Multiple sequence alignment - TraesCS4A01G024600

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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 TraesCS4A01G024600 chr4A 100.000 2469 0 0 1 2469 17097265 17094797 0.000000e+00 4560
1 TraesCS4A01G024600 chr4A 97.826 92 2 0 2378 2469 272729217 272729126 2.540000e-35 159
2 TraesCS4A01G024600 chr5D 97.938 2376 45 4 1 2373 503226441 503224067 0.000000e+00 4113
3 TraesCS4A01G024600 chr5D 97.602 2377 52 5 1 2373 503270103 503272478 0.000000e+00 4069
4 TraesCS4A01G024600 chr5D 97.476 2377 54 6 1 2373 503236758 503234384 0.000000e+00 4052
5 TraesCS4A01G024600 chr3A 97.811 2376 47 5 1 2373 66009400 66011773 0.000000e+00 4095
6 TraesCS4A01G024600 chr3B 97.391 2376 58 4 1 2373 201535252 201532878 0.000000e+00 4041
7 TraesCS4A01G024600 chrUn 97.306 2376 59 4 1 2373 216510385 216512758 0.000000e+00 4028
8 TraesCS4A01G024600 chrUn 97.306 2376 59 4 1 2373 286272998 286270625 0.000000e+00 4028
9 TraesCS4A01G024600 chr2B 97.263 2375 59 5 1 2373 474916661 474914291 0.000000e+00 4021
10 TraesCS4A01G024600 chr4D 97.180 2376 61 5 1 2373 177441220 177443592 0.000000e+00 4012
11 TraesCS4A01G024600 chr6A 98.913 92 1 0 2378 2469 259288285 259288194 5.460000e-37 165
12 TraesCS4A01G024600 chr6A 96.842 95 3 0 2375 2469 341473112 341473206 2.540000e-35 159
13 TraesCS4A01G024600 chr6A 96.739 92 3 0 2378 2469 296136864 296136773 1.180000e-33 154
14 TraesCS4A01G024600 chr6A 93.269 104 7 0 2366 2469 312580243 312580346 1.180000e-33 154
15 TraesCS4A01G024600 chr1A 94.231 104 5 1 2367 2469 165728408 165728305 9.140000e-35 158
16 TraesCS4A01G024600 chr5A 93.333 105 6 1 2366 2469 402595918 402596022 1.180000e-33 154
17 TraesCS4A01G024600 chr2A 93.333 105 6 1 2366 2469 220253402 220253506 1.180000e-33 154
18 TraesCS4A01G024600 chr2A 93.333 105 6 1 2366 2469 220341335 220341439 1.180000e-33 154


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 TraesCS4A01G024600 chr4A 17094797 17097265 2468 True 4560 4560 100.000 1 2469 1 chr4A.!!$R1 2468
1 TraesCS4A01G024600 chr5D 503224067 503226441 2374 True 4113 4113 97.938 1 2373 1 chr5D.!!$R1 2372
2 TraesCS4A01G024600 chr5D 503270103 503272478 2375 False 4069 4069 97.602 1 2373 1 chr5D.!!$F1 2372
3 TraesCS4A01G024600 chr5D 503234384 503236758 2374 True 4052 4052 97.476 1 2373 1 chr5D.!!$R2 2372
4 TraesCS4A01G024600 chr3A 66009400 66011773 2373 False 4095 4095 97.811 1 2373 1 chr3A.!!$F1 2372
5 TraesCS4A01G024600 chr3B 201532878 201535252 2374 True 4041 4041 97.391 1 2373 1 chr3B.!!$R1 2372
6 TraesCS4A01G024600 chrUn 216510385 216512758 2373 False 4028 4028 97.306 1 2373 1 chrUn.!!$F1 2372
7 TraesCS4A01G024600 chrUn 286270625 286272998 2373 True 4028 4028 97.306 1 2373 1 chrUn.!!$R1 2372
8 TraesCS4A01G024600 chr2B 474914291 474916661 2370 True 4021 4021 97.263 1 2373 1 chr2B.!!$R1 2372
9 TraesCS4A01G024600 chr4D 177441220 177443592 2372 False 4012 4012 97.180 1 2373 1 chr4D.!!$F1 2372

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
774 778 0.538746 GCGGGAAAAGGAGGGAAACA 60.539 55.0 0.0 0.0 0.0 2.83 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2387 2395 0.037326 ATATAGCCGCATCGTGGGTG 60.037 55.0 8.47 0.0 44.01 4.61 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
26 27 1.627297 GGAGTGGAAGAAGGGCGGAT 61.627 60.000 0.00 0.00 0.00 4.18
105 107 5.479375 AGGTGAAAATCTCTGTACGGTTCTA 59.521 40.000 0.64 0.00 0.00 2.10
196 198 5.416947 CCTTACGTAAAGTTGCCAGAGTAT 58.583 41.667 9.68 0.00 32.89 2.12
265 267 8.815565 TGGCCATAATTTACAAGAACATTCTA 57.184 30.769 0.00 0.00 36.28 2.10
579 581 8.314021 GTCCAAGGTCAATATGGAAATTCTTTT 58.686 33.333 0.00 0.00 44.41 2.27
631 633 4.719040 ACAAACAATTCGAAATACCTCGC 58.281 39.130 0.00 0.00 38.73 5.03
637 640 4.877323 ATTCGAAATACCTCGCCTTTTC 57.123 40.909 0.00 0.00 38.73 2.29
701 705 8.021396 ACTTCTTTTTCCATTACACTATTTCGC 58.979 33.333 0.00 0.00 0.00 4.70
716 720 3.478857 TTTCGCAAACCTAAGGACTCA 57.521 42.857 0.00 0.00 0.00 3.41
774 778 0.538746 GCGGGAAAAGGAGGGAAACA 60.539 55.000 0.00 0.00 0.00 2.83
790 794 8.459635 GGAGGGAAACAGATACTCAATTTAAAC 58.540 37.037 0.00 0.00 0.00 2.01
830 834 5.299028 CCATACTCGATCTCATAGATCCCTG 59.701 48.000 10.52 4.77 46.42 4.45
866 870 3.520290 AGCCGTATTCGATGAAAGTCA 57.480 42.857 0.00 0.00 39.71 3.41
1134 1140 8.944029 CATTGGCTTATCAAATTCTCTATCGAT 58.056 33.333 2.16 2.16 0.00 3.59
1336 1342 3.515602 AGAAGCATCCCAAAAGTGTCT 57.484 42.857 0.00 0.00 0.00 3.41
1337 1343 4.640771 AGAAGCATCCCAAAAGTGTCTA 57.359 40.909 0.00 0.00 0.00 2.59
1477 1484 6.629128 TGCACATTTTCGTTAATCCATGAAT 58.371 32.000 0.00 0.00 0.00 2.57
1507 1514 7.010160 TCTATGTATGTAGACACATGGATCCA 58.990 38.462 18.88 18.88 45.17 3.41
1531 1538 4.045104 ACATCTCGATCGGAAAAGAATCG 58.955 43.478 16.41 6.40 36.24 3.34
1535 1542 6.068473 TCTCGATCGGAAAAGAATCGATAA 57.932 37.500 16.41 0.00 42.65 1.75
1550 1557 4.994907 TCGATAAAAGGAGAATCGGACA 57.005 40.909 4.35 0.00 42.07 4.02
1568 1575 5.805486 TCGGACAATATCTTTCTCGAAACAG 59.195 40.000 0.00 0.00 0.00 3.16
1623 1630 3.300388 TGATCAACTAAGCCCTCTCGAT 58.700 45.455 0.00 0.00 0.00 3.59
1626 1633 1.482593 CAACTAAGCCCTCTCGATGGT 59.517 52.381 4.27 0.00 0.00 3.55
1720 1727 8.082242 GGATTCCGTAAATATCCCATTTCAAAG 58.918 37.037 0.00 0.00 33.26 2.77
1726 1733 8.223769 CGTAAATATCCCATTTCAAAGATCGAG 58.776 37.037 0.00 0.00 0.00 4.04
1870 1878 6.491714 TCAATGGAAGTTTCATTTTCCCAA 57.508 33.333 6.65 0.00 41.75 4.12
2029 2037 9.483916 GGAGAGAAGAACCTATAATTAGCTTTC 57.516 37.037 0.00 0.00 0.00 2.62
2191 2199 1.346068 CAGCTACTCTAGGGGGAATGC 59.654 57.143 0.00 0.00 0.00 3.56
2327 2335 9.944376 GGCTACTATGAAATATTTACTCATGGA 57.056 33.333 15.13 2.76 33.60 3.41
2373 2381 5.297029 GGTTCATGGTTTCTCTTGGCTATAC 59.703 44.000 0.00 0.00 0.00 1.47
2374 2382 5.957771 TCATGGTTTCTCTTGGCTATACT 57.042 39.130 0.00 0.00 0.00 2.12
2375 2383 7.272978 GTTCATGGTTTCTCTTGGCTATACTA 58.727 38.462 0.00 0.00 0.00 1.82
2376 2384 7.618019 TCATGGTTTCTCTTGGCTATACTAT 57.382 36.000 0.00 0.00 0.00 2.12
2377 2385 7.671302 TCATGGTTTCTCTTGGCTATACTATC 58.329 38.462 0.00 0.00 0.00 2.08
2378 2386 7.290014 TCATGGTTTCTCTTGGCTATACTATCA 59.710 37.037 0.00 0.00 0.00 2.15
2379 2387 7.432148 TGGTTTCTCTTGGCTATACTATCAA 57.568 36.000 0.00 0.00 0.00 2.57
2380 2388 8.034313 TGGTTTCTCTTGGCTATACTATCAAT 57.966 34.615 0.00 0.00 0.00 2.57
2381 2389 8.494433 TGGTTTCTCTTGGCTATACTATCAATT 58.506 33.333 0.00 0.00 0.00 2.32
2382 2390 9.343539 GGTTTCTCTTGGCTATACTATCAATTT 57.656 33.333 0.00 0.00 0.00 1.82
2384 2392 9.905713 TTTCTCTTGGCTATACTATCAATTTGT 57.094 29.630 0.00 0.00 0.00 2.83
2390 2398 8.671384 TGGCTATACTATCAATTTGTAACACC 57.329 34.615 0.00 0.00 0.00 4.16
2391 2399 7.717875 TGGCTATACTATCAATTTGTAACACCC 59.282 37.037 0.00 0.00 0.00 4.61
2392 2400 7.717875 GGCTATACTATCAATTTGTAACACCCA 59.282 37.037 0.00 0.00 0.00 4.51
2393 2401 8.557029 GCTATACTATCAATTTGTAACACCCAC 58.443 37.037 0.00 0.00 0.00 4.61
2394 2402 5.873179 ACTATCAATTTGTAACACCCACG 57.127 39.130 0.00 0.00 0.00 4.94
2395 2403 5.553123 ACTATCAATTTGTAACACCCACGA 58.447 37.500 0.00 0.00 0.00 4.35
2396 2404 6.177610 ACTATCAATTTGTAACACCCACGAT 58.822 36.000 0.00 0.00 0.00 3.73
2397 2405 4.757799 TCAATTTGTAACACCCACGATG 57.242 40.909 0.00 0.00 0.00 3.84
2398 2406 3.057876 TCAATTTGTAACACCCACGATGC 60.058 43.478 0.00 0.00 0.00 3.91
2399 2407 0.869068 TTTGTAACACCCACGATGCG 59.131 50.000 0.00 0.00 0.00 4.73
2400 2408 0.951525 TTGTAACACCCACGATGCGG 60.952 55.000 0.00 0.00 0.00 5.69
2401 2409 2.435234 TAACACCCACGATGCGGC 60.435 61.111 0.00 0.00 0.00 6.53
2402 2410 2.949909 TAACACCCACGATGCGGCT 61.950 57.895 0.00 0.00 0.00 5.52
2403 2411 1.605971 TAACACCCACGATGCGGCTA 61.606 55.000 0.00 0.00 0.00 3.93
2404 2412 2.108976 CACCCACGATGCGGCTAT 59.891 61.111 0.00 0.00 0.00 2.97
2405 2413 1.365999 CACCCACGATGCGGCTATA 59.634 57.895 0.00 0.00 0.00 1.31
2406 2414 0.037326 CACCCACGATGCGGCTATAT 60.037 55.000 0.00 0.00 0.00 0.86
2407 2415 0.246635 ACCCACGATGCGGCTATATC 59.753 55.000 0.00 0.00 0.00 1.63
2408 2416 0.532573 CCCACGATGCGGCTATATCT 59.467 55.000 0.00 0.00 0.00 1.98
2409 2417 1.469940 CCCACGATGCGGCTATATCTC 60.470 57.143 0.00 0.00 0.00 2.75
2410 2418 1.469940 CCACGATGCGGCTATATCTCC 60.470 57.143 0.00 0.00 0.00 3.71
2411 2419 0.818296 ACGATGCGGCTATATCTCCC 59.182 55.000 0.00 0.00 0.00 4.30
2412 2420 0.817654 CGATGCGGCTATATCTCCCA 59.182 55.000 0.00 0.00 0.00 4.37
2413 2421 1.469940 CGATGCGGCTATATCTCCCAC 60.470 57.143 0.00 0.00 0.00 4.61
2414 2422 0.532573 ATGCGGCTATATCTCCCACG 59.467 55.000 0.00 0.00 0.00 4.94
2415 2423 0.826256 TGCGGCTATATCTCCCACGT 60.826 55.000 0.00 0.00 0.00 4.49
2416 2424 1.171308 GCGGCTATATCTCCCACGTA 58.829 55.000 0.00 0.00 0.00 3.57
2417 2425 1.749634 GCGGCTATATCTCCCACGTAT 59.250 52.381 0.00 0.00 0.00 3.06
2418 2426 2.223525 GCGGCTATATCTCCCACGTATC 60.224 54.545 0.00 0.00 0.00 2.24
2419 2427 2.031807 CGGCTATATCTCCCACGTATCG 59.968 54.545 0.00 0.00 0.00 2.92
2420 2428 2.358267 GGCTATATCTCCCACGTATCGG 59.642 54.545 0.00 0.00 0.00 4.18
2421 2429 2.358267 GCTATATCTCCCACGTATCGGG 59.642 54.545 2.98 2.98 46.03 5.14
2436 2444 2.187163 GGGGCACGACTTAGAGGC 59.813 66.667 0.00 0.00 0.00 4.70
2437 2445 2.656069 GGGGCACGACTTAGAGGCA 61.656 63.158 0.00 0.00 0.00 4.75
2438 2446 1.522569 GGGCACGACTTAGAGGCAT 59.477 57.895 0.00 0.00 0.00 4.40
2439 2447 0.750850 GGGCACGACTTAGAGGCATA 59.249 55.000 0.00 0.00 0.00 3.14
2440 2448 1.138266 GGGCACGACTTAGAGGCATAA 59.862 52.381 0.00 0.00 0.00 1.90
2441 2449 2.202566 GGCACGACTTAGAGGCATAAC 58.797 52.381 0.00 0.00 0.00 1.89
2442 2450 2.202566 GCACGACTTAGAGGCATAACC 58.797 52.381 0.00 0.00 39.61 2.85
2443 2451 2.460918 CACGACTTAGAGGCATAACCG 58.539 52.381 0.00 0.00 46.52 4.44
2444 2452 1.202382 ACGACTTAGAGGCATAACCGC 60.202 52.381 0.00 0.00 46.52 5.68
2445 2453 1.202371 CGACTTAGAGGCATAACCGCA 60.202 52.381 0.00 0.00 46.52 5.69
2446 2454 2.545952 CGACTTAGAGGCATAACCGCAT 60.546 50.000 0.00 0.00 46.52 4.73
2447 2455 2.802816 GACTTAGAGGCATAACCGCATG 59.197 50.000 0.00 0.00 46.52 4.06
2448 2456 2.146342 CTTAGAGGCATAACCGCATGG 58.854 52.381 0.00 0.00 46.52 3.66
2458 2466 3.736483 CCGCATGGTAGGCATGTC 58.264 61.111 0.00 0.00 32.93 3.06
2459 2467 2.246739 CCGCATGGTAGGCATGTCG 61.247 63.158 0.00 0.00 32.93 4.35
2460 2468 2.885676 CGCATGGTAGGCATGTCGC 61.886 63.158 0.00 0.00 41.28 5.19
2461 2469 1.819208 GCATGGTAGGCATGTCGCA 60.819 57.895 0.00 0.00 45.17 5.10
2462 2470 1.375853 GCATGGTAGGCATGTCGCAA 61.376 55.000 0.00 0.00 45.17 4.85
2463 2471 0.659427 CATGGTAGGCATGTCGCAAG 59.341 55.000 0.00 0.00 45.17 4.01
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
26 27 3.415212 TCCTTTTCCTCGTTCGAGAGTA 58.585 45.455 21.39 5.93 36.56 2.59
105 107 4.436079 AGTCACCCTTACTGTCCCTTTAT 58.564 43.478 0.00 0.00 0.00 1.40
196 198 7.890127 AGTGATTTCAAATCCAGAGGTTAATCA 59.110 33.333 7.68 0.00 0.00 2.57
265 267 8.071235 ACCCTTCCTCCTCTTACTAATACTAT 57.929 38.462 0.00 0.00 0.00 2.12
637 640 0.679505 TTGACTCGGACCTGTTCTGG 59.320 55.000 0.00 0.00 0.00 3.86
701 705 5.523916 CCATACGATTGAGTCCTTAGGTTTG 59.476 44.000 0.00 0.00 0.00 2.93
716 720 8.602424 TCCTGTATTTTCCATATCCATACGATT 58.398 33.333 0.00 0.00 31.92 3.34
790 794 8.251750 TCGAGTATGGAATTTTGTTTACTCAG 57.748 34.615 8.20 2.69 36.80 3.35
830 834 3.335579 ACGGCTTTCCACAGAATTCTAC 58.664 45.455 7.86 0.00 0.00 2.59
866 870 1.971357 CTCCCTCCAAGCCGTACATAT 59.029 52.381 0.00 0.00 0.00 1.78
1134 1140 6.750039 GTCTTTTGTTGAATCTTTTTCACGGA 59.250 34.615 0.00 0.00 0.00 4.69
1300 1306 6.260050 GGATGCTTCTAATAACCAACGAATGA 59.740 38.462 0.00 0.00 0.00 2.57
1337 1343 9.657419 CTTAATTTGAAAGCCATATTTTGACCT 57.343 29.630 0.00 0.00 30.75 3.85
1477 1484 9.807921 TCCATGTGTCTACATACATAGATTCTA 57.192 33.333 0.00 0.00 45.53 2.10
1507 1514 5.859114 CGATTCTTTTCCGATCGAGATGTAT 59.141 40.000 18.66 1.92 36.95 2.29
1531 1538 9.495572 AAGATATTGTCCGATTCTCCTTTTATC 57.504 33.333 0.00 0.00 0.00 1.75
1535 1542 7.569240 AGAAAGATATTGTCCGATTCTCCTTT 58.431 34.615 0.00 0.00 0.00 3.11
1550 1557 9.884465 CTTTTTGTCTGTTTCGAGAAAGATATT 57.116 29.630 0.00 0.00 29.48 1.28
1568 1575 9.203421 TGTTTTCTCTTTCTTTTCCTTTTTGTC 57.797 29.630 0.00 0.00 0.00 3.18
1623 1630 9.349713 TCTTCTTTCTTATTCTTAAGCAAACCA 57.650 29.630 0.00 0.00 35.72 3.67
1726 1733 0.675522 TCCGAAAAGCCCCGATTGTC 60.676 55.000 0.00 0.00 0.00 3.18
1736 1743 1.745087 TGCATCCAATCTCCGAAAAGC 59.255 47.619 0.00 0.00 0.00 3.51
1974 1982 4.072131 ACAATAGGGCCGTTATGCTTATG 58.928 43.478 1.81 0.00 0.00 1.90
2327 2335 2.782341 AGAATAGAAGAGCTTGCCCCAT 59.218 45.455 0.00 0.00 0.00 4.00
2373 2381 6.486248 CATCGTGGGTGTTACAAATTGATAG 58.514 40.000 0.00 0.00 0.00 2.08
2374 2382 5.163703 GCATCGTGGGTGTTACAAATTGATA 60.164 40.000 0.00 0.00 0.00 2.15
2375 2383 4.380444 GCATCGTGGGTGTTACAAATTGAT 60.380 41.667 0.00 0.00 0.00 2.57
2376 2384 3.057876 GCATCGTGGGTGTTACAAATTGA 60.058 43.478 0.00 0.00 0.00 2.57
2377 2385 3.241701 GCATCGTGGGTGTTACAAATTG 58.758 45.455 0.00 0.00 0.00 2.32
2378 2386 2.095466 CGCATCGTGGGTGTTACAAATT 60.095 45.455 0.00 0.00 0.00 1.82
2379 2387 1.466950 CGCATCGTGGGTGTTACAAAT 59.533 47.619 0.00 0.00 0.00 2.32
2380 2388 0.869068 CGCATCGTGGGTGTTACAAA 59.131 50.000 0.00 0.00 0.00 2.83
2381 2389 0.951525 CCGCATCGTGGGTGTTACAA 60.952 55.000 0.00 0.00 0.00 2.41
2382 2390 1.374885 CCGCATCGTGGGTGTTACA 60.375 57.895 0.00 0.00 0.00 2.41
2383 2391 2.746803 GCCGCATCGTGGGTGTTAC 61.747 63.158 0.00 0.00 33.18 2.50
2384 2392 1.605971 TAGCCGCATCGTGGGTGTTA 61.606 55.000 8.47 0.00 44.01 2.41
2385 2393 2.252072 ATAGCCGCATCGTGGGTGTT 62.252 55.000 8.47 0.00 44.01 3.32
2386 2394 1.396607 TATAGCCGCATCGTGGGTGT 61.397 55.000 8.47 4.53 44.01 4.16
2387 2395 0.037326 ATATAGCCGCATCGTGGGTG 60.037 55.000 8.47 0.00 44.01 4.61
2388 2396 0.246635 GATATAGCCGCATCGTGGGT 59.753 55.000 3.52 3.52 46.10 4.51
2389 2397 0.532573 AGATATAGCCGCATCGTGGG 59.467 55.000 0.00 0.00 33.18 4.61
2390 2398 1.469940 GGAGATATAGCCGCATCGTGG 60.470 57.143 0.00 0.00 36.10 4.94
2391 2399 1.469940 GGGAGATATAGCCGCATCGTG 60.470 57.143 0.00 0.00 0.00 4.35
2392 2400 0.818296 GGGAGATATAGCCGCATCGT 59.182 55.000 0.00 0.00 0.00 3.73
2393 2401 0.817654 TGGGAGATATAGCCGCATCG 59.182 55.000 0.00 0.00 0.00 3.84
2394 2402 1.469940 CGTGGGAGATATAGCCGCATC 60.470 57.143 0.00 0.00 0.00 3.91
2395 2403 0.532573 CGTGGGAGATATAGCCGCAT 59.467 55.000 0.00 0.00 0.00 4.73
2396 2404 0.826256 ACGTGGGAGATATAGCCGCA 60.826 55.000 0.00 0.00 0.00 5.69
2397 2405 1.171308 TACGTGGGAGATATAGCCGC 58.829 55.000 0.00 0.00 0.00 6.53
2398 2406 2.031807 CGATACGTGGGAGATATAGCCG 59.968 54.545 0.00 0.00 0.00 5.52
2399 2407 2.358267 CCGATACGTGGGAGATATAGCC 59.642 54.545 0.00 0.00 0.00 3.93
2400 2408 3.694535 CCGATACGTGGGAGATATAGC 57.305 52.381 0.00 0.00 0.00 2.97
2409 2417 4.884257 CGTGCCCCGATACGTGGG 62.884 72.222 4.30 4.30 46.93 4.61
2410 2418 3.829044 TCGTGCCCCGATACGTGG 61.829 66.667 0.00 0.00 41.60 4.94
2417 2425 2.050350 CCTCTAAGTCGTGCCCCGA 61.050 63.158 0.00 0.00 45.00 5.14
2418 2426 2.494918 CCTCTAAGTCGTGCCCCG 59.505 66.667 0.00 0.00 38.13 5.73
2419 2427 1.972660 ATGCCTCTAAGTCGTGCCCC 61.973 60.000 0.00 0.00 0.00 5.80
2420 2428 0.750850 TATGCCTCTAAGTCGTGCCC 59.249 55.000 0.00 0.00 0.00 5.36
2421 2429 2.202566 GTTATGCCTCTAAGTCGTGCC 58.797 52.381 0.00 0.00 0.00 5.01
2422 2430 2.202566 GGTTATGCCTCTAAGTCGTGC 58.797 52.381 0.00 0.00 0.00 5.34
2423 2431 2.460918 CGGTTATGCCTCTAAGTCGTG 58.539 52.381 0.00 0.00 34.25 4.35
2424 2432 1.202382 GCGGTTATGCCTCTAAGTCGT 60.202 52.381 0.00 0.00 34.25 4.34
2425 2433 1.202371 TGCGGTTATGCCTCTAAGTCG 60.202 52.381 0.00 0.00 34.25 4.18
2426 2434 2.596904 TGCGGTTATGCCTCTAAGTC 57.403 50.000 0.00 0.00 34.25 3.01
2427 2435 2.485479 CCATGCGGTTATGCCTCTAAGT 60.485 50.000 0.00 0.00 34.25 2.24
2428 2436 2.146342 CCATGCGGTTATGCCTCTAAG 58.854 52.381 0.00 0.00 34.25 2.18
2429 2437 1.488812 ACCATGCGGTTATGCCTCTAA 59.511 47.619 0.00 0.00 46.31 2.10
2430 2438 1.128200 ACCATGCGGTTATGCCTCTA 58.872 50.000 0.00 0.00 46.31 2.43
2431 2439 1.070758 CTACCATGCGGTTATGCCTCT 59.929 52.381 0.00 0.00 46.31 3.69
2432 2440 1.512926 CTACCATGCGGTTATGCCTC 58.487 55.000 0.00 0.00 46.31 4.70
2433 2441 0.108585 CCTACCATGCGGTTATGCCT 59.891 55.000 0.00 0.00 46.31 4.75
2434 2442 1.515521 GCCTACCATGCGGTTATGCC 61.516 60.000 0.00 0.00 46.31 4.40
2435 2443 0.817634 TGCCTACCATGCGGTTATGC 60.818 55.000 0.00 0.00 46.31 3.14
2436 2444 1.536766 CATGCCTACCATGCGGTTATG 59.463 52.381 0.00 0.00 46.31 1.90
2437 2445 1.896220 CATGCCTACCATGCGGTTAT 58.104 50.000 0.00 0.00 46.31 1.89
2438 2446 3.395210 CATGCCTACCATGCGGTTA 57.605 52.632 0.00 0.00 46.31 2.85
2439 2447 4.240881 CATGCCTACCATGCGGTT 57.759 55.556 0.00 0.00 46.31 4.44
2445 2453 0.541392 TCTTGCGACATGCCTACCAT 59.459 50.000 0.00 0.00 45.60 3.55
2446 2454 0.108186 CTCTTGCGACATGCCTACCA 60.108 55.000 0.00 0.00 45.60 3.25
2447 2455 0.811616 CCTCTTGCGACATGCCTACC 60.812 60.000 0.00 0.00 45.60 3.18
2448 2456 0.811616 CCCTCTTGCGACATGCCTAC 60.812 60.000 0.00 0.00 45.60 3.18
2449 2457 1.522092 CCCTCTTGCGACATGCCTA 59.478 57.895 0.00 0.00 45.60 3.93
2450 2458 2.270205 CCCTCTTGCGACATGCCT 59.730 61.111 0.00 0.00 45.60 4.75
2451 2459 2.825836 CCCCTCTTGCGACATGCC 60.826 66.667 0.00 0.00 45.60 4.40


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

AutoCloner maintained by Alex Coulton.