Multiple sequence alignment - TraesCS6A01G362500

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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 TraesCS6A01G362500 chr6A 100.000 4227 0 0 1 4227 592338003 592342229 0.000000e+00 7806.0
1 TraesCS6A01G362500 chr6A 100.000 3971 0 0 4574 8544 592342576 592346546 0.000000e+00 7334.0
2 TraesCS6A01G362500 chr6A 95.450 967 30 7 1 957 396281670 396280708 0.000000e+00 1530.0
3 TraesCS6A01G362500 chr6A 95.135 966 37 3 1 956 157464015 157464980 0.000000e+00 1515.0
4 TraesCS6A01G362500 chr6A 82.063 669 70 17 1677 2329 612841369 612840735 7.600000e-145 525.0
5 TraesCS6A01G362500 chr6A 79.704 744 90 29 7551 8248 592354477 592355205 1.670000e-131 481.0
6 TraesCS6A01G362500 chr6A 75.694 720 122 24 7551 8226 592357744 592358454 2.320000e-80 311.0
7 TraesCS6A01G362500 chr6A 95.288 191 7 1 7363 7551 616103353 616103163 1.390000e-77 302.0
8 TraesCS6A01G362500 chr6A 75.098 763 127 33 7551 8260 610385525 610386277 1.800000e-76 298.0
9 TraesCS6A01G362500 chr6A 88.664 247 19 3 8298 8544 471163649 471163412 8.390000e-75 292.0
10 TraesCS6A01G362500 chr6A 82.075 318 48 3 6883 7192 592602522 592602206 6.580000e-66 263.0
11 TraesCS6A01G362500 chr6A 82.578 287 36 7 6985 7260 592456386 592456669 3.080000e-59 241.0
12 TraesCS6A01G362500 chr6A 85.446 213 9 5 7568 7758 616102409 616102197 1.450000e-47 202.0
13 TraesCS6A01G362500 chr6A 90.566 53 5 0 1965 2017 612841583 612841531 4.280000e-08 71.3
14 TraesCS6A01G362500 chr6D 95.152 2764 83 16 1489 4227 445725487 445728224 0.000000e+00 4314.0
15 TraesCS6A01G362500 chr6D 91.205 1535 101 17 6044 7551 445730047 445731574 0.000000e+00 2056.0
16 TraesCS6A01G362500 chr6D 93.899 967 46 6 1 956 8983522 8984486 0.000000e+00 1447.0
17 TraesCS6A01G362500 chr6D 92.659 899 33 9 4575 5460 445728264 445729142 0.000000e+00 1264.0
18 TraesCS6A01G362500 chr6D 94.098 610 23 9 7658 8259 445731619 445732223 0.000000e+00 915.0
19 TraesCS6A01G362500 chr6D 94.058 589 32 3 5459 6046 445729236 445729822 0.000000e+00 891.0
20 TraesCS6A01G362500 chr6D 95.938 517 15 5 957 1472 445724930 445725441 0.000000e+00 833.0
21 TraesCS6A01G362500 chr6D 88.492 252 8 6 8293 8544 445759349 445759119 1.400000e-72 285.0
22 TraesCS6A01G362500 chr6D 77.083 576 77 25 7551 8081 445757989 445757424 1.820000e-71 281.0
23 TraesCS6A01G362500 chr6D 85.714 252 17 8 8293 8544 403654424 403654192 1.840000e-61 248.0
24 TraesCS6A01G362500 chr6D 89.340 197 15 4 7055 7251 445758407 445758217 8.570000e-60 243.0
25 TraesCS6A01G362500 chr6D 88.816 152 16 1 8109 8260 445757435 445757285 1.460000e-42 185.0
26 TraesCS6A01G362500 chr6D 79.152 283 39 12 6991 7258 445786366 445786643 2.450000e-40 178.0
27 TraesCS6A01G362500 chr6D 85.821 134 16 3 8393 8525 466942891 466942760 1.160000e-28 139.0
28 TraesCS6A01G362500 chr6B 94.132 2454 96 26 1769 4216 672159319 672161730 0.000000e+00 3690.0
29 TraesCS6A01G362500 chr6B 95.546 1347 43 10 4708 6046 672162187 672163524 0.000000e+00 2139.0
30 TraesCS6A01G362500 chr6B 90.935 1412 106 12 6156 7551 672163831 672165236 0.000000e+00 1879.0
31 TraesCS6A01G362500 chr6B 93.464 765 39 7 1 756 695815134 695814372 0.000000e+00 1125.0
32 TraesCS6A01G362500 chr6B 92.875 786 31 13 957 1722 672158385 672159165 0.000000e+00 1118.0
33 TraesCS6A01G362500 chr6B 87.150 965 70 28 7568 8493 672166283 672167232 0.000000e+00 1046.0
34 TraesCS6A01G362500 chr6B 78.947 760 91 35 7551 8260 672193479 672194219 3.640000e-123 453.0
35 TraesCS6A01G362500 chr6B 100.000 43 0 0 6119 6161 672163775 672163817 7.110000e-11 80.5
36 TraesCS6A01G362500 chr6B 93.478 46 3 0 1721 1766 672159253 672159298 1.540000e-07 69.4
37 TraesCS6A01G362500 chr7A 95.756 966 31 3 1 956 699471798 699472763 0.000000e+00 1548.0
38 TraesCS6A01G362500 chr7A 93.168 966 38 12 1 956 512155119 512154172 0.000000e+00 1393.0
39 TraesCS6A01G362500 chr7A 95.286 594 18 3 1 584 642958203 642957610 0.000000e+00 933.0
40 TraesCS6A01G362500 chr7A 92.857 252 14 3 8293 8544 649200234 649200481 6.300000e-96 363.0
41 TraesCS6A01G362500 chr7A 88.845 251 20 5 8294 8544 735449066 735449308 1.390000e-77 302.0
42 TraesCS6A01G362500 chr3A 93.924 971 32 6 1 959 749433666 749432711 0.000000e+00 1441.0
43 TraesCS6A01G362500 chr5D 93.582 966 50 5 1 956 26842787 26843750 0.000000e+00 1430.0
44 TraesCS6A01G362500 chr5D 89.119 193 14 6 8284 8475 424170009 424170195 5.160000e-57 233.0
45 TraesCS6A01G362500 chr5D 87.903 124 8 4 8421 8544 377146368 377146252 1.160000e-28 139.0
46 TraesCS6A01G362500 chr5D 93.478 46 3 0 8480 8525 354507134 354507089 1.540000e-07 69.4
47 TraesCS6A01G362500 chr7D 92.141 967 52 9 1 957 613121277 613122229 0.000000e+00 1343.0
48 TraesCS6A01G362500 chr7D 81.925 509 56 21 261 762 203186350 203185871 1.730000e-106 398.0
49 TraesCS6A01G362500 chr7D 90.204 245 12 5 8300 8544 533485976 533486208 8.330000e-80 309.0
50 TraesCS6A01G362500 chr4A 92.252 968 33 10 1 956 583184824 583185761 0.000000e+00 1334.0
51 TraesCS6A01G362500 chr4A 84.532 459 52 11 306 756 5161310 5160863 3.660000e-118 436.0
52 TraesCS6A01G362500 chr4D 91.701 976 55 13 1 965 85735529 85734569 0.000000e+00 1330.0
53 TraesCS6A01G362500 chr4D 94.928 552 18 3 1 542 98466273 98466824 0.000000e+00 856.0
54 TraesCS6A01G362500 chr4D 90.438 251 17 4 8294 8544 11886881 11886638 2.970000e-84 324.0
55 TraesCS6A01G362500 chr4D 82.869 251 32 9 8280 8529 7739069 7739309 1.870000e-51 215.0
56 TraesCS6A01G362500 chr3D 91.822 966 55 9 1 956 331072922 331073873 0.000000e+00 1325.0
57 TraesCS6A01G362500 chr3D 90.837 251 18 4 8294 8544 170556140 170555895 1.780000e-86 331.0
58 TraesCS6A01G362500 chr3D 92.241 232 14 3 8294 8525 58397538 58397765 8.270000e-85 326.0
59 TraesCS6A01G362500 chr3D 90.541 222 13 8 8305 8525 448296178 448296392 3.900000e-73 287.0
60 TraesCS6A01G362500 chr3D 86.822 258 20 9 8287 8544 547454599 547454356 8.450000e-70 276.0
61 TraesCS6A01G362500 chrUn 82.810 669 66 22 1677 2329 228899635 228899000 3.490000e-153 553.0
62 TraesCS6A01G362500 chrUn 82.810 669 66 22 1677 2329 302120459 302119824 3.490000e-153 553.0
63 TraesCS6A01G362500 chrUn 85.714 112 12 2 8414 8525 81417248 81417355 1.950000e-21 115.0
64 TraesCS6A01G362500 chr1B 82.616 627 68 11 1724 2336 146617467 146616868 4.570000e-142 516.0
65 TraesCS6A01G362500 chr2A 82.381 630 71 12 1721 2336 602402324 602402927 5.920000e-141 512.0
66 TraesCS6A01G362500 chr7B 83.964 555 61 8 1783 2336 39842575 39843102 2.750000e-139 507.0
67 TraesCS6A01G362500 chr7B 88.356 292 30 2 2026 2313 113520693 113520402 1.770000e-91 348.0
68 TraesCS6A01G362500 chr5A 90.493 284 23 2 2026 2305 455892170 455891887 1.050000e-98 372.0
69 TraesCS6A01G362500 chr5A 88.710 248 22 3 8297 8544 46561221 46560980 1.800000e-76 298.0
70 TraesCS6A01G362500 chr3B 93.600 250 13 3 8295 8544 606379561 606379315 3.770000e-98 370.0
71 TraesCS6A01G362500 chr5B 89.384 292 27 2 2026 2313 47428134 47428425 1.750000e-96 364.0
72 TraesCS6A01G362500 chr5B 88.699 292 29 2 2026 2313 7766760 7766469 3.790000e-93 353.0
73 TraesCS6A01G362500 chr2D 90.517 232 16 2 8294 8525 11777398 11777623 1.390000e-77 302.0
74 TraesCS6A01G362500 chr1A 90.547 201 15 3 8294 8494 558980204 558980400 6.580000e-66 263.0
75 TraesCS6A01G362500 chr1A 83.761 234 29 8 8295 8526 450098652 450098878 6.720000e-51 213.0
76 TraesCS6A01G362500 chr1D 87.446 231 24 5 8295 8525 349796925 349797150 2.370000e-65 261.0


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 TraesCS6A01G362500 chr6A 592338003 592346546 8543 False 7570.000000 7806 100.000000 1 8544 2 chr6A.!!$F4 8543
1 TraesCS6A01G362500 chr6A 396280708 396281670 962 True 1530.000000 1530 95.450000 1 957 1 chr6A.!!$R1 956
2 TraesCS6A01G362500 chr6A 157464015 157464980 965 False 1515.000000 1515 95.135000 1 956 1 chr6A.!!$F1 955
3 TraesCS6A01G362500 chr6A 592354477 592358454 3977 False 396.000000 481 77.699000 7551 8248 2 chr6A.!!$F5 697
4 TraesCS6A01G362500 chr6A 612840735 612841583 848 True 298.150000 525 86.314500 1677 2329 2 chr6A.!!$R4 652
5 TraesCS6A01G362500 chr6A 610385525 610386277 752 False 298.000000 298 75.098000 7551 8260 1 chr6A.!!$F3 709
6 TraesCS6A01G362500 chr6A 616102197 616103353 1156 True 252.000000 302 90.367000 7363 7758 2 chr6A.!!$R5 395
7 TraesCS6A01G362500 chr6D 445724930 445732223 7293 False 1712.166667 4314 93.851667 957 8259 6 chr6D.!!$F3 7302
8 TraesCS6A01G362500 chr6D 8983522 8984486 964 False 1447.000000 1447 93.899000 1 956 1 chr6D.!!$F1 955
9 TraesCS6A01G362500 chr6D 445757285 445759349 2064 True 248.500000 285 85.932750 7055 8544 4 chr6D.!!$R3 1489
10 TraesCS6A01G362500 chr6B 672158385 672167232 8847 False 1431.700000 3690 93.445143 957 8493 7 chr6B.!!$F2 7536
11 TraesCS6A01G362500 chr6B 695814372 695815134 762 True 1125.000000 1125 93.464000 1 756 1 chr6B.!!$R1 755
12 TraesCS6A01G362500 chr6B 672193479 672194219 740 False 453.000000 453 78.947000 7551 8260 1 chr6B.!!$F1 709
13 TraesCS6A01G362500 chr7A 699471798 699472763 965 False 1548.000000 1548 95.756000 1 956 1 chr7A.!!$F2 955
14 TraesCS6A01G362500 chr7A 512154172 512155119 947 True 1393.000000 1393 93.168000 1 956 1 chr7A.!!$R1 955
15 TraesCS6A01G362500 chr7A 642957610 642958203 593 True 933.000000 933 95.286000 1 584 1 chr7A.!!$R2 583
16 TraesCS6A01G362500 chr3A 749432711 749433666 955 True 1441.000000 1441 93.924000 1 959 1 chr3A.!!$R1 958
17 TraesCS6A01G362500 chr5D 26842787 26843750 963 False 1430.000000 1430 93.582000 1 956 1 chr5D.!!$F1 955
18 TraesCS6A01G362500 chr7D 613121277 613122229 952 False 1343.000000 1343 92.141000 1 957 1 chr7D.!!$F2 956
19 TraesCS6A01G362500 chr4A 583184824 583185761 937 False 1334.000000 1334 92.252000 1 956 1 chr4A.!!$F1 955
20 TraesCS6A01G362500 chr4D 85734569 85735529 960 True 1330.000000 1330 91.701000 1 965 1 chr4D.!!$R2 964
21 TraesCS6A01G362500 chr4D 98466273 98466824 551 False 856.000000 856 94.928000 1 542 1 chr4D.!!$F2 541
22 TraesCS6A01G362500 chr3D 331072922 331073873 951 False 1325.000000 1325 91.822000 1 956 1 chr3D.!!$F2 955
23 TraesCS6A01G362500 chrUn 228899000 228899635 635 True 553.000000 553 82.810000 1677 2329 1 chrUn.!!$R1 652
24 TraesCS6A01G362500 chrUn 302119824 302120459 635 True 553.000000 553 82.810000 1677 2329 1 chrUn.!!$R2 652
25 TraesCS6A01G362500 chr1B 146616868 146617467 599 True 516.000000 516 82.616000 1724 2336 1 chr1B.!!$R1 612
26 TraesCS6A01G362500 chr2A 602402324 602402927 603 False 512.000000 512 82.381000 1721 2336 1 chr2A.!!$F1 615
27 TraesCS6A01G362500 chr7B 39842575 39843102 527 False 507.000000 507 83.964000 1783 2336 1 chr7B.!!$F1 553

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
678 711 0.251608 GAGGGTTGGGCCAGCTTAAA 60.252 55.000 20.22 0.0 39.65 1.52 F
1846 2023 0.599558 TGGATGCTCTGCTTTGCAAC 59.400 50.000 0.00 0.0 42.74 4.17 F
2757 2939 1.402968 CTTTGAGGTCAATGCCATCCG 59.597 52.381 0.00 0.0 35.55 4.18 F
2831 3013 2.147958 GTTGGTACGTCCATGCTTCAA 58.852 47.619 7.43 0.0 46.60 2.69 F
4216 4404 2.849294 AGGAAGGTGTGCTTCTCTTC 57.151 50.000 0.00 0.0 36.00 2.87 F
4219 4407 3.070748 GGAAGGTGTGCTTCTCTTCTTC 58.929 50.000 0.00 0.0 36.71 2.87 F
5942 6293 1.537202 CCACCTCTTGCAAGCACTTAC 59.463 52.381 21.99 0.0 0.00 2.34 F
6403 7006 0.744281 AAACCCGGCACTTGTTTCTG 59.256 50.000 0.00 0.0 0.00 3.02 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2227 2408 0.847373 TGGAAGCCACCAACTAACCA 59.153 50.000 0.00 0.00 36.96 3.67 R
2889 3071 3.731089 ACGGTCAAACCTTCGATGTAAA 58.269 40.909 0.00 0.00 35.66 2.01 R
4037 4225 3.070018 CTGCAGGAAGTCCAACACTAAG 58.930 50.000 5.57 0.00 38.89 2.18 R
4771 5010 5.626543 CAGGATGTTTGAAACAATTCACTCG 59.373 40.000 15.31 0.00 45.01 4.18 R
5405 5657 1.134098 GCTCTAAGCCAGGGTGCATAA 60.134 52.381 0.00 0.00 34.48 1.90 R
6187 6788 1.401905 CCCAGCAGCGGTTTTAAGATC 59.598 52.381 3.11 0.00 0.00 2.75 R
7341 7955 0.253044 GTCTGCAACCCTATCCTGCA 59.747 55.000 0.00 0.00 43.54 4.41 R
7840 9540 0.605319 ACACAGTGTACCGGCCATTG 60.605 55.000 3.69 13.55 0.00 2.82 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
492 498 3.485463 TTCCTGTGGATGAAAACGAGT 57.515 42.857 0.00 0.00 0.00 4.18
565 580 3.748048 CGGACTTGCAAGATTTGAGAAGA 59.252 43.478 32.50 0.00 0.00 2.87
665 698 0.545548 GTGTGAGGGGAGAGAGGGTT 60.546 60.000 0.00 0.00 0.00 4.11
674 707 3.334054 GAGAGGGTTGGGCCAGCT 61.334 66.667 20.22 7.42 39.65 4.24
678 711 0.251608 GAGGGTTGGGCCAGCTTAAA 60.252 55.000 20.22 0.00 39.65 1.52
849 882 1.518572 GCATAGTAGTGTGCGGCGT 60.519 57.895 9.37 0.00 30.39 5.68
913 947 4.823790 TTTTTCGGAAGCAGGTTAGTTC 57.176 40.909 0.00 0.00 0.00 3.01
1044 1079 4.037446 CCTCACAAAATTCGAACTTTCCCA 59.963 41.667 0.84 0.00 0.00 4.37
1289 1325 4.421479 CCGCCGCTCGAAGACTGT 62.421 66.667 0.00 0.00 41.67 3.55
1446 1482 2.561419 CTCCTCAACACCGGTAAGAAGA 59.439 50.000 6.87 4.00 0.00 2.87
1484 1520 1.916505 CACTTGCGGTTTGTTTGCG 59.083 52.632 0.00 0.00 0.00 4.85
1485 1521 1.226831 ACTTGCGGTTTGTTTGCGG 60.227 52.632 0.00 0.00 0.00 5.69
1525 1590 2.380064 TGGGGATTTTTGCTCTGTGT 57.620 45.000 0.00 0.00 0.00 3.72
1722 1876 3.714144 TCCCCTCTCTGTTTCCTTCTAG 58.286 50.000 0.00 0.00 0.00 2.43
1753 1907 5.157781 GCAATTTAAGTGGTATGCGTTGAA 58.842 37.500 0.00 0.00 0.00 2.69
1766 1920 3.049206 TGCGTTGAAACATTTGCTTAGC 58.951 40.909 0.00 0.00 0.00 3.09
1767 1921 3.049206 GCGTTGAAACATTTGCTTAGCA 58.951 40.909 1.39 1.39 36.47 3.49
1846 2023 0.599558 TGGATGCTCTGCTTTGCAAC 59.400 50.000 0.00 0.00 42.74 4.17
1960 2138 3.371917 CCTCTGAAGATGGGGCATACAAA 60.372 47.826 0.00 0.00 0.00 2.83
2063 2242 9.305925 CAATCTCTTGTTTGCTTAATAATTCCC 57.694 33.333 0.00 0.00 0.00 3.97
2111 2291 3.189287 GGAATGTTAGCAGTGACACTTGG 59.811 47.826 5.04 0.00 0.00 3.61
2164 2344 1.838568 GACGGTTGGTTGCGAACTCC 61.839 60.000 0.00 0.00 0.00 3.85
2185 2365 3.518590 CGCTTTACCTAGGACGATTTGT 58.481 45.455 17.98 0.00 0.00 2.83
2241 2422 4.857509 TTTACATTGGTTAGTTGGTGGC 57.142 40.909 0.00 0.00 0.00 5.01
2580 2761 1.752498 TCGGTGTACTTCATACGGCAT 59.248 47.619 0.00 0.00 36.47 4.40
2757 2939 1.402968 CTTTGAGGTCAATGCCATCCG 59.597 52.381 0.00 0.00 35.55 4.18
2831 3013 2.147958 GTTGGTACGTCCATGCTTCAA 58.852 47.619 7.43 0.00 46.60 2.69
2962 3144 7.377766 TGAAAGTGCTAATATGTCCAACTTC 57.622 36.000 0.00 0.00 0.00 3.01
3038 3221 8.422566 GTGCTTAGGTCTATCAGTACCTTTTAT 58.577 37.037 0.00 0.00 43.77 1.40
3078 3261 9.742144 TCTAGTTGTCTCTTCTATAACTTGAGT 57.258 33.333 0.00 0.00 33.93 3.41
3214 3400 3.689649 CACTAAAGGGAGGTACAATGTGC 59.310 47.826 0.00 0.00 0.00 4.57
3256 3442 3.885901 GGGCAGAAGAATGAATCCTAACC 59.114 47.826 0.00 0.00 0.00 2.85
3401 3587 5.163913 CGAGAATTGGTTGTCAGAAGATCAC 60.164 44.000 0.00 0.00 0.00 3.06
3475 3661 4.098196 TCATCTGTTGCATCTCTCTCTCTG 59.902 45.833 0.00 0.00 0.00 3.35
3476 3662 3.429492 TCTGTTGCATCTCTCTCTCTGT 58.571 45.455 0.00 0.00 0.00 3.41
3477 3663 3.443329 TCTGTTGCATCTCTCTCTCTGTC 59.557 47.826 0.00 0.00 0.00 3.51
3478 3664 3.429492 TGTTGCATCTCTCTCTCTGTCT 58.571 45.455 0.00 0.00 0.00 3.41
3479 3665 3.443329 TGTTGCATCTCTCTCTCTGTCTC 59.557 47.826 0.00 0.00 0.00 3.36
3480 3666 3.650281 TGCATCTCTCTCTCTGTCTCT 57.350 47.619 0.00 0.00 0.00 3.10
3659 3847 6.226787 ACGAGTCATCAAAAAGTTCTCAGAT 58.773 36.000 0.00 0.00 0.00 2.90
3714 3902 6.319658 ACCTGGCTATATTGTTTTCACTGATG 59.680 38.462 0.00 0.00 0.00 3.07
3748 3936 6.628919 TCAAAATGATATCAGATGCCAGTG 57.371 37.500 11.78 1.49 0.00 3.66
4037 4225 4.576463 ACGGGATTAAATGAGACAATCAGC 59.424 41.667 0.00 0.00 42.53 4.26
4216 4404 2.849294 AGGAAGGTGTGCTTCTCTTC 57.151 50.000 0.00 0.00 36.00 2.87
4219 4407 3.070748 GGAAGGTGTGCTTCTCTTCTTC 58.929 50.000 0.00 0.00 36.71 2.87
4658 4897 5.640147 ACTCAGTTTGATGGGAATGGTTAA 58.360 37.500 0.00 0.00 0.00 2.01
4937 5176 7.636150 AGGTCAAGATGAATCAAGGTATTTG 57.364 36.000 0.00 0.00 38.17 2.32
5495 5844 7.268212 TGGTACAGGGGTGTTACATTATAAA 57.732 36.000 0.00 0.00 0.00 1.40
5497 5846 6.769341 GGTACAGGGGTGTTACATTATAAAGG 59.231 42.308 0.00 0.00 0.00 3.11
5498 5847 6.397217 ACAGGGGTGTTACATTATAAAGGT 57.603 37.500 0.00 0.00 0.00 3.50
5499 5848 6.184789 ACAGGGGTGTTACATTATAAAGGTG 58.815 40.000 0.00 0.00 0.00 4.00
5501 5850 6.317893 CAGGGGTGTTACATTATAAAGGTGTC 59.682 42.308 0.00 0.00 0.00 3.67
5502 5851 6.012333 AGGGGTGTTACATTATAAAGGTGTCA 60.012 38.462 0.00 1.56 0.00 3.58
5510 5859 7.750229 ACATTATAAAGGTGTCATGGCATAG 57.250 36.000 1.89 0.00 0.00 2.23
5571 5920 5.407387 TGCGAGGTTTACTATTTGAAGTGAC 59.593 40.000 0.00 0.00 0.00 3.67
5629 5978 6.861055 TCGCCAACTGTTCAAATAGAAATTTC 59.139 34.615 10.33 10.33 38.13 2.17
5830 6181 7.730364 AATGTGAGTAACTACAAGGTTCAAG 57.270 36.000 0.00 0.00 0.00 3.02
5839 6190 3.099267 ACAAGGTTCAAGACAGTCTCG 57.901 47.619 2.72 0.00 0.00 4.04
5924 6275 2.905415 ATGGAGCCTTGTTTCATCCA 57.095 45.000 0.00 0.00 43.82 3.41
5942 6293 1.537202 CCACCTCTTGCAAGCACTTAC 59.463 52.381 21.99 0.00 0.00 2.34
5980 6331 7.308782 ACATTCTGCTCCTAATTTCTTTACG 57.691 36.000 0.00 0.00 0.00 3.18
5987 6338 6.877322 TGCTCCTAATTTCTTTACGTAAGCTT 59.123 34.615 8.23 3.48 45.62 3.74
6002 6353 7.916914 ACGTAAGCTTAAATGGATGTACTTT 57.083 32.000 7.99 0.00 45.62 2.66
6046 6397 5.105997 GCTCTCAGTTGTAGGCATTTCAAAT 60.106 40.000 0.00 0.00 0.00 2.32
6054 6632 6.371595 TGTAGGCATTTCAAATTTGGGAAT 57.628 33.333 17.90 14.53 0.00 3.01
6096 6678 6.902341 TGTCTGCATCTTGTTTATTCTCAAC 58.098 36.000 0.00 0.00 0.00 3.18
6113 6695 7.815840 TTCTCAACATTGTAACTGGAATCAA 57.184 32.000 0.00 0.00 0.00 2.57
6114 6696 7.439157 TCTCAACATTGTAACTGGAATCAAG 57.561 36.000 0.00 0.00 0.00 3.02
6164 6765 2.289694 GGTCTGTGCATAGTTGTCCTGT 60.290 50.000 10.52 0.00 0.00 4.00
6166 6767 1.995484 CTGTGCATAGTTGTCCTGTCG 59.005 52.381 1.64 0.00 0.00 4.35
6185 6786 4.331717 TGTCGAAGGTTCAGAAAACTGTTC 59.668 41.667 0.00 0.00 31.03 3.18
6186 6787 4.571176 GTCGAAGGTTCAGAAAACTGTTCT 59.429 41.667 0.00 0.00 31.03 3.01
6187 6788 4.570772 TCGAAGGTTCAGAAAACTGTTCTG 59.429 41.667 9.35 9.35 45.38 3.02
6208 6809 1.212751 CTTAAAACCGCTGCTGGGC 59.787 57.895 13.50 0.00 0.00 5.36
6209 6810 1.523154 CTTAAAACCGCTGCTGGGCA 61.523 55.000 13.50 0.00 36.92 5.36
6301 6903 6.088016 ACAAATACACATCACTGCAAACAT 57.912 33.333 0.00 0.00 0.00 2.71
6305 6907 4.859304 ACACATCACTGCAAACATTGAT 57.141 36.364 0.00 0.00 44.47 2.57
6318 6920 5.640357 GCAAACATTGATGATCAAATGGTGT 59.360 36.000 19.46 8.96 40.12 4.16
6334 6936 8.735315 TCAAATGGTGTCATTAATGTCGTAAAT 58.265 29.630 14.97 1.82 42.29 1.40
6346 6948 4.678509 TGTCGTAAATCAGCACCATTTC 57.321 40.909 0.00 0.00 0.00 2.17
6372 6975 9.059260 CAAAACATGTCAGATCATATATGGACA 57.941 33.333 18.74 18.74 0.00 4.02
6375 6978 8.613060 ACATGTCAGATCATATATGGACAAAC 57.387 34.615 19.74 11.58 0.00 2.93
6390 6993 4.048504 GGACAAACTTTGATTGAAACCCG 58.951 43.478 8.55 0.00 0.00 5.28
6396 6999 1.698506 TTGATTGAAACCCGGCACTT 58.301 45.000 0.00 0.00 0.00 3.16
6403 7006 0.744281 AAACCCGGCACTTGTTTCTG 59.256 50.000 0.00 0.00 0.00 3.02
6412 7015 3.550842 GGCACTTGTTTCTGAACCATGAC 60.551 47.826 7.63 0.00 34.80 3.06
6608 7221 3.826729 TCCTGTTGATTCTCTTCACGAGA 59.173 43.478 0.00 0.00 46.82 4.04
6618 7231 3.942115 TCTCTTCACGAGATGACCAGTAG 59.058 47.826 0.00 0.00 43.72 2.57
6620 7233 2.130272 TCACGAGATGACCAGTAGCT 57.870 50.000 0.00 0.00 29.99 3.32
6625 7238 2.948979 CGAGATGACCAGTAGCTCTCTT 59.051 50.000 0.00 0.00 32.11 2.85
6628 7241 5.083533 AGATGACCAGTAGCTCTCTTTTG 57.916 43.478 0.00 0.00 0.00 2.44
6632 7245 4.345257 TGACCAGTAGCTCTCTTTTGTCTT 59.655 41.667 0.00 0.00 0.00 3.01
6641 7254 5.824624 AGCTCTCTTTTGTCTTGAATGTGAA 59.175 36.000 0.00 0.00 0.00 3.18
6644 7257 7.630242 TCTCTTTTGTCTTGAATGTGAACTT 57.370 32.000 0.00 0.00 0.00 2.66
6649 7262 9.903682 CTTTTGTCTTGAATGTGAACTTATCAT 57.096 29.630 0.00 0.00 40.97 2.45
6726 7339 2.641559 GCATCCAGCTTATGCGCC 59.358 61.111 13.52 0.00 45.42 6.53
6761 7374 5.047377 AGTTGACATCTGAAGAGTTCCTCTC 60.047 44.000 0.00 0.00 40.28 3.20
6810 7423 2.158608 CCTTGGGAGTTTGTCTGACCTT 60.159 50.000 5.17 0.00 0.00 3.50
6853 7466 5.757320 CAGGTAACCATGACATCATCTCTTC 59.243 44.000 0.00 0.00 33.61 2.87
6857 7470 5.432680 ACCATGACATCATCTCTTCAGTT 57.567 39.130 0.00 0.00 33.61 3.16
6881 7495 2.142292 TTTTCCTCCTGCCTCCTGCC 62.142 60.000 0.00 0.00 40.16 4.85
6882 7496 3.569361 TTCCTCCTGCCTCCTGCCT 62.569 63.158 0.00 0.00 40.16 4.75
7071 7685 1.009829 GCCCTCATTCGATGTGTGTC 58.990 55.000 0.00 0.00 0.00 3.67
7098 7712 5.940470 GTGAAACACCATCATCTAACTTCCT 59.060 40.000 0.00 0.00 36.32 3.36
7099 7713 6.431234 GTGAAACACCATCATCTAACTTCCTT 59.569 38.462 0.00 0.00 36.32 3.36
7145 7759 1.832219 CTGGGCTGATCGATTCCCA 59.168 57.895 23.81 23.81 45.87 4.37
7210 7824 1.490490 TCTGCCCAAAGAGTTGTCTGT 59.510 47.619 0.00 0.00 31.37 3.41
7251 7865 3.836151 GGAACCCAACGTGCAAGT 58.164 55.556 0.00 0.00 0.00 3.16
7268 7882 1.652947 AGTGTCCCCTCACGGTTAAT 58.347 50.000 0.00 0.00 42.40 1.40
7468 8087 6.149474 CCATTCGAAGAACTGGACTATTTTGT 59.851 38.462 9.49 0.00 45.90 2.83
7474 8093 8.504005 CGAAGAACTGGACTATTTTGTTGTAAT 58.496 33.333 0.00 0.00 0.00 1.89
7514 8133 8.128582 GTGACATGTTCAGTGTAAAAGAAATGA 58.871 33.333 0.00 0.00 33.71 2.57
7566 9236 7.556275 TCTGCCTTCTTATTGTTATTTCCGAAT 59.444 33.333 0.00 0.00 0.00 3.34
7652 9328 7.537596 TCAAATCAGACATAACACCCAAAAT 57.462 32.000 0.00 0.00 0.00 1.82
7654 9330 7.871973 TCAAATCAGACATAACACCCAAAATTG 59.128 33.333 0.00 0.00 0.00 2.32
7764 9464 3.366374 GCAGTGACTGTCAAAAATAGGCC 60.366 47.826 14.82 0.00 33.43 5.19
7840 9540 3.061271 CGGCATTTTATTGTTATGCACGC 60.061 43.478 0.00 0.00 44.91 5.34
8023 9752 2.540101 GAGATCAATTTCGTACCAGCGG 59.460 50.000 0.00 0.00 0.00 5.52
8024 9753 2.093658 AGATCAATTTCGTACCAGCGGT 60.094 45.455 5.58 5.58 40.16 5.68
8044 9774 4.192317 GGTGTGGAATTTCCTAGTAGCAG 58.808 47.826 16.25 0.00 37.46 4.24
8088 9818 7.225734 GCAGAATAGTTTTCCTCTCCATAAGAC 59.774 40.741 0.00 0.00 0.00 3.01
8092 9822 5.094387 AGTTTTCCTCTCCATAAGACCAGA 58.906 41.667 0.00 0.00 0.00 3.86
8321 10073 1.155859 TTTTGGCTCTGGGGTGCAT 59.844 52.632 0.00 0.00 34.07 3.96
8441 12704 6.089283 TGTGCTTGATAATTTTCATGCGAAAC 59.911 34.615 22.55 17.87 45.08 2.78
8468 12904 0.934496 CGGTGCTTCGTCAGTGAAAA 59.066 50.000 0.00 0.00 0.00 2.29
8497 12933 9.541143 AACAAAAATAAGTGTAACATTTGGAGG 57.459 29.630 0.00 0.00 41.43 4.30
8502 12938 8.927675 AATAAGTGTAACATTTGGAGGTAACA 57.072 30.769 0.00 0.00 41.43 2.41
8503 12939 9.528489 AATAAGTGTAACATTTGGAGGTAACAT 57.472 29.630 0.00 0.00 41.43 2.71
8504 12940 7.833285 AAGTGTAACATTTGGAGGTAACATT 57.167 32.000 0.00 0.00 41.43 2.71
8505 12941 7.833285 AGTGTAACATTTGGAGGTAACATTT 57.167 32.000 0.00 0.00 41.43 2.32
8506 12942 7.657336 AGTGTAACATTTGGAGGTAACATTTG 58.343 34.615 0.00 0.00 41.43 2.32
8508 12944 7.593644 GTGTAACATTTGGAGGTAACATTTGTC 59.406 37.037 0.00 0.00 35.86 3.18
8509 12945 5.371115 ACATTTGGAGGTAACATTTGTCG 57.629 39.130 0.00 0.00 41.41 4.35
8510 12946 4.825085 ACATTTGGAGGTAACATTTGTCGT 59.175 37.500 0.00 0.00 41.41 4.34
8512 12948 5.427036 TTTGGAGGTAACATTTGTCGTTC 57.573 39.130 0.00 0.00 41.41 3.95
8516 12952 3.985925 GAGGTAACATTTGTCGTTCGACT 59.014 43.478 22.49 7.20 41.41 4.18
8517 12953 4.374399 AGGTAACATTTGTCGTTCGACTT 58.626 39.130 22.49 12.53 41.41 3.01
8518 12954 4.210537 AGGTAACATTTGTCGTTCGACTTG 59.789 41.667 22.49 18.60 41.41 3.16
8519 12955 4.025480 GGTAACATTTGTCGTTCGACTTGT 60.025 41.667 22.49 19.09 36.23 3.16
8522 12958 4.976987 ACATTTGTCGTTCGACTTGTTTT 58.023 34.783 22.49 4.19 36.23 2.43
8523 12959 5.395642 ACATTTGTCGTTCGACTTGTTTTT 58.604 33.333 22.49 2.85 36.23 1.94
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
121 123 5.378230 TTCATCATGTGGATAAAGAGGCT 57.622 39.130 0.00 0.00 33.95 4.58
492 498 3.014807 ACCCCTCCCTTAAGGTAATCTCA 59.985 47.826 20.22 0.00 36.75 3.27
547 562 8.080417 TCTCAAATTCTTCTCAAATCTTGCAAG 58.920 33.333 20.81 20.81 0.00 4.01
646 679 0.545548 AACCCTCTCTCCCCTCACAC 60.546 60.000 0.00 0.00 0.00 3.82
913 947 4.152402 ACCTGAAGACGAAATCAAATCACG 59.848 41.667 0.00 0.00 0.00 4.35
983 1017 2.361104 GGGCGGCTGATTTGGACA 60.361 61.111 9.56 0.00 0.00 4.02
1208 1244 3.037715 GGGAGATGGAGGGGGAGA 58.962 66.667 0.00 0.00 0.00 3.71
1446 1482 4.636435 CCACGCGTTCCCCTGGTT 62.636 66.667 10.22 0.00 0.00 3.67
1465 1501 1.635810 GCAAACAAACCGCAAGTGC 59.364 52.632 0.00 0.00 37.78 4.40
1466 1502 1.478622 CCGCAAACAAACCGCAAGTG 61.479 55.000 0.00 0.00 0.00 3.16
1467 1503 1.226831 CCGCAAACAAACCGCAAGT 60.227 52.632 0.00 0.00 0.00 3.16
1644 1709 4.608774 ACGGTGGAGACGACCCCA 62.609 66.667 0.00 0.00 34.93 4.96
1702 1767 3.445987 ACTAGAAGGAAACAGAGAGGGG 58.554 50.000 0.00 0.00 0.00 4.79
1704 1769 5.946972 TCAGTACTAGAAGGAAACAGAGAGG 59.053 44.000 0.00 0.00 0.00 3.69
1722 1876 6.912591 GCATACCACTTAAATTGCATCAGTAC 59.087 38.462 0.00 0.00 0.00 2.73
1766 1920 0.873054 CACAGGTTTGCTCTGCTCTG 59.127 55.000 0.00 0.00 35.78 3.35
1767 1921 0.888285 GCACAGGTTTGCTCTGCTCT 60.888 55.000 0.00 0.00 39.59 4.09
1960 2138 4.019174 CCATAACTCCAGGCTCACAAAAT 58.981 43.478 0.00 0.00 0.00 1.82
2063 2242 4.283212 GGTAGGATGAAGGAAGATGGAGAG 59.717 50.000 0.00 0.00 0.00 3.20
2111 2291 5.485831 GTGCACAAATTTAAAACGTTGGAC 58.514 37.500 13.17 0.00 0.00 4.02
2164 2344 3.518590 ACAAATCGTCCTAGGTAAAGCG 58.481 45.455 9.08 7.30 0.00 4.68
2185 2365 8.913487 TTTGGACACTGACTCGATATACTATA 57.087 34.615 0.00 0.00 0.00 1.31
2195 2376 5.230942 ACTTCTAATTTGGACACTGACTCG 58.769 41.667 0.00 0.00 0.00 4.18
2227 2408 0.847373 TGGAAGCCACCAACTAACCA 59.153 50.000 0.00 0.00 36.96 3.67
2232 2413 1.710809 ACCTAATGGAAGCCACCAACT 59.289 47.619 3.61 0.00 43.47 3.16
2241 2422 4.780815 TGGACTGCAATACCTAATGGAAG 58.219 43.478 0.00 0.00 37.04 3.46
2473 2654 4.282703 AGCAACCAAGCAGATGAAAGAAAT 59.717 37.500 0.00 0.00 36.85 2.17
2476 2657 2.867624 AGCAACCAAGCAGATGAAAGA 58.132 42.857 0.00 0.00 36.85 2.52
2487 2668 6.222389 TCAAACCATCAAATTAGCAACCAAG 58.778 36.000 0.00 0.00 0.00 3.61
2488 2669 6.166984 TCAAACCATCAAATTAGCAACCAA 57.833 33.333 0.00 0.00 0.00 3.67
2519 2700 5.774690 AGCCACCTGAATGACAATAGAAAAA 59.225 36.000 0.00 0.00 0.00 1.94
2520 2701 5.324409 AGCCACCTGAATGACAATAGAAAA 58.676 37.500 0.00 0.00 0.00 2.29
2541 2722 3.486542 CCGAAAAGCATAGCAAGAGAAGC 60.487 47.826 0.00 0.00 0.00 3.86
2580 2761 5.163972 GCATGTGCAGCGATTCAAATTTAAA 60.164 36.000 0.00 0.00 41.59 1.52
2757 2939 4.999950 ACGGATATGAGATTTCCAGATTGC 59.000 41.667 0.00 0.00 31.57 3.56
2882 3064 7.977853 GGTCAAACCTTCGATGTAAAGTCTATA 59.022 37.037 0.00 0.00 34.73 1.31
2889 3071 3.731089 ACGGTCAAACCTTCGATGTAAA 58.269 40.909 0.00 0.00 35.66 2.01
2986 3169 9.317936 CATTTCAGTTTATAGACTATCACTGCA 57.682 33.333 20.55 12.90 33.09 4.41
3214 3400 7.174946 TCTGCCCTACAAAATTTCTTCTTACAG 59.825 37.037 0.00 0.00 0.00 2.74
3256 3442 4.576330 AGGAAGGGGAATTCTAACACTG 57.424 45.455 5.23 0.00 0.00 3.66
3401 3587 5.745294 CGCATTCTTGTTATCCAGGATTTTG 59.255 40.000 7.44 0.00 0.00 2.44
3475 3661 5.356751 TGCTTATCTGTTGAGAGAGAGAGAC 59.643 44.000 0.00 0.00 0.00 3.36
3476 3662 5.504853 TGCTTATCTGTTGAGAGAGAGAGA 58.495 41.667 0.00 0.00 0.00 3.10
3477 3663 5.833406 TGCTTATCTGTTGAGAGAGAGAG 57.167 43.478 0.00 0.00 0.00 3.20
3478 3664 5.890419 TGATGCTTATCTGTTGAGAGAGAGA 59.110 40.000 0.00 0.00 0.00 3.10
3479 3665 5.978919 GTGATGCTTATCTGTTGAGAGAGAG 59.021 44.000 0.00 0.00 0.00 3.20
3480 3666 5.655974 AGTGATGCTTATCTGTTGAGAGAGA 59.344 40.000 0.00 0.00 0.00 3.10
4037 4225 3.070018 CTGCAGGAAGTCCAACACTAAG 58.930 50.000 5.57 0.00 38.89 2.18
4573 4761 9.853555 GAACTAGTACTTAGAAAAGACCCTTAC 57.146 37.037 0.00 0.00 36.50 2.34
4609 4848 7.303998 AGTCAGTTCGTCACTATAAGTACAAC 58.696 38.462 0.00 0.00 32.76 3.32
4759 4998 9.820229 GAAACAATTCACTCGTACAATAATCAA 57.180 29.630 0.00 0.00 35.54 2.57
4760 4999 8.994170 TGAAACAATTCACTCGTACAATAATCA 58.006 29.630 0.00 0.00 40.59 2.57
4761 5000 9.820229 TTGAAACAATTCACTCGTACAATAATC 57.180 29.630 0.00 0.00 45.01 1.75
4763 5002 9.440784 GTTTGAAACAATTCACTCGTACAATAA 57.559 29.630 2.68 0.00 45.01 1.40
4771 5010 5.626543 CAGGATGTTTGAAACAATTCACTCG 59.373 40.000 15.31 0.00 45.01 4.18
5278 5528 6.840780 AAACCAGAAAGATACCCAGAAATG 57.159 37.500 0.00 0.00 0.00 2.32
5405 5657 1.134098 GCTCTAAGCCAGGGTGCATAA 60.134 52.381 0.00 0.00 34.48 1.90
5475 5824 6.184789 CACCTTTATAATGTAACACCCCTGT 58.815 40.000 0.00 0.00 0.00 4.00
5495 5844 2.618816 CCACAACTATGCCATGACACCT 60.619 50.000 0.00 0.00 0.00 4.00
5497 5846 2.436417 ACCACAACTATGCCATGACAC 58.564 47.619 0.00 0.00 0.00 3.67
5498 5847 2.877097 ACCACAACTATGCCATGACA 57.123 45.000 0.00 0.00 0.00 3.58
5499 5848 3.873910 ACTACCACAACTATGCCATGAC 58.126 45.455 0.00 0.00 0.00 3.06
5501 5850 3.627577 GGAACTACCACAACTATGCCATG 59.372 47.826 0.00 0.00 38.79 3.66
5502 5851 3.523564 AGGAACTACCACAACTATGCCAT 59.476 43.478 0.00 0.00 42.04 4.40
5510 5859 4.566987 CACCTAGAAGGAACTACCACAAC 58.433 47.826 0.00 0.00 38.49 3.32
5545 5894 7.277098 GTCACTTCAAATAGTAAACCTCGCATA 59.723 37.037 0.00 0.00 0.00 3.14
5571 5920 7.485810 TGCAGTCATTTCATATTTTCATGGAG 58.514 34.615 0.00 0.00 0.00 3.86
5616 5965 8.673626 ACTGTGTTATGCGAAATTTCTATTTG 57.326 30.769 15.92 1.49 34.16 2.32
5669 6019 4.772434 CAACCAAATGAGTTGTACAGTCG 58.228 43.478 0.00 0.00 39.79 4.18
5830 6181 2.943690 TCATGCTAGGTACGAGACTGTC 59.056 50.000 0.00 0.00 30.78 3.51
5839 6190 9.145865 GCTATTAGATTTTCTCATGCTAGGTAC 57.854 37.037 0.00 0.00 0.00 3.34
5924 6275 2.938956 AGTAAGTGCTTGCAAGAGGT 57.061 45.000 30.39 13.28 0.00 3.85
5942 6293 3.470709 CAGAATGTACCAGCCCATGTAG 58.529 50.000 0.00 0.00 0.00 2.74
5996 6347 8.241367 CCACCCTACAAAACAATATGAAAGTAC 58.759 37.037 0.00 0.00 0.00 2.73
6002 6353 4.929479 AGCCACCCTACAAAACAATATGA 58.071 39.130 0.00 0.00 0.00 2.15
6010 6361 2.054799 ACTGAGAGCCACCCTACAAAA 58.945 47.619 0.00 0.00 0.00 2.44
6046 6397 3.199946 AGAGGCAATCGTCTATTCCCAAA 59.800 43.478 0.00 0.00 35.84 3.28
6054 6632 4.517075 CAGACATCTAGAGGCAATCGTCTA 59.483 45.833 3.87 0.00 38.32 2.59
6087 6665 9.513906 TTGATTCCAGTTACAATGTTGAGAATA 57.486 29.630 0.00 0.00 0.00 1.75
6088 6666 8.408043 TTGATTCCAGTTACAATGTTGAGAAT 57.592 30.769 0.00 0.00 0.00 2.40
6089 6667 7.522073 GCTTGATTCCAGTTACAATGTTGAGAA 60.522 37.037 0.00 0.00 0.00 2.87
6091 6669 6.088824 GCTTGATTCCAGTTACAATGTTGAG 58.911 40.000 0.00 0.00 0.00 3.02
6096 6678 7.325660 AGTATGCTTGATTCCAGTTACAATG 57.674 36.000 0.00 0.00 0.00 2.82
6113 6695 6.963322 AGGGAAGTAATTTCTGAAGTATGCT 58.037 36.000 0.00 0.00 36.03 3.79
6114 6696 7.011857 CAGAGGGAAGTAATTTCTGAAGTATGC 59.988 40.741 0.00 0.00 37.96 3.14
6185 6786 2.096496 CCAGCAGCGGTTTTAAGATCAG 59.904 50.000 0.00 0.00 0.00 2.90
6186 6787 2.083774 CCAGCAGCGGTTTTAAGATCA 58.916 47.619 0.00 0.00 0.00 2.92
6187 6788 1.401905 CCCAGCAGCGGTTTTAAGATC 59.598 52.381 3.11 0.00 0.00 2.75
6301 6903 8.751242 ACATTAATGACACCATTTGATCATCAA 58.249 29.630 22.16 0.00 42.56 2.57
6305 6907 6.374053 ACGACATTAATGACACCATTTGATCA 59.626 34.615 22.16 0.00 42.56 2.92
6318 6920 5.877564 TGGTGCTGATTTACGACATTAATGA 59.122 36.000 22.16 0.00 0.00 2.57
6334 6936 4.099113 TGACATGTTTTGAAATGGTGCTGA 59.901 37.500 0.00 0.00 0.00 4.26
6346 6948 9.059260 TGTCCATATATGATCTGACATGTTTTG 57.941 33.333 14.54 0.00 0.00 2.44
6372 6975 2.432510 TGCCGGGTTTCAATCAAAGTTT 59.567 40.909 2.18 0.00 0.00 2.66
6375 6978 1.613437 AGTGCCGGGTTTCAATCAAAG 59.387 47.619 2.18 0.00 0.00 2.77
6390 6993 2.622942 TCATGGTTCAGAAACAAGTGCC 59.377 45.455 4.61 0.00 37.10 5.01
6412 7015 4.034742 GCAGCAATAAAATTCTTGCCATGG 59.965 41.667 7.63 7.63 46.99 3.66
6430 7033 2.294979 CAGGCAGATATTCAAGCAGCA 58.705 47.619 0.00 0.00 0.00 4.41
6608 7221 4.530161 AGACAAAAGAGAGCTACTGGTCAT 59.470 41.667 15.42 5.51 42.66 3.06
6614 7227 6.426328 CACATTCAAGACAAAAGAGAGCTACT 59.574 38.462 0.00 0.00 0.00 2.57
6618 7231 5.679734 TCACATTCAAGACAAAAGAGAGC 57.320 39.130 0.00 0.00 0.00 4.09
6620 7233 7.630242 AAGTTCACATTCAAGACAAAAGAGA 57.370 32.000 0.00 0.00 0.00 3.10
6644 7257 9.045223 GCTCACACACATTCATACTTAATGATA 57.955 33.333 3.01 0.00 44.13 2.15
6661 7274 4.994852 TGTTGTTCCTATAAGCTCACACAC 59.005 41.667 0.00 0.00 0.00 3.82
6711 7324 0.892358 CCATGGCGCATAAGCTGGAT 60.892 55.000 10.83 0.00 35.27 3.41
6726 7339 3.626217 CAGATGTCAACTCCATCACCATG 59.374 47.826 0.00 0.00 40.93 3.66
6761 7374 0.514691 GTCAAAACCAGAGCAGCTCG 59.485 55.000 16.99 11.45 35.36 5.03
6810 7423 2.995939 CTGACGCAAGCTTCTGACAATA 59.004 45.455 0.00 0.00 45.62 1.90
6901 7515 4.951715 ACATCAAGCAAGCATATCCAGAAA 59.048 37.500 0.00 0.00 0.00 2.52
6910 7524 1.263356 AGCCAACATCAAGCAAGCAT 58.737 45.000 0.00 0.00 0.00 3.79
7033 7647 2.087646 GCCGCATTTTCTTCCTCTTCT 58.912 47.619 0.00 0.00 0.00 2.85
7048 7662 2.203056 CATCGAATGAGGGCCGCA 60.203 61.111 13.72 13.72 0.00 5.69
7071 7685 6.748333 AGTTAGATGATGGTGTTTCACATG 57.252 37.500 0.00 0.00 35.86 3.21
7099 7713 7.362574 GCCTATAACCTGCAATCAGTACAAAAA 60.363 37.037 0.00 0.00 38.66 1.94
7145 7759 6.389830 TGATGCACAACATTTCTAACACTT 57.610 33.333 0.00 0.00 39.84 3.16
7210 7824 2.622942 GTCTGCAGGGTTTCATTCACAA 59.377 45.455 15.13 0.00 0.00 3.33
7332 7946 1.421346 CCTATCCTGCATGGCCCTCA 61.421 60.000 0.00 0.00 35.26 3.86
7341 7955 0.253044 GTCTGCAACCCTATCCTGCA 59.747 55.000 0.00 0.00 43.54 4.41
7468 8087 7.038659 TGTCACATGATACATCGTCATTACAA 58.961 34.615 0.00 0.00 34.21 2.41
7474 8093 5.009854 ACATGTCACATGATACATCGTCA 57.990 39.130 24.98 0.00 34.12 4.35
7514 8133 5.689961 GTGCAAATAAGGAACGAACAAATGT 59.310 36.000 0.00 0.00 0.00 2.71
7566 9236 1.613255 GCTGGCCTGGCAGTTAGTAAA 60.613 52.381 22.05 0.00 0.00 2.01
7613 9286 4.459606 TGATTTGATTTTGACGTGCGTAC 58.540 39.130 0.00 0.00 0.00 3.67
7652 9328 5.895636 ATAAAATCTCATGCGACAACCAA 57.104 34.783 0.00 0.00 0.00 3.67
7654 9330 6.907212 CAGTAATAAAATCTCATGCGACAACC 59.093 38.462 0.00 0.00 0.00 3.77
7656 9332 6.821160 TCCAGTAATAAAATCTCATGCGACAA 59.179 34.615 0.00 0.00 0.00 3.18
7723 9423 0.922111 CGTTTGCGTCGTTTGTGACC 60.922 55.000 0.00 0.00 35.40 4.02
7840 9540 0.605319 ACACAGTGTACCGGCCATTG 60.605 55.000 3.69 13.55 0.00 2.82
7921 9627 4.263905 TGAATATGGCCTGGAATATGACCC 60.264 45.833 3.32 0.00 0.00 4.46
8023 9752 5.086104 TCTGCTACTAGGAAATTCCACAC 57.914 43.478 15.21 0.00 39.61 3.82
8024 9753 5.734720 CTTCTGCTACTAGGAAATTCCACA 58.265 41.667 15.21 0.40 39.61 4.17
8044 9774 1.545582 TGCTTTGCCTTATGGTGCTTC 59.454 47.619 0.00 0.00 35.27 3.86
8088 9818 3.947834 ACAAGAAGAAGTTTGGTGTCTGG 59.052 43.478 0.00 0.00 0.00 3.86
8092 9822 4.640647 GGAGAACAAGAAGAAGTTTGGTGT 59.359 41.667 0.00 0.00 0.00 4.16
8277 10029 6.295349 CGGCCCTCCCAGTATATCATATATTC 60.295 46.154 0.00 0.00 0.00 1.75
8291 10043 2.676471 CCAAAACGGCCCTCCCAG 60.676 66.667 0.00 0.00 0.00 4.45
8321 10073 8.271458 TGAATTTACTGTTCATTAGGGAGCATA 58.729 33.333 0.00 0.00 31.07 3.14
8432 12695 1.348250 CGTCATCCCGTTTCGCATG 59.652 57.895 0.00 0.00 0.00 4.06
8441 12704 2.885644 CGAAGCACCGTCATCCCG 60.886 66.667 0.00 0.00 0.00 5.14
8483 12919 7.520776 CGACAAATGTTACCTCCAAATGTTACA 60.521 37.037 0.00 0.00 0.00 2.41
8494 12930 3.985925 AGTCGAACGACAAATGTTACCTC 59.014 43.478 25.13 0.00 46.76 3.85
8496 12932 4.025480 ACAAGTCGAACGACAAATGTTACC 60.025 41.667 25.13 0.00 46.76 2.85
8497 12933 5.074430 ACAAGTCGAACGACAAATGTTAC 57.926 39.130 25.13 0.29 46.76 2.50
8499 12935 4.609691 AACAAGTCGAACGACAAATGTT 57.390 36.364 25.13 24.96 46.76 2.71
8500 12936 4.609691 AAACAAGTCGAACGACAAATGT 57.390 36.364 25.13 21.82 46.76 2.71
8501 12937 5.925189 AAAAACAAGTCGAACGACAAATG 57.075 34.783 25.13 21.32 46.76 2.32


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

AutoCloner maintained by Alex Coulton.