Multiple sequence alignment - TraesCS5A01G307500

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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 TraesCS5A01G307500 chr5A 100.000 3764 0 0 1 3764 520119560 520115797 0.000000e+00 6951
1 TraesCS5A01G307500 chr5D 92.299 1792 90 21 1005 2769 409014399 409012629 0.000000e+00 2501
2 TraesCS5A01G307500 chr5D 92.414 145 11 0 1310 1454 409003792 409003648 1.370000e-49 207
3 TraesCS5A01G307500 chr6B 96.421 922 29 3 1 920 63738031 63738950 0.000000e+00 1517
4 TraesCS5A01G307500 chr5B 94.147 991 50 2 1779 2769 491042706 491041724 0.000000e+00 1502
5 TraesCS5A01G307500 chr5B 94.964 278 10 3 1 277 513327357 513327083 2.080000e-117 433
6 TraesCS5A01G307500 chr5B 90.578 329 25 3 953 1281 491043032 491042710 7.470000e-117 431
7 TraesCS5A01G307500 chr3A 96.104 924 30 4 1 920 382361500 382362421 0.000000e+00 1502
8 TraesCS5A01G307500 chr3A 94.089 829 47 2 2937 3764 350467095 350466268 0.000000e+00 1258
9 TraesCS5A01G307500 chr1B 95.987 922 33 3 1 920 61316009 61316928 0.000000e+00 1495
10 TraesCS5A01G307500 chr3B 95.294 935 33 7 3 930 738690623 738689693 0.000000e+00 1472
11 TraesCS5A01G307500 chr3B 89.936 934 69 16 1 920 572752227 572751305 0.000000e+00 1181
12 TraesCS5A01G307500 chr4B 94.979 936 38 8 1 931 607354392 607353461 0.000000e+00 1459
13 TraesCS5A01G307500 chr2D 83.984 1486 193 28 1305 2764 630621399 630622865 0.000000e+00 1384
14 TraesCS5A01G307500 chr2D 83.602 1488 194 27 1305 2764 630098548 630097083 0.000000e+00 1351
15 TraesCS5A01G307500 chr2D 80.667 1500 230 44 1305 2766 629735328 629733851 0.000000e+00 1109
16 TraesCS5A01G307500 chr2D 80.641 1498 233 34 1305 2764 630066622 630068100 0.000000e+00 1107
17 TraesCS5A01G307500 chr2D 87.381 943 86 22 5 929 264815158 264816085 0.000000e+00 1051
18 TraesCS5A01G307500 chr2D 80.718 1281 208 26 1305 2554 630034061 630035333 0.000000e+00 961
19 TraesCS5A01G307500 chr2D 80.395 1265 216 26 1481 2730 629975378 629976625 0.000000e+00 933
20 TraesCS5A01G307500 chr2A 83.864 1475 196 26 1305 2753 760762039 760763497 0.000000e+00 1367
21 TraesCS5A01G307500 chr2A 94.807 828 42 1 2938 3764 744913478 744912651 0.000000e+00 1290
22 TraesCS5A01G307500 chr2A 81.648 1493 224 32 1305 2764 760776126 760774651 0.000000e+00 1194
23 TraesCS5A01G307500 chr2B 83.390 1475 203 26 1305 2753 773723168 773724626 0.000000e+00 1328
24 TraesCS5A01G307500 chr2B 85.027 187 25 3 1296 1480 774662695 774662880 1.790000e-43 187
25 TraesCS5A01G307500 chr4A 95.175 829 39 1 2937 3764 485277669 485276841 0.000000e+00 1308
26 TraesCS5A01G307500 chr4A 83.791 802 118 11 2937 3732 26669377 26670172 0.000000e+00 750
27 TraesCS5A01G307500 chr6D 87.273 935 86 21 5 921 351118862 351119781 0.000000e+00 1037
28 TraesCS5A01G307500 chr4D 84.406 808 117 7 2937 3738 440822794 440821990 0.000000e+00 785
29 TraesCS5A01G307500 chrUn 83.396 801 123 9 2937 3732 243392911 243393706 0.000000e+00 734
30 TraesCS5A01G307500 chrUn 83.271 807 125 9 2937 3738 267342109 267341308 0.000000e+00 734
31 TraesCS5A01G307500 chrUn 83.396 801 123 9 2937 3732 323770481 323771276 0.000000e+00 734
32 TraesCS5A01G307500 chrUn 83.271 807 125 9 2937 3738 323817553 323816752 0.000000e+00 734
33 TraesCS5A01G307500 chr7A 85.269 577 78 7 347 920 578980559 578979987 4.190000e-164 588


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 TraesCS5A01G307500 chr5A 520115797 520119560 3763 True 6951.0 6951 100.0000 1 3764 1 chr5A.!!$R1 3763
1 TraesCS5A01G307500 chr5D 409012629 409014399 1770 True 2501.0 2501 92.2990 1005 2769 1 chr5D.!!$R2 1764
2 TraesCS5A01G307500 chr6B 63738031 63738950 919 False 1517.0 1517 96.4210 1 920 1 chr6B.!!$F1 919
3 TraesCS5A01G307500 chr5B 491041724 491043032 1308 True 966.5 1502 92.3625 953 2769 2 chr5B.!!$R2 1816
4 TraesCS5A01G307500 chr3A 382361500 382362421 921 False 1502.0 1502 96.1040 1 920 1 chr3A.!!$F1 919
5 TraesCS5A01G307500 chr3A 350466268 350467095 827 True 1258.0 1258 94.0890 2937 3764 1 chr3A.!!$R1 827
6 TraesCS5A01G307500 chr1B 61316009 61316928 919 False 1495.0 1495 95.9870 1 920 1 chr1B.!!$F1 919
7 TraesCS5A01G307500 chr3B 738689693 738690623 930 True 1472.0 1472 95.2940 3 930 1 chr3B.!!$R2 927
8 TraesCS5A01G307500 chr3B 572751305 572752227 922 True 1181.0 1181 89.9360 1 920 1 chr3B.!!$R1 919
9 TraesCS5A01G307500 chr4B 607353461 607354392 931 True 1459.0 1459 94.9790 1 931 1 chr4B.!!$R1 930
10 TraesCS5A01G307500 chr2D 630621399 630622865 1466 False 1384.0 1384 83.9840 1305 2764 1 chr2D.!!$F5 1459
11 TraesCS5A01G307500 chr2D 630097083 630098548 1465 True 1351.0 1351 83.6020 1305 2764 1 chr2D.!!$R2 1459
12 TraesCS5A01G307500 chr2D 629733851 629735328 1477 True 1109.0 1109 80.6670 1305 2766 1 chr2D.!!$R1 1461
13 TraesCS5A01G307500 chr2D 630066622 630068100 1478 False 1107.0 1107 80.6410 1305 2764 1 chr2D.!!$F4 1459
14 TraesCS5A01G307500 chr2D 264815158 264816085 927 False 1051.0 1051 87.3810 5 929 1 chr2D.!!$F1 924
15 TraesCS5A01G307500 chr2D 630034061 630035333 1272 False 961.0 961 80.7180 1305 2554 1 chr2D.!!$F3 1249
16 TraesCS5A01G307500 chr2D 629975378 629976625 1247 False 933.0 933 80.3950 1481 2730 1 chr2D.!!$F2 1249
17 TraesCS5A01G307500 chr2A 760762039 760763497 1458 False 1367.0 1367 83.8640 1305 2753 1 chr2A.!!$F1 1448
18 TraesCS5A01G307500 chr2A 744912651 744913478 827 True 1290.0 1290 94.8070 2938 3764 1 chr2A.!!$R1 826
19 TraesCS5A01G307500 chr2A 760774651 760776126 1475 True 1194.0 1194 81.6480 1305 2764 1 chr2A.!!$R2 1459
20 TraesCS5A01G307500 chr2B 773723168 773724626 1458 False 1328.0 1328 83.3900 1305 2753 1 chr2B.!!$F1 1448
21 TraesCS5A01G307500 chr4A 485276841 485277669 828 True 1308.0 1308 95.1750 2937 3764 1 chr4A.!!$R1 827
22 TraesCS5A01G307500 chr4A 26669377 26670172 795 False 750.0 750 83.7910 2937 3732 1 chr4A.!!$F1 795
23 TraesCS5A01G307500 chr6D 351118862 351119781 919 False 1037.0 1037 87.2730 5 921 1 chr6D.!!$F1 916
24 TraesCS5A01G307500 chr4D 440821990 440822794 804 True 785.0 785 84.4060 2937 3738 1 chr4D.!!$R1 801
25 TraesCS5A01G307500 chrUn 243392911 243393706 795 False 734.0 734 83.3960 2937 3732 1 chrUn.!!$F1 795
26 TraesCS5A01G307500 chrUn 267341308 267342109 801 True 734.0 734 83.2710 2937 3738 1 chrUn.!!$R1 801
27 TraesCS5A01G307500 chrUn 323770481 323771276 795 False 734.0 734 83.3960 2937 3732 1 chrUn.!!$F2 795
28 TraesCS5A01G307500 chrUn 323816752 323817553 801 True 734.0 734 83.2710 2937 3738 1 chrUn.!!$R2 801
29 TraesCS5A01G307500 chr7A 578979987 578980559 572 True 588.0 588 85.2690 347 920 1 chr7A.!!$R1 573

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
947 994 0.25064 AAGGTGAGCTCAGTTGCAGG 60.251 55.0 18.89 0.0 34.99 4.85 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2867 2976 0.039256 ACGCACTAAGCCGAAACGTA 60.039 50.0 0.0 0.0 41.38 3.57 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
142 145 7.736447 AACACAAACAATTTTGAAACCTGAA 57.264 28.000 4.18 0.00 44.38 3.02
143 146 7.736447 ACACAAACAATTTTGAAACCTGAAA 57.264 28.000 4.18 0.00 44.38 2.69
597 639 5.815740 TCTGGTTAAATATGTTCGCTCCTTC 59.184 40.000 0.00 0.00 0.00 3.46
613 655 1.798813 CCTTCCACTTGTCACTAACGC 59.201 52.381 0.00 0.00 0.00 4.84
626 668 4.802563 GTCACTAACGCTAATTAGGTGGAC 59.197 45.833 14.28 11.29 36.62 4.02
857 904 5.164620 TCAGTGTGCTGATTTCAAGGATA 57.835 39.130 0.00 0.00 45.94 2.59
870 917 2.158813 TCAAGGATATGAAGTTCGGGGC 60.159 50.000 0.00 0.00 0.00 5.80
945 992 2.057137 AAAAGGTGAGCTCAGTTGCA 57.943 45.000 18.89 0.00 34.99 4.08
946 993 1.602311 AAAGGTGAGCTCAGTTGCAG 58.398 50.000 18.89 0.00 34.99 4.41
947 994 0.250640 AAGGTGAGCTCAGTTGCAGG 60.251 55.000 18.89 0.00 34.99 4.85
948 995 2.331132 GGTGAGCTCAGTTGCAGGC 61.331 63.158 18.89 2.00 34.99 4.85
949 996 1.598962 GTGAGCTCAGTTGCAGGCA 60.599 57.895 18.89 0.00 34.99 4.75
950 997 1.598962 TGAGCTCAGTTGCAGGCAC 60.599 57.895 13.74 0.00 34.99 5.01
951 998 2.667536 AGCTCAGTTGCAGGCACG 60.668 61.111 0.00 0.00 34.99 5.34
979 1026 4.436998 AAGCCGCCTTCTCGTCCG 62.437 66.667 0.00 0.00 0.00 4.79
1051 1098 4.840005 GCCCCCTGACGCTGCTAC 62.840 72.222 0.00 0.00 0.00 3.58
1068 1115 2.292794 TACGATTCCTGGAGCGTGCC 62.293 60.000 26.51 3.88 37.56 5.01
1229 1276 3.728845 AGCTTAAGACGCTCAAGTTTGA 58.271 40.909 6.67 0.00 30.49 2.69
1244 1291 6.601332 TCAAGTTTGAGATTACAGGAGGTTT 58.399 36.000 0.00 0.00 32.50 3.27
1248 1295 7.387643 AGTTTGAGATTACAGGAGGTTTACTC 58.612 38.462 0.00 0.00 45.84 2.59
1402 1450 2.507102 ATCAACACGCGCCTCGAG 60.507 61.111 5.73 5.13 41.67 4.04
1463 1511 3.996744 CTCGTCTTCGTCGACCCGC 62.997 68.421 10.58 0.00 38.33 6.13
1574 1673 2.872925 CGGCGTTGACGTACGAGG 60.873 66.667 24.41 6.52 43.99 4.63
1656 1755 3.133003 CCGATGATCCTGAACTACACCTT 59.867 47.826 0.00 0.00 0.00 3.50
2062 2161 1.166531 GCTTCAAAGTCAGGCACGGT 61.167 55.000 0.00 0.00 0.00 4.83
2137 2236 4.704833 GACAAGCTGCCCGCCTCA 62.705 66.667 0.00 0.00 40.39 3.86
2601 2704 4.778415 CGGAGCTCGTGGGTCGTG 62.778 72.222 7.83 0.00 42.80 4.35
2676 2779 2.343758 GACGAGCTGCCCAAGACA 59.656 61.111 0.00 0.00 0.00 3.41
2694 2797 0.394216 CATCCACGGGCAAGATCCAA 60.394 55.000 0.00 0.00 0.00 3.53
2700 2803 3.016736 CACGGGCAAGATCCAAAAGTAT 58.983 45.455 0.00 0.00 0.00 2.12
2712 2815 3.016736 CCAAAAGTATGTGCTCCGGAAT 58.983 45.455 5.23 0.00 0.00 3.01
2734 2837 2.697644 CCAAGGAGATGGGGGCCT 60.698 66.667 0.84 0.00 36.79 5.19
2769 2878 3.091318 CAGCAAGATGTAGGGGCTG 57.909 57.895 0.00 0.00 44.91 4.85
2770 2879 1.099879 CAGCAAGATGTAGGGGCTGC 61.100 60.000 0.00 0.00 44.45 5.25
2771 2880 1.825622 GCAAGATGTAGGGGCTGCC 60.826 63.158 11.05 11.05 0.00 4.85
2772 2881 1.609239 CAAGATGTAGGGGCTGCCA 59.391 57.895 22.05 0.00 0.00 4.92
2773 2882 0.749454 CAAGATGTAGGGGCTGCCAC 60.749 60.000 22.05 18.62 0.00 5.01
2774 2883 2.203070 GATGTAGGGGCTGCCACG 60.203 66.667 22.05 0.00 28.26 4.94
2775 2884 2.687200 ATGTAGGGGCTGCCACGA 60.687 61.111 22.05 11.02 28.26 4.35
2776 2885 2.925162 GATGTAGGGGCTGCCACGAC 62.925 65.000 24.98 24.98 33.11 4.34
2777 2886 3.702048 GTAGGGGCTGCCACGACA 61.702 66.667 26.42 8.97 32.75 4.35
2778 2887 2.925706 TAGGGGCTGCCACGACAA 60.926 61.111 22.05 2.40 28.26 3.18
2779 2888 3.248446 TAGGGGCTGCCACGACAAC 62.248 63.158 22.05 0.11 28.26 3.32
2797 2906 1.059994 CGTACGTCGTCTTCCCTCG 59.940 63.158 7.22 0.00 34.52 4.63
2798 2907 1.226239 GTACGTCGTCTTCCCTCGC 60.226 63.158 0.00 0.00 0.00 5.03
2799 2908 1.376424 TACGTCGTCTTCCCTCGCT 60.376 57.895 0.00 0.00 0.00 4.93
2800 2909 0.957395 TACGTCGTCTTCCCTCGCTT 60.957 55.000 0.00 0.00 0.00 4.68
2801 2910 1.080705 CGTCGTCTTCCCTCGCTTT 60.081 57.895 0.00 0.00 0.00 3.51
2802 2911 0.666577 CGTCGTCTTCCCTCGCTTTT 60.667 55.000 0.00 0.00 0.00 2.27
2803 2912 1.401931 CGTCGTCTTCCCTCGCTTTTA 60.402 52.381 0.00 0.00 0.00 1.52
2804 2913 2.734492 CGTCGTCTTCCCTCGCTTTTAT 60.734 50.000 0.00 0.00 0.00 1.40
2805 2914 2.858941 GTCGTCTTCCCTCGCTTTTATC 59.141 50.000 0.00 0.00 0.00 1.75
2806 2915 2.758979 TCGTCTTCCCTCGCTTTTATCT 59.241 45.455 0.00 0.00 0.00 1.98
2807 2916 2.860735 CGTCTTCCCTCGCTTTTATCTG 59.139 50.000 0.00 0.00 0.00 2.90
2808 2917 2.609916 GTCTTCCCTCGCTTTTATCTGC 59.390 50.000 0.00 0.00 0.00 4.26
2809 2918 2.236146 TCTTCCCTCGCTTTTATCTGCA 59.764 45.455 0.00 0.00 0.00 4.41
2810 2919 3.118261 TCTTCCCTCGCTTTTATCTGCAT 60.118 43.478 0.00 0.00 0.00 3.96
2811 2920 2.564771 TCCCTCGCTTTTATCTGCATG 58.435 47.619 0.00 0.00 0.00 4.06
2812 2921 1.002033 CCCTCGCTTTTATCTGCATGC 60.002 52.381 11.82 11.82 0.00 4.06
2813 2922 1.672363 CCTCGCTTTTATCTGCATGCA 59.328 47.619 21.29 21.29 0.00 3.96
2814 2923 2.292569 CCTCGCTTTTATCTGCATGCAT 59.707 45.455 22.97 10.26 0.00 3.96
2815 2924 3.297472 CTCGCTTTTATCTGCATGCATG 58.703 45.455 22.97 22.70 0.00 4.06
2816 2925 2.033675 TCGCTTTTATCTGCATGCATGG 59.966 45.455 27.34 11.02 0.00 3.66
2817 2926 2.223641 CGCTTTTATCTGCATGCATGGT 60.224 45.455 27.34 13.99 0.00 3.55
2818 2927 3.003585 CGCTTTTATCTGCATGCATGGTA 59.996 43.478 27.34 12.95 0.00 3.25
2819 2928 4.320714 CGCTTTTATCTGCATGCATGGTAT 60.321 41.667 27.34 14.43 0.00 2.73
2820 2929 5.159209 GCTTTTATCTGCATGCATGGTATC 58.841 41.667 27.34 11.61 0.00 2.24
2821 2930 5.706916 CTTTTATCTGCATGCATGGTATCC 58.293 41.667 27.34 11.23 0.00 2.59
2822 2931 2.963599 ATCTGCATGCATGGTATCCA 57.036 45.000 27.34 15.13 38.19 3.41
2823 2932 2.963599 TCTGCATGCATGGTATCCAT 57.036 45.000 27.34 0.00 46.37 3.41
2824 2933 2.786777 TCTGCATGCATGGTATCCATC 58.213 47.619 27.34 9.08 43.15 3.51
2825 2934 2.374170 TCTGCATGCATGGTATCCATCT 59.626 45.455 27.34 0.00 43.15 2.90
2826 2935 2.747989 CTGCATGCATGGTATCCATCTC 59.252 50.000 27.34 7.66 43.15 2.75
2827 2936 2.106857 TGCATGCATGGTATCCATCTCA 59.893 45.455 27.34 10.18 43.15 3.27
2828 2937 2.747989 GCATGCATGGTATCCATCTCAG 59.252 50.000 27.34 0.00 43.15 3.35
2829 2938 3.344515 CATGCATGGTATCCATCTCAGG 58.655 50.000 19.40 0.00 43.15 3.86
2830 2939 2.693210 TGCATGGTATCCATCTCAGGA 58.307 47.619 0.00 0.00 43.15 3.86
2832 2941 3.262660 TGCATGGTATCCATCTCAGGATC 59.737 47.826 0.00 0.00 45.16 3.36
2833 2942 3.262660 GCATGGTATCCATCTCAGGATCA 59.737 47.826 0.00 0.00 45.16 2.92
2834 2943 4.263199 GCATGGTATCCATCTCAGGATCAA 60.263 45.833 0.00 0.00 45.16 2.57
2835 2944 4.963318 TGGTATCCATCTCAGGATCAAC 57.037 45.455 0.00 0.00 45.16 3.18
2836 2945 4.297768 TGGTATCCATCTCAGGATCAACA 58.702 43.478 0.00 0.00 45.16 3.33
2837 2946 4.346127 TGGTATCCATCTCAGGATCAACAG 59.654 45.833 0.00 0.00 45.16 3.16
2838 2947 4.346418 GGTATCCATCTCAGGATCAACAGT 59.654 45.833 0.00 0.00 45.16 3.55
2839 2948 4.686191 ATCCATCTCAGGATCAACAGTC 57.314 45.455 0.00 0.00 45.16 3.51
2840 2949 2.768527 TCCATCTCAGGATCAACAGTCC 59.231 50.000 0.00 0.00 35.94 3.85
2841 2950 2.482664 CCATCTCAGGATCAACAGTCCG 60.483 54.545 0.00 0.00 40.76 4.79
2842 2951 1.186200 TCTCAGGATCAACAGTCCGG 58.814 55.000 0.00 0.00 40.76 5.14
2843 2952 0.460987 CTCAGGATCAACAGTCCGGC 60.461 60.000 0.00 0.00 40.76 6.13
2844 2953 1.191489 TCAGGATCAACAGTCCGGCA 61.191 55.000 0.00 0.00 40.76 5.69
2845 2954 0.107508 CAGGATCAACAGTCCGGCAT 60.108 55.000 0.00 0.00 40.76 4.40
2846 2955 0.620556 AGGATCAACAGTCCGGCATT 59.379 50.000 0.00 0.00 40.76 3.56
2847 2956 1.837439 AGGATCAACAGTCCGGCATTA 59.163 47.619 0.00 0.00 40.76 1.90
2848 2957 2.439507 AGGATCAACAGTCCGGCATTAT 59.560 45.455 0.00 0.00 40.76 1.28
2849 2958 3.646162 AGGATCAACAGTCCGGCATTATA 59.354 43.478 0.00 0.00 40.76 0.98
2850 2959 4.102524 AGGATCAACAGTCCGGCATTATAA 59.897 41.667 0.00 0.00 40.76 0.98
2851 2960 4.819630 GGATCAACAGTCCGGCATTATAAA 59.180 41.667 0.00 0.00 0.00 1.40
2852 2961 5.473504 GGATCAACAGTCCGGCATTATAAAT 59.526 40.000 0.00 0.00 0.00 1.40
2853 2962 6.653320 GGATCAACAGTCCGGCATTATAAATA 59.347 38.462 0.00 0.00 0.00 1.40
2854 2963 7.174253 GGATCAACAGTCCGGCATTATAAATAA 59.826 37.037 0.00 0.00 0.00 1.40
2855 2964 7.867305 TCAACAGTCCGGCATTATAAATAAA 57.133 32.000 0.00 0.00 0.00 1.40
2856 2965 7.925993 TCAACAGTCCGGCATTATAAATAAAG 58.074 34.615 0.00 0.00 0.00 1.85
2857 2966 7.771361 TCAACAGTCCGGCATTATAAATAAAGA 59.229 33.333 0.00 0.00 0.00 2.52
2858 2967 8.402472 CAACAGTCCGGCATTATAAATAAAGAA 58.598 33.333 0.00 0.00 0.00 2.52
2859 2968 8.691661 ACAGTCCGGCATTATAAATAAAGAAT 57.308 30.769 0.00 0.00 0.00 2.40
2860 2969 8.567948 ACAGTCCGGCATTATAAATAAAGAATG 58.432 33.333 0.00 0.00 33.36 2.67
2861 2970 8.783093 CAGTCCGGCATTATAAATAAAGAATGA 58.217 33.333 0.00 0.00 32.16 2.57
2862 2971 9.349713 AGTCCGGCATTATAAATAAAGAATGAA 57.650 29.630 0.00 0.00 32.16 2.57
2863 2972 9.959749 GTCCGGCATTATAAATAAAGAATGAAA 57.040 29.630 0.00 0.00 32.16 2.69
2876 2985 9.769093 AATAAAGAATGAAAGATTACGTTTCGG 57.231 29.630 0.00 0.00 36.81 4.30
2877 2986 5.217895 AGAATGAAAGATTACGTTTCGGC 57.782 39.130 0.00 0.00 36.81 5.54
2878 2987 4.935808 AGAATGAAAGATTACGTTTCGGCT 59.064 37.500 0.00 0.00 36.81 5.52
2879 2988 5.411669 AGAATGAAAGATTACGTTTCGGCTT 59.588 36.000 0.00 0.00 36.81 4.35
2880 2989 6.592607 AGAATGAAAGATTACGTTTCGGCTTA 59.407 34.615 0.00 0.00 36.81 3.09
2881 2990 5.773239 TGAAAGATTACGTTTCGGCTTAG 57.227 39.130 0.00 0.00 36.81 2.18
2882 2991 5.232463 TGAAAGATTACGTTTCGGCTTAGT 58.768 37.500 0.00 0.00 36.81 2.24
2883 2992 5.119588 TGAAAGATTACGTTTCGGCTTAGTG 59.880 40.000 0.00 0.00 36.81 2.74
2884 2993 2.928116 AGATTACGTTTCGGCTTAGTGC 59.072 45.455 0.00 0.00 41.94 4.40
2885 2994 1.062258 TTACGTTTCGGCTTAGTGCG 58.938 50.000 0.00 0.00 44.05 5.34
2886 2995 0.039256 TACGTTTCGGCTTAGTGCGT 60.039 50.000 0.00 0.00 44.05 5.24
2887 2996 1.129809 CGTTTCGGCTTAGTGCGTG 59.870 57.895 0.00 0.00 44.05 5.34
2888 2997 1.279527 CGTTTCGGCTTAGTGCGTGA 61.280 55.000 0.00 0.00 44.05 4.35
2889 2998 1.076332 GTTTCGGCTTAGTGCGTGAT 58.924 50.000 0.00 0.00 44.05 3.06
2890 2999 1.075542 TTTCGGCTTAGTGCGTGATG 58.924 50.000 0.00 0.00 44.05 3.07
2891 3000 0.245266 TTCGGCTTAGTGCGTGATGA 59.755 50.000 0.00 0.00 44.05 2.92
2892 3001 0.459899 TCGGCTTAGTGCGTGATGAT 59.540 50.000 0.00 0.00 44.05 2.45
2893 3002 0.855349 CGGCTTAGTGCGTGATGATC 59.145 55.000 0.00 0.00 44.05 2.92
2894 3003 0.855349 GGCTTAGTGCGTGATGATCG 59.145 55.000 0.00 0.00 44.05 3.69
2895 3004 0.855349 GCTTAGTGCGTGATGATCGG 59.145 55.000 0.00 0.00 0.00 4.18
2896 3005 0.855349 CTTAGTGCGTGATGATCGGC 59.145 55.000 1.86 1.86 0.00 5.54
2897 3006 0.529773 TTAGTGCGTGATGATCGGCC 60.530 55.000 0.00 0.00 0.00 6.13
2898 3007 2.363711 TAGTGCGTGATGATCGGCCC 62.364 60.000 0.00 0.00 0.00 5.80
2899 3008 3.469970 TGCGTGATGATCGGCCCT 61.470 61.111 0.00 0.00 0.00 5.19
2900 3009 2.203070 GCGTGATGATCGGCCCTT 60.203 61.111 0.00 0.00 0.00 3.95
2901 3010 2.537560 GCGTGATGATCGGCCCTTG 61.538 63.158 0.00 0.00 0.00 3.61
2902 3011 2.537560 CGTGATGATCGGCCCTTGC 61.538 63.158 0.00 0.00 0.00 4.01
2903 3012 1.153086 GTGATGATCGGCCCTTGCT 60.153 57.895 0.00 0.00 37.74 3.91
2904 3013 1.153107 TGATGATCGGCCCTTGCTG 60.153 57.895 0.00 0.00 45.75 4.41
2911 3020 2.825836 GGCCCTTGCTGATCACGG 60.826 66.667 0.00 0.00 37.74 4.94
2912 3021 2.045926 GCCCTTGCTGATCACGGT 60.046 61.111 0.00 0.00 32.54 4.83
2913 3022 1.220749 GCCCTTGCTGATCACGGTA 59.779 57.895 0.00 0.00 32.54 4.02
2914 3023 0.392461 GCCCTTGCTGATCACGGTAA 60.392 55.000 0.00 0.00 32.54 2.85
2915 3024 1.948611 GCCCTTGCTGATCACGGTAAA 60.949 52.381 0.00 0.00 32.54 2.01
2916 3025 2.432444 CCCTTGCTGATCACGGTAAAA 58.568 47.619 0.00 0.00 32.54 1.52
2917 3026 3.016736 CCCTTGCTGATCACGGTAAAAT 58.983 45.455 0.00 0.00 32.54 1.82
2918 3027 4.196193 CCCTTGCTGATCACGGTAAAATA 58.804 43.478 0.00 0.00 32.54 1.40
2919 3028 4.638421 CCCTTGCTGATCACGGTAAAATAA 59.362 41.667 0.00 0.00 32.54 1.40
2920 3029 5.124776 CCCTTGCTGATCACGGTAAAATAAA 59.875 40.000 0.00 0.00 32.54 1.40
2921 3030 6.349777 CCCTTGCTGATCACGGTAAAATAAAA 60.350 38.462 0.00 0.00 32.54 1.52
2922 3031 6.526674 CCTTGCTGATCACGGTAAAATAAAAC 59.473 38.462 0.00 0.00 30.03 2.43
2923 3032 6.561737 TGCTGATCACGGTAAAATAAAACA 57.438 33.333 0.00 0.00 0.00 2.83
2924 3033 6.971602 TGCTGATCACGGTAAAATAAAACAA 58.028 32.000 0.00 0.00 0.00 2.83
2925 3034 7.426410 TGCTGATCACGGTAAAATAAAACAAA 58.574 30.769 0.00 0.00 0.00 2.83
2926 3035 8.085296 TGCTGATCACGGTAAAATAAAACAAAT 58.915 29.630 0.00 0.00 0.00 2.32
2927 3036 9.562583 GCTGATCACGGTAAAATAAAACAAATA 57.437 29.630 0.00 0.00 0.00 1.40
3119 3228 1.008995 GCCGCGTCACAACAAATGT 60.009 52.632 4.92 0.00 45.34 2.71
3221 3334 1.068250 GTGGATAGCAGGACTCGGC 59.932 63.158 0.00 0.00 0.00 5.54
3283 3396 1.526686 TGCATAGCGCCCATGAAGG 60.527 57.895 20.48 0.00 41.33 3.46
3344 3457 0.846693 ACCCAAGCCAAGTCTTCACT 59.153 50.000 0.00 0.00 0.00 3.41
3453 3566 2.171448 CCCGATCAAGAAAGGGAGATGT 59.829 50.000 7.25 0.00 46.64 3.06
3499 3612 0.249573 GAGGAAAACGACACCCACGA 60.250 55.000 0.00 0.00 34.70 4.35
3700 3817 0.688487 GTACCACCAACCAGCACCTA 59.312 55.000 0.00 0.00 0.00 3.08
3757 3874 3.536917 CGCCGCCCAGATCCACTA 61.537 66.667 0.00 0.00 0.00 2.74
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
327 356 6.145209 TGCATGAACCATTTAAACGTGATTTG 59.855 34.615 0.00 0.00 0.00 2.32
371 404 5.293079 ACATTTTCAAACGTGACCATTTTGG 59.707 36.000 0.00 0.00 45.02 3.28
553 595 5.866633 CCAGAGTAATTAGCATCGAGATTCC 59.133 44.000 0.00 0.00 0.00 3.01
597 639 5.291128 CCTAATTAGCGTTAGTGACAAGTGG 59.709 44.000 6.99 0.00 31.24 4.00
613 655 5.334724 ACGTAACCAGTCCACCTAATTAG 57.665 43.478 5.43 5.43 0.00 1.73
626 668 2.660236 GCTAAACTCACGACGTAACCAG 59.340 50.000 0.00 0.00 0.00 4.00
837 884 5.748402 TCATATCCTTGAAATCAGCACACT 58.252 37.500 0.00 0.00 0.00 3.55
857 904 3.708210 TCGAGCCCCGAACTTCAT 58.292 55.556 0.00 0.00 45.43 2.57
870 917 7.763172 ACTTGTAGATCAAAGCTAAATCGAG 57.237 36.000 0.00 0.00 35.48 4.04
929 976 1.374190 CCTGCAACTGAGCTCACCT 59.626 57.895 13.74 0.00 34.99 4.00
930 977 2.331132 GCCTGCAACTGAGCTCACC 61.331 63.158 13.74 2.17 34.99 4.02
931 978 1.598962 TGCCTGCAACTGAGCTCAC 60.599 57.895 13.74 3.41 34.99 3.51
932 979 1.598962 GTGCCTGCAACTGAGCTCA 60.599 57.895 17.19 17.19 34.99 4.26
933 980 2.675056 CGTGCCTGCAACTGAGCTC 61.675 63.158 6.82 6.82 34.99 4.09
934 981 2.460662 ATCGTGCCTGCAACTGAGCT 62.461 55.000 0.00 0.00 34.99 4.09
935 982 2.037136 ATCGTGCCTGCAACTGAGC 61.037 57.895 0.00 0.00 0.00 4.26
936 983 1.642037 CCATCGTGCCTGCAACTGAG 61.642 60.000 0.00 0.00 0.00 3.35
937 984 1.672030 CCATCGTGCCTGCAACTGA 60.672 57.895 0.00 0.00 0.00 3.41
938 985 1.236616 TTCCATCGTGCCTGCAACTG 61.237 55.000 0.00 0.00 0.00 3.16
939 986 0.537143 TTTCCATCGTGCCTGCAACT 60.537 50.000 0.00 0.00 0.00 3.16
940 987 0.109597 CTTTCCATCGTGCCTGCAAC 60.110 55.000 0.00 0.00 0.00 4.17
941 988 1.865788 GCTTTCCATCGTGCCTGCAA 61.866 55.000 0.00 0.00 0.00 4.08
942 989 2.334946 GCTTTCCATCGTGCCTGCA 61.335 57.895 0.00 0.00 0.00 4.41
943 990 2.486966 GCTTTCCATCGTGCCTGC 59.513 61.111 0.00 0.00 0.00 4.85
944 991 1.243342 TTGGCTTTCCATCGTGCCTG 61.243 55.000 0.00 0.00 45.11 4.85
945 992 0.962356 CTTGGCTTTCCATCGTGCCT 60.962 55.000 0.00 0.00 45.11 4.75
946 993 1.508088 CTTGGCTTTCCATCGTGCC 59.492 57.895 0.00 0.00 43.05 5.01
947 994 1.153958 GCTTGGCTTTCCATCGTGC 60.154 57.895 0.00 0.00 43.05 5.34
948 995 1.508088 GGCTTGGCTTTCCATCGTG 59.492 57.895 0.00 0.00 43.05 4.35
949 996 2.040544 CGGCTTGGCTTTCCATCGT 61.041 57.895 0.00 0.00 43.05 3.73
950 997 2.793946 CGGCTTGGCTTTCCATCG 59.206 61.111 0.00 0.00 43.05 3.84
951 998 2.491621 GCGGCTTGGCTTTCCATC 59.508 61.111 0.00 0.00 43.05 3.51
967 1014 2.417936 GGATCCGGACGAGAAGGC 59.582 66.667 6.12 0.00 0.00 4.35
968 1015 2.722487 CGGATCCGGACGAGAAGG 59.278 66.667 26.95 0.00 35.56 3.46
979 1026 4.933064 CGTCGAGCTGCCGGATCC 62.933 72.222 5.05 0.00 0.00 3.36
988 1035 1.320344 TTAGTCATGGCCGTCGAGCT 61.320 55.000 0.00 0.00 0.00 4.09
1046 1093 1.320344 ACGCTCCAGGAATCGTAGCA 61.320 55.000 13.22 0.00 33.02 3.49
1051 1098 2.892425 GGCACGCTCCAGGAATCG 60.892 66.667 8.77 8.77 0.00 3.34
1119 1166 0.617820 GGAAGGTCTGGCTCCAGGTA 60.618 60.000 15.32 0.00 43.75 3.08
1199 1246 4.142447 TGAGCGTCTTAAGCTTCTTACGAT 60.142 41.667 23.51 19.58 46.13 3.73
1200 1247 3.189910 TGAGCGTCTTAAGCTTCTTACGA 59.810 43.478 23.51 7.16 46.13 3.43
1201 1248 3.499048 TGAGCGTCTTAAGCTTCTTACG 58.501 45.455 17.98 17.98 46.13 3.18
1202 1249 4.924462 ACTTGAGCGTCTTAAGCTTCTTAC 59.076 41.667 0.00 0.00 46.13 2.34
1229 1276 6.875972 ATGTGAGTAAACCTCCTGTAATCT 57.124 37.500 0.00 0.00 39.65 2.40
1281 1329 8.035394 ACACATAGTTCAGTTCGTGAGATAATT 58.965 33.333 0.00 0.00 41.60 1.40
1289 1337 2.661675 CGGACACATAGTTCAGTTCGTG 59.338 50.000 0.00 0.00 0.00 4.35
1360 1408 4.615815 AGGATGGCGCCGCTCATC 62.616 66.667 23.90 23.55 36.35 2.92
1373 1421 2.226437 GCGTGTTGATGTTGTTCAGGAT 59.774 45.455 0.00 0.00 0.00 3.24
1574 1673 2.694760 CGCCTTTCTCAAGCAGCCC 61.695 63.158 0.00 0.00 0.00 5.19
2062 2161 2.260434 GTCTCGCACAGCCCGTAA 59.740 61.111 0.00 0.00 0.00 3.18
2283 2382 1.346722 CCTTGTCGTTGAAGTACCCCT 59.653 52.381 0.00 0.00 0.00 4.79
2560 2663 1.448013 GTCAGCTCGCCCCTACAAC 60.448 63.158 0.00 0.00 0.00 3.32
2676 2779 0.331278 TTTGGATCTTGCCCGTGGAT 59.669 50.000 0.00 0.00 0.00 3.41
2694 2797 4.307432 CGATATTCCGGAGCACATACTTT 58.693 43.478 3.34 0.00 0.00 2.66
2700 2803 1.069090 GGCGATATTCCGGAGCACA 59.931 57.895 13.90 0.00 0.00 4.57
2712 2815 1.127567 CCCCCATCTCCTTGGCGATA 61.128 60.000 0.00 0.00 35.29 2.92
2780 2889 1.226239 GCGAGGGAAGACGACGTAC 60.226 63.158 0.00 0.00 0.00 3.67
2781 2890 0.957395 AAGCGAGGGAAGACGACGTA 60.957 55.000 0.00 0.00 0.00 3.57
2782 2891 1.803366 AAAGCGAGGGAAGACGACGT 61.803 55.000 0.00 0.00 0.00 4.34
2783 2892 0.666577 AAAAGCGAGGGAAGACGACG 60.667 55.000 0.00 0.00 0.00 5.12
2784 2893 2.358939 TAAAAGCGAGGGAAGACGAC 57.641 50.000 0.00 0.00 0.00 4.34
2785 2894 2.758979 AGATAAAAGCGAGGGAAGACGA 59.241 45.455 0.00 0.00 0.00 4.20
2786 2895 2.860735 CAGATAAAAGCGAGGGAAGACG 59.139 50.000 0.00 0.00 0.00 4.18
2787 2896 2.609916 GCAGATAAAAGCGAGGGAAGAC 59.390 50.000 0.00 0.00 0.00 3.01
2788 2897 2.236146 TGCAGATAAAAGCGAGGGAAGA 59.764 45.455 0.00 0.00 0.00 2.87
2789 2898 2.632377 TGCAGATAAAAGCGAGGGAAG 58.368 47.619 0.00 0.00 0.00 3.46
2790 2899 2.779755 TGCAGATAAAAGCGAGGGAA 57.220 45.000 0.00 0.00 0.00 3.97
2791 2900 2.564771 CATGCAGATAAAAGCGAGGGA 58.435 47.619 0.00 0.00 0.00 4.20
2792 2901 1.002033 GCATGCAGATAAAAGCGAGGG 60.002 52.381 14.21 0.00 0.00 4.30
2793 2902 1.672363 TGCATGCAGATAAAAGCGAGG 59.328 47.619 18.46 0.00 0.00 4.63
2794 2903 3.297472 CATGCATGCAGATAAAAGCGAG 58.703 45.455 26.69 0.31 0.00 5.03
2795 2904 2.033675 CCATGCATGCAGATAAAAGCGA 59.966 45.455 26.69 0.00 0.00 4.93
2796 2905 2.223641 ACCATGCATGCAGATAAAAGCG 60.224 45.455 26.69 5.45 0.00 4.68
2797 2906 3.447918 ACCATGCATGCAGATAAAAGC 57.552 42.857 26.69 0.00 0.00 3.51
2798 2907 5.242171 TGGATACCATGCATGCAGATAAAAG 59.758 40.000 26.69 11.02 0.00 2.27
2799 2908 5.139001 TGGATACCATGCATGCAGATAAAA 58.861 37.500 26.69 9.43 0.00 1.52
2800 2909 4.727677 TGGATACCATGCATGCAGATAAA 58.272 39.130 26.69 10.52 0.00 1.40
2801 2910 4.370094 TGGATACCATGCATGCAGATAA 57.630 40.909 26.69 11.98 0.00 1.75
2802 2911 4.226620 AGATGGATACCATGCATGCAGATA 59.773 41.667 26.69 17.26 45.26 1.98
2803 2912 2.963599 TGGATACCATGCATGCAGAT 57.036 45.000 26.69 15.66 0.00 2.90
2804 2913 2.374170 AGATGGATACCATGCATGCAGA 59.626 45.455 26.69 11.44 45.26 4.26
2805 2914 2.747989 GAGATGGATACCATGCATGCAG 59.252 50.000 26.69 15.79 45.26 4.41
2806 2915 2.106857 TGAGATGGATACCATGCATGCA 59.893 45.455 25.04 25.04 45.26 3.96
2807 2916 2.747989 CTGAGATGGATACCATGCATGC 59.252 50.000 21.69 11.82 45.26 4.06
2808 2917 3.008704 TCCTGAGATGGATACCATGCATG 59.991 47.826 20.19 20.19 45.26 4.06
2809 2918 3.254089 TCCTGAGATGGATACCATGCAT 58.746 45.455 8.06 0.00 45.26 3.96
2810 2919 2.693210 TCCTGAGATGGATACCATGCA 58.307 47.619 8.06 0.00 45.26 3.96
2811 2920 3.262660 TGATCCTGAGATGGATACCATGC 59.737 47.826 8.06 1.39 45.26 4.06
2812 2921 5.221783 TGTTGATCCTGAGATGGATACCATG 60.222 44.000 8.06 0.00 45.26 3.66
2814 2923 4.297768 TGTTGATCCTGAGATGGATACCA 58.702 43.478 0.00 0.00 46.00 3.25
2815 2924 4.346418 ACTGTTGATCCTGAGATGGATACC 59.654 45.833 0.00 0.00 46.00 2.73
2816 2925 5.510520 GGACTGTTGATCCTGAGATGGATAC 60.511 48.000 0.00 0.00 46.00 2.24
2817 2926 4.590647 GGACTGTTGATCCTGAGATGGATA 59.409 45.833 0.00 0.00 46.00 2.59
2819 2928 2.768527 GGACTGTTGATCCTGAGATGGA 59.231 50.000 0.00 0.00 40.82 3.41
2820 2929 2.482664 CGGACTGTTGATCCTGAGATGG 60.483 54.545 0.00 0.00 33.70 3.51
2821 2930 2.482664 CCGGACTGTTGATCCTGAGATG 60.483 54.545 0.00 0.00 33.70 2.90
2822 2931 1.759445 CCGGACTGTTGATCCTGAGAT 59.241 52.381 0.00 0.00 33.70 2.75
2823 2932 1.186200 CCGGACTGTTGATCCTGAGA 58.814 55.000 0.00 0.00 33.70 3.27
2824 2933 0.460987 GCCGGACTGTTGATCCTGAG 60.461 60.000 5.05 0.00 33.70 3.35
2825 2934 1.191489 TGCCGGACTGTTGATCCTGA 61.191 55.000 5.05 0.00 33.70 3.86
2826 2935 0.107508 ATGCCGGACTGTTGATCCTG 60.108 55.000 5.05 0.00 33.70 3.86
2827 2936 0.620556 AATGCCGGACTGTTGATCCT 59.379 50.000 5.05 0.00 33.70 3.24
2828 2937 2.325583 TAATGCCGGACTGTTGATCC 57.674 50.000 5.05 0.00 0.00 3.36
2829 2938 6.560253 ATTTATAATGCCGGACTGTTGATC 57.440 37.500 5.05 0.00 0.00 2.92
2830 2939 8.458573 TTTATTTATAATGCCGGACTGTTGAT 57.541 30.769 5.05 0.00 0.00 2.57
2831 2940 7.771361 TCTTTATTTATAATGCCGGACTGTTGA 59.229 33.333 5.05 0.00 0.00 3.18
2832 2941 7.925993 TCTTTATTTATAATGCCGGACTGTTG 58.074 34.615 5.05 0.00 0.00 3.33
2833 2942 8.514330 TTCTTTATTTATAATGCCGGACTGTT 57.486 30.769 5.05 0.00 0.00 3.16
2834 2943 8.567948 CATTCTTTATTTATAATGCCGGACTGT 58.432 33.333 5.05 0.00 0.00 3.55
2835 2944 8.783093 TCATTCTTTATTTATAATGCCGGACTG 58.217 33.333 5.05 0.00 30.99 3.51
2836 2945 8.918202 TCATTCTTTATTTATAATGCCGGACT 57.082 30.769 5.05 0.00 30.99 3.85
2837 2946 9.959749 TTTCATTCTTTATTTATAATGCCGGAC 57.040 29.630 5.05 0.00 30.99 4.79
2850 2959 9.769093 CCGAAACGTAATCTTTCATTCTTTATT 57.231 29.630 0.00 0.00 0.00 1.40
2851 2960 7.908601 GCCGAAACGTAATCTTTCATTCTTTAT 59.091 33.333 0.00 0.00 0.00 1.40
2852 2961 7.118680 AGCCGAAACGTAATCTTTCATTCTTTA 59.881 33.333 0.00 0.00 0.00 1.85
2853 2962 6.072673 AGCCGAAACGTAATCTTTCATTCTTT 60.073 34.615 0.00 0.00 0.00 2.52
2854 2963 5.411669 AGCCGAAACGTAATCTTTCATTCTT 59.588 36.000 0.00 0.00 0.00 2.52
2855 2964 4.935808 AGCCGAAACGTAATCTTTCATTCT 59.064 37.500 0.00 0.00 0.00 2.40
2856 2965 5.217895 AGCCGAAACGTAATCTTTCATTC 57.782 39.130 0.00 0.00 0.00 2.67
2857 2966 5.622770 AAGCCGAAACGTAATCTTTCATT 57.377 34.783 0.00 0.00 0.00 2.57
2858 2967 5.873164 ACTAAGCCGAAACGTAATCTTTCAT 59.127 36.000 0.00 0.00 0.00 2.57
2859 2968 5.119588 CACTAAGCCGAAACGTAATCTTTCA 59.880 40.000 0.00 0.00 0.00 2.69
2860 2969 5.548250 CACTAAGCCGAAACGTAATCTTTC 58.452 41.667 0.00 0.00 0.00 2.62
2861 2970 4.142966 GCACTAAGCCGAAACGTAATCTTT 60.143 41.667 0.00 0.00 37.23 2.52
2862 2971 3.370061 GCACTAAGCCGAAACGTAATCTT 59.630 43.478 0.00 0.00 37.23 2.40
2863 2972 2.928116 GCACTAAGCCGAAACGTAATCT 59.072 45.455 0.00 0.00 37.23 2.40
2864 2973 2.284855 CGCACTAAGCCGAAACGTAATC 60.285 50.000 0.00 0.00 41.38 1.75
2865 2974 1.657094 CGCACTAAGCCGAAACGTAAT 59.343 47.619 0.00 0.00 41.38 1.89
2866 2975 1.062258 CGCACTAAGCCGAAACGTAA 58.938 50.000 0.00 0.00 41.38 3.18
2867 2976 0.039256 ACGCACTAAGCCGAAACGTA 60.039 50.000 0.00 0.00 41.38 3.57
2868 2977 1.300388 ACGCACTAAGCCGAAACGT 60.300 52.632 0.00 0.00 41.38 3.99
2869 2978 1.129809 CACGCACTAAGCCGAAACG 59.870 57.895 0.00 0.00 41.38 3.60
2870 2979 1.076332 ATCACGCACTAAGCCGAAAC 58.924 50.000 0.00 0.00 41.38 2.78
2871 2980 1.075542 CATCACGCACTAAGCCGAAA 58.924 50.000 0.00 0.00 41.38 3.46
2872 2981 0.245266 TCATCACGCACTAAGCCGAA 59.755 50.000 0.00 0.00 41.38 4.30
2873 2982 0.459899 ATCATCACGCACTAAGCCGA 59.540 50.000 0.00 0.00 41.38 5.54
2874 2983 0.855349 GATCATCACGCACTAAGCCG 59.145 55.000 0.00 0.00 41.38 5.52
2875 2984 0.855349 CGATCATCACGCACTAAGCC 59.145 55.000 0.00 0.00 41.38 4.35
2876 2985 0.855349 CCGATCATCACGCACTAAGC 59.145 55.000 0.00 0.00 40.87 3.09
2877 2986 0.855349 GCCGATCATCACGCACTAAG 59.145 55.000 0.00 0.00 0.00 2.18
2878 2987 0.529773 GGCCGATCATCACGCACTAA 60.530 55.000 0.00 0.00 0.00 2.24
2879 2988 1.067416 GGCCGATCATCACGCACTA 59.933 57.895 0.00 0.00 0.00 2.74
2880 2989 2.202932 GGCCGATCATCACGCACT 60.203 61.111 0.00 0.00 0.00 4.40
2881 2990 3.272334 GGGCCGATCATCACGCAC 61.272 66.667 0.00 0.00 0.00 5.34
2882 2991 3.030168 AAGGGCCGATCATCACGCA 62.030 57.895 0.00 0.00 0.00 5.24
2883 2992 2.203070 AAGGGCCGATCATCACGC 60.203 61.111 0.00 0.00 0.00 5.34
2884 2993 2.537560 GCAAGGGCCGATCATCACG 61.538 63.158 0.00 0.00 0.00 4.35
2885 2994 1.153086 AGCAAGGGCCGATCATCAC 60.153 57.895 0.00 0.00 42.56 3.06
2886 2995 1.153107 CAGCAAGGGCCGATCATCA 60.153 57.895 0.00 0.00 42.56 3.07
2887 2996 0.250640 ATCAGCAAGGGCCGATCATC 60.251 55.000 0.00 0.00 42.56 2.92
2888 2997 1.842007 ATCAGCAAGGGCCGATCAT 59.158 52.632 0.00 0.00 42.56 2.45
2889 2998 3.323622 ATCAGCAAGGGCCGATCA 58.676 55.556 0.00 0.00 42.56 2.92
2890 2999 4.055654 GATCAGCAAGGGCCGATC 57.944 61.111 0.00 0.00 44.24 3.69
2891 3000 1.153086 GTGATCAGCAAGGGCCGAT 60.153 57.895 0.00 0.00 39.82 4.18
2892 3001 2.268920 GTGATCAGCAAGGGCCGA 59.731 61.111 0.00 0.00 42.56 5.54
2893 3002 3.197790 CGTGATCAGCAAGGGCCG 61.198 66.667 0.00 0.00 42.56 6.13
2894 3003 2.825836 CCGTGATCAGCAAGGGCC 60.826 66.667 0.00 0.00 41.78 5.80
2898 3007 7.081349 TGTTTTATTTTACCGTGATCAGCAAG 58.919 34.615 0.00 0.00 0.00 4.01
2899 3008 6.971602 TGTTTTATTTTACCGTGATCAGCAA 58.028 32.000 0.00 0.00 0.00 3.91
2900 3009 6.561737 TGTTTTATTTTACCGTGATCAGCA 57.438 33.333 0.00 0.00 0.00 4.41
2901 3010 7.861176 TTTGTTTTATTTTACCGTGATCAGC 57.139 32.000 0.00 0.00 0.00 4.26
3014 3123 4.430137 TCGAGCTACACTTGTTATTCGT 57.570 40.909 0.00 0.00 0.00 3.85
3019 3128 3.570975 TGGAGTTCGAGCTACACTTGTTA 59.429 43.478 10.54 0.00 0.00 2.41
3119 3228 2.994995 TTGCTTCGAGGAGGCCGA 60.995 61.111 0.00 0.00 33.61 5.54
3187 3300 1.587054 CACTCGCCGTCTCCTCTTT 59.413 57.895 0.00 0.00 0.00 2.52
3221 3334 3.622060 ATGGCTTTCACGGGTCCGG 62.622 63.158 14.25 0.00 44.69 5.14
3283 3396 3.482783 GCCGCTGTTCGAGCTGAC 61.483 66.667 10.28 0.00 46.64 3.51
3309 3422 3.655615 TGGGTACTGTTTGTGGTTCTT 57.344 42.857 0.00 0.00 0.00 2.52
3344 3457 4.265904 TCCTCTGTTGAAAGTATCGCAA 57.734 40.909 0.00 0.00 0.00 4.85
3351 3464 2.470821 CGTCGTTCCTCTGTTGAAAGT 58.529 47.619 0.00 0.00 0.00 2.66
3354 3467 0.599204 GGCGTCGTTCCTCTGTTGAA 60.599 55.000 0.00 0.00 0.00 2.69
3453 3566 4.634133 GTCGCCGTGGTGTGTCGA 62.634 66.667 0.00 0.00 0.00 4.20
3618 3733 2.202932 ATCACGATGGCGAGGTGC 60.203 61.111 0.00 0.00 45.38 5.01
3700 3817 0.462789 AAGTGTTCCTTCGACCGTGT 59.537 50.000 0.00 0.00 0.00 4.49


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

AutoCloner maintained by Alex Coulton.