Multiple sequence alignment - TraesCS3B01G027900

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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 TraesCS3B01G027900 chr3B 100.000 4147 0 0 1 4147 12105292 12101146 0.000000e+00 7659
1 TraesCS3B01G027900 chr3B 100.000 1385 0 0 4535 5919 12100758 12099374 0.000000e+00 2558
2 TraesCS3B01G027900 chr3B 81.937 382 58 9 2 379 11965524 11965898 4.450000e-81 313
3 TraesCS3B01G027900 chr3B 83.264 239 26 6 47 272 11946938 11946701 2.160000e-49 207
4 TraesCS3B01G027900 chr3A 92.189 2586 125 38 453 3022 15450939 15453463 0.000000e+00 3585
5 TraesCS3B01G027900 chr3A 88.788 1427 111 25 4535 5919 15454419 15455838 0.000000e+00 1703
6 TraesCS3B01G027900 chr3A 87.482 703 47 19 3208 3874 15453467 15454164 0.000000e+00 773
7 TraesCS3B01G027900 chr3A 92.876 379 27 0 2 380 15450537 15450915 8.670000e-153 551
8 TraesCS3B01G027900 chr3A 88.535 471 22 10 1080 1542 12150378 12149932 5.220000e-150 542
9 TraesCS3B01G027900 chr3A 97.479 238 6 0 1586 1823 12149935 12149698 1.990000e-109 407
10 TraesCS3B01G027900 chr3A 93.659 205 10 3 3944 4147 15454159 15454361 2.680000e-78 303
11 TraesCS3B01G027900 chr3A 82.286 350 39 8 476 816 12151774 12151439 1.260000e-71 281
12 TraesCS3B01G027900 chr3A 82.979 188 17 7 836 1013 12150556 12150374 7.940000e-34 156
13 TraesCS3B01G027900 chr3D 91.761 2209 110 39 836 3022 5761272 5759114 0.000000e+00 3005
14 TraesCS3B01G027900 chr3D 93.371 1418 60 17 4535 5919 5758084 5756668 0.000000e+00 2067
15 TraesCS3B01G027900 chr3D 89.713 1011 56 10 3175 4147 5759125 5758125 0.000000e+00 1247
16 TraesCS3B01G027900 chr3D 97.590 166 4 0 3012 3177 2113254 2113419 9.710000e-73 285
17 TraesCS3B01G027900 chr3D 97.041 169 5 0 3013 3181 522773376 522773208 9.710000e-73 285
18 TraesCS3B01G027900 chr3D 94.972 179 8 1 3001 3179 512609038 512608861 4.520000e-71 279
19 TraesCS3B01G027900 chr7D 91.406 2141 85 51 448 2536 42166108 42164015 0.000000e+00 2843
20 TraesCS3B01G027900 chr7D 88.025 1428 104 30 4535 5919 42162567 42161164 0.000000e+00 1628
21 TraesCS3B01G027900 chr7D 90.154 975 46 12 3207 4147 42163574 42162616 0.000000e+00 1223
22 TraesCS3B01G027900 chr7D 95.465 441 19 1 2 441 42173932 42173492 0.000000e+00 702
23 TraesCS3B01G027900 chr7D 94.505 182 8 2 3001 3182 517575225 517575404 4.520000e-71 279
24 TraesCS3B01G027900 chr7D 87.500 224 17 5 2698 2919 42163868 42163654 1.270000e-61 248
25 TraesCS3B01G027900 chr7D 82.486 177 30 1 1074 1250 191841198 191841023 2.860000e-33 154
26 TraesCS3B01G027900 chrUn 97.473 1385 35 0 4535 5919 35217242 35218626 0.000000e+00 2364
27 TraesCS3B01G027900 chrUn 95.574 1107 35 5 807 1900 35213867 35214972 0.000000e+00 1760
28 TraesCS3B01G027900 chrUn 91.938 1104 30 20 1939 3022 35215059 35216123 0.000000e+00 1491
29 TraesCS3B01G027900 chrUn 93.901 787 29 7 2 783 35213100 35213872 0.000000e+00 1170
30 TraesCS3B01G027900 chrUn 93.852 732 25 10 1939 2666 36385724 36386439 0.000000e+00 1085
31 TraesCS3B01G027900 chrUn 97.040 642 16 2 3509 4147 35216557 35217198 0.000000e+00 1077
32 TraesCS3B01G027900 chrUn 89.338 272 23 5 3175 3445 35216112 35216378 2.640000e-88 337
33 TraesCS3B01G027900 chrUn 81.790 324 47 10 2 320 272053112 272053428 1.640000e-65 261
34 TraesCS3B01G027900 chrUn 87.000 200 22 3 63 260 32303098 32302901 7.720000e-54 222
35 TraesCS3B01G027900 chr1B 80.583 721 111 22 1345 2049 599514415 599513708 4.060000e-146 529
36 TraesCS3B01G027900 chr1B 84.112 107 17 0 4644 4750 23019495 23019601 2.920000e-18 104
37 TraesCS3B01G027900 chr1D 80.055 722 123 17 1345 2049 441308941 441308224 3.160000e-142 516
38 TraesCS3B01G027900 chr1A 79.833 719 116 23 1352 2049 536652745 536653455 1.150000e-136 497
39 TraesCS3B01G027900 chr7A 97.059 170 4 1 3013 3182 115807687 115807519 9.710000e-73 285
40 TraesCS3B01G027900 chr7A 83.616 177 28 1 1074 1250 200634364 200634189 1.320000e-36 165
41 TraesCS3B01G027900 chr7A 81.921 177 29 3 1074 1250 200639334 200639161 4.780000e-31 147
42 TraesCS3B01G027900 chr5A 96.512 172 6 0 3006 3177 456897731 456897902 9.710000e-73 285
43 TraesCS3B01G027900 chr5A 95.977 174 5 2 3009 3182 290391864 290391693 1.260000e-71 281
44 TraesCS3B01G027900 chr2D 96.512 172 6 0 3013 3184 516708476 516708305 9.710000e-73 285
45 TraesCS3B01G027900 chr4D 95.977 174 5 2 3008 3181 93338210 93338039 1.260000e-71 281
46 TraesCS3B01G027900 chr7B 82.353 187 30 3 1074 1259 337158799 337158615 6.140000e-35 159


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 TraesCS3B01G027900 chr3B 12099374 12105292 5918 True 5108.500000 7659 100.000000 1 5919 2 chr3B.!!$R2 5918
1 TraesCS3B01G027900 chr3A 15450537 15455838 5301 False 1383.000000 3585 90.998800 2 5919 5 chr3A.!!$F1 5917
2 TraesCS3B01G027900 chr3A 12149698 12151774 2076 True 346.500000 542 87.819750 476 1823 4 chr3A.!!$R1 1347
3 TraesCS3B01G027900 chr3D 5756668 5761272 4604 True 2106.333333 3005 91.615000 836 5919 3 chr3D.!!$R3 5083
4 TraesCS3B01G027900 chr7D 42161164 42166108 4944 True 1485.500000 2843 89.271250 448 5919 4 chr7D.!!$R3 5471
5 TraesCS3B01G027900 chrUn 35213100 35218626 5526 False 1366.500000 2364 94.210667 2 5919 6 chrUn.!!$F3 5917
6 TraesCS3B01G027900 chrUn 36385724 36386439 715 False 1085.000000 1085 93.852000 1939 2666 1 chrUn.!!$F1 727
7 TraesCS3B01G027900 chr1B 599513708 599514415 707 True 529.000000 529 80.583000 1345 2049 1 chr1B.!!$R1 704
8 TraesCS3B01G027900 chr1D 441308224 441308941 717 True 516.000000 516 80.055000 1345 2049 1 chr1D.!!$R1 704
9 TraesCS3B01G027900 chr1A 536652745 536653455 710 False 497.000000 497 79.833000 1352 2049 1 chr1A.!!$F1 697

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
389 393 0.321564 TTCAAGCATCCGACAGTGGG 60.322 55.0 0.00 0.00 0.00 4.61 F
473 498 0.955428 GTGTTCGCTCATCTTGGGCA 60.955 55.0 0.00 0.00 46.28 5.36 F
1250 2204 0.393132 GGCTTCAGCTTCCTGGTACC 60.393 60.0 4.43 4.43 39.61 3.34 F
2822 3906 0.172578 CATCGCTCCTTACGTCACCA 59.827 55.0 0.00 0.00 0.00 4.17 F
3016 4105 0.108138 GCCTGCACTCCATCGTACTT 60.108 55.0 0.00 0.00 0.00 2.24 F
3322 4414 0.179468 TGGCCCCGTTTAGAGCATAC 59.821 55.0 0.00 0.00 0.00 2.39 F
3833 5047 0.035152 TTGGTATCCCTGCAGCACTG 60.035 55.0 8.66 0.00 0.00 3.66 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1250 2204 0.382515 GTGCTGGCTCGAGTAGTAGG 59.617 60.000 15.13 0.42 0.00 3.18 R
2335 3376 0.817013 CCCACACTTTGTGCACAAGT 59.183 50.000 29.50 24.91 46.51 3.16 R
2824 3908 0.170561 GCGATGTACTGACGGTGACT 59.829 55.000 0.00 0.00 0.00 3.41 R
3713 4927 0.763035 AACCCTTTACTCGGTGTGCT 59.237 50.000 0.00 0.00 30.96 4.40 R
3833 5047 1.754226 TGGCACTTGAAGGTGAAAACC 59.246 47.619 0.00 0.00 39.34 3.27 R
4823 6047 1.832883 AACACAAACACTGTCAGCCA 58.167 45.000 0.00 0.00 35.47 4.75 R
5784 7050 4.038642 GGGACAGGCTTTACAAATTTGTGA 59.961 41.667 29.72 21.12 42.31 3.58 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
59 60 5.387788 CATTGAATCCTATTCCATGGTGGA 58.612 41.667 12.58 14.99 46.61 4.02
164 165 8.302965 ACGGAAACTTTACAATTAGTACTCAC 57.697 34.615 0.00 0.00 30.91 3.51
264 268 5.015515 TGTGGACAATGCTATGGATTTTCA 58.984 37.500 0.00 0.00 0.00 2.69
374 378 0.884704 GAACTCGCACTGGCCTTCAA 60.885 55.000 3.32 0.00 36.38 2.69
379 383 1.509923 GCACTGGCCTTCAAGCATC 59.490 57.895 3.32 0.00 0.00 3.91
380 384 1.941999 GCACTGGCCTTCAAGCATCC 61.942 60.000 3.32 0.00 0.00 3.51
381 385 1.377725 ACTGGCCTTCAAGCATCCG 60.378 57.895 3.32 0.00 0.00 4.18
382 386 1.078214 CTGGCCTTCAAGCATCCGA 60.078 57.895 3.32 0.00 0.00 4.55
383 387 1.372087 CTGGCCTTCAAGCATCCGAC 61.372 60.000 3.32 0.00 0.00 4.79
384 388 1.377202 GGCCTTCAAGCATCCGACA 60.377 57.895 0.00 0.00 0.00 4.35
385 389 1.372087 GGCCTTCAAGCATCCGACAG 61.372 60.000 0.00 0.00 0.00 3.51
386 390 0.674895 GCCTTCAAGCATCCGACAGT 60.675 55.000 0.00 0.00 0.00 3.55
387 391 1.081892 CCTTCAAGCATCCGACAGTG 58.918 55.000 0.00 0.00 0.00 3.66
388 392 1.081892 CTTCAAGCATCCGACAGTGG 58.918 55.000 0.00 0.00 0.00 4.00
389 393 0.321564 TTCAAGCATCCGACAGTGGG 60.322 55.000 0.00 0.00 0.00 4.61
390 394 2.045926 AAGCATCCGACAGTGGGC 60.046 61.111 0.00 0.00 0.00 5.36
391 395 3.628646 AAGCATCCGACAGTGGGCC 62.629 63.158 0.00 0.00 0.00 5.80
393 397 3.770040 CATCCGACAGTGGGCCGA 61.770 66.667 0.00 0.00 0.00 5.54
394 398 3.000819 ATCCGACAGTGGGCCGAA 61.001 61.111 0.00 0.00 0.00 4.30
395 399 3.019003 ATCCGACAGTGGGCCGAAG 62.019 63.158 0.00 0.00 0.00 3.79
431 456 8.437742 CAGCAATCTTTATTTTTCCATGTGTTC 58.562 33.333 0.00 0.00 0.00 3.18
444 469 2.524569 TGTGTTCGCTCATCTTGTCA 57.475 45.000 0.00 0.00 0.00 3.58
473 498 0.955428 GTGTTCGCTCATCTTGGGCA 60.955 55.000 0.00 0.00 46.28 5.36
574 600 2.175069 AGATGGCTAGTTCGACTCCCTA 59.825 50.000 0.00 0.00 0.00 3.53
588 614 1.447838 CCCTACAAGTGCGCATCGT 60.448 57.895 15.91 13.99 0.00 3.73
638 670 3.777925 CGCCGTTCGCTGTTCAGG 61.778 66.667 1.97 0.00 34.21 3.86
654 686 3.319198 GGGTGAACGCCTCCAGGA 61.319 66.667 0.00 0.00 37.39 3.86
852 1757 2.169832 ACACTCCGTTGGTGAATCTG 57.830 50.000 6.65 0.00 38.01 2.90
855 1760 1.971357 ACTCCGTTGGTGAATCTGAGT 59.029 47.619 0.00 0.00 0.00 3.41
928 1870 4.082081 TGGCATCAGCAATCTTTTACCTTG 60.082 41.667 0.00 0.00 44.61 3.61
934 1879 7.346751 TCAGCAATCTTTTACCTTGAAAAGT 57.653 32.000 8.13 0.00 44.25 2.66
1013 1961 2.213499 CGGATCCATGGAGTTAAGCAC 58.787 52.381 21.33 3.04 0.00 4.40
1016 1964 0.981183 TCCATGGAGTTAAGCACGGT 59.019 50.000 11.44 0.00 0.00 4.83
1167 2121 2.561733 TGATCTCCGTCATGTTCGTC 57.438 50.000 10.74 4.37 0.00 4.20
1250 2204 0.393132 GGCTTCAGCTTCCTGGTACC 60.393 60.000 4.43 4.43 39.61 3.34
1264 2222 1.133976 TGGTACCCTACTACTCGAGCC 60.134 57.143 13.61 1.66 0.00 4.70
1321 2286 3.228188 TGTTCTTCTCCCACTTTGCAT 57.772 42.857 0.00 0.00 0.00 3.96
2088 3125 5.494724 TCTTCCTTCTCTTTGTGATGGATG 58.505 41.667 0.00 0.00 37.52 3.51
2514 3573 4.783764 ACAAGGCTTTATTTACTGCACC 57.216 40.909 0.00 0.00 0.00 5.01
2590 3654 3.579586 ACTTCCTTGGTTCGTATGTACCA 59.420 43.478 9.22 9.22 43.01 3.25
2693 3764 4.250116 CTAGCATGCAGGTAGGAGTAAG 57.750 50.000 21.98 0.00 43.09 2.34
2802 3877 2.650778 GCGAACCCTGCCAAAAGG 59.349 61.111 0.00 0.00 37.05 3.11
2814 3889 1.750193 CCAAAAGGCATCGCTCCTTA 58.250 50.000 3.67 0.00 42.75 2.69
2822 3906 0.172578 CATCGCTCCTTACGTCACCA 59.827 55.000 0.00 0.00 0.00 4.17
2824 3908 1.753930 TCGCTCCTTACGTCACCATA 58.246 50.000 0.00 0.00 0.00 2.74
2910 3995 3.055094 AGGGATAGAAACTGCGTTGTGAT 60.055 43.478 0.00 0.00 0.00 3.06
2911 3996 4.161565 AGGGATAGAAACTGCGTTGTGATA 59.838 41.667 0.00 0.00 0.00 2.15
2912 3997 4.873827 GGGATAGAAACTGCGTTGTGATAA 59.126 41.667 0.00 0.00 0.00 1.75
2913 3998 5.527582 GGGATAGAAACTGCGTTGTGATAAT 59.472 40.000 0.00 0.00 0.00 1.28
2914 3999 6.292919 GGGATAGAAACTGCGTTGTGATAATC 60.293 42.308 0.00 0.00 0.00 1.75
2915 4000 4.584029 AGAAACTGCGTTGTGATAATCG 57.416 40.909 0.00 0.00 0.00 3.34
3014 4103 1.521681 GGCCTGCACTCCATCGTAC 60.522 63.158 0.00 0.00 0.00 3.67
3015 4104 1.517832 GCCTGCACTCCATCGTACT 59.482 57.895 0.00 0.00 0.00 2.73
3016 4105 0.108138 GCCTGCACTCCATCGTACTT 60.108 55.000 0.00 0.00 0.00 2.24
3017 4106 1.927895 CCTGCACTCCATCGTACTTC 58.072 55.000 0.00 0.00 0.00 3.01
3018 4107 1.471676 CCTGCACTCCATCGTACTTCC 60.472 57.143 0.00 0.00 0.00 3.46
3019 4108 1.478510 CTGCACTCCATCGTACTTCCT 59.521 52.381 0.00 0.00 0.00 3.36
3020 4109 1.476891 TGCACTCCATCGTACTTCCTC 59.523 52.381 0.00 0.00 0.00 3.71
3021 4110 1.202428 GCACTCCATCGTACTTCCTCC 60.202 57.143 0.00 0.00 0.00 4.30
3022 4111 1.065701 CACTCCATCGTACTTCCTCCG 59.934 57.143 0.00 0.00 0.00 4.63
3023 4112 1.340795 ACTCCATCGTACTTCCTCCGT 60.341 52.381 0.00 0.00 0.00 4.69
3024 4113 1.749634 CTCCATCGTACTTCCTCCGTT 59.250 52.381 0.00 0.00 0.00 4.44
3025 4114 2.165845 CTCCATCGTACTTCCTCCGTTT 59.834 50.000 0.00 0.00 0.00 3.60
3026 4115 2.165030 TCCATCGTACTTCCTCCGTTTC 59.835 50.000 0.00 0.00 0.00 2.78
3027 4116 2.165845 CCATCGTACTTCCTCCGTTTCT 59.834 50.000 0.00 0.00 0.00 2.52
3028 4117 3.379372 CCATCGTACTTCCTCCGTTTCTA 59.621 47.826 0.00 0.00 0.00 2.10
3029 4118 4.142315 CCATCGTACTTCCTCCGTTTCTAA 60.142 45.833 0.00 0.00 0.00 2.10
3030 4119 5.404946 CATCGTACTTCCTCCGTTTCTAAA 58.595 41.667 0.00 0.00 0.00 1.85
3031 4120 5.649782 TCGTACTTCCTCCGTTTCTAAAT 57.350 39.130 0.00 0.00 0.00 1.40
3032 4121 6.757897 TCGTACTTCCTCCGTTTCTAAATA 57.242 37.500 0.00 0.00 0.00 1.40
3033 4122 7.338800 TCGTACTTCCTCCGTTTCTAAATAT 57.661 36.000 0.00 0.00 0.00 1.28
3034 4123 7.775120 TCGTACTTCCTCCGTTTCTAAATATT 58.225 34.615 0.00 0.00 0.00 1.28
3035 4124 8.253113 TCGTACTTCCTCCGTTTCTAAATATTT 58.747 33.333 5.89 5.89 0.00 1.40
3036 4125 8.325997 CGTACTTCCTCCGTTTCTAAATATTTG 58.674 37.037 11.05 1.65 0.00 2.32
3037 4126 9.159364 GTACTTCCTCCGTTTCTAAATATTTGT 57.841 33.333 11.05 0.00 0.00 2.83
3038 4127 8.265165 ACTTCCTCCGTTTCTAAATATTTGTC 57.735 34.615 11.05 0.00 0.00 3.18
3039 4128 8.101419 ACTTCCTCCGTTTCTAAATATTTGTCT 58.899 33.333 11.05 0.00 0.00 3.41
3040 4129 8.857694 TTCCTCCGTTTCTAAATATTTGTCTT 57.142 30.769 11.05 0.00 0.00 3.01
3041 4130 8.857694 TCCTCCGTTTCTAAATATTTGTCTTT 57.142 30.769 11.05 0.00 0.00 2.52
3042 4131 9.292195 TCCTCCGTTTCTAAATATTTGTCTTTT 57.708 29.630 11.05 0.00 0.00 2.27
3043 4132 9.908152 CCTCCGTTTCTAAATATTTGTCTTTTT 57.092 29.630 11.05 0.00 0.00 1.94
3060 4149 9.965824 TTGTCTTTTTAGAGATTTCAAATGGAC 57.034 29.630 0.00 0.00 0.00 4.02
3061 4150 9.354673 TGTCTTTTTAGAGATTTCAAATGGACT 57.645 29.630 0.00 0.00 0.00 3.85
3077 4166 3.900971 TGGACTACCACATACGGATGTA 58.099 45.455 14.23 0.00 44.82 2.29
3078 4167 4.476297 TGGACTACCACATACGGATGTAT 58.524 43.478 14.23 7.46 44.82 2.29
3079 4168 5.633117 TGGACTACCACATACGGATGTATA 58.367 41.667 14.23 8.27 44.82 1.47
3080 4169 6.250711 TGGACTACCACATACGGATGTATAT 58.749 40.000 14.23 4.37 44.82 0.86
3081 4170 7.404481 TGGACTACCACATACGGATGTATATA 58.596 38.462 14.23 5.36 44.82 0.86
3082 4171 7.555195 TGGACTACCACATACGGATGTATATAG 59.445 40.741 14.23 16.35 44.82 1.31
3083 4172 7.772292 GGACTACCACATACGGATGTATATAGA 59.228 40.741 22.62 5.04 44.82 1.98
3084 4173 8.503458 ACTACCACATACGGATGTATATAGAC 57.497 38.462 22.62 0.00 44.82 2.59
3085 4174 8.105197 ACTACCACATACGGATGTATATAGACA 58.895 37.037 22.62 2.07 44.82 3.41
3086 4175 7.956328 ACCACATACGGATGTATATAGACAT 57.044 36.000 14.23 12.70 44.82 3.06
3088 4177 9.642343 ACCACATACGGATGTATATAGACATAT 57.358 33.333 14.23 5.08 44.82 1.78
3118 4207 7.138692 AGTGTAGATTCACTCATTTTGCTTC 57.861 36.000 0.00 0.00 44.07 3.86
3119 4208 6.017933 GTGTAGATTCACTCATTTTGCTTCG 58.982 40.000 0.00 0.00 35.68 3.79
3120 4209 5.700832 TGTAGATTCACTCATTTTGCTTCGT 59.299 36.000 0.00 0.00 0.00 3.85
3121 4210 6.871492 TGTAGATTCACTCATTTTGCTTCGTA 59.129 34.615 0.00 0.00 0.00 3.43
3122 4211 6.992063 AGATTCACTCATTTTGCTTCGTAT 57.008 33.333 0.00 0.00 0.00 3.06
3123 4212 6.779117 AGATTCACTCATTTTGCTTCGTATG 58.221 36.000 0.00 0.00 0.00 2.39
3124 4213 5.940192 TTCACTCATTTTGCTTCGTATGT 57.060 34.783 0.00 0.00 0.00 2.29
3125 4214 7.549134 AGATTCACTCATTTTGCTTCGTATGTA 59.451 33.333 0.00 0.00 0.00 2.29
3126 4215 6.647212 TCACTCATTTTGCTTCGTATGTAG 57.353 37.500 0.00 0.00 0.00 2.74
3127 4216 6.163476 TCACTCATTTTGCTTCGTATGTAGT 58.837 36.000 0.00 0.00 0.00 2.73
3128 4217 6.310467 TCACTCATTTTGCTTCGTATGTAGTC 59.690 38.462 0.00 0.00 0.00 2.59
3129 4218 6.090763 CACTCATTTTGCTTCGTATGTAGTCA 59.909 38.462 0.00 0.00 0.00 3.41
3130 4219 6.090898 ACTCATTTTGCTTCGTATGTAGTCAC 59.909 38.462 0.00 0.00 0.00 3.67
3131 4220 6.163476 TCATTTTGCTTCGTATGTAGTCACT 58.837 36.000 0.00 0.00 0.00 3.41
3132 4221 6.649141 TCATTTTGCTTCGTATGTAGTCACTT 59.351 34.615 0.00 0.00 0.00 3.16
3133 4222 5.839262 TTTGCTTCGTATGTAGTCACTTG 57.161 39.130 0.00 0.00 0.00 3.16
3134 4223 4.514781 TGCTTCGTATGTAGTCACTTGT 57.485 40.909 0.00 0.00 0.00 3.16
3135 4224 4.878439 TGCTTCGTATGTAGTCACTTGTT 58.122 39.130 0.00 0.00 0.00 2.83
3136 4225 4.684242 TGCTTCGTATGTAGTCACTTGTTG 59.316 41.667 0.00 0.00 0.00 3.33
3137 4226 4.921515 GCTTCGTATGTAGTCACTTGTTGA 59.078 41.667 0.00 0.00 0.00 3.18
3138 4227 5.404366 GCTTCGTATGTAGTCACTTGTTGAA 59.596 40.000 0.00 0.00 35.39 2.69
3139 4228 6.073980 GCTTCGTATGTAGTCACTTGTTGAAA 60.074 38.462 0.00 0.00 35.39 2.69
3140 4229 7.360101 GCTTCGTATGTAGTCACTTGTTGAAAT 60.360 37.037 0.00 0.00 35.39 2.17
3141 4230 7.576750 TCGTATGTAGTCACTTGTTGAAATC 57.423 36.000 0.00 0.00 35.39 2.17
3142 4231 7.375834 TCGTATGTAGTCACTTGTTGAAATCT 58.624 34.615 0.00 0.00 35.39 2.40
3143 4232 7.541091 TCGTATGTAGTCACTTGTTGAAATCTC 59.459 37.037 0.00 0.00 35.39 2.75
3144 4233 7.542477 CGTATGTAGTCACTTGTTGAAATCTCT 59.458 37.037 0.00 0.00 35.39 3.10
3145 4234 9.856488 GTATGTAGTCACTTGTTGAAATCTCTA 57.144 33.333 0.00 0.00 35.39 2.43
3146 4235 8.994429 ATGTAGTCACTTGTTGAAATCTCTAG 57.006 34.615 0.00 0.00 35.39 2.43
3147 4236 8.178313 TGTAGTCACTTGTTGAAATCTCTAGA 57.822 34.615 0.00 0.00 35.39 2.43
3148 4237 8.638873 TGTAGTCACTTGTTGAAATCTCTAGAA 58.361 33.333 0.00 0.00 35.39 2.10
3149 4238 9.477484 GTAGTCACTTGTTGAAATCTCTAGAAA 57.523 33.333 0.00 0.00 35.39 2.52
3150 4239 8.600449 AGTCACTTGTTGAAATCTCTAGAAAG 57.400 34.615 0.00 0.00 35.39 2.62
3151 4240 8.424918 AGTCACTTGTTGAAATCTCTAGAAAGA 58.575 33.333 0.00 0.00 35.39 2.52
3152 4241 8.491950 GTCACTTGTTGAAATCTCTAGAAAGAC 58.508 37.037 0.00 0.00 35.39 3.01
3153 4242 8.204160 TCACTTGTTGAAATCTCTAGAAAGACA 58.796 33.333 0.00 0.00 0.00 3.41
3154 4243 8.830580 CACTTGTTGAAATCTCTAGAAAGACAA 58.169 33.333 0.00 0.00 0.00 3.18
3155 4244 9.396022 ACTTGTTGAAATCTCTAGAAAGACAAA 57.604 29.630 0.00 0.00 0.00 2.83
3167 4256 9.907576 CTCTAGAAAGACAAATATTTAGCAACG 57.092 33.333 0.00 0.00 0.00 4.10
3168 4257 8.879759 TCTAGAAAGACAAATATTTAGCAACGG 58.120 33.333 0.00 0.00 0.00 4.44
3169 4258 7.681939 AGAAAGACAAATATTTAGCAACGGA 57.318 32.000 0.00 0.00 0.00 4.69
3170 4259 7.752695 AGAAAGACAAATATTTAGCAACGGAG 58.247 34.615 0.00 0.00 0.00 4.63
3171 4260 6.436843 AAGACAAATATTTAGCAACGGAGG 57.563 37.500 0.00 0.00 0.00 4.30
3172 4261 5.741011 AGACAAATATTTAGCAACGGAGGA 58.259 37.500 0.00 0.00 0.00 3.71
3173 4262 6.177610 AGACAAATATTTAGCAACGGAGGAA 58.822 36.000 0.00 0.00 0.00 3.36
3174 4263 6.316390 AGACAAATATTTAGCAACGGAGGAAG 59.684 38.462 0.00 0.00 0.00 3.46
3175 4264 5.944007 ACAAATATTTAGCAACGGAGGAAGT 59.056 36.000 0.00 0.00 0.00 3.01
3176 4265 7.107542 ACAAATATTTAGCAACGGAGGAAGTA 58.892 34.615 0.00 0.00 0.00 2.24
3189 4278 2.588620 AGGAAGTAGTATCCTCCAGCG 58.411 52.381 0.00 0.00 44.01 5.18
3190 4279 1.000052 GGAAGTAGTATCCTCCAGCGC 60.000 57.143 0.00 0.00 33.98 5.92
3191 4280 0.669077 AAGTAGTATCCTCCAGCGCG 59.331 55.000 0.00 0.00 0.00 6.86
3222 4313 1.306148 GCCGGGGCTGAGTAATTAAC 58.694 55.000 2.18 0.00 38.26 2.01
3261 4352 1.305201 TGGTTGGACTCGTTCAAAGC 58.695 50.000 0.00 0.78 36.33 3.51
3322 4414 0.179468 TGGCCCCGTTTAGAGCATAC 59.821 55.000 0.00 0.00 0.00 2.39
3323 4415 0.179468 GGCCCCGTTTAGAGCATACA 59.821 55.000 0.00 0.00 0.00 2.29
3412 4509 4.862574 GCCATTTGGAACGAAAGAATTACC 59.137 41.667 0.00 0.00 37.39 2.85
3428 4526 8.706322 AAGAATTACCTTCCTGCTTTCTTTTA 57.294 30.769 0.00 0.00 34.11 1.52
3434 4532 9.541143 TTACCTTCCTGCTTTCTTTTAAAATTG 57.459 29.630 0.09 0.00 0.00 2.32
3524 4738 4.274214 TGTGACTGCATCAAAAAGAGAGTG 59.726 41.667 0.00 0.00 39.72 3.51
3537 4751 7.394923 TCAAAAAGAGAGTGTTAGGGTTTTTCA 59.605 33.333 0.00 0.00 0.00 2.69
3587 4801 3.559238 ACACGCCATCTCAATTTCAAC 57.441 42.857 0.00 0.00 0.00 3.18
3713 4927 6.597672 CCTGTCTATAAGTGTGGCACAAATTA 59.402 38.462 23.90 22.55 44.16 1.40
3833 5047 0.035152 TTGGTATCCCTGCAGCACTG 60.035 55.000 8.66 0.00 0.00 3.66
4027 5244 9.502091 GATACAATATGACTTGTATAGGCCAAA 57.498 33.333 5.01 0.00 46.93 3.28
4644 5868 7.117236 CACTTTGTCGGTATAAACAAGCTTCTA 59.883 37.037 0.00 0.00 36.78 2.10
4823 6047 4.714308 TGTTCCTTCAGATTTGTTTTGGGT 59.286 37.500 0.00 0.00 0.00 4.51
4838 6062 0.751277 TGGGTGGCTGACAGTGTTTG 60.751 55.000 3.99 0.00 0.00 2.93
4959 6186 1.142748 GAGAGACTCCCCGTGCATG 59.857 63.158 0.00 0.00 0.00 4.06
5068 6295 6.693315 ATTACTTTGGTACCAATTGATCCG 57.307 37.500 27.57 12.19 35.70 4.18
5394 6630 2.675844 TCTTTCCGGCAATACAATCACG 59.324 45.455 0.00 0.00 0.00 4.35
5401 6637 3.498082 GGCAATACAATCACGACAAACC 58.502 45.455 0.00 0.00 0.00 3.27
5505 6741 1.760480 GCCACAACCACCCCAAGTT 60.760 57.895 0.00 0.00 0.00 2.66
5812 7078 0.321298 TGTAAAGCCTGTCCCTTCGC 60.321 55.000 0.00 0.00 0.00 4.70
5862 7142 8.220559 ACTATAAATTATCCATGACTTGCCACT 58.779 33.333 0.00 0.00 0.00 4.00
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 0.812412 CCGACCACAAACACGAAGGT 60.812 55.000 0.00 0.00 34.76 3.50
59 60 1.080638 TTTGGGAGGCACAAGGGTAT 58.919 50.000 0.00 0.00 0.00 2.73
110 111 7.907214 AAGACACAATATTACAGGTTCAGAC 57.093 36.000 0.00 0.00 0.00 3.51
288 292 5.304101 GCATATGAACACAAATATTCCCCCA 59.696 40.000 6.97 0.00 0.00 4.96
366 370 1.372087 CTGTCGGATGCTTGAAGGCC 61.372 60.000 0.00 0.00 0.00 5.19
374 378 4.101448 GGCCCACTGTCGGATGCT 62.101 66.667 0.00 0.00 0.00 3.79
389 393 1.227674 CTGGATAGTGGGCTTCGGC 60.228 63.158 0.00 0.00 40.88 5.54
390 394 1.227674 GCTGGATAGTGGGCTTCGG 60.228 63.158 0.00 0.00 0.00 4.30
391 395 0.107703 TTGCTGGATAGTGGGCTTCG 60.108 55.000 0.00 0.00 0.00 3.79
392 396 2.158696 AGATTGCTGGATAGTGGGCTTC 60.159 50.000 0.00 0.00 0.00 3.86
393 397 1.849039 AGATTGCTGGATAGTGGGCTT 59.151 47.619 0.00 0.00 0.00 4.35
394 398 1.516110 AGATTGCTGGATAGTGGGCT 58.484 50.000 0.00 0.00 0.00 5.19
395 399 2.355010 AAGATTGCTGGATAGTGGGC 57.645 50.000 0.00 0.00 0.00 5.36
396 400 6.966534 AAATAAAGATTGCTGGATAGTGGG 57.033 37.500 0.00 0.00 0.00 4.61
397 401 7.922811 GGAAAAATAAAGATTGCTGGATAGTGG 59.077 37.037 0.00 0.00 0.00 4.00
398 402 8.469200 TGGAAAAATAAAGATTGCTGGATAGTG 58.531 33.333 0.00 0.00 0.00 2.74
399 403 8.593945 TGGAAAAATAAAGATTGCTGGATAGT 57.406 30.769 0.00 0.00 0.00 2.12
506 532 3.243401 GCTAGGGTTTTGTGAACACTTGG 60.243 47.826 0.00 0.00 35.23 3.61
574 600 3.936585 AAAAACGATGCGCACTTGT 57.063 42.105 14.90 9.00 0.00 3.16
638 670 0.322546 ATTTCCTGGAGGCGTTCACC 60.323 55.000 0.00 0.00 34.44 4.02
823 1727 4.387862 CACCAACGGAGTGTTAAGATGTAC 59.612 45.833 0.00 0.00 45.00 2.90
824 1728 4.281435 TCACCAACGGAGTGTTAAGATGTA 59.719 41.667 2.32 0.00 45.00 2.29
825 1729 3.070446 TCACCAACGGAGTGTTAAGATGT 59.930 43.478 2.32 0.00 45.00 3.06
826 1730 3.659786 TCACCAACGGAGTGTTAAGATG 58.340 45.455 2.32 0.00 45.00 2.90
928 1870 2.162008 AGCGTCTCCGTCTCTACTTTTC 59.838 50.000 0.00 0.00 36.15 2.29
934 1879 0.743701 GGTCAGCGTCTCCGTCTCTA 60.744 60.000 0.00 0.00 36.15 2.43
1113 2061 1.890979 CAGCAGGCATCCCACGATC 60.891 63.158 0.00 0.00 0.00 3.69
1250 2204 0.382515 GTGCTGGCTCGAGTAGTAGG 59.617 60.000 15.13 0.42 0.00 3.18
1264 2222 3.182372 CCGTATCGTATGTGAATGTGCTG 59.818 47.826 0.00 0.00 0.00 4.41
1310 2275 3.578688 GACAAGCTAAATGCAAAGTGGG 58.421 45.455 0.00 0.00 45.94 4.61
1321 2286 3.306917 TGGTTCGATCGACAAGCTAAA 57.693 42.857 19.26 0.00 0.00 1.85
2335 3376 0.817013 CCCACACTTTGTGCACAAGT 59.183 50.000 29.50 24.91 46.51 3.16
2590 3654 1.273211 CCCAGTCAAAATGATGGGGGT 60.273 52.381 14.81 0.00 39.46 4.95
2802 3877 1.146358 GGTGACGTAAGGAGCGATGC 61.146 60.000 0.00 0.00 46.39 3.91
2814 3889 0.524862 GACGGTGACTATGGTGACGT 59.475 55.000 0.00 0.00 30.35 4.34
2822 3906 2.033049 GCGATGTACTGACGGTGACTAT 59.967 50.000 0.00 0.00 0.00 2.12
2824 3908 0.170561 GCGATGTACTGACGGTGACT 59.829 55.000 0.00 0.00 0.00 3.41
2910 3995 5.705905 TCCGATTAGAGATCTCTTGCGATTA 59.294 40.000 29.54 15.27 40.93 1.75
2911 3996 4.520874 TCCGATTAGAGATCTCTTGCGATT 59.479 41.667 29.54 8.75 40.93 3.34
2912 3997 4.075682 TCCGATTAGAGATCTCTTGCGAT 58.924 43.478 29.54 17.68 40.93 4.58
2913 3998 3.477530 TCCGATTAGAGATCTCTTGCGA 58.522 45.455 29.54 15.07 40.93 5.10
2914 3999 3.906014 TCCGATTAGAGATCTCTTGCG 57.094 47.619 29.54 25.84 40.93 4.85
2915 4000 3.978217 CGTTCCGATTAGAGATCTCTTGC 59.022 47.826 29.54 17.36 40.93 4.01
2916 4001 5.209240 GTCGTTCCGATTAGAGATCTCTTG 58.791 45.833 29.54 16.49 38.46 3.02
2917 4002 4.276431 GGTCGTTCCGATTAGAGATCTCTT 59.724 45.833 29.54 13.64 38.46 2.85
2918 4003 3.816523 GGTCGTTCCGATTAGAGATCTCT 59.183 47.826 27.69 27.69 39.85 3.10
2919 4004 3.058085 GGGTCGTTCCGATTAGAGATCTC 60.058 52.174 15.29 15.29 38.42 2.75
2920 4005 2.885894 GGGTCGTTCCGATTAGAGATCT 59.114 50.000 0.00 0.00 38.42 2.75
2921 4006 2.621998 TGGGTCGTTCCGATTAGAGATC 59.378 50.000 0.00 0.00 38.42 2.75
2922 4007 2.623889 CTGGGTCGTTCCGATTAGAGAT 59.376 50.000 0.00 0.00 38.42 2.75
2923 4008 2.022195 CTGGGTCGTTCCGATTAGAGA 58.978 52.381 0.00 0.00 38.42 3.10
2924 4009 1.749634 ACTGGGTCGTTCCGATTAGAG 59.250 52.381 0.00 0.00 38.42 2.43
2925 4010 1.747355 GACTGGGTCGTTCCGATTAGA 59.253 52.381 0.00 0.00 38.42 2.10
2926 4011 1.475280 TGACTGGGTCGTTCCGATTAG 59.525 52.381 0.00 0.00 38.42 1.73
2940 4025 1.226916 CAGCTAGCGCTCTGACTGG 60.227 63.158 16.34 0.00 45.15 4.00
3014 4103 8.494016 AGACAAATATTTAGAAACGGAGGAAG 57.506 34.615 0.00 0.00 0.00 3.46
3015 4104 8.857694 AAGACAAATATTTAGAAACGGAGGAA 57.142 30.769 0.00 0.00 0.00 3.36
3016 4105 8.857694 AAAGACAAATATTTAGAAACGGAGGA 57.142 30.769 0.00 0.00 0.00 3.71
3017 4106 9.908152 AAAAAGACAAATATTTAGAAACGGAGG 57.092 29.630 0.00 0.00 0.00 4.30
3034 4123 9.965824 GTCCATTTGAAATCTCTAAAAAGACAA 57.034 29.630 0.00 0.00 0.00 3.18
3035 4124 9.354673 AGTCCATTTGAAATCTCTAAAAAGACA 57.645 29.630 0.00 0.00 0.00 3.41
3039 4128 9.581289 TGGTAGTCCATTTGAAATCTCTAAAAA 57.419 29.630 0.00 0.00 39.03 1.94
3040 4129 9.010029 GTGGTAGTCCATTTGAAATCTCTAAAA 57.990 33.333 0.00 0.00 46.20 1.52
3041 4130 8.160765 TGTGGTAGTCCATTTGAAATCTCTAAA 58.839 33.333 0.00 0.00 46.20 1.85
3042 4131 7.685481 TGTGGTAGTCCATTTGAAATCTCTAA 58.315 34.615 0.00 0.00 46.20 2.10
3043 4132 7.252612 TGTGGTAGTCCATTTGAAATCTCTA 57.747 36.000 0.00 0.00 46.20 2.43
3044 4133 6.126863 TGTGGTAGTCCATTTGAAATCTCT 57.873 37.500 0.00 0.00 46.20 3.10
3045 4134 7.254455 CGTATGTGGTAGTCCATTTGAAATCTC 60.254 40.741 0.00 0.00 46.20 2.75
3046 4135 6.538742 CGTATGTGGTAGTCCATTTGAAATCT 59.461 38.462 0.00 0.00 46.20 2.40
3047 4136 6.238374 CCGTATGTGGTAGTCCATTTGAAATC 60.238 42.308 0.00 0.00 46.20 2.17
3048 4137 5.588648 CCGTATGTGGTAGTCCATTTGAAAT 59.411 40.000 0.00 0.00 46.20 2.17
3049 4138 4.938832 CCGTATGTGGTAGTCCATTTGAAA 59.061 41.667 0.00 0.00 46.20 2.69
3050 4139 4.223255 TCCGTATGTGGTAGTCCATTTGAA 59.777 41.667 0.00 0.00 46.20 2.69
3051 4140 3.770388 TCCGTATGTGGTAGTCCATTTGA 59.230 43.478 0.00 0.00 46.20 2.69
3052 4141 4.131649 TCCGTATGTGGTAGTCCATTTG 57.868 45.455 0.00 0.00 46.20 2.32
3053 4142 4.163458 ACATCCGTATGTGGTAGTCCATTT 59.837 41.667 0.00 0.00 44.79 2.32
3054 4143 3.709653 ACATCCGTATGTGGTAGTCCATT 59.290 43.478 0.00 0.00 44.79 3.16
3055 4144 3.305720 ACATCCGTATGTGGTAGTCCAT 58.694 45.455 0.00 0.00 44.79 3.41
3056 4145 2.742348 ACATCCGTATGTGGTAGTCCA 58.258 47.619 0.00 0.00 44.79 4.02
3057 4146 6.770746 ATATACATCCGTATGTGGTAGTCC 57.229 41.667 3.56 0.00 45.99 3.85
3058 4147 8.610896 GTCTATATACATCCGTATGTGGTAGTC 58.389 40.741 3.56 0.00 45.99 2.59
3059 4148 8.105197 TGTCTATATACATCCGTATGTGGTAGT 58.895 37.037 3.56 0.00 45.99 2.73
3060 4149 8.502105 TGTCTATATACATCCGTATGTGGTAG 57.498 38.462 3.56 3.93 45.99 3.18
3062 4151 7.956328 ATGTCTATATACATCCGTATGTGGT 57.044 36.000 3.56 0.00 45.99 4.16
3095 4184 6.017933 CGAAGCAAAATGAGTGAATCTACAC 58.982 40.000 0.00 0.00 40.60 2.90
3096 4185 5.700832 ACGAAGCAAAATGAGTGAATCTACA 59.299 36.000 0.00 0.00 0.00 2.74
3097 4186 6.170675 ACGAAGCAAAATGAGTGAATCTAC 57.829 37.500 0.00 0.00 0.00 2.59
3098 4187 7.549134 ACATACGAAGCAAAATGAGTGAATCTA 59.451 33.333 0.00 0.00 0.00 1.98
3099 4188 6.372659 ACATACGAAGCAAAATGAGTGAATCT 59.627 34.615 0.00 0.00 0.00 2.40
3100 4189 6.546395 ACATACGAAGCAAAATGAGTGAATC 58.454 36.000 0.00 0.00 0.00 2.52
3101 4190 6.500684 ACATACGAAGCAAAATGAGTGAAT 57.499 33.333 0.00 0.00 0.00 2.57
3102 4191 5.940192 ACATACGAAGCAAAATGAGTGAA 57.060 34.783 0.00 0.00 0.00 3.18
3103 4192 6.163476 ACTACATACGAAGCAAAATGAGTGA 58.837 36.000 0.00 0.00 0.00 3.41
3104 4193 6.090763 TGACTACATACGAAGCAAAATGAGTG 59.909 38.462 0.00 0.00 0.00 3.51
3105 4194 6.090898 GTGACTACATACGAAGCAAAATGAGT 59.909 38.462 0.00 0.00 0.00 3.41
3106 4195 6.311445 AGTGACTACATACGAAGCAAAATGAG 59.689 38.462 0.00 0.00 0.00 2.90
3107 4196 6.163476 AGTGACTACATACGAAGCAAAATGA 58.837 36.000 0.00 0.00 0.00 2.57
3108 4197 6.408858 AGTGACTACATACGAAGCAAAATG 57.591 37.500 0.00 0.00 0.00 2.32
3109 4198 6.426937 ACAAGTGACTACATACGAAGCAAAAT 59.573 34.615 0.00 0.00 0.00 1.82
3110 4199 5.756347 ACAAGTGACTACATACGAAGCAAAA 59.244 36.000 0.00 0.00 0.00 2.44
3111 4200 5.294356 ACAAGTGACTACATACGAAGCAAA 58.706 37.500 0.00 0.00 0.00 3.68
3112 4201 4.878439 ACAAGTGACTACATACGAAGCAA 58.122 39.130 0.00 0.00 0.00 3.91
3113 4202 4.514781 ACAAGTGACTACATACGAAGCA 57.485 40.909 0.00 0.00 0.00 3.91
3114 4203 4.921515 TCAACAAGTGACTACATACGAAGC 59.078 41.667 0.00 0.00 0.00 3.86
3115 4204 7.402811 TTTCAACAAGTGACTACATACGAAG 57.597 36.000 0.00 0.00 35.39 3.79
3116 4205 7.870954 AGATTTCAACAAGTGACTACATACGAA 59.129 33.333 0.00 0.00 35.39 3.85
3117 4206 7.375834 AGATTTCAACAAGTGACTACATACGA 58.624 34.615 0.00 0.00 35.39 3.43
3118 4207 7.542477 AGAGATTTCAACAAGTGACTACATACG 59.458 37.037 0.00 0.00 35.39 3.06
3119 4208 8.764524 AGAGATTTCAACAAGTGACTACATAC 57.235 34.615 0.00 0.00 35.39 2.39
3121 4210 8.807118 TCTAGAGATTTCAACAAGTGACTACAT 58.193 33.333 0.00 0.00 35.39 2.29
3122 4211 8.178313 TCTAGAGATTTCAACAAGTGACTACA 57.822 34.615 0.00 0.00 35.39 2.74
3123 4212 9.477484 TTTCTAGAGATTTCAACAAGTGACTAC 57.523 33.333 0.00 0.00 35.39 2.73
3124 4213 9.698309 CTTTCTAGAGATTTCAACAAGTGACTA 57.302 33.333 0.00 0.00 35.39 2.59
3125 4214 8.424918 TCTTTCTAGAGATTTCAACAAGTGACT 58.575 33.333 0.00 0.00 35.39 3.41
3126 4215 8.491950 GTCTTTCTAGAGATTTCAACAAGTGAC 58.508 37.037 0.00 0.00 35.39 3.67
3127 4216 8.204160 TGTCTTTCTAGAGATTTCAACAAGTGA 58.796 33.333 0.00 0.00 0.00 3.41
3128 4217 8.370493 TGTCTTTCTAGAGATTTCAACAAGTG 57.630 34.615 0.00 0.00 0.00 3.16
3129 4218 8.964476 TTGTCTTTCTAGAGATTTCAACAAGT 57.036 30.769 0.00 0.00 0.00 3.16
3141 4230 9.907576 CGTTGCTAAATATTTGTCTTTCTAGAG 57.092 33.333 11.05 0.00 0.00 2.43
3142 4231 8.879759 CCGTTGCTAAATATTTGTCTTTCTAGA 58.120 33.333 11.05 0.00 0.00 2.43
3143 4232 8.879759 TCCGTTGCTAAATATTTGTCTTTCTAG 58.120 33.333 11.05 0.00 0.00 2.43
3144 4233 8.780846 TCCGTTGCTAAATATTTGTCTTTCTA 57.219 30.769 11.05 0.00 0.00 2.10
3145 4234 7.148239 CCTCCGTTGCTAAATATTTGTCTTTCT 60.148 37.037 11.05 0.00 0.00 2.52
3146 4235 6.967199 CCTCCGTTGCTAAATATTTGTCTTTC 59.033 38.462 11.05 0.00 0.00 2.62
3147 4236 6.657541 TCCTCCGTTGCTAAATATTTGTCTTT 59.342 34.615 11.05 0.00 0.00 2.52
3148 4237 6.177610 TCCTCCGTTGCTAAATATTTGTCTT 58.822 36.000 11.05 0.00 0.00 3.01
3149 4238 5.741011 TCCTCCGTTGCTAAATATTTGTCT 58.259 37.500 11.05 0.00 0.00 3.41
3150 4239 6.093633 ACTTCCTCCGTTGCTAAATATTTGTC 59.906 38.462 11.05 3.17 0.00 3.18
3151 4240 5.944007 ACTTCCTCCGTTGCTAAATATTTGT 59.056 36.000 11.05 0.00 0.00 2.83
3152 4241 6.436843 ACTTCCTCCGTTGCTAAATATTTG 57.563 37.500 11.05 2.59 0.00 2.32
3153 4242 7.336396 ACTACTTCCTCCGTTGCTAAATATTT 58.664 34.615 5.89 5.89 0.00 1.40
3154 4243 6.885922 ACTACTTCCTCCGTTGCTAAATATT 58.114 36.000 0.00 0.00 0.00 1.28
3155 4244 6.481434 ACTACTTCCTCCGTTGCTAAATAT 57.519 37.500 0.00 0.00 0.00 1.28
3156 4245 5.927281 ACTACTTCCTCCGTTGCTAAATA 57.073 39.130 0.00 0.00 0.00 1.40
3157 4246 4.820894 ACTACTTCCTCCGTTGCTAAAT 57.179 40.909 0.00 0.00 0.00 1.40
3158 4247 5.163478 GGATACTACTTCCTCCGTTGCTAAA 60.163 44.000 0.00 0.00 0.00 1.85
3159 4248 4.340381 GGATACTACTTCCTCCGTTGCTAA 59.660 45.833 0.00 0.00 0.00 3.09
3160 4249 3.887716 GGATACTACTTCCTCCGTTGCTA 59.112 47.826 0.00 0.00 0.00 3.49
3161 4250 2.694109 GGATACTACTTCCTCCGTTGCT 59.306 50.000 0.00 0.00 0.00 3.91
3162 4251 3.095102 GGATACTACTTCCTCCGTTGC 57.905 52.381 0.00 0.00 0.00 4.17
3202 4291 0.913205 TTAATTACTCAGCCCCGGCA 59.087 50.000 8.74 0.00 44.88 5.69
3242 4333 1.305201 GCTTTGAACGAGTCCAACCA 58.695 50.000 0.00 0.00 0.00 3.67
3261 4352 0.803117 TAGCTCCACGTGACTTCTCG 59.197 55.000 19.30 0.00 38.62 4.04
3266 4357 2.826128 TCTTGATTAGCTCCACGTGACT 59.174 45.455 19.30 13.65 0.00 3.41
3378 4475 1.147473 CCAAATGGCGCCAAAGAAAC 58.853 50.000 36.33 0.00 0.00 2.78
3412 4509 7.719778 AGCAATTTTAAAAGAAAGCAGGAAG 57.280 32.000 6.79 0.00 0.00 3.46
3481 4669 5.532406 TCACAAAGAGAAGAAAACATGAGGG 59.468 40.000 0.00 0.00 0.00 4.30
3524 4738 8.951787 AAACTAAAACCATGAAAAACCCTAAC 57.048 30.769 0.00 0.00 0.00 2.34
3537 4751 9.147732 AGAAATTCCAAGAGAAACTAAAACCAT 57.852 29.630 0.00 0.00 38.21 3.55
3587 4801 2.867456 ACGTGCGAATAAGAAAACCG 57.133 45.000 0.00 0.00 0.00 4.44
3713 4927 0.763035 AACCCTTTACTCGGTGTGCT 59.237 50.000 0.00 0.00 30.96 4.40
3833 5047 1.754226 TGGCACTTGAAGGTGAAAACC 59.246 47.619 0.00 0.00 39.34 3.27
4644 5868 2.363975 CCAAAGCCCCTGCATGCAT 61.364 57.895 22.97 2.13 41.13 3.96
4823 6047 1.832883 AACACAAACACTGTCAGCCA 58.167 45.000 0.00 0.00 35.47 4.75
4848 6072 4.621991 TGCCTACGCAAGCAAAATAAAAA 58.378 34.783 0.00 0.00 43.74 1.94
4873 6100 8.050778 ACGTCAAAATTCTATCCTTTGCATTA 57.949 30.769 0.00 0.00 31.51 1.90
5325 6552 4.111577 ACCTTTGGACCTCCTTCATATGA 58.888 43.478 0.00 0.00 36.82 2.15
5394 6630 7.230712 TCTCCTTTGAGAAATTTAGGGTTTGTC 59.769 37.037 4.48 0.00 44.62 3.18
5784 7050 4.038642 GGGACAGGCTTTACAAATTTGTGA 59.961 41.667 29.72 21.12 42.31 3.58
5812 7078 4.516698 GGTTGCACTAATGATATGACCAGG 59.483 45.833 0.00 0.00 0.00 4.45
5862 7142 4.296621 TGCATCTAGGACTATACCGCTA 57.703 45.455 0.00 0.00 34.73 4.26


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

AutoCloner maintained by Alex Coulton.