Multiple sequence alignment - TraesCS2D01G371400

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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 TraesCS2D01G371400 chr2D 100.000 2812 0 0 1 2812 475498275 475501086 0.000000e+00 5193.0
1 TraesCS2D01G371400 chr2D 87.186 1475 101 35 556 1967 475876496 475877945 0.000000e+00 1596.0
2 TraesCS2D01G371400 chr2D 86.341 1230 85 39 556 1726 475984453 475985658 0.000000e+00 1264.0
3 TraesCS2D01G371400 chr2D 85.328 259 35 2 254 512 475982332 475982587 5.970000e-67 265.0
4 TraesCS2D01G371400 chr2D 90.000 130 13 0 2173 2302 475878151 475878280 4.820000e-38 169.0
5 TraesCS2D01G371400 chr2D 94.545 110 4 2 2509 2616 475878281 475878390 4.820000e-38 169.0
6 TraesCS2D01G371400 chr2D 90.400 125 9 3 3 126 475982036 475982158 8.060000e-36 161.0
7 TraesCS2D01G371400 chr2D 82.990 194 15 8 195 371 475874066 475874258 2.900000e-35 159.0
8 TraesCS2D01G371400 chr2B 89.210 1418 96 25 746 2145 556517088 556518466 0.000000e+00 1718.0
9 TraesCS2D01G371400 chr2B 87.281 1368 115 27 802 2145 556595627 556596959 0.000000e+00 1507.0
10 TraesCS2D01G371400 chr2B 87.002 1231 73 38 556 1726 556675841 556677044 0.000000e+00 1306.0
11 TraesCS2D01G371400 chr2B 79.737 533 75 21 6 511 556661211 556661737 3.450000e-94 355.0
12 TraesCS2D01G371400 chr2B 84.343 396 20 16 254 648 556516726 556517080 1.600000e-92 350.0
13 TraesCS2D01G371400 chr2B 77.948 653 73 35 8 613 556594828 556595456 2.680000e-90 342.0
14 TraesCS2D01G371400 chr2B 82.576 264 25 13 2235 2477 556518503 556518766 2.190000e-51 213.0
15 TraesCS2D01G371400 chr2B 92.414 145 10 1 2473 2616 556558046 556558190 3.670000e-49 206.0
16 TraesCS2D01G371400 chr2B 83.264 239 18 15 6 244 556516469 556516685 1.710000e-47 200.0
17 TraesCS2D01G371400 chr2A 91.431 1272 77 8 752 1999 617730579 617731842 0.000000e+00 1716.0
18 TraesCS2D01G371400 chr2A 86.156 1228 79 32 556 1726 617812479 617813672 0.000000e+00 1242.0
19 TraesCS2D01G371400 chr2A 88.889 918 68 15 1250 2152 617762322 617763220 0.000000e+00 1099.0
20 TraesCS2D01G371400 chr2A 88.226 654 55 17 6 648 617729915 617730557 0.000000e+00 761.0
21 TraesCS2D01G371400 chr2A 91.781 292 22 2 2327 2616 617789273 617789564 3.370000e-109 405.0
22 TraesCS2D01G371400 chr2A 83.113 302 25 13 251 540 617759419 617759706 4.650000e-63 252.0
23 TraesCS2D01G371400 chr2A 83.026 271 19 15 6 252 617797598 617797865 1.310000e-53 220.0
24 TraesCS2D01G371400 chr2A 90.400 125 9 3 3 125 617759136 617759259 8.060000e-36 161.0
25 TraesCS2D01G371400 chr2A 83.962 106 10 3 2173 2278 617763278 617763376 8.290000e-16 95.3
26 TraesCS2D01G371400 chr6B 81.348 445 79 4 1284 1726 473541094 473540652 2.660000e-95 359.0
27 TraesCS2D01G371400 chrUn 82.090 134 21 2 2680 2812 90100574 90100705 8.230000e-21 111.0
28 TraesCS2D01G371400 chrUn 76.336 131 27 3 2681 2810 48825340 48825213 1.810000e-07 67.6
29 TraesCS2D01G371400 chr7A 81.429 140 20 6 2676 2812 64128194 64128330 2.960000e-20 110.0
30 TraesCS2D01G371400 chr7A 79.545 132 23 3 2680 2810 605147081 605147209 1.070000e-14 91.6
31 TraesCS2D01G371400 chr1B 82.308 130 18 4 2684 2811 449249910 449249784 1.070000e-19 108.0
32 TraesCS2D01G371400 chr4B 88.312 77 7 2 2543 2619 266358890 266358816 1.070000e-14 91.6
33 TraesCS2D01G371400 chr5A 78.986 138 24 4 2675 2810 592987721 592987587 3.860000e-14 89.8
34 TraesCS2D01G371400 chr6D 78.788 132 24 3 2681 2811 141810369 141810241 4.990000e-13 86.1
35 TraesCS2D01G371400 chr6A 80.822 73 14 0 2739 2811 39203207 39203279 1.090000e-04 58.4


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 TraesCS2D01G371400 chr2D 475498275 475501086 2811 False 5193.000000 5193 100.000000 1 2812 1 chr2D.!!$F1 2811
1 TraesCS2D01G371400 chr2D 475982036 475985658 3622 False 563.333333 1264 87.356333 3 1726 3 chr2D.!!$F3 1723
2 TraesCS2D01G371400 chr2D 475874066 475878390 4324 False 523.250000 1596 88.680250 195 2616 4 chr2D.!!$F2 2421
3 TraesCS2D01G371400 chr2B 556675841 556677044 1203 False 1306.000000 1306 87.002000 556 1726 1 chr2B.!!$F3 1170
4 TraesCS2D01G371400 chr2B 556594828 556596959 2131 False 924.500000 1507 82.614500 8 2145 2 chr2B.!!$F5 2137
5 TraesCS2D01G371400 chr2B 556516469 556518766 2297 False 620.250000 1718 84.848250 6 2477 4 chr2B.!!$F4 2471
6 TraesCS2D01G371400 chr2B 556661211 556661737 526 False 355.000000 355 79.737000 6 511 1 chr2B.!!$F2 505
7 TraesCS2D01G371400 chr2A 617812479 617813672 1193 False 1242.000000 1242 86.156000 556 1726 1 chr2A.!!$F3 1170
8 TraesCS2D01G371400 chr2A 617729915 617731842 1927 False 1238.500000 1716 89.828500 6 1999 2 chr2A.!!$F4 1993
9 TraesCS2D01G371400 chr2A 617759136 617763376 4240 False 401.825000 1099 86.591000 3 2278 4 chr2A.!!$F5 2275

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
391 525 0.108585 TGCTCAAAGCTTTCCCGACT 59.891 50.0 9.23 0.0 42.97 4.18 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2272 6922 1.00006 CAACGGAACCGACACCTTAGA 60.0 52.381 20.14 0.0 42.83 2.1 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
29 30 2.112297 GCCACCAAACCCACGAGA 59.888 61.111 0.00 0.00 0.00 4.04
33 34 2.033602 CCAAACCCACGAGACCCC 59.966 66.667 0.00 0.00 0.00 4.95
124 125 2.331893 CGTGGGCGCCATGAGAAAA 61.332 57.895 30.85 0.00 42.73 2.29
125 126 1.861542 CGTGGGCGCCATGAGAAAAA 61.862 55.000 30.85 0.00 42.73 1.94
126 127 0.388520 GTGGGCGCCATGAGAAAAAC 60.389 55.000 30.85 6.94 35.28 2.43
127 128 0.825425 TGGGCGCCATGAGAAAAACA 60.825 50.000 30.85 9.92 0.00 2.83
128 129 0.109132 GGGCGCCATGAGAAAAACAG 60.109 55.000 30.85 0.00 0.00 3.16
129 130 0.881118 GGCGCCATGAGAAAAACAGA 59.119 50.000 24.80 0.00 0.00 3.41
130 131 1.135575 GGCGCCATGAGAAAAACAGAG 60.136 52.381 24.80 0.00 0.00 3.35
131 132 1.135575 GCGCCATGAGAAAAACAGAGG 60.136 52.381 0.00 0.00 0.00 3.69
132 133 2.154462 CGCCATGAGAAAAACAGAGGT 58.846 47.619 0.00 0.00 0.00 3.85
137 155 5.703876 CCATGAGAAAAACAGAGGTAAAGC 58.296 41.667 0.00 0.00 0.00 3.51
156 174 2.237392 AGCTAGCGTGGAGAGGAAAAAT 59.763 45.455 9.55 0.00 0.00 1.82
182 214 3.251729 ACAACACATGCATTGAGACTGAC 59.748 43.478 14.68 0.00 0.00 3.51
183 215 2.430465 ACACATGCATTGAGACTGACC 58.570 47.619 13.53 0.00 0.00 4.02
184 216 2.039480 ACACATGCATTGAGACTGACCT 59.961 45.455 13.53 0.00 0.00 3.85
185 217 3.261643 ACACATGCATTGAGACTGACCTA 59.738 43.478 13.53 0.00 0.00 3.08
186 218 4.256110 CACATGCATTGAGACTGACCTAA 58.744 43.478 0.00 0.00 0.00 2.69
187 219 4.093998 CACATGCATTGAGACTGACCTAAC 59.906 45.833 0.00 0.00 0.00 2.34
189 221 2.299013 TGCATTGAGACTGACCTAACGT 59.701 45.455 0.00 0.00 0.00 3.99
190 222 2.668457 GCATTGAGACTGACCTAACGTG 59.332 50.000 0.00 0.00 0.00 4.49
192 224 4.617530 GCATTGAGACTGACCTAACGTGTA 60.618 45.833 0.00 0.00 0.00 2.90
216 259 0.535335 TAGTGACGGTGCCTTCCATC 59.465 55.000 0.00 0.00 0.00 3.51
252 336 6.183360 GCGAACCATCTTTACTTCTTCTTCTC 60.183 42.308 0.00 0.00 0.00 2.87
372 506 1.682451 GGCACCATGGCATTGCATCT 61.682 55.000 23.01 0.00 43.14 2.90
386 520 1.542915 TGCATCTGCTCAAAGCTTTCC 59.457 47.619 9.23 1.40 42.97 3.13
391 525 0.108585 TGCTCAAAGCTTTCCCGACT 59.891 50.000 9.23 0.00 42.97 4.18
425 565 2.229792 CACACTACACTGCAAACCCAT 58.770 47.619 0.00 0.00 0.00 4.00
426 566 2.622942 CACACTACACTGCAAACCCATT 59.377 45.455 0.00 0.00 0.00 3.16
427 567 2.622942 ACACTACACTGCAAACCCATTG 59.377 45.455 0.00 0.00 42.21 2.82
429 569 3.317711 CACTACACTGCAAACCCATTGAA 59.682 43.478 0.00 0.00 41.85 2.69
430 570 2.888834 ACACTGCAAACCCATTGAAC 57.111 45.000 0.00 0.00 41.85 3.18
431 571 2.387757 ACACTGCAAACCCATTGAACT 58.612 42.857 0.00 0.00 41.85 3.01
432 572 3.561143 ACACTGCAAACCCATTGAACTA 58.439 40.909 0.00 0.00 41.85 2.24
433 573 3.957497 ACACTGCAAACCCATTGAACTAA 59.043 39.130 0.00 0.00 41.85 2.24
435 575 5.163513 CACTGCAAACCCATTGAACTAATC 58.836 41.667 0.00 0.00 41.85 1.75
436 576 4.220602 ACTGCAAACCCATTGAACTAATCC 59.779 41.667 0.00 0.00 41.85 3.01
687 4448 2.729455 GCACATGCAGCACAACCA 59.271 55.556 0.00 0.00 41.59 3.67
735 4520 6.830838 AGGAAGAAGCACTTATTTTATCCAGG 59.169 38.462 0.00 0.00 39.13 4.45
917 5026 0.886490 CACCTCACCAGCAACCTCAC 60.886 60.000 0.00 0.00 0.00 3.51
1005 5411 3.347958 TCGTTCAAACAGCAAATGGAC 57.652 42.857 0.00 0.00 0.00 4.02
1186 5648 4.349636 TCAAAGAACATGGTAAGTCCTCCA 59.650 41.667 0.00 0.00 38.14 3.86
1210 5672 0.404426 TCCTTCTCCAGTCCGTCTGA 59.596 55.000 6.45 0.00 46.27 3.27
1241 5794 7.431249 TCTTTGTAGTCTTTCGTGTTCATAGT 58.569 34.615 0.00 0.00 0.00 2.12
1273 5832 9.725019 TTGTGAATTAGACACTGAACATAGATT 57.275 29.630 0.00 0.00 38.81 2.40
1406 5973 2.920912 TTCGCCGTGGAGAAGGGT 60.921 61.111 0.58 0.00 36.12 4.34
1442 6015 1.599606 CCTCGCAGTGCTACCTGTCT 61.600 60.000 14.33 0.00 34.84 3.41
1567 6140 2.428622 GGTGCCGTACAAGGTGGT 59.571 61.111 0.00 0.00 0.00 4.16
1598 6171 3.645268 GAGGGTGAAGGCGGCCAAT 62.645 63.158 23.09 9.68 0.00 3.16
1727 6300 3.842923 CTCGAGCAGGCCATCGGT 61.843 66.667 20.52 8.05 39.38 4.69
1865 6463 2.361119 TGTCTGACTTACAACACGAGCT 59.639 45.455 9.51 0.00 0.00 4.09
1882 6481 0.099436 GCTGCATCGTGATTTGGGAC 59.901 55.000 0.00 0.00 0.00 4.46
1897 6496 3.371063 GACACCTCGTCGGCCTCA 61.371 66.667 0.00 0.00 34.19 3.86
2028 6630 0.592148 CGACCTCCCTATACGTGAGC 59.408 60.000 0.00 0.00 0.00 4.26
2032 6634 1.273606 CCTCCCTATACGTGAGCATGG 59.726 57.143 0.00 0.00 0.00 3.66
2033 6635 0.679505 TCCCTATACGTGAGCATGGC 59.320 55.000 0.00 0.00 0.00 4.40
2034 6636 0.320771 CCCTATACGTGAGCATGGCC 60.321 60.000 0.00 0.00 0.00 5.36
2140 6750 2.419990 CCTCTAATGGCGTGTCAATGGA 60.420 50.000 0.00 0.00 0.00 3.41
2147 6760 4.296999 TGGCGTGTCAATGGACGTCATA 62.297 50.000 18.91 6.01 44.69 2.15
2252 6902 2.011222 GGTGTGTTCTGTTCGGAAACA 58.989 47.619 0.00 0.00 43.06 2.83
2255 6905 4.439563 GGTGTGTTCTGTTCGGAAACAAAT 60.440 41.667 0.00 0.00 44.53 2.32
2272 6922 6.423776 AACAAATTGGAATGGAATGACACT 57.576 33.333 0.00 0.00 0.00 3.55
2305 6956 3.112580 GTTCCGTTGACATGTTTGGTTG 58.887 45.455 0.00 0.00 0.00 3.77
2313 6964 4.022603 TGACATGTTTGGTTGGGGATATG 58.977 43.478 0.00 0.00 0.00 1.78
2324 6975 6.687549 TGGTTGGGGATATGGAATTAAATGA 58.312 36.000 0.00 0.00 0.00 2.57
2331 7002 9.933723 GGGGATATGGAATTAAATGATTTTGAG 57.066 33.333 0.00 0.00 0.00 3.02
2345 7016 9.745018 AAATGATTTTGAGAAATAGAGTGGAGA 57.255 29.630 0.00 0.00 35.65 3.71
2370 7041 7.283329 AGAATTTAGTTCAACTCACCTCTTGT 58.717 34.615 0.00 0.00 39.39 3.16
2378 7049 8.598041 AGTTCAACTCACCTCTTGTATAGAAAT 58.402 33.333 0.00 0.00 30.91 2.17
2404 7075 3.999663 GAGGTTGCCTCTCATATGCATAC 59.000 47.826 8.99 0.00 46.41 2.39
2477 7148 5.587289 TCAAAATTTGCAGTAGTGTTGACC 58.413 37.500 0.00 0.00 0.00 4.02
2478 7149 5.359576 TCAAAATTTGCAGTAGTGTTGACCT 59.640 36.000 0.00 0.00 0.00 3.85
2479 7150 5.852282 AAATTTGCAGTAGTGTTGACCTT 57.148 34.783 0.00 0.00 0.00 3.50
2480 7151 4.836125 ATTTGCAGTAGTGTTGACCTTG 57.164 40.909 0.00 0.00 0.00 3.61
2481 7152 3.552132 TTGCAGTAGTGTTGACCTTGA 57.448 42.857 0.00 0.00 0.00 3.02
2482 7153 3.769739 TGCAGTAGTGTTGACCTTGAT 57.230 42.857 0.00 0.00 0.00 2.57
2483 7154 4.085357 TGCAGTAGTGTTGACCTTGATT 57.915 40.909 0.00 0.00 0.00 2.57
2484 7155 5.222079 TGCAGTAGTGTTGACCTTGATTA 57.778 39.130 0.00 0.00 0.00 1.75
2485 7156 5.804639 TGCAGTAGTGTTGACCTTGATTAT 58.195 37.500 0.00 0.00 0.00 1.28
2486 7157 6.941857 TGCAGTAGTGTTGACCTTGATTATA 58.058 36.000 0.00 0.00 0.00 0.98
2487 7158 6.816640 TGCAGTAGTGTTGACCTTGATTATAC 59.183 38.462 0.00 0.00 0.00 1.47
2488 7159 7.042335 GCAGTAGTGTTGACCTTGATTATACT 58.958 38.462 0.00 0.00 0.00 2.12
2489 7160 7.549488 GCAGTAGTGTTGACCTTGATTATACTT 59.451 37.037 0.00 0.00 0.00 2.24
2490 7161 9.436957 CAGTAGTGTTGACCTTGATTATACTTT 57.563 33.333 0.00 0.00 0.00 2.66
2491 7162 9.436957 AGTAGTGTTGACCTTGATTATACTTTG 57.563 33.333 0.00 0.00 0.00 2.77
2492 7163 9.431887 GTAGTGTTGACCTTGATTATACTTTGA 57.568 33.333 0.00 0.00 0.00 2.69
2493 7164 8.324163 AGTGTTGACCTTGATTATACTTTGAC 57.676 34.615 0.00 0.00 0.00 3.18
2494 7165 7.936847 AGTGTTGACCTTGATTATACTTTGACA 59.063 33.333 0.00 0.00 0.00 3.58
2495 7166 8.730680 GTGTTGACCTTGATTATACTTTGACAT 58.269 33.333 0.00 0.00 0.00 3.06
2496 7167 8.946085 TGTTGACCTTGATTATACTTTGACATC 58.054 33.333 0.00 0.00 0.00 3.06
2497 7168 8.946085 GTTGACCTTGATTATACTTTGACATCA 58.054 33.333 0.00 0.00 0.00 3.07
2498 7169 9.513906 TTGACCTTGATTATACTTTGACATCAA 57.486 29.630 0.00 0.00 33.75 2.57
2499 7170 9.513906 TGACCTTGATTATACTTTGACATCAAA 57.486 29.630 6.85 6.85 42.90 2.69
2500 7171 9.774742 GACCTTGATTATACTTTGACATCAAAC 57.225 33.333 2.89 0.00 40.55 2.93
2501 7172 9.295825 ACCTTGATTATACTTTGACATCAAACA 57.704 29.630 2.89 0.00 40.55 2.83
2505 7176 8.190122 TGATTATACTTTGACATCAAACATGGC 58.810 33.333 2.89 0.00 40.55 4.40
2506 7177 5.981088 ATACTTTGACATCAAACATGGCA 57.019 34.783 2.89 0.00 40.55 4.92
2507 7178 4.877378 ACTTTGACATCAAACATGGCAT 57.123 36.364 2.89 0.00 40.55 4.40
2518 7189 7.546667 ACATCAAACATGGCATACTTTTCAATC 59.453 33.333 0.00 0.00 0.00 2.67
2619 7291 9.958180 TCAATCAAGAAAATTACTCATAGGTGA 57.042 29.630 0.00 0.00 0.00 4.02
2622 7294 8.268850 TCAAGAAAATTACTCATAGGTGAAGC 57.731 34.615 0.00 0.00 33.05 3.86
2623 7295 7.882791 TCAAGAAAATTACTCATAGGTGAAGCA 59.117 33.333 0.00 0.00 33.05 3.91
2624 7296 8.514594 CAAGAAAATTACTCATAGGTGAAGCAA 58.485 33.333 0.00 0.00 33.05 3.91
2625 7297 8.273780 AGAAAATTACTCATAGGTGAAGCAAG 57.726 34.615 0.00 0.00 33.05 4.01
2626 7298 7.885399 AGAAAATTACTCATAGGTGAAGCAAGT 59.115 33.333 0.00 0.00 33.05 3.16
2627 7299 9.162764 GAAAATTACTCATAGGTGAAGCAAGTA 57.837 33.333 0.00 0.00 33.05 2.24
2628 7300 9.515226 AAAATTACTCATAGGTGAAGCAAGTAA 57.485 29.630 0.00 0.00 33.05 2.24
2629 7301 9.515226 AAATTACTCATAGGTGAAGCAAGTAAA 57.485 29.630 0.00 0.00 33.05 2.01
2630 7302 9.686683 AATTACTCATAGGTGAAGCAAGTAAAT 57.313 29.630 0.00 0.00 33.05 1.40
2632 7304 9.817809 TTACTCATAGGTGAAGCAAGTAAATAG 57.182 33.333 0.00 0.00 33.05 1.73
2633 7305 7.852263 ACTCATAGGTGAAGCAAGTAAATAGT 58.148 34.615 0.00 0.00 33.05 2.12
2634 7306 7.766278 ACTCATAGGTGAAGCAAGTAAATAGTG 59.234 37.037 0.00 0.00 33.05 2.74
2635 7307 6.538742 TCATAGGTGAAGCAAGTAAATAGTGC 59.461 38.462 0.00 0.00 38.59 4.40
2636 7308 4.651778 AGGTGAAGCAAGTAAATAGTGCA 58.348 39.130 0.00 0.00 40.83 4.57
2637 7309 5.070001 AGGTGAAGCAAGTAAATAGTGCAA 58.930 37.500 0.00 0.00 40.83 4.08
2638 7310 5.534654 AGGTGAAGCAAGTAAATAGTGCAAA 59.465 36.000 0.00 0.00 40.83 3.68
2639 7311 6.040391 AGGTGAAGCAAGTAAATAGTGCAAAA 59.960 34.615 0.00 0.00 40.83 2.44
2640 7312 6.699642 GGTGAAGCAAGTAAATAGTGCAAAAA 59.300 34.615 0.00 0.00 40.83 1.94
2674 7346 9.967451 TGAATACTTACATTAAATTGGTCCTCA 57.033 29.630 0.00 0.00 0.00 3.86
2679 7351 9.747898 ACTTACATTAAATTGGTCCTCATACAA 57.252 29.630 0.00 0.00 0.00 2.41
2683 7355 9.920946 ACATTAAATTGGTCCTCATACAATACT 57.079 29.630 0.00 0.00 34.00 2.12
2691 7363 9.880157 TTGGTCCTCATACAATACTAGTAAAAC 57.120 33.333 6.70 0.00 0.00 2.43
2692 7364 8.192774 TGGTCCTCATACAATACTAGTAAAACG 58.807 37.037 6.70 0.00 0.00 3.60
2693 7365 8.408601 GGTCCTCATACAATACTAGTAAAACGA 58.591 37.037 6.70 0.00 0.00 3.85
2694 7366 9.230932 GTCCTCATACAATACTAGTAAAACGAC 57.769 37.037 6.70 0.64 0.00 4.34
2695 7367 8.408601 TCCTCATACAATACTAGTAAAACGACC 58.591 37.037 6.70 0.00 0.00 4.79
2696 7368 7.377928 CCTCATACAATACTAGTAAAACGACCG 59.622 40.741 6.70 0.00 0.00 4.79
2697 7369 7.761409 TCATACAATACTAGTAAAACGACCGT 58.239 34.615 6.70 0.00 0.00 4.83
2698 7370 7.697710 TCATACAATACTAGTAAAACGACCGTG 59.302 37.037 6.70 0.00 0.00 4.94
2699 7371 4.622740 ACAATACTAGTAAAACGACCGTGC 59.377 41.667 6.70 0.00 0.00 5.34
2700 7372 2.798976 ACTAGTAAAACGACCGTGCA 57.201 45.000 0.00 0.00 0.00 4.57
2701 7373 2.669364 ACTAGTAAAACGACCGTGCAG 58.331 47.619 0.00 0.00 0.00 4.41
2702 7374 2.035066 ACTAGTAAAACGACCGTGCAGT 59.965 45.455 0.00 0.00 0.00 4.40
2703 7375 1.214367 AGTAAAACGACCGTGCAGTG 58.786 50.000 0.00 0.00 0.00 3.66
2704 7376 0.383860 GTAAAACGACCGTGCAGTGC 60.384 55.000 8.58 8.58 0.00 4.40
2705 7377 0.531090 TAAAACGACCGTGCAGTGCT 60.531 50.000 17.60 0.00 0.00 4.40
2706 7378 0.531090 AAAACGACCGTGCAGTGCTA 60.531 50.000 17.60 0.00 0.00 3.49
2707 7379 1.219522 AAACGACCGTGCAGTGCTAC 61.220 55.000 17.60 11.67 0.00 3.58
2708 7380 3.172575 CGACCGTGCAGTGCTACG 61.173 66.667 24.09 24.09 39.83 3.51
2709 7381 2.257371 GACCGTGCAGTGCTACGA 59.743 61.111 29.23 5.34 42.54 3.43
2710 7382 2.049433 ACCGTGCAGTGCTACGAC 60.049 61.111 29.23 15.11 42.54 4.34
2711 7383 2.258591 CCGTGCAGTGCTACGACT 59.741 61.111 29.23 0.00 42.54 4.18
2712 7384 1.239296 ACCGTGCAGTGCTACGACTA 61.239 55.000 29.23 3.62 42.54 2.59
2713 7385 0.100682 CCGTGCAGTGCTACGACTAT 59.899 55.000 29.23 0.00 42.54 2.12
2714 7386 1.332686 CCGTGCAGTGCTACGACTATA 59.667 52.381 29.23 2.26 42.54 1.31
2715 7387 2.223409 CCGTGCAGTGCTACGACTATAA 60.223 50.000 29.23 1.58 42.54 0.98
2716 7388 3.550233 CCGTGCAGTGCTACGACTATAAT 60.550 47.826 29.23 0.00 42.54 1.28
2717 7389 3.422217 CGTGCAGTGCTACGACTATAATG 59.578 47.826 25.77 2.62 42.54 1.90
2718 7390 3.182572 GTGCAGTGCTACGACTATAATGC 59.817 47.826 17.60 0.00 0.00 3.56
2719 7391 3.181480 TGCAGTGCTACGACTATAATGCA 60.181 43.478 17.60 0.00 38.70 3.96
2720 7392 3.990469 GCAGTGCTACGACTATAATGCAT 59.010 43.478 8.18 0.00 32.98 3.96
2721 7393 5.161358 GCAGTGCTACGACTATAATGCATA 58.839 41.667 8.18 0.00 32.98 3.14
2722 7394 5.807520 GCAGTGCTACGACTATAATGCATAT 59.192 40.000 8.18 0.00 32.98 1.78
2723 7395 6.972901 GCAGTGCTACGACTATAATGCATATA 59.027 38.462 8.18 0.00 32.98 0.86
2724 7396 7.649705 GCAGTGCTACGACTATAATGCATATAT 59.350 37.037 8.18 3.28 32.98 0.86
2752 7424 9.567848 AATGTAGCAAACAAATAATTAAGGTCG 57.432 29.630 0.00 0.00 42.70 4.79
2753 7425 8.101654 TGTAGCAAACAAATAATTAAGGTCGT 57.898 30.769 0.00 0.00 34.29 4.34
2754 7426 8.231837 TGTAGCAAACAAATAATTAAGGTCGTC 58.768 33.333 0.00 0.00 34.29 4.20
2755 7427 7.448748 AGCAAACAAATAATTAAGGTCGTCT 57.551 32.000 0.00 0.00 0.00 4.18
2756 7428 7.882179 AGCAAACAAATAATTAAGGTCGTCTT 58.118 30.769 0.00 0.27 39.40 3.01
2757 7429 8.021396 AGCAAACAAATAATTAAGGTCGTCTTC 58.979 33.333 0.00 0.00 36.93 2.87
2758 7430 7.806014 GCAAACAAATAATTAAGGTCGTCTTCA 59.194 33.333 0.00 0.00 36.93 3.02
2759 7431 9.672086 CAAACAAATAATTAAGGTCGTCTTCAA 57.328 29.630 0.00 0.00 36.93 2.69
2760 7432 9.893305 AAACAAATAATTAAGGTCGTCTTCAAG 57.107 29.630 0.00 0.00 36.93 3.02
2761 7433 8.040716 ACAAATAATTAAGGTCGTCTTCAAGG 57.959 34.615 0.00 0.00 36.93 3.61
2762 7434 7.664318 ACAAATAATTAAGGTCGTCTTCAAGGT 59.336 33.333 0.00 0.00 36.93 3.50
2763 7435 8.512138 CAAATAATTAAGGTCGTCTTCAAGGTT 58.488 33.333 0.00 0.00 36.93 3.50
2764 7436 5.941948 AATTAAGGTCGTCTTCAAGGTTG 57.058 39.130 0.00 0.00 36.93 3.77
2765 7437 4.675976 TTAAGGTCGTCTTCAAGGTTGA 57.324 40.909 0.00 0.00 36.93 3.18
2766 7438 3.771577 AAGGTCGTCTTCAAGGTTGAT 57.228 42.857 0.00 0.00 37.00 2.57
2767 7439 3.045601 AGGTCGTCTTCAAGGTTGATG 57.954 47.619 0.00 0.00 37.00 3.07
2768 7440 1.464997 GGTCGTCTTCAAGGTTGATGC 59.535 52.381 0.00 0.00 37.00 3.91
2769 7441 2.417719 GTCGTCTTCAAGGTTGATGCT 58.582 47.619 0.00 0.00 37.00 3.79
2770 7442 2.413453 GTCGTCTTCAAGGTTGATGCTC 59.587 50.000 0.00 0.00 37.00 4.26
2771 7443 2.037121 TCGTCTTCAAGGTTGATGCTCA 59.963 45.455 0.00 0.00 37.00 4.26
2772 7444 3.005554 CGTCTTCAAGGTTGATGCTCAT 58.994 45.455 0.00 0.00 37.00 2.90
2773 7445 3.438087 CGTCTTCAAGGTTGATGCTCATT 59.562 43.478 0.00 0.00 37.00 2.57
2774 7446 4.436584 CGTCTTCAAGGTTGATGCTCATTC 60.437 45.833 0.00 0.00 37.00 2.67
2775 7447 4.012374 TCTTCAAGGTTGATGCTCATTCC 58.988 43.478 0.00 0.00 37.00 3.01
2776 7448 3.726557 TCAAGGTTGATGCTCATTCCT 57.273 42.857 0.00 0.00 34.30 3.36
2777 7449 3.614092 TCAAGGTTGATGCTCATTCCTC 58.386 45.455 9.18 0.00 32.64 3.71
2778 7450 2.686915 CAAGGTTGATGCTCATTCCTCC 59.313 50.000 9.18 0.00 32.64 4.30
2779 7451 1.213926 AGGTTGATGCTCATTCCTCCC 59.786 52.381 0.00 0.00 29.51 4.30
2780 7452 1.303309 GTTGATGCTCATTCCTCCCG 58.697 55.000 0.00 0.00 0.00 5.14
2781 7453 0.464373 TTGATGCTCATTCCTCCCGC 60.464 55.000 0.00 0.00 0.00 6.13
2782 7454 1.146930 GATGCTCATTCCTCCCGCA 59.853 57.895 0.00 0.00 34.83 5.69
2783 7455 0.250640 GATGCTCATTCCTCCCGCAT 60.251 55.000 0.00 0.00 43.33 4.73
2784 7456 1.002430 GATGCTCATTCCTCCCGCATA 59.998 52.381 0.00 0.00 40.99 3.14
2785 7457 0.106708 TGCTCATTCCTCCCGCATAC 59.893 55.000 0.00 0.00 0.00 2.39
2786 7458 0.946221 GCTCATTCCTCCCGCATACG 60.946 60.000 0.00 0.00 39.67 3.06
2787 7459 0.389391 CTCATTCCTCCCGCATACGT 59.611 55.000 0.00 0.00 37.70 3.57
2788 7460 0.387929 TCATTCCTCCCGCATACGTC 59.612 55.000 0.00 0.00 37.70 4.34
2789 7461 0.600255 CATTCCTCCCGCATACGTCC 60.600 60.000 0.00 0.00 37.70 4.79
2790 7462 2.083835 ATTCCTCCCGCATACGTCCG 62.084 60.000 0.00 0.00 37.70 4.79
2791 7463 4.280494 CCTCCCGCATACGTCCGG 62.280 72.222 13.40 13.40 43.97 5.14
2797 7469 4.807039 GCATACGTCCGGGCGTGT 62.807 66.667 42.07 34.42 45.33 4.49
2798 7470 2.125832 CATACGTCCGGGCGTGTT 60.126 61.111 42.07 26.93 45.33 3.32
2799 7471 2.162754 CATACGTCCGGGCGTGTTC 61.163 63.158 42.07 4.24 45.33 3.18
2800 7472 3.688475 ATACGTCCGGGCGTGTTCG 62.688 63.158 42.07 17.31 45.33 3.95
2806 7478 3.932289 CGGGCGTGTTCGGATATC 58.068 61.111 0.00 0.00 37.56 1.63
2807 7479 1.066752 CGGGCGTGTTCGGATATCA 59.933 57.895 4.83 0.00 37.56 2.15
2808 7480 0.528901 CGGGCGTGTTCGGATATCAA 60.529 55.000 4.83 0.00 37.56 2.57
2809 7481 1.658994 GGGCGTGTTCGGATATCAAA 58.341 50.000 4.83 0.00 37.56 2.69
2810 7482 1.329599 GGGCGTGTTCGGATATCAAAC 59.670 52.381 4.83 8.86 37.56 2.93
2811 7483 2.004017 GGCGTGTTCGGATATCAAACA 58.996 47.619 15.25 15.25 37.56 2.83
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
120 121 4.451435 ACGCTAGCTTTACCTCTGTTTTTC 59.549 41.667 13.93 0.00 0.00 2.29
124 125 2.353803 CCACGCTAGCTTTACCTCTGTT 60.354 50.000 13.93 0.00 0.00 3.16
125 126 1.204941 CCACGCTAGCTTTACCTCTGT 59.795 52.381 13.93 0.00 0.00 3.41
126 127 1.476891 TCCACGCTAGCTTTACCTCTG 59.523 52.381 13.93 0.00 0.00 3.35
127 128 1.751924 CTCCACGCTAGCTTTACCTCT 59.248 52.381 13.93 0.00 0.00 3.69
128 129 1.749634 TCTCCACGCTAGCTTTACCTC 59.250 52.381 13.93 0.00 0.00 3.85
129 130 1.751924 CTCTCCACGCTAGCTTTACCT 59.248 52.381 13.93 0.00 0.00 3.08
130 131 1.202428 CCTCTCCACGCTAGCTTTACC 60.202 57.143 13.93 0.00 0.00 2.85
131 132 1.749634 TCCTCTCCACGCTAGCTTTAC 59.250 52.381 13.93 0.00 0.00 2.01
132 133 2.139323 TCCTCTCCACGCTAGCTTTA 57.861 50.000 13.93 0.00 0.00 1.85
137 155 2.939103 CCATTTTTCCTCTCCACGCTAG 59.061 50.000 0.00 0.00 0.00 3.42
156 174 1.887854 CTCAATGCATGTGTTGTCCCA 59.112 47.619 0.00 0.00 0.00 4.37
165 197 4.256920 GTTAGGTCAGTCTCAATGCATGT 58.743 43.478 0.00 0.00 0.00 3.21
172 204 3.504906 CCTACACGTTAGGTCAGTCTCAA 59.495 47.826 12.84 0.00 0.00 3.02
182 214 3.425359 CGTCACTACACCTACACGTTAGG 60.425 52.174 17.17 17.17 40.49 2.69
183 215 3.425359 CCGTCACTACACCTACACGTTAG 60.425 52.174 0.00 0.00 0.00 2.34
184 216 2.483877 CCGTCACTACACCTACACGTTA 59.516 50.000 0.00 0.00 0.00 3.18
185 217 1.267806 CCGTCACTACACCTACACGTT 59.732 52.381 0.00 0.00 0.00 3.99
186 218 0.877071 CCGTCACTACACCTACACGT 59.123 55.000 0.00 0.00 0.00 4.49
187 219 0.877071 ACCGTCACTACACCTACACG 59.123 55.000 0.00 0.00 0.00 4.49
189 221 0.599558 GCACCGTCACTACACCTACA 59.400 55.000 0.00 0.00 0.00 2.74
190 222 0.108945 GGCACCGTCACTACACCTAC 60.109 60.000 0.00 0.00 0.00 3.18
192 224 1.119574 AAGGCACCGTCACTACACCT 61.120 55.000 0.00 0.00 0.00 4.00
234 283 4.383226 GGGCCGAGAAGAAGAAGTAAAGAT 60.383 45.833 0.00 0.00 0.00 2.40
330 454 1.916000 GAGTATGTACACCGCACGTTC 59.084 52.381 0.00 0.00 0.00 3.95
372 506 0.108585 AGTCGGGAAAGCTTTGAGCA 59.891 50.000 18.30 0.00 45.56 4.26
386 520 4.557301 GTGTGTTCAAACTTCAAAAGTCGG 59.443 41.667 0.00 0.00 41.91 4.79
391 525 7.081349 CAGTGTAGTGTGTTCAAACTTCAAAA 58.919 34.615 0.78 0.00 0.00 2.44
432 572 9.765795 CCGAATTACTATCACTTTCTAAGGATT 57.234 33.333 0.00 0.00 0.00 3.01
433 573 8.925338 ACCGAATTACTATCACTTTCTAAGGAT 58.075 33.333 0.00 0.00 0.00 3.24
435 575 8.818057 CAACCGAATTACTATCACTTTCTAAGG 58.182 37.037 0.00 0.00 0.00 2.69
436 576 8.328864 GCAACCGAATTACTATCACTTTCTAAG 58.671 37.037 0.00 0.00 0.00 2.18
449 626 1.231221 TGCAACGCAACCGAATTACT 58.769 45.000 0.00 0.00 34.76 2.24
451 628 1.730772 GCATGCAACGCAACCGAATTA 60.731 47.619 14.21 0.00 43.62 1.40
609 3281 1.347062 TCTAGTCACCCACACATGCA 58.653 50.000 0.00 0.00 0.00 3.96
648 3321 2.031870 AGGGTCCACTGCAAAACTTTC 58.968 47.619 0.00 0.00 0.00 2.62
687 4448 1.237458 GGAGCTGGACCCCTCCTAT 59.763 63.158 17.11 0.00 43.42 2.57
917 5026 0.671781 CTGAGTTTCCGGCCTCTGTG 60.672 60.000 0.00 0.00 0.00 3.66
1005 5411 1.376424 ATGCTCGTGTCCTGCCTTG 60.376 57.895 0.00 0.00 0.00 3.61
1092 5519 1.831624 CGCGCTCGTCGAATACTTC 59.168 57.895 5.56 0.00 41.67 3.01
1186 5648 1.272760 ACGGACTGGAGAAGGACTGAT 60.273 52.381 0.00 0.00 0.00 2.90
1241 5794 5.924356 TCAGTGTCTAATTCACAACCAGAA 58.076 37.500 0.00 0.00 38.16 3.02
1273 5832 3.435275 AGACTCACTGCAGAAGGACATA 58.565 45.455 23.35 0.00 0.00 2.29
1406 5973 1.209019 GAGGCATTCAGGAGCTTCTCA 59.791 52.381 0.00 0.00 34.44 3.27
1521 6094 4.966787 GCCCTTGGGCGTGGTCAA 62.967 66.667 15.52 0.00 0.00 3.18
1598 6171 2.989253 TGCTGGTTCTCGCTCGGA 60.989 61.111 0.00 0.00 0.00 4.55
1733 6306 1.930656 CACCTTCATCCCACCCCCT 60.931 63.158 0.00 0.00 0.00 4.79
1799 6378 3.869473 TAGCTTTCACGCCGCGGTT 62.869 57.895 28.70 11.78 0.00 4.44
1865 6463 1.164411 GTGTCCCAAATCACGATGCA 58.836 50.000 0.00 0.00 0.00 3.96
1882 6481 4.803426 GCTGAGGCCGACGAGGTG 62.803 72.222 0.00 0.00 43.70 4.00
1985 6585 2.425592 CCACCAGCTCGACAACCA 59.574 61.111 0.00 0.00 0.00 3.67
2028 6630 3.781307 TCGTTCCCCTCGGCCATG 61.781 66.667 2.24 0.00 0.00 3.66
2032 6634 4.060038 TTCGTCGTTCCCCTCGGC 62.060 66.667 0.00 0.00 0.00 5.54
2033 6635 2.126189 GTTCGTCGTTCCCCTCGG 60.126 66.667 0.00 0.00 0.00 4.63
2034 6636 2.126189 GGTTCGTCGTTCCCCTCG 60.126 66.667 0.00 0.00 0.00 4.63
2109 6719 1.841556 CATTAGAGGGCCCCCGCTA 60.842 63.158 21.43 15.40 44.34 4.26
2132 6742 5.235186 CCTCAAATCTATGACGTCCATTGAC 59.765 44.000 14.12 0.00 39.23 3.18
2140 6750 1.202533 CGGCCCTCAAATCTATGACGT 60.203 52.381 0.00 0.00 0.00 4.34
2147 6760 3.391665 CTCCGCGGCCCTCAAATCT 62.392 63.158 23.51 0.00 0.00 2.40
2195 6845 6.688637 TTTCCTTGAGCATTATCATCACTG 57.311 37.500 0.00 0.00 0.00 3.66
2240 6890 4.685628 CCATTCCAATTTGTTTCCGAACAG 59.314 41.667 0.00 0.00 45.80 3.16
2241 6891 4.342378 TCCATTCCAATTTGTTTCCGAACA 59.658 37.500 0.00 0.00 43.73 3.18
2252 6902 7.123247 CCTTAGAGTGTCATTCCATTCCAATTT 59.877 37.037 0.00 0.00 0.00 1.82
2255 6905 5.014123 ACCTTAGAGTGTCATTCCATTCCAA 59.986 40.000 0.00 0.00 0.00 3.53
2272 6922 1.000060 CAACGGAACCGACACCTTAGA 60.000 52.381 20.14 0.00 42.83 2.10
2305 6956 9.933723 CTCAAAATCATTTAATTCCATATCCCC 57.066 33.333 0.00 0.00 0.00 4.81
2324 6975 9.972106 AATTCTCTCCACTCTATTTCTCAAAAT 57.028 29.630 0.00 0.00 38.61 1.82
2331 7002 9.877178 TGAACTAAATTCTCTCCACTCTATTTC 57.123 33.333 0.00 0.00 38.25 2.17
2334 7005 9.041354 AGTTGAACTAAATTCTCTCCACTCTAT 57.959 33.333 0.00 0.00 38.25 1.98
2339 7010 6.147985 GGTGAGTTGAACTAAATTCTCTCCAC 59.852 42.308 0.00 0.00 37.76 4.02
2342 7013 7.382898 AGAGGTGAGTTGAACTAAATTCTCTC 58.617 38.462 0.00 0.00 38.25 3.20
2344 7015 7.442666 ACAAGAGGTGAGTTGAACTAAATTCTC 59.557 37.037 0.00 0.00 38.25 2.87
2345 7016 7.283329 ACAAGAGGTGAGTTGAACTAAATTCT 58.717 34.615 0.00 0.00 38.25 2.40
2463 7134 7.042335 AGTATAATCAAGGTCAACACTACTGC 58.958 38.462 0.00 0.00 0.00 4.40
2468 7139 7.936847 TGTCAAAGTATAATCAAGGTCAACACT 59.063 33.333 0.00 0.00 0.00 3.55
2470 7141 8.862325 ATGTCAAAGTATAATCAAGGTCAACA 57.138 30.769 0.00 0.00 0.00 3.33
2479 7150 8.190122 GCCATGTTTGATGTCAAAGTATAATCA 58.810 33.333 8.34 2.57 45.36 2.57
2480 7151 8.190122 TGCCATGTTTGATGTCAAAGTATAATC 58.810 33.333 8.34 0.00 45.36 1.75
2481 7152 8.065473 TGCCATGTTTGATGTCAAAGTATAAT 57.935 30.769 8.34 0.00 45.36 1.28
2482 7153 7.459795 TGCCATGTTTGATGTCAAAGTATAA 57.540 32.000 8.34 0.00 45.36 0.98
2483 7154 7.643569 ATGCCATGTTTGATGTCAAAGTATA 57.356 32.000 8.34 0.00 45.36 1.47
2484 7155 5.981088 TGCCATGTTTGATGTCAAAGTAT 57.019 34.783 8.34 4.40 45.36 2.12
2485 7156 5.981088 ATGCCATGTTTGATGTCAAAGTA 57.019 34.783 8.34 2.37 45.36 2.24
2486 7157 4.877378 ATGCCATGTTTGATGTCAAAGT 57.123 36.364 8.34 0.00 45.36 2.66
2487 7158 5.957798 AGTATGCCATGTTTGATGTCAAAG 58.042 37.500 8.34 0.00 45.36 2.77
2488 7159 5.981088 AGTATGCCATGTTTGATGTCAAA 57.019 34.783 4.16 4.16 42.90 2.69
2489 7160 5.981088 AAGTATGCCATGTTTGATGTCAA 57.019 34.783 0.00 0.00 0.00 3.18
2490 7161 5.981088 AAAGTATGCCATGTTTGATGTCA 57.019 34.783 0.00 0.00 0.00 3.58
2491 7162 6.389091 TGAAAAGTATGCCATGTTTGATGTC 58.611 36.000 0.00 0.00 0.00 3.06
2492 7163 6.343716 TGAAAAGTATGCCATGTTTGATGT 57.656 33.333 0.00 0.00 0.00 3.06
2493 7164 7.253850 CGATTGAAAAGTATGCCATGTTTGATG 60.254 37.037 0.00 0.00 0.00 3.07
2494 7165 6.753279 CGATTGAAAAGTATGCCATGTTTGAT 59.247 34.615 0.00 0.00 0.00 2.57
2495 7166 6.072230 TCGATTGAAAAGTATGCCATGTTTGA 60.072 34.615 0.00 0.00 0.00 2.69
2496 7167 6.092092 TCGATTGAAAAGTATGCCATGTTTG 58.908 36.000 0.00 0.00 0.00 2.93
2497 7168 6.266168 TCGATTGAAAAGTATGCCATGTTT 57.734 33.333 0.00 0.00 0.00 2.83
2498 7169 5.895636 TCGATTGAAAAGTATGCCATGTT 57.104 34.783 0.00 0.00 0.00 2.71
2499 7170 5.895636 TTCGATTGAAAAGTATGCCATGT 57.104 34.783 0.00 0.00 0.00 3.21
2500 7171 9.467258 AAATATTCGATTGAAAAGTATGCCATG 57.533 29.630 0.00 0.00 37.71 3.66
2502 7173 9.944663 GTAAATATTCGATTGAAAAGTATGCCA 57.055 29.630 0.00 0.00 37.71 4.92
2503 7174 9.944663 TGTAAATATTCGATTGAAAAGTATGCC 57.055 29.630 0.00 0.00 37.71 4.40
2606 7278 9.817809 CTATTTACTTGCTTCACCTATGAGTAA 57.182 33.333 0.00 0.00 35.83 2.24
2608 7280 7.766278 CACTATTTACTTGCTTCACCTATGAGT 59.234 37.037 0.00 0.00 35.83 3.41
2609 7281 7.254590 GCACTATTTACTTGCTTCACCTATGAG 60.255 40.741 0.00 0.00 35.83 2.90
2610 7282 6.538742 GCACTATTTACTTGCTTCACCTATGA 59.461 38.462 0.00 0.00 33.26 2.15
2611 7283 6.316140 TGCACTATTTACTTGCTTCACCTATG 59.684 38.462 0.00 0.00 37.16 2.23
2612 7284 6.414732 TGCACTATTTACTTGCTTCACCTAT 58.585 36.000 0.00 0.00 37.16 2.57
2613 7285 5.800296 TGCACTATTTACTTGCTTCACCTA 58.200 37.500 0.00 0.00 37.16 3.08
2614 7286 4.651778 TGCACTATTTACTTGCTTCACCT 58.348 39.130 0.00 0.00 37.16 4.00
2615 7287 5.371115 TTGCACTATTTACTTGCTTCACC 57.629 39.130 0.00 0.00 37.16 4.02
2648 7320 9.967451 TGAGGACCAATTTAATGTAAGTATTCA 57.033 29.630 0.00 0.00 0.00 2.57
2653 7325 9.747898 TTGTATGAGGACCAATTTAATGTAAGT 57.252 29.630 0.00 0.00 0.00 2.24
2657 7329 9.920946 AGTATTGTATGAGGACCAATTTAATGT 57.079 29.630 0.00 0.00 31.63 2.71
2665 7337 9.880157 GTTTTACTAGTATTGTATGAGGACCAA 57.120 33.333 2.79 0.00 0.00 3.67
2666 7338 8.192774 CGTTTTACTAGTATTGTATGAGGACCA 58.807 37.037 2.79 0.00 0.00 4.02
2667 7339 8.408601 TCGTTTTACTAGTATTGTATGAGGACC 58.591 37.037 2.79 0.00 0.00 4.46
2668 7340 9.230932 GTCGTTTTACTAGTATTGTATGAGGAC 57.769 37.037 2.79 3.49 0.00 3.85
2669 7341 8.408601 GGTCGTTTTACTAGTATTGTATGAGGA 58.591 37.037 2.79 0.00 0.00 3.71
2670 7342 7.377928 CGGTCGTTTTACTAGTATTGTATGAGG 59.622 40.741 2.79 0.00 0.00 3.86
2671 7343 7.912250 ACGGTCGTTTTACTAGTATTGTATGAG 59.088 37.037 2.79 0.00 0.00 2.90
2672 7344 7.697710 CACGGTCGTTTTACTAGTATTGTATGA 59.302 37.037 2.79 0.00 0.00 2.15
2673 7345 7.514125 GCACGGTCGTTTTACTAGTATTGTATG 60.514 40.741 2.79 0.00 0.00 2.39
2674 7346 6.473455 GCACGGTCGTTTTACTAGTATTGTAT 59.527 38.462 2.79 0.00 0.00 2.29
2675 7347 5.799936 GCACGGTCGTTTTACTAGTATTGTA 59.200 40.000 2.79 0.00 0.00 2.41
2676 7348 4.622740 GCACGGTCGTTTTACTAGTATTGT 59.377 41.667 2.79 0.00 0.00 2.71
2677 7349 4.622313 TGCACGGTCGTTTTACTAGTATTG 59.378 41.667 2.79 0.00 0.00 1.90
2678 7350 4.808558 TGCACGGTCGTTTTACTAGTATT 58.191 39.130 2.79 0.00 0.00 1.89
2679 7351 4.082571 ACTGCACGGTCGTTTTACTAGTAT 60.083 41.667 2.79 0.00 0.00 2.12
2680 7352 3.253188 ACTGCACGGTCGTTTTACTAGTA 59.747 43.478 0.00 0.00 0.00 1.82
2681 7353 2.035066 ACTGCACGGTCGTTTTACTAGT 59.965 45.455 0.00 0.00 0.00 2.57
2682 7354 2.407361 CACTGCACGGTCGTTTTACTAG 59.593 50.000 0.00 0.00 0.00 2.57
2683 7355 2.396601 CACTGCACGGTCGTTTTACTA 58.603 47.619 0.00 0.00 0.00 1.82
2684 7356 1.214367 CACTGCACGGTCGTTTTACT 58.786 50.000 0.00 0.00 0.00 2.24
2685 7357 0.383860 GCACTGCACGGTCGTTTTAC 60.384 55.000 0.00 0.00 0.00 2.01
2686 7358 0.531090 AGCACTGCACGGTCGTTTTA 60.531 50.000 3.30 0.00 0.00 1.52
2687 7359 0.531090 TAGCACTGCACGGTCGTTTT 60.531 50.000 3.30 0.00 0.00 2.43
2688 7360 1.068417 TAGCACTGCACGGTCGTTT 59.932 52.632 3.30 0.00 0.00 3.60
2689 7361 1.663702 GTAGCACTGCACGGTCGTT 60.664 57.895 3.30 0.00 0.00 3.85
2690 7362 2.049433 GTAGCACTGCACGGTCGT 60.049 61.111 3.30 0.00 0.00 4.34
2691 7363 3.172575 CGTAGCACTGCACGGTCG 61.173 66.667 14.47 4.36 32.64 4.79
2692 7364 2.087009 GTCGTAGCACTGCACGGTC 61.087 63.158 19.19 12.39 35.24 4.79
2693 7365 1.239296 TAGTCGTAGCACTGCACGGT 61.239 55.000 19.19 12.68 35.24 4.83
2694 7366 0.100682 ATAGTCGTAGCACTGCACGG 59.899 55.000 19.19 3.43 35.24 4.94
2695 7367 2.750301 TATAGTCGTAGCACTGCACG 57.250 50.000 15.56 15.56 35.60 5.34
2696 7368 3.182572 GCATTATAGTCGTAGCACTGCAC 59.817 47.826 3.30 0.00 0.00 4.57
2697 7369 3.181480 TGCATTATAGTCGTAGCACTGCA 60.181 43.478 3.30 0.00 0.00 4.41
2698 7370 3.381045 TGCATTATAGTCGTAGCACTGC 58.619 45.455 0.00 0.00 0.00 4.40
2726 7398 9.567848 CGACCTTAATTATTTGTTTGCTACATT 57.432 29.630 0.00 0.00 36.44 2.71
2727 7399 8.736244 ACGACCTTAATTATTTGTTTGCTACAT 58.264 29.630 0.00 0.00 36.44 2.29
2728 7400 8.101654 ACGACCTTAATTATTTGTTTGCTACA 57.898 30.769 0.00 0.00 34.12 2.74
2729 7401 8.448615 AGACGACCTTAATTATTTGTTTGCTAC 58.551 33.333 0.00 0.00 0.00 3.58
2730 7402 8.556213 AGACGACCTTAATTATTTGTTTGCTA 57.444 30.769 0.00 0.00 0.00 3.49
2731 7403 7.448748 AGACGACCTTAATTATTTGTTTGCT 57.551 32.000 0.00 0.00 0.00 3.91
2732 7404 7.806014 TGAAGACGACCTTAATTATTTGTTTGC 59.194 33.333 0.00 0.00 34.68 3.68
2733 7405 9.672086 TTGAAGACGACCTTAATTATTTGTTTG 57.328 29.630 0.00 0.00 34.68 2.93
2734 7406 9.893305 CTTGAAGACGACCTTAATTATTTGTTT 57.107 29.630 0.00 0.00 34.68 2.83
2735 7407 8.512138 CCTTGAAGACGACCTTAATTATTTGTT 58.488 33.333 0.00 0.00 34.68 2.83
2736 7408 7.664318 ACCTTGAAGACGACCTTAATTATTTGT 59.336 33.333 0.00 0.00 34.68 2.83
2737 7409 8.040716 ACCTTGAAGACGACCTTAATTATTTG 57.959 34.615 0.00 0.00 34.68 2.32
2738 7410 8.512138 CAACCTTGAAGACGACCTTAATTATTT 58.488 33.333 0.00 0.00 34.68 1.40
2739 7411 7.881232 TCAACCTTGAAGACGACCTTAATTATT 59.119 33.333 0.00 0.00 34.68 1.40
2740 7412 7.391620 TCAACCTTGAAGACGACCTTAATTAT 58.608 34.615 0.00 0.00 34.68 1.28
2741 7413 6.761312 TCAACCTTGAAGACGACCTTAATTA 58.239 36.000 0.00 0.00 34.68 1.40
2742 7414 5.617252 TCAACCTTGAAGACGACCTTAATT 58.383 37.500 0.00 0.00 34.68 1.40
2743 7415 5.223449 TCAACCTTGAAGACGACCTTAAT 57.777 39.130 0.00 0.00 34.68 1.40
2744 7416 4.675976 TCAACCTTGAAGACGACCTTAA 57.324 40.909 0.00 0.00 34.68 1.85
2745 7417 4.566004 CATCAACCTTGAAGACGACCTTA 58.434 43.478 0.00 0.00 41.13 2.69
2746 7418 3.403038 CATCAACCTTGAAGACGACCTT 58.597 45.455 0.00 0.00 41.13 3.50
2747 7419 2.872038 GCATCAACCTTGAAGACGACCT 60.872 50.000 0.00 0.00 41.13 3.85
2748 7420 1.464997 GCATCAACCTTGAAGACGACC 59.535 52.381 0.00 0.00 41.13 4.79
2749 7421 2.413453 GAGCATCAACCTTGAAGACGAC 59.587 50.000 0.00 0.00 41.13 4.34
2750 7422 2.037121 TGAGCATCAACCTTGAAGACGA 59.963 45.455 0.00 0.00 45.97 4.20
2751 7423 2.416747 TGAGCATCAACCTTGAAGACG 58.583 47.619 0.00 0.00 45.97 4.18
2764 7436 0.250640 ATGCGGGAGGAATGAGCATC 60.251 55.000 0.00 0.00 44.10 3.91
2765 7437 1.842007 ATGCGGGAGGAATGAGCAT 59.158 52.632 0.00 0.00 42.85 3.79
2766 7438 0.106708 GTATGCGGGAGGAATGAGCA 59.893 55.000 0.00 0.00 42.28 4.26
2767 7439 0.946221 CGTATGCGGGAGGAATGAGC 60.946 60.000 0.00 0.00 0.00 4.26
2768 7440 0.389391 ACGTATGCGGGAGGAATGAG 59.611 55.000 8.39 0.00 43.45 2.90
2769 7441 0.387929 GACGTATGCGGGAGGAATGA 59.612 55.000 8.39 0.00 43.45 2.57
2770 7442 0.600255 GGACGTATGCGGGAGGAATG 60.600 60.000 8.39 0.00 43.45 2.67
2771 7443 1.746517 GGACGTATGCGGGAGGAAT 59.253 57.895 8.39 0.00 43.45 3.01
2772 7444 2.777972 CGGACGTATGCGGGAGGAA 61.778 63.158 8.39 0.00 43.45 3.36
2773 7445 3.214123 CGGACGTATGCGGGAGGA 61.214 66.667 8.39 0.00 43.45 3.71
2780 7452 4.807039 ACACGCCCGGACGTATGC 62.807 66.667 17.56 0.89 46.34 3.14
2781 7453 2.125832 AACACGCCCGGACGTATG 60.126 61.111 17.56 7.44 46.34 2.39
2782 7454 2.182537 GAACACGCCCGGACGTAT 59.817 61.111 17.56 0.00 46.34 3.06
2783 7455 4.403137 CGAACACGCCCGGACGTA 62.403 66.667 17.56 0.00 46.34 3.57
2788 7460 1.663702 GATATCCGAACACGCCCGG 60.664 63.158 0.00 0.00 46.57 5.73
2789 7461 0.528901 TTGATATCCGAACACGCCCG 60.529 55.000 0.00 0.00 0.00 6.13
2790 7462 1.329599 GTTTGATATCCGAACACGCCC 59.670 52.381 11.94 0.00 38.70 6.13
2791 7463 2.004017 TGTTTGATATCCGAACACGCC 58.996 47.619 14.38 0.00 42.63 5.68


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

AutoCloner maintained by Alex Coulton.