Multiple sequence alignment - TraesCS3D01G458800

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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 TraesCS3D01G458800 chr3D 100.000 2567 0 0 1 2567 564128040 564130606 0.000000e+00 4741
1 TraesCS3D01G458800 chr3D 86.260 1230 158 8 374 1599 564144323 564145545 0.000000e+00 1325
2 TraesCS3D01G458800 chr3D 83.117 385 57 7 442 823 564889761 564890140 6.800000e-91 344
3 TraesCS3D01G458800 chr3D 84.667 150 17 4 1623 1768 564145600 564145747 7.400000e-31 145
4 TraesCS3D01G458800 chr3D 81.746 126 21 2 1297 1421 564890621 564890745 1.260000e-18 104
5 TraesCS3D01G458800 chr3A 91.768 1810 109 11 48 1831 698710249 698712044 0.000000e+00 2481
6 TraesCS3D01G458800 chr3A 86.672 1223 156 5 378 1598 698733229 698734446 0.000000e+00 1349
7 TraesCS3D01G458800 chr3A 92.800 250 15 2 1851 2098 698712026 698712274 2.430000e-95 359
8 TraesCS3D01G458800 chr3A 90.650 246 18 5 2146 2391 698714169 698714409 3.190000e-84 322
9 TraesCS3D01G458800 chr3A 80.655 336 30 21 65 374 698732959 698733285 7.150000e-56 228
10 TraesCS3D01G458800 chr3A 95.455 110 5 0 2458 2567 698714438 698714547 2.630000e-40 176
11 TraesCS3D01G458800 chr3B 90.463 1489 108 13 374 1831 751751412 751752897 0.000000e+00 1932
12 TraesCS3D01G458800 chr3B 81.549 878 132 15 459 1323 751760806 751761666 0.000000e+00 697
13 TraesCS3D01G458800 chr3B 91.278 493 39 3 1851 2342 751752879 751753368 0.000000e+00 669
14 TraesCS3D01G458800 chr3B 86.326 607 81 2 957 1562 751913712 751914317 0.000000e+00 660
15 TraesCS3D01G458800 chr3B 89.427 227 16 4 2341 2567 751753461 751753679 1.940000e-71 279
16 TraesCS3D01G458800 chr3B 87.190 242 29 2 1318 1558 751778981 751779221 9.050000e-70 274
17 TraesCS3D01G458800 chr3B 86.986 146 18 1 429 573 751840008 751840153 2.040000e-36 163
18 TraesCS3D01G458800 chr7A 96.063 127 5 0 1494 1620 701166250 701166124 9.310000e-50 207


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 TraesCS3D01G458800 chr3D 564128040 564130606 2566 False 4741.0 4741 100.000000 1 2567 1 chr3D.!!$F1 2566
1 TraesCS3D01G458800 chr3D 564144323 564145747 1424 False 735.0 1325 85.463500 374 1768 2 chr3D.!!$F2 1394
2 TraesCS3D01G458800 chr3D 564889761 564890745 984 False 224.0 344 82.431500 442 1421 2 chr3D.!!$F3 979
3 TraesCS3D01G458800 chr3A 698710249 698714547 4298 False 834.5 2481 92.668250 48 2567 4 chr3A.!!$F1 2519
4 TraesCS3D01G458800 chr3A 698732959 698734446 1487 False 788.5 1349 83.663500 65 1598 2 chr3A.!!$F2 1533
5 TraesCS3D01G458800 chr3B 751751412 751753679 2267 False 960.0 1932 90.389333 374 2567 3 chr3B.!!$F5 2193
6 TraesCS3D01G458800 chr3B 751760806 751761666 860 False 697.0 697 81.549000 459 1323 1 chr3B.!!$F1 864
7 TraesCS3D01G458800 chr3B 751913712 751914317 605 False 660.0 660 86.326000 957 1562 1 chr3B.!!$F4 605

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
40 41 0.042731 CCAGAGGAGAGTGGGGGTAA 59.957 60.0 0.00 0.0 0.0 2.85 F
1068 1151 0.818938 TATCGGTGGCGCAGTCTAAA 59.181 50.0 10.83 0.0 0.0 1.85 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1136 1219 0.460987 GCGATGTCCAAGAGGGTCAG 60.461 60.0 0.00 0.00 38.12 3.51 R
2155 4171 0.162507 CAAAGCGCGTCTTGAGTCTG 59.837 55.0 8.43 3.01 34.67 3.51 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
28 29 9.973661 TGTTTATCTTCAAAATAATCCAGAGGA 57.026 29.630 0.00 0.00 35.55 3.71
32 33 7.502060 TCTTCAAAATAATCCAGAGGAGAGT 57.498 36.000 0.00 0.00 34.05 3.24
33 34 7.334090 TCTTCAAAATAATCCAGAGGAGAGTG 58.666 38.462 0.00 0.00 34.05 3.51
34 35 5.994250 TCAAAATAATCCAGAGGAGAGTGG 58.006 41.667 0.00 0.00 34.05 4.00
35 36 5.104360 TCAAAATAATCCAGAGGAGAGTGGG 60.104 44.000 0.00 0.00 34.05 4.61
36 37 2.478872 TAATCCAGAGGAGAGTGGGG 57.521 55.000 0.00 0.00 34.05 4.96
37 38 0.327000 AATCCAGAGGAGAGTGGGGG 60.327 60.000 0.00 0.00 34.05 5.40
38 39 1.531981 ATCCAGAGGAGAGTGGGGGT 61.532 60.000 0.00 0.00 34.05 4.95
39 40 0.854039 TCCAGAGGAGAGTGGGGGTA 60.854 60.000 0.00 0.00 34.27 3.69
40 41 0.042731 CCAGAGGAGAGTGGGGGTAA 59.957 60.000 0.00 0.00 0.00 2.85
41 42 1.554822 CCAGAGGAGAGTGGGGGTAAA 60.555 57.143 0.00 0.00 0.00 2.01
42 43 2.266279 CAGAGGAGAGTGGGGGTAAAA 58.734 52.381 0.00 0.00 0.00 1.52
43 44 2.642807 CAGAGGAGAGTGGGGGTAAAAA 59.357 50.000 0.00 0.00 0.00 1.94
44 45 3.267031 CAGAGGAGAGTGGGGGTAAAAAT 59.733 47.826 0.00 0.00 0.00 1.82
45 46 3.267031 AGAGGAGAGTGGGGGTAAAAATG 59.733 47.826 0.00 0.00 0.00 2.32
46 47 2.311841 AGGAGAGTGGGGGTAAAAATGG 59.688 50.000 0.00 0.00 0.00 3.16
117 127 4.990553 GGAATCCCTAGCCGCCGC 62.991 72.222 0.00 0.00 0.00 6.53
157 167 1.440618 TTTACCCCACCTGCTTCTGA 58.559 50.000 0.00 0.00 0.00 3.27
348 365 3.110178 CGGCGTTGAGGTTCCGAC 61.110 66.667 0.00 0.00 44.23 4.79
376 393 2.747686 GCCCCTGTTCTTCCGTCA 59.252 61.111 0.00 0.00 0.00 4.35
523 542 1.298563 GACACCAACGACGTCGACA 60.299 57.895 41.52 0.00 43.02 4.35
531 550 1.362768 ACGACGTCGACAGCTATGTA 58.637 50.000 41.52 0.00 40.68 2.29
771 790 2.665603 GGCTTCTTCGTCCTGGCT 59.334 61.111 0.00 0.00 0.00 4.75
843 863 2.258726 GGTCGTTTTCAAGGCGCCT 61.259 57.895 27.08 27.08 0.00 5.52
926 946 1.011451 GTGCTCTGCGACTCAACTCC 61.011 60.000 0.00 0.00 0.00 3.85
947 967 3.377172 CCCAAGTATTACAGGGCTTTTCG 59.623 47.826 10.36 0.00 33.91 3.46
1068 1151 0.818938 TATCGGTGGCGCAGTCTAAA 59.181 50.000 10.83 0.00 0.00 1.85
1071 1154 0.949105 CGGTGGCGCAGTCTAAAGTT 60.949 55.000 10.83 0.00 0.00 2.66
1136 1219 5.510671 TGATTTCGTCAAGTTTTTCTCTGC 58.489 37.500 0.00 0.00 32.78 4.26
1187 1282 4.827284 CAGGTGTTTCCTACTGGATTTTGT 59.173 41.667 0.00 0.00 46.24 2.83
1214 1309 5.509670 GGGAAGTCTTTTTCATCACAAAGGG 60.510 44.000 0.00 0.00 31.86 3.95
1224 1319 0.768622 TCACAAAGGGATGGGAACGT 59.231 50.000 0.00 0.00 27.41 3.99
1242 1340 1.599518 TGTTGCGGTTCTCGGCATT 60.600 52.632 1.76 0.00 46.24 3.56
1264 1362 0.668535 GCCAAAGAAGAAACAGGCGT 59.331 50.000 0.00 0.00 31.88 5.68
1281 1379 0.670546 CGTTCATGCCCGTGAAGACT 60.671 55.000 3.30 0.00 38.68 3.24
1282 1380 1.523758 GTTCATGCCCGTGAAGACTT 58.476 50.000 3.30 0.00 38.68 3.01
1294 1392 1.689813 TGAAGACTTTCGGCAGGTACA 59.310 47.619 0.00 0.00 36.04 2.90
1443 1541 2.024273 AGATGGGAAAGACGAGAGGGTA 60.024 50.000 0.00 0.00 0.00 3.69
1451 1549 5.244178 GGAAAGACGAGAGGGTATATGATGT 59.756 44.000 0.00 0.00 0.00 3.06
1453 1551 4.004314 AGACGAGAGGGTATATGATGTCG 58.996 47.826 0.00 0.00 0.00 4.35
1462 1560 6.826668 AGGGTATATGATGTCGTCAATTTCA 58.173 36.000 0.00 0.00 40.97 2.69
1515 1613 1.340991 CCCCGTCCTTTCACCATCATT 60.341 52.381 0.00 0.00 0.00 2.57
1518 1616 3.282021 CCGTCCTTTCACCATCATTCAT 58.718 45.455 0.00 0.00 0.00 2.57
1536 1634 2.609916 TCATCTTCTCTCGAGCTACACG 59.390 50.000 7.81 0.00 0.00 4.49
1632 1762 1.248785 ACTCGCTCCGCCTTGACTTA 61.249 55.000 0.00 0.00 0.00 2.24
1827 1960 5.726980 TCTTAGCAATGCAATCTGGTTTT 57.273 34.783 8.35 0.00 0.00 2.43
1828 1961 6.100404 TCTTAGCAATGCAATCTGGTTTTT 57.900 33.333 8.35 0.00 0.00 1.94
2079 2214 2.704065 GCTTCACCCCCTTATAGTAGCA 59.296 50.000 0.00 0.00 0.00 3.49
2082 2217 3.043418 TCACCCCCTTATAGTAGCAACC 58.957 50.000 0.00 0.00 0.00 3.77
2101 2236 2.101249 ACCTGCTTTTGTGACACAATGG 59.899 45.455 21.19 18.13 38.00 3.16
2105 2240 3.197265 GCTTTTGTGACACAATGGCTTT 58.803 40.909 25.47 0.00 38.00 3.51
2183 4199 1.409064 AGACGCGCTTTGGATATGAGA 59.591 47.619 5.73 0.00 0.00 3.27
2184 4200 2.159099 AGACGCGCTTTGGATATGAGAA 60.159 45.455 5.73 0.00 0.00 2.87
2220 4236 4.881273 ACACAGTATTGAGTTGCTGTTTCA 59.119 37.500 0.00 0.00 39.82 2.69
2226 4242 3.673746 TGAGTTGCTGTTTCAAAGACG 57.326 42.857 0.00 0.00 0.00 4.18
2249 4265 5.163754 CGGGGTTTGTAGATTCAGATGTTTC 60.164 44.000 0.00 0.00 0.00 2.78
2255 4271 9.736023 GTTTGTAGATTCAGATGTTTCACTTTT 57.264 29.630 0.00 0.00 0.00 2.27
2310 4326 3.119137 GGTGTTTTGCCTTGACTTGTTCT 60.119 43.478 0.00 0.00 0.00 3.01
2311 4327 3.859386 GTGTTTTGCCTTGACTTGTTCTG 59.141 43.478 0.00 0.00 0.00 3.02
2320 4336 2.575532 TGACTTGTTCTGGGCAAGAAG 58.424 47.619 4.08 0.00 45.69 2.85
2392 4502 9.702494 ACTGTAAGCTTTCTTAATTTAGTACGT 57.298 29.630 3.20 0.00 37.60 3.57
2398 4508 8.601476 AGCTTTCTTAATTTAGTACGTACATGC 58.399 33.333 26.55 14.57 0.00 4.06
2421 4531 6.427853 TGCATGGTATCAATCTAATGCTACAC 59.572 38.462 6.95 0.00 40.74 2.90
2426 4536 8.880244 TGGTATCAATCTAATGCTACACCTATT 58.120 33.333 0.00 0.00 0.00 1.73
2441 4551 8.660373 GCTACACCTATTATGTTTGATGCTATC 58.340 37.037 0.00 0.00 0.00 2.08
2446 4556 7.604164 ACCTATTATGTTTGATGCTATCTTCCG 59.396 37.037 0.00 0.00 0.00 4.30
2454 4564 3.951680 TGATGCTATCTTCCGTCTGTGTA 59.048 43.478 0.00 0.00 0.00 2.90
2511 4621 0.521291 TTAGCAACGCAATCTGGTGC 59.479 50.000 0.00 0.00 41.32 5.01
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
2 3 9.973661 TCCTCTGGATTATTTTGAAGATAAACA 57.026 29.630 0.00 0.00 0.00 2.83
6 7 9.218525 ACTCTCCTCTGGATTATTTTGAAGATA 57.781 33.333 0.00 0.00 0.00 1.98
7 8 7.992033 CACTCTCCTCTGGATTATTTTGAAGAT 59.008 37.037 0.00 0.00 0.00 2.40
9 10 6.541641 CCACTCTCCTCTGGATTATTTTGAAG 59.458 42.308 0.00 0.00 0.00 3.02
10 11 6.418101 CCACTCTCCTCTGGATTATTTTGAA 58.582 40.000 0.00 0.00 0.00 2.69
11 12 5.104360 CCCACTCTCCTCTGGATTATTTTGA 60.104 44.000 0.00 0.00 0.00 2.69
12 13 5.128919 CCCACTCTCCTCTGGATTATTTTG 58.871 45.833 0.00 0.00 0.00 2.44
13 14 4.166919 CCCCACTCTCCTCTGGATTATTTT 59.833 45.833 0.00 0.00 0.00 1.82
14 15 3.718956 CCCCACTCTCCTCTGGATTATTT 59.281 47.826 0.00 0.00 0.00 1.40
15 16 3.321950 CCCCACTCTCCTCTGGATTATT 58.678 50.000 0.00 0.00 0.00 1.40
16 17 2.428484 CCCCCACTCTCCTCTGGATTAT 60.428 54.545 0.00 0.00 0.00 1.28
17 18 1.062121 CCCCCACTCTCCTCTGGATTA 60.062 57.143 0.00 0.00 0.00 1.75
18 19 0.327000 CCCCCACTCTCCTCTGGATT 60.327 60.000 0.00 0.00 0.00 3.01
19 20 1.316266 CCCCCACTCTCCTCTGGAT 59.684 63.158 0.00 0.00 0.00 3.41
20 21 0.854039 TACCCCCACTCTCCTCTGGA 60.854 60.000 0.00 0.00 0.00 3.86
21 22 0.042731 TTACCCCCACTCTCCTCTGG 59.957 60.000 0.00 0.00 0.00 3.86
22 23 1.952621 TTTACCCCCACTCTCCTCTG 58.047 55.000 0.00 0.00 0.00 3.35
23 24 2.735259 TTTTACCCCCACTCTCCTCT 57.265 50.000 0.00 0.00 0.00 3.69
24 25 3.621558 CATTTTTACCCCCACTCTCCTC 58.378 50.000 0.00 0.00 0.00 3.71
25 26 2.311841 CCATTTTTACCCCCACTCTCCT 59.688 50.000 0.00 0.00 0.00 3.69
26 27 2.310647 TCCATTTTTACCCCCACTCTCC 59.689 50.000 0.00 0.00 0.00 3.71
27 28 3.245122 TGTCCATTTTTACCCCCACTCTC 60.245 47.826 0.00 0.00 0.00 3.20
28 29 2.719705 TGTCCATTTTTACCCCCACTCT 59.280 45.455 0.00 0.00 0.00 3.24
29 30 2.823747 GTGTCCATTTTTACCCCCACTC 59.176 50.000 0.00 0.00 0.00 3.51
30 31 2.816337 CGTGTCCATTTTTACCCCCACT 60.816 50.000 0.00 0.00 0.00 4.00
31 32 1.542472 CGTGTCCATTTTTACCCCCAC 59.458 52.381 0.00 0.00 0.00 4.61
32 33 1.145325 ACGTGTCCATTTTTACCCCCA 59.855 47.619 0.00 0.00 0.00 4.96
33 34 1.542472 CACGTGTCCATTTTTACCCCC 59.458 52.381 7.58 0.00 0.00 5.40
34 35 1.068125 GCACGTGTCCATTTTTACCCC 60.068 52.381 18.38 0.00 0.00 4.95
35 36 1.400500 CGCACGTGTCCATTTTTACCC 60.400 52.381 18.38 0.00 0.00 3.69
36 37 1.958417 CGCACGTGTCCATTTTTACC 58.042 50.000 18.38 0.00 0.00 2.85
37 38 1.323791 GCGCACGTGTCCATTTTTAC 58.676 50.000 18.38 0.00 0.00 2.01
38 39 0.110599 CGCGCACGTGTCCATTTTTA 60.111 50.000 18.38 0.00 33.53 1.52
39 40 1.369930 CGCGCACGTGTCCATTTTT 60.370 52.632 18.38 0.00 33.53 1.94
40 41 2.251075 CGCGCACGTGTCCATTTT 59.749 55.556 18.38 0.00 33.53 1.82
41 42 4.383602 GCGCGCACGTGTCCATTT 62.384 61.111 29.10 0.00 42.83 2.32
45 46 4.307908 AAAAGCGCGCACGTGTCC 62.308 61.111 35.10 7.45 42.83 4.02
46 47 2.695712 AAGAAAAGCGCGCACGTGTC 62.696 55.000 35.10 21.38 42.83 3.67
61 62 0.981943 GGTTCCGGGGAGAAGAAGAA 59.018 55.000 0.00 0.00 0.00 2.52
453 470 1.304217 GTCGGGAGTGAGGACCAGA 60.304 63.158 0.00 0.00 0.00 3.86
463 480 4.341783 ACGAGGTCGGTCGGGAGT 62.342 66.667 4.13 0.00 44.53 3.85
523 542 1.797211 GCGCGGAGGTCTACATAGCT 61.797 60.000 8.83 0.00 0.00 3.32
563 582 3.718210 CTAGGGTCTTCGGTGGCGC 62.718 68.421 0.00 0.00 0.00 6.53
749 768 1.004918 AGGACGAAGAAGCCGTTGG 60.005 57.895 0.00 0.00 40.67 3.77
771 790 1.179174 CGTGAGGTGGACTCCTGTCA 61.179 60.000 0.00 0.00 46.01 3.58
896 916 0.304098 GCAGAGCACGATGAGATTGC 59.696 55.000 0.00 0.00 36.45 3.56
926 946 3.377172 CCGAAAAGCCCTGTAATACTTGG 59.623 47.826 0.00 0.00 0.00 3.61
947 967 2.095718 GCGATGAAACTTTCACTGTCCC 60.096 50.000 6.35 0.00 43.48 4.46
1089 1172 4.099881 ACCTGAAGCTGCTTTGAAAAATCA 59.900 37.500 17.10 6.30 0.00 2.57
1095 1178 2.653726 TCAACCTGAAGCTGCTTTGAA 58.346 42.857 17.10 4.89 0.00 2.69
1136 1219 0.460987 GCGATGTCCAAGAGGGTCAG 60.461 60.000 0.00 0.00 38.12 3.51
1187 1282 4.541705 TGTGATGAAAAAGACTTCCCCAA 58.458 39.130 0.00 0.00 0.00 4.12
1214 1309 1.512156 AACCGCAACACGTTCCCATC 61.512 55.000 0.00 0.00 41.42 3.51
1224 1319 1.599518 AATGCCGAGAACCGCAACA 60.600 52.632 0.00 0.00 36.84 3.33
1242 1340 1.956477 GCCTGTTTCTTCTTTGGCTCA 59.044 47.619 0.00 0.00 37.58 4.26
1250 1348 1.537202 GCATGAACGCCTGTTTCTTCT 59.463 47.619 0.00 0.00 38.78 2.85
1264 1362 2.151202 GAAAGTCTTCACGGGCATGAA 58.849 47.619 0.00 3.73 37.08 2.57
1272 1370 0.600255 ACCTGCCGAAAGTCTTCACG 60.600 55.000 5.51 5.51 0.00 4.35
1281 1379 0.981183 AGATGGTGTACCTGCCGAAA 59.019 50.000 2.32 0.00 36.82 3.46
1282 1380 0.981183 AAGATGGTGTACCTGCCGAA 59.019 50.000 2.32 0.00 36.82 4.30
1294 1392 0.839277 TGATGGCCGATGAAGATGGT 59.161 50.000 0.00 0.00 0.00 3.55
1443 1541 7.716560 TCCTTGATGAAATTGACGACATCATAT 59.283 33.333 0.00 0.00 45.05 1.78
1451 1549 4.253685 GTCCTCCTTGATGAAATTGACGA 58.746 43.478 0.00 0.00 0.00 4.20
1453 1551 5.620879 GCTTGTCCTCCTTGATGAAATTGAC 60.621 44.000 0.00 0.00 0.00 3.18
1462 1560 3.152341 CAAACTGCTTGTCCTCCTTGAT 58.848 45.455 0.00 0.00 0.00 2.57
1515 1613 2.609916 CGTGTAGCTCGAGAGAAGATGA 59.390 50.000 18.75 0.00 41.32 2.92
1518 1616 2.381725 TCGTGTAGCTCGAGAGAAGA 57.618 50.000 18.75 4.15 41.32 2.87
1853 1986 2.355444 AGCAGCAAACAAACCAAATTGC 59.645 40.909 0.00 1.31 46.43 3.56
1854 1987 3.622163 TCAGCAGCAAACAAACCAAATTG 59.378 39.130 0.00 0.00 36.37 2.32
1855 1988 3.871485 TCAGCAGCAAACAAACCAAATT 58.129 36.364 0.00 0.00 0.00 1.82
1856 1989 3.540314 TCAGCAGCAAACAAACCAAAT 57.460 38.095 0.00 0.00 0.00 2.32
1857 1990 3.325293 TTCAGCAGCAAACAAACCAAA 57.675 38.095 0.00 0.00 0.00 3.28
1858 1991 3.325293 TTTCAGCAGCAAACAAACCAA 57.675 38.095 0.00 0.00 0.00 3.67
1859 1992 3.540314 ATTTCAGCAGCAAACAAACCA 57.460 38.095 0.00 0.00 0.00 3.67
1860 1993 4.880886 AAATTTCAGCAGCAAACAAACC 57.119 36.364 0.00 0.00 0.00 3.27
1861 1994 4.957372 CGAAAATTTCAGCAGCAAACAAAC 59.043 37.500 6.53 0.00 0.00 2.93
1862 1995 4.493872 GCGAAAATTTCAGCAGCAAACAAA 60.494 37.500 14.27 0.00 32.28 2.83
1863 1996 3.001127 GCGAAAATTTCAGCAGCAAACAA 59.999 39.130 14.27 0.00 32.28 2.83
1864 1997 2.539274 GCGAAAATTTCAGCAGCAAACA 59.461 40.909 14.27 0.00 32.28 2.83
2079 2214 3.430651 CCATTGTGTCACAAAAGCAGGTT 60.431 43.478 21.71 0.50 41.96 3.50
2082 2217 2.129607 GCCATTGTGTCACAAAAGCAG 58.870 47.619 26.39 14.73 41.96 4.24
2153 4169 0.244994 AAGCGCGTCTTGAGTCTGAT 59.755 50.000 8.43 0.00 32.79 2.90
2155 4171 0.162507 CAAAGCGCGTCTTGAGTCTG 59.837 55.000 8.43 3.01 34.67 3.51
2159 4175 1.640428 TATCCAAAGCGCGTCTTGAG 58.360 50.000 19.64 13.41 34.67 3.02
2161 4177 1.933181 TCATATCCAAAGCGCGTCTTG 59.067 47.619 8.43 11.55 34.67 3.02
2193 4209 3.434641 CAGCAACTCAATACTGTGTCAGG 59.565 47.826 1.90 0.00 35.51 3.86
2202 4218 5.621228 CGTCTTTGAAACAGCAACTCAATAC 59.379 40.000 0.00 0.00 0.00 1.89
2220 4236 4.041198 TCTGAATCTACAAACCCCGTCTTT 59.959 41.667 0.00 0.00 0.00 2.52
2226 4242 5.710099 TGAAACATCTGAATCTACAAACCCC 59.290 40.000 0.00 0.00 0.00 4.95
2249 4265 4.394920 AGGAATGCGGTATACACAAAAGTG 59.605 41.667 5.01 0.00 0.00 3.16
2255 4271 3.196901 AGAACAGGAATGCGGTATACACA 59.803 43.478 5.01 2.70 0.00 3.72
2264 4280 4.631377 TGATAACTTCAGAACAGGAATGCG 59.369 41.667 0.00 0.00 0.00 4.73
2310 4326 0.823356 GTCAACCTGCTTCTTGCCCA 60.823 55.000 0.00 0.00 42.00 5.36
2311 4327 0.538287 AGTCAACCTGCTTCTTGCCC 60.538 55.000 0.00 0.00 42.00 5.36
2391 4501 7.120285 AGCATTAGATTGATACCATGCATGTAC 59.880 37.037 24.58 12.91 39.62 2.90
2392 4502 7.170277 AGCATTAGATTGATACCATGCATGTA 58.830 34.615 24.58 16.56 39.62 2.29
2393 4503 6.008331 AGCATTAGATTGATACCATGCATGT 58.992 36.000 24.58 15.01 39.62 3.21
2394 4504 6.510879 AGCATTAGATTGATACCATGCATG 57.489 37.500 20.19 20.19 39.62 4.06
2395 4505 7.120285 GTGTAGCATTAGATTGATACCATGCAT 59.880 37.037 0.00 0.00 39.62 3.96
2396 4506 6.427853 GTGTAGCATTAGATTGATACCATGCA 59.572 38.462 4.86 0.00 39.62 3.96
2397 4507 6.128172 GGTGTAGCATTAGATTGATACCATGC 60.128 42.308 0.00 0.00 37.62 4.06
2398 4508 7.164122 AGGTGTAGCATTAGATTGATACCATG 58.836 38.462 0.00 0.00 37.62 3.66
2421 4531 7.604164 ACGGAAGATAGCATCAAACATAATAGG 59.396 37.037 0.00 0.00 0.00 2.57
2426 4536 5.985530 CAGACGGAAGATAGCATCAAACATA 59.014 40.000 0.00 0.00 0.00 2.29
2441 4551 2.795175 ACACAGTACACAGACGGAAG 57.205 50.000 0.00 0.00 0.00 3.46
2446 4556 3.319238 GTGCAAACACAGTACACAGAC 57.681 47.619 0.00 0.00 46.61 3.51
2511 4621 8.744923 GCCAAAATTTCAACAGCAAATAAAAAG 58.255 29.630 0.00 0.00 0.00 2.27


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

AutoCloner maintained by Alex Coulton.