Multiple sequence alignment - TraesCS4B01G323700

Loading Multiple Alignment...

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 TraesCS4B01G323700 chr4B 100.000 4819 0 0 1 4819 614058348 614063166 0.000000e+00 8900
1 TraesCS4B01G323700 chr4A 98.975 3023 27 2 1798 4819 708315357 708318376 0.000000e+00 5408
2 TraesCS4B01G323700 chr4A 79.427 1886 344 28 1729 3597 456468224 456466366 0.000000e+00 1293
3 TraesCS4B01G323700 chr4A 81.030 738 127 8 872 1597 456469060 456468324 4.180000e-160 575
4 TraesCS4B01G323700 chr4A 79.510 571 110 6 1068 1634 640155814 640156381 2.700000e-107 399
5 TraesCS4B01G323700 chr5B 85.999 3957 498 34 872 4819 461698237 461694328 0.000000e+00 4187
6 TraesCS4B01G323700 chr3A 93.519 1836 111 6 2339 4173 715426475 715428303 0.000000e+00 2724
7 TraesCS4B01G323700 chr3A 79.584 1876 339 33 1729 3587 737275764 737273916 0.000000e+00 1303
8 TraesCS4B01G323700 chr3A 95.238 651 31 0 4169 4819 715435670 715436320 0.000000e+00 1031
9 TraesCS4B01G323700 chr3A 77.408 1775 341 51 3077 4819 435358541 435360287 0.000000e+00 1002
10 TraesCS4B01G323700 chr3A 80.381 734 130 8 877 1597 737276596 737275864 3.280000e-151 545
11 TraesCS4B01G323700 chr3A 78.338 734 126 16 891 1594 82457672 82458402 1.230000e-120 444
12 TraesCS4B01G323700 chr7D 82.964 1896 290 24 2452 4337 105569668 105567796 0.000000e+00 1681
13 TraesCS4B01G323700 chr2B 85.399 1404 179 14 3429 4819 170883564 170884954 0.000000e+00 1434
14 TraesCS4B01G323700 chr2B 77.111 1599 309 47 3250 4819 490794876 490796446 0.000000e+00 872
15 TraesCS4B01G323700 chr2B 86.441 354 47 1 3083 3436 170859363 170859715 2.100000e-103 387
16 TraesCS4B01G323700 chr2A 79.480 1886 343 29 1729 3597 293960772 293958914 0.000000e+00 1299
17 TraesCS4B01G323700 chr2A 80.488 738 131 8 872 1597 293961608 293960872 1.960000e-153 553
18 TraesCS4B01G323700 chr5A 79.332 1887 344 31 1729 3597 674083654 674081796 0.000000e+00 1282
19 TraesCS4B01G323700 chr5A 82.949 434 73 1 1164 1597 674084186 674083754 1.630000e-104 390
20 TraesCS4B01G323700 chr5A 77.824 239 28 14 562 784 663714712 663714941 1.820000e-24 124
21 TraesCS4B01G323700 chr7A 79.226 1887 347 30 1729 3597 42680660 42678801 0.000000e+00 1271
22 TraesCS4B01G323700 chr7A 82.949 434 73 1 1164 1597 42681192 42680760 1.630000e-104 390
23 TraesCS4B01G323700 chr6B 78.609 1884 346 40 1735 3578 184805246 184807112 0.000000e+00 1194
24 TraesCS4B01G323700 chr6B 87.281 228 29 0 1313 1540 184805136 184804909 1.330000e-65 261
25 TraesCS4B01G323700 chr1A 78.140 1903 352 49 1723 3578 492001929 492000044 0.000000e+00 1151
26 TraesCS4B01G323700 chr1D 77.659 1777 333 54 3077 4819 413777250 413775504 0.000000e+00 1024
27 TraesCS4B01G323700 chr7B 80.844 924 171 6 3899 4819 221311939 221311019 0.000000e+00 721
28 TraesCS4B01G323700 chr1B 85.598 368 53 0 3168 3535 337927815 337927448 2.100000e-103 387
29 TraesCS4B01G323700 chr1B 81.132 212 38 2 4216 4427 96594430 96594639 8.290000e-38 169
30 TraesCS4B01G323700 chr4D 79.505 566 53 34 276 786 483604013 483604570 1.280000e-90 344
31 TraesCS4B01G323700 chr4D 88.889 225 13 8 1 222 483603790 483604005 2.860000e-67 267
32 TraesCS4B01G323700 chr2D 78.033 478 87 16 4347 4816 606528933 606528466 7.890000e-73 285


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 TraesCS4B01G323700 chr4B 614058348 614063166 4818 False 8900.0 8900 100.0000 1 4819 1 chr4B.!!$F1 4818
1 TraesCS4B01G323700 chr4A 708315357 708318376 3019 False 5408.0 5408 98.9750 1798 4819 1 chr4A.!!$F2 3021
2 TraesCS4B01G323700 chr4A 456466366 456469060 2694 True 934.0 1293 80.2285 872 3597 2 chr4A.!!$R1 2725
3 TraesCS4B01G323700 chr4A 640155814 640156381 567 False 399.0 399 79.5100 1068 1634 1 chr4A.!!$F1 566
4 TraesCS4B01G323700 chr5B 461694328 461698237 3909 True 4187.0 4187 85.9990 872 4819 1 chr5B.!!$R1 3947
5 TraesCS4B01G323700 chr3A 715426475 715428303 1828 False 2724.0 2724 93.5190 2339 4173 1 chr3A.!!$F3 1834
6 TraesCS4B01G323700 chr3A 715435670 715436320 650 False 1031.0 1031 95.2380 4169 4819 1 chr3A.!!$F4 650
7 TraesCS4B01G323700 chr3A 435358541 435360287 1746 False 1002.0 1002 77.4080 3077 4819 1 chr3A.!!$F2 1742
8 TraesCS4B01G323700 chr3A 737273916 737276596 2680 True 924.0 1303 79.9825 877 3587 2 chr3A.!!$R1 2710
9 TraesCS4B01G323700 chr3A 82457672 82458402 730 False 444.0 444 78.3380 891 1594 1 chr3A.!!$F1 703
10 TraesCS4B01G323700 chr7D 105567796 105569668 1872 True 1681.0 1681 82.9640 2452 4337 1 chr7D.!!$R1 1885
11 TraesCS4B01G323700 chr2B 170883564 170884954 1390 False 1434.0 1434 85.3990 3429 4819 1 chr2B.!!$F2 1390
12 TraesCS4B01G323700 chr2B 490794876 490796446 1570 False 872.0 872 77.1110 3250 4819 1 chr2B.!!$F3 1569
13 TraesCS4B01G323700 chr2A 293958914 293961608 2694 True 926.0 1299 79.9840 872 3597 2 chr2A.!!$R1 2725
14 TraesCS4B01G323700 chr5A 674081796 674084186 2390 True 836.0 1282 81.1405 1164 3597 2 chr5A.!!$R1 2433
15 TraesCS4B01G323700 chr7A 42678801 42681192 2391 True 830.5 1271 81.0875 1164 3597 2 chr7A.!!$R1 2433
16 TraesCS4B01G323700 chr6B 184805246 184807112 1866 False 1194.0 1194 78.6090 1735 3578 1 chr6B.!!$F1 1843
17 TraesCS4B01G323700 chr1A 492000044 492001929 1885 True 1151.0 1151 78.1400 1723 3578 1 chr1A.!!$R1 1855
18 TraesCS4B01G323700 chr1D 413775504 413777250 1746 True 1024.0 1024 77.6590 3077 4819 1 chr1D.!!$R1 1742
19 TraesCS4B01G323700 chr7B 221311019 221311939 920 True 721.0 721 80.8440 3899 4819 1 chr7B.!!$R1 920
20 TraesCS4B01G323700 chr4D 483603790 483604570 780 False 305.5 344 84.1970 1 786 2 chr4D.!!$F1 785

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
832 890 0.034380 AGCAGGTCAAGCTCATGCAT 60.034 50.0 12.29 0.00 38.01 3.96 F
833 891 0.100682 GCAGGTCAAGCTCATGCATG 59.899 55.0 21.07 21.07 42.74 4.06 F
834 892 0.100682 CAGGTCAAGCTCATGCATGC 59.899 55.0 22.25 11.82 42.74 4.06 F
1767 1859 0.250513 GGAATGGAGACCACTCGCTT 59.749 55.0 0.00 0.00 43.44 4.68 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2621 2720 1.079197 TTGTCGCGTGATGCATCCT 60.079 52.632 23.67 0.0 46.97 3.24 R
3516 3654 1.433471 CTCGACATCCACTGCGCTA 59.567 57.895 9.73 0.0 0.00 4.26 R
3609 3747 1.517242 CGAAAGCTCAACTTGCCTCT 58.483 50.000 0.00 0.0 39.09 3.69 R
3843 4011 5.008619 AGTTCAGAGCATCACTGATACAG 57.991 43.478 0.00 0.0 42.68 2.74 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
33 34 1.339151 CCTTTCTAGGCTTTGGCGAGT 60.339 52.381 0.00 0.00 39.81 4.18
36 37 0.963856 TCTAGGCTTTGGCGAGTCGA 60.964 55.000 18.61 0.00 39.81 4.20
48 49 2.683933 AGTCGAAGCCGGGGACAT 60.684 61.111 2.18 0.00 36.24 3.06
65 66 1.841919 ACATGGCACTCCTCATCATCA 59.158 47.619 0.00 0.00 0.00 3.07
66 67 2.442126 ACATGGCACTCCTCATCATCAT 59.558 45.455 0.00 0.00 0.00 2.45
67 68 2.924757 TGGCACTCCTCATCATCATC 57.075 50.000 0.00 0.00 0.00 2.92
68 69 2.121129 TGGCACTCCTCATCATCATCA 58.879 47.619 0.00 0.00 0.00 3.07
83 84 1.827344 TCATCATCGGTGCAGACTTCT 59.173 47.619 0.00 0.00 0.00 2.85
84 85 3.023832 TCATCATCGGTGCAGACTTCTA 58.976 45.455 0.00 0.00 0.00 2.10
100 101 1.500474 TCTATGCCTCCTCCTGTTGG 58.500 55.000 0.00 0.00 0.00 3.77
102 103 0.253160 TATGCCTCCTCCTGTTGGGT 60.253 55.000 0.00 0.00 36.25 4.51
105 106 2.069165 GCCTCCTCCTGTTGGGTGTT 62.069 60.000 0.00 0.00 36.25 3.32
106 107 0.036875 CCTCCTCCTGTTGGGTGTTC 59.963 60.000 0.00 0.00 36.25 3.18
115 116 0.818040 GTTGGGTGTTCGTGCTCCTT 60.818 55.000 0.00 0.00 0.00 3.36
132 133 3.113514 TTCTGGCCCGACTGTTGCA 62.114 57.895 0.00 0.00 0.00 4.08
169 170 0.238289 GCTCGTTCCACCACAACATG 59.762 55.000 0.00 0.00 0.00 3.21
170 171 0.238289 CTCGTTCCACCACAACATGC 59.762 55.000 0.00 0.00 0.00 4.06
171 172 0.464554 TCGTTCCACCACAACATGCA 60.465 50.000 0.00 0.00 0.00 3.96
172 173 0.597568 CGTTCCACCACAACATGCAT 59.402 50.000 0.00 0.00 0.00 3.96
248 250 9.958234 TGCGCACACATTATTATTATTATTGTT 57.042 25.926 5.66 0.00 0.00 2.83
308 310 1.452773 GTGACAAAACATGCATGCACG 59.547 47.619 25.37 19.13 0.00 5.34
310 312 0.388659 ACAAAACATGCATGCACGGT 59.611 45.000 25.37 21.22 0.00 4.83
311 313 1.611006 ACAAAACATGCATGCACGGTA 59.389 42.857 25.37 0.00 0.00 4.02
312 314 1.984990 CAAAACATGCATGCACGGTAC 59.015 47.619 25.37 0.00 0.00 3.34
350 353 1.337728 TGTGGCGGAGAAGTGTACATG 60.338 52.381 0.00 0.00 0.00 3.21
377 380 4.948588 CATGCATGCATGTTACAACAAAC 58.051 39.130 40.30 7.53 46.20 2.93
380 383 3.995705 GCATGCATGTTACAACAAACCAT 59.004 39.130 26.79 0.36 43.03 3.55
381 384 4.143073 GCATGCATGTTACAACAAACCATG 60.143 41.667 26.79 18.58 43.03 3.66
384 387 3.184178 GCATGTTACAACAAACCATGCAC 59.816 43.478 15.71 0.00 43.03 4.57
410 415 7.744087 TGTGCTTTCTACACAAAGATTACAT 57.256 32.000 0.00 0.00 44.68 2.29
440 462 8.462143 TGACTATCAAGTTCGACAAGTATTTC 57.538 34.615 0.00 0.00 35.56 2.17
452 474 4.606961 ACAAGTATTTCACTTTGTTGCGG 58.393 39.130 0.00 0.00 45.54 5.69
457 479 2.570442 TTCACTTTGTTGCGGGTTTC 57.430 45.000 0.00 0.00 0.00 2.78
464 486 3.294493 TTGCGGGTTTCTGCTGGC 61.294 61.111 0.00 0.00 45.25 4.85
470 492 1.818674 CGGGTTTCTGCTGGCTAATTT 59.181 47.619 0.00 0.00 0.00 1.82
488 510 3.684103 TTTGTTGGACGTACAGCAAAG 57.316 42.857 31.46 0.00 43.46 2.77
514 540 5.196809 CTCGATTAGCTATTTTCGGATGC 57.803 43.478 16.47 0.00 32.67 3.91
517 543 4.926238 CGATTAGCTATTTTCGGATGCTCT 59.074 41.667 11.40 0.00 35.47 4.09
519 545 6.034044 CGATTAGCTATTTTCGGATGCTCTAC 59.966 42.308 11.40 0.00 35.47 2.59
520 546 3.996480 AGCTATTTTCGGATGCTCTACC 58.004 45.455 0.00 0.00 0.00 3.18
521 547 3.067833 GCTATTTTCGGATGCTCTACCC 58.932 50.000 0.00 0.00 0.00 3.69
523 549 3.644966 ATTTTCGGATGCTCTACCCAA 57.355 42.857 0.00 0.00 0.00 4.12
524 550 2.396590 TTTCGGATGCTCTACCCAAC 57.603 50.000 0.00 0.00 0.00 3.77
525 551 1.271856 TTCGGATGCTCTACCCAACA 58.728 50.000 0.00 0.00 0.00 3.33
528 574 1.737793 CGGATGCTCTACCCAACAAAC 59.262 52.381 0.00 0.00 0.00 2.93
533 579 2.890311 TGCTCTACCCAACAAACCAATG 59.110 45.455 0.00 0.00 0.00 2.82
544 590 0.183971 AAACCAATGGTCCACGTGGA 59.816 50.000 33.23 33.23 43.08 4.02
552 598 2.531771 TGGTCCACGTGGAGATTTCTA 58.468 47.619 37.04 19.89 46.49 2.10
638 684 2.614057 GTCGGACAGCAGAAATAATGGG 59.386 50.000 2.62 0.00 0.00 4.00
646 692 5.134339 ACAGCAGAAATAATGGGGATCCTAA 59.866 40.000 12.58 0.00 0.00 2.69
654 700 3.803186 ATGGGGATCCTAAAGAGCATG 57.197 47.619 12.58 0.00 30.22 4.06
655 701 2.492025 TGGGGATCCTAAAGAGCATGT 58.508 47.619 12.58 0.00 30.22 3.21
656 702 2.173356 TGGGGATCCTAAAGAGCATGTG 59.827 50.000 12.58 0.00 30.22 3.21
657 703 2.225467 GGGATCCTAAAGAGCATGTGC 58.775 52.381 12.58 0.00 42.49 4.57
689 747 7.869429 TGTGCATATGTGACTCTCATATAAGTG 59.131 37.037 11.54 4.89 34.81 3.16
690 748 7.869937 GTGCATATGTGACTCTCATATAAGTGT 59.130 37.037 11.54 0.00 34.81 3.55
691 749 9.077885 TGCATATGTGACTCTCATATAAGTGTA 57.922 33.333 11.54 1.64 34.81 2.90
692 750 9.347934 GCATATGTGACTCTCATATAAGTGTAC 57.652 37.037 11.54 0.00 34.81 2.90
693 751 9.548208 CATATGTGACTCTCATATAAGTGTACG 57.452 37.037 11.54 0.00 34.81 3.67
740 798 4.511527 CTCATGTTCCTGTACATCTGCTT 58.488 43.478 0.00 0.00 36.64 3.91
752 810 4.717233 ACATCTGCTTCAAACAAACACA 57.283 36.364 0.00 0.00 0.00 3.72
764 822 6.567959 TCAAACAAACACACAGCATTAATCA 58.432 32.000 0.00 0.00 0.00 2.57
767 825 6.330004 ACAAACACACAGCATTAATCATCA 57.670 33.333 0.00 0.00 0.00 3.07
768 826 6.151691 ACAAACACACAGCATTAATCATCAC 58.848 36.000 0.00 0.00 0.00 3.06
769 827 5.963176 AACACACAGCATTAATCATCACA 57.037 34.783 0.00 0.00 0.00 3.58
776 834 4.811024 CAGCATTAATCATCACAGTACGGT 59.189 41.667 0.00 0.00 0.00 4.83
786 844 5.636121 TCATCACAGTACGGTATCAAACAAC 59.364 40.000 0.00 0.00 0.00 3.32
787 845 4.946445 TCACAGTACGGTATCAAACAACA 58.054 39.130 0.00 0.00 0.00 3.33
788 846 5.543714 TCACAGTACGGTATCAAACAACAT 58.456 37.500 0.00 0.00 0.00 2.71
789 847 5.636121 TCACAGTACGGTATCAAACAACATC 59.364 40.000 0.00 0.00 0.00 3.06
790 848 4.624024 ACAGTACGGTATCAAACAACATCG 59.376 41.667 0.00 0.00 0.00 3.84
791 849 4.860352 CAGTACGGTATCAAACAACATCGA 59.140 41.667 0.00 0.00 0.00 3.59
792 850 5.346551 CAGTACGGTATCAAACAACATCGAA 59.653 40.000 0.00 0.00 0.00 3.71
793 851 4.657075 ACGGTATCAAACAACATCGAAC 57.343 40.909 0.00 0.00 0.00 3.95
794 852 4.059511 ACGGTATCAAACAACATCGAACA 58.940 39.130 0.00 0.00 0.00 3.18
795 853 4.512198 ACGGTATCAAACAACATCGAACAA 59.488 37.500 0.00 0.00 0.00 2.83
796 854 5.007823 ACGGTATCAAACAACATCGAACAAA 59.992 36.000 0.00 0.00 0.00 2.83
797 855 5.910166 CGGTATCAAACAACATCGAACAAAA 59.090 36.000 0.00 0.00 0.00 2.44
798 856 6.086241 CGGTATCAAACAACATCGAACAAAAG 59.914 38.462 0.00 0.00 0.00 2.27
799 857 6.362283 GGTATCAAACAACATCGAACAAAAGG 59.638 38.462 0.00 0.00 0.00 3.11
800 858 5.568685 TCAAACAACATCGAACAAAAGGA 57.431 34.783 0.00 0.00 0.00 3.36
801 859 5.955488 TCAAACAACATCGAACAAAAGGAA 58.045 33.333 0.00 0.00 0.00 3.36
802 860 6.568869 TCAAACAACATCGAACAAAAGGAAT 58.431 32.000 0.00 0.00 0.00 3.01
803 861 6.475076 TCAAACAACATCGAACAAAAGGAATG 59.525 34.615 0.00 0.00 0.00 2.67
804 862 4.870363 ACAACATCGAACAAAAGGAATGG 58.130 39.130 0.00 0.00 0.00 3.16
805 863 4.582656 ACAACATCGAACAAAAGGAATGGA 59.417 37.500 0.00 0.00 0.00 3.41
806 864 5.068460 ACAACATCGAACAAAAGGAATGGAA 59.932 36.000 0.00 0.00 0.00 3.53
807 865 5.121221 ACATCGAACAAAAGGAATGGAAC 57.879 39.130 0.00 0.00 0.00 3.62
830 888 4.315588 AGCAGGTCAAGCTCATGC 57.684 55.556 2.58 2.58 38.01 4.06
831 889 1.377612 AGCAGGTCAAGCTCATGCA 59.622 52.632 12.29 0.00 38.01 3.96
832 890 0.034380 AGCAGGTCAAGCTCATGCAT 60.034 50.000 12.29 0.00 38.01 3.96
833 891 0.100682 GCAGGTCAAGCTCATGCATG 59.899 55.000 21.07 21.07 42.74 4.06
834 892 0.100682 CAGGTCAAGCTCATGCATGC 59.899 55.000 22.25 11.82 42.74 4.06
835 893 1.063649 GGTCAAGCTCATGCATGCG 59.936 57.895 22.25 17.27 42.74 4.73
836 894 1.651240 GGTCAAGCTCATGCATGCGT 61.651 55.000 22.25 10.53 42.74 5.24
837 895 1.009078 GTCAAGCTCATGCATGCGTA 58.991 50.000 22.25 3.99 42.74 4.42
838 896 1.600957 GTCAAGCTCATGCATGCGTAT 59.399 47.619 22.25 6.28 42.74 3.06
839 897 2.802247 GTCAAGCTCATGCATGCGTATA 59.198 45.455 22.25 3.20 42.74 1.47
840 898 3.434641 GTCAAGCTCATGCATGCGTATAT 59.565 43.478 22.25 0.00 42.74 0.86
841 899 4.627035 GTCAAGCTCATGCATGCGTATATA 59.373 41.667 22.25 1.64 42.74 0.86
842 900 5.120674 GTCAAGCTCATGCATGCGTATATAA 59.879 40.000 22.25 0.86 42.74 0.98
843 901 5.349543 TCAAGCTCATGCATGCGTATATAAG 59.650 40.000 22.25 12.10 42.74 1.73
844 902 5.077134 AGCTCATGCATGCGTATATAAGA 57.923 39.130 22.25 3.62 42.74 2.10
845 903 5.668471 AGCTCATGCATGCGTATATAAGAT 58.332 37.500 22.25 7.24 42.74 2.40
846 904 5.752472 AGCTCATGCATGCGTATATAAGATC 59.248 40.000 22.25 0.34 42.74 2.75
847 905 5.050499 GCTCATGCATGCGTATATAAGATCC 60.050 44.000 22.25 0.00 39.41 3.36
848 906 5.976458 TCATGCATGCGTATATAAGATCCA 58.024 37.500 22.25 0.00 0.00 3.41
849 907 6.585416 TCATGCATGCGTATATAAGATCCAT 58.415 36.000 22.25 0.00 0.00 3.41
850 908 6.480981 TCATGCATGCGTATATAAGATCCATG 59.519 38.462 22.25 5.35 33.60 3.66
851 909 5.733676 TGCATGCGTATATAAGATCCATGT 58.266 37.500 14.09 0.00 33.16 3.21
852 910 5.581874 TGCATGCGTATATAAGATCCATGTG 59.418 40.000 14.09 0.00 33.16 3.21
853 911 5.582269 GCATGCGTATATAAGATCCATGTGT 59.418 40.000 0.00 0.00 33.16 3.72
854 912 6.756542 GCATGCGTATATAAGATCCATGTGTA 59.243 38.462 0.00 0.00 33.16 2.90
855 913 7.439356 GCATGCGTATATAAGATCCATGTGTAT 59.561 37.037 0.00 0.00 33.16 2.29
856 914 8.758715 CATGCGTATATAAGATCCATGTGTATG 58.241 37.037 0.00 0.00 0.00 2.39
857 915 8.062065 TGCGTATATAAGATCCATGTGTATGA 57.938 34.615 0.00 0.00 36.36 2.15
858 916 8.527810 TGCGTATATAAGATCCATGTGTATGAA 58.472 33.333 0.00 0.00 36.36 2.57
859 917 9.534565 GCGTATATAAGATCCATGTGTATGAAT 57.465 33.333 0.00 0.00 36.36 2.57
866 924 7.609097 AGATCCATGTGTATGAATAGAGTGT 57.391 36.000 0.00 0.00 36.36 3.55
867 925 8.712228 AGATCCATGTGTATGAATAGAGTGTA 57.288 34.615 0.00 0.00 36.36 2.90
868 926 8.801299 AGATCCATGTGTATGAATAGAGTGTAG 58.199 37.037 0.00 0.00 36.36 2.74
869 927 6.749139 TCCATGTGTATGAATAGAGTGTAGC 58.251 40.000 0.00 0.00 36.36 3.58
870 928 5.928839 CCATGTGTATGAATAGAGTGTAGCC 59.071 44.000 0.00 0.00 36.36 3.93
908 966 3.443925 CTCTCGCGACAGCCTCCA 61.444 66.667 3.71 0.00 41.18 3.86
975 1033 2.768344 CCTACGGCCACCCATCCT 60.768 66.667 2.24 0.00 0.00 3.24
1212 1283 2.330372 CGTTGCTGCTGCTGACCAT 61.330 57.895 17.00 0.00 40.48 3.55
1219 1290 2.187685 CTGCTGACCATGCGCCTA 59.812 61.111 4.18 0.00 0.00 3.93
1233 1304 1.748879 GCCTACCTTCAATGCCGCA 60.749 57.895 0.00 0.00 0.00 5.69
1234 1305 1.103398 GCCTACCTTCAATGCCGCAT 61.103 55.000 0.00 0.00 0.00 4.73
1428 1520 3.520862 CCATTCAAGCCGCGCCAT 61.521 61.111 0.00 0.00 0.00 4.40
1453 1545 1.209621 CCCGGACTGGATTAAAGGGA 58.790 55.000 0.73 0.00 42.00 4.20
1493 1585 2.047274 CCACCATCGACAAGCGGT 60.047 61.111 0.00 0.00 41.33 5.68
1521 1613 2.625823 CCAAATCACTTGCCGCCGT 61.626 57.895 0.00 0.00 33.27 5.68
1689 1781 4.400961 GCTGTGCGCCCCTCTTCT 62.401 66.667 4.18 0.00 0.00 2.85
1692 1784 2.815647 GTGCGCCCCTCTTCTTCG 60.816 66.667 4.18 0.00 0.00 3.79
1693 1785 3.311110 TGCGCCCCTCTTCTTCGT 61.311 61.111 4.18 0.00 0.00 3.85
1699 1791 1.490574 CCCCTCTTCTTCGTCTCCAT 58.509 55.000 0.00 0.00 0.00 3.41
1701 1793 1.066303 CCCTCTTCTTCGTCTCCATCG 59.934 57.143 0.00 0.00 0.00 3.84
1705 1797 1.310216 TTCTTCGTCTCCATCGCCGA 61.310 55.000 0.00 0.00 0.00 5.54
1707 1799 2.266376 CTTCGTCTCCATCGCCGACA 62.266 60.000 0.00 0.00 0.00 4.35
1711 1803 2.584418 CTCCATCGCCGACAGCTG 60.584 66.667 13.48 13.48 40.39 4.24
1712 1804 4.819761 TCCATCGCCGACAGCTGC 62.820 66.667 15.27 5.81 40.39 5.25
1721 1813 4.385405 GACAGCTGCCACTCGCCT 62.385 66.667 15.27 0.00 36.24 5.52
1730 1822 4.020617 CACTCGCCTCCAAGCCCA 62.021 66.667 0.00 0.00 0.00 5.36
1767 1859 0.250513 GGAATGGAGACCACTCGCTT 59.749 55.000 0.00 0.00 43.44 4.68
2548 2647 2.338984 GTGACGACAGGGAGCGTT 59.661 61.111 0.00 0.00 41.34 4.84
2621 2720 2.665000 CCTCTCTCGCCAGCCAAA 59.335 61.111 0.00 0.00 0.00 3.28
3436 3574 2.511373 CTGCCGCTGCGTTGGATA 60.511 61.111 21.59 0.00 41.78 2.59
3843 4011 0.037975 CATGTGGTTTGCTTCCTGGC 60.038 55.000 0.00 0.00 0.00 4.85
4543 4720 1.280421 CCTTAGCAAGCTGGACTCCTT 59.720 52.381 4.53 0.00 0.00 3.36
4544 4721 2.626840 CTTAGCAAGCTGGACTCCTTC 58.373 52.381 4.53 0.00 0.00 3.46
4545 4722 1.944177 TAGCAAGCTGGACTCCTTCT 58.056 50.000 4.53 0.00 0.00 2.85
4626 4806 4.671590 TCTCCGACCACTGCCCGA 62.672 66.667 0.00 0.00 0.00 5.14
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
12 13 0.035439 TCGCCAAAGCCTAGAAAGGG 60.035 55.000 0.00 0.00 43.87 3.95
33 34 3.781307 CCATGTCCCCGGCTTCGA 61.781 66.667 0.00 0.00 35.61 3.71
48 49 2.121129 TGATGATGATGAGGAGTGCCA 58.879 47.619 0.00 0.00 36.29 4.92
65 66 3.801638 GCATAGAAGTCTGCACCGATGAT 60.802 47.826 0.00 0.00 38.28 2.45
66 67 2.481969 GCATAGAAGTCTGCACCGATGA 60.482 50.000 0.00 0.00 38.28 2.92
67 68 1.863454 GCATAGAAGTCTGCACCGATG 59.137 52.381 0.00 0.00 38.28 3.84
68 69 1.202580 GGCATAGAAGTCTGCACCGAT 60.203 52.381 0.00 0.00 40.18 4.18
83 84 0.253160 ACCCAACAGGAGGAGGCATA 60.253 55.000 0.00 0.00 39.89 3.14
84 85 1.542375 ACCCAACAGGAGGAGGCAT 60.542 57.895 0.00 0.00 39.89 4.40
100 101 0.951040 CCAGAAGGAGCACGAACACC 60.951 60.000 0.00 0.00 36.89 4.16
102 103 1.301716 GCCAGAAGGAGCACGAACA 60.302 57.895 0.00 0.00 36.89 3.18
105 106 3.706373 GGGCCAGAAGGAGCACGA 61.706 66.667 4.39 0.00 36.89 4.35
115 116 3.555324 TGCAACAGTCGGGCCAGA 61.555 61.111 4.39 1.93 0.00 3.86
155 156 1.343789 CCAATGCATGTTGTGGTGGAA 59.656 47.619 0.00 0.00 0.00 3.53
169 170 6.751888 ACTTAGTAATTCGATTTTGCCAATGC 59.248 34.615 0.00 0.00 38.26 3.56
170 171 7.754924 ACACTTAGTAATTCGATTTTGCCAATG 59.245 33.333 0.00 0.00 0.00 2.82
171 172 7.754924 CACACTTAGTAATTCGATTTTGCCAAT 59.245 33.333 0.00 0.00 0.00 3.16
172 173 7.081349 CACACTTAGTAATTCGATTTTGCCAA 58.919 34.615 0.00 0.00 0.00 4.52
177 178 6.653320 TGCTCCACACTTAGTAATTCGATTTT 59.347 34.615 0.00 0.00 0.00 1.82
181 182 4.461431 TCTGCTCCACACTTAGTAATTCGA 59.539 41.667 0.00 0.00 0.00 3.71
182 183 4.744570 TCTGCTCCACACTTAGTAATTCG 58.255 43.478 0.00 0.00 0.00 3.34
222 224 9.958234 AACAATAATAATAATAATGTGTGCGCA 57.042 25.926 5.66 5.66 0.00 6.09
278 280 9.662545 CATGCATGTTTTGTCACGATATAATAA 57.337 29.630 18.91 0.00 0.00 1.40
279 281 7.802720 GCATGCATGTTTTGTCACGATATAATA 59.197 33.333 26.79 0.00 0.00 0.98
280 282 6.638063 GCATGCATGTTTTGTCACGATATAAT 59.362 34.615 26.79 0.00 0.00 1.28
281 283 5.970612 GCATGCATGTTTTGTCACGATATAA 59.029 36.000 26.79 0.00 0.00 0.98
282 284 5.065731 TGCATGCATGTTTTGTCACGATATA 59.934 36.000 26.79 0.00 0.00 0.86
283 285 4.142425 TGCATGCATGTTTTGTCACGATAT 60.142 37.500 26.79 0.00 0.00 1.63
284 286 3.190118 TGCATGCATGTTTTGTCACGATA 59.810 39.130 26.79 0.00 0.00 2.92
285 287 2.030096 TGCATGCATGTTTTGTCACGAT 60.030 40.909 26.79 0.00 0.00 3.73
296 298 2.106074 CCGTACCGTGCATGCATGT 61.106 57.895 32.28 27.73 0.00 3.21
308 310 1.535437 CCACAGCTATCGTTCCGTACC 60.535 57.143 0.00 0.00 0.00 3.34
310 312 1.466856 ACCACAGCTATCGTTCCGTA 58.533 50.000 0.00 0.00 0.00 4.02
311 313 0.606604 AACCACAGCTATCGTTCCGT 59.393 50.000 0.00 0.00 0.00 4.69
312 314 0.999406 CAACCACAGCTATCGTTCCG 59.001 55.000 0.00 0.00 0.00 4.30
313 315 1.732259 CACAACCACAGCTATCGTTCC 59.268 52.381 0.00 0.00 0.00 3.62
325 328 1.227853 ACTTCTCCGCCACAACCAC 60.228 57.895 0.00 0.00 0.00 4.16
359 362 4.143073 GCATGGTTTGTTGTAACATGCATG 60.143 41.667 25.09 25.09 39.52 4.06
360 363 3.995705 GCATGGTTTGTTGTAACATGCAT 59.004 39.130 18.07 0.00 39.52 3.96
361 364 3.181472 TGCATGGTTTGTTGTAACATGCA 60.181 39.130 20.84 20.84 42.79 3.96
362 365 3.184178 GTGCATGGTTTGTTGTAACATGC 59.816 43.478 16.60 16.60 39.81 4.06
364 367 4.662468 TGTGCATGGTTTGTTGTAACAT 57.338 36.364 0.00 0.00 38.95 2.71
365 368 4.142071 ACATGTGCATGGTTTGTTGTAACA 60.142 37.500 15.52 0.00 42.91 2.41
366 369 4.208873 CACATGTGCATGGTTTGTTGTAAC 59.791 41.667 13.94 0.00 42.91 2.50
367 370 4.366586 CACATGTGCATGGTTTGTTGTAA 58.633 39.130 13.94 0.00 42.91 2.41
368 371 3.974912 CACATGTGCATGGTTTGTTGTA 58.025 40.909 13.94 0.00 42.91 2.41
384 387 7.584108 TGTAATCTTTGTGTAGAAAGCACATG 58.416 34.615 0.00 0.00 44.91 3.21
407 412 8.771920 TGTCGAACTTGATAGTCATTAAATGT 57.228 30.769 0.00 0.00 31.99 2.71
410 415 8.827177 ACTTGTCGAACTTGATAGTCATTAAA 57.173 30.769 0.00 0.00 31.99 1.52
415 420 8.085909 TGAAATACTTGTCGAACTTGATAGTCA 58.914 33.333 0.00 0.00 31.99 3.41
416 421 8.373992 GTGAAATACTTGTCGAACTTGATAGTC 58.626 37.037 0.00 0.00 31.99 2.59
437 459 2.494073 AGAAACCCGCAACAAAGTGAAA 59.506 40.909 0.00 0.00 0.00 2.69
440 462 1.838913 CAGAAACCCGCAACAAAGTG 58.161 50.000 0.00 0.00 0.00 3.16
444 466 1.732917 CAGCAGAAACCCGCAACAA 59.267 52.632 0.00 0.00 0.00 2.83
452 474 3.942130 ACAAATTAGCCAGCAGAAACC 57.058 42.857 0.00 0.00 0.00 3.27
457 479 2.414559 CGTCCAACAAATTAGCCAGCAG 60.415 50.000 0.00 0.00 0.00 4.24
464 486 5.351233 TTGCTGTACGTCCAACAAATTAG 57.649 39.130 0.00 0.00 0.00 1.73
470 492 1.134340 ACCTTTGCTGTACGTCCAACA 60.134 47.619 0.00 0.00 0.00 3.33
494 520 4.926238 AGAGCATCCGAAAATAGCTAATCG 59.074 41.667 15.88 15.88 35.36 3.34
505 531 1.626321 TGTTGGGTAGAGCATCCGAAA 59.374 47.619 0.00 0.00 33.66 3.46
514 540 3.496331 ACCATTGGTTTGTTGGGTAGAG 58.504 45.455 1.37 0.00 34.72 2.43
517 543 2.091278 TGGACCATTGGTTTGTTGGGTA 60.091 45.455 10.29 0.00 35.25 3.69
519 545 1.069978 GTGGACCATTGGTTTGTTGGG 59.930 52.381 10.29 0.00 35.25 4.12
520 546 1.269517 CGTGGACCATTGGTTTGTTGG 60.270 52.381 10.29 0.00 35.25 3.77
521 547 1.407258 ACGTGGACCATTGGTTTGTTG 59.593 47.619 10.29 2.46 35.25 3.33
523 549 1.028905 CACGTGGACCATTGGTTTGT 58.971 50.000 10.29 3.78 35.25 2.83
524 550 0.313672 CCACGTGGACCATTGGTTTG 59.686 55.000 31.31 3.16 35.25 2.93
525 551 0.183971 TCCACGTGGACCATTGGTTT 59.816 50.000 33.23 0.00 39.78 3.27
528 574 0.253044 ATCTCCACGTGGACCATTGG 59.747 55.000 33.23 21.63 39.78 3.16
533 579 3.821421 ATAGAAATCTCCACGTGGACC 57.179 47.619 33.23 18.20 39.78 4.46
597 643 8.562052 GTCCGACGTTATATATTTTCCCAAAAT 58.438 33.333 0.00 0.23 43.19 1.82
602 648 5.119743 GCTGTCCGACGTTATATATTTTCCC 59.880 44.000 0.00 0.00 0.00 3.97
611 657 3.853831 TTTCTGCTGTCCGACGTTATA 57.146 42.857 0.00 0.00 0.00 0.98
612 658 2.736144 TTTCTGCTGTCCGACGTTAT 57.264 45.000 0.00 0.00 0.00 1.89
619 665 1.949525 CCCCATTATTTCTGCTGTCCG 59.050 52.381 0.00 0.00 0.00 4.79
638 684 1.869767 CGCACATGCTCTTTAGGATCC 59.130 52.381 2.48 2.48 39.32 3.36
646 692 1.168407 ACAGTTGCGCACATGCTCTT 61.168 50.000 11.12 0.00 39.32 2.85
677 726 6.238842 GCAAGGTACCGTACACTTATATGAGA 60.239 42.308 6.18 0.00 0.00 3.27
678 727 5.919141 GCAAGGTACCGTACACTTATATGAG 59.081 44.000 6.18 0.00 0.00 2.90
689 747 2.389962 TGGAATGCAAGGTACCGTAC 57.610 50.000 6.18 0.00 0.00 3.67
690 748 2.568062 TCTTGGAATGCAAGGTACCGTA 59.432 45.455 14.37 0.00 0.00 4.02
691 749 1.349688 TCTTGGAATGCAAGGTACCGT 59.650 47.619 14.37 0.00 0.00 4.83
692 750 2.107950 TCTTGGAATGCAAGGTACCG 57.892 50.000 14.37 0.00 0.00 4.02
693 751 3.620488 TGATCTTGGAATGCAAGGTACC 58.380 45.455 14.37 2.73 0.00 3.34
740 798 6.567959 TGATTAATGCTGTGTGTTTGTTTGA 58.432 32.000 0.00 0.00 0.00 2.69
752 810 4.811024 CCGTACTGTGATGATTAATGCTGT 59.189 41.667 0.00 0.00 0.00 4.40
764 822 5.543714 TGTTGTTTGATACCGTACTGTGAT 58.456 37.500 0.00 0.00 0.00 3.06
767 825 4.624024 CGATGTTGTTTGATACCGTACTGT 59.376 41.667 0.00 0.00 0.00 3.55
768 826 4.860352 TCGATGTTGTTTGATACCGTACTG 59.140 41.667 0.00 0.00 0.00 2.74
769 827 5.063180 TCGATGTTGTTTGATACCGTACT 57.937 39.130 0.00 0.00 0.00 2.73
776 834 7.265647 TCCTTTTGTTCGATGTTGTTTGATA 57.734 32.000 0.00 0.00 0.00 2.15
786 844 5.119931 TGTTCCATTCCTTTTGTTCGATG 57.880 39.130 0.00 0.00 0.00 3.84
787 845 5.508994 GGTTGTTCCATTCCTTTTGTTCGAT 60.509 40.000 0.00 0.00 35.97 3.59
788 846 4.202070 GGTTGTTCCATTCCTTTTGTTCGA 60.202 41.667 0.00 0.00 35.97 3.71
789 847 4.048504 GGTTGTTCCATTCCTTTTGTTCG 58.951 43.478 0.00 0.00 35.97 3.95
790 848 4.048504 CGGTTGTTCCATTCCTTTTGTTC 58.951 43.478 0.00 0.00 35.57 3.18
791 849 3.702045 TCGGTTGTTCCATTCCTTTTGTT 59.298 39.130 0.00 0.00 35.57 2.83
792 850 3.292460 TCGGTTGTTCCATTCCTTTTGT 58.708 40.909 0.00 0.00 35.57 2.83
793 851 3.857010 GCTCGGTTGTTCCATTCCTTTTG 60.857 47.826 0.00 0.00 35.57 2.44
794 852 2.296190 GCTCGGTTGTTCCATTCCTTTT 59.704 45.455 0.00 0.00 35.57 2.27
795 853 1.886542 GCTCGGTTGTTCCATTCCTTT 59.113 47.619 0.00 0.00 35.57 3.11
796 854 1.202879 TGCTCGGTTGTTCCATTCCTT 60.203 47.619 0.00 0.00 35.57 3.36
797 855 0.400213 TGCTCGGTTGTTCCATTCCT 59.600 50.000 0.00 0.00 35.57 3.36
798 856 0.804989 CTGCTCGGTTGTTCCATTCC 59.195 55.000 0.00 0.00 35.57 3.01
799 857 0.804989 CCTGCTCGGTTGTTCCATTC 59.195 55.000 0.00 0.00 35.57 2.67
800 858 0.110486 ACCTGCTCGGTTGTTCCATT 59.890 50.000 0.00 0.00 46.37 3.16
801 859 1.761174 ACCTGCTCGGTTGTTCCAT 59.239 52.632 0.00 0.00 46.37 3.41
802 860 3.236391 ACCTGCTCGGTTGTTCCA 58.764 55.556 0.00 0.00 46.37 3.53
813 871 0.034380 ATGCATGAGCTTGACCTGCT 60.034 50.000 0.00 0.00 44.24 4.24
814 872 0.100682 CATGCATGAGCTTGACCTGC 59.899 55.000 22.59 0.00 45.82 4.85
815 873 0.100682 GCATGCATGAGCTTGACCTG 59.899 55.000 30.64 0.46 45.82 4.00
816 874 1.374343 CGCATGCATGAGCTTGACCT 61.374 55.000 30.64 0.00 45.82 3.85
817 875 1.063649 CGCATGCATGAGCTTGACC 59.936 57.895 30.64 8.66 45.82 4.02
818 876 1.009078 TACGCATGCATGAGCTTGAC 58.991 50.000 30.64 9.41 45.82 3.18
819 877 1.957668 ATACGCATGCATGAGCTTGA 58.042 45.000 30.64 13.33 45.82 3.02
820 878 5.349543 TCTTATATACGCATGCATGAGCTTG 59.650 40.000 30.64 14.90 45.74 4.01
821 879 5.482006 TCTTATATACGCATGCATGAGCTT 58.518 37.500 30.64 18.92 42.74 3.74
822 880 5.077134 TCTTATATACGCATGCATGAGCT 57.923 39.130 30.64 19.11 42.74 4.09
823 881 5.050499 GGATCTTATATACGCATGCATGAGC 60.050 44.000 30.64 14.87 42.57 4.26
824 882 6.044682 TGGATCTTATATACGCATGCATGAG 58.955 40.000 30.64 28.37 0.00 2.90
825 883 5.976458 TGGATCTTATATACGCATGCATGA 58.024 37.500 30.64 10.12 0.00 3.07
826 884 6.259387 ACATGGATCTTATATACGCATGCATG 59.741 38.462 22.70 22.70 44.47 4.06
827 885 6.259387 CACATGGATCTTATATACGCATGCAT 59.741 38.462 19.57 4.54 0.00 3.96
828 886 5.581874 CACATGGATCTTATATACGCATGCA 59.418 40.000 19.57 0.00 0.00 3.96
829 887 5.582269 ACACATGGATCTTATATACGCATGC 59.418 40.000 7.91 7.91 0.00 4.06
830 888 8.758715 CATACACATGGATCTTATATACGCATG 58.241 37.037 0.00 0.00 0.00 4.06
831 889 8.695456 TCATACACATGGATCTTATATACGCAT 58.305 33.333 0.00 0.00 32.61 4.73
832 890 8.062065 TCATACACATGGATCTTATATACGCA 57.938 34.615 0.00 0.00 32.61 5.24
833 891 8.926715 TTCATACACATGGATCTTATATACGC 57.073 34.615 0.00 0.00 32.61 4.42
840 898 9.147732 ACACTCTATTCATACACATGGATCTTA 57.852 33.333 0.00 0.00 32.29 2.10
841 899 8.027524 ACACTCTATTCATACACATGGATCTT 57.972 34.615 0.00 0.00 32.29 2.40
842 900 7.609097 ACACTCTATTCATACACATGGATCT 57.391 36.000 0.00 0.00 32.29 2.75
843 901 7.543868 GCTACACTCTATTCATACACATGGATC 59.456 40.741 0.00 0.00 32.29 3.36
844 902 7.382110 GCTACACTCTATTCATACACATGGAT 58.618 38.462 0.00 0.00 34.54 3.41
845 903 6.239317 GGCTACACTCTATTCATACACATGGA 60.239 42.308 0.00 0.00 32.61 3.41
846 904 5.928839 GGCTACACTCTATTCATACACATGG 59.071 44.000 0.00 0.00 32.61 3.66
847 905 6.515832 TGGCTACACTCTATTCATACACATG 58.484 40.000 0.00 0.00 0.00 3.21
848 906 6.731292 TGGCTACACTCTATTCATACACAT 57.269 37.500 0.00 0.00 0.00 3.21
849 907 6.515832 CATGGCTACACTCTATTCATACACA 58.484 40.000 0.00 0.00 0.00 3.72
850 908 5.406780 GCATGGCTACACTCTATTCATACAC 59.593 44.000 0.00 0.00 0.00 2.90
851 909 5.511373 GGCATGGCTACACTCTATTCATACA 60.511 44.000 12.86 0.00 0.00 2.29
852 910 4.932200 GGCATGGCTACACTCTATTCATAC 59.068 45.833 12.86 0.00 0.00 2.39
853 911 4.840680 AGGCATGGCTACACTCTATTCATA 59.159 41.667 22.00 0.00 0.00 2.15
854 912 3.649981 AGGCATGGCTACACTCTATTCAT 59.350 43.478 22.00 0.00 0.00 2.57
855 913 3.041211 AGGCATGGCTACACTCTATTCA 58.959 45.455 22.00 0.00 0.00 2.57
856 914 3.658709 GAGGCATGGCTACACTCTATTC 58.341 50.000 23.39 1.67 0.00 1.75
857 915 2.036475 CGAGGCATGGCTACACTCTATT 59.964 50.000 23.39 0.00 0.00 1.73
858 916 1.615883 CGAGGCATGGCTACACTCTAT 59.384 52.381 23.39 0.00 0.00 1.98
859 917 1.032794 CGAGGCATGGCTACACTCTA 58.967 55.000 23.39 0.00 0.00 2.43
860 918 1.819229 CGAGGCATGGCTACACTCT 59.181 57.895 23.39 0.00 0.00 3.24
861 919 1.884926 GCGAGGCATGGCTACACTC 60.885 63.158 23.39 8.60 0.00 3.51
862 920 2.187946 GCGAGGCATGGCTACACT 59.812 61.111 23.39 0.00 0.00 3.55
863 921 2.897350 GGCGAGGCATGGCTACAC 60.897 66.667 23.39 13.93 0.00 2.90
864 922 4.175337 GGGCGAGGCATGGCTACA 62.175 66.667 23.39 0.00 0.00 2.74
865 923 4.175337 TGGGCGAGGCATGGCTAC 62.175 66.667 23.39 16.89 0.00 3.58
866 924 4.175337 GTGGGCGAGGCATGGCTA 62.175 66.667 23.39 2.68 0.00 3.93
901 959 4.369591 TGGGATGGGGTGGAGGCT 62.370 66.667 0.00 0.00 0.00 4.58
960 1018 2.994699 CAAGGATGGGTGGCCGTA 59.005 61.111 0.00 0.00 0.00 4.02
961 1019 4.740822 GCAAGGATGGGTGGCCGT 62.741 66.667 0.00 0.00 0.00 5.68
1140 1204 4.008933 GGCACGCAGGACACCTCT 62.009 66.667 0.00 0.00 0.00 3.69
1195 1266 1.211969 CATGGTCAGCAGCAGCAAC 59.788 57.895 3.17 0.71 45.49 4.17
1212 1283 1.748879 GGCATTGAAGGTAGGCGCA 60.749 57.895 10.83 0.00 0.00 6.09
1219 1290 2.114670 CCGATGCGGCATTGAAGGT 61.115 57.895 27.79 0.27 41.17 3.50
1233 1304 2.590092 GTAACCAGCCCAGCCGAT 59.410 61.111 0.00 0.00 0.00 4.18
1234 1305 4.077184 CGTAACCAGCCCAGCCGA 62.077 66.667 0.00 0.00 0.00 5.54
1244 1315 3.510719 GTGGAGTTATTACGCGTAACCA 58.489 45.455 32.10 28.41 33.55 3.67
1247 1318 3.772932 CTGGTGGAGTTATTACGCGTAA 58.227 45.455 31.64 31.64 0.00 3.18
1248 1319 2.480073 GCTGGTGGAGTTATTACGCGTA 60.480 50.000 16.41 16.41 0.00 4.42
1303 1374 3.389687 CGTTGAATGCGCATTTAGAGT 57.610 42.857 34.24 13.65 0.00 3.24
1428 1520 0.266453 TAATCCAGTCCGGGATGGGA 59.734 55.000 21.33 18.37 46.96 4.37
1476 1568 2.047274 ACCGCTTGTCGATGGTGG 60.047 61.111 11.45 11.45 41.67 4.61
1493 1585 1.401761 AGTGATTTGGTTGCAGCACA 58.598 45.000 2.05 0.00 0.00 4.57
1521 1613 1.896660 GTGGCCGGACTGAAAGCAA 60.897 57.895 9.82 0.00 37.60 3.91
1692 1784 2.583593 GCTGTCGGCGATGGAGAC 60.584 66.667 14.79 0.00 35.61 3.36
1705 1797 4.385405 GAGGCGAGTGGCAGCTGT 62.385 66.667 16.64 0.00 46.16 4.40
1712 1804 4.785453 GGGCTTGGAGGCGAGTGG 62.785 72.222 0.00 0.00 42.43 4.00
1714 1806 3.011517 ATGGGCTTGGAGGCGAGT 61.012 61.111 0.00 0.00 42.43 4.18
1715 1807 2.203126 GATGGGCTTGGAGGCGAG 60.203 66.667 0.00 0.00 42.43 5.03
1719 1811 4.195334 CGGGGATGGGCTTGGAGG 62.195 72.222 0.00 0.00 0.00 4.30
2621 2720 1.079197 TTGTCGCGTGATGCATCCT 60.079 52.632 23.67 0.00 46.97 3.24
3516 3654 1.433471 CTCGACATCCACTGCGCTA 59.567 57.895 9.73 0.00 0.00 4.26
3609 3747 1.517242 CGAAAGCTCAACTTGCCTCT 58.483 50.000 0.00 0.00 39.09 3.69
3843 4011 5.008619 AGTTCAGAGCATCACTGATACAG 57.991 43.478 0.00 0.00 42.68 2.74
4626 4806 1.741706 CTTGTCATCGGCAAGCAAGAT 59.258 47.619 0.00 0.00 38.90 2.40


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

AutoCloner maintained by Alex Coulton.