Multiple sequence alignment - TraesCS1D01G405300

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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 TraesCS1D01G405300 chr1D 100.000 2969 0 0 1 2969 469832645 469835613 0.000000e+00 5483.0
1 TraesCS1D01G405300 chr1A 94.981 2311 84 18 1 2288 563160069 563162370 0.000000e+00 3596.0
2 TraesCS1D01G405300 chr1A 87.838 148 15 3 2571 2717 563162585 563162730 1.420000e-38 171.0
3 TraesCS1D01G405300 chr1A 92.500 80 6 0 2890 2969 563162755 563162834 6.720000e-22 115.0
4 TraesCS1D01G405300 chr1B 94.618 2267 94 12 1 2245 651542486 651544746 0.000000e+00 3485.0
5 TraesCS1D01G405300 chr1B 100.000 64 0 0 2350 2413 651544982 651545045 5.200000e-23 119.0
6 TraesCS1D01G405300 chr1B 88.776 98 9 2 2866 2961 651548773 651548870 5.200000e-23 119.0
7 TraesCS1D01G405300 chr1B 100.000 28 0 0 2823 2850 651545409 651545382 5.000000e-03 52.8
8 TraesCS1D01G405300 chr3A 81.111 180 24 6 1794 1966 464897399 464897575 5.160000e-28 135.0
9 TraesCS1D01G405300 chr3B 79.793 193 30 7 1776 1966 438579958 438579773 6.680000e-27 132.0
10 TraesCS1D01G405300 chr3D 82.993 147 21 2 1821 1966 339861136 339860993 2.400000e-26 130.0


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 TraesCS1D01G405300 chr1D 469832645 469835613 2968 False 5483 5483 100.000000 1 2969 1 chr1D.!!$F1 2968
1 TraesCS1D01G405300 chr1A 563160069 563162834 2765 False 1294 3596 91.773000 1 2969 3 chr1A.!!$F1 2968
2 TraesCS1D01G405300 chr1B 651542486 651548870 6384 False 1241 3485 94.464667 1 2961 3 chr1B.!!$F1 2960

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
107 108 1.774856 AGTGGCCTTGTTTAGTGGAGT 59.225 47.619 3.32 0.0 0.00 3.85 F
568 572 2.575279 AGTCCTGATGATGCCTGAAGTT 59.425 45.455 0.00 0.0 0.00 2.66 F
1419 1424 1.006805 CTCTGGTCGCCCGATCATC 60.007 63.158 3.90 0.0 34.43 2.92 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1296 1301 0.027979 CAGCAAGGTTGTCACACACG 59.972 55.0 0.00 0.00 0.00 4.49 R
1455 1460 0.036732 CCTCAAACTGCCTGCAGGTA 59.963 55.0 32.81 28.08 44.18 3.08 R
2516 2770 0.180642 TGGCAGTTTTACACGTCCCA 59.819 50.0 0.00 0.00 0.00 4.37 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
25 26 5.763204 TGTGTCCTCTTTGTTGTATCCTTTC 59.237 40.000 0.00 0.00 0.00 2.62
29 30 4.378459 CCTCTTTGTTGTATCCTTTCGTGC 60.378 45.833 0.00 0.00 0.00 5.34
86 87 4.400251 TGGTTCTTAGGTCAGGTGTATACG 59.600 45.833 0.00 0.00 0.00 3.06
107 108 1.774856 AGTGGCCTTGTTTAGTGGAGT 59.225 47.619 3.32 0.00 0.00 3.85
117 118 4.354662 TGTTTAGTGGAGTTTGGGGTTTT 58.645 39.130 0.00 0.00 0.00 2.43
118 119 5.516984 TGTTTAGTGGAGTTTGGGGTTTTA 58.483 37.500 0.00 0.00 0.00 1.52
119 120 5.360429 TGTTTAGTGGAGTTTGGGGTTTTAC 59.640 40.000 0.00 0.00 0.00 2.01
306 307 6.402875 GCAGATTAGGTTTTAAAACGGATCGT 60.403 38.462 21.58 12.25 43.97 3.73
444 445 2.779506 CAGGGGGAGAAACACTAACAC 58.220 52.381 0.00 0.00 0.00 3.32
506 507 2.577225 GTTTTCAACGGTGTGCAGC 58.423 52.632 0.00 0.00 0.00 5.25
568 572 2.575279 AGTCCTGATGATGCCTGAAGTT 59.425 45.455 0.00 0.00 0.00 2.66
609 613 6.082984 GTCTTCTTTCTATTGAGCTTGTTGC 58.917 40.000 0.00 0.00 43.29 4.17
801 805 7.064229 GGTTGGTTTAATCCTATATGTTCCCA 58.936 38.462 4.25 0.00 0.00 4.37
829 833 7.637519 CGATATTTTGTCTTCTGTAATGCACTG 59.362 37.037 0.00 0.00 0.00 3.66
843 847 3.120321 TGCACTGTGACGACCTTAATT 57.880 42.857 12.86 0.00 0.00 1.40
1161 1166 2.616960 CTTGCTAACATGTACCAGCGA 58.383 47.619 17.33 15.41 36.81 4.93
1173 1178 3.255888 TGTACCAGCGACCTGATATGATC 59.744 47.826 0.00 0.00 41.77 2.92
1209 1214 3.271250 CCAAGGTGTGGCTATTGCT 57.729 52.632 0.00 0.00 41.72 3.91
1257 1262 8.871629 TTGAGGACTTCTATGAGGATATCTAC 57.128 38.462 2.05 0.00 0.00 2.59
1419 1424 1.006805 CTCTGGTCGCCCGATCATC 60.007 63.158 3.90 0.00 34.43 2.92
1494 1499 2.124320 AACAGCTGCAACCGTGGT 60.124 55.556 15.27 0.00 0.00 4.16
1635 1640 4.922026 AACCGTGACCGTGGTGGC 62.922 66.667 0.00 0.00 43.94 5.01
1848 1868 3.383223 TGACAGGTATGATGATGGACCA 58.617 45.455 0.00 0.00 34.18 4.02
1973 1993 3.055819 CGGGAGGAGAAGAAGTGATGAAA 60.056 47.826 0.00 0.00 0.00 2.69
2049 2072 3.616956 TTGCTCCTATGTTGAGTCTGG 57.383 47.619 0.00 0.00 32.31 3.86
2056 2079 4.841813 TCCTATGTTGAGTCTGGTGGTTTA 59.158 41.667 0.00 0.00 0.00 2.01
2072 2103 4.578928 GTGGTTTACTGTCAGACATTGGTT 59.421 41.667 6.91 0.00 0.00 3.67
2231 2264 9.921637 TTTGTTGGTTTGATCTTATATGGTTTC 57.078 29.630 0.00 0.00 0.00 2.78
2296 2463 8.922676 CCATATAGTAAGCCATTTAACTACACG 58.077 37.037 0.00 0.00 0.00 4.49
2320 2487 9.574458 ACGTAATCAGTATATATCATCACTTGC 57.426 33.333 0.00 0.00 0.00 4.01
2321 2488 9.025020 CGTAATCAGTATATATCATCACTTGCC 57.975 37.037 0.00 0.00 0.00 4.52
2322 2489 9.875691 GTAATCAGTATATATCATCACTTGCCA 57.124 33.333 0.00 0.00 0.00 4.92
2324 2491 7.544804 TCAGTATATATCATCACTTGCCAGT 57.455 36.000 0.00 0.00 0.00 4.00
2325 2492 7.966812 TCAGTATATATCATCACTTGCCAGTT 58.033 34.615 0.00 0.00 0.00 3.16
2326 2493 7.874528 TCAGTATATATCATCACTTGCCAGTTG 59.125 37.037 0.00 0.00 0.00 3.16
2327 2494 7.874528 CAGTATATATCATCACTTGCCAGTTGA 59.125 37.037 0.00 0.00 0.00 3.18
2328 2495 8.600668 AGTATATATCATCACTTGCCAGTTGAT 58.399 33.333 9.38 9.38 35.51 2.57
2329 2496 7.683437 ATATATCATCACTTGCCAGTTGATG 57.317 36.000 12.96 15.19 38.55 3.07
2330 2497 3.144657 TCATCACTTGCCAGTTGATGT 57.855 42.857 19.89 0.00 38.45 3.06
2331 2498 3.489355 TCATCACTTGCCAGTTGATGTT 58.511 40.909 19.89 0.00 38.45 2.71
2332 2499 3.890756 TCATCACTTGCCAGTTGATGTTT 59.109 39.130 19.89 0.00 38.45 2.83
2340 2507 3.703556 TGCCAGTTGATGTTTTCTTTCCA 59.296 39.130 0.00 0.00 0.00 3.53
2348 2515 6.975196 TGATGTTTTCTTTCCAGGAAATCA 57.025 33.333 15.38 10.99 37.05 2.57
2428 2682 3.145212 AGTTTTTGGTTGTCTGTTCGC 57.855 42.857 0.00 0.00 0.00 4.70
2430 2684 2.842208 TTTTGGTTGTCTGTTCGCTG 57.158 45.000 0.00 0.00 0.00 5.18
2437 2691 2.860735 GTTGTCTGTTCGCTGGCTATAG 59.139 50.000 0.00 0.00 0.00 1.31
2442 2696 4.740695 GTCTGTTCGCTGGCTATAGTTAAG 59.259 45.833 0.84 0.00 0.00 1.85
2443 2697 4.401519 TCTGTTCGCTGGCTATAGTTAAGT 59.598 41.667 0.84 0.00 0.00 2.24
2444 2698 4.430007 TGTTCGCTGGCTATAGTTAAGTG 58.570 43.478 0.84 4.03 0.00 3.16
2445 2699 4.081862 TGTTCGCTGGCTATAGTTAAGTGT 60.082 41.667 0.84 0.00 0.00 3.55
2446 2700 4.041740 TCGCTGGCTATAGTTAAGTGTG 57.958 45.455 0.84 0.00 0.00 3.82
2447 2701 3.446161 TCGCTGGCTATAGTTAAGTGTGT 59.554 43.478 0.84 0.00 0.00 3.72
2448 2702 3.551890 CGCTGGCTATAGTTAAGTGTGTG 59.448 47.826 0.84 0.00 0.00 3.82
2449 2703 4.504858 GCTGGCTATAGTTAAGTGTGTGT 58.495 43.478 0.84 0.00 0.00 3.72
2458 2712 5.190992 AGTTAAGTGTGTGTGTGTCGATA 57.809 39.130 0.00 0.00 0.00 2.92
2479 2733 7.011389 TCGATAGAAATATTGCTTGGTTGAGTG 59.989 37.037 0.00 0.00 46.15 3.51
2487 2741 1.202698 GCTTGGTTGAGTGACCTGTCT 60.203 52.381 0.00 0.00 40.47 3.41
2498 2752 3.900855 CCTGTCTGGTGCAGCATC 58.099 61.111 20.52 15.57 32.93 3.91
2499 2753 1.002990 CCTGTCTGGTGCAGCATCA 60.003 57.895 20.52 19.05 32.93 3.07
2500 2754 1.303799 CCTGTCTGGTGCAGCATCAC 61.304 60.000 20.52 18.50 36.28 3.06
2501 2755 0.604511 CTGTCTGGTGCAGCATCACA 60.605 55.000 20.52 21.78 38.66 3.58
2502 2756 0.037160 TGTCTGGTGCAGCATCACAT 59.963 50.000 20.52 0.00 38.66 3.21
2503 2757 1.171308 GTCTGGTGCAGCATCACATT 58.829 50.000 20.52 0.00 38.66 2.71
2504 2758 1.131883 GTCTGGTGCAGCATCACATTC 59.868 52.381 20.52 1.69 38.66 2.67
2505 2759 0.098200 CTGGTGCAGCATCACATTCG 59.902 55.000 20.52 0.63 38.66 3.34
2506 2760 0.606130 TGGTGCAGCATCACATTCGT 60.606 50.000 15.99 0.00 38.66 3.85
2507 2761 0.523072 GGTGCAGCATCACATTCGTT 59.477 50.000 11.86 0.00 38.66 3.85
2508 2762 1.068333 GGTGCAGCATCACATTCGTTT 60.068 47.619 11.86 0.00 38.66 3.60
2509 2763 2.607771 GGTGCAGCATCACATTCGTTTT 60.608 45.455 11.86 0.00 38.66 2.43
2510 2764 2.406024 GTGCAGCATCACATTCGTTTTG 59.594 45.455 0.00 0.00 36.97 2.44
2511 2765 1.987770 GCAGCATCACATTCGTTTTGG 59.012 47.619 0.00 0.00 0.00 3.28
2512 2766 2.607771 GCAGCATCACATTCGTTTTGGT 60.608 45.455 0.00 0.00 0.00 3.67
2513 2767 3.236816 CAGCATCACATTCGTTTTGGTC 58.763 45.455 0.00 0.00 0.00 4.02
2514 2768 2.228822 AGCATCACATTCGTTTTGGTCC 59.771 45.455 0.00 0.00 0.00 4.46
2515 2769 2.030363 GCATCACATTCGTTTTGGTCCA 60.030 45.455 0.00 0.00 0.00 4.02
2516 2770 3.367292 GCATCACATTCGTTTTGGTCCAT 60.367 43.478 0.00 0.00 0.00 3.41
2517 2771 3.913548 TCACATTCGTTTTGGTCCATG 57.086 42.857 0.00 0.00 0.00 3.66
2518 2772 2.556189 TCACATTCGTTTTGGTCCATGG 59.444 45.455 4.97 4.97 0.00 3.66
2519 2773 1.892474 ACATTCGTTTTGGTCCATGGG 59.108 47.619 13.02 0.00 0.00 4.00
2520 2774 2.166829 CATTCGTTTTGGTCCATGGGA 58.833 47.619 13.02 0.00 0.00 4.37
2533 2787 1.199097 CCATGGGACGTGTAAAACTGC 59.801 52.381 2.85 0.00 0.00 4.40
2534 2788 1.199097 CATGGGACGTGTAAAACTGCC 59.801 52.381 0.00 0.00 0.00 4.85
2538 2792 2.295070 GGGACGTGTAAAACTGCCATTT 59.705 45.455 0.00 0.00 0.00 2.32
2539 2793 3.561503 GGACGTGTAAAACTGCCATTTC 58.438 45.455 0.00 0.00 0.00 2.17
2541 2795 4.261447 GGACGTGTAAAACTGCCATTTCTT 60.261 41.667 0.00 0.00 0.00 2.52
2542 2796 5.257082 ACGTGTAAAACTGCCATTTCTTT 57.743 34.783 0.00 0.00 0.00 2.52
2543 2797 5.656480 ACGTGTAAAACTGCCATTTCTTTT 58.344 33.333 0.00 0.00 0.00 2.27
2544 2798 6.797454 ACGTGTAAAACTGCCATTTCTTTTA 58.203 32.000 0.00 0.00 0.00 1.52
2545 2799 6.693978 ACGTGTAAAACTGCCATTTCTTTTAC 59.306 34.615 0.00 0.00 38.62 2.01
2546 2800 6.693545 CGTGTAAAACTGCCATTTCTTTTACA 59.306 34.615 9.43 9.43 42.55 2.41
2547 2801 7.096640 CGTGTAAAACTGCCATTTCTTTTACAG 60.097 37.037 12.53 0.00 44.09 2.74
2555 2809 6.919721 TGCCATTTCTTTTACAGTATTGGTC 58.080 36.000 0.00 0.00 29.93 4.02
2568 2822 5.464389 ACAGTATTGGTCGTTGTTTAGTCAC 59.536 40.000 0.00 0.00 0.00 3.67
2569 2823 5.694910 CAGTATTGGTCGTTGTTTAGTCACT 59.305 40.000 0.00 0.00 0.00 3.41
2572 2826 8.092687 AGTATTGGTCGTTGTTTAGTCACTTAT 58.907 33.333 0.00 0.00 0.00 1.73
2573 2827 7.739498 ATTGGTCGTTGTTTAGTCACTTATT 57.261 32.000 0.00 0.00 0.00 1.40
2574 2828 7.556733 TTGGTCGTTGTTTAGTCACTTATTT 57.443 32.000 0.00 0.00 0.00 1.40
2577 2831 7.496591 TGGTCGTTGTTTAGTCACTTATTTTCT 59.503 33.333 0.00 0.00 0.00 2.52
2578 2832 8.981647 GGTCGTTGTTTAGTCACTTATTTTCTA 58.018 33.333 0.00 0.00 0.00 2.10
2620 2888 7.504924 TCTGTTTTACTGTAATTTCCCACAG 57.495 36.000 0.37 4.83 46.15 3.66
2621 2889 6.016610 TCTGTTTTACTGTAATTTCCCACAGC 60.017 38.462 6.09 0.00 44.89 4.40
2622 2890 5.594725 TGTTTTACTGTAATTTCCCACAGCA 59.405 36.000 6.09 0.00 44.89 4.41
2623 2891 6.266558 TGTTTTACTGTAATTTCCCACAGCAT 59.733 34.615 6.09 0.00 44.89 3.79
2624 2892 7.448777 TGTTTTACTGTAATTTCCCACAGCATA 59.551 33.333 6.09 0.00 44.89 3.14
2626 2894 7.624360 TTACTGTAATTTCCCACAGCATAAG 57.376 36.000 6.09 0.00 44.89 1.73
2630 2898 5.777732 TGTAATTTCCCACAGCATAAGGTTT 59.222 36.000 0.00 0.00 0.00 3.27
2631 2899 6.948886 TGTAATTTCCCACAGCATAAGGTTTA 59.051 34.615 0.00 0.00 0.00 2.01
2651 2919 6.800408 GGTTTATTTTAGAACGAAGGCTCAAC 59.200 38.462 0.00 0.00 0.00 3.18
2654 2922 4.330944 TTTAGAACGAAGGCTCAACTCA 57.669 40.909 0.00 0.00 0.00 3.41
2656 2924 2.760374 AGAACGAAGGCTCAACTCAAG 58.240 47.619 0.00 0.00 0.00 3.02
2698 2966 3.394606 AGTTATCAACCGGCCAGGATTAT 59.605 43.478 18.74 7.90 45.00 1.28
2717 2985 6.238759 GGATTATAGCATCAACCACAAGAACC 60.239 42.308 0.00 0.00 0.00 3.62
2722 2990 4.081198 AGCATCAACCACAAGAACCAAAAA 60.081 37.500 0.00 0.00 0.00 1.94
2756 3070 9.528018 TGTTAAGCAAAGATAAAGAAAAACTGG 57.472 29.630 0.00 0.00 0.00 4.00
2762 3076 7.706607 GCAAAGATAAAGAAAAACTGGAACACT 59.293 33.333 0.00 0.00 0.00 3.55
2766 3080 9.574516 AGATAAAGAAAAACTGGAACACTATGT 57.425 29.630 0.00 0.00 0.00 2.29
2770 3084 9.574516 AAAGAAAAACTGGAACACTATGTATCT 57.425 29.630 0.00 0.00 0.00 1.98
2771 3085 8.779354 AGAAAAACTGGAACACTATGTATCTC 57.221 34.615 0.00 0.00 0.00 2.75
2773 3087 9.220767 GAAAAACTGGAACACTATGTATCTCTT 57.779 33.333 0.00 0.00 0.00 2.85
2775 3089 9.877178 AAAACTGGAACACTATGTATCTCTTAG 57.123 33.333 0.00 0.00 0.00 2.18
2776 3090 7.045126 ACTGGAACACTATGTATCTCTTAGC 57.955 40.000 0.00 0.00 0.00 3.09
2777 3091 6.607600 ACTGGAACACTATGTATCTCTTAGCA 59.392 38.462 0.00 0.00 0.00 3.49
2778 3092 7.043961 TGGAACACTATGTATCTCTTAGCAG 57.956 40.000 0.00 0.00 0.00 4.24
2779 3093 6.607600 TGGAACACTATGTATCTCTTAGCAGT 59.392 38.462 0.00 0.00 0.00 4.40
2780 3094 7.124298 TGGAACACTATGTATCTCTTAGCAGTT 59.876 37.037 0.00 0.00 33.03 3.16
2782 3096 8.934507 AACACTATGTATCTCTTAGCAGTTTC 57.065 34.615 0.00 0.00 29.75 2.78
2783 3097 7.197017 ACACTATGTATCTCTTAGCAGTTTCG 58.803 38.462 0.00 0.00 0.00 3.46
2784 3098 7.148052 ACACTATGTATCTCTTAGCAGTTTCGT 60.148 37.037 0.00 0.00 0.00 3.85
2785 3099 7.377397 CACTATGTATCTCTTAGCAGTTTCGTC 59.623 40.741 0.00 0.00 0.00 4.20
2786 3100 5.899120 TGTATCTCTTAGCAGTTTCGTCT 57.101 39.130 0.00 0.00 0.00 4.18
2787 3101 6.268825 TGTATCTCTTAGCAGTTTCGTCTT 57.731 37.500 0.00 0.00 0.00 3.01
2788 3102 6.688578 TGTATCTCTTAGCAGTTTCGTCTTT 58.311 36.000 0.00 0.00 0.00 2.52
2805 3119 7.485418 TCGTCTTTTCTGTAAATTGCTGTAA 57.515 32.000 0.00 0.00 0.00 2.41
2811 3125 7.575414 TTTCTGTAAATTGCTGTAAACTGGA 57.425 32.000 0.00 0.00 0.00 3.86
2818 5498 7.524717 AAATTGCTGTAAACTGGAACACTAT 57.475 32.000 0.00 0.00 0.00 2.12
2823 5503 5.701290 GCTGTAAACTGGAACACTATGTCTT 59.299 40.000 0.00 0.00 0.00 3.01
2825 5505 7.062749 TGTAAACTGGAACACTATGTCTTCT 57.937 36.000 0.00 0.00 0.00 2.85
2826 5506 7.506114 TGTAAACTGGAACACTATGTCTTCTT 58.494 34.615 0.00 0.00 0.00 2.52
2827 5507 7.656137 TGTAAACTGGAACACTATGTCTTCTTC 59.344 37.037 0.00 0.00 0.00 2.87
2830 5510 6.402222 ACTGGAACACTATGTCTTCTTCATC 58.598 40.000 0.00 0.00 0.00 2.92
2836 5516 6.471146 ACACTATGTCTTCTTCATCTTTGCT 58.529 36.000 0.00 0.00 0.00 3.91
2838 5518 7.094890 ACACTATGTCTTCTTCATCTTTGCTTG 60.095 37.037 0.00 0.00 0.00 4.01
2839 5519 6.939163 ACTATGTCTTCTTCATCTTTGCTTGT 59.061 34.615 0.00 0.00 0.00 3.16
2840 5520 8.097038 ACTATGTCTTCTTCATCTTTGCTTGTA 58.903 33.333 0.00 0.00 0.00 2.41
2841 5521 6.791887 TGTCTTCTTCATCTTTGCTTGTAG 57.208 37.500 0.00 0.00 0.00 2.74
2842 5522 6.524734 TGTCTTCTTCATCTTTGCTTGTAGA 58.475 36.000 0.00 0.00 0.00 2.59
2843 5523 6.425114 TGTCTTCTTCATCTTTGCTTGTAGAC 59.575 38.462 0.00 0.00 0.00 2.59
2844 5524 5.934625 TCTTCTTCATCTTTGCTTGTAGACC 59.065 40.000 0.00 0.00 0.00 3.85
2846 5526 5.809001 TCTTCATCTTTGCTTGTAGACCAT 58.191 37.500 0.00 0.00 0.00 3.55
2847 5527 6.946340 TCTTCATCTTTGCTTGTAGACCATA 58.054 36.000 0.00 0.00 0.00 2.74
2848 5528 7.568349 TCTTCATCTTTGCTTGTAGACCATAT 58.432 34.615 0.00 0.00 0.00 1.78
2849 5529 7.496920 TCTTCATCTTTGCTTGTAGACCATATG 59.503 37.037 0.00 0.00 0.00 1.78
2850 5530 6.653020 TCATCTTTGCTTGTAGACCATATGT 58.347 36.000 1.24 0.00 0.00 2.29
2851 5531 7.112122 TCATCTTTGCTTGTAGACCATATGTT 58.888 34.615 1.24 0.00 0.00 2.71
2852 5532 6.985188 TCTTTGCTTGTAGACCATATGTTC 57.015 37.500 1.24 0.00 0.00 3.18
2853 5533 6.472016 TCTTTGCTTGTAGACCATATGTTCA 58.528 36.000 2.86 0.00 0.00 3.18
2854 5534 6.939730 TCTTTGCTTGTAGACCATATGTTCAA 59.060 34.615 2.86 0.44 0.00 2.69
2855 5535 7.446931 TCTTTGCTTGTAGACCATATGTTCAAA 59.553 33.333 2.86 0.00 0.00 2.69
2856 5536 6.494893 TGCTTGTAGACCATATGTTCAAAC 57.505 37.500 2.86 1.54 0.00 2.93
2857 5537 5.121611 TGCTTGTAGACCATATGTTCAAACG 59.878 40.000 2.86 0.00 0.00 3.60
2858 5538 5.539582 TTGTAGACCATATGTTCAAACGC 57.460 39.130 2.86 0.00 0.00 4.84
2859 5539 4.827692 TGTAGACCATATGTTCAAACGCT 58.172 39.130 2.86 0.00 0.00 5.07
2860 5540 5.968254 TGTAGACCATATGTTCAAACGCTA 58.032 37.500 2.86 0.00 0.00 4.26
2861 5541 6.578944 TGTAGACCATATGTTCAAACGCTAT 58.421 36.000 2.86 0.00 0.00 2.97
2862 5542 7.718525 TGTAGACCATATGTTCAAACGCTATA 58.281 34.615 2.86 0.00 0.00 1.31
2863 5543 8.364894 TGTAGACCATATGTTCAAACGCTATAT 58.635 33.333 2.86 0.00 0.00 0.86
2864 5544 9.850628 GTAGACCATATGTTCAAACGCTATATA 57.149 33.333 2.86 0.00 0.00 0.86
2865 5545 8.988064 AGACCATATGTTCAAACGCTATATAG 57.012 34.615 5.30 5.30 0.00 1.31
2874 6370 0.412244 ACGCTATATAGGCCCCCTCA 59.588 55.000 11.72 0.00 34.61 3.86
2876 6372 1.619977 CGCTATATAGGCCCCCTCACT 60.620 57.143 11.72 0.00 34.61 3.41
2879 6375 1.068121 ATATAGGCCCCCTCACTTGC 58.932 55.000 0.00 0.00 34.61 4.01
2883 6379 4.284550 GCCCCCTCACTTGCCACA 62.285 66.667 0.00 0.00 0.00 4.17
2884 6380 2.034687 CCCCCTCACTTGCCACAG 59.965 66.667 0.00 0.00 0.00 3.66
2945 6509 4.713553 GGGGAAAAATTTGTGTGACCATT 58.286 39.130 0.00 0.00 0.00 3.16
2961 6525 3.290710 ACCATTCATTGCCGAGCTAAAT 58.709 40.909 0.00 0.00 0.00 1.40
2962 6526 4.460263 ACCATTCATTGCCGAGCTAAATA 58.540 39.130 0.00 0.00 0.00 1.40
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
3 4 4.994852 CGAAAGGATACAACAAAGAGGACA 59.005 41.667 0.00 0.00 41.41 4.02
6 7 4.378459 GCACGAAAGGATACAACAAAGAGG 60.378 45.833 0.00 0.00 41.41 3.69
14 15 0.036765 AGCCGCACGAAAGGATACAA 60.037 50.000 0.00 0.00 41.41 2.41
17 18 1.395635 TCTAGCCGCACGAAAGGATA 58.604 50.000 0.00 0.00 0.00 2.59
25 26 1.738099 AAGCACTTCTAGCCGCACG 60.738 57.895 0.00 0.00 0.00 5.34
29 30 2.096218 GTCAAACAAGCACTTCTAGCCG 60.096 50.000 0.00 0.00 0.00 5.52
86 87 2.224548 ACTCCACTAAACAAGGCCACTC 60.225 50.000 5.01 0.00 0.00 3.51
107 108 5.826737 TGTGTCTAAATCGTAAAACCCCAAA 59.173 36.000 0.00 0.00 0.00 3.28
117 118 6.869913 CCAGTAAAAGGTGTGTCTAAATCGTA 59.130 38.462 0.00 0.00 0.00 3.43
118 119 5.699458 CCAGTAAAAGGTGTGTCTAAATCGT 59.301 40.000 0.00 0.00 0.00 3.73
119 120 5.929992 TCCAGTAAAAGGTGTGTCTAAATCG 59.070 40.000 0.00 0.00 0.00 3.34
237 238 3.507162 TTGATTGAAGAGAACAGCCCA 57.493 42.857 0.00 0.00 0.00 5.36
306 307 6.665992 ATCCGCCAGACAAAGATTACTATA 57.334 37.500 0.00 0.00 0.00 1.31
444 445 3.165875 TGAAGTGTTCCTCCCACTAGAG 58.834 50.000 0.00 0.00 42.17 2.43
568 572 6.556974 AGAAGACCAGAAGAATCATGATCA 57.443 37.500 9.06 0.00 0.00 2.92
624 628 7.759489 ACCTAATCTGCACACTTATTCAAAA 57.241 32.000 0.00 0.00 0.00 2.44
801 805 8.338259 GTGCATTACAGAAGACAAAATATCGAT 58.662 33.333 2.16 2.16 0.00 3.59
843 847 4.721776 AGCAAGGAATACTGGAATACCTCA 59.278 41.667 0.00 0.00 37.04 3.86
921 926 9.545105 ACAGCATCAGAAATTCTTATCTAGAAG 57.455 33.333 0.00 0.00 45.69 2.85
1161 1166 2.089982 TCCAGGGGTGATCATATCAGGT 60.090 50.000 0.00 0.00 40.53 4.00
1173 1178 1.379044 GGCATCAACTCCAGGGGTG 60.379 63.158 0.00 0.00 0.00 4.61
1209 1214 0.829333 GCTCCTGCATCTTCTCTGGA 59.171 55.000 0.00 0.00 39.41 3.86
1257 1262 0.795085 CAAACTTGCTCAGCTCCTCG 59.205 55.000 0.00 0.00 0.00 4.63
1296 1301 0.027979 CAGCAAGGTTGTCACACACG 59.972 55.000 0.00 0.00 0.00 4.49
1455 1460 0.036732 CCTCAAACTGCCTGCAGGTA 59.963 55.000 32.81 28.08 44.18 3.08
1494 1499 1.167851 GCATGAAGTTGCAGTAGCCA 58.832 50.000 0.00 0.00 42.31 4.75
1596 1601 2.046507 CTCCTGTGCTGTGGGCTC 60.047 66.667 0.00 0.00 42.39 4.70
1728 1748 3.632080 CGGTAGCCACCACCACCA 61.632 66.667 1.25 0.00 46.14 4.17
1848 1868 2.272146 CCACCATACCTGCGCCTT 59.728 61.111 4.18 0.00 0.00 4.35
1899 1919 1.515020 CTCCTCGCTGTTCTCCCTG 59.485 63.158 0.00 0.00 0.00 4.45
1973 1993 2.968206 GGTTCCACTACTCGCGGT 59.032 61.111 6.13 5.79 0.00 5.68
2049 2072 4.134563 ACCAATGTCTGACAGTAAACCAC 58.865 43.478 16.46 0.00 0.00 4.16
2056 2079 7.187824 ACTATATCAACCAATGTCTGACAGT 57.812 36.000 16.46 10.99 0.00 3.55
2072 2103 8.924303 ACTCAACCAAGCAATAGTACTATATCA 58.076 33.333 15.74 0.00 0.00 2.15
2296 2463 9.875691 TGGCAAGTGATGATATATACTGATTAC 57.124 33.333 0.00 0.00 0.00 1.89
2311 2478 3.928727 AACATCAACTGGCAAGTGATG 57.071 42.857 26.55 26.55 42.03 3.07
2312 2479 4.586001 AGAAAACATCAACTGGCAAGTGAT 59.414 37.500 0.00 6.72 36.51 3.06
2313 2480 3.953612 AGAAAACATCAACTGGCAAGTGA 59.046 39.130 0.00 2.57 36.51 3.41
2314 2481 4.311816 AGAAAACATCAACTGGCAAGTG 57.688 40.909 0.00 0.00 36.51 3.16
2315 2482 5.343307 AAAGAAAACATCAACTGGCAAGT 57.657 34.783 0.00 0.00 38.71 3.16
2316 2483 4.746611 GGAAAGAAAACATCAACTGGCAAG 59.253 41.667 0.00 0.00 0.00 4.01
2317 2484 4.161189 TGGAAAGAAAACATCAACTGGCAA 59.839 37.500 0.00 0.00 0.00 4.52
2318 2485 3.703556 TGGAAAGAAAACATCAACTGGCA 59.296 39.130 0.00 0.00 0.00 4.92
2319 2486 4.301628 CTGGAAAGAAAACATCAACTGGC 58.698 43.478 0.00 0.00 0.00 4.85
2320 2487 4.584325 TCCTGGAAAGAAAACATCAACTGG 59.416 41.667 0.00 0.00 0.00 4.00
2321 2488 5.772825 TCCTGGAAAGAAAACATCAACTG 57.227 39.130 0.00 0.00 0.00 3.16
2322 2489 6.790232 TTTCCTGGAAAGAAAACATCAACT 57.210 33.333 17.65 0.00 30.48 3.16
2323 2490 7.169813 GTGATTTCCTGGAAAGAAAACATCAAC 59.830 37.037 24.65 12.83 38.01 3.18
2324 2491 7.147759 TGTGATTTCCTGGAAAGAAAACATCAA 60.148 33.333 24.65 10.86 38.01 2.57
2325 2492 6.323482 TGTGATTTCCTGGAAAGAAAACATCA 59.677 34.615 24.65 18.27 38.01 3.07
2326 2493 6.748132 TGTGATTTCCTGGAAAGAAAACATC 58.252 36.000 24.65 16.21 38.01 3.06
2327 2494 6.729690 TGTGATTTCCTGGAAAGAAAACAT 57.270 33.333 24.65 8.29 38.01 2.71
2328 2495 6.379703 TCTTGTGATTTCCTGGAAAGAAAACA 59.620 34.615 24.65 20.63 36.83 2.83
2329 2496 6.805713 TCTTGTGATTTCCTGGAAAGAAAAC 58.194 36.000 24.65 18.77 36.83 2.43
2330 2497 7.287466 TCATCTTGTGATTTCCTGGAAAGAAAA 59.713 33.333 24.65 14.65 36.83 2.29
2331 2498 6.777091 TCATCTTGTGATTTCCTGGAAAGAAA 59.223 34.615 24.65 15.08 34.92 2.52
2332 2499 6.306199 TCATCTTGTGATTTCCTGGAAAGAA 58.694 36.000 24.65 13.81 34.92 2.52
2340 2507 6.039270 TGTTTCGTTTCATCTTGTGATTTCCT 59.961 34.615 0.00 0.00 36.54 3.36
2348 2515 5.971202 GTGTGATTGTTTCGTTTCATCTTGT 59.029 36.000 0.00 0.00 0.00 3.16
2428 2682 5.348724 CACACACACACTTAACTATAGCCAG 59.651 44.000 0.00 0.00 0.00 4.85
2430 2684 5.235516 ACACACACACACTTAACTATAGCC 58.764 41.667 0.00 0.00 0.00 3.93
2437 2691 5.217393 TCTATCGACACACACACACTTAAC 58.783 41.667 0.00 0.00 0.00 2.01
2442 2696 6.887376 ATATTTCTATCGACACACACACAC 57.113 37.500 0.00 0.00 0.00 3.82
2443 2697 6.183360 GCAATATTTCTATCGACACACACACA 60.183 38.462 0.00 0.00 0.00 3.72
2444 2698 6.036083 AGCAATATTTCTATCGACACACACAC 59.964 38.462 0.00 0.00 0.00 3.82
2445 2699 6.106003 AGCAATATTTCTATCGACACACACA 58.894 36.000 0.00 0.00 0.00 3.72
2446 2700 6.589830 AGCAATATTTCTATCGACACACAC 57.410 37.500 0.00 0.00 0.00 3.82
2447 2701 6.037062 CCAAGCAATATTTCTATCGACACACA 59.963 38.462 0.00 0.00 0.00 3.72
2448 2702 6.037172 ACCAAGCAATATTTCTATCGACACAC 59.963 38.462 0.00 0.00 0.00 3.82
2449 2703 6.112734 ACCAAGCAATATTTCTATCGACACA 58.887 36.000 0.00 0.00 0.00 3.72
2458 2712 5.183904 GGTCACTCAACCAAGCAATATTTCT 59.816 40.000 0.00 0.00 39.27 2.52
2460 2714 5.047802 CAGGTCACTCAACCAAGCAATATTT 60.048 40.000 0.00 0.00 42.12 1.40
2487 2741 0.606130 ACGAATGTGATGCTGCACCA 60.606 50.000 3.57 0.00 37.99 4.17
2494 2748 2.030363 TGGACCAAAACGAATGTGATGC 60.030 45.455 0.00 0.00 0.00 3.91
2495 2749 3.913548 TGGACCAAAACGAATGTGATG 57.086 42.857 0.00 0.00 0.00 3.07
2496 2750 3.193267 CCATGGACCAAAACGAATGTGAT 59.807 43.478 5.56 0.00 0.00 3.06
2497 2751 2.556189 CCATGGACCAAAACGAATGTGA 59.444 45.455 5.56 0.00 0.00 3.58
2498 2752 2.352617 CCCATGGACCAAAACGAATGTG 60.353 50.000 15.22 0.00 0.00 3.21
2499 2753 1.892474 CCCATGGACCAAAACGAATGT 59.108 47.619 15.22 0.00 0.00 2.71
2500 2754 2.094752 GTCCCATGGACCAAAACGAATG 60.095 50.000 15.22 0.00 46.19 2.67
2501 2755 2.167662 GTCCCATGGACCAAAACGAAT 58.832 47.619 15.22 0.00 46.19 3.34
2502 2756 1.611519 GTCCCATGGACCAAAACGAA 58.388 50.000 15.22 0.00 46.19 3.85
2503 2757 3.332706 GTCCCATGGACCAAAACGA 57.667 52.632 15.22 0.00 46.19 3.85
2512 2766 2.773487 CAGTTTTACACGTCCCATGGA 58.227 47.619 15.22 0.00 0.00 3.41
2513 2767 1.199097 GCAGTTTTACACGTCCCATGG 59.801 52.381 4.14 4.14 0.00 3.66
2514 2768 1.199097 GGCAGTTTTACACGTCCCATG 59.801 52.381 0.00 0.00 0.00 3.66
2515 2769 1.202830 TGGCAGTTTTACACGTCCCAT 60.203 47.619 0.00 0.00 0.00 4.00
2516 2770 0.180642 TGGCAGTTTTACACGTCCCA 59.819 50.000 0.00 0.00 0.00 4.37
2517 2771 1.530323 ATGGCAGTTTTACACGTCCC 58.470 50.000 0.00 0.00 0.00 4.46
2518 2772 3.252458 AGAAATGGCAGTTTTACACGTCC 59.748 43.478 0.19 0.00 0.00 4.79
2519 2773 4.483476 AGAAATGGCAGTTTTACACGTC 57.517 40.909 0.19 0.00 0.00 4.34
2520 2774 4.911514 AAGAAATGGCAGTTTTACACGT 57.088 36.364 0.19 0.00 0.00 4.49
2533 2787 7.141100 ACGACCAATACTGTAAAAGAAATGG 57.859 36.000 0.00 0.00 33.92 3.16
2534 2788 8.073768 ACAACGACCAATACTGTAAAAGAAATG 58.926 33.333 0.00 0.00 0.00 2.32
2538 2792 7.556733 AAACAACGACCAATACTGTAAAAGA 57.443 32.000 0.00 0.00 0.00 2.52
2539 2793 8.553696 ACTAAACAACGACCAATACTGTAAAAG 58.446 33.333 0.00 0.00 0.00 2.27
2541 2795 7.710044 TGACTAAACAACGACCAATACTGTAAA 59.290 33.333 0.00 0.00 0.00 2.01
2542 2796 7.169645 GTGACTAAACAACGACCAATACTGTAA 59.830 37.037 0.00 0.00 0.00 2.41
2543 2797 6.642131 GTGACTAAACAACGACCAATACTGTA 59.358 38.462 0.00 0.00 0.00 2.74
2544 2798 5.464389 GTGACTAAACAACGACCAATACTGT 59.536 40.000 0.00 0.00 0.00 3.55
2545 2799 5.694910 AGTGACTAAACAACGACCAATACTG 59.305 40.000 0.00 0.00 0.00 2.74
2546 2800 5.850614 AGTGACTAAACAACGACCAATACT 58.149 37.500 0.00 0.00 0.00 2.12
2547 2801 6.535274 AAGTGACTAAACAACGACCAATAC 57.465 37.500 0.00 0.00 0.00 1.89
2591 2859 7.721842 TGGGAAATTACAGTAAAACAGATGACA 59.278 33.333 0.00 0.00 0.00 3.58
2620 2888 7.431376 GCCTTCGTTCTAAAATAAACCTTATGC 59.569 37.037 0.00 0.00 0.00 3.14
2621 2889 8.674607 AGCCTTCGTTCTAAAATAAACCTTATG 58.325 33.333 0.00 0.00 0.00 1.90
2622 2890 8.803397 AGCCTTCGTTCTAAAATAAACCTTAT 57.197 30.769 0.00 0.00 0.00 1.73
2623 2891 7.879160 TGAGCCTTCGTTCTAAAATAAACCTTA 59.121 33.333 0.00 0.00 0.00 2.69
2624 2892 6.713450 TGAGCCTTCGTTCTAAAATAAACCTT 59.287 34.615 0.00 0.00 0.00 3.50
2626 2894 6.490566 TGAGCCTTCGTTCTAAAATAAACC 57.509 37.500 0.00 0.00 0.00 3.27
2630 2898 6.460781 TGAGTTGAGCCTTCGTTCTAAAATA 58.539 36.000 0.00 0.00 0.00 1.40
2631 2899 5.305585 TGAGTTGAGCCTTCGTTCTAAAAT 58.694 37.500 0.00 0.00 0.00 1.82
2656 2924 2.818130 TTGTTGATTCAAAGCAGGGC 57.182 45.000 0.00 0.00 0.00 5.19
2678 2946 4.564821 GCTATAATCCTGGCCGGTTGATAA 60.565 45.833 11.58 0.00 0.00 1.75
2698 2966 3.500448 TGGTTCTTGTGGTTGATGCTA 57.500 42.857 0.00 0.00 0.00 3.49
2744 3058 9.574516 AGATACATAGTGTTCCAGTTTTTCTTT 57.425 29.630 0.00 0.00 0.00 2.52
2755 3069 7.045126 ACTGCTAAGAGATACATAGTGTTCC 57.955 40.000 0.00 0.00 0.00 3.62
2756 3070 8.934507 AAACTGCTAAGAGATACATAGTGTTC 57.065 34.615 0.00 0.00 0.00 3.18
2758 3072 7.148052 ACGAAACTGCTAAGAGATACATAGTGT 60.148 37.037 0.00 0.00 0.00 3.55
2762 3076 7.569639 AGACGAAACTGCTAAGAGATACATA 57.430 36.000 0.00 0.00 0.00 2.29
2763 3077 6.458232 AGACGAAACTGCTAAGAGATACAT 57.542 37.500 0.00 0.00 0.00 2.29
2764 3078 5.899120 AGACGAAACTGCTAAGAGATACA 57.101 39.130 0.00 0.00 0.00 2.29
2765 3079 7.542824 AGAAAAGACGAAACTGCTAAGAGATAC 59.457 37.037 0.00 0.00 0.00 2.24
2766 3080 7.542477 CAGAAAAGACGAAACTGCTAAGAGATA 59.458 37.037 0.00 0.00 0.00 1.98
2767 3081 6.367422 CAGAAAAGACGAAACTGCTAAGAGAT 59.633 38.462 0.00 0.00 0.00 2.75
2768 3082 5.692204 CAGAAAAGACGAAACTGCTAAGAGA 59.308 40.000 0.00 0.00 0.00 3.10
2769 3083 5.463724 ACAGAAAAGACGAAACTGCTAAGAG 59.536 40.000 0.00 0.00 32.67 2.85
2770 3084 5.357257 ACAGAAAAGACGAAACTGCTAAGA 58.643 37.500 0.00 0.00 32.67 2.10
2771 3085 5.659048 ACAGAAAAGACGAAACTGCTAAG 57.341 39.130 0.00 0.00 32.67 2.18
2773 3087 7.724305 ATTTACAGAAAAGACGAAACTGCTA 57.276 32.000 0.00 0.00 32.67 3.49
2775 3089 6.345015 GCAATTTACAGAAAAGACGAAACTGC 60.345 38.462 0.00 0.00 32.67 4.40
2776 3090 6.912591 AGCAATTTACAGAAAAGACGAAACTG 59.087 34.615 0.00 0.00 35.14 3.16
2777 3091 6.912591 CAGCAATTTACAGAAAAGACGAAACT 59.087 34.615 0.00 0.00 0.00 2.66
2778 3092 6.691388 ACAGCAATTTACAGAAAAGACGAAAC 59.309 34.615 0.00 0.00 0.00 2.78
2779 3093 6.791303 ACAGCAATTTACAGAAAAGACGAAA 58.209 32.000 0.00 0.00 0.00 3.46
2780 3094 6.371809 ACAGCAATTTACAGAAAAGACGAA 57.628 33.333 0.00 0.00 0.00 3.85
2782 3096 7.855904 AGTTTACAGCAATTTACAGAAAAGACG 59.144 33.333 0.00 0.00 0.00 4.18
2783 3097 8.958043 CAGTTTACAGCAATTTACAGAAAAGAC 58.042 33.333 0.00 0.00 0.00 3.01
2784 3098 8.134895 CCAGTTTACAGCAATTTACAGAAAAGA 58.865 33.333 0.00 0.00 0.00 2.52
2785 3099 8.134895 TCCAGTTTACAGCAATTTACAGAAAAG 58.865 33.333 0.00 0.00 0.00 2.27
2786 3100 8.001881 TCCAGTTTACAGCAATTTACAGAAAA 57.998 30.769 0.00 0.00 0.00 2.29
2787 3101 7.575414 TCCAGTTTACAGCAATTTACAGAAA 57.425 32.000 0.00 0.00 0.00 2.52
2788 3102 7.067615 TGTTCCAGTTTACAGCAATTTACAGAA 59.932 33.333 0.00 0.00 0.00 3.02
2805 3119 6.174720 TGAAGAAGACATAGTGTTCCAGTT 57.825 37.500 3.75 0.00 36.64 3.16
2811 3125 6.939163 AGCAAAGATGAAGAAGACATAGTGTT 59.061 34.615 0.00 0.00 0.00 3.32
2818 5498 6.425114 GTCTACAAGCAAAGATGAAGAAGACA 59.575 38.462 0.00 0.00 0.00 3.41
2823 5503 5.227569 TGGTCTACAAGCAAAGATGAAGA 57.772 39.130 0.00 0.00 30.91 2.87
2825 5505 7.112122 ACATATGGTCTACAAGCAAAGATGAA 58.888 34.615 7.80 0.00 39.21 2.57
2826 5506 6.653020 ACATATGGTCTACAAGCAAAGATGA 58.347 36.000 7.80 0.00 39.21 2.92
2827 5507 6.932356 ACATATGGTCTACAAGCAAAGATG 57.068 37.500 7.80 0.00 39.21 2.90
2830 5510 6.741992 TGAACATATGGTCTACAAGCAAAG 57.258 37.500 21.11 0.00 39.21 2.77
2836 5516 5.242434 AGCGTTTGAACATATGGTCTACAA 58.758 37.500 21.11 9.01 31.73 2.41
2838 5518 8.758633 ATATAGCGTTTGAACATATGGTCTAC 57.241 34.615 21.11 16.70 31.73 2.59
2840 5520 8.035394 CCTATATAGCGTTTGAACATATGGTCT 58.965 37.037 21.11 2.88 31.73 3.85
2841 5521 7.201530 GCCTATATAGCGTTTGAACATATGGTC 60.202 40.741 14.14 14.14 0.00 4.02
2842 5522 6.594159 GCCTATATAGCGTTTGAACATATGGT 59.406 38.462 7.80 0.00 0.00 3.55
2843 5523 6.037172 GGCCTATATAGCGTTTGAACATATGG 59.963 42.308 7.80 0.00 0.00 2.74
2844 5524 6.037172 GGGCCTATATAGCGTTTGAACATATG 59.963 42.308 0.84 0.00 0.00 1.78
2846 5526 5.484715 GGGCCTATATAGCGTTTGAACATA 58.515 41.667 0.84 0.00 0.00 2.29
2847 5527 4.324267 GGGCCTATATAGCGTTTGAACAT 58.676 43.478 0.84 0.00 0.00 2.71
2848 5528 3.495453 GGGGCCTATATAGCGTTTGAACA 60.495 47.826 0.84 0.00 0.00 3.18
2849 5529 3.072211 GGGGCCTATATAGCGTTTGAAC 58.928 50.000 0.84 0.00 0.00 3.18
2850 5530 2.039348 GGGGGCCTATATAGCGTTTGAA 59.961 50.000 0.84 0.00 0.00 2.69
2851 5531 1.626825 GGGGGCCTATATAGCGTTTGA 59.373 52.381 0.84 0.00 0.00 2.69
2852 5532 1.628846 AGGGGGCCTATATAGCGTTTG 59.371 52.381 0.84 0.00 28.47 2.93
2853 5533 1.907255 GAGGGGGCCTATATAGCGTTT 59.093 52.381 0.84 0.00 31.76 3.60
2854 5534 1.203262 TGAGGGGGCCTATATAGCGTT 60.203 52.381 0.84 0.00 31.76 4.84
2855 5535 0.412244 TGAGGGGGCCTATATAGCGT 59.588 55.000 0.84 0.00 31.76 5.07
2856 5536 0.824759 GTGAGGGGGCCTATATAGCG 59.175 60.000 0.84 0.00 31.76 4.26
2857 5537 2.237392 CAAGTGAGGGGGCCTATATAGC 59.763 54.545 0.84 0.42 31.76 2.97
2858 5538 2.237392 GCAAGTGAGGGGGCCTATATAG 59.763 54.545 0.84 2.46 31.76 1.31
2859 5539 2.266279 GCAAGTGAGGGGGCCTATATA 58.734 52.381 0.84 0.00 31.76 0.86
2860 5540 1.068121 GCAAGTGAGGGGGCCTATAT 58.932 55.000 0.84 0.00 31.76 0.86
2861 5541 1.060163 GGCAAGTGAGGGGGCCTATA 61.060 60.000 0.84 0.00 43.09 1.31
2862 5542 2.386935 GGCAAGTGAGGGGGCCTAT 61.387 63.158 0.84 0.00 43.09 2.57
2863 5543 3.015145 GGCAAGTGAGGGGGCCTA 61.015 66.667 0.84 0.00 43.09 3.93
2879 6375 5.123186 TCGGTAAATTGAGTTATTGCTGTGG 59.877 40.000 0.00 0.00 0.00 4.17
2883 6379 6.170506 TGAGTCGGTAAATTGAGTTATTGCT 58.829 36.000 0.00 0.00 0.00 3.91
2884 6380 6.417191 TGAGTCGGTAAATTGAGTTATTGC 57.583 37.500 0.00 0.00 0.00 3.56
2945 6509 2.479837 CGGTATTTAGCTCGGCAATGA 58.520 47.619 0.00 0.00 0.00 2.57


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

AutoCloner maintained by Alex Coulton.