Multiple sequence alignment - TraesCS7A01G168800

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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 TraesCS7A01G168800 chr7A 100.000 3353 0 0 1 3353 125478027 125481379 0.000000e+00 6192.0
1 TraesCS7A01G168800 chr7A 83.898 118 17 2 1268 1384 708784671 708784555 9.830000e-21 111.0
2 TraesCS7A01G168800 chr7A 78.286 175 32 6 1268 1439 708708610 708708781 1.270000e-19 108.0
3 TraesCS7A01G168800 chr7A 86.458 96 10 1 1267 1359 19547377 19547282 5.920000e-18 102.0
4 TraesCS7A01G168800 chr7D 94.053 2085 60 16 496 2566 121930968 121933002 0.000000e+00 3105.0
5 TraesCS7A01G168800 chr7D 92.396 434 26 5 45 475 121929425 121929854 2.210000e-171 612.0
6 TraesCS7A01G168800 chr7D 80.400 801 113 30 2577 3353 70224087 70223307 1.350000e-158 569.0
7 TraesCS7A01G168800 chr7D 90.439 387 31 3 2574 2958 136690450 136690832 3.860000e-139 505.0
8 TraesCS7A01G168800 chr7D 90.155 386 33 3 2575 2958 456720647 456720265 6.460000e-137 497.0
9 TraesCS7A01G168800 chr7D 78.191 188 33 8 1268 1450 616009300 616009116 2.730000e-21 113.0
10 TraesCS7A01G168800 chr7D 78.161 174 34 4 1268 1439 615942400 615942571 1.270000e-19 108.0
11 TraesCS7A01G168800 chr7B 93.340 1997 80 18 597 2566 83023823 83025793 0.000000e+00 2902.0
12 TraesCS7A01G168800 chr7B 88.861 790 75 6 2573 3353 713683163 713682378 0.000000e+00 959.0
13 TraesCS7A01G168800 chr7B 86.726 226 25 5 63 285 82703561 82703784 2.580000e-61 246.0
14 TraesCS7A01G168800 chr7B 76.471 187 38 6 1268 1450 709048326 709048510 2.750000e-16 97.1
15 TraesCS7A01G168800 chr3B 90.689 784 66 3 2575 3353 172329458 172328677 0.000000e+00 1037.0
16 TraesCS7A01G168800 chr3D 88.829 743 51 21 2640 3353 14806284 14805545 0.000000e+00 883.0
17 TraesCS7A01G168800 chr5D 95.567 406 18 0 2948 3353 478457383 478457788 0.000000e+00 651.0
18 TraesCS7A01G168800 chr5D 95.320 406 19 0 2948 3353 539719263 539719668 0.000000e+00 645.0
19 TraesCS7A01G168800 chr5D 94.828 406 21 0 2948 3353 387600938 387601343 4.720000e-178 634.0
20 TraesCS7A01G168800 chr5D 90.000 390 29 5 2573 2958 467427535 467427152 2.320000e-136 496.0
21 TraesCS7A01G168800 chr5D 83.333 102 13 4 1267 1366 406198437 406198536 1.280000e-14 91.6
22 TraesCS7A01G168800 chr2D 95.320 406 19 0 2948 3353 314358993 314359398 0.000000e+00 645.0
23 TraesCS7A01G168800 chr2D 90.390 385 28 4 2577 2958 34361717 34362095 6.460000e-137 497.0
24 TraesCS7A01G168800 chr1D 94.828 406 21 0 2948 3353 413349404 413349809 4.720000e-178 634.0
25 TraesCS7A01G168800 chr4A 90.231 389 32 4 2573 2958 507602714 507602329 1.390000e-138 503.0
26 TraesCS7A01G168800 chr4A 90.231 389 32 4 2573 2958 507650519 507650134 1.390000e-138 503.0
27 TraesCS7A01G168800 chr4D 90.155 386 33 3 2575 2958 426602553 426602171 6.460000e-137 497.0
28 TraesCS7A01G168800 chr5B 80.488 246 41 6 2050 2289 58839531 58839287 7.390000e-42 182.0
29 TraesCS7A01G168800 chr5A 76.126 222 45 8 2121 2338 670401937 670402154 3.540000e-20 110.0
30 TraesCS7A01G168800 chr4B 91.304 69 3 3 1292 1357 625380958 625381026 1.280000e-14 91.6
31 TraesCS7A01G168800 chr4B 88.406 69 5 3 1292 1357 625401295 625401363 2.770000e-11 80.5
32 TraesCS7A01G168800 chr4B 89.091 55 6 0 7 61 656133819 656133765 6.000000e-08 69.4


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 TraesCS7A01G168800 chr7A 125478027 125481379 3352 False 6192.0 6192 100.0000 1 3353 1 chr7A.!!$F1 3352
1 TraesCS7A01G168800 chr7D 121929425 121933002 3577 False 1858.5 3105 93.2245 45 2566 2 chr7D.!!$F3 2521
2 TraesCS7A01G168800 chr7D 70223307 70224087 780 True 569.0 569 80.4000 2577 3353 1 chr7D.!!$R1 776
3 TraesCS7A01G168800 chr7B 83023823 83025793 1970 False 2902.0 2902 93.3400 597 2566 1 chr7B.!!$F2 1969
4 TraesCS7A01G168800 chr7B 713682378 713683163 785 True 959.0 959 88.8610 2573 3353 1 chr7B.!!$R1 780
5 TraesCS7A01G168800 chr3B 172328677 172329458 781 True 1037.0 1037 90.6890 2575 3353 1 chr3B.!!$R1 778
6 TraesCS7A01G168800 chr3D 14805545 14806284 739 True 883.0 883 88.8290 2640 3353 1 chr3D.!!$R1 713

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
55 56 0.106819 GGTCAGCATTGGAGATGCCT 60.107 55.0 7.33 0.0 45.59 4.75 F
721 1820 0.171455 GCAAACCACCACACAAACGA 59.829 50.0 0.00 0.0 0.00 3.85 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1743 2865 2.419297 GCTCTTGGACTCGAACATGGAT 60.419 50.0 0.00 0.0 0.0 3.41 R
2432 3559 0.248539 TTTACACGGCCGCACAAAAC 60.249 50.0 28.58 0.0 0.0 2.43 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
25 26 3.909312 CGCGAACGGATGCTAGAG 58.091 61.111 0.00 0.00 34.97 2.43
26 27 1.064296 CGCGAACGGATGCTAGAGT 59.936 57.895 0.00 0.00 34.97 3.24
27 28 0.306840 CGCGAACGGATGCTAGAGTA 59.693 55.000 0.00 0.00 34.97 2.59
28 29 1.268386 CGCGAACGGATGCTAGAGTAA 60.268 52.381 0.00 0.00 34.97 2.24
29 30 2.793585 CGCGAACGGATGCTAGAGTAAA 60.794 50.000 0.00 0.00 34.97 2.01
30 31 3.381949 GCGAACGGATGCTAGAGTAAAT 58.618 45.455 0.00 0.00 0.00 1.40
31 32 3.802685 GCGAACGGATGCTAGAGTAAATT 59.197 43.478 0.00 0.00 0.00 1.82
32 33 4.270325 GCGAACGGATGCTAGAGTAAATTT 59.730 41.667 0.00 0.00 0.00 1.82
33 34 5.461078 GCGAACGGATGCTAGAGTAAATTTA 59.539 40.000 0.00 0.00 0.00 1.40
34 35 6.145696 GCGAACGGATGCTAGAGTAAATTTAT 59.854 38.462 0.31 0.00 0.00 1.40
35 36 7.502339 CGAACGGATGCTAGAGTAAATTTATG 58.498 38.462 0.31 0.00 0.00 1.90
36 37 7.359264 CGAACGGATGCTAGAGTAAATTTATGG 60.359 40.741 0.31 0.00 0.00 2.74
37 38 6.231211 ACGGATGCTAGAGTAAATTTATGGG 58.769 40.000 0.31 0.00 0.00 4.00
38 39 6.183361 ACGGATGCTAGAGTAAATTTATGGGT 60.183 38.462 0.31 0.00 0.00 4.51
39 40 6.369065 CGGATGCTAGAGTAAATTTATGGGTC 59.631 42.308 0.31 0.00 0.00 4.46
40 41 7.224297 GGATGCTAGAGTAAATTTATGGGTCA 58.776 38.462 0.31 0.00 0.00 4.02
41 42 7.389053 GGATGCTAGAGTAAATTTATGGGTCAG 59.611 40.741 0.31 0.00 0.00 3.51
42 43 6.055588 TGCTAGAGTAAATTTATGGGTCAGC 58.944 40.000 0.31 6.81 0.00 4.26
43 44 6.055588 GCTAGAGTAAATTTATGGGTCAGCA 58.944 40.000 0.31 0.00 0.00 4.41
55 56 0.106819 GGTCAGCATTGGAGATGCCT 60.107 55.000 7.33 0.00 45.59 4.75
59 60 3.887716 GTCAGCATTGGAGATGCCTTAAT 59.112 43.478 7.33 0.00 45.59 1.40
60 61 5.065914 GTCAGCATTGGAGATGCCTTAATA 58.934 41.667 7.33 0.00 45.59 0.98
61 62 5.709164 GTCAGCATTGGAGATGCCTTAATAT 59.291 40.000 7.33 0.00 45.59 1.28
84 86 6.160576 TGGCCCTTTGCTAATCAAATTATC 57.839 37.500 0.00 0.00 43.14 1.75
90 92 6.294176 CCTTTGCTAATCAAATTATCCTCCCG 60.294 42.308 0.00 0.00 43.14 5.14
94 96 1.948104 TCAAATTATCCTCCCGCGTG 58.052 50.000 4.92 0.00 0.00 5.34
95 97 0.307760 CAAATTATCCTCCCGCGTGC 59.692 55.000 4.92 0.00 0.00 5.34
111 113 2.494953 CGTGCGATTACAACATGTGTG 58.505 47.619 0.00 2.71 41.89 3.82
112 114 2.096466 CGTGCGATTACAACATGTGTGT 60.096 45.455 14.99 14.99 41.89 3.72
113 115 3.479006 GTGCGATTACAACATGTGTGTC 58.521 45.455 14.31 9.64 41.89 3.67
114 116 3.059257 GTGCGATTACAACATGTGTGTCA 60.059 43.478 14.31 7.06 41.89 3.58
145 147 5.344933 CGTTTAAGAGGCCAAAAATACAAGC 59.655 40.000 5.01 0.00 0.00 4.01
191 193 6.761242 ACACTATTTGCATCGTATACACATGT 59.239 34.615 3.32 0.00 0.00 3.21
250 252 1.600636 CCAATGTGTGGTCAGCCGT 60.601 57.895 0.00 0.00 43.20 5.68
265 267 3.189910 TCAGCCGTACATATATCCGTCAC 59.810 47.826 0.00 0.00 0.00 3.67
408 412 1.634702 TTTGTTTGGTCGCAACAAGC 58.365 45.000 0.38 0.00 43.31 4.01
409 413 0.528017 TTGTTTGGTCGCAACAAGCA 59.472 45.000 0.68 0.68 46.13 3.91
446 450 9.849166 GTTTTTCTATGAAATTCAACCGGATAA 57.151 29.630 9.46 0.00 0.00 1.75
477 481 9.614792 ACTTCTGAAATGTAGTGTAGAAAACTT 57.385 29.630 0.00 0.00 0.00 2.66
486 490 8.556213 TGTAGTGTAGAAAACTTTTGAACTGT 57.444 30.769 0.00 0.00 0.00 3.55
488 492 9.836076 GTAGTGTAGAAAACTTTTGAACTGTTT 57.164 29.630 0.00 0.00 35.71 2.83
490 494 9.758651 AGTGTAGAAAACTTTTGAACTGTTTTT 57.241 25.926 8.25 0.00 41.89 1.94
552 1649 3.701205 ATGTGCACATGAAGTAGGACA 57.299 42.857 30.92 0.00 35.44 4.02
588 1685 4.658901 TCCATAAAGGTAAGAGATGTCCCC 59.341 45.833 0.00 0.00 39.02 4.81
634 1731 6.717289 TGTACAGAGCCAAATTATTACACCT 58.283 36.000 0.00 0.00 0.00 4.00
675 1772 5.695851 AAACATGGAACTTGTGAGTCATC 57.304 39.130 0.00 0.00 34.21 2.92
697 1796 6.586868 TCAAAAACATGAATTCAGTTGCAC 57.413 33.333 14.54 0.00 0.00 4.57
721 1820 0.171455 GCAAACCACCACACAAACGA 59.829 50.000 0.00 0.00 0.00 3.85
870 1972 0.804989 GCACATCACCCAACTACTGC 59.195 55.000 0.00 0.00 0.00 4.40
909 2011 6.201044 CCAATGACTAATCCAATCACGACTAC 59.799 42.308 0.00 0.00 0.00 2.73
984 2097 1.129437 GCGATCTTTGTCACTGCCTTC 59.871 52.381 0.00 0.00 0.00 3.46
988 2101 0.595095 CTTTGTCACTGCCTTCAGCC 59.405 55.000 0.00 0.00 44.10 4.85
1377 2490 2.125350 CCCTGCCTCGACTGCTTC 60.125 66.667 4.04 0.00 0.00 3.86
1387 2500 1.144936 GACTGCTTCGATCAGGGGG 59.855 63.158 16.41 0.00 35.94 5.40
1743 2865 2.028658 CAGCTTCTCCTACTGCTTCACA 60.029 50.000 0.00 0.00 33.03 3.58
1770 2892 1.447489 CGAGTCCAAGAGCAGCCTG 60.447 63.158 0.00 0.00 0.00 4.85
2347 3469 1.802300 CGACAAGCTCGTAGCATCGC 61.802 60.000 9.09 0.00 45.56 4.58
2368 3490 5.121611 TCGCTGTAATGGTGAAATTGTACAG 59.878 40.000 0.00 0.00 37.37 2.74
2404 3526 1.799181 CGTAGCACTGATCGGGTGAAG 60.799 57.143 18.69 0.00 36.89 3.02
2431 3558 2.103736 GTGGCGGCGGTAGAGTAC 59.896 66.667 9.78 0.00 0.00 2.73
2432 3559 3.511595 TGGCGGCGGTAGAGTACG 61.512 66.667 9.78 0.00 0.00 3.67
2528 3655 4.745751 CCGGGCGCTTCGGTTGTA 62.746 66.667 26.25 0.00 42.33 2.41
2529 3656 3.484547 CGGGCGCTTCGGTTGTAC 61.485 66.667 7.64 0.00 0.00 2.90
2530 3657 2.047560 GGGCGCTTCGGTTGTACT 60.048 61.111 7.64 0.00 0.00 2.73
2531 3658 1.216178 GGGCGCTTCGGTTGTACTA 59.784 57.895 7.64 0.00 0.00 1.82
2532 3659 1.080435 GGGCGCTTCGGTTGTACTAC 61.080 60.000 7.64 0.00 0.00 2.73
2568 3695 4.498241 GGAAAATTCCAAAGCTAAGGCTG 58.502 43.478 7.32 0.00 46.69 4.85
2569 3696 4.621510 GGAAAATTCCAAAGCTAAGGCTGG 60.622 45.833 7.32 0.00 46.69 4.85
2570 3697 7.590139 GGAAAATTCCAAAGCTAAGGCTGGG 62.590 48.000 7.32 0.00 46.69 4.45
2585 3712 1.884067 GCTGGGCACTTAGAGCAACTT 60.884 52.381 3.83 0.00 0.00 2.66
2604 3731 5.675684 ACTTTAATGGGGCGATTCATTTT 57.324 34.783 0.00 0.00 35.50 1.82
2617 3744 2.981350 ATTTTGTCCGCGGCCGTT 60.981 55.556 28.70 0.00 0.00 4.44
2786 3913 1.305887 CTTACTCCTGTCCCCGGGT 60.306 63.158 21.85 0.00 38.38 5.28
2864 3993 2.418910 CGCCTCCTCTGTCACCGAT 61.419 63.158 0.00 0.00 0.00 4.18
2866 3995 1.608717 GCCTCCTCTGTCACCGATGT 61.609 60.000 0.00 0.00 0.00 3.06
2869 3998 0.608308 TCCTCTGTCACCGATGTCGT 60.608 55.000 1.44 0.00 37.74 4.34
2891 4024 1.586154 CCCATTTTTGCGGCGACTCT 61.586 55.000 12.98 0.00 0.00 3.24
3066 4249 1.229336 AGCTAGCTGGTCTGTGGGT 60.229 57.895 18.57 0.00 0.00 4.51
3217 4401 3.261933 GTCCGACGACGAAGAGGT 58.738 61.111 9.28 0.00 42.66 3.85
3240 4427 2.974692 ATTGGCTGCCGTGTTGGTCA 62.975 55.000 14.98 0.00 41.21 4.02
3286 4473 0.953471 TTGTTCCGTGGCTCCATTCG 60.953 55.000 0.00 0.00 0.00 3.34
3287 4474 1.079405 GTTCCGTGGCTCCATTCGA 60.079 57.895 1.14 0.00 0.00 3.71
3290 4477 2.579201 CGTGGCTCCATTCGAGGT 59.421 61.111 0.00 0.00 39.22 3.85
3315 4502 0.244450 TCCGGCGTTGAATCGTAACT 59.756 50.000 6.01 0.00 0.00 2.24
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
8 9 0.306840 TACTCTAGCATCCGTTCGCG 59.693 55.000 0.00 0.00 40.93 5.87
9 10 2.486951 TTACTCTAGCATCCGTTCGC 57.513 50.000 0.00 0.00 0.00 4.70
10 11 5.968387 AAATTTACTCTAGCATCCGTTCG 57.032 39.130 0.00 0.00 0.00 3.95
11 12 7.095187 CCCATAAATTTACTCTAGCATCCGTTC 60.095 40.741 0.00 0.00 0.00 3.95
12 13 6.710744 CCCATAAATTTACTCTAGCATCCGTT 59.289 38.462 0.00 0.00 0.00 4.44
13 14 6.183361 ACCCATAAATTTACTCTAGCATCCGT 60.183 38.462 0.00 0.00 0.00 4.69
14 15 6.231211 ACCCATAAATTTACTCTAGCATCCG 58.769 40.000 0.00 0.00 0.00 4.18
15 16 7.224297 TGACCCATAAATTTACTCTAGCATCC 58.776 38.462 0.00 0.00 0.00 3.51
16 17 7.095017 GCTGACCCATAAATTTACTCTAGCATC 60.095 40.741 0.00 0.00 0.00 3.91
17 18 6.712547 GCTGACCCATAAATTTACTCTAGCAT 59.287 38.462 0.00 0.00 0.00 3.79
18 19 6.055588 GCTGACCCATAAATTTACTCTAGCA 58.944 40.000 0.00 0.00 0.00 3.49
19 20 6.055588 TGCTGACCCATAAATTTACTCTAGC 58.944 40.000 0.00 6.97 0.00 3.42
20 21 8.562892 CAATGCTGACCCATAAATTTACTCTAG 58.437 37.037 0.00 0.00 0.00 2.43
21 22 7.502226 CCAATGCTGACCCATAAATTTACTCTA 59.498 37.037 0.00 0.00 0.00 2.43
22 23 6.322201 CCAATGCTGACCCATAAATTTACTCT 59.678 38.462 0.00 0.00 0.00 3.24
23 24 6.321181 TCCAATGCTGACCCATAAATTTACTC 59.679 38.462 0.00 0.00 0.00 2.59
24 25 6.194235 TCCAATGCTGACCCATAAATTTACT 58.806 36.000 0.00 0.00 0.00 2.24
25 26 6.321181 TCTCCAATGCTGACCCATAAATTTAC 59.679 38.462 0.00 0.00 0.00 2.01
26 27 6.430864 TCTCCAATGCTGACCCATAAATTTA 58.569 36.000 0.00 0.00 0.00 1.40
27 28 5.271598 TCTCCAATGCTGACCCATAAATTT 58.728 37.500 0.00 0.00 0.00 1.82
28 29 4.870636 TCTCCAATGCTGACCCATAAATT 58.129 39.130 0.00 0.00 0.00 1.82
29 30 4.524802 TCTCCAATGCTGACCCATAAAT 57.475 40.909 0.00 0.00 0.00 1.40
30 31 4.209538 CATCTCCAATGCTGACCCATAAA 58.790 43.478 0.00 0.00 0.00 1.40
31 32 3.824133 CATCTCCAATGCTGACCCATAA 58.176 45.455 0.00 0.00 0.00 1.90
32 33 2.487805 GCATCTCCAATGCTGACCCATA 60.488 50.000 2.84 0.00 41.52 2.74
33 34 1.753141 GCATCTCCAATGCTGACCCAT 60.753 52.381 2.84 0.00 41.52 4.00
34 35 0.394762 GCATCTCCAATGCTGACCCA 60.395 55.000 2.84 0.00 41.52 4.51
35 36 1.105759 GGCATCTCCAATGCTGACCC 61.106 60.000 9.62 0.00 44.02 4.46
36 37 0.106819 AGGCATCTCCAATGCTGACC 60.107 55.000 9.62 0.00 44.02 4.02
37 38 1.760192 AAGGCATCTCCAATGCTGAC 58.240 50.000 9.62 0.00 44.02 3.51
38 39 3.650281 TTAAGGCATCTCCAATGCTGA 57.350 42.857 9.62 0.00 44.02 4.26
39 40 5.105877 CCATATTAAGGCATCTCCAATGCTG 60.106 44.000 9.62 0.00 44.02 4.41
40 41 5.014858 CCATATTAAGGCATCTCCAATGCT 58.985 41.667 9.62 0.00 44.02 3.79
41 42 5.320549 CCATATTAAGGCATCTCCAATGC 57.679 43.478 1.40 1.40 43.85 3.56
55 56 7.667575 TTTGATTAGCAAAGGGCCATATTAA 57.332 32.000 6.18 0.00 46.50 1.40
84 86 2.960129 GTAATCGCACGCGGGAGG 60.960 66.667 15.48 2.00 37.53 4.30
90 92 1.136085 ACACATGTTGTAATCGCACGC 60.136 47.619 0.00 0.00 36.32 5.34
94 96 3.479006 GTGACACACATGTTGTAATCGC 58.521 45.455 11.87 9.88 39.95 4.58
95 97 3.745975 AGGTGACACACATGTTGTAATCG 59.254 43.478 8.08 0.00 39.95 3.34
136 138 5.050091 CGAGTTGAGTTGAGTGCTTGTATTT 60.050 40.000 0.00 0.00 0.00 1.40
145 147 5.343593 GTGTTAGATCGAGTTGAGTTGAGTG 59.656 44.000 0.00 0.00 0.00 3.51
191 193 5.899120 ATTGCAGTAGAGTACTCGAAAGA 57.101 39.130 17.07 2.55 36.76 2.52
247 249 6.093082 TGAGTATGTGACGGATATATGTACGG 59.907 42.308 9.07 0.00 0.00 4.02
250 252 7.989416 TGTGAGTATGTGACGGATATATGTA 57.011 36.000 0.00 0.00 0.00 2.29
325 327 5.253330 GACCAATGTCTTGAATGGGTTCTA 58.747 41.667 0.00 0.00 38.53 2.10
375 379 8.890951 GCGACCAAACAAAATTTATTTCAAATG 58.109 29.630 0.00 0.00 0.00 2.32
381 385 7.308782 TGTTGCGACCAAACAAAATTTATTT 57.691 28.000 0.45 0.00 31.68 1.40
477 481 9.284594 CAGAAATTCGTAGAAAAACAGTTCAAA 57.715 29.630 0.00 0.00 45.90 2.69
479 483 6.910433 GCAGAAATTCGTAGAAAAACAGTTCA 59.090 34.615 0.00 0.00 45.90 3.18
480 484 6.910433 TGCAGAAATTCGTAGAAAAACAGTTC 59.090 34.615 0.00 0.00 45.90 3.01
482 486 6.371809 TGCAGAAATTCGTAGAAAAACAGT 57.628 33.333 0.00 0.00 45.90 3.55
483 487 7.858052 AATGCAGAAATTCGTAGAAAAACAG 57.142 32.000 0.00 0.00 45.90 3.16
484 488 8.641499 AAAATGCAGAAATTCGTAGAAAAACA 57.359 26.923 0.00 0.00 45.90 2.83
564 1661 5.221742 GGGGACATCTCTTACCTTTATGGAG 60.222 48.000 0.00 0.00 39.71 3.86
565 1662 4.658901 GGGGACATCTCTTACCTTTATGGA 59.341 45.833 0.00 0.00 39.71 3.41
566 1663 4.202472 GGGGGACATCTCTTACCTTTATGG 60.202 50.000 0.00 0.00 42.93 2.74
567 1664 4.660771 AGGGGGACATCTCTTACCTTTATG 59.339 45.833 0.00 0.00 0.00 1.90
568 1665 4.908481 GAGGGGGACATCTCTTACCTTTAT 59.092 45.833 0.00 0.00 38.35 1.40
573 1670 1.425694 GGAGGGGGACATCTCTTACC 58.574 60.000 0.00 0.00 41.91 2.85
588 1685 0.738975 TCACGATGCTAAGACGGAGG 59.261 55.000 0.00 0.00 0.00 4.30
612 1709 7.065324 CGAAAGGTGTAATAATTTGGCTCTGTA 59.935 37.037 0.00 0.00 0.00 2.74
616 1713 6.190954 ACGAAAGGTGTAATAATTTGGCTC 57.809 37.500 0.00 0.00 0.00 4.70
634 1731 5.950883 TGTTTTGGTGACATTTGTACGAAA 58.049 33.333 0.00 0.00 42.32 3.46
675 1772 5.524646 AGGTGCAACTGAATTCATGTTTTTG 59.475 36.000 1.66 8.62 36.74 2.44
697 1796 1.614996 TGTGTGGTGGTTTGCATAGG 58.385 50.000 0.00 0.00 0.00 2.57
870 1972 5.316158 AGTCATTGGATAATTCAGGGGAG 57.684 43.478 0.00 0.00 0.00 4.30
984 2097 1.452651 CATGGCTGGTAGGTGGCTG 60.453 63.158 0.00 0.00 0.00 4.85
988 2101 1.091771 CGCTTCATGGCTGGTAGGTG 61.092 60.000 0.00 0.00 0.00 4.00
1743 2865 2.419297 GCTCTTGGACTCGAACATGGAT 60.419 50.000 0.00 0.00 0.00 3.41
1811 2933 4.410400 GCGGGGTGGACTGGAAGG 62.410 72.222 0.00 0.00 39.30 3.46
1831 2953 2.581354 CTGCGAGGGGTCCTTGAG 59.419 66.667 5.42 0.00 37.20 3.02
2347 3469 6.878923 TCCTCTGTACAATTTCACCATTACAG 59.121 38.462 0.00 0.00 36.11 2.74
2368 3490 4.270808 GTGCTACGAGTTCTACTACTCCTC 59.729 50.000 0.00 0.00 41.18 3.71
2431 3558 2.376231 TTACACGGCCGCACAAAACG 62.376 55.000 28.58 5.96 0.00 3.60
2432 3559 0.248539 TTTACACGGCCGCACAAAAC 60.249 50.000 28.58 0.00 0.00 2.43
2527 3654 9.841295 AATTTTCCAAACTCTGTACAAGTAGTA 57.159 29.630 9.98 0.00 0.00 1.82
2528 3655 8.747538 AATTTTCCAAACTCTGTACAAGTAGT 57.252 30.769 9.98 5.53 0.00 2.73
2529 3656 8.290325 GGAATTTTCCAAACTCTGTACAAGTAG 58.710 37.037 4.43 5.00 46.76 2.57
2530 3657 8.161699 GGAATTTTCCAAACTCTGTACAAGTA 57.838 34.615 4.43 0.00 46.76 2.24
2531 3658 7.039313 GGAATTTTCCAAACTCTGTACAAGT 57.961 36.000 4.43 0.98 46.76 3.16
2566 3693 2.191128 AAGTTGCTCTAAGTGCCCAG 57.809 50.000 0.00 0.00 0.00 4.45
2567 3694 2.656947 AAAGTTGCTCTAAGTGCCCA 57.343 45.000 0.00 0.00 0.00 5.36
2568 3695 4.142381 CCATTAAAGTTGCTCTAAGTGCCC 60.142 45.833 0.00 0.00 0.00 5.36
2569 3696 4.142381 CCCATTAAAGTTGCTCTAAGTGCC 60.142 45.833 0.00 0.00 0.00 5.01
2570 3697 4.142381 CCCCATTAAAGTTGCTCTAAGTGC 60.142 45.833 0.00 0.00 0.00 4.40
2571 3698 4.142381 GCCCCATTAAAGTTGCTCTAAGTG 60.142 45.833 0.00 0.00 0.00 3.16
2585 3712 4.142049 GGACAAAATGAATCGCCCCATTAA 60.142 41.667 0.00 0.00 33.13 1.40
2719 3846 0.739462 CGCCGACACAAATCAGGCTA 60.739 55.000 3.24 0.00 45.16 3.93
2769 3896 1.305549 GACCCGGGGACAGGAGTAA 60.306 63.158 27.92 0.00 0.00 2.24
2786 3913 4.314440 GTGCCACAGACCAGCGGA 62.314 66.667 1.50 0.00 0.00 5.54
2812 3939 1.298667 GCTTGTTAGCCGGGAAGGA 59.701 57.895 2.18 0.00 45.00 3.36
2855 3984 1.287815 GGTGACGACATCGGTGACA 59.712 57.895 0.65 0.00 44.95 3.58
2864 3993 0.309302 CGCAAAAATGGGTGACGACA 59.691 50.000 0.00 0.00 0.00 4.35
2866 3995 1.953017 CCGCAAAAATGGGTGACGA 59.047 52.632 0.00 0.00 0.00 4.20
2869 3998 1.899054 TCGCCGCAAAAATGGGTGA 60.899 52.632 0.00 0.00 37.98 4.02
2977 4158 2.257371 CGTCTTCTTGGTCGCGGA 59.743 61.111 6.13 0.00 0.00 5.54
3088 4271 1.585006 GGCGTCGAAGAAGGAGACA 59.415 57.895 1.37 0.00 39.69 3.41
3212 4396 0.107456 CGGCAGCCAATATCACCTCT 59.893 55.000 13.30 0.00 0.00 3.69
3217 4401 1.093972 CAACACGGCAGCCAATATCA 58.906 50.000 13.30 0.00 0.00 2.15
3240 4427 2.586425 CTGGTTGTTGAGGTGGTGATT 58.414 47.619 0.00 0.00 0.00 2.57
3315 4502 1.221840 GGAAATGCCCGCTCTCTCA 59.778 57.895 0.00 0.00 0.00 3.27


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

AutoCloner maintained by Alex Coulton.