Multiple sequence alignment - TraesCS1D01G286100

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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 TraesCS1D01G286100 chr1D 100.000 2930 0 0 1 2930 384149020 384146091 0.000000e+00 5411.0
1 TraesCS1D01G286100 chr1A 91.180 2823 142 55 155 2930 483929746 483926984 0.000000e+00 3735.0
2 TraesCS1D01G286100 chr1A 89.865 148 8 6 9 154 483930051 483929909 1.790000e-42 183.0
3 TraesCS1D01G286100 chr1B 94.201 1966 66 26 385 2329 515456448 515454510 0.000000e+00 2955.0
4 TraesCS1D01G286100 chr1B 85.542 747 63 15 17 754 515457266 515456556 0.000000e+00 739.0
5 TraesCS1D01G286100 chr4D 100.000 44 0 0 1703 1746 350831289 350831246 6.730000e-12 82.4
6 TraesCS1D01G286100 chr4D 77.876 113 23 2 1234 1345 350831482 350831371 5.240000e-08 69.4
7 TraesCS1D01G286100 chr4B 97.727 44 1 0 1703 1746 434193843 434193800 3.130000e-10 76.8
8 TraesCS1D01G286100 chr4B 76.786 112 24 2 1234 1344 434194034 434193924 8.770000e-06 62.1
9 TraesCS1D01G286100 chr4A 95.745 47 2 0 1700 1746 114142613 114142659 3.130000e-10 76.8


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 TraesCS1D01G286100 chr1D 384146091 384149020 2929 True 5411 5411 100.0000 1 2930 1 chr1D.!!$R1 2929
1 TraesCS1D01G286100 chr1A 483926984 483930051 3067 True 1959 3735 90.5225 9 2930 2 chr1A.!!$R1 2921
2 TraesCS1D01G286100 chr1B 515454510 515457266 2756 True 1847 2955 89.8715 17 2329 2 chr1B.!!$R1 2312

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
256 423 0.040425 CAAACGACCAAGAAAGGCCG 60.04 55.0 0.0 0.0 40.62 6.13 F
1066 1715 1.089920 CTGCCTTCCAAGTTCATCCG 58.91 55.0 0.0 0.0 0.00 4.18 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1137 1791 0.036952 CATCCGATCTATGGGCGCTT 60.037 55.0 7.64 0.00 0.0 4.68 R
2433 3120 1.136690 ACGTATGTCAACTGTGCACG 58.863 50.0 13.13 9.67 0.0 5.34 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
42 43 0.671472 CACATGAGTCTGCTTGCGGA 60.671 55.000 0.00 0.00 0.00 5.54
91 92 6.883744 TCTGTTGTCTATATGTGTATTGGCA 58.116 36.000 0.00 0.00 0.00 4.92
93 94 5.527214 TGTTGTCTATATGTGTATTGGCAGC 59.473 40.000 0.00 0.00 31.21 5.25
110 111 3.091417 GCAGCGCGTTTTTGTCTAATAG 58.909 45.455 8.43 0.00 0.00 1.73
124 125 7.760131 TTGTCTAATAGTATGTTTGTACCGC 57.240 36.000 0.00 0.00 0.00 5.68
132 133 1.287815 GTTTGTACCGCTTTGGCCC 59.712 57.895 0.00 0.00 43.94 5.80
170 336 6.204882 GTCATACTCTGCTTGGTTTGTACTTT 59.795 38.462 0.00 0.00 0.00 2.66
172 338 7.934665 TCATACTCTGCTTGGTTTGTACTTTTA 59.065 33.333 0.00 0.00 0.00 1.52
256 423 0.040425 CAAACGACCAAGAAAGGCCG 60.040 55.000 0.00 0.00 40.62 6.13
272 439 2.158755 AGGCCGGATTCAACTATCCAAG 60.159 50.000 5.05 0.00 43.60 3.61
302 469 4.527583 CTCCTCGCTCCTGCTGGC 62.528 72.222 4.42 0.00 36.97 4.85
304 471 4.834453 CCTCGCTCCTGCTGGCTG 62.834 72.222 4.42 1.56 36.97 4.85
344 513 6.555812 AGAAAGGAAAATTTCACGGTAGAC 57.444 37.500 8.09 0.00 40.86 2.59
359 528 2.552743 GGTAGACTCCAACAAAAGCACC 59.447 50.000 0.00 0.00 0.00 5.01
381 550 7.763528 GCACCAGTGGAATAGATAGATGATTAG 59.236 40.741 18.40 0.00 0.00 1.73
382 551 9.029368 CACCAGTGGAATAGATAGATGATTAGA 57.971 37.037 18.40 0.00 0.00 2.10
460 1092 8.924511 AAAGAACTCATCTCTGAACCAAATTA 57.075 30.769 0.00 0.00 37.42 1.40
465 1097 6.881602 ACTCATCTCTGAACCAAATTAAGTCC 59.118 38.462 0.00 0.00 0.00 3.85
504 1136 3.353029 TGTCGGCAATGGCACGTG 61.353 61.111 12.28 12.28 43.71 4.49
586 1219 3.642848 TCCCTTTAGAAACACACGTAGGT 59.357 43.478 0.00 0.00 0.00 3.08
605 1238 6.851837 CGTAGGTCTAATAGACACGATGAAAG 59.148 42.308 21.33 2.82 46.79 2.62
606 1239 6.777213 AGGTCTAATAGACACGATGAAAGT 57.223 37.500 20.57 0.00 46.79 2.66
607 1240 7.171630 AGGTCTAATAGACACGATGAAAGTT 57.828 36.000 20.57 0.00 46.79 2.66
608 1241 8.289939 AGGTCTAATAGACACGATGAAAGTTA 57.710 34.615 20.57 0.00 46.79 2.24
611 1244 9.440784 GTCTAATAGACACGATGAAAGTTAGAG 57.559 37.037 15.01 0.00 44.45 2.43
649 1282 7.330700 TCAAACCTCAAATTTTCACACAGTTTC 59.669 33.333 0.00 0.00 0.00 2.78
729 1367 3.941657 GACCACGAGCACAGGAGCC 62.942 68.421 0.00 0.00 34.23 4.70
762 1400 1.266989 CCAAGGAAGAAACGGTGAAGC 59.733 52.381 0.00 0.00 0.00 3.86
763 1401 1.946768 CAAGGAAGAAACGGTGAAGCA 59.053 47.619 0.00 0.00 0.00 3.91
764 1402 2.341846 AGGAAGAAACGGTGAAGCAA 57.658 45.000 0.00 0.00 0.00 3.91
766 1404 1.673920 GGAAGAAACGGTGAAGCAACA 59.326 47.619 0.00 0.00 0.00 3.33
767 1405 2.098443 GGAAGAAACGGTGAAGCAACAA 59.902 45.455 0.00 0.00 0.00 2.83
768 1406 3.243401 GGAAGAAACGGTGAAGCAACAAT 60.243 43.478 0.00 0.00 0.00 2.71
769 1407 4.359706 GAAGAAACGGTGAAGCAACAATT 58.640 39.130 0.00 0.00 0.00 2.32
770 1408 5.506649 GGAAGAAACGGTGAAGCAACAATTA 60.507 40.000 0.00 0.00 0.00 1.40
771 1409 5.108385 AGAAACGGTGAAGCAACAATTAG 57.892 39.130 0.00 0.00 0.00 1.73
772 1410 4.578928 AGAAACGGTGAAGCAACAATTAGT 59.421 37.500 0.00 0.00 0.00 2.24
773 1411 4.911514 AACGGTGAAGCAACAATTAGTT 57.088 36.364 0.00 0.00 42.42 2.24
774 1412 4.483476 ACGGTGAAGCAACAATTAGTTC 57.517 40.909 0.00 0.00 38.74 3.01
775 1413 4.134563 ACGGTGAAGCAACAATTAGTTCT 58.865 39.130 0.00 0.00 38.74 3.01
776 1414 4.578928 ACGGTGAAGCAACAATTAGTTCTT 59.421 37.500 0.00 0.00 38.74 2.52
1008 1657 2.388735 CCCACAGCTACCACTCTATCA 58.611 52.381 0.00 0.00 0.00 2.15
1009 1658 2.363680 CCCACAGCTACCACTCTATCAG 59.636 54.545 0.00 0.00 0.00 2.90
1010 1659 3.027412 CCACAGCTACCACTCTATCAGT 58.973 50.000 0.00 0.00 34.67 3.41
1011 1660 3.067461 CCACAGCTACCACTCTATCAGTC 59.933 52.174 0.00 0.00 30.26 3.51
1012 1661 3.951037 CACAGCTACCACTCTATCAGTCT 59.049 47.826 0.00 0.00 30.26 3.24
1013 1662 5.126779 CACAGCTACCACTCTATCAGTCTA 58.873 45.833 0.00 0.00 30.26 2.59
1014 1663 5.767665 CACAGCTACCACTCTATCAGTCTAT 59.232 44.000 0.00 0.00 30.26 1.98
1015 1664 6.001460 ACAGCTACCACTCTATCAGTCTATC 58.999 44.000 0.00 0.00 30.26 2.08
1030 1679 3.952967 AGTCTATCCCGTTGGTTCTACTC 59.047 47.826 0.00 0.00 0.00 2.59
1066 1715 1.089920 CTGCCTTCCAAGTTCATCCG 58.910 55.000 0.00 0.00 0.00 4.18
1160 1814 1.016130 GCCCATAGATCGGATGTGCG 61.016 60.000 0.00 0.00 0.00 5.34
1163 1817 1.269778 CCATAGATCGGATGTGCGTGT 60.270 52.381 0.00 0.00 0.00 4.49
1417 2079 7.860872 GTGTATTTTTAGACAAAGGAGGTTGTG 59.139 37.037 0.00 0.00 41.78 3.33
1418 2080 4.911514 TTTTAGACAAAGGAGGTTGTGC 57.088 40.909 0.00 0.00 41.78 4.57
1684 2359 3.764434 ACGATGTAAGAGGTGTGATCACT 59.236 43.478 25.55 6.60 43.41 3.41
1905 2583 2.410469 GCGCATGCATCACCTTCC 59.590 61.111 19.57 0.00 42.15 3.46
2137 2815 3.531207 GACCCTACGTACGGCCCC 61.531 72.222 21.06 0.00 0.00 5.80
2243 2927 2.705220 CGTCTACACGCCGATCGA 59.295 61.111 18.66 0.00 39.69 3.59
2244 2928 1.278937 CGTCTACACGCCGATCGAT 59.721 57.895 18.66 0.00 39.69 3.59
2245 2929 0.721811 CGTCTACACGCCGATCGATC 60.722 60.000 18.66 15.68 39.69 3.69
2247 2931 1.069159 GTCTACACGCCGATCGATCAT 60.069 52.381 24.40 4.56 41.67 2.45
2248 2932 1.607148 TCTACACGCCGATCGATCATT 59.393 47.619 24.40 2.93 41.67 2.57
2249 2933 2.034179 TCTACACGCCGATCGATCATTT 59.966 45.455 24.40 3.28 41.67 2.32
2251 2935 3.026630 ACACGCCGATCGATCATTTAT 57.973 42.857 24.40 3.50 41.67 1.40
2254 2938 4.986034 ACACGCCGATCGATCATTTATTTA 59.014 37.500 24.40 0.00 41.67 1.40
2258 2942 7.533900 CACGCCGATCGATCATTTATTTATTTT 59.466 33.333 24.40 0.00 41.67 1.82
2322 3006 5.063944 CCACATGATTCAGAGTAAGAAACGG 59.936 44.000 0.00 0.00 0.00 4.44
2330 3014 8.622948 ATTCAGAGTAAGAAACGGAAAAAGAT 57.377 30.769 0.00 0.00 0.00 2.40
2334 3018 6.594547 AGAGTAAGAAACGGAAAAAGATAGGC 59.405 38.462 0.00 0.00 0.00 3.93
2343 3027 6.476378 ACGGAAAAAGATAGGCTGCATATAT 58.524 36.000 6.82 0.66 0.00 0.86
2353 3037 9.431690 AGATAGGCTGCATATATAGAGAATGAA 57.568 33.333 6.82 0.00 0.00 2.57
2354 3038 9.474920 GATAGGCTGCATATATAGAGAATGAAC 57.525 37.037 6.82 0.00 0.00 3.18
2355 3039 7.493499 AGGCTGCATATATAGAGAATGAACT 57.507 36.000 0.50 0.00 0.00 3.01
2356 3040 7.329499 AGGCTGCATATATAGAGAATGAACTG 58.671 38.462 0.50 0.00 0.00 3.16
2357 3041 7.038445 AGGCTGCATATATAGAGAATGAACTGT 60.038 37.037 0.50 0.00 0.00 3.55
2358 3042 7.277539 GGCTGCATATATAGAGAATGAACTGTC 59.722 40.741 0.50 0.00 0.00 3.51
2359 3043 8.034215 GCTGCATATATAGAGAATGAACTGTCT 58.966 37.037 0.00 0.00 0.00 3.41
2433 3120 3.850273 CAGAACATTTGCGCTGAATCTTC 59.150 43.478 9.73 12.05 0.00 2.87
2444 3131 2.663879 GCTGAATCTTCGTGCACAGTTG 60.664 50.000 18.64 0.00 32.23 3.16
2445 3132 2.802247 CTGAATCTTCGTGCACAGTTGA 59.198 45.455 18.64 9.30 0.00 3.18
2499 3193 5.030147 TGACATGACTATGGGTTAGAAGGT 58.970 41.667 0.00 0.00 38.66 3.50
2520 3214 2.225491 TGCACGTCACTCTTTTTATGCC 59.775 45.455 0.00 0.00 0.00 4.40
2521 3215 2.724839 GCACGTCACTCTTTTTATGCCG 60.725 50.000 0.00 0.00 0.00 5.69
2527 3221 3.680937 TCACTCTTTTTATGCCGTAACCG 59.319 43.478 0.00 0.00 0.00 4.44
2741 3436 8.267183 TGGTTCTCATATGATTGTGTGTATCTT 58.733 33.333 5.72 0.00 0.00 2.40
2803 3498 7.041508 GCTATCAAACATTATTGGTCTCTCAGG 60.042 40.741 0.00 0.00 0.00 3.86
2863 3562 0.387622 CAGGGCAATGCTTTCACACG 60.388 55.000 4.82 0.00 0.00 4.49
2869 3568 2.797792 GCAATGCTTTCACACGTTTGGA 60.798 45.455 1.18 0.00 0.00 3.53
2870 3569 3.641648 CAATGCTTTCACACGTTTGGAT 58.358 40.909 1.18 0.00 0.00 3.41
2877 3576 6.199908 TGCTTTCACACGTTTGGATATTTTTG 59.800 34.615 1.18 0.00 0.00 2.44
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 4.263068 GCATCAACCCCTACATACATAGCT 60.263 45.833 0.00 0.00 0.00 3.32
1 2 4.003648 GCATCAACCCCTACATACATAGC 58.996 47.826 0.00 0.00 0.00 2.97
2 3 4.997395 GTGCATCAACCCCTACATACATAG 59.003 45.833 0.00 0.00 0.00 2.23
3 4 4.410555 TGTGCATCAACCCCTACATACATA 59.589 41.667 0.00 0.00 0.00 2.29
4 5 3.201930 TGTGCATCAACCCCTACATACAT 59.798 43.478 0.00 0.00 0.00 2.29
5 6 2.573915 TGTGCATCAACCCCTACATACA 59.426 45.455 0.00 0.00 0.00 2.29
6 7 3.275617 TGTGCATCAACCCCTACATAC 57.724 47.619 0.00 0.00 0.00 2.39
7 8 3.457749 TCATGTGCATCAACCCCTACATA 59.542 43.478 0.00 0.00 0.00 2.29
91 92 5.579511 ACATACTATTAGACAAAAACGCGCT 59.420 36.000 5.73 0.00 0.00 5.92
93 94 7.742963 ACAAACATACTATTAGACAAAAACGCG 59.257 33.333 3.53 3.53 0.00 6.01
110 111 2.414957 GGCCAAAGCGGTACAAACATAC 60.415 50.000 0.00 0.00 41.24 2.39
153 319 5.181690 TGCTAAAAGTACAAACCAAGCAG 57.818 39.130 0.00 0.00 34.05 4.24
196 362 9.905713 ACATCTTCATTACTAAGGAATTAAGCA 57.094 29.630 0.00 0.00 30.06 3.91
199 365 9.627123 CCCACATCTTCATTACTAAGGAATTAA 57.373 33.333 0.00 0.00 30.06 1.40
205 371 4.137543 GCCCCACATCTTCATTACTAAGG 58.862 47.826 0.00 0.00 0.00 2.69
218 384 1.186200 GGAAAAAGGAGCCCCACATC 58.814 55.000 0.00 0.00 33.88 3.06
256 423 6.276091 GCATTTTCCTTGGATAGTTGAATCC 58.724 40.000 0.00 0.00 44.96 3.01
272 439 1.432270 CGAGGAGCTCCGCATTTTCC 61.432 60.000 32.15 12.60 42.08 3.13
309 476 8.473284 GAAATTTTCCTTTCTAGCAACCAGCAG 61.473 40.741 0.00 0.00 37.64 4.24
310 477 6.738453 GAAATTTTCCTTTCTAGCAACCAGCA 60.738 38.462 0.00 0.00 37.64 4.41
311 478 4.790765 ATTTTCCTTTCTAGCAACCAGC 57.209 40.909 0.00 0.00 46.19 4.85
312 479 6.642540 GTGAAATTTTCCTTTCTAGCAACCAG 59.357 38.462 6.68 0.00 36.34 4.00
313 480 6.512297 GTGAAATTTTCCTTTCTAGCAACCA 58.488 36.000 6.68 0.00 36.34 3.67
314 481 5.629435 CGTGAAATTTTCCTTTCTAGCAACC 59.371 40.000 6.68 0.00 36.34 3.77
315 482 5.629435 CCGTGAAATTTTCCTTTCTAGCAAC 59.371 40.000 6.68 0.00 36.34 4.17
344 513 1.067516 CCACTGGTGCTTTTGTTGGAG 59.932 52.381 0.00 0.00 0.00 3.86
393 566 5.544176 AGGAGACCTGAGTTCTTTTATCACA 59.456 40.000 0.00 0.00 29.57 3.58
398 571 4.899457 TGTGAGGAGACCTGAGTTCTTTTA 59.101 41.667 0.00 0.00 31.76 1.52
445 619 6.601332 ACTTGGACTTAATTTGGTTCAGAGA 58.399 36.000 0.00 0.00 0.00 3.10
446 620 6.884280 ACTTGGACTTAATTTGGTTCAGAG 57.116 37.500 0.00 0.00 0.00 3.35
465 1097 2.418628 CACGCCCCATGTTACTTACTTG 59.581 50.000 0.00 0.00 0.00 3.16
495 1127 1.909700 AATGAACTTCCACGTGCCAT 58.090 45.000 10.91 3.30 0.00 4.40
504 1136 4.189231 ACGTATGGTGCTAATGAACTTCC 58.811 43.478 0.00 0.00 0.00 3.46
586 1219 8.622157 CCTCTAACTTTCATCGTGTCTATTAGA 58.378 37.037 0.00 0.00 0.00 2.10
605 1238 0.456628 GACAGGGCTCGTCCTCTAAC 59.543 60.000 0.00 0.00 34.31 2.34
606 1239 0.039180 TGACAGGGCTCGTCCTCTAA 59.961 55.000 6.19 0.00 34.31 2.10
607 1240 0.039180 TTGACAGGGCTCGTCCTCTA 59.961 55.000 6.19 0.00 34.31 2.43
608 1241 0.832135 TTTGACAGGGCTCGTCCTCT 60.832 55.000 6.19 0.00 34.31 3.69
611 1244 1.671379 GGTTTGACAGGGCTCGTCC 60.671 63.158 6.19 0.00 32.15 4.79
649 1282 4.941263 TCTTCCTCTCTTTTCTCTCTCTCG 59.059 45.833 0.00 0.00 0.00 4.04
740 1378 0.882927 TCACCGTTTCTTCCTTGGCG 60.883 55.000 0.00 0.00 0.00 5.69
749 1387 4.578928 ACTAATTGTTGCTTCACCGTTTCT 59.421 37.500 0.00 0.00 0.00 2.52
762 1400 4.678509 TGGCGCTAAGAACTAATTGTTG 57.321 40.909 7.64 0.00 39.30 3.33
763 1401 5.007724 GCTATGGCGCTAAGAACTAATTGTT 59.992 40.000 7.64 0.00 42.38 2.83
764 1402 4.511826 GCTATGGCGCTAAGAACTAATTGT 59.488 41.667 7.64 0.00 0.00 2.71
766 1404 4.065789 GGCTATGGCGCTAAGAACTAATT 58.934 43.478 7.64 0.00 39.81 1.40
767 1405 3.665190 GGCTATGGCGCTAAGAACTAAT 58.335 45.455 7.64 0.00 39.81 1.73
768 1406 2.545113 CGGCTATGGCGCTAAGAACTAA 60.545 50.000 7.64 0.00 45.68 2.24
769 1407 1.000607 CGGCTATGGCGCTAAGAACTA 60.001 52.381 7.64 0.00 45.68 2.24
770 1408 0.249489 CGGCTATGGCGCTAAGAACT 60.249 55.000 7.64 0.00 45.68 3.01
771 1409 2.226269 CGGCTATGGCGCTAAGAAC 58.774 57.895 7.64 0.00 45.68 3.01
772 1410 4.750460 CGGCTATGGCGCTAAGAA 57.250 55.556 7.64 0.00 45.68 2.52
1008 1657 3.952967 GAGTAGAACCAACGGGATAGACT 59.047 47.826 0.00 0.00 38.05 3.24
1009 1658 3.243002 CGAGTAGAACCAACGGGATAGAC 60.243 52.174 0.00 0.00 38.05 2.59
1010 1659 2.947652 CGAGTAGAACCAACGGGATAGA 59.052 50.000 0.00 0.00 38.05 1.98
1011 1660 2.034305 CCGAGTAGAACCAACGGGATAG 59.966 54.545 0.00 0.00 39.92 2.08
1012 1661 2.026641 CCGAGTAGAACCAACGGGATA 58.973 52.381 0.00 0.00 39.92 2.59
1013 1662 0.822164 CCGAGTAGAACCAACGGGAT 59.178 55.000 0.00 0.00 39.92 3.85
1014 1663 1.880819 GCCGAGTAGAACCAACGGGA 61.881 60.000 0.00 0.00 43.15 5.14
1015 1664 1.447314 GCCGAGTAGAACCAACGGG 60.447 63.158 0.00 0.00 43.15 5.28
1066 1715 2.592861 GGATGAGTCGCCCATGGC 60.593 66.667 6.09 0.58 46.75 4.40
1080 1729 1.967066 CTGATGTAGGAAGCCGAGGAT 59.033 52.381 0.00 0.00 0.00 3.24
1136 1790 1.204704 CATCCGATCTATGGGCGCTTA 59.795 52.381 7.64 0.00 0.00 3.09
1137 1791 0.036952 CATCCGATCTATGGGCGCTT 60.037 55.000 7.64 0.00 0.00 4.68
1184 1842 8.398665 GCACAAAGATTCTAATTACAACCTAGG 58.601 37.037 7.41 7.41 0.00 3.02
1684 2359 4.764823 CACTGCCAGTAAGGTCCATTTTAA 59.235 41.667 0.00 0.00 40.61 1.52
2137 2815 2.046892 CTGGCACCTGAAGACCCG 60.047 66.667 0.00 0.00 0.00 5.28
2330 3014 8.473219 CAGTTCATTCTCTATATATGCAGCCTA 58.527 37.037 0.00 0.00 0.00 3.93
2334 3018 9.571810 GAGACAGTTCATTCTCTATATATGCAG 57.428 37.037 0.00 0.00 36.17 4.41
2343 3027 9.862371 GACAATTAAGAGACAGTTCATTCTCTA 57.138 33.333 1.65 0.00 46.48 2.43
2351 3035 9.582223 CGTTTAAAGACAATTAAGAGACAGTTC 57.418 33.333 0.00 0.00 0.00 3.01
2353 3037 8.882415 TCGTTTAAAGACAATTAAGAGACAGT 57.118 30.769 0.00 0.00 0.00 3.55
2354 3038 9.798885 CTTCGTTTAAAGACAATTAAGAGACAG 57.201 33.333 0.00 0.00 0.00 3.51
2355 3039 9.537192 TCTTCGTTTAAAGACAATTAAGAGACA 57.463 29.630 0.00 0.00 30.38 3.41
2357 3041 8.709646 GCTCTTCGTTTAAAGACAATTAAGAGA 58.290 33.333 11.35 0.00 39.69 3.10
2358 3042 7.958025 GGCTCTTCGTTTAAAGACAATTAAGAG 59.042 37.037 0.00 0.00 40.08 2.85
2359 3043 7.442969 TGGCTCTTCGTTTAAAGACAATTAAGA 59.557 33.333 0.00 0.00 32.03 2.10
2361 3045 7.499321 TGGCTCTTCGTTTAAAGACAATTAA 57.501 32.000 0.00 0.00 32.03 1.40
2413 3100 2.842485 CGAAGATTCAGCGCAAATGTTC 59.158 45.455 23.76 23.76 34.66 3.18
2433 3120 1.136690 ACGTATGTCAACTGTGCACG 58.863 50.000 13.13 9.67 0.00 5.34
2476 3170 5.030147 ACCTTCTAACCCATAGTCATGTCA 58.970 41.667 0.00 0.00 33.08 3.58
2480 3174 3.780294 TGCACCTTCTAACCCATAGTCAT 59.220 43.478 0.00 0.00 33.08 3.06
2499 3193 2.225491 GGCATAAAAAGAGTGACGTGCA 59.775 45.455 0.00 0.00 33.27 4.57
2520 3214 3.893720 AGTAGCGATAATTCCGGTTACG 58.106 45.455 0.00 2.34 38.72 3.18
2521 3215 5.284079 TGAAGTAGCGATAATTCCGGTTAC 58.716 41.667 17.09 6.88 38.72 2.50
2713 3408 5.188434 ACACACAATCATATGAGAACCAGG 58.812 41.667 11.78 1.12 0.00 4.45
2741 3436 7.231317 AGAGCAAACTTGATTTTGGAATAGTCA 59.769 33.333 0.00 0.00 37.02 3.41
2803 3498 9.512435 CAATGGAATCTTTGATATCTTTGTCAC 57.488 33.333 3.98 0.00 31.89 3.67
2877 3576 8.920509 ACCCGCATATTTTGTAATAACTTTTC 57.079 30.769 0.00 0.00 30.38 2.29


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

AutoCloner maintained by Alex Coulton.