Multiple sequence alignment - TraesCS5B01G381800

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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 TraesCS5B01G381800 chr5B 100.000 2835 0 0 1 2835 559780074 559777240 0.000000e+00 5236.0
1 TraesCS5B01G381800 chr5B 80.753 239 26 11 1452 1688 64419321 64419541 4.860000e-38 169.0
2 TraesCS5B01G381800 chr5B 79.464 112 23 0 1452 1563 617712010 617711899 2.340000e-11 80.5
3 TraesCS5B01G381800 chr5A 90.746 2291 78 34 1 2208 575614401 575612162 0.000000e+00 2933.0
4 TraesCS5B01G381800 chr5A 81.928 332 35 13 2514 2833 575611843 575611525 1.010000e-64 257.0
5 TraesCS5B01G381800 chr5A 82.008 239 23 11 1452 1688 57563479 57563699 4.820000e-43 185.0
6 TraesCS5B01G381800 chr5A 78.799 283 39 13 2257 2524 575612151 575611875 1.350000e-38 171.0
7 TraesCS5B01G381800 chr5D 92.167 1915 58 40 1 1866 457681749 457679878 0.000000e+00 2621.0
8 TraesCS5B01G381800 chr5D 93.323 629 37 5 1892 2516 457679672 457679045 0.000000e+00 924.0
9 TraesCS5B01G381800 chr5D 86.322 329 11 7 2514 2835 457679001 457678700 7.570000e-86 327.0
10 TraesCS5B01G381800 chr5D 81.933 238 23 11 1452 1687 66668839 66668620 1.730000e-42 183.0
11 TraesCS5B01G381800 chr5D 74.449 227 43 11 1452 1678 498404342 498404131 1.810000e-12 84.2


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 TraesCS5B01G381800 chr5B 559777240 559780074 2834 True 5236.000000 5236 100.000000 1 2835 1 chr5B.!!$R1 2834
1 TraesCS5B01G381800 chr5A 575611525 575614401 2876 True 1120.333333 2933 83.824333 1 2833 3 chr5A.!!$R1 2832
2 TraesCS5B01G381800 chr5D 457678700 457681749 3049 True 1290.666667 2621 90.604000 1 2835 3 chr5D.!!$R3 2834

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
246 270 0.041576 GAACTGAAACCCGTTGCGTC 60.042 55.0 0.0 0.0 0.0 5.19 F
972 1049 0.535335 CTTCCCTACCGCAAGCACTA 59.465 55.0 0.0 0.0 0.0 2.74 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1201 1280 1.299976 GGGCTGGTACTCACTTGGG 59.700 63.158 0.0 0.0 0.0 4.12 R
2252 2558 0.035439 CCACCGCACCTAAACATCCT 60.035 55.000 0.0 0.0 0.0 3.24 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
88 94 2.116366 CATACGTGCATGATTCGTCGA 58.884 47.619 14.17 0.00 38.69 4.20
246 270 0.041576 GAACTGAAACCCGTTGCGTC 60.042 55.000 0.00 0.00 0.00 5.19
360 391 2.180204 CGCATCCACCCATCCGAAC 61.180 63.158 0.00 0.00 0.00 3.95
465 510 2.926200 CTCCATCAACGTCAAGCTAGTG 59.074 50.000 0.00 0.00 0.00 2.74
467 512 2.413112 CCATCAACGTCAAGCTAGTGTG 59.587 50.000 0.00 0.00 0.00 3.82
468 513 2.882927 TCAACGTCAAGCTAGTGTGT 57.117 45.000 0.00 0.00 0.00 3.72
469 514 3.994204 TCAACGTCAAGCTAGTGTGTA 57.006 42.857 0.00 0.00 0.00 2.90
470 515 3.635331 TCAACGTCAAGCTAGTGTGTAC 58.365 45.455 0.00 0.00 0.00 2.90
471 516 2.719426 ACGTCAAGCTAGTGTGTACC 57.281 50.000 0.00 0.00 0.00 3.34
689 743 2.273776 CCACACCACACCACACCA 59.726 61.111 0.00 0.00 0.00 4.17
690 744 2.118404 CCACACCACACCACACCAC 61.118 63.158 0.00 0.00 0.00 4.16
691 745 1.377856 CACACCACACCACACCACA 60.378 57.895 0.00 0.00 0.00 4.17
692 746 1.377987 ACACCACACCACACCACAC 60.378 57.895 0.00 0.00 0.00 3.82
693 747 2.118404 CACCACACCACACCACACC 61.118 63.158 0.00 0.00 0.00 4.16
694 748 2.273776 CCACACCACACCACACCA 59.726 61.111 0.00 0.00 0.00 4.17
695 749 2.118404 CCACACCACACCACACCAC 61.118 63.158 0.00 0.00 0.00 4.16
696 750 1.377856 CACACCACACCACACCACA 60.378 57.895 0.00 0.00 0.00 4.17
697 751 1.377987 ACACCACACCACACCACAC 60.378 57.895 0.00 0.00 0.00 3.82
698 752 1.377856 CACCACACCACACCACACA 60.378 57.895 0.00 0.00 0.00 3.72
888 965 3.384668 CAACACACACATCGTCTTCTCT 58.615 45.455 0.00 0.00 0.00 3.10
972 1049 0.535335 CTTCCCTACCGCAAGCACTA 59.465 55.000 0.00 0.00 0.00 2.74
974 1051 1.518572 CCCTACCGCAAGCACTACG 60.519 63.158 0.00 0.00 0.00 3.51
1192 1271 3.978867 GACGACGTCGAGACCGCAG 62.979 68.421 41.52 12.23 43.02 5.18
1232 1311 2.860971 AGCCCAACCCCTTCAGCT 60.861 61.111 0.00 0.00 0.00 4.24
1237 1316 1.073199 CAACCCCTTCAGCTTCCGT 59.927 57.895 0.00 0.00 0.00 4.69
1278 1357 1.492133 CCTCCAACTCCAAGGCCAGA 61.492 60.000 5.01 0.00 0.00 3.86
1313 1393 1.336332 GCTTGTCTCAACTCTCGCAGA 60.336 52.381 0.00 0.00 0.00 4.26
1406 1498 2.669569 GACGAGGCCAGCAGCAAA 60.670 61.111 5.01 0.00 46.50 3.68
1418 1510 1.355210 CAGCAAAAACACGCCGTCT 59.645 52.632 0.00 0.00 0.00 4.18
1484 1576 4.208686 GACGGAGCGCCCTACCTG 62.209 72.222 2.29 2.71 0.00 4.00
1518 1610 2.827755 TGAGGATGTACAAGGGCTACA 58.172 47.619 0.00 0.00 0.00 2.74
1833 1951 0.032813 ACAGGCCTGGGATCCAAATG 60.033 55.000 35.42 8.23 30.80 2.32
1866 1985 5.001874 TGAGAAGCAAGATGATATCATGGC 58.998 41.667 22.86 20.44 36.57 4.40
1873 1992 5.421277 CAAGATGATATCATGGCCTCTCTC 58.579 45.833 22.86 6.04 36.57 3.20
1874 1993 4.950361 AGATGATATCATGGCCTCTCTCT 58.050 43.478 22.86 8.27 36.57 3.10
1875 1994 4.957954 AGATGATATCATGGCCTCTCTCTC 59.042 45.833 22.86 4.81 36.57 3.20
1876 1995 4.401048 TGATATCATGGCCTCTCTCTCT 57.599 45.455 3.32 0.00 0.00 3.10
1877 1996 4.749820 TGATATCATGGCCTCTCTCTCTT 58.250 43.478 3.32 0.00 0.00 2.85
2148 2448 1.458927 CTTCCGGTTTCCCCTTGGT 59.541 57.895 0.00 0.00 0.00 3.67
2197 2503 9.764870 CAAGTCACTTTATCATCAACACTATTG 57.235 33.333 0.00 0.00 0.00 1.90
2229 2535 3.348119 TGTTTGTGAGCACCACTTGTTA 58.652 40.909 10.03 0.00 45.86 2.41
2230 2536 3.951037 TGTTTGTGAGCACCACTTGTTAT 59.049 39.130 10.03 0.00 45.86 1.89
2231 2537 4.202000 TGTTTGTGAGCACCACTTGTTATG 60.202 41.667 10.03 0.00 45.86 1.90
2232 2538 1.879380 TGTGAGCACCACTTGTTATGC 59.121 47.619 10.03 0.00 45.86 3.14
2233 2539 1.879380 GTGAGCACCACTTGTTATGCA 59.121 47.619 0.00 0.00 42.44 3.96
2234 2540 2.489329 GTGAGCACCACTTGTTATGCAT 59.511 45.455 3.79 3.79 42.44 3.96
2235 2541 3.057315 GTGAGCACCACTTGTTATGCATT 60.057 43.478 3.54 0.00 42.44 3.56
2236 2542 3.191162 TGAGCACCACTTGTTATGCATTC 59.809 43.478 3.54 0.00 40.63 2.67
2237 2543 3.424703 AGCACCACTTGTTATGCATTCT 58.575 40.909 3.54 0.00 40.63 2.40
2238 2544 3.441572 AGCACCACTTGTTATGCATTCTC 59.558 43.478 3.54 0.00 40.63 2.87
2239 2545 3.191162 GCACCACTTGTTATGCATTCTCA 59.809 43.478 3.54 0.00 38.00 3.27
2240 2546 4.321156 GCACCACTTGTTATGCATTCTCAA 60.321 41.667 3.54 7.54 38.00 3.02
2241 2547 5.622914 GCACCACTTGTTATGCATTCTCAAT 60.623 40.000 3.54 0.00 38.00 2.57
2242 2548 6.032094 CACCACTTGTTATGCATTCTCAATC 58.968 40.000 3.54 0.00 0.00 2.67
2243 2549 5.126061 ACCACTTGTTATGCATTCTCAATCC 59.874 40.000 3.54 0.00 0.00 3.01
2244 2550 5.268544 CACTTGTTATGCATTCTCAATCCG 58.731 41.667 3.54 0.35 0.00 4.18
2245 2551 5.065090 CACTTGTTATGCATTCTCAATCCGA 59.935 40.000 3.54 0.00 0.00 4.55
2246 2552 5.295292 ACTTGTTATGCATTCTCAATCCGAG 59.705 40.000 3.54 0.00 43.80 4.63
2247 2553 4.769688 TGTTATGCATTCTCAATCCGAGT 58.230 39.130 3.54 0.00 42.88 4.18
2248 2554 4.811024 TGTTATGCATTCTCAATCCGAGTC 59.189 41.667 3.54 0.00 42.88 3.36
2249 2555 2.315925 TGCATTCTCAATCCGAGTCC 57.684 50.000 0.00 0.00 42.88 3.85
2250 2556 1.554617 TGCATTCTCAATCCGAGTCCA 59.445 47.619 0.00 0.00 42.88 4.02
2251 2557 2.027285 TGCATTCTCAATCCGAGTCCAA 60.027 45.455 0.00 0.00 42.88 3.53
2252 2558 3.009723 GCATTCTCAATCCGAGTCCAAA 58.990 45.455 0.00 0.00 42.88 3.28
2253 2559 3.064545 GCATTCTCAATCCGAGTCCAAAG 59.935 47.826 0.00 0.00 42.88 2.77
2254 2560 3.334583 TTCTCAATCCGAGTCCAAAGG 57.665 47.619 0.00 0.00 42.88 3.11
2255 2561 2.536066 TCTCAATCCGAGTCCAAAGGA 58.464 47.619 0.00 0.00 42.88 3.36
2256 2562 3.107601 TCTCAATCCGAGTCCAAAGGAT 58.892 45.455 0.00 0.00 45.88 3.24
2257 2563 3.118629 TCTCAATCCGAGTCCAAAGGATG 60.119 47.826 0.00 0.00 43.39 3.51
2258 2564 2.571653 TCAATCCGAGTCCAAAGGATGT 59.428 45.455 0.00 0.00 43.39 3.06
2259 2565 3.009033 TCAATCCGAGTCCAAAGGATGTT 59.991 43.478 0.00 0.00 43.39 2.71
2260 2566 3.721087 ATCCGAGTCCAAAGGATGTTT 57.279 42.857 0.00 0.00 42.65 2.83
2261 2567 4.837093 ATCCGAGTCCAAAGGATGTTTA 57.163 40.909 0.00 0.00 42.65 2.01
2262 2568 4.202245 TCCGAGTCCAAAGGATGTTTAG 57.798 45.455 0.00 0.00 32.73 1.85
2272 2609 1.029947 GGATGTTTAGGTGCGGTGGG 61.030 60.000 0.00 0.00 0.00 4.61
2313 2650 3.247563 GAGCATTTCGACAACGTTTCA 57.752 42.857 0.00 0.00 40.69 2.69
2319 2656 4.868450 TTTCGACAACGTTTCAATCTGT 57.132 36.364 0.00 0.00 40.69 3.41
2385 2729 3.120060 GCTAAGACTGCAAACACAGATGG 60.120 47.826 0.00 0.00 40.25 3.51
2408 2752 6.754209 TGGAACACATGTGATTTGTTTTGTAC 59.246 34.615 31.94 4.35 33.59 2.90
2424 2768 4.913335 TTGTACCACCGCAACATTTTAA 57.087 36.364 0.00 0.00 0.00 1.52
2427 2771 2.312390 ACCACCGCAACATTTTAAGGT 58.688 42.857 0.00 0.00 0.00 3.50
2428 2772 2.295070 ACCACCGCAACATTTTAAGGTC 59.705 45.455 0.00 0.00 0.00 3.85
2485 2830 9.894783 TGTACGATTTCTATATGCTTAGAGAAC 57.105 33.333 14.30 5.68 35.85 3.01
2551 2948 5.741964 GCCACTTCTCATCCGATACCAAATA 60.742 44.000 0.00 0.00 0.00 1.40
2560 2957 9.277783 CTCATCCGATACCAAATAGAAATTTCT 57.722 33.333 23.53 23.53 41.24 2.52
2646 3050 7.814587 GGTTTTCAATCCTGTTAAGATTCAAGG 59.185 37.037 0.00 0.00 31.56 3.61
2700 3113 2.125912 CGAACCGTGGAGGCTCTG 60.126 66.667 15.23 4.78 46.52 3.35
2727 3141 7.704271 TGAATCTTAGACCTAATGACACTACG 58.296 38.462 0.00 0.00 0.00 3.51
2739 3153 2.030540 TGACACTACGAAAGGAAGGACG 60.031 50.000 0.00 0.00 0.00 4.79
2761 3175 4.504461 CGACTAGTTCCATCCGAATCTTTG 59.496 45.833 0.00 0.00 31.67 2.77
2791 3205 2.632996 TCCCAGAGACGTTGACTTGAAT 59.367 45.455 0.00 0.00 0.00 2.57
2792 3206 2.996621 CCCAGAGACGTTGACTTGAATC 59.003 50.000 0.00 0.00 0.00 2.52
2793 3207 2.663602 CCAGAGACGTTGACTTGAATCG 59.336 50.000 0.00 0.00 0.00 3.34
2794 3208 2.663602 CAGAGACGTTGACTTGAATCGG 59.336 50.000 0.00 0.00 0.00 4.18
2795 3209 2.557056 AGAGACGTTGACTTGAATCGGA 59.443 45.455 0.00 0.00 0.00 4.55
2796 3210 3.005472 AGAGACGTTGACTTGAATCGGAA 59.995 43.478 0.00 0.00 0.00 4.30
2797 3211 3.926616 AGACGTTGACTTGAATCGGAAT 58.073 40.909 0.00 0.00 0.00 3.01
2798 3212 4.315803 AGACGTTGACTTGAATCGGAATT 58.684 39.130 0.00 0.00 0.00 2.17
2824 3238 1.270465 CCATGTGCCGCTGATGAGATA 60.270 52.381 4.31 0.00 0.00 1.98
2828 3242 3.544684 TGTGCCGCTGATGAGATAAAAT 58.455 40.909 0.00 0.00 0.00 1.82
2830 3244 4.035558 TGTGCCGCTGATGAGATAAAATTC 59.964 41.667 0.00 0.00 0.00 2.17
2832 3246 3.494626 GCCGCTGATGAGATAAAATTCGA 59.505 43.478 0.00 0.00 0.00 3.71
2833 3247 4.153117 GCCGCTGATGAGATAAAATTCGAT 59.847 41.667 0.00 0.00 0.00 3.59
2834 3248 5.669848 GCCGCTGATGAGATAAAATTCGATC 60.670 44.000 0.00 0.00 0.00 3.69
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
246 270 2.506217 CGTCCCGTCCATCACACG 60.506 66.667 0.00 0.00 36.99 4.49
383 419 2.106566 ACAATCGAGAGCTGGACTGAT 58.893 47.619 0.00 0.00 0.00 2.90
452 493 1.958579 TGGTACACACTAGCTTGACGT 59.041 47.619 1.04 0.00 0.00 4.34
468 513 1.682451 GGCCTGGCTGTACGATGGTA 61.682 60.000 19.68 0.00 0.00 3.25
469 514 2.584608 GCCTGGCTGTACGATGGT 59.415 61.111 12.43 0.00 0.00 3.55
470 515 2.203070 GGCCTGGCTGTACGATGG 60.203 66.667 19.68 0.00 0.00 3.51
471 516 2.369257 ATCGGCCTGGCTGTACGATG 62.369 60.000 25.92 3.38 42.02 3.84
667 721 1.341913 TGTGGTGTGGTGTGGCTAGT 61.342 55.000 0.00 0.00 0.00 2.57
689 743 4.204028 GGGGGCTGTGTGTGGTGT 62.204 66.667 0.00 0.00 0.00 4.16
888 965 2.575993 GCTCTGGCTCGCTGAGAA 59.424 61.111 9.32 0.00 35.22 2.87
913 990 1.524355 GATGCGATGTGAATGACGAGG 59.476 52.381 0.00 0.00 0.00 4.63
974 1051 3.195698 GACGTGGGAAGATGCCGC 61.196 66.667 0.00 0.00 34.81 6.53
1201 1280 1.299976 GGGCTGGTACTCACTTGGG 59.700 63.158 0.00 0.00 0.00 4.12
1232 1311 3.767673 AGAATAAGGTAGTGAGCACGGAA 59.232 43.478 0.00 0.00 36.20 4.30
1237 1316 5.721960 AGGAAGAAGAATAAGGTAGTGAGCA 59.278 40.000 0.00 0.00 0.00 4.26
1278 1357 4.330250 AGACAAGCATGCATGTAAGAACT 58.670 39.130 26.95 16.75 0.00 3.01
1313 1393 1.525995 CCACCCGACAACTTGTGCT 60.526 57.895 0.00 0.00 0.00 4.40
1484 1576 1.475403 TCCTCATGTCGACCTTCCTC 58.525 55.000 14.12 0.00 0.00 3.71
1518 1610 4.814041 GGCCTCCCTGAGCTCCCT 62.814 72.222 12.15 0.00 0.00 4.20
1833 1951 7.317842 TCATCTTGCTTCTCAAATCTTCATC 57.682 36.000 0.00 0.00 33.65 2.92
1890 2009 9.503399 AGATCGAAGAACAAAAAGTATAAACCT 57.497 29.630 0.00 0.00 43.58 3.50
2148 2448 6.625362 TGACAACTTGAATACAAAAGCACAA 58.375 32.000 0.00 0.00 35.49 3.33
2197 2503 2.666022 GCTCACAAACAACAACCAACAC 59.334 45.455 0.00 0.00 0.00 3.32
2237 2543 2.571653 ACATCCTTTGGACTCGGATTGA 59.428 45.455 0.00 0.00 35.43 2.57
2238 2544 2.991250 ACATCCTTTGGACTCGGATTG 58.009 47.619 0.00 0.00 35.43 2.67
2239 2545 3.721087 AACATCCTTTGGACTCGGATT 57.279 42.857 0.00 0.00 35.43 3.01
2240 2546 3.721087 AAACATCCTTTGGACTCGGAT 57.279 42.857 0.00 0.00 38.03 4.18
2241 2547 3.055385 CCTAAACATCCTTTGGACTCGGA 60.055 47.826 0.00 0.00 32.98 4.55
2242 2548 3.270877 CCTAAACATCCTTTGGACTCGG 58.729 50.000 0.00 0.00 32.98 4.63
2243 2549 3.684788 CACCTAAACATCCTTTGGACTCG 59.315 47.826 0.00 0.00 32.98 4.18
2244 2550 3.440522 GCACCTAAACATCCTTTGGACTC 59.559 47.826 0.00 0.00 32.98 3.36
2245 2551 3.421844 GCACCTAAACATCCTTTGGACT 58.578 45.455 0.00 0.00 32.98 3.85
2246 2552 2.161609 CGCACCTAAACATCCTTTGGAC 59.838 50.000 0.00 0.00 32.98 4.02
2247 2553 2.432444 CGCACCTAAACATCCTTTGGA 58.568 47.619 0.00 0.00 35.55 3.53
2248 2554 1.472480 CCGCACCTAAACATCCTTTGG 59.528 52.381 0.00 0.00 0.00 3.28
2249 2555 2.095263 CACCGCACCTAAACATCCTTTG 60.095 50.000 0.00 0.00 0.00 2.77
2250 2556 2.159382 CACCGCACCTAAACATCCTTT 58.841 47.619 0.00 0.00 0.00 3.11
2251 2557 1.613255 CCACCGCACCTAAACATCCTT 60.613 52.381 0.00 0.00 0.00 3.36
2252 2558 0.035439 CCACCGCACCTAAACATCCT 60.035 55.000 0.00 0.00 0.00 3.24
2253 2559 1.029947 CCCACCGCACCTAAACATCC 61.030 60.000 0.00 0.00 0.00 3.51
2254 2560 1.654023 GCCCACCGCACCTAAACATC 61.654 60.000 0.00 0.00 37.47 3.06
2255 2561 1.677633 GCCCACCGCACCTAAACAT 60.678 57.895 0.00 0.00 37.47 2.71
2256 2562 2.281900 GCCCACCGCACCTAAACA 60.282 61.111 0.00 0.00 37.47 2.83
2257 2563 2.281900 TGCCCACCGCACCTAAAC 60.282 61.111 0.00 0.00 44.64 2.01
2258 2564 2.033448 CTGCCCACCGCACCTAAA 59.967 61.111 0.00 0.00 44.64 1.85
2259 2565 3.246112 ACTGCCCACCGCACCTAA 61.246 61.111 0.00 0.00 44.64 2.69
2260 2566 4.015406 CACTGCCCACCGCACCTA 62.015 66.667 0.00 0.00 44.64 3.08
2262 2568 2.608970 ATATCACTGCCCACCGCACC 62.609 60.000 0.00 0.00 44.64 5.01
2319 2656 4.036498 CCAATTTGGTTGTACCGTACACAA 59.964 41.667 11.00 10.14 42.58 3.33
2323 2660 4.142556 CCATCCAATTTGGTTGTACCGTAC 60.143 45.833 20.07 1.40 42.58 3.67
2326 2663 3.085533 TCCATCCAATTTGGTTGTACCG 58.914 45.455 20.07 8.98 42.58 4.02
2385 2729 6.754209 TGGTACAAAACAAATCACATGTGTTC 59.246 34.615 24.63 1.66 34.46 3.18
2396 2740 3.119101 TGTTGCGGTGGTACAAAACAAAT 60.119 39.130 0.00 0.00 44.16 2.32
2400 2744 2.785713 ATGTTGCGGTGGTACAAAAC 57.214 45.000 0.00 0.00 44.16 2.43
2408 2752 2.556622 AGACCTTAAAATGTTGCGGTGG 59.443 45.455 0.00 0.00 0.00 4.61
2424 2768 7.394816 TGAAATTCCTTCGATTAAAGAGACCT 58.605 34.615 0.00 0.00 36.78 3.85
2427 2771 9.062524 TGTTTGAAATTCCTTCGATTAAAGAGA 57.937 29.630 0.00 0.00 36.78 3.10
2428 2772 9.846248 ATGTTTGAAATTCCTTCGATTAAAGAG 57.154 29.630 0.00 0.00 36.78 2.85
2501 2846 8.117813 TCATAAGTAACATCCAAAAGGTTTCC 57.882 34.615 0.00 0.00 0.00 3.13
2646 3050 5.473504 ACACAGGAATGTGATGTTAGAAACC 59.526 40.000 14.85 0.00 42.02 3.27
2700 3113 9.303537 GTAGTGTCATTAGGTCTAAGATTCAAC 57.696 37.037 0.00 0.00 0.00 3.18
2727 3141 3.257624 TGGAACTAGTCGTCCTTCCTTTC 59.742 47.826 13.56 0.00 34.38 2.62
2739 3153 4.811557 CCAAAGATTCGGATGGAACTAGTC 59.188 45.833 0.00 0.00 37.50 2.59
2761 3175 1.077429 GTCTCTGGGAACATGGGCC 60.077 63.158 0.00 0.00 41.51 5.80
2791 3205 1.732941 CACATGGTTCCGAATTCCGA 58.267 50.000 0.00 0.00 41.76 4.55
2792 3206 0.098728 GCACATGGTTCCGAATTCCG 59.901 55.000 0.00 0.00 38.18 4.30
2793 3207 0.455815 GGCACATGGTTCCGAATTCC 59.544 55.000 0.00 0.00 0.00 3.01
2794 3208 0.098728 CGGCACATGGTTCCGAATTC 59.901 55.000 14.74 0.00 44.42 2.17
2795 3209 1.933115 GCGGCACATGGTTCCGAATT 61.933 55.000 21.40 0.00 44.42 2.17
2796 3210 2.406616 GCGGCACATGGTTCCGAAT 61.407 57.895 21.40 0.00 44.42 3.34
2797 3211 3.053291 GCGGCACATGGTTCCGAA 61.053 61.111 21.40 0.00 44.42 4.30
2798 3212 4.015406 AGCGGCACATGGTTCCGA 62.015 61.111 21.40 0.00 44.42 4.55


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

AutoCloner maintained by Alex Coulton.