Multiple sequence alignment - TraesCS1B01G364700

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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 TraesCS1B01G364700 chr1B 100.000 1760 0 0 1 1760 594651253 594649494 0.000000e+00 3251.0
1 TraesCS1B01G364700 chr1B 100.000 632 0 0 2064 2695 594649190 594648559 0.000000e+00 1168.0
2 TraesCS1B01G364700 chr1A 96.504 1745 57 3 1 1744 535199122 535197381 0.000000e+00 2881.0
3 TraesCS1B01G364700 chr1A 95.380 368 17 0 2064 2431 535197283 535196916 1.080000e-163 586.0
4 TraesCS1B01G364700 chr1A 94.857 175 8 1 2497 2671 535196916 535196743 3.420000e-69 272.0
5 TraesCS1B01G364700 chr1A 100.000 47 0 0 1714 1760 535197383 535197337 1.330000e-13 87.9
6 TraesCS1B01G364700 chr5A 86.245 1265 108 21 1 1232 30203756 30204987 0.000000e+00 1312.0
7 TraesCS1B01G364700 chr5A 97.059 34 1 0 2481 2514 375285568 375285601 1.040000e-04 58.4
8 TraesCS1B01G364700 chr4D 90.289 484 37 4 556 1035 508554711 508554234 2.280000e-175 625.0
9 TraesCS1B01G364700 chr7D 87.525 505 56 5 1204 1707 102304201 102304699 6.470000e-161 577.0
10 TraesCS1B01G364700 chr7D 84.457 341 31 6 1 336 102301512 102301835 1.560000e-82 316.0
11 TraesCS1B01G364700 chr7D 83.446 296 46 3 797 1089 102303314 102303609 3.420000e-69 272.0
12 TraesCS1B01G364700 chr7D 92.661 109 8 0 431 539 102301846 102301954 9.990000e-35 158.0
13 TraesCS1B01G364700 chr7D 87.313 134 7 2 677 801 102302324 102302456 7.780000e-31 145.0
14 TraesCS1B01G364700 chr7A 86.931 505 60 4 1204 1708 106440632 106441130 1.810000e-156 562.0
15 TraesCS1B01G364700 chr7A 83.750 320 49 3 797 1113 106439743 106440062 1.570000e-77 300.0
16 TraesCS1B01G364700 chr7A 81.818 341 33 10 1 336 106437173 106437489 2.660000e-65 259.0
17 TraesCS1B01G364700 chr7A 90.826 109 9 1 431 539 106437500 106437607 7.780000e-31 145.0
18 TraesCS1B01G364700 chr7A 86.567 134 8 4 677 801 106437853 106437985 3.620000e-29 139.0
19 TraesCS1B01G364700 chr1D 93.182 88 5 1 2584 2671 438808587 438808501 7.830000e-26 128.0
20 TraesCS1B01G364700 chr3A 97.059 34 1 0 2474 2507 421678128 421678095 1.040000e-04 58.4
21 TraesCS1B01G364700 chr5D 96.875 32 0 1 2347 2378 408787865 408787895 5.000000e-03 52.8


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 TraesCS1B01G364700 chr1B 594648559 594651253 2694 True 2209.500 3251 100.00000 1 2695 2 chr1B.!!$R1 2694
1 TraesCS1B01G364700 chr1A 535196743 535199122 2379 True 956.725 2881 96.68525 1 2671 4 chr1A.!!$R1 2670
2 TraesCS1B01G364700 chr5A 30203756 30204987 1231 False 1312.000 1312 86.24500 1 1232 1 chr5A.!!$F1 1231
3 TraesCS1B01G364700 chr7D 102301512 102304699 3187 False 293.600 577 87.08040 1 1707 5 chr7D.!!$F1 1706
4 TraesCS1B01G364700 chr7A 106437173 106441130 3957 False 281.000 562 85.97840 1 1708 5 chr7A.!!$F1 1707

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
62 64 2.452813 ATGCCGATTCACGTGCGAC 61.453 57.895 11.67 1.68 39.62 5.19 F
1093 3225 2.066262 CGTTGAACGTCTATGCCAAGT 58.934 47.619 9.94 0.00 36.74 3.16 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1612 4222 2.046314 CACCCAAGTAGCCACCGG 60.046 66.667 0.0 0.0 0.00 5.28 R
2451 5089 0.175073 GGGAACGCCAGAATACGTCT 59.825 55.000 0.0 0.0 42.68 4.18 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
62 64 2.452813 ATGCCGATTCACGTGCGAC 61.453 57.895 11.67 1.68 39.62 5.19
79 89 3.305897 TGCGACACGAGTTTATATGCAAG 59.694 43.478 0.00 0.00 0.00 4.01
101 111 7.571244 GCAAGTTGGGATATATTGATGTGTACG 60.571 40.741 4.75 0.00 0.00 3.67
142 152 8.273780 ACCAATTCAGTCACAATCTCTTATTC 57.726 34.615 0.00 0.00 0.00 1.75
264 275 2.875933 ACCGAATCGAGCAAGTTTCAAA 59.124 40.909 3.36 0.00 0.00 2.69
325 337 3.782443 GCCCACCTGGTACCGAGG 61.782 72.222 21.94 21.94 36.04 4.63
352 367 6.761242 CACCAACTTTCCGATTATGACATAGA 59.239 38.462 0.00 0.00 0.00 1.98
393 408 6.455360 TTTTCTTCAAGTTCTGCATTGAGT 57.545 33.333 1.11 0.00 36.81 3.41
419 434 3.129287 CGCTAGCAAATTGAGGGACAAAT 59.871 43.478 16.45 0.00 42.03 2.32
445 465 2.964209 ACTGTCGGTCCCATCTGATAT 58.036 47.619 0.00 0.00 0.00 1.63
489 509 8.488308 AACTGGAAGGAAAGAACTTAGTACTA 57.512 34.615 0.00 0.00 39.30 1.82
513 533 2.484264 GTGATGTGGCACTCTTGGTAAC 59.516 50.000 19.83 3.76 35.91 2.50
570 614 3.897239 TGGACCAGTGAGTGTTTTCAAT 58.103 40.909 0.00 0.00 0.00 2.57
599 643 9.947433 TTTCTTTTGGAATCTCATGCATATTTT 57.053 25.926 0.00 0.00 33.53 1.82
1093 3225 2.066262 CGTTGAACGTCTATGCCAAGT 58.934 47.619 9.94 0.00 36.74 3.16
1100 3232 5.178623 TGAACGTCTATGCCAAGTAAAACAG 59.821 40.000 0.00 0.00 0.00 3.16
1431 4041 4.263550 CGGATTGTAGAGAGGAGGAGGATA 60.264 50.000 0.00 0.00 0.00 2.59
1663 4273 4.888239 TGTTGTTTTCCCCTTCATTTACGA 59.112 37.500 0.00 0.00 0.00 3.43
1713 4323 4.470462 CTGATTTCTCTTGGTTTCTTGCG 58.530 43.478 0.00 0.00 0.00 4.85
1715 4325 4.338118 TGATTTCTCTTGGTTTCTTGCGTT 59.662 37.500 0.00 0.00 0.00 4.84
2092 4730 4.286297 TCTTTGGTGGATTGTACTCTGG 57.714 45.455 0.00 0.00 0.00 3.86
2125 4763 3.681593 TGTCCTTATGGTAAGGTGTTGC 58.318 45.455 13.78 4.04 38.55 4.17
2183 4821 1.069568 TCGTTTGCACTTGTATTGGCG 60.070 47.619 0.00 0.00 0.00 5.69
2202 4840 3.242870 GGCGTCAGAATTTTAGCCATCAG 60.243 47.826 0.00 0.00 43.65 2.90
2207 4845 4.397103 TCAGAATTTTAGCCATCAGTGCTG 59.603 41.667 0.00 0.00 39.91 4.41
2212 4850 5.627499 TTTTAGCCATCAGTGCTGTAAAG 57.373 39.130 0.00 0.00 39.91 1.85
2240 4878 7.870954 TGGATATTGTTCTCGTATGGATGTAAC 59.129 37.037 0.00 0.00 0.00 2.50
2243 4881 7.772332 ATTGTTCTCGTATGGATGTAACTTC 57.228 36.000 0.00 0.00 0.00 3.01
2245 4883 7.634671 TGTTCTCGTATGGATGTAACTTCTA 57.365 36.000 0.00 0.00 0.00 2.10
2272 4910 9.578439 CTAATATGATATCTCTTCGCACATTCA 57.422 33.333 3.98 0.00 0.00 2.57
2305 4943 7.820648 AGTTTAAGATCATGACATGTTTGGTC 58.179 34.615 14.98 12.68 35.83 4.02
2351 4989 6.405278 AATACTCCCTTTGTTCCAAAACTG 57.595 37.500 0.00 0.00 36.30 3.16
2382 5020 9.044150 CATGGTTTTAGTTCAAATTTGATGTGT 57.956 29.630 21.10 9.02 37.00 3.72
2392 5030 9.801714 GTTCAAATTTGATGTGTTGAATTCATC 57.198 29.630 21.10 9.29 40.85 2.92
2403 5041 4.092821 TGTTGAATTCATCGAACCGATCAC 59.907 41.667 9.40 0.33 45.19 3.06
2431 5069 2.663119 GTGGCATGAAATCTTTTGCGTC 59.337 45.455 0.00 0.00 35.95 5.19
2432 5070 2.557924 TGGCATGAAATCTTTTGCGTCT 59.442 40.909 0.00 0.00 35.95 4.18
2433 5071 3.174375 GGCATGAAATCTTTTGCGTCTC 58.826 45.455 0.00 0.00 35.95 3.36
2434 5072 3.366273 GGCATGAAATCTTTTGCGTCTCA 60.366 43.478 0.00 0.00 35.95 3.27
2435 5073 4.229096 GCATGAAATCTTTTGCGTCTCAA 58.771 39.130 0.00 0.00 0.00 3.02
2436 5074 4.681025 GCATGAAATCTTTTGCGTCTCAAA 59.319 37.500 0.00 0.00 42.50 2.69
2437 5075 5.387752 GCATGAAATCTTTTGCGTCTCAAAC 60.388 40.000 0.00 0.00 43.76 2.93
2438 5076 4.606961 TGAAATCTTTTGCGTCTCAAACC 58.393 39.130 0.00 0.00 43.76 3.27
2439 5077 2.969443 ATCTTTTGCGTCTCAAACCG 57.031 45.000 0.00 0.00 43.76 4.44
2440 5078 1.658994 TCTTTTGCGTCTCAAACCGT 58.341 45.000 0.00 0.00 43.76 4.83
2441 5079 2.823984 TCTTTTGCGTCTCAAACCGTA 58.176 42.857 0.00 0.00 43.76 4.02
2442 5080 3.196463 TCTTTTGCGTCTCAAACCGTAA 58.804 40.909 0.00 0.00 43.76 3.18
2443 5081 3.810941 TCTTTTGCGTCTCAAACCGTAAT 59.189 39.130 0.00 0.00 43.76 1.89
2444 5082 4.989797 TCTTTTGCGTCTCAAACCGTAATA 59.010 37.500 0.00 0.00 43.76 0.98
2445 5083 4.650545 TTTGCGTCTCAAACCGTAATAC 57.349 40.909 0.00 0.00 39.58 1.89
2446 5084 3.581024 TGCGTCTCAAACCGTAATACT 57.419 42.857 0.00 0.00 0.00 2.12
2447 5085 4.700268 TGCGTCTCAAACCGTAATACTA 57.300 40.909 0.00 0.00 0.00 1.82
2448 5086 5.058149 TGCGTCTCAAACCGTAATACTAA 57.942 39.130 0.00 0.00 0.00 2.24
2449 5087 4.858692 TGCGTCTCAAACCGTAATACTAAC 59.141 41.667 0.00 0.00 0.00 2.34
2450 5088 4.858692 GCGTCTCAAACCGTAATACTAACA 59.141 41.667 0.00 0.00 0.00 2.41
2451 5089 5.345741 GCGTCTCAAACCGTAATACTAACAA 59.654 40.000 0.00 0.00 0.00 2.83
2452 5090 6.453396 GCGTCTCAAACCGTAATACTAACAAG 60.453 42.308 0.00 0.00 0.00 3.16
2453 5091 6.803320 CGTCTCAAACCGTAATACTAACAAGA 59.197 38.462 0.00 0.00 0.00 3.02
2454 5092 7.201299 CGTCTCAAACCGTAATACTAACAAGAC 60.201 40.741 0.00 0.00 0.00 3.01
2455 5093 6.803320 TCTCAAACCGTAATACTAACAAGACG 59.197 38.462 0.00 0.00 0.00 4.18
2456 5094 6.446318 TCAAACCGTAATACTAACAAGACGT 58.554 36.000 0.00 0.00 0.00 4.34
2457 5095 7.589395 TCAAACCGTAATACTAACAAGACGTA 58.411 34.615 0.00 0.00 0.00 3.57
2458 5096 8.243426 TCAAACCGTAATACTAACAAGACGTAT 58.757 33.333 0.00 0.00 0.00 3.06
2459 5097 8.863049 CAAACCGTAATACTAACAAGACGTATT 58.137 33.333 0.00 0.00 37.53 1.89
2460 5098 8.620533 AACCGTAATACTAACAAGACGTATTC 57.379 34.615 0.00 0.00 35.90 1.75
2461 5099 7.989826 ACCGTAATACTAACAAGACGTATTCT 58.010 34.615 0.00 0.00 35.90 2.40
2462 5100 7.912250 ACCGTAATACTAACAAGACGTATTCTG 59.088 37.037 0.00 0.00 35.90 3.02
2463 5101 7.377928 CCGTAATACTAACAAGACGTATTCTGG 59.622 40.741 0.00 0.00 35.90 3.86
2464 5102 7.096722 CGTAATACTAACAAGACGTATTCTGGC 60.097 40.741 0.00 0.00 35.90 4.85
2465 5103 3.508762 ACTAACAAGACGTATTCTGGCG 58.491 45.455 0.00 0.00 33.46 5.69
2466 5104 2.450609 AACAAGACGTATTCTGGCGT 57.549 45.000 0.00 0.00 44.50 5.68
2467 5105 2.450609 ACAAGACGTATTCTGGCGTT 57.549 45.000 0.00 0.00 41.70 4.84
2468 5106 2.334838 ACAAGACGTATTCTGGCGTTC 58.665 47.619 0.00 0.00 41.70 3.95
2469 5107 1.659098 CAAGACGTATTCTGGCGTTCC 59.341 52.381 0.00 0.00 41.70 3.62
2470 5108 0.175073 AGACGTATTCTGGCGTTCCC 59.825 55.000 0.00 0.00 41.70 3.97
2471 5109 0.808847 GACGTATTCTGGCGTTCCCC 60.809 60.000 0.00 0.00 41.70 4.81
2472 5110 1.219664 CGTATTCTGGCGTTCCCCA 59.780 57.895 0.00 0.00 0.00 4.96
2473 5111 0.179056 CGTATTCTGGCGTTCCCCAT 60.179 55.000 0.00 0.00 33.64 4.00
2474 5112 1.069513 CGTATTCTGGCGTTCCCCATA 59.930 52.381 0.00 0.00 33.64 2.74
2475 5113 2.484065 CGTATTCTGGCGTTCCCCATAA 60.484 50.000 0.00 0.00 33.64 1.90
2476 5114 2.818751 ATTCTGGCGTTCCCCATAAA 57.181 45.000 0.00 0.00 33.64 1.40
2477 5115 1.828979 TTCTGGCGTTCCCCATAAAC 58.171 50.000 0.00 0.00 33.64 2.01
2478 5116 0.693622 TCTGGCGTTCCCCATAAACA 59.306 50.000 0.00 0.00 33.64 2.83
2479 5117 1.074084 TCTGGCGTTCCCCATAAACAA 59.926 47.619 0.00 0.00 33.64 2.83
2480 5118 1.889829 CTGGCGTTCCCCATAAACAAA 59.110 47.619 0.00 0.00 33.64 2.83
2481 5119 2.495669 CTGGCGTTCCCCATAAACAAAT 59.504 45.455 0.00 0.00 33.64 2.32
2482 5120 3.697045 CTGGCGTTCCCCATAAACAAATA 59.303 43.478 0.00 0.00 33.64 1.40
2483 5121 3.444388 TGGCGTTCCCCATAAACAAATAC 59.556 43.478 0.00 0.00 0.00 1.89
2484 5122 3.697542 GGCGTTCCCCATAAACAAATACT 59.302 43.478 0.00 0.00 0.00 2.12
2485 5123 4.883006 GGCGTTCCCCATAAACAAATACTA 59.117 41.667 0.00 0.00 0.00 1.82
2486 5124 5.220912 GGCGTTCCCCATAAACAAATACTAC 60.221 44.000 0.00 0.00 0.00 2.73
2487 5125 5.220912 GCGTTCCCCATAAACAAATACTACC 60.221 44.000 0.00 0.00 0.00 3.18
2488 5126 6.117488 CGTTCCCCATAAACAAATACTACCT 58.883 40.000 0.00 0.00 0.00 3.08
2489 5127 6.259387 CGTTCCCCATAAACAAATACTACCTC 59.741 42.308 0.00 0.00 0.00 3.85
2490 5128 7.344134 GTTCCCCATAAACAAATACTACCTCT 58.656 38.462 0.00 0.00 0.00 3.69
2491 5129 6.895782 TCCCCATAAACAAATACTACCTCTG 58.104 40.000 0.00 0.00 0.00 3.35
2492 5130 6.445786 TCCCCATAAACAAATACTACCTCTGT 59.554 38.462 0.00 0.00 0.00 3.41
2493 5131 7.624478 TCCCCATAAACAAATACTACCTCTGTA 59.376 37.037 0.00 0.00 0.00 2.74
2494 5132 8.269317 CCCCATAAACAAATACTACCTCTGTAA 58.731 37.037 0.00 0.00 0.00 2.41
2495 5133 9.106070 CCCATAAACAAATACTACCTCTGTAAC 57.894 37.037 0.00 0.00 0.00 2.50
2496 5134 9.886132 CCATAAACAAATACTACCTCTGTAACT 57.114 33.333 0.00 0.00 0.00 2.24
2557 5195 4.630894 AGACGTTTTGCAGTTCAATTGA 57.369 36.364 3.38 3.38 34.12 2.57
2567 5205 3.909430 CAGTTCAATTGAGCTGCAACAT 58.091 40.909 31.11 5.86 44.23 2.71
2672 5310 9.256477 TCAACAGTTTATAACGATACATCATCC 57.744 33.333 0.00 0.00 36.23 3.51
2673 5311 8.495949 CAACAGTTTATAACGATACATCATCCC 58.504 37.037 0.00 0.00 36.23 3.85
2674 5312 7.732025 ACAGTTTATAACGATACATCATCCCA 58.268 34.615 0.00 0.00 36.23 4.37
2675 5313 7.872993 ACAGTTTATAACGATACATCATCCCAG 59.127 37.037 0.00 0.00 36.23 4.45
2676 5314 6.874134 AGTTTATAACGATACATCATCCCAGC 59.126 38.462 0.00 0.00 36.23 4.85
2677 5315 2.550830 AACGATACATCATCCCAGCC 57.449 50.000 0.00 0.00 0.00 4.85
2678 5316 0.687354 ACGATACATCATCCCAGCCC 59.313 55.000 0.00 0.00 0.00 5.19
2679 5317 0.036010 CGATACATCATCCCAGCCCC 60.036 60.000 0.00 0.00 0.00 5.80
2680 5318 1.067295 GATACATCATCCCAGCCCCA 58.933 55.000 0.00 0.00 0.00 4.96
2681 5319 1.637553 GATACATCATCCCAGCCCCAT 59.362 52.381 0.00 0.00 0.00 4.00
2682 5320 1.533187 TACATCATCCCAGCCCCATT 58.467 50.000 0.00 0.00 0.00 3.16
2683 5321 0.186873 ACATCATCCCAGCCCCATTC 59.813 55.000 0.00 0.00 0.00 2.67
2684 5322 0.481567 CATCATCCCAGCCCCATTCT 59.518 55.000 0.00 0.00 0.00 2.40
2685 5323 1.706866 CATCATCCCAGCCCCATTCTA 59.293 52.381 0.00 0.00 0.00 2.10
2686 5324 1.905839 TCATCCCAGCCCCATTCTAA 58.094 50.000 0.00 0.00 0.00 2.10
2687 5325 1.494721 TCATCCCAGCCCCATTCTAAC 59.505 52.381 0.00 0.00 0.00 2.34
2688 5326 1.496429 CATCCCAGCCCCATTCTAACT 59.504 52.381 0.00 0.00 0.00 2.24
2689 5327 1.681229 TCCCAGCCCCATTCTAACTT 58.319 50.000 0.00 0.00 0.00 2.66
2690 5328 2.853430 TCCCAGCCCCATTCTAACTTA 58.147 47.619 0.00 0.00 0.00 2.24
2691 5329 3.403322 TCCCAGCCCCATTCTAACTTAT 58.597 45.455 0.00 0.00 0.00 1.73
2692 5330 3.791545 TCCCAGCCCCATTCTAACTTATT 59.208 43.478 0.00 0.00 0.00 1.40
2693 5331 4.979039 TCCCAGCCCCATTCTAACTTATTA 59.021 41.667 0.00 0.00 0.00 0.98
2694 5332 5.070685 CCCAGCCCCATTCTAACTTATTAC 58.929 45.833 0.00 0.00 0.00 1.89
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
46 48 3.109547 TGTCGCACGTGAATCGGC 61.110 61.111 22.23 15.75 44.69 5.54
62 64 4.634004 TCCCAACTTGCATATAAACTCGTG 59.366 41.667 0.00 0.00 0.00 4.35
79 89 6.460781 TCCGTACACATCAATATATCCCAAC 58.539 40.000 0.00 0.00 0.00 3.77
142 152 8.394040 AGATTCCCAATCTATACCCCTTATTTG 58.606 37.037 0.00 0.00 46.09 2.32
264 275 1.493854 TTGGACACCCCCGCATAGTT 61.494 55.000 0.00 0.00 0.00 2.24
271 282 1.550130 TTCTAGCTTGGACACCCCCG 61.550 60.000 0.00 0.00 0.00 5.73
325 337 3.013921 TCATAATCGGAAAGTTGGTGGC 58.986 45.455 0.00 0.00 0.00 5.01
369 384 6.866480 ACTCAATGCAGAACTTGAAGAAAAA 58.134 32.000 0.00 0.00 31.40 1.94
393 408 2.236146 TCCCTCAATTTGCTAGCGAAGA 59.764 45.455 21.64 13.59 0.00 2.87
419 434 3.383505 CAGATGGGACCGACAGTTATGTA 59.616 47.826 0.00 0.00 40.68 2.29
445 465 6.328148 TCCAGTTTGTACTTCCTCCTCTTAAA 59.672 38.462 0.00 0.00 30.26 1.52
489 509 1.544093 CCAAGAGTGCCACATCACAGT 60.544 52.381 0.00 0.00 39.35 3.55
513 533 0.537188 AATGTGAGCTACCTGGTCCG 59.463 55.000 0.63 0.00 42.12 4.79
866 2995 7.878495 TCCATCCCTACATACCAAAATTAACT 58.122 34.615 0.00 0.00 0.00 2.24
1051 3183 6.407202 ACGCTATTATCAAACTCTTCTGGTT 58.593 36.000 0.00 0.00 0.00 3.67
1135 3267 6.862711 ACAAACTAGTCTAAAAGCAAGGTC 57.137 37.500 0.00 0.00 0.00 3.85
1236 3846 5.472137 ACACGTGTAAATTAACAAGCCTGAT 59.528 36.000 21.98 0.00 32.86 2.90
1295 3905 7.202526 TGATTAGGTTTCTTGCTTTCACTTTG 58.797 34.615 0.00 0.00 0.00 2.77
1296 3906 7.346751 TGATTAGGTTTCTTGCTTTCACTTT 57.653 32.000 0.00 0.00 0.00 2.66
1431 4041 3.099141 CCAAAGGGGTGCAAAGATACAT 58.901 45.455 0.00 0.00 0.00 2.29
1612 4222 2.046314 CACCCAAGTAGCCACCGG 60.046 66.667 0.00 0.00 0.00 5.28
1663 4273 7.174599 CCTCATCTTCACTTTCTTCATCACTTT 59.825 37.037 0.00 0.00 0.00 2.66
1713 4323 7.436673 CCACTAGCACATCAGATTAAGACTAAC 59.563 40.741 0.00 0.00 0.00 2.34
1715 4325 6.040955 CCCACTAGCACATCAGATTAAGACTA 59.959 42.308 0.00 0.00 0.00 2.59
2092 4730 3.572255 CCATAAGGACAGCTCTCTCTACC 59.428 52.174 0.00 0.00 36.89 3.18
2099 4737 3.452627 CACCTTACCATAAGGACAGCTCT 59.547 47.826 19.25 0.00 39.81 4.09
2106 4744 2.568062 TCGCAACACCTTACCATAAGGA 59.432 45.455 19.25 0.00 39.81 3.36
2125 4763 6.752335 TTCAATCAATCTTTTGCAACTTCG 57.248 33.333 0.00 0.00 32.61 3.79
2183 4821 4.397417 AGCACTGATGGCTAAAATTCTGAC 59.603 41.667 0.00 0.00 40.47 3.51
2202 4840 7.145932 AGAACAATATCCAACTTTACAGCAC 57.854 36.000 0.00 0.00 0.00 4.40
2207 4845 8.548721 CCATACGAGAACAATATCCAACTTTAC 58.451 37.037 0.00 0.00 0.00 2.01
2212 4850 6.706270 ACATCCATACGAGAACAATATCCAAC 59.294 38.462 0.00 0.00 0.00 3.77
2245 4883 9.579768 GAATGTGCGAAGAGATATCATATTAGT 57.420 33.333 5.32 0.00 0.00 2.24
2305 4943 0.603707 TTGCGAGAAACTCCTGCAGG 60.604 55.000 27.87 27.87 36.83 4.85
2351 4989 7.708752 TCAAATTTGAACTAAAACCATGACACC 59.291 33.333 18.45 0.00 33.55 4.16
2382 5020 3.621268 GGTGATCGGTTCGATGAATTCAA 59.379 43.478 13.09 0.00 47.00 2.69
2392 5030 2.259618 CACAGTTAGGTGATCGGTTCG 58.740 52.381 0.00 0.00 41.32 3.95
2403 5041 5.649782 AAAGATTTCATGCCACAGTTAGG 57.350 39.130 0.00 0.00 0.00 2.69
2431 5069 6.583806 ACGTCTTGTTAGTATTACGGTTTGAG 59.416 38.462 0.00 0.00 34.81 3.02
2432 5070 6.446318 ACGTCTTGTTAGTATTACGGTTTGA 58.554 36.000 0.00 0.00 34.81 2.69
2433 5071 6.695292 ACGTCTTGTTAGTATTACGGTTTG 57.305 37.500 0.00 0.00 34.81 2.93
2434 5072 8.986477 AATACGTCTTGTTAGTATTACGGTTT 57.014 30.769 0.00 0.00 38.73 3.27
2435 5073 8.462016 AGAATACGTCTTGTTAGTATTACGGTT 58.538 33.333 0.00 0.00 40.06 4.44
2436 5074 7.912250 CAGAATACGTCTTGTTAGTATTACGGT 59.088 37.037 0.00 0.00 40.06 4.83
2437 5075 7.377928 CCAGAATACGTCTTGTTAGTATTACGG 59.622 40.741 0.00 1.75 40.06 4.02
2438 5076 7.096722 GCCAGAATACGTCTTGTTAGTATTACG 60.097 40.741 0.00 0.00 40.06 3.18
2439 5077 7.096722 CGCCAGAATACGTCTTGTTAGTATTAC 60.097 40.741 0.00 0.00 40.06 1.89
2440 5078 6.914215 CGCCAGAATACGTCTTGTTAGTATTA 59.086 38.462 0.00 0.00 40.06 0.98
2441 5079 5.747197 CGCCAGAATACGTCTTGTTAGTATT 59.253 40.000 0.00 0.40 41.90 1.89
2442 5080 5.163581 ACGCCAGAATACGTCTTGTTAGTAT 60.164 40.000 0.00 0.00 38.28 2.12
2443 5081 4.156556 ACGCCAGAATACGTCTTGTTAGTA 59.843 41.667 0.00 0.00 38.28 1.82
2444 5082 3.057033 ACGCCAGAATACGTCTTGTTAGT 60.057 43.478 0.00 0.00 38.28 2.24
2445 5083 3.508762 ACGCCAGAATACGTCTTGTTAG 58.491 45.455 0.00 0.00 38.28 2.34
2446 5084 3.581024 ACGCCAGAATACGTCTTGTTA 57.419 42.857 0.00 0.00 38.28 2.41
2447 5085 2.450609 ACGCCAGAATACGTCTTGTT 57.549 45.000 0.00 0.00 38.28 2.83
2448 5086 2.334838 GAACGCCAGAATACGTCTTGT 58.665 47.619 0.00 0.00 42.68 3.16
2449 5087 1.659098 GGAACGCCAGAATACGTCTTG 59.341 52.381 0.00 0.00 42.68 3.02
2450 5088 1.405121 GGGAACGCCAGAATACGTCTT 60.405 52.381 0.00 0.00 42.68 3.01
2451 5089 0.175073 GGGAACGCCAGAATACGTCT 59.825 55.000 0.00 0.00 42.68 4.18
2452 5090 0.808847 GGGGAACGCCAGAATACGTC 60.809 60.000 0.00 0.00 42.68 4.34
2453 5091 1.219935 GGGGAACGCCAGAATACGT 59.780 57.895 0.00 0.00 46.07 3.57
2454 5092 0.179056 ATGGGGAACGCCAGAATACG 60.179 55.000 15.21 0.00 42.25 3.06
2455 5093 2.922740 TATGGGGAACGCCAGAATAC 57.077 50.000 15.21 0.00 42.25 1.89
2456 5094 3.054287 TGTTTATGGGGAACGCCAGAATA 60.054 43.478 16.20 9.38 42.25 1.75
2457 5095 2.291282 TGTTTATGGGGAACGCCAGAAT 60.291 45.455 16.20 3.84 42.25 2.40
2458 5096 1.074084 TGTTTATGGGGAACGCCAGAA 59.926 47.619 15.21 13.88 42.25 3.02
2459 5097 0.693622 TGTTTATGGGGAACGCCAGA 59.306 50.000 15.21 8.73 42.25 3.86
2460 5098 1.540267 TTGTTTATGGGGAACGCCAG 58.460 50.000 15.21 0.00 42.25 4.85
2461 5099 1.996798 TTTGTTTATGGGGAACGCCA 58.003 45.000 12.65 12.65 42.25 5.69
2462 5100 3.697542 AGTATTTGTTTATGGGGAACGCC 59.302 43.478 0.85 0.85 42.25 5.68
2463 5101 4.976224 AGTATTTGTTTATGGGGAACGC 57.024 40.909 0.00 0.00 43.69 4.84
2464 5102 6.117488 AGGTAGTATTTGTTTATGGGGAACG 58.883 40.000 0.00 0.00 0.00 3.95
2465 5103 7.282450 CAGAGGTAGTATTTGTTTATGGGGAAC 59.718 40.741 0.00 0.00 0.00 3.62
2466 5104 7.037153 ACAGAGGTAGTATTTGTTTATGGGGAA 60.037 37.037 0.00 0.00 0.00 3.97
2467 5105 6.445786 ACAGAGGTAGTATTTGTTTATGGGGA 59.554 38.462 0.00 0.00 0.00 4.81
2468 5106 6.659824 ACAGAGGTAGTATTTGTTTATGGGG 58.340 40.000 0.00 0.00 0.00 4.96
2469 5107 9.106070 GTTACAGAGGTAGTATTTGTTTATGGG 57.894 37.037 0.00 0.00 0.00 4.00
2470 5108 9.886132 AGTTACAGAGGTAGTATTTGTTTATGG 57.114 33.333 0.00 0.00 0.00 2.74
2520 5158 9.389570 GCAAAACGTCTTACATTAAGTTACAAT 57.610 29.630 0.00 0.00 37.10 2.71
2565 5203 6.108687 TCTCTGTAACTTGATGTAAGGCATG 58.891 40.000 0.00 0.00 40.84 4.06
2567 5205 5.738619 TCTCTGTAACTTGATGTAAGGCA 57.261 39.130 0.00 0.00 40.84 4.75
2608 5246 8.997621 TTTTGAGAGACGTGCTATACTTTTAT 57.002 30.769 0.00 0.00 0.00 1.40
2610 5248 7.724305 TTTTTGAGAGACGTGCTATACTTTT 57.276 32.000 0.00 0.00 0.00 2.27
2614 5252 6.887376 TCATTTTTGAGAGACGTGCTATAC 57.113 37.500 0.00 0.00 0.00 1.47
2617 5255 6.260050 ACTTTTCATTTTTGAGAGACGTGCTA 59.740 34.615 0.00 0.00 0.00 3.49
2624 5262 9.950680 GTTGATGTACTTTTCATTTTTGAGAGA 57.049 29.630 0.00 0.00 0.00 3.10
2671 5309 3.884037 ATAAGTTAGAATGGGGCTGGG 57.116 47.619 0.00 0.00 0.00 4.45


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

AutoCloner maintained by Alex Coulton.