Multiple sequence alignment - TraesCS2D01G505900

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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 TraesCS2D01G505900 chr2D 100.000 4776 0 0 1 4776 599925179 599929954 0.000000e+00 8820
1 TraesCS2D01G505900 chr2D 88.806 2823 276 27 1063 3864 469983853 469986656 0.000000e+00 3426
2 TraesCS2D01G505900 chr2B 96.409 3732 119 8 786 4507 729766133 729769859 0.000000e+00 6135
3 TraesCS2D01G505900 chr2B 83.573 2648 338 53 1190 3777 548623928 548626538 0.000000e+00 2390
4 TraesCS2D01G505900 chr2B 88.548 1956 203 12 1158 3096 548609411 548611362 0.000000e+00 2351
5 TraesCS2D01G505900 chr2B 91.944 782 61 2 3084 3864 548619285 548620065 0.000000e+00 1094
6 TraesCS2D01G505900 chr2B 91.058 794 52 8 1 786 729765302 729766084 0.000000e+00 1055
7 TraesCS2D01G505900 chr2A 95.455 3806 124 17 998 4776 733628652 733632435 0.000000e+00 6024
8 TraesCS2D01G505900 chr2A 87.937 1575 170 11 1158 2717 611296060 611297629 0.000000e+00 1838
9 TraesCS2D01G505900 chr2A 79.504 605 66 24 4 566 733623287 733623875 1.250000e-100 377
10 TraesCS2D01G505900 chr1D 84.394 2672 326 50 1240 3864 407672550 407669923 0.000000e+00 2540
11 TraesCS2D01G505900 chr1D 82.613 2732 390 43 1177 3858 6714684 6711988 0.000000e+00 2335
12 TraesCS2D01G505900 chr5B 84.145 2668 321 57 1247 3864 13776132 13773517 0.000000e+00 2490
13 TraesCS2D01G505900 chr5B 82.977 2620 338 52 1204 3777 549547947 549550504 0.000000e+00 2268
14 TraesCS2D01G505900 chr5A 83.993 2680 324 55 1238 3864 12194227 12191600 0.000000e+00 2475
15 TraesCS2D01G505900 chr1B 83.829 2659 334 55 1247 3864 548193684 548191081 0.000000e+00 2440
16 TraesCS2D01G505900 chr1A 82.561 2718 389 48 1190 3858 8144559 8141878 0.000000e+00 2314
17 TraesCS2D01G505900 chr4B 81.781 2706 396 51 1182 3834 36635920 36633259 0.000000e+00 2176


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 TraesCS2D01G505900 chr2D 599925179 599929954 4775 False 8820 8820 100.0000 1 4776 1 chr2D.!!$F2 4775
1 TraesCS2D01G505900 chr2D 469983853 469986656 2803 False 3426 3426 88.8060 1063 3864 1 chr2D.!!$F1 2801
2 TraesCS2D01G505900 chr2B 729765302 729769859 4557 False 3595 6135 93.7335 1 4507 2 chr2B.!!$F3 4506
3 TraesCS2D01G505900 chr2B 548609411 548611362 1951 False 2351 2351 88.5480 1158 3096 1 chr2B.!!$F1 1938
4 TraesCS2D01G505900 chr2B 548619285 548626538 7253 False 1742 2390 87.7585 1190 3864 2 chr2B.!!$F2 2674
5 TraesCS2D01G505900 chr2A 733628652 733632435 3783 False 6024 6024 95.4550 998 4776 1 chr2A.!!$F3 3778
6 TraesCS2D01G505900 chr2A 611296060 611297629 1569 False 1838 1838 87.9370 1158 2717 1 chr2A.!!$F1 1559
7 TraesCS2D01G505900 chr2A 733623287 733623875 588 False 377 377 79.5040 4 566 1 chr2A.!!$F2 562
8 TraesCS2D01G505900 chr1D 407669923 407672550 2627 True 2540 2540 84.3940 1240 3864 1 chr1D.!!$R2 2624
9 TraesCS2D01G505900 chr1D 6711988 6714684 2696 True 2335 2335 82.6130 1177 3858 1 chr1D.!!$R1 2681
10 TraesCS2D01G505900 chr5B 13773517 13776132 2615 True 2490 2490 84.1450 1247 3864 1 chr5B.!!$R1 2617
11 TraesCS2D01G505900 chr5B 549547947 549550504 2557 False 2268 2268 82.9770 1204 3777 1 chr5B.!!$F1 2573
12 TraesCS2D01G505900 chr5A 12191600 12194227 2627 True 2475 2475 83.9930 1238 3864 1 chr5A.!!$R1 2626
13 TraesCS2D01G505900 chr1B 548191081 548193684 2603 True 2440 2440 83.8290 1247 3864 1 chr1B.!!$R1 2617
14 TraesCS2D01G505900 chr1A 8141878 8144559 2681 True 2314 2314 82.5610 1190 3858 1 chr1A.!!$R1 2668
15 TraesCS2D01G505900 chr4B 36633259 36635920 2661 True 2176 2176 81.7810 1182 3834 1 chr4B.!!$R1 2652

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
794 893 0.968405 TTGTTGGCTGAGCATTTCCC 59.032 50.000 6.82 0.0 0.00 3.97 F
1060 1160 0.249911 ACCTCCAAACGAGTGTGCTC 60.250 55.000 0.00 0.0 36.82 4.26 F
1286 4754 0.827368 ATCACTCGGGCTTCTCCTTC 59.173 55.000 0.00 0.0 34.39 3.46 F
1336 4813 1.829533 AGCTGCAACCAACACCCTG 60.830 57.895 1.02 0.0 0.00 4.45 F
1906 5425 2.415491 CGTTGAACTAGACATCAGCGGA 60.415 50.000 18.50 0.0 43.60 5.54 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2299 5833 1.098712 TAAACATCCAATCCCGCGGC 61.099 55.000 22.85 0.0 0.00 6.53 R
2860 6401 0.674895 CACCTCCTCCCAGCTTTTCG 60.675 60.000 0.00 0.0 0.00 3.46 R
3166 6710 1.343075 CCTCTGGCAACTCCTAGGGTA 60.343 57.143 9.46 0.0 35.97 3.69 R
3736 7292 1.087202 CAGGTTGCGCCGTTATAGCA 61.087 55.000 4.18 0.0 43.70 3.49 R
4084 7646 1.936436 GCCTGCCGCACATTTCATCA 61.936 55.000 0.00 0.0 37.47 3.07 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
43 44 7.659799 TCGAAATTCAAGTTTCCACAATCTAGA 59.340 33.333 0.00 0.00 35.23 2.43
167 172 3.127250 TGGTGCCAATATAGAAGGGGAA 58.873 45.455 0.00 0.00 0.00 3.97
227 233 7.359595 CGTGATTTATTTCCTTTGTCTGAACA 58.640 34.615 0.00 0.00 0.00 3.18
254 260 2.223377 ACGCTACAAAGGAAAAGCTTCG 59.777 45.455 0.00 0.00 32.73 3.79
374 393 3.016736 CGGGTGATTGGTTGAGCTTATT 58.983 45.455 0.00 0.00 0.00 1.40
375 394 3.181497 CGGGTGATTGGTTGAGCTTATTG 60.181 47.826 0.00 0.00 0.00 1.90
498 541 1.896465 AGGTGAGCTTGGTACTCTGAC 59.104 52.381 0.00 0.00 35.12 3.51
501 544 3.516615 GTGAGCTTGGTACTCTGACATC 58.483 50.000 0.00 0.00 35.12 3.06
502 545 3.056536 GTGAGCTTGGTACTCTGACATCA 60.057 47.826 0.00 0.00 35.12 3.07
566 610 3.769300 TGCTGGCTCTCTCTTATGTGTTA 59.231 43.478 0.00 0.00 0.00 2.41
568 612 4.367450 CTGGCTCTCTCTTATGTGTTAGC 58.633 47.826 0.00 0.00 0.00 3.09
569 613 4.026744 TGGCTCTCTCTTATGTGTTAGCT 58.973 43.478 0.00 0.00 0.00 3.32
574 618 7.206687 GCTCTCTCTTATGTGTTAGCTTACAT 58.793 38.462 9.05 11.63 40.39 2.29
575 619 7.381139 GCTCTCTCTTATGTGTTAGCTTACATC 59.619 40.741 9.05 3.96 38.41 3.06
577 621 7.561722 TCTCTCTTATGTGTTAGCTTACATCCT 59.438 37.037 9.05 0.00 38.41 3.24
578 622 8.079211 TCTCTTATGTGTTAGCTTACATCCTT 57.921 34.615 9.05 0.00 38.41 3.36
579 623 7.981789 TCTCTTATGTGTTAGCTTACATCCTTG 59.018 37.037 9.05 1.03 38.41 3.61
583 627 4.994852 TGTGTTAGCTTACATCCTTGTGAC 59.005 41.667 9.05 0.00 36.53 3.67
584 628 5.221641 TGTGTTAGCTTACATCCTTGTGACT 60.222 40.000 9.05 0.00 36.53 3.41
605 649 4.196193 CTGTGTGAGGTTGGTCTTTTGTA 58.804 43.478 0.00 0.00 0.00 2.41
615 659 7.410174 AGGTTGGTCTTTTGTATTGATATCCA 58.590 34.615 0.00 0.00 0.00 3.41
628 672 9.917129 TGTATTGATATCCATTGAATTTGCATC 57.083 29.630 0.00 0.00 0.00 3.91
641 685 9.888878 ATTGAATTTGCATCTGTAATAGATTCG 57.111 29.630 0.00 0.00 43.68 3.34
643 687 8.551205 TGAATTTGCATCTGTAATAGATTCGTC 58.449 33.333 0.00 0.00 43.68 4.20
650 694 6.185852 TCTGTAATAGATTCGTCGACACAA 57.814 37.500 17.16 7.90 0.00 3.33
692 736 9.256477 GGTTGGTTAGTAAAAAGGATCTTTTTG 57.744 33.333 21.54 0.00 34.01 2.44
748 798 7.878644 AGTGAGGTATTCTTTCTTGTTTAGGTC 59.121 37.037 0.00 0.00 0.00 3.85
794 893 0.968405 TTGTTGGCTGAGCATTTCCC 59.032 50.000 6.82 0.00 0.00 3.97
802 901 1.746615 GAGCATTTCCCAGAGCGCA 60.747 57.895 11.47 0.00 0.00 6.09
818 917 6.403636 CCAGAGCGCACTAAAATACAATTTCT 60.404 38.462 11.47 0.00 0.00 2.52
852 951 6.819397 AAAACTTGGTAGAAGGCTCATAAC 57.181 37.500 0.00 0.00 0.00 1.89
870 969 3.864789 AACTGACTTGACCTTGACCAT 57.135 42.857 0.00 0.00 0.00 3.55
872 971 2.224621 ACTGACTTGACCTTGACCATGG 60.225 50.000 11.19 11.19 0.00 3.66
890 989 2.125106 GTCGTCCATGGGTGGCTC 60.125 66.667 13.02 0.00 45.63 4.70
911 1010 1.092345 GTCCTCCATTCAGCCGCTTC 61.092 60.000 0.00 0.00 0.00 3.86
984 1084 4.202567 ACTCCTTGGTGGAAGCTCATAAAA 60.203 41.667 0.00 0.00 45.63 1.52
1059 1159 1.045407 TACCTCCAAACGAGTGTGCT 58.955 50.000 0.00 0.00 36.82 4.40
1060 1160 0.249911 ACCTCCAAACGAGTGTGCTC 60.250 55.000 0.00 0.00 36.82 4.26
1133 1243 2.573009 TCATCAATCTTGACTGCCCTCA 59.427 45.455 0.00 0.00 40.49 3.86
1193 1308 8.091449 CACTATTGGTCCTCTTCCATTCTATAC 58.909 40.741 0.00 0.00 34.75 1.47
1195 1310 5.871396 TGGTCCTCTTCCATTCTATACAC 57.129 43.478 0.00 0.00 0.00 2.90
1285 4750 2.035632 CTATCACTCGGGCTTCTCCTT 58.964 52.381 0.00 0.00 34.39 3.36
1286 4754 0.827368 ATCACTCGGGCTTCTCCTTC 59.173 55.000 0.00 0.00 34.39 3.46
1336 4813 1.829533 AGCTGCAACCAACACCCTG 60.830 57.895 1.02 0.00 0.00 4.45
1495 4987 4.705023 GGCATATGGTTCAACAAGTTACCT 59.295 41.667 4.56 0.00 0.00 3.08
1906 5425 2.415491 CGTTGAACTAGACATCAGCGGA 60.415 50.000 18.50 0.00 43.60 5.54
2216 5750 4.457496 CCGATGCCTGCACTCCGT 62.457 66.667 0.00 0.00 0.00 4.69
2578 6112 4.497507 GGGGAATTGCTTAGTGTAAATCGC 60.498 45.833 0.00 0.00 34.23 4.58
2860 6401 5.695363 AGTTCGTGCTACTAAAAACTTCTCC 59.305 40.000 0.00 0.00 0.00 3.71
3924 7486 8.233868 TGTATGTTTTGTTGATTGGATAGTTCG 58.766 33.333 0.00 0.00 0.00 3.95
3976 7538 9.856488 GAAGGAAGCTGTCGATTTATATGTATA 57.144 33.333 0.00 0.00 0.00 1.47
4011 7573 2.027385 TCATCGAGAGCACACATAGCT 58.973 47.619 0.00 0.00 46.82 3.32
4084 7646 2.203538 CTGGCCCCACACTTGCTT 60.204 61.111 0.00 0.00 0.00 3.91
4238 7800 6.948353 ACATATAAATTCACTCGATGTGTGC 58.052 36.000 12.62 0.00 46.27 4.57
4276 7839 4.228210 TGGCCTTCTCTTTTGAGGATATGT 59.772 41.667 3.32 0.00 46.22 2.29
4375 7943 4.804868 ATGCATTGCCACTGTTATTTCA 57.195 36.364 6.12 0.00 0.00 2.69
4381 7949 7.147863 TGCATTGCCACTGTTATTTCATTCTAT 60.148 33.333 6.12 0.00 0.00 1.98
4485 8057 3.674997 AGGTGTTGCGTAAAGATGACAT 58.325 40.909 0.00 0.00 0.00 3.06
4503 8075 5.569355 TGACATTGACATTCATAACCCTGT 58.431 37.500 0.00 0.00 0.00 4.00
4506 8078 7.336679 TGACATTGACATTCATAACCCTGTTAG 59.663 37.037 0.00 0.00 0.00 2.34
4507 8079 6.603201 ACATTGACATTCATAACCCTGTTAGG 59.397 38.462 0.00 0.00 34.30 2.69
4508 8080 6.381498 TTGACATTCATAACCCTGTTAGGA 57.619 37.500 0.00 0.00 37.67 2.94
4509 8081 6.381498 TGACATTCATAACCCTGTTAGGAA 57.619 37.500 14.13 14.13 37.67 3.36
4510 8082 6.177610 TGACATTCATAACCCTGTTAGGAAC 58.822 40.000 14.07 5.35 37.67 3.62
4511 8083 6.012858 TGACATTCATAACCCTGTTAGGAACT 60.013 38.462 14.07 5.17 46.37 3.01
4512 8084 6.790319 ACATTCATAACCCTGTTAGGAACTT 58.210 36.000 14.07 4.29 41.75 2.66
4513 8085 7.924541 ACATTCATAACCCTGTTAGGAACTTA 58.075 34.615 14.07 0.00 41.75 2.24
4540 8112 4.613929 CAGAAGTGCTCTGGCTCC 57.386 61.111 0.00 0.00 46.89 4.70
4550 8130 1.202330 CTCTGGCTCCTTCAGTCCAT 58.798 55.000 0.00 0.00 34.15 3.41
4560 8140 2.886523 CCTTCAGTCCATGCTGACAAAA 59.113 45.455 2.84 0.00 44.23 2.44
4595 8175 2.557056 TCCTCCTACTGTGAAGACAACG 59.443 50.000 0.00 0.00 0.00 4.10
4606 8186 1.001706 GAAGACAACGCCTTGGGTTTC 60.002 52.381 0.51 0.00 36.59 2.78
4654 8234 3.420893 TGGTAAAGATTCCAACCAGCAG 58.579 45.455 0.00 0.00 37.09 4.24
4655 8235 2.164422 GGTAAAGATTCCAACCAGCAGC 59.836 50.000 0.00 0.00 32.04 5.25
4677 8257 5.591877 AGCAAACAACTGTTTCTCTTCTGAT 59.408 36.000 4.85 0.00 45.54 2.90
4678 8258 6.096001 AGCAAACAACTGTTTCTCTTCTGATT 59.904 34.615 4.85 0.00 45.54 2.57
4690 8270 3.836949 TCTTCTGATTGCGGCATTTTTC 58.163 40.909 2.28 0.00 0.00 2.29
4691 8271 2.652941 TCTGATTGCGGCATTTTTCC 57.347 45.000 2.28 0.00 0.00 3.13
4692 8272 1.204467 TCTGATTGCGGCATTTTTCCC 59.796 47.619 2.28 0.00 0.00 3.97
4721 8301 5.244755 TGTACTGCTTGCATATGTTCTGAA 58.755 37.500 4.29 0.00 0.00 3.02
4722 8302 4.691860 ACTGCTTGCATATGTTCTGAAC 57.308 40.909 13.49 13.49 0.00 3.18
4723 8303 4.330250 ACTGCTTGCATATGTTCTGAACT 58.670 39.130 20.18 9.31 0.00 3.01
4724 8304 4.763793 ACTGCTTGCATATGTTCTGAACTT 59.236 37.500 20.18 16.29 0.00 2.66
4725 8305 5.106396 ACTGCTTGCATATGTTCTGAACTTC 60.106 40.000 20.18 4.76 0.00 3.01
4726 8306 5.005740 TGCTTGCATATGTTCTGAACTTCT 58.994 37.500 20.18 5.45 0.00 2.85
4727 8307 5.106436 TGCTTGCATATGTTCTGAACTTCTG 60.106 40.000 20.18 16.59 0.00 3.02
4728 8308 5.122869 GCTTGCATATGTTCTGAACTTCTGA 59.877 40.000 20.18 1.25 0.00 3.27
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
43 44 5.070685 GTGAAGAAATTGGTTCTACCCTGT 58.929 41.667 0.00 0.00 46.36 4.00
126 131 6.198687 CACCAATTGTACTAAACAGTGTGTG 58.801 40.000 4.43 0.00 39.87 3.82
128 133 5.212194 GCACCAATTGTACTAAACAGTGTG 58.788 41.667 4.43 2.09 39.87 3.82
130 135 4.277174 TGGCACCAATTGTACTAAACAGTG 59.723 41.667 4.43 3.28 39.87 3.66
227 233 4.558697 GCTTTTCCTTTGTAGCGTTTCCAT 60.559 41.667 0.00 0.00 0.00 3.41
254 260 1.272769 ACTCAGGAACCGAACAGCTAC 59.727 52.381 0.00 0.00 0.00 3.58
374 393 1.225373 CTGATTCCCCAATCCCTCCA 58.775 55.000 0.00 0.00 38.14 3.86
375 394 1.226311 ACTGATTCCCCAATCCCTCC 58.774 55.000 0.00 0.00 38.14 4.30
401 421 3.626217 GGTCTTCTTGTTCGACAAAAGGT 59.374 43.478 0.00 0.00 37.69 3.50
502 545 1.152963 AAACGGTGGCAGAAGCACT 60.153 52.632 0.00 0.00 44.61 4.40
531 575 3.132646 AGAGCCAGCAATGAACACAAAAA 59.867 39.130 0.00 0.00 0.00 1.94
532 576 2.694628 AGAGCCAGCAATGAACACAAAA 59.305 40.909 0.00 0.00 0.00 2.44
566 610 3.071602 ACACAGTCACAAGGATGTAAGCT 59.928 43.478 0.00 0.00 37.82 3.74
568 612 4.631131 TCACACAGTCACAAGGATGTAAG 58.369 43.478 0.00 0.00 37.82 2.34
569 613 4.503123 CCTCACACAGTCACAAGGATGTAA 60.503 45.833 0.00 0.00 37.82 2.41
574 618 1.496060 ACCTCACACAGTCACAAGGA 58.504 50.000 0.00 0.00 0.00 3.36
575 619 1.942657 CAACCTCACACAGTCACAAGG 59.057 52.381 0.00 0.00 0.00 3.61
577 621 1.280710 ACCAACCTCACACAGTCACAA 59.719 47.619 0.00 0.00 0.00 3.33
578 622 0.908910 ACCAACCTCACACAGTCACA 59.091 50.000 0.00 0.00 0.00 3.58
579 623 1.139058 AGACCAACCTCACACAGTCAC 59.861 52.381 0.00 0.00 0.00 3.67
583 627 3.016736 ACAAAAGACCAACCTCACACAG 58.983 45.455 0.00 0.00 0.00 3.66
584 628 3.080300 ACAAAAGACCAACCTCACACA 57.920 42.857 0.00 0.00 0.00 3.72
605 649 8.647796 ACAGATGCAAATTCAATGGATATCAAT 58.352 29.630 4.83 0.00 0.00 2.57
615 659 9.888878 CGAATCTATTACAGATGCAAATTCAAT 57.111 29.630 0.00 0.00 43.56 2.57
628 672 6.864560 TTTGTGTCGACGAATCTATTACAG 57.135 37.500 11.62 0.00 0.00 2.74
650 694 4.657013 ACCAACCCACAAACACAAATTTT 58.343 34.783 0.00 0.00 0.00 1.82
666 710 9.256477 CAAAAAGATCCTTTTTACTAACCAACC 57.744 33.333 14.63 0.00 31.17 3.77
748 798 4.201657 TGGCCTGAATGATCACTGTATTG 58.798 43.478 3.32 0.00 0.00 1.90
794 893 6.546395 AGAAATTGTATTTTAGTGCGCTCTG 58.454 36.000 21.59 0.00 0.00 3.35
802 901 6.434028 TGCCTGCAGAGAAATTGTATTTTAGT 59.566 34.615 17.39 0.00 0.00 2.24
832 931 4.777896 TCAGTTATGAGCCTTCTACCAAGT 59.222 41.667 0.00 0.00 0.00 3.16
839 938 4.323104 GGTCAAGTCAGTTATGAGCCTTCT 60.323 45.833 0.00 0.00 35.66 2.85
852 951 2.430465 CCATGGTCAAGGTCAAGTCAG 58.570 52.381 2.57 0.00 0.00 3.51
890 989 1.817099 GCGGCTGAATGGAGGACAG 60.817 63.158 0.00 0.00 35.14 3.51
1193 1308 1.363744 GAGGAAGAAGCCGATGTGTG 58.636 55.000 0.00 0.00 0.00 3.82
1195 1310 3.071580 GGAGGAAGAAGCCGATGTG 57.928 57.895 0.00 0.00 0.00 3.21
1285 4750 0.396435 ACCAATGAGGAACGTGCAGA 59.604 50.000 0.00 0.00 41.22 4.26
1286 4754 0.518636 CACCAATGAGGAACGTGCAG 59.481 55.000 0.00 0.00 41.22 4.41
1495 4987 2.988570 ACCCACACGACAGTAAAAACA 58.011 42.857 0.00 0.00 0.00 2.83
2216 5750 1.192146 AAAGCTCCACAGGTAGCGGA 61.192 55.000 0.00 0.00 43.63 5.54
2299 5833 1.098712 TAAACATCCAATCCCGCGGC 61.099 55.000 22.85 0.00 0.00 6.53
2860 6401 0.674895 CACCTCCTCCCAGCTTTTCG 60.675 60.000 0.00 0.00 0.00 3.46
3166 6710 1.343075 CCTCTGGCAACTCCTAGGGTA 60.343 57.143 9.46 0.00 35.97 3.69
3736 7292 1.087202 CAGGTTGCGCCGTTATAGCA 61.087 55.000 4.18 0.00 43.70 3.49
4084 7646 1.936436 GCCTGCCGCACATTTCATCA 61.936 55.000 0.00 0.00 37.47 3.07
4238 7800 5.006386 AGAAGGCCATAACAGAAAGTTCAG 58.994 41.667 5.01 0.00 41.64 3.02
4276 7839 8.413229 CAATCTCCAAGAAACTTACAAGGAAAA 58.587 33.333 0.00 0.00 0.00 2.29
4381 7949 9.515226 AAGTTACTTTGGAGCATTAACAATCTA 57.485 29.630 0.00 0.00 0.00 1.98
4426 7994 5.393352 GGTTGTTTTCTTCTACGGGTTTGTT 60.393 40.000 0.00 0.00 0.00 2.83
4485 8057 6.381498 TCCTAACAGGGTTATGAATGTCAA 57.619 37.500 0.00 0.00 35.59 3.18
4503 8075 5.084519 TCTGTGCTCTTCCTAAGTTCCTAA 58.915 41.667 0.00 0.00 0.00 2.69
4506 8078 3.963428 TCTGTGCTCTTCCTAAGTTCC 57.037 47.619 0.00 0.00 0.00 3.62
4507 8079 4.688413 CACTTCTGTGCTCTTCCTAAGTTC 59.312 45.833 0.00 0.00 37.38 3.01
4508 8080 4.636249 CACTTCTGTGCTCTTCCTAAGTT 58.364 43.478 0.00 0.00 37.38 2.66
4509 8081 4.264460 CACTTCTGTGCTCTTCCTAAGT 57.736 45.455 0.00 0.00 37.38 2.24
4560 8140 0.107945 GGAGGATGCTTCTTCGCTGT 60.108 55.000 5.76 0.00 0.00 4.40
4595 8175 3.430790 GGATGCTTATTGAAACCCAAGGC 60.431 47.826 0.00 0.00 38.31 4.35
4606 8186 9.925268 GATTTGCAAATTTTAGGATGCTTATTG 57.075 29.630 24.81 0.00 39.49 1.90
4644 8224 0.461135 AGTTGTTTGCTGCTGGTTGG 59.539 50.000 0.00 0.00 0.00 3.77
4677 8257 3.064416 GGGGGAAAAATGCCGCAA 58.936 55.556 0.00 0.00 39.89 4.85
4691 8271 0.539438 TGCAAGCAGTACAAAGGGGG 60.539 55.000 0.00 0.00 0.00 5.40
4692 8272 1.549203 ATGCAAGCAGTACAAAGGGG 58.451 50.000 0.00 0.00 0.00 4.79
4699 8279 5.352569 AGTTCAGAACATATGCAAGCAGTAC 59.647 40.000 15.85 0.00 0.00 2.73
4702 8282 4.959596 AGTTCAGAACATATGCAAGCAG 57.040 40.909 15.85 0.00 0.00 4.24
4721 8301 9.507329 AACACAGTACATAAATTCATCAGAAGT 57.493 29.630 0.00 0.00 37.14 3.01
4724 8304 9.599866 CCTAACACAGTACATAAATTCATCAGA 57.400 33.333 0.00 0.00 0.00 3.27
4725 8305 9.383519 ACCTAACACAGTACATAAATTCATCAG 57.616 33.333 0.00 0.00 0.00 2.90
4726 8306 9.378551 GACCTAACACAGTACATAAATTCATCA 57.621 33.333 0.00 0.00 0.00 3.07
4727 8307 9.378551 TGACCTAACACAGTACATAAATTCATC 57.621 33.333 0.00 0.00 0.00 2.92
4728 8308 9.905713 ATGACCTAACACAGTACATAAATTCAT 57.094 29.630 0.00 0.00 0.00 2.57


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

AutoCloner maintained by Alex Coulton.