Multiple sequence alignment - TraesCS4D01G180800

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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 TraesCS4D01G180800 chr4D 100.000 3646 0 0 1 3646 314679831 314676186 0.000000e+00 6734.0
1 TraesCS4D01G180800 chr4A 93.047 2258 90 23 543 2751 161279714 161281953 0.000000e+00 3238.0
2 TraesCS4D01G180800 chr4A 92.800 625 31 6 2967 3582 161284353 161284972 0.000000e+00 893.0
3 TraesCS4D01G180800 chr4A 93.433 335 8 6 212 545 161279089 161279410 5.470000e-133 484.0
4 TraesCS4D01G180800 chr4A 96.396 111 4 0 110 220 161260117 161260227 2.240000e-42 183.0
5 TraesCS4D01G180800 chr4B 93.808 2035 70 21 746 2751 392659623 392657616 0.000000e+00 3009.0
6 TraesCS4D01G180800 chr4B 92.226 656 32 8 39 688 392660262 392659620 0.000000e+00 911.0
7 TraesCS4D01G180800 chr4B 93.677 601 26 5 2967 3563 392657396 392656804 0.000000e+00 889.0
8 TraesCS4D01G180800 chr2D 80.714 700 110 20 1166 1850 44339765 44340454 4.170000e-144 521.0
9 TraesCS4D01G180800 chr2D 81.132 689 94 28 1179 1850 44470142 44469473 1.500000e-143 520.0
10 TraesCS4D01G180800 chr2D 80.495 687 107 24 1179 1850 48028291 48027617 5.440000e-138 501.0
11 TraesCS4D01G180800 chr2D 89.706 68 4 3 2 67 180701212 180701278 2.330000e-12 84.2
12 TraesCS4D01G180800 chr2B 80.932 687 100 25 1179 1850 71293664 71292994 6.980000e-142 514.0
13 TraesCS4D01G180800 chr2B 80.526 647 95 24 1179 1811 71244283 71243654 5.510000e-128 468.0
14 TraesCS4D01G180800 chr2B 84.431 334 41 8 1524 1850 70837292 70837621 5.880000e-83 318.0
15 TraesCS4D01G180800 chr2B 83.929 336 43 11 1522 1850 75990951 75991282 9.830000e-81 311.0
16 TraesCS4D01G180800 chr2B 85.878 262 37 0 1179 1440 75990592 75990853 2.770000e-71 279.0
17 TraesCS4D01G180800 chr2A 80.523 688 100 27 1179 1850 48347446 48346777 7.030000e-137 497.0
18 TraesCS4D01G180800 chr2A 81.115 646 88 23 1179 1811 48249983 48250607 1.520000e-133 486.0
19 TraesCS4D01G180800 chr2A 84.776 335 40 10 1523 1850 48246383 48246713 3.510000e-85 326.0
20 TraesCS4D01G180800 chr2A 86.260 262 36 0 1179 1440 51040893 51041154 5.960000e-73 285.0
21 TraesCS4D01G180800 chr2A 86.667 120 16 0 2168 2287 48250879 48250998 2.280000e-27 134.0
22 TraesCS4D01G180800 chr3B 92.308 65 3 2 1 64 747132324 747132261 1.390000e-14 91.6
23 TraesCS4D01G180800 chr3B 92.308 65 3 2 1 64 747189468 747189405 1.390000e-14 91.6
24 TraesCS4D01G180800 chr1B 96.429 56 0 1 2 57 376570057 376570110 1.390000e-14 91.6
25 TraesCS4D01G180800 chr7B 96.364 55 1 1 2 56 581554448 581554501 5.010000e-14 89.8
26 TraesCS4D01G180800 chr7B 90.625 64 4 2 2 64 663319857 663319795 2.330000e-12 84.2
27 TraesCS4D01G180800 chr6B 93.220 59 4 0 2 60 454704439 454704497 1.800000e-13 87.9
28 TraesCS4D01G180800 chr5B 93.443 61 1 2 2 62 74269876 74269819 1.800000e-13 87.9
29 TraesCS4D01G180800 chr7A 87.013 77 3 6 2 76 131295366 131295437 3.020000e-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 TraesCS4D01G180800 chr4D 314676186 314679831 3645 True 6734.000000 6734 100.000000 1 3646 1 chr4D.!!$R1 3645
1 TraesCS4D01G180800 chr4A 161279089 161284972 5883 False 1538.333333 3238 93.093333 212 3582 3 chr4A.!!$F2 3370
2 TraesCS4D01G180800 chr4B 392656804 392660262 3458 True 1603.000000 3009 93.237000 39 3563 3 chr4B.!!$R1 3524
3 TraesCS4D01G180800 chr2D 44339765 44340454 689 False 521.000000 521 80.714000 1166 1850 1 chr2D.!!$F1 684
4 TraesCS4D01G180800 chr2D 44469473 44470142 669 True 520.000000 520 81.132000 1179 1850 1 chr2D.!!$R1 671
5 TraesCS4D01G180800 chr2D 48027617 48028291 674 True 501.000000 501 80.495000 1179 1850 1 chr2D.!!$R2 671
6 TraesCS4D01G180800 chr2B 71292994 71293664 670 True 514.000000 514 80.932000 1179 1850 1 chr2B.!!$R2 671
7 TraesCS4D01G180800 chr2B 71243654 71244283 629 True 468.000000 468 80.526000 1179 1811 1 chr2B.!!$R1 632
8 TraesCS4D01G180800 chr2B 75990592 75991282 690 False 295.000000 311 84.903500 1179 1850 2 chr2B.!!$F2 671
9 TraesCS4D01G180800 chr2A 48346777 48347446 669 True 497.000000 497 80.523000 1179 1850 1 chr2A.!!$R1 671
10 TraesCS4D01G180800 chr2A 48246383 48250998 4615 False 315.333333 486 84.186000 1179 2287 3 chr2A.!!$F2 1108

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
659 974 0.319641 TGCCATGTACGTACGCAACA 60.320 50.0 21.73 21.73 0.0 3.33 F
1473 3911 0.814457 CTCTGCCTGTCTCGCTAACT 59.186 55.0 0.00 0.00 0.0 2.24 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1614 4137 0.892755 AGTCCATCACGGCGTAGAAA 59.107 50.0 14.22 0.0 33.14 2.52 R
2793 5357 0.034896 TCCAGAAACGTGAAGAGGGC 59.965 55.0 0.00 0.0 0.00 5.19 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
19 20 2.613421 GGACCCCCTACCCGAGAT 59.387 66.667 0.00 0.00 0.00 2.75
20 21 1.533513 GGACCCCCTACCCGAGATC 60.534 68.421 0.00 0.00 0.00 2.75
21 22 1.533513 GACCCCCTACCCGAGATCC 60.534 68.421 0.00 0.00 0.00 3.36
22 23 2.600769 CCCCCTACCCGAGATCCG 60.601 72.222 0.00 0.00 38.18 4.18
23 24 3.303928 CCCCTACCCGAGATCCGC 61.304 72.222 0.00 0.00 36.84 5.54
24 25 3.303928 CCCTACCCGAGATCCGCC 61.304 72.222 0.00 0.00 36.84 6.13
25 26 3.671411 CCTACCCGAGATCCGCCG 61.671 72.222 0.00 0.00 36.84 6.46
29 30 4.157120 CCCGAGATCCGCCGGTTT 62.157 66.667 1.63 0.00 43.93 3.27
30 31 2.125269 CCGAGATCCGCCGGTTTT 60.125 61.111 1.63 0.00 40.78 2.43
31 32 2.461110 CCGAGATCCGCCGGTTTTG 61.461 63.158 1.63 0.00 40.78 2.44
32 33 1.447140 CGAGATCCGCCGGTTTTGA 60.447 57.895 1.63 0.00 0.00 2.69
33 34 1.693083 CGAGATCCGCCGGTTTTGAC 61.693 60.000 1.63 0.00 0.00 3.18
36 37 1.918868 GATCCGCCGGTTTTGACACC 61.919 60.000 1.63 0.00 0.00 4.16
73 74 4.270808 TCAGAAAACGACCGAAAAACTACC 59.729 41.667 0.00 0.00 0.00 3.18
129 130 0.594796 GGTTTGTTCAGCAACAGCGG 60.595 55.000 0.00 0.00 43.54 5.52
136 137 0.673333 TCAGCAACAGCGGTGGTATG 60.673 55.000 20.20 14.51 35.11 2.39
156 157 7.998383 TGGTATGTGATGCATATTTTAGTCCTT 59.002 33.333 0.00 0.00 41.58 3.36
160 161 6.037062 TGTGATGCATATTTTAGTCCTTCACG 59.963 38.462 0.00 0.00 34.08 4.35
198 199 5.690816 ACGTACTACGATCAATATGAGCAG 58.309 41.667 15.49 0.00 46.05 4.24
430 436 5.523552 TCGTGGCATCAAGAACATAAGTATG 59.476 40.000 0.00 0.00 39.55 2.39
431 437 5.277490 CGTGGCATCAAGAACATAAGTATGG 60.277 44.000 3.48 0.00 38.00 2.74
432 438 5.822519 GTGGCATCAAGAACATAAGTATGGA 59.177 40.000 3.48 0.00 38.00 3.41
435 441 6.017605 GGCATCAAGAACATAAGTATGGAGTG 60.018 42.308 3.48 0.00 38.00 3.51
571 885 7.610305 ACCTAGTTAAAACGGATCATCAATTGT 59.390 33.333 5.13 0.00 0.00 2.71
659 974 0.319641 TGCCATGTACGTACGCAACA 60.320 50.000 21.73 21.73 0.00 3.33
667 982 2.445453 ACGTACGCAACAAAACACAG 57.555 45.000 16.72 0.00 0.00 3.66
716 1031 3.257873 ACCCGATTGACAATGCAATTTCA 59.742 39.130 5.14 0.00 38.53 2.69
882 1197 1.954382 CCGTCCGATCTACAATCTCCA 59.046 52.381 0.00 0.00 0.00 3.86
889 1204 1.951209 TCTACAATCTCCACCAGGCA 58.049 50.000 0.00 0.00 33.74 4.75
904 1219 2.051614 GCATACGCGTCCGATCGA 60.052 61.111 18.63 0.00 38.29 3.59
936 1251 3.667282 CTGACCGACGACGTGGGT 61.667 66.667 31.31 31.31 46.84 4.51
937 1252 3.891586 CTGACCGACGACGTGGGTG 62.892 68.421 35.01 19.93 44.34 4.61
938 1253 3.969802 GACCGACGACGTGGGTGT 61.970 66.667 35.01 15.16 44.34 4.16
942 1257 2.418356 GACGACGTGGGTGTGGAA 59.582 61.111 4.58 0.00 0.00 3.53
943 1258 1.227321 GACGACGTGGGTGTGGAAA 60.227 57.895 4.58 0.00 0.00 3.13
1092 1428 2.230660 CGAACCCAAGAAAGCTTCCTT 58.769 47.619 0.00 0.00 30.14 3.36
1444 3882 1.949525 CCGCATCTGGGAGGTAAATTG 59.050 52.381 0.00 0.00 0.00 2.32
1473 3911 0.814457 CTCTGCCTGTCTCGCTAACT 59.186 55.000 0.00 0.00 0.00 2.24
1863 4389 0.815615 AGCAGGTAAGCCGCTAATGC 60.816 55.000 9.74 9.74 40.77 3.56
1887 4414 6.693315 TTTTGTTTCGAGTCTCCAGATTTT 57.307 33.333 0.00 0.00 0.00 1.82
2153 4681 4.282703 GGCTTGCATTCTTATGGATGGATT 59.717 41.667 0.00 0.00 31.74 3.01
2157 4685 5.951204 TGCATTCTTATGGATGGATTGGTA 58.049 37.500 0.00 0.00 32.15 3.25
2414 4950 4.778143 GCTGCGTGATCCCCGGTT 62.778 66.667 0.00 0.00 0.00 4.44
2597 5146 3.244215 CCCTTTGTGAAGTAGAGTGCTGA 60.244 47.826 0.00 0.00 0.00 4.26
2598 5147 3.993081 CCTTTGTGAAGTAGAGTGCTGAG 59.007 47.826 0.00 0.00 0.00 3.35
2641 5190 8.757982 ATTATGTGTGAATCAATAGGAAGCTT 57.242 30.769 0.00 0.00 0.00 3.74
2642 5191 8.579850 TTATGTGTGAATCAATAGGAAGCTTT 57.420 30.769 0.00 0.00 0.00 3.51
2674 5223 4.036262 TGGCATATATTTTTCACGTCAGCC 59.964 41.667 0.00 0.00 37.75 4.85
2681 5230 1.328279 TTTCACGTCAGCCTCTCTCA 58.672 50.000 0.00 0.00 0.00 3.27
2683 5232 0.250945 TCACGTCAGCCTCTCTCACT 60.251 55.000 0.00 0.00 0.00 3.41
2684 5233 0.600557 CACGTCAGCCTCTCTCACTT 59.399 55.000 0.00 0.00 0.00 3.16
2685 5234 1.813178 CACGTCAGCCTCTCTCACTTA 59.187 52.381 0.00 0.00 0.00 2.24
2686 5235 1.813786 ACGTCAGCCTCTCTCACTTAC 59.186 52.381 0.00 0.00 0.00 2.34
2687 5236 1.202087 CGTCAGCCTCTCTCACTTACG 60.202 57.143 0.00 0.00 0.00 3.18
2688 5237 1.813786 GTCAGCCTCTCTCACTTACGT 59.186 52.381 0.00 0.00 0.00 3.57
2689 5238 2.229302 GTCAGCCTCTCTCACTTACGTT 59.771 50.000 0.00 0.00 0.00 3.99
2690 5239 2.488545 TCAGCCTCTCTCACTTACGTTC 59.511 50.000 0.00 0.00 0.00 3.95
2704 5254 0.038709 ACGTTCTGTCAGCTCTGCTC 60.039 55.000 0.00 0.00 36.40 4.26
2713 5263 0.607112 CAGCTCTGCTCTCCTTGTCA 59.393 55.000 0.00 0.00 36.40 3.58
2718 5268 3.784338 CTCTGCTCTCCTTGTCATTCTC 58.216 50.000 0.00 0.00 0.00 2.87
2720 5270 3.837146 TCTGCTCTCCTTGTCATTCTCTT 59.163 43.478 0.00 0.00 0.00 2.85
2724 5274 4.630940 GCTCTCCTTGTCATTCTCTTTCTG 59.369 45.833 0.00 0.00 0.00 3.02
2728 5278 7.456725 TCTCCTTGTCATTCTCTTTCTGAAAT 58.543 34.615 2.88 0.00 0.00 2.17
2731 5281 7.389884 TCCTTGTCATTCTCTTTCTGAAATGAG 59.610 37.037 16.66 16.66 37.78 2.90
2757 5321 1.375908 GTCATTCTCGGGTGCTGCA 60.376 57.895 0.00 0.00 0.00 4.41
2758 5322 0.745845 GTCATTCTCGGGTGCTGCAT 60.746 55.000 5.27 0.00 0.00 3.96
2759 5323 0.745486 TCATTCTCGGGTGCTGCATG 60.745 55.000 5.27 0.00 0.00 4.06
2760 5324 0.745486 CATTCTCGGGTGCTGCATGA 60.745 55.000 5.27 3.80 0.00 3.07
2766 5330 1.965930 GGGTGCTGCATGACGTGAA 60.966 57.895 5.27 0.00 0.00 3.18
2782 5346 1.339929 GTGAAACACGGGCAATCCTTT 59.660 47.619 0.00 0.00 36.32 3.11
2788 5352 0.996583 ACGGGCAATCCTTTTCCCTA 59.003 50.000 0.00 0.00 36.61 3.53
2790 5354 2.024369 ACGGGCAATCCTTTTCCCTAAT 60.024 45.455 0.00 0.00 36.61 1.73
2791 5355 2.362077 CGGGCAATCCTTTTCCCTAATG 59.638 50.000 0.00 0.00 36.61 1.90
2792 5356 3.642141 GGGCAATCCTTTTCCCTAATGA 58.358 45.455 0.00 0.00 35.87 2.57
2793 5357 3.638627 GGGCAATCCTTTTCCCTAATGAG 59.361 47.826 0.00 0.00 35.87 2.90
2815 5379 2.350522 CCTCTTCACGTTTCTGGATGG 58.649 52.381 0.00 0.00 0.00 3.51
2823 7615 2.039746 ACGTTTCTGGATGGTTCATGGA 59.960 45.455 0.00 0.00 0.00 3.41
2837 7629 3.653539 TCATGGATTATGACGTACGGG 57.346 47.619 21.06 0.00 40.82 5.28
2838 7630 2.297880 TCATGGATTATGACGTACGGGG 59.702 50.000 21.06 0.00 40.82 5.73
2839 7631 1.779221 TGGATTATGACGTACGGGGT 58.221 50.000 21.06 6.99 0.00 4.95
2840 7632 2.942804 TGGATTATGACGTACGGGGTA 58.057 47.619 21.06 5.97 0.00 3.69
2841 7633 2.622942 TGGATTATGACGTACGGGGTAC 59.377 50.000 21.06 6.03 35.86 3.34
2882 7674 3.943691 AGCGGCAACCCCAACGTA 61.944 61.111 1.45 0.00 0.00 3.57
2883 7675 3.729698 GCGGCAACCCCAACGTAC 61.730 66.667 0.00 0.00 0.00 3.67
2884 7676 3.051479 CGGCAACCCCAACGTACC 61.051 66.667 0.00 0.00 0.00 3.34
2885 7677 2.433004 GGCAACCCCAACGTACCT 59.567 61.111 0.00 0.00 0.00 3.08
2886 7678 1.673337 GGCAACCCCAACGTACCTC 60.673 63.158 0.00 0.00 0.00 3.85
2887 7679 1.673337 GCAACCCCAACGTACCTCC 60.673 63.158 0.00 0.00 0.00 4.30
2888 7680 1.756024 CAACCCCAACGTACCTCCA 59.244 57.895 0.00 0.00 0.00 3.86
2889 7681 0.108963 CAACCCCAACGTACCTCCAA 59.891 55.000 0.00 0.00 0.00 3.53
2890 7682 0.845337 AACCCCAACGTACCTCCAAA 59.155 50.000 0.00 0.00 0.00 3.28
2891 7683 0.399075 ACCCCAACGTACCTCCAAAG 59.601 55.000 0.00 0.00 0.00 2.77
2892 7684 0.399075 CCCCAACGTACCTCCAAAGT 59.601 55.000 0.00 0.00 0.00 2.66
2893 7685 1.624813 CCCCAACGTACCTCCAAAGTA 59.375 52.381 0.00 0.00 0.00 2.24
2895 7687 2.037511 CCCAACGTACCTCCAAAGTACA 59.962 50.000 0.00 0.00 40.10 2.90
2896 7688 3.494749 CCCAACGTACCTCCAAAGTACAA 60.495 47.826 0.00 0.00 40.10 2.41
2897 7689 4.320870 CCAACGTACCTCCAAAGTACAAT 58.679 43.478 0.00 0.00 40.10 2.71
2898 7690 4.758165 CCAACGTACCTCCAAAGTACAATT 59.242 41.667 0.00 0.00 40.10 2.32
2899 7691 5.106830 CCAACGTACCTCCAAAGTACAATTC 60.107 44.000 0.00 0.00 40.10 2.17
2900 7692 4.240096 ACGTACCTCCAAAGTACAATTCG 58.760 43.478 0.00 0.00 40.10 3.34
2902 7694 3.067684 ACCTCCAAAGTACAATTCGGG 57.932 47.619 0.00 0.00 0.00 5.14
2903 7695 1.743394 CCTCCAAAGTACAATTCGGGC 59.257 52.381 0.00 0.00 0.00 6.13
2904 7696 1.396996 CTCCAAAGTACAATTCGGGCG 59.603 52.381 0.00 0.00 0.00 6.13
2905 7697 1.002201 TCCAAAGTACAATTCGGGCGA 59.998 47.619 0.00 0.00 0.00 5.54
2906 7698 1.396996 CCAAAGTACAATTCGGGCGAG 59.603 52.381 0.00 0.00 0.00 5.03
2908 7700 0.743345 AAGTACAATTCGGGCGAGCC 60.743 55.000 5.37 5.37 0.00 4.70
2909 7701 2.202824 TACAATTCGGGCGAGCCG 60.203 61.111 8.14 3.97 36.85 5.52
2910 7702 2.712944 TACAATTCGGGCGAGCCGA 61.713 57.895 8.14 6.32 37.94 5.54
2911 7703 2.894240 TACAATTCGGGCGAGCCGAC 62.894 60.000 8.14 0.00 39.46 4.79
2929 7721 2.361375 GGGTGGCCCCCGTTTTAT 59.639 61.111 12.97 0.00 45.80 1.40
2930 7722 1.755395 GGGTGGCCCCCGTTTTATC 60.755 63.158 12.97 0.00 45.80 1.75
2931 7723 1.305287 GGTGGCCCCCGTTTTATCT 59.695 57.895 0.00 0.00 0.00 1.98
2932 7724 0.547553 GGTGGCCCCCGTTTTATCTA 59.452 55.000 0.00 0.00 0.00 1.98
2947 7739 2.783609 ATCTATAGCAGCCTGGCATG 57.216 50.000 22.65 16.45 35.83 4.06
2949 7741 0.959372 CTATAGCAGCCTGGCATGCC 60.959 60.000 30.54 30.54 43.60 4.40
2950 7742 2.736579 TATAGCAGCCTGGCATGCCG 62.737 60.000 30.87 23.82 43.60 5.69
2953 7745 4.862447 CAGCCTGGCATGCCGCTA 62.862 66.667 30.93 15.75 41.91 4.26
2954 7746 3.882326 AGCCTGGCATGCCGCTAT 61.882 61.111 30.61 16.29 41.91 2.97
2955 7747 2.908940 GCCTGGCATGCCGCTATT 60.909 61.111 30.87 0.00 41.91 1.73
2956 7748 3.036577 CCTGGCATGCCGCTATTG 58.963 61.111 30.87 15.63 41.91 1.90
2957 7749 1.825191 CCTGGCATGCCGCTATTGT 60.825 57.895 30.87 0.00 41.91 2.71
2958 7750 0.534877 CCTGGCATGCCGCTATTGTA 60.535 55.000 30.87 10.57 41.91 2.41
2959 7751 0.870393 CTGGCATGCCGCTATTGTAG 59.130 55.000 30.87 16.43 41.91 2.74
2960 7752 0.180171 TGGCATGCCGCTATTGTAGT 59.820 50.000 30.87 0.00 41.91 2.73
2961 7753 1.414550 TGGCATGCCGCTATTGTAGTA 59.585 47.619 30.87 6.56 41.91 1.82
2962 7754 2.069273 GGCATGCCGCTATTGTAGTAG 58.931 52.381 23.48 0.00 41.91 2.57
2963 7755 2.548067 GGCATGCCGCTATTGTAGTAGT 60.548 50.000 23.48 0.00 41.91 2.73
2964 7756 3.305813 GGCATGCCGCTATTGTAGTAGTA 60.306 47.826 23.48 0.00 41.91 1.82
2965 7757 3.921021 GCATGCCGCTATTGTAGTAGTAG 59.079 47.826 6.36 0.00 37.77 2.57
2975 7767 7.148672 CGCTATTGTAGTAGTAGTAGTATGCGT 60.149 40.741 0.00 0.00 0.00 5.24
3031 7823 2.032634 TGTGGATTTCGTGCTCGCC 61.033 57.895 2.69 0.00 36.96 5.54
3107 7902 2.575694 AGTGTCGATCTCATGACTGC 57.424 50.000 0.00 0.00 36.10 4.40
3156 7951 3.444388 GTCGGTGAAATGGTAGTCTCTCT 59.556 47.826 0.00 0.00 0.00 3.10
3157 7952 3.444034 TCGGTGAAATGGTAGTCTCTCTG 59.556 47.826 0.00 0.00 0.00 3.35
3158 7953 3.193691 CGGTGAAATGGTAGTCTCTCTGT 59.806 47.826 0.00 0.00 0.00 3.41
3160 7955 4.416620 GTGAAATGGTAGTCTCTCTGTCG 58.583 47.826 0.00 0.00 0.00 4.35
3161 7956 4.156190 GTGAAATGGTAGTCTCTCTGTCGA 59.844 45.833 0.00 0.00 0.00 4.20
3162 7957 4.156190 TGAAATGGTAGTCTCTCTGTCGAC 59.844 45.833 9.11 9.11 0.00 4.20
3164 7959 1.629353 TGGTAGTCTCTCTGTCGACCT 59.371 52.381 14.12 3.20 32.66 3.85
3197 7992 5.365619 AGTAGAAACTTCACAAATCCACGT 58.634 37.500 0.00 0.00 29.00 4.49
3271 8069 0.037697 TTGCTCTGCCGTCGTGTTAT 60.038 50.000 0.00 0.00 0.00 1.89
3292 8090 3.861276 TGTCCTGGATTACGTAGTGTG 57.139 47.619 0.00 0.00 45.73 3.82
3351 8149 1.929230 TTGACTCTCGTTTCGTTGCA 58.071 45.000 0.00 0.00 0.00 4.08
3395 8193 2.282958 TGGACTCGGCCGACTTCT 60.283 61.111 27.28 6.67 0.00 2.85
3400 8198 1.289066 CTCGGCCGACTTCTTGACA 59.711 57.895 27.28 0.00 0.00 3.58
3402 8200 0.389817 TCGGCCGACTTCTTGACATG 60.390 55.000 27.28 0.00 0.00 3.21
3436 8234 0.874175 GCGCACGTAGCATCATGGTA 60.874 55.000 0.30 0.00 46.13 3.25
3493 8291 0.671472 TGGAGCATGTCAGAGCAACG 60.671 55.000 0.00 0.00 0.00 4.10
3578 8376 2.216750 TAACTACCGACTGGCACGCC 62.217 60.000 0.00 0.00 39.70 5.68
3582 8380 1.940883 TACCGACTGGCACGCCTAAG 61.941 60.000 9.92 1.57 39.70 2.18
3583 8381 2.571757 CGACTGGCACGCCTAAGA 59.428 61.111 9.92 0.00 36.94 2.10
3584 8382 1.517257 CGACTGGCACGCCTAAGAG 60.517 63.158 9.92 0.41 36.94 2.85
3585 8383 1.811679 GACTGGCACGCCTAAGAGC 60.812 63.158 9.92 0.00 36.94 4.09
3586 8384 2.265739 CTGGCACGCCTAAGAGCA 59.734 61.111 9.92 0.00 36.94 4.26
3587 8385 1.375908 CTGGCACGCCTAAGAGCAA 60.376 57.895 9.92 0.00 36.94 3.91
3588 8386 1.639298 CTGGCACGCCTAAGAGCAAC 61.639 60.000 9.92 0.00 36.94 4.17
3589 8387 1.376037 GGCACGCCTAAGAGCAACT 60.376 57.895 0.00 0.00 0.00 3.16
3590 8388 1.362406 GGCACGCCTAAGAGCAACTC 61.362 60.000 0.00 0.00 0.00 3.01
3591 8389 1.362406 GCACGCCTAAGAGCAACTCC 61.362 60.000 0.00 0.00 0.00 3.85
3592 8390 0.037326 CACGCCTAAGAGCAACTCCA 60.037 55.000 0.00 0.00 0.00 3.86
3593 8391 0.685097 ACGCCTAAGAGCAACTCCAA 59.315 50.000 0.00 0.00 0.00 3.53
3594 8392 1.279271 ACGCCTAAGAGCAACTCCAAT 59.721 47.619 0.00 0.00 0.00 3.16
3595 8393 1.667724 CGCCTAAGAGCAACTCCAATG 59.332 52.381 0.00 0.00 0.00 2.82
3596 8394 2.019984 GCCTAAGAGCAACTCCAATGG 58.980 52.381 0.00 0.00 0.00 3.16
3597 8395 2.648059 CCTAAGAGCAACTCCAATGGG 58.352 52.381 0.00 0.00 0.00 4.00
3598 8396 2.648059 CTAAGAGCAACTCCAATGGGG 58.352 52.381 0.00 0.00 38.37 4.96
3599 8397 1.075601 AAGAGCAACTCCAATGGGGA 58.924 50.000 5.97 0.00 45.89 4.81
3614 8412 2.362375 GGAGGCGGCCCATTCAAA 60.362 61.111 17.02 0.00 0.00 2.69
3615 8413 1.758122 GGAGGCGGCCCATTCAAAT 60.758 57.895 17.02 0.00 0.00 2.32
3616 8414 1.438814 GAGGCGGCCCATTCAAATG 59.561 57.895 17.02 0.00 36.17 2.32
3617 8415 1.000233 AGGCGGCCCATTCAAATGA 60.000 52.632 17.02 0.00 38.70 2.57
3618 8416 0.614415 AGGCGGCCCATTCAAATGAA 60.614 50.000 17.02 0.00 38.70 2.57
3619 8417 0.460109 GGCGGCCCATTCAAATGAAC 60.460 55.000 8.12 0.00 38.70 3.18
3620 8418 0.801836 GCGGCCCATTCAAATGAACG 60.802 55.000 0.00 6.76 38.70 3.95
3621 8419 0.808125 CGGCCCATTCAAATGAACGA 59.192 50.000 0.00 0.00 38.70 3.85
3622 8420 1.405105 CGGCCCATTCAAATGAACGAT 59.595 47.619 0.00 0.00 38.70 3.73
3623 8421 2.541588 CGGCCCATTCAAATGAACGATC 60.542 50.000 0.00 0.00 38.70 3.69
3624 8422 2.541588 GGCCCATTCAAATGAACGATCG 60.542 50.000 14.88 14.88 38.70 3.69
3625 8423 2.097466 GCCCATTCAAATGAACGATCGT 59.903 45.455 16.60 16.60 38.70 3.73
3626 8424 3.788797 GCCCATTCAAATGAACGATCGTC 60.789 47.826 22.98 15.11 38.70 4.20
3627 8425 3.242739 CCCATTCAAATGAACGATCGTCC 60.243 47.826 22.98 10.04 38.70 4.79
3628 8426 3.544048 CCATTCAAATGAACGATCGTCCG 60.544 47.826 22.98 6.70 38.70 4.79
3629 8427 0.996462 TCAAATGAACGATCGTCCGC 59.004 50.000 22.98 14.32 0.00 5.54
3630 8428 0.999406 CAAATGAACGATCGTCCGCT 59.001 50.000 22.98 5.37 0.00 5.52
3631 8429 1.393539 CAAATGAACGATCGTCCGCTT 59.606 47.619 22.98 4.92 0.00 4.68
3632 8430 1.722011 AATGAACGATCGTCCGCTTT 58.278 45.000 22.98 14.46 0.00 3.51
3633 8431 1.722011 ATGAACGATCGTCCGCTTTT 58.278 45.000 22.98 3.18 0.00 2.27
3634 8432 1.504359 TGAACGATCGTCCGCTTTTT 58.496 45.000 22.98 2.30 0.00 1.94
3635 8433 1.193650 TGAACGATCGTCCGCTTTTTG 59.806 47.619 22.98 0.00 0.00 2.44
3636 8434 1.193874 GAACGATCGTCCGCTTTTTGT 59.806 47.619 22.98 0.57 0.00 2.83
3637 8435 0.788391 ACGATCGTCCGCTTTTTGTC 59.212 50.000 16.60 0.00 0.00 3.18
3638 8436 0.094730 CGATCGTCCGCTTTTTGTCC 59.905 55.000 7.03 0.00 0.00 4.02
3639 8437 0.094730 GATCGTCCGCTTTTTGTCCG 59.905 55.000 0.00 0.00 0.00 4.79
3640 8438 1.908066 ATCGTCCGCTTTTTGTCCGC 61.908 55.000 0.00 0.00 0.00 5.54
3641 8439 2.127383 GTCCGCTTTTTGTCCGCG 60.127 61.111 0.00 0.00 45.86 6.46
3644 8442 2.127383 CGCTTTTTGTCCGCGGAC 60.127 61.111 43.88 43.88 42.88 4.79
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
1 2 3.097429 ATCTCGGGTAGGGGGTCCC 62.097 68.421 0.00 0.00 45.90 4.46
3 4 1.533513 GGATCTCGGGTAGGGGGTC 60.534 68.421 0.00 0.00 0.00 4.46
4 5 2.613421 GGATCTCGGGTAGGGGGT 59.387 66.667 0.00 0.00 0.00 4.95
6 7 3.303928 GCGGATCTCGGGTAGGGG 61.304 72.222 5.87 0.00 39.69 4.79
7 8 3.303928 GGCGGATCTCGGGTAGGG 61.304 72.222 5.87 0.00 39.69 3.53
8 9 3.671411 CGGCGGATCTCGGGTAGG 61.671 72.222 0.00 0.00 39.69 3.18
9 10 3.671411 CCGGCGGATCTCGGGTAG 61.671 72.222 24.41 0.00 42.32 3.18
19 20 2.592287 GGTGTCAAAACCGGCGGA 60.592 61.111 35.78 6.54 0.00 5.54
36 37 2.509052 TTCTGAAGTGGACACTGTCG 57.491 50.000 5.63 0.00 41.58 4.35
37 38 3.001330 CGTTTTCTGAAGTGGACACTGTC 59.999 47.826 5.63 0.00 41.58 3.51
73 74 1.880027 CAAGGGACCAAAAGGTTCTCG 59.120 52.381 0.00 0.00 0.00 4.04
91 92 3.533547 ACCTAAAGTGTAACACGTGCAA 58.466 40.909 17.22 0.00 41.43 4.08
92 93 3.182341 ACCTAAAGTGTAACACGTGCA 57.818 42.857 17.22 2.33 41.43 4.57
129 130 7.445402 AGGACTAAAATATGCATCACATACCAC 59.555 37.037 0.19 0.00 43.99 4.16
136 137 6.422223 CGTGAAGGACTAAAATATGCATCAC 58.578 40.000 0.19 0.00 0.00 3.06
156 157 3.733960 CCGTGAGAGTCCGCGTGA 61.734 66.667 4.92 0.00 38.27 4.35
160 161 1.361668 TACGTACCGTGAGAGTCCGC 61.362 60.000 0.00 0.00 41.39 5.54
198 199 5.122396 CACATTTCTACTGTACCAAAGCTCC 59.878 44.000 0.00 0.00 0.00 4.70
254 255 7.716123 CGTCCTTCCTTCTTCTAGTCTAATCTA 59.284 40.741 0.00 0.00 0.00 1.98
255 256 6.544564 CGTCCTTCCTTCTTCTAGTCTAATCT 59.455 42.308 0.00 0.00 0.00 2.40
256 257 6.543100 TCGTCCTTCCTTCTTCTAGTCTAATC 59.457 42.308 0.00 0.00 0.00 1.75
257 258 6.319405 GTCGTCCTTCCTTCTTCTAGTCTAAT 59.681 42.308 0.00 0.00 0.00 1.73
258 259 5.647225 GTCGTCCTTCCTTCTTCTAGTCTAA 59.353 44.000 0.00 0.00 0.00 2.10
340 341 9.364653 GATCCCTTCCTTATTTGACTACTACTA 57.635 37.037 0.00 0.00 0.00 1.82
341 342 8.068733 AGATCCCTTCCTTATTTGACTACTACT 58.931 37.037 0.00 0.00 0.00 2.57
342 343 8.252624 AGATCCCTTCCTTATTTGACTACTAC 57.747 38.462 0.00 0.00 0.00 2.73
348 349 9.007901 CATGAATAGATCCCTTCCTTATTTGAC 57.992 37.037 0.00 0.00 0.00 3.18
401 407 3.899734 TGTTCTTGATGCCACGAAAATG 58.100 40.909 0.00 0.00 33.23 2.32
430 436 5.841957 ATGAGAAACAAATATGCCACTCC 57.158 39.130 0.00 0.00 0.00 3.85
431 437 6.855836 TGAATGAGAAACAAATATGCCACTC 58.144 36.000 0.00 0.00 0.00 3.51
432 438 6.839124 TGAATGAGAAACAAATATGCCACT 57.161 33.333 0.00 0.00 0.00 4.00
435 441 7.814107 TGAACTTGAATGAGAAACAAATATGCC 59.186 33.333 0.00 0.00 0.00 4.40
571 885 3.177997 GCAAAAGGCAAAGGTTGAAGA 57.822 42.857 0.00 0.00 43.97 2.87
659 974 4.989279 ATTGCTCTTGTGACTGTGTTTT 57.011 36.364 0.00 0.00 0.00 2.43
667 982 1.202076 GGCGCTAATTGCTCTTGTGAC 60.202 52.381 7.64 0.00 40.11 3.67
716 1031 3.056607 GCATTCACTGCCATGGTTAAACT 60.057 43.478 14.67 0.00 45.66 2.66
781 1096 1.432514 GCGAGAAGTGTGCAGAATGA 58.567 50.000 0.00 0.00 39.69 2.57
882 1197 4.508128 CGGACGCGTATGCCTGGT 62.508 66.667 13.97 0.00 38.08 4.00
889 1204 0.316772 CTGTTCGATCGGACGCGTAT 60.317 55.000 21.19 0.83 0.00 3.06
904 1219 4.335647 CAGGGAGCACGGCCTGTT 62.336 66.667 0.00 0.00 0.00 3.16
936 1251 1.612199 GGATAACGCCAGGTTTCCACA 60.612 52.381 0.00 0.00 40.09 4.17
937 1252 1.092348 GGATAACGCCAGGTTTCCAC 58.908 55.000 0.00 0.00 40.09 4.02
938 1253 0.693622 TGGATAACGCCAGGTTTCCA 59.306 50.000 0.00 0.00 40.40 3.53
1010 1325 4.142293 GGCTTTGGATTTCTGATGAGGTTC 60.142 45.833 0.00 0.00 0.00 3.62
1092 1428 1.950216 CATCTTGATCTCGTCTCGGGA 59.050 52.381 0.00 0.00 41.88 5.14
1444 3882 3.391382 AGGCAGAGGTGGTACGGC 61.391 66.667 0.00 0.00 0.00 5.68
1473 3911 7.389330 CCATTACTACCATACACACTGACAAAA 59.611 37.037 0.00 0.00 0.00 2.44
1591 4114 1.631405 CCCTTGGGCAGATCAAACAA 58.369 50.000 0.00 0.00 0.00 2.83
1614 4137 0.892755 AGTCCATCACGGCGTAGAAA 59.107 50.000 14.22 0.00 33.14 2.52
1863 4389 5.931441 AATCTGGAGACTCGAAACAAAAG 57.069 39.130 0.00 0.00 0.00 2.27
1887 4414 0.993532 CGAACGCCGTTATTACTGCA 59.006 50.000 0.79 0.00 34.54 4.41
2002 4529 2.429767 CCTCCAGAGCATCGCCAGA 61.430 63.158 0.00 0.00 42.67 3.86
2153 4681 1.614996 CCTGCAACCATGTGTTACCA 58.385 50.000 0.00 0.00 34.69 3.25
2157 4685 1.549203 GATCCCTGCAACCATGTGTT 58.451 50.000 0.00 0.00 37.80 3.32
2404 4940 2.111251 GCTAGGCAACCGGGGATC 59.889 66.667 6.32 0.00 37.17 3.36
2597 5146 7.492669 CACATAATTCTTTCATACAGGACGACT 59.507 37.037 0.00 0.00 0.00 4.18
2598 5147 7.277981 ACACATAATTCTTTCATACAGGACGAC 59.722 37.037 0.00 0.00 0.00 4.34
2683 5232 1.613925 AGCAGAGCTGACAGAACGTAA 59.386 47.619 6.65 0.00 37.57 3.18
2684 5233 1.200252 GAGCAGAGCTGACAGAACGTA 59.800 52.381 6.65 0.00 39.88 3.57
2685 5234 0.038709 GAGCAGAGCTGACAGAACGT 60.039 55.000 6.65 0.00 39.88 3.99
2686 5235 0.243365 AGAGCAGAGCTGACAGAACG 59.757 55.000 6.65 0.00 39.88 3.95
2687 5236 1.404047 GGAGAGCAGAGCTGACAGAAC 60.404 57.143 6.65 0.00 39.88 3.01
2688 5237 0.894141 GGAGAGCAGAGCTGACAGAA 59.106 55.000 6.65 0.00 39.88 3.02
2689 5238 0.039472 AGGAGAGCAGAGCTGACAGA 59.961 55.000 6.65 0.00 39.88 3.41
2690 5239 0.896923 AAGGAGAGCAGAGCTGACAG 59.103 55.000 0.85 0.00 39.88 3.51
2704 5254 7.389884 TCATTTCAGAAAGAGAATGACAAGGAG 59.610 37.037 1.28 0.00 33.18 3.69
2713 5263 7.545489 GCATTTCCTCATTTCAGAAAGAGAAT 58.455 34.615 17.39 10.76 33.33 2.40
2718 5268 5.051891 ACGCATTTCCTCATTTCAGAAAG 57.948 39.130 1.28 0.00 33.33 2.62
2720 5270 4.071423 TGACGCATTTCCTCATTTCAGAA 58.929 39.130 0.00 0.00 0.00 3.02
2724 5274 5.240713 AGAATGACGCATTTCCTCATTTC 57.759 39.130 6.54 0.00 35.27 2.17
2728 5278 2.270923 CGAGAATGACGCATTTCCTCA 58.729 47.619 15.06 0.00 33.90 3.86
2731 5281 0.657840 CCCGAGAATGACGCATTTCC 59.342 55.000 6.54 2.46 33.90 3.13
2766 5330 0.966179 GGAAAAGGATTGCCCGTGTT 59.034 50.000 0.00 0.00 40.87 3.32
2782 5346 2.505819 GTGAAGAGGGCTCATTAGGGAA 59.494 50.000 0.00 0.00 0.00 3.97
2788 5352 2.039084 AGAAACGTGAAGAGGGCTCATT 59.961 45.455 0.00 0.00 0.00 2.57
2790 5354 1.048601 AGAAACGTGAAGAGGGCTCA 58.951 50.000 0.00 0.00 0.00 4.26
2791 5355 1.433534 CAGAAACGTGAAGAGGGCTC 58.566 55.000 0.00 0.00 0.00 4.70
2792 5356 0.035458 CCAGAAACGTGAAGAGGGCT 59.965 55.000 0.00 0.00 0.00 5.19
2793 5357 0.034896 TCCAGAAACGTGAAGAGGGC 59.965 55.000 0.00 0.00 0.00 5.19
2815 5379 3.739300 CCCGTACGTCATAATCCATGAAC 59.261 47.826 15.21 0.00 45.28 3.18
2837 7629 0.796870 GTACGTTGTACCGCCGTACC 60.797 60.000 19.96 8.97 46.75 3.34
2838 7630 2.637155 GTACGTTGTACCGCCGTAC 58.363 57.895 17.58 17.58 46.59 3.67
2839 7631 1.133664 CGTACGTTGTACCGCCGTA 59.866 57.895 7.22 5.11 36.12 4.02
2840 7632 2.126888 CGTACGTTGTACCGCCGT 60.127 61.111 7.22 6.76 38.53 5.68
2841 7633 2.126888 ACGTACGTTGTACCGCCG 60.127 61.111 16.72 0.00 0.00 6.46
2842 7634 2.145905 CGACGTACGTTGTACCGCC 61.146 63.158 23.70 5.87 37.22 6.13
2843 7635 2.145905 CCGACGTACGTTGTACCGC 61.146 63.158 28.97 12.07 40.78 5.68
2844 7636 2.145905 GCCGACGTACGTTGTACCG 61.146 63.158 28.97 22.79 40.78 4.02
2845 7637 1.801512 GGCCGACGTACGTTGTACC 60.802 63.158 28.97 25.36 40.78 3.34
2846 7638 1.801512 GGGCCGACGTACGTTGTAC 60.802 63.158 28.97 21.44 40.78 2.90
2847 7639 2.198906 CTGGGCCGACGTACGTTGTA 62.199 60.000 28.97 14.38 40.78 2.41
2848 7640 3.562779 CTGGGCCGACGTACGTTGT 62.563 63.158 28.97 5.72 40.78 3.32
2849 7641 2.807895 CTGGGCCGACGTACGTTG 60.808 66.667 25.73 25.73 40.78 4.10
2850 7642 4.729856 GCTGGGCCGACGTACGTT 62.730 66.667 23.70 6.19 40.78 3.99
2880 7672 3.937079 CCCGAATTGTACTTTGGAGGTAC 59.063 47.826 3.21 0.00 39.70 3.34
2881 7673 3.620472 GCCCGAATTGTACTTTGGAGGTA 60.620 47.826 3.21 0.00 32.12 3.08
2882 7674 2.878526 GCCCGAATTGTACTTTGGAGGT 60.879 50.000 3.21 0.00 32.12 3.85
2883 7675 1.743394 GCCCGAATTGTACTTTGGAGG 59.257 52.381 3.21 0.00 32.12 4.30
2884 7676 1.396996 CGCCCGAATTGTACTTTGGAG 59.603 52.381 3.21 0.00 32.12 3.86
2885 7677 1.002201 TCGCCCGAATTGTACTTTGGA 59.998 47.619 3.21 0.00 32.12 3.53
2886 7678 1.396996 CTCGCCCGAATTGTACTTTGG 59.603 52.381 0.00 0.00 0.00 3.28
2887 7679 1.202031 GCTCGCCCGAATTGTACTTTG 60.202 52.381 0.00 0.00 0.00 2.77
2888 7680 1.084289 GCTCGCCCGAATTGTACTTT 58.916 50.000 0.00 0.00 0.00 2.66
2889 7681 0.743345 GGCTCGCCCGAATTGTACTT 60.743 55.000 0.00 0.00 0.00 2.24
2890 7682 1.153429 GGCTCGCCCGAATTGTACT 60.153 57.895 0.00 0.00 0.00 2.73
2891 7683 3.406559 GGCTCGCCCGAATTGTAC 58.593 61.111 0.00 0.00 0.00 2.90
2913 7705 0.547553 TAGATAAAACGGGGGCCACC 59.452 55.000 16.67 16.67 39.11 4.61
2914 7706 2.651382 ATAGATAAAACGGGGGCCAC 57.349 50.000 4.39 0.00 0.00 5.01
2915 7707 2.039348 GCTATAGATAAAACGGGGGCCA 59.961 50.000 4.39 0.00 0.00 5.36
2917 7709 3.335579 CTGCTATAGATAAAACGGGGGC 58.664 50.000 3.21 0.00 0.00 5.80
2918 7710 3.335579 GCTGCTATAGATAAAACGGGGG 58.664 50.000 3.21 0.00 0.00 5.40
2919 7711 3.008049 AGGCTGCTATAGATAAAACGGGG 59.992 47.826 3.21 0.00 0.00 5.73
2921 7713 3.997021 CCAGGCTGCTATAGATAAAACGG 59.003 47.826 9.56 0.00 0.00 4.44
2922 7714 3.433615 GCCAGGCTGCTATAGATAAAACG 59.566 47.826 9.56 0.00 0.00 3.60
2923 7715 4.389374 TGCCAGGCTGCTATAGATAAAAC 58.611 43.478 14.15 0.00 0.00 2.43
2924 7716 4.705110 TGCCAGGCTGCTATAGATAAAA 57.295 40.909 14.15 0.00 0.00 1.52
2925 7717 4.582869 CATGCCAGGCTGCTATAGATAAA 58.417 43.478 14.15 0.00 0.00 1.40
2926 7718 3.620719 GCATGCCAGGCTGCTATAGATAA 60.621 47.826 21.97 0.00 35.49 1.75
2927 7719 2.093288 GCATGCCAGGCTGCTATAGATA 60.093 50.000 21.97 0.00 35.49 1.98
2928 7720 1.339824 GCATGCCAGGCTGCTATAGAT 60.340 52.381 21.97 0.37 35.49 1.98
2929 7721 0.035881 GCATGCCAGGCTGCTATAGA 59.964 55.000 21.97 0.00 35.49 1.98
2930 7722 0.959372 GGCATGCCAGGCTGCTATAG 60.959 60.000 32.08 0.00 38.45 1.31
2931 7723 1.073722 GGCATGCCAGGCTGCTATA 59.926 57.895 32.08 2.92 38.45 1.31
2932 7724 2.203451 GGCATGCCAGGCTGCTAT 60.203 61.111 32.08 6.07 38.45 2.97
2947 7739 5.938438 ACTACTACTACTACAATAGCGGC 57.062 43.478 0.00 0.00 0.00 6.53
2949 7741 7.148672 ACGCATACTACTACTACTACAATAGCG 60.149 40.741 0.00 0.00 41.78 4.26
2950 7742 8.027440 ACGCATACTACTACTACTACAATAGC 57.973 38.462 0.00 0.00 0.00 2.97
2953 7745 7.040823 GGGAACGCATACTACTACTACTACAAT 60.041 40.741 0.00 0.00 0.00 2.71
2954 7746 6.260936 GGGAACGCATACTACTACTACTACAA 59.739 42.308 0.00 0.00 0.00 2.41
2955 7747 5.760253 GGGAACGCATACTACTACTACTACA 59.240 44.000 0.00 0.00 0.00 2.74
2956 7748 5.994668 AGGGAACGCATACTACTACTACTAC 59.005 44.000 0.00 0.00 0.00 2.73
2957 7749 6.179906 AGGGAACGCATACTACTACTACTA 57.820 41.667 0.00 0.00 0.00 1.82
2958 7750 5.046288 AGGGAACGCATACTACTACTACT 57.954 43.478 0.00 0.00 0.00 2.57
2959 7751 5.764487 AAGGGAACGCATACTACTACTAC 57.236 43.478 0.00 0.00 0.00 2.73
2960 7752 5.450965 GCAAAGGGAACGCATACTACTACTA 60.451 44.000 0.00 0.00 0.00 1.82
2961 7753 4.679905 GCAAAGGGAACGCATACTACTACT 60.680 45.833 0.00 0.00 0.00 2.57
2962 7754 3.554731 GCAAAGGGAACGCATACTACTAC 59.445 47.826 0.00 0.00 0.00 2.73
2963 7755 3.449737 AGCAAAGGGAACGCATACTACTA 59.550 43.478 0.00 0.00 0.00 1.82
2964 7756 2.236395 AGCAAAGGGAACGCATACTACT 59.764 45.455 0.00 0.00 0.00 2.57
2965 7757 2.608090 GAGCAAAGGGAACGCATACTAC 59.392 50.000 0.00 0.00 0.00 2.73
2992 7784 4.889409 ACACAATCAAAACACTGACAGGAT 59.111 37.500 7.51 0.00 0.00 3.24
3107 7902 1.449601 CCTCGTCCATTTCACCGGG 60.450 63.158 6.32 0.00 0.00 5.73
3156 7951 9.846248 GTTTCTACTAAAATAGTAAGGTCGACA 57.154 33.333 18.91 0.00 40.49 4.35
3185 7980 3.875134 GGATAGGGTAACGTGGATTTGTG 59.125 47.826 0.00 0.00 35.44 3.33
3197 7992 1.344438 CAGCTGCATCGGATAGGGTAA 59.656 52.381 0.00 0.00 0.00 2.85
3271 8069 3.575256 ACACACTACGTAATCCAGGACAA 59.425 43.478 0.00 0.00 0.00 3.18
3292 8090 2.095415 GGCCATGTCCGACTGTAAAAAC 60.095 50.000 0.00 0.00 0.00 2.43
3351 8149 0.822121 GACGGTTCCCTGGCAGTTTT 60.822 55.000 14.43 0.00 0.00 2.43
3376 8174 3.358076 GAAGTCGGCCGAGTCCAGG 62.358 68.421 34.41 0.00 0.00 4.45
3395 8193 2.672651 CCTGTGCGGGCATGTCAA 60.673 61.111 0.00 0.00 0.00 3.18
3400 8198 4.457496 CGTCTCCTGTGCGGGCAT 62.457 66.667 0.00 0.00 0.00 4.40
3436 8234 1.203287 GAACGGCTTTACGAGGGTAGT 59.797 52.381 0.00 0.00 37.61 2.73
3493 8291 7.707035 CAGTTAATATCACTTGTACTGGACCTC 59.293 40.741 0.00 0.00 0.00 3.85
3578 8376 2.239654 TCCCCATTGGAGTTGCTCTTAG 59.760 50.000 3.62 0.00 38.61 2.18
3596 8394 3.955543 TTTGAATGGGCCGCCTCCC 62.956 63.158 9.86 1.04 46.73 4.30
3597 8395 1.758122 ATTTGAATGGGCCGCCTCC 60.758 57.895 9.86 0.00 0.00 4.30
3598 8396 1.037030 TCATTTGAATGGGCCGCCTC 61.037 55.000 9.86 0.00 37.03 4.70
3599 8397 0.614415 TTCATTTGAATGGGCCGCCT 60.614 50.000 9.86 0.00 37.03 5.52
3600 8398 0.460109 GTTCATTTGAATGGGCCGCC 60.460 55.000 0.00 0.00 37.03 6.13
3601 8399 0.801836 CGTTCATTTGAATGGGCCGC 60.802 55.000 0.00 0.00 37.39 6.53
3602 8400 0.808125 TCGTTCATTTGAATGGGCCG 59.192 50.000 11.53 3.92 40.50 6.13
3603 8401 2.541588 CGATCGTTCATTTGAATGGGCC 60.542 50.000 7.03 0.00 40.50 5.80
3604 8402 2.097466 ACGATCGTTCATTTGAATGGGC 59.903 45.455 16.60 4.73 40.50 5.36
3605 8403 3.242739 GGACGATCGTTCATTTGAATGGG 60.243 47.826 23.63 5.54 40.50 4.00
3606 8404 3.544048 CGGACGATCGTTCATTTGAATGG 60.544 47.826 25.55 2.75 40.50 3.16
3607 8405 3.597324 CGGACGATCGTTCATTTGAATG 58.403 45.455 25.55 3.48 41.24 2.67
3608 8406 2.030457 GCGGACGATCGTTCATTTGAAT 59.970 45.455 25.55 0.00 36.33 2.57
3609 8407 1.392168 GCGGACGATCGTTCATTTGAA 59.608 47.619 25.55 0.00 0.00 2.69
3610 8408 0.996462 GCGGACGATCGTTCATTTGA 59.004 50.000 25.55 0.00 0.00 2.69
3611 8409 0.999406 AGCGGACGATCGTTCATTTG 59.001 50.000 25.55 10.74 0.00 2.32
3612 8410 1.722011 AAGCGGACGATCGTTCATTT 58.278 45.000 25.55 15.62 0.00 2.32
3613 8411 1.722011 AAAGCGGACGATCGTTCATT 58.278 45.000 25.55 16.36 0.00 2.57
3614 8412 1.722011 AAAAGCGGACGATCGTTCAT 58.278 45.000 25.55 11.18 0.00 2.57
3615 8413 1.193650 CAAAAAGCGGACGATCGTTCA 59.806 47.619 25.55 0.00 0.00 3.18
3616 8414 1.193874 ACAAAAAGCGGACGATCGTTC 59.806 47.619 23.63 20.21 0.00 3.95
3617 8415 1.193874 GACAAAAAGCGGACGATCGTT 59.806 47.619 23.63 2.75 0.00 3.85
3618 8416 0.788391 GACAAAAAGCGGACGATCGT 59.212 50.000 22.97 22.97 0.00 3.73
3619 8417 0.094730 GGACAAAAAGCGGACGATCG 59.905 55.000 14.88 14.88 0.00 3.69
3620 8418 0.094730 CGGACAAAAAGCGGACGATC 59.905 55.000 0.00 0.00 0.00 3.69
3621 8419 1.908066 GCGGACAAAAAGCGGACGAT 61.908 55.000 0.00 0.00 0.00 3.73
3622 8420 2.600475 GCGGACAAAAAGCGGACGA 61.600 57.895 0.00 0.00 0.00 4.20
3623 8421 2.127383 GCGGACAAAAAGCGGACG 60.127 61.111 0.00 0.00 0.00 4.79
3628 8426 2.127383 CGTCCGCGGACAAAAAGC 60.127 61.111 46.26 25.87 44.77 3.51


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

AutoCloner maintained by Alex Coulton.