Multiple sequence alignment - TraesCS5A01G334500

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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 TraesCS5A01G334500 chr5A 100.000 3242 0 0 1 3242 544036411 544033170 0.000000e+00 5987
1 TraesCS5A01G334500 chr5D 89.832 1967 139 18 919 2862 428474178 428472250 0.000000e+00 2468
2 TraesCS5A01G334500 chr5D 95.701 1419 46 5 903 2319 428460680 428459275 0.000000e+00 2268
3 TraesCS5A01G334500 chr5D 90.865 1445 104 11 903 2335 428465938 428464510 0.000000e+00 1912
4 TraesCS5A01G334500 chr5D 94.684 790 33 7 2346 3132 428459284 428458501 0.000000e+00 1218
5 TraesCS5A01G334500 chr5D 91.566 664 41 7 59 721 428461736 428461087 0.000000e+00 902
6 TraesCS5A01G334500 chr5D 89.072 668 23 15 59 721 428475272 428474650 0.000000e+00 784
7 TraesCS5A01G334500 chr5D 88.545 550 50 7 170 718 428466898 428466361 0.000000e+00 654
8 TraesCS5A01G334500 chr5D 82.079 558 78 12 2348 2890 428464471 428463921 1.060000e-124 457
9 TraesCS5A01G334500 chr5D 88.385 353 29 5 2855 3197 428470882 428470532 6.470000e-112 414
10 TraesCS5A01G334500 chr5D 77.644 331 68 5 2886 3211 115921846 115922175 2.550000e-46 196
11 TraesCS5A01G334500 chr5B 89.543 1444 117 10 915 2337 517651955 517650525 0.000000e+00 1799
12 TraesCS5A01G334500 chr5B 80.025 1582 253 41 1340 2892 687879819 687881366 0.000000e+00 1112
13 TraesCS5A01G334500 chr5B 90.977 665 41 8 59 718 517653063 517652413 0.000000e+00 878
14 TraesCS5A01G334500 chr5B 84.749 459 57 8 2439 2890 517648768 517648316 6.380000e-122 448
15 TraesCS5A01G334500 chr5B 100.000 113 0 0 738 850 8541757 8541645 3.280000e-50 209
16 TraesCS5A01G334500 chr3D 78.869 336 59 8 2885 3211 552882766 552882434 1.960000e-52 217
17 TraesCS5A01G334500 chr7B 100.000 113 0 0 738 850 696615549 696615437 3.280000e-50 209
18 TraesCS5A01G334500 chr7B 99.130 115 1 0 736 850 615742385 615742271 1.180000e-49 207
19 TraesCS5A01G334500 chr7B 99.130 115 1 0 736 850 648905209 648905323 1.180000e-49 207
20 TraesCS5A01G334500 chr7B 100.000 112 0 0 738 849 697249747 697249858 1.180000e-49 207
21 TraesCS5A01G334500 chr2B 100.000 113 0 0 738 850 387702115 387702227 3.280000e-50 209
22 TraesCS5A01G334500 chr1A 100.000 113 0 0 738 850 78293382 78293270 3.280000e-50 209
23 TraesCS5A01G334500 chrUn 99.123 114 1 0 738 851 12282240 12282127 4.240000e-49 206
24 TraesCS5A01G334500 chr4A 95.276 127 2 4 738 862 724226202 724226078 7.090000e-47 198


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 TraesCS5A01G334500 chr5A 544033170 544036411 3241 True 5987.000000 5987 100.000 1 3242 1 chr5A.!!$R1 3241
1 TraesCS5A01G334500 chr5D 428458501 428475272 16771 True 1230.777778 2468 90.081 59 3197 9 chr5D.!!$R1 3138
2 TraesCS5A01G334500 chr5B 687879819 687881366 1547 False 1112.000000 1112 80.025 1340 2892 1 chr5B.!!$F1 1552
3 TraesCS5A01G334500 chr5B 517648316 517653063 4747 True 1041.666667 1799 88.423 59 2890 3 chr5B.!!$R2 2831

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
825 9297 0.171455 ATAGCGTGCTATAGCGGAGC 59.829 55.0 22.98 22.98 45.83 4.70 F
877 9454 0.453793 TCAAGGTTGTTGCAACACGG 59.546 50.0 31.17 17.83 38.92 4.94 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1838 15705 1.004560 CTCAGCAAGAACGGCAGGA 60.005 57.895 0.0 0.0 0.0 3.86 R
2346 16217 1.203162 TGCCACCTTCCCAAATCACAT 60.203 47.619 0.0 0.0 0.0 3.21 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
33 34 9.097946 ACAACTTTAGTAGGGAGTATTACAAGT 57.902 33.333 0.00 0.00 0.00 3.16
34 35 9.939802 CAACTTTAGTAGGGAGTATTACAAGTT 57.060 33.333 0.00 0.00 0.00 2.66
166 172 7.977853 GCATTTGACTCTGATTAAAATGGTCAT 59.022 33.333 15.64 0.00 38.22 3.06
209 215 1.165907 TCACTTTGTTCGCTGGCAGG 61.166 55.000 17.64 6.64 0.00 4.85
211 217 3.273080 CTTTGTTCGCTGGCAGGGC 62.273 63.158 25.21 13.60 0.00 5.19
212 218 3.790416 TTTGTTCGCTGGCAGGGCT 62.790 57.895 25.21 0.00 0.00 5.19
217 223 2.280660 CGCTGGCAGGGCTCTATG 60.281 66.667 19.06 0.00 0.00 2.23
228 234 4.572795 GCAGGGCTCTATGACTTAAAGTTC 59.427 45.833 0.00 0.00 0.00 3.01
360 366 7.321984 CGCATGCATGTAATTATAAGACACTTG 59.678 37.037 26.79 0.00 0.00 3.16
396 406 1.203994 GGCATGAAGCTGCAACAGATT 59.796 47.619 0.00 0.00 43.01 2.40
408 418 4.328536 TGCAACAGATTAACCGTACCATT 58.671 39.130 0.00 0.00 0.00 3.16
455 465 1.302511 AATGACACACGTCCAGCCC 60.303 57.895 0.00 0.00 41.85 5.19
482 492 9.736414 ATATAACTAGCCACGATCTAAGACTTA 57.264 33.333 0.00 0.00 0.00 2.24
483 493 6.380095 AACTAGCCACGATCTAAGACTTAG 57.620 41.667 15.03 15.03 34.52 2.18
485 495 6.120905 ACTAGCCACGATCTAAGACTTAGAA 58.879 40.000 24.99 11.59 44.75 2.10
486 496 6.773685 ACTAGCCACGATCTAAGACTTAGAAT 59.226 38.462 24.99 15.12 44.75 2.40
505 515 5.755849 AGAATAAACCCACCATTGACTAGG 58.244 41.667 0.00 0.00 0.00 3.02
506 516 5.491078 AGAATAAACCCACCATTGACTAGGA 59.509 40.000 0.00 0.00 0.00 2.94
508 518 2.344093 ACCCACCATTGACTAGGAGT 57.656 50.000 0.00 0.00 0.00 3.85
616 8918 1.902508 CATCTGGTATGGAGGCCGTAT 59.097 52.381 0.00 0.00 0.00 3.06
682 8984 1.645710 ACAGATTCGTCCTTGGGTCT 58.354 50.000 0.00 0.00 0.00 3.85
718 9020 2.234661 ACAGATGTTGATTGCCGAGAGA 59.765 45.455 0.00 0.00 0.00 3.10
719 9021 2.864946 CAGATGTTGATTGCCGAGAGAG 59.135 50.000 0.00 0.00 0.00 3.20
720 9022 2.158986 AGATGTTGATTGCCGAGAGAGG 60.159 50.000 0.00 0.00 0.00 3.69
721 9023 0.976641 TGTTGATTGCCGAGAGAGGT 59.023 50.000 0.00 0.00 0.00 3.85
723 9025 2.166459 TGTTGATTGCCGAGAGAGGTAG 59.834 50.000 0.00 0.00 0.00 3.18
724 9026 2.145397 TGATTGCCGAGAGAGGTAGT 57.855 50.000 0.00 0.00 0.00 2.73
725 9027 2.025155 TGATTGCCGAGAGAGGTAGTC 58.975 52.381 0.00 0.00 34.22 2.59
726 9028 2.303175 GATTGCCGAGAGAGGTAGTCT 58.697 52.381 0.00 0.00 38.71 3.24
728 9030 0.328592 TGCCGAGAGAGGTAGTCTGT 59.671 55.000 0.00 0.00 34.71 3.41
729 9031 0.736053 GCCGAGAGAGGTAGTCTGTG 59.264 60.000 0.00 0.00 34.71 3.66
733 9035 2.933906 CGAGAGAGGTAGTCTGTGTCTC 59.066 54.545 0.00 0.00 34.71 3.36
734 9036 3.369052 CGAGAGAGGTAGTCTGTGTCTCT 60.369 52.174 8.63 8.63 45.30 3.10
735 9037 4.585879 GAGAGAGGTAGTCTGTGTCTCTT 58.414 47.826 9.74 0.00 43.20 2.85
736 9038 5.624967 CGAGAGAGGTAGTCTGTGTCTCTTA 60.625 48.000 9.74 0.00 43.20 2.10
737 9039 5.741011 AGAGAGGTAGTCTGTGTCTCTTAG 58.259 45.833 0.00 0.00 40.92 2.18
738 9040 4.266714 AGAGGTAGTCTGTGTCTCTTAGC 58.733 47.826 0.00 0.00 32.57 3.09
739 9041 3.011119 AGGTAGTCTGTGTCTCTTAGCG 58.989 50.000 0.00 0.00 0.00 4.26
740 9042 2.478200 GGTAGTCTGTGTCTCTTAGCGC 60.478 54.545 0.00 0.00 0.00 5.92
741 9043 1.540267 AGTCTGTGTCTCTTAGCGCT 58.460 50.000 17.26 17.26 0.00 5.92
742 9044 2.712709 AGTCTGTGTCTCTTAGCGCTA 58.287 47.619 14.45 14.45 0.00 4.26
743 9045 3.283751 AGTCTGTGTCTCTTAGCGCTAT 58.716 45.455 19.60 0.00 0.00 2.97
744 9046 3.697045 AGTCTGTGTCTCTTAGCGCTATT 59.303 43.478 19.60 0.00 0.00 1.73
745 9047 4.158764 AGTCTGTGTCTCTTAGCGCTATTT 59.841 41.667 19.60 0.00 0.00 1.40
750 9222 7.764443 TCTGTGTCTCTTAGCGCTATTTAAAAT 59.236 33.333 19.60 0.00 0.00 1.82
751 9223 7.684670 TGTGTCTCTTAGCGCTATTTAAAATG 58.315 34.615 19.60 0.00 0.00 2.32
755 9227 9.000018 GTCTCTTAGCGCTATTTAAAATGTTTG 58.000 33.333 19.60 0.00 0.00 2.93
757 9229 9.341899 CTCTTAGCGCTATTTAAAATGTTTGTT 57.658 29.630 19.60 0.00 0.00 2.83
758 9230 9.337091 TCTTAGCGCTATTTAAAATGTTTGTTC 57.663 29.630 19.60 0.00 0.00 3.18
762 9234 8.987890 AGCGCTATTTAAAATGTTTGTTCATTT 58.012 25.926 8.99 0.00 45.94 2.32
774 9246 5.997746 TGTTTGTTCATTTGTTTGGACCAAA 59.002 32.000 15.89 15.89 36.34 3.28
775 9247 6.148480 TGTTTGTTCATTTGTTTGGACCAAAG 59.852 34.615 20.14 8.25 35.45 2.77
776 9248 5.413309 TGTTCATTTGTTTGGACCAAAGT 57.587 34.783 20.14 4.29 35.45 2.66
778 9250 5.186797 TGTTCATTTGTTTGGACCAAAGTCT 59.813 36.000 20.14 2.95 43.05 3.24
779 9251 5.514274 TCATTTGTTTGGACCAAAGTCTC 57.486 39.130 20.14 8.94 43.05 3.36
780 9252 5.200483 TCATTTGTTTGGACCAAAGTCTCT 58.800 37.500 20.14 1.91 43.05 3.10
781 9253 5.656416 TCATTTGTTTGGACCAAAGTCTCTT 59.344 36.000 20.14 1.05 43.05 2.85
783 9255 6.693315 TTTGTTTGGACCAAAGTCTCTTAG 57.307 37.500 20.14 0.00 43.05 2.18
784 9256 4.134563 TGTTTGGACCAAAGTCTCTTAGC 58.865 43.478 20.14 5.76 43.05 3.09
785 9257 2.743636 TGGACCAAAGTCTCTTAGCG 57.256 50.000 0.00 0.00 43.05 4.26
786 9258 1.337823 TGGACCAAAGTCTCTTAGCGC 60.338 52.381 0.00 0.00 43.05 5.92
787 9259 1.337823 GGACCAAAGTCTCTTAGCGCA 60.338 52.381 11.47 0.00 43.05 6.09
788 9260 2.413837 GACCAAAGTCTCTTAGCGCAA 58.586 47.619 11.47 0.50 40.10 4.85
789 9261 2.413453 GACCAAAGTCTCTTAGCGCAAG 59.587 50.000 11.47 11.67 40.10 4.01
790 9262 2.037251 ACCAAAGTCTCTTAGCGCAAGA 59.963 45.455 11.47 15.40 41.10 3.02
791 9263 2.413453 CCAAAGTCTCTTAGCGCAAGAC 59.587 50.000 11.47 16.26 38.39 3.01
793 9265 1.551452 AGTCTCTTAGCGCAAGACCT 58.449 50.000 21.13 14.93 40.21 3.85
794 9266 1.896465 AGTCTCTTAGCGCAAGACCTT 59.104 47.619 21.13 7.87 40.21 3.50
795 9267 2.300437 AGTCTCTTAGCGCAAGACCTTT 59.700 45.455 21.13 7.34 40.21 3.11
796 9268 3.067833 GTCTCTTAGCGCAAGACCTTTT 58.932 45.455 11.47 0.00 38.39 2.27
797 9269 3.067106 TCTCTTAGCGCAAGACCTTTTG 58.933 45.455 11.47 4.34 38.39 2.44
799 9271 3.994392 CTCTTAGCGCAAGACCTTTTGTA 59.006 43.478 11.47 0.00 38.39 2.41
800 9272 4.382291 TCTTAGCGCAAGACCTTTTGTAA 58.618 39.130 11.47 0.00 38.39 2.41
802 9274 3.349488 AGCGCAAGACCTTTTGTAAAC 57.651 42.857 11.47 0.00 43.02 2.01
803 9275 2.041244 GCGCAAGACCTTTTGTAAACG 58.959 47.619 0.30 0.00 43.02 3.60
805 9277 2.286772 CGCAAGACCTTTTGTAAACGCT 60.287 45.455 0.00 0.00 43.02 5.07
806 9278 3.059461 CGCAAGACCTTTTGTAAACGCTA 60.059 43.478 0.00 0.00 43.02 4.26
808 9280 5.163933 CGCAAGACCTTTTGTAAACGCTATA 60.164 40.000 0.00 0.00 43.02 1.31
810 9282 6.248631 CAAGACCTTTTGTAAACGCTATAGC 58.751 40.000 15.09 15.09 37.78 2.97
825 9297 0.171455 ATAGCGTGCTATAGCGGAGC 59.829 55.000 22.98 22.98 45.83 4.70
848 9320 5.469084 GCTATAGCGGGCTATTTAAAACAGT 59.531 40.000 17.49 0.00 39.65 3.55
849 9321 5.751243 ATAGCGGGCTATTTAAAACAGTG 57.249 39.130 7.36 0.00 35.92 3.66
877 9454 0.453793 TCAAGGTTGTTGCAACACGG 59.546 50.000 31.17 17.83 38.92 4.94
880 9457 1.305201 AGGTTGTTGCAACACGGTAG 58.695 50.000 31.17 0.00 38.92 3.18
881 9458 1.018910 GGTTGTTGCAACACGGTAGT 58.981 50.000 31.17 0.00 38.92 2.73
882 9459 1.402613 GGTTGTTGCAACACGGTAGTT 59.597 47.619 31.17 0.00 38.92 2.24
884 9461 2.319136 TGTTGCAACACGGTAGTTCT 57.681 45.000 27.96 0.00 33.17 3.01
886 9463 3.011119 TGTTGCAACACGGTAGTTCTTT 58.989 40.909 27.96 0.00 33.17 2.52
888 9465 4.082679 TGTTGCAACACGGTAGTTCTTTTT 60.083 37.500 27.96 0.00 33.17 1.94
917 9494 4.932268 TGCAACACGGTAGTAATTAAGC 57.068 40.909 0.00 0.00 0.00 3.09
934 9511 5.479716 TTAAGCTTATTTTAGCCGTCTGC 57.520 39.130 7.08 0.00 42.20 4.26
953 9530 7.136119 CGTCTGCTTTGTTGGACTAAATTAAA 58.864 34.615 0.00 0.00 0.00 1.52
955 9532 8.915654 GTCTGCTTTGTTGGACTAAATTAAATG 58.084 33.333 0.00 0.00 0.00 2.32
1189 9768 3.634202 CCGAGGGCAAGGAGATCA 58.366 61.111 0.00 0.00 0.00 2.92
1199 9778 2.676463 GCAAGGAGATCAAGAAGCTCGT 60.676 50.000 0.00 0.00 0.00 4.18
1268 9868 7.867445 AACATTTGTAGATTTAGCAAAACCG 57.133 32.000 0.00 0.00 36.00 4.44
1289 9889 5.105554 ACCGCACATTAATTAAGCATTGGAA 60.106 36.000 3.94 0.00 0.00 3.53
1320 9922 6.375736 GCCAGATCACACTATATGTCTAGCTA 59.624 42.308 0.00 0.00 40.64 3.32
1520 15378 2.481854 GAGTCATTGAGCAGCGATGAT 58.518 47.619 4.02 0.00 46.44 2.45
1673 15531 0.535780 GCAGGGATGATGATGGCGAA 60.536 55.000 0.00 0.00 0.00 4.70
1695 15553 4.374403 AGCCCCCTATATCAATAGCATCA 58.626 43.478 0.00 0.00 34.78 3.07
1725 15583 4.002982 TGGCAAACTCAAGCTAGTATGTG 58.997 43.478 0.00 0.00 0.00 3.21
1838 15705 2.041081 AGACACTGAGGCTCTACAGTCT 59.959 50.000 16.72 18.34 44.07 3.24
1931 15798 5.277974 CCATGATAACAATTCCGGTCATGAC 60.278 44.000 22.24 17.91 43.30 3.06
2217 16084 2.504175 CCTTCCCCTAATCGTGAGGAAA 59.496 50.000 2.19 0.00 36.22 3.13
2221 16088 2.500098 CCCCTAATCGTGAGGAAACTGA 59.500 50.000 2.19 0.00 44.43 3.41
2319 16190 1.760192 AAGAGGCAAGATGGATGTGC 58.240 50.000 0.00 0.00 37.55 4.57
2322 16193 2.410469 GCAAGATGGATGTGCGGC 59.590 61.111 0.00 0.00 0.00 6.53
2337 16208 1.440850 CGGCGTGTGATGTGCTTTG 60.441 57.895 0.00 0.00 0.00 2.77
2339 16210 0.871722 GGCGTGTGATGTGCTTTGTA 59.128 50.000 0.00 0.00 0.00 2.41
2342 16213 3.367607 GCGTGTGATGTGCTTTGTAAAA 58.632 40.909 0.00 0.00 0.00 1.52
2346 16217 5.685068 CGTGTGATGTGCTTTGTAAAATTGA 59.315 36.000 0.00 0.00 0.00 2.57
2522 18053 4.044065 AGAGATGTGTTTCCAATAACCCCA 59.956 41.667 0.00 0.00 0.00 4.96
2537 18068 7.309920 CAATAACCCCATATACCGTAATTTGC 58.690 38.462 0.00 0.00 0.00 3.68
2599 18138 1.136891 GGCAGACTTGTTGCAAAAGGT 59.863 47.619 3.66 3.66 43.28 3.50
2717 18259 6.818644 TCTTCGACAAGGAGAATCTTAATTGG 59.181 38.462 7.57 0.00 33.73 3.16
2874 18416 1.293062 ATGTCTTGAGGGGCAGATGT 58.707 50.000 0.00 0.00 0.00 3.06
2898 18441 1.480137 CAAAGCACTGTTGTTGGGGAA 59.520 47.619 0.00 0.00 0.00 3.97
2901 18444 1.109323 GCACTGTTGTTGGGGAAGCT 61.109 55.000 0.00 0.00 0.00 3.74
2917 18460 1.649321 AGCTCAAGACCCTCACATGA 58.351 50.000 0.00 0.00 0.00 3.07
2918 18461 2.194859 AGCTCAAGACCCTCACATGAT 58.805 47.619 0.00 0.00 0.00 2.45
2924 18467 0.734889 GACCCTCACATGATTTGCCG 59.265 55.000 0.00 0.00 0.00 5.69
2934 18477 0.309302 TGATTTGCCGTTGTGTTCCG 59.691 50.000 0.00 0.00 0.00 4.30
2979 18522 5.427036 TGTCCGTTCACCTTTGTTAAATC 57.573 39.130 0.00 0.00 0.00 2.17
2981 18524 5.209977 GTCCGTTCACCTTTGTTAAATCAC 58.790 41.667 0.00 0.00 0.00 3.06
3008 18551 3.947612 ATGATGCCTCCTCAACTTGAT 57.052 42.857 0.00 0.00 0.00 2.57
3017 18560 5.665459 CCTCCTCAACTTGATAATCGTTCT 58.335 41.667 0.00 0.00 0.00 3.01
3058 18601 2.621055 CCCAATCAAGGTTCGTGTTCAA 59.379 45.455 0.00 0.00 0.00 2.69
3062 18605 2.571212 TCAAGGTTCGTGTTCAAGCAT 58.429 42.857 0.00 0.00 0.00 3.79
3065 18608 1.531149 AGGTTCGTGTTCAAGCATTCG 59.469 47.619 0.00 0.00 0.00 3.34
3093 18636 3.133542 TCTGGATGCTCCTATGTTGTCTG 59.866 47.826 4.21 0.00 37.46 3.51
3099 18642 1.210478 CTCCTATGTTGTCTGGTGGGG 59.790 57.143 0.00 0.00 0.00 4.96
3129 18672 3.188786 GCCGGAGCAGTGCGTTAG 61.189 66.667 5.05 1.56 39.53 2.34
3131 18674 2.261671 CGGAGCAGTGCGTTAGGT 59.738 61.111 10.00 0.00 31.86 3.08
3133 18676 1.626654 CGGAGCAGTGCGTTAGGTTG 61.627 60.000 10.00 0.00 31.86 3.77
3134 18677 0.602905 GGAGCAGTGCGTTAGGTTGT 60.603 55.000 10.00 0.00 0.00 3.32
3135 18678 1.226746 GAGCAGTGCGTTAGGTTGTT 58.773 50.000 10.00 0.00 0.00 2.83
3136 18679 1.602377 GAGCAGTGCGTTAGGTTGTTT 59.398 47.619 10.00 0.00 0.00 2.83
3137 18680 2.021457 AGCAGTGCGTTAGGTTGTTTT 58.979 42.857 10.00 0.00 0.00 2.43
3138 18681 2.032924 AGCAGTGCGTTAGGTTGTTTTC 59.967 45.455 10.00 0.00 0.00 2.29
3139 18682 2.223386 GCAGTGCGTTAGGTTGTTTTCA 60.223 45.455 0.00 0.00 0.00 2.69
3140 18683 3.732471 GCAGTGCGTTAGGTTGTTTTCAA 60.732 43.478 0.00 0.00 37.48 2.69
3141 18684 4.416620 CAGTGCGTTAGGTTGTTTTCAAA 58.583 39.130 0.00 0.00 41.76 2.69
3142 18685 4.499040 CAGTGCGTTAGGTTGTTTTCAAAG 59.501 41.667 0.00 0.00 41.76 2.77
3143 18686 4.157105 AGTGCGTTAGGTTGTTTTCAAAGT 59.843 37.500 0.00 0.00 41.76 2.66
3144 18687 5.354792 AGTGCGTTAGGTTGTTTTCAAAGTA 59.645 36.000 0.00 0.00 41.76 2.24
3145 18688 6.038936 AGTGCGTTAGGTTGTTTTCAAAGTAT 59.961 34.615 0.00 0.00 41.76 2.12
3146 18689 6.693978 GTGCGTTAGGTTGTTTTCAAAGTATT 59.306 34.615 0.00 0.00 41.76 1.89
3147 18690 6.693545 TGCGTTAGGTTGTTTTCAAAGTATTG 59.306 34.615 0.00 0.00 41.76 1.90
3148 18691 6.143278 GCGTTAGGTTGTTTTCAAAGTATTGG 59.857 38.462 0.00 0.00 41.76 3.16
3149 18692 7.197703 CGTTAGGTTGTTTTCAAAGTATTGGT 58.802 34.615 0.00 0.00 41.76 3.67
3150 18693 8.344098 CGTTAGGTTGTTTTCAAAGTATTGGTA 58.656 33.333 0.00 0.00 41.76 3.25
3154 18697 8.700973 AGGTTGTTTTCAAAGTATTGGTATTGT 58.299 29.630 0.00 0.00 41.76 2.71
3155 18698 8.760569 GGTTGTTTTCAAAGTATTGGTATTGTG 58.239 33.333 0.00 0.00 41.76 3.33
3156 18699 9.522804 GTTGTTTTCAAAGTATTGGTATTGTGA 57.477 29.630 0.00 0.00 41.76 3.58
3158 18701 9.906660 TGTTTTCAAAGTATTGGTATTGTGATC 57.093 29.630 0.00 0.00 37.15 2.92
3159 18702 9.353999 GTTTTCAAAGTATTGGTATTGTGATCC 57.646 33.333 0.00 0.00 37.15 3.36
3160 18703 7.639113 TTCAAAGTATTGGTATTGTGATCCC 57.361 36.000 0.00 0.00 37.15 3.85
3161 18704 6.969043 TCAAAGTATTGGTATTGTGATCCCT 58.031 36.000 0.00 0.00 37.15 4.20
3162 18705 7.054124 TCAAAGTATTGGTATTGTGATCCCTC 58.946 38.462 0.00 0.00 37.15 4.30
3163 18706 5.215252 AGTATTGGTATTGTGATCCCTCG 57.785 43.478 0.00 0.00 0.00 4.63
3164 18707 4.899457 AGTATTGGTATTGTGATCCCTCGA 59.101 41.667 0.00 0.00 0.00 4.04
3165 18708 3.536956 TTGGTATTGTGATCCCTCGAC 57.463 47.619 0.00 0.00 0.00 4.20
3166 18709 1.407618 TGGTATTGTGATCCCTCGACG 59.592 52.381 0.00 0.00 0.00 5.12
3167 18710 1.679680 GGTATTGTGATCCCTCGACGA 59.320 52.381 0.00 0.00 0.00 4.20
3168 18711 2.543238 GGTATTGTGATCCCTCGACGAC 60.543 54.545 0.00 0.00 0.00 4.34
3169 18712 1.182667 ATTGTGATCCCTCGACGACA 58.817 50.000 0.00 0.00 0.00 4.35
3170 18713 0.242825 TTGTGATCCCTCGACGACAC 59.757 55.000 8.21 8.21 0.00 3.67
3171 18714 1.139095 GTGATCCCTCGACGACACC 59.861 63.158 0.00 0.00 0.00 4.16
3172 18715 2.050350 TGATCCCTCGACGACACCC 61.050 63.158 0.00 0.00 0.00 4.61
3173 18716 2.036731 ATCCCTCGACGACACCCA 59.963 61.111 0.00 0.00 0.00 4.51
3174 18717 1.601419 GATCCCTCGACGACACCCAA 61.601 60.000 0.00 0.00 0.00 4.12
3175 18718 1.885163 ATCCCTCGACGACACCCAAC 61.885 60.000 0.00 0.00 0.00 3.77
3176 18719 2.732016 CCTCGACGACACCCAACA 59.268 61.111 0.00 0.00 0.00 3.33
3177 18720 1.292223 CCTCGACGACACCCAACAT 59.708 57.895 0.00 0.00 0.00 2.71
3178 18721 0.736325 CCTCGACGACACCCAACATC 60.736 60.000 0.00 0.00 0.00 3.06
3179 18722 0.243907 CTCGACGACACCCAACATCT 59.756 55.000 0.00 0.00 0.00 2.90
3180 18723 1.471287 CTCGACGACACCCAACATCTA 59.529 52.381 0.00 0.00 0.00 1.98
3181 18724 1.200716 TCGACGACACCCAACATCTAC 59.799 52.381 0.00 0.00 0.00 2.59
3182 18725 1.201647 CGACGACACCCAACATCTACT 59.798 52.381 0.00 0.00 0.00 2.57
3183 18726 2.352421 CGACGACACCCAACATCTACTT 60.352 50.000 0.00 0.00 0.00 2.24
3184 18727 2.993899 GACGACACCCAACATCTACTTG 59.006 50.000 0.00 0.00 0.00 3.16
3185 18728 2.367567 ACGACACCCAACATCTACTTGT 59.632 45.455 0.00 0.00 0.00 3.16
3186 18729 2.736721 CGACACCCAACATCTACTTGTG 59.263 50.000 0.00 0.00 0.00 3.33
3187 18730 2.484264 GACACCCAACATCTACTTGTGC 59.516 50.000 0.00 0.00 0.00 4.57
3188 18731 2.158682 ACACCCAACATCTACTTGTGCA 60.159 45.455 0.00 0.00 0.00 4.57
3189 18732 3.084039 CACCCAACATCTACTTGTGCAT 58.916 45.455 0.00 0.00 0.00 3.96
3190 18733 3.507233 CACCCAACATCTACTTGTGCATT 59.493 43.478 0.00 0.00 0.00 3.56
3191 18734 4.022068 CACCCAACATCTACTTGTGCATTT 60.022 41.667 0.00 0.00 0.00 2.32
3192 18735 4.218417 ACCCAACATCTACTTGTGCATTTC 59.782 41.667 0.00 0.00 0.00 2.17
3193 18736 4.406069 CCAACATCTACTTGTGCATTTCG 58.594 43.478 0.00 0.00 0.00 3.46
3194 18737 4.083324 CCAACATCTACTTGTGCATTTCGT 60.083 41.667 0.00 0.00 0.00 3.85
3195 18738 4.668576 ACATCTACTTGTGCATTTCGTG 57.331 40.909 0.00 0.00 0.00 4.35
3196 18739 3.436704 ACATCTACTTGTGCATTTCGTGG 59.563 43.478 0.00 0.00 0.00 4.94
3197 18740 3.120321 TCTACTTGTGCATTTCGTGGT 57.880 42.857 0.00 0.00 0.00 4.16
3198 18741 2.805671 TCTACTTGTGCATTTCGTGGTG 59.194 45.455 0.00 0.00 0.00 4.17
3199 18742 1.674359 ACTTGTGCATTTCGTGGTGA 58.326 45.000 0.00 0.00 0.00 4.02
3200 18743 2.229792 ACTTGTGCATTTCGTGGTGAT 58.770 42.857 0.00 0.00 0.00 3.06
3201 18744 2.030893 ACTTGTGCATTTCGTGGTGATG 60.031 45.455 0.00 0.00 0.00 3.07
3202 18745 0.880441 TGTGCATTTCGTGGTGATGG 59.120 50.000 0.00 0.00 0.00 3.51
3203 18746 0.881118 GTGCATTTCGTGGTGATGGT 59.119 50.000 0.00 0.00 0.00 3.55
3204 18747 1.135689 GTGCATTTCGTGGTGATGGTC 60.136 52.381 0.00 0.00 0.00 4.02
3205 18748 1.271325 TGCATTTCGTGGTGATGGTCT 60.271 47.619 0.00 0.00 0.00 3.85
3206 18749 1.812571 GCATTTCGTGGTGATGGTCTT 59.187 47.619 0.00 0.00 0.00 3.01
3207 18750 2.228822 GCATTTCGTGGTGATGGTCTTT 59.771 45.455 0.00 0.00 0.00 2.52
3208 18751 3.670627 GCATTTCGTGGTGATGGTCTTTC 60.671 47.826 0.00 0.00 0.00 2.62
3209 18752 3.485463 TTTCGTGGTGATGGTCTTTCT 57.515 42.857 0.00 0.00 0.00 2.52
3210 18753 2.455674 TCGTGGTGATGGTCTTTCTG 57.544 50.000 0.00 0.00 0.00 3.02
3211 18754 1.001974 TCGTGGTGATGGTCTTTCTGG 59.998 52.381 0.00 0.00 0.00 3.86
3212 18755 1.826385 GTGGTGATGGTCTTTCTGGG 58.174 55.000 0.00 0.00 0.00 4.45
3213 18756 0.038166 TGGTGATGGTCTTTCTGGGC 59.962 55.000 0.00 0.00 0.00 5.36
3214 18757 1.026718 GGTGATGGTCTTTCTGGGCG 61.027 60.000 0.00 0.00 0.00 6.13
3215 18758 0.321653 GTGATGGTCTTTCTGGGCGT 60.322 55.000 0.00 0.00 0.00 5.68
3216 18759 0.036388 TGATGGTCTTTCTGGGCGTC 60.036 55.000 0.00 0.00 0.00 5.19
3217 18760 0.744771 GATGGTCTTTCTGGGCGTCC 60.745 60.000 0.00 0.00 0.00 4.79
3218 18761 1.488705 ATGGTCTTTCTGGGCGTCCA 61.489 55.000 9.26 9.26 41.58 4.02
3219 18762 1.299976 GGTCTTTCTGGGCGTCCAT 59.700 57.895 10.40 0.00 43.11 3.41
3220 18763 0.322546 GGTCTTTCTGGGCGTCCATT 60.323 55.000 10.40 0.00 43.11 3.16
3221 18764 1.534729 GTCTTTCTGGGCGTCCATTT 58.465 50.000 10.40 0.00 43.11 2.32
3222 18765 1.468914 GTCTTTCTGGGCGTCCATTTC 59.531 52.381 10.40 0.00 43.11 2.17
3223 18766 0.811281 CTTTCTGGGCGTCCATTTCC 59.189 55.000 10.40 0.00 43.11 3.13
3224 18767 0.404040 TTTCTGGGCGTCCATTTCCT 59.596 50.000 10.40 0.00 43.11 3.36
3225 18768 0.035439 TTCTGGGCGTCCATTTCCTC 60.035 55.000 10.40 0.00 43.11 3.71
3226 18769 0.909610 TCTGGGCGTCCATTTCCTCT 60.910 55.000 10.40 0.00 43.11 3.69
3227 18770 0.035056 CTGGGCGTCCATTTCCTCTT 60.035 55.000 10.40 0.00 43.11 2.85
3228 18771 0.035439 TGGGCGTCCATTTCCTCTTC 60.035 55.000 3.51 0.00 38.32 2.87
3229 18772 0.253327 GGGCGTCCATTTCCTCTTCT 59.747 55.000 0.00 0.00 0.00 2.85
3230 18773 1.340114 GGGCGTCCATTTCCTCTTCTT 60.340 52.381 0.00 0.00 0.00 2.52
3231 18774 2.010497 GGCGTCCATTTCCTCTTCTTC 58.990 52.381 0.00 0.00 0.00 2.87
3232 18775 2.355209 GGCGTCCATTTCCTCTTCTTCT 60.355 50.000 0.00 0.00 0.00 2.85
3233 18776 3.339141 GCGTCCATTTCCTCTTCTTCTT 58.661 45.455 0.00 0.00 0.00 2.52
3234 18777 3.753797 GCGTCCATTTCCTCTTCTTCTTT 59.246 43.478 0.00 0.00 0.00 2.52
3235 18778 4.216472 GCGTCCATTTCCTCTTCTTCTTTT 59.784 41.667 0.00 0.00 0.00 2.27
3236 18779 5.411669 GCGTCCATTTCCTCTTCTTCTTTTA 59.588 40.000 0.00 0.00 0.00 1.52
3237 18780 6.072673 GCGTCCATTTCCTCTTCTTCTTTTAA 60.073 38.462 0.00 0.00 0.00 1.52
3238 18781 7.298854 CGTCCATTTCCTCTTCTTCTTTTAAC 58.701 38.462 0.00 0.00 0.00 2.01
3239 18782 7.573283 CGTCCATTTCCTCTTCTTCTTTTAACC 60.573 40.741 0.00 0.00 0.00 2.85
3240 18783 7.448777 GTCCATTTCCTCTTCTTCTTTTAACCT 59.551 37.037 0.00 0.00 0.00 3.50
3241 18784 8.004801 TCCATTTCCTCTTCTTCTTTTAACCTT 58.995 33.333 0.00 0.00 0.00 3.50
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
7 8 9.097946 ACTTGTAATACTCCCTACTAAAGTTGT 57.902 33.333 0.00 0.00 0.00 3.32
8 9 9.939802 AACTTGTAATACTCCCTACTAAAGTTG 57.060 33.333 0.00 0.00 0.00 3.16
167 173 9.176181 GTGAACGTGTTGTGAAAATGTAATAAT 57.824 29.630 0.00 0.00 0.00 1.28
168 174 8.399425 AGTGAACGTGTTGTGAAAATGTAATAA 58.601 29.630 0.00 0.00 0.00 1.40
209 215 6.981559 AGAATCGAACTTTAAGTCATAGAGCC 59.018 38.462 0.00 0.00 0.00 4.70
211 217 7.043059 GCCAGAATCGAACTTTAAGTCATAGAG 60.043 40.741 0.00 0.00 0.00 2.43
212 218 6.757010 GCCAGAATCGAACTTTAAGTCATAGA 59.243 38.462 0.00 0.00 0.00 1.98
217 223 5.607119 TTGCCAGAATCGAACTTTAAGTC 57.393 39.130 0.00 0.00 0.00 3.01
360 366 3.563808 TCATGCCATACTGTTATTTCGGC 59.436 43.478 0.00 0.00 38.56 5.54
369 375 1.340308 TGCAGCTTCATGCCATACTGT 60.340 47.619 0.00 0.00 45.91 3.55
396 406 5.851720 TGTGAAGTTACAATGGTACGGTTA 58.148 37.500 0.00 0.00 0.00 2.85
408 418 2.608546 CGTTTCCGGTTGTGAAGTTACA 59.391 45.455 0.00 0.00 0.00 2.41
455 465 8.046294 AGTCTTAGATCGTGGCTAGTTATATG 57.954 38.462 0.00 0.00 0.00 1.78
482 492 5.491078 TCCTAGTCAATGGTGGGTTTATTCT 59.509 40.000 0.00 0.00 0.00 2.40
483 493 5.751586 TCCTAGTCAATGGTGGGTTTATTC 58.248 41.667 0.00 0.00 0.00 1.75
485 495 4.788617 ACTCCTAGTCAATGGTGGGTTTAT 59.211 41.667 0.00 0.00 0.00 1.40
486 496 4.172807 ACTCCTAGTCAATGGTGGGTTTA 58.827 43.478 0.00 0.00 0.00 2.01
505 515 4.096682 GTCGCCTCCATGGATATACTACTC 59.903 50.000 16.63 0.00 38.35 2.59
506 516 4.017808 GTCGCCTCCATGGATATACTACT 58.982 47.826 16.63 0.00 38.35 2.57
508 518 3.245479 TGGTCGCCTCCATGGATATACTA 60.245 47.826 16.63 6.75 38.35 1.82
548 558 3.714487 TAAGGATGGCGGCAAGGGC 62.714 63.158 18.31 5.83 40.13 5.19
620 8922 1.492319 CGTTCAAACCAGCCGACGAA 61.492 55.000 0.00 0.00 32.73 3.85
624 8926 2.975799 GCCGTTCAAACCAGCCGA 60.976 61.111 0.00 0.00 0.00 5.54
682 8984 4.728772 ACATCTGTTTCATCTCCCACAAA 58.271 39.130 0.00 0.00 0.00 2.83
718 9020 3.011119 CGCTAAGAGACACAGACTACCT 58.989 50.000 0.00 0.00 0.00 3.08
719 9021 2.478200 GCGCTAAGAGACACAGACTACC 60.478 54.545 0.00 0.00 0.00 3.18
720 9022 2.420722 AGCGCTAAGAGACACAGACTAC 59.579 50.000 8.99 0.00 0.00 2.73
721 9023 2.712709 AGCGCTAAGAGACACAGACTA 58.287 47.619 8.99 0.00 0.00 2.59
723 9025 3.701532 ATAGCGCTAAGAGACACAGAC 57.298 47.619 22.98 0.00 0.00 3.51
724 9026 4.720649 AAATAGCGCTAAGAGACACAGA 57.279 40.909 22.98 0.00 0.00 3.41
725 9027 6.887376 TTTAAATAGCGCTAAGAGACACAG 57.113 37.500 22.98 0.00 0.00 3.66
726 9028 7.333423 ACATTTTAAATAGCGCTAAGAGACACA 59.667 33.333 22.98 0.00 0.00 3.72
728 9030 7.843490 ACATTTTAAATAGCGCTAAGAGACA 57.157 32.000 22.98 5.18 0.00 3.41
729 9031 9.000018 CAAACATTTTAAATAGCGCTAAGAGAC 58.000 33.333 22.98 0.00 0.00 3.36
733 9035 9.123709 TGAACAAACATTTTAAATAGCGCTAAG 57.876 29.630 22.98 6.59 0.00 2.18
734 9036 9.632807 ATGAACAAACATTTTAAATAGCGCTAA 57.367 25.926 22.98 5.76 0.00 3.09
735 9037 9.632807 AATGAACAAACATTTTAAATAGCGCTA 57.367 25.926 21.30 21.30 37.20 4.26
736 9038 8.532977 AATGAACAAACATTTTAAATAGCGCT 57.467 26.923 17.26 17.26 37.20 5.92
737 9039 9.039500 CAAATGAACAAACATTTTAAATAGCGC 57.961 29.630 0.00 0.00 44.63 5.92
745 9047 8.669243 GGTCCAAACAAATGAACAAACATTTTA 58.331 29.630 0.00 0.00 44.63 1.52
750 9222 5.152623 TGGTCCAAACAAATGAACAAACA 57.847 34.783 0.00 0.00 0.00 2.83
751 9223 6.148645 ACTTTGGTCCAAACAAATGAACAAAC 59.851 34.615 13.26 0.00 39.91 2.93
755 9227 5.660460 AGACTTTGGTCCAAACAAATGAAC 58.340 37.500 13.26 4.31 43.05 3.18
757 9229 5.200483 AGAGACTTTGGTCCAAACAAATGA 58.800 37.500 13.26 0.00 43.05 2.57
758 9230 5.520376 AGAGACTTTGGTCCAAACAAATG 57.480 39.130 13.26 6.01 43.05 2.32
762 9234 4.134563 GCTAAGAGACTTTGGTCCAAACA 58.865 43.478 13.26 0.00 43.05 2.83
766 9238 1.337823 GCGCTAAGAGACTTTGGTCCA 60.338 52.381 0.00 0.00 43.05 4.02
774 9246 1.551452 AGGTCTTGCGCTAAGAGACT 58.449 50.000 22.91 18.83 45.71 3.24
775 9247 2.371910 AAGGTCTTGCGCTAAGAGAC 57.628 50.000 18.44 18.59 45.71 3.36
776 9248 3.067106 CAAAAGGTCTTGCGCTAAGAGA 58.933 45.455 18.44 9.99 45.71 3.10
778 9250 2.846193 ACAAAAGGTCTTGCGCTAAGA 58.154 42.857 9.73 13.31 43.01 2.10
779 9251 4.742438 TTACAAAAGGTCTTGCGCTAAG 57.258 40.909 9.73 11.02 37.76 2.18
780 9252 4.553156 CGTTTACAAAAGGTCTTGCGCTAA 60.553 41.667 9.73 0.00 0.00 3.09
781 9253 3.059461 CGTTTACAAAAGGTCTTGCGCTA 60.059 43.478 9.73 0.00 0.00 4.26
783 9255 2.041244 CGTTTACAAAAGGTCTTGCGC 58.959 47.619 0.00 0.00 0.00 6.09
784 9256 2.041244 GCGTTTACAAAAGGTCTTGCG 58.959 47.619 0.00 0.00 0.00 4.85
785 9257 3.349488 AGCGTTTACAAAAGGTCTTGC 57.651 42.857 0.00 0.00 0.00 4.01
786 9258 6.248631 GCTATAGCGTTTACAAAAGGTCTTG 58.751 40.000 9.40 0.00 31.10 3.02
787 9259 6.418585 GCTATAGCGTTTACAAAAGGTCTT 57.581 37.500 9.40 0.00 31.10 3.01
805 9277 1.400846 GCTCCGCTATAGCACGCTATA 59.599 52.381 23.99 15.99 42.21 1.31
806 9278 0.171455 GCTCCGCTATAGCACGCTAT 59.829 55.000 23.99 15.45 42.21 2.97
808 9280 0.889638 TAGCTCCGCTATAGCACGCT 60.890 55.000 25.78 25.78 42.62 5.07
817 9289 2.341101 GCCCGCTATAGCTCCGCTA 61.341 63.158 21.98 0.00 45.55 4.26
818 9290 2.766306 TAGCCCGCTATAGCTCCGCT 62.766 60.000 24.41 24.41 43.41 5.52
819 9291 1.668101 ATAGCCCGCTATAGCTCCGC 61.668 60.000 21.98 18.46 40.56 5.54
820 9292 0.818296 AATAGCCCGCTATAGCTCCG 59.182 55.000 21.98 10.15 40.56 4.63
822 9294 5.699458 TGTTTTAAATAGCCCGCTATAGCTC 59.301 40.000 21.98 11.04 40.56 4.09
825 9297 6.565999 GCACTGTTTTAAATAGCCCGCTATAG 60.566 42.308 9.56 4.62 38.20 1.31
826 9298 5.237779 GCACTGTTTTAAATAGCCCGCTATA 59.762 40.000 9.56 0.00 38.20 1.31
828 9300 3.375922 GCACTGTTTTAAATAGCCCGCTA 59.624 43.478 0.00 0.00 0.00 4.26
829 9301 2.163613 GCACTGTTTTAAATAGCCCGCT 59.836 45.455 1.36 0.00 0.00 5.52
830 9302 2.526077 GCACTGTTTTAAATAGCCCGC 58.474 47.619 1.36 0.00 0.00 6.13
832 9304 3.687698 TCTCGCACTGTTTTAAATAGCCC 59.312 43.478 1.36 0.00 0.00 5.19
834 9306 5.086727 GGTTCTCGCACTGTTTTAAATAGC 58.913 41.667 1.36 0.00 0.00 2.97
835 9307 6.147164 TGAGGTTCTCGCACTGTTTTAAATAG 59.853 38.462 0.00 0.00 32.35 1.73
837 9309 4.819630 TGAGGTTCTCGCACTGTTTTAAAT 59.180 37.500 0.00 0.00 32.35 1.40
838 9310 4.193090 TGAGGTTCTCGCACTGTTTTAAA 58.807 39.130 0.00 0.00 32.35 1.52
841 9313 2.325583 TGAGGTTCTCGCACTGTTTT 57.674 45.000 0.00 0.00 32.35 2.43
842 9314 2.213499 CTTGAGGTTCTCGCACTGTTT 58.787 47.619 0.00 0.00 32.35 2.83
845 9317 2.832931 CCTTGAGGTTCTCGCACTG 58.167 57.895 0.00 0.00 32.35 3.66
886 9463 8.774890 TTACTACCGTGTTGCATAGATTAAAA 57.225 30.769 0.00 0.00 0.00 1.52
888 9465 8.951787 AATTACTACCGTGTTGCATAGATTAA 57.048 30.769 0.00 0.00 0.00 1.40
891 9468 7.170998 GCTTAATTACTACCGTGTTGCATAGAT 59.829 37.037 0.00 0.00 0.00 1.98
892 9469 6.477688 GCTTAATTACTACCGTGTTGCATAGA 59.522 38.462 0.00 0.00 0.00 1.98
893 9470 6.479001 AGCTTAATTACTACCGTGTTGCATAG 59.521 38.462 0.00 0.00 0.00 2.23
894 9471 6.342906 AGCTTAATTACTACCGTGTTGCATA 58.657 36.000 0.00 0.00 0.00 3.14
895 9472 5.183228 AGCTTAATTACTACCGTGTTGCAT 58.817 37.500 0.00 0.00 0.00 3.96
897 9474 5.541098 AAGCTTAATTACTACCGTGTTGC 57.459 39.130 0.00 0.00 0.00 4.17
901 9478 9.859692 GCTAAAATAAGCTTAATTACTACCGTG 57.140 33.333 10.85 1.88 39.50 4.94
934 9511 7.386059 AGGCCATTTAATTTAGTCCAACAAAG 58.614 34.615 5.01 0.00 0.00 2.77
953 9530 2.694616 AACCACCAAAAGTAGGCCAT 57.305 45.000 5.01 0.00 0.00 4.40
955 9532 3.446161 GGATAAACCACCAAAAGTAGGCC 59.554 47.826 0.00 0.00 38.79 5.19
1006 9585 2.627699 TCATCTTTTGTGTGCTTTCCCC 59.372 45.455 0.00 0.00 0.00 4.81
1122 9701 2.165301 GCCGAAGATCACCCGTTCG 61.165 63.158 6.98 6.98 42.13 3.95
1189 9768 1.580845 GCATGCACCACGAGCTTCTT 61.581 55.000 14.21 0.00 0.00 2.52
1210 9789 2.760374 GGGTATTCGAGGATCTGCAAG 58.240 52.381 0.00 0.00 0.00 4.01
1268 9868 5.754890 CCCTTCCAATGCTTAATTAATGTGC 59.245 40.000 0.00 0.00 0.00 4.57
1289 9889 0.618680 TAGTGTGATCTGGCTGCCCT 60.619 55.000 17.53 5.63 0.00 5.19
1520 15378 3.515104 TGGTCTTGCACTCACTGATCATA 59.485 43.478 0.00 0.00 0.00 2.15
1620 15478 0.415429 TCCTCCCTGAGCCTCTCTTT 59.585 55.000 0.00 0.00 0.00 2.52
1673 15531 4.374403 TGATGCTATTGATATAGGGGGCT 58.626 43.478 0.00 0.00 35.31 5.19
1695 15553 2.101415 GCTTGAGTTTGCCAAGGACTTT 59.899 45.455 0.00 0.00 40.85 2.66
1838 15705 1.004560 CTCAGCAAGAACGGCAGGA 60.005 57.895 0.00 0.00 0.00 3.86
1931 15798 3.726517 CCTTGCTCCGGTGCAACG 61.727 66.667 33.71 26.67 46.43 4.10
2319 16190 1.440850 CAAAGCACATCACACGCCG 60.441 57.895 0.00 0.00 0.00 6.46
2322 16193 5.685068 TCAATTTTACAAAGCACATCACACG 59.315 36.000 0.00 0.00 0.00 4.49
2337 16208 7.331687 CACCTTCCCAAATCACATCAATTTTAC 59.668 37.037 0.00 0.00 0.00 2.01
2339 16210 6.232692 CACCTTCCCAAATCACATCAATTTT 58.767 36.000 0.00 0.00 0.00 1.82
2342 16213 3.770933 CCACCTTCCCAAATCACATCAAT 59.229 43.478 0.00 0.00 0.00 2.57
2346 16217 1.203162 TGCCACCTTCCCAAATCACAT 60.203 47.619 0.00 0.00 0.00 3.21
2425 16321 6.169094 CAACATTGTAGTGTCTCAAGAGGAT 58.831 40.000 0.00 0.00 0.00 3.24
2537 18068 7.394641 TGCTTGACTACCTCCATATCAGTATAG 59.605 40.741 0.00 0.00 0.00 1.31
2599 18138 3.301794 CCATGATTGGATTCAGGTGGA 57.698 47.619 0.00 0.00 46.92 4.02
2717 18259 6.209391 TCTCATCTTCAAAAATGAAAGACCCC 59.791 38.462 0.00 0.00 31.81 4.95
2874 18416 2.361757 CCCAACAACAGTGCTTTGATGA 59.638 45.455 5.60 0.00 30.43 2.92
2898 18441 1.649321 TCATGTGAGGGTCTTGAGCT 58.351 50.000 0.00 0.00 0.00 4.09
2901 18444 3.084039 GCAAATCATGTGAGGGTCTTGA 58.916 45.455 0.00 0.00 0.00 3.02
2917 18460 1.657556 CCGGAACACAACGGCAAAT 59.342 52.632 0.00 0.00 43.96 2.32
2918 18461 3.111939 CCGGAACACAACGGCAAA 58.888 55.556 0.00 0.00 43.96 3.68
2934 18477 2.047179 AAGAGCCCGAAGTTCGCC 60.047 61.111 19.86 12.22 38.82 5.54
2937 18480 0.250338 ACACCAAGAGCCCGAAGTTC 60.250 55.000 0.00 0.00 0.00 3.01
2944 18487 1.966451 CGGACAACACCAAGAGCCC 60.966 63.158 0.00 0.00 0.00 5.19
2996 18539 6.280855 TCAGAACGATTATCAAGTTGAGGA 57.719 37.500 11.91 2.67 0.00 3.71
2997 18540 7.545362 AATCAGAACGATTATCAAGTTGAGG 57.455 36.000 11.91 1.08 42.76 3.86
2998 18541 9.483062 GAAAATCAGAACGATTATCAAGTTGAG 57.517 33.333 11.91 0.00 43.83 3.02
3008 18551 4.946772 TGCCATGGAAAATCAGAACGATTA 59.053 37.500 18.40 0.00 43.83 1.75
3039 18582 3.243035 TGCTTGAACACGAACCTTGATTG 60.243 43.478 0.00 0.00 0.00 2.67
3040 18583 2.948979 TGCTTGAACACGAACCTTGATT 59.051 40.909 0.00 0.00 0.00 2.57
3041 18584 2.571212 TGCTTGAACACGAACCTTGAT 58.429 42.857 0.00 0.00 0.00 2.57
3093 18636 4.006357 TGCGTACCGAACCCCACC 62.006 66.667 0.00 0.00 0.00 4.61
3120 18663 4.157105 ACTTTGAAAACAACCTAACGCACT 59.843 37.500 0.00 0.00 0.00 4.40
3129 18672 8.760569 CACAATACCAATACTTTGAAAACAACC 58.239 33.333 0.00 0.00 34.60 3.77
3133 18676 9.353999 GGATCACAATACCAATACTTTGAAAAC 57.646 33.333 0.00 0.00 34.60 2.43
3134 18677 8.527810 GGGATCACAATACCAATACTTTGAAAA 58.472 33.333 0.00 0.00 35.69 2.29
3135 18678 7.893302 AGGGATCACAATACCAATACTTTGAAA 59.107 33.333 0.00 0.00 38.53 2.69
3136 18679 7.410174 AGGGATCACAATACCAATACTTTGAA 58.590 34.615 0.00 0.00 38.53 2.69
3137 18680 6.969043 AGGGATCACAATACCAATACTTTGA 58.031 36.000 0.00 0.00 38.53 2.69
3138 18681 6.017934 CGAGGGATCACAATACCAATACTTTG 60.018 42.308 0.00 0.00 38.53 2.77
3139 18682 6.055588 CGAGGGATCACAATACCAATACTTT 58.944 40.000 0.00 0.00 38.53 2.66
3140 18683 5.365605 TCGAGGGATCACAATACCAATACTT 59.634 40.000 0.00 0.00 38.53 2.24
3141 18684 4.899457 TCGAGGGATCACAATACCAATACT 59.101 41.667 0.00 0.00 38.53 2.12
3142 18685 4.989168 GTCGAGGGATCACAATACCAATAC 59.011 45.833 0.00 0.00 38.53 1.89
3143 18686 4.261867 CGTCGAGGGATCACAATACCAATA 60.262 45.833 0.00 0.00 38.53 1.90
3144 18687 3.492656 CGTCGAGGGATCACAATACCAAT 60.493 47.826 0.00 0.00 38.53 3.16
3145 18688 2.159156 CGTCGAGGGATCACAATACCAA 60.159 50.000 0.00 0.00 38.53 3.67
3146 18689 1.407618 CGTCGAGGGATCACAATACCA 59.592 52.381 0.00 0.00 38.53 3.25
3147 18690 1.679680 TCGTCGAGGGATCACAATACC 59.320 52.381 5.12 0.00 35.89 2.73
3148 18691 2.098607 TGTCGTCGAGGGATCACAATAC 59.901 50.000 5.12 0.00 0.00 1.89
3149 18692 2.098607 GTGTCGTCGAGGGATCACAATA 59.901 50.000 17.08 0.00 0.00 1.90
3150 18693 1.135083 GTGTCGTCGAGGGATCACAAT 60.135 52.381 17.08 0.00 0.00 2.71
3151 18694 0.242825 GTGTCGTCGAGGGATCACAA 59.757 55.000 17.08 0.00 0.00 3.33
3152 18695 1.592400 GGTGTCGTCGAGGGATCACA 61.592 60.000 20.62 10.62 0.00 3.58
3153 18696 1.139095 GGTGTCGTCGAGGGATCAC 59.861 63.158 5.12 11.58 0.00 3.06
3154 18697 2.050350 GGGTGTCGTCGAGGGATCA 61.050 63.158 5.12 0.40 0.00 2.92
3155 18698 1.601419 TTGGGTGTCGTCGAGGGATC 61.601 60.000 5.12 0.00 0.00 3.36
3156 18699 1.608336 TTGGGTGTCGTCGAGGGAT 60.608 57.895 5.12 0.00 0.00 3.85
3157 18700 2.203523 TTGGGTGTCGTCGAGGGA 60.204 61.111 5.12 0.00 0.00 4.20
3158 18701 2.048503 GTTGGGTGTCGTCGAGGG 60.049 66.667 5.12 0.00 0.00 4.30
3159 18702 0.736325 GATGTTGGGTGTCGTCGAGG 60.736 60.000 0.00 0.00 0.00 4.63
3160 18703 0.243907 AGATGTTGGGTGTCGTCGAG 59.756 55.000 0.00 0.00 0.00 4.04
3161 18704 1.200716 GTAGATGTTGGGTGTCGTCGA 59.799 52.381 0.00 0.00 0.00 4.20
3162 18705 1.201647 AGTAGATGTTGGGTGTCGTCG 59.798 52.381 0.00 0.00 0.00 5.12
3163 18706 2.993899 CAAGTAGATGTTGGGTGTCGTC 59.006 50.000 0.00 0.00 0.00 4.20
3164 18707 2.367567 ACAAGTAGATGTTGGGTGTCGT 59.632 45.455 0.00 0.00 0.00 4.34
3165 18708 2.736721 CACAAGTAGATGTTGGGTGTCG 59.263 50.000 0.00 0.00 0.00 4.35
3166 18709 2.484264 GCACAAGTAGATGTTGGGTGTC 59.516 50.000 0.00 0.00 30.44 3.67
3167 18710 2.158682 TGCACAAGTAGATGTTGGGTGT 60.159 45.455 0.00 0.00 30.44 4.16
3168 18711 2.503331 TGCACAAGTAGATGTTGGGTG 58.497 47.619 0.00 0.00 30.44 4.61
3169 18712 2.949177 TGCACAAGTAGATGTTGGGT 57.051 45.000 0.00 0.00 30.44 4.51
3170 18713 4.672542 CGAAATGCACAAGTAGATGTTGGG 60.673 45.833 0.00 0.00 0.00 4.12
3171 18714 4.083324 ACGAAATGCACAAGTAGATGTTGG 60.083 41.667 0.00 0.00 0.00 3.77
3172 18715 4.847757 CACGAAATGCACAAGTAGATGTTG 59.152 41.667 0.00 0.00 0.00 3.33
3173 18716 4.083324 CCACGAAATGCACAAGTAGATGTT 60.083 41.667 0.00 0.00 0.00 2.71
3174 18717 3.436704 CCACGAAATGCACAAGTAGATGT 59.563 43.478 0.00 0.00 0.00 3.06
3175 18718 3.436704 ACCACGAAATGCACAAGTAGATG 59.563 43.478 0.00 0.00 0.00 2.90
3176 18719 3.436704 CACCACGAAATGCACAAGTAGAT 59.563 43.478 0.00 0.00 0.00 1.98
3177 18720 2.805671 CACCACGAAATGCACAAGTAGA 59.194 45.455 0.00 0.00 0.00 2.59
3178 18721 2.805671 TCACCACGAAATGCACAAGTAG 59.194 45.455 0.00 0.00 0.00 2.57
3179 18722 2.839975 TCACCACGAAATGCACAAGTA 58.160 42.857 0.00 0.00 0.00 2.24
3180 18723 1.674359 TCACCACGAAATGCACAAGT 58.326 45.000 0.00 0.00 0.00 3.16
3181 18724 2.587956 CATCACCACGAAATGCACAAG 58.412 47.619 0.00 0.00 0.00 3.16
3182 18725 1.269174 CCATCACCACGAAATGCACAA 59.731 47.619 0.00 0.00 0.00 3.33
3183 18726 0.880441 CCATCACCACGAAATGCACA 59.120 50.000 0.00 0.00 0.00 4.57
3184 18727 0.881118 ACCATCACCACGAAATGCAC 59.119 50.000 0.00 0.00 0.00 4.57
3185 18728 1.164411 GACCATCACCACGAAATGCA 58.836 50.000 0.00 0.00 0.00 3.96
3186 18729 1.453155 AGACCATCACCACGAAATGC 58.547 50.000 0.00 0.00 0.00 3.56
3187 18730 3.753272 AGAAAGACCATCACCACGAAATG 59.247 43.478 0.00 0.00 0.00 2.32
3188 18731 3.753272 CAGAAAGACCATCACCACGAAAT 59.247 43.478 0.00 0.00 0.00 2.17
3189 18732 3.138304 CAGAAAGACCATCACCACGAAA 58.862 45.455 0.00 0.00 0.00 3.46
3190 18733 2.549992 CCAGAAAGACCATCACCACGAA 60.550 50.000 0.00 0.00 0.00 3.85
3191 18734 1.001974 CCAGAAAGACCATCACCACGA 59.998 52.381 0.00 0.00 0.00 4.35
3192 18735 1.442769 CCAGAAAGACCATCACCACG 58.557 55.000 0.00 0.00 0.00 4.94
3193 18736 1.826385 CCCAGAAAGACCATCACCAC 58.174 55.000 0.00 0.00 0.00 4.16
3194 18737 0.038166 GCCCAGAAAGACCATCACCA 59.962 55.000 0.00 0.00 0.00 4.17
3195 18738 1.026718 CGCCCAGAAAGACCATCACC 61.027 60.000 0.00 0.00 0.00 4.02
3196 18739 0.321653 ACGCCCAGAAAGACCATCAC 60.322 55.000 0.00 0.00 0.00 3.06
3197 18740 0.036388 GACGCCCAGAAAGACCATCA 60.036 55.000 0.00 0.00 0.00 3.07
3198 18741 0.744771 GGACGCCCAGAAAGACCATC 60.745 60.000 0.00 0.00 0.00 3.51
3199 18742 1.299976 GGACGCCCAGAAAGACCAT 59.700 57.895 0.00 0.00 0.00 3.55
3200 18743 2.144078 TGGACGCCCAGAAAGACCA 61.144 57.895 0.00 0.00 37.58 4.02
3201 18744 2.747686 TGGACGCCCAGAAAGACC 59.252 61.111 0.00 0.00 37.58 3.85
3210 18753 0.253327 AGAAGAGGAAATGGACGCCC 59.747 55.000 0.00 0.00 0.00 6.13
3211 18754 2.010497 GAAGAAGAGGAAATGGACGCC 58.990 52.381 0.00 0.00 0.00 5.68
3212 18755 2.979240 AGAAGAAGAGGAAATGGACGC 58.021 47.619 0.00 0.00 0.00 5.19
3213 18756 5.948992 AAAAGAAGAAGAGGAAATGGACG 57.051 39.130 0.00 0.00 0.00 4.79
3214 18757 7.448777 AGGTTAAAAGAAGAAGAGGAAATGGAC 59.551 37.037 0.00 0.00 0.00 4.02
3215 18758 7.526918 AGGTTAAAAGAAGAAGAGGAAATGGA 58.473 34.615 0.00 0.00 0.00 3.41
3216 18759 7.767250 AGGTTAAAAGAAGAAGAGGAAATGG 57.233 36.000 0.00 0.00 0.00 3.16


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

AutoCloner maintained by Alex Coulton.