Multiple sequence alignment - TraesCS1A01G438900

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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 TraesCS1A01G438900 chr1A 100.000 3097 0 0 1 3097 588390383 588387287 0.000000e+00 5720.0
1 TraesCS1A01G438900 chr1A 89.381 339 27 3 982 1311 547789057 547789395 4.780000e-113 418.0
2 TraesCS1A01G438900 chr1A 84.211 76 7 4 2453 2524 588387746 588387672 5.540000e-08 69.4
3 TraesCS1A01G438900 chr1A 84.211 76 7 4 2638 2712 588387931 588387860 5.540000e-08 69.4
4 TraesCS1A01G438900 chr1B 92.487 1970 100 17 778 2713 680832156 680834111 0.000000e+00 2774.0
5 TraesCS1A01G438900 chr1B 90.415 313 18 2 825 1125 682003240 682003552 4.810000e-108 401.0
6 TraesCS1A01G438900 chr1B 90.190 316 19 2 825 1128 682026198 682025883 4.810000e-108 401.0
7 TraesCS1A01G438900 chr1B 93.701 127 3 2 532 654 680831982 680832107 5.270000e-43 185.0
8 TraesCS1A01G438900 chr1B 93.478 92 1 2 431 517 680831907 680831998 6.970000e-27 132.0
9 TraesCS1A01G438900 chr1B 87.805 82 6 3 2631 2712 680833842 680833919 3.290000e-15 93.5
10 TraesCS1A01G438900 chr1D 90.625 1152 85 11 1577 2713 489245791 489244648 0.000000e+00 1507.0
11 TraesCS1A01G438900 chr1D 85.046 876 61 20 755 1578 489246731 489245874 0.000000e+00 828.0
12 TraesCS1A01G438900 chr1D 90.946 497 35 5 6 496 489247358 489246866 0.000000e+00 660.0
13 TraesCS1A01G438900 chr1D 87.067 433 51 5 4 431 65576382 65575950 4.640000e-133 484.0
14 TraesCS1A01G438900 chr1D 91.909 309 14 2 826 1125 489755851 489756157 3.690000e-114 422.0
15 TraesCS1A01G438900 chr1D 84.839 310 28 9 920 1221 460303827 460303529 8.400000e-76 294.0
16 TraesCS1A01G438900 chr1D 79.245 371 33 17 770 1125 490304727 490305068 5.200000e-53 219.0
17 TraesCS1A01G438900 chr1D 92.258 155 5 5 558 708 489246866 489246715 2.420000e-51 213.0
18 TraesCS1A01G438900 chr1D 100.000 46 0 0 2667 2712 489244879 489244834 5.500000e-13 86.1
19 TraesCS1A01G438900 chr4B 88.533 750 58 12 978 1704 534348540 534347796 0.000000e+00 883.0
20 TraesCS1A01G438900 chr3B 88.533 750 58 12 978 1704 708436896 708437640 0.000000e+00 883.0
21 TraesCS1A01G438900 chr3B 87.600 750 65 14 978 1704 705502256 705503000 0.000000e+00 845.0
22 TraesCS1A01G438900 chr3B 84.668 437 59 6 1 431 781207790 781208224 2.210000e-116 429.0
23 TraesCS1A01G438900 chr2A 87.483 751 65 12 978 1704 556204032 556203287 0.000000e+00 839.0
24 TraesCS1A01G438900 chr7A 87.350 751 66 13 978 1704 654332680 654333425 0.000000e+00 833.0
25 TraesCS1A01G438900 chr7A 85.619 751 72 17 978 1704 88152577 88153315 0.000000e+00 756.0
26 TraesCS1A01G438900 chr7A 87.059 510 44 11 1211 1703 88047910 88048414 9.700000e-155 556.0
27 TraesCS1A01G438900 chr7A 85.450 433 59 3 3 431 256198428 256198860 6.090000e-122 448.0
28 TraesCS1A01G438900 chr7A 90.379 343 24 3 978 1311 219413988 219414330 2.830000e-120 442.0
29 TraesCS1A01G438900 chr6A 89.583 432 40 3 1 431 568046109 568046536 7.550000e-151 544.0
30 TraesCS1A01G438900 chr6D 86.667 435 55 2 1 432 296668250 296667816 2.160000e-131 479.0
31 TraesCS1A01G438900 chr2D 85.874 446 58 4 1 442 385572359 385572803 1.300000e-128 470.0
32 TraesCS1A01G438900 chr2D 90.034 291 26 3 2714 3004 632727245 632726958 1.050000e-99 374.0
33 TraesCS1A01G438900 chr2D 89.691 291 27 3 2714 3004 632754389 632754102 4.880000e-98 368.0
34 TraesCS1A01G438900 chr2D 88.699 292 29 4 2714 3004 632750070 632749782 1.370000e-93 353.0
35 TraesCS1A01G438900 chr2D 88.660 291 30 3 2714 3004 632731477 632731190 4.910000e-93 351.0
36 TraesCS1A01G438900 chr2D 93.204 206 14 0 2714 2919 632722924 632722719 1.400000e-78 303.0
37 TraesCS1A01G438900 chr5B 86.207 435 56 3 1 431 682222992 682222558 4.680000e-128 468.0
38 TraesCS1A01G438900 chr3A 90.671 343 23 6 978 1311 56065802 56065460 6.090000e-122 448.0
39 TraesCS1A01G438900 chr3D 85.253 434 60 3 3 433 83599183 83598751 7.880000e-121 444.0


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 TraesCS1A01G438900 chr1A 588387287 588390383 3096 True 1952.933333 5720 89.47400 1 3097 3 chr1A.!!$R1 3096
1 TraesCS1A01G438900 chr1B 680831907 680834111 2204 False 796.125000 2774 91.86775 431 2713 4 chr1B.!!$F2 2282
2 TraesCS1A01G438900 chr1D 489244648 489247358 2710 True 658.820000 1507 91.77500 6 2713 5 chr1D.!!$R3 2707
3 TraesCS1A01G438900 chr4B 534347796 534348540 744 True 883.000000 883 88.53300 978 1704 1 chr4B.!!$R1 726
4 TraesCS1A01G438900 chr3B 708436896 708437640 744 False 883.000000 883 88.53300 978 1704 1 chr3B.!!$F2 726
5 TraesCS1A01G438900 chr3B 705502256 705503000 744 False 845.000000 845 87.60000 978 1704 1 chr3B.!!$F1 726
6 TraesCS1A01G438900 chr2A 556203287 556204032 745 True 839.000000 839 87.48300 978 1704 1 chr2A.!!$R1 726
7 TraesCS1A01G438900 chr7A 654332680 654333425 745 False 833.000000 833 87.35000 978 1704 1 chr7A.!!$F5 726
8 TraesCS1A01G438900 chr7A 88152577 88153315 738 False 756.000000 756 85.61900 978 1704 1 chr7A.!!$F2 726
9 TraesCS1A01G438900 chr7A 88047910 88048414 504 False 556.000000 556 87.05900 1211 1703 1 chr7A.!!$F1 492
10 TraesCS1A01G438900 chr2D 632726958 632731477 4519 True 362.500000 374 89.34700 2714 3004 2 chr2D.!!$R4 290

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
126 128 0.035458 AGGACTTGCCCGTCTTCTTG 59.965 55.0 2.99 0.0 37.37 3.02 F
820 852 0.038526 GACGCGTGAGGAAGAAGGAA 60.039 55.0 20.70 0.0 0.00 3.36 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1813 2020 0.107066 TCGTACTCATAGCCGGTCCA 60.107 55.0 1.9 0.0 0.0 4.02 R
2621 2842 0.116143 CCAAATCCCCAACCTCCCAA 59.884 55.0 0.0 0.0 0.0 4.12 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
27 28 0.173935 TAACATCCAACGACGGCGAT 59.826 50.000 22.49 0.16 41.64 4.58
116 118 1.376037 CCCGTCTTCAGGACTTGCC 60.376 63.158 0.00 0.00 42.44 4.52
119 121 1.371558 GTCTTCAGGACTTGCCCGT 59.628 57.895 0.00 0.00 41.46 5.28
126 128 0.035458 AGGACTTGCCCGTCTTCTTG 59.965 55.000 2.99 0.00 37.37 3.02
149 151 0.908910 ACGCCATGGTCCACAAGATA 59.091 50.000 14.67 0.00 0.00 1.98
166 168 4.873746 AGATATGTATCACAACTCCCGG 57.126 45.455 0.00 0.00 35.17 5.73
188 190 1.715785 CCTCCTCCATCTCCCTCTTC 58.284 60.000 0.00 0.00 0.00 2.87
213 215 6.385033 CATCCTTTCTTTGTCAACCTGATTC 58.615 40.000 0.00 0.00 0.00 2.52
239 241 1.954362 ATTCTCGCTCGCTTGAGGCT 61.954 55.000 0.00 0.00 40.26 4.58
272 274 5.237344 AGCGGATTCTTTCAGGATTTTATCG 59.763 40.000 0.00 0.00 0.00 2.92
273 275 5.236478 GCGGATTCTTTCAGGATTTTATCGA 59.764 40.000 0.00 0.00 0.00 3.59
274 276 6.564873 GCGGATTCTTTCAGGATTTTATCGAG 60.565 42.308 0.00 0.00 0.00 4.04
275 277 6.564873 CGGATTCTTTCAGGATTTTATCGAGC 60.565 42.308 0.00 0.00 0.00 5.03
277 279 5.097742 TCTTTCAGGATTTTATCGAGCCA 57.902 39.130 0.00 0.00 0.00 4.75
286 288 2.418368 TTATCGAGCCATGCAAGGTT 57.582 45.000 10.15 2.77 0.00 3.50
289 291 1.737838 TCGAGCCATGCAAGGTTTAG 58.262 50.000 10.15 2.58 0.00 1.85
300 302 5.906113 TGCAAGGTTTAGAAAGAACACAA 57.094 34.783 0.00 0.00 0.00 3.33
318 320 5.481105 ACACAACATGCCCATAAAATGAAG 58.519 37.500 0.00 0.00 0.00 3.02
323 325 6.549433 ACATGCCCATAAAATGAAGAACAT 57.451 33.333 0.00 0.00 41.45 2.71
324 326 6.576185 ACATGCCCATAAAATGAAGAACATC 58.424 36.000 0.00 0.00 38.38 3.06
337 343 3.642778 AACATCGCCCGTCCGACAG 62.643 63.158 0.00 0.00 40.40 3.51
363 370 5.888105 AGAGCAACAAAGAATCATATGTGC 58.112 37.500 1.90 1.95 0.00 4.57
378 385 6.685657 TCATATGTGCATTAACAAGCAAACA 58.314 32.000 1.90 0.00 43.20 2.83
392 399 5.971202 ACAAGCAAACAAATAAACGACAGAG 59.029 36.000 0.00 0.00 0.00 3.35
659 679 2.817423 GCCTGCTCGCATCTTTCCG 61.817 63.158 0.00 0.00 0.00 4.30
666 686 0.173481 TCGCATCTTTCCGGACAGAG 59.827 55.000 23.79 16.57 0.00 3.35
691 711 0.105964 GCAAGGAAAAACACCCCACC 59.894 55.000 0.00 0.00 0.00 4.61
692 712 0.756294 CAAGGAAAAACACCCCACCC 59.244 55.000 0.00 0.00 0.00 4.61
693 713 0.340208 AAGGAAAAACACCCCACCCA 59.660 50.000 0.00 0.00 0.00 4.51
694 714 0.397957 AGGAAAAACACCCCACCCAC 60.398 55.000 0.00 0.00 0.00 4.61
695 715 0.397957 GGAAAAACACCCCACCCACT 60.398 55.000 0.00 0.00 0.00 4.00
696 716 1.491668 GAAAAACACCCCACCCACTT 58.508 50.000 0.00 0.00 0.00 3.16
697 717 1.411246 GAAAAACACCCCACCCACTTC 59.589 52.381 0.00 0.00 0.00 3.01
698 718 0.397957 AAAACACCCCACCCACTTCC 60.398 55.000 0.00 0.00 0.00 3.46
699 719 2.306715 AAACACCCCACCCACTTCCC 62.307 60.000 0.00 0.00 0.00 3.97
700 720 3.979497 CACCCCACCCACTTCCCC 61.979 72.222 0.00 0.00 0.00 4.81
703 723 3.339093 CCCACCCACTTCCCCCTC 61.339 72.222 0.00 0.00 0.00 4.30
704 724 3.339093 CCACCCACTTCCCCCTCC 61.339 72.222 0.00 0.00 0.00 4.30
705 725 2.531685 CACCCACTTCCCCCTCCA 60.532 66.667 0.00 0.00 0.00 3.86
706 726 1.930656 CACCCACTTCCCCCTCCAT 60.931 63.158 0.00 0.00 0.00 3.41
707 727 1.151361 ACCCACTTCCCCCTCCATT 60.151 57.895 0.00 0.00 0.00 3.16
708 728 0.122435 ACCCACTTCCCCCTCCATTA 59.878 55.000 0.00 0.00 0.00 1.90
709 729 0.846693 CCCACTTCCCCCTCCATTAG 59.153 60.000 0.00 0.00 0.00 1.73
710 730 0.183731 CCACTTCCCCCTCCATTAGC 59.816 60.000 0.00 0.00 0.00 3.09
711 731 0.918983 CACTTCCCCCTCCATTAGCA 59.081 55.000 0.00 0.00 0.00 3.49
712 732 0.919710 ACTTCCCCCTCCATTAGCAC 59.080 55.000 0.00 0.00 0.00 4.40
713 733 0.183731 CTTCCCCCTCCATTAGCACC 59.816 60.000 0.00 0.00 0.00 5.01
714 734 1.286305 TTCCCCCTCCATTAGCACCC 61.286 60.000 0.00 0.00 0.00 4.61
715 735 2.768022 CCCCCTCCATTAGCACCCC 61.768 68.421 0.00 0.00 0.00 4.95
716 736 1.697754 CCCCTCCATTAGCACCCCT 60.698 63.158 0.00 0.00 0.00 4.79
717 737 1.709994 CCCCTCCATTAGCACCCCTC 61.710 65.000 0.00 0.00 0.00 4.30
718 738 0.988145 CCCTCCATTAGCACCCCTCA 60.988 60.000 0.00 0.00 0.00 3.86
719 739 0.918983 CCTCCATTAGCACCCCTCAA 59.081 55.000 0.00 0.00 0.00 3.02
720 740 1.284785 CCTCCATTAGCACCCCTCAAA 59.715 52.381 0.00 0.00 0.00 2.69
721 741 2.291540 CCTCCATTAGCACCCCTCAAAA 60.292 50.000 0.00 0.00 0.00 2.44
722 742 3.430453 CTCCATTAGCACCCCTCAAAAA 58.570 45.455 0.00 0.00 0.00 1.94
743 763 3.923273 AAAACTTCCCCCTCCATTTCT 57.077 42.857 0.00 0.00 0.00 2.52
744 764 3.458044 AAACTTCCCCCTCCATTTCTC 57.542 47.619 0.00 0.00 0.00 2.87
745 765 2.059756 ACTTCCCCCTCCATTTCTCA 57.940 50.000 0.00 0.00 0.00 3.27
746 766 2.358258 ACTTCCCCCTCCATTTCTCAA 58.642 47.619 0.00 0.00 0.00 3.02
747 767 2.721906 ACTTCCCCCTCCATTTCTCAAA 59.278 45.455 0.00 0.00 0.00 2.69
748 768 3.142028 ACTTCCCCCTCCATTTCTCAAAA 59.858 43.478 0.00 0.00 0.00 2.44
749 769 3.913370 TCCCCCTCCATTTCTCAAAAA 57.087 42.857 0.00 0.00 0.00 1.94
802 834 1.318158 GGCGAACGAGGAACCCTAGA 61.318 60.000 0.00 0.00 31.76 2.43
807 839 2.404995 CGAGGAACCCTAGACGCGT 61.405 63.158 13.85 13.85 31.76 6.01
820 852 0.038526 GACGCGTGAGGAAGAAGGAA 60.039 55.000 20.70 0.00 0.00 3.36
823 855 0.038526 GCGTGAGGAAGAAGGAACGA 60.039 55.000 0.00 0.00 33.03 3.85
832 864 0.818296 AGAAGGAACGACCAGATCCG 59.182 55.000 0.00 0.00 45.49 4.18
834 866 2.558554 AAGGAACGACCAGATCCGCG 62.559 60.000 0.00 0.00 45.49 6.46
854 886 0.250597 AGGTACGCTCACCAAAACCC 60.251 55.000 6.39 0.00 41.40 4.11
867 899 2.235016 CAAAACCCACCGAAATCTCCA 58.765 47.619 0.00 0.00 0.00 3.86
868 900 2.825532 CAAAACCCACCGAAATCTCCAT 59.174 45.455 0.00 0.00 0.00 3.41
879 911 0.333993 AATCTCCATGGCTGCAACCT 59.666 50.000 6.96 0.00 0.00 3.50
884 916 0.681887 CCATGGCTGCAACCTGATCA 60.682 55.000 7.82 0.00 0.00 2.92
901 933 0.737804 TCAATGGTGTGTGTGTGTGC 59.262 50.000 0.00 0.00 0.00 4.57
973 1023 2.118403 TGTCATCCTAATCCCTCCCC 57.882 55.000 0.00 0.00 0.00 4.81
1338 1425 3.645884 GCCGCTTGCAAATCATATCATT 58.354 40.909 0.00 0.00 40.77 2.57
1358 1449 3.517296 TTGCCAACCTTATTGTCCTGA 57.483 42.857 0.00 0.00 0.00 3.86
1467 1572 2.686816 CCGCCCCGTGATGTTTGTC 61.687 63.158 0.00 0.00 0.00 3.18
1478 1587 4.351192 GTGATGTTTGTCTCAAAAACGCT 58.649 39.130 0.00 0.00 39.81 5.07
1716 1920 1.418334 AGGAGGCATTCTATGACGCT 58.582 50.000 0.00 0.00 45.18 5.07
1813 2020 0.321919 TTCTGCTCTTTCTGCGCCAT 60.322 50.000 4.18 0.00 0.00 4.40
1830 2037 1.000955 CCATGGACCGGCTATGAGTAC 59.999 57.143 18.93 0.00 37.65 2.73
1875 2082 5.373812 TCTTCCTCAGTTTCCTCTTTGTT 57.626 39.130 0.00 0.00 0.00 2.83
1890 2097 9.567776 TTCCTCTTTGTTTGACATGAGTTTATA 57.432 29.630 0.00 0.00 31.57 0.98
2047 2254 1.078918 TCAGCAGCATGAAGACCGG 60.079 57.895 0.00 0.00 39.69 5.28
2115 2322 0.038166 ACAAGCCCAACATGGATCGT 59.962 50.000 0.00 0.00 40.96 3.73
2144 2351 6.128336 CCAGCTTGTTCTTCAGTCTCTAATTG 60.128 42.308 0.00 0.00 0.00 2.32
2154 2361 4.040339 TCAGTCTCTAATTGTCACCTGCAA 59.960 41.667 0.00 0.00 0.00 4.08
2200 2407 0.812014 TTGTGATGGTGCGTGACGTT 60.812 50.000 6.91 0.00 0.00 3.99
2293 2505 2.882137 GTTGCTGGTGTTACTGCCTTAA 59.118 45.455 0.00 0.00 34.81 1.85
2297 2509 4.022416 TGCTGGTGTTACTGCCTTAATTTG 60.022 41.667 0.00 0.00 34.81 2.32
2319 2531 4.103153 TGGTAGAGGATCACATTCCAATCC 59.897 45.833 0.00 0.00 38.32 3.01
2345 2557 9.179909 CTGTTAGAAGGTTGAGTATCTCTAAGA 57.820 37.037 0.00 0.00 34.92 2.10
2387 2599 3.505293 TGCGATCCATTCATTTTGTGACA 59.495 39.130 0.00 0.00 36.32 3.58
2408 2620 2.245287 ACCCCCTGTTTGTTTTACTGGA 59.755 45.455 0.00 0.00 36.91 3.86
2410 2622 3.320826 CCCCCTGTTTGTTTTACTGGAAG 59.679 47.826 0.00 0.00 36.91 3.46
2447 2665 1.696097 GCCTTGGAAGGGGCGATCTA 61.696 60.000 7.54 0.00 46.56 1.98
2451 2669 2.217745 GGAAGGGGCGATCTAGGGG 61.218 68.421 0.00 0.00 0.00 4.79
2461 2679 2.355818 GCGATCTAGGGGTTGGTTTTCT 60.356 50.000 0.00 0.00 0.00 2.52
2526 2744 4.632327 TTGGGGATTTGGTTTTCAATCC 57.368 40.909 2.76 2.76 34.98 3.01
2532 2750 5.128008 GGGATTTGGTTTTCAATCCGGATTA 59.872 40.000 28.76 12.54 35.63 1.75
2545 2763 6.658816 TCAATCCGGATTATGTGATTTATGGG 59.341 38.462 28.76 11.63 0.00 4.00
2580 2799 4.125124 TGGAGATTTGGGATTTGGTTCA 57.875 40.909 0.00 0.00 0.00 3.18
2604 2825 7.977293 TCAGCAATCAGGATTTTGTGATTTATG 59.023 33.333 0.00 0.00 40.64 1.90
2621 2842 9.167311 GTGATTTATGTGGAAGATTGTAAGACT 57.833 33.333 0.00 0.00 0.00 3.24
2628 2849 4.019321 TGGAAGATTGTAAGACTTGGGAGG 60.019 45.833 0.00 0.00 0.00 4.30
2635 2856 0.402861 AAGACTTGGGAGGTTGGGGA 60.403 55.000 0.00 0.00 0.00 4.81
2642 2863 0.324368 GGGAGGTTGGGGATTTGGTC 60.324 60.000 0.00 0.00 0.00 4.02
2647 2868 1.893137 GGTTGGGGATTTGGTCTTCAC 59.107 52.381 0.00 0.00 0.00 3.18
2649 2870 1.455822 TGGGGATTTGGTCTTCACCT 58.544 50.000 0.00 0.00 44.17 4.00
2737 2959 0.317938 GTAGGACGAGCTACATGGCG 60.318 60.000 0.00 0.00 37.29 5.69
2760 2982 3.074412 CCCATATCATAACCGTCCAAGC 58.926 50.000 0.00 0.00 0.00 4.01
2769 2991 0.468226 ACCGTCCAAGCTGAACTCAA 59.532 50.000 0.00 0.00 0.00 3.02
2786 3008 5.509716 ACTCAAATGCATGTGGATATGTG 57.490 39.130 16.95 3.98 0.00 3.21
2804 3026 9.559958 GGATATGTGTACAGATTTGAAAAACTG 57.440 33.333 11.18 10.48 42.43 3.16
2806 3028 6.201226 TGTGTACAGATTTGAAAAACTGCA 57.799 33.333 11.62 0.00 41.01 4.41
2809 3031 4.660789 ACAGATTTGAAAAACTGCAGCT 57.339 36.364 15.27 0.00 41.01 4.24
2811 3033 3.183775 CAGATTTGAAAAACTGCAGCTGC 59.816 43.478 31.89 31.89 42.50 5.25
2826 3048 1.060937 CTGCAATAACTGACGCCGC 59.939 57.895 0.00 0.00 0.00 6.53
2850 3072 2.159881 CGTGTTTAAACGCTCTAGCACC 60.160 50.000 24.99 0.00 42.21 5.01
2879 3101 4.189639 AGGTAACGTTGTGGAATCTCTC 57.810 45.455 11.99 0.00 46.39 3.20
2891 3113 2.423892 GGAATCTCTCTGCTACGTCACA 59.576 50.000 0.00 0.00 0.00 3.58
2902 3124 2.516923 CTACGTCACAGACCGATTGAC 58.483 52.381 0.00 0.00 36.99 3.18
2945 3167 2.237066 GCAAACAAGGCAACGCACC 61.237 57.895 0.00 0.00 46.39 5.01
2954 3176 1.008538 GCAACGCACCACCTTTCTG 60.009 57.895 0.00 0.00 0.00 3.02
2957 3179 2.594303 CGCACCACCTTTCTGGCA 60.594 61.111 0.00 0.00 40.22 4.92
2958 3180 2.908073 CGCACCACCTTTCTGGCAC 61.908 63.158 0.00 0.00 40.22 5.01
2960 3182 1.181098 GCACCACCTTTCTGGCACAT 61.181 55.000 0.00 0.00 38.20 3.21
2961 3183 1.886222 GCACCACCTTTCTGGCACATA 60.886 52.381 0.00 0.00 38.20 2.29
2962 3184 2.726821 CACCACCTTTCTGGCACATAT 58.273 47.619 0.00 0.00 38.20 1.78
2963 3185 3.091545 CACCACCTTTCTGGCACATATT 58.908 45.455 0.00 0.00 38.20 1.28
2964 3186 3.511146 CACCACCTTTCTGGCACATATTT 59.489 43.478 0.00 0.00 38.20 1.40
2967 3189 5.170748 CCACCTTTCTGGCACATATTTTTC 58.829 41.667 0.00 0.00 38.20 2.29
2969 3191 6.152661 CCACCTTTCTGGCACATATTTTTCTA 59.847 38.462 0.00 0.00 38.20 2.10
2972 3194 8.253113 ACCTTTCTGGCACATATTTTTCTATTG 58.747 33.333 0.00 0.00 38.20 1.90
2976 3198 7.988737 TCTGGCACATATTTTTCTATTGACAG 58.011 34.615 0.00 0.00 38.20 3.51
2981 3203 7.864379 GCACATATTTTTCTATTGACAGGATGG 59.136 37.037 0.00 0.00 43.62 3.51
3004 3226 5.509840 GGGTACAGCCATACATCTAACTCTG 60.510 48.000 0.00 0.00 39.65 3.35
3005 3227 5.069251 GGTACAGCCATACATCTAACTCTGT 59.931 44.000 0.00 0.00 37.34 3.41
3006 3228 5.683876 ACAGCCATACATCTAACTCTGTT 57.316 39.130 0.00 0.00 30.30 3.16
3007 3229 6.054860 ACAGCCATACATCTAACTCTGTTT 57.945 37.500 0.00 0.00 30.30 2.83
3008 3230 6.109359 ACAGCCATACATCTAACTCTGTTTC 58.891 40.000 0.00 0.00 30.30 2.78
3011 3233 7.119699 CAGCCATACATCTAACTCTGTTTCAAA 59.880 37.037 0.00 0.00 0.00 2.69
3012 3234 7.831193 AGCCATACATCTAACTCTGTTTCAAAT 59.169 33.333 0.00 0.00 0.00 2.32
3013 3235 9.109393 GCCATACATCTAACTCTGTTTCAAATA 57.891 33.333 0.00 0.00 0.00 1.40
3023 3245 8.986477 AACTCTGTTTCAAATAATAATGTGGC 57.014 30.769 0.00 0.00 0.00 5.01
3024 3246 8.121305 ACTCTGTTTCAAATAATAATGTGGCA 57.879 30.769 0.00 0.00 0.00 4.92
3025 3247 8.246180 ACTCTGTTTCAAATAATAATGTGGCAG 58.754 33.333 0.00 0.00 0.00 4.85
3027 3249 6.638610 TGTTTCAAATAATAATGTGGCAGGG 58.361 36.000 0.00 0.00 0.00 4.45
3031 3253 7.759489 TCAAATAATAATGTGGCAGGGATAC 57.241 36.000 0.00 0.00 0.00 2.24
3033 3255 7.665559 TCAAATAATAATGTGGCAGGGATACTC 59.334 37.037 0.00 0.00 0.00 2.59
3034 3256 6.702449 ATAATAATGTGGCAGGGATACTCA 57.298 37.500 0.00 0.00 0.00 3.41
3035 3257 2.717639 AATGTGGCAGGGATACTCAC 57.282 50.000 0.00 0.00 0.00 3.51
3039 3261 0.042581 TGGCAGGGATACTCACCTCA 59.957 55.000 0.00 0.00 34.05 3.86
3040 3262 0.755686 GGCAGGGATACTCACCTCAG 59.244 60.000 0.00 0.00 34.05 3.35
3041 3263 0.755686 GCAGGGATACTCACCTCAGG 59.244 60.000 0.00 0.00 34.05 3.86
3042 3264 1.689575 GCAGGGATACTCACCTCAGGA 60.690 57.143 0.00 0.00 34.05 3.86
3044 3266 3.312890 CAGGGATACTCACCTCAGGATT 58.687 50.000 0.00 0.00 34.05 3.01
3045 3267 3.713764 CAGGGATACTCACCTCAGGATTT 59.286 47.826 0.00 0.00 34.05 2.17
3046 3268 3.970640 AGGGATACTCACCTCAGGATTTC 59.029 47.826 0.00 0.00 28.88 2.17
3047 3269 3.970640 GGGATACTCACCTCAGGATTTCT 59.029 47.826 0.00 0.00 0.00 2.52
3048 3270 4.202305 GGGATACTCACCTCAGGATTTCTG 60.202 50.000 0.00 0.00 44.68 3.02
3049 3271 2.777832 ACTCACCTCAGGATTTCTGC 57.222 50.000 0.00 0.00 43.06 4.26
3050 3272 1.980765 ACTCACCTCAGGATTTCTGCA 59.019 47.619 0.00 0.00 43.06 4.41
3051 3273 2.027377 ACTCACCTCAGGATTTCTGCAG 60.027 50.000 7.63 7.63 43.06 4.41
3052 3274 1.980765 TCACCTCAGGATTTCTGCAGT 59.019 47.619 14.67 0.00 43.06 4.40
3054 3276 3.776969 TCACCTCAGGATTTCTGCAGTAT 59.223 43.478 14.67 8.68 43.06 2.12
3055 3277 4.225942 TCACCTCAGGATTTCTGCAGTATT 59.774 41.667 14.67 0.00 43.06 1.89
3056 3278 5.425217 TCACCTCAGGATTTCTGCAGTATTA 59.575 40.000 14.67 0.00 43.06 0.98
3057 3279 6.070251 TCACCTCAGGATTTCTGCAGTATTAA 60.070 38.462 14.67 4.81 43.06 1.40
3058 3280 6.599244 CACCTCAGGATTTCTGCAGTATTAAA 59.401 38.462 14.67 7.20 43.06 1.52
3061 3283 8.186821 CCTCAGGATTTCTGCAGTATTAAAAAG 58.813 37.037 14.67 4.91 43.06 2.27
3065 3374 9.920946 AGGATTTCTGCAGTATTAAAAAGGATA 57.079 29.630 14.67 0.00 0.00 2.59
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 1.131504 TCGTTGGATGTTAATTGCCGC 59.868 47.619 0.00 0.00 0.00 6.53
1 2 2.780993 GTCGTTGGATGTTAATTGCCG 58.219 47.619 0.00 0.00 0.00 5.69
2 3 2.477189 CCGTCGTTGGATGTTAATTGCC 60.477 50.000 0.00 0.00 0.00 4.52
3 4 2.780993 CCGTCGTTGGATGTTAATTGC 58.219 47.619 0.00 0.00 0.00 3.56
4 5 2.780993 GCCGTCGTTGGATGTTAATTG 58.219 47.619 0.00 0.00 0.00 2.32
8 9 0.173935 ATCGCCGTCGTTGGATGTTA 59.826 50.000 0.00 0.00 36.96 2.41
12 13 2.890474 GCATCGCCGTCGTTGGAT 60.890 61.111 0.00 0.00 36.29 3.41
27 28 4.257654 TCTTCCAAACCCCGCGCA 62.258 61.111 8.75 0.00 0.00 6.09
94 96 2.572284 GTCCTGAAGACGGGGTCG 59.428 66.667 0.00 0.00 42.48 4.79
119 121 1.202758 ACCATGGCGTGTTCAAGAAGA 60.203 47.619 13.04 0.00 0.00 2.87
126 128 1.169661 TTGTGGACCATGGCGTGTTC 61.170 55.000 13.04 0.42 0.00 3.18
149 151 1.485066 GGACCGGGAGTTGTGATACAT 59.515 52.381 6.32 0.00 0.00 2.29
166 168 0.471022 GAGGGAGATGGAGGAGGGAC 60.471 65.000 0.00 0.00 0.00 4.46
188 190 4.144297 TCAGGTTGACAAAGAAAGGATGG 58.856 43.478 0.00 0.00 0.00 3.51
213 215 3.096461 CAAGCGAGCGAGAATGAATTTG 58.904 45.455 0.00 0.00 0.00 2.32
239 241 5.181245 CCTGAAAGAATCCGCTACTTTTTCA 59.819 40.000 0.00 0.00 34.07 2.69
272 274 3.758554 TCTTTCTAAACCTTGCATGGCTC 59.241 43.478 18.17 0.00 0.00 4.70
273 275 3.766545 TCTTTCTAAACCTTGCATGGCT 58.233 40.909 18.17 3.40 0.00 4.75
274 276 4.237724 GTTCTTTCTAAACCTTGCATGGC 58.762 43.478 18.17 0.00 0.00 4.40
275 277 5.221224 TGTGTTCTTTCTAAACCTTGCATGG 60.221 40.000 16.76 16.76 0.00 3.66
277 279 6.127479 TGTTGTGTTCTTTCTAAACCTTGCAT 60.127 34.615 0.00 0.00 0.00 3.96
286 288 4.211125 TGGGCATGTTGTGTTCTTTCTAA 58.789 39.130 0.00 0.00 0.00 2.10
289 291 3.665745 ATGGGCATGTTGTGTTCTTTC 57.334 42.857 0.00 0.00 0.00 2.62
300 302 5.999205 TGTTCTTCATTTTATGGGCATGT 57.001 34.783 0.00 0.00 0.00 3.21
318 320 2.884207 GTCGGACGGGCGATGTTC 60.884 66.667 0.00 0.00 0.00 3.18
323 325 2.124612 TATCTGTCGGACGGGCGA 60.125 61.111 16.54 4.67 0.00 5.54
324 326 2.119147 CTCTATCTGTCGGACGGGCG 62.119 65.000 16.54 6.03 0.00 6.13
337 343 7.802251 GCACATATGATTCTTTGTTGCTCTATC 59.198 37.037 10.38 0.00 0.00 2.08
363 370 8.535592 TGTCGTTTATTTGTTTGCTTGTTAATG 58.464 29.630 0.00 0.00 0.00 1.90
378 385 6.535508 GCCATCTACTTCTCTGTCGTTTATTT 59.464 38.462 0.00 0.00 0.00 1.40
392 399 0.654683 CTTGCTGCGCCATCTACTTC 59.345 55.000 4.18 0.00 0.00 3.01
411 418 1.927174 CACTAGAAGCATACACACGCC 59.073 52.381 0.00 0.00 0.00 5.68
415 422 4.456566 TCGTGTACACTAGAAGCATACACA 59.543 41.667 23.01 9.08 43.72 3.72
417 424 5.124936 ACATCGTGTACACTAGAAGCATACA 59.875 40.000 23.01 0.00 0.00 2.29
576 592 1.145119 AGGCCCGGTTCTTTCTTTCTT 59.855 47.619 0.00 0.00 0.00 2.52
659 679 3.184683 CTTGCGCTCGCTCTGTCC 61.185 66.667 9.73 0.00 42.51 4.02
666 686 1.008995 TGTTTTTCCTTGCGCTCGC 60.009 52.632 9.73 7.38 42.35 5.03
691 711 0.183731 GCTAATGGAGGGGGAAGTGG 59.816 60.000 0.00 0.00 0.00 4.00
692 712 0.918983 TGCTAATGGAGGGGGAAGTG 59.081 55.000 0.00 0.00 0.00 3.16
693 713 0.919710 GTGCTAATGGAGGGGGAAGT 59.080 55.000 0.00 0.00 0.00 3.01
694 714 0.183731 GGTGCTAATGGAGGGGGAAG 59.816 60.000 0.00 0.00 0.00 3.46
695 715 1.286305 GGGTGCTAATGGAGGGGGAA 61.286 60.000 0.00 0.00 0.00 3.97
696 716 1.696314 GGGTGCTAATGGAGGGGGA 60.696 63.158 0.00 0.00 0.00 4.81
697 717 2.768022 GGGGTGCTAATGGAGGGGG 61.768 68.421 0.00 0.00 0.00 5.40
698 718 1.697754 AGGGGTGCTAATGGAGGGG 60.698 63.158 0.00 0.00 0.00 4.79
699 719 0.988145 TGAGGGGTGCTAATGGAGGG 60.988 60.000 0.00 0.00 0.00 4.30
700 720 0.918983 TTGAGGGGTGCTAATGGAGG 59.081 55.000 0.00 0.00 0.00 4.30
701 721 2.806945 TTTGAGGGGTGCTAATGGAG 57.193 50.000 0.00 0.00 0.00 3.86
702 722 3.534357 TTTTTGAGGGGTGCTAATGGA 57.466 42.857 0.00 0.00 0.00 3.41
722 742 4.160329 GAGAAATGGAGGGGGAAGTTTTT 58.840 43.478 0.00 0.00 0.00 1.94
723 743 3.142028 TGAGAAATGGAGGGGGAAGTTTT 59.858 43.478 0.00 0.00 0.00 2.43
724 744 2.721906 TGAGAAATGGAGGGGGAAGTTT 59.278 45.455 0.00 0.00 0.00 2.66
725 745 2.358258 TGAGAAATGGAGGGGGAAGTT 58.642 47.619 0.00 0.00 0.00 2.66
726 746 2.059756 TGAGAAATGGAGGGGGAAGT 57.940 50.000 0.00 0.00 0.00 3.01
727 747 3.456380 TTTGAGAAATGGAGGGGGAAG 57.544 47.619 0.00 0.00 0.00 3.46
728 748 3.913370 TTTTGAGAAATGGAGGGGGAA 57.087 42.857 0.00 0.00 0.00 3.97
729 749 3.913370 TTTTTGAGAAATGGAGGGGGA 57.087 42.857 0.00 0.00 0.00 4.81
749 769 0.938192 TGGAGGGGGAAGTGGTTTTT 59.062 50.000 0.00 0.00 0.00 1.94
750 770 1.167033 ATGGAGGGGGAAGTGGTTTT 58.833 50.000 0.00 0.00 0.00 2.43
751 771 1.077169 GAATGGAGGGGGAAGTGGTTT 59.923 52.381 0.00 0.00 0.00 3.27
752 772 0.704664 GAATGGAGGGGGAAGTGGTT 59.295 55.000 0.00 0.00 0.00 3.67
753 773 0.178831 AGAATGGAGGGGGAAGTGGT 60.179 55.000 0.00 0.00 0.00 4.16
802 834 0.319641 GTTCCTTCTTCCTCACGCGT 60.320 55.000 5.58 5.58 0.00 6.01
807 839 1.618837 CTGGTCGTTCCTTCTTCCTCA 59.381 52.381 1.80 0.00 37.07 3.86
820 852 2.881539 TACCTCGCGGATCTGGTCGT 62.882 60.000 6.13 0.00 34.33 4.34
823 855 2.478890 CGTACCTCGCGGATCTGGT 61.479 63.158 6.13 9.85 36.66 4.00
834 866 1.154197 GGTTTTGGTGAGCGTACCTC 58.846 55.000 12.64 4.84 41.43 3.85
854 886 1.019673 CAGCCATGGAGATTTCGGTG 58.980 55.000 18.40 0.00 0.00 4.94
867 899 1.754803 CATTGATCAGGTTGCAGCCAT 59.245 47.619 22.64 7.27 0.00 4.40
868 900 1.179152 CATTGATCAGGTTGCAGCCA 58.821 50.000 22.64 1.66 0.00 4.75
879 911 2.617774 CACACACACACACCATTGATCA 59.382 45.455 0.00 0.00 0.00 2.92
884 916 1.723608 CGGCACACACACACACCATT 61.724 55.000 0.00 0.00 0.00 3.16
1023 1073 2.442272 GAGCCACCGAGCCTCCTA 60.442 66.667 0.00 0.00 0.00 2.94
1338 1425 3.153919 GTCAGGACAATAAGGTTGGCAA 58.846 45.455 0.00 0.00 0.00 4.52
1358 1449 2.368221 GGGATAAGCTGCTCAGATCAGT 59.632 50.000 1.00 0.00 34.21 3.41
1467 1572 1.196354 CAGAGCCTCAGCGTTTTTGAG 59.804 52.381 0.00 0.00 46.67 3.02
1478 1587 1.067565 CGAAGCAGTAACAGAGCCTCA 60.068 52.381 0.00 0.00 0.00 3.86
1716 1920 5.738619 TCTTAAGCTCCACATTAGACACA 57.261 39.130 0.00 0.00 0.00 3.72
1813 2020 0.107066 TCGTACTCATAGCCGGTCCA 60.107 55.000 1.90 0.00 0.00 4.02
1830 2037 9.658799 AAGAAATGGATCCAAGTGTATATATCG 57.341 33.333 20.67 0.00 0.00 2.92
1896 2103 6.841229 AGAGGTATTATGGATGACAAGTGAGA 59.159 38.462 0.00 0.00 0.00 3.27
1907 2114 5.511363 CGGGTAGAGAGAGGTATTATGGAT 58.489 45.833 0.00 0.00 0.00 3.41
1938 2145 9.202273 CAGAGCTCTTAATCCATACATCTTAAC 57.798 37.037 15.27 0.00 0.00 2.01
2047 2254 0.966920 TTCCCCTGACGTCAACTCTC 59.033 55.000 20.49 0.00 0.00 3.20
2115 2322 0.538057 CTGAAGAACAAGCTGGGGCA 60.538 55.000 0.00 0.00 41.70 5.36
2144 2351 1.202348 GGTAGCCAAATTGCAGGTGAC 59.798 52.381 0.00 0.00 0.00 3.67
2170 2377 4.273235 CGCACCATCACAAAGATAGCATAA 59.727 41.667 0.00 0.00 34.43 1.90
2293 2505 5.715439 TGGAATGTGATCCTCTACCAAAT 57.285 39.130 0.00 0.00 40.35 2.32
2297 2509 4.349342 AGGATTGGAATGTGATCCTCTACC 59.651 45.833 0.00 0.00 44.91 3.18
2319 2531 9.179909 TCTTAGAGATACTCAACCTTCTAACAG 57.820 37.037 0.00 0.00 32.06 3.16
2345 2557 3.993736 GCAAAAGGGCGTCATACAATTTT 59.006 39.130 0.00 0.00 0.00 1.82
2387 2599 2.245287 TCCAGTAAAACAAACAGGGGGT 59.755 45.455 0.00 0.00 0.00 4.95
2440 2658 2.014857 GAAAACCAACCCCTAGATCGC 58.985 52.381 0.00 0.00 0.00 4.58
2470 2688 8.616076 GTCCCACAATCTTCTATAAATCACAAG 58.384 37.037 0.00 0.00 0.00 3.16
2492 2710 0.919289 TCCCCAATCTCCCAAGTCCC 60.919 60.000 0.00 0.00 0.00 4.46
2493 2711 1.226311 ATCCCCAATCTCCCAAGTCC 58.774 55.000 0.00 0.00 0.00 3.85
2526 2744 7.391554 ACAATCTCCCATAAATCACATAATCCG 59.608 37.037 0.00 0.00 0.00 4.18
2532 2750 8.497745 AGTCTTACAATCTCCCATAAATCACAT 58.502 33.333 0.00 0.00 0.00 3.21
2545 2763 6.317391 CCCAAATCTCCAAGTCTTACAATCTC 59.683 42.308 0.00 0.00 0.00 2.75
2580 2799 7.762615 CACATAAATCACAAAATCCTGATTGCT 59.237 33.333 0.00 0.00 37.23 3.91
2604 2825 4.906618 TCCCAAGTCTTACAATCTTCCAC 58.093 43.478 0.00 0.00 0.00 4.02
2621 2842 0.116143 CCAAATCCCCAACCTCCCAA 59.884 55.000 0.00 0.00 0.00 4.12
2628 2849 1.893137 GGTGAAGACCAAATCCCCAAC 59.107 52.381 0.00 0.00 42.59 3.77
2635 2856 4.760204 CGAAAACCTAGGTGAAGACCAAAT 59.240 41.667 17.14 0.00 45.98 2.32
2642 2863 3.121738 ACCACGAAAACCTAGGTGAAG 57.878 47.619 17.14 10.11 32.23 3.02
2647 2868 6.824704 TCCATAATAAACCACGAAAACCTAGG 59.175 38.462 7.41 7.41 0.00 3.02
2649 2870 8.102047 TCTTCCATAATAAACCACGAAAACCTA 58.898 33.333 0.00 0.00 0.00 3.08
2737 2959 1.349688 TGGACGGTTATGATATGGGGC 59.650 52.381 0.00 0.00 0.00 5.80
2748 2970 1.689813 TGAGTTCAGCTTGGACGGTTA 59.310 47.619 0.00 0.00 0.00 2.85
2760 2982 4.713824 ATCCACATGCATTTGAGTTCAG 57.286 40.909 14.44 0.00 0.00 3.02
2769 2991 5.683681 TCTGTACACATATCCACATGCATT 58.316 37.500 0.00 0.00 0.00 3.56
2786 3008 5.400485 CAGCTGCAGTTTTTCAAATCTGTAC 59.600 40.000 16.64 0.00 37.79 2.90
2804 3026 0.522076 GCGTCAGTTATTGCAGCTGC 60.522 55.000 31.89 31.89 35.56 5.25
2806 3028 1.361668 CGGCGTCAGTTATTGCAGCT 61.362 55.000 0.00 0.00 32.16 4.24
2809 3031 2.395360 GGCGGCGTCAGTTATTGCA 61.395 57.895 6.63 0.00 0.00 4.08
2811 3033 2.701006 CGGCGGCGTCAGTTATTG 59.299 61.111 24.74 0.00 0.00 1.90
2812 3034 3.192922 GCGGCGGCGTCAGTTATT 61.193 61.111 32.35 0.00 0.00 1.40
2830 3052 3.064931 AGGTGCTAGAGCGTTTAAACAC 58.935 45.455 18.07 8.66 45.83 3.32
2833 3055 4.461781 AGAGTAGGTGCTAGAGCGTTTAAA 59.538 41.667 0.00 0.00 45.83 1.52
2850 3072 5.633830 TCCACAACGTTACCTTAGAGTAG 57.366 43.478 0.00 0.00 0.00 2.57
2879 3101 0.452184 ATCGGTCTGTGACGTAGCAG 59.548 55.000 11.35 11.35 32.65 4.24
2891 3113 2.159043 CCTACATGCTGTCAATCGGTCT 60.159 50.000 0.00 0.00 0.00 3.85
2902 3124 2.165167 CATTATGGGGCCTACATGCTG 58.835 52.381 19.46 13.59 0.00 4.41
2919 3141 1.631405 TGCCTTGTTTGCTAGCCATT 58.369 45.000 13.29 0.00 0.00 3.16
2924 3146 0.310543 TGCGTTGCCTTGTTTGCTAG 59.689 50.000 0.00 0.00 0.00 3.42
2945 3167 6.029346 AGAAAAATATGTGCCAGAAAGGTG 57.971 37.500 0.00 0.00 40.61 4.00
2954 3176 7.333528 TCCTGTCAATAGAAAAATATGTGCC 57.666 36.000 0.00 0.00 0.00 5.01
2957 3179 8.061304 ACCCATCCTGTCAATAGAAAAATATGT 58.939 33.333 0.00 0.00 0.00 2.29
2958 3180 8.469309 ACCCATCCTGTCAATAGAAAAATATG 57.531 34.615 0.00 0.00 0.00 1.78
2960 3182 8.553153 TGTACCCATCCTGTCAATAGAAAAATA 58.447 33.333 0.00 0.00 0.00 1.40
2961 3183 7.410174 TGTACCCATCCTGTCAATAGAAAAAT 58.590 34.615 0.00 0.00 0.00 1.82
2962 3184 6.785076 TGTACCCATCCTGTCAATAGAAAAA 58.215 36.000 0.00 0.00 0.00 1.94
2963 3185 6.381498 TGTACCCATCCTGTCAATAGAAAA 57.619 37.500 0.00 0.00 0.00 2.29
2964 3186 5.629133 GCTGTACCCATCCTGTCAATAGAAA 60.629 44.000 0.00 0.00 0.00 2.52
2967 3189 3.495100 GGCTGTACCCATCCTGTCAATAG 60.495 52.174 0.00 0.00 0.00 1.73
2969 3191 1.212935 GGCTGTACCCATCCTGTCAAT 59.787 52.381 0.00 0.00 0.00 2.57
2972 3194 0.839946 ATGGCTGTACCCATCCTGTC 59.160 55.000 0.00 0.00 41.75 3.51
2976 3198 2.639839 AGATGTATGGCTGTACCCATCC 59.360 50.000 6.90 0.00 44.30 3.51
2981 3203 5.069251 ACAGAGTTAGATGTATGGCTGTACC 59.931 44.000 0.00 0.00 33.99 3.34
3004 3226 6.872920 TCCCTGCCACATTATTATTTGAAAC 58.127 36.000 0.00 0.00 0.00 2.78
3005 3227 7.673641 ATCCCTGCCACATTATTATTTGAAA 57.326 32.000 0.00 0.00 0.00 2.69
3006 3228 8.004215 AGTATCCCTGCCACATTATTATTTGAA 58.996 33.333 0.00 0.00 0.00 2.69
3007 3229 7.526041 AGTATCCCTGCCACATTATTATTTGA 58.474 34.615 0.00 0.00 0.00 2.69
3008 3230 7.448161 TGAGTATCCCTGCCACATTATTATTTG 59.552 37.037 0.00 0.00 0.00 2.32
3011 3233 6.476378 GTGAGTATCCCTGCCACATTATTAT 58.524 40.000 0.00 0.00 0.00 1.28
3012 3234 5.221843 GGTGAGTATCCCTGCCACATTATTA 60.222 44.000 0.00 0.00 0.00 0.98
3013 3235 4.446311 GGTGAGTATCCCTGCCACATTATT 60.446 45.833 0.00 0.00 0.00 1.40
3014 3236 3.073062 GGTGAGTATCCCTGCCACATTAT 59.927 47.826 0.00 0.00 0.00 1.28
3016 3238 1.212935 GGTGAGTATCCCTGCCACATT 59.787 52.381 0.00 0.00 0.00 2.71
3017 3239 0.839946 GGTGAGTATCCCTGCCACAT 59.160 55.000 0.00 0.00 0.00 3.21
3018 3240 0.252696 AGGTGAGTATCCCTGCCACA 60.253 55.000 0.00 0.00 34.98 4.17
3019 3241 0.466124 GAGGTGAGTATCCCTGCCAC 59.534 60.000 0.00 0.00 36.17 5.01
3021 3243 0.755686 CTGAGGTGAGTATCCCTGCC 59.244 60.000 0.00 0.00 36.17 4.85
3022 3244 0.755686 CCTGAGGTGAGTATCCCTGC 59.244 60.000 0.00 0.00 36.17 4.85
3023 3245 2.461300 TCCTGAGGTGAGTATCCCTG 57.539 55.000 0.00 0.00 36.17 4.45
3024 3246 3.715648 AATCCTGAGGTGAGTATCCCT 57.284 47.619 0.00 0.00 38.30 4.20
3025 3247 3.970640 AGAAATCCTGAGGTGAGTATCCC 59.029 47.826 0.00 0.00 0.00 3.85
3027 3249 4.141846 TGCAGAAATCCTGAGGTGAGTATC 60.142 45.833 0.00 0.00 45.78 2.24
3031 3253 2.027377 ACTGCAGAAATCCTGAGGTGAG 60.027 50.000 23.35 0.00 45.78 3.51
3033 3255 2.486472 ACTGCAGAAATCCTGAGGTG 57.514 50.000 23.35 0.00 45.78 4.00
3034 3256 4.851639 AATACTGCAGAAATCCTGAGGT 57.148 40.909 23.35 0.00 45.78 3.85
3035 3257 7.630242 TTTTAATACTGCAGAAATCCTGAGG 57.370 36.000 23.35 0.00 45.78 3.86
3039 3261 8.829373 ATCCTTTTTAATACTGCAGAAATCCT 57.171 30.769 23.35 0.00 0.00 3.24
3069 3378 6.024664 CCGAAACATTTGCGTATGTCATTTA 58.975 36.000 4.23 0.00 37.76 1.40


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

AutoCloner maintained by Alex Coulton.