Multiple sequence alignment - TraesCS3B01G290500

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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 TraesCS3B01G290500 chr3B 100.000 3644 0 0 1 3644 466099548 466103191 0.000000e+00 6730
1 TraesCS3B01G290500 chr3D 95.565 3653 134 16 1 3644 360039517 360043150 0.000000e+00 5823
2 TraesCS3B01G290500 chr3A 94.715 2706 104 19 3 2701 479473786 479476459 0.000000e+00 4169
3 TraesCS3B01G290500 chr3A 95.765 921 38 1 2725 3644 479476454 479477374 0.000000e+00 1483
4 TraesCS3B01G290500 chr3A 90.647 139 13 0 2752 2890 479471374 479471236 6.210000e-43 185


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 TraesCS3B01G290500 chr3B 466099548 466103191 3643 False 6730 6730 100.000 1 3644 1 chr3B.!!$F1 3643
1 TraesCS3B01G290500 chr3D 360039517 360043150 3633 False 5823 5823 95.565 1 3644 1 chr3D.!!$F1 3643
2 TraesCS3B01G290500 chr3A 479473786 479477374 3588 False 2826 4169 95.240 3 3644 2 chr3A.!!$F1 3641

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
98 99 0.110486 GCTTTGGAGTTGGGACCTCA 59.890 55.0 0.00 0.0 0.0 3.86 F
938 953 0.478072 AGTGCACATCCCTGGTTGAA 59.522 50.0 21.04 0.0 0.0 2.69 F
1929 1944 0.541392 TGTGTCTGTTGGTGAGCACT 59.459 50.0 0.16 0.0 0.0 4.40 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1325 1340 0.756442 TGCAGAAGGGCTTTGCTTGT 60.756 50.000 0.00 0.00 38.60 3.16 R
2117 2132 1.325943 GCAGAGTAGAAGCGCATGTTC 59.674 52.381 11.47 4.73 0.00 3.18 R
3322 3338 2.100197 TGATCACTACTCCAGTTCCCG 58.900 52.381 0.00 0.00 34.26 5.14 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
60 61 7.330946 GGCGCAGTCTCATTATGTACATTTATA 59.669 37.037 14.77 0.00 0.00 0.98
98 99 0.110486 GCTTTGGAGTTGGGACCTCA 59.890 55.000 0.00 0.00 0.00 3.86
107 108 4.507512 GGAGTTGGGACCTCAAAATCTTCT 60.508 45.833 0.00 0.00 0.00 2.85
111 112 3.140144 TGGGACCTCAAAATCTTCTGGTT 59.860 43.478 0.00 0.00 0.00 3.67
159 161 1.813178 GTTTTGCCTACAGCCTTCTCC 59.187 52.381 0.00 0.00 42.71 3.71
185 187 4.502016 GATCGCATGATCCATACAGACAT 58.498 43.478 0.00 0.00 44.39 3.06
258 260 2.247790 GCTGTCAGTCGGCACAATT 58.752 52.632 0.93 0.00 46.78 2.32
368 370 1.433471 GGCACTGCCTTAATTCCGC 59.567 57.895 13.28 0.00 46.69 5.54
389 391 1.670590 GATCATCCCAGAGAGCGGG 59.329 63.158 0.00 0.00 46.03 6.13
421 423 6.716628 ACTTGCAAGATCAGAAGGTTGATAAA 59.283 34.615 32.50 0.00 37.90 1.40
422 424 7.231317 ACTTGCAAGATCAGAAGGTTGATAAAA 59.769 33.333 32.50 0.00 37.90 1.52
423 425 7.149569 TGCAAGATCAGAAGGTTGATAAAAG 57.850 36.000 0.00 0.00 37.90 2.27
424 426 6.032717 GCAAGATCAGAAGGTTGATAAAAGC 58.967 40.000 0.00 0.00 37.90 3.51
425 427 6.558909 CAAGATCAGAAGGTTGATAAAAGCC 58.441 40.000 0.00 0.00 37.90 4.35
426 428 5.819991 AGATCAGAAGGTTGATAAAAGCCA 58.180 37.500 0.00 0.00 37.90 4.75
427 429 6.430007 AGATCAGAAGGTTGATAAAAGCCAT 58.570 36.000 0.00 0.00 37.90 4.40
428 430 6.894103 AGATCAGAAGGTTGATAAAAGCCATT 59.106 34.615 0.00 0.00 37.90 3.16
429 431 6.271488 TCAGAAGGTTGATAAAAGCCATTG 57.729 37.500 0.00 0.00 0.00 2.82
430 432 5.774690 TCAGAAGGTTGATAAAAGCCATTGT 59.225 36.000 0.00 0.00 0.00 2.71
431 433 6.071952 TCAGAAGGTTGATAAAAGCCATTGTC 60.072 38.462 0.00 0.00 0.00 3.18
432 434 5.774690 AGAAGGTTGATAAAAGCCATTGTCA 59.225 36.000 0.00 0.00 0.00 3.58
433 435 6.438425 AGAAGGTTGATAAAAGCCATTGTCAT 59.562 34.615 0.44 0.00 31.69 3.06
492 501 8.852135 ACGAAATTTAATGTTGGAGAACCTAAA 58.148 29.630 0.00 0.00 37.04 1.85
506 515 0.724549 CCTAAATAGCGCACGTGCAA 59.275 50.000 37.03 23.25 42.21 4.08
556 565 4.836125 CTGCAACAACACAGGAAACTAT 57.164 40.909 0.00 0.00 40.21 2.12
559 568 4.036262 TGCAACAACACAGGAAACTATGAC 59.964 41.667 0.00 0.00 36.85 3.06
570 579 4.120589 GGAAACTATGACGATCACCCTTC 58.879 47.826 0.00 0.00 0.00 3.46
603 612 7.255035 GCATACAGAATGATGCACTACAAATCT 60.255 37.037 0.00 0.00 43.91 2.40
613 622 4.935205 TGCACTACAAATCTACAATCGCTT 59.065 37.500 0.00 0.00 0.00 4.68
630 639 4.000325 TCGCTTAGCATAGAAGTTTGCAA 59.000 39.130 4.70 0.00 41.35 4.08
644 653 5.134202 AGTTTGCAATGTTACTAAAGGCC 57.866 39.130 0.00 0.00 0.00 5.19
645 654 3.840890 TTGCAATGTTACTAAAGGCCG 57.159 42.857 0.00 0.00 0.00 6.13
648 657 2.354821 GCAATGTTACTAAAGGCCGGAG 59.645 50.000 5.05 0.00 0.00 4.63
663 676 1.000145 GGAGGAATCCCCGGCAAAA 60.000 57.895 0.00 0.00 40.87 2.44
665 678 1.485124 GAGGAATCCCCGGCAAAAAT 58.515 50.000 0.00 0.00 40.87 1.82
668 681 2.243736 AGGAATCCCCGGCAAAAATAGA 59.756 45.455 0.00 0.00 40.87 1.98
672 687 1.005450 TCCCCGGCAAAAATAGAAGCT 59.995 47.619 0.00 0.00 0.00 3.74
700 715 5.417580 GGTGGGAATTCACAGTATAGCAAAA 59.582 40.000 11.59 0.00 39.27 2.44
728 743 7.484959 CGTTTTAATTTTGGAGATGAACCTAGC 59.515 37.037 0.00 0.00 0.00 3.42
748 763 9.553064 ACCTAGCAATTTAGTTTCTGATATCAG 57.447 33.333 24.32 24.32 45.08 2.90
788 803 0.916086 AGGAACGAATATGCCCACCA 59.084 50.000 0.00 0.00 0.00 4.17
791 806 2.034558 GGAACGAATATGCCCACCATTG 59.965 50.000 0.00 0.00 35.34 2.82
923 938 0.954452 CAGAAACACCAGGGAAGTGC 59.046 55.000 0.00 0.00 38.87 4.40
938 953 0.478072 AGTGCACATCCCTGGTTGAA 59.522 50.000 21.04 0.00 0.00 2.69
966 981 1.072489 TGGTTACCGCTTCCATTGTCA 59.928 47.619 0.00 0.00 0.00 3.58
969 984 2.107950 TACCGCTTCCATTGTCAAGG 57.892 50.000 0.00 0.00 0.00 3.61
1013 1028 8.655901 TGTATATAAAGTGATGATAGCCCAACA 58.344 33.333 0.00 0.00 0.00 3.33
1015 1030 8.798859 ATATAAAGTGATGATAGCCCAACATC 57.201 34.615 0.00 0.00 40.22 3.06
1019 1034 4.063689 GTGATGATAGCCCAACATCAGAG 58.936 47.826 0.00 0.00 46.72 3.35
1020 1035 3.969312 TGATGATAGCCCAACATCAGAGA 59.031 43.478 0.00 0.00 43.17 3.10
1196 1211 4.937620 CACTAATGTCAAAGCTAGCCTCAA 59.062 41.667 12.13 0.00 0.00 3.02
1248 1263 9.693739 AATGAAAACACCAATATAGTATCCACA 57.306 29.630 0.00 0.00 0.00 4.17
1267 1282 1.005394 CCGACTTTACAGCGGGTGT 60.005 57.895 17.69 17.69 43.86 4.16
1309 1324 3.760151 CACATCAATCAAAGAAGCTCCCA 59.240 43.478 0.00 0.00 0.00 4.37
1325 1340 0.607217 CCCAGTGCACATGAGCTTGA 60.607 55.000 21.04 0.00 34.99 3.02
1362 1377 4.395854 TCTGCACAATACACACCATCAATC 59.604 41.667 0.00 0.00 0.00 2.67
1605 1620 6.256321 GCTTTGTTGACATTATGCTAAATGGG 59.744 38.462 13.73 0.00 40.48 4.00
1606 1621 6.849085 TTGTTGACATTATGCTAAATGGGT 57.151 33.333 13.73 0.00 40.48 4.51
1662 1677 5.367937 AGTCCTACTTAGCACAATGGATGAT 59.632 40.000 0.00 0.00 0.00 2.45
1765 1780 1.302511 CTAGGCGTTGTTGCAGGGT 60.303 57.895 0.00 0.00 36.28 4.34
1812 1827 0.919710 ATGAGGTGGAGGGCCTAAAC 59.080 55.000 5.73 7.91 36.29 2.01
1929 1944 0.541392 TGTGTCTGTTGGTGAGCACT 59.459 50.000 0.16 0.00 0.00 4.40
2062 2077 2.874701 GCAGACCTTGATAACGATGCAT 59.125 45.455 0.00 0.00 32.79 3.96
2117 2132 6.748132 ACCATGTCAAGGAATTTTGTACTTG 58.252 36.000 0.00 0.00 41.14 3.16
2164 2179 7.814587 TGCTTATCTCGTATCCAATGATTACAG 59.185 37.037 0.00 0.00 32.18 2.74
2249 2264 6.314018 TGCACGACAAAGAGCTAATAATTTG 58.686 36.000 0.00 0.00 38.35 2.32
2283 2298 3.942748 AGTCTTTTACCAAACACGCAAGA 59.057 39.130 0.00 0.00 43.62 3.02
2327 2342 4.669206 ATGCATTGACACCTCAAAAACA 57.331 36.364 0.00 0.00 39.90 2.83
2343 2358 8.237267 CCTCAAAAACATACATGGAAGTTACTC 58.763 37.037 0.00 0.00 0.00 2.59
2363 2378 5.862845 ACTCTTCATCAGTTCATCACAACT 58.137 37.500 0.00 0.00 37.05 3.16
2371 2386 7.879677 TCATCAGTTCATCACAACTTCTACATT 59.120 33.333 0.00 0.00 34.17 2.71
2372 2387 7.425577 TCAGTTCATCACAACTTCTACATTG 57.574 36.000 0.00 0.00 34.17 2.82
2415 2430 7.892778 TTCAAAAGTATGTTACTATGTCGCA 57.107 32.000 0.00 0.00 38.26 5.10
2463 2478 2.485426 TCAAGCAAGCTACTTCACATGC 59.515 45.455 0.00 0.00 0.00 4.06
2499 2514 2.025981 TGCCTTCTCCATATGCAACAGT 60.026 45.455 0.00 0.00 0.00 3.55
2503 2518 5.449177 GCCTTCTCCATATGCAACAGTAAAC 60.449 44.000 0.00 0.00 0.00 2.01
2683 2698 8.734218 AATGCTAGAAATATATCATGCCTCAG 57.266 34.615 0.00 0.00 0.00 3.35
2760 2775 6.714278 ACACGTGACCTATTTAATACCCTTT 58.286 36.000 25.01 0.00 0.00 3.11
2764 2779 7.497909 ACGTGACCTATTTAATACCCTTTCATG 59.502 37.037 0.00 0.00 0.00 3.07
2787 2802 5.517411 TGTTACAAGTAGTCGAAACACTGTG 59.483 40.000 6.19 6.19 0.00 3.66
2820 2835 4.219725 TGATCTTGGAGTCGTACATTGTCA 59.780 41.667 0.00 0.00 0.00 3.58
2890 2905 2.287849 GCCACAGCTTCAAGGTTTCTTC 60.288 50.000 0.00 0.00 35.50 2.87
3019 3035 4.679373 AGAAAGAGACAGAGCTTGACAA 57.321 40.909 0.00 0.00 0.00 3.18
3026 3042 4.314121 AGACAGAGCTTGACAAGATGAAC 58.686 43.478 19.51 12.03 0.00 3.18
3146 3162 6.825213 ACTGTAATGAAGCTCAAGCATATTCA 59.175 34.615 4.59 6.24 45.16 2.57
3165 3181 2.368221 TCAGTTTGGGGATGCCAAAAAG 59.632 45.455 7.49 4.06 38.61 2.27
3267 3283 9.851686 TCAGTTATAAGCTTCAATATGGTTGAT 57.148 29.630 0.00 0.00 0.00 2.57
3322 3338 5.948992 AGTGTCCAACTCTTTTGCTAATC 57.051 39.130 0.00 0.00 31.64 1.75
3332 3348 3.008594 TCTTTTGCTAATCGGGAACTGGA 59.991 43.478 0.00 0.00 33.92 3.86
3348 3364 5.292101 GGAACTGGAGTAGTGATCAATTTCG 59.708 44.000 0.00 0.00 40.26 3.46
3435 3451 3.852286 CATGATGTTTGTTGGGTCATGG 58.148 45.455 5.90 0.00 41.34 3.66
3458 3474 5.189180 GTCCTTGGAGAATGTGAAGCTATT 58.811 41.667 0.00 0.00 0.00 1.73
3627 3643 9.013229 TGTTCAATTAACATATTCTGCTTCACT 57.987 29.630 0.00 0.00 43.22 3.41
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
98 99 9.463443 CAGATTTTACGAAAACCAGAAGATTTT 57.537 29.630 0.00 0.00 32.37 1.82
107 108 3.560481 TCGTGCAGATTTTACGAAAACCA 59.440 39.130 0.00 0.00 42.99 3.67
159 161 2.027837 TGTATGGATCATGCGATCTGGG 60.028 50.000 0.00 0.00 46.30 4.45
243 245 1.463444 GGTACAATTGTGCCGACTGAC 59.537 52.381 26.87 11.87 40.82 3.51
258 260 0.178955 TTGTCGGTGAGGGAGGTACA 60.179 55.000 0.00 0.00 0.00 2.90
389 391 1.815003 CTGATCTTGCAAGTTGGTCCC 59.185 52.381 25.19 6.31 0.00 4.46
421 423 4.942761 AGTTGACAAATGACAATGGCTT 57.057 36.364 1.95 0.00 32.94 4.35
422 424 4.501915 CCAAGTTGACAAATGACAATGGCT 60.502 41.667 3.87 0.00 32.94 4.75
423 425 3.742369 CCAAGTTGACAAATGACAATGGC 59.258 43.478 3.87 0.00 32.94 4.40
424 426 4.947645 ACCAAGTTGACAAATGACAATGG 58.052 39.130 3.87 13.16 36.57 3.16
425 427 5.920273 GGTACCAAGTTGACAAATGACAATG 59.080 40.000 7.15 0.00 32.94 2.82
426 428 5.833131 AGGTACCAAGTTGACAAATGACAAT 59.167 36.000 15.94 0.00 32.94 2.71
427 429 5.067153 CAGGTACCAAGTTGACAAATGACAA 59.933 40.000 15.94 0.00 0.00 3.18
428 430 4.578516 CAGGTACCAAGTTGACAAATGACA 59.421 41.667 15.94 0.00 0.00 3.58
429 431 4.556699 GCAGGTACCAAGTTGACAAATGAC 60.557 45.833 15.94 0.00 0.00 3.06
430 432 3.568007 GCAGGTACCAAGTTGACAAATGA 59.432 43.478 15.94 0.00 0.00 2.57
431 433 3.317711 TGCAGGTACCAAGTTGACAAATG 59.682 43.478 15.94 0.00 0.00 2.32
432 434 3.317993 GTGCAGGTACCAAGTTGACAAAT 59.682 43.478 15.94 0.00 0.00 2.32
433 435 2.685897 GTGCAGGTACCAAGTTGACAAA 59.314 45.455 15.94 0.00 0.00 2.83
492 501 1.227999 ACTTGTTGCACGTGCGCTAT 61.228 50.000 33.22 15.12 45.83 2.97
506 515 2.281070 CACTGGCTCGCCACTTGT 60.281 61.111 6.52 0.77 41.89 3.16
528 537 3.885484 CTGTGTTGTTGCAGGAGTAAG 57.115 47.619 0.00 0.00 0.00 2.34
550 559 4.504858 GTGAAGGGTGATCGTCATAGTTT 58.495 43.478 0.00 0.00 0.00 2.66
556 565 1.589630 CGGTGAAGGGTGATCGTCA 59.410 57.895 0.00 0.00 0.00 4.35
559 568 1.141881 CTCCGGTGAAGGGTGATCG 59.858 63.158 0.00 0.00 0.00 3.69
570 579 2.602257 TCATTCTGTATGCTCCGGTG 57.398 50.000 0.00 0.00 34.06 4.94
603 612 6.238103 GCAAACTTCTATGCTAAGCGATTGTA 60.238 38.462 0.00 0.00 39.46 2.41
613 622 7.921786 AGTAACATTGCAAACTTCTATGCTA 57.078 32.000 1.71 0.00 42.97 3.49
630 639 2.474112 TCCTCCGGCCTTTAGTAACAT 58.526 47.619 0.00 0.00 0.00 2.71
644 653 2.830186 TTTTGCCGGGGATTCCTCCG 62.830 60.000 19.82 19.82 43.11 4.63
645 654 0.613572 TTTTTGCCGGGGATTCCTCC 60.614 55.000 2.18 1.55 41.26 4.30
648 657 2.661718 TCTATTTTTGCCGGGGATTCC 58.338 47.619 2.18 0.00 0.00 3.01
657 670 4.336713 CCACCTCTAGCTTCTATTTTTGCC 59.663 45.833 0.00 0.00 0.00 4.52
663 676 5.667626 TGAATTCCCACCTCTAGCTTCTATT 59.332 40.000 2.27 0.00 0.00 1.73
665 678 4.406003 GTGAATTCCCACCTCTAGCTTCTA 59.594 45.833 2.27 0.00 0.00 2.10
668 681 2.912956 TGTGAATTCCCACCTCTAGCTT 59.087 45.455 2.27 0.00 36.26 3.74
672 687 5.304614 GCTATACTGTGAATTCCCACCTCTA 59.695 44.000 2.27 0.00 36.26 2.43
700 715 6.266786 AGGTTCATCTCCAAAATTAAAACGGT 59.733 34.615 0.00 0.00 0.00 4.83
748 763 4.024809 CCTTCCTTTTCTGACACTTTCGTC 60.025 45.833 0.00 0.00 36.40 4.20
750 765 4.127171 TCCTTCCTTTTCTGACACTTTCG 58.873 43.478 0.00 0.00 0.00 3.46
763 778 3.288092 GGGCATATTCGTTCCTTCCTTT 58.712 45.455 0.00 0.00 0.00 3.11
766 781 1.947456 GTGGGCATATTCGTTCCTTCC 59.053 52.381 0.00 0.00 0.00 3.46
788 803 3.446442 ACTGATGAAAGGGACAGCAAT 57.554 42.857 0.00 0.00 33.40 3.56
791 806 1.200948 GCAACTGATGAAAGGGACAGC 59.799 52.381 0.00 0.00 34.25 4.40
923 938 2.751259 CAGACATTCAACCAGGGATGTG 59.249 50.000 5.14 0.00 0.00 3.21
938 953 2.420129 GGAAGCGGTAACCATCAGACAT 60.420 50.000 5.99 0.00 0.00 3.06
966 981 0.398318 GGTGGTTCTGCTGAGACCTT 59.602 55.000 18.54 0.00 0.00 3.50
969 984 1.271054 ACATGGTGGTTCTGCTGAGAC 60.271 52.381 0.00 0.00 0.00 3.36
1006 1021 1.404391 CTTGCATCTCTGATGTTGGGC 59.596 52.381 8.98 0.00 0.00 5.36
1013 1028 3.840124 TCATGAGCTTGCATCTCTGAT 57.160 42.857 14.94 2.20 0.00 2.90
1015 1030 3.251245 GGATTCATGAGCTTGCATCTCTG 59.749 47.826 14.94 11.29 0.00 3.35
1019 1034 3.188873 GCTAGGATTCATGAGCTTGCATC 59.811 47.826 0.00 0.00 32.04 3.91
1020 1035 3.147629 GCTAGGATTCATGAGCTTGCAT 58.852 45.455 0.00 0.00 32.04 3.96
1196 1211 3.582208 GGCTGGAGGATGATTGAGAGTAT 59.418 47.826 0.00 0.00 0.00 2.12
1248 1263 1.005394 CACCCGCTGTAAAGTCGGT 60.005 57.895 12.77 2.00 41.46 4.69
1267 1282 8.539544 TGATGTGAATATAGAAGGTGAAGAACA 58.460 33.333 0.00 0.00 0.00 3.18
1309 1324 1.878088 CTTGTCAAGCTCATGTGCACT 59.122 47.619 20.92 5.62 34.99 4.40
1325 1340 0.756442 TGCAGAAGGGCTTTGCTTGT 60.756 50.000 0.00 0.00 38.60 3.16
1362 1377 3.127548 CACTAACAATAGCCTGCCTTGTG 59.872 47.826 8.03 1.62 33.60 3.33
1412 1427 6.502652 CCTTCAACATTTGTCATGTACACAA 58.497 36.000 0.00 0.00 38.00 3.33
1413 1428 5.507149 GCCTTCAACATTTGTCATGTACACA 60.507 40.000 0.00 0.00 38.00 3.72
1605 1620 5.168526 TGTCTAGCACATTTGTCAACAAC 57.831 39.130 0.00 0.00 35.28 3.32
1606 1621 5.820131 CTTGTCTAGCACATTTGTCAACAA 58.180 37.500 0.00 0.00 33.90 2.83
1662 1677 7.335924 GTGTCAAATACCCTGTTCAGCTTATTA 59.664 37.037 0.00 0.00 0.00 0.98
1812 1827 7.714377 ACTGATAAATAGAAGCTGTCAATCCAG 59.286 37.037 0.00 0.00 35.49 3.86
1929 1944 1.409251 ATGCCTTGCCAACTGCCAAA 61.409 50.000 0.00 0.00 40.16 3.28
2117 2132 1.325943 GCAGAGTAGAAGCGCATGTTC 59.674 52.381 11.47 4.73 0.00 3.18
2207 2222 6.743172 GTCGTGCAAGAAATTAAGAAAGATCC 59.257 38.462 3.20 0.00 0.00 3.36
2216 2231 5.008613 AGCTCTTTGTCGTGCAAGAAATTAA 59.991 36.000 3.20 0.00 38.47 1.40
2217 2232 4.515191 AGCTCTTTGTCGTGCAAGAAATTA 59.485 37.500 3.20 0.00 38.47 1.40
2218 2233 3.316308 AGCTCTTTGTCGTGCAAGAAATT 59.684 39.130 3.20 0.00 38.47 1.82
2219 2234 2.880890 AGCTCTTTGTCGTGCAAGAAAT 59.119 40.909 3.20 0.00 38.47 2.17
2220 2235 2.288666 AGCTCTTTGTCGTGCAAGAAA 58.711 42.857 3.20 0.00 38.47 2.52
2249 2264 6.849588 TGGTAAAAGACTAAAAGGAACGAC 57.150 37.500 0.00 0.00 0.00 4.34
2304 2319 5.527951 TGTTTTTGAGGTGTCAATGCATAC 58.472 37.500 0.00 0.00 42.41 2.39
2343 2358 6.798315 AGAAGTTGTGATGAACTGATGAAG 57.202 37.500 0.00 0.00 36.28 3.02
2355 2370 7.933577 TGAGAAGAACAATGTAGAAGTTGTGAT 59.066 33.333 0.00 0.00 38.47 3.06
2393 2408 9.632969 GTAATGCGACATAGTAACATACTTTTG 57.367 33.333 0.00 0.00 40.14 2.44
2413 2428 2.781945 GCATAGTTGCCCTGTAATGC 57.218 50.000 0.00 0.00 43.38 3.56
2463 2478 3.370978 AGAAGGCAATCACACGTTAATCG 59.629 43.478 0.00 0.00 46.00 3.34
2499 2514 8.540388 AGCTTGTAGATCATAAAGTCTGGTTTA 58.460 33.333 0.00 0.00 0.00 2.01
2503 2518 6.577103 TCAGCTTGTAGATCATAAAGTCTGG 58.423 40.000 16.28 6.98 31.03 3.86
2661 2676 7.326454 TCACTGAGGCATGATATATTTCTAGC 58.674 38.462 0.00 0.00 0.00 3.42
2677 2692 6.338214 TCAGATGTTATCTATCACTGAGGC 57.662 41.667 0.00 0.00 37.58 4.70
2683 2698 9.703892 AGCAAAGTATCAGATGTTATCTATCAC 57.296 33.333 0.00 0.00 37.58 3.06
2716 2731 8.839914 CACGTGTACATGTTTAGATTTTGATTG 58.160 33.333 18.15 0.00 0.00 2.67
2726 2741 7.591006 AAATAGGTCACGTGTACATGTTTAG 57.409 36.000 18.15 7.76 0.00 1.85
2760 2775 6.419710 CAGTGTTTCGACTACTTGTAACATGA 59.580 38.462 0.00 0.00 30.39 3.07
2764 2779 5.517770 ACACAGTGTTTCGACTACTTGTAAC 59.482 40.000 0.00 0.00 0.00 2.50
2787 2802 4.800993 CGACTCCAAGATCAACAGTGATAC 59.199 45.833 0.00 0.00 44.83 2.24
2881 2896 5.946377 GGGTGAGAAATATGTGAAGAAACCT 59.054 40.000 0.00 0.00 0.00 3.50
2890 2905 4.199310 ACAATCCGGGTGAGAAATATGTG 58.801 43.478 12.37 0.00 0.00 3.21
2960 2976 5.574055 CCATTGCTTTAATTACACTGCACTG 59.426 40.000 0.00 0.00 33.13 3.66
2961 2977 5.336690 CCCATTGCTTTAATTACACTGCACT 60.337 40.000 0.00 0.00 0.00 4.40
3019 3035 7.649306 GCAAACTACAAAACATTGAGTTCATCT 59.351 33.333 0.00 0.00 40.26 2.90
3026 3042 6.215121 TGATGGCAAACTACAAAACATTGAG 58.785 36.000 0.00 0.00 0.00 3.02
3165 3181 9.579768 CACTAATATATGTTCTGTATCTGGCTC 57.420 37.037 0.00 0.00 0.00 4.70
3322 3338 2.100197 TGATCACTACTCCAGTTCCCG 58.900 52.381 0.00 0.00 34.26 5.14
3332 3348 7.609760 TTACAATGCGAAATTGATCACTACT 57.390 32.000 15.66 0.00 33.51 2.57
3348 3364 4.154737 TCACAGCTGAGTTCATTACAATGC 59.845 41.667 23.35 0.00 36.36 3.56
3435 3451 3.064900 AGCTTCACATTCTCCAAGGAC 57.935 47.619 0.00 0.00 0.00 3.85


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

AutoCloner maintained by Alex Coulton.