Multiple sequence alignment - TraesCS7D01G249300

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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 TraesCS7D01G249300 chr7D 100.000 3669 0 0 1 3669 220512705 220516373 0.000000e+00 6776.0
1 TraesCS7D01G249300 chr7D 80.456 307 34 16 3336 3625 618328894 618329191 1.030000e-50 211.0
2 TraesCS7D01G249300 chr7B 95.021 1205 40 4 2469 3669 178406017 178404829 0.000000e+00 1875.0
3 TraesCS7D01G249300 chr7B 88.306 1086 54 26 716 1762 178407795 178406744 0.000000e+00 1234.0
4 TraesCS7D01G249300 chr7B 90.809 272 17 4 2082 2353 178406345 178406082 1.250000e-94 357.0
5 TraesCS7D01G249300 chr7B 88.312 308 23 8 1781 2083 178406754 178406455 1.250000e-94 357.0
6 TraesCS7D01G249300 chr7B 91.765 85 6 1 1 85 178414971 178414888 2.310000e-22 117.0
7 TraesCS7D01G249300 chr7B 83.333 78 11 2 441 517 228824875 228824799 1.830000e-08 71.3
8 TraesCS7D01G249300 chr7A 88.694 1371 72 39 418 1767 232748291 232749599 0.000000e+00 1596.0
9 TraesCS7D01G249300 chr7A 93.112 842 49 7 2082 2923 232749897 232750729 0.000000e+00 1225.0
10 TraesCS7D01G249300 chr7A 94.816 598 21 3 3082 3669 232750742 232751339 0.000000e+00 924.0
11 TraesCS7D01G249300 chr7A 85.205 365 20 13 71 408 232747952 232748309 9.750000e-91 344.0
12 TraesCS7D01G249300 chr7A 90.717 237 12 6 1849 2084 232749630 232749857 1.280000e-79 307.0
13 TraesCS7D01G249300 chr7A 98.780 82 1 0 1 82 232747852 232747933 2.950000e-31 147.0
14 TraesCS7D01G249300 chr7A 77.692 130 24 4 450 574 427614541 427614670 1.410000e-09 75.0
15 TraesCS7D01G249300 chr7A 83.077 65 9 2 490 552 61800773 61800709 1.420000e-04 58.4
16 TraesCS7D01G249300 chr4B 92.994 157 11 0 2927 3083 135218052 135218208 2.850000e-56 230.0
17 TraesCS7D01G249300 chr4B 90.909 165 14 1 2920 3083 190690969 190690805 1.720000e-53 220.0
18 TraesCS7D01G249300 chr4B 90.476 168 12 2 2916 3082 474400597 474400433 6.170000e-53 219.0
19 TraesCS7D01G249300 chr4B 79.769 173 26 3 486 649 104812452 104812624 2.310000e-22 117.0
20 TraesCS7D01G249300 chr1A 93.421 152 10 0 2932 3083 566481016 566481167 3.690000e-55 226.0
21 TraesCS7D01G249300 chr1A 82.166 157 23 3 422 573 368829449 368829293 2.970000e-26 130.0
22 TraesCS7D01G249300 chr1A 79.012 162 30 2 494 651 65791011 65790850 1.390000e-19 108.0
23 TraesCS7D01G249300 chr3D 90.909 165 13 2 2920 3083 537154867 537154704 1.720000e-53 220.0
24 TraesCS7D01G249300 chr3D 81.579 114 19 2 448 560 543933903 543933791 3.900000e-15 93.5
25 TraesCS7D01G249300 chr2A 90.419 167 14 2 2918 3083 606381242 606381407 6.170000e-53 219.0
26 TraesCS7D01G249300 chr1D 90.476 168 13 1 2916 3083 463381900 463382064 6.170000e-53 219.0
27 TraesCS7D01G249300 chr1D 82.051 156 24 2 422 573 295971242 295971087 2.970000e-26 130.0
28 TraesCS7D01G249300 chr1D 88.889 45 2 3 446 489 333332554 333332596 7.000000e-03 52.8
29 TraesCS7D01G249300 chr2D 87.978 183 16 6 2901 3083 289157123 289157299 1.030000e-50 211.0
30 TraesCS7D01G249300 chr4D 80.687 233 35 7 426 652 31335714 31335486 4.870000e-39 172.0
31 TraesCS7D01G249300 chr1B 82.123 179 27 3 422 596 397451630 397451453 8.210000e-32 148.0
32 TraesCS7D01G249300 chr5D 85.185 108 13 2 545 649 2593682 2593575 1.390000e-19 108.0
33 TraesCS7D01G249300 chr6D 75.556 225 39 10 432 641 333593548 333593771 3.020000e-16 97.1


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 TraesCS7D01G249300 chr7D 220512705 220516373 3668 False 6776.000000 6776 100.000000 1 3669 1 chr7D.!!$F1 3668
1 TraesCS7D01G249300 chr7B 178404829 178407795 2966 True 955.750000 1875 90.612000 716 3669 4 chr7B.!!$R3 2953
2 TraesCS7D01G249300 chr7A 232747852 232751339 3487 False 757.166667 1596 91.887333 1 3669 6 chr7A.!!$F2 3668

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
416 474 0.250081 GTTCATTGGGCCCGCAAAAA 60.250 50.0 19.37 5.45 0.00 1.94 F
984 1078 0.471617 AAAGCCGCTGCATCCTAGAT 59.528 50.0 2.05 0.00 41.13 1.98 F
1958 2088 0.321919 TGAGCTGGAGTGTTGGATGC 60.322 55.0 0.00 0.00 0.00 3.91 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1592 1713 0.036388 AACCACGGTTCAGCGATCAT 60.036 50.000 5.23 0.00 32.09 2.45 R
2145 2386 0.037877 GGGAGGCTGGGATGATGATG 59.962 60.000 0.00 0.00 0.00 3.07 R
3576 3831 3.072944 GTGTTTTGAGCTCTGCAGAGAT 58.927 45.455 41.20 37.57 44.40 2.75 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
104 136 1.580994 AATAAGGAGGTGCCACCCCC 61.581 60.000 11.06 8.65 39.75 5.40
105 137 2.508216 ATAAGGAGGTGCCACCCCCT 62.508 60.000 11.84 11.84 39.75 4.79
109 141 3.569200 GAGGTGCCACCCCCTGTTC 62.569 68.421 11.06 0.00 39.75 3.18
137 169 4.024218 GCCTCTGAATCTATTGATGCACAC 60.024 45.833 0.00 0.00 33.46 3.82
139 171 5.587443 CCTCTGAATCTATTGATGCACACAA 59.413 40.000 9.94 9.94 33.46 3.33
163 195 6.668323 ACAAGTGTAAGATTCGTGGAAATTG 58.332 36.000 0.00 0.00 0.00 2.32
165 197 6.481954 AGTGTAAGATTCGTGGAAATTGTC 57.518 37.500 0.00 0.00 0.00 3.18
167 199 6.147821 AGTGTAAGATTCGTGGAAATTGTCTG 59.852 38.462 0.00 0.00 0.00 3.51
182 214 1.421268 TGTCTGTGCTCATTCCCTGTT 59.579 47.619 0.00 0.00 0.00 3.16
195 240 0.593128 CCCTGTTTGTTTGGAGCTCG 59.407 55.000 7.83 0.00 0.00 5.03
197 242 0.593128 CTGTTTGTTTGGAGCTCGGG 59.407 55.000 7.83 0.00 0.00 5.14
208 253 1.664151 GGAGCTCGGGAAATTTGTACG 59.336 52.381 7.83 0.00 0.00 3.67
214 259 4.469552 CTCGGGAAATTTGTACGGAAAAC 58.530 43.478 0.00 0.00 0.00 2.43
222 267 7.916977 GGAAATTTGTACGGAAAACAAACTACT 59.083 33.333 0.00 0.00 46.40 2.57
259 304 1.008767 CGGATCGACCTAGCGTTCC 60.009 63.158 8.86 8.86 43.34 3.62
271 316 3.451894 CGTTCCATTGCTGGGGCC 61.452 66.667 0.00 0.00 43.34 5.80
335 393 2.566833 TCCAGACTGAACAATGTGGG 57.433 50.000 3.32 0.00 0.00 4.61
336 394 1.774254 TCCAGACTGAACAATGTGGGT 59.226 47.619 3.32 0.00 0.00 4.51
338 396 3.392947 TCCAGACTGAACAATGTGGGTAA 59.607 43.478 3.32 0.00 0.00 2.85
342 400 2.225017 ACTGAACAATGTGGGTAAGGGG 60.225 50.000 0.00 0.00 0.00 4.79
343 401 1.783979 TGAACAATGTGGGTAAGGGGT 59.216 47.619 0.00 0.00 0.00 4.95
344 402 2.224917 TGAACAATGTGGGTAAGGGGTC 60.225 50.000 0.00 0.00 0.00 4.46
345 403 0.326927 ACAATGTGGGTAAGGGGTCG 59.673 55.000 0.00 0.00 0.00 4.79
346 404 0.616371 CAATGTGGGTAAGGGGTCGA 59.384 55.000 0.00 0.00 0.00 4.20
347 405 0.616891 AATGTGGGTAAGGGGTCGAC 59.383 55.000 7.13 7.13 0.00 4.20
363 421 3.063510 TCGACTACGAGAGGAAGGAAA 57.936 47.619 0.00 0.00 43.81 3.13
377 435 4.283467 AGGAAGGAAATGGTTAAAGTTGCC 59.717 41.667 0.00 0.00 0.00 4.52
389 447 6.598457 TGGTTAAAGTTGCCGTAATGCTATTA 59.402 34.615 0.00 0.00 0.00 0.98
390 448 7.120873 TGGTTAAAGTTGCCGTAATGCTATTAA 59.879 33.333 0.00 0.00 0.00 1.40
391 449 7.642586 GGTTAAAGTTGCCGTAATGCTATTAAG 59.357 37.037 0.00 0.00 0.00 1.85
392 450 6.995511 AAAGTTGCCGTAATGCTATTAAGA 57.004 33.333 0.00 0.00 0.00 2.10
393 451 7.568199 AAAGTTGCCGTAATGCTATTAAGAT 57.432 32.000 0.00 0.00 0.00 2.40
394 452 6.545504 AGTTGCCGTAATGCTATTAAGATG 57.454 37.500 0.00 0.00 0.00 2.90
395 453 6.288294 AGTTGCCGTAATGCTATTAAGATGA 58.712 36.000 0.00 0.00 0.00 2.92
396 454 6.936900 AGTTGCCGTAATGCTATTAAGATGAT 59.063 34.615 0.00 0.00 0.00 2.45
397 455 6.726258 TGCCGTAATGCTATTAAGATGATG 57.274 37.500 0.00 0.00 0.00 3.07
398 456 6.230472 TGCCGTAATGCTATTAAGATGATGT 58.770 36.000 0.00 0.00 0.00 3.06
399 457 6.710295 TGCCGTAATGCTATTAAGATGATGTT 59.290 34.615 0.00 0.00 0.00 2.71
400 458 7.095229 TGCCGTAATGCTATTAAGATGATGTTC 60.095 37.037 0.00 0.00 0.00 3.18
401 459 7.095229 GCCGTAATGCTATTAAGATGATGTTCA 60.095 37.037 0.00 0.00 0.00 3.18
402 460 8.939929 CCGTAATGCTATTAAGATGATGTTCAT 58.060 33.333 0.00 0.00 40.34 2.57
406 464 7.514784 TGCTATTAAGATGATGTTCATTGGG 57.485 36.000 0.00 0.00 37.20 4.12
407 465 6.016024 TGCTATTAAGATGATGTTCATTGGGC 60.016 38.462 0.00 0.00 37.20 5.36
408 466 5.796424 ATTAAGATGATGTTCATTGGGCC 57.204 39.130 0.00 0.00 37.20 5.80
409 467 2.077687 AGATGATGTTCATTGGGCCC 57.922 50.000 17.59 17.59 37.20 5.80
410 468 0.670162 GATGATGTTCATTGGGCCCG 59.330 55.000 19.37 2.31 37.20 6.13
411 469 1.394266 ATGATGTTCATTGGGCCCGC 61.394 55.000 19.37 3.26 32.13 6.13
412 470 2.037049 ATGTTCATTGGGCCCGCA 59.963 55.556 19.37 6.62 0.00 5.69
413 471 1.603236 GATGTTCATTGGGCCCGCAA 61.603 55.000 19.37 7.25 0.00 4.85
414 472 1.190833 ATGTTCATTGGGCCCGCAAA 61.191 50.000 19.37 6.36 0.00 3.68
415 473 1.369321 GTTCATTGGGCCCGCAAAA 59.631 52.632 19.37 5.91 0.00 2.44
416 474 0.250081 GTTCATTGGGCCCGCAAAAA 60.250 50.000 19.37 5.45 0.00 1.94
492 551 8.924511 ATTTATATTGTCGTGAGGATGGAAAT 57.075 30.769 0.00 0.00 0.00 2.17
495 554 9.839817 TTATATTGTCGTGAGGATGGAAATTTA 57.160 29.630 0.00 0.00 0.00 1.40
496 555 6.683974 ATTGTCGTGAGGATGGAAATTTAG 57.316 37.500 0.00 0.00 0.00 1.85
497 556 5.160607 TGTCGTGAGGATGGAAATTTAGT 57.839 39.130 0.00 0.00 0.00 2.24
499 558 6.703319 TGTCGTGAGGATGGAAATTTAGTTA 58.297 36.000 0.00 0.00 0.00 2.24
538 598 6.913170 TCCTGACAAATAACTGAATTGAAGC 58.087 36.000 0.00 0.00 0.00 3.86
539 599 5.796935 CCTGACAAATAACTGAATTGAAGCG 59.203 40.000 0.00 0.00 0.00 4.68
543 603 6.555315 ACAAATAACTGAATTGAAGCGGATC 58.445 36.000 0.00 0.00 0.00 3.36
560 620 3.282021 GGATCTGCCATGCTTGTCTAAA 58.718 45.455 0.00 0.00 36.34 1.85
574 634 6.542005 TGCTTGTCTAAACTTGTCATTCTCAA 59.458 34.615 0.00 0.00 0.00 3.02
576 636 7.254932 GCTTGTCTAAACTTGTCATTCTCAACT 60.255 37.037 0.00 0.00 0.00 3.16
630 692 3.567473 GCTTCCCAGCTGACGTTC 58.433 61.111 17.39 0.00 43.51 3.95
632 694 2.357034 TTCCCAGCTGACGTTCGC 60.357 61.111 17.39 0.00 0.00 4.70
698 760 2.673610 GCGGAATTGCAGTGCCAAAATA 60.674 45.455 13.72 0.00 34.15 1.40
714 776 6.039616 GCCAAAATACCGCTCAAATTTATCA 58.960 36.000 0.00 0.00 0.00 2.15
776 838 0.605083 ACGAAGATGACAGCAGAGCA 59.395 50.000 0.00 0.00 0.00 4.26
777 839 1.206610 ACGAAGATGACAGCAGAGCAT 59.793 47.619 0.00 0.00 0.00 3.79
778 840 1.593469 CGAAGATGACAGCAGAGCATG 59.407 52.381 0.00 0.00 0.00 4.06
779 841 2.630158 GAAGATGACAGCAGAGCATGT 58.370 47.619 0.00 0.00 0.00 3.21
780 842 2.025589 AGATGACAGCAGAGCATGTG 57.974 50.000 0.00 0.00 0.00 3.21
843 905 1.202188 CGAGTGATTAGCGCAGAGACA 60.202 52.381 11.47 0.00 0.00 3.41
906 968 4.082523 TCCGCTTTGCCCCTCTCG 62.083 66.667 0.00 0.00 0.00 4.04
921 983 2.158900 CCTCTCGCTCTCTCTCTCTCTT 60.159 54.545 0.00 0.00 0.00 2.85
922 984 3.126831 CTCTCGCTCTCTCTCTCTCTTC 58.873 54.545 0.00 0.00 0.00 2.87
952 1043 1.210413 CTGTCACTCCACGAGTCCG 59.790 63.158 0.00 0.00 41.37 4.79
976 1070 1.671054 GACAGGTAAAGCCGCTGCA 60.671 57.895 2.05 0.00 43.70 4.41
984 1078 0.471617 AAAGCCGCTGCATCCTAGAT 59.528 50.000 2.05 0.00 41.13 1.98
1045 1142 2.496817 CTTCCTTCCTCCTCGCCG 59.503 66.667 0.00 0.00 0.00 6.46
1065 1168 0.958876 GACACCAACCATTCCCGACC 60.959 60.000 0.00 0.00 0.00 4.79
1068 1171 1.449601 CCAACCATTCCCGACCTCG 60.450 63.158 0.00 0.00 39.44 4.63
1081 1184 2.435586 CCTCGTCAAGGGCAGCAG 60.436 66.667 0.00 0.00 42.03 4.24
1082 1185 2.435586 CTCGTCAAGGGCAGCAGG 60.436 66.667 0.00 0.00 0.00 4.85
1083 1186 3.965539 CTCGTCAAGGGCAGCAGGG 62.966 68.421 0.00 0.00 0.00 4.45
1085 1188 3.971702 GTCAAGGGCAGCAGGGGT 61.972 66.667 0.00 0.00 0.00 4.95
1086 1189 2.204074 TCAAGGGCAGCAGGGGTA 60.204 61.111 0.00 0.00 0.00 3.69
1128 1231 1.302832 CAAGCCGCCCAAGAAGTCT 60.303 57.895 0.00 0.00 0.00 3.24
1171 1274 3.125607 CCGCATCGGCAGGTAGTA 58.874 61.111 0.00 0.00 41.17 1.82
1172 1275 1.440060 CCGCATCGGCAGGTAGTAA 59.560 57.895 0.00 0.00 41.17 2.24
1173 1276 0.874607 CCGCATCGGCAGGTAGTAAC 60.875 60.000 0.00 0.00 41.17 2.50
1174 1277 1.206745 CGCATCGGCAGGTAGTAACG 61.207 60.000 0.00 0.00 41.24 3.18
1175 1278 0.874607 GCATCGGCAGGTAGTAACGG 60.875 60.000 0.00 0.00 40.72 4.44
1176 1279 0.874607 CATCGGCAGGTAGTAACGGC 60.875 60.000 1.16 1.16 0.00 5.68
1177 1280 2.581409 CGGCAGGTAGTAACGGCG 60.581 66.667 4.80 4.80 41.08 6.46
1178 1281 2.889018 GGCAGGTAGTAACGGCGC 60.889 66.667 6.90 0.00 0.00 6.53
1179 1282 2.889018 GCAGGTAGTAACGGCGCC 60.889 66.667 19.07 19.07 0.00 6.53
1180 1283 2.581409 CAGGTAGTAACGGCGCCG 60.581 66.667 44.88 44.88 46.03 6.46
1289 1401 2.503061 CATCAGGCTCCTGGACGG 59.497 66.667 15.32 0.43 43.75 4.79
1515 1627 4.746951 CGCGACGACTGCACCGTA 62.747 66.667 0.00 0.00 40.67 4.02
1583 1704 1.701847 CCATGGACCTATTCTCCCTGG 59.298 57.143 5.56 0.00 37.28 4.45
1584 1705 2.694397 CATGGACCTATTCTCCCTGGA 58.306 52.381 0.00 0.00 0.00 3.86
1585 1706 3.254960 CATGGACCTATTCTCCCTGGAT 58.745 50.000 0.00 0.00 0.00 3.41
1586 1707 2.694397 TGGACCTATTCTCCCTGGATG 58.306 52.381 0.00 0.00 0.00 3.51
1588 1709 3.311327 TGGACCTATTCTCCCTGGATGAA 60.311 47.826 0.00 0.00 0.00 2.57
1590 1711 4.166144 GGACCTATTCTCCCTGGATGAAAA 59.834 45.833 0.00 0.00 0.00 2.29
1608 1729 2.900122 AAAATGATCGCTGAACCGTG 57.100 45.000 0.00 0.00 0.00 4.94
1609 1730 1.086696 AAATGATCGCTGAACCGTGG 58.913 50.000 0.00 0.00 0.00 4.94
1655 1776 0.679002 AGGGTTCGGACTCGATCGAA 60.679 55.000 19.92 12.25 45.51 3.71
1716 1837 4.756084 AGCTAACATTCTTCACAAGCAC 57.244 40.909 0.00 0.00 0.00 4.40
1718 1839 4.453819 AGCTAACATTCTTCACAAGCACTC 59.546 41.667 0.00 0.00 0.00 3.51
1742 1868 4.142609 TCTCTGTCAATGGTGGAATAGC 57.857 45.455 0.00 0.00 0.00 2.97
1750 1876 2.804986 TGGTGGAATAGCTGCATCAA 57.195 45.000 1.02 0.00 32.81 2.57
1759 1885 6.999871 TGGAATAGCTGCATCAATTATTCAGA 59.000 34.615 14.84 3.34 31.13 3.27
1761 1887 9.170734 GGAATAGCTGCATCAATTATTCAGATA 57.829 33.333 14.84 0.00 34.86 1.98
1763 1889 9.955102 AATAGCTGCATCAATTATTCAGATAGA 57.045 29.630 1.02 0.00 34.07 1.98
1765 1891 8.865420 AGCTGCATCAATTATTCAGATAGATT 57.135 30.769 1.02 0.00 31.13 2.40
1766 1892 9.298250 AGCTGCATCAATTATTCAGATAGATTT 57.702 29.630 1.02 0.00 31.13 2.17
1767 1893 9.909644 GCTGCATCAATTATTCAGATAGATTTT 57.090 29.630 0.00 0.00 31.13 1.82
1823 1949 5.618056 ACTCATAGTTTCACACTTGCATG 57.382 39.130 0.00 0.00 36.88 4.06
1827 1953 3.213206 AGTTTCACACTTGCATGAGGA 57.787 42.857 6.60 0.00 27.32 3.71
1829 1955 4.147321 AGTTTCACACTTGCATGAGGATT 58.853 39.130 6.60 0.00 27.32 3.01
1900 2030 4.637091 TGCATCACCATGATCAGTTAGTTG 59.363 41.667 0.09 0.00 34.28 3.16
1901 2031 4.497006 GCATCACCATGATCAGTTAGTTGC 60.497 45.833 0.09 3.27 34.28 4.17
1902 2032 4.558226 TCACCATGATCAGTTAGTTGCT 57.442 40.909 0.09 0.00 0.00 3.91
1903 2033 4.256110 TCACCATGATCAGTTAGTTGCTG 58.744 43.478 0.09 0.00 35.43 4.41
1904 2034 3.376234 CACCATGATCAGTTAGTTGCTGG 59.624 47.826 0.09 3.01 34.89 4.85
1905 2035 2.947652 CCATGATCAGTTAGTTGCTGGG 59.052 50.000 0.09 0.00 34.89 4.45
1906 2036 2.113860 TGATCAGTTAGTTGCTGGGC 57.886 50.000 0.00 0.00 34.89 5.36
1907 2037 1.630369 TGATCAGTTAGTTGCTGGGCT 59.370 47.619 0.00 0.00 34.89 5.19
1908 2038 2.837591 TGATCAGTTAGTTGCTGGGCTA 59.162 45.455 0.00 0.00 34.89 3.93
1909 2039 3.263170 TGATCAGTTAGTTGCTGGGCTAA 59.737 43.478 0.00 0.00 34.89 3.09
1910 2040 3.334583 TCAGTTAGTTGCTGGGCTAAG 57.665 47.619 0.00 0.00 34.89 2.18
1911 2041 2.637872 TCAGTTAGTTGCTGGGCTAAGT 59.362 45.455 0.00 0.00 34.89 2.24
1915 2045 4.893524 AGTTAGTTGCTGGGCTAAGTTTTT 59.106 37.500 0.00 0.00 29.41 1.94
1958 2088 0.321919 TGAGCTGGAGTGTTGGATGC 60.322 55.000 0.00 0.00 0.00 3.91
1974 2104 0.816825 ATGCTGGCAGCGGTTATGAG 60.817 55.000 32.12 0.00 46.26 2.90
2047 2177 3.007940 TCGATGTCAATTTGGAGGTCACT 59.992 43.478 0.00 0.00 0.00 3.41
2058 2188 2.158219 TGGAGGTCACTCTGGAGGTAAA 60.158 50.000 2.58 0.00 43.46 2.01
2068 2198 5.240183 CACTCTGGAGGTAAATATGGCATTG 59.760 44.000 4.78 0.00 0.00 2.82
2125 2366 4.272748 CACTGATGCATGACACTAAGATGG 59.727 45.833 2.46 0.00 0.00 3.51
2126 2367 4.162888 ACTGATGCATGACACTAAGATGGA 59.837 41.667 2.46 0.00 0.00 3.41
2127 2368 4.700700 TGATGCATGACACTAAGATGGAG 58.299 43.478 2.46 0.00 0.00 3.86
2141 2382 9.307121 CACTAAGATGGAGTATGTTTAGTTGAG 57.693 37.037 0.00 0.00 0.00 3.02
2160 2401 3.262660 TGAGTATCATCATCATCCCAGCC 59.737 47.826 0.00 0.00 42.56 4.85
2164 2405 0.037877 CATCATCATCCCAGCCTCCC 59.962 60.000 0.00 0.00 0.00 4.30
2175 2416 1.692042 AGCCTCCCAGGGATGAGTG 60.692 63.158 14.91 0.00 35.37 3.51
2223 2464 3.525199 AGCCCTCAAGTTCCTCATATGTT 59.475 43.478 1.90 0.00 0.00 2.71
2225 2466 4.848357 CCCTCAAGTTCCTCATATGTTGT 58.152 43.478 1.90 0.00 0.00 3.32
2226 2467 5.629133 GCCCTCAAGTTCCTCATATGTTGTA 60.629 44.000 1.90 0.00 0.00 2.41
2318 2559 2.621668 GCCCTGCATCCCTTAGAAGTTT 60.622 50.000 0.00 0.00 0.00 2.66
2330 2571 6.659242 TCCCTTAGAAGTTTCTGCAATTTAGG 59.341 38.462 4.67 0.00 38.19 2.69
2356 2597 3.960571 AGTGCTTTCCTGATGCTTACAT 58.039 40.909 0.00 0.00 39.98 2.29
2357 2598 5.102953 AGTGCTTTCCTGATGCTTACATA 57.897 39.130 0.00 0.00 36.35 2.29
2358 2599 4.878397 AGTGCTTTCCTGATGCTTACATAC 59.122 41.667 0.00 0.00 36.35 2.39
2359 2600 4.635765 GTGCTTTCCTGATGCTTACATACA 59.364 41.667 0.00 0.00 36.35 2.29
2360 2601 4.877823 TGCTTTCCTGATGCTTACATACAG 59.122 41.667 0.00 0.00 36.35 2.74
2369 2610 4.220693 TGCTTACATACAGAGTGGCAAT 57.779 40.909 0.00 0.00 0.00 3.56
2418 2659 1.211743 CATCGAGATGCTTAAGCGCA 58.788 50.000 21.97 7.42 45.83 6.09
2434 2675 1.595489 GCGCATAATTCACGCCTCAAG 60.595 52.381 0.30 0.00 46.63 3.02
2435 2676 1.595489 CGCATAATTCACGCCTCAAGC 60.595 52.381 0.00 0.00 38.52 4.01
2447 2688 0.442699 CCTCAAGCTACGCCGTTTTC 59.557 55.000 0.00 0.00 0.00 2.29
2457 2698 0.727793 CGCCGTTTTCCCAATTGTCG 60.728 55.000 4.43 0.00 0.00 4.35
2467 2708 3.138304 TCCCAATTGTCGTGAAACTGAG 58.862 45.455 4.43 0.00 31.75 3.35
2736 2978 2.908940 CTGGGATTCATGGCCGGC 60.909 66.667 21.18 21.18 0.00 6.13
2932 3177 5.808366 TTGACCCATGTACATATCTCTCC 57.192 43.478 8.32 0.00 0.00 3.71
2933 3178 4.814967 TGACCCATGTACATATCTCTCCA 58.185 43.478 8.32 0.00 0.00 3.86
2935 3180 5.846164 TGACCCATGTACATATCTCTCCATT 59.154 40.000 8.32 0.00 0.00 3.16
2936 3181 6.014242 TGACCCATGTACATATCTCTCCATTC 60.014 42.308 8.32 0.00 0.00 2.67
2937 3182 5.249393 ACCCATGTACATATCTCTCCATTCC 59.751 44.000 8.32 0.00 0.00 3.01
2938 3183 5.486775 CCCATGTACATATCTCTCCATTCCT 59.513 44.000 8.32 0.00 0.00 3.36
2939 3184 6.669591 CCCATGTACATATCTCTCCATTCCTA 59.330 42.308 8.32 0.00 0.00 2.94
2940 3185 7.180946 CCCATGTACATATCTCTCCATTCCTAA 59.819 40.741 8.32 0.00 0.00 2.69
2941 3186 8.597167 CCATGTACATATCTCTCCATTCCTAAA 58.403 37.037 8.32 0.00 0.00 1.85
2979 3224 9.961264 TTCGAGATTCCACTATAGACTACATAT 57.039 33.333 6.78 0.00 0.00 1.78
2988 3233 8.031864 CCACTATAGACTACATATGGAGCAAAG 58.968 40.741 15.30 8.09 0.00 2.77
2992 3237 5.911752 AGACTACATATGGAGCAAAGTGAG 58.088 41.667 15.30 0.00 0.00 3.51
3002 3247 4.040339 TGGAGCAAAGTGAGTGAATCTACA 59.960 41.667 0.00 0.00 0.00 2.74
3390 3643 6.150809 ACACAACAACAAATCAAGCCATTTTT 59.849 30.769 0.00 0.00 0.00 1.94
3470 3725 4.271696 TGTCCTGTACATTCCTTCACAG 57.728 45.455 0.00 0.00 38.48 3.66
3576 3831 1.003355 GCTCTGTTAGGCAGCACCA 60.003 57.895 0.00 0.00 44.66 4.17
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
104 136 1.915078 ATTCAGAGGCCGGGGAACAG 61.915 60.000 2.18 0.00 0.00 3.16
105 137 1.910580 GATTCAGAGGCCGGGGAACA 61.911 60.000 2.18 0.00 0.00 3.18
109 141 1.059913 AATAGATTCAGAGGCCGGGG 58.940 55.000 2.18 0.00 0.00 5.73
137 169 5.666969 TTCCACGAATCTTACACTTGTTG 57.333 39.130 0.00 0.00 0.00 3.33
139 171 6.262273 ACAATTTCCACGAATCTTACACTTGT 59.738 34.615 0.00 0.00 0.00 3.16
163 195 2.191128 AACAGGGAATGAGCACAGAC 57.809 50.000 0.00 0.00 0.00 3.51
165 197 2.233271 ACAAACAGGGAATGAGCACAG 58.767 47.619 0.00 0.00 0.00 3.66
167 199 3.383761 CAAACAAACAGGGAATGAGCAC 58.616 45.455 0.00 0.00 0.00 4.40
182 214 2.286365 ATTTCCCGAGCTCCAAACAA 57.714 45.000 8.47 0.00 0.00 2.83
195 240 6.044046 AGTTTGTTTTCCGTACAAATTTCCC 58.956 36.000 0.00 0.00 44.52 3.97
197 242 8.739461 CAGTAGTTTGTTTTCCGTACAAATTTC 58.261 33.333 0.00 0.00 44.52 2.17
222 267 0.953727 GTGCATGAGCCAGACAAACA 59.046 50.000 0.00 0.00 41.13 2.83
233 278 0.668535 TAGGTCGATCCGTGCATGAG 59.331 55.000 7.72 0.00 41.99 2.90
271 316 2.325666 AAAACGGACCAACAACGGCG 62.326 55.000 4.80 4.80 0.00 6.46
273 318 0.452585 ACAAAACGGACCAACAACGG 59.547 50.000 0.00 0.00 0.00 4.44
274 319 1.914700 CAACAAAACGGACCAACAACG 59.085 47.619 0.00 0.00 0.00 4.10
275 320 2.918600 GTCAACAAAACGGACCAACAAC 59.081 45.455 0.00 0.00 0.00 3.32
276 321 2.557056 TGTCAACAAAACGGACCAACAA 59.443 40.909 0.00 0.00 0.00 2.83
277 322 2.160205 TGTCAACAAAACGGACCAACA 58.840 42.857 0.00 0.00 0.00 3.33
278 323 2.923605 TGTCAACAAAACGGACCAAC 57.076 45.000 0.00 0.00 0.00 3.77
335 393 1.939255 CTCTCGTAGTCGACCCCTTAC 59.061 57.143 13.01 7.27 41.35 2.34
336 394 1.134280 CCTCTCGTAGTCGACCCCTTA 60.134 57.143 13.01 0.00 41.35 2.69
338 396 1.224039 CCTCTCGTAGTCGACCCCT 59.776 63.158 13.01 0.00 41.35 4.79
342 400 2.021355 TCCTTCCTCTCGTAGTCGAC 57.979 55.000 7.70 7.70 41.35 4.20
343 401 2.775911 TTCCTTCCTCTCGTAGTCGA 57.224 50.000 0.00 0.00 44.12 4.20
344 402 3.489398 CCATTTCCTTCCTCTCGTAGTCG 60.489 52.174 0.00 0.00 38.55 4.18
345 403 3.447944 ACCATTTCCTTCCTCTCGTAGTC 59.552 47.826 0.00 0.00 0.00 2.59
346 404 3.442076 ACCATTTCCTTCCTCTCGTAGT 58.558 45.455 0.00 0.00 0.00 2.73
347 405 4.473477 AACCATTTCCTTCCTCTCGTAG 57.527 45.455 0.00 0.00 0.00 3.51
363 421 3.761752 AGCATTACGGCAACTTTAACCAT 59.238 39.130 0.00 0.00 35.83 3.55
389 447 2.391678 GGGCCCAATGAACATCATCTT 58.608 47.619 19.95 0.00 35.76 2.40
390 448 1.751733 CGGGCCCAATGAACATCATCT 60.752 52.381 24.92 0.00 35.76 2.90
391 449 0.670162 CGGGCCCAATGAACATCATC 59.330 55.000 24.92 0.00 35.76 2.92
392 450 1.394266 GCGGGCCCAATGAACATCAT 61.394 55.000 24.92 0.00 39.09 2.45
393 451 2.051518 GCGGGCCCAATGAACATCA 61.052 57.895 24.92 0.00 0.00 3.07
394 452 1.603236 TTGCGGGCCCAATGAACATC 61.603 55.000 24.92 0.00 0.00 3.06
395 453 1.190833 TTTGCGGGCCCAATGAACAT 61.191 50.000 24.92 0.00 0.00 2.71
396 454 1.402896 TTTTGCGGGCCCAATGAACA 61.403 50.000 24.92 6.55 0.00 3.18
397 455 0.250081 TTTTTGCGGGCCCAATGAAC 60.250 50.000 24.92 3.64 0.00 3.18
398 456 2.136791 TTTTTGCGGGCCCAATGAA 58.863 47.368 24.92 8.14 0.00 2.57
399 457 3.876873 TTTTTGCGGGCCCAATGA 58.123 50.000 24.92 0.89 0.00 2.57
416 474 4.566070 CCCTGCCCAATGAACATCATTTTT 60.566 41.667 2.93 0.00 44.03 1.94
429 487 2.292389 TGATTTGTCATCCCTGCCCAAT 60.292 45.455 0.00 0.00 0.00 3.16
432 490 1.851304 TTGATTTGTCATCCCTGCCC 58.149 50.000 0.00 0.00 0.00 5.36
467 526 8.924511 ATTTCCATCCTCACGACAATATAAAT 57.075 30.769 0.00 0.00 0.00 1.40
480 539 6.095440 GCTTGCTAACTAAATTTCCATCCTCA 59.905 38.462 0.00 0.00 0.00 3.86
482 541 5.951747 TGCTTGCTAACTAAATTTCCATCCT 59.048 36.000 0.00 0.00 0.00 3.24
492 551 1.885560 TGCCGTGCTTGCTAACTAAA 58.114 45.000 0.00 0.00 0.00 1.85
495 554 1.200020 GATTTGCCGTGCTTGCTAACT 59.800 47.619 0.00 0.00 0.00 2.24
496 555 1.617740 GATTTGCCGTGCTTGCTAAC 58.382 50.000 0.00 0.00 0.00 2.34
497 556 0.525761 GGATTTGCCGTGCTTGCTAA 59.474 50.000 0.00 0.00 0.00 3.09
499 558 1.604593 AGGATTTGCCGTGCTTGCT 60.605 52.632 0.00 0.00 43.43 3.91
538 598 0.463295 AGACAAGCATGGCAGATCCG 60.463 55.000 0.00 0.00 36.86 4.18
539 599 2.627515 TAGACAAGCATGGCAGATCC 57.372 50.000 0.00 0.00 36.86 3.36
543 603 3.254166 ACAAGTTTAGACAAGCATGGCAG 59.746 43.478 0.00 0.00 36.86 4.85
596 656 3.679502 GGAAGCATGGCAATTACAAACAC 59.320 43.478 0.00 0.00 0.00 3.32
598 658 3.261580 GGGAAGCATGGCAATTACAAAC 58.738 45.455 0.00 0.00 0.00 2.93
601 661 2.101783 CTGGGAAGCATGGCAATTACA 58.898 47.619 0.00 0.00 0.00 2.41
602 662 1.202452 GCTGGGAAGCATGGCAATTAC 60.202 52.381 0.00 0.00 34.41 1.89
603 663 1.113788 GCTGGGAAGCATGGCAATTA 58.886 50.000 0.00 0.00 34.41 1.40
632 694 2.027469 ACTTTAGGACCGGCTTAACCAG 60.027 50.000 0.00 0.12 39.03 4.00
677 739 0.599728 TTTTGGCACTGCAATTCCGC 60.600 50.000 2.82 0.00 0.00 5.54
698 760 5.975693 TTTTCCTGATAAATTTGAGCGGT 57.024 34.783 0.00 0.00 0.00 5.68
739 801 3.021473 TACCGGTTCATGTCCGCCC 62.021 63.158 15.04 3.57 45.71 6.13
740 802 1.812507 GTACCGGTTCATGTCCGCC 60.813 63.158 15.04 10.62 45.71 6.13
741 803 2.162754 CGTACCGGTTCATGTCCGC 61.163 63.158 15.04 10.47 45.71 5.54
742 804 0.109179 TTCGTACCGGTTCATGTCCG 60.109 55.000 15.04 19.44 46.49 4.79
751 813 0.172803 GCTGTCATCTTCGTACCGGT 59.827 55.000 13.98 13.98 0.00 5.28
900 962 1.414181 AGAGAGAGAGAGAGCGAGAGG 59.586 57.143 0.00 0.00 0.00 3.69
906 968 1.215423 AGGGGAAGAGAGAGAGAGAGC 59.785 57.143 0.00 0.00 0.00 4.09
921 983 2.039624 GACAGAGGGCTCAGGGGA 59.960 66.667 0.00 0.00 0.00 4.81
922 984 2.284921 TGACAGAGGGCTCAGGGG 60.285 66.667 0.00 0.00 0.00 4.79
952 1043 1.369625 CGGCTTTACCTGTCATGGAC 58.630 55.000 0.00 0.00 35.61 4.02
954 1045 0.392998 AGCGGCTTTACCTGTCATGG 60.393 55.000 0.00 0.00 35.61 3.66
955 1046 0.729116 CAGCGGCTTTACCTGTCATG 59.271 55.000 0.00 0.00 35.61 3.07
956 1047 1.026718 GCAGCGGCTTTACCTGTCAT 61.027 55.000 0.00 0.00 36.96 3.06
957 1048 1.671054 GCAGCGGCTTTACCTGTCA 60.671 57.895 0.00 0.00 36.96 3.58
958 1049 1.026718 ATGCAGCGGCTTTACCTGTC 61.027 55.000 10.92 0.00 41.91 3.51
976 1070 2.612285 TCGCCTGGATCATCTAGGAT 57.388 50.000 21.09 0.00 46.88 3.24
1021 1115 0.476611 AGGAGGAAGGAAGGCTTGGT 60.477 55.000 3.46 0.00 0.00 3.67
1045 1142 0.958876 GTCGGGAATGGTTGGTGTCC 60.959 60.000 0.00 0.00 0.00 4.02
1065 1168 2.435586 CCTGCTGCCCTTGACGAG 60.436 66.667 0.00 0.00 0.00 4.18
1068 1171 2.543067 CTACCCCTGCTGCCCTTGAC 62.543 65.000 0.00 0.00 0.00 3.18
1078 1181 4.415150 TGCTGCTGCTACCCCTGC 62.415 66.667 17.00 0.00 40.48 4.85
1079 1182 2.124819 CTGCTGCTGCTACCCCTG 60.125 66.667 17.00 0.00 40.48 4.45
1080 1183 4.106925 GCTGCTGCTGCTACCCCT 62.107 66.667 22.10 0.00 40.48 4.79
1081 1184 4.415150 TGCTGCTGCTGCTACCCC 62.415 66.667 27.67 3.30 40.48 4.95
1082 1185 2.823147 CTGCTGCTGCTGCTACCC 60.823 66.667 27.67 3.96 40.48 3.69
1158 1261 1.440476 GCCGTTACTACCTGCCGAT 59.560 57.895 0.00 0.00 0.00 4.18
1165 1268 2.580597 GTCGGCGCCGTTACTACC 60.581 66.667 44.16 21.71 40.74 3.18
1166 1269 2.946086 CGTCGGCGCCGTTACTAC 60.946 66.667 44.16 33.18 40.74 2.73
1167 1270 4.178214 CCGTCGGCGCCGTTACTA 62.178 66.667 44.16 25.72 40.74 1.82
1548 1665 1.135603 CCATGGAATCAAGCGTGTGTG 60.136 52.381 5.56 0.00 0.00 3.82
1588 1709 2.095263 CCACGGTTCAGCGATCATTTTT 60.095 45.455 5.23 0.00 0.00 1.94
1590 1711 1.086696 CCACGGTTCAGCGATCATTT 58.913 50.000 5.23 0.00 0.00 2.32
1592 1713 0.036388 AACCACGGTTCAGCGATCAT 60.036 50.000 5.23 0.00 32.09 2.45
1593 1714 1.369692 AACCACGGTTCAGCGATCA 59.630 52.632 5.23 0.00 32.09 2.92
1602 1723 1.408969 AGGCAAATTGAACCACGGTT 58.591 45.000 0.00 0.00 41.54 4.44
1604 1725 2.134346 CAAAGGCAAATTGAACCACGG 58.866 47.619 0.00 0.00 0.00 4.94
1606 1727 2.871633 CACCAAAGGCAAATTGAACCAC 59.128 45.455 0.00 0.00 0.00 4.16
1608 1729 3.130633 GTCACCAAAGGCAAATTGAACC 58.869 45.455 0.00 0.00 0.00 3.62
1609 1730 3.791245 TGTCACCAAAGGCAAATTGAAC 58.209 40.909 0.00 0.00 0.00 3.18
1655 1776 3.748083 TGAAAAGAGCTCATTCTGCTGT 58.252 40.909 24.17 3.08 41.30 4.40
1716 1837 5.604758 TTCCACCATTGACAGAGATAGAG 57.395 43.478 0.00 0.00 0.00 2.43
1718 1839 5.931146 GCTATTCCACCATTGACAGAGATAG 59.069 44.000 0.00 0.00 0.00 2.08
1766 1892 9.522804 ACTAACTGAATAATTGTTTCGCAAAAA 57.477 25.926 0.00 0.00 40.91 1.94
1767 1893 9.522804 AACTAACTGAATAATTGTTTCGCAAAA 57.477 25.926 0.00 0.00 40.91 2.44
1770 1896 9.767684 CATAACTAACTGAATAATTGTTTCGCA 57.232 29.630 0.00 0.00 0.00 5.10
1771 1897 9.769093 ACATAACTAACTGAATAATTGTTTCGC 57.231 29.630 0.00 0.00 0.00 4.70
1790 1916 9.640963 GTGTGAAACTATGAGTAGAACATAACT 57.359 33.333 0.00 0.00 38.04 2.24
1791 1917 9.640963 AGTGTGAAACTATGAGTAGAACATAAC 57.359 33.333 0.00 0.00 37.36 1.89
1808 1934 4.510038 AATCCTCATGCAAGTGTGAAAC 57.490 40.909 0.00 0.00 37.35 2.78
1837 1963 9.613428 AGAGATATCAAATGTTTGGAAATCGTA 57.387 29.630 5.32 0.00 38.66 3.43
1926 2056 2.025981 TCCAGCTCAGGCACATTGTATT 60.026 45.455 0.00 0.00 41.70 1.89
1929 2059 0.322277 CTCCAGCTCAGGCACATTGT 60.322 55.000 0.00 0.00 41.70 2.71
1958 2088 0.107703 TTCCTCATAACCGCTGCCAG 60.108 55.000 0.00 0.00 0.00 4.85
1974 2104 2.171870 TCTCCCCATGTTATTCGGTTCC 59.828 50.000 0.00 0.00 0.00 3.62
2047 2177 5.132648 ACTCAATGCCATATTTACCTCCAGA 59.867 40.000 0.00 0.00 0.00 3.86
2058 2188 9.388506 GCTATATCACTAAACTCAATGCCATAT 57.611 33.333 0.00 0.00 0.00 1.78
2068 2198 7.439356 TGTGATGCAAGCTATATCACTAAACTC 59.561 37.037 25.47 9.28 46.67 3.01
2080 2210 5.865552 GTGTGAATTTTGTGATGCAAGCTAT 59.134 36.000 0.00 0.00 38.47 2.97
2141 2382 3.370315 GGAGGCTGGGATGATGATGATAC 60.370 52.174 0.00 0.00 0.00 2.24
2145 2386 0.037877 GGGAGGCTGGGATGATGATG 59.962 60.000 0.00 0.00 0.00 3.07
2147 2388 1.004626 TGGGAGGCTGGGATGATGA 59.995 57.895 0.00 0.00 0.00 2.92
2160 2401 0.763652 CATCCACTCATCCCTGGGAG 59.236 60.000 21.99 13.03 34.05 4.30
2164 2405 2.421107 CCTTGTCATCCACTCATCCCTG 60.421 54.545 0.00 0.00 0.00 4.45
2175 2416 3.713826 TGTAGGAAACCCTTGTCATCC 57.286 47.619 0.00 0.00 35.26 3.51
2223 2464 3.991773 GCTTCGTGTACACCTGAAATACA 59.008 43.478 20.11 0.00 0.00 2.29
2225 2466 3.007074 TGGCTTCGTGTACACCTGAAATA 59.993 43.478 20.11 5.52 0.00 1.40
2226 2467 2.224426 TGGCTTCGTGTACACCTGAAAT 60.224 45.455 20.11 0.00 0.00 2.17
2306 2547 6.659242 TCCTAAATTGCAGAAACTTCTAAGGG 59.341 38.462 0.00 0.00 35.34 3.95
2318 2559 4.592942 AGCACTTGATCCTAAATTGCAGA 58.407 39.130 8.61 0.00 0.00 4.26
2330 2571 3.015327 AGCATCAGGAAAGCACTTGATC 58.985 45.455 0.00 0.00 35.07 2.92
2356 2597 5.677319 AGCTAGTTTATTGCCACTCTGTA 57.323 39.130 0.00 0.00 0.00 2.74
2357 2598 4.559862 AGCTAGTTTATTGCCACTCTGT 57.440 40.909 0.00 0.00 0.00 3.41
2358 2599 5.446473 CGAAAGCTAGTTTATTGCCACTCTG 60.446 44.000 0.00 0.00 0.00 3.35
2359 2600 4.631813 CGAAAGCTAGTTTATTGCCACTCT 59.368 41.667 0.00 0.00 0.00 3.24
2360 2601 4.630069 TCGAAAGCTAGTTTATTGCCACTC 59.370 41.667 0.00 0.00 0.00 3.51
2393 2634 2.099652 TAAGCATCTCGATGGGGGCG 62.100 60.000 8.81 0.00 39.16 6.13
2435 2676 1.538075 ACAATTGGGAAAACGGCGTAG 59.462 47.619 15.20 0.00 0.00 3.51
2447 2688 2.878406 ACTCAGTTTCACGACAATTGGG 59.122 45.455 10.83 3.78 0.00 4.12
2457 2698 6.848451 TGAAACAGGTAAAACTCAGTTTCAC 58.152 36.000 2.45 0.00 45.49 3.18
2467 2708 9.634163 TTTCTTCTTCTTTGAAACAGGTAAAAC 57.366 29.630 0.00 0.00 0.00 2.43
2736 2978 1.945394 CTGGATTTGATGGAAGCCGAG 59.055 52.381 0.00 0.00 37.90 4.63
2744 2986 0.744874 CTGCCAGCTGGATTTGATGG 59.255 55.000 37.21 7.81 43.20 3.51
2801 3043 3.503891 TCATGCAAGCATCGACAAATTG 58.496 40.909 4.24 0.00 33.90 2.32
2940 3185 9.892130 AGTGGAATCTCGAAAAAGACTTATATT 57.108 29.630 0.00 0.00 0.00 1.28
2951 3196 8.515695 TGTAGTCTATAGTGGAATCTCGAAAA 57.484 34.615 0.00 0.00 0.00 2.29
2968 3213 6.607600 ACTCACTTTGCTCCATATGTAGTCTA 59.392 38.462 1.24 0.00 0.00 2.59
2979 3224 3.777106 AGATTCACTCACTTTGCTCCA 57.223 42.857 0.00 0.00 0.00 3.86
3002 3247 8.982723 AGGATGTACACAGACATATTTTAGAGT 58.017 33.333 0.00 0.00 40.18 3.24
3008 3253 7.568349 ACATGAGGATGTACACAGACATATTT 58.432 34.615 0.00 0.00 41.27 1.40
3248 3501 4.265073 ACTGTCCCAGAAAATATGTCTGC 58.735 43.478 10.05 0.68 41.04 4.26
3274 3527 6.625873 GGAAGATATCCCAGAACATGTTTC 57.374 41.667 13.36 6.25 43.00 2.78
3470 3725 4.141620 TGAAGCCCTGATGGAGATAGTTTC 60.142 45.833 0.00 0.00 35.39 2.78
3576 3831 3.072944 GTGTTTTGAGCTCTGCAGAGAT 58.927 45.455 41.20 37.57 44.40 2.75


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

AutoCloner maintained by Alex Coulton.