Multiple sequence alignment - TraesCS1B01G390100

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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 TraesCS1B01G390100 chr1B 100.000 3991 0 0 1 3991 623773236 623769246 0.000000e+00 7371.0
1 TraesCS1B01G390100 chr1B 90.689 1858 139 21 1527 3371 623961843 623963679 0.000000e+00 2442.0
2 TraesCS1B01G390100 chr1B 82.642 386 61 4 1591 1975 623952602 623952222 1.780000e-88 337.0
3 TraesCS1B01G390100 chr1B 82.520 246 32 6 3475 3718 623963759 623963995 5.230000e-49 206.0
4 TraesCS1B01G390100 chr1A 95.699 2023 53 12 1453 3458 547982100 547980095 0.000000e+00 3223.0
5 TraesCS1B01G390100 chr1A 91.975 1570 112 9 1812 3371 548437691 548439256 0.000000e+00 2189.0
6 TraesCS1B01G390100 chr1A 83.436 326 28 12 1466 1771 548437371 548437690 3.040000e-71 279.0
7 TraesCS1B01G390100 chr1D 92.280 1671 108 11 1349 3008 453293720 453292060 0.000000e+00 2351.0
8 TraesCS1B01G390100 chr1D 88.020 1010 93 13 335 1342 453295066 453294083 0.000000e+00 1170.0
9 TraesCS1B01G390100 chr1D 94.316 563 23 3 3428 3990 453291592 453291039 0.000000e+00 854.0
10 TraesCS1B01G390100 chr1D 92.830 265 18 1 3109 3373 453292065 453291802 2.250000e-102 383.0
11 TraesCS1B01G390100 chr1D 90.945 254 23 0 1087 1340 453294280 453294027 3.820000e-90 342.0
12 TraesCS1B01G390100 chr1D 96.447 197 7 0 51 247 453301006 453300810 3.850000e-85 326.0
13 TraesCS1B01G390100 chr1D 92.823 209 8 4 1 204 453305164 453304958 3.020000e-76 296.0
14 TraesCS1B01G390100 chr1D 98.165 109 2 0 201 309 453303388 453303280 1.460000e-44 191.0
15 TraesCS1B01G390100 chr1D 97.297 37 0 1 247 282 453295097 453295061 1.200000e-05 62.1
16 TraesCS1B01G390100 chr6B 83.444 604 81 10 612 1214 523958506 523959091 9.750000e-151 544.0
17 TraesCS1B01G390100 chr6B 84.579 214 30 3 1129 1340 523958891 523959103 4.040000e-50 209.0
18 TraesCS1B01G390100 chr3A 80.435 322 50 11 611 928 192347533 192347221 2.400000e-57 233.0
19 TraesCS1B01G390100 chr7D 72.304 473 99 24 1916 2363 548617169 548617634 7.010000e-23 119.0
20 TraesCS1B01G390100 chr7D 77.041 196 31 7 2181 2363 548609272 548609466 2.540000e-17 100.0
21 TraesCS1B01G390100 chr4D 72.516 473 91 28 1918 2363 379501325 379500865 2.520000e-22 117.0
22 TraesCS1B01G390100 chr4A 72.525 404 81 20 1906 2285 84934834 84935231 1.960000e-18 104.0
23 TraesCS1B01G390100 chr4B 76.042 192 37 3 2181 2363 466695464 466695273 1.530000e-14 91.6


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 TraesCS1B01G390100 chr1B 623769246 623773236 3990 True 7371.00 7371 100.000000 1 3991 1 chr1B.!!$R1 3990
1 TraesCS1B01G390100 chr1B 623961843 623963995 2152 False 1324.00 2442 86.604500 1527 3718 2 chr1B.!!$F1 2191
2 TraesCS1B01G390100 chr1A 547980095 547982100 2005 True 3223.00 3223 95.699000 1453 3458 1 chr1A.!!$R1 2005
3 TraesCS1B01G390100 chr1A 548437371 548439256 1885 False 1234.00 2189 87.705500 1466 3371 2 chr1A.!!$F1 1905
4 TraesCS1B01G390100 chr1D 453291039 453295097 4058 True 860.35 2351 92.614667 247 3990 6 chr1D.!!$R1 3743
5 TraesCS1B01G390100 chr1D 453300810 453305164 4354 True 271.00 326 95.811667 1 309 3 chr1D.!!$R2 308
6 TraesCS1B01G390100 chr6B 523958506 523959103 597 False 376.50 544 84.011500 612 1340 2 chr6B.!!$F1 728

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
492 2071 0.671796 CACCCGAGTATCATGCCGTA 59.328 55.0 0.0 0.0 33.17 4.02 F
1481 3421 0.039035 TGGGTGGGTAAGGCAACATC 59.961 55.0 0.0 0.0 41.41 3.06 F
1482 3422 0.039035 GGGTGGGTAAGGCAACATCA 59.961 55.0 0.0 0.0 41.41 3.07 F
2387 5011 0.904649 AGGATCACGACATCAGCCAA 59.095 50.0 0.0 0.0 0.00 4.52 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1502 3442 0.038166 CTGGGGTTAGGCTTCAAGCA 59.962 55.000 12.53 0.0 44.75 3.91 R
2387 5011 1.489230 GAATACACCTCCATTCCGGGT 59.511 52.381 0.00 0.0 34.36 5.28 R
2676 5995 3.876309 AACCACCAGTTCAACCATACT 57.124 42.857 0.00 0.0 30.99 2.12 R
3777 7260 1.423921 GTCCTTGGAAAAGGGGTCTCA 59.576 52.381 4.73 0.0 40.38 3.27 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
141 147 3.869272 GGCCAGCTCAATGTCGCG 61.869 66.667 0.00 0.00 0.00 5.87
295 1874 6.716284 AGGGAAGTAGAAAAATCAGGAAGAG 58.284 40.000 0.00 0.00 0.00 2.85
309 1888 1.523758 GAAGAGCACGGTGGACATTT 58.476 50.000 10.60 0.00 0.00 2.32
311 1890 3.270877 GAAGAGCACGGTGGACATTTAT 58.729 45.455 10.60 0.00 0.00 1.40
312 1891 3.350219 AGAGCACGGTGGACATTTATT 57.650 42.857 10.60 0.00 0.00 1.40
313 1892 3.009723 AGAGCACGGTGGACATTTATTG 58.990 45.455 10.60 0.00 0.00 1.90
314 1893 3.006940 GAGCACGGTGGACATTTATTGA 58.993 45.455 10.60 0.00 0.00 2.57
315 1894 2.747446 AGCACGGTGGACATTTATTGAC 59.253 45.455 10.60 0.00 0.00 3.18
316 1895 2.159435 GCACGGTGGACATTTATTGACC 60.159 50.000 10.60 0.00 40.17 4.02
350 1929 8.798402 AGATTTTATTGATAGAGAGGGTAGACG 58.202 37.037 0.00 0.00 0.00 4.18
395 1974 4.935205 GCAAACCTTTCTTTGTTTTGAGGT 59.065 37.500 0.00 0.00 39.08 3.85
402 1981 3.146066 TCTTTGTTTTGAGGTGGATCCG 58.854 45.455 7.39 0.00 41.99 4.18
427 2006 5.215845 AGAAGGTGGAAAAGATTGGGAAAA 58.784 37.500 0.00 0.00 0.00 2.29
492 2071 0.671796 CACCCGAGTATCATGCCGTA 59.328 55.000 0.00 0.00 33.17 4.02
511 2090 3.740141 CGTAGGGAATACATGGGTGTGAC 60.740 52.174 0.00 0.00 39.39 3.67
518 2097 3.565214 ATGGGTGTGACGTGGCCA 61.565 61.111 0.00 0.00 0.00 5.36
557 2136 5.967674 GCATGTTGCATGTTAAGATACTCAC 59.032 40.000 10.31 0.00 44.26 3.51
707 2286 1.027357 GGCCGTTCGATCTACCTACA 58.973 55.000 0.00 0.00 0.00 2.74
722 2301 4.640789 ACCTACATGACGAGTCATCTTC 57.359 45.455 15.09 0.00 46.57 2.87
729 2308 2.263077 GACGAGTCATCTTCGCAACAT 58.737 47.619 0.00 0.00 0.00 2.71
890 2471 6.142320 GGTCTTGTTACAGAATTTTTCGCAAG 59.858 38.462 0.00 0.00 34.05 4.01
918 2499 5.923684 GGTCTTGTTGCGGAATCATTTTTAA 59.076 36.000 0.00 0.00 0.00 1.52
952 2533 2.050714 CAACAGGCGCTGCAACAG 60.051 61.111 7.64 0.00 34.37 3.16
970 2551 4.486125 ACAGACCCTTTGTTGCAAAAAT 57.514 36.364 2.11 0.00 0.00 1.82
1042 2623 1.071699 GCTTGGGCCGTGGATAATCTA 59.928 52.381 0.00 0.00 0.00 1.98
1067 2703 1.852067 GCAGATTGACACCGCCGTTT 61.852 55.000 0.00 0.00 0.00 3.60
1079 2715 4.635769 CCGTTTGCCATGGCTAGA 57.364 55.556 35.53 19.58 42.51 2.43
1080 2716 2.397751 CCGTTTGCCATGGCTAGAG 58.602 57.895 35.53 23.73 42.51 2.43
1081 2717 0.107703 CCGTTTGCCATGGCTAGAGA 60.108 55.000 35.53 14.23 42.51 3.10
1082 2718 1.475751 CCGTTTGCCATGGCTAGAGAT 60.476 52.381 35.53 0.00 42.51 2.75
1083 2719 2.292267 CGTTTGCCATGGCTAGAGATT 58.708 47.619 35.53 0.00 42.51 2.40
1084 2720 2.684881 CGTTTGCCATGGCTAGAGATTT 59.315 45.455 35.53 0.00 42.51 2.17
1085 2721 3.488047 CGTTTGCCATGGCTAGAGATTTG 60.488 47.826 35.53 12.90 42.51 2.32
1086 2722 2.353357 TGCCATGGCTAGAGATTTGG 57.647 50.000 35.53 0.00 42.51 3.28
1087 2723 0.957362 GCCATGGCTAGAGATTTGGC 59.043 55.000 29.98 0.00 42.40 4.52
1088 2724 1.613836 CCATGGCTAGAGATTTGGCC 58.386 55.000 0.00 0.00 44.31 5.36
1092 2728 1.613836 GGCTAGAGATTTGGCCATGG 58.386 55.000 6.09 7.63 43.59 3.66
1104 2740 1.335145 GGCCATGGATGATTTGGGAG 58.665 55.000 18.40 0.00 0.00 4.30
1108 2744 1.961394 CATGGATGATTTGGGAGGCAG 59.039 52.381 0.00 0.00 0.00 4.85
1119 2755 1.333177 GGGAGGCAGATCGATACTGT 58.667 55.000 19.33 7.02 37.64 3.55
1120 2756 1.689273 GGGAGGCAGATCGATACTGTT 59.311 52.381 19.33 11.99 37.64 3.16
1121 2757 2.546795 GGGAGGCAGATCGATACTGTTG 60.547 54.545 19.33 7.48 37.64 3.33
1165 2801 3.389983 CCCATGGATGATTTGGAAAGCAT 59.610 43.478 15.22 2.58 46.58 3.79
1171 2807 6.005823 TGGATGATTTGGAAAGCATATCGAT 58.994 36.000 2.16 2.16 44.23 3.59
1175 2811 6.295249 TGATTTGGAAAGCATATCGATACCA 58.705 36.000 7.41 6.69 27.98 3.25
1177 2813 4.681074 TGGAAAGCATATCGATACCACA 57.319 40.909 7.41 0.00 0.00 4.17
1182 2818 3.902150 AGCATATCGATACCACAGTTCG 58.098 45.455 7.41 0.00 0.00 3.95
1190 2826 2.448926 TACCACAGTTCGTCATGGTG 57.551 50.000 5.02 0.00 45.14 4.17
1200 2836 0.107508 CGTCATGGTGGGAGCTTGAT 60.108 55.000 0.00 0.00 33.41 2.57
1222 2858 2.230992 CCGTGGATGATTTGGAAAGCAA 59.769 45.455 0.00 0.00 37.88 3.91
1232 2868 2.791383 TGGAAAGCAAATCAACACCG 57.209 45.000 0.00 0.00 0.00 4.94
1240 2876 1.002900 CAAATCAACACCGCAGTTCGT 60.003 47.619 0.00 0.00 36.19 3.85
1279 2915 1.818060 CGTGGATGATTTGGGAAGCAA 59.182 47.619 0.00 0.00 34.43 3.91
1334 2970 2.575532 GCCATGGATGATTTCGGAAGA 58.424 47.619 18.40 0.00 39.20 2.87
1347 2983 2.711542 TCGGAAGAAGATTTGGGAAGC 58.288 47.619 0.00 0.00 37.03 3.86
1448 3388 1.474077 GTATCTGTTTGCTTGGGCCTG 59.526 52.381 4.53 0.00 37.74 4.85
1480 3420 0.251608 GTGGGTGGGTAAGGCAACAT 60.252 55.000 0.00 0.00 41.41 2.71
1481 3421 0.039035 TGGGTGGGTAAGGCAACATC 59.961 55.000 0.00 0.00 41.41 3.06
1482 3422 0.039035 GGGTGGGTAAGGCAACATCA 59.961 55.000 0.00 0.00 41.41 3.07
1483 3423 1.463674 GGTGGGTAAGGCAACATCAG 58.536 55.000 0.00 0.00 41.41 2.90
1501 3441 3.450115 GCCCACCGTCTAGCGTCT 61.450 66.667 5.97 0.00 39.32 4.18
1502 3442 3.003113 GCCCACCGTCTAGCGTCTT 62.003 63.158 5.97 0.00 39.32 3.01
1702 3789 1.101635 TGACTATCTGGCTCGTCGGG 61.102 60.000 0.00 0.00 0.00 5.14
1913 4160 3.771160 CGGACGGTGGCTAGCCTT 61.771 66.667 33.07 15.59 36.94 4.35
2387 5011 0.904649 AGGATCACGACATCAGCCAA 59.095 50.000 0.00 0.00 0.00 4.52
3166 6489 2.163412 TCGGTGTCCAAATTATGCTTGC 59.837 45.455 0.00 0.00 0.00 4.01
3718 7201 1.548269 CCTGAGACCTGACAGTTCTCC 59.452 57.143 22.91 9.23 32.93 3.71
3720 7203 0.109039 GAGACCTGACAGTTCTCCGC 60.109 60.000 17.00 0.00 0.00 5.54
3722 7205 0.109039 GACCTGACAGTTCTCCGCTC 60.109 60.000 0.93 0.00 0.00 5.03
3777 7260 5.635120 AGTGCTTTTCTTCATTAGGAGGTT 58.365 37.500 0.00 0.00 0.00 3.50
3813 7296 5.220710 CAAGGACTGGATGATACCTAAGG 57.779 47.826 0.00 0.00 0.00 2.69
3815 7298 2.972713 GGACTGGATGATACCTAAGGCA 59.027 50.000 0.00 0.00 0.00 4.75
3854 7337 1.635487 CCCTTGAGGTTGGATTCAGGA 59.365 52.381 0.00 0.00 0.00 3.86
3978 7461 4.408182 AAATAAGTCGTGAGGAGGATGG 57.592 45.455 0.00 0.00 0.00 3.51
3990 7473 1.609061 GGAGGATGGTCGTATGCATGG 60.609 57.143 10.16 0.84 0.00 3.66
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
192 198 1.695893 CCTGCGTGCTAACACCGATG 61.696 60.000 0.00 0.00 44.40 3.84
287 1866 1.374758 GTCCACCGTGCTCTTCCTG 60.375 63.158 0.00 0.00 0.00 3.86
295 1874 2.159435 GGTCAATAAATGTCCACCGTGC 60.159 50.000 0.00 0.00 37.22 5.34
324 1903 8.798402 CGTCTACCCTCTCTATCAATAAAATCT 58.202 37.037 0.00 0.00 0.00 2.40
326 1905 8.707796 TCGTCTACCCTCTCTATCAATAAAAT 57.292 34.615 0.00 0.00 0.00 1.82
327 1906 8.529424 TTCGTCTACCCTCTCTATCAATAAAA 57.471 34.615 0.00 0.00 0.00 1.52
328 1907 7.230913 CCTTCGTCTACCCTCTCTATCAATAAA 59.769 40.741 0.00 0.00 0.00 1.40
329 1908 6.715718 CCTTCGTCTACCCTCTCTATCAATAA 59.284 42.308 0.00 0.00 0.00 1.40
331 1910 5.074115 CCTTCGTCTACCCTCTCTATCAAT 58.926 45.833 0.00 0.00 0.00 2.57
332 1911 4.165565 TCCTTCGTCTACCCTCTCTATCAA 59.834 45.833 0.00 0.00 0.00 2.57
333 1912 3.715315 TCCTTCGTCTACCCTCTCTATCA 59.285 47.826 0.00 0.00 0.00 2.15
334 1913 4.354893 TCCTTCGTCTACCCTCTCTATC 57.645 50.000 0.00 0.00 0.00 2.08
335 1914 4.463070 GTTCCTTCGTCTACCCTCTCTAT 58.537 47.826 0.00 0.00 0.00 1.98
336 1915 3.371380 GGTTCCTTCGTCTACCCTCTCTA 60.371 52.174 0.00 0.00 0.00 2.43
337 1916 2.621147 GGTTCCTTCGTCTACCCTCTCT 60.621 54.545 0.00 0.00 0.00 3.10
338 1917 1.750206 GGTTCCTTCGTCTACCCTCTC 59.250 57.143 0.00 0.00 0.00 3.20
345 1924 4.800023 TCTATGGATGGTTCCTTCGTCTA 58.200 43.478 0.00 0.00 43.07 2.59
350 1929 4.745172 GCCTCTTCTATGGATGGTTCCTTC 60.745 50.000 0.00 0.00 43.07 3.46
365 1944 4.281657 ACAAAGAAAGGTTTGCCTCTTCT 58.718 39.130 0.00 0.00 46.33 2.85
366 1945 4.655762 ACAAAGAAAGGTTTGCCTCTTC 57.344 40.909 0.00 0.00 46.33 2.87
383 1962 2.158593 TCCGGATCCACCTCAAAACAAA 60.159 45.455 13.41 0.00 36.31 2.83
395 1974 0.252513 TTCCACCTTCTCCGGATCCA 60.253 55.000 13.41 0.00 0.00 3.41
402 1981 3.092301 CCCAATCTTTTCCACCTTCTCC 58.908 50.000 0.00 0.00 0.00 3.71
492 2071 1.209504 CGTCACACCCATGTATTCCCT 59.790 52.381 0.00 0.00 36.72 4.20
511 2090 2.261345 CACATAAGCAAAATGGCCACG 58.739 47.619 8.16 0.00 0.00 4.94
518 2097 4.152759 GCAACATGCACACATAAGCAAAAT 59.847 37.500 0.00 0.00 44.88 1.82
557 2136 4.717280 ACCTAAGAAGTTCATCCCCACTAG 59.283 45.833 5.50 0.00 0.00 2.57
598 2177 2.738135 CGTCGCCCAATTTTGAAACTT 58.262 42.857 0.00 0.00 0.00 2.66
644 2223 1.281899 CGGAGGCAGTCGATCTTTTC 58.718 55.000 0.00 0.00 0.00 2.29
855 2435 9.959721 AATTCTGTAACAAGACCTATGTTGTAT 57.040 29.630 2.37 0.00 41.25 2.29
874 2454 5.067805 AGACCTTTCTTGCGAAAAATTCTGT 59.932 36.000 0.00 0.00 38.58 3.41
890 2471 2.552315 TGATTCCGCAACAAGACCTTTC 59.448 45.455 0.00 0.00 0.00 2.62
943 2524 0.746659 AACAAAGGGTCTGTTGCAGC 59.253 50.000 0.00 0.00 35.70 5.25
944 2525 2.497107 CAACAAAGGGTCTGTTGCAG 57.503 50.000 3.02 0.00 45.07 4.41
952 2533 9.435688 AGATATTTATTTTTGCAACAAAGGGTC 57.564 29.630 0.00 0.00 0.00 4.46
970 2551 6.657966 TCGCCGGAGAAGATAGAAGATATTTA 59.342 38.462 5.05 0.00 0.00 1.40
1042 2623 1.537202 GCGGTGTCAATCTGCTTTCTT 59.463 47.619 0.00 0.00 34.72 2.52
1067 2703 2.353357 CCAAATCTCTAGCCATGGCA 57.647 50.000 37.18 21.91 44.88 4.92
1075 2711 4.362470 TCATCCATGGCCAAATCTCTAG 57.638 45.455 10.96 0.00 0.00 2.43
1076 2712 5.329191 AATCATCCATGGCCAAATCTCTA 57.671 39.130 10.96 0.00 0.00 2.43
1077 2713 3.897657 ATCATCCATGGCCAAATCTCT 57.102 42.857 10.96 0.00 0.00 3.10
1078 2714 4.502604 CCAAATCATCCATGGCCAAATCTC 60.503 45.833 10.96 0.00 0.00 2.75
1079 2715 3.389983 CCAAATCATCCATGGCCAAATCT 59.610 43.478 10.96 0.00 0.00 2.40
1080 2716 3.495453 CCCAAATCATCCATGGCCAAATC 60.495 47.826 10.96 0.00 32.71 2.17
1081 2717 2.440253 CCCAAATCATCCATGGCCAAAT 59.560 45.455 10.96 0.18 32.71 2.32
1082 2718 1.838715 CCCAAATCATCCATGGCCAAA 59.161 47.619 10.96 0.00 32.71 3.28
1083 2719 1.008084 TCCCAAATCATCCATGGCCAA 59.992 47.619 10.96 0.00 32.71 4.52
1084 2720 0.635555 TCCCAAATCATCCATGGCCA 59.364 50.000 8.56 8.56 32.71 5.36
1085 2721 1.335145 CTCCCAAATCATCCATGGCC 58.665 55.000 6.96 0.00 32.71 5.36
1086 2722 1.335145 CCTCCCAAATCATCCATGGC 58.665 55.000 6.96 0.00 32.71 4.40
1087 2723 1.335145 GCCTCCCAAATCATCCATGG 58.665 55.000 4.97 4.97 0.00 3.66
1088 2724 1.961394 CTGCCTCCCAAATCATCCATG 59.039 52.381 0.00 0.00 0.00 3.66
1089 2725 1.854939 TCTGCCTCCCAAATCATCCAT 59.145 47.619 0.00 0.00 0.00 3.41
1090 2726 1.297968 TCTGCCTCCCAAATCATCCA 58.702 50.000 0.00 0.00 0.00 3.41
1091 2727 2.512705 GATCTGCCTCCCAAATCATCC 58.487 52.381 0.00 0.00 0.00 3.51
1092 2728 2.149578 CGATCTGCCTCCCAAATCATC 58.850 52.381 0.00 0.00 0.00 2.92
1104 2740 2.535984 CGAACAACAGTATCGATCTGCC 59.464 50.000 18.73 1.72 38.82 4.85
1108 2744 2.536365 TGGCGAACAACAGTATCGATC 58.464 47.619 0.00 0.00 38.82 3.69
1133 2769 0.466922 CATCCATGGGTCAAGCTCCC 60.467 60.000 13.02 1.85 44.81 4.30
1165 2801 4.261447 CCATGACGAACTGTGGTATCGATA 60.261 45.833 0.00 0.00 39.73 2.92
1171 2807 1.001520 CCACCATGACGAACTGTGGTA 59.998 52.381 0.00 0.00 42.79 3.25
1175 2811 0.321671 CTCCCACCATGACGAACTGT 59.678 55.000 0.00 0.00 0.00 3.55
1177 2813 1.194781 AGCTCCCACCATGACGAACT 61.195 55.000 0.00 0.00 0.00 3.01
1182 2818 1.673168 GATCAAGCTCCCACCATGAC 58.327 55.000 0.00 0.00 0.00 3.06
1189 2825 0.982852 ATCCACGGATCAAGCTCCCA 60.983 55.000 0.00 0.00 31.04 4.37
1190 2826 0.533755 CATCCACGGATCAAGCTCCC 60.534 60.000 0.00 0.00 31.62 4.30
1200 2836 2.091541 GCTTTCCAAATCATCCACGGA 58.908 47.619 0.00 0.00 0.00 4.69
1222 2858 0.865769 GACGAACTGCGGTGTTGATT 59.134 50.000 0.00 0.00 46.49 2.57
1226 2862 1.227999 CCATGACGAACTGCGGTGTT 61.228 55.000 0.00 0.00 46.49 3.32
1232 2868 0.798776 CTCCAACCATGACGAACTGC 59.201 55.000 0.00 0.00 0.00 4.40
1240 2876 0.038166 GACCCAAGCTCCAACCATGA 59.962 55.000 0.00 0.00 0.00 3.07
1279 2915 1.520600 GGCGGACGGTGGTTTCAAAT 61.521 55.000 0.00 0.00 0.00 2.32
1422 3362 3.941483 CCCAAGCAAACAGATACGAGAAT 59.059 43.478 0.00 0.00 0.00 2.40
1429 3369 1.354031 TCAGGCCCAAGCAAACAGATA 59.646 47.619 0.00 0.00 42.56 1.98
1448 3388 2.162681 CCACCCACTTGAAGACCATTC 58.837 52.381 0.00 0.00 0.00 2.67
1480 3420 3.075005 GCTAGACGGTGGGCCTGA 61.075 66.667 4.53 0.00 0.00 3.86
1481 3421 4.514577 CGCTAGACGGTGGGCCTG 62.515 72.222 4.53 0.00 38.44 4.85
1501 3441 0.480690 TGGGGTTAGGCTTCAAGCAA 59.519 50.000 12.53 0.00 44.75 3.91
1502 3442 0.038166 CTGGGGTTAGGCTTCAAGCA 59.962 55.000 12.53 0.00 44.75 3.91
1913 4160 2.559785 GACAAGGAGGTCGTCGGTA 58.440 57.895 0.00 0.00 0.00 4.02
1933 4557 1.899534 GGGAGACGGGAGAGGATCG 60.900 68.421 0.00 0.00 42.67 3.69
2387 5011 1.489230 GAATACACCTCCATTCCGGGT 59.511 52.381 0.00 0.00 34.36 5.28
2676 5995 3.876309 AACCACCAGTTCAACCATACT 57.124 42.857 0.00 0.00 30.99 2.12
3571 7052 9.575783 TGAAAACCAAAGAACAACATAAGTTAC 57.424 29.630 0.00 0.00 35.85 2.50
3579 7060 8.558973 AATGAAATGAAAACCAAAGAACAACA 57.441 26.923 0.00 0.00 0.00 3.33
3718 7201 4.816385 TGGCTCCTAATGAATAAAAGAGCG 59.184 41.667 0.00 0.00 44.77 5.03
3720 7203 6.360618 ACCTGGCTCCTAATGAATAAAAGAG 58.639 40.000 0.00 0.00 0.00 2.85
3722 7205 6.360618 AGACCTGGCTCCTAATGAATAAAAG 58.639 40.000 0.00 0.00 0.00 2.27
3777 7260 1.423921 GTCCTTGGAAAAGGGGTCTCA 59.576 52.381 4.73 0.00 40.38 3.27
3813 7296 2.464157 ACTGTAGCCAACTCTTCTGC 57.536 50.000 0.00 0.00 0.00 4.26
3815 7298 2.832733 GGGTACTGTAGCCAACTCTTCT 59.167 50.000 26.59 0.00 45.50 2.85
3854 7337 5.371526 CCATAACCTTACTGATGCTGTCAT 58.628 41.667 0.00 0.00 35.97 3.06
3934 7417 7.615582 TTATCTGCCAACAAGAGATTAACTG 57.384 36.000 0.00 0.00 0.00 3.16


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

AutoCloner maintained by Alex Coulton.