Multiple sequence alignment - TraesCS7D01G013800

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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 TraesCS7D01G013800 chr7D 100.000 2243 0 0 1 2243 5979009 5981251 0.000000e+00 4143.0
1 TraesCS7D01G013800 chr7D 84.471 850 83 22 1403 2242 5834371 5835181 0.000000e+00 793.0
2 TraesCS7D01G013800 chr7D 84.857 350 31 12 950 1299 5833907 5834234 1.280000e-87 333.0
3 TraesCS7D01G013800 chr7D 92.308 156 9 1 721 876 5833760 5833912 3.750000e-53 219.0
4 TraesCS7D01G013800 chr4A 90.300 866 61 11 1397 2242 734433909 734433047 0.000000e+00 1112.0
5 TraesCS7D01G013800 chr4A 90.253 790 51 12 1477 2242 734288887 734288100 0.000000e+00 1009.0
6 TraesCS7D01G013800 chr4A 86.916 856 86 17 1403 2242 736273938 736274783 0.000000e+00 937.0
7 TraesCS7D01G013800 chr4A 82.874 870 63 33 1403 2242 734342135 734341322 0.000000e+00 702.0
8 TraesCS7D01G013800 chr4A 87.234 517 30 16 870 1374 734289743 734289251 7.000000e-155 556.0
9 TraesCS7D01G013800 chr4A 78.579 887 92 40 572 1400 734434923 734434077 1.550000e-136 496.0
10 TraesCS7D01G013800 chr4A 83.908 261 25 10 11 255 734435920 734435661 1.340000e-57 233.0
11 TraesCS7D01G013800 chr4A 92.391 92 6 1 721 812 736273192 736273282 1.810000e-26 130.0
12 TraesCS7D01G013800 chr4A 94.118 51 3 0 328 378 734435073 734435023 6.640000e-11 78.7
13 TraesCS7D01G013800 chr7A 87.912 637 50 18 1613 2242 7431516 7432132 0.000000e+00 725.0
14 TraesCS7D01G013800 chr7A 88.476 538 37 14 877 1400 7430414 7430940 5.260000e-176 627.0
15 TraesCS7D01G013800 chr7A 89.916 238 12 3 1397 1622 7431015 7431252 1.680000e-76 296.0
16 TraesCS7D01G013800 chr7A 85.526 228 23 8 949 1169 7511336 7511560 1.730000e-56 230.0
17 TraesCS7D01G013800 chr7A 97.674 43 1 0 1397 1439 377391 377349 8.590000e-10 75.0
18 TraesCS7D01G013800 chr5B 77.661 573 77 20 1645 2195 231269712 231269169 3.620000e-78 302.0
19 TraesCS7D01G013800 chr2D 90.659 182 10 4 1438 1612 605623782 605623963 3.720000e-58 235.0
20 TraesCS7D01G013800 chr5A 75.475 579 86 24 1645 2208 283624333 283623796 4.820000e-57 231.0
21 TraesCS7D01G013800 chr2A 89.855 69 5 2 1372 1439 683558353 683558286 1.100000e-13 87.9
22 TraesCS7D01G013800 chr3B 97.674 43 1 0 1397 1439 752373386 752373428 8.590000e-10 75.0
23 TraesCS7D01G013800 chr6B 95.349 43 2 0 1397 1439 95494743 95494701 4.000000e-08 69.4
24 TraesCS7D01G013800 chr3D 95.349 43 2 0 1397 1439 196923126 196923168 4.000000e-08 69.4
25 TraesCS7D01G013800 chr1A 91.489 47 3 1 1394 1439 492806146 492806100 1.860000e-06 63.9
26 TraesCS7D01G013800 chr1D 88.462 52 3 3 1397 1447 110502463 110502512 2.410000e-05 60.2


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 TraesCS7D01G013800 chr7D 5979009 5981251 2242 False 4143.000000 4143 100.00000 1 2243 1 chr7D.!!$F1 2242
1 TraesCS7D01G013800 chr7D 5833760 5835181 1421 False 448.333333 793 87.21200 721 2242 3 chr7D.!!$F2 1521
2 TraesCS7D01G013800 chr4A 734288100 734289743 1643 True 782.500000 1009 88.74350 870 2242 2 chr4A.!!$R2 1372
3 TraesCS7D01G013800 chr4A 734341322 734342135 813 True 702.000000 702 82.87400 1403 2242 1 chr4A.!!$R1 839
4 TraesCS7D01G013800 chr4A 736273192 736274783 1591 False 533.500000 937 89.65350 721 2242 2 chr4A.!!$F1 1521
5 TraesCS7D01G013800 chr4A 734433047 734435920 2873 True 479.925000 1112 86.72625 11 2242 4 chr4A.!!$R3 2231
6 TraesCS7D01G013800 chr7A 7430414 7432132 1718 False 549.333333 725 88.76800 877 2242 3 chr7A.!!$F2 1365
7 TraesCS7D01G013800 chr5B 231269169 231269712 543 True 302.000000 302 77.66100 1645 2195 1 chr5B.!!$R1 550
8 TraesCS7D01G013800 chr5A 283623796 283624333 537 True 231.000000 231 75.47500 1645 2208 1 chr5A.!!$R1 563

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
318 891 0.031178 CTTTGCAATATCCAGGCCGC 59.969 55.0 0.0 0.0 0.0 6.53 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1339 2185 0.46362 GCCCAGGAAACAAGCAAACA 59.536 50.0 0.0 0.0 0.0 2.83 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
80 81 8.504812 AACCAAGTGCAAAAAGTAATGAAAAT 57.495 26.923 0.00 0.00 0.00 1.82
84 85 6.825610 AGTGCAAAAAGTAATGAAAATGGGA 58.174 32.000 0.00 0.00 0.00 4.37
126 141 5.385198 ACCTTCTCAAATTGCCTCAAGTAA 58.615 37.500 0.00 0.00 0.00 2.24
130 145 4.690748 TCTCAAATTGCCTCAAGTAAGACG 59.309 41.667 0.00 0.00 0.00 4.18
131 146 3.751175 TCAAATTGCCTCAAGTAAGACGG 59.249 43.478 0.00 0.00 0.00 4.79
132 147 3.695830 AATTGCCTCAAGTAAGACGGA 57.304 42.857 0.00 0.00 0.00 4.69
133 148 3.695830 ATTGCCTCAAGTAAGACGGAA 57.304 42.857 0.00 0.00 0.00 4.30
201 216 1.521681 CCGCGATTTCCCTGGAGAC 60.522 63.158 8.23 0.00 0.00 3.36
205 220 1.858091 CGATTTCCCTGGAGACATCG 58.142 55.000 14.70 14.70 41.51 3.84
207 222 2.036475 CGATTTCCCTGGAGACATCGAT 59.964 50.000 19.86 0.00 41.51 3.59
212 227 0.678395 CCTGGAGACATCGATCCCTG 59.322 60.000 0.00 0.00 41.51 4.45
254 827 0.376852 TTCAACATTCTATGCCGCGC 59.623 50.000 0.00 0.00 0.00 6.86
262 835 4.539083 TATGCCGCGCGAATGGGT 62.539 61.111 34.63 13.03 0.00 4.51
263 836 3.153270 TATGCCGCGCGAATGGGTA 62.153 57.895 34.63 14.38 0.00 3.69
280 853 3.452755 GGTAGGCCCAATACAAATTGC 57.547 47.619 0.00 0.00 41.06 3.56
281 854 3.031013 GGTAGGCCCAATACAAATTGCT 58.969 45.455 0.00 0.00 41.06 3.91
283 856 1.750778 AGGCCCAATACAAATTGCTCG 59.249 47.619 0.00 0.00 41.06 5.03
284 857 1.559831 GCCCAATACAAATTGCTCGC 58.440 50.000 0.00 0.00 41.06 5.03
285 858 1.802508 GCCCAATACAAATTGCTCGCC 60.803 52.381 0.00 0.00 41.06 5.54
286 859 1.202405 CCCAATACAAATTGCTCGCCC 60.202 52.381 0.00 0.00 41.06 6.13
287 860 1.202405 CCAATACAAATTGCTCGCCCC 60.202 52.381 0.00 0.00 41.06 5.80
288 861 1.476085 CAATACAAATTGCTCGCCCCA 59.524 47.619 0.00 0.00 36.35 4.96
289 862 1.846007 ATACAAATTGCTCGCCCCAA 58.154 45.000 0.00 0.00 0.00 4.12
290 863 1.846007 TACAAATTGCTCGCCCCAAT 58.154 45.000 0.00 0.00 34.56 3.16
291 864 1.846007 ACAAATTGCTCGCCCCAATA 58.154 45.000 0.00 0.00 32.89 1.90
292 865 1.750778 ACAAATTGCTCGCCCCAATAG 59.249 47.619 0.00 0.00 32.89 1.73
293 866 1.067516 CAAATTGCTCGCCCCAATAGG 59.932 52.381 0.00 0.00 32.89 2.57
294 867 0.550914 AATTGCTCGCCCCAATAGGA 59.449 50.000 0.00 0.00 38.24 2.94
295 868 0.109342 ATTGCTCGCCCCAATAGGAG 59.891 55.000 0.00 0.00 38.24 3.69
296 869 2.281139 GCTCGCCCCAATAGGAGC 60.281 66.667 0.00 0.00 44.24 4.70
297 870 2.812619 GCTCGCCCCAATAGGAGCT 61.813 63.158 4.74 0.00 46.33 4.09
298 871 1.369321 CTCGCCCCAATAGGAGCTC 59.631 63.158 4.71 4.71 38.24 4.09
299 872 2.105806 CTCGCCCCAATAGGAGCTCC 62.106 65.000 26.22 26.22 38.24 4.70
301 874 1.700042 CGCCCCAATAGGAGCTCCTT 61.700 60.000 39.23 23.53 46.09 3.36
302 875 0.553333 GCCCCAATAGGAGCTCCTTT 59.447 55.000 39.23 28.99 46.09 3.11
303 876 1.752084 GCCCCAATAGGAGCTCCTTTG 60.752 57.143 39.23 33.89 46.09 2.77
304 877 1.685148 CCCAATAGGAGCTCCTTTGC 58.315 55.000 39.23 9.89 46.09 3.68
305 878 1.064463 CCCAATAGGAGCTCCTTTGCA 60.064 52.381 39.23 22.67 46.09 4.08
306 879 2.621407 CCCAATAGGAGCTCCTTTGCAA 60.621 50.000 39.23 22.26 46.09 4.08
307 880 3.294214 CCAATAGGAGCTCCTTTGCAAT 58.706 45.455 39.23 23.52 46.09 3.56
308 881 4.464008 CCAATAGGAGCTCCTTTGCAATA 58.536 43.478 39.23 20.70 46.09 1.90
309 882 5.075493 CCAATAGGAGCTCCTTTGCAATAT 58.925 41.667 39.23 22.04 46.09 1.28
310 883 5.182760 CCAATAGGAGCTCCTTTGCAATATC 59.817 44.000 39.23 5.28 46.09 1.63
311 884 3.220674 AGGAGCTCCTTTGCAATATCC 57.779 47.619 30.40 0.00 46.09 2.59
312 885 2.511218 AGGAGCTCCTTTGCAATATCCA 59.489 45.455 30.40 0.00 46.09 3.41
313 886 2.883386 GGAGCTCCTTTGCAATATCCAG 59.117 50.000 26.25 0.00 34.99 3.86
314 887 2.883386 GAGCTCCTTTGCAATATCCAGG 59.117 50.000 0.87 3.53 34.99 4.45
315 888 1.339291 GCTCCTTTGCAATATCCAGGC 59.661 52.381 8.95 0.97 0.00 4.85
316 889 1.959282 CTCCTTTGCAATATCCAGGCC 59.041 52.381 8.95 0.00 0.00 5.19
317 890 0.670162 CCTTTGCAATATCCAGGCCG 59.330 55.000 0.00 0.00 0.00 6.13
318 891 0.031178 CTTTGCAATATCCAGGCCGC 59.969 55.000 0.00 0.00 0.00 6.53
319 892 0.682532 TTTGCAATATCCAGGCCGCA 60.683 50.000 0.00 0.00 0.00 5.69
320 893 0.467844 TTGCAATATCCAGGCCGCAT 60.468 50.000 0.00 0.00 0.00 4.73
321 894 0.890542 TGCAATATCCAGGCCGCATC 60.891 55.000 0.00 0.00 0.00 3.91
322 895 0.607489 GCAATATCCAGGCCGCATCT 60.607 55.000 0.00 0.00 0.00 2.90
323 896 1.162698 CAATATCCAGGCCGCATCTG 58.837 55.000 0.00 0.00 0.00 2.90
324 897 0.607489 AATATCCAGGCCGCATCTGC 60.607 55.000 0.00 0.00 37.78 4.26
338 911 3.772932 GCATCTGCGGATCAAAAATGAA 58.227 40.909 4.63 0.00 0.00 2.57
341 914 5.404946 CATCTGCGGATCAAAAATGAAACT 58.595 37.500 4.63 0.00 0.00 2.66
372 945 1.405463 GGTGCAATTTCCTCCGATTCC 59.595 52.381 0.00 0.00 0.00 3.01
378 951 2.845752 TTTCCTCCGATTCCGCGTGG 62.846 60.000 9.28 9.28 0.00 4.94
379 952 4.143333 CCTCCGATTCCGCGTGGT 62.143 66.667 16.01 0.00 36.30 4.16
380 953 2.885644 CTCCGATTCCGCGTGGTG 60.886 66.667 16.01 3.71 36.30 4.17
383 956 3.541831 CGATTCCGCGTGGTGTCG 61.542 66.667 22.78 22.78 37.07 4.35
384 957 2.431942 GATTCCGCGTGGTGTCGT 60.432 61.111 16.01 0.00 36.30 4.34
387 960 4.953868 TCCGCGTGGTGTCGTTGG 62.954 66.667 16.01 0.00 36.30 3.77
389 962 2.736995 CGCGTGGTGTCGTTGGAT 60.737 61.111 0.00 0.00 0.00 3.41
392 965 1.365699 GCGTGGTGTCGTTGGATATT 58.634 50.000 0.00 0.00 0.00 1.28
393 966 1.062002 GCGTGGTGTCGTTGGATATTG 59.938 52.381 0.00 0.00 0.00 1.90
394 967 1.062002 CGTGGTGTCGTTGGATATTGC 59.938 52.381 0.00 0.00 0.00 3.56
395 968 2.356135 GTGGTGTCGTTGGATATTGCT 58.644 47.619 0.00 0.00 0.00 3.91
396 969 2.351726 GTGGTGTCGTTGGATATTGCTC 59.648 50.000 0.00 0.00 0.00 4.26
397 970 2.027653 TGGTGTCGTTGGATATTGCTCA 60.028 45.455 0.00 0.00 0.00 4.26
400 973 2.613595 TGTCGTTGGATATTGCTCATGC 59.386 45.455 0.00 0.00 40.20 4.06
410 983 3.786656 TGCTCATGCATGTACCCTC 57.213 52.632 25.43 10.21 45.31 4.30
411 984 1.206878 TGCTCATGCATGTACCCTCT 58.793 50.000 25.43 0.00 45.31 3.69
412 985 1.134310 TGCTCATGCATGTACCCTCTG 60.134 52.381 25.43 0.00 45.31 3.35
413 986 1.139654 GCTCATGCATGTACCCTCTGA 59.860 52.381 25.43 3.61 39.41 3.27
414 987 2.806019 GCTCATGCATGTACCCTCTGAG 60.806 54.545 25.43 14.28 39.41 3.35
415 988 1.764723 TCATGCATGTACCCTCTGAGG 59.235 52.381 25.43 17.02 34.30 3.86
416 989 1.764723 CATGCATGTACCCTCTGAGGA 59.235 52.381 25.18 5.22 37.67 3.71
417 990 1.951209 TGCATGTACCCTCTGAGGAA 58.049 50.000 25.18 9.82 37.67 3.36
418 991 1.555075 TGCATGTACCCTCTGAGGAAC 59.445 52.381 25.18 20.57 37.67 3.62
420 993 2.419297 GCATGTACCCTCTGAGGAACTG 60.419 54.545 25.18 18.93 41.55 3.16
421 994 2.696526 TGTACCCTCTGAGGAACTGT 57.303 50.000 25.18 15.70 41.55 3.55
422 995 2.248248 TGTACCCTCTGAGGAACTGTG 58.752 52.381 25.18 9.40 41.55 3.66
423 996 2.158370 TGTACCCTCTGAGGAACTGTGA 60.158 50.000 25.18 4.40 41.55 3.58
424 997 1.638529 ACCCTCTGAGGAACTGTGAG 58.361 55.000 25.18 7.95 41.55 3.51
425 998 1.148027 ACCCTCTGAGGAACTGTGAGA 59.852 52.381 25.18 0.00 41.55 3.27
426 999 1.548269 CCCTCTGAGGAACTGTGAGAC 59.452 57.143 25.18 0.00 41.55 3.36
427 1000 1.201181 CCTCTGAGGAACTGTGAGACG 59.799 57.143 19.13 0.00 41.55 4.18
428 1001 1.883275 CTCTGAGGAACTGTGAGACGT 59.117 52.381 0.00 0.00 41.55 4.34
429 1002 3.075148 CTCTGAGGAACTGTGAGACGTA 58.925 50.000 0.00 0.00 41.55 3.57
430 1003 2.812591 TCTGAGGAACTGTGAGACGTAC 59.187 50.000 0.00 0.00 41.55 3.67
431 1004 2.552743 CTGAGGAACTGTGAGACGTACA 59.447 50.000 0.00 0.00 41.55 2.90
432 1005 3.154710 TGAGGAACTGTGAGACGTACAT 58.845 45.455 0.00 0.00 41.55 2.29
433 1006 3.057526 TGAGGAACTGTGAGACGTACATG 60.058 47.826 0.00 0.00 41.55 3.21
434 1007 2.891580 AGGAACTGTGAGACGTACATGT 59.108 45.455 2.69 2.69 37.18 3.21
435 1008 2.987149 GGAACTGTGAGACGTACATGTG 59.013 50.000 9.11 0.00 0.00 3.21
436 1009 3.552273 GGAACTGTGAGACGTACATGTGT 60.552 47.826 9.11 0.00 0.00 3.72
437 1010 3.284323 ACTGTGAGACGTACATGTGTC 57.716 47.619 9.11 8.45 35.33 3.67
438 1011 2.242564 CTGTGAGACGTACATGTGTCG 58.757 52.381 18.74 18.74 40.05 4.35
439 1012 1.605232 TGTGAGACGTACATGTGTCGT 59.395 47.619 23.55 23.55 40.05 4.34
442 1015 3.025866 GACGTACATGTGTCGTCCC 57.974 57.895 30.20 17.61 45.08 4.46
443 1016 0.241749 GACGTACATGTGTCGTCCCA 59.758 55.000 30.20 2.51 45.08 4.37
444 1017 0.892755 ACGTACATGTGTCGTCCCAT 59.107 50.000 19.78 3.35 32.26 4.00
445 1018 1.274167 ACGTACATGTGTCGTCCCATT 59.726 47.619 19.78 2.78 32.26 3.16
446 1019 2.289195 ACGTACATGTGTCGTCCCATTT 60.289 45.455 19.78 2.22 32.26 2.32
447 1020 2.739913 CGTACATGTGTCGTCCCATTTT 59.260 45.455 9.11 0.00 0.00 1.82
448 1021 3.424302 CGTACATGTGTCGTCCCATTTTG 60.424 47.826 9.11 0.00 0.00 2.44
449 1022 2.582052 ACATGTGTCGTCCCATTTTGT 58.418 42.857 0.00 0.00 0.00 2.83
450 1023 2.552315 ACATGTGTCGTCCCATTTTGTC 59.448 45.455 0.00 0.00 0.00 3.18
451 1024 2.333688 TGTGTCGTCCCATTTTGTCA 57.666 45.000 0.00 0.00 0.00 3.58
452 1025 2.857483 TGTGTCGTCCCATTTTGTCAT 58.143 42.857 0.00 0.00 0.00 3.06
453 1026 3.218453 TGTGTCGTCCCATTTTGTCATT 58.782 40.909 0.00 0.00 0.00 2.57
454 1027 3.634448 TGTGTCGTCCCATTTTGTCATTT 59.366 39.130 0.00 0.00 0.00 2.32
455 1028 4.098654 TGTGTCGTCCCATTTTGTCATTTT 59.901 37.500 0.00 0.00 0.00 1.82
456 1029 5.047188 GTGTCGTCCCATTTTGTCATTTTT 58.953 37.500 0.00 0.00 0.00 1.94
475 1048 2.563471 TTTCCCGTGTTTTGGTTTCG 57.437 45.000 0.00 0.00 0.00 3.46
476 1049 0.100861 TTCCCGTGTTTTGGTTTCGC 59.899 50.000 0.00 0.00 0.00 4.70
477 1050 1.299544 CCCGTGTTTTGGTTTCGCC 60.300 57.895 0.00 0.00 37.90 5.54
478 1051 1.655959 CCGTGTTTTGGTTTCGCCG 60.656 57.895 0.00 0.00 41.21 6.46
479 1052 1.655959 CGTGTTTTGGTTTCGCCGG 60.656 57.895 0.00 0.00 41.21 6.13
480 1053 1.434287 GTGTTTTGGTTTCGCCGGT 59.566 52.632 1.90 0.00 41.21 5.28
481 1054 0.662085 GTGTTTTGGTTTCGCCGGTA 59.338 50.000 1.90 0.00 41.21 4.02
482 1055 1.065251 GTGTTTTGGTTTCGCCGGTAA 59.935 47.619 1.90 0.00 41.21 2.85
483 1056 1.065251 TGTTTTGGTTTCGCCGGTAAC 59.935 47.619 1.90 5.49 41.21 2.50
484 1057 1.065251 GTTTTGGTTTCGCCGGTAACA 59.935 47.619 1.90 0.00 41.21 2.41
485 1058 1.606903 TTTGGTTTCGCCGGTAACAT 58.393 45.000 1.90 0.00 41.21 2.71
486 1059 1.606903 TTGGTTTCGCCGGTAACATT 58.393 45.000 1.90 0.00 41.21 2.71
487 1060 1.606903 TGGTTTCGCCGGTAACATTT 58.393 45.000 1.90 0.00 41.21 2.32
488 1061 1.955080 TGGTTTCGCCGGTAACATTTT 59.045 42.857 1.90 0.00 41.21 1.82
489 1062 3.144506 TGGTTTCGCCGGTAACATTTTA 58.855 40.909 1.90 0.00 41.21 1.52
490 1063 3.188873 TGGTTTCGCCGGTAACATTTTAG 59.811 43.478 1.90 0.00 41.21 1.85
491 1064 3.436359 GGTTTCGCCGGTAACATTTTAGA 59.564 43.478 1.90 0.00 0.00 2.10
492 1065 4.083377 GGTTTCGCCGGTAACATTTTAGAA 60.083 41.667 1.90 0.00 0.00 2.10
493 1066 4.666928 TTCGCCGGTAACATTTTAGAAC 57.333 40.909 1.90 0.00 0.00 3.01
494 1067 3.002102 TCGCCGGTAACATTTTAGAACC 58.998 45.455 1.90 0.00 0.00 3.62
495 1068 3.004862 CGCCGGTAACATTTTAGAACCT 58.995 45.455 1.90 0.00 0.00 3.50
496 1069 3.437741 CGCCGGTAACATTTTAGAACCTT 59.562 43.478 1.90 0.00 0.00 3.50
497 1070 4.436451 CGCCGGTAACATTTTAGAACCTTC 60.436 45.833 1.90 0.00 0.00 3.46
498 1071 4.142534 GCCGGTAACATTTTAGAACCTTCC 60.143 45.833 1.90 0.00 0.00 3.46
499 1072 4.397103 CCGGTAACATTTTAGAACCTTCCC 59.603 45.833 0.00 0.00 0.00 3.97
500 1073 4.397103 CGGTAACATTTTAGAACCTTCCCC 59.603 45.833 0.00 0.00 0.00 4.81
501 1074 4.397103 GGTAACATTTTAGAACCTTCCCCG 59.603 45.833 0.00 0.00 0.00 5.73
502 1075 3.801307 ACATTTTAGAACCTTCCCCGT 57.199 42.857 0.00 0.00 0.00 5.28
503 1076 4.108501 ACATTTTAGAACCTTCCCCGTT 57.891 40.909 0.00 0.00 0.00 4.44
504 1077 5.245584 ACATTTTAGAACCTTCCCCGTTA 57.754 39.130 0.00 0.00 0.00 3.18
505 1078 5.250982 ACATTTTAGAACCTTCCCCGTTAG 58.749 41.667 0.00 0.00 0.00 2.34
506 1079 3.986996 TTTAGAACCTTCCCCGTTAGG 57.013 47.619 0.00 0.00 37.56 2.69
507 1080 2.629017 TAGAACCTTCCCCGTTAGGT 57.371 50.000 0.00 0.00 46.58 3.08
512 1085 3.423539 ACCTTCCCCGTTAGGTTTTAC 57.576 47.619 0.00 0.00 42.01 2.01
513 1086 2.981784 ACCTTCCCCGTTAGGTTTTACT 59.018 45.455 0.00 0.00 42.01 2.24
514 1087 3.395607 ACCTTCCCCGTTAGGTTTTACTT 59.604 43.478 0.00 0.00 42.01 2.24
515 1088 4.005650 CCTTCCCCGTTAGGTTTTACTTC 58.994 47.826 0.00 0.00 35.12 3.01
516 1089 4.263199 CCTTCCCCGTTAGGTTTTACTTCT 60.263 45.833 0.00 0.00 35.12 2.85
517 1090 4.980339 TCCCCGTTAGGTTTTACTTCTT 57.020 40.909 0.00 0.00 35.12 2.52
518 1091 5.308976 TCCCCGTTAGGTTTTACTTCTTT 57.691 39.130 0.00 0.00 35.12 2.52
528 1101 6.988522 AGGTTTTACTTCTTTTGTGTGTGTT 58.011 32.000 0.00 0.00 0.00 3.32
530 1103 7.929245 AGGTTTTACTTCTTTTGTGTGTGTTTT 59.071 29.630 0.00 0.00 0.00 2.43
532 1105 9.575702 GTTTTACTTCTTTTGTGTGTGTTTTTC 57.424 29.630 0.00 0.00 0.00 2.29
536 1109 8.432110 ACTTCTTTTGTGTGTGTTTTTCTTTT 57.568 26.923 0.00 0.00 0.00 2.27
537 1110 8.547894 ACTTCTTTTGTGTGTGTTTTTCTTTTC 58.452 29.630 0.00 0.00 0.00 2.29
538 1111 7.099666 TCTTTTGTGTGTGTTTTTCTTTTCG 57.900 32.000 0.00 0.00 0.00 3.46
545 1118 7.096394 TGTGTGTGTTTTTCTTTTCGTTTTCTC 60.096 33.333 0.00 0.00 0.00 2.87
549 1122 5.575218 TGTTTTTCTTTTCGTTTTCTCCTGC 59.425 36.000 0.00 0.00 0.00 4.85
550 1123 5.576447 TTTTCTTTTCGTTTTCTCCTGCT 57.424 34.783 0.00 0.00 0.00 4.24
630 1223 9.146270 CATTTTTCTTAGTTTGCGAACATTTTG 57.854 29.630 19.01 4.64 38.26 2.44
631 1224 8.467402 TTTTTCTTAGTTTGCGAACATTTTGA 57.533 26.923 19.01 6.74 38.26 2.69
632 1225 7.678194 TTTCTTAGTTTGCGAACATTTTGAG 57.322 32.000 19.01 4.66 38.26 3.02
634 1227 7.202016 TCTTAGTTTGCGAACATTTTGAGAT 57.798 32.000 19.01 0.00 38.26 2.75
699 1292 5.858475 TGTGTTTTTGTTAAATTTGCGTGG 58.142 33.333 0.00 0.00 0.00 4.94
702 1295 7.015877 GTGTTTTTGTTAAATTTGCGTGGAAA 58.984 30.769 0.00 0.00 0.00 3.13
710 1303 3.896648 ATTTGCGTGGAAACTGTACTG 57.103 42.857 0.00 0.00 0.00 2.74
711 1304 0.941542 TTGCGTGGAAACTGTACTGC 59.058 50.000 0.00 0.00 0.00 4.40
716 1309 2.356382 CGTGGAAACTGTACTGCCAAAA 59.644 45.455 0.00 0.00 0.00 2.44
717 1310 3.181495 CGTGGAAACTGTACTGCCAAAAA 60.181 43.478 0.00 0.00 0.00 1.94
744 1337 3.261981 TCAAGTTCGAGGGCTATTTCC 57.738 47.619 0.00 0.00 0.00 3.13
751 1344 3.981313 GGGCTATTTCCCCCTCGA 58.019 61.111 0.00 0.00 40.51 4.04
772 1366 1.349282 CGCGTTTGGGTATAACCGC 59.651 57.895 1.45 0.46 39.83 5.68
812 1406 4.791411 GCAAGCAATTTTGTCCTCGTACAA 60.791 41.667 0.00 0.00 37.58 2.41
813 1407 4.483476 AGCAATTTTGTCCTCGTACAAC 57.517 40.909 0.00 0.00 39.02 3.32
814 1408 3.880490 AGCAATTTTGTCCTCGTACAACA 59.120 39.130 0.00 0.00 39.02 3.33
831 1448 4.000988 ACAACATGTACCACTCGGATTTC 58.999 43.478 0.00 0.00 35.59 2.17
988 1760 4.106925 CCCACAGCCTCCAGCCTC 62.107 72.222 0.00 0.00 45.47 4.70
1119 1891 3.626924 AACTTCCACTCCGCCGCT 61.627 61.111 0.00 0.00 0.00 5.52
1214 1999 1.611519 GACCCCTCCTCTCTGATACG 58.388 60.000 0.00 0.00 0.00 3.06
1222 2010 0.933973 CTCTCTGATACGCGCTGCTG 60.934 60.000 5.73 0.00 0.00 4.41
1269 2062 5.163322 CCTCCTCATCTCTGCAGATAGTTTT 60.163 44.000 18.63 0.00 37.25 2.43
1270 2063 5.911752 TCCTCATCTCTGCAGATAGTTTTC 58.088 41.667 18.63 0.00 37.25 2.29
1299 2145 2.363306 TTTCACACAATCCCTGCACT 57.637 45.000 0.00 0.00 0.00 4.40
1300 2146 1.608055 TTCACACAATCCCTGCACTG 58.392 50.000 0.00 0.00 0.00 3.66
1301 2147 0.890542 TCACACAATCCCTGCACTGC 60.891 55.000 0.00 0.00 0.00 4.40
1302 2148 1.151221 ACACAATCCCTGCACTGCA 59.849 52.632 3.11 3.11 36.92 4.41
1303 2149 1.174712 ACACAATCCCTGCACTGCAC 61.175 55.000 0.00 0.00 33.79 4.57
1304 2150 1.968017 ACAATCCCTGCACTGCACG 60.968 57.895 0.00 0.00 33.79 5.34
1306 2152 1.073025 AATCCCTGCACTGCACGAA 59.927 52.632 0.00 0.00 33.79 3.85
1307 2153 0.322816 AATCCCTGCACTGCACGAAT 60.323 50.000 0.00 0.00 33.79 3.34
1308 2154 0.541392 ATCCCTGCACTGCACGAATA 59.459 50.000 0.00 0.00 33.79 1.75
1309 2155 0.323302 TCCCTGCACTGCACGAATAA 59.677 50.000 0.00 0.00 33.79 1.40
1333 2179 0.759959 TGTCGGCCACTAGGTTCAAA 59.240 50.000 2.24 0.00 37.19 2.69
1339 2185 3.181454 CGGCCACTAGGTTCAAAGGATAT 60.181 47.826 2.24 0.00 37.19 1.63
1358 2250 0.463620 TGTTTGCTTGTTTCCTGGGC 59.536 50.000 0.00 0.00 0.00 5.36
1365 2257 2.159382 CTTGTTTCCTGGGCGTATTGT 58.841 47.619 0.00 0.00 0.00 2.71
1561 2931 1.480545 GGTTTGACCATGGGTAATGCC 59.519 52.381 18.09 11.50 38.42 4.40
1571 2941 2.999331 TGGGTAATGCCAGAGCTAAAC 58.001 47.619 0.00 0.00 40.80 2.01
1723 3382 8.887036 AAATTTCCACCAGTTTTCTTATGTTC 57.113 30.769 0.00 0.00 0.00 3.18
1765 3424 5.048364 TCACATTTTATCGAAACCAACCCTG 60.048 40.000 0.00 0.00 0.00 4.45
1805 3464 6.151144 GCTCTAGATAAAGGCCTTTGTGAAAA 59.849 38.462 35.99 18.65 34.23 2.29
1806 3465 7.627300 GCTCTAGATAAAGGCCTTTGTGAAAAG 60.627 40.741 35.99 25.51 34.23 2.27
1842 3501 8.012957 TGTTGTATCAAACCACATTTAAAGGT 57.987 30.769 0.00 0.00 37.20 3.50
1876 3562 6.159988 AGAAACGGCAGCTTATATAGACATC 58.840 40.000 0.00 0.00 0.00 3.06
1938 3625 3.132111 CCCCTGCCCATTACAAATTGTAC 59.868 47.826 5.19 0.00 31.69 2.90
2192 3900 9.807649 ATTGTTATTTTGAACATTGATCCTAGC 57.192 29.630 0.00 0.00 39.04 3.42
2193 3901 8.579850 TGTTATTTTGAACATTGATCCTAGCT 57.420 30.769 0.00 0.00 34.40 3.32
2194 3902 9.679661 TGTTATTTTGAACATTGATCCTAGCTA 57.320 29.630 0.00 0.00 34.40 3.32
2199 3907 9.905713 TTTTGAACATTGATCCTAGCTAATAGT 57.094 29.630 0.00 0.00 0.00 2.12
2226 3935 8.709386 TTATTTTCAGCAACTTTTGTAAAGCA 57.291 26.923 0.00 0.00 0.00 3.91
2242 3951 6.464222 TGTAAAGCAGATACAAGTACAAGCT 58.536 36.000 0.00 0.00 30.65 3.74
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
47 48 6.172630 ACTTTTTGCACTTGGTTTCTTCATT 58.827 32.000 0.00 0.00 0.00 2.57
53 54 7.532682 TTCATTACTTTTTGCACTTGGTTTC 57.467 32.000 0.00 0.00 0.00 2.78
58 59 7.226325 TCCCATTTTCATTACTTTTTGCACTTG 59.774 33.333 0.00 0.00 0.00 3.16
61 62 7.489574 TTCCCATTTTCATTACTTTTTGCAC 57.510 32.000 0.00 0.00 0.00 4.57
107 122 4.690748 CGTCTTACTTGAGGCAATTTGAGA 59.309 41.667 0.00 0.00 0.00 3.27
111 126 4.015872 TCCGTCTTACTTGAGGCAATTT 57.984 40.909 0.00 0.00 0.00 1.82
130 145 3.701040 TCATGGTAAGTAGTACGGGTTCC 59.299 47.826 0.00 0.00 33.01 3.62
131 146 4.989279 TCATGGTAAGTAGTACGGGTTC 57.011 45.455 0.00 0.00 33.01 3.62
132 147 5.395990 CCATTCATGGTAAGTAGTACGGGTT 60.396 44.000 0.00 0.00 43.05 4.11
133 148 4.100498 CCATTCATGGTAAGTAGTACGGGT 59.900 45.833 0.00 0.00 43.05 5.28
137 152 5.365895 AGGTCCCATTCATGGTAAGTAGTAC 59.634 44.000 5.09 0.00 46.65 2.73
186 201 1.858091 CGATGTCTCCAGGGAAATCG 58.142 55.000 5.73 5.73 43.81 3.34
201 216 0.034616 GGGAGAAGCAGGGATCGATG 59.965 60.000 0.54 0.00 0.00 3.84
205 220 0.922626 AAAGGGGAGAAGCAGGGATC 59.077 55.000 0.00 0.00 0.00 3.36
207 222 1.208165 GGAAAGGGGAGAAGCAGGGA 61.208 60.000 0.00 0.00 0.00 4.20
212 227 0.393673 GCAGAGGAAAGGGGAGAAGC 60.394 60.000 0.00 0.00 0.00 3.86
262 835 2.948979 CGAGCAATTTGTATTGGGCCTA 59.051 45.455 4.53 0.00 41.21 3.93
263 836 1.750778 CGAGCAATTTGTATTGGGCCT 59.249 47.619 4.53 0.00 41.21 5.19
267 840 1.202405 GGGGCGAGCAATTTGTATTGG 60.202 52.381 0.00 0.00 41.21 3.16
292 865 2.883386 CTGGATATTGCAAAGGAGCTCC 59.117 50.000 26.22 26.22 34.99 4.70
293 866 2.883386 CCTGGATATTGCAAAGGAGCTC 59.117 50.000 4.71 4.71 34.99 4.09
294 867 2.941480 CCTGGATATTGCAAAGGAGCT 58.059 47.619 1.71 0.00 34.99 4.09
295 868 1.339291 GCCTGGATATTGCAAAGGAGC 59.661 52.381 16.66 2.57 0.00 4.70
296 869 1.959282 GGCCTGGATATTGCAAAGGAG 59.041 52.381 16.66 3.41 0.00 3.69
297 870 1.750332 CGGCCTGGATATTGCAAAGGA 60.750 52.381 16.66 0.14 0.00 3.36
298 871 0.670162 CGGCCTGGATATTGCAAAGG 59.330 55.000 1.71 6.48 0.00 3.11
299 872 0.031178 GCGGCCTGGATATTGCAAAG 59.969 55.000 1.71 0.00 0.00 2.77
300 873 0.682532 TGCGGCCTGGATATTGCAAA 60.683 50.000 1.71 0.00 0.00 3.68
301 874 0.467844 ATGCGGCCTGGATATTGCAA 60.468 50.000 0.00 0.00 35.78 4.08
302 875 0.890542 GATGCGGCCTGGATATTGCA 60.891 55.000 0.00 0.00 36.69 4.08
303 876 0.607489 AGATGCGGCCTGGATATTGC 60.607 55.000 0.00 0.00 0.00 3.56
304 877 1.162698 CAGATGCGGCCTGGATATTG 58.837 55.000 0.00 0.50 0.00 1.90
305 878 0.607489 GCAGATGCGGCCTGGATATT 60.607 55.000 0.00 0.00 32.51 1.28
306 879 1.002868 GCAGATGCGGCCTGGATAT 60.003 57.895 0.00 0.00 32.51 1.63
307 880 2.427320 GCAGATGCGGCCTGGATA 59.573 61.111 0.00 0.00 32.51 2.59
317 890 3.425577 TCATTTTTGATCCGCAGATGC 57.574 42.857 0.00 0.00 30.90 3.91
318 891 5.404946 AGTTTCATTTTTGATCCGCAGATG 58.595 37.500 0.00 0.00 30.90 2.90
319 892 5.649782 AGTTTCATTTTTGATCCGCAGAT 57.350 34.783 0.00 0.00 34.57 2.90
320 893 5.241506 AGAAGTTTCATTTTTGATCCGCAGA 59.758 36.000 0.00 0.00 0.00 4.26
321 894 5.464168 AGAAGTTTCATTTTTGATCCGCAG 58.536 37.500 0.00 0.00 0.00 5.18
322 895 5.452078 AGAAGTTTCATTTTTGATCCGCA 57.548 34.783 0.00 0.00 0.00 5.69
323 896 6.398935 CGAAAGAAGTTTCATTTTTGATCCGC 60.399 38.462 0.00 0.00 42.06 5.54
324 897 6.398935 GCGAAAGAAGTTTCATTTTTGATCCG 60.399 38.462 0.00 0.00 42.06 4.18
325 898 6.128822 GGCGAAAGAAGTTTCATTTTTGATCC 60.129 38.462 0.00 0.00 42.06 3.36
326 899 6.398935 CGGCGAAAGAAGTTTCATTTTTGATC 60.399 38.462 0.00 0.00 42.06 2.92
338 911 2.258726 GCACCCGGCGAAAGAAGTT 61.259 57.895 9.30 0.00 0.00 2.66
372 945 0.804544 ATATCCAACGACACCACGCG 60.805 55.000 3.53 3.53 36.70 6.01
378 951 3.546815 GCATGAGCAATATCCAACGACAC 60.547 47.826 0.00 0.00 41.58 3.67
379 952 2.613595 GCATGAGCAATATCCAACGACA 59.386 45.455 0.00 0.00 41.58 4.35
380 953 3.259207 GCATGAGCAATATCCAACGAC 57.741 47.619 0.00 0.00 41.58 4.34
393 966 1.139654 TCAGAGGGTACATGCATGAGC 59.860 52.381 32.75 22.65 42.57 4.26
394 967 2.224233 CCTCAGAGGGTACATGCATGAG 60.224 54.545 32.75 16.46 34.00 2.90
395 968 1.764723 CCTCAGAGGGTACATGCATGA 59.235 52.381 32.75 13.72 0.00 3.07
396 969 1.764723 TCCTCAGAGGGTACATGCATG 59.235 52.381 25.09 25.09 35.59 4.06
397 970 2.171448 GTTCCTCAGAGGGTACATGCAT 59.829 50.000 17.10 0.00 35.59 3.96
400 973 2.834549 ACAGTTCCTCAGAGGGTACATG 59.165 50.000 17.10 14.97 35.59 3.21
402 975 2.158370 TCACAGTTCCTCAGAGGGTACA 60.158 50.000 17.10 0.00 35.59 2.90
403 976 2.494073 CTCACAGTTCCTCAGAGGGTAC 59.506 54.545 17.10 14.36 35.59 3.34
405 978 1.148027 TCTCACAGTTCCTCAGAGGGT 59.852 52.381 17.10 3.37 35.59 4.34
407 980 1.201181 CGTCTCACAGTTCCTCAGAGG 59.799 57.143 10.70 10.70 36.46 3.69
408 981 1.883275 ACGTCTCACAGTTCCTCAGAG 59.117 52.381 0.00 0.00 0.00 3.35
410 983 2.552743 TGTACGTCTCACAGTTCCTCAG 59.447 50.000 0.00 0.00 0.00 3.35
411 984 2.578786 TGTACGTCTCACAGTTCCTCA 58.421 47.619 0.00 0.00 0.00 3.86
412 985 3.057456 ACATGTACGTCTCACAGTTCCTC 60.057 47.826 0.00 0.00 0.00 3.71
413 986 2.891580 ACATGTACGTCTCACAGTTCCT 59.108 45.455 0.00 0.00 0.00 3.36
414 987 2.987149 CACATGTACGTCTCACAGTTCC 59.013 50.000 0.00 0.00 0.00 3.62
415 988 3.639538 ACACATGTACGTCTCACAGTTC 58.360 45.455 0.00 0.00 0.00 3.01
416 989 3.639538 GACACATGTACGTCTCACAGTT 58.360 45.455 0.00 0.00 0.00 3.16
417 990 2.350484 CGACACATGTACGTCTCACAGT 60.350 50.000 12.86 0.00 0.00 3.55
418 991 2.242564 CGACACATGTACGTCTCACAG 58.757 52.381 12.86 0.00 0.00 3.66
419 992 1.605232 ACGACACATGTACGTCTCACA 59.395 47.619 19.57 0.00 35.33 3.58
420 993 2.327081 ACGACACATGTACGTCTCAC 57.673 50.000 19.57 0.00 35.33 3.51
425 998 0.892755 ATGGGACGACACATGTACGT 59.107 50.000 23.43 23.43 38.86 3.57
426 999 2.004583 AATGGGACGACACATGTACG 57.995 50.000 18.51 18.51 39.45 3.67
427 1000 3.500680 ACAAAATGGGACGACACATGTAC 59.499 43.478 2.74 0.00 39.45 2.90
428 1001 3.745799 ACAAAATGGGACGACACATGTA 58.254 40.909 2.74 0.00 39.45 2.29
429 1002 2.552315 GACAAAATGGGACGACACATGT 59.448 45.455 2.74 0.00 39.45 3.21
430 1003 2.551887 TGACAAAATGGGACGACACATG 59.448 45.455 2.74 0.00 39.45 3.21
431 1004 2.857483 TGACAAAATGGGACGACACAT 58.143 42.857 0.00 0.00 42.51 3.21
432 1005 2.333688 TGACAAAATGGGACGACACA 57.666 45.000 0.00 0.00 0.00 3.72
433 1006 3.915437 AATGACAAAATGGGACGACAC 57.085 42.857 0.00 0.00 0.00 3.67
434 1007 4.927978 AAAATGACAAAATGGGACGACA 57.072 36.364 0.00 0.00 0.00 4.35
454 1027 3.251571 CGAAACCAAAACACGGGAAAAA 58.748 40.909 0.00 0.00 0.00 1.94
455 1028 2.877335 CGAAACCAAAACACGGGAAAA 58.123 42.857 0.00 0.00 0.00 2.29
456 1029 1.469423 GCGAAACCAAAACACGGGAAA 60.469 47.619 0.00 0.00 0.00 3.13
457 1030 0.100861 GCGAAACCAAAACACGGGAA 59.899 50.000 0.00 0.00 0.00 3.97
458 1031 1.726533 GGCGAAACCAAAACACGGGA 61.727 55.000 0.00 0.00 38.86 5.14
459 1032 1.299544 GGCGAAACCAAAACACGGG 60.300 57.895 0.00 0.00 38.86 5.28
460 1033 1.655959 CGGCGAAACCAAAACACGG 60.656 57.895 0.00 0.00 39.03 4.94
461 1034 1.655959 CCGGCGAAACCAAAACACG 60.656 57.895 9.30 0.00 39.03 4.49
462 1035 0.662085 TACCGGCGAAACCAAAACAC 59.338 50.000 9.30 0.00 39.03 3.32
463 1036 1.065251 GTTACCGGCGAAACCAAAACA 59.935 47.619 9.30 0.00 39.03 2.83
464 1037 1.065251 TGTTACCGGCGAAACCAAAAC 59.935 47.619 9.30 2.43 39.03 2.43
465 1038 1.386533 TGTTACCGGCGAAACCAAAA 58.613 45.000 9.30 0.00 39.03 2.44
466 1039 1.606903 ATGTTACCGGCGAAACCAAA 58.393 45.000 9.30 0.00 39.03 3.28
467 1040 1.606903 AATGTTACCGGCGAAACCAA 58.393 45.000 9.30 0.00 39.03 3.67
468 1041 1.606903 AAATGTTACCGGCGAAACCA 58.393 45.000 9.30 0.00 39.03 3.67
469 1042 2.710220 AAAATGTTACCGGCGAAACC 57.290 45.000 9.30 0.00 0.00 3.27
470 1043 4.666928 TCTAAAATGTTACCGGCGAAAC 57.333 40.909 9.30 13.24 0.00 2.78
471 1044 4.083377 GGTTCTAAAATGTTACCGGCGAAA 60.083 41.667 9.30 0.00 0.00 3.46
472 1045 3.436359 GGTTCTAAAATGTTACCGGCGAA 59.564 43.478 9.30 0.00 0.00 4.70
473 1046 3.002102 GGTTCTAAAATGTTACCGGCGA 58.998 45.455 9.30 0.00 0.00 5.54
474 1047 3.004862 AGGTTCTAAAATGTTACCGGCG 58.995 45.455 0.00 0.00 34.09 6.46
475 1048 4.142534 GGAAGGTTCTAAAATGTTACCGGC 60.143 45.833 0.00 0.00 34.09 6.13
476 1049 4.397103 GGGAAGGTTCTAAAATGTTACCGG 59.603 45.833 0.00 0.00 34.09 5.28
477 1050 4.397103 GGGGAAGGTTCTAAAATGTTACCG 59.603 45.833 0.00 0.00 34.09 4.02
478 1051 4.397103 CGGGGAAGGTTCTAAAATGTTACC 59.603 45.833 0.00 0.00 0.00 2.85
479 1052 5.005740 ACGGGGAAGGTTCTAAAATGTTAC 58.994 41.667 0.00 0.00 0.00 2.50
480 1053 5.245584 ACGGGGAAGGTTCTAAAATGTTA 57.754 39.130 0.00 0.00 0.00 2.41
481 1054 4.108501 ACGGGGAAGGTTCTAAAATGTT 57.891 40.909 0.00 0.00 0.00 2.71
482 1055 3.801307 ACGGGGAAGGTTCTAAAATGT 57.199 42.857 0.00 0.00 0.00 2.71
483 1056 4.638865 CCTAACGGGGAAGGTTCTAAAATG 59.361 45.833 0.00 0.00 0.00 2.32
484 1057 4.290459 ACCTAACGGGGAAGGTTCTAAAAT 59.710 41.667 0.00 0.00 43.77 1.82
485 1058 3.652387 ACCTAACGGGGAAGGTTCTAAAA 59.348 43.478 0.00 0.00 43.77 1.52
486 1059 3.250617 ACCTAACGGGGAAGGTTCTAAA 58.749 45.455 0.00 0.00 43.77 1.85
487 1060 2.906568 ACCTAACGGGGAAGGTTCTAA 58.093 47.619 0.00 0.00 43.77 2.10
488 1061 2.629017 ACCTAACGGGGAAGGTTCTA 57.371 50.000 0.00 0.00 43.77 2.10
489 1062 3.488945 ACCTAACGGGGAAGGTTCT 57.511 52.632 0.00 0.00 43.77 3.01
493 1066 3.708403 AGTAAAACCTAACGGGGAAGG 57.292 47.619 0.00 0.00 40.03 3.46
494 1067 4.903054 AGAAGTAAAACCTAACGGGGAAG 58.097 43.478 0.00 0.00 40.03 3.46
495 1068 4.980339 AGAAGTAAAACCTAACGGGGAA 57.020 40.909 0.00 0.00 40.03 3.97
496 1069 4.980339 AAGAAGTAAAACCTAACGGGGA 57.020 40.909 0.00 0.00 40.03 4.81
497 1070 5.300034 ACAAAAGAAGTAAAACCTAACGGGG 59.700 40.000 0.00 0.00 40.03 5.73
498 1071 6.183360 ACACAAAAGAAGTAAAACCTAACGGG 60.183 38.462 0.00 0.00 41.89 5.28
499 1072 6.689669 CACACAAAAGAAGTAAAACCTAACGG 59.310 38.462 0.00 0.00 0.00 4.44
500 1073 7.217447 CACACACAAAAGAAGTAAAACCTAACG 59.783 37.037 0.00 0.00 0.00 3.18
501 1074 8.024865 ACACACACAAAAGAAGTAAAACCTAAC 58.975 33.333 0.00 0.00 0.00 2.34
502 1075 8.113173 ACACACACAAAAGAAGTAAAACCTAA 57.887 30.769 0.00 0.00 0.00 2.69
503 1076 7.690952 ACACACACAAAAGAAGTAAAACCTA 57.309 32.000 0.00 0.00 0.00 3.08
504 1077 6.584185 ACACACACAAAAGAAGTAAAACCT 57.416 33.333 0.00 0.00 0.00 3.50
505 1078 7.646446 AAACACACACAAAAGAAGTAAAACC 57.354 32.000 0.00 0.00 0.00 3.27
506 1079 9.575702 GAAAAACACACACAAAAGAAGTAAAAC 57.424 29.630 0.00 0.00 0.00 2.43
507 1080 9.535878 AGAAAAACACACACAAAAGAAGTAAAA 57.464 25.926 0.00 0.00 0.00 1.52
508 1081 9.535878 AAGAAAAACACACACAAAAGAAGTAAA 57.464 25.926 0.00 0.00 0.00 2.01
509 1082 9.535878 AAAGAAAAACACACACAAAAGAAGTAA 57.464 25.926 0.00 0.00 0.00 2.24
510 1083 9.535878 AAAAGAAAAACACACACAAAAGAAGTA 57.464 25.926 0.00 0.00 0.00 2.24
511 1084 8.432110 AAAAGAAAAACACACACAAAAGAAGT 57.568 26.923 0.00 0.00 0.00 3.01
512 1085 7.735586 CGAAAAGAAAAACACACACAAAAGAAG 59.264 33.333 0.00 0.00 0.00 2.85
513 1086 7.222999 ACGAAAAGAAAAACACACACAAAAGAA 59.777 29.630 0.00 0.00 0.00 2.52
514 1087 6.697892 ACGAAAAGAAAAACACACACAAAAGA 59.302 30.769 0.00 0.00 0.00 2.52
515 1088 6.872608 ACGAAAAGAAAAACACACACAAAAG 58.127 32.000 0.00 0.00 0.00 2.27
516 1089 6.830114 ACGAAAAGAAAAACACACACAAAA 57.170 29.167 0.00 0.00 0.00 2.44
517 1090 6.830114 AACGAAAAGAAAAACACACACAAA 57.170 29.167 0.00 0.00 0.00 2.83
518 1091 6.830114 AAACGAAAAGAAAAACACACACAA 57.170 29.167 0.00 0.00 0.00 3.33
528 1101 5.576447 AGCAGGAGAAAACGAAAAGAAAA 57.424 34.783 0.00 0.00 0.00 2.29
530 1103 5.576447 AAAGCAGGAGAAAACGAAAAGAA 57.424 34.783 0.00 0.00 0.00 2.52
615 1208 5.333263 CCCAAATCTCAAAATGTTCGCAAAC 60.333 40.000 0.00 0.00 35.85 2.93
619 1212 4.173036 TCCCAAATCTCAAAATGTTCGC 57.827 40.909 0.00 0.00 0.00 4.70
620 1213 5.527951 TGTTCCCAAATCTCAAAATGTTCG 58.472 37.500 0.00 0.00 0.00 3.95
674 1267 6.797033 CCACGCAAATTTAACAAAAACACAAA 59.203 30.769 0.00 0.00 0.00 2.83
675 1268 6.147164 TCCACGCAAATTTAACAAAAACACAA 59.853 30.769 0.00 0.00 0.00 3.33
678 1271 6.721571 TTCCACGCAAATTTAACAAAAACA 57.278 29.167 0.00 0.00 0.00 2.83
679 1272 7.215381 CAGTTTCCACGCAAATTTAACAAAAAC 59.785 33.333 0.00 0.00 0.00 2.43
684 1277 5.000012 ACAGTTTCCACGCAAATTTAACA 58.000 34.783 0.00 0.00 0.00 2.41
685 1278 6.141685 CAGTACAGTTTCCACGCAAATTTAAC 59.858 38.462 0.00 0.00 0.00 2.01
693 1286 0.882927 GGCAGTACAGTTTCCACGCA 60.883 55.000 0.00 0.00 0.00 5.24
694 1287 0.882927 TGGCAGTACAGTTTCCACGC 60.883 55.000 0.00 0.00 0.00 5.34
716 1309 4.145052 AGCCCTCGAACTTGATTTTCTTT 58.855 39.130 0.00 0.00 0.00 2.52
717 1310 3.756117 AGCCCTCGAACTTGATTTTCTT 58.244 40.909 0.00 0.00 0.00 2.52
718 1311 3.425162 AGCCCTCGAACTTGATTTTCT 57.575 42.857 0.00 0.00 0.00 2.52
719 1312 5.819825 AATAGCCCTCGAACTTGATTTTC 57.180 39.130 0.00 0.00 0.00 2.29
751 1344 0.745486 GGTTATACCCAAACGCGGCT 60.745 55.000 12.47 0.00 30.04 5.52
772 1366 1.110442 TGCACCCAACCAAAGAAGTG 58.890 50.000 0.00 0.00 0.00 3.16
812 1406 2.838202 AGGAAATCCGAGTGGTACATGT 59.162 45.455 2.69 2.69 40.90 3.21
813 1407 3.118775 TGAGGAAATCCGAGTGGTACATG 60.119 47.826 0.00 0.00 40.90 3.21
814 1408 3.104512 TGAGGAAATCCGAGTGGTACAT 58.895 45.455 0.00 0.00 40.90 2.29
842 1459 3.305361 GTCCGAGCGGTACTACATTTTTC 59.695 47.826 8.96 0.00 36.47 2.29
899 1626 1.268899 CCGTCCCCTCGTACATATGTC 59.731 57.143 12.68 3.54 0.00 3.06
900 1627 1.325355 CCGTCCCCTCGTACATATGT 58.675 55.000 13.93 13.93 0.00 2.29
901 1628 0.601558 CCCGTCCCCTCGTACATATG 59.398 60.000 0.00 0.00 0.00 1.78
902 1629 0.479815 TCCCGTCCCCTCGTACATAT 59.520 55.000 0.00 0.00 0.00 1.78
903 1630 0.466189 GTCCCGTCCCCTCGTACATA 60.466 60.000 0.00 0.00 0.00 2.29
904 1631 1.755783 GTCCCGTCCCCTCGTACAT 60.756 63.158 0.00 0.00 0.00 2.29
905 1632 2.361610 GTCCCGTCCCCTCGTACA 60.362 66.667 0.00 0.00 0.00 2.90
906 1633 3.512516 CGTCCCGTCCCCTCGTAC 61.513 72.222 0.00 0.00 0.00 3.67
907 1634 3.687321 CTCGTCCCGTCCCCTCGTA 62.687 68.421 0.00 0.00 0.00 3.43
1155 1937 1.758514 GGAGATGAGGCAGGGACGA 60.759 63.158 0.00 0.00 0.00 4.20
1214 1999 0.785979 CAAAATTGAACCAGCAGCGC 59.214 50.000 0.00 0.00 0.00 5.92
1269 2062 4.462483 GGATTGTGTGAAATAGCAAAGGGA 59.538 41.667 0.00 0.00 0.00 4.20
1270 2063 4.381932 GGGATTGTGTGAAATAGCAAAGGG 60.382 45.833 0.00 0.00 0.00 3.95
1299 2145 2.031560 GCCGACATGATTTATTCGTGCA 59.968 45.455 0.00 0.00 43.96 4.57
1300 2146 2.602217 GGCCGACATGATTTATTCGTGC 60.602 50.000 0.00 3.18 43.96 5.34
1301 2147 2.611751 TGGCCGACATGATTTATTCGTG 59.388 45.455 0.00 0.00 45.35 4.35
1302 2148 2.612212 GTGGCCGACATGATTTATTCGT 59.388 45.455 0.00 0.00 0.00 3.85
1303 2149 2.872245 AGTGGCCGACATGATTTATTCG 59.128 45.455 0.00 0.00 0.00 3.34
1304 2150 4.452455 CCTAGTGGCCGACATGATTTATTC 59.548 45.833 0.00 0.00 0.00 1.75
1306 2152 3.391296 ACCTAGTGGCCGACATGATTTAT 59.609 43.478 0.00 0.00 36.63 1.40
1307 2153 2.769663 ACCTAGTGGCCGACATGATTTA 59.230 45.455 0.00 0.00 36.63 1.40
1308 2154 1.559682 ACCTAGTGGCCGACATGATTT 59.440 47.619 0.00 0.00 36.63 2.17
1309 2155 1.204146 ACCTAGTGGCCGACATGATT 58.796 50.000 0.00 0.00 36.63 2.57
1333 2179 4.463891 CCAGGAAACAAGCAAACATATCCT 59.536 41.667 0.00 0.00 36.52 3.24
1339 2185 0.463620 GCCCAGGAAACAAGCAAACA 59.536 50.000 0.00 0.00 0.00 2.83
1358 2250 8.601476 GGAGGAAGTAGTTTCAATAACAATACG 58.399 37.037 0.00 0.00 37.54 3.06
1365 2257 6.755141 CGAATCGGAGGAAGTAGTTTCAATAA 59.245 38.462 0.00 0.00 37.54 1.40
1686 3344 7.116736 ACTGGTGGAAATTTTACATACTAGGG 58.883 38.462 0.00 0.00 0.00 3.53
1690 3348 9.143155 AGAAAACTGGTGGAAATTTTACATACT 57.857 29.630 0.00 0.00 0.00 2.12
1752 3411 3.059352 AGAATCTCAGGGTTGGTTTCG 57.941 47.619 0.00 0.00 0.00 3.46
1765 3424 5.720371 TCTAGAGCAATGCCTAGAATCTC 57.280 43.478 22.26 5.19 36.38 2.75
1805 3464 7.038302 TGGTTTGATACAACAGGTCTAGAATCT 60.038 37.037 0.00 0.00 0.00 2.40
1806 3465 7.064728 GTGGTTTGATACAACAGGTCTAGAATC 59.935 40.741 0.00 0.00 30.44 2.52
1842 3501 1.295423 GCCGTTTCTACCAGCCTGA 59.705 57.895 0.00 0.00 0.00 3.86
1938 3625 4.264253 TGTTCAACCTAGATGCTTCATGG 58.736 43.478 2.07 5.96 0.00 3.66
1989 3685 1.760192 ATCATCCAAGGAAGCAGCAC 58.240 50.000 0.00 0.00 0.00 4.40
2084 3786 6.959311 CACACTGTTTAAAACGAGCCATATAC 59.041 38.462 0.00 0.00 0.00 1.47
2200 3908 9.323985 TGCTTTACAAAAGTTGCTGAAAATAAT 57.676 25.926 1.72 0.00 0.00 1.28
2201 3909 8.709386 TGCTTTACAAAAGTTGCTGAAAATAA 57.291 26.923 1.72 0.00 0.00 1.40
2202 3910 8.194104 TCTGCTTTACAAAAGTTGCTGAAAATA 58.806 29.630 1.72 0.00 0.00 1.40


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

AutoCloner maintained by Alex Coulton.