Multiple sequence alignment - TraesCS5A01G269600

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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 TraesCS5A01G269600 chr5A 100.000 2916 0 0 1 2916 480293976 480291061 0.000000e+00 5385.0
1 TraesCS5A01G269600 chr5A 100.000 40 0 0 45 84 580290404 580290443 1.120000e-09 75.0
2 TraesCS5A01G269600 chr5D 92.641 1916 62 31 311 2182 379797237 379795357 0.000000e+00 2684.0
3 TraesCS5A01G269600 chr5D 97.266 256 7 0 1 256 379797834 379797579 4.460000e-118 435.0
4 TraesCS5A01G269600 chr5B 91.460 1370 60 29 651 1988 455741209 455739865 0.000000e+00 1829.0
5 TraesCS5A01G269600 chr5B 89.973 738 48 8 2178 2914 70695610 70694898 0.000000e+00 929.0
6 TraesCS5A01G269600 chr5B 92.079 202 7 6 1985 2182 455739785 455739589 2.860000e-70 276.0
7 TraesCS5A01G269600 chr5B 82.540 126 17 3 331 455 455741570 455741449 3.970000e-19 106.0
8 TraesCS5A01G269600 chr6A 93.061 735 25 6 2183 2916 77899547 77898838 0.000000e+00 1051.0
9 TraesCS5A01G269600 chr6A 92.245 735 31 5 2183 2916 78033821 78033112 0.000000e+00 1018.0
10 TraesCS5A01G269600 chr2B 90.836 742 41 10 2176 2916 707961152 707961867 0.000000e+00 968.0
11 TraesCS5A01G269600 chr2B 90.327 734 44 10 2184 2916 449123828 449123121 0.000000e+00 937.0
12 TraesCS5A01G269600 chr7D 90.909 737 42 4 2180 2916 596065278 596065989 0.000000e+00 966.0
13 TraesCS5A01G269600 chr7B 90.748 735 42 9 2183 2916 484275169 484274460 0.000000e+00 957.0
14 TraesCS5A01G269600 chr7A 91.573 712 33 7 2205 2916 289162352 289163036 0.000000e+00 957.0
15 TraesCS5A01G269600 chr7A 92.150 293 13 3 2184 2475 549535278 549535561 3.500000e-109 405.0
16 TraesCS5A01G269600 chr3A 90.723 733 41 9 2186 2916 562895450 562894743 0.000000e+00 952.0
17 TraesCS5A01G269600 chrUn 90.366 737 46 7 2180 2916 67352396 67351685 0.000000e+00 944.0
18 TraesCS5A01G269600 chr1D 90.476 735 43 6 2180 2914 406666192 406666899 0.000000e+00 944.0
19 TraesCS5A01G269600 chr1D 90.000 90 6 1 1 87 251979526 251979437 2.380000e-21 113.0
20 TraesCS5A01G269600 chr1B 90.162 742 46 8 2176 2916 46375144 46375859 0.000000e+00 941.0
21 TraesCS5A01G269600 chr1B 89.782 734 41 6 2183 2916 156846945 156846246 0.000000e+00 909.0
22 TraesCS5A01G269600 chr1B 88.889 90 7 1 1 87 362053211 362053300 1.100000e-19 108.0
23 TraesCS5A01G269600 chr4D 86.667 90 9 1 1 87 15592951 15593040 2.390000e-16 97.1
24 TraesCS5A01G269600 chr4B 87.952 83 7 1 1 80 26663965 26664047 8.600000e-16 95.3


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 TraesCS5A01G269600 chr5A 480291061 480293976 2915 True 5385.0 5385 100.0000 1 2916 1 chr5A.!!$R1 2915
1 TraesCS5A01G269600 chr5D 379795357 379797834 2477 True 1559.5 2684 94.9535 1 2182 2 chr5D.!!$R1 2181
2 TraesCS5A01G269600 chr5B 70694898 70695610 712 True 929.0 929 89.9730 2178 2914 1 chr5B.!!$R1 736
3 TraesCS5A01G269600 chr5B 455739589 455741570 1981 True 737.0 1829 88.6930 331 2182 3 chr5B.!!$R2 1851
4 TraesCS5A01G269600 chr6A 77898838 77899547 709 True 1051.0 1051 93.0610 2183 2916 1 chr6A.!!$R1 733
5 TraesCS5A01G269600 chr6A 78033112 78033821 709 True 1018.0 1018 92.2450 2183 2916 1 chr6A.!!$R2 733
6 TraesCS5A01G269600 chr2B 707961152 707961867 715 False 968.0 968 90.8360 2176 2916 1 chr2B.!!$F1 740
7 TraesCS5A01G269600 chr2B 449123121 449123828 707 True 937.0 937 90.3270 2184 2916 1 chr2B.!!$R1 732
8 TraesCS5A01G269600 chr7D 596065278 596065989 711 False 966.0 966 90.9090 2180 2916 1 chr7D.!!$F1 736
9 TraesCS5A01G269600 chr7B 484274460 484275169 709 True 957.0 957 90.7480 2183 2916 1 chr7B.!!$R1 733
10 TraesCS5A01G269600 chr7A 289162352 289163036 684 False 957.0 957 91.5730 2205 2916 1 chr7A.!!$F1 711
11 TraesCS5A01G269600 chr3A 562894743 562895450 707 True 952.0 952 90.7230 2186 2916 1 chr3A.!!$R1 730
12 TraesCS5A01G269600 chrUn 67351685 67352396 711 True 944.0 944 90.3660 2180 2916 1 chrUn.!!$R1 736
13 TraesCS5A01G269600 chr1D 406666192 406666899 707 False 944.0 944 90.4760 2180 2914 1 chr1D.!!$F1 734
14 TraesCS5A01G269600 chr1B 46375144 46375859 715 False 941.0 941 90.1620 2176 2916 1 chr1B.!!$F1 740
15 TraesCS5A01G269600 chr1B 156846246 156846945 699 True 909.0 909 89.7820 2183 2916 1 chr1B.!!$R1 733

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
87 88 0.033796 ATCACCCACCAATGAGCAGG 60.034 55.0 0.0 0.0 0.00 4.85 F
1194 1591 0.172127 GGTTCGACTTCCCGTACCTC 59.828 60.0 0.0 0.0 43.61 3.85 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1414 1816 0.179148 ACGCATGCATCTTCGTCGTA 60.179 50.0 19.57 0.0 0.0 3.43 R
2535 3046 0.038892 GTACTTTGACTGGCCGACGA 60.039 55.0 0.00 0.0 0.0 4.20 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
23 24 2.239654 CACAAGTCCACCATAGGGATGT 59.760 50.000 0.00 0.00 36.67 3.06
25 26 2.505407 CAAGTCCACCATAGGGATGTCA 59.495 50.000 0.00 0.00 36.67 3.58
87 88 0.033796 ATCACCCACCAATGAGCAGG 60.034 55.000 0.00 0.00 0.00 4.85
119 120 3.120321 ACTGATACAAAGCGAACACCA 57.880 42.857 0.00 0.00 0.00 4.17
127 128 2.731587 AAGCGAACACCATGCAACGC 62.732 55.000 0.00 0.00 45.03 4.84
229 230 2.492881 TCAATTGTGCACCCATAAGCAG 59.507 45.455 15.69 0.00 42.14 4.24
256 257 3.498661 GGAAGATGAAAGTGGGAGGTGTT 60.499 47.826 0.00 0.00 0.00 3.32
257 258 3.146104 AGATGAAAGTGGGAGGTGTTG 57.854 47.619 0.00 0.00 0.00 3.33
259 260 0.184933 TGAAAGTGGGAGGTGTTGGG 59.815 55.000 0.00 0.00 0.00 4.12
262 263 1.293683 AAGTGGGAGGTGTTGGGGTT 61.294 55.000 0.00 0.00 0.00 4.11
263 264 1.530655 GTGGGAGGTGTTGGGGTTG 60.531 63.158 0.00 0.00 0.00 3.77
264 265 2.117423 GGGAGGTGTTGGGGTTGG 59.883 66.667 0.00 0.00 0.00 3.77
265 266 2.117423 GGAGGTGTTGGGGTTGGG 59.883 66.667 0.00 0.00 0.00 4.12
266 267 2.117423 GAGGTGTTGGGGTTGGGG 59.883 66.667 0.00 0.00 0.00 4.96
267 268 3.517497 AGGTGTTGGGGTTGGGGG 61.517 66.667 0.00 0.00 0.00 5.40
292 293 2.437085 GGGGGTGATAAAAGTGGGAG 57.563 55.000 0.00 0.00 0.00 4.30
293 294 1.063942 GGGGGTGATAAAAGTGGGAGG 60.064 57.143 0.00 0.00 0.00 4.30
294 295 1.063942 GGGGTGATAAAAGTGGGAGGG 60.064 57.143 0.00 0.00 0.00 4.30
295 296 1.063942 GGGTGATAAAAGTGGGAGGGG 60.064 57.143 0.00 0.00 0.00 4.79
296 297 1.063942 GGTGATAAAAGTGGGAGGGGG 60.064 57.143 0.00 0.00 0.00 5.40
388 676 5.281727 GGAAATTTCCGCATTTGAGGATAC 58.718 41.667 21.15 0.00 43.47 2.24
406 694 6.817765 GGATACTGAAATTCTGTTTCCACA 57.182 37.500 25.52 5.77 42.02 4.17
407 695 7.396540 GGATACTGAAATTCTGTTTCCACAT 57.603 36.000 25.52 9.42 42.02 3.21
421 709 5.411361 TGTTTCCACATGAGTTTTATCGGAG 59.589 40.000 0.00 0.00 0.00 4.63
438 728 3.056107 TCGGAGAAACATCATTCGGTTCT 60.056 43.478 0.00 0.00 34.46 3.01
465 755 1.722011 TTTCCGATTCTGCTTCCGTC 58.278 50.000 0.00 0.00 0.00 4.79
468 758 1.218047 CGATTCTGCTTCCGTCCCA 59.782 57.895 0.00 0.00 0.00 4.37
471 761 2.159382 GATTCTGCTTCCGTCCCAAAA 58.841 47.619 0.00 0.00 0.00 2.44
472 762 1.604604 TTCTGCTTCCGTCCCAAAAG 58.395 50.000 0.00 0.00 0.00 2.27
474 764 1.142060 TCTGCTTCCGTCCCAAAAGAA 59.858 47.619 0.00 0.00 0.00 2.52
485 775 4.546570 GTCCCAAAAGAATTCTGTTTCCG 58.453 43.478 9.17 0.00 0.00 4.30
563 892 5.171476 AGATATCAAACTTCACGTCTGTGG 58.829 41.667 5.32 0.00 46.42 4.17
663 1016 3.505386 TGGTTACTCCACCGGTAGTTTA 58.495 45.455 15.04 2.16 41.93 2.01
831 1184 1.304052 TGGCTGGCTTTACCGCATT 60.304 52.632 2.00 0.00 43.94 3.56
890 1271 4.092091 CAGTGCTAGCTGTAGTTTTAGTGC 59.908 45.833 17.23 0.00 0.00 4.40
920 1310 1.150081 CATGGTCCATGGAGAGGCC 59.850 63.158 22.45 13.60 38.11 5.19
937 1327 2.103042 CCTCCCGCTCAAGCTTTCG 61.103 63.158 0.00 0.46 39.32 3.46
1075 1472 1.511305 GATGGCGTTCGTCCTGAGA 59.489 57.895 0.00 0.00 0.00 3.27
1194 1591 0.172127 GGTTCGACTTCCCGTACCTC 59.828 60.000 0.00 0.00 43.61 3.85
1200 1597 1.477295 GACTTCCCGTACCTCTTCCTG 59.523 57.143 0.00 0.00 0.00 3.86
1368 1766 4.924019 CCAGGTAATGGCGACGAA 57.076 55.556 0.00 0.00 43.83 3.85
1369 1767 2.380081 CCAGGTAATGGCGACGAAC 58.620 57.895 0.00 0.00 43.83 3.95
1375 1773 2.986290 ATGGCGACGAACCATCCA 59.014 55.556 0.00 0.00 44.85 3.41
1379 1777 1.429148 GGCGACGAACCATCCATCAC 61.429 60.000 0.00 0.00 0.00 3.06
1380 1778 0.739462 GCGACGAACCATCCATCACA 60.739 55.000 0.00 0.00 0.00 3.58
1381 1779 0.999406 CGACGAACCATCCATCACAC 59.001 55.000 0.00 0.00 0.00 3.82
1382 1780 1.671556 CGACGAACCATCCATCACACA 60.672 52.381 0.00 0.00 0.00 3.72
1383 1781 1.732259 GACGAACCATCCATCACACAC 59.268 52.381 0.00 0.00 0.00 3.82
1384 1782 1.071542 ACGAACCATCCATCACACACA 59.928 47.619 0.00 0.00 0.00 3.72
1419 1821 0.450983 ACGCAGCCTCTACTTACGAC 59.549 55.000 0.00 0.00 0.00 4.34
1500 1902 1.601419 CCGGTCAAGGGCTTCTCGTA 61.601 60.000 0.00 0.00 0.00 3.43
1534 1936 3.923864 AGCTTCGACGTGCACCCA 61.924 61.111 12.15 0.00 0.00 4.51
1861 2275 4.688966 GGCATCGGCGAGGGGATC 62.689 72.222 23.65 6.01 42.47 3.36
1921 2335 4.338682 GGCAGAAGCTTCAGATGAATCAAT 59.661 41.667 27.57 0.00 41.70 2.57
1922 2336 5.505985 GGCAGAAGCTTCAGATGAATCAATC 60.506 44.000 27.57 3.58 41.70 2.67
1923 2337 5.066117 GCAGAAGCTTCAGATGAATCAATCA 59.934 40.000 27.57 0.00 39.21 2.57
1924 2338 6.404403 GCAGAAGCTTCAGATGAATCAATCAA 60.404 38.462 27.57 0.00 38.66 2.57
1964 2378 0.107993 ATGTGTCTGATGGCGAGTGG 60.108 55.000 0.00 0.00 0.00 4.00
2136 2634 9.971922 ATGAAATGTAGTTTGAGAAAAAGAAGG 57.028 29.630 0.00 0.00 0.00 3.46
2249 2751 3.689346 GAGTACAACCGAGATACCGAAC 58.311 50.000 0.00 0.00 0.00 3.95
2250 2752 3.084039 AGTACAACCGAGATACCGAACA 58.916 45.455 0.00 0.00 0.00 3.18
2251 2753 3.507233 AGTACAACCGAGATACCGAACAA 59.493 43.478 0.00 0.00 0.00 2.83
2278 2789 3.286751 CACCGCACACACCCAAGG 61.287 66.667 0.00 0.00 0.00 3.61
2281 2792 3.215568 CGCACACACCCAAGGCAA 61.216 61.111 0.00 0.00 0.00 4.52
2282 2793 2.730094 GCACACACCCAAGGCAAG 59.270 61.111 0.00 0.00 0.00 4.01
2283 2794 1.827789 GCACACACCCAAGGCAAGA 60.828 57.895 0.00 0.00 0.00 3.02
2391 2902 0.467290 AAAGCGGTGCCTCCAAGAAA 60.467 50.000 0.00 0.00 35.57 2.52
2397 2908 2.354704 CGGTGCCTCCAAGAAAGATACA 60.355 50.000 0.00 0.00 35.57 2.29
2415 2926 0.538057 CAACCATGGATAGCCGCCAT 60.538 55.000 21.47 0.00 46.76 4.40
2420 2931 4.008933 GGATAGCCGCCATCGCCT 62.009 66.667 0.00 0.00 0.00 5.52
2423 2934 3.521529 ATAGCCGCCATCGCCTGAC 62.522 63.158 0.00 0.00 0.00 3.51
2442 2953 2.814336 GACCAGCGAAGATCAGGTTTTT 59.186 45.455 0.00 0.00 31.57 1.94
2469 2980 1.412710 AGCAAGACGACAAGAGTGGAA 59.587 47.619 0.00 0.00 0.00 3.53
2470 2981 2.158957 AGCAAGACGACAAGAGTGGAAA 60.159 45.455 0.00 0.00 0.00 3.13
2471 2982 2.032808 GCAAGACGACAAGAGTGGAAAC 60.033 50.000 0.00 0.00 0.00 2.78
2472 2983 2.135664 AGACGACAAGAGTGGAAACG 57.864 50.000 0.00 0.00 0.00 3.60
2473 2984 0.507358 GACGACAAGAGTGGAAACGC 59.493 55.000 0.00 0.00 42.66 4.84
2474 2985 0.878961 ACGACAAGAGTGGAAACGCC 60.879 55.000 0.00 0.00 43.65 5.68
2475 2986 0.878523 CGACAAGAGTGGAAACGCCA 60.879 55.000 0.00 0.00 46.96 5.69
2482 2993 4.473643 TGGAAACGCCAAGAGTGG 57.526 55.556 0.00 0.00 45.87 4.00
2670 3181 4.662961 CCGCACCTGAGACGCACA 62.663 66.667 0.00 0.00 0.00 4.57
2673 3184 1.289066 GCACCTGAGACGCACACTA 59.711 57.895 0.00 0.00 0.00 2.74
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
23 24 2.756400 GGGATGGTGTGGCAGTGA 59.244 61.111 0.00 0.00 0.00 3.41
25 26 2.858476 TGGGGATGGTGTGGCAGT 60.858 61.111 0.00 0.00 0.00 4.40
87 88 7.010183 TCGCTTTGTATCAGTTTCTAGCAATAC 59.990 37.037 0.00 0.00 0.00 1.89
119 120 0.108377 TATCCGTGTCTGCGTTGCAT 60.108 50.000 0.00 0.00 38.13 3.96
127 128 6.241207 ACTTCATTTTTGTATCCGTGTCTG 57.759 37.500 0.00 0.00 0.00 3.51
218 219 1.561542 CTTCCACCTCTGCTTATGGGT 59.438 52.381 0.00 0.00 32.73 4.51
229 230 2.305927 TCCCACTTTCATCTTCCACCTC 59.694 50.000 0.00 0.00 0.00 3.85
273 274 1.063942 CCTCCCACTTTTATCACCCCC 60.064 57.143 0.00 0.00 0.00 5.40
274 275 1.063942 CCCTCCCACTTTTATCACCCC 60.064 57.143 0.00 0.00 0.00 4.95
275 276 1.063942 CCCCTCCCACTTTTATCACCC 60.064 57.143 0.00 0.00 0.00 4.61
276 277 1.063942 CCCCCTCCCACTTTTATCACC 60.064 57.143 0.00 0.00 0.00 4.02
277 278 2.437085 CCCCCTCCCACTTTTATCAC 57.563 55.000 0.00 0.00 0.00 3.06
300 301 0.745845 CTCGTGATTCTTGCCCCTGG 60.746 60.000 0.00 0.00 0.00 4.45
301 302 0.250234 TCTCGTGATTCTTGCCCCTG 59.750 55.000 0.00 0.00 0.00 4.45
302 303 0.539051 CTCTCGTGATTCTTGCCCCT 59.461 55.000 0.00 0.00 0.00 4.79
303 304 0.250513 ACTCTCGTGATTCTTGCCCC 59.749 55.000 0.00 0.00 0.00 5.80
304 305 2.961526 TACTCTCGTGATTCTTGCCC 57.038 50.000 0.00 0.00 0.00 5.36
305 306 3.119101 TCCTTACTCTCGTGATTCTTGCC 60.119 47.826 0.00 0.00 0.00 4.52
306 307 4.109050 CTCCTTACTCTCGTGATTCTTGC 58.891 47.826 0.00 0.00 0.00 4.01
307 308 5.568685 TCTCCTTACTCTCGTGATTCTTG 57.431 43.478 0.00 0.00 0.00 3.02
308 309 6.488683 CCTATCTCCTTACTCTCGTGATTCTT 59.511 42.308 0.00 0.00 0.00 2.52
309 310 6.001460 CCTATCTCCTTACTCTCGTGATTCT 58.999 44.000 0.00 0.00 0.00 2.40
388 676 6.323203 ACTCATGTGGAAACAGAATTTCAG 57.677 37.500 0.00 0.00 44.46 3.02
406 694 8.511604 AATGATGTTTCTCCGATAAAACTCAT 57.488 30.769 7.61 9.61 36.25 2.90
407 695 7.201522 CGAATGATGTTTCTCCGATAAAACTCA 60.202 37.037 7.61 8.38 36.54 3.41
421 709 5.179368 TGAGAACAGAACCGAATGATGTTTC 59.821 40.000 0.00 0.00 34.41 2.78
438 728 3.942829 AGCAGAATCGGAAATGAGAACA 58.057 40.909 0.00 0.00 0.00 3.18
465 755 4.584327 ACGGAAACAGAATTCTTTTGGG 57.416 40.909 4.86 2.10 0.00 4.12
468 758 6.215495 TGGAAACGGAAACAGAATTCTTTT 57.785 33.333 4.86 9.84 0.00 2.27
471 761 4.827284 ACATGGAAACGGAAACAGAATTCT 59.173 37.500 0.88 0.88 0.00 2.40
472 762 5.121221 ACATGGAAACGGAAACAGAATTC 57.879 39.130 0.00 0.00 0.00 2.17
474 764 5.529581 AAACATGGAAACGGAAACAGAAT 57.470 34.783 0.00 0.00 0.00 2.40
485 775 7.883229 ATAAACGGAATGAAAACATGGAAAC 57.117 32.000 0.00 0.00 0.00 2.78
541 843 5.168569 TCCACAGACGTGAAGTTTGATATC 58.831 41.667 0.00 0.00 46.80 1.63
663 1016 4.838986 ACCGGGCTATGTAAGTAAGATCAT 59.161 41.667 6.32 0.00 0.00 2.45
691 1044 1.651737 TCCTGATCGGGGTTCAGAAA 58.348 50.000 20.82 0.00 42.63 2.52
692 1045 1.278127 GTTCCTGATCGGGGTTCAGAA 59.722 52.381 20.82 3.35 42.63 3.02
831 1184 0.179020 AGCAGCAGCCTTGTTACACA 60.179 50.000 0.00 0.00 43.56 3.72
890 1271 1.081242 GACCATGGCGTTGCTGTTG 60.081 57.895 13.04 0.00 0.00 3.33
1056 1453 1.519455 CTCAGGACGAACGCCATCC 60.519 63.158 0.00 3.22 0.00 3.51
1067 1464 2.680352 TCTGGCCCGTCTCAGGAC 60.680 66.667 0.00 0.00 38.97 3.85
1194 1591 3.599584 CAGCCCATGCACAGGAAG 58.400 61.111 8.03 0.00 41.13 3.46
1296 1693 3.607370 GAAGGGGTGGTCGTGGAGC 62.607 68.421 0.00 0.00 0.00 4.70
1368 1766 1.881925 CGGTTGTGTGTGATGGATGGT 60.882 52.381 0.00 0.00 0.00 3.55
1369 1767 0.804364 CGGTTGTGTGTGATGGATGG 59.196 55.000 0.00 0.00 0.00 3.51
1374 1772 0.235665 GTGCTCGGTTGTGTGTGATG 59.764 55.000 0.00 0.00 0.00 3.07
1375 1773 1.221466 CGTGCTCGGTTGTGTGTGAT 61.221 55.000 0.00 0.00 0.00 3.06
1379 1777 3.227372 CTGCGTGCTCGGTTGTGTG 62.227 63.158 10.52 0.00 37.56 3.82
1380 1778 2.967076 CTGCGTGCTCGGTTGTGT 60.967 61.111 10.52 0.00 37.56 3.72
1381 1779 3.716006 CCTGCGTGCTCGGTTGTG 61.716 66.667 10.52 0.00 37.56 3.33
1414 1816 0.179148 ACGCATGCATCTTCGTCGTA 60.179 50.000 19.57 0.00 0.00 3.43
1419 1821 2.245795 TCAAAACGCATGCATCTTCG 57.754 45.000 19.57 3.44 0.00 3.79
1856 2270 3.561241 GAAGCCCTCCCCGATCCC 61.561 72.222 0.00 0.00 0.00 3.85
1857 2271 3.930012 CGAAGCCCTCCCCGATCC 61.930 72.222 0.00 0.00 0.00 3.36
1858 2272 3.155167 ACGAAGCCCTCCCCGATC 61.155 66.667 0.00 0.00 0.00 3.69
1859 2273 3.470888 CACGAAGCCCTCCCCGAT 61.471 66.667 0.00 0.00 0.00 4.18
1862 2276 3.787001 CTCCACGAAGCCCTCCCC 61.787 72.222 0.00 0.00 0.00 4.81
1863 2277 2.291043 TTCTCCACGAAGCCCTCCC 61.291 63.158 0.00 0.00 0.00 4.30
1921 2335 8.892723 CATACACATTATGTTTTAGCCTCTTGA 58.107 33.333 0.00 0.00 43.19 3.02
1922 2336 8.677300 ACATACACATTATGTTTTAGCCTCTTG 58.323 33.333 0.00 0.00 43.19 3.02
1923 2337 8.677300 CACATACACATTATGTTTTAGCCTCTT 58.323 33.333 0.00 0.00 43.19 2.85
1924 2338 7.829211 ACACATACACATTATGTTTTAGCCTCT 59.171 33.333 0.00 0.00 43.19 3.69
1964 2378 7.200455 AGGTACACTTTTGCAAAGATAAACAC 58.800 34.615 12.41 6.03 0.00 3.32
2133 2631 5.130705 ACCTCTTCTTGGAAGAAAACCTT 57.869 39.130 10.55 0.00 43.84 3.50
2135 2633 5.359860 TCAAACCTCTTCTTGGAAGAAAACC 59.640 40.000 10.55 0.00 43.84 3.27
2136 2634 6.095580 ACTCAAACCTCTTCTTGGAAGAAAAC 59.904 38.462 10.55 0.00 43.84 2.43
2225 2727 1.268948 GGTATCTCGGTTGTACTCGGC 60.269 57.143 0.00 0.00 0.00 5.54
2249 2751 2.650602 GCGGTGTGTGCGTTGTTG 60.651 61.111 0.00 0.00 0.00 3.33
2250 2752 3.128188 TGCGGTGTGTGCGTTGTT 61.128 55.556 0.00 0.00 34.24 2.83
2251 2753 3.871574 GTGCGGTGTGTGCGTTGT 61.872 61.111 0.00 0.00 34.24 3.32
2278 2789 3.671702 GCACCTTTGTATCTTGCTCTTGC 60.672 47.826 0.00 0.00 40.20 4.01
2279 2790 3.119708 GGCACCTTTGTATCTTGCTCTTG 60.120 47.826 0.00 0.00 33.55 3.02
2280 2791 3.084786 GGCACCTTTGTATCTTGCTCTT 58.915 45.455 0.00 0.00 33.55 2.85
2281 2792 2.040278 TGGCACCTTTGTATCTTGCTCT 59.960 45.455 0.00 0.00 33.55 4.09
2282 2793 2.421424 CTGGCACCTTTGTATCTTGCTC 59.579 50.000 0.00 0.00 33.55 4.26
2283 2794 2.440409 CTGGCACCTTTGTATCTTGCT 58.560 47.619 0.00 0.00 33.55 3.91
2391 2902 2.289694 GCGGCTATCCATGGTTGTATCT 60.290 50.000 12.58 0.00 0.00 1.98
2397 2908 0.250901 GATGGCGGCTATCCATGGTT 60.251 55.000 14.70 6.02 43.90 3.67
2420 2931 0.976641 AACCTGATCTTCGCTGGTCA 59.023 50.000 0.00 0.00 36.69 4.02
2423 2934 3.127030 GGTAAAAACCTGATCTTCGCTGG 59.873 47.826 0.00 0.00 0.00 4.85
2442 2953 1.180456 TTGTCGTCTTGCTCCGGGTA 61.180 55.000 0.00 0.00 0.00 3.69
2469 2980 1.782028 GCGTTTCCACTCTTGGCGTT 61.782 55.000 0.00 0.00 43.56 4.84
2470 2981 2.251642 GCGTTTCCACTCTTGGCGT 61.252 57.895 0.00 0.00 43.56 5.68
2471 2982 2.556287 GCGTTTCCACTCTTGGCG 59.444 61.111 0.00 0.00 43.56 5.69
2472 2983 2.954611 GGCGTTTCCACTCTTGGC 59.045 61.111 0.00 0.00 43.56 4.52
2473 2984 2.966309 GCGGCGTTTCCACTCTTGG 61.966 63.158 9.37 0.00 45.56 3.61
2474 2985 2.556287 GCGGCGTTTCCACTCTTG 59.444 61.111 9.37 0.00 34.01 3.02
2475 2986 3.041940 CGCGGCGTTTCCACTCTT 61.042 61.111 15.36 0.00 34.01 2.85
2476 2987 3.986006 TCGCGGCGTTTCCACTCT 61.986 61.111 22.90 0.00 34.01 3.24
2477 2988 3.774702 GTCGCGGCGTTTCCACTC 61.775 66.667 22.90 0.85 34.01 3.51
2532 3043 0.389817 CTTTGACTGGCCGACGATGA 60.390 55.000 0.00 0.00 0.00 2.92
2535 3046 0.038892 GTACTTTGACTGGCCGACGA 60.039 55.000 0.00 0.00 0.00 4.20
2670 3181 2.256461 GACGTTCGTGGGCGTAGT 59.744 61.111 1.74 0.00 41.70 2.73
2718 3229 2.152016 GTCTTGGGGTTGTCTAGTTGC 58.848 52.381 0.00 0.00 0.00 4.17
2723 3234 2.901839 GTGTAGGTCTTGGGGTTGTCTA 59.098 50.000 0.00 0.00 0.00 2.59


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

AutoCloner maintained by Alex Coulton.