Multiple sequence alignment - TraesCS2A01G247300

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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 TraesCS2A01G247300 chr2A 100.000 3212 0 0 1 3212 365286764 365283553 0.000000e+00 5932.0
1 TraesCS2A01G247300 chr2A 95.374 281 13 0 2932 3212 365112696 365112416 6.320000e-122 448.0
2 TraesCS2A01G247300 chr2D 96.177 2354 78 7 864 3212 292290434 292288088 0.000000e+00 3838.0
3 TraesCS2A01G247300 chr2D 87.195 656 73 6 1 646 292294548 292293894 0.000000e+00 736.0
4 TraesCS2A01G247300 chr2D 94.662 281 15 0 2932 3212 302409045 302409325 1.370000e-118 436.0
5 TraesCS2A01G247300 chr2D 94.306 281 16 0 2932 3212 54531429 54531709 6.370000e-117 431.0
6 TraesCS2A01G247300 chr2D 94.286 280 16 0 2933 3212 54573149 54573428 2.290000e-116 429.0
7 TraesCS2A01G247300 chr2D 95.918 147 6 0 725 871 292291516 292291370 4.140000e-59 239.0
8 TraesCS2A01G247300 chr2D 76.147 218 43 6 38 252 73188975 73189186 4.380000e-19 106.0
9 TraesCS2A01G247300 chr2D 76.871 147 30 4 2786 2929 425480608 425480463 2.660000e-11 80.5
10 TraesCS2A01G247300 chr2B 96.135 1837 57 8 511 2343 368616381 368614555 0.000000e+00 2987.0
11 TraesCS2A01G247300 chr2B 91.222 581 47 4 2439 3018 368614528 368613951 0.000000e+00 787.0
12 TraesCS2A01G247300 chr2B 83.012 518 53 15 2 508 368618806 368618313 1.370000e-118 436.0
13 TraesCS2A01G247300 chr2B 93.380 287 19 0 2926 3212 315819336 315819622 2.960000e-115 425.0
14 TraesCS2A01G247300 chr5D 94.662 281 15 0 2932 3212 292712192 292711912 1.370000e-118 436.0
15 TraesCS2A01G247300 chr5D 91.176 68 6 0 2421 2488 393749933 393750000 3.410000e-15 93.5
16 TraesCS2A01G247300 chr5D 82.051 117 8 5 2423 2538 482115123 482115019 1.590000e-13 87.9
17 TraesCS2A01G247300 chr5B 94.306 281 16 0 2932 3212 122759585 122759865 6.370000e-117 431.0
18 TraesCS2A01G247300 chr5B 81.250 80 14 1 2545 2624 282269439 282269517 2.680000e-06 63.9
19 TraesCS2A01G247300 chr5A 93.728 287 18 0 2926 3212 241275579 241275865 6.370000e-117 431.0
20 TraesCS2A01G247300 chr7A 88.976 127 12 2 2421 2546 341444519 341444394 4.290000e-34 156.0
21 TraesCS2A01G247300 chr7A 80.000 130 23 3 2786 2913 688152939 688153067 3.410000e-15 93.5
22 TraesCS2A01G247300 chr7A 82.796 93 12 4 2789 2878 543722241 543722332 2.660000e-11 80.5
23 TraesCS2A01G247300 chr1D 84.000 125 19 1 2423 2546 27880296 27880420 5.630000e-23 119.0
24 TraesCS2A01G247300 chrUn 86.207 87 10 2 2544 2629 26591613 26591528 3.410000e-15 93.5
25 TraesCS2A01G247300 chrUn 84.058 69 10 1 2780 2848 296175144 296175077 7.440000e-07 65.8
26 TraesCS2A01G247300 chr4D 79.130 115 24 0 2788 2902 107443786 107443672 2.660000e-11 80.5
27 TraesCS2A01G247300 chr4D 83.133 83 13 1 2770 2851 57017751 57017669 1.240000e-09 75.0
28 TraesCS2A01G247300 chr4D 84.615 65 10 0 2786 2850 108913475 108913539 7.440000e-07 65.8


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 TraesCS2A01G247300 chr2A 365283553 365286764 3211 True 5932.000000 5932 100.000000 1 3212 1 chr2A.!!$R2 3211
1 TraesCS2A01G247300 chr2D 292288088 292294548 6460 True 1604.333333 3838 93.096667 1 3212 3 chr2D.!!$R2 3211
2 TraesCS2A01G247300 chr2B 368613951 368618806 4855 True 1403.333333 2987 90.123000 2 3018 3 chr2B.!!$R1 3016

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
672 4935 0.036732 AGCGGCAAAGATCACTGGAA 59.963 50.000 1.45 0.0 0.0 3.53 F
721 5000 1.229658 ACTGGAGGTGGAGGGGAAG 60.230 63.158 0.00 0.0 0.0 3.46 F
1922 7144 0.968393 GAGACGAGGAGGAGTTGGCT 60.968 60.000 0.00 0.0 0.0 4.75 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1589 6811 0.321653 GACGGGTCATGAGCTTGGTT 60.322 55.000 23.24 4.67 0.00 3.67 R
2012 7234 1.081175 CTGCACGCTCTCGAAGACA 60.081 57.895 0.00 0.00 39.41 3.41 R
2966 8193 0.621082 CCCTCTTTCCCCTCCAAGTC 59.379 60.000 0.00 0.00 0.00 3.01 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 7.120726 GCCGCCTGTCTTGGTATATTTATATTT 59.879 37.037 0.00 0.00 0.00 1.40
86 87 7.843490 TTAGGTTGAATTTGAACTATCTCGG 57.157 36.000 0.00 0.00 0.00 4.63
97 98 1.209747 ACTATCTCGGCCCTTTTGGAC 59.790 52.381 0.00 0.00 44.07 4.02
111 112 5.226396 CCTTTTGGACGAACAAATTGCATA 58.774 37.500 9.37 0.00 44.07 3.14
112 113 5.868801 CCTTTTGGACGAACAAATTGCATAT 59.131 36.000 9.37 0.00 44.07 1.78
114 115 4.630894 TGGACGAACAAATTGCATATCC 57.369 40.909 0.00 0.00 0.00 2.59
115 116 4.269183 TGGACGAACAAATTGCATATCCT 58.731 39.130 0.00 0.00 0.00 3.24
117 118 5.184864 TGGACGAACAAATTGCATATCCTTT 59.815 36.000 0.00 0.00 0.00 3.11
118 119 5.516339 GGACGAACAAATTGCATATCCTTTG 59.484 40.000 0.00 0.00 35.30 2.77
120 121 5.104374 CGAACAAATTGCATATCCTTTGCT 58.896 37.500 0.00 0.00 40.77 3.91
121 122 5.577945 CGAACAAATTGCATATCCTTTGCTT 59.422 36.000 0.00 0.00 40.77 3.91
123 124 7.253750 CGAACAAATTGCATATCCTTTGCTTAC 60.254 37.037 0.00 0.00 40.77 2.34
124 125 6.934056 ACAAATTGCATATCCTTTGCTTACA 58.066 32.000 0.00 0.00 40.77 2.41
142 153 9.440773 TTGCTTACATTTATGCTATCTCTATGG 57.559 33.333 0.00 0.00 31.14 2.74
143 154 8.815912 TGCTTACATTTATGCTATCTCTATGGA 58.184 33.333 0.00 0.00 31.14 3.41
149 160 8.759641 CATTTATGCTATCTCTATGGATTACGC 58.240 37.037 0.00 0.00 0.00 4.42
155 166 5.637006 ATCTCTATGGATTACGCAGACTC 57.363 43.478 0.00 0.00 0.00 3.36
157 168 4.517075 TCTCTATGGATTACGCAGACTCTG 59.483 45.833 1.21 1.21 34.12 3.35
206 217 1.407936 TTGATGGTTGTGGTTGTGGG 58.592 50.000 0.00 0.00 0.00 4.61
211 222 1.534697 GTTGTGGTTGTGGGGAGGA 59.465 57.895 0.00 0.00 0.00 3.71
220 231 0.114168 TGTGGGGAGGACAAATTGGG 59.886 55.000 0.00 0.00 0.00 4.12
227 238 4.093743 GGGAGGACAAATTGGGTATTGTT 58.906 43.478 0.00 0.00 39.73 2.83
230 241 3.192633 AGGACAAATTGGGTATTGTTCGC 59.807 43.478 0.00 0.00 39.53 4.70
238 249 1.635663 GGTATTGTTCGCGCACTGCT 61.636 55.000 10.81 0.00 43.27 4.24
262 273 3.353836 CACGCCCAAACACTCCCG 61.354 66.667 0.00 0.00 0.00 5.14
268 279 3.353836 CAAACACTCCCGCCGGTG 61.354 66.667 8.42 8.42 39.13 4.94
279 290 3.925090 GCCGGTGTATAGGGCGCT 61.925 66.667 7.64 8.86 37.06 5.92
286 297 3.924686 CGGTGTATAGGGCGCTAAATTAG 59.075 47.826 15.12 0.00 0.00 1.73
291 302 7.101700 GTGTATAGGGCGCTAAATTAGGTTAT 58.898 38.462 15.12 0.00 0.00 1.89
318 329 4.101119 GGTTGTAGATGCTCTTAGCCCTTA 59.899 45.833 0.00 0.00 41.51 2.69
322 333 3.814625 AGATGCTCTTAGCCCTTAAAGC 58.185 45.455 0.00 0.00 41.51 3.51
326 337 2.420372 GCTCTTAGCCCTTAAAGCACAC 59.580 50.000 0.45 0.00 34.48 3.82
348 359 2.630158 CTGATGAGCTCAGTTTCCCTG 58.370 52.381 22.96 6.96 45.42 4.45
390 401 4.803426 GCCGGTGGCTCTCGTCAG 62.803 72.222 1.90 0.00 46.69 3.51
420 431 5.396660 GGATGGCTGAGAGAGAAAGAGAAAT 60.397 44.000 0.00 0.00 0.00 2.17
441 452 8.177663 AGAAATTGTACAGCGAGATTTAATGTG 58.822 33.333 0.00 0.00 0.00 3.21
468 479 7.023575 GTGTATAATGGATCGATTTGATTGCC 58.976 38.462 8.34 0.00 37.47 4.52
503 514 3.240203 CGTAGCCGTGGTGTTGTG 58.760 61.111 0.00 0.00 0.00 3.33
505 516 1.227734 GTAGCCGTGGTGTTGTGGT 60.228 57.895 0.00 0.00 0.00 4.16
506 517 1.227704 TAGCCGTGGTGTTGTGGTG 60.228 57.895 0.00 0.00 0.00 4.17
507 518 1.687297 TAGCCGTGGTGTTGTGGTGA 61.687 55.000 0.00 0.00 0.00 4.02
508 519 2.830285 GCCGTGGTGTTGTGGTGAC 61.830 63.158 0.00 0.00 0.00 3.67
509 520 2.184167 CCGTGGTGTTGTGGTGACC 61.184 63.158 0.00 0.00 0.00 4.02
513 2454 3.645975 GTGTTGTGGTGACCGCGG 61.646 66.667 26.86 26.86 36.72 6.46
555 2496 1.323271 GCACGGACTGAGGATGGAGA 61.323 60.000 0.00 0.00 0.00 3.71
619 2560 1.135024 GTTCATGGCGGATGTGCATTT 60.135 47.619 0.00 0.00 36.28 2.32
633 2574 3.953612 TGTGCATTTATGGCTTAAGGGAG 59.046 43.478 4.29 0.00 0.00 4.30
670 4933 0.674581 TGAGCGGCAAAGATCACTGG 60.675 55.000 1.45 0.00 30.95 4.00
672 4935 0.036732 AGCGGCAAAGATCACTGGAA 59.963 50.000 1.45 0.00 0.00 3.53
674 4937 1.522668 CGGCAAAGATCACTGGAACA 58.477 50.000 0.00 0.00 0.00 3.18
705 4984 4.275508 CAGCTGGTGGGTGGCACT 62.276 66.667 18.45 0.00 39.52 4.40
706 4985 4.275508 AGCTGGTGGGTGGCACTG 62.276 66.667 18.45 2.70 0.00 3.66
708 4987 3.569210 CTGGTGGGTGGCACTGGA 61.569 66.667 18.45 0.00 0.00 3.86
709 4988 3.557903 CTGGTGGGTGGCACTGGAG 62.558 68.421 18.45 3.20 0.00 3.86
710 4989 4.351054 GGTGGGTGGCACTGGAGG 62.351 72.222 18.45 0.00 0.00 4.30
711 4990 3.570212 GTGGGTGGCACTGGAGGT 61.570 66.667 18.45 0.00 0.00 3.85
713 4992 4.351054 GGGTGGCACTGGAGGTGG 62.351 72.222 18.45 0.00 45.44 4.61
714 4993 3.249189 GGTGGCACTGGAGGTGGA 61.249 66.667 18.45 0.00 45.44 4.02
715 4994 2.348998 GTGGCACTGGAGGTGGAG 59.651 66.667 11.13 0.00 45.44 3.86
716 4995 2.930019 TGGCACTGGAGGTGGAGG 60.930 66.667 0.00 0.00 45.44 4.30
717 4996 3.721706 GGCACTGGAGGTGGAGGG 61.722 72.222 0.00 0.00 45.44 4.30
718 4997 3.721706 GCACTGGAGGTGGAGGGG 61.722 72.222 0.00 0.00 45.44 4.79
719 4998 2.122729 CACTGGAGGTGGAGGGGA 59.877 66.667 0.00 0.00 41.90 4.81
720 4999 1.538876 CACTGGAGGTGGAGGGGAA 60.539 63.158 0.00 0.00 41.90 3.97
721 5000 1.229658 ACTGGAGGTGGAGGGGAAG 60.230 63.158 0.00 0.00 0.00 3.46
722 5001 2.610859 TGGAGGTGGAGGGGAAGC 60.611 66.667 0.00 0.00 0.00 3.86
723 5002 3.412408 GGAGGTGGAGGGGAAGCC 61.412 72.222 0.00 0.00 0.00 4.35
769 5048 4.498241 GTCAGCTGACAATGATGAGTACA 58.502 43.478 36.23 0.00 44.18 2.90
1339 6561 2.025793 AGTCCAGCTAGCTAGAGTGACA 60.026 50.000 25.15 7.76 0.00 3.58
1340 6562 2.357637 GTCCAGCTAGCTAGAGTGACAG 59.642 54.545 25.15 8.12 0.00 3.51
1589 6811 4.715523 CCGCCGGCCTTCCAGAAA 62.716 66.667 23.46 0.00 0.00 2.52
1922 7144 0.968393 GAGACGAGGAGGAGTTGGCT 60.968 60.000 0.00 0.00 0.00 4.75
1949 7171 2.426183 CGTGAAGAACGCGTCCTCG 61.426 63.158 14.44 11.15 46.99 4.63
2197 7419 2.955660 AGGAAACAATCGAGGCAACAAA 59.044 40.909 0.00 0.00 41.41 2.83
2277 7500 8.734386 AGCTTCTGTTATTATTGTTTCTTCCTG 58.266 33.333 0.00 0.00 0.00 3.86
2279 7502 9.231297 CTTCTGTTATTATTGTTTCTTCCTGGA 57.769 33.333 0.00 0.00 0.00 3.86
2320 7543 4.937015 CCCCCATGAATGTTCACAAAATTC 59.063 41.667 0.00 0.00 40.49 2.17
2368 7591 6.524734 ACCTTCCTTTTGATTTGAATTGTCC 58.475 36.000 0.00 0.00 0.00 4.02
2440 7663 5.181811 ACAATGATAAGTGTCACATGTGTGG 59.818 40.000 24.63 0.02 45.65 4.17
2464 7687 0.951558 AACACATGGCAACTCCGAAC 59.048 50.000 0.00 0.00 37.80 3.95
2473 7696 2.287368 GGCAACTCCGAACGTTTTTCAT 60.287 45.455 0.46 0.00 0.00 2.57
2480 7703 2.217620 CCGAACGTTTTTCATGGCAAAC 59.782 45.455 0.46 9.46 0.00 2.93
2502 7725 7.928307 AACTTAGTGATGCAAGTATGACAAT 57.072 32.000 0.00 0.00 33.92 2.71
2610 7836 1.068610 GTGCATTGTGCCACACGTATT 60.069 47.619 0.00 0.00 44.23 1.89
2747 7973 4.625742 GCTAGCATCTTTTGTTAGACGACA 59.374 41.667 10.63 0.00 40.53 4.35
2748 7974 5.292101 GCTAGCATCTTTTGTTAGACGACAT 59.708 40.000 10.63 0.00 40.53 3.06
2827 8053 6.017192 GGATGGTTAGGAGGACAGTGATATA 58.983 44.000 0.00 0.00 0.00 0.86
2828 8054 6.497259 GGATGGTTAGGAGGACAGTGATATAA 59.503 42.308 0.00 0.00 0.00 0.98
2861 8087 7.695869 ACAGAGTTCAAGTTTTAGACTTACG 57.304 36.000 0.00 0.00 46.75 3.18
2868 8094 5.006941 TCAAGTTTTAGACTTACGTTGGTGC 59.993 40.000 0.00 0.00 46.75 5.01
2878 8105 1.231221 ACGTTGGTGCTCGCATTTTA 58.769 45.000 0.00 0.00 0.00 1.52
2880 8107 1.602191 GTTGGTGCTCGCATTTTACG 58.398 50.000 0.00 0.00 0.00 3.18
2929 8156 1.470098 GCGTCACTAGGAGGAAACGTA 59.530 52.381 0.00 0.00 33.18 3.57
2930 8157 2.098770 GCGTCACTAGGAGGAAACGTAT 59.901 50.000 0.00 0.00 33.18 3.06
2966 8193 8.624776 GTGAAACCCTAAGATGGATATTTTCAG 58.375 37.037 0.00 0.00 0.00 3.02
2991 8218 2.139382 GGAGGGGAAAGAGGGATGAAT 58.861 52.381 0.00 0.00 0.00 2.57
2995 8222 2.224548 GGGGAAAGAGGGATGAATACCG 60.225 54.545 0.00 0.00 35.28 4.02
3010 8237 4.282449 TGAATACCGAGAACACAAAGAGGA 59.718 41.667 0.00 0.00 0.00 3.71
3043 8270 3.903090 ACAAAACCCAATCACACATCCAT 59.097 39.130 0.00 0.00 0.00 3.41
3097 8324 7.425606 AGTACATGAACAATCAAAGGAAACAC 58.574 34.615 0.00 0.00 39.49 3.32
3101 8328 3.078594 ACAATCAAAGGAAACACGCAC 57.921 42.857 0.00 0.00 0.00 5.34
3119 8346 3.306502 CGCACTAGGTAAAGTTCTTCCCA 60.307 47.826 0.00 0.00 0.00 4.37
3165 8392 5.770919 TGATGATAGTCTTCTCCAAGAGGA 58.229 41.667 0.00 0.00 39.45 3.71
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
66 67 4.201920 GGGCCGAGATAGTTCAAATTCAAC 60.202 45.833 0.00 0.00 0.00 3.18
71 72 3.933861 AAGGGCCGAGATAGTTCAAAT 57.066 42.857 0.00 0.00 0.00 2.32
78 79 1.806623 CGTCCAAAAGGGCCGAGATAG 60.807 57.143 0.00 0.00 36.21 2.08
86 87 2.799978 CAATTTGTTCGTCCAAAAGGGC 59.200 45.455 6.39 0.00 37.81 5.19
97 98 5.104374 AGCAAAGGATATGCAATTTGTTCG 58.896 37.500 9.61 0.00 46.22 3.95
111 112 8.930846 AGATAGCATAAATGTAAGCAAAGGAT 57.069 30.769 0.00 0.00 0.00 3.24
112 113 8.213679 AGAGATAGCATAAATGTAAGCAAAGGA 58.786 33.333 0.00 0.00 0.00 3.36
117 118 8.815912 TCCATAGAGATAGCATAAATGTAAGCA 58.184 33.333 0.00 0.00 0.00 3.91
118 119 9.829507 ATCCATAGAGATAGCATAAATGTAAGC 57.170 33.333 0.00 0.00 0.00 3.09
123 124 8.759641 GCGTAATCCATAGAGATAGCATAAATG 58.240 37.037 0.00 0.00 0.00 2.32
124 125 8.478066 TGCGTAATCCATAGAGATAGCATAAAT 58.522 33.333 0.00 0.00 31.08 1.40
142 153 2.656560 ACCACAGAGTCTGCGTAATC 57.343 50.000 20.31 0.00 34.37 1.75
143 154 3.402628 AAACCACAGAGTCTGCGTAAT 57.597 42.857 20.31 6.69 34.37 1.89
149 160 6.618287 TTTCATACAAAACCACAGAGTCTG 57.382 37.500 18.83 18.83 37.52 3.51
155 166 6.249035 ACCGTATTTCATACAAAACCACAG 57.751 37.500 0.00 0.00 35.48 3.66
157 168 8.452534 TGAATACCGTATTTCATACAAAACCAC 58.547 33.333 5.26 0.00 35.48 4.16
175 186 5.576384 CCACAACCATCAAATTTGAATACCG 59.424 40.000 23.91 14.78 41.13 4.02
181 192 5.114780 CACAACCACAACCATCAAATTTGA 58.885 37.500 22.52 22.52 42.14 2.69
182 193 4.272991 CCACAACCACAACCATCAAATTTG 59.727 41.667 12.15 12.15 0.00 2.32
183 194 4.450053 CCACAACCACAACCATCAAATTT 58.550 39.130 0.00 0.00 0.00 1.82
206 217 4.142469 CGAACAATACCCAATTTGTCCTCC 60.142 45.833 0.00 0.00 0.00 4.30
211 222 2.669950 GCGCGAACAATACCCAATTTGT 60.670 45.455 12.10 0.00 0.00 2.83
220 231 4.342964 GCAGTGCGCGAACAATAC 57.657 55.556 21.64 1.11 0.00 1.89
252 263 1.833787 ATACACCGGCGGGAGTGTTT 61.834 55.000 31.78 17.21 44.65 2.83
253 264 0.971959 TATACACCGGCGGGAGTGTT 60.972 55.000 31.78 20.04 44.65 3.32
262 273 2.091102 TTAGCGCCCTATACACCGGC 62.091 60.000 2.29 0.00 39.41 6.13
264 275 2.450609 ATTTAGCGCCCTATACACCG 57.549 50.000 2.29 0.00 0.00 4.94
268 279 7.325694 TGATAACCTAATTTAGCGCCCTATAC 58.674 38.462 2.29 0.00 0.00 1.47
277 288 9.555727 TCTACAACCATGATAACCTAATTTAGC 57.444 33.333 0.00 0.00 0.00 3.09
286 297 5.931441 GAGCATCTACAACCATGATAACC 57.069 43.478 0.00 0.00 0.00 2.85
390 401 3.781770 CTCTCAGCCATCCGTCGCC 62.782 68.421 0.00 0.00 0.00 5.54
420 431 5.699001 ACACACATTAAATCTCGCTGTACAA 59.301 36.000 0.00 0.00 0.00 2.41
441 452 7.535258 GCAATCAAATCGATCCATTATACACAC 59.465 37.037 0.00 0.00 31.11 3.82
468 479 3.027170 GCACTCATGGTCCGCAACG 62.027 63.158 0.00 0.00 0.00 4.10
501 512 3.869473 TTAGTGCCGCGGTCACCAC 62.869 63.158 33.90 28.37 35.14 4.16
502 513 3.166490 TTTAGTGCCGCGGTCACCA 62.166 57.895 33.90 25.07 35.14 4.17
503 514 2.357760 TTTAGTGCCGCGGTCACC 60.358 61.111 33.90 22.41 35.14 4.02
505 516 2.740826 GCTTTAGTGCCGCGGTCA 60.741 61.111 28.70 21.98 0.00 4.02
506 517 3.497031 GGCTTTAGTGCCGCGGTC 61.497 66.667 28.70 19.46 43.74 4.79
513 2454 1.923227 GAACGGCCTGGCTTTAGTGC 61.923 60.000 19.68 8.79 0.00 4.40
555 2496 2.919043 CCGGCCTGGCTTTAGGAT 59.081 61.111 19.68 0.00 40.42 3.24
598 2539 0.680601 ATGCACATCCGCCATGAACA 60.681 50.000 0.00 0.00 36.21 3.18
619 2560 0.179056 GCGTGCTCCCTTAAGCCATA 60.179 55.000 0.00 0.00 41.77 2.74
650 2591 1.376543 CAGTGATCTTTGCCGCTCAT 58.623 50.000 0.00 0.00 0.00 2.90
653 2594 0.036732 TTCCAGTGATCTTTGCCGCT 59.963 50.000 0.00 0.00 0.00 5.52
697 4976 3.249189 TCCACCTCCAGTGCCACC 61.249 66.667 0.00 0.00 45.83 4.61
701 4980 3.721706 CCCCTCCACCTCCAGTGC 61.722 72.222 0.00 0.00 45.83 4.40
702 4981 1.538876 TTCCCCTCCACCTCCAGTG 60.539 63.158 0.00 0.00 46.83 3.66
703 4982 1.229658 CTTCCCCTCCACCTCCAGT 60.230 63.158 0.00 0.00 0.00 4.00
704 4983 2.674220 GCTTCCCCTCCACCTCCAG 61.674 68.421 0.00 0.00 0.00 3.86
705 4984 2.610859 GCTTCCCCTCCACCTCCA 60.611 66.667 0.00 0.00 0.00 3.86
706 4985 3.412408 GGCTTCCCCTCCACCTCC 61.412 72.222 0.00 0.00 0.00 4.30
707 4986 3.787001 CGGCTTCCCCTCCACCTC 61.787 72.222 0.00 0.00 0.00 3.85
712 4991 2.265467 TATTGTGCGGCTTCCCCTCC 62.265 60.000 0.00 0.00 0.00 4.30
713 4992 0.815615 CTATTGTGCGGCTTCCCCTC 60.816 60.000 0.00 0.00 0.00 4.30
714 4993 1.224592 CTATTGTGCGGCTTCCCCT 59.775 57.895 0.00 0.00 0.00 4.79
715 4994 2.481471 GCTATTGTGCGGCTTCCCC 61.481 63.158 0.00 0.00 0.00 4.81
716 4995 3.111038 GCTATTGTGCGGCTTCCC 58.889 61.111 0.00 0.00 0.00 3.97
769 5048 1.264749 TATCACCGTCCTTGCAGCCT 61.265 55.000 0.00 0.00 0.00 4.58
836 5115 2.821366 GATCCAGCACCAGCCACG 60.821 66.667 0.00 0.00 43.56 4.94
888 6110 2.951642 AGTATCCATTTGTTCCCATGCG 59.048 45.455 0.00 0.00 0.00 4.73
1589 6811 0.321653 GACGGGTCATGAGCTTGGTT 60.322 55.000 23.24 4.67 0.00 3.67
1733 6955 1.831652 CGGTGAAGAGGAAGGGCACT 61.832 60.000 0.00 0.00 0.00 4.40
1769 6991 3.458163 CTCTCGGGCTTGCCGGTA 61.458 66.667 16.78 0.00 0.00 4.02
1949 7171 2.677003 CGTGATGTTGCCCGTGGAC 61.677 63.158 0.00 0.00 0.00 4.02
2012 7234 1.081175 CTGCACGCTCTCGAAGACA 60.081 57.895 0.00 0.00 39.41 3.41
2197 7419 9.151471 GATTACTAGATACACACACAAACACAT 57.849 33.333 0.00 0.00 0.00 3.21
2264 7487 4.792068 TGAGTTGTCCAGGAAGAAACAAT 58.208 39.130 11.66 0.00 34.45 2.71
2265 7488 4.229304 TGAGTTGTCCAGGAAGAAACAA 57.771 40.909 11.66 1.12 0.00 2.83
2266 7489 3.924114 TGAGTTGTCCAGGAAGAAACA 57.076 42.857 11.66 0.00 0.00 2.83
2277 7500 5.006386 GGGGATCAATATCATGAGTTGTCC 58.994 45.833 21.31 21.31 33.41 4.02
2279 7502 4.416513 TGGGGGATCAATATCATGAGTTGT 59.583 41.667 18.00 9.49 33.41 3.32
2320 7543 6.927933 AAAACGAAGAAAGTGTCAACAAAG 57.072 33.333 0.00 0.00 0.00 2.77
2415 7638 6.486253 ACACATGTGACACTTATCATTGTC 57.514 37.500 31.94 0.00 42.18 3.18
2440 7663 2.350388 CGGAGTTGCCATGTGTTTGTAC 60.350 50.000 0.00 0.00 35.94 2.90
2464 7687 5.277825 TCACTAAGTTTGCCATGAAAAACG 58.722 37.500 13.96 6.41 40.44 3.60
2473 7696 3.221771 ACTTGCATCACTAAGTTTGCCA 58.778 40.909 0.00 0.00 33.59 4.92
2577 7803 2.490270 AATGCACTCCAGCCCTGACC 62.490 60.000 0.00 0.00 0.00 4.02
2640 7866 8.956426 CAATGGCTCTTTACCTTTATTTCTACA 58.044 33.333 0.00 0.00 0.00 2.74
2684 7910 5.664294 ACATGCTCTCAAAATTAATGGCA 57.336 34.783 0.00 0.00 0.00 4.92
2827 8053 5.112129 ACTTGAACTCTGTTGGGTTAGTT 57.888 39.130 0.00 0.00 34.96 2.24
2828 8054 4.772886 ACTTGAACTCTGTTGGGTTAGT 57.227 40.909 0.00 0.00 0.00 2.24
2861 8087 1.195900 TCGTAAAATGCGAGCACCAAC 59.804 47.619 0.00 0.00 34.11 3.77
2878 8105 4.262079 CGGAAGGCCTAGAATAAATCTCGT 60.262 45.833 5.16 0.00 39.71 4.18
2959 8186 4.106341 TCTTTCCCCTCCAAGTCTGAAAAT 59.894 41.667 0.00 0.00 0.00 1.82
2966 8193 0.621082 CCCTCTTTCCCCTCCAAGTC 59.379 60.000 0.00 0.00 0.00 3.01
2991 8218 4.884668 ATTCCTCTTTGTGTTCTCGGTA 57.115 40.909 0.00 0.00 0.00 4.02
2995 8222 5.180304 GGAGTGAATTCCTCTTTGTGTTCTC 59.820 44.000 17.88 0.00 34.27 2.87
3010 8237 5.130145 TGATTGGGTTTTGTTGGAGTGAATT 59.870 36.000 0.00 0.00 0.00 2.17
3043 8270 7.438160 CGTGGATCTATGTGTTTGCTATTCTAA 59.562 37.037 0.00 0.00 0.00 2.10
3084 8311 3.074412 CCTAGTGCGTGTTTCCTTTGAT 58.926 45.455 0.00 0.00 0.00 2.57
3097 8324 3.259902 GGGAAGAACTTTACCTAGTGCG 58.740 50.000 0.00 0.00 0.00 5.34
3101 8328 4.778427 AGGAGTGGGAAGAACTTTACCTAG 59.222 45.833 0.00 0.00 0.00 3.02
3119 8346 5.199982 TCAAGACCTCATCTCTTAGGAGT 57.800 43.478 1.31 0.00 36.27 3.85
3165 8392 3.138283 TCCACTTGTGGATTTCAAGACCT 59.862 43.478 17.57 0.00 43.17 3.85
3166 8393 3.486383 TCCACTTGTGGATTTCAAGACC 58.514 45.455 17.57 0.00 43.17 3.85


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

AutoCloner maintained by Alex Coulton.