Multiple sequence alignment - TraesCS6B01G050300

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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 TraesCS6B01G050300 chr6B 100.000 5523 0 0 1 5523 29855449 29860971 0.000000e+00 10200.0
1 TraesCS6B01G050300 chr6B 99.656 2035 7 0 2321 4355 29927405 29929439 0.000000e+00 3720.0
2 TraesCS6B01G050300 chr6B 86.924 2929 256 69 797 3690 29932266 29929430 0.000000e+00 3169.0
3 TraesCS6B01G050300 chr6B 92.721 1525 97 9 755 2274 29920337 29921852 0.000000e+00 2189.0
4 TraesCS6B01G050300 chr6B 81.881 1893 272 44 3120 4983 29969784 29967934 0.000000e+00 1530.0
5 TraesCS6B01G050300 chr6B 90.559 519 45 3 1239 1753 29989677 29989159 0.000000e+00 684.0
6 TraesCS6B01G050300 chr6B 80.472 763 91 37 1866 2622 29983788 29983078 1.050000e-146 531.0
7 TraesCS6B01G050300 chr6B 95.238 252 11 1 5272 5523 624147620 624147870 1.110000e-106 398.0
8 TraesCS6B01G050300 chr6B 90.283 247 14 3 519 761 29920052 29920292 1.150000e-81 315.0
9 TraesCS6B01G050300 chr6B 80.916 393 47 19 797 1181 29946913 29946541 9.060000e-73 285.0
10 TraesCS6B01G050300 chr6B 81.006 358 52 10 2788 3133 29974320 29973967 2.540000e-68 270.0
11 TraesCS6B01G050300 chr6B 89.474 209 19 3 1 208 29919660 29919866 1.530000e-65 261.0
12 TraesCS6B01G050300 chr6B 81.301 246 27 7 517 748 29932607 29932367 1.220000e-41 182.0
13 TraesCS6B01G050300 chr6B 93.000 100 7 0 2054 2153 29755574 29755475 4.460000e-31 147.0
14 TraesCS6B01G050300 chr6B 81.000 200 25 6 1 196 29949170 29948980 4.460000e-31 147.0
15 TraesCS6B01G050300 chr6B 79.874 159 10 10 574 720 29990347 29990199 4.550000e-16 97.1
16 TraesCS6B01G050300 chr6A 90.738 4945 331 59 194 5093 17645913 17650775 0.000000e+00 6477.0
17 TraesCS6B01G050300 chr6A 81.744 4519 573 145 517 4908 17658604 17654211 0.000000e+00 3542.0
18 TraesCS6B01G050300 chr6A 88.384 198 21 2 1 198 17645047 17645242 2.570000e-58 237.0
19 TraesCS6B01G050300 chr6D 87.352 2878 303 38 2251 5079 16941777 16944642 0.000000e+00 3241.0
20 TraesCS6B01G050300 chr6D 81.607 3224 432 93 1821 4983 16964963 16961840 0.000000e+00 2519.0
21 TraesCS6B01G050300 chr6D 86.504 1393 123 24 772 2146 16940375 16941720 0.000000e+00 1471.0
22 TraesCS6B01G050300 chr6D 92.031 778 52 6 1 776 16939273 16940042 0.000000e+00 1085.0
23 TraesCS6B01G050300 chr6D 85.756 1025 104 27 759 1764 16965987 16964986 0.000000e+00 1046.0
24 TraesCS6B01G050300 chr6D 77.574 272 30 9 1 268 16966736 16966492 9.650000e-28 135.0
25 TraesCS6B01G050300 chr2D 73.629 2279 471 82 2351 4540 15517212 15514975 0.000000e+00 760.0
26 TraesCS6B01G050300 chr2D 74.374 1557 334 48 2858 4376 15506824 15505295 6.120000e-169 604.0
27 TraesCS6B01G050300 chr2D 85.714 539 76 1 1213 1751 15518318 15517781 8.030000e-158 568.0
28 TraesCS6B01G050300 chr2D 73.991 1511 330 41 2858 4332 15472517 15471034 6.250000e-154 555.0
29 TraesCS6B01G050300 chr2D 84.544 537 81 2 1213 1748 15508242 15507707 1.050000e-146 531.0
30 TraesCS6B01G050300 chr2D 92.917 240 15 1 5284 5523 36061019 36060782 1.140000e-91 348.0
31 TraesCS6B01G050300 chr2D 75.929 673 95 45 466 1104 15501893 15501254 3.260000e-72 283.0
32 TraesCS6B01G050300 chr2D 78.325 203 20 13 526 712 15508864 15508670 5.850000e-20 110.0
33 TraesCS6B01G050300 chr2A 74.436 1862 375 69 2735 4538 17599104 17597286 0.000000e+00 708.0
34 TraesCS6B01G050300 chr2A 74.229 1719 370 53 2858 4538 17503393 17501710 0.000000e+00 652.0
35 TraesCS6B01G050300 chr2A 76.355 812 162 18 2805 3607 17413467 17412677 5.150000e-110 409.0
36 TraesCS6B01G050300 chr2A 72.471 1275 298 37 2712 3958 17425728 17424479 1.460000e-95 361.0
37 TraesCS6B01G050300 chr2A 80.711 197 20 13 526 712 17601501 17601313 2.680000e-28 137.0
38 TraesCS6B01G050300 chr7B 95.417 240 10 1 5284 5523 397611352 397611590 1.120000e-101 381.0
39 TraesCS6B01G050300 chr7B 94.000 250 14 1 5275 5523 547267488 547267737 1.450000e-100 377.0
40 TraesCS6B01G050300 chr1D 90.816 98 9 0 2050 2147 479648034 479648131 1.250000e-26 132.0
41 TraesCS6B01G050300 chr7D 76.471 187 27 12 4823 5006 11319885 11319713 9.860000e-13 86.1
42 TraesCS6B01G050300 chr4A 75.401 187 23 14 4823 5006 726724824 726724990 9.930000e-08 69.4
43 TraesCS6B01G050300 chr4A 94.595 37 2 0 5288 5324 720347305 720347341 2.150000e-04 58.4
44 TraesCS6B01G050300 chr5A 90.909 44 4 0 4231 4274 18673515 18673472 5.970000e-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 TraesCS6B01G050300 chr6B 29855449 29860971 5522 False 10200.000000 10200 100.000000 1 5523 1 chr6B.!!$F1 5522
1 TraesCS6B01G050300 chr6B 29927405 29929439 2034 False 3720.000000 3720 99.656000 2321 4355 1 chr6B.!!$F2 2034
2 TraesCS6B01G050300 chr6B 29929430 29932607 3177 True 1675.500000 3169 84.112500 517 3690 2 chr6B.!!$R5 3173
3 TraesCS6B01G050300 chr6B 29967934 29969784 1850 True 1530.000000 1530 81.881000 3120 4983 1 chr6B.!!$R2 1863
4 TraesCS6B01G050300 chr6B 29919660 29921852 2192 False 921.666667 2189 90.826000 1 2274 3 chr6B.!!$F4 2273
5 TraesCS6B01G050300 chr6B 29983078 29983788 710 True 531.000000 531 80.472000 1866 2622 1 chr6B.!!$R4 756
6 TraesCS6B01G050300 chr6B 29989159 29990347 1188 True 390.550000 684 85.216500 574 1753 2 chr6B.!!$R7 1179
7 TraesCS6B01G050300 chr6B 29946541 29949170 2629 True 216.000000 285 80.958000 1 1181 2 chr6B.!!$R6 1180
8 TraesCS6B01G050300 chr6A 17654211 17658604 4393 True 3542.000000 3542 81.744000 517 4908 1 chr6A.!!$R1 4391
9 TraesCS6B01G050300 chr6A 17645047 17650775 5728 False 3357.000000 6477 89.561000 1 5093 2 chr6A.!!$F1 5092
10 TraesCS6B01G050300 chr6D 16939273 16944642 5369 False 1932.333333 3241 88.629000 1 5079 3 chr6D.!!$F1 5078
11 TraesCS6B01G050300 chr6D 16961840 16966736 4896 True 1233.333333 2519 81.645667 1 4983 3 chr6D.!!$R1 4982
12 TraesCS6B01G050300 chr2D 15514975 15518318 3343 True 664.000000 760 79.671500 1213 4540 2 chr2D.!!$R4 3327
13 TraesCS6B01G050300 chr2D 15471034 15472517 1483 True 555.000000 555 73.991000 2858 4332 1 chr2D.!!$R1 1474
14 TraesCS6B01G050300 chr2D 15501254 15508864 7610 True 382.000000 604 78.293000 466 4376 4 chr2D.!!$R3 3910
15 TraesCS6B01G050300 chr2A 17501710 17503393 1683 True 652.000000 652 74.229000 2858 4538 1 chr2A.!!$R3 1680
16 TraesCS6B01G050300 chr2A 17597286 17601501 4215 True 422.500000 708 77.573500 526 4538 2 chr2A.!!$R4 4012
17 TraesCS6B01G050300 chr2A 17412677 17413467 790 True 409.000000 409 76.355000 2805 3607 1 chr2A.!!$R1 802
18 TraesCS6B01G050300 chr2A 17424479 17425728 1249 True 361.000000 361 72.471000 2712 3958 1 chr2A.!!$R2 1246

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
465 1185 1.094785 GCAGCCTCTATGCCGAAAAA 58.905 50.000 0.00 0.00 37.73 1.94 F
1110 3819 1.028905 GCTAGTGAGCTCATCGGACT 58.971 55.000 21.47 14.09 45.98 3.85 F
2173 5132 1.066908 GAGAGAGTCGGCTTCTGATGG 59.933 57.143 6.48 0.00 0.00 3.51 F
2336 5319 0.255890 AACGCCATAGCCCAATCACT 59.744 50.000 0.00 0.00 34.57 3.41 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1802 4743 1.208052 TGCAGCCTCATGTTAGAGACC 59.792 52.381 0.0 0.0 37.87 3.85 R
2249 5229 1.211212 CCAATCTCATCAGGTGGCAGA 59.789 52.381 0.0 0.0 0.00 4.26 R
4379 7472 1.131315 GTTGGCGATGAAAAGAGAGCC 59.869 52.381 0.0 0.0 44.38 4.70 R
4543 7657 1.067821 GGATGACAGGATCGACACTCC 59.932 57.143 0.0 0.0 0.00 3.85 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
25 27 6.534793 GCTTCATATCCTCTTAAGCTAGCATC 59.465 42.308 18.83 0.00 39.51 3.91
49 55 3.304829 TCATGTCCCGGTGAATCTGATA 58.695 45.455 0.00 0.00 0.00 2.15
111 117 2.927553 TAGCGTTACTTTCCGAGGAC 57.072 50.000 0.00 0.00 0.00 3.85
132 138 1.794714 AGTATCCTGCCTGACGGATT 58.205 50.000 0.00 0.00 40.40 3.01
141 147 2.682856 TGCCTGACGGATTATTTCTTGC 59.317 45.455 0.00 0.00 0.00 4.01
147 153 5.764131 TGACGGATTATTTCTTGCGTTTTT 58.236 33.333 0.00 0.00 0.00 1.94
209 891 2.430694 TCAGGATATACGTGCAGCAAGT 59.569 45.455 18.39 18.39 34.80 3.16
263 945 5.052481 AGCATGCTTTTTCTTTTCAAGTCC 58.948 37.500 16.30 0.00 0.00 3.85
269 951 5.291858 GCTTTTTCTTTTCAAGTCCTTGTGG 59.708 40.000 6.90 0.00 41.16 4.17
373 1085 9.930693 GATCTACTTTAAAACTCCTTCTCAAGA 57.069 33.333 0.00 0.00 0.00 3.02
389 1101 9.454859 CCTTCTCAAGAGAGTTTATTATTGGTT 57.545 33.333 0.00 0.00 42.66 3.67
445 1165 4.307032 AGGATCATGTTTTAGGTGCAGT 57.693 40.909 0.00 0.00 0.00 4.40
446 1166 4.012374 AGGATCATGTTTTAGGTGCAGTG 58.988 43.478 0.00 0.00 0.00 3.66
447 1167 3.428045 GGATCATGTTTTAGGTGCAGTGC 60.428 47.826 8.58 8.58 0.00 4.40
448 1168 2.580962 TCATGTTTTAGGTGCAGTGCA 58.419 42.857 15.37 15.37 35.60 4.57
449 1169 2.553602 TCATGTTTTAGGTGCAGTGCAG 59.446 45.455 20.42 2.38 40.08 4.41
465 1185 1.094785 GCAGCCTCTATGCCGAAAAA 58.905 50.000 0.00 0.00 37.73 1.94
513 1233 3.741344 CGTAGCCTCATACATAAGTTGGC 59.259 47.826 0.00 0.00 39.19 4.52
535 1307 2.677337 CAAACAAAGCAAACAACCCAGG 59.323 45.455 0.00 0.00 0.00 4.45
682 1497 4.455877 ACAAGGAAAGCAGCTAATGTGTAC 59.544 41.667 0.00 0.00 0.00 2.90
961 3658 6.650120 TGTTCTATGGGTTAGAGATTCCAAC 58.350 40.000 0.00 0.00 38.19 3.77
982 3679 2.350772 CCGGAACTGCTGACATTTGAAC 60.351 50.000 0.00 0.00 0.00 3.18
1046 3753 3.317608 CACGCATGCACTTCAATCC 57.682 52.632 19.57 0.00 0.00 3.01
1110 3819 1.028905 GCTAGTGAGCTCATCGGACT 58.971 55.000 21.47 14.09 45.98 3.85
1119 3828 3.571590 AGCTCATCGGACTAGGATCTTT 58.428 45.455 0.00 0.00 0.00 2.52
1120 3829 3.964031 AGCTCATCGGACTAGGATCTTTT 59.036 43.478 0.00 0.00 0.00 2.27
1124 3833 6.090483 TCATCGGACTAGGATCTTTTCATC 57.910 41.667 0.00 0.00 0.00 2.92
1193 4119 6.815089 TGCACCTTGTAGTTTGAAATGAAAT 58.185 32.000 0.00 0.00 0.00 2.17
1225 4152 7.004086 AGAAACAAGGATAAAGTGATGAACCA 58.996 34.615 0.00 0.00 0.00 3.67
1240 4175 8.030692 AGTGATGAACCACATTTGATATTGTTG 58.969 33.333 0.00 0.00 39.56 3.33
1279 4215 5.184671 AGGAGATCAAGATCCAAGCAAAAAC 59.815 40.000 6.45 0.00 38.58 2.43
1768 4709 4.053983 AGGTTTCGACCGAGTTTTAGTTC 58.946 43.478 0.00 0.00 34.28 3.01
1797 4738 5.157940 CAGAATCTGGAGAGAAGGAAACA 57.842 43.478 1.53 0.00 0.00 2.83
1798 4739 5.743117 CAGAATCTGGAGAGAAGGAAACAT 58.257 41.667 1.53 0.00 0.00 2.71
1802 4743 3.517100 TCTGGAGAGAAGGAAACATGGAG 59.483 47.826 0.00 0.00 0.00 3.86
1805 4746 3.369997 GGAGAGAAGGAAACATGGAGGTC 60.370 52.174 0.00 0.00 0.00 3.85
1806 4747 3.517500 GAGAGAAGGAAACATGGAGGTCT 59.482 47.826 0.00 0.00 0.00 3.85
1807 4748 3.517500 AGAGAAGGAAACATGGAGGTCTC 59.482 47.826 0.00 1.75 0.00 3.36
1808 4749 3.517500 GAGAAGGAAACATGGAGGTCTCT 59.482 47.826 0.00 0.00 0.00 3.10
1839 4780 3.725895 GCTGCATACTGATGTTGTTGTCG 60.726 47.826 0.00 0.00 35.30 4.35
2147 5106 2.423185 CGTGCATTTGGATTGGCTTCTA 59.577 45.455 0.00 0.00 0.00 2.10
2173 5132 1.066908 GAGAGAGTCGGCTTCTGATGG 59.933 57.143 6.48 0.00 0.00 3.51
2249 5229 4.684724 TGGTACACAAGAGAGATAAGGGT 58.315 43.478 0.00 0.00 0.00 4.34
2254 5234 2.769095 ACAAGAGAGATAAGGGTCTGCC 59.231 50.000 0.00 0.00 0.00 4.85
2306 5286 1.002366 CGACATCCTTCTTCGCCTTG 58.998 55.000 0.00 0.00 0.00 3.61
2336 5319 0.255890 AACGCCATAGCCCAATCACT 59.744 50.000 0.00 0.00 34.57 3.41
2398 5381 1.391485 GCTGCGTGTGTTACATCTCTG 59.609 52.381 0.00 0.00 0.00 3.35
2412 5395 5.980698 ACATCTCTGTTATTGCAGATTCG 57.019 39.130 0.00 0.00 43.61 3.34
4379 7472 7.531857 ACTAAGGTGAGATACATATGACCTG 57.468 40.000 10.38 2.73 0.00 4.00
4380 7473 5.815233 AAGGTGAGATACATATGACCTGG 57.185 43.478 10.38 0.00 0.00 4.45
4396 7489 1.012841 CTGGCTCTCTTTTCATCGCC 58.987 55.000 0.00 0.00 38.01 5.54
4565 7688 3.215151 GAGTGTCGATCCTGTCATCCTA 58.785 50.000 0.00 0.00 0.00 2.94
4572 7695 1.131638 TCCTGTCATCCTATGGTGCC 58.868 55.000 0.00 0.00 0.00 5.01
4623 7754 3.805422 TGTATCGTTTCGTGTTGCTTTCT 59.195 39.130 0.00 0.00 0.00 2.52
4655 7795 5.308825 TGTTGTTTTGATTGGTTTGGTTGT 58.691 33.333 0.00 0.00 0.00 3.32
4680 7820 3.869272 CATCTGCAACGCCGAGGC 61.869 66.667 3.59 3.59 37.85 4.70
4821 7994 5.794687 TTATGTGTCAAAGTAAGCATCCG 57.205 39.130 0.00 0.00 0.00 4.18
4827 8000 3.309954 GTCAAAGTAAGCATCCGTCATCC 59.690 47.826 0.00 0.00 0.00 3.51
4847 8020 5.482163 TCCGGTTTGATAGATGATGCATA 57.518 39.130 0.00 0.00 0.00 3.14
4931 8110 0.737219 CCTGCCTGCTTATGTTGCTC 59.263 55.000 0.00 0.00 0.00 4.26
4936 8115 2.479049 GCCTGCTTATGTTGCTCACATG 60.479 50.000 11.20 0.00 46.37 3.21
5059 8244 7.376615 TGCATGAATGTTGTTGATGATTTGTA 58.623 30.769 0.00 0.00 0.00 2.41
5096 10205 7.281100 GCTTGATTAAGGTAGCTGTAATTCTGT 59.719 37.037 0.00 0.00 34.40 3.41
5097 10206 8.492673 TTGATTAAGGTAGCTGTAATTCTGTG 57.507 34.615 0.00 0.00 0.00 3.66
5101 10210 8.685838 TTAAGGTAGCTGTAATTCTGTGTTTT 57.314 30.769 0.00 0.00 0.00 2.43
5136 10245 8.836413 TCATTTGTTTTATCTATCCCACGAATC 58.164 33.333 0.00 0.00 0.00 2.52
5138 10247 8.568676 TTTGTTTTATCTATCCCACGAATCAA 57.431 30.769 0.00 0.00 0.00 2.57
5139 10248 8.568676 TTGTTTTATCTATCCCACGAATCAAA 57.431 30.769 0.00 0.00 0.00 2.69
5144 10253 9.502091 TTTATCTATCCCACGAATCAAATAAGG 57.498 33.333 0.00 0.00 0.00 2.69
5145 10254 5.305585 TCTATCCCACGAATCAAATAAGGC 58.694 41.667 0.00 0.00 0.00 4.35
5146 10255 2.650322 TCCCACGAATCAAATAAGGCC 58.350 47.619 0.00 0.00 0.00 5.19
5147 10256 2.241176 TCCCACGAATCAAATAAGGCCT 59.759 45.455 0.00 0.00 0.00 5.19
5148 10257 2.358898 CCCACGAATCAAATAAGGCCTG 59.641 50.000 5.69 0.00 0.00 4.85
5150 10259 3.313526 CCACGAATCAAATAAGGCCTGAG 59.686 47.826 5.69 0.00 0.00 3.35
5153 10262 5.297776 CACGAATCAAATAAGGCCTGAGAAT 59.702 40.000 5.69 0.00 0.00 2.40
5154 10263 5.297776 ACGAATCAAATAAGGCCTGAGAATG 59.702 40.000 5.69 2.39 0.00 2.67
5155 10264 5.297776 CGAATCAAATAAGGCCTGAGAATGT 59.702 40.000 5.69 0.00 0.00 2.71
5156 10265 6.183360 CGAATCAAATAAGGCCTGAGAATGTT 60.183 38.462 5.69 0.00 0.00 2.71
5157 10266 7.486407 AATCAAATAAGGCCTGAGAATGTTT 57.514 32.000 5.69 0.00 0.00 2.83
5158 10267 6.916360 TCAAATAAGGCCTGAGAATGTTTT 57.084 33.333 5.69 0.00 0.00 2.43
5159 10268 6.924111 TCAAATAAGGCCTGAGAATGTTTTC 58.076 36.000 5.69 0.00 0.00 2.29
5161 10270 6.521151 AATAAGGCCTGAGAATGTTTTCAG 57.479 37.500 5.69 6.37 40.35 3.02
5162 10271 3.795688 AGGCCTGAGAATGTTTTCAGA 57.204 42.857 3.11 0.00 42.67 3.27
5164 10273 4.015084 AGGCCTGAGAATGTTTTCAGATG 58.985 43.478 3.11 1.51 42.67 2.90
5167 10276 4.592942 CCTGAGAATGTTTTCAGATGGGA 58.407 43.478 13.16 0.00 42.67 4.37
5168 10277 4.639310 CCTGAGAATGTTTTCAGATGGGAG 59.361 45.833 13.16 0.00 42.67 4.30
5169 10278 5.246981 TGAGAATGTTTTCAGATGGGAGT 57.753 39.130 0.00 0.00 34.08 3.85
5170 10279 5.005740 TGAGAATGTTTTCAGATGGGAGTG 58.994 41.667 0.00 0.00 34.08 3.51
5172 10281 3.814504 ATGTTTTCAGATGGGAGTGGT 57.185 42.857 0.00 0.00 0.00 4.16
5174 10283 3.221771 TGTTTTCAGATGGGAGTGGTTG 58.778 45.455 0.00 0.00 0.00 3.77
5175 10284 3.117701 TGTTTTCAGATGGGAGTGGTTGA 60.118 43.478 0.00 0.00 0.00 3.18
5176 10285 2.859165 TTCAGATGGGAGTGGTTGAC 57.141 50.000 0.00 0.00 0.00 3.18
5177 10286 2.030027 TCAGATGGGAGTGGTTGACT 57.970 50.000 0.00 0.00 37.76 3.41
5178 10287 1.625315 TCAGATGGGAGTGGTTGACTG 59.375 52.381 0.00 0.00 33.83 3.51
5181 10290 2.039084 AGATGGGAGTGGTTGACTGAAC 59.961 50.000 0.00 0.00 33.83 3.18
5182 10291 1.208706 TGGGAGTGGTTGACTGAACA 58.791 50.000 0.00 0.00 36.12 3.18
5183 10292 1.134220 TGGGAGTGGTTGACTGAACAC 60.134 52.381 0.00 0.00 36.12 3.32
5184 10293 1.217882 GGAGTGGTTGACTGAACACG 58.782 55.000 0.00 0.00 36.12 4.49
5185 10294 1.202486 GGAGTGGTTGACTGAACACGA 60.202 52.381 0.00 0.00 36.12 4.35
5186 10295 2.546778 GAGTGGTTGACTGAACACGAA 58.453 47.619 0.00 0.00 36.12 3.85
5187 10296 2.540101 GAGTGGTTGACTGAACACGAAG 59.460 50.000 0.00 0.00 36.12 3.79
5188 10297 2.093658 AGTGGTTGACTGAACACGAAGT 60.094 45.455 0.00 0.00 34.77 3.01
5189 10298 2.284417 GTGGTTGACTGAACACGAAGTC 59.716 50.000 0.00 0.00 41.61 3.01
5190 10299 1.521423 GGTTGACTGAACACGAAGTCG 59.479 52.381 0.00 0.00 44.75 4.18
5213 10322 4.802051 GCCGCTGGGATGAAGGCA 62.802 66.667 0.00 0.00 46.48 4.75
5215 10324 2.586245 CGCTGGGATGAAGGCAGA 59.414 61.111 0.00 0.00 0.00 4.26
5217 10326 1.300963 GCTGGGATGAAGGCAGACA 59.699 57.895 0.00 0.00 0.00 3.41
5218 10327 1.028868 GCTGGGATGAAGGCAGACAC 61.029 60.000 0.00 0.00 0.00 3.67
5219 10328 0.742281 CTGGGATGAAGGCAGACACG 60.742 60.000 0.00 0.00 0.00 4.49
5221 10330 1.078848 GGATGAAGGCAGACACGCT 60.079 57.895 0.00 0.00 0.00 5.07
5222 10331 1.086634 GGATGAAGGCAGACACGCTC 61.087 60.000 0.00 0.00 0.00 5.03
5223 10332 1.078848 ATGAAGGCAGACACGCTCC 60.079 57.895 0.00 0.00 0.00 4.70
5224 10333 2.435059 GAAGGCAGACACGCTCCC 60.435 66.667 0.00 0.00 0.00 4.30
5225 10334 3.959991 GAAGGCAGACACGCTCCCC 62.960 68.421 0.00 0.00 0.00 4.81
5227 10336 4.459089 GGCAGACACGCTCCCCTC 62.459 72.222 0.00 0.00 0.00 4.30
5229 10338 3.775654 CAGACACGCTCCCCTCCC 61.776 72.222 0.00 0.00 0.00 4.30
5237 10346 4.179599 CTCCCCTCCCCTCCCCTC 62.180 77.778 0.00 0.00 0.00 4.30
5255 10364 4.785453 GGGGCAGGCAGAGGAACG 62.785 72.222 0.00 0.00 0.00 3.95
5257 10366 4.400961 GGCAGGCAGAGGAACGCT 62.401 66.667 0.00 0.00 40.82 5.07
5275 10384 2.725221 CTGGAAGCAGAGCCCTTATT 57.275 50.000 0.00 0.00 0.00 1.40
5276 10385 2.295885 CTGGAAGCAGAGCCCTTATTG 58.704 52.381 0.00 0.00 0.00 1.90
5277 10386 1.635487 TGGAAGCAGAGCCCTTATTGT 59.365 47.619 0.00 0.00 0.00 2.71
5278 10387 2.041620 TGGAAGCAGAGCCCTTATTGTT 59.958 45.455 0.00 0.00 0.00 2.83
5279 10388 3.265737 TGGAAGCAGAGCCCTTATTGTTA 59.734 43.478 0.00 0.00 0.00 2.41
5280 10389 3.879892 GGAAGCAGAGCCCTTATTGTTAG 59.120 47.826 0.00 0.00 0.00 2.34
5281 10390 4.518249 GAAGCAGAGCCCTTATTGTTAGT 58.482 43.478 0.00 0.00 0.00 2.24
5282 10391 4.576330 AGCAGAGCCCTTATTGTTAGTT 57.424 40.909 0.00 0.00 0.00 2.24
5283 10392 5.693769 AGCAGAGCCCTTATTGTTAGTTA 57.306 39.130 0.00 0.00 0.00 2.24
5284 10393 5.429130 AGCAGAGCCCTTATTGTTAGTTAC 58.571 41.667 0.00 0.00 0.00 2.50
5285 10394 5.189934 AGCAGAGCCCTTATTGTTAGTTACT 59.810 40.000 0.00 0.00 0.00 2.24
5288 10397 7.417570 GCAGAGCCCTTATTGTTAGTTACTAGA 60.418 40.741 0.00 0.00 0.00 2.43
5289 10398 8.643324 CAGAGCCCTTATTGTTAGTTACTAGAT 58.357 37.037 0.00 0.00 0.00 1.98
5291 10400 8.785184 AGCCCTTATTGTTAGTTACTAGATCT 57.215 34.615 0.00 0.00 0.00 2.75
5292 10401 9.214962 AGCCCTTATTGTTAGTTACTAGATCTT 57.785 33.333 0.00 0.00 0.00 2.40
5293 10402 9.833917 GCCCTTATTGTTAGTTACTAGATCTTT 57.166 33.333 0.00 0.00 0.00 2.52
5298 10407 8.723942 ATTGTTAGTTACTAGATCTTTGCTGG 57.276 34.615 0.00 0.00 0.00 4.85
5299 10408 6.106673 TGTTAGTTACTAGATCTTTGCTGGC 58.893 40.000 0.00 0.00 0.00 4.85
5300 10409 3.786635 AGTTACTAGATCTTTGCTGGCG 58.213 45.455 0.00 0.00 0.00 5.69
5301 10410 2.225068 TACTAGATCTTTGCTGGCGC 57.775 50.000 0.00 0.00 0.00 6.53
5326 10979 0.388907 GCCGCGCCCGTCTATATTTA 60.389 55.000 0.00 0.00 0.00 1.40
5328 10981 1.336148 CCGCGCCCGTCTATATTTACA 60.336 52.381 0.00 0.00 0.00 2.41
5329 10982 2.396601 CGCGCCCGTCTATATTTACAA 58.603 47.619 0.00 0.00 0.00 2.41
5332 10985 4.264614 CGCGCCCGTCTATATTTACAATAG 59.735 45.833 0.00 0.00 0.00 1.73
5336 10989 6.530534 CGCCCGTCTATATTTACAATAGAAGG 59.469 42.308 14.44 14.44 46.58 3.46
5382 11035 8.859090 ACATGAGAAAAATGAAGTTGTAATGGA 58.141 29.630 0.00 0.00 0.00 3.41
5383 11036 9.865321 CATGAGAAAAATGAAGTTGTAATGGAT 57.135 29.630 0.00 0.00 0.00 3.41
5393 11046 9.838339 ATGAAGTTGTAATGGATAGTAAGGAAG 57.162 33.333 0.00 0.00 0.00 3.46
5395 11048 9.886132 GAAGTTGTAATGGATAGTAAGGAAGAA 57.114 33.333 0.00 0.00 0.00 2.52
5396 11049 9.668497 AAGTTGTAATGGATAGTAAGGAAGAAC 57.332 33.333 0.00 0.00 0.00 3.01
5397 11050 9.047947 AGTTGTAATGGATAGTAAGGAAGAACT 57.952 33.333 0.00 0.00 0.00 3.01
5421 11074 6.642733 TTTTTCCCTAGGTCTGATGATCTT 57.357 37.500 8.29 0.00 34.99 2.40
5422 11075 7.749377 TTTTTCCCTAGGTCTGATGATCTTA 57.251 36.000 8.29 0.00 34.99 2.10
5423 11076 7.749377 TTTTCCCTAGGTCTGATGATCTTAA 57.251 36.000 8.29 0.00 34.99 1.85
5424 11077 7.749377 TTTCCCTAGGTCTGATGATCTTAAA 57.251 36.000 8.29 0.00 34.99 1.52
5426 11079 6.444704 TCCCTAGGTCTGATGATCTTAAAGT 58.555 40.000 8.29 0.00 34.99 2.66
5427 11080 6.903534 TCCCTAGGTCTGATGATCTTAAAGTT 59.096 38.462 8.29 0.00 34.99 2.66
5428 11081 8.065627 TCCCTAGGTCTGATGATCTTAAAGTTA 58.934 37.037 8.29 0.00 34.99 2.24
5433 11086 9.965902 AGGTCTGATGATCTTAAAGTTAAACAT 57.034 29.630 0.00 0.00 26.98 2.71
5434 11087 9.994432 GGTCTGATGATCTTAAAGTTAAACATG 57.006 33.333 0.00 0.00 0.00 3.21
5442 11095 9.677567 GATCTTAAAGTTAAACATGAAAGCACA 57.322 29.630 0.00 0.00 0.00 4.57
5443 11096 8.850454 TCTTAAAGTTAAACATGAAAGCACAC 57.150 30.769 0.00 0.00 0.00 3.82
5444 11097 8.462811 TCTTAAAGTTAAACATGAAAGCACACA 58.537 29.630 0.00 0.00 0.00 3.72
5446 11099 9.593134 TTAAAGTTAAACATGAAAGCACACATT 57.407 25.926 0.00 0.00 0.00 2.71
5447 11100 7.467557 AAGTTAAACATGAAAGCACACATTG 57.532 32.000 0.00 0.00 0.00 2.82
5448 11101 6.572519 AGTTAAACATGAAAGCACACATTGT 58.427 32.000 0.00 0.00 0.00 2.71
5449 11102 7.041107 AGTTAAACATGAAAGCACACATTGTT 58.959 30.769 0.00 0.00 0.00 2.83
5451 11104 3.125316 ACATGAAAGCACACATTGTTGC 58.875 40.909 0.00 12.92 0.00 4.17
5453 11106 2.538437 TGAAAGCACACATTGTTGCAC 58.462 42.857 19.16 13.00 30.52 4.57
5454 11107 2.094338 TGAAAGCACACATTGTTGCACA 60.094 40.909 19.16 14.54 30.52 4.57
5455 11108 2.894763 AAGCACACATTGTTGCACAT 57.105 40.000 19.16 8.05 30.52 3.21
5456 11109 2.143008 AGCACACATTGTTGCACATG 57.857 45.000 19.16 0.00 30.52 3.21
5458 11111 2.101082 AGCACACATTGTTGCACATGAA 59.899 40.909 19.16 0.00 30.52 2.57
5459 11112 2.219216 GCACACATTGTTGCACATGAAC 59.781 45.455 0.00 0.00 0.00 3.18
5460 11113 2.468409 CACACATTGTTGCACATGAACG 59.532 45.455 0.00 0.00 0.00 3.95
5461 11114 2.098934 ACACATTGTTGCACATGAACGT 59.901 40.909 0.00 0.00 0.00 3.99
5462 11115 3.114809 CACATTGTTGCACATGAACGTT 58.885 40.909 0.00 0.00 0.00 3.99
5466 11119 4.820284 TTGTTGCACATGAACGTTCATA 57.180 36.364 36.18 22.16 45.62 2.15
5467 11120 5.369685 TTGTTGCACATGAACGTTCATAT 57.630 34.783 36.18 27.21 45.62 1.78
5468 11121 5.369685 TGTTGCACATGAACGTTCATATT 57.630 34.783 36.18 25.39 45.62 1.28
5469 11122 5.767269 TGTTGCACATGAACGTTCATATTT 58.233 33.333 36.18 23.22 45.62 1.40
5470 11123 6.212235 TGTTGCACATGAACGTTCATATTTT 58.788 32.000 36.18 21.08 45.62 1.82
5471 11124 7.363431 TGTTGCACATGAACGTTCATATTTTA 58.637 30.769 36.18 21.65 45.62 1.52
5472 11125 7.536964 TGTTGCACATGAACGTTCATATTTTAG 59.463 33.333 36.18 26.22 45.62 1.85
5475 11128 8.172484 TGCACATGAACGTTCATATTTTAGTAC 58.828 33.333 36.18 24.55 45.62 2.73
5476 11129 8.388103 GCACATGAACGTTCATATTTTAGTACT 58.612 33.333 36.18 14.10 45.62 2.73
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
6 7 8.911965 CATGATAGATGCTAGCTTAAGAGGATA 58.088 37.037 17.23 0.00 0.00 2.59
25 27 3.321968 TCAGATTCACCGGGACATGATAG 59.678 47.826 6.32 0.00 0.00 2.08
49 55 6.000219 ACAAGAATTATTCTGTGTCTGCACT 59.000 36.000 8.34 0.00 45.44 4.40
60 66 8.345724 AGTTGCATCTTCACAAGAATTATTCT 57.654 30.769 0.99 0.99 41.63 2.40
61 67 8.976986 AAGTTGCATCTTCACAAGAATTATTC 57.023 30.769 4.13 0.00 41.63 1.75
62 68 8.579006 TGAAGTTGCATCTTCACAAGAATTATT 58.421 29.630 28.30 0.00 45.62 1.40
63 69 8.114331 TGAAGTTGCATCTTCACAAGAATTAT 57.886 30.769 28.30 0.00 45.62 1.28
111 117 1.982660 TCCGTCAGGCAGGATACTAG 58.017 55.000 0.00 0.00 41.61 2.57
132 138 5.352284 TGGAAAGCAAAAACGCAAGAAATA 58.648 33.333 0.00 0.00 43.62 1.40
141 147 3.052036 CCATCACTGGAAAGCAAAAACG 58.948 45.455 0.00 0.00 46.37 3.60
147 153 3.264193 ACATAGACCATCACTGGAAAGCA 59.736 43.478 0.00 0.00 46.37 3.91
209 891 4.632688 GCCGGTAAAATCTAACAGCAGTAA 59.367 41.667 1.90 0.00 0.00 2.24
247 929 6.353404 ACCACAAGGACTTGAAAAGAAAAA 57.647 33.333 18.15 0.00 42.44 1.94
263 945 1.871039 CCGTCTTACCACAACCACAAG 59.129 52.381 0.00 0.00 0.00 3.16
269 951 4.248691 ACTCTTACCGTCTTACCACAAC 57.751 45.455 0.00 0.00 0.00 3.32
371 1083 9.753674 TCCATGAAAACCAATAATAAACTCTCT 57.246 29.630 0.00 0.00 0.00 3.10
445 1165 0.035534 TTTTCGGCATAGAGGCTGCA 60.036 50.000 0.50 0.00 41.47 4.41
446 1166 1.094785 TTTTTCGGCATAGAGGCTGC 58.905 50.000 0.00 0.00 40.04 5.25
447 1167 2.083774 TGTTTTTCGGCATAGAGGCTG 58.916 47.619 0.00 0.00 41.46 4.85
448 1168 2.084546 GTGTTTTTCGGCATAGAGGCT 58.915 47.619 0.00 0.00 41.46 4.58
449 1169 1.810151 TGTGTTTTTCGGCATAGAGGC 59.190 47.619 0.00 0.00 39.93 4.70
513 1233 2.677337 CTGGGTTGTTTGCTTTGTTTGG 59.323 45.455 0.00 0.00 0.00 3.28
535 1307 8.674607 CACAGGGATATAAAGGTAAAGACAAAC 58.325 37.037 0.00 0.00 0.00 2.93
739 1560 0.454620 CACTGACCTCGCGTAGTGAC 60.455 60.000 18.02 4.49 44.70 3.67
815 3499 9.449719 GTTCAAGGAAGTATAATTTGGAGAAGA 57.550 33.333 0.00 0.00 0.00 2.87
828 3512 6.435277 ACATGATGCTTTGTTCAAGGAAGTAT 59.565 34.615 0.00 0.00 36.24 2.12
829 3513 5.769662 ACATGATGCTTTGTTCAAGGAAGTA 59.230 36.000 0.00 0.00 36.24 2.24
830 3514 4.586001 ACATGATGCTTTGTTCAAGGAAGT 59.414 37.500 0.00 0.00 36.24 3.01
961 3658 1.522668 TCAAATGTCAGCAGTTCCGG 58.477 50.000 0.00 0.00 29.72 5.14
1046 3753 4.959596 ATCTGCAGCATTAAACACTGAG 57.040 40.909 9.47 3.04 33.10 3.35
1110 3819 9.739276 ACACAACTAATTGATGAAAAGATCCTA 57.261 29.630 0.00 0.00 39.30 2.94
1119 3828 5.411361 CGGAGGAACACAACTAATTGATGAA 59.589 40.000 0.00 0.00 39.30 2.57
1120 3829 4.935205 CGGAGGAACACAACTAATTGATGA 59.065 41.667 0.00 0.00 39.30 2.92
1124 3833 5.779806 CTACGGAGGAACACAACTAATTG 57.220 43.478 0.00 0.00 41.98 2.32
1198 4124 8.023706 GGTTCATCACTTTATCCTTGTTTCTTC 58.976 37.037 0.00 0.00 0.00 2.87
1225 4152 8.939201 TGTTCAACAACAACAATATCAAATGT 57.061 26.923 0.00 0.00 39.69 2.71
1240 4175 3.988379 TCTCCTGCAATGTTCAACAAC 57.012 42.857 0.00 0.00 0.00 3.32
1297 4233 6.197168 TCCTCCAAAATGCCAATTATCTCTT 58.803 36.000 0.00 0.00 0.00 2.85
1757 4698 6.937465 AGATTCTGGTTCTGGAACTAAAACTC 59.063 38.462 12.34 3.49 40.94 3.01
1789 4730 4.597507 TGTTAGAGACCTCCATGTTTCCTT 59.402 41.667 0.00 0.00 0.00 3.36
1793 4734 5.338708 CCTCATGTTAGAGACCTCCATGTTT 60.339 44.000 11.65 0.00 37.87 2.83
1796 4737 3.494048 GCCTCATGTTAGAGACCTCCATG 60.494 52.174 0.00 7.83 37.87 3.66
1797 4738 2.703007 GCCTCATGTTAGAGACCTCCAT 59.297 50.000 0.00 0.00 37.87 3.41
1798 4739 2.111384 GCCTCATGTTAGAGACCTCCA 58.889 52.381 0.00 0.00 37.87 3.86
1802 4743 1.208052 TGCAGCCTCATGTTAGAGACC 59.792 52.381 0.00 0.00 37.87 3.85
1805 4746 4.056740 CAGTATGCAGCCTCATGTTAGAG 58.943 47.826 0.00 0.00 35.39 2.43
1806 4747 3.706086 TCAGTATGCAGCCTCATGTTAGA 59.294 43.478 0.00 0.00 34.76 2.10
1807 4748 4.063998 TCAGTATGCAGCCTCATGTTAG 57.936 45.455 0.00 0.00 34.76 2.34
1808 4749 4.141642 ACATCAGTATGCAGCCTCATGTTA 60.142 41.667 0.00 0.00 36.50 2.41
2173 5132 1.959899 CTGCAGGTGACGACGAATGC 61.960 60.000 5.57 4.80 0.00 3.56
2209 5189 1.826487 ACCAAAACCCAGCGGTCAC 60.826 57.895 0.00 0.00 43.71 3.67
2249 5229 1.211212 CCAATCTCATCAGGTGGCAGA 59.789 52.381 0.00 0.00 0.00 4.26
2254 5234 1.337071 GCATGCCAATCTCATCAGGTG 59.663 52.381 6.36 0.00 0.00 4.00
2306 5286 3.621715 GGCTATGGCGTTTACTATATGGC 59.378 47.826 0.00 0.00 39.81 4.40
2336 5319 6.446909 TGGAATATGCCATCTGGTAATGTA 57.553 37.500 0.00 0.00 37.57 2.29
2398 5381 6.021468 CGATTCAAAACCGAATCTGCAATAAC 60.021 38.462 10.86 0.00 46.04 1.89
2412 5395 1.472878 GAAGGGAGGCGATTCAAAACC 59.527 52.381 0.00 0.00 0.00 3.27
4379 7472 1.131315 GTTGGCGATGAAAAGAGAGCC 59.869 52.381 0.00 0.00 44.38 4.70
4380 7473 2.079925 AGTTGGCGATGAAAAGAGAGC 58.920 47.619 0.00 0.00 0.00 4.09
4396 7489 1.748591 GCTGGCCCTCCAATAGAGTTG 60.749 57.143 0.00 0.00 42.91 3.16
4543 7657 1.067821 GGATGACAGGATCGACACTCC 59.932 57.143 0.00 0.00 0.00 3.85
4572 7695 1.883084 GACATCCGCTGCGTAAGGG 60.883 63.158 21.59 5.05 38.56 3.95
4623 7754 7.581213 ACCAATCAAAACAACATGAAGTAGA 57.419 32.000 0.00 0.00 0.00 2.59
4821 7994 4.153117 GCATCATCTATCAAACCGGATGAC 59.847 45.833 9.46 0.00 44.45 3.06
4827 8000 6.025896 GCAATATGCATCATCTATCAAACCG 58.974 40.000 0.19 0.00 44.26 4.44
4847 8020 4.464951 TCCATCTTGATCAAAGCTTGCAAT 59.535 37.500 9.88 0.00 35.69 3.56
4861 8034 7.281774 GCACTCTCATTTATTTCTCCATCTTGA 59.718 37.037 0.00 0.00 0.00 3.02
5024 8209 0.526954 CATTCATGCAAGAAGCCGGC 60.527 55.000 21.89 21.89 44.83 6.13
5059 8244 8.579863 GCTACCTTAATCAAGCAATGGATTAAT 58.420 33.333 7.14 0.00 42.12 1.40
5111 10220 8.620416 TGATTCGTGGGATAGATAAAACAAATG 58.380 33.333 0.00 0.00 0.00 2.32
5112 10221 8.746052 TGATTCGTGGGATAGATAAAACAAAT 57.254 30.769 0.00 0.00 0.00 2.32
5115 10224 8.746052 ATTTGATTCGTGGGATAGATAAAACA 57.254 30.769 0.00 0.00 0.00 2.83
5121 10230 5.940470 GCCTTATTTGATTCGTGGGATAGAT 59.060 40.000 0.00 0.00 0.00 1.98
5122 10231 5.305585 GCCTTATTTGATTCGTGGGATAGA 58.694 41.667 0.00 0.00 0.00 1.98
5123 10232 4.455877 GGCCTTATTTGATTCGTGGGATAG 59.544 45.833 0.00 0.00 0.00 2.08
5124 10233 4.104102 AGGCCTTATTTGATTCGTGGGATA 59.896 41.667 0.00 0.00 0.00 2.59
5125 10234 3.117512 AGGCCTTATTTGATTCGTGGGAT 60.118 43.478 0.00 0.00 0.00 3.85
5126 10235 2.241176 AGGCCTTATTTGATTCGTGGGA 59.759 45.455 0.00 0.00 0.00 4.37
5127 10236 2.358898 CAGGCCTTATTTGATTCGTGGG 59.641 50.000 0.00 0.00 0.00 4.61
5128 10237 3.278574 TCAGGCCTTATTTGATTCGTGG 58.721 45.455 0.00 0.00 0.00 4.94
5129 10238 4.191544 TCTCAGGCCTTATTTGATTCGTG 58.808 43.478 0.00 0.00 0.00 4.35
5130 10239 4.487714 TCTCAGGCCTTATTTGATTCGT 57.512 40.909 0.00 0.00 0.00 3.85
5131 10240 5.297776 ACATTCTCAGGCCTTATTTGATTCG 59.702 40.000 0.00 0.00 0.00 3.34
5132 10241 6.705863 ACATTCTCAGGCCTTATTTGATTC 57.294 37.500 0.00 0.00 0.00 2.52
5136 10245 6.690530 TGAAAACATTCTCAGGCCTTATTTG 58.309 36.000 0.00 0.00 0.00 2.32
5138 10247 6.248433 TCTGAAAACATTCTCAGGCCTTATT 58.752 36.000 0.00 0.00 39.67 1.40
5139 10248 5.819991 TCTGAAAACATTCTCAGGCCTTAT 58.180 37.500 0.00 0.00 39.67 1.73
5142 10251 3.795688 TCTGAAAACATTCTCAGGCCT 57.204 42.857 0.00 0.00 39.67 5.19
5143 10252 3.129988 CCATCTGAAAACATTCTCAGGCC 59.870 47.826 0.00 0.00 39.67 5.19
5144 10253 3.129988 CCCATCTGAAAACATTCTCAGGC 59.870 47.826 0.00 0.00 39.67 4.85
5145 10254 4.592942 TCCCATCTGAAAACATTCTCAGG 58.407 43.478 0.00 0.00 39.67 3.86
5146 10255 5.123502 CACTCCCATCTGAAAACATTCTCAG 59.876 44.000 0.00 0.00 40.42 3.35
5147 10256 5.005740 CACTCCCATCTGAAAACATTCTCA 58.994 41.667 0.00 0.00 0.00 3.27
5148 10257 4.397417 CCACTCCCATCTGAAAACATTCTC 59.603 45.833 0.00 0.00 0.00 2.87
5150 10259 4.082125 ACCACTCCCATCTGAAAACATTC 58.918 43.478 0.00 0.00 0.00 2.67
5153 10262 3.117701 TCAACCACTCCCATCTGAAAACA 60.118 43.478 0.00 0.00 0.00 2.83
5154 10263 3.253432 GTCAACCACTCCCATCTGAAAAC 59.747 47.826 0.00 0.00 0.00 2.43
5155 10264 3.138283 AGTCAACCACTCCCATCTGAAAA 59.862 43.478 0.00 0.00 0.00 2.29
5156 10265 2.711009 AGTCAACCACTCCCATCTGAAA 59.289 45.455 0.00 0.00 0.00 2.69
5157 10266 2.038952 CAGTCAACCACTCCCATCTGAA 59.961 50.000 0.00 0.00 30.26 3.02
5158 10267 1.625315 CAGTCAACCACTCCCATCTGA 59.375 52.381 0.00 0.00 30.26 3.27
5159 10268 1.625315 TCAGTCAACCACTCCCATCTG 59.375 52.381 0.00 0.00 30.26 2.90
5161 10270 2.224523 TGTTCAGTCAACCACTCCCATC 60.225 50.000 0.00 0.00 33.51 3.51
5162 10271 1.774254 TGTTCAGTCAACCACTCCCAT 59.226 47.619 0.00 0.00 33.51 4.00
5164 10273 1.594331 GTGTTCAGTCAACCACTCCC 58.406 55.000 0.00 0.00 33.51 4.30
5167 10276 2.093658 ACTTCGTGTTCAGTCAACCACT 60.094 45.455 0.00 0.00 33.51 4.00
5168 10277 2.277084 ACTTCGTGTTCAGTCAACCAC 58.723 47.619 0.00 0.00 33.51 4.16
5169 10278 2.546778 GACTTCGTGTTCAGTCAACCA 58.453 47.619 0.00 0.00 39.49 3.67
5170 10279 1.521423 CGACTTCGTGTTCAGTCAACC 59.479 52.381 0.00 0.00 39.64 3.77
5196 10305 4.802051 TGCCTTCATCCCAGCGGC 62.802 66.667 0.00 0.00 41.06 6.53
5197 10306 2.515523 CTGCCTTCATCCCAGCGG 60.516 66.667 0.00 0.00 0.00 5.52
5199 10308 1.028868 GTGTCTGCCTTCATCCCAGC 61.029 60.000 0.00 0.00 0.00 4.85
5200 10309 0.742281 CGTGTCTGCCTTCATCCCAG 60.742 60.000 0.00 0.00 0.00 4.45
5203 10312 1.078848 AGCGTGTCTGCCTTCATCC 60.079 57.895 0.00 0.00 34.65 3.51
5204 10313 1.086634 GGAGCGTGTCTGCCTTCATC 61.087 60.000 0.00 0.00 34.65 2.92
5205 10314 1.078848 GGAGCGTGTCTGCCTTCAT 60.079 57.895 0.00 0.00 34.65 2.57
5206 10315 2.343758 GGAGCGTGTCTGCCTTCA 59.656 61.111 0.00 0.00 34.65 3.02
5211 10320 4.459089 GGAGGGGAGCGTGTCTGC 62.459 72.222 0.00 0.00 0.00 4.26
5212 10321 3.775654 GGGAGGGGAGCGTGTCTG 61.776 72.222 0.00 0.00 0.00 3.51
5237 10346 4.785453 GTTCCTCTGCCTGCCCCG 62.785 72.222 0.00 0.00 0.00 5.73
5238 10347 4.785453 CGTTCCTCTGCCTGCCCC 62.785 72.222 0.00 0.00 0.00 5.80
5240 10349 4.400961 AGCGTTCCTCTGCCTGCC 62.401 66.667 0.00 0.00 0.00 4.85
5241 10350 3.123620 CAGCGTTCCTCTGCCTGC 61.124 66.667 0.00 0.00 0.00 4.85
5243 10352 2.177594 CTTCCAGCGTTCCTCTGCCT 62.178 60.000 0.00 0.00 0.00 4.75
5245 10354 2.394563 GCTTCCAGCGTTCCTCTGC 61.395 63.158 0.00 0.00 0.00 4.26
5246 10355 1.004560 TGCTTCCAGCGTTCCTCTG 60.005 57.895 0.00 0.00 46.26 3.35
5248 10357 0.739112 CTCTGCTTCCAGCGTTCCTC 60.739 60.000 0.00 0.00 46.26 3.71
5249 10358 1.294780 CTCTGCTTCCAGCGTTCCT 59.705 57.895 0.00 0.00 46.26 3.36
5250 10359 2.394563 GCTCTGCTTCCAGCGTTCC 61.395 63.158 0.00 0.00 46.26 3.62
5251 10360 2.394563 GGCTCTGCTTCCAGCGTTC 61.395 63.158 0.00 0.00 46.26 3.95
5252 10361 2.359230 GGCTCTGCTTCCAGCGTT 60.359 61.111 0.00 0.00 46.26 4.84
5253 10362 4.400961 GGGCTCTGCTTCCAGCGT 62.401 66.667 0.00 0.00 46.26 5.07
5255 10364 0.182299 ATAAGGGCTCTGCTTCCAGC 59.818 55.000 0.00 0.00 42.82 4.85
5256 10365 2.295885 CAATAAGGGCTCTGCTTCCAG 58.704 52.381 0.00 0.00 40.54 3.86
5257 10366 1.635487 ACAATAAGGGCTCTGCTTCCA 59.365 47.619 0.00 0.00 0.00 3.53
5258 10367 2.426842 ACAATAAGGGCTCTGCTTCC 57.573 50.000 0.00 0.00 0.00 3.46
5259 10368 4.518249 ACTAACAATAAGGGCTCTGCTTC 58.482 43.478 0.00 0.00 0.00 3.86
5260 10369 4.576330 ACTAACAATAAGGGCTCTGCTT 57.424 40.909 0.00 0.00 0.00 3.91
5261 10370 4.576330 AACTAACAATAAGGGCTCTGCT 57.424 40.909 0.00 0.00 0.00 4.24
5262 10371 5.429130 AGTAACTAACAATAAGGGCTCTGC 58.571 41.667 0.00 0.00 0.00 4.26
5264 10373 8.785184 ATCTAGTAACTAACAATAAGGGCTCT 57.215 34.615 0.00 0.00 0.00 4.09
5266 10375 8.785184 AGATCTAGTAACTAACAATAAGGGCT 57.215 34.615 0.00 0.00 0.00 5.19
5267 10376 9.833917 AAAGATCTAGTAACTAACAATAAGGGC 57.166 33.333 0.00 0.00 0.00 5.19
5272 10381 9.817809 CCAGCAAAGATCTAGTAACTAACAATA 57.182 33.333 0.00 0.00 0.00 1.90
5273 10382 7.281100 GCCAGCAAAGATCTAGTAACTAACAAT 59.719 37.037 0.00 0.00 0.00 2.71
5274 10383 6.594159 GCCAGCAAAGATCTAGTAACTAACAA 59.406 38.462 0.00 0.00 0.00 2.83
5275 10384 6.106673 GCCAGCAAAGATCTAGTAACTAACA 58.893 40.000 0.00 0.00 0.00 2.41
5276 10385 5.232414 CGCCAGCAAAGATCTAGTAACTAAC 59.768 44.000 0.00 0.00 0.00 2.34
5277 10386 5.348986 CGCCAGCAAAGATCTAGTAACTAA 58.651 41.667 0.00 0.00 0.00 2.24
5278 10387 4.736759 GCGCCAGCAAAGATCTAGTAACTA 60.737 45.833 0.00 0.00 44.35 2.24
5279 10388 3.786635 CGCCAGCAAAGATCTAGTAACT 58.213 45.455 0.00 0.00 0.00 2.24
5280 10389 2.285488 GCGCCAGCAAAGATCTAGTAAC 59.715 50.000 0.00 0.00 44.35 2.50
5281 10390 2.550978 GCGCCAGCAAAGATCTAGTAA 58.449 47.619 0.00 0.00 44.35 2.24
5282 10391 2.225068 GCGCCAGCAAAGATCTAGTA 57.775 50.000 0.00 0.00 44.35 1.82
5283 10392 3.071580 GCGCCAGCAAAGATCTAGT 57.928 52.632 0.00 0.00 44.35 2.57
5304 10413 3.778360 TATAGACGGGCGCGGCAAC 62.778 63.158 34.30 22.56 0.00 4.17
5305 10414 2.372040 AATATAGACGGGCGCGGCAA 62.372 55.000 34.30 16.26 0.00 4.52
5307 10416 0.388907 TAAATATAGACGGGCGCGGC 60.389 55.000 26.39 26.39 0.00 6.53
5308 10417 1.336148 TGTAAATATAGACGGGCGCGG 60.336 52.381 27.52 9.49 0.00 6.46
5309 10418 2.054687 TGTAAATATAGACGGGCGCG 57.945 50.000 22.69 22.69 0.00 6.86
5312 10421 7.609056 TCCTTCTATTGTAAATATAGACGGGC 58.391 38.462 12.62 0.00 41.16 6.13
5356 11009 8.859090 TCCATTACAACTTCATTTTTCTCATGT 58.141 29.630 0.00 0.00 0.00 3.21
5357 11010 9.865321 ATCCATTACAACTTCATTTTTCTCATG 57.135 29.630 0.00 0.00 0.00 3.07
5367 11020 9.838339 CTTCCTTACTATCCATTACAACTTCAT 57.162 33.333 0.00 0.00 0.00 2.57
5369 11022 9.886132 TTCTTCCTTACTATCCATTACAACTTC 57.114 33.333 0.00 0.00 0.00 3.01
5371 11024 9.047947 AGTTCTTCCTTACTATCCATTACAACT 57.952 33.333 0.00 0.00 0.00 3.16
5372 11025 9.668497 AAGTTCTTCCTTACTATCCATTACAAC 57.332 33.333 0.00 0.00 0.00 3.32
5399 11052 7.749377 TTAAGATCATCAGACCTAGGGAAAA 57.251 36.000 14.81 0.00 0.00 2.29
5401 11054 6.903534 ACTTTAAGATCATCAGACCTAGGGAA 59.096 38.462 14.81 0.00 0.00 3.97
5403 11056 6.739331 ACTTTAAGATCATCAGACCTAGGG 57.261 41.667 14.81 0.00 0.00 3.53
5407 11060 9.965902 ATGTTTAACTTTAAGATCATCAGACCT 57.034 29.630 0.00 0.00 0.00 3.85
5408 11061 9.994432 CATGTTTAACTTTAAGATCATCAGACC 57.006 33.333 0.00 0.00 0.00 3.85
5415 11068 9.677567 GTGCTTTCATGTTTAACTTTAAGATCA 57.322 29.630 0.00 0.00 0.00 2.92
5416 11069 9.677567 TGTGCTTTCATGTTTAACTTTAAGATC 57.322 29.630 0.00 0.00 0.00 2.75
5417 11070 9.463443 GTGTGCTTTCATGTTTAACTTTAAGAT 57.537 29.630 0.00 0.00 0.00 2.40
5418 11071 8.462811 TGTGTGCTTTCATGTTTAACTTTAAGA 58.537 29.630 0.00 0.00 0.00 2.10
5419 11072 8.627487 TGTGTGCTTTCATGTTTAACTTTAAG 57.373 30.769 0.00 0.00 0.00 1.85
5421 11074 9.029243 CAATGTGTGCTTTCATGTTTAACTTTA 57.971 29.630 0.00 0.00 0.00 1.85
5422 11075 7.548780 ACAATGTGTGCTTTCATGTTTAACTTT 59.451 29.630 0.00 0.00 0.00 2.66
5423 11076 7.041107 ACAATGTGTGCTTTCATGTTTAACTT 58.959 30.769 0.00 0.00 0.00 2.66
5424 11077 6.572519 ACAATGTGTGCTTTCATGTTTAACT 58.427 32.000 0.00 0.00 0.00 2.24
5426 11079 6.238049 GCAACAATGTGTGCTTTCATGTTTAA 60.238 34.615 11.38 0.00 0.00 1.52
5427 11080 5.233902 GCAACAATGTGTGCTTTCATGTTTA 59.766 36.000 11.38 0.00 0.00 2.01
5428 11081 4.034279 GCAACAATGTGTGCTTTCATGTTT 59.966 37.500 11.38 0.00 0.00 2.83
5430 11083 3.125316 GCAACAATGTGTGCTTTCATGT 58.875 40.909 11.38 0.00 0.00 3.21
5431 11084 3.060138 GTGCAACAATGTGTGCTTTCATG 60.060 43.478 16.82 0.00 36.32 3.07
5433 11086 2.538437 GTGCAACAATGTGTGCTTTCA 58.462 42.857 16.82 0.49 36.32 2.69
5447 11100 6.689178 AAAATATGAACGTTCATGTGCAAC 57.311 33.333 40.58 11.80 46.68 4.17
5448 11101 7.589395 ACTAAAATATGAACGTTCATGTGCAA 58.411 30.769 40.58 27.08 46.68 4.08
5449 11102 7.139896 ACTAAAATATGAACGTTCATGTGCA 57.860 32.000 40.58 27.40 46.68 4.57


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

AutoCloner maintained by Alex Coulton.