Multiple sequence alignment - TraesCS1B01G325200

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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 TraesCS1B01G325200 chr1B 100.000 3176 0 0 1 3176 551029867 551026692 0.000000e+00 5866
1 TraesCS1B01G325200 chr1A 88.977 2894 223 41 146 2997 505279660 505276821 0.000000e+00 3489
2 TraesCS1B01G325200 chr1A 80.311 772 117 19 4 748 505280792 505280029 4.630000e-153 551
3 TraesCS1B01G325200 chr1A 88.217 314 21 7 2733 3037 295546058 295545752 8.370000e-96 361
4 TraesCS1B01G325200 chr1A 81.757 148 16 4 107 243 505279832 505279685 2.590000e-21 113
5 TraesCS1B01G325200 chr1D 91.974 2143 118 21 814 2944 409064579 409062479 0.000000e+00 2955
6 TraesCS1B01G325200 chr1D 82.648 778 86 26 2 751 409065355 409064599 0.000000e+00 643
7 TraesCS1B01G325200 chr7A 88.217 314 21 7 2733 3037 18370280 18370586 8.370000e-96 361
8 TraesCS1B01G325200 chr7A 87.898 314 22 7 2733 3037 563338039 563337733 3.900000e-94 355
9 TraesCS1B01G325200 chr2A 87.898 314 22 7 2733 3037 709592206 709591900 3.900000e-94 355
10 TraesCS1B01G325200 chr3A 87.261 314 24 7 2733 3037 397832406 397832100 8.430000e-91 344
11 TraesCS1B01G325200 chr6B 84.395 314 21 8 2733 3037 702629308 702629014 1.860000e-72 283
12 TraesCS1B01G325200 chr6A 91.129 124 6 1 2735 2858 474169045 474168927 2.530000e-36 163
13 TraesCS1B01G325200 chr6A 82.119 151 16 7 2897 3037 474168933 474168784 5.570000e-23 119


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 TraesCS1B01G325200 chr1B 551026692 551029867 3175 True 5866.000000 5866 100.000000 1 3176 1 chr1B.!!$R1 3175
1 TraesCS1B01G325200 chr1A 505276821 505280792 3971 True 1384.333333 3489 83.681667 4 2997 3 chr1A.!!$R2 2993
2 TraesCS1B01G325200 chr1D 409062479 409065355 2876 True 1799.000000 2955 87.311000 2 2944 2 chr1D.!!$R1 2942

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
468 495 0.107654 GCGTGGGAGCAGGAATTACT 60.108 55.0 0.00 0.00 37.05 2.24 F
770 1771 0.108424 CTCTCTTCTCCACGCTTGGG 60.108 60.0 9.71 0.34 44.11 4.12 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1911 2918 0.255890 GGGTCCAGCCAAGCTTATCA 59.744 55.000 0.00 0.0 36.4 2.15 R
2219 3226 1.078848 CAGTCGAGGCCAGGGAAAG 60.079 63.158 5.01 0.0 0.0 2.62 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
37 38 4.586001 AGCAATCTTCACAAACTTCACCAT 59.414 37.500 0.00 0.00 0.00 3.55
57 58 1.837439 TGATGCCGACAACCCTAGATT 59.163 47.619 0.00 0.00 0.00 2.40
104 105 5.167303 AGATAAACTCACCAAACTCCTCC 57.833 43.478 0.00 0.00 0.00 4.30
106 107 0.396811 AACTCACCAAACTCCTCCCG 59.603 55.000 0.00 0.00 0.00 5.14
113 114 1.906824 AAACTCCTCCCGCGACTGA 60.907 57.895 8.23 0.00 0.00 3.41
130 131 3.077556 AGGTGGGTCTAGCGCCAG 61.078 66.667 2.29 0.00 0.00 4.85
144 145 4.129737 CCAGGGCATCGTCGTCGT 62.130 66.667 1.33 0.00 38.33 4.34
170 182 1.431440 GCACGACAAGTTGCAACCA 59.569 52.632 25.62 0.00 0.00 3.67
183 195 1.538876 CAACCAGTGGGAGAGGGGA 60.539 63.158 15.21 0.00 38.05 4.81
190 202 1.463214 TGGGAGAGGGGAGCAACAA 60.463 57.895 0.00 0.00 0.00 2.83
211 223 3.775654 CACCAGGAGGACCGGAGC 61.776 72.222 9.46 0.00 41.83 4.70
244 256 4.621068 ACATGTTATGGTGAATCAAGCG 57.379 40.909 0.00 0.00 33.60 4.68
250 262 5.703592 TGTTATGGTGAATCAAGCGTAGTTT 59.296 36.000 0.00 0.00 0.00 2.66
256 268 6.913673 TGGTGAATCAAGCGTAGTTTAAAAAC 59.086 34.615 0.00 0.00 39.17 2.43
258 270 6.361481 GTGAATCAAGCGTAGTTTAAAAACCC 59.639 38.462 2.02 0.00 39.71 4.11
260 272 6.584185 ATCAAGCGTAGTTTAAAAACCCAT 57.416 33.333 2.02 0.00 39.71 4.00
261 273 7.690952 ATCAAGCGTAGTTTAAAAACCCATA 57.309 32.000 2.02 0.00 39.71 2.74
262 274 7.507733 TCAAGCGTAGTTTAAAAACCCATAA 57.492 32.000 2.02 0.00 39.71 1.90
263 275 8.113173 TCAAGCGTAGTTTAAAAACCCATAAT 57.887 30.769 2.02 0.00 39.71 1.28
265 277 6.859017 AGCGTAGTTTAAAAACCCATAATGG 58.141 36.000 2.02 0.00 39.71 3.16
274 286 4.676363 CCATAATGGGTTGGCGGT 57.324 55.556 0.00 0.00 32.67 5.68
275 287 2.414750 CCATAATGGGTTGGCGGTC 58.585 57.895 0.00 0.00 32.67 4.79
277 289 1.153046 ATAATGGGTTGGCGGTCGG 60.153 57.895 0.00 0.00 0.00 4.79
278 290 1.628238 ATAATGGGTTGGCGGTCGGA 61.628 55.000 0.00 0.00 0.00 4.55
280 292 1.628238 AATGGGTTGGCGGTCGGATA 61.628 55.000 0.00 0.00 0.00 2.59
281 293 2.040009 ATGGGTTGGCGGTCGGATAG 62.040 60.000 0.00 0.00 0.00 2.08
316 328 2.667199 CGGTCCCGGCGTCTTTTT 60.667 61.111 6.01 0.00 35.56 1.94
317 329 2.951458 GGTCCCGGCGTCTTTTTG 59.049 61.111 6.01 0.00 0.00 2.44
322 334 0.672401 CCCGGCGTCTTTTTGAGCTA 60.672 55.000 6.01 0.00 0.00 3.32
329 341 5.163893 CGGCGTCTTTTTGAGCTAATAAGAA 60.164 40.000 0.00 0.00 37.84 2.52
345 357 9.455847 GCTAATAAGAACATTCATCAATTGGAC 57.544 33.333 5.42 0.00 0.00 4.02
357 369 4.177537 TCAATTGGACTGGAGAAAACCA 57.822 40.909 5.42 0.00 38.33 3.67
368 380 5.275067 TGGAGAAAACCAGTCAAATTTGG 57.725 39.130 17.90 5.34 40.38 3.28
373 385 1.079888 CCAGTCAAATTTGGCCGGC 60.080 57.895 21.18 21.18 31.90 6.13
377 389 1.416030 AGTCAAATTTGGCCGGCTTTT 59.584 42.857 28.56 17.45 31.90 2.27
385 397 0.179070 TGGCCGGCTTTTTGGAAAAC 60.179 50.000 28.56 5.04 0.00 2.43
386 398 0.882927 GGCCGGCTTTTTGGAAAACC 60.883 55.000 28.56 0.00 0.00 3.27
398 413 5.593679 TTTGGAAAACCGGTGAATAAACA 57.406 34.783 8.52 0.00 0.00 2.83
400 415 5.189659 TGGAAAACCGGTGAATAAACAAG 57.810 39.130 8.52 0.00 0.00 3.16
442 468 2.084546 GGAAGAAGTGGGGTTCAATCG 58.915 52.381 0.00 0.00 0.00 3.34
445 471 1.004745 AGAAGTGGGGTTCAATCGCAT 59.995 47.619 0.00 0.00 0.00 4.73
463 490 4.373116 GACGCGTGGGAGCAGGAA 62.373 66.667 20.70 0.00 36.85 3.36
465 492 2.436646 CGCGTGGGAGCAGGAATT 60.437 61.111 0.00 0.00 36.85 2.17
466 493 1.153449 CGCGTGGGAGCAGGAATTA 60.153 57.895 0.00 0.00 36.85 1.40
467 494 1.429148 CGCGTGGGAGCAGGAATTAC 61.429 60.000 0.00 0.00 36.85 1.89
468 495 0.107654 GCGTGGGAGCAGGAATTACT 60.108 55.000 0.00 0.00 37.05 2.24
469 496 1.138266 GCGTGGGAGCAGGAATTACTA 59.862 52.381 0.00 0.00 37.05 1.82
639 1633 1.677518 CCGATGAACCGGTGATCCAAA 60.678 52.381 8.52 0.00 44.23 3.28
640 1634 2.288666 CGATGAACCGGTGATCCAAAT 58.711 47.619 8.52 0.00 0.00 2.32
641 1635 2.682856 CGATGAACCGGTGATCCAAATT 59.317 45.455 8.52 0.00 0.00 1.82
645 1639 3.754323 TGAACCGGTGATCCAAATTGTAC 59.246 43.478 8.52 0.00 0.00 2.90
679 1673 0.395311 AGGCTCACCGGTTCGATCTA 60.395 55.000 2.97 0.00 42.76 1.98
751 1752 3.028366 GCAAGAGGGAAAGACGCGC 62.028 63.158 5.73 0.00 36.53 6.86
764 1765 2.578178 CGCGCTCTCTTCTCCACG 60.578 66.667 5.56 0.00 0.00 4.94
765 1766 2.883253 GCGCTCTCTTCTCCACGC 60.883 66.667 0.00 0.00 39.49 5.34
766 1767 2.881389 CGCTCTCTTCTCCACGCT 59.119 61.111 0.00 0.00 0.00 5.07
767 1768 1.214062 CGCTCTCTTCTCCACGCTT 59.786 57.895 0.00 0.00 0.00 4.68
768 1769 1.075425 CGCTCTCTTCTCCACGCTTG 61.075 60.000 0.00 0.00 0.00 4.01
769 1770 0.739112 GCTCTCTTCTCCACGCTTGG 60.739 60.000 1.99 1.99 45.56 3.61
770 1771 0.108424 CTCTCTTCTCCACGCTTGGG 60.108 60.000 9.71 0.34 44.11 4.12
771 1772 1.743252 CTCTTCTCCACGCTTGGGC 60.743 63.158 9.71 0.00 44.11 5.36
772 1773 2.177594 CTCTTCTCCACGCTTGGGCT 62.178 60.000 9.71 0.00 44.11 5.19
773 1774 1.302832 CTTCTCCACGCTTGGGCTT 60.303 57.895 9.71 0.00 44.11 4.35
811 1812 2.700371 GGGGGCCTTTTTGATATTCAGG 59.300 50.000 0.84 0.00 0.00 3.86
848 1849 3.130340 CCAGGATTTGTCCAAATTACCCG 59.870 47.826 6.70 0.00 40.77 5.28
855 1856 0.674269 TCCAAATTACCCGCGTCCAC 60.674 55.000 4.92 0.00 0.00 4.02
876 1877 3.195698 GAATCGACCCAGCCACGC 61.196 66.667 0.00 0.00 0.00 5.34
877 1878 4.778143 AATCGACCCAGCCACGCC 62.778 66.667 0.00 0.00 0.00 5.68
906 1907 6.640499 GTGGATTGAGAGATTTGAGATAGACG 59.360 42.308 0.00 0.00 0.00 4.18
911 1912 5.762711 TGAGAGATTTGAGATAGACGAGAGG 59.237 44.000 0.00 0.00 0.00 3.69
914 1915 6.486657 AGAGATTTGAGATAGACGAGAGGAAG 59.513 42.308 0.00 0.00 0.00 3.46
1103 2110 1.337167 GCATTTCCTCAAACACCTGCC 60.337 52.381 0.00 0.00 0.00 4.85
1415 2422 2.586079 CGACCGCATCCGCAAGAT 60.586 61.111 0.00 0.00 43.02 2.40
1423 2430 1.270732 GCATCCGCAAGATCATCCTCT 60.271 52.381 0.00 0.00 43.02 3.69
1489 2496 0.547712 CCCCAACTTCCTCCTCCTCA 60.548 60.000 0.00 0.00 0.00 3.86
1536 2543 2.509336 CGCTCCGCCGTCAAGAAT 60.509 61.111 0.00 0.00 0.00 2.40
1779 2786 1.179174 CCAGACTGAGTCCGGTGACA 61.179 60.000 9.33 0.00 44.33 3.58
1796 2803 2.109799 ATGGAAGCGCAGGATCGG 59.890 61.111 11.47 0.00 0.00 4.18
1875 2882 2.700371 CCCCTACTGCATGTCTGTATCA 59.300 50.000 0.00 0.00 0.00 2.15
1878 2885 4.282957 CCCTACTGCATGTCTGTATCAGAT 59.717 45.833 2.80 0.00 42.73 2.90
1911 2918 2.263077 CGTATCTCGCACTTCTTTGCT 58.737 47.619 0.00 0.00 40.62 3.91
1928 2935 1.020437 GCTGATAAGCTTGGCTGGAC 58.980 55.000 9.86 0.00 39.62 4.02
1944 2951 2.626785 TGGACCCCAGAGTATGTTTCA 58.373 47.619 0.00 0.00 0.00 2.69
2219 3226 1.656441 CTGCACAAAGGCACTGTCC 59.344 57.895 0.00 0.00 40.86 4.02
2239 3246 1.827399 TTTCCCTGGCCTCGACTGTC 61.827 60.000 3.32 0.00 0.00 3.51
2250 3257 4.156008 GGCCTCGACTGTCAATTTTGTTAT 59.844 41.667 8.73 0.00 0.00 1.89
2255 3262 8.504005 CCTCGACTGTCAATTTTGTTATACTTT 58.496 33.333 8.73 0.00 0.00 2.66
2263 3270 9.124807 GTCAATTTTGTTATACTTTACTGCACC 57.875 33.333 0.00 0.00 0.00 5.01
2268 3275 9.738832 TTTTGTTATACTTTACTGCACCTTTTC 57.261 29.630 0.00 0.00 0.00 2.29
2307 3314 2.170166 TGCAATGAACCTGGGATCAAC 58.830 47.619 8.27 3.30 30.98 3.18
2337 3353 9.726438 ACTTATATCCTGTTTGTTATGCCTATC 57.274 33.333 0.00 0.00 0.00 2.08
2339 3355 9.944376 TTATATCCTGTTTGTTATGCCTATCTC 57.056 33.333 0.00 0.00 0.00 2.75
2341 3357 7.618019 ATCCTGTTTGTTATGCCTATCTCTA 57.382 36.000 0.00 0.00 0.00 2.43
2343 3359 8.034313 TCCTGTTTGTTATGCCTATCTCTATT 57.966 34.615 0.00 0.00 0.00 1.73
2345 3361 9.125026 CCTGTTTGTTATGCCTATCTCTATTTT 57.875 33.333 0.00 0.00 0.00 1.82
2387 3404 1.072015 GGGAAGAGATGGCTGATGGAG 59.928 57.143 0.00 0.00 0.00 3.86
2409 3426 3.335579 GAAACTGCCTGGAAATCGTAGT 58.664 45.455 0.00 0.00 0.00 2.73
2418 3435 3.935203 CTGGAAATCGTAGTGATGCAAGT 59.065 43.478 0.00 0.00 37.39 3.16
2442 3459 1.300233 GCCTCCGCTATTCCGTCTG 60.300 63.158 0.00 0.00 0.00 3.51
2445 3462 1.315690 CTCCGCTATTCCGTCTGGTA 58.684 55.000 0.00 0.00 36.30 3.25
2488 3506 3.997021 ACATAATATGCTAGCTTCGTGGC 59.003 43.478 17.23 0.00 0.00 5.01
2558 3576 7.719871 ATCTGACCTAAAGCTACTTAACTCA 57.280 36.000 0.00 0.00 0.00 3.41
2559 3577 7.719871 TCTGACCTAAAGCTACTTAACTCAT 57.280 36.000 0.00 0.00 0.00 2.90
2598 3621 7.614494 ACAAATAAGCTCTGTAAAATGGCATT 58.386 30.769 6.96 6.96 0.00 3.56
2717 3743 5.737860 AGCACATGATGAAGTTACATCTCA 58.262 37.500 0.00 0.00 44.61 3.27
2718 3744 5.583854 AGCACATGATGAAGTTACATCTCAC 59.416 40.000 0.00 0.00 44.61 3.51
2722 3748 4.744570 TGATGAAGTTACATCTCACGTCC 58.255 43.478 0.00 0.00 44.61 4.79
2724 3750 3.909430 TGAAGTTACATCTCACGTCCAC 58.091 45.455 0.00 0.00 0.00 4.02
2725 3751 3.319689 TGAAGTTACATCTCACGTCCACA 59.680 43.478 0.00 0.00 0.00 4.17
2728 3754 4.894784 AGTTACATCTCACGTCCACAAAT 58.105 39.130 0.00 0.00 0.00 2.32
2729 3755 4.929808 AGTTACATCTCACGTCCACAAATC 59.070 41.667 0.00 0.00 0.00 2.17
2788 3814 0.696501 GCAAGGAACCTAAGGGTCCA 59.303 55.000 17.06 0.00 46.67 4.02
2789 3815 1.285078 GCAAGGAACCTAAGGGTCCAT 59.715 52.381 17.06 5.58 46.67 3.41
2834 3860 1.218316 GTTCGAGTCGGGCCAGATT 59.782 57.895 13.54 4.30 0.00 2.40
2875 3901 6.665695 TGGTAGTATCATAGAGTGTGTACCA 58.334 40.000 0.00 0.00 0.00 3.25
2887 3913 3.323979 AGTGTGTACCAAGTTAGGAGTGG 59.676 47.826 0.00 0.00 38.46 4.00
2900 3926 0.328258 GGAGTGGCACATAGGTGGTT 59.672 55.000 21.41 0.00 45.38 3.67
2904 3930 0.893270 TGGCACATAGGTGGTTGCAC 60.893 55.000 9.91 0.00 45.38 4.57
2915 3941 2.618045 GGTGGTTGCACTGGTAGCTATT 60.618 50.000 0.00 0.00 0.00 1.73
2917 3943 4.258543 GTGGTTGCACTGGTAGCTATTAA 58.741 43.478 0.00 0.00 0.00 1.40
2972 3998 7.912250 GTCATATCCAGTTTGTATTCAGCAAAG 59.088 37.037 0.00 0.00 36.63 2.77
2975 4001 6.072112 TCCAGTTTGTATTCAGCAAAGAAC 57.928 37.500 0.00 0.00 36.63 3.01
2979 4005 3.517296 TGTATTCAGCAAAGAACCCCA 57.483 42.857 0.00 0.00 0.00 4.96
2988 4014 4.949856 CAGCAAAGAACCCCAAGTACATAT 59.050 41.667 0.00 0.00 0.00 1.78
2992 4018 5.906772 AAGAACCCCAAGTACATATAGGG 57.093 43.478 0.00 0.10 40.58 3.53
2997 4023 5.232347 ACCCCAAGTACATATAGGGATTGT 58.768 41.667 11.94 0.20 42.25 2.71
2998 4024 5.674958 ACCCCAAGTACATATAGGGATTGTT 59.325 40.000 11.94 0.00 42.25 2.83
2999 4025 6.161526 ACCCCAAGTACATATAGGGATTGTTT 59.838 38.462 11.94 0.00 42.25 2.83
3000 4026 6.490040 CCCCAAGTACATATAGGGATTGTTTG 59.510 42.308 8.99 0.00 42.25 2.93
3001 4027 7.060421 CCCAAGTACATATAGGGATTGTTTGT 58.940 38.462 0.00 0.00 42.25 2.83
3002 4028 8.215050 CCCAAGTACATATAGGGATTGTTTGTA 58.785 37.037 0.00 0.00 42.25 2.41
3003 4029 9.621629 CCAAGTACATATAGGGATTGTTTGTAA 57.378 33.333 0.00 0.00 0.00 2.41
3005 4031 9.623000 AAGTACATATAGGGATTGTTTGTAACC 57.377 33.333 0.00 0.00 0.00 2.85
3006 4032 8.999895 AGTACATATAGGGATTGTTTGTAACCT 58.000 33.333 0.00 0.00 0.00 3.50
3009 4035 9.793259 ACATATAGGGATTGTTTGTAACCTATG 57.207 33.333 10.44 1.60 40.47 2.23
3013 4039 9.936329 ATAGGGATTGTTTGTAACCTATGAAAT 57.064 29.630 0.00 0.00 39.23 2.17
3014 4040 8.293699 AGGGATTGTTTGTAACCTATGAAATC 57.706 34.615 0.00 0.00 0.00 2.17
3015 4041 7.893302 AGGGATTGTTTGTAACCTATGAAATCA 59.107 33.333 0.00 0.00 0.00 2.57
3016 4042 8.527810 GGGATTGTTTGTAACCTATGAAATCAA 58.472 33.333 0.00 0.00 0.00 2.57
3017 4043 9.573133 GGATTGTTTGTAACCTATGAAATCAAG 57.427 33.333 0.00 0.00 0.00 3.02
3018 4044 8.986477 ATTGTTTGTAACCTATGAAATCAAGC 57.014 30.769 0.00 0.00 0.00 4.01
3019 4045 7.517614 TGTTTGTAACCTATGAAATCAAGCA 57.482 32.000 0.00 0.00 0.00 3.91
3020 4046 7.946207 TGTTTGTAACCTATGAAATCAAGCAA 58.054 30.769 0.00 0.00 0.00 3.91
3021 4047 8.081633 TGTTTGTAACCTATGAAATCAAGCAAG 58.918 33.333 0.00 0.00 0.00 4.01
3022 4048 7.994425 TTGTAACCTATGAAATCAAGCAAGA 57.006 32.000 0.00 0.00 0.00 3.02
3023 4049 7.994425 TGTAACCTATGAAATCAAGCAAGAA 57.006 32.000 0.00 0.00 0.00 2.52
3024 4050 8.044060 TGTAACCTATGAAATCAAGCAAGAAG 57.956 34.615 0.00 0.00 0.00 2.85
3025 4051 7.882791 TGTAACCTATGAAATCAAGCAAGAAGA 59.117 33.333 0.00 0.00 0.00 2.87
3026 4052 6.998968 ACCTATGAAATCAAGCAAGAAGAG 57.001 37.500 0.00 0.00 0.00 2.85
3027 4053 5.884792 ACCTATGAAATCAAGCAAGAAGAGG 59.115 40.000 0.00 0.00 0.00 3.69
3028 4054 5.884792 CCTATGAAATCAAGCAAGAAGAGGT 59.115 40.000 0.00 0.00 0.00 3.85
3029 4055 7.050377 CCTATGAAATCAAGCAAGAAGAGGTA 58.950 38.462 0.00 0.00 0.00 3.08
3030 4056 7.554118 CCTATGAAATCAAGCAAGAAGAGGTAA 59.446 37.037 0.00 0.00 0.00 2.85
3031 4057 7.951347 ATGAAATCAAGCAAGAAGAGGTAAT 57.049 32.000 0.00 0.00 0.00 1.89
3032 4058 7.765695 TGAAATCAAGCAAGAAGAGGTAATT 57.234 32.000 0.00 0.00 0.00 1.40
3033 4059 8.862325 TGAAATCAAGCAAGAAGAGGTAATTA 57.138 30.769 0.00 0.00 0.00 1.40
3034 4060 8.950210 TGAAATCAAGCAAGAAGAGGTAATTAG 58.050 33.333 0.00 0.00 0.00 1.73
3035 4061 8.870075 AAATCAAGCAAGAAGAGGTAATTAGT 57.130 30.769 0.00 0.00 0.00 2.24
3036 4062 8.499403 AATCAAGCAAGAAGAGGTAATTAGTC 57.501 34.615 0.00 0.00 0.00 2.59
3037 4063 7.246171 TCAAGCAAGAAGAGGTAATTAGTCT 57.754 36.000 0.00 0.00 0.00 3.24
3038 4064 7.680730 TCAAGCAAGAAGAGGTAATTAGTCTT 58.319 34.615 8.99 8.99 33.14 3.01
3039 4065 8.157476 TCAAGCAAGAAGAGGTAATTAGTCTTT 58.843 33.333 10.13 1.45 30.55 2.52
3040 4066 8.787852 CAAGCAAGAAGAGGTAATTAGTCTTTT 58.212 33.333 10.13 4.03 30.55 2.27
3041 4067 8.554835 AGCAAGAAGAGGTAATTAGTCTTTTC 57.445 34.615 10.13 9.69 30.55 2.29
3042 4068 7.608376 AGCAAGAAGAGGTAATTAGTCTTTTCC 59.392 37.037 10.13 0.00 30.55 3.13
3043 4069 7.390718 GCAAGAAGAGGTAATTAGTCTTTTCCA 59.609 37.037 10.13 0.00 30.55 3.53
3044 4070 8.722394 CAAGAAGAGGTAATTAGTCTTTTCCAC 58.278 37.037 10.13 0.76 30.55 4.02
3045 4071 7.974504 AGAAGAGGTAATTAGTCTTTTCCACA 58.025 34.615 10.13 0.00 30.55 4.17
3046 4072 8.606830 AGAAGAGGTAATTAGTCTTTTCCACAT 58.393 33.333 10.13 0.00 30.55 3.21
3047 4073 9.886132 GAAGAGGTAATTAGTCTTTTCCACATA 57.114 33.333 10.13 0.00 30.55 2.29
3089 4115 8.492673 TTTCATATGTGGTTTATGTCTCTGAC 57.507 34.615 1.90 0.00 0.00 3.51
3090 4116 7.423844 TCATATGTGGTTTATGTCTCTGACT 57.576 36.000 1.90 0.00 33.15 3.41
3091 4117 7.492524 TCATATGTGGTTTATGTCTCTGACTC 58.507 38.462 1.90 0.00 33.15 3.36
3092 4118 7.343057 TCATATGTGGTTTATGTCTCTGACTCT 59.657 37.037 1.90 0.00 33.15 3.24
3093 4119 5.392767 TGTGGTTTATGTCTCTGACTCTC 57.607 43.478 0.00 0.00 33.15 3.20
3094 4120 4.220821 TGTGGTTTATGTCTCTGACTCTCC 59.779 45.833 0.00 0.00 33.15 3.71
3095 4121 4.220821 GTGGTTTATGTCTCTGACTCTCCA 59.779 45.833 0.00 0.00 33.15 3.86
3096 4122 5.026121 TGGTTTATGTCTCTGACTCTCCAT 58.974 41.667 0.00 0.00 33.15 3.41
3097 4123 6.096987 GTGGTTTATGTCTCTGACTCTCCATA 59.903 42.308 0.00 0.00 33.15 2.74
3098 4124 6.841229 TGGTTTATGTCTCTGACTCTCCATAT 59.159 38.462 0.00 0.00 33.15 1.78
3099 4125 7.014711 TGGTTTATGTCTCTGACTCTCCATATC 59.985 40.741 0.00 0.00 33.15 1.63
3100 4126 7.232534 GGTTTATGTCTCTGACTCTCCATATCT 59.767 40.741 0.00 0.00 33.15 1.98
3101 4127 8.637986 GTTTATGTCTCTGACTCTCCATATCTT 58.362 37.037 0.00 0.00 33.15 2.40
3102 4128 6.653526 ATGTCTCTGACTCTCCATATCTTG 57.346 41.667 0.00 0.00 33.15 3.02
3103 4129 4.340666 TGTCTCTGACTCTCCATATCTTGC 59.659 45.833 0.00 0.00 33.15 4.01
3104 4130 4.340666 GTCTCTGACTCTCCATATCTTGCA 59.659 45.833 0.00 0.00 0.00 4.08
3105 4131 5.010922 GTCTCTGACTCTCCATATCTTGCAT 59.989 44.000 0.00 0.00 0.00 3.96
3106 4132 5.243507 TCTCTGACTCTCCATATCTTGCATC 59.756 44.000 0.00 0.00 0.00 3.91
3107 4133 5.146298 TCTGACTCTCCATATCTTGCATCT 58.854 41.667 0.00 0.00 0.00 2.90
3108 4134 5.243507 TCTGACTCTCCATATCTTGCATCTC 59.756 44.000 0.00 0.00 0.00 2.75
3109 4135 4.897670 TGACTCTCCATATCTTGCATCTCA 59.102 41.667 0.00 0.00 0.00 3.27
3110 4136 5.364735 TGACTCTCCATATCTTGCATCTCAA 59.635 40.000 0.00 0.00 0.00 3.02
3111 4137 5.609423 ACTCTCCATATCTTGCATCTCAAC 58.391 41.667 0.00 0.00 0.00 3.18
3112 4138 5.366186 ACTCTCCATATCTTGCATCTCAACT 59.634 40.000 0.00 0.00 0.00 3.16
3113 4139 6.126825 ACTCTCCATATCTTGCATCTCAACTT 60.127 38.462 0.00 0.00 0.00 2.66
3114 4140 7.070447 ACTCTCCATATCTTGCATCTCAACTTA 59.930 37.037 0.00 0.00 0.00 2.24
3115 4141 7.212976 TCTCCATATCTTGCATCTCAACTTAC 58.787 38.462 0.00 0.00 0.00 2.34
3116 4142 7.070447 TCTCCATATCTTGCATCTCAACTTACT 59.930 37.037 0.00 0.00 0.00 2.24
3117 4143 7.212976 TCCATATCTTGCATCTCAACTTACTC 58.787 38.462 0.00 0.00 0.00 2.59
3118 4144 6.145209 CCATATCTTGCATCTCAACTTACTCG 59.855 42.308 0.00 0.00 0.00 4.18
3119 4145 4.521130 TCTTGCATCTCAACTTACTCGT 57.479 40.909 0.00 0.00 0.00 4.18
3120 4146 4.237724 TCTTGCATCTCAACTTACTCGTG 58.762 43.478 0.00 0.00 0.00 4.35
3121 4147 3.934457 TGCATCTCAACTTACTCGTGA 57.066 42.857 0.00 0.00 0.00 4.35
3122 4148 4.251543 TGCATCTCAACTTACTCGTGAA 57.748 40.909 0.00 0.00 0.00 3.18
3123 4149 4.237724 TGCATCTCAACTTACTCGTGAAG 58.762 43.478 0.00 0.00 0.00 3.02
3124 4150 4.238514 GCATCTCAACTTACTCGTGAAGT 58.761 43.478 0.00 0.00 42.33 3.01
3125 4151 4.090642 GCATCTCAACTTACTCGTGAAGTG 59.909 45.833 0.00 0.00 39.11 3.16
3126 4152 3.639538 TCTCAACTTACTCGTGAAGTGC 58.360 45.455 0.00 0.00 39.11 4.40
3127 4153 3.067601 TCTCAACTTACTCGTGAAGTGCA 59.932 43.478 0.00 0.00 39.11 4.57
3128 4154 3.381045 TCAACTTACTCGTGAAGTGCAG 58.619 45.455 0.00 0.00 39.11 4.41
3129 4155 3.123804 CAACTTACTCGTGAAGTGCAGT 58.876 45.455 0.00 0.00 39.11 4.40
3130 4156 2.743938 ACTTACTCGTGAAGTGCAGTG 58.256 47.619 0.00 0.00 39.11 3.66
3131 4157 2.361119 ACTTACTCGTGAAGTGCAGTGA 59.639 45.455 0.00 0.00 39.11 3.41
3132 4158 2.417339 TACTCGTGAAGTGCAGTGAC 57.583 50.000 0.00 0.00 39.11 3.67
3133 4159 0.747255 ACTCGTGAAGTGCAGTGACT 59.253 50.000 0.00 0.00 36.65 3.41
3134 4160 1.135046 CTCGTGAAGTGCAGTGACTG 58.865 55.000 8.52 8.52 34.12 3.51
3143 4169 4.689484 CAGTGACTGCAGTCCCAG 57.311 61.111 37.23 23.40 44.15 4.45
3144 4170 1.670406 CAGTGACTGCAGTCCCAGC 60.670 63.158 37.23 25.34 44.15 4.85
3145 4171 2.359230 GTGACTGCAGTCCCAGCC 60.359 66.667 37.23 17.79 44.15 4.85
3146 4172 3.640407 TGACTGCAGTCCCAGCCC 61.640 66.667 37.23 17.09 44.15 5.19
3147 4173 3.325753 GACTGCAGTCCCAGCCCT 61.326 66.667 32.55 0.91 39.07 5.19
3148 4174 3.322318 GACTGCAGTCCCAGCCCTC 62.322 68.421 32.55 8.09 39.07 4.30
3149 4175 3.007920 CTGCAGTCCCAGCCCTCT 61.008 66.667 5.25 0.00 0.00 3.69
3150 4176 2.530151 TGCAGTCCCAGCCCTCTT 60.530 61.111 0.00 0.00 0.00 2.85
3151 4177 2.270527 GCAGTCCCAGCCCTCTTC 59.729 66.667 0.00 0.00 0.00 2.87
3152 4178 2.596851 GCAGTCCCAGCCCTCTTCA 61.597 63.158 0.00 0.00 0.00 3.02
3153 4179 2.069776 CAGTCCCAGCCCTCTTCAA 58.930 57.895 0.00 0.00 0.00 2.69
3154 4180 0.622665 CAGTCCCAGCCCTCTTCAAT 59.377 55.000 0.00 0.00 0.00 2.57
3155 4181 1.839994 CAGTCCCAGCCCTCTTCAATA 59.160 52.381 0.00 0.00 0.00 1.90
3156 4182 2.441001 CAGTCCCAGCCCTCTTCAATAT 59.559 50.000 0.00 0.00 0.00 1.28
3157 4183 2.708325 AGTCCCAGCCCTCTTCAATATC 59.292 50.000 0.00 0.00 0.00 1.63
3158 4184 2.057922 TCCCAGCCCTCTTCAATATCC 58.942 52.381 0.00 0.00 0.00 2.59
3159 4185 1.776667 CCCAGCCCTCTTCAATATCCA 59.223 52.381 0.00 0.00 0.00 3.41
3160 4186 2.377869 CCCAGCCCTCTTCAATATCCAT 59.622 50.000 0.00 0.00 0.00 3.41
3161 4187 3.560882 CCCAGCCCTCTTCAATATCCATC 60.561 52.174 0.00 0.00 0.00 3.51
3162 4188 3.073503 CCAGCCCTCTTCAATATCCATCA 59.926 47.826 0.00 0.00 0.00 3.07
3163 4189 4.263816 CCAGCCCTCTTCAATATCCATCAT 60.264 45.833 0.00 0.00 0.00 2.45
3164 4190 5.322754 CAGCCCTCTTCAATATCCATCATT 58.677 41.667 0.00 0.00 0.00 2.57
3165 4191 6.479006 CAGCCCTCTTCAATATCCATCATTA 58.521 40.000 0.00 0.00 0.00 1.90
3166 4192 7.117397 CAGCCCTCTTCAATATCCATCATTAT 58.883 38.462 0.00 0.00 0.00 1.28
3167 4193 7.614583 CAGCCCTCTTCAATATCCATCATTATT 59.385 37.037 0.00 0.00 0.00 1.40
3168 4194 8.175431 AGCCCTCTTCAATATCCATCATTATTT 58.825 33.333 0.00 0.00 0.00 1.40
3169 4195 8.810041 GCCCTCTTCAATATCCATCATTATTTT 58.190 33.333 0.00 0.00 0.00 1.82
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 2.025321 AGATTGCTTCGGGGGTATTGTT 60.025 45.455 0.00 0.00 0.00 2.83
37 38 1.496060 ATCTAGGGTTGTCGGCATCA 58.504 50.000 0.00 0.00 0.00 3.07
72 73 9.020813 GTTTGGTGAGTTTATCTTCTGTTTTTC 57.979 33.333 0.00 0.00 0.00 2.29
75 76 7.013369 GGAGTTTGGTGAGTTTATCTTCTGTTT 59.987 37.037 0.00 0.00 0.00 2.83
80 81 5.644206 GGAGGAGTTTGGTGAGTTTATCTTC 59.356 44.000 0.00 0.00 0.00 2.87
104 105 4.436998 GACCCACCTCAGTCGCGG 62.437 72.222 6.13 0.00 0.00 6.46
106 107 1.810532 CTAGACCCACCTCAGTCGC 59.189 63.158 0.00 0.00 38.08 5.19
113 114 3.077556 CTGGCGCTAGACCCACCT 61.078 66.667 16.85 0.00 0.00 4.00
155 167 0.029300 CCACTGGTTGCAACTTGTCG 59.971 55.000 27.64 15.46 0.00 4.35
160 172 0.109342 CTCTCCCACTGGTTGCAACT 59.891 55.000 27.64 6.77 0.00 3.16
170 182 1.920835 GTTGCTCCCCTCTCCCACT 60.921 63.158 0.00 0.00 0.00 4.00
183 195 0.109342 CTCCTGGTGAGGTTGTTGCT 59.891 55.000 0.00 0.00 40.76 3.91
211 223 2.045561 TAACATGTTATGGGCGGTGG 57.954 50.000 14.35 0.00 33.60 4.61
212 224 3.624326 CATAACATGTTATGGGCGGTG 57.376 47.619 35.78 19.83 45.21 4.94
232 244 6.361481 GGTTTTTAAACTACGCTTGATTCACC 59.639 38.462 5.43 0.00 38.89 4.02
234 246 6.039493 TGGGTTTTTAAACTACGCTTGATTCA 59.961 34.615 14.09 0.00 38.89 2.57
258 270 1.444119 CCGACCGCCAACCCATTATG 61.444 60.000 0.00 0.00 0.00 1.90
260 272 1.628238 ATCCGACCGCCAACCCATTA 61.628 55.000 0.00 0.00 0.00 1.90
261 273 1.628238 TATCCGACCGCCAACCCATT 61.628 55.000 0.00 0.00 0.00 3.16
262 274 2.040009 CTATCCGACCGCCAACCCAT 62.040 60.000 0.00 0.00 0.00 4.00
263 275 2.684294 TATCCGACCGCCAACCCA 60.684 61.111 0.00 0.00 0.00 4.51
265 277 1.963464 TTCCTATCCGACCGCCAACC 61.963 60.000 0.00 0.00 0.00 3.77
266 278 0.108041 TTTCCTATCCGACCGCCAAC 60.108 55.000 0.00 0.00 0.00 3.77
267 279 0.614294 TTTTCCTATCCGACCGCCAA 59.386 50.000 0.00 0.00 0.00 4.52
268 280 0.614294 TTTTTCCTATCCGACCGCCA 59.386 50.000 0.00 0.00 0.00 5.69
269 281 3.464207 TTTTTCCTATCCGACCGCC 57.536 52.632 0.00 0.00 0.00 6.13
298 310 3.465258 AAAAAGACGCCGGGACCGT 62.465 57.895 2.18 3.95 42.31 4.83
302 314 1.964373 GCTCAAAAAGACGCCGGGA 60.964 57.895 2.18 0.00 0.00 5.14
305 317 4.328983 TCTTATTAGCTCAAAAAGACGCCG 59.671 41.667 0.00 0.00 0.00 6.46
317 329 9.674824 CCAATTGATGAATGTTCTTATTAGCTC 57.325 33.333 7.12 0.00 0.00 4.09
322 334 8.472413 CCAGTCCAATTGATGAATGTTCTTATT 58.528 33.333 7.12 0.00 0.00 1.40
329 341 5.183530 TCTCCAGTCCAATTGATGAATGT 57.816 39.130 7.12 0.00 0.00 2.71
335 347 4.739793 TGGTTTTCTCCAGTCCAATTGAT 58.260 39.130 7.12 0.00 33.19 2.57
336 348 4.144297 CTGGTTTTCTCCAGTCCAATTGA 58.856 43.478 7.12 0.00 46.92 2.57
347 359 4.058124 GCCAAATTTGACTGGTTTTCTCC 58.942 43.478 19.86 0.00 34.97 3.71
357 369 1.047801 AAAGCCGGCCAAATTTGACT 58.952 45.000 26.15 0.00 0.00 3.41
358 370 1.877637 AAAAGCCGGCCAAATTTGAC 58.122 45.000 26.15 7.94 0.00 3.18
360 372 1.266446 CCAAAAAGCCGGCCAAATTTG 59.734 47.619 26.15 25.47 0.00 2.32
364 376 0.541863 TTTCCAAAAAGCCGGCCAAA 59.458 45.000 26.15 8.03 0.00 3.28
366 378 0.179070 GTTTTCCAAAAAGCCGGCCA 60.179 50.000 26.15 0.00 0.00 5.36
368 380 2.612200 GGTTTTCCAAAAAGCCGGC 58.388 52.632 21.89 21.89 36.24 6.13
373 385 6.535508 TGTTTATTCACCGGTTTTCCAAAAAG 59.464 34.615 2.97 0.00 40.70 2.27
377 389 5.360144 TCTTGTTTATTCACCGGTTTTCCAA 59.640 36.000 2.97 0.89 40.70 3.53
385 397 9.632807 TTAATCATTTTCTTGTTTATTCACCGG 57.367 29.630 0.00 0.00 0.00 5.28
398 413 9.947433 TCCAAATTCTGCATTAATCATTTTCTT 57.053 25.926 0.00 0.00 0.00 2.52
480 507 4.072131 AGCATGGTCGAGTTGTTTATTGT 58.928 39.130 0.00 0.00 0.00 2.71
487 514 3.067106 CAAAGTAGCATGGTCGAGTTGT 58.933 45.455 0.00 0.00 0.00 3.32
589 1582 9.950680 ATCGCCAGTTTTCTACATAAAATAATG 57.049 29.630 0.00 0.00 31.43 1.90
603 1596 1.153353 TCGGTTCATCGCCAGTTTTC 58.847 50.000 0.00 0.00 0.00 2.29
609 1602 0.742990 GGTTCATCGGTTCATCGCCA 60.743 55.000 0.00 0.00 0.00 5.69
631 1625 6.239176 GGTTCAGGTTTGTACAATTTGGATCA 60.239 38.462 9.56 0.00 0.00 2.92
633 1627 5.278758 CGGTTCAGGTTTGTACAATTTGGAT 60.279 40.000 9.56 0.00 0.00 3.41
639 1633 3.811083 TGTCGGTTCAGGTTTGTACAAT 58.189 40.909 9.56 0.00 0.00 2.71
640 1634 3.199677 CTGTCGGTTCAGGTTTGTACAA 58.800 45.455 3.59 3.59 0.00 2.41
641 1635 2.484065 CCTGTCGGTTCAGGTTTGTACA 60.484 50.000 11.94 0.00 46.92 2.90
694 1688 6.430864 TGATTTGCCCTTGATTCCATAGTTA 58.569 36.000 0.00 0.00 0.00 2.24
770 1771 1.836604 TGGCAAAAGGGGTGGAAGC 60.837 57.895 0.00 0.00 0.00 3.86
771 1772 1.805428 CGTGGCAAAAGGGGTGGAAG 61.805 60.000 0.00 0.00 0.00 3.46
772 1773 1.830408 CGTGGCAAAAGGGGTGGAA 60.830 57.895 0.00 0.00 0.00 3.53
773 1774 2.203422 CGTGGCAAAAGGGGTGGA 60.203 61.111 0.00 0.00 0.00 4.02
811 1812 6.015434 ACAAATCCTGGTCTGTTTGGTTAATC 60.015 38.462 15.34 0.00 36.23 1.75
848 1849 1.352156 GGTCGATTCAGTGTGGACGC 61.352 60.000 0.00 0.00 0.00 5.19
855 1856 1.021390 GTGGCTGGGTCGATTCAGTG 61.021 60.000 15.93 0.00 33.81 3.66
876 1877 2.679837 CAAATCTCTCAATCCACCGTGG 59.320 50.000 11.73 11.73 39.43 4.94
877 1878 3.599343 TCAAATCTCTCAATCCACCGTG 58.401 45.455 0.00 0.00 0.00 4.94
878 1879 3.515502 TCTCAAATCTCTCAATCCACCGT 59.484 43.478 0.00 0.00 0.00 4.83
879 1880 4.128925 TCTCAAATCTCTCAATCCACCG 57.871 45.455 0.00 0.00 0.00 4.94
880 1881 6.928492 GTCTATCTCAAATCTCTCAATCCACC 59.072 42.308 0.00 0.00 0.00 4.61
906 1907 1.692411 GCCTCCTCTCTCTTCCTCTC 58.308 60.000 0.00 0.00 0.00 3.20
911 1912 2.811799 GCGGCCTCCTCTCTCTTC 59.188 66.667 0.00 0.00 0.00 2.87
1056 2063 3.838271 GGATGGCCGCACGAGAGA 61.838 66.667 0.00 0.00 0.00 3.10
1057 2064 4.899239 GGGATGGCCGCACGAGAG 62.899 72.222 0.00 0.00 33.83 3.20
1223 2230 4.704833 TCTTGGTGGAGCGCAGGC 62.705 66.667 11.47 0.00 40.37 4.85
1403 2410 1.155042 GAGGATGATCTTGCGGATGC 58.845 55.000 0.00 0.00 43.20 3.91
1415 2422 1.481871 GTACGGGTTGGAGAGGATGA 58.518 55.000 0.00 0.00 0.00 2.92
1542 2549 2.109126 GTTGCCGTGGATGAGCTCC 61.109 63.158 12.15 0.00 45.19 4.70
1615 2622 0.319900 AGCTTGACGATGACAGCGTT 60.320 50.000 20.90 3.97 42.77 4.84
1728 2735 1.223487 GGCGTAAGGGAAGATGCCA 59.777 57.895 0.23 0.00 45.53 4.92
1779 2786 2.109799 CCGATCCTGCGCTTCCAT 59.890 61.111 9.73 0.00 0.00 3.41
1796 2803 2.360165 CACCCCAAGCTGAGATAATTGC 59.640 50.000 0.00 0.00 0.00 3.56
1875 2882 3.449018 AGATACGCCTCACTTTGTCATCT 59.551 43.478 0.00 0.00 0.00 2.90
1878 2885 2.415491 CGAGATACGCCTCACTTTGTCA 60.415 50.000 0.00 0.00 32.86 3.58
1911 2918 0.255890 GGGTCCAGCCAAGCTTATCA 59.744 55.000 0.00 0.00 36.40 2.15
1928 2935 3.742640 GCTAGCTGAAACATACTCTGGGG 60.743 52.174 7.70 0.00 0.00 4.96
2219 3226 1.078848 CAGTCGAGGCCAGGGAAAG 60.079 63.158 5.01 0.00 0.00 2.62
2222 3229 2.680352 GACAGTCGAGGCCAGGGA 60.680 66.667 5.01 0.00 0.00 4.20
2239 3246 9.691362 AAGGTGCAGTAAAGTATAACAAAATTG 57.309 29.630 0.00 0.00 0.00 2.32
2250 3257 6.262273 CAGAAAGGAAAAGGTGCAGTAAAGTA 59.738 38.462 0.00 0.00 0.00 2.24
2255 3262 4.431416 TCAGAAAGGAAAAGGTGCAGTA 57.569 40.909 0.00 0.00 0.00 2.74
2263 3270 5.786311 TGGCATGATTTCAGAAAGGAAAAG 58.214 37.500 0.00 0.00 39.94 2.27
2268 3275 3.118920 TGCATGGCATGATTTCAGAAAGG 60.119 43.478 30.69 0.00 31.71 3.11
2294 3301 2.951229 AGTTTCGTTGATCCCAGGTT 57.049 45.000 0.00 0.00 0.00 3.50
2307 3314 7.855904 GGCATAACAAACAGGATATAAGTTTCG 59.144 37.037 0.00 0.00 33.54 3.46
2387 3404 1.534729 ACGATTTCCAGGCAGTTTCC 58.465 50.000 0.00 0.00 0.00 3.13
2397 3414 3.684305 CACTTGCATCACTACGATTTCCA 59.316 43.478 0.00 0.00 29.21 3.53
2409 3426 2.677524 GGCTGCCCACTTGCATCA 60.678 61.111 7.66 0.00 41.16 3.07
2428 3445 3.928727 TTATACCAGACGGAATAGCGG 57.071 47.619 0.00 0.00 35.59 5.52
2477 3495 1.375908 CAGGCAAGCCACGAAGCTA 60.376 57.895 14.40 0.00 44.11 3.32
2598 3621 6.041409 TCCTATTCATGGTGCAAACTTCAAAA 59.959 34.615 0.00 0.00 0.00 2.44
2662 3688 5.643777 ACAAGTCGTTCAGCTATAAAATGCT 59.356 36.000 0.00 0.00 40.54 3.79
2663 3689 5.869350 ACAAGTCGTTCAGCTATAAAATGC 58.131 37.500 0.00 0.00 0.00 3.56
2664 3690 7.060600 TGACAAGTCGTTCAGCTATAAAATG 57.939 36.000 0.00 0.00 0.00 2.32
2665 3691 7.549134 TCATGACAAGTCGTTCAGCTATAAAAT 59.451 33.333 0.00 0.00 0.00 1.82
2666 3692 6.871492 TCATGACAAGTCGTTCAGCTATAAAA 59.129 34.615 0.00 0.00 0.00 1.52
2667 3693 6.310467 GTCATGACAAGTCGTTCAGCTATAAA 59.690 38.462 21.07 0.00 0.00 1.40
2704 3730 3.909430 TGTGGACGTGAGATGTAACTTC 58.091 45.455 0.00 0.00 0.00 3.01
2717 3743 1.541147 CAAGCATGGATTTGTGGACGT 59.459 47.619 0.00 0.00 0.00 4.34
2718 3744 1.541147 ACAAGCATGGATTTGTGGACG 59.459 47.619 0.00 0.00 36.26 4.79
2722 3748 5.349270 CCAACATAACAAGCATGGATTTGTG 59.651 40.000 0.00 0.00 37.57 3.33
2724 3750 4.871557 CCCAACATAACAAGCATGGATTTG 59.128 41.667 0.00 0.00 0.00 2.32
2725 3751 4.623647 GCCCAACATAACAAGCATGGATTT 60.624 41.667 0.00 0.00 0.00 2.17
2728 3754 1.824230 GCCCAACATAACAAGCATGGA 59.176 47.619 0.00 0.00 0.00 3.41
2729 3755 1.134729 GGCCCAACATAACAAGCATGG 60.135 52.381 0.00 0.00 0.00 3.66
2788 3814 3.161067 CCTAGATGGAGATCACGGTGAT 58.839 50.000 22.84 22.84 37.71 3.06
2789 3815 2.174854 TCCTAGATGGAGATCACGGTGA 59.825 50.000 14.01 14.01 40.56 4.02
2858 3884 6.895756 TCCTAACTTGGTACACACTCTATGAT 59.104 38.462 0.00 0.00 39.29 2.45
2859 3885 6.250711 TCCTAACTTGGTACACACTCTATGA 58.749 40.000 0.00 0.00 39.29 2.15
2875 3901 3.055094 CACCTATGTGCCACTCCTAACTT 60.055 47.826 0.00 0.00 35.31 2.66
2887 3913 0.523072 CAGTGCAACCACCTATGTGC 59.477 55.000 0.00 0.00 43.09 4.57
2900 3926 9.402320 TGATAAAAATTAATAGCTACCAGTGCA 57.598 29.630 0.00 0.00 0.00 4.57
2972 3998 6.183361 ACAATCCCTATATGTACTTGGGGTTC 60.183 42.308 10.65 0.00 39.08 3.62
2975 4001 5.843019 ACAATCCCTATATGTACTTGGGG 57.157 43.478 6.25 6.25 38.43 4.96
2979 4005 9.623000 GGTTACAAACAATCCCTATATGTACTT 57.377 33.333 0.00 0.00 0.00 2.24
2988 4014 9.403583 GATTTCATAGGTTACAAACAATCCCTA 57.596 33.333 0.00 0.00 0.00 3.53
2992 4018 9.076596 GCTTGATTTCATAGGTTACAAACAATC 57.923 33.333 0.00 0.00 0.00 2.67
2997 4023 8.402798 TCTTGCTTGATTTCATAGGTTACAAA 57.597 30.769 0.00 0.00 0.00 2.83
2998 4024 7.994425 TCTTGCTTGATTTCATAGGTTACAA 57.006 32.000 0.00 0.00 0.00 2.41
2999 4025 7.882791 TCTTCTTGCTTGATTTCATAGGTTACA 59.117 33.333 0.00 0.00 0.00 2.41
3000 4026 8.268850 TCTTCTTGCTTGATTTCATAGGTTAC 57.731 34.615 0.00 0.00 0.00 2.50
3001 4027 7.554118 CCTCTTCTTGCTTGATTTCATAGGTTA 59.446 37.037 0.00 0.00 0.00 2.85
3002 4028 6.376581 CCTCTTCTTGCTTGATTTCATAGGTT 59.623 38.462 0.00 0.00 0.00 3.50
3003 4029 5.884792 CCTCTTCTTGCTTGATTTCATAGGT 59.115 40.000 0.00 0.00 0.00 3.08
3004 4030 5.884792 ACCTCTTCTTGCTTGATTTCATAGG 59.115 40.000 0.00 0.00 0.00 2.57
3005 4031 6.998968 ACCTCTTCTTGCTTGATTTCATAG 57.001 37.500 0.00 0.00 0.00 2.23
3006 4032 9.466497 AATTACCTCTTCTTGCTTGATTTCATA 57.534 29.630 0.00 0.00 0.00 2.15
3007 4033 7.951347 ATTACCTCTTCTTGCTTGATTTCAT 57.049 32.000 0.00 0.00 0.00 2.57
3008 4034 7.765695 AATTACCTCTTCTTGCTTGATTTCA 57.234 32.000 0.00 0.00 0.00 2.69
3009 4035 8.951243 ACTAATTACCTCTTCTTGCTTGATTTC 58.049 33.333 0.00 0.00 0.00 2.17
3010 4036 8.870075 ACTAATTACCTCTTCTTGCTTGATTT 57.130 30.769 0.00 0.00 0.00 2.17
3011 4037 8.325046 AGACTAATTACCTCTTCTTGCTTGATT 58.675 33.333 0.00 0.00 0.00 2.57
3012 4038 7.856415 AGACTAATTACCTCTTCTTGCTTGAT 58.144 34.615 0.00 0.00 0.00 2.57
3013 4039 7.246171 AGACTAATTACCTCTTCTTGCTTGA 57.754 36.000 0.00 0.00 0.00 3.02
3014 4040 7.913674 AAGACTAATTACCTCTTCTTGCTTG 57.086 36.000 0.00 0.00 0.00 4.01
3015 4041 8.926092 AAAAGACTAATTACCTCTTCTTGCTT 57.074 30.769 2.47 0.00 0.00 3.91
3016 4042 7.608376 GGAAAAGACTAATTACCTCTTCTTGCT 59.392 37.037 2.47 0.00 0.00 3.91
3017 4043 7.390718 TGGAAAAGACTAATTACCTCTTCTTGC 59.609 37.037 2.47 5.28 0.00 4.01
3018 4044 8.722394 GTGGAAAAGACTAATTACCTCTTCTTG 58.278 37.037 2.47 0.00 0.00 3.02
3019 4045 8.437575 TGTGGAAAAGACTAATTACCTCTTCTT 58.562 33.333 2.47 0.00 0.00 2.52
3020 4046 7.974504 TGTGGAAAAGACTAATTACCTCTTCT 58.025 34.615 2.47 0.00 0.00 2.85
3021 4047 8.794335 ATGTGGAAAAGACTAATTACCTCTTC 57.206 34.615 2.47 0.00 0.00 2.87
3063 4089 9.113838 GTCAGAGACATAAACCACATATGAAAT 57.886 33.333 10.38 0.00 35.28 2.17
3064 4090 8.321353 AGTCAGAGACATAAACCACATATGAAA 58.679 33.333 10.38 0.00 35.28 2.69
3065 4091 7.851228 AGTCAGAGACATAAACCACATATGAA 58.149 34.615 10.38 0.00 35.28 2.57
3066 4092 7.343057 AGAGTCAGAGACATAAACCACATATGA 59.657 37.037 10.38 0.00 35.28 2.15
3067 4093 7.495901 AGAGTCAGAGACATAAACCACATATG 58.504 38.462 0.00 0.00 36.92 1.78
3068 4094 7.201956 GGAGAGTCAGAGACATAAACCACATAT 60.202 40.741 0.00 0.00 34.60 1.78
3069 4095 6.096987 GGAGAGTCAGAGACATAAACCACATA 59.903 42.308 0.00 0.00 34.60 2.29
3070 4096 5.105146 GGAGAGTCAGAGACATAAACCACAT 60.105 44.000 0.00 0.00 34.60 3.21
3071 4097 4.220821 GGAGAGTCAGAGACATAAACCACA 59.779 45.833 0.00 0.00 34.60 4.17
3072 4098 4.220821 TGGAGAGTCAGAGACATAAACCAC 59.779 45.833 0.00 0.00 34.60 4.16
3073 4099 4.416516 TGGAGAGTCAGAGACATAAACCA 58.583 43.478 0.00 0.00 34.60 3.67
3074 4100 5.606348 ATGGAGAGTCAGAGACATAAACC 57.394 43.478 0.00 0.00 34.60 3.27
3075 4101 8.177119 AGATATGGAGAGTCAGAGACATAAAC 57.823 38.462 0.00 0.00 34.60 2.01
3076 4102 8.637099 CAAGATATGGAGAGTCAGAGACATAAA 58.363 37.037 0.00 0.00 34.60 1.40
3077 4103 7.255766 GCAAGATATGGAGAGTCAGAGACATAA 60.256 40.741 0.00 0.00 34.60 1.90
3078 4104 6.208402 GCAAGATATGGAGAGTCAGAGACATA 59.792 42.308 0.00 0.00 34.60 2.29
3079 4105 5.010922 GCAAGATATGGAGAGTCAGAGACAT 59.989 44.000 0.00 0.00 34.60 3.06
3080 4106 4.340666 GCAAGATATGGAGAGTCAGAGACA 59.659 45.833 0.00 0.00 34.60 3.41
3081 4107 4.340666 TGCAAGATATGGAGAGTCAGAGAC 59.659 45.833 0.00 0.00 0.00 3.36
3082 4108 4.540715 TGCAAGATATGGAGAGTCAGAGA 58.459 43.478 0.00 0.00 0.00 3.10
3083 4109 4.933505 TGCAAGATATGGAGAGTCAGAG 57.066 45.455 0.00 0.00 0.00 3.35
3084 4110 5.146298 AGATGCAAGATATGGAGAGTCAGA 58.854 41.667 0.00 0.00 30.55 3.27
3085 4111 5.010820 TGAGATGCAAGATATGGAGAGTCAG 59.989 44.000 0.00 0.00 30.55 3.51
3086 4112 4.897670 TGAGATGCAAGATATGGAGAGTCA 59.102 41.667 0.00 0.00 30.55 3.41
3087 4113 5.465532 TGAGATGCAAGATATGGAGAGTC 57.534 43.478 0.00 0.00 30.55 3.36
3088 4114 5.366186 AGTTGAGATGCAAGATATGGAGAGT 59.634 40.000 0.00 0.00 37.12 3.24
3089 4115 5.856156 AGTTGAGATGCAAGATATGGAGAG 58.144 41.667 0.00 0.00 37.12 3.20
3090 4116 5.883685 AGTTGAGATGCAAGATATGGAGA 57.116 39.130 0.00 0.00 37.12 3.71
3091 4117 7.215789 AGTAAGTTGAGATGCAAGATATGGAG 58.784 38.462 0.00 0.00 37.12 3.86
3092 4118 7.129457 AGTAAGTTGAGATGCAAGATATGGA 57.871 36.000 0.00 0.00 37.12 3.41
3093 4119 6.145209 CGAGTAAGTTGAGATGCAAGATATGG 59.855 42.308 0.00 0.00 37.12 2.74
3094 4120 6.699204 ACGAGTAAGTTGAGATGCAAGATATG 59.301 38.462 0.00 0.00 37.12 1.78
3095 4121 6.699204 CACGAGTAAGTTGAGATGCAAGATAT 59.301 38.462 0.00 0.00 37.12 1.63
3096 4122 6.036470 CACGAGTAAGTTGAGATGCAAGATA 58.964 40.000 0.00 0.00 37.12 1.98
3097 4123 4.867047 CACGAGTAAGTTGAGATGCAAGAT 59.133 41.667 0.00 0.00 37.12 2.40
3098 4124 4.022329 TCACGAGTAAGTTGAGATGCAAGA 60.022 41.667 0.00 0.00 37.12 3.02
3099 4125 4.237724 TCACGAGTAAGTTGAGATGCAAG 58.762 43.478 0.00 0.00 37.12 4.01
3100 4126 4.251543 TCACGAGTAAGTTGAGATGCAA 57.748 40.909 0.00 0.00 0.00 4.08
3101 4127 3.934457 TCACGAGTAAGTTGAGATGCA 57.066 42.857 0.00 0.00 0.00 3.96
3102 4128 4.090642 CACTTCACGAGTAAGTTGAGATGC 59.909 45.833 0.00 0.00 36.65 3.91
3103 4129 4.090642 GCACTTCACGAGTAAGTTGAGATG 59.909 45.833 0.00 0.00 36.65 2.90
3104 4130 4.238514 GCACTTCACGAGTAAGTTGAGAT 58.761 43.478 0.00 0.00 36.65 2.75
3105 4131 3.067601 TGCACTTCACGAGTAAGTTGAGA 59.932 43.478 0.00 0.00 36.65 3.27
3106 4132 3.381045 TGCACTTCACGAGTAAGTTGAG 58.619 45.455 0.00 0.00 36.65 3.02
3107 4133 3.181479 ACTGCACTTCACGAGTAAGTTGA 60.181 43.478 0.00 0.00 36.65 3.18
3108 4134 3.060272 CACTGCACTTCACGAGTAAGTTG 60.060 47.826 0.00 0.00 36.65 3.16
3109 4135 3.123804 CACTGCACTTCACGAGTAAGTT 58.876 45.455 0.00 0.00 36.65 2.66
3110 4136 2.361119 TCACTGCACTTCACGAGTAAGT 59.639 45.455 0.00 0.00 36.65 2.24
3111 4137 2.726760 GTCACTGCACTTCACGAGTAAG 59.273 50.000 0.00 0.00 36.65 2.34
3112 4138 2.361119 AGTCACTGCACTTCACGAGTAA 59.639 45.455 0.00 0.00 36.65 2.24
3113 4139 1.954382 AGTCACTGCACTTCACGAGTA 59.046 47.619 0.00 0.00 36.65 2.59
3114 4140 0.747255 AGTCACTGCACTTCACGAGT 59.253 50.000 0.00 0.00 39.89 4.18
3115 4141 1.135046 CAGTCACTGCACTTCACGAG 58.865 55.000 0.00 0.00 0.00 4.18
3116 4142 3.272766 CAGTCACTGCACTTCACGA 57.727 52.632 0.00 0.00 0.00 4.35
3135 4161 0.622665 ATTGAAGAGGGCTGGGACTG 59.377 55.000 0.00 0.00 0.00 3.51
3136 4162 2.270434 TATTGAAGAGGGCTGGGACT 57.730 50.000 0.00 0.00 0.00 3.85
3137 4163 2.224646 GGATATTGAAGAGGGCTGGGAC 60.225 54.545 0.00 0.00 0.00 4.46
3138 4164 2.057922 GGATATTGAAGAGGGCTGGGA 58.942 52.381 0.00 0.00 0.00 4.37
3139 4165 1.776667 TGGATATTGAAGAGGGCTGGG 59.223 52.381 0.00 0.00 0.00 4.45
3140 4166 3.073503 TGATGGATATTGAAGAGGGCTGG 59.926 47.826 0.00 0.00 0.00 4.85
3141 4167 4.362470 TGATGGATATTGAAGAGGGCTG 57.638 45.455 0.00 0.00 0.00 4.85
3142 4168 5.595814 AATGATGGATATTGAAGAGGGCT 57.404 39.130 0.00 0.00 0.00 5.19
3143 4169 7.951347 AATAATGATGGATATTGAAGAGGGC 57.049 36.000 0.00 0.00 0.00 5.19


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

AutoCloner maintained by Alex Coulton.