Multiple sequence alignment - TraesCS3A01G457600

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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 TraesCS3A01G457600 chr3A 100.000 2736 0 0 1 2736 695022275 695019540 0.000000e+00 5053.0
1 TraesCS3A01G457600 chr3A 82.102 961 120 27 987 1919 694989797 694988861 0.000000e+00 774.0
2 TraesCS3A01G457600 chr3A 82.332 283 32 8 707 987 694990115 694989849 2.120000e-56 230.0
3 TraesCS3A01G457600 chr3A 80.660 212 41 0 2515 2726 593998668 593998457 6.060000e-37 165.0
4 TraesCS3A01G457600 chr3D 91.362 2709 160 41 1 2683 558709988 558707328 0.000000e+00 3639.0
5 TraesCS3A01G457600 chr3D 83.802 605 82 5 987 1575 558662532 558663136 6.620000e-156 560.0
6 TraesCS3A01G457600 chr3D 82.918 281 29 10 707 984 558662199 558662463 4.550000e-58 235.0
7 TraesCS3A01G457600 chr3D 96.721 61 2 0 2675 2735 558706202 558706142 4.820000e-18 102.0
8 TraesCS3A01G457600 chr3B 92.331 1330 80 8 987 2309 741384615 741383301 0.000000e+00 1871.0
9 TraesCS3A01G457600 chr3B 81.912 973 124 28 987 1926 741352502 741351549 0.000000e+00 774.0
10 TraesCS3A01G457600 chr3B 86.472 547 38 20 450 987 741385179 741384660 3.950000e-158 568.0
11 TraesCS3A01G457600 chr3B 86.572 283 19 9 708 984 741352819 741352550 7.410000e-76 294.0
12 TraesCS3A01G457600 chrUn 84.615 91 8 5 2307 2393 79505243 79505331 4.850000e-13 86.1
13 TraesCS3A01G457600 chr6B 92.857 56 3 1 2307 2362 554036213 554036159 2.260000e-11 80.5
14 TraesCS3A01G457600 chr1A 85.542 83 5 5 2307 2383 85909910 85909829 2.260000e-11 80.5


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 TraesCS3A01G457600 chr3A 695019540 695022275 2735 True 5053.0 5053 100.0000 1 2736 1 chr3A.!!$R2 2735
1 TraesCS3A01G457600 chr3A 694988861 694990115 1254 True 502.0 774 82.2170 707 1919 2 chr3A.!!$R3 1212
2 TraesCS3A01G457600 chr3D 558706142 558709988 3846 True 1870.5 3639 94.0415 1 2735 2 chr3D.!!$R1 2734
3 TraesCS3A01G457600 chr3D 558662199 558663136 937 False 397.5 560 83.3600 707 1575 2 chr3D.!!$F1 868
4 TraesCS3A01G457600 chr3B 741383301 741385179 1878 True 1219.5 1871 89.4015 450 2309 2 chr3B.!!$R2 1859
5 TraesCS3A01G457600 chr3B 741351549 741352819 1270 True 534.0 774 84.2420 708 1926 2 chr3B.!!$R1 1218

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
386 399 0.032952 TGTGCGGACCACTTCACTAC 59.967 55.0 4.04 0.0 44.92 2.73 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2384 2591 0.320247 GACACTCAGAGCCTGGTGTG 60.32 60.0 21.87 19.86 41.86 3.82 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
26 27 2.281539 TCACTACGGGTCTTGACTCA 57.718 50.000 1.38 0.00 0.00 3.41
27 28 2.589720 TCACTACGGGTCTTGACTCAA 58.410 47.619 1.38 0.00 0.00 3.02
29 30 3.057734 CACTACGGGTCTTGACTCAAAC 58.942 50.000 1.38 0.00 0.00 2.93
33 34 1.878102 CGGGTCTTGACTCAAACAGGG 60.878 57.143 1.38 0.00 0.00 4.45
39 40 2.879103 TGACTCAAACAGGGGGAATC 57.121 50.000 0.00 0.00 0.00 2.52
41 42 2.305927 TGACTCAAACAGGGGGAATCTC 59.694 50.000 0.00 0.00 0.00 2.75
45 46 1.571773 AAACAGGGGGAATCTCGGGG 61.572 60.000 0.00 0.00 0.00 5.73
47 48 2.001269 CAGGGGGAATCTCGGGGTT 61.001 63.158 0.00 0.00 0.00 4.11
57 58 2.845363 TCTCGGGGTTTAAGGTGTTC 57.155 50.000 0.00 0.00 0.00 3.18
60 61 3.903090 TCTCGGGGTTTAAGGTGTTCTTA 59.097 43.478 0.00 0.00 36.93 2.10
70 71 3.382048 AGGTGTTCTTACTCGACAACC 57.618 47.619 0.00 0.00 31.44 3.77
71 72 2.696707 AGGTGTTCTTACTCGACAACCA 59.303 45.455 0.00 0.00 31.44 3.67
89 91 2.375509 ACCATAGCCCCCTTAAGTATGC 59.624 50.000 0.97 0.69 0.00 3.14
90 92 2.644798 CCATAGCCCCCTTAAGTATGCT 59.355 50.000 12.61 12.61 0.00 3.79
91 93 3.307762 CCATAGCCCCCTTAAGTATGCTC 60.308 52.174 11.68 0.00 0.00 4.26
92 94 0.759346 AGCCCCCTTAAGTATGCTCG 59.241 55.000 0.97 0.00 0.00 5.03
93 95 0.885150 GCCCCCTTAAGTATGCTCGC 60.885 60.000 0.97 0.00 0.00 5.03
100 102 2.225068 TAAGTATGCTCGCTGAAGCC 57.775 50.000 0.00 0.00 41.77 4.35
132 134 3.114493 CCTTGGGAGGAGGGGTTAA 57.886 57.895 0.00 0.00 46.74 2.01
133 135 1.608425 CCTTGGGAGGAGGGGTTAAT 58.392 55.000 0.00 0.00 46.74 1.40
136 138 2.068831 TGGGAGGAGGGGTTAATGTT 57.931 50.000 0.00 0.00 0.00 2.71
150 152 0.320374 AATGTTCGTGCTCCTTCCGA 59.680 50.000 0.00 0.00 0.00 4.55
154 156 0.391597 TTCGTGCTCCTTCCGAACTT 59.608 50.000 0.00 0.00 35.85 2.66
179 181 3.009723 CCACCGTGTAGATGCAAGATTT 58.990 45.455 0.00 0.00 0.00 2.17
181 183 3.063997 CACCGTGTAGATGCAAGATTTCC 59.936 47.826 0.00 0.00 0.00 3.13
185 187 4.260907 CGTGTAGATGCAAGATTTCCCATG 60.261 45.833 0.00 0.00 0.00 3.66
191 193 2.170166 GCAAGATTTCCCATGGTGTCA 58.830 47.619 11.73 0.00 0.00 3.58
197 199 4.478317 AGATTTCCCATGGTGTCATTCCTA 59.522 41.667 11.73 0.00 0.00 2.94
201 203 2.774234 CCCATGGTGTCATTCCTAGTCT 59.226 50.000 11.73 0.00 0.00 3.24
221 223 0.179134 GATCAACTCCGAGTCCACCG 60.179 60.000 0.35 0.00 0.00 4.94
222 224 0.898789 ATCAACTCCGAGTCCACCGT 60.899 55.000 0.35 0.00 0.00 4.83
224 226 0.170561 CAACTCCGAGTCCACCGTAG 59.829 60.000 0.35 0.00 0.00 3.51
302 315 1.004320 TGGAAACATCACCGACGGG 60.004 57.895 20.00 7.45 35.28 5.28
303 316 2.396157 GGAAACATCACCGACGGGC 61.396 63.158 20.00 0.00 36.48 6.13
304 317 2.736682 GAAACATCACCGACGGGCG 61.737 63.158 20.00 9.13 36.48 6.13
305 318 3.524648 AAACATCACCGACGGGCGT 62.525 57.895 20.00 6.39 38.67 5.68
306 319 4.735132 ACATCACCGACGGGCGTG 62.735 66.667 20.00 15.00 38.67 5.34
307 320 4.429212 CATCACCGACGGGCGTGA 62.429 66.667 20.00 13.43 38.67 4.35
308 321 4.129737 ATCACCGACGGGCGTGAG 62.130 66.667 20.00 0.72 38.67 3.51
386 399 0.032952 TGTGCGGACCACTTCACTAC 59.967 55.000 4.04 0.00 44.92 2.73
388 401 1.542915 GTGCGGACCACTTCACTACTA 59.457 52.381 0.00 0.00 41.35 1.82
389 402 2.165845 GTGCGGACCACTTCACTACTAT 59.834 50.000 0.00 0.00 41.35 2.12
390 403 2.426024 TGCGGACCACTTCACTACTATC 59.574 50.000 0.00 0.00 0.00 2.08
391 404 2.426024 GCGGACCACTTCACTACTATCA 59.574 50.000 0.00 0.00 0.00 2.15
392 405 3.068307 GCGGACCACTTCACTACTATCAT 59.932 47.826 0.00 0.00 0.00 2.45
396 415 7.262772 CGGACCACTTCACTACTATCATAAAA 58.737 38.462 0.00 0.00 0.00 1.52
398 417 8.475639 GGACCACTTCACTACTATCATAAAAGA 58.524 37.037 0.00 0.00 0.00 2.52
415 434 4.965119 AAAGAAAACACAGAGGACACAC 57.035 40.909 0.00 0.00 0.00 3.82
416 435 3.627395 AGAAAACACAGAGGACACACA 57.373 42.857 0.00 0.00 0.00 3.72
432 451 6.098124 AGGACACACAAAAATCATGGAAAAGA 59.902 34.615 0.00 0.00 0.00 2.52
447 466 9.582648 TCATGGAAAAGATATCAACATCATCAT 57.417 29.630 5.32 0.00 0.00 2.45
448 467 9.626045 CATGGAAAAGATATCAACATCATCATG 57.374 33.333 5.32 5.06 35.92 3.07
621 688 5.831997 AGAAAGATTCTCCAAAAACGTTGG 58.168 37.500 0.00 0.00 40.87 3.77
626 693 0.593773 CTCCAAAAACGTTGGCGGTG 60.594 55.000 0.00 0.00 43.45 4.94
645 712 0.532115 GCGGCCATTCAATTCTTGGT 59.468 50.000 2.24 0.00 32.90 3.67
746 818 2.047179 GCCACGTTCTCCACCTCC 60.047 66.667 0.00 0.00 0.00 4.30
747 819 2.261671 CCACGTTCTCCACCTCCG 59.738 66.667 0.00 0.00 0.00 4.63
830 902 2.202987 CATGCACGCTCCCTCCTC 60.203 66.667 0.00 0.00 0.00 3.71
831 903 3.842923 ATGCACGCTCCCTCCTCG 61.843 66.667 0.00 0.00 0.00 4.63
833 905 3.532155 GCACGCTCCCTCCTCGAT 61.532 66.667 0.00 0.00 0.00 3.59
859 931 6.449830 ACCCTATCAGTTTTACCACTTCTT 57.550 37.500 0.00 0.00 0.00 2.52
868 940 6.368791 CAGTTTTACCACTTCTTGATCGATCA 59.631 38.462 23.99 23.99 34.44 2.92
1206 1367 1.271488 ACCTTCTTCGTCGAGGACTCT 60.271 52.381 7.43 0.00 34.61 3.24
1221 1382 4.391155 AGGACTCTATCGGTAAGTAGCAG 58.609 47.826 0.00 0.00 0.00 4.24
1312 1478 3.715495 TGTTGTGAATGCAAATGGACAC 58.285 40.909 0.00 0.00 0.00 3.67
1359 1537 0.807496 GTGATCAAGGTGAGCAAGGC 59.193 55.000 0.00 0.00 44.97 4.35
1941 2147 8.686334 ACTATAAATGCTGGGTGAAAATGTTAG 58.314 33.333 0.00 0.00 0.00 2.34
1945 2151 4.720046 TGCTGGGTGAAAATGTTAGTACA 58.280 39.130 0.00 0.00 38.95 2.90
1948 2154 5.009210 GCTGGGTGAAAATGTTAGTACAACA 59.991 40.000 11.53 11.53 37.91 3.33
1999 2205 4.772624 TGTGCCTAGAAGACTCATTACTGT 59.227 41.667 0.00 0.00 0.00 3.55
2015 2221 7.767261 TCATTACTGTTAATGTGTTAATGGCC 58.233 34.615 0.00 0.00 43.60 5.36
2018 2224 8.500753 TTACTGTTAATGTGTTAATGGCCTAG 57.499 34.615 3.32 0.00 32.76 3.02
2074 2280 1.714899 AACAGTGGCTTGTGTGTCGC 61.715 55.000 0.00 0.00 0.00 5.19
2155 2361 6.418057 AATGATTAAGTTGGGCTTTGACAA 57.582 33.333 0.00 0.00 38.57 3.18
2191 2397 6.594788 AATGATCATGGCTTGTGTTACTTT 57.405 33.333 9.46 0.00 0.00 2.66
2192 2398 6.594788 ATGATCATGGCTTGTGTTACTTTT 57.405 33.333 7.59 0.00 0.00 2.27
2203 2409 9.303537 GGCTTGTGTTACTTTTGTTAATTACAA 57.696 29.630 0.00 0.00 44.81 2.41
2262 2468 2.224621 CCCTACAATGGGGCTCATACAG 60.225 54.545 0.00 0.00 43.45 2.74
2352 2559 4.477249 CCCCAGCTCCATTTCATAGAAAT 58.523 43.478 0.00 0.00 0.00 2.17
2353 2560 4.280174 CCCCAGCTCCATTTCATAGAAATG 59.720 45.833 20.14 20.14 37.38 2.32
2373 2580 6.867662 AATGAAACCAAAACACACACAAAA 57.132 29.167 0.00 0.00 0.00 2.44
2384 2591 3.181487 ACACACACAAAAATCTGGACTGC 60.181 43.478 0.00 0.00 0.00 4.40
2387 2594 3.023119 ACACAAAAATCTGGACTGCACA 58.977 40.909 0.00 0.00 0.00 4.57
2435 2642 2.365410 AAAAAGGGCAGCCACCATC 58.635 52.632 15.19 0.00 0.00 3.51
2450 2657 2.160219 CACCATCACACAATCTTCGTGG 59.840 50.000 0.00 0.00 38.74 4.94
2471 2678 3.070302 GGTTTGCCAAAATTACAGGTCCA 59.930 43.478 0.00 0.00 34.09 4.02
2486 2693 4.770010 ACAGGTCCAAAACAGAGAAACAAA 59.230 37.500 0.00 0.00 0.00 2.83
2492 2699 4.934602 CCAAAACAGAGAAACAAAGCCAAA 59.065 37.500 0.00 0.00 0.00 3.28
2559 2766 6.042897 TCACATGGATCTCATCTGCTATCTTT 59.957 38.462 0.00 0.00 32.92 2.52
2625 2833 3.092334 ACACCTTGAATCGTTTTTGCC 57.908 42.857 0.00 0.00 0.00 4.52
2640 2848 5.402398 GTTTTTGCCCAAGATAGATGACAC 58.598 41.667 0.00 0.00 0.00 3.67
2655 2863 3.342377 TGACACTGTGTTTCCTGACAA 57.658 42.857 15.54 0.00 0.00 3.18
2659 2867 4.269183 ACACTGTGTTTCCTGACAAATCA 58.731 39.130 7.80 0.00 0.00 2.57
2671 2879 3.743521 TGACAAATCAGTCTGGTTCCAG 58.256 45.455 12.20 12.20 39.27 3.86
2680 2888 0.115152 TCTGGTTCCAGCTCCTGAGA 59.885 55.000 13.44 0.00 32.44 3.27
2729 4071 1.399440 CTGAATTGTGCCATCTGGACG 59.601 52.381 0.00 0.00 37.39 4.79
2735 4077 2.280457 GCCATCTGGACGCCTAGC 60.280 66.667 0.00 0.00 37.39 3.42
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
5 6 2.753452 TGAGTCAAGACCCGTAGTGATC 59.247 50.000 0.00 0.00 0.00 2.92
9 10 2.696707 TGTTTGAGTCAAGACCCGTAGT 59.303 45.455 5.56 0.00 0.00 2.73
26 27 1.571773 CCCCGAGATTCCCCCTGTTT 61.572 60.000 0.00 0.00 0.00 2.83
27 28 2.001269 CCCCGAGATTCCCCCTGTT 61.001 63.158 0.00 0.00 0.00 3.16
29 30 1.571773 AAACCCCGAGATTCCCCCTG 61.572 60.000 0.00 0.00 0.00 4.45
33 34 1.562942 ACCTTAAACCCCGAGATTCCC 59.437 52.381 0.00 0.00 0.00 3.97
39 40 2.853235 AGAACACCTTAAACCCCGAG 57.147 50.000 0.00 0.00 0.00 4.63
41 42 3.999001 GAGTAAGAACACCTTAAACCCCG 59.001 47.826 0.00 0.00 38.94 5.73
45 46 6.292542 GGTTGTCGAGTAAGAACACCTTAAAC 60.293 42.308 0.00 0.00 38.94 2.01
47 48 5.163426 TGGTTGTCGAGTAAGAACACCTTAA 60.163 40.000 0.00 0.00 38.94 1.85
57 58 2.483188 GGGGCTATGGTTGTCGAGTAAG 60.483 54.545 0.00 0.00 0.00 2.34
60 61 1.623542 GGGGGCTATGGTTGTCGAGT 61.624 60.000 0.00 0.00 0.00 4.18
70 71 3.617531 CGAGCATACTTAAGGGGGCTATG 60.618 52.174 14.44 10.12 0.00 2.23
71 72 2.567615 CGAGCATACTTAAGGGGGCTAT 59.432 50.000 14.44 0.00 0.00 2.97
100 102 3.391382 AAGGAACGGGAGGCCTCG 61.391 66.667 26.36 19.09 37.71 4.63
120 122 2.629051 CACGAACATTAACCCCTCCTC 58.371 52.381 0.00 0.00 0.00 3.71
132 134 0.320374 TTCGGAAGGAGCACGAACAT 59.680 50.000 0.00 0.00 41.12 2.71
133 135 1.743391 TTCGGAAGGAGCACGAACA 59.257 52.632 0.00 0.00 41.12 3.18
136 138 0.038526 GAAGTTCGGAAGGAGCACGA 60.039 55.000 0.00 0.00 34.47 4.35
150 152 3.864921 GCATCTACACGGTGGAAGAAGTT 60.865 47.826 13.48 0.00 0.00 2.66
154 156 1.262417 TGCATCTACACGGTGGAAGA 58.738 50.000 13.48 14.41 0.00 2.87
179 181 2.771943 GACTAGGAATGACACCATGGGA 59.228 50.000 18.09 0.00 32.36 4.37
181 183 3.452264 TCAGACTAGGAATGACACCATGG 59.548 47.826 11.19 11.19 32.36 3.66
185 187 5.105146 AGTTGATCAGACTAGGAATGACACC 60.105 44.000 8.28 0.00 0.00 4.16
191 193 4.537751 TCGGAGTTGATCAGACTAGGAAT 58.462 43.478 9.57 0.00 0.00 3.01
197 199 2.096248 GGACTCGGAGTTGATCAGACT 58.904 52.381 12.67 9.42 0.00 3.24
201 203 0.895530 GGTGGACTCGGAGTTGATCA 59.104 55.000 12.67 6.27 0.00 2.92
233 235 4.168291 GCCTCTTCTCCGCTGGGG 62.168 72.222 4.03 4.03 37.02 4.96
240 242 2.776913 CCTCGTCGGCCTCTTCTCC 61.777 68.421 0.00 0.00 0.00 3.71
277 290 1.349234 GGTGATGTTTCCATTTGCGC 58.651 50.000 0.00 0.00 0.00 6.09
282 295 1.448985 CCGTCGGTGATGTTTCCATT 58.551 50.000 2.08 0.00 0.00 3.16
346 359 4.747605 ACAACAAAATTTGATGGTTACGCC 59.252 37.500 17.95 0.00 37.71 5.68
349 362 5.332959 CCGCACAACAAAATTTGATGGTTAC 60.333 40.000 17.95 5.66 37.71 2.50
355 368 3.181471 TGGTCCGCACAACAAAATTTGAT 60.181 39.130 13.19 0.00 0.00 2.57
357 370 2.283884 GTGGTCCGCACAACAAAATTTG 59.716 45.455 3.89 3.89 0.00 2.32
359 372 1.754226 AGTGGTCCGCACAACAAAATT 59.246 42.857 4.97 0.00 0.00 1.82
362 375 0.736053 GAAGTGGTCCGCACAACAAA 59.264 50.000 4.97 0.00 0.00 2.83
386 399 9.219603 TGTCCTCTGTGTTTTCTTTTATGATAG 57.780 33.333 0.00 0.00 0.00 2.08
388 401 7.502226 TGTGTCCTCTGTGTTTTCTTTTATGAT 59.498 33.333 0.00 0.00 0.00 2.45
389 402 6.826231 TGTGTCCTCTGTGTTTTCTTTTATGA 59.174 34.615 0.00 0.00 0.00 2.15
390 403 6.912591 GTGTGTCCTCTGTGTTTTCTTTTATG 59.087 38.462 0.00 0.00 0.00 1.90
391 404 6.601613 TGTGTGTCCTCTGTGTTTTCTTTTAT 59.398 34.615 0.00 0.00 0.00 1.40
392 405 5.941058 TGTGTGTCCTCTGTGTTTTCTTTTA 59.059 36.000 0.00 0.00 0.00 1.52
396 415 3.627395 TGTGTGTCCTCTGTGTTTTCT 57.373 42.857 0.00 0.00 0.00 2.52
398 417 5.461032 TTTTTGTGTGTCCTCTGTGTTTT 57.539 34.783 0.00 0.00 0.00 2.43
406 425 5.452078 TTCCATGATTTTTGTGTGTCCTC 57.548 39.130 0.00 0.00 0.00 3.71
447 466 7.661437 GTGGTGGCTTGATACTTGATATTATCA 59.339 37.037 2.14 2.14 37.55 2.15
448 467 7.119846 GGTGGTGGCTTGATACTTGATATTATC 59.880 40.741 0.00 0.00 0.00 1.75
457 476 0.676782 GCGGTGGTGGCTTGATACTT 60.677 55.000 0.00 0.00 0.00 2.24
486 505 5.036090 TGAATATTTGATGTTGCATCGTGC 58.964 37.500 4.89 3.44 45.29 5.34
552 572 9.471084 TCGATACTGATATTTCTTTCGCAAATA 57.529 29.630 0.00 0.00 31.76 1.40
553 573 8.276325 GTCGATACTGATATTTCTTTCGCAAAT 58.724 33.333 0.00 0.00 0.00 2.32
554 574 7.254319 GGTCGATACTGATATTTCTTTCGCAAA 60.254 37.037 0.00 0.00 0.00 3.68
557 577 5.921408 AGGTCGATACTGATATTTCTTTCGC 59.079 40.000 0.00 0.00 0.00 4.70
577 597 0.603975 GCAGTCCAGGTGTTCAGGTC 60.604 60.000 0.00 0.00 0.00 3.85
621 688 3.355203 AATTGAATGGCCGCACCGC 62.355 57.895 0.00 0.00 43.94 5.68
645 712 2.159476 GCATTACGGACAGTCGTACAGA 60.159 50.000 5.17 0.00 43.99 3.41
676 744 2.812983 GCATGCATCCATAGGCTTCTGA 60.813 50.000 14.21 0.00 32.35 3.27
768 840 0.759959 TTGGCGGTTAGGTCAACTCA 59.240 50.000 0.00 0.00 37.30 3.41
830 902 4.202080 TGGTAAAACTGATAGGGTCGATCG 60.202 45.833 9.36 9.36 0.00 3.69
831 903 5.048507 GTGGTAAAACTGATAGGGTCGATC 58.951 45.833 0.00 0.00 0.00 3.69
832 904 4.715297 AGTGGTAAAACTGATAGGGTCGAT 59.285 41.667 0.00 0.00 0.00 3.59
833 905 4.091549 AGTGGTAAAACTGATAGGGTCGA 58.908 43.478 0.00 0.00 0.00 4.20
859 931 2.561569 TCGAGTAGTGCTGATCGATCA 58.438 47.619 25.80 25.80 39.11 2.92
868 940 3.008330 ACTACGTTGATCGAGTAGTGCT 58.992 45.455 19.93 3.64 46.27 4.40
1206 1367 6.548622 ACCTAATCAACTGCTACTTACCGATA 59.451 38.462 0.00 0.00 0.00 2.92
1221 1382 0.370273 CTCGCGTGCACCTAATCAAC 59.630 55.000 12.15 0.00 0.00 3.18
1312 1478 2.046283 TCTTGTACACGAACTCTGCG 57.954 50.000 0.00 0.00 0.00 5.18
1359 1537 2.034179 TCGTTGCAGTGATAGTATCCGG 59.966 50.000 7.69 0.00 0.00 5.14
1891 2096 4.495422 TCTTAATCGAAGGAGACACAAGC 58.505 43.478 0.00 0.00 35.67 4.01
1941 2147 8.827677 GTGGGTCAAAGAGATAATATGTTGTAC 58.172 37.037 0.00 0.00 0.00 2.90
1945 2151 7.554118 CACTGTGGGTCAAAGAGATAATATGTT 59.446 37.037 0.00 0.00 0.00 2.71
1948 2154 6.058183 GCACTGTGGGTCAAAGAGATAATAT 58.942 40.000 10.21 0.00 0.00 1.28
1999 2205 6.119536 CACTCCTAGGCCATTAACACATTAA 58.880 40.000 5.01 0.00 34.78 1.40
2015 2221 5.055642 TGATCGTGTGTAAACACTCCTAG 57.944 43.478 14.23 0.00 46.55 3.02
2018 2224 4.242475 TCATGATCGTGTGTAAACACTCC 58.758 43.478 14.23 3.92 46.55 3.85
2103 2309 4.022329 ACCGAGAAAATTTCATTCCACACC 60.022 41.667 8.55 0.00 0.00 4.16
2155 2361 0.881118 GATCATTTGCACCCACGTGT 59.119 50.000 15.65 0.00 42.39 4.49
2352 2559 6.708054 AGATTTTTGTGTGTGTTTTGGTTTCA 59.292 30.769 0.00 0.00 0.00 2.69
2353 2560 7.014702 CAGATTTTTGTGTGTGTTTTGGTTTC 58.985 34.615 0.00 0.00 0.00 2.78
2384 2591 0.320247 GACACTCAGAGCCTGGTGTG 60.320 60.000 21.87 19.86 41.86 3.82
2387 2594 0.760567 TGTGACACTCAGAGCCTGGT 60.761 55.000 7.20 0.00 31.51 4.00
2393 2600 3.459232 TGTCCTTTGTGACACTCAGAG 57.541 47.619 7.20 0.00 40.22 3.35
2435 2642 2.384382 GCAAACCACGAAGATTGTGTG 58.616 47.619 0.00 0.00 35.56 3.82
2450 2657 4.329462 TGGACCTGTAATTTTGGCAAAC 57.671 40.909 13.10 2.16 0.00 2.93
2471 2678 6.348458 GCTTTTTGGCTTTGTTTCTCTGTTTT 60.348 34.615 0.00 0.00 0.00 2.43
2625 2833 5.352569 GGAAACACAGTGTCATCTATCTTGG 59.647 44.000 6.67 0.00 0.00 3.61
2640 2848 4.818546 AGACTGATTTGTCAGGAAACACAG 59.181 41.667 9.92 0.00 41.76 3.66
2655 2863 1.280421 GGAGCTGGAACCAGACTGATT 59.720 52.381 22.96 0.00 46.30 2.57
2659 2867 0.178921 TCAGGAGCTGGAACCAGACT 60.179 55.000 22.96 18.05 46.30 3.24
2661 2869 0.115152 TCTCAGGAGCTGGAACCAGA 59.885 55.000 22.96 2.02 46.30 3.86
2667 2875 0.337773 AGGTCATCTCAGGAGCTGGA 59.662 55.000 0.00 0.00 41.23 3.86
2671 2879 2.038659 AGCTAAGGTCATCTCAGGAGC 58.961 52.381 0.00 0.00 0.00 4.70
2680 2888 4.532521 ACTTACTGGTGAAGCTAAGGTCAT 59.467 41.667 0.00 0.00 30.22 3.06


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

AutoCloner maintained by Alex Coulton.