Multiple sequence alignment - TraesCS5D01G423400

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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 TraesCS5D01G423400 chr5D 100.000 4675 0 0 1 4675 483373499 483368825 0.000000e+00 8634.0
1 TraesCS5D01G423400 chr5D 97.152 913 26 0 2092 3004 483227792 483226880 0.000000e+00 1543.0
2 TraesCS5D01G423400 chr5D 96.484 512 17 1 1073 1583 483228791 483228280 0.000000e+00 845.0
3 TraesCS5D01G423400 chr5D 98.077 52 1 0 789 840 483372649 483372598 1.790000e-14 91.6
4 TraesCS5D01G423400 chr5D 98.077 52 1 0 851 902 483372711 483372660 1.790000e-14 91.6
5 TraesCS5D01G423400 chr5B 92.449 1523 68 26 2053 3546 593944294 593942790 0.000000e+00 2132.0
6 TraesCS5D01G423400 chr5B 95.758 943 40 0 2062 3004 593659333 593658391 0.000000e+00 1520.0
7 TraesCS5D01G423400 chr5B 86.812 1236 77 40 3482 4675 593942789 593941598 0.000000e+00 1301.0
8 TraesCS5D01G423400 chr5B 89.528 1060 65 21 1 1045 593946460 593945432 0.000000e+00 1301.0
9 TraesCS5D01G423400 chr5B 88.770 935 48 29 1065 1959 593945348 593944431 0.000000e+00 1092.0
10 TraesCS5D01G423400 chr5B 97.938 485 9 1 1073 1556 593660351 593659867 0.000000e+00 839.0
11 TraesCS5D01G423400 chr5B 88.415 164 16 2 4514 4675 593941247 593941085 1.330000e-45 195.0
12 TraesCS5D01G423400 chr5A 93.397 1363 59 13 2089 3449 604311660 604310327 0.000000e+00 1989.0
13 TraesCS5D01G423400 chr5A 95.733 914 37 2 2092 3004 603794333 603793421 0.000000e+00 1471.0
14 TraesCS5D01G423400 chr5A 89.049 904 60 11 3804 4675 604310096 604309200 0.000000e+00 1085.0
15 TraesCS5D01G423400 chr5A 94.444 684 37 1 1068 1751 604312728 604312046 0.000000e+00 1051.0
16 TraesCS5D01G423400 chr5A 97.938 485 9 1 1073 1556 603795253 603794769 0.000000e+00 839.0
17 TraesCS5D01G423400 chr5A 84.724 779 57 26 1 761 604313782 604313048 0.000000e+00 723.0
18 TraesCS5D01G423400 chr5A 80.952 252 21 12 794 1045 604313046 604312822 1.730000e-39 174.0
19 TraesCS5D01G423400 chr5A 77.667 300 41 19 4105 4384 604309332 604309039 4.840000e-35 159.0
20 TraesCS5D01G423400 chr5A 88.550 131 9 4 4105 4233 604308749 604308623 2.250000e-33 154.0
21 TraesCS5D01G423400 chr4D 94.886 880 45 0 2123 3002 341924039 341924918 0.000000e+00 1376.0
22 TraesCS5D01G423400 chr4D 94.576 885 48 0 2123 3007 341695995 341695111 0.000000e+00 1369.0
23 TraesCS5D01G423400 chr4B 94.689 885 47 0 2123 3007 423776094 423775210 0.000000e+00 1375.0
24 TraesCS5D01G423400 chr6B 94.196 896 51 1 2114 3009 665414234 665415128 0.000000e+00 1365.0
25 TraesCS5D01G423400 chr4A 96.025 478 18 1 1080 1556 124405886 124405409 0.000000e+00 776.0
26 TraesCS5D01G423400 chr2B 89.482 618 55 7 1082 1692 57652928 57653542 0.000000e+00 773.0
27 TraesCS5D01G423400 chr2B 83.547 547 53 28 3718 4242 753326258 753326789 1.180000e-130 477.0
28 TraesCS5D01G423400 chr2B 91.589 107 9 0 3920 4026 753326027 753326133 1.050000e-31 148.0
29 TraesCS5D01G423400 chr2B 90.654 107 10 0 3920 4026 753326265 753326371 4.880000e-30 143.0
30 TraesCS5D01G423400 chr2B 92.632 95 5 2 3718 3812 753326020 753326112 8.160000e-28 135.0
31 TraesCS5D01G423400 chr2B 92.857 84 5 1 3355 3437 753325309 753325392 2.280000e-23 121.0
32 TraesCS5D01G423400 chr2D 88.383 637 61 11 1067 1693 34981879 34982512 0.000000e+00 754.0
33 TraesCS5D01G423400 chr2D 84.561 570 49 28 3718 4264 617407442 617407995 3.200000e-146 529.0
34 TraesCS5D01G423400 chr2D 92.381 105 5 2 4105 4209 617408246 617408347 3.770000e-31 147.0
35 TraesCS5D01G423400 chr2D 90.654 107 10 0 3920 4026 617406984 617407090 4.880000e-30 143.0
36 TraesCS5D01G423400 chr2D 89.720 107 11 0 3920 4026 617407222 617407328 2.270000e-28 137.0
37 TraesCS5D01G423400 chr2D 85.938 128 11 4 4548 4675 617408579 617408699 3.800000e-26 130.0
38 TraesCS5D01G423400 chr2D 92.941 85 3 3 3353 3434 617406514 617406598 2.280000e-23 121.0
39 TraesCS5D01G423400 chr2A 92.045 528 42 0 1082 1609 38304981 38305508 0.000000e+00 743.0
40 TraesCS5D01G423400 chr2A 82.136 543 44 24 3718 4242 747624987 747625494 2.600000e-112 416.0
41 TraesCS5D01G423400 chr2A 93.617 94 3 2 4112 4205 747625770 747625860 2.270000e-28 137.0
42 TraesCS5D01G423400 chr2A 93.182 88 3 3 3353 3437 747623834 747623921 4.910000e-25 126.0
43 TraesCS5D01G423400 chr2A 89.216 102 10 1 4548 4649 747626106 747626206 4.910000e-25 126.0


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 TraesCS5D01G423400 chr5D 483368825 483373499 4674 True 2939.066667 8634 98.718000 1 4675 3 chr5D.!!$R2 4674
1 TraesCS5D01G423400 chr5D 483226880 483228791 1911 True 1194.000000 1543 96.818000 1073 3004 2 chr5D.!!$R1 1931
2 TraesCS5D01G423400 chr5B 593941085 593946460 5375 True 1204.200000 2132 89.194800 1 4675 5 chr5B.!!$R2 4674
3 TraesCS5D01G423400 chr5B 593658391 593660351 1960 True 1179.500000 1520 96.848000 1073 3004 2 chr5B.!!$R1 1931
4 TraesCS5D01G423400 chr5A 603793421 603795253 1832 True 1155.000000 1471 96.835500 1073 3004 2 chr5A.!!$R1 1931
5 TraesCS5D01G423400 chr5A 604308623 604313782 5159 True 762.142857 1989 86.969000 1 4675 7 chr5A.!!$R2 4674
6 TraesCS5D01G423400 chr4D 341924039 341924918 879 False 1376.000000 1376 94.886000 2123 3002 1 chr4D.!!$F1 879
7 TraesCS5D01G423400 chr4D 341695111 341695995 884 True 1369.000000 1369 94.576000 2123 3007 1 chr4D.!!$R1 884
8 TraesCS5D01G423400 chr4B 423775210 423776094 884 True 1375.000000 1375 94.689000 2123 3007 1 chr4B.!!$R1 884
9 TraesCS5D01G423400 chr6B 665414234 665415128 894 False 1365.000000 1365 94.196000 2114 3009 1 chr6B.!!$F1 895
10 TraesCS5D01G423400 chr2B 57652928 57653542 614 False 773.000000 773 89.482000 1082 1692 1 chr2B.!!$F1 610
11 TraesCS5D01G423400 chr2B 753325309 753326789 1480 False 204.800000 477 90.255800 3355 4242 5 chr2B.!!$F2 887
12 TraesCS5D01G423400 chr2D 34981879 34982512 633 False 754.000000 754 88.383000 1067 1693 1 chr2D.!!$F1 626
13 TraesCS5D01G423400 chr2D 617406514 617408699 2185 False 201.166667 529 89.365833 3353 4675 6 chr2D.!!$F2 1322
14 TraesCS5D01G423400 chr2A 38304981 38305508 527 False 743.000000 743 92.045000 1082 1609 1 chr2A.!!$F1 527
15 TraesCS5D01G423400 chr2A 747623834 747626206 2372 False 201.250000 416 89.537750 3353 4649 4 chr2A.!!$F2 1296

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
241 248 0.178932 ATATAGCGCCACCCCTCTCA 60.179 55.0 2.29 0.00 0.00 3.27 F
1139 1257 0.107703 TCATTGGCCATGTCGACTCC 60.108 55.0 17.92 12.55 34.06 3.85 F
1800 2061 0.251297 TGGTCAGAATGGCTTGGTGG 60.251 55.0 0.00 0.00 43.10 4.61 F
2522 3013 0.529833 AGATGCACCACGAGTCTCTG 59.470 55.0 0.00 0.00 0.00 3.35 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1792 2053 1.181098 ACCTGCACATTCCACCAAGC 61.181 55.000 0.00 0.0 0.0 4.01 R
3091 3582 1.530419 TGCAACAACGCCCAGGAAT 60.530 52.632 0.00 0.0 0.0 3.01 R
3349 3845 0.109781 GGCGCACACACAAAATCGAT 60.110 50.000 10.83 0.0 0.0 3.59 R
4466 5935 0.387239 GCAATGCAACGAGGTTCACC 60.387 55.000 0.00 0.0 0.0 4.02 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
34 41 2.035312 AGCTGGAGCCAAGCCAAG 59.965 61.111 0.00 0.00 43.38 3.61
38 45 2.601367 GGAGCCAAGCCAAGCCAA 60.601 61.111 0.00 0.00 0.00 4.52
39 46 2.653115 GAGCCAAGCCAAGCCAAC 59.347 61.111 0.00 0.00 0.00 3.77
40 47 2.919328 AGCCAAGCCAAGCCAACC 60.919 61.111 0.00 0.00 0.00 3.77
41 48 4.007644 GCCAAGCCAAGCCAACCC 62.008 66.667 0.00 0.00 0.00 4.11
42 49 2.523902 CCAAGCCAAGCCAACCCA 60.524 61.111 0.00 0.00 0.00 4.51
43 50 2.736531 CAAGCCAAGCCAACCCAC 59.263 61.111 0.00 0.00 0.00 4.61
44 51 1.833934 CAAGCCAAGCCAACCCACT 60.834 57.895 0.00 0.00 0.00 4.00
45 52 1.075301 AAGCCAAGCCAACCCACTT 60.075 52.632 0.00 0.00 0.00 3.16
46 53 1.115326 AAGCCAAGCCAACCCACTTC 61.115 55.000 0.00 0.00 0.00 3.01
47 54 2.574018 GCCAAGCCAACCCACTTCC 61.574 63.158 0.00 0.00 0.00 3.46
48 55 1.908299 CCAAGCCAACCCACTTCCC 60.908 63.158 0.00 0.00 0.00 3.97
49 56 2.115266 AAGCCAACCCACTTCCCG 59.885 61.111 0.00 0.00 0.00 5.14
115 122 2.380410 CCCGAAACGTCCAGAAGCG 61.380 63.158 0.00 0.00 0.00 4.68
116 123 2.470286 CGAAACGTCCAGAAGCGC 59.530 61.111 0.00 0.00 0.00 5.92
241 248 0.178932 ATATAGCGCCACCCCTCTCA 60.179 55.000 2.29 0.00 0.00 3.27
243 250 3.771531 TATAGCGCCACCCCTCTCACA 62.772 57.143 2.29 0.00 0.00 3.58
268 275 0.328548 CCCTTCCTACCATTCCCCCT 60.329 60.000 0.00 0.00 0.00 4.79
345 368 2.590092 CCTTCCCCCGCTTCGATT 59.410 61.111 0.00 0.00 0.00 3.34
349 372 2.125269 CCCCCGCTTCGATTCGTT 60.125 61.111 5.89 0.00 0.00 3.85
350 373 2.171725 CCCCCGCTTCGATTCGTTC 61.172 63.158 5.89 0.00 0.00 3.95
353 376 0.370273 CCCGCTTCGATTCGTTCTTG 59.630 55.000 5.89 0.00 0.00 3.02
354 377 1.068474 CCGCTTCGATTCGTTCTTGT 58.932 50.000 5.89 0.00 0.00 3.16
356 379 2.096417 CCGCTTCGATTCGTTCTTGTTT 60.096 45.455 5.89 0.00 0.00 2.83
358 381 2.652172 GCTTCGATTCGTTCTTGTTTGC 59.348 45.455 5.89 0.00 0.00 3.68
359 382 2.570468 TCGATTCGTTCTTGTTTGCG 57.430 45.000 5.89 0.00 0.00 4.85
360 383 2.128821 TCGATTCGTTCTTGTTTGCGA 58.871 42.857 5.89 0.00 0.00 5.10
361 384 2.734606 TCGATTCGTTCTTGTTTGCGAT 59.265 40.909 5.89 0.00 33.27 4.58
363 386 3.181530 CGATTCGTTCTTGTTTGCGATCT 60.182 43.478 0.00 0.00 33.27 2.75
364 387 3.788434 TTCGTTCTTGTTTGCGATCTC 57.212 42.857 0.00 0.00 33.27 2.75
365 388 1.719246 TCGTTCTTGTTTGCGATCTCG 59.281 47.619 0.00 0.00 43.27 4.04
366 389 1.455786 CGTTCTTGTTTGCGATCTCGT 59.544 47.619 1.14 0.00 42.22 4.18
367 390 2.659757 CGTTCTTGTTTGCGATCTCGTA 59.340 45.455 1.14 0.00 42.22 3.43
368 391 3.303495 CGTTCTTGTTTGCGATCTCGTAT 59.697 43.478 1.14 0.00 42.22 3.06
369 392 4.569029 GTTCTTGTTTGCGATCTCGTATG 58.431 43.478 1.14 0.00 42.22 2.39
370 393 3.186909 TCTTGTTTGCGATCTCGTATGG 58.813 45.455 1.14 0.00 42.22 2.74
371 394 1.286501 TGTTTGCGATCTCGTATGGC 58.713 50.000 1.14 1.74 42.22 4.40
415 438 2.222596 CGTCTGTTTAGTCGCTGCAATC 60.223 50.000 0.00 0.00 0.00 2.67
445 468 3.515901 AGATCGAGTTGTAGGCTCCTTTT 59.484 43.478 0.00 0.00 0.00 2.27
478 502 1.068748 TGCTGTTCTCGTCCGTAGTTC 60.069 52.381 0.00 0.00 0.00 3.01
507 531 2.674852 TCGAGCATGCTTCTGTTTCATC 59.325 45.455 23.61 3.81 0.00 2.92
532 556 1.313772 GCTCTGCTGGTAGATCGAGA 58.686 55.000 0.00 0.00 0.00 4.04
543 569 6.806249 GCTGGTAGATCGAGATTTAGATTCTG 59.194 42.308 0.00 0.00 0.00 3.02
575 601 0.438830 GCATGTTGTTCTCGTCCGTC 59.561 55.000 0.00 0.00 0.00 4.79
594 620 0.179215 CGTTTGAAGGATGCACGCTC 60.179 55.000 0.00 0.00 0.00 5.03
625 652 3.273434 TCGTAGCGTAGTCTGTTGGTAT 58.727 45.455 0.00 0.00 0.00 2.73
633 660 4.037208 CGTAGTCTGTTGGTATATCGGGTT 59.963 45.833 0.00 0.00 0.00 4.11
650 677 2.805671 GGGTTGCAGGTGTTTATTTTGC 59.194 45.455 0.00 0.00 35.42 3.68
679 706 1.068585 GTGGTTCTCGTCCGTGGTT 59.931 57.895 0.00 0.00 0.00 3.67
682 709 1.226030 GGTTCTCGTCCGTGGTTTGG 61.226 60.000 0.00 0.00 0.00 3.28
723 750 3.675467 GCTTTGTAGCCGTAAATCTGG 57.325 47.619 0.00 0.00 41.74 3.86
757 784 5.907207 AGTTTAGAATCTCTTATGCGCTGA 58.093 37.500 9.73 0.68 0.00 4.26
782 809 3.744238 AGCTGTTTTTGGCCGTAATTT 57.256 38.095 0.00 0.00 0.00 1.82
792 819 4.769859 TGGCCGTAATTTTAAGGTGTTC 57.230 40.909 0.00 0.00 35.15 3.18
830 857 7.041508 GCCTTGATATGTAGGATTTCTCTGTTG 60.042 40.741 4.27 0.00 33.13 3.33
854 881 3.064207 TGTTGTTAGCGAGGACATGTTC 58.936 45.455 0.00 0.00 0.00 3.18
855 882 3.244078 TGTTGTTAGCGAGGACATGTTCT 60.244 43.478 6.28 6.28 0.00 3.01
867 894 2.744787 CATGTTCTTCATGCCGTAGC 57.255 50.000 0.00 0.00 45.69 3.58
869 896 0.613260 TGTTCTTCATGCCGTAGCCT 59.387 50.000 0.00 0.00 38.69 4.58
870 897 1.003118 TGTTCTTCATGCCGTAGCCTT 59.997 47.619 0.00 0.00 38.69 4.35
871 898 1.398390 GTTCTTCATGCCGTAGCCTTG 59.602 52.381 0.00 0.00 38.69 3.61
872 899 0.901827 TCTTCATGCCGTAGCCTTGA 59.098 50.000 0.00 0.00 38.69 3.02
874 901 2.698274 TCTTCATGCCGTAGCCTTGATA 59.302 45.455 0.00 0.00 38.69 2.15
875 902 3.324846 TCTTCATGCCGTAGCCTTGATAT 59.675 43.478 0.00 0.00 38.69 1.63
876 903 3.044235 TCATGCCGTAGCCTTGATATG 57.956 47.619 0.00 0.00 38.69 1.78
877 904 2.368548 TCATGCCGTAGCCTTGATATGT 59.631 45.455 0.00 0.00 38.69 2.29
878 905 3.576550 TCATGCCGTAGCCTTGATATGTA 59.423 43.478 0.00 0.00 38.69 2.29
879 906 3.660501 TGCCGTAGCCTTGATATGTAG 57.339 47.619 0.00 0.00 38.69 2.74
880 907 2.299013 TGCCGTAGCCTTGATATGTAGG 59.701 50.000 0.00 0.00 38.69 3.18
881 908 2.561419 GCCGTAGCCTTGATATGTAGGA 59.439 50.000 4.27 0.00 33.13 2.94
882 909 3.195825 GCCGTAGCCTTGATATGTAGGAT 59.804 47.826 4.27 0.72 33.13 3.24
883 910 4.322801 GCCGTAGCCTTGATATGTAGGATT 60.323 45.833 4.27 0.00 33.13 3.01
885 912 5.869888 CCGTAGCCTTGATATGTAGGATTTC 59.130 44.000 4.27 0.00 33.13 2.17
886 913 6.295349 CCGTAGCCTTGATATGTAGGATTTCT 60.295 42.308 4.27 0.00 33.13 2.52
887 914 6.809196 CGTAGCCTTGATATGTAGGATTTCTC 59.191 42.308 4.27 0.00 33.13 2.87
888 915 7.309499 CGTAGCCTTGATATGTAGGATTTCTCT 60.309 40.741 4.27 0.00 33.13 3.10
889 916 6.767456 AGCCTTGATATGTAGGATTTCTCTG 58.233 40.000 4.27 0.00 33.13 3.35
890 917 6.328672 AGCCTTGATATGTAGGATTTCTCTGT 59.671 38.462 4.27 0.00 33.13 3.41
891 918 6.995091 GCCTTGATATGTAGGATTTCTCTGTT 59.005 38.462 4.27 0.00 33.13 3.16
892 919 7.041508 GCCTTGATATGTAGGATTTCTCTGTTG 60.042 40.741 4.27 0.00 33.13 3.33
893 920 7.989741 CCTTGATATGTAGGATTTCTCTGTTGT 59.010 37.037 0.00 0.00 33.13 3.32
896 923 9.987272 TGATATGTAGGATTTCTCTGTTGTATG 57.013 33.333 0.00 0.00 0.00 2.39
897 924 9.988815 GATATGTAGGATTTCTCTGTTGTATGT 57.011 33.333 0.00 0.00 0.00 2.29
917 944 4.651778 TGTTGTTTGGTTCTAGGATCTGG 58.348 43.478 0.00 0.00 0.00 3.86
921 948 4.254492 GTTTGGTTCTAGGATCTGGTGTC 58.746 47.826 0.00 0.00 0.00 3.67
922 949 2.100197 TGGTTCTAGGATCTGGTGTCG 58.900 52.381 0.00 0.00 0.00 4.35
963 990 1.536073 TTCCCGTCTGCAGTCTCTGG 61.536 60.000 14.67 11.17 31.21 3.86
1027 1054 6.826741 GGTTTATTGGATCTAACTTGTGCCTA 59.173 38.462 0.00 0.00 0.00 3.93
1039 1066 4.460263 ACTTGTGCCTACAGTTTGATTGA 58.540 39.130 0.00 0.00 38.23 2.57
1058 1138 8.621532 TGATTGACTTGACAGCTACTAAATTT 57.378 30.769 0.00 0.00 0.00 1.82
1139 1257 0.107703 TCATTGGCCATGTCGACTCC 60.108 55.000 17.92 12.55 34.06 3.85
1239 1357 1.023513 AGCCGCTGAGATGAACAAGC 61.024 55.000 0.00 0.00 0.00 4.01
1244 1362 0.994995 CTGAGATGAACAAGCGGTCG 59.005 55.000 0.00 0.00 0.00 4.79
1571 1689 9.503399 AAGGTATACTTTCTGTTAACCTTTCAG 57.497 33.333 2.48 0.00 43.77 3.02
1573 1691 9.933723 GGTATACTTTCTGTTAACCTTTCAGTA 57.066 33.333 2.48 4.06 32.62 2.74
1655 1887 4.256920 AGTTACTTGATCACTGTCCATGC 58.743 43.478 0.00 0.00 0.00 4.06
1689 1921 4.101585 AGAAACTCCATGTGAACTGACTGA 59.898 41.667 0.00 0.00 0.00 3.41
1703 1935 5.283457 ACTGACTGACATTTATCTAGCCC 57.717 43.478 0.00 0.00 0.00 5.19
1704 1936 4.716784 ACTGACTGACATTTATCTAGCCCA 59.283 41.667 0.00 0.00 0.00 5.36
1705 1937 5.023533 TGACTGACATTTATCTAGCCCAC 57.976 43.478 0.00 0.00 0.00 4.61
1706 1938 4.469586 TGACTGACATTTATCTAGCCCACA 59.530 41.667 0.00 0.00 0.00 4.17
1707 1939 5.130975 TGACTGACATTTATCTAGCCCACAT 59.869 40.000 0.00 0.00 0.00 3.21
1708 1940 6.006275 ACTGACATTTATCTAGCCCACATT 57.994 37.500 0.00 0.00 0.00 2.71
1710 1942 6.543831 ACTGACATTTATCTAGCCCACATTTC 59.456 38.462 0.00 0.00 0.00 2.17
1783 2044 6.623486 TCAGAATGACTTAAAATGTGCATGG 58.377 36.000 0.00 0.00 42.56 3.66
1792 2053 3.880047 AAATGTGCATGGTCAGAATGG 57.120 42.857 0.00 0.00 36.16 3.16
1799 2060 1.475280 CATGGTCAGAATGGCTTGGTG 59.525 52.381 0.00 0.00 43.10 4.17
1800 2061 0.251297 TGGTCAGAATGGCTTGGTGG 60.251 55.000 0.00 0.00 43.10 4.61
1806 2067 2.094390 CAGAATGGCTTGGTGGAATGTG 60.094 50.000 0.00 0.00 0.00 3.21
1817 2078 2.353011 GGTGGAATGTGCAGGTTCATTG 60.353 50.000 5.11 0.00 34.92 2.82
1840 2234 9.845740 ATTGGTAGTACTGAATTGCATTGTATA 57.154 29.630 5.39 0.00 0.00 1.47
1886 2291 3.191371 CCTGGTTGTTTCATAGCTTCACC 59.809 47.826 0.00 0.00 0.00 4.02
1906 2311 2.163815 CCGAGTAGGTCACTAGTTGTGG 59.836 54.545 4.86 0.00 46.20 4.17
1940 2345 4.457834 ACTTCACTAACTGGGATCTTCG 57.542 45.455 0.00 0.00 0.00 3.79
1941 2346 2.961526 TCACTAACTGGGATCTTCGC 57.038 50.000 0.00 0.00 0.00 4.70
1960 2379 6.471198 TCTTCGCGTACTGACTTTGTTATATG 59.529 38.462 5.77 0.00 0.00 1.78
1962 2381 6.784176 TCGCGTACTGACTTTGTTATATGTA 58.216 36.000 5.77 0.00 0.00 2.29
1982 2401 6.911250 TGTAACTACCTCTGATTGAACTGA 57.089 37.500 0.00 0.00 0.00 3.41
2013 2432 8.834004 ATGTCTTGTACTTAGTTATGGAGGTA 57.166 34.615 0.00 0.00 0.00 3.08
2017 2436 9.624373 TCTTGTACTTAGTTATGGAGGTAGTAG 57.376 37.037 0.00 0.00 0.00 2.57
2018 2437 9.406113 CTTGTACTTAGTTATGGAGGTAGTAGT 57.594 37.037 0.00 0.00 0.00 2.73
2032 2451 8.696374 TGGAGGTAGTAGTTTAGAAATGAGATG 58.304 37.037 0.00 0.00 0.00 2.90
2048 2467 8.831715 AAATGAGATGGTTTGTTTGGTTATTC 57.168 30.769 0.00 0.00 0.00 1.75
2057 2476 7.139392 GGTTTGTTTGGTTATTCTCTCTTGTC 58.861 38.462 0.00 0.00 0.00 3.18
2058 2477 7.201785 GGTTTGTTTGGTTATTCTCTCTTGTCA 60.202 37.037 0.00 0.00 0.00 3.58
2081 2562 9.751542 GTCATGATACATACTAGTGCTTTACTT 57.248 33.333 5.39 0.00 40.89 2.24
2141 2632 0.622738 AGATGGATGCCACCACTCCT 60.623 55.000 1.07 0.00 43.03 3.69
2522 3013 0.529833 AGATGCACCACGAGTCTCTG 59.470 55.000 0.00 0.00 0.00 3.35
2687 3178 1.990060 CCACCCTGGTCAGATCGGT 60.990 63.158 0.00 0.00 31.35 4.69
2909 3400 2.557805 CGCTTTGCTGTGCGTGAT 59.442 55.556 9.01 0.00 46.09 3.06
3185 3677 5.991328 TTCGATTCCATTATTGTGCTCTC 57.009 39.130 0.00 0.00 0.00 3.20
3228 3720 3.244387 TGCCTGTGTTGAATGCTAGTACA 60.244 43.478 0.00 0.00 0.00 2.90
3233 3725 7.041721 CCTGTGTTGAATGCTAGTACAAGATA 58.958 38.462 0.00 0.00 0.00 1.98
3235 3727 7.611770 TGTGTTGAATGCTAGTACAAGATAGT 58.388 34.615 0.00 0.00 0.00 2.12
3284 3776 6.481313 GCAATTTCACTCTGCTATCATACTGA 59.519 38.462 0.00 0.00 33.20 3.41
3299 3791 5.664457 TCATACTGAGGTGAATACTGCTTG 58.336 41.667 0.00 0.00 0.00 4.01
3310 3806 5.005740 TGAATACTGCTTGTGATGAGCTTT 58.994 37.500 0.00 0.00 40.75 3.51
3349 3845 8.644374 ATTACAGTAATTTTGTTAGGAGCCAA 57.356 30.769 0.00 0.00 0.00 4.52
3351 3847 7.158099 ACAGTAATTTTGTTAGGAGCCAATC 57.842 36.000 0.00 0.00 0.00 2.67
3358 3854 4.963276 TGTTAGGAGCCAATCGATTTTG 57.037 40.909 8.21 3.95 0.00 2.44
3443 3966 2.351726 GAGGCGCATAGTGATTCGTTTT 59.648 45.455 10.83 0.00 0.00 2.43
3463 3989 5.413309 TTTTTCTGCTTCCAAAGGTTTGA 57.587 34.783 3.95 0.00 40.55 2.69
3464 3990 5.612725 TTTTCTGCTTCCAAAGGTTTGAT 57.387 34.783 3.95 0.00 40.55 2.57
3465 3991 6.723298 TTTTCTGCTTCCAAAGGTTTGATA 57.277 33.333 3.95 0.00 40.55 2.15
3466 3992 6.916360 TTTCTGCTTCCAAAGGTTTGATAT 57.084 33.333 3.95 0.00 40.55 1.63
3467 3993 5.902613 TCTGCTTCCAAAGGTTTGATATG 57.097 39.130 3.95 0.00 40.55 1.78
3468 3994 5.569355 TCTGCTTCCAAAGGTTTGATATGA 58.431 37.500 3.95 0.00 40.55 2.15
3470 3996 6.024552 TGCTTCCAAAGGTTTGATATGAAC 57.975 37.500 3.95 0.00 40.55 3.18
3471 3997 5.774690 TGCTTCCAAAGGTTTGATATGAACT 59.225 36.000 3.95 0.00 40.55 3.01
3474 4000 7.970614 GCTTCCAAAGGTTTGATATGAACTTAG 59.029 37.037 3.95 0.00 40.55 2.18
3512 4132 1.541588 GTTCTGACCATTTGTGCTCCC 59.458 52.381 0.00 0.00 0.00 4.30
3538 4224 1.743958 CTCTCAGCTTTGGCATCTTGG 59.256 52.381 0.00 0.00 41.70 3.61
3569 4265 5.239306 TCTTTCTCAAAGTTAGTGGCACATG 59.761 40.000 21.41 8.56 39.34 3.21
3571 4267 3.072330 TCTCAAAGTTAGTGGCACATGGA 59.928 43.478 21.41 6.23 44.52 3.41
3573 4269 1.826385 AAGTTAGTGGCACATGGAGC 58.174 50.000 21.41 0.00 44.52 4.70
3575 4271 2.187958 AGTTAGTGGCACATGGAGCTA 58.812 47.619 21.41 3.63 44.52 3.32
3576 4272 2.571653 AGTTAGTGGCACATGGAGCTAA 59.428 45.455 21.41 4.78 44.52 3.09
3600 4337 4.973168 TCCATAGTCTCAACTTTGTGCTT 58.027 39.130 0.00 0.00 36.92 3.91
3601 4338 6.109156 TCCATAGTCTCAACTTTGTGCTTA 57.891 37.500 0.00 0.00 36.92 3.09
3634 4372 6.594788 ATCTTTTCTGCTCATTGCCTTTTA 57.405 33.333 0.00 0.00 42.00 1.52
3643 4381 9.189156 TCTGCTCATTGCCTTTTAATTATAGTT 57.811 29.630 0.00 0.00 42.00 2.24
3710 4448 2.373540 TTTTGGCATCATGCTTGCTC 57.626 45.000 10.11 9.77 44.28 4.26
3735 4476 5.549742 TTTGTTTGGCAATGAGGATTCTT 57.450 34.783 0.00 0.00 36.89 2.52
3747 4488 5.395682 TGAGGATTCTTTCTGCAAAATGG 57.604 39.130 0.00 0.00 0.00 3.16
3770 4511 0.394899 CTCTGTGGATTCAAGCCCCC 60.395 60.000 0.00 0.00 0.00 5.40
3776 4517 0.897621 GGATTCAAGCCCCCTGTTTG 59.102 55.000 0.00 0.00 36.58 2.93
3825 5023 8.890718 CAGATATAATATGTGCTGCTTATTGCT 58.109 33.333 0.00 0.00 43.37 3.91
3836 5034 4.561606 GCTGCTTATTGCTCAGTGATTTTG 59.438 41.667 0.00 0.00 43.37 2.44
3846 5044 5.123820 TGCTCAGTGATTTTGGTAGTAATGC 59.876 40.000 0.00 0.00 0.00 3.56
3896 5101 0.863144 CAACTGCCTTTGTTGCATGC 59.137 50.000 11.82 11.82 38.36 4.06
3897 5102 0.249996 AACTGCCTTTGTTGCATGCC 60.250 50.000 16.68 0.28 38.22 4.40
3898 5103 1.368209 CTGCCTTTGTTGCATGCCA 59.632 52.632 16.68 0.00 38.22 4.92
3899 5104 0.036765 CTGCCTTTGTTGCATGCCAT 60.037 50.000 16.68 0.00 38.22 4.40
3909 5114 7.333921 CCTTTGTTGCATGCCATCTTAAATTTA 59.666 33.333 16.68 0.00 0.00 1.40
4044 5466 6.662755 TCTGAGGTATTCCATATTGTGCTTT 58.337 36.000 0.00 0.00 35.89 3.51
4139 5561 4.611310 ATGATGAGAAAAGTCATGCACG 57.389 40.909 0.00 0.00 37.29 5.34
4224 5647 3.810310 CACCTCATGGAGACCTACTTC 57.190 52.381 0.00 0.00 37.04 3.01
4290 5723 2.230660 ACTGTTTCCAGCTTTAGCCAC 58.769 47.619 0.00 0.00 42.81 5.01
4292 5725 3.072476 ACTGTTTCCAGCTTTAGCCACTA 59.928 43.478 0.00 0.00 42.81 2.74
4294 5727 3.072476 TGTTTCCAGCTTTAGCCACTAGT 59.928 43.478 0.00 0.00 43.38 2.57
4367 5802 7.548097 AGTAATGTACAGAAACAGATGACGAT 58.452 34.615 0.33 0.00 31.70 3.73
4397 5848 2.565841 AGAGCGGGCTGAAATTACATC 58.434 47.619 0.00 0.00 0.00 3.06
4511 5981 5.997746 TCTGAATTACTTGTTCTGGGTTGAG 59.002 40.000 0.00 0.00 0.00 3.02
4516 5986 2.624838 ACTTGTTCTGGGTTGAGCATTG 59.375 45.455 0.00 0.00 0.00 2.82
4552 6023 0.600057 GCTCTGTGGAAGCAAAAGGG 59.400 55.000 0.00 0.00 0.00 3.95
4575 6046 6.825721 GGGTATGATGAGAAAAGTCATGAACT 59.174 38.462 0.00 0.00 37.29 3.01
4583 6054 7.374272 TGAGAAAAGTCATGAACTACTCTGAG 58.626 38.462 2.45 2.45 37.17 3.35
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
13 14 2.033141 GCTTGGCTCCAGCTGTCA 59.967 61.111 13.81 2.64 41.70 3.58
34 41 2.203437 AACGGGAAGTGGGTTGGC 60.203 61.111 0.00 0.00 0.00 4.52
241 248 2.727429 TGGTAGGAAGGGGTTAGTGT 57.273 50.000 0.00 0.00 0.00 3.55
243 250 3.120898 GGAATGGTAGGAAGGGGTTAGT 58.879 50.000 0.00 0.00 0.00 2.24
289 302 0.176910 CCTCGAAGGAAGAAGGAGCC 59.823 60.000 0.00 0.00 37.67 4.70
345 368 1.719246 CGAGATCGCAAACAAGAACGA 59.281 47.619 0.00 0.00 39.11 3.85
349 372 3.186909 CCATACGAGATCGCAAACAAGA 58.813 45.455 1.39 0.00 44.43 3.02
350 373 2.285834 GCCATACGAGATCGCAAACAAG 60.286 50.000 1.39 0.00 44.43 3.16
353 376 1.258982 CAGCCATACGAGATCGCAAAC 59.741 52.381 1.39 0.00 44.43 2.93
354 377 1.570813 CAGCCATACGAGATCGCAAA 58.429 50.000 1.39 0.00 44.43 3.68
356 379 1.363807 CCAGCCATACGAGATCGCA 59.636 57.895 1.39 0.00 44.43 5.10
358 381 0.032678 AAGCCAGCCATACGAGATCG 59.967 55.000 0.00 0.00 46.33 3.69
359 382 1.069204 TGAAGCCAGCCATACGAGATC 59.931 52.381 0.00 0.00 0.00 2.75
360 383 1.069823 CTGAAGCCAGCCATACGAGAT 59.930 52.381 0.00 0.00 33.07 2.75
361 384 0.461548 CTGAAGCCAGCCATACGAGA 59.538 55.000 0.00 0.00 33.07 4.04
363 386 1.069204 GATCTGAAGCCAGCCATACGA 59.931 52.381 0.00 0.00 40.20 3.43
364 387 1.069823 AGATCTGAAGCCAGCCATACG 59.930 52.381 0.00 0.00 40.20 3.06
365 388 2.926778 AGATCTGAAGCCAGCCATAC 57.073 50.000 0.00 0.00 40.20 2.39
366 389 3.262660 CCATAGATCTGAAGCCAGCCATA 59.737 47.826 5.18 0.00 40.20 2.74
367 390 2.040012 CCATAGATCTGAAGCCAGCCAT 59.960 50.000 5.18 0.00 40.20 4.40
368 391 1.419012 CCATAGATCTGAAGCCAGCCA 59.581 52.381 5.18 0.00 40.20 4.75
369 392 1.881498 GCCATAGATCTGAAGCCAGCC 60.881 57.143 5.18 0.00 40.20 4.85
370 393 1.072015 AGCCATAGATCTGAAGCCAGC 59.928 52.381 5.18 0.00 40.20 4.85
371 394 2.104451 ACAGCCATAGATCTGAAGCCAG 59.896 50.000 5.18 3.76 41.74 4.85
419 442 3.251487 GGAGCCTACAACTCGATCTACTC 59.749 52.174 0.00 0.00 34.87 2.59
445 468 2.809174 CAGCACGAATCACCGCGA 60.809 61.111 8.23 0.00 0.00 5.87
507 531 1.140589 CTACCAGCAGAGCACGGAG 59.859 63.158 4.74 0.00 0.00 4.63
532 556 6.567321 GCATCAGCGCATAACAGAATCTAAAT 60.567 38.462 11.47 0.00 0.00 1.40
575 601 0.179215 GAGCGTGCATCCTTCAAACG 60.179 55.000 0.00 0.00 37.32 3.60
625 652 3.637911 ATAAACACCTGCAACCCGATA 57.362 42.857 0.00 0.00 0.00 2.92
633 660 1.339610 AGCGCAAAATAAACACCTGCA 59.660 42.857 11.47 0.00 33.19 4.41
650 677 0.376152 GAGAACCACATGCATCAGCG 59.624 55.000 0.00 0.00 46.23 5.18
749 776 1.592400 AACAGCTTGCATCAGCGCAT 61.592 50.000 11.47 0.00 45.24 4.73
757 784 0.600782 CGGCCAAAAACAGCTTGCAT 60.601 50.000 2.24 0.00 0.00 3.96
782 809 1.349688 ACGGCATGAGGAACACCTTAA 59.650 47.619 0.00 0.00 33.73 1.85
792 819 0.107456 ATCAAGGCTACGGCATGAGG 59.893 55.000 0.00 0.00 38.53 3.86
830 857 4.181578 ACATGTCCTCGCTAACAACATAC 58.818 43.478 0.00 0.00 0.00 2.39
854 881 1.959042 ATCAAGGCTACGGCATGAAG 58.041 50.000 0.00 0.00 38.59 3.02
855 882 3.181455 ACATATCAAGGCTACGGCATGAA 60.181 43.478 0.00 0.00 38.59 2.57
861 888 5.407407 AATCCTACATATCAAGGCTACGG 57.593 43.478 0.00 0.00 32.55 4.02
865 892 6.328672 ACAGAGAAATCCTACATATCAAGGCT 59.671 38.462 0.00 0.00 32.55 4.58
867 894 7.989741 ACAACAGAGAAATCCTACATATCAAGG 59.010 37.037 0.00 0.00 0.00 3.61
870 897 9.987272 CATACAACAGAGAAATCCTACATATCA 57.013 33.333 0.00 0.00 0.00 2.15
871 898 9.988815 ACATACAACAGAGAAATCCTACATATC 57.011 33.333 0.00 0.00 0.00 1.63
874 901 8.103305 ACAACATACAACAGAGAAATCCTACAT 58.897 33.333 0.00 0.00 0.00 2.29
875 902 7.450074 ACAACATACAACAGAGAAATCCTACA 58.550 34.615 0.00 0.00 0.00 2.74
876 903 7.907214 ACAACATACAACAGAGAAATCCTAC 57.093 36.000 0.00 0.00 0.00 3.18
877 904 8.783093 CAAACAACATACAACAGAGAAATCCTA 58.217 33.333 0.00 0.00 0.00 2.94
878 905 7.255590 CCAAACAACATACAACAGAGAAATCCT 60.256 37.037 0.00 0.00 0.00 3.24
879 906 6.863126 CCAAACAACATACAACAGAGAAATCC 59.137 38.462 0.00 0.00 0.00 3.01
880 907 7.425606 ACCAAACAACATACAACAGAGAAATC 58.574 34.615 0.00 0.00 0.00 2.17
881 908 7.346751 ACCAAACAACATACAACAGAGAAAT 57.653 32.000 0.00 0.00 0.00 2.17
882 909 6.767524 ACCAAACAACATACAACAGAGAAA 57.232 33.333 0.00 0.00 0.00 2.52
883 910 6.601613 AGAACCAAACAACATACAACAGAGAA 59.398 34.615 0.00 0.00 0.00 2.87
885 912 6.377327 AGAACCAAACAACATACAACAGAG 57.623 37.500 0.00 0.00 0.00 3.35
886 913 6.485313 CCTAGAACCAAACAACATACAACAGA 59.515 38.462 0.00 0.00 0.00 3.41
887 914 6.485313 TCCTAGAACCAAACAACATACAACAG 59.515 38.462 0.00 0.00 0.00 3.16
888 915 6.358178 TCCTAGAACCAAACAACATACAACA 58.642 36.000 0.00 0.00 0.00 3.33
889 916 6.870971 TCCTAGAACCAAACAACATACAAC 57.129 37.500 0.00 0.00 0.00 3.32
890 917 7.390440 CAGATCCTAGAACCAAACAACATACAA 59.610 37.037 0.00 0.00 0.00 2.41
891 918 6.878923 CAGATCCTAGAACCAAACAACATACA 59.121 38.462 0.00 0.00 0.00 2.29
892 919 6.316390 CCAGATCCTAGAACCAAACAACATAC 59.684 42.308 0.00 0.00 0.00 2.39
893 920 6.012858 ACCAGATCCTAGAACCAAACAACATA 60.013 38.462 0.00 0.00 0.00 2.29
894 921 5.222130 ACCAGATCCTAGAACCAAACAACAT 60.222 40.000 0.00 0.00 0.00 2.71
895 922 4.104102 ACCAGATCCTAGAACCAAACAACA 59.896 41.667 0.00 0.00 0.00 3.33
896 923 4.455877 CACCAGATCCTAGAACCAAACAAC 59.544 45.833 0.00 0.00 0.00 3.32
897 924 4.104102 ACACCAGATCCTAGAACCAAACAA 59.896 41.667 0.00 0.00 0.00 2.83
917 944 2.915738 ATTCTACTCACGACCGACAC 57.084 50.000 0.00 0.00 0.00 3.67
921 948 7.485277 GGAAATCATATATTCTACTCACGACCG 59.515 40.741 0.00 0.00 0.00 4.79
922 949 7.760340 GGGAAATCATATATTCTACTCACGACC 59.240 40.741 0.00 0.00 0.00 4.79
963 990 6.748333 ACATGCATGGCAGAACATATATAC 57.252 37.500 29.41 0.00 43.65 1.47
1027 1054 4.202441 AGCTGTCAAGTCAATCAAACTGT 58.798 39.130 0.00 0.00 0.00 3.55
1039 1066 8.345565 CAGAACAAAATTTAGTAGCTGTCAAGT 58.654 33.333 0.00 0.00 0.00 3.16
1058 1138 2.722094 ACTGCAAGACCAACAGAACAA 58.278 42.857 0.00 0.00 37.43 2.83
1139 1257 3.041940 GTGGTGGTCGACTTGCCG 61.042 66.667 16.46 0.00 0.00 5.69
1239 1357 3.455685 GGCGTACTTGAACGACCG 58.544 61.111 0.00 0.00 45.33 4.79
1244 1362 1.574702 GCACCCAGGCGTACTTGAAC 61.575 60.000 0.00 0.00 0.00 3.18
1571 1689 4.890088 TGGTCACACATAAGAACCAGTAC 58.110 43.478 0.00 0.00 0.00 2.73
1573 1691 4.640771 ATGGTCACACATAAGAACCAGT 57.359 40.909 0.00 0.00 0.00 4.00
1655 1887 6.071896 TCACATGGAGTTTCTGTACTACTGAG 60.072 42.308 0.00 0.00 29.89 3.35
1703 1935 9.655769 GTGAGCAACATATGTTATAGAAATGTG 57.344 33.333 20.39 6.63 36.32 3.21
1704 1936 9.618890 AGTGAGCAACATATGTTATAGAAATGT 57.381 29.630 20.39 0.00 36.32 2.71
1707 1939 9.665719 TCAAGTGAGCAACATATGTTATAGAAA 57.334 29.630 20.39 2.77 36.32 2.52
1708 1940 9.836864 ATCAAGTGAGCAACATATGTTATAGAA 57.163 29.630 20.39 3.77 36.32 2.10
1755 2007 7.660112 TGCACATTTTAAGTCATTCTGAACAT 58.340 30.769 0.00 0.00 0.00 2.71
1757 2009 7.062605 CCATGCACATTTTAAGTCATTCTGAAC 59.937 37.037 0.00 0.00 0.00 3.18
1758 2010 7.092079 CCATGCACATTTTAAGTCATTCTGAA 58.908 34.615 0.00 0.00 0.00 3.02
1760 2012 6.392354 ACCATGCACATTTTAAGTCATTCTG 58.608 36.000 0.00 0.00 0.00 3.02
1761 2013 6.209192 TGACCATGCACATTTTAAGTCATTCT 59.791 34.615 0.00 0.00 0.00 2.40
1762 2014 6.389091 TGACCATGCACATTTTAAGTCATTC 58.611 36.000 0.00 0.00 0.00 2.67
1764 2016 5.711506 TCTGACCATGCACATTTTAAGTCAT 59.288 36.000 0.00 0.00 32.98 3.06
1766 2018 5.627499 TCTGACCATGCACATTTTAAGTC 57.373 39.130 0.00 0.00 0.00 3.01
1767 2019 6.392354 CATTCTGACCATGCACATTTTAAGT 58.608 36.000 0.00 0.00 0.00 2.24
1768 2020 5.808540 CCATTCTGACCATGCACATTTTAAG 59.191 40.000 0.00 0.00 0.00 1.85
1771 2023 3.618019 GCCATTCTGACCATGCACATTTT 60.618 43.478 0.00 0.00 0.00 1.82
1772 2024 2.093869 GCCATTCTGACCATGCACATTT 60.094 45.455 0.00 0.00 0.00 2.32
1783 2044 1.909700 TTCCACCAAGCCATTCTGAC 58.090 50.000 0.00 0.00 0.00 3.51
1792 2053 1.181098 ACCTGCACATTCCACCAAGC 61.181 55.000 0.00 0.00 0.00 4.01
1799 2060 1.895131 ACCAATGAACCTGCACATTCC 59.105 47.619 0.00 0.00 35.01 3.01
1800 2061 3.758554 ACTACCAATGAACCTGCACATTC 59.241 43.478 0.00 0.00 35.01 2.67
1806 2067 4.202245 TCAGTACTACCAATGAACCTGC 57.798 45.455 0.00 0.00 0.00 4.85
1848 2242 7.360113 ACAACCAGGATTGACAAAATTAAGT 57.640 32.000 0.00 0.00 33.57 2.24
1849 2243 8.661352 AAACAACCAGGATTGACAAAATTAAG 57.339 30.769 0.00 0.00 33.57 1.85
1902 2307 6.296026 AGTGAAGTAATGCTAAGAAACCACA 58.704 36.000 0.00 0.00 0.00 4.17
1906 2311 8.443937 CCAGTTAGTGAAGTAATGCTAAGAAAC 58.556 37.037 0.00 0.00 0.00 2.78
1940 2345 8.403606 AGTTACATATAACAAAGTCAGTACGC 57.596 34.615 0.00 0.00 42.83 4.42
1960 2379 8.603242 TTTTCAGTTCAATCAGAGGTAGTTAC 57.397 34.615 0.00 0.00 0.00 2.50
1962 2381 8.697507 ATTTTTCAGTTCAATCAGAGGTAGTT 57.302 30.769 0.00 0.00 0.00 2.24
2013 2432 9.574516 AACAAACCATCTCATTTCTAAACTACT 57.425 29.630 0.00 0.00 0.00 2.57
2017 2436 7.926018 ACCAAACAAACCATCTCATTTCTAAAC 59.074 33.333 0.00 0.00 0.00 2.01
2018 2437 8.017418 ACCAAACAAACCATCTCATTTCTAAA 57.983 30.769 0.00 0.00 0.00 1.85
2029 2448 7.454260 AGAGAGAATAACCAAACAAACCATC 57.546 36.000 0.00 0.00 0.00 3.51
2032 2451 7.039313 ACAAGAGAGAATAACCAAACAAACC 57.961 36.000 0.00 0.00 0.00 3.27
2048 2467 7.807433 GCACTAGTATGTATCATGACAAGAGAG 59.193 40.741 0.00 0.00 31.83 3.20
2081 2562 7.520798 AGCAATCCCATCAGATTAAGTGAATA 58.479 34.615 0.00 0.00 34.69 1.75
2082 2563 6.371278 AGCAATCCCATCAGATTAAGTGAAT 58.629 36.000 0.00 0.00 34.69 2.57
2909 3400 3.120321 ACAGCAACCGTTTGTCTCATA 57.880 42.857 0.00 0.00 34.90 2.15
3091 3582 1.530419 TGCAACAACGCCCAGGAAT 60.530 52.632 0.00 0.00 0.00 3.01
3228 3720 7.939588 GGGAAAGCAGGTAATCATAACTATCTT 59.060 37.037 0.00 0.00 0.00 2.40
3233 3725 5.450818 TGGGAAAGCAGGTAATCATAACT 57.549 39.130 0.00 0.00 0.00 2.24
3235 3727 6.406849 GCAAATGGGAAAGCAGGTAATCATAA 60.407 38.462 0.00 0.00 0.00 1.90
3284 3776 4.511527 CTCATCACAAGCAGTATTCACCT 58.488 43.478 0.00 0.00 0.00 4.00
3339 3835 4.155826 CACACAAAATCGATTGGCTCCTAA 59.844 41.667 12.25 0.00 34.56 2.69
3349 3845 0.109781 GGCGCACACACAAAATCGAT 60.110 50.000 10.83 0.00 0.00 3.59
3351 3847 0.725784 GAGGCGCACACACAAAATCG 60.726 55.000 10.83 0.00 0.00 3.34
3358 3854 2.024319 GTGAGAGAGGCGCACACAC 61.024 63.158 10.83 8.66 45.32 3.82
3443 3966 6.493115 TCATATCAAACCTTTGGAAGCAGAAA 59.507 34.615 0.00 0.00 38.66 2.52
3457 3983 7.865706 ATGGACACTAAGTTCATATCAAACC 57.134 36.000 0.00 0.00 44.85 3.27
3474 4000 8.398665 GGTCAGAACTAATGAATTTATGGACAC 58.601 37.037 0.00 0.00 0.00 3.67
3512 4132 2.037136 CCAAAGCTGAGAGGCACCG 61.037 63.158 0.00 0.00 34.17 4.94
3538 4224 7.363431 CCACTAACTTTGAGAAAGAACAATCC 58.637 38.462 3.11 0.00 41.02 3.01
3569 4265 4.647399 AGTTGAGACTATGGAGTTAGCTCC 59.353 45.833 18.20 18.20 46.75 4.70
3571 4267 6.014156 ACAAAGTTGAGACTATGGAGTTAGCT 60.014 38.462 0.00 0.00 35.45 3.32
3573 4269 6.091441 GCACAAAGTTGAGACTATGGAGTTAG 59.909 42.308 0.00 0.00 35.45 2.34
3575 4271 4.757149 GCACAAAGTTGAGACTATGGAGTT 59.243 41.667 0.00 0.00 35.45 3.01
3576 4272 4.040952 AGCACAAAGTTGAGACTATGGAGT 59.959 41.667 0.00 0.00 39.20 3.85
3695 4433 2.596904 AAATGAGCAAGCATGATGCC 57.403 45.000 14.72 11.05 46.52 4.40
3710 4448 5.935789 AGAATCCTCATTGCCAAACAAAATG 59.064 36.000 0.00 0.00 42.86 2.32
3735 4476 3.057104 CACAGAGCATCCATTTTGCAGAA 60.057 43.478 0.00 0.00 42.62 3.02
3747 4488 1.674962 GGCTTGAATCCACAGAGCATC 59.325 52.381 0.00 0.00 35.12 3.91
3770 4511 0.895559 GCAGGTTCCCCCTCAAACAG 60.896 60.000 0.00 0.00 43.86 3.16
3776 4517 0.394899 CATCAAGCAGGTTCCCCCTC 60.395 60.000 0.00 0.00 43.86 4.30
3825 5023 6.472016 TCAGCATTACTACCAAAATCACTGA 58.528 36.000 0.00 0.00 0.00 3.41
3836 5034 4.035675 GCACCTGAATTCAGCATTACTACC 59.964 45.833 27.01 6.04 42.47 3.18
3909 5114 9.553064 GTAGACAGAATCATCATCAGGTAATTT 57.447 33.333 0.00 0.00 0.00 1.82
3934 5356 3.010584 AGTCCACAGGGCATCTATTTTGT 59.989 43.478 0.00 0.00 0.00 2.83
4109 5531 7.765695 TGACTTTTCTCATCATAGCCTTTTT 57.234 32.000 0.00 0.00 0.00 1.94
4186 5608 3.266772 AGGTGGCTCAGATGTAAAATGGA 59.733 43.478 0.00 0.00 0.00 3.41
4329 5764 5.442391 TGTACATTACTCCCCCAATTTAGC 58.558 41.667 0.00 0.00 0.00 3.09
4333 5768 5.789574 TTCTGTACATTACTCCCCCAATT 57.210 39.130 0.00 0.00 0.00 2.32
4397 5848 9.045223 TGAAAAGATATACATCATTTGACCTCG 57.955 33.333 0.00 0.00 33.42 4.63
4466 5935 0.387239 GCAATGCAACGAGGTTCACC 60.387 55.000 0.00 0.00 0.00 4.02
4511 5981 3.029320 TCCATTTTGCAGACACAATGC 57.971 42.857 0.50 0.00 40.90 3.56
4516 5986 2.490903 AGAGCATCCATTTTGCAGACAC 59.509 45.455 0.00 0.00 42.62 3.67
4552 6023 9.593134 AGTAGTTCATGACTTTTCTCATCATAC 57.407 33.333 0.00 0.00 39.86 2.39
4636 6107 8.077226 ACAAAATATGTATCCATGAGGTGGCTT 61.077 37.037 0.00 0.00 43.85 4.35


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

AutoCloner maintained by Alex Coulton.