Multiple sequence alignment - TraesCS2D01G194300

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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 TraesCS2D01G194300 chr2D 100.000 3356 0 0 1 3356 139263945 139267300 0.000000e+00 6198
1 TraesCS2D01G194300 chr2D 83.852 836 112 17 2530 3346 630316644 630317475 0.000000e+00 774
2 TraesCS2D01G194300 chr2D 84.547 673 79 14 2684 3333 586906183 586906853 0.000000e+00 643
3 TraesCS2D01G194300 chr2D 90.667 150 13 1 416 565 139264307 139264455 7.340000e-47 198
4 TraesCS2D01G194300 chr2D 90.667 150 13 1 363 511 139264360 139264509 7.340000e-47 198
5 TraesCS2D01G194300 chr2D 86.598 97 12 1 363 458 139264413 139264509 4.580000e-19 106
6 TraesCS2D01G194300 chr2A 93.627 816 49 3 2109 2923 161801659 161800846 0.000000e+00 1216
7 TraesCS2D01G194300 chr2A 91.108 776 25 14 822 1584 161813807 161813063 0.000000e+00 1011
8 TraesCS2D01G194300 chr2A 91.535 508 41 2 2851 3356 161800885 161800378 0.000000e+00 699
9 TraesCS2D01G194300 chr2A 97.619 252 6 0 1866 2117 161803007 161802756 1.850000e-117 433
10 TraesCS2D01G194300 chr2A 89.706 204 14 7 1666 1867 161812757 161812559 1.550000e-63 254
11 TraesCS2D01G194300 chr7A 94.561 717 25 3 1 716 138980746 138980043 0.000000e+00 1096
12 TraesCS2D01G194300 chr5D 96.713 578 18 1 1 577 548855152 548854575 0.000000e+00 961
13 TraesCS2D01G194300 chr5D 97.573 206 5 0 213 418 457642082 457641877 1.480000e-93 353
14 TraesCS2D01G194300 chr5D 87.625 299 16 11 363 661 548854736 548854459 8.980000e-86 327
15 TraesCS2D01G194300 chr6A 90.387 749 26 16 2 716 592480969 592480233 0.000000e+00 942
16 TraesCS2D01G194300 chr4D 86.426 803 88 15 2530 3321 28834855 28835647 0.000000e+00 859
17 TraesCS2D01G194300 chr3B 85.424 837 94 23 2530 3346 4295699 4296527 0.000000e+00 845
18 TraesCS2D01G194300 chr3B 84.397 846 102 25 2535 3356 418883688 418884527 0.000000e+00 804
19 TraesCS2D01G194300 chr3B 83.111 823 113 16 2530 3333 715005346 715004531 0.000000e+00 726
20 TraesCS2D01G194300 chr3B 82.779 842 90 36 2536 3356 675023048 675023855 0.000000e+00 701
21 TraesCS2D01G194300 chr3B 85.317 504 53 14 987 1475 750861482 750861979 5.000000e-138 501
22 TraesCS2D01G194300 chr3B 79.196 423 75 13 116 532 792745765 792746180 7.090000e-72 281
23 TraesCS2D01G194300 chr3B 79.447 253 37 11 116 357 555574220 555573972 7.450000e-37 165
24 TraesCS2D01G194300 chr3B 86.154 130 18 0 3227 3356 809168345 809168216 1.260000e-29 141
25 TraesCS2D01G194300 chr3B 90.625 96 9 0 3247 3342 20747595 20747500 9.770000e-26 128
26 TraesCS2D01G194300 chr3B 90.323 93 9 0 3264 3356 201905118 201905026 4.550000e-24 122
27 TraesCS2D01G194300 chr3B 85.217 115 13 3 3245 3356 652492193 652492080 7.610000e-22 115
28 TraesCS2D01G194300 chr5B 84.530 724 69 16 2627 3333 293460070 293460767 0.000000e+00 676
29 TraesCS2D01G194300 chr3A 82.346 844 85 32 2535 3325 72477360 72476528 0.000000e+00 675
30 TraesCS2D01G194300 chr3D 88.312 462 54 0 1826 2287 563427099 563427560 3.780000e-154 555
31 TraesCS2D01G194300 chrUn 80.525 457 62 10 99 532 94992520 94992068 3.230000e-85 326
32 TraesCS2D01G194300 chrUn 76.301 346 65 10 1015 1359 15341661 15341990 5.760000e-38 169
33 TraesCS2D01G194300 chrUn 76.301 346 65 10 1015 1359 272748005 272747676 5.760000e-38 169
34 TraesCS2D01G194300 chr7B 88.462 260 30 0 1826 2085 693269360 693269619 6.990000e-82 315
35 TraesCS2D01G194300 chr2B 81.704 399 50 14 2535 2917 206263337 206262946 9.040000e-81 311
36 TraesCS2D01G194300 chr2B 81.402 371 43 15 2530 2875 700220772 700220403 2.550000e-71 279
37 TraesCS2D01G194300 chr2B 75.828 302 61 6 3057 3356 233124328 233124037 3.490000e-30 143
38 TraesCS2D01G194300 chr2B 85.841 113 15 1 3245 3356 209080237 209080125 5.880000e-23 119
39 TraesCS2D01G194300 chr2B 90.476 84 8 0 2530 2613 22459253 22459170 9.840000e-21 111
40 TraesCS2D01G194300 chr6B 86.923 260 34 0 1826 2085 16925253 16924994 3.280000e-75 292
41 TraesCS2D01G194300 chr5A 79.770 435 60 11 115 525 139487032 139486602 1.180000e-74 291
42 TraesCS2D01G194300 chr5A 79.327 416 73 11 123 532 310721523 310721931 2.550000e-71 279
43 TraesCS2D01G194300 chr4A 82.041 245 35 4 378 615 420502258 420502016 2.040000e-47 200
44 TraesCS2D01G194300 chr1D 79.805 307 37 9 271 555 309575457 309575154 2.040000e-47 200


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 TraesCS2D01G194300 chr2D 139263945 139267300 3355 False 1675.000000 6198 91.983000 1 3356 4 chr2D.!!$F3 3355
1 TraesCS2D01G194300 chr2D 630316644 630317475 831 False 774.000000 774 83.852000 2530 3346 1 chr2D.!!$F2 816
2 TraesCS2D01G194300 chr2D 586906183 586906853 670 False 643.000000 643 84.547000 2684 3333 1 chr2D.!!$F1 649
3 TraesCS2D01G194300 chr2A 161800378 161803007 2629 True 782.666667 1216 94.260333 1866 3356 3 chr2A.!!$R1 1490
4 TraesCS2D01G194300 chr2A 161812559 161813807 1248 True 632.500000 1011 90.407000 822 1867 2 chr2A.!!$R2 1045
5 TraesCS2D01G194300 chr7A 138980043 138980746 703 True 1096.000000 1096 94.561000 1 716 1 chr7A.!!$R1 715
6 TraesCS2D01G194300 chr5D 548854459 548855152 693 True 644.000000 961 92.169000 1 661 2 chr5D.!!$R2 660
7 TraesCS2D01G194300 chr6A 592480233 592480969 736 True 942.000000 942 90.387000 2 716 1 chr6A.!!$R1 714
8 TraesCS2D01G194300 chr4D 28834855 28835647 792 False 859.000000 859 86.426000 2530 3321 1 chr4D.!!$F1 791
9 TraesCS2D01G194300 chr3B 4295699 4296527 828 False 845.000000 845 85.424000 2530 3346 1 chr3B.!!$F1 816
10 TraesCS2D01G194300 chr3B 418883688 418884527 839 False 804.000000 804 84.397000 2535 3356 1 chr3B.!!$F2 821
11 TraesCS2D01G194300 chr3B 715004531 715005346 815 True 726.000000 726 83.111000 2530 3333 1 chr3B.!!$R5 803
12 TraesCS2D01G194300 chr3B 675023048 675023855 807 False 701.000000 701 82.779000 2536 3356 1 chr3B.!!$F3 820
13 TraesCS2D01G194300 chr5B 293460070 293460767 697 False 676.000000 676 84.530000 2627 3333 1 chr5B.!!$F1 706
14 TraesCS2D01G194300 chr3A 72476528 72477360 832 True 675.000000 675 82.346000 2535 3325 1 chr3A.!!$R1 790

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
528 530 0.179179 GAGTTGCATTGGAGCTTCGC 60.179 55.0 0.0 0.0 34.99 4.7 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2418 3799 0.03831 GCAGGAGCACCCTACCTTTT 59.962 55.0 0.0 0.0 45.6 2.27 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
25 26 2.125391 TGGACTGATGCTGCGAGC 60.125 61.111 0.00 1.70 42.82 5.03
137 139 3.316821 CGAGCATGTCGGATGCAG 58.683 61.111 18.66 10.60 46.77 4.41
242 244 1.175983 GCGTCCTCCCAGATCTCGAT 61.176 60.000 0.00 0.00 0.00 3.59
528 530 0.179179 GAGTTGCATTGGAGCTTCGC 60.179 55.000 0.00 0.00 34.99 4.70
540 542 4.351938 CTTCGCCGGACACCGTCA 62.352 66.667 5.05 0.00 46.80 4.35
661 696 1.714794 CTTTACTGCTCCCGTGACTG 58.285 55.000 0.00 0.00 0.00 3.51
662 697 0.320421 TTTACTGCTCCCGTGACTGC 60.320 55.000 0.00 0.00 0.00 4.40
663 698 1.185618 TTACTGCTCCCGTGACTGCT 61.186 55.000 0.00 0.00 0.00 4.24
664 699 1.595993 TACTGCTCCCGTGACTGCTC 61.596 60.000 0.00 0.00 0.00 4.26
665 700 3.655810 CTGCTCCCGTGACTGCTCC 62.656 68.421 0.00 0.00 0.00 4.70
666 701 4.459089 GCTCCCGTGACTGCTCCC 62.459 72.222 0.00 0.00 0.00 4.30
667 702 4.135153 CTCCCGTGACTGCTCCCG 62.135 72.222 0.00 0.00 0.00 5.14
668 703 4.988716 TCCCGTGACTGCTCCCGT 62.989 66.667 0.00 0.00 0.00 5.28
669 704 4.742201 CCCGTGACTGCTCCCGTG 62.742 72.222 0.00 0.00 0.00 4.94
670 705 3.680786 CCGTGACTGCTCCCGTGA 61.681 66.667 0.00 0.00 0.00 4.35
671 706 2.430921 CGTGACTGCTCCCGTGAC 60.431 66.667 0.00 0.00 0.00 3.67
672 707 2.920645 CGTGACTGCTCCCGTGACT 61.921 63.158 0.00 0.00 0.00 3.41
696 731 4.175516 TGTTATCATCGAACGGTTACCAC 58.824 43.478 1.13 0.00 0.00 4.16
701 736 1.300080 CGAACGGTTACCACGGTGT 60.300 57.895 7.45 0.00 36.62 4.16
716 751 1.080093 GTGTTGATCGGACGGCTGA 60.080 57.895 0.00 0.00 0.00 4.26
717 752 0.460284 GTGTTGATCGGACGGCTGAT 60.460 55.000 13.87 13.87 42.79 2.90
718 753 0.249120 TGTTGATCGGACGGCTGATT 59.751 50.000 15.33 0.00 40.21 2.57
719 754 1.338674 TGTTGATCGGACGGCTGATTT 60.339 47.619 15.33 0.00 40.21 2.17
720 755 1.062587 GTTGATCGGACGGCTGATTTG 59.937 52.381 15.33 0.00 40.21 2.32
721 756 0.249120 TGATCGGACGGCTGATTTGT 59.751 50.000 15.33 0.00 40.21 2.83
722 757 1.478916 TGATCGGACGGCTGATTTGTA 59.521 47.619 15.33 0.00 40.21 2.41
723 758 2.128035 GATCGGACGGCTGATTTGTAG 58.872 52.381 15.33 0.00 40.21 2.74
724 759 0.459585 TCGGACGGCTGATTTGTAGC 60.460 55.000 0.00 0.00 40.41 3.58
725 760 0.739462 CGGACGGCTGATTTGTAGCA 60.739 55.000 0.00 0.00 42.88 3.49
726 761 1.009829 GGACGGCTGATTTGTAGCAG 58.990 55.000 0.00 0.00 42.88 4.24
727 762 3.935993 ACGGCTGATTTGTAGCAGT 57.064 47.368 0.00 0.00 43.14 4.40
728 763 1.726853 ACGGCTGATTTGTAGCAGTC 58.273 50.000 0.00 0.00 44.30 3.51
730 765 0.375106 GGCTGATTTGTAGCAGTCGC 59.625 55.000 0.00 0.00 42.88 5.19
731 766 0.375106 GCTGATTTGTAGCAGTCGCC 59.625 55.000 0.00 0.00 39.95 5.54
732 767 1.725641 CTGATTTGTAGCAGTCGCCA 58.274 50.000 0.00 0.00 39.83 5.69
733 768 2.076100 CTGATTTGTAGCAGTCGCCAA 58.924 47.619 0.00 0.00 39.83 4.52
734 769 2.076100 TGATTTGTAGCAGTCGCCAAG 58.924 47.619 0.00 0.00 39.83 3.61
735 770 2.289382 TGATTTGTAGCAGTCGCCAAGA 60.289 45.455 0.00 0.00 39.83 3.02
736 771 2.472695 TTTGTAGCAGTCGCCAAGAT 57.527 45.000 0.00 0.00 39.83 2.40
737 772 2.472695 TTGTAGCAGTCGCCAAGATT 57.527 45.000 0.00 0.00 39.83 2.40
738 773 1.725641 TGTAGCAGTCGCCAAGATTG 58.274 50.000 0.00 0.00 39.83 2.67
757 792 9.865321 CAAGATTGGATTTGAATCACTGTTTAT 57.135 29.630 6.11 0.00 37.15 1.40
758 793 9.865321 AAGATTGGATTTGAATCACTGTTTATG 57.135 29.630 6.11 0.00 37.15 1.90
759 794 9.028284 AGATTGGATTTGAATCACTGTTTATGT 57.972 29.630 6.11 0.00 37.15 2.29
760 795 8.991243 ATTGGATTTGAATCACTGTTTATGTG 57.009 30.769 6.11 0.00 37.15 3.21
761 796 7.523293 TGGATTTGAATCACTGTTTATGTGT 57.477 32.000 6.11 0.00 37.15 3.72
762 797 8.628630 TGGATTTGAATCACTGTTTATGTGTA 57.371 30.769 6.11 0.00 37.15 2.90
763 798 9.241919 TGGATTTGAATCACTGTTTATGTGTAT 57.758 29.630 6.11 0.00 37.15 2.29
764 799 9.507280 GGATTTGAATCACTGTTTATGTGTATG 57.493 33.333 6.11 0.00 37.15 2.39
769 804 8.652463 TGAATCACTGTTTATGTGTATGTAACG 58.348 33.333 0.00 0.00 36.83 3.18
770 805 8.766000 AATCACTGTTTATGTGTATGTAACGA 57.234 30.769 0.00 0.00 36.83 3.85
771 806 8.766000 ATCACTGTTTATGTGTATGTAACGAA 57.234 30.769 0.00 0.00 36.83 3.85
772 807 8.234887 TCACTGTTTATGTGTATGTAACGAAG 57.765 34.615 0.00 0.00 36.83 3.79
773 808 6.953743 CACTGTTTATGTGTATGTAACGAAGC 59.046 38.462 0.00 0.00 0.00 3.86
774 809 6.647481 ACTGTTTATGTGTATGTAACGAAGCA 59.353 34.615 0.00 0.00 0.00 3.91
775 810 7.171848 ACTGTTTATGTGTATGTAACGAAGCAA 59.828 33.333 0.00 0.00 0.00 3.91
776 811 7.862648 TGTTTATGTGTATGTAACGAAGCAAA 58.137 30.769 0.00 0.00 0.00 3.68
777 812 8.012809 TGTTTATGTGTATGTAACGAAGCAAAG 58.987 33.333 0.00 0.00 0.00 2.77
778 813 7.661127 TTATGTGTATGTAACGAAGCAAAGT 57.339 32.000 0.00 0.00 0.00 2.66
779 814 5.585500 TGTGTATGTAACGAAGCAAAGTC 57.415 39.130 0.00 0.00 0.00 3.01
780 815 5.051153 TGTGTATGTAACGAAGCAAAGTCA 58.949 37.500 0.00 0.00 0.00 3.41
781 816 5.176774 TGTGTATGTAACGAAGCAAAGTCAG 59.823 40.000 0.00 0.00 0.00 3.51
782 817 3.813529 ATGTAACGAAGCAAAGTCAGC 57.186 42.857 0.00 0.00 0.00 4.26
783 818 1.525197 TGTAACGAAGCAAAGTCAGCG 59.475 47.619 0.00 0.00 37.01 5.18
784 819 1.136336 GTAACGAAGCAAAGTCAGCGG 60.136 52.381 0.00 0.00 37.01 5.52
785 820 0.531974 AACGAAGCAAAGTCAGCGGA 60.532 50.000 0.00 0.00 37.01 5.54
786 821 1.222115 ACGAAGCAAAGTCAGCGGAC 61.222 55.000 9.15 9.15 44.66 4.79
794 829 4.796225 GTCAGCGGACTGTAGCTC 57.204 61.111 9.95 0.00 44.77 4.09
795 830 2.185238 GTCAGCGGACTGTAGCTCT 58.815 57.895 9.95 0.00 44.77 4.09
796 831 0.528470 GTCAGCGGACTGTAGCTCTT 59.472 55.000 9.95 0.00 44.77 2.85
797 832 1.067495 GTCAGCGGACTGTAGCTCTTT 60.067 52.381 9.95 0.00 44.77 2.52
798 833 1.618837 TCAGCGGACTGTAGCTCTTTT 59.381 47.619 7.20 0.00 44.77 2.27
799 834 2.037251 TCAGCGGACTGTAGCTCTTTTT 59.963 45.455 7.20 0.00 44.77 1.94
800 835 2.158449 CAGCGGACTGTAGCTCTTTTTG 59.842 50.000 7.20 0.00 42.52 2.44
801 836 1.135944 GCGGACTGTAGCTCTTTTTGC 60.136 52.381 0.00 0.00 0.00 3.68
802 837 1.464997 CGGACTGTAGCTCTTTTTGCC 59.535 52.381 0.00 0.00 0.00 4.52
803 838 2.504367 GGACTGTAGCTCTTTTTGCCA 58.496 47.619 0.00 0.00 0.00 4.92
804 839 2.485814 GGACTGTAGCTCTTTTTGCCAG 59.514 50.000 0.00 0.00 0.00 4.85
805 840 3.403038 GACTGTAGCTCTTTTTGCCAGA 58.597 45.455 0.00 0.00 0.00 3.86
806 841 3.406764 ACTGTAGCTCTTTTTGCCAGAG 58.593 45.455 0.00 0.00 40.84 3.35
807 842 2.746362 CTGTAGCTCTTTTTGCCAGAGG 59.254 50.000 0.00 0.00 38.64 3.69
808 843 2.371841 TGTAGCTCTTTTTGCCAGAGGA 59.628 45.455 0.00 0.00 38.64 3.71
809 844 2.895242 AGCTCTTTTTGCCAGAGGAT 57.105 45.000 0.00 0.00 38.64 3.24
810 845 3.166560 AGCTCTTTTTGCCAGAGGATT 57.833 42.857 0.00 0.00 38.64 3.01
811 846 3.504375 AGCTCTTTTTGCCAGAGGATTT 58.496 40.909 0.00 0.00 38.64 2.17
812 847 3.257624 AGCTCTTTTTGCCAGAGGATTTG 59.742 43.478 0.00 0.00 38.64 2.32
813 848 3.615834 GCTCTTTTTGCCAGAGGATTTGG 60.616 47.826 0.00 0.00 38.64 3.28
814 849 3.575687 CTCTTTTTGCCAGAGGATTTGGT 59.424 43.478 0.00 0.00 38.02 3.67
815 850 3.966665 TCTTTTTGCCAGAGGATTTGGTT 59.033 39.130 0.00 0.00 38.02 3.67
816 851 4.039124 TCTTTTTGCCAGAGGATTTGGTTC 59.961 41.667 0.00 0.00 38.02 3.62
817 852 1.923356 TTGCCAGAGGATTTGGTTCC 58.077 50.000 0.00 0.00 38.02 3.62
818 853 0.322456 TGCCAGAGGATTTGGTTCCG 60.322 55.000 0.00 0.00 40.94 4.30
819 854 0.322546 GCCAGAGGATTTGGTTCCGT 60.323 55.000 0.00 0.00 40.94 4.69
820 855 1.739067 CCAGAGGATTTGGTTCCGTC 58.261 55.000 0.00 0.00 40.94 4.79
878 913 1.066858 TCTTTCAGGAAGCGTGCTAGG 60.067 52.381 0.00 0.00 35.24 3.02
890 925 2.102553 GCTAGGACCACGAGCGAC 59.897 66.667 0.00 0.00 0.00 5.19
891 926 2.408241 GCTAGGACCACGAGCGACT 61.408 63.158 0.00 0.00 0.00 4.18
894 932 0.607217 TAGGACCACGAGCGACTTGA 60.607 55.000 0.00 0.00 0.00 3.02
928 967 1.152383 GGATAGAAGTCAACGCCGGC 61.152 60.000 19.07 19.07 0.00 6.13
1127 1166 3.020237 GCCTCCTCGTCTGGAACCC 62.020 68.421 0.00 0.00 35.43 4.11
1218 1257 0.179073 ATATGTGCGTGGAGGTGCTC 60.179 55.000 0.00 0.00 0.00 4.26
1358 1397 3.223435 TCTCTGAAAAGACGAGGTCAGT 58.777 45.455 0.00 0.00 38.87 3.41
1404 1451 3.557686 CCGCCATAGATGACATGATCCAA 60.558 47.826 0.00 0.00 0.00 3.53
1415 1462 5.948842 TGACATGATCCAAGATTCATCCAT 58.051 37.500 0.00 0.00 30.24 3.41
1430 1477 9.043548 AGATTCATCCATTTTTCCTCAGAATTT 57.956 29.630 0.00 0.00 0.00 1.82
1460 1507 7.603784 TCATTTCATTCTCTTTTCACTCGATCA 59.396 33.333 0.00 0.00 0.00 2.92
1462 1509 7.531280 TTCATTCTCTTTTCACTCGATCATC 57.469 36.000 0.00 0.00 0.00 2.92
1477 1524 4.517075 TCGATCATCTGTAGCAAGAGGTAG 59.483 45.833 0.00 0.00 30.13 3.18
1479 1526 5.470437 CGATCATCTGTAGCAAGAGGTAGTA 59.530 44.000 0.00 0.00 30.13 1.82
1484 1531 7.561722 TCATCTGTAGCAAGAGGTAGTATTCTT 59.438 37.037 0.00 0.00 34.09 2.52
1486 1533 8.135382 TCTGTAGCAAGAGGTAGTATTCTTTT 57.865 34.615 0.00 0.00 31.53 2.27
1578 1626 0.609131 CCCGTCCACCAAAGCAAGAT 60.609 55.000 0.00 0.00 0.00 2.40
1584 1632 4.082787 CGTCCACCAAAGCAAGATGTATTT 60.083 41.667 0.00 0.00 0.00 1.40
1587 1665 7.196331 GTCCACCAAAGCAAGATGTATTTATC 58.804 38.462 0.00 0.00 0.00 1.75
1606 1684 0.580104 CACGCGGAAGTTTCGTTTCT 59.420 50.000 12.47 0.00 33.84 2.52
1607 1685 1.788308 CACGCGGAAGTTTCGTTTCTA 59.212 47.619 12.47 0.00 33.84 2.10
1608 1686 2.219216 CACGCGGAAGTTTCGTTTCTAA 59.781 45.455 12.47 0.00 33.84 2.10
1609 1687 2.473984 ACGCGGAAGTTTCGTTTCTAAG 59.526 45.455 12.47 0.00 31.89 2.18
1669 1945 0.749454 GGCCATCTCTGCCGTTCATT 60.749 55.000 0.00 0.00 39.48 2.57
1690 1966 7.038659 TCATTTCACCATTTTGTTTTTCTCGT 58.961 30.769 0.00 0.00 0.00 4.18
1717 1993 6.780457 CCATTTTGGTATCTTGACTCCAAT 57.220 37.500 8.39 0.00 39.27 3.16
1719 1995 6.406177 CCATTTTGGTATCTTGACTCCAATGG 60.406 42.308 0.00 0.00 39.27 3.16
1722 1998 3.843619 TGGTATCTTGACTCCAATGGACA 59.156 43.478 0.00 0.00 0.00 4.02
1723 1999 4.080919 TGGTATCTTGACTCCAATGGACAG 60.081 45.833 0.00 0.00 0.00 3.51
1724 2000 4.080863 GGTATCTTGACTCCAATGGACAGT 60.081 45.833 0.00 0.00 0.00 3.55
1725 2001 3.407424 TCTTGACTCCAATGGACAGTG 57.593 47.619 0.00 0.00 0.00 3.66
1726 2002 2.705658 TCTTGACTCCAATGGACAGTGT 59.294 45.455 0.00 0.00 0.00 3.55
1727 2003 2.549064 TGACTCCAATGGACAGTGTG 57.451 50.000 0.00 0.00 0.00 3.82
1728 2004 1.160137 GACTCCAATGGACAGTGTGC 58.840 55.000 8.00 8.00 0.00 4.57
1729 2005 0.250901 ACTCCAATGGACAGTGTGCC 60.251 55.000 12.66 8.39 0.00 5.01
1730 2006 0.962356 CTCCAATGGACAGTGTGCCC 60.962 60.000 12.66 3.03 0.00 5.36
1731 2007 1.228521 CCAATGGACAGTGTGCCCA 60.229 57.895 12.66 9.23 0.00 5.36
1732 2008 0.612732 CCAATGGACAGTGTGCCCAT 60.613 55.000 12.66 11.23 42.08 4.00
1733 2009 0.528924 CAATGGACAGTGTGCCCATG 59.471 55.000 15.32 7.10 40.31 3.66
1734 2010 0.405198 AATGGACAGTGTGCCCATGA 59.595 50.000 15.32 0.00 40.31 3.07
1735 2011 0.405198 ATGGACAGTGTGCCCATGAA 59.595 50.000 14.16 0.00 39.08 2.57
1737 2013 0.813184 GGACAGTGTGCCCATGAATG 59.187 55.000 0.00 0.00 0.00 2.67
1739 2015 0.112995 ACAGTGTGCCCATGAATGGT 59.887 50.000 8.49 0.00 46.65 3.55
1741 2017 1.619827 CAGTGTGCCCATGAATGGTTT 59.380 47.619 8.49 0.00 46.65 3.27
1742 2018 1.619827 AGTGTGCCCATGAATGGTTTG 59.380 47.619 8.49 0.00 46.65 2.93
1743 2019 1.344114 GTGTGCCCATGAATGGTTTGT 59.656 47.619 8.49 0.00 46.65 2.83
1744 2020 1.343789 TGTGCCCATGAATGGTTTGTG 59.656 47.619 8.49 0.00 46.65 3.33
1745 2021 1.344114 GTGCCCATGAATGGTTTGTGT 59.656 47.619 8.49 0.00 46.65 3.72
1746 2022 2.045524 TGCCCATGAATGGTTTGTGTT 58.954 42.857 8.49 0.00 46.65 3.32
1814 2090 1.813178 GAGCTAACTTGGGCTTTCACC 59.187 52.381 0.00 0.00 39.05 4.02
1817 2093 0.475044 TAACTTGGGCTTTCACCGGT 59.525 50.000 0.00 0.00 0.00 5.28
1944 2220 4.677378 CAGGGGCTGGAGGGATAT 57.323 61.111 0.00 0.00 0.00 1.63
1959 2235 4.753186 AGGGATATTACCACTACCTCCTG 58.247 47.826 0.00 0.00 0.00 3.86
1974 2250 1.280133 CTCCTGGTTCTGCTGATTGGA 59.720 52.381 0.00 0.02 0.00 3.53
2145 3526 0.745845 ACGATGCTGGCAGGAACATC 60.746 55.000 14.16 16.75 36.42 3.06
2234 3615 1.798813 CTTCCTTGTGTTCGCCTACAC 59.201 52.381 8.62 8.62 46.71 2.90
2396 3777 1.658686 TTCCAACCAACGTGTGCCAC 61.659 55.000 0.00 0.00 0.00 5.01
2418 3799 6.090898 CCACGTGGTTTTATTTTTGTTGACAA 59.909 34.615 26.95 0.00 0.00 3.18
2459 3840 8.072567 CCTGCGATTTTATAAAGAAGAATGGAG 58.927 37.037 0.00 0.00 0.00 3.86
2462 3843 9.226345 GCGATTTTATAAAGAAGAATGGAGTTG 57.774 33.333 0.00 0.00 0.00 3.16
2491 3872 7.288672 CGATTTATATGGAAAACGAGGCTAAC 58.711 38.462 0.00 0.00 36.90 2.34
2494 3875 1.519408 TGGAAAACGAGGCTAACAGC 58.481 50.000 0.00 0.00 41.46 4.40
2518 3899 6.738453 GCATCTATAACCGGATTTGGCAAATT 60.738 38.462 25.02 13.03 0.00 1.82
2528 3909 2.559698 TTGGCAAATTCGACCTCTCA 57.440 45.000 0.00 0.00 0.00 3.27
2620 4002 9.616156 ATGCTGAATATATAGCTACGTACTACT 57.384 33.333 8.57 0.00 40.52 2.57
2776 4199 3.709633 AGGATGGCGTGCTGCTCA 61.710 61.111 0.00 0.00 45.43 4.26
2864 4291 1.267574 TTCATCGGCTCCTGCTCCTT 61.268 55.000 0.00 0.00 39.59 3.36
2877 4304 0.261696 GCTCCTTCTCCTCCTCCTCT 59.738 60.000 0.00 0.00 0.00 3.69
2923 4357 3.157949 CCTCTTCCTCCTCCGCCC 61.158 72.222 0.00 0.00 0.00 6.13
2931 4398 4.631740 TCCTCCGCCCACACCTCA 62.632 66.667 0.00 0.00 0.00 3.86
2938 4405 1.361668 CGCCCACACCTCATCGAAAG 61.362 60.000 0.00 0.00 0.00 2.62
2939 4406 0.321653 GCCCACACCTCATCGAAAGT 60.322 55.000 0.00 0.00 0.00 2.66
2987 4455 1.526315 TCCCTACAGATCCGGACCTA 58.474 55.000 6.12 0.00 0.00 3.08
3082 4550 2.370633 GGAGGGAGGGAAGAGGCT 59.629 66.667 0.00 0.00 0.00 4.58
3086 4554 0.399806 AGGGAGGGAAGAGGCTGATC 60.400 60.000 0.00 0.00 0.00 2.92
3317 4812 3.935456 TATGGGGGTGCCGGACAGT 62.935 63.158 5.05 0.00 0.00 3.55
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
151 153 1.527034 TTGCAGCACTCCTCATCAAC 58.473 50.000 0.00 0.00 0.00 3.18
661 696 2.695359 TGATAACAAAGTCACGGGAGC 58.305 47.619 0.00 0.00 0.00 4.70
662 697 3.551890 CGATGATAACAAAGTCACGGGAG 59.448 47.826 0.00 0.00 0.00 4.30
663 698 3.193903 TCGATGATAACAAAGTCACGGGA 59.806 43.478 0.00 0.00 0.00 5.14
664 699 3.517602 TCGATGATAACAAAGTCACGGG 58.482 45.455 0.00 0.00 0.00 5.28
665 700 4.490319 CGTTCGATGATAACAAAGTCACGG 60.490 45.833 0.00 0.00 0.00 4.94
666 701 4.490319 CCGTTCGATGATAACAAAGTCACG 60.490 45.833 0.00 0.00 0.00 4.35
667 702 4.387862 ACCGTTCGATGATAACAAAGTCAC 59.612 41.667 0.00 0.00 0.00 3.67
668 703 4.562082 ACCGTTCGATGATAACAAAGTCA 58.438 39.130 0.00 0.00 0.00 3.41
669 704 5.526010 AACCGTTCGATGATAACAAAGTC 57.474 39.130 0.00 0.00 0.00 3.01
670 705 5.349543 GGTAACCGTTCGATGATAACAAAGT 59.650 40.000 0.00 0.00 0.00 2.66
671 706 5.349270 TGGTAACCGTTCGATGATAACAAAG 59.651 40.000 0.00 0.00 0.00 2.77
672 707 5.120519 GTGGTAACCGTTCGATGATAACAAA 59.879 40.000 0.00 0.00 0.00 2.83
696 731 3.186047 GCCGTCCGATCAACACCG 61.186 66.667 0.00 0.00 0.00 4.94
701 736 1.338674 ACAAATCAGCCGTCCGATCAA 60.339 47.619 0.00 0.00 0.00 2.57
716 751 2.472695 TCTTGGCGACTGCTACAAAT 57.527 45.000 0.00 0.00 42.25 2.32
717 752 2.472695 ATCTTGGCGACTGCTACAAA 57.527 45.000 0.00 0.00 42.25 2.83
718 753 2.076100 CAATCTTGGCGACTGCTACAA 58.924 47.619 0.00 0.00 42.25 2.41
719 754 1.675714 CCAATCTTGGCGACTGCTACA 60.676 52.381 0.00 0.00 42.21 2.74
720 755 1.009829 CCAATCTTGGCGACTGCTAC 58.990 55.000 0.00 0.00 42.21 3.58
721 756 3.458872 CCAATCTTGGCGACTGCTA 57.541 52.632 0.00 0.00 42.21 3.49
722 757 4.308526 CCAATCTTGGCGACTGCT 57.691 55.556 0.00 0.00 42.21 4.24
731 766 9.865321 ATAAACAGTGATTCAAATCCAATCTTG 57.135 29.630 0.00 0.00 34.50 3.02
732 767 9.865321 CATAAACAGTGATTCAAATCCAATCTT 57.135 29.630 0.00 0.00 34.50 2.40
733 768 9.028284 ACATAAACAGTGATTCAAATCCAATCT 57.972 29.630 0.00 0.00 34.50 2.40
734 769 9.079833 CACATAAACAGTGATTCAAATCCAATC 57.920 33.333 0.00 0.00 39.30 2.67
735 770 8.587608 ACACATAAACAGTGATTCAAATCCAAT 58.412 29.630 0.00 0.00 40.16 3.16
736 771 7.950512 ACACATAAACAGTGATTCAAATCCAA 58.049 30.769 0.00 0.00 40.16 3.53
737 772 7.523293 ACACATAAACAGTGATTCAAATCCA 57.477 32.000 0.00 0.00 40.16 3.41
738 773 9.507280 CATACACATAAACAGTGATTCAAATCC 57.493 33.333 0.00 0.00 40.16 3.01
743 778 8.652463 CGTTACATACACATAAACAGTGATTCA 58.348 33.333 0.00 0.00 40.16 2.57
744 779 8.865978 TCGTTACATACACATAAACAGTGATTC 58.134 33.333 0.00 0.00 40.16 2.52
745 780 8.766000 TCGTTACATACACATAAACAGTGATT 57.234 30.769 0.00 0.00 40.16 2.57
746 781 8.766000 TTCGTTACATACACATAAACAGTGAT 57.234 30.769 0.00 0.00 40.16 3.06
747 782 7.148705 GCTTCGTTACATACACATAAACAGTGA 60.149 37.037 0.00 0.00 40.16 3.41
748 783 6.953743 GCTTCGTTACATACACATAAACAGTG 59.046 38.462 0.00 0.00 42.56 3.66
749 784 6.647481 TGCTTCGTTACATACACATAAACAGT 59.353 34.615 0.00 0.00 0.00 3.55
750 785 7.056002 TGCTTCGTTACATACACATAAACAG 57.944 36.000 0.00 0.00 0.00 3.16
751 786 7.422878 TTGCTTCGTTACATACACATAAACA 57.577 32.000 0.00 0.00 0.00 2.83
752 787 8.013378 ACTTTGCTTCGTTACATACACATAAAC 58.987 33.333 0.00 0.00 0.00 2.01
753 788 8.090250 ACTTTGCTTCGTTACATACACATAAA 57.910 30.769 0.00 0.00 0.00 1.40
754 789 7.385478 TGACTTTGCTTCGTTACATACACATAA 59.615 33.333 0.00 0.00 0.00 1.90
755 790 6.869388 TGACTTTGCTTCGTTACATACACATA 59.131 34.615 0.00 0.00 0.00 2.29
756 791 5.699001 TGACTTTGCTTCGTTACATACACAT 59.301 36.000 0.00 0.00 0.00 3.21
757 792 5.051153 TGACTTTGCTTCGTTACATACACA 58.949 37.500 0.00 0.00 0.00 3.72
758 793 5.585500 TGACTTTGCTTCGTTACATACAC 57.415 39.130 0.00 0.00 0.00 2.90
759 794 4.151689 GCTGACTTTGCTTCGTTACATACA 59.848 41.667 0.00 0.00 0.00 2.29
760 795 4.638963 GCTGACTTTGCTTCGTTACATAC 58.361 43.478 0.00 0.00 0.00 2.39
761 796 3.366724 CGCTGACTTTGCTTCGTTACATA 59.633 43.478 0.00 0.00 0.00 2.29
762 797 2.157668 CGCTGACTTTGCTTCGTTACAT 59.842 45.455 0.00 0.00 0.00 2.29
763 798 1.525197 CGCTGACTTTGCTTCGTTACA 59.475 47.619 0.00 0.00 0.00 2.41
764 799 1.136336 CCGCTGACTTTGCTTCGTTAC 60.136 52.381 0.00 0.00 0.00 2.50
765 800 1.144969 CCGCTGACTTTGCTTCGTTA 58.855 50.000 0.00 0.00 0.00 3.18
766 801 0.531974 TCCGCTGACTTTGCTTCGTT 60.532 50.000 0.00 0.00 0.00 3.85
767 802 1.069090 TCCGCTGACTTTGCTTCGT 59.931 52.632 0.00 0.00 0.00 3.85
768 803 1.493311 GTCCGCTGACTTTGCTTCG 59.507 57.895 0.37 0.00 38.53 3.79
777 812 0.528470 AAGAGCTACAGTCCGCTGAC 59.472 55.000 0.00 0.00 45.28 3.51
778 813 1.257743 AAAGAGCTACAGTCCGCTGA 58.742 50.000 2.17 0.00 45.28 4.26
780 815 2.417719 CAAAAAGAGCTACAGTCCGCT 58.582 47.619 0.00 0.00 39.61 5.52
781 816 1.135944 GCAAAAAGAGCTACAGTCCGC 60.136 52.381 0.00 0.00 0.00 5.54
782 817 1.464997 GGCAAAAAGAGCTACAGTCCG 59.535 52.381 0.00 0.00 0.00 4.79
783 818 2.485814 CTGGCAAAAAGAGCTACAGTCC 59.514 50.000 0.00 0.00 0.00 3.85
784 819 3.403038 TCTGGCAAAAAGAGCTACAGTC 58.597 45.455 0.00 0.00 0.00 3.51
785 820 3.406764 CTCTGGCAAAAAGAGCTACAGT 58.593 45.455 0.00 0.00 35.13 3.55
786 821 2.746362 CCTCTGGCAAAAAGAGCTACAG 59.254 50.000 0.00 0.00 39.94 2.74
787 822 2.371841 TCCTCTGGCAAAAAGAGCTACA 59.628 45.455 0.00 0.00 39.94 2.74
788 823 3.059352 TCCTCTGGCAAAAAGAGCTAC 57.941 47.619 0.00 0.00 39.94 3.58
789 824 4.307032 AATCCTCTGGCAAAAAGAGCTA 57.693 40.909 0.00 0.00 39.94 3.32
790 825 2.895242 ATCCTCTGGCAAAAAGAGCT 57.105 45.000 0.00 0.00 39.94 4.09
791 826 3.582780 CAAATCCTCTGGCAAAAAGAGC 58.417 45.455 0.00 0.00 39.94 4.09
792 827 3.575687 ACCAAATCCTCTGGCAAAAAGAG 59.424 43.478 0.00 0.00 40.79 2.85
793 828 3.575805 ACCAAATCCTCTGGCAAAAAGA 58.424 40.909 0.00 0.00 37.48 2.52
794 829 4.309933 GAACCAAATCCTCTGGCAAAAAG 58.690 43.478 0.00 0.00 37.48 2.27
795 830 3.070878 GGAACCAAATCCTCTGGCAAAAA 59.929 43.478 0.00 0.00 37.48 1.94
796 831 2.632512 GGAACCAAATCCTCTGGCAAAA 59.367 45.455 0.00 0.00 37.48 2.44
797 832 2.247358 GGAACCAAATCCTCTGGCAAA 58.753 47.619 0.00 0.00 37.48 3.68
798 833 1.886222 CGGAACCAAATCCTCTGGCAA 60.886 52.381 0.00 0.00 37.48 4.52
799 834 0.322456 CGGAACCAAATCCTCTGGCA 60.322 55.000 0.00 0.00 37.48 4.92
800 835 0.322546 ACGGAACCAAATCCTCTGGC 60.323 55.000 0.00 0.00 37.48 4.85
801 836 1.739067 GACGGAACCAAATCCTCTGG 58.261 55.000 0.00 0.00 37.34 3.86
802 837 1.359848 CGACGGAACCAAATCCTCTG 58.640 55.000 0.00 0.00 37.34 3.35
803 838 0.391263 GCGACGGAACCAAATCCTCT 60.391 55.000 0.00 0.00 37.34 3.69
804 839 1.366854 GGCGACGGAACCAAATCCTC 61.367 60.000 0.00 0.00 37.34 3.71
805 840 1.376812 GGCGACGGAACCAAATCCT 60.377 57.895 0.00 0.00 37.34 3.24
806 841 1.644786 CTGGCGACGGAACCAAATCC 61.645 60.000 0.00 0.00 39.98 3.01
807 842 1.794222 CTGGCGACGGAACCAAATC 59.206 57.895 0.00 0.00 39.98 2.17
808 843 2.332654 GCTGGCGACGGAACCAAAT 61.333 57.895 0.00 0.00 39.98 2.32
809 844 2.975799 GCTGGCGACGGAACCAAA 60.976 61.111 0.00 0.00 39.98 3.28
839 874 1.613317 AACGGATCAGCGACCATCCA 61.613 55.000 0.00 0.00 38.92 3.41
840 875 0.876342 GAACGGATCAGCGACCATCC 60.876 60.000 0.00 0.00 36.01 3.51
878 913 2.089349 GCTCAAGTCGCTCGTGGTC 61.089 63.158 0.00 0.00 0.00 4.02
890 925 2.464459 CGGCGCCCTTTAGCTCAAG 61.464 63.158 23.46 0.33 0.00 3.02
891 926 2.435938 CGGCGCCCTTTAGCTCAA 60.436 61.111 23.46 0.00 0.00 3.02
1218 1257 7.812191 GCAAATATGTGGAGATGAGTAGAGTAG 59.188 40.741 0.00 0.00 0.00 2.57
1267 1306 1.105167 TCGAGGTCGTTGAGGTGTGT 61.105 55.000 0.00 0.00 40.80 3.72
1358 1397 7.577616 CGGTATAGTGCAAAGAGATGATGGATA 60.578 40.741 0.00 0.00 0.00 2.59
1404 1451 8.605325 AATTCTGAGGAAAAATGGATGAATCT 57.395 30.769 0.00 0.00 34.90 2.40
1456 1503 5.782893 ACTACCTCTTGCTACAGATGATC 57.217 43.478 0.00 0.00 0.00 2.92
1460 1507 7.906199 AAGAATACTACCTCTTGCTACAGAT 57.094 36.000 0.00 0.00 30.67 2.90
1462 1509 8.779354 AAAAAGAATACTACCTCTTGCTACAG 57.221 34.615 0.00 0.00 32.23 2.74
1525 1572 6.156775 CCCAATCACCCTCCTTTTATGAAAAT 59.843 38.462 0.00 0.00 0.00 1.82
1526 1573 5.483583 CCCAATCACCCTCCTTTTATGAAAA 59.516 40.000 0.00 0.00 0.00 2.29
1527 1574 5.022787 CCCAATCACCCTCCTTTTATGAAA 58.977 41.667 0.00 0.00 0.00 2.69
1528 1575 4.045334 ACCCAATCACCCTCCTTTTATGAA 59.955 41.667 0.00 0.00 0.00 2.57
1529 1576 3.596046 ACCCAATCACCCTCCTTTTATGA 59.404 43.478 0.00 0.00 0.00 2.15
1578 1626 4.031991 CGAAACTTCCGCGTGATAAATACA 59.968 41.667 4.92 0.00 0.00 2.29
1584 1632 2.068837 AACGAAACTTCCGCGTGATA 57.931 45.000 4.92 0.00 38.39 2.15
1587 1665 0.580104 AGAAACGAAACTTCCGCGTG 59.420 50.000 4.92 0.00 38.39 5.34
1607 1685 9.804758 CACTCCGAAGAAATTAGAAGTATACTT 57.195 33.333 18.05 18.05 39.23 2.24
1608 1686 8.414778 CCACTCCGAAGAAATTAGAAGTATACT 58.585 37.037 0.00 0.00 0.00 2.12
1609 1687 7.652507 CCCACTCCGAAGAAATTAGAAGTATAC 59.347 40.741 0.00 0.00 0.00 1.47
1627 1705 3.164269 CCCCCATCTCCCACTCCG 61.164 72.222 0.00 0.00 0.00 4.63
1663 1741 7.845622 CGAGAAAAACAAAATGGTGAAATGAAC 59.154 33.333 0.00 0.00 0.00 3.18
1669 1945 7.275999 GGTTTACGAGAAAAACAAAATGGTGAA 59.724 33.333 0.00 0.00 38.34 3.18
1703 1979 4.532126 ACACTGTCCATTGGAGTCAAGATA 59.468 41.667 5.39 0.00 36.19 1.98
1706 1982 2.810274 CACACTGTCCATTGGAGTCAAG 59.190 50.000 5.39 4.54 36.19 3.02
1713 1989 3.685435 GGGCACACTGTCCATTGG 58.315 61.111 0.00 0.00 42.98 3.16
1719 1995 0.813184 CCATTCATGGGCACACTGTC 59.187 55.000 0.00 0.00 44.31 3.51
1730 2006 5.612925 CGCATTTGAACACAAACCATTCATG 60.613 40.000 0.00 0.00 36.54 3.07
1731 2007 4.448395 CGCATTTGAACACAAACCATTCAT 59.552 37.500 0.00 0.00 36.54 2.57
1732 2008 3.801050 CGCATTTGAACACAAACCATTCA 59.199 39.130 0.00 0.00 36.54 2.57
1733 2009 4.047822 TCGCATTTGAACACAAACCATTC 58.952 39.130 0.00 0.00 36.54 2.67
1734 2010 4.052159 TCGCATTTGAACACAAACCATT 57.948 36.364 0.00 0.00 36.54 3.16
1735 2011 3.724508 TCGCATTTGAACACAAACCAT 57.275 38.095 0.00 0.00 36.54 3.55
1737 2013 4.047822 TCATTCGCATTTGAACACAAACC 58.952 39.130 0.00 0.00 36.54 3.27
1738 2014 5.633996 TTCATTCGCATTTGAACACAAAC 57.366 34.783 0.00 0.00 36.54 2.93
1739 2015 6.841443 ATTTCATTCGCATTTGAACACAAA 57.159 29.167 0.00 0.00 37.80 2.83
1741 2017 5.333187 GCAATTTCATTCGCATTTGAACACA 60.333 36.000 0.00 0.00 31.87 3.72
1742 2018 5.074791 GCAATTTCATTCGCATTTGAACAC 58.925 37.500 0.00 0.00 31.87 3.32
1743 2019 4.748600 TGCAATTTCATTCGCATTTGAACA 59.251 33.333 0.00 0.00 31.87 3.18
1744 2020 5.107375 ACTGCAATTTCATTCGCATTTGAAC 60.107 36.000 0.00 0.00 31.87 3.18
1745 2021 4.989797 ACTGCAATTTCATTCGCATTTGAA 59.010 33.333 0.00 0.00 33.15 2.69
1746 2022 4.558178 ACTGCAATTTCATTCGCATTTGA 58.442 34.783 0.00 0.00 33.15 2.69
1817 2093 2.641277 TACCTGCGTGCGGTGATCA 61.641 57.895 15.35 0.00 35.98 2.92
1959 2235 2.354259 CAGAGTCCAATCAGCAGAACC 58.646 52.381 0.00 0.00 0.00 3.62
1974 2250 4.057428 GTGGAGGCGACGCAGAGT 62.057 66.667 23.09 2.22 0.00 3.24
2015 2291 2.125350 GGTCAGCAGGGAAGCTCG 60.125 66.667 0.00 0.00 44.54 5.03
2027 2303 1.016130 CACGCCACTAGCAAGGTCAG 61.016 60.000 0.00 0.00 44.04 3.51
2028 2304 1.005037 CACGCCACTAGCAAGGTCA 60.005 57.895 0.00 0.00 44.04 4.02
2418 3799 0.038310 GCAGGAGCACCCTACCTTTT 59.962 55.000 0.00 0.00 45.60 2.27
2459 3840 7.857569 TCGTTTTCCATATAAATCGGATCAAC 58.142 34.615 0.00 0.00 34.12 3.18
2462 3843 6.402226 GCCTCGTTTTCCATATAAATCGGATC 60.402 42.308 0.00 0.00 34.12 3.36
2467 3848 8.149973 TGTTAGCCTCGTTTTCCATATAAATC 57.850 34.615 0.00 0.00 0.00 2.17
2468 3849 7.255139 GCTGTTAGCCTCGTTTTCCATATAAAT 60.255 37.037 0.00 0.00 34.48 1.40
2491 3872 3.189287 GCCAAATCCGGTTATAGATGCTG 59.811 47.826 0.00 0.00 0.00 4.41
2494 3875 5.766150 TTTGCCAAATCCGGTTATAGATG 57.234 39.130 0.00 0.00 0.00 2.90
2503 3884 1.469079 GGTCGAATTTGCCAAATCCGG 60.469 52.381 8.94 0.00 0.00 5.14
2518 3899 1.822506 ATGAGACGTTGAGAGGTCGA 58.177 50.000 0.00 0.00 43.58 4.20
2528 3909 5.046591 TGTGGAGAAGGAAATATGAGACGTT 60.047 40.000 0.00 0.00 0.00 3.99
2620 4002 9.630098 AACGACGAAATTTGAGTAGTATAGAAA 57.370 29.630 0.00 0.00 0.00 2.52
2846 4270 1.680522 GAAGGAGCAGGAGCCGATGA 61.681 60.000 0.00 0.00 43.56 2.92
2848 4272 1.382420 AGAAGGAGCAGGAGCCGAT 60.382 57.895 0.00 0.00 43.56 4.18
2864 4291 0.930726 GGAGGAAGAGGAGGAGGAGA 59.069 60.000 0.00 0.00 0.00 3.71
2923 4357 2.232452 AGGAGACTTTCGATGAGGTGTG 59.768 50.000 0.00 0.00 37.44 3.82
2931 4398 2.498078 GGAACCAGAGGAGACTTTCGAT 59.502 50.000 0.00 0.00 44.43 3.59
2987 4455 1.203075 ACCGTCTCTTCCTCCTTGAGT 60.203 52.381 0.00 0.00 0.00 3.41
3082 4550 1.767672 CCCCCAGCCTAGCAGATCA 60.768 63.158 0.00 0.00 0.00 2.92
3317 4812 4.011517 GGCCCTCAAACGTCCGGA 62.012 66.667 0.00 0.00 0.00 5.14


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

AutoCloner maintained by Alex Coulton.