Multiple sequence alignment - TraesCS7D01G170000

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 TraesCS7D01G170000 chr7D 100.000 2939 0 0 1 2939 122682447 122685385 0.000000e+00 5428
1 TraesCS7D01G170000 chr7D 90.909 154 12 2 2524 2677 122684667 122684818 3.840000e-49 206
2 TraesCS7D01G170000 chr7D 90.909 154 12 2 2221 2372 122684970 122685123 3.840000e-49 206
3 TraesCS7D01G170000 chr7B 90.547 2412 96 45 20 2372 83922204 83919866 0.000000e+00 3070
4 TraesCS7D01G170000 chr7B 91.296 494 30 4 2455 2937 83919867 83919376 0.000000e+00 662
5 TraesCS7D01G170000 chr7B 86.900 229 23 1 2529 2750 83920014 83919786 1.750000e-62 250
6 TraesCS7D01G170000 chr7B 83.085 201 31 2 2631 2829 83919491 83919292 2.330000e-41 180
7 TraesCS7D01G170000 chr7B 87.662 154 15 3 2221 2372 83919791 83919640 3.010000e-40 176
8 TraesCS7D01G170000 chr7B 95.789 95 2 2 2368 2461 533547759 533547852 5.070000e-33 152
9 TraesCS7D01G170000 chr7A 97.145 1261 28 3 1113 2372 125677923 125679176 0.000000e+00 2122
10 TraesCS7D01G170000 chr7A 87.781 933 42 25 1 883 125676641 125677551 0.000000e+00 1026
11 TraesCS7D01G170000 chr7A 95.483 487 20 1 2455 2939 125679175 125679661 0.000000e+00 776
12 TraesCS7D01G170000 chr7A 89.610 154 14 2 2221 2372 125679244 125679397 8.310000e-46 195
13 TraesCS7D01G170000 chr7A 83.654 208 11 6 13 203 125915414 125915213 1.080000e-39 174
14 TraesCS7D01G170000 chr7A 83.673 196 11 2 289 484 125913744 125913570 6.520000e-37 165
15 TraesCS7D01G170000 chr4A 100.000 88 0 0 2370 2457 707025575 707025488 2.340000e-36 163
16 TraesCS7D01G170000 chr4A 96.809 94 3 0 2371 2464 4152056 4151963 1.090000e-34 158
17 TraesCS7D01G170000 chr2B 97.872 94 2 0 2371 2464 751263660 751263567 2.340000e-36 163
18 TraesCS7D01G170000 chr2B 88.889 117 11 2 2369 2484 740807564 740807449 3.050000e-30 143
19 TraesCS7D01G170000 chr6B 97.849 93 2 0 2371 2463 29782611 29782703 8.430000e-36 161
20 TraesCS7D01G170000 chr6B 98.851 87 1 0 2370 2456 280519705 280519791 3.920000e-34 156
21 TraesCS7D01G170000 chr5B 95.050 101 4 1 2358 2457 546992668 546992568 1.090000e-34 158
22 TraesCS7D01G170000 chr4B 93.204 103 7 0 2371 2473 159918607 159918505 5.070000e-33 152


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 TraesCS7D01G170000 chr7D 122682447 122685385 2938 False 1946.666667 5428 93.939333 1 2939 3 chr7D.!!$F1 2938
1 TraesCS7D01G170000 chr7B 83919292 83922204 2912 True 867.600000 3070 87.898000 20 2937 5 chr7B.!!$R1 2917
2 TraesCS7D01G170000 chr7A 125676641 125679661 3020 False 1029.750000 2122 92.504750 1 2939 4 chr7A.!!$F1 2938

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
73 76 0.868406 CTCCCGCAAGAACAGAACAC 59.132 55.0 0.00 0.00 43.02 3.32 F
555 578 0.939577 CCGCAAGACCGGTCGATATG 60.940 60.0 28.26 23.94 43.24 1.78 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1866 2086 0.101040 CCAAATCATGTCGGCGCAAT 59.899 50.0 10.83 0.0 0.0 3.56 R
2441 2663 0.175989 CAAGCTACTCCCTCCGTTCC 59.824 60.0 0.00 0.0 0.0 3.62 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
73 76 0.868406 CTCCCGCAAGAACAGAACAC 59.132 55.000 0.00 0.00 43.02 3.32
104 127 3.299977 TCGACCACCTCCCGTGTG 61.300 66.667 0.00 0.00 41.26 3.82
105 128 3.612681 CGACCACCTCCCGTGTGT 61.613 66.667 0.00 0.00 41.26 3.72
106 129 2.270257 CGACCACCTCCCGTGTGTA 61.270 63.158 0.00 0.00 41.26 2.90
107 130 1.601419 CGACCACCTCCCGTGTGTAT 61.601 60.000 0.00 0.00 41.26 2.29
108 131 1.477553 GACCACCTCCCGTGTGTATA 58.522 55.000 0.00 0.00 41.26 1.47
109 132 2.037144 GACCACCTCCCGTGTGTATAT 58.963 52.381 0.00 0.00 41.26 0.86
125 148 9.894783 CGTGTGTATATATATATAACTCCAGCC 57.105 37.037 13.00 1.28 0.00 4.85
142 165 2.551912 CCCGACCAAGGTGCACAAC 61.552 63.158 20.43 1.46 0.00 3.32
410 433 4.752879 GGCAAGTACCGCGGCTCA 62.753 66.667 28.58 8.04 0.00 4.26
411 434 3.188786 GCAAGTACCGCGGCTCAG 61.189 66.667 28.58 13.11 0.00 3.35
457 480 2.034879 CCATGGCGGCGATGGATAC 61.035 63.158 32.67 0.00 41.30 2.24
484 507 4.612412 GGCAACGTCCGGGACACA 62.612 66.667 25.80 0.00 32.09 3.72
485 508 2.358247 GCAACGTCCGGGACACAT 60.358 61.111 25.80 8.73 32.09 3.21
496 519 1.517832 GGACACATCCCTCCTCACG 59.482 63.158 0.00 0.00 39.39 4.35
497 520 1.153549 GACACATCCCTCCTCACGC 60.154 63.158 0.00 0.00 0.00 5.34
498 521 2.187946 CACATCCCTCCTCACGCC 59.812 66.667 0.00 0.00 0.00 5.68
555 578 0.939577 CCGCAAGACCGGTCGATATG 60.940 60.000 28.26 23.94 43.24 1.78
633 669 6.940298 TGACTATGATGATGTACTCGTATGGA 59.060 38.462 0.00 0.00 0.00 3.41
634 670 7.447238 TGACTATGATGATGTACTCGTATGGAA 59.553 37.037 0.00 0.00 0.00 3.53
635 671 8.178313 ACTATGATGATGTACTCGTATGGAAA 57.822 34.615 0.00 0.00 0.00 3.13
636 672 8.082852 ACTATGATGATGTACTCGTATGGAAAC 58.917 37.037 0.00 0.00 0.00 2.78
666 724 2.418628 CTGTGTTTGTTGACCTCGTGTT 59.581 45.455 0.00 0.00 0.00 3.32
1662 1882 1.040339 AGGAGGAGGACGCAGATGAC 61.040 60.000 0.00 0.00 0.00 3.06
1866 2086 3.422303 GCCGAGATGCGCACACAA 61.422 61.111 14.90 0.00 39.11 3.33
1900 2120 2.746279 TTTGGCAAAGGAGGTCTTCA 57.254 45.000 8.93 0.00 33.94 3.02
1951 2171 1.991339 GCCTTAGCCCGGGGTACAAT 61.991 60.000 31.75 0.00 0.00 2.71
1956 2176 2.986355 GCCCGGGGTACAATTCCCA 61.986 63.158 25.28 0.00 46.26 4.37
2176 2396 9.953697 TGGTTGTCTTGTTATGTAAAATTGTAC 57.046 29.630 0.00 0.00 0.00 2.90
2210 2430 5.077564 AGTTCTCTTCCCCATTGGTTAAAC 58.922 41.667 1.20 0.00 34.77 2.01
2270 2492 9.189156 AGTTTTGGCATATTCTTGATAAGCTAA 57.811 29.630 0.00 0.00 34.82 3.09
2294 2516 5.873179 TTAGGAGTTTGGATTTGTAAGCG 57.127 39.130 0.00 0.00 0.00 4.68
2364 2586 6.414408 CACTATTGTGATTCAGTTGTCCTC 57.586 41.667 0.50 0.00 46.55 3.71
2366 2588 2.455674 TGTGATTCAGTTGTCCTCCG 57.544 50.000 0.00 0.00 0.00 4.63
2370 2592 2.567169 TGATTCAGTTGTCCTCCGTGAT 59.433 45.455 0.00 0.00 0.00 3.06
2371 2593 3.767131 TGATTCAGTTGTCCTCCGTGATA 59.233 43.478 0.00 0.00 0.00 2.15
2372 2594 3.587797 TTCAGTTGTCCTCCGTGATAC 57.412 47.619 0.00 0.00 0.00 2.24
2373 2595 2.803956 TCAGTTGTCCTCCGTGATACT 58.196 47.619 0.00 0.00 0.00 2.12
2374 2596 2.753452 TCAGTTGTCCTCCGTGATACTC 59.247 50.000 0.00 0.00 0.00 2.59
2375 2597 2.100989 AGTTGTCCTCCGTGATACTCC 58.899 52.381 0.00 0.00 0.00 3.85
2376 2598 1.136500 GTTGTCCTCCGTGATACTCCC 59.864 57.143 0.00 0.00 0.00 4.30
2377 2599 0.629596 TGTCCTCCGTGATACTCCCT 59.370 55.000 0.00 0.00 0.00 4.20
2378 2600 1.320507 GTCCTCCGTGATACTCCCTC 58.679 60.000 0.00 0.00 0.00 4.30
2379 2601 0.185416 TCCTCCGTGATACTCCCTCC 59.815 60.000 0.00 0.00 0.00 4.30
2380 2602 1.173444 CCTCCGTGATACTCCCTCCG 61.173 65.000 0.00 0.00 0.00 4.63
2381 2603 0.465824 CTCCGTGATACTCCCTCCGT 60.466 60.000 0.00 0.00 0.00 4.69
2382 2604 0.033796 TCCGTGATACTCCCTCCGTT 60.034 55.000 0.00 0.00 0.00 4.44
2383 2605 0.384669 CCGTGATACTCCCTCCGTTC 59.615 60.000 0.00 0.00 0.00 3.95
2384 2606 0.384669 CGTGATACTCCCTCCGTTCC 59.615 60.000 0.00 0.00 0.00 3.62
2385 2607 1.481871 GTGATACTCCCTCCGTTCCA 58.518 55.000 0.00 0.00 0.00 3.53
2386 2608 1.829222 GTGATACTCCCTCCGTTCCAA 59.171 52.381 0.00 0.00 0.00 3.53
2387 2609 2.235402 GTGATACTCCCTCCGTTCCAAA 59.765 50.000 0.00 0.00 0.00 3.28
2388 2610 2.907696 TGATACTCCCTCCGTTCCAAAA 59.092 45.455 0.00 0.00 0.00 2.44
2389 2611 3.521937 TGATACTCCCTCCGTTCCAAAAT 59.478 43.478 0.00 0.00 0.00 1.82
2390 2612 4.717778 TGATACTCCCTCCGTTCCAAAATA 59.282 41.667 0.00 0.00 0.00 1.40
2391 2613 3.629142 ACTCCCTCCGTTCCAAAATAG 57.371 47.619 0.00 0.00 0.00 1.73
2392 2614 3.178865 ACTCCCTCCGTTCCAAAATAGA 58.821 45.455 0.00 0.00 0.00 1.98
2393 2615 3.780850 ACTCCCTCCGTTCCAAAATAGAT 59.219 43.478 0.00 0.00 0.00 1.98
2394 2616 4.130118 CTCCCTCCGTTCCAAAATAGATG 58.870 47.826 0.00 0.00 0.00 2.90
2395 2617 3.778075 TCCCTCCGTTCCAAAATAGATGA 59.222 43.478 0.00 0.00 0.00 2.92
2396 2618 3.877508 CCCTCCGTTCCAAAATAGATGAC 59.122 47.826 0.00 0.00 0.00 3.06
2397 2619 3.877508 CCTCCGTTCCAAAATAGATGACC 59.122 47.826 0.00 0.00 0.00 4.02
2398 2620 3.877508 CTCCGTTCCAAAATAGATGACCC 59.122 47.826 0.00 0.00 0.00 4.46
2399 2621 3.264706 TCCGTTCCAAAATAGATGACCCA 59.735 43.478 0.00 0.00 0.00 4.51
2400 2622 4.013728 CCGTTCCAAAATAGATGACCCAA 58.986 43.478 0.00 0.00 0.00 4.12
2401 2623 4.644685 CCGTTCCAAAATAGATGACCCAAT 59.355 41.667 0.00 0.00 0.00 3.16
2402 2624 5.127031 CCGTTCCAAAATAGATGACCCAATT 59.873 40.000 0.00 0.00 0.00 2.32
2403 2625 6.350949 CCGTTCCAAAATAGATGACCCAATTT 60.351 38.462 0.00 0.00 0.00 1.82
2404 2626 7.096551 CGTTCCAAAATAGATGACCCAATTTT 58.903 34.615 0.00 0.00 33.07 1.82
2405 2627 7.063308 CGTTCCAAAATAGATGACCCAATTTTG 59.937 37.037 10.80 10.80 43.77 2.44
2406 2628 7.552050 TCCAAAATAGATGACCCAATTTTGT 57.448 32.000 14.67 0.00 43.14 2.83
2407 2629 8.657387 TCCAAAATAGATGACCCAATTTTGTA 57.343 30.769 14.67 1.18 43.14 2.41
2408 2630 8.527810 TCCAAAATAGATGACCCAATTTTGTAC 58.472 33.333 14.67 0.00 43.14 2.90
2409 2631 8.531146 CCAAAATAGATGACCCAATTTTGTACT 58.469 33.333 14.67 0.00 43.14 2.73
2414 2636 9.975218 ATAGATGACCCAATTTTGTACTAAAGT 57.025 29.630 8.41 2.98 0.00 2.66
2415 2637 8.706322 AGATGACCCAATTTTGTACTAAAGTT 57.294 30.769 8.41 1.83 0.00 2.66
2416 2638 9.802039 AGATGACCCAATTTTGTACTAAAGTTA 57.198 29.630 8.41 0.00 0.00 2.24
2418 2640 8.983702 TGACCCAATTTTGTACTAAAGTTAGT 57.016 30.769 8.41 8.67 45.39 2.24
2442 2664 9.003658 AGTACAAAGTTGAGTCATCTATTTTGG 57.996 33.333 14.35 0.00 40.00 3.28
2443 2665 8.999431 GTACAAAGTTGAGTCATCTATTTTGGA 58.001 33.333 14.35 6.88 40.00 3.53
2444 2666 8.463930 ACAAAGTTGAGTCATCTATTTTGGAA 57.536 30.769 14.35 0.00 40.00 3.53
2445 2667 8.352942 ACAAAGTTGAGTCATCTATTTTGGAAC 58.647 33.333 14.35 0.00 40.00 3.62
2446 2668 6.727824 AGTTGAGTCATCTATTTTGGAACG 57.272 37.500 1.70 0.00 0.00 3.95
2447 2669 5.643777 AGTTGAGTCATCTATTTTGGAACGG 59.356 40.000 1.70 0.00 0.00 4.44
2448 2670 5.414789 TGAGTCATCTATTTTGGAACGGA 57.585 39.130 0.00 0.00 0.00 4.69
2449 2671 5.419542 TGAGTCATCTATTTTGGAACGGAG 58.580 41.667 0.00 0.00 0.00 4.63
2450 2672 4.770795 AGTCATCTATTTTGGAACGGAGG 58.229 43.478 0.00 0.00 0.00 4.30
2451 2673 3.877508 GTCATCTATTTTGGAACGGAGGG 59.122 47.826 0.00 0.00 0.00 4.30
2452 2674 3.778075 TCATCTATTTTGGAACGGAGGGA 59.222 43.478 0.00 0.00 0.00 4.20
2453 2675 3.906720 TCTATTTTGGAACGGAGGGAG 57.093 47.619 0.00 0.00 0.00 4.30
2464 2686 0.179000 CGGAGGGAGTAGCTTGCATT 59.821 55.000 0.00 0.00 0.00 3.56
2478 2700 8.133627 AGTAGCTTGCATTTCTATTTTGCTATG 58.866 33.333 0.00 0.00 37.28 2.23
2565 2794 7.906327 ACATTAGGAAGTTGTGGCATATTTTT 58.094 30.769 0.00 0.00 0.00 1.94
2788 3023 2.675348 AGCTTACTTTTCTGCGAGCATC 59.325 45.455 0.00 0.00 32.78 3.91
2819 3054 5.047377 GCACCCCTTTTCTAAAATCATGTCA 60.047 40.000 0.00 0.00 0.00 3.58
2851 3086 6.411630 TGGCGTGTTTACTATTGTGATTAC 57.588 37.500 0.00 0.00 0.00 1.89
2876 3111 1.822371 TCCTACGTGATACAGCTTGCA 59.178 47.619 0.00 0.00 0.00 4.08
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
3 4 3.793144 GCGCCTTTCGGTGAGCAG 61.793 66.667 0.00 0.00 43.70 4.24
73 76 2.579518 TCGACTGCGCTGCGTATG 60.580 61.111 24.04 15.39 37.46 2.39
104 127 8.738106 GGTCGGGCTGGAGTTATATATATATAC 58.262 40.741 11.30 7.70 0.00 1.47
105 128 8.450434 TGGTCGGGCTGGAGTTATATATATATA 58.550 37.037 8.16 8.16 0.00 0.86
106 129 7.302948 TGGTCGGGCTGGAGTTATATATATAT 58.697 38.462 10.10 10.10 0.00 0.86
107 130 6.675565 TGGTCGGGCTGGAGTTATATATATA 58.324 40.000 0.00 0.00 0.00 0.86
108 131 5.525484 TGGTCGGGCTGGAGTTATATATAT 58.475 41.667 0.00 0.00 0.00 0.86
109 132 4.938028 TGGTCGGGCTGGAGTTATATATA 58.062 43.478 0.00 0.00 0.00 0.86
125 148 1.821759 TGTTGTGCACCTTGGTCGG 60.822 57.895 15.69 0.00 0.00 4.79
142 165 2.064014 GGTACCGTTTCTTTCTCCGTG 58.936 52.381 0.00 0.00 0.00 4.94
148 171 3.187842 GTCCATGTGGTACCGTTTCTTTC 59.812 47.826 7.57 0.00 36.34 2.62
442 465 4.293648 CCGTATCCATCGCCGCCA 62.294 66.667 0.00 0.00 0.00 5.69
470 493 2.660802 GGATGTGTCCCGGACGTT 59.339 61.111 13.02 0.00 38.69 3.99
484 507 4.779733 ACGGGCGTGAGGAGGGAT 62.780 66.667 0.00 0.00 0.00 3.85
493 516 2.278206 CTCGATCTCACGGGCGTG 60.278 66.667 0.00 0.00 46.64 5.34
498 521 2.279502 TTTCCCGCTCGATCTCACGG 62.280 60.000 9.46 9.46 45.21 4.94
544 567 0.603065 TCATGGAGCATATCGACCGG 59.397 55.000 0.00 0.00 0.00 5.28
571 599 2.436469 TGCAGCCAGGCACATACG 60.436 61.111 15.80 0.00 39.25 3.06
829 900 2.282180 GCCGGAAACTGGCAAGGA 60.282 61.111 5.05 0.00 45.41 3.36
905 982 4.348495 AAGCGGAAGGGGAGGGGA 62.348 66.667 0.00 0.00 0.00 4.81
906 983 3.798511 GAAGCGGAAGGGGAGGGG 61.799 72.222 0.00 0.00 0.00 4.79
907 984 3.798511 GGAAGCGGAAGGGGAGGG 61.799 72.222 0.00 0.00 0.00 4.30
908 985 3.798511 GGGAAGCGGAAGGGGAGG 61.799 72.222 0.00 0.00 0.00 4.30
909 986 3.798511 GGGGAAGCGGAAGGGGAG 61.799 72.222 0.00 0.00 0.00 4.30
1662 1882 0.992072 CATCCGCGCCAGTATATTCG 59.008 55.000 0.00 0.00 0.00 3.34
1687 1907 4.308458 CCTCACCGACACCGCCAA 62.308 66.667 0.00 0.00 0.00 4.52
1866 2086 0.101040 CCAAATCATGTCGGCGCAAT 59.899 50.000 10.83 0.00 0.00 3.56
1951 2171 0.846427 AGGGCAGGAGATTGTGGGAA 60.846 55.000 0.00 0.00 0.00 3.97
1956 2176 2.254152 TACAGAGGGCAGGAGATTGT 57.746 50.000 0.00 0.00 0.00 2.71
1990 2210 3.820557 AGGCAAGTTAAAGTGCAGAAGA 58.179 40.909 12.33 0.00 42.74 2.87
2176 2396 2.498078 GGAAGAGAACTCCTACCACCAG 59.502 54.545 0.00 0.00 0.00 4.00
2270 2492 6.433093 ACGCTTACAAATCCAAACTCCTAAAT 59.567 34.615 0.00 0.00 0.00 1.40
2287 2509 1.225855 CAGTGGCTTCAACGCTTACA 58.774 50.000 0.00 0.00 0.00 2.41
2294 2516 1.896220 TGTCATCCAGTGGCTTCAAC 58.104 50.000 3.51 0.00 32.24 3.18
2366 2588 1.481871 TGGAACGGAGGGAGTATCAC 58.518 55.000 0.00 0.00 40.51 3.06
2370 2592 4.355549 TCTATTTTGGAACGGAGGGAGTA 58.644 43.478 0.00 0.00 0.00 2.59
2371 2593 3.178865 TCTATTTTGGAACGGAGGGAGT 58.821 45.455 0.00 0.00 0.00 3.85
2372 2594 3.906720 TCTATTTTGGAACGGAGGGAG 57.093 47.619 0.00 0.00 0.00 4.30
2373 2595 3.778075 TCATCTATTTTGGAACGGAGGGA 59.222 43.478 0.00 0.00 0.00 4.20
2374 2596 3.877508 GTCATCTATTTTGGAACGGAGGG 59.122 47.826 0.00 0.00 0.00 4.30
2375 2597 3.877508 GGTCATCTATTTTGGAACGGAGG 59.122 47.826 0.00 0.00 0.00 4.30
2376 2598 3.877508 GGGTCATCTATTTTGGAACGGAG 59.122 47.826 0.00 0.00 0.00 4.63
2377 2599 3.264706 TGGGTCATCTATTTTGGAACGGA 59.735 43.478 0.00 0.00 0.00 4.69
2378 2600 3.616219 TGGGTCATCTATTTTGGAACGG 58.384 45.455 0.00 0.00 0.00 4.44
2379 2601 5.835113 ATTGGGTCATCTATTTTGGAACG 57.165 39.130 0.00 0.00 0.00 3.95
2380 2602 7.877612 ACAAAATTGGGTCATCTATTTTGGAAC 59.122 33.333 19.76 0.00 45.43 3.62
2381 2603 7.972301 ACAAAATTGGGTCATCTATTTTGGAA 58.028 30.769 19.76 0.00 45.43 3.53
2382 2604 7.552050 ACAAAATTGGGTCATCTATTTTGGA 57.448 32.000 19.76 0.00 45.43 3.53
2383 2605 8.531146 AGTACAAAATTGGGTCATCTATTTTGG 58.469 33.333 19.76 9.08 45.43 3.28
2388 2610 9.975218 ACTTTAGTACAAAATTGGGTCATCTAT 57.025 29.630 0.00 0.00 0.00 1.98
2389 2611 9.802039 AACTTTAGTACAAAATTGGGTCATCTA 57.198 29.630 0.00 0.00 0.00 1.98
2390 2612 8.706322 AACTTTAGTACAAAATTGGGTCATCT 57.294 30.769 0.00 0.00 0.00 2.90
2392 2614 9.582648 ACTAACTTTAGTACAAAATTGGGTCAT 57.417 29.630 0.00 0.00 41.92 3.06
2393 2615 8.983702 ACTAACTTTAGTACAAAATTGGGTCA 57.016 30.769 0.00 0.00 41.92 4.02
2416 2638 9.003658 CCAAAATAGATGACTCAACTTTGTACT 57.996 33.333 0.00 0.00 0.00 2.73
2417 2639 8.999431 TCCAAAATAGATGACTCAACTTTGTAC 58.001 33.333 0.00 0.00 0.00 2.90
2418 2640 9.567776 TTCCAAAATAGATGACTCAACTTTGTA 57.432 29.630 0.00 0.00 0.00 2.41
2419 2641 8.352942 GTTCCAAAATAGATGACTCAACTTTGT 58.647 33.333 0.00 0.00 0.00 2.83
2420 2642 7.535258 CGTTCCAAAATAGATGACTCAACTTTG 59.465 37.037 0.00 0.00 0.00 2.77
2421 2643 7.308589 CCGTTCCAAAATAGATGACTCAACTTT 60.309 37.037 0.00 0.00 0.00 2.66
2422 2644 6.149474 CCGTTCCAAAATAGATGACTCAACTT 59.851 38.462 0.00 0.00 0.00 2.66
2423 2645 5.643777 CCGTTCCAAAATAGATGACTCAACT 59.356 40.000 0.00 0.00 0.00 3.16
2424 2646 5.642063 TCCGTTCCAAAATAGATGACTCAAC 59.358 40.000 0.00 0.00 0.00 3.18
2425 2647 5.800296 TCCGTTCCAAAATAGATGACTCAA 58.200 37.500 0.00 0.00 0.00 3.02
2426 2648 5.414789 TCCGTTCCAAAATAGATGACTCA 57.585 39.130 0.00 0.00 0.00 3.41
2427 2649 4.811557 CCTCCGTTCCAAAATAGATGACTC 59.188 45.833 0.00 0.00 0.00 3.36
2428 2650 4.384208 CCCTCCGTTCCAAAATAGATGACT 60.384 45.833 0.00 0.00 0.00 3.41
2429 2651 3.877508 CCCTCCGTTCCAAAATAGATGAC 59.122 47.826 0.00 0.00 0.00 3.06
2430 2652 3.778075 TCCCTCCGTTCCAAAATAGATGA 59.222 43.478 0.00 0.00 0.00 2.92
2431 2653 4.130118 CTCCCTCCGTTCCAAAATAGATG 58.870 47.826 0.00 0.00 0.00 2.90
2432 2654 3.780850 ACTCCCTCCGTTCCAAAATAGAT 59.219 43.478 0.00 0.00 0.00 1.98
2433 2655 3.178865 ACTCCCTCCGTTCCAAAATAGA 58.821 45.455 0.00 0.00 0.00 1.98
2434 2656 3.629142 ACTCCCTCCGTTCCAAAATAG 57.371 47.619 0.00 0.00 0.00 1.73
2435 2657 3.118519 GCTACTCCCTCCGTTCCAAAATA 60.119 47.826 0.00 0.00 0.00 1.40
2436 2658 2.355818 GCTACTCCCTCCGTTCCAAAAT 60.356 50.000 0.00 0.00 0.00 1.82
2437 2659 1.002773 GCTACTCCCTCCGTTCCAAAA 59.997 52.381 0.00 0.00 0.00 2.44
2438 2660 0.611714 GCTACTCCCTCCGTTCCAAA 59.388 55.000 0.00 0.00 0.00 3.28
2439 2661 0.252103 AGCTACTCCCTCCGTTCCAA 60.252 55.000 0.00 0.00 0.00 3.53
2440 2662 0.252103 AAGCTACTCCCTCCGTTCCA 60.252 55.000 0.00 0.00 0.00 3.53
2441 2663 0.175989 CAAGCTACTCCCTCCGTTCC 59.824 60.000 0.00 0.00 0.00 3.62
2442 2664 0.460459 GCAAGCTACTCCCTCCGTTC 60.460 60.000 0.00 0.00 0.00 3.95
2443 2665 1.192146 TGCAAGCTACTCCCTCCGTT 61.192 55.000 0.00 0.00 0.00 4.44
2444 2666 0.978146 ATGCAAGCTACTCCCTCCGT 60.978 55.000 0.00 0.00 0.00 4.69
2445 2667 0.179000 AATGCAAGCTACTCCCTCCG 59.821 55.000 0.00 0.00 0.00 4.63
2446 2668 2.092699 AGAAATGCAAGCTACTCCCTCC 60.093 50.000 0.00 0.00 0.00 4.30
2447 2669 3.274095 AGAAATGCAAGCTACTCCCTC 57.726 47.619 0.00 0.00 0.00 4.30
2448 2670 5.379706 AATAGAAATGCAAGCTACTCCCT 57.620 39.130 0.00 0.00 0.00 4.20
2449 2671 6.268566 CAAAATAGAAATGCAAGCTACTCCC 58.731 40.000 0.00 0.00 0.00 4.30
2450 2672 5.745769 GCAAAATAGAAATGCAAGCTACTCC 59.254 40.000 0.00 0.00 39.81 3.85
2451 2673 6.558909 AGCAAAATAGAAATGCAAGCTACTC 58.441 36.000 0.00 0.00 42.45 2.59
2452 2674 6.521151 AGCAAAATAGAAATGCAAGCTACT 57.479 33.333 0.00 0.00 42.45 2.57
2453 2675 7.096312 GCATAGCAAAATAGAAATGCAAGCTAC 60.096 37.037 0.00 0.00 42.45 3.58
2501 2730 4.162131 AGGACAGCAAGAAACCAAATTGTT 59.838 37.500 0.00 0.00 0.00 2.83
2565 2794 9.920946 AATCCAAATTCCTAAACTAGCTTATCA 57.079 29.630 0.00 0.00 0.00 2.15
2788 3023 4.664150 TTAGAAAAGGGGTGCAAACTTG 57.336 40.909 0.00 0.00 0.00 3.16
2876 3111 6.471233 TGCTATCTGTAGTAAAGCAGACAT 57.529 37.500 0.00 0.00 43.45 3.06
2893 3128 6.092670 TGCAGACACAATTCTACTTTGCTATC 59.907 38.462 0.00 0.00 0.00 2.08


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

AutoCloner maintained by Alex Coulton.