Multiple sequence alignment - TraesCS3A01G030300

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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 TraesCS3A01G030300 chr3A 100.000 2734 0 0 1 2734 15998065 15995332 0.000000e+00 5049.0
1 TraesCS3A01G030300 chr3A 85.895 1028 87 34 915 1898 16072034 16073047 0.000000e+00 1042.0
2 TraesCS3A01G030300 chr3A 83.527 431 39 17 1472 1876 16265804 16265380 9.240000e-100 374.0
3 TraesCS3A01G030300 chr3A 81.585 467 67 7 1908 2355 16265323 16264857 4.300000e-98 368.0
4 TraesCS3A01G030300 chr3A 83.459 133 21 1 2224 2355 17357020 17356888 3.700000e-24 122.0
5 TraesCS3A01G030300 chr3B 88.770 1772 98 35 672 2357 12588668 12590424 0.000000e+00 2076.0
6 TraesCS3A01G030300 chr3B 92.579 822 43 13 1091 1898 13238841 13238024 0.000000e+00 1164.0
7 TraesCS3A01G030300 chr3B 83.894 1248 127 46 713 1898 13243933 13242698 0.000000e+00 1123.0
8 TraesCS3A01G030300 chr3B 92.535 777 42 11 1091 1855 13173219 13172447 0.000000e+00 1099.0
9 TraesCS3A01G030300 chr3B 91.632 478 23 7 1898 2358 13170961 13170484 0.000000e+00 645.0
10 TraesCS3A01G030300 chr3B 89.437 426 22 8 672 1084 13239288 13238873 1.450000e-142 516.0
11 TraesCS3A01G030300 chr3B 90.127 314 26 3 2422 2733 12590575 12590885 1.180000e-108 403.0
12 TraesCS3A01G030300 chr3B 86.364 374 37 7 713 1084 13443068 13443429 1.970000e-106 396.0
13 TraesCS3A01G030300 chr3B 88.502 287 29 4 2427 2710 13188035 13187750 7.250000e-91 344.0
14 TraesCS3A01G030300 chr3B 95.477 199 9 0 2159 2357 13188621 13188423 4.390000e-83 318.0
15 TraesCS3A01G030300 chr3B 83.801 321 20 8 672 978 13240446 13240144 2.680000e-70 276.0
16 TraesCS3A01G030300 chr3B 91.160 181 14 2 1 180 178980727 178980548 7.560000e-61 244.0
17 TraesCS3A01G030300 chr3B 94.309 123 7 0 2422 2544 13170264 13170142 3.590000e-44 189.0
18 TraesCS3A01G030300 chr3B 95.238 63 3 0 2247 2309 13408382 13408444 1.730000e-17 100.0
19 TraesCS3A01G030300 chr3D 92.937 1246 48 14 669 1898 5411558 5412779 0.000000e+00 1777.0
20 TraesCS3A01G030300 chr3D 82.969 1098 127 33 1091 2140 41216293 41217378 0.000000e+00 937.0
21 TraesCS3A01G030300 chr3D 85.317 647 73 14 1091 1722 41208167 41208806 0.000000e+00 649.0
22 TraesCS3A01G030300 chr3D 82.444 581 101 1 1161 1740 5387794 5387214 8.740000e-140 507.0
23 TraesCS3A01G030300 chr3D 86.093 453 38 11 1899 2328 5412811 5413261 5.330000e-127 464.0
24 TraesCS3A01G030300 chr3D 91.374 313 26 1 2422 2733 5413488 5413800 7.000000e-116 427.0
25 TraesCS3A01G030300 chr3D 91.322 242 11 4 844 1085 41207903 41208134 3.400000e-84 322.0
26 TraesCS3A01G030300 chr3D 91.220 205 10 4 874 1076 41216052 41216250 3.470000e-69 272.0
27 TraesCS3A01G030300 chr3D 80.319 376 48 14 1908 2260 5381067 5380695 7.510000e-66 261.0
28 TraesCS3A01G030300 chr3D 98.333 60 1 0 2352 2411 380271863 380271922 3.720000e-19 106.0
29 TraesCS3A01G030300 chr3D 93.939 66 3 1 1808 1872 5381195 5381130 6.230000e-17 99.0
30 TraesCS3A01G030300 chr1D 87.444 669 50 11 1 640 458444648 458445311 0.000000e+00 739.0
31 TraesCS3A01G030300 chr1D 89.960 498 41 7 175 667 160828232 160828725 3.840000e-178 634.0
32 TraesCS3A01G030300 chr4A 86.976 668 56 14 1 640 593091753 593091089 0.000000e+00 723.0
33 TraesCS3A01G030300 chr4A 86.527 668 59 14 1 640 592811492 592810828 0.000000e+00 706.0
34 TraesCS3A01G030300 chr4A 86.377 668 59 15 1 640 592525198 592524535 0.000000e+00 701.0
35 TraesCS3A01G030300 chr5A 87.029 663 57 15 1 643 619464715 619464062 0.000000e+00 721.0
36 TraesCS3A01G030300 chr5A 94.118 51 2 1 2674 2723 591368540 591368490 2.920000e-10 76.8
37 TraesCS3A01G030300 chr2A 86.686 676 56 13 1 648 629992531 629993200 0.000000e+00 719.0
38 TraesCS3A01G030300 chr6D 86.091 683 63 18 1 657 92486 93162 0.000000e+00 706.0
39 TraesCS3A01G030300 chr6D 90.812 468 36 5 175 640 438824741 438825203 1.080000e-173 619.0
40 TraesCS3A01G030300 chrUn 86.957 598 47 14 1 570 395014146 395013552 0.000000e+00 643.0
41 TraesCS3A01G030300 chrUn 81.585 467 67 8 1908 2355 296442513 296442979 4.300000e-98 368.0
42 TraesCS3A01G030300 chrUn 81.585 467 67 8 1908 2355 296447567 296448033 4.300000e-98 368.0
43 TraesCS3A01G030300 chrUn 89.925 268 24 2 713 978 36175385 36175651 2.610000e-90 342.0
44 TraesCS3A01G030300 chrUn 82.831 332 25 17 1571 1876 296442131 296442456 4.490000e-68 268.0
45 TraesCS3A01G030300 chrUn 82.831 332 25 17 1571 1876 296447185 296447510 4.490000e-68 268.0
46 TraesCS3A01G030300 chr2B 84.501 671 61 25 1 643 440523 439868 8.310000e-175 623.0
47 TraesCS3A01G030300 chr2B 84.862 436 35 9 1 408 164898427 164898859 7.050000e-111 411.0
48 TraesCS3A01G030300 chr2B 92.754 69 4 1 2344 2412 722081364 722081431 6.230000e-17 99.0
49 TraesCS3A01G030300 chr7B 89.200 500 46 6 175 673 627992652 627992160 3.870000e-173 617.0
50 TraesCS3A01G030300 chr7B 90.558 466 43 1 175 640 509850168 509850632 1.390000e-172 616.0
51 TraesCS3A01G030300 chr4D 90.773 466 38 3 175 640 404060267 404060727 3.870000e-173 617.0
52 TraesCS3A01G030300 chr4B 84.006 669 71 20 1 640 486688990 486688329 6.470000e-171 610.0
53 TraesCS3A01G030300 chr5D 88.469 503 51 6 175 673 35659085 35658586 3.900000e-168 601.0
54 TraesCS3A01G030300 chr5D 91.667 72 5 1 2343 2414 45177947 45178017 6.230000e-17 99.0
55 TraesCS3A01G030300 chr6A 96.721 61 2 0 2355 2415 199990863 199990923 4.820000e-18 102.0
56 TraesCS3A01G030300 chr6B 90.667 75 5 2 2339 2412 550782259 550782332 6.230000e-17 99.0
57 TraesCS3A01G030300 chr6B 90.541 74 5 2 2339 2411 550587857 550587929 2.240000e-16 97.1
58 TraesCS3A01G030300 chr6B 90.541 74 5 2 2339 2411 550803810 550803882 2.240000e-16 97.1
59 TraesCS3A01G030300 chr1A 90.541 74 5 2 2341 2412 117977853 117977926 2.240000e-16 97.1
60 TraesCS3A01G030300 chr7D 80.556 108 15 6 2308 2412 530766796 530766900 8.120000e-11 78.7


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 TraesCS3A01G030300 chr3A 15995332 15998065 2733 True 5049.000000 5049 100.000000 1 2734 1 chr3A.!!$R1 2733
1 TraesCS3A01G030300 chr3A 16072034 16073047 1013 False 1042.000000 1042 85.895000 915 1898 1 chr3A.!!$F1 983
2 TraesCS3A01G030300 chr3A 16264857 16265804 947 True 371.000000 374 82.556000 1472 2355 2 chr3A.!!$R3 883
3 TraesCS3A01G030300 chr3B 12588668 12590885 2217 False 1239.500000 2076 89.448500 672 2733 2 chr3B.!!$F3 2061
4 TraesCS3A01G030300 chr3B 13238024 13243933 5909 True 769.750000 1164 87.427750 672 1898 4 chr3B.!!$R4 1226
5 TraesCS3A01G030300 chr3B 13170142 13173219 3077 True 644.333333 1099 92.825333 1091 2544 3 chr3B.!!$R2 1453
6 TraesCS3A01G030300 chr3B 13187750 13188621 871 True 331.000000 344 91.989500 2159 2710 2 chr3B.!!$R3 551
7 TraesCS3A01G030300 chr3D 5411558 5413800 2242 False 889.333333 1777 90.134667 669 2733 3 chr3D.!!$F2 2064
8 TraesCS3A01G030300 chr3D 41216052 41217378 1326 False 604.500000 937 87.094500 874 2140 2 chr3D.!!$F4 1266
9 TraesCS3A01G030300 chr3D 5387214 5387794 580 True 507.000000 507 82.444000 1161 1740 1 chr3D.!!$R1 579
10 TraesCS3A01G030300 chr3D 41207903 41208806 903 False 485.500000 649 88.319500 844 1722 2 chr3D.!!$F3 878
11 TraesCS3A01G030300 chr1D 458444648 458445311 663 False 739.000000 739 87.444000 1 640 1 chr1D.!!$F2 639
12 TraesCS3A01G030300 chr4A 593091089 593091753 664 True 723.000000 723 86.976000 1 640 1 chr4A.!!$R3 639
13 TraesCS3A01G030300 chr4A 592810828 592811492 664 True 706.000000 706 86.527000 1 640 1 chr4A.!!$R2 639
14 TraesCS3A01G030300 chr4A 592524535 592525198 663 True 701.000000 701 86.377000 1 640 1 chr4A.!!$R1 639
15 TraesCS3A01G030300 chr5A 619464062 619464715 653 True 721.000000 721 87.029000 1 643 1 chr5A.!!$R2 642
16 TraesCS3A01G030300 chr2A 629992531 629993200 669 False 719.000000 719 86.686000 1 648 1 chr2A.!!$F1 647
17 TraesCS3A01G030300 chr6D 92486 93162 676 False 706.000000 706 86.091000 1 657 1 chr6D.!!$F1 656
18 TraesCS3A01G030300 chrUn 395013552 395014146 594 True 643.000000 643 86.957000 1 570 1 chrUn.!!$R1 569
19 TraesCS3A01G030300 chrUn 296442131 296442979 848 False 318.000000 368 82.208000 1571 2355 2 chrUn.!!$F2 784
20 TraesCS3A01G030300 chrUn 296447185 296448033 848 False 318.000000 368 82.208000 1571 2355 2 chrUn.!!$F3 784
21 TraesCS3A01G030300 chr2B 439868 440523 655 True 623.000000 623 84.501000 1 643 1 chr2B.!!$R1 642
22 TraesCS3A01G030300 chr4B 486688329 486688990 661 True 610.000000 610 84.006000 1 640 1 chr4B.!!$R1 639

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
721 4705 2.613026 TTTTTGTGAGACCGAGCAGA 57.387 45.0 0.0 0.0 0.0 4.26 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2418 8051 0.106708 AGCACCATAGTGGGCGTATG 59.893 55.0 0.52 0.0 43.37 2.39 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
68 69 6.271159 TGCCATACATGTCATAGGTATTGGTA 59.729 38.462 0.00 0.00 34.25 3.25
85 86 7.226720 GGTATTGGTACCTGTTTCATCACTATG 59.773 40.741 14.36 0.00 45.78 2.23
136 138 4.546829 ATTTTTGTCATGCATGCCTCTT 57.453 36.364 22.25 0.51 0.00 2.85
237 267 8.682936 ATTTCTTTTATAGCGGACATCTCATT 57.317 30.769 0.00 0.00 0.00 2.57
252 282 7.093333 GGACATCTCATTTTTATTGGGTCCTTT 60.093 37.037 0.00 0.00 38.38 3.11
293 323 5.221244 GCATGTCCTTATTTATTGGGTGTCC 60.221 44.000 0.00 0.00 0.00 4.02
691 3508 4.934356 AGATTTTGAGATGCCCTAAACCA 58.066 39.130 0.00 0.00 0.00 3.67
721 4705 2.613026 TTTTTGTGAGACCGAGCAGA 57.387 45.000 0.00 0.00 0.00 4.26
740 4724 7.148573 CGAGCAGATTATACGCATAAAGGAAAT 60.149 37.037 0.00 0.00 30.50 2.17
885 4870 3.368116 CGAGTTCGGGTTGGACTTCTATT 60.368 47.826 0.00 0.00 35.37 1.73
1119 5175 7.208777 TCACGAATCGATCTTAGTACTACTCT 58.791 38.462 10.55 0.00 0.00 3.24
1302 5373 3.655486 ACCACATCGTTGTATCGTGAAA 58.345 40.909 0.00 0.00 33.76 2.69
1415 5486 0.387878 GCCTCACCATCGATAGCTCG 60.388 60.000 0.00 0.00 46.41 5.03
1575 5646 5.609088 CGTTAAGGAAACATCGACAAGAAG 58.391 41.667 0.00 0.00 38.03 2.85
1651 5723 2.306805 TCTTTGACACCATCCTGCAGAT 59.693 45.455 17.39 3.92 34.66 2.90
1779 5853 5.480422 TCTGTTCTAGGATTGTTGCTGACTA 59.520 40.000 0.00 0.00 0.00 2.59
1919 7482 3.907474 TCCTTCTGTGTTAGGTGGATTCA 59.093 43.478 0.00 0.00 33.15 2.57
1937 7500 1.400142 TCAGAAAACAATATGGCCGCG 59.600 47.619 0.00 0.00 0.00 6.46
1987 7550 1.238439 CTGGATTTGCTGTCAACGGT 58.762 50.000 0.00 0.00 30.75 4.83
2024 7592 8.789762 GGTTTACTTGTATGTACATTCCAAGTT 58.210 33.333 34.45 25.31 39.85 2.66
2043 7611 3.749609 AGTTATTTACCACCTTCACGCAC 59.250 43.478 0.00 0.00 0.00 5.34
2044 7612 1.153353 ATTTACCACCTTCACGCACG 58.847 50.000 0.00 0.00 0.00 5.34
2045 7613 0.179078 TTTACCACCTTCACGCACGT 60.179 50.000 0.00 0.00 0.00 4.49
2047 7615 0.672889 TACCACCTTCACGCACGTAA 59.327 50.000 0.00 0.00 0.00 3.18
2048 7616 0.034337 ACCACCTTCACGCACGTAAT 59.966 50.000 0.00 0.00 0.00 1.89
2111 7684 5.778862 CACGGGAATAATTTGAAAGTTGGT 58.221 37.500 0.00 0.00 0.00 3.67
2128 7701 1.273606 TGGTGGTGTTTGGTGTTGTTG 59.726 47.619 0.00 0.00 0.00 3.33
2152 7725 6.216662 TGGGGATAGTTTTAGAACATGAAGGA 59.783 38.462 0.00 0.00 38.26 3.36
2153 7726 7.116736 GGGGATAGTTTTAGAACATGAAGGAA 58.883 38.462 0.00 0.00 38.26 3.36
2154 7727 7.780271 GGGGATAGTTTTAGAACATGAAGGAAT 59.220 37.037 0.00 0.00 38.26 3.01
2314 7901 3.659786 TCACCTTTATTCCTCACACGTG 58.340 45.455 15.48 15.48 0.00 4.49
2358 7945 6.656693 AGCAGCATGAAAGTGAAATAAGTACT 59.343 34.615 0.00 0.00 39.69 2.73
2359 7946 7.175641 AGCAGCATGAAAGTGAAATAAGTACTT 59.824 33.333 13.68 13.68 39.69 2.24
2360 7947 7.483059 GCAGCATGAAAGTGAAATAAGTACTTC 59.517 37.037 12.39 0.00 39.69 3.01
2361 7948 7.965107 CAGCATGAAAGTGAAATAAGTACTTCC 59.035 37.037 12.39 1.11 39.69 3.46
2364 7993 8.669243 CATGAAAGTGAAATAAGTACTTCCTCC 58.331 37.037 12.39 1.46 33.82 4.30
2365 7994 6.872020 TGAAAGTGAAATAAGTACTTCCTCCG 59.128 38.462 12.39 0.00 33.82 4.63
2367 7996 6.356186 AGTGAAATAAGTACTTCCTCCGTT 57.644 37.500 12.39 0.00 0.00 4.44
2371 8000 6.664816 TGAAATAAGTACTTCCTCCGTTCCTA 59.335 38.462 12.39 0.00 0.00 2.94
2372 8001 7.178983 TGAAATAAGTACTTCCTCCGTTCCTAA 59.821 37.037 12.39 0.00 0.00 2.69
2373 8002 7.486407 AATAAGTACTTCCTCCGTTCCTAAA 57.514 36.000 12.39 0.00 0.00 1.85
2375 8004 8.773033 ATAAGTACTTCCTCCGTTCCTAAATA 57.227 34.615 12.39 0.00 0.00 1.40
2379 8008 8.858094 AGTACTTCCTCCGTTCCTAAATATAAG 58.142 37.037 0.00 0.00 0.00 1.73
2381 8014 7.724287 ACTTCCTCCGTTCCTAAATATAAGTC 58.276 38.462 0.00 0.00 0.00 3.01
2425 8332 7.063780 ACAAACTACATACAAACTACATACGCC 59.936 37.037 0.00 0.00 0.00 5.68
2486 8394 0.327924 CCATGCAGGACAAGTACCCA 59.672 55.000 0.00 0.00 41.22 4.51
2497 8405 1.114722 AAGTACCCAACCGTCACCGA 61.115 55.000 0.00 0.00 35.63 4.69
2550 8458 1.542375 ACTCCTCCCATTGGGCAGT 60.542 57.895 17.60 14.65 43.94 4.40
2595 8503 9.579932 GAACCATTCCTAAGGATTTCATTCTAT 57.420 33.333 0.00 0.00 0.00 1.98
2619 8527 5.982890 AATGAAACAACACCCATAGGAAG 57.017 39.130 0.00 0.00 36.73 3.46
2627 8536 6.074648 ACAACACCCATAGGAAGAAAAATCA 58.925 36.000 0.00 0.00 36.73 2.57
2640 8549 7.618512 AGGAAGAAAAATCATGGATCACATTCT 59.381 33.333 0.00 0.00 37.84 2.40
2655 8564 7.604545 GGATCACATTCTTATAAAGCTCCCTAC 59.395 40.741 0.00 0.00 0.00 3.18
2669 8578 1.555075 TCCCTACGAATCAAAGCAGCT 59.445 47.619 0.00 0.00 0.00 4.24
2672 8581 2.863137 CCTACGAATCAAAGCAGCTCTC 59.137 50.000 0.00 0.00 0.00 3.20
2710 8620 3.845781 ACATCTCAAACCGCCTCATAT 57.154 42.857 0.00 0.00 0.00 1.78
2715 8625 0.751277 CAAACCGCCTCATATGCCCA 60.751 55.000 0.00 0.00 0.00 5.36
2733 8643 2.361104 GGCGGGCTGACCATTCAA 60.361 61.111 0.00 0.00 40.22 2.69
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
15 16 4.046286 AGTGATGAAATAGGGGCACAAA 57.954 40.909 0.00 0.00 0.00 2.83
252 282 7.669427 AGGACATGCATGACAAGAAATAAAAA 58.331 30.769 32.75 0.00 0.00 1.94
322 352 4.922206 ACACCTCAGCAAAATCAGGATTA 58.078 39.130 0.00 0.00 0.00 1.75
397 428 8.917088 ACTATTTAGGCAGCAATGTTAATCAAT 58.083 29.630 0.00 0.00 0.00 2.57
546 582 8.470805 ACCCGCAATACATATCAAATGTTTTTA 58.529 29.630 0.00 0.00 33.76 1.52
664 704 8.951243 GGTTTAGGGCATCTCAAAATCTATATC 58.049 37.037 0.00 0.00 0.00 1.63
665 705 8.448008 TGGTTTAGGGCATCTCAAAATCTATAT 58.552 33.333 0.00 0.00 0.00 0.86
666 706 7.811282 TGGTTTAGGGCATCTCAAAATCTATA 58.189 34.615 0.00 0.00 0.00 1.31
667 707 6.672593 TGGTTTAGGGCATCTCAAAATCTAT 58.327 36.000 0.00 0.00 0.00 1.98
721 4705 6.708949 ACCGACATTTCCTTTATGCGTATAAT 59.291 34.615 6.79 0.00 0.00 1.28
740 4724 0.752658 CCAGCATAGATCCACCGACA 59.247 55.000 0.00 0.00 0.00 4.35
885 4870 4.599041 AGCAAGGCTGATTGTGGTTATAA 58.401 39.130 0.00 0.00 37.57 0.98
1004 4992 4.100653 TGCTAGTCTCCTTCATCAATCCAG 59.899 45.833 0.00 0.00 0.00 3.86
1089 5140 8.928270 AGTACTAAGATCGATTCGTGAAATTT 57.072 30.769 5.89 0.00 0.00 1.82
1415 5486 8.090831 TGGATACTATGTCTGATAGTTTGCATC 58.909 37.037 0.00 0.00 36.38 3.91
1467 5538 2.088423 TGCCAAGTAAAATAGCCCACG 58.912 47.619 0.00 0.00 0.00 4.94
1575 5646 7.272037 TCAATAGTTGTTTCCTCCTTTTGTC 57.728 36.000 0.00 0.00 0.00 3.18
1651 5723 2.895404 ACTAGCCTTTTCACAGACGGTA 59.105 45.455 0.00 0.00 0.00 4.02
1788 5862 7.979786 AGGACTCTCAAGAAGGAATATGTAA 57.020 36.000 0.00 0.00 0.00 2.41
1789 5863 7.231722 GCTAGGACTCTCAAGAAGGAATATGTA 59.768 40.741 0.00 0.00 0.00 2.29
1790 5864 6.041523 GCTAGGACTCTCAAGAAGGAATATGT 59.958 42.308 0.00 0.00 0.00 2.29
1791 5865 6.041409 TGCTAGGACTCTCAAGAAGGAATATG 59.959 42.308 0.00 0.00 0.00 1.78
1793 5867 5.519808 TGCTAGGACTCTCAAGAAGGAATA 58.480 41.667 0.00 0.00 0.00 1.75
1795 5869 3.766591 CTGCTAGGACTCTCAAGAAGGAA 59.233 47.826 0.00 0.00 0.00 3.36
1796 5870 3.010696 TCTGCTAGGACTCTCAAGAAGGA 59.989 47.826 0.00 0.00 0.00 3.36
1919 7482 0.738389 CCGCGGCCATATTGTTTTCT 59.262 50.000 14.67 0.00 0.00 2.52
1937 7500 5.684550 AGTGTGTTCGACTAAAATTTCCC 57.315 39.130 0.00 0.00 0.00 3.97
1968 7531 1.238439 ACCGTTGACAGCAAATCCAG 58.762 50.000 0.00 0.00 35.42 3.86
2024 7592 2.288948 ACGTGCGTGAAGGTGGTAAATA 60.289 45.455 0.00 0.00 0.00 1.40
2111 7684 0.898320 CCCAACAACACCAAACACCA 59.102 50.000 0.00 0.00 0.00 4.17
2128 7701 6.659824 TCCTTCATGTTCTAAAACTATCCCC 58.340 40.000 0.00 0.00 36.30 4.81
2152 7725 7.881643 TTTGCAAATGTTAATGTCGCTTATT 57.118 28.000 8.05 0.00 0.00 1.40
2153 7726 7.464444 GCATTTGCAAATGTTAATGTCGCTTAT 60.464 33.333 38.75 8.76 45.77 1.73
2154 7727 6.183360 GCATTTGCAAATGTTAATGTCGCTTA 60.183 34.615 38.75 6.05 45.77 3.09
2157 7743 4.325386 GCATTTGCAAATGTTAATGTCGC 58.675 39.130 38.75 24.64 45.77 5.19
2182 7768 8.222637 AGTACCAAACAAAACCTAAACTCCTAT 58.777 33.333 0.00 0.00 0.00 2.57
2358 7945 7.909485 AGACTTATATTTAGGAACGGAGGAA 57.091 36.000 0.00 0.00 0.00 3.36
2359 7946 7.909485 AAGACTTATATTTAGGAACGGAGGA 57.091 36.000 0.00 0.00 0.00 3.71
2360 7947 8.959705 AAAAGACTTATATTTAGGAACGGAGG 57.040 34.615 0.00 0.00 0.00 4.30
2399 8032 7.063780 GGCGTATGTAGTTTGTATGTAGTTTGT 59.936 37.037 0.00 0.00 0.00 2.83
2400 8033 7.396419 GGCGTATGTAGTTTGTATGTAGTTTG 58.604 38.462 0.00 0.00 0.00 2.93
2402 8035 6.044682 GGGCGTATGTAGTTTGTATGTAGTT 58.955 40.000 0.00 0.00 0.00 2.24
2403 8036 5.127519 TGGGCGTATGTAGTTTGTATGTAGT 59.872 40.000 0.00 0.00 0.00 2.73
2404 8037 5.461078 GTGGGCGTATGTAGTTTGTATGTAG 59.539 44.000 0.00 0.00 0.00 2.74
2405 8038 5.127519 AGTGGGCGTATGTAGTTTGTATGTA 59.872 40.000 0.00 0.00 0.00 2.29
2406 8039 4.081309 AGTGGGCGTATGTAGTTTGTATGT 60.081 41.667 0.00 0.00 0.00 2.29
2408 8041 4.748277 AGTGGGCGTATGTAGTTTGTAT 57.252 40.909 0.00 0.00 0.00 2.29
2410 8043 4.439057 CATAGTGGGCGTATGTAGTTTGT 58.561 43.478 0.00 0.00 0.00 2.83
2411 8044 3.807622 CCATAGTGGGCGTATGTAGTTTG 59.192 47.826 0.00 0.00 32.67 2.93
2412 8045 3.453353 ACCATAGTGGGCGTATGTAGTTT 59.547 43.478 0.52 0.00 43.37 2.66
2413 8046 3.036091 ACCATAGTGGGCGTATGTAGTT 58.964 45.455 0.52 0.00 43.37 2.24
2415 8048 2.866460 GCACCATAGTGGGCGTATGTAG 60.866 54.545 0.52 0.00 43.37 2.74
2418 8051 0.106708 AGCACCATAGTGGGCGTATG 59.893 55.000 0.52 0.00 43.37 2.39
2420 8053 0.973496 TGAGCACCATAGTGGGCGTA 60.973 55.000 0.52 0.00 43.37 4.42
2425 8332 1.942657 CGGATTTGAGCACCATAGTGG 59.057 52.381 0.00 0.00 44.69 4.00
2497 8405 1.068585 GTTGGTTCGACGTGGTCCT 59.931 57.895 0.00 0.00 0.00 3.85
2550 8458 2.363795 ATCCGACCGGCAAGGAGA 60.364 61.111 16.60 0.17 45.00 3.71
2587 8495 8.642935 TGGGTGTTGTTTCATTTATAGAATGA 57.357 30.769 0.00 0.00 35.08 2.57
2595 8503 7.235079 TCTTCCTATGGGTGTTGTTTCATTTA 58.765 34.615 0.00 0.00 0.00 1.40
2627 8536 6.944862 GGGAGCTTTATAAGAATGTGATCCAT 59.055 38.462 0.00 0.00 34.36 3.41
2640 8549 6.482308 GCTTTGATTCGTAGGGAGCTTTATAA 59.518 38.462 0.00 0.00 0.00 0.98
2655 8564 2.604011 CTCTGAGAGCTGCTTTGATTCG 59.396 50.000 2.53 0.00 0.00 3.34
2669 8578 1.028130 CGGCTGTAGATGCTCTGAGA 58.972 55.000 9.28 0.00 0.00 3.27
2672 8581 1.134995 TGTTCGGCTGTAGATGCTCTG 60.135 52.381 0.00 0.00 0.00 3.35
2715 8625 2.905996 TTGAATGGTCAGCCCGCCT 61.906 57.895 0.00 0.00 34.49 5.52


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

AutoCloner maintained by Alex Coulton.