Multiple sequence alignment - TraesCS3B01G034700

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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 TraesCS3B01G034700 chr3B 100.000 3398 0 0 1 3398 16691617 16695014 0.000000e+00 6276
1 TraesCS3B01G034700 chr3B 94.293 1542 64 7 965 2482 16758195 16756654 0.000000e+00 2338
2 TraesCS3B01G034700 chr3B 96.273 966 35 1 965 1930 16958552 16959516 0.000000e+00 1583
3 TraesCS3B01G034700 chr3B 86.129 1413 159 8 1007 2383 25219962 25221373 0.000000e+00 1489
4 TraesCS3B01G034700 chr3B 85.421 1413 169 13 1007 2383 16079711 16078300 0.000000e+00 1434
5 TraesCS3B01G034700 chr3B 94.993 759 37 1 2641 3398 78631256 78632014 0.000000e+00 1190
6 TraesCS3B01G034700 chr3B 81.786 1411 209 26 1018 2383 5938566 5939973 0.000000e+00 1138
7 TraesCS3B01G034700 chr3B 82.609 253 44 0 2073 2325 17029383 17029635 1.230000e-54 224
8 TraesCS3B01G034700 chr3B 85.000 160 16 7 516 673 16958007 16958160 4.540000e-34 156
9 TraesCS3B01G034700 chr3D 86.896 2442 212 52 4 2401 11794184 11796561 0.000000e+00 2638
10 TraesCS3B01G034700 chr3D 85.817 1396 162 6 1024 2383 11417736 11416341 0.000000e+00 1448
11 TraesCS3B01G034700 chr3D 82.107 1414 212 15 1008 2383 707927 709337 0.000000e+00 1171
12 TraesCS3B01G034700 chr3D 85.640 766 90 9 2636 3398 597284973 597284225 0.000000e+00 787
13 TraesCS3B01G034700 chr3D 82.659 346 57 3 64 406 370531275 370530930 1.530000e-78 303
14 TraesCS3B01G034700 chr3D 83.534 249 33 3 23 264 471592621 471592868 3.410000e-55 226
15 TraesCS3B01G034700 chr3A 86.048 1412 160 12 1007 2382 25896118 25897528 0.000000e+00 1482
16 TraesCS3B01G034700 chr3A 83.214 1394 204 11 1018 2381 8910250 8908857 0.000000e+00 1251
17 TraesCS3B01G034700 chr3A 87.989 716 86 0 1286 2001 25232500 25231785 0.000000e+00 846
18 TraesCS3B01G034700 chr3A 87.356 435 47 6 2054 2480 25213316 25212882 3.050000e-135 492
19 TraesCS3B01G034700 chr3A 84.871 271 40 1 252 522 614470404 614470673 4.320000e-69 272
20 TraesCS3B01G034700 chr7D 95.561 766 34 0 2633 3398 383983110 383983875 0.000000e+00 1227
21 TraesCS3B01G034700 chr7D 89.034 766 68 11 2634 3398 402146909 402146159 0.000000e+00 935
22 TraesCS3B01G034700 chr2D 94.538 769 42 0 2630 3398 317862336 317863104 0.000000e+00 1188
23 TraesCS3B01G034700 chr2D 83.239 531 74 11 6 522 559121643 559121114 1.100000e-129 473
24 TraesCS3B01G034700 chr2D 77.426 474 83 12 56 513 560967085 560967550 9.350000e-66 261
25 TraesCS3B01G034700 chr1B 94.737 760 32 3 2640 3398 50018439 50017687 0.000000e+00 1175
26 TraesCS3B01G034700 chr1B 85.806 155 16 2 2486 2636 483598616 483598768 3.510000e-35 159
27 TraesCS3B01G034700 chr1D 92.754 690 38 4 2637 3326 470416233 470415556 0.000000e+00 987
28 TraesCS3B01G034700 chr7B 88.903 775 73 7 2634 3398 411747202 411746431 0.000000e+00 942
29 TraesCS3B01G034700 chr7B 78.412 403 75 10 50 446 411326097 411326493 5.630000e-63 252
30 TraesCS3B01G034700 chr5A 90.610 639 41 8 2764 3398 534902143 534902766 0.000000e+00 830
31 TraesCS3B01G034700 chr2A 86.129 757 81 11 2636 3389 605244850 605245585 0.000000e+00 795
32 TraesCS3B01G034700 chr2A 79.588 534 82 17 4 520 695185685 695186208 1.160000e-94 357
33 TraesCS3B01G034700 chr2A 79.237 236 45 3 4 238 751660385 751660153 9.760000e-36 161
34 TraesCS3B01G034700 chrUn 81.046 459 61 14 4 447 10319995 10320442 3.250000e-90 342
35 TraesCS3B01G034700 chr4A 80.324 432 81 4 103 531 216370523 216370093 1.180000e-84 324
36 TraesCS3B01G034700 chr4A 77.872 470 82 13 68 516 509350366 509350834 4.320000e-69 272
37 TraesCS3B01G034700 chr4A 78.487 423 66 16 50 459 575782430 575782020 1.570000e-63 254
38 TraesCS3B01G034700 chr6B 78.361 476 80 13 75 529 498671296 498670823 1.540000e-73 287
39 TraesCS3B01G034700 chr6D 78.610 374 62 8 56 415 311252759 311252390 7.330000e-57 231
40 TraesCS3B01G034700 chr4D 89.404 151 14 1 2486 2636 84999550 84999402 4.480000e-44 189
41 TraesCS3B01G034700 chr5B 86.747 166 18 3 2472 2636 107198314 107198476 7.490000e-42 182
42 TraesCS3B01G034700 chr5B 84.076 157 22 2 2478 2634 11309531 11309378 7.600000e-32 148
43 TraesCS3B01G034700 chr4B 88.000 150 16 1 2482 2631 104815749 104815602 3.480000e-40 176
44 TraesCS3B01G034700 chr4B 86.093 151 18 2 2482 2631 104813107 104812959 3.510000e-35 159
45 TraesCS3B01G034700 chr4B 85.000 160 18 2 2480 2635 381111368 381111525 1.260000e-34 158
46 TraesCS3B01G034700 chr2B 86.624 157 17 3 2475 2631 371564893 371564741 1.620000e-38 171
47 TraesCS3B01G034700 chr2B 85.161 155 21 1 2482 2636 664210598 664210446 1.260000e-34 158


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 TraesCS3B01G034700 chr3B 16691617 16695014 3397 False 6276.0 6276 100.0000 1 3398 1 chr3B.!!$F2 3397
1 TraesCS3B01G034700 chr3B 16756654 16758195 1541 True 2338.0 2338 94.2930 965 2482 1 chr3B.!!$R2 1517
2 TraesCS3B01G034700 chr3B 25219962 25221373 1411 False 1489.0 1489 86.1290 1007 2383 1 chr3B.!!$F4 1376
3 TraesCS3B01G034700 chr3B 16078300 16079711 1411 True 1434.0 1434 85.4210 1007 2383 1 chr3B.!!$R1 1376
4 TraesCS3B01G034700 chr3B 78631256 78632014 758 False 1190.0 1190 94.9930 2641 3398 1 chr3B.!!$F5 757
5 TraesCS3B01G034700 chr3B 5938566 5939973 1407 False 1138.0 1138 81.7860 1018 2383 1 chr3B.!!$F1 1365
6 TraesCS3B01G034700 chr3B 16958007 16959516 1509 False 869.5 1583 90.6365 516 1930 2 chr3B.!!$F6 1414
7 TraesCS3B01G034700 chr3D 11794184 11796561 2377 False 2638.0 2638 86.8960 4 2401 1 chr3D.!!$F2 2397
8 TraesCS3B01G034700 chr3D 11416341 11417736 1395 True 1448.0 1448 85.8170 1024 2383 1 chr3D.!!$R1 1359
9 TraesCS3B01G034700 chr3D 707927 709337 1410 False 1171.0 1171 82.1070 1008 2383 1 chr3D.!!$F1 1375
10 TraesCS3B01G034700 chr3D 597284225 597284973 748 True 787.0 787 85.6400 2636 3398 1 chr3D.!!$R3 762
11 TraesCS3B01G034700 chr3A 25896118 25897528 1410 False 1482.0 1482 86.0480 1007 2382 1 chr3A.!!$F1 1375
12 TraesCS3B01G034700 chr3A 8908857 8910250 1393 True 1251.0 1251 83.2140 1018 2381 1 chr3A.!!$R1 1363
13 TraesCS3B01G034700 chr3A 25231785 25232500 715 True 846.0 846 87.9890 1286 2001 1 chr3A.!!$R3 715
14 TraesCS3B01G034700 chr7D 383983110 383983875 765 False 1227.0 1227 95.5610 2633 3398 1 chr7D.!!$F1 765
15 TraesCS3B01G034700 chr7D 402146159 402146909 750 True 935.0 935 89.0340 2634 3398 1 chr7D.!!$R1 764
16 TraesCS3B01G034700 chr2D 317862336 317863104 768 False 1188.0 1188 94.5380 2630 3398 1 chr2D.!!$F1 768
17 TraesCS3B01G034700 chr2D 559121114 559121643 529 True 473.0 473 83.2390 6 522 1 chr2D.!!$R1 516
18 TraesCS3B01G034700 chr1B 50017687 50018439 752 True 1175.0 1175 94.7370 2640 3398 1 chr1B.!!$R1 758
19 TraesCS3B01G034700 chr1D 470415556 470416233 677 True 987.0 987 92.7540 2637 3326 1 chr1D.!!$R1 689
20 TraesCS3B01G034700 chr7B 411746431 411747202 771 True 942.0 942 88.9030 2634 3398 1 chr7B.!!$R1 764
21 TraesCS3B01G034700 chr5A 534902143 534902766 623 False 830.0 830 90.6100 2764 3398 1 chr5A.!!$F1 634
22 TraesCS3B01G034700 chr2A 605244850 605245585 735 False 795.0 795 86.1290 2636 3389 1 chr2A.!!$F1 753
23 TraesCS3B01G034700 chr2A 695185685 695186208 523 False 357.0 357 79.5880 4 520 1 chr2A.!!$F2 516

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
699 704 0.036306 GGTGGATTGAAGTGGGACGT 59.964 55.0 0.0 0.0 0.0 4.34 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2535 2958 0.883153 TGCTGATGTTGTGTGATGCC 59.117 50.0 0.0 0.0 0.0 4.4 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
41 45 3.151022 GGAGGAGGAGGCGGAGTG 61.151 72.222 0.00 0.00 0.00 3.51
60 64 2.680370 GCCTCCTCCGGGGTTCAAT 61.680 63.158 0.00 0.00 36.25 2.57
109 114 2.270205 CCAAGCCGCAGAGATGGT 59.730 61.111 0.00 0.00 0.00 3.55
111 116 1.078918 CAAGCCGCAGAGATGGTGA 60.079 57.895 0.00 0.00 0.00 4.02
178 183 4.323477 CAACCGGCGGTTCCTCCA 62.323 66.667 39.18 0.00 43.05 3.86
182 187 4.697756 CGGCGGTTCCTCCAGCAA 62.698 66.667 0.00 0.00 37.43 3.91
193 198 2.433446 CCAGCAAGAGCAGGTGGT 59.567 61.111 3.40 0.00 46.70 4.16
197 202 2.320587 GCAAGAGCAGGTGGTGTCG 61.321 63.158 0.00 0.00 41.58 4.35
203 208 4.293648 CAGGTGGTGTCGGACGCA 62.294 66.667 21.88 6.84 0.00 5.24
209 214 1.300697 GGTGTCGGACGCACTCTTT 60.301 57.895 21.88 0.00 37.07 2.52
219 224 1.869690 GCACTCTTTGCCGAACTCC 59.130 57.895 0.00 0.00 46.63 3.85
220 225 0.884704 GCACTCTTTGCCGAACTCCA 60.885 55.000 0.00 0.00 46.63 3.86
238 243 0.894141 CATGCGGAGATAGAGGAGGG 59.106 60.000 0.00 0.00 0.00 4.30
263 268 4.154347 GGAGTGGAGCAGCCGGAG 62.154 72.222 5.05 0.00 40.66 4.63
264 269 4.828925 GAGTGGAGCAGCCGGAGC 62.829 72.222 5.05 8.78 40.66 4.70
281 286 4.124351 CTGCAACTGCCGCCCATG 62.124 66.667 0.00 0.00 41.18 3.66
284 289 4.124351 CAACTGCCGCCCATGCTG 62.124 66.667 0.00 0.00 34.43 4.41
320 325 3.634568 GAGATTGTCGACATCTCCGAT 57.365 47.619 28.85 17.80 38.38 4.18
342 347 7.106890 CGATGAGGAGTAGGTAGATCATCTAA 58.893 42.308 0.00 0.00 40.41 2.10
344 349 6.242396 TGAGGAGTAGGTAGATCATCTAAGC 58.758 44.000 0.00 0.00 29.58 3.09
349 354 7.832187 GGAGTAGGTAGATCATCTAAGCAGTAT 59.168 40.741 0.00 0.00 29.58 2.12
357 362 8.256356 AGATCATCTAAGCAGTATGTAGGTTT 57.744 34.615 0.00 0.00 39.31 3.27
362 367 9.764363 CATCTAAGCAGTATGTAGGTTTTATCA 57.236 33.333 0.00 0.00 39.31 2.15
367 372 8.807948 AGCAGTATGTAGGTTTTATCATTTGT 57.192 30.769 0.00 0.00 39.31 2.83
372 377 9.594038 GTATGTAGGTTTTATCATTTGTATGCG 57.406 33.333 0.00 0.00 0.00 4.73
387 392 6.502136 TTGTATGCGTTTGTATGGATTTGA 57.498 33.333 0.00 0.00 0.00 2.69
416 421 1.590932 ATGAGATGTTCGGATGCAGC 58.409 50.000 0.00 0.00 0.00 5.25
447 452 1.460305 AGGAGTGCCTGGTCACTGT 60.460 57.895 22.56 10.90 46.40 3.55
450 455 1.758440 GAGTGCCTGGTCACTGTCCA 61.758 60.000 22.56 0.00 46.40 4.02
490 495 3.411351 CGGGCGTTTGAGTGGTCG 61.411 66.667 0.00 0.00 0.00 4.79
495 500 1.392510 GGCGTTTGAGTGGTCGTATTC 59.607 52.381 0.00 0.00 0.00 1.75
500 505 4.201428 CGTTTGAGTGGTCGTATTCGTTAC 60.201 45.833 0.00 0.00 38.33 2.50
512 517 2.303163 TTCGTTACATGCGGCTGTAT 57.697 45.000 0.00 0.00 31.94 2.29
567 572 4.452455 GGAAAAGATGAGAAGAAACGAGCA 59.548 41.667 0.00 0.00 0.00 4.26
568 573 5.123027 GGAAAAGATGAGAAGAAACGAGCAT 59.877 40.000 0.00 0.00 0.00 3.79
579 584 1.965754 AACGAGCATGGGAGAGAGGC 61.966 60.000 0.00 0.00 0.00 4.70
580 585 2.420890 GAGCATGGGAGAGAGGCG 59.579 66.667 0.00 0.00 0.00 5.52
612 617 2.271944 AGGTTGGAAAGGGAAAGACG 57.728 50.000 0.00 0.00 0.00 4.18
649 654 3.168528 AGCAGTGTTGTCCGGGGT 61.169 61.111 0.00 0.00 0.00 4.95
673 678 0.725117 GGACGACGCGGATGAATTTT 59.275 50.000 12.47 0.00 0.00 1.82
674 679 1.129811 GGACGACGCGGATGAATTTTT 59.870 47.619 12.47 0.00 0.00 1.94
676 681 3.543460 GGACGACGCGGATGAATTTTTAG 60.543 47.826 12.47 0.00 0.00 1.85
680 685 1.596954 CGCGGATGAATTTTTAGCCGG 60.597 52.381 12.68 0.00 39.17 6.13
684 689 2.100749 GGATGAATTTTTAGCCGGGTGG 59.899 50.000 18.40 0.00 38.77 4.61
692 697 0.988832 TTAGCCGGGTGGATTGAAGT 59.011 50.000 18.40 0.00 37.49 3.01
693 698 0.251916 TAGCCGGGTGGATTGAAGTG 59.748 55.000 18.40 0.00 37.49 3.16
694 699 2.046285 GCCGGGTGGATTGAAGTGG 61.046 63.158 2.18 0.00 37.49 4.00
695 700 1.378514 CCGGGTGGATTGAAGTGGG 60.379 63.158 0.00 0.00 37.49 4.61
696 701 1.682849 CGGGTGGATTGAAGTGGGA 59.317 57.895 0.00 0.00 0.00 4.37
698 703 0.676782 GGGTGGATTGAAGTGGGACG 60.677 60.000 0.00 0.00 0.00 4.79
699 704 0.036306 GGTGGATTGAAGTGGGACGT 59.964 55.000 0.00 0.00 0.00 4.34
700 705 1.156736 GTGGATTGAAGTGGGACGTG 58.843 55.000 0.00 0.00 0.00 4.49
701 706 0.605319 TGGATTGAAGTGGGACGTGC 60.605 55.000 0.00 0.00 0.00 5.34
702 707 1.305930 GGATTGAAGTGGGACGTGCC 61.306 60.000 20.69 20.69 0.00 5.01
703 708 0.605319 GATTGAAGTGGGACGTGCCA 60.605 55.000 26.41 26.41 38.95 4.92
704 709 0.179004 ATTGAAGTGGGACGTGCCAA 60.179 50.000 31.59 15.54 38.95 4.52
706 711 0.888736 TGAAGTGGGACGTGCCAATG 60.889 55.000 31.59 0.00 38.95 2.82
707 712 0.889186 GAAGTGGGACGTGCCAATGT 60.889 55.000 31.59 19.23 38.95 2.71
708 713 1.172180 AAGTGGGACGTGCCAATGTG 61.172 55.000 31.59 0.00 38.95 3.21
709 714 1.896660 GTGGGACGTGCCAATGTGT 60.897 57.895 31.59 0.00 38.95 3.72
731 741 0.725117 GCACCGTCGAATGGTAAAGG 59.275 55.000 10.06 0.43 34.66 3.11
751 795 3.251917 GCGGAACTTGCCAAAATTTTG 57.748 42.857 21.65 21.65 37.90 2.44
764 808 6.818644 TGCCAAAATTTTGTGTTTAGCTAACA 59.181 30.769 25.25 5.23 38.54 2.41
775 819 4.393680 TGTTTAGCTAACACCAAATAGCCG 59.606 41.667 5.45 0.00 44.42 5.52
779 841 2.477863 GCTAACACCAAATAGCCGCAAG 60.478 50.000 0.00 0.00 38.85 4.01
797 859 1.673009 GGATTGGGCGTGAACGGAA 60.673 57.895 4.84 0.00 40.23 4.30
802 864 1.444836 TGGGCGTGAACGGAAAATAG 58.555 50.000 4.84 0.00 40.23 1.73
803 865 0.730840 GGGCGTGAACGGAAAATAGG 59.269 55.000 4.84 0.00 40.23 2.57
804 866 1.445871 GGCGTGAACGGAAAATAGGT 58.554 50.000 4.84 0.00 40.23 3.08
807 869 2.995258 GCGTGAACGGAAAATAGGTACA 59.005 45.455 4.84 0.00 40.23 2.90
809 871 4.093850 GCGTGAACGGAAAATAGGTACAAT 59.906 41.667 4.84 0.00 40.23 2.71
810 872 5.725864 GCGTGAACGGAAAATAGGTACAATC 60.726 44.000 4.84 0.00 40.23 2.67
815 884 4.634443 ACGGAAAATAGGTACAATCACTGC 59.366 41.667 0.00 0.00 0.00 4.40
828 897 3.197790 ACTGCATGCGCGTGATCC 61.198 61.111 32.94 15.73 42.97 3.36
829 898 3.197092 CTGCATGCGCGTGATCCA 61.197 61.111 32.94 19.39 42.97 3.41
830 899 2.514360 TGCATGCGCGTGATCCAT 60.514 55.556 32.94 0.11 42.97 3.41
865 935 0.533032 GGGCAGGCTATCCGATCTAC 59.467 60.000 0.00 0.00 37.47 2.59
866 936 1.257743 GGCAGGCTATCCGATCTACA 58.742 55.000 0.00 0.00 37.47 2.74
867 937 1.203523 GGCAGGCTATCCGATCTACAG 59.796 57.143 0.00 0.00 37.47 2.74
868 938 1.403514 GCAGGCTATCCGATCTACAGC 60.404 57.143 0.00 0.00 37.47 4.40
888 958 5.480073 ACAGCTAGATCAGATCTTGGGATAC 59.520 44.000 18.38 3.70 40.76 2.24
895 965 7.178573 AGATCAGATCTTGGGATACGAATCTA 58.821 38.462 7.15 0.00 35.76 1.98
897 967 5.181433 TCAGATCTTGGGATACGAATCTACG 59.819 44.000 0.00 0.00 32.20 3.51
904 974 3.552273 GGGATACGAATCTACGTGCATGT 60.552 47.826 17.19 17.19 46.02 3.21
910 980 3.724716 CGAATCTACGTGCATGTTGTTGG 60.725 47.826 18.34 9.47 0.00 3.77
941 1014 3.047695 TCACTCCTCCTCCCCTATTTC 57.952 52.381 0.00 0.00 0.00 2.17
946 1019 1.141185 CTCCTCCCCTATTTCACCCC 58.859 60.000 0.00 0.00 0.00 4.95
997 1144 1.341209 GGAGAAAACACAGGGGCAAAG 59.659 52.381 0.00 0.00 0.00 2.77
1323 1699 2.203596 ACGGGAGTTCTGTCGGGT 60.204 61.111 0.00 0.00 43.33 5.28
1548 1926 4.424711 GGCTGCGTTCCCATCCCA 62.425 66.667 0.00 0.00 0.00 4.37
1953 2349 2.359478 GGGTCCGTGAACGCCAAT 60.359 61.111 0.00 0.00 38.18 3.16
1983 2379 1.544825 CCGAGAGCAAGAAGGACCCA 61.545 60.000 0.00 0.00 0.00 4.51
2178 2598 0.602638 AGAACGCCGTGATGCTTTCA 60.603 50.000 0.00 0.00 40.75 2.69
2189 2609 2.106338 TGATGCTTTCAGAGGGTGTCAA 59.894 45.455 0.00 0.00 0.00 3.18
2235 2655 0.555769 AGAGGAAGGAGGAGATCGCT 59.444 55.000 0.00 0.00 0.00 4.93
2298 2718 0.543749 AGGTGAGAGCTAATGTGGCC 59.456 55.000 0.00 0.00 0.00 5.36
2430 2853 5.540719 ACCTACCTATACATCTTGCTCCTTC 59.459 44.000 0.00 0.00 0.00 3.46
2457 2880 4.190772 TGTGTGCATCGTGATAATGATGT 58.809 39.130 12.99 0.00 43.06 3.06
2494 2917 8.996651 AGAAATAAAAATAGGATGTGGGTAGG 57.003 34.615 0.00 0.00 0.00 3.18
2495 2918 8.787818 AGAAATAAAAATAGGATGTGGGTAGGA 58.212 33.333 0.00 0.00 0.00 2.94
2496 2919 9.588096 GAAATAAAAATAGGATGTGGGTAGGAT 57.412 33.333 0.00 0.00 0.00 3.24
2497 2920 9.951866 AAATAAAAATAGGATGTGGGTAGGATT 57.048 29.630 0.00 0.00 0.00 3.01
2498 2921 9.588096 AATAAAAATAGGATGTGGGTAGGATTC 57.412 33.333 0.00 0.00 0.00 2.52
2499 2922 6.590656 AAAATAGGATGTGGGTAGGATTCA 57.409 37.500 0.00 0.00 0.00 2.57
2500 2923 6.786843 AAATAGGATGTGGGTAGGATTCAT 57.213 37.500 0.00 0.00 0.00 2.57
2501 2924 6.380079 AATAGGATGTGGGTAGGATTCATC 57.620 41.667 0.00 0.00 35.56 2.92
2502 2925 3.946824 AGGATGTGGGTAGGATTCATCT 58.053 45.455 0.00 0.00 36.27 2.90
2503 2926 5.093236 AGGATGTGGGTAGGATTCATCTA 57.907 43.478 0.00 0.00 36.27 1.98
2504 2927 5.090139 AGGATGTGGGTAGGATTCATCTAG 58.910 45.833 0.00 0.00 36.27 2.43
2505 2928 5.087323 GGATGTGGGTAGGATTCATCTAGA 58.913 45.833 0.00 0.00 36.27 2.43
2506 2929 5.723887 GGATGTGGGTAGGATTCATCTAGAT 59.276 44.000 0.00 0.00 36.27 1.98
2507 2930 6.351711 GGATGTGGGTAGGATTCATCTAGATG 60.352 46.154 24.32 24.32 40.09 2.90
2508 2931 5.467738 TGTGGGTAGGATTCATCTAGATGT 58.532 41.667 27.80 13.30 39.72 3.06
2509 2932 5.305386 TGTGGGTAGGATTCATCTAGATGTG 59.695 44.000 27.80 9.61 39.72 3.21
2510 2933 5.540337 GTGGGTAGGATTCATCTAGATGTGA 59.460 44.000 27.80 19.36 39.72 3.58
2511 2934 5.540337 TGGGTAGGATTCATCTAGATGTGAC 59.460 44.000 27.80 19.51 39.72 3.67
2512 2935 5.540337 GGGTAGGATTCATCTAGATGTGACA 59.460 44.000 27.80 13.77 39.72 3.58
2513 2936 6.212388 GGGTAGGATTCATCTAGATGTGACAT 59.788 42.308 27.80 19.56 39.72 3.06
2514 2937 7.397476 GGGTAGGATTCATCTAGATGTGACATA 59.603 40.741 27.80 18.76 39.72 2.29
2515 2938 8.807118 GGTAGGATTCATCTAGATGTGACATAA 58.193 37.037 27.80 16.29 39.72 1.90
2516 2939 9.632807 GTAGGATTCATCTAGATGTGACATAAC 57.367 37.037 27.80 16.61 39.72 1.89
2517 2940 8.489676 AGGATTCATCTAGATGTGACATAACT 57.510 34.615 27.80 15.12 39.72 2.24
2518 2941 9.593565 AGGATTCATCTAGATGTGACATAACTA 57.406 33.333 27.80 6.05 39.72 2.24
2535 2958 8.599055 ACATAACTATGTCACATCTATGCAAG 57.401 34.615 0.00 0.00 42.96 4.01
2536 2959 7.658982 ACATAACTATGTCACATCTATGCAAGG 59.341 37.037 0.00 0.00 42.96 3.61
2537 2960 4.384056 ACTATGTCACATCTATGCAAGGC 58.616 43.478 0.00 0.00 0.00 4.35
2538 2961 2.785540 TGTCACATCTATGCAAGGCA 57.214 45.000 0.00 0.00 44.86 4.75
2548 2971 2.804549 TGCAAGGCATCACACAACA 58.195 47.368 0.00 0.00 31.71 3.33
2549 2972 1.330234 TGCAAGGCATCACACAACAT 58.670 45.000 0.00 0.00 31.71 2.71
2550 2973 1.270274 TGCAAGGCATCACACAACATC 59.730 47.619 0.00 0.00 31.71 3.06
2551 2974 1.270274 GCAAGGCATCACACAACATCA 59.730 47.619 0.00 0.00 0.00 3.07
2552 2975 2.670229 GCAAGGCATCACACAACATCAG 60.670 50.000 0.00 0.00 0.00 2.90
2553 2976 1.171308 AGGCATCACACAACATCAGC 58.829 50.000 0.00 0.00 0.00 4.26
2554 2977 0.883153 GGCATCACACAACATCAGCA 59.117 50.000 0.00 0.00 0.00 4.41
2555 2978 1.270274 GGCATCACACAACATCAGCAA 59.730 47.619 0.00 0.00 0.00 3.91
2556 2979 2.288334 GGCATCACACAACATCAGCAAA 60.288 45.455 0.00 0.00 0.00 3.68
2557 2980 3.382855 GCATCACACAACATCAGCAAAA 58.617 40.909 0.00 0.00 0.00 2.44
2558 2981 3.803231 GCATCACACAACATCAGCAAAAA 59.197 39.130 0.00 0.00 0.00 1.94
2596 3019 3.442100 GCTTTGTGCATATCTTGAAGCC 58.558 45.455 5.73 0.00 42.31 4.35
2597 3020 3.736126 GCTTTGTGCATATCTTGAAGCCC 60.736 47.826 5.73 0.00 42.31 5.19
2598 3021 2.057137 TGTGCATATCTTGAAGCCCC 57.943 50.000 0.00 0.00 0.00 5.80
2599 3022 1.565759 TGTGCATATCTTGAAGCCCCT 59.434 47.619 0.00 0.00 0.00 4.79
2600 3023 2.025037 TGTGCATATCTTGAAGCCCCTT 60.025 45.455 0.00 0.00 0.00 3.95
2601 3024 3.201930 TGTGCATATCTTGAAGCCCCTTA 59.798 43.478 0.00 0.00 0.00 2.69
2602 3025 4.141181 TGTGCATATCTTGAAGCCCCTTAT 60.141 41.667 0.00 0.00 0.00 1.73
2603 3026 4.829492 GTGCATATCTTGAAGCCCCTTATT 59.171 41.667 0.00 0.00 0.00 1.40
2604 3027 6.003950 GTGCATATCTTGAAGCCCCTTATTA 58.996 40.000 0.00 0.00 0.00 0.98
2605 3028 6.660949 GTGCATATCTTGAAGCCCCTTATTAT 59.339 38.462 0.00 0.00 0.00 1.28
2606 3029 6.660521 TGCATATCTTGAAGCCCCTTATTATG 59.339 38.462 0.00 0.00 0.00 1.90
2607 3030 6.660949 GCATATCTTGAAGCCCCTTATTATGT 59.339 38.462 0.00 0.00 0.00 2.29
2608 3031 7.362401 GCATATCTTGAAGCCCCTTATTATGTG 60.362 40.741 0.00 0.00 0.00 3.21
2609 3032 5.708736 TCTTGAAGCCCCTTATTATGTGA 57.291 39.130 0.00 0.00 0.00 3.58
2610 3033 6.266131 TCTTGAAGCCCCTTATTATGTGAT 57.734 37.500 0.00 0.00 0.00 3.06
2611 3034 6.064060 TCTTGAAGCCCCTTATTATGTGATG 58.936 40.000 0.00 0.00 0.00 3.07
2612 3035 5.645056 TGAAGCCCCTTATTATGTGATGA 57.355 39.130 0.00 0.00 0.00 2.92
2613 3036 6.012337 TGAAGCCCCTTATTATGTGATGAA 57.988 37.500 0.00 0.00 0.00 2.57
2614 3037 5.827797 TGAAGCCCCTTATTATGTGATGAAC 59.172 40.000 0.00 0.00 0.00 3.18
2615 3038 5.653255 AGCCCCTTATTATGTGATGAACT 57.347 39.130 0.00 0.00 0.00 3.01
2616 3039 6.763715 AGCCCCTTATTATGTGATGAACTA 57.236 37.500 0.00 0.00 0.00 2.24
2617 3040 7.335127 AGCCCCTTATTATGTGATGAACTAT 57.665 36.000 0.00 0.00 0.00 2.12
2618 3041 7.759607 AGCCCCTTATTATGTGATGAACTATT 58.240 34.615 0.00 0.00 0.00 1.73
2619 3042 8.227507 AGCCCCTTATTATGTGATGAACTATTT 58.772 33.333 0.00 0.00 0.00 1.40
2620 3043 9.515226 GCCCCTTATTATGTGATGAACTATTTA 57.485 33.333 0.00 0.00 0.00 1.40
2789 3215 9.586435 AACTGAAAAACTGAGTTTATGGAAAAG 57.414 29.630 11.43 5.40 34.43 2.27
3048 3488 1.027792 TCGTCGGACCATCGTCATCA 61.028 55.000 1.91 0.00 41.13 3.07
3062 3502 0.317854 TCATCATCGTCGACCATCGC 60.318 55.000 10.58 0.00 40.21 4.58
3125 3565 1.291877 GCCAACTCGCGATCACAGTT 61.292 55.000 10.36 7.12 0.00 3.16
3222 3680 1.610522 GAGATTTTGTGTGGCAGCAGT 59.389 47.619 0.00 0.00 0.00 4.40
3328 3788 4.994907 TCTGATTGCTTTTGATGATGGG 57.005 40.909 0.00 0.00 0.00 4.00
3348 3808 1.279025 TGGGTATGGCAGGAAGGACC 61.279 60.000 0.00 0.00 39.35 4.46
3350 3810 0.107165 GGTATGGCAGGAAGGACCAC 60.107 60.000 0.00 0.00 42.04 4.16
3368 3828 5.585047 GGACCACTAGTAATTTGGCTGTTAG 59.415 44.000 0.00 0.00 33.25 2.34
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
101 106 0.252479 CCTGCTGCTTCACCATCTCT 59.748 55.000 0.00 0.00 0.00 3.10
109 114 2.044650 GGATGGCCTGCTGCTTCA 60.045 61.111 3.32 0.00 40.92 3.02
178 183 1.072159 GACACCACCTGCTCTTGCT 59.928 57.895 0.00 0.00 40.48 3.91
182 187 2.203640 TCCGACACCACCTGCTCT 60.204 61.111 0.00 0.00 0.00 4.09
193 198 1.954146 GCAAAGAGTGCGTCCGACA 60.954 57.895 0.00 0.00 45.10 4.35
203 208 1.813513 CATGGAGTTCGGCAAAGAGT 58.186 50.000 0.00 0.00 0.00 3.24
209 214 3.700970 TCCGCATGGAGTTCGGCA 61.701 61.111 4.05 0.00 40.17 5.69
219 224 0.894141 CCCTCCTCTATCTCCGCATG 59.106 60.000 0.00 0.00 0.00 4.06
220 225 0.252012 CCCCTCCTCTATCTCCGCAT 60.252 60.000 0.00 0.00 0.00 4.73
264 269 4.124351 CATGGGCGGCAGTTGCAG 62.124 66.667 12.47 3.01 44.36 4.41
294 299 0.802222 ATGTCGACAATCTCCGTGCG 60.802 55.000 24.13 0.00 0.00 5.34
320 325 6.183361 TGCTTAGATGATCTACCTACTCCTCA 60.183 42.308 0.78 0.00 0.00 3.86
330 335 8.343168 ACCTACATACTGCTTAGATGATCTAC 57.657 38.462 0.78 0.00 0.00 2.59
342 347 8.807948 ACAAATGATAAAACCTACATACTGCT 57.192 30.769 0.00 0.00 0.00 4.24
349 354 7.618502 ACGCATACAAATGATAAAACCTACA 57.381 32.000 0.00 0.00 34.84 2.74
357 362 8.214721 TCCATACAAACGCATACAAATGATAA 57.785 30.769 0.00 0.00 34.84 1.75
362 367 7.542890 TCAAATCCATACAAACGCATACAAAT 58.457 30.769 0.00 0.00 0.00 2.32
367 372 6.993786 TTCTCAAATCCATACAAACGCATA 57.006 33.333 0.00 0.00 0.00 3.14
387 392 7.386299 GCATCCGAACATCTCATACTAAATTCT 59.614 37.037 0.00 0.00 0.00 2.40
406 411 2.401583 ATTAACACAGCTGCATCCGA 57.598 45.000 15.27 0.00 0.00 4.55
416 421 4.074970 AGGCACTCCTCAAATTAACACAG 58.925 43.478 0.00 0.00 38.72 3.66
438 443 2.852180 CGTCCGTGGACAGTGACCA 61.852 63.158 18.54 10.44 44.77 4.02
467 472 4.735132 CTCAAACGCCCGCGGAGA 62.735 66.667 30.73 12.97 44.69 3.71
485 490 2.186891 CGCATGTAACGAATACGACCA 58.813 47.619 0.00 0.00 42.66 4.02
487 492 1.071698 GCCGCATGTAACGAATACGAC 60.072 52.381 0.00 0.00 42.66 4.34
490 495 1.931172 ACAGCCGCATGTAACGAATAC 59.069 47.619 0.00 0.00 34.92 1.89
495 500 2.159841 GCATATACAGCCGCATGTAACG 60.160 50.000 0.00 0.00 39.04 3.18
500 505 2.090400 AGAGCATATACAGCCGCATG 57.910 50.000 0.00 0.00 0.00 4.06
539 544 6.992715 TCGTTTCTTCTCATCTTTTCCTCTTT 59.007 34.615 0.00 0.00 0.00 2.52
540 545 6.525629 TCGTTTCTTCTCATCTTTTCCTCTT 58.474 36.000 0.00 0.00 0.00 2.85
541 546 6.102897 TCGTTTCTTCTCATCTTTTCCTCT 57.897 37.500 0.00 0.00 0.00 3.69
542 547 5.163903 GCTCGTTTCTTCTCATCTTTTCCTC 60.164 44.000 0.00 0.00 0.00 3.71
544 549 4.452455 TGCTCGTTTCTTCTCATCTTTTCC 59.548 41.667 0.00 0.00 0.00 3.13
545 550 5.597813 TGCTCGTTTCTTCTCATCTTTTC 57.402 39.130 0.00 0.00 0.00 2.29
548 553 3.937706 CCATGCTCGTTTCTTCTCATCTT 59.062 43.478 0.00 0.00 0.00 2.40
549 554 3.529533 CCATGCTCGTTTCTTCTCATCT 58.470 45.455 0.00 0.00 0.00 2.90
550 555 2.611292 CCCATGCTCGTTTCTTCTCATC 59.389 50.000 0.00 0.00 0.00 2.92
551 556 2.237143 TCCCATGCTCGTTTCTTCTCAT 59.763 45.455 0.00 0.00 0.00 2.90
552 557 1.623311 TCCCATGCTCGTTTCTTCTCA 59.377 47.619 0.00 0.00 0.00 3.27
553 558 2.093973 TCTCCCATGCTCGTTTCTTCTC 60.094 50.000 0.00 0.00 0.00 2.87
554 559 1.902508 TCTCCCATGCTCGTTTCTTCT 59.097 47.619 0.00 0.00 0.00 2.85
567 572 2.765807 CACCCGCCTCTCTCCCAT 60.766 66.667 0.00 0.00 0.00 4.00
568 573 3.539593 TTCACCCGCCTCTCTCCCA 62.540 63.158 0.00 0.00 0.00 4.37
579 584 3.681593 TCCAACCTTATCTTTTCACCCG 58.318 45.455 0.00 0.00 0.00 5.28
580 585 5.047306 CCTTTCCAACCTTATCTTTTCACCC 60.047 44.000 0.00 0.00 0.00 4.61
633 638 1.375523 CTACCCCGGACAACACTGC 60.376 63.158 0.73 0.00 0.00 4.40
669 674 3.094484 TCAATCCACCCGGCTAAAAAT 57.906 42.857 0.00 0.00 0.00 1.82
673 678 0.988832 ACTTCAATCCACCCGGCTAA 59.011 50.000 0.00 0.00 0.00 3.09
674 679 0.251916 CACTTCAATCCACCCGGCTA 59.748 55.000 0.00 0.00 0.00 3.93
676 681 2.046285 CCACTTCAATCCACCCGGC 61.046 63.158 0.00 0.00 0.00 6.13
680 685 0.036306 ACGTCCCACTTCAATCCACC 59.964 55.000 0.00 0.00 0.00 4.61
684 689 0.605319 TGGCACGTCCCACTTCAATC 60.605 55.000 0.00 0.00 0.00 2.67
692 697 1.896183 CACACATTGGCACGTCCCA 60.896 57.895 0.00 0.00 0.00 4.37
693 698 1.896660 ACACACATTGGCACGTCCC 60.897 57.895 0.00 0.00 0.00 4.46
694 699 1.282570 CACACACATTGGCACGTCC 59.717 57.895 0.00 0.00 0.00 4.79
695 700 1.370414 GCACACACATTGGCACGTC 60.370 57.895 0.00 0.00 0.00 4.34
696 701 2.117779 TGCACACACATTGGCACGT 61.118 52.632 0.00 0.00 0.00 4.49
698 703 4.324424 GTGCACACACATTGGCAC 57.676 55.556 13.17 0.00 46.61 5.01
706 711 1.204062 CATTCGACGGTGCACACAC 59.796 57.895 20.43 7.70 46.66 3.82
707 712 1.958715 CCATTCGACGGTGCACACA 60.959 57.895 20.43 0.00 0.00 3.72
708 713 0.668096 TACCATTCGACGGTGCACAC 60.668 55.000 20.43 7.22 37.33 3.82
709 714 0.033642 TTACCATTCGACGGTGCACA 59.966 50.000 20.43 0.00 37.33 4.57
731 741 2.611751 ACAAAATTTTGGCAAGTTCCGC 59.388 40.909 29.37 0.00 42.34 5.54
764 808 1.750778 CAATCCTTGCGGCTATTTGGT 59.249 47.619 0.00 0.00 0.00 3.67
775 819 1.212751 GTTCACGCCCAATCCTTGC 59.787 57.895 0.00 0.00 0.00 4.01
779 841 1.238625 TTTCCGTTCACGCCCAATCC 61.239 55.000 0.00 0.00 38.18 3.01
797 859 4.035558 CGCATGCAGTGATTGTACCTATTT 59.964 41.667 19.57 0.00 0.00 1.40
802 864 0.248215 GCGCATGCAGTGATTGTACC 60.248 55.000 19.57 0.00 42.15 3.34
803 865 0.587242 CGCGCATGCAGTGATTGTAC 60.587 55.000 19.57 0.00 42.97 2.90
804 866 1.018752 ACGCGCATGCAGTGATTGTA 61.019 50.000 23.27 0.00 42.97 2.41
807 869 2.034317 TCACGCGCATGCAGTGATT 61.034 52.632 30.32 9.98 44.03 2.57
810 872 2.022346 GATCACGCGCATGCAGTG 59.978 61.111 27.61 27.61 42.75 3.66
815 884 0.165295 GATGATGGATCACGCGCATG 59.835 55.000 5.73 0.97 40.03 4.06
865 935 5.392919 CGTATCCCAAGATCTGATCTAGCTG 60.393 48.000 19.82 14.20 39.08 4.24
866 936 4.704540 CGTATCCCAAGATCTGATCTAGCT 59.295 45.833 19.82 2.63 39.08 3.32
867 937 4.702612 TCGTATCCCAAGATCTGATCTAGC 59.297 45.833 19.82 5.57 39.08 3.42
868 938 6.825944 TTCGTATCCCAAGATCTGATCTAG 57.174 41.667 19.82 14.01 39.08 2.43
881 951 2.025898 TGCACGTAGATTCGTATCCCA 58.974 47.619 0.00 0.00 42.27 4.37
888 958 3.407252 CAACAACATGCACGTAGATTCG 58.593 45.455 0.00 0.00 0.00 3.34
895 965 4.782019 ATTTATCCAACAACATGCACGT 57.218 36.364 0.00 0.00 0.00 4.49
897 967 9.149225 TGAATTAATTTATCCAACAACATGCAC 57.851 29.630 1.43 0.00 0.00 4.57
904 974 8.966868 GGAGGAGTGAATTAATTTATCCAACAA 58.033 33.333 20.52 0.00 0.00 2.83
910 980 6.943146 GGGGAGGAGGAGTGAATTAATTTATC 59.057 42.308 1.43 1.53 0.00 1.75
941 1014 1.546589 AACAGCATGCATTGGGGGTG 61.547 55.000 21.98 9.14 42.53 4.61
946 1019 3.804786 TTATCCAACAGCATGCATTGG 57.195 42.857 32.77 32.77 42.53 3.16
1164 1325 2.678934 AGGAAGGACCGCTGCGTA 60.679 61.111 21.59 0.00 44.74 4.42
1210 1502 3.782443 GACGGGCGGAAGGGACAT 61.782 66.667 0.00 0.00 0.00 3.06
1311 1687 0.900647 CCCTGAGACCCGACAGAACT 60.901 60.000 0.00 0.00 36.38 3.01
1323 1699 3.125573 CGCGTCGTCTCCCTGAGA 61.126 66.667 0.00 0.00 36.22 3.27
1350 1728 1.588082 GAAGAGGTCGGCCACGTAA 59.412 57.895 9.71 0.00 41.85 3.18
1548 1926 3.771160 GACATGACGTCCGGCCCT 61.771 66.667 14.12 0.00 38.85 5.19
1719 2097 2.450609 GTGGACCGATGTTGTACACT 57.549 50.000 0.00 0.00 42.99 3.55
1805 2201 1.887198 AGACGAAGATGACGGACTTGT 59.113 47.619 0.00 0.00 34.93 3.16
1939 2335 2.609350 GTAGTAATTGGCGTTCACGGA 58.391 47.619 0.81 0.00 40.23 4.69
1953 2349 1.020861 TGCTCTCGGCGTCGTAGTAA 61.021 55.000 10.18 0.00 45.43 2.24
2178 2598 4.021925 GCGGCCTTGACACCCTCT 62.022 66.667 0.00 0.00 0.00 3.69
2235 2655 3.241530 ACTTCCCTCACTGCCGCA 61.242 61.111 0.00 0.00 0.00 5.69
2415 2838 3.834813 ACAGACAGAAGGAGCAAGATGTA 59.165 43.478 0.00 0.00 0.00 2.29
2430 2853 1.718396 ATCACGATGCACACAGACAG 58.282 50.000 0.00 0.00 0.00 3.51
2482 2905 5.087323 TCTAGATGAATCCTACCCACATCC 58.913 45.833 0.00 0.00 38.32 3.51
2483 2906 6.212388 ACATCTAGATGAATCCTACCCACATC 59.788 42.308 34.16 0.00 41.20 3.06
2484 2907 6.013898 CACATCTAGATGAATCCTACCCACAT 60.014 42.308 34.16 8.13 41.20 3.21
2485 2908 5.305386 CACATCTAGATGAATCCTACCCACA 59.695 44.000 34.16 0.00 41.20 4.17
2486 2909 5.540337 TCACATCTAGATGAATCCTACCCAC 59.460 44.000 34.16 0.00 41.20 4.61
2487 2910 5.540337 GTCACATCTAGATGAATCCTACCCA 59.460 44.000 34.16 6.69 41.20 4.51
2488 2911 5.540337 TGTCACATCTAGATGAATCCTACCC 59.460 44.000 34.16 13.75 41.20 3.69
2489 2912 6.656632 TGTCACATCTAGATGAATCCTACC 57.343 41.667 34.16 15.03 41.20 3.18
2490 2913 9.632807 GTTATGTCACATCTAGATGAATCCTAC 57.367 37.037 34.16 21.32 41.20 3.18
2491 2914 9.593565 AGTTATGTCACATCTAGATGAATCCTA 57.406 33.333 34.16 18.11 41.20 2.94
2492 2915 8.489676 AGTTATGTCACATCTAGATGAATCCT 57.510 34.615 34.16 18.96 41.20 3.24
2511 2934 7.360691 GCCTTGCATAGATGTGACATAGTTATG 60.361 40.741 14.70 14.70 39.55 1.90
2512 2935 6.652481 GCCTTGCATAGATGTGACATAGTTAT 59.348 38.462 0.00 0.00 0.00 1.89
2513 2936 5.991606 GCCTTGCATAGATGTGACATAGTTA 59.008 40.000 0.00 0.00 0.00 2.24
2514 2937 4.818546 GCCTTGCATAGATGTGACATAGTT 59.181 41.667 0.00 0.00 0.00 2.24
2515 2938 4.141642 TGCCTTGCATAGATGTGACATAGT 60.142 41.667 0.00 0.00 31.71 2.12
2516 2939 4.383173 TGCCTTGCATAGATGTGACATAG 58.617 43.478 0.00 0.00 31.71 2.23
2517 2940 4.420522 TGCCTTGCATAGATGTGACATA 57.579 40.909 0.00 0.00 31.71 2.29
2518 2941 3.286329 TGCCTTGCATAGATGTGACAT 57.714 42.857 0.00 0.00 31.71 3.06
2519 2942 2.785540 TGCCTTGCATAGATGTGACA 57.214 45.000 0.00 0.00 31.71 3.58
2530 2953 1.270274 GATGTTGTGTGATGCCTTGCA 59.730 47.619 0.00 0.00 44.86 4.08
2531 2954 1.270274 TGATGTTGTGTGATGCCTTGC 59.730 47.619 0.00 0.00 0.00 4.01
2532 2955 2.670229 GCTGATGTTGTGTGATGCCTTG 60.670 50.000 0.00 0.00 0.00 3.61
2533 2956 1.542915 GCTGATGTTGTGTGATGCCTT 59.457 47.619 0.00 0.00 0.00 4.35
2534 2957 1.171308 GCTGATGTTGTGTGATGCCT 58.829 50.000 0.00 0.00 0.00 4.75
2535 2958 0.883153 TGCTGATGTTGTGTGATGCC 59.117 50.000 0.00 0.00 0.00 4.40
2536 2959 2.710220 TTGCTGATGTTGTGTGATGC 57.290 45.000 0.00 0.00 0.00 3.91
2575 2998 3.442100 GGCTTCAAGATATGCACAAAGC 58.558 45.455 0.00 0.00 45.96 3.51
2576 2999 3.181483 GGGGCTTCAAGATATGCACAAAG 60.181 47.826 0.00 0.00 0.00 2.77
2577 3000 2.760092 GGGGCTTCAAGATATGCACAAA 59.240 45.455 0.00 0.00 0.00 2.83
2578 3001 2.025037 AGGGGCTTCAAGATATGCACAA 60.025 45.455 0.00 0.00 0.00 3.33
2579 3002 1.565759 AGGGGCTTCAAGATATGCACA 59.434 47.619 0.00 0.00 0.00 4.57
2580 3003 2.355010 AGGGGCTTCAAGATATGCAC 57.645 50.000 0.00 0.00 0.00 4.57
2581 3004 4.729552 ATAAGGGGCTTCAAGATATGCA 57.270 40.909 0.00 0.00 0.00 3.96
2582 3005 6.660949 ACATAATAAGGGGCTTCAAGATATGC 59.339 38.462 0.00 0.00 0.00 3.14
2583 3006 7.884877 TCACATAATAAGGGGCTTCAAGATATG 59.115 37.037 0.00 0.00 0.00 1.78
2584 3007 7.988937 TCACATAATAAGGGGCTTCAAGATAT 58.011 34.615 0.00 0.00 0.00 1.63
2585 3008 7.387265 TCACATAATAAGGGGCTTCAAGATA 57.613 36.000 0.00 0.00 0.00 1.98
2586 3009 6.266131 TCACATAATAAGGGGCTTCAAGAT 57.734 37.500 0.00 0.00 0.00 2.40
2587 3010 5.708736 TCACATAATAAGGGGCTTCAAGA 57.291 39.130 0.00 0.00 0.00 3.02
2588 3011 6.064060 TCATCACATAATAAGGGGCTTCAAG 58.936 40.000 0.00 0.00 0.00 3.02
2589 3012 6.012337 TCATCACATAATAAGGGGCTTCAA 57.988 37.500 0.00 0.00 0.00 2.69
2590 3013 5.645056 TCATCACATAATAAGGGGCTTCA 57.355 39.130 0.00 0.00 0.00 3.02
2591 3014 6.064717 AGTTCATCACATAATAAGGGGCTTC 58.935 40.000 0.00 0.00 0.00 3.86
2592 3015 6.018433 AGTTCATCACATAATAAGGGGCTT 57.982 37.500 0.00 0.00 0.00 4.35
2593 3016 5.653255 AGTTCATCACATAATAAGGGGCT 57.347 39.130 0.00 0.00 0.00 5.19
2594 3017 8.409358 AAATAGTTCATCACATAATAAGGGGC 57.591 34.615 0.00 0.00 0.00 5.80
2604 3027 9.842775 ATGTCACATCTAAATAGTTCATCACAT 57.157 29.630 0.00 0.00 0.00 3.21
2605 3028 9.317936 GATGTCACATCTAAATAGTTCATCACA 57.682 33.333 10.81 0.00 30.93 3.58
2606 3029 8.768955 GGATGTCACATCTAAATAGTTCATCAC 58.231 37.037 17.46 0.00 31.54 3.06
2607 3030 8.708378 AGGATGTCACATCTAAATAGTTCATCA 58.292 33.333 17.46 0.00 31.54 3.07
2608 3031 9.553064 AAGGATGTCACATCTAAATAGTTCATC 57.447 33.333 17.46 0.00 0.00 2.92
2611 3034 9.482627 CCTAAGGATGTCACATCTAAATAGTTC 57.517 37.037 17.46 0.00 0.00 3.01
2612 3035 8.432805 CCCTAAGGATGTCACATCTAAATAGTT 58.567 37.037 17.46 3.41 33.47 2.24
2613 3036 7.016661 CCCCTAAGGATGTCACATCTAAATAGT 59.983 40.741 17.46 0.00 38.24 2.12
2614 3037 7.016661 ACCCCTAAGGATGTCACATCTAAATAG 59.983 40.741 17.46 13.05 39.89 1.73
2615 3038 6.849697 ACCCCTAAGGATGTCACATCTAAATA 59.150 38.462 17.46 5.27 39.89 1.40
2616 3039 5.672194 ACCCCTAAGGATGTCACATCTAAAT 59.328 40.000 17.46 4.41 39.89 1.40
2617 3040 5.036916 ACCCCTAAGGATGTCACATCTAAA 58.963 41.667 17.46 2.49 39.89 1.85
2618 3041 4.631234 ACCCCTAAGGATGTCACATCTAA 58.369 43.478 17.46 2.83 39.89 2.10
2619 3042 4.280789 ACCCCTAAGGATGTCACATCTA 57.719 45.455 17.46 2.37 39.89 1.98
2620 3043 3.136641 ACCCCTAAGGATGTCACATCT 57.863 47.619 17.46 1.18 39.89 2.90
2621 3044 3.545703 CAACCCCTAAGGATGTCACATC 58.454 50.000 9.53 9.53 39.89 3.06
2622 3045 3.652057 CAACCCCTAAGGATGTCACAT 57.348 47.619 0.00 0.00 39.89 3.21
2628 3051 3.449746 TCCAAACAACCCCTAAGGATG 57.550 47.619 0.00 0.00 43.97 3.51
3048 3488 1.384989 AAGGAGCGATGGTCGACGAT 61.385 55.000 13.28 13.28 43.74 3.73
3222 3680 1.825090 ACGAGCATGCAAGGAATCAA 58.175 45.000 21.98 0.00 0.00 2.57
3328 3788 0.107165 GTCCTTCCTGCCATACCCAC 60.107 60.000 0.00 0.00 0.00 4.61
3348 3808 6.316140 TCATGCTAACAGCCAAATTACTAGTG 59.684 38.462 5.39 0.00 41.51 2.74
3350 3810 6.925610 TCATGCTAACAGCCAAATTACTAG 57.074 37.500 0.00 0.00 41.51 2.57
3368 3828 1.497223 GCTGGAGCACGAGATCATGC 61.497 60.000 8.20 8.20 42.39 4.06


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

AutoCloner maintained by Alex Coulton.