Multiple sequence alignment - TraesCS1A01G114700

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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 TraesCS1A01G114700 chr1A 100.000 4895 0 0 1 4895 118846579 118851473 0.000000e+00 9040
1 TraesCS1A01G114700 chr1A 85.185 216 22 3 4192 4407 399235126 399235331 3.840000e-51 213
2 TraesCS1A01G114700 chr1D 94.955 4896 223 10 1 4878 111834532 111839421 0.000000e+00 7651
3 TraesCS1A01G114700 chr1D 92.348 771 43 5 4126 4895 111850980 111851735 0.000000e+00 1083
4 TraesCS1A01G114700 chr1D 86.802 197 15 7 4179 4374 342128850 342128664 4.960000e-50 209
5 TraesCS1A01G114700 chr1D 81.481 243 33 5 4180 4420 351265568 351265336 6.470000e-44 189
6 TraesCS1A01G114700 chr1B 93.939 4900 254 15 1 4895 171128486 171133347 0.000000e+00 7363
7 TraesCS1A01G114700 chr2D 83.983 231 34 1 4420 4647 80777847 80778077 8.250000e-53 219
8 TraesCS1A01G114700 chr2D 83.983 231 34 1 4420 4647 80816978 80817208 8.250000e-53 219
9 TraesCS1A01G114700 chr2D 83.264 239 39 1 4657 4895 611240567 611240330 8.250000e-53 219
10 TraesCS1A01G114700 chr5D 82.186 247 29 11 4179 4422 548370999 548370765 1.070000e-46 198
11 TraesCS1A01G114700 chr3D 81.526 249 35 8 4174 4421 61698169 61698407 1.390000e-45 195
12 TraesCS1A01G114700 chr7D 82.174 230 33 5 4429 4651 72265642 72265414 1.800000e-44 191
13 TraesCS1A01G114700 chr2B 81.545 233 37 4 4419 4647 28212897 28213127 2.330000e-43 187
14 TraesCS1A01G114700 chr6A 80.498 241 33 10 4182 4421 546934450 546934677 6.510000e-39 172
15 TraesCS1A01G114700 chr5A 80.342 234 39 5 4419 4647 658721456 658721225 2.340000e-38 171
16 TraesCS1A01G114700 chr7A 80.365 219 39 3 4422 4639 641044277 641044492 3.920000e-36 163


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 TraesCS1A01G114700 chr1A 118846579 118851473 4894 False 9040 9040 100.000 1 4895 1 chr1A.!!$F1 4894
1 TraesCS1A01G114700 chr1D 111834532 111839421 4889 False 7651 7651 94.955 1 4878 1 chr1D.!!$F1 4877
2 TraesCS1A01G114700 chr1D 111850980 111851735 755 False 1083 1083 92.348 4126 4895 1 chr1D.!!$F2 769
3 TraesCS1A01G114700 chr1B 171128486 171133347 4861 False 7363 7363 93.939 1 4895 1 chr1B.!!$F1 4894

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
179 180 0.179702 TCCTCCTCATGCATGTCAGC 59.820 55.0 25.43 0.0 0.00 4.26 F
1142 1163 1.045350 CCTCAAGGCATCCTCTCCGA 61.045 60.0 0.00 0.0 30.89 4.55 F
1378 1399 0.179124 GCTGCTCCTCTACTCCAACG 60.179 60.0 0.00 0.0 0.00 4.10 F
2799 2820 0.036010 CGAGGAACATGGTCAGGCTT 60.036 55.0 13.90 0.0 0.00 4.35 F
3317 3338 0.253044 GTGATGCTGGACCTAAGCCA 59.747 55.0 1.56 0.0 40.06 4.75 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1153 1174 0.252479 CAGGAGCAGACATCAGCCTT 59.748 55.000 0.00 0.00 0.00 4.35 R
2347 2368 0.106708 TCTTCCAAGCTCGTGCAGTT 59.893 50.000 12.58 0.00 42.74 3.16 R
2849 2870 0.390866 CATCTTGAGCTGCGTCAGGT 60.391 55.000 10.57 10.57 45.28 4.00 R
3681 3702 2.203182 ACCGACACCTCCCTCCAA 59.797 61.111 0.00 0.00 0.00 3.53 R
4803 4827 2.882761 GGAAACTCTACCACCAAACCAC 59.117 50.000 0.00 0.00 0.00 4.16 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
154 155 2.162408 GCTCACTTGGTTACTGATTGGC 59.838 50.000 0.00 0.00 0.00 4.52
179 180 0.179702 TCCTCCTCATGCATGTCAGC 59.820 55.000 25.43 0.00 0.00 4.26
255 260 1.159285 AGTATGTCGTCGTGGTTCGA 58.841 50.000 0.00 0.00 46.83 3.71
265 270 1.542472 TCGTGGTTCGAAGTATGCAGA 59.458 47.619 0.00 0.00 45.98 4.26
307 312 4.696455 ACCTGCTGAATTCCTTTGTTTTG 58.304 39.130 2.27 0.00 0.00 2.44
349 354 3.969976 TCTCCAATAGTTGATAGCCTGCT 59.030 43.478 0.00 0.00 0.00 4.24
353 358 5.366768 TCCAATAGTTGATAGCCTGCTAAGT 59.633 40.000 2.52 0.00 31.73 2.24
374 379 5.923204 AGTAGGAATTTCTGTGCTATCTGG 58.077 41.667 0.00 0.00 0.00 3.86
532 542 1.340991 TGCTACCAAATCAAGGAGGGC 60.341 52.381 0.00 0.00 0.00 5.19
533 543 1.340991 GCTACCAAATCAAGGAGGGCA 60.341 52.381 0.00 0.00 0.00 5.36
558 568 1.787012 ACTGTTTAAGCACGTACCCG 58.213 50.000 0.00 0.00 40.83 5.28
605 615 3.160269 CTCCAGTGCCCTTTTCATTCTT 58.840 45.455 0.00 0.00 0.00 2.52
608 618 3.070015 CCAGTGCCCTTTTCATTCTTGTT 59.930 43.478 0.00 0.00 0.00 2.83
796 806 5.476599 TGGCTTGTATTGCATTTTCACTAGT 59.523 36.000 0.00 0.00 0.00 2.57
802 812 7.620880 TGTATTGCATTTTCACTAGTAGGAGT 58.379 34.615 1.45 0.00 0.00 3.85
859 873 1.404035 AGGCGTTTGACAACACCTTTC 59.596 47.619 0.00 0.00 41.92 2.62
966 987 2.039879 TGTAAGTTCAGCTCCCCCTTTC 59.960 50.000 0.00 0.00 0.00 2.62
989 1010 8.840833 TTCTAGTTTACACAGTTGCATCATAA 57.159 30.769 0.00 0.00 0.00 1.90
1038 1059 4.681744 CGCTTCTTCTATCTCTGCTCTTT 58.318 43.478 0.00 0.00 0.00 2.52
1087 1108 1.305802 ACACCGGACATGGCTCCTA 60.306 57.895 9.46 0.00 0.00 2.94
1142 1163 1.045350 CCTCAAGGCATCCTCTCCGA 61.045 60.000 0.00 0.00 30.89 4.55
1193 1214 1.228245 ACGGTGTTTCATGCCTGCT 60.228 52.632 0.00 0.00 0.00 4.24
1278 1299 2.697751 GGCGATATCTGGCCTGATATCT 59.302 50.000 40.72 27.02 46.38 1.98
1296 1317 3.407424 TCTGTGGAGTTCATTGACCTG 57.593 47.619 0.00 0.00 0.00 4.00
1378 1399 0.179124 GCTGCTCCTCTACTCCAACG 60.179 60.000 0.00 0.00 0.00 4.10
1459 1480 3.279116 GCGACAACAGGCTGCACA 61.279 61.111 15.89 0.00 0.00 4.57
1470 1491 1.153568 GCTGCACAGCGAGATACCA 60.154 57.895 6.92 0.00 45.29 3.25
1567 1588 2.229784 CAGATTGGCAACCTGAAGAACC 59.770 50.000 16.98 0.00 0.00 3.62
1776 1797 0.320374 CGGCGGATATTGGGAAGCTA 59.680 55.000 0.00 0.00 0.00 3.32
1812 1833 2.980233 AACCTGCTCGGCAACAGC 60.980 61.111 0.35 0.00 38.41 4.40
1944 1965 2.841442 ACCTGAAGTACCTTGTGCTC 57.159 50.000 0.00 0.00 0.00 4.26
2034 2055 1.971695 CCTTGCCGGGAACAACCTC 60.972 63.158 3.37 0.00 38.98 3.85
2035 2056 1.228124 CTTGCCGGGAACAACCTCA 60.228 57.895 3.37 0.00 38.98 3.86
2070 2091 0.599558 GGCTGCTCAACTGCATTTCA 59.400 50.000 0.00 0.00 44.55 2.69
2082 2103 1.672363 TGCATTTCACTGCGATCCATC 59.328 47.619 0.00 0.00 45.30 3.51
2109 2130 0.878523 CGAACAACAGCTTCACCGGA 60.879 55.000 9.46 0.00 0.00 5.14
2149 2170 1.300620 CGGCTGTCGAACCTTGTCA 60.301 57.895 0.00 0.00 42.43 3.58
2347 2368 3.643320 GACCATACCTGATGAGATCACCA 59.357 47.826 0.00 0.00 37.82 4.17
2364 2385 1.165907 CCAACTGCACGAGCTTGGAA 61.166 55.000 17.27 0.00 42.74 3.53
2460 2481 0.391661 TTCAGCTCCGGCAGAATGAC 60.392 55.000 0.00 0.00 44.64 3.06
2461 2482 1.817099 CAGCTCCGGCAGAATGACC 60.817 63.158 0.00 0.00 46.22 4.02
2484 2505 2.586792 GGCTCAATCCCAGCGAGT 59.413 61.111 0.00 0.00 37.81 4.18
2488 2509 0.820226 CTCAATCCCAGCGAGTCTCA 59.180 55.000 0.00 0.00 0.00 3.27
2590 2611 0.104487 CGAGCTCAGCATCATCACCT 59.896 55.000 15.40 0.00 0.00 4.00
2607 2628 5.836024 TCACCTTGTACAATAACTCCCTT 57.164 39.130 9.13 0.00 0.00 3.95
2760 2781 2.878406 CAACAACTTCTCCGGTGTCATT 59.122 45.455 0.00 0.00 0.00 2.57
2794 2815 1.183030 ACGGTCGAGGAACATGGTCA 61.183 55.000 13.90 0.00 0.00 4.02
2799 2820 0.036010 CGAGGAACATGGTCAGGCTT 60.036 55.000 13.90 0.00 0.00 4.35
2820 2841 2.825836 CTGGCCGGCAACCATCTC 60.826 66.667 30.85 8.62 36.36 2.75
2907 2928 1.606601 CCTCTCCGGCGATATCCCA 60.607 63.158 9.30 0.00 0.00 4.37
2908 2929 0.972983 CCTCTCCGGCGATATCCCAT 60.973 60.000 9.30 0.00 0.00 4.00
3009 3030 4.344865 GGCCTGCGGTTCCTTGGA 62.345 66.667 0.00 0.00 0.00 3.53
3036 3057 1.590238 GACCTCTCGTCGAATGCATTG 59.410 52.381 18.59 9.47 0.00 2.82
3045 3066 1.506262 GAATGCATTGACCGGCGTT 59.494 52.632 18.59 0.00 41.63 4.84
3069 3090 2.031163 GTGGAGCTCGGCAACTGT 59.969 61.111 7.83 0.00 0.00 3.55
3147 3168 1.338655 GAGATAGGAAGGCTCACGTCC 59.661 57.143 0.00 0.00 46.73 4.79
3187 3208 1.006102 AAGAACAGTCTCACCGGCG 60.006 57.895 0.00 0.00 30.70 6.46
3208 3229 3.968837 ATACCGCCCACACTCCGGA 62.969 63.158 2.93 2.93 44.55 5.14
3225 3246 1.406069 CGGAGGTGCAACAAGCTCTAT 60.406 52.381 3.64 0.00 45.94 1.98
3279 3300 2.851102 ATCCCCATGGAGCTCGGG 60.851 66.667 15.22 16.21 46.08 5.14
3317 3338 0.253044 GTGATGCTGGACCTAAGCCA 59.747 55.000 1.56 0.00 40.06 4.75
3402 3423 1.003233 GTCCTCCAACCAGCTCCAC 60.003 63.158 0.00 0.00 0.00 4.02
3415 3436 1.443407 CTCCACGGGCAGATACCAG 59.557 63.158 0.00 0.00 0.00 4.00
3478 3499 1.330655 GGACAATCTCCTCTCCGGCA 61.331 60.000 0.00 0.00 35.89 5.69
3529 3550 4.728102 CGTCCTACGCCGGCAACA 62.728 66.667 28.98 9.52 33.65 3.33
3530 3551 2.357760 GTCCTACGCCGGCAACAA 60.358 61.111 28.98 7.06 0.00 2.83
3714 3735 3.735029 GTGTCGAGCTCGGACGGT 61.735 66.667 33.98 0.00 40.29 4.83
3783 3804 1.264295 GGAAGTACTGGAAGGTCGGT 58.736 55.000 0.00 0.00 39.30 4.69
3790 3811 3.703127 GGAAGGTCGGTTCGGGCT 61.703 66.667 0.00 0.00 0.00 5.19
4044 4067 8.812329 TCTTCATGTTTTAAATTTTGTTCGTGG 58.188 29.630 0.00 0.00 0.00 4.94
4476 4500 3.527665 AGATACCAATTACACCCAGCCTT 59.472 43.478 0.00 0.00 0.00 4.35
4477 4501 2.215942 ACCAATTACACCCAGCCTTC 57.784 50.000 0.00 0.00 0.00 3.46
4511 4535 9.401873 CGAAATGTTGTATAGACATTACGGATA 57.598 33.333 12.42 0.00 44.55 2.59
4535 4559 4.638421 CACACAACCTTACAACAGAAAGGA 59.362 41.667 8.06 0.00 44.27 3.36
4536 4560 5.124776 CACACAACCTTACAACAGAAAGGAA 59.875 40.000 8.06 0.00 44.27 3.36
4537 4561 5.357032 ACACAACCTTACAACAGAAAGGAAG 59.643 40.000 8.06 2.87 44.27 3.46
4602 4626 0.173029 CTGCAACACAAACCACTGCA 59.827 50.000 0.00 0.00 40.54 4.41
4639 4663 4.082125 AGTCCAAATTCTCCAAAAGCGAT 58.918 39.130 0.00 0.00 0.00 4.58
4650 4674 2.564771 CAAAAGCGATGCCTCCAGATA 58.435 47.619 0.00 0.00 0.00 1.98
4710 4734 0.610509 TGTTTGTGTGCAGGTGGTGT 60.611 50.000 0.00 0.00 0.00 4.16
4764 4788 1.765904 TGTCAGGTTGCACTACTTCCA 59.234 47.619 0.00 0.00 0.00 3.53
4803 4827 4.021016 GGAGGGTATGCTTGAGTATGTAGG 60.021 50.000 0.00 0.00 0.00 3.18
4810 4834 4.323417 TGCTTGAGTATGTAGGTGGTTTG 58.677 43.478 0.00 0.00 0.00 2.93
4839 4866 3.217626 AGTTTCCTGTTGAGAAAGCCAG 58.782 45.455 0.00 0.00 34.04 4.85
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
14 15 5.659440 AGCAAGAAAGGTAAGAGAGAGAG 57.341 43.478 0.00 0.00 0.00 3.20
24 25 1.271163 CCACGGGAAGCAAGAAAGGTA 60.271 52.381 0.00 0.00 0.00 3.08
154 155 3.094572 ACATGCATGAGGAGGAAAAAGG 58.905 45.455 32.75 1.29 0.00 3.11
232 237 2.631418 ACCACGACGACATACTTCTG 57.369 50.000 0.00 0.00 0.00 3.02
278 283 2.373169 AGGAATTCAGCAGGTTCAGTGA 59.627 45.455 7.93 0.00 0.00 3.41
307 312 3.136626 AGATACTGTTGGCCATCTAACCC 59.863 47.826 6.09 0.00 0.00 4.11
349 354 7.125811 ACCAGATAGCACAGAAATTCCTACTTA 59.874 37.037 0.00 0.00 0.00 2.24
353 358 5.957771 ACCAGATAGCACAGAAATTCCTA 57.042 39.130 0.00 0.00 0.00 2.94
415 425 7.111139 CGAATAGAGCGTACTTACATTGTTTG 58.889 38.462 0.00 0.00 0.00 2.93
533 543 4.271776 GGTACGTGCTTAAACAGTTCAACT 59.728 41.667 3.01 0.00 0.00 3.16
558 568 3.564225 AGTAAACTGGTGCACTTTACAGC 59.436 43.478 27.97 12.49 34.24 4.40
605 615 7.201920 GCTTCTTCTGGGTGATATCTAGTAACA 60.202 40.741 3.98 0.00 0.00 2.41
608 618 6.491745 CAGCTTCTTCTGGGTGATATCTAGTA 59.508 42.308 3.98 0.00 33.41 1.82
796 806 1.204146 GGGAATGTGCTGGACTCCTA 58.796 55.000 7.37 0.00 0.00 2.94
802 812 0.325933 CAGTCAGGGAATGTGCTGGA 59.674 55.000 0.00 0.00 32.94 3.86
877 891 1.152118 TGTGGTGTGGTAGGAGCCT 60.152 57.895 0.00 0.00 0.00 4.58
966 987 8.028540 TGTTATGATGCAACTGTGTAAACTAG 57.971 34.615 0.00 0.00 0.00 2.57
989 1010 1.949525 GAATGGCCATTGCTACGATGT 59.050 47.619 35.31 7.39 37.74 3.06
1087 1108 1.699054 TTCACCTGCAGCAGAGTGGT 61.699 55.000 29.06 17.64 35.20 4.16
1153 1174 0.252479 CAGGAGCAGACATCAGCCTT 59.748 55.000 0.00 0.00 0.00 4.35
1193 1214 1.133181 TGTCACAATGCCCTCTCCCA 61.133 55.000 0.00 0.00 0.00 4.37
1278 1299 2.224523 GGACAGGTCAATGAACTCCACA 60.225 50.000 0.00 0.00 0.00 4.17
1296 1317 1.889530 CGGTGAGGGAGTTGGAGGAC 61.890 65.000 0.00 0.00 0.00 3.85
1327 1348 3.574445 CAGCATGCCGAGCTCTGC 61.574 66.667 21.87 21.87 41.14 4.26
1461 1482 1.299468 GAGCTGCGGTGGTATCTCG 60.299 63.158 0.00 0.00 0.00 4.04
1567 1588 2.333417 CCAAGACCAGCTGCTGCAG 61.333 63.158 24.80 24.80 42.74 4.41
1776 1797 2.171448 GTTGAGGTATGTCAGGCTGGAT 59.829 50.000 15.73 9.72 0.00 3.41
1812 1833 4.864334 GGGATGGCGCCTGTCAGG 62.864 72.222 29.70 15.15 38.80 3.86
1944 1965 5.352569 GGTACCATCAAGAACATTGTCAGAG 59.647 44.000 7.15 0.00 0.00 3.35
1989 2010 1.004560 CTCCAAGCTCGAGTTGCCA 60.005 57.895 15.13 6.03 0.00 4.92
2034 2055 1.153086 CCCCTCGATGCCTCCTTTG 60.153 63.158 0.00 0.00 0.00 2.77
2035 2056 3.049080 GCCCCTCGATGCCTCCTTT 62.049 63.158 0.00 0.00 0.00 3.11
2109 2130 2.022195 TCGATCTCCGACGGAATCTTT 58.978 47.619 18.93 0.71 43.23 2.52
2134 2155 2.240493 AGGTTGACAAGGTTCGACAG 57.760 50.000 0.00 0.00 32.13 3.51
2347 2368 0.106708 TCTTCCAAGCTCGTGCAGTT 59.893 50.000 12.58 0.00 42.74 3.16
2364 2385 0.832135 TGCCGAAGAAGTCCACCTCT 60.832 55.000 0.00 0.00 0.00 3.69
2460 2481 2.190578 GGGATTGAGCCGGACAGG 59.809 66.667 5.05 0.00 44.97 4.00
2461 2482 1.153289 CTGGGATTGAGCCGGACAG 60.153 63.158 5.05 0.00 0.00 3.51
2484 2505 2.586245 CGCCTGCATTCCCTGAGA 59.414 61.111 0.00 0.00 0.00 3.27
2488 2509 4.809496 CAGCCGCCTGCATTCCCT 62.809 66.667 0.00 0.00 44.83 4.20
2622 2643 0.664466 TCAGCTCGAACAGTGCTTCG 60.664 55.000 16.68 16.68 46.35 3.79
2760 2781 2.335011 CGTGTCACTGCTGTCGGA 59.665 61.111 0.65 0.00 0.00 4.55
2769 2790 1.105167 TGTTCCTCGACCGTGTCACT 61.105 55.000 0.65 0.00 32.09 3.41
2772 2793 0.736325 CCATGTTCCTCGACCGTGTC 60.736 60.000 0.00 0.00 0.00 3.67
2808 2829 2.819595 CCGGTGAGATGGTTGCCG 60.820 66.667 0.00 0.00 41.82 5.69
2816 2837 1.224592 GGGATTGCACCGGTGAGAT 59.775 57.895 38.30 27.72 0.00 2.75
2849 2870 0.390866 CATCTTGAGCTGCGTCAGGT 60.391 55.000 10.57 10.57 45.28 4.00
2907 2928 1.449246 GCAGTTGGAGAGCTGCGAT 60.449 57.895 0.00 0.00 46.67 4.58
2908 2929 2.047844 GCAGTTGGAGAGCTGCGA 60.048 61.111 0.00 0.00 46.67 5.10
3006 3027 4.647825 GAGAGGTCGAGCTCTCCA 57.352 61.111 43.79 0.00 39.96 3.86
3045 3066 2.198287 GCCGAGCTCCACCGGTATA 61.198 63.158 6.87 0.00 46.84 1.47
3069 3090 0.681733 ACAGCTTGAGAAGGCTCGAA 59.318 50.000 0.00 0.00 44.33 3.71
3132 3153 2.120718 AGGGACGTGAGCCTTCCT 59.879 61.111 0.00 0.00 0.00 3.36
3147 3168 2.480419 CTGCAGGTTTAGAACGTTCAGG 59.520 50.000 28.78 11.22 37.05 3.86
3159 3180 3.118261 TGAGACTGTTCTTCTGCAGGTTT 60.118 43.478 15.13 0.00 37.07 3.27
3187 3208 1.153429 GGAGTGTGGGCGGTATGAC 60.153 63.158 0.00 0.00 0.00 3.06
3208 3229 2.983229 CTCATAGAGCTTGTTGCACCT 58.017 47.619 0.00 0.00 45.94 4.00
3231 3252 2.507324 GAGTTCTCCGACAGGCGC 60.507 66.667 0.00 0.00 39.11 6.53
3317 3338 1.821061 CTGTCCGGTCAGCCTGTTCT 61.821 60.000 15.77 0.00 0.00 3.01
3478 3499 0.031178 GATAACACGGCGGGTATCGT 59.969 55.000 18.27 1.15 41.72 3.73
3486 3507 1.480219 GGAAGCTCGATAACACGGCG 61.480 60.000 4.80 4.80 35.71 6.46
3490 3511 1.152383 GCCGGGAAGCTCGATAACAC 61.152 60.000 2.18 0.00 0.00 3.32
3493 3514 2.819550 GGCCGGGAAGCTCGATAA 59.180 61.111 2.18 0.00 0.00 1.75
3522 3543 1.956170 ACAGAGCTCGTTGTTGCCG 60.956 57.895 8.37 0.00 0.00 5.69
3681 3702 2.203182 ACCGACACCTCCCTCCAA 59.797 61.111 0.00 0.00 0.00 3.53
3732 3753 2.523902 CACTTGCCCCCTTTGCCA 60.524 61.111 0.00 0.00 0.00 4.92
4019 4042 8.061268 CCCACGAACAAAATTTAAAACATGAAG 58.939 33.333 0.00 0.00 0.00 3.02
4494 4518 7.380602 GGTTGTGTGTATCCGTAATGTCTATAC 59.619 40.741 0.00 0.00 0.00 1.47
4511 4535 4.398044 CCTTTCTGTTGTAAGGTTGTGTGT 59.602 41.667 0.00 0.00 36.40 3.72
4602 4626 3.432051 GACTCCGCGTGCTGCCTAT 62.432 63.158 4.92 0.00 42.08 2.57
4764 4788 3.978672 ACCCTCCAGTACTACAAACCTTT 59.021 43.478 0.00 0.00 0.00 3.11
4803 4827 2.882761 GGAAACTCTACCACCAAACCAC 59.117 50.000 0.00 0.00 0.00 4.16
4810 4834 3.323979 TCTCAACAGGAAACTCTACCACC 59.676 47.826 0.00 0.00 40.21 4.61
4839 4866 8.706492 TGACAAAATTGCTTCATAATCCATTC 57.294 30.769 0.00 0.00 0.00 2.67


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

AutoCloner maintained by Alex Coulton.