Multiple sequence alignment - TraesCS6D01G081300

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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 TraesCS6D01G081300 chr6D 100.000 2604 0 0 1 2604 46860226 46862829 0.000000e+00 4809.0
1 TraesCS6D01G081300 chr6D 90.014 711 45 12 1734 2419 427314846 427315555 0.000000e+00 896.0
2 TraesCS6D01G081300 chr6D 89.474 703 43 10 1735 2419 192187980 192188669 0.000000e+00 859.0
3 TraesCS6D01G081300 chr6D 79.845 258 33 9 250 493 400726329 400726077 1.240000e-38 171.0
4 TraesCS6D01G081300 chr6D 72.892 166 39 6 1192 1354 420966666 420966828 5.000000e-03 52.8
5 TraesCS6D01G081300 chr6B 88.915 1281 71 21 411 1636 116106488 116107752 0.000000e+00 1513.0
6 TraesCS6D01G081300 chr6B 80.872 826 95 30 752 1543 116351762 116352558 2.230000e-165 592.0
7 TraesCS6D01G081300 chr6B 83.649 422 52 8 1 419 116105806 116106213 5.260000e-102 381.0
8 TraesCS6D01G081300 chr6B 90.909 66 5 1 1671 1736 116107843 116107907 1.280000e-13 87.9
9 TraesCS6D01G081300 chr6A 90.028 1053 54 14 600 1613 60492315 60493355 0.000000e+00 1315.0
10 TraesCS6D01G081300 chr6A 93.960 596 28 5 6 597 60491679 60492270 0.000000e+00 894.0
11 TraesCS6D01G081300 chr6A 81.265 822 87 36 752 1543 60716334 60717118 1.030000e-168 603.0
12 TraesCS6D01G081300 chr6A 90.526 95 4 3 1646 1739 60495818 60495908 1.270000e-23 121.0
13 TraesCS6D01G081300 chr3B 91.089 707 33 11 1734 2419 488548341 488547644 0.000000e+00 929.0
14 TraesCS6D01G081300 chr3B 96.639 119 3 1 2411 2529 49122370 49122253 2.040000e-46 196.0
15 TraesCS6D01G081300 chr1D 90.368 706 43 7 1738 2419 382776427 382777131 0.000000e+00 904.0
16 TraesCS6D01G081300 chr1D 88.730 701 49 14 1735 2419 282135185 282134499 0.000000e+00 830.0
17 TraesCS6D01G081300 chr1D 88.177 702 46 9 1754 2419 150953503 150954203 0.000000e+00 802.0
18 TraesCS6D01G081300 chr1D 87.606 710 54 13 1740 2419 299760902 299760197 0.000000e+00 793.0
19 TraesCS6D01G081300 chr1D 81.662 349 53 8 1123 1464 247123158 247122814 1.970000e-71 279.0
20 TraesCS6D01G081300 chr1D 81.579 342 56 5 1129 1467 246970460 246970123 2.550000e-70 276.0
21 TraesCS6D01G081300 chr1D 81.586 353 42 10 716 1063 246680323 246679989 1.190000e-68 270.0
22 TraesCS6D01G081300 chr1D 94.400 125 5 2 2411 2534 365897074 365897197 9.510000e-45 191.0
23 TraesCS6D01G081300 chr1D 81.743 241 30 6 732 968 247123821 247123591 3.420000e-44 189.0
24 TraesCS6D01G081300 chr1D 98.684 76 1 0 2529 2604 365898139 365898214 4.520000e-28 135.0
25 TraesCS6D01G081300 chr1D 82.895 152 19 4 816 967 246971071 246970927 2.100000e-26 130.0
26 TraesCS6D01G081300 chr1D 96.053 76 3 0 2529 2604 150955714 150955789 9.780000e-25 124.0
27 TraesCS6D01G081300 chr1D 83.505 97 11 4 399 492 77743055 77743149 4.620000e-13 86.1
28 TraesCS6D01G081300 chr7D 90.387 697 49 6 1740 2419 66594821 66594126 0.000000e+00 900.0
29 TraesCS6D01G081300 chr7D 89.660 706 46 8 1740 2419 591850972 591850268 0.000000e+00 874.0
30 TraesCS6D01G081300 chr7D 88.193 703 51 16 1740 2419 210385020 210384327 0.000000e+00 809.0
31 TraesCS6D01G081300 chr7D 91.086 359 13 4 2079 2419 525704838 525705195 3.920000e-128 468.0
32 TraesCS6D01G081300 chr7D 82.838 303 31 14 208 494 543391324 543391621 4.300000e-63 252.0
33 TraesCS6D01G081300 chr7D 78.478 381 53 18 130 493 535309889 535310257 3.370000e-54 222.0
34 TraesCS6D01G081300 chr7D 95.200 125 4 2 2411 2534 66593680 66593557 2.040000e-46 196.0
35 TraesCS6D01G081300 chr7D 95.200 125 4 2 2411 2534 612791308 612791185 2.040000e-46 196.0
36 TraesCS6D01G081300 chr7D 94.400 125 5 2 2411 2534 147588716 147588593 9.510000e-45 191.0
37 TraesCS6D01G081300 chr7D 77.358 318 42 18 139 441 495101222 495101524 7.460000e-36 161.0
38 TraesCS6D01G081300 chr7D 76.104 385 47 28 133 499 88715238 88714881 2.680000e-35 159.0
39 TraesCS6D01G081300 chr7D 98.684 76 1 0 2529 2604 612783020 612782945 4.520000e-28 135.0
40 TraesCS6D01G081300 chr7B 87.639 720 47 14 1734 2419 4239620 4240331 0.000000e+00 798.0
41 TraesCS6D01G081300 chr7B 82.415 381 39 15 130 494 586334397 586334765 9.050000e-80 307.0
42 TraesCS6D01G081300 chr4A 86.637 681 71 16 1734 2408 684523917 684523251 0.000000e+00 736.0
43 TraesCS6D01G081300 chr2A 85.794 718 63 14 1740 2419 764650559 764649843 0.000000e+00 725.0
44 TraesCS6D01G081300 chr2A 95.200 125 4 2 2411 2534 737050934 737051057 2.040000e-46 196.0
45 TraesCS6D01G081300 chr2A 76.111 360 59 18 147 494 707078909 707078565 2.070000e-36 163.0
46 TraesCS6D01G081300 chr2A 98.684 76 1 0 2529 2604 715251606 715251531 4.520000e-28 135.0
47 TraesCS6D01G081300 chr2A 92.647 68 3 2 375 441 59694689 59694755 2.130000e-16 97.1
48 TraesCS6D01G081300 chr1A 86.056 710 54 11 1745 2419 585365403 585364704 0.000000e+00 721.0
49 TraesCS6D01G081300 chr1A 82.991 341 50 6 1128 1464 300577193 300577529 4.210000e-78 302.0
50 TraesCS6D01G081300 chr1A 81.148 244 33 5 729 968 300576519 300576753 1.590000e-42 183.0
51 TraesCS6D01G081300 chr1A 78.696 230 37 6 741 967 300672132 300672352 2.700000e-30 143.0
52 TraesCS6D01G081300 chrUn 90.570 456 38 3 1740 2190 337136807 337136352 1.330000e-167 599.0
53 TraesCS6D01G081300 chrUn 90.570 456 38 3 1740 2190 347592010 347591555 1.330000e-167 599.0
54 TraesCS6D01G081300 chr7A 82.984 382 38 16 130 494 625379043 625379414 1.160000e-83 320.0
55 TraesCS6D01G081300 chr7A 94.400 125 5 2 2411 2534 605096868 605096991 9.510000e-45 191.0
56 TraesCS6D01G081300 chr1B 83.680 337 47 6 1132 1464 330991676 330992008 7.000000e-81 311.0
57 TraesCS6D01G081300 chr1B 83.237 346 36 9 716 1057 331363139 331363466 5.450000e-77 298.0
58 TraesCS6D01G081300 chr1B 81.579 342 57 4 1128 1466 331084241 331084579 7.100000e-71 278.0
59 TraesCS6D01G081300 chr1B 81.743 241 34 3 729 968 330991002 330991233 2.640000e-45 193.0
60 TraesCS6D01G081300 chr1B 77.821 257 40 13 716 967 331083501 331083745 2.700000e-30 143.0
61 TraesCS6D01G081300 chr1B 98.667 75 1 0 2529 2603 633308974 633309048 1.630000e-27 134.0
62 TraesCS6D01G081300 chr2D 79.946 369 53 11 138 490 645702301 645702664 4.300000e-63 252.0
63 TraesCS6D01G081300 chr2D 83.486 218 27 6 125 338 5302185 5302397 7.350000e-46 195.0
64 TraesCS6D01G081300 chr5D 78.042 378 61 15 133 493 547522424 547522052 4.360000e-53 219.0
65 TraesCS6D01G081300 chr5D 94.400 125 5 2 2411 2534 423831546 423831423 9.510000e-45 191.0
66 TraesCS6D01G081300 chr5D 96.053 76 3 0 2529 2604 539448265 539448340 9.780000e-25 124.0
67 TraesCS6D01G081300 chr5D 84.848 99 9 5 137 234 411613077 411612984 7.670000e-16 95.3
68 TraesCS6D01G081300 chr2B 77.411 394 69 15 125 504 6219743 6220130 1.570000e-52 217.0
69 TraesCS6D01G081300 chr2B 74.777 337 43 20 138 467 93052033 93052334 2.120000e-21 113.0
70 TraesCS6D01G081300 chr4D 77.895 380 55 19 134 493 507755005 507755375 2.630000e-50 209.0
71 TraesCS6D01G081300 chr4D 98.684 76 1 0 2529 2604 210461532 210461607 4.520000e-28 135.0
72 TraesCS6D01G081300 chr3A 94.400 125 5 2 2411 2534 13392810 13392933 9.510000e-45 191.0
73 TraesCS6D01G081300 chr3D 97.368 76 2 0 2529 2604 39170367 39170442 2.100000e-26 130.0
74 TraesCS6D01G081300 chr3D 97.368 76 2 0 2529 2604 417080201 417080276 2.100000e-26 130.0
75 TraesCS6D01G081300 chr3D 87.097 62 5 2 130 191 4400619 4400677 1.670000e-07 67.6
76 TraesCS6D01G081300 chr5B 81.667 120 14 6 126 244 545190720 545190608 2.760000e-15 93.5


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 TraesCS6D01G081300 chr6D 46860226 46862829 2603 False 4809.000000 4809 100.000000 1 2604 1 chr6D.!!$F1 2603
1 TraesCS6D01G081300 chr6D 427314846 427315555 709 False 896.000000 896 90.014000 1734 2419 1 chr6D.!!$F4 685
2 TraesCS6D01G081300 chr6D 192187980 192188669 689 False 859.000000 859 89.474000 1735 2419 1 chr6D.!!$F2 684
3 TraesCS6D01G081300 chr6B 116105806 116107907 2101 False 660.633333 1513 87.824333 1 1736 3 chr6B.!!$F2 1735
4 TraesCS6D01G081300 chr6B 116351762 116352558 796 False 592.000000 592 80.872000 752 1543 1 chr6B.!!$F1 791
5 TraesCS6D01G081300 chr6A 60491679 60495908 4229 False 776.666667 1315 91.504667 6 1739 3 chr6A.!!$F2 1733
6 TraesCS6D01G081300 chr6A 60716334 60717118 784 False 603.000000 603 81.265000 752 1543 1 chr6A.!!$F1 791
7 TraesCS6D01G081300 chr3B 488547644 488548341 697 True 929.000000 929 91.089000 1734 2419 1 chr3B.!!$R2 685
8 TraesCS6D01G081300 chr1D 382776427 382777131 704 False 904.000000 904 90.368000 1738 2419 1 chr1D.!!$F2 681
9 TraesCS6D01G081300 chr1D 282134499 282135185 686 True 830.000000 830 88.730000 1735 2419 1 chr1D.!!$R2 684
10 TraesCS6D01G081300 chr1D 299760197 299760902 705 True 793.000000 793 87.606000 1740 2419 1 chr1D.!!$R3 679
11 TraesCS6D01G081300 chr1D 150953503 150955789 2286 False 463.000000 802 92.115000 1754 2604 2 chr1D.!!$F3 850
12 TraesCS6D01G081300 chr1D 247122814 247123821 1007 True 234.000000 279 81.702500 732 1464 2 chr1D.!!$R5 732
13 TraesCS6D01G081300 chr1D 246970123 246971071 948 True 203.000000 276 82.237000 816 1467 2 chr1D.!!$R4 651
14 TraesCS6D01G081300 chr7D 591850268 591850972 704 True 874.000000 874 89.660000 1740 2419 1 chr7D.!!$R4 679
15 TraesCS6D01G081300 chr7D 210384327 210385020 693 True 809.000000 809 88.193000 1740 2419 1 chr7D.!!$R3 679
16 TraesCS6D01G081300 chr7D 66593557 66594821 1264 True 548.000000 900 92.793500 1740 2534 2 chr7D.!!$R7 794
17 TraesCS6D01G081300 chr7B 4239620 4240331 711 False 798.000000 798 87.639000 1734 2419 1 chr7B.!!$F1 685
18 TraesCS6D01G081300 chr4A 684523251 684523917 666 True 736.000000 736 86.637000 1734 2408 1 chr4A.!!$R1 674
19 TraesCS6D01G081300 chr2A 764649843 764650559 716 True 725.000000 725 85.794000 1740 2419 1 chr2A.!!$R3 679
20 TraesCS6D01G081300 chr1A 585364704 585365403 699 True 721.000000 721 86.056000 1745 2419 1 chr1A.!!$R1 674
21 TraesCS6D01G081300 chr1A 300576519 300577529 1010 False 242.500000 302 82.069500 729 1464 2 chr1A.!!$F2 735
22 TraesCS6D01G081300 chr1B 330991002 330992008 1006 False 252.000000 311 82.711500 729 1464 2 chr1B.!!$F3 735
23 TraesCS6D01G081300 chr1B 331083501 331084579 1078 False 210.500000 278 79.700000 716 1466 2 chr1B.!!$F4 750

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
220 224 0.178967 ACCCACCACAACATGCATGA 60.179 50.0 32.75 0.00 0.0 3.07 F
1482 2234 0.678395 AAACGGAAACCATGCATGCA 59.322 45.0 25.04 25.04 0.0 3.96 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1545 2297 0.462581 ATGTGGTATGGCGCTGTGAG 60.463 55.000 7.64 0.00 0.0 3.51 R
2551 7304 1.738099 GTCCAGCCACTGTACAGCG 60.738 63.158 22.90 13.51 0.0 5.18 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
158 162 5.607171 CCTAAATAGTTCATCCCCACTACCT 59.393 44.000 0.00 0.00 0.00 3.08
220 224 0.178967 ACCCACCACAACATGCATGA 60.179 50.000 32.75 0.00 0.00 3.07
223 227 1.887854 CCACCACAACATGCATGAGAA 59.112 47.619 32.75 0.00 0.00 2.87
224 228 2.296752 CCACCACAACATGCATGAGAAA 59.703 45.455 32.75 0.00 0.00 2.52
225 229 3.243805 CCACCACAACATGCATGAGAAAA 60.244 43.478 32.75 0.00 0.00 2.29
227 231 4.387559 CACCACAACATGCATGAGAAAATG 59.612 41.667 32.75 20.22 0.00 2.32
231 235 6.017770 CCACAACATGCATGAGAAAATGTTTT 60.018 34.615 32.75 9.72 40.36 2.43
232 236 7.067116 CACAACATGCATGAGAAAATGTTTTC 58.933 34.615 32.75 9.61 45.22 2.29
233 237 6.203338 ACAACATGCATGAGAAAATGTTTTCC 59.797 34.615 32.75 7.03 45.84 3.13
234 238 4.925054 ACATGCATGAGAAAATGTTTTCCG 59.075 37.500 32.75 0.18 45.84 4.30
291 295 2.296752 CACACATGCCACCTCATCAAAA 59.703 45.455 0.00 0.00 0.00 2.44
295 299 1.522668 TGCCACCTCATCAAAAGTCG 58.477 50.000 0.00 0.00 0.00 4.18
313 317 3.928992 AGTCGACTCAACATGCATGTAAG 59.071 43.478 31.55 29.35 40.80 2.34
467 758 7.165812 CAGTAAAATTTCTAATTGATTCCCGCG 59.834 37.037 0.00 0.00 0.00 6.46
495 786 5.474532 ACGTGTGTGGTATTCTCTAGTTACA 59.525 40.000 0.00 0.00 0.00 2.41
503 794 9.915629 GTGGTATTCTCTAGTTACATTATGAGG 57.084 37.037 0.00 0.00 0.00 3.86
597 890 0.871057 CACACACACACACACACACA 59.129 50.000 0.00 0.00 0.00 3.72
598 891 1.468127 CACACACACACACACACACAT 59.532 47.619 0.00 0.00 0.00 3.21
697 1032 9.447040 GATTAACGCGCATGATATAAGTATCTA 57.553 33.333 5.73 0.00 38.03 1.98
698 1033 8.836959 TTAACGCGCATGATATAAGTATCTAG 57.163 34.615 5.73 0.00 38.03 2.43
699 1034 6.438259 ACGCGCATGATATAAGTATCTAGT 57.562 37.500 5.73 0.00 38.03 2.57
743 1078 4.141551 TGCTCTTGCTCATCCAGTCATATT 60.142 41.667 0.00 0.00 40.48 1.28
920 1274 3.350219 TCTCTACAATTCAGTTGCCCC 57.650 47.619 0.00 0.00 41.69 5.80
978 1341 1.302383 ACACCGAGACTGAGAGAGCG 61.302 60.000 0.00 0.00 0.00 5.03
1184 1936 0.970937 ATTTCGACAGAGGCGAGGGA 60.971 55.000 0.00 0.00 39.14 4.20
1185 1937 0.970937 TTTCGACAGAGGCGAGGGAT 60.971 55.000 0.00 0.00 39.14 3.85
1186 1938 0.970937 TTCGACAGAGGCGAGGGATT 60.971 55.000 0.00 0.00 39.14 3.01
1358 2110 1.664649 CGAGTGCGACTCCAAGCAA 60.665 57.895 9.71 0.00 45.61 3.91
1467 2219 3.110178 GGTCCGACGCCTGAAACG 61.110 66.667 0.00 0.00 0.00 3.60
1468 2220 3.110178 GTCCGACGCCTGAAACGG 61.110 66.667 0.00 0.00 45.61 4.44
1470 2222 2.356553 CCGACGCCTGAAACGGAA 60.357 61.111 0.00 0.00 46.94 4.30
1471 2223 1.957186 CCGACGCCTGAAACGGAAA 60.957 57.895 0.00 0.00 46.94 3.13
1481 2233 1.336702 TGAAACGGAAACCATGCATGC 60.337 47.619 21.69 11.82 0.00 4.06
1482 2234 0.678395 AAACGGAAACCATGCATGCA 59.322 45.000 25.04 25.04 0.00 3.96
1483 2235 0.896923 AACGGAAACCATGCATGCAT 59.103 45.000 27.46 27.46 37.08 3.96
1545 2297 2.881352 GTCGACGGCAGTGCTAGC 60.881 66.667 16.11 8.10 0.00 3.42
1550 2302 2.262603 CGGCAGTGCTAGCTCACA 59.737 61.111 17.23 0.00 39.35 3.58
1627 2482 7.709613 AGAATAAAGTACGTTGTATGGATGGAC 59.290 37.037 4.15 0.00 0.00 4.02
1631 2486 1.487452 CGTTGTATGGATGGACGGCG 61.487 60.000 4.80 4.80 0.00 6.46
1742 4947 4.760204 GCTCTTGAGTTTTACTTAGGGCAA 59.240 41.667 8.83 0.00 36.94 4.52
1795 5000 0.549469 ACTTTTGAACCGTCTGGGGT 59.451 50.000 0.00 0.00 43.83 4.95
1852 5064 1.789576 AAATGGACCGTGGCCTCCTT 61.790 55.000 3.32 0.00 0.00 3.36
2036 5249 2.356553 CCAAAACCTCGCCGTCGA 60.357 61.111 0.00 0.00 43.28 4.20
2295 5612 1.386525 TACTATTCTTCGCCGCCCGT 61.387 55.000 0.00 0.00 38.35 5.28
2334 5651 4.718961 GGCCTCCAAGCTCATTTCTTATA 58.281 43.478 0.00 0.00 0.00 0.98
2424 5774 4.374702 CGCGCACAAGGTCACTGC 62.375 66.667 8.75 0.00 0.00 4.40
2426 5776 2.591429 CGCACAAGGTCACTGCCA 60.591 61.111 0.00 0.00 0.00 4.92
2491 6295 1.926511 GACAACTTGGCGATGGCAGG 61.927 60.000 1.01 0.93 42.47 4.85
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
102 106 1.429423 GCGCATTGCTACAGGAACC 59.571 57.895 0.30 0.00 41.73 3.62
158 162 8.625786 ATGTGCATGCATTGTAAGATAATAGA 57.374 30.769 25.64 0.00 0.00 1.98
187 191 1.686115 GGTGGGTCTTTGATGGGATGG 60.686 57.143 0.00 0.00 0.00 3.51
192 196 1.613437 GTTGTGGTGGGTCTTTGATGG 59.387 52.381 0.00 0.00 0.00 3.51
224 228 9.233649 TGGTATGAACTAATAACGGAAAACATT 57.766 29.630 0.00 0.00 0.00 2.71
225 229 8.795842 TGGTATGAACTAATAACGGAAAACAT 57.204 30.769 0.00 0.00 0.00 2.71
227 231 7.642586 GCATGGTATGAACTAATAACGGAAAAC 59.357 37.037 0.00 0.00 0.00 2.43
231 235 5.756347 GTGCATGGTATGAACTAATAACGGA 59.244 40.000 0.00 0.00 35.84 4.69
232 236 5.525745 TGTGCATGGTATGAACTAATAACGG 59.474 40.000 0.00 0.00 39.67 4.44
233 237 6.036626 TGTGTGCATGGTATGAACTAATAACG 59.963 38.462 0.00 0.00 39.67 3.18
234 238 7.315247 TGTGTGCATGGTATGAACTAATAAC 57.685 36.000 0.00 0.00 39.67 1.89
291 295 2.462456 ACATGCATGTTGAGTCGACT 57.538 45.000 26.61 20.18 37.90 4.18
467 758 2.028385 AGAGAATACCACACACGTTCCC 60.028 50.000 0.00 0.00 0.00 3.97
743 1078 6.203808 AGCTGTTAATCGTGATGTACTACA 57.796 37.500 0.00 0.00 0.00 2.74
978 1341 1.654775 CGCACGTACGTCTATACCGAC 60.655 57.143 19.94 1.53 0.00 4.79
1184 1936 4.143333 CACTCCGACGGCCCGAAT 62.143 66.667 11.71 0.00 0.00 3.34
1467 2219 2.479837 CATCATGCATGCATGGTTTCC 58.520 47.619 44.30 11.23 44.52 3.13
1481 2233 0.879839 TCACGGGCGTATGCATCATG 60.880 55.000 0.19 0.00 45.35 3.07
1482 2234 0.601046 CTCACGGGCGTATGCATCAT 60.601 55.000 0.19 0.00 45.35 2.45
1483 2235 1.227234 CTCACGGGCGTATGCATCA 60.227 57.895 0.19 0.00 45.35 3.07
1484 2236 2.598632 GCTCACGGGCGTATGCATC 61.599 63.158 0.19 0.00 45.35 3.91
1545 2297 0.462581 ATGTGGTATGGCGCTGTGAG 60.463 55.000 7.64 0.00 0.00 3.51
1550 2302 1.382522 CTGAAATGTGGTATGGCGCT 58.617 50.000 7.64 0.00 0.00 5.92
1627 2482 3.420214 ATGGTACGTAGCACCGCCG 62.420 63.158 28.13 0.00 39.04 6.46
1631 2486 6.907206 TTTTATTACATGGTACGTAGCACC 57.093 37.500 28.13 14.25 36.42 5.01
1662 2573 8.721478 ACAACTACAATGCAAAATACTAGACAG 58.279 33.333 0.00 0.00 0.00 3.51
1664 2575 8.175716 GGACAACTACAATGCAAAATACTAGAC 58.824 37.037 0.00 0.00 0.00 2.59
1667 4872 8.100791 AGAGGACAACTACAATGCAAAATACTA 58.899 33.333 0.00 0.00 0.00 1.82
1668 4873 6.942576 AGAGGACAACTACAATGCAAAATACT 59.057 34.615 0.00 0.00 0.00 2.12
1669 4874 7.145932 AGAGGACAACTACAATGCAAAATAC 57.854 36.000 0.00 0.00 0.00 1.89
1684 4889 3.973657 TCTGTAACAACGAGAGGACAAC 58.026 45.455 0.00 0.00 0.00 3.32
1802 5008 0.528470 GACCGTCTGTAGAAGCAGCT 59.472 55.000 0.00 0.00 36.49 4.24
1811 5017 3.897141 TTTGCATATGGACCGTCTGTA 57.103 42.857 4.56 0.00 0.00 2.74
1843 5055 3.517296 TTTTACATCACAAGGAGGCCA 57.483 42.857 5.01 0.00 0.00 5.36
2271 5588 0.938168 CGGCGAAGAATAGTACGGCC 60.938 60.000 0.00 0.00 45.68 6.13
2276 5593 1.361271 CGGGCGGCGAAGAATAGTA 59.639 57.895 12.98 0.00 0.00 1.82
2295 5612 3.452786 CGGCCAAGAGGAGCTCGA 61.453 66.667 7.83 0.00 36.89 4.04
2491 6295 5.907207 TGACATAGAAGATACAAGTGCTCC 58.093 41.667 0.00 0.00 0.00 4.70
2500 6304 7.475015 TGCAAATTGCTTGACATAGAAGATAC 58.525 34.615 19.34 0.00 45.31 2.24
2551 7304 1.738099 GTCCAGCCACTGTACAGCG 60.738 63.158 22.90 13.51 0.00 5.18


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

AutoCloner maintained by Alex Coulton.