Multiple sequence alignment - TraesCS2D01G022400

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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 TraesCS2D01G022400 chr2D 100.000 3371 0 0 1 3371 10221594 10218224 0.000000e+00 6226
1 TraesCS2D01G022400 chr2D 84.541 1766 174 51 985 2693 19555719 19557442 0.000000e+00 1657
2 TraesCS2D01G022400 chr2D 94.314 897 36 12 1 892 539164437 539165323 0.000000e+00 1360
3 TraesCS2D01G022400 chr2D 87.739 261 23 8 2703 2960 172409406 172409660 2.540000e-76 296
4 TraesCS2D01G022400 chrUn 92.845 2348 107 22 890 3211 12288593 12286281 0.000000e+00 3349
5 TraesCS2D01G022400 chrUn 80.000 1250 204 30 1040 2275 150935576 150934359 0.000000e+00 881
6 TraesCS2D01G022400 chrUn 79.277 1245 203 32 1040 2275 150896582 150895384 0.000000e+00 819
7 TraesCS2D01G022400 chrUn 83.312 785 81 27 1635 2406 3510691 3509944 0.000000e+00 678
8 TraesCS2D01G022400 chrUn 86.179 492 56 4 1119 1610 3511166 3510687 3.850000e-144 521
9 TraesCS2D01G022400 chr3D 83.664 1763 176 55 985 2693 589673223 589671519 0.000000e+00 1557
10 TraesCS2D01G022400 chr1B 85.080 1441 147 35 985 2406 44799686 44801077 0.000000e+00 1408
11 TraesCS2D01G022400 chr7D 94.407 894 41 6 4 893 568365876 568364988 0.000000e+00 1365
12 TraesCS2D01G022400 chr7D 94.576 885 35 10 4 883 56286309 56285433 0.000000e+00 1356
13 TraesCS2D01G022400 chr7D 94.164 891 41 8 4 891 554422441 554421559 0.000000e+00 1347
14 TraesCS2D01G022400 chr1D 94.476 887 40 6 1 884 489982297 489983177 0.000000e+00 1358
15 TraesCS2D01G022400 chr1D 86.590 261 26 8 2705 2960 493485852 493486108 2.560000e-71 279
16 TraesCS2D01G022400 chr4D 94.395 892 35 11 1 885 483163927 483164810 0.000000e+00 1356
17 TraesCS2D01G022400 chr4D 94.170 892 37 11 1 885 483156131 483157014 0.000000e+00 1345
18 TraesCS2D01G022400 chr4D 93.882 899 35 17 4 895 35124589 35123704 0.000000e+00 1338
19 TraesCS2D01G022400 chr4D 94.045 890 39 11 1 885 40799064 40799944 0.000000e+00 1338
20 TraesCS2D01G022400 chr4D 85.878 262 31 6 2703 2960 416060704 416060963 1.190000e-69 274
21 TraesCS2D01G022400 chr2A 83.486 1417 191 24 1001 2411 10486796 10485417 0.000000e+00 1280
22 TraesCS2D01G022400 chr2A 85.985 264 31 6 2703 2963 177658672 177658412 9.210000e-71 278
23 TraesCS2D01G022400 chr2B 82.232 1407 199 25 1009 2405 4493317 4494682 0.000000e+00 1166
24 TraesCS2D01G022400 chr2B 87.121 264 26 8 2703 2963 225571630 225571372 3.290000e-75 292
25 TraesCS2D01G022400 chr2B 80.069 291 43 11 1882 2158 38731794 38731505 5.700000e-48 202
26 TraesCS2D01G022400 chr1A 85.932 263 28 9 2703 2960 591612990 591613248 4.290000e-69 272
27 TraesCS2D01G022400 chr7A 85.551 263 32 6 2703 2960 163128932 163129193 1.540000e-68 270
28 TraesCS2D01G022400 chr5B 85.385 260 30 5 2703 2959 327083534 327083788 2.580000e-66 263


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 TraesCS2D01G022400 chr2D 10218224 10221594 3370 True 6226.0 6226 100.0000 1 3371 1 chr2D.!!$R1 3370
1 TraesCS2D01G022400 chr2D 19555719 19557442 1723 False 1657.0 1657 84.5410 985 2693 1 chr2D.!!$F1 1708
2 TraesCS2D01G022400 chr2D 539164437 539165323 886 False 1360.0 1360 94.3140 1 892 1 chr2D.!!$F3 891
3 TraesCS2D01G022400 chrUn 12286281 12288593 2312 True 3349.0 3349 92.8450 890 3211 1 chrUn.!!$R1 2321
4 TraesCS2D01G022400 chrUn 150934359 150935576 1217 True 881.0 881 80.0000 1040 2275 1 chrUn.!!$R3 1235
5 TraesCS2D01G022400 chrUn 150895384 150896582 1198 True 819.0 819 79.2770 1040 2275 1 chrUn.!!$R2 1235
6 TraesCS2D01G022400 chrUn 3509944 3511166 1222 True 599.5 678 84.7455 1119 2406 2 chrUn.!!$R4 1287
7 TraesCS2D01G022400 chr3D 589671519 589673223 1704 True 1557.0 1557 83.6640 985 2693 1 chr3D.!!$R1 1708
8 TraesCS2D01G022400 chr1B 44799686 44801077 1391 False 1408.0 1408 85.0800 985 2406 1 chr1B.!!$F1 1421
9 TraesCS2D01G022400 chr7D 568364988 568365876 888 True 1365.0 1365 94.4070 4 893 1 chr7D.!!$R3 889
10 TraesCS2D01G022400 chr7D 56285433 56286309 876 True 1356.0 1356 94.5760 4 883 1 chr7D.!!$R1 879
11 TraesCS2D01G022400 chr7D 554421559 554422441 882 True 1347.0 1347 94.1640 4 891 1 chr7D.!!$R2 887
12 TraesCS2D01G022400 chr1D 489982297 489983177 880 False 1358.0 1358 94.4760 1 884 1 chr1D.!!$F1 883
13 TraesCS2D01G022400 chr4D 483163927 483164810 883 False 1356.0 1356 94.3950 1 885 1 chr4D.!!$F4 884
14 TraesCS2D01G022400 chr4D 483156131 483157014 883 False 1345.0 1345 94.1700 1 885 1 chr4D.!!$F3 884
15 TraesCS2D01G022400 chr4D 35123704 35124589 885 True 1338.0 1338 93.8820 4 895 1 chr4D.!!$R1 891
16 TraesCS2D01G022400 chr4D 40799064 40799944 880 False 1338.0 1338 94.0450 1 885 1 chr4D.!!$F1 884
17 TraesCS2D01G022400 chr2A 10485417 10486796 1379 True 1280.0 1280 83.4860 1001 2411 1 chr2A.!!$R1 1410
18 TraesCS2D01G022400 chr2B 4493317 4494682 1365 False 1166.0 1166 82.2320 1009 2405 1 chr2B.!!$F1 1396

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
881 894 0.036388 CTGTGTGGCACTTATCGGGT 60.036 55.0 19.83 0.0 35.11 5.28 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2978 3149 0.457035 AATGCCATGTCGGTTGCATC 59.543 50.0 5.5 0.0 43.23 3.91 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
34 36 2.189521 GGGCATTCATCCGGTCGT 59.810 61.111 0.00 0.00 0.00 4.34
43 45 2.567497 ATCCGGTCGTCCACACGTT 61.567 57.895 0.00 0.00 46.76 3.99
101 105 2.037053 CAATTCGCCCACACACCAA 58.963 52.632 0.00 0.00 0.00 3.67
135 139 3.828023 GGGGGTTGGTGTGTGGGT 61.828 66.667 0.00 0.00 0.00 4.51
156 160 1.127951 GTTTATCACTTCGCCCACACG 59.872 52.381 0.00 0.00 0.00 4.49
157 161 1.017177 TTATCACTTCGCCCACACGC 61.017 55.000 0.00 0.00 0.00 5.34
158 162 2.845752 TATCACTTCGCCCACACGCC 62.846 60.000 0.00 0.00 0.00 5.68
225 229 1.304052 TGCAGGGTACATGGCAACC 60.304 57.895 0.00 1.37 32.54 3.77
397 404 3.005155 GCACATGGCAACTCTCTCTTTTT 59.995 43.478 0.00 0.00 43.97 1.94
470 480 2.026262 CCTAGTGTTAGTGGGTGGCAAT 60.026 50.000 0.00 0.00 0.00 3.56
543 553 0.956633 CTGCAGTTGAGCAACCATGT 59.043 50.000 5.25 0.00 45.13 3.21
695 705 1.810532 GAGGTACGAGGCCTGACAG 59.189 63.158 12.00 0.37 36.29 3.51
696 706 0.966370 GAGGTACGAGGCCTGACAGT 60.966 60.000 12.00 7.56 36.29 3.55
784 796 4.634012 AGAAGTGTGTGGGCATTACTTA 57.366 40.909 0.00 0.00 36.06 2.24
813 825 0.736325 CACGTAGGTGTGTAGGCTGC 60.736 60.000 7.41 0.00 39.38 5.25
862 875 3.007323 AGACCCCTAACGCCCACC 61.007 66.667 0.00 0.00 0.00 4.61
880 893 0.744414 CCTGTGTGGCACTTATCGGG 60.744 60.000 19.83 15.58 35.11 5.14
881 894 0.036388 CTGTGTGGCACTTATCGGGT 60.036 55.000 19.83 0.00 35.11 5.28
882 895 0.036765 TGTGTGGCACTTATCGGGTC 60.037 55.000 19.83 0.00 35.11 4.46
883 896 0.743345 GTGTGGCACTTATCGGGTCC 60.743 60.000 19.83 0.00 0.00 4.46
884 897 0.907704 TGTGGCACTTATCGGGTCCT 60.908 55.000 19.83 0.00 0.00 3.85
885 898 1.117150 GTGGCACTTATCGGGTCCTA 58.883 55.000 11.13 0.00 0.00 2.94
886 899 1.483415 GTGGCACTTATCGGGTCCTAA 59.517 52.381 11.13 0.00 0.00 2.69
887 900 2.093341 GTGGCACTTATCGGGTCCTAAA 60.093 50.000 11.13 0.00 0.00 1.85
888 901 2.572556 TGGCACTTATCGGGTCCTAAAA 59.427 45.455 0.00 0.00 0.00 1.52
918 932 6.897259 TTATTTATACCGAGTCAACACTGC 57.103 37.500 0.00 0.00 30.63 4.40
929 943 5.405935 AGTCAACACTGCATATACACTCA 57.594 39.130 0.00 0.00 0.00 3.41
930 944 5.793817 AGTCAACACTGCATATACACTCAA 58.206 37.500 0.00 0.00 0.00 3.02
933 947 6.313658 GTCAACACTGCATATACACTCAATCA 59.686 38.462 0.00 0.00 0.00 2.57
934 948 7.011763 GTCAACACTGCATATACACTCAATCAT 59.988 37.037 0.00 0.00 0.00 2.45
935 949 7.225341 TCAACACTGCATATACACTCAATCATC 59.775 37.037 0.00 0.00 0.00 2.92
937 951 6.183361 ACACTGCATATACACTCAATCATCCT 60.183 38.462 0.00 0.00 0.00 3.24
938 952 7.015584 ACACTGCATATACACTCAATCATCCTA 59.984 37.037 0.00 0.00 0.00 2.94
939 953 7.544915 CACTGCATATACACTCAATCATCCTAG 59.455 40.741 0.00 0.00 0.00 3.02
940 954 7.234371 ACTGCATATACACTCAATCATCCTAGT 59.766 37.037 0.00 0.00 0.00 2.57
942 956 9.088987 TGCATATACACTCAATCATCCTAGTAA 57.911 33.333 0.00 0.00 0.00 2.24
943 957 9.579768 GCATATACACTCAATCATCCTAGTAAG 57.420 37.037 0.00 0.00 0.00 2.34
945 959 7.847711 ATACACTCAATCATCCTAGTAAGCT 57.152 36.000 0.00 0.00 0.00 3.74
946 960 8.941995 ATACACTCAATCATCCTAGTAAGCTA 57.058 34.615 0.00 0.00 0.00 3.32
947 961 7.283625 ACACTCAATCATCCTAGTAAGCTAG 57.716 40.000 0.00 0.00 43.26 3.42
948 962 7.063593 ACACTCAATCATCCTAGTAAGCTAGA 58.936 38.462 0.00 0.00 45.77 2.43
949 963 7.728083 ACACTCAATCATCCTAGTAAGCTAGAT 59.272 37.037 0.00 0.00 45.77 1.98
950 964 9.237187 CACTCAATCATCCTAGTAAGCTAGATA 57.763 37.037 0.00 0.00 45.77 1.98
951 965 9.815306 ACTCAATCATCCTAGTAAGCTAGATAA 57.185 33.333 0.00 0.00 45.77 1.75
962 976 4.844349 AAGCTAGATAAAACTGCCTCCA 57.156 40.909 0.00 0.00 0.00 3.86
965 979 3.623510 GCTAGATAAAACTGCCTCCACAC 59.376 47.826 0.00 0.00 0.00 3.82
967 981 3.412386 AGATAAAACTGCCTCCACACAC 58.588 45.455 0.00 0.00 0.00 3.82
976 990 2.203139 TCCACACACCAACTGCGG 60.203 61.111 0.00 0.00 0.00 5.69
978 992 2.203139 CACACACCAACTGCGGGA 60.203 61.111 0.00 0.00 0.00 5.14
982 996 0.036388 CACACCAACTGCGGGATAGT 60.036 55.000 0.00 0.00 0.00 2.12
1026 1043 5.334414 GCATACAAACAAGAGTTCTCCACTG 60.334 44.000 0.00 0.00 36.84 3.66
1626 1655 3.027170 GCTTGTCATCGTGCACCCG 62.027 63.158 12.15 0.00 0.00 5.28
1842 1871 1.194781 AGAAGGACACCCTGCGTGAT 61.195 55.000 0.00 0.00 46.20 3.06
1970 2002 2.149803 TACAACCCACTCCGTGCGAG 62.150 60.000 0.00 0.00 44.95 5.03
2127 2189 2.551938 GGGCTCATGCTTCCCTATTCTC 60.552 54.545 8.85 0.00 39.59 2.87
2379 2472 8.502105 TTCACAACTTCATCTAGTAGACGATA 57.498 34.615 0.85 0.00 0.00 2.92
2501 2634 6.351796 GGGAAGGTACGTAAAAGGTTATACCA 60.352 42.308 0.00 0.00 41.95 3.25
2672 2842 7.716768 TGTCATACATCGAGTTTGTACAAAA 57.283 32.000 22.14 7.72 32.70 2.44
2694 2864 7.964604 AAATTTGTAGTCTACTCCTCAACAC 57.035 36.000 11.28 0.00 0.00 3.32
2695 2865 6.665992 ATTTGTAGTCTACTCCTCAACACA 57.334 37.500 11.28 0.00 0.00 3.72
2707 2877 3.074412 CCTCAACACATGTACAACTCCC 58.926 50.000 0.00 0.00 0.00 4.30
2708 2878 3.244561 CCTCAACACATGTACAACTCCCT 60.245 47.826 0.00 0.00 0.00 4.20
2710 2880 3.074412 CAACACATGTACAACTCCCTCC 58.926 50.000 0.00 0.00 0.00 4.30
2726 2896 5.427481 ACTCCCTCCGTTCCAGAATATAAAA 59.573 40.000 0.00 0.00 0.00 1.52
2750 2920 9.638239 AAATGTATTAATTTTCGTGCAAGTCAT 57.362 25.926 0.00 0.00 0.00 3.06
2774 2944 9.849607 CATACTCGTGTATGTTTGATCAAATAC 57.150 33.333 23.05 20.54 46.56 1.89
2776 2946 7.963981 ACTCGTGTATGTTTGATCAAATACAG 58.036 34.615 24.82 19.84 30.78 2.74
2779 2949 9.161629 TCGTGTATGTTTGATCAAATACAGAAT 57.838 29.630 24.82 11.97 30.78 2.40
2924 3095 6.791887 TGCACATGTTTGACTTTTGAAAAA 57.208 29.167 0.00 0.00 0.00 1.94
2950 3121 8.288689 ACCAATACACTACATATTTTGGAACC 57.711 34.615 5.84 0.00 36.49 3.62
2963 3134 1.255667 TGGAACCGAGGGAGTAGCAC 61.256 60.000 0.00 0.00 0.00 4.40
2974 3145 2.236395 GGGAGTAGCACACACCTACAAT 59.764 50.000 5.23 0.00 37.96 2.71
2978 3149 2.479566 AGCACACACCTACAATGGAG 57.520 50.000 0.00 0.00 0.00 3.86
2985 3156 3.127548 CACACCTACAATGGAGATGCAAC 59.872 47.826 0.00 0.00 0.00 4.17
2986 3157 2.684881 CACCTACAATGGAGATGCAACC 59.315 50.000 0.00 0.00 0.00 3.77
3033 3204 2.917713 AATGCAACTATCCCCAACCA 57.082 45.000 0.00 0.00 0.00 3.67
3122 3293 3.565482 ACACCACTCTTATTTGCACACAG 59.435 43.478 0.00 0.00 0.00 3.66
3128 3299 0.515127 TTATTTGCACACAGTCGGCG 59.485 50.000 0.00 0.00 0.00 6.46
3129 3300 1.295357 TATTTGCACACAGTCGGCGG 61.295 55.000 7.21 0.00 0.00 6.13
3132 3303 3.490759 GCACACAGTCGGCGGATG 61.491 66.667 7.21 8.98 0.00 3.51
3136 3307 0.319083 ACACAGTCGGCGGATGTTTA 59.681 50.000 7.21 0.00 0.00 2.01
3144 3315 1.134610 CGGCGGATGTTTAACTAGGGT 60.135 52.381 0.00 0.00 0.00 4.34
3147 3318 2.681344 GCGGATGTTTAACTAGGGTTGG 59.319 50.000 0.00 0.00 36.92 3.77
3153 3324 6.041182 GGATGTTTAACTAGGGTTGGTGTTTT 59.959 38.462 0.00 0.00 36.92 2.43
3154 3325 6.854091 TGTTTAACTAGGGTTGGTGTTTTT 57.146 33.333 0.00 0.00 36.92 1.94
3155 3326 6.631962 TGTTTAACTAGGGTTGGTGTTTTTG 58.368 36.000 0.00 0.00 36.92 2.44
3156 3327 6.436532 TGTTTAACTAGGGTTGGTGTTTTTGA 59.563 34.615 0.00 0.00 36.92 2.69
3157 3328 7.039223 TGTTTAACTAGGGTTGGTGTTTTTGAA 60.039 33.333 0.00 0.00 36.92 2.69
3158 3329 7.477945 TTAACTAGGGTTGGTGTTTTTGAAA 57.522 32.000 0.00 0.00 36.92 2.69
3159 3330 6.361768 AACTAGGGTTGGTGTTTTTGAAAA 57.638 33.333 0.00 0.00 33.96 2.29
3160 3331 6.361768 ACTAGGGTTGGTGTTTTTGAAAAA 57.638 33.333 0.00 0.00 0.00 1.94
3182 3353 6.859420 AAAAATAAAATGCAACTGTCACCC 57.141 33.333 0.00 0.00 0.00 4.61
3185 3356 1.786937 AAATGCAACTGTCACCCCAA 58.213 45.000 0.00 0.00 0.00 4.12
3189 3360 0.827507 GCAACTGTCACCCCAACCAT 60.828 55.000 0.00 0.00 0.00 3.55
3201 3372 0.446222 CCAACCATTAGTTCCACGCG 59.554 55.000 3.53 3.53 36.18 6.01
3202 3373 0.179200 CAACCATTAGTTCCACGCGC 60.179 55.000 5.73 0.00 36.18 6.86
3204 3375 1.449601 CCATTAGTTCCACGCGCCT 60.450 57.895 5.73 0.00 0.00 5.52
3205 3376 1.705337 CCATTAGTTCCACGCGCCTG 61.705 60.000 5.73 0.00 0.00 4.85
3218 3389 4.120331 GCCTGCCGGATGTGCAAC 62.120 66.667 5.05 0.00 38.46 4.17
3219 3390 2.360350 CCTGCCGGATGTGCAACT 60.360 61.111 5.05 0.00 38.46 3.16
3220 3391 2.401766 CCTGCCGGATGTGCAACTC 61.402 63.158 5.05 0.00 38.46 3.01
3221 3392 1.672030 CTGCCGGATGTGCAACTCA 60.672 57.895 5.05 0.00 38.46 3.41
3222 3393 1.002257 TGCCGGATGTGCAACTCAT 60.002 52.632 5.05 0.00 38.04 2.90
3223 3394 1.307355 TGCCGGATGTGCAACTCATG 61.307 55.000 5.05 0.00 38.04 3.07
3224 3395 1.996786 GCCGGATGTGCAACTCATGG 61.997 60.000 5.05 0.00 38.04 3.66
3225 3396 0.677731 CCGGATGTGCAACTCATGGT 60.678 55.000 0.00 0.00 38.04 3.55
3226 3397 1.406751 CCGGATGTGCAACTCATGGTA 60.407 52.381 0.00 0.00 38.04 3.25
3227 3398 1.665679 CGGATGTGCAACTCATGGTAC 59.334 52.381 0.00 0.00 38.04 3.34
3228 3399 2.710377 GGATGTGCAACTCATGGTACA 58.290 47.619 0.00 0.00 40.56 2.90
3229 3400 3.282021 GGATGTGCAACTCATGGTACAT 58.718 45.455 3.72 3.72 41.93 2.29
3230 3401 4.450976 GGATGTGCAACTCATGGTACATA 58.549 43.478 4.00 0.00 39.84 2.29
3231 3402 5.065914 GGATGTGCAACTCATGGTACATAT 58.934 41.667 4.00 2.84 39.84 1.78
3232 3403 5.532406 GGATGTGCAACTCATGGTACATATT 59.468 40.000 4.00 0.00 39.84 1.28
3233 3404 6.039717 GGATGTGCAACTCATGGTACATATTT 59.960 38.462 4.00 0.00 39.84 1.40
3234 3405 7.228507 GGATGTGCAACTCATGGTACATATTTA 59.771 37.037 4.00 0.00 39.84 1.40
3235 3406 7.929941 TGTGCAACTCATGGTACATATTTAA 57.070 32.000 0.00 0.00 40.66 1.52
3236 3407 7.984391 TGTGCAACTCATGGTACATATTTAAG 58.016 34.615 0.00 0.00 40.66 1.85
3237 3408 7.609918 TGTGCAACTCATGGTACATATTTAAGT 59.390 33.333 0.00 0.00 40.66 2.24
3262 3433 9.058424 GTGAAAACCTAAAATGAAACTATACGC 57.942 33.333 0.00 0.00 0.00 4.42
3263 3434 7.958567 TGAAAACCTAAAATGAAACTATACGCG 59.041 33.333 3.53 3.53 0.00 6.01
3264 3435 5.399604 ACCTAAAATGAAACTATACGCGC 57.600 39.130 5.73 0.00 0.00 6.86
3265 3436 4.871557 ACCTAAAATGAAACTATACGCGCA 59.128 37.500 5.73 0.00 0.00 6.09
3266 3437 5.352016 ACCTAAAATGAAACTATACGCGCAA 59.648 36.000 5.73 0.00 0.00 4.85
3267 3438 5.675444 CCTAAAATGAAACTATACGCGCAAC 59.325 40.000 5.73 0.00 0.00 4.17
3268 3439 3.668596 AATGAAACTATACGCGCAACC 57.331 42.857 5.73 0.00 0.00 3.77
3269 3440 1.361793 TGAAACTATACGCGCAACCC 58.638 50.000 5.73 0.00 0.00 4.11
3270 3441 0.654160 GAAACTATACGCGCAACCCC 59.346 55.000 5.73 0.00 0.00 4.95
3271 3442 0.745486 AAACTATACGCGCAACCCCC 60.745 55.000 5.73 0.00 0.00 5.40
3290 3461 3.365265 GGGTTCACGGCCAGCAAG 61.365 66.667 2.24 0.00 0.00 4.01
3291 3462 2.594592 GGTTCACGGCCAGCAAGT 60.595 61.111 2.24 0.00 0.00 3.16
3292 3463 2.639286 GTTCACGGCCAGCAAGTG 59.361 61.111 2.24 1.84 37.24 3.16
3293 3464 2.186826 GTTCACGGCCAGCAAGTGT 61.187 57.895 2.24 0.00 37.20 3.55
3294 3465 1.891919 TTCACGGCCAGCAAGTGTC 60.892 57.895 2.24 0.00 37.20 3.67
3295 3466 3.357079 CACGGCCAGCAAGTGTCC 61.357 66.667 2.24 0.00 0.00 4.02
3296 3467 3.872603 ACGGCCAGCAAGTGTCCA 61.873 61.111 2.24 0.00 0.00 4.02
3297 3468 2.594303 CGGCCAGCAAGTGTCCAA 60.594 61.111 2.24 0.00 0.00 3.53
3298 3469 2.192861 CGGCCAGCAAGTGTCCAAA 61.193 57.895 2.24 0.00 0.00 3.28
3299 3470 1.526575 CGGCCAGCAAGTGTCCAAAT 61.527 55.000 2.24 0.00 0.00 2.32
3300 3471 0.037975 GGCCAGCAAGTGTCCAAATG 60.038 55.000 0.00 0.00 0.00 2.32
3301 3472 0.037975 GCCAGCAAGTGTCCAAATGG 60.038 55.000 0.00 0.00 0.00 3.16
3302 3473 0.604578 CCAGCAAGTGTCCAAATGGG 59.395 55.000 0.00 0.00 35.41 4.00
3303 3474 0.037975 CAGCAAGTGTCCAAATGGGC 60.038 55.000 0.00 0.00 41.09 5.36
3304 3475 0.178953 AGCAAGTGTCCAAATGGGCT 60.179 50.000 5.53 0.00 41.34 5.19
3305 3476 0.681175 GCAAGTGTCCAAATGGGCTT 59.319 50.000 5.53 2.89 41.34 4.35
3306 3477 1.337167 GCAAGTGTCCAAATGGGCTTC 60.337 52.381 5.53 0.00 41.34 3.86
3307 3478 1.962807 CAAGTGTCCAAATGGGCTTCA 59.037 47.619 5.53 0.00 41.34 3.02
3308 3479 2.564062 CAAGTGTCCAAATGGGCTTCAT 59.436 45.455 5.53 0.00 41.34 2.57
3309 3480 3.737559 AGTGTCCAAATGGGCTTCATA 57.262 42.857 5.53 0.00 41.34 2.15
3310 3481 4.255510 AGTGTCCAAATGGGCTTCATAT 57.744 40.909 5.53 0.00 41.34 1.78
3311 3482 3.956199 AGTGTCCAAATGGGCTTCATATG 59.044 43.478 5.53 0.00 41.34 1.78
3312 3483 3.701040 GTGTCCAAATGGGCTTCATATGT 59.299 43.478 5.53 0.00 41.34 2.29
3313 3484 3.953612 TGTCCAAATGGGCTTCATATGTC 59.046 43.478 5.53 0.00 41.34 3.06
3314 3485 4.210331 GTCCAAATGGGCTTCATATGTCT 58.790 43.478 1.90 0.00 36.72 3.41
3315 3486 4.037208 GTCCAAATGGGCTTCATATGTCTG 59.963 45.833 1.90 0.00 36.72 3.51
3316 3487 4.079844 TCCAAATGGGCTTCATATGTCTGA 60.080 41.667 1.90 0.00 34.44 3.27
3317 3488 4.646040 CCAAATGGGCTTCATATGTCTGAA 59.354 41.667 1.90 0.00 34.44 3.02
3318 3489 5.127519 CCAAATGGGCTTCATATGTCTGAAA 59.872 40.000 1.90 0.00 34.86 2.69
3319 3490 6.351202 CCAAATGGGCTTCATATGTCTGAAAA 60.351 38.462 1.90 0.00 34.86 2.29
3320 3491 6.855763 AATGGGCTTCATATGTCTGAAAAA 57.144 33.333 1.90 0.00 34.86 1.94
3321 3492 5.902613 TGGGCTTCATATGTCTGAAAAAG 57.097 39.130 1.90 0.00 34.86 2.27
3322 3493 5.569355 TGGGCTTCATATGTCTGAAAAAGA 58.431 37.500 1.90 0.00 34.86 2.52
3323 3494 6.189859 TGGGCTTCATATGTCTGAAAAAGAT 58.810 36.000 1.90 0.00 37.23 2.40
3324 3495 7.345691 TGGGCTTCATATGTCTGAAAAAGATA 58.654 34.615 1.90 0.00 37.23 1.98
3325 3496 7.833682 TGGGCTTCATATGTCTGAAAAAGATAA 59.166 33.333 1.90 0.00 37.23 1.75
3326 3497 8.854117 GGGCTTCATATGTCTGAAAAAGATAAT 58.146 33.333 1.90 0.00 37.23 1.28
3348 3519 7.982761 AATAAAATGCAATTGTTGTCATGGT 57.017 28.000 7.40 0.00 36.10 3.55
3349 3520 5.927954 AAAATGCAATTGTTGTCATGGTC 57.072 34.783 7.40 0.00 36.10 4.02
3350 3521 4.603989 AATGCAATTGTTGTCATGGTCA 57.396 36.364 7.40 0.00 33.44 4.02
3351 3522 4.603989 ATGCAATTGTTGTCATGGTCAA 57.396 36.364 7.40 0.00 0.00 3.18
3352 3523 3.715495 TGCAATTGTTGTCATGGTCAAC 58.285 40.909 19.95 19.95 43.48 3.18
3358 3529 3.549794 TGTTGTCATGGTCAACACATCA 58.450 40.909 23.21 10.05 46.35 3.07
3359 3530 3.314913 TGTTGTCATGGTCAACACATCAC 59.685 43.478 23.21 5.87 46.35 3.06
3360 3531 2.142319 TGTCATGGTCAACACATCACG 58.858 47.619 0.00 0.00 0.00 4.35
3361 3532 2.224161 TGTCATGGTCAACACATCACGA 60.224 45.455 0.00 0.00 0.00 4.35
3362 3533 2.805671 GTCATGGTCAACACATCACGAA 59.194 45.455 0.00 0.00 0.00 3.85
3363 3534 3.249799 GTCATGGTCAACACATCACGAAA 59.750 43.478 0.00 0.00 0.00 3.46
3364 3535 3.879892 TCATGGTCAACACATCACGAAAA 59.120 39.130 0.00 0.00 0.00 2.29
3365 3536 4.518590 TCATGGTCAACACATCACGAAAAT 59.481 37.500 0.00 0.00 0.00 1.82
3366 3537 4.481930 TGGTCAACACATCACGAAAATC 57.518 40.909 0.00 0.00 0.00 2.17
3367 3538 4.133820 TGGTCAACACATCACGAAAATCT 58.866 39.130 0.00 0.00 0.00 2.40
3368 3539 4.578516 TGGTCAACACATCACGAAAATCTT 59.421 37.500 0.00 0.00 0.00 2.40
3369 3540 5.760743 TGGTCAACACATCACGAAAATCTTA 59.239 36.000 0.00 0.00 0.00 2.10
3370 3541 6.261158 TGGTCAACACATCACGAAAATCTTAA 59.739 34.615 0.00 0.00 0.00 1.85
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
2 3 1.675641 GCCCACACACCAGCTTAGG 60.676 63.158 0.00 0.00 0.00 2.69
34 36 2.420722 GTGGTGAAAAAGAACGTGTGGA 59.579 45.455 0.00 0.00 0.00 4.02
43 45 0.466555 CCCCCGTGTGGTGAAAAAGA 60.467 55.000 0.00 0.00 0.00 2.52
67 71 0.881118 ATTGCTAAACGCCCACACAG 59.119 50.000 0.00 0.00 38.05 3.66
101 105 1.577328 CCCTCTGCGTGCGTGAAAAT 61.577 55.000 0.00 0.00 0.00 1.82
123 127 2.952978 GTGATAAACACCCACACACCAA 59.047 45.455 0.00 0.00 43.05 3.67
135 139 2.147958 GTGTGGGCGAAGTGATAAACA 58.852 47.619 0.00 0.00 0.00 2.83
225 229 3.471495 CTTACAAGCAAAGTTAGGGCG 57.529 47.619 0.00 0.00 0.00 6.13
470 480 7.060383 TGCCATGATTTCAAAACTTTAGGAA 57.940 32.000 0.00 0.00 0.00 3.36
740 750 0.397254 TTCCCTCCCGATCACTCTCC 60.397 60.000 0.00 0.00 0.00 3.71
766 778 5.566627 GCAAAATAAGTAATGCCCACACACT 60.567 40.000 0.00 0.00 32.73 3.55
784 796 1.243902 CACCTACGTGTGGGCAAAAT 58.756 50.000 12.88 0.00 35.10 1.82
813 825 7.657336 ACATTTTGTGTGGTGTATAAAAGGAG 58.343 34.615 0.00 0.00 40.28 3.69
862 875 0.036388 ACCCGATAAGTGCCACACAG 60.036 55.000 0.00 0.00 36.74 3.66
901 914 4.672587 ATATGCAGTGTTGACTCGGTAT 57.327 40.909 0.00 0.00 0.00 2.73
910 924 6.667007 TGATTGAGTGTATATGCAGTGTTG 57.333 37.500 5.81 0.00 0.00 3.33
917 931 9.579768 CTTACTAGGATGATTGAGTGTATATGC 57.420 37.037 0.00 0.00 0.00 3.14
918 932 9.579768 GCTTACTAGGATGATTGAGTGTATATG 57.420 37.037 0.00 0.00 0.00 1.78
933 947 7.511028 AGGCAGTTTTATCTAGCTTACTAGGAT 59.489 37.037 0.00 0.00 45.20 3.24
934 948 6.839657 AGGCAGTTTTATCTAGCTTACTAGGA 59.160 38.462 0.00 0.00 45.20 2.94
935 949 7.056844 AGGCAGTTTTATCTAGCTTACTAGG 57.943 40.000 0.00 0.00 45.20 3.02
937 951 6.610020 TGGAGGCAGTTTTATCTAGCTTACTA 59.390 38.462 0.00 0.00 0.00 1.82
938 952 5.425539 TGGAGGCAGTTTTATCTAGCTTACT 59.574 40.000 0.00 0.00 0.00 2.24
939 953 5.524281 GTGGAGGCAGTTTTATCTAGCTTAC 59.476 44.000 0.00 0.00 0.00 2.34
940 954 5.188948 TGTGGAGGCAGTTTTATCTAGCTTA 59.811 40.000 0.00 0.00 0.00 3.09
942 956 3.519510 TGTGGAGGCAGTTTTATCTAGCT 59.480 43.478 0.00 0.00 0.00 3.32
943 957 3.623510 GTGTGGAGGCAGTTTTATCTAGC 59.376 47.826 0.00 0.00 0.00 3.42
945 959 4.564821 GGTGTGTGGAGGCAGTTTTATCTA 60.565 45.833 0.00 0.00 0.00 1.98
946 960 3.412386 GTGTGTGGAGGCAGTTTTATCT 58.588 45.455 0.00 0.00 0.00 1.98
947 961 2.488153 GGTGTGTGGAGGCAGTTTTATC 59.512 50.000 0.00 0.00 0.00 1.75
948 962 2.158534 TGGTGTGTGGAGGCAGTTTTAT 60.159 45.455 0.00 0.00 0.00 1.40
949 963 1.213182 TGGTGTGTGGAGGCAGTTTTA 59.787 47.619 0.00 0.00 0.00 1.52
950 964 0.033601 TGGTGTGTGGAGGCAGTTTT 60.034 50.000 0.00 0.00 0.00 2.43
951 965 0.033601 TTGGTGTGTGGAGGCAGTTT 60.034 50.000 0.00 0.00 0.00 2.66
962 976 0.036388 CTATCCCGCAGTTGGTGTGT 60.036 55.000 0.00 0.00 34.56 3.72
965 979 2.550978 CTTACTATCCCGCAGTTGGTG 58.449 52.381 0.00 0.00 0.00 4.17
967 981 1.139058 AGCTTACTATCCCGCAGTTGG 59.861 52.381 0.00 0.00 0.00 3.77
976 990 4.314121 CTGCTTGATGGAGCTTACTATCC 58.686 47.826 0.00 0.00 43.11 2.59
978 992 3.969976 TCCTGCTTGATGGAGCTTACTAT 59.030 43.478 0.00 0.00 43.11 2.12
982 996 2.747467 GCATCCTGCTTGATGGAGCTTA 60.747 50.000 14.97 0.00 41.96 3.09
1006 1020 4.162320 TCTCAGTGGAGAACTCTTGTTTGT 59.838 41.667 1.86 0.00 46.94 2.83
1026 1043 1.202417 TCGCCGTCATCCATCTTTCTC 60.202 52.381 0.00 0.00 0.00 2.87
1626 1655 1.139095 CTCGACGCCCCAGAAGTAC 59.861 63.158 0.00 0.00 0.00 2.73
1970 2002 2.911484 CCTCCATGAGAACCTTACTGC 58.089 52.381 0.00 0.00 0.00 4.40
2118 2180 1.461091 TAGGCACGCCGAGAATAGGG 61.461 60.000 1.61 0.00 41.95 3.53
2372 2458 6.458478 GCATGTAGAGTTGTACACTATCGTCT 60.458 42.308 0.00 0.00 35.74 4.18
2379 2472 4.222810 TGGATGCATGTAGAGTTGTACACT 59.777 41.667 2.46 0.00 35.74 3.55
2501 2634 5.307196 GGTGGTGTGGTGGATATATAGTCTT 59.693 44.000 0.00 0.00 0.00 3.01
2572 2733 2.540383 AGAAGAGCATACACCACTCCA 58.460 47.619 0.00 0.00 0.00 3.86
2573 2734 3.618690 AAGAAGAGCATACACCACTCC 57.381 47.619 0.00 0.00 0.00 3.85
2574 2735 4.826556 AGAAAGAAGAGCATACACCACTC 58.173 43.478 0.00 0.00 0.00 3.51
2575 2736 4.899352 AGAAAGAAGAGCATACACCACT 57.101 40.909 0.00 0.00 0.00 4.00
2672 2842 6.665992 TGTGTTGAGGAGTAGACTACAAAT 57.334 37.500 14.95 0.00 0.00 2.32
2679 2849 5.386958 TGTACATGTGTTGAGGAGTAGAC 57.613 43.478 9.11 0.00 0.00 2.59
2694 2864 2.618053 GAACGGAGGGAGTTGTACATG 58.382 52.381 0.00 0.00 31.14 3.21
2695 2865 1.553704 GGAACGGAGGGAGTTGTACAT 59.446 52.381 0.00 0.00 31.14 2.29
2726 2896 9.716507 GTATGACTTGCACGAAAATTAATACAT 57.283 29.630 0.00 0.00 0.00 2.29
2750 2920 8.989653 TGTATTTGATCAAACATACACGAGTA 57.010 30.769 22.71 5.03 32.51 2.59
2822 2992 9.827411 CATCATTAGATGCATCATGAAAAGTAG 57.173 33.333 27.81 11.79 44.61 2.57
2882 3052 5.126222 TGTGCATGTTTGACCAAGTTTTAGA 59.874 36.000 0.00 0.00 0.00 2.10
2883 3053 5.347342 TGTGCATGTTTGACCAAGTTTTAG 58.653 37.500 0.00 0.00 0.00 1.85
2884 3054 5.330455 TGTGCATGTTTGACCAAGTTTTA 57.670 34.783 0.00 0.00 0.00 1.52
2924 3095 8.745590 GGTTCCAAAATATGTAGTGTATTGGTT 58.254 33.333 0.00 0.00 37.63 3.67
2927 3098 8.203937 TCGGTTCCAAAATATGTAGTGTATTG 57.796 34.615 0.00 0.00 0.00 1.90
2937 3108 3.886123 ACTCCCTCGGTTCCAAAATATG 58.114 45.455 0.00 0.00 0.00 1.78
2944 3115 1.077805 TGCTACTCCCTCGGTTCCA 59.922 57.895 0.00 0.00 0.00 3.53
2950 3121 1.215647 GGTGTGTGCTACTCCCTCG 59.784 63.158 2.57 0.00 37.04 4.63
2963 3134 2.989909 TGCATCTCCATTGTAGGTGTG 58.010 47.619 0.00 0.00 0.00 3.82
2974 3145 0.392863 CCATGTCGGTTGCATCTCCA 60.393 55.000 0.00 0.00 0.00 3.86
2978 3149 0.457035 AATGCCATGTCGGTTGCATC 59.543 50.000 5.50 0.00 43.23 3.91
2985 3156 1.202132 CCGTACAAAATGCCATGTCGG 60.202 52.381 0.00 0.00 35.53 4.79
2986 3157 1.735018 TCCGTACAAAATGCCATGTCG 59.265 47.619 0.00 0.00 0.00 4.35
3033 3204 1.382522 CGCTTATGGTGTGGCTCAAT 58.617 50.000 0.00 0.00 0.00 2.57
3089 3260 8.999431 CAAATAAGAGTGGTGTAATAGTTGTGT 58.001 33.333 0.00 0.00 0.00 3.72
3090 3261 7.962918 GCAAATAAGAGTGGTGTAATAGTTGTG 59.037 37.037 0.00 0.00 0.00 3.33
3100 3271 3.550820 TGTGTGCAAATAAGAGTGGTGT 58.449 40.909 0.00 0.00 0.00 4.16
3102 3273 3.815401 GACTGTGTGCAAATAAGAGTGGT 59.185 43.478 0.00 0.00 0.00 4.16
3122 3293 2.199236 CCTAGTTAAACATCCGCCGAC 58.801 52.381 0.00 0.00 0.00 4.79
3128 3299 4.659115 ACACCAACCCTAGTTAAACATCC 58.341 43.478 0.00 0.00 33.27 3.51
3129 3300 6.644248 AAACACCAACCCTAGTTAAACATC 57.356 37.500 0.00 0.00 33.27 3.06
3132 3303 6.865411 TCAAAAACACCAACCCTAGTTAAAC 58.135 36.000 0.00 0.00 33.27 2.01
3136 3307 6.361768 TTTTCAAAAACACCAACCCTAGTT 57.638 33.333 0.00 0.00 36.33 2.24
3159 3330 5.762711 GGGGTGACAGTTGCATTTTATTTTT 59.237 36.000 0.00 0.00 0.00 1.94
3160 3331 5.163258 TGGGGTGACAGTTGCATTTTATTTT 60.163 36.000 0.00 0.00 0.00 1.82
3161 3332 4.346418 TGGGGTGACAGTTGCATTTTATTT 59.654 37.500 0.00 0.00 0.00 1.40
3164 3335 2.950781 TGGGGTGACAGTTGCATTTTA 58.049 42.857 0.00 0.00 0.00 1.52
3176 3347 2.224917 TGGAACTAATGGTTGGGGTGAC 60.225 50.000 0.00 0.00 38.41 3.67
3180 3351 1.459450 CGTGGAACTAATGGTTGGGG 58.541 55.000 0.00 0.00 38.41 4.96
3182 3353 0.446222 CGCGTGGAACTAATGGTTGG 59.554 55.000 0.00 0.00 38.41 3.77
3185 3356 1.743995 GGCGCGTGGAACTAATGGT 60.744 57.895 8.43 0.00 31.75 3.55
3189 3360 2.740826 GCAGGCGCGTGGAACTAA 60.741 61.111 29.18 0.00 31.75 2.24
3201 3372 4.120331 GTTGCACATCCGGCAGGC 62.120 66.667 0.00 0.00 43.05 4.85
3202 3373 2.360350 AGTTGCACATCCGGCAGG 60.360 61.111 0.00 0.00 43.05 4.85
3204 3375 1.002257 ATGAGTTGCACATCCGGCA 60.002 52.632 0.00 0.00 40.00 5.69
3205 3376 1.430632 CATGAGTTGCACATCCGGC 59.569 57.895 0.00 0.00 0.00 6.13
3211 3382 7.609918 ACTTAAATATGTACCATGAGTTGCACA 59.390 33.333 0.00 0.00 0.00 4.57
3212 3383 7.910162 CACTTAAATATGTACCATGAGTTGCAC 59.090 37.037 0.00 0.00 0.00 4.57
3213 3384 7.826744 TCACTTAAATATGTACCATGAGTTGCA 59.173 33.333 0.00 0.00 0.00 4.08
3214 3385 8.208718 TCACTTAAATATGTACCATGAGTTGC 57.791 34.615 0.00 0.00 0.00 4.17
3219 3390 9.747898 AGGTTTTCACTTAAATATGTACCATGA 57.252 29.630 0.00 0.00 0.00 3.07
3236 3407 9.058424 GCGTATAGTTTCATTTTAGGTTTTCAC 57.942 33.333 0.00 0.00 0.00 3.18
3237 3408 7.958567 CGCGTATAGTTTCATTTTAGGTTTTCA 59.041 33.333 0.00 0.00 0.00 2.69
3238 3409 7.045160 GCGCGTATAGTTTCATTTTAGGTTTTC 60.045 37.037 8.43 0.00 0.00 2.29
3239 3410 6.744082 GCGCGTATAGTTTCATTTTAGGTTTT 59.256 34.615 8.43 0.00 0.00 2.43
3240 3411 6.128227 TGCGCGTATAGTTTCATTTTAGGTTT 60.128 34.615 8.43 0.00 0.00 3.27
3241 3412 5.352016 TGCGCGTATAGTTTCATTTTAGGTT 59.648 36.000 8.43 0.00 0.00 3.50
3242 3413 4.871557 TGCGCGTATAGTTTCATTTTAGGT 59.128 37.500 8.43 0.00 0.00 3.08
3243 3414 5.398176 TGCGCGTATAGTTTCATTTTAGG 57.602 39.130 8.43 0.00 0.00 2.69
3244 3415 5.675444 GGTTGCGCGTATAGTTTCATTTTAG 59.325 40.000 8.43 0.00 0.00 1.85
3245 3416 5.447548 GGGTTGCGCGTATAGTTTCATTTTA 60.448 40.000 8.43 0.00 0.00 1.52
3246 3417 4.408694 GGTTGCGCGTATAGTTTCATTTT 58.591 39.130 8.43 0.00 0.00 1.82
3247 3418 3.181504 GGGTTGCGCGTATAGTTTCATTT 60.182 43.478 8.43 0.00 0.00 2.32
3248 3419 2.353579 GGGTTGCGCGTATAGTTTCATT 59.646 45.455 8.43 0.00 0.00 2.57
3249 3420 1.937899 GGGTTGCGCGTATAGTTTCAT 59.062 47.619 8.43 0.00 0.00 2.57
3250 3421 1.361793 GGGTTGCGCGTATAGTTTCA 58.638 50.000 8.43 0.00 0.00 2.69
3251 3422 0.654160 GGGGTTGCGCGTATAGTTTC 59.346 55.000 8.43 0.00 0.00 2.78
3252 3423 0.745486 GGGGGTTGCGCGTATAGTTT 60.745 55.000 8.43 0.00 0.00 2.66
3253 3424 1.153309 GGGGGTTGCGCGTATAGTT 60.153 57.895 8.43 0.00 0.00 2.24
3254 3425 2.502577 GGGGGTTGCGCGTATAGT 59.497 61.111 8.43 0.00 0.00 2.12
3273 3444 3.365265 CTTGCTGGCCGTGAACCC 61.365 66.667 0.00 0.00 0.00 4.11
3274 3445 2.594592 ACTTGCTGGCCGTGAACC 60.595 61.111 0.00 0.00 0.00 3.62
3275 3446 2.117941 GACACTTGCTGGCCGTGAAC 62.118 60.000 13.82 4.82 33.13 3.18
3276 3447 1.891919 GACACTTGCTGGCCGTGAA 60.892 57.895 13.82 0.00 33.13 3.18
3277 3448 2.280797 GACACTTGCTGGCCGTGA 60.281 61.111 13.82 0.00 33.13 4.35
3278 3449 3.357079 GGACACTTGCTGGCCGTG 61.357 66.667 6.21 6.21 38.78 4.94
3282 3453 0.037975 CCATTTGGACACTTGCTGGC 60.038 55.000 0.00 0.00 37.39 4.85
3283 3454 0.604578 CCCATTTGGACACTTGCTGG 59.395 55.000 0.00 0.00 37.39 4.85
3284 3455 0.037975 GCCCATTTGGACACTTGCTG 60.038 55.000 0.00 0.00 37.39 4.41
3285 3456 0.178953 AGCCCATTTGGACACTTGCT 60.179 50.000 0.00 0.00 37.39 3.91
3286 3457 0.681175 AAGCCCATTTGGACACTTGC 59.319 50.000 0.00 0.00 37.39 4.01
3287 3458 1.962807 TGAAGCCCATTTGGACACTTG 59.037 47.619 0.00 0.00 37.39 3.16
3288 3459 2.380064 TGAAGCCCATTTGGACACTT 57.620 45.000 0.00 0.00 37.39 3.16
3289 3460 2.610438 ATGAAGCCCATTTGGACACT 57.390 45.000 0.00 0.00 37.39 3.55
3290 3461 3.701040 ACATATGAAGCCCATTTGGACAC 59.299 43.478 10.38 0.00 38.16 3.67
3291 3462 3.953612 GACATATGAAGCCCATTTGGACA 59.046 43.478 10.38 0.00 38.16 4.02
3292 3463 4.037208 CAGACATATGAAGCCCATTTGGAC 59.963 45.833 10.38 0.00 38.16 4.02
3293 3464 4.079844 TCAGACATATGAAGCCCATTTGGA 60.080 41.667 10.38 0.00 38.16 3.53
3294 3465 4.209538 TCAGACATATGAAGCCCATTTGG 58.790 43.478 10.38 0.00 38.16 3.28
3295 3466 5.840243 TTCAGACATATGAAGCCCATTTG 57.160 39.130 10.38 5.87 39.26 2.32
3296 3467 6.855763 TTTTCAGACATATGAAGCCCATTT 57.144 33.333 10.38 0.00 40.16 2.32
3297 3468 6.664816 TCTTTTTCAGACATATGAAGCCCATT 59.335 34.615 10.38 0.00 40.16 3.16
3298 3469 6.189859 TCTTTTTCAGACATATGAAGCCCAT 58.810 36.000 10.38 0.00 40.16 4.00
3299 3470 5.569355 TCTTTTTCAGACATATGAAGCCCA 58.431 37.500 10.38 0.00 40.16 5.36
3300 3471 6.705863 ATCTTTTTCAGACATATGAAGCCC 57.294 37.500 10.38 0.00 40.16 5.19
3322 3493 9.669887 ACCATGACAACAATTGCATTTTATTAT 57.330 25.926 5.05 0.00 0.00 1.28
3323 3494 9.149225 GACCATGACAACAATTGCATTTTATTA 57.851 29.630 5.05 0.00 0.00 0.98
3324 3495 7.660617 TGACCATGACAACAATTGCATTTTATT 59.339 29.630 5.05 0.00 0.00 1.40
3325 3496 7.160049 TGACCATGACAACAATTGCATTTTAT 58.840 30.769 5.05 0.00 0.00 1.40
3326 3497 6.519382 TGACCATGACAACAATTGCATTTTA 58.481 32.000 5.05 0.00 0.00 1.52
3327 3498 5.366460 TGACCATGACAACAATTGCATTTT 58.634 33.333 5.05 0.00 0.00 1.82
3328 3499 4.958509 TGACCATGACAACAATTGCATTT 58.041 34.783 5.05 0.00 0.00 2.32
3329 3500 4.603989 TGACCATGACAACAATTGCATT 57.396 36.364 5.05 0.00 0.00 3.56
3330 3501 4.309099 GTTGACCATGACAACAATTGCAT 58.691 39.130 21.76 0.00 44.49 3.96
3331 3502 3.715495 GTTGACCATGACAACAATTGCA 58.285 40.909 21.76 0.00 44.49 4.08
3338 3509 3.606846 CGTGATGTGTTGACCATGACAAC 60.607 47.826 20.67 20.67 45.07 3.32
3339 3510 2.547634 CGTGATGTGTTGACCATGACAA 59.452 45.455 0.00 0.00 0.00 3.18
3340 3511 2.142319 CGTGATGTGTTGACCATGACA 58.858 47.619 0.00 0.00 0.00 3.58
3341 3512 2.412870 TCGTGATGTGTTGACCATGAC 58.587 47.619 0.00 0.00 0.00 3.06
3342 3513 2.829741 TCGTGATGTGTTGACCATGA 57.170 45.000 0.00 0.00 0.00 3.07
3343 3514 3.894782 TTTCGTGATGTGTTGACCATG 57.105 42.857 0.00 0.00 0.00 3.66
3344 3515 4.761739 AGATTTTCGTGATGTGTTGACCAT 59.238 37.500 0.00 0.00 0.00 3.55
3345 3516 4.133820 AGATTTTCGTGATGTGTTGACCA 58.866 39.130 0.00 0.00 0.00 4.02
3346 3517 4.749245 AGATTTTCGTGATGTGTTGACC 57.251 40.909 0.00 0.00 0.00 4.02


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

AutoCloner maintained by Alex Coulton.