Multiple sequence alignment - TraesCS2B01G266900

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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 TraesCS2B01G266900 chr2B 100.000 5909 0 0 1 5909 359607430 359613338 0.000000e+00 10912
1 TraesCS2B01G266900 chr2A 96.921 3443 83 12 589 4014 389448264 389444828 0.000000e+00 5749
2 TraesCS2B01G266900 chr2A 95.445 1888 57 15 4009 5872 389444750 389442868 0.000000e+00 2983
3 TraesCS2B01G266900 chr2A 92.466 584 25 7 3 585 389448894 389448329 0.000000e+00 817
4 TraesCS2B01G266900 chr2A 91.525 413 18 4 38 450 389467342 389466947 2.410000e-153 553
5 TraesCS2B01G266900 chr2A 98.611 72 1 0 5838 5909 389442872 389442801 1.730000e-25 128
6 TraesCS2B01G266900 chr2D 97.049 3422 75 14 614 4014 308489749 308486333 0.000000e+00 5736
7 TraesCS2B01G266900 chr2D 94.848 1941 59 18 4009 5909 308486252 308484313 0.000000e+00 2992
8 TraesCS2B01G266900 chr2D 92.000 550 29 9 38 583 308490374 308489836 0.000000e+00 758
9 TraesCS2B01G266900 chrUn 89.046 283 29 2 1263 1545 77732813 77732533 3.390000e-92 350


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 TraesCS2B01G266900 chr2B 359607430 359613338 5908 False 10912.00 10912 100.000000 1 5909 1 chr2B.!!$F1 5908
1 TraesCS2B01G266900 chr2A 389442801 389448894 6093 True 2419.25 5749 95.860750 3 5909 4 chr2A.!!$R2 5906
2 TraesCS2B01G266900 chr2D 308484313 308490374 6061 True 3162.00 5736 94.632333 38 5909 3 chr2D.!!$R1 5871

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
608 677 1.077501 CCAACGCCTCCATGTGGAT 60.078 57.895 1.54 0.00 44.46 3.41 F
1052 1126 0.404426 GTCCTTTTAGGGGCTGTGGT 59.596 55.000 0.00 0.00 35.59 4.16 F
1869 1943 0.609957 CTTTGCCTCAGCCATCACCA 60.610 55.000 0.00 0.00 38.69 4.17 F
2414 2488 1.237285 CCAAAGGCGGACTTGACCAG 61.237 60.000 0.00 0.00 39.96 4.00 F
2415 2489 1.600916 AAAGGCGGACTTGACCAGC 60.601 57.895 0.00 0.00 39.96 4.85 F
3012 3093 2.293122 GCATGTGGTTCTGTACAAAGCA 59.707 45.455 14.48 14.48 34.27 3.91 F
4466 4661 1.512926 GAGTGGCTGACGAACACAAT 58.487 50.000 0.00 0.00 37.58 2.71 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1869 1943 0.032615 AGATCCCACGGCTCTTCTCT 60.033 55.000 0.00 0.0 0.00 3.10 R
2414 2488 0.318955 AGGTTTCTTGTGCAATGCGC 60.319 50.000 12.40 12.4 42.89 6.09 R
2677 2755 2.047061 AGCACAACCACCACTTAGAGA 58.953 47.619 0.00 0.0 0.00 3.10 R
4333 4528 1.531365 TTGCTGGTGGGCCTGAAAG 60.531 57.895 4.53 0.0 35.96 2.62 R
4431 4626 2.364186 TCCTCGGAGCCAGCATCA 60.364 61.111 0.00 0.0 0.00 3.07 R
4569 4764 0.249531 TTAGGCACGTCTTTGCGACA 60.250 50.000 0.00 0.0 44.00 4.35 R
5802 6022 1.145803 GGTTGTTGACGTAGGTGAGC 58.854 55.000 0.00 0.0 0.00 4.26 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
26 27 9.035607 CCCTATACGATGATTCATATAAACTGC 57.964 37.037 0.00 0.00 0.00 4.40
27 28 9.809096 CCTATACGATGATTCATATAAACTGCT 57.191 33.333 0.00 0.00 0.00 4.24
30 31 7.792374 ACGATGATTCATATAAACTGCTGTT 57.208 32.000 2.72 2.72 38.16 3.16
31 32 7.633621 ACGATGATTCATATAAACTGCTGTTG 58.366 34.615 9.95 0.00 36.39 3.33
32 33 7.280876 ACGATGATTCATATAAACTGCTGTTGT 59.719 33.333 9.95 4.98 36.39 3.32
33 34 7.795734 CGATGATTCATATAAACTGCTGTTGTC 59.204 37.037 9.95 0.63 36.39 3.18
34 35 7.003939 TGATTCATATAAACTGCTGTTGTCG 57.996 36.000 9.95 0.00 36.39 4.35
35 36 6.816140 TGATTCATATAAACTGCTGTTGTCGA 59.184 34.615 9.95 0.77 36.39 4.20
36 37 7.495606 TGATTCATATAAACTGCTGTTGTCGAT 59.504 33.333 9.95 4.60 36.39 3.59
44 45 3.179048 CTGCTGTTGTCGATGATACGAA 58.821 45.455 0.00 0.00 43.75 3.85
83 84 9.337396 AGTGGCTTAACATCGATTTTCATATTA 57.663 29.630 0.00 0.00 0.00 0.98
160 161 4.755123 CGGGTGTGTATGAGGGATAATTTC 59.245 45.833 0.00 0.00 0.00 2.17
165 169 8.749354 GGTGTGTATGAGGGATAATTTCTTTTT 58.251 33.333 0.00 0.00 0.00 1.94
167 171 9.753674 TGTGTATGAGGGATAATTTCTTTTTCT 57.246 29.630 0.00 0.00 0.00 2.52
176 180 9.208022 GGGATAATTTCTTTTTCTTTCTGTTGG 57.792 33.333 0.00 0.00 0.00 3.77
235 241 9.672673 ATTATATATCCAACATAAGTGAGGTGC 57.327 33.333 0.00 0.00 0.00 5.01
321 329 7.921786 TTGAGTTGACTTTCTTTTTCTCTGA 57.078 32.000 0.00 0.00 0.00 3.27
504 512 5.459536 AGAAAAGAAAGAAGCAATGACCC 57.540 39.130 0.00 0.00 0.00 4.46
587 595 4.323477 CGCAAACCCGACCCCTCA 62.323 66.667 0.00 0.00 0.00 3.86
589 597 3.157680 CAAACCCGACCCCTCACT 58.842 61.111 0.00 0.00 0.00 3.41
592 600 2.976284 AAACCCGACCCCTCACTCCA 62.976 60.000 0.00 0.00 0.00 3.86
597 666 3.607370 GACCCCTCACTCCAACGCC 62.607 68.421 0.00 0.00 0.00 5.68
608 677 1.077501 CCAACGCCTCCATGTGGAT 60.078 57.895 1.54 0.00 44.46 3.41
966 1040 2.196925 CGCGCCCTAGAGACCAGAT 61.197 63.158 0.00 0.00 0.00 2.90
1041 1115 2.358984 GCCGCCGTGGTCCTTTTA 60.359 61.111 0.00 0.00 41.21 1.52
1052 1126 0.404426 GTCCTTTTAGGGGCTGTGGT 59.596 55.000 0.00 0.00 35.59 4.16
1476 1550 1.985116 GCTCCTCTCCGGGAACAGT 60.985 63.158 0.00 0.00 34.66 3.55
1711 1785 2.166459 TCAAGCAACTACCTCGATGGAG 59.834 50.000 7.76 3.19 39.71 3.86
1768 1842 2.485814 GTGAATTGCTTCTCTGGTGTCC 59.514 50.000 0.00 0.00 32.29 4.02
1835 1909 4.508662 GAAGGGGTGAGACTTGTTGATAG 58.491 47.826 0.00 0.00 0.00 2.08
1869 1943 0.609957 CTTTGCCTCAGCCATCACCA 60.610 55.000 0.00 0.00 38.69 4.17
2115 2189 1.896465 GCCGATGCTACTCCTAAGGAT 59.104 52.381 0.00 0.00 33.53 3.24
2155 2229 4.937620 GTGAGTTGACCTATGAGCAATTGA 59.062 41.667 10.34 0.00 0.00 2.57
2414 2488 1.237285 CCAAAGGCGGACTTGACCAG 61.237 60.000 0.00 0.00 39.96 4.00
2415 2489 1.600916 AAAGGCGGACTTGACCAGC 60.601 57.895 0.00 0.00 39.96 4.85
2677 2755 8.000127 TGTTACATTTACTTACTTTCTGGGGTT 59.000 33.333 0.00 0.00 0.00 4.11
2845 2923 9.579932 AAGATTAGGGGAATATGATTTGTCTTC 57.420 33.333 0.00 0.00 0.00 2.87
2940 3018 9.724839 GTTTTGCTGAGTAAAAAGTGTTACATA 57.275 29.630 9.97 0.00 36.59 2.29
2954 3032 6.740110 AGTGTTACATATTTTTGCGTGGAAA 58.260 32.000 0.00 0.00 0.00 3.13
2992 3070 8.981647 ACTTGATTGTTTGTTTTTCTGATATGC 58.018 29.630 0.00 0.00 0.00 3.14
2993 3071 8.883954 TTGATTGTTTGTTTTTCTGATATGCA 57.116 26.923 0.00 0.00 0.00 3.96
2994 3072 9.491675 TTGATTGTTTGTTTTTCTGATATGCAT 57.508 25.926 3.79 3.79 0.00 3.96
2995 3073 8.927721 TGATTGTTTGTTTTTCTGATATGCATG 58.072 29.630 10.16 0.00 0.00 4.06
2998 3076 6.645827 TGTTTGTTTTTCTGATATGCATGTGG 59.354 34.615 10.16 0.00 0.00 4.17
3012 3093 2.293122 GCATGTGGTTCTGTACAAAGCA 59.707 45.455 14.48 14.48 34.27 3.91
3171 3253 5.856126 TTCGTATTTTACCAACTGCTCTG 57.144 39.130 0.00 0.00 0.00 3.35
3241 3326 4.020128 GGTAGTCATCTTCTGTTCCACCTT 60.020 45.833 0.00 0.00 0.00 3.50
3245 3330 4.223032 GTCATCTTCTGTTCCACCTTCCTA 59.777 45.833 0.00 0.00 0.00 2.94
3267 3352 8.028938 TCCTATTTTGACTGCTTTATCTTTTGC 58.971 33.333 0.00 0.00 0.00 3.68
3274 3364 4.110482 CTGCTTTATCTTTTGCTGCCATC 58.890 43.478 0.00 0.00 0.00 3.51
3388 3478 6.679884 GCTTGATGCCCTAATCTTCTTCTTTG 60.680 42.308 0.00 0.00 35.15 2.77
3714 3805 8.103305 TCTGAGTTATCTTGATGTTAAGGCTTT 58.897 33.333 4.45 0.00 0.00 3.51
3831 3922 6.985653 AGAAGCTAGAGGCATTAATCTACA 57.014 37.500 0.00 0.00 44.79 2.74
3997 4088 6.350864 CCAAATGCACACCAAATAAGGACATA 60.351 38.462 0.00 0.00 0.00 2.29
4043 4225 7.403312 TTTGATTGATTGGTGGTTGGTATAG 57.597 36.000 0.00 0.00 0.00 1.31
4054 4236 6.601613 TGGTGGTTGGTATAGATCATTGTTTC 59.398 38.462 0.00 0.00 0.00 2.78
4189 4376 4.038763 ACTGACGTTCCTAACTGACATTGA 59.961 41.667 0.00 0.00 0.00 2.57
4230 4417 3.406764 GCAGGTCTCTTGACAAGAACAT 58.593 45.455 18.26 13.50 44.61 2.71
4240 4427 3.261580 TGACAAGAACATATCAGGTGCG 58.738 45.455 0.00 0.00 0.00 5.34
4246 4433 5.991328 AGAACATATCAGGTGCGTAAATG 57.009 39.130 0.00 0.00 0.00 2.32
4287 4476 9.390795 GCATGCTACTTTCATAATTGATACAAG 57.609 33.333 11.37 0.00 0.00 3.16
4290 4479 9.890629 TGCTACTTTCATAATTGATACAAGTCT 57.109 29.630 0.00 0.00 34.13 3.24
4330 4525 3.904136 ATCTCTTTTGTGTGCCTTTCG 57.096 42.857 0.00 0.00 0.00 3.46
4431 4626 6.650390 GCAATTTTGGTGTAAGTGGATCAAAT 59.350 34.615 0.00 0.00 0.00 2.32
4456 4651 3.071206 GCTCCGAGGAGTGGCTGA 61.071 66.667 19.22 0.00 43.70 4.26
4466 4661 1.512926 GAGTGGCTGACGAACACAAT 58.487 50.000 0.00 0.00 37.58 2.71
4476 4671 5.289917 TGACGAACACAATAAATCGCATT 57.710 34.783 0.00 0.00 38.80 3.56
4502 4697 5.704515 GCATCAGTGACAAGGATAGCATTAT 59.295 40.000 0.00 0.00 0.00 1.28
4569 4764 0.255890 AAGTATGGGCAGTGGCGATT 59.744 50.000 19.03 4.82 42.47 3.34
4754 4949 1.626321 TCAGGGCAATCGTTACCAGAA 59.374 47.619 0.00 0.00 0.00 3.02
4792 4987 1.001706 CATCAGGGCGAATGCTTGATG 60.002 52.381 15.35 15.35 46.28 3.07
4807 5002 0.251354 TGATGGCAGAGGCTCAGTTC 59.749 55.000 18.26 8.24 40.87 3.01
4866 5061 3.960755 TCAAGAGATCTTTGCGGGAGATA 59.039 43.478 0.00 0.00 34.13 1.98
4959 5154 2.775911 TCAGGAGCTGGTGATTCTTG 57.224 50.000 0.00 0.00 31.51 3.02
5206 5406 6.659242 GGATTAATTTGAGACTTGTTCTGGGA 59.341 38.462 0.00 0.00 33.22 4.37
5276 5480 9.928236 AAATTTAAATTCAAATGTGACCGTTTG 57.072 25.926 13.68 4.72 45.13 2.93
5284 5488 0.678366 TGTGACCGTTTGGCAGTTGT 60.678 50.000 0.00 0.00 39.70 3.32
5311 5515 3.798889 GCCAGTTTACCTTGCCTTGTTTC 60.799 47.826 0.00 0.00 0.00 2.78
5328 5532 5.497464 TGTTTCTCTCTCTCTCTCTCTCA 57.503 43.478 0.00 0.00 0.00 3.27
5329 5533 5.875224 TGTTTCTCTCTCTCTCTCTCTCAA 58.125 41.667 0.00 0.00 0.00 3.02
5330 5534 6.303054 TGTTTCTCTCTCTCTCTCTCTCAAA 58.697 40.000 0.00 0.00 0.00 2.69
5356 5563 2.080654 AGCAGTTAAGCCCCAAACAA 57.919 45.000 0.00 0.00 34.23 2.83
5363 5583 6.073276 GCAGTTAAGCCCCAAACAATTAAAAG 60.073 38.462 0.00 0.00 0.00 2.27
5434 5654 1.136329 AATGGCCACCACCACTCTCT 61.136 55.000 8.16 0.00 44.17 3.10
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 9.035607 GCAGTTTATATGAATCATCGTATAGGG 57.964 37.037 0.00 0.00 39.81 3.53
1 2 9.809096 AGCAGTTTATATGAATCATCGTATAGG 57.191 33.333 0.00 0.00 39.81 2.57
26 27 5.763444 AAAGTTCGTATCATCGACAACAG 57.237 39.130 0.00 0.00 39.58 3.16
27 28 6.809689 ACATAAAGTTCGTATCATCGACAACA 59.190 34.615 0.00 0.00 39.58 3.33
28 29 7.218145 ACATAAAGTTCGTATCATCGACAAC 57.782 36.000 0.00 0.00 39.58 3.32
29 30 8.800972 GTTACATAAAGTTCGTATCATCGACAA 58.199 33.333 0.00 0.00 39.58 3.18
30 31 7.433131 GGTTACATAAAGTTCGTATCATCGACA 59.567 37.037 0.00 0.00 39.58 4.35
31 32 7.433131 TGGTTACATAAAGTTCGTATCATCGAC 59.567 37.037 0.00 0.00 39.58 4.20
32 33 7.482474 TGGTTACATAAAGTTCGTATCATCGA 58.518 34.615 0.00 0.00 38.08 3.59
33 34 7.434307 ACTGGTTACATAAAGTTCGTATCATCG 59.566 37.037 0.00 0.00 0.00 3.84
34 35 8.540492 CACTGGTTACATAAAGTTCGTATCATC 58.460 37.037 0.00 0.00 0.00 2.92
35 36 7.494625 CCACTGGTTACATAAAGTTCGTATCAT 59.505 37.037 0.00 0.00 0.00 2.45
36 37 6.814644 CCACTGGTTACATAAAGTTCGTATCA 59.185 38.462 0.00 0.00 0.00 2.15
44 45 6.300703 TGTTAAGCCACTGGTTACATAAAGT 58.699 36.000 0.00 0.00 34.35 2.66
83 84 6.594788 ATCTGTACTGGCACAATTTCAAAT 57.405 33.333 0.00 0.00 38.70 2.32
126 127 0.468226 ACACACCCGACAACATCAGT 59.532 50.000 0.00 0.00 0.00 3.41
127 128 2.448926 TACACACCCGACAACATCAG 57.551 50.000 0.00 0.00 0.00 2.90
132 133 1.674817 CCCTCATACACACCCGACAAC 60.675 57.143 0.00 0.00 0.00 3.32
160 161 4.265320 GTGCGTTCCAACAGAAAGAAAAAG 59.735 41.667 0.00 0.00 36.18 2.27
165 169 0.934496 CGTGCGTTCCAACAGAAAGA 59.066 50.000 0.00 0.00 36.18 2.52
167 171 1.440938 CCCGTGCGTTCCAACAGAAA 61.441 55.000 0.00 0.00 35.85 2.52
168 172 1.890041 CCCGTGCGTTCCAACAGAA 60.890 57.895 0.00 0.00 0.00 3.02
169 173 2.280524 CCCGTGCGTTCCAACAGA 60.281 61.111 0.00 0.00 0.00 3.41
170 174 4.025401 GCCCGTGCGTTCCAACAG 62.025 66.667 0.00 0.00 0.00 3.16
171 175 4.858680 TGCCCGTGCGTTCCAACA 62.859 61.111 0.00 0.00 41.78 3.33
176 180 1.007849 AAAACATGCCCGTGCGTTC 60.008 52.632 0.00 0.00 41.78 3.95
247 253 5.490139 TTGTGAAAGCTCAAACAAGAGAG 57.510 39.130 4.45 0.00 37.87 3.20
318 326 4.843220 AGTGAACAAGCTCCATTTTCAG 57.157 40.909 0.00 0.00 0.00 3.02
321 329 3.960102 TGGAAGTGAACAAGCTCCATTTT 59.040 39.130 0.00 0.00 0.00 1.82
504 512 1.938577 CATCCGCTTCTTGTCCTGATG 59.061 52.381 0.00 0.00 0.00 3.07
585 593 1.296392 CATGGAGGCGTTGGAGTGA 59.704 57.895 0.00 0.00 0.00 3.41
587 595 1.003355 CACATGGAGGCGTTGGAGT 60.003 57.895 0.00 0.00 0.00 3.85
589 597 2.220586 TCCACATGGAGGCGTTGGA 61.221 57.895 0.00 0.00 39.78 3.53
608 677 1.456892 ACCTGTCTGTGACCCGTGA 60.457 57.895 0.00 0.00 0.00 4.35
749 818 2.043953 GATGTTCTGTGGGGCCCC 60.044 66.667 36.14 36.14 0.00 5.80
1034 1108 0.404040 CACCACAGCCCCTAAAAGGA 59.596 55.000 0.00 0.00 37.67 3.36
1476 1550 2.683933 GGAACCTGGCCCGAGAGA 60.684 66.667 0.00 0.00 0.00 3.10
1711 1785 2.507484 TGCATCGGATCCATTCCAATC 58.493 47.619 13.41 0.00 45.78 2.67
1782 1856 4.693283 AGAAGTCTTCACAATCAACACGA 58.307 39.130 14.97 0.00 0.00 4.35
1869 1943 0.032615 AGATCCCACGGCTCTTCTCT 60.033 55.000 0.00 0.00 0.00 3.10
2115 2189 0.596083 CACCAAAAACGGCAATCGCA 60.596 50.000 0.00 0.00 43.89 5.10
2327 2401 1.087501 GAGCAACGGAACAATCCTCC 58.912 55.000 0.00 0.00 44.17 4.30
2414 2488 0.318955 AGGTTTCTTGTGCAATGCGC 60.319 50.000 12.40 12.40 42.89 6.09
2415 2489 1.269206 ACAGGTTTCTTGTGCAATGCG 60.269 47.619 0.00 0.00 0.00 4.73
2662 2737 6.166982 CACTTAGAGAACCCCAGAAAGTAAG 58.833 44.000 0.00 0.00 0.00 2.34
2677 2755 2.047061 AGCACAACCACCACTTAGAGA 58.953 47.619 0.00 0.00 0.00 3.10
2812 2890 6.531021 TCATATTCCCCTAATCTTTCGTTCC 58.469 40.000 0.00 0.00 0.00 3.62
2827 2905 8.883731 CCATATACGAAGACAAATCATATTCCC 58.116 37.037 0.00 0.00 0.00 3.97
2845 2923 8.141909 TCAGGTCAATTCTTCTAACCATATACG 58.858 37.037 0.00 0.00 32.25 3.06
2976 3054 6.343716 ACCACATGCATATCAGAAAAACAA 57.656 33.333 0.00 0.00 0.00 2.83
2991 3069 2.293122 TGCTTTGTACAGAACCACATGC 59.707 45.455 0.00 0.00 0.00 4.06
2992 3070 4.771590 ATGCTTTGTACAGAACCACATG 57.228 40.909 0.00 0.00 0.00 3.21
2993 3071 8.158169 CATATATGCTTTGTACAGAACCACAT 57.842 34.615 0.00 0.00 0.00 3.21
2994 3072 7.552458 CATATATGCTTTGTACAGAACCACA 57.448 36.000 0.00 0.00 0.00 4.17
3012 3093 5.994054 AGACATTCTTTCGTGCAGCATATAT 59.006 36.000 0.00 0.00 0.00 0.86
3027 3108 8.367660 TGTATAACTCTTCCTCAGACATTCTT 57.632 34.615 0.00 0.00 0.00 2.52
3033 3114 8.470805 TCTTCATTGTATAACTCTTCCTCAGAC 58.529 37.037 0.00 0.00 0.00 3.51
3108 3190 3.740764 GCTCCAATAGAGACTTGAGGCTG 60.741 52.174 0.00 0.00 46.50 4.85
3171 3253 3.857052 TGGAATAACTGATGACGTCCAC 58.143 45.455 14.12 7.60 0.00 4.02
3216 3298 4.499183 GTGGAACAGAAGATGACTACCAG 58.501 47.826 0.00 0.00 41.80 4.00
3241 3326 8.028938 GCAAAAGATAAAGCAGTCAAAATAGGA 58.971 33.333 0.00 0.00 0.00 2.94
3245 3330 6.146673 GCAGCAAAAGATAAAGCAGTCAAAAT 59.853 34.615 0.00 0.00 0.00 1.82
3267 3352 5.724328 TGACTAGTCAAAGTAAGATGGCAG 58.276 41.667 23.24 0.00 36.53 4.85
3414 3504 9.730705 AATGAAAGAATCAGAACTCAGAACATA 57.269 29.630 0.00 0.00 42.53 2.29
3919 4010 3.119291 CACTGCTAGCATGCTGTAGTAC 58.881 50.000 30.42 12.59 41.89 2.73
3997 4088 6.796785 AAATATGCCAAAATCCTTACTGCT 57.203 33.333 0.00 0.00 0.00 4.24
4043 4225 3.498397 AGGTGTGTGACGAAACAATGATC 59.502 43.478 0.00 0.00 0.00 2.92
4054 4236 2.325761 GCAGTAAGTAGGTGTGTGACG 58.674 52.381 0.00 0.00 0.00 4.35
4189 4376 2.558359 GCCACAAGAAAGTGCCAGTTAT 59.442 45.455 0.00 0.00 38.18 1.89
4230 4417 4.998033 TGTGAAACATTTACGCACCTGATA 59.002 37.500 0.00 0.00 45.67 2.15
4246 4433 1.720852 GCATGCGGACAAATGTGAAAC 59.279 47.619 0.00 0.00 37.35 2.78
4302 4497 8.962884 AAGGCACACAAAAGAGATAAATTTTT 57.037 26.923 0.00 0.00 0.00 1.94
4324 4519 1.581447 GGCCTGAAAGTGCGAAAGG 59.419 57.895 0.00 0.00 31.95 3.11
4330 4525 2.203480 TGGTGGGCCTGAAAGTGC 60.203 61.111 4.53 0.00 35.27 4.40
4333 4528 1.531365 TTGCTGGTGGGCCTGAAAG 60.531 57.895 4.53 0.00 35.96 2.62
4431 4626 2.364186 TCCTCGGAGCCAGCATCA 60.364 61.111 0.00 0.00 0.00 3.07
4456 4651 5.163804 TGCTAATGCGATTTATTGTGTTCGT 60.164 36.000 0.00 0.00 43.34 3.85
4466 4661 5.115480 TGTCACTGATGCTAATGCGATTTA 58.885 37.500 0.00 0.00 43.34 1.40
4476 4671 3.706086 TGCTATCCTTGTCACTGATGCTA 59.294 43.478 0.00 0.00 0.00 3.49
4509 4704 7.390440 TCATCAACGACAAGTAAAGGATCAATT 59.610 33.333 0.00 0.00 0.00 2.32
4512 4707 5.789521 TCATCAACGACAAGTAAAGGATCA 58.210 37.500 0.00 0.00 0.00 2.92
4569 4764 0.249531 TTAGGCACGTCTTTGCGACA 60.250 50.000 0.00 0.00 44.00 4.35
4608 4803 3.127352 GACGTAGCGAGCAGAGGGG 62.127 68.421 0.00 0.00 0.00 4.79
4647 4842 2.997897 GCTCGGACCACCCTCAGT 60.998 66.667 0.00 0.00 0.00 3.41
4707 4902 2.202987 GACTGCCATGAGCTCCGG 60.203 66.667 12.15 13.05 44.23 5.14
4754 4949 0.963856 TGGCGACATGACCTCGTAGT 60.964 55.000 0.00 0.00 33.40 2.73
4792 4987 2.125350 CCGAACTGAGCCTCTGCC 60.125 66.667 0.00 0.00 38.69 4.85
4807 5002 0.320421 CCCCCACTAATATGCGACCG 60.320 60.000 0.00 0.00 0.00 4.79
4866 5061 2.925170 ACTTGCGGGTCAGGAGCT 60.925 61.111 0.00 0.00 0.00 4.09
4945 5140 2.307098 AGGTAAGCAAGAATCACCAGCT 59.693 45.455 0.00 0.00 37.08 4.24
4959 5154 6.073765 CCGATGACAATTATACACAGGTAAGC 60.074 42.308 0.00 0.00 32.19 3.09
5085 5281 1.396301 GTTGCTCTATGTGCACTCTGC 59.604 52.381 19.41 14.69 45.29 4.26
5181 5377 6.659242 TCCCAGAACAAGTCTCAAATTAATCC 59.341 38.462 0.00 0.00 32.70 3.01
5284 5488 1.544724 GCAAGGTAAACTGGCATGGA 58.455 50.000 0.00 0.00 46.01 3.41
5346 5553 6.540551 TGAGTTTTCTTTTAATTGTTTGGGGC 59.459 34.615 0.00 0.00 0.00 5.80
5363 5583 7.907214 TTAGCTCTATCCTGTTTGAGTTTTC 57.093 36.000 0.00 0.00 0.00 2.29
5434 5654 2.181777 GCGGATGTGAGAGCGTGA 59.818 61.111 0.00 0.00 0.00 4.35
5478 5698 2.058595 GCAGCGAGGGTAGGAAGGA 61.059 63.158 0.00 0.00 0.00 3.36
5802 6022 1.145803 GGTTGTTGACGTAGGTGAGC 58.854 55.000 0.00 0.00 0.00 4.26


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

AutoCloner maintained by Alex Coulton.