55.000 0.00 0.00 0.00 3.91
812 1122 2.708514 GACTTACGCGTCGCTGTTATA 58.291 47.619 18.63 0.00 0.00 0.98
815 1125 2.830772 TACGCGTCGCTGTTATAAGT 57.169 45.000 18.63 5.53 0.00 2.24
899 1209 2.628178 GTGGGAAAGAACAAGAAAGGGG 59.372 50.000 0.00 0.00 0.00 4.79
974 1284 1.488393 CAAGTCTCTCTTCCCCCATCC 59.512 57.143 0.00 0.00 33.63 3.51
1409 1728 0.319555 TGTTTCTTGACGCTCCGAGG 60.320 55.000 0.00 0.00 0.00 4.63
1426 1746 0.393820 AGGTTGTTCGCCGGAGTTTA 59.606 50.000 5.05 0.00 0.00 2.01
1441 1761 2.164422 GAGTTTATTCTTGCACCCTGGC 59.836 50.000 0.00 0.00 0.00 4.85
1490 1810 0.176680 TTCTGCGATTGCCCTCTCTC 59.823 55.000 1.50 0.00 41.78 3.20
1501 1821 1.342975 GCCCTCTCTCTTTCTCCCTCT 60.343 57.143 0.00 0.00 0.00 3.69
1699 2056 3.123804 CGTCAGTTGATTAATCCGGGAG 58.876 50.000 12.90 0.15 0.00 4.30
1707 2064 0.988832 TTAATCCGGGAGCCTTGTGT 59.011 50.000 0.00 0.00 0.00 3.72
1915 2287 1.102809 TGTGCACTGTTGGGCTGAAG 61.103 55.000 19.41 0.00 0.00 3.02
1966 2339 5.279506 TCAGTTACTGTGTGGAGATTTCTCC 60.280 44.000 18.00 18.00 45.70 3.71
2057 2435 0.671472 GTTTTGCTGATTGCCTGGCC 60.671 55.000 17.53 0.00 42.00 5.36
2086 2464 1.675641 AAGGTTCCATGCGCTGTCC 60.676 57.895 9.73 6.86 0.00 4.02
2177 2555 1.555075 AGCCAGACGCATTCTCCTTTA 59.445 47.619 0.00 0.00 41.38 1.85
2204 2582 2.511600 GGCTCCCGTCGTCATTGG 60.512 66.667 0.00 0.00 0.00 3.16
2277 2655 1.067295 TTCCTTGCTCTCCACACCAT 58.933 50.000 0.00 0.00 0.00 3.55
2282 2660 0.104855 TGCTCTCCACACCATATCGC 59.895 55.000 0.00 0.00 0.00 4.58
2337 2716 3.621268 TGGTTGTGAGTTGAACTTCTTCG 59.379 43.478 0.00 0.00 0.00 3.79
2444 2823 6.641169 TGAGATGATAGCTAGTCGTTTGAT 57.359 37.500 0.00 0.00 0.00 2.57
2549 2932 7.391833 AGTTTTGTCTGGAATAAAGATCCACTC 59.608 37.037 0.00 0.00 41.98 3.51
2779 3162 3.842428 CGCAGTTCACATCGATGAAAAAG 59.158 43.478 31.33 18.39 40.22 2.27
2780 3163 3.605486 GCAGTTCACATCGATGAAAAAGC 59.395 43.478 31.33 22.70 40.22 3.51
2781 3164 4.614535 GCAGTTCACATCGATGAAAAAGCT 60.615 41.667 31.33 16.67 40.22 3.74
2782 3165 4.849926 CAGTTCACATCGATGAAAAAGCTG 59.150 41.667 31.33 22.56 40.22 4.24
2783 3166 3.476295 TCACATCGATGAAAAAGCTGC 57.524 42.857 31.33 0.00 0.00 5.25
2784 3167 2.159667 TCACATCGATGAAAAAGCTGCG 60.160 45.455 31.33 0.69 0.00 5.18
2952 3340 4.523943 CCCACAGGATTGAAAGATGTTTGA 59.476 41.667 0.00 0.00 33.47 2.69
3060 3504 4.970662 GGAAAAATTCCTACGGGTTACC 57.029 45.455 1.86 0.00 46.57 2.85
3069 3513 3.117016 TCCTACGGGTTACCATCCTACAT 60.117 47.826 2.98 0.00 36.13 2.29
3094 3538 6.418057 TTGAACAACCAGCATAGGAAAAAT 57.582 33.333 0.00 0.00 0.00 1.82
3102 3546 6.691508 ACCAGCATAGGAAAAATTCTTGAAC 58.308 36.000 0.00 0.00 0.00 3.18
3158 3602 2.093973 TGAATCGGAGAGAGCAAACTCC 60.094 50.000 11.38 11.38 44.65 3.85
3180 3624 3.463944 GGTTCTCTGTTCGGAAAAGTCA 58.536 45.455 7.76 0.00 0.00 3.41
3212 3662 1.073199 GTGGTTCCACTCCACCCAG 59.927 63.158 13.97 0.00 46.63 4.45
3224 3674 1.606601 CACCCAGTCAGACCGAGGA 60.607 63.158 7.89 0.00 0.00 3.71
3249 3699 2.165998 GCTTTCTTGGCCTTCACTCAT 58.834 47.619 3.32 0.00 0.00 2.90
3318 3768 1.975660 AGGCGCTGTTTAGGTTTTCA 58.024 45.000 7.64 0.00 0.00 2.69
3335 3785 1.904287 TCACCCGGTTTTCCTTGATG 58.096 50.000 0.00 0.00 37.95 3.07
3340 3790 1.533625 CGGTTTTCCTTGATGAGCCA 58.466 50.000 0.00 0.00 37.95 4.75
3407 3858 0.813821 GGTGCATTCCTCTTTCTGGC 59.186 55.000 0.00 0.00 0.00 4.85
3673 4136 3.656559 CTTTGGTTCCAAAGCCTTGATG 58.343 45.455 24.92 6.50 43.87 3.07
3674 4137 1.631405 TGGTTCCAAAGCCTTGATGG 58.369 50.000 0.00 0.00 34.14 3.51
3691 4154 8.862550 CCTTGATGGCTTTACATTTAAGAATC 57.137 34.615 0.00 0.00 32.08 2.52
3692 4155 8.469200 CCTTGATGGCTTTACATTTAAGAATCA 58.531 33.333 0.00 0.00 32.08 2.57
3693 4156 9.512435 CTTGATGGCTTTACATTTAAGAATCAG 57.488 33.333 0.00 0.00 33.08 2.90
3694 4157 8.806429 TGATGGCTTTACATTTAAGAATCAGA 57.194 30.769 0.00 0.00 30.43 3.27
3695 4158 9.241919 TGATGGCTTTACATTTAAGAATCAGAA 57.758 29.630 0.00 0.00 30.43 3.02
3726 4189 8.430801 ACTCATTGTAGATTAACTGATTGCTC 57.569 34.615 0.00 0.00 0.00 4.26
3727 4190 8.263640 ACTCATTGTAGATTAACTGATTGCTCT 58.736 33.333 0.00 0.00 0.00 4.09
3728 4191 9.107177 CTCATTGTAGATTAACTGATTGCTCTT 57.893 33.333 0.00 0.00 0.00 2.85
3729 4192 9.453572 TCATTGTAGATTAACTGATTGCTCTTT 57.546 29.630 0.00 0.00 0.00 2.52
3730 4193 9.499585 CATTGTAGATTAACTGATTGCTCTTTG 57.500 33.333 0.00 0.00 0.00 2.77
3731 4194 7.615582 TGTAGATTAACTGATTGCTCTTTGG 57.384 36.000 0.00 0.00 0.00 3.28
3732 4195 7.168219 TGTAGATTAACTGATTGCTCTTTGGT 58.832 34.615 0.00 0.00 0.00 3.67
3733 4196 7.665559 TGTAGATTAACTGATTGCTCTTTGGTT 59.334 33.333 0.00 0.00 0.00 3.67
3734 4197 7.150783 AGATTAACTGATTGCTCTTTGGTTC 57.849 36.000 0.00 0.00 0.00 3.62
3735 4198 5.705609 TTAACTGATTGCTCTTTGGTTCC 57.294 39.130 0.00 0.00 0.00 3.62
3736 4199 3.228188 ACTGATTGCTCTTTGGTTCCA 57.772 42.857 0.00 0.00 0.00 3.53
3737 4200 3.565307 ACTGATTGCTCTTTGGTTCCAA 58.435 40.909 0.00 0.00 0.00 3.53
3738 4201 3.960102 ACTGATTGCTCTTTGGTTCCAAA 59.040 39.130 14.99 14.99 35.09 3.28
3976 4445 9.502091 TGCTTGGATATATGTAGTTAAATGTCC 57.498 33.333 0.00 0.00 32.08 4.02
3977 4446 9.726438 GCTTGGATATATGTAGTTAAATGTCCT 57.274 33.333 0.00 0.00 32.52 3.85
4082 4557 5.131977 TGGGCTTCAGGTATAGCTGAAATAA 59.868 40.000 34.70 22.86 38.84 1.40
4181 4656 6.049149 GGTTAGACAGCTCTGTATTGCATAA 58.951 40.000 2.07 0.00 45.05 1.90
4286 4764 9.184523 ACTTTTGGTAATATGCATAAGTAAGCA 57.815 29.630 11.13 9.20 45.92 3.91
4296 4774 6.485830 TGCATAAGTAAGCATAGGAACTCT 57.514 37.500 0.00 0.00 36.24 3.24
4334 4812 6.316390 GGTATGTCCATTCACTAAAGTCCTTG 59.684 42.308 0.00 0.00 35.97 3.61
4556 5037 3.882888 ACATGATGTTCGTTCACCTTTGT 59.117 39.130 0.00 0.00 0.00 2.83
4674 5156 0.037697 ACGCATCTGTAACCGCTTCA 60.038 50.000 0.00 0.00 0.00 3.02
4932 5414 5.904362 GTGGCTATGAATCCACTTTCTTT 57.096 39.130 4.31 0.00 46.90 2.52
5030 5520 5.020132 AGAACTGCTCCTGTCAACTACTAT 58.980 41.667 0.00 0.00 0.00 2.12
5053 5543 6.419484 TCAGAGTGGAAAATCTCACTGTTA 57.581 37.500 0.42 0.00 43.41 2.41
5215 5705 0.037975 CCCTGACAAGCCATTTGCAC 60.038 55.000 0.00 0.00 44.83 4.57
5343 5833 0.599728 TTTGTTTCATTGCGCAGGCC 60.600 50.000 11.31 0.00 38.85 5.19
5485 5981 2.439507 TCCTGTCTCCTCAAAGCAAACT 59.560 45.455 0.00 0.00 0.00 2.66
5555 6051 6.530913 CCATCACGGTTGTCTTCAATATAG 57.469 41.667 0.00 0.00 35.92 1.31
5567 6099 7.785033 TGTCTTCAATATAGATGCAGAACAGA 58.215 34.615 0.00 0.00 0.00 3.41
5655 6187 8.843262 CATATGTTGAAGTGTCACCATGATTAT 58.157 33.333 0.00 0.00 37.45 1.28
5679 6211 6.303054 TCATAACCTTTGGATCAAGTGACAA 58.697 36.000 0.00 0.00 0.00 3.18
5756 6288 8.546597 AAGGCAAAAATATTATGAACCACAAC 57.453 30.769 5.57 0.00 0.00 3.32
5806 6338 7.864379 ACAGAAATCAACATGATGAAGAACAAC 59.136 33.333 9.94 0.00 37.15 3.32
5882 6414 5.722021 ATTAACACGGAAAAGCTCCATTT 57.278 34.783 0.00 0.00 45.74 2.32
5989 6521 2.640581 AAAGGCACACAGACCCCACC 62.641 60.000 0.00 0.00 0.00 4.61
6150 6682 1.943968 GCTTTACGGACATGGCTCACA 60.944 52.381 0.00 0.00 0.00 3.58
6212 6744 1.244019 AATGGTGGGCGAACTTCAGC 61.244 55.000 0.00 0.00 0.00 4.26
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
1 2 1.847798 TAGCAGCCCCGTTTGTGGAT 61.848 55.000 0.00 0.00 0.00 3.41
2 3 2.521451 TAGCAGCCCCGTTTGTGGA 61.521 57.895 0.00 0.00 0.00 4.02
3 4 2.033448 TAGCAGCCCCGTTTGTGG 59.967 61.111 0.00 0.00 0.00 4.17
4 5 1.169661 TTGTAGCAGCCCCGTTTGTG 61.170 55.000 0.00 0.00 0.00 3.33
5 6 0.466555 TTTGTAGCAGCCCCGTTTGT 60.467 50.000 0.00 0.00 0.00 2.83
6 7 0.887933 ATTTGTAGCAGCCCCGTTTG 59.112 50.000 0.00 0.00 0.00 2.93
7 8 1.173913 GATTTGTAGCAGCCCCGTTT 58.826 50.000 0.00 0.00 0.00 3.60
8 9 0.037590 TGATTTGTAGCAGCCCCGTT 59.962 50.000 0.00 0.00 0.00 4.44
9 10 0.255890 ATGATTTGTAGCAGCCCCGT 59.744 50.000 0.00 0.00 0.00 5.28
10 11 2.254546 TATGATTTGTAGCAGCCCCG 57.745 50.000 0.00 0.00 0.00 5.73
11 12 4.144297 TGAATATGATTTGTAGCAGCCCC 58.856 43.478 0.00 0.00 0.00 5.80
12 13 4.320788 GCTGAATATGATTTGTAGCAGCCC 60.321 45.833 0.00 0.00 41.03 5.19
13 14 4.791974 GCTGAATATGATTTGTAGCAGCC 58.208 43.478 0.00 0.00 41.03 4.85
14 15 4.612259 CGGCTGAATATGATTTGTAGCAGC 60.612 45.833 0.00 0.00 44.82 5.25
15 16 4.512944 ACGGCTGAATATGATTTGTAGCAG 59.487 41.667 0.00 0.00 0.00 4.24
16 17 4.450976 ACGGCTGAATATGATTTGTAGCA 58.549 39.130 0.00 0.00 0.00 3.49
17 18 5.424121 AACGGCTGAATATGATTTGTAGC 57.576 39.130 0.00 0.00 0.00 3.58
18 19 5.462068 TCGAACGGCTGAATATGATTTGTAG 59.538 40.000 0.00 0.00 0.00 2.74
19 20 5.353111 TCGAACGGCTGAATATGATTTGTA 58.647 37.500 0.00 0.00 0.00 2.41
20 21 4.188462 TCGAACGGCTGAATATGATTTGT 58.812 39.130 0.00 0.00 0.00 2.83
21 22 4.794248 TCGAACGGCTGAATATGATTTG 57.206 40.909 0.00 0.00 0.00 2.32
22 23 4.150627 CGATCGAACGGCTGAATATGATTT 59.849 41.667 10.26 0.00 0.00 2.17
23 24 3.675225 CGATCGAACGGCTGAATATGATT 59.325 43.478 10.26 0.00 0.00 2.57
24 25 3.245797 CGATCGAACGGCTGAATATGAT 58.754 45.455 10.26 0.00 0.00 2.45
25 26 2.607038 CCGATCGAACGGCTGAATATGA 60.607 50.000 21.56 0.00 46.20 2.15
26 27 1.721389 CCGATCGAACGGCTGAATATG 59.279 52.381 21.56 0.00 46.20 1.78
27 28 2.065993 CCGATCGAACGGCTGAATAT 57.934 50.000 21.56 0.00 46.20 1.28
47 48 2.211619 ATTCAACGGCCACCAATGCG 62.212 55.000 2.24 0.00 0.00 4.73
51 52 1.982660 TGTAATTCAACGGCCACCAA 58.017 45.000 2.24 0.00 0.00 3.67
83 84 1.202568 CTGCGTTGACTCGTTGCTG 59.797 57.895 0.00 0.00 0.00 4.41
88 89 2.729862 GACGCTGCGTTGACTCGT 60.730 61.111 29.54 2.71 41.37 4.18
120 129 0.601311 GTGTTGCGTTGGAGAGCTCT 60.601 55.000 18.28 18.28 0.00 4.09
121 130 1.569479 GGTGTTGCGTTGGAGAGCTC 61.569 60.000 5.27 5.27 0.00 4.09
150 168 2.892425 CAATGGAGCTCGCCGGAC 60.892 66.667 5.05 0.00 0.00 4.79
179 399 3.200593 GGTGCTGCATCGGAGCTG 61.201 66.667 5.27 2.66 37.35 4.24
180 400 3.258228 TTGGTGCTGCATCGGAGCT 62.258 57.895 5.27 0.00 37.35 4.09
182 402 2.743752 CGTTGGTGCTGCATCGGAG 61.744 63.158 5.27 0.00 0.00 4.63
194 414 2.978010 CTTTGCCGGAGCGTTGGT 60.978 61.111 5.05 0.00 44.31 3.67
197 417 2.594592 AAGCTTTGCCGGAGCGTT 60.595 55.556 5.05 0.00 44.71 4.84
214 435 1.228398 TTGGCCGGAGTTGCAATGA 60.228 52.632 5.05 0.00 0.00 2.57
247 468 4.838152 GCATTGGAGCTCCGCCGA 62.838 66.667 27.43 13.70 39.43 5.54
270 491 4.443266 GCTTCGCCAGAGCCGTCT 62.443 66.667 0.00 0.00 34.57 4.18
279 500 1.603171 TTGCAATGGAGCTTCGCCA 60.603 52.632 0.00 0.00 37.78 5.69
299 520 1.377202 GCAATGGAGCTTGACCGGA 60.377 57.895 9.46 0.00 0.00 5.14
301 522 1.798735 CTGCAATGGAGCTTGACCG 59.201 57.895 0.00 0.00 34.99 4.79
303 524 1.509923 GGCTGCAATGGAGCTTGAC 59.490 57.895 25.07 5.86 36.63 3.18
304 525 1.679977 GGGCTGCAATGGAGCTTGA 60.680 57.895 25.07 0.00 36.63 3.02
305 526 0.394762 TAGGGCTGCAATGGAGCTTG 60.395 55.000 25.07 0.00 36.63 4.01
314 535 4.096003 GCTCCGGTAGGGCTGCAA 62.096 66.667 0.00 0.00 38.33 4.08
321 542 1.519751 CTCGATGGAGCTCCGGTAGG 61.520 65.000 27.43 14.43 39.43 3.18
329 550 4.320910 TCGACACTCGATGGAGCT 57.679 55.556 4.41 0.00 44.82 4.09
337 558 2.499098 CGGACACGTCGACACTCG 60.499 66.667 17.16 3.75 42.10 4.18
338 559 2.126965 CCGGACACGTCGACACTC 60.127 66.667 17.16 5.99 38.78 3.51
339 560 4.338539 GCCGGACACGTCGACACT 62.339 66.667 17.16 0.00 38.78 3.55
345 566 4.719369 AGCTTCGCCGGACACGTC 62.719 66.667 5.05 0.00 38.78 4.34
346 567 4.719369 GAGCTTCGCCGGACACGT 62.719 66.667 5.05 0.00 38.78 4.49
348 569 3.665675 ATGGAGCTTCGCCGGACAC 62.666 63.158 5.05 0.00 0.00 3.67
349 570 2.954684 AATGGAGCTTCGCCGGACA 61.955 57.895 5.05 0.00 0.00 4.02
350 571 2.125106 AATGGAGCTTCGCCGGAC 60.125 61.111 5.05 0.00 0.00 4.79
376 619 2.806856 GCTGCAATGGAGCTCGACG 61.807 63.158 19.55 0.00 33.37 5.12
402 698 3.241530 TCGGTGCTGCCTTGGACT 61.242 61.111 0.00 0.00 34.25 3.85
484 780 3.041940 CCGTTGACCAGTGACGCC 61.042 66.667 0.00 0.00 35.60 5.68
497 793 2.267681 GACTCCACGATCTCGCCGTT 62.268 60.000 0.00 0.00 44.43 4.44
534 841 4.570930 CTTCTTCTCCTTTTTCTAGGCGT 58.429 43.478 0.00 0.00 35.15 5.68
547 854 0.392327 GCTCCACCTGCTTCTTCTCC 60.392 60.000 0.00 0.00 0.00 3.71
598 905 2.649129 GCATGAGCCAACCCAACCC 61.649 63.158 0.00 0.00 33.58 4.11
672 979 0.194587 AATCCCCATCTCCTCCCGAT 59.805 55.000 0.00 0.00 0.00 4.18
675 982 0.178978 GCAAATCCCCATCTCCTCCC 60.179 60.000 0.00 0.00 0.00 4.30
703 1013 2.085320 CGTATCCCTCATCTCCTACCG 58.915 57.143 0.00 0.00 0.00 4.02
720 1030 2.126228 CTCCGCGTGCCTTTCGTA 60.126 61.111 4.92 0.00 0.00 3.43
721 1031 3.916392 CTCTCCGCGTGCCTTTCGT 62.916 63.158 4.92 0.00 0.00 3.85
725 1035 1.327690 TTATCCTCTCCGCGTGCCTT 61.328 55.000 4.92 0.00 0.00 4.35
812 1122 7.094549 TGGAAATCGTTTATTTTCATCCGACTT 60.095 33.333 0.00 0.00 38.02 3.01
815 1125 6.745159 TGGAAATCGTTTATTTTCATCCGA 57.255 33.333 0.00 0.00 38.02 4.55
899 1209 3.133901 GGTCCCCTCTCTCTCTCATTTTC 59.866 52.174 0.00 0.00 0.00 2.29
940 1250 5.249393 AGAGAGACTTGGAATAGAAAAGGCA 59.751 40.000 0.00 0.00 30.92 4.75
974 1284 2.677613 GCAGGAGAAGAAGAGAAGCAGG 60.678 54.545 0.00 0.00 0.00 4.85
1283 1602 0.391263 GCTTCCGGTGGTACTCCTTG 60.391 60.000 0.00 0.00 40.32 3.61
1409 1728 2.740447 AGAATAAACTCCGGCGAACAAC 59.260 45.455 9.30 0.00 0.00 3.32
1426 1746 4.428845 CAGCCAGGGTGCAAGAAT 57.571 55.556 5.50 0.00 0.00 2.40
1490 1810 2.689983 GCAGAGAGAGAGAGGGAGAAAG 59.310 54.545 0.00 0.00 0.00 2.62
1501 1821 0.683412 TGCAGCTTTGCAGAGAGAGA 59.317 50.000 8.73 0.00 40.23 3.10
1528 1848 1.466167 GCAAGAGCAATCGCAGAAAGA 59.534 47.619 0.00 0.00 40.18 2.52
1671 2026 4.624024 GGATTAATCAACTGACGACGAACA 59.376 41.667 17.07 0.30 0.00 3.18
1699 2056 2.666022 GACACACACAAAAACACAAGGC 59.334 45.455 0.00 0.00 0.00 4.35
1707 2064 2.820787 AGTTTCCGGACACACACAAAAA 59.179 40.909 22.24 0.00 0.00 1.94
1904 2276 2.024414 ACAACAGAACTTCAGCCCAAC 58.976 47.619 0.00 0.00 0.00 3.77
1915 2287 1.264288 GTAGCCACAGCACAACAGAAC 59.736 52.381 0.00 0.00 43.56 3.01
1955 2328 8.215891 GTATGCATACACAGAGGAGAAATCTCC 61.216 44.444 28.08 19.71 45.56 3.71
1966 2339 8.109705 AGATCTAAGAGTATGCATACACAGAG 57.890 38.462 32.69 25.48 35.74 3.35
2021 2399 3.275617 AAACCACAGACAGTACTGCAA 57.724 42.857 22.90 0.00 41.06 4.08
2024 2402 3.002656 CAGCAAAACCACAGACAGTACTG 59.997 47.826 21.44 21.44 42.78 2.74
2057 2435 3.367703 GCATGGAACCTTGATCACCAAAG 60.368 47.826 6.12 4.08 33.76 2.77
2086 2464 2.414824 CCTCTTCTTCTGGTCGAACTCG 60.415 54.545 0.33 0.00 41.45 4.18
2122 2500 0.654683 GAGCATTGTGATCGGACAGC 59.345 55.000 0.00 0.00 0.00 4.40
2152 2530 1.672356 GAATGCGTCTGGCTGTGGT 60.672 57.895 0.00 0.00 44.05 4.16
2161 2539 2.674177 CGGTGTAAAGGAGAATGCGTCT 60.674 50.000 0.00 0.00 40.25 4.18
2277 2655 5.386958 AGAACAGTAGTTTCAGTGCGATA 57.613 39.130 0.00 0.00 38.30 2.92
2282 2660 7.426929 AGCATAAAGAACAGTAGTTTCAGTG 57.573 36.000 0.00 0.00 38.30 3.66
2337 2716 9.109393 TCATACCTAGCTCAAACACAATTTATC 57.891 33.333 0.00 0.00 0.00 1.75
2474 2857 9.398538 ACATCAATGGCAAAAGCATTTATTATT 57.601 25.926 0.00 0.00 37.28 1.40
2779 3162 2.500509 AGAAGATACTAGCACGCAGC 57.499 50.000 0.00 0.00 46.19 5.25
2780 3163 3.799420 GGAAAGAAGATACTAGCACGCAG 59.201 47.826 0.00 0.00 0.00 5.18
2781 3164 3.447586 AGGAAAGAAGATACTAGCACGCA 59.552 43.478 0.00 0.00 0.00 5.24
2782 3165 4.048241 AGGAAAGAAGATACTAGCACGC 57.952 45.455 0.00 0.00 0.00 5.34
2783 3166 5.299782 ACCTAGGAAAGAAGATACTAGCACG 59.700 44.000 17.98 0.00 31.96 5.34
2784 3167 6.461788 CCACCTAGGAAAGAAGATACTAGCAC 60.462 46.154 17.98 0.00 41.22 4.40
2788 3171 6.834451 CAGACCACCTAGGAAAGAAGATACTA 59.166 42.308 17.98 0.00 41.22 1.82
2789 3172 5.659079 CAGACCACCTAGGAAAGAAGATACT 59.341 44.000 17.98 0.00 41.22 2.12
3060 3504 5.589855 TGCTGGTTGTTCAATATGTAGGATG 59.410 40.000 0.00 0.00 0.00 3.51
3069 3513 7.531857 TTTTTCCTATGCTGGTTGTTCAATA 57.468 32.000 0.00 0.00 0.00 1.90
3158 3602 2.475487 GACTTTTCCGAACAGAGAACCG 59.525 50.000 1.23 0.00 0.00 4.44
3180 3624 6.267496 GTGGAACCACATTTTTATAGTGCT 57.733 37.500 17.69 0.00 45.53 4.40
3212 3662 1.040339 AGCATCCTCCTCGGTCTGAC 61.040 60.000 0.00 0.00 0.00 3.51
3224 3674 1.076024 TGAAGGCCAAGAAAGCATCCT 59.924 47.619 5.01 0.00 0.00 3.24
3318 3768 1.886655 GCTCATCAAGGAAAACCGGGT 60.887 52.381 6.32 0.00 0.00 5.28
3335 3785 1.598701 AAAAGCGGGCTGATTGGCTC 61.599 55.000 0.00 0.00 41.48 4.70
3340 3790 1.620822 AGTGAAAAAGCGGGCTGATT 58.379 45.000 0.00 0.00 0.00 2.57
3400 3851 2.884639 GCCTTACAAGAACAGCCAGAAA 59.115 45.455 0.00 0.00 0.00 2.52
3407 3858 2.586648 AAGGGGCCTTACAAGAACAG 57.413 50.000 0.84 0.00 34.05 3.16
3668 4131 9.241919 TCTGATTCTTAAATGTAAAGCCATCAA 57.758 29.630 0.00 0.00 29.92 2.57
3669 4132 8.806429 TCTGATTCTTAAATGTAAAGCCATCA 57.194 30.769 0.00 0.00 0.00 3.07
3700 4163 9.534565 GAGCAATCAGTTAATCTACAATGAGTA 57.465 33.333 0.00 0.00 0.00 2.59
3701 4164 8.263640 AGAGCAATCAGTTAATCTACAATGAGT 58.736 33.333 0.00 0.00 0.00 3.41
3702 4165 8.659925 AGAGCAATCAGTTAATCTACAATGAG 57.340 34.615 0.00 0.00 0.00 2.90
3703 4166 9.453572 AAAGAGCAATCAGTTAATCTACAATGA 57.546 29.630 0.00 0.00 0.00 2.57
3704 4167 9.499585 CAAAGAGCAATCAGTTAATCTACAATG 57.500 33.333 0.00 0.00 0.00 2.82
3705 4168 8.680903 CCAAAGAGCAATCAGTTAATCTACAAT 58.319 33.333 0.00 0.00 0.00 2.71
3706 4169 7.665559 ACCAAAGAGCAATCAGTTAATCTACAA 59.334 33.333 0.00 0.00 0.00 2.41
3707 4170 7.168219 ACCAAAGAGCAATCAGTTAATCTACA 58.832 34.615 0.00 0.00 0.00 2.74
3708 4171 7.617041 ACCAAAGAGCAATCAGTTAATCTAC 57.383 36.000 0.00 0.00 0.00 2.59
3709 4172 7.336931 GGAACCAAAGAGCAATCAGTTAATCTA 59.663 37.037 0.00 0.00 0.00 1.98
3710 4173 6.151817 GGAACCAAAGAGCAATCAGTTAATCT 59.848 38.462 0.00 0.00 0.00 2.40
3711 4174 6.071952 TGGAACCAAAGAGCAATCAGTTAATC 60.072 38.462 0.00 0.00 0.00 1.75
3712 4175 5.774690 TGGAACCAAAGAGCAATCAGTTAAT 59.225 36.000 0.00 0.00 0.00 1.40
3713 4176 5.136828 TGGAACCAAAGAGCAATCAGTTAA 58.863 37.500 0.00 0.00 0.00 2.01
3714 4177 4.724399 TGGAACCAAAGAGCAATCAGTTA 58.276 39.130 0.00 0.00 0.00 2.24
3715 4178 3.565307 TGGAACCAAAGAGCAATCAGTT 58.435 40.909 0.00 0.00 0.00 3.16
3716 4179 3.228188 TGGAACCAAAGAGCAATCAGT 57.772 42.857 0.00 0.00 0.00 3.41
3717 4180 4.589216 TTTGGAACCAAAGAGCAATCAG 57.411 40.909 14.02 0.00 40.51 2.90
3727 4190 2.368221 CCATCAAGGCTTTGGAACCAAA 59.632 45.455 11.79 16.54 42.77 3.28
3728 4191 1.969923 CCATCAAGGCTTTGGAACCAA 59.030 47.619 11.79 1.83 34.97 3.67
3729 4192 1.631405 CCATCAAGGCTTTGGAACCA 58.369 50.000 11.79 0.00 34.97 3.67
3740 4203 8.469200 TGATTCTTAAATGTAAAGCCATCAAGG 58.531 33.333 0.00 0.00 41.84 3.61
3741 4204 9.512435 CTGATTCTTAAATGTAAAGCCATCAAG 57.488 33.333 0.00 0.00 29.92 3.02
3742 4205 8.469200 CCTGATTCTTAAATGTAAAGCCATCAA 58.531 33.333 0.00 0.00 29.92 2.57
3815 4279 5.882557 CCACACAATCTAGCATAAAACCTCT 59.117 40.000 0.00 0.00 0.00 3.69
3973 4442 9.547753 ACTGATTAATCATGTTGTATGTAGGAC 57.452 33.333 18.26 0.00 36.02 3.85
4359 4840 5.691754 GGTTTTAACTGTTTTGAGGCATGAG 59.308 40.000 0.00 0.00 0.00 2.90
4486 4967 3.993736 TCGATCGAAAACAATTGAGCAGA 59.006 39.130 16.99 5.26 0.00 4.26
4556 5037 6.528321 CAAATGTTGGGAGCAGAGATATCTA 58.472 40.000 4.89 0.00 0.00 1.98
4866 5348 1.215647 GACGAACTGAGGCGATGGT 59.784 57.895 4.09 0.00 0.00 3.55
4932 5414 1.740585 CAATTCATCCGGTTTACGCCA 59.259 47.619 0.00 0.00 42.52 5.69
4972 5462 3.523157 TCCTGGCTGTAGATCCAAAATCA 59.477 43.478 0.00 0.00 30.98 2.57
5030 5520 4.963318 ACAGTGAGATTTTCCACTCTGA 57.037 40.909 0.00 0.00 41.26 3.27
5265 5755 1.550976 CTATGATACCCCTCTTCCGGC 59.449 57.143 0.00 0.00 0.00 6.13
5455 5951 1.478510 GAGGAGACAGGATCGCTTTCA 59.521 52.381 0.00 0.00 0.00 2.69
5485 5981 2.536365 CTAACGCGAGCTGTTTGGATA 58.464 47.619 15.93 0.00 0.00 2.59
5555 6051 9.098355 TGTATATTTTAGTGTCTGTTCTGCATC 57.902 33.333 0.00 0.00 0.00 3.91
5567 6099 8.848474 ACTTGTTGAGCTGTATATTTTAGTGT 57.152 30.769 0.00 0.00 0.00 3.55
5655 6187 5.875224 TGTCACTTGATCCAAAGGTTATGA 58.125 37.500 0.00 0.00 0.00 2.15
5679 6211 6.322201 GGTAACCTGTCAATTGGATCAATCAT 59.678 38.462 5.42 0.00 32.43 2.45
5733 6265 7.897575 TGTTGTGGTTCATAATATTTTTGCC 57.102 32.000 0.00 0.00 0.00 4.52
5752 6284 2.504367 GTTGCCTGGACACTATGTTGT 58.496 47.619 0.00 0.00 0.00 3.32
5756 6288 0.249120 TCGGTTGCCTGGACACTATG 59.751 55.000 0.00 0.00 0.00 2.23
5882 6414 3.756434 GCCTTGTATGCTAACAAAGACCA 59.244 43.478 6.03 0.00 38.81 4.02
5989 6521 2.209273 TGTGTTCATCGTTGTCAGTGG 58.791 47.619 0.00 0.00 0.00 4.00
6150 6682 1.218316 GAACGCCGAGATGGAGGTT 59.782 57.895 0.00 0.00 37.73 3.50


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

AutoCloner maintained by Alex Coulton.