Multiple sequence alignment - TraesCS6B01G459400

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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 TraesCS6B01G459400 chr6B 100.000 3256 0 0 1 3256 713828906 713832161 0.000000e+00 6013
1 TraesCS6B01G459400 chr6B 92.124 1384 79 10 986 2355 713956684 713958051 0.000000e+00 1925
2 TraesCS6B01G459400 chr6B 90.314 1146 92 11 985 2128 713381295 713382423 0.000000e+00 1483
3 TraesCS6B01G459400 chr6B 96.326 871 18 1 2400 3256 713924487 713925357 0.000000e+00 1419
4 TraesCS6B01G459400 chr6B 92.984 898 29 8 1448 2338 713923368 713924238 0.000000e+00 1279
5 TraesCS6B01G459400 chr6B 92.669 873 50 5 2398 3256 713958352 713959224 0.000000e+00 1245
6 TraesCS6B01G459400 chr6B 80.525 1258 196 25 985 2224 713483347 713484573 0.000000e+00 920
7 TraesCS6B01G459400 chr6B 79.532 1153 160 47 986 2131 713838861 713839944 0.000000e+00 752
8 TraesCS6B01G459400 chr6B 79.227 1165 164 50 985 2131 713158899 713160003 0.000000e+00 739
9 TraesCS6B01G459400 chr6B 76.093 1167 233 34 985 2127 713506745 713507889 4.710000e-158 568
10 TraesCS6B01G459400 chr6B 75.536 1165 227 38 999 2127 713965080 713966222 1.340000e-143 520
11 TraesCS6B01G459400 chr6B 85.192 520 44 14 1 505 713361402 713361903 1.350000e-138 503
12 TraesCS6B01G459400 chr6B 87.121 396 35 5 224 611 713921420 713921807 4.990000e-118 435
13 TraesCS6B01G459400 chr6B 96.277 188 7 0 725 912 19921075 19921262 3.160000e-80 309
14 TraesCS6B01G459400 chr6B 83.965 343 32 13 1 335 713837279 713837606 1.130000e-79 307
15 TraesCS6B01G459400 chr6B 96.739 184 5 1 724 907 213152371 213152553 4.080000e-79 305
16 TraesCS6B01G459400 chr6B 93.600 125 8 0 1 125 713954798 713954922 1.540000e-43 187
17 TraesCS6B01G459400 chr6B 82.883 222 19 9 255 470 713954923 713955131 7.180000e-42 182
18 TraesCS6B01G459400 chr6A 79.793 1158 178 32 987 2130 613956567 613957682 0.000000e+00 791
19 TraesCS6B01G459400 chr6D 78.966 1160 174 38 985 2131 467839333 467840435 0.000000e+00 726
20 TraesCS6B01G459400 chr6D 77.128 1163 222 31 987 2127 467907846 467908986 4.580000e-178 634
21 TraesCS6B01G459400 chr3B 94.416 197 8 3 725 919 15973981 15974176 1.900000e-77 300
22 TraesCS6B01G459400 chr3B 94.301 193 10 1 725 917 758070260 758070451 8.830000e-76 294
23 TraesCS6B01G459400 chr7B 93.532 201 10 3 732 930 668908777 668908578 2.460000e-76 296
24 TraesCS6B01G459400 chr5B 95.161 186 9 0 728 913 6499069 6499254 8.830000e-76 294
25 TraesCS6B01G459400 chr5B 91.509 212 12 6 728 934 501434692 501434902 1.480000e-73 287
26 TraesCS6B01G459400 chr4B 94.271 192 11 0 728 919 591315473 591315282 8.830000e-76 294
27 TraesCS6B01G459400 chr1D 93.467 199 10 3 714 912 299766230 299766035 3.180000e-75 292


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 TraesCS6B01G459400 chr6B 713828906 713832161 3255 False 6013.000000 6013 100.000000 1 3256 1 chr6B.!!$F8 3255
1 TraesCS6B01G459400 chr6B 713381295 713382423 1128 False 1483.000000 1483 90.314000 985 2128 1 chr6B.!!$F5 1143
2 TraesCS6B01G459400 chr6B 713921420 713925357 3937 False 1044.333333 1419 92.143667 224 3256 3 chr6B.!!$F11 3032
3 TraesCS6B01G459400 chr6B 713483347 713484573 1226 False 920.000000 920 80.525000 985 2224 1 chr6B.!!$F6 1239
4 TraesCS6B01G459400 chr6B 713954798 713959224 4426 False 884.750000 1925 90.319000 1 3256 4 chr6B.!!$F12 3255
5 TraesCS6B01G459400 chr6B 713158899 713160003 1104 False 739.000000 739 79.227000 985 2131 1 chr6B.!!$F3 1146
6 TraesCS6B01G459400 chr6B 713506745 713507889 1144 False 568.000000 568 76.093000 985 2127 1 chr6B.!!$F7 1142
7 TraesCS6B01G459400 chr6B 713837279 713839944 2665 False 529.500000 752 81.748500 1 2131 2 chr6B.!!$F10 2130
8 TraesCS6B01G459400 chr6B 713965080 713966222 1142 False 520.000000 520 75.536000 999 2127 1 chr6B.!!$F9 1128
9 TraesCS6B01G459400 chr6B 713361402 713361903 501 False 503.000000 503 85.192000 1 505 1 chr6B.!!$F4 504
10 TraesCS6B01G459400 chr6A 613956567 613957682 1115 False 791.000000 791 79.793000 987 2130 1 chr6A.!!$F1 1143
11 TraesCS6B01G459400 chr6D 467839333 467840435 1102 False 726.000000 726 78.966000 985 2131 1 chr6D.!!$F1 1146
12 TraesCS6B01G459400 chr6D 467907846 467908986 1140 False 634.000000 634 77.128000 987 2127 1 chr6D.!!$F2 1140

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
935 2928 0.107263 TGTGCAGCAAAGGTGAGTGA 60.107 50.0 0.0 0.0 32.22 3.41 F
964 2957 0.107831 TAAGGGCAGCAACGTCTTGT 59.892 50.0 0.0 0.0 0.00 3.16 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1737 4644 0.034896 CACCCTAAGCCACGACTGTT 59.965 55.0 0.0 0.0 0.00 3.16 R
2385 5315 0.752658 TATGGTGAGGGATGACGCTG 59.247 55.0 0.0 0.0 39.38 5.18 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
17 18 4.177673 TTGCTGAATGGTGCTGCA 57.822 50.000 0.00 0.00 38.23 4.41
33 34 2.339556 GCAGGGTACGCCAAATGCA 61.340 57.895 14.49 0.00 41.33 3.96
35 36 1.074072 AGGGTACGCCAAATGCACA 59.926 52.632 6.27 0.00 41.33 4.57
139 147 5.036737 CACTAAATTTCAATCCGTGATGCC 58.963 41.667 0.00 0.00 35.70 4.40
148 156 3.055719 CGTGATGCCGGCTTGGTT 61.056 61.111 29.70 7.07 41.21 3.67
149 157 2.877691 GTGATGCCGGCTTGGTTC 59.122 61.111 29.70 16.16 41.21 3.62
150 158 1.971167 GTGATGCCGGCTTGGTTCA 60.971 57.895 29.70 18.48 41.21 3.18
151 159 1.675310 TGATGCCGGCTTGGTTCAG 60.675 57.895 29.70 0.00 41.21 3.02
152 160 2.361610 ATGCCGGCTTGGTTCAGG 60.362 61.111 29.70 0.00 41.21 3.86
153 161 3.944250 ATGCCGGCTTGGTTCAGGG 62.944 63.158 29.70 0.00 41.21 4.45
188 199 4.640789 TTGTTTGTACATGTGGTTGGTC 57.359 40.909 9.11 0.00 33.44 4.02
190 201 3.378742 TGTTTGTACATGTGGTTGGTCAC 59.621 43.478 9.11 0.00 38.09 3.67
454 1203 5.938279 ACATGCATCTCAAATCTACCTCAT 58.062 37.500 0.00 0.00 0.00 2.90
521 1274 8.894768 AGGAGTTAAATTCTATGTCAGCATAC 57.105 34.615 0.00 0.00 36.58 2.39
531 1310 7.929941 TCTATGTCAGCATACAGGAGTATAG 57.070 40.000 0.00 0.00 38.88 1.31
557 1338 1.606189 TCAGTATCGCAGCTAGCAGAG 59.394 52.381 18.83 11.36 46.13 3.35
581 1362 4.270084 CGCGATGACTTTCAAAGCCTTATA 59.730 41.667 0.00 0.00 31.98 0.98
611 1392 8.871629 TTCACTAAATTTTAAGCCATGGAGTA 57.128 30.769 18.40 2.94 0.00 2.59
612 1393 8.276252 TCACTAAATTTTAAGCCATGGAGTAC 57.724 34.615 18.40 0.00 0.00 2.73
613 1394 7.885922 TCACTAAATTTTAAGCCATGGAGTACA 59.114 33.333 18.40 0.00 0.00 2.90
614 1395 8.184192 CACTAAATTTTAAGCCATGGAGTACAG 58.816 37.037 18.40 0.97 0.00 2.74
615 1396 5.582689 AATTTTAAGCCATGGAGTACAGC 57.417 39.130 18.40 0.00 0.00 4.40
616 1397 3.712016 TTTAAGCCATGGAGTACAGCA 57.288 42.857 18.40 0.00 0.00 4.41
675 2623 1.756538 TGAGGCATCGCTGTCTATTCA 59.243 47.619 0.00 0.00 37.49 2.57
681 2629 4.084328 GGCATCGCTGTCTATTCATGTAAC 60.084 45.833 0.00 0.00 0.00 2.50
685 2633 3.731216 CGCTGTCTATTCATGTAACGAGG 59.269 47.826 0.00 0.00 0.00 4.63
707 2700 2.146342 CCGGCCTGATGCATAGTTAAG 58.854 52.381 0.00 0.00 43.89 1.85
714 2707 6.486657 GGCCTGATGCATAGTTAAGTAATGAA 59.513 38.462 0.00 0.00 43.89 2.57
715 2708 7.308229 GGCCTGATGCATAGTTAAGTAATGAAG 60.308 40.741 0.00 0.00 43.89 3.02
716 2709 7.227512 GCCTGATGCATAGTTAAGTAATGAAGT 59.772 37.037 0.00 0.00 40.77 3.01
718 2711 9.539825 CTGATGCATAGTTAAGTAATGAAGTCT 57.460 33.333 0.00 0.00 0.00 3.24
719 2712 9.317936 TGATGCATAGTTAAGTAATGAAGTCTG 57.682 33.333 0.00 0.00 0.00 3.51
720 2713 7.539712 TGCATAGTTAAGTAATGAAGTCTGC 57.460 36.000 0.00 0.00 31.92 4.26
721 2714 7.331026 TGCATAGTTAAGTAATGAAGTCTGCT 58.669 34.615 6.92 0.00 32.31 4.24
722 2715 8.474831 TGCATAGTTAAGTAATGAAGTCTGCTA 58.525 33.333 6.92 0.00 32.31 3.49
723 2716 9.482627 GCATAGTTAAGTAATGAAGTCTGCTAT 57.517 33.333 0.00 0.00 29.86 2.97
737 2730 9.555727 TGAAGTCTGCTATTAAAAACTAACAGT 57.444 29.630 0.00 0.00 0.00 3.55
783 2776 8.908786 TGAGATATAATTTGGTCTCATTCACC 57.091 34.615 10.50 0.00 41.40 4.02
784 2777 8.717717 TGAGATATAATTTGGTCTCATTCACCT 58.282 33.333 10.50 0.00 41.40 4.00
785 2778 9.566432 GAGATATAATTTGGTCTCATTCACCTT 57.434 33.333 8.11 0.00 37.60 3.50
786 2779 9.927081 AGATATAATTTGGTCTCATTCACCTTT 57.073 29.630 0.00 0.00 34.66 3.11
792 2785 7.391148 TTTGGTCTCATTCACCTTTTATAGC 57.609 36.000 0.00 0.00 34.66 2.97
793 2786 5.437060 TGGTCTCATTCACCTTTTATAGCC 58.563 41.667 0.00 0.00 34.66 3.93
794 2787 5.045213 TGGTCTCATTCACCTTTTATAGCCA 60.045 40.000 0.00 0.00 34.66 4.75
795 2788 6.064717 GGTCTCATTCACCTTTTATAGCCAT 58.935 40.000 0.00 0.00 0.00 4.40
796 2789 6.547510 GGTCTCATTCACCTTTTATAGCCATT 59.452 38.462 0.00 0.00 0.00 3.16
797 2790 7.420800 GTCTCATTCACCTTTTATAGCCATTG 58.579 38.462 0.00 0.00 0.00 2.82
798 2791 7.283127 GTCTCATTCACCTTTTATAGCCATTGA 59.717 37.037 0.00 0.00 0.00 2.57
799 2792 7.833682 TCTCATTCACCTTTTATAGCCATTGAA 59.166 33.333 0.00 0.00 0.00 2.69
800 2793 8.537728 TCATTCACCTTTTATAGCCATTGAAT 57.462 30.769 0.00 0.00 33.72 2.57
801 2794 8.415553 TCATTCACCTTTTATAGCCATTGAATG 58.584 33.333 12.61 12.61 45.38 2.67
802 2795 7.716799 TTCACCTTTTATAGCCATTGAATGT 57.283 32.000 4.27 0.00 0.00 2.71
803 2796 7.099266 TCACCTTTTATAGCCATTGAATGTG 57.901 36.000 4.27 0.00 0.00 3.21
804 2797 6.889177 TCACCTTTTATAGCCATTGAATGTGA 59.111 34.615 4.27 0.00 0.00 3.58
805 2798 7.560991 TCACCTTTTATAGCCATTGAATGTGAT 59.439 33.333 4.27 0.00 0.00 3.06
806 2799 7.650504 CACCTTTTATAGCCATTGAATGTGATG 59.349 37.037 4.27 0.00 0.00 3.07
807 2800 6.643770 CCTTTTATAGCCATTGAATGTGATGC 59.356 38.462 4.27 0.37 0.00 3.91
808 2801 6.964807 TTTATAGCCATTGAATGTGATGCT 57.035 33.333 10.61 10.61 0.00 3.79
809 2802 8.462589 TTTTATAGCCATTGAATGTGATGCTA 57.537 30.769 13.54 13.54 0.00 3.49
810 2803 8.640063 TTTATAGCCATTGAATGTGATGCTAT 57.360 30.769 21.62 21.62 32.56 2.97
811 2804 9.737844 TTTATAGCCATTGAATGTGATGCTATA 57.262 29.630 20.23 20.23 31.46 1.31
812 2805 9.737844 TTATAGCCATTGAATGTGATGCTATAA 57.262 29.630 25.56 25.56 35.49 0.98
813 2806 6.570672 AGCCATTGAATGTGATGCTATAAG 57.429 37.500 4.27 0.00 0.00 1.73
814 2807 6.301486 AGCCATTGAATGTGATGCTATAAGA 58.699 36.000 4.27 0.00 0.00 2.10
815 2808 6.946583 AGCCATTGAATGTGATGCTATAAGAT 59.053 34.615 4.27 0.00 0.00 2.40
816 2809 7.027760 GCCATTGAATGTGATGCTATAAGATG 58.972 38.462 4.27 0.00 0.00 2.90
817 2810 7.027760 CCATTGAATGTGATGCTATAAGATGC 58.972 38.462 4.27 0.00 0.00 3.91
818 2811 5.851047 TGAATGTGATGCTATAAGATGCG 57.149 39.130 0.00 0.00 0.00 4.73
819 2812 5.299949 TGAATGTGATGCTATAAGATGCGT 58.700 37.500 0.00 0.00 0.00 5.24
820 2813 5.178067 TGAATGTGATGCTATAAGATGCGTG 59.822 40.000 0.00 0.00 0.00 5.34
821 2814 4.058721 TGTGATGCTATAAGATGCGTGT 57.941 40.909 0.00 0.00 0.00 4.49
822 2815 3.803778 TGTGATGCTATAAGATGCGTGTG 59.196 43.478 0.00 0.00 0.00 3.82
823 2816 3.804325 GTGATGCTATAAGATGCGTGTGT 59.196 43.478 0.00 0.00 0.00 3.72
824 2817 3.803778 TGATGCTATAAGATGCGTGTGTG 59.196 43.478 0.00 0.00 0.00 3.82
825 2818 1.933181 TGCTATAAGATGCGTGTGTGC 59.067 47.619 0.00 0.00 0.00 4.57
826 2819 2.205074 GCTATAAGATGCGTGTGTGCT 58.795 47.619 0.00 0.00 35.36 4.40
827 2820 2.033407 GCTATAAGATGCGTGTGTGCTG 60.033 50.000 0.00 0.00 35.36 4.41
828 2821 2.385013 ATAAGATGCGTGTGTGCTGA 57.615 45.000 0.00 0.00 35.36 4.26
829 2822 1.428448 TAAGATGCGTGTGTGCTGAC 58.572 50.000 0.00 0.00 35.36 3.51
830 2823 1.560004 AAGATGCGTGTGTGCTGACG 61.560 55.000 0.00 0.00 38.63 4.35
831 2824 2.280119 ATGCGTGTGTGCTGACGT 60.280 55.556 0.00 0.00 37.89 4.34
832 2825 2.484631 GATGCGTGTGTGCTGACGTG 62.485 60.000 0.00 0.00 37.89 4.49
833 2826 4.000557 GCGTGTGTGCTGACGTGG 62.001 66.667 0.00 0.00 37.89 4.94
834 2827 3.337889 CGTGTGTGCTGACGTGGG 61.338 66.667 0.00 0.00 0.00 4.61
835 2828 2.203015 GTGTGTGCTGACGTGGGT 60.203 61.111 0.00 0.00 0.00 4.51
836 2829 1.817941 GTGTGTGCTGACGTGGGTT 60.818 57.895 0.00 0.00 0.00 4.11
837 2830 1.817520 TGTGTGCTGACGTGGGTTG 60.818 57.895 0.00 0.00 0.00 3.77
838 2831 1.817941 GTGTGCTGACGTGGGTTGT 60.818 57.895 0.00 0.00 0.00 3.32
839 2832 0.531090 GTGTGCTGACGTGGGTTGTA 60.531 55.000 0.00 0.00 0.00 2.41
840 2833 0.394938 TGTGCTGACGTGGGTTGTAT 59.605 50.000 0.00 0.00 0.00 2.29
841 2834 1.076332 GTGCTGACGTGGGTTGTATC 58.924 55.000 0.00 0.00 0.00 2.24
842 2835 0.973632 TGCTGACGTGGGTTGTATCT 59.026 50.000 0.00 0.00 0.00 1.98
843 2836 1.337728 TGCTGACGTGGGTTGTATCTG 60.338 52.381 0.00 0.00 0.00 2.90
844 2837 1.337823 GCTGACGTGGGTTGTATCTGT 60.338 52.381 0.00 0.00 0.00 3.41
845 2838 2.870435 GCTGACGTGGGTTGTATCTGTT 60.870 50.000 0.00 0.00 0.00 3.16
846 2839 2.993899 CTGACGTGGGTTGTATCTGTTC 59.006 50.000 0.00 0.00 0.00 3.18
847 2840 2.631062 TGACGTGGGTTGTATCTGTTCT 59.369 45.455 0.00 0.00 0.00 3.01
848 2841 3.070446 TGACGTGGGTTGTATCTGTTCTT 59.930 43.478 0.00 0.00 0.00 2.52
849 2842 4.062991 GACGTGGGTTGTATCTGTTCTTT 58.937 43.478 0.00 0.00 0.00 2.52
850 2843 4.457466 ACGTGGGTTGTATCTGTTCTTTT 58.543 39.130 0.00 0.00 0.00 2.27
851 2844 4.885325 ACGTGGGTTGTATCTGTTCTTTTT 59.115 37.500 0.00 0.00 0.00 1.94
877 2870 9.695526 TTTCAAAGTGAATGAGACCAAATTATG 57.304 29.630 0.00 0.00 36.11 1.90
878 2871 8.408043 TCAAAGTGAATGAGACCAAATTATGT 57.592 30.769 0.00 0.00 0.00 2.29
879 2872 8.514594 TCAAAGTGAATGAGACCAAATTATGTC 58.485 33.333 0.19 0.19 0.00 3.06
880 2873 8.517878 CAAAGTGAATGAGACCAAATTATGTCT 58.482 33.333 8.99 8.99 44.25 3.41
891 2884 9.152327 AGACCAAATTATGTCTCATCTAGATGA 57.848 33.333 29.17 29.17 44.83 2.92
905 2898 7.455058 TCATCTAGATGAGTTCTAGGTACTCC 58.545 42.308 27.93 8.04 44.99 3.85
919 2912 7.391620 TCTAGGTACTCCCAAAAACTAATGTG 58.608 38.462 0.00 0.00 41.75 3.21
922 2915 4.853924 ACTCCCAAAAACTAATGTGCAG 57.146 40.909 0.00 0.00 0.00 4.41
923 2916 3.005791 ACTCCCAAAAACTAATGTGCAGC 59.994 43.478 0.00 0.00 0.00 5.25
924 2917 2.961741 TCCCAAAAACTAATGTGCAGCA 59.038 40.909 0.00 0.00 0.00 4.41
925 2918 3.386078 TCCCAAAAACTAATGTGCAGCAA 59.614 39.130 0.00 0.00 0.00 3.91
926 2919 4.125703 CCCAAAAACTAATGTGCAGCAAA 58.874 39.130 0.00 0.00 0.00 3.68
927 2920 4.211794 CCCAAAAACTAATGTGCAGCAAAG 59.788 41.667 0.00 0.00 0.00 2.77
928 2921 4.211794 CCAAAAACTAATGTGCAGCAAAGG 59.788 41.667 0.00 0.00 0.00 3.11
929 2922 4.670896 AAAACTAATGTGCAGCAAAGGT 57.329 36.364 0.00 0.00 0.00 3.50
931 2924 2.862541 ACTAATGTGCAGCAAAGGTGA 58.137 42.857 0.00 0.00 32.22 4.02
932 2925 2.816087 ACTAATGTGCAGCAAAGGTGAG 59.184 45.455 0.00 0.00 32.22 3.51
933 2926 1.696063 AATGTGCAGCAAAGGTGAGT 58.304 45.000 0.00 0.00 32.22 3.41
934 2927 0.956633 ATGTGCAGCAAAGGTGAGTG 59.043 50.000 0.00 0.00 32.22 3.51
935 2928 0.107263 TGTGCAGCAAAGGTGAGTGA 60.107 50.000 0.00 0.00 32.22 3.41
936 2929 0.590195 GTGCAGCAAAGGTGAGTGAG 59.410 55.000 0.00 0.00 32.22 3.51
937 2930 0.181114 TGCAGCAAAGGTGAGTGAGT 59.819 50.000 0.00 0.00 32.22 3.41
938 2931 0.590195 GCAGCAAAGGTGAGTGAGTG 59.410 55.000 0.00 0.00 32.22 3.51
939 2932 0.590195 CAGCAAAGGTGAGTGAGTGC 59.410 55.000 0.00 0.00 32.22 4.40
940 2933 0.536006 AGCAAAGGTGAGTGAGTGCC 60.536 55.000 0.00 0.00 32.38 5.01
941 2934 0.819259 GCAAAGGTGAGTGAGTGCCA 60.819 55.000 0.00 0.00 0.00 4.92
961 2954 0.396811 ACTTAAGGGCAGCAACGTCT 59.603 50.000 7.53 0.00 0.00 4.18
964 2957 0.107831 TAAGGGCAGCAACGTCTTGT 59.892 50.000 0.00 0.00 0.00 3.16
974 3042 5.108254 GCAGCAACGTCTTGTTTAAAAGATG 60.108 40.000 7.34 7.34 45.07 2.90
978 3046 6.254804 GCAACGTCTTGTTTAAAAGATGGTTT 59.745 34.615 11.87 0.00 39.57 3.27
979 3047 7.514591 GCAACGTCTTGTTTAAAAGATGGTTTC 60.515 37.037 11.87 3.81 39.57 2.78
982 3050 6.356190 CGTCTTGTTTAAAAGATGGTTTCGAC 59.644 38.462 0.00 0.00 38.84 4.20
983 3051 7.190871 GTCTTGTTTAAAAGATGGTTTCGACA 58.809 34.615 0.00 0.00 38.41 4.35
1028 3166 2.186826 ACAGCAAACACTCACGGGC 61.187 57.895 0.00 0.00 0.00 6.13
1129 3829 2.202824 CTACGCCAAATCCGCCGA 60.203 61.111 0.00 0.00 0.00 5.54
1392 4275 2.434185 GTCGCCATGTCGCCAAGA 60.434 61.111 0.00 0.00 0.00 3.02
1425 4308 2.836154 GTGCCAAGGTGGAGGACA 59.164 61.111 0.00 0.00 40.96 4.02
1433 4316 0.622738 AGGTGGAGGACATGAGCCAT 60.623 55.000 0.00 0.00 32.26 4.40
1593 4488 0.473326 GGATCTTGCCCAGCTGATCT 59.527 55.000 17.39 0.00 38.33 2.75
1725 4632 6.054295 CCAAATGTCAAAGTCAAATTCCCAA 58.946 36.000 0.00 0.00 0.00 4.12
1727 4634 6.484364 AATGTCAAAGTCAAATTCCCAAGT 57.516 33.333 0.00 0.00 0.00 3.16
1729 4636 5.200483 TGTCAAAGTCAAATTCCCAAGTCT 58.800 37.500 0.00 0.00 0.00 3.24
1732 4639 6.003950 TCAAAGTCAAATTCCCAAGTCTAGG 58.996 40.000 0.00 0.00 0.00 3.02
1734 4641 3.916989 AGTCAAATTCCCAAGTCTAGGGT 59.083 43.478 0.00 0.00 46.82 4.34
1735 4642 4.010349 GTCAAATTCCCAAGTCTAGGGTG 58.990 47.826 0.00 0.00 46.82 4.61
1736 4643 3.913799 TCAAATTCCCAAGTCTAGGGTGA 59.086 43.478 0.00 0.00 46.82 4.02
1737 4644 4.352595 TCAAATTCCCAAGTCTAGGGTGAA 59.647 41.667 0.00 0.00 46.82 3.18
1738 4645 5.076873 CAAATTCCCAAGTCTAGGGTGAAA 58.923 41.667 0.00 0.00 46.82 2.69
1739 4646 3.782656 TTCCCAAGTCTAGGGTGAAAC 57.217 47.619 0.00 0.00 46.82 2.78
1740 4647 2.696775 TCCCAAGTCTAGGGTGAAACA 58.303 47.619 0.00 0.00 46.82 2.83
1741 4648 2.637872 TCCCAAGTCTAGGGTGAAACAG 59.362 50.000 0.00 0.00 46.82 3.16
1742 4649 2.372172 CCCAAGTCTAGGGTGAAACAGT 59.628 50.000 0.00 0.00 41.61 3.55
1863 4776 0.399806 GAGGCAGAGGGGGAGAAGAT 60.400 60.000 0.00 0.00 0.00 2.40
1896 4815 4.968812 TGGCACATGAGTACAATGAATG 57.031 40.909 13.71 5.55 0.00 2.67
1913 4832 1.818642 ATGTGTCAGCAAGAAGAGGC 58.181 50.000 0.00 0.00 0.00 4.70
1942 4862 1.264749 TGCTTGCCGGACTATCCACT 61.265 55.000 5.05 0.00 35.91 4.00
2016 4936 5.658634 GGAGCCATATCATAGTATCCACAGA 59.341 44.000 0.00 0.00 0.00 3.41
2017 4937 6.183360 GGAGCCATATCATAGTATCCACAGAG 60.183 46.154 0.00 0.00 0.00 3.35
2018 4938 5.128499 AGCCATATCATAGTATCCACAGAGC 59.872 44.000 0.00 0.00 0.00 4.09
2019 4939 5.128499 GCCATATCATAGTATCCACAGAGCT 59.872 44.000 0.00 0.00 0.00 4.09
2358 5288 5.752036 ATGAAATGAGTCCACTTCTCTCA 57.248 39.130 0.00 0.00 41.43 3.27
2359 5289 4.887748 TGAAATGAGTCCACTTCTCTCAC 58.112 43.478 0.00 0.00 40.29 3.51
2360 5290 3.971245 AATGAGTCCACTTCTCTCACC 57.029 47.619 0.00 0.00 40.29 4.02
2361 5291 1.633774 TGAGTCCACTTCTCTCACCC 58.366 55.000 0.00 0.00 34.00 4.61
2362 5292 1.133167 TGAGTCCACTTCTCTCACCCA 60.133 52.381 0.00 0.00 34.00 4.51
2363 5293 1.971357 GAGTCCACTTCTCTCACCCAA 59.029 52.381 0.00 0.00 0.00 4.12
2364 5294 1.694696 AGTCCACTTCTCTCACCCAAC 59.305 52.381 0.00 0.00 0.00 3.77
2365 5295 1.056660 TCCACTTCTCTCACCCAACC 58.943 55.000 0.00 0.00 0.00 3.77
2366 5296 0.764890 CCACTTCTCTCACCCAACCA 59.235 55.000 0.00 0.00 0.00 3.67
2367 5297 1.142870 CCACTTCTCTCACCCAACCAA 59.857 52.381 0.00 0.00 0.00 3.67
2368 5298 2.498167 CACTTCTCTCACCCAACCAAG 58.502 52.381 0.00 0.00 0.00 3.61
2369 5299 1.202818 ACTTCTCTCACCCAACCAAGC 60.203 52.381 0.00 0.00 0.00 4.01
2370 5300 1.072965 CTTCTCTCACCCAACCAAGCT 59.927 52.381 0.00 0.00 0.00 3.74
2371 5301 0.687354 TCTCTCACCCAACCAAGCTC 59.313 55.000 0.00 0.00 0.00 4.09
2372 5302 0.322008 CTCTCACCCAACCAAGCTCC 60.322 60.000 0.00 0.00 0.00 4.70
2373 5303 1.303643 CTCACCCAACCAAGCTCCC 60.304 63.158 0.00 0.00 0.00 4.30
2374 5304 2.283173 CACCCAACCAAGCTCCCC 60.283 66.667 0.00 0.00 0.00 4.81
2375 5305 3.590574 ACCCAACCAAGCTCCCCC 61.591 66.667 0.00 0.00 0.00 5.40
2393 5323 3.461773 CGTCCCCTCCAGCGTCAT 61.462 66.667 0.00 0.00 0.00 3.06
2394 5324 2.501610 GTCCCCTCCAGCGTCATC 59.498 66.667 0.00 0.00 0.00 2.92
2395 5325 2.764128 TCCCCTCCAGCGTCATCC 60.764 66.667 0.00 0.00 0.00 3.51
2396 5326 3.866582 CCCCTCCAGCGTCATCCC 61.867 72.222 0.00 0.00 0.00 3.85
2439 5627 2.675348 CTCCCAGATCTTTTGTCTTCGC 59.325 50.000 0.00 0.00 0.00 4.70
2474 5662 2.620585 GCTGATATTGGTTTCCTCTGCC 59.379 50.000 0.00 0.00 0.00 4.85
2540 5728 0.178941 AGGTGACTAGGTTCGGTGGT 60.179 55.000 0.00 0.00 40.61 4.16
2563 5751 6.375455 GGTGATGTGTTTCCTTGAGACATAAT 59.625 38.462 0.00 0.00 29.77 1.28
2621 5809 6.056236 GGAATCCAGTAGATAGGGACAAAAC 58.944 44.000 0.00 0.00 33.66 2.43
2646 5834 5.312079 AGACTTGTTCTATTCTTGCTTGCT 58.688 37.500 0.00 0.00 30.17 3.91
3034 6236 1.518903 GGCAAAGGTCACCTCAGCAC 61.519 60.000 19.13 7.66 35.80 4.40
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
33 34 0.464916 GGTTGTTGGGACCTCGTTGT 60.465 55.000 0.00 0.00 34.27 3.32
35 36 1.149854 GGGTTGTTGGGACCTCGTT 59.850 57.895 0.00 0.00 37.34 3.85
96 103 2.356947 TGACAATGCATATGGCTGTCCA 60.357 45.455 20.40 9.83 43.43 4.02
139 147 2.282462 AAGCCCTGAACCAAGCCG 60.282 61.111 0.00 0.00 0.00 5.52
147 155 2.034687 GCTGCCTGAAGCCCTGAA 59.965 61.111 0.00 0.00 42.71 3.02
148 156 4.399395 CGCTGCCTGAAGCCCTGA 62.399 66.667 0.00 0.00 42.71 3.86
149 157 4.711949 ACGCTGCCTGAAGCCCTG 62.712 66.667 0.00 0.00 42.71 4.45
150 158 3.497884 AAACGCTGCCTGAAGCCCT 62.498 57.895 0.00 0.00 42.71 5.19
151 159 2.985847 AAACGCTGCCTGAAGCCC 60.986 61.111 0.00 0.00 42.71 5.19
152 160 2.075426 AACAAACGCTGCCTGAAGCC 62.075 55.000 0.00 0.00 42.71 4.35
153 161 0.249031 AAACAAACGCTGCCTGAAGC 60.249 50.000 0.00 0.00 44.14 3.86
154 162 1.202290 ACAAACAAACGCTGCCTGAAG 60.202 47.619 0.00 0.00 0.00 3.02
236 247 6.036844 GCGACGTCTCACCATATATACTCATA 59.963 42.308 14.70 0.00 0.00 2.15
237 248 5.163744 GCGACGTCTCACCATATATACTCAT 60.164 44.000 14.70 0.00 0.00 2.90
239 250 4.392445 AGCGACGTCTCACCATATATACTC 59.608 45.833 14.70 0.00 0.00 2.59
240 251 4.154375 CAGCGACGTCTCACCATATATACT 59.846 45.833 14.70 0.00 0.00 2.12
241 252 4.083431 ACAGCGACGTCTCACCATATATAC 60.083 45.833 14.70 0.00 0.00 1.47
243 254 2.885266 ACAGCGACGTCTCACCATATAT 59.115 45.455 14.70 0.00 0.00 0.86
244 255 2.294979 ACAGCGACGTCTCACCATATA 58.705 47.619 14.70 0.00 0.00 0.86
245 256 1.103803 ACAGCGACGTCTCACCATAT 58.896 50.000 14.70 0.00 0.00 1.78
392 1138 7.422399 GTCCTGCTTAGATAGACAGAAGTTAG 58.578 42.308 0.00 0.00 32.88 2.34
395 1141 4.647399 GGTCCTGCTTAGATAGACAGAAGT 59.353 45.833 0.00 0.00 32.88 3.01
475 1224 8.164070 ACTCCTATTCTCCAACACAAAGTTTAT 58.836 33.333 0.00 0.00 38.74 1.40
521 1274 6.418226 GCGATACTGAACAAACTATACTCCTG 59.582 42.308 0.00 0.00 0.00 3.86
531 1310 3.242123 GCTAGCTGCGATACTGAACAAAC 60.242 47.826 7.70 0.00 0.00 2.93
557 1338 0.794605 GGCTTTGAAAGTCATCGCGC 60.795 55.000 4.40 0.00 32.07 6.86
558 1339 0.798776 AGGCTTTGAAAGTCATCGCG 59.201 50.000 12.50 0.00 34.95 5.87
561 1342 9.860898 AAAATGTATAAGGCTTTGAAAGTCATC 57.139 29.630 12.50 0.00 34.95 2.92
581 1362 9.218440 CCATGGCTTAAAATTTAGTGAAAATGT 57.782 29.630 0.00 0.00 37.85 2.71
645 1509 1.129437 GCGATGCCTCAACAAACTCTC 59.871 52.381 0.00 0.00 0.00 3.20
675 2623 4.171103 GGCCGGCCCTCGTTACAT 62.171 66.667 36.64 0.00 37.11 2.29
685 2633 2.670934 CTATGCATCAGGCCGGCC 60.671 66.667 39.29 39.29 43.89 6.13
759 2752 9.566432 AAGGTGAATGAGACCAAATTATATCTC 57.434 33.333 0.00 6.03 38.46 2.75
760 2753 9.927081 AAAGGTGAATGAGACCAAATTATATCT 57.073 29.630 0.00 0.00 35.76 1.98
766 2759 8.470002 GCTATAAAAGGTGAATGAGACCAAATT 58.530 33.333 0.00 0.00 35.76 1.82
767 2760 7.068716 GGCTATAAAAGGTGAATGAGACCAAAT 59.931 37.037 0.00 0.00 35.76 2.32
768 2761 6.377146 GGCTATAAAAGGTGAATGAGACCAAA 59.623 38.462 0.00 0.00 35.76 3.28
769 2762 5.885912 GGCTATAAAAGGTGAATGAGACCAA 59.114 40.000 0.00 0.00 35.76 3.67
770 2763 5.045213 TGGCTATAAAAGGTGAATGAGACCA 60.045 40.000 0.00 0.00 35.76 4.02
771 2764 5.437060 TGGCTATAAAAGGTGAATGAGACC 58.563 41.667 0.00 0.00 0.00 3.85
772 2765 7.283127 TCAATGGCTATAAAAGGTGAATGAGAC 59.717 37.037 0.00 0.00 0.00 3.36
773 2766 7.345691 TCAATGGCTATAAAAGGTGAATGAGA 58.654 34.615 0.00 0.00 0.00 3.27
774 2767 7.572523 TCAATGGCTATAAAAGGTGAATGAG 57.427 36.000 0.00 0.00 0.00 2.90
775 2768 7.953005 TTCAATGGCTATAAAAGGTGAATGA 57.047 32.000 0.00 0.00 0.00 2.57
776 2769 8.583810 CATTCAATGGCTATAAAAGGTGAATG 57.416 34.615 14.56 14.56 42.48 2.67
777 2770 8.199449 CACATTCAATGGCTATAAAAGGTGAAT 58.801 33.333 13.37 7.60 35.43 2.57
778 2771 7.395772 TCACATTCAATGGCTATAAAAGGTGAA 59.604 33.333 16.82 8.19 33.60 3.18
779 2772 6.889177 TCACATTCAATGGCTATAAAAGGTGA 59.111 34.615 15.82 15.82 33.60 4.02
780 2773 7.099266 TCACATTCAATGGCTATAAAAGGTG 57.901 36.000 12.77 12.77 33.60 4.00
781 2774 7.685155 GCATCACATTCAATGGCTATAAAAGGT 60.685 37.037 1.58 0.00 33.60 3.50
782 2775 6.643770 GCATCACATTCAATGGCTATAAAAGG 59.356 38.462 1.58 0.00 33.60 3.11
783 2776 7.431249 AGCATCACATTCAATGGCTATAAAAG 58.569 34.615 1.58 0.00 33.60 2.27
784 2777 7.350744 AGCATCACATTCAATGGCTATAAAA 57.649 32.000 1.58 0.00 33.60 1.52
785 2778 6.964807 AGCATCACATTCAATGGCTATAAA 57.035 33.333 1.58 0.00 33.60 1.40
786 2779 9.737844 TTATAGCATCACATTCAATGGCTATAA 57.262 29.630 22.35 22.35 35.32 0.98
787 2780 9.387257 CTTATAGCATCACATTCAATGGCTATA 57.613 33.333 16.27 16.27 31.20 1.31
788 2781 8.105197 TCTTATAGCATCACATTCAATGGCTAT 58.895 33.333 17.71 17.71 32.32 2.97
789 2782 7.452562 TCTTATAGCATCACATTCAATGGCTA 58.547 34.615 1.58 5.51 33.60 3.93
790 2783 6.301486 TCTTATAGCATCACATTCAATGGCT 58.699 36.000 1.58 3.32 33.60 4.75
791 2784 6.564709 TCTTATAGCATCACATTCAATGGC 57.435 37.500 1.58 0.00 33.60 4.40
792 2785 7.027760 GCATCTTATAGCATCACATTCAATGG 58.972 38.462 1.58 0.00 33.60 3.16
793 2786 6.741358 CGCATCTTATAGCATCACATTCAATG 59.259 38.462 0.00 0.00 0.00 2.82
794 2787 6.429078 ACGCATCTTATAGCATCACATTCAAT 59.571 34.615 0.00 0.00 0.00 2.57
795 2788 5.759763 ACGCATCTTATAGCATCACATTCAA 59.240 36.000 0.00 0.00 0.00 2.69
796 2789 5.178067 CACGCATCTTATAGCATCACATTCA 59.822 40.000 0.00 0.00 0.00 2.57
797 2790 5.178252 ACACGCATCTTATAGCATCACATTC 59.822 40.000 0.00 0.00 0.00 2.67
798 2791 5.049886 CACACGCATCTTATAGCATCACATT 60.050 40.000 0.00 0.00 0.00 2.71
799 2792 4.450080 CACACGCATCTTATAGCATCACAT 59.550 41.667 0.00 0.00 0.00 3.21
800 2793 3.803778 CACACGCATCTTATAGCATCACA 59.196 43.478 0.00 0.00 0.00 3.58
801 2794 3.804325 ACACACGCATCTTATAGCATCAC 59.196 43.478 0.00 0.00 0.00 3.06
802 2795 3.803778 CACACACGCATCTTATAGCATCA 59.196 43.478 0.00 0.00 0.00 3.07
803 2796 3.363378 GCACACACGCATCTTATAGCATC 60.363 47.826 0.00 0.00 0.00 3.91
804 2797 2.545526 GCACACACGCATCTTATAGCAT 59.454 45.455 0.00 0.00 0.00 3.79
805 2798 1.933181 GCACACACGCATCTTATAGCA 59.067 47.619 0.00 0.00 0.00 3.49
806 2799 2.033407 CAGCACACACGCATCTTATAGC 60.033 50.000 0.00 0.00 0.00 2.97
807 2800 3.243877 GTCAGCACACACGCATCTTATAG 59.756 47.826 0.00 0.00 0.00 1.31
808 2801 3.186909 GTCAGCACACACGCATCTTATA 58.813 45.455 0.00 0.00 0.00 0.98
809 2802 2.002586 GTCAGCACACACGCATCTTAT 58.997 47.619 0.00 0.00 0.00 1.73
810 2803 1.428448 GTCAGCACACACGCATCTTA 58.572 50.000 0.00 0.00 0.00 2.10
811 2804 1.560004 CGTCAGCACACACGCATCTT 61.560 55.000 0.00 0.00 0.00 2.40
812 2805 2.023771 CGTCAGCACACACGCATCT 61.024 57.895 0.00 0.00 0.00 2.90
813 2806 2.310233 ACGTCAGCACACACGCATC 61.310 57.895 0.00 0.00 39.73 3.91
814 2807 2.280119 ACGTCAGCACACACGCAT 60.280 55.556 0.00 0.00 39.73 4.73
815 2808 3.261216 CACGTCAGCACACACGCA 61.261 61.111 0.00 0.00 39.73 5.24
816 2809 4.000557 CCACGTCAGCACACACGC 62.001 66.667 0.00 0.00 39.73 5.34
817 2810 3.337889 CCCACGTCAGCACACACG 61.338 66.667 0.00 0.00 41.90 4.49
818 2811 1.817941 AACCCACGTCAGCACACAC 60.818 57.895 0.00 0.00 0.00 3.82
819 2812 1.817520 CAACCCACGTCAGCACACA 60.818 57.895 0.00 0.00 0.00 3.72
820 2813 0.531090 TACAACCCACGTCAGCACAC 60.531 55.000 0.00 0.00 0.00 3.82
821 2814 0.394938 ATACAACCCACGTCAGCACA 59.605 50.000 0.00 0.00 0.00 4.57
822 2815 1.076332 GATACAACCCACGTCAGCAC 58.924 55.000 0.00 0.00 0.00 4.40
823 2816 0.973632 AGATACAACCCACGTCAGCA 59.026 50.000 0.00 0.00 0.00 4.41
824 2817 1.337823 ACAGATACAACCCACGTCAGC 60.338 52.381 0.00 0.00 0.00 4.26
825 2818 2.743636 ACAGATACAACCCACGTCAG 57.256 50.000 0.00 0.00 0.00 3.51
826 2819 2.631062 AGAACAGATACAACCCACGTCA 59.369 45.455 0.00 0.00 0.00 4.35
827 2820 3.314541 AGAACAGATACAACCCACGTC 57.685 47.619 0.00 0.00 0.00 4.34
828 2821 3.764237 AAGAACAGATACAACCCACGT 57.236 42.857 0.00 0.00 0.00 4.49
829 2822 5.432885 AAAAAGAACAGATACAACCCACG 57.567 39.130 0.00 0.00 0.00 4.94
851 2844 9.695526 CATAATTTGGTCTCATTCACTTTGAAA 57.304 29.630 0.00 0.00 40.12 2.69
852 2845 8.859090 ACATAATTTGGTCTCATTCACTTTGAA 58.141 29.630 0.00 0.00 41.09 2.69
853 2846 8.408043 ACATAATTTGGTCTCATTCACTTTGA 57.592 30.769 0.00 0.00 0.00 2.69
854 2847 8.517878 AGACATAATTTGGTCTCATTCACTTTG 58.482 33.333 6.01 0.00 40.18 2.77
855 2848 8.641498 AGACATAATTTGGTCTCATTCACTTT 57.359 30.769 6.01 0.00 40.18 2.66
865 2858 9.152327 TCATCTAGATGAGACATAATTTGGTCT 57.848 33.333 27.93 10.45 46.51 3.85
885 2878 5.988865 TGGGAGTACCTAGAACTCATCTA 57.011 43.478 20.28 5.84 44.25 1.98
886 2879 4.883021 TGGGAGTACCTAGAACTCATCT 57.117 45.455 20.28 0.00 44.25 2.90
887 2880 5.934402 TTTGGGAGTACCTAGAACTCATC 57.066 43.478 20.28 14.32 44.25 2.92
888 2881 6.272558 AGTTTTTGGGAGTACCTAGAACTCAT 59.727 38.462 20.28 0.00 42.73 2.90
889 2882 5.605488 AGTTTTTGGGAGTACCTAGAACTCA 59.395 40.000 20.28 5.47 42.73 3.41
890 2883 6.111669 AGTTTTTGGGAGTACCTAGAACTC 57.888 41.667 6.01 13.84 42.73 3.01
891 2884 7.622502 TTAGTTTTTGGGAGTACCTAGAACT 57.377 36.000 14.68 14.68 46.07 3.01
892 2885 7.881751 ACATTAGTTTTTGGGAGTACCTAGAAC 59.118 37.037 1.53 1.53 38.67 3.01
893 2886 7.881232 CACATTAGTTTTTGGGAGTACCTAGAA 59.119 37.037 0.00 0.00 41.11 2.10
894 2887 7.391620 CACATTAGTTTTTGGGAGTACCTAGA 58.608 38.462 0.00 0.00 41.11 2.43
895 2888 6.093633 GCACATTAGTTTTTGGGAGTACCTAG 59.906 42.308 0.00 0.00 41.11 3.02
896 2889 5.941647 GCACATTAGTTTTTGGGAGTACCTA 59.058 40.000 0.00 0.00 41.11 3.08
897 2890 4.765339 GCACATTAGTTTTTGGGAGTACCT 59.235 41.667 0.00 0.00 41.11 3.08
898 2891 4.521256 TGCACATTAGTTTTTGGGAGTACC 59.479 41.667 0.00 0.00 40.81 3.34
899 2892 5.699097 TGCACATTAGTTTTTGGGAGTAC 57.301 39.130 0.00 0.00 0.00 2.73
900 2893 4.217550 GCTGCACATTAGTTTTTGGGAGTA 59.782 41.667 0.00 0.00 0.00 2.59
901 2894 3.005791 GCTGCACATTAGTTTTTGGGAGT 59.994 43.478 0.00 0.00 0.00 3.85
902 2895 3.005684 TGCTGCACATTAGTTTTTGGGAG 59.994 43.478 0.00 0.00 0.00 4.30
903 2896 2.961741 TGCTGCACATTAGTTTTTGGGA 59.038 40.909 0.00 0.00 0.00 4.37
904 2897 3.383620 TGCTGCACATTAGTTTTTGGG 57.616 42.857 0.00 0.00 0.00 4.12
905 2898 4.211794 CCTTTGCTGCACATTAGTTTTTGG 59.788 41.667 0.00 0.00 0.00 3.28
919 2912 0.590195 CACTCACTCACCTTTGCTGC 59.410 55.000 0.00 0.00 0.00 5.25
922 2915 0.819259 TGGCACTCACTCACCTTTGC 60.819 55.000 0.00 0.00 0.00 3.68
923 2916 1.334869 GTTGGCACTCACTCACCTTTG 59.665 52.381 0.00 0.00 0.00 2.77
924 2917 1.212935 AGTTGGCACTCACTCACCTTT 59.787 47.619 0.00 0.00 0.00 3.11
925 2918 0.839946 AGTTGGCACTCACTCACCTT 59.160 50.000 0.00 0.00 0.00 3.50
926 2919 0.839946 AAGTTGGCACTCACTCACCT 59.160 50.000 0.00 0.00 30.45 4.00
927 2920 2.543777 TAAGTTGGCACTCACTCACC 57.456 50.000 0.00 0.00 30.45 4.02
928 2921 2.808543 CCTTAAGTTGGCACTCACTCAC 59.191 50.000 0.97 0.00 30.45 3.51
929 2922 2.224523 CCCTTAAGTTGGCACTCACTCA 60.225 50.000 0.97 0.00 30.45 3.41
931 2924 2.568623 CCCTTAAGTTGGCACTCACT 57.431 50.000 0.97 0.00 30.45 3.41
939 2932 0.240945 CGTTGCTGCCCTTAAGTTGG 59.759 55.000 0.97 0.00 0.00 3.77
940 2933 0.951558 ACGTTGCTGCCCTTAAGTTG 59.048 50.000 0.97 0.00 0.00 3.16
941 2934 1.202770 AGACGTTGCTGCCCTTAAGTT 60.203 47.619 0.97 0.00 0.00 2.66
957 2950 6.356190 GTCGAAACCATCTTTTAAACAAGACG 59.644 38.462 0.00 0.00 35.57 4.18
961 2954 6.970043 CAGTGTCGAAACCATCTTTTAAACAA 59.030 34.615 0.95 0.00 0.00 2.83
964 2957 6.512741 GCTCAGTGTCGAAACCATCTTTTAAA 60.513 38.462 0.95 0.00 0.00 1.52
974 3042 0.951040 CAGGGCTCAGTGTCGAAACC 60.951 60.000 0.95 0.00 0.00 3.27
978 3046 2.230994 GATGCAGGGCTCAGTGTCGA 62.231 60.000 0.00 0.00 0.00 4.20
979 3047 1.812922 GATGCAGGGCTCAGTGTCG 60.813 63.158 0.00 0.00 0.00 4.35
982 3050 1.600638 TGAGATGCAGGGCTCAGTG 59.399 57.895 11.36 0.00 36.31 3.66
983 3051 4.142045 TGAGATGCAGGGCTCAGT 57.858 55.556 11.36 0.00 36.31 3.41
1028 3166 0.248843 AAGCTTCCCTCTCTCGCTTG 59.751 55.000 0.00 0.00 39.26 4.01
1365 4248 0.525668 ACATGGCGACGATCGAGAAC 60.526 55.000 24.34 9.73 43.74 3.01
1392 4275 1.023513 GCACGCAGCTCCTTCATCTT 61.024 55.000 0.00 0.00 41.15 2.40
1425 4308 0.530650 CGCACGTTCCTATGGCTCAT 60.531 55.000 0.00 0.00 0.00 2.90
1433 4316 2.876955 CGGTACCGCACGTTCCTA 59.123 61.111 23.44 0.00 29.82 2.94
1620 4527 3.517901 ACTCCGATCACTCCAATTTGGTA 59.482 43.478 14.98 1.91 39.03 3.25
1725 4632 2.296471 CACGACTGTTTCACCCTAGACT 59.704 50.000 0.00 0.00 0.00 3.24
1727 4634 1.616865 CCACGACTGTTTCACCCTAGA 59.383 52.381 0.00 0.00 0.00 2.43
1729 4636 0.034337 GCCACGACTGTTTCACCCTA 59.966 55.000 0.00 0.00 0.00 3.53
1732 4639 1.798813 CTAAGCCACGACTGTTTCACC 59.201 52.381 0.00 0.00 0.00 4.02
1733 4640 1.798813 CCTAAGCCACGACTGTTTCAC 59.201 52.381 0.00 0.00 0.00 3.18
1734 4641 1.270625 CCCTAAGCCACGACTGTTTCA 60.271 52.381 0.00 0.00 0.00 2.69
1735 4642 1.270678 ACCCTAAGCCACGACTGTTTC 60.271 52.381 0.00 0.00 0.00 2.78
1736 4643 0.763035 ACCCTAAGCCACGACTGTTT 59.237 50.000 0.00 0.00 0.00 2.83
1737 4644 0.034896 CACCCTAAGCCACGACTGTT 59.965 55.000 0.00 0.00 0.00 3.16
1738 4645 0.830444 TCACCCTAAGCCACGACTGT 60.830 55.000 0.00 0.00 0.00 3.55
1739 4646 0.389948 GTCACCCTAAGCCACGACTG 60.390 60.000 0.00 0.00 0.00 3.51
1740 4647 0.830444 TGTCACCCTAAGCCACGACT 60.830 55.000 0.00 0.00 0.00 4.18
1741 4648 0.669625 GTGTCACCCTAAGCCACGAC 60.670 60.000 0.00 0.00 0.00 4.34
1742 4649 1.669440 GTGTCACCCTAAGCCACGA 59.331 57.895 0.00 0.00 0.00 4.35
1863 4776 1.001068 CATGTGCCAACTCATGCCAAA 59.999 47.619 0.00 0.00 39.96 3.28
1896 4815 0.871057 GTGCCTCTTCTTGCTGACAC 59.129 55.000 0.00 0.00 0.00 3.67
1913 4832 2.743752 CGGCAAGCACGATCAGGTG 61.744 63.158 0.00 0.00 40.89 4.00
1942 4862 4.784177 TGATCTGCTGCCATTCTTCAATA 58.216 39.130 0.00 0.00 0.00 1.90
2016 4936 2.507484 TGCAACTTCAACATGCTAGCT 58.493 42.857 17.23 0.00 40.66 3.32
2017 4937 2.995466 TGCAACTTCAACATGCTAGC 57.005 45.000 8.10 8.10 40.66 3.42
2018 4938 3.240069 GCTTGCAACTTCAACATGCTAG 58.760 45.455 0.00 4.48 42.95 3.42
2019 4939 2.030007 GGCTTGCAACTTCAACATGCTA 60.030 45.455 0.00 0.00 40.66 3.49
2131 5051 5.465935 TGAGTGAACCAAAAACTTGTGTTC 58.534 37.500 10.03 10.03 34.96 3.18
2355 5285 1.303643 GGGAGCTTGGTTGGGTGAG 60.304 63.158 0.00 0.00 0.00 3.51
2356 5286 2.840753 GGGGAGCTTGGTTGGGTGA 61.841 63.158 0.00 0.00 0.00 4.02
2357 5287 2.283173 GGGGAGCTTGGTTGGGTG 60.283 66.667 0.00 0.00 0.00 4.61
2358 5288 3.590574 GGGGGAGCTTGGTTGGGT 61.591 66.667 0.00 0.00 0.00 4.51
2376 5306 3.432051 GATGACGCTGGAGGGGACG 62.432 68.421 0.00 0.00 0.00 4.79
2377 5307 2.501610 GATGACGCTGGAGGGGAC 59.498 66.667 0.00 0.00 0.00 4.46
2378 5308 2.764128 GGATGACGCTGGAGGGGA 60.764 66.667 0.00 0.00 0.00 4.81
2379 5309 3.866582 GGGATGACGCTGGAGGGG 61.867 72.222 0.00 0.00 0.00 4.79
2380 5310 2.765807 AGGGATGACGCTGGAGGG 60.766 66.667 0.00 0.00 37.89 4.30
2381 5311 2.060383 TGAGGGATGACGCTGGAGG 61.060 63.158 0.00 0.00 39.38 4.30
2382 5312 1.142748 GTGAGGGATGACGCTGGAG 59.857 63.158 0.00 0.00 39.38 3.86
2383 5313 2.359169 GGTGAGGGATGACGCTGGA 61.359 63.158 0.00 0.00 39.38 3.86
2384 5314 1.976132 ATGGTGAGGGATGACGCTGG 61.976 60.000 0.00 0.00 39.38 4.85
2385 5315 0.752658 TATGGTGAGGGATGACGCTG 59.247 55.000 0.00 0.00 39.38 5.18
2386 5316 1.043816 CTATGGTGAGGGATGACGCT 58.956 55.000 0.00 0.00 41.94 5.07
2387 5317 1.040646 TCTATGGTGAGGGATGACGC 58.959 55.000 0.00 0.00 0.00 5.19
2388 5318 1.341531 GGTCTATGGTGAGGGATGACG 59.658 57.143 0.00 0.00 0.00 4.35
2389 5319 2.683768 AGGTCTATGGTGAGGGATGAC 58.316 52.381 0.00 0.00 0.00 3.06
2390 5320 3.309296 GAAGGTCTATGGTGAGGGATGA 58.691 50.000 0.00 0.00 0.00 2.92
2391 5321 3.041211 TGAAGGTCTATGGTGAGGGATG 58.959 50.000 0.00 0.00 0.00 3.51
2392 5322 3.041946 GTGAAGGTCTATGGTGAGGGAT 58.958 50.000 0.00 0.00 0.00 3.85
2393 5323 2.225522 TGTGAAGGTCTATGGTGAGGGA 60.226 50.000 0.00 0.00 0.00 4.20
2394 5324 2.169352 CTGTGAAGGTCTATGGTGAGGG 59.831 54.545 0.00 0.00 0.00 4.30
2395 5325 2.834549 ACTGTGAAGGTCTATGGTGAGG 59.165 50.000 0.00 0.00 0.00 3.86
2396 5326 3.118956 GGACTGTGAAGGTCTATGGTGAG 60.119 52.174 0.00 0.00 34.47 3.51
2439 5627 6.125029 CCAATATCAGCAAGGAATATAGGGG 58.875 44.000 0.00 0.00 0.00 4.79
2512 5700 2.606519 TAGTCACCTGCCGCCCTT 60.607 61.111 0.00 0.00 0.00 3.95
2540 5728 7.119699 GTCATTATGTCTCAAGGAAACACATCA 59.880 37.037 0.00 0.00 0.00 3.07
2563 5751 1.699634 CTTCTCCCTTCACCCTTGTCA 59.300 52.381 0.00 0.00 0.00 3.58
2621 5809 6.593382 AGCAAGCAAGAATAGAACAAGTCTAG 59.407 38.462 0.00 0.00 42.23 2.43
2752 5940 4.038402 AGCATTCAAGGAGGACAAAAACTG 59.962 41.667 0.00 0.00 0.00 3.16
3034 6236 6.016527 AGGATAGCATGCATACAAGTCAATTG 60.017 38.462 21.98 0.00 45.01 2.32


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

AutoCloner maintained by Alex Coulton.