Multiple sequence alignment - TraesCS5B01G411300

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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 TraesCS5B01G411300 chr5B 100.000 3307 0 0 1 3307 586544824 586541518 0.000000e+00 6107
1 TraesCS5B01G411300 chr5B 86.698 2323 262 29 1 2286 61143811 61146123 0.000000e+00 2534
2 TraesCS5B01G411300 chr5B 89.579 998 96 5 2315 3307 637097489 637098483 0.000000e+00 1260
3 TraesCS5B01G411300 chr6D 91.531 2338 164 18 1 2319 471968070 471965748 0.000000e+00 3190
4 TraesCS5B01G411300 chr6D 90.936 2339 175 21 1 2319 472018251 472015930 0.000000e+00 3110
5 TraesCS5B01G411300 chr7A 84.267 2339 335 29 7 2319 214261658 214259327 0.000000e+00 2250
6 TraesCS5B01G411300 chr7A 79.302 2348 440 37 12 2327 705451534 705449201 0.000000e+00 1602
7 TraesCS5B01G411300 chr7A 97.849 186 3 1 2315 2499 420141331 420141146 1.480000e-83 320
8 TraesCS5B01G411300 chr4B 91.701 1470 101 13 864 2317 181438952 181440416 0.000000e+00 2019
9 TraesCS5B01G411300 chr2B 80.085 2355 427 36 1 2323 784246271 784248615 0.000000e+00 1712
10 TraesCS5B01G411300 chr2B 79.822 2359 426 41 1 2326 506150987 506148646 0.000000e+00 1674
11 TraesCS5B01G411300 chr2D 80.043 2345 428 29 10 2326 480565169 480562837 0.000000e+00 1701
12 TraesCS5B01G411300 chr2D 79.631 2332 439 28 1 2309 387938170 387940488 0.000000e+00 1642
13 TraesCS5B01G411300 chr4D 93.212 825 53 1 2486 3307 400724184 400723360 0.000000e+00 1210
14 TraesCS5B01G411300 chr1D 92.105 836 60 4 2476 3307 220659762 220660595 0.000000e+00 1173
15 TraesCS5B01G411300 chr1D 91.052 827 67 4 2486 3307 326754349 326753525 0.000000e+00 1110
16 TraesCS5B01G411300 chr1D 96.842 190 5 1 2311 2499 291525771 291525582 1.920000e-82 316
17 TraesCS5B01G411300 chr3B 92.096 835 59 5 2476 3307 610267029 610267859 0.000000e+00 1170
18 TraesCS5B01G411300 chr3B 91.636 825 65 2 2486 3307 440101058 440101881 0.000000e+00 1138
19 TraesCS5B01G411300 chr3B 91.727 822 65 2 2486 3307 528333979 528333161 0.000000e+00 1138
20 TraesCS5B01G411300 chr3B 90.898 835 68 5 2476 3307 186932084 186932913 0.000000e+00 1114
21 TraesCS5B01G411300 chr6B 92.121 825 62 1 2486 3307 619204078 619203254 0.000000e+00 1160
22 TraesCS5B01G411300 chr6B 91.029 836 66 7 2476 3307 213451829 213452659 0.000000e+00 1120
23 TraesCS5B01G411300 chr7D 96.842 190 5 1 2311 2499 138050168 138049979 1.920000e-82 316
24 TraesCS5B01G411300 chr1A 97.312 186 3 1 2316 2499 309169631 309169816 6.890000e-82 315
25 TraesCS5B01G411300 chr6A 96.774 186 4 1 2316 2499 185516364 185516179 3.210000e-80 309
26 TraesCS5B01G411300 chr5D 96.774 186 5 1 2315 2499 74490034 74489849 3.210000e-80 309
27 TraesCS5B01G411300 chr4A 96.774 186 4 1 2316 2499 583007137 583006952 3.210000e-80 309
28 TraesCS5B01G411300 chr3A 96.774 186 4 1 2316 2499 264345121 264345306 3.210000e-80 309


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 TraesCS5B01G411300 chr5B 586541518 586544824 3306 True 6107 6107 100.000 1 3307 1 chr5B.!!$R1 3306
1 TraesCS5B01G411300 chr5B 61143811 61146123 2312 False 2534 2534 86.698 1 2286 1 chr5B.!!$F1 2285
2 TraesCS5B01G411300 chr5B 637097489 637098483 994 False 1260 1260 89.579 2315 3307 1 chr5B.!!$F2 992
3 TraesCS5B01G411300 chr6D 471965748 471968070 2322 True 3190 3190 91.531 1 2319 1 chr6D.!!$R1 2318
4 TraesCS5B01G411300 chr6D 472015930 472018251 2321 True 3110 3110 90.936 1 2319 1 chr6D.!!$R2 2318
5 TraesCS5B01G411300 chr7A 214259327 214261658 2331 True 2250 2250 84.267 7 2319 1 chr7A.!!$R1 2312
6 TraesCS5B01G411300 chr7A 705449201 705451534 2333 True 1602 1602 79.302 12 2327 1 chr7A.!!$R3 2315
7 TraesCS5B01G411300 chr4B 181438952 181440416 1464 False 2019 2019 91.701 864 2317 1 chr4B.!!$F1 1453
8 TraesCS5B01G411300 chr2B 784246271 784248615 2344 False 1712 1712 80.085 1 2323 1 chr2B.!!$F1 2322
9 TraesCS5B01G411300 chr2B 506148646 506150987 2341 True 1674 1674 79.822 1 2326 1 chr2B.!!$R1 2325
10 TraesCS5B01G411300 chr2D 480562837 480565169 2332 True 1701 1701 80.043 10 2326 1 chr2D.!!$R1 2316
11 TraesCS5B01G411300 chr2D 387938170 387940488 2318 False 1642 1642 79.631 1 2309 1 chr2D.!!$F1 2308
12 TraesCS5B01G411300 chr4D 400723360 400724184 824 True 1210 1210 93.212 2486 3307 1 chr4D.!!$R1 821
13 TraesCS5B01G411300 chr1D 220659762 220660595 833 False 1173 1173 92.105 2476 3307 1 chr1D.!!$F1 831
14 TraesCS5B01G411300 chr1D 326753525 326754349 824 True 1110 1110 91.052 2486 3307 1 chr1D.!!$R2 821
15 TraesCS5B01G411300 chr3B 610267029 610267859 830 False 1170 1170 92.096 2476 3307 1 chr3B.!!$F3 831
16 TraesCS5B01G411300 chr3B 440101058 440101881 823 False 1138 1138 91.636 2486 3307 1 chr3B.!!$F2 821
17 TraesCS5B01G411300 chr3B 528333161 528333979 818 True 1138 1138 91.727 2486 3307 1 chr3B.!!$R1 821
18 TraesCS5B01G411300 chr3B 186932084 186932913 829 False 1114 1114 90.898 2476 3307 1 chr3B.!!$F1 831
19 TraesCS5B01G411300 chr6B 619203254 619204078 824 True 1160 1160 92.121 2486 3307 1 chr6B.!!$R1 821
20 TraesCS5B01G411300 chr6B 213451829 213452659 830 False 1120 1120 91.029 2476 3307 1 chr6B.!!$F1 831

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
233 238 0.664224 GTAGAGACGCCCTAGCAGTC 59.336 60.000 0.0 3.27 40.51 3.51 F
338 343 1.030457 CTTACTATGTCGCCTCGGGT 58.970 55.000 0.0 0.00 0.00 5.28 F
816 828 1.151908 TTAGCCAAACAAGCCCGGT 59.848 52.632 0.0 0.00 0.00 5.28 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1876 1899 0.331278 TGCCCCTTAGTTGGTCATGG 59.669 55.000 0.00 0.0 0.00 3.66 R
1982 2021 1.003839 TAAGTGCCAGTGCTTCCGG 60.004 57.895 0.00 0.0 38.71 5.14 R
2463 2518 0.610232 GAGCACTTGAGGTGGCCAAT 60.610 55.000 7.24 0.0 45.44 3.16 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
38 39 9.357652 GTAAATTTGATTATGCAATGTGTGTCT 57.642 29.630 0.00 0.00 0.00 3.41
68 69 6.042781 TGGAGTATAGGGTTCGCTTTAATGAT 59.957 38.462 0.00 0.00 0.00 2.45
83 84 6.593382 GCTTTAATGATGAAGAGACTGACAGT 59.407 38.462 8.12 8.12 0.00 3.55
160 165 5.310594 TCTTGCTATGTATGGAGGGCTTAAT 59.689 40.000 0.00 0.00 0.00 1.40
198 203 3.366396 GCGGAGGAGATAGGGAATATCA 58.634 50.000 0.00 0.00 42.51 2.15
233 238 0.664224 GTAGAGACGCCCTAGCAGTC 59.336 60.000 0.00 3.27 40.51 3.51
242 247 2.625790 CGCCCTAGCAGTCTCTAATCTT 59.374 50.000 0.00 0.00 39.83 2.40
270 275 2.478134 GCGGATGATTCTTTGATCCTCG 59.522 50.000 0.00 0.00 34.55 4.63
293 298 6.093357 TCGTGCAAGAAAATGCTATGAATGTA 59.907 34.615 0.00 0.00 46.54 2.29
338 343 1.030457 CTTACTATGTCGCCTCGGGT 58.970 55.000 0.00 0.00 0.00 5.28
356 361 1.499049 GTCAAAGGGTGAGTGTCGAC 58.501 55.000 9.11 9.11 36.74 4.20
404 410 7.093902 CCAAATACAGTAGTGGAAGACAGAGTA 60.094 40.741 7.14 0.00 32.54 2.59
562 570 4.762251 GTGGAAGGAAAAGTTGCTATCTGT 59.238 41.667 0.00 0.00 0.00 3.41
563 571 5.938125 GTGGAAGGAAAAGTTGCTATCTGTA 59.062 40.000 0.00 0.00 0.00 2.74
573 583 4.162509 AGTTGCTATCTGTAGGGAAAGGAC 59.837 45.833 0.00 0.00 0.00 3.85
591 601 7.329471 GGAAAGGACATTTTGCTTAAATCTGTC 59.671 37.037 8.72 8.72 34.10 3.51
665 676 2.161855 TGCAAAGGAATGATTGACGCT 58.838 42.857 0.00 0.00 0.00 5.07
670 681 5.677091 GCAAAGGAATGATTGACGCTATGTT 60.677 40.000 0.00 0.00 0.00 2.71
679 690 5.584251 TGATTGACGCTATGTTGCATTTCTA 59.416 36.000 0.00 0.00 0.00 2.10
698 709 1.301479 GTGGGGTGACGAGGACAAC 60.301 63.158 0.00 0.00 0.00 3.32
816 828 1.151908 TTAGCCAAACAAGCCCGGT 59.848 52.632 0.00 0.00 0.00 5.28
829 841 1.749334 GCCCGGTGTCTCCTGGATAG 61.749 65.000 0.00 0.00 42.27 2.08
845 857 5.879223 CCTGGATAGTCCTGAATCATTATGC 59.121 44.000 4.65 0.00 37.65 3.14
887 899 6.215845 CAAATATTTCCCCGATGGTGATTTC 58.784 40.000 0.00 0.00 34.77 2.17
990 1004 7.147302 GCTATATATGGAGGGTTGGTAATGGAT 60.147 40.741 0.00 0.00 0.00 3.41
1100 1114 7.651704 ACAAAAGTTTCAAACCTTATTGATCCG 59.348 33.333 0.00 0.00 38.98 4.18
1145 1160 1.788229 TGGTGAGACAACTCTGTGGA 58.212 50.000 0.00 0.00 42.99 4.02
1365 1384 3.644966 ATGGAAATTAGCTTGTCCGGA 57.355 42.857 0.00 0.00 32.45 5.14
1401 1420 1.540707 TGTATGGCGTACACTTCACGA 59.459 47.619 15.38 0.00 41.91 4.35
1536 1556 2.483013 GGCAAAAGAAGTGTGGGGAAAC 60.483 50.000 0.00 0.00 0.00 2.78
1597 1618 1.220206 CATGCAGGAGAAGCGGTCT 59.780 57.895 0.00 0.00 40.25 3.85
1704 1725 5.163488 CGTGGTACTTATGGTGGAATAGACA 60.163 44.000 0.00 0.00 0.00 3.41
1705 1726 6.462487 CGTGGTACTTATGGTGGAATAGACAT 60.462 42.308 0.00 0.00 0.00 3.06
1706 1727 7.280356 GTGGTACTTATGGTGGAATAGACATT 58.720 38.462 0.00 0.00 0.00 2.71
1776 1797 3.265791 GGATTCGGGCTATAGCATCAAG 58.734 50.000 25.53 11.48 44.36 3.02
1876 1899 7.647907 ATTGAATGTGAATGCTTCTTTTGAC 57.352 32.000 0.00 0.00 0.00 3.18
1905 1928 3.566016 TAAGGGGCAGAACGGGGGA 62.566 63.158 0.00 0.00 0.00 4.81
1937 1976 7.937700 AGGGATGATAGAGGAAACTTCATTA 57.062 36.000 0.00 0.00 44.43 1.90
1958 1997 4.819105 ATAGGTGGAAACGACAAGATCA 57.181 40.909 0.00 0.00 0.00 2.92
1961 2000 3.071023 AGGTGGAAACGACAAGATCAAGA 59.929 43.478 0.00 0.00 0.00 3.02
1982 2021 2.072298 GTTGTCTGGATGCTCTGACAC 58.928 52.381 11.87 6.73 42.46 3.67
2147 2198 4.330944 TTTCTAGCTTGTGACTTTCCGA 57.669 40.909 0.00 0.00 0.00 4.55
2151 2202 6.032956 TCTAGCTTGTGACTTTCCGATTAA 57.967 37.500 0.00 0.00 0.00 1.40
2201 2256 1.630369 ACAAAGTAGCCCATGAGCTCA 59.370 47.619 20.79 20.79 43.67 4.26
2233 2288 4.025647 GCTAAATGTTCCATGACTAGCGAC 60.026 45.833 0.00 0.00 0.00 5.19
2235 2290 5.339008 AAATGTTCCATGACTAGCGACTA 57.661 39.130 0.00 0.00 0.00 2.59
2240 2295 5.826208 TGTTCCATGACTAGCGACTAGATTA 59.174 40.000 17.20 6.48 37.49 1.75
2259 2314 4.453480 TTAAGGAGCCCATGGGAAATAG 57.547 45.455 36.00 7.05 37.50 1.73
2337 2392 9.651913 ATGTTTTTAAAAGAAGCTTCAAGTTGA 57.348 25.926 27.57 12.13 0.00 3.18
2350 2405 2.297315 TCAAGTTGAGCATGAGACTCGT 59.703 45.455 0.08 0.00 36.94 4.18
2429 2484 2.941720 CCTCAAGGAGTTTAGCATCAGC 59.058 50.000 0.00 0.00 38.17 4.26
2455 2510 9.034544 CAACTTCAAGCTTAGCATTTTTAGTTT 57.965 29.630 7.07 0.00 0.00 2.66
2463 2518 9.762933 AGCTTAGCATTTTTAGTTTTGAAATCA 57.237 25.926 7.07 0.00 0.00 2.57
2477 2532 2.827322 TGAAATCATTGGCCACCTCAAG 59.173 45.455 3.88 0.00 0.00 3.02
2478 2533 2.610438 AATCATTGGCCACCTCAAGT 57.390 45.000 3.88 0.00 0.00 3.16
2502 2557 5.840693 TGCTCTATCATGAGATTCCTTGGTA 59.159 40.000 0.09 0.00 36.23 3.25
2589 2644 6.256053 ACCTTCCATTTTATCAATGGTGACT 58.744 36.000 12.32 0.00 45.65 3.41
2634 2689 9.396022 GATTCCAACTCCTCAATGTATTTCTTA 57.604 33.333 0.00 0.00 0.00 2.10
2639 2694 7.272144 ACTCCTCAATGTATTTCTTACCCTT 57.728 36.000 0.00 0.00 0.00 3.95
2719 2776 8.427902 AAGAGCTTTAAAATTCATTTCTCCCT 57.572 30.769 0.00 0.00 32.27 4.20
2757 2815 7.507733 AGCAACATTATCATTCTCTTCATCC 57.492 36.000 0.00 0.00 0.00 3.51
2827 2886 3.778629 GGGGTTCAAAGTAGGAGATACCA 59.221 47.826 0.00 0.00 42.04 3.25
2922 2982 3.855255 TCTTGTTCCATGGAGTGTTGA 57.145 42.857 15.53 8.30 0.00 3.18
2942 3002 7.506114 TGTTGAGTTTCCTCTACATTGTTAGT 58.494 34.615 0.00 0.00 44.75 2.24
2944 3004 9.485206 GTTGAGTTTCCTCTACATTGTTAGTAA 57.515 33.333 0.00 0.00 41.36 2.24
3089 3152 1.168714 GGGGTGCTCAAAGTGCTAAG 58.831 55.000 0.00 0.00 0.00 2.18
3152 3215 7.667219 AGGATAATCAACAATAAGCCCACTATG 59.333 37.037 0.00 0.00 0.00 2.23
3181 3244 0.108804 ATGAACGCCACTACTCACCG 60.109 55.000 0.00 0.00 0.00 4.94
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
14 15 8.836268 AAGACACACATTGCATAATCAAATTT 57.164 26.923 0.00 0.00 0.00 1.82
38 39 2.429610 GCGAACCCTATACTCCACAGAA 59.570 50.000 0.00 0.00 0.00 3.02
68 69 4.876107 GGTTTGAAACTGTCAGTCTCTTCA 59.124 41.667 12.54 12.54 37.61 3.02
83 84 2.062636 AGGCCTCTAGTGGGTTTGAAA 58.937 47.619 12.65 0.00 0.00 2.69
198 203 6.331061 CGTCTCTACTAACTTTTATGCCTGT 58.669 40.000 0.00 0.00 0.00 4.00
233 238 6.668541 TCATCCGCAAAAAGAAGATTAGAG 57.331 37.500 0.00 0.00 0.00 2.43
242 247 5.703978 TCAAAGAATCATCCGCAAAAAGA 57.296 34.783 0.00 0.00 0.00 2.52
270 275 7.475015 TCTACATTCATAGCATTTTCTTGCAC 58.525 34.615 0.00 0.00 45.23 4.57
325 330 1.079127 CTTTGACCCGAGGCGACAT 60.079 57.895 0.00 0.00 0.00 3.06
338 343 1.116308 TGTCGACACTCACCCTTTGA 58.884 50.000 15.76 0.00 0.00 2.69
388 394 7.506114 ACAAATTTGTACTCTGTCTTCCACTA 58.494 34.615 22.10 0.00 40.16 2.74
431 437 8.691661 AATATTTATCATTTAGTGCCTCGGTT 57.308 30.769 0.00 0.00 0.00 4.44
539 547 4.762251 ACAGATAGCAACTTTTCCTTCCAC 59.238 41.667 0.00 0.00 0.00 4.02
562 570 7.673926 AGATTTAAGCAAAATGTCCTTTCCCTA 59.326 33.333 2.14 0.00 37.93 3.53
563 571 6.498303 AGATTTAAGCAAAATGTCCTTTCCCT 59.502 34.615 2.14 0.00 37.93 4.20
573 583 7.617935 GCTTGAACGACAGATTTAAGCAAAATG 60.618 37.037 8.77 0.00 44.09 2.32
591 601 4.319766 GCATATGTTGGGATAGCTTGAACG 60.320 45.833 4.29 0.00 0.00 3.95
656 667 4.913376 AGAAATGCAACATAGCGTCAATC 58.087 39.130 0.00 0.00 37.31 2.67
665 676 4.018870 TCACCCCACTAGAAATGCAACATA 60.019 41.667 0.00 0.00 0.00 2.29
670 681 1.338674 CGTCACCCCACTAGAAATGCA 60.339 52.381 0.00 0.00 0.00 3.96
679 690 1.458777 TTGTCCTCGTCACCCCACT 60.459 57.895 0.00 0.00 0.00 4.00
698 709 3.119245 CCATCCAGTGCATCTTTTTCTGG 60.119 47.826 10.28 10.28 44.69 3.86
813 825 1.033574 GGACTATCCAGGAGACACCG 58.966 60.000 0.00 0.00 44.74 4.94
816 828 3.757947 TTCAGGACTATCCAGGAGACA 57.242 47.619 0.00 0.00 39.61 3.41
829 841 2.031682 GTGGCGCATAATGATTCAGGAC 60.032 50.000 10.83 0.00 0.00 3.85
845 857 4.630894 TTTGGCTCTTAATATTGTGGCG 57.369 40.909 0.00 0.00 0.00 5.69
887 899 7.219484 ACCCTTCTTCAAACTTGTATTCATG 57.781 36.000 0.00 0.00 0.00 3.07
1100 1114 3.382546 CCTCATCCCAACAATTCATCACC 59.617 47.826 0.00 0.00 0.00 4.02
1365 1384 6.983890 ACGCCATACAAAAATCTTGACTTTTT 59.016 30.769 0.00 0.00 36.50 1.94
1401 1420 3.650139 GTCACACGACATGGTAAAGTCT 58.350 45.455 0.00 0.00 42.13 3.24
1536 1556 3.703001 ACCACTTCATACAGTCCCAAG 57.297 47.619 0.00 0.00 0.00 3.61
1704 1725 7.226059 ACCTTCCCCTCATGAATAAACTAAT 57.774 36.000 0.00 0.00 0.00 1.73
1705 1726 6.652205 ACCTTCCCCTCATGAATAAACTAA 57.348 37.500 0.00 0.00 0.00 2.24
1706 1727 6.674861 TGTACCTTCCCCTCATGAATAAACTA 59.325 38.462 0.00 0.00 0.00 2.24
1712 1733 4.111577 TCTTGTACCTTCCCCTCATGAAT 58.888 43.478 0.00 0.00 0.00 2.57
1776 1797 7.399245 TTTGGTGAATAGGCCTTTACATAAC 57.601 36.000 12.58 0.36 0.00 1.89
1862 1884 3.896888 TGGTCATGGTCAAAAGAAGCATT 59.103 39.130 0.00 0.00 32.78 3.56
1876 1899 0.331278 TGCCCCTTAGTTGGTCATGG 59.669 55.000 0.00 0.00 0.00 3.66
1896 1919 2.707257 TCCCTAATAACATCCCCCGTTC 59.293 50.000 0.00 0.00 0.00 3.95
1905 1928 9.398921 AGTTTCCTCTATCATCCCTAATAACAT 57.601 33.333 0.00 0.00 0.00 2.71
1937 1976 4.819105 TGATCTTGTCGTTTCCACCTAT 57.181 40.909 0.00 0.00 0.00 2.57
1958 1997 2.902486 TCAGAGCATCCAGACAACTCTT 59.098 45.455 0.00 0.00 35.57 2.85
1961 2000 1.973515 TGTCAGAGCATCCAGACAACT 59.026 47.619 0.00 0.00 44.31 3.16
1982 2021 1.003839 TAAGTGCCAGTGCTTCCGG 60.004 57.895 0.00 0.00 38.71 5.14
2233 2288 3.251484 TCCCATGGGCTCCTTAATCTAG 58.749 50.000 27.41 0.00 34.68 2.43
2235 2290 2.212752 TCCCATGGGCTCCTTAATCT 57.787 50.000 27.41 0.00 34.68 2.40
2240 2295 2.091665 CACTATTTCCCATGGGCTCCTT 60.092 50.000 27.41 10.96 34.68 3.36
2259 2314 5.934625 ACATCATCTGTCAAAAGAGGTACAC 59.065 40.000 0.00 0.00 29.94 2.90
2319 2374 4.989279 TGCTCAACTTGAAGCTTCTTTT 57.011 36.364 26.09 13.68 0.00 2.27
2320 2375 4.581824 TCATGCTCAACTTGAAGCTTCTTT 59.418 37.500 26.09 14.01 30.00 2.52
2337 2392 3.062763 CAAACTCAACGAGTCTCATGCT 58.937 45.455 0.00 0.00 42.59 3.79
2350 2405 2.373169 AGGGTGAGCTCATCAAACTCAA 59.627 45.455 27.65 0.00 41.80 3.02
2419 2474 3.415212 AGCTTGAAGTTGCTGATGCTAA 58.585 40.909 0.00 0.00 38.21 3.09
2426 2481 3.844577 ATGCTAAGCTTGAAGTTGCTG 57.155 42.857 9.86 0.00 39.71 4.41
2429 2484 8.579682 AACTAAAAATGCTAAGCTTGAAGTTG 57.420 30.769 9.86 0.00 0.00 3.16
2455 2510 2.886913 TGAGGTGGCCAATGATTTCAA 58.113 42.857 7.24 0.00 0.00 2.69
2463 2518 0.610232 GAGCACTTGAGGTGGCCAAT 60.610 55.000 7.24 0.00 45.44 3.16
2477 2532 4.996122 CCAAGGAATCTCATGATAGAGCAC 59.004 45.833 0.00 0.00 35.59 4.40
2478 2533 4.657504 ACCAAGGAATCTCATGATAGAGCA 59.342 41.667 0.00 0.00 35.59 4.26
2502 2557 5.415701 TCAAGCTCTTGAACTTGAACAAACT 59.584 36.000 12.36 0.00 46.89 2.66
2589 2644 2.659428 TCTCATCTCGAGGAGCATGAA 58.341 47.619 13.56 3.25 42.55 2.57
2634 2689 5.387113 TCATGTCTATTGCCATTAAGGGT 57.613 39.130 8.16 0.00 38.09 4.34
2639 2694 7.724951 TCATGGAAATCATGTCTATTGCCATTA 59.275 33.333 13.24 5.68 46.52 1.90
2715 2771 7.604657 TGTTGCTTCCTTAAAAATTAAGGGA 57.395 32.000 22.36 16.15 43.21 4.20
2757 2815 8.666573 GTTAATGCTAATGATGATGAGGATGAG 58.333 37.037 0.00 0.00 0.00 2.90
2855 2914 8.985922 CAAGGGATCCTACATCATCATCTATTA 58.014 37.037 12.58 0.00 31.13 0.98
2942 3002 6.428465 TGCATGTATTTCCTCGAGTTGTTTTA 59.572 34.615 12.31 0.00 0.00 1.52
2944 3004 4.759693 TGCATGTATTTCCTCGAGTTGTTT 59.240 37.500 12.31 0.00 0.00 2.83
3089 3152 2.231964 TGCAATGCTTCATCTTTGGACC 59.768 45.455 6.82 0.00 0.00 4.46
3152 3215 2.159338 AGTGGCGTTCATTGCAATGATC 60.159 45.455 35.87 32.06 44.27 2.92
3168 3231 0.246635 ATGACACGGTGAGTAGTGGC 59.753 55.000 16.29 0.00 46.10 5.01
3181 3244 3.552068 GGTTTGCCACAAGGTAATGACAC 60.552 47.826 0.00 0.00 39.36 3.67
3210 3273 6.127168 TGTTCTCAACTTCTTCTACTTCACCA 60.127 38.462 0.00 0.00 0.00 4.17


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

AutoCloner maintained by Alex Coulton.