Multiple sequence alignment - TraesCS3A01G263700

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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 TraesCS3A01G263700 chr3A 100.000 5671 0 0 1 5671 487443146 487448816 0.000000e+00 10473.0
1 TraesCS3A01G263700 chr3A 93.333 45 3 0 1821 1865 487444883 487444927 3.670000e-07 67.6
2 TraesCS3A01G263700 chr3A 93.333 45 3 0 1738 1782 487444966 487445010 3.670000e-07 67.6
3 TraesCS3A01G263700 chr3D 88.999 2936 151 72 943 3826 365526987 365529802 0.000000e+00 3474.0
4 TraesCS3A01G263700 chr3D 93.263 1885 74 18 3820 5671 365531889 365533753 0.000000e+00 2728.0
5 TraesCS3A01G263700 chr3D 87.904 959 38 32 1 887 365526037 365526989 0.000000e+00 1057.0
6 TraesCS3A01G263700 chr3B 94.114 1563 55 12 4115 5671 476040310 476041841 0.000000e+00 2342.0
7 TraesCS3A01G263700 chr3B 92.835 1633 71 21 946 2562 476037038 476038640 0.000000e+00 2326.0
8 TraesCS3A01G263700 chr3B 92.328 756 31 11 168 908 476036309 476037052 0.000000e+00 1050.0
9 TraesCS3A01G263700 chr3B 89.339 666 45 10 3161 3804 476039333 476039994 0.000000e+00 813.0
10 TraesCS3A01G263700 chr3B 86.031 587 38 15 2561 3146 476038723 476039266 1.760000e-164 590.0
11 TraesCS3A01G263700 chr3B 89.492 295 27 4 2377 2670 27179871 27179580 2.500000e-98 370.0
12 TraesCS3A01G263700 chr3B 87.541 305 34 4 2367 2670 9362849 9363150 3.250000e-92 350.0
13 TraesCS3A01G263700 chr3B 90.141 142 12 2 1 140 476036094 476036235 3.490000e-42 183.0
14 TraesCS3A01G263700 chr3B 85.876 177 4 6 3809 3985 476040156 476040311 9.770000e-38 169.0
15 TraesCS3A01G263700 chr6B 89.836 305 27 4 2367 2670 688769032 688768731 6.890000e-104 388.0
16 TraesCS3A01G263700 chr7B 87.311 331 35 6 2358 2682 619459815 619460144 6.940000e-99 372.0
17 TraesCS3A01G263700 chr7B 82.222 135 21 3 3293 3426 721606209 721606341 4.640000e-21 113.0
18 TraesCS3A01G263700 chr1A 87.462 327 35 6 2346 2670 554838745 554839067 6.940000e-99 372.0
19 TraesCS3A01G263700 chr1A 83.133 83 14 0 3 85 148958895 148958977 6.090000e-10 76.8
20 TraesCS3A01G263700 chr2A 88.525 305 31 4 2367 2670 240778491 240778190 3.230000e-97 366.0
21 TraesCS3A01G263700 chr2A 87.500 304 25 8 2381 2682 308113176 308112884 7.040000e-89 339.0
22 TraesCS3A01G263700 chr2B 86.747 332 36 7 2358 2682 773103831 773104161 4.180000e-96 363.0
23 TraesCS3A01G263700 chr6A 88.192 271 27 4 2393 2661 593680970 593681237 9.170000e-83 318.0
24 TraesCS3A01G263700 chr6A 85.714 84 11 1 1 84 73561995 73562077 2.810000e-13 87.9
25 TraesCS3A01G263700 chr5A 82.222 135 21 3 3293 3426 549403284 549403416 4.640000e-21 113.0
26 TraesCS3A01G263700 chr5A 85.393 89 12 1 3338 3426 458985204 458985117 2.180000e-14 91.6
27 TraesCS3A01G263700 chr4B 85.882 85 12 0 1 85 270831752 270831668 2.180000e-14 91.6
28 TraesCS3A01G263700 chr6D 85.714 84 12 0 1 84 58245378 58245461 7.830000e-14 89.8
29 TraesCS3A01G263700 chr6D 85.366 82 12 0 1 82 230778678 230778597 1.010000e-12 86.1
30 TraesCS3A01G263700 chr4A 83.529 85 14 0 1 85 340508554 340508470 4.710000e-11 80.5
31 TraesCS3A01G263700 chr4D 84.932 73 11 0 13 85 234413551 234413479 2.190000e-09 75.0


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 TraesCS3A01G263700 chr3A 487443146 487448816 5670 False 3536.066667 10473 95.555333 1 5671 3 chr3A.!!$F1 5670
1 TraesCS3A01G263700 chr3D 365526037 365533753 7716 False 2419.666667 3474 90.055333 1 5671 3 chr3D.!!$F1 5670
2 TraesCS3A01G263700 chr3B 476036094 476041841 5747 False 1067.571429 2342 90.094857 1 5671 7 chr3B.!!$F2 5670

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
886 980 0.108207 CAGCCCAAGCATCTCCCTAG 59.892 60.0 0.0 0.0 43.56 3.02 F
1816 1915 0.170339 CGAGTACAGTGCGTGATCCA 59.830 55.0 0.0 0.0 0.00 3.41 F
2779 3025 0.038526 AAGCAGCAACATCAGCAAGC 60.039 50.0 0.0 0.0 36.12 4.01 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1857 1956 0.039346 TGCGTGCAACACAATCCATG 60.039 50.0 0.0 0.0 35.74 3.66 R
3462 3802 0.321671 GCTACACCTCTGAAGCACCA 59.678 55.0 0.0 0.0 35.05 4.17 R
4760 7386 0.178981 ACCTGAACACAATGCTGCCT 60.179 50.0 0.0 0.0 0.00 4.75 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
47 49 7.532682 TGTTTTGGCAGTTCAATTTAAACTC 57.467 32.000 7.05 0.00 34.79 3.01
87 89 8.741603 ACTTACAAACAGTGGTAATACTTTGT 57.258 30.769 10.90 10.90 34.95 2.83
187 236 2.464157 AAGCTAAGAGAACAAGCGCT 57.536 45.000 2.64 2.64 41.19 5.92
200 249 1.068055 CAAGCGCTGCTTCCTTTCATT 60.068 47.619 12.58 0.00 46.77 2.57
321 379 2.043450 CCCTCGTGCTCCTCCTCT 60.043 66.667 0.00 0.00 0.00 3.69
324 382 3.408501 CTCGTGCTCCTCCTCTGCG 62.409 68.421 0.00 0.00 0.00 5.18
624 682 3.567797 GATCCGCTCTTGCACCGC 61.568 66.667 0.00 0.00 39.64 5.68
628 686 3.782244 CGCTCTTGCACCGCAGAC 61.782 66.667 0.00 0.00 40.61 3.51
644 702 1.112113 AGACGGCACCAACGAGATAT 58.888 50.000 0.00 0.00 34.93 1.63
645 703 2.034179 CAGACGGCACCAACGAGATATA 59.966 50.000 0.00 0.00 34.93 0.86
646 704 2.891580 AGACGGCACCAACGAGATATAT 59.108 45.455 0.00 0.00 34.93 0.86
647 705 4.077108 AGACGGCACCAACGAGATATATA 58.923 43.478 0.00 0.00 34.93 0.86
669 728 7.998081 ATAACAAAACTTATTTACGTCGTGC 57.002 32.000 8.47 0.00 0.00 5.34
670 729 5.406767 ACAAAACTTATTTACGTCGTGCA 57.593 34.783 8.47 0.00 0.00 4.57
886 980 0.108207 CAGCCCAAGCATCTCCCTAG 59.892 60.000 0.00 0.00 43.56 3.02
887 981 0.327000 AGCCCAAGCATCTCCCTAGT 60.327 55.000 0.00 0.00 43.56 2.57
888 982 1.062121 AGCCCAAGCATCTCCCTAGTA 60.062 52.381 0.00 0.00 43.56 1.82
889 983 1.070914 GCCCAAGCATCTCCCTAGTAC 59.929 57.143 0.00 0.00 39.53 2.73
890 984 2.683768 CCCAAGCATCTCCCTAGTACT 58.316 52.381 0.00 0.00 0.00 2.73
891 985 3.845860 CCCAAGCATCTCCCTAGTACTA 58.154 50.000 1.89 1.89 0.00 1.82
892 986 3.829601 CCCAAGCATCTCCCTAGTACTAG 59.170 52.174 21.11 21.11 0.00 2.57
1129 1226 1.230281 TCCTTCCCATCCAAGCCCT 60.230 57.895 0.00 0.00 0.00 5.19
1130 1227 1.228510 CCTTCCCATCCAAGCCCTC 59.771 63.158 0.00 0.00 0.00 4.30
1791 1890 4.467082 GCATTCCATGGATTATGCCCAATA 59.533 41.667 29.70 8.23 37.90 1.90
1792 1891 5.394883 GCATTCCATGGATTATGCCCAATAG 60.395 44.000 29.70 8.80 37.90 1.73
1816 1915 0.170339 CGAGTACAGTGCGTGATCCA 59.830 55.000 0.00 0.00 0.00 3.41
1859 1958 6.855763 TTTTCCTGTTAATGAGCATTCCAT 57.144 33.333 0.00 0.00 32.50 3.41
1860 1959 5.840243 TTCCTGTTAATGAGCATTCCATG 57.160 39.130 0.00 0.00 32.50 3.66
1861 1960 4.209538 TCCTGTTAATGAGCATTCCATGG 58.790 43.478 4.97 4.97 32.50 3.66
1862 1961 4.079844 TCCTGTTAATGAGCATTCCATGGA 60.080 41.667 11.44 11.44 32.50 3.41
1863 1962 4.831155 CCTGTTAATGAGCATTCCATGGAT 59.169 41.667 17.06 0.00 32.50 3.41
1864 1963 5.303589 CCTGTTAATGAGCATTCCATGGATT 59.696 40.000 17.06 9.61 32.50 3.01
1865 1964 6.151663 TGTTAATGAGCATTCCATGGATTG 57.848 37.500 25.79 25.79 32.50 2.67
1866 1965 5.657745 TGTTAATGAGCATTCCATGGATTGT 59.342 36.000 28.62 19.15 32.50 2.71
1867 1966 4.665833 AATGAGCATTCCATGGATTGTG 57.334 40.909 28.62 21.75 0.00 3.33
1877 1976 0.039256 ATGGATTGTGTTGCACGCAC 60.039 50.000 12.26 12.26 38.47 5.34
1889 1988 0.793104 GCACGCACGAGTAAAATGCC 60.793 55.000 0.00 0.00 35.91 4.40
1909 2008 6.713762 TGCCATTCAAATACATTAGGGAAG 57.286 37.500 0.00 0.00 0.00 3.46
1981 2083 4.168922 TGTGTAGGTTGTGTACGATCTG 57.831 45.455 0.00 0.00 0.00 2.90
2119 2224 5.984926 GGTTTGAATTCAACAAAGATGCTCA 59.015 36.000 20.35 0.00 37.80 4.26
2165 2270 3.181329 TGAAGGTCAGGCTTCTTATGGA 58.819 45.455 0.00 0.00 0.00 3.41
2225 2330 9.629649 TTAGTGAATTGATTACCCCCTCTATAT 57.370 33.333 0.00 0.00 0.00 0.86
2226 2331 7.922382 AGTGAATTGATTACCCCCTCTATATG 58.078 38.462 0.00 0.00 0.00 1.78
2264 2369 4.296621 ACCATTTTAGACACCCACCTAC 57.703 45.455 0.00 0.00 0.00 3.18
2320 2425 4.199310 GCTGGGTACTTGAATATGAAGCA 58.801 43.478 0.00 0.00 0.00 3.91
2377 2498 1.338200 CCTATGGAGCACCGATAAGGC 60.338 57.143 0.00 0.00 46.52 4.35
2378 2499 0.317160 TATGGAGCACCGATAAGGCG 59.683 55.000 0.00 0.00 46.52 5.52
2379 2500 1.399744 ATGGAGCACCGATAAGGCGA 61.400 55.000 0.00 0.00 46.52 5.54
2380 2501 1.591863 GGAGCACCGATAAGGCGAC 60.592 63.158 0.00 0.00 46.52 5.19
2381 2502 1.141019 GAGCACCGATAAGGCGACA 59.859 57.895 0.00 0.00 46.52 4.35
2382 2503 1.146358 GAGCACCGATAAGGCGACAC 61.146 60.000 0.00 0.00 46.52 3.67
2383 2504 2.171725 GCACCGATAAGGCGACACC 61.172 63.158 0.00 0.00 46.52 4.16
2384 2505 1.876714 CACCGATAAGGCGACACCG 60.877 63.158 0.00 0.00 46.52 4.94
2385 2506 2.048023 ACCGATAAGGCGACACCGA 61.048 57.895 0.00 0.00 46.52 4.69
2386 2507 1.362717 CCGATAAGGCGACACCGAT 59.637 57.895 0.00 0.00 46.52 4.18
2387 2508 0.594602 CCGATAAGGCGACACCGATA 59.405 55.000 0.00 0.00 46.52 2.92
2388 2509 1.665161 CCGATAAGGCGACACCGATAC 60.665 57.143 0.00 0.00 46.52 2.24
2389 2510 1.002142 CGATAAGGCGACACCGATACA 60.002 52.381 0.00 0.00 46.52 2.29
2429 2564 6.842163 ACAATTTCTAGAAACAGCAATACGG 58.158 36.000 19.94 3.70 32.51 4.02
2430 2565 4.939509 TTTCTAGAAACAGCAATACGGC 57.060 40.909 13.99 0.00 0.00 5.68
2431 2566 3.603158 TCTAGAAACAGCAATACGGCA 57.397 42.857 0.00 0.00 35.83 5.69
2432 2567 3.932822 TCTAGAAACAGCAATACGGCAA 58.067 40.909 0.00 0.00 35.83 4.52
2433 2568 4.513442 TCTAGAAACAGCAATACGGCAAT 58.487 39.130 0.00 0.00 35.83 3.56
2434 2569 5.666462 TCTAGAAACAGCAATACGGCAATA 58.334 37.500 0.00 0.00 35.83 1.90
2435 2570 4.616181 AGAAACAGCAATACGGCAATAC 57.384 40.909 0.00 0.00 35.83 1.89
2436 2571 3.063452 AGAAACAGCAATACGGCAATACG 59.937 43.478 0.00 0.00 40.31 3.06
2437 2572 1.295792 ACAGCAATACGGCAATACGG 58.704 50.000 0.00 0.00 38.39 4.02
2554 2694 2.756760 TGATTGCCTTCATGCCTCTTTC 59.243 45.455 0.00 0.00 0.00 2.62
2555 2695 2.592102 TTGCCTTCATGCCTCTTTCT 57.408 45.000 0.00 0.00 0.00 2.52
2559 2699 3.256631 TGCCTTCATGCCTCTTTCTTTTC 59.743 43.478 0.00 0.00 0.00 2.29
2560 2700 3.509184 GCCTTCATGCCTCTTTCTTTTCT 59.491 43.478 0.00 0.00 0.00 2.52
2561 2701 4.702131 GCCTTCATGCCTCTTTCTTTTCTA 59.298 41.667 0.00 0.00 0.00 2.10
2562 2702 5.163673 GCCTTCATGCCTCTTTCTTTTCTAG 60.164 44.000 0.00 0.00 0.00 2.43
2563 2703 5.942826 CCTTCATGCCTCTTTCTTTTCTAGT 59.057 40.000 0.00 0.00 0.00 2.57
2564 2704 6.093357 CCTTCATGCCTCTTTCTTTTCTAGTC 59.907 42.308 0.00 0.00 0.00 2.59
2565 2705 6.365970 TCATGCCTCTTTCTTTTCTAGTCT 57.634 37.500 0.00 0.00 0.00 3.24
2566 2706 6.773638 TCATGCCTCTTTCTTTTCTAGTCTT 58.226 36.000 0.00 0.00 0.00 3.01
2567 2707 6.652481 TCATGCCTCTTTCTTTTCTAGTCTTG 59.348 38.462 0.00 0.00 0.00 3.02
2568 2708 6.174720 TGCCTCTTTCTTTTCTAGTCTTGA 57.825 37.500 0.00 0.00 0.00 3.02
2569 2709 6.591935 TGCCTCTTTCTTTTCTAGTCTTGAA 58.408 36.000 0.00 0.00 0.00 2.69
2570 2710 7.227156 TGCCTCTTTCTTTTCTAGTCTTGAAT 58.773 34.615 0.00 0.00 0.00 2.57
2571 2711 7.173907 TGCCTCTTTCTTTTCTAGTCTTGAATG 59.826 37.037 0.00 0.00 0.00 2.67
2572 2712 7.389053 GCCTCTTTCTTTTCTAGTCTTGAATGA 59.611 37.037 0.00 0.00 0.00 2.57
2620 2859 9.800433 CATGGTGTATGCAAAATAGAAAATACA 57.200 29.630 0.00 0.00 0.00 2.29
2713 2952 6.400568 AGCAATTGCAAGCAGTAACATAAAT 58.599 32.000 30.89 2.10 45.16 1.40
2754 3000 2.541178 GCTAGCAGCAAAGCAATAGCAG 60.541 50.000 10.63 0.00 41.87 4.24
2772 3018 4.565531 GCACCAAGCAGCAACATC 57.434 55.556 0.00 0.00 44.79 3.06
2773 3019 1.661480 GCACCAAGCAGCAACATCA 59.339 52.632 0.00 0.00 44.79 3.07
2774 3020 0.388134 GCACCAAGCAGCAACATCAG 60.388 55.000 0.00 0.00 44.79 2.90
2775 3021 0.388134 CACCAAGCAGCAACATCAGC 60.388 55.000 0.00 0.00 0.00 4.26
2776 3022 0.824595 ACCAAGCAGCAACATCAGCA 60.825 50.000 0.00 0.00 0.00 4.41
2777 3023 0.315886 CCAAGCAGCAACATCAGCAA 59.684 50.000 0.00 0.00 0.00 3.91
2778 3024 1.668919 CCAAGCAGCAACATCAGCAAG 60.669 52.381 0.00 0.00 0.00 4.01
2779 3025 0.038526 AAGCAGCAACATCAGCAAGC 60.039 50.000 0.00 0.00 36.12 4.01
2780 3026 0.894184 AGCAGCAACATCAGCAAGCT 60.894 50.000 0.00 0.00 39.62 3.74
2781 3027 3.401577 CAGCAACATCAGCAAGCTG 57.598 52.632 15.67 15.67 45.44 4.24
2782 3028 0.596577 CAGCAACATCAGCAAGCTGT 59.403 50.000 20.34 6.64 45.57 4.40
2783 3029 1.808343 CAGCAACATCAGCAAGCTGTA 59.192 47.619 20.34 8.92 45.57 2.74
2784 3030 2.082231 AGCAACATCAGCAAGCTGTAG 58.918 47.619 20.34 15.90 43.96 2.74
2785 3031 1.131883 GCAACATCAGCAAGCTGTAGG 59.868 52.381 20.34 13.47 43.96 3.18
2786 3032 1.131883 CAACATCAGCAAGCTGTAGGC 59.868 52.381 20.34 0.00 43.96 3.93
2787 3033 0.325933 ACATCAGCAAGCTGTAGGCA 59.674 50.000 20.34 2.55 43.96 4.75
2788 3034 1.015109 CATCAGCAAGCTGTAGGCAG 58.985 55.000 20.34 3.57 43.96 4.85
2789 3035 0.617413 ATCAGCAAGCTGTAGGCAGT 59.383 50.000 20.34 0.00 44.32 4.40
2790 3036 1.266178 TCAGCAAGCTGTAGGCAGTA 58.734 50.000 20.34 0.00 44.32 2.74
2791 3037 1.623311 TCAGCAAGCTGTAGGCAGTAA 59.377 47.619 20.34 0.00 44.32 2.24
2798 3044 2.151202 GCTGTAGGCAGTAACAAGCAA 58.849 47.619 0.00 0.00 44.32 3.91
2870 3116 0.886043 AGCAACATCAGCGAGCAACA 60.886 50.000 0.00 0.00 37.01 3.33
2872 3118 1.401931 GCAACATCAGCGAGCAACATT 60.402 47.619 0.00 0.00 0.00 2.71
2909 3155 4.790962 CAGCCACGAGCCAGCCAT 62.791 66.667 0.00 0.00 45.47 4.40
2917 3163 1.228184 GAGCCAGCCATGCATAGCT 60.228 57.895 14.26 14.26 40.89 3.32
2936 3182 3.447586 AGCTCAATTCGTACTCCAGCTTA 59.552 43.478 0.00 0.00 31.65 3.09
2979 3225 5.892119 AGTAGCAAGTAGTAGCCACTAATGA 59.108 40.000 9.53 0.00 38.98 2.57
3019 3265 8.954834 ATGAATGGATAGATCAACTAGAGAGT 57.045 34.615 0.00 0.00 37.59 3.24
3025 3271 6.940298 GGATAGATCAACTAGAGAGTAGCAGT 59.060 42.308 0.00 0.00 33.58 4.40
3183 3479 2.343758 GCGAGGCAAGTCCAGACA 59.656 61.111 0.00 0.00 37.29 3.41
3272 3594 4.006989 CGAAGAGAGTGAAAGAGAGAGGA 58.993 47.826 0.00 0.00 0.00 3.71
3314 3647 2.434774 GGCTGGACGTTTTCCCCT 59.565 61.111 0.00 0.00 45.17 4.79
3324 3657 2.297701 CGTTTTCCCCTGTATCATGGG 58.702 52.381 4.15 4.15 40.07 4.00
3432 3772 2.510691 CCGTATTGGCGCCGTTCT 60.511 61.111 23.90 8.57 0.00 3.01
3462 3802 4.562143 GGACACACCAGTTTCCTACGTATT 60.562 45.833 0.00 0.00 40.67 1.89
3524 3867 9.598517 GATATAGCAAATTTCCCACATGAAAAA 57.401 29.630 0.00 0.00 37.74 1.94
3637 3983 4.226384 TCTGCTCTAGGAAGGCAATATGA 58.774 43.478 0.00 0.00 35.49 2.15
3692 4038 9.522804 CTGAGAAAGTGTATAGTTTACCATCTC 57.477 37.037 0.00 0.00 29.74 2.75
3711 4057 1.264557 TCCGGTTACAATTTGCACACG 59.735 47.619 0.00 0.00 0.00 4.49
3804 4158 4.338879 AGTTGAGAATGGGTTTGGATCAG 58.661 43.478 0.00 0.00 0.00 2.90
3807 4161 3.588842 TGAGAATGGGTTTGGATCAGACT 59.411 43.478 0.00 0.00 0.00 3.24
3985 6587 6.737254 ACTATTCGACCAACACCTTTATTG 57.263 37.500 0.00 0.00 0.00 1.90
3992 6594 4.074970 ACCAACACCTTTATTGAGCTCTG 58.925 43.478 16.19 4.49 0.00 3.35
3993 6595 4.074970 CCAACACCTTTATTGAGCTCTGT 58.925 43.478 16.19 5.18 0.00 3.41
3994 6596 4.520492 CCAACACCTTTATTGAGCTCTGTT 59.480 41.667 16.19 11.24 0.00 3.16
4020 6641 4.500127 CATCTTTTGAAGGATGCAATGCA 58.500 39.130 11.44 11.44 44.86 3.96
4058 6679 9.640963 CTACACTATGCAAGATATTTAGTACCC 57.359 37.037 0.00 0.00 0.00 3.69
4085 6706 5.393962 GCTTGTAAGAAGCTTTGGTGTATG 58.606 41.667 0.00 0.00 40.01 2.39
4111 6732 5.365619 TCTACACAGAAGTTTGAACCCTTC 58.634 41.667 0.00 0.00 37.85 3.46
4127 6748 2.029110 CCCTTCGTTTTGGCATGTCAAT 60.029 45.455 14.57 0.00 0.00 2.57
4131 6753 5.007528 CCTTCGTTTTGGCATGTCAATTTTT 59.992 36.000 14.57 0.00 0.00 1.94
4461 7086 4.677182 AGGATGAGCTTAAAACCAATGGT 58.323 39.130 0.00 0.00 37.65 3.55
4513 7138 3.012518 CAACCTAGCAGTTCCCTCATTG 58.987 50.000 0.00 0.00 0.00 2.82
4527 7152 3.499918 CCCTCATTGGCGATGAAGTAATC 59.500 47.826 17.81 0.00 43.93 1.75
4694 7320 4.702131 AGTTAGTCCTTGCTAAAATGCTGG 59.298 41.667 0.00 0.00 33.34 4.85
4709 7335 9.209175 CTAAAATGCTGGATACTGTATACTTCC 57.791 37.037 11.17 5.10 39.82 3.46
4736 7362 3.833442 TGCTGTTCTACTCATACACACG 58.167 45.455 0.00 0.00 0.00 4.49
4802 7428 5.952064 GTCGATGTTTTGCGTACTAATTCAG 59.048 40.000 0.00 0.00 0.00 3.02
4843 7469 3.876341 ACTTACCGTTGAAAGTTGTCCA 58.124 40.909 0.00 0.00 32.00 4.02
4851 7477 4.674101 CGTTGAAAGTTGTCCATGTTGTGT 60.674 41.667 0.00 0.00 0.00 3.72
4882 7518 5.391312 AGGTGAATGGTTATTGCAGTTTC 57.609 39.130 0.00 0.00 0.00 2.78
4935 7571 2.664851 TGCCGTTTGGAGCTGTCG 60.665 61.111 0.00 0.00 37.49 4.35
4959 7595 4.023193 ACTGTTTTGTTATCGGCTTCTTGG 60.023 41.667 0.00 0.00 0.00 3.61
4977 7613 3.804786 TGGATGTATGCTTTGCCATTG 57.195 42.857 0.00 0.00 0.00 2.82
4978 7614 2.159071 TGGATGTATGCTTTGCCATTGC 60.159 45.455 0.00 0.00 38.26 3.56
4979 7615 2.121786 GATGTATGCTTTGCCATTGCG 58.878 47.619 0.00 0.00 41.78 4.85
4980 7616 1.172175 TGTATGCTTTGCCATTGCGA 58.828 45.000 0.00 0.00 41.78 5.10
4981 7617 1.543358 TGTATGCTTTGCCATTGCGAA 59.457 42.857 0.00 0.00 41.78 4.70
4982 7618 2.029560 TGTATGCTTTGCCATTGCGAAA 60.030 40.909 0.00 0.00 40.35 3.46
5087 7724 4.935205 CCAACGTTATTCTGTCTCCATCAA 59.065 41.667 0.00 0.00 0.00 2.57
5104 7741 8.274322 TCTCCATCAATCAAGGTAACATTGTAT 58.726 33.333 0.00 0.00 41.41 2.29
5105 7742 8.821686 TCCATCAATCAAGGTAACATTGTATT 57.178 30.769 0.00 0.00 41.41 1.89
5139 7776 6.113411 AGAACTGGAAATAATACGGACAAGG 58.887 40.000 0.00 0.00 0.00 3.61
5372 8012 6.812160 GCAAAATGAATGCAGATTTCTCTCTT 59.188 34.615 0.00 0.00 43.29 2.85
5534 8174 5.404946 ACAAGCAGAATGTCATTGTTATGC 58.595 37.500 1.88 7.94 41.48 3.14
5539 8179 5.813672 GCAGAATGTCATTGTTATGCCAAAT 59.186 36.000 1.88 0.00 36.76 2.32
5611 8251 6.683110 GCGAGTTCCCTGAGAATAGTATTTCA 60.683 42.308 0.00 2.96 36.69 2.69
5635 8275 1.001706 TCGTCTCCGACTTTGTCACAG 60.002 52.381 0.00 0.00 38.40 3.66
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
67 69 8.918961 TTCAAACAAAGTATTACCACTGTTTG 57.081 30.769 23.72 23.72 40.40 2.93
74 76 9.575868 TCCTGTAATTCAAACAAAGTATTACCA 57.424 29.630 0.00 0.00 31.93 3.25
184 233 0.524862 AGCAATGAAAGGAAGCAGCG 59.475 50.000 0.00 0.00 0.00 5.18
187 236 1.614903 CACCAGCAATGAAAGGAAGCA 59.385 47.619 0.00 0.00 0.00 3.91
200 249 1.621672 TATCACCGGCATCACCAGCA 61.622 55.000 0.00 0.00 39.03 4.41
624 682 0.172578 TATCTCGTTGGTGCCGTCTG 59.827 55.000 0.00 0.00 0.00 3.51
628 686 4.552355 TGTTATATATCTCGTTGGTGCCG 58.448 43.478 0.00 0.00 0.00 5.69
630 688 7.916552 AGTTTTGTTATATATCTCGTTGGTGC 58.083 34.615 0.00 0.00 0.00 5.01
644 702 8.706936 TGCACGACGTAAATAAGTTTTGTTATA 58.293 29.630 0.00 0.00 0.00 0.98
645 703 7.574496 TGCACGACGTAAATAAGTTTTGTTAT 58.426 30.769 0.00 0.00 0.00 1.89
646 704 6.941802 TGCACGACGTAAATAAGTTTTGTTA 58.058 32.000 0.00 0.00 0.00 2.41
647 705 5.808403 TGCACGACGTAAATAAGTTTTGTT 58.192 33.333 0.00 0.00 0.00 2.83
666 725 1.032114 GCCACCTCCCTTGTATGCAC 61.032 60.000 0.00 0.00 0.00 4.57
669 728 1.141053 GGTAGCCACCTCCCTTGTATG 59.859 57.143 0.00 0.00 42.11 2.39
670 729 1.508256 GGTAGCCACCTCCCTTGTAT 58.492 55.000 0.00 0.00 42.11 2.29
690 757 2.612212 CACCGGACCAGGAATAAAATCG 59.388 50.000 9.46 0.00 34.73 3.34
693 760 2.290450 GGACACCGGACCAGGAATAAAA 60.290 50.000 9.46 0.00 34.73 1.52
937 1031 9.244292 ACTCTTTGTTCTTTTCTTCCTACTTTT 57.756 29.630 0.00 0.00 0.00 2.27
938 1032 8.809468 ACTCTTTGTTCTTTTCTTCCTACTTT 57.191 30.769 0.00 0.00 0.00 2.66
939 1033 9.901172 TTACTCTTTGTTCTTTTCTTCCTACTT 57.099 29.630 0.00 0.00 0.00 2.24
940 1034 9.901172 TTTACTCTTTGTTCTTTTCTTCCTACT 57.099 29.630 0.00 0.00 0.00 2.57
941 1035 9.932699 GTTTACTCTTTGTTCTTTTCTTCCTAC 57.067 33.333 0.00 0.00 0.00 3.18
942 1036 9.117183 GGTTTACTCTTTGTTCTTTTCTTCCTA 57.883 33.333 0.00 0.00 0.00 2.94
943 1037 7.068348 GGGTTTACTCTTTGTTCTTTTCTTCCT 59.932 37.037 0.00 0.00 0.00 3.36
1129 1226 2.169590 GAGGAGGAGGAGGTGGTGGA 62.170 65.000 0.00 0.00 0.00 4.02
1130 1227 1.687493 GAGGAGGAGGAGGTGGTGG 60.687 68.421 0.00 0.00 0.00 4.61
1251 1348 3.227276 CGAGGACGGGATGGGGAG 61.227 72.222 0.00 0.00 35.72 4.30
1393 1490 4.253257 GCGCGACCTCGACCTAGG 62.253 72.222 12.10 7.41 43.02 3.02
1763 1862 4.222145 GGCATAATCCATGGAATGCTCATT 59.778 41.667 34.42 20.45 44.97 2.57
1791 1890 0.956410 ACGCACTGTACTCGCTCTCT 60.956 55.000 0.00 0.00 0.00 3.10
1792 1891 0.794981 CACGCACTGTACTCGCTCTC 60.795 60.000 0.00 0.00 0.00 3.20
1836 1935 6.351202 CCATGGAATGCTCATTAACAGGAAAA 60.351 38.462 5.56 0.00 44.97 2.29
1838 1937 4.646040 CCATGGAATGCTCATTAACAGGAA 59.354 41.667 5.56 0.00 44.97 3.36
1839 1938 4.079844 TCCATGGAATGCTCATTAACAGGA 60.080 41.667 13.46 10.52 44.97 3.86
1840 1939 4.209538 TCCATGGAATGCTCATTAACAGG 58.790 43.478 13.46 0.90 44.97 4.00
1841 1940 6.183360 ACAATCCATGGAATGCTCATTAACAG 60.183 38.462 26.65 2.16 44.97 3.16
1842 1941 5.657745 ACAATCCATGGAATGCTCATTAACA 59.342 36.000 26.65 0.00 44.97 2.41
1843 1942 5.981315 CACAATCCATGGAATGCTCATTAAC 59.019 40.000 26.65 0.00 44.97 2.01
1844 1943 5.657745 ACACAATCCATGGAATGCTCATTAA 59.342 36.000 26.65 0.00 44.97 1.40
1845 1944 5.202765 ACACAATCCATGGAATGCTCATTA 58.797 37.500 26.65 0.00 44.97 1.90
1849 1948 3.777478 CAACACAATCCATGGAATGCTC 58.223 45.455 26.65 0.00 44.97 4.26
1851 1950 2.273557 GCAACACAATCCATGGAATGC 58.726 47.619 26.65 20.21 44.97 3.56
1852 1951 3.255725 GTGCAACACAATCCATGGAATG 58.744 45.455 25.40 25.40 40.07 2.67
1853 1952 2.094597 CGTGCAACACAATCCATGGAAT 60.095 45.455 20.67 7.74 35.74 3.01
1854 1953 1.269174 CGTGCAACACAATCCATGGAA 59.731 47.619 20.67 1.96 35.74 3.53
1855 1954 0.880441 CGTGCAACACAATCCATGGA 59.120 50.000 18.88 18.88 35.74 3.41
1857 1956 0.039346 TGCGTGCAACACAATCCATG 60.039 50.000 0.00 0.00 35.74 3.66
1859 1958 1.358402 GTGCGTGCAACACAATCCA 59.642 52.632 14.55 0.00 37.96 3.41
1860 1959 1.725625 CGTGCGTGCAACACAATCC 60.726 57.895 18.27 0.00 37.93 3.01
1861 1960 0.722469 CTCGTGCGTGCAACACAATC 60.722 55.000 18.27 0.00 37.93 2.67
1862 1961 1.279539 CTCGTGCGTGCAACACAAT 59.720 52.632 18.27 0.00 37.93 2.71
1863 1962 0.806492 TACTCGTGCGTGCAACACAA 60.806 50.000 18.27 2.28 37.93 3.33
1864 1963 0.806492 TTACTCGTGCGTGCAACACA 60.806 50.000 18.27 1.59 37.93 3.72
1865 1964 0.302288 TTTACTCGTGCGTGCAACAC 59.698 50.000 10.39 10.39 35.74 3.32
1866 1965 1.007580 TTTTACTCGTGCGTGCAACA 58.992 45.000 0.00 0.00 35.74 3.33
1867 1966 1.969256 CATTTTACTCGTGCGTGCAAC 59.031 47.619 0.00 0.00 0.00 4.17
1877 1976 8.633075 AATGTATTTGAATGGCATTTTACTCG 57.367 30.769 14.93 0.00 0.00 4.18
1925 2024 4.042398 GCGCTGAACTACGAATTAGATGA 58.958 43.478 0.00 0.00 0.00 2.92
2119 2224 7.698506 ACATCATTGTCATCTTCATCAAGTT 57.301 32.000 0.00 0.00 0.00 2.66
2165 2270 7.346436 AGGAATCCTTATTGAATTCAAAGGCAT 59.654 33.333 25.07 18.50 39.55 4.40
2214 2319 2.755655 CTCGCTACACATATAGAGGGGG 59.244 54.545 0.00 0.00 0.00 5.40
2225 2330 2.624364 TGGTACAAGAACTCGCTACACA 59.376 45.455 0.00 0.00 31.92 3.72
2226 2331 3.293311 TGGTACAAGAACTCGCTACAC 57.707 47.619 0.00 0.00 31.92 2.90
2264 2369 9.855021 AACTTTCAAAAACTAATATTGGATCCG 57.145 29.630 7.39 0.00 0.00 4.18
2350 2471 0.837272 GGTGCTCCATAGGGCTACAA 59.163 55.000 0.00 0.00 0.00 2.41
2376 2497 0.040692 TATCGCTGTATCGGTGTCGC 60.041 55.000 0.00 0.00 36.13 5.19
2377 2498 1.671469 GTATCGCTGTATCGGTGTCG 58.329 55.000 0.00 0.00 37.82 4.35
2378 2499 1.662309 CCGTATCGCTGTATCGGTGTC 60.662 57.143 0.00 0.00 36.99 3.67
2379 2500 0.309922 CCGTATCGCTGTATCGGTGT 59.690 55.000 0.00 0.00 36.99 4.16
2380 2501 0.386858 CCCGTATCGCTGTATCGGTG 60.387 60.000 0.00 0.00 39.62 4.94
2381 2502 0.535780 TCCCGTATCGCTGTATCGGT 60.536 55.000 0.00 0.00 39.62 4.69
2382 2503 0.809385 ATCCCGTATCGCTGTATCGG 59.191 55.000 0.00 0.00 40.72 4.18
2383 2504 2.536329 CGTATCCCGTATCGCTGTATCG 60.536 54.545 0.00 0.00 0.00 2.92
2384 2505 2.674852 TCGTATCCCGTATCGCTGTATC 59.325 50.000 0.00 0.00 37.94 2.24
2385 2506 2.417933 GTCGTATCCCGTATCGCTGTAT 59.582 50.000 0.00 0.00 37.94 2.29
2386 2507 1.800586 GTCGTATCCCGTATCGCTGTA 59.199 52.381 0.00 0.00 37.94 2.74
2387 2508 0.590195 GTCGTATCCCGTATCGCTGT 59.410 55.000 0.00 0.00 37.94 4.40
2388 2509 0.589708 TGTCGTATCCCGTATCGCTG 59.410 55.000 0.00 0.00 37.94 5.18
2389 2510 1.311859 TTGTCGTATCCCGTATCGCT 58.688 50.000 0.00 0.00 37.94 4.93
2405 2540 6.622896 GCCGTATTGCTGTTTCTAGAAATTGT 60.623 38.462 20.41 7.28 32.36 2.71
2429 2564 6.642683 ATTTACATATACTCGCCGTATTGC 57.357 37.500 3.15 0.00 39.48 3.56
2490 2630 8.242053 ACATTTTGATCTCATCTCACACATTTC 58.758 33.333 0.00 0.00 0.00 2.17
2554 2694 8.728337 TGGATGATCATTCAAGACTAGAAAAG 57.272 34.615 14.63 0.00 34.96 2.27
2555 2695 7.772292 CCTGGATGATCATTCAAGACTAGAAAA 59.228 37.037 17.50 0.00 34.96 2.29
2559 2699 6.172136 ACCTGGATGATCATTCAAGACTAG 57.828 41.667 17.93 7.69 34.96 2.57
2560 2700 5.070981 GGACCTGGATGATCATTCAAGACTA 59.929 44.000 17.93 0.00 34.96 2.59
2561 2701 4.141528 GGACCTGGATGATCATTCAAGACT 60.142 45.833 17.93 0.00 34.96 3.24
2562 2702 4.133078 GGACCTGGATGATCATTCAAGAC 58.867 47.826 17.93 12.02 34.96 3.01
2563 2703 4.042884 AGGACCTGGATGATCATTCAAGA 58.957 43.478 17.93 0.00 34.96 3.02
2564 2704 4.141551 TGAGGACCTGGATGATCATTCAAG 60.142 45.833 17.50 13.96 34.96 3.02
2565 2705 3.781965 TGAGGACCTGGATGATCATTCAA 59.218 43.478 17.50 0.00 34.96 2.69
2566 2706 3.387012 TGAGGACCTGGATGATCATTCA 58.613 45.455 16.04 16.04 36.00 2.57
2567 2707 4.133078 GTTGAGGACCTGGATGATCATTC 58.867 47.826 10.14 8.56 0.00 2.67
2568 2708 3.784763 AGTTGAGGACCTGGATGATCATT 59.215 43.478 10.14 0.00 0.00 2.57
2569 2709 3.390639 GAGTTGAGGACCTGGATGATCAT 59.609 47.826 8.25 8.25 0.00 2.45
2570 2710 2.768527 GAGTTGAGGACCTGGATGATCA 59.231 50.000 0.00 0.00 0.00 2.92
2571 2711 2.103941 GGAGTTGAGGACCTGGATGATC 59.896 54.545 0.00 0.00 0.00 2.92
2572 2712 2.122768 GGAGTTGAGGACCTGGATGAT 58.877 52.381 0.00 0.00 0.00 2.45
2655 2894 7.437862 TGTTTATGTTTCCACTTTTCATGCTTC 59.562 33.333 0.00 0.00 0.00 3.86
2754 3000 1.080298 GATGTTGCTGCTTGGTGCC 60.080 57.895 0.00 0.00 42.00 5.01
2767 3013 1.271543 TGCCTACAGCTTGCTGATGTT 60.272 47.619 26.71 8.87 43.49 2.71
2769 3015 1.015109 CTGCCTACAGCTTGCTGATG 58.985 55.000 26.71 17.54 44.23 3.07
2770 3016 3.473147 CTGCCTACAGCTTGCTGAT 57.527 52.632 26.71 14.26 44.23 2.90
2778 3024 7.427138 GCTATTGCTTGTTACTGCCTACAGC 62.427 48.000 0.00 0.00 41.00 4.40
2779 3025 4.034510 GCTATTGCTTGTTACTGCCTACAG 59.965 45.833 0.00 0.00 42.13 2.74
2780 3026 3.938963 GCTATTGCTTGTTACTGCCTACA 59.061 43.478 0.00 0.00 36.03 2.74
2781 3027 3.938963 TGCTATTGCTTGTTACTGCCTAC 59.061 43.478 0.00 0.00 40.48 3.18
2782 3028 4.214986 TGCTATTGCTTGTTACTGCCTA 57.785 40.909 0.00 0.00 40.48 3.93
2783 3029 3.071874 TGCTATTGCTTGTTACTGCCT 57.928 42.857 0.00 0.00 40.48 4.75
2784 3030 3.762779 CTTGCTATTGCTTGTTACTGCC 58.237 45.455 0.00 0.00 40.48 4.85
2785 3031 3.174375 GCTTGCTATTGCTTGTTACTGC 58.826 45.455 0.00 0.00 40.48 4.40
2786 3032 4.161333 GTGCTTGCTATTGCTTGTTACTG 58.839 43.478 0.00 0.00 40.48 2.74
2787 3033 3.191371 GGTGCTTGCTATTGCTTGTTACT 59.809 43.478 0.00 0.00 40.48 2.24
2788 3034 3.057596 TGGTGCTTGCTATTGCTTGTTAC 60.058 43.478 0.00 0.00 40.48 2.50
2789 3035 3.153130 TGGTGCTTGCTATTGCTTGTTA 58.847 40.909 0.00 0.00 40.48 2.41
2790 3036 1.962807 TGGTGCTTGCTATTGCTTGTT 59.037 42.857 0.00 0.00 40.48 2.83
2791 3037 1.619654 TGGTGCTTGCTATTGCTTGT 58.380 45.000 0.00 0.00 40.48 3.16
2798 3044 0.609957 TGCTGCTTGGTGCTTGCTAT 60.610 50.000 0.00 0.00 43.37 2.97
2870 3116 9.442047 GGCTGCTTGTAGAATATGTAGATTAAT 57.558 33.333 0.00 0.00 0.00 1.40
2872 3118 7.872993 GTGGCTGCTTGTAGAATATGTAGATTA 59.127 37.037 0.00 0.00 0.00 1.75
2909 3155 3.132111 TGGAGTACGAATTGAGCTATGCA 59.868 43.478 0.00 0.00 0.00 3.96
2917 3163 4.705507 ACTCTAAGCTGGAGTACGAATTGA 59.294 41.667 17.57 0.00 41.56 2.57
2936 3182 5.927115 GCTACTGCTTGTTAGTTGTTACTCT 59.073 40.000 0.00 0.00 34.49 3.24
2979 3225 7.713734 ATCCATTCATCTGTTTGTCTTCAAT 57.286 32.000 0.00 0.00 33.32 2.57
3019 3265 1.107538 AGCTCCGGCGAATACTGCTA 61.108 55.000 9.30 0.00 44.37 3.49
3025 3271 2.579873 AGTAAGTAGCTCCGGCGAATA 58.420 47.619 9.30 0.00 44.37 1.75
3191 3487 2.752358 CTGCCTGGACTTGCCTCA 59.248 61.111 0.00 0.00 37.63 3.86
3197 3517 3.177884 TGCCACCTGCCTGGACTT 61.178 61.111 0.00 0.00 40.16 3.01
3248 3568 2.490115 TCTCTCTTTCACTCTCTTCGCC 59.510 50.000 0.00 0.00 0.00 5.54
3272 3594 2.269940 ACCAAACCTAGCATCTGTCCT 58.730 47.619 0.00 0.00 0.00 3.85
3314 3647 2.940971 GCTGTTCACTGCCCATGATACA 60.941 50.000 0.00 0.00 35.17 2.29
3324 3657 1.421410 CGATACGGGCTGTTCACTGC 61.421 60.000 3.31 0.35 39.66 4.40
3379 3714 1.006571 CGCGTATGGCCCGAGTATT 60.007 57.895 0.00 0.00 38.94 1.89
3386 3721 3.110178 GCGATACGCGTATGGCCC 61.110 66.667 39.75 24.32 44.55 5.80
3405 3740 2.528797 CCAATACGGCTGATACGGC 58.471 57.895 0.00 0.00 35.23 5.68
3421 3761 4.680237 CTGTCCAGAACGGCGCCA 62.680 66.667 28.98 0.53 33.14 5.69
3432 3772 0.986019 AACTGGTGTGTCCCTGTCCA 60.986 55.000 0.00 0.00 35.82 4.02
3462 3802 0.321671 GCTACACCTCTGAAGCACCA 59.678 55.000 0.00 0.00 35.05 4.17
3524 3867 8.909923 GGCTAGGGTGTGTAAAACATAATTAAT 58.090 33.333 0.00 0.00 41.97 1.40
3535 3878 5.390387 AGAAATTTGGCTAGGGTGTGTAAA 58.610 37.500 0.00 0.00 0.00 2.01
3576 3919 9.457436 ACACAGGTAATAAAAGGTAAATCGATT 57.543 29.630 4.39 4.39 0.00 3.34
3685 4031 2.752903 GCAAATTGTAACCGGAGATGGT 59.247 45.455 9.46 0.00 46.67 3.55
3692 4038 1.002251 ACGTGTGCAAATTGTAACCGG 60.002 47.619 0.00 0.00 0.00 5.28
3738 4084 8.999431 TGATAGAACAATAGAACAAGAACAACC 58.001 33.333 0.00 0.00 0.00 3.77
3819 4330 5.109210 CGGCATCAACTCTATAACAGACAA 58.891 41.667 0.00 0.00 0.00 3.18
3826 4337 4.341235 AGTGTAGCGGCATCAACTCTATAA 59.659 41.667 1.45 0.00 0.00 0.98
3928 6530 6.035650 TGCACTAGCTGTTGTAAATTATCGTC 59.964 38.462 0.00 0.00 42.74 4.20
3985 6587 5.808042 TCAAAAGATGCATAACAGAGCTC 57.192 39.130 5.27 5.27 0.00 4.09
4020 6641 9.890629 TCTTGCATAGTGTAGAACAAGAAATAT 57.109 29.630 0.00 0.00 40.21 1.28
4085 6706 5.998363 AGGGTTCAAACTTCTGTGTAGAATC 59.002 40.000 0.00 0.00 41.83 2.52
4191 6814 2.920724 TGTGCTTAACCAGTGTAGCA 57.079 45.000 0.00 0.00 41.01 3.49
4285 6908 9.762381 TGGTTAGGAACAAGTTGGAAAATATAT 57.238 29.630 7.96 0.00 0.00 0.86
4286 6909 9.238368 CTGGTTAGGAACAAGTTGGAAAATATA 57.762 33.333 7.96 0.00 0.00 0.86
4461 7086 3.213206 TCTTCAGCTTTCTTGCCTTCA 57.787 42.857 0.00 0.00 0.00 3.02
4694 7320 6.865726 CAGCAGATGTGGAAGTATACAGTATC 59.134 42.308 5.50 0.96 0.00 2.24
4709 7335 5.518128 GTGTATGAGTAGAACAGCAGATGTG 59.482 44.000 0.00 0.00 43.00 3.21
4747 7373 5.106157 ACAATGCTGCCTAATGTTACAACTC 60.106 40.000 0.00 0.00 0.00 3.01
4760 7386 0.178981 ACCTGAACACAATGCTGCCT 60.179 50.000 0.00 0.00 0.00 4.75
4816 7442 5.354792 ACAACTTTCAACGGTAAGTTTGCTA 59.645 36.000 0.00 0.00 41.06 3.49
4843 7469 8.522830 CCATTCACCTATTTAGAAACACAACAT 58.477 33.333 0.00 0.00 0.00 2.71
4851 7477 9.249053 TGCAATAACCATTCACCTATTTAGAAA 57.751 29.630 0.00 0.00 0.00 2.52
4882 7518 8.783093 TCAGTTCAATTAGTATGTTTTCTGGTG 58.217 33.333 0.00 0.00 0.00 4.17
4935 7571 5.147162 CAAGAAGCCGATAACAAAACAGTC 58.853 41.667 0.00 0.00 0.00 3.51
4959 7595 2.121786 CGCAATGGCAAAGCATACATC 58.878 47.619 13.73 0.00 41.24 3.06
4977 7613 0.804989 CAATGAGGGGTGACTTTCGC 59.195 55.000 0.00 0.00 0.00 4.70
4978 7614 0.804989 GCAATGAGGGGTGACTTTCG 59.195 55.000 0.00 0.00 0.00 3.46
4979 7615 2.206576 AGCAATGAGGGGTGACTTTC 57.793 50.000 0.00 0.00 0.00 2.62
4980 7616 2.158475 TGAAGCAATGAGGGGTGACTTT 60.158 45.455 0.00 0.00 0.00 2.66
4981 7617 1.425066 TGAAGCAATGAGGGGTGACTT 59.575 47.619 0.00 0.00 0.00 3.01
4982 7618 1.067295 TGAAGCAATGAGGGGTGACT 58.933 50.000 0.00 0.00 0.00 3.41
5132 7769 3.634397 TCCAGATTGTCATCCTTGTCC 57.366 47.619 0.00 0.00 0.00 4.02
5267 7907 2.807676 CATCTTGCAGGGTTAAAGGGT 58.192 47.619 0.00 0.00 0.00 4.34
5372 8012 9.679661 TGGTCAGAAGCTATTAAAATCAACATA 57.320 29.630 0.00 0.00 0.00 2.29
5386 8026 1.508632 GTTTGCGTGGTCAGAAGCTA 58.491 50.000 0.00 0.00 0.00 3.32
5534 8174 4.096984 GCTTGAGGTATGAACTCCATTTGG 59.903 45.833 0.00 0.00 36.71 3.28
5539 8179 2.265367 TGGCTTGAGGTATGAACTCCA 58.735 47.619 0.00 0.00 34.06 3.86
5635 8275 3.810941 TCAGTACAAATGTTTCCACGTCC 59.189 43.478 0.00 0.00 0.00 4.79


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

AutoCloner maintained by Alex Coulton.