Multiple sequence alignment - TraesCS3D01G021100

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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 TraesCS3D01G021100 chr3D 100.000 2945 0 0 1 2945 7024338 7021394 0.000000e+00 5439
1 TraesCS3D01G021100 chr3A 90.424 1368 81 19 1090 2442 13363467 13364799 0.000000e+00 1755
2 TraesCS3D01G021100 chr3A 83.100 1497 182 38 939 2405 13335793 13334338 0.000000e+00 1297
3 TraesCS3D01G021100 chr3A 88.749 871 76 15 1 864 13359020 13359875 0.000000e+00 1046
4 TraesCS3D01G021100 chr3A 91.121 214 8 2 2455 2667 13364875 13365078 2.240000e-71 279
5 TraesCS3D01G021100 chr3A 87.854 247 15 4 857 1102 13363055 13363287 2.890000e-70 276
6 TraesCS3D01G021100 chr3A 95.238 63 1 2 2672 2733 13365401 13365462 6.720000e-17 99
7 TraesCS3D01G021100 chr2D 80.415 1445 204 37 993 2391 14970624 14972035 0.000000e+00 1027
8 TraesCS3D01G021100 chr2D 78.168 1397 230 44 1018 2364 572404261 572405632 0.000000e+00 821
9 TraesCS3D01G021100 chr2D 79.327 1040 163 35 1364 2372 18325997 18327015 0.000000e+00 682
10 TraesCS3D01G021100 chr2D 82.740 365 45 9 991 1343 18325657 18326015 2.850000e-80 309
11 TraesCS3D01G021100 chr2D 92.308 182 14 0 2734 2915 522752395 522752214 2.910000e-65 259
12 TraesCS3D01G021100 chr2B 80.069 1450 212 49 993 2391 27010049 27011472 0.000000e+00 1005
13 TraesCS3D01G021100 chr2B 78.466 1421 202 47 998 2371 26925243 26926606 0.000000e+00 833
14 TraesCS3D01G021100 chr2B 78.270 1399 225 49 1018 2364 687634075 687635446 0.000000e+00 826
15 TraesCS3D01G021100 chr2B 86.809 235 28 3 2159 2391 26930021 26930254 2.910000e-65 259
16 TraesCS3D01G021100 chr2A 79.824 1477 214 36 993 2412 17118125 17119574 0.000000e+00 1000
17 TraesCS3D01G021100 chr2A 77.810 1397 235 45 1018 2364 711855900 711857271 0.000000e+00 793
18 TraesCS3D01G021100 chr3B 87.976 840 52 19 615 1425 8523046 8522227 0.000000e+00 946
19 TraesCS3D01G021100 chr3B 83.108 592 60 28 2096 2675 8521929 8521366 1.220000e-138 503
20 TraesCS3D01G021100 chr3B 92.013 313 16 2 1699 2011 8522225 8521922 5.830000e-117 431
21 TraesCS3D01G021100 chr3B 91.611 298 24 1 1 298 8525351 8525055 7.600000e-111 411
22 TraesCS3D01G021100 chr3B 90.945 254 20 3 368 621 8525047 8524797 3.640000e-89 339
23 TraesCS3D01G021100 chr7B 79.741 1392 211 38 1013 2364 712766784 712768144 0.000000e+00 942
24 TraesCS3D01G021100 chr4D 75.214 1404 267 55 1013 2369 489506623 489507992 9.090000e-165 590
25 TraesCS3D01G021100 chr1B 75.070 1420 253 58 1013 2364 603604435 603605821 4.260000e-158 568
26 TraesCS3D01G021100 chr1D 77.137 1041 172 45 1380 2373 476249211 476248190 7.180000e-151 544
27 TraesCS3D01G021100 chr1D 91.351 185 16 0 2731 2915 458763226 458763410 1.350000e-63 254
28 TraesCS3D01G021100 chr1D 89.340 197 20 1 2723 2919 471759266 471759071 2.270000e-61 246
29 TraesCS3D01G021100 chr5D 97.802 182 4 0 2734 2915 535728034 535728215 6.130000e-82 315
30 TraesCS3D01G021100 chr5D 95.833 192 7 1 2725 2916 344567235 344567425 2.850000e-80 309
31 TraesCS3D01G021100 chr6D 92.513 187 9 4 2734 2919 133481455 133481637 2.250000e-66 263
32 TraesCS3D01G021100 chr6D 91.351 185 16 0 2731 2915 112815918 112815734 1.350000e-63 254
33 TraesCS3D01G021100 chr6D 91.304 184 16 0 2732 2915 348607205 348607388 4.870000e-63 252
34 TraesCS3D01G021100 chr6D 90.576 191 16 2 2726 2914 436404216 436404406 4.870000e-63 252
35 TraesCS3D01G021100 chr5A 74.447 407 83 13 1013 1413 671096881 671096490 3.930000e-34 156


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 TraesCS3D01G021100 chr3D 7021394 7024338 2944 True 5439.0 5439 100.0000 1 2945 1 chr3D.!!$R1 2944
1 TraesCS3D01G021100 chr3A 13334338 13335793 1455 True 1297.0 1297 83.1000 939 2405 1 chr3A.!!$R1 1466
2 TraesCS3D01G021100 chr3A 13359020 13365462 6442 False 691.0 1755 90.6772 1 2733 5 chr3A.!!$F1 2732
3 TraesCS3D01G021100 chr2D 14970624 14972035 1411 False 1027.0 1027 80.4150 993 2391 1 chr2D.!!$F1 1398
4 TraesCS3D01G021100 chr2D 572404261 572405632 1371 False 821.0 821 78.1680 1018 2364 1 chr2D.!!$F2 1346
5 TraesCS3D01G021100 chr2D 18325657 18327015 1358 False 495.5 682 81.0335 991 2372 2 chr2D.!!$F3 1381
6 TraesCS3D01G021100 chr2B 27010049 27011472 1423 False 1005.0 1005 80.0690 993 2391 1 chr2B.!!$F1 1398
7 TraesCS3D01G021100 chr2B 687634075 687635446 1371 False 826.0 826 78.2700 1018 2364 1 chr2B.!!$F2 1346
8 TraesCS3D01G021100 chr2B 26925243 26930254 5011 False 546.0 833 82.6375 998 2391 2 chr2B.!!$F3 1393
9 TraesCS3D01G021100 chr2A 17118125 17119574 1449 False 1000.0 1000 79.8240 993 2412 1 chr2A.!!$F1 1419
10 TraesCS3D01G021100 chr2A 711855900 711857271 1371 False 793.0 793 77.8100 1018 2364 1 chr2A.!!$F2 1346
11 TraesCS3D01G021100 chr3B 8521366 8525351 3985 True 526.0 946 89.1306 1 2675 5 chr3B.!!$R1 2674
12 TraesCS3D01G021100 chr7B 712766784 712768144 1360 False 942.0 942 79.7410 1013 2364 1 chr7B.!!$F1 1351
13 TraesCS3D01G021100 chr4D 489506623 489507992 1369 False 590.0 590 75.2140 1013 2369 1 chr4D.!!$F1 1356
14 TraesCS3D01G021100 chr1B 603604435 603605821 1386 False 568.0 568 75.0700 1013 2364 1 chr1B.!!$F1 1351
15 TraesCS3D01G021100 chr1D 476248190 476249211 1021 True 544.0 544 77.1370 1380 2373 1 chr1D.!!$R2 993

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
267 270 0.333312 GAGGAGGAGGTGACAGAGGA 59.667 60.0 0.0 0.0 0.00 3.71 F
451 455 0.519077 GCTCTTTGCGGGAGTTTCAG 59.481 55.0 0.0 0.0 33.73 3.02 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1692 7009 0.679505 GGTGCCCATAGCTGACGATA 59.320 55.0 0.00 0.0 44.23 2.92 R
2427 11468 0.586319 AGTTGGCACGTCAACATTCG 59.414 50.0 18.86 0.0 46.74 3.34 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
51 52 2.009051 CAGATGGACGCTTGCAACATA 58.991 47.619 0.00 0.00 0.00 2.29
88 89 3.194116 CACCTCCAGCTTGCATAATGTTT 59.806 43.478 0.00 0.00 0.00 2.83
118 119 4.264172 ACATGGGCCTTTAGTCACCAATTA 60.264 41.667 4.53 0.00 34.45 1.40
178 179 1.603802 CGATGACAACACCAAGCAGTT 59.396 47.619 0.00 0.00 0.00 3.16
267 270 0.333312 GAGGAGGAGGTGACAGAGGA 59.667 60.000 0.00 0.00 0.00 3.71
290 293 1.978455 TTGCAGAGGTGGTGTCGGTT 61.978 55.000 0.00 0.00 0.00 4.44
298 301 2.112297 GGTGTCGGTTGGCTCCAA 59.888 61.111 0.00 0.00 0.00 3.53
318 321 3.159213 ACTCCATGCCAATGAGACAAA 57.841 42.857 3.31 0.00 35.67 2.83
327 330 3.823304 GCCAATGAGACAAAGAAAGGAGT 59.177 43.478 0.00 0.00 0.00 3.85
342 345 5.368989 GAAAGGAGTTTCTCAAGGAAGACA 58.631 41.667 0.00 0.00 39.30 3.41
343 346 5.574970 AAGGAGTTTCTCAAGGAAGACAT 57.425 39.130 0.00 0.00 35.16 3.06
344 347 4.904241 AGGAGTTTCTCAAGGAAGACATG 58.096 43.478 0.00 0.00 35.16 3.21
369 373 4.467795 TGTGGTTGGAAGAGGATTCTAGAG 59.532 45.833 0.00 0.00 31.96 2.43
451 455 0.519077 GCTCTTTGCGGGAGTTTCAG 59.481 55.000 0.00 0.00 33.73 3.02
454 458 2.786564 CTTTGCGGGAGTTTCAGCGC 62.787 60.000 0.00 0.00 0.00 5.92
500 504 4.486090 TCCTTCTCTTTGAGAAATCGACG 58.514 43.478 10.63 0.00 46.18 5.12
547 551 7.230309 CCTTCCTTCTCTTTGAGAAATCAACTT 59.770 37.037 10.63 0.00 46.18 2.66
605 609 4.487019 TCACGCATACATCGAACAACTTA 58.513 39.130 0.00 0.00 0.00 2.24
606 610 5.106442 TCACGCATACATCGAACAACTTAT 58.894 37.500 0.00 0.00 0.00 1.73
607 611 5.579119 TCACGCATACATCGAACAACTTATT 59.421 36.000 0.00 0.00 0.00 1.40
708 2470 3.181493 GCCCAATGTGAAGTTCATGCTAG 60.181 47.826 9.18 0.00 0.00 3.42
746 2508 3.884091 ACCTCCGCTCATATATCCGTATC 59.116 47.826 0.00 0.00 0.00 2.24
756 2518 9.457110 GCTCATATATCCGTATCTAGACAAATG 57.543 37.037 0.00 0.00 0.00 2.32
763 2525 8.658499 ATCCGTATCTAGACAAATGTAAAACC 57.342 34.615 0.00 0.00 0.00 3.27
766 2528 7.762615 CCGTATCTAGACAAATGTAAAACCAGA 59.237 37.037 0.00 0.00 0.00 3.86
767 2529 9.314321 CGTATCTAGACAAATGTAAAACCAGAT 57.686 33.333 0.00 0.00 0.00 2.90
769 2531 7.921786 TCTAGACAAATGTAAAACCAGATGG 57.078 36.000 0.00 0.00 42.17 3.51
798 2563 5.066893 GGTGGGAGTATTAAATTCGGGTTTC 59.933 44.000 0.00 0.00 0.00 2.78
821 2586 6.395629 TCGGTAAGATTTCAGTTTAGACCAG 58.604 40.000 0.00 0.00 0.00 4.00
833 2598 5.413833 CAGTTTAGACCAGTCATGCTCAAAT 59.586 40.000 0.00 0.00 0.00 2.32
877 5829 7.855784 ACCAAATATCCTTTTCCAAAGTTCT 57.144 32.000 0.00 0.00 0.00 3.01
894 5849 9.760660 CCAAAGTTCTGATTATTTAAGAAGACG 57.239 33.333 0.00 0.00 30.84 4.18
897 5852 9.706691 AAGTTCTGATTATTTAAGAAGACGTGA 57.293 29.630 0.00 0.00 30.84 4.35
898 5853 9.706691 AGTTCTGATTATTTAAGAAGACGTGAA 57.293 29.630 0.00 0.00 30.84 3.18
1416 6673 2.667108 GGTCCGGTCCTTCTTCCCC 61.667 68.421 10.82 0.00 0.00 4.81
1441 6698 4.980805 GGCTGTTCGGCGTGGACA 62.981 66.667 6.85 9.85 0.00 4.02
1592 6882 1.333931 TGAGATCAGCCGTCGTGATAC 59.666 52.381 0.00 0.00 34.69 2.24
1647 6958 1.002134 CCGCAGGTGGTTCCTTGAT 60.002 57.895 0.00 0.00 45.67 2.57
1692 7009 1.683011 CCATTCGCCAAACTGGAGGAT 60.683 52.381 0.00 0.00 40.96 3.24
1964 7339 2.750350 GGCATACCAGCGGGCTAT 59.250 61.111 1.46 0.00 37.90 2.97
2090 7468 3.501548 GACGAGGCGAGCGAGAGT 61.502 66.667 4.61 0.00 0.00 3.24
2099 7477 1.153862 GAGCGAGAGTGACAGGCTG 60.154 63.158 14.16 14.16 33.40 4.85
2311 11347 3.092511 GAGCATGGCCCTGGAGGA 61.093 66.667 10.28 0.00 38.24 3.71
2427 11468 2.801113 TACTGGCCGTGTTACGCGTC 62.801 60.000 18.63 1.99 40.91 5.19
2459 11581 1.072806 TGCCAACTGCTCAAGATGTCT 59.927 47.619 0.00 0.00 42.00 3.41
2468 11590 4.840271 TGCTCAAGATGTCTGATTGATGT 58.160 39.130 0.00 0.00 32.82 3.06
2498 11620 2.787473 TCCTGATTGACATGGACACC 57.213 50.000 0.00 0.00 0.00 4.16
2518 11640 2.507484 CAGAAAGGTTGACATGCTCCA 58.493 47.619 0.00 0.00 0.00 3.86
2519 11641 3.087031 CAGAAAGGTTGACATGCTCCAT 58.913 45.455 0.00 0.00 0.00 3.41
2520 11642 3.087031 AGAAAGGTTGACATGCTCCATG 58.913 45.455 3.80 3.80 46.18 3.66
2579 11701 5.347635 TGTCGAGTCATGTTAAGTGTAATGC 59.652 40.000 0.00 0.00 0.00 3.56
2704 12145 2.803492 GCTAGCACCCTATCAACCGAAG 60.803 54.545 10.63 0.00 0.00 3.79
2733 12174 8.344446 ACTTCCACCCAACTTTATATGTAAAC 57.656 34.615 0.00 0.00 0.00 2.01
2734 12175 7.945664 ACTTCCACCCAACTTTATATGTAAACA 59.054 33.333 0.00 0.00 0.00 2.83
2735 12176 7.931578 TCCACCCAACTTTATATGTAAACAG 57.068 36.000 0.00 0.00 0.00 3.16
2736 12177 7.463431 TCCACCCAACTTTATATGTAAACAGT 58.537 34.615 0.00 0.00 0.00 3.55
2737 12178 7.945664 TCCACCCAACTTTATATGTAAACAGTT 59.054 33.333 0.00 0.00 0.00 3.16
2738 12179 8.581578 CCACCCAACTTTATATGTAAACAGTTT 58.418 33.333 3.49 3.49 0.00 2.66
2739 12180 9.974980 CACCCAACTTTATATGTAAACAGTTTT 57.025 29.630 3.25 0.00 0.00 2.43
2740 12181 9.974980 ACCCAACTTTATATGTAAACAGTTTTG 57.025 29.630 3.25 0.00 0.00 2.44
2741 12182 8.921670 CCCAACTTTATATGTAAACAGTTTTGC 58.078 33.333 3.25 0.00 0.00 3.68
2742 12183 9.691362 CCAACTTTATATGTAAACAGTTTTGCT 57.309 29.630 3.25 0.00 0.00 3.91
2750 12191 6.281848 TGTAAACAGTTTTGCTAAGTCTCG 57.718 37.500 3.25 0.00 0.00 4.04
2751 12192 4.813296 AAACAGTTTTGCTAAGTCTCGG 57.187 40.909 0.00 0.00 0.00 4.63
2752 12193 3.470645 ACAGTTTTGCTAAGTCTCGGT 57.529 42.857 0.00 0.00 0.00 4.69
2753 12194 3.391049 ACAGTTTTGCTAAGTCTCGGTC 58.609 45.455 0.00 0.00 0.00 4.79
2754 12195 2.408704 CAGTTTTGCTAAGTCTCGGTCG 59.591 50.000 0.00 0.00 0.00 4.79
2755 12196 2.295349 AGTTTTGCTAAGTCTCGGTCGA 59.705 45.455 0.00 0.00 0.00 4.20
2756 12197 2.342910 TTTGCTAAGTCTCGGTCGAC 57.657 50.000 7.13 7.13 0.00 4.20
2757 12198 1.531423 TTGCTAAGTCTCGGTCGACT 58.469 50.000 16.46 0.00 45.73 4.18
2763 12204 2.766345 AGTCTCGGTCGACTTAGACT 57.234 50.000 30.71 30.71 41.27 3.24
2764 12205 3.056588 AGTCTCGGTCGACTTAGACTT 57.943 47.619 30.71 21.24 44.81 3.01
2765 12206 3.002102 AGTCTCGGTCGACTTAGACTTC 58.998 50.000 30.71 16.95 44.81 3.01
2766 12207 1.998315 TCTCGGTCGACTTAGACTTCG 59.002 52.381 16.46 7.86 40.76 3.79
2767 12208 1.731160 CTCGGTCGACTTAGACTTCGT 59.269 52.381 16.46 0.00 40.76 3.85
2768 12209 2.146342 TCGGTCGACTTAGACTTCGTT 58.854 47.619 16.46 0.00 40.76 3.85
2769 12210 3.325870 TCGGTCGACTTAGACTTCGTTA 58.674 45.455 16.46 0.00 40.76 3.18
2770 12211 3.935203 TCGGTCGACTTAGACTTCGTTAT 59.065 43.478 16.46 0.00 40.76 1.89
2771 12212 4.027065 CGGTCGACTTAGACTTCGTTATG 58.973 47.826 16.46 0.00 40.76 1.90
2772 12213 4.436584 CGGTCGACTTAGACTTCGTTATGT 60.437 45.833 16.46 0.00 40.76 2.29
2773 12214 5.027099 GGTCGACTTAGACTTCGTTATGTC 58.973 45.833 16.46 0.00 40.76 3.06
2774 12215 5.163774 GGTCGACTTAGACTTCGTTATGTCT 60.164 44.000 16.46 0.00 44.56 3.41
2775 12216 5.958949 GTCGACTTAGACTTCGTTATGTCTC 59.041 44.000 8.70 0.00 41.92 3.36
2776 12217 5.640783 TCGACTTAGACTTCGTTATGTCTCA 59.359 40.000 0.00 0.00 41.92 3.27
2777 12218 5.960683 CGACTTAGACTTCGTTATGTCTCAG 59.039 44.000 0.00 0.00 41.92 3.35
2778 12219 6.402334 CGACTTAGACTTCGTTATGTCTCAGT 60.402 42.308 8.97 8.97 45.06 3.41
2779 12220 6.844254 ACTTAGACTTCGTTATGTCTCAGTC 58.156 40.000 0.00 0.00 41.23 3.51
2780 12221 4.343811 AGACTTCGTTATGTCTCAGTCG 57.656 45.455 0.00 0.00 39.04 4.18
2781 12222 4.001652 AGACTTCGTTATGTCTCAGTCGA 58.998 43.478 0.00 0.00 39.04 4.20
2782 12223 4.636648 AGACTTCGTTATGTCTCAGTCGAT 59.363 41.667 0.00 0.00 39.04 3.59
2783 12224 4.663166 ACTTCGTTATGTCTCAGTCGATG 58.337 43.478 0.00 0.00 0.00 3.84
2784 12225 4.156190 ACTTCGTTATGTCTCAGTCGATGT 59.844 41.667 0.00 0.00 33.39 3.06
2785 12226 4.696899 TCGTTATGTCTCAGTCGATGTT 57.303 40.909 0.00 0.00 0.00 2.71
2786 12227 5.806366 TCGTTATGTCTCAGTCGATGTTA 57.194 39.130 0.00 0.00 0.00 2.41
2787 12228 6.373186 TCGTTATGTCTCAGTCGATGTTAT 57.627 37.500 0.00 0.00 0.00 1.89
2788 12229 6.199393 TCGTTATGTCTCAGTCGATGTTATG 58.801 40.000 0.00 0.00 0.00 1.90
2789 12230 5.971792 CGTTATGTCTCAGTCGATGTTATGT 59.028 40.000 0.00 0.00 0.00 2.29
2790 12231 6.472486 CGTTATGTCTCAGTCGATGTTATGTT 59.528 38.462 0.00 0.00 0.00 2.71
2791 12232 7.642586 CGTTATGTCTCAGTCGATGTTATGTTA 59.357 37.037 0.00 0.00 0.00 2.41
2792 12233 9.464714 GTTATGTCTCAGTCGATGTTATGTTAT 57.535 33.333 0.00 0.00 0.00 1.89
2796 12237 9.463443 TGTCTCAGTCGATGTTATGTTATATTG 57.537 33.333 0.00 0.00 0.00 1.90
2797 12238 9.678941 GTCTCAGTCGATGTTATGTTATATTGA 57.321 33.333 0.00 0.00 0.00 2.57
2803 12244 9.746711 GTCGATGTTATGTTATATTGATCTTGC 57.253 33.333 0.00 0.00 0.00 4.01
2804 12245 9.487790 TCGATGTTATGTTATATTGATCTTGCA 57.512 29.630 0.00 0.00 0.00 4.08
2818 12259 7.451501 TTGATCTTGCATTGAGATTTGTACA 57.548 32.000 1.03 0.00 34.13 2.90
2819 12260 7.451501 TGATCTTGCATTGAGATTTGTACAA 57.548 32.000 3.59 3.59 34.13 2.41
2820 12261 7.307694 TGATCTTGCATTGAGATTTGTACAAC 58.692 34.615 8.07 0.00 34.13 3.32
2821 12262 6.631971 TCTTGCATTGAGATTTGTACAACA 57.368 33.333 8.07 0.00 0.00 3.33
2822 12263 7.036996 TCTTGCATTGAGATTTGTACAACAA 57.963 32.000 8.07 9.65 36.11 2.83
2823 12264 7.660112 TCTTGCATTGAGATTTGTACAACAAT 58.340 30.769 8.07 11.53 38.00 2.71
2824 12265 8.143193 TCTTGCATTGAGATTTGTACAACAATT 58.857 29.630 15.67 1.31 38.00 2.32
2825 12266 8.659925 TTGCATTGAGATTTGTACAACAATTT 57.340 26.923 15.67 2.15 38.00 1.82
2826 12267 8.296799 TGCATTGAGATTTGTACAACAATTTC 57.703 30.769 15.67 10.24 38.00 2.17
2827 12268 8.143193 TGCATTGAGATTTGTACAACAATTTCT 58.857 29.630 15.67 10.18 38.00 2.52
2828 12269 8.981647 GCATTGAGATTTGTACAACAATTTCTT 58.018 29.630 15.67 2.20 38.00 2.52
2870 12311 9.856488 TTCTTTCCATATACTATATCGCTTGAC 57.144 33.333 0.00 0.00 0.00 3.18
2871 12312 9.244292 TCTTTCCATATACTATATCGCTTGACT 57.756 33.333 0.00 0.00 0.00 3.41
2872 12313 9.295214 CTTTCCATATACTATATCGCTTGACTG 57.705 37.037 0.00 0.00 0.00 3.51
2873 12314 8.575649 TTCCATATACTATATCGCTTGACTGA 57.424 34.615 0.00 0.00 0.00 3.41
2874 12315 8.214721 TCCATATACTATATCGCTTGACTGAG 57.785 38.462 0.00 0.00 0.00 3.35
2875 12316 8.047310 TCCATATACTATATCGCTTGACTGAGA 58.953 37.037 0.00 0.00 0.00 3.27
2876 12317 8.126074 CCATATACTATATCGCTTGACTGAGAC 58.874 40.741 0.00 0.00 0.00 3.36
2877 12318 8.888716 CATATACTATATCGCTTGACTGAGACT 58.111 37.037 0.00 0.00 0.00 3.24
2878 12319 7.753309 ATACTATATCGCTTGACTGAGACTT 57.247 36.000 0.00 0.00 0.00 3.01
2879 12320 5.826586 ACTATATCGCTTGACTGAGACTTG 58.173 41.667 0.00 0.00 0.00 3.16
2880 12321 2.376808 ATCGCTTGACTGAGACTTGG 57.623 50.000 0.00 0.00 0.00 3.61
2881 12322 1.040646 TCGCTTGACTGAGACTTGGT 58.959 50.000 0.00 0.00 0.00 3.67
2882 12323 1.412710 TCGCTTGACTGAGACTTGGTT 59.587 47.619 0.00 0.00 0.00 3.67
2883 12324 2.626266 TCGCTTGACTGAGACTTGGTTA 59.374 45.455 0.00 0.00 0.00 2.85
2884 12325 3.069016 TCGCTTGACTGAGACTTGGTTAA 59.931 43.478 0.00 0.00 0.00 2.01
2885 12326 3.430218 CGCTTGACTGAGACTTGGTTAAG 59.570 47.826 0.00 8.10 39.86 1.85
2898 12339 5.770417 ACTTGGTTAAGTCTAAGTCGACTG 58.230 41.667 20.85 7.79 43.53 3.51
2899 12340 5.533903 ACTTGGTTAAGTCTAAGTCGACTGA 59.466 40.000 20.85 11.31 43.53 3.41
2900 12341 5.624344 TGGTTAAGTCTAAGTCGACTGAG 57.376 43.478 22.32 22.32 43.14 3.35
2901 12342 5.311265 TGGTTAAGTCTAAGTCGACTGAGA 58.689 41.667 26.12 26.12 43.14 3.27
2907 12348 4.757594 GTCTAAGTCGACTGAGACCTAGA 58.242 47.826 37.98 26.95 45.01 2.43
2908 12349 4.757594 TCTAAGTCGACTGAGACCTAGAC 58.242 47.826 26.12 0.00 38.53 2.59
2909 12350 3.420300 AAGTCGACTGAGACCTAGACA 57.580 47.619 20.85 0.00 41.83 3.41
2910 12351 2.702261 AGTCGACTGAGACCTAGACAC 58.298 52.381 19.30 0.00 41.83 3.67
2911 12352 2.038689 AGTCGACTGAGACCTAGACACA 59.961 50.000 19.30 0.00 41.83 3.72
2912 12353 2.160022 GTCGACTGAGACCTAGACACAC 59.840 54.545 8.70 0.00 35.22 3.82
2913 12354 1.469308 CGACTGAGACCTAGACACACC 59.531 57.143 0.00 0.00 0.00 4.16
2914 12355 1.819903 GACTGAGACCTAGACACACCC 59.180 57.143 0.00 0.00 0.00 4.61
2915 12356 1.147191 ACTGAGACCTAGACACACCCA 59.853 52.381 0.00 0.00 0.00 4.51
2916 12357 2.225394 ACTGAGACCTAGACACACCCAT 60.225 50.000 0.00 0.00 0.00 4.00
2917 12358 3.011369 ACTGAGACCTAGACACACCCATA 59.989 47.826 0.00 0.00 0.00 2.74
2918 12359 4.219115 CTGAGACCTAGACACACCCATAT 58.781 47.826 0.00 0.00 0.00 1.78
2919 12360 3.960755 TGAGACCTAGACACACCCATATG 59.039 47.826 0.00 0.00 0.00 1.78
2920 12361 3.961408 GAGACCTAGACACACCCATATGT 59.039 47.826 1.24 0.00 0.00 2.29
2921 12362 5.138276 GAGACCTAGACACACCCATATGTA 58.862 45.833 1.24 0.00 0.00 2.29
2922 12363 5.525484 AGACCTAGACACACCCATATGTAA 58.475 41.667 1.24 0.00 0.00 2.41
2923 12364 5.962031 AGACCTAGACACACCCATATGTAAA 59.038 40.000 1.24 0.00 0.00 2.01
2924 12365 6.098409 AGACCTAGACACACCCATATGTAAAG 59.902 42.308 1.24 0.00 0.00 1.85
2925 12366 5.057149 CCTAGACACACCCATATGTAAAGC 58.943 45.833 1.24 0.00 0.00 3.51
2926 12367 3.886123 AGACACACCCATATGTAAAGCC 58.114 45.455 1.24 0.00 0.00 4.35
2927 12368 2.612212 GACACACCCATATGTAAAGCCG 59.388 50.000 1.24 0.00 0.00 5.52
2928 12369 1.333619 CACACCCATATGTAAAGCCGC 59.666 52.381 1.24 0.00 0.00 6.53
2929 12370 1.065053 ACACCCATATGTAAAGCCGCA 60.065 47.619 1.24 0.00 0.00 5.69
2930 12371 1.333619 CACCCATATGTAAAGCCGCAC 59.666 52.381 1.24 0.00 0.00 5.34
2931 12372 1.065053 ACCCATATGTAAAGCCGCACA 60.065 47.619 1.24 0.00 0.00 4.57
2932 12373 1.603802 CCCATATGTAAAGCCGCACAG 59.396 52.381 1.24 0.00 0.00 3.66
2933 12374 1.002468 CCATATGTAAAGCCGCACAGC 60.002 52.381 1.24 0.00 0.00 4.40
2934 12375 1.002468 CATATGTAAAGCCGCACAGCC 60.002 52.381 0.00 0.00 0.00 4.85
2935 12376 0.035915 TATGTAAAGCCGCACAGCCA 60.036 50.000 0.00 0.00 0.00 4.75
2936 12377 0.893270 ATGTAAAGCCGCACAGCCAA 60.893 50.000 0.00 0.00 0.00 4.52
2937 12378 1.103987 TGTAAAGCCGCACAGCCAAA 61.104 50.000 0.00 0.00 0.00 3.28
2938 12379 0.243636 GTAAAGCCGCACAGCCAAAT 59.756 50.000 0.00 0.00 0.00 2.32
2939 12380 1.470890 GTAAAGCCGCACAGCCAAATA 59.529 47.619 0.00 0.00 0.00 1.40
2940 12381 0.527565 AAAGCCGCACAGCCAAATAG 59.472 50.000 0.00 0.00 0.00 1.73
2941 12382 0.322456 AAGCCGCACAGCCAAATAGA 60.322 50.000 0.00 0.00 0.00 1.98
2942 12383 0.107017 AGCCGCACAGCCAAATAGAT 60.107 50.000 0.00 0.00 0.00 1.98
2943 12384 1.140852 AGCCGCACAGCCAAATAGATA 59.859 47.619 0.00 0.00 0.00 1.98
2944 12385 1.264288 GCCGCACAGCCAAATAGATAC 59.736 52.381 0.00 0.00 0.00 2.24
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
7 8 0.461516 TAGACGAGATGACGCGACCT 60.462 55.000 15.93 0.00 41.48 3.85
12 13 0.655048 GCGACTAGACGAGATGACGC 60.655 60.000 18.63 0.00 38.23 5.19
51 52 2.046892 GTGACTGCCGCATGGTCT 60.047 61.111 12.49 0.00 37.67 3.85
88 89 0.250945 TAAAGGCCCATGTGTTCGCA 60.251 50.000 0.00 0.00 0.00 5.10
178 179 3.378602 TGGAGCCGCGTTGAGCTA 61.379 61.111 4.92 0.00 45.59 3.32
184 185 2.678934 TAGAGGTGGAGCCGCGTT 60.679 61.111 4.92 0.00 42.28 4.84
267 270 1.680338 GACACCACCTCTGCAAGTTT 58.320 50.000 0.00 0.00 33.76 2.66
290 293 2.356278 GGCATGGAGTTGGAGCCA 59.644 61.111 0.00 0.00 44.59 4.75
298 301 2.885135 TTGTCTCATTGGCATGGAGT 57.115 45.000 13.51 0.00 0.00 3.85
299 302 3.349927 TCTTTGTCTCATTGGCATGGAG 58.650 45.455 9.04 9.04 0.00 3.86
300 303 3.438216 TCTTTGTCTCATTGGCATGGA 57.562 42.857 0.00 0.00 0.00 3.41
301 304 4.491676 CTTTCTTTGTCTCATTGGCATGG 58.508 43.478 0.00 0.00 0.00 3.66
302 305 4.219070 TCCTTTCTTTGTCTCATTGGCATG 59.781 41.667 0.00 0.00 0.00 4.06
303 306 4.410099 TCCTTTCTTTGTCTCATTGGCAT 58.590 39.130 0.00 0.00 0.00 4.40
327 330 5.005740 CCACATCATGTCTTCCTTGAGAAA 58.994 41.667 0.00 0.00 32.88 2.52
333 336 3.074390 TCCAACCACATCATGTCTTCCTT 59.926 43.478 0.00 0.00 0.00 3.36
334 337 2.644299 TCCAACCACATCATGTCTTCCT 59.356 45.455 0.00 0.00 0.00 3.36
339 342 3.012518 CCTCTTCCAACCACATCATGTC 58.987 50.000 0.00 0.00 0.00 3.06
342 345 4.229123 AGAATCCTCTTCCAACCACATCAT 59.771 41.667 0.00 0.00 0.00 2.45
343 346 3.588842 AGAATCCTCTTCCAACCACATCA 59.411 43.478 0.00 0.00 0.00 3.07
344 347 4.227864 AGAATCCTCTTCCAACCACATC 57.772 45.455 0.00 0.00 0.00 3.06
369 373 2.090663 ACTCTCCCTCCACCTTATACCC 60.091 54.545 0.00 0.00 0.00 3.69
417 421 3.168528 AGCACCCCTCCAACACGT 61.169 61.111 0.00 0.00 0.00 4.49
458 462 3.927142 GGAACAGAGACATCGTGTTTAGG 59.073 47.826 4.72 0.00 34.55 2.69
547 551 5.843673 TGCCTGAAAACTGAATTTGTGTA 57.156 34.783 0.00 0.00 0.00 2.90
708 2470 3.665190 GGAGGTTGTACTAGCATATGCC 58.335 50.000 23.96 8.92 43.38 4.40
763 2525 0.914644 ACTCCCACCATCACCATCTG 59.085 55.000 0.00 0.00 0.00 2.90
766 2528 5.725551 TTTAATACTCCCACCATCACCAT 57.274 39.130 0.00 0.00 0.00 3.55
767 2529 5.725551 ATTTAATACTCCCACCATCACCA 57.274 39.130 0.00 0.00 0.00 4.17
768 2530 5.238650 CGAATTTAATACTCCCACCATCACC 59.761 44.000 0.00 0.00 0.00 4.02
769 2531 5.238650 CCGAATTTAATACTCCCACCATCAC 59.761 44.000 0.00 0.00 0.00 3.06
771 2533 4.760204 CCCGAATTTAATACTCCCACCATC 59.240 45.833 0.00 0.00 0.00 3.51
798 2563 6.164176 ACTGGTCTAAACTGAAATCTTACCG 58.836 40.000 0.00 0.00 0.00 4.02
821 2586 9.102757 TCTAATCTTTCACTATTTGAGCATGAC 57.897 33.333 0.00 0.00 34.94 3.06
833 2598 8.458573 TTTGGTTGCTTTCTAATCTTTCACTA 57.541 30.769 0.00 0.00 0.00 2.74
877 5829 8.717821 CCACTTTCACGTCTTCTTAAATAATCA 58.282 33.333 0.00 0.00 0.00 2.57
894 5849 1.652563 GCCGTGGTTCCACTTTCAC 59.347 57.895 18.07 1.79 35.03 3.18
895 5850 1.527380 GGCCGTGGTTCCACTTTCA 60.527 57.895 18.07 0.00 35.03 2.69
896 5851 2.613506 CGGCCGTGGTTCCACTTTC 61.614 63.158 19.50 8.01 35.03 2.62
897 5852 2.593436 CGGCCGTGGTTCCACTTT 60.593 61.111 19.50 0.00 35.03 2.66
898 5853 3.868985 ACGGCCGTGGTTCCACTT 61.869 61.111 33.75 0.00 35.03 3.16
899 5854 4.619227 CACGGCCGTGGTTCCACT 62.619 66.667 43.64 12.18 42.00 4.00
995 5950 0.654683 GACGACATGGCTCATCTTGC 59.345 55.000 0.00 0.00 0.00 4.01
1397 6654 2.577593 GGAAGAAGGACCGGACCG 59.422 66.667 17.44 6.99 34.73 4.79
1416 6673 4.796231 CCGAACAGCCCGTCGAGG 62.796 72.222 0.00 0.00 40.63 4.63
1554 6811 3.454447 TCTCAGACCAGGTGTTGAAGAAA 59.546 43.478 0.00 0.00 0.00 2.52
1692 7009 0.679505 GGTGCCCATAGCTGACGATA 59.320 55.000 0.00 0.00 44.23 2.92
1891 7266 4.680237 TTGTGCTCTGGTCCGGCG 62.680 66.667 0.00 0.00 0.00 6.46
1892 7267 3.050275 GTTGTGCTCTGGTCCGGC 61.050 66.667 0.00 0.00 0.00 6.13
2099 7477 4.476752 TTACCCGCCCATGACGCC 62.477 66.667 0.00 0.00 0.00 5.68
2427 11468 0.586319 AGTTGGCACGTCAACATTCG 59.414 50.000 18.86 0.00 46.74 3.34
2459 11581 4.164796 AGGATCAACTGCCTACATCAATCA 59.835 41.667 0.00 0.00 31.31 2.57
2468 11590 3.519107 TGTCAATCAGGATCAACTGCCTA 59.481 43.478 0.00 0.00 38.36 3.93
2498 11620 2.507484 TGGAGCATGTCAACCTTTCTG 58.493 47.619 0.00 0.00 0.00 3.02
2518 11640 4.443978 AGGCAGCATTATTGAGGTACAT 57.556 40.909 0.00 0.00 0.00 2.29
2519 11641 3.931907 AGGCAGCATTATTGAGGTACA 57.068 42.857 0.00 0.00 0.00 2.90
2520 11642 5.335191 GCATAAGGCAGCATTATTGAGGTAC 60.335 44.000 9.63 0.00 43.97 3.34
2521 11643 4.761739 GCATAAGGCAGCATTATTGAGGTA 59.238 41.667 9.63 0.00 43.97 3.08
2522 11644 3.571401 GCATAAGGCAGCATTATTGAGGT 59.429 43.478 9.63 0.00 43.97 3.85
2523 11645 4.170292 GCATAAGGCAGCATTATTGAGG 57.830 45.455 9.63 0.54 43.97 3.86
2690 12130 4.434520 GAAGTCTTCTTCGGTTGATAGGG 58.565 47.826 5.27 0.00 40.24 3.53
2704 12145 6.884836 ACATATAAAGTTGGGTGGAAGTCTTC 59.115 38.462 3.80 3.80 0.00 2.87
2733 12174 2.408704 CGACCGAGACTTAGCAAAACTG 59.591 50.000 0.00 0.00 0.00 3.16
2734 12175 2.295349 TCGACCGAGACTTAGCAAAACT 59.705 45.455 0.00 0.00 0.00 2.66
2735 12176 2.407696 GTCGACCGAGACTTAGCAAAAC 59.592 50.000 3.51 0.00 38.09 2.43
2736 12177 2.669364 GTCGACCGAGACTTAGCAAAA 58.331 47.619 3.51 0.00 38.09 2.44
2737 12178 2.342910 GTCGACCGAGACTTAGCAAA 57.657 50.000 3.51 0.00 38.09 3.68
2744 12185 6.877357 ACGAAGTCTAAGTCGACCGAGACT 62.877 50.000 30.41 30.41 46.99 3.24
2745 12186 2.222774 CGAAGTCTAAGTCGACCGAGAC 60.223 54.545 27.91 27.91 39.64 3.36
2746 12187 1.998315 CGAAGTCTAAGTCGACCGAGA 59.002 52.381 13.01 12.34 39.64 4.04
2747 12188 1.731160 ACGAAGTCTAAGTCGACCGAG 59.269 52.381 13.01 9.98 29.74 4.63
2748 12189 1.800805 ACGAAGTCTAAGTCGACCGA 58.199 50.000 13.01 3.70 29.74 4.69
2749 12190 2.608467 AACGAAGTCTAAGTCGACCG 57.392 50.000 13.01 8.48 45.00 4.79
2750 12191 4.979388 ACATAACGAAGTCTAAGTCGACC 58.021 43.478 13.01 0.00 45.00 4.79
2751 12192 5.867166 AGACATAACGAAGTCTAAGTCGAC 58.133 41.667 7.70 7.70 45.00 4.20
2752 12193 5.640783 TGAGACATAACGAAGTCTAAGTCGA 59.359 40.000 0.00 0.00 45.00 4.20
2753 12194 5.866075 TGAGACATAACGAAGTCTAAGTCG 58.134 41.667 0.00 0.00 45.00 4.18
2755 12196 6.821031 ACTGAGACATAACGAAGTCTAAGT 57.179 37.500 6.74 6.74 46.82 2.24
2756 12197 5.960683 CGACTGAGACATAACGAAGTCTAAG 59.039 44.000 5.59 5.59 45.00 2.18
2757 12198 5.640783 TCGACTGAGACATAACGAAGTCTAA 59.359 40.000 0.00 0.00 45.00 2.10
2758 12199 5.173664 TCGACTGAGACATAACGAAGTCTA 58.826 41.667 0.00 0.00 45.00 2.59
2759 12200 4.001652 TCGACTGAGACATAACGAAGTCT 58.998 43.478 0.00 0.00 45.00 3.24
2760 12201 4.337985 TCGACTGAGACATAACGAAGTC 57.662 45.455 0.00 0.00 45.00 3.01
2762 12203 4.663166 ACATCGACTGAGACATAACGAAG 58.337 43.478 0.00 0.00 33.77 3.79
2763 12204 4.696899 ACATCGACTGAGACATAACGAA 57.303 40.909 0.00 0.00 33.77 3.85
2764 12205 4.696899 AACATCGACTGAGACATAACGA 57.303 40.909 0.00 0.00 0.00 3.85
2765 12206 5.971792 ACATAACATCGACTGAGACATAACG 59.028 40.000 0.00 0.00 0.00 3.18
2766 12207 7.757097 AACATAACATCGACTGAGACATAAC 57.243 36.000 0.00 0.00 0.00 1.89
2770 12211 9.463443 CAATATAACATAACATCGACTGAGACA 57.537 33.333 0.00 0.00 0.00 3.41
2771 12212 9.678941 TCAATATAACATAACATCGACTGAGAC 57.321 33.333 0.00 0.00 0.00 3.36
2777 12218 9.746711 GCAAGATCAATATAACATAACATCGAC 57.253 33.333 0.00 0.00 0.00 4.20
2778 12219 9.487790 TGCAAGATCAATATAACATAACATCGA 57.512 29.630 0.00 0.00 0.00 3.59
2792 12233 9.176460 TGTACAAATCTCAATGCAAGATCAATA 57.824 29.630 0.00 0.00 32.29 1.90
2793 12234 8.058667 TGTACAAATCTCAATGCAAGATCAAT 57.941 30.769 0.00 0.00 32.29 2.57
2794 12235 7.451501 TGTACAAATCTCAATGCAAGATCAA 57.548 32.000 0.00 0.00 32.29 2.57
2795 12236 7.040548 TGTTGTACAAATCTCAATGCAAGATCA 60.041 33.333 10.51 0.00 32.29 2.92
2796 12237 7.307694 TGTTGTACAAATCTCAATGCAAGATC 58.692 34.615 10.51 0.00 32.29 2.75
2797 12238 7.218228 TGTTGTACAAATCTCAATGCAAGAT 57.782 32.000 10.51 0.00 34.96 2.40
2798 12239 6.631971 TGTTGTACAAATCTCAATGCAAGA 57.368 33.333 10.51 0.00 0.00 3.02
2799 12240 7.878477 ATTGTTGTACAAATCTCAATGCAAG 57.122 32.000 16.90 0.00 41.96 4.01
2800 12241 8.659925 AAATTGTTGTACAAATCTCAATGCAA 57.340 26.923 17.84 11.91 41.96 4.08
2801 12242 8.143193 AGAAATTGTTGTACAAATCTCAATGCA 58.857 29.630 17.84 4.76 41.96 3.96
2802 12243 8.524870 AGAAATTGTTGTACAAATCTCAATGC 57.475 30.769 17.84 14.12 41.96 3.56
2844 12285 9.856488 GTCAAGCGATATAGTATATGGAAAGAA 57.144 33.333 14.42 0.00 0.00 2.52
2845 12286 9.244292 AGTCAAGCGATATAGTATATGGAAAGA 57.756 33.333 14.42 6.57 0.00 2.52
2846 12287 9.295214 CAGTCAAGCGATATAGTATATGGAAAG 57.705 37.037 14.42 4.77 0.00 2.62
2847 12288 9.020731 TCAGTCAAGCGATATAGTATATGGAAA 57.979 33.333 14.42 0.00 0.00 3.13
2848 12289 8.575649 TCAGTCAAGCGATATAGTATATGGAA 57.424 34.615 14.42 0.00 0.00 3.53
2849 12290 8.047310 TCTCAGTCAAGCGATATAGTATATGGA 58.953 37.037 14.42 0.57 0.00 3.41
2850 12291 8.126074 GTCTCAGTCAAGCGATATAGTATATGG 58.874 40.741 7.41 7.51 0.00 2.74
2851 12292 8.888716 AGTCTCAGTCAAGCGATATAGTATATG 58.111 37.037 7.41 2.18 0.00 1.78
2852 12293 9.456147 AAGTCTCAGTCAAGCGATATAGTATAT 57.544 33.333 2.12 2.12 0.00 0.86
2853 12294 8.722394 CAAGTCTCAGTCAAGCGATATAGTATA 58.278 37.037 0.00 0.00 0.00 1.47
2854 12295 7.308891 CCAAGTCTCAGTCAAGCGATATAGTAT 60.309 40.741 0.00 0.00 0.00 2.12
2855 12296 6.017026 CCAAGTCTCAGTCAAGCGATATAGTA 60.017 42.308 0.00 0.00 0.00 1.82
2856 12297 5.221145 CCAAGTCTCAGTCAAGCGATATAGT 60.221 44.000 0.00 0.00 0.00 2.12
2857 12298 5.218885 CCAAGTCTCAGTCAAGCGATATAG 58.781 45.833 0.00 0.00 0.00 1.31
2858 12299 4.645136 ACCAAGTCTCAGTCAAGCGATATA 59.355 41.667 0.00 0.00 0.00 0.86
2859 12300 3.449018 ACCAAGTCTCAGTCAAGCGATAT 59.551 43.478 0.00 0.00 0.00 1.63
2860 12301 2.826128 ACCAAGTCTCAGTCAAGCGATA 59.174 45.455 0.00 0.00 0.00 2.92
2861 12302 1.620819 ACCAAGTCTCAGTCAAGCGAT 59.379 47.619 0.00 0.00 0.00 4.58
2862 12303 1.040646 ACCAAGTCTCAGTCAAGCGA 58.959 50.000 0.00 0.00 0.00 4.93
2863 12304 1.871080 AACCAAGTCTCAGTCAAGCG 58.129 50.000 0.00 0.00 0.00 4.68
2864 12305 4.381411 ACTTAACCAAGTCTCAGTCAAGC 58.619 43.478 0.00 0.00 41.25 4.01
2885 12326 4.757594 TCTAGGTCTCAGTCGACTTAGAC 58.242 47.826 35.91 35.91 43.41 2.59
2886 12327 4.222366 TGTCTAGGTCTCAGTCGACTTAGA 59.778 45.833 22.49 22.49 44.96 2.10
2887 12328 4.330620 GTGTCTAGGTCTCAGTCGACTTAG 59.669 50.000 17.26 18.13 41.99 2.18
2888 12329 4.252073 GTGTCTAGGTCTCAGTCGACTTA 58.748 47.826 17.26 7.41 34.38 2.24
2889 12330 3.075884 GTGTCTAGGTCTCAGTCGACTT 58.924 50.000 17.26 2.43 34.38 3.01
2890 12331 2.038689 TGTGTCTAGGTCTCAGTCGACT 59.961 50.000 13.58 13.58 34.38 4.18
2891 12332 2.160022 GTGTGTCTAGGTCTCAGTCGAC 59.840 54.545 7.70 7.70 0.00 4.20
2892 12333 2.424557 GTGTGTCTAGGTCTCAGTCGA 58.575 52.381 0.00 0.00 0.00 4.20
2893 12334 1.469308 GGTGTGTCTAGGTCTCAGTCG 59.531 57.143 0.00 0.00 0.00 4.18
2894 12335 1.819903 GGGTGTGTCTAGGTCTCAGTC 59.180 57.143 0.00 0.00 0.00 3.51
2895 12336 1.147191 TGGGTGTGTCTAGGTCTCAGT 59.853 52.381 0.00 0.00 0.00 3.41
2896 12337 1.924731 TGGGTGTGTCTAGGTCTCAG 58.075 55.000 0.00 0.00 0.00 3.35
2897 12338 2.623418 ATGGGTGTGTCTAGGTCTCA 57.377 50.000 0.00 0.00 0.00 3.27
2898 12339 3.961408 ACATATGGGTGTGTCTAGGTCTC 59.039 47.826 7.80 0.00 0.00 3.36
2899 12340 3.995636 ACATATGGGTGTGTCTAGGTCT 58.004 45.455 7.80 0.00 0.00 3.85
2900 12341 5.864418 TTACATATGGGTGTGTCTAGGTC 57.136 43.478 7.80 0.00 33.62 3.85
2901 12342 5.396436 GCTTTACATATGGGTGTGTCTAGGT 60.396 44.000 7.80 0.00 33.62 3.08
2902 12343 5.057149 GCTTTACATATGGGTGTGTCTAGG 58.943 45.833 7.80 0.00 33.62 3.02
2903 12344 5.057149 GGCTTTACATATGGGTGTGTCTAG 58.943 45.833 7.80 0.00 33.62 2.43
2904 12345 4.442332 CGGCTTTACATATGGGTGTGTCTA 60.442 45.833 7.80 0.00 33.62 2.59
2905 12346 3.681594 CGGCTTTACATATGGGTGTGTCT 60.682 47.826 7.80 0.00 33.62 3.41
2906 12347 2.612212 CGGCTTTACATATGGGTGTGTC 59.388 50.000 7.80 0.00 33.62 3.67
2907 12348 2.639065 CGGCTTTACATATGGGTGTGT 58.361 47.619 7.80 0.00 33.62 3.72
2908 12349 1.333619 GCGGCTTTACATATGGGTGTG 59.666 52.381 7.80 0.00 33.62 3.82
2909 12350 1.065053 TGCGGCTTTACATATGGGTGT 60.065 47.619 7.80 0.00 36.13 4.16
2910 12351 1.333619 GTGCGGCTTTACATATGGGTG 59.666 52.381 7.80 0.00 0.00 4.61
2911 12352 1.065053 TGTGCGGCTTTACATATGGGT 60.065 47.619 7.80 0.00 0.00 4.51
2912 12353 1.603802 CTGTGCGGCTTTACATATGGG 59.396 52.381 7.80 0.00 0.00 4.00
2913 12354 1.002468 GCTGTGCGGCTTTACATATGG 60.002 52.381 7.80 0.00 0.00 2.74
2914 12355 1.002468 GGCTGTGCGGCTTTACATATG 60.002 52.381 0.00 0.00 34.85 1.78
2915 12356 1.308998 GGCTGTGCGGCTTTACATAT 58.691 50.000 0.00 0.00 34.85 1.78
2916 12357 0.035915 TGGCTGTGCGGCTTTACATA 60.036 50.000 0.00 0.00 39.32 2.29
2917 12358 0.893270 TTGGCTGTGCGGCTTTACAT 60.893 50.000 0.00 0.00 39.32 2.29
2918 12359 1.103987 TTTGGCTGTGCGGCTTTACA 61.104 50.000 0.00 0.00 39.32 2.41
2919 12360 0.243636 ATTTGGCTGTGCGGCTTTAC 59.756 50.000 0.00 0.00 39.32 2.01
2920 12361 1.742831 CTATTTGGCTGTGCGGCTTTA 59.257 47.619 0.00 0.00 39.32 1.85
2921 12362 0.527565 CTATTTGGCTGTGCGGCTTT 59.472 50.000 0.00 0.00 39.32 3.51
2922 12363 0.322456 TCTATTTGGCTGTGCGGCTT 60.322 50.000 0.00 0.00 39.32 4.35
2923 12364 0.107017 ATCTATTTGGCTGTGCGGCT 60.107 50.000 0.00 0.00 39.32 5.52
2924 12365 1.264288 GTATCTATTTGGCTGTGCGGC 59.736 52.381 0.00 0.00 38.97 6.53


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

AutoCloner maintained by Alex Coulton.