Multiple sequence alignment - TraesCS2A01G106500

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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 TraesCS2A01G106500 chr2A 100.000 3302 0 0 1 3302 58551673 58548372 0.000000e+00 6098
1 TraesCS2A01G106500 chr2A 83.888 571 80 5 1788 2354 58538088 58537526 4.850000e-148 534
2 TraesCS2A01G106500 chr2D 92.392 1919 90 24 824 2702 59453066 59451164 0.000000e+00 2684
3 TraesCS2A01G106500 chr2D 83.294 844 92 15 11 829 59453952 59453133 0.000000e+00 732
4 TraesCS2A01G106500 chr2D 88.525 549 58 3 1780 2327 59164674 59164130 0.000000e+00 660
5 TraesCS2A01G106500 chr2D 81.874 491 54 15 2121 2610 59326583 59326127 6.690000e-102 381
6 TraesCS2A01G106500 chr2D 86.577 149 13 5 3155 3302 59185043 59185185 1.230000e-34 158
7 TraesCS2A01G106500 chr2B 93.014 1775 98 9 899 2657 92491044 92489280 0.000000e+00 2567
8 TraesCS2A01G106500 chr2B 85.792 549 72 4 1780 2327 92164258 92163715 7.950000e-161 577
9 TraesCS2A01G106500 chr2B 78.327 849 105 39 1 829 92492011 92491222 2.980000e-130 475
10 TraesCS2A01G106500 chr2B 90.283 247 15 4 3061 3302 92298176 92297934 6.880000e-82 315
11 TraesCS2A01G106500 chr2B 87.879 165 14 4 3141 3302 92487815 92487654 4.350000e-44 189
12 TraesCS2A01G106500 chr2B 84.049 163 21 3 2971 3133 92257542 92257385 5.710000e-33 152
13 TraesCS2A01G106500 chr5A 76.368 402 72 18 1342 1727 440947530 440947924 9.350000e-46 195
14 TraesCS2A01G106500 chr5D 75.871 402 74 18 1342 1727 339712430 339712824 2.020000e-42 183
15 TraesCS2A01G106500 chr5B 75.561 401 77 16 1342 1727 398708811 398709205 9.420000e-41 178


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 TraesCS2A01G106500 chr2A 58548372 58551673 3301 True 6098 6098 100.000000 1 3302 1 chr2A.!!$R2 3301
1 TraesCS2A01G106500 chr2A 58537526 58538088 562 True 534 534 83.888000 1788 2354 1 chr2A.!!$R1 566
2 TraesCS2A01G106500 chr2D 59451164 59453952 2788 True 1708 2684 87.843000 11 2702 2 chr2D.!!$R3 2691
3 TraesCS2A01G106500 chr2D 59164130 59164674 544 True 660 660 88.525000 1780 2327 1 chr2D.!!$R1 547
4 TraesCS2A01G106500 chr2B 92487654 92492011 4357 True 1077 2567 86.406667 1 3302 3 chr2B.!!$R4 3301
5 TraesCS2A01G106500 chr2B 92163715 92164258 543 True 577 577 85.792000 1780 2327 1 chr2B.!!$R1 547

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
560 567 0.110486 TTCAAAGCCCAGACCTGACC 59.89 55.0 0.0 0.0 0.0 4.02 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2502 2658 0.670162 CCAGGTTTTGCAGTCACCAG 59.33 55.0 12.22 5.44 32.43 4.0 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
21 22 2.047274 CGTCGGTGCATGGACCTT 60.047 61.111 30.70 0.00 33.35 3.50
35 36 0.465705 GACCTTCCATCTCGCATCCA 59.534 55.000 0.00 0.00 0.00 3.41
63 64 0.317269 GGCATTCCGCATTGTCATCG 60.317 55.000 0.00 0.00 45.17 3.84
68 69 1.522355 CCGCATTGTCATCGCCTCT 60.522 57.895 0.00 0.00 0.00 3.69
69 70 1.640069 CGCATTGTCATCGCCTCTG 59.360 57.895 0.00 0.00 0.00 3.35
71 72 1.089920 GCATTGTCATCGCCTCTGTT 58.910 50.000 0.00 0.00 0.00 3.16
78 79 1.084370 CATCGCCTCTGTTTCGACCC 61.084 60.000 0.00 0.00 34.92 4.46
81 82 1.361668 CGCCTCTGTTTCGACCCATG 61.362 60.000 0.00 0.00 0.00 3.66
97 98 0.749649 CATGCTAGCCTCCGACTTCT 59.250 55.000 13.29 0.00 0.00 2.85
98 99 1.957177 CATGCTAGCCTCCGACTTCTA 59.043 52.381 13.29 0.00 0.00 2.10
102 103 1.957177 CTAGCCTCCGACTTCTATGCA 59.043 52.381 0.00 0.00 0.00 3.96
116 117 2.118233 TATGCAGCCCCACGTTGTCA 62.118 55.000 0.00 0.00 0.00 3.58
132 134 4.513692 CGTTGTCATTGTTTCCTCCTTACA 59.486 41.667 0.00 0.00 0.00 2.41
138 140 6.825721 GTCATTGTTTCCTCCTTACATGAGAT 59.174 38.462 0.00 0.00 31.26 2.75
140 142 7.987458 TCATTGTTTCCTCCTTACATGAGATAC 59.013 37.037 0.00 0.00 31.26 2.24
173 175 2.241259 TCGCATTGCTAAAAACTCGC 57.759 45.000 7.12 0.00 0.00 5.03
175 177 1.629013 GCATTGCTAAAAACTCGCCC 58.371 50.000 0.16 0.00 0.00 6.13
181 183 1.062148 GCTAAAAACTCGCCCGTGATC 59.938 52.381 0.00 0.00 0.00 2.92
182 184 1.664151 CTAAAAACTCGCCCGTGATCC 59.336 52.381 0.00 0.00 0.00 3.36
202 205 5.598416 TCCGCAAAGATCTCATTTCTCTA 57.402 39.130 0.00 0.00 0.00 2.43
212 215 9.575868 AAGATCTCATTTCTCTAATTGATGCAT 57.424 29.630 0.00 0.00 0.00 3.96
215 218 7.058525 TCTCATTTCTCTAATTGATGCATGGT 58.941 34.615 2.46 0.00 0.00 3.55
231 234 3.056821 GCATGGTTTTCACCCTAAACTCC 60.057 47.826 0.00 0.00 43.49 3.85
245 248 0.465705 AACTCCGACCATCGATGCAT 59.534 50.000 20.25 9.97 43.74 3.96
261 264 1.704628 TGCATGAACCTTCCTTCTCCA 59.295 47.619 0.00 0.00 0.00 3.86
266 269 5.259632 CATGAACCTTCCTTCTCCAATTCT 58.740 41.667 0.00 0.00 0.00 2.40
276 279 0.450583 CTCCAATTCTCCGTCGACGA 59.549 55.000 37.65 22.12 43.02 4.20
282 285 0.731417 TTCTCCGTCGACGAGATTCC 59.269 55.000 37.65 0.00 43.02 3.01
284 287 1.703438 CTCCGTCGACGAGATTCCGT 61.703 60.000 37.65 0.00 46.43 4.69
286 289 1.134075 CGTCGACGAGATTCCGTGT 59.866 57.895 33.35 0.00 43.49 4.49
305 308 3.371063 GTCACGACCTCCGCCTCA 61.371 66.667 0.00 0.00 43.32 3.86
339 342 2.857575 TACAGCCTCCGACGTCGCTA 62.858 60.000 31.73 20.10 38.18 4.26
358 361 2.347114 CCGACCCATGTCAGCACA 59.653 61.111 0.00 0.00 41.85 4.57
368 371 0.539438 TGTCAGCACAATTCCCACCC 60.539 55.000 0.00 0.00 0.00 4.61
373 376 2.238646 CAGCACAATTCCCACCCTACTA 59.761 50.000 0.00 0.00 0.00 1.82
412 419 3.999229 AATCGCAGAGTTAAAAGCTCG 57.001 42.857 0.00 0.00 43.63 5.03
423 430 0.736325 AAAAGCTCGGACCGTGATCG 60.736 55.000 19.67 3.26 0.00 3.69
437 444 2.595386 GTGATCGGCACAAATCAAACC 58.405 47.619 4.75 0.00 46.91 3.27
445 452 4.240096 GGCACAAATCAAACCTCTCATTG 58.760 43.478 0.00 0.00 0.00 2.82
455 462 5.241506 TCAAACCTCTCATTGATCCACAAAC 59.758 40.000 0.00 0.00 42.03 2.93
456 463 4.371624 ACCTCTCATTGATCCACAAACA 57.628 40.909 0.00 0.00 42.03 2.83
457 464 4.074970 ACCTCTCATTGATCCACAAACAC 58.925 43.478 0.00 0.00 42.03 3.32
458 465 3.125829 CCTCTCATTGATCCACAAACACG 59.874 47.826 0.00 0.00 42.03 4.49
481 488 1.039856 GCACCACCACCTCACAAATT 58.960 50.000 0.00 0.00 0.00 1.82
482 489 1.269726 GCACCACCACCTCACAAATTG 60.270 52.381 0.00 0.00 0.00 2.32
483 490 2.305928 CACCACCACCTCACAAATTGA 58.694 47.619 0.00 0.00 0.00 2.57
499 506 8.403236 TCACAAATTGAGAGAATATGCATCAAG 58.597 33.333 0.19 0.00 33.73 3.02
516 523 2.562298 TCAAGCCCAAACACAATCATCC 59.438 45.455 0.00 0.00 0.00 3.51
526 533 0.552367 ACAATCATCCCACTCCCCCA 60.552 55.000 0.00 0.00 0.00 4.96
532 539 0.253820 ATCCCACTCCCCCATCAACT 60.254 55.000 0.00 0.00 0.00 3.16
533 540 0.477597 TCCCACTCCCCCATCAACTT 60.478 55.000 0.00 0.00 0.00 2.66
535 542 1.852965 CCCACTCCCCCATCAACTTAT 59.147 52.381 0.00 0.00 0.00 1.73
551 558 2.919602 ACTTATCCCTCTTCAAAGCCCA 59.080 45.455 0.00 0.00 0.00 5.36
555 562 0.322906 CCCTCTTCAAAGCCCAGACC 60.323 60.000 0.00 0.00 0.00 3.85
556 563 0.695347 CCTCTTCAAAGCCCAGACCT 59.305 55.000 0.00 0.00 0.00 3.85
557 564 1.612726 CCTCTTCAAAGCCCAGACCTG 60.613 57.143 0.00 0.00 0.00 4.00
558 565 1.349026 CTCTTCAAAGCCCAGACCTGA 59.651 52.381 0.00 0.00 0.00 3.86
559 566 1.072331 TCTTCAAAGCCCAGACCTGAC 59.928 52.381 0.00 0.00 0.00 3.51
560 567 0.110486 TTCAAAGCCCAGACCTGACC 59.890 55.000 0.00 0.00 0.00 4.02
561 568 1.303643 CAAAGCCCAGACCTGACCC 60.304 63.158 0.00 0.00 0.00 4.46
770 798 1.882682 GCGCGTCGTGTTAGCAAGAA 61.883 55.000 8.43 0.00 35.06 2.52
854 957 2.131854 TCTTCAACCCAGGAACCAGAA 58.868 47.619 0.00 0.00 0.00 3.02
855 958 2.106511 TCTTCAACCCAGGAACCAGAAG 59.893 50.000 0.00 0.00 34.01 2.85
875 993 1.223763 GAATCCCAACCCCCGAGAC 59.776 63.158 0.00 0.00 0.00 3.36
888 1006 2.579738 GAGACAACTCTCCGGCCC 59.420 66.667 0.00 0.00 37.56 5.80
911 1049 1.625818 ACACGCTCCCATCTCTTTTCT 59.374 47.619 0.00 0.00 0.00 2.52
912 1050 2.275318 CACGCTCCCATCTCTTTTCTC 58.725 52.381 0.00 0.00 0.00 2.87
944 1082 1.134310 AGCCGGGGAAAATTACTACCG 60.134 52.381 2.18 0.00 40.89 4.02
1061 1199 0.976073 GGAGACGAGTCCCAATCCCA 60.976 60.000 0.00 0.00 0.00 4.37
1071 1218 0.548510 CCCAATCCCAGAAGGTCCTC 59.451 60.000 0.00 0.00 36.75 3.71
1339 1486 4.710167 TCGTCCTCGACCTCGCCA 62.710 66.667 0.00 0.00 41.35 5.69
1599 1746 3.465296 CTACGTCGCGCCGGAGATT 62.465 63.158 18.41 0.00 41.44 2.40
1834 1981 3.426117 ATCGACACGGACGGCATCC 62.426 63.158 0.00 0.00 45.20 3.51
1950 2100 4.115199 AAGGAGGACATGGCCCGC 62.115 66.667 16.13 6.76 0.00 6.13
2012 2162 3.382832 CCTCTCCGGGCTGTTCGT 61.383 66.667 0.00 0.00 0.00 3.85
2094 2244 2.660802 GAGGACGCCGGGAAGAAA 59.339 61.111 2.18 0.00 0.00 2.52
2100 2250 3.062466 GCCGGGAAGAAACAGGGC 61.062 66.667 2.18 0.00 0.00 5.19
2101 2251 2.757077 CCGGGAAGAAACAGGGCT 59.243 61.111 0.00 0.00 0.00 5.19
2104 2254 0.739813 CGGGAAGAAACAGGGCTACG 60.740 60.000 0.00 0.00 0.00 3.51
2407 2563 1.787847 GCGTGTGGTCGGAGATTTG 59.212 57.895 0.00 0.00 40.67 2.32
2541 2697 2.786495 CGGCGGACCTGCTCTGTAT 61.786 63.158 0.00 0.00 34.52 2.29
2546 2703 3.195825 GGCGGACCTGCTCTGTATATATT 59.804 47.826 7.98 0.00 34.52 1.28
2610 2778 0.883833 CATCAACAACTCACAGGGCC 59.116 55.000 0.00 0.00 0.00 5.80
2611 2779 0.773644 ATCAACAACTCACAGGGCCT 59.226 50.000 0.00 0.00 0.00 5.19
2612 2780 0.179020 TCAACAACTCACAGGGCCTG 60.179 55.000 31.62 31.62 37.52 4.85
2613 2781 1.529244 AACAACTCACAGGGCCTGC 60.529 57.895 33.04 0.00 34.37 4.85
2614 2782 3.052082 CAACTCACAGGGCCTGCG 61.052 66.667 33.04 24.47 34.37 5.18
2680 2871 2.007608 GCGGAGAAGTACAATGAACCC 58.992 52.381 0.00 0.00 0.00 4.11
2702 2893 2.287009 GGACCGAAAACTTGCACAGAAG 60.287 50.000 0.00 0.00 0.00 2.85
2703 2894 1.065551 ACCGAAAACTTGCACAGAAGC 59.934 47.619 0.00 0.00 0.00 3.86
2704 2895 1.065401 CCGAAAACTTGCACAGAAGCA 59.935 47.619 0.00 0.00 43.99 3.91
2706 2897 2.477694 CGAAAACTTGCACAGAAGCACA 60.478 45.455 0.00 0.00 45.61 4.57
2707 2898 3.510719 GAAAACTTGCACAGAAGCACAA 58.489 40.909 0.00 0.00 45.61 3.33
2708 2899 2.566952 AACTTGCACAGAAGCACAAC 57.433 45.000 0.00 0.00 45.61 3.32
2710 2901 0.657312 CTTGCACAGAAGCACAACGA 59.343 50.000 0.00 0.00 45.61 3.85
2711 2902 0.376852 TTGCACAGAAGCACAACGAC 59.623 50.000 0.00 0.00 45.61 4.34
2712 2903 1.279840 GCACAGAAGCACAACGACC 59.720 57.895 0.00 0.00 0.00 4.79
2713 2904 1.564622 CACAGAAGCACAACGACCG 59.435 57.895 0.00 0.00 0.00 4.79
2717 2914 4.903010 AAGCACAACGACCGCGGT 62.903 61.111 34.89 34.89 43.17 5.68
2739 2936 2.956964 GCGCCATCGAACTCTCGG 60.957 66.667 0.00 0.00 45.49 4.63
2740 2937 2.956964 CGCCATCGAACTCTCGGC 60.957 66.667 0.00 0.00 45.49 5.54
2754 2951 1.964891 TCGGCTCGACGAGTCAACT 60.965 57.895 27.39 0.00 38.06 3.16
2759 2956 2.031857 GGCTCGACGAGTCAACTATAGG 60.032 54.545 23.93 0.00 34.02 2.57
2761 2958 1.945394 TCGACGAGTCAACTATAGGCC 59.055 52.381 4.43 0.00 0.00 5.19
2762 2959 1.948145 CGACGAGTCAACTATAGGCCT 59.052 52.381 11.78 11.78 0.00 5.19
2767 2987 4.701171 ACGAGTCAACTATAGGCCTATAGC 59.299 45.833 41.51 30.52 45.48 2.97
2768 2988 4.700692 CGAGTCAACTATAGGCCTATAGCA 59.299 45.833 41.51 29.41 45.48 3.49
2769 2989 5.163703 CGAGTCAACTATAGGCCTATAGCAG 60.164 48.000 41.51 35.04 45.48 4.24
2822 3042 4.383602 CGGCGCGGTTTGGTGAAG 62.384 66.667 8.83 0.00 0.00 3.02
2823 3043 2.975799 GGCGCGGTTTGGTGAAGA 60.976 61.111 8.83 0.00 0.00 2.87
2824 3044 2.548295 GGCGCGGTTTGGTGAAGAA 61.548 57.895 8.83 0.00 0.00 2.52
2825 3045 1.579429 GCGCGGTTTGGTGAAGAAT 59.421 52.632 8.83 0.00 0.00 2.40
2826 3046 0.800012 GCGCGGTTTGGTGAAGAATA 59.200 50.000 8.83 0.00 0.00 1.75
2827 3047 1.400494 GCGCGGTTTGGTGAAGAATAT 59.600 47.619 8.83 0.00 0.00 1.28
2828 3048 2.791158 GCGCGGTTTGGTGAAGAATATG 60.791 50.000 8.83 0.00 0.00 1.78
2829 3049 2.675844 CGCGGTTTGGTGAAGAATATGA 59.324 45.455 0.00 0.00 0.00 2.15
2830 3050 3.312421 CGCGGTTTGGTGAAGAATATGAT 59.688 43.478 0.00 0.00 0.00 2.45
2831 3051 4.552767 CGCGGTTTGGTGAAGAATATGATC 60.553 45.833 0.00 0.00 0.00 2.92
2832 3052 4.552767 GCGGTTTGGTGAAGAATATGATCG 60.553 45.833 0.00 0.00 0.00 3.69
2833 3053 4.552767 CGGTTTGGTGAAGAATATGATCGC 60.553 45.833 0.00 0.00 0.00 4.58
2834 3054 4.261197 GGTTTGGTGAAGAATATGATCGCC 60.261 45.833 7.83 7.83 42.70 5.54
2835 3055 4.422073 TTGGTGAAGAATATGATCGCCT 57.578 40.909 13.37 0.00 42.80 5.52
2836 3056 4.422073 TGGTGAAGAATATGATCGCCTT 57.578 40.909 13.37 0.00 42.80 4.35
2837 3057 4.129380 TGGTGAAGAATATGATCGCCTTG 58.871 43.478 13.37 0.00 42.80 3.61
2838 3058 3.058639 GGTGAAGAATATGATCGCCTTGC 60.059 47.826 7.61 0.00 39.95 4.01
2839 3059 3.058639 GTGAAGAATATGATCGCCTTGCC 60.059 47.826 0.00 0.00 0.00 4.52
2840 3060 1.800805 AGAATATGATCGCCTTGCCG 58.199 50.000 0.00 0.00 0.00 5.69
2841 3061 0.166814 GAATATGATCGCCTTGCCGC 59.833 55.000 0.00 0.00 0.00 6.53
2880 3100 2.818274 GGCGCGGGTCGAGATTTT 60.818 61.111 8.83 0.00 41.67 1.82
2881 3101 2.399611 GCGCGGGTCGAGATTTTG 59.600 61.111 8.83 0.00 41.67 2.44
2882 3102 2.098233 GCGCGGGTCGAGATTTTGA 61.098 57.895 8.83 0.00 41.67 2.69
2883 3103 1.429148 GCGCGGGTCGAGATTTTGAT 61.429 55.000 8.83 0.00 41.67 2.57
2884 3104 0.301687 CGCGGGTCGAGATTTTGATG 59.698 55.000 0.00 0.00 41.67 3.07
2885 3105 0.028110 GCGGGTCGAGATTTTGATGC 59.972 55.000 0.00 0.00 0.00 3.91
2891 3128 4.442706 GGTCGAGATTTTGATGCTTCCTA 58.557 43.478 0.00 0.00 0.00 2.94
2907 3144 0.168788 CCTATTTGGTGCAGTGCGTG 59.831 55.000 11.20 0.00 0.00 5.34
2930 3167 4.241999 GATGTGCGCGTGCCATCC 62.242 66.667 27.76 16.89 40.21 3.51
2960 3199 2.209273 CGACGTGCATCCATAATTCCA 58.791 47.619 0.00 0.00 0.00 3.53
2965 3204 0.953727 GCATCCATAATTCCAGCGCA 59.046 50.000 11.47 0.00 0.00 6.09
2971 3210 1.605710 CATAATTCCAGCGCAAGGAGG 59.394 52.381 19.03 8.76 36.33 4.30
2973 3212 0.393537 AATTCCAGCGCAAGGAGGAG 60.394 55.000 19.03 0.00 36.33 3.69
2974 3213 1.557269 ATTCCAGCGCAAGGAGGAGT 61.557 55.000 19.03 8.06 36.33 3.85
2975 3214 0.902984 TTCCAGCGCAAGGAGGAGTA 60.903 55.000 19.03 4.27 36.33 2.59
2979 3327 1.227118 GCGCAAGGAGGAGTAGAGC 60.227 63.158 0.30 0.00 38.28 4.09
2992 3340 4.718774 AGGAGTAGAGCATGATGGAAGAAA 59.281 41.667 0.00 0.00 0.00 2.52
2994 3342 6.060788 GGAGTAGAGCATGATGGAAGAAAAT 58.939 40.000 0.00 0.00 0.00 1.82
2996 3344 7.255070 GGAGTAGAGCATGATGGAAGAAAATTC 60.255 40.741 0.00 0.00 0.00 2.17
2997 3345 7.344913 AGTAGAGCATGATGGAAGAAAATTCT 58.655 34.615 0.00 0.00 39.74 2.40
3026 3375 3.971620 GACAAAGTTGTCGTCGTCG 57.028 52.632 8.34 0.00 46.80 5.12
3078 3427 4.275936 CACCGATGGATGAATCTTTTACCC 59.724 45.833 0.00 0.00 0.00 3.69
3086 3435 5.125578 GGATGAATCTTTTACCCTGTCAACC 59.874 44.000 0.00 0.00 0.00 3.77
3090 3439 1.886542 CTTTTACCCTGTCAACCCTGC 59.113 52.381 0.00 0.00 0.00 4.85
3100 3449 0.667993 TCAACCCTGCGCAAGAAAAG 59.332 50.000 13.05 0.00 43.02 2.27
3101 3450 0.318955 CAACCCTGCGCAAGAAAAGG 60.319 55.000 13.05 7.98 43.02 3.11
3102 3451 0.467290 AACCCTGCGCAAGAAAAGGA 60.467 50.000 13.05 0.00 43.02 3.36
3110 3459 2.540973 GCGCAAGAAAAGGAAAGACGTT 60.541 45.455 0.30 0.00 43.02 3.99
3111 3460 3.289076 CGCAAGAAAAGGAAAGACGTTC 58.711 45.455 0.00 0.00 43.02 3.95
3114 3463 1.871676 AGAAAAGGAAAGACGTTCGGC 59.128 47.619 0.00 0.00 37.08 5.54
3116 3465 1.509703 AAAGGAAAGACGTTCGGCTC 58.490 50.000 0.00 0.00 37.08 4.70
3118 3467 1.186267 AGGAAAGACGTTCGGCTCCT 61.186 55.000 0.00 1.96 37.08 3.69
3122 3471 0.319641 AAGACGTTCGGCTCCTCAAC 60.320 55.000 0.00 0.00 0.00 3.18
3123 3472 1.179814 AGACGTTCGGCTCCTCAACT 61.180 55.000 0.00 0.00 0.00 3.16
3124 3473 1.006102 ACGTTCGGCTCCTCAACTG 60.006 57.895 0.00 0.00 0.00 3.16
3125 3474 2.383527 CGTTCGGCTCCTCAACTGC 61.384 63.158 0.00 0.00 0.00 4.40
3126 3475 1.301716 GTTCGGCTCCTCAACTGCA 60.302 57.895 0.00 0.00 0.00 4.41
3128 3477 3.123620 CGGCTCCTCAACTGCAGC 61.124 66.667 15.27 0.00 0.00 5.25
3129 3478 2.749441 GGCTCCTCAACTGCAGCC 60.749 66.667 15.27 3.14 44.63 4.85
3131 3480 3.123620 CTCCTCAACTGCAGCCGC 61.124 66.667 15.27 0.00 39.24 6.53
3134 3483 3.782244 CTCAACTGCAGCCGCGAC 61.782 66.667 15.27 0.00 42.97 5.19
3135 3484 4.299547 TCAACTGCAGCCGCGACT 62.300 61.111 15.27 0.00 42.97 4.18
3136 3485 4.081030 CAACTGCAGCCGCGACTG 62.081 66.667 18.82 18.82 42.97 3.51
3152 4340 2.747460 TGCTCAATCGTGCAGGCC 60.747 61.111 0.35 0.00 36.74 5.19
3153 4341 3.869272 GCTCAATCGTGCAGGCCG 61.869 66.667 0.35 0.00 0.00 6.13
3173 4361 4.695014 TGGCCTGCCAAAAACAGA 57.305 50.000 8.75 0.00 44.12 3.41
3183 4371 3.118482 TGCCAAAAACAGAGCATTTTCCA 60.118 39.130 0.00 0.00 0.00 3.53
3185 4373 4.083696 GCCAAAAACAGAGCATTTTCCATG 60.084 41.667 0.00 0.00 0.00 3.66
3186 4374 4.453136 CCAAAAACAGAGCATTTTCCATGG 59.547 41.667 4.97 4.97 0.00 3.66
3187 4375 5.299148 CAAAAACAGAGCATTTTCCATGGA 58.701 37.500 11.44 11.44 0.00 3.41
3188 4376 5.549742 AAAACAGAGCATTTTCCATGGAA 57.450 34.783 23.63 23.63 0.00 3.53
3189 4377 5.750352 AAACAGAGCATTTTCCATGGAAT 57.250 34.783 27.53 12.68 33.79 3.01
3190 4378 4.996788 ACAGAGCATTTTCCATGGAATC 57.003 40.909 27.53 20.36 33.79 2.52
3192 4380 3.958798 CAGAGCATTTTCCATGGAATCCT 59.041 43.478 27.53 19.22 33.79 3.24
3254 4442 2.353030 TGCGCGTACCGATCATCG 60.353 61.111 8.43 0.00 40.02 3.84
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
5 6 1.745489 GGAAGGTCCATGCACCGAC 60.745 63.158 0.00 6.47 41.90 4.79
21 22 1.067354 CGATGATGGATGCGAGATGGA 60.067 52.381 0.00 0.00 0.00 3.41
24 25 2.889852 CATCGATGATGGATGCGAGAT 58.110 47.619 21.02 0.00 36.51 2.75
35 36 0.250424 TGCGGAATGCCATCGATGAT 60.250 50.000 26.86 10.34 45.60 2.45
45 46 0.931662 GCGATGACAATGCGGAATGC 60.932 55.000 0.00 0.00 46.70 3.56
63 64 1.648467 GCATGGGTCGAAACAGAGGC 61.648 60.000 0.00 0.00 0.00 4.70
68 69 0.392461 GGCTAGCATGGGTCGAAACA 60.392 55.000 18.24 0.00 0.00 2.83
69 70 0.107654 AGGCTAGCATGGGTCGAAAC 60.108 55.000 18.24 0.00 0.00 2.78
71 72 1.686325 GGAGGCTAGCATGGGTCGAA 61.686 60.000 18.24 0.00 0.00 3.71
97 98 1.376683 GACAACGTGGGGCTGCATA 60.377 57.895 0.50 0.00 0.00 3.14
98 99 2.672996 GACAACGTGGGGCTGCAT 60.673 61.111 0.50 0.00 0.00 3.96
102 103 0.467290 AACAATGACAACGTGGGGCT 60.467 50.000 0.00 0.00 0.00 5.19
116 117 7.861629 TGTATCTCATGTAAGGAGGAAACAAT 58.138 34.615 0.00 0.00 46.50 2.71
162 164 1.664151 GGATCACGGGCGAGTTTTTAG 59.336 52.381 0.00 0.00 0.00 1.85
173 175 0.179073 AGATCTTTGCGGATCACGGG 60.179 55.000 13.82 0.00 43.11 5.28
175 177 1.926561 TGAGATCTTTGCGGATCACG 58.073 50.000 13.82 0.00 43.11 4.35
181 183 6.857777 ATTAGAGAAATGAGATCTTTGCGG 57.142 37.500 0.00 0.00 0.00 5.69
182 184 7.913423 TCAATTAGAGAAATGAGATCTTTGCG 58.087 34.615 0.00 0.00 0.00 4.85
202 205 3.583966 AGGGTGAAAACCATGCATCAATT 59.416 39.130 0.00 0.00 0.00 2.32
212 215 2.438763 TCGGAGTTTAGGGTGAAAACCA 59.561 45.455 0.00 0.00 37.51 3.67
215 218 2.438763 TGGTCGGAGTTTAGGGTGAAAA 59.561 45.455 0.00 0.00 0.00 2.29
231 234 0.583438 GGTTCATGCATCGATGGTCG 59.417 55.000 26.00 1.57 42.10 4.79
245 248 4.263506 GGAGAATTGGAGAAGGAAGGTTCA 60.264 45.833 0.00 0.00 0.00 3.18
261 264 2.223525 GGAATCTCGTCGACGGAGAATT 60.224 50.000 35.05 26.16 40.29 2.17
266 269 1.742880 ACGGAATCTCGTCGACGGA 60.743 57.895 35.05 29.10 39.34 4.69
284 287 2.028484 GCGGAGGTCGTGACAACA 59.972 61.111 2.00 0.00 41.72 3.33
286 289 2.915659 AGGCGGAGGTCGTGACAA 60.916 61.111 2.00 0.00 41.72 3.18
293 296 3.462678 GGGTCTGAGGCGGAGGTC 61.463 72.222 0.00 0.00 0.00 3.85
305 308 1.755380 GCTGTAATGTACCGAGGGTCT 59.245 52.381 0.00 0.00 37.09 3.85
347 350 1.203052 GGTGGGAATTGTGCTGACATG 59.797 52.381 0.00 0.00 30.13 3.21
348 351 1.549203 GGTGGGAATTGTGCTGACAT 58.451 50.000 0.00 0.00 30.13 3.06
385 392 7.029563 AGCTTTTAACTCTGCGATTTATTTGG 58.970 34.615 0.00 0.00 0.00 3.28
390 397 4.328983 CCGAGCTTTTAACTCTGCGATTTA 59.671 41.667 0.00 0.00 31.71 1.40
398 405 1.617357 ACGGTCCGAGCTTTTAACTCT 59.383 47.619 20.51 0.00 31.71 3.24
423 430 4.022068 TCAATGAGAGGTTTGATTTGTGCC 60.022 41.667 0.00 0.00 0.00 5.01
427 434 6.071784 TGTGGATCAATGAGAGGTTTGATTTG 60.072 38.462 0.00 0.00 41.42 2.32
429 436 5.573219 TGTGGATCAATGAGAGGTTTGATT 58.427 37.500 0.00 0.00 41.42 2.57
436 443 3.125829 CGTGTTTGTGGATCAATGAGAGG 59.874 47.826 0.00 0.00 35.84 3.69
437 444 3.425359 GCGTGTTTGTGGATCAATGAGAG 60.425 47.826 0.00 0.00 35.84 3.20
445 452 0.240678 TGCATGCGTGTTTGTGGATC 59.759 50.000 14.09 0.00 0.00 3.36
455 462 4.041917 GGTGGTGGTGCATGCGTG 62.042 66.667 14.09 0.09 0.00 5.34
456 463 4.269523 AGGTGGTGGTGCATGCGT 62.270 61.111 14.09 0.00 0.00 5.24
457 464 3.434319 GAGGTGGTGGTGCATGCG 61.434 66.667 14.09 0.00 0.00 4.73
458 465 2.282391 TGAGGTGGTGGTGCATGC 60.282 61.111 11.82 11.82 0.00 4.06
481 488 3.136992 TGGGCTTGATGCATATTCTCTCA 59.863 43.478 0.00 0.00 45.15 3.27
482 489 3.748083 TGGGCTTGATGCATATTCTCTC 58.252 45.455 0.00 0.00 45.15 3.20
483 490 3.870538 TGGGCTTGATGCATATTCTCT 57.129 42.857 0.00 0.00 45.15 3.10
489 496 2.523245 TGTGTTTGGGCTTGATGCATA 58.477 42.857 0.00 0.00 45.15 3.14
492 499 2.288948 TGATTGTGTTTGGGCTTGATGC 60.289 45.455 0.00 0.00 41.94 3.91
499 506 1.066929 GTGGGATGATTGTGTTTGGGC 60.067 52.381 0.00 0.00 0.00 5.36
516 523 2.158608 GGATAAGTTGATGGGGGAGTGG 60.159 54.545 0.00 0.00 0.00 4.00
526 533 5.196695 GGCTTTGAAGAGGGATAAGTTGAT 58.803 41.667 0.00 0.00 0.00 2.57
532 539 3.054361 GTCTGGGCTTTGAAGAGGGATAA 60.054 47.826 0.00 0.00 0.00 1.75
533 540 2.505819 GTCTGGGCTTTGAAGAGGGATA 59.494 50.000 0.00 0.00 0.00 2.59
535 542 0.693049 GTCTGGGCTTTGAAGAGGGA 59.307 55.000 0.00 0.00 0.00 4.20
551 558 0.686769 GGATGGTACGGGTCAGGTCT 60.687 60.000 0.00 0.00 0.00 3.85
555 562 1.400530 GGGAGGATGGTACGGGTCAG 61.401 65.000 0.00 0.00 0.00 3.51
556 563 1.382146 GGGAGGATGGTACGGGTCA 60.382 63.158 0.00 0.00 0.00 4.02
557 564 2.138831 GGGGAGGATGGTACGGGTC 61.139 68.421 0.00 0.00 0.00 4.46
558 565 2.041197 GGGGAGGATGGTACGGGT 60.041 66.667 0.00 0.00 0.00 5.28
559 566 1.691337 TTGGGGAGGATGGTACGGG 60.691 63.158 0.00 0.00 0.00 5.28
560 567 1.525442 GTTGGGGAGGATGGTACGG 59.475 63.158 0.00 0.00 0.00 4.02
561 568 1.268992 TGGTTGGGGAGGATGGTACG 61.269 60.000 0.00 0.00 0.00 3.67
706 733 7.273320 TCCGATTCTCGTATATTTTCAGAGT 57.727 36.000 0.00 0.00 38.40 3.24
720 748 4.032900 CACTAATTGTGGTTCCGATTCTCG 59.967 45.833 0.00 0.00 42.68 4.04
735 763 0.247974 GCGCTGCTGCTCACTAATTG 60.248 55.000 14.03 0.00 36.97 2.32
746 774 3.059472 CTAACACGACGCGCTGCTG 62.059 63.158 5.73 0.00 0.00 4.41
770 798 1.302832 CAGCAGCCGGGAAGTTTCT 60.303 57.895 2.18 0.00 0.00 2.52
803 831 0.041663 CCGCGTGTTGTGGTGTTAAG 60.042 55.000 4.92 0.00 43.63 1.85
854 957 0.983378 CTCGGGGGTTGGGATTCTCT 60.983 60.000 0.00 0.00 0.00 3.10
855 958 0.981277 TCTCGGGGGTTGGGATTCTC 60.981 60.000 0.00 0.00 0.00 2.87
875 993 2.434359 GTTCGGGCCGGAGAGTTG 60.434 66.667 27.98 0.00 0.00 3.16
888 1006 0.108615 AAGAGATGGGAGCGTGTTCG 60.109 55.000 0.00 0.00 40.37 3.95
900 1038 1.756375 CGGCGGCGAGAAAAGAGATG 61.756 60.000 29.19 0.00 0.00 2.90
1305 1452 1.291877 CGAAGTGGACCTTCTTGCGG 61.292 60.000 7.12 0.00 46.23 5.69
1378 1525 2.710902 CGAGGTCCTCCGTCATGCA 61.711 63.158 13.54 0.00 39.05 3.96
1402 1549 1.108776 ACGAGCTGGCGGAAGTAATA 58.891 50.000 0.00 0.00 35.12 0.98
1599 1746 0.683504 GGTACCCCTGCTTCGAGAGA 60.684 60.000 0.00 0.00 39.20 3.10
1750 1897 4.124351 CGCCGGCGAGAACCAGTA 62.124 66.667 44.86 0.00 42.83 2.74
1834 1981 2.352805 GAACCAGGGGTGCTCCAG 59.647 66.667 7.20 0.00 35.34 3.86
1950 2100 2.503158 TCGAACGCGGTCATGTCG 60.503 61.111 25.89 10.75 38.28 4.35
2094 2244 3.760035 CTCACGCCGTAGCCCTGT 61.760 66.667 0.00 0.00 34.57 4.00
2100 2250 2.005960 CTTCCCTCCTCACGCCGTAG 62.006 65.000 0.00 0.00 0.00 3.51
2101 2251 2.036098 TTCCCTCCTCACGCCGTA 59.964 61.111 0.00 0.00 0.00 4.02
2104 2254 3.787001 CCCTTCCCTCCTCACGCC 61.787 72.222 0.00 0.00 0.00 5.68
2328 2479 2.474816 GCGAGGCGATATGATATTCCC 58.525 52.381 0.00 0.00 0.00 3.97
2407 2563 3.245048 CGCCATTGGAAGTTTGAAACAAC 59.755 43.478 11.02 3.64 0.00 3.32
2502 2658 0.670162 CCAGGTTTTGCAGTCACCAG 59.330 55.000 12.22 5.44 32.43 4.00
2513 2669 2.281276 GTCCGCCGACCAGGTTTT 60.281 61.111 0.00 0.00 43.70 2.43
2541 2697 7.290061 CAAGAATTCTTCCCTCCCACAATATA 58.710 38.462 17.91 0.00 33.11 0.86
2546 2703 2.555227 GCAAGAATTCTTCCCTCCCACA 60.555 50.000 17.91 0.00 33.11 4.17
2589 2749 1.537202 GCCCTGTGAGTTGTTGATGAC 59.463 52.381 0.00 0.00 0.00 3.06
2592 2752 0.773644 AGGCCCTGTGAGTTGTTGAT 59.226 50.000 0.00 0.00 0.00 2.57
2660 2851 2.007608 GGGTTCATTGTACTTCTCCGC 58.992 52.381 0.00 0.00 0.00 5.54
2680 2871 0.041312 CTGTGCAAGTTTTCGGTCCG 60.041 55.000 4.39 4.39 0.00 4.79
2729 2926 2.276743 CGTCGAGCCGAGAGTTCG 60.277 66.667 0.00 0.00 46.29 3.95
2739 2936 2.602694 GCCTATAGTTGACTCGTCGAGC 60.603 54.545 22.00 14.68 32.04 5.03
2740 2937 2.031857 GGCCTATAGTTGACTCGTCGAG 60.032 54.545 20.57 20.57 35.52 4.04
2754 2951 3.269643 TGCTCTCCTGCTATAGGCCTATA 59.730 47.826 27.27 27.27 46.87 1.31
2759 2956 1.967066 TCTTGCTCTCCTGCTATAGGC 59.033 52.381 1.04 0.00 46.87 3.93
2761 2958 7.201812 CCTGTATATCTTGCTCTCCTGCTATAG 60.202 44.444 0.00 0.00 0.00 1.31
2762 2959 6.605194 CCTGTATATCTTGCTCTCCTGCTATA 59.395 42.308 0.00 0.00 0.00 1.31
2767 2987 3.260380 CCCCTGTATATCTTGCTCTCCTG 59.740 52.174 0.00 0.00 0.00 3.86
2768 2988 3.515562 CCCCTGTATATCTTGCTCTCCT 58.484 50.000 0.00 0.00 0.00 3.69
2769 2989 2.569404 CCCCCTGTATATCTTGCTCTCC 59.431 54.545 0.00 0.00 0.00 3.71
2774 2994 1.884067 GCAGCCCCCTGTATATCTTGC 60.884 57.143 0.00 0.00 41.26 4.01
2775 2995 1.271597 GGCAGCCCCCTGTATATCTTG 60.272 57.143 0.00 0.00 41.26 3.02
2806 3026 1.862602 ATTCTTCACCAAACCGCGCC 61.863 55.000 0.00 0.00 0.00 6.53
2808 3028 2.675844 TCATATTCTTCACCAAACCGCG 59.324 45.455 0.00 0.00 0.00 6.46
2809 3029 4.552767 CGATCATATTCTTCACCAAACCGC 60.553 45.833 0.00 0.00 0.00 5.68
2810 3030 4.552767 GCGATCATATTCTTCACCAAACCG 60.553 45.833 0.00 0.00 0.00 4.44
2812 3032 4.576463 AGGCGATCATATTCTTCACCAAAC 59.424 41.667 0.00 0.00 0.00 2.93
2813 3033 4.780815 AGGCGATCATATTCTTCACCAAA 58.219 39.130 0.00 0.00 0.00 3.28
2815 3035 4.129380 CAAGGCGATCATATTCTTCACCA 58.871 43.478 0.00 0.00 0.00 4.17
2816 3036 3.058639 GCAAGGCGATCATATTCTTCACC 60.059 47.826 0.00 0.00 0.00 4.02
2817 3037 3.058639 GGCAAGGCGATCATATTCTTCAC 60.059 47.826 0.00 0.00 0.00 3.18
2818 3038 3.141398 GGCAAGGCGATCATATTCTTCA 58.859 45.455 0.00 0.00 0.00 3.02
2819 3039 2.158449 CGGCAAGGCGATCATATTCTTC 59.842 50.000 10.75 0.00 0.00 2.87
2820 3040 2.146342 CGGCAAGGCGATCATATTCTT 58.854 47.619 10.75 0.00 0.00 2.52
2821 3041 1.800805 CGGCAAGGCGATCATATTCT 58.199 50.000 10.75 0.00 0.00 2.40
2822 3042 0.166814 GCGGCAAGGCGATCATATTC 59.833 55.000 20.47 0.00 0.00 1.75
2823 3043 2.247790 GCGGCAAGGCGATCATATT 58.752 52.632 20.47 0.00 0.00 1.28
2824 3044 3.972227 GCGGCAAGGCGATCATAT 58.028 55.556 20.47 0.00 0.00 1.78
2874 3094 6.628844 GCACCAAATAGGAAGCATCAAAATCT 60.629 38.462 0.00 0.00 41.22 2.40
2880 3100 3.018856 CTGCACCAAATAGGAAGCATCA 58.981 45.455 0.00 0.00 45.65 3.07
2881 3101 3.019564 ACTGCACCAAATAGGAAGCATC 58.980 45.455 0.00 0.00 45.65 3.91
2882 3102 2.756760 CACTGCACCAAATAGGAAGCAT 59.243 45.455 0.00 0.00 45.65 3.79
2883 3103 2.161855 CACTGCACCAAATAGGAAGCA 58.838 47.619 0.00 0.00 45.03 3.91
2884 3104 1.135286 GCACTGCACCAAATAGGAAGC 60.135 52.381 0.00 0.00 41.22 3.86
2885 3105 1.131126 CGCACTGCACCAAATAGGAAG 59.869 52.381 1.11 0.00 41.22 3.46
2891 3128 1.951510 CTCACGCACTGCACCAAAT 59.048 52.632 1.11 0.00 0.00 2.32
2907 3144 3.857854 CACGCGCACATCCTGCTC 61.858 66.667 5.73 0.00 44.64 4.26
2944 3181 1.335324 GCGCTGGAATTATGGATGCAC 60.335 52.381 0.00 0.00 0.00 4.57
2947 3184 2.030540 CCTTGCGCTGGAATTATGGATG 60.031 50.000 9.73 0.00 0.00 3.51
2960 3199 1.671901 GCTCTACTCCTCCTTGCGCT 61.672 60.000 9.73 0.00 0.00 5.92
2965 3204 2.971330 CCATCATGCTCTACTCCTCCTT 59.029 50.000 0.00 0.00 0.00 3.36
2971 3210 7.498570 AGAATTTTCTTCCATCATGCTCTACTC 59.501 37.037 0.00 0.00 32.55 2.59
2973 3212 7.565323 AGAATTTTCTTCCATCATGCTCTAC 57.435 36.000 0.00 0.00 32.55 2.59
2974 3213 7.415989 GCAAGAATTTTCTTCCATCATGCTCTA 60.416 37.037 2.59 0.00 45.23 2.43
2975 3214 6.627508 GCAAGAATTTTCTTCCATCATGCTCT 60.628 38.462 2.59 0.00 45.23 4.09
2979 3327 5.944049 CGCAAGAATTTTCTTCCATCATG 57.056 39.130 2.59 0.00 45.23 3.07
3014 3363 0.728466 CCTTCTCCGACGACGACAAC 60.728 60.000 9.28 0.00 42.66 3.32
3051 3400 1.845809 GATTCATCCATCGGTGCCGC 61.846 60.000 5.64 0.00 39.59 6.53
3052 3401 0.250038 AGATTCATCCATCGGTGCCG 60.250 55.000 3.94 3.94 41.35 5.69
3053 3402 1.972872 AAGATTCATCCATCGGTGCC 58.027 50.000 0.00 0.00 0.00 5.01
3055 3404 4.275936 GGGTAAAAGATTCATCCATCGGTG 59.724 45.833 0.00 0.00 0.00 4.94
3058 3407 5.126067 ACAGGGTAAAAGATTCATCCATCG 58.874 41.667 0.00 0.00 0.00 3.84
3059 3408 6.122277 TGACAGGGTAAAAGATTCATCCATC 58.878 40.000 0.00 0.00 0.00 3.51
3060 3409 6.078456 TGACAGGGTAAAAGATTCATCCAT 57.922 37.500 0.00 0.00 0.00 3.41
3061 3410 5.512942 TGACAGGGTAAAAGATTCATCCA 57.487 39.130 0.00 0.00 0.00 3.41
3064 3413 5.016831 GGGTTGACAGGGTAAAAGATTCAT 58.983 41.667 0.00 0.00 0.00 2.57
3078 3427 1.165907 TTCTTGCGCAGGGTTGACAG 61.166 55.000 20.24 7.43 0.00 3.51
3086 3435 1.608590 TCTTTCCTTTTCTTGCGCAGG 59.391 47.619 14.22 14.22 0.00 4.85
3090 3439 3.289076 GAACGTCTTTCCTTTTCTTGCG 58.711 45.455 0.00 0.00 0.00 4.85
3100 3449 0.736672 GAGGAGCCGAACGTCTTTCC 60.737 60.000 0.00 0.00 0.00 3.13
3101 3450 0.038526 TGAGGAGCCGAACGTCTTTC 60.039 55.000 0.00 0.00 0.00 2.62
3102 3451 0.391597 TTGAGGAGCCGAACGTCTTT 59.608 50.000 0.00 0.00 0.00 2.52
3110 3459 2.659016 CTGCAGTTGAGGAGCCGA 59.341 61.111 5.25 0.00 0.00 5.54
3111 3460 3.123620 GCTGCAGTTGAGGAGCCG 61.124 66.667 16.64 0.00 45.88 5.52
3114 3463 3.123620 GCGGCTGCAGTTGAGGAG 61.124 66.667 16.64 0.57 42.15 3.69
3118 3467 4.299547 AGTCGCGGCTGCAGTTGA 62.300 61.111 14.96 3.20 42.97 3.18
3125 3474 2.806856 GATTGAGCAGTCGCGGCTG 61.807 63.158 35.16 35.16 42.78 4.85
3126 3475 2.510238 GATTGAGCAGTCGCGGCT 60.510 61.111 7.80 7.80 46.07 5.52
3128 3477 2.507102 ACGATTGAGCAGTCGCGG 60.507 61.111 14.07 0.00 43.11 6.46
3129 3478 2.691522 CACGATTGAGCAGTCGCG 59.308 61.111 14.07 0.00 43.11 5.87
3131 3480 3.860717 TGCACGATTGAGCAGTCG 58.139 55.556 12.82 12.82 44.55 4.18
3135 3484 2.747460 GGCCTGCACGATTGAGCA 60.747 61.111 4.89 4.89 39.47 4.26
3136 3485 3.869272 CGGCCTGCACGATTGAGC 61.869 66.667 0.00 0.00 0.00 4.26
3137 3486 3.869272 GCGGCCTGCACGATTGAG 61.869 66.667 13.61 0.00 45.45 3.02
3160 4348 3.495753 GGAAAATGCTCTGTTTTTGGCAG 59.504 43.478 0.00 0.00 38.11 4.85
3169 4357 3.703052 GGATTCCATGGAAAATGCTCTGT 59.297 43.478 30.28 11.15 37.69 3.41
3173 4361 2.954318 CGAGGATTCCATGGAAAATGCT 59.046 45.455 30.28 24.07 36.41 3.79
3183 4371 1.141053 GTTAGGTGCCGAGGATTCCAT 59.859 52.381 5.29 0.00 0.00 3.41
3185 4373 0.529992 CGTTAGGTGCCGAGGATTCC 60.530 60.000 0.00 0.00 0.00 3.01
3186 4374 0.529992 CCGTTAGGTGCCGAGGATTC 60.530 60.000 0.00 0.00 0.00 2.52
3187 4375 1.520666 CCGTTAGGTGCCGAGGATT 59.479 57.895 0.00 0.00 0.00 3.01
3188 4376 3.217231 CCGTTAGGTGCCGAGGAT 58.783 61.111 0.00 0.00 0.00 3.24
3206 4394 4.980805 GCCAACGACCAGCCACGA 62.981 66.667 0.00 0.00 0.00 4.35
3219 4407 1.943968 GCACTGATTACTCCACGCCAA 60.944 52.381 0.00 0.00 0.00 4.52
3224 4412 0.736325 ACGCGCACTGATTACTCCAC 60.736 55.000 5.73 0.00 0.00 4.02


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

AutoCloner maintained by Alex Coulton.