Multiple sequence alignment - TraesCS7B01G330500

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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 TraesCS7B01G330500 chr7B 100.000 2597 0 0 1 2597 586066324 586068920 0.000000e+00 4796.0
1 TraesCS7B01G330500 chr7B 89.099 1321 100 25 468 1772 585944039 585945331 0.000000e+00 1602.0
2 TraesCS7B01G330500 chr7B 90.233 686 60 3 865 1543 585991667 585992352 0.000000e+00 889.0
3 TraesCS7B01G330500 chr7B 81.028 1012 105 40 686 1640 586116142 586117123 0.000000e+00 725.0
4 TraesCS7B01G330500 chr7B 82.082 826 89 31 987 1774 586240663 586241467 0.000000e+00 651.0
5 TraesCS7B01G330500 chr7B 92.798 361 18 6 1 359 585931320 585931674 1.380000e-142 516.0
6 TraesCS7B01G330500 chr7B 81.204 548 90 11 1844 2385 586098094 586098634 1.850000e-116 429.0
7 TraesCS7B01G330500 chr7B 79.286 560 90 17 1113 1652 586128947 586129500 4.080000e-98 368.0
8 TraesCS7B01G330500 chr7B 78.947 589 60 40 32 600 585986466 585987010 2.470000e-90 342.0
9 TraesCS7B01G330500 chr7B 78.676 408 68 14 1991 2384 581253761 581253359 1.190000e-63 254.0
10 TraesCS7B01G330500 chr7B 92.903 155 6 3 657 806 585986998 585987152 1.210000e-53 220.0
11 TraesCS7B01G330500 chr7B 81.053 285 31 11 201 470 585963939 585964215 3.390000e-49 206.0
12 TraesCS7B01G330500 chr7B 81.048 248 33 11 1535 1772 585997018 585997261 4.410000e-43 185.0
13 TraesCS7B01G330500 chr7B 86.420 162 13 6 309 470 586052388 586052540 4.440000e-38 169.0
14 TraesCS7B01G330500 chr7B 79.839 248 31 10 671 913 585912253 585912486 2.070000e-36 163.0
15 TraesCS7B01G330500 chr7B 84.783 138 13 6 687 819 586229973 586230107 5.830000e-27 132.0
16 TraesCS7B01G330500 chr7B 93.902 82 5 0 201 282 585882542 585882623 9.760000e-25 124.0
17 TraesCS7B01G330500 chr7B 91.954 87 3 1 201 283 586052245 586052331 4.540000e-23 119.0
18 TraesCS7B01G330500 chr7B 83.051 118 10 8 357 470 585943901 585944012 5.910000e-17 99.0
19 TraesCS7B01G330500 chr7B 78.916 166 17 12 309 470 586229397 586229548 2.130000e-16 97.1
20 TraesCS7B01G330500 chr7A 89.223 1763 143 25 638 2381 624840386 624842120 0.000000e+00 2159.0
21 TraesCS7B01G330500 chr7A 86.702 1128 89 31 671 1772 624887031 624888123 0.000000e+00 1195.0
22 TraesCS7B01G330500 chr7A 79.419 1171 124 61 686 1772 624957370 624958507 0.000000e+00 719.0
23 TraesCS7B01G330500 chr7A 84.568 162 14 7 309 470 624839712 624839862 1.610000e-32 150.0
24 TraesCS7B01G330500 chr7A 74.896 482 42 44 201 610 624884622 624885096 2.080000e-31 147.0
25 TraesCS7B01G330500 chr7A 97.674 43 1 0 533 575 624840292 624840334 9.970000e-10 75.0
26 TraesCS7B01G330500 chr7A 95.238 42 2 0 484 525 624957231 624957272 1.670000e-07 67.6
27 TraesCS7B01G330500 chr7D 86.908 1161 84 39 631 1772 542885666 542886777 0.000000e+00 1240.0
28 TraesCS7B01G330500 chr7D 88.952 887 77 11 902 1772 542825882 542826763 0.000000e+00 1075.0
29 TraesCS7B01G330500 chr7D 80.931 1138 120 49 686 1771 542957324 542958416 0.000000e+00 809.0
30 TraesCS7B01G330500 chr7D 88.406 552 33 15 40 565 542885096 542885642 1.010000e-178 636.0
31 TraesCS7B01G330500 chr7D 79.964 559 103 7 1831 2385 19589234 19588681 1.120000e-108 403.0
32 TraesCS7B01G330500 chr7D 90.909 198 11 4 623 819 542825139 542825330 2.560000e-65 259.0
33 TraesCS7B01G330500 chr7D 81.590 239 43 1 2147 2385 538510504 538510267 2.040000e-46 196.0
34 TraesCS7B01G330500 chr7D 90.850 153 5 4 468 613 542825006 542825156 2.040000e-46 196.0
35 TraesCS7B01G330500 chr7D 84.058 138 14 5 687 819 542858364 542858498 2.710000e-25 126.0
36 TraesCS7B01G330500 chr7D 81.034 174 18 9 657 819 542869532 542869701 9.760000e-25 124.0
37 TraesCS7B01G330500 chr7D 90.909 77 7 0 394 470 542132289 542132365 1.270000e-18 104.0
38 TraesCS7B01G330500 chr7D 89.706 68 4 1 755 819 542937134 542937201 1.660000e-12 84.2
39 TraesCS7B01G330500 chr7D 77.326 172 20 12 309 470 542950352 542950514 1.660000e-12 84.2
40 TraesCS7B01G330500 chr7D 96.078 51 0 2 484 532 542957164 542957214 5.960000e-12 82.4
41 TraesCS7B01G330500 chr7D 88.710 62 4 2 335 396 542856885 542856943 3.580000e-09 73.1
42 TraesCS7B01G330500 chr7D 77.551 147 16 9 335 470 542864847 542864987 3.580000e-09 73.1
43 TraesCS7B01G330500 chr2D 83.516 546 80 8 1843 2381 527640969 527641511 3.860000e-138 501.0
44 TraesCS7B01G330500 chr2D 96.774 31 1 0 29 59 612817323 612817353 5.000000e-03 52.8
45 TraesCS7B01G330500 chr5D 81.000 500 74 14 1781 2268 551614713 551615203 6.780000e-101 377.0
46 TraesCS7B01G330500 chr5D 95.735 211 9 0 2387 2597 259669105 259668895 8.900000e-90 340.0
47 TraesCS7B01G330500 chr4A 84.062 389 55 6 1846 2230 616615557 616615172 4.080000e-98 368.0
48 TraesCS7B01G330500 chr4A 95.735 211 9 0 2387 2597 81574310 81574520 8.900000e-90 340.0
49 TraesCS7B01G330500 chr6A 76.711 760 111 35 873 1598 538540808 538541535 1.900000e-96 363.0
50 TraesCS7B01G330500 chr6B 96.209 211 8 0 2387 2597 270428085 270428295 1.910000e-91 346.0
51 TraesCS7B01G330500 chr6B 79.902 408 71 11 1866 2268 35771113 35771514 3.270000e-74 289.0
52 TraesCS7B01G330500 chr6B 84.536 194 24 4 975 1168 586075961 586075774 1.230000e-43 187.0
53 TraesCS7B01G330500 chr3D 96.209 211 8 0 2387 2597 305596389 305596179 1.910000e-91 346.0
54 TraesCS7B01G330500 chr3D 95.714 210 9 0 2388 2597 173379276 173379485 3.200000e-89 339.0
55 TraesCS7B01G330500 chr6D 95.735 211 9 0 2387 2597 50989703 50989493 8.900000e-90 340.0
56 TraesCS7B01G330500 chr6D 76.156 692 92 38 952 1598 392586265 392586928 1.950000e-76 296.0
57 TraesCS7B01G330500 chr6D 82.738 168 27 2 2212 2379 41169404 41169239 5.790000e-32 148.0
58 TraesCS7B01G330500 chr5A 95.735 211 9 0 2387 2597 96274428 96274638 8.900000e-90 340.0
59 TraesCS7B01G330500 chr1D 95.735 211 9 0 2387 2597 401873136 401873346 8.900000e-90 340.0
60 TraesCS7B01G330500 chr1D 82.206 399 59 9 1938 2332 139138535 139138145 1.490000e-87 333.0
61 TraesCS7B01G330500 chr1D 96.875 32 1 0 29 60 411756972 411757003 1.000000e-03 54.7
62 TraesCS7B01G330500 chr1B 95.305 213 9 1 2386 2597 255649477 255649265 1.150000e-88 337.0
63 TraesCS7B01G330500 chr4D 80.176 454 77 6 1938 2385 313930535 313930981 6.930000e-86 327.0
64 TraesCS7B01G330500 chr1A 94.444 36 0 2 32 66 6898777 6898743 1.000000e-03 54.7


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 TraesCS7B01G330500 chr7B 586066324 586068920 2596 False 4796.000000 4796 100.000000 1 2597 1 chr7B.!!$F7 2596
1 TraesCS7B01G330500 chr7B 585991667 585992352 685 False 889.000000 889 90.233000 865 1543 1 chr7B.!!$F5 678
2 TraesCS7B01G330500 chr7B 585943901 585945331 1430 False 850.500000 1602 86.075000 357 1772 2 chr7B.!!$F12 1415
3 TraesCS7B01G330500 chr7B 586116142 586117123 981 False 725.000000 725 81.028000 686 1640 1 chr7B.!!$F9 954
4 TraesCS7B01G330500 chr7B 586240663 586241467 804 False 651.000000 651 82.082000 987 1774 1 chr7B.!!$F11 787
5 TraesCS7B01G330500 chr7B 586098094 586098634 540 False 429.000000 429 81.204000 1844 2385 1 chr7B.!!$F8 541
6 TraesCS7B01G330500 chr7B 586128947 586129500 553 False 368.000000 368 79.286000 1113 1652 1 chr7B.!!$F10 539
7 TraesCS7B01G330500 chr7B 585986466 585987152 686 False 281.000000 342 85.925000 32 806 2 chr7B.!!$F13 774
8 TraesCS7B01G330500 chr7A 624839712 624842120 2408 False 794.666667 2159 90.488333 309 2381 3 chr7A.!!$F1 2072
9 TraesCS7B01G330500 chr7A 624884622 624888123 3501 False 671.000000 1195 80.799000 201 1772 2 chr7A.!!$F2 1571
10 TraesCS7B01G330500 chr7A 624957231 624958507 1276 False 393.300000 719 87.328500 484 1772 2 chr7A.!!$F3 1288
11 TraesCS7B01G330500 chr7D 542885096 542886777 1681 False 938.000000 1240 87.657000 40 1772 2 chr7D.!!$F8 1732
12 TraesCS7B01G330500 chr7D 542825006 542826763 1757 False 510.000000 1075 90.237000 468 1772 3 chr7D.!!$F6 1304
13 TraesCS7B01G330500 chr7D 542957164 542958416 1252 False 445.700000 809 88.504500 484 1771 2 chr7D.!!$F9 1287
14 TraesCS7B01G330500 chr7D 19588681 19589234 553 True 403.000000 403 79.964000 1831 2385 1 chr7D.!!$R1 554
15 TraesCS7B01G330500 chr2D 527640969 527641511 542 False 501.000000 501 83.516000 1843 2381 1 chr2D.!!$F1 538
16 TraesCS7B01G330500 chr6A 538540808 538541535 727 False 363.000000 363 76.711000 873 1598 1 chr6A.!!$F1 725
17 TraesCS7B01G330500 chr6D 392586265 392586928 663 False 296.000000 296 76.156000 952 1598 1 chr6D.!!$F1 646

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
80 81 0.109153 TGAAGCAAGCTGCCAAGAGA 59.891 50.0 0.0 0.0 46.52 3.10 F
989 4025 0.877071 CATCGGCAAGTCAGCAAAGT 59.123 50.0 0.0 0.0 35.83 2.66 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1497 4615 0.244450 TCGTCACGTAACCATCCACC 59.756 55.0 0.0 0.0 0.0 4.61 R
2479 5643 0.034337 GTGGGTCCTTGAGTTGCGTA 59.966 55.0 0.0 0.0 0.0 4.42 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
17 18 2.674754 TTTCGGTGGGATCTGGCC 59.325 61.111 0.00 0.00 0.00 5.36
28 29 3.669949 GGGATCTGGCCCCATATATAGT 58.330 50.000 0.00 0.00 42.62 2.12
29 30 4.047883 GGGATCTGGCCCCATATATAGTT 58.952 47.826 0.00 0.00 42.62 2.24
30 31 4.141390 GGGATCTGGCCCCATATATAGTTG 60.141 50.000 0.00 0.00 42.62 3.16
31 32 4.475016 GGATCTGGCCCCATATATAGTTGT 59.525 45.833 0.00 0.00 0.00 3.32
32 33 5.665812 GGATCTGGCCCCATATATAGTTGTA 59.334 44.000 0.00 0.00 0.00 2.41
33 34 6.330250 GGATCTGGCCCCATATATAGTTGTAT 59.670 42.308 0.00 0.00 0.00 2.29
53 54 5.716228 TGTATTTCTTTACGGAGGGAGTACA 59.284 40.000 0.00 0.00 0.00 2.90
56 57 4.730949 TCTTTACGGAGGGAGTACATTG 57.269 45.455 0.00 0.00 0.00 2.82
75 76 1.961378 CATGTGAAGCAAGCTGCCA 59.039 52.632 0.00 0.00 46.52 4.92
80 81 0.109153 TGAAGCAAGCTGCCAAGAGA 59.891 50.000 0.00 0.00 46.52 3.10
95 97 4.379290 GCCAAGAGAAAAGAGTCAGAATGC 60.379 45.833 0.00 0.00 34.76 3.56
98 100 5.480642 AGAGAAAAGAGTCAGAATGCTCA 57.519 39.130 0.00 0.00 40.25 4.26
159 162 2.030805 GCTGTTGCCTCGACAAAGAAAT 60.031 45.455 0.00 0.00 0.00 2.17
160 163 3.558505 CTGTTGCCTCGACAAAGAAATG 58.441 45.455 0.00 0.00 0.00 2.32
229 243 3.317430 ACCGAGACCGAGAACCAATATAC 59.683 47.826 0.00 0.00 38.22 1.47
230 244 3.317149 CCGAGACCGAGAACCAATATACA 59.683 47.826 0.00 0.00 38.22 2.29
231 245 4.022242 CCGAGACCGAGAACCAATATACAT 60.022 45.833 0.00 0.00 38.22 2.29
232 246 4.917998 CGAGACCGAGAACCAATATACATG 59.082 45.833 0.00 0.00 38.22 3.21
233 247 5.507482 CGAGACCGAGAACCAATATACATGT 60.507 44.000 2.69 2.69 38.22 3.21
234 248 6.293790 CGAGACCGAGAACCAATATACATGTA 60.294 42.308 8.27 8.27 38.22 2.29
235 249 6.746120 AGACCGAGAACCAATATACATGTAC 58.254 40.000 7.96 0.00 0.00 2.90
236 250 5.526115 ACCGAGAACCAATATACATGTACG 58.474 41.667 7.96 3.09 0.00 3.67
237 251 4.384846 CCGAGAACCAATATACATGTACGC 59.615 45.833 7.96 0.00 0.00 4.42
238 252 4.979815 CGAGAACCAATATACATGTACGCA 59.020 41.667 7.96 0.00 0.00 5.24
239 253 5.633601 CGAGAACCAATATACATGTACGCAT 59.366 40.000 7.96 0.00 35.32 4.73
240 254 6.183359 CGAGAACCAATATACATGTACGCATC 60.183 42.308 7.96 1.27 31.99 3.91
241 255 6.759272 AGAACCAATATACATGTACGCATCT 58.241 36.000 7.96 3.50 31.99 2.90
242 256 6.646653 AGAACCAATATACATGTACGCATCTG 59.353 38.462 7.96 0.58 31.99 2.90
243 257 6.096673 ACCAATATACATGTACGCATCTGA 57.903 37.500 7.96 0.00 31.99 3.27
244 258 6.159293 ACCAATATACATGTACGCATCTGAG 58.841 40.000 7.96 0.00 31.99 3.35
245 259 5.062683 CCAATATACATGTACGCATCTGAGC 59.937 44.000 7.96 0.00 31.99 4.26
246 260 5.651387 ATATACATGTACGCATCTGAGCT 57.349 39.130 7.96 0.00 31.99 4.09
316 387 1.666189 GGCAAGATTTGTAGAGCGTCC 59.334 52.381 0.00 0.00 0.00 4.79
353 425 1.017701 AAAAACCCGGCGATCGAGAC 61.018 55.000 21.57 7.07 42.43 3.36
436 532 1.202371 TCTTGGTCGACATGCCGATAC 60.202 52.381 18.91 4.79 40.91 2.24
451 562 2.955751 GATACGACCTGTCCGCAGCC 62.956 65.000 0.00 0.00 41.26 4.85
454 565 4.767255 GACCTGTCCGCAGCCTGG 62.767 72.222 0.00 0.00 41.26 4.45
466 577 2.746277 GCCTGGGCGTCACGATTT 60.746 61.111 0.00 0.00 0.00 2.17
524 659 7.859377 CGCTAACTCATTCAATGCATCTAATTT 59.141 33.333 0.00 0.00 0.00 1.82
699 3175 4.675510 CATAGCTTTGATGTTTCGCCAAT 58.324 39.130 0.00 0.00 0.00 3.16
858 3368 7.765695 ACTGCCAGAAAATATCTTTCTTTCA 57.234 32.000 0.00 8.95 36.69 2.69
859 3369 7.824672 ACTGCCAGAAAATATCTTTCTTTCAG 58.175 34.615 20.03 20.03 39.10 3.02
860 3370 7.667219 ACTGCCAGAAAATATCTTTCTTTCAGA 59.333 33.333 23.55 0.00 37.96 3.27
861 3371 8.408043 TGCCAGAAAATATCTTTCTTTCAGAA 57.592 30.769 9.02 0.00 36.69 3.02
862 3372 9.028284 TGCCAGAAAATATCTTTCTTTCAGAAT 57.972 29.630 9.02 0.00 36.69 2.40
863 3373 9.866798 GCCAGAAAATATCTTTCTTTCAGAATT 57.133 29.630 9.02 0.00 36.69 2.17
989 4025 0.877071 CATCGGCAAGTCAGCAAAGT 59.123 50.000 0.00 0.00 35.83 2.66
991 4027 1.388547 TCGGCAAGTCAGCAAAGTTT 58.611 45.000 0.00 0.00 35.83 2.66
1259 4328 4.162690 GGCCTCGCCGTTCCAGAT 62.163 66.667 0.00 0.00 39.62 2.90
1462 4562 2.345991 CCGGTGGCGAGGAAAAGA 59.654 61.111 0.00 0.00 0.00 2.52
1479 4582 2.160721 AGATACGGCAAGAGGAGGAA 57.839 50.000 0.00 0.00 0.00 3.36
1497 4615 3.254657 AGGAAGAAGACTGTGAAGTCGAG 59.745 47.826 0.47 0.00 43.15 4.04
1503 4624 1.546476 GACTGTGAAGTCGAGGTGGAT 59.454 52.381 0.00 0.00 0.00 3.41
1506 4627 0.608640 GTGAAGTCGAGGTGGATGGT 59.391 55.000 0.00 0.00 0.00 3.55
1507 4628 1.002087 GTGAAGTCGAGGTGGATGGTT 59.998 52.381 0.00 0.00 0.00 3.67
1713 4866 1.745087 CAATTAGCCCACGTCTGCAAT 59.255 47.619 8.40 3.95 0.00 3.56
1725 4878 3.118261 ACGTCTGCAATCCCTGTTCATAT 60.118 43.478 0.00 0.00 0.00 1.78
1791 4946 5.772393 TCTTAAACTTAAGGGCATCTCCA 57.228 39.130 7.53 0.00 40.35 3.86
1796 4951 2.019984 CTTAAGGGCATCTCCAGCAAC 58.980 52.381 0.00 0.00 36.21 4.17
1805 4960 3.804036 CATCTCCAGCAACCCGTAAATA 58.196 45.455 0.00 0.00 0.00 1.40
1811 4966 3.951680 CCAGCAACCCGTAAATATCCTTT 59.048 43.478 0.00 0.00 0.00 3.11
1896 5051 4.168014 CTGCACGCATACATTTCAAACAT 58.832 39.130 0.00 0.00 0.00 2.71
1897 5052 4.554292 TGCACGCATACATTTCAAACATT 58.446 34.783 0.00 0.00 0.00 2.71
1953 5112 4.512571 ACGGTGTATTTCATATAAACCGGC 59.487 41.667 23.25 0.00 41.84 6.13
2060 5222 4.874966 ACACGGATACACTACACTAGTCTC 59.125 45.833 0.00 0.00 36.76 3.36
2092 5254 0.253327 GCGGATCCCTTTGTCTTCCT 59.747 55.000 6.06 0.00 0.00 3.36
2175 5338 1.966901 TTCCATATGTCCGGCTGCGT 61.967 55.000 0.00 0.00 0.00 5.24
2200 5363 2.543067 ATCGGAGTGGCAAAGAGGGC 62.543 60.000 0.00 0.00 0.00 5.19
2273 5436 0.036010 GGGCCGATGATGGTATGAGG 60.036 60.000 0.00 0.00 0.00 3.86
2274 5437 0.976641 GGCCGATGATGGTATGAGGA 59.023 55.000 0.00 0.00 0.00 3.71
2294 5457 3.203716 GAAAAGAACCGGACAAGTCACT 58.796 45.455 9.46 0.00 0.00 3.41
2318 5481 3.818121 TACAAGCCGGCAACACGCT 62.818 57.895 31.54 1.71 43.26 5.07
2357 5521 0.687354 CACAAGTGGTGGTAGCCTCT 59.313 55.000 0.00 0.00 44.04 3.69
2376 5540 3.493334 TCTCGTGTTCTACTTTCCCTCA 58.507 45.455 0.00 0.00 0.00 3.86
2381 5545 4.152402 CGTGTTCTACTTTCCCTCAATGTG 59.848 45.833 0.00 0.00 0.00 3.21
2385 5549 0.482446 ACTTTCCCTCAATGTGGGCA 59.518 50.000 15.19 1.71 44.23 5.36
2386 5550 1.077663 ACTTTCCCTCAATGTGGGCAT 59.922 47.619 15.19 0.00 44.23 4.40
2387 5551 1.479323 CTTTCCCTCAATGTGGGCATG 59.521 52.381 15.19 3.72 44.23 4.06
2388 5552 0.409092 TTCCCTCAATGTGGGCATGT 59.591 50.000 15.19 0.00 44.23 3.21
2389 5553 1.294041 TCCCTCAATGTGGGCATGTA 58.706 50.000 15.19 0.00 44.23 2.29
2390 5554 1.638070 TCCCTCAATGTGGGCATGTAA 59.362 47.619 15.19 0.00 44.23 2.41
2391 5555 1.750778 CCCTCAATGTGGGCATGTAAC 59.249 52.381 7.52 0.00 37.99 2.50
2392 5556 2.445427 CCTCAATGTGGGCATGTAACA 58.555 47.619 0.00 0.00 35.15 2.41
2393 5557 3.025978 CCTCAATGTGGGCATGTAACAT 58.974 45.455 0.00 0.00 36.10 2.71
2394 5558 3.067180 CCTCAATGTGGGCATGTAACATC 59.933 47.826 9.51 0.00 33.48 3.06
2395 5559 3.023119 TCAATGTGGGCATGTAACATCC 58.977 45.455 9.51 0.00 33.48 3.51
2396 5560 2.071778 ATGTGGGCATGTAACATCCC 57.928 50.000 0.00 0.00 39.22 3.85
2397 5561 0.701147 TGTGGGCATGTAACATCCCA 59.299 50.000 9.06 9.06 45.87 4.37
2399 5563 2.612285 TGGGCATGTAACATCCCAAA 57.388 45.000 10.33 0.00 45.14 3.28
2400 5564 3.113191 TGGGCATGTAACATCCCAAAT 57.887 42.857 10.33 0.00 45.14 2.32
2401 5565 3.448934 TGGGCATGTAACATCCCAAATT 58.551 40.909 10.33 0.00 45.14 1.82
2402 5566 3.843027 TGGGCATGTAACATCCCAAATTT 59.157 39.130 10.33 0.00 45.14 1.82
2403 5567 4.288105 TGGGCATGTAACATCCCAAATTTT 59.712 37.500 10.33 0.00 45.14 1.82
2404 5568 4.875536 GGGCATGTAACATCCCAAATTTTC 59.124 41.667 0.00 0.00 38.62 2.29
2405 5569 5.486526 GGCATGTAACATCCCAAATTTTCA 58.513 37.500 0.00 0.00 0.00 2.69
2406 5570 5.936956 GGCATGTAACATCCCAAATTTTCAA 59.063 36.000 0.00 0.00 0.00 2.69
2407 5571 6.598850 GGCATGTAACATCCCAAATTTTCAAT 59.401 34.615 0.00 0.00 0.00 2.57
2408 5572 7.121020 GGCATGTAACATCCCAAATTTTCAATT 59.879 33.333 0.00 0.00 0.00 2.32
2409 5573 8.513774 GCATGTAACATCCCAAATTTTCAATTT 58.486 29.630 0.00 0.00 0.00 1.82
2410 5574 9.828852 CATGTAACATCCCAAATTTTCAATTTG 57.171 29.630 12.97 12.97 38.39 2.32
2469 5633 9.933723 ATATTCTATTGCATTTTGGCTTAATCC 57.066 29.630 0.00 0.00 34.04 3.01
2470 5634 7.422465 TTCTATTGCATTTTGGCTTAATCCT 57.578 32.000 0.00 0.00 34.04 3.24
2471 5635 8.532186 TTCTATTGCATTTTGGCTTAATCCTA 57.468 30.769 0.00 0.00 34.04 2.94
2472 5636 8.169977 TCTATTGCATTTTGGCTTAATCCTAG 57.830 34.615 0.00 0.00 34.04 3.02
2473 5637 7.998383 TCTATTGCATTTTGGCTTAATCCTAGA 59.002 33.333 0.00 0.00 34.04 2.43
2474 5638 6.849085 TTGCATTTTGGCTTAATCCTAGAA 57.151 33.333 0.00 0.00 34.04 2.10
2475 5639 6.849085 TGCATTTTGGCTTAATCCTAGAAA 57.151 33.333 0.00 0.00 34.04 2.52
2476 5640 7.422465 TGCATTTTGGCTTAATCCTAGAAAT 57.578 32.000 0.00 0.00 34.04 2.17
2477 5641 7.850193 TGCATTTTGGCTTAATCCTAGAAATT 58.150 30.769 0.00 0.00 34.04 1.82
2478 5642 7.981225 TGCATTTTGGCTTAATCCTAGAAATTC 59.019 33.333 0.00 0.00 34.04 2.17
2479 5643 8.200120 GCATTTTGGCTTAATCCTAGAAATTCT 58.800 33.333 0.00 0.00 0.00 2.40
2482 5646 8.433421 TTTGGCTTAATCCTAGAAATTCTACG 57.567 34.615 0.00 0.00 0.00 3.51
2483 5647 5.989777 TGGCTTAATCCTAGAAATTCTACGC 59.010 40.000 0.00 0.00 0.00 4.42
2484 5648 5.989777 GGCTTAATCCTAGAAATTCTACGCA 59.010 40.000 0.00 0.00 0.00 5.24
2485 5649 6.482308 GGCTTAATCCTAGAAATTCTACGCAA 59.518 38.462 0.00 0.00 0.00 4.85
2486 5650 7.345943 GCTTAATCCTAGAAATTCTACGCAAC 58.654 38.462 0.00 0.00 0.00 4.17
2487 5651 7.224949 GCTTAATCCTAGAAATTCTACGCAACT 59.775 37.037 0.00 0.00 0.00 3.16
2488 5652 8.644318 TTAATCCTAGAAATTCTACGCAACTC 57.356 34.615 0.00 0.00 0.00 3.01
2489 5653 5.654603 TCCTAGAAATTCTACGCAACTCA 57.345 39.130 0.00 0.00 0.00 3.41
2490 5654 6.032956 TCCTAGAAATTCTACGCAACTCAA 57.967 37.500 0.00 0.00 0.00 3.02
2491 5655 6.100004 TCCTAGAAATTCTACGCAACTCAAG 58.900 40.000 0.00 0.00 0.00 3.02
2492 5656 5.292101 CCTAGAAATTCTACGCAACTCAAGG 59.708 44.000 0.00 0.00 0.00 3.61
2493 5657 4.894784 AGAAATTCTACGCAACTCAAGGA 58.105 39.130 0.00 0.00 0.00 3.36
2494 5658 4.691216 AGAAATTCTACGCAACTCAAGGAC 59.309 41.667 0.00 0.00 0.00 3.85
2495 5659 2.450609 TTCTACGCAACTCAAGGACC 57.549 50.000 0.00 0.00 0.00 4.46
2496 5660 0.606604 TCTACGCAACTCAAGGACCC 59.393 55.000 0.00 0.00 0.00 4.46
2497 5661 0.320374 CTACGCAACTCAAGGACCCA 59.680 55.000 0.00 0.00 0.00 4.51
2498 5662 0.034337 TACGCAACTCAAGGACCCAC 59.966 55.000 0.00 0.00 0.00 4.61
2499 5663 2.317609 CGCAACTCAAGGACCCACG 61.318 63.158 0.00 0.00 0.00 4.94
2500 5664 1.070786 GCAACTCAAGGACCCACGA 59.929 57.895 0.00 0.00 0.00 4.35
2501 5665 0.534203 GCAACTCAAGGACCCACGAA 60.534 55.000 0.00 0.00 0.00 3.85
2502 5666 1.512926 CAACTCAAGGACCCACGAAG 58.487 55.000 0.00 0.00 0.00 3.79
2503 5667 1.070134 CAACTCAAGGACCCACGAAGA 59.930 52.381 0.00 0.00 0.00 2.87
2504 5668 0.969894 ACTCAAGGACCCACGAAGAG 59.030 55.000 0.00 0.00 0.00 2.85
2505 5669 1.257743 CTCAAGGACCCACGAAGAGA 58.742 55.000 0.00 0.00 0.00 3.10
2506 5670 1.203523 CTCAAGGACCCACGAAGAGAG 59.796 57.143 0.00 0.00 0.00 3.20
2507 5671 0.969894 CAAGGACCCACGAAGAGAGT 59.030 55.000 0.00 0.00 0.00 3.24
2508 5672 1.344763 CAAGGACCCACGAAGAGAGTT 59.655 52.381 0.00 0.00 0.00 3.01
2509 5673 0.969894 AGGACCCACGAAGAGAGTTG 59.030 55.000 0.00 0.00 0.00 3.16
2510 5674 0.037232 GGACCCACGAAGAGAGTTGG 60.037 60.000 0.00 0.00 0.00 3.77
2511 5675 0.037232 GACCCACGAAGAGAGTTGGG 60.037 60.000 3.87 3.87 42.05 4.12
2512 5676 1.296715 CCCACGAAGAGAGTTGGGG 59.703 63.158 0.00 0.00 33.17 4.96
2513 5677 1.192146 CCCACGAAGAGAGTTGGGGA 61.192 60.000 0.00 0.00 36.14 4.81
2514 5678 0.905357 CCACGAAGAGAGTTGGGGAT 59.095 55.000 0.00 0.00 0.00 3.85
2515 5679 1.279271 CCACGAAGAGAGTTGGGGATT 59.721 52.381 0.00 0.00 0.00 3.01
2516 5680 2.290323 CCACGAAGAGAGTTGGGGATTT 60.290 50.000 0.00 0.00 0.00 2.17
2517 5681 3.003480 CACGAAGAGAGTTGGGGATTTC 58.997 50.000 0.00 0.00 0.00 2.17
2518 5682 2.271800 CGAAGAGAGTTGGGGATTTCG 58.728 52.381 0.00 0.00 0.00 3.46
2519 5683 2.353803 CGAAGAGAGTTGGGGATTTCGT 60.354 50.000 0.00 0.00 33.38 3.85
2520 5684 3.676093 GAAGAGAGTTGGGGATTTCGTT 58.324 45.455 0.00 0.00 0.00 3.85
2521 5685 4.619863 CGAAGAGAGTTGGGGATTTCGTTA 60.620 45.833 0.00 0.00 33.38 3.18
2522 5686 5.429130 GAAGAGAGTTGGGGATTTCGTTAT 58.571 41.667 0.00 0.00 0.00 1.89
2523 5687 5.437191 AGAGAGTTGGGGATTTCGTTATT 57.563 39.130 0.00 0.00 0.00 1.40
2524 5688 5.816682 AGAGAGTTGGGGATTTCGTTATTT 58.183 37.500 0.00 0.00 0.00 1.40
2525 5689 6.246163 AGAGAGTTGGGGATTTCGTTATTTT 58.754 36.000 0.00 0.00 0.00 1.82
2526 5690 6.374613 AGAGAGTTGGGGATTTCGTTATTTTC 59.625 38.462 0.00 0.00 0.00 2.29
2527 5691 6.007703 AGAGTTGGGGATTTCGTTATTTTCA 58.992 36.000 0.00 0.00 0.00 2.69
2528 5692 6.663523 AGAGTTGGGGATTTCGTTATTTTCAT 59.336 34.615 0.00 0.00 0.00 2.57
2529 5693 7.832187 AGAGTTGGGGATTTCGTTATTTTCATA 59.168 33.333 0.00 0.00 0.00 2.15
2530 5694 8.533569 AGTTGGGGATTTCGTTATTTTCATAT 57.466 30.769 0.00 0.00 0.00 1.78
2531 5695 8.977412 AGTTGGGGATTTCGTTATTTTCATATT 58.023 29.630 0.00 0.00 0.00 1.28
2532 5696 9.594478 GTTGGGGATTTCGTTATTTTCATATTT 57.406 29.630 0.00 0.00 0.00 1.40
2533 5697 9.593134 TTGGGGATTTCGTTATTTTCATATTTG 57.407 29.630 0.00 0.00 0.00 2.32
2534 5698 8.972127 TGGGGATTTCGTTATTTTCATATTTGA 58.028 29.630 0.00 0.00 0.00 2.69
2535 5699 9.463443 GGGGATTTCGTTATTTTCATATTTGAG 57.537 33.333 0.00 0.00 32.27 3.02
2559 5723 9.586435 GAGTTTTCTCAAATTTTGAAAAGAGGA 57.414 29.630 20.30 3.40 45.53 3.71
2567 5731 9.275398 TCAAATTTTGAAAAGAGGATCAATTGG 57.725 29.630 9.36 0.00 35.04 3.16
2568 5732 9.059260 CAAATTTTGAAAAGAGGATCAATTGGT 57.941 29.630 5.42 0.00 37.82 3.67
2569 5733 9.631257 AAATTTTGAAAAGAGGATCAATTGGTT 57.369 25.926 5.42 0.00 37.82 3.67
2570 5734 9.631257 AATTTTGAAAAGAGGATCAATTGGTTT 57.369 25.926 5.42 0.00 37.82 3.27
2571 5735 9.631257 ATTTTGAAAAGAGGATCAATTGGTTTT 57.369 25.926 5.42 0.00 37.82 2.43
2572 5736 8.436046 TTTGAAAAGAGGATCAATTGGTTTTG 57.564 30.769 5.42 0.00 37.82 2.44
2573 5737 7.358770 TGAAAAGAGGATCAATTGGTTTTGA 57.641 32.000 5.42 0.00 39.77 2.69
2574 5738 7.965718 TGAAAAGAGGATCAATTGGTTTTGAT 58.034 30.769 5.42 0.00 46.39 2.57
2575 5739 8.431222 TGAAAAGAGGATCAATTGGTTTTGATT 58.569 29.630 5.42 0.00 44.35 2.57
2576 5740 9.927668 GAAAAGAGGATCAATTGGTTTTGATTA 57.072 29.630 5.42 0.00 44.35 1.75
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
7 8 3.669949 ACTATATATGGGGCCAGATCCC 58.330 50.000 4.39 0.00 45.80 3.85
8 9 4.475016 ACAACTATATATGGGGCCAGATCC 59.525 45.833 4.39 0.00 0.00 3.36
10 11 7.771506 AATACAACTATATATGGGGCCAGAT 57.228 36.000 4.39 0.00 0.00 2.90
11 12 7.461043 AGAAATACAACTATATATGGGGCCAGA 59.539 37.037 4.39 0.00 0.00 3.86
12 13 7.633789 AGAAATACAACTATATATGGGGCCAG 58.366 38.462 4.39 0.00 0.00 4.85
13 14 7.582909 AGAAATACAACTATATATGGGGCCA 57.417 36.000 4.39 0.00 0.00 5.36
14 15 8.879427 AAAGAAATACAACTATATATGGGGCC 57.121 34.615 0.00 0.00 0.00 5.80
22 23 9.151177 TCCCTCCGTAAAGAAATACAACTATAT 57.849 33.333 0.00 0.00 0.00 0.86
23 24 8.537728 TCCCTCCGTAAAGAAATACAACTATA 57.462 34.615 0.00 0.00 0.00 1.31
24 25 7.125356 ACTCCCTCCGTAAAGAAATACAACTAT 59.875 37.037 0.00 0.00 0.00 2.12
25 26 6.438425 ACTCCCTCCGTAAAGAAATACAACTA 59.562 38.462 0.00 0.00 0.00 2.24
26 27 5.247792 ACTCCCTCCGTAAAGAAATACAACT 59.752 40.000 0.00 0.00 0.00 3.16
27 28 5.485620 ACTCCCTCCGTAAAGAAATACAAC 58.514 41.667 0.00 0.00 0.00 3.32
28 29 5.750352 ACTCCCTCCGTAAAGAAATACAA 57.250 39.130 0.00 0.00 0.00 2.41
29 30 5.716228 TGTACTCCCTCCGTAAAGAAATACA 59.284 40.000 0.00 0.00 0.00 2.29
30 31 6.212888 TGTACTCCCTCCGTAAAGAAATAC 57.787 41.667 0.00 0.00 0.00 1.89
31 32 7.270047 CAATGTACTCCCTCCGTAAAGAAATA 58.730 38.462 0.00 0.00 0.00 1.40
32 33 5.952347 ATGTACTCCCTCCGTAAAGAAAT 57.048 39.130 0.00 0.00 0.00 2.17
33 34 5.484715 CAATGTACTCCCTCCGTAAAGAAA 58.515 41.667 0.00 0.00 0.00 2.52
56 57 1.445582 GGCAGCTTGCTTCACATGC 60.446 57.895 7.85 0.00 46.98 4.06
75 76 5.862845 TGAGCATTCTGACTCTTTTCTCTT 58.137 37.500 0.00 0.00 33.92 2.85
80 81 4.914983 TGGATGAGCATTCTGACTCTTTT 58.085 39.130 0.00 0.00 33.92 2.27
95 97 2.141517 GCGAATGGTGAGATGGATGAG 58.858 52.381 0.00 0.00 0.00 2.90
98 100 1.487976 ACTGCGAATGGTGAGATGGAT 59.512 47.619 0.00 0.00 0.00 3.41
140 143 2.948979 ACATTTCTTTGTCGAGGCAACA 59.051 40.909 0.00 0.00 41.41 3.33
141 144 3.003275 TCACATTTCTTTGTCGAGGCAAC 59.997 43.478 0.00 0.00 0.00 4.17
143 146 2.844946 TCACATTTCTTTGTCGAGGCA 58.155 42.857 0.00 0.00 0.00 4.75
148 151 6.094048 ACCTATGGATTCACATTTCTTTGTCG 59.906 38.462 0.00 0.00 32.39 4.35
153 156 7.286316 GGAATGACCTATGGATTCACATTTCTT 59.714 37.037 0.00 0.00 35.41 2.52
155 158 6.974965 GGAATGACCTATGGATTCACATTTC 58.025 40.000 0.00 0.00 35.41 2.17
229 243 2.286294 GGAAAGCTCAGATGCGTACATG 59.714 50.000 0.00 0.00 36.35 3.21
230 244 2.093500 TGGAAAGCTCAGATGCGTACAT 60.093 45.455 0.00 0.00 39.98 2.29
231 245 1.275010 TGGAAAGCTCAGATGCGTACA 59.725 47.619 0.00 0.00 38.13 2.90
232 246 1.661112 GTGGAAAGCTCAGATGCGTAC 59.339 52.381 0.00 0.00 38.13 3.67
233 247 1.275010 TGTGGAAAGCTCAGATGCGTA 59.725 47.619 0.00 0.00 38.13 4.42
234 248 0.035317 TGTGGAAAGCTCAGATGCGT 59.965 50.000 0.00 0.00 38.13 5.24
235 249 1.329906 GATGTGGAAAGCTCAGATGCG 59.670 52.381 0.00 0.00 38.13 4.73
236 250 2.097142 GTGATGTGGAAAGCTCAGATGC 59.903 50.000 0.00 0.00 0.00 3.91
237 251 2.350804 CGTGATGTGGAAAGCTCAGATG 59.649 50.000 0.00 0.00 0.00 2.90
238 252 2.625737 CGTGATGTGGAAAGCTCAGAT 58.374 47.619 0.00 0.00 0.00 2.90
239 253 1.338105 CCGTGATGTGGAAAGCTCAGA 60.338 52.381 0.00 0.00 0.00 3.27
240 254 1.081892 CCGTGATGTGGAAAGCTCAG 58.918 55.000 0.00 0.00 0.00 3.35
241 255 0.321564 CCCGTGATGTGGAAAGCTCA 60.322 55.000 0.00 0.00 0.00 4.26
242 256 1.648467 GCCCGTGATGTGGAAAGCTC 61.648 60.000 0.00 0.00 0.00 4.09
243 257 1.675641 GCCCGTGATGTGGAAAGCT 60.676 57.895 0.00 0.00 0.00 3.74
244 258 1.244019 AAGCCCGTGATGTGGAAAGC 61.244 55.000 0.00 0.00 0.00 3.51
245 259 0.804989 GAAGCCCGTGATGTGGAAAG 59.195 55.000 0.00 0.00 0.00 2.62
246 260 0.109532 TGAAGCCCGTGATGTGGAAA 59.890 50.000 0.00 0.00 0.00 3.13
353 425 5.385617 CAACTTGCTTCTATTGAGAAACGG 58.614 41.667 0.00 0.00 41.23 4.44
402 498 1.002315 ACCAAGATTTGTGGCAATGGC 59.998 47.619 0.00 0.00 40.02 4.40
404 500 2.228582 TCGACCAAGATTTGTGGCAATG 59.771 45.455 0.00 0.00 40.02 2.82
451 562 1.086696 ATCAAAATCGTGACGCCCAG 58.913 50.000 0.00 0.00 0.00 4.45
454 565 0.523335 GCCATCAAAATCGTGACGCC 60.523 55.000 0.00 0.00 0.00 5.68
455 566 0.857311 CGCCATCAAAATCGTGACGC 60.857 55.000 0.00 0.00 0.00 5.19
456 567 0.718904 TCGCCATCAAAATCGTGACG 59.281 50.000 0.00 0.00 0.00 4.35
457 568 1.732259 AGTCGCCATCAAAATCGTGAC 59.268 47.619 0.00 0.00 34.77 3.67
459 570 1.464608 ACAGTCGCCATCAAAATCGTG 59.535 47.619 0.00 0.00 0.00 4.35
462 573 4.882671 ATGTACAGTCGCCATCAAAATC 57.117 40.909 0.33 0.00 0.00 2.17
463 574 4.273480 GCTATGTACAGTCGCCATCAAAAT 59.727 41.667 0.33 0.00 0.00 1.82
466 577 2.167487 TGCTATGTACAGTCGCCATCAA 59.833 45.455 0.33 0.00 0.00 2.57
524 659 1.722464 GCATGTTCTACACGCACGTAA 59.278 47.619 0.00 0.00 37.25 3.18
653 1224 3.320879 CTGATCACTGCGTGCCCCT 62.321 63.158 0.00 0.00 32.98 4.79
699 3175 2.264005 TAGCGGGAGAAAACAAAGCA 57.736 45.000 0.00 0.00 0.00 3.91
851 3361 9.028284 AGATATTTTCTGGCAATTCTGAAAGAA 57.972 29.630 0.00 0.00 45.54 2.52
852 3362 8.464404 CAGATATTTTCTGGCAATTCTGAAAGA 58.536 33.333 0.00 0.00 46.89 2.52
853 3363 8.630278 CAGATATTTTCTGGCAATTCTGAAAG 57.370 34.615 0.00 0.00 46.89 2.62
989 4025 2.701107 TGACCGCCATTAATCGACAAA 58.299 42.857 0.00 0.00 0.00 2.83
991 4027 2.276201 CTTGACCGCCATTAATCGACA 58.724 47.619 0.00 0.00 0.00 4.35
1038 4074 1.850289 TAGCTTGGCCACCTGGGAA 60.850 57.895 3.88 0.00 40.01 3.97
1259 4328 2.359169 GGACGGACTGATCCAGCCA 61.359 63.158 0.00 0.00 46.67 4.75
1452 4552 2.860735 CTCTTGCCGTATCTTTTCCTCG 59.139 50.000 0.00 0.00 0.00 4.63
1462 4562 2.160721 TCTTCCTCCTCTTGCCGTAT 57.839 50.000 0.00 0.00 0.00 3.06
1479 4582 2.294791 CACCTCGACTTCACAGTCTTCT 59.705 50.000 1.12 0.00 46.67 2.85
1497 4615 0.244450 TCGTCACGTAACCATCCACC 59.756 55.000 0.00 0.00 0.00 4.61
1503 4624 1.135888 CGACTCATCGTCACGTAACCA 60.136 52.381 0.00 0.00 43.66 3.67
1713 4866 5.912149 AATCCTAAGCATATGAACAGGGA 57.088 39.130 6.97 7.06 0.00 4.20
1725 4878 3.134574 ACACACCGAAAATCCTAAGCA 57.865 42.857 0.00 0.00 0.00 3.91
1775 4930 1.289160 TGCTGGAGATGCCCTTAAGT 58.711 50.000 0.97 0.00 34.97 2.24
1791 4946 3.875134 CGAAAGGATATTTACGGGTTGCT 59.125 43.478 0.00 0.00 0.00 3.91
1796 4951 2.473984 GACGCGAAAGGATATTTACGGG 59.526 50.000 15.93 0.00 39.01 5.28
1805 4960 4.832608 GGGCGGACGCGAAAGGAT 62.833 66.667 15.93 0.00 43.06 3.24
1824 4979 1.202855 CCATTGGCTGGTCCCTATCTG 60.203 57.143 0.00 0.00 40.49 2.90
1827 4982 0.846693 GTCCATTGGCTGGTCCCTAT 59.153 55.000 0.00 0.00 46.08 2.57
1828 4983 0.548926 TGTCCATTGGCTGGTCCCTA 60.549 55.000 0.00 0.00 46.08 3.53
1838 4993 2.472059 CCGCATCCGTGTCCATTGG 61.472 63.158 0.00 0.00 0.00 3.16
1934 5091 7.406031 TTTTGGCCGGTTTATATGAAATACA 57.594 32.000 1.90 0.00 0.00 2.29
1953 5112 7.969536 ATATCCAGAATGTAGACGATTTTGG 57.030 36.000 0.00 0.00 36.73 3.28
2001 5160 2.202770 CCCCGTACGCGCACATAA 60.203 61.111 10.49 0.00 36.67 1.90
2021 5183 2.262915 GTCGTGGGAGTGGAGCTG 59.737 66.667 0.00 0.00 0.00 4.24
2092 5254 4.819761 GCGAGCTGCCGGACATGA 62.820 66.667 5.05 0.00 37.76 3.07
2175 5338 0.250684 TTTGCCACTCCGATGAGCAA 60.251 50.000 0.00 0.00 42.74 3.91
2200 5363 2.354203 CCCTTCCTCTCCGTTTGAAGAG 60.354 54.545 0.00 0.00 37.07 2.85
2273 5436 3.002348 CAGTGACTTGTCCGGTTCTTTTC 59.998 47.826 0.00 0.00 0.00 2.29
2274 5437 2.943033 CAGTGACTTGTCCGGTTCTTTT 59.057 45.455 0.00 0.00 0.00 2.27
2332 5496 2.218603 CTACCACCACTTGTGTCCAAC 58.781 52.381 0.00 0.00 43.85 3.77
2357 5521 4.039973 ACATTGAGGGAAAGTAGAACACGA 59.960 41.667 0.00 0.00 0.00 4.35
2376 5540 2.292126 TGGGATGTTACATGCCCACATT 60.292 45.455 28.45 0.00 45.31 2.71
2381 5545 4.486125 AAATTTGGGATGTTACATGCCC 57.514 40.909 28.45 23.31 41.08 5.36
2443 5607 9.933723 GGATTAAGCCAAAATGCAATAGAATAT 57.066 29.630 4.48 0.00 0.00 1.28
2444 5608 9.146586 AGGATTAAGCCAAAATGCAATAGAATA 57.853 29.630 13.21 0.00 0.00 1.75
2445 5609 8.026396 AGGATTAAGCCAAAATGCAATAGAAT 57.974 30.769 13.21 0.00 0.00 2.40
2446 5610 7.422465 AGGATTAAGCCAAAATGCAATAGAA 57.578 32.000 13.21 0.00 0.00 2.10
2447 5611 7.998383 TCTAGGATTAAGCCAAAATGCAATAGA 59.002 33.333 13.21 4.17 0.00 1.98
2448 5612 8.169977 TCTAGGATTAAGCCAAAATGCAATAG 57.830 34.615 13.21 1.76 0.00 1.73
2449 5613 8.532186 TTCTAGGATTAAGCCAAAATGCAATA 57.468 30.769 13.21 0.00 0.00 1.90
2450 5614 7.422465 TTCTAGGATTAAGCCAAAATGCAAT 57.578 32.000 13.21 0.00 0.00 3.56
2451 5615 6.849085 TTCTAGGATTAAGCCAAAATGCAA 57.151 33.333 13.21 0.00 0.00 4.08
2452 5616 6.849085 TTTCTAGGATTAAGCCAAAATGCA 57.151 33.333 13.21 0.00 0.00 3.96
2453 5617 8.200120 AGAATTTCTAGGATTAAGCCAAAATGC 58.800 33.333 13.21 12.53 0.00 3.56
2456 5620 8.889717 CGTAGAATTTCTAGGATTAAGCCAAAA 58.110 33.333 13.21 9.63 37.10 2.44
2457 5621 7.012044 GCGTAGAATTTCTAGGATTAAGCCAAA 59.988 37.037 23.59 4.36 37.10 3.28
2458 5622 6.482308 GCGTAGAATTTCTAGGATTAAGCCAA 59.518 38.462 23.59 0.00 37.10 4.52
2459 5623 5.989777 GCGTAGAATTTCTAGGATTAAGCCA 59.010 40.000 23.59 0.00 37.10 4.75
2460 5624 5.989777 TGCGTAGAATTTCTAGGATTAAGCC 59.010 40.000 23.59 0.05 37.10 4.35
2461 5625 7.224949 AGTTGCGTAGAATTTCTAGGATTAAGC 59.775 37.037 23.59 11.32 37.10 3.09
2462 5626 8.649973 AGTTGCGTAGAATTTCTAGGATTAAG 57.350 34.615 23.59 2.69 37.10 1.85
2463 5627 8.255206 TGAGTTGCGTAGAATTTCTAGGATTAA 58.745 33.333 23.59 14.37 37.10 1.40
2464 5628 7.778083 TGAGTTGCGTAGAATTTCTAGGATTA 58.222 34.615 23.59 10.48 37.10 1.75
2465 5629 6.640518 TGAGTTGCGTAGAATTTCTAGGATT 58.359 36.000 23.59 9.68 37.10 3.01
2466 5630 6.222038 TGAGTTGCGTAGAATTTCTAGGAT 57.778 37.500 23.59 10.22 37.10 3.24
2467 5631 5.654603 TGAGTTGCGTAGAATTTCTAGGA 57.345 39.130 23.59 10.26 37.10 2.94
2468 5632 5.292101 CCTTGAGTTGCGTAGAATTTCTAGG 59.708 44.000 17.73 17.73 37.76 3.02
2469 5633 6.035112 GTCCTTGAGTTGCGTAGAATTTCTAG 59.965 42.308 6.37 3.18 28.01 2.43
2470 5634 5.867716 GTCCTTGAGTTGCGTAGAATTTCTA 59.132 40.000 1.90 1.90 0.00 2.10
2471 5635 4.691216 GTCCTTGAGTTGCGTAGAATTTCT 59.309 41.667 4.03 4.03 0.00 2.52
2472 5636 4.142881 GGTCCTTGAGTTGCGTAGAATTTC 60.143 45.833 0.00 0.00 0.00 2.17
2473 5637 3.751698 GGTCCTTGAGTTGCGTAGAATTT 59.248 43.478 0.00 0.00 0.00 1.82
2474 5638 3.335579 GGTCCTTGAGTTGCGTAGAATT 58.664 45.455 0.00 0.00 0.00 2.17
2475 5639 2.354805 GGGTCCTTGAGTTGCGTAGAAT 60.355 50.000 0.00 0.00 0.00 2.40
2476 5640 1.001633 GGGTCCTTGAGTTGCGTAGAA 59.998 52.381 0.00 0.00 0.00 2.10
2477 5641 0.606604 GGGTCCTTGAGTTGCGTAGA 59.393 55.000 0.00 0.00 0.00 2.59
2478 5642 0.320374 TGGGTCCTTGAGTTGCGTAG 59.680 55.000 0.00 0.00 0.00 3.51
2479 5643 0.034337 GTGGGTCCTTGAGTTGCGTA 59.966 55.000 0.00 0.00 0.00 4.42
2480 5644 1.227853 GTGGGTCCTTGAGTTGCGT 60.228 57.895 0.00 0.00 0.00 5.24
2481 5645 2.317609 CGTGGGTCCTTGAGTTGCG 61.318 63.158 0.00 0.00 0.00 4.85
2482 5646 0.534203 TTCGTGGGTCCTTGAGTTGC 60.534 55.000 0.00 0.00 0.00 4.17
2483 5647 1.070134 TCTTCGTGGGTCCTTGAGTTG 59.930 52.381 0.00 0.00 0.00 3.16
2484 5648 1.344763 CTCTTCGTGGGTCCTTGAGTT 59.655 52.381 0.00 0.00 0.00 3.01
2485 5649 0.969894 CTCTTCGTGGGTCCTTGAGT 59.030 55.000 0.00 0.00 0.00 3.41
2486 5650 1.203523 CTCTCTTCGTGGGTCCTTGAG 59.796 57.143 0.00 0.00 0.00 3.02
2487 5651 1.257743 CTCTCTTCGTGGGTCCTTGA 58.742 55.000 0.00 0.00 0.00 3.02
2488 5652 0.969894 ACTCTCTTCGTGGGTCCTTG 59.030 55.000 0.00 0.00 0.00 3.61
2489 5653 1.344763 CAACTCTCTTCGTGGGTCCTT 59.655 52.381 0.00 0.00 0.00 3.36
2490 5654 0.969894 CAACTCTCTTCGTGGGTCCT 59.030 55.000 0.00 0.00 0.00 3.85
2491 5655 0.037232 CCAACTCTCTTCGTGGGTCC 60.037 60.000 0.00 0.00 0.00 4.46
2492 5656 0.037232 CCCAACTCTCTTCGTGGGTC 60.037 60.000 0.00 0.00 32.22 4.46
2493 5657 1.481056 CCCCAACTCTCTTCGTGGGT 61.481 60.000 6.82 0.00 34.92 4.51
2494 5658 1.192146 TCCCCAACTCTCTTCGTGGG 61.192 60.000 0.30 0.30 36.40 4.61
2495 5659 0.905357 ATCCCCAACTCTCTTCGTGG 59.095 55.000 0.00 0.00 0.00 4.94
2496 5660 2.770164 AATCCCCAACTCTCTTCGTG 57.230 50.000 0.00 0.00 0.00 4.35
2497 5661 2.353803 CGAAATCCCCAACTCTCTTCGT 60.354 50.000 0.00 0.00 31.90 3.85
2498 5662 2.271800 CGAAATCCCCAACTCTCTTCG 58.728 52.381 0.00 0.00 0.00 3.79
2499 5663 3.336138 ACGAAATCCCCAACTCTCTTC 57.664 47.619 0.00 0.00 0.00 2.87
2500 5664 3.790089 AACGAAATCCCCAACTCTCTT 57.210 42.857 0.00 0.00 0.00 2.85
2501 5665 5.437191 AATAACGAAATCCCCAACTCTCT 57.563 39.130 0.00 0.00 0.00 3.10
2502 5666 6.150474 TGAAAATAACGAAATCCCCAACTCTC 59.850 38.462 0.00 0.00 0.00 3.20
2503 5667 6.007703 TGAAAATAACGAAATCCCCAACTCT 58.992 36.000 0.00 0.00 0.00 3.24
2504 5668 6.262193 TGAAAATAACGAAATCCCCAACTC 57.738 37.500 0.00 0.00 0.00 3.01
2505 5669 6.850752 ATGAAAATAACGAAATCCCCAACT 57.149 33.333 0.00 0.00 0.00 3.16
2506 5670 9.594478 AAATATGAAAATAACGAAATCCCCAAC 57.406 29.630 0.00 0.00 0.00 3.77
2507 5671 9.593134 CAAATATGAAAATAACGAAATCCCCAA 57.407 29.630 0.00 0.00 0.00 4.12
2508 5672 8.972127 TCAAATATGAAAATAACGAAATCCCCA 58.028 29.630 0.00 0.00 30.99 4.96
2509 5673 9.463443 CTCAAATATGAAAATAACGAAATCCCC 57.537 33.333 0.00 0.00 34.49 4.81
2532 5696 9.369904 CCTCTTTTCAAAATTTGAGAAAACTCA 57.630 29.630 19.70 0.00 41.38 3.41
2533 5697 9.586435 TCCTCTTTTCAAAATTTGAGAAAACTC 57.414 29.630 19.70 0.00 41.38 3.01
2541 5705 9.275398 CCAATTGATCCTCTTTTCAAAATTTGA 57.725 29.630 7.12 4.03 35.63 2.69
2542 5706 9.059260 ACCAATTGATCCTCTTTTCAAAATTTG 57.941 29.630 7.12 0.00 35.63 2.32
2543 5707 9.631257 AACCAATTGATCCTCTTTTCAAAATTT 57.369 25.926 7.12 0.00 35.63 1.82
2544 5708 9.631257 AAACCAATTGATCCTCTTTTCAAAATT 57.369 25.926 7.12 0.00 35.63 1.82
2545 5709 9.631257 AAAACCAATTGATCCTCTTTTCAAAAT 57.369 25.926 7.12 0.00 35.63 1.82
2546 5710 8.891720 CAAAACCAATTGATCCTCTTTTCAAAA 58.108 29.630 7.12 0.00 35.63 2.44
2547 5711 8.263640 TCAAAACCAATTGATCCTCTTTTCAAA 58.736 29.630 7.12 0.00 35.63 2.69
2548 5712 7.790027 TCAAAACCAATTGATCCTCTTTTCAA 58.210 30.769 7.12 0.00 34.50 2.69
2549 5713 7.358770 TCAAAACCAATTGATCCTCTTTTCA 57.641 32.000 7.12 0.00 34.50 2.69
2550 5714 8.837788 AATCAAAACCAATTGATCCTCTTTTC 57.162 30.769 7.12 0.00 46.57 2.29


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

AutoCloner maintained by Alex Coulton.