Multiple sequence alignment - TraesCS5D01G478600

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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 TraesCS5D01G478600 chr5D 100.000 2623 0 0 1 2623 517316789 517319411 0.000000e+00 4844.0
1 TraesCS5D01G478600 chr5D 89.720 1537 77 17 119 1624 517269756 517271242 0.000000e+00 1888.0
2 TraesCS5D01G478600 chr5D 87.789 606 71 3 1660 2263 48730767 48730163 0.000000e+00 706.0
3 TraesCS5D01G478600 chr5D 80.256 780 105 29 403 1149 517360804 517360041 2.300000e-150 542.0
4 TraesCS5D01G478600 chr5D 90.107 374 32 4 2254 2623 517281200 517281572 5.080000e-132 481.0
5 TraesCS5D01G478600 chr5D 86.559 372 29 6 1179 1545 517360047 517359692 8.800000e-105 390.0
6 TraesCS5D01G478600 chr5D 85.833 120 17 0 1 120 517269554 517269673 7.620000e-26 128.0
7 TraesCS5D01G478600 chr5D 82.759 145 15 8 2481 2623 34081670 34081534 1.280000e-23 121.0
8 TraesCS5D01G478600 chr5D 97.727 44 0 1 1619 1661 517281161 517281204 1.010000e-09 75.0
9 TraesCS5D01G478600 chr5B 90.480 1397 106 13 119 1502 649539598 649540980 0.000000e+00 1818.0
10 TraesCS5D01G478600 chr5B 91.717 990 53 8 579 1551 649729275 649730252 0.000000e+00 1347.0
11 TraesCS5D01G478600 chr5B 80.764 1362 126 66 144 1449 649860152 649858871 0.000000e+00 939.0
12 TraesCS5D01G478600 chr5B 90.017 601 59 1 1658 2258 363092180 363091581 0.000000e+00 776.0
13 TraesCS5D01G478600 chr5B 90.167 600 52 7 1658 2257 363248767 363248175 0.000000e+00 774.0
14 TraesCS5D01G478600 chr5B 87.854 601 62 8 1661 2253 587277728 587277131 0.000000e+00 695.0
15 TraesCS5D01G478600 chr5B 90.933 375 27 6 2254 2623 649730304 649730676 5.040000e-137 497.0
16 TraesCS5D01G478600 chr5B 80.769 702 54 31 789 1477 649829128 649828495 8.500000e-130 473.0
17 TraesCS5D01G478600 chr5B 91.870 246 7 4 142 386 649728894 649729127 5.410000e-87 331.0
18 TraesCS5D01G478600 chr5B 92.437 119 7 1 385 501 649729162 649729280 4.490000e-38 169.0
19 TraesCS5D01G478600 chr5B 81.955 133 23 1 1 133 649537215 649537346 7.670000e-21 111.0
20 TraesCS5D01G478600 chr5B 77.165 127 23 6 2440 2561 33559021 33558896 4.680000e-08 69.4
21 TraesCS5D01G478600 chr5A 89.205 1019 70 22 668 1661 644358379 644359382 0.000000e+00 1236.0
22 TraesCS5D01G478600 chr5A 81.720 1198 107 53 227 1353 644456826 644455670 0.000000e+00 896.0
23 TraesCS5D01G478600 chr5A 87.053 587 31 21 119 673 644357596 644358169 2.870000e-174 621.0
24 TraesCS5D01G478600 chr5A 85.927 604 38 10 757 1353 644501848 644501285 3.740000e-168 601.0
25 TraesCS5D01G478600 chr5A 83.333 636 60 16 730 1355 644445324 644444725 1.780000e-151 545.0
26 TraesCS5D01G478600 chr5A 77.731 476 48 27 247 690 644502394 644501945 3.370000e-59 239.0
27 TraesCS5D01G478600 chr5A 82.759 116 20 0 5 120 644357341 644357456 1.280000e-18 104.0
28 TraesCS5D01G478600 chr4D 91.611 596 49 1 1660 2254 19071159 19070564 0.000000e+00 822.0
29 TraesCS5D01G478600 chr4D 91.877 554 43 2 1662 2213 19147873 19147320 0.000000e+00 773.0
30 TraesCS5D01G478600 chr4D 77.444 266 44 12 2365 2623 291531633 291531889 7.570000e-31 145.0
31 TraesCS5D01G478600 chr4D 76.440 191 32 7 2444 2623 357262908 357262720 1.000000e-14 91.6
32 TraesCS5D01G478600 chr4B 90.772 596 54 1 1662 2257 92742101 92741507 0.000000e+00 795.0
33 TraesCS5D01G478600 chr4B 86.139 101 13 1 2524 2623 643786842 643786942 9.930000e-20 108.0
34 TraesCS5D01G478600 chr3D 89.492 590 62 0 1664 2253 110982610 110982021 0.000000e+00 747.0
35 TraesCS5D01G478600 chr7B 87.255 612 72 5 1657 2265 540868516 540869124 0.000000e+00 693.0
36 TraesCS5D01G478600 chr3A 83.761 117 19 0 4 120 435387239 435387123 7.670000e-21 111.0
37 TraesCS5D01G478600 chr3A 80.000 115 14 5 2509 2623 620623621 620623726 2.800000e-10 76.8
38 TraesCS5D01G478600 chr4A 82.500 120 21 0 1 120 388678668 388678787 3.570000e-19 106.0
39 TraesCS5D01G478600 chr4A 77.348 181 28 11 2411 2582 108515747 108515923 7.730000e-16 95.3
40 TraesCS5D01G478600 chr2A 82.906 117 20 0 4 120 69376148 69376032 3.570000e-19 106.0
41 TraesCS5D01G478600 chr1B 80.460 87 10 3 2538 2623 676273988 676273908 2.820000e-05 60.2


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 TraesCS5D01G478600 chr5D 517316789 517319411 2622 False 4844.000000 4844 100.00000 1 2623 1 chr5D.!!$F1 2622
1 TraesCS5D01G478600 chr5D 517269554 517271242 1688 False 1008.000000 1888 87.77650 1 1624 2 chr5D.!!$F2 1623
2 TraesCS5D01G478600 chr5D 48730163 48730767 604 True 706.000000 706 87.78900 1660 2263 1 chr5D.!!$R2 603
3 TraesCS5D01G478600 chr5D 517359692 517360804 1112 True 466.000000 542 83.40750 403 1545 2 chr5D.!!$R3 1142
4 TraesCS5D01G478600 chr5B 649537215 649540980 3765 False 964.500000 1818 86.21750 1 1502 2 chr5B.!!$F1 1501
5 TraesCS5D01G478600 chr5B 649858871 649860152 1281 True 939.000000 939 80.76400 144 1449 1 chr5B.!!$R6 1305
6 TraesCS5D01G478600 chr5B 363091581 363092180 599 True 776.000000 776 90.01700 1658 2258 1 chr5B.!!$R2 600
7 TraesCS5D01G478600 chr5B 363248175 363248767 592 True 774.000000 774 90.16700 1658 2257 1 chr5B.!!$R3 599
8 TraesCS5D01G478600 chr5B 587277131 587277728 597 True 695.000000 695 87.85400 1661 2253 1 chr5B.!!$R4 592
9 TraesCS5D01G478600 chr5B 649728894 649730676 1782 False 586.000000 1347 91.73925 142 2623 4 chr5B.!!$F2 2481
10 TraesCS5D01G478600 chr5B 649828495 649829128 633 True 473.000000 473 80.76900 789 1477 1 chr5B.!!$R5 688
11 TraesCS5D01G478600 chr5A 644455670 644456826 1156 True 896.000000 896 81.72000 227 1353 1 chr5A.!!$R2 1126
12 TraesCS5D01G478600 chr5A 644357341 644359382 2041 False 653.666667 1236 86.33900 5 1661 3 chr5A.!!$F1 1656
13 TraesCS5D01G478600 chr5A 644444725 644445324 599 True 545.000000 545 83.33300 730 1355 1 chr5A.!!$R1 625
14 TraesCS5D01G478600 chr5A 644501285 644502394 1109 True 420.000000 601 81.82900 247 1353 2 chr5A.!!$R3 1106
15 TraesCS5D01G478600 chr4D 19070564 19071159 595 True 822.000000 822 91.61100 1660 2254 1 chr4D.!!$R1 594
16 TraesCS5D01G478600 chr4D 19147320 19147873 553 True 773.000000 773 91.87700 1662 2213 1 chr4D.!!$R2 551
17 TraesCS5D01G478600 chr4B 92741507 92742101 594 True 795.000000 795 90.77200 1662 2257 1 chr4B.!!$R1 595
18 TraesCS5D01G478600 chr3D 110982021 110982610 589 True 747.000000 747 89.49200 1664 2253 1 chr3D.!!$R1 589
19 TraesCS5D01G478600 chr7B 540868516 540869124 608 False 693.000000 693 87.25500 1657 2265 1 chr7B.!!$F1 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
49 50 0.107263 TGCACACTGAACAAGCAGGA 60.107 50.0 0.0 0.0 40.2 3.86 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1787 4628 0.385751 CATGAGGGCACGAGACGTAT 59.614 55.0 0.0 0.0 38.32 3.06 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 4.092968 CGGTTAGAACTGAATAACCTGCAC 59.907 45.833 11.24 0.00 45.81 4.57
40 41 4.085357 ACTGAATAACCTGCACACTGAA 57.915 40.909 0.00 0.00 0.00 3.02
42 43 3.814625 TGAATAACCTGCACACTGAACA 58.185 40.909 0.00 0.00 0.00 3.18
43 44 4.203226 TGAATAACCTGCACACTGAACAA 58.797 39.130 0.00 0.00 0.00 2.83
46 47 0.394216 ACCTGCACACTGAACAAGCA 60.394 50.000 0.00 0.00 0.00 3.91
47 48 3.839654 CTGCACACTGAACAAGCAG 57.160 52.632 0.00 0.00 45.44 4.24
48 49 0.309922 CTGCACACTGAACAAGCAGG 59.690 55.000 0.00 0.00 46.55 4.85
49 50 0.107263 TGCACACTGAACAAGCAGGA 60.107 50.000 0.00 0.00 40.20 3.86
50 51 1.024271 GCACACTGAACAAGCAGGAA 58.976 50.000 0.00 0.00 40.20 3.36
52 53 2.606308 GCACACTGAACAAGCAGGAATG 60.606 50.000 0.00 0.00 40.20 2.67
55 56 2.620115 CACTGAACAAGCAGGAATGTGT 59.380 45.455 0.00 0.00 40.20 3.72
56 57 2.620115 ACTGAACAAGCAGGAATGTGTG 59.380 45.455 0.00 0.00 40.20 3.82
58 59 2.880268 TGAACAAGCAGGAATGTGTGAG 59.120 45.455 0.00 0.00 0.00 3.51
59 60 1.901591 ACAAGCAGGAATGTGTGAGG 58.098 50.000 0.00 0.00 0.00 3.86
82 83 3.934391 GAACGCACTCCAGTCCCCG 62.934 68.421 0.00 0.00 0.00 5.73
137 2474 3.931468 CAGAGTTAGCTCAATGGTGTGAG 59.069 47.826 9.43 0.00 46.58 3.51
202 2543 3.710326 CAGTCATGCATGGAGAATTGG 57.290 47.619 25.97 4.54 0.00 3.16
203 2544 3.284617 CAGTCATGCATGGAGAATTGGA 58.715 45.455 25.97 0.55 0.00 3.53
204 2545 3.315470 CAGTCATGCATGGAGAATTGGAG 59.685 47.826 25.97 0.00 0.00 3.86
205 2546 2.621998 GTCATGCATGGAGAATTGGAGG 59.378 50.000 25.97 0.00 0.00 4.30
321 2693 4.265073 AGATTGGACAAGATGTTGCTACC 58.735 43.478 1.83 5.00 37.14 3.18
325 2697 2.744202 GGACAAGATGTTGCTACCACAG 59.256 50.000 1.83 0.00 37.14 3.66
355 2727 2.159382 GAATCCTTTTGTCCTTGCGGA 58.841 47.619 0.00 0.00 36.83 5.54
487 2924 1.029947 TCAGAGCGCTGACCGTATCA 61.030 55.000 18.48 0.00 45.88 2.15
551 2989 1.669760 CCAACTCGGCCTTTGCGTA 60.670 57.895 0.00 0.00 38.85 4.42
608 3057 2.224426 CCTGTAGGTACACCTTTGTGCA 60.224 50.000 6.17 0.00 46.09 4.57
707 3425 0.944386 CCAAGTCAACAGTTCCCACG 59.056 55.000 0.00 0.00 0.00 4.94
737 3459 4.321230 CCTCCGCTTAATTTCTGTTTGCTT 60.321 41.667 0.00 0.00 0.00 3.91
738 3460 4.545610 TCCGCTTAATTTCTGTTTGCTTG 58.454 39.130 0.00 0.00 0.00 4.01
739 3461 3.121778 CCGCTTAATTTCTGTTTGCTTGC 59.878 43.478 0.00 0.00 0.00 4.01
740 3462 3.983344 CGCTTAATTTCTGTTTGCTTGCT 59.017 39.130 0.00 0.00 0.00 3.91
750 3472 1.221466 TTTGCTTGCTCGAGTGTCCG 61.221 55.000 15.13 0.00 0.00 4.79
784 3513 3.563808 GCTTGTCAACACTAATCACCACA 59.436 43.478 0.00 0.00 0.00 4.17
785 3514 4.554723 GCTTGTCAACACTAATCACCACAC 60.555 45.833 0.00 0.00 0.00 3.82
786 3515 3.472652 TGTCAACACTAATCACCACACC 58.527 45.455 0.00 0.00 0.00 4.16
937 3716 2.024176 ATCAAATACTCAAGGCGCGT 57.976 45.000 8.43 0.00 0.00 6.01
982 3763 6.417044 CGTGTCTAGCCACTATAAATACACAC 59.583 42.308 1.98 0.00 35.58 3.82
986 3768 3.137728 AGCCACTATAAATACACACCCCC 59.862 47.826 0.00 0.00 0.00 5.40
1004 3786 0.180171 CCCACACACACCTTGTCTCA 59.820 55.000 0.00 0.00 35.67 3.27
1051 3841 0.040157 GCACATTCTGCAACGAAGCA 60.040 50.000 6.40 6.40 46.29 3.91
1550 4390 7.160547 TCTTGTCGGATGTGTATGTAACTAA 57.839 36.000 0.00 0.00 0.00 2.24
1559 4399 8.418662 GGATGTGTATGTAACTAACTGATGGTA 58.581 37.037 0.00 0.00 0.00 3.25
1696 4537 4.603094 TCCTGACAATGAGTACTAGGGA 57.397 45.455 0.00 0.00 0.00 4.20
1712 4553 1.697982 AGGGATACGAATAAGGGGCAC 59.302 52.381 0.00 0.00 37.60 5.01
1775 4616 4.316823 AGGCCCCTCACTCGGTGA 62.317 66.667 0.00 6.57 40.50 4.02
1787 4628 1.418637 ACTCGGTGAAGGTAAAAGCCA 59.581 47.619 0.00 0.00 0.00 4.75
1803 4644 1.065928 CCATACGTCTCGTGCCCTC 59.934 63.158 0.00 0.00 41.39 4.30
1805 4646 0.385751 CATACGTCTCGTGCCCTCAT 59.614 55.000 0.00 0.00 41.39 2.90
1926 4774 1.202440 ACGTCGCCGAGGCAATTAATA 60.202 47.619 15.03 0.00 42.06 0.98
1974 4822 2.808906 TGAGCCTCTACTACAGCAGA 57.191 50.000 0.00 0.00 0.00 4.26
2012 4860 6.754193 AGCTAAGACTCTACTTAATGGATGC 58.246 40.000 0.00 0.00 32.95 3.91
2076 4926 1.471676 CCTTCTATGTCCGAGTGGTGC 60.472 57.143 0.00 0.00 36.30 5.01
2204 5055 2.616571 TGATGGGCCCCATGTGGA 60.617 61.111 23.03 0.00 45.26 4.02
2237 5088 1.413077 GGTTCTTGACCCTATCCGGAG 59.587 57.143 11.34 0.00 43.06 4.63
2281 5132 5.091261 ACCTGTGGTGCAAATAACAAAAA 57.909 34.783 0.00 0.00 32.98 1.94
2308 5159 5.304614 TCGAGCAATATTTTAGTCCCTAGCT 59.695 40.000 0.00 0.00 0.00 3.32
2322 5173 7.512117 AGTCCCTAGCTAGGAAAATTTAACT 57.488 36.000 36.80 21.80 46.63 2.24
2347 5198 7.820578 AAGTATTACCACTCTTACTATCGCT 57.179 36.000 0.00 0.00 0.00 4.93
2351 5202 6.710597 TTACCACTCTTACTATCGCTGAAT 57.289 37.500 0.00 0.00 0.00 2.57
2462 5316 4.799564 TCTTTGGGTGCAAATATTGACC 57.200 40.909 0.00 0.00 33.14 4.02
2464 5318 4.590647 TCTTTGGGTGCAAATATTGACCAA 59.409 37.500 11.68 8.74 38.10 3.67
2521 5375 0.597568 TTTGCTGAAATCGTGGCAGG 59.402 50.000 0.00 0.00 36.06 4.85
2551 5406 8.907222 AATGATGCTCCAAAAGTGTTATTTTT 57.093 26.923 0.00 0.00 30.01 1.94
2553 5408 9.995003 ATGATGCTCCAAAAGTGTTATTTTTAA 57.005 25.926 0.00 0.00 30.01 1.52
2581 5436 7.224557 GCATTTTGGACTACTGATTTTGTTTGT 59.775 33.333 0.00 0.00 0.00 2.83
2595 5450 3.408288 TGTTTGTTTTGCCACGACTAC 57.592 42.857 0.00 0.00 0.00 2.73
2600 5455 2.147958 GTTTTGCCACGACTACCATGA 58.852 47.619 0.00 0.00 0.00 3.07
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
28 29 0.309922 CTGCTTGTTCAGTGTGCAGG 59.690 55.000 0.00 5.97 44.95 4.85
34 35 2.620115 ACACATTCCTGCTTGTTCAGTG 59.380 45.455 0.00 0.00 32.32 3.66
40 41 1.143684 ACCTCACACATTCCTGCTTGT 59.856 47.619 0.00 0.00 0.00 3.16
42 43 1.421268 TGACCTCACACATTCCTGCTT 59.579 47.619 0.00 0.00 0.00 3.91
43 44 1.059098 TGACCTCACACATTCCTGCT 58.941 50.000 0.00 0.00 0.00 4.24
46 47 3.679389 GTTCATGACCTCACACATTCCT 58.321 45.455 0.00 0.00 0.00 3.36
47 48 2.416547 CGTTCATGACCTCACACATTCC 59.583 50.000 0.00 0.00 0.00 3.01
48 49 2.159653 GCGTTCATGACCTCACACATTC 60.160 50.000 0.00 0.00 0.00 2.67
49 50 1.806542 GCGTTCATGACCTCACACATT 59.193 47.619 0.00 0.00 0.00 2.71
50 51 1.270785 TGCGTTCATGACCTCACACAT 60.271 47.619 0.00 0.00 0.00 3.21
52 53 0.512952 GTGCGTTCATGACCTCACAC 59.487 55.000 8.34 3.68 32.00 3.82
55 56 0.037326 GGAGTGCGTTCATGACCTCA 60.037 55.000 0.00 0.00 0.00 3.86
56 57 0.037326 TGGAGTGCGTTCATGACCTC 60.037 55.000 0.00 0.00 0.00 3.85
58 59 0.320771 ACTGGAGTGCGTTCATGACC 60.321 55.000 0.00 0.00 0.00 4.02
59 60 1.071605 GACTGGAGTGCGTTCATGAC 58.928 55.000 0.00 0.00 0.00 3.06
82 83 3.143728 AGTCACCGTTTGGATTGGTAAC 58.856 45.455 0.00 0.00 39.21 2.50
137 2474 1.524008 GGTGCACAAGCCCTTGGTAC 61.524 60.000 20.43 9.89 44.45 3.34
198 2539 1.216064 TGCCTGCATCTACCTCCAAT 58.784 50.000 0.00 0.00 0.00 3.16
199 2540 1.134007 CATGCCTGCATCTACCTCCAA 60.134 52.381 0.70 0.00 33.90 3.53
200 2541 0.471191 CATGCCTGCATCTACCTCCA 59.529 55.000 0.70 0.00 33.90 3.86
201 2542 3.319135 CATGCCTGCATCTACCTCC 57.681 57.895 0.70 0.00 33.90 4.30
321 2693 1.595093 GGATTCCCGGGCAAACTGTG 61.595 60.000 18.49 0.00 0.00 3.66
325 2697 0.973632 AAAAGGATTCCCGGGCAAAC 59.026 50.000 18.49 9.90 37.58 2.93
355 2727 3.710209 ACAGCTGGCTTAAATGAGACT 57.290 42.857 19.93 0.00 0.00 3.24
487 2924 5.346281 TGAAACAAAAACGAACAGCGAAATT 59.654 32.000 0.00 0.00 44.57 1.82
707 3425 5.154222 CAGAAATTAAGCGGAGGACAAAAC 58.846 41.667 0.00 0.00 0.00 2.43
737 3459 0.960861 ATCAGACGGACACTCGAGCA 60.961 55.000 13.61 0.00 0.00 4.26
738 3460 0.248296 GATCAGACGGACACTCGAGC 60.248 60.000 13.61 0.00 0.00 5.03
739 3461 1.087501 TGATCAGACGGACACTCGAG 58.912 55.000 11.84 11.84 0.00 4.04
740 3462 0.803117 GTGATCAGACGGACACTCGA 59.197 55.000 0.00 0.00 0.00 4.04
750 3472 3.561310 TGTTGACAAGCAAGTGATCAGAC 59.439 43.478 0.00 0.00 37.12 3.51
784 3513 5.105917 CCATCGCCATTTGTTTAGTTAAGGT 60.106 40.000 0.00 0.00 0.00 3.50
785 3514 5.339990 CCATCGCCATTTGTTTAGTTAAGG 58.660 41.667 0.00 0.00 0.00 2.69
786 3515 5.105917 ACCCATCGCCATTTGTTTAGTTAAG 60.106 40.000 0.00 0.00 0.00 1.85
986 3768 1.134401 ACTGAGACAAGGTGTGTGTGG 60.134 52.381 0.00 0.00 41.96 4.17
997 3779 0.819259 GGTTGGCTGCACTGAGACAA 60.819 55.000 0.50 0.00 38.73 3.18
1004 3786 1.329171 TTTGCTTGGTTGGCTGCACT 61.329 50.000 0.50 0.00 35.01 4.40
1051 3841 5.020132 TCTCTCTTGCTCTACCTAAGCTTT 58.980 41.667 3.20 0.00 40.50 3.51
1559 4399 8.914011 GGCATCTGTTAATTTAGGAAAATACCT 58.086 33.333 0.00 0.00 43.32 3.08
1576 4416 9.632638 AGTTTATATACATTTCAGGCATCTGTT 57.367 29.630 0.00 0.00 41.59 3.16
1696 4537 1.202770 GGCTGTGCCCCTTATTCGTAT 60.203 52.381 0.00 0.00 44.06 3.06
1751 4592 0.907230 GAGTGAGGGGCCTGAACTCT 60.907 60.000 19.21 8.94 35.31 3.24
1775 4616 3.056322 ACGAGACGTATGGCTTTTACCTT 60.056 43.478 0.00 0.00 38.73 3.50
1787 4628 0.385751 CATGAGGGCACGAGACGTAT 59.614 55.000 0.00 0.00 38.32 3.06
1803 4644 6.570672 ACCTATCATATCAAAGCAAGCATG 57.429 37.500 0.00 0.00 0.00 4.06
1805 4646 6.656270 CCATACCTATCATATCAAAGCAAGCA 59.344 38.462 0.00 0.00 0.00 3.91
1974 4822 5.444176 AGTCTTAGCTACCGTTACCTGTAT 58.556 41.667 0.00 0.00 0.00 2.29
1993 4841 6.268847 CCTAAGGCATCCATTAAGTAGAGTCT 59.731 42.308 0.00 0.00 0.00 3.24
2012 4860 2.016905 ATGGTCGAGGGATCCTAAGG 57.983 55.000 12.58 0.00 31.76 2.69
2076 4926 1.226802 CGTCACTCGGCTGATGGAG 60.227 63.158 0.00 0.00 36.36 3.86
2220 5071 2.158505 CCTACTCCGGATAGGGTCAAGA 60.159 54.545 22.62 0.00 41.52 3.02
2231 5082 0.040646 ATGTGGTCACCTACTCCGGA 59.959 55.000 2.93 2.93 0.00 5.14
2281 5132 5.990668 AGGGACTAAAATATTGCTCGACTT 58.009 37.500 0.00 0.00 36.02 3.01
2282 5133 5.615925 AGGGACTAAAATATTGCTCGACT 57.384 39.130 0.00 0.00 36.02 4.18
2322 5173 8.781196 CAGCGATAGTAAGAGTGGTAATACTTA 58.219 37.037 0.00 0.00 39.35 2.24
2347 5198 5.815222 CACGTCCCATATTGAAGTACATTCA 59.185 40.000 0.00 0.00 46.31 2.57
2351 5202 3.516300 ACCACGTCCCATATTGAAGTACA 59.484 43.478 0.00 0.00 0.00 2.90
2442 5296 4.533919 TGGTCAATATTTGCACCCAAAG 57.466 40.909 0.00 0.00 43.60 2.77
2528 5382 9.823647 TTTAAAAATAACACTTTTGGAGCATCA 57.176 25.926 0.00 0.00 36.25 3.07
2551 5406 8.637986 ACAAAATCAGTAGTCCAAAATGCTTTA 58.362 29.630 0.00 0.00 0.00 1.85
2553 5408 7.054491 ACAAAATCAGTAGTCCAAAATGCTT 57.946 32.000 0.00 0.00 0.00 3.91
2565 5420 6.507771 CGTGGCAAAACAAACAAAATCAGTAG 60.508 38.462 0.00 0.00 0.00 2.57
2567 5422 4.092675 CGTGGCAAAACAAACAAAATCAGT 59.907 37.500 0.00 0.00 0.00 3.41
2568 5423 4.328440 TCGTGGCAAAACAAACAAAATCAG 59.672 37.500 0.00 0.00 0.00 2.90
2581 5436 2.552599 TCATGGTAGTCGTGGCAAAA 57.447 45.000 0.00 0.00 33.31 2.44
2595 5450 5.488645 TCATCACGAAATGACATTCATGG 57.511 39.130 0.05 0.00 41.24 3.66


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

AutoCloner maintained by Alex Coulton.