Multiple sequence alignment - TraesCS4D01G217800

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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 TraesCS4D01G217800 chr4D 100.000 2252 0 0 1 2252 373582742 373584993 0.000000e+00 4159.0
1 TraesCS4D01G217800 chr4D 92.020 614 44 4 1 609 297381076 297381689 0.000000e+00 857.0
2 TraesCS4D01G217800 chr4B 90.292 1679 70 27 616 2235 458952856 458954500 0.000000e+00 2111.0
3 TraesCS4D01G217800 chr4B 100.000 29 0 0 2224 2252 458954506 458954534 1.000000e-03 54.7
4 TraesCS4D01G217800 chr4A 90.722 1606 68 23 672 2236 91313339 91311774 0.000000e+00 2065.0
5 TraesCS4D01G217800 chr4A 100.000 29 0 0 2224 2252 91311769 91311741 1.000000e-03 54.7
6 TraesCS4D01G217800 chr7D 92.787 610 43 1 1 609 21711741 21712350 0.000000e+00 881.0
7 TraesCS4D01G217800 chr7D 91.790 609 49 1 1 609 16200899 16200292 0.000000e+00 846.0
8 TraesCS4D01G217800 chr7D 84.000 150 18 4 1091 1240 14432336 14432193 3.020000e-29 139.0
9 TraesCS4D01G217800 chr7D 84.000 150 18 4 1091 1240 564009422 564009279 3.020000e-29 139.0
10 TraesCS4D01G217800 chr6D 92.508 614 45 1 1 613 455128941 455129554 0.000000e+00 878.0
11 TraesCS4D01G217800 chr3D 92.295 610 46 1 1 609 584687542 584688151 0.000000e+00 865.0
12 TraesCS4D01G217800 chr3D 84.000 150 18 4 1091 1240 455554801 455554944 3.020000e-29 139.0
13 TraesCS4D01G217800 chr5D 92.118 609 48 0 1 609 310556864 310557472 0.000000e+00 859.0
14 TraesCS4D01G217800 chr5D 85.333 150 16 4 1091 1240 550274330 550274473 1.390000e-32 150.0
15 TraesCS4D01G217800 chr6B 91.914 606 47 2 1 605 705855841 705855237 0.000000e+00 846.0
16 TraesCS4D01G217800 chrUn 91.626 609 50 1 1 609 290538424 290539031 0.000000e+00 841.0
17 TraesCS4D01G217800 chrUn 91.297 609 52 1 1 609 1371564 1370957 0.000000e+00 830.0
18 TraesCS4D01G217800 chr2D 84.667 150 17 4 1091 1240 106671457 106671600 6.480000e-31 145.0
19 TraesCS4D01G217800 chr2D 84.028 144 17 4 1097 1240 61757678 61757815 1.400000e-27 134.0


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 TraesCS4D01G217800 chr4D 373582742 373584993 2251 False 4159.00 4159 100.000 1 2252 1 chr4D.!!$F2 2251
1 TraesCS4D01G217800 chr4D 297381076 297381689 613 False 857.00 857 92.020 1 609 1 chr4D.!!$F1 608
2 TraesCS4D01G217800 chr4B 458952856 458954534 1678 False 1082.85 2111 95.146 616 2252 2 chr4B.!!$F1 1636
3 TraesCS4D01G217800 chr4A 91311741 91313339 1598 True 1059.85 2065 95.361 672 2252 2 chr4A.!!$R1 1580
4 TraesCS4D01G217800 chr7D 21711741 21712350 609 False 881.00 881 92.787 1 609 1 chr7D.!!$F1 608
5 TraesCS4D01G217800 chr7D 16200292 16200899 607 True 846.00 846 91.790 1 609 1 chr7D.!!$R2 608
6 TraesCS4D01G217800 chr6D 455128941 455129554 613 False 878.00 878 92.508 1 613 1 chr6D.!!$F1 612
7 TraesCS4D01G217800 chr3D 584687542 584688151 609 False 865.00 865 92.295 1 609 1 chr3D.!!$F2 608
8 TraesCS4D01G217800 chr5D 310556864 310557472 608 False 859.00 859 92.118 1 609 1 chr5D.!!$F1 608
9 TraesCS4D01G217800 chr6B 705855237 705855841 604 True 846.00 846 91.914 1 605 1 chr6B.!!$R1 604
10 TraesCS4D01G217800 chrUn 290538424 290539031 607 False 841.00 841 91.626 1 609 1 chrUn.!!$F1 608
11 TraesCS4D01G217800 chrUn 1370957 1371564 607 True 830.00 830 91.297 1 609 1 chrUn.!!$R1 608

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
850 872 0.905337 CCAGTCCCTCCTCCTCGTTT 60.905 60.0 0.0 0.0 0.0 3.6 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2005 2072 0.594796 CCACGTTTGCAACTGGAAGC 60.595 55.0 0.0 0.0 37.6 3.86 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
34 35 9.533253 CATGAAGAGACAATTAAACACCTTTTT 57.467 29.630 0.00 0.00 0.00 1.94
57 58 2.351888 GTGCAAGTTCGCGCGTTT 60.352 55.556 30.98 19.16 31.86 3.60
64 65 3.782898 GCAAGTTCGCGCGTTTTATATGA 60.783 43.478 30.98 3.31 0.00 2.15
66 67 4.789095 AGTTCGCGCGTTTTATATGATT 57.211 36.364 30.98 0.60 0.00 2.57
91 92 5.418840 AGTCATCCAAATAGCGTCCAATTTT 59.581 36.000 0.00 0.00 0.00 1.82
142 143 1.747355 GGTCACTGGCTTGATGGAATG 59.253 52.381 0.00 0.00 0.00 2.67
210 211 2.772077 TGGTCGCTTTGGCTATGTAA 57.228 45.000 0.00 0.00 36.09 2.41
239 240 5.819825 TTGTGTTTTTAATGGCAAAACCC 57.180 34.783 9.37 0.22 41.53 4.11
245 246 4.882842 TTTAATGGCAAAACCCCTTCTC 57.117 40.909 0.00 0.00 37.83 2.87
281 282 1.503818 CCGTTGTACGCACTGGCTTT 61.504 55.000 0.00 0.00 40.91 3.51
317 318 2.279582 ACAGCGAACGGAGTATCAAG 57.720 50.000 0.00 0.00 45.00 3.02
349 350 0.951525 CGGTGTGTATGCGGTTGGAA 60.952 55.000 0.00 0.00 0.00 3.53
365 366 4.115199 AACGGATGGCCAGGGAGC 62.115 66.667 13.05 0.00 0.00 4.70
426 427 1.030488 TCACCTCCTCCGTCGACATC 61.030 60.000 17.16 0.00 0.00 3.06
437 438 1.255342 CGTCGACATCGGCATAGTTTG 59.745 52.381 17.16 0.00 45.47 2.93
471 472 3.181491 GCTTTACTGTTGCCAACTTGTCA 60.181 43.478 9.30 0.00 0.00 3.58
510 516 4.456535 TGCAAGACTGTTTGTTAAGGCTA 58.543 39.130 0.00 0.00 29.20 3.93
542 548 3.939740 ACTATGTAGAGGTCGGGTGTA 57.060 47.619 0.00 0.00 0.00 2.90
546 552 1.272313 TGTAGAGGTCGGGTGTAGCTT 60.272 52.381 0.00 0.00 0.00 3.74
569 575 7.857885 GCTTATTATGCTTTGTATCCACTTGAC 59.142 37.037 0.00 0.00 0.00 3.18
570 576 8.800370 TTATTATGCTTTGTATCCACTTGACA 57.200 30.769 0.00 0.00 0.00 3.58
574 580 5.804639 TGCTTTGTATCCACTTGACACTAT 58.195 37.500 0.00 0.00 0.00 2.12
585 591 9.770097 ATCCACTTGACACTATATTATGAGTTG 57.230 33.333 0.00 0.00 0.00 3.16
609 615 8.062065 TGATAAAAGTGCCCTTTATCGAAAAT 57.938 30.769 0.00 0.00 40.01 1.82
610 616 7.973388 TGATAAAAGTGCCCTTTATCGAAAATG 59.027 33.333 0.00 0.00 40.01 2.32
614 620 2.774439 CCCTTTATCGAAAATGGGCG 57.226 50.000 0.00 0.00 37.11 6.13
632 638 2.346803 GCGGTGTGTCATACTGTCATT 58.653 47.619 9.95 0.00 0.00 2.57
638 644 4.091509 GTGTGTCATACTGTCATTTCGTCC 59.908 45.833 0.00 0.00 0.00 4.79
643 649 2.254546 ACTGTCATTTCGTCCTGCAA 57.745 45.000 0.00 0.00 0.00 4.08
790 802 5.279910 CCTCAAGTCCTCAAATCAACTCTCT 60.280 44.000 0.00 0.00 0.00 3.10
791 803 5.788450 TCAAGTCCTCAAATCAACTCTCTC 58.212 41.667 0.00 0.00 0.00 3.20
792 804 4.817318 AGTCCTCAAATCAACTCTCTCC 57.183 45.455 0.00 0.00 0.00 3.71
793 805 3.194542 AGTCCTCAAATCAACTCTCTCCG 59.805 47.826 0.00 0.00 0.00 4.63
799 811 1.479709 ATCAACTCTCTCCGGTCCAG 58.520 55.000 0.00 0.00 0.00 3.86
845 867 1.547755 TCTCCCAGTCCCTCCTCCT 60.548 63.158 0.00 0.00 0.00 3.69
846 868 1.075600 CTCCCAGTCCCTCCTCCTC 60.076 68.421 0.00 0.00 0.00 3.71
850 872 0.905337 CCAGTCCCTCCTCCTCGTTT 60.905 60.000 0.00 0.00 0.00 3.60
914 950 1.680249 GCCCTCCCAAAGCTTCTACAG 60.680 57.143 0.00 0.00 0.00 2.74
976 1012 2.012673 CTGCACCTCCTCAGTAATTGC 58.987 52.381 0.00 0.00 0.00 3.56
978 1014 2.224744 TGCACCTCCTCAGTAATTGCAA 60.225 45.455 0.00 0.00 35.65 4.08
987 1023 3.482436 TCAGTAATTGCAACGAAAGGGT 58.518 40.909 0.00 0.00 0.00 4.34
1119 1159 1.376037 CACCTTCCTCTTGGCCGTC 60.376 63.158 0.00 0.00 0.00 4.79
1215 1255 1.082104 CAAGGACGACAAAAGGCGC 60.082 57.895 0.00 0.00 0.00 6.53
1349 1389 1.125633 TCAGAGCATGCAGGCTGATA 58.874 50.000 33.03 12.38 45.99 2.15
1352 1392 2.686405 CAGAGCATGCAGGCTGATAAAA 59.314 45.455 33.03 0.00 45.99 1.52
1362 1402 3.248363 CAGGCTGATAAAATTGCGATCGA 59.752 43.478 21.57 0.00 0.00 3.59
1363 1403 3.248602 AGGCTGATAAAATTGCGATCGAC 59.751 43.478 21.57 10.98 0.00 4.20
1364 1404 3.210539 GCTGATAAAATTGCGATCGACG 58.789 45.455 21.57 0.00 45.66 5.12
1386 1426 0.174389 ATTCGACAGTGCTGCGAGAT 59.826 50.000 14.46 10.49 39.10 2.75
1408 1448 5.916661 TTCCGTAAGCTTCTGATTCTACT 57.083 39.130 0.00 0.00 0.00 2.57
1448 1488 1.202348 AGCCGTGAAGTCATCGATCAG 60.202 52.381 0.00 0.00 0.00 2.90
1449 1489 1.469940 GCCGTGAAGTCATCGATCAGT 60.470 52.381 0.00 0.00 0.00 3.41
1450 1490 2.881074 CCGTGAAGTCATCGATCAGTT 58.119 47.619 0.00 0.00 0.00 3.16
1451 1491 2.600420 CCGTGAAGTCATCGATCAGTTG 59.400 50.000 0.00 0.00 0.00 3.16
1452 1492 3.501950 CGTGAAGTCATCGATCAGTTGA 58.498 45.455 0.00 0.00 0.00 3.18
1453 1493 4.108336 CGTGAAGTCATCGATCAGTTGAT 58.892 43.478 0.00 0.00 37.51 2.57
1454 1494 4.027050 CGTGAAGTCATCGATCAGTTGATG 60.027 45.833 0.00 0.00 44.43 3.07
1455 1495 4.269603 GTGAAGTCATCGATCAGTTGATGG 59.730 45.833 0.00 0.00 43.61 3.51
1456 1496 3.465742 AGTCATCGATCAGTTGATGGG 57.534 47.619 0.00 0.00 43.61 4.00
1457 1497 2.768527 AGTCATCGATCAGTTGATGGGT 59.231 45.455 0.00 0.00 43.61 4.51
1458 1498 3.198635 AGTCATCGATCAGTTGATGGGTT 59.801 43.478 0.00 0.00 43.61 4.11
1459 1499 3.941483 GTCATCGATCAGTTGATGGGTTT 59.059 43.478 0.00 0.00 43.61 3.27
1460 1500 4.396166 GTCATCGATCAGTTGATGGGTTTT 59.604 41.667 0.00 0.00 43.61 2.43
1461 1501 5.009631 TCATCGATCAGTTGATGGGTTTTT 58.990 37.500 0.00 0.00 43.61 1.94
1462 1502 4.764679 TCGATCAGTTGATGGGTTTTTG 57.235 40.909 0.00 0.00 34.37 2.44
1463 1503 4.141287 TCGATCAGTTGATGGGTTTTTGT 58.859 39.130 0.00 0.00 34.37 2.83
1464 1504 5.309638 TCGATCAGTTGATGGGTTTTTGTA 58.690 37.500 0.00 0.00 34.37 2.41
1467 1507 6.747280 CGATCAGTTGATGGGTTTTTGTAATC 59.253 38.462 0.00 0.00 34.37 1.75
1477 1517 4.394920 GGGTTTTTGTAATCGATCAGCTGA 59.605 41.667 20.79 20.79 0.00 4.26
1478 1518 5.106317 GGGTTTTTGTAATCGATCAGCTGAA 60.106 40.000 22.50 4.47 0.00 3.02
1479 1519 6.404734 GGGTTTTTGTAATCGATCAGCTGAAT 60.405 38.462 22.50 7.07 0.00 2.57
1491 1539 2.238144 TCAGCTGAATGAGGAGAAAGGG 59.762 50.000 15.67 0.00 0.00 3.95
1554 1602 2.352519 GCTAGGTATAGTACGCCCTTGC 60.353 54.545 11.34 11.34 38.34 4.01
1686 1740 9.722056 GATGGATCAATAAATACACAGTTGTTC 57.278 33.333 0.00 0.00 37.15 3.18
1752 1806 1.955208 GCACCTGACATTAGTTGGGGG 60.955 57.143 0.00 0.00 0.00 5.40
1774 1828 5.304778 GGTGAGCTTCTTCTTCTTCTTCTT 58.695 41.667 0.00 0.00 0.00 2.52
1775 1829 5.408299 GGTGAGCTTCTTCTTCTTCTTCTTC 59.592 44.000 0.00 0.00 0.00 2.87
1776 1830 6.223120 GTGAGCTTCTTCTTCTTCTTCTTCT 58.777 40.000 0.00 0.00 0.00 2.85
2070 2142 4.504461 GCCATCGTTACTCATTCAGTAGTG 59.496 45.833 0.00 0.00 38.90 2.74
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
34 35 0.591236 GCGCGAACTTGCACTGAAAA 60.591 50.000 12.10 0.00 34.15 2.29
64 65 5.290493 TGGACGCTATTTGGATGACTAAT 57.710 39.130 0.00 0.00 0.00 1.73
66 67 4.746535 TTGGACGCTATTTGGATGACTA 57.253 40.909 0.00 0.00 0.00 2.59
142 143 6.760161 ATTAGCGTACTAAAAGTATTCGGC 57.240 37.500 0.00 0.00 41.62 5.54
145 146 7.862873 ACCCGTATTAGCGTACTAAAAGTATTC 59.137 37.037 0.00 0.00 41.62 1.75
281 282 2.098607 GCTGTAGCGTAGACCACATACA 59.901 50.000 0.00 0.00 31.56 2.29
317 318 2.051345 CACCGCCTTGAACAACGC 60.051 61.111 0.00 0.00 0.00 4.84
407 408 1.001269 ATGTCGACGGAGGAGGTGA 60.001 57.895 11.62 0.00 0.00 4.02
426 427 2.332063 ATGAGTCCCAAACTATGCCG 57.668 50.000 0.00 0.00 38.74 5.69
437 438 4.423625 ACAGTAAAGCCATATGAGTCCC 57.576 45.455 3.65 0.00 0.00 4.46
480 482 9.944663 CTTAACAAACAGTCTTGCAAAGTATAA 57.055 29.630 0.00 0.00 46.34 0.98
491 497 5.048713 GCACATAGCCTTAACAAACAGTCTT 60.049 40.000 0.00 0.00 37.23 3.01
497 503 5.567138 AGATGCACATAGCCTTAACAAAC 57.433 39.130 0.00 0.00 44.83 2.93
510 516 7.366847 ACCTCTACATAGTTAAGATGCACAT 57.633 36.000 0.00 0.00 0.00 3.21
574 580 9.474313 AAAGGGCACTTTTATCAACTCATAATA 57.526 29.630 8.52 0.00 44.26 0.98
585 591 7.435192 CCATTTTCGATAAAGGGCACTTTTATC 59.565 37.037 21.06 17.37 44.26 1.75
609 615 1.295101 CAGTATGACACACCGCCCA 59.705 57.895 0.00 0.00 39.69 5.36
610 616 0.739813 GACAGTATGACACACCGCCC 60.740 60.000 0.00 0.00 39.69 6.13
613 619 3.060761 CGAAATGACAGTATGACACACCG 59.939 47.826 0.00 0.00 44.67 4.94
614 620 3.994392 ACGAAATGACAGTATGACACACC 59.006 43.478 0.00 0.00 44.67 4.16
645 651 0.878523 TGTATTACTGGCGCGATGGC 60.879 55.000 12.10 0.00 45.12 4.40
790 802 1.455217 GCTAGTAGCCTGGACCGGA 60.455 63.158 9.46 0.00 34.48 5.14
791 803 3.130227 GCTAGTAGCCTGGACCGG 58.870 66.667 11.33 0.00 34.48 5.28
845 867 1.374378 TTCGGCCGCACATAAACGA 60.374 52.632 23.51 0.00 0.00 3.85
846 868 1.225908 GTTCGGCCGCACATAAACG 60.226 57.895 23.33 0.00 0.00 3.60
850 872 2.185867 GGAGTTCGGCCGCACATA 59.814 61.111 29.17 4.81 0.00 2.29
887 909 3.589542 TTTGGGAGGGCAGGGTGG 61.590 66.667 0.00 0.00 0.00 4.61
888 910 2.036256 CTTTGGGAGGGCAGGGTG 59.964 66.667 0.00 0.00 0.00 4.61
889 911 3.984732 GCTTTGGGAGGGCAGGGT 61.985 66.667 0.00 0.00 0.00 4.34
890 912 3.229659 AAGCTTTGGGAGGGCAGGG 62.230 63.158 0.00 0.00 0.00 4.45
891 913 1.680314 GAAGCTTTGGGAGGGCAGG 60.680 63.158 0.00 0.00 0.00 4.85
892 914 0.620556 TAGAAGCTTTGGGAGGGCAG 59.379 55.000 0.00 0.00 0.00 4.85
893 915 0.328258 GTAGAAGCTTTGGGAGGGCA 59.672 55.000 0.00 0.00 0.00 5.36
894 916 0.328258 TGTAGAAGCTTTGGGAGGGC 59.672 55.000 0.00 0.00 0.00 5.19
914 950 4.803426 CGACCTCTCGGTGGCAGC 62.803 72.222 6.62 6.62 45.73 5.25
976 1012 4.117685 GCTATACTACCACCCTTTCGTTG 58.882 47.826 0.00 0.00 0.00 4.10
978 1014 3.639952 AGCTATACTACCACCCTTTCGT 58.360 45.455 0.00 0.00 0.00 3.85
987 1023 6.053005 GCAACAAACCATAGCTATACTACCA 58.947 40.000 5.77 0.00 32.32 3.25
1349 1389 3.670203 GAATGTCGTCGATCGCAATTTT 58.330 40.909 11.09 0.00 39.67 1.82
1352 1392 0.846401 CGAATGTCGTCGATCGCAAT 59.154 50.000 11.09 0.00 43.86 3.56
1362 1402 1.284982 GCAGCACTGTCGAATGTCGT 61.285 55.000 0.00 0.00 41.35 4.34
1363 1403 1.417592 GCAGCACTGTCGAATGTCG 59.582 57.895 0.00 0.00 42.10 4.35
1364 1404 1.008875 TCGCAGCACTGTCGAATGTC 61.009 55.000 12.51 0.00 36.65 3.06
1386 1426 5.916661 AGTAGAATCAGAAGCTTACGGAA 57.083 39.130 0.00 0.00 0.00 4.30
1408 1448 0.250124 TGGCGCGGAGAAGAAAAGAA 60.250 50.000 8.83 0.00 0.00 2.52
1448 1488 6.616947 TGATCGATTACAAAAACCCATCAAC 58.383 36.000 0.00 0.00 0.00 3.18
1449 1489 6.624861 GCTGATCGATTACAAAAACCCATCAA 60.625 38.462 0.00 0.00 0.00 2.57
1450 1490 5.163663 GCTGATCGATTACAAAAACCCATCA 60.164 40.000 0.00 0.00 0.00 3.07
1451 1491 5.066505 AGCTGATCGATTACAAAAACCCATC 59.933 40.000 0.00 0.00 0.00 3.51
1452 1492 4.949856 AGCTGATCGATTACAAAAACCCAT 59.050 37.500 0.00 0.00 0.00 4.00
1453 1493 4.155826 CAGCTGATCGATTACAAAAACCCA 59.844 41.667 8.42 0.00 0.00 4.51
1454 1494 4.394920 TCAGCTGATCGATTACAAAAACCC 59.605 41.667 13.74 0.00 0.00 4.11
1455 1495 5.545658 TCAGCTGATCGATTACAAAAACC 57.454 39.130 13.74 0.00 0.00 3.27
1456 1496 7.243487 TCATTCAGCTGATCGATTACAAAAAC 58.757 34.615 19.04 0.00 0.00 2.43
1457 1497 7.376435 TCATTCAGCTGATCGATTACAAAAA 57.624 32.000 19.04 0.00 0.00 1.94
1458 1498 6.037500 CCTCATTCAGCTGATCGATTACAAAA 59.962 38.462 19.04 0.00 0.00 2.44
1459 1499 5.525012 CCTCATTCAGCTGATCGATTACAAA 59.475 40.000 19.04 0.00 0.00 2.83
1460 1500 5.052481 CCTCATTCAGCTGATCGATTACAA 58.948 41.667 19.04 0.00 0.00 2.41
1461 1501 4.342092 TCCTCATTCAGCTGATCGATTACA 59.658 41.667 19.04 0.00 0.00 2.41
1462 1502 4.876125 TCCTCATTCAGCTGATCGATTAC 58.124 43.478 19.04 0.00 0.00 1.89
1463 1503 4.829492 TCTCCTCATTCAGCTGATCGATTA 59.171 41.667 19.04 0.75 0.00 1.75
1464 1504 3.640498 TCTCCTCATTCAGCTGATCGATT 59.360 43.478 19.04 0.00 0.00 3.34
1467 1507 3.449528 TTCTCCTCATTCAGCTGATCG 57.550 47.619 19.04 11.86 0.00 3.69
1477 1517 2.555664 TCAGCTCCCTTTCTCCTCATT 58.444 47.619 0.00 0.00 0.00 2.57
1478 1518 2.260639 TCAGCTCCCTTTCTCCTCAT 57.739 50.000 0.00 0.00 0.00 2.90
1479 1519 2.030027 TTCAGCTCCCTTTCTCCTCA 57.970 50.000 0.00 0.00 0.00 3.86
1491 1539 3.431486 CCAGTACCCTTCTCATTCAGCTC 60.431 52.174 0.00 0.00 0.00 4.09
1554 1602 7.144722 TCAAGAATGCCATACTACAAAACAG 57.855 36.000 0.00 0.00 0.00 3.16
1686 1740 5.349809 GTTGACCTTCCTTTACTCTATCGG 58.650 45.833 0.00 0.00 0.00 4.18
1752 1806 6.223120 AGAAGAAGAAGAAGAAGAAGCTCAC 58.777 40.000 0.00 0.00 0.00 3.51
1774 1828 1.302366 GCATCATCGTGCATGGAAGA 58.698 50.000 5.18 5.18 44.43 2.87
1775 1829 3.839654 GCATCATCGTGCATGGAAG 57.160 52.632 5.98 0.00 44.43 3.46
1858 1916 2.031870 CAGATGGGATCGTCCACACTA 58.968 52.381 6.41 0.00 39.97 2.74
2005 2072 0.594796 CCACGTTTGCAACTGGAAGC 60.595 55.000 0.00 0.00 37.60 3.86
2027 2094 3.188048 GGCAATATCTGAAATCGAGCAGG 59.812 47.826 11.35 0.00 33.05 4.85
2070 2142 7.164122 TCCAGATCTGACCTAATTGAATATGC 58.836 38.462 24.62 0.00 0.00 3.14


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

AutoCloner maintained by Alex Coulton.