Multiple sequence alignment - TraesCS2B01G035600

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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 TraesCS2B01G035600 chr2B 100.000 2696 0 0 790 3485 17110392 17113087 0.000000e+00 4979
1 TraesCS2B01G035600 chr2B 100.000 387 0 0 1 387 17109603 17109989 0.000000e+00 715
2 TraesCS2B01G035600 chr2B 73.356 1445 291 58 1069 2469 5718358 5716964 1.910000e-122 449
3 TraesCS2B01G035600 chr2B 90.196 102 8 2 271 371 17110466 17110566 7.850000e-27 132
4 TraesCS2B01G035600 chrUn 94.714 1873 47 10 920 2767 266690412 266692257 0.000000e+00 2863
5 TraesCS2B01G035600 chrUn 94.661 1873 48 10 920 2767 228906114 228907959 0.000000e+00 2857
6 TraesCS2B01G035600 chrUn 93.515 586 27 5 2911 3485 228908100 228908685 0.000000e+00 861
7 TraesCS2B01G035600 chrUn 93.515 586 27 5 2911 3485 266692398 266692983 0.000000e+00 861
8 TraesCS2B01G035600 chrUn 94.118 323 16 3 29 349 228904979 228905300 4.040000e-134 488
9 TraesCS2B01G035600 chrUn 94.118 323 16 3 29 349 346963867 346964188 4.040000e-134 488
10 TraesCS2B01G035600 chrUn 95.918 98 4 0 2786 2883 228907947 228908044 3.600000e-35 159
11 TraesCS2B01G035600 chrUn 95.918 98 4 0 2786 2883 266692245 266692342 3.600000e-35 159
12 TraesCS2B01G035600 chr4D 82.725 1453 208 19 1047 2491 19402301 19403718 0.000000e+00 1253
13 TraesCS2B01G035600 chr2D 81.006 1611 262 27 1050 2647 11095940 11094361 0.000000e+00 1240


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 TraesCS2B01G035600 chr2B 17109603 17113087 3484 False 1942.000000 4979 96.732000 1 3485 3 chr2B.!!$F1 3484
1 TraesCS2B01G035600 chr2B 5716964 5718358 1394 True 449.000000 449 73.356000 1069 2469 1 chr2B.!!$R1 1400
2 TraesCS2B01G035600 chrUn 266690412 266692983 2571 False 1294.333333 2863 94.715667 920 3485 3 chrUn.!!$F3 2565
3 TraesCS2B01G035600 chrUn 228904979 228908685 3706 False 1091.250000 2857 94.553000 29 3485 4 chrUn.!!$F2 3456
4 TraesCS2B01G035600 chr4D 19402301 19403718 1417 False 1253.000000 1253 82.725000 1047 2491 1 chr4D.!!$F1 1444
5 TraesCS2B01G035600 chr2D 11094361 11095940 1579 True 1240.000000 1240 81.006000 1050 2647 1 chr2D.!!$R1 1597

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
360 361 0.041982 AGGAGGAGGAAGTGGAGGTC 59.958 60.0 0.0 0.0 0.0 3.85 F
902 903 0.041982 GAGGAGGAGGAAGTGGAGGT 59.958 60.0 0.0 0.0 0.0 3.85 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2151 2906 0.526211 CGTCTCTTCCGATGTCACCA 59.474 55.0 0.0 0.0 0.00 4.17 R
2523 3281 0.179158 AAACGGGAAAACACACGCAC 60.179 50.0 0.0 0.0 40.59 5.34 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
134 135 7.928873 AGTATGAGGAAATTGAAAAGGTAGGA 58.071 34.615 0.00 0.00 0.00 2.94
148 149 1.381191 TAGGAGCATGTGGAGCCGA 60.381 57.895 0.00 0.00 0.00 5.54
149 150 0.975556 TAGGAGCATGTGGAGCCGAA 60.976 55.000 0.00 0.00 0.00 4.30
172 173 0.188342 AGCAAATCCGGGCCCATAAT 59.812 50.000 24.92 8.81 0.00 1.28
174 175 0.881118 CAAATCCGGGCCCATAATCG 59.119 55.000 24.92 6.17 0.00 3.34
183 184 1.557443 GCCCATAATCGTTCGCGGAG 61.557 60.000 6.13 0.00 41.70 4.63
228 229 3.446442 AAGTGGGCATCTGATCACTTT 57.554 42.857 14.15 3.58 44.88 2.66
231 232 3.084039 GTGGGCATCTGATCACTTTCAA 58.916 45.455 0.00 0.00 0.00 2.69
242 243 6.701841 TCTGATCACTTTCAACACAACTACTC 59.298 38.462 0.00 0.00 0.00 2.59
285 286 5.248248 TCAGTCTTTGAGAGAGAGAGAGAGA 59.752 44.000 0.00 0.00 34.31 3.10
294 295 0.258774 AGAGAGAGAGAGGGGAGCAC 59.741 60.000 0.00 0.00 0.00 4.40
312 313 0.900647 ACGAGGAAGTGGAGGTCCTG 60.901 60.000 0.00 0.00 44.57 3.86
322 323 3.733281 AGTGGAGGTCCTGGGTACTATAT 59.267 47.826 0.00 0.00 36.82 0.86
340 341 9.026121 GTACTATATGAGAGAGAGAGAGAGAGT 57.974 40.741 0.00 0.00 0.00 3.24
342 343 9.249053 ACTATATGAGAGAGAGAGAGAGAGTAG 57.751 40.741 0.00 0.00 0.00 2.57
343 344 5.815233 ATGAGAGAGAGAGAGAGAGTAGG 57.185 47.826 0.00 0.00 0.00 3.18
344 345 4.878968 TGAGAGAGAGAGAGAGAGTAGGA 58.121 47.826 0.00 0.00 0.00 2.94
345 346 4.895889 TGAGAGAGAGAGAGAGAGTAGGAG 59.104 50.000 0.00 0.00 0.00 3.69
346 347 4.227197 AGAGAGAGAGAGAGAGTAGGAGG 58.773 52.174 0.00 0.00 0.00 4.30
347 348 4.078571 AGAGAGAGAGAGAGAGTAGGAGGA 60.079 50.000 0.00 0.00 0.00 3.71
348 349 4.227197 AGAGAGAGAGAGAGTAGGAGGAG 58.773 52.174 0.00 0.00 0.00 3.69
349 350 3.318313 AGAGAGAGAGAGTAGGAGGAGG 58.682 54.545 0.00 0.00 0.00 4.30
350 351 3.051341 AGAGAGAGAGAGTAGGAGGAGGA 60.051 52.174 0.00 0.00 0.00 3.71
351 352 3.714798 GAGAGAGAGAGTAGGAGGAGGAA 59.285 52.174 0.00 0.00 0.00 3.36
352 353 3.716872 AGAGAGAGAGTAGGAGGAGGAAG 59.283 52.174 0.00 0.00 0.00 3.46
353 354 3.458487 GAGAGAGAGTAGGAGGAGGAAGT 59.542 52.174 0.00 0.00 0.00 3.01
354 355 3.202151 AGAGAGAGTAGGAGGAGGAAGTG 59.798 52.174 0.00 0.00 0.00 3.16
355 356 2.243736 AGAGAGTAGGAGGAGGAAGTGG 59.756 54.545 0.00 0.00 0.00 4.00
356 357 2.242708 GAGAGTAGGAGGAGGAAGTGGA 59.757 54.545 0.00 0.00 0.00 4.02
357 358 2.243736 AGAGTAGGAGGAGGAAGTGGAG 59.756 54.545 0.00 0.00 0.00 3.86
358 359 1.289530 AGTAGGAGGAGGAAGTGGAGG 59.710 57.143 0.00 0.00 0.00 4.30
359 360 1.007359 GTAGGAGGAGGAAGTGGAGGT 59.993 57.143 0.00 0.00 0.00 3.85
360 361 0.041982 AGGAGGAGGAAGTGGAGGTC 59.958 60.000 0.00 0.00 0.00 3.85
361 362 0.978667 GGAGGAGGAAGTGGAGGTCC 60.979 65.000 0.00 0.00 0.00 4.46
363 364 0.252467 AGGAGGAAGTGGAGGTCCTG 60.252 60.000 0.00 0.00 44.57 3.86
364 365 1.268283 GGAGGAAGTGGAGGTCCTGG 61.268 65.000 0.00 0.00 44.57 4.45
365 366 0.545548 GAGGAAGTGGAGGTCCTGGT 60.546 60.000 0.00 0.00 44.57 4.00
366 367 0.790993 AGGAAGTGGAGGTCCTGGTA 59.209 55.000 0.00 0.00 42.87 3.25
367 368 0.903236 GGAAGTGGAGGTCCTGGTAC 59.097 60.000 0.00 0.00 36.82 3.34
368 369 1.552719 GGAAGTGGAGGTCCTGGTACT 60.553 57.143 0.00 0.00 36.82 2.73
369 370 2.292061 GGAAGTGGAGGTCCTGGTACTA 60.292 54.545 0.00 0.00 36.82 1.82
370 371 3.630311 GGAAGTGGAGGTCCTGGTACTAT 60.630 52.174 0.00 0.00 36.82 2.12
371 372 4.387211 GGAAGTGGAGGTCCTGGTACTATA 60.387 50.000 0.00 0.00 36.82 1.31
372 373 5.395611 GAAGTGGAGGTCCTGGTACTATAT 58.604 45.833 0.00 0.00 36.82 0.86
373 374 6.468359 GGAAGTGGAGGTCCTGGTACTATATA 60.468 46.154 0.00 0.00 36.82 0.86
374 375 6.541264 AGTGGAGGTCCTGGTACTATATAA 57.459 41.667 0.00 0.00 36.82 0.98
375 376 6.553857 AGTGGAGGTCCTGGTACTATATAAG 58.446 44.000 0.00 0.00 36.82 1.73
376 377 6.334774 AGTGGAGGTCCTGGTACTATATAAGA 59.665 42.308 0.00 0.00 36.82 2.10
377 378 6.660094 GTGGAGGTCCTGGTACTATATAAGAG 59.340 46.154 0.00 0.00 36.82 2.85
378 379 6.565314 TGGAGGTCCTGGTACTATATAAGAGA 59.435 42.308 0.00 0.00 36.82 3.10
379 380 6.885918 GGAGGTCCTGGTACTATATAAGAGAC 59.114 46.154 0.00 0.00 0.00 3.36
380 381 7.403837 AGGTCCTGGTACTATATAAGAGACA 57.596 40.000 0.00 0.00 0.00 3.41
381 382 7.463431 AGGTCCTGGTACTATATAAGAGACAG 58.537 42.308 0.00 0.00 0.00 3.51
382 383 7.295196 AGGTCCTGGTACTATATAAGAGACAGA 59.705 40.741 0.00 0.00 0.00 3.41
383 384 7.608761 GGTCCTGGTACTATATAAGAGACAGAG 59.391 44.444 0.00 0.00 0.00 3.35
384 385 8.377034 GTCCTGGTACTATATAAGAGACAGAGA 58.623 40.741 0.00 0.00 0.00 3.10
385 386 8.598916 TCCTGGTACTATATAAGAGACAGAGAG 58.401 40.741 0.00 0.00 0.00 3.20
386 387 8.598916 CCTGGTACTATATAAGAGACAGAGAGA 58.401 40.741 0.00 0.00 0.00 3.10
812 813 5.241403 AGAGAGAGAGACAGACAGAAAGA 57.759 43.478 0.00 0.00 0.00 2.52
823 824 3.696051 CAGACAGAAAGAGAGAGAGGAGG 59.304 52.174 0.00 0.00 0.00 4.30
824 825 3.591527 AGACAGAAAGAGAGAGAGGAGGA 59.408 47.826 0.00 0.00 0.00 3.71
825 826 3.947834 GACAGAAAGAGAGAGAGGAGGAG 59.052 52.174 0.00 0.00 0.00 3.69
826 827 3.290710 CAGAAAGAGAGAGAGGAGGAGG 58.709 54.545 0.00 0.00 0.00 4.30
827 828 3.053693 CAGAAAGAGAGAGAGGAGGAGGA 60.054 52.174 0.00 0.00 0.00 3.71
828 829 3.203040 AGAAAGAGAGAGAGGAGGAGGAG 59.797 52.174 0.00 0.00 0.00 3.69
829 830 1.522900 AGAGAGAGAGGAGGAGGAGG 58.477 60.000 0.00 0.00 0.00 4.30
830 831 1.010793 AGAGAGAGAGGAGGAGGAGGA 59.989 57.143 0.00 0.00 0.00 3.71
851 852 2.653366 AGAAGTGGAGGTCCTGGTACTA 59.347 50.000 0.00 0.00 36.82 1.82
853 854 3.033659 AGTGGAGGTCCTGGTACTATG 57.966 52.381 0.00 0.00 36.82 2.23
854 855 2.315155 AGTGGAGGTCCTGGTACTATGT 59.685 50.000 0.00 0.00 36.82 2.29
855 856 3.530564 AGTGGAGGTCCTGGTACTATGTA 59.469 47.826 0.00 0.00 36.82 2.29
856 857 4.016851 AGTGGAGGTCCTGGTACTATGTAA 60.017 45.833 0.00 0.00 36.82 2.41
857 858 4.341520 GTGGAGGTCCTGGTACTATGTAAG 59.658 50.000 0.00 0.00 36.82 2.34
858 859 4.231195 TGGAGGTCCTGGTACTATGTAAGA 59.769 45.833 0.00 0.00 36.82 2.10
859 860 4.828387 GGAGGTCCTGGTACTATGTAAGAG 59.172 50.000 0.00 0.00 0.00 2.85
860 861 5.398809 GGAGGTCCTGGTACTATGTAAGAGA 60.399 48.000 0.00 0.00 0.00 3.10
861 862 5.697067 AGGTCCTGGTACTATGTAAGAGAG 58.303 45.833 0.00 0.00 0.00 3.20
862 863 5.432390 AGGTCCTGGTACTATGTAAGAGAGA 59.568 44.000 0.00 0.00 0.00 3.10
863 864 5.766174 GGTCCTGGTACTATGTAAGAGAGAG 59.234 48.000 0.00 0.00 0.00 3.20
864 865 6.409464 GGTCCTGGTACTATGTAAGAGAGAGA 60.409 46.154 0.00 0.00 0.00 3.10
865 866 6.708949 GTCCTGGTACTATGTAAGAGAGAGAG 59.291 46.154 0.00 0.00 0.00 3.20
866 867 6.616137 TCCTGGTACTATGTAAGAGAGAGAGA 59.384 42.308 0.00 0.00 0.00 3.10
867 868 6.934645 CCTGGTACTATGTAAGAGAGAGAGAG 59.065 46.154 0.00 0.00 0.00 3.20
868 869 7.202056 CCTGGTACTATGTAAGAGAGAGAGAGA 60.202 44.444 0.00 0.00 0.00 3.10
869 870 7.732025 TGGTACTATGTAAGAGAGAGAGAGAG 58.268 42.308 0.00 0.00 0.00 3.20
870 871 7.565768 TGGTACTATGTAAGAGAGAGAGAGAGA 59.434 40.741 0.00 0.00 0.00 3.10
871 872 8.088981 GGTACTATGTAAGAGAGAGAGAGAGAG 58.911 44.444 0.00 0.00 0.00 3.20
872 873 7.914427 ACTATGTAAGAGAGAGAGAGAGAGA 57.086 40.000 0.00 0.00 0.00 3.10
873 874 7.957002 ACTATGTAAGAGAGAGAGAGAGAGAG 58.043 42.308 0.00 0.00 0.00 3.20
874 875 6.814954 ATGTAAGAGAGAGAGAGAGAGAGT 57.185 41.667 0.00 0.00 0.00 3.24
875 876 5.977635 TGTAAGAGAGAGAGAGAGAGAGTG 58.022 45.833 0.00 0.00 0.00 3.51
876 877 5.719563 TGTAAGAGAGAGAGAGAGAGAGTGA 59.280 44.000 0.00 0.00 0.00 3.41
877 878 5.350504 AAGAGAGAGAGAGAGAGAGTGAG 57.649 47.826 0.00 0.00 0.00 3.51
878 879 4.614475 AGAGAGAGAGAGAGAGAGTGAGA 58.386 47.826 0.00 0.00 0.00 3.27
879 880 4.648762 AGAGAGAGAGAGAGAGAGTGAGAG 59.351 50.000 0.00 0.00 0.00 3.20
880 881 4.614475 AGAGAGAGAGAGAGAGTGAGAGA 58.386 47.826 0.00 0.00 0.00 3.10
881 882 4.648762 AGAGAGAGAGAGAGAGTGAGAGAG 59.351 50.000 0.00 0.00 0.00 3.20
882 883 4.614475 AGAGAGAGAGAGAGTGAGAGAGA 58.386 47.826 0.00 0.00 0.00 3.10
883 884 4.648762 AGAGAGAGAGAGAGTGAGAGAGAG 59.351 50.000 0.00 0.00 0.00 3.20
884 885 4.614475 AGAGAGAGAGAGTGAGAGAGAGA 58.386 47.826 0.00 0.00 0.00 3.10
885 886 4.648762 AGAGAGAGAGAGTGAGAGAGAGAG 59.351 50.000 0.00 0.00 0.00 3.20
886 887 3.708631 AGAGAGAGAGTGAGAGAGAGAGG 59.291 52.174 0.00 0.00 0.00 3.69
887 888 3.706594 GAGAGAGAGTGAGAGAGAGAGGA 59.293 52.174 0.00 0.00 0.00 3.71
888 889 3.708631 AGAGAGAGTGAGAGAGAGAGGAG 59.291 52.174 0.00 0.00 0.00 3.69
889 890 2.774234 AGAGAGTGAGAGAGAGAGGAGG 59.226 54.545 0.00 0.00 0.00 4.30
890 891 2.771943 GAGAGTGAGAGAGAGAGGAGGA 59.228 54.545 0.00 0.00 0.00 3.71
891 892 2.774234 AGAGTGAGAGAGAGAGGAGGAG 59.226 54.545 0.00 0.00 0.00 3.69
892 893 1.846439 AGTGAGAGAGAGAGGAGGAGG 59.154 57.143 0.00 0.00 0.00 4.30
893 894 1.843851 GTGAGAGAGAGAGGAGGAGGA 59.156 57.143 0.00 0.00 0.00 3.71
894 895 2.241176 GTGAGAGAGAGAGGAGGAGGAA 59.759 54.545 0.00 0.00 0.00 3.36
895 896 2.509548 TGAGAGAGAGAGGAGGAGGAAG 59.490 54.545 0.00 0.00 0.00 3.46
896 897 2.509964 GAGAGAGAGAGGAGGAGGAAGT 59.490 54.545 0.00 0.00 0.00 3.01
897 898 2.242196 AGAGAGAGAGGAGGAGGAAGTG 59.758 54.545 0.00 0.00 0.00 3.16
898 899 1.287739 AGAGAGAGGAGGAGGAAGTGG 59.712 57.143 0.00 0.00 0.00 4.00
899 900 1.286553 GAGAGAGGAGGAGGAAGTGGA 59.713 57.143 0.00 0.00 0.00 4.02
900 901 1.287739 AGAGAGGAGGAGGAAGTGGAG 59.712 57.143 0.00 0.00 0.00 3.86
901 902 0.338120 AGAGGAGGAGGAAGTGGAGG 59.662 60.000 0.00 0.00 0.00 4.30
902 903 0.041982 GAGGAGGAGGAAGTGGAGGT 59.958 60.000 0.00 0.00 0.00 3.85
903 904 0.041982 AGGAGGAGGAAGTGGAGGTC 59.958 60.000 0.00 0.00 0.00 3.85
904 905 0.978667 GGAGGAGGAAGTGGAGGTCC 60.979 65.000 0.00 0.00 0.00 4.46
906 907 0.252467 AGGAGGAAGTGGAGGTCCTG 60.252 60.000 0.00 0.00 44.57 3.86
907 908 1.599576 GAGGAAGTGGAGGTCCTGC 59.400 63.158 2.82 2.82 44.57 4.85
908 909 0.907230 GAGGAAGTGGAGGTCCTGCT 60.907 60.000 12.16 0.00 44.57 4.24
909 910 0.413832 AGGAAGTGGAGGTCCTGCTA 59.586 55.000 12.16 0.00 42.87 3.49
910 911 0.537653 GGAAGTGGAGGTCCTGCTAC 59.462 60.000 12.16 8.19 36.82 3.58
911 912 1.562783 GAAGTGGAGGTCCTGCTACT 58.437 55.000 12.16 10.25 36.82 2.57
912 913 2.623502 GGAAGTGGAGGTCCTGCTACTA 60.624 54.545 12.16 0.00 36.82 1.82
913 914 3.301274 GAAGTGGAGGTCCTGCTACTAT 58.699 50.000 12.16 5.13 36.82 2.12
914 915 4.471548 GAAGTGGAGGTCCTGCTACTATA 58.528 47.826 12.16 0.00 36.82 1.31
915 916 4.537945 AGTGGAGGTCCTGCTACTATAA 57.462 45.455 12.16 0.00 36.82 0.98
916 917 4.475345 AGTGGAGGTCCTGCTACTATAAG 58.525 47.826 12.16 0.00 36.82 1.73
917 918 4.168283 AGTGGAGGTCCTGCTACTATAAGA 59.832 45.833 12.16 0.00 36.82 2.10
918 919 4.521256 GTGGAGGTCCTGCTACTATAAGAG 59.479 50.000 12.16 0.00 36.82 2.85
932 1633 6.688073 ACTATAAGAGAGAGAGAGAGAGGG 57.312 45.833 0.00 0.00 0.00 4.30
934 1635 2.587060 AGAGAGAGAGAGAGAGGGGA 57.413 55.000 0.00 0.00 0.00 4.81
935 1636 2.412591 AGAGAGAGAGAGAGAGGGGAG 58.587 57.143 0.00 0.00 0.00 4.30
936 1637 1.421646 GAGAGAGAGAGAGAGGGGAGG 59.578 61.905 0.00 0.00 0.00 4.30
937 1638 1.010793 AGAGAGAGAGAGAGGGGAGGA 59.989 57.143 0.00 0.00 0.00 3.71
1025 1735 5.009310 TGCATCTACTTACTACATACCCACG 59.991 44.000 0.00 0.00 0.00 4.94
1038 1754 2.799126 ACCCACGGCTAATCATTCAA 57.201 45.000 0.00 0.00 0.00 2.69
1138 1860 2.117156 TACACTAGGCGAGCCCGTC 61.117 63.158 10.95 0.00 41.44 4.79
1209 1931 0.454196 TCATCGAGAACGCCGATCAA 59.546 50.000 0.00 0.00 43.93 2.57
1356 2084 1.388065 CCGAGATCCTCTCACGCCTT 61.388 60.000 5.12 0.00 43.55 4.35
2400 3158 3.343972 GCGGAAGACTGCAGCAAA 58.656 55.556 15.27 0.00 46.56 3.68
2469 3227 2.967076 CCACTCTGTGCGCGTGTT 60.967 61.111 8.43 0.00 31.34 3.32
2523 3281 6.404293 CCTTGGTAATCTTATGACCGGTTTTG 60.404 42.308 9.42 0.00 35.91 2.44
2527 3285 1.801771 TCTTATGACCGGTTTTGTGCG 59.198 47.619 9.42 0.00 0.00 5.34
2651 3417 8.459521 TTTTGCATCAAATAATAACAAGACCG 57.540 30.769 0.00 0.00 33.19 4.79
2652 3418 6.993786 TGCATCAAATAATAACAAGACCGA 57.006 33.333 0.00 0.00 0.00 4.69
2653 3419 7.384439 TGCATCAAATAATAACAAGACCGAA 57.616 32.000 0.00 0.00 0.00 4.30
2654 3420 7.471721 TGCATCAAATAATAACAAGACCGAAG 58.528 34.615 0.00 0.00 0.00 3.79
2655 3421 6.414987 GCATCAAATAATAACAAGACCGAAGC 59.585 38.462 0.00 0.00 0.00 3.86
2656 3422 7.471721 CATCAAATAATAACAAGACCGAAGCA 58.528 34.615 0.00 0.00 0.00 3.91
2657 3423 7.072177 TCAAATAATAACAAGACCGAAGCAG 57.928 36.000 0.00 0.00 0.00 4.24
2658 3424 6.876789 TCAAATAATAACAAGACCGAAGCAGA 59.123 34.615 0.00 0.00 0.00 4.26
2659 3425 7.389330 TCAAATAATAACAAGACCGAAGCAGAA 59.611 33.333 0.00 0.00 0.00 3.02
2660 3426 7.865706 AATAATAACAAGACCGAAGCAGAAT 57.134 32.000 0.00 0.00 0.00 2.40
2661 3427 5.551760 AATAACAAGACCGAAGCAGAATG 57.448 39.130 0.00 0.00 40.87 2.67
2662 3428 2.550830 ACAAGACCGAAGCAGAATGT 57.449 45.000 0.00 0.00 39.31 2.71
2663 3429 3.678056 ACAAGACCGAAGCAGAATGTA 57.322 42.857 0.00 0.00 39.31 2.29
2664 3430 4.002906 ACAAGACCGAAGCAGAATGTAA 57.997 40.909 0.00 0.00 39.31 2.41
2665 3431 4.579869 ACAAGACCGAAGCAGAATGTAAT 58.420 39.130 0.00 0.00 39.31 1.89
2666 3432 5.730550 ACAAGACCGAAGCAGAATGTAATA 58.269 37.500 0.00 0.00 39.31 0.98
2667 3433 6.170506 ACAAGACCGAAGCAGAATGTAATAA 58.829 36.000 0.00 0.00 39.31 1.40
2683 3449 6.884472 TGTAATAACAAATCCTCCCTCTCA 57.116 37.500 0.00 0.00 30.91 3.27
2740 3509 3.886505 TGCGGGTGTTCTTGACTTATTTT 59.113 39.130 0.00 0.00 0.00 1.82
2874 3643 0.613260 TCTGACAAACGGGCTAGCAT 59.387 50.000 18.24 0.00 0.00 3.79
2876 3645 1.933853 CTGACAAACGGGCTAGCATAC 59.066 52.381 18.24 5.12 0.00 2.39
2893 3662 4.836125 CATACATGCTAAATGGGTGGTC 57.164 45.455 0.00 0.00 0.00 4.02
2894 3663 4.464008 CATACATGCTAAATGGGTGGTCT 58.536 43.478 0.00 0.00 0.00 3.85
2895 3664 2.726821 ACATGCTAAATGGGTGGTCTG 58.273 47.619 0.00 0.00 0.00 3.51
2896 3665 2.026641 CATGCTAAATGGGTGGTCTGG 58.973 52.381 0.00 0.00 0.00 3.86
2897 3666 1.072266 TGCTAAATGGGTGGTCTGGT 58.928 50.000 0.00 0.00 0.00 4.00
2898 3667 1.427368 TGCTAAATGGGTGGTCTGGTT 59.573 47.619 0.00 0.00 0.00 3.67
2899 3668 2.645297 TGCTAAATGGGTGGTCTGGTTA 59.355 45.455 0.00 0.00 0.00 2.85
2900 3669 3.014623 GCTAAATGGGTGGTCTGGTTAC 58.985 50.000 0.00 0.00 0.00 2.50
2954 3777 8.739972 ACTAGCTTGAAGTTTCTCAAAGAAAAA 58.260 29.630 1.04 0.00 44.84 1.94
2997 3820 2.509052 TATGCATCGCCTGTAGTGAC 57.491 50.000 0.19 0.00 37.96 3.67
3010 3833 1.827315 TAGTGACACAAAGCGCACGC 61.827 55.000 11.47 6.99 42.33 5.34
3235 4060 2.629336 AATCGGATGAGAAGCTTCCC 57.371 50.000 22.81 12.32 37.50 3.97
3275 4100 2.050985 GCTCAACCACTTGCGTGC 60.051 61.111 0.00 0.00 39.86 5.34
3278 4103 4.326766 CAACCACTTGCGTGCCCG 62.327 66.667 0.00 0.00 39.86 6.13
3325 4150 3.182572 GCTAGTTGGTTATCGCGAAGATG 59.817 47.826 15.24 0.00 40.40 2.90
3344 4169 7.476492 CGAAGATGCATATCAAAATACGTGATG 59.524 37.037 0.00 0.00 36.41 3.07
3363 4188 5.185249 GTGATGCTCCCTCCGTTCTATAATA 59.815 44.000 0.00 0.00 0.00 0.98
3367 4192 7.786046 TGCTCCCTCCGTTCTATAATATAAA 57.214 36.000 0.00 0.00 0.00 1.40
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
2 3 9.965824 GTTCTTCAGAAGTTCAAATTTAATGGA 57.034 29.630 10.09 0.00 34.27 3.41
3 4 9.748708 TGTTCTTCAGAAGTTCAAATTTAATGG 57.251 29.630 10.09 0.00 34.27 3.16
20 21 8.031277 CCCTCCATAAATTTTTCTGTTCTTCAG 58.969 37.037 0.00 0.00 44.85 3.02
21 22 7.728083 TCCCTCCATAAATTTTTCTGTTCTTCA 59.272 33.333 0.00 0.00 0.00 3.02
22 23 8.029522 GTCCCTCCATAAATTTTTCTGTTCTTC 58.970 37.037 0.00 0.00 0.00 2.87
23 24 7.508977 TGTCCCTCCATAAATTTTTCTGTTCTT 59.491 33.333 0.00 0.00 0.00 2.52
24 25 7.010160 TGTCCCTCCATAAATTTTTCTGTTCT 58.990 34.615 0.00 0.00 0.00 3.01
25 26 7.039714 ACTGTCCCTCCATAAATTTTTCTGTTC 60.040 37.037 0.00 0.00 0.00 3.18
26 27 6.782494 ACTGTCCCTCCATAAATTTTTCTGTT 59.218 34.615 0.00 0.00 0.00 3.16
27 28 6.209391 CACTGTCCCTCCATAAATTTTTCTGT 59.791 38.462 0.00 0.00 0.00 3.41
38 39 4.066614 GGGCACTGTCCCTCCATA 57.933 61.111 7.74 0.00 43.13 2.74
64 65 4.513406 TTGGCCCCTCGAGTAAATTTAT 57.487 40.909 12.31 0.00 0.00 1.40
134 135 0.613260 TAAGTTCGGCTCCACATGCT 59.387 50.000 0.00 0.00 0.00 3.79
148 149 0.683179 GGGCCCGGATTTGCTAAGTT 60.683 55.000 5.69 0.00 0.00 2.66
149 150 1.076995 GGGCCCGGATTTGCTAAGT 60.077 57.895 5.69 0.00 0.00 2.24
172 173 3.046087 AGACGTCTCCGCGAACGA 61.046 61.111 26.98 10.88 43.93 3.85
174 175 2.504244 CCAGACGTCTCCGCGAAC 60.504 66.667 16.96 1.33 37.70 3.95
183 184 2.735762 GCATCTAAGGTGACCAGACGTC 60.736 54.545 7.70 7.70 42.33 4.34
228 229 6.584942 CACTAATAAGCGAGTAGTTGTGTTGA 59.415 38.462 0.00 0.00 36.83 3.18
231 232 5.184479 TCCACTAATAAGCGAGTAGTTGTGT 59.816 40.000 0.00 0.00 36.83 3.72
242 243 5.892568 ACTGAACTAGTCCACTAATAAGCG 58.107 41.667 0.00 0.00 33.17 4.68
285 286 2.120718 ACTTCCTCGTGCTCCCCT 59.879 61.111 0.00 0.00 0.00 4.79
294 295 1.608717 CCAGGACCTCCACTTCCTCG 61.609 65.000 0.00 0.00 40.52 4.63
311 312 7.020009 TCTCTCTCTCTCTCATATAGTACCCA 58.980 42.308 0.00 0.00 0.00 4.51
312 313 7.399191 TCTCTCTCTCTCTCTCATATAGTACCC 59.601 44.444 0.00 0.00 0.00 3.69
322 323 4.878968 TCCTACTCTCTCTCTCTCTCTCA 58.121 47.826 0.00 0.00 0.00 3.27
340 341 1.288335 GACCTCCACTTCCTCCTCCTA 59.712 57.143 0.00 0.00 0.00 2.94
341 342 0.041982 GACCTCCACTTCCTCCTCCT 59.958 60.000 0.00 0.00 0.00 3.69
342 343 0.978667 GGACCTCCACTTCCTCCTCC 60.979 65.000 0.00 0.00 35.64 4.30
343 344 0.041982 AGGACCTCCACTTCCTCCTC 59.958 60.000 0.00 0.00 37.77 3.71
344 345 0.252467 CAGGACCTCCACTTCCTCCT 60.252 60.000 0.00 0.00 40.52 3.69
345 346 1.268283 CCAGGACCTCCACTTCCTCC 61.268 65.000 0.00 0.00 40.52 4.30
346 347 0.545548 ACCAGGACCTCCACTTCCTC 60.546 60.000 0.00 0.00 40.52 3.71
347 348 0.790993 TACCAGGACCTCCACTTCCT 59.209 55.000 0.00 0.00 43.51 3.36
348 349 0.903236 GTACCAGGACCTCCACTTCC 59.097 60.000 0.00 0.00 38.89 3.46
349 350 1.939980 AGTACCAGGACCTCCACTTC 58.060 55.000 0.00 0.00 38.89 3.01
350 351 3.778622 ATAGTACCAGGACCTCCACTT 57.221 47.619 0.00 0.00 38.89 3.16
351 352 6.334774 TCTTATATAGTACCAGGACCTCCACT 59.665 42.308 0.00 0.00 38.89 4.00
352 353 6.550163 TCTTATATAGTACCAGGACCTCCAC 58.450 44.000 0.00 0.00 38.89 4.02
353 354 6.565314 TCTCTTATATAGTACCAGGACCTCCA 59.435 42.308 0.00 0.00 38.89 3.86
354 355 6.885918 GTCTCTTATATAGTACCAGGACCTCC 59.114 46.154 0.00 0.00 0.00 4.30
355 356 7.460071 TGTCTCTTATATAGTACCAGGACCTC 58.540 42.308 0.00 0.00 0.00 3.85
356 357 7.295196 TCTGTCTCTTATATAGTACCAGGACCT 59.705 40.741 0.00 0.00 0.00 3.85
357 358 7.460071 TCTGTCTCTTATATAGTACCAGGACC 58.540 42.308 0.00 0.00 0.00 4.46
358 359 8.377034 TCTCTGTCTCTTATATAGTACCAGGAC 58.623 40.741 0.00 0.00 0.00 3.85
359 360 8.507582 TCTCTGTCTCTTATATAGTACCAGGA 57.492 38.462 0.00 0.00 0.00 3.86
360 361 8.598916 TCTCTCTGTCTCTTATATAGTACCAGG 58.401 40.741 0.00 0.00 0.00 4.45
789 790 5.630121 TCTTTCTGTCTGTCTCTCTCTCTT 58.370 41.667 0.00 0.00 0.00 2.85
801 802 3.696051 CCTCCTCTCTCTCTTTCTGTCTG 59.304 52.174 0.00 0.00 0.00 3.51
805 806 3.053693 TCCTCCTCCTCTCTCTCTTTCTG 60.054 52.174 0.00 0.00 0.00 3.02
808 809 2.244769 CCTCCTCCTCCTCTCTCTCTTT 59.755 54.545 0.00 0.00 0.00 2.52
809 810 1.852965 CCTCCTCCTCCTCTCTCTCTT 59.147 57.143 0.00 0.00 0.00 2.85
812 813 1.010793 TCTCCTCCTCCTCCTCTCTCT 59.989 57.143 0.00 0.00 0.00 3.10
823 824 1.480789 GACCTCCACTTCTCCTCCTC 58.519 60.000 0.00 0.00 0.00 3.71
824 825 0.041982 GGACCTCCACTTCTCCTCCT 59.958 60.000 0.00 0.00 35.64 3.69
825 826 0.041982 AGGACCTCCACTTCTCCTCC 59.958 60.000 0.00 0.00 38.89 4.30
826 827 1.190643 CAGGACCTCCACTTCTCCTC 58.809 60.000 0.00 0.00 38.89 3.71
827 828 0.252467 CCAGGACCTCCACTTCTCCT 60.252 60.000 0.00 0.00 38.89 3.69
828 829 0.545548 ACCAGGACCTCCACTTCTCC 60.546 60.000 0.00 0.00 38.89 3.71
829 830 1.826096 GTACCAGGACCTCCACTTCTC 59.174 57.143 0.00 0.00 38.89 2.87
830 831 1.433592 AGTACCAGGACCTCCACTTCT 59.566 52.381 0.00 0.00 38.89 2.85
851 852 6.384015 TCACTCTCTCTCTCTCTCTCTTACAT 59.616 42.308 0.00 0.00 0.00 2.29
853 854 6.096987 TCTCACTCTCTCTCTCTCTCTCTTAC 59.903 46.154 0.00 0.00 0.00 2.34
854 855 6.194967 TCTCACTCTCTCTCTCTCTCTCTTA 58.805 44.000 0.00 0.00 0.00 2.10
855 856 5.026121 TCTCACTCTCTCTCTCTCTCTCTT 58.974 45.833 0.00 0.00 0.00 2.85
856 857 4.614475 TCTCACTCTCTCTCTCTCTCTCT 58.386 47.826 0.00 0.00 0.00 3.10
857 858 4.646945 TCTCTCACTCTCTCTCTCTCTCTC 59.353 50.000 0.00 0.00 0.00 3.20
858 859 4.614475 TCTCTCACTCTCTCTCTCTCTCT 58.386 47.826 0.00 0.00 0.00 3.10
859 860 4.646945 TCTCTCTCACTCTCTCTCTCTCTC 59.353 50.000 0.00 0.00 0.00 3.20
860 861 4.614475 TCTCTCTCACTCTCTCTCTCTCT 58.386 47.826 0.00 0.00 0.00 3.10
861 862 4.646945 TCTCTCTCTCACTCTCTCTCTCTC 59.353 50.000 0.00 0.00 0.00 3.20
862 863 4.614475 TCTCTCTCTCACTCTCTCTCTCT 58.386 47.826 0.00 0.00 0.00 3.10
863 864 4.202202 CCTCTCTCTCTCACTCTCTCTCTC 60.202 54.167 0.00 0.00 0.00 3.20
864 865 3.708631 CCTCTCTCTCTCACTCTCTCTCT 59.291 52.174 0.00 0.00 0.00 3.10
865 866 3.706594 TCCTCTCTCTCTCACTCTCTCTC 59.293 52.174 0.00 0.00 0.00 3.20
866 867 3.708631 CTCCTCTCTCTCTCACTCTCTCT 59.291 52.174 0.00 0.00 0.00 3.10
867 868 3.181461 CCTCCTCTCTCTCTCACTCTCTC 60.181 56.522 0.00 0.00 0.00 3.20
868 869 2.774234 CCTCCTCTCTCTCTCACTCTCT 59.226 54.545 0.00 0.00 0.00 3.10
869 870 2.771943 TCCTCCTCTCTCTCTCACTCTC 59.228 54.545 0.00 0.00 0.00 3.20
870 871 2.774234 CTCCTCCTCTCTCTCTCACTCT 59.226 54.545 0.00 0.00 0.00 3.24
871 872 2.158755 CCTCCTCCTCTCTCTCTCACTC 60.159 59.091 0.00 0.00 0.00 3.51
872 873 1.846439 CCTCCTCCTCTCTCTCTCACT 59.154 57.143 0.00 0.00 0.00 3.41
873 874 1.843851 TCCTCCTCCTCTCTCTCTCAC 59.156 57.143 0.00 0.00 0.00 3.51
874 875 2.278657 TCCTCCTCCTCTCTCTCTCA 57.721 55.000 0.00 0.00 0.00 3.27
875 876 2.509964 ACTTCCTCCTCCTCTCTCTCTC 59.490 54.545 0.00 0.00 0.00 3.20
876 877 2.242196 CACTTCCTCCTCCTCTCTCTCT 59.758 54.545 0.00 0.00 0.00 3.10
877 878 2.654863 CACTTCCTCCTCCTCTCTCTC 58.345 57.143 0.00 0.00 0.00 3.20
878 879 1.287739 CCACTTCCTCCTCCTCTCTCT 59.712 57.143 0.00 0.00 0.00 3.10
879 880 1.286553 TCCACTTCCTCCTCCTCTCTC 59.713 57.143 0.00 0.00 0.00 3.20
880 881 1.287739 CTCCACTTCCTCCTCCTCTCT 59.712 57.143 0.00 0.00 0.00 3.10
881 882 1.687996 CCTCCACTTCCTCCTCCTCTC 60.688 61.905 0.00 0.00 0.00 3.20
882 883 0.338120 CCTCCACTTCCTCCTCCTCT 59.662 60.000 0.00 0.00 0.00 3.69
883 884 0.041982 ACCTCCACTTCCTCCTCCTC 59.958 60.000 0.00 0.00 0.00 3.71
884 885 0.041982 GACCTCCACTTCCTCCTCCT 59.958 60.000 0.00 0.00 0.00 3.69
885 886 0.978667 GGACCTCCACTTCCTCCTCC 60.979 65.000 0.00 0.00 35.64 4.30
886 887 0.041982 AGGACCTCCACTTCCTCCTC 59.958 60.000 0.00 0.00 37.77 3.71
887 888 0.252467 CAGGACCTCCACTTCCTCCT 60.252 60.000 0.00 0.00 40.52 3.69
888 889 1.904990 GCAGGACCTCCACTTCCTCC 61.905 65.000 0.00 0.00 40.52 4.30
889 890 0.907230 AGCAGGACCTCCACTTCCTC 60.907 60.000 0.00 0.00 40.52 3.71
890 891 0.413832 TAGCAGGACCTCCACTTCCT 59.586 55.000 0.00 0.00 43.51 3.36
891 892 0.537653 GTAGCAGGACCTCCACTTCC 59.462 60.000 0.00 0.00 38.89 3.46
892 893 1.562783 AGTAGCAGGACCTCCACTTC 58.437 55.000 0.00 0.00 38.89 3.01
893 894 2.921834 TAGTAGCAGGACCTCCACTT 57.078 50.000 0.00 0.00 38.89 3.16
894 895 4.168283 TCTTATAGTAGCAGGACCTCCACT 59.832 45.833 0.00 0.00 38.89 4.00
895 896 4.471548 TCTTATAGTAGCAGGACCTCCAC 58.528 47.826 0.00 0.00 38.89 4.02
896 897 4.415846 TCTCTTATAGTAGCAGGACCTCCA 59.584 45.833 0.00 0.00 38.89 3.86
897 898 4.988029 TCTCTTATAGTAGCAGGACCTCC 58.012 47.826 0.00 0.00 0.00 4.30
898 899 5.871834 TCTCTCTTATAGTAGCAGGACCTC 58.128 45.833 0.00 0.00 0.00 3.85
899 900 5.609284 TCTCTCTCTTATAGTAGCAGGACCT 59.391 44.000 0.00 0.00 0.00 3.85
900 901 5.871834 TCTCTCTCTTATAGTAGCAGGACC 58.128 45.833 0.00 0.00 0.00 4.46
901 902 6.765403 TCTCTCTCTCTTATAGTAGCAGGAC 58.235 44.000 0.00 0.00 0.00 3.85
902 903 6.785466 TCTCTCTCTCTCTTATAGTAGCAGGA 59.215 42.308 0.00 0.00 0.00 3.86
903 904 7.004555 TCTCTCTCTCTCTTATAGTAGCAGG 57.995 44.000 0.00 0.00 0.00 4.85
904 905 7.896811 TCTCTCTCTCTCTCTTATAGTAGCAG 58.103 42.308 0.00 0.00 0.00 4.24
905 906 7.039011 CCTCTCTCTCTCTCTCTTATAGTAGCA 60.039 44.444 0.00 0.00 0.00 3.49
906 907 7.324178 CCTCTCTCTCTCTCTCTTATAGTAGC 58.676 46.154 0.00 0.00 0.00 3.58
907 908 7.093289 CCCCTCTCTCTCTCTCTCTTATAGTAG 60.093 48.148 0.00 0.00 0.00 2.57
908 909 6.729100 CCCCTCTCTCTCTCTCTCTTATAGTA 59.271 46.154 0.00 0.00 0.00 1.82
909 910 5.548056 CCCCTCTCTCTCTCTCTCTTATAGT 59.452 48.000 0.00 0.00 0.00 2.12
910 911 5.785423 TCCCCTCTCTCTCTCTCTCTTATAG 59.215 48.000 0.00 0.00 0.00 1.31
911 912 5.733000 TCCCCTCTCTCTCTCTCTCTTATA 58.267 45.833 0.00 0.00 0.00 0.98
912 913 4.577096 TCCCCTCTCTCTCTCTCTCTTAT 58.423 47.826 0.00 0.00 0.00 1.73
913 914 3.973973 CTCCCCTCTCTCTCTCTCTCTTA 59.026 52.174 0.00 0.00 0.00 2.10
914 915 2.780010 CTCCCCTCTCTCTCTCTCTCTT 59.220 54.545 0.00 0.00 0.00 2.85
915 916 2.412591 CTCCCCTCTCTCTCTCTCTCT 58.587 57.143 0.00 0.00 0.00 3.10
916 917 1.421646 CCTCCCCTCTCTCTCTCTCTC 59.578 61.905 0.00 0.00 0.00 3.20
917 918 1.010793 TCCTCCCCTCTCTCTCTCTCT 59.989 57.143 0.00 0.00 0.00 3.10
918 919 1.421646 CTCCTCCCCTCTCTCTCTCTC 59.578 61.905 0.00 0.00 0.00 3.20
932 1633 0.689412 CCTCCACTTCCTCCTCCTCC 60.689 65.000 0.00 0.00 0.00 4.30
934 1635 0.041982 GACCTCCACTTCCTCCTCCT 59.958 60.000 0.00 0.00 0.00 3.69
935 1636 0.978667 GGACCTCCACTTCCTCCTCC 60.979 65.000 0.00 0.00 35.64 4.30
936 1637 0.041982 AGGACCTCCACTTCCTCCTC 59.958 60.000 0.00 0.00 37.77 3.71
937 1638 0.252467 CAGGACCTCCACTTCCTCCT 60.252 60.000 0.00 0.00 40.52 3.69
1010 1720 4.894705 TGATTAGCCGTGGGTATGTAGTAA 59.105 41.667 0.00 0.00 0.00 2.24
1025 1735 2.863704 GCGGCCAATTGAATGATTAGCC 60.864 50.000 7.12 7.49 39.48 3.93
1038 1754 2.283821 ATGGTTGTGGCGGCCAAT 60.284 55.556 25.70 10.56 34.18 3.16
1138 1860 4.394712 GTGGGTGGTCGCCTGAGG 62.395 72.222 0.00 0.00 0.00 3.86
1166 1888 2.674380 GGTGAGCAACAGCTGGGG 60.674 66.667 19.93 10.65 42.84 4.96
1209 1931 0.996583 TCCCTGGCCGGTTAAAGAAT 59.003 50.000 11.58 0.00 0.00 2.40
1356 2084 2.074967 CAGTGGGGCTAAGGAACCA 58.925 57.895 0.00 0.00 0.00 3.67
2091 2840 1.153784 CATGCCGCCGATTGCTTTT 60.154 52.632 0.00 0.00 38.05 2.27
2151 2906 0.526211 CGTCTCTTCCGATGTCACCA 59.474 55.000 0.00 0.00 0.00 4.17
2469 3227 5.613812 CAAAGAAATTATGTGCGTCGTGTA 58.386 37.500 0.00 0.00 0.00 2.90
2481 3239 8.602472 TTACCAAGGGTATGCAAAGAAATTAT 57.398 30.769 0.00 0.00 38.05 1.28
2523 3281 0.179158 AAACGGGAAAACACACGCAC 60.179 50.000 0.00 0.00 40.59 5.34
2527 3285 2.707392 CGTACAAACGGGAAAACACAC 58.293 47.619 0.00 0.00 45.50 3.82
2614 3380 7.745022 ATTTGATGCAAAATAGAATCACACG 57.255 32.000 0.00 0.00 36.90 4.49
2644 3410 6.092122 TGTTATTACATTCTGCTTCGGTCTTG 59.908 38.462 0.00 0.00 0.00 3.02
2647 3413 6.417191 TTGTTATTACATTCTGCTTCGGTC 57.583 37.500 0.00 0.00 33.44 4.79
2648 3414 6.811253 TTTGTTATTACATTCTGCTTCGGT 57.189 33.333 0.00 0.00 33.44 4.69
2649 3415 6.912591 GGATTTGTTATTACATTCTGCTTCGG 59.087 38.462 0.00 0.00 33.44 4.30
2650 3416 7.697691 AGGATTTGTTATTACATTCTGCTTCG 58.302 34.615 0.00 0.00 33.44 3.79
2651 3417 8.131731 GGAGGATTTGTTATTACATTCTGCTTC 58.868 37.037 0.00 0.00 33.44 3.86
2652 3418 7.068716 GGGAGGATTTGTTATTACATTCTGCTT 59.931 37.037 0.00 0.00 33.44 3.91
2653 3419 6.547510 GGGAGGATTTGTTATTACATTCTGCT 59.452 38.462 0.00 0.00 33.44 4.24
2654 3420 6.547510 AGGGAGGATTTGTTATTACATTCTGC 59.452 38.462 0.00 0.00 33.44 4.26
2655 3421 7.995488 AGAGGGAGGATTTGTTATTACATTCTG 59.005 37.037 0.00 0.00 33.44 3.02
2656 3422 8.107196 AGAGGGAGGATTTGTTATTACATTCT 57.893 34.615 0.00 0.00 33.44 2.40
2657 3423 7.993183 TGAGAGGGAGGATTTGTTATTACATTC 59.007 37.037 0.00 0.00 33.44 2.67
2658 3424 7.872138 TGAGAGGGAGGATTTGTTATTACATT 58.128 34.615 0.00 0.00 33.44 2.71
2659 3425 7.451731 TGAGAGGGAGGATTTGTTATTACAT 57.548 36.000 0.00 0.00 33.44 2.29
2660 3426 6.884472 TGAGAGGGAGGATTTGTTATTACA 57.116 37.500 0.00 0.00 0.00 2.41
2661 3427 8.214364 AGAATGAGAGGGAGGATTTGTTATTAC 58.786 37.037 0.00 0.00 0.00 1.89
2662 3428 8.337118 AGAATGAGAGGGAGGATTTGTTATTA 57.663 34.615 0.00 0.00 0.00 0.98
2663 3429 7.218314 AGAATGAGAGGGAGGATTTGTTATT 57.782 36.000 0.00 0.00 0.00 1.40
2664 3430 6.838401 AGAATGAGAGGGAGGATTTGTTAT 57.162 37.500 0.00 0.00 0.00 1.89
2665 3431 6.012508 ACAAGAATGAGAGGGAGGATTTGTTA 60.013 38.462 0.00 0.00 0.00 2.41
2666 3432 5.222213 ACAAGAATGAGAGGGAGGATTTGTT 60.222 40.000 0.00 0.00 0.00 2.83
2667 3433 4.290722 ACAAGAATGAGAGGGAGGATTTGT 59.709 41.667 0.00 0.00 0.00 2.83
2683 3449 9.598517 TCAAGAAAAAGCAATAACAACAAGAAT 57.401 25.926 0.00 0.00 0.00 2.40
2773 3542 9.995003 ATATGCCAAACAAATAGTTCTCAAAAA 57.005 25.926 0.00 0.00 40.26 1.94
2777 3546 8.405531 GCTTATATGCCAAACAAATAGTTCTCA 58.594 33.333 0.00 0.00 40.26 3.27
2778 3547 8.624776 AGCTTATATGCCAAACAAATAGTTCTC 58.375 33.333 6.97 0.00 40.26 2.87
2779 3548 8.408601 CAGCTTATATGCCAAACAAATAGTTCT 58.591 33.333 6.97 0.00 40.26 3.01
2780 3549 7.649306 CCAGCTTATATGCCAAACAAATAGTTC 59.351 37.037 6.97 0.00 40.26 3.01
2781 3550 7.491682 CCAGCTTATATGCCAAACAAATAGTT 58.508 34.615 6.97 0.00 43.89 2.24
2782 3551 6.461509 GCCAGCTTATATGCCAAACAAATAGT 60.462 38.462 6.97 0.00 0.00 2.12
2783 3552 5.922544 GCCAGCTTATATGCCAAACAAATAG 59.077 40.000 6.97 0.00 0.00 1.73
2784 3553 5.598005 AGCCAGCTTATATGCCAAACAAATA 59.402 36.000 6.97 0.00 0.00 1.40
2794 3563 2.288030 CCAGCAAAGCCAGCTTATATGC 60.288 50.000 16.19 16.19 41.14 3.14
2857 3626 1.276705 TGTATGCTAGCCCGTTTGTCA 59.723 47.619 13.29 0.00 0.00 3.58
2874 3643 3.371487 CCAGACCACCCATTTAGCATGTA 60.371 47.826 0.00 0.00 0.00 2.29
2876 3645 2.026641 CCAGACCACCCATTTAGCATG 58.973 52.381 0.00 0.00 0.00 4.06
2883 3652 1.451449 TGGTAACCAGACCACCCATT 58.549 50.000 0.00 0.00 44.79 3.16
2884 3653 3.190415 TGGTAACCAGACCACCCAT 57.810 52.632 0.00 0.00 44.79 4.00
2885 3654 4.752457 TGGTAACCAGACCACCCA 57.248 55.556 0.00 0.00 44.79 4.51
2895 3664 1.886542 CAAAAGCTCAGGGTGGTAACC 59.113 52.381 0.00 0.00 46.81 2.85
2896 3665 2.583143 ACAAAAGCTCAGGGTGGTAAC 58.417 47.619 0.00 0.00 0.00 2.50
2897 3666 3.306472 AACAAAAGCTCAGGGTGGTAA 57.694 42.857 0.00 0.00 0.00 2.85
2898 3667 3.219281 GAAACAAAAGCTCAGGGTGGTA 58.781 45.455 0.00 0.00 0.00 3.25
2899 3668 2.031870 GAAACAAAAGCTCAGGGTGGT 58.968 47.619 0.00 0.00 0.00 4.16
2900 3669 1.001378 CGAAACAAAAGCTCAGGGTGG 60.001 52.381 0.00 0.00 0.00 4.61
2954 3777 0.940126 CGCCGCTTCATGCTATTCTT 59.060 50.000 0.00 0.00 40.11 2.52
2958 3781 2.974698 GGCGCCGCTTCATGCTAT 60.975 61.111 12.58 0.00 40.11 2.97
2963 3786 2.029288 CATATCGGCGCCGCTTCAT 61.029 57.895 42.78 31.55 39.59 2.57
3027 3850 5.650543 TCTTTGTGAAGCTTCCTGTTTTTC 58.349 37.500 23.42 0.00 32.75 2.29
3191 4016 9.823647 TTTTGTGAAGCTTTTGGAATGTTATTA 57.176 25.926 0.00 0.00 0.00 0.98
3194 4019 7.168972 CGATTTTGTGAAGCTTTTGGAATGTTA 59.831 33.333 0.00 0.00 0.00 2.41
3235 4060 5.284660 GCAAAGATAGCGTTGTGATCTTTTG 59.715 40.000 8.40 4.48 43.91 2.44
3278 4103 2.235898 TGAATTTTGGCCAGCCCATTAC 59.764 45.455 5.11 0.00 44.89 1.89
3292 4117 7.275560 GCGATAACCAACTAGCAATTGAATTTT 59.724 33.333 10.34 0.00 0.00 1.82
3325 4150 5.385617 GGAGCATCACGTATTTTGATATGC 58.614 41.667 0.00 0.00 36.25 3.14
3344 4169 9.315525 GATTTTATATTATAGAACGGAGGGAGC 57.684 37.037 0.00 0.00 0.00 4.70
3400 4225 6.386284 ACTCCCTCCTCATACTATAAAAGCT 58.614 40.000 0.00 0.00 0.00 3.74
3410 4235 6.249951 ACTGATATGTACTCCCTCCTCATAC 58.750 44.000 0.00 0.00 0.00 2.39


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

AutoCloner maintained by Alex Coulton.