Multiple sequence alignment - TraesCS5D01G335500

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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 TraesCS5D01G335500 chr5D 100.000 3693 0 0 1 3693 424665063 424661371 0.000000e+00 6820.0
1 TraesCS5D01G335500 chr5D 89.304 2141 186 23 1 2135 424782328 424780225 0.000000e+00 2645.0
2 TraesCS5D01G335500 chr5B 96.221 2249 60 18 1 2229 513737831 513735588 0.000000e+00 3659.0
3 TraesCS5D01G335500 chr5B 90.302 629 60 1 3066 3693 513734482 513733854 0.000000e+00 822.0
4 TraesCS5D01G335500 chr5B 93.622 392 15 3 2430 2821 513735510 513735129 8.890000e-161 577.0
5 TraesCS5D01G335500 chr5B 83.654 208 20 1 2820 3027 513734673 513734480 2.270000e-42 183.0
6 TraesCS5D01G335500 chr5A 94.951 1327 58 5 824 2142 538583585 538582260 0.000000e+00 2071.0
7 TraesCS5D01G335500 chr5A 91.952 1429 105 7 717 2141 538758774 538757352 0.000000e+00 1993.0
8 TraesCS5D01G335500 chr5A 85.789 570 67 7 2431 2992 538582046 538581483 3.180000e-165 592.0
9 TraesCS5D01G335500 chr5A 88.750 400 39 5 4 399 538759367 538758970 5.550000e-133 484.0
10 TraesCS5D01G335500 chr5A 89.644 309 24 7 497 799 538583889 538583583 1.610000e-103 387.0
11 TraesCS5D01G335500 chr5A 87.597 258 26 2 3436 3693 538487283 538487032 1.000000e-75 294.0
12 TraesCS5D01G335500 chr5A 89.785 186 11 6 497 679 538758960 538758780 7.980000e-57 231.0
13 TraesCS5D01G335500 chr5A 84.925 199 21 3 2137 2326 538757308 538757110 3.760000e-45 193.0
14 TraesCS5D01G335500 chr5A 93.548 93 6 0 2137 2229 538582217 538582125 4.970000e-29 139.0
15 TraesCS5D01G335500 chr5A 87.500 56 6 1 2980 3035 693662334 693662388 3.080000e-06 63.9
16 TraesCS5D01G335500 chrUn 93.218 1268 78 3 875 2135 303983037 303981771 0.000000e+00 1858.0
17 TraesCS5D01G335500 chrUn 93.218 1268 78 3 875 2135 356552694 356553960 0.000000e+00 1858.0
18 TraesCS5D01G335500 chrUn 87.418 763 81 13 1 757 349172392 349173145 0.000000e+00 863.0
19 TraesCS5D01G335500 chrUn 87.287 763 82 13 1 757 437496890 437497643 0.000000e+00 857.0
20 TraesCS5D01G335500 chrUn 87.699 691 72 11 72 757 468700675 468699993 0.000000e+00 793.0
21 TraesCS5D01G335500 chr3B 76.658 407 82 9 3099 3503 689697095 689697490 2.890000e-51 213.0
22 TraesCS5D01G335500 chr2D 86.628 172 20 3 3092 3261 522504120 522504290 1.750000e-43 187.0
23 TraesCS5D01G335500 chr2D 80.631 222 38 3 3154 3374 16594641 16594858 2.280000e-37 167.0
24 TraesCS5D01G335500 chr3D 85.635 181 21 5 3090 3267 603433090 603433268 6.300000e-43 185.0
25 TraesCS5D01G335500 chr7D 82.857 210 28 7 3081 3284 379936013 379936220 8.150000e-42 182.0
26 TraesCS5D01G335500 chr2A 79.688 256 46 4 3157 3410 18390714 18390965 2.930000e-41 180.0
27 TraesCS5D01G335500 chr2A 85.227 88 13 0 2948 3035 670638997 670638910 1.410000e-14 91.6
28 TraesCS5D01G335500 chr1B 84.091 176 26 2 3089 3263 571679581 571679407 6.340000e-38 169.0
29 TraesCS5D01G335500 chr1D 82.178 202 25 8 3095 3286 3951061 3950861 2.950000e-36 163.0
30 TraesCS5D01G335500 chr6A 78.970 233 46 2 3090 3322 583393257 583393028 4.940000e-34 156.0
31 TraesCS5D01G335500 chr4B 89.474 76 8 0 3550 3625 505556184 505556109 3.040000e-16 97.1
32 TraesCS5D01G335500 chr3A 80.723 83 16 0 2926 3008 378335161 378335243 8.560000e-07 65.8
33 TraesCS5D01G335500 chr1A 83.333 66 11 0 2972 3037 469775782 469775847 1.110000e-05 62.1
34 TraesCS5D01G335500 chr7B 84.746 59 9 0 2979 3037 217620433 217620375 3.980000e-05 60.2


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 TraesCS5D01G335500 chr5D 424661371 424665063 3692 True 6820.00 6820 100.00000 1 3693 1 chr5D.!!$R1 3692
1 TraesCS5D01G335500 chr5D 424780225 424782328 2103 True 2645.00 2645 89.30400 1 2135 1 chr5D.!!$R2 2134
2 TraesCS5D01G335500 chr5B 513733854 513737831 3977 True 1310.25 3659 90.94975 1 3693 4 chr5B.!!$R1 3692
3 TraesCS5D01G335500 chr5A 538581483 538583889 2406 True 797.25 2071 90.98300 497 2992 4 chr5A.!!$R2 2495
4 TraesCS5D01G335500 chr5A 538757110 538759367 2257 True 725.25 1993 88.85300 4 2326 4 chr5A.!!$R3 2322
5 TraesCS5D01G335500 chrUn 303981771 303983037 1266 True 1858.00 1858 93.21800 875 2135 1 chrUn.!!$R1 1260
6 TraesCS5D01G335500 chrUn 356552694 356553960 1266 False 1858.00 1858 93.21800 875 2135 1 chrUn.!!$F2 1260
7 TraesCS5D01G335500 chrUn 349172392 349173145 753 False 863.00 863 87.41800 1 757 1 chrUn.!!$F1 756
8 TraesCS5D01G335500 chrUn 437496890 437497643 753 False 857.00 857 87.28700 1 757 1 chrUn.!!$F3 756
9 TraesCS5D01G335500 chrUn 468699993 468700675 682 True 793.00 793 87.69900 72 757 1 chrUn.!!$R2 685

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
62 63 0.753479 TTCTTGGCGGCAAGTTGGAA 60.753 50.000 40.01 28.47 34.07 3.53 F
129 131 0.916086 TCCGTGGCTATGTTCCCAAT 59.084 50.000 0.00 0.00 31.90 3.16 F
1399 1429 1.471501 CGGCCGACAAGAATCTCATCA 60.472 52.381 24.07 0.00 0.00 3.07 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1359 1389 0.612744 TGTCCATGATCTCGTTGCCA 59.387 50.0 0.00 0.0 0.00 4.92 R
2225 2322 0.960364 TCGAGGATTTGTTGCCTGCC 60.960 55.0 0.00 0.0 33.84 4.85 R
3215 3785 0.034059 GAGGATGAGTACGGCATGGG 59.966 60.0 8.68 0.0 0.00 4.00 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
26 27 2.484241 GGGTGTGTTTTGAGGTAGTCGT 60.484 50.000 0.00 0.00 0.00 4.34
52 53 2.932614 CTCATGTACTTCTTCTTGGCGG 59.067 50.000 0.00 0.00 0.00 6.13
62 63 0.753479 TTCTTGGCGGCAAGTTGGAA 60.753 50.000 40.01 28.47 34.07 3.53
129 131 0.916086 TCCGTGGCTATGTTCCCAAT 59.084 50.000 0.00 0.00 31.90 3.16
196 199 2.049248 CACGCAAACATGTGGGGC 60.049 61.111 0.00 2.60 35.84 5.80
242 245 4.253685 TGATCTGCAAACTAACCACTAGC 58.746 43.478 0.00 0.00 0.00 3.42
299 302 7.441836 TGTATTGGCGAGACATTCATAACTAT 58.558 34.615 0.00 0.00 0.00 2.12
452 457 3.163630 ACCAATGTGTGACAACAAAGC 57.836 42.857 0.00 0.00 38.27 3.51
598 606 8.418662 AGCATCAATATCATTGCTTTTGTACAT 58.581 29.630 0.00 0.00 42.52 2.29
599 607 8.697067 GCATCAATATCATTGCTTTTGTACATC 58.303 33.333 0.00 0.00 32.41 3.06
644 663 6.432162 CCTGATGCTACATTGGTGCTATATTT 59.568 38.462 5.11 0.00 0.00 1.40
743 768 5.068198 GCTTGCATAAGATTCCATTTCTGGA 59.932 40.000 0.00 0.00 41.99 3.86
765 793 2.880268 GGCAACATCTATATGTGCTGCA 59.120 45.455 15.66 0.00 45.53 4.41
1276 1306 3.785859 GCGACATCCCTGGCCTCA 61.786 66.667 3.32 0.00 0.00 3.86
1359 1389 3.125487 CAGATATATCTCTCGTCGCCGTT 59.875 47.826 12.50 0.00 34.22 4.44
1399 1429 1.471501 CGGCCGACAAGAATCTCATCA 60.472 52.381 24.07 0.00 0.00 3.07
1827 1857 2.734591 GCGATGGACGGGCAGATA 59.265 61.111 0.00 0.00 42.83 1.98
2106 2155 2.682856 ACAATGCAAGTTGTTCTGACGT 59.317 40.909 4.48 0.00 39.15 4.34
2249 2355 1.818674 GGCAACAAATCCTCGACCAAT 59.181 47.619 0.00 0.00 0.00 3.16
2257 2363 0.895530 TCCTCGACCAATGACAGGAC 59.104 55.000 0.00 0.00 0.00 3.85
2261 2367 2.047274 ACCAATGACAGGACGCCG 60.047 61.111 0.00 0.00 0.00 6.46
2262 2368 2.819595 CCAATGACAGGACGCCGG 60.820 66.667 0.00 0.00 0.00 6.13
2326 2432 3.138304 TCGGATTTTGACAGGACACTTG 58.862 45.455 0.00 0.00 0.00 3.16
2327 2433 2.350772 CGGATTTTGACAGGACACTTGC 60.351 50.000 0.00 0.00 0.00 4.01
2328 2434 2.622942 GGATTTTGACAGGACACTTGCA 59.377 45.455 0.00 0.00 0.00 4.08
2329 2435 3.256631 GGATTTTGACAGGACACTTGCAT 59.743 43.478 0.00 0.00 0.00 3.96
2330 2436 3.988379 TTTTGACAGGACACTTGCATC 57.012 42.857 0.00 0.00 0.00 3.91
2331 2437 1.511850 TTGACAGGACACTTGCATCG 58.488 50.000 0.00 0.00 0.00 3.84
2332 2438 0.678950 TGACAGGACACTTGCATCGA 59.321 50.000 0.00 0.00 0.00 3.59
2333 2439 1.276138 TGACAGGACACTTGCATCGAT 59.724 47.619 0.00 0.00 0.00 3.59
2334 2440 1.662629 GACAGGACACTTGCATCGATG 59.337 52.381 21.27 21.27 0.00 3.84
2335 2441 1.012086 CAGGACACTTGCATCGATGG 58.988 55.000 26.00 12.53 0.00 3.51
2336 2442 0.904649 AGGACACTTGCATCGATGGA 59.095 50.000 26.00 21.56 0.00 3.41
2337 2443 1.278985 AGGACACTTGCATCGATGGAA 59.721 47.619 27.56 27.56 36.65 3.53
2338 2444 2.092753 AGGACACTTGCATCGATGGAAT 60.093 45.455 29.13 17.02 37.49 3.01
2339 2445 2.684881 GGACACTTGCATCGATGGAATT 59.315 45.455 29.13 22.18 37.49 2.17
2340 2446 3.129287 GGACACTTGCATCGATGGAATTT 59.871 43.478 29.13 17.94 37.49 1.82
2341 2447 4.100529 GACACTTGCATCGATGGAATTTG 58.899 43.478 29.13 27.51 37.49 2.32
2342 2448 3.758023 ACACTTGCATCGATGGAATTTGA 59.242 39.130 31.00 15.16 37.49 2.69
2343 2449 4.100529 CACTTGCATCGATGGAATTTGAC 58.899 43.478 29.13 10.16 37.49 3.18
2344 2450 3.181507 ACTTGCATCGATGGAATTTGACG 60.182 43.478 29.13 19.45 37.49 4.35
2345 2451 2.355197 TGCATCGATGGAATTTGACGT 58.645 42.857 26.00 0.00 0.00 4.34
2346 2452 2.095692 TGCATCGATGGAATTTGACGTG 59.904 45.455 26.00 0.00 0.00 4.49
2347 2453 2.095853 GCATCGATGGAATTTGACGTGT 59.904 45.455 26.00 0.00 0.00 4.49
2348 2454 3.673366 CATCGATGGAATTTGACGTGTG 58.327 45.455 17.96 0.00 0.00 3.82
2349 2455 1.463056 TCGATGGAATTTGACGTGTGC 59.537 47.619 0.00 0.00 0.00 4.57
2350 2456 1.786575 CGATGGAATTTGACGTGTGCG 60.787 52.381 0.00 0.00 44.93 5.34
2351 2457 0.109781 ATGGAATTTGACGTGTGCGC 60.110 50.000 0.00 0.00 42.83 6.09
2352 2458 1.792057 GGAATTTGACGTGTGCGCG 60.792 57.895 0.00 0.00 42.83 6.86
2353 2459 2.417553 GAATTTGACGTGTGCGCGC 61.418 57.895 27.26 27.26 42.83 6.86
2354 2460 3.872409 AATTTGACGTGTGCGCGCC 62.872 57.895 30.77 20.33 42.83 6.53
2374 2480 2.348998 CGCTTTGCAGGAGGAGGT 59.651 61.111 1.94 0.00 0.00 3.85
2382 2488 1.904990 GCAGGAGGAGGTGGAAGGAC 61.905 65.000 0.00 0.00 0.00 3.85
2383 2489 0.252467 CAGGAGGAGGTGGAAGGACT 60.252 60.000 0.00 0.00 0.00 3.85
2384 2490 0.252467 AGGAGGAGGTGGAAGGACTG 60.252 60.000 0.00 0.00 0.00 3.51
2388 2494 1.651770 AGGAGGTGGAAGGACTGGATA 59.348 52.381 0.00 0.00 0.00 2.59
2392 2498 1.763545 GGTGGAAGGACTGGATACTCC 59.236 57.143 0.00 0.00 36.96 3.85
2399 2505 1.267261 GGACTGGATACTCCGTCATCG 59.733 57.143 15.13 0.00 40.17 3.84
2419 2525 3.760035 GAAGGGCGAGCCGTCAGA 61.760 66.667 9.90 0.00 36.85 3.27
2420 2526 3.296709 GAAGGGCGAGCCGTCAGAA 62.297 63.158 9.90 0.00 36.85 3.02
2421 2527 2.579684 GAAGGGCGAGCCGTCAGAAT 62.580 60.000 9.90 0.00 36.85 2.40
2422 2528 2.125106 GGGCGAGCCGTCAGAATT 60.125 61.111 8.14 0.00 36.85 2.17
2423 2529 2.464459 GGGCGAGCCGTCAGAATTG 61.464 63.158 8.14 0.00 36.85 2.32
2424 2530 2.464459 GGCGAGCCGTCAGAATTGG 61.464 63.158 0.00 0.00 0.00 3.16
2425 2531 1.447838 GCGAGCCGTCAGAATTGGA 60.448 57.895 0.00 0.00 0.00 3.53
2426 2532 1.696832 GCGAGCCGTCAGAATTGGAC 61.697 60.000 0.00 0.00 0.00 4.02
2427 2533 0.108615 CGAGCCGTCAGAATTGGACT 60.109 55.000 5.57 0.00 33.11 3.85
2428 2534 1.646189 GAGCCGTCAGAATTGGACTC 58.354 55.000 5.57 0.00 33.11 3.36
2461 2567 0.810031 GCCAAGGTACGCACATCGAT 60.810 55.000 0.00 0.00 41.67 3.59
2463 2569 0.846401 CAAGGTACGCACATCGATCG 59.154 55.000 9.36 9.36 41.67 3.69
2464 2570 0.736636 AAGGTACGCACATCGATCGA 59.263 50.000 21.86 21.86 41.67 3.59
2466 2572 0.933509 GGTACGCACATCGATCGACC 60.934 60.000 22.06 11.32 41.67 4.79
2468 2574 0.306840 TACGCACATCGATCGACCTC 59.693 55.000 22.06 9.02 41.67 3.85
2493 2599 4.907946 GCATGGTGCATTCGATCG 57.092 55.556 9.36 9.36 44.26 3.69
2496 2602 0.041576 CATGGTGCATTCGATCGCAG 60.042 55.000 11.09 3.50 39.20 5.18
2587 2693 5.127031 TGAGAAAACCAAACCCAAAGAAGAG 59.873 40.000 0.00 0.00 0.00 2.85
2644 2750 2.100749 AGCCACCAACTTTCTTTTTCCG 59.899 45.455 0.00 0.00 0.00 4.30
2792 2898 4.261578 AGACGACGAAAAATTACCCTCA 57.738 40.909 0.00 0.00 0.00 3.86
2794 2900 5.243207 AGACGACGAAAAATTACCCTCATT 58.757 37.500 0.00 0.00 0.00 2.57
2836 3399 5.542779 AGACTGACGTAGAAGAGCATTTTT 58.457 37.500 0.00 0.00 0.00 1.94
2847 3410 4.112634 AGAGCATTTTTGGGTGTAAGGA 57.887 40.909 0.00 0.00 0.00 3.36
2880 3443 4.323336 CGCTCACCACCAAATTTATTTTCG 59.677 41.667 0.00 0.00 0.00 3.46
2888 3451 5.347364 CACCAAATTTATTTTCGCATCCGTT 59.653 36.000 0.00 0.00 35.54 4.44
2889 3452 5.575218 ACCAAATTTATTTTCGCATCCGTTC 59.425 36.000 0.00 0.00 35.54 3.95
2891 3454 4.609691 ATTTATTTTCGCATCCGTTCGT 57.390 36.364 0.00 0.00 35.54 3.85
2900 3463 4.039703 TCGCATCCGTTCGTAGATAAAAG 58.960 43.478 0.00 0.00 35.04 2.27
2901 3464 3.181774 CGCATCCGTTCGTAGATAAAAGG 59.818 47.826 0.00 0.00 35.04 3.11
2903 3466 3.806625 TCCGTTCGTAGATAAAAGGGG 57.193 47.619 0.00 0.00 35.04 4.79
2904 3467 2.159057 TCCGTTCGTAGATAAAAGGGGC 60.159 50.000 0.00 0.00 35.04 5.80
2910 3473 2.434702 CGTAGATAAAAGGGGCCAGTCT 59.565 50.000 4.39 0.00 0.00 3.24
2912 3475 1.064389 AGATAAAAGGGGCCAGTCTGC 60.064 52.381 4.39 0.00 0.00 4.26
2919 3489 2.357034 GGCCAGTCTGCGTCGAAA 60.357 61.111 0.00 0.00 0.00 3.46
2920 3490 1.959226 GGCCAGTCTGCGTCGAAAA 60.959 57.895 0.00 0.00 0.00 2.29
2984 3554 9.090692 GTTTAAACAAATCAGATGGGATTCATG 57.909 33.333 13.51 0.00 36.51 3.07
2994 3564 1.341877 TGGGATTCATGCAAACCGGAT 60.342 47.619 9.46 0.00 0.00 4.18
3005 3575 5.940192 TGCAAACCGGATGATATTCATAC 57.060 39.130 9.46 0.00 37.20 2.39
3008 3578 6.489700 TGCAAACCGGATGATATTCATACAAT 59.510 34.615 9.46 0.00 37.57 2.71
3009 3579 7.023575 GCAAACCGGATGATATTCATACAATC 58.976 38.462 9.46 0.00 37.57 2.67
3014 3584 6.106003 CGGATGATATTCATACAATCCGGAA 58.894 40.000 9.01 0.00 37.57 4.30
3018 3588 6.587273 TGATATTCATACAATCCGGAACACA 58.413 36.000 9.01 0.00 0.00 3.72
3024 3594 3.140325 ACAATCCGGAACACAGTCATT 57.860 42.857 9.01 0.00 0.00 2.57
3025 3595 4.280436 ACAATCCGGAACACAGTCATTA 57.720 40.909 9.01 0.00 0.00 1.90
3026 3596 4.843728 ACAATCCGGAACACAGTCATTAT 58.156 39.130 9.01 0.00 0.00 1.28
3027 3597 5.984725 ACAATCCGGAACACAGTCATTATA 58.015 37.500 9.01 0.00 0.00 0.98
3028 3598 6.591935 ACAATCCGGAACACAGTCATTATAT 58.408 36.000 9.01 0.00 0.00 0.86
3029 3599 7.054124 ACAATCCGGAACACAGTCATTATATT 58.946 34.615 9.01 0.00 0.00 1.28
3030 3600 7.556275 ACAATCCGGAACACAGTCATTATATTT 59.444 33.333 9.01 0.00 0.00 1.40
3031 3601 7.730364 ATCCGGAACACAGTCATTATATTTC 57.270 36.000 9.01 0.00 0.00 2.17
3032 3602 5.751509 TCCGGAACACAGTCATTATATTTCG 59.248 40.000 0.00 0.00 0.00 3.46
3033 3603 5.050363 CCGGAACACAGTCATTATATTTCGG 60.050 44.000 0.00 0.00 0.00 4.30
3034 3604 5.751509 CGGAACACAGTCATTATATTTCGGA 59.248 40.000 0.00 0.00 0.00 4.55
3035 3605 6.292168 CGGAACACAGTCATTATATTTCGGAC 60.292 42.308 0.00 0.00 0.00 4.79
3036 3606 6.537301 GGAACACAGTCATTATATTTCGGACA 59.463 38.462 0.00 0.00 0.00 4.02
3037 3607 6.903883 ACACAGTCATTATATTTCGGACAC 57.096 37.500 0.00 0.00 0.00 3.67
3038 3608 6.640518 ACACAGTCATTATATTTCGGACACT 58.359 36.000 0.00 0.00 0.00 3.55
3039 3609 7.778083 ACACAGTCATTATATTTCGGACACTA 58.222 34.615 0.00 0.00 0.00 2.74
3040 3610 7.705325 ACACAGTCATTATATTTCGGACACTAC 59.295 37.037 0.00 0.00 0.00 2.73
3041 3611 6.916387 ACAGTCATTATATTTCGGACACTACG 59.084 38.462 0.00 0.00 0.00 3.51
3042 3612 6.362551 CAGTCATTATATTTCGGACACTACGG 59.637 42.308 0.00 0.00 0.00 4.02
3043 3613 5.118203 GTCATTATATTTCGGACACTACGGC 59.882 44.000 0.00 0.00 0.00 5.68
3044 3614 2.129823 ATATTTCGGACACTACGGCG 57.870 50.000 4.80 4.80 0.00 6.46
3045 3615 0.101040 TATTTCGGACACTACGGCGG 59.899 55.000 13.24 0.00 0.00 6.13
3046 3616 3.797145 TATTTCGGACACTACGGCGGC 62.797 57.143 13.24 0.00 0.00 6.53
3050 3620 4.112341 GACACTACGGCGGCGTCT 62.112 66.667 40.80 23.81 0.00 4.18
3051 3621 4.415332 ACACTACGGCGGCGTCTG 62.415 66.667 40.80 33.80 0.00 3.51
3052 3622 4.415332 CACTACGGCGGCGTCTGT 62.415 66.667 40.80 33.19 0.00 3.41
3053 3623 4.112341 ACTACGGCGGCGTCTGTC 62.112 66.667 40.80 0.00 0.00 3.51
3054 3624 4.111016 CTACGGCGGCGTCTGTCA 62.111 66.667 40.80 21.90 0.00 3.58
3055 3625 3.411418 CTACGGCGGCGTCTGTCAT 62.411 63.158 40.80 17.23 0.00 3.06
3056 3626 3.405592 TACGGCGGCGTCTGTCATC 62.406 63.158 40.80 0.00 0.00 2.92
3058 3628 4.451150 GGCGGCGTCTGTCATCCA 62.451 66.667 9.37 0.00 0.00 3.41
3059 3629 2.434185 GCGGCGTCTGTCATCCAA 60.434 61.111 9.37 0.00 0.00 3.53
3060 3630 2.456119 GCGGCGTCTGTCATCCAAG 61.456 63.158 9.37 0.00 0.00 3.61
3061 3631 1.079819 CGGCGTCTGTCATCCAAGT 60.080 57.895 0.00 0.00 0.00 3.16
3062 3632 1.078759 CGGCGTCTGTCATCCAAGTC 61.079 60.000 0.00 0.00 0.00 3.01
3063 3633 0.741221 GGCGTCTGTCATCCAAGTCC 60.741 60.000 0.00 0.00 0.00 3.85
3064 3634 0.741221 GCGTCTGTCATCCAAGTCCC 60.741 60.000 0.00 0.00 0.00 4.46
3072 3642 4.843728 TGTCATCCAAGTCCCTATTGTTC 58.156 43.478 0.00 0.00 0.00 3.18
3078 3648 3.267031 CCAAGTCCCTATTGTTCCCTTCT 59.733 47.826 0.00 0.00 0.00 2.85
3079 3649 4.473559 CCAAGTCCCTATTGTTCCCTTCTA 59.526 45.833 0.00 0.00 0.00 2.10
3091 3661 2.413765 CTTCTAGCGGCCGTCTCC 59.586 66.667 28.70 10.05 0.00 3.71
3098 3668 2.835431 CGGCCGTCTCCTCCATCT 60.835 66.667 19.50 0.00 0.00 2.90
3112 3682 1.137675 TCCATCTGCCGTCTTCATGAG 59.862 52.381 0.00 0.00 0.00 2.90
3125 3695 0.184692 TCATGAGTGGTGGTGGCAAA 59.815 50.000 0.00 0.00 0.00 3.68
3128 3698 1.040339 TGAGTGGTGGTGGCAAAACC 61.040 55.000 11.90 11.90 40.94 3.27
3130 3700 0.553819 AGTGGTGGTGGCAAAACCTA 59.446 50.000 17.85 5.12 41.16 3.08
3142 3712 3.826729 GGCAAAACCTATGAAGTGAAGGT 59.173 43.478 0.00 0.00 45.62 3.50
3153 3723 1.374758 GTGAAGGTGCGGTCTCTGG 60.375 63.158 0.00 0.00 0.00 3.86
3157 3727 4.373116 GGTGCGGTCTCTGGCGAA 62.373 66.667 0.00 0.00 0.00 4.70
3178 3748 3.108376 AGAAGGGTAGAACATGGGAGAC 58.892 50.000 0.00 0.00 0.00 3.36
3186 3756 2.758327 CATGGGAGACGGACCGGA 60.758 66.667 20.00 0.00 0.00 5.14
3206 3776 1.535204 CCACTTGGGACACAATGCCC 61.535 60.000 0.00 0.00 44.93 5.36
3254 3824 1.134965 CGGAGGAGTTCATGACCTGTC 60.135 57.143 8.04 0.02 33.89 3.51
3279 3849 2.665185 GGTGCACGTGAGGTCCAC 60.665 66.667 22.23 16.66 42.30 4.02
3313 3883 2.338620 CCGTTGGCACTCTCGTCA 59.661 61.111 0.00 0.00 0.00 4.35
3346 3916 3.360886 CCAAACAGTGTTTGGTGGC 57.639 52.632 41.37 0.00 42.92 5.01
3358 3928 1.846849 TTGGTGGCGTGTACAATGCG 61.847 55.000 13.41 7.49 42.18 4.73
3364 3934 2.986141 CGTGTACAATGCGCAACTG 58.014 52.632 17.11 17.91 0.00 3.16
3365 3935 0.452618 CGTGTACAATGCGCAACTGG 60.453 55.000 17.11 6.81 0.00 4.00
3367 3937 1.169034 TGTACAATGCGCAACTGGCA 61.169 50.000 17.11 14.98 45.17 4.92
3376 3946 0.871163 CGCAACTGGCAGTGTTTTGG 60.871 55.000 22.83 7.98 45.17 3.28
3379 3949 1.750778 CAACTGGCAGTGTTTTGGTCT 59.249 47.619 22.83 0.00 0.00 3.85
3380 3950 1.392589 ACTGGCAGTGTTTTGGTCTG 58.607 50.000 21.37 0.00 0.00 3.51
3410 3980 3.644606 CAGCCAGCACCACCTCCT 61.645 66.667 0.00 0.00 0.00 3.69
3414 3985 2.664081 CCAGCACCACCTCCTCTCC 61.664 68.421 0.00 0.00 0.00 3.71
3420 3991 2.752238 CACCTCCTCTCCGCGTCT 60.752 66.667 4.92 0.00 0.00 4.18
3421 3992 2.752238 ACCTCCTCTCCGCGTCTG 60.752 66.667 4.92 0.00 0.00 3.51
3438 4009 1.617755 CTGACTAAGGCGCACGTGTG 61.618 60.000 24.45 24.45 0.00 3.82
3486 4057 2.959372 TCGTAGAGTGTGTGCCGG 59.041 61.111 0.00 0.00 0.00 6.13
3504 4075 2.660189 GGTCGACGATAAAGTTGGGA 57.340 50.000 9.92 0.00 0.00 4.37
3534 4105 0.591170 GCTGCAACCTCGTGCTTTTA 59.409 50.000 0.00 0.00 45.17 1.52
3535 4106 1.200020 GCTGCAACCTCGTGCTTTTAT 59.800 47.619 0.00 0.00 45.17 1.40
3538 4109 3.146066 TGCAACCTCGTGCTTTTATTCT 58.854 40.909 0.00 0.00 45.17 2.40
3562 4133 0.819259 GCAGACTGTCCCACAAAGCA 60.819 55.000 3.76 0.00 0.00 3.91
3581 4152 4.147449 TCCCGCTCGCAGTCATGG 62.147 66.667 0.00 0.00 0.00 3.66
3595 4166 0.469494 TCATGGCGGATGTAGTGCAT 59.531 50.000 0.00 0.00 41.24 3.96
3620 4191 1.040646 GAGGATGTGGAGCGGATGTA 58.959 55.000 0.00 0.00 0.00 2.29
3631 4202 1.498865 GCGGATGTATTGTGAGCCGG 61.499 60.000 0.00 0.00 39.17 6.13
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
26 27 4.469945 CCAAGAAGAAGTACATGAGGGGTA 59.530 45.833 0.00 0.00 0.00 3.69
52 53 3.933332 ACTATTAGACGCTTCCAACTTGC 59.067 43.478 0.00 0.00 0.00 4.01
62 63 3.684788 CCAAAAGTGCACTATTAGACGCT 59.315 43.478 22.01 0.00 0.00 5.07
100 101 4.526970 ACATAGCCACGGAAATTCATTCT 58.473 39.130 0.00 0.00 38.18 2.40
108 109 0.693622 TGGGAACATAGCCACGGAAA 59.306 50.000 0.00 0.00 33.40 3.13
129 131 1.543065 ATGGCCAAAATCTTGCCGCA 61.543 50.000 10.96 0.00 33.75 5.69
196 199 9.762933 TCATTTTTATTTTGGTTTCTTCTCCTG 57.237 29.630 0.00 0.00 0.00 3.86
242 245 7.979444 AGGTGATAACGGAATATTAATGTGG 57.021 36.000 0.00 0.00 0.00 4.17
452 457 8.831715 AGGTTTAAAGTTGCCATCTAATTTTG 57.168 30.769 0.00 0.00 0.00 2.44
644 663 9.902684 CTCTCCTTATATTATTACTAGGACCGA 57.097 37.037 0.00 0.00 0.00 4.69
661 680 1.149077 GGCCCTCTCCTCTCTCCTTAT 59.851 57.143 0.00 0.00 0.00 1.73
662 681 0.558712 GGCCCTCTCCTCTCTCCTTA 59.441 60.000 0.00 0.00 0.00 2.69
669 688 0.415429 TCAAGAAGGCCCTCTCCTCT 59.585 55.000 3.79 0.00 34.82 3.69
722 747 5.135383 CCTCCAGAAATGGAATCTTATGCA 58.865 41.667 0.00 0.00 37.55 3.96
743 768 3.144506 GCAGCACATATAGATGTTGCCT 58.855 45.455 13.73 3.38 44.18 4.75
765 793 2.658593 GCATCACGAGCGCGGTAT 60.659 61.111 12.41 3.96 43.17 2.73
1359 1389 0.612744 TGTCCATGATCTCGTTGCCA 59.387 50.000 0.00 0.00 0.00 4.92
2225 2322 0.960364 TCGAGGATTTGTTGCCTGCC 60.960 55.000 0.00 0.00 33.84 4.85
2278 2384 4.363990 ACCGTCAGGCGTCAGCTG 62.364 66.667 7.63 7.63 44.37 4.24
2281 2387 3.680786 TGGACCGTCAGGCGTCAG 61.681 66.667 0.00 0.00 42.76 3.51
2326 2432 2.095853 ACACGTCAAATTCCATCGATGC 59.904 45.455 20.25 2.70 0.00 3.91
2327 2433 3.673366 CACACGTCAAATTCCATCGATG 58.327 45.455 18.76 18.76 0.00 3.84
2328 2434 2.095853 GCACACGTCAAATTCCATCGAT 59.904 45.455 0.00 0.00 0.00 3.59
2329 2435 1.463056 GCACACGTCAAATTCCATCGA 59.537 47.619 0.00 0.00 0.00 3.59
2330 2436 1.786575 CGCACACGTCAAATTCCATCG 60.787 52.381 0.00 0.00 33.53 3.84
2331 2437 1.882198 CGCACACGTCAAATTCCATC 58.118 50.000 0.00 0.00 33.53 3.51
2332 2438 0.109781 GCGCACACGTCAAATTCCAT 60.110 50.000 0.30 0.00 42.83 3.41
2333 2439 1.281353 GCGCACACGTCAAATTCCA 59.719 52.632 0.30 0.00 42.83 3.53
2334 2440 1.792057 CGCGCACACGTCAAATTCC 60.792 57.895 8.75 0.00 42.83 3.01
2335 2441 2.417553 GCGCGCACACGTCAAATTC 61.418 57.895 29.10 0.00 42.83 2.17
2336 2442 2.426752 GCGCGCACACGTCAAATT 60.427 55.556 29.10 0.00 42.83 1.82
2337 2443 4.383602 GGCGCGCACACGTCAAAT 62.384 61.111 34.42 0.00 42.83 2.32
2356 2462 3.130160 CCTCCTCCTGCAAAGCGC 61.130 66.667 0.00 0.00 42.89 5.92
2357 2463 2.037136 CACCTCCTCCTGCAAAGCG 61.037 63.158 0.00 0.00 0.00 4.68
2358 2464 1.676967 CCACCTCCTCCTGCAAAGC 60.677 63.158 0.00 0.00 0.00 3.51
2359 2465 0.401738 TTCCACCTCCTCCTGCAAAG 59.598 55.000 0.00 0.00 0.00 2.77
2360 2466 0.401738 CTTCCACCTCCTCCTGCAAA 59.598 55.000 0.00 0.00 0.00 3.68
2361 2467 1.492133 CCTTCCACCTCCTCCTGCAA 61.492 60.000 0.00 0.00 0.00 4.08
2362 2468 1.920325 CCTTCCACCTCCTCCTGCA 60.920 63.158 0.00 0.00 0.00 4.41
2363 2469 1.613630 TCCTTCCACCTCCTCCTGC 60.614 63.158 0.00 0.00 0.00 4.85
2364 2470 0.252467 AGTCCTTCCACCTCCTCCTG 60.252 60.000 0.00 0.00 0.00 3.86
2365 2471 0.252467 CAGTCCTTCCACCTCCTCCT 60.252 60.000 0.00 0.00 0.00 3.69
2406 2512 2.464459 CCAATTCTGACGGCTCGCC 61.464 63.158 0.00 0.00 0.00 5.54
2411 2517 0.389948 ACGAGTCCAATTCTGACGGC 60.390 55.000 0.00 0.00 37.80 5.68
2414 2520 1.201647 TCCGACGAGTCCAATTCTGAC 59.798 52.381 0.00 0.00 0.00 3.51
2415 2521 1.472878 CTCCGACGAGTCCAATTCTGA 59.527 52.381 0.00 0.00 0.00 3.27
2416 2522 1.469940 CCTCCGACGAGTCCAATTCTG 60.470 57.143 0.00 0.00 33.93 3.02
2417 2523 0.818296 CCTCCGACGAGTCCAATTCT 59.182 55.000 0.00 0.00 33.93 2.40
2418 2524 0.806492 GCCTCCGACGAGTCCAATTC 60.806 60.000 0.00 0.00 33.93 2.17
2419 2525 1.218316 GCCTCCGACGAGTCCAATT 59.782 57.895 0.00 0.00 33.93 2.32
2420 2526 1.949847 CTGCCTCCGACGAGTCCAAT 61.950 60.000 0.00 0.00 33.93 3.16
2421 2527 2.599281 TGCCTCCGACGAGTCCAA 60.599 61.111 0.00 0.00 33.93 3.53
2422 2528 3.062466 CTGCCTCCGACGAGTCCA 61.062 66.667 0.00 0.00 33.93 4.02
2423 2529 4.500116 GCTGCCTCCGACGAGTCC 62.500 72.222 0.00 0.00 33.93 3.85
2424 2530 3.691744 CTGCTGCCTCCGACGAGTC 62.692 68.421 0.00 0.00 33.93 3.36
2425 2531 3.753434 CTGCTGCCTCCGACGAGT 61.753 66.667 0.00 0.00 33.93 4.18
2461 2567 1.528339 ATGCATGCATGGAGGTCGA 59.472 52.632 31.74 0.21 35.03 4.20
2496 2602 2.584791 CAACGACCAATTAGCTGTTGC 58.415 47.619 0.00 0.00 40.05 4.17
2620 2726 4.141937 GGAAAAAGAAAGTTGGTGGCTTCT 60.142 41.667 0.00 0.00 0.00 2.85
2792 2898 2.666098 CCCGGAAGACGTGGGGAAT 61.666 63.158 0.73 0.00 42.59 3.01
2818 2924 3.751698 ACCCAAAAATGCTCTTCTACGTC 59.248 43.478 0.00 0.00 0.00 4.34
2836 3399 2.304761 GTTGGAGATGTCCTTACACCCA 59.695 50.000 10.72 0.00 44.30 4.51
2847 3410 0.320771 GTGGTGAGCGTTGGAGATGT 60.321 55.000 0.00 0.00 0.00 3.06
2880 3443 3.493503 CCCTTTTATCTACGAACGGATGC 59.506 47.826 0.00 0.00 0.00 3.91
2888 3451 2.433239 GACTGGCCCCTTTTATCTACGA 59.567 50.000 0.00 0.00 0.00 3.43
2889 3452 2.434702 AGACTGGCCCCTTTTATCTACG 59.565 50.000 0.00 0.00 0.00 3.51
2891 3454 2.172717 GCAGACTGGCCCCTTTTATCTA 59.827 50.000 0.00 0.00 0.00 1.98
2901 3464 3.876589 TTTCGACGCAGACTGGCCC 62.877 63.158 0.00 0.00 0.00 5.80
2903 3466 1.204312 GTTTTCGACGCAGACTGGC 59.796 57.895 4.26 0.00 0.00 4.85
2904 3467 1.487231 CGTTTTCGACGCAGACTGG 59.513 57.895 4.26 0.00 45.86 4.00
2919 3489 4.080243 TGTGGGTATTATTGGATGACCGTT 60.080 41.667 0.00 0.00 39.42 4.44
2920 3490 3.456644 TGTGGGTATTATTGGATGACCGT 59.543 43.478 0.00 0.00 39.42 4.83
2933 3503 7.996644 ACTTGGTTCGAAATATATGTGGGTATT 59.003 33.333 0.00 0.00 0.00 1.89
2984 3554 5.940192 TGTATGAATATCATCCGGTTTGC 57.060 39.130 0.00 0.00 38.26 3.68
2994 3564 6.587273 TGTGTTCCGGATTGTATGAATATCA 58.413 36.000 4.15 0.00 0.00 2.15
3005 3575 7.496529 AATATAATGACTGTGTTCCGGATTG 57.503 36.000 4.15 0.00 0.00 2.67
3008 3578 5.751509 CGAAATATAATGACTGTGTTCCGGA 59.248 40.000 0.00 0.00 0.00 5.14
3009 3579 5.050363 CCGAAATATAATGACTGTGTTCCGG 60.050 44.000 0.00 0.00 0.00 5.14
3014 3584 6.640518 AGTGTCCGAAATATAATGACTGTGT 58.359 36.000 0.00 0.00 0.00 3.72
3018 3588 6.444633 CCGTAGTGTCCGAAATATAATGACT 58.555 40.000 0.00 0.00 0.00 3.41
3024 3594 2.030893 CCGCCGTAGTGTCCGAAATATA 60.031 50.000 0.00 0.00 0.00 0.86
3025 3595 1.269413 CCGCCGTAGTGTCCGAAATAT 60.269 52.381 0.00 0.00 0.00 1.28
3026 3596 0.101040 CCGCCGTAGTGTCCGAAATA 59.899 55.000 0.00 0.00 0.00 1.40
3027 3597 1.153706 CCGCCGTAGTGTCCGAAAT 60.154 57.895 0.00 0.00 0.00 2.17
3028 3598 2.259204 CCGCCGTAGTGTCCGAAA 59.741 61.111 0.00 0.00 0.00 3.46
3029 3599 4.424566 GCCGCCGTAGTGTCCGAA 62.425 66.667 0.00 0.00 0.00 4.30
3041 3611 3.950794 TTGGATGACAGACGCCGCC 62.951 63.158 0.00 0.00 0.00 6.13
3042 3612 2.434185 TTGGATGACAGACGCCGC 60.434 61.111 0.00 0.00 0.00 6.53
3043 3613 1.078759 GACTTGGATGACAGACGCCG 61.079 60.000 0.00 0.00 0.00 6.46
3044 3614 0.741221 GGACTTGGATGACAGACGCC 60.741 60.000 0.00 0.00 0.00 5.68
3045 3615 0.741221 GGGACTTGGATGACAGACGC 60.741 60.000 0.00 0.00 0.00 5.19
3046 3616 0.898320 AGGGACTTGGATGACAGACG 59.102 55.000 0.00 0.00 27.25 4.18
3047 3617 4.080863 ACAATAGGGACTTGGATGACAGAC 60.081 45.833 0.00 0.00 41.75 3.51
3048 3618 4.104086 ACAATAGGGACTTGGATGACAGA 58.896 43.478 0.00 0.00 41.75 3.41
3049 3619 4.494091 ACAATAGGGACTTGGATGACAG 57.506 45.455 0.00 0.00 41.75 3.51
3050 3620 4.324254 GGAACAATAGGGACTTGGATGACA 60.324 45.833 0.00 0.00 41.75 3.58
3051 3621 4.200092 GGAACAATAGGGACTTGGATGAC 58.800 47.826 0.00 0.00 41.75 3.06
3052 3622 3.202151 GGGAACAATAGGGACTTGGATGA 59.798 47.826 0.00 0.00 41.75 2.92
3053 3623 3.203040 AGGGAACAATAGGGACTTGGATG 59.797 47.826 0.00 0.00 41.75 3.51
3054 3624 3.474920 AGGGAACAATAGGGACTTGGAT 58.525 45.455 0.00 0.00 41.75 3.41
3055 3625 2.929301 AGGGAACAATAGGGACTTGGA 58.071 47.619 0.00 0.00 41.75 3.53
3056 3626 3.267031 AGAAGGGAACAATAGGGACTTGG 59.733 47.826 0.00 0.00 41.75 3.61
3057 3627 4.576330 AGAAGGGAACAATAGGGACTTG 57.424 45.455 0.00 0.00 41.75 3.16
3058 3628 4.164413 GCTAGAAGGGAACAATAGGGACTT 59.836 45.833 0.00 0.00 41.75 3.01
3059 3629 3.712218 GCTAGAAGGGAACAATAGGGACT 59.288 47.826 0.00 0.00 46.37 3.85
3060 3630 3.492829 CGCTAGAAGGGAACAATAGGGAC 60.493 52.174 0.00 0.00 31.13 4.46
3061 3631 2.698797 CGCTAGAAGGGAACAATAGGGA 59.301 50.000 0.00 0.00 31.13 4.20
3062 3632 2.224305 CCGCTAGAAGGGAACAATAGGG 60.224 54.545 0.00 0.00 0.00 3.53
3063 3633 2.807108 GCCGCTAGAAGGGAACAATAGG 60.807 54.545 0.00 0.00 0.00 2.57
3064 3634 2.484889 GCCGCTAGAAGGGAACAATAG 58.515 52.381 0.00 0.00 0.00 1.73
3072 3642 3.140225 GAGACGGCCGCTAGAAGGG 62.140 68.421 28.58 0.00 0.00 3.95
3078 3648 3.733507 ATGGAGGAGACGGCCGCTA 62.734 63.158 28.58 5.77 33.06 4.26
3091 3661 1.137675 TCATGAAGACGGCAGATGGAG 59.862 52.381 0.00 0.00 0.00 3.86
3098 3668 0.320683 CACCACTCATGAAGACGGCA 60.321 55.000 0.00 0.00 0.00 5.69
3112 3682 1.272212 CATAGGTTTTGCCACCACCAC 59.728 52.381 0.09 0.00 39.62 4.16
3125 3695 2.615493 CCGCACCTTCACTTCATAGGTT 60.615 50.000 0.00 0.00 40.24 3.50
3128 3698 2.093973 AGACCGCACCTTCACTTCATAG 60.094 50.000 0.00 0.00 0.00 2.23
3130 3700 0.687354 AGACCGCACCTTCACTTCAT 59.313 50.000 0.00 0.00 0.00 2.57
3142 3712 2.492449 CTTCTTCGCCAGAGACCGCA 62.492 60.000 0.00 0.00 31.12 5.69
3153 3723 2.280628 CCATGTTCTACCCTTCTTCGC 58.719 52.381 0.00 0.00 0.00 4.70
3157 3727 3.108376 GTCTCCCATGTTCTACCCTTCT 58.892 50.000 0.00 0.00 0.00 2.85
3178 3748 4.388499 CCCAAGTGGTCCGGTCCG 62.388 72.222 13.27 3.60 0.00 4.79
3186 3756 0.827507 GGCATTGTGTCCCAAGTGGT 60.828 55.000 0.00 0.00 36.25 4.16
3215 3785 0.034059 GAGGATGAGTACGGCATGGG 59.966 60.000 8.68 0.00 0.00 4.00
3222 3792 1.231221 CTCCTCCGAGGATGAGTACG 58.769 60.000 17.80 0.45 44.81 3.67
3279 3849 0.882042 CGGCCTCTCCATTTCCATCG 60.882 60.000 0.00 0.00 34.01 3.84
3346 3916 0.452618 CCAGTTGCGCATTGTACACG 60.453 55.000 12.75 1.49 0.00 4.49
3358 3928 0.175531 ACCAAAACACTGCCAGTTGC 59.824 50.000 0.00 0.00 41.77 4.17
3364 3934 0.467290 TCCCAGACCAAAACACTGCC 60.467 55.000 0.00 0.00 0.00 4.85
3365 3935 1.541588 GATCCCAGACCAAAACACTGC 59.458 52.381 0.00 0.00 0.00 4.40
3367 3937 1.882352 GCGATCCCAGACCAAAACACT 60.882 52.381 0.00 0.00 0.00 3.55
3399 3969 4.459089 GCGGAGAGGAGGTGGTGC 62.459 72.222 0.00 0.00 0.00 5.01
3403 3973 2.752238 AGACGCGGAGAGGAGGTG 60.752 66.667 12.47 0.00 0.00 4.00
3404 3974 2.752238 CAGACGCGGAGAGGAGGT 60.752 66.667 12.47 0.00 0.00 3.85
3405 3975 2.438614 TCAGACGCGGAGAGGAGG 60.439 66.667 12.47 0.00 0.00 4.30
3410 3980 1.654954 GCCTTAGTCAGACGCGGAGA 61.655 60.000 12.47 1.48 0.00 3.71
3414 3985 3.248171 GCGCCTTAGTCAGACGCG 61.248 66.667 14.19 14.19 45.35 6.01
3420 3991 1.663388 CACACGTGCGCCTTAGTCA 60.663 57.895 17.22 0.00 0.00 3.41
3421 3992 2.380410 CCACACGTGCGCCTTAGTC 61.380 63.158 17.22 0.00 0.00 2.59
3479 4050 0.457166 CTTTATCGTCGACCGGCACA 60.457 55.000 10.58 0.00 37.11 4.57
3486 4057 3.242248 CGAATCCCAACTTTATCGTCGAC 59.758 47.826 5.18 5.18 0.00 4.20
3538 4109 2.523168 TGGGACAGTCTGCCGACA 60.523 61.111 11.07 0.00 42.73 4.35
3581 4152 0.882042 CTCCCATGCACTACATCCGC 60.882 60.000 0.00 0.00 36.64 5.54
3595 4166 1.690633 GCTCCACATCCTCCTCCCA 60.691 63.158 0.00 0.00 0.00 4.37
3620 4191 2.034066 CCACACCCGGCTCACAAT 59.966 61.111 0.00 0.00 0.00 2.71
3631 4202 2.356069 GCTATTTAAGAGCAGCCACACC 59.644 50.000 6.71 0.00 39.84 4.16
3639 4210 3.938963 CAGGAAACCGCTATTTAAGAGCA 59.061 43.478 12.15 0.00 40.09 4.26


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

AutoCloner maintained by Alex Coulton.