Multiple sequence alignment - TraesCS7D01G134500

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 TraesCS7D01G134500 chr7D 100.000 2489 0 0 1 2489 85932920 85930432 0.000000e+00 4597
1 TraesCS7D01G134500 chr7D 87.978 183 17 3 2308 2488 20439849 20440028 6.970000e-51 211
2 TraesCS7D01G134500 chr7D 82.990 194 25 4 1042 1229 80322352 80322543 4.260000e-38 169
3 TraesCS7D01G134500 chr7D 90.909 121 9 1 1054 1174 80389484 80389602 7.120000e-36 161
4 TraesCS7D01G134500 chr7D 81.773 203 26 3 1042 1235 80466950 80467150 2.560000e-35 159
5 TraesCS7D01G134500 chr7A 90.056 1619 108 31 693 2306 87332259 87330689 0.000000e+00 2049
6 TraesCS7D01G134500 chr7A 91.382 673 51 3 1 672 87447328 87446662 0.000000e+00 915
7 TraesCS7D01G134500 chr7A 76.590 346 55 18 881 1212 83128943 83129276 1.530000e-37 167
8 TraesCS7D01G134500 chr7B 89.953 856 21 17 910 1728 35101487 35100660 0.000000e+00 1044
9 TraesCS7D01G134500 chr7B 89.219 538 37 10 1784 2313 35099547 35099023 0.000000e+00 652
10 TraesCS7D01G134500 chr7B 87.931 232 12 6 693 924 35103678 35103463 2.460000e-65 259
11 TraesCS7D01G134500 chr7B 89.000 200 18 1 477 672 35104308 35104109 6.880000e-61 244
12 TraesCS7D01G134500 chr7B 80.374 321 44 12 897 1210 27493711 27494019 2.490000e-55 226
13 TraesCS7D01G134500 chr7B 85.246 183 25 2 2308 2489 735521049 735521230 1.180000e-43 187
14 TraesCS7D01G134500 chr7B 84.699 183 24 3 2308 2489 735539031 735539210 1.970000e-41 180
15 TraesCS7D01G134500 chr3B 87.245 196 25 0 477 672 636114826 636114631 8.960000e-55 224
16 TraesCS7D01G134500 chr2D 86.813 182 19 3 2308 2488 476702180 476702357 5.430000e-47 198
17 TraesCS7D01G134500 chr5D 85.714 182 24 1 2308 2489 96371547 96371726 9.090000e-45 191
18 TraesCS7D01G134500 chr5D 84.615 182 18 7 2311 2489 53686890 53686716 3.290000e-39 172
19 TraesCS7D01G134500 chr3D 85.083 181 24 2 2308 2488 549287749 549287926 5.470000e-42 182
20 TraesCS7D01G134500 chr6D 83.516 182 28 1 2308 2489 2195787 2195608 4.260000e-38 169
21 TraesCS7D01G134500 chr6A 83.607 183 26 4 2308 2488 571186703 571186883 4.260000e-38 169
22 TraesCS7D01G134500 chr4B 88.333 120 7 4 477 594 671186153 671186039 1.200000e-28 137


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 TraesCS7D01G134500 chr7D 85930432 85932920 2488 True 4597.00 4597 100.00000 1 2489 1 chr7D.!!$R1 2488
1 TraesCS7D01G134500 chr7A 87330689 87332259 1570 True 2049.00 2049 90.05600 693 2306 1 chr7A.!!$R1 1613
2 TraesCS7D01G134500 chr7A 87446662 87447328 666 True 915.00 915 91.38200 1 672 1 chr7A.!!$R2 671
3 TraesCS7D01G134500 chr7B 35099023 35104308 5285 True 549.75 1044 89.02575 477 2313 4 chr7B.!!$R1 1836

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
633 639 0.099259 CGCTGTAATGTGCCCATGTG 59.901 55.0 0.0 0.0 0.0 3.21 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2363 5912 0.103026 CCCATCAGAATGCTCGTCGA 59.897 55.0 0.0 0.0 34.76 4.2 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
31 32 1.213926 CTGGAAAGGAAGGGGATCTGG 59.786 57.143 0.00 0.00 0.00 3.86
67 68 1.348008 TGGGAGTGGGGATCATCAGC 61.348 60.000 0.00 0.00 0.00 4.26
72 73 3.928779 GGGGATCATCAGCGGCGA 61.929 66.667 12.98 0.00 0.00 5.54
81 82 0.747255 ATCAGCGGCGACAGTTCTAT 59.253 50.000 12.98 0.00 0.00 1.98
89 90 1.134965 GCGACAGTTCTATGTGGAGCT 60.135 52.381 0.00 0.00 32.25 4.09
102 103 0.256752 TGGAGCTACGGCACCTACTA 59.743 55.000 6.10 0.00 46.88 1.82
117 118 1.476891 CTACTAGCTGCCGGTCTTCAA 59.523 52.381 1.90 0.00 0.00 2.69
130 131 2.390938 GTCTTCAACATCGTGTCGTCA 58.609 47.619 0.00 0.00 0.00 4.35
131 132 2.153247 GTCTTCAACATCGTGTCGTCAC 59.847 50.000 2.47 2.47 40.79 3.67
143 144 4.796231 CGTCACCTCTTCGGGCCG 62.796 72.222 22.51 22.51 36.97 6.13
174 175 1.904287 TTTTGTTCCTCCCGGACATG 58.096 50.000 0.73 0.00 39.60 3.21
178 179 1.002624 TTCCTCCCGGACATGTTGC 60.003 57.895 0.73 0.00 39.60 4.17
222 223 2.860628 GCTCGGTGTTCATAGCGCG 61.861 63.158 0.00 0.00 41.00 6.86
228 229 0.294887 GTGTTCATAGCGCGTTCTCG 59.705 55.000 8.43 0.00 40.37 4.04
248 249 2.175184 CTGCTGTGAAGGTTTCGGCG 62.175 60.000 0.00 0.00 0.00 6.46
260 261 0.953471 TTTCGGCGTCCCAAGTGATG 60.953 55.000 6.85 0.00 0.00 3.07
261 262 2.047274 CGGCGTCCCAAGTGATGT 60.047 61.111 0.00 0.00 0.00 3.06
263 264 1.003839 GGCGTCCCAAGTGATGTGA 60.004 57.895 0.00 0.00 0.00 3.58
265 266 1.453155 GCGTCCCAAGTGATGTGATT 58.547 50.000 0.00 0.00 0.00 2.57
266 267 1.812571 GCGTCCCAAGTGATGTGATTT 59.187 47.619 0.00 0.00 0.00 2.17
267 268 2.414559 GCGTCCCAAGTGATGTGATTTG 60.415 50.000 0.00 0.00 0.00 2.32
268 269 2.813754 CGTCCCAAGTGATGTGATTTGT 59.186 45.455 0.00 0.00 0.00 2.83
269 270 3.253188 CGTCCCAAGTGATGTGATTTGTT 59.747 43.478 0.00 0.00 0.00 2.83
270 271 4.613622 CGTCCCAAGTGATGTGATTTGTTC 60.614 45.833 0.00 0.00 0.00 3.18
325 326 1.401905 GTTCAGGACCCGATTGCAATC 59.598 52.381 26.42 26.42 0.00 2.67
343 344 3.739401 ATCCTACTTTCCAGTTTGGGG 57.261 47.619 0.00 0.00 38.32 4.96
360 361 4.094830 TGGGGTCCTTCTTGTAAAAGTC 57.905 45.455 0.00 0.00 0.00 3.01
363 364 4.072839 GGGTCCTTCTTGTAAAAGTCAGG 58.927 47.826 7.13 7.13 0.00 3.86
364 365 4.202430 GGGTCCTTCTTGTAAAAGTCAGGA 60.202 45.833 10.65 10.65 32.00 3.86
413 414 7.603180 TTGAGTCCTTGTATGAGCTATGTAT 57.397 36.000 0.00 0.00 0.00 2.29
415 416 7.436933 TGAGTCCTTGTATGAGCTATGTATTG 58.563 38.462 0.00 0.00 0.00 1.90
431 432 9.188588 GCTATGTATTGTAACGCTGAATACTAA 57.811 33.333 0.00 0.00 34.82 2.24
442 443 6.109359 ACGCTGAATACTAATGAAGCTTTCT 58.891 36.000 0.00 0.00 0.00 2.52
465 466 2.523325 TCCTTCAGGACCTCTCTCTG 57.477 55.000 0.00 0.00 39.78 3.35
467 468 2.110899 TCCTTCAGGACCTCTCTCTGTT 59.889 50.000 0.00 0.00 39.78 3.16
468 469 3.333980 TCCTTCAGGACCTCTCTCTGTTA 59.666 47.826 0.00 0.00 39.78 2.41
470 471 4.528596 CCTTCAGGACCTCTCTCTGTTAAA 59.471 45.833 0.00 0.00 37.39 1.52
471 472 5.012148 CCTTCAGGACCTCTCTCTGTTAAAA 59.988 44.000 0.00 0.00 37.39 1.52
472 473 6.464465 CCTTCAGGACCTCTCTCTGTTAAAAA 60.464 42.308 0.00 0.00 37.39 1.94
516 522 2.416432 GGCGCTCGACTACCTCCTT 61.416 63.158 7.64 0.00 0.00 3.36
531 537 7.129425 ACTACCTCCTTTAGACTCATCATCTT 58.871 38.462 0.00 0.00 0.00 2.40
533 539 6.648192 ACCTCCTTTAGACTCATCATCTTTG 58.352 40.000 0.00 0.00 0.00 2.77
633 639 0.099259 CGCTGTAATGTGCCCATGTG 59.901 55.000 0.00 0.00 0.00 3.21
638 644 3.694926 TGTAATGTGCCCATGTGATTCA 58.305 40.909 0.00 0.00 0.00 2.57
648 654 3.691118 CCCATGTGATTCAGTAACACAGG 59.309 47.826 0.00 0.00 45.38 4.00
672 678 3.247411 TGCTGTGACACGTTTCAGTAATG 59.753 43.478 4.27 0.00 0.00 1.90
678 684 1.199097 CACGTTTCAGTAATGTGCCCC 59.801 52.381 0.00 0.00 44.36 5.80
679 685 1.073284 ACGTTTCAGTAATGTGCCCCT 59.927 47.619 0.00 0.00 34.68 4.79
684 690 1.915489 TCAGTAATGTGCCCCTGTGAT 59.085 47.619 0.00 0.00 0.00 3.06
685 691 2.308570 TCAGTAATGTGCCCCTGTGATT 59.691 45.455 0.00 0.00 0.00 2.57
686 692 2.684881 CAGTAATGTGCCCCTGTGATTC 59.315 50.000 0.00 0.00 0.00 2.52
689 695 0.700564 ATGTGCCCCTGTGATTCAGT 59.299 50.000 0.00 0.00 42.19 3.41
690 696 1.357137 TGTGCCCCTGTGATTCAGTA 58.643 50.000 0.00 0.00 42.19 2.74
691 697 1.702401 TGTGCCCCTGTGATTCAGTAA 59.298 47.619 0.00 0.00 42.19 2.24
750 1166 5.782845 AGTTTTCTCTTAGTCTCCTCCACAT 59.217 40.000 0.00 0.00 0.00 3.21
756 1172 5.309638 TCTTAGTCTCCTCCACATAGATCG 58.690 45.833 0.00 0.00 0.00 3.69
784 1200 0.893270 TTGCCCGGTCAAGGTGAATG 60.893 55.000 0.00 0.00 0.00 2.67
899 1315 7.796054 ACATGACAGGACAAGTTATAATAGCT 58.204 34.615 0.00 0.00 0.00 3.32
927 3334 5.122239 CCAAAGATTTCGTATCTTGAGTGCA 59.878 40.000 13.57 0.00 38.29 4.57
954 3367 2.314323 AGCATCGTATGTGCACATCA 57.686 45.000 34.54 20.15 44.87 3.07
955 3368 2.631267 AGCATCGTATGTGCACATCAA 58.369 42.857 34.54 20.99 44.87 2.57
956 3369 2.610833 AGCATCGTATGTGCACATCAAG 59.389 45.455 34.54 24.73 44.87 3.02
957 3370 2.609002 GCATCGTATGTGCACATCAAGA 59.391 45.455 34.54 28.41 42.08 3.02
958 3371 3.249320 GCATCGTATGTGCACATCAAGAT 59.751 43.478 34.54 29.15 42.08 2.40
959 3372 4.260907 GCATCGTATGTGCACATCAAGATT 60.261 41.667 34.54 13.80 42.08 2.40
960 3373 4.863152 TCGTATGTGCACATCAAGATTG 57.137 40.909 34.54 16.99 37.76 2.67
1024 3437 2.278854 GCAGATCTTCCACTCAAGCTC 58.721 52.381 0.00 0.00 0.00 4.09
1035 3448 1.163554 CTCAAGCTCACCCTTGCTTC 58.836 55.000 0.00 0.00 46.29 3.86
1044 3457 2.338015 CCCTTGCTTCGCTGTGCAT 61.338 57.895 0.00 0.00 39.07 3.96
1535 3975 0.610174 CCTGAGAACCAGCTAGCACA 59.390 55.000 18.83 4.43 41.57 4.57
1555 3995 3.309682 ACATGTTGCATGCGTCTATGTAC 59.690 43.478 20.78 7.92 0.00 2.90
1556 3996 3.245518 TGTTGCATGCGTCTATGTACT 57.754 42.857 14.09 0.00 0.00 2.73
1557 3997 3.595173 TGTTGCATGCGTCTATGTACTT 58.405 40.909 14.09 0.00 0.00 2.24
1558 3998 4.749976 TGTTGCATGCGTCTATGTACTTA 58.250 39.130 14.09 0.00 0.00 2.24
1602 4042 7.688372 AGATGCTGTGACAACGAATAAAATAG 58.312 34.615 0.00 0.00 0.00 1.73
1723 4166 6.999272 ACTCCTACTTTCCTTTTCCTTTTCTC 59.001 38.462 0.00 0.00 0.00 2.87
1728 4171 6.299922 ACTTTCCTTTTCCTTTTCTCGATCT 58.700 36.000 0.00 0.00 0.00 2.75
1729 4172 6.428465 ACTTTCCTTTTCCTTTTCTCGATCTC 59.572 38.462 0.00 0.00 0.00 2.75
1730 4173 5.483685 TCCTTTTCCTTTTCTCGATCTCA 57.516 39.130 0.00 0.00 0.00 3.27
1731 4174 5.865085 TCCTTTTCCTTTTCTCGATCTCAA 58.135 37.500 0.00 0.00 0.00 3.02
1733 4176 6.595716 TCCTTTTCCTTTTCTCGATCTCAATC 59.404 38.462 0.00 0.00 0.00 2.67
1735 4178 5.420725 TTCCTTTTCTCGATCTCAATCCA 57.579 39.130 0.00 0.00 0.00 3.41
1778 5321 4.006319 GCAAGAGGAGCACTTGTTAATCT 58.994 43.478 0.00 0.00 44.25 2.40
1779 5322 4.457257 GCAAGAGGAGCACTTGTTAATCTT 59.543 41.667 0.00 0.00 44.25 2.40
1780 5323 5.391416 GCAAGAGGAGCACTTGTTAATCTTC 60.391 44.000 0.00 0.00 44.25 2.87
1781 5324 4.837972 AGAGGAGCACTTGTTAATCTTCC 58.162 43.478 0.00 0.00 0.00 3.46
1782 5325 4.534103 AGAGGAGCACTTGTTAATCTTCCT 59.466 41.667 0.00 0.00 0.00 3.36
1783 5326 5.721960 AGAGGAGCACTTGTTAATCTTCCTA 59.278 40.000 0.00 0.00 0.00 2.94
1784 5327 6.213600 AGAGGAGCACTTGTTAATCTTCCTAA 59.786 38.462 0.00 0.00 0.00 2.69
1785 5328 6.779860 AGGAGCACTTGTTAATCTTCCTAAA 58.220 36.000 0.00 0.00 0.00 1.85
1786 5329 7.231467 AGGAGCACTTGTTAATCTTCCTAAAA 58.769 34.615 0.00 0.00 0.00 1.52
1787 5330 7.724061 AGGAGCACTTGTTAATCTTCCTAAAAA 59.276 33.333 0.00 0.00 0.00 1.94
1913 5461 3.731652 TTCAAGGAAACAATGCACCTG 57.268 42.857 0.00 0.00 32.73 4.00
1914 5462 1.340889 TCAAGGAAACAATGCACCTGC 59.659 47.619 0.00 0.00 42.50 4.85
1990 5538 6.072175 CCCATATTTGAGGTGAAAAAGTTCGA 60.072 38.462 0.00 0.00 36.46 3.71
2070 5618 7.173907 TCAAAAATGACCTTTTCTTGCAAAACA 59.826 29.630 0.00 0.00 36.01 2.83
2072 5620 6.607735 AATGACCTTTTCTTGCAAAACATG 57.392 33.333 0.00 0.00 0.00 3.21
2115 5663 2.660064 CCGGGGGTGTTCTCAGGAG 61.660 68.421 0.00 0.00 0.00 3.69
2185 5734 3.047280 CCGGCAAGTTAGCACGCA 61.047 61.111 0.00 0.00 35.83 5.24
2188 5737 0.026285 CGGCAAGTTAGCACGCATAC 59.974 55.000 0.00 0.00 35.83 2.39
2226 5775 1.353076 GACCCGACACGTGGTTAATC 58.647 55.000 21.57 6.77 32.44 1.75
2227 5776 0.680618 ACCCGACACGTGGTTAATCA 59.319 50.000 21.57 0.00 29.08 2.57
2239 5788 2.243810 GGTTAATCAGGTGTTGCCCAA 58.756 47.619 0.00 0.00 38.26 4.12
2292 5841 4.794648 GGCTGGGCATGCGTACCA 62.795 66.667 12.44 12.65 0.00 3.25
2305 5854 1.301401 GTACCAGCACGGCAAGACA 60.301 57.895 0.00 0.00 39.03 3.41
2306 5855 0.673644 GTACCAGCACGGCAAGACAT 60.674 55.000 0.00 0.00 39.03 3.06
2313 5862 3.127548 CAGCACGGCAAGACATAAATTCT 59.872 43.478 0.00 0.00 0.00 2.40
2314 5863 3.758554 AGCACGGCAAGACATAAATTCTT 59.241 39.130 0.00 0.00 33.38 2.52
2315 5864 4.941263 AGCACGGCAAGACATAAATTCTTA 59.059 37.500 0.00 0.00 31.86 2.10
2316 5865 5.590259 AGCACGGCAAGACATAAATTCTTAT 59.410 36.000 0.00 0.00 31.86 1.73
2317 5866 6.095440 AGCACGGCAAGACATAAATTCTTATT 59.905 34.615 0.00 0.00 31.86 1.40
2318 5867 6.751888 GCACGGCAAGACATAAATTCTTATTT 59.248 34.615 0.00 0.00 37.68 1.40
2319 5868 7.253750 GCACGGCAAGACATAAATTCTTATTTG 60.254 37.037 0.00 0.00 35.61 2.32
2320 5869 7.754924 CACGGCAAGACATAAATTCTTATTTGT 59.245 33.333 0.00 0.00 35.61 2.83
2321 5870 7.968405 ACGGCAAGACATAAATTCTTATTTGTC 59.032 33.333 0.00 0.00 35.61 3.18
2322 5871 7.164171 CGGCAAGACATAAATTCTTATTTGTCG 59.836 37.037 0.00 0.00 35.88 4.35
2323 5872 7.044052 GGCAAGACATAAATTCTTATTTGTCGC 60.044 37.037 0.00 0.00 34.39 5.19
2324 5873 7.698130 GCAAGACATAAATTCTTATTTGTCGCT 59.302 33.333 0.00 0.00 34.39 4.93
2325 5874 9.214953 CAAGACATAAATTCTTATTTGTCGCTC 57.785 33.333 0.00 0.00 34.39 5.03
2326 5875 7.621991 AGACATAAATTCTTATTTGTCGCTCG 58.378 34.615 0.00 0.00 34.39 5.03
2327 5876 7.277981 AGACATAAATTCTTATTTGTCGCTCGT 59.722 33.333 0.00 0.00 34.39 4.18
2328 5877 7.748847 ACATAAATTCTTATTTGTCGCTCGTT 58.251 30.769 0.00 0.00 35.61 3.85
2329 5878 7.692291 ACATAAATTCTTATTTGTCGCTCGTTG 59.308 33.333 0.00 0.00 35.61 4.10
2330 5879 3.449322 TTCTTATTTGTCGCTCGTTGC 57.551 42.857 0.00 0.00 38.57 4.17
2332 5881 9.909299 TAAATTCTTATTTGTCGCTCGTTGCGG 62.909 40.741 20.71 6.74 46.97 5.69
2339 5888 2.778679 GCTCGTTGCGGCAAGTAG 59.221 61.111 16.97 16.46 0.00 2.57
2340 5889 2.027625 GCTCGTTGCGGCAAGTAGT 61.028 57.895 16.97 0.00 0.00 2.73
2341 5890 1.956620 GCTCGTTGCGGCAAGTAGTC 61.957 60.000 16.97 2.79 0.00 2.59
2342 5891 0.666274 CTCGTTGCGGCAAGTAGTCA 60.666 55.000 16.97 0.00 0.00 3.41
2343 5892 0.666274 TCGTTGCGGCAAGTAGTCAG 60.666 55.000 16.97 2.33 0.00 3.51
2344 5893 1.626654 CGTTGCGGCAAGTAGTCAGG 61.627 60.000 16.97 0.00 0.00 3.86
2345 5894 1.003839 TTGCGGCAAGTAGTCAGGG 60.004 57.895 12.11 0.00 0.00 4.45
2346 5895 1.476845 TTGCGGCAAGTAGTCAGGGA 61.477 55.000 12.11 0.00 0.00 4.20
2347 5896 1.295423 GCGGCAAGTAGTCAGGGAA 59.705 57.895 0.00 0.00 0.00 3.97
2348 5897 0.321298 GCGGCAAGTAGTCAGGGAAA 60.321 55.000 0.00 0.00 0.00 3.13
2349 5898 1.439679 CGGCAAGTAGTCAGGGAAAC 58.560 55.000 0.00 0.00 0.00 2.78
2350 5899 1.439679 GGCAAGTAGTCAGGGAAACG 58.560 55.000 0.00 0.00 0.00 3.60
2351 5900 0.796927 GCAAGTAGTCAGGGAAACGC 59.203 55.000 0.00 0.00 0.00 4.84
2352 5901 1.876416 GCAAGTAGTCAGGGAAACGCA 60.876 52.381 0.00 0.00 0.00 5.24
2353 5902 1.798813 CAAGTAGTCAGGGAAACGCAC 59.201 52.381 0.00 0.00 0.00 5.34
2354 5903 1.045407 AGTAGTCAGGGAAACGCACA 58.955 50.000 0.00 0.00 0.00 4.57
2355 5904 1.000955 AGTAGTCAGGGAAACGCACAG 59.999 52.381 0.00 0.00 0.00 3.66
2356 5905 0.320374 TAGTCAGGGAAACGCACAGG 59.680 55.000 0.00 0.00 0.00 4.00
2357 5906 1.966451 GTCAGGGAAACGCACAGGG 60.966 63.158 0.00 0.00 0.00 4.45
2358 5907 2.672996 CAGGGAAACGCACAGGGG 60.673 66.667 0.00 0.00 0.00 4.79
2359 5908 4.660938 AGGGAAACGCACAGGGGC 62.661 66.667 0.00 0.00 0.00 5.80
2360 5909 4.966787 GGGAAACGCACAGGGGCA 62.967 66.667 0.00 0.00 0.00 5.36
2361 5910 3.365265 GGAAACGCACAGGGGCAG 61.365 66.667 0.00 0.00 0.00 4.85
2362 5911 2.594592 GAAACGCACAGGGGCAGT 60.595 61.111 0.00 0.00 0.00 4.40
2363 5912 2.123897 AAACGCACAGGGGCAGTT 60.124 55.556 0.00 0.00 33.98 3.16
2364 5913 2.130073 GAAACGCACAGGGGCAGTTC 62.130 60.000 4.70 0.00 32.35 3.01
2365 5914 4.988598 ACGCACAGGGGCAGTTCG 62.989 66.667 0.00 0.00 0.00 3.95
2366 5915 4.680237 CGCACAGGGGCAGTTCGA 62.680 66.667 0.00 0.00 0.00 3.71
2367 5916 3.050275 GCACAGGGGCAGTTCGAC 61.050 66.667 0.00 0.00 0.00 4.20
2368 5917 2.738521 CACAGGGGCAGTTCGACG 60.739 66.667 0.00 0.00 0.00 5.12
2369 5918 2.915659 ACAGGGGCAGTTCGACGA 60.916 61.111 0.00 0.00 0.00 4.20
2370 5919 2.125912 CAGGGGCAGTTCGACGAG 60.126 66.667 0.00 0.00 0.00 4.18
2371 5920 4.070552 AGGGGCAGTTCGACGAGC 62.071 66.667 3.18 3.18 0.00 5.03
2372 5921 4.373116 GGGGCAGTTCGACGAGCA 62.373 66.667 14.32 0.00 0.00 4.26
2373 5922 2.125512 GGGCAGTTCGACGAGCAT 60.126 61.111 14.32 0.00 0.00 3.79
2374 5923 1.741770 GGGCAGTTCGACGAGCATT 60.742 57.895 14.32 0.00 0.00 3.56
2375 5924 1.696832 GGGCAGTTCGACGAGCATTC 61.697 60.000 14.32 2.39 0.00 2.67
2376 5925 0.737715 GGCAGTTCGACGAGCATTCT 60.738 55.000 14.32 0.00 0.00 2.40
2377 5926 0.368227 GCAGTTCGACGAGCATTCTG 59.632 55.000 14.32 11.55 0.00 3.02
2378 5927 1.982612 CAGTTCGACGAGCATTCTGA 58.017 50.000 14.32 0.00 0.00 3.27
2379 5928 2.534298 CAGTTCGACGAGCATTCTGAT 58.466 47.619 14.32 0.00 0.00 2.90
2380 5929 2.280971 CAGTTCGACGAGCATTCTGATG 59.719 50.000 14.32 0.00 36.32 3.07
2381 5930 1.590238 GTTCGACGAGCATTCTGATGG 59.410 52.381 6.84 0.00 33.72 3.51
2382 5931 0.103026 TCGACGAGCATTCTGATGGG 59.897 55.000 0.00 0.00 33.72 4.00
2383 5932 1.493950 CGACGAGCATTCTGATGGGC 61.494 60.000 0.00 0.00 33.72 5.36
2384 5933 1.153086 ACGAGCATTCTGATGGGCC 60.153 57.895 0.00 0.00 33.72 5.80
2385 5934 2.249535 CGAGCATTCTGATGGGCCG 61.250 63.158 0.00 0.00 33.72 6.13
2386 5935 1.146930 GAGCATTCTGATGGGCCGA 59.853 57.895 0.00 0.00 33.72 5.54
2387 5936 1.153086 AGCATTCTGATGGGCCGAC 60.153 57.895 0.00 0.00 33.72 4.79
2388 5937 2.189499 GCATTCTGATGGGCCGACC 61.189 63.158 0.00 0.00 40.81 4.79
2410 5959 4.340446 CGTTCAAACGTTTGAGCAATTC 57.660 40.909 38.89 25.32 46.68 2.17
2411 5960 3.179599 CGTTCAAACGTTTGAGCAATTCC 59.820 43.478 38.89 23.07 46.68 3.01
2412 5961 4.109050 GTTCAAACGTTTGAGCAATTCCA 58.891 39.130 37.29 22.59 46.68 3.53
2413 5962 3.963665 TCAAACGTTTGAGCAATTCCAG 58.036 40.909 33.86 9.56 41.88 3.86
2414 5963 3.380004 TCAAACGTTTGAGCAATTCCAGT 59.620 39.130 33.86 0.00 41.88 4.00
2415 5964 4.111916 CAAACGTTTGAGCAATTCCAGTT 58.888 39.130 32.36 0.00 40.55 3.16
2416 5965 4.385358 AACGTTTGAGCAATTCCAGTTT 57.615 36.364 0.00 0.00 0.00 2.66
2417 5966 4.385358 ACGTTTGAGCAATTCCAGTTTT 57.615 36.364 0.00 0.00 0.00 2.43
2418 5967 4.111916 ACGTTTGAGCAATTCCAGTTTTG 58.888 39.130 0.00 0.00 0.00 2.44
2419 5968 3.490526 CGTTTGAGCAATTCCAGTTTTGG 59.509 43.478 0.00 0.00 46.49 3.28
2420 5969 3.749665 TTGAGCAATTCCAGTTTTGGG 57.250 42.857 0.00 0.00 45.10 4.12
2421 5970 2.956132 TGAGCAATTCCAGTTTTGGGA 58.044 42.857 0.00 0.00 45.10 4.37
2431 5980 5.179452 TCCAGTTTTGGGAATCTTCTAGG 57.821 43.478 0.00 0.00 45.10 3.02
2432 5981 4.601857 TCCAGTTTTGGGAATCTTCTAGGT 59.398 41.667 0.00 0.00 45.10 3.08
2433 5982 4.702131 CCAGTTTTGGGAATCTTCTAGGTG 59.298 45.833 0.00 0.00 41.05 4.00
2434 5983 4.702131 CAGTTTTGGGAATCTTCTAGGTGG 59.298 45.833 0.00 0.00 0.00 4.61
2435 5984 4.354087 AGTTTTGGGAATCTTCTAGGTGGT 59.646 41.667 0.00 0.00 0.00 4.16
2436 5985 5.077564 GTTTTGGGAATCTTCTAGGTGGTT 58.922 41.667 0.00 0.00 0.00 3.67
2437 5986 4.569719 TTGGGAATCTTCTAGGTGGTTC 57.430 45.455 0.00 0.00 0.00 3.62
2438 5987 2.844348 TGGGAATCTTCTAGGTGGTTCC 59.156 50.000 15.25 15.25 35.52 3.62
2439 5988 2.172930 GGGAATCTTCTAGGTGGTTCCC 59.827 54.545 22.38 22.38 45.51 3.97
2440 5989 2.844348 GGAATCTTCTAGGTGGTTCCCA 59.156 50.000 13.55 0.00 36.75 4.37
2441 5990 3.118223 GGAATCTTCTAGGTGGTTCCCAG 60.118 52.174 13.55 0.00 32.34 4.45
2450 5999 2.223537 GTGGTTCCCAGCTGTTTTTG 57.776 50.000 13.81 0.00 32.34 2.44
2451 6000 1.480545 GTGGTTCCCAGCTGTTTTTGT 59.519 47.619 13.81 0.00 32.34 2.83
2452 6001 2.093711 GTGGTTCCCAGCTGTTTTTGTT 60.094 45.455 13.81 0.00 32.34 2.83
2453 6002 2.569404 TGGTTCCCAGCTGTTTTTGTTT 59.431 40.909 13.81 0.00 0.00 2.83
2454 6003 3.194861 GGTTCCCAGCTGTTTTTGTTTC 58.805 45.455 13.81 0.00 0.00 2.78
2455 6004 3.118775 GGTTCCCAGCTGTTTTTGTTTCT 60.119 43.478 13.81 0.00 0.00 2.52
2456 6005 3.799281 TCCCAGCTGTTTTTGTTTCTG 57.201 42.857 13.81 0.00 0.00 3.02
2457 6006 2.430332 TCCCAGCTGTTTTTGTTTCTGG 59.570 45.455 13.81 1.79 40.43 3.86
2458 6007 2.168313 CCCAGCTGTTTTTGTTTCTGGT 59.832 45.455 13.81 0.00 39.42 4.00
2459 6008 3.369366 CCCAGCTGTTTTTGTTTCTGGTT 60.369 43.478 13.81 0.00 39.42 3.67
2460 6009 4.252878 CCAGCTGTTTTTGTTTCTGGTTT 58.747 39.130 13.81 0.00 37.05 3.27
2461 6010 4.694982 CCAGCTGTTTTTGTTTCTGGTTTT 59.305 37.500 13.81 0.00 37.05 2.43
2462 6011 5.390779 CCAGCTGTTTTTGTTTCTGGTTTTG 60.391 40.000 13.81 0.00 37.05 2.44
2463 6012 4.694982 AGCTGTTTTTGTTTCTGGTTTTGG 59.305 37.500 0.00 0.00 0.00 3.28
2464 6013 4.142708 GCTGTTTTTGTTTCTGGTTTTGGG 60.143 41.667 0.00 0.00 0.00 4.12
2465 6014 5.228945 TGTTTTTGTTTCTGGTTTTGGGA 57.771 34.783 0.00 0.00 0.00 4.37
2466 6015 5.621193 TGTTTTTGTTTCTGGTTTTGGGAA 58.379 33.333 0.00 0.00 0.00 3.97
2467 6016 5.470437 TGTTTTTGTTTCTGGTTTTGGGAAC 59.530 36.000 0.00 0.00 0.00 3.62
2487 6036 6.729391 GAACCTTCTAGAATGTTCCTGAAC 57.271 41.667 29.19 13.77 38.88 3.18
2488 6037 5.167303 ACCTTCTAGAATGTTCCTGAACC 57.833 43.478 5.44 0.00 40.46 3.62
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
13 14 1.596496 TCCAGATCCCCTTCCTTTCC 58.404 55.000 0.00 0.00 0.00 3.13
67 68 0.172578 TCCACATAGAACTGTCGCCG 59.827 55.000 0.00 0.00 0.00 6.46
72 73 2.427453 CCGTAGCTCCACATAGAACTGT 59.573 50.000 0.00 0.00 0.00 3.55
102 103 0.674895 GATGTTGAAGACCGGCAGCT 60.675 55.000 0.00 0.00 0.00 4.24
117 118 0.959553 AAGAGGTGACGACACGATGT 59.040 50.000 11.73 0.00 46.77 3.06
143 144 1.067846 GGAACAAAATGGCCGTCCTTC 60.068 52.381 0.00 0.00 0.00 3.46
148 149 0.898326 GGGAGGAACAAAATGGCCGT 60.898 55.000 0.00 0.00 0.00 5.68
178 179 1.500474 TGAGACTGCCTCCCTTATGG 58.500 55.000 0.00 0.00 41.25 2.74
190 191 0.248825 CCGAGCGGAAGATGAGACTG 60.249 60.000 2.00 0.00 37.50 3.51
222 223 0.601311 ACCTTCACAGCAGCGAGAAC 60.601 55.000 0.00 0.00 0.00 3.01
228 229 1.576421 CCGAAACCTTCACAGCAGC 59.424 57.895 0.00 0.00 0.00 5.25
231 232 2.171489 GACGCCGAAACCTTCACAGC 62.171 60.000 0.00 0.00 0.00 4.40
248 249 4.321230 GGAACAAATCACATCACTTGGGAC 60.321 45.833 0.00 0.00 41.66 4.46
260 261 1.500396 GTCGCCGGGAACAAATCAC 59.500 57.895 2.18 0.00 0.00 3.06
261 262 2.030401 CGTCGCCGGGAACAAATCA 61.030 57.895 2.18 0.00 0.00 2.57
325 326 2.554564 GGACCCCAAACTGGAAAGTAGG 60.555 54.545 0.00 0.00 40.96 3.18
343 344 6.056236 AGTTCCTGACTTTTACAAGAAGGAC 58.944 40.000 13.78 10.61 41.83 3.85
413 414 6.816640 AGCTTCATTAGTATTCAGCGTTACAA 59.183 34.615 0.00 0.00 32.31 2.41
415 416 6.830114 AGCTTCATTAGTATTCAGCGTTAC 57.170 37.500 0.00 0.00 32.31 2.50
431 432 4.080638 CCTGAAGGACCTAGAAAGCTTCAT 60.081 45.833 0.00 0.00 37.39 2.57
545 551 3.567576 CATAGAGAGCCTATGTGACCG 57.432 52.381 0.00 0.00 46.11 4.79
633 639 4.410492 CAGCAACCTGTGTTACTGAATC 57.590 45.455 0.37 0.00 45.09 2.52
648 654 1.396996 ACTGAAACGTGTCACAGCAAC 59.603 47.619 3.71 0.00 34.25 4.17
679 685 3.192844 GTCTCGAGGGTTACTGAATCACA 59.807 47.826 13.56 0.00 0.00 3.58
684 690 3.150458 TGAGTCTCGAGGGTTACTGAA 57.850 47.619 13.56 0.00 0.00 3.02
685 691 2.873094 TGAGTCTCGAGGGTTACTGA 57.127 50.000 13.56 0.00 0.00 3.41
686 692 3.082548 TCTTGAGTCTCGAGGGTTACTG 58.917 50.000 13.56 0.00 0.00 2.74
689 695 5.113446 AGTATCTTGAGTCTCGAGGGTTA 57.887 43.478 13.56 4.76 0.00 2.85
690 696 3.949113 GAGTATCTTGAGTCTCGAGGGTT 59.051 47.826 13.56 0.00 0.00 4.11
691 697 3.547746 GAGTATCTTGAGTCTCGAGGGT 58.452 50.000 13.56 8.66 0.00 4.34
735 1151 5.306114 TCGATCTATGTGGAGGAGACTAA 57.694 43.478 0.00 0.00 44.43 2.24
750 1166 1.202486 GGGCAATGTCGGTTCGATCTA 60.202 52.381 0.00 0.00 38.42 1.98
784 1200 2.622942 TGGCAGGTTGACTTCAAATCAC 59.377 45.455 0.00 0.00 37.63 3.06
866 1282 5.005740 ACTTGTCCTGTCATGTACGTAGTA 58.994 41.667 0.00 0.00 45.11 1.82
868 1284 4.436242 ACTTGTCCTGTCATGTACGTAG 57.564 45.455 0.00 0.00 0.00 3.51
869 1285 4.859304 AACTTGTCCTGTCATGTACGTA 57.141 40.909 0.00 0.00 0.00 3.57
870 1286 3.746045 AACTTGTCCTGTCATGTACGT 57.254 42.857 0.00 0.00 0.00 3.57
871 1287 9.181805 CTATTATAACTTGTCCTGTCATGTACG 57.818 37.037 0.00 0.00 0.00 3.67
872 1288 8.979574 GCTATTATAACTTGTCCTGTCATGTAC 58.020 37.037 0.00 0.00 0.00 2.90
899 1315 9.529325 CACTCAAGATACGAAATCTTTGGTATA 57.471 33.333 12.89 0.00 40.57 1.47
927 3334 8.722480 ATGTGCACATACGATGCTATTTATAT 57.278 30.769 30.50 0.32 43.77 0.86
954 3367 4.338012 TGACATGTGATGGCTTCAATCTT 58.662 39.130 1.15 0.00 39.69 2.40
955 3368 3.959293 TGACATGTGATGGCTTCAATCT 58.041 40.909 1.15 0.00 39.69 2.40
956 3369 4.913335 ATGACATGTGATGGCTTCAATC 57.087 40.909 1.15 2.26 39.69 2.67
957 3370 4.098960 GGAATGACATGTGATGGCTTCAAT 59.901 41.667 1.15 0.00 39.69 2.57
958 3371 3.444742 GGAATGACATGTGATGGCTTCAA 59.555 43.478 1.15 0.00 39.69 2.69
959 3372 3.018856 GGAATGACATGTGATGGCTTCA 58.981 45.455 1.15 0.00 39.69 3.02
960 3373 2.032550 CGGAATGACATGTGATGGCTTC 59.967 50.000 1.15 0.00 39.69 3.86
1035 3448 4.596311 TGTGGACTATGCACAGCG 57.404 55.556 0.00 0.00 43.78 5.18
1044 3457 0.178301 TTGCGTTGTGGTGTGGACTA 59.822 50.000 0.00 0.00 0.00 2.59
1449 3865 1.201647 CCGAAGCAGTTCCTCTCGTTA 59.798 52.381 0.00 0.00 0.00 3.18
1535 3975 3.797039 AGTACATAGACGCATGCAACAT 58.203 40.909 19.57 2.60 0.00 2.71
1602 4042 8.050170 GCGTTACATTTGTAAGTACCGTAATAC 58.950 37.037 3.46 0.00 40.74 1.89
1609 4049 3.662863 GCGCGTTACATTTGTAAGTACC 58.337 45.455 8.43 0.00 40.74 3.34
1723 4166 2.835580 AGGAGCATGGATTGAGATCG 57.164 50.000 0.00 0.00 32.84 3.69
1748 4991 1.888512 GTGCTCCTCTTGCCAATCAAA 59.111 47.619 0.00 0.00 33.65 2.69
1786 5329 5.507315 CCGTGGATTAACAAGTGCTCTTTTT 60.507 40.000 0.00 1.71 0.00 1.94
1787 5330 4.023193 CCGTGGATTAACAAGTGCTCTTTT 60.023 41.667 0.00 0.64 0.00 2.27
1788 5331 3.502211 CCGTGGATTAACAAGTGCTCTTT 59.498 43.478 0.00 0.00 0.00 2.52
1789 5332 3.074412 CCGTGGATTAACAAGTGCTCTT 58.926 45.455 0.00 0.00 0.00 2.85
1790 5333 2.301870 TCCGTGGATTAACAAGTGCTCT 59.698 45.455 0.00 0.00 0.00 4.09
1791 5334 2.695359 TCCGTGGATTAACAAGTGCTC 58.305 47.619 0.00 0.00 0.00 4.26
1792 5335 2.851263 TCCGTGGATTAACAAGTGCT 57.149 45.000 0.00 0.00 0.00 4.40
1793 5336 5.554822 TTTATCCGTGGATTAACAAGTGC 57.445 39.130 6.72 0.00 36.17 4.40
1794 5337 7.148323 TGTCATTTATCCGTGGATTAACAAGTG 60.148 37.037 6.72 2.96 36.17 3.16
1795 5338 6.882140 TGTCATTTATCCGTGGATTAACAAGT 59.118 34.615 6.72 0.00 36.17 3.16
1796 5339 7.315247 TGTCATTTATCCGTGGATTAACAAG 57.685 36.000 6.72 0.00 36.17 3.16
1797 5340 7.689446 TTGTCATTTATCCGTGGATTAACAA 57.311 32.000 6.72 8.03 36.17 2.83
1798 5341 7.873719 ATTGTCATTTATCCGTGGATTAACA 57.126 32.000 6.72 2.74 36.17 2.41
1799 5342 8.188139 ACAATTGTCATTTATCCGTGGATTAAC 58.812 33.333 4.92 0.32 36.17 2.01
1800 5343 8.287439 ACAATTGTCATTTATCCGTGGATTAA 57.713 30.769 4.92 4.71 36.17 1.40
1801 5344 7.873719 ACAATTGTCATTTATCCGTGGATTA 57.126 32.000 4.92 0.00 36.17 1.75
1802 5345 6.773976 ACAATTGTCATTTATCCGTGGATT 57.226 33.333 4.92 0.00 36.17 3.01
1803 5346 6.377327 GACAATTGTCATTTATCCGTGGAT 57.623 37.500 29.43 6.63 44.18 3.41
1804 5347 5.811399 GACAATTGTCATTTATCCGTGGA 57.189 39.130 29.43 0.00 44.18 4.02
1919 5467 5.443185 ACCAACATTATACATGCAGATGC 57.557 39.130 0.00 0.00 42.50 3.91
1920 5468 7.495135 TGTACCAACATTATACATGCAGATG 57.505 36.000 0.00 0.00 35.49 2.90
1921 5469 9.791801 TTATGTACCAACATTATACATGCAGAT 57.208 29.630 6.41 0.00 44.07 2.90
1922 5470 9.271828 CTTATGTACCAACATTATACATGCAGA 57.728 33.333 6.41 0.00 44.07 4.26
1923 5471 8.506437 CCTTATGTACCAACATTATACATGCAG 58.494 37.037 6.41 3.25 44.07 4.41
1924 5472 8.214364 TCCTTATGTACCAACATTATACATGCA 58.786 33.333 6.41 0.00 44.07 3.96
1925 5473 8.504005 GTCCTTATGTACCAACATTATACATGC 58.496 37.037 6.41 0.00 44.07 4.06
1990 5538 8.313292 GCTAGAGATGTCCTTAATCATCTGAAT 58.687 37.037 16.93 9.26 46.92 2.57
2070 5618 4.603131 ACTAAATGTGAATGAGTGGCCAT 58.397 39.130 9.72 0.00 0.00 4.40
2072 5620 4.458989 TGAACTAAATGTGAATGAGTGGCC 59.541 41.667 0.00 0.00 0.00 5.36
2173 5722 0.461339 CGGGGTATGCGTGCTAACTT 60.461 55.000 0.00 0.00 0.00 2.66
2185 5734 2.538141 CCATCATGGGCCGGGGTAT 61.538 63.158 2.18 0.00 32.67 2.73
2208 5757 0.680618 TGATTAACCACGTGTCGGGT 59.319 50.000 15.65 1.48 39.65 5.28
2239 5788 2.347490 CCTAGGCAAGCCACGTGT 59.653 61.111 15.65 0.00 38.92 4.49
2292 5841 3.347216 AGAATTTATGTCTTGCCGTGCT 58.653 40.909 0.00 0.00 0.00 4.40
2305 5854 6.687105 GCAACGAGCGACAAATAAGAATTTAT 59.313 34.615 0.00 0.00 33.45 1.40
2306 5855 6.019152 GCAACGAGCGACAAATAAGAATTTA 58.981 36.000 0.00 0.00 33.45 1.40
2322 5871 1.956620 GACTACTTGCCGCAACGAGC 61.957 60.000 0.38 0.00 40.87 5.03
2323 5872 0.666274 TGACTACTTGCCGCAACGAG 60.666 55.000 0.38 4.93 0.00 4.18
2324 5873 0.666274 CTGACTACTTGCCGCAACGA 60.666 55.000 0.38 0.00 0.00 3.85
2325 5874 1.626654 CCTGACTACTTGCCGCAACG 61.627 60.000 0.38 1.54 0.00 4.10
2326 5875 1.298859 CCCTGACTACTTGCCGCAAC 61.299 60.000 0.38 0.00 0.00 4.17
2327 5876 1.003839 CCCTGACTACTTGCCGCAA 60.004 57.895 5.52 5.52 0.00 4.85
2328 5877 1.476845 TTCCCTGACTACTTGCCGCA 61.477 55.000 0.00 0.00 0.00 5.69
2329 5878 0.321298 TTTCCCTGACTACTTGCCGC 60.321 55.000 0.00 0.00 0.00 6.53
2330 5879 1.439679 GTTTCCCTGACTACTTGCCG 58.560 55.000 0.00 0.00 0.00 5.69
2331 5880 1.439679 CGTTTCCCTGACTACTTGCC 58.560 55.000 0.00 0.00 0.00 4.52
2332 5881 0.796927 GCGTTTCCCTGACTACTTGC 59.203 55.000 0.00 0.00 0.00 4.01
2333 5882 1.798813 GTGCGTTTCCCTGACTACTTG 59.201 52.381 0.00 0.00 0.00 3.16
2334 5883 1.414919 TGTGCGTTTCCCTGACTACTT 59.585 47.619 0.00 0.00 0.00 2.24
2335 5884 1.000955 CTGTGCGTTTCCCTGACTACT 59.999 52.381 0.00 0.00 0.00 2.57
2336 5885 1.429463 CTGTGCGTTTCCCTGACTAC 58.571 55.000 0.00 0.00 0.00 2.73
2337 5886 0.320374 CCTGTGCGTTTCCCTGACTA 59.680 55.000 0.00 0.00 0.00 2.59
2338 5887 1.071471 CCTGTGCGTTTCCCTGACT 59.929 57.895 0.00 0.00 0.00 3.41
2339 5888 1.966451 CCCTGTGCGTTTCCCTGAC 60.966 63.158 0.00 0.00 0.00 3.51
2340 5889 2.429930 CCCTGTGCGTTTCCCTGA 59.570 61.111 0.00 0.00 0.00 3.86
2341 5890 2.672996 CCCCTGTGCGTTTCCCTG 60.673 66.667 0.00 0.00 0.00 4.45
2342 5891 4.660938 GCCCCTGTGCGTTTCCCT 62.661 66.667 0.00 0.00 0.00 4.20
2343 5892 4.966787 TGCCCCTGTGCGTTTCCC 62.967 66.667 0.00 0.00 0.00 3.97
2344 5893 3.365265 CTGCCCCTGTGCGTTTCC 61.365 66.667 0.00 0.00 0.00 3.13
2345 5894 2.130073 GAACTGCCCCTGTGCGTTTC 62.130 60.000 0.00 0.00 31.54 2.78
2346 5895 2.123897 AACTGCCCCTGTGCGTTT 60.124 55.556 0.00 0.00 0.00 3.60
2347 5896 2.594592 GAACTGCCCCTGTGCGTT 60.595 61.111 0.00 0.00 33.14 4.84
2348 5897 4.988598 CGAACTGCCCCTGTGCGT 62.989 66.667 0.00 0.00 31.24 5.24
2349 5898 4.680237 TCGAACTGCCCCTGTGCG 62.680 66.667 0.00 0.00 36.01 5.34
2350 5899 3.050275 GTCGAACTGCCCCTGTGC 61.050 66.667 0.00 0.00 0.00 4.57
2351 5900 2.738521 CGTCGAACTGCCCCTGTG 60.739 66.667 0.00 0.00 0.00 3.66
2352 5901 2.915659 TCGTCGAACTGCCCCTGT 60.916 61.111 0.00 0.00 0.00 4.00
2353 5902 2.125912 CTCGTCGAACTGCCCCTG 60.126 66.667 0.00 0.00 0.00 4.45
2354 5903 4.070552 GCTCGTCGAACTGCCCCT 62.071 66.667 0.00 0.00 0.00 4.79
2355 5904 3.665675 ATGCTCGTCGAACTGCCCC 62.666 63.158 0.00 0.00 0.00 5.80
2356 5905 1.696832 GAATGCTCGTCGAACTGCCC 61.697 60.000 0.00 0.00 0.00 5.36
2357 5906 0.737715 AGAATGCTCGTCGAACTGCC 60.738 55.000 0.00 0.00 0.00 4.85
2358 5907 0.368227 CAGAATGCTCGTCGAACTGC 59.632 55.000 0.00 0.00 0.00 4.40
2359 5908 1.982612 TCAGAATGCTCGTCGAACTG 58.017 50.000 0.00 2.17 34.76 3.16
2360 5909 2.534298 CATCAGAATGCTCGTCGAACT 58.466 47.619 0.00 0.00 34.76 3.01
2361 5910 1.590238 CCATCAGAATGCTCGTCGAAC 59.410 52.381 0.00 0.00 34.76 3.95
2362 5911 1.471501 CCCATCAGAATGCTCGTCGAA 60.472 52.381 0.00 0.00 34.76 3.71
2363 5912 0.103026 CCCATCAGAATGCTCGTCGA 59.897 55.000 0.00 0.00 34.76 4.20
2364 5913 1.493950 GCCCATCAGAATGCTCGTCG 61.494 60.000 0.00 0.00 34.76 5.12
2365 5914 1.162800 GGCCCATCAGAATGCTCGTC 61.163 60.000 0.00 0.00 34.76 4.20
2366 5915 1.153086 GGCCCATCAGAATGCTCGT 60.153 57.895 0.00 0.00 34.76 4.18
2367 5916 2.249535 CGGCCCATCAGAATGCTCG 61.250 63.158 0.00 0.00 34.76 5.03
2368 5917 1.146930 TCGGCCCATCAGAATGCTC 59.853 57.895 0.00 0.00 34.76 4.26
2369 5918 1.153086 GTCGGCCCATCAGAATGCT 60.153 57.895 0.00 0.00 34.76 3.79
2370 5919 2.189499 GGTCGGCCCATCAGAATGC 61.189 63.158 0.00 0.00 34.76 3.56
2371 5920 4.147701 GGTCGGCCCATCAGAATG 57.852 61.111 0.00 0.00 37.54 2.67
2390 5939 4.109050 TGGAATTGCTCAAACGTTTGAAC 58.891 39.130 35.59 32.17 45.61 3.18
2391 5940 4.142271 ACTGGAATTGCTCAAACGTTTGAA 60.142 37.500 35.59 25.33 45.61 2.69
2392 5941 3.380004 ACTGGAATTGCTCAAACGTTTGA 59.620 39.130 34.56 34.56 44.31 2.69
2393 5942 3.705604 ACTGGAATTGCTCAAACGTTTG 58.294 40.909 30.63 30.63 39.48 2.93
2394 5943 4.385358 AACTGGAATTGCTCAAACGTTT 57.615 36.364 7.96 7.96 0.00 3.60
2395 5944 4.385358 AAACTGGAATTGCTCAAACGTT 57.615 36.364 0.00 0.00 0.00 3.99
2396 5945 4.111916 CAAAACTGGAATTGCTCAAACGT 58.888 39.130 0.00 0.00 0.00 3.99
2397 5946 3.490526 CCAAAACTGGAATTGCTCAAACG 59.509 43.478 0.00 0.00 0.00 3.60
2398 5947 3.809279 CCCAAAACTGGAATTGCTCAAAC 59.191 43.478 0.00 0.00 0.00 2.93
2399 5948 3.708631 TCCCAAAACTGGAATTGCTCAAA 59.291 39.130 0.00 0.00 0.00 2.69
2400 5949 3.303938 TCCCAAAACTGGAATTGCTCAA 58.696 40.909 0.00 0.00 0.00 3.02
2401 5950 2.956132 TCCCAAAACTGGAATTGCTCA 58.044 42.857 0.00 0.00 0.00 4.26
2408 5957 5.074515 ACCTAGAAGATTCCCAAAACTGGAA 59.925 40.000 0.00 0.00 45.50 3.53
2409 5958 4.601857 ACCTAGAAGATTCCCAAAACTGGA 59.398 41.667 0.00 0.00 0.00 3.86
2410 5959 4.702131 CACCTAGAAGATTCCCAAAACTGG 59.298 45.833 0.00 0.00 0.00 4.00
2411 5960 4.702131 CCACCTAGAAGATTCCCAAAACTG 59.298 45.833 0.00 0.00 0.00 3.16
2412 5961 4.354087 ACCACCTAGAAGATTCCCAAAACT 59.646 41.667 0.00 0.00 0.00 2.66
2413 5962 4.663334 ACCACCTAGAAGATTCCCAAAAC 58.337 43.478 0.00 0.00 0.00 2.43
2414 5963 5.321927 GAACCACCTAGAAGATTCCCAAAA 58.678 41.667 0.00 0.00 0.00 2.44
2415 5964 4.263771 GGAACCACCTAGAAGATTCCCAAA 60.264 45.833 0.00 0.00 35.41 3.28
2416 5965 3.265995 GGAACCACCTAGAAGATTCCCAA 59.734 47.826 0.00 0.00 35.41 4.12
2417 5966 2.844348 GGAACCACCTAGAAGATTCCCA 59.156 50.000 0.00 0.00 35.41 4.37
2418 5967 3.562343 GGAACCACCTAGAAGATTCCC 57.438 52.381 0.00 0.00 35.41 3.97
2434 5983 3.865164 CAGAAACAAAAACAGCTGGGAAC 59.135 43.478 19.93 0.00 0.00 3.62
2435 5984 3.118811 CCAGAAACAAAAACAGCTGGGAA 60.119 43.478 19.93 0.00 39.30 3.97
2436 5985 2.430332 CCAGAAACAAAAACAGCTGGGA 59.570 45.455 19.93 0.00 39.30 4.37
2437 5986 2.168313 ACCAGAAACAAAAACAGCTGGG 59.832 45.455 19.93 7.17 45.42 4.45
2438 5987 3.525268 ACCAGAAACAAAAACAGCTGG 57.475 42.857 19.93 0.00 46.30 4.85
2439 5988 5.390779 CCAAAACCAGAAACAAAAACAGCTG 60.391 40.000 13.48 13.48 0.00 4.24
2440 5989 4.694982 CCAAAACCAGAAACAAAAACAGCT 59.305 37.500 0.00 0.00 0.00 4.24
2441 5990 4.142708 CCCAAAACCAGAAACAAAAACAGC 60.143 41.667 0.00 0.00 0.00 4.40
2442 5991 5.241662 TCCCAAAACCAGAAACAAAAACAG 58.758 37.500 0.00 0.00 0.00 3.16
2443 5992 5.228945 TCCCAAAACCAGAAACAAAAACA 57.771 34.783 0.00 0.00 0.00 2.83
2444 5993 5.106475 GGTTCCCAAAACCAGAAACAAAAAC 60.106 40.000 2.12 0.00 40.03 2.43
2445 5994 5.004448 GGTTCCCAAAACCAGAAACAAAAA 58.996 37.500 2.12 0.00 40.03 1.94
2446 5995 4.287326 AGGTTCCCAAAACCAGAAACAAAA 59.713 37.500 9.45 0.00 42.69 2.44
2447 5996 3.841255 AGGTTCCCAAAACCAGAAACAAA 59.159 39.130 9.45 0.00 42.69 2.83
2448 5997 3.445987 AGGTTCCCAAAACCAGAAACAA 58.554 40.909 9.45 0.00 42.69 2.83
2449 5998 3.108847 AGGTTCCCAAAACCAGAAACA 57.891 42.857 9.45 0.00 42.69 2.83
2450 5999 3.704566 AGAAGGTTCCCAAAACCAGAAAC 59.295 43.478 9.45 0.00 42.69 2.78
2451 6000 3.989056 AGAAGGTTCCCAAAACCAGAAA 58.011 40.909 9.45 0.00 42.69 2.52
2452 6001 3.680777 AGAAGGTTCCCAAAACCAGAA 57.319 42.857 9.45 0.00 42.69 3.02
2453 6002 3.977999 TCTAGAAGGTTCCCAAAACCAGA 59.022 43.478 9.45 1.05 42.69 3.86
2454 6003 4.367039 TCTAGAAGGTTCCCAAAACCAG 57.633 45.455 9.45 0.00 42.69 4.00
2455 6004 4.799715 TTCTAGAAGGTTCCCAAAACCA 57.200 40.909 0.00 0.00 42.69 3.67
2456 6005 5.077564 ACATTCTAGAAGGTTCCCAAAACC 58.922 41.667 16.72 0.00 40.58 3.27
2457 6006 6.650427 AACATTCTAGAAGGTTCCCAAAAC 57.350 37.500 25.58 0.00 40.75 2.43
2465 6014 5.561679 GGTTCAGGAACATTCTAGAAGGTT 58.438 41.667 29.86 29.86 46.30 3.50
2466 6015 5.167303 GGTTCAGGAACATTCTAGAAGGT 57.833 43.478 16.72 16.72 42.85 3.50


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

AutoCloner maintained by Alex Coulton.