Multiple sequence alignment - TraesCS4A01G058700

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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 TraesCS4A01G058700 chr4A 100.000 3988 0 0 1 3988 49265119 49261132 0.000000e+00 7365
1 TraesCS4A01G058700 chr4D 96.856 1654 46 2 1797 3444 414146726 414148379 0.000000e+00 2761
2 TraesCS4A01G058700 chr4D 89.713 1779 92 33 1 1733 414144822 414146555 0.000000e+00 2187
3 TraesCS4A01G058700 chr4D 93.506 385 11 4 3451 3821 414148425 414148809 9.680000e-156 560
4 TraesCS4A01G058700 chr4D 94.444 180 10 0 3809 3988 414148865 414149044 1.090000e-70 278
5 TraesCS4A01G058700 chr4B 95.991 1696 61 5 1756 3444 510305196 510306891 0.000000e+00 2748
6 TraesCS4A01G058700 chr4B 92.101 1785 68 34 1 1748 510303172 510304920 0.000000e+00 2447
7 TraesCS4A01G058700 chr4B 86.753 385 19 7 3622 3988 510306893 510307263 2.230000e-107 399
8 TraesCS4A01G058700 chr1B 86.762 1050 134 3 1942 2990 345409678 345408633 0.000000e+00 1164
9 TraesCS4A01G058700 chr1D 86.502 1052 133 7 1942 2990 267594804 267595849 0.000000e+00 1147
10 TraesCS4A01G058700 chr1A 86.476 1050 137 3 1942 2990 335543149 335542104 0.000000e+00 1147


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 TraesCS4A01G058700 chr4A 49261132 49265119 3987 True 7365.000000 7365 100.00000 1 3988 1 chr4A.!!$R1 3987
1 TraesCS4A01G058700 chr4D 414144822 414149044 4222 False 1446.500000 2761 93.62975 1 3988 4 chr4D.!!$F1 3987
2 TraesCS4A01G058700 chr4B 510303172 510307263 4091 False 1864.666667 2748 91.61500 1 3988 3 chr4B.!!$F1 3987
3 TraesCS4A01G058700 chr1B 345408633 345409678 1045 True 1164.000000 1164 86.76200 1942 2990 1 chr1B.!!$R1 1048
4 TraesCS4A01G058700 chr1D 267594804 267595849 1045 False 1147.000000 1147 86.50200 1942 2990 1 chr1D.!!$F1 1048
5 TraesCS4A01G058700 chr1A 335542104 335543149 1045 True 1147.000000 1147 86.47600 1942 2990 1 chr1A.!!$R1 1048

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
172 173 0.035439 TCAAACTCCGATCTTGGCCC 60.035 55.0 0.00 0.00 0.00 5.80 F
181 182 0.035820 GATCTTGGCCCGTGGTTACA 60.036 55.0 0.00 0.00 0.00 2.41 F
182 183 0.035439 ATCTTGGCCCGTGGTTACAG 60.035 55.0 0.00 0.00 0.00 2.74 F
649 687 0.036388 ACGTTCCATGATTGCGACCT 60.036 50.0 0.00 0.00 0.00 3.85 F
1414 1452 0.672711 GGAAGTGGACGGGTACTTGC 60.673 60.0 5.38 4.84 37.27 4.01 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1657 1702 1.223187 AAAACCCAGTAACTCGTGCG 58.777 50.0 0.00 0.0 0.00 5.34 R
1831 2228 2.014010 AAAGCAATTGGAGAAGCCCA 57.986 45.0 7.72 0.0 34.97 5.36 R
2093 2490 5.047943 AGCAACACTAGTGAGGTACTGTAAG 60.048 44.0 29.30 0.0 41.55 2.34 R
2550 2947 0.555769 AGCTCAAGGGGGAACAACAA 59.444 50.0 0.00 0.0 0.00 2.83 R
3279 3682 1.691196 TTGCTTCACCCACAAAGGAG 58.309 50.0 0.00 0.0 41.22 3.69 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
110 111 4.475135 GAAGGTGAGCCGCCTCCC 62.475 72.222 7.62 0.00 44.35 4.30
128 129 3.031660 CGCGAGGTTCTACTTCCAC 57.968 57.895 0.00 0.00 0.00 4.02
153 154 3.322466 CCCCCTCTGTTCAGGCGT 61.322 66.667 0.00 0.00 31.23 5.68
154 155 2.266055 CCCCTCTGTTCAGGCGTC 59.734 66.667 0.00 0.00 31.23 5.19
155 156 2.583441 CCCCTCTGTTCAGGCGTCA 61.583 63.158 0.00 0.00 31.23 4.35
156 157 1.371183 CCCTCTGTTCAGGCGTCAA 59.629 57.895 0.00 0.00 31.23 3.18
157 158 0.250295 CCCTCTGTTCAGGCGTCAAA 60.250 55.000 0.00 0.00 31.23 2.69
158 159 0.868406 CCTCTGTTCAGGCGTCAAAC 59.132 55.000 0.00 0.00 0.00 2.93
159 160 1.541233 CCTCTGTTCAGGCGTCAAACT 60.541 52.381 6.81 0.00 0.00 2.66
160 161 1.795286 CTCTGTTCAGGCGTCAAACTC 59.205 52.381 6.81 0.00 0.00 3.01
171 172 1.087501 GTCAAACTCCGATCTTGGCC 58.912 55.000 0.00 0.00 0.00 5.36
172 173 0.035439 TCAAACTCCGATCTTGGCCC 60.035 55.000 0.00 0.00 0.00 5.80
179 180 1.219664 CGATCTTGGCCCGTGGTTA 59.780 57.895 0.00 0.00 0.00 2.85
180 181 1.087771 CGATCTTGGCCCGTGGTTAC 61.088 60.000 0.00 0.00 0.00 2.50
181 182 0.035820 GATCTTGGCCCGTGGTTACA 60.036 55.000 0.00 0.00 0.00 2.41
182 183 0.035439 ATCTTGGCCCGTGGTTACAG 60.035 55.000 0.00 0.00 0.00 2.74
183 184 1.072505 CTTGGCCCGTGGTTACAGT 59.927 57.895 0.00 0.00 0.00 3.55
184 185 0.536460 CTTGGCCCGTGGTTACAGTT 60.536 55.000 0.00 0.00 0.00 3.16
185 186 0.535553 TTGGCCCGTGGTTACAGTTC 60.536 55.000 0.00 0.00 0.00 3.01
191 192 2.557317 CCGTGGTTACAGTTCACAGTT 58.443 47.619 0.00 0.00 0.00 3.16
211 212 2.733593 GACGTGTTCCGCTTCGCT 60.734 61.111 0.00 0.00 41.42 4.93
215 224 1.736645 GTGTTCCGCTTCGCTGCTA 60.737 57.895 0.00 0.00 0.00 3.49
308 321 4.276678 TCTCCGAATCATTTGATGCCATTC 59.723 41.667 0.00 0.00 34.49 2.67
316 329 1.750193 TTGATGCCATTCCTTCCGTC 58.250 50.000 0.00 0.00 0.00 4.79
317 330 0.107214 TGATGCCATTCCTTCCGTCC 60.107 55.000 0.00 0.00 0.00 4.79
318 331 1.153168 ATGCCATTCCTTCCGTCCG 60.153 57.895 0.00 0.00 0.00 4.79
319 332 3.202706 GCCATTCCTTCCGTCCGC 61.203 66.667 0.00 0.00 0.00 5.54
565 603 1.002011 GGTGTGGGGGAAGAAGCTC 60.002 63.158 0.00 0.00 0.00 4.09
584 622 1.007238 TCCCCTGTCTTCCTGAGGTAG 59.993 57.143 0.00 0.00 0.00 3.18
614 652 5.004726 CGCTATGCTAATTTTGTTTCCTTGC 59.995 40.000 0.00 0.00 0.00 4.01
635 673 1.497722 GCAACTGGCTAGCACGTTC 59.502 57.895 18.24 8.94 40.25 3.95
649 687 0.036388 ACGTTCCATGATTGCGACCT 60.036 50.000 0.00 0.00 0.00 3.85
942 980 2.076863 CTGACCCTCGGCTTTGTTTAG 58.923 52.381 0.00 0.00 0.00 1.85
1243 1281 2.435059 GGCCTTGACCTGCTCGAC 60.435 66.667 0.00 0.00 0.00 4.20
1245 1283 1.739562 GCCTTGACCTGCTCGACTG 60.740 63.158 0.00 0.00 0.00 3.51
1264 1302 6.070995 TCGACTGTTTACCATGATTAACCTCT 60.071 38.462 0.00 0.00 0.00 3.69
1293 1331 4.067896 TGCTGAAGATCAAAGGAGAACAC 58.932 43.478 0.00 0.00 0.00 3.32
1324 1362 2.919859 CACAGTCAGCACAGTTAGATCG 59.080 50.000 0.00 0.00 0.00 3.69
1402 1440 7.055667 TGCTAGAGACAATTATAGGAAGTGG 57.944 40.000 0.00 0.00 0.00 4.00
1412 1450 2.610438 TAGGAAGTGGACGGGTACTT 57.390 50.000 0.00 0.00 39.67 2.24
1413 1451 0.974383 AGGAAGTGGACGGGTACTTG 59.026 55.000 5.38 0.00 37.27 3.16
1414 1452 0.672711 GGAAGTGGACGGGTACTTGC 60.673 60.000 5.38 4.84 37.27 4.01
1416 1454 0.763035 AAGTGGACGGGTACTTGCTT 59.237 50.000 0.00 0.00 35.91 3.91
1417 1455 0.763035 AGTGGACGGGTACTTGCTTT 59.237 50.000 0.00 0.00 0.00 3.51
1418 1456 1.154197 GTGGACGGGTACTTGCTTTC 58.846 55.000 0.00 0.00 0.00 2.62
1419 1457 1.053424 TGGACGGGTACTTGCTTTCT 58.947 50.000 0.00 0.00 0.00 2.52
1420 1458 1.418637 TGGACGGGTACTTGCTTTCTT 59.581 47.619 0.00 0.00 0.00 2.52
1421 1459 2.158726 TGGACGGGTACTTGCTTTCTTT 60.159 45.455 0.00 0.00 0.00 2.52
1543 1587 6.016777 CCTTATGGATCATGCCTTTGAACTAC 60.017 42.308 0.00 0.00 34.57 2.73
1592 1637 1.414181 ACATAGGTGCATCCTCGAAGG 59.586 52.381 10.60 0.28 44.42 3.46
1695 1740 9.174166 TGGGTTTTAGAAGTAAAGCAGATAATC 57.826 33.333 0.00 0.00 35.32 1.75
1750 1879 7.340999 ACCTTGTACAAATTATGTATGGAACCC 59.659 37.037 10.03 0.00 45.87 4.11
1751 1880 7.340743 CCTTGTACAAATTATGTATGGAACCCA 59.659 37.037 10.03 0.00 45.87 4.51
1752 1881 7.873719 TGTACAAATTATGTATGGAACCCAG 57.126 36.000 0.00 0.00 45.87 4.45
1753 1882 7.634718 TGTACAAATTATGTATGGAACCCAGA 58.365 34.615 0.00 0.00 45.87 3.86
1772 2169 5.238868 CCCAGATCATATCTCTGCACAAAAG 59.761 44.000 0.00 0.00 39.04 2.27
1773 2170 5.821470 CCAGATCATATCTCTGCACAAAAGT 59.179 40.000 0.00 0.00 39.04 2.66
1775 2172 7.408123 CAGATCATATCTCTGCACAAAAGTTC 58.592 38.462 0.00 0.00 37.58 3.01
1776 2173 5.784750 TCATATCTCTGCACAAAAGTTCG 57.215 39.130 0.00 0.00 0.00 3.95
1777 2174 5.478407 TCATATCTCTGCACAAAAGTTCGA 58.522 37.500 0.00 0.00 0.00 3.71
1781 2178 4.689071 TCTCTGCACAAAAGTTCGAAGTA 58.311 39.130 5.80 0.00 0.00 2.24
1807 2204 4.456222 TCTCTGCTCTGTCAGTTACTACAC 59.544 45.833 0.00 0.00 35.63 2.90
1821 2218 8.847196 TCAGTTACTACACCTGTATATGACATC 58.153 37.037 0.00 0.00 37.45 3.06
1831 2228 8.417106 CACCTGTATATGACATCTAACTGTCTT 58.583 37.037 5.87 2.55 44.73 3.01
1870 2267 6.814343 GCTTTTTGCATGACTTTCATAGTTG 58.186 36.000 0.00 0.00 42.31 3.16
2093 2490 2.046507 CCTGGAGCACTGACAGCC 60.047 66.667 1.25 0.00 0.00 4.85
2550 2947 1.212935 ACAACAACCTTGAGGCTCTGT 59.787 47.619 16.72 8.29 39.32 3.41
3008 3408 2.500504 AGCTTACTTTACCTTCCCTCGG 59.499 50.000 0.00 0.00 0.00 4.63
3266 3669 2.472695 ACTTATTCACTCTGCGGCAA 57.527 45.000 3.44 0.00 0.00 4.52
3267 3670 2.991250 ACTTATTCACTCTGCGGCAAT 58.009 42.857 3.44 0.00 0.00 3.56
3296 3699 1.882623 CTTCTCCTTTGTGGGTGAAGC 59.117 52.381 10.84 0.00 44.46 3.86
3359 3769 5.763698 TGAATAGGTAGACATACTCTGACGG 59.236 44.000 0.00 0.00 32.12 4.79
3380 3790 4.670221 CGGCTTATGCAAGTCTGAAACTTC 60.670 45.833 2.72 0.00 46.69 3.01
3389 3799 5.689068 GCAAGTCTGAAACTTCTGATTTTGG 59.311 40.000 17.77 7.47 45.28 3.28
3444 3854 1.268625 CTCCGTTTGGGTGTAAAAGGC 59.731 52.381 0.00 0.00 38.53 4.35
3446 3856 1.033574 CGTTTGGGTGTAAAAGGCCA 58.966 50.000 5.01 0.00 0.00 5.36
3447 3857 1.616374 CGTTTGGGTGTAAAAGGCCAT 59.384 47.619 5.01 0.00 0.00 4.40
3448 3858 2.036604 CGTTTGGGTGTAAAAGGCCATT 59.963 45.455 5.01 0.00 0.00 3.16
3449 3859 3.493524 CGTTTGGGTGTAAAAGGCCATTT 60.494 43.478 11.27 11.27 0.00 2.32
3510 3959 4.937620 CAGGCTATGTGTGTCATTTGTACT 59.062 41.667 0.00 0.00 37.91 2.73
3550 4001 3.018423 ACAAGACAAATGGGATAGGGC 57.982 47.619 0.00 0.00 0.00 5.19
3720 4173 4.155099 CGCAGTACATAGATAGAGGACTGG 59.845 50.000 6.20 0.00 34.70 4.00
3780 4234 3.270877 GTCCCTGCTTAACATGTCGAAT 58.729 45.455 0.00 0.00 0.00 3.34
3826 4357 2.449464 CATCAAAAGGGTGGCAGATCA 58.551 47.619 0.00 0.00 0.00 2.92
3855 4386 2.355197 TGTTGACAACACAGTGGACAG 58.645 47.619 17.02 0.00 36.25 3.51
3865 4396 2.203153 GTGGACAGTGCGGTTGGT 60.203 61.111 0.00 0.00 0.00 3.67
3958 4497 2.587194 CTTGGAGATGGGCTCGCG 60.587 66.667 0.00 0.00 44.91 5.87
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
70 71 0.943835 TGTGGTCGAAGTCACATGCG 60.944 55.000 11.78 0.00 37.68 4.73
110 111 0.458025 GGTGGAAGTAGAACCTCGCG 60.458 60.000 0.00 0.00 0.00 5.87
140 141 1.795286 GAGTTTGACGCCTGAACAGAG 59.205 52.381 3.19 0.30 0.00 3.35
145 146 0.320374 ATCGGAGTTTGACGCCTGAA 59.680 50.000 0.00 0.00 35.79 3.02
147 148 0.108615 AGATCGGAGTTTGACGCCTG 60.109 55.000 0.00 0.00 35.79 4.85
148 149 0.608640 AAGATCGGAGTTTGACGCCT 59.391 50.000 0.00 0.00 35.79 5.52
149 150 0.721718 CAAGATCGGAGTTTGACGCC 59.278 55.000 0.00 0.00 34.50 5.68
150 151 0.721718 CCAAGATCGGAGTTTGACGC 59.278 55.000 5.99 0.00 0.00 5.19
152 153 1.087501 GGCCAAGATCGGAGTTTGAC 58.912 55.000 0.00 0.00 0.00 3.18
153 154 0.035439 GGGCCAAGATCGGAGTTTGA 60.035 55.000 4.39 0.00 0.00 2.69
154 155 1.369091 CGGGCCAAGATCGGAGTTTG 61.369 60.000 4.39 0.00 0.00 2.93
155 156 1.078426 CGGGCCAAGATCGGAGTTT 60.078 57.895 4.39 0.00 0.00 2.66
156 157 2.291043 ACGGGCCAAGATCGGAGTT 61.291 57.895 4.39 0.00 0.00 3.01
157 158 2.683933 ACGGGCCAAGATCGGAGT 60.684 61.111 4.39 0.00 0.00 3.85
158 159 2.202932 CACGGGCCAAGATCGGAG 60.203 66.667 4.39 0.00 0.00 4.63
159 160 3.781307 CCACGGGCCAAGATCGGA 61.781 66.667 4.39 0.00 0.00 4.55
160 161 2.246761 TAACCACGGGCCAAGATCGG 62.247 60.000 4.39 4.58 0.00 4.18
171 172 2.234300 ACTGTGAACTGTAACCACGG 57.766 50.000 12.28 12.28 41.56 4.94
172 173 2.286184 GCAACTGTGAACTGTAACCACG 60.286 50.000 0.00 0.00 33.78 4.94
179 180 0.459585 ACGTCGCAACTGTGAACTGT 60.460 50.000 0.00 0.00 36.19 3.55
180 181 0.043053 CACGTCGCAACTGTGAACTG 60.043 55.000 0.00 0.00 36.19 3.16
181 182 0.459585 ACACGTCGCAACTGTGAACT 60.460 50.000 6.74 0.00 36.19 3.01
182 183 0.372334 AACACGTCGCAACTGTGAAC 59.628 50.000 6.74 0.00 36.19 3.18
183 184 0.648441 GAACACGTCGCAACTGTGAA 59.352 50.000 6.74 0.00 36.19 3.18
184 185 1.149361 GGAACACGTCGCAACTGTGA 61.149 55.000 6.74 0.00 35.39 3.58
185 186 1.275657 GGAACACGTCGCAACTGTG 59.724 57.895 0.00 0.00 36.58 3.66
211 212 6.537301 CGGAATATCCACTACAGTTTTTAGCA 59.463 38.462 0.00 0.00 35.91 3.49
215 224 5.646360 CCACGGAATATCCACTACAGTTTTT 59.354 40.000 0.00 0.00 35.91 1.94
258 267 2.100989 ACTGGAGATCGTTAGGTGGAC 58.899 52.381 0.00 0.00 0.00 4.02
308 321 2.233605 TACATGTGGCGGACGGAAGG 62.234 60.000 9.11 0.00 0.00 3.46
452 465 3.128375 AAAAAGTGGCTGTGGGCG 58.872 55.556 0.00 0.00 42.94 6.13
565 603 1.273324 ACTACCTCAGGAAGACAGGGG 60.273 57.143 0.00 0.00 0.00 4.79
584 622 3.029074 CAAAATTAGCATAGCGACGCAC 58.971 45.455 23.70 8.32 0.00 5.34
614 652 3.127533 GTGCTAGCCAGTTGCCCG 61.128 66.667 13.29 0.00 42.71 6.13
635 673 0.179100 AGACGAGGTCGCAATCATGG 60.179 55.000 0.00 0.00 44.43 3.66
649 687 1.071542 TGGCCAAGTCAATCAAGACGA 59.928 47.619 0.61 0.00 43.24 4.20
942 980 2.939103 AGCAACGAAGCATGTATCCTTC 59.061 45.455 6.62 0.00 36.85 3.46
1243 1281 9.449719 ACTTTAGAGGTTAATCATGGTAAACAG 57.550 33.333 7.56 0.42 0.00 3.16
1264 1302 6.998074 TCTCCTTTGATCTTCAGCAAACTTTA 59.002 34.615 0.00 0.00 31.37 1.85
1293 1331 1.303799 GCTGACTGTGCACCTCCATG 61.304 60.000 15.69 1.47 0.00 3.66
1402 1440 3.135994 TCAAAGAAAGCAAGTACCCGTC 58.864 45.455 0.00 0.00 0.00 4.79
1412 1450 2.092429 ACAGGACACCTCAAAGAAAGCA 60.092 45.455 0.00 0.00 0.00 3.91
1413 1451 2.550180 GACAGGACACCTCAAAGAAAGC 59.450 50.000 0.00 0.00 0.00 3.51
1414 1452 3.812053 CAGACAGGACACCTCAAAGAAAG 59.188 47.826 0.00 0.00 0.00 2.62
1416 1454 2.771943 ACAGACAGGACACCTCAAAGAA 59.228 45.455 0.00 0.00 0.00 2.52
1417 1455 2.398588 ACAGACAGGACACCTCAAAGA 58.601 47.619 0.00 0.00 0.00 2.52
1418 1456 2.918712 ACAGACAGGACACCTCAAAG 57.081 50.000 0.00 0.00 0.00 2.77
1419 1457 4.163458 ACTTTACAGACAGGACACCTCAAA 59.837 41.667 0.00 0.00 0.00 2.69
1420 1458 3.709653 ACTTTACAGACAGGACACCTCAA 59.290 43.478 0.00 0.00 0.00 3.02
1421 1459 3.305720 ACTTTACAGACAGGACACCTCA 58.694 45.455 0.00 0.00 0.00 3.86
1592 1637 5.924475 TTGACTTTGAACGAAGAATCTCC 57.076 39.130 8.56 0.00 0.00 3.71
1648 1693 3.428870 CAGTAACTCGTGCGACTGAAAAT 59.571 43.478 11.85 0.00 41.51 1.82
1657 1702 1.223187 AAAACCCAGTAACTCGTGCG 58.777 50.000 0.00 0.00 0.00 5.34
1748 1877 4.347360 TTGTGCAGAGATATGATCTGGG 57.653 45.455 13.73 0.00 43.61 4.45
1750 1879 6.922247 ACTTTTGTGCAGAGATATGATCTG 57.078 37.500 9.31 9.31 45.71 2.90
1751 1880 6.257411 CGAACTTTTGTGCAGAGATATGATCT 59.743 38.462 0.00 0.00 43.70 2.75
1752 1881 6.256539 TCGAACTTTTGTGCAGAGATATGATC 59.743 38.462 0.00 0.00 0.00 2.92
1753 1882 6.108687 TCGAACTTTTGTGCAGAGATATGAT 58.891 36.000 0.00 0.00 0.00 2.45
1772 2169 4.162812 CAGAGCAGAGAAGTACTTCGAAC 58.837 47.826 25.92 20.72 43.97 3.95
1773 2170 3.821600 ACAGAGCAGAGAAGTACTTCGAA 59.178 43.478 25.92 0.00 43.97 3.71
1775 2172 3.189495 TGACAGAGCAGAGAAGTACTTCG 59.811 47.826 25.92 15.32 43.97 3.79
1776 2173 4.217550 ACTGACAGAGCAGAGAAGTACTTC 59.782 45.833 25.24 25.24 39.20 3.01
1777 2174 4.148838 ACTGACAGAGCAGAGAAGTACTT 58.851 43.478 8.13 8.13 39.20 2.24
1781 2178 4.148838 AGTAACTGACAGAGCAGAGAAGT 58.851 43.478 10.08 0.00 39.20 3.01
1821 2218 2.303022 TGGAGAAGCCCAAGACAGTTAG 59.697 50.000 0.00 0.00 34.97 2.34
1831 2228 2.014010 AAAGCAATTGGAGAAGCCCA 57.986 45.000 7.72 0.00 34.97 5.36
1889 2286 6.728089 TCTGAGAGATTAGACATCTGCAAT 57.272 37.500 0.00 0.00 0.00 3.56
2093 2490 5.047943 AGCAACACTAGTGAGGTACTGTAAG 60.048 44.000 29.30 0.00 41.55 2.34
2550 2947 0.555769 AGCTCAAGGGGGAACAACAA 59.444 50.000 0.00 0.00 0.00 2.83
3240 3643 4.202161 CCGCAGAGTGAATAAGTACATCCT 60.202 45.833 0.00 0.00 0.00 3.24
3279 3682 1.691196 TTGCTTCACCCACAAAGGAG 58.309 50.000 0.00 0.00 41.22 3.69
3380 3790 6.208644 CAACCAACAAGACTACCAAAATCAG 58.791 40.000 0.00 0.00 0.00 2.90
3389 3799 1.975660 TGGCCAACCAACAAGACTAC 58.024 50.000 0.61 0.00 45.37 2.73
3409 3819 6.996282 CCCAAACGGAGGAAGTACAATATAAT 59.004 38.462 0.00 0.00 0.00 1.28
3562 4013 6.897413 ACTATGTCAAAATCCTATGGGCTTTT 59.103 34.615 4.01 4.01 40.31 2.27
3675 4126 3.495124 TTTGGCTCGAGCAAAATGC 57.505 47.368 36.27 19.52 45.46 3.56
3720 4173 2.227388 CAGGTCAAGTTCAACCTCATGC 59.773 50.000 3.86 0.00 44.13 4.06
3780 4234 7.309499 GGAGTGACTCTTCTCAAACTGATTAGA 60.309 40.741 12.92 0.00 32.93 2.10
3855 4386 4.332637 CTGCAGCACCAACCGCAC 62.333 66.667 0.00 0.00 0.00 5.34
3881 4412 2.754552 TGGACATGCAATAGGCTTCAAC 59.245 45.455 0.00 0.00 45.15 3.18


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

AutoCloner maintained by Alex Coulton.