Multiple sequence alignment - TraesCS6B01G120500

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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 TraesCS6B01G120500 chr6B 100.000 3640 0 0 1 3640 115682136 115685775 0.000000e+00 6722.0
1 TraesCS6B01G120500 chr5A 97.192 926 25 1 1 925 4216147 4215222 0.000000e+00 1565.0
2 TraesCS6B01G120500 chr5A 76.484 910 200 12 27 927 558965597 558966501 1.970000e-132 483.0
3 TraesCS6B01G120500 chr4A 96.983 928 27 1 1 927 637961755 637962682 0.000000e+00 1557.0
4 TraesCS6B01G120500 chr4A 95.567 812 31 5 2828 3637 670936075 670936883 0.000000e+00 1295.0
5 TraesCS6B01G120500 chr1A 96.865 925 28 1 1 924 28923256 28922332 0.000000e+00 1546.0
6 TraesCS6B01G120500 chr3B 96.861 924 28 1 1 923 206381927 206382850 0.000000e+00 1544.0
7 TraesCS6B01G120500 chr1B 94.110 815 44 4 2828 3640 36922370 36921558 0.000000e+00 1236.0
8 TraesCS6B01G120500 chr5B 94.081 811 39 5 2828 3638 691004411 691005212 0.000000e+00 1223.0
9 TraesCS6B01G120500 chr5B 78.277 534 98 13 400 923 591490304 591489779 9.750000e-86 327.0
10 TraesCS6B01G120500 chr6D 93.156 716 37 6 2125 2833 46616315 46617025 0.000000e+00 1040.0
11 TraesCS6B01G120500 chr6D 97.578 578 11 1 980 1554 46612324 46612901 0.000000e+00 987.0
12 TraesCS6B01G120500 chr6D 94.930 572 20 5 1549 2120 46615689 46616251 0.000000e+00 887.0
13 TraesCS6B01G120500 chr6D 100.000 31 0 0 937 967 46612311 46612341 1.410000e-04 58.4
14 TraesCS6B01G120500 chr7D 88.659 820 81 11 2823 3636 94089669 94090482 0.000000e+00 989.0
15 TraesCS6B01G120500 chr7D 88.272 810 87 8 2831 3636 9940350 9939545 0.000000e+00 963.0
16 TraesCS6B01G120500 chr7D 88.192 813 86 10 2827 3636 17388052 17387247 0.000000e+00 961.0
17 TraesCS6B01G120500 chr7D 79.022 491 100 3 433 921 110337967 110337478 2.090000e-87 333.0
18 TraesCS6B01G120500 chr5D 88.561 813 84 8 2827 3636 389931747 389932553 0.000000e+00 977.0
19 TraesCS6B01G120500 chr3A 88.589 815 75 15 2828 3636 700297253 700298055 0.000000e+00 974.0
20 TraesCS6B01G120500 chr2B 87.763 809 87 8 2828 3632 208210148 208209348 0.000000e+00 935.0
21 TraesCS6B01G120500 chr2B 84.191 272 40 3 1823 2093 632620096 632620365 1.000000e-65 261.0
22 TraesCS6B01G120500 chr2B 72.327 954 221 32 1146 2091 6987305 6986387 3.610000e-65 259.0
23 TraesCS6B01G120500 chr2D 75.078 963 191 23 1140 2093 533036658 533037580 1.570000e-108 403.0
24 TraesCS6B01G120500 chr2D 77.944 535 104 12 400 924 67415242 67414712 4.530000e-84 322.0
25 TraesCS6B01G120500 chr2D 76.038 313 72 3 2217 2528 533037962 533038272 3.760000e-35 159.0
26 TraesCS6B01G120500 chr3D 77.903 534 103 12 400 923 48374184 48373656 5.870000e-83 318.0
27 TraesCS6B01G120500 chr2A 83.824 272 42 2 1823 2093 677417636 677417906 1.300000e-64 257.0


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 TraesCS6B01G120500 chr6B 115682136 115685775 3639 False 6722.0 6722 100.000 1 3640 1 chr6B.!!$F1 3639
1 TraesCS6B01G120500 chr5A 4215222 4216147 925 True 1565.0 1565 97.192 1 925 1 chr5A.!!$R1 924
2 TraesCS6B01G120500 chr5A 558965597 558966501 904 False 483.0 483 76.484 27 927 1 chr5A.!!$F1 900
3 TraesCS6B01G120500 chr4A 637961755 637962682 927 False 1557.0 1557 96.983 1 927 1 chr4A.!!$F1 926
4 TraesCS6B01G120500 chr4A 670936075 670936883 808 False 1295.0 1295 95.567 2828 3637 1 chr4A.!!$F2 809
5 TraesCS6B01G120500 chr1A 28922332 28923256 924 True 1546.0 1546 96.865 1 924 1 chr1A.!!$R1 923
6 TraesCS6B01G120500 chr3B 206381927 206382850 923 False 1544.0 1544 96.861 1 923 1 chr3B.!!$F1 922
7 TraesCS6B01G120500 chr1B 36921558 36922370 812 True 1236.0 1236 94.110 2828 3640 1 chr1B.!!$R1 812
8 TraesCS6B01G120500 chr5B 691004411 691005212 801 False 1223.0 1223 94.081 2828 3638 1 chr5B.!!$F1 810
9 TraesCS6B01G120500 chr5B 591489779 591490304 525 True 327.0 327 78.277 400 923 1 chr5B.!!$R1 523
10 TraesCS6B01G120500 chr6D 46612311 46617025 4714 False 743.1 1040 96.416 937 2833 4 chr6D.!!$F1 1896
11 TraesCS6B01G120500 chr7D 94089669 94090482 813 False 989.0 989 88.659 2823 3636 1 chr7D.!!$F1 813
12 TraesCS6B01G120500 chr7D 9939545 9940350 805 True 963.0 963 88.272 2831 3636 1 chr7D.!!$R1 805
13 TraesCS6B01G120500 chr7D 17387247 17388052 805 True 961.0 961 88.192 2827 3636 1 chr7D.!!$R2 809
14 TraesCS6B01G120500 chr5D 389931747 389932553 806 False 977.0 977 88.561 2827 3636 1 chr5D.!!$F1 809
15 TraesCS6B01G120500 chr3A 700297253 700298055 802 False 974.0 974 88.589 2828 3636 1 chr3A.!!$F1 808
16 TraesCS6B01G120500 chr2B 208209348 208210148 800 True 935.0 935 87.763 2828 3632 1 chr2B.!!$R2 804
17 TraesCS6B01G120500 chr2B 6986387 6987305 918 True 259.0 259 72.327 1146 2091 1 chr2B.!!$R1 945
18 TraesCS6B01G120500 chr2D 67414712 67415242 530 True 322.0 322 77.944 400 924 1 chr2D.!!$R1 524
19 TraesCS6B01G120500 chr2D 533036658 533038272 1614 False 281.0 403 75.558 1140 2528 2 chr2D.!!$F1 1388
20 TraesCS6B01G120500 chr3D 48373656 48374184 528 True 318.0 318 77.903 400 923 1 chr3D.!!$R1 523

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
83 84 0.618458 TGGAAGGCTATGGCGAAACT 59.382 50.0 0.0 0.0 39.81 2.66 F
114 115 0.861837 CGGATATTGCAGGAGTTCGC 59.138 55.0 0.0 0.0 0.00 4.70 F
1494 1514 0.888736 TCTGCACCATGTGTTTCGGG 60.889 55.0 0.0 0.0 35.75 5.14 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1022 1036 1.151810 AGAGGAACCAAGGGGAGCA 60.152 57.895 0.00 0.0 38.05 4.26 R
1816 4635 1.588403 CGTCGCTGATCCTCTGCTG 60.588 63.158 4.80 0.0 38.90 4.41 R
3129 6214 1.803334 TGATTTTTGGACCGTCCTCG 58.197 50.000 18.54 0.0 37.46 4.63 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
83 84 0.618458 TGGAAGGCTATGGCGAAACT 59.382 50.000 0.00 0.00 39.81 2.66
114 115 0.861837 CGGATATTGCAGGAGTTCGC 59.138 55.000 0.00 0.00 0.00 4.70
452 457 1.502231 AGCTAAATGTAGATGGCGCG 58.498 50.000 0.00 0.00 0.00 6.86
672 678 3.126831 GCGGTAGATTCCATTCAGTCAG 58.873 50.000 0.00 0.00 0.00 3.51
952 966 2.108168 TCGTAGGCCTACAGCTCAATT 58.892 47.619 35.98 0.54 43.05 2.32
953 967 3.067742 GTCGTAGGCCTACAGCTCAATTA 59.932 47.826 35.98 12.89 43.05 1.40
954 968 3.895656 TCGTAGGCCTACAGCTCAATTAT 59.104 43.478 35.98 0.00 43.05 1.28
955 969 5.048224 GTCGTAGGCCTACAGCTCAATTATA 60.048 44.000 35.98 11.71 43.05 0.98
956 970 5.715279 TCGTAGGCCTACAGCTCAATTATAT 59.285 40.000 35.98 0.00 43.05 0.86
957 971 6.210784 TCGTAGGCCTACAGCTCAATTATATT 59.789 38.462 35.98 0.00 43.05 1.28
958 972 6.531948 CGTAGGCCTACAGCTCAATTATATTC 59.468 42.308 35.98 9.04 43.05 1.75
959 973 6.439636 AGGCCTACAGCTCAATTATATTCA 57.560 37.500 1.29 0.00 43.05 2.57
960 974 7.025520 AGGCCTACAGCTCAATTATATTCAT 57.974 36.000 1.29 0.00 43.05 2.57
961 975 7.108847 AGGCCTACAGCTCAATTATATTCATC 58.891 38.462 1.29 0.00 43.05 2.92
962 976 6.881065 GGCCTACAGCTCAATTATATTCATCA 59.119 38.462 0.00 0.00 43.05 3.07
963 977 7.391554 GGCCTACAGCTCAATTATATTCATCAA 59.608 37.037 0.00 0.00 43.05 2.57
964 978 8.449397 GCCTACAGCTCAATTATATTCATCAAG 58.551 37.037 0.00 0.00 38.99 3.02
965 979 8.449397 CCTACAGCTCAATTATATTCATCAAGC 58.551 37.037 0.00 0.00 0.00 4.01
966 980 7.812690 ACAGCTCAATTATATTCATCAAGCA 57.187 32.000 0.00 0.00 0.00 3.91
967 981 7.646314 ACAGCTCAATTATATTCATCAAGCAC 58.354 34.615 0.00 0.00 0.00 4.40
968 982 7.082602 CAGCTCAATTATATTCATCAAGCACC 58.917 38.462 0.00 0.00 0.00 5.01
969 983 6.208204 AGCTCAATTATATTCATCAAGCACCC 59.792 38.462 0.00 0.00 0.00 4.61
970 984 6.571150 GCTCAATTATATTCATCAAGCACCCC 60.571 42.308 0.00 0.00 0.00 4.95
971 985 6.613699 TCAATTATATTCATCAAGCACCCCT 58.386 36.000 0.00 0.00 0.00 4.79
972 986 6.716628 TCAATTATATTCATCAAGCACCCCTC 59.283 38.462 0.00 0.00 0.00 4.30
973 987 5.645056 TTATATTCATCAAGCACCCCTCA 57.355 39.130 0.00 0.00 0.00 3.86
974 988 2.905415 ATTCATCAAGCACCCCTCAA 57.095 45.000 0.00 0.00 0.00 3.02
975 989 2.673775 TTCATCAAGCACCCCTCAAA 57.326 45.000 0.00 0.00 0.00 2.69
976 990 2.673775 TCATCAAGCACCCCTCAAAA 57.326 45.000 0.00 0.00 0.00 2.44
977 991 2.956132 TCATCAAGCACCCCTCAAAAA 58.044 42.857 0.00 0.00 0.00 1.94
1022 1036 1.280457 CAAGGCCTACTCCTCTTGGT 58.720 55.000 5.16 0.00 34.82 3.67
1218 1232 2.580601 CGGGTCCTTCTCCAACCGT 61.581 63.158 0.00 0.00 36.78 4.83
1494 1514 0.888736 TCTGCACCATGTGTTTCGGG 60.889 55.000 0.00 0.00 35.75 5.14
1515 1535 2.040544 CAGCGTTTACCCAGCCCTG 61.041 63.158 0.00 0.00 0.00 4.45
1583 4402 2.733593 GGTGCGCGTCTTCGTCTT 60.734 61.111 8.43 0.00 39.49 3.01
1689 4508 1.911057 TGTATCTCCCGCTCATCGAT 58.089 50.000 0.00 0.00 41.67 3.59
1699 4518 1.858041 CTCATCGATGCATGTCGCC 59.142 57.895 20.81 0.00 41.22 5.54
1734 4553 2.102553 GACGAGCCTCCGTGCTAC 59.897 66.667 1.07 0.00 42.95 3.58
1782 4601 3.509388 GGTCAAAGACGACGACCAT 57.491 52.632 0.00 0.00 46.98 3.55
1811 4630 2.423898 TAGGTGTAGGCGGCTCTGC 61.424 63.158 17.67 8.03 0.00 4.26
1849 4668 1.516603 GACGCAGAACTCGTAGGGC 60.517 63.158 0.00 0.00 40.59 5.19
1980 4799 3.195698 GACGATTCTGTGGGCGCC 61.196 66.667 21.18 21.18 0.00 6.53
2111 4930 8.947115 GCAAGTAAGTGAAATCCTTAATACAGT 58.053 33.333 0.00 0.00 0.00 3.55
2113 4932 8.494016 AGTAAGTGAAATCCTTAATACAGTGC 57.506 34.615 0.00 0.00 0.00 4.40
2114 4933 8.322091 AGTAAGTGAAATCCTTAATACAGTGCT 58.678 33.333 0.00 0.00 0.00 4.40
2115 4934 7.617041 AAGTGAAATCCTTAATACAGTGCTC 57.383 36.000 0.00 0.00 0.00 4.26
2117 4936 5.297029 GTGAAATCCTTAATACAGTGCTCCC 59.703 44.000 0.00 0.00 0.00 4.30
2119 4938 4.965200 ATCCTTAATACAGTGCTCCCTC 57.035 45.455 0.00 0.00 0.00 4.30
2120 4939 3.719871 TCCTTAATACAGTGCTCCCTCA 58.280 45.455 0.00 0.00 0.00 3.86
2122 4941 4.534500 TCCTTAATACAGTGCTCCCTCAAA 59.466 41.667 0.00 0.00 0.00 2.69
2123 4942 5.013704 TCCTTAATACAGTGCTCCCTCAAAA 59.986 40.000 0.00 0.00 0.00 2.44
2180 5239 8.462143 TTTCATTAACGAAGTCTAGCTAAGTG 57.538 34.615 0.00 0.00 45.00 3.16
2185 5244 5.238006 ACGAAGTCTAGCTAAGTGATCAC 57.762 43.478 18.47 18.47 29.74 3.06
2188 5247 6.542735 ACGAAGTCTAGCTAAGTGATCACATA 59.457 38.462 27.02 18.46 29.74 2.29
2228 5304 7.362747 GCTGAAAAGGTGATGAAAGAAGATGAT 60.363 37.037 0.00 0.00 0.00 2.45
2282 5358 2.253610 ACCACGGTGATCTTTCCACTA 58.746 47.619 10.28 0.00 35.05 2.74
2286 5362 2.761208 ACGGTGATCTTTCCACTAGAGG 59.239 50.000 0.00 0.00 35.05 3.69
2330 5406 1.303317 GGCTGACCCCGATGTGTTT 60.303 57.895 0.00 0.00 0.00 2.83
2388 5464 2.942796 ATGAACCTCGTGGCAGCGA 61.943 57.895 2.76 10.76 39.22 4.93
2610 5686 4.065088 ACTACGAGCTCATCTTTTGCAAA 58.935 39.130 15.40 8.05 0.00 3.68
2616 5692 2.589014 CTCATCTTTTGCAAAGGCGAC 58.411 47.619 15.96 0.00 45.35 5.19
2659 5735 2.919666 TTATTTCTTGCAGGCGCTTC 57.080 45.000 7.64 0.00 39.64 3.86
2678 5754 0.110056 CGCTAGCTGCAAGTTTGGTG 60.110 55.000 13.93 0.00 43.06 4.17
2682 5759 0.461135 AGCTGCAAGTTTGGTGTTGG 59.539 50.000 1.02 0.00 35.30 3.77
2689 5766 4.586421 TGCAAGTTTGGTGTTGGATGATTA 59.414 37.500 0.00 0.00 0.00 1.75
2701 5778 9.174166 GGTGTTGGATGATTACTATTTTGTACT 57.826 33.333 0.00 0.00 0.00 2.73
2731 5808 9.798994 ACTAGTATAATGTACTTGTGTTGCTAC 57.201 33.333 3.85 0.00 33.56 3.58
2754 5831 5.181245 ACGGGCTACATGCATATAAATGAAC 59.819 40.000 0.00 0.00 45.15 3.18
2755 5832 5.412594 CGGGCTACATGCATATAAATGAACT 59.587 40.000 0.00 0.00 45.15 3.01
2776 5858 8.492748 TGAACTGAATAAAGATGTCGTTGTTAC 58.507 33.333 0.00 0.00 0.00 2.50
2794 5876 5.100259 TGTTACGGTCGAATCTCATTTCTC 58.900 41.667 0.00 0.00 0.00 2.87
2799 5881 4.439426 CGGTCGAATCTCATTTCTCTGTCT 60.439 45.833 0.00 0.00 0.00 3.41
2801 5883 5.974751 GGTCGAATCTCATTTCTCTGTCTAC 59.025 44.000 0.00 0.00 0.00 2.59
2806 5888 5.723672 TCTCATTTCTCTGTCTACGGTTT 57.276 39.130 0.00 0.00 0.00 3.27
2908 5990 5.521010 CGGACACTCGGCAATAGTATTTTTA 59.479 40.000 0.00 0.00 0.00 1.52
2913 5995 6.036300 CACTCGGCAATAGTATTTTTACCGAA 59.964 38.462 18.97 9.39 46.63 4.30
2959 6041 2.631545 ACTCGGCAAGTAGGTACTTTGT 59.368 45.455 0.00 0.00 43.57 2.83
3015 6097 2.180432 AACTCGGCTAACAGGGTTTC 57.820 50.000 0.00 0.00 0.00 2.78
3020 6102 2.396157 GCTAACAGGGTTTCGCCGG 61.396 63.158 0.00 0.00 38.44 6.13
3043 6126 2.597510 GCACTCGGCAAAAGGGGT 60.598 61.111 0.00 0.00 43.97 4.95
3075 6158 3.133362 AGTGTCACACTCGGTAAAAAGGA 59.867 43.478 3.98 0.00 41.21 3.36
3129 6214 1.139058 AGGTTGCATATGACCTCGGAC 59.861 52.381 6.97 0.00 42.53 4.79
3132 6217 0.668535 TGCATATGACCTCGGACGAG 59.331 55.000 14.39 14.39 41.63 4.18
3276 6364 2.233271 GACCAAGGTGATGGCCATATG 58.767 52.381 20.84 12.45 44.75 1.78
3302 6390 7.255590 GCACTGCATGGTTTATTATAATGGTCT 60.256 37.037 8.28 0.00 0.00 3.85
3340 6429 3.428870 GGTGTGTCTTGACATTACAGACG 59.571 47.826 6.74 0.00 38.05 4.18
3364 6453 7.093945 ACGATGTTGCCAAATAAAGTTTCCTAT 60.094 33.333 0.00 0.00 0.00 2.57
3415 6511 7.441017 TCATTTTCTAAGTGTCAAAAATGGGG 58.559 34.615 15.01 0.00 43.91 4.96
3417 6513 4.733077 TCTAAGTGTCAAAAATGGGGGA 57.267 40.909 0.00 0.00 0.00 4.81
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
83 84 1.131638 AATATCCGGCAGCTTCCAGA 58.868 50.000 2.54 0.00 0.00 3.86
254 255 3.396560 CTCTGCAAGAATCGGCATGATA 58.603 45.455 0.00 0.00 46.34 2.15
366 368 9.686683 AGTAGCAACCTTCTCATGTATTAAAAT 57.313 29.630 0.00 0.00 0.00 1.82
452 457 1.822990 TCACCCGTCTCCTTGATGTAC 59.177 52.381 0.00 0.00 0.00 2.90
672 678 2.625314 TCATCGATCTGTCCATGGACTC 59.375 50.000 37.92 27.84 44.80 3.36
927 941 0.102663 GCTGTAGGCCTACGACTTCC 59.897 60.000 32.52 15.79 38.85 3.46
928 942 1.065851 GAGCTGTAGGCCTACGACTTC 59.934 57.143 32.52 23.43 43.05 3.01
929 943 1.104630 GAGCTGTAGGCCTACGACTT 58.895 55.000 32.52 20.21 43.05 3.01
930 944 0.034380 TGAGCTGTAGGCCTACGACT 60.034 55.000 32.52 30.34 43.05 4.18
931 945 0.815734 TTGAGCTGTAGGCCTACGAC 59.184 55.000 32.52 26.83 43.05 4.34
932 946 1.776662 ATTGAGCTGTAGGCCTACGA 58.223 50.000 32.52 21.97 43.05 3.43
933 947 2.604046 AATTGAGCTGTAGGCCTACG 57.396 50.000 32.52 27.09 43.05 3.51
934 948 7.386851 TGAATATAATTGAGCTGTAGGCCTAC 58.613 38.462 32.37 32.37 43.05 3.18
935 949 7.553504 TGAATATAATTGAGCTGTAGGCCTA 57.446 36.000 8.91 8.91 43.05 3.93
952 966 5.645056 TTGAGGGGTGCTTGATGAATATA 57.355 39.130 0.00 0.00 0.00 0.86
953 967 4.524802 TTGAGGGGTGCTTGATGAATAT 57.475 40.909 0.00 0.00 0.00 1.28
954 968 4.314522 TTTGAGGGGTGCTTGATGAATA 57.685 40.909 0.00 0.00 0.00 1.75
955 969 2.905415 TTGAGGGGTGCTTGATGAAT 57.095 45.000 0.00 0.00 0.00 2.57
956 970 2.673775 TTTGAGGGGTGCTTGATGAA 57.326 45.000 0.00 0.00 0.00 2.57
957 971 2.673775 TTTTGAGGGGTGCTTGATGA 57.326 45.000 0.00 0.00 0.00 2.92
977 991 9.048446 GCATGGTTGCTTGATGAATATAATTTT 57.952 29.630 0.00 0.00 45.77 1.82
978 992 8.597662 GCATGGTTGCTTGATGAATATAATTT 57.402 30.769 0.00 0.00 45.77 1.82
1022 1036 1.151810 AGAGGAACCAAGGGGAGCA 60.152 57.895 0.00 0.00 38.05 4.26
1494 1514 2.038837 GGCTGGGTAAACGCTGTCC 61.039 63.158 6.06 4.61 0.00 4.02
1811 4630 1.883544 CTGATCCTCTGCTGCTGCG 60.884 63.158 11.21 6.13 43.34 5.18
1816 4635 1.588403 CGTCGCTGATCCTCTGCTG 60.588 63.158 4.80 0.00 38.90 4.41
1818 4637 2.959071 GCGTCGCTGATCCTCTGC 60.959 66.667 10.68 0.00 37.88 4.26
1819 4638 1.588403 CTGCGTCGCTGATCCTCTG 60.588 63.158 19.50 0.00 0.00 3.35
2117 4936 7.066645 TCTCAAGCACCTCATGAATATTTTGAG 59.933 37.037 21.32 21.32 39.21 3.02
2119 4938 7.092137 TCTCAAGCACCTCATGAATATTTTG 57.908 36.000 0.00 0.08 0.00 2.44
2120 4939 7.707624 TTCTCAAGCACCTCATGAATATTTT 57.292 32.000 0.00 0.00 0.00 1.82
2122 4941 7.288560 AGATTCTCAAGCACCTCATGAATATT 58.711 34.615 0.00 0.00 0.00 1.28
2123 4942 6.839454 AGATTCTCAAGCACCTCATGAATAT 58.161 36.000 0.00 0.00 0.00 1.28
2188 5247 8.203485 TCACCTTTTCAGCAGTCAAAATATTTT 58.797 29.630 7.64 7.64 0.00 1.82
2207 5266 6.093219 CGACATCATCTTCTTTCATCACCTTT 59.907 38.462 0.00 0.00 0.00 3.11
2228 5304 1.668867 TCGGCCATCAAGAACGACA 59.331 52.632 2.24 0.00 0.00 4.35
2282 5358 2.438614 TCACGCGCTAGAGCCTCT 60.439 61.111 13.17 0.00 37.91 3.69
2286 5362 1.154016 TCTTGTCACGCGCTAGAGC 60.154 57.895 5.73 8.60 37.78 4.09
2388 5464 3.771160 CTTCCCGGCGCTACCTGT 61.771 66.667 7.64 0.00 35.61 4.00
2433 5509 4.129148 GCCGGGGCAAATCCTCCT 62.129 66.667 2.18 0.00 41.49 3.69
2632 5708 5.004726 GCGCCTGCAAGAAATAATTAACTTG 59.995 40.000 17.93 17.93 42.15 3.16
2665 5741 2.361757 TCATCCAACACCAAACTTGCAG 59.638 45.455 0.00 0.00 0.00 4.41
2705 5782 9.798994 GTAGCAACACAAGTACATTATACTAGT 57.201 33.333 0.00 0.00 0.00 2.57
2706 5783 8.955002 CGTAGCAACACAAGTACATTATACTAG 58.045 37.037 0.00 0.00 0.00 2.57
2731 5808 5.412594 AGTTCATTTATATGCATGTAGCCCG 59.587 40.000 10.16 0.00 44.83 6.13
2754 5831 6.090358 ACCGTAACAACGACATCTTTATTCAG 59.910 38.462 0.00 0.00 34.64 3.02
2755 5832 5.927689 ACCGTAACAACGACATCTTTATTCA 59.072 36.000 0.00 0.00 34.64 2.57
2763 5840 1.967762 TCGACCGTAACAACGACATC 58.032 50.000 0.00 0.00 34.64 3.06
2764 5841 2.420628 TTCGACCGTAACAACGACAT 57.579 45.000 0.00 0.00 34.59 3.06
2765 5842 2.030893 AGATTCGACCGTAACAACGACA 60.031 45.455 0.00 0.00 34.59 4.35
2776 5858 3.775202 ACAGAGAAATGAGATTCGACCG 58.225 45.455 0.00 0.00 34.46 4.79
2794 5876 3.313012 TGATGTCCAAACCGTAGACAG 57.687 47.619 0.00 0.00 43.30 3.51
2819 5901 6.014840 AGGAAAATTCTAGTAGTGTGGACGAA 60.015 38.462 0.00 0.00 0.00 3.85
2820 5902 5.479375 AGGAAAATTCTAGTAGTGTGGACGA 59.521 40.000 0.00 0.00 0.00 4.20
2823 5905 7.554959 AAGAGGAAAATTCTAGTAGTGTGGA 57.445 36.000 0.00 0.00 0.00 4.02
2913 5995 3.434299 CACGTTTTTGCCGAGTTAGGTAT 59.566 43.478 0.00 0.00 0.00 2.73
3026 6108 2.142357 GAACCCCTTTTGCCGAGTGC 62.142 60.000 0.00 0.00 41.77 4.40
3072 6155 4.164843 TGCAGTTTAACAAAGACCTCCT 57.835 40.909 0.00 0.00 0.00 3.69
3075 6158 6.062095 ACACTATGCAGTTTAACAAAGACCT 58.938 36.000 0.00 0.00 30.46 3.85
3129 6214 1.803334 TGATTTTTGGACCGTCCTCG 58.197 50.000 18.54 0.00 37.46 4.63
3132 6217 4.048504 CAACTTTGATTTTTGGACCGTCC 58.951 43.478 10.96 10.96 36.96 4.79
3276 6364 6.748132 ACCATTATAATAAACCATGCAGTGC 58.252 36.000 8.58 8.58 0.00 4.40
3340 6429 9.435688 AAATAGGAAACTTTATTTGGCAACATC 57.564 29.630 0.00 0.00 45.86 3.06
3415 6511 7.532682 TTTTTGTACTTGCTTCACAAAATCC 57.467 32.000 11.35 0.00 46.04 3.01
3417 6513 8.715191 TGATTTTTGTACTTGCTTCACAAAAT 57.285 26.923 11.35 0.00 46.04 1.82


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

AutoCloner maintained by Alex Coulton.