Multiple sequence alignment - TraesCS1A01G291800

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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 TraesCS1A01G291800 chr1A 100.000 3425 0 0 1 3425 487609893 487606469 0.000000e+00 6325.0
1 TraesCS1A01G291800 chr1A 97.162 740 20 1 1 740 110069947 110070685 0.000000e+00 1249.0
2 TraesCS1A01G291800 chr1A 76.632 291 50 11 2395 2669 485011812 485012100 9.910000e-31 145.0
3 TraesCS1A01G291800 chr1A 86.325 117 15 1 2389 2505 456372806 456372691 3.590000e-25 126.0
4 TraesCS1A01G291800 chr1A 100.000 32 0 0 2224 2255 541459030 541458999 3.690000e-05 60.2
5 TraesCS1A01G291800 chr1B 93.279 1354 78 9 1858 3204 521863773 521862426 0.000000e+00 1984.0
6 TraesCS1A01G291800 chr1B 95.027 744 31 5 1 740 554144511 554145252 0.000000e+00 1164.0
7 TraesCS1A01G291800 chr1B 87.376 1006 46 30 888 1863 521864892 521863938 0.000000e+00 1079.0
8 TraesCS1A01G291800 chr1B 93.607 219 10 2 3206 3421 521862382 521862165 1.190000e-84 324.0
9 TraesCS1A01G291800 chr5B 95.962 743 28 2 1 742 457500549 457501290 0.000000e+00 1205.0
10 TraesCS1A01G291800 chr5B 81.017 295 38 10 1860 2140 24294044 24293754 5.750000e-53 219.0
11 TraesCS1A01G291800 chr5B 98.246 57 1 0 2415 2471 688629750 688629694 2.170000e-17 100.0
12 TraesCS1A01G291800 chr3A 95.565 744 28 4 1 740 742911768 742912510 0.000000e+00 1186.0
13 TraesCS1A01G291800 chr3B 95.283 742 34 1 1 741 792182854 792182113 0.000000e+00 1175.0
14 TraesCS1A01G291800 chr2A 95.168 745 33 2 1 743 706633904 706633161 0.000000e+00 1173.0
15 TraesCS1A01G291800 chr6B 95.013 742 35 2 1 740 658972898 658972157 0.000000e+00 1164.0
16 TraesCS1A01G291800 chr6B 89.441 161 17 0 1980 2140 591849183 591849343 1.610000e-48 204.0
17 TraesCS1A01G291800 chr3D 94.892 744 35 2 1 741 2034909 2035652 0.000000e+00 1160.0
18 TraesCS1A01G291800 chr3D 96.491 57 2 0 2415 2471 234201145 234201089 1.010000e-15 95.3
19 TraesCS1A01G291800 chr3D 88.889 54 6 0 2224 2277 114878961 114878908 2.210000e-07 67.6
20 TraesCS1A01G291800 chr6A 94.879 742 36 1 1 740 464140366 464139625 0.000000e+00 1158.0
21 TraesCS1A01G291800 chr6A 96.491 57 2 0 2415 2471 53686890 53686834 1.010000e-15 95.3
22 TraesCS1A01G291800 chr1D 93.410 607 36 3 2601 3204 388605341 388604736 0.000000e+00 896.0
23 TraesCS1A01G291800 chr1D 92.806 556 36 4 1982 2535 388605909 388605356 0.000000e+00 802.0
24 TraesCS1A01G291800 chr1D 87.593 540 24 19 832 1364 388606956 388606453 1.370000e-163 586.0
25 TraesCS1A01G291800 chr1D 93.722 223 10 2 3206 3425 388604692 388604471 7.080000e-87 331.0
26 TraesCS1A01G291800 chr1D 74.406 547 82 34 2601 3127 355829621 355829113 7.550000e-42 182.0
27 TraesCS1A01G291800 chr1D 87.069 116 12 2 2389 2504 355753309 355753197 9.980000e-26 128.0
28 TraesCS1A01G291800 chr1D 94.444 54 3 0 2224 2277 445365522 445365469 2.190000e-12 84.2
29 TraesCS1A01G291800 chr7A 82.034 295 35 6 1860 2140 150152144 150151854 5.710000e-58 235.0
30 TraesCS1A01G291800 chr7A 95.652 46 2 0 1297 1342 150154168 150154123 1.320000e-09 75.0
31 TraesCS1A01G291800 chr2B 81.293 294 38 5 1860 2140 309087682 309087393 4.450000e-54 222.0
32 TraesCS1A01G291800 chr2B 97.826 46 1 0 1297 1342 287823563 287823518 2.830000e-11 80.5
33 TraesCS1A01G291800 chr4D 80.678 295 39 6 1860 2140 152204634 152204924 2.680000e-51 213.0
34 TraesCS1A01G291800 chr2D 81.588 277 34 5 1878 2140 537411539 537411812 2.680000e-51 213.0
35 TraesCS1A01G291800 chr6D 80.678 295 38 7 1860 2140 460927767 460928056 9.630000e-51 211.0
36 TraesCS1A01G291800 chr5A 98.246 57 1 0 2415 2471 380562289 380562233 2.170000e-17 100.0
37 TraesCS1A01G291800 chr4B 97.826 46 1 0 1297 1342 589771928 589771973 2.830000e-11 80.5


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 TraesCS1A01G291800 chr1A 487606469 487609893 3424 True 6325.00 6325 100.000000 1 3425 1 chr1A.!!$R2 3424
1 TraesCS1A01G291800 chr1A 110069947 110070685 738 False 1249.00 1249 97.162000 1 740 1 chr1A.!!$F1 739
2 TraesCS1A01G291800 chr1B 554144511 554145252 741 False 1164.00 1164 95.027000 1 740 1 chr1B.!!$F1 739
3 TraesCS1A01G291800 chr1B 521862165 521864892 2727 True 1129.00 1984 91.420667 888 3421 3 chr1B.!!$R1 2533
4 TraesCS1A01G291800 chr5B 457500549 457501290 741 False 1205.00 1205 95.962000 1 742 1 chr5B.!!$F1 741
5 TraesCS1A01G291800 chr3A 742911768 742912510 742 False 1186.00 1186 95.565000 1 740 1 chr3A.!!$F1 739
6 TraesCS1A01G291800 chr3B 792182113 792182854 741 True 1175.00 1175 95.283000 1 741 1 chr3B.!!$R1 740
7 TraesCS1A01G291800 chr2A 706633161 706633904 743 True 1173.00 1173 95.168000 1 743 1 chr2A.!!$R1 742
8 TraesCS1A01G291800 chr6B 658972157 658972898 741 True 1164.00 1164 95.013000 1 740 1 chr6B.!!$R1 739
9 TraesCS1A01G291800 chr3D 2034909 2035652 743 False 1160.00 1160 94.892000 1 741 1 chr3D.!!$F1 740
10 TraesCS1A01G291800 chr6A 464139625 464140366 741 True 1158.00 1158 94.879000 1 740 1 chr6A.!!$R2 739
11 TraesCS1A01G291800 chr1D 388604471 388606956 2485 True 653.75 896 91.882750 832 3425 4 chr1D.!!$R4 2593

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
819 830 0.036765 ACAACATACCGCGTGTGGAT 60.037 50.0 9.48 0.0 0.0 3.41 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2806 3085 0.105224 TTTCTCTTCGACGCCAACCA 59.895 50.0 0.0 0.0 0.0 3.67 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
361 371 8.960591 AGTTTTAGCAACATATCTGCACTATTT 58.039 29.630 8.62 0.00 42.48 1.40
379 389 8.424133 GCACTATTTTCCTCATATTTTTCCCAT 58.576 33.333 0.00 0.00 0.00 4.00
571 581 4.373156 ACCATGTACTTTCTTGGCTCTT 57.627 40.909 0.00 0.00 36.49 2.85
629 639 2.366533 TGTGTTTACTTGACCGCCAAA 58.633 42.857 0.00 0.00 33.76 3.28
632 642 2.952978 TGTTTACTTGACCGCCAAACAT 59.047 40.909 0.00 0.00 34.97 2.71
743 754 9.974980 TTCTTTACTTTTCACTCAAAACAAAGT 57.025 25.926 0.00 0.00 40.12 2.66
744 755 9.620660 TCTTTACTTTTCACTCAAAACAAAGTC 57.379 29.630 0.00 0.00 38.38 3.01
745 756 8.442605 TTTACTTTTCACTCAAAACAAAGTCG 57.557 30.769 0.00 0.00 38.38 4.18
746 757 6.249035 ACTTTTCACTCAAAACAAAGTCGA 57.751 33.333 0.00 0.00 33.36 4.20
747 758 6.852664 ACTTTTCACTCAAAACAAAGTCGAT 58.147 32.000 0.00 0.00 33.36 3.59
748 759 7.981142 ACTTTTCACTCAAAACAAAGTCGATA 58.019 30.769 0.00 0.00 33.36 2.92
749 760 8.122952 ACTTTTCACTCAAAACAAAGTCGATAG 58.877 33.333 0.00 0.00 33.36 2.08
750 761 5.591643 TCACTCAAAACAAAGTCGATAGC 57.408 39.130 0.00 0.00 0.00 2.97
751 762 4.149922 TCACTCAAAACAAAGTCGATAGCG 59.850 41.667 0.00 0.00 39.35 4.26
752 763 3.432252 ACTCAAAACAAAGTCGATAGCGG 59.568 43.478 0.00 0.00 38.28 5.52
753 764 3.395639 TCAAAACAAAGTCGATAGCGGT 58.604 40.909 0.00 0.00 38.28 5.68
754 765 3.185594 TCAAAACAAAGTCGATAGCGGTG 59.814 43.478 0.00 0.00 38.28 4.94
755 766 1.076332 AACAAAGTCGATAGCGGTGC 58.924 50.000 0.00 0.00 38.28 5.01
756 767 0.246635 ACAAAGTCGATAGCGGTGCT 59.753 50.000 0.00 0.00 43.41 4.40
757 768 1.475280 ACAAAGTCGATAGCGGTGCTA 59.525 47.619 0.00 0.38 45.55 3.49
758 769 2.120232 CAAAGTCGATAGCGGTGCTAG 58.880 52.381 0.00 0.00 44.66 3.42
759 770 1.390565 AAGTCGATAGCGGTGCTAGT 58.609 50.000 0.00 0.00 44.66 2.57
760 771 1.390565 AGTCGATAGCGGTGCTAGTT 58.609 50.000 0.00 0.00 44.66 2.24
761 772 1.749634 AGTCGATAGCGGTGCTAGTTT 59.250 47.619 0.00 0.00 44.66 2.66
762 773 2.117910 GTCGATAGCGGTGCTAGTTTC 58.882 52.381 0.00 0.00 44.66 2.78
763 774 2.022195 TCGATAGCGGTGCTAGTTTCT 58.978 47.619 0.00 0.00 44.66 2.52
764 775 2.033049 TCGATAGCGGTGCTAGTTTCTC 59.967 50.000 0.00 0.00 44.66 2.87
765 776 2.033550 CGATAGCGGTGCTAGTTTCTCT 59.966 50.000 0.00 0.00 44.66 3.10
766 777 2.941453 TAGCGGTGCTAGTTTCTCTG 57.059 50.000 0.00 0.00 40.44 3.35
767 778 1.257743 AGCGGTGCTAGTTTCTCTGA 58.742 50.000 0.00 0.00 36.99 3.27
768 779 1.618837 AGCGGTGCTAGTTTCTCTGAA 59.381 47.619 0.00 0.00 36.99 3.02
769 780 1.996191 GCGGTGCTAGTTTCTCTGAAG 59.004 52.381 0.00 0.00 0.00 3.02
770 781 1.996191 CGGTGCTAGTTTCTCTGAAGC 59.004 52.381 0.00 0.00 0.00 3.86
771 782 2.610479 CGGTGCTAGTTTCTCTGAAGCA 60.610 50.000 0.00 0.00 40.68 3.91
772 783 3.604582 GGTGCTAGTTTCTCTGAAGCAT 58.395 45.455 3.11 0.00 44.30 3.79
773 784 3.620821 GGTGCTAGTTTCTCTGAAGCATC 59.379 47.826 3.11 0.00 44.30 3.91
774 785 4.248859 GTGCTAGTTTCTCTGAAGCATCA 58.751 43.478 3.11 0.00 44.30 3.07
775 786 4.092675 GTGCTAGTTTCTCTGAAGCATCAC 59.907 45.833 3.11 0.00 44.30 3.06
776 787 4.020751 TGCTAGTTTCTCTGAAGCATCACT 60.021 41.667 0.00 0.00 38.22 3.41
777 788 4.566360 GCTAGTTTCTCTGAAGCATCACTC 59.434 45.833 0.00 0.00 33.38 3.51
778 789 4.613925 AGTTTCTCTGAAGCATCACTCA 57.386 40.909 0.00 0.00 0.00 3.41
779 790 4.965814 AGTTTCTCTGAAGCATCACTCAA 58.034 39.130 0.00 0.00 0.00 3.02
780 791 5.371526 AGTTTCTCTGAAGCATCACTCAAA 58.628 37.500 0.00 0.00 0.00 2.69
781 792 5.824624 AGTTTCTCTGAAGCATCACTCAAAA 59.175 36.000 0.00 0.00 0.00 2.44
782 793 6.319658 AGTTTCTCTGAAGCATCACTCAAAAA 59.680 34.615 0.00 0.00 0.00 1.94
799 810 2.044452 AAAAACAGAGCCCAGCAGC 58.956 52.632 0.00 0.00 0.00 5.25
800 811 0.756442 AAAAACAGAGCCCAGCAGCA 60.756 50.000 0.00 0.00 34.23 4.41
801 812 1.458639 AAAACAGAGCCCAGCAGCAC 61.459 55.000 0.00 0.00 34.23 4.40
802 813 2.629424 AAACAGAGCCCAGCAGCACA 62.629 55.000 0.00 0.00 34.23 4.57
803 814 2.281970 CAGAGCCCAGCAGCACAA 60.282 61.111 0.00 0.00 34.23 3.33
804 815 2.282040 AGAGCCCAGCAGCACAAC 60.282 61.111 0.00 0.00 34.23 3.32
805 816 2.595463 GAGCCCAGCAGCACAACA 60.595 61.111 0.00 0.00 34.23 3.33
806 817 1.975407 GAGCCCAGCAGCACAACAT 60.975 57.895 0.00 0.00 34.23 2.71
807 818 0.677731 GAGCCCAGCAGCACAACATA 60.678 55.000 0.00 0.00 34.23 2.29
808 819 0.962356 AGCCCAGCAGCACAACATAC 60.962 55.000 0.00 0.00 34.23 2.39
809 820 1.937546 GCCCAGCAGCACAACATACC 61.938 60.000 0.00 0.00 0.00 2.73
810 821 1.647545 CCCAGCAGCACAACATACCG 61.648 60.000 0.00 0.00 0.00 4.02
811 822 1.135315 CAGCAGCACAACATACCGC 59.865 57.895 0.00 0.00 0.00 5.68
812 823 2.098298 GCAGCACAACATACCGCG 59.902 61.111 0.00 0.00 0.00 6.46
813 824 2.677003 GCAGCACAACATACCGCGT 61.677 57.895 4.92 0.00 0.00 6.01
814 825 1.132436 CAGCACAACATACCGCGTG 59.868 57.895 4.92 0.00 0.00 5.34
815 826 1.301401 AGCACAACATACCGCGTGT 60.301 52.632 4.92 5.32 0.00 4.49
816 827 1.154488 GCACAACATACCGCGTGTG 60.154 57.895 17.85 17.85 0.00 3.82
817 828 1.495509 CACAACATACCGCGTGTGG 59.504 57.895 15.24 8.93 0.00 4.17
818 829 0.946700 CACAACATACCGCGTGTGGA 60.947 55.000 15.24 0.00 0.00 4.02
819 830 0.036765 ACAACATACCGCGTGTGGAT 60.037 50.000 9.48 0.00 0.00 3.41
820 831 0.373370 CAACATACCGCGTGTGGATG 59.627 55.000 4.92 4.79 0.00 3.51
821 832 0.036765 AACATACCGCGTGTGGATGT 60.037 50.000 4.92 5.53 33.82 3.06
822 833 0.739462 ACATACCGCGTGTGGATGTG 60.739 55.000 10.42 4.51 32.31 3.21
823 834 1.813753 ATACCGCGTGTGGATGTGC 60.814 57.895 4.92 0.00 0.00 4.57
824 835 2.514510 ATACCGCGTGTGGATGTGCA 62.515 55.000 4.92 0.00 0.00 4.57
825 836 4.088762 CCGCGTGTGGATGTGCAC 62.089 66.667 10.75 10.75 0.00 4.57
826 837 3.345011 CGCGTGTGGATGTGCACA 61.345 61.111 24.08 24.08 35.51 4.57
827 838 2.252260 GCGTGTGGATGTGCACAC 59.748 61.111 24.37 22.78 45.75 3.82
843 854 1.136363 CACACACGTATTGACCAAGCG 60.136 52.381 3.45 7.57 0.00 4.68
848 859 1.634757 CGTATTGACCAAGCGCTGCA 61.635 55.000 12.58 4.32 0.00 4.41
850 861 1.016627 TATTGACCAAGCGCTGCATC 58.983 50.000 12.58 9.55 0.00 3.91
851 862 0.679002 ATTGACCAAGCGCTGCATCT 60.679 50.000 12.58 0.00 0.00 2.90
852 863 1.579964 TTGACCAAGCGCTGCATCTG 61.580 55.000 12.58 4.51 0.00 2.90
853 864 3.392595 GACCAAGCGCTGCATCTGC 62.393 63.158 12.58 0.00 42.50 4.26
883 895 4.882671 TTGAAGTTTGAACAGAGACAGC 57.117 40.909 0.00 0.00 0.00 4.40
884 896 2.866156 TGAAGTTTGAACAGAGACAGCG 59.134 45.455 0.00 0.00 0.00 5.18
885 897 2.890808 AGTTTGAACAGAGACAGCGA 57.109 45.000 0.00 0.00 0.00 4.93
886 898 2.474816 AGTTTGAACAGAGACAGCGAC 58.525 47.619 0.00 0.00 0.00 5.19
900 912 4.059459 CGACACAGGCGCAACGTC 62.059 66.667 10.83 9.06 0.00 4.34
914 927 2.047151 AACGTCTGGCAACACGCAAG 62.047 55.000 16.28 0.00 46.17 4.01
934 947 1.070786 ACAACGAACGAGGCACCAT 59.929 52.632 0.14 0.00 0.00 3.55
958 973 2.274437 CCTTCACGATCACATCACAGG 58.726 52.381 0.00 0.00 0.00 4.00
983 998 0.168788 CAGCAAATCAATCACGGCGT 59.831 50.000 6.77 6.77 0.00 5.68
1049 1064 1.216175 CCATCATCAATCCACCCACCT 59.784 52.381 0.00 0.00 0.00 4.00
1102 1118 6.197282 GCACGAAGAAAAGGAGAAAAAGAAAG 59.803 38.462 0.00 0.00 0.00 2.62
1103 1119 7.472543 CACGAAGAAAAGGAGAAAAAGAAAGA 58.527 34.615 0.00 0.00 0.00 2.52
1104 1120 7.641802 CACGAAGAAAAGGAGAAAAAGAAAGAG 59.358 37.037 0.00 0.00 0.00 2.85
1243 1263 4.179599 CTCCCTCCCTCCCTCCCC 62.180 77.778 0.00 0.00 0.00 4.81
1353 1374 1.374343 GGTTCGCCGATTTCCTTCCC 61.374 60.000 0.00 0.00 0.00 3.97
1366 1387 1.261238 CCTTCCCGTGGCTCTCTTCT 61.261 60.000 0.00 0.00 0.00 2.85
1368 1389 2.125350 CCCGTGGCTCTCTTCTGC 60.125 66.667 0.00 0.00 0.00 4.26
1426 1469 8.717678 ACAATCTTGTTTGGTCTTTGACCTTGA 61.718 37.037 16.42 7.13 45.10 3.02
1443 1486 0.250901 TGACTGCCTTGCTTCTTCCC 60.251 55.000 0.00 0.00 0.00 3.97
1490 1533 2.824341 ACTTACCGTCCACTAAGGTCAG 59.176 50.000 0.00 0.00 40.75 3.51
1511 1554 6.869695 TCAGTTTAAGATTACTGATGCGGTA 58.130 36.000 4.02 0.00 44.20 4.02
1571 1614 9.289782 ACTGAATCTTTTGTTGCTTCTAGTTAT 57.710 29.630 0.00 0.00 0.00 1.89
1581 1624 4.507710 TGCTTCTAGTTATGTTCTGGCTG 58.492 43.478 0.00 0.00 0.00 4.85
1644 1728 1.133915 TCGTTGGCCCTCTGTTTCTTT 60.134 47.619 0.00 0.00 0.00 2.52
1645 1729 1.001378 CGTTGGCCCTCTGTTTCTTTG 60.001 52.381 0.00 0.00 0.00 2.77
1655 1739 5.642919 CCCTCTGTTTCTTTGAAGAGATCAG 59.357 44.000 0.00 11.78 39.77 2.90
1656 1740 5.122082 CCTCTGTTTCTTTGAAGAGATCAGC 59.878 44.000 0.00 0.00 39.77 4.26
1677 1761 3.459145 CATCTCTGAGCTCAACATCTGG 58.541 50.000 18.85 4.10 0.00 3.86
1685 1769 1.364626 CTCAACATCTGGCTCACGGC 61.365 60.000 0.00 0.00 40.90 5.68
1707 1791 4.770795 CTGGGATAAGAGGTGTTAAGTGG 58.229 47.826 0.00 0.00 0.00 4.00
1715 1799 6.681729 AAGAGGTGTTAAGTGGATTAGTCA 57.318 37.500 0.00 0.00 0.00 3.41
1724 1808 4.946478 AGTGGATTAGTCAGATGTAGCC 57.054 45.455 0.00 0.00 0.00 3.93
1725 1809 4.551671 AGTGGATTAGTCAGATGTAGCCT 58.448 43.478 0.00 0.00 0.00 4.58
1726 1810 4.965532 AGTGGATTAGTCAGATGTAGCCTT 59.034 41.667 0.00 0.00 0.00 4.35
1727 1811 6.136857 AGTGGATTAGTCAGATGTAGCCTTA 58.863 40.000 0.00 0.00 0.00 2.69
1745 1829 5.661312 AGCCTTACTTCCCTCTTTTGTTTTT 59.339 36.000 0.00 0.00 0.00 1.94
1746 1830 5.983720 GCCTTACTTCCCTCTTTTGTTTTTC 59.016 40.000 0.00 0.00 0.00 2.29
1747 1831 6.183360 GCCTTACTTCCCTCTTTTGTTTTTCT 60.183 38.462 0.00 0.00 0.00 2.52
1748 1832 7.203218 CCTTACTTCCCTCTTTTGTTTTTCTG 58.797 38.462 0.00 0.00 0.00 3.02
1749 1833 7.147897 CCTTACTTCCCTCTTTTGTTTTTCTGT 60.148 37.037 0.00 0.00 0.00 3.41
1750 1834 8.810990 TTACTTCCCTCTTTTGTTTTTCTGTA 57.189 30.769 0.00 0.00 0.00 2.74
1751 1835 7.096884 ACTTCCCTCTTTTGTTTTTCTGTAC 57.903 36.000 0.00 0.00 0.00 2.90
1752 1836 6.661805 ACTTCCCTCTTTTGTTTTTCTGTACA 59.338 34.615 0.00 0.00 0.00 2.90
1803 1890 7.390162 GGCTTCTCCTCTTATCTTAATGAATGG 59.610 40.741 0.00 0.00 0.00 3.16
1828 1915 2.031682 GCAGCATCTCTGTGTTTCGTTT 60.032 45.455 0.00 0.00 44.66 3.60
1914 2179 6.040842 ACTTGTGAAGGCATACAGAAAAACAT 59.959 34.615 0.00 0.00 0.00 2.71
2011 2287 4.214971 AGTCTGATGATGTGTGTTCTTTGC 59.785 41.667 0.00 0.00 0.00 3.68
2031 2307 2.082231 CTTCTTCATGACAGCTGTGGG 58.918 52.381 27.27 13.29 0.00 4.61
2064 2340 2.224597 TGCATTGAACTTGAGCTCCTCA 60.225 45.455 12.15 6.06 38.87 3.86
2127 2403 1.801913 CAGGAAAGGCGTCGTCTCG 60.802 63.158 0.00 0.00 0.00 4.04
2139 2415 0.167470 TCGTCTCGTTCTTCGCGATT 59.833 50.000 10.88 0.00 35.75 3.34
2157 2433 1.740332 TTGACGAGAGCCGGTTCACA 61.740 55.000 21.22 11.47 43.93 3.58
2163 2439 0.180406 AGAGCCGGTTCACACAAACT 59.820 50.000 21.22 0.00 0.00 2.66
2180 2456 1.217511 CTGACGAGGTGAGCTGCAT 59.782 57.895 1.02 0.00 0.00 3.96
2191 2467 1.065272 TGAGCTGCATGCCATACTTCA 60.065 47.619 16.68 7.68 44.23 3.02
2205 2481 4.323028 CCATACTTCAGCTCAAGGTCTTCA 60.323 45.833 1.30 0.00 0.00 3.02
2322 2598 0.389037 GCTCAGATGACACACTCGCA 60.389 55.000 0.00 0.00 0.00 5.10
2486 2762 2.202810 GCTCTACTCTGTGCCGGC 60.203 66.667 22.73 22.73 0.00 6.13
2487 2763 3.006756 GCTCTACTCTGTGCCGGCA 62.007 63.158 29.03 29.03 0.00 5.69
2488 2764 1.153745 CTCTACTCTGTGCCGGCAC 60.154 63.158 45.20 45.20 46.33 5.01
2505 2781 1.951895 GCACTGGGATGCTGTGAATCA 60.952 52.381 13.01 0.00 42.62 2.57
2556 2833 2.090400 TGCTTCAGTCATCTCACTGC 57.910 50.000 0.00 0.00 43.18 4.40
2557 2834 1.345415 TGCTTCAGTCATCTCACTGCA 59.655 47.619 0.00 0.00 43.18 4.41
2569 2846 6.420306 GTCATCTCACTGCACATACTTGATAG 59.580 42.308 0.00 0.00 0.00 2.08
2571 2848 7.285401 TCATCTCACTGCACATACTTGATAGTA 59.715 37.037 0.00 0.00 40.96 1.82
2671 2948 3.390967 ACAAAATGGGAGGGTCTTTTTGG 59.609 43.478 14.86 0.00 40.47 3.28
2693 2970 3.186409 GTGTCTACGTCGGTACTTGTGTA 59.814 47.826 0.00 0.00 0.00 2.90
2699 2976 5.165911 ACGTCGGTACTTGTGTATCTATG 57.834 43.478 0.00 0.00 0.00 2.23
2760 3039 1.482593 CTCCCTATCAGGCGTTCAGTT 59.517 52.381 0.00 0.00 32.73 3.16
2775 3054 5.619981 GCGTTCAGTTTCATAAAGGCATTCT 60.620 40.000 0.00 0.00 33.85 2.40
2798 3077 1.444933 AGTTGTTCATGTGGGAGGGA 58.555 50.000 0.00 0.00 0.00 4.20
2806 3085 1.142688 ATGTGGGAGGGAGCCAAAGT 61.143 55.000 0.00 0.00 0.00 2.66
2807 3086 1.303643 GTGGGAGGGAGCCAAAGTG 60.304 63.158 0.00 0.00 0.00 3.16
2836 3115 7.064064 GGCGTCGAAGAGAAAAATATATTGAC 58.936 38.462 1.37 0.00 36.95 3.18
2936 3217 8.587952 AATATACTTCAAAGCCAAACAACAAC 57.412 30.769 0.00 0.00 0.00 3.32
2951 3232 6.538945 AACAACAACAAGGACCACTAATTT 57.461 33.333 0.00 0.00 0.00 1.82
2960 3241 5.964958 AGGACCACTAATTTGTGTGAATG 57.035 39.130 16.96 5.70 36.38 2.67
3008 3289 2.036604 TGTTACATCGCTGTTCTGACCA 59.963 45.455 0.00 0.00 36.79 4.02
3182 3465 4.464244 TGTTGACACCTCACAAATGGAAAA 59.536 37.500 0.00 0.00 0.00 2.29
3204 3487 9.393249 GAAAATCGTTTGAATACAGTGAATGAA 57.607 29.630 0.00 0.00 0.00 2.57
3278 3603 7.121759 CCTCCTTTGAGATAGCAAAATGAAGAA 59.878 37.037 0.00 0.00 41.42 2.52
3280 3605 7.884877 TCCTTTGAGATAGCAAAATGAAGAAGA 59.115 33.333 0.00 0.00 37.32 2.87
3297 3622 3.265479 AGAAGACCAATTCCTCTGAAGGG 59.735 47.826 0.00 0.00 43.56 3.95
3346 3671 3.492011 GGGGTTTCGCGTATGTGTATTAG 59.508 47.826 5.77 0.00 0.00 1.73
3347 3672 3.060070 GGGTTTCGCGTATGTGTATTAGC 60.060 47.826 5.77 0.00 0.00 3.09
3349 3674 4.033129 GGTTTCGCGTATGTGTATTAGCAA 59.967 41.667 5.77 0.00 0.00 3.91
3350 3675 5.446206 GGTTTCGCGTATGTGTATTAGCAAA 60.446 40.000 5.77 0.00 0.00 3.68
3351 3676 5.977171 TTCGCGTATGTGTATTAGCAAAT 57.023 34.783 5.77 0.00 0.00 2.32
3395 3723 5.976458 TCAAGCAATTGAAAAGGTTTCTGT 58.024 33.333 10.34 0.00 0.00 3.41
3398 3726 5.532557 AGCAATTGAAAAGGTTTCTGTAGC 58.467 37.500 10.34 2.71 0.00 3.58
3421 3749 7.548097 AGCAACTAGAAATCGACAGAGATAAA 58.452 34.615 0.00 0.00 0.00 1.40
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
379 389 4.352595 TGAATGTCTCCTCCAAAAACCCTA 59.647 41.667 0.00 0.00 0.00 3.53
571 581 5.592688 GCCAAGGAATTACATAGTTGCCTTA 59.407 40.000 0.00 0.00 33.29 2.69
606 616 3.741249 TGGCGGTCAAGTAAACACATAA 58.259 40.909 0.00 0.00 0.00 1.90
629 639 1.555075 AGGCGGAAGTACACATGATGT 59.445 47.619 0.00 2.78 46.06 3.06
632 642 0.249120 CCAGGCGGAAGTACACATGA 59.751 55.000 0.00 0.00 0.00 3.07
743 754 2.022195 AGAAACTAGCACCGCTATCGA 58.978 47.619 0.00 0.00 40.54 3.59
744 755 2.033550 AGAGAAACTAGCACCGCTATCG 59.966 50.000 0.00 0.00 40.54 2.92
745 756 3.066900 TCAGAGAAACTAGCACCGCTATC 59.933 47.826 0.00 0.00 40.54 2.08
746 757 3.024547 TCAGAGAAACTAGCACCGCTAT 58.975 45.455 0.00 0.00 40.54 2.97
747 758 2.443416 TCAGAGAAACTAGCACCGCTA 58.557 47.619 0.00 0.00 40.44 4.26
748 759 1.257743 TCAGAGAAACTAGCACCGCT 58.742 50.000 0.00 0.00 43.41 5.52
749 760 1.996191 CTTCAGAGAAACTAGCACCGC 59.004 52.381 0.00 0.00 0.00 5.68
750 761 1.996191 GCTTCAGAGAAACTAGCACCG 59.004 52.381 0.00 0.00 32.31 4.94
751 762 3.045601 TGCTTCAGAGAAACTAGCACC 57.954 47.619 0.00 0.00 35.91 5.01
752 763 4.092675 GTGATGCTTCAGAGAAACTAGCAC 59.907 45.833 1.91 0.00 41.21 4.40
753 764 4.020751 AGTGATGCTTCAGAGAAACTAGCA 60.021 41.667 1.91 0.00 42.15 3.49
754 765 4.502962 AGTGATGCTTCAGAGAAACTAGC 58.497 43.478 1.91 0.00 32.57 3.42
755 766 5.718146 TGAGTGATGCTTCAGAGAAACTAG 58.282 41.667 1.91 0.00 30.85 2.57
756 767 5.728637 TGAGTGATGCTTCAGAGAAACTA 57.271 39.130 1.91 0.00 30.85 2.24
757 768 4.613925 TGAGTGATGCTTCAGAGAAACT 57.386 40.909 1.91 0.00 30.85 2.66
758 769 5.679734 TTTGAGTGATGCTTCAGAGAAAC 57.320 39.130 1.91 0.00 30.85 2.78
759 770 6.698008 TTTTTGAGTGATGCTTCAGAGAAA 57.302 33.333 1.91 0.02 30.85 2.52
781 792 0.756442 TGCTGCTGGGCTCTGTTTTT 60.756 50.000 0.00 0.00 0.00 1.94
782 793 1.152694 TGCTGCTGGGCTCTGTTTT 60.153 52.632 0.00 0.00 0.00 2.43
783 794 1.900498 GTGCTGCTGGGCTCTGTTT 60.900 57.895 0.00 0.00 0.00 2.83
784 795 2.282040 GTGCTGCTGGGCTCTGTT 60.282 61.111 0.00 0.00 0.00 3.16
785 796 3.124051 TTGTGCTGCTGGGCTCTGT 62.124 57.895 0.00 0.00 0.00 3.41
786 797 2.281970 TTGTGCTGCTGGGCTCTG 60.282 61.111 0.00 0.00 0.00 3.35
787 798 2.282040 GTTGTGCTGCTGGGCTCT 60.282 61.111 0.00 0.00 0.00 4.09
788 799 0.677731 TATGTTGTGCTGCTGGGCTC 60.678 55.000 0.00 0.00 0.00 4.70
789 800 0.962356 GTATGTTGTGCTGCTGGGCT 60.962 55.000 0.00 0.00 0.00 5.19
790 801 1.508088 GTATGTTGTGCTGCTGGGC 59.492 57.895 0.00 0.00 0.00 5.36
791 802 1.647545 CGGTATGTTGTGCTGCTGGG 61.648 60.000 0.00 0.00 0.00 4.45
792 803 1.796151 CGGTATGTTGTGCTGCTGG 59.204 57.895 0.00 0.00 0.00 4.85
793 804 1.135315 GCGGTATGTTGTGCTGCTG 59.865 57.895 0.00 0.00 41.13 4.41
794 805 2.390599 CGCGGTATGTTGTGCTGCT 61.391 57.895 0.00 0.00 42.05 4.24
795 806 2.098298 CGCGGTATGTTGTGCTGC 59.902 61.111 0.00 0.00 40.95 5.25
796 807 1.132436 CACGCGGTATGTTGTGCTG 59.868 57.895 12.47 0.00 0.00 4.41
797 808 1.301401 ACACGCGGTATGTTGTGCT 60.301 52.632 12.47 0.00 35.79 4.40
798 809 1.154488 CACACGCGGTATGTTGTGC 60.154 57.895 12.47 0.00 35.79 4.57
799 810 0.946700 TCCACACGCGGTATGTTGTG 60.947 55.000 12.47 14.60 38.28 3.33
800 811 0.036765 ATCCACACGCGGTATGTTGT 60.037 50.000 12.47 0.46 0.00 3.32
801 812 0.373370 CATCCACACGCGGTATGTTG 59.627 55.000 12.47 1.66 0.00 3.33
802 813 0.036765 ACATCCACACGCGGTATGTT 60.037 50.000 12.47 0.00 0.00 2.71
803 814 0.739462 CACATCCACACGCGGTATGT 60.739 55.000 12.47 10.25 31.23 2.29
804 815 2.005995 CACATCCACACGCGGTATG 58.994 57.895 12.47 9.63 0.00 2.39
805 816 1.813753 GCACATCCACACGCGGTAT 60.814 57.895 12.47 0.00 0.00 2.73
806 817 2.433491 GCACATCCACACGCGGTA 60.433 61.111 12.47 0.00 0.00 4.02
807 818 4.617520 TGCACATCCACACGCGGT 62.618 61.111 12.47 2.05 0.00 5.68
808 819 4.088762 GTGCACATCCACACGCGG 62.089 66.667 13.17 1.27 35.80 6.46
809 820 3.345011 TGTGCACATCCACACGCG 61.345 61.111 17.42 3.53 40.55 6.01
813 824 0.105039 TACGTGTGTGCACATCCACA 59.895 50.000 29.27 18.97 45.50 4.17
814 825 1.438651 ATACGTGTGTGCACATCCAC 58.561 50.000 24.69 24.11 45.50 4.02
815 826 1.803555 CAATACGTGTGTGCACATCCA 59.196 47.619 24.69 14.69 45.50 3.41
816 827 2.073056 TCAATACGTGTGTGCACATCC 58.927 47.619 24.69 15.20 45.50 3.51
817 828 2.159707 GGTCAATACGTGTGTGCACATC 60.160 50.000 24.69 17.59 45.50 3.06
818 829 1.804151 GGTCAATACGTGTGTGCACAT 59.196 47.619 24.69 9.57 45.50 3.21
819 830 1.222300 GGTCAATACGTGTGTGCACA 58.778 50.000 17.42 17.42 45.50 4.57
820 831 1.222300 TGGTCAATACGTGTGTGCAC 58.778 50.000 10.75 10.75 41.97 4.57
821 832 1.870402 CTTGGTCAATACGTGTGTGCA 59.130 47.619 0.00 0.00 0.00 4.57
822 833 1.399727 GCTTGGTCAATACGTGTGTGC 60.400 52.381 0.00 0.00 0.00 4.57
823 834 1.136363 CGCTTGGTCAATACGTGTGTG 60.136 52.381 0.00 0.00 0.00 3.82
824 835 1.144969 CGCTTGGTCAATACGTGTGT 58.855 50.000 0.00 0.00 0.00 3.72
825 836 0.179225 GCGCTTGGTCAATACGTGTG 60.179 55.000 0.00 0.00 0.00 3.82
826 837 0.320421 AGCGCTTGGTCAATACGTGT 60.320 50.000 2.64 0.00 0.00 4.49
827 838 0.095245 CAGCGCTTGGTCAATACGTG 59.905 55.000 7.50 0.00 0.00 4.49
828 839 1.635663 GCAGCGCTTGGTCAATACGT 61.636 55.000 7.50 0.00 0.00 3.57
829 840 1.060937 GCAGCGCTTGGTCAATACG 59.939 57.895 7.50 0.00 0.00 3.06
830 841 0.734889 ATGCAGCGCTTGGTCAATAC 59.265 50.000 7.50 0.00 0.00 1.89
843 854 0.737219 AAATCTTCGGCAGATGCAGC 59.263 50.000 7.19 0.00 41.93 5.25
848 859 5.241506 TCAAACTTCAAAATCTTCGGCAGAT 59.758 36.000 0.00 0.00 45.03 2.90
850 861 4.858935 TCAAACTTCAAAATCTTCGGCAG 58.141 39.130 0.00 0.00 0.00 4.85
851 862 4.909696 TCAAACTTCAAAATCTTCGGCA 57.090 36.364 0.00 0.00 0.00 5.69
852 863 5.040635 TGTTCAAACTTCAAAATCTTCGGC 58.959 37.500 0.00 0.00 0.00 5.54
853 864 6.494842 TCTGTTCAAACTTCAAAATCTTCGG 58.505 36.000 0.00 0.00 0.00 4.30
883 895 4.059459 GACGTTGCGCCTGTGTCG 62.059 66.667 4.18 3.18 0.00 4.35
884 896 2.661866 AGACGTTGCGCCTGTGTC 60.662 61.111 4.18 8.03 0.00 3.67
885 897 2.967076 CAGACGTTGCGCCTGTGT 60.967 61.111 4.18 0.00 32.99 3.72
886 898 3.716006 CCAGACGTTGCGCCTGTG 61.716 66.667 4.18 0.00 35.69 3.66
900 912 2.353839 GTGCTTGCGTGTTGCCAG 60.354 61.111 0.00 0.00 45.60 4.85
914 927 2.248431 GTGCCTCGTTCGTTGTGC 59.752 61.111 0.00 0.00 0.00 4.57
934 947 1.550072 TGATGTGATCGTGAAGGCTGA 59.450 47.619 0.00 0.00 0.00 4.26
958 973 2.202650 ATTGATTTGCTGCCGCGC 60.203 55.556 0.00 0.00 39.65 6.86
970 985 3.187058 GCCAACGCCGTGATTGAT 58.813 55.556 0.00 0.00 0.00 2.57
1128 1144 1.768077 GAGGGCAGGCAGGTAGGAT 60.768 63.158 0.00 0.00 0.00 3.24
1129 1145 2.365635 GAGGGCAGGCAGGTAGGA 60.366 66.667 0.00 0.00 0.00 2.94
1130 1146 3.483869 GGAGGGCAGGCAGGTAGG 61.484 72.222 0.00 0.00 0.00 3.18
1131 1147 3.854669 CGGAGGGCAGGCAGGTAG 61.855 72.222 0.00 0.00 0.00 3.18
1175 1195 2.384933 TTTGATTGGGGGCTGGCTGT 62.385 55.000 0.00 0.00 0.00 4.40
1220 1240 2.040359 GGAGGGAGGGAGAAGGGG 60.040 72.222 0.00 0.00 0.00 4.79
1264 1284 2.143594 CTCCCCGAATCCCGATCGAC 62.144 65.000 18.66 1.66 42.76 4.20
1353 1374 0.458197 CTGAGCAGAAGAGAGCCACG 60.458 60.000 0.00 0.00 0.00 4.94
1366 1387 1.347707 CAACTGTAGGTTCCCTGAGCA 59.652 52.381 0.00 0.00 35.74 4.26
1368 1389 3.557264 GGTTCAACTGTAGGTTCCCTGAG 60.557 52.174 0.00 0.00 35.74 3.35
1426 1469 1.302832 CGGGAAGAAGCAAGGCAGT 60.303 57.895 0.00 0.00 0.00 4.40
1427 1470 1.302832 ACGGGAAGAAGCAAGGCAG 60.303 57.895 0.00 0.00 0.00 4.85
1428 1471 1.600636 CACGGGAAGAAGCAAGGCA 60.601 57.895 0.00 0.00 0.00 4.75
1443 1486 4.788100 CACAGACTTTTGAGAACAAACACG 59.212 41.667 0.00 0.00 44.22 4.49
1490 1533 6.851330 GCAATACCGCATCAGTAATCTTAAAC 59.149 38.462 0.00 0.00 0.00 2.01
1511 1554 2.158534 TGTACCAACTGAACCCAGCAAT 60.159 45.455 0.00 0.00 44.16 3.56
1581 1624 5.140747 TCTGAAGAAACAGAGGTTCTAGC 57.859 43.478 0.00 0.00 41.21 3.42
1625 1668 1.001378 CAAAGAAACAGAGGGCCAACG 60.001 52.381 6.18 0.00 0.00 4.10
1655 1739 2.867368 CAGATGTTGAGCTCAGAGATGC 59.133 50.000 17.43 5.95 0.00 3.91
1656 1740 3.459145 CCAGATGTTGAGCTCAGAGATG 58.541 50.000 17.43 12.71 0.00 2.90
1666 1750 1.364626 GCCGTGAGCCAGATGTTGAG 61.365 60.000 0.00 0.00 34.35 3.02
1667 1751 1.375908 GCCGTGAGCCAGATGTTGA 60.376 57.895 0.00 0.00 34.35 3.18
1668 1752 1.376424 AGCCGTGAGCCAGATGTTG 60.376 57.895 0.00 0.00 45.47 3.33
1669 1753 1.376424 CAGCCGTGAGCCAGATGTT 60.376 57.895 0.00 0.00 45.47 2.71
1677 1761 0.249657 CTCTTATCCCAGCCGTGAGC 60.250 60.000 0.00 0.00 44.25 4.26
1685 1769 4.469945 TCCACTTAACACCTCTTATCCCAG 59.530 45.833 0.00 0.00 0.00 4.45
1707 1791 7.149307 GGAAGTAAGGCTACATCTGACTAATC 58.851 42.308 0.00 0.00 0.00 1.75
1715 1799 4.273300 AGAGGGAAGTAAGGCTACATCT 57.727 45.455 0.00 0.00 0.00 2.90
1724 1808 7.772166 ACAGAAAAACAAAAGAGGGAAGTAAG 58.228 34.615 0.00 0.00 0.00 2.34
1725 1809 7.712204 ACAGAAAAACAAAAGAGGGAAGTAA 57.288 32.000 0.00 0.00 0.00 2.24
1726 1810 7.830201 TGTACAGAAAAACAAAAGAGGGAAGTA 59.170 33.333 0.00 0.00 0.00 2.24
1727 1811 6.661805 TGTACAGAAAAACAAAAGAGGGAAGT 59.338 34.615 0.00 0.00 0.00 3.01
1745 1829 6.653320 GGGATTACATGTCAAAACTGTACAGA 59.347 38.462 29.30 5.21 0.00 3.41
1746 1830 6.128007 GGGGATTACATGTCAAAACTGTACAG 60.128 42.308 21.44 21.44 0.00 2.74
1747 1831 5.708230 GGGGATTACATGTCAAAACTGTACA 59.292 40.000 0.00 0.00 0.00 2.90
1748 1832 5.944007 AGGGGATTACATGTCAAAACTGTAC 59.056 40.000 0.00 0.00 0.00 2.90
1749 1833 6.134535 AGGGGATTACATGTCAAAACTGTA 57.865 37.500 0.00 0.00 0.00 2.74
1750 1834 4.998051 AGGGGATTACATGTCAAAACTGT 58.002 39.130 0.00 0.00 0.00 3.55
1751 1835 5.982890 AAGGGGATTACATGTCAAAACTG 57.017 39.130 0.00 0.00 0.00 3.16
1752 1836 6.074648 TCAAAGGGGATTACATGTCAAAACT 58.925 36.000 0.00 0.00 0.00 2.66
1914 2179 8.227119 CGTATTCGCATATAAATGACAATTCCA 58.773 33.333 0.00 0.00 34.84 3.53
1930 2195 2.597305 GACAAGAACGTCGTATTCGCAT 59.403 45.455 0.00 0.00 36.96 4.73
1931 2196 1.980844 GACAAGAACGTCGTATTCGCA 59.019 47.619 0.00 0.00 36.96 5.10
2011 2287 2.082231 CCCACAGCTGTCATGAAGAAG 58.918 52.381 18.64 1.84 0.00 2.85
2031 2307 3.941483 AGTTCAATGCATAGCCACAGTAC 59.059 43.478 0.00 0.00 0.00 2.73
2064 2340 2.124653 TTGGCCGTGTTCCGTGTT 60.125 55.556 0.00 0.00 33.66 3.32
2097 2373 2.881403 GCCTTTCCTGATCTGCTTTCCA 60.881 50.000 0.00 0.00 0.00 3.53
2127 2403 1.579808 CTCTCGTCAATCGCGAAGAAC 59.420 52.381 15.24 10.49 37.93 3.01
2139 2415 2.197605 TGTGAACCGGCTCTCGTCA 61.198 57.895 0.00 0.00 37.11 4.35
2157 2433 0.753262 AGCTCACCTCGTCAGTTTGT 59.247 50.000 0.00 0.00 0.00 2.83
2163 2439 1.079612 CATGCAGCTCACCTCGTCA 60.080 57.895 0.00 0.00 0.00 4.35
2180 2456 1.630369 ACCTTGAGCTGAAGTATGGCA 59.370 47.619 12.14 0.00 0.00 4.92
2191 2467 0.622665 CCCCATGAAGACCTTGAGCT 59.377 55.000 0.00 0.00 0.00 4.09
2205 2481 3.260205 TCTCCTTCTGAAGAAACCCCAT 58.740 45.455 18.68 0.00 33.07 4.00
2255 2531 3.924686 GTCATAAGCGTTACCGATATGGG 59.075 47.826 1.58 1.58 44.64 4.00
2322 2598 1.296068 GCTGCTGACCTCTGAGCTT 59.704 57.895 0.00 0.00 36.11 3.74
2486 2762 2.014857 CTGATTCACAGCATCCCAGTG 58.985 52.381 0.00 0.00 39.86 3.66
2487 2763 1.911357 TCTGATTCACAGCATCCCAGT 59.089 47.619 0.00 0.00 45.38 4.00
2488 2764 2.562635 CTCTGATTCACAGCATCCCAG 58.437 52.381 0.00 0.00 45.38 4.45
2489 2765 1.407851 GCTCTGATTCACAGCATCCCA 60.408 52.381 8.82 0.00 45.38 4.37
2505 2781 4.526970 TGACAAGTTCCTTGAAAAGCTCT 58.473 39.130 10.73 0.00 44.44 4.09
2536 2813 2.027469 TGCAGTGAGATGACTGAAGCAT 60.027 45.455 3.48 0.00 45.39 3.79
2593 2870 9.472361 CTGTTTAAAGTATACATGTATAGCGGT 57.528 33.333 23.03 12.61 0.00 5.68
2671 2948 2.031682 ACACAAGTACCGACGTAGACAC 60.032 50.000 0.00 0.00 0.00 3.67
2693 2970 3.372206 GCAAACACGCTGAAGACATAGAT 59.628 43.478 0.00 0.00 0.00 1.98
2699 2976 3.916061 TTGCAAACACGCTGAAGAC 57.084 47.368 0.00 0.00 0.00 3.01
2760 3039 7.288810 ACAACTTCAAGAATGCCTTTATGAA 57.711 32.000 0.00 4.12 31.42 2.57
2775 3054 3.221771 CCTCCCACATGAACAACTTCAA 58.778 45.455 0.00 0.00 39.90 2.69
2806 3085 0.105224 TTTCTCTTCGACGCCAACCA 59.895 50.000 0.00 0.00 0.00 3.67
2807 3086 1.223187 TTTTCTCTTCGACGCCAACC 58.777 50.000 0.00 0.00 0.00 3.77
2936 3217 5.766150 TTCACACAAATTAGTGGTCCTTG 57.234 39.130 0.00 0.00 43.72 3.61
2951 3232 7.557358 AGTTAGATTGATATTGGCATTCACACA 59.443 33.333 0.00 0.00 0.00 3.72
2985 3266 3.575630 GTCAGAACAGCGATGTAACAGA 58.424 45.455 6.79 4.33 0.00 3.41
3008 3289 5.711506 TGTGCAGATTACAAAACCATCATCT 59.288 36.000 0.00 0.00 0.00 2.90
3182 3465 7.465916 CGGATTCATTCACTGTATTCAAACGAT 60.466 37.037 0.00 0.00 0.00 3.73
3278 3603 2.307098 CACCCTTCAGAGGAATTGGTCT 59.693 50.000 0.00 0.00 46.74 3.85
3280 3605 2.065799 ACACCCTTCAGAGGAATTGGT 58.934 47.619 0.00 0.00 46.74 3.67
3297 3622 1.002468 CAGTGGCAGCAACAACTACAC 60.002 52.381 1.78 0.00 0.00 2.90
3347 3672 6.384224 ACAGTGATTACATGTGCAGAATTTG 58.616 36.000 9.11 3.73 0.00 2.32
3349 3674 6.207221 TGAACAGTGATTACATGTGCAGAATT 59.793 34.615 9.11 0.00 29.07 2.17
3350 3675 5.706833 TGAACAGTGATTACATGTGCAGAAT 59.293 36.000 9.11 0.00 29.07 2.40
3351 3676 5.062528 TGAACAGTGATTACATGTGCAGAA 58.937 37.500 9.11 0.00 29.07 3.02
3395 3723 6.701145 ATCTCTGTCGATTTCTAGTTGCTA 57.299 37.500 0.00 0.00 0.00 3.49
3398 3726 7.489435 TGCTTTATCTCTGTCGATTTCTAGTTG 59.511 37.037 0.00 0.00 0.00 3.16


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

AutoCloner maintained by Alex Coulton.