Multiple sequence alignment - TraesCS1A01G119400

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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 TraesCS1A01G119400 chr1A 100.000 2916 0 0 1 2916 130348782 130351697 0.000000e+00 5385.0
1 TraesCS1A01G119400 chr1A 95.652 184 7 1 291 473 151542927 151543110 7.900000e-76 294.0
2 TraesCS1A01G119400 chr1D 96.875 1568 33 7 477 2036 118803682 118805241 0.000000e+00 2610.0
3 TraesCS1A01G119400 chr1D 87.950 722 65 12 2204 2916 118805508 118806216 0.000000e+00 832.0
4 TraesCS1A01G119400 chr1D 96.296 189 5 1 102 290 118803495 118803681 2.820000e-80 309.0
5 TraesCS1A01G119400 chr1D 95.000 40 2 0 54 93 118803005 118803044 2.430000e-06 63.9
6 TraesCS1A01G119400 chr1B 95.977 1566 52 4 474 2035 180532120 180533678 0.000000e+00 2532.0
7 TraesCS1A01G119400 chr1B 84.359 601 49 13 2350 2916 180533767 180534356 5.490000e-152 547.0
8 TraesCS1A01G119400 chr1B 95.572 271 11 1 24 293 180531858 180532128 1.610000e-117 433.0
9 TraesCS1A01G119400 chr1B 80.695 259 41 7 2099 2353 641211345 641211092 2.970000e-45 193.0
10 TraesCS1A01G119400 chrUn 94.819 193 7 3 283 474 330934122 330934312 6.110000e-77 298.0
11 TraesCS1A01G119400 chr5A 92.453 212 10 4 265 474 709468105 709467898 6.110000e-77 298.0
12 TraesCS1A01G119400 chr5A 95.628 183 7 1 293 474 534843765 534843583 2.840000e-75 292.0
13 TraesCS1A01G119400 chr3B 96.175 183 6 1 292 473 677993732 677993914 6.110000e-77 298.0
14 TraesCS1A01G119400 chr3B 94.359 195 8 3 290 482 25477079 25476886 2.200000e-76 296.0
15 TraesCS1A01G119400 chr3B 83.721 258 35 4 2099 2352 520760267 520760521 1.350000e-58 237.0
16 TraesCS1A01G119400 chr5B 96.111 180 7 0 294 473 505216824 505216645 7.900000e-76 294.0
17 TraesCS1A01G119400 chr5B 96.875 32 1 0 2469 2500 684091655 684091686 1.000000e-03 54.7
18 TraesCS1A01G119400 chr2A 96.133 181 6 1 294 473 356519094 356519274 7.900000e-76 294.0
19 TraesCS1A01G119400 chr2A 81.008 258 42 4 2099 2352 13833535 13833281 6.370000e-47 198.0
20 TraesCS1A01G119400 chr7A 95.580 181 7 1 294 473 670503327 670503507 3.680000e-74 289.0
21 TraesCS1A01G119400 chr3D 82.375 261 36 7 2100 2353 445790984 445790727 4.890000e-53 219.0
22 TraesCS1A01G119400 chr3D 81.277 235 33 7 2099 2325 67181790 67182021 2.310000e-41 180.0
23 TraesCS1A01G119400 chr2D 81.008 258 41 7 2099 2352 79832889 79833142 6.370000e-47 198.0
24 TraesCS1A01G119400 chr2D 80.579 242 39 5 2119 2352 260593902 260593661 2.310000e-41 180.0
25 TraesCS1A01G119400 chr4A 79.856 278 46 7 2081 2352 246002175 246002448 8.250000e-46 195.0
26 TraesCS1A01G119400 chr6A 77.143 105 20 3 2762 2862 457097442 457097546 1.130000e-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 TraesCS1A01G119400 chr1A 130348782 130351697 2915 False 5385.000000 5385 100.000000 1 2916 1 chr1A.!!$F1 2915
1 TraesCS1A01G119400 chr1D 118803005 118806216 3211 False 953.725000 2610 94.030250 54 2916 4 chr1D.!!$F1 2862
2 TraesCS1A01G119400 chr1B 180531858 180534356 2498 False 1170.666667 2532 91.969333 24 2916 3 chr1B.!!$F1 2892

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
328 772 0.108945 ACGAAAGGTGCTACGTAGGC 60.109 55.0 23.47 15.7 37.22 3.93 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1939 2394 1.066716 CACATTCAACAAGGCCATGGG 60.067 52.381 15.13 4.22 0.0 4.0 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
59 60 4.100653 GGGACTACGAAGGGTAATAAAGCT 59.899 45.833 0.00 0.00 0.00 3.74
63 64 6.944096 ACTACGAAGGGTAATAAAGCTTTCT 58.056 36.000 16.57 2.47 38.99 2.52
164 608 6.183359 CGTTGAAACATTCGTCGAGAGATTTA 60.183 38.462 0.00 0.00 45.19 1.40
165 609 7.507304 GTTGAAACATTCGTCGAGAGATTTAA 58.493 34.615 0.00 0.00 45.19 1.52
189 633 3.756933 TGGGCCGGTGAGTATTAATAC 57.243 47.619 16.44 16.44 0.00 1.89
284 728 3.731652 TCCTTTGTTTCCATGCAAGTG 57.268 42.857 0.00 0.00 0.00 3.16
285 729 3.295093 TCCTTTGTTTCCATGCAAGTGA 58.705 40.909 0.00 0.00 0.00 3.41
286 730 3.068024 TCCTTTGTTTCCATGCAAGTGAC 59.932 43.478 0.00 0.00 0.00 3.67
287 731 3.181477 CCTTTGTTTCCATGCAAGTGACA 60.181 43.478 0.00 0.00 0.00 3.58
288 732 4.501915 CCTTTGTTTCCATGCAAGTGACAT 60.502 41.667 0.00 0.00 0.00 3.06
289 733 5.278907 CCTTTGTTTCCATGCAAGTGACATA 60.279 40.000 0.00 0.00 0.00 2.29
290 734 4.764679 TGTTTCCATGCAAGTGACATAC 57.235 40.909 0.00 0.00 0.00 2.39
291 735 4.140536 TGTTTCCATGCAAGTGACATACA 58.859 39.130 0.00 0.00 0.00 2.29
292 736 4.766373 TGTTTCCATGCAAGTGACATACAT 59.234 37.500 0.00 0.00 0.00 2.29
293 737 5.106197 TGTTTCCATGCAAGTGACATACATC 60.106 40.000 0.00 0.00 0.00 3.06
294 738 4.219264 TCCATGCAAGTGACATACATCA 57.781 40.909 0.00 0.00 0.00 3.07
295 739 4.587891 TCCATGCAAGTGACATACATCAA 58.412 39.130 0.00 0.00 0.00 2.57
296 740 5.195185 TCCATGCAAGTGACATACATCAAT 58.805 37.500 0.00 0.00 0.00 2.57
297 741 6.355747 TCCATGCAAGTGACATACATCAATA 58.644 36.000 0.00 0.00 0.00 1.90
298 742 6.827762 TCCATGCAAGTGACATACATCAATAA 59.172 34.615 0.00 0.00 0.00 1.40
299 743 7.503230 TCCATGCAAGTGACATACATCAATAAT 59.497 33.333 0.00 0.00 0.00 1.28
300 744 8.785946 CCATGCAAGTGACATACATCAATAATA 58.214 33.333 0.00 0.00 0.00 0.98
301 745 9.603298 CATGCAAGTGACATACATCAATAATAC 57.397 33.333 0.00 0.00 0.00 1.89
302 746 8.962884 TGCAAGTGACATACATCAATAATACT 57.037 30.769 0.00 0.00 0.00 2.12
327 771 1.990563 CAACGAAAGGTGCTACGTAGG 59.009 52.381 23.47 7.14 44.78 3.18
328 772 0.108945 ACGAAAGGTGCTACGTAGGC 60.109 55.000 23.47 15.70 37.22 3.93
329 773 0.804933 CGAAAGGTGCTACGTAGGCC 60.805 60.000 23.47 8.84 0.00 5.19
330 774 0.535797 GAAAGGTGCTACGTAGGCCT 59.464 55.000 23.47 11.78 0.00 5.19
331 775 1.753073 GAAAGGTGCTACGTAGGCCTA 59.247 52.381 23.47 8.91 0.00 3.93
332 776 1.109609 AAGGTGCTACGTAGGCCTAC 58.890 55.000 29.96 29.96 0.00 3.18
333 777 0.258194 AGGTGCTACGTAGGCCTACT 59.742 55.000 34.38 24.63 34.04 2.57
334 778 1.109609 GGTGCTACGTAGGCCTACTT 58.890 55.000 34.38 29.26 34.04 2.24
335 779 2.092212 AGGTGCTACGTAGGCCTACTTA 60.092 50.000 34.38 28.85 34.04 2.24
336 780 2.689983 GGTGCTACGTAGGCCTACTTAA 59.310 50.000 34.38 20.76 34.04 1.85
337 781 3.489908 GGTGCTACGTAGGCCTACTTAAC 60.490 52.174 34.38 26.00 34.04 2.01
338 782 2.689983 TGCTACGTAGGCCTACTTAACC 59.310 50.000 34.38 23.39 34.04 2.85
339 783 2.954989 GCTACGTAGGCCTACTTAACCT 59.045 50.000 34.38 15.45 37.61 3.50
340 784 3.382865 GCTACGTAGGCCTACTTAACCTT 59.617 47.826 34.38 15.42 34.92 3.50
341 785 4.498850 GCTACGTAGGCCTACTTAACCTTC 60.499 50.000 34.38 15.35 34.92 3.46
342 786 2.762887 ACGTAGGCCTACTTAACCTTCC 59.237 50.000 34.38 10.07 34.92 3.46
343 787 2.762327 CGTAGGCCTACTTAACCTTCCA 59.238 50.000 34.38 0.00 34.92 3.53
344 788 3.387050 CGTAGGCCTACTTAACCTTCCAT 59.613 47.826 34.38 0.00 34.92 3.41
345 789 4.586001 CGTAGGCCTACTTAACCTTCCATA 59.414 45.833 34.38 0.00 34.92 2.74
346 790 5.069516 CGTAGGCCTACTTAACCTTCCATAA 59.930 44.000 34.38 0.00 34.92 1.90
347 791 6.407299 CGTAGGCCTACTTAACCTTCCATAAA 60.407 42.308 34.38 0.00 34.92 1.40
348 792 6.397217 AGGCCTACTTAACCTTCCATAAAA 57.603 37.500 1.29 0.00 0.00 1.52
349 793 6.981737 AGGCCTACTTAACCTTCCATAAAAT 58.018 36.000 1.29 0.00 0.00 1.82
350 794 7.419203 AGGCCTACTTAACCTTCCATAAAATT 58.581 34.615 1.29 0.00 0.00 1.82
351 795 7.560262 AGGCCTACTTAACCTTCCATAAAATTC 59.440 37.037 1.29 0.00 0.00 2.17
352 796 7.201884 GGCCTACTTAACCTTCCATAAAATTCC 60.202 40.741 0.00 0.00 0.00 3.01
353 797 7.201884 GCCTACTTAACCTTCCATAAAATTCCC 60.202 40.741 0.00 0.00 0.00 3.97
354 798 8.059461 CCTACTTAACCTTCCATAAAATTCCCT 58.941 37.037 0.00 0.00 0.00 4.20
355 799 9.475620 CTACTTAACCTTCCATAAAATTCCCTT 57.524 33.333 0.00 0.00 0.00 3.95
356 800 8.362464 ACTTAACCTTCCATAAAATTCCCTTC 57.638 34.615 0.00 0.00 0.00 3.46
357 801 8.177456 ACTTAACCTTCCATAAAATTCCCTTCT 58.823 33.333 0.00 0.00 0.00 2.85
358 802 8.589701 TTAACCTTCCATAAAATTCCCTTCTC 57.410 34.615 0.00 0.00 0.00 2.87
359 803 6.408770 ACCTTCCATAAAATTCCCTTCTCT 57.591 37.500 0.00 0.00 0.00 3.10
360 804 6.427441 ACCTTCCATAAAATTCCCTTCTCTC 58.573 40.000 0.00 0.00 0.00 3.20
361 805 5.830457 CCTTCCATAAAATTCCCTTCTCTCC 59.170 44.000 0.00 0.00 0.00 3.71
362 806 5.388599 TCCATAAAATTCCCTTCTCTCCC 57.611 43.478 0.00 0.00 0.00 4.30
363 807 5.046522 TCCATAAAATTCCCTTCTCTCCCT 58.953 41.667 0.00 0.00 0.00 4.20
364 808 5.103940 TCCATAAAATTCCCTTCTCTCCCTG 60.104 44.000 0.00 0.00 0.00 4.45
365 809 5.103940 CCATAAAATTCCCTTCTCTCCCTGA 60.104 44.000 0.00 0.00 0.00 3.86
366 810 6.411320 CCATAAAATTCCCTTCTCTCCCTGAT 60.411 42.308 0.00 0.00 0.00 2.90
367 811 5.542848 AAAATTCCCTTCTCTCCCTGATT 57.457 39.130 0.00 0.00 0.00 2.57
368 812 5.542848 AAATTCCCTTCTCTCCCTGATTT 57.457 39.130 0.00 0.00 0.00 2.17
369 813 5.542848 AATTCCCTTCTCTCCCTGATTTT 57.457 39.130 0.00 0.00 0.00 1.82
370 814 6.658555 AATTCCCTTCTCTCCCTGATTTTA 57.341 37.500 0.00 0.00 0.00 1.52
371 815 6.658555 ATTCCCTTCTCTCCCTGATTTTAA 57.341 37.500 0.00 0.00 0.00 1.52
372 816 5.437191 TCCCTTCTCTCCCTGATTTTAAC 57.563 43.478 0.00 0.00 0.00 2.01
373 817 4.227527 TCCCTTCTCTCCCTGATTTTAACC 59.772 45.833 0.00 0.00 0.00 2.85
374 818 4.192317 CCTTCTCTCCCTGATTTTAACCG 58.808 47.826 0.00 0.00 0.00 4.44
375 819 3.906720 TCTCTCCCTGATTTTAACCGG 57.093 47.619 0.00 0.00 0.00 5.28
376 820 3.178865 TCTCTCCCTGATTTTAACCGGT 58.821 45.455 0.00 0.00 0.00 5.28
377 821 3.055385 TCTCTCCCTGATTTTAACCGGTG 60.055 47.826 8.52 0.00 0.00 4.94
378 822 2.640826 TCTCCCTGATTTTAACCGGTGT 59.359 45.455 8.52 0.36 0.00 4.16
379 823 2.747446 CTCCCTGATTTTAACCGGTGTG 59.253 50.000 8.52 0.00 0.00 3.82
380 824 1.816224 CCCTGATTTTAACCGGTGTGG 59.184 52.381 8.52 1.62 46.41 4.17
381 825 1.816224 CCTGATTTTAACCGGTGTGGG 59.184 52.381 8.52 0.00 44.64 4.61
382 826 1.201414 CTGATTTTAACCGGTGTGGGC 59.799 52.381 8.52 0.00 44.64 5.36
383 827 0.528924 GATTTTAACCGGTGTGGGCC 59.471 55.000 8.52 0.00 44.64 5.80
384 828 0.113580 ATTTTAACCGGTGTGGGCCT 59.886 50.000 8.52 0.00 44.64 5.19
385 829 0.537828 TTTTAACCGGTGTGGGCCTC 60.538 55.000 8.52 0.49 44.64 4.70
386 830 1.706995 TTTAACCGGTGTGGGCCTCA 61.707 55.000 8.52 4.10 44.64 3.86
387 831 2.119484 TTAACCGGTGTGGGCCTCAG 62.119 60.000 8.52 0.00 44.64 3.35
392 836 4.341783 GTGTGGGCCTCAGCTGCT 62.342 66.667 9.47 0.00 39.73 4.24
393 837 2.607442 TGTGGGCCTCAGCTGCTA 60.607 61.111 9.47 0.00 39.73 3.49
394 838 2.223443 TGTGGGCCTCAGCTGCTAA 61.223 57.895 9.47 0.00 39.73 3.09
395 839 1.225704 GTGGGCCTCAGCTGCTAAT 59.774 57.895 9.47 0.00 39.73 1.73
396 840 0.817229 GTGGGCCTCAGCTGCTAATC 60.817 60.000 9.47 0.00 39.73 1.75
397 841 1.228094 GGGCCTCAGCTGCTAATCC 60.228 63.158 9.47 5.36 39.73 3.01
398 842 1.704007 GGGCCTCAGCTGCTAATCCT 61.704 60.000 9.47 0.00 39.73 3.24
399 843 0.534652 GGCCTCAGCTGCTAATCCTG 60.535 60.000 9.47 0.00 39.73 3.86
400 844 0.467384 GCCTCAGCTGCTAATCCTGA 59.533 55.000 9.47 0.00 35.50 3.86
401 845 1.809651 GCCTCAGCTGCTAATCCTGAC 60.810 57.143 9.47 0.00 35.50 3.51
402 846 1.202627 CCTCAGCTGCTAATCCTGACC 60.203 57.143 9.47 0.00 32.61 4.02
403 847 0.833287 TCAGCTGCTAATCCTGACCC 59.167 55.000 9.47 0.00 31.16 4.46
404 848 0.543277 CAGCTGCTAATCCTGACCCA 59.457 55.000 0.00 0.00 0.00 4.51
405 849 1.065199 CAGCTGCTAATCCTGACCCAA 60.065 52.381 0.00 0.00 0.00 4.12
406 850 1.849039 AGCTGCTAATCCTGACCCAAT 59.151 47.619 0.00 0.00 0.00 3.16
407 851 2.243221 AGCTGCTAATCCTGACCCAATT 59.757 45.455 0.00 0.00 0.00 2.32
408 852 3.459598 AGCTGCTAATCCTGACCCAATTA 59.540 43.478 0.00 0.00 0.00 1.40
409 853 4.079787 AGCTGCTAATCCTGACCCAATTAA 60.080 41.667 0.00 0.00 0.00 1.40
410 854 4.036852 GCTGCTAATCCTGACCCAATTAAC 59.963 45.833 0.00 0.00 0.00 2.01
411 855 5.186256 TGCTAATCCTGACCCAATTAACA 57.814 39.130 0.00 0.00 0.00 2.41
412 856 5.575157 TGCTAATCCTGACCCAATTAACAA 58.425 37.500 0.00 0.00 0.00 2.83
413 857 6.013379 TGCTAATCCTGACCCAATTAACAAA 58.987 36.000 0.00 0.00 0.00 2.83
414 858 6.667414 TGCTAATCCTGACCCAATTAACAAAT 59.333 34.615 0.00 0.00 0.00 2.32
415 859 7.147915 TGCTAATCCTGACCCAATTAACAAATC 60.148 37.037 0.00 0.00 0.00 2.17
416 860 6.544928 AATCCTGACCCAATTAACAAATCC 57.455 37.500 0.00 0.00 0.00 3.01
417 861 4.349365 TCCTGACCCAATTAACAAATCCC 58.651 43.478 0.00 0.00 0.00 3.85
418 862 4.093011 CCTGACCCAATTAACAAATCCCA 58.907 43.478 0.00 0.00 0.00 4.37
419 863 4.081697 CCTGACCCAATTAACAAATCCCAC 60.082 45.833 0.00 0.00 0.00 4.61
420 864 4.483950 TGACCCAATTAACAAATCCCACA 58.516 39.130 0.00 0.00 0.00 4.17
421 865 5.090139 TGACCCAATTAACAAATCCCACAT 58.910 37.500 0.00 0.00 0.00 3.21
422 866 5.186797 TGACCCAATTAACAAATCCCACATC 59.813 40.000 0.00 0.00 0.00 3.06
423 867 5.090139 ACCCAATTAACAAATCCCACATCA 58.910 37.500 0.00 0.00 0.00 3.07
424 868 5.187576 ACCCAATTAACAAATCCCACATCAG 59.812 40.000 0.00 0.00 0.00 2.90
425 869 5.111293 CCAATTAACAAATCCCACATCAGC 58.889 41.667 0.00 0.00 0.00 4.26
426 870 5.105228 CCAATTAACAAATCCCACATCAGCT 60.105 40.000 0.00 0.00 0.00 4.24
427 871 6.400568 CAATTAACAAATCCCACATCAGCTT 58.599 36.000 0.00 0.00 0.00 3.74
428 872 6.610075 ATTAACAAATCCCACATCAGCTTT 57.390 33.333 0.00 0.00 0.00 3.51
429 873 4.961438 AACAAATCCCACATCAGCTTTT 57.039 36.364 0.00 0.00 0.00 2.27
430 874 7.531857 TTAACAAATCCCACATCAGCTTTTA 57.468 32.000 0.00 0.00 0.00 1.52
431 875 6.610075 AACAAATCCCACATCAGCTTTTAT 57.390 33.333 0.00 0.00 0.00 1.40
432 876 5.969423 ACAAATCCCACATCAGCTTTTATG 58.031 37.500 0.00 0.00 0.00 1.90
433 877 5.481473 ACAAATCCCACATCAGCTTTTATGT 59.519 36.000 1.18 1.18 36.78 2.29
434 878 6.663093 ACAAATCCCACATCAGCTTTTATGTA 59.337 34.615 5.93 0.00 34.61 2.29
435 879 7.178274 ACAAATCCCACATCAGCTTTTATGTAA 59.822 33.333 5.93 0.00 34.61 2.41
436 880 6.949352 ATCCCACATCAGCTTTTATGTAAG 57.051 37.500 5.93 2.32 34.61 2.34
437 881 6.061022 TCCCACATCAGCTTTTATGTAAGA 57.939 37.500 5.93 4.17 34.61 2.10
438 882 6.662755 TCCCACATCAGCTTTTATGTAAGAT 58.337 36.000 5.93 0.00 34.61 2.40
439 883 6.767902 TCCCACATCAGCTTTTATGTAAGATC 59.232 38.462 5.93 0.00 34.61 2.75
440 884 6.769822 CCCACATCAGCTTTTATGTAAGATCT 59.230 38.462 5.93 0.00 34.61 2.75
441 885 7.255035 CCCACATCAGCTTTTATGTAAGATCTG 60.255 40.741 0.00 0.00 34.61 2.90
442 886 7.496920 CCACATCAGCTTTTATGTAAGATCTGA 59.503 37.037 0.00 0.00 34.61 3.27
443 887 8.886719 CACATCAGCTTTTATGTAAGATCTGAA 58.113 33.333 0.00 0.00 34.61 3.02
444 888 8.887717 ACATCAGCTTTTATGTAAGATCTGAAC 58.112 33.333 0.00 0.00 34.61 3.18
445 889 7.525688 TCAGCTTTTATGTAAGATCTGAACG 57.474 36.000 0.00 0.00 28.08 3.95
446 890 7.097192 TCAGCTTTTATGTAAGATCTGAACGT 58.903 34.615 0.00 2.13 28.08 3.99
447 891 8.248253 TCAGCTTTTATGTAAGATCTGAACGTA 58.752 33.333 0.00 1.10 28.08 3.57
448 892 8.869897 CAGCTTTTATGTAAGATCTGAACGTAA 58.130 33.333 14.69 14.69 0.00 3.18
450 894 7.846592 GCTTTTATGTAAGATCTGAACGTAAGC 59.153 37.037 16.66 16.07 45.62 3.09
451 895 8.997621 TTTTATGTAAGATCTGAACGTAAGCT 57.002 30.769 16.66 0.00 45.62 3.74
452 896 8.997621 TTTATGTAAGATCTGAACGTAAGCTT 57.002 30.769 16.66 3.48 45.62 3.74
454 898 7.988904 ATGTAAGATCTGAACGTAAGCTTAC 57.011 36.000 24.05 24.05 45.62 2.34
469 913 7.095024 GTAAGCTTACGTATGTCTAGCATTG 57.905 40.000 20.28 2.68 37.98 2.82
470 914 4.051922 AGCTTACGTATGTCTAGCATTGC 58.948 43.478 16.30 0.00 37.98 3.56
471 915 4.051922 GCTTACGTATGTCTAGCATTGCT 58.948 43.478 16.63 16.63 43.41 3.91
472 916 4.149046 GCTTACGTATGTCTAGCATTGCTC 59.851 45.833 15.81 1.30 40.44 4.26
726 1173 1.674221 CCAGGAAACTCTTCGAGGCAG 60.674 57.143 0.00 0.00 40.21 4.85
727 1174 0.610687 AGGAAACTCTTCGAGGCAGG 59.389 55.000 0.00 0.00 32.90 4.85
728 1175 1.021920 GGAAACTCTTCGAGGCAGGC 61.022 60.000 0.00 0.00 33.35 4.85
729 1176 0.320771 GAAACTCTTCGAGGCAGGCA 60.321 55.000 0.00 0.00 33.35 4.75
826 1273 5.067805 CCCAGTTAATAATTCTCACAAGGGC 59.932 44.000 0.00 0.00 0.00 5.19
856 1303 1.075600 CCCTCCTCCCTCTCTGGTC 60.076 68.421 0.00 0.00 0.00 4.02
929 1383 7.947332 AGAAGTAGCCATATGTTCTCATCTCTA 59.053 37.037 1.24 0.00 35.70 2.43
964 1419 5.177696 GGAGTTAAGCAATATTGTAGCCTCG 59.822 44.000 16.61 0.00 0.00 4.63
1349 1804 1.516423 GGGCGTCACCTAGGTTCTC 59.484 63.158 13.15 4.69 39.10 2.87
1350 1805 0.971447 GGGCGTCACCTAGGTTCTCT 60.971 60.000 13.15 0.00 39.10 3.10
1354 1809 2.416162 GCGTCACCTAGGTTCTCTTCAG 60.416 54.545 13.15 0.00 0.00 3.02
1361 1816 5.128499 CACCTAGGTTCTCTTCAGATCACAT 59.872 44.000 13.15 0.00 0.00 3.21
1451 1906 3.322254 TGAACCATGGCCGTTTTAATTGT 59.678 39.130 13.04 0.00 0.00 2.71
1503 1958 2.335369 CTACGAGGGCGGATTCGG 59.665 66.667 0.00 0.00 43.17 4.30
1939 2394 4.035675 GCTACTACAACCAGCAATGGATTC 59.964 45.833 0.31 0.00 35.35 2.52
2045 2536 3.410631 TGTAATCCTCGTGCTTTCCAA 57.589 42.857 0.00 0.00 0.00 3.53
2052 2543 3.066203 TCCTCGTGCTTTCCAAGTTTTTC 59.934 43.478 0.00 0.00 0.00 2.29
2058 2549 5.167845 GTGCTTTCCAAGTTTTTCTGTGAA 58.832 37.500 0.00 0.00 0.00 3.18
2096 2587 0.397187 TTGTAAGGCTGCCCGTAACA 59.603 50.000 16.57 11.65 35.76 2.41
2097 2588 0.397187 TGTAAGGCTGCCCGTAACAA 59.603 50.000 16.57 0.00 35.76 2.83
2100 2591 1.774894 AAGGCTGCCCGTAACAAGGA 61.775 55.000 16.57 0.00 35.76 3.36
2111 2602 6.439375 TGCCCGTAACAAGGAGTATCATATAT 59.561 38.462 0.00 0.00 36.25 0.86
2172 2747 9.645059 TCTATTTCTGTAGCATAGCATCATAAC 57.355 33.333 0.00 0.00 0.00 1.89
2396 2975 4.379394 GCAGTCGCCTGAATTTGTGATTTA 60.379 41.667 0.00 0.00 41.50 1.40
2411 2995 6.861065 TGTGATTTAGGTCAGTCACTTTTC 57.139 37.500 6.01 0.00 41.08 2.29
2413 2997 7.054124 TGTGATTTAGGTCAGTCACTTTTCTT 58.946 34.615 6.01 0.00 41.08 2.52
2414 2998 7.556275 TGTGATTTAGGTCAGTCACTTTTCTTT 59.444 33.333 6.01 0.00 41.08 2.52
2415 2999 8.070769 GTGATTTAGGTCAGTCACTTTTCTTTC 58.929 37.037 0.00 0.00 38.29 2.62
2416 3000 7.993183 TGATTTAGGTCAGTCACTTTTCTTTCT 59.007 33.333 0.00 0.00 0.00 2.52
2417 3001 8.753497 ATTTAGGTCAGTCACTTTTCTTTCTT 57.247 30.769 0.00 0.00 0.00 2.52
2418 3002 8.575649 TTTAGGTCAGTCACTTTTCTTTCTTT 57.424 30.769 0.00 0.00 0.00 2.52
2421 3005 7.315890 AGGTCAGTCACTTTTCTTTCTTTTTG 58.684 34.615 0.00 0.00 0.00 2.44
2430 3014 4.405116 TTCTTTCTTTTTGGCATGCAGT 57.595 36.364 21.36 0.00 0.00 4.40
2452 3043 2.857186 ATGTGTGCAGTGTGGTATGA 57.143 45.000 0.00 0.00 0.00 2.15
2453 3044 1.877637 TGTGTGCAGTGTGGTATGAC 58.122 50.000 0.00 0.00 0.00 3.06
2512 3112 1.959085 CTTTGGTTGGATGTGCGCT 59.041 52.632 9.73 0.00 0.00 5.92
2704 3329 6.083630 CCACGCGAGAAAAGAATATTTGAAA 58.916 36.000 15.93 0.00 0.00 2.69
2732 3357 6.538381 TGAAATATAGCGAATCTGACTTTGCA 59.462 34.615 11.82 0.00 37.89 4.08
2743 3368 0.874390 GACTTTGCATGCAACCGAGA 59.126 50.000 31.99 16.49 35.46 4.04
2747 3372 1.855213 TTGCATGCAACCGAGACAGC 61.855 55.000 28.80 0.00 0.00 4.40
2770 3395 6.761714 AGCCACCGTATAATAGAAGAAACAAG 59.238 38.462 0.00 0.00 0.00 3.16
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
1 2 9.909644 TGTAACTAGTAGAAAGCTTTACTTCAG 57.090 33.333 17.49 12.88 37.75 3.02
15 16 9.710818 AGTCCCATTTTCTATGTAACTAGTAGA 57.289 33.333 3.59 0.00 0.00 2.59
18 19 8.411683 CGTAGTCCCATTTTCTATGTAACTAGT 58.588 37.037 0.00 0.00 0.00 2.57
19 20 8.627403 TCGTAGTCCCATTTTCTATGTAACTAG 58.373 37.037 0.00 0.00 0.00 2.57
20 21 8.523915 TCGTAGTCCCATTTTCTATGTAACTA 57.476 34.615 0.00 0.00 0.00 2.24
21 22 7.414222 TCGTAGTCCCATTTTCTATGTAACT 57.586 36.000 0.00 0.00 0.00 2.24
22 23 7.224167 CCTTCGTAGTCCCATTTTCTATGTAAC 59.776 40.741 0.00 0.00 0.00 2.50
43 44 8.145122 AGAGATAGAAAGCTTTATTACCCTTCG 58.855 37.037 12.68 0.00 0.00 3.79
59 60 4.923871 GTGCGAACAGTTCAGAGATAGAAA 59.076 41.667 13.82 0.00 0.00 2.52
63 64 5.399858 GTTAGTGCGAACAGTTCAGAGATA 58.600 41.667 13.82 0.00 0.00 1.98
164 608 1.140312 ATACTCACCGGCCCATCATT 58.860 50.000 0.00 0.00 0.00 2.57
165 609 1.140312 AATACTCACCGGCCCATCAT 58.860 50.000 0.00 0.00 0.00 2.45
189 633 1.062587 GCGTGATGAATCAGTTTCCCG 59.937 52.381 0.00 0.00 37.51 5.14
292 736 9.537192 CACCTTTCGTTGGTATAGTATTATTGA 57.463 33.333 0.00 0.00 35.80 2.57
293 737 8.280497 GCACCTTTCGTTGGTATAGTATTATTG 58.720 37.037 0.00 0.00 35.80 1.90
294 738 8.208903 AGCACCTTTCGTTGGTATAGTATTATT 58.791 33.333 0.00 0.00 35.80 1.40
295 739 7.732996 AGCACCTTTCGTTGGTATAGTATTAT 58.267 34.615 0.00 0.00 35.80 1.28
296 740 7.116075 AGCACCTTTCGTTGGTATAGTATTA 57.884 36.000 0.00 0.00 35.80 0.98
297 741 5.985911 AGCACCTTTCGTTGGTATAGTATT 58.014 37.500 0.00 0.00 35.80 1.89
298 742 5.609533 AGCACCTTTCGTTGGTATAGTAT 57.390 39.130 0.00 0.00 35.80 2.12
299 743 5.449041 CGTAGCACCTTTCGTTGGTATAGTA 60.449 44.000 0.00 0.00 35.80 1.82
300 744 3.975168 AGCACCTTTCGTTGGTATAGT 57.025 42.857 0.00 0.00 35.80 2.12
301 745 3.795101 CGTAGCACCTTTCGTTGGTATAG 59.205 47.826 0.00 0.00 35.80 1.31
302 746 3.193267 ACGTAGCACCTTTCGTTGGTATA 59.807 43.478 0.00 0.00 35.80 1.47
303 747 2.028748 ACGTAGCACCTTTCGTTGGTAT 60.029 45.455 0.00 0.00 35.80 2.73
304 748 1.340889 ACGTAGCACCTTTCGTTGGTA 59.659 47.619 0.00 0.00 35.80 3.25
305 749 0.105408 ACGTAGCACCTTTCGTTGGT 59.895 50.000 0.00 0.00 38.53 3.67
306 750 1.990563 CTACGTAGCACCTTTCGTTGG 59.009 52.381 10.14 0.00 37.66 3.77
307 751 1.990563 CCTACGTAGCACCTTTCGTTG 59.009 52.381 17.41 0.00 37.66 4.10
308 752 1.670967 GCCTACGTAGCACCTTTCGTT 60.671 52.381 17.41 0.00 37.66 3.85
309 753 0.108945 GCCTACGTAGCACCTTTCGT 60.109 55.000 17.41 0.00 39.74 3.85
310 754 0.804933 GGCCTACGTAGCACCTTTCG 60.805 60.000 17.41 2.09 0.00 3.46
311 755 0.535797 AGGCCTACGTAGCACCTTTC 59.464 55.000 22.88 6.70 0.00 2.62
312 756 1.479730 GTAGGCCTACGTAGCACCTTT 59.520 52.381 29.46 15.99 32.63 3.11
313 757 1.109609 GTAGGCCTACGTAGCACCTT 58.890 55.000 29.46 18.41 32.63 3.50
314 758 0.258194 AGTAGGCCTACGTAGCACCT 59.742 55.000 32.25 28.13 40.80 4.00
315 759 1.109609 AAGTAGGCCTACGTAGCACC 58.890 55.000 32.25 18.85 40.80 5.01
316 760 3.489908 GGTTAAGTAGGCCTACGTAGCAC 60.490 52.174 35.44 29.15 40.80 4.40
317 761 2.689983 GGTTAAGTAGGCCTACGTAGCA 59.310 50.000 35.44 22.96 40.80 3.49
318 762 2.954989 AGGTTAAGTAGGCCTACGTAGC 59.045 50.000 30.99 30.99 40.80 3.58
319 763 4.037327 GGAAGGTTAAGTAGGCCTACGTAG 59.963 50.000 32.25 15.92 40.80 3.51
320 764 3.954258 GGAAGGTTAAGTAGGCCTACGTA 59.046 47.826 32.25 30.18 40.80 3.57
321 765 2.762887 GGAAGGTTAAGTAGGCCTACGT 59.237 50.000 32.25 31.19 40.80 3.57
322 766 2.762327 TGGAAGGTTAAGTAGGCCTACG 59.238 50.000 32.25 0.00 40.80 3.51
323 767 6.490241 TTATGGAAGGTTAAGTAGGCCTAC 57.510 41.667 32.07 32.07 36.35 3.18
324 768 7.513560 TTTTATGGAAGGTTAAGTAGGCCTA 57.486 36.000 8.91 8.91 31.43 3.93
325 769 6.397217 TTTTATGGAAGGTTAAGTAGGCCT 57.603 37.500 11.78 11.78 0.00 5.19
326 770 7.201884 GGAATTTTATGGAAGGTTAAGTAGGCC 60.202 40.741 0.00 0.00 0.00 5.19
327 771 7.201884 GGGAATTTTATGGAAGGTTAAGTAGGC 60.202 40.741 0.00 0.00 0.00 3.93
328 772 8.059461 AGGGAATTTTATGGAAGGTTAAGTAGG 58.941 37.037 0.00 0.00 0.00 3.18
329 773 9.475620 AAGGGAATTTTATGGAAGGTTAAGTAG 57.524 33.333 0.00 0.00 0.00 2.57
330 774 9.470399 GAAGGGAATTTTATGGAAGGTTAAGTA 57.530 33.333 0.00 0.00 0.00 2.24
331 775 8.177456 AGAAGGGAATTTTATGGAAGGTTAAGT 58.823 33.333 0.00 0.00 0.00 2.24
332 776 8.595362 AGAAGGGAATTTTATGGAAGGTTAAG 57.405 34.615 0.00 0.00 0.00 1.85
333 777 8.398743 AGAGAAGGGAATTTTATGGAAGGTTAA 58.601 33.333 0.00 0.00 0.00 2.01
334 778 7.939781 AGAGAAGGGAATTTTATGGAAGGTTA 58.060 34.615 0.00 0.00 0.00 2.85
335 779 6.805150 AGAGAAGGGAATTTTATGGAAGGTT 58.195 36.000 0.00 0.00 0.00 3.50
336 780 6.408770 AGAGAAGGGAATTTTATGGAAGGT 57.591 37.500 0.00 0.00 0.00 3.50
337 781 5.830457 GGAGAGAAGGGAATTTTATGGAAGG 59.170 44.000 0.00 0.00 0.00 3.46
338 782 5.830457 GGGAGAGAAGGGAATTTTATGGAAG 59.170 44.000 0.00 0.00 0.00 3.46
339 783 5.496168 AGGGAGAGAAGGGAATTTTATGGAA 59.504 40.000 0.00 0.00 0.00 3.53
340 784 5.046522 AGGGAGAGAAGGGAATTTTATGGA 58.953 41.667 0.00 0.00 0.00 3.41
341 785 5.103940 TCAGGGAGAGAAGGGAATTTTATGG 60.104 44.000 0.00 0.00 0.00 2.74
342 786 6.006275 TCAGGGAGAGAAGGGAATTTTATG 57.994 41.667 0.00 0.00 0.00 1.90
343 787 6.855375 ATCAGGGAGAGAAGGGAATTTTAT 57.145 37.500 0.00 0.00 0.00 1.40
344 788 6.658555 AATCAGGGAGAGAAGGGAATTTTA 57.341 37.500 0.00 0.00 0.00 1.52
345 789 5.542848 AATCAGGGAGAGAAGGGAATTTT 57.457 39.130 0.00 0.00 0.00 1.82
346 790 5.542848 AAATCAGGGAGAGAAGGGAATTT 57.457 39.130 0.00 0.00 0.00 1.82
347 791 5.542848 AAAATCAGGGAGAGAAGGGAATT 57.457 39.130 0.00 0.00 0.00 2.17
348 792 6.427441 GTTAAAATCAGGGAGAGAAGGGAAT 58.573 40.000 0.00 0.00 0.00 3.01
349 793 5.281037 GGTTAAAATCAGGGAGAGAAGGGAA 60.281 44.000 0.00 0.00 0.00 3.97
350 794 4.227527 GGTTAAAATCAGGGAGAGAAGGGA 59.772 45.833 0.00 0.00 0.00 4.20
351 795 4.527944 GGTTAAAATCAGGGAGAGAAGGG 58.472 47.826 0.00 0.00 0.00 3.95
352 796 4.192317 CGGTTAAAATCAGGGAGAGAAGG 58.808 47.826 0.00 0.00 0.00 3.46
353 797 4.192317 CCGGTTAAAATCAGGGAGAGAAG 58.808 47.826 0.00 0.00 0.00 2.85
354 798 3.585732 ACCGGTTAAAATCAGGGAGAGAA 59.414 43.478 0.00 0.00 0.00 2.87
355 799 3.055385 CACCGGTTAAAATCAGGGAGAGA 60.055 47.826 2.97 0.00 0.00 3.10
356 800 3.270877 CACCGGTTAAAATCAGGGAGAG 58.729 50.000 2.97 0.00 0.00 3.20
357 801 2.640826 ACACCGGTTAAAATCAGGGAGA 59.359 45.455 2.97 0.00 0.00 3.71
358 802 2.747446 CACACCGGTTAAAATCAGGGAG 59.253 50.000 2.97 0.00 0.00 4.30
359 803 2.553466 CCACACCGGTTAAAATCAGGGA 60.553 50.000 2.97 0.00 0.00 4.20
360 804 1.816224 CCACACCGGTTAAAATCAGGG 59.184 52.381 2.97 0.00 0.00 4.45
361 805 1.816224 CCCACACCGGTTAAAATCAGG 59.184 52.381 2.97 0.00 0.00 3.86
362 806 1.201414 GCCCACACCGGTTAAAATCAG 59.799 52.381 2.97 0.00 0.00 2.90
363 807 1.249407 GCCCACACCGGTTAAAATCA 58.751 50.000 2.97 0.00 0.00 2.57
364 808 0.528924 GGCCCACACCGGTTAAAATC 59.471 55.000 2.97 0.00 0.00 2.17
365 809 0.113580 AGGCCCACACCGGTTAAAAT 59.886 50.000 2.97 0.00 33.69 1.82
366 810 0.537828 GAGGCCCACACCGGTTAAAA 60.538 55.000 2.97 0.00 33.69 1.52
367 811 1.073548 GAGGCCCACACCGGTTAAA 59.926 57.895 2.97 0.00 33.69 1.52
368 812 2.119484 CTGAGGCCCACACCGGTTAA 62.119 60.000 2.97 0.00 33.69 2.01
369 813 2.527123 TGAGGCCCACACCGGTTA 60.527 61.111 2.97 0.00 33.69 2.85
370 814 3.953775 CTGAGGCCCACACCGGTT 61.954 66.667 2.97 0.00 33.69 4.44
375 819 2.469465 TTAGCAGCTGAGGCCCACAC 62.469 60.000 20.43 0.00 39.73 3.82
376 820 1.565390 ATTAGCAGCTGAGGCCCACA 61.565 55.000 20.43 0.00 39.73 4.17
377 821 0.817229 GATTAGCAGCTGAGGCCCAC 60.817 60.000 20.43 0.00 39.73 4.61
378 822 1.528824 GATTAGCAGCTGAGGCCCA 59.471 57.895 20.43 0.00 39.73 5.36
379 823 1.228094 GGATTAGCAGCTGAGGCCC 60.228 63.158 20.43 7.36 39.73 5.80
380 824 0.534652 CAGGATTAGCAGCTGAGGCC 60.535 60.000 20.43 10.50 39.73 5.19
381 825 0.467384 TCAGGATTAGCAGCTGAGGC 59.533 55.000 20.43 1.09 39.06 4.70
382 826 1.202627 GGTCAGGATTAGCAGCTGAGG 60.203 57.143 20.43 0.00 0.00 3.86
383 827 1.202627 GGGTCAGGATTAGCAGCTGAG 60.203 57.143 20.43 0.00 0.00 3.35
384 828 0.833287 GGGTCAGGATTAGCAGCTGA 59.167 55.000 20.43 0.00 0.00 4.26
385 829 0.543277 TGGGTCAGGATTAGCAGCTG 59.457 55.000 10.11 10.11 0.00 4.24
386 830 1.289160 TTGGGTCAGGATTAGCAGCT 58.711 50.000 0.00 0.00 0.00 4.24
387 831 2.355010 ATTGGGTCAGGATTAGCAGC 57.645 50.000 0.00 0.00 0.00 5.25
388 832 5.192927 TGTTAATTGGGTCAGGATTAGCAG 58.807 41.667 0.00 0.00 0.00 4.24
389 833 5.186256 TGTTAATTGGGTCAGGATTAGCA 57.814 39.130 0.00 0.00 0.00 3.49
390 834 6.524101 TTTGTTAATTGGGTCAGGATTAGC 57.476 37.500 0.00 0.00 0.00 3.09
391 835 7.201911 GGGATTTGTTAATTGGGTCAGGATTAG 60.202 40.741 0.00 0.00 0.00 1.73
392 836 6.609616 GGGATTTGTTAATTGGGTCAGGATTA 59.390 38.462 0.00 0.00 0.00 1.75
393 837 5.425217 GGGATTTGTTAATTGGGTCAGGATT 59.575 40.000 0.00 0.00 0.00 3.01
394 838 4.962362 GGGATTTGTTAATTGGGTCAGGAT 59.038 41.667 0.00 0.00 0.00 3.24
395 839 4.202727 TGGGATTTGTTAATTGGGTCAGGA 60.203 41.667 0.00 0.00 0.00 3.86
396 840 4.081697 GTGGGATTTGTTAATTGGGTCAGG 60.082 45.833 0.00 0.00 0.00 3.86
397 841 4.526262 TGTGGGATTTGTTAATTGGGTCAG 59.474 41.667 0.00 0.00 0.00 3.51
398 842 4.483950 TGTGGGATTTGTTAATTGGGTCA 58.516 39.130 0.00 0.00 0.00 4.02
399 843 5.186797 TGATGTGGGATTTGTTAATTGGGTC 59.813 40.000 0.00 0.00 0.00 4.46
400 844 5.090139 TGATGTGGGATTTGTTAATTGGGT 58.910 37.500 0.00 0.00 0.00 4.51
401 845 5.663456 CTGATGTGGGATTTGTTAATTGGG 58.337 41.667 0.00 0.00 0.00 4.12
402 846 5.105228 AGCTGATGTGGGATTTGTTAATTGG 60.105 40.000 0.00 0.00 0.00 3.16
403 847 5.969423 AGCTGATGTGGGATTTGTTAATTG 58.031 37.500 0.00 0.00 0.00 2.32
404 848 6.610075 AAGCTGATGTGGGATTTGTTAATT 57.390 33.333 0.00 0.00 0.00 1.40
405 849 6.610075 AAAGCTGATGTGGGATTTGTTAAT 57.390 33.333 0.00 0.00 0.00 1.40
406 850 6.418057 AAAAGCTGATGTGGGATTTGTTAA 57.582 33.333 0.00 0.00 0.00 2.01
407 851 7.178274 ACATAAAAGCTGATGTGGGATTTGTTA 59.822 33.333 8.05 0.00 34.98 2.41
408 852 4.961438 AAAAGCTGATGTGGGATTTGTT 57.039 36.364 0.00 0.00 0.00 2.83
409 853 5.481473 ACATAAAAGCTGATGTGGGATTTGT 59.519 36.000 8.05 0.00 34.98 2.83
410 854 5.969423 ACATAAAAGCTGATGTGGGATTTG 58.031 37.500 8.05 0.00 34.98 2.32
411 855 7.615365 TCTTACATAAAAGCTGATGTGGGATTT 59.385 33.333 15.83 0.53 36.92 2.17
412 856 7.118723 TCTTACATAAAAGCTGATGTGGGATT 58.881 34.615 15.83 0.00 36.92 3.01
413 857 6.662755 TCTTACATAAAAGCTGATGTGGGAT 58.337 36.000 15.83 0.00 36.92 3.85
414 858 6.061022 TCTTACATAAAAGCTGATGTGGGA 57.939 37.500 15.83 11.57 36.92 4.37
415 859 6.769822 AGATCTTACATAAAAGCTGATGTGGG 59.230 38.462 15.83 10.04 36.92 4.61
416 860 7.496920 TCAGATCTTACATAAAAGCTGATGTGG 59.503 37.037 15.83 10.29 36.92 4.17
417 861 8.429493 TCAGATCTTACATAAAAGCTGATGTG 57.571 34.615 15.83 7.33 36.92 3.21
418 862 8.887717 GTTCAGATCTTACATAAAAGCTGATGT 58.112 33.333 12.34 12.34 39.57 3.06
419 863 8.060679 CGTTCAGATCTTACATAAAAGCTGATG 58.939 37.037 0.00 0.00 30.60 3.07
420 864 7.766278 ACGTTCAGATCTTACATAAAAGCTGAT 59.234 33.333 0.00 0.00 30.60 2.90
421 865 7.097192 ACGTTCAGATCTTACATAAAAGCTGA 58.903 34.615 0.00 0.00 0.00 4.26
422 866 7.295952 ACGTTCAGATCTTACATAAAAGCTG 57.704 36.000 0.00 0.00 0.00 4.24
423 867 8.997621 TTACGTTCAGATCTTACATAAAAGCT 57.002 30.769 0.00 0.00 0.00 3.74
424 868 7.846592 GCTTACGTTCAGATCTTACATAAAAGC 59.153 37.037 0.00 0.21 0.00 3.51
425 869 9.088512 AGCTTACGTTCAGATCTTACATAAAAG 57.911 33.333 0.00 0.00 0.00 2.27
426 870 8.997621 AGCTTACGTTCAGATCTTACATAAAA 57.002 30.769 0.00 0.00 0.00 1.52
427 871 8.997621 AAGCTTACGTTCAGATCTTACATAAA 57.002 30.769 0.00 0.00 0.00 1.40
428 872 9.512435 GTAAGCTTACGTTCAGATCTTACATAA 57.488 33.333 20.28 0.00 36.27 1.90
430 874 7.988904 GTAAGCTTACGTTCAGATCTTACAT 57.011 36.000 20.28 0.00 36.27 2.29
445 889 6.345882 GCAATGCTAGACATACGTAAGCTTAC 60.346 42.308 24.05 24.05 38.34 2.34
446 890 5.690409 GCAATGCTAGACATACGTAAGCTTA 59.310 40.000 15.21 0.86 38.34 3.09
447 891 4.508124 GCAATGCTAGACATACGTAAGCTT 59.492 41.667 15.21 3.48 38.34 3.74
448 892 4.051922 GCAATGCTAGACATACGTAAGCT 58.948 43.478 15.21 8.56 38.34 3.74
449 893 4.051922 AGCAATGCTAGACATACGTAAGC 58.948 43.478 5.69 8.87 38.34 3.09
450 894 4.380087 CGAGCAATGCTAGACATACGTAAG 59.620 45.833 8.12 0.00 39.88 2.34
451 895 4.035909 TCGAGCAATGCTAGACATACGTAA 59.964 41.667 13.91 0.00 39.88 3.18
452 896 3.562557 TCGAGCAATGCTAGACATACGTA 59.437 43.478 13.91 0.00 39.88 3.57
453 897 2.357952 TCGAGCAATGCTAGACATACGT 59.642 45.455 13.91 0.00 39.88 3.57
454 898 3.000082 TCGAGCAATGCTAGACATACG 58.000 47.619 13.91 8.77 39.88 3.06
460 904 4.301628 CATGTATGTCGAGCAATGCTAGA 58.698 43.478 13.91 13.91 39.88 2.43
461 905 3.431233 CCATGTATGTCGAGCAATGCTAG 59.569 47.826 8.12 8.68 39.88 3.42
462 906 3.181466 ACCATGTATGTCGAGCAATGCTA 60.181 43.478 8.12 0.00 39.88 3.49
463 907 2.216046 CCATGTATGTCGAGCAATGCT 58.784 47.619 7.79 7.79 43.88 3.79
464 908 1.942657 ACCATGTATGTCGAGCAATGC 59.057 47.619 0.00 0.00 0.00 3.56
465 909 4.094739 TGAAACCATGTATGTCGAGCAATG 59.905 41.667 0.00 0.00 0.00 2.82
466 910 4.260985 TGAAACCATGTATGTCGAGCAAT 58.739 39.130 0.00 0.00 0.00 3.56
467 911 3.669536 TGAAACCATGTATGTCGAGCAA 58.330 40.909 0.00 0.00 0.00 3.91
468 912 3.261580 CTGAAACCATGTATGTCGAGCA 58.738 45.455 0.00 0.00 0.00 4.26
469 913 3.262420 ACTGAAACCATGTATGTCGAGC 58.738 45.455 0.00 0.00 0.00 5.03
470 914 7.539712 AAATACTGAAACCATGTATGTCGAG 57.460 36.000 0.00 0.00 0.00 4.04
471 915 7.534085 GAAATACTGAAACCATGTATGTCGA 57.466 36.000 0.00 0.00 0.00 4.20
472 916 6.410845 CGAAATACTGAAACCATGTATGTCG 58.589 40.000 9.51 9.51 43.35 4.35
726 1173 0.035630 AGAAGAGACCACTGCATGCC 60.036 55.000 16.68 0.00 0.00 4.40
727 1174 1.085091 CAGAAGAGACCACTGCATGC 58.915 55.000 11.82 11.82 0.00 4.06
826 1273 1.692042 AGGAGGGGAGGCAGTGATG 60.692 63.158 0.00 0.00 0.00 3.07
856 1303 3.906998 AGCACCAAGATAAGATCGATCG 58.093 45.455 19.33 9.36 0.00 3.69
929 1383 1.405661 GCTTAACTCCCGTGCTAGCTT 60.406 52.381 17.23 2.16 0.00 3.74
1240 1695 2.985847 GTGGCCCAGGAACACTGC 60.986 66.667 0.00 0.00 46.14 4.40
1349 1804 3.278668 AGCTGGGAATGTGATCTGAAG 57.721 47.619 0.00 0.00 0.00 3.02
1350 1805 3.726557 AAGCTGGGAATGTGATCTGAA 57.273 42.857 0.00 0.00 0.00 3.02
1354 1809 2.359900 ACGAAAGCTGGGAATGTGATC 58.640 47.619 0.00 0.00 0.00 2.92
1361 1816 4.081406 TGTACTAGTACGAAAGCTGGGAA 58.919 43.478 24.36 3.33 38.85 3.97
1398 1853 4.399303 CCTTACGGCCATTTCATTTCTTCT 59.601 41.667 2.24 0.00 0.00 2.85
1399 1854 4.398044 TCCTTACGGCCATTTCATTTCTTC 59.602 41.667 2.24 0.00 0.00 2.87
1413 1868 2.000447 GTTCAGTGACATCCTTACGGC 59.000 52.381 0.00 0.00 0.00 5.68
1451 1906 2.881513 TGTACCTGTTCCAACGTACGTA 59.118 45.455 23.12 2.73 0.00 3.57
1670 2125 4.664677 GTCGCAGGTGAGCACGGT 62.665 66.667 0.00 0.00 0.00 4.83
1939 2394 1.066716 CACATTCAACAAGGCCATGGG 60.067 52.381 15.13 4.22 0.00 4.00
2052 2543 8.122472 AGACCCCAGTATTTTTATTTTCACAG 57.878 34.615 0.00 0.00 0.00 3.66
2058 2549 9.031537 CCTTACAAGACCCCAGTATTTTTATTT 57.968 33.333 0.00 0.00 0.00 1.40
2141 2632 9.381033 GATGCTATGCTACAGAAATAGAATCAT 57.619 33.333 11.77 0.00 38.25 2.45
2143 2634 8.768957 TGATGCTATGCTACAGAAATAGAATC 57.231 34.615 10.61 10.61 38.60 2.52
2149 2640 8.915057 AAGTTATGATGCTATGCTACAGAAAT 57.085 30.769 0.00 0.00 0.00 2.17
2326 2902 6.070481 TGGTCCTAATGTGAGTGTTATAAGCA 60.070 38.462 0.00 0.00 0.00 3.91
2328 2904 7.495934 CCTTGGTCCTAATGTGAGTGTTATAAG 59.504 40.741 0.00 0.00 0.00 1.73
2335 2911 3.981071 TCCTTGGTCCTAATGTGAGTG 57.019 47.619 0.00 0.00 0.00 3.51
2339 2915 3.758554 CCTGTTTCCTTGGTCCTAATGTG 59.241 47.826 0.00 0.00 0.00 3.21
2340 2916 3.245264 CCCTGTTTCCTTGGTCCTAATGT 60.245 47.826 0.00 0.00 0.00 2.71
2341 2917 3.010138 TCCCTGTTTCCTTGGTCCTAATG 59.990 47.826 0.00 0.00 0.00 1.90
2346 2922 0.771755 AGTCCCTGTTTCCTTGGTCC 59.228 55.000 0.00 0.00 0.00 4.46
2396 2975 7.315890 CAAAAAGAAAGAAAAGTGACTGACCT 58.684 34.615 0.00 0.00 0.00 3.85
2411 2995 3.460103 ACACTGCATGCCAAAAAGAAAG 58.540 40.909 16.68 4.71 0.00 2.62
2413 2997 4.039004 ACATACACTGCATGCCAAAAAGAA 59.961 37.500 16.68 0.00 0.00 2.52
2414 2998 3.573538 ACATACACTGCATGCCAAAAAGA 59.426 39.130 16.68 0.00 0.00 2.52
2415 2999 3.676172 CACATACACTGCATGCCAAAAAG 59.324 43.478 16.68 7.90 0.00 2.27
2416 3000 3.069300 ACACATACACTGCATGCCAAAAA 59.931 39.130 16.68 0.00 0.00 1.94
2417 3001 2.627221 ACACATACACTGCATGCCAAAA 59.373 40.909 16.68 0.00 0.00 2.44
2418 3002 2.030096 CACACATACACTGCATGCCAAA 60.030 45.455 16.68 0.00 0.00 3.28
2421 3005 0.179156 GCACACATACACTGCATGCC 60.179 55.000 16.68 0.00 34.47 4.40
2430 3014 3.007398 TCATACCACACTGCACACATACA 59.993 43.478 0.00 0.00 0.00 2.29
2492 3092 1.959085 CGCACATCCAACCAAAGCT 59.041 52.632 0.00 0.00 0.00 3.74
2493 3093 1.734117 GCGCACATCCAACCAAAGC 60.734 57.895 0.30 0.00 0.00 3.51
2494 3094 0.314935 AAGCGCACATCCAACCAAAG 59.685 50.000 11.47 0.00 0.00 2.77
2495 3095 0.031857 CAAGCGCACATCCAACCAAA 59.968 50.000 11.47 0.00 0.00 3.28
2500 3100 3.266964 GCTCAAGCGCACATCCAA 58.733 55.556 11.47 0.00 0.00 3.53
2586 3187 1.152383 GGCCGGTCGAAGCAATCTAC 61.152 60.000 1.90 0.00 0.00 2.59
2704 3329 8.607459 CAAAGTCAGATTCGCTATATTTCAACT 58.393 33.333 0.00 0.00 0.00 3.16
2732 3357 1.672356 GTGGCTGTCTCGGTTGCAT 60.672 57.895 0.00 0.00 0.00 3.96
2743 3368 5.864418 TTCTTCTATTATACGGTGGCTGT 57.136 39.130 0.00 0.00 0.00 4.40
2747 3372 8.765219 CATCTTGTTTCTTCTATTATACGGTGG 58.235 37.037 0.00 0.00 0.00 4.61


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

AutoCloner maintained by Alex Coulton.