Multiple sequence alignment - TraesCS2D01G478200

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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 TraesCS2D01G478200 chr2D 100.000 3440 0 0 1 3440 579739474 579742913 0.000000e+00 6353
1 TraesCS2D01G478200 chr2D 89.184 1433 122 23 1046 2449 579571235 579572663 0.000000e+00 1757
2 TraesCS2D01G478200 chr2D 91.247 834 63 6 2603 3435 364975384 364976208 0.000000e+00 1127
3 TraesCS2D01G478200 chr2D 76.466 1432 238 63 1048 2413 83157533 83156135 0.000000e+00 686
4 TraesCS2D01G478200 chr2D 76.892 1242 217 49 1047 2235 84742974 84744198 1.040000e-179 640
5 TraesCS2D01G478200 chr2B 90.977 2560 129 41 1 2536 697664483 697666964 0.000000e+00 3354
6 TraesCS2D01G478200 chr2B 87.702 1423 147 19 1054 2450 697546707 697548127 0.000000e+00 1633
7 TraesCS2D01G478200 chr2B 76.475 1254 226 44 1024 2235 135026403 135025177 4.880000e-173 617
8 TraesCS2D01G478200 chr2B 79.116 656 100 25 1598 2235 136434771 136435407 5.310000e-113 418
9 TraesCS2D01G478200 chr2B 77.912 249 52 3 90 336 776531549 776531796 5.950000e-33 152
10 TraesCS2D01G478200 chr2A 90.708 2077 110 42 441 2491 717252393 717254412 0.000000e+00 2689
11 TraesCS2D01G478200 chr2A 88.624 1424 132 20 1054 2450 717200341 717201761 0.000000e+00 1705
12 TraesCS2D01G478200 chr2A 76.799 1431 231 65 1050 2413 83857328 83855932 0.000000e+00 710
13 TraesCS2D01G478200 chr2A 77.003 1248 202 54 1047 2235 85291746 85292967 1.350000e-178 636
14 TraesCS2D01G478200 chr2A 76.634 1224 203 52 1073 2235 85589899 85591100 1.770000e-167 599
15 TraesCS2D01G478200 chr2A 74.286 1155 191 56 1037 2138 83849043 83847942 1.160000e-104 390
16 TraesCS2D01G478200 chr2A 93.636 110 7 0 2498 2607 717254549 717254658 7.640000e-37 165
17 TraesCS2D01G478200 chr7D 95.169 828 39 1 2608 3435 141192926 141192100 0.000000e+00 1306
18 TraesCS2D01G478200 chr7D 93.366 829 49 4 2607 3435 206060119 206060941 0.000000e+00 1221
19 TraesCS2D01G478200 chr3D 95.048 828 39 2 2608 3435 435659550 435658725 0.000000e+00 1301
20 TraesCS2D01G478200 chr3D 95.018 823 29 6 2623 3440 75613838 75613023 0.000000e+00 1282
21 TraesCS2D01G478200 chr3D 91.986 836 55 9 2602 3435 103351389 103352214 0.000000e+00 1162
22 TraesCS2D01G478200 chr3D 79.435 248 44 6 89 331 600830457 600830212 5.900000e-38 169
23 TraesCS2D01G478200 chr3D 79.452 219 42 2 90 305 597282644 597282426 5.950000e-33 152
24 TraesCS2D01G478200 chr3D 77.200 250 52 4 90 335 394199116 394198868 1.290000e-29 141
25 TraesCS2D01G478200 chr4D 94.111 832 43 4 2604 3435 55305910 55305085 0.000000e+00 1260
26 TraesCS2D01G478200 chr4D 90.482 830 67 7 2608 3435 461277659 461278478 0.000000e+00 1085
27 TraesCS2D01G478200 chr1D 92.225 836 56 6 2606 3440 286100737 286101564 0.000000e+00 1175
28 TraesCS2D01G478200 chr1D 76.296 270 55 8 89 352 454907688 454907954 5.990000e-28 135
29 TraesCS2D01G478200 chr5D 77.444 266 54 5 91 352 37646261 37646524 1.650000e-33 154
30 TraesCS2D01G478200 chr5D 77.982 218 42 6 92 305 531264067 531263852 7.750000e-27 132
31 TraesCS2D01G478200 chr7A 78.475 223 43 4 89 307 34974149 34974370 1.290000e-29 141


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 TraesCS2D01G478200 chr2D 579739474 579742913 3439 False 6353 6353 100.000 1 3440 1 chr2D.!!$F4 3439
1 TraesCS2D01G478200 chr2D 579571235 579572663 1428 False 1757 1757 89.184 1046 2449 1 chr2D.!!$F3 1403
2 TraesCS2D01G478200 chr2D 364975384 364976208 824 False 1127 1127 91.247 2603 3435 1 chr2D.!!$F2 832
3 TraesCS2D01G478200 chr2D 83156135 83157533 1398 True 686 686 76.466 1048 2413 1 chr2D.!!$R1 1365
4 TraesCS2D01G478200 chr2D 84742974 84744198 1224 False 640 640 76.892 1047 2235 1 chr2D.!!$F1 1188
5 TraesCS2D01G478200 chr2B 697664483 697666964 2481 False 3354 3354 90.977 1 2536 1 chr2B.!!$F3 2535
6 TraesCS2D01G478200 chr2B 697546707 697548127 1420 False 1633 1633 87.702 1054 2450 1 chr2B.!!$F2 1396
7 TraesCS2D01G478200 chr2B 135025177 135026403 1226 True 617 617 76.475 1024 2235 1 chr2B.!!$R1 1211
8 TraesCS2D01G478200 chr2B 136434771 136435407 636 False 418 418 79.116 1598 2235 1 chr2B.!!$F1 637
9 TraesCS2D01G478200 chr2A 717200341 717201761 1420 False 1705 1705 88.624 1054 2450 1 chr2A.!!$F3 1396
10 TraesCS2D01G478200 chr2A 717252393 717254658 2265 False 1427 2689 92.172 441 2607 2 chr2A.!!$F4 2166
11 TraesCS2D01G478200 chr2A 83855932 83857328 1396 True 710 710 76.799 1050 2413 1 chr2A.!!$R2 1363
12 TraesCS2D01G478200 chr2A 85291746 85292967 1221 False 636 636 77.003 1047 2235 1 chr2A.!!$F1 1188
13 TraesCS2D01G478200 chr2A 85589899 85591100 1201 False 599 599 76.634 1073 2235 1 chr2A.!!$F2 1162
14 TraesCS2D01G478200 chr2A 83847942 83849043 1101 True 390 390 74.286 1037 2138 1 chr2A.!!$R1 1101
15 TraesCS2D01G478200 chr7D 141192100 141192926 826 True 1306 1306 95.169 2608 3435 1 chr7D.!!$R1 827
16 TraesCS2D01G478200 chr7D 206060119 206060941 822 False 1221 1221 93.366 2607 3435 1 chr7D.!!$F1 828
17 TraesCS2D01G478200 chr3D 435658725 435659550 825 True 1301 1301 95.048 2608 3435 1 chr3D.!!$R3 827
18 TraesCS2D01G478200 chr3D 75613023 75613838 815 True 1282 1282 95.018 2623 3440 1 chr3D.!!$R1 817
19 TraesCS2D01G478200 chr3D 103351389 103352214 825 False 1162 1162 91.986 2602 3435 1 chr3D.!!$F1 833
20 TraesCS2D01G478200 chr4D 55305085 55305910 825 True 1260 1260 94.111 2604 3435 1 chr4D.!!$R1 831
21 TraesCS2D01G478200 chr4D 461277659 461278478 819 False 1085 1085 90.482 2608 3435 1 chr4D.!!$F1 827
22 TraesCS2D01G478200 chr1D 286100737 286101564 827 False 1175 1175 92.225 2606 3440 1 chr1D.!!$F1 834

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
220 223 0.034863 ACCTCTCACTCCTCGAGGAC 60.035 60.0 30.49 0.0 45.67 3.85 F
390 393 0.904865 AGATGAACGAGGAGGTGGCA 60.905 55.0 0.00 0.0 0.00 4.92 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2428 2595 0.883833 TCCGTCCGTTACTTCACCTC 59.116 55.000 0.0 0.0 0.0 3.85 R
2504 2801 1.258458 CGGCACAAACAAGCAAACATG 59.742 47.619 0.0 0.0 0.0 3.21 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 26 1.663173 GAGGCGCATAGAGGTCTCC 59.337 63.158 10.83 0.00 0.00 3.71
54 55 3.488569 CATGGGGGCGGCCTCTAA 61.489 66.667 30.09 10.42 0.00 2.10
80 81 1.214673 ACTCTATAGTCCTGCCCACGA 59.785 52.381 0.00 0.00 0.00 4.35
82 83 0.311165 CTATAGTCCTGCCCACGACG 59.689 60.000 0.00 0.00 34.10 5.12
91 92 2.330041 CCCACGACGTTTTGTGCC 59.670 61.111 0.00 0.00 35.94 5.01
99 100 1.657181 CGTTTTGTGCCGGCTTCAC 60.657 57.895 29.70 18.50 35.14 3.18
135 138 2.817834 GCACCAACGCCGCTATGA 60.818 61.111 0.00 0.00 0.00 2.15
146 149 1.589993 CGCTATGACGGAGGTGCAG 60.590 63.158 0.00 0.00 0.00 4.41
149 152 1.960040 CTATGACGGAGGTGCAGCCA 61.960 60.000 13.29 3.00 40.61 4.75
190 193 4.399395 TGGCAGGCGCAAGAGGAG 62.399 66.667 10.83 0.00 41.24 3.69
216 219 2.434428 GTACAACCTCTCACTCCTCGA 58.566 52.381 0.00 0.00 0.00 4.04
220 223 0.034863 ACCTCTCACTCCTCGAGGAC 60.035 60.000 30.49 0.00 45.67 3.85
232 235 1.811266 CGAGGACCATTGGCTGACG 60.811 63.158 1.54 0.75 0.00 4.35
248 251 2.752354 CTGACGGATGGCCAAATTTACA 59.248 45.455 10.96 5.61 0.00 2.41
249 252 2.752354 TGACGGATGGCCAAATTTACAG 59.248 45.455 10.96 0.88 0.00 2.74
253 256 3.313526 CGGATGGCCAAATTTACAGAGAG 59.686 47.826 10.96 0.00 0.00 3.20
255 258 2.083774 TGGCCAAATTTACAGAGAGCG 58.916 47.619 0.61 0.00 0.00 5.03
332 335 3.862402 AGCGAGCGTCGTACGAGG 61.862 66.667 28.55 28.55 46.05 4.63
355 358 4.476410 CACGCTCGAGCCGCTACA 62.476 66.667 30.66 0.00 37.91 2.74
356 359 3.744719 ACGCTCGAGCCGCTACAA 61.745 61.111 30.66 0.00 37.91 2.41
357 360 2.278857 CGCTCGAGCCGCTACAAT 60.279 61.111 30.66 0.00 37.91 2.71
358 361 2.580470 CGCTCGAGCCGCTACAATG 61.580 63.158 30.66 10.21 37.91 2.82
359 362 2.875786 GCTCGAGCCGCTACAATGC 61.876 63.158 27.22 0.00 34.31 3.56
376 379 1.515519 GCGTTCGCGGTGTAGATGA 60.516 57.895 6.13 0.00 41.67 2.92
390 393 0.904865 AGATGAACGAGGAGGTGGCA 60.905 55.000 0.00 0.00 0.00 4.92
402 405 2.581354 GTGGCACAGGAGATCGCT 59.419 61.111 13.86 0.00 41.80 4.93
406 409 1.216444 GCACAGGAGATCGCTGACA 59.784 57.895 0.00 0.00 0.00 3.58
412 415 1.895798 AGGAGATCGCTGACAAGAACA 59.104 47.619 0.00 0.00 0.00 3.18
414 417 1.651138 GAGATCGCTGACAAGAACACG 59.349 52.381 0.00 0.00 0.00 4.49
421 424 2.954753 GACAAGAACACGGGCAGCG 61.955 63.158 0.00 0.00 0.00 5.18
422 425 2.972505 CAAGAACACGGGCAGCGT 60.973 61.111 0.00 0.00 0.00 5.07
452 456 1.582610 CGGGGTCCGTGTCCATTTTG 61.583 60.000 0.00 0.00 42.73 2.44
482 487 4.760757 GGAGATGCCGTTAGCTCC 57.239 61.111 4.93 4.93 44.98 4.70
485 490 2.246719 GAGATGCCGTTAGCTCCAAT 57.753 50.000 0.00 0.00 44.23 3.16
565 584 1.550327 TTGTTTGTTGGCCACACTCA 58.450 45.000 3.88 6.27 33.98 3.41
566 585 1.102154 TGTTTGTTGGCCACACTCAG 58.898 50.000 3.88 0.00 33.98 3.35
567 586 1.102978 GTTTGTTGGCCACACTCAGT 58.897 50.000 3.88 0.00 33.98 3.41
662 681 1.106933 CATCGCATTCATTGTTCGCG 58.893 50.000 0.00 0.00 46.92 5.87
735 757 8.301720 CCATCATGTTGAATAACCATTATCCTG 58.698 37.037 5.30 0.00 35.92 3.86
736 758 9.070179 CATCATGTTGAATAACCATTATCCTGA 57.930 33.333 0.00 0.00 35.92 3.86
737 759 8.450578 TCATGTTGAATAACCATTATCCTGAC 57.549 34.615 0.00 0.00 35.92 3.51
743 765 7.047891 TGAATAACCATTATCCTGACAGTGTC 58.952 38.462 16.68 16.68 0.00 3.67
889 932 7.432869 GCTCTCATATCATACATATCCTCCAC 58.567 42.308 0.00 0.00 0.00 4.02
923 966 1.021202 TCGTCAAAGGTTTGCCACAG 58.979 50.000 0.00 0.00 38.05 3.66
980 1026 2.126071 CAGCCGTACTGTGTCCCG 60.126 66.667 0.00 0.00 41.86 5.14
1016 1062 2.202756 GATGGAGTCGACACGGGC 60.203 66.667 19.50 0.00 0.00 6.13
1017 1063 3.718210 GATGGAGTCGACACGGGCC 62.718 68.421 19.50 10.91 0.00 5.80
1020 1066 4.477975 GAGTCGACACGGGCCGAG 62.478 72.222 35.78 28.52 35.31 4.63
1180 1226 2.765250 CTTCACCGACCTGTCCACCG 62.765 65.000 0.00 0.00 0.00 4.94
2485 2652 0.664166 CATGGCTGTTTGTTGGCGTC 60.664 55.000 0.00 0.00 0.00 5.19
2495 2662 2.248280 TGTTGGCGTCTTGTGTGTAT 57.752 45.000 0.00 0.00 0.00 2.29
2504 2801 1.966493 CTTGTGTGTATCGGCGGTGC 61.966 60.000 7.21 3.40 0.00 5.01
2523 2820 1.003652 GCATGTTTGCTTGTTTGTGCC 60.004 47.619 0.00 0.00 45.77 5.01
2556 2853 1.996191 GGCTCGTCTGACTTTGATGAC 59.004 52.381 6.21 0.00 0.00 3.06
2663 2960 0.178947 TTTGGGCCGGATTTTGTCCT 60.179 50.000 5.05 0.00 45.46 3.85
2668 2966 2.563620 GGGCCGGATTTTGTCCTTTTAA 59.436 45.455 5.05 0.00 45.46 1.52
2670 2968 3.508402 GGCCGGATTTTGTCCTTTTAAGA 59.492 43.478 5.05 0.00 45.46 2.10
2673 2971 4.214758 CCGGATTTTGTCCTTTTAAGACGT 59.785 41.667 0.00 0.00 45.46 4.34
2707 3005 0.968901 ATGTCCGCCTCTGTCCGTTA 60.969 55.000 0.00 0.00 0.00 3.18
2711 3009 1.590147 CGCCTCTGTCCGTTAGGTT 59.410 57.895 0.00 0.00 39.05 3.50
2872 3175 3.223589 GCCACAAAACGGCCCAGT 61.224 61.111 0.00 0.00 44.22 4.00
2970 3275 2.431942 GTGCCCGTCGATGTCGTT 60.432 61.111 3.52 0.00 40.80 3.85
2985 3290 2.719354 GTTGCCGTTGCCGTCTTT 59.281 55.556 0.00 0.00 36.33 2.52
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
25 26 4.508128 CCCATGGTCCGGTCGTCG 62.508 72.222 11.73 0.00 38.88 5.12
80 81 2.115911 TGAAGCCGGCACAAAACGT 61.116 52.632 31.54 0.76 0.00 3.99
82 83 1.299850 GGTGAAGCCGGCACAAAAC 60.300 57.895 31.54 18.23 37.99 2.43
91 92 2.046023 TGCTCCATGGTGAAGCCG 60.046 61.111 17.98 0.00 41.21 5.52
99 100 4.478371 TCTGCGCCTGCTCCATGG 62.478 66.667 4.97 4.97 43.34 3.66
128 129 1.589993 CTGCACCTCCGTCATAGCG 60.590 63.158 0.00 0.00 0.00 4.26
135 138 4.988598 CGTTGGCTGCACCTCCGT 62.989 66.667 0.50 0.00 40.22 4.69
156 159 2.283388 AGAACCCCGACACCGCTA 60.283 61.111 0.00 0.00 0.00 4.26
168 171 3.741476 CTTGCGCCTGCCAGAACC 61.741 66.667 4.18 0.00 41.78 3.62
190 193 0.731855 GTGAGAGGTTGTACCGTCGC 60.732 60.000 0.00 0.00 44.90 5.19
193 196 1.203025 AGGAGTGAGAGGTTGTACCGT 60.203 52.381 0.00 0.00 44.90 4.83
195 198 1.473278 CGAGGAGTGAGAGGTTGTACC 59.527 57.143 0.00 0.00 38.99 3.34
216 219 1.274703 ATCCGTCAGCCAATGGTCCT 61.275 55.000 0.00 0.00 0.00 3.85
218 221 1.097547 CCATCCGTCAGCCAATGGTC 61.098 60.000 0.00 0.00 35.08 4.02
220 223 2.484062 GCCATCCGTCAGCCAATGG 61.484 63.158 0.00 0.00 41.34 3.16
232 235 3.067320 GCTCTCTGTAAATTTGGCCATCC 59.933 47.826 6.09 0.00 0.00 3.51
279 282 1.550130 GGGGTTCTCCGTGGTCATGA 61.550 60.000 0.00 0.00 36.01 3.07
285 288 0.605589 GAAGTTGGGGTTCTCCGTGG 60.606 60.000 0.00 0.00 36.01 4.94
313 316 4.806481 TCGTACGACGCTCGCTGC 62.806 66.667 15.28 0.00 45.12 5.25
317 320 4.883300 GGCCTCGTACGACGCTCG 62.883 72.222 29.38 14.89 46.93 5.03
318 321 4.883300 CGGCCTCGTACGACGCTC 62.883 72.222 29.38 21.02 42.21 5.03
339 342 3.064987 ATTGTAGCGGCTCGAGCGT 62.065 57.895 29.81 19.28 43.26 5.07
341 344 2.875786 GCATTGTAGCGGCTCGAGC 61.876 63.158 29.38 29.38 41.14 5.03
350 353 2.021380 CCGCGAACGCATTGTAGC 59.979 61.111 18.69 0.00 42.06 3.58
351 354 1.058748 CACCGCGAACGCATTGTAG 59.941 57.895 18.69 1.72 42.06 2.74
352 355 0.388263 TACACCGCGAACGCATTGTA 60.388 50.000 18.69 18.82 42.06 2.41
353 356 1.623081 CTACACCGCGAACGCATTGT 61.623 55.000 20.43 20.43 42.06 2.71
354 357 1.058748 CTACACCGCGAACGCATTG 59.941 57.895 18.69 15.56 42.06 2.82
355 358 0.459585 ATCTACACCGCGAACGCATT 60.460 50.000 18.69 2.06 42.06 3.56
356 359 1.141019 ATCTACACCGCGAACGCAT 59.859 52.632 18.69 3.72 42.06 4.73
357 360 1.803922 CATCTACACCGCGAACGCA 60.804 57.895 18.69 0.00 42.06 5.24
358 361 1.074319 TTCATCTACACCGCGAACGC 61.074 55.000 8.23 9.20 38.22 4.84
359 362 0.638746 GTTCATCTACACCGCGAACG 59.361 55.000 8.23 0.00 39.67 3.95
360 363 0.638746 CGTTCATCTACACCGCGAAC 59.361 55.000 8.23 0.00 34.10 3.95
361 364 0.522626 TCGTTCATCTACACCGCGAA 59.477 50.000 8.23 0.00 0.00 4.70
366 369 2.100989 ACCTCCTCGTTCATCTACACC 58.899 52.381 0.00 0.00 0.00 4.16
376 379 2.743718 CTGTGCCACCTCCTCGTT 59.256 61.111 0.00 0.00 0.00 3.85
390 393 1.550327 TCTTGTCAGCGATCTCCTGT 58.450 50.000 9.27 0.00 0.00 4.00
402 405 1.891919 GCTGCCCGTGTTCTTGTCA 60.892 57.895 0.00 0.00 0.00 3.58
422 425 4.705519 GACCCCGAAACGACGCGA 62.706 66.667 15.93 0.00 0.00 5.87
436 439 1.248101 CCCCAAAATGGACACGGACC 61.248 60.000 0.00 0.00 40.96 4.46
452 456 0.108138 CATCTCCGACACTCAACCCC 60.108 60.000 0.00 0.00 0.00 4.95
474 478 2.228822 CCACAACCACATTGGAGCTAAC 59.771 50.000 0.00 0.00 40.96 2.34
482 487 1.001815 GGACGAACCACAACCACATTG 60.002 52.381 0.00 0.00 44.60 2.82
485 490 1.602771 TGGACGAACCACAACCACA 59.397 52.632 0.00 0.00 44.64 4.17
565 584 1.407656 TTCGGAGGCACTTGACCACT 61.408 55.000 0.00 0.00 41.55 4.00
566 585 0.951040 CTTCGGAGGCACTTGACCAC 60.951 60.000 0.00 0.00 41.55 4.16
567 586 1.371183 CTTCGGAGGCACTTGACCA 59.629 57.895 0.00 0.00 41.55 4.02
568 587 0.250338 AACTTCGGAGGCACTTGACC 60.250 55.000 0.00 0.00 41.55 4.02
569 588 1.594331 AAACTTCGGAGGCACTTGAC 58.406 50.000 0.00 0.00 41.55 3.18
570 589 3.695830 ATAAACTTCGGAGGCACTTGA 57.304 42.857 0.00 0.00 41.55 3.02
571 590 3.181520 CGAATAAACTTCGGAGGCACTTG 60.182 47.826 0.00 0.00 38.19 3.16
572 591 3.000727 CGAATAAACTTCGGAGGCACTT 58.999 45.455 0.00 0.00 38.19 3.16
662 681 8.876790 ACTTTAAGTACTAATAATGCACCGAAC 58.123 33.333 0.00 0.00 0.00 3.95
735 757 0.520404 TTAGCCGTCTCGACACTGTC 59.480 55.000 0.00 0.00 0.00 3.51
736 758 0.240411 GTTAGCCGTCTCGACACTGT 59.760 55.000 0.00 0.00 0.00 3.55
737 759 0.522180 AGTTAGCCGTCTCGACACTG 59.478 55.000 0.00 0.00 0.00 3.66
743 765 2.561733 TGATGAAGTTAGCCGTCTCG 57.438 50.000 0.00 0.00 0.00 4.04
923 966 0.801067 CGCAGAAGGTGGTACTACGC 60.801 60.000 3.03 0.00 0.00 4.42
970 1016 3.991051 CGCTCACCGGGACACAGT 61.991 66.667 6.32 0.00 0.00 3.55
1018 1064 4.840005 GGTGGGTGCCGCTAGCTC 62.840 72.222 13.93 5.02 44.23 4.09
2428 2595 0.883833 TCCGTCCGTTACTTCACCTC 59.116 55.000 0.00 0.00 0.00 3.85
2485 2652 1.966493 GCACCGCCGATACACACAAG 61.966 60.000 0.00 0.00 0.00 3.16
2495 2662 4.036804 GCAAACATGCACCGCCGA 62.037 61.111 0.00 0.00 34.41 5.54
2504 2801 1.258458 CGGCACAAACAAGCAAACATG 59.742 47.619 0.00 0.00 0.00 3.21
2523 2820 4.270084 TCAGACGAGCCTTTTATTAATGCG 59.730 41.667 0.00 0.00 0.00 4.73
2587 2884 1.748122 AATGCAGCGCAGAAGGGAG 60.748 57.895 11.47 0.00 43.65 4.30
2590 2887 1.428219 CTCAATGCAGCGCAGAAGG 59.572 57.895 11.47 0.00 43.65 3.46
2663 2960 3.742369 GTGAACCCATCGACGTCTTAAAA 59.258 43.478 14.70 0.00 0.00 1.52
2668 2966 1.590147 GGTGAACCCATCGACGTCT 59.410 57.895 14.70 0.00 0.00 4.18
2741 3039 2.388310 TCCAATGCGGACGTGATTTA 57.612 45.000 0.00 0.00 39.64 1.40
2872 3175 5.970140 TTATGTCAAGTTCGACGTGAAAA 57.030 34.783 0.00 0.00 38.27 2.29


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

AutoCloner maintained by Alex Coulton.