Multiple sequence alignment - TraesCS7B01G466700

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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 TraesCS7B01G466700 chr7B 100.000 3350 0 0 1 3350 724167504 724170853 0.000000e+00 6187.0
1 TraesCS7B01G466700 chr7B 84.542 1462 155 39 938 2353 724982838 724981402 0.000000e+00 1382.0
2 TraesCS7B01G466700 chr7B 80.588 1190 134 42 1946 3062 724792061 724793226 0.000000e+00 828.0
3 TraesCS7B01G466700 chr7B 81.600 1000 131 26 969 1931 724791129 724792112 0.000000e+00 778.0
4 TraesCS7B01G466700 chr7B 80.991 989 149 16 970 1931 724285352 724286328 0.000000e+00 749.0
5 TraesCS7B01G466700 chr7B 81.535 964 129 17 970 1903 724401364 724402308 0.000000e+00 749.0
6 TraesCS7B01G466700 chr7B 83.178 214 22 9 2567 2771 724473837 724474045 2.050000e-42 183.0
7 TraesCS7B01G466700 chr7B 92.727 55 2 2 2428 2480 724981272 724981218 9.970000e-11 78.7
8 TraesCS7B01G466700 chr7B 92.157 51 1 2 2432 2481 723972171 723972219 6.000000e-08 69.4
9 TraesCS7B01G466700 chr7D 91.561 1659 106 7 790 2438 625121704 625120070 0.000000e+00 2257.0
10 TraesCS7B01G466700 chr7D 87.144 1229 120 21 1141 2350 625369915 625368706 0.000000e+00 1360.0
11 TraesCS7B01G466700 chr7D 91.408 419 22 7 2435 2845 625120040 625119628 2.260000e-156 562.0
12 TraesCS7B01G466700 chr7D 84.226 336 47 5 2861 3191 625149635 625149301 4.170000e-84 322.0
13 TraesCS7B01G466700 chr7D 76.651 424 66 17 2432 2845 625368568 625368168 1.580000e-48 204.0
14 TraesCS7B01G466700 chr7D 91.089 101 8 1 2862 2962 625368080 625367981 5.830000e-28 135.0
15 TraesCS7B01G466700 chr7D 89.655 87 9 0 2351 2437 625368679 625368593 9.830000e-21 111.0
16 TraesCS7B01G466700 chr7A 91.286 1664 116 8 790 2437 720953419 720955069 0.000000e+00 2242.0
17 TraesCS7B01G466700 chr7A 84.132 939 83 44 2435 3345 720955100 720956000 0.000000e+00 848.0
18 TraesCS7B01G466700 chr7A 85.847 756 99 7 3 754 641228379 641229130 0.000000e+00 797.0
19 TraesCS7B01G466700 chr7A 86.303 752 78 11 1 752 134508367 134509093 0.000000e+00 795.0
20 TraesCS7B01G466700 chr7A 81.358 810 95 23 1141 1931 721024718 721023946 2.860000e-170 608.0
21 TraesCS7B01G466700 chr7A 83.503 491 75 5 1949 2437 721023994 721023508 1.420000e-123 453.0
22 TraesCS7B01G466700 chr7A 82.436 427 46 23 2435 2845 721023477 721023064 2.470000e-91 346.0
23 TraesCS7B01G466700 chr7A 75.204 613 113 27 1146 1748 672950223 672950806 1.540000e-63 254.0
24 TraesCS7B01G466700 chrUn 82.438 1452 186 31 938 2350 87733975 87735396 0.000000e+00 1205.0
25 TraesCS7B01G466700 chrUn 82.014 973 122 21 963 1903 93228085 93229036 0.000000e+00 778.0
26 TraesCS7B01G466700 chrUn 96.078 51 1 1 2428 2477 87735530 87735580 7.700000e-12 82.4
27 TraesCS7B01G466700 chr2A 87.401 754 72 11 1 754 14559534 14558804 0.000000e+00 845.0
28 TraesCS7B01G466700 chr2A 77.043 257 40 9 2432 2684 223888579 223888820 2.710000e-26 130.0
29 TraesCS7B01G466700 chr5A 86.340 754 80 10 1 754 466862664 466861934 0.000000e+00 800.0
30 TraesCS7B01G466700 chr5D 85.638 752 102 6 4 754 478720958 478721704 0.000000e+00 785.0
31 TraesCS7B01G466700 chr6D 91.130 575 51 0 1 575 29394592 29394018 0.000000e+00 780.0
32 TraesCS7B01G466700 chr6D 84.270 89 10 2 666 754 29393709 29393625 2.140000e-12 84.2
33 TraesCS7B01G466700 chr4D 84.728 753 108 7 3 754 476301254 476302000 0.000000e+00 747.0
34 TraesCS7B01G466700 chr4B 85.909 660 81 10 101 754 149787641 149788294 0.000000e+00 693.0
35 TraesCS7B01G466700 chr3B 86.557 610 82 0 4 613 561092387 561092996 0.000000e+00 673.0
36 TraesCS7B01G466700 chr1B 84.677 248 31 7 3108 3348 651162220 651162467 1.200000e-59 241.0
37 TraesCS7B01G466700 chr6A 89.109 101 10 1 2862 2962 493360189 493360090 1.260000e-24 124.0
38 TraesCS7B01G466700 chr6A 100.000 34 0 0 2404 2437 493360735 493360702 2.790000e-06 63.9


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 TraesCS7B01G466700 chr7B 724167504 724170853 3349 False 6187.00 6187 100.000000 1 3350 1 chr7B.!!$F2 3349
1 TraesCS7B01G466700 chr7B 724791129 724793226 2097 False 803.00 828 81.094000 969 3062 2 chr7B.!!$F6 2093
2 TraesCS7B01G466700 chr7B 724285352 724286328 976 False 749.00 749 80.991000 970 1931 1 chr7B.!!$F3 961
3 TraesCS7B01G466700 chr7B 724401364 724402308 944 False 749.00 749 81.535000 970 1903 1 chr7B.!!$F4 933
4 TraesCS7B01G466700 chr7B 724981218 724982838 1620 True 730.35 1382 88.634500 938 2480 2 chr7B.!!$R1 1542
5 TraesCS7B01G466700 chr7D 625119628 625121704 2076 True 1409.50 2257 91.484500 790 2845 2 chr7D.!!$R2 2055
6 TraesCS7B01G466700 chr7D 625367981 625369915 1934 True 452.50 1360 86.134750 1141 2962 4 chr7D.!!$R3 1821
7 TraesCS7B01G466700 chr7A 720953419 720956000 2581 False 1545.00 2242 87.709000 790 3345 2 chr7A.!!$F4 2555
8 TraesCS7B01G466700 chr7A 641228379 641229130 751 False 797.00 797 85.847000 3 754 1 chr7A.!!$F2 751
9 TraesCS7B01G466700 chr7A 134508367 134509093 726 False 795.00 795 86.303000 1 752 1 chr7A.!!$F1 751
10 TraesCS7B01G466700 chr7A 721023064 721024718 1654 True 469.00 608 82.432333 1141 2845 3 chr7A.!!$R1 1704
11 TraesCS7B01G466700 chr7A 672950223 672950806 583 False 254.00 254 75.204000 1146 1748 1 chr7A.!!$F3 602
12 TraesCS7B01G466700 chrUn 93228085 93229036 951 False 778.00 778 82.014000 963 1903 1 chrUn.!!$F1 940
13 TraesCS7B01G466700 chrUn 87733975 87735580 1605 False 643.70 1205 89.258000 938 2477 2 chrUn.!!$F2 1539
14 TraesCS7B01G466700 chr2A 14558804 14559534 730 True 845.00 845 87.401000 1 754 1 chr2A.!!$R1 753
15 TraesCS7B01G466700 chr5A 466861934 466862664 730 True 800.00 800 86.340000 1 754 1 chr5A.!!$R1 753
16 TraesCS7B01G466700 chr5D 478720958 478721704 746 False 785.00 785 85.638000 4 754 1 chr5D.!!$F1 750
17 TraesCS7B01G466700 chr6D 29393625 29394592 967 True 432.10 780 87.700000 1 754 2 chr6D.!!$R1 753
18 TraesCS7B01G466700 chr4D 476301254 476302000 746 False 747.00 747 84.728000 3 754 1 chr4D.!!$F1 751
19 TraesCS7B01G466700 chr4B 149787641 149788294 653 False 693.00 693 85.909000 101 754 1 chr4B.!!$F1 653
20 TraesCS7B01G466700 chr3B 561092387 561092996 609 False 673.00 673 86.557000 4 613 1 chr3B.!!$F1 609

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
242 243 0.249699 CAAAACCACCGCTTTTCCCC 60.250 55.0 0.00 0.00 0.00 4.81 F
736 764 0.320421 CGCCACCGAGAGAAAAAGGA 60.320 55.0 0.00 0.00 36.29 3.36 F
788 816 0.564171 AGGATATCCACGGGTACCCA 59.436 55.0 30.44 11.68 42.67 4.51 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1794 1910 0.031994 CAAGGGCACGGAAAAACAGG 59.968 55.000 0.0 0.0 0.00 4.00 R
1803 1919 0.609131 ATTCAAGGTCAAGGGCACGG 60.609 55.000 0.0 0.0 0.00 4.94 R
2765 3032 2.031314 CGCGTCATCAGCAGAATTTCAT 59.969 45.455 0.0 0.0 34.19 2.57 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
79 80 6.546484 ACCTTCAAAATCTTGAGATCTTGGA 58.454 36.000 7.09 0.00 42.48 3.53
142 143 4.344104 TGATCTTTGGGAAGAAACCATCC 58.656 43.478 0.00 0.00 44.61 3.51
200 201 4.216042 TGTTGAGTTCAATAGTCGACGGTA 59.784 41.667 10.46 0.00 41.69 4.02
225 226 1.950973 TAGCCGTCATACTGCGCCAA 61.951 55.000 4.18 0.00 33.37 4.52
242 243 0.249699 CAAAACCACCGCTTTTCCCC 60.250 55.000 0.00 0.00 0.00 4.81
303 304 0.680618 CCCAAGCATCCAAACTGCAA 59.319 50.000 0.00 0.00 42.15 4.08
418 421 0.966920 TCTTCTCGGTGTGAACCCTC 59.033 55.000 0.00 0.00 0.00 4.30
552 555 4.918201 GCCGCTTCCTGATCCCGG 62.918 72.222 0.00 0.00 41.72 5.73
556 559 2.202932 CTTCCTGATCCCGGTGCG 60.203 66.667 0.00 0.00 0.00 5.34
571 575 1.670811 GGTGCGGTGTCTTCCATATTG 59.329 52.381 0.00 0.00 0.00 1.90
600 606 3.652000 GTTTTGTTCCGCGGGCGA 61.652 61.111 27.83 15.71 42.83 5.54
614 620 1.867363 GGGCGATATGATCCCTACCT 58.133 55.000 0.00 0.00 37.08 3.08
647 675 3.849951 CGATGACGGGACCCCAGG 61.850 72.222 4.46 0.00 35.37 4.45
675 703 4.647615 CGCCGGCGTGGAGGATAG 62.648 72.222 39.71 8.63 42.00 2.08
676 704 4.301027 GCCGGCGTGGAGGATAGG 62.301 72.222 12.58 0.00 42.00 2.57
677 705 2.520982 CCGGCGTGGAGGATAGGA 60.521 66.667 6.01 0.00 42.00 2.94
678 706 2.565645 CCGGCGTGGAGGATAGGAG 61.566 68.421 6.01 0.00 42.00 3.69
679 707 1.528542 CGGCGTGGAGGATAGGAGA 60.529 63.158 0.00 0.00 0.00 3.71
680 708 1.519751 CGGCGTGGAGGATAGGAGAG 61.520 65.000 0.00 0.00 0.00 3.20
681 709 1.182385 GGCGTGGAGGATAGGAGAGG 61.182 65.000 0.00 0.00 0.00 3.69
682 710 1.182385 GCGTGGAGGATAGGAGAGGG 61.182 65.000 0.00 0.00 0.00 4.30
683 711 0.540830 CGTGGAGGATAGGAGAGGGG 60.541 65.000 0.00 0.00 0.00 4.79
684 712 0.861155 GTGGAGGATAGGAGAGGGGA 59.139 60.000 0.00 0.00 0.00 4.81
685 713 1.162505 TGGAGGATAGGAGAGGGGAG 58.837 60.000 0.00 0.00 0.00 4.30
686 714 1.347627 TGGAGGATAGGAGAGGGGAGA 60.348 57.143 0.00 0.00 0.00 3.71
687 715 1.076513 GGAGGATAGGAGAGGGGAGAC 59.923 61.905 0.00 0.00 0.00 3.36
688 716 0.774908 AGGATAGGAGAGGGGAGACG 59.225 60.000 0.00 0.00 0.00 4.18
689 717 0.772384 GGATAGGAGAGGGGAGACGA 59.228 60.000 0.00 0.00 0.00 4.20
690 718 1.145325 GGATAGGAGAGGGGAGACGAA 59.855 57.143 0.00 0.00 0.00 3.85
691 719 2.510613 GATAGGAGAGGGGAGACGAAG 58.489 57.143 0.00 0.00 0.00 3.79
704 732 3.336122 ACGAAGTCTCTACGGTGGT 57.664 52.632 0.00 0.00 29.74 4.16
705 733 0.879765 ACGAAGTCTCTACGGTGGTG 59.120 55.000 0.00 0.00 29.74 4.17
706 734 0.456312 CGAAGTCTCTACGGTGGTGC 60.456 60.000 0.00 0.00 0.00 5.01
707 735 0.456312 GAAGTCTCTACGGTGGTGCG 60.456 60.000 0.00 0.00 0.00 5.34
708 736 1.874345 AAGTCTCTACGGTGGTGCGG 61.874 60.000 0.00 0.00 0.00 5.69
709 737 2.282674 TCTCTACGGTGGTGCGGT 60.283 61.111 0.00 0.00 34.85 5.68
710 738 2.126071 CTCTACGGTGGTGCGGTG 60.126 66.667 0.00 0.00 32.68 4.94
711 739 3.642778 CTCTACGGTGGTGCGGTGG 62.643 68.421 0.00 0.00 32.68 4.61
712 740 3.687102 CTACGGTGGTGCGGTGGA 61.687 66.667 0.00 0.00 32.08 4.02
713 741 2.998480 TACGGTGGTGCGGTGGAT 60.998 61.111 0.00 0.00 32.68 3.41
714 742 2.901051 CTACGGTGGTGCGGTGGATC 62.901 65.000 0.00 0.00 32.08 3.36
728 756 4.933064 GATCGCCGCCACCGAGAG 62.933 72.222 0.00 0.00 38.20 3.20
731 759 4.735132 CGCCGCCACCGAGAGAAA 62.735 66.667 0.00 0.00 36.29 2.52
732 760 2.358247 GCCGCCACCGAGAGAAAA 60.358 61.111 0.00 0.00 36.29 2.29
733 761 1.964373 GCCGCCACCGAGAGAAAAA 60.964 57.895 0.00 0.00 36.29 1.94
734 762 1.912371 GCCGCCACCGAGAGAAAAAG 61.912 60.000 0.00 0.00 36.29 2.27
735 763 1.298859 CCGCCACCGAGAGAAAAAGG 61.299 60.000 0.00 0.00 36.29 3.11
736 764 0.320421 CGCCACCGAGAGAAAAAGGA 60.320 55.000 0.00 0.00 36.29 3.36
737 765 1.876416 CGCCACCGAGAGAAAAAGGAA 60.876 52.381 0.00 0.00 36.29 3.36
738 766 2.227194 GCCACCGAGAGAAAAAGGAAA 58.773 47.619 0.00 0.00 0.00 3.13
739 767 2.031069 GCCACCGAGAGAAAAAGGAAAC 60.031 50.000 0.00 0.00 0.00 2.78
740 768 2.552743 CCACCGAGAGAAAAAGGAAACC 59.447 50.000 0.00 0.00 0.00 3.27
741 769 2.552743 CACCGAGAGAAAAAGGAAACCC 59.447 50.000 0.00 0.00 0.00 4.11
742 770 2.442126 ACCGAGAGAAAAAGGAAACCCT 59.558 45.455 0.00 0.00 34.97 4.34
743 771 3.649502 ACCGAGAGAAAAAGGAAACCCTA 59.350 43.478 0.00 0.00 32.65 3.53
744 772 4.103627 ACCGAGAGAAAAAGGAAACCCTAA 59.896 41.667 0.00 0.00 32.65 2.69
745 773 4.454847 CCGAGAGAAAAAGGAAACCCTAAC 59.545 45.833 0.00 0.00 32.65 2.34
746 774 5.061179 CGAGAGAAAAAGGAAACCCTAACA 58.939 41.667 0.00 0.00 32.65 2.41
747 775 5.179555 CGAGAGAAAAAGGAAACCCTAACAG 59.820 44.000 0.00 0.00 32.65 3.16
748 776 5.386060 AGAGAAAAAGGAAACCCTAACAGG 58.614 41.667 0.00 0.00 32.65 4.00
749 777 5.133830 AGAGAAAAAGGAAACCCTAACAGGA 59.866 40.000 0.00 0.00 37.67 3.86
750 778 5.386060 AGAAAAAGGAAACCCTAACAGGAG 58.614 41.667 0.00 0.00 37.67 3.69
751 779 3.808834 AAAGGAAACCCTAACAGGAGG 57.191 47.619 0.00 0.00 37.67 4.30
759 787 2.971901 CCTAACAGGAGGGGTTGTTT 57.028 50.000 0.00 0.00 37.67 2.83
760 788 3.238788 CCTAACAGGAGGGGTTGTTTT 57.761 47.619 0.00 0.00 37.67 2.43
761 789 3.154710 CCTAACAGGAGGGGTTGTTTTC 58.845 50.000 0.00 0.00 37.67 2.29
762 790 2.838637 AACAGGAGGGGTTGTTTTCA 57.161 45.000 0.00 0.00 0.00 2.69
763 791 2.364972 ACAGGAGGGGTTGTTTTCAG 57.635 50.000 0.00 0.00 0.00 3.02
764 792 1.133482 ACAGGAGGGGTTGTTTTCAGG 60.133 52.381 0.00 0.00 0.00 3.86
765 793 1.133482 CAGGAGGGGTTGTTTTCAGGT 60.133 52.381 0.00 0.00 0.00 4.00
766 794 2.107552 CAGGAGGGGTTGTTTTCAGGTA 59.892 50.000 0.00 0.00 0.00 3.08
767 795 2.375509 AGGAGGGGTTGTTTTCAGGTAG 59.624 50.000 0.00 0.00 0.00 3.18
768 796 2.554564 GGAGGGGTTGTTTTCAGGTAGG 60.555 54.545 0.00 0.00 0.00 3.18
769 797 2.374170 GAGGGGTTGTTTTCAGGTAGGA 59.626 50.000 0.00 0.00 0.00 2.94
770 798 2.375509 AGGGGTTGTTTTCAGGTAGGAG 59.624 50.000 0.00 0.00 0.00 3.69
771 799 2.554564 GGGGTTGTTTTCAGGTAGGAGG 60.555 54.545 0.00 0.00 0.00 4.30
772 800 2.374170 GGGTTGTTTTCAGGTAGGAGGA 59.626 50.000 0.00 0.00 0.00 3.71
773 801 3.010250 GGGTTGTTTTCAGGTAGGAGGAT 59.990 47.826 0.00 0.00 0.00 3.24
774 802 4.226620 GGGTTGTTTTCAGGTAGGAGGATA 59.773 45.833 0.00 0.00 0.00 2.59
775 803 5.104067 GGGTTGTTTTCAGGTAGGAGGATAT 60.104 44.000 0.00 0.00 0.00 1.63
776 804 6.056236 GGTTGTTTTCAGGTAGGAGGATATC 58.944 44.000 0.00 0.00 0.00 1.63
787 815 1.264295 GAGGATATCCACGGGTACCC 58.736 60.000 22.19 22.19 42.67 3.69
788 816 0.564171 AGGATATCCACGGGTACCCA 59.436 55.000 30.44 11.68 42.67 4.51
850 881 3.428413 ACAGTTAGCCCGTTTAATGGT 57.572 42.857 2.26 0.00 0.00 3.55
889 920 3.495629 CGCCCCTACCCCTAAATAAAGTC 60.496 52.174 0.00 0.00 0.00 3.01
911 942 0.568192 CTCTCCCCTATCCCTTCCCA 59.432 60.000 0.00 0.00 0.00 4.37
921 952 6.071320 CCCTATCCCTTCCCATAAAAGAAAG 58.929 44.000 0.00 0.00 0.00 2.62
922 953 6.126185 CCCTATCCCTTCCCATAAAAGAAAGA 60.126 42.308 0.00 0.00 0.00 2.52
1093 1132 3.828023 AACCACCGCCAACCCCTT 61.828 61.111 0.00 0.00 0.00 3.95
1101 1140 2.985116 GCCAACCCCTTCTCCTCCC 61.985 68.421 0.00 0.00 0.00 4.30
1182 1249 0.596083 GGCTGATCGACGACATCCTG 60.596 60.000 0.00 0.00 0.00 3.86
1188 1255 1.153823 CGACGACATCCTGGTGGAC 60.154 63.158 0.00 0.00 46.51 4.02
1318 1385 2.582498 CCGGCTTCTTCTACGGCG 60.582 66.667 4.80 4.80 44.86 6.46
1321 1388 3.255379 GCTTCTTCTACGGCGGCG 61.255 66.667 31.06 31.06 0.00 6.46
1656 1739 2.744202 CCATGTGTTTGAGCTGGTAGTC 59.256 50.000 0.00 0.00 0.00 2.59
1660 1743 1.961394 TGTTTGAGCTGGTAGTCGAGT 59.039 47.619 0.00 0.00 0.00 4.18
1673 1762 7.502120 TGGTAGTCGAGTACAATTATAGTCC 57.498 40.000 27.20 10.18 0.00 3.85
1679 1768 6.632035 GTCGAGTACAATTATAGTCCGAACAG 59.368 42.308 0.00 0.00 0.00 3.16
1791 1907 2.417719 GCAACAGTCTTTCTCGATGGT 58.582 47.619 0.00 0.00 0.00 3.55
1794 1910 3.859411 ACAGTCTTTCTCGATGGTCTC 57.141 47.619 0.00 0.00 0.00 3.36
1803 1919 3.926616 TCTCGATGGTCTCCTGTTTTTC 58.073 45.455 0.00 0.00 0.00 2.29
1881 1997 6.493166 AGAAACATGGATGAAATTCAGGGTA 58.507 36.000 1.10 0.00 27.78 3.69
1920 2084 1.135721 GATTTTGGTCTGGCTGATGGC 59.864 52.381 0.00 0.00 40.90 4.40
1941 2105 5.010922 TGGCTTTGTTCAGCAGATGTTATTT 59.989 36.000 0.00 0.00 42.10 1.40
1943 2107 5.164022 GCTTTGTTCAGCAGATGTTATTTGC 60.164 40.000 0.00 0.00 39.83 3.68
1998 2162 2.454055 GCTCATGGTTTTATTCAGCGC 58.546 47.619 0.00 0.00 0.00 5.92
2034 2198 4.706035 TGCATTTTGCCAATTTTCAGAGT 58.294 34.783 0.00 0.00 44.23 3.24
2063 2228 0.458370 GGTGTTGGCATTCGATTGGC 60.458 55.000 22.65 22.65 42.20 4.52
2102 2267 6.817765 AAACTATCAAAGCGAAGAATGGAA 57.182 33.333 0.00 0.00 0.00 3.53
2155 2320 4.860802 TGTGGATGGACAGATTTATGGT 57.139 40.909 0.00 0.00 0.00 3.55
2162 2327 6.322201 GGATGGACAGATTTATGGTTTGATGT 59.678 38.462 0.00 0.00 0.00 3.06
2205 2370 1.098050 ATCCGGAATGCAACTTGCTC 58.902 50.000 9.01 5.04 45.31 4.26
2345 2511 3.884693 ACAGAGTCACAATCATTGCACAA 59.115 39.130 0.00 0.00 0.00 3.33
2350 2516 6.032956 AGTCACAATCATTGCACAATTGAT 57.967 33.333 13.59 7.93 35.03 2.57
2353 2519 8.905850 AGTCACAATCATTGCACAATTGATATA 58.094 29.630 13.59 0.00 35.03 0.86
2373 2567 3.451141 AAGAAGTGGATCTCTGATCGC 57.549 47.619 0.00 0.00 0.00 4.58
2377 2571 2.106566 AGTGGATCTCTGATCGCAGTT 58.893 47.619 0.00 0.00 42.84 3.16
2378 2572 2.159128 AGTGGATCTCTGATCGCAGTTG 60.159 50.000 0.00 0.00 42.84 3.16
2384 2578 5.278709 GGATCTCTGATCGCAGTTGATTCTA 60.279 44.000 0.00 0.00 42.84 2.10
2504 2731 4.201940 TGTGATCTGCTATCCAAATTTGCG 60.202 41.667 12.92 6.50 0.00 4.85
2519 2746 0.237235 TTGCGCTAAACTTTCTGCCG 59.763 50.000 9.73 0.00 0.00 5.69
2544 2771 3.504906 TGTACTGGTCTCTGGTTTAGTCG 59.495 47.826 0.00 0.00 0.00 4.18
2552 2779 5.163733 GGTCTCTGGTTTAGTCGACTTCTAG 60.164 48.000 25.44 19.54 32.45 2.43
2553 2780 5.642919 GTCTCTGGTTTAGTCGACTTCTAGA 59.357 44.000 25.44 22.13 0.00 2.43
2556 2783 7.393796 TCTCTGGTTTAGTCGACTTCTAGATTT 59.606 37.037 25.44 0.00 0.00 2.17
2558 2785 5.867716 TGGTTTAGTCGACTTCTAGATTTGC 59.132 40.000 25.44 2.86 0.00 3.68
2559 2786 5.867716 GGTTTAGTCGACTTCTAGATTTGCA 59.132 40.000 25.44 0.00 0.00 4.08
2561 2788 4.792521 AGTCGACTTCTAGATTTGCACT 57.207 40.909 13.58 0.00 0.00 4.40
2562 2789 5.899120 AGTCGACTTCTAGATTTGCACTA 57.101 39.130 13.58 0.00 0.00 2.74
2563 2790 6.268825 AGTCGACTTCTAGATTTGCACTAA 57.731 37.500 13.58 0.00 0.00 2.24
2564 2791 6.688578 AGTCGACTTCTAGATTTGCACTAAA 58.311 36.000 13.58 0.00 0.00 1.85
2565 2792 7.324178 AGTCGACTTCTAGATTTGCACTAAAT 58.676 34.615 13.58 0.00 41.59 1.40
2627 2862 8.843885 ATGATCATTATGTAAGACATGGACAG 57.156 34.615 1.18 0.00 39.53 3.51
2708 2951 2.282391 AGCATTTGCAGCCACGGA 60.282 55.556 5.20 0.00 45.16 4.69
2710 2953 1.216178 GCATTTGCAGCCACGGAAT 59.784 52.632 0.00 0.00 41.59 3.01
2765 3032 5.126545 ACTTGTCTGCTAACGATATGGTGTA 59.873 40.000 0.00 0.00 0.00 2.90
2783 3050 5.355071 TGGTGTATGAAATTCTGCTGATGAC 59.645 40.000 0.00 0.00 0.00 3.06
2800 3077 4.873259 TGATGACGCGAATCATTTTCCTTA 59.127 37.500 15.93 0.00 39.48 2.69
2826 3103 4.070630 TCCTGCCAATGGTTTGAAAAAG 57.929 40.909 0.00 0.00 34.60 2.27
2831 3108 6.127786 CCTGCCAATGGTTTGAAAAAGAAAAA 60.128 34.615 0.00 0.00 34.60 1.94
2849 3170 3.515330 AAATCCTTGCTGCAATGCTAC 57.485 42.857 16.38 0.00 0.00 3.58
2852 3173 2.086869 TCCTTGCTGCAATGCTACTTC 58.913 47.619 16.38 0.00 0.00 3.01
2899 3250 5.517770 GCTGTGCTTGGATCATAATTTTCAC 59.482 40.000 0.00 0.00 0.00 3.18
2958 3309 4.340950 AGTGGTCTTTGTTTGTGGGTATTG 59.659 41.667 0.00 0.00 0.00 1.90
2964 3315 4.314740 TTGTTTGTGGGTATTGTTCAGC 57.685 40.909 0.00 0.00 0.00 4.26
2986 3337 4.329256 GCTAGGTAGCGTAAAAGAGTTTGG 59.671 45.833 0.00 0.00 39.82 3.28
3062 3413 1.327460 CGATCCCTGTAATGTTGCACG 59.673 52.381 0.00 0.00 0.00 5.34
3069 3420 2.736721 CTGTAATGTTGCACGTACAGCT 59.263 45.455 4.19 0.00 34.65 4.24
3102 3453 7.167136 CAGAGCTGTTTCTGAATTTTGACTTTC 59.833 37.037 0.00 0.00 45.95 2.62
3120 3471 4.772624 ACTTTCTGTGTCCTATAGCACTGA 59.227 41.667 12.77 12.77 40.21 3.41
3126 3477 4.994852 TGTGTCCTATAGCACTGAAACAAC 59.005 41.667 10.62 0.00 36.63 3.32
3131 3482 3.923017 ATAGCACTGAAACAACAAGGC 57.077 42.857 0.00 0.00 0.00 4.35
3166 3517 1.538950 GGCTCTGGTTTCAGCTTCAAG 59.461 52.381 0.00 0.00 40.69 3.02
3192 3543 7.013369 GTCTCCAAAACAAACTGAAACTATCCT 59.987 37.037 0.00 0.00 0.00 3.24
3194 3545 8.073467 TCCAAAACAAACTGAAACTATCCTTT 57.927 30.769 0.00 0.00 0.00 3.11
3199 3550 7.881775 ACAAACTGAAACTATCCTTTTGTCT 57.118 32.000 0.00 0.00 37.40 3.41
3200 3551 7.707104 ACAAACTGAAACTATCCTTTTGTCTG 58.293 34.615 0.00 0.00 37.40 3.51
3202 3553 5.941788 ACTGAAACTATCCTTTTGTCTGGT 58.058 37.500 0.00 0.00 0.00 4.00
3211 3562 0.534203 TTTTGTCTGGTGCTCCCGTC 60.534 55.000 1.59 0.00 35.15 4.79
3214 3565 2.915659 TCTGGTGCTCCCGTCGTT 60.916 61.111 1.59 0.00 35.15 3.85
3216 3567 1.153823 CTGGTGCTCCCGTCGTTAG 60.154 63.158 1.59 0.00 35.15 2.34
3217 3568 2.183555 GGTGCTCCCGTCGTTAGG 59.816 66.667 0.00 0.00 0.00 2.69
3219 3570 1.153881 GTGCTCCCGTCGTTAGGAC 60.154 63.158 0.00 0.00 42.48 3.85
3228 3579 2.654877 CGTTAGGACGGCACTGGT 59.345 61.111 0.00 0.00 45.32 4.00
3230 3581 0.244450 CGTTAGGACGGCACTGGTAA 59.756 55.000 0.00 0.00 45.32 2.85
3231 3582 1.718396 GTTAGGACGGCACTGGTAAC 58.282 55.000 0.00 0.00 0.00 2.50
3233 3584 5.951568 CGTTAGGACGGCACTGGTAACAA 62.952 52.174 0.00 0.00 46.48 2.83
3248 3608 4.710324 GGTAACAATTGTATCGGGGATGA 58.290 43.478 12.39 0.00 0.00 2.92
3272 3632 5.221843 ACACTGGTGTTTAGGAGCTAAATCA 60.222 40.000 0.01 0.00 41.83 2.57
3285 3645 6.015434 AGGAGCTAAATCAATTTGTTTTCGGT 60.015 34.615 8.36 8.26 0.00 4.69
3305 3666 8.801882 TTCGGTGATTTTGAGGTAGATTTATT 57.198 30.769 0.00 0.00 0.00 1.40
3326 3687 9.677567 TTTATTTGTAAGAACACTTTCAGCATC 57.322 29.630 0.00 0.00 34.61 3.91
3345 3706 7.066645 TCAGCATCATCTAGTCAAGGAAAATTG 59.933 37.037 0.00 0.00 0.00 2.32
3346 3707 6.320672 AGCATCATCTAGTCAAGGAAAATTGG 59.679 38.462 0.00 0.00 0.00 3.16
3347 3708 6.096001 GCATCATCTAGTCAAGGAAAATTGGT 59.904 38.462 0.00 0.00 0.00 3.67
3348 3709 7.680588 GCATCATCTAGTCAAGGAAAATTGGTC 60.681 40.741 0.00 0.00 0.00 4.02
3349 3710 5.874810 TCATCTAGTCAAGGAAAATTGGTCG 59.125 40.000 0.00 0.00 0.00 4.79
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
79 80 3.643320 TGGGAGAATTCATCTACGCTGAT 59.357 43.478 8.44 0.00 40.27 2.90
94 95 1.070786 GTCTGCAACGGTGGGAGAA 59.929 57.895 8.43 0.00 34.40 2.87
200 201 2.550978 GCAGTATGACGGCTACACAAT 58.449 47.619 0.00 0.00 39.69 2.71
225 226 1.112916 CAGGGGAAAAGCGGTGGTTT 61.113 55.000 0.00 0.00 34.60 3.27
242 243 1.003696 GGAAGGACCCTGGAGTTTCAG 59.996 57.143 0.00 0.00 34.70 3.02
303 304 6.618811 CCGCTTGAAGATAACCTATATACGT 58.381 40.000 0.00 0.00 0.00 3.57
451 454 2.822561 GGTGATCGAGGATGATGAGCTA 59.177 50.000 0.00 0.00 29.09 3.32
552 555 1.064060 GCAATATGGAAGACACCGCAC 59.936 52.381 0.00 0.00 0.00 5.34
556 559 2.099756 GCAAGGCAATATGGAAGACACC 59.900 50.000 0.00 0.00 0.00 4.16
571 575 1.744320 AACAAAACCTCGGGCAAGGC 61.744 55.000 5.17 0.00 40.34 4.35
600 606 5.342993 GGGAAGGGATAGGTAGGGATCATAT 60.343 48.000 0.00 0.00 0.00 1.78
658 686 4.647615 CTATCCTCCACGCCGGCG 62.648 72.222 44.88 44.88 46.03 6.46
659 687 4.301027 CCTATCCTCCACGCCGGC 62.301 72.222 19.07 19.07 33.14 6.13
660 688 2.520982 TCCTATCCTCCACGCCGG 60.521 66.667 0.00 0.00 0.00 6.13
661 689 1.519751 CTCTCCTATCCTCCACGCCG 61.520 65.000 0.00 0.00 0.00 6.46
662 690 1.182385 CCTCTCCTATCCTCCACGCC 61.182 65.000 0.00 0.00 0.00 5.68
663 691 1.182385 CCCTCTCCTATCCTCCACGC 61.182 65.000 0.00 0.00 0.00 5.34
664 692 0.540830 CCCCTCTCCTATCCTCCACG 60.541 65.000 0.00 0.00 0.00 4.94
665 693 0.861155 TCCCCTCTCCTATCCTCCAC 59.139 60.000 0.00 0.00 0.00 4.02
666 694 1.162505 CTCCCCTCTCCTATCCTCCA 58.837 60.000 0.00 0.00 0.00 3.86
667 695 1.076513 GTCTCCCCTCTCCTATCCTCC 59.923 61.905 0.00 0.00 0.00 4.30
668 696 1.271707 CGTCTCCCCTCTCCTATCCTC 60.272 61.905 0.00 0.00 0.00 3.71
669 697 0.774908 CGTCTCCCCTCTCCTATCCT 59.225 60.000 0.00 0.00 0.00 3.24
670 698 0.772384 TCGTCTCCCCTCTCCTATCC 59.228 60.000 0.00 0.00 0.00 2.59
671 699 2.158579 ACTTCGTCTCCCCTCTCCTATC 60.159 54.545 0.00 0.00 0.00 2.08
672 700 1.854280 ACTTCGTCTCCCCTCTCCTAT 59.146 52.381 0.00 0.00 0.00 2.57
673 701 1.212441 GACTTCGTCTCCCCTCTCCTA 59.788 57.143 0.00 0.00 0.00 2.94
674 702 0.033894 GACTTCGTCTCCCCTCTCCT 60.034 60.000 0.00 0.00 0.00 3.69
675 703 0.033894 AGACTTCGTCTCCCCTCTCC 60.034 60.000 0.00 0.00 38.71 3.71
676 704 3.581163 AGACTTCGTCTCCCCTCTC 57.419 57.895 0.00 0.00 38.71 3.20
684 712 1.271271 ACCACCGTAGAGACTTCGTCT 60.271 52.381 0.00 0.00 46.42 4.18
685 713 1.135746 CACCACCGTAGAGACTTCGTC 60.136 57.143 0.00 0.00 0.00 4.20
686 714 0.879765 CACCACCGTAGAGACTTCGT 59.120 55.000 0.00 0.00 0.00 3.85
687 715 0.456312 GCACCACCGTAGAGACTTCG 60.456 60.000 0.00 0.00 0.00 3.79
688 716 0.456312 CGCACCACCGTAGAGACTTC 60.456 60.000 0.00 0.00 0.00 3.01
689 717 1.585006 CGCACCACCGTAGAGACTT 59.415 57.895 0.00 0.00 0.00 3.01
690 718 2.341101 CCGCACCACCGTAGAGACT 61.341 63.158 0.00 0.00 0.00 3.24
691 719 2.181021 CCGCACCACCGTAGAGAC 59.819 66.667 0.00 0.00 0.00 3.36
692 720 2.282674 ACCGCACCACCGTAGAGA 60.283 61.111 0.00 0.00 0.00 3.10
693 721 2.126071 CACCGCACCACCGTAGAG 60.126 66.667 0.00 0.00 0.00 2.43
694 722 3.687102 CCACCGCACCACCGTAGA 61.687 66.667 0.00 0.00 0.00 2.59
695 723 2.901051 GATCCACCGCACCACCGTAG 62.901 65.000 0.00 0.00 0.00 3.51
696 724 2.998480 ATCCACCGCACCACCGTA 60.998 61.111 0.00 0.00 0.00 4.02
697 725 4.388499 GATCCACCGCACCACCGT 62.388 66.667 0.00 0.00 0.00 4.83
711 739 4.933064 CTCTCGGTGGCGGCGATC 62.933 72.222 12.98 1.66 0.00 3.69
714 742 4.735132 TTTCTCTCGGTGGCGGCG 62.735 66.667 0.51 0.51 0.00 6.46
715 743 1.912371 CTTTTTCTCTCGGTGGCGGC 61.912 60.000 0.00 0.00 0.00 6.53
716 744 1.298859 CCTTTTTCTCTCGGTGGCGG 61.299 60.000 0.00 0.00 0.00 6.13
717 745 0.320421 TCCTTTTTCTCTCGGTGGCG 60.320 55.000 0.00 0.00 0.00 5.69
718 746 1.892209 TTCCTTTTTCTCTCGGTGGC 58.108 50.000 0.00 0.00 0.00 5.01
719 747 2.552743 GGTTTCCTTTTTCTCTCGGTGG 59.447 50.000 0.00 0.00 0.00 4.61
720 748 2.552743 GGGTTTCCTTTTTCTCTCGGTG 59.447 50.000 0.00 0.00 0.00 4.94
721 749 2.442126 AGGGTTTCCTTTTTCTCTCGGT 59.558 45.455 0.00 0.00 41.56 4.69
722 750 3.141767 AGGGTTTCCTTTTTCTCTCGG 57.858 47.619 0.00 0.00 41.56 4.63
723 751 5.061179 TGTTAGGGTTTCCTTTTTCTCTCG 58.939 41.667 0.00 0.00 41.56 4.04
724 752 5.473846 CCTGTTAGGGTTTCCTTTTTCTCTC 59.526 44.000 0.00 0.00 41.56 3.20
725 753 5.133830 TCCTGTTAGGGTTTCCTTTTTCTCT 59.866 40.000 0.00 0.00 41.56 3.10
726 754 5.382616 TCCTGTTAGGGTTTCCTTTTTCTC 58.617 41.667 0.00 0.00 41.56 2.87
727 755 5.386060 CTCCTGTTAGGGTTTCCTTTTTCT 58.614 41.667 0.00 0.00 41.56 2.52
728 756 4.523173 CCTCCTGTTAGGGTTTCCTTTTTC 59.477 45.833 0.00 0.00 41.56 2.29
729 757 4.480115 CCTCCTGTTAGGGTTTCCTTTTT 58.520 43.478 0.00 0.00 41.56 1.94
730 758 4.114015 CCTCCTGTTAGGGTTTCCTTTT 57.886 45.455 0.00 0.00 41.56 2.27
731 759 3.808834 CCTCCTGTTAGGGTTTCCTTT 57.191 47.619 0.00 0.00 41.56 3.11
740 768 2.971901 AAACAACCCCTCCTGTTAGG 57.028 50.000 0.00 0.00 34.71 2.69
741 769 3.821033 CTGAAAACAACCCCTCCTGTTAG 59.179 47.826 0.00 0.00 34.71 2.34
742 770 3.435890 CCTGAAAACAACCCCTCCTGTTA 60.436 47.826 0.00 0.00 34.71 2.41
743 771 2.666317 CTGAAAACAACCCCTCCTGTT 58.334 47.619 0.00 0.00 37.36 3.16
744 772 1.133482 CCTGAAAACAACCCCTCCTGT 60.133 52.381 0.00 0.00 0.00 4.00
745 773 1.133482 ACCTGAAAACAACCCCTCCTG 60.133 52.381 0.00 0.00 0.00 3.86
746 774 1.231963 ACCTGAAAACAACCCCTCCT 58.768 50.000 0.00 0.00 0.00 3.69
747 775 2.554564 CCTACCTGAAAACAACCCCTCC 60.555 54.545 0.00 0.00 0.00 4.30
748 776 2.374170 TCCTACCTGAAAACAACCCCTC 59.626 50.000 0.00 0.00 0.00 4.30
749 777 2.375509 CTCCTACCTGAAAACAACCCCT 59.624 50.000 0.00 0.00 0.00 4.79
750 778 2.554564 CCTCCTACCTGAAAACAACCCC 60.555 54.545 0.00 0.00 0.00 4.95
751 779 2.374170 TCCTCCTACCTGAAAACAACCC 59.626 50.000 0.00 0.00 0.00 4.11
752 780 3.782656 TCCTCCTACCTGAAAACAACC 57.217 47.619 0.00 0.00 0.00 3.77
753 781 6.056236 GGATATCCTCCTACCTGAAAACAAC 58.944 44.000 14.97 0.00 41.29 3.32
754 782 5.729229 TGGATATCCTCCTACCTGAAAACAA 59.271 40.000 22.35 0.00 45.21 2.83
755 783 5.130477 GTGGATATCCTCCTACCTGAAAACA 59.870 44.000 22.35 0.00 45.21 2.83
756 784 5.612351 GTGGATATCCTCCTACCTGAAAAC 58.388 45.833 22.35 3.98 45.21 2.43
757 785 4.344102 CGTGGATATCCTCCTACCTGAAAA 59.656 45.833 22.35 0.00 45.21 2.29
758 786 3.895656 CGTGGATATCCTCCTACCTGAAA 59.104 47.826 22.35 0.00 45.21 2.69
759 787 3.497332 CGTGGATATCCTCCTACCTGAA 58.503 50.000 22.35 0.00 45.21 3.02
760 788 2.225041 CCGTGGATATCCTCCTACCTGA 60.225 54.545 22.35 0.00 45.21 3.86
761 789 2.171840 CCGTGGATATCCTCCTACCTG 58.828 57.143 22.35 5.41 45.21 4.00
762 790 1.077334 CCCGTGGATATCCTCCTACCT 59.923 57.143 22.35 0.00 45.21 3.08
763 791 1.203149 ACCCGTGGATATCCTCCTACC 60.203 57.143 22.35 3.28 45.21 3.18
764 792 2.305858 ACCCGTGGATATCCTCCTAC 57.694 55.000 22.35 11.13 45.21 3.18
765 793 2.042162 GGTACCCGTGGATATCCTCCTA 59.958 54.545 22.35 0.00 45.21 2.94
766 794 1.203149 GGTACCCGTGGATATCCTCCT 60.203 57.143 22.35 6.03 45.21 3.69
767 795 1.264295 GGTACCCGTGGATATCCTCC 58.736 60.000 22.35 11.86 45.19 4.30
782 810 0.903942 TGGACCGTTGGTATGGGTAC 59.096 55.000 0.00 0.00 35.25 3.34
783 811 1.882308 ATGGACCGTTGGTATGGGTA 58.118 50.000 0.00 0.00 35.25 3.69
784 812 0.996583 AATGGACCGTTGGTATGGGT 59.003 50.000 0.00 0.00 35.25 4.51
785 813 1.675552 GAATGGACCGTTGGTATGGG 58.324 55.000 2.90 0.00 35.25 4.00
786 814 1.295792 CGAATGGACCGTTGGTATGG 58.704 55.000 2.90 0.00 35.25 2.74
787 815 0.655733 GCGAATGGACCGTTGGTATG 59.344 55.000 2.90 0.00 35.25 2.39
788 816 0.539986 AGCGAATGGACCGTTGGTAT 59.460 50.000 2.90 0.00 35.25 2.73
798 826 1.347707 CCTATGGGCTTAGCGAATGGA 59.652 52.381 0.00 0.00 0.00 3.41
889 920 1.203250 GGAAGGGATAGGGGAGAGAGG 60.203 61.905 0.00 0.00 0.00 3.69
1083 1122 2.677848 GGAGGAGAAGGGGTTGGC 59.322 66.667 0.00 0.00 0.00 4.52
1084 1123 0.044244 TAGGGAGGAGAAGGGGTTGG 59.956 60.000 0.00 0.00 0.00 3.77
1093 1132 1.719378 GGGGATCAGATAGGGAGGAGA 59.281 57.143 0.00 0.00 0.00 3.71
1101 1140 2.534990 GGAGGTCAGGGGATCAGATAG 58.465 57.143 0.00 0.00 0.00 2.08
1182 1249 2.105128 CGCGAGAGGATGTCCACC 59.895 66.667 0.00 0.00 38.89 4.61
1188 1255 4.933064 GGGACGCGCGAGAGGATG 62.933 72.222 39.36 4.66 34.13 3.51
1656 1739 5.398711 GCTGTTCGGACTATAATTGTACTCG 59.601 44.000 0.00 0.00 0.00 4.18
1660 1743 5.276270 GTCGCTGTTCGGACTATAATTGTA 58.724 41.667 0.00 0.00 39.05 2.41
1673 1762 2.170985 CGCAAAGGTCGCTGTTCG 59.829 61.111 0.00 0.00 40.15 3.95
1679 1768 3.423154 CCACTCCGCAAAGGTCGC 61.423 66.667 0.00 0.00 41.99 5.19
1791 1907 0.536460 GGGCACGGAAAAACAGGAGA 60.536 55.000 0.00 0.00 0.00 3.71
1794 1910 0.031994 CAAGGGCACGGAAAAACAGG 59.968 55.000 0.00 0.00 0.00 4.00
1803 1919 0.609131 ATTCAAGGTCAAGGGCACGG 60.609 55.000 0.00 0.00 0.00 4.94
1887 2003 2.819608 ACCAAAATCATCAACCTGACCG 59.180 45.455 0.00 0.00 0.00 4.79
1920 2084 5.060077 CGCAAATAACATCTGCTGAACAAAG 59.940 40.000 0.00 0.00 33.82 2.77
1941 2105 3.164977 TGACCACCAGGAACCGCA 61.165 61.111 0.00 0.00 38.69 5.69
2034 2198 2.583024 TGCCAACACCATCTTCATCA 57.417 45.000 0.00 0.00 0.00 3.07
2102 2267 9.362539 CTGAAGTTTTAATGCTATGCTTCAATT 57.637 29.630 0.00 0.00 39.81 2.32
2155 2320 7.360185 CGCAATGAAATCAAAATCCACATCAAA 60.360 33.333 0.00 0.00 0.00 2.69
2162 2327 6.396450 TGAATCGCAATGAAATCAAAATCCA 58.604 32.000 0.00 0.00 0.00 3.41
2242 2407 4.471904 TGACCTGCCGATTATCCATATC 57.528 45.455 0.00 0.00 0.00 1.63
2350 2516 5.770162 TGCGATCAGAGATCCACTTCTTATA 59.230 40.000 1.72 0.00 0.00 0.98
2353 2519 2.762887 TGCGATCAGAGATCCACTTCTT 59.237 45.455 1.72 0.00 0.00 2.52
2373 2567 4.758674 CCCCATAGCATGTAGAATCAACTG 59.241 45.833 0.00 0.00 0.00 3.16
2377 2571 2.710471 TGCCCCATAGCATGTAGAATCA 59.290 45.455 0.00 0.00 38.00 2.57
2378 2572 3.341823 CTGCCCCATAGCATGTAGAATC 58.658 50.000 0.00 0.00 43.09 2.52
2384 2578 2.203252 CGCTGCCCCATAGCATGT 60.203 61.111 0.00 0.00 43.09 3.21
2504 2731 4.868734 AGTACATACGGCAGAAAGTTTAGC 59.131 41.667 0.00 4.38 0.00 3.09
2519 2746 6.527057 ACTAAACCAGAGACCAGTACATAC 57.473 41.667 0.00 0.00 0.00 2.39
2544 2771 8.239998 AGCAAATTTAGTGCAAATCTAGAAGTC 58.760 33.333 0.00 0.00 44.74 3.01
2552 2779 7.201350 CGAGGTTAAGCAAATTTAGTGCAAATC 60.201 37.037 7.52 0.00 44.74 2.17
2553 2780 6.586082 CGAGGTTAAGCAAATTTAGTGCAAAT 59.414 34.615 7.52 0.00 44.74 2.32
2556 2783 4.517453 ACGAGGTTAAGCAAATTTAGTGCA 59.483 37.500 7.52 0.00 44.74 4.57
2558 2785 5.997385 ACACGAGGTTAAGCAAATTTAGTG 58.003 37.500 7.52 5.19 0.00 2.74
2559 2786 6.932960 ACTACACGAGGTTAAGCAAATTTAGT 59.067 34.615 7.52 5.19 0.00 2.24
2561 2788 6.707161 ACACTACACGAGGTTAAGCAAATTTA 59.293 34.615 7.52 0.00 0.00 1.40
2562 2789 5.529800 ACACTACACGAGGTTAAGCAAATTT 59.470 36.000 7.52 0.00 0.00 1.82
2563 2790 5.061179 ACACTACACGAGGTTAAGCAAATT 58.939 37.500 7.52 0.00 0.00 1.82
2564 2791 4.638304 ACACTACACGAGGTTAAGCAAAT 58.362 39.130 7.52 0.00 0.00 2.32
2565 2792 4.062677 ACACTACACGAGGTTAAGCAAA 57.937 40.909 7.52 0.00 0.00 3.68
2627 2862 5.391312 AAGTTTTCCTGCATGATAACCAC 57.609 39.130 17.25 0.00 29.65 4.16
2765 3032 2.031314 CGCGTCATCAGCAGAATTTCAT 59.969 45.455 0.00 0.00 34.19 2.57
2783 3050 5.909610 GGAAAGATAAGGAAAATGATTCGCG 59.090 40.000 0.00 0.00 0.00 5.87
2800 3077 3.509442 TCAAACCATTGGCAGGAAAGAT 58.491 40.909 1.54 0.00 37.15 2.40
2826 3103 3.332034 AGCATTGCAGCAAGGATTTTTC 58.668 40.909 23.70 4.42 36.85 2.29
2831 3108 2.431954 AGTAGCATTGCAGCAAGGAT 57.568 45.000 23.70 19.71 36.85 3.24
2852 3173 4.662145 GCGTTTGATGATGTCCTAAAAGG 58.338 43.478 0.00 0.00 36.46 3.11
2958 3309 4.741342 TCTTTTACGCTACCTAGCTGAAC 58.259 43.478 0.00 0.00 46.85 3.18
2964 3315 5.717119 TCCAAACTCTTTTACGCTACCTAG 58.283 41.667 0.00 0.00 0.00 3.02
3038 3389 2.870411 GCAACATTACAGGGATCGTACC 59.130 50.000 0.00 0.00 0.00 3.34
3062 3413 2.966050 AGCTCTGCAAAGTAGCTGTAC 58.034 47.619 10.67 0.00 44.67 2.90
3069 3420 4.071961 TCAGAAACAGCTCTGCAAAGTA 57.928 40.909 0.00 0.00 42.25 2.24
3102 3453 4.820897 TGTTTCAGTGCTATAGGACACAG 58.179 43.478 24.25 14.26 39.30 3.66
3120 3471 1.133668 AGAGCCTGAGCCTTGTTGTTT 60.134 47.619 0.00 0.00 41.25 2.83
3126 3477 0.954449 CACACAGAGCCTGAGCCTTG 60.954 60.000 8.91 0.17 41.25 3.61
3131 3482 2.046507 GCCCACACAGAGCCTGAG 60.047 66.667 8.91 4.08 35.18 3.35
3166 3517 7.013369 AGGATAGTTTCAGTTTGTTTTGGAGAC 59.987 37.037 0.00 0.00 0.00 3.36
3192 3543 0.534203 GACGGGAGCACCAGACAAAA 60.534 55.000 7.41 0.00 40.22 2.44
3194 3545 2.741092 GACGGGAGCACCAGACAA 59.259 61.111 7.41 0.00 40.22 3.18
3199 3550 2.642254 CCTAACGACGGGAGCACCA 61.642 63.158 1.58 0.00 40.22 4.17
3200 3551 2.183555 CCTAACGACGGGAGCACC 59.816 66.667 0.00 0.00 0.00 5.01
3202 3553 3.281240 GTCCTAACGACGGGAGCA 58.719 61.111 0.00 0.00 31.66 4.26
3214 3565 1.340088 TTGTTACCAGTGCCGTCCTA 58.660 50.000 0.00 0.00 0.00 2.94
3216 3567 1.199097 CAATTGTTACCAGTGCCGTCC 59.801 52.381 0.00 0.00 0.00 4.79
3217 3568 1.877443 ACAATTGTTACCAGTGCCGTC 59.123 47.619 4.92 0.00 0.00 4.79
3219 3570 3.242284 CGATACAATTGTTACCAGTGCCG 60.242 47.826 17.78 4.07 0.00 5.69
3222 3573 3.625764 CCCCGATACAATTGTTACCAGTG 59.374 47.826 17.78 0.28 0.00 3.66
3223 3574 3.520317 TCCCCGATACAATTGTTACCAGT 59.480 43.478 17.78 0.00 0.00 4.00
3224 3575 4.145365 TCCCCGATACAATTGTTACCAG 57.855 45.455 17.78 3.67 0.00 4.00
3225 3576 4.164413 TCATCCCCGATACAATTGTTACCA 59.836 41.667 17.78 0.00 0.00 3.25
3226 3577 4.514066 GTCATCCCCGATACAATTGTTACC 59.486 45.833 17.78 5.52 0.00 2.85
3227 3578 5.007332 GTGTCATCCCCGATACAATTGTTAC 59.993 44.000 17.78 10.16 0.00 2.50
3228 3579 5.104693 AGTGTCATCCCCGATACAATTGTTA 60.105 40.000 17.78 3.36 30.03 2.41
3230 3581 3.199946 AGTGTCATCCCCGATACAATTGT 59.800 43.478 16.68 16.68 30.03 2.71
3231 3582 3.561310 CAGTGTCATCCCCGATACAATTG 59.439 47.826 3.24 3.24 30.03 2.32
3233 3584 2.104792 CCAGTGTCATCCCCGATACAAT 59.895 50.000 0.00 0.00 30.03 2.71
3234 3585 1.484653 CCAGTGTCATCCCCGATACAA 59.515 52.381 0.00 0.00 30.03 2.41
3236 3587 1.120530 ACCAGTGTCATCCCCGATAC 58.879 55.000 0.00 0.00 0.00 2.24
3246 3606 2.047061 AGCTCCTAAACACCAGTGTCA 58.953 47.619 3.49 0.00 44.13 3.58
3272 3632 6.345298 ACCTCAAAATCACCGAAAACAAATT 58.655 32.000 0.00 0.00 0.00 1.82
3282 3642 8.458843 ACAAATAAATCTACCTCAAAATCACCG 58.541 33.333 0.00 0.00 0.00 4.94
3305 3666 6.712095 AGATGATGCTGAAAGTGTTCTTACAA 59.288 34.615 0.00 0.00 35.69 2.41
3319 3680 5.682234 TTTCCTTGACTAGATGATGCTGA 57.318 39.130 0.00 0.00 0.00 4.26
3326 3687 6.111768 CGACCAATTTTCCTTGACTAGATG 57.888 41.667 0.00 0.00 0.00 2.90


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

AutoCloner maintained by Alex Coulton.