Multiple sequence alignment - TraesCS7B01G142500

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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 TraesCS7B01G142500 chr7B 100.000 5585 0 0 1 5585 181687245 181681661 0.000000e+00 10314.0
1 TraesCS7B01G142500 chr7B 79.874 318 49 10 152 460 126831956 126832267 9.420000e-53 219.0
2 TraesCS7B01G142500 chr7B 100.000 29 0 0 3188 3216 48962703 48962731 3.000000e-03 54.7
3 TraesCS7B01G142500 chr7D 95.571 4561 138 31 136 4655 217996331 218000868 0.000000e+00 7245.0
4 TraesCS7B01G142500 chr7D 91.216 888 35 19 4712 5585 218000876 218001734 0.000000e+00 1168.0
5 TraesCS7B01G142500 chr7D 93.548 155 9 1 1 154 217996053 217996207 4.350000e-56 230.0
6 TraesCS7B01G142500 chr7A 94.452 2091 80 14 600 2681 230862288 230864351 0.000000e+00 3186.0
7 TraesCS7B01G142500 chr7A 90.399 1552 75 31 4001 5520 230865605 230867114 0.000000e+00 1973.0
8 TraesCS7B01G142500 chr7A 95.000 820 32 7 3210 4027 230864762 230865574 0.000000e+00 1279.0
9 TraesCS7B01G142500 chr7A 87.061 456 27 10 2698 3148 230864335 230864763 2.340000e-133 486.0
10 TraesCS7B01G142500 chr7A 85.135 444 33 16 168 609 230861581 230861993 1.860000e-114 424.0
11 TraesCS7B01G142500 chr7A 92.903 155 10 1 1 154 230861220 230861374 2.020000e-54 224.0
12 TraesCS7B01G142500 chr5D 83.529 850 113 12 1071 1896 379572573 379573419 0.000000e+00 769.0
13 TraesCS7B01G142500 chr5D 85.876 177 25 0 2177 2353 379573612 379573788 7.390000e-44 189.0
14 TraesCS7B01G142500 chr5B 83.294 844 120 11 1071 1896 455506063 455506903 0.000000e+00 758.0
15 TraesCS7B01G142500 chr5B 85.311 177 26 0 2177 2353 455507101 455507277 3.440000e-42 183.0
16 TraesCS7B01G142500 chr5A 83.235 847 118 13 1071 1896 480172784 480173627 0.000000e+00 756.0
17 TraesCS7B01G142500 chr5A 85.311 177 26 0 2177 2353 480173815 480173991 3.440000e-42 183.0
18 TraesCS7B01G142500 chr2D 82.121 330 44 13 150 470 575353808 575353485 9.220000e-68 268.0
19 TraesCS7B01G142500 chr2D 81.041 269 44 6 149 412 298839676 298839410 2.040000e-49 207.0
20 TraesCS7B01G142500 chr3D 81.188 303 45 11 152 446 403330261 403330559 3.360000e-57 233.0
21 TraesCS7B01G142500 chr3D 91.667 60 5 0 415 474 22918094 22918035 3.590000e-12 84.2
22 TraesCS7B01G142500 chr3D 94.595 37 2 0 434 470 611005082 611005118 2.170000e-04 58.4
23 TraesCS7B01G142500 chr3B 80.731 301 48 10 154 446 529725472 529725770 5.630000e-55 226.0
24 TraesCS7B01G142500 chr6A 84.507 213 30 3 149 358 34032252 34032040 2.040000e-49 207.0
25 TraesCS7B01G142500 chr2A 79.926 269 47 7 149 412 372373492 372373226 2.050000e-44 191.0
26 TraesCS7B01G142500 chr4D 80.992 242 41 5 153 391 116786229 116785990 2.660000e-43 187.0
27 TraesCS7B01G142500 chr6B 78.176 307 52 14 173 469 89197835 89198136 1.240000e-41 182.0
28 TraesCS7B01G142500 chr6B 94.737 38 2 0 3177 3214 717877013 717877050 6.040000e-05 60.2
29 TraesCS7B01G142500 chr2B 78.967 271 51 5 146 412 363485143 363485411 4.450000e-41 180.0
30 TraesCS7B01G142500 chr6D 75.841 327 68 10 149 469 38279750 38280071 7.490000e-34 156.0


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 TraesCS7B01G142500 chr7B 181681661 181687245 5584 True 10314.0 10314 100.0000 1 5585 1 chr7B.!!$R1 5584
1 TraesCS7B01G142500 chr7D 217996053 218001734 5681 False 2881.0 7245 93.4450 1 5585 3 chr7D.!!$F1 5584
2 TraesCS7B01G142500 chr7A 230861220 230867114 5894 False 1262.0 3186 90.8250 1 5520 6 chr7A.!!$F1 5519
3 TraesCS7B01G142500 chr5D 379572573 379573788 1215 False 479.0 769 84.7025 1071 2353 2 chr5D.!!$F1 1282
4 TraesCS7B01G142500 chr5B 455506063 455507277 1214 False 470.5 758 84.3025 1071 2353 2 chr5B.!!$F1 1282
5 TraesCS7B01G142500 chr5A 480172784 480173991 1207 False 469.5 756 84.2730 1071 2353 2 chr5A.!!$F1 1282

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
444 642 1.153489 CACCGTGGGAGCAGATGAG 60.153 63.158 0.00 0.0 0.0 2.90 F
1224 1730 1.095600 TCGACCTCACCGAGATTCTG 58.904 55.000 0.00 0.0 0.0 3.02 F
2604 3168 2.100087 TGGCGCACTACTGAATTATCGA 59.900 45.455 10.83 0.0 0.0 3.59 F
3566 4140 1.561076 ACAGCCATCTTCATAGCCACA 59.439 47.619 0.00 0.0 0.0 4.17 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1393 1926 0.391130 TCGGGCATTTTCTCGGACAG 60.391 55.000 0.0 0.0 0.0 3.51 R
3095 3664 2.649816 ACTAGGCTGTTTTCCCCTCATT 59.350 45.455 0.0 0.0 0.0 2.57 R
4324 4986 1.290955 CTGTGCCCACCTGCATTTG 59.709 57.895 0.0 0.0 44.3 2.32 R
5393 6073 0.176449 CGATCTCAGGTCCATGTGCA 59.824 55.000 0.0 0.0 0.0 4.57 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
178 374 4.320546 TTCATGGAGGATGATTTGGTGT 57.679 40.909 0.00 0.00 40.92 4.16
192 388 2.574955 GGTGTGTGAGGTCCGCTCT 61.575 63.158 0.00 0.00 0.00 4.09
212 408 7.255381 CCGCTCTAAAATTCAGATCATTTGGAT 60.255 37.037 0.00 0.00 39.53 3.41
228 424 7.766283 TCATTTGGATATATGAGTAGCTCTCG 58.234 38.462 0.00 0.00 45.46 4.04
262 459 4.696479 ATTGGGTTAGAGCAGTAGATGG 57.304 45.455 0.00 0.00 0.00 3.51
284 481 7.681939 TGGACAGTTAACTTTTCACATATCC 57.318 36.000 5.07 3.17 0.00 2.59
332 529 5.638657 GCTACTCAGATATCCAAATGAGCTG 59.361 44.000 15.91 11.34 42.33 4.24
351 548 3.808728 CTGAAGTTTGAAGTGGACCTCA 58.191 45.455 0.00 0.00 0.00 3.86
359 556 4.779475 GTGGACCTCACACACCTG 57.221 61.111 0.00 0.00 45.39 4.00
376 573 1.202371 CCTGCGCATCTTTCATGCAAT 60.202 47.619 12.24 0.00 44.75 3.56
405 602 6.419980 TGGATTTTTGTTTGCACTTTTCTG 57.580 33.333 0.00 0.00 0.00 3.02
412 609 9.818796 TTTTTGTTTGCACTTTTCTGTTATTTC 57.181 25.926 0.00 0.00 0.00 2.17
413 610 8.539770 TTTGTTTGCACTTTTCTGTTATTTCA 57.460 26.923 0.00 0.00 0.00 2.69
414 611 7.754069 TGTTTGCACTTTTCTGTTATTTCAG 57.246 32.000 0.00 0.00 36.85 3.02
430 628 7.540400 TGTTATTTCAGAATTTATTGTGCACCG 59.460 33.333 15.69 0.00 31.75 4.94
432 630 4.418013 TCAGAATTTATTGTGCACCGTG 57.582 40.909 15.69 0.00 31.75 4.94
444 642 1.153489 CACCGTGGGAGCAGATGAG 60.153 63.158 0.00 0.00 0.00 2.90
465 663 2.907407 GGGAGCCAAATAGCCGCC 60.907 66.667 0.00 0.00 0.00 6.13
481 679 1.586154 CGCCCTCGGTTTGAAGCAAT 61.586 55.000 0.00 0.00 0.00 3.56
573 771 5.297569 ACAACTTAGAAGCCCATATCTCC 57.702 43.478 0.00 0.00 0.00 3.71
643 1146 8.774586 CCAGATTTTACTCGTATTATTTCTGGG 58.225 37.037 0.00 0.00 41.68 4.45
682 1185 1.382163 GCGTGTCACGTAGCAAAAAC 58.618 50.000 25.18 2.87 44.73 2.43
857 1360 1.371183 GCCACTGCCACTGACACTA 59.629 57.895 0.00 0.00 0.00 2.74
1224 1730 1.095600 TCGACCTCACCGAGATTCTG 58.904 55.000 0.00 0.00 0.00 3.02
1230 1736 2.169352 CCTCACCGAGATTCTGTCCATT 59.831 50.000 0.00 0.00 0.00 3.16
1632 2165 2.363925 GGGTACGTCCAGCTCCCT 60.364 66.667 0.00 0.00 38.11 4.20
2032 2584 9.169468 GTCACGTGCCTAAATCAATATTAATTG 57.831 33.333 11.67 0.00 43.32 2.32
2108 2669 6.500684 ACGAGCATCACTGTCAAATATTTT 57.499 33.333 0.00 0.00 33.17 1.82
2111 2672 7.022979 CGAGCATCACTGTCAAATATTTTTCA 58.977 34.615 0.00 0.44 33.17 2.69
2402 2966 4.626042 AGCTGAACTACTTCACTTGAGTG 58.374 43.478 4.77 4.77 46.91 3.51
2419 2983 3.374367 TGAGTGACCTAATCTTCTCGTCG 59.626 47.826 0.00 0.00 34.20 5.12
2604 3168 2.100087 TGGCGCACTACTGAATTATCGA 59.900 45.455 10.83 0.00 0.00 3.59
2617 3181 7.492524 ACTGAATTATCGAGTTGAGCTTATGA 58.507 34.615 0.00 0.00 0.00 2.15
3080 3649 3.616219 TCATTTTGATAGTGGAACCCGG 58.384 45.455 0.00 0.00 37.80 5.73
3135 3704 7.769507 AGCCTAGTCATCTTGCATATCATATTG 59.230 37.037 0.00 0.00 0.00 1.90
3173 3742 4.192317 CCTCCCTTCCAGAATACTTTTCG 58.808 47.826 0.00 0.00 0.00 3.46
3566 4140 1.561076 ACAGCCATCTTCATAGCCACA 59.439 47.619 0.00 0.00 0.00 4.17
3703 4277 8.874816 ACGCAACTGTATTGTTTTTATTTGTTT 58.125 25.926 0.00 0.00 0.00 2.83
3823 4397 4.964262 ACGTAACTTATGGTCCCTAATGGA 59.036 41.667 0.00 0.00 42.41 3.41
4157 4808 4.905429 TGTTGTCTTGAGCAGGCTAATTA 58.095 39.130 0.00 0.00 0.00 1.40
4324 4986 7.007367 CGACATGTTGTGATTGTTATTTACTGC 59.993 37.037 0.00 0.00 0.00 4.40
4374 5036 0.946221 CTCAGTTGGCGTCACAGTCC 60.946 60.000 0.00 0.00 0.00 3.85
4551 5213 3.265791 GAAGTACAACAGATCCAGCAGG 58.734 50.000 0.00 0.00 0.00 4.85
4578 5240 1.162800 CCAAGGCCGCATCTCTAAGC 61.163 60.000 0.00 0.00 0.00 3.09
4621 5287 0.598065 AGCGCAAGAAACCAATGGAC 59.402 50.000 11.47 0.00 43.02 4.02
4626 5292 4.057432 CGCAAGAAACCAATGGACAAATT 58.943 39.130 6.16 0.00 43.02 1.82
4627 5293 4.150451 CGCAAGAAACCAATGGACAAATTC 59.850 41.667 6.16 2.63 43.02 2.17
4655 5321 3.561725 GTGGCTTGATTCTACATACAGGC 59.438 47.826 0.00 0.00 35.25 4.85
4657 5323 4.080356 TGGCTTGATTCTACATACAGGCTT 60.080 41.667 0.00 0.00 36.04 4.35
4658 5324 4.274459 GGCTTGATTCTACATACAGGCTTG 59.726 45.833 0.00 0.00 36.04 4.01
4665 5331 0.777446 ACATACAGGCTTGGTTGGGT 59.223 50.000 0.00 0.00 0.00 4.51
4672 5338 0.178990 GGCTTGGTTGGGTCTTGTCT 60.179 55.000 0.00 0.00 0.00 3.41
4700 5366 8.328864 CCTTAAGACGCAATTAAAGTACTCATC 58.671 37.037 3.36 0.00 0.00 2.92
4704 5370 4.032900 ACGCAATTAAAGTACTCATCAGCG 59.967 41.667 19.82 19.82 44.98 5.18
4771 5437 2.676471 ATGCTGGCCGGTGTTTCC 60.676 61.111 14.55 0.00 0.00 3.13
4790 5456 2.007641 GTCGTCGTTCTTCGCGTGT 61.008 57.895 5.77 0.00 38.99 4.49
4814 5483 1.592669 CTGGCATCATCGTCGGACC 60.593 63.158 1.91 0.00 0.00 4.46
4815 5484 2.021068 CTGGCATCATCGTCGGACCT 62.021 60.000 1.91 0.00 0.00 3.85
4817 5486 1.437573 GCATCATCGTCGGACCTCA 59.562 57.895 1.91 0.00 0.00 3.86
4818 5487 0.596083 GCATCATCGTCGGACCTCAG 60.596 60.000 1.91 0.00 0.00 3.35
4819 5488 1.025041 CATCATCGTCGGACCTCAGA 58.975 55.000 1.91 0.00 0.00 3.27
4820 5489 1.025812 ATCATCGTCGGACCTCAGAC 58.974 55.000 1.91 0.00 37.64 3.51
4824 5493 4.131088 GTCGGACCTCAGACGCCC 62.131 72.222 0.00 0.00 31.96 6.13
4857 5526 4.041321 ACCGGAGAAGCTAACCTTTTTAGT 59.959 41.667 9.46 0.00 32.78 2.24
4871 5540 7.404671 ACCTTTTTAGTCTGTTTGTGTTCAT 57.595 32.000 0.00 0.00 0.00 2.57
4872 5541 8.514330 ACCTTTTTAGTCTGTTTGTGTTCATA 57.486 30.769 0.00 0.00 0.00 2.15
4882 5551 7.750903 GTCTGTTTGTGTTCATATAAGGCTTTC 59.249 37.037 4.45 0.00 0.00 2.62
4890 5559 4.792068 TCATATAAGGCTTTCTGGTTGGG 58.208 43.478 4.45 0.00 0.00 4.12
4892 5561 3.542969 ATAAGGCTTTCTGGTTGGGTT 57.457 42.857 4.45 0.00 0.00 4.11
4897 5566 2.312390 GCTTTCTGGTTGGGTTGGTTA 58.688 47.619 0.00 0.00 0.00 2.85
4931 5605 4.993705 AGTGTGGGGATCTTTTTGTAGA 57.006 40.909 0.00 0.00 0.00 2.59
4992 5666 4.161565 CCAGCCTTGTAGTGGTATCTGTTA 59.838 45.833 0.00 0.00 0.00 2.41
4997 5671 5.410355 TTGTAGTGGTATCTGTTACACCC 57.590 43.478 0.00 0.00 31.99 4.61
5021 5695 4.729227 TTGTTTGGTCCTTTTTCCTGTC 57.271 40.909 0.00 0.00 0.00 3.51
5066 5742 4.750098 AGTTGGTGACGTGATTGTAGAAAG 59.250 41.667 0.00 0.00 0.00 2.62
5067 5743 4.594123 TGGTGACGTGATTGTAGAAAGA 57.406 40.909 0.00 0.00 0.00 2.52
5254 5930 0.673437 AGGTTTGTTGCATGAACCGG 59.327 50.000 16.17 0.00 45.77 5.28
5265 5941 2.436417 CATGAACCGGTGGACATCTTT 58.564 47.619 8.52 0.00 0.00 2.52
5266 5942 2.649531 TGAACCGGTGGACATCTTTT 57.350 45.000 8.52 0.00 0.00 2.27
5282 5958 9.036671 GGACATCTTTTAGTAGTAGCAATCTTC 57.963 37.037 0.00 0.00 0.00 2.87
5313 5989 2.166821 AATCTGGATCTGCGATCTGC 57.833 50.000 15.02 3.07 46.70 4.26
5393 6073 4.286320 GCGATCGGATCCGGCACT 62.286 66.667 32.79 15.76 40.25 4.40
5455 6141 4.715523 TGTGCCCGGCCTAAGTGC 62.716 66.667 7.03 0.00 0.00 4.40
5460 6146 2.047655 CCGGCCTAAGTGCGTCAA 60.048 61.111 0.00 0.00 0.00 3.18
5481 6167 1.955458 AACACCCAGGCTCCCCAAAA 61.955 55.000 0.00 0.00 0.00 2.44
5504 6190 3.502920 CTCCATATACGCTCGGATTGAC 58.497 50.000 0.00 0.00 0.00 3.18
5505 6191 2.095415 TCCATATACGCTCGGATTGACG 60.095 50.000 0.00 0.00 0.00 4.35
5506 6192 2.251040 CATATACGCTCGGATTGACGG 58.749 52.381 0.00 0.00 0.00 4.79
5507 6193 0.039798 TATACGCTCGGATTGACGGC 60.040 55.000 0.00 0.00 0.00 5.68
5508 6194 1.735376 ATACGCTCGGATTGACGGCT 61.735 55.000 0.00 0.00 0.00 5.52
5509 6195 1.940883 TACGCTCGGATTGACGGCTT 61.941 55.000 0.00 0.00 0.00 4.35
5510 6196 2.802667 CGCTCGGATTGACGGCTTG 61.803 63.158 0.00 0.00 0.00 4.01
5511 6197 2.464459 GCTCGGATTGACGGCTTGG 61.464 63.158 0.00 0.00 0.00 3.61
5512 6198 1.079127 CTCGGATTGACGGCTTGGT 60.079 57.895 0.00 0.00 0.00 3.67
5513 6199 1.079405 TCGGATTGACGGCTTGGTC 60.079 57.895 0.00 0.00 37.45 4.02
5514 6200 2.452813 CGGATTGACGGCTTGGTCG 61.453 63.158 0.00 0.00 39.83 4.79
5515 6201 2.106683 GGATTGACGGCTTGGTCGG 61.107 63.158 0.00 0.00 39.83 4.79
5516 6202 1.375523 GATTGACGGCTTGGTCGGT 60.376 57.895 0.00 0.00 39.83 4.69
5533 6219 1.810030 GTGACGGACGGCTTGATCC 60.810 63.158 0.00 0.00 0.00 3.36
5535 6221 3.735037 GACGGACGGCTTGATCCCC 62.735 68.421 0.00 0.00 0.00 4.81
5536 6222 3.781307 CGGACGGCTTGATCCCCA 61.781 66.667 0.00 0.00 0.00 4.96
5538 6224 1.227383 GGACGGCTTGATCCCCAAT 59.773 57.895 0.00 0.00 33.68 3.16
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
10 11 5.767816 AAATTCACGGTCAAACTTTAGCT 57.232 34.783 0.00 0.00 0.00 3.32
158 319 3.010472 ACACACCAAATCATCCTCCATGA 59.990 43.478 0.00 0.00 46.01 3.07
178 374 3.007506 TGAATTTTAGAGCGGACCTCACA 59.992 43.478 0.00 0.00 43.31 3.58
248 445 6.188407 AGTTAACTGTCCATCTACTGCTCTA 58.812 40.000 7.48 0.00 0.00 2.43
332 529 3.312697 GTGTGAGGTCCACTTCAAACTTC 59.687 47.826 5.15 0.00 45.86 3.01
351 548 0.534877 TGAAAGATGCGCAGGTGTGT 60.535 50.000 18.32 0.00 0.00 3.72
391 588 7.985634 TCTGAAATAACAGAAAAGTGCAAAC 57.014 32.000 0.00 0.00 42.79 2.93
405 602 7.540745 ACGGTGCACAATAAATTCTGAAATAAC 59.459 33.333 20.43 0.00 0.00 1.89
412 609 3.500982 CCACGGTGCACAATAAATTCTG 58.499 45.455 20.43 0.00 0.00 3.02
413 610 2.491693 CCCACGGTGCACAATAAATTCT 59.508 45.455 20.43 0.00 0.00 2.40
414 611 2.490115 TCCCACGGTGCACAATAAATTC 59.510 45.455 20.43 0.00 0.00 2.17
425 623 2.821366 CATCTGCTCCCACGGTGC 60.821 66.667 1.68 0.00 41.88 5.01
447 645 3.279875 GCGGCTATTTGGCTCCCG 61.280 66.667 0.00 0.00 41.72 5.14
531 729 3.835978 TGTTGAAGGAAAGGACCTCGATA 59.164 43.478 0.00 0.00 39.62 2.92
638 1140 2.989639 CCAACTGCGGATCCCAGA 59.010 61.111 27.34 4.85 34.47 3.86
857 1360 1.182667 GCCTCGGCCTTTTTATTGGT 58.817 50.000 0.00 0.00 34.56 3.67
1224 1730 1.693083 CGACGAGGCCGAAAATGGAC 61.693 60.000 0.00 0.00 39.50 4.02
1393 1926 0.391130 TCGGGCATTTTCTCGGACAG 60.391 55.000 0.00 0.00 0.00 3.51
1396 1929 1.220749 CCTCGGGCATTTTCTCGGA 59.779 57.895 0.00 0.00 0.00 4.55
2108 2669 6.018588 CCGTGTTGTGTTCTACTACAAATGAA 60.019 38.462 0.00 0.00 44.47 2.57
2111 2672 5.362263 ACCGTGTTGTGTTCTACTACAAAT 58.638 37.500 0.00 0.00 44.47 2.32
2130 2693 4.942761 TTTCCAGACAGTTAGTTACCGT 57.057 40.909 0.00 0.00 0.00 4.83
2208 2771 3.411517 AGGTTCCTCCCGGCCATG 61.412 66.667 2.24 0.00 36.75 3.66
2402 2966 4.036498 TCATTCCGACGAGAAGATTAGGTC 59.964 45.833 0.00 0.00 0.00 3.85
2604 3168 6.886459 ACCATATGTTGTTCATAAGCTCAACT 59.114 34.615 13.07 4.13 41.57 3.16
2617 3181 4.282957 TGCCAATGTTCACCATATGTTGTT 59.717 37.500 1.24 0.00 31.97 2.83
2704 3268 5.629133 GCCAAGTTGGATCAGTGGTAATCTA 60.629 44.000 26.52 0.00 40.96 1.98
3095 3664 2.649816 ACTAGGCTGTTTTCCCCTCATT 59.350 45.455 0.00 0.00 0.00 2.57
3135 3704 4.112331 AGGGAGGGAGTAATATATTGCCC 58.888 47.826 18.23 18.23 35.79 5.36
3173 3742 9.589111 TTCCAAAATACTTTGAACTAAAACCAC 57.411 29.630 0.00 0.00 44.03 4.16
3291 3864 8.807948 ACCGAATGATAATAATTAGATTGGGG 57.192 34.615 0.00 0.00 0.00 4.96
3566 4140 1.792757 TTTGTGCAGGATCCTGGCCT 61.793 55.000 36.92 4.06 43.77 5.19
3678 4252 9.695884 AAAACAAATAAAAACAATACAGTTGCG 57.304 25.926 0.00 0.00 0.00 4.85
3703 4277 4.436113 TGCCTGGATATGCTGATAACAA 57.564 40.909 0.00 0.00 0.00 2.83
3713 4287 2.578786 TCAGCACAATGCCTGGATATG 58.421 47.619 0.00 0.00 46.52 1.78
3836 4410 6.929049 ACATGTATAAGGATGTGGACGTATTG 59.071 38.462 0.00 0.00 31.47 1.90
4157 4808 5.078411 AGCACAAGACTGAATAATCGACT 57.922 39.130 0.00 0.00 0.00 4.18
4324 4986 1.290955 CTGTGCCCACCTGCATTTG 59.709 57.895 0.00 0.00 44.30 2.32
4578 5240 2.094286 AGCTCGTGGAGTCAATCAAGAG 60.094 50.000 6.50 6.50 40.64 2.85
4605 5271 5.055812 TGAATTTGTCCATTGGTTTCTTGC 58.944 37.500 1.86 0.00 0.00 4.01
4621 5287 4.778534 ATCAAGCCACACTCTGAATTTG 57.221 40.909 0.00 0.00 0.00 2.32
4626 5292 3.578282 TGTAGAATCAAGCCACACTCTGA 59.422 43.478 0.00 0.00 0.00 3.27
4627 5293 3.930336 TGTAGAATCAAGCCACACTCTG 58.070 45.455 0.00 0.00 0.00 3.35
4655 5321 2.158608 AGGAAGACAAGACCCAACCAAG 60.159 50.000 0.00 0.00 0.00 3.61
4657 5323 1.518367 AGGAAGACAAGACCCAACCA 58.482 50.000 0.00 0.00 0.00 3.67
4658 5324 2.658807 AAGGAAGACAAGACCCAACC 57.341 50.000 0.00 0.00 0.00 3.77
4672 5338 7.874016 TGAGTACTTTAATTGCGTCTTAAGGAA 59.126 33.333 1.85 0.00 0.00 3.36
4694 5360 0.251354 ATGGCTTGACGCTGATGAGT 59.749 50.000 0.00 0.00 39.13 3.41
4700 5366 1.133253 CGTTGATGGCTTGACGCTG 59.867 57.895 0.00 0.00 39.13 5.18
4704 5370 1.400242 GCTTGACGTTGATGGCTTGAC 60.400 52.381 0.00 0.00 0.00 3.18
4718 5384 5.057149 TGGTCAAACTCTTCTTAGCTTGAC 58.943 41.667 10.27 10.27 0.00 3.18
4771 5437 2.794166 ACGCGAAGAACGACGACG 60.794 61.111 15.93 5.58 45.77 5.12
4826 5495 4.785453 CTTCTCCGGTGCCTGCCC 62.785 72.222 0.00 0.00 0.00 5.36
4828 5497 2.521958 TTAGCTTCTCCGGTGCCTGC 62.522 60.000 0.00 4.26 0.00 4.85
4829 5498 0.741221 GTTAGCTTCTCCGGTGCCTG 60.741 60.000 0.00 0.00 0.00 4.85
4830 5499 1.597461 GTTAGCTTCTCCGGTGCCT 59.403 57.895 0.00 0.00 0.00 4.75
4857 5526 7.665559 AGAAAGCCTTATATGAACACAAACAGA 59.334 33.333 0.00 0.00 0.00 3.41
4871 5540 4.340617 CAACCCAACCAGAAAGCCTTATA 58.659 43.478 0.00 0.00 0.00 0.98
4872 5541 3.165071 CAACCCAACCAGAAAGCCTTAT 58.835 45.455 0.00 0.00 0.00 1.73
4882 5551 1.960689 CCAAGTAACCAACCCAACCAG 59.039 52.381 0.00 0.00 0.00 4.00
4890 5559 2.127003 GCGCGCCAAGTAACCAAC 60.127 61.111 23.24 0.00 0.00 3.77
4892 5561 2.123988 CTTTGCGCGCCAAGTAACCA 62.124 55.000 30.57 7.32 34.34 3.67
4897 5566 3.209097 ACACTTTGCGCGCCAAGT 61.209 55.556 36.30 36.30 34.34 3.16
4992 5666 2.543037 AGGACCAAACAAAAGGGTGT 57.457 45.000 0.00 0.00 34.39 4.16
4997 5671 5.487433 ACAGGAAAAAGGACCAAACAAAAG 58.513 37.500 0.00 0.00 0.00 2.27
5021 5695 2.863739 TCGACATTGTTCGACTAGCAG 58.136 47.619 7.08 0.00 43.01 4.24
5066 5742 2.105128 CGCCGAGACCCACATCTC 59.895 66.667 0.00 0.00 41.57 2.75
5067 5743 3.461773 CCGCCGAGACCCACATCT 61.462 66.667 0.00 0.00 0.00 2.90
5254 5930 7.982354 AGATTGCTACTACTAAAAGATGTCCAC 59.018 37.037 0.00 0.00 0.00 4.02
5265 5941 8.914011 TGCTAAGATGAAGATTGCTACTACTAA 58.086 33.333 0.00 0.00 0.00 2.24
5266 5942 8.465273 TGCTAAGATGAAGATTGCTACTACTA 57.535 34.615 0.00 0.00 0.00 1.82
5313 5989 4.471904 TTACTACTCAGAGGTGCCAATG 57.528 45.455 1.53 0.00 0.00 2.82
5393 6073 0.176449 CGATCTCAGGTCCATGTGCA 59.824 55.000 0.00 0.00 0.00 4.57
5455 6141 1.507141 GAGCCTGGGTGTTGTTGACG 61.507 60.000 1.59 0.00 0.00 4.35
5456 6142 1.172812 GGAGCCTGGGTGTTGTTGAC 61.173 60.000 1.59 0.00 0.00 3.18
5457 6143 1.150536 GGAGCCTGGGTGTTGTTGA 59.849 57.895 1.59 0.00 0.00 3.18
5460 6146 3.580319 GGGGAGCCTGGGTGTTGT 61.580 66.667 1.59 0.00 0.00 3.32
5481 6167 2.217510 ATCCGAGCGTATATGGAGGT 57.782 50.000 0.00 0.00 33.21 3.85
5505 6191 3.998672 TCCGTCACCGACCAAGCC 61.999 66.667 0.00 0.00 35.63 4.35
5506 6192 2.737376 GTCCGTCACCGACCAAGC 60.737 66.667 0.00 0.00 35.63 4.01
5507 6193 2.430244 CGTCCGTCACCGACCAAG 60.430 66.667 0.00 0.00 35.63 3.61
5508 6194 3.980989 CCGTCCGTCACCGACCAA 61.981 66.667 0.00 0.00 35.63 3.67
5511 6197 4.353437 AAGCCGTCCGTCACCGAC 62.353 66.667 0.00 0.00 35.63 4.79
5512 6198 4.351938 CAAGCCGTCCGTCACCGA 62.352 66.667 0.00 0.00 35.63 4.69
5513 6199 3.642778 ATCAAGCCGTCCGTCACCG 62.643 63.158 0.00 0.00 0.00 4.94
5514 6200 1.810030 GATCAAGCCGTCCGTCACC 60.810 63.158 0.00 0.00 0.00 4.02
5515 6201 1.810030 GGATCAAGCCGTCCGTCAC 60.810 63.158 0.00 0.00 0.00 3.67
5516 6202 2.577059 GGATCAAGCCGTCCGTCA 59.423 61.111 0.00 0.00 0.00 4.35


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

AutoCloner maintained by Alex Coulton.