Multiple sequence alignment - TraesCS5A01G315800

Loading Multiple Alignment...

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 TraesCS5A01G315800 chr5A 100.000 5298 0 0 1 5298 526401431 526396134 0.000000e+00 9784.0
1 TraesCS5A01G315800 chr5A 87.692 65 6 1 3804 3866 707706039 707705975 2.050000e-09 75.0
2 TraesCS5A01G315800 chr5D 97.256 1786 33 6 1 1773 413761518 413759736 0.000000e+00 3013.0
3 TraesCS5A01G315800 chr5D 90.189 795 49 19 4525 5296 413701386 413700598 0.000000e+00 1009.0
4 TraesCS5A01G315800 chr5D 92.687 670 39 6 1816 2476 413759736 413759068 0.000000e+00 957.0
5 TraesCS5A01G315800 chr5D 86.243 676 64 19 3159 3812 413758568 413757900 0.000000e+00 706.0
6 TraesCS5A01G315800 chr5D 87.138 622 50 14 3873 4490 413757901 413757306 0.000000e+00 678.0
7 TraesCS5A01G315800 chr5D 89.140 221 16 5 2630 2844 413759069 413758851 8.750000e-68 268.0
8 TraesCS5A01G315800 chr5D 88.652 141 14 2 2494 2634 475485524 475485386 2.540000e-38 171.0
9 TraesCS5A01G315800 chr5B 95.201 1917 69 8 1 1902 498888053 498886145 0.000000e+00 3009.0
10 TraesCS5A01G315800 chr5B 93.562 1227 47 11 2578 3790 498885389 498884181 0.000000e+00 1799.0
11 TraesCS5A01G315800 chr5B 88.791 910 55 18 3880 4745 498883959 498883053 0.000000e+00 1072.0
12 TraesCS5A01G315800 chr5B 96.683 603 11 5 1903 2498 498885985 498885385 0.000000e+00 994.0
13 TraesCS5A01G315800 chr5B 95.588 544 15 7 4760 5296 498882999 498882458 0.000000e+00 863.0
14 TraesCS5A01G315800 chrUn 100.000 396 0 0 784 1179 479193544 479193149 0.000000e+00 732.0
15 TraesCS5A01G315800 chr7B 82.515 326 47 4 4937 5253 524036443 524036767 1.450000e-70 278.0
16 TraesCS5A01G315800 chr7D 80.000 350 60 4 4913 5253 495704010 495704358 3.170000e-62 250.0
17 TraesCS5A01G315800 chr7D 89.130 138 10 2 2494 2631 480517350 480517482 3.280000e-37 167.0
18 TraesCS5A01G315800 chr7D 96.000 100 4 0 2491 2590 18013103 18013202 4.250000e-36 163.0
19 TraesCS5A01G315800 chr7D 90.164 61 2 2 3796 3852 163564133 163564193 5.690000e-10 76.8
20 TraesCS5A01G315800 chr7D 94.118 51 2 1 3818 3867 566230997 566231047 5.690000e-10 76.8
21 TraesCS5A01G315800 chr7A 96.939 98 2 1 2493 2590 536770344 536770440 4.250000e-36 163.0
22 TraesCS5A01G315800 chr2D 96.939 98 2 1 2494 2591 59723450 59723546 4.250000e-36 163.0
23 TraesCS5A01G315800 chr2D 90.598 117 7 4 2472 2586 184405224 184405338 9.190000e-33 152.0
24 TraesCS5A01G315800 chr2D 88.000 75 4 4 3798 3868 540315086 540315013 3.400000e-12 84.2
25 TraesCS5A01G315800 chr4D 96.000 100 3 1 2493 2592 9991720 9991622 1.530000e-35 161.0
26 TraesCS5A01G315800 chr4A 87.324 142 16 2 2494 2634 238539785 238539645 1.530000e-35 161.0
27 TraesCS5A01G315800 chr3A 86.429 140 16 3 2494 2631 520437991 520438129 3.310000e-32 150.0
28 TraesCS5A01G315800 chr2A 88.000 75 4 4 3798 3868 683725624 683725551 3.400000e-12 84.2
29 TraesCS5A01G315800 chr6D 94.231 52 2 1 3818 3868 327364402 327364453 1.580000e-10 78.7
30 TraesCS5A01G315800 chr1D 97.778 45 1 0 3823 3867 37884690 37884646 1.580000e-10 78.7
31 TraesCS5A01G315800 chr1D 86.765 68 7 2 3402 3468 21879317 21879383 2.050000e-09 75.0
32 TraesCS5A01G315800 chr1B 97.778 45 1 0 3823 3867 57618847 57618803 1.580000e-10 78.7
33 TraesCS5A01G315800 chr3D 87.302 63 5 3 3808 3867 523558437 523558375 9.520000e-08 69.4


These results show the homologous regions that are presented in the multiple sequence alignment. HSPs from the BLAST search that are within 2000 bases of each other have been grouped together. Homologous regions that are purely upstream or downstream may be removed if they don't overlap both primers.

query scaffold start end length rev.comp avg.bitscore max.bitscore avg.percent.identical query.start query.end num_hsp groupid homo_length
0 TraesCS5A01G315800 chr5A 526396134 526401431 5297 True 9784.0 9784 100.0000 1 5298 1 chr5A.!!$R1 5297
1 TraesCS5A01G315800 chr5D 413757306 413761518 4212 True 1124.4 3013 90.4928 1 4490 5 chr5D.!!$R3 4489
2 TraesCS5A01G315800 chr5D 413700598 413701386 788 True 1009.0 1009 90.1890 4525 5296 1 chr5D.!!$R1 771
3 TraesCS5A01G315800 chr5B 498882458 498888053 5595 True 1547.4 3009 93.9650 1 5296 5 chr5B.!!$R1 5295

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
465 480 0.038166 GGGAACTGGTGATGGCTTCA 59.962 55.0 0.00 0.0 0.0 3.02 F
652 667 0.110056 GTGAAATGCTGCTGTGTCCG 60.110 55.0 0.00 0.0 0.0 4.79 F
2204 2406 0.480252 GGGATATTGCAAGGAGGGCT 59.520 55.0 4.94 0.0 0.0 5.19 F
2485 2687 0.190069 TGCCCATATACTCCCTCCGT 59.810 55.0 0.00 0.0 0.0 4.69 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2319 2521 0.946528 GCATATGCGTCTGATTGCCA 59.053 50.000 12.82 0.00 0.00 4.92 R
2478 2680 1.134491 GGAGTAACATGGAACGGAGGG 60.134 57.143 0.00 0.00 0.00 4.30 R
4172 4623 0.392336 GCTATCAGAGACCTGCCAGG 59.608 60.000 9.83 9.83 42.49 4.45 R
4352 4803 0.239347 AACTCATCGCAAACTGCTGC 59.761 50.000 0.00 0.00 42.25 5.25 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
28 29 0.323816 TCATCTGCCAGGTCGAGACT 60.324 55.000 3.09 0.00 0.00 3.24
185 186 1.220477 GAGGCTGAGAGGAAGGTGC 59.780 63.158 0.00 0.00 0.00 5.01
218 219 3.302347 AAGAAGGACGCTGCTCCGG 62.302 63.158 0.00 0.00 35.20 5.14
347 348 2.272146 GGAAGGCGGCATTGGAGA 59.728 61.111 13.08 0.00 0.00 3.71
465 480 0.038166 GGGAACTGGTGATGGCTTCA 59.962 55.000 0.00 0.00 0.00 3.02
543 558 7.009357 GGTGTACTCTTGTTTAGTCGATGATTC 59.991 40.741 0.00 0.00 0.00 2.52
605 620 3.132111 CCCATTTGTAGGTGGTAATTGGC 59.868 47.826 0.00 0.00 33.55 4.52
652 667 0.110056 GTGAAATGCTGCTGTGTCCG 60.110 55.000 0.00 0.00 0.00 4.79
782 803 2.217750 GGTGAATTTGTTTTGTGGGGC 58.782 47.619 0.00 0.00 0.00 5.80
1280 1302 1.080638 TCTTGGCATGTTAACCCCCT 58.919 50.000 2.48 0.00 0.00 4.79
1401 1423 6.528537 AAACATATATGAAAGGTTGCTGCA 57.471 33.333 19.63 0.00 0.00 4.41
1492 1520 9.060347 AGATTATATGTGAAATAGGCACTGTTG 57.940 33.333 0.00 0.00 39.37 3.33
1512 1540 7.387948 ACTGTTGTGACATTTATGAGGACTTAC 59.612 37.037 0.00 0.00 34.72 2.34
1734 1763 6.769512 AGCAGAGTTCAAACAGGTATCTTAA 58.230 36.000 0.00 0.00 0.00 1.85
1790 1819 7.306574 GCAGAAACTTACTTTTACATTGTTGCC 60.307 37.037 0.00 0.00 0.00 4.52
1874 1907 8.080083 TCAATGATGATGTATTGAATCGACAG 57.920 34.615 0.00 0.00 39.57 3.51
1882 1915 5.901552 TGTATTGAATCGACAGCACTATGA 58.098 37.500 0.00 0.00 0.00 2.15
1886 1919 4.614946 TGAATCGACAGCACTATGATGAG 58.385 43.478 0.32 0.00 35.45 2.90
1893 1926 5.174579 CGACAGCACTATGATGAGTACAATG 59.825 44.000 0.32 0.00 35.45 2.82
2051 2253 8.603181 GTCAAAAGTTTGTTTTCATATTGTGCT 58.397 29.630 3.82 0.00 39.18 4.40
2204 2406 0.480252 GGGATATTGCAAGGAGGGCT 59.520 55.000 4.94 0.00 0.00 5.19
2270 2472 9.715121 AATCCTGAGTTCATAAAAAGTACGTAA 57.285 29.630 0.00 0.00 0.00 3.18
2274 2476 9.953825 CTGAGTTCATAAAAAGTACGTAACATC 57.046 33.333 0.00 0.00 0.00 3.06
2319 2521 7.093068 TGTGTCCTCACCATTTATACATGTACT 60.093 37.037 7.96 0.57 43.26 2.73
2479 2681 8.714906 AGGTATATTATGTTGCCCATATACTCC 58.285 37.037 0.00 0.00 36.18 3.85
2480 2682 7.937394 GGTATATTATGTTGCCCATATACTCCC 59.063 40.741 0.00 0.00 36.18 4.30
2481 2683 7.771506 ATATTATGTTGCCCATATACTCCCT 57.228 36.000 0.00 0.00 35.96 4.20
2482 2684 5.499004 TTATGTTGCCCATATACTCCCTC 57.501 43.478 0.00 0.00 35.96 4.30
2483 2685 2.054799 TGTTGCCCATATACTCCCTCC 58.945 52.381 0.00 0.00 0.00 4.30
2484 2686 1.002087 GTTGCCCATATACTCCCTCCG 59.998 57.143 0.00 0.00 0.00 4.63
2485 2687 0.190069 TGCCCATATACTCCCTCCGT 59.810 55.000 0.00 0.00 0.00 4.69
2486 2688 1.349067 GCCCATATACTCCCTCCGTT 58.651 55.000 0.00 0.00 0.00 4.44
2487 2689 1.275573 GCCCATATACTCCCTCCGTTC 59.724 57.143 0.00 0.00 0.00 3.95
2488 2690 1.900486 CCCATATACTCCCTCCGTTCC 59.100 57.143 0.00 0.00 0.00 3.62
2489 2691 2.605257 CCATATACTCCCTCCGTTCCA 58.395 52.381 0.00 0.00 0.00 3.53
2490 2692 3.173965 CCATATACTCCCTCCGTTCCAT 58.826 50.000 0.00 0.00 0.00 3.41
2491 2693 3.055819 CCATATACTCCCTCCGTTCCATG 60.056 52.174 0.00 0.00 0.00 3.66
2492 2694 2.176247 ATACTCCCTCCGTTCCATGT 57.824 50.000 0.00 0.00 0.00 3.21
2509 2711 1.719529 TGTTACTCCCTCCGTTCCAA 58.280 50.000 0.00 0.00 0.00 3.53
2530 2732 5.178067 CCAAATTACTCGTCGTGGTTTTAGT 59.822 40.000 0.00 0.00 0.00 2.24
2532 2734 6.457851 AATTACTCGTCGTGGTTTTAGTTC 57.542 37.500 0.00 0.00 0.00 3.01
2533 2735 3.441496 ACTCGTCGTGGTTTTAGTTCA 57.559 42.857 0.00 0.00 0.00 3.18
2534 2736 3.784338 ACTCGTCGTGGTTTTAGTTCAA 58.216 40.909 0.00 0.00 0.00 2.69
2535 2737 4.183101 ACTCGTCGTGGTTTTAGTTCAAA 58.817 39.130 0.00 0.00 0.00 2.69
2536 2738 4.812626 ACTCGTCGTGGTTTTAGTTCAAAT 59.187 37.500 0.00 0.00 0.00 2.32
2537 2739 5.295045 ACTCGTCGTGGTTTTAGTTCAAATT 59.705 36.000 0.00 0.00 0.00 1.82
2538 2740 6.121613 TCGTCGTGGTTTTAGTTCAAATTT 57.878 33.333 0.00 0.00 0.00 1.82
2539 2741 5.966503 TCGTCGTGGTTTTAGTTCAAATTTG 59.033 36.000 12.15 12.15 0.00 2.32
2540 2742 5.966503 CGTCGTGGTTTTAGTTCAAATTTGA 59.033 36.000 16.91 16.91 34.92 2.69
2541 2743 6.469595 CGTCGTGGTTTTAGTTCAAATTTGAA 59.530 34.615 26.01 26.01 44.31 2.69
2554 2756 7.743520 TTCAAATTTGAACTAAAACCACGAC 57.256 32.000 26.01 0.00 41.88 4.34
2555 2757 5.966503 TCAAATTTGAACTAAAACCACGACG 59.033 36.000 18.45 0.00 33.55 5.12
2556 2758 5.738118 AATTTGAACTAAAACCACGACGA 57.262 34.783 0.00 0.00 0.00 4.20
2557 2759 4.782252 TTTGAACTAAAACCACGACGAG 57.218 40.909 0.00 0.00 0.00 4.18
2558 2760 3.441496 TGAACTAAAACCACGACGAGT 57.559 42.857 0.00 0.00 0.00 4.18
2559 2761 4.566545 TGAACTAAAACCACGACGAGTA 57.433 40.909 0.00 0.00 0.00 2.59
2560 2762 4.930963 TGAACTAAAACCACGACGAGTAA 58.069 39.130 0.00 0.00 0.00 2.24
2561 2763 5.531634 TGAACTAAAACCACGACGAGTAAT 58.468 37.500 0.00 0.00 0.00 1.89
2562 2764 5.984926 TGAACTAAAACCACGACGAGTAATT 59.015 36.000 0.00 1.08 0.00 1.40
2563 2765 6.479660 TGAACTAAAACCACGACGAGTAATTT 59.520 34.615 0.00 0.34 0.00 1.82
2564 2766 6.219302 ACTAAAACCACGACGAGTAATTTG 57.781 37.500 0.00 2.39 0.00 2.32
2565 2767 4.477302 AAAACCACGACGAGTAATTTGG 57.523 40.909 0.00 0.00 0.00 3.28
2566 2768 3.389925 AACCACGACGAGTAATTTGGA 57.610 42.857 0.00 0.00 0.00 3.53
2567 2769 3.389925 ACCACGACGAGTAATTTGGAA 57.610 42.857 0.00 0.00 0.00 3.53
2568 2770 3.062042 ACCACGACGAGTAATTTGGAAC 58.938 45.455 0.00 0.00 0.00 3.62
2569 2771 2.091588 CCACGACGAGTAATTTGGAACG 59.908 50.000 0.00 0.00 0.00 3.95
2570 2772 2.091588 CACGACGAGTAATTTGGAACGG 59.908 50.000 0.00 0.00 0.00 4.44
2571 2773 2.030007 ACGACGAGTAATTTGGAACGGA 60.030 45.455 0.00 0.00 0.00 4.69
2572 2774 2.597305 CGACGAGTAATTTGGAACGGAG 59.403 50.000 0.00 0.00 0.00 4.63
2573 2775 2.928116 GACGAGTAATTTGGAACGGAGG 59.072 50.000 0.00 0.00 0.00 4.30
2574 2776 2.277084 CGAGTAATTTGGAACGGAGGG 58.723 52.381 0.00 0.00 0.00 4.30
2575 2777 2.093869 CGAGTAATTTGGAACGGAGGGA 60.094 50.000 0.00 0.00 0.00 4.20
2576 2778 3.532542 GAGTAATTTGGAACGGAGGGAG 58.467 50.000 0.00 0.00 0.00 4.30
2577 2779 2.910977 AGTAATTTGGAACGGAGGGAGT 59.089 45.455 0.00 0.00 0.00 3.85
2578 2780 4.098894 AGTAATTTGGAACGGAGGGAGTA 58.901 43.478 0.00 0.00 0.00 2.59
2579 2781 3.345508 AATTTGGAACGGAGGGAGTAC 57.654 47.619 0.00 0.00 0.00 2.73
2580 2782 2.019807 TTTGGAACGGAGGGAGTACT 57.980 50.000 0.00 0.00 0.00 2.73
2581 2783 2.019807 TTGGAACGGAGGGAGTACTT 57.980 50.000 0.00 0.00 0.00 2.24
2582 2784 1.263356 TGGAACGGAGGGAGTACTTG 58.737 55.000 0.00 0.00 0.00 3.16
2583 2785 1.264295 GGAACGGAGGGAGTACTTGT 58.736 55.000 0.00 0.00 0.00 3.16
2584 2786 1.204231 GGAACGGAGGGAGTACTTGTC 59.796 57.143 0.00 0.00 0.00 3.18
2585 2787 1.891150 GAACGGAGGGAGTACTTGTCA 59.109 52.381 0.00 0.00 0.00 3.58
2586 2788 2.233305 ACGGAGGGAGTACTTGTCAT 57.767 50.000 0.00 0.00 0.00 3.06
2587 2789 1.825474 ACGGAGGGAGTACTTGTCATG 59.175 52.381 0.00 0.00 0.00 3.07
2588 2790 1.137086 CGGAGGGAGTACTTGTCATGG 59.863 57.143 0.00 0.00 0.00 3.66
2589 2791 2.188817 GGAGGGAGTACTTGTCATGGT 58.811 52.381 0.00 0.00 0.00 3.55
2590 2792 2.572104 GGAGGGAGTACTTGTCATGGTT 59.428 50.000 0.00 0.00 0.00 3.67
2591 2793 3.600388 GAGGGAGTACTTGTCATGGTTG 58.400 50.000 0.00 0.00 0.00 3.77
2592 2794 3.248024 AGGGAGTACTTGTCATGGTTGA 58.752 45.455 0.00 0.00 0.00 3.18
2593 2795 3.261897 AGGGAGTACTTGTCATGGTTGAG 59.738 47.826 0.00 0.00 30.85 3.02
2608 2810 2.812011 GGTTGAGCTAAAACCACGACAT 59.188 45.455 20.80 0.00 45.41 3.06
2616 2818 8.198778 TGAGCTAAAACCACGACATGTAATATA 58.801 33.333 0.00 0.00 0.00 0.86
2693 2898 5.230182 GGTCCTTTTCCAATTGTCATGAAC 58.770 41.667 4.43 0.00 0.00 3.18
2837 3046 2.474410 ATTCTCTGTTGTCGGGGTTC 57.526 50.000 0.00 0.00 0.00 3.62
2848 3057 1.891150 GTCGGGGTTCTCTGTTAGTGA 59.109 52.381 0.00 0.00 0.00 3.41
2859 3068 9.366216 GGTTCTCTGTTAGTGAAAATTTGTTTT 57.634 29.630 0.00 0.00 30.64 2.43
2880 3089 8.176365 TGTTTTGCAATTTGAACATTCTCTTTG 58.824 29.630 9.76 0.00 0.00 2.77
2904 3113 6.608002 TGTTTCTACCATGGGTTTTGTTTAGT 59.392 34.615 18.09 0.00 37.09 2.24
2910 3119 9.990360 CTACCATGGGTTTTGTTTAGTTATTTT 57.010 29.630 18.09 0.00 37.09 1.82
3147 3359 2.407090 TGTCATCTTCAAGCTGACACG 58.593 47.619 18.16 0.00 43.78 4.49
3175 3418 5.877012 TCAAATCTCAGTGGTAGAATTCAGC 59.123 40.000 8.44 4.38 0.00 4.26
3176 3419 3.510388 TCTCAGTGGTAGAATTCAGCG 57.490 47.619 8.44 0.00 0.00 5.18
3198 3441 4.261072 CGTCTCGCAGCCTCTACTTAATTA 60.261 45.833 0.00 0.00 0.00 1.40
3351 3603 4.930963 TGTTATCAGCCAGTTGTGTTTTG 58.069 39.130 0.00 0.00 0.00 2.44
3441 3693 3.067684 CATCATATGATGCAGAGGCCA 57.932 47.619 28.08 0.00 44.44 5.36
3602 3875 3.669536 TGCACCAAATTCAGTATCGTGA 58.330 40.909 0.00 0.00 0.00 4.35
3740 4016 8.387813 TGGTTGTTAATCCCAGTAGATAGTTTT 58.612 33.333 0.00 0.00 0.00 2.43
3741 4017 8.890718 GGTTGTTAATCCCAGTAGATAGTTTTC 58.109 37.037 0.00 0.00 0.00 2.29
3813 4255 9.660180 GACCATTGAGATTTAGATATTACTCCC 57.340 37.037 0.00 0.00 0.00 4.30
3824 4266 5.155905 AGATATTACTCCCTCCGTTCCAAT 58.844 41.667 0.00 0.00 0.00 3.16
3825 4267 5.607171 AGATATTACTCCCTCCGTTCCAATT 59.393 40.000 0.00 0.00 0.00 2.32
3826 4268 3.343941 TTACTCCCTCCGTTCCAATTG 57.656 47.619 0.00 0.00 0.00 2.32
3843 4285 6.744112 TCCAATTGAACTAAAACCATGACAC 58.256 36.000 7.12 0.00 0.00 3.67
3846 4288 8.356657 CCAATTGAACTAAAACCATGACACTTA 58.643 33.333 7.12 0.00 0.00 2.24
3847 4289 9.912634 CAATTGAACTAAAACCATGACACTTAT 57.087 29.630 0.00 0.00 0.00 1.73
3851 4293 9.743057 TGAACTAAAACCATGACACTTATTTTG 57.257 29.630 0.00 0.00 0.00 2.44
3852 4294 9.191995 GAACTAAAACCATGACACTTATTTTGG 57.808 33.333 0.00 0.00 0.00 3.28
3853 4295 8.472007 ACTAAAACCATGACACTTATTTTGGA 57.528 30.769 0.00 0.00 0.00 3.53
3854 4296 8.919145 ACTAAAACCATGACACTTATTTTGGAA 58.081 29.630 0.00 0.00 0.00 3.53
3855 4297 9.927668 CTAAAACCATGACACTTATTTTGGAAT 57.072 29.630 0.00 0.00 0.00 3.01
3856 4298 8.606040 AAAACCATGACACTTATTTTGGAATG 57.394 30.769 0.00 0.00 0.00 2.67
3857 4299 6.284891 ACCATGACACTTATTTTGGAATGG 57.715 37.500 0.00 0.00 37.21 3.16
3858 4300 6.015918 ACCATGACACTTATTTTGGAATGGA 58.984 36.000 4.94 0.00 35.84 3.41
3859 4301 6.153340 ACCATGACACTTATTTTGGAATGGAG 59.847 38.462 4.94 0.00 35.84 3.86
3860 4302 6.406177 CCATGACACTTATTTTGGAATGGAGG 60.406 42.308 0.00 0.00 34.95 4.30
3861 4303 5.016173 TGACACTTATTTTGGAATGGAGGG 58.984 41.667 0.00 0.00 0.00 4.30
3862 4304 5.222233 TGACACTTATTTTGGAATGGAGGGA 60.222 40.000 0.00 0.00 0.00 4.20
3863 4305 5.264395 ACACTTATTTTGGAATGGAGGGAG 58.736 41.667 0.00 0.00 0.00 4.30
3864 4306 5.222337 ACACTTATTTTGGAATGGAGGGAGT 60.222 40.000 0.00 0.00 0.00 3.85
3865 4307 6.011981 ACACTTATTTTGGAATGGAGGGAGTA 60.012 38.462 0.00 0.00 0.00 2.59
3866 4308 6.543831 CACTTATTTTGGAATGGAGGGAGTAG 59.456 42.308 0.00 0.00 0.00 2.57
3867 4309 6.217693 ACTTATTTTGGAATGGAGGGAGTAGT 59.782 38.462 0.00 0.00 0.00 2.73
3868 4310 5.536497 ATTTTGGAATGGAGGGAGTAGTT 57.464 39.130 0.00 0.00 0.00 2.24
3869 4311 5.333566 TTTTGGAATGGAGGGAGTAGTTT 57.666 39.130 0.00 0.00 0.00 2.66
3870 4312 5.333566 TTTGGAATGGAGGGAGTAGTTTT 57.666 39.130 0.00 0.00 0.00 2.43
3871 4313 5.333566 TTGGAATGGAGGGAGTAGTTTTT 57.666 39.130 0.00 0.00 0.00 1.94
4125 4575 1.745653 CTCTGCGTGGACACTCATAGA 59.254 52.381 2.75 0.39 0.00 1.98
4151 4601 4.072131 ACTTGTGAGCACCGATGTTTAAT 58.928 39.130 0.00 0.00 0.00 1.40
4153 4603 5.009610 ACTTGTGAGCACCGATGTTTAATTT 59.990 36.000 0.00 0.00 0.00 1.82
4157 4607 6.205853 TGTGAGCACCGATGTTTAATTTAGTT 59.794 34.615 0.00 0.00 0.00 2.24
4172 4623 9.997482 TTTAATTTAGTTGATTATGCTTCGACC 57.003 29.630 0.00 0.00 0.00 4.79
4246 4697 1.153349 GTTCCATCTGGACGGAGGC 60.153 63.158 0.00 0.00 45.39 4.70
4329 4780 5.479306 TGACCTGTCAGTTATTAGTTGCTC 58.521 41.667 0.00 0.00 34.14 4.26
4352 4803 5.292345 TCCGATATTGTTGTTGTTCATACGG 59.708 40.000 0.00 0.00 36.27 4.02
4378 4833 4.613622 GCAGTTTGCGATGAGTTGTAATGT 60.614 41.667 0.00 0.00 31.71 2.71
4441 4896 8.509441 AGAAAATCTCATATCCTTCCCATCTTT 58.491 33.333 0.00 0.00 0.00 2.52
4442 4897 9.799106 GAAAATCTCATATCCTTCCCATCTTTA 57.201 33.333 0.00 0.00 0.00 1.85
4448 4903 9.413734 CTCATATCCTTCCCATCTTTACTTTTT 57.586 33.333 0.00 0.00 0.00 1.94
4451 4906 5.393866 TCCTTCCCATCTTTACTTTTTGCT 58.606 37.500 0.00 0.00 0.00 3.91
4455 4910 5.636123 TCCCATCTTTACTTTTTGCTGGTA 58.364 37.500 0.00 0.00 0.00 3.25
4478 4933 2.593346 AGGTGCGCTAGATTTCTCTG 57.407 50.000 9.73 0.00 32.66 3.35
4490 4945 3.772025 AGATTTCTCTGGGATGTCGAACT 59.228 43.478 0.00 0.00 0.00 3.01
4491 4946 4.223923 AGATTTCTCTGGGATGTCGAACTT 59.776 41.667 0.00 0.00 0.00 2.66
4492 4947 5.422331 AGATTTCTCTGGGATGTCGAACTTA 59.578 40.000 0.00 0.00 0.00 2.24
4493 4948 4.451629 TTCTCTGGGATGTCGAACTTAC 57.548 45.455 0.00 0.00 0.00 2.34
4499 4962 2.186076 GGATGTCGAACTTACGCTCAG 58.814 52.381 0.00 0.00 0.00 3.35
4561 5024 2.513317 TGAATCCCATGCATCCCTAACA 59.487 45.455 0.00 0.00 0.00 2.41
4570 5033 1.755179 CATCCCTAACAAGCCCTGTG 58.245 55.000 0.00 0.00 38.67 3.66
4576 5066 3.624777 CCTAACAAGCCCTGTGAATGAT 58.375 45.455 0.00 0.00 38.67 2.45
4638 5136 5.258841 TCACAGATGAAGAGGCAAATGAAT 58.741 37.500 0.00 0.00 0.00 2.57
4696 5195 9.248291 CAAATGCTTTACATGTCTAAACTTGTT 57.752 29.630 0.00 0.00 42.12 2.83
4697 5196 9.463443 AAATGCTTTACATGTCTAAACTTGTTC 57.537 29.630 0.00 0.00 42.12 3.18
4698 5197 7.801716 TGCTTTACATGTCTAAACTTGTTCT 57.198 32.000 0.00 0.00 42.12 3.01
4700 5199 7.282224 TGCTTTACATGTCTAAACTTGTTCTGT 59.718 33.333 0.00 0.00 42.12 3.41
4701 5200 7.798982 GCTTTACATGTCTAAACTTGTTCTGTC 59.201 37.037 0.00 0.00 42.12 3.51
4706 5205 5.047847 TGTCTAAACTTGTTCTGTCTTCGG 58.952 41.667 0.00 0.00 0.00 4.30
4710 5209 2.835027 ACTTGTTCTGTCTTCGGGAAC 58.165 47.619 0.00 0.00 39.54 3.62
4728 5227 3.446799 GAACGCATGGTGTAATACGGTA 58.553 45.455 0.00 0.00 0.00 4.02
4735 5234 5.699001 GCATGGTGTAATACGGTATGAATCA 59.301 40.000 0.58 0.00 0.00 2.57
4742 5241 4.990543 ATACGGTATGAATCATTGCACG 57.009 40.909 0.00 4.25 0.00 5.34
5104 5648 2.774951 CTTGTTACCGACGAGCGCG 61.775 63.158 8.75 8.75 44.79 6.86
5279 5825 1.609932 CGCATGCACAATTGTCAGTC 58.390 50.000 19.57 5.48 0.00 3.51
5284 5830 1.330213 TGCACAATTGTCAGTCACACG 59.670 47.619 8.48 0.00 33.41 4.49
5296 5842 2.095853 CAGTCACACGCACTCTGTTTTT 59.904 45.455 0.00 0.00 0.00 1.94
5297 5843 2.351726 AGTCACACGCACTCTGTTTTTC 59.648 45.455 0.00 0.00 0.00 2.29
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
218 219 2.595386 CAAGTAAGCCGCATTGGTTTC 58.405 47.619 0.00 0.00 40.79 2.78
347 348 2.154462 CTCCTTGAACCGCTTGACATT 58.846 47.619 0.00 0.00 0.00 2.71
465 480 8.776376 AGTTTCAATTCAGAACACAAACAAAT 57.224 26.923 12.20 0.00 0.00 2.32
543 558 2.423538 CAGATTTGCTCCCTAAAACCCG 59.576 50.000 0.00 0.00 0.00 5.28
605 620 8.943909 AAATCCAACTCTTTATTAGGTACTCG 57.056 34.615 0.00 0.00 41.75 4.18
782 803 2.520260 GCTATGGGCTTGCCCTGG 60.520 66.667 28.37 18.95 38.06 4.45
1202 1224 2.151202 TCAAGTAAAAGGAGCCAAGCG 58.849 47.619 0.00 0.00 0.00 4.68
1391 1413 3.068165 GGTTAAGAAGTTTGCAGCAACCT 59.932 43.478 7.54 2.56 33.10 3.50
1492 1520 6.985059 GGTAGGTAAGTCCTCATAAATGTCAC 59.015 42.308 0.00 0.00 44.42 3.67
1512 1540 8.378565 ACATATGAATCAACAGGAATAGGTAGG 58.621 37.037 10.38 0.00 0.00 3.18
1544 1572 8.725148 CATCTTCAGTCAACAGTAAATTAAGCT 58.275 33.333 0.00 0.00 0.00 3.74
1734 1763 2.877168 CAAGAGCTTGAGACAGCAACTT 59.123 45.455 4.22 0.00 42.84 2.66
1874 1907 4.571984 TGTGCATTGTACTCATCATAGTGC 59.428 41.667 6.45 0.00 33.21 4.40
1934 2125 9.754382 CTTCTAAATTTATGTTGGCTATTGCAT 57.246 29.630 0.66 0.00 41.91 3.96
1973 2165 3.308438 TCACTGTTAGCCGTTTAGGTC 57.692 47.619 0.00 0.00 43.70 3.85
2204 2406 2.616634 TGCCAAAGAAAGCAAATGCA 57.383 40.000 8.28 0.00 45.16 3.96
2270 2472 6.095440 ACAGCAAACAGAAGTACAAAAGATGT 59.905 34.615 0.00 0.00 46.36 3.06
2274 2476 5.640732 ACACAGCAAACAGAAGTACAAAAG 58.359 37.500 0.00 0.00 0.00 2.27
2319 2521 0.946528 GCATATGCGTCTGATTGCCA 59.053 50.000 12.82 0.00 0.00 4.92
2474 2676 1.946984 AACATGGAACGGAGGGAGTA 58.053 50.000 0.00 0.00 0.00 2.59
2475 2677 1.553704 GTAACATGGAACGGAGGGAGT 59.446 52.381 0.00 0.00 0.00 3.85
2476 2678 1.831736 AGTAACATGGAACGGAGGGAG 59.168 52.381 0.00 0.00 0.00 4.30
2477 2679 1.829222 GAGTAACATGGAACGGAGGGA 59.171 52.381 0.00 0.00 0.00 4.20
2478 2680 1.134491 GGAGTAACATGGAACGGAGGG 60.134 57.143 0.00 0.00 0.00 4.30
2479 2681 1.134491 GGGAGTAACATGGAACGGAGG 60.134 57.143 0.00 0.00 0.00 4.30
2480 2682 1.831736 AGGGAGTAACATGGAACGGAG 59.168 52.381 0.00 0.00 0.00 4.63
2481 2683 1.829222 GAGGGAGTAACATGGAACGGA 59.171 52.381 0.00 0.00 0.00 4.69
2482 2684 1.134491 GGAGGGAGTAACATGGAACGG 60.134 57.143 0.00 0.00 0.00 4.44
2483 2685 1.470979 CGGAGGGAGTAACATGGAACG 60.471 57.143 0.00 0.00 0.00 3.95
2484 2686 1.553704 ACGGAGGGAGTAACATGGAAC 59.446 52.381 0.00 0.00 0.00 3.62
2485 2687 1.946984 ACGGAGGGAGTAACATGGAA 58.053 50.000 0.00 0.00 0.00 3.53
2486 2688 1.829222 GAACGGAGGGAGTAACATGGA 59.171 52.381 0.00 0.00 0.00 3.41
2487 2689 1.134491 GGAACGGAGGGAGTAACATGG 60.134 57.143 0.00 0.00 0.00 3.66
2488 2690 1.553248 TGGAACGGAGGGAGTAACATG 59.447 52.381 0.00 0.00 0.00 3.21
2489 2691 1.946984 TGGAACGGAGGGAGTAACAT 58.053 50.000 0.00 0.00 0.00 2.71
2490 2692 1.719529 TTGGAACGGAGGGAGTAACA 58.280 50.000 0.00 0.00 0.00 2.41
2491 2693 2.845363 TTTGGAACGGAGGGAGTAAC 57.155 50.000 0.00 0.00 0.00 2.50
2492 2694 4.533311 AGTAATTTGGAACGGAGGGAGTAA 59.467 41.667 0.00 0.00 0.00 2.24
2509 2711 5.984926 TGAACTAAAACCACGACGAGTAATT 59.015 36.000 0.00 1.08 0.00 1.40
2530 2732 6.469595 CGTCGTGGTTTTAGTTCAAATTTGAA 59.530 34.615 26.01 26.01 44.31 2.69
2532 2734 5.966503 TCGTCGTGGTTTTAGTTCAAATTTG 59.033 36.000 12.15 12.15 0.00 2.32
2533 2735 6.121613 TCGTCGTGGTTTTAGTTCAAATTT 57.878 33.333 0.00 0.00 0.00 1.82
2534 2736 5.295045 ACTCGTCGTGGTTTTAGTTCAAATT 59.705 36.000 0.00 0.00 0.00 1.82
2535 2737 4.812626 ACTCGTCGTGGTTTTAGTTCAAAT 59.187 37.500 0.00 0.00 0.00 2.32
2536 2738 4.183101 ACTCGTCGTGGTTTTAGTTCAAA 58.817 39.130 0.00 0.00 0.00 2.69
2537 2739 3.784338 ACTCGTCGTGGTTTTAGTTCAA 58.216 40.909 0.00 0.00 0.00 2.69
2538 2740 3.441496 ACTCGTCGTGGTTTTAGTTCA 57.559 42.857 0.00 0.00 0.00 3.18
2539 2741 6.457851 AATTACTCGTCGTGGTTTTAGTTC 57.542 37.500 0.00 0.00 0.00 3.01
2540 2742 6.293027 CCAAATTACTCGTCGTGGTTTTAGTT 60.293 38.462 0.00 0.00 0.00 2.24
2541 2743 5.178067 CCAAATTACTCGTCGTGGTTTTAGT 59.822 40.000 0.00 0.00 0.00 2.24
2542 2744 5.406175 TCCAAATTACTCGTCGTGGTTTTAG 59.594 40.000 0.00 0.00 0.00 1.85
2543 2745 5.295950 TCCAAATTACTCGTCGTGGTTTTA 58.704 37.500 0.00 0.00 0.00 1.52
2544 2746 4.128643 TCCAAATTACTCGTCGTGGTTTT 58.871 39.130 0.00 0.00 0.00 2.43
2545 2747 3.731089 TCCAAATTACTCGTCGTGGTTT 58.269 40.909 0.00 0.00 0.00 3.27
2546 2748 3.389925 TCCAAATTACTCGTCGTGGTT 57.610 42.857 0.00 0.00 0.00 3.67
2547 2749 3.062042 GTTCCAAATTACTCGTCGTGGT 58.938 45.455 0.00 0.00 0.00 4.16
2548 2750 2.091588 CGTTCCAAATTACTCGTCGTGG 59.908 50.000 0.00 0.00 0.00 4.94
2549 2751 2.091588 CCGTTCCAAATTACTCGTCGTG 59.908 50.000 0.00 0.00 0.00 4.35
2550 2752 2.030007 TCCGTTCCAAATTACTCGTCGT 60.030 45.455 0.00 0.00 0.00 4.34
2551 2753 2.597305 CTCCGTTCCAAATTACTCGTCG 59.403 50.000 0.00 0.00 0.00 5.12
2552 2754 2.928116 CCTCCGTTCCAAATTACTCGTC 59.072 50.000 0.00 0.00 0.00 4.20
2553 2755 2.354403 CCCTCCGTTCCAAATTACTCGT 60.354 50.000 0.00 0.00 0.00 4.18
2554 2756 2.093869 TCCCTCCGTTCCAAATTACTCG 60.094 50.000 0.00 0.00 0.00 4.18
2555 2757 3.055312 ACTCCCTCCGTTCCAAATTACTC 60.055 47.826 0.00 0.00 0.00 2.59
2556 2758 2.910977 ACTCCCTCCGTTCCAAATTACT 59.089 45.455 0.00 0.00 0.00 2.24
2557 2759 3.345508 ACTCCCTCCGTTCCAAATTAC 57.654 47.619 0.00 0.00 0.00 1.89
2558 2760 4.098894 AGTACTCCCTCCGTTCCAAATTA 58.901 43.478 0.00 0.00 0.00 1.40
2559 2761 2.910977 AGTACTCCCTCCGTTCCAAATT 59.089 45.455 0.00 0.00 0.00 1.82
2560 2762 2.547990 AGTACTCCCTCCGTTCCAAAT 58.452 47.619 0.00 0.00 0.00 2.32
2561 2763 2.019807 AGTACTCCCTCCGTTCCAAA 57.980 50.000 0.00 0.00 0.00 3.28
2562 2764 1.621814 CAAGTACTCCCTCCGTTCCAA 59.378 52.381 0.00 0.00 0.00 3.53
2563 2765 1.263356 CAAGTACTCCCTCCGTTCCA 58.737 55.000 0.00 0.00 0.00 3.53
2564 2766 1.204231 GACAAGTACTCCCTCCGTTCC 59.796 57.143 0.00 0.00 0.00 3.62
2565 2767 1.891150 TGACAAGTACTCCCTCCGTTC 59.109 52.381 0.00 0.00 0.00 3.95
2566 2768 2.005370 TGACAAGTACTCCCTCCGTT 57.995 50.000 0.00 0.00 0.00 4.44
2567 2769 1.825474 CATGACAAGTACTCCCTCCGT 59.175 52.381 0.00 0.00 0.00 4.69
2568 2770 1.137086 CCATGACAAGTACTCCCTCCG 59.863 57.143 0.00 0.00 0.00 4.63
2569 2771 2.188817 ACCATGACAAGTACTCCCTCC 58.811 52.381 0.00 0.00 0.00 4.30
2570 2772 3.260884 TCAACCATGACAAGTACTCCCTC 59.739 47.826 0.00 0.00 0.00 4.30
2571 2773 3.248024 TCAACCATGACAAGTACTCCCT 58.752 45.455 0.00 0.00 0.00 4.20
2572 2774 3.600388 CTCAACCATGACAAGTACTCCC 58.400 50.000 0.00 0.00 0.00 4.30
2573 2775 3.003480 GCTCAACCATGACAAGTACTCC 58.997 50.000 0.00 0.00 0.00 3.85
2574 2776 3.931578 AGCTCAACCATGACAAGTACTC 58.068 45.455 0.00 0.00 0.00 2.59
2575 2777 5.483685 TTAGCTCAACCATGACAAGTACT 57.516 39.130 0.00 0.00 0.00 2.73
2576 2778 6.371389 GTTTTAGCTCAACCATGACAAGTAC 58.629 40.000 0.00 0.00 0.00 2.73
2577 2779 5.472137 GGTTTTAGCTCAACCATGACAAGTA 59.528 40.000 18.78 0.00 43.00 2.24
2578 2780 4.278419 GGTTTTAGCTCAACCATGACAAGT 59.722 41.667 18.78 0.00 43.00 3.16
2579 2781 4.798574 GGTTTTAGCTCAACCATGACAAG 58.201 43.478 18.78 0.00 43.00 3.16
2580 2782 4.846779 GGTTTTAGCTCAACCATGACAA 57.153 40.909 18.78 0.00 43.00 3.18
2587 2789 2.215196 TGTCGTGGTTTTAGCTCAACC 58.785 47.619 17.42 17.42 43.68 3.77
2588 2790 3.250040 ACATGTCGTGGTTTTAGCTCAAC 59.750 43.478 0.00 0.00 0.00 3.18
2589 2791 3.472652 ACATGTCGTGGTTTTAGCTCAA 58.527 40.909 0.00 0.00 0.00 3.02
2590 2792 3.120321 ACATGTCGTGGTTTTAGCTCA 57.880 42.857 0.00 0.00 0.00 4.26
2591 2793 5.796350 ATTACATGTCGTGGTTTTAGCTC 57.204 39.130 0.00 0.00 0.00 4.09
2592 2794 8.418662 TCTATATTACATGTCGTGGTTTTAGCT 58.581 33.333 0.00 0.00 0.00 3.32
2593 2795 8.583810 TCTATATTACATGTCGTGGTTTTAGC 57.416 34.615 0.00 0.00 0.00 3.09
2649 2854 6.350612 GGACCGACAATCCATGGAAATAAAAA 60.351 38.462 20.67 0.00 36.15 1.94
2653 2858 3.458118 AGGACCGACAATCCATGGAAATA 59.542 43.478 20.67 0.00 38.86 1.40
2693 2898 1.657594 CAGTATCAGCAGTTCAGCACG 59.342 52.381 0.00 0.00 36.85 5.34
2837 3046 8.183830 TGCAAAACAAATTTTCACTAACAGAG 57.816 30.769 0.00 0.00 35.79 3.35
2859 3068 7.765360 AGAAACAAAGAGAATGTTCAAATTGCA 59.235 29.630 0.00 0.00 39.98 4.08
2880 3089 7.046292 ACTAAACAAAACCCATGGTAGAAAC 57.954 36.000 11.73 0.00 33.12 2.78
2904 3113 7.012894 CCACCAGTGTTGACAGTAAGAAAATAA 59.987 37.037 0.00 0.00 0.00 1.40
2910 3119 2.769663 ACCACCAGTGTTGACAGTAAGA 59.230 45.455 0.00 0.00 0.00 2.10
2914 3123 1.280710 TCAACCACCAGTGTTGACAGT 59.719 47.619 1.94 0.00 32.89 3.55
2984 3193 5.943706 ATCACAGAATCATCTATGCTTGC 57.056 39.130 0.00 0.00 29.87 4.01
3147 3359 7.173218 TGAATTCTACCACTGAGATTTGAACAC 59.827 37.037 7.05 0.00 0.00 3.32
3175 3418 1.015109 TAAGTAGAGGCTGCGAGACG 58.985 55.000 0.00 0.00 0.00 4.18
3176 3419 3.719173 ATTAAGTAGAGGCTGCGAGAC 57.281 47.619 0.00 0.00 0.00 3.36
3351 3603 6.149633 CAGTACACAAAAGATAAACAAGGCC 58.850 40.000 0.00 0.00 0.00 5.19
3441 3693 1.202891 CGAAAAGGAGGTTCAACCCCT 60.203 52.381 1.75 6.87 39.75 4.79
3468 3721 2.123425 CCGGTAGGGGCAGAGCTA 60.123 66.667 0.00 0.00 0.00 3.32
3740 4016 0.404040 AGAAATGGGGGAACAAGCGA 59.596 50.000 0.00 0.00 0.00 4.93
3741 4017 0.527565 CAGAAATGGGGGAACAAGCG 59.472 55.000 0.00 0.00 0.00 4.68
3825 4267 9.743057 CAAAATAAGTGTCATGGTTTTAGTTCA 57.257 29.630 0.00 0.00 0.00 3.18
3826 4268 9.191995 CCAAAATAAGTGTCATGGTTTTAGTTC 57.808 33.333 0.00 0.00 0.00 3.01
3829 4271 9.927668 ATTCCAAAATAAGTGTCATGGTTTTAG 57.072 29.630 0.00 0.00 0.00 1.85
3831 4273 7.661027 CCATTCCAAAATAAGTGTCATGGTTTT 59.339 33.333 0.00 0.00 0.00 2.43
3832 4274 7.016072 TCCATTCCAAAATAAGTGTCATGGTTT 59.984 33.333 0.00 0.00 32.13 3.27
3833 4275 6.496565 TCCATTCCAAAATAAGTGTCATGGTT 59.503 34.615 0.00 0.00 32.13 3.67
3834 4276 6.015918 TCCATTCCAAAATAAGTGTCATGGT 58.984 36.000 0.00 0.00 32.13 3.55
3835 4277 6.406177 CCTCCATTCCAAAATAAGTGTCATGG 60.406 42.308 0.00 0.00 0.00 3.66
3836 4278 6.406177 CCCTCCATTCCAAAATAAGTGTCATG 60.406 42.308 0.00 0.00 0.00 3.07
3837 4279 5.658190 CCCTCCATTCCAAAATAAGTGTCAT 59.342 40.000 0.00 0.00 0.00 3.06
3839 4281 5.261216 TCCCTCCATTCCAAAATAAGTGTC 58.739 41.667 0.00 0.00 0.00 3.67
3840 4282 5.222337 ACTCCCTCCATTCCAAAATAAGTGT 60.222 40.000 0.00 0.00 0.00 3.55
3841 4283 5.264395 ACTCCCTCCATTCCAAAATAAGTG 58.736 41.667 0.00 0.00 0.00 3.16
3843 4285 6.663734 ACTACTCCCTCCATTCCAAAATAAG 58.336 40.000 0.00 0.00 0.00 1.73
3846 4288 5.536497 AACTACTCCCTCCATTCCAAAAT 57.464 39.130 0.00 0.00 0.00 1.82
3847 4289 5.333566 AAACTACTCCCTCCATTCCAAAA 57.666 39.130 0.00 0.00 0.00 2.44
3848 4290 5.333566 AAAACTACTCCCTCCATTCCAAA 57.666 39.130 0.00 0.00 0.00 3.28
3849 4291 5.333566 AAAAACTACTCCCTCCATTCCAA 57.666 39.130 0.00 0.00 0.00 3.53
3868 4310 8.322091 TGATTTACCAACCTGGAAAAAGAAAAA 58.678 29.630 0.00 0.00 40.96 1.94
3869 4311 7.766738 GTGATTTACCAACCTGGAAAAAGAAAA 59.233 33.333 0.00 0.00 40.96 2.29
3870 4312 7.093289 TGTGATTTACCAACCTGGAAAAAGAAA 60.093 33.333 0.00 0.00 40.96 2.52
3871 4313 6.381420 TGTGATTTACCAACCTGGAAAAAGAA 59.619 34.615 0.00 0.00 40.96 2.52
4125 4575 3.674997 ACATCGGTGCTCACAAGTTTAT 58.325 40.909 0.00 0.00 0.00 1.40
4151 4601 5.584649 CAGGGTCGAAGCATAATCAACTAAA 59.415 40.000 0.00 0.00 0.00 1.85
4153 4603 4.442893 CCAGGGTCGAAGCATAATCAACTA 60.443 45.833 0.00 0.00 0.00 2.24
4157 4607 1.475034 GCCAGGGTCGAAGCATAATCA 60.475 52.381 0.00 0.00 0.00 2.57
4172 4623 0.392336 GCTATCAGAGACCTGCCAGG 59.608 60.000 9.83 9.83 42.49 4.45
4207 4658 2.064014 ACGTTCTTGTAGCCGTTTAGC 58.936 47.619 0.00 0.00 0.00 3.09
4246 4697 3.981071 TCCTTGAACCATGTGTAGAGG 57.019 47.619 0.00 0.00 0.00 3.69
4273 4724 3.902881 TCTTCTTCTCCTTCAGATGGC 57.097 47.619 0.00 0.00 0.00 4.40
4329 4780 5.498159 CCGTATGAACAACAACAATATCGG 58.502 41.667 0.00 0.00 0.00 4.18
4352 4803 0.239347 AACTCATCGCAAACTGCTGC 59.761 50.000 0.00 0.00 42.25 5.25
4378 4833 3.120269 ACAATTTTATCCGTAACGCGCAA 60.120 39.130 5.73 0.00 39.71 4.85
4441 4896 4.217550 GCACCTTCATACCAGCAAAAAGTA 59.782 41.667 0.00 0.00 0.00 2.24
4442 4897 3.005791 GCACCTTCATACCAGCAAAAAGT 59.994 43.478 0.00 0.00 0.00 2.66
4448 4903 1.745115 GCGCACCTTCATACCAGCA 60.745 57.895 0.30 0.00 0.00 4.41
4451 4906 1.480789 TCTAGCGCACCTTCATACCA 58.519 50.000 11.47 0.00 0.00 3.25
4455 4910 3.133721 AGAGAAATCTAGCGCACCTTCAT 59.866 43.478 11.47 0.00 0.00 2.57
4478 4933 1.557651 GAGCGTAAGTTCGACATCCC 58.442 55.000 0.00 0.00 37.98 3.85
4490 4945 5.065346 TCAATTCAAACAACACTGAGCGTAA 59.935 36.000 0.00 0.00 0.00 3.18
4491 4946 4.572795 TCAATTCAAACAACACTGAGCGTA 59.427 37.500 0.00 0.00 0.00 4.42
4492 4947 3.376859 TCAATTCAAACAACACTGAGCGT 59.623 39.130 0.00 0.00 0.00 5.07
4493 4948 3.951306 TCAATTCAAACAACACTGAGCG 58.049 40.909 0.00 0.00 0.00 5.03
4499 4962 3.488310 CAGCAGCTCAATTCAAACAACAC 59.512 43.478 0.00 0.00 0.00 3.32
4561 5024 3.094572 CCAAAGATCATTCACAGGGCTT 58.905 45.455 0.00 0.00 0.00 4.35
4570 5033 6.435591 ACTTCTTTTCCTCCCAAAGATCATTC 59.564 38.462 0.00 0.00 39.46 2.67
4576 5066 5.104109 TCAGAACTTCTTTTCCTCCCAAAGA 60.104 40.000 0.00 0.00 38.27 2.52
4638 5136 8.685427 CATACATTGTGATAAGAAATGGTTGGA 58.315 33.333 0.00 0.00 35.95 3.53
4696 5195 0.389817 CATGCGTTCCCGAAGACAGA 60.390 55.000 0.00 0.00 35.63 3.41
4697 5196 1.361668 CCATGCGTTCCCGAAGACAG 61.362 60.000 0.00 0.00 35.63 3.51
4698 5197 1.375396 CCATGCGTTCCCGAAGACA 60.375 57.895 0.00 0.00 35.63 3.41
4700 5199 1.375396 CACCATGCGTTCCCGAAGA 60.375 57.895 0.00 0.00 35.63 2.87
4701 5200 0.390603 TACACCATGCGTTCCCGAAG 60.391 55.000 0.00 0.00 35.63 3.79
4706 5205 1.595794 CCGTATTACACCATGCGTTCC 59.404 52.381 0.00 0.00 30.99 3.62
4710 5209 3.644823 TCATACCGTATTACACCATGCG 58.355 45.455 0.00 0.00 32.58 4.73
4717 5216 6.074034 CGTGCAATGATTCATACCGTATTACA 60.074 38.462 0.00 0.00 0.00 2.41
4723 5222 2.607635 GACGTGCAATGATTCATACCGT 59.392 45.455 0.00 6.13 0.00 4.83
4724 5223 2.347568 CGACGTGCAATGATTCATACCG 60.348 50.000 0.00 3.16 0.00 4.02
4728 5227 1.324435 CGACGACGTGCAATGATTCAT 59.676 47.619 4.58 0.00 34.56 2.57
4735 5234 0.923403 CATGATCGACGACGTGCAAT 59.077 50.000 4.58 0.00 40.69 3.56
4863 5404 4.034258 GTGGTCACGACGGCGAGA 62.034 66.667 22.49 14.17 41.64 4.04
4871 5412 4.953868 CAACGGCGGTGGTCACGA 62.954 66.667 19.01 0.00 0.00 4.35
5267 5813 1.330521 GTGCGTGTGACTGACAATTGT 59.669 47.619 11.78 11.78 35.91 2.71


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

AutoCloner maintained by Alex Coulton.