Multiple sequence alignment - TraesCS3B01G310700

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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 TraesCS3B01G310700 chr3B 100.000 3194 0 0 1 3194 499191488 499188295 0.000000e+00 5899.0
1 TraesCS3B01G310700 chr3B 82.418 546 54 21 72 592 653629455 653629983 3.780000e-119 438.0
2 TraesCS3B01G310700 chr3B 96.491 57 2 0 535 591 90740622 90740678 9.430000e-16 95.3
3 TraesCS3B01G310700 chr3B 91.176 68 4 2 535 602 770744618 770744683 1.220000e-14 91.6
4 TraesCS3B01G310700 chr3B 91.176 68 4 2 535 602 770745240 770745305 1.220000e-14 91.6
5 TraesCS3B01G310700 chr3B 91.176 68 4 2 535 602 770745862 770745927 1.220000e-14 91.6
6 TraesCS3B01G310700 chr3D 94.700 1698 77 6 591 2282 383594691 383593001 0.000000e+00 2625.0
7 TraesCS3B01G310700 chr3A 89.489 1056 75 17 621 1648 506468399 506467352 0.000000e+00 1303.0
8 TraesCS3B01G310700 chr3A 92.074 593 38 1 1642 2225 506463319 506462727 0.000000e+00 826.0
9 TraesCS3B01G310700 chr3A 82.941 340 27 9 2863 3194 506461933 506461617 8.730000e-71 278.0
10 TraesCS3B01G310700 chr3A 79.747 237 30 7 2241 2474 506462613 506462392 4.270000e-34 156.0
11 TraesCS3B01G310700 chr3A 84.615 104 6 8 500 594 679292236 679292338 9.430000e-16 95.3
12 TraesCS3B01G310700 chr5D 80.574 1776 196 65 753 2453 495778402 495780103 0.000000e+00 1230.0
13 TraesCS3B01G310700 chr5A 83.392 1409 145 42 1101 2453 619724417 619725792 0.000000e+00 1223.0
14 TraesCS3B01G310700 chr5A 73.466 554 91 36 6 538 558973009 558973527 1.190000e-34 158.0
15 TraesCS3B01G310700 chr5B 82.119 1510 171 52 753 2206 613030879 613032345 0.000000e+00 1201.0
16 TraesCS3B01G310700 chr6B 87.049 471 46 11 73 536 447945689 447945227 4.720000e-143 518.0
17 TraesCS3B01G310700 chr6B 77.961 608 92 24 4 591 679671329 679670744 3.050000e-90 342.0
18 TraesCS3B01G310700 chr6B 83.838 99 8 6 500 591 549619076 549619173 1.580000e-13 87.9
19 TraesCS3B01G310700 chr1D 81.669 611 85 23 1 593 288122425 288123026 1.720000e-132 483.0
20 TraesCS3B01G310700 chr1D 94.915 59 2 1 535 592 10950072 10950014 1.220000e-14 91.6
21 TraesCS3B01G310700 chr7A 80.310 452 64 16 93 536 492269389 492269823 5.140000e-83 318.0
22 TraesCS3B01G310700 chr2D 77.594 424 76 14 1426 1844 314341844 314341435 4.120000e-59 239.0
23 TraesCS3B01G310700 chr2D 97.222 36 1 0 2555 2590 332510036 332510071 9.570000e-06 62.1
24 TraesCS3B01G310700 chr2A 77.358 424 77 14 1426 1844 421221842 421222251 1.920000e-57 233.0
25 TraesCS3B01G310700 chr2B 77.919 394 68 14 1456 1844 382582134 382581755 8.910000e-56 228.0


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 TraesCS3B01G310700 chr3B 499188295 499191488 3193 True 5899 5899 100.000000 1 3194 1 chr3B.!!$R1 3193
1 TraesCS3B01G310700 chr3B 653629455 653629983 528 False 438 438 82.418000 72 592 1 chr3B.!!$F2 520
2 TraesCS3B01G310700 chr3D 383593001 383594691 1690 True 2625 2625 94.700000 591 2282 1 chr3D.!!$R1 1691
3 TraesCS3B01G310700 chr3A 506467352 506468399 1047 True 1303 1303 89.489000 621 1648 1 chr3A.!!$R1 1027
4 TraesCS3B01G310700 chr3A 506461617 506463319 1702 True 420 826 84.920667 1642 3194 3 chr3A.!!$R2 1552
5 TraesCS3B01G310700 chr5D 495778402 495780103 1701 False 1230 1230 80.574000 753 2453 1 chr5D.!!$F1 1700
6 TraesCS3B01G310700 chr5A 619724417 619725792 1375 False 1223 1223 83.392000 1101 2453 1 chr5A.!!$F2 1352
7 TraesCS3B01G310700 chr5B 613030879 613032345 1466 False 1201 1201 82.119000 753 2206 1 chr5B.!!$F1 1453
8 TraesCS3B01G310700 chr6B 679670744 679671329 585 True 342 342 77.961000 4 591 1 chr6B.!!$R2 587
9 TraesCS3B01G310700 chr1D 288122425 288123026 601 False 483 483 81.669000 1 593 1 chr1D.!!$F1 592

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
907 997 0.107081 TTCCTTTTTCGGCCGTCAGA 59.893 50.0 27.15 11.69 0.0 3.27 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2619 2967 0.032952 TTTTGTGAGACCGGTCCTCG 59.967 55.0 30.82 0.0 38.88 4.63 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
225 279 9.706691 TCACAAATCTATAAAAGAGTTCTTCGT 57.293 29.630 0.00 0.00 40.44 3.85
334 392 1.046204 AGAGAAGGAAAACCGGTCGT 58.954 50.000 8.04 0.00 0.00 4.34
340 398 3.405823 AGGAAAACCGGTCGTGATTTA 57.594 42.857 8.04 0.00 0.00 1.40
342 400 2.159612 GGAAAACCGGTCGTGATTTAGC 60.160 50.000 8.04 0.00 0.00 3.09
366 429 6.261118 CCAAAGAATAGGAGAAAAATGAGCG 58.739 40.000 0.00 0.00 0.00 5.03
380 443 0.678950 TGAGCGACTTGTCACATGGA 59.321 50.000 0.00 0.00 0.00 3.41
432 502 4.225267 GCTACCCTATGGTATAGGTTGCAT 59.775 45.833 12.53 0.00 46.04 3.96
446 516 4.634199 AGGTTGCATGTTTGAATCCTTTG 58.366 39.130 0.00 0.00 0.00 2.77
454 524 3.132646 TGTTTGAATCCTTTGCTGCACTT 59.867 39.130 0.00 0.00 0.00 3.16
494 565 3.181428 ACAGAAAAAGAGAAGGGAAGGGG 60.181 47.826 0.00 0.00 0.00 4.79
498 569 2.743131 AAGAGAAGGGAAGGGGAAGA 57.257 50.000 0.00 0.00 0.00 2.87
505 576 1.073098 GGGAAGGGGAAGAAACTGGA 58.927 55.000 0.00 0.00 0.00 3.86
510 581 1.759236 GGGAAGAAACTGGACCGGT 59.241 57.895 6.92 6.92 0.00 5.28
612 691 0.732571 CAAATAGGACATGCCGCGTT 59.267 50.000 4.92 0.00 43.43 4.84
654 734 1.109323 AAAGGCCGGAAGCATATGGC 61.109 55.000 5.05 0.00 46.50 4.40
693 774 1.605202 CCTTTGTGCCACCAAAATCCG 60.605 52.381 0.00 0.00 34.15 4.18
715 796 4.508124 CGCTTCTTAGCCATCTTTTCGTAT 59.492 41.667 0.00 0.00 44.86 3.06
866 955 1.827399 GAAGCGGAGTTGGAGTCCCA 61.827 60.000 6.74 0.00 41.64 4.37
907 997 0.107081 TTCCTTTTTCGGCCGTCAGA 59.893 50.000 27.15 11.69 0.00 3.27
910 1000 1.156736 CTTTTTCGGCCGTCAGACAT 58.843 50.000 27.15 0.00 0.00 3.06
911 1001 2.343101 CTTTTTCGGCCGTCAGACATA 58.657 47.619 27.15 0.00 0.00 2.29
912 1002 2.684001 TTTTCGGCCGTCAGACATAT 57.316 45.000 27.15 0.00 0.00 1.78
913 1003 3.804786 TTTTCGGCCGTCAGACATATA 57.195 42.857 27.15 0.00 0.00 0.86
923 1014 8.350722 CGGCCGTCAGACATATATATATACTTT 58.649 37.037 19.50 0.00 0.00 2.66
1040 1162 2.184579 CTTCTCGTCGGGCTTCCC 59.815 66.667 0.00 0.00 41.09 3.97
1141 1263 0.456995 GAAGAAGAGGGCGACGACTG 60.457 60.000 0.00 0.00 0.00 3.51
1184 1315 0.462047 GATTCATTCGTGGTCCCGCT 60.462 55.000 0.00 0.00 0.00 5.52
1305 1445 0.976641 ACGTGAGCATGGAGGAAGAA 59.023 50.000 0.00 0.00 0.00 2.52
1597 1783 2.692368 ACCCCATCACCGGCATCT 60.692 61.111 0.00 0.00 0.00 2.90
1980 2196 2.028930 GCCGGTTCAGAAGAAGAAGAGA 60.029 50.000 1.90 0.00 33.63 3.10
2169 2391 3.226777 TCCGATGCTTCCCTTTGAAAAA 58.773 40.909 0.00 0.00 31.06 1.94
2270 2594 3.514645 CGATTTCAAATGGCTCCCAAAG 58.485 45.455 0.00 0.00 36.95 2.77
2271 2595 3.193267 CGATTTCAAATGGCTCCCAAAGA 59.807 43.478 0.00 0.00 36.95 2.52
2290 2614 7.410120 CAAAGATTTGGGTCCTATAGCTTTT 57.590 36.000 6.26 0.00 34.59 2.27
2291 2615 8.519799 CAAAGATTTGGGTCCTATAGCTTTTA 57.480 34.615 6.26 0.00 34.59 1.52
2292 2616 8.406297 CAAAGATTTGGGTCCTATAGCTTTTAC 58.594 37.037 6.26 0.00 34.59 2.01
2293 2617 7.208064 AGATTTGGGTCCTATAGCTTTTACA 57.792 36.000 0.00 0.00 0.00 2.41
2294 2618 7.639378 AGATTTGGGTCCTATAGCTTTTACAA 58.361 34.615 0.00 0.00 0.00 2.41
2295 2619 8.282256 AGATTTGGGTCCTATAGCTTTTACAAT 58.718 33.333 0.00 0.00 0.00 2.71
2296 2620 7.639113 TTTGGGTCCTATAGCTTTTACAATG 57.361 36.000 0.00 0.00 0.00 2.82
2297 2621 6.321821 TGGGTCCTATAGCTTTTACAATGT 57.678 37.500 0.00 0.00 0.00 2.71
2298 2622 6.119536 TGGGTCCTATAGCTTTTACAATGTG 58.880 40.000 0.00 0.00 0.00 3.21
2342 2669 7.668492 AGTAGTTGTTCTCCGTCTTCTAAAAT 58.332 34.615 0.00 0.00 0.00 1.82
2345 2672 8.535690 AGTTGTTCTCCGTCTTCTAAAATAAG 57.464 34.615 0.00 0.00 0.00 1.73
2346 2673 8.365647 AGTTGTTCTCCGTCTTCTAAAATAAGA 58.634 33.333 0.00 0.00 0.00 2.10
2348 2675 7.893658 TGTTCTCCGTCTTCTAAAATAAGAGT 58.106 34.615 0.00 0.00 33.75 3.24
2349 2676 8.365647 TGTTCTCCGTCTTCTAAAATAAGAGTT 58.634 33.333 0.00 0.00 33.75 3.01
2376 2703 3.452990 TCTCCATATTTGCCGTGTCCTTA 59.547 43.478 0.00 0.00 0.00 2.69
2380 2707 5.654650 TCCATATTTGCCGTGTCCTTATTTT 59.345 36.000 0.00 0.00 0.00 1.82
2474 2807 3.423539 ACCAAATTCTCTGTGCAGCTA 57.576 42.857 0.00 0.00 0.00 3.32
2475 2808 3.754965 ACCAAATTCTCTGTGCAGCTAA 58.245 40.909 0.00 0.00 0.00 3.09
2482 2825 7.693969 AATTCTCTGTGCAGCTAACTAAATT 57.306 32.000 0.00 0.00 0.00 1.82
2489 2832 8.040727 TCTGTGCAGCTAACTAAATTCTATTCA 58.959 33.333 0.00 0.00 0.00 2.57
2490 2833 8.560355 TGTGCAGCTAACTAAATTCTATTCAA 57.440 30.769 0.00 0.00 0.00 2.69
2509 2852 3.369756 TCAAATGACGTTCAAGATACGCC 59.630 43.478 0.00 0.00 42.49 5.68
2517 2860 1.153449 CAAGATACGCCGAGGCCAA 60.153 57.895 5.01 0.00 37.98 4.52
2519 2862 0.743345 AAGATACGCCGAGGCCAAAC 60.743 55.000 5.01 0.00 37.98 2.93
2528 2876 1.767692 GAGGCCAAACAGGGAAGGA 59.232 57.895 5.01 0.00 38.09 3.36
2530 2878 0.113190 AGGCCAAACAGGGAAGGAAG 59.887 55.000 5.01 0.00 38.09 3.46
2533 2881 2.529632 GCCAAACAGGGAAGGAAGAAT 58.470 47.619 0.00 0.00 38.09 2.40
2534 2882 2.232208 GCCAAACAGGGAAGGAAGAATG 59.768 50.000 0.00 0.00 38.09 2.67
2540 2888 3.395941 ACAGGGAAGGAAGAATGACAACT 59.604 43.478 0.00 0.00 0.00 3.16
2541 2889 4.006319 CAGGGAAGGAAGAATGACAACTC 58.994 47.826 0.00 0.00 0.00 3.01
2543 2891 3.753797 GGGAAGGAAGAATGACAACTCAC 59.246 47.826 0.00 0.00 0.00 3.51
2544 2892 3.753797 GGAAGGAAGAATGACAACTCACC 59.246 47.826 0.00 0.00 0.00 4.02
2550 2898 6.015940 AGGAAGAATGACAACTCACCATTTTC 60.016 38.462 0.00 0.00 31.40 2.29
2552 2900 5.388654 AGAATGACAACTCACCATTTTCCT 58.611 37.500 0.00 0.00 31.40 3.36
2555 2903 7.505585 AGAATGACAACTCACCATTTTCCTAAA 59.494 33.333 0.00 0.00 31.40 1.85
2556 2904 7.595819 ATGACAACTCACCATTTTCCTAAAA 57.404 32.000 0.00 0.00 34.41 1.52
2557 2905 7.411486 TGACAACTCACCATTTTCCTAAAAA 57.589 32.000 0.00 0.00 38.66 1.94
2558 2906 7.488322 TGACAACTCACCATTTTCCTAAAAAG 58.512 34.615 0.00 0.00 37.76 2.27
2559 2907 6.816136 ACAACTCACCATTTTCCTAAAAAGG 58.184 36.000 5.16 5.16 43.11 3.11
2566 2914 6.558771 CCATTTTCCTAAAAAGGGCAAAAG 57.441 37.500 1.89 0.00 45.98 2.27
2567 2915 6.295249 CCATTTTCCTAAAAAGGGCAAAAGA 58.705 36.000 1.89 0.00 45.98 2.52
2568 2916 6.204688 CCATTTTCCTAAAAAGGGCAAAAGAC 59.795 38.462 1.89 0.00 45.98 3.01
2569 2917 6.553953 TTTTCCTAAAAAGGGCAAAAGACT 57.446 33.333 0.00 0.00 30.90 3.24
2570 2918 6.553953 TTTCCTAAAAAGGGCAAAAGACTT 57.446 33.333 0.00 0.00 0.00 3.01
2571 2919 5.529581 TCCTAAAAAGGGCAAAAGACTTG 57.470 39.130 0.00 0.00 0.00 3.16
2572 2920 4.058124 CCTAAAAAGGGCAAAAGACTTGC 58.942 43.478 0.78 0.78 44.22 4.01
2577 2925 4.972591 GCAAAAGACTTGCCGCAT 57.027 50.000 0.00 0.00 39.38 4.73
2578 2926 3.199764 GCAAAAGACTTGCCGCATT 57.800 47.368 0.00 0.00 39.38 3.56
2579 2927 1.063031 GCAAAAGACTTGCCGCATTC 58.937 50.000 0.00 0.00 39.38 2.67
2580 2928 1.602668 GCAAAAGACTTGCCGCATTCA 60.603 47.619 0.00 0.00 39.38 2.57
2581 2929 2.927871 GCAAAAGACTTGCCGCATTCAT 60.928 45.455 0.00 0.00 39.38 2.57
2582 2930 2.919229 CAAAAGACTTGCCGCATTCATC 59.081 45.455 0.00 0.00 0.00 2.92
2583 2931 1.825090 AAGACTTGCCGCATTCATCA 58.175 45.000 0.00 0.00 0.00 3.07
2584 2932 1.825090 AGACTTGCCGCATTCATCAA 58.175 45.000 0.00 0.00 0.00 2.57
2585 2933 2.372264 AGACTTGCCGCATTCATCAAT 58.628 42.857 0.00 0.00 0.00 2.57
2586 2934 2.756760 AGACTTGCCGCATTCATCAATT 59.243 40.909 0.00 0.00 0.00 2.32
2587 2935 3.947196 AGACTTGCCGCATTCATCAATTA 59.053 39.130 0.00 0.00 0.00 1.40
2588 2936 4.398988 AGACTTGCCGCATTCATCAATTAA 59.601 37.500 0.00 0.00 0.00 1.40
2589 2937 4.675510 ACTTGCCGCATTCATCAATTAAG 58.324 39.130 0.00 0.00 0.00 1.85
2590 2938 4.398988 ACTTGCCGCATTCATCAATTAAGA 59.601 37.500 0.00 0.00 0.00 2.10
2591 2939 4.556942 TGCCGCATTCATCAATTAAGAG 57.443 40.909 0.00 0.00 0.00 2.85
2592 2940 4.198530 TGCCGCATTCATCAATTAAGAGA 58.801 39.130 0.00 0.00 0.00 3.10
2593 2941 4.639755 TGCCGCATTCATCAATTAAGAGAA 59.360 37.500 0.00 0.00 0.00 2.87
2594 2942 5.300034 TGCCGCATTCATCAATTAAGAGAAT 59.700 36.000 0.00 0.00 0.00 2.40
2595 2943 6.183360 TGCCGCATTCATCAATTAAGAGAATT 60.183 34.615 0.00 0.00 0.00 2.17
2596 2944 7.013178 TGCCGCATTCATCAATTAAGAGAATTA 59.987 33.333 0.00 0.00 0.00 1.40
2597 2945 8.025445 GCCGCATTCATCAATTAAGAGAATTAT 58.975 33.333 0.00 0.00 0.00 1.28
2598 2946 9.338291 CCGCATTCATCAATTAAGAGAATTATG 57.662 33.333 0.00 0.00 0.00 1.90
2610 2958 8.909708 TTAAGAGAATTATGAACAATTTGGCG 57.090 30.769 0.78 0.00 0.00 5.69
2611 2959 5.343249 AGAGAATTATGAACAATTTGGCGC 58.657 37.500 0.00 0.00 0.00 6.53
2612 2960 4.432712 AGAATTATGAACAATTTGGCGCC 58.567 39.130 22.73 22.73 0.00 6.53
2613 2961 2.663826 TTATGAACAATTTGGCGCCC 57.336 45.000 26.77 5.97 0.00 6.13
2614 2962 0.453793 TATGAACAATTTGGCGCCCG 59.546 50.000 26.77 9.72 0.00 6.13
2615 2963 1.247419 ATGAACAATTTGGCGCCCGA 61.247 50.000 26.77 13.29 0.00 5.14
2616 2964 1.154035 GAACAATTTGGCGCCCGAG 60.154 57.895 26.77 11.95 0.00 4.63
2617 2965 2.542211 GAACAATTTGGCGCCCGAGG 62.542 60.000 26.77 12.37 0.00 4.63
2618 2966 3.825611 CAATTTGGCGCCCGAGGG 61.826 66.667 26.77 7.09 38.57 4.30
2634 2982 4.131088 GGCGAGGACCGGTCTCAC 62.131 72.222 32.52 20.43 39.04 3.51
2635 2983 3.371063 GCGAGGACCGGTCTCACA 61.371 66.667 32.52 0.00 39.04 3.58
2636 2984 2.927580 GCGAGGACCGGTCTCACAA 61.928 63.158 32.52 0.00 39.04 3.33
2637 2985 1.663739 CGAGGACCGGTCTCACAAA 59.336 57.895 32.52 0.00 33.91 2.83
2638 2986 0.032952 CGAGGACCGGTCTCACAAAA 59.967 55.000 32.52 0.00 33.91 2.44
2639 2987 1.539496 CGAGGACCGGTCTCACAAAAA 60.539 52.381 32.52 0.00 33.91 1.94
2640 2988 1.871676 GAGGACCGGTCTCACAAAAAC 59.128 52.381 32.52 13.59 0.00 2.43
2641 2989 0.949397 GGACCGGTCTCACAAAAACC 59.051 55.000 32.52 10.25 0.00 3.27
2642 2990 1.476291 GGACCGGTCTCACAAAAACCT 60.476 52.381 32.52 0.00 0.00 3.50
2643 2991 2.224354 GGACCGGTCTCACAAAAACCTA 60.224 50.000 32.52 0.00 0.00 3.08
2653 3001 2.096417 CACAAAAACCTACTCTTCGGCG 60.096 50.000 0.00 0.00 0.00 6.46
2656 3004 0.963962 AAACCTACTCTTCGGCGTGA 59.036 50.000 6.85 5.98 0.00 4.35
2677 3025 1.675641 GATGTGCACCCTTCGGCTT 60.676 57.895 15.69 0.00 0.00 4.35
2693 3041 1.616994 GGCTTGGGTGGCTGTAGATTT 60.617 52.381 0.00 0.00 0.00 2.17
2704 3052 4.202461 TGGCTGTAGATTTGGTGAAGACTT 60.202 41.667 0.00 0.00 0.00 3.01
2705 3053 4.762251 GGCTGTAGATTTGGTGAAGACTTT 59.238 41.667 0.00 0.00 0.00 2.66
2708 3056 6.618287 TGTAGATTTGGTGAAGACTTTGTG 57.382 37.500 0.00 0.00 0.00 3.33
2730 3078 4.220382 TGGAACCTAATTGCTTCCAACATG 59.780 41.667 9.66 0.00 40.42 3.21
2731 3079 3.874392 ACCTAATTGCTTCCAACATGC 57.126 42.857 0.00 0.00 32.95 4.06
2787 3137 5.475220 TGCTTATCTCGTGGGAAATTTGAAA 59.525 36.000 0.00 0.00 0.00 2.69
2808 3158 2.457598 AGAGAGAAATGCCCGTGTCTA 58.542 47.619 0.00 0.00 0.00 2.59
2821 3171 3.812577 TGTCTACCATGACACTGCG 57.187 52.632 0.00 0.00 41.43 5.18
2825 3175 1.361668 CTACCATGACACTGCGGTGC 61.362 60.000 25.67 17.78 46.57 5.01
2833 3183 3.606662 ACTGCGGTGCTGTCTCGT 61.607 61.111 0.00 0.00 35.96 4.18
2897 3391 5.047847 GCCTTTGGACAAAAACCTCTAAAC 58.952 41.667 0.00 0.00 0.00 2.01
2906 3400 8.857098 GGACAAAAACCTCTAAACCTTCTTATT 58.143 33.333 0.00 0.00 0.00 1.40
2912 3406 8.581253 AACCTCTAAACCTTCTTATTCAATGG 57.419 34.615 0.00 0.00 0.00 3.16
2918 3412 6.840780 AACCTTCTTATTCAATGGAAGTGG 57.159 37.500 11.49 4.68 36.25 4.00
2920 3414 4.201950 CCTTCTTATTCAATGGAAGTGGCG 60.202 45.833 11.49 0.00 36.25 5.69
2924 3418 6.353323 TCTTATTCAATGGAAGTGGCGAATA 58.647 36.000 0.00 0.00 36.25 1.75
2939 3433 4.110036 GCGAATATTTTGCCCAGTCTTT 57.890 40.909 3.00 0.00 33.83 2.52
2940 3434 3.859386 GCGAATATTTTGCCCAGTCTTTG 59.141 43.478 3.00 0.00 33.83 2.77
2982 3476 4.152647 TGGTATTACACAAATGGGTTGCA 58.847 39.130 0.00 0.00 41.31 4.08
3003 3497 1.557371 CCCGCAAACCCCCAATTATTT 59.443 47.619 0.00 0.00 0.00 1.40
3009 3503 1.775385 ACCCCCAATTATTTGCCTCG 58.225 50.000 0.00 0.00 0.00 4.63
3012 3506 1.688197 CCCCAATTATTTGCCTCGCAT 59.312 47.619 0.00 0.00 38.76 4.73
3014 3508 2.361757 CCCAATTATTTGCCTCGCATCA 59.638 45.455 0.00 0.00 38.76 3.07
3019 3513 4.926860 TTATTTGCCTCGCATCATATCG 57.073 40.909 0.00 0.00 38.76 2.92
3041 3535 5.041287 CGTAGACATGATTATGGTTGACGT 58.959 41.667 0.00 0.00 38.66 4.34
3042 3536 5.518847 CGTAGACATGATTATGGTTGACGTT 59.481 40.000 0.00 0.00 38.66 3.99
3043 3537 5.801350 AGACATGATTATGGTTGACGTTG 57.199 39.130 0.00 0.00 38.66 4.10
3046 3540 4.217334 ACATGATTATGGTTGACGTTGCAA 59.783 37.500 0.00 0.00 38.66 4.08
3047 3541 4.837896 TGATTATGGTTGACGTTGCAAA 57.162 36.364 0.00 0.00 0.00 3.68
3049 3543 4.277174 TGATTATGGTTGACGTTGCAAACT 59.723 37.500 0.00 0.00 46.99 2.66
3050 3544 4.640789 TTATGGTTGACGTTGCAAACTT 57.359 36.364 0.00 3.28 46.99 2.66
3051 3545 2.270275 TGGTTGACGTTGCAAACTTG 57.730 45.000 0.00 0.00 46.99 3.16
3052 3546 1.542030 TGGTTGACGTTGCAAACTTGT 59.458 42.857 0.00 0.00 46.99 3.16
3053 3547 2.029828 TGGTTGACGTTGCAAACTTGTT 60.030 40.909 0.00 0.00 46.99 2.83
3054 3548 2.344142 GGTTGACGTTGCAAACTTGTTG 59.656 45.455 0.00 0.00 46.99 3.33
3055 3549 1.623359 TGACGTTGCAAACTTGTTGC 58.377 45.000 0.00 4.12 46.99 4.17
3056 3550 0.920664 GACGTTGCAAACTTGTTGCC 59.079 50.000 0.00 0.00 46.99 4.52
3057 3551 0.800300 ACGTTGCAAACTTGTTGCCG 60.800 50.000 0.00 8.07 46.99 5.69
3058 3552 0.524392 CGTTGCAAACTTGTTGCCGA 60.524 50.000 0.00 0.00 46.99 5.54
3059 3553 1.634702 GTTGCAAACTTGTTGCCGAA 58.365 45.000 0.00 0.00 45.32 4.30
3060 3554 1.587946 GTTGCAAACTTGTTGCCGAAG 59.412 47.619 0.00 0.00 45.32 3.79
3061 3555 1.098869 TGCAAACTTGTTGCCGAAGA 58.901 45.000 8.47 0.00 44.32 2.87
3062 3556 1.680735 TGCAAACTTGTTGCCGAAGAT 59.319 42.857 8.47 0.00 44.32 2.40
3063 3557 2.287547 TGCAAACTTGTTGCCGAAGATC 60.288 45.455 8.47 0.00 44.32 2.75
3064 3558 2.922335 GCAAACTTGTTGCCGAAGATCC 60.922 50.000 0.00 0.00 39.38 3.36
3065 3559 2.554032 CAAACTTGTTGCCGAAGATCCT 59.446 45.455 0.00 0.00 0.00 3.24
3066 3560 2.568623 ACTTGTTGCCGAAGATCCTT 57.431 45.000 0.00 0.00 0.00 3.36
3077 3571 1.601430 GAAGATCCTTGCATTCCGCTC 59.399 52.381 0.00 0.00 43.06 5.03
3093 3587 0.238553 GCTCGTTTCAAAGCTCCCAC 59.761 55.000 0.00 0.00 35.60 4.61
3113 3607 3.740397 CACCACAGCACGCCATGG 61.740 66.667 7.63 7.63 38.26 3.66
3146 3640 1.674322 AATGCCACACGGTGCTACC 60.674 57.895 8.30 0.00 34.05 3.18
3174 3668 1.535028 CAGCTAACGGCATGAACACAA 59.465 47.619 0.00 0.00 44.79 3.33
3175 3669 1.535462 AGCTAACGGCATGAACACAAC 59.465 47.619 0.00 0.00 44.79 3.32
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
262 318 9.956720 TTGTTTTCTTTTTCTTTTGCAAATGAA 57.043 22.222 27.46 27.46 31.15 2.57
263 319 9.956720 TTTGTTTTCTTTTTCTTTTGCAAATGA 57.043 22.222 20.42 20.42 0.00 2.57
306 364 5.106277 CCGGTTTTCCTTCTCTTTGTTATCC 60.106 44.000 0.00 0.00 37.95 2.59
312 370 2.223377 CGACCGGTTTTCCTTCTCTTTG 59.777 50.000 9.42 0.00 37.95 2.77
318 376 1.804601 ATCACGACCGGTTTTCCTTC 58.195 50.000 9.42 0.00 37.95 3.46
321 379 2.159612 GCTAAATCACGACCGGTTTTCC 60.160 50.000 9.42 0.00 0.00 3.13
334 392 8.877864 TTTTCTCCTATTCTTTGGCTAAATCA 57.122 30.769 0.00 0.00 0.00 2.57
340 398 6.127507 GCTCATTTTTCTCCTATTCTTTGGCT 60.128 38.462 0.00 0.00 0.00 4.75
342 400 6.094048 TCGCTCATTTTTCTCCTATTCTTTGG 59.906 38.462 0.00 0.00 0.00 3.28
366 429 2.795329 ACCCATTCCATGTGACAAGTC 58.205 47.619 0.00 0.00 0.00 3.01
380 443 2.958355 CAACCACTTGAGTCAACCCATT 59.042 45.455 0.08 0.00 0.00 3.16
389 459 0.748005 AACGCTGCAACCACTTGAGT 60.748 50.000 0.00 0.00 0.00 3.41
391 461 1.726865 CAACGCTGCAACCACTTGA 59.273 52.632 0.00 0.00 0.00 3.02
415 485 7.566760 TTCAAACATGCAACCTATACCATAG 57.433 36.000 0.00 0.00 0.00 2.23
432 502 2.694628 AGTGCAGCAAAGGATTCAAACA 59.305 40.909 0.00 0.00 0.00 2.83
505 576 1.176527 CTGCATGATTTTGGACCGGT 58.823 50.000 6.92 6.92 0.00 5.28
510 581 2.225091 ACACCCTCTGCATGATTTTGGA 60.225 45.455 0.00 0.00 0.00 3.53
612 691 2.441164 GGCCTCTCTCGCTCCTCA 60.441 66.667 0.00 0.00 0.00 3.86
654 734 2.707849 CGGTGGACGGGTCTACAGG 61.708 68.421 15.70 4.84 42.04 4.00
693 774 7.621811 ACCATACGAAAAGATGGCTAAGAAGC 61.622 42.308 0.77 0.00 45.63 3.86
715 796 4.386951 CCGTGGATCCGTGCACCA 62.387 66.667 12.15 0.00 43.03 4.17
866 955 4.290942 AGGAAGAGATGTATCGGGAGTTT 58.709 43.478 0.00 0.00 0.00 2.66
877 966 4.327680 CCGAAAAAGGAAGGAAGAGATGT 58.672 43.478 0.00 0.00 0.00 3.06
911 1001 8.038944 CGCAACACAGGGGTAAAGTATATATAT 58.961 37.037 0.00 0.00 0.00 0.86
912 1002 7.233144 TCGCAACACAGGGGTAAAGTATATATA 59.767 37.037 0.00 0.00 0.00 0.86
913 1003 6.042322 TCGCAACACAGGGGTAAAGTATATAT 59.958 38.462 0.00 0.00 0.00 0.86
923 1014 1.216977 CGATCGCAACACAGGGGTA 59.783 57.895 0.26 0.00 0.00 3.69
1184 1315 0.679505 CACCACCCGTCTCTTCTTCA 59.320 55.000 0.00 0.00 0.00 3.02
1231 1371 4.514577 CTGAACCGGGATCGCGCT 62.515 66.667 25.28 14.78 34.56 5.92
1305 1445 4.070552 GCTGACGTCCCGGCTTCT 62.071 66.667 14.12 0.00 35.04 2.85
1597 1783 1.807886 GCGTCTCCTTCTCGGCTAA 59.192 57.895 0.00 0.00 0.00 3.09
1650 1839 1.069090 GCTGTGGTCGTCTTGGACA 59.931 57.895 0.00 0.00 38.70 4.02
1965 2181 2.230025 CGCCTGTCTCTTCTTCTTCTGA 59.770 50.000 0.00 0.00 0.00 3.27
2169 2391 2.417933 GCAAATCTGAGCAGTCGATGTT 59.582 45.455 0.00 0.00 0.00 2.71
2176 2398 2.568956 TGTCCTAGCAAATCTGAGCAGT 59.431 45.455 0.00 0.00 0.00 4.40
2236 2462 4.926860 TTGAAATCGCACAGTCTACATG 57.073 40.909 0.00 0.00 0.00 3.21
2254 2578 4.540359 CAAATCTTTGGGAGCCATTTGA 57.460 40.909 4.21 0.00 34.14 2.69
2270 2594 7.875327 TTGTAAAAGCTATAGGACCCAAATC 57.125 36.000 1.04 0.00 0.00 2.17
2271 2595 7.839200 ACATTGTAAAAGCTATAGGACCCAAAT 59.161 33.333 1.04 0.00 0.00 2.32
2312 2639 6.316890 AGAAGACGGAGAACAACTACTCTATC 59.683 42.308 0.00 0.00 34.11 2.08
2317 2644 6.645790 TTTAGAAGACGGAGAACAACTACT 57.354 37.500 0.00 0.00 0.00 2.57
2318 2645 7.886405 ATTTTAGAAGACGGAGAACAACTAC 57.114 36.000 0.00 0.00 0.00 2.73
2319 2646 9.635520 CTTATTTTAGAAGACGGAGAACAACTA 57.364 33.333 0.00 0.00 0.00 2.24
2342 2669 8.836413 CGGCAAATATGGAGATTAAAACTCTTA 58.164 33.333 11.11 6.12 35.10 2.10
2345 2672 6.912591 CACGGCAAATATGGAGATTAAAACTC 59.087 38.462 4.97 4.97 0.00 3.01
2346 2673 6.377146 ACACGGCAAATATGGAGATTAAAACT 59.623 34.615 0.00 0.00 0.00 2.66
2348 2675 6.183360 GGACACGGCAAATATGGAGATTAAAA 60.183 38.462 0.00 0.00 0.00 1.52
2349 2676 5.298276 GGACACGGCAAATATGGAGATTAAA 59.702 40.000 0.00 0.00 0.00 1.52
2366 2693 5.583495 TGTTGTTTGAAAATAAGGACACGG 58.417 37.500 0.00 0.00 0.00 4.94
2376 2703 6.015010 TCGGGATGGTATTGTTGTTTGAAAAT 60.015 34.615 0.00 0.00 0.00 1.82
2380 2707 4.006989 CTCGGGATGGTATTGTTGTTTGA 58.993 43.478 0.00 0.00 0.00 2.69
2418 2748 4.583871 AGGAACTGAAAGAAAGCGATGAT 58.416 39.130 0.00 0.00 37.18 2.45
2419 2749 4.008074 AGGAACTGAAAGAAAGCGATGA 57.992 40.909 0.00 0.00 37.18 2.92
2420 2750 4.756084 AAGGAACTGAAAGAAAGCGATG 57.244 40.909 0.00 0.00 40.86 3.84
2482 2825 7.253983 GCGTATCTTGAACGTCATTTGAATAGA 60.254 37.037 0.00 0.00 42.26 1.98
2489 2832 2.347452 CGGCGTATCTTGAACGTCATTT 59.653 45.455 0.00 0.00 44.88 2.32
2490 2833 1.924524 CGGCGTATCTTGAACGTCATT 59.075 47.619 0.00 0.00 44.88 2.57
2495 2838 1.480219 GCCTCGGCGTATCTTGAACG 61.480 60.000 6.85 0.00 43.12 3.95
2502 2845 1.429148 CTGTTTGGCCTCGGCGTATC 61.429 60.000 6.85 0.00 43.06 2.24
2504 2847 2.047655 CTGTTTGGCCTCGGCGTA 60.048 61.111 6.85 0.00 43.06 4.42
2509 2852 1.675641 CCTTCCCTGTTTGGCCTCG 60.676 63.158 3.32 0.00 0.00 4.63
2517 2860 4.141158 AGTTGTCATTCTTCCTTCCCTGTT 60.141 41.667 0.00 0.00 0.00 3.16
2519 2862 4.006319 GAGTTGTCATTCTTCCTTCCCTG 58.994 47.826 0.00 0.00 0.00 4.45
2523 2871 4.389374 TGGTGAGTTGTCATTCTTCCTTC 58.611 43.478 0.00 0.00 34.36 3.46
2528 2876 5.835280 AGGAAAATGGTGAGTTGTCATTCTT 59.165 36.000 0.00 0.00 34.36 2.52
2530 2878 5.712152 AGGAAAATGGTGAGTTGTCATTC 57.288 39.130 0.00 0.00 34.36 2.67
2533 2881 7.411486 TTTTTAGGAAAATGGTGAGTTGTCA 57.589 32.000 0.00 0.00 30.07 3.58
2534 2882 6.923508 CCTTTTTAGGAAAATGGTGAGTTGTC 59.076 38.462 7.94 0.00 39.53 3.18
2540 2888 4.227197 TGCCCTTTTTAGGAAAATGGTGA 58.773 39.130 12.84 0.83 41.58 4.02
2541 2889 4.615588 TGCCCTTTTTAGGAAAATGGTG 57.384 40.909 12.84 7.67 41.58 4.17
2543 2891 6.204688 GTCTTTTGCCCTTTTTAGGAAAATGG 59.795 38.462 8.81 8.81 41.06 3.16
2544 2892 6.992123 AGTCTTTTGCCCTTTTTAGGAAAATG 59.008 34.615 0.00 0.00 34.45 2.32
2550 2898 4.058124 GCAAGTCTTTTGCCCTTTTTAGG 58.942 43.478 0.54 0.00 39.38 2.69
2560 2908 1.063031 GAATGCGGCAAGTCTTTTGC 58.937 50.000 6.82 3.39 44.22 3.68
2561 2909 2.420628 TGAATGCGGCAAGTCTTTTG 57.579 45.000 6.82 0.00 0.00 2.44
2562 2910 2.557924 TGATGAATGCGGCAAGTCTTTT 59.442 40.909 6.82 0.00 0.00 2.27
2563 2911 2.161855 TGATGAATGCGGCAAGTCTTT 58.838 42.857 6.82 0.00 0.00 2.52
2564 2912 1.825090 TGATGAATGCGGCAAGTCTT 58.175 45.000 6.82 5.96 0.00 3.01
2565 2913 1.825090 TTGATGAATGCGGCAAGTCT 58.175 45.000 6.82 0.00 0.00 3.24
2566 2914 2.857592 ATTGATGAATGCGGCAAGTC 57.142 45.000 6.82 8.45 0.00 3.01
2567 2915 4.398988 TCTTAATTGATGAATGCGGCAAGT 59.601 37.500 6.82 0.00 0.00 3.16
2568 2916 4.923893 TCTTAATTGATGAATGCGGCAAG 58.076 39.130 6.82 0.00 0.00 4.01
2569 2917 4.639755 TCTCTTAATTGATGAATGCGGCAA 59.360 37.500 6.82 0.00 0.00 4.52
2570 2918 4.198530 TCTCTTAATTGATGAATGCGGCA 58.801 39.130 4.58 4.58 0.00 5.69
2571 2919 4.818534 TCTCTTAATTGATGAATGCGGC 57.181 40.909 0.00 0.00 0.00 6.53
2572 2920 9.338291 CATAATTCTCTTAATTGATGAATGCGG 57.662 33.333 0.00 0.00 0.00 5.69
2584 2932 9.520204 CGCCAAATTGTTCATAATTCTCTTAAT 57.480 29.630 0.00 0.00 30.33 1.40
2585 2933 7.487829 GCGCCAAATTGTTCATAATTCTCTTAA 59.512 33.333 0.00 0.00 30.33 1.85
2586 2934 6.972328 GCGCCAAATTGTTCATAATTCTCTTA 59.028 34.615 0.00 0.00 30.33 2.10
2587 2935 5.807011 GCGCCAAATTGTTCATAATTCTCTT 59.193 36.000 0.00 0.00 30.33 2.85
2588 2936 5.343249 GCGCCAAATTGTTCATAATTCTCT 58.657 37.500 0.00 0.00 30.33 3.10
2589 2937 4.504097 GGCGCCAAATTGTTCATAATTCTC 59.496 41.667 24.80 0.00 30.33 2.87
2590 2938 4.432712 GGCGCCAAATTGTTCATAATTCT 58.567 39.130 24.80 0.00 30.33 2.40
2591 2939 3.555547 GGGCGCCAAATTGTTCATAATTC 59.444 43.478 30.85 0.00 30.33 2.17
2592 2940 3.530535 GGGCGCCAAATTGTTCATAATT 58.469 40.909 30.85 0.00 31.87 1.40
2593 2941 2.481104 CGGGCGCCAAATTGTTCATAAT 60.481 45.455 30.85 0.00 0.00 1.28
2594 2942 1.135257 CGGGCGCCAAATTGTTCATAA 60.135 47.619 30.85 0.00 0.00 1.90
2595 2943 0.453793 CGGGCGCCAAATTGTTCATA 59.546 50.000 30.85 0.00 0.00 2.15
2596 2944 1.215117 CGGGCGCCAAATTGTTCAT 59.785 52.632 30.85 0.00 0.00 2.57
2597 2945 1.861542 CTCGGGCGCCAAATTGTTCA 61.862 55.000 30.85 0.00 0.00 3.18
2598 2946 1.154035 CTCGGGCGCCAAATTGTTC 60.154 57.895 30.85 6.91 0.00 3.18
2599 2947 2.635443 CCTCGGGCGCCAAATTGTT 61.635 57.895 30.85 0.00 0.00 2.83
2600 2948 3.061848 CCTCGGGCGCCAAATTGT 61.062 61.111 30.85 0.00 0.00 2.71
2601 2949 3.825611 CCCTCGGGCGCCAAATTG 61.826 66.667 30.85 12.14 0.00 2.32
2617 2965 4.131088 GTGAGACCGGTCCTCGCC 62.131 72.222 30.82 16.45 35.69 5.54
2618 2966 2.430382 TTTGTGAGACCGGTCCTCGC 62.430 60.000 30.82 28.42 40.51 5.03
2619 2967 0.032952 TTTTGTGAGACCGGTCCTCG 59.967 55.000 30.82 0.00 38.88 4.63
2620 2968 1.871676 GTTTTTGTGAGACCGGTCCTC 59.128 52.381 30.82 24.78 0.00 3.71
2621 2969 1.476291 GGTTTTTGTGAGACCGGTCCT 60.476 52.381 30.82 17.98 0.00 3.85
2622 2970 0.949397 GGTTTTTGTGAGACCGGTCC 59.051 55.000 30.82 21.56 0.00 4.46
2623 2971 1.963172 AGGTTTTTGTGAGACCGGTC 58.037 50.000 27.67 27.67 38.48 4.79
2624 2972 2.436911 AGTAGGTTTTTGTGAGACCGGT 59.563 45.455 6.92 6.92 38.48 5.28
2625 2973 3.064931 GAGTAGGTTTTTGTGAGACCGG 58.935 50.000 0.00 0.00 38.48 5.28
2626 2974 3.991367 AGAGTAGGTTTTTGTGAGACCG 58.009 45.455 0.00 0.00 38.48 4.79
2627 2975 4.448060 CGAAGAGTAGGTTTTTGTGAGACC 59.552 45.833 0.00 0.00 0.00 3.85
2628 2976 4.448060 CCGAAGAGTAGGTTTTTGTGAGAC 59.552 45.833 0.00 0.00 0.00 3.36
2629 2977 4.628074 CCGAAGAGTAGGTTTTTGTGAGA 58.372 43.478 0.00 0.00 0.00 3.27
2630 2978 3.186613 GCCGAAGAGTAGGTTTTTGTGAG 59.813 47.826 0.00 0.00 0.00 3.51
2631 2979 3.135994 GCCGAAGAGTAGGTTTTTGTGA 58.864 45.455 0.00 0.00 0.00 3.58
2632 2980 2.096417 CGCCGAAGAGTAGGTTTTTGTG 60.096 50.000 0.00 0.00 0.00 3.33
2633 2981 2.140717 CGCCGAAGAGTAGGTTTTTGT 58.859 47.619 0.00 0.00 0.00 2.83
2634 2982 2.096417 CACGCCGAAGAGTAGGTTTTTG 60.096 50.000 0.00 0.00 0.00 2.44
2635 2983 2.140717 CACGCCGAAGAGTAGGTTTTT 58.859 47.619 0.00 0.00 0.00 1.94
2636 2984 1.342174 TCACGCCGAAGAGTAGGTTTT 59.658 47.619 0.00 0.00 0.00 2.43
2637 2985 0.963962 TCACGCCGAAGAGTAGGTTT 59.036 50.000 0.00 0.00 0.00 3.27
2638 2986 1.183549 ATCACGCCGAAGAGTAGGTT 58.816 50.000 0.00 0.00 0.00 3.50
2639 2987 1.135083 CAATCACGCCGAAGAGTAGGT 60.135 52.381 0.00 0.00 0.00 3.08
2640 2988 1.134367 TCAATCACGCCGAAGAGTAGG 59.866 52.381 0.00 0.00 0.00 3.18
2641 2989 2.561733 TCAATCACGCCGAAGAGTAG 57.438 50.000 0.00 0.00 0.00 2.57
2642 2990 2.165641 ACATCAATCACGCCGAAGAGTA 59.834 45.455 0.00 0.00 0.00 2.59
2643 2991 1.066858 ACATCAATCACGCCGAAGAGT 60.067 47.619 0.00 0.00 0.00 3.24
2653 3001 1.131126 CGAAGGGTGCACATCAATCAC 59.869 52.381 20.43 0.00 0.00 3.06
2677 3025 1.072266 ACCAAATCTACAGCCACCCA 58.928 50.000 0.00 0.00 0.00 4.51
2684 3032 6.293626 CCACAAAGTCTTCACCAAATCTACAG 60.294 42.308 0.00 0.00 0.00 2.74
2693 3041 2.241176 AGGTTCCACAAAGTCTTCACCA 59.759 45.455 0.00 0.00 0.00 4.17
2748 3096 2.226962 AAGCACAAGGAGGCATCATT 57.773 45.000 0.00 0.00 0.00 2.57
2755 3103 2.544685 CACGAGATAAGCACAAGGAGG 58.455 52.381 0.00 0.00 0.00 4.30
2759 3107 2.672961 TCCCACGAGATAAGCACAAG 57.327 50.000 0.00 0.00 0.00 3.16
2761 3109 3.627395 ATTTCCCACGAGATAAGCACA 57.373 42.857 0.00 0.00 0.00 4.57
2762 3110 4.394920 TCAAATTTCCCACGAGATAAGCAC 59.605 41.667 0.00 0.00 0.00 4.40
2787 3137 1.625818 AGACACGGGCATTTCTCTCTT 59.374 47.619 0.00 0.00 0.00 2.85
2808 3158 2.669569 GCACCGCAGTGTCATGGT 60.670 61.111 1.33 0.00 46.35 3.55
2818 3168 4.662961 CCACGAGACAGCACCGCA 62.663 66.667 0.00 0.00 0.00 5.69
2819 3169 4.664677 ACCACGAGACAGCACCGC 62.665 66.667 0.00 0.00 0.00 5.68
2820 3170 2.734723 CACCACGAGACAGCACCG 60.735 66.667 0.00 0.00 0.00 4.94
2821 3171 2.357517 CCACCACGAGACAGCACC 60.358 66.667 0.00 0.00 0.00 5.01
2825 3175 0.532862 ACTTTGCCACCACGAGACAG 60.533 55.000 0.00 0.00 0.00 3.51
2833 3183 5.772672 ACATTACTCAAATACTTTGCCACCA 59.227 36.000 0.00 0.00 40.43 4.17
2860 3210 1.201414 CAAAGGCCGAATTACACCACC 59.799 52.381 0.00 0.00 0.00 4.61
2861 3211 1.201414 CCAAAGGCCGAATTACACCAC 59.799 52.381 0.00 0.00 0.00 4.16
2897 3391 4.201950 CGCCACTTCCATTGAATAAGAAGG 60.202 45.833 16.69 9.35 40.02 3.46
2906 3400 5.649557 CAAAATATTCGCCACTTCCATTGA 58.350 37.500 0.00 0.00 0.00 2.57
2910 3404 2.165437 GGCAAAATATTCGCCACTTCCA 59.835 45.455 19.20 0.00 45.52 3.53
2918 3412 3.782889 AAGACTGGGCAAAATATTCGC 57.217 42.857 2.00 2.00 0.00 4.70
2920 3414 5.659440 TCCAAAGACTGGGCAAAATATTC 57.341 39.130 0.00 0.00 46.44 1.75
2924 3418 4.769345 TTTTCCAAAGACTGGGCAAAAT 57.231 36.364 0.00 0.00 46.44 1.82
2952 3446 7.665559 ACCCATTTGTGTAATACCATATGCTAG 59.334 37.037 0.00 0.00 0.00 3.42
2953 3447 7.522542 ACCCATTTGTGTAATACCATATGCTA 58.477 34.615 0.00 0.00 0.00 3.49
2954 3448 6.372931 ACCCATTTGTGTAATACCATATGCT 58.627 36.000 0.00 0.00 0.00 3.79
2959 3453 4.774726 TGCAACCCATTTGTGTAATACCAT 59.225 37.500 0.00 0.00 37.54 3.55
2960 3454 4.021894 GTGCAACCCATTTGTGTAATACCA 60.022 41.667 0.00 0.00 37.54 3.25
2982 3476 0.041982 ATAATTGGGGGTTTGCGGGT 59.958 50.000 0.00 0.00 0.00 5.28
2990 3484 1.775385 CGAGGCAAATAATTGGGGGT 58.225 50.000 0.00 0.00 37.02 4.95
2993 3487 2.361757 TGATGCGAGGCAAATAATTGGG 59.638 45.455 0.00 0.00 43.62 4.12
3003 3497 2.095212 GTCTACGATATGATGCGAGGCA 60.095 50.000 0.00 0.00 44.86 4.75
3009 3503 7.708322 ACCATAATCATGTCTACGATATGATGC 59.292 37.037 14.18 0.00 45.47 3.91
3012 3506 8.802267 TCAACCATAATCATGTCTACGATATGA 58.198 33.333 5.89 5.89 42.52 2.15
3014 3508 7.755373 CGTCAACCATAATCATGTCTACGATAT 59.245 37.037 0.00 0.00 0.00 1.63
3019 3513 6.705782 CAACGTCAACCATAATCATGTCTAC 58.294 40.000 0.00 0.00 0.00 2.59
3041 3535 1.474478 TCTTCGGCAACAAGTTTGCAA 59.526 42.857 10.90 0.00 46.58 4.08
3042 3536 1.098869 TCTTCGGCAACAAGTTTGCA 58.901 45.000 10.90 0.00 46.58 4.08
3043 3537 2.319472 GATCTTCGGCAACAAGTTTGC 58.681 47.619 0.17 0.17 44.22 3.68
3046 3540 2.554032 CAAGGATCTTCGGCAACAAGTT 59.446 45.455 0.00 0.00 0.00 2.66
3047 3541 2.154462 CAAGGATCTTCGGCAACAAGT 58.846 47.619 0.00 0.00 0.00 3.16
3049 3543 0.881118 GCAAGGATCTTCGGCAACAA 59.119 50.000 0.00 0.00 0.00 2.83
3050 3544 0.250684 TGCAAGGATCTTCGGCAACA 60.251 50.000 2.23 0.00 0.00 3.33
3051 3545 1.098050 ATGCAAGGATCTTCGGCAAC 58.902 50.000 7.96 0.00 38.08 4.17
3052 3546 1.745087 GAATGCAAGGATCTTCGGCAA 59.255 47.619 7.96 0.00 38.08 4.52
3053 3547 1.382522 GAATGCAAGGATCTTCGGCA 58.617 50.000 6.60 6.60 39.03 5.69
3054 3548 0.665298 GGAATGCAAGGATCTTCGGC 59.335 55.000 0.00 0.00 0.00 5.54
3055 3549 0.940126 CGGAATGCAAGGATCTTCGG 59.060 55.000 0.00 0.00 0.00 4.30
3056 3550 0.305922 GCGGAATGCAAGGATCTTCG 59.694 55.000 0.00 0.00 45.45 3.79
3077 3571 1.082104 GCGTGGGAGCTTTGAAACG 60.082 57.895 0.00 0.00 0.00 3.60
3111 3605 2.233431 GCATTGTTTCCCATGTTAGCCA 59.767 45.455 0.00 0.00 0.00 4.75
3113 3607 2.233431 TGGCATTGTTTCCCATGTTAGC 59.767 45.455 0.00 0.00 0.00 3.09
3121 3615 1.288752 CCGTGTGGCATTGTTTCCC 59.711 57.895 0.00 0.00 0.00 3.97
3137 3631 1.739371 GCTGTAAGAAGGGTAGCACCG 60.739 57.143 0.00 0.00 35.51 4.94
3146 3640 2.380084 TGCCGTTAGCTGTAAGAAGG 57.620 50.000 0.00 0.00 44.23 3.46
3174 3668 2.035469 TGCCCGCCATGATTGTGT 59.965 55.556 0.00 0.00 0.00 3.72
3175 3669 2.491152 GTGCCCGCCATGATTGTG 59.509 61.111 0.00 0.00 0.00 3.33


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

AutoCloner maintained by Alex Coulton.