Multiple sequence alignment - TraesCS6B01G214600

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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 TraesCS6B01G214600 chr6B 100.000 2891 0 0 1 2891 289936197 289933307 0.000000e+00 5339
1 TraesCS6B01G214600 chr6A 91.220 1902 82 25 276 2152 218128566 218126725 0.000000e+00 2508
2 TraesCS6B01G214600 chr6A 82.438 484 62 8 2429 2891 218120066 218119585 4.490000e-108 401
3 TraesCS6B01G214600 chr6D 93.470 1562 67 21 533 2072 159597330 159595782 0.000000e+00 2287
4 TraesCS6B01G214600 chr6D 84.504 484 52 12 2429 2891 159595408 159594927 9.440000e-125 457
5 TraesCS6B01G214600 chr6D 90.406 271 23 3 1 269 159601482 159601213 1.270000e-93 353
6 TraesCS6B01G214600 chr6D 88.889 153 13 3 316 468 159598693 159598545 4.920000e-43 185
7 TraesCS6B01G214600 chr5B 80.540 704 98 19 2222 2889 58624237 58623537 3.320000e-139 505
8 TraesCS6B01G214600 chr5B 78.440 218 44 3 2215 2431 592615887 592616102 3.880000e-29 139
9 TraesCS6B01G214600 chr4D 77.680 905 144 28 2030 2891 490009646 490008757 1.550000e-137 499
10 TraesCS6B01G214600 chr3D 77.630 903 142 30 2031 2891 131573877 131572993 7.200000e-136 494
11 TraesCS6B01G214600 chr2D 77.371 875 129 28 2058 2890 540188975 540188128 3.400000e-124 455
12 TraesCS6B01G214600 chr2D 78.964 618 94 18 2031 2628 234155336 234155937 3.490000e-104 388
13 TraesCS6B01G214600 chr2B 76.275 902 150 30 2031 2891 273119676 273120554 3.440000e-114 422
14 TraesCS6B01G214600 chr4A 76.325 849 142 30 2043 2848 695604020 695603188 1.610000e-107 399
15 TraesCS6B01G214600 chr4A 73.323 641 127 18 2242 2844 649023431 649022797 2.270000e-46 196
16 TraesCS6B01G214600 chr5D 76.238 808 131 28 2121 2889 446189708 446190493 3.520000e-99 372
17 TraesCS6B01G214600 chr2A 76.699 618 106 22 2031 2628 321183811 321184410 2.800000e-80 309
18 TraesCS6B01G214600 chr1B 74.576 413 81 14 2238 2632 389300676 389301082 2.980000e-35 159


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 TraesCS6B01G214600 chr6B 289933307 289936197 2890 True 5339.0 5339 100.00000 1 2891 1 chr6B.!!$R1 2890
1 TraesCS6B01G214600 chr6A 218126725 218128566 1841 True 2508.0 2508 91.22000 276 2152 1 chr6A.!!$R2 1876
2 TraesCS6B01G214600 chr6D 159594927 159601482 6555 True 820.5 2287 89.31725 1 2891 4 chr6D.!!$R1 2890
3 TraesCS6B01G214600 chr5B 58623537 58624237 700 True 505.0 505 80.54000 2222 2889 1 chr5B.!!$R1 667
4 TraesCS6B01G214600 chr4D 490008757 490009646 889 True 499.0 499 77.68000 2030 2891 1 chr4D.!!$R1 861
5 TraesCS6B01G214600 chr3D 131572993 131573877 884 True 494.0 494 77.63000 2031 2891 1 chr3D.!!$R1 860
6 TraesCS6B01G214600 chr2D 540188128 540188975 847 True 455.0 455 77.37100 2058 2890 1 chr2D.!!$R1 832
7 TraesCS6B01G214600 chr2D 234155336 234155937 601 False 388.0 388 78.96400 2031 2628 1 chr2D.!!$F1 597
8 TraesCS6B01G214600 chr2B 273119676 273120554 878 False 422.0 422 76.27500 2031 2891 1 chr2B.!!$F1 860
9 TraesCS6B01G214600 chr4A 695603188 695604020 832 True 399.0 399 76.32500 2043 2848 1 chr4A.!!$R2 805
10 TraesCS6B01G214600 chr5D 446189708 446190493 785 False 372.0 372 76.23800 2121 2889 1 chr5D.!!$F1 768
11 TraesCS6B01G214600 chr2A 321183811 321184410 599 False 309.0 309 76.69900 2031 2628 1 chr2A.!!$F1 597

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
977 4616 0.249699 TCTGTTCACCGCACACGATT 60.25 50.0 0.0 0.0 43.93 3.34 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2823 6586 0.035458 GTGCCCTGCAGTACTTGACT 59.965 55.0 13.81 0.0 40.08 3.41 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
48 49 3.674997 TCTCTTTTGTAGTGGGTCATGC 58.325 45.455 0.00 0.00 0.00 4.06
50 51 3.146066 TCTTTTGTAGTGGGTCATGCAC 58.854 45.455 0.00 0.00 0.00 4.57
63 64 7.067494 AGTGGGTCATGCACTTAAAATCTATTC 59.933 37.037 0.00 0.00 0.00 1.75
66 67 9.289782 GGGTCATGCACTTAAAATCTATTCTAT 57.710 33.333 0.00 0.00 0.00 1.98
81 82 6.131264 TCTATTCTATCACCTTCACGGGTTA 58.869 40.000 0.00 0.00 37.52 2.85
86 87 2.156098 TCACCTTCACGGGTTATTTGC 58.844 47.619 0.00 0.00 37.52 3.68
90 91 1.533731 CTTCACGGGTTATTTGCGTGT 59.466 47.619 0.00 0.00 33.05 4.49
109 111 6.526325 TGCGTGTAATTCAAAGTATTCATTGC 59.474 34.615 0.00 0.00 0.00 3.56
118 120 4.322057 AAGTATTCATTGCCTTGTCCCT 57.678 40.909 0.00 0.00 0.00 4.20
128 130 1.407025 GCCTTGTCCCTGGCTACTAAC 60.407 57.143 0.00 0.00 45.26 2.34
148 150 2.237392 ACTCAGTTAGGCATGGAAGACC 59.763 50.000 0.00 0.00 0.00 3.85
162 164 3.458118 TGGAAGACCAGGAGTTTGAAGAA 59.542 43.478 0.00 0.00 41.77 2.52
177 179 5.533533 TTGAAGAAAAGTTTTCGACGACA 57.466 34.783 19.92 14.07 0.00 4.35
184 186 1.071071 AGTTTTCGACGACATCCCCAA 59.929 47.619 0.00 0.00 0.00 4.12
194 196 2.450476 GACATCCCCAATCAGTTTGCT 58.550 47.619 0.00 0.00 33.73 3.91
198 200 0.388907 CCCCAATCAGTTTGCTTGCG 60.389 55.000 0.00 0.00 33.73 4.85
199 201 1.010419 CCCAATCAGTTTGCTTGCGC 61.010 55.000 0.00 0.00 33.73 6.09
211 213 1.058057 GCTTGCGCGGTTAACGAAAG 61.058 55.000 8.83 0.00 46.81 2.62
265 267 1.065401 TCCGCTGCTTGTGTTTCTTTG 59.935 47.619 0.00 0.00 0.00 2.77
284 2720 3.361281 TGAAGACTAACTCCGAGGCTA 57.639 47.619 0.00 0.00 29.69 3.93
388 2863 2.222678 GCGATGCACACTGATTATGAGG 59.777 50.000 0.00 0.00 0.00 3.86
392 2867 3.599343 TGCACACTGATTATGAGGTCAC 58.401 45.455 0.00 0.00 0.00 3.67
479 4010 3.124297 CAGCGTTTCTTAGCTTTCCTCTG 59.876 47.826 0.00 0.00 42.52 3.35
626 4249 0.830444 AGGCCAGACTACCAACGTCA 60.830 55.000 5.01 0.00 33.89 4.35
853 4481 1.302285 CATTCTGTGGGCCAGCTCT 59.698 57.895 6.40 0.00 41.25 4.09
861 4491 2.105930 GGCCAGCTCTACTGCTCG 59.894 66.667 0.00 0.00 45.78 5.03
903 4542 0.748450 GTATAGCACTGGCCCGTGTA 59.252 55.000 25.78 17.30 42.56 2.90
910 4549 1.682684 CTGGCCCGTGTACTCTCCT 60.683 63.158 0.00 0.00 0.00 3.69
921 4560 4.677250 CGTGTACTCTCCTATTTGGACACC 60.677 50.000 0.00 0.00 40.56 4.16
926 4565 2.027192 TCTCCTATTTGGACACCAGTGC 60.027 50.000 0.00 0.00 40.56 4.40
940 4579 1.164411 CAGTGCTCGTCTCAGAGTCT 58.836 55.000 0.00 0.00 40.26 3.24
944 4583 1.271652 TGCTCGTCTCAGAGTCTTCCT 60.272 52.381 0.00 0.00 40.26 3.36
946 4585 1.663643 CTCGTCTCAGAGTCTTCCTCG 59.336 57.143 0.00 0.00 45.44 4.63
947 4586 1.275573 TCGTCTCAGAGTCTTCCTCGA 59.724 52.381 0.00 0.00 45.44 4.04
977 4616 0.249699 TCTGTTCACCGCACACGATT 60.250 50.000 0.00 0.00 43.93 3.34
983 4622 1.447838 ACCGCACACGATTAGCAGG 60.448 57.895 0.00 0.00 43.93 4.85
1028 4667 1.082561 CGACGACGACGACAAGGAA 60.083 57.895 15.32 0.00 42.66 3.36
1189 4828 1.352352 AGTCAGCCTGCATAACCTTGT 59.648 47.619 0.00 0.00 0.00 3.16
1194 4834 0.625849 CCTGCATAACCTTGTCCCCT 59.374 55.000 0.00 0.00 0.00 4.79
1254 4894 7.604657 TTTCCTTGTTTAATTTCCTAAGCCA 57.395 32.000 0.00 0.00 0.00 4.75
1267 4907 9.449719 AATTTCCTAAGCCATATATAACTTCGG 57.550 33.333 9.54 9.54 0.00 4.30
1659 5304 2.592993 GGAGCTGGTGTACCTGGCA 61.593 63.158 16.92 0.00 37.70 4.92
1711 5356 0.320697 GGTGTGCTCCTACTTCGGTT 59.679 55.000 0.00 0.00 0.00 4.44
1880 5525 4.112341 GCAGGCGCAAGAGCAAGG 62.112 66.667 10.83 0.00 42.27 3.61
1881 5526 2.359107 CAGGCGCAAGAGCAAGGA 60.359 61.111 10.83 0.00 42.27 3.36
1882 5527 2.359230 AGGCGCAAGAGCAAGGAC 60.359 61.111 10.83 0.00 42.27 3.85
1883 5528 3.793144 GGCGCAAGAGCAAGGACG 61.793 66.667 10.83 0.00 42.27 4.79
1933 5578 2.102420 TCGCTGATATTTGGACCATCGT 59.898 45.455 0.00 0.00 0.00 3.73
1934 5579 2.872245 CGCTGATATTTGGACCATCGTT 59.128 45.455 0.00 0.00 0.00 3.85
1935 5580 3.059597 CGCTGATATTTGGACCATCGTTC 60.060 47.826 0.00 0.00 0.00 3.95
1936 5581 3.059597 GCTGATATTTGGACCATCGTTCG 60.060 47.826 0.00 0.00 0.00 3.95
1994 5651 5.507315 CCTTGGTTTTCTTTACGAATGCTGT 60.507 40.000 0.00 0.00 0.00 4.40
2026 5683 9.010029 GGAGGAGAAATGTTGTGAAATAAACTA 57.990 33.333 0.00 0.00 0.00 2.24
2155 5820 8.696374 CAATACACTATACAGAGGAGAAAGGAA 58.304 37.037 0.00 0.00 0.00 3.36
2161 5826 1.001406 CAGAGGAGAAAGGAAGCGTGT 59.999 52.381 0.00 0.00 0.00 4.49
2162 5827 1.001406 AGAGGAGAAAGGAAGCGTGTG 59.999 52.381 0.00 0.00 0.00 3.82
2164 5829 1.001406 AGGAGAAAGGAAGCGTGTGAG 59.999 52.381 0.00 0.00 0.00 3.51
2167 5832 2.476997 GAGAAAGGAAGCGTGTGAGAAC 59.523 50.000 0.00 0.00 0.00 3.01
2185 5850 8.594881 GTGAGAACACATAACCCTAATCTATG 57.405 38.462 0.00 0.00 45.32 2.23
2188 5853 4.894784 ACACATAACCCTAATCTATGCGG 58.105 43.478 0.00 0.00 0.00 5.69
2195 5860 3.192844 ACCCTAATCTATGCGGACATACG 59.807 47.826 0.00 0.00 37.74 3.06
2210 5882 2.114488 ATACGCGTTCAACACCCCCA 62.114 55.000 20.78 0.00 0.00 4.96
2213 5885 2.596338 CGTTCAACACCCCCACCC 60.596 66.667 0.00 0.00 0.00 4.61
2215 5887 2.700322 TTCAACACCCCCACCCCA 60.700 61.111 0.00 0.00 0.00 4.96
2217 5889 3.507713 CAACACCCCCACCCCACT 61.508 66.667 0.00 0.00 0.00 4.00
2218 5890 3.182996 AACACCCCCACCCCACTC 61.183 66.667 0.00 0.00 0.00 3.51
2260 5934 0.531974 GTGACGCAGAAACTGGACCA 60.532 55.000 0.00 0.00 31.21 4.02
2268 5942 3.857010 GCAGAAACTGGACCAAAATTCCG 60.857 47.826 0.00 0.00 35.70 4.30
2335 6011 0.391130 TGAGCGGTAGGAACATGCAC 60.391 55.000 0.00 0.00 32.59 4.57
2356 6038 2.306255 ATTCGTATCCGGCCAAGCGT 62.306 55.000 2.24 0.00 33.95 5.07
2383 6065 6.655003 ACCTGTTCATGAACGAAGTGAATATT 59.345 34.615 28.55 4.40 45.00 1.28
2386 6068 8.093659 TGTTCATGAACGAAGTGAATATTGAA 57.906 30.769 28.55 6.99 45.00 2.69
2391 6073 5.347635 TGAACGAAGTGAATATTGAACTCGG 59.652 40.000 10.27 5.02 45.00 4.63
2424 6106 4.346709 TCTGGCGATGATGAATAGGGTTAA 59.653 41.667 0.00 0.00 0.00 2.01
2427 6109 4.304110 GCGATGATGAATAGGGTTAACGA 58.696 43.478 0.00 0.00 0.00 3.85
2480 6225 0.179215 GGACATCGCAAAGCAACTCG 60.179 55.000 0.00 0.00 0.00 4.18
2502 6247 3.507622 GTGAAGGAGTTGCTAAAGCCAAT 59.492 43.478 0.00 0.00 41.18 3.16
2579 6324 3.818773 AGGAAACTATGGGTTGTCGTTTG 59.181 43.478 0.00 0.00 40.61 2.93
2632 6377 1.795286 GACGCAATAGCCTGATGTAGC 59.205 52.381 0.00 0.00 37.52 3.58
2638 6401 1.866015 TAGCCTGATGTAGCACCAGT 58.134 50.000 0.00 0.00 0.00 4.00
2651 6414 0.668706 CACCAGTCCAGTCAGCTTCG 60.669 60.000 0.00 0.00 0.00 3.79
2699 6462 2.352422 GCCATCAGTGTGAGCCCA 59.648 61.111 0.00 0.00 0.00 5.36
2742 6505 7.552687 TGAATATAACAAAGAATCCGCTTCACT 59.447 33.333 0.00 0.00 36.24 3.41
2747 6510 0.466124 AGAATCCGCTTCACTAGGGC 59.534 55.000 0.00 0.00 36.24 5.19
2753 6516 0.468226 CGCTTCACTAGGGCCCAATA 59.532 55.000 27.56 7.70 0.00 1.90
2759 6522 2.127708 CACTAGGGCCCAATAGGAGTT 58.872 52.381 27.56 1.16 38.24 3.01
2760 6523 2.104963 CACTAGGGCCCAATAGGAGTTC 59.895 54.545 27.56 0.00 38.24 3.01
2788 6551 3.875727 AGCATGCATATGAAGACACACTC 59.124 43.478 21.98 0.00 36.36 3.51
2802 6565 2.159240 ACACACTCGATGCACGACATAT 60.159 45.455 7.20 0.00 46.45 1.78
2823 6586 2.975265 TAGGTCCGGGCGAGTGAGA 61.975 63.158 0.00 0.00 0.00 3.27
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
19 20 5.605488 ACCCACTACAAAAGAGAGGTTCTTA 59.395 40.000 0.00 0.00 45.41 2.10
38 39 6.699575 ATAGATTTTAAGTGCATGACCCAC 57.300 37.500 0.00 0.00 0.00 4.61
63 64 4.035208 GCAAATAACCCGTGAAGGTGATAG 59.965 45.833 0.00 0.00 40.05 2.08
66 67 2.156098 GCAAATAACCCGTGAAGGTGA 58.844 47.619 0.00 0.00 40.05 4.02
74 75 3.752222 TGAATTACACGCAAATAACCCGT 59.248 39.130 0.00 0.00 35.29 5.28
81 82 9.638239 AATGAATACTTTGAATTACACGCAAAT 57.362 25.926 0.00 0.00 31.85 2.32
86 87 7.250569 AGGCAATGAATACTTTGAATTACACG 58.749 34.615 0.00 0.00 34.47 4.49
90 91 8.250332 GGACAAGGCAATGAATACTTTGAATTA 58.750 33.333 0.00 0.00 34.47 1.40
109 111 2.168728 GAGTTAGTAGCCAGGGACAAGG 59.831 54.545 0.00 0.00 0.00 3.61
118 120 3.437213 TGCCTAACTGAGTTAGTAGCCA 58.563 45.455 25.70 15.97 42.56 4.75
128 130 2.237143 TGGTCTTCCATGCCTAACTGAG 59.763 50.000 0.00 0.00 39.03 3.35
148 150 6.469275 GTCGAAAACTTTTCTTCAAACTCCTG 59.531 38.462 11.59 0.00 0.00 3.86
151 153 6.192318 GTCGTCGAAAACTTTTCTTCAAACTC 59.808 38.462 11.59 0.00 0.00 3.01
152 154 6.019762 GTCGTCGAAAACTTTTCTTCAAACT 58.980 36.000 11.59 0.00 0.00 2.66
153 155 5.791480 TGTCGTCGAAAACTTTTCTTCAAAC 59.209 36.000 11.59 5.25 0.00 2.93
162 164 2.148768 GGGGATGTCGTCGAAAACTTT 58.851 47.619 0.00 0.00 0.00 2.66
177 179 1.551883 GCAAGCAAACTGATTGGGGAT 59.448 47.619 6.75 0.00 43.35 3.85
194 196 0.042013 CACTTTCGTTAACCGCGCAA 60.042 50.000 8.75 0.00 36.19 4.85
198 200 3.061697 CCTATGTCACTTTCGTTAACCGC 59.938 47.826 0.00 0.00 36.19 5.68
199 201 4.240096 ACCTATGTCACTTTCGTTAACCG 58.760 43.478 0.00 0.00 38.13 4.44
265 267 6.578163 AATATAGCCTCGGAGTTAGTCTTC 57.422 41.667 4.02 0.00 0.00 2.87
354 2829 1.261989 GCATCGCGTACAACGAACTA 58.738 50.000 5.77 0.00 46.05 2.24
355 2830 0.665068 TGCATCGCGTACAACGAACT 60.665 50.000 5.77 0.00 46.05 3.01
388 2863 6.033831 CCATCGATTTTAAATGCAACAGTGAC 59.966 38.462 0.00 0.00 0.00 3.67
392 2867 4.268405 GGCCATCGATTTTAAATGCAACAG 59.732 41.667 0.00 0.00 0.00 3.16
451 3206 5.334879 GGAAAGCTAAGAAACGCTGAAATCA 60.335 40.000 0.00 0.00 36.45 2.57
479 4010 1.296056 CGGTGTGTGAAACGGGATCC 61.296 60.000 1.92 1.92 42.39 3.36
579 4202 2.507547 GGATTACACGCGGCGTCA 60.508 61.111 26.96 13.78 38.32 4.35
626 4249 1.221840 GGGACGGATCACACATGCT 59.778 57.895 0.00 0.00 0.00 3.79
810 4438 3.114616 CGTGGAGCTGCAGGAACG 61.115 66.667 21.73 11.65 0.00 3.95
861 4491 1.222936 CCCCCTCATGTGAGTGCTC 59.777 63.158 9.03 0.00 40.48 4.26
891 4530 1.982938 GGAGAGTACACGGGCCAGT 60.983 63.158 4.39 2.79 0.00 4.00
910 4549 1.346395 ACGAGCACTGGTGTCCAAATA 59.654 47.619 2.64 0.00 30.80 1.40
921 4560 1.164411 AGACTCTGAGACGAGCACTG 58.836 55.000 12.44 0.00 34.35 3.66
926 4565 1.663643 CGAGGAAGACTCTGAGACGAG 59.336 57.143 12.44 0.00 44.33 4.18
940 4579 2.362120 GAGGTCCGGGTCGAGGAA 60.362 66.667 0.00 0.00 39.84 3.36
944 4583 2.045242 CAGAGAGGTCCGGGTCGA 60.045 66.667 0.00 0.00 0.00 4.20
946 4585 0.898789 TGAACAGAGAGGTCCGGGTC 60.899 60.000 0.00 0.00 30.86 4.46
947 4586 1.155390 TGAACAGAGAGGTCCGGGT 59.845 57.895 0.00 0.00 30.86 5.28
1017 4656 1.258676 AGGGTCTCTTCCTTGTCGTC 58.741 55.000 0.00 0.00 0.00 4.20
1018 4657 1.718280 AAGGGTCTCTTCCTTGTCGT 58.282 50.000 0.00 0.00 42.51 4.34
1040 4679 4.899239 GCGCCATCTCAGGGACCG 62.899 72.222 0.00 0.00 0.00 4.79
1199 4839 4.090761 ACAGGAGCAGAATTCAGAAACA 57.909 40.909 8.44 0.00 0.00 2.83
1200 4840 6.549952 CATAACAGGAGCAGAATTCAGAAAC 58.450 40.000 8.44 0.00 0.00 2.78
1201 4841 5.124457 GCATAACAGGAGCAGAATTCAGAAA 59.876 40.000 8.44 0.00 0.00 2.52
1210 4850 0.036483 TTGCGCATAACAGGAGCAGA 60.036 50.000 12.75 0.00 41.91 4.26
1254 4894 9.640963 GTTTAGAGCACATCCGAAGTTATATAT 57.359 33.333 0.00 0.00 0.00 0.86
1267 4907 5.682862 CACACTTGTTTGTTTAGAGCACATC 59.317 40.000 0.00 0.00 0.00 3.06
1880 5525 3.223435 TGGATCATCCTCTACCTTCGTC 58.777 50.000 4.96 0.00 37.46 4.20
1881 5526 3.314307 TGGATCATCCTCTACCTTCGT 57.686 47.619 4.96 0.00 37.46 3.85
1882 5527 3.829026 TCATGGATCATCCTCTACCTTCG 59.171 47.826 4.96 0.00 37.46 3.79
1883 5528 5.483231 TCATCATGGATCATCCTCTACCTTC 59.517 44.000 4.96 0.00 37.46 3.46
1933 5578 4.557695 GCCAACCATTGACACATAAACGAA 60.558 41.667 0.00 0.00 0.00 3.85
1934 5579 3.057876 GCCAACCATTGACACATAAACGA 60.058 43.478 0.00 0.00 0.00 3.85
1935 5580 3.241701 GCCAACCATTGACACATAAACG 58.758 45.455 0.00 0.00 0.00 3.60
1936 5581 3.057876 TCGCCAACCATTGACACATAAAC 60.058 43.478 0.00 0.00 0.00 2.01
1994 5651 3.568007 CACAACATTTCTCCTCCCGAAAA 59.432 43.478 0.00 0.00 34.42 2.29
2040 5697 2.564947 TGGCACACAACCTCAACTTTTT 59.435 40.909 0.00 0.00 0.00 1.94
2041 5698 2.175202 TGGCACACAACCTCAACTTTT 58.825 42.857 0.00 0.00 0.00 2.27
2091 5751 5.182760 CCGAGGTACCCTTGTATCTGTATAC 59.817 48.000 8.74 0.00 38.55 1.47
2096 5756 1.068741 GCCGAGGTACCCTTGTATCTG 59.931 57.143 8.74 0.00 38.55 2.90
2099 5759 1.485066 CAAGCCGAGGTACCCTTGTAT 59.515 52.381 8.74 0.00 33.27 2.29
2130 5795 8.840200 TTCCTTTCTCCTCTGTATAGTGTATT 57.160 34.615 0.00 0.00 0.00 1.89
2161 5826 7.217200 GCATAGATTAGGGTTATGTGTTCTCA 58.783 38.462 0.00 0.00 0.00 3.27
2162 5827 6.366332 CGCATAGATTAGGGTTATGTGTTCTC 59.634 42.308 0.00 0.00 33.06 2.87
2164 5829 5.408604 CCGCATAGATTAGGGTTATGTGTTC 59.591 44.000 0.00 0.00 34.89 3.18
2167 5832 4.929808 GTCCGCATAGATTAGGGTTATGTG 59.070 45.833 0.00 0.00 35.89 3.21
2172 5837 4.321750 CGTATGTCCGCATAGATTAGGGTT 60.322 45.833 0.00 0.00 38.17 4.11
2188 5853 0.441145 GGGTGTTGAACGCGTATGTC 59.559 55.000 14.46 7.45 31.32 3.06
2195 5860 3.292159 GGTGGGGGTGTTGAACGC 61.292 66.667 0.00 0.00 40.94 4.84
2213 5885 2.203972 TTTCGACTACGCCGGAGTGG 62.204 60.000 22.14 20.93 42.50 4.00
2215 5887 1.211190 GTTTCGACTACGCCGGAGT 59.789 57.895 17.10 17.10 39.58 3.85
2217 5889 2.128853 AACGTTTCGACTACGCCGGA 62.129 55.000 5.05 0.00 42.49 5.14
2218 5890 1.730547 AACGTTTCGACTACGCCGG 60.731 57.895 16.60 0.00 42.49 6.13
2219 5891 1.409579 CAACGTTTCGACTACGCCG 59.590 57.895 16.60 6.64 42.49 6.46
2220 5892 1.129209 GCAACGTTTCGACTACGCC 59.871 57.895 16.60 4.85 42.49 5.68
2260 5934 1.472480 CATCCACCTTCGCGGAATTTT 59.528 47.619 6.13 0.00 34.22 1.82
2268 5942 1.079405 TTCCGACATCCACCTTCGC 60.079 57.895 0.00 0.00 0.00 4.70
2356 6038 3.130633 CACTTCGTTCATGAACAGGTCA 58.869 45.455 32.06 13.59 41.20 4.02
2383 6065 0.596600 GACGAAGCACACCGAGTTCA 60.597 55.000 0.00 0.00 0.00 3.18
2386 6068 1.007271 CAGACGAAGCACACCGAGT 60.007 57.895 0.00 0.00 0.00 4.18
2435 6180 1.434555 CCATGGTCGTTTACTGCGAA 58.565 50.000 2.57 0.00 40.19 4.70
2480 6225 2.504367 TGGCTTTAGCAACTCCTTCAC 58.496 47.619 3.88 0.00 44.36 3.18
2502 6247 0.531090 AACGTTGTTGCCGAGTGCTA 60.531 50.000 0.00 0.00 42.00 3.49
2556 6301 3.329929 ACGACAACCCATAGTTTCCTC 57.670 47.619 0.00 0.00 36.18 3.71
2579 6324 1.272490 TCACTGATCTCGTGGTTGTCC 59.728 52.381 13.35 0.00 33.31 4.02
2632 6377 0.668706 CGAAGCTGACTGGACTGGTG 60.669 60.000 0.00 0.00 0.00 4.17
2638 6401 1.819288 CTTACTCCGAAGCTGACTGGA 59.181 52.381 0.00 0.00 0.00 3.86
2651 6414 1.139095 CGACCTCGTGGCTTACTCC 59.861 63.158 2.76 0.00 36.63 3.85
2699 6462 1.973281 CACGGCACCATGGCTCTTT 60.973 57.895 13.04 0.00 41.25 2.52
2742 6505 1.010294 TGGAACTCCTATTGGGCCCTA 59.990 52.381 25.70 17.71 36.82 3.53
2747 6510 1.139058 CTCCGTGGAACTCCTATTGGG 59.861 57.143 0.00 0.00 36.82 4.12
2753 6516 1.599047 CATGCTCCGTGGAACTCCT 59.401 57.895 0.00 0.00 36.82 3.69
2759 6522 0.758123 TCATATGCATGCTCCGTGGA 59.242 50.000 20.33 6.27 31.73 4.02
2760 6523 1.534163 CTTCATATGCATGCTCCGTGG 59.466 52.381 20.33 3.88 31.73 4.94
2788 6551 3.381045 ACCTACAATATGTCGTGCATCG 58.619 45.455 0.00 0.00 38.94 3.84
2802 6565 2.283388 ACTCGCCCGGACCTACAA 60.283 61.111 0.73 0.00 0.00 2.41
2823 6586 0.035458 GTGCCCTGCAGTACTTGACT 59.965 55.000 13.81 0.00 40.08 3.41
2848 6611 5.286797 CACCAGATGCAACATTTTATCGTTG 59.713 40.000 0.00 0.00 44.26 4.10
2849 6612 5.401550 CACCAGATGCAACATTTTATCGTT 58.598 37.500 0.00 0.00 0.00 3.85
2850 6613 4.985413 CACCAGATGCAACATTTTATCGT 58.015 39.130 0.00 0.00 0.00 3.73


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

AutoCloner maintained by Alex Coulton.