Multiple sequence alignment - TraesCS2D01G187700

Loading Multiple Alignment...

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 TraesCS2D01G187700 chr2D 100.000 2783 0 0 1 2783 131315790 131318572 0.000000e+00 5140.0
1 TraesCS2D01G187700 chr2D 82.900 1000 118 29 1216 2189 131360469 131361441 0.000000e+00 850.0
2 TraesCS2D01G187700 chr2D 87.712 472 52 5 1348 1818 131303396 131303862 1.880000e-151 545.0
3 TraesCS2D01G187700 chr2D 77.179 1021 158 44 1162 2140 131284463 131285450 2.460000e-145 525.0
4 TraesCS2D01G187700 chr2D 77.852 745 128 18 895 1627 131360119 131360838 7.120000e-116 427.0
5 TraesCS2D01G187700 chr2D 86.932 176 13 1 705 880 131359905 131360070 3.660000e-44 189.0
6 TraesCS2D01G187700 chr2D 84.000 175 9 2 705 879 131294986 131295141 1.730000e-32 150.0
7 TraesCS2D01G187700 chr2D 84.127 63 7 3 2280 2341 427328312 427328252 1.080000e-04 58.4
8 TraesCS2D01G187700 chr2A 93.320 1512 80 11 890 2384 137951163 137952670 0.000000e+00 2213.0
9 TraesCS2D01G187700 chr2A 83.046 1392 159 50 890 2251 138084279 138085623 0.000000e+00 1192.0
10 TraesCS2D01G187700 chr2A 83.882 850 106 19 1011 1848 137936079 137936909 0.000000e+00 782.0
11 TraesCS2D01G187700 chr2A 82.536 773 95 18 890 1656 137942253 137942991 0.000000e+00 643.0
12 TraesCS2D01G187700 chr2A 90.551 381 35 1 2403 2783 137952658 137953037 1.150000e-138 503.0
13 TraesCS2D01G187700 chr2A 83.896 385 59 1 1217 1601 138084717 138085098 5.660000e-97 364.0
14 TraesCS2D01G187700 chr2A 80.963 436 67 9 1426 1848 137942800 137943232 5.750000e-87 331.0
15 TraesCS2D01G187700 chr2A 97.838 185 4 0 696 880 137950927 137951111 1.240000e-83 320.0
16 TraesCS2D01G187700 chr2A 93.590 78 5 0 705 782 137942043 137942120 1.750000e-22 117.0
17 TraesCS2D01G187700 chr2A 97.959 49 1 0 809 857 138084166 138084214 4.940000e-13 86.1
18 TraesCS2D01G187700 chr2B 93.263 1143 64 4 890 2022 184909560 184910699 0.000000e+00 1672.0
19 TraesCS2D01G187700 chr2B 81.149 1114 150 38 890 1982 184876923 184877997 0.000000e+00 839.0
20 TraesCS2D01G187700 chr2B 88.294 598 66 4 974 1568 184899799 184900395 0.000000e+00 713.0
21 TraesCS2D01G187700 chr2B 79.077 975 120 43 1348 2279 184800685 184801618 6.640000e-166 593.0
22 TraesCS2D01G187700 chr2B 82.768 708 77 18 899 1599 184930550 184931219 8.590000e-165 590.0
23 TraesCS2D01G187700 chr2B 85.130 538 51 16 890 1426 184800138 184800647 8.830000e-145 523.0
24 TraesCS2D01G187700 chr2B 79.781 732 109 22 1427 2129 184900170 184900891 1.930000e-136 496.0
25 TraesCS2D01G187700 chr2B 89.446 379 38 2 2403 2781 184912235 184912611 6.970000e-131 477.0
26 TraesCS2D01G187700 chr2B 78.766 697 105 31 918 1599 184789291 184789959 7.120000e-116 427.0
27 TraesCS2D01G187700 chr2B 78.343 531 67 26 1631 2149 184789877 184790371 1.620000e-77 300.0
28 TraesCS2D01G187700 chr2B 95.652 184 8 0 2019 2202 184910855 184911038 2.100000e-76 296.0
29 TraesCS2D01G187700 chr2B 94.241 191 5 1 696 880 184909318 184909508 1.260000e-73 287.0
30 TraesCS2D01G187700 chr2B 76.705 528 65 32 1750 2247 184952257 184952756 9.960000e-60 241.0
31 TraesCS2D01G187700 chr2B 86.207 174 14 1 706 879 184928205 184928368 2.200000e-41 180.0
32 TraesCS2D01G187700 chr2B 78.802 217 40 4 2456 2670 29071040 29070828 1.040000e-29 141.0
33 TraesCS2D01G187700 chr2B 82.716 162 9 2 705 866 184799935 184800077 2.910000e-25 126.0
34 TraesCS2D01G187700 chr2B 88.000 75 8 1 2311 2384 462731612 462731686 1.370000e-13 87.9
35 TraesCS2D01G187700 chr7D 89.612 722 48 17 2 700 434163474 434162757 0.000000e+00 893.0
36 TraesCS2D01G187700 chr7D 88.160 701 54 18 7 680 399424688 399425386 0.000000e+00 808.0
37 TraesCS2D01G187700 chr6D 88.951 715 43 19 7 696 126427608 126426905 0.000000e+00 850.0
38 TraesCS2D01G187700 chr6D 88.187 728 44 27 1 700 414773688 414774401 0.000000e+00 830.0
39 TraesCS2D01G187700 chr6D 91.111 45 4 0 2297 2341 7222623 7222579 8.320000e-06 62.1
40 TraesCS2D01G187700 chr3D 88.520 723 54 20 1 697 535498693 535499412 0.000000e+00 848.0
41 TraesCS2D01G187700 chr3D 88.563 717 49 19 4 696 413622656 413623363 0.000000e+00 839.0
42 TraesCS2D01G187700 chr3D 77.143 245 50 6 2409 2650 419597401 419597160 1.340000e-28 137.0
43 TraesCS2D01G187700 chr3D 84.615 117 16 2 2578 2693 58204398 58204513 6.300000e-22 115.0
44 TraesCS2D01G187700 chr3D 97.727 44 1 0 2305 2348 419597473 419597430 2.970000e-10 76.8
45 TraesCS2D01G187700 chr3D 81.818 88 15 1 2298 2384 350927426 350927339 3.840000e-09 73.1
46 TraesCS2D01G187700 chr3D 89.796 49 5 0 2295 2343 541629879 541629927 2.310000e-06 63.9
47 TraesCS2D01G187700 chr1D 88.112 715 56 19 1 696 454555617 454554913 0.000000e+00 822.0
48 TraesCS2D01G187700 chr6A 86.864 708 61 22 2 696 373135168 373135856 0.000000e+00 763.0
49 TraesCS2D01G187700 chr4A 86.408 721 59 26 1 698 605067668 605068372 0.000000e+00 752.0
50 TraesCS2D01G187700 chr4A 93.333 45 3 0 2299 2343 629309577 629309533 1.790000e-07 67.6
51 TraesCS2D01G187700 chr4A 90.000 50 5 0 2292 2341 485691466 485691515 6.430000e-07 65.8
52 TraesCS2D01G187700 chr4A 93.182 44 3 0 2298 2341 743561267 743561224 6.430000e-07 65.8
53 TraesCS2D01G187700 chr7B 77.331 622 87 27 913 1506 604334529 604335124 4.470000e-83 318.0
54 TraesCS2D01G187700 chr7B 84.375 64 6 2 2279 2338 489419067 489419130 2.990000e-05 60.2
55 TraesCS2D01G187700 chr5D 79.524 210 34 8 2561 2767 68130387 68130184 1.040000e-29 141.0
56 TraesCS2D01G187700 chr5D 86.792 53 7 0 2294 2346 558966914 558966862 2.990000e-05 60.2
57 TraesCS2D01G187700 chr3B 80.588 170 33 0 2424 2593 412055348 412055179 6.250000e-27 132.0
58 TraesCS2D01G187700 chr3B 95.652 46 2 0 2298 2343 449484541 449484496 1.070000e-09 75.0
59 TraesCS2D01G187700 chr3B 90.566 53 3 2 2290 2341 586721661 586721610 4.970000e-08 69.4
60 TraesCS2D01G187700 chr7A 83.168 101 14 2 774 871 642380503 642380603 3.820000e-14 89.8
61 TraesCS2D01G187700 chr7A 88.679 53 5 1 2289 2341 16605384 16605435 2.310000e-06 63.9
62 TraesCS2D01G187700 chr6B 90.566 53 2 3 2290 2341 506729290 506729340 1.790000e-07 67.6
63 TraesCS2D01G187700 chr6B 91.489 47 3 1 2295 2341 23635167 23635212 2.310000e-06 63.9
64 TraesCS2D01G187700 chr5A 89.091 55 3 3 2290 2341 482828999 482828945 6.430000e-07 65.8
65 TraesCS2D01G187700 chr1A 93.333 45 1 2 2303 2347 34552496 34552538 6.430000e-07 65.8
66 TraesCS2D01G187700 chrUn 95.000 40 1 1 2304 2343 60175887 60175925 8.320000e-06 62.1
67 TraesCS2D01G187700 chrUn 89.583 48 5 0 2294 2341 76223308 76223355 8.320000e-06 62.1
68 TraesCS2D01G187700 chrUn 89.583 48 5 0 2294 2341 76226065 76226112 8.320000e-06 62.1
69 TraesCS2D01G187700 chrUn 95.000 40 1 1 2304 2343 233395356 233395394 8.320000e-06 62.1
70 TraesCS2D01G187700 chrUn 89.583 48 5 0 2294 2341 309342903 309342950 8.320000e-06 62.1
71 TraesCS2D01G187700 chrUn 89.583 48 5 0 2294 2341 343442036 343442083 8.320000e-06 62.1
72 TraesCS2D01G187700 chrUn 91.111 45 4 0 2297 2341 349588430 349588386 8.320000e-06 62.1
73 TraesCS2D01G187700 chrUn 91.111 45 4 0 2297 2341 463828222 463828178 8.320000e-06 62.1
74 TraesCS2D01G187700 chrUn 91.111 45 3 1 2297 2341 308101833 308101876 2.990000e-05 60.2
75 TraesCS2D01G187700 chr4B 94.444 36 2 0 2575 2610 640476882 640476917 3.870000e-04 56.5


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 TraesCS2D01G187700 chr2D 131315790 131318572 2782 False 5140.000000 5140 100.000000 1 2783 1 chr2D.!!$F4 2782
1 TraesCS2D01G187700 chr2D 131284463 131285450 987 False 525.000000 525 77.179000 1162 2140 1 chr2D.!!$F1 978
2 TraesCS2D01G187700 chr2D 131359905 131361441 1536 False 488.666667 850 82.561333 705 2189 3 chr2D.!!$F5 1484
3 TraesCS2D01G187700 chr2A 137950927 137953037 2110 False 1012.000000 2213 93.903000 696 2783 3 chr2A.!!$F3 2087
4 TraesCS2D01G187700 chr2A 137936079 137936909 830 False 782.000000 782 83.882000 1011 1848 1 chr2A.!!$F1 837
5 TraesCS2D01G187700 chr2A 138084166 138085623 1457 False 547.366667 1192 88.300333 809 2251 3 chr2A.!!$F4 1442
6 TraesCS2D01G187700 chr2A 137942043 137943232 1189 False 363.666667 643 85.696333 705 1848 3 chr2A.!!$F2 1143
7 TraesCS2D01G187700 chr2B 184876923 184877997 1074 False 839.000000 839 81.149000 890 1982 1 chr2B.!!$F1 1092
8 TraesCS2D01G187700 chr2B 184909318 184912611 3293 False 683.000000 1672 93.150500 696 2781 4 chr2B.!!$F7 2085
9 TraesCS2D01G187700 chr2B 184899799 184900891 1092 False 604.500000 713 84.037500 974 2129 2 chr2B.!!$F6 1155
10 TraesCS2D01G187700 chr2B 184799935 184801618 1683 False 414.000000 593 82.307667 705 2279 3 chr2B.!!$F5 1574
11 TraesCS2D01G187700 chr2B 184928205 184931219 3014 False 385.000000 590 84.487500 706 1599 2 chr2B.!!$F8 893
12 TraesCS2D01G187700 chr2B 184789291 184790371 1080 False 363.500000 427 78.554500 918 2149 2 chr2B.!!$F4 1231
13 TraesCS2D01G187700 chr7D 434162757 434163474 717 True 893.000000 893 89.612000 2 700 1 chr7D.!!$R1 698
14 TraesCS2D01G187700 chr7D 399424688 399425386 698 False 808.000000 808 88.160000 7 680 1 chr7D.!!$F1 673
15 TraesCS2D01G187700 chr6D 126426905 126427608 703 True 850.000000 850 88.951000 7 696 1 chr6D.!!$R2 689
16 TraesCS2D01G187700 chr6D 414773688 414774401 713 False 830.000000 830 88.187000 1 700 1 chr6D.!!$F1 699
17 TraesCS2D01G187700 chr3D 535498693 535499412 719 False 848.000000 848 88.520000 1 697 1 chr3D.!!$F3 696
18 TraesCS2D01G187700 chr3D 413622656 413623363 707 False 839.000000 839 88.563000 4 696 1 chr3D.!!$F2 692
19 TraesCS2D01G187700 chr1D 454554913 454555617 704 True 822.000000 822 88.112000 1 696 1 chr1D.!!$R1 695
20 TraesCS2D01G187700 chr6A 373135168 373135856 688 False 763.000000 763 86.864000 2 696 1 chr6A.!!$F1 694
21 TraesCS2D01G187700 chr4A 605067668 605068372 704 False 752.000000 752 86.408000 1 698 1 chr4A.!!$F2 697
22 TraesCS2D01G187700 chr7B 604334529 604335124 595 False 318.000000 318 77.331000 913 1506 1 chr7B.!!$F2 593

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
418 443 1.951602 ACAACCGTGCCTCTAAAAACC 59.048 47.619 0.0 0.0 0.0 3.27 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2407 6509 0.032615 TGTGCCCCCAACAGACTTTT 60.033 50.0 0.0 0.0 0.0 2.27 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
105 110 2.468532 CGAAAGCAAAACCGTGACTT 57.531 45.000 0.00 0.00 0.00 3.01
222 236 2.693797 ACGTAACTCTCGCGAAAGAA 57.306 45.000 17.91 0.33 0.00 2.52
327 345 2.210116 GAAGCAAAACCGTGACTCTCA 58.790 47.619 0.00 0.00 0.00 3.27
328 346 2.325583 AGCAAAACCGTGACTCTCAA 57.674 45.000 0.00 0.00 0.00 3.02
417 442 2.994849 CACAACCGTGCCTCTAAAAAC 58.005 47.619 0.00 0.00 36.06 2.43
418 443 1.951602 ACAACCGTGCCTCTAAAAACC 59.048 47.619 0.00 0.00 0.00 3.27
431 460 2.923605 AAAAACCGTGACTTTTCGCA 57.076 40.000 0.00 0.00 32.00 5.10
638 696 4.463879 AATGGCTGAGAGCGCGCT 62.464 61.111 37.28 37.28 43.62 5.92
782 846 6.435904 ACATAACTAGAGATGGATAGGCAGAC 59.564 42.308 0.00 0.00 0.00 3.51
883 960 3.556999 TCAGCCAGATCACTACTACTCC 58.443 50.000 0.00 0.00 0.00 3.85
885 962 2.516277 AGCCAGATCACTACTACTCCCT 59.484 50.000 0.00 0.00 0.00 4.20
886 963 2.888414 GCCAGATCACTACTACTCCCTC 59.112 54.545 0.00 0.00 0.00 4.30
887 964 3.435890 GCCAGATCACTACTACTCCCTCT 60.436 52.174 0.00 0.00 0.00 3.69
983 3252 4.397103 CACATTGATACACACCAGAAGCAT 59.603 41.667 0.00 0.00 0.00 3.79
1009 3280 3.993234 GATCGACCATGCTGCGCG 61.993 66.667 0.00 0.00 0.00 6.86
1092 3363 1.509463 CGCAGCACGGTACCTAGAA 59.491 57.895 10.90 0.00 38.44 2.10
1218 3513 2.681778 CCTCACCCTCTCGTGCCT 60.682 66.667 0.00 0.00 33.57 4.75
1380 3717 2.434331 CCCGAGGTGCCAAAGGAA 59.566 61.111 0.00 0.00 0.00 3.36
1640 4370 0.542702 CCAAAGGAGCCCCATGTGTT 60.543 55.000 0.00 0.00 33.88 3.32
1789 4546 2.537560 GCCAAGCCATGATCGGACG 61.538 63.158 0.00 0.00 0.00 4.79
1971 4857 0.110295 TGAGTGGTGTTCCATGGTGG 59.890 55.000 12.58 0.00 46.20 4.61
1990 4876 1.679944 GGAGCTGCTCAACCTATTGCA 60.680 52.381 28.95 0.00 35.63 4.08
2105 5168 3.737266 GTGTTTGGATTTGTGCATCACTG 59.263 43.478 0.00 0.00 35.11 3.66
2240 6340 5.278364 GCCCAGATTTGATCAGAAGCATAAG 60.278 44.000 0.00 0.00 0.00 1.73
2254 6356 8.704668 TCAGAAGCATAAGAAGATATAACACCA 58.295 33.333 0.00 0.00 0.00 4.17
2328 6430 1.670791 CCTTTCGCCCCGCTTTATAA 58.329 50.000 0.00 0.00 0.00 0.98
2384 6486 6.058183 AGCAACTCACTGACATAAAAGTCTT 58.942 36.000 0.00 0.00 39.27 3.01
2387 6489 7.702348 GCAACTCACTGACATAAAAGTCTTTTT 59.298 33.333 15.53 0.00 39.27 1.94
2408 6510 6.531503 TTTTTGTGTGTGGGAAAGACATAA 57.468 33.333 0.00 0.00 34.06 1.90
2409 6511 6.531503 TTTTGTGTGTGGGAAAGACATAAA 57.468 33.333 0.00 0.00 40.06 1.40
2410 6512 6.531503 TTTGTGTGTGGGAAAGACATAAAA 57.468 33.333 0.00 0.00 39.26 1.52
2411 6513 5.766150 TGTGTGTGGGAAAGACATAAAAG 57.234 39.130 0.00 0.00 34.06 2.27
2412 6514 5.197451 TGTGTGTGGGAAAGACATAAAAGT 58.803 37.500 0.00 0.00 34.06 2.66
2413 6515 5.298276 TGTGTGTGGGAAAGACATAAAAGTC 59.702 40.000 0.00 0.00 34.06 3.01
2422 6524 4.034285 AGACATAAAAGTCTGTTGGGGG 57.966 45.455 0.00 0.00 46.58 5.40
2505 6607 2.079158 CATAACATCATAGGGCTGCCG 58.921 52.381 13.40 0.00 0.00 5.69
2506 6608 1.419381 TAACATCATAGGGCTGCCGA 58.581 50.000 13.40 4.39 0.00 5.54
2554 6656 2.879070 GCGCATCCAGCATCTGTCG 61.879 63.158 0.30 0.00 46.13 4.35
2555 6657 1.520120 CGCATCCAGCATCTGTCGT 60.520 57.895 0.00 0.00 46.13 4.34
2650 6752 2.125106 GGCCCGTCGCAGAAAGAT 60.125 61.111 0.00 0.00 39.69 2.40
2672 6774 2.733552 CCGCTCGATCACCATCTTATTG 59.266 50.000 0.00 0.00 0.00 1.90
2676 6778 1.866601 CGATCACCATCTTATTGCGCA 59.133 47.619 5.66 5.66 0.00 6.09
2700 6802 3.531538 GTCCAAAGCGTCCAAGATATCA 58.468 45.455 5.32 0.00 0.00 2.15
2728 6830 2.421751 ACTAGCTAGAAGAGGCGTCA 57.578 50.000 27.45 0.00 0.00 4.35
2738 6840 0.605589 AGAGGCGTCAGTTCCTTCTG 59.394 55.000 9.41 0.00 36.85 3.02
2745 6847 1.676967 CAGTTCCTTCTGGCCTGCC 60.677 63.158 3.32 0.00 0.00 4.85
2746 6848 2.361737 GTTCCTTCTGGCCTGCCC 60.362 66.667 3.32 0.00 34.56 5.36
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
361 382 1.439644 GCCGTGCCTTTTGGAAACA 59.560 52.632 0.00 0.00 44.07 2.83
417 442 2.748461 TCTTTTGCGAAAAGTCACGG 57.252 45.000 16.01 0.00 46.18 4.94
418 443 5.428793 TTTTTCTTTTGCGAAAAGTCACG 57.571 34.783 16.01 0.00 46.18 4.35
494 538 2.303890 GTTTCCTCCCGGTCTTCCTTAA 59.696 50.000 0.00 0.00 0.00 1.85
638 696 1.358725 GCAACGATCAGCGCCACTTA 61.359 55.000 2.29 0.00 46.04 2.24
782 846 2.738314 TCAGCTTTGTGTGTGATCGATG 59.262 45.455 0.54 0.00 0.00 3.84
883 960 1.337447 CCAAAATGCTGCACCAAGAGG 60.337 52.381 3.57 0.00 42.21 3.69
885 962 1.340889 GTCCAAAATGCTGCACCAAGA 59.659 47.619 3.57 0.00 0.00 3.02
886 963 1.342174 AGTCCAAAATGCTGCACCAAG 59.658 47.619 3.57 0.00 0.00 3.61
887 964 1.412079 AGTCCAAAATGCTGCACCAA 58.588 45.000 3.57 0.00 0.00 3.67
983 3252 2.422276 CATGGTCGATCGATGCTGTA 57.578 50.000 22.50 4.86 0.00 2.74
1009 3280 1.077429 GGGAGGCCATGGTGTTCTC 60.077 63.158 14.67 14.31 0.00 2.87
1218 3513 3.484806 ACGGGGTGTGGCACTTCA 61.485 61.111 19.83 0.00 34.40 3.02
1246 3541 1.003355 CTTCAGGCTCCTTTGGCGA 60.003 57.895 0.00 0.00 37.59 5.54
1380 3717 4.265056 GGGTGTGGCACTTCGGGT 62.265 66.667 19.83 0.00 34.40 5.28
1464 4128 2.515901 GGGTGTGGCACTTCTGGT 59.484 61.111 19.83 0.00 34.40 4.00
1789 4546 1.937108 GCCACTATGCGGATGTAGCTC 60.937 57.143 0.00 0.00 35.28 4.09
1865 4640 5.023533 ACTCTAACAATCACACACACAGT 57.976 39.130 0.00 0.00 0.00 3.55
1971 4857 1.742761 TGCAATAGGTTGAGCAGCTC 58.257 50.000 16.21 16.21 37.53 4.09
1990 4876 6.167685 TGCATACACACGTAAAAGGAAGTAT 58.832 36.000 0.00 0.00 0.00 2.12
2105 5168 6.809630 AGCCAAAACATAAGAACTCTCTTC 57.190 37.500 0.00 0.00 41.19 2.87
2240 6340 7.540474 TGGGTAGAGATGGTGTTATATCTTC 57.460 40.000 0.00 0.00 33.97 2.87
2252 6354 3.471680 GCTAGCTTTTGGGTAGAGATGG 58.528 50.000 7.70 0.00 45.80 3.51
2254 6356 2.483889 GCGCTAGCTTTTGGGTAGAGAT 60.484 50.000 13.93 0.00 45.80 2.75
2328 6430 4.648651 ACGGACTAGTTGGTTGCTTTATT 58.351 39.130 0.00 0.00 0.00 1.40
2357 6459 5.701290 ACTTTTATGTCAGTGAGTTGCTACC 59.299 40.000 0.00 0.00 0.00 3.18
2387 6489 6.153680 ACTTTTATGTCTTTCCCACACACAAA 59.846 34.615 0.00 0.00 0.00 2.83
2388 6490 5.654650 ACTTTTATGTCTTTCCCACACACAA 59.345 36.000 0.00 0.00 0.00 3.33
2389 6491 5.197451 ACTTTTATGTCTTTCCCACACACA 58.803 37.500 0.00 0.00 0.00 3.72
2391 6493 5.530915 CAGACTTTTATGTCTTTCCCACACA 59.469 40.000 0.00 0.00 44.01 3.72
2392 6494 5.531287 ACAGACTTTTATGTCTTTCCCACAC 59.469 40.000 0.00 0.00 44.01 3.82
2393 6495 5.690865 ACAGACTTTTATGTCTTTCCCACA 58.309 37.500 0.00 0.00 44.01 4.17
2394 6496 6.438763 CAACAGACTTTTATGTCTTTCCCAC 58.561 40.000 0.00 0.00 44.01 4.61
2395 6497 5.534654 CCAACAGACTTTTATGTCTTTCCCA 59.465 40.000 0.00 0.00 44.01 4.37
2396 6498 5.048013 CCCAACAGACTTTTATGTCTTTCCC 60.048 44.000 0.00 0.00 44.01 3.97
2397 6499 5.048013 CCCCAACAGACTTTTATGTCTTTCC 60.048 44.000 0.00 0.00 44.01 3.13
2398 6500 5.048013 CCCCCAACAGACTTTTATGTCTTTC 60.048 44.000 0.00 0.00 44.01 2.62
2399 6501 4.832823 CCCCCAACAGACTTTTATGTCTTT 59.167 41.667 0.00 0.00 44.01 2.52
2400 6502 4.407365 CCCCCAACAGACTTTTATGTCTT 58.593 43.478 0.00 0.00 44.01 3.01
2402 6504 2.492088 GCCCCCAACAGACTTTTATGTC 59.508 50.000 0.00 0.00 37.23 3.06
2403 6505 2.158385 TGCCCCCAACAGACTTTTATGT 60.158 45.455 0.00 0.00 0.00 2.29
2404 6506 2.231235 GTGCCCCCAACAGACTTTTATG 59.769 50.000 0.00 0.00 0.00 1.90
2405 6507 2.158385 TGTGCCCCCAACAGACTTTTAT 60.158 45.455 0.00 0.00 0.00 1.40
2406 6508 1.215673 TGTGCCCCCAACAGACTTTTA 59.784 47.619 0.00 0.00 0.00 1.52
2407 6509 0.032615 TGTGCCCCCAACAGACTTTT 60.033 50.000 0.00 0.00 0.00 2.27
2408 6510 0.032615 TTGTGCCCCCAACAGACTTT 60.033 50.000 0.00 0.00 0.00 2.66
2409 6511 0.755327 GTTGTGCCCCCAACAGACTT 60.755 55.000 6.23 0.00 43.32 3.01
2410 6512 1.152756 GTTGTGCCCCCAACAGACT 60.153 57.895 6.23 0.00 43.32 3.24
2411 6513 3.443588 GTTGTGCCCCCAACAGAC 58.556 61.111 6.23 0.00 43.32 3.51
2415 6517 1.441311 CTTGTGTTGTGCCCCCAAC 59.559 57.895 4.55 4.55 43.95 3.77
2416 6518 2.430610 GCTTGTGTTGTGCCCCCAA 61.431 57.895 0.00 0.00 0.00 4.12
2417 6519 2.837291 GCTTGTGTTGTGCCCCCA 60.837 61.111 0.00 0.00 0.00 4.96
2418 6520 2.367868 CTTGCTTGTGTTGTGCCCCC 62.368 60.000 0.00 0.00 0.00 5.40
2419 6521 1.067916 CTTGCTTGTGTTGTGCCCC 59.932 57.895 0.00 0.00 0.00 5.80
2420 6522 1.592400 GCTTGCTTGTGTTGTGCCC 60.592 57.895 0.00 0.00 0.00 5.36
2421 6523 1.592400 GGCTTGCTTGTGTTGTGCC 60.592 57.895 0.00 0.00 0.00 5.01
2422 6524 1.592400 GGGCTTGCTTGTGTTGTGC 60.592 57.895 0.00 0.00 0.00 4.57
2505 6607 0.031449 GCATGTCGTCTAGGCTCCTC 59.969 60.000 0.00 0.00 0.00 3.71
2506 6608 1.395826 GGCATGTCGTCTAGGCTCCT 61.396 60.000 0.00 0.00 0.00 3.69
2537 6639 0.249031 TACGACAGATGCTGGATGCG 60.249 55.000 0.00 0.00 46.63 4.73
2650 6752 1.687563 TAAGATGGTGATCGAGCGGA 58.312 50.000 0.00 0.00 33.34 5.54
2676 6778 0.320374 TCTTGGACGCTTTGGACGAT 59.680 50.000 0.00 0.00 0.00 3.73
2700 6802 5.241662 CCTCTTCTAGCTAGTTTTTGCTGT 58.758 41.667 20.10 0.00 40.08 4.40
2728 6830 2.759795 GGCAGGCCAGAAGGAACT 59.240 61.111 5.01 0.00 36.89 3.01
2752 6854 3.721706 CCAGCTTCCTCCGGGCTT 61.722 66.667 0.00 0.00 33.74 4.35
2757 6859 0.393537 AATCTTGCCAGCTTCCTCCG 60.394 55.000 0.00 0.00 0.00 4.63


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

AutoCloner maintained by Alex Coulton.