Multiple sequence alignment - TraesCS4A01G462400

Loading Multiple Alignment...

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 TraesCS4A01G462400 chr4A 100.000 3183 0 0 1 3183 726513639 726510457 0.000000e+00 5879
1 TraesCS4A01G462400 chr7D 92.239 1224 73 10 1156 2366 11361270 11362484 0.000000e+00 1714
2 TraesCS4A01G462400 chr7D 87.226 822 64 9 2366 3183 11362514 11363298 0.000000e+00 898
3 TraesCS4A01G462400 chr7D 88.008 492 29 19 651 1121 11360787 11361269 3.590000e-154 555
4 TraesCS4A01G462400 chr7D 84.178 493 41 17 35 511 11359615 11360086 8.100000e-121 444
5 TraesCS4A01G462400 chr7A 91.475 1044 64 16 1156 2192 10884596 10885621 0.000000e+00 1411
6 TraesCS4A01G462400 chr7A 80.229 349 34 14 657 984 10884161 10884495 2.470000e-56 230
7 TraesCS4A01G462400 chr7A 94.898 98 4 1 1024 1121 10884499 10884595 5.500000e-33 152


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 TraesCS4A01G462400 chr4A 726510457 726513639 3182 True 5879.000000 5879 100.000000 1 3183 1 chr4A.!!$R1 3182
1 TraesCS4A01G462400 chr7D 11359615 11363298 3683 False 902.750000 1714 87.912750 35 3183 4 chr7D.!!$F1 3148
2 TraesCS4A01G462400 chr7A 10884161 10885621 1460 False 597.666667 1411 88.867333 657 2192 3 chr7A.!!$F1 1535

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
682 1260 0.392461 TGATTTCTACCGGTGGCAGC 60.392 55.0 19.93 6.62 0.0 5.25 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2383 3039 1.270465 GCTTGCCTCACCTTTGCAAAT 60.27 47.619 13.23 0.0 43.69 2.32 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
24 25 7.235430 GTCTTCCAATACAATCGTTCTTAGG 57.765 40.000 0.00 0.00 0.00 2.69
25 26 5.815740 TCTTCCAATACAATCGTTCTTAGGC 59.184 40.000 0.00 0.00 0.00 3.93
26 27 5.092554 TCCAATACAATCGTTCTTAGGCA 57.907 39.130 0.00 0.00 0.00 4.75
27 28 5.492895 TCCAATACAATCGTTCTTAGGCAA 58.507 37.500 0.00 0.00 0.00 4.52
28 29 5.353123 TCCAATACAATCGTTCTTAGGCAAC 59.647 40.000 0.00 0.00 0.00 4.17
29 30 5.123186 CCAATACAATCGTTCTTAGGCAACA 59.877 40.000 0.00 0.00 41.41 3.33
30 31 5.796350 ATACAATCGTTCTTAGGCAACAC 57.204 39.130 0.00 0.00 41.41 3.32
31 32 3.740115 ACAATCGTTCTTAGGCAACACT 58.260 40.909 0.00 0.00 41.41 3.55
32 33 4.134563 ACAATCGTTCTTAGGCAACACTT 58.865 39.130 0.00 0.00 41.41 3.16
33 34 5.302360 ACAATCGTTCTTAGGCAACACTTA 58.698 37.500 0.00 0.00 41.41 2.24
132 133 9.914834 ATTAGGTAGTGCATTAGGATTTTGTAA 57.085 29.630 0.00 0.00 0.00 2.41
152 153 8.882415 TTGTAAGAACTAAAGACGAGTGAATT 57.118 30.769 0.00 0.00 0.00 2.17
175 177 4.739195 TCTAATTTTTAATGCGGCACACC 58.261 39.130 4.03 0.00 0.00 4.16
181 183 1.861542 TAATGCGGCACACCAGCAAC 61.862 55.000 4.03 0.00 44.60 4.17
185 187 3.218470 GGCACACCAGCAACTGCA 61.218 61.111 4.22 0.00 45.16 4.41
192 194 4.617995 GCACACCAGCAACTGCATAAATTA 60.618 41.667 4.22 0.00 45.16 1.40
195 197 7.257003 CACACCAGCAACTGCATAAATTATAA 58.743 34.615 4.22 0.00 45.16 0.98
357 360 7.508977 TGATTCTAAAGAAAAATGTGAGGGGTT 59.491 33.333 0.00 0.00 37.61 4.11
364 367 5.425217 AGAAAAATGTGAGGGGTTCAAAAGT 59.575 36.000 0.00 0.00 37.61 2.66
368 371 1.338020 GTGAGGGGTTCAAAAGTGCAG 59.662 52.381 0.00 0.00 37.61 4.41
371 374 1.144913 AGGGGTTCAAAAGTGCAGCTA 59.855 47.619 0.00 0.00 0.00 3.32
372 375 2.171003 GGGGTTCAAAAGTGCAGCTAT 58.829 47.619 0.00 0.00 0.00 2.97
373 376 2.164422 GGGGTTCAAAAGTGCAGCTATC 59.836 50.000 0.00 0.00 0.00 2.08
374 377 2.819608 GGGTTCAAAAGTGCAGCTATCA 59.180 45.455 0.00 0.00 0.00 2.15
375 378 3.255642 GGGTTCAAAAGTGCAGCTATCAA 59.744 43.478 0.00 0.00 0.00 2.57
376 379 4.261994 GGGTTCAAAAGTGCAGCTATCAAA 60.262 41.667 0.00 0.00 0.00 2.69
377 380 5.288804 GGTTCAAAAGTGCAGCTATCAAAA 58.711 37.500 0.00 0.00 0.00 2.44
378 381 5.175673 GGTTCAAAAGTGCAGCTATCAAAAC 59.824 40.000 0.00 0.00 0.00 2.43
380 383 5.522456 TCAAAAGTGCAGCTATCAAAACTG 58.478 37.500 0.00 0.00 34.48 3.16
382 385 5.368256 AAAGTGCAGCTATCAAAACTGAG 57.632 39.130 0.00 0.00 33.10 3.35
384 387 2.086869 TGCAGCTATCAAAACTGAGGC 58.913 47.619 0.00 0.00 33.10 4.70
386 389 2.097142 GCAGCTATCAAAACTGAGGCAG 59.903 50.000 0.00 0.00 37.52 4.85
387 390 2.097142 CAGCTATCAAAACTGAGGCAGC 59.903 50.000 0.00 0.00 34.37 5.25
388 391 1.403323 GCTATCAAAACTGAGGCAGCC 59.597 52.381 1.84 1.84 34.37 4.85
389 392 2.943199 GCTATCAAAACTGAGGCAGCCT 60.943 50.000 16.12 16.12 34.37 4.58
390 393 3.682718 GCTATCAAAACTGAGGCAGCCTA 60.683 47.826 16.16 1.96 34.37 3.93
391 394 2.949177 TCAAAACTGAGGCAGCCTAA 57.051 45.000 16.16 5.99 34.37 2.69
392 395 3.439857 TCAAAACTGAGGCAGCCTAAT 57.560 42.857 16.16 0.00 34.37 1.73
393 396 3.347216 TCAAAACTGAGGCAGCCTAATC 58.653 45.455 16.16 2.49 34.37 1.75
394 397 3.084039 CAAAACTGAGGCAGCCTAATCA 58.916 45.455 16.16 7.92 34.37 2.57
395 398 3.659183 AAACTGAGGCAGCCTAATCAT 57.341 42.857 16.16 0.00 34.37 2.45
396 399 2.634815 ACTGAGGCAGCCTAATCATG 57.365 50.000 16.16 5.62 34.37 3.07
397 400 1.842562 ACTGAGGCAGCCTAATCATGT 59.157 47.619 16.16 6.23 34.37 3.21
398 401 2.240667 ACTGAGGCAGCCTAATCATGTT 59.759 45.455 16.16 0.00 34.37 2.71
399 402 3.285484 CTGAGGCAGCCTAATCATGTTT 58.715 45.455 16.16 0.00 31.76 2.83
400 403 3.698040 CTGAGGCAGCCTAATCATGTTTT 59.302 43.478 16.16 0.00 31.76 2.43
401 404 4.854173 TGAGGCAGCCTAATCATGTTTTA 58.146 39.130 16.16 0.00 31.76 1.52
402 405 5.260424 TGAGGCAGCCTAATCATGTTTTAA 58.740 37.500 16.16 0.00 31.76 1.52
403 406 5.893255 TGAGGCAGCCTAATCATGTTTTAAT 59.107 36.000 16.16 0.00 31.76 1.40
404 407 7.059788 TGAGGCAGCCTAATCATGTTTTAATA 58.940 34.615 16.16 0.00 31.76 0.98
405 408 7.229306 TGAGGCAGCCTAATCATGTTTTAATAG 59.771 37.037 16.16 0.00 31.76 1.73
406 409 6.015940 AGGCAGCCTAATCATGTTTTAATAGC 60.016 38.462 14.18 0.00 28.47 2.97
407 410 6.239008 GGCAGCCTAATCATGTTTTAATAGCA 60.239 38.462 3.29 0.00 0.00 3.49
419 422 9.545105 CATGTTTTAATAGCAGATTCTCTCTCT 57.455 33.333 0.00 0.00 29.16 3.10
445 448 3.819564 ATAGCAGAGATGTTTGCGGTA 57.180 42.857 0.00 0.00 44.80 4.02
457 473 2.659897 GCGGTATGGCTGCTCTCG 60.660 66.667 0.00 0.00 45.76 4.04
470 486 1.343142 TGCTCTCGTTGGCAGTAAGAA 59.657 47.619 0.00 0.00 34.22 2.52
511 527 9.747898 TGTTAATCATGTTTAGGTGGTCTAATT 57.252 29.630 0.00 0.00 37.74 1.40
533 1073 7.574021 ATTCTAGGCTAATGATCCCATTACA 57.426 36.000 0.00 0.00 42.56 2.41
537 1077 6.365970 AGGCTAATGATCCCATTACAGTAG 57.634 41.667 0.00 0.00 42.56 2.57
561 1101 7.736893 AGTCCTAAACTGTCAATTCTAACACT 58.263 34.615 0.00 0.00 36.65 3.55
604 1144 9.442047 CCATTGCAAAGTTACCCATTTTTAATA 57.558 29.630 1.71 0.00 0.00 0.98
676 1254 8.857694 TTTTATCTTTCTTGATTTCTACCGGT 57.142 30.769 13.98 13.98 0.00 5.28
677 1255 7.843490 TTATCTTTCTTGATTTCTACCGGTG 57.157 36.000 19.93 7.59 0.00 4.94
679 1257 2.396590 TCTTGATTTCTACCGGTGGC 57.603 50.000 19.93 1.23 0.00 5.01
680 1258 1.626321 TCTTGATTTCTACCGGTGGCA 59.374 47.619 19.93 0.00 0.00 4.92
681 1259 2.009774 CTTGATTTCTACCGGTGGCAG 58.990 52.381 19.93 6.99 0.00 4.85
682 1260 0.392461 TGATTTCTACCGGTGGCAGC 60.392 55.000 19.93 6.62 0.00 5.25
795 1374 1.376609 GGGCTTATTGCTGACCACGG 61.377 60.000 0.00 0.00 42.39 4.94
839 1426 7.290110 TCTCTCTCTGAAGTTGTATGAAACA 57.710 36.000 0.00 0.00 35.88 2.83
882 1473 4.854399 TCTGAAAAAGCATAACGTTGGTG 58.146 39.130 11.99 10.89 0.00 4.17
903 1502 0.592637 TTGCAATGTGAACTGCTCCG 59.407 50.000 0.00 0.00 39.38 4.63
929 1528 3.160269 CTGAAAGGTCAAAAGCTGGGAT 58.840 45.455 0.00 0.00 31.88 3.85
980 1591 0.665835 CCGCACTGCTAAACAAACCA 59.334 50.000 0.00 0.00 0.00 3.67
992 1603 0.532862 ACAAACCACACGAGCAGAGG 60.533 55.000 0.00 0.00 0.00 3.69
994 1605 2.324014 AAACCACACGAGCAGAGGCA 62.324 55.000 0.00 0.00 44.61 4.75
1044 1655 5.774690 ACCAACTTTCTCTCATTGCCAATAA 59.225 36.000 0.00 0.00 0.00 1.40
1047 1658 7.656948 CCAACTTTCTCTCATTGCCAATAAAAA 59.343 33.333 0.00 0.00 0.00 1.94
1050 1661 7.653311 ACTTTCTCTCATTGCCAATAAAAACAC 59.347 33.333 0.00 0.00 0.00 3.32
1115 1726 2.162681 CTCAAGAACACAACATCCCCC 58.837 52.381 0.00 0.00 0.00 5.40
1116 1727 1.496857 TCAAGAACACAACATCCCCCA 59.503 47.619 0.00 0.00 0.00 4.96
1117 1728 2.109834 TCAAGAACACAACATCCCCCAT 59.890 45.455 0.00 0.00 0.00 4.00
1119 1730 1.185315 GAACACAACATCCCCCATGG 58.815 55.000 4.14 4.14 36.72 3.66
1130 1741 2.871796 TCCCCCATGGAAAGGTAATCT 58.128 47.619 15.22 0.00 41.40 2.40
1131 1742 2.783510 TCCCCCATGGAAAGGTAATCTC 59.216 50.000 15.22 0.00 41.40 2.75
1132 1743 2.785857 CCCCCATGGAAAGGTAATCTCT 59.214 50.000 15.22 0.00 35.39 3.10
1133 1744 3.435601 CCCCCATGGAAAGGTAATCTCTG 60.436 52.174 15.22 0.00 35.39 3.35
1134 1745 3.459598 CCCCATGGAAAGGTAATCTCTGA 59.540 47.826 15.22 0.00 0.00 3.27
1135 1746 4.445448 CCCCATGGAAAGGTAATCTCTGAG 60.445 50.000 15.22 0.00 0.00 3.35
1136 1747 4.164988 CCCATGGAAAGGTAATCTCTGAGT 59.835 45.833 15.22 0.00 0.00 3.41
1137 1748 5.339530 CCCATGGAAAGGTAATCTCTGAGTT 60.340 44.000 15.22 1.63 0.00 3.01
1138 1749 5.819901 CCATGGAAAGGTAATCTCTGAGTTC 59.180 44.000 5.56 0.00 0.00 3.01
1139 1750 6.352565 CCATGGAAAGGTAATCTCTGAGTTCT 60.353 42.308 5.56 0.00 0.00 3.01
1140 1751 6.688073 TGGAAAGGTAATCTCTGAGTTCTT 57.312 37.500 4.32 0.58 0.00 2.52
1141 1752 6.702329 TGGAAAGGTAATCTCTGAGTTCTTC 58.298 40.000 4.32 0.57 0.00 2.87
1142 1753 6.498651 TGGAAAGGTAATCTCTGAGTTCTTCT 59.501 38.462 4.32 0.00 0.00 2.85
1143 1754 7.039270 GGAAAGGTAATCTCTGAGTTCTTCTC 58.961 42.308 4.32 0.00 43.03 2.87
1144 1755 7.093509 GGAAAGGTAATCTCTGAGTTCTTCTCT 60.094 40.741 4.32 0.00 43.13 3.10
1145 1756 8.887264 AAAGGTAATCTCTGAGTTCTTCTCTA 57.113 34.615 4.32 0.00 43.13 2.43
1146 1757 8.519799 AAGGTAATCTCTGAGTTCTTCTCTAG 57.480 38.462 4.32 0.00 43.13 2.43
1147 1758 7.639378 AGGTAATCTCTGAGTTCTTCTCTAGT 58.361 38.462 4.32 0.00 43.13 2.57
1148 1759 8.774183 AGGTAATCTCTGAGTTCTTCTCTAGTA 58.226 37.037 4.32 0.00 43.13 1.82
1149 1760 9.398538 GGTAATCTCTGAGTTCTTCTCTAGTAA 57.601 37.037 4.32 0.00 43.13 2.24
1151 1762 6.995511 TCTCTGAGTTCTTCTCTAGTAAGC 57.004 41.667 4.32 0.00 43.13 3.09
1152 1763 6.477253 TCTCTGAGTTCTTCTCTAGTAAGCA 58.523 40.000 4.32 0.00 43.13 3.91
1153 1764 6.597672 TCTCTGAGTTCTTCTCTAGTAAGCAG 59.402 42.308 4.32 0.00 43.13 4.24
1154 1765 5.650266 TCTGAGTTCTTCTCTAGTAAGCAGG 59.350 44.000 0.00 0.00 43.13 4.85
1171 1782 3.760684 AGCAGGTCCAAAGATGTGATTTC 59.239 43.478 0.00 0.00 0.00 2.17
1200 1815 6.287589 TCTTTCTGGTTCTCAGTAATCTCC 57.712 41.667 0.00 0.00 43.76 3.71
1223 1838 5.293560 CGAGTTCTTCCTCTGTTTTTCTCT 58.706 41.667 0.00 0.00 0.00 3.10
1338 1960 3.771160 ATGTGCGTCTCCGACCCC 61.771 66.667 0.00 0.00 35.63 4.95
1665 2287 0.900182 TCATGATCGGGATCCTCGGG 60.900 60.000 12.58 0.00 37.02 5.14
1803 2425 1.074084 TCTCTGGTGTTCGAGGACTCT 59.926 52.381 0.00 0.00 0.00 3.24
1809 2431 0.591659 TGTTCGAGGACTCTGTCGTG 59.408 55.000 0.00 0.00 37.46 4.35
1815 2437 2.126424 GACTCTGTCGTGGGCGTC 60.126 66.667 0.00 0.00 39.49 5.19
1981 2603 2.547642 GCTCCCGAGATTGATTCAGAGG 60.548 54.545 0.00 0.00 0.00 3.69
1983 2605 2.695666 TCCCGAGATTGATTCAGAGGTC 59.304 50.000 0.00 0.00 0.00 3.85
1985 2607 3.118629 CCCGAGATTGATTCAGAGGTCAA 60.119 47.826 3.56 3.56 38.57 3.18
2012 2634 2.818714 CGCCAAGCTCTGAGCCTG 60.819 66.667 25.09 21.89 43.77 4.85
2016 2638 1.584380 CCAAGCTCTGAGCCTGTTGC 61.584 60.000 25.09 0.05 43.77 4.17
2041 2663 2.076863 GTTCCCGTGGAGAATTGAGTG 58.923 52.381 0.00 0.00 31.21 3.51
2069 2691 5.013079 GGAATCCCATTTCCTTTTTCCTTGT 59.987 40.000 0.00 0.00 41.69 3.16
2105 2729 7.234166 ACAGAATCCAGATTCCAAATTCAGTTT 59.766 33.333 15.16 0.00 46.28 2.66
2109 2733 9.484806 AATCCAGATTCCAAATTCAGTTTAGAT 57.515 29.630 0.00 0.00 0.00 1.98
2119 2743 8.796475 CCAAATTCAGTTTAGATCCAGAGAAAA 58.204 33.333 0.00 0.00 0.00 2.29
2161 2785 7.881142 TGTGGTTCAAATGAGATTTTTCGTAT 58.119 30.769 0.00 0.00 0.00 3.06
2195 2819 8.243426 TCAAGCATTTCTTACAATGTTCATACC 58.757 33.333 0.00 0.00 36.63 2.73
2203 2827 8.450578 TCTTACAATGTTCATACCATCAATCC 57.549 34.615 0.00 0.00 0.00 3.01
2218 2842 2.026729 TCAATCCTTGGTGGCGTCATAA 60.027 45.455 0.00 0.00 35.26 1.90
2220 2844 1.816074 TCCTTGGTGGCGTCATAAAC 58.184 50.000 0.00 0.00 35.26 2.01
2228 2852 3.498397 GGTGGCGTCATAAACCTCATATG 59.502 47.826 0.00 0.00 33.06 1.78
2259 2885 7.518303 TGGTATGTATTAGGCCTTATAAACCCT 59.482 37.037 23.38 7.41 0.00 4.34
2262 2888 7.074653 TGTATTAGGCCTTATAAACCCTGAG 57.925 40.000 12.58 0.00 0.00 3.35
2283 2909 6.677552 TGAGGGAGAGAGATCTATCTTTGAA 58.322 40.000 20.42 4.34 37.25 2.69
2315 2941 4.686972 CATCTATCTTCTTGTCCTCGCAA 58.313 43.478 0.00 0.00 0.00 4.85
2377 3033 6.238103 CGTTTTGACAGTTTCATCAGTAGTGT 60.238 38.462 0.00 0.00 32.84 3.55
2383 3039 3.572682 AGTTTCATCAGTAGTGTGGTCGA 59.427 43.478 0.00 0.00 0.00 4.20
2390 3046 2.805671 CAGTAGTGTGGTCGATTTGCAA 59.194 45.455 0.00 0.00 0.00 4.08
2402 3058 2.680577 GATTTGCAAAGGTGAGGCAAG 58.319 47.619 18.19 0.00 46.82 4.01
2421 3078 3.503800 AGCCTATCATCATGCATGTGT 57.496 42.857 25.43 13.31 33.66 3.72
2423 3080 2.486982 GCCTATCATCATGCATGTGTCC 59.513 50.000 25.43 4.73 33.66 4.02
2430 3087 1.266446 TCATGCATGTGTCCACAAACG 59.734 47.619 25.43 0.00 45.41 3.60
2452 3109 6.725246 ACGTATTTCCTTCAAAGTTGTTCAG 58.275 36.000 0.00 0.00 0.00 3.02
2462 3119 5.634118 TCAAAGTTGTTCAGGAAGGATGAT 58.366 37.500 0.00 0.00 0.00 2.45
2468 3125 8.324191 AGTTGTTCAGGAAGGATGATATAGAA 57.676 34.615 0.00 0.00 0.00 2.10
2503 3160 6.627395 TTGTAAATCAAATTCAGACACGGT 57.373 33.333 0.00 0.00 32.64 4.83
2524 3181 5.562623 CGGTTGTTTTGTTCGCTAAGATTAC 59.437 40.000 0.00 0.00 0.00 1.89
2533 3190 3.288092 TCGCTAAGATTACTGGAGAGCA 58.712 45.455 0.00 0.00 0.00 4.26
2534 3191 3.699538 TCGCTAAGATTACTGGAGAGCAA 59.300 43.478 0.00 0.00 0.00 3.91
2554 3211 1.091537 AATACGGTTGCATGTTCCCG 58.908 50.000 14.71 14.71 45.72 5.14
2556 3213 2.560861 CGGTTGCATGTTCCCGTG 59.439 61.111 9.88 0.00 35.78 4.94
2597 3254 1.879380 GTGAGCACTGCATGTTGGTTA 59.121 47.619 3.30 0.00 0.00 2.85
2602 3259 2.988493 GCACTGCATGTTGGTTACATTG 59.012 45.455 0.00 0.00 45.19 2.82
2608 3265 3.057315 GCATGTTGGTTACATTGTGCTCT 60.057 43.478 0.00 0.00 45.19 4.09
2620 3277 2.708216 TGTGCTCTGGAGTTGTTTCA 57.292 45.000 0.00 0.00 0.00 2.69
2621 3278 2.997980 TGTGCTCTGGAGTTGTTTCAA 58.002 42.857 0.00 0.00 0.00 2.69
2622 3279 2.945008 TGTGCTCTGGAGTTGTTTCAAG 59.055 45.455 0.00 0.00 0.00 3.02
2623 3280 2.945668 GTGCTCTGGAGTTGTTTCAAGT 59.054 45.455 0.00 0.00 0.00 3.16
2624 3281 3.378427 GTGCTCTGGAGTTGTTTCAAGTT 59.622 43.478 0.00 0.00 0.00 2.66
2625 3282 4.016444 TGCTCTGGAGTTGTTTCAAGTTT 58.984 39.130 0.00 0.00 0.00 2.66
2626 3283 5.065988 GTGCTCTGGAGTTGTTTCAAGTTTA 59.934 40.000 0.00 0.00 0.00 2.01
2627 3284 5.296780 TGCTCTGGAGTTGTTTCAAGTTTAG 59.703 40.000 0.00 0.00 0.00 1.85
2628 3285 5.297029 GCTCTGGAGTTGTTTCAAGTTTAGT 59.703 40.000 0.00 0.00 0.00 2.24
2629 3286 6.677781 TCTGGAGTTGTTTCAAGTTTAGTG 57.322 37.500 0.00 0.00 0.00 2.74
2630 3287 6.177610 TCTGGAGTTGTTTCAAGTTTAGTGT 58.822 36.000 0.00 0.00 0.00 3.55
2631 3288 6.657541 TCTGGAGTTGTTTCAAGTTTAGTGTT 59.342 34.615 0.00 0.00 0.00 3.32
2632 3289 7.175990 TCTGGAGTTGTTTCAAGTTTAGTGTTT 59.824 33.333 0.00 0.00 0.00 2.83
2633 3290 7.662897 TGGAGTTGTTTCAAGTTTAGTGTTTT 58.337 30.769 0.00 0.00 0.00 2.43
2634 3291 8.145122 TGGAGTTGTTTCAAGTTTAGTGTTTTT 58.855 29.630 0.00 0.00 0.00 1.94
2635 3292 8.644619 GGAGTTGTTTCAAGTTTAGTGTTTTTC 58.355 33.333 0.00 0.00 0.00 2.29
2636 3293 9.406828 GAGTTGTTTCAAGTTTAGTGTTTTTCT 57.593 29.630 0.00 0.00 0.00 2.52
2637 3294 9.758651 AGTTGTTTCAAGTTTAGTGTTTTTCTT 57.241 25.926 0.00 0.00 0.00 2.52
2650 3307 6.552629 AGTGTTTTTCTTTCCGAAGAGTTTC 58.447 36.000 0.00 0.00 42.55 2.78
2664 3321 7.437267 TCCGAAGAGTTTCAAGTTTAGTGTTAG 59.563 37.037 0.00 0.00 32.67 2.34
2665 3322 7.064064 CGAAGAGTTTCAAGTTTAGTGTTAGC 58.936 38.462 0.00 0.00 32.67 3.09
2666 3323 6.526566 AGAGTTTCAAGTTTAGTGTTAGCG 57.473 37.500 0.00 0.00 0.00 4.26
2685 3345 5.099042 AGCGGACTGTAATCCTTTATTGT 57.901 39.130 0.00 0.00 36.52 2.71
2714 3374 5.828299 AAGATCTTGTTGTTTTTCCGACA 57.172 34.783 7.30 0.00 0.00 4.35
2735 3395 7.228507 CCGACAATATTTTCATGATGAAGGGTA 59.771 37.037 8.01 3.83 37.70 3.69
2743 3403 5.840243 TCATGATGAAGGGTAAATGCTTG 57.160 39.130 0.00 0.00 0.00 4.01
2758 3418 1.630369 TGCTTGGCTCACCTACAAGAT 59.370 47.619 7.73 0.00 43.13 2.40
2765 3425 2.813754 GCTCACCTACAAGATTGCAACA 59.186 45.455 0.00 0.00 0.00 3.33
2769 3429 5.129634 TCACCTACAAGATTGCAACAAAGA 58.870 37.500 0.00 0.00 0.00 2.52
2789 3449 4.712476 AGAGCAATGAATGGATGTACTCC 58.288 43.478 0.00 0.00 45.19 3.85
2804 3464 8.063153 TGGATGTACTCCCTCTAATGTAAACTA 58.937 37.037 8.36 0.00 44.23 2.24
2848 3508 0.604578 CACCCACAAGATTGCAAGGG 59.395 55.000 15.72 15.72 41.28 3.95
2880 3540 7.754924 CACAACTTCATTTGTAGTCTGTTTTGT 59.245 33.333 0.00 0.00 37.62 2.83
2932 3592 5.527951 TGTTTGTAAATACTTTCTCACGGCA 59.472 36.000 0.00 0.00 0.00 5.69
2934 3594 6.417191 TTGTAAATACTTTCTCACGGCATC 57.583 37.500 0.00 0.00 0.00 3.91
2976 3636 1.948104 TCCACAAACGTCTGGACAAG 58.052 50.000 5.65 0.00 31.20 3.16
2981 3641 0.818040 AAACGTCTGGACAAGGGTGC 60.818 55.000 0.00 0.00 35.66 5.01
2985 3645 3.636231 CTGGACAAGGGTGCCCGA 61.636 66.667 0.98 0.00 41.95 5.14
2987 3647 2.671963 GGACAAGGGTGCCCGAAC 60.672 66.667 0.98 0.00 41.95 3.95
2990 3650 2.593436 CAAGGGTGCCCGAACGTT 60.593 61.111 0.00 0.00 41.95 3.99
2991 3651 2.593436 AAGGGTGCCCGAACGTTG 60.593 61.111 5.00 0.00 41.95 4.10
2996 3656 1.430228 GTGCCCGAACGTTGTTTGT 59.570 52.632 5.00 0.00 0.00 2.83
2997 3657 0.179158 GTGCCCGAACGTTGTTTGTT 60.179 50.000 5.00 0.00 0.00 2.83
2998 3658 0.179161 TGCCCGAACGTTGTTTGTTG 60.179 50.000 5.00 0.00 0.00 3.33
3016 3676 0.251916 TGTTCAATGCGGACCCCTAG 59.748 55.000 0.00 0.00 0.00 3.02
3044 3704 1.448540 CCAAGAGCGGACGCAATCT 60.449 57.895 19.48 10.81 44.88 2.40
3046 3706 0.737367 CAAGAGCGGACGCAATCTGA 60.737 55.000 19.48 0.00 44.88 3.27
3057 3717 1.134995 CGCAATCTGACACTAGAGCCA 60.135 52.381 0.00 0.00 0.00 4.75
3067 3727 1.669779 CACTAGAGCCAGCATTGAAGC 59.330 52.381 0.00 0.00 0.00 3.86
3107 3767 3.508840 CCCACGCCAAATCCGCTC 61.509 66.667 0.00 0.00 0.00 5.03
3108 3768 3.864686 CCACGCCAAATCCGCTCG 61.865 66.667 0.00 0.00 0.00 5.03
3109 3769 3.864686 CACGCCAAATCCGCTCGG 61.865 66.667 1.14 1.14 0.00 4.63
3110 3770 4.388499 ACGCCAAATCCGCTCGGT 62.388 61.111 8.28 0.00 36.47 4.69
3111 3771 3.564027 CGCCAAATCCGCTCGGTC 61.564 66.667 8.28 0.00 36.47 4.79
3112 3772 2.125106 GCCAAATCCGCTCGGTCT 60.125 61.111 8.28 0.00 36.47 3.85
3113 3773 2.174319 GCCAAATCCGCTCGGTCTC 61.174 63.158 8.28 0.00 36.47 3.36
3114 3774 1.521681 CCAAATCCGCTCGGTCTCC 60.522 63.158 8.28 0.00 36.47 3.71
3130 3790 0.109597 CTCCGTGCTTGTTCAATGCC 60.110 55.000 0.00 0.00 0.00 4.40
3149 3809 1.860950 CCGGAGCAATGTGATTAGACG 59.139 52.381 0.00 0.00 0.00 4.18
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 6.238130 GCCTAAGAACGATTGTATTGGAAGAC 60.238 42.308 0.00 0.00 0.00 3.01
1 2 5.815740 GCCTAAGAACGATTGTATTGGAAGA 59.184 40.000 0.00 0.00 0.00 2.87
2 3 5.584649 TGCCTAAGAACGATTGTATTGGAAG 59.415 40.000 0.00 0.00 0.00 3.46
3 4 5.492895 TGCCTAAGAACGATTGTATTGGAA 58.507 37.500 0.00 0.00 0.00 3.53
4 5 5.092554 TGCCTAAGAACGATTGTATTGGA 57.907 39.130 0.00 0.00 0.00 3.53
5 6 5.123186 TGTTGCCTAAGAACGATTGTATTGG 59.877 40.000 0.00 0.00 0.00 3.16
6 7 6.021596 GTGTTGCCTAAGAACGATTGTATTG 58.978 40.000 0.00 0.00 0.00 1.90
7 8 5.938125 AGTGTTGCCTAAGAACGATTGTATT 59.062 36.000 0.00 0.00 0.00 1.89
8 9 5.488341 AGTGTTGCCTAAGAACGATTGTAT 58.512 37.500 0.00 0.00 0.00 2.29
9 10 4.890088 AGTGTTGCCTAAGAACGATTGTA 58.110 39.130 0.00 0.00 0.00 2.41
10 11 3.740115 AGTGTTGCCTAAGAACGATTGT 58.260 40.909 0.00 0.00 0.00 2.71
11 12 4.749245 AAGTGTTGCCTAAGAACGATTG 57.251 40.909 0.00 0.00 0.00 2.67
12 13 8.732746 ATATTAAGTGTTGCCTAAGAACGATT 57.267 30.769 0.00 0.00 0.00 3.34
13 14 9.998106 ATATATTAAGTGTTGCCTAAGAACGAT 57.002 29.630 0.00 0.00 0.00 3.73
119 120 9.985730 TCGTCTTTAGTTCTTACAAAATCCTAA 57.014 29.630 0.00 0.00 0.00 2.69
125 126 8.706492 TTCACTCGTCTTTAGTTCTTACAAAA 57.294 30.769 0.00 0.00 0.00 2.44
132 133 9.930693 ATTAGAAATTCACTCGTCTTTAGTTCT 57.069 29.630 0.00 0.00 0.00 3.01
152 153 5.164954 GGTGTGCCGCATTAAAAATTAGAA 58.835 37.500 0.00 0.00 0.00 2.10
161 162 1.175347 TTGCTGGTGTGCCGCATTAA 61.175 50.000 0.00 0.00 41.33 1.40
243 245 9.915629 CGAGCCTAATAAATTCATAGTAAGACT 57.084 33.333 0.00 0.00 0.00 3.24
278 280 6.879962 TCAGTTAAGTGTTATTTACGTGTGC 58.120 36.000 10.08 0.00 0.00 4.57
290 292 8.225603 ACTCAATCACATTTCAGTTAAGTGTT 57.774 30.769 10.08 0.00 36.00 3.32
357 360 5.299028 TCAGTTTTGATAGCTGCACTTTTGA 59.701 36.000 1.02 0.00 0.00 2.69
364 367 2.086869 GCCTCAGTTTTGATAGCTGCA 58.913 47.619 1.02 0.00 32.55 4.41
368 371 1.403323 GGCTGCCTCAGTTTTGATAGC 59.597 52.381 12.43 0.00 35.59 2.97
371 374 3.439857 TTAGGCTGCCTCAGTTTTGAT 57.560 42.857 27.16 0.00 34.61 2.57
372 375 2.949177 TTAGGCTGCCTCAGTTTTGA 57.051 45.000 27.16 1.09 34.61 2.69
373 376 3.084039 TGATTAGGCTGCCTCAGTTTTG 58.916 45.455 27.16 0.00 34.61 2.44
374 377 3.439857 TGATTAGGCTGCCTCAGTTTT 57.560 42.857 27.16 1.30 34.61 2.43
375 378 3.285484 CATGATTAGGCTGCCTCAGTTT 58.715 45.455 27.16 6.47 34.61 2.66
376 379 2.240667 ACATGATTAGGCTGCCTCAGTT 59.759 45.455 27.16 8.42 34.61 3.16
377 380 1.842562 ACATGATTAGGCTGCCTCAGT 59.157 47.619 27.16 12.39 34.61 3.41
378 381 2.634815 ACATGATTAGGCTGCCTCAG 57.365 50.000 27.16 13.01 34.61 3.35
380 383 5.835113 TTAAAACATGATTAGGCTGCCTC 57.165 39.130 27.16 12.21 34.61 4.70
382 385 6.152379 GCTATTAAAACATGATTAGGCTGCC 58.848 40.000 11.65 11.65 0.00 4.85
384 387 8.158169 TCTGCTATTAAAACATGATTAGGCTG 57.842 34.615 0.00 8.32 0.00 4.85
386 389 9.617975 GAATCTGCTATTAAAACATGATTAGGC 57.382 33.333 0.00 5.52 0.00 3.93
419 422 6.072175 ACCGCAAACATCTCTGCTATTAAAAA 60.072 34.615 0.00 0.00 36.38 1.94
423 426 4.137116 ACCGCAAACATCTCTGCTATTA 57.863 40.909 0.00 0.00 36.38 0.98
427 430 2.283298 CATACCGCAAACATCTCTGCT 58.717 47.619 0.00 0.00 36.38 4.24
445 448 2.437359 GCCAACGAGAGCAGCCAT 60.437 61.111 0.00 0.00 0.00 4.40
457 473 4.082733 GGGTTTGAGATTCTTACTGCCAAC 60.083 45.833 0.00 0.00 0.00 3.77
470 486 6.126863 TGATTAACACAGAGGGTTTGAGAT 57.873 37.500 0.00 0.00 0.00 2.75
511 527 6.084738 ACTGTAATGGGATCATTAGCCTAGA 58.915 40.000 0.00 0.00 43.93 2.43
512 528 6.365970 ACTGTAATGGGATCATTAGCCTAG 57.634 41.667 0.00 0.00 43.93 3.02
514 530 5.846714 ACTACTGTAATGGGATCATTAGCCT 59.153 40.000 0.00 0.00 43.93 4.58
533 1073 8.867097 TGTTAGAATTGACAGTTTAGGACTACT 58.133 33.333 0.00 0.00 36.65 2.57
537 1077 7.964604 AGTGTTAGAATTGACAGTTTAGGAC 57.035 36.000 0.00 0.00 0.00 3.85
561 1101 8.856153 TTGCAATGGATCTACTTAGTTGTTTA 57.144 30.769 0.00 0.00 0.00 2.01
572 1112 4.947388 TGGGTAACTTTGCAATGGATCTAC 59.053 41.667 15.92 10.78 0.00 2.59
578 1118 7.736447 TTAAAAATGGGTAACTTTGCAATGG 57.264 32.000 15.92 7.68 0.00 3.16
681 1259 2.346803 TGGTTCTCTAACAGCAATCGC 58.653 47.619 0.00 0.00 37.34 4.58
682 1260 4.213270 TGTTTGGTTCTCTAACAGCAATCG 59.787 41.667 0.00 0.00 37.34 3.34
737 1315 2.126888 GGTGCCATCAACAACGCG 60.127 61.111 3.53 3.53 0.00 6.01
759 1337 5.771153 AAGCCCAACAAATTTGGAATTTG 57.229 34.783 21.74 19.22 42.06 2.32
764 1342 4.322567 GCAATAAGCCCAACAAATTTGGA 58.677 39.130 21.74 0.00 42.06 3.53
795 1374 3.709141 AGATCTCTCAAGGTTAAGAGGGC 59.291 47.826 0.00 0.00 39.60 5.19
820 1406 9.173939 GTTTCAATGTTTCATACAACTTCAGAG 57.826 33.333 0.00 0.00 40.89 3.35
882 1473 1.336240 GGAGCAGTTCACATTGCAACC 60.336 52.381 0.00 0.00 42.67 3.77
903 1502 4.805719 CCAGCTTTTGACCTTTCAGAAAAC 59.194 41.667 0.00 0.00 31.71 2.43
929 1528 5.578157 ATCCATCATCATCATCTCACCAA 57.422 39.130 0.00 0.00 0.00 3.67
969 1580 2.869801 TCTGCTCGTGTGGTTTGTTTAG 59.130 45.455 0.00 0.00 0.00 1.85
980 1591 2.919856 ACCTGCCTCTGCTCGTGT 60.920 61.111 0.00 0.00 38.71 4.49
1008 1619 5.358160 AGAGAAAGTTGGTTGGTGAAGAAAG 59.642 40.000 0.00 0.00 0.00 2.62
1009 1620 5.261216 AGAGAAAGTTGGTTGGTGAAGAAA 58.739 37.500 0.00 0.00 0.00 2.52
1010 1621 4.855340 AGAGAAAGTTGGTTGGTGAAGAA 58.145 39.130 0.00 0.00 0.00 2.52
1011 1622 4.080582 TGAGAGAAAGTTGGTTGGTGAAGA 60.081 41.667 0.00 0.00 0.00 2.87
1012 1623 4.199310 TGAGAGAAAGTTGGTTGGTGAAG 58.801 43.478 0.00 0.00 0.00 3.02
1013 1624 4.229304 TGAGAGAAAGTTGGTTGGTGAA 57.771 40.909 0.00 0.00 0.00 3.18
1044 1655 5.304101 TGGATACTTTTGATGGCTGTGTTTT 59.696 36.000 0.00 0.00 37.61 2.43
1047 1658 4.032960 TGGATACTTTTGATGGCTGTGT 57.967 40.909 0.00 0.00 37.61 3.72
1050 1661 4.467769 AGGATGGATACTTTTGATGGCTG 58.532 43.478 0.00 0.00 37.61 4.85
1115 1726 6.648192 AGAACTCAGAGATTACCTTTCCATG 58.352 40.000 3.79 0.00 0.00 3.66
1116 1727 6.882768 AGAACTCAGAGATTACCTTTCCAT 57.117 37.500 3.79 0.00 0.00 3.41
1117 1728 6.498651 AGAAGAACTCAGAGATTACCTTTCCA 59.501 38.462 3.79 0.00 0.00 3.53
1133 1744 5.163591 GGACCTGCTTACTAGAGAAGAACTC 60.164 48.000 11.73 0.00 45.22 3.01
1134 1745 4.707934 GGACCTGCTTACTAGAGAAGAACT 59.292 45.833 11.73 0.00 0.00 3.01
1135 1746 4.463186 TGGACCTGCTTACTAGAGAAGAAC 59.537 45.833 11.73 0.00 0.00 3.01
1136 1747 4.673968 TGGACCTGCTTACTAGAGAAGAA 58.326 43.478 11.73 2.49 0.00 2.52
1137 1748 4.317530 TGGACCTGCTTACTAGAGAAGA 57.682 45.455 11.73 0.00 0.00 2.87
1138 1749 5.186021 TCTTTGGACCTGCTTACTAGAGAAG 59.814 44.000 0.00 0.50 0.00 2.85
1139 1750 5.084519 TCTTTGGACCTGCTTACTAGAGAA 58.915 41.667 0.00 0.00 0.00 2.87
1140 1751 4.673968 TCTTTGGACCTGCTTACTAGAGA 58.326 43.478 0.00 0.00 0.00 3.10
1141 1752 5.105146 ACATCTTTGGACCTGCTTACTAGAG 60.105 44.000 0.00 0.00 0.00 2.43
1142 1753 4.777896 ACATCTTTGGACCTGCTTACTAGA 59.222 41.667 0.00 0.00 0.00 2.43
1143 1754 4.872691 CACATCTTTGGACCTGCTTACTAG 59.127 45.833 0.00 0.00 0.00 2.57
1144 1755 4.530553 TCACATCTTTGGACCTGCTTACTA 59.469 41.667 0.00 0.00 0.00 1.82
1145 1756 3.327757 TCACATCTTTGGACCTGCTTACT 59.672 43.478 0.00 0.00 0.00 2.24
1146 1757 3.674997 TCACATCTTTGGACCTGCTTAC 58.325 45.455 0.00 0.00 0.00 2.34
1147 1758 4.574674 ATCACATCTTTGGACCTGCTTA 57.425 40.909 0.00 0.00 0.00 3.09
1148 1759 2.957402 TCACATCTTTGGACCTGCTT 57.043 45.000 0.00 0.00 0.00 3.91
1149 1760 3.446442 AATCACATCTTTGGACCTGCT 57.554 42.857 0.00 0.00 0.00 4.24
1150 1761 3.760684 AGAAATCACATCTTTGGACCTGC 59.239 43.478 0.00 0.00 0.00 4.85
1151 1762 5.251764 AGAGAAATCACATCTTTGGACCTG 58.748 41.667 0.00 0.00 0.00 4.00
1152 1763 5.511386 AGAGAAATCACATCTTTGGACCT 57.489 39.130 0.00 0.00 0.00 3.85
1153 1764 6.581171 AAAGAGAAATCACATCTTTGGACC 57.419 37.500 0.00 0.00 40.74 4.46
1154 1765 7.880105 AGAAAAGAGAAATCACATCTTTGGAC 58.120 34.615 0.57 0.00 41.25 4.02
1171 1782 8.614469 ATTACTGAGAACCAGAAAGAAAAGAG 57.386 34.615 0.00 0.00 45.78 2.85
1200 1815 5.293560 AGAGAAAAACAGAGGAAGAACTCG 58.706 41.667 0.00 0.00 42.31 4.18
1223 1838 3.619929 CGCACACATGATTCAGATTCAGA 59.380 43.478 0.00 0.00 0.00 3.27
1665 2287 1.743252 CTGGAAGAAGTCGGCCAGC 60.743 63.158 2.24 0.00 41.17 4.85
1905 2527 2.034532 TCGCGGTAGTCCCTGACA 59.965 61.111 6.13 0.00 34.60 3.58
1966 2588 3.308323 GCGTTGACCTCTGAATCAATCTC 59.692 47.826 7.14 0.00 37.19 2.75
2069 2691 8.004801 TGGAATCTGGATTCTGTACTAGTATGA 58.995 37.037 18.80 5.27 44.90 2.15
2079 2703 6.251471 ACTGAATTTGGAATCTGGATTCTGT 58.749 36.000 18.80 0.00 44.90 3.41
2133 2757 8.356657 ACGAAAAATCTCATTTGAACCACAATA 58.643 29.630 0.00 0.00 38.36 1.90
2135 2759 6.568869 ACGAAAAATCTCATTTGAACCACAA 58.431 32.000 0.00 0.00 36.65 3.33
2136 2760 6.142818 ACGAAAAATCTCATTTGAACCACA 57.857 33.333 0.00 0.00 31.77 4.17
2149 2773 9.906660 TGCTTGATTTGTTTATACGAAAAATCT 57.093 25.926 10.24 0.00 37.85 2.40
2164 2788 8.891671 AACATTGTAAGAAATGCTTGATTTGT 57.108 26.923 0.00 0.00 40.54 2.83
2203 2827 1.737793 GAGGTTTATGACGCCACCAAG 59.262 52.381 0.00 0.00 0.00 3.61
2211 2835 6.650807 ACCATTAGCATATGAGGTTTATGACG 59.349 38.462 6.97 0.00 30.16 4.35
2212 2836 7.986085 ACCATTAGCATATGAGGTTTATGAC 57.014 36.000 6.97 0.00 30.16 3.06
2220 2844 9.770097 CCTAATACATACCATTAGCATATGAGG 57.230 37.037 6.97 2.20 35.52 3.86
2256 2882 3.593328 AGATAGATCTCTCTCCCTCAGGG 59.407 52.174 1.80 1.80 36.98 4.45
2259 2885 6.272953 TCAAAGATAGATCTCTCTCCCTCA 57.727 41.667 10.78 0.00 35.76 3.86
2262 2888 6.496565 TCCATTCAAAGATAGATCTCTCTCCC 59.503 42.308 10.78 0.00 35.76 4.30
2267 2893 7.039504 GCTCTCTCCATTCAAAGATAGATCTCT 60.040 40.741 0.00 0.00 35.76 3.10
2271 2897 6.744175 TGCTCTCTCCATTCAAAGATAGAT 57.256 37.500 0.00 0.00 0.00 1.98
2274 2900 6.744175 AGATGCTCTCTCCATTCAAAGATA 57.256 37.500 0.00 0.00 0.00 1.98
2283 2909 5.840149 ACAAGAAGATAGATGCTCTCTCCAT 59.160 40.000 0.00 0.00 35.28 3.41
2307 2933 4.274147 AGTAGATCTTTCTCTTGCGAGGA 58.726 43.478 0.00 0.00 37.86 3.71
2311 2937 3.383185 AGGGAGTAGATCTTTCTCTTGCG 59.617 47.826 19.74 0.00 33.17 4.85
2315 2941 5.445964 GACAGAGGGAGTAGATCTTTCTCT 58.554 45.833 19.74 14.93 36.79 3.10
2322 2948 6.268847 ACATTTATGGACAGAGGGAGTAGATC 59.731 42.308 0.00 0.00 0.00 2.75
2328 2954 6.284459 GTCTTACATTTATGGACAGAGGGAG 58.716 44.000 0.00 0.00 0.00 4.30
2377 3033 1.879380 CTCACCTTTGCAAATCGACCA 59.121 47.619 13.23 0.00 0.00 4.02
2383 3039 1.270465 GCTTGCCTCACCTTTGCAAAT 60.270 47.619 13.23 0.00 43.69 2.32
2390 3046 1.289160 TGATAGGCTTGCCTCACCTT 58.711 50.000 18.28 0.00 34.92 3.50
2402 3058 2.486982 GGACACATGCATGATGATAGGC 59.513 50.000 32.75 15.59 35.80 3.93
2421 3078 5.591067 ACTTTGAAGGAAATACGTTTGTGGA 59.409 36.000 0.00 0.00 0.00 4.02
2423 3080 6.750039 ACAACTTTGAAGGAAATACGTTTGTG 59.250 34.615 0.00 0.00 0.00 3.33
2430 3087 7.272037 TCCTGAACAACTTTGAAGGAAATAC 57.728 36.000 9.10 0.00 34.97 1.89
2452 3109 6.715280 TGGCAATCTTCTATATCATCCTTCC 58.285 40.000 0.00 0.00 0.00 3.46
2482 3139 6.435428 ACAACCGTGTCTGAATTTGATTTAC 58.565 36.000 0.00 0.00 29.49 2.01
2503 3160 6.483974 TCCAGTAATCTTAGCGAACAAAACAA 59.516 34.615 0.00 0.00 0.00 2.83
2524 3181 2.159517 GCAACCGTATTTTGCTCTCCAG 60.160 50.000 0.00 0.00 44.96 3.86
2533 3190 2.094957 CGGGAACATGCAACCGTATTTT 60.095 45.455 12.74 0.00 41.34 1.82
2534 3191 1.470890 CGGGAACATGCAACCGTATTT 59.529 47.619 12.74 0.00 41.34 1.40
2548 3205 1.668793 CCACGGTTACCACGGGAAC 60.669 63.158 2.23 2.23 36.74 3.62
2554 3211 2.081462 CAAATCTCCCACGGTTACCAC 58.919 52.381 1.13 0.00 0.00 4.16
2556 3213 2.629051 CTCAAATCTCCCACGGTTACC 58.371 52.381 0.00 0.00 0.00 2.85
2597 3254 2.645838 ACAACTCCAGAGCACAATGT 57.354 45.000 0.00 0.00 0.00 2.71
2602 3259 2.945668 ACTTGAAACAACTCCAGAGCAC 59.054 45.455 0.00 0.00 0.00 4.40
2608 3265 6.827586 AACACTAAACTTGAAACAACTCCA 57.172 33.333 0.00 0.00 0.00 3.86
2620 3277 8.047413 TCTTCGGAAAGAAAAACACTAAACTT 57.953 30.769 0.00 0.00 38.58 2.66
2621 3278 7.336176 ACTCTTCGGAAAGAAAAACACTAAACT 59.664 33.333 6.85 0.00 40.95 2.66
2622 3279 7.470079 ACTCTTCGGAAAGAAAAACACTAAAC 58.530 34.615 6.85 0.00 40.95 2.01
2623 3280 7.619964 ACTCTTCGGAAAGAAAAACACTAAA 57.380 32.000 6.85 0.00 40.95 1.85
2624 3281 7.619964 AACTCTTCGGAAAGAAAAACACTAA 57.380 32.000 6.85 0.00 40.95 2.24
2625 3282 7.334921 TGAAACTCTTCGGAAAGAAAAACACTA 59.665 33.333 6.85 0.00 40.95 2.74
2626 3283 6.150474 TGAAACTCTTCGGAAAGAAAAACACT 59.850 34.615 6.85 0.00 40.95 3.55
2627 3284 6.319399 TGAAACTCTTCGGAAAGAAAAACAC 58.681 36.000 6.85 0.00 40.95 3.32
2628 3285 6.503589 TGAAACTCTTCGGAAAGAAAAACA 57.496 33.333 6.85 0.00 40.95 2.83
2629 3286 7.027760 ACTTGAAACTCTTCGGAAAGAAAAAC 58.972 34.615 6.85 0.00 40.95 2.43
2630 3287 7.153217 ACTTGAAACTCTTCGGAAAGAAAAA 57.847 32.000 6.85 0.00 40.95 1.94
2631 3288 6.753107 ACTTGAAACTCTTCGGAAAGAAAA 57.247 33.333 6.85 0.00 40.95 2.29
2632 3289 6.753107 AACTTGAAACTCTTCGGAAAGAAA 57.247 33.333 6.85 0.00 40.95 2.52
2633 3290 6.753107 AAACTTGAAACTCTTCGGAAAGAA 57.247 33.333 6.85 0.00 40.95 2.52
2634 3291 7.011109 CACTAAACTTGAAACTCTTCGGAAAGA 59.989 37.037 6.85 0.00 39.22 2.52
2635 3292 7.126398 CACTAAACTTGAAACTCTTCGGAAAG 58.874 38.462 0.00 0.00 33.94 2.62
2636 3293 6.596497 ACACTAAACTTGAAACTCTTCGGAAA 59.404 34.615 0.00 0.00 33.94 3.13
2637 3294 6.110707 ACACTAAACTTGAAACTCTTCGGAA 58.889 36.000 0.00 0.00 33.94 4.30
2638 3295 5.667466 ACACTAAACTTGAAACTCTTCGGA 58.333 37.500 0.00 0.00 33.94 4.55
2650 3307 4.056050 ACAGTCCGCTAACACTAAACTTG 58.944 43.478 0.00 0.00 0.00 3.16
2664 3321 5.813080 AACAATAAAGGATTACAGTCCGC 57.187 39.130 0.00 0.00 43.27 5.54
2665 3322 7.372451 TCAAACAATAAAGGATTACAGTCCG 57.628 36.000 0.00 0.00 43.27 4.79
2685 3345 9.243637 CGGAAAAACAACAAGATCTTTATCAAA 57.756 29.630 4.86 0.00 34.28 2.69
2697 3357 8.812329 TGAAAATATTGTCGGAAAAACAACAAG 58.188 29.630 1.17 0.00 39.29 3.16
2700 3360 8.973378 TCATGAAAATATTGTCGGAAAAACAAC 58.027 29.630 0.00 0.00 39.29 3.32
2714 3374 9.768662 GCATTTACCCTTCATCATGAAAATATT 57.231 29.630 0.00 0.00 35.73 1.28
2735 3395 2.584835 TGTAGGTGAGCCAAGCATTT 57.415 45.000 0.00 0.00 37.19 2.32
2743 3403 2.113860 TGCAATCTTGTAGGTGAGCC 57.886 50.000 0.00 0.00 0.00 4.70
2765 3425 6.690194 GAGTACATCCATTCATTGCTCTTT 57.310 37.500 0.00 0.00 0.00 2.52
2804 3464 7.341769 TGTTTATTTGTTGCCCTATGAATAGCT 59.658 33.333 0.00 0.00 0.00 3.32
2848 3508 5.762045 ACTACAAATGAAGTTGTGTCATGC 58.238 37.500 6.40 0.00 41.75 4.06
2851 3511 6.112734 ACAGACTACAAATGAAGTTGTGTCA 58.887 36.000 18.83 0.00 41.75 3.58
2854 3514 7.754924 ACAAAACAGACTACAAATGAAGTTGTG 59.245 33.333 6.40 0.00 41.75 3.33
2880 3540 7.645058 ATCACAAAGAGAAACAAAAGGAGAA 57.355 32.000 0.00 0.00 0.00 2.87
2922 3582 2.013563 GCATTGGAGATGCCGTGAGAA 61.014 52.381 0.00 0.00 40.66 2.87
2981 3641 2.178783 GAACAACAAACAACGTTCGGG 58.821 47.619 0.00 0.00 0.00 5.14
2985 3645 3.060098 CGCATTGAACAACAAACAACGTT 59.940 39.130 0.00 0.00 42.03 3.99
2987 3647 2.035009 CCGCATTGAACAACAAACAACG 60.035 45.455 0.00 0.00 42.03 4.10
2990 3650 2.480416 GGTCCGCATTGAACAACAAACA 60.480 45.455 0.00 0.00 42.03 2.83
2991 3651 2.124122 GGTCCGCATTGAACAACAAAC 58.876 47.619 0.00 0.00 42.03 2.93
2996 3656 0.693622 TAGGGGTCCGCATTGAACAA 59.306 50.000 8.89 0.00 0.00 2.83
2997 3657 0.251916 CTAGGGGTCCGCATTGAACA 59.748 55.000 8.89 0.00 0.00 3.18
2998 3658 0.252197 ACTAGGGGTCCGCATTGAAC 59.748 55.000 8.89 0.00 0.00 3.18
3016 3676 3.112709 GCTCTTGGCCGACACGAC 61.113 66.667 0.00 0.00 34.27 4.34
3044 3704 1.901833 TCAATGCTGGCTCTAGTGTCA 59.098 47.619 0.00 0.00 0.00 3.58
3046 3706 2.938756 GCTTCAATGCTGGCTCTAGTGT 60.939 50.000 0.00 0.00 0.00 3.55
3057 3717 2.493030 GCATGCCGCTTCAATGCT 59.507 55.556 6.36 0.00 37.77 3.79
3095 3755 2.125106 AGACCGAGCGGATTTGGC 60.125 61.111 16.83 0.00 38.96 4.52
3108 3768 1.197721 CATTGAACAAGCACGGAGACC 59.802 52.381 0.00 0.00 0.00 3.85
3109 3769 1.400242 GCATTGAACAAGCACGGAGAC 60.400 52.381 0.00 0.00 0.00 3.36
3110 3770 0.874390 GCATTGAACAAGCACGGAGA 59.126 50.000 0.00 0.00 0.00 3.71
3111 3771 0.109597 GGCATTGAACAAGCACGGAG 60.110 55.000 0.00 0.00 0.00 4.63
3112 3772 1.851021 CGGCATTGAACAAGCACGGA 61.851 55.000 0.00 0.00 0.00 4.69
3113 3773 1.442520 CGGCATTGAACAAGCACGG 60.443 57.895 0.00 0.00 0.00 4.94
3114 3774 1.442520 CCGGCATTGAACAAGCACG 60.443 57.895 0.00 0.00 0.00 5.34
3115 3775 0.109597 CTCCGGCATTGAACAAGCAC 60.110 55.000 0.00 0.00 0.00 4.40
3116 3776 1.865788 GCTCCGGCATTGAACAAGCA 61.866 55.000 0.00 0.00 38.54 3.91
3119 3779 4.490696 TGCTCCGGCATTGAACAA 57.509 50.000 0.00 0.00 44.28 2.83
3130 3790 1.860950 CCGTCTAATCACATTGCTCCG 59.139 52.381 0.00 0.00 0.00 4.63
3138 3798 1.514087 GTCGCCCCGTCTAATCACA 59.486 57.895 0.00 0.00 0.00 3.58
3144 3804 2.821366 GTCTCGTCGCCCCGTCTA 60.821 66.667 0.00 0.00 0.00 2.59


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

AutoCloner maintained by Alex Coulton.