Multiple sequence alignment - TraesCS3D01G350500

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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 TraesCS3D01G350500 chr3D 100.000 5004 0 0 1 5004 461669681 461664678 0.000000e+00 9241
1 TraesCS3D01G350500 chr3B 92.589 2928 115 30 7 2853 612416198 612413292 0.000000e+00 4111
2 TraesCS3D01G350500 chr3B 96.722 1495 29 3 2822 4309 612413285 612411804 0.000000e+00 2471
3 TraesCS3D01G350500 chr3B 98.621 145 2 0 4860 5004 612411745 612411601 1.790000e-64 257
4 TraesCS3D01G350500 chr3A 92.437 2076 89 16 822 2853 603933947 603931896 0.000000e+00 2902
5 TraesCS3D01G350500 chr3A 97.946 1412 23 1 2822 4227 603931889 603930478 0.000000e+00 2442
6 TraesCS3D01G350500 chr3A 84.531 821 57 19 1 796 603934718 603933943 0.000000e+00 749
7 TraesCS3D01G350500 chr3A 95.161 186 8 1 4819 5004 603928829 603928645 4.900000e-75 292
8 TraesCS3D01G350500 chr2D 97.925 482 6 3 4298 4778 287132535 287133013 0.000000e+00 832
9 TraesCS3D01G350500 chr2A 94.783 230 11 1 4557 4786 723358316 723358544 1.710000e-94 357
10 TraesCS3D01G350500 chr2A 95.775 142 5 1 4417 4558 723357937 723358077 1.400000e-55 228
11 TraesCS3D01G350500 chr2A 94.382 89 5 0 4310 4398 723357265 723357353 2.430000e-28 137
12 TraesCS3D01G350500 chr1D 76.580 269 52 10 4518 4782 208099492 208099753 2.430000e-28 137


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 TraesCS3D01G350500 chr3D 461664678 461669681 5003 True 9241.000000 9241 100.000000 1 5004 1 chr3D.!!$R1 5003
1 TraesCS3D01G350500 chr3B 612411601 612416198 4597 True 2279.666667 4111 95.977333 7 5004 3 chr3B.!!$R1 4997
2 TraesCS3D01G350500 chr3A 603928645 603934718 6073 True 1596.250000 2902 92.518750 1 5004 4 chr3A.!!$R1 5003
3 TraesCS3D01G350500 chr2A 723357265 723358544 1279 False 240.666667 357 94.980000 4310 4786 3 chr2A.!!$F1 476

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
197 199 0.178938 ACATGAATGTGTTGGGGGCA 60.179 50.0 0.00 0.00 40.03 5.36 F
800 826 0.179145 GGCTTGTTGCATGCTGCTAG 60.179 55.0 20.33 16.95 45.31 3.42 F
1178 1234 0.114560 TCTCTTTCCCGTCTCCCTGT 59.885 55.0 0.00 0.00 0.00 4.00 F
2323 2413 0.250513 AGTTGCCCGAGAGACATTCC 59.749 55.0 0.00 0.00 0.00 3.01 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1166 1222 1.003718 GTCCAAACAGGGAGACGGG 60.004 63.158 0.00 0.0 37.71 5.28 R
2596 2686 0.250124 TGTGCTGGGAAACTGGTACG 60.250 55.000 0.00 0.0 0.00 3.67 R
3052 3180 3.321968 ACCTGAAATTTCTGAAACCCTGC 59.678 43.478 22.50 0.0 0.00 4.85 R
4304 4439 1.134729 GTATACCGAACGGGGCTTCAA 60.135 52.381 17.44 0.0 41.60 2.69 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
154 156 5.242393 AGGAGTTTGAGATTGTGGATGTTTG 59.758 40.000 0.00 0.00 0.00 2.93
196 198 2.669878 ACATGAATGTGTTGGGGGC 58.330 52.632 0.00 0.00 40.03 5.80
197 199 0.178938 ACATGAATGTGTTGGGGGCA 60.179 50.000 0.00 0.00 40.03 5.36
205 207 4.925390 ATGTGTTGGGGGCATTTTTATT 57.075 36.364 0.00 0.00 0.00 1.40
240 242 3.920412 GGCAAAAGTGTTGCTTAGCATAC 59.080 43.478 17.48 10.68 44.36 2.39
282 284 0.250424 TGATCATGGCCCTACATGCG 60.250 55.000 0.00 0.00 46.02 4.73
318 320 1.594293 CGAGCACAGAAACCACGGT 60.594 57.895 0.00 0.00 0.00 4.83
321 323 1.525077 GCACAGAAACCACGGTCCA 60.525 57.895 0.00 0.00 0.00 4.02
324 326 0.472471 ACAGAAACCACGGTCCACAT 59.528 50.000 0.00 0.00 0.00 3.21
347 349 1.270625 GGGTCCACATTGACGAACTCA 60.271 52.381 0.00 0.00 36.07 3.41
375 377 1.105457 ATCATGCACAAACCATCGGG 58.895 50.000 0.00 0.00 41.29 5.14
484 486 8.441312 TTCCTGAACTTTTTACGTTACAATCT 57.559 30.769 0.00 0.00 0.00 2.40
508 510 2.379634 CGCGGCTCGAAACATGTGA 61.380 57.895 0.00 0.00 41.67 3.58
542 544 5.919272 ATTATACAGATCGACGAGACGAA 57.081 39.130 3.01 0.00 45.16 3.85
561 563 7.772166 AGACGAATGTTATCAGATACAACAGA 58.228 34.615 5.25 0.00 35.77 3.41
618 643 3.666797 CCGGCAAAAGAATTACGTTGTTC 59.333 43.478 0.00 0.00 0.00 3.18
625 650 7.590279 CAAAAGAATTACGTTGTTCCCATAGT 58.410 34.615 0.00 0.00 0.00 2.12
662 688 6.773976 AGACACAAGACAATTCTCCAAAAA 57.226 33.333 0.00 0.00 0.00 1.94
712 738 2.502295 CCATCTTGCCAAGATCCTAGC 58.498 52.381 16.92 0.00 46.20 3.42
752 778 3.520290 AATTGCATGCCATCTTGTGAG 57.480 42.857 16.68 0.00 0.00 3.51
753 779 1.913778 TTGCATGCCATCTTGTGAGT 58.086 45.000 16.68 0.00 0.00 3.41
754 780 1.913778 TGCATGCCATCTTGTGAGTT 58.086 45.000 16.68 0.00 0.00 3.01
755 781 1.542472 TGCATGCCATCTTGTGAGTTG 59.458 47.619 16.68 0.00 0.00 3.16
756 782 1.542915 GCATGCCATCTTGTGAGTTGT 59.457 47.619 6.36 0.00 0.00 3.32
757 783 2.670229 GCATGCCATCTTGTGAGTTGTG 60.670 50.000 6.36 0.00 0.00 3.33
758 784 2.636647 TGCCATCTTGTGAGTTGTGA 57.363 45.000 0.00 0.00 0.00 3.58
759 785 2.221169 TGCCATCTTGTGAGTTGTGAC 58.779 47.619 0.00 0.00 0.00 3.67
760 786 1.537202 GCCATCTTGTGAGTTGTGACC 59.463 52.381 0.00 0.00 0.00 4.02
761 787 2.849942 CCATCTTGTGAGTTGTGACCA 58.150 47.619 0.00 0.00 0.00 4.02
800 826 0.179145 GGCTTGTTGCATGCTGCTAG 60.179 55.000 20.33 16.95 45.31 3.42
1161 1207 1.039068 CGTCCATGCTCCATCTCTCT 58.961 55.000 0.00 0.00 0.00 3.10
1162 1208 1.000385 CGTCCATGCTCCATCTCTCTC 60.000 57.143 0.00 0.00 0.00 3.20
1166 1222 3.387374 TCCATGCTCCATCTCTCTCTTTC 59.613 47.826 0.00 0.00 0.00 2.62
1178 1234 0.114560 TCTCTTTCCCGTCTCCCTGT 59.885 55.000 0.00 0.00 0.00 4.00
1312 1368 2.436646 CGTGGGCAGATTTCGGCT 60.437 61.111 2.83 0.00 37.23 5.52
1446 1502 1.646540 CTTTGTTCGGTGCGCTTCA 59.353 52.632 9.73 0.00 0.00 3.02
1556 1613 1.429148 CCGAGGGCACGAACAATAGC 61.429 60.000 5.00 0.00 35.09 2.97
1562 1619 2.006888 GGCACGAACAATAGCAGCTTA 58.993 47.619 0.00 0.00 0.00 3.09
1701 1761 0.755686 GTGCAATGGTGTTTTGGGGA 59.244 50.000 0.00 0.00 0.00 4.81
1753 1813 0.926155 CATTGCGTCGACCTCATCTG 59.074 55.000 10.58 5.74 0.00 2.90
1882 1942 4.207019 GTCAAAAGTTGCTGTACATGTTGC 59.793 41.667 2.30 7.44 0.00 4.17
1926 1986 4.814234 TGTTCACAGATAGTTCCACACAAC 59.186 41.667 0.00 0.00 0.00 3.32
2026 2115 3.265221 ACAGATCATCACATGGGTTGAGT 59.735 43.478 13.86 4.56 0.00 3.41
2045 2134 5.895928 TGAGTGATGCAGTACTAGCTTAAG 58.104 41.667 15.28 0.00 0.00 1.85
2127 2216 4.082125 GAGGAAGTGTTGGAATCCACAAT 58.918 43.478 0.00 0.00 34.30 2.71
2172 2262 8.604640 ATGATATCTACAAGATTGCAACTCTG 57.395 34.615 0.00 1.23 36.20 3.35
2205 2295 5.411781 TCGTAGATCCTTTCTCAAAGAAGC 58.588 41.667 0.00 0.00 41.02 3.86
2213 2303 6.357367 TCCTTTCTCAAAGAAGCTAACTGTT 58.643 36.000 0.00 0.00 41.02 3.16
2276 2366 2.096496 GCTCTGTCAACATGGTGTATGC 59.904 50.000 11.27 5.99 40.59 3.14
2318 2408 0.389166 CAGACAGTTGCCCGAGAGAC 60.389 60.000 0.00 0.00 0.00 3.36
2319 2409 0.827925 AGACAGTTGCCCGAGAGACA 60.828 55.000 0.00 0.00 0.00 3.41
2323 2413 0.250513 AGTTGCCCGAGAGACATTCC 59.749 55.000 0.00 0.00 0.00 3.01
2405 2495 2.093973 CGCAAGTCCTTAGACAGTGGAT 60.094 50.000 0.00 0.00 46.15 3.41
2441 2531 6.655003 CCTCAAGCTCTAGGAAATGTTTTGTA 59.345 38.462 8.34 0.00 34.58 2.41
2447 2537 8.515414 AGCTCTAGGAAATGTTTTGTATGAAAC 58.485 33.333 0.00 0.00 39.41 2.78
2573 2663 5.409520 TCTGCAGTCACTCATACAATTTGTC 59.590 40.000 14.67 0.00 0.00 3.18
2720 2810 9.109393 TGCTATAAGATTTTCATTACCTGTCAC 57.891 33.333 0.00 0.00 0.00 3.67
2743 2833 9.745880 TCACTTCTAAGTTTTAACTCACTGTAG 57.254 33.333 0.00 0.00 38.57 2.74
2780 2870 5.626142 TCTTCCTTGCCAAAGTGTATGTAA 58.374 37.500 0.00 0.00 0.00 2.41
2950 3078 5.278463 GCAATCTGTTGTTTACACAGGACAT 60.278 40.000 0.40 0.00 37.65 3.06
3052 3180 2.689646 GGGGACTTCTCAAGAAAGACG 58.310 52.381 0.00 0.00 33.07 4.18
3238 3366 2.892640 TCCTTGGAGGATCACGCG 59.107 61.111 3.53 3.53 40.06 6.01
3661 3789 1.557099 TGACTCCATACCAAGAGCGT 58.443 50.000 0.00 0.00 33.18 5.07
3969 4097 2.193536 GGGACGTGCTTTGCCAGTT 61.194 57.895 7.11 0.00 0.00 3.16
4085 4219 8.668510 AACAAATGATAGCTACAGAACATAGG 57.331 34.615 0.00 0.00 0.00 2.57
4229 4364 6.073058 GCTCGTTATTGGCATGATATTCTCAA 60.073 38.462 0.00 0.00 37.44 3.02
4257 4392 6.016555 AGGGTATTGTTGCAATTCTACCTTT 58.983 36.000 22.78 14.40 31.39 3.11
4299 4434 7.872113 ACCTGAGATTTTGATTCCTTATGTC 57.128 36.000 0.00 0.00 0.00 3.06
4304 4439 7.824289 TGAGATTTTGATTCCTTATGTCGTCTT 59.176 33.333 0.00 0.00 0.00 3.01
4372 4507 5.582689 AAAAGTACAGGAATGCAATAGGC 57.417 39.130 0.00 0.00 45.13 3.93
4397 5570 0.693049 AGTGCATTCCTCCGGTTCTT 59.307 50.000 0.00 0.00 0.00 2.52
4402 5575 2.755103 GCATTCCTCCGGTTCTTGAAAT 59.245 45.455 0.00 0.00 0.00 2.17
4485 5658 3.596214 AGGAACCGTACAACTAATGCAG 58.404 45.455 0.00 0.00 0.00 4.41
4509 5682 8.177663 CAGCAGTATATTATTTTATTCGGCCAG 58.822 37.037 2.24 0.00 0.00 4.85
4510 5683 8.100791 AGCAGTATATTATTTTATTCGGCCAGA 58.899 33.333 2.24 0.00 0.00 3.86
4543 5716 2.233271 CTGGTTTGGCTTCTGTCACAT 58.767 47.619 0.00 0.00 0.00 3.21
4610 6023 3.376546 GCCTCCGCCCAAAAATGT 58.623 55.556 0.00 0.00 0.00 2.71
4640 6053 9.177608 CAGACCAGATTTATATTTTCCTGTGAA 57.822 33.333 0.00 0.00 0.00 3.18
4690 6103 0.460284 AACGCTGTAGCCGAATCCTG 60.460 55.000 0.00 0.00 37.91 3.86
4694 6107 1.136305 GCTGTAGCCGAATCCTGTGTA 59.864 52.381 0.00 0.00 34.31 2.90
4729 6142 8.840321 CATCGAAGGAAATGTAAACTATGGAAT 58.160 33.333 0.00 0.00 0.00 3.01
4753 6166 5.305644 TGGATATTCCTCTGGAAAGACTAGC 59.694 44.000 2.98 0.00 45.41 3.42
4778 6191 2.664851 TGAAGCGAACGCACCCTG 60.665 61.111 20.66 0.00 44.88 4.45
4780 6193 1.959226 GAAGCGAACGCACCCTGAA 60.959 57.895 20.66 0.00 44.88 3.02
4781 6194 2.171489 GAAGCGAACGCACCCTGAAC 62.171 60.000 20.66 0.42 44.88 3.18
4782 6195 2.933878 AAGCGAACGCACCCTGAACA 62.934 55.000 20.66 0.00 44.88 3.18
4795 6208 3.694566 ACCCTGAACATTTCGATTAAGCC 59.305 43.478 0.00 0.00 0.00 4.35
4844 6803 6.764308 GAGGAAAACTCAAATGATCATGGA 57.236 37.500 9.46 9.36 45.85 3.41
4858 6817 7.787623 ATGATCATGGAAGAAGGTTCTTTTT 57.212 32.000 7.59 0.00 46.84 1.94
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
78 79 4.446385 TCGAAATAGTTGTTCTGGTGTTCG 59.554 41.667 0.00 0.00 37.32 3.95
154 156 3.119096 GACTCGGGCTTGTTCGGC 61.119 66.667 0.00 0.00 0.00 5.54
211 213 4.399004 AGCAACACTTTTGCCACATTTA 57.601 36.364 5.38 0.00 45.98 1.40
240 242 8.492673 TCACATTGTATTGGCTTTCTTACTAG 57.507 34.615 0.00 0.00 0.00 2.57
321 323 1.339055 CGTCAATGTGGACCCAGATGT 60.339 52.381 0.00 0.00 34.24 3.06
324 326 1.052617 TTCGTCAATGTGGACCCAGA 58.947 50.000 0.00 0.00 34.24 3.86
347 349 0.036105 TTGTGCATGATGCCTCTCGT 60.036 50.000 15.70 0.00 44.23 4.18
375 377 1.257415 CTTTGCGCGATCTGATCTGAC 59.743 52.381 12.10 5.17 0.00 3.51
444 446 2.050077 GAAACTGCGCTGTTGCCC 60.050 61.111 29.71 18.80 35.36 5.36
542 544 7.142021 CGCTACTCTGTTGTATCTGATAACAT 58.858 38.462 6.48 0.00 38.35 2.71
561 563 2.880879 CGTGTGCATCGCGCTACT 60.881 61.111 5.56 0.00 42.93 2.57
618 643 6.208797 TGTCTATCCGTGATTCTAACTATGGG 59.791 42.308 0.00 0.00 0.00 4.00
625 650 6.152154 TGTCTTGTGTCTATCCGTGATTCTAA 59.848 38.462 0.00 0.00 0.00 2.10
662 688 0.398318 GTCTGGTCAAGCTCTTGGGT 59.602 55.000 9.48 0.00 40.78 4.51
767 793 4.332819 GCAACAAGCCAAGTACTAGTATGG 59.667 45.833 15.54 15.54 37.23 2.74
775 801 1.270550 AGCATGCAACAAGCCAAGTAC 59.729 47.619 21.98 0.00 44.83 2.73
1161 1207 1.071699 CAAACAGGGAGACGGGAAAGA 59.928 52.381 0.00 0.00 0.00 2.52
1162 1208 1.523758 CAAACAGGGAGACGGGAAAG 58.476 55.000 0.00 0.00 0.00 2.62
1166 1222 1.003718 GTCCAAACAGGGAGACGGG 60.004 63.158 0.00 0.00 37.71 5.28
1178 1234 1.391157 GGCAGCAACAGTGGTCCAAA 61.391 55.000 0.00 0.00 31.53 3.28
1312 1368 1.538629 TCCCTGATCCAGCACCACA 60.539 57.895 0.00 0.00 0.00 4.17
1446 1502 4.741239 AGCCGACCACCCCTCCAT 62.741 66.667 0.00 0.00 0.00 3.41
1556 1613 3.545481 CGCCGCACTCGTAAGCTG 61.545 66.667 0.00 0.00 37.18 4.24
1701 1761 5.187772 TGACACCAGCTACAGAGTTATGAAT 59.812 40.000 0.00 0.00 0.00 2.57
1788 1848 8.589701 AAAGAAAAAGAAGGGTTAGTTCTTGA 57.410 30.769 0.00 0.00 42.25 3.02
1882 1942 2.092914 AGATAGGCCGGTTTTTCCTCTG 60.093 50.000 1.90 0.00 0.00 3.35
2026 2115 9.667107 AAAAATACTTAAGCTAGTACTGCATCA 57.333 29.630 5.39 0.00 33.69 3.07
2045 2134 9.903682 GTTTTAAGAGTTACCCTGGAAAAATAC 57.096 33.333 0.00 0.00 0.00 1.89
2093 2182 8.990163 TCCAACACTTCCTCTTTTTAAGTATT 57.010 30.769 0.00 0.00 32.35 1.89
2094 2183 8.990163 TTCCAACACTTCCTCTTTTTAAGTAT 57.010 30.769 0.00 0.00 32.35 2.12
2097 2186 7.014230 TGGATTCCAACACTTCCTCTTTTTAAG 59.986 37.037 1.94 0.00 0.00 1.85
2098 2187 6.836527 TGGATTCCAACACTTCCTCTTTTTAA 59.163 34.615 1.94 0.00 0.00 1.52
2099 2188 6.264518 GTGGATTCCAACACTTCCTCTTTTTA 59.735 38.462 7.05 0.00 34.18 1.52
2100 2189 5.069119 GTGGATTCCAACACTTCCTCTTTTT 59.931 40.000 7.05 0.00 34.18 1.94
2101 2190 4.584743 GTGGATTCCAACACTTCCTCTTTT 59.415 41.667 7.05 0.00 34.18 2.27
2102 2191 4.145052 GTGGATTCCAACACTTCCTCTTT 58.855 43.478 7.05 0.00 34.18 2.52
2116 2205 9.974980 TTTTTAAGTAAAGTGATTGTGGATTCC 57.025 29.630 0.00 0.00 0.00 3.01
2172 2262 7.013083 TGAGAAAGGATCTACGAGTTACATACC 59.987 40.741 0.00 0.00 38.96 2.73
2205 2295 9.277565 CGACCATTTGATTGAATAAACAGTTAG 57.722 33.333 0.00 0.00 0.00 2.34
2213 2303 9.613428 AGATTAGTCGACCATTTGATTGAATAA 57.387 29.630 13.01 0.00 0.00 1.40
2276 2366 5.815222 TGTAATGACCCATTCACTTCATACG 59.185 40.000 0.00 0.00 36.92 3.06
2405 2495 4.118168 AGAGCTTGAGGGATTCCAAAAA 57.882 40.909 4.80 0.00 34.83 1.94
2447 2537 7.011482 AGCACTCAGTTTAAAGAGTTGTGTAAG 59.989 37.037 7.24 0.00 42.87 2.34
2506 2596 6.076040 CGAGTAAATCATCGACACGAGTTAAG 60.076 42.308 0.00 0.00 41.40 1.85
2515 2605 8.400186 TCAAAGTATACGAGTAAATCATCGACA 58.600 33.333 1.13 0.00 41.40 4.35
2516 2606 8.778141 TCAAAGTATACGAGTAAATCATCGAC 57.222 34.615 1.13 0.00 41.40 4.20
2596 2686 0.250124 TGTGCTGGGAAACTGGTACG 60.250 55.000 0.00 0.00 0.00 3.67
2720 2810 8.365647 TCCCTACAGTGAGTTAAAACTTAGAAG 58.634 37.037 0.00 0.00 39.88 2.85
2743 2833 5.309638 GCAAGGAAGAAGATACCTAATCCC 58.690 45.833 0.00 0.00 34.90 3.85
2905 3033 4.872124 TGCAGTGTCACAATCTGATATCAC 59.128 41.667 5.62 0.00 0.00 3.06
2950 3078 4.532834 AGTTTTGGCAGTCTTTGGAGTAA 58.467 39.130 0.00 0.00 0.00 2.24
3052 3180 3.321968 ACCTGAAATTTCTGAAACCCTGC 59.678 43.478 22.50 0.00 0.00 4.85
3969 4097 1.297689 CTGCCTAGCCTGCTGACAA 59.702 57.895 0.97 0.00 0.00 3.18
4085 4219 6.369065 GGGTAACAAATATCCAGATCACGATC 59.631 42.308 0.00 0.00 34.60 3.69
4229 4364 3.834231 AGAATTGCAACAATACCCTTGCT 59.166 39.130 0.00 0.00 42.77 3.91
4257 4392 5.559770 TCAGGTTGCTAATTTCATGAGACA 58.440 37.500 0.00 0.00 0.00 3.41
4299 4434 1.866925 GAACGGGGCTTCAAAGACG 59.133 57.895 0.00 0.00 33.77 4.18
4304 4439 1.134729 GTATACCGAACGGGGCTTCAA 60.135 52.381 17.44 0.00 41.60 2.69
4367 4502 2.774234 AGGAATGCACTGTACAGCCTAT 59.226 45.455 22.90 11.12 0.00 2.57
4372 4507 1.645034 CGGAGGAATGCACTGTACAG 58.355 55.000 21.44 21.44 0.00 2.74
4416 5589 5.183140 CCTGTGAACCGAACAATTCCTTATT 59.817 40.000 0.00 0.00 0.00 1.40
4417 5590 4.700213 CCTGTGAACCGAACAATTCCTTAT 59.300 41.667 0.00 0.00 0.00 1.73
4418 5591 4.069304 CCTGTGAACCGAACAATTCCTTA 58.931 43.478 0.00 0.00 0.00 2.69
4419 5592 2.884639 CCTGTGAACCGAACAATTCCTT 59.115 45.455 0.00 0.00 0.00 3.36
4420 5593 2.105821 TCCTGTGAACCGAACAATTCCT 59.894 45.455 0.00 0.00 0.00 3.36
4421 5594 2.500229 TCCTGTGAACCGAACAATTCC 58.500 47.619 0.00 0.00 0.00 3.01
4422 5595 3.564225 ACTTCCTGTGAACCGAACAATTC 59.436 43.478 0.00 0.00 0.00 2.17
4423 5596 3.551846 ACTTCCTGTGAACCGAACAATT 58.448 40.909 0.00 0.00 0.00 2.32
4424 5597 3.139077 GACTTCCTGTGAACCGAACAAT 58.861 45.455 0.00 0.00 0.00 2.71
4460 5633 6.174760 TGCATTAGTTGTACGGTTCCTTTAT 58.825 36.000 0.00 0.00 0.00 1.40
4485 5658 8.263940 TCTGGCCGAATAAAATAATATACTGC 57.736 34.615 0.00 0.00 0.00 4.40
4610 6023 5.833131 GGAAAATATAAATCTGGTCTGGGCA 59.167 40.000 0.00 0.00 0.00 5.36
4640 6053 1.963515 GTTCCTCAAACAGTGGCCATT 59.036 47.619 9.72 0.00 37.82 3.16
4670 6083 0.249398 AGGATTCGGCTACAGCGTTT 59.751 50.000 0.00 0.00 43.26 3.60
4673 6086 1.141881 ACAGGATTCGGCTACAGCG 59.858 57.895 0.00 0.00 43.26 5.18
4682 6095 1.265568 CGTTCGGTACACAGGATTCG 58.734 55.000 0.00 0.00 0.00 3.34
4690 6103 0.733566 TTCGATGGCGTTCGGTACAC 60.734 55.000 9.36 0.00 39.56 2.90
4694 6107 2.125673 CCTTCGATGGCGTTCGGT 60.126 61.111 4.15 0.00 39.56 4.69
4729 6142 5.305644 GCTAGTCTTTCCAGAGGAATATCCA 59.694 44.000 0.00 0.00 41.71 3.41
4738 6151 4.081198 ACAGGAATGCTAGTCTTTCCAGAG 60.081 45.833 22.22 16.79 46.16 3.35
4753 6166 0.179215 GCGTTCGCTTCACAGGAATG 60.179 55.000 9.99 0.00 31.34 2.67
4778 6191 5.060446 CCAAAACGGCTTAATCGAAATGTTC 59.940 40.000 0.00 0.00 0.00 3.18
4780 6193 4.216687 TCCAAAACGGCTTAATCGAAATGT 59.783 37.500 0.00 0.00 33.14 2.71
4781 6194 4.728534 TCCAAAACGGCTTAATCGAAATG 58.271 39.130 0.00 0.00 33.14 2.32
4782 6195 5.124776 TCATCCAAAACGGCTTAATCGAAAT 59.875 36.000 0.00 0.00 33.14 2.17
4874 6833 6.480981 CCAATTTCTTGTGATCTGCAACTTTT 59.519 34.615 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.