Multiple sequence alignment - TraesCS1D01G086600

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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 TraesCS1D01G086600 chr1D 100.000 4698 0 0 1 4698 71047513 71042816 0.000000e+00 8676.0
1 TraesCS1D01G086600 chr1B 95.045 3209 91 26 856 4019 112697957 112694772 0.000000e+00 4983.0
2 TraesCS1D01G086600 chr1B 92.696 575 39 3 4126 4698 659516284 659516857 0.000000e+00 826.0
3 TraesCS1D01G086600 chr1A 94.706 2399 67 11 1766 4127 71560169 71557794 0.000000e+00 3672.0
4 TraesCS1D01G086600 chr1A 95.477 995 23 8 793 1768 71561435 71560444 0.000000e+00 1568.0
5 TraesCS1D01G086600 chr1A 86.709 158 11 2 1 158 71561583 71561436 2.910000e-37 167.0
6 TraesCS1D01G086600 chr3A 95.382 628 20 4 169 788 13156934 13156308 0.000000e+00 990.0
7 TraesCS1D01G086600 chr3A 92.907 578 35 3 4126 4698 708537549 708538125 0.000000e+00 835.0
8 TraesCS1D01G086600 chr6A 94.646 635 24 5 158 785 591879021 591878390 0.000000e+00 976.0
9 TraesCS1D01G086600 chr6A 94.258 627 27 4 169 787 121928119 121928744 0.000000e+00 950.0
10 TraesCS1D01G086600 chrUn 94.728 626 25 3 168 785 277522822 277522197 0.000000e+00 966.0
11 TraesCS1D01G086600 chr7A 94.569 626 26 3 168 785 6241174 6241799 0.000000e+00 961.0
12 TraesCS1D01G086600 chr7A 94.409 626 27 3 168 785 6171525 6172150 0.000000e+00 955.0
13 TraesCS1D01G086600 chr7A 93.728 574 30 3 4127 4698 700106269 700106838 0.000000e+00 856.0
14 TraesCS1D01G086600 chr7A 79.498 239 37 10 2500 2735 278335304 278335533 4.870000e-35 159.0
15 TraesCS1D01G086600 chr3D 94.400 625 27 5 169 785 95449700 95450324 0.000000e+00 953.0
16 TraesCS1D01G086600 chr3D 94.261 575 31 2 4126 4698 196945397 196945971 0.000000e+00 878.0
17 TraesCS1D01G086600 chr4B 93.740 639 31 4 152 782 647026871 647026234 0.000000e+00 950.0
18 TraesCS1D01G086600 chr5B 94.212 622 28 3 169 782 551513921 551513300 0.000000e+00 942.0
19 TraesCS1D01G086600 chr5B 92.894 577 40 1 4123 4698 355237784 355238360 0.000000e+00 837.0
20 TraesCS1D01G086600 chr5B 93.031 574 39 1 4126 4698 512934342 512933769 0.000000e+00 837.0
21 TraesCS1D01G086600 chr6B 95.122 574 27 1 4126 4698 46621470 46620897 0.000000e+00 904.0
22 TraesCS1D01G086600 chr6B 93.554 574 33 4 4126 4697 41332402 41331831 0.000000e+00 852.0
23 TraesCS1D01G086600 chr7D 92.228 579 37 7 4123 4698 631062379 631062952 0.000000e+00 813.0
24 TraesCS1D01G086600 chr3B 80.989 263 41 7 2500 2757 728611351 728611609 2.870000e-47 200.0
25 TraesCS1D01G086600 chr5A 84.615 91 14 0 3974 4064 52440667 52440757 1.800000e-14 91.6
26 TraesCS1D01G086600 chr5A 80.208 96 15 2 3969 4062 205824917 205825010 8.440000e-08 69.4
27 TraesCS1D01G086600 chr5D 82.474 97 15 2 3969 4064 150272514 150272419 3.010000e-12 84.2
28 TraesCS1D01G086600 chr2B 82.474 97 16 1 3969 4064 41432671 41432575 3.010000e-12 84.2
29 TraesCS1D01G086600 chr2A 86.667 75 9 1 4053 4127 28686961 28687034 1.080000e-11 82.4
30 TraesCS1D01G086600 chr2D 97.297 37 1 0 2440 2476 570132191 570132227 3.920000e-06 63.9
31 TraesCS1D01G086600 chr4A 89.362 47 3 2 3977 4022 16177844 16177799 1.830000e-04 58.4


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 TraesCS1D01G086600 chr1D 71042816 71047513 4697 True 8676.000000 8676 100.000000 1 4698 1 chr1D.!!$R1 4697
1 TraesCS1D01G086600 chr1B 112694772 112697957 3185 True 4983.000000 4983 95.045000 856 4019 1 chr1B.!!$R1 3163
2 TraesCS1D01G086600 chr1B 659516284 659516857 573 False 826.000000 826 92.696000 4126 4698 1 chr1B.!!$F1 572
3 TraesCS1D01G086600 chr1A 71557794 71561583 3789 True 1802.333333 3672 92.297333 1 4127 3 chr1A.!!$R1 4126
4 TraesCS1D01G086600 chr3A 13156308 13156934 626 True 990.000000 990 95.382000 169 788 1 chr3A.!!$R1 619
5 TraesCS1D01G086600 chr3A 708537549 708538125 576 False 835.000000 835 92.907000 4126 4698 1 chr3A.!!$F1 572
6 TraesCS1D01G086600 chr6A 591878390 591879021 631 True 976.000000 976 94.646000 158 785 1 chr6A.!!$R1 627
7 TraesCS1D01G086600 chr6A 121928119 121928744 625 False 950.000000 950 94.258000 169 787 1 chr6A.!!$F1 618
8 TraesCS1D01G086600 chrUn 277522197 277522822 625 True 966.000000 966 94.728000 168 785 1 chrUn.!!$R1 617
9 TraesCS1D01G086600 chr7A 6241174 6241799 625 False 961.000000 961 94.569000 168 785 1 chr7A.!!$F2 617
10 TraesCS1D01G086600 chr7A 6171525 6172150 625 False 955.000000 955 94.409000 168 785 1 chr7A.!!$F1 617
11 TraesCS1D01G086600 chr7A 700106269 700106838 569 False 856.000000 856 93.728000 4127 4698 1 chr7A.!!$F4 571
12 TraesCS1D01G086600 chr3D 95449700 95450324 624 False 953.000000 953 94.400000 169 785 1 chr3D.!!$F1 616
13 TraesCS1D01G086600 chr3D 196945397 196945971 574 False 878.000000 878 94.261000 4126 4698 1 chr3D.!!$F2 572
14 TraesCS1D01G086600 chr4B 647026234 647026871 637 True 950.000000 950 93.740000 152 782 1 chr4B.!!$R1 630
15 TraesCS1D01G086600 chr5B 551513300 551513921 621 True 942.000000 942 94.212000 169 782 1 chr5B.!!$R2 613
16 TraesCS1D01G086600 chr5B 355237784 355238360 576 False 837.000000 837 92.894000 4123 4698 1 chr5B.!!$F1 575
17 TraesCS1D01G086600 chr5B 512933769 512934342 573 True 837.000000 837 93.031000 4126 4698 1 chr5B.!!$R1 572
18 TraesCS1D01G086600 chr6B 46620897 46621470 573 True 904.000000 904 95.122000 4126 4698 1 chr6B.!!$R2 572
19 TraesCS1D01G086600 chr6B 41331831 41332402 571 True 852.000000 852 93.554000 4126 4697 1 chr6B.!!$R1 571
20 TraesCS1D01G086600 chr7D 631062379 631062952 573 False 813.000000 813 92.228000 4123 4698 1 chr7D.!!$F1 575

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
64 65 0.597637 CATCGGACGGTGATGTAGGC 60.598 60.000 0.0 0.0 38.69 3.93 F
798 809 1.066858 AGGGTGAGCATGACTACAACG 60.067 52.381 0.0 0.0 0.00 4.10 F
2289 2603 2.161808 CAGCTCTGCTCTGTTCCAAATG 59.838 50.000 0.0 0.0 36.40 2.32 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1773 2085 2.762887 TCAACACCACATTTTTGCCTGA 59.237 40.909 0.00 0.0 0.0 3.86 R
2333 2647 2.949447 ACACAAAAGAATGTCAGGGCT 58.051 42.857 0.00 0.0 0.0 5.19 R
4259 4614 2.048597 TTCGCGGTGGTAGTGCTG 60.049 61.111 6.13 0.0 0.0 4.41 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
29 30 4.944317 GGGAGAAGGAACGAAAGATCAAAT 59.056 41.667 0.00 0.00 34.15 2.32
30 31 5.163713 GGGAGAAGGAACGAAAGATCAAATG 60.164 44.000 0.00 0.00 34.15 2.32
35 36 5.772521 AGGAACGAAAGATCAAATGGTTTG 58.227 37.500 0.00 0.00 41.96 2.93
50 51 1.963855 TTTGGGTGTGTCGCATCGG 60.964 57.895 0.00 0.00 38.73 4.18
54 55 3.179265 GTGTGTCGCATCGGACGG 61.179 66.667 0.00 0.00 39.83 4.79
59 60 2.104132 TCGCATCGGACGGTGATG 59.896 61.111 9.44 8.81 44.77 3.07
64 65 0.597637 CATCGGACGGTGATGTAGGC 60.598 60.000 0.00 0.00 38.69 3.93
65 66 2.071844 ATCGGACGGTGATGTAGGCG 62.072 60.000 0.00 0.00 0.00 5.52
66 67 2.106332 GGACGGTGATGTAGGCGG 59.894 66.667 0.00 0.00 0.00 6.13
67 68 2.585247 GACGGTGATGTAGGCGGC 60.585 66.667 0.00 0.00 0.00 6.53
68 69 3.365291 GACGGTGATGTAGGCGGCA 62.365 63.158 13.08 0.00 0.00 5.69
69 70 2.890474 CGGTGATGTAGGCGGCAC 60.890 66.667 13.08 8.19 0.00 5.01
70 71 2.267642 GGTGATGTAGGCGGCACA 59.732 61.111 13.08 13.97 33.09 4.57
71 72 1.153168 GGTGATGTAGGCGGCACAT 60.153 57.895 20.96 20.96 39.31 3.21
158 159 3.424039 CGACTCATGACATTTCACTGCAC 60.424 47.826 0.00 0.00 33.38 4.57
159 160 3.748083 ACTCATGACATTTCACTGCACT 58.252 40.909 0.00 0.00 33.38 4.40
160 161 3.501062 ACTCATGACATTTCACTGCACTG 59.499 43.478 0.00 0.00 33.38 3.66
161 162 2.227149 TCATGACATTTCACTGCACTGC 59.773 45.455 0.00 0.00 33.38 4.40
162 163 1.677942 TGACATTTCACTGCACTGCA 58.322 45.000 3.11 3.11 36.92 4.41
163 164 2.232399 TGACATTTCACTGCACTGCAT 58.768 42.857 3.64 0.00 38.13 3.96
164 165 2.030628 TGACATTTCACTGCACTGCATG 60.031 45.455 3.64 5.74 38.13 4.06
165 166 2.227149 GACATTTCACTGCACTGCATGA 59.773 45.455 3.64 7.93 38.13 3.07
166 167 2.030540 ACATTTCACTGCACTGCATGAC 60.031 45.455 3.64 0.00 38.13 3.06
300 306 7.493367 ACCGATTTGAACTTTGGTTTTTATGA 58.507 30.769 0.00 0.00 35.58 2.15
346 355 8.073167 GGTTAACCGAATAAACCGAAGTAAAAA 58.927 33.333 9.34 0.00 33.85 1.94
379 388 1.847818 TCTTGAGACGAACAACCGTG 58.152 50.000 0.00 0.00 43.49 4.94
615 626 4.145585 CGTCATTTTCAAATTCGCGTCAAA 59.854 37.500 5.77 0.00 0.00 2.69
735 746 9.382275 AGTATTAATACCGTACAAACCGAAAAT 57.618 29.630 19.74 0.00 33.79 1.82
788 799 1.672356 GAACGCACAGGGTGAGCAT 60.672 57.895 0.00 0.00 36.85 3.79
789 800 1.915614 GAACGCACAGGGTGAGCATG 61.916 60.000 0.00 0.00 36.85 4.06
790 801 2.046988 CGCACAGGGTGAGCATGA 60.047 61.111 2.42 0.00 33.49 3.07
791 802 2.393768 CGCACAGGGTGAGCATGAC 61.394 63.158 2.42 0.00 33.49 3.06
798 809 1.066858 AGGGTGAGCATGACTACAACG 60.067 52.381 0.00 0.00 0.00 4.10
813 824 5.012239 ACTACAACGAGACACACCCTTATA 58.988 41.667 0.00 0.00 0.00 0.98
1420 1450 3.578688 GAAAATGTGGCAAGATTCGCTT 58.421 40.909 0.00 0.00 37.29 4.68
1424 1454 2.778299 TGTGGCAAGATTCGCTTAACT 58.222 42.857 0.00 0.00 34.31 2.24
1491 1521 2.230025 CCTGGCCTCGTAGATGACTATG 59.770 54.545 3.32 0.00 37.07 2.23
1496 1526 3.254657 GCCTCGTAGATGACTATGCTTCT 59.745 47.826 0.00 0.00 36.05 2.85
1509 1539 7.559486 TGACTATGCTTCTGAAGTTGATGTAT 58.441 34.615 17.97 0.87 0.00 2.29
1544 1574 9.559958 GTTTGTGATTATAATGGACAGTTTGAG 57.440 33.333 1.78 0.00 0.00 3.02
1699 1733 8.764524 AGGTATCAATAGTTTCAGCGATAATC 57.235 34.615 0.00 0.00 0.00 1.75
1715 1750 6.072673 AGCGATAATCCTTTTAAAATAGGCGG 60.073 38.462 0.09 0.00 0.00 6.13
1773 2085 7.413446 TCAGATATTTCCATGTTTTTCCTCCT 58.587 34.615 0.00 0.00 0.00 3.69
1877 2189 6.311200 GCCAAGTAAATTCCAAAGTTAGCATG 59.689 38.462 0.00 0.00 0.00 4.06
1999 2313 5.316987 TCCTTCCTTTTTCATTCCTCTGAC 58.683 41.667 0.00 0.00 0.00 3.51
2289 2603 2.161808 CAGCTCTGCTCTGTTCCAAATG 59.838 50.000 0.00 0.00 36.40 2.32
2333 2647 9.920946 AAATCTGGGTAGCAGAATCTTTTAATA 57.079 29.630 0.00 0.00 31.89 0.98
2348 2662 8.829373 ATCTTTTAATAGCCCTGACATTCTTT 57.171 30.769 0.00 0.00 0.00 2.52
2489 2803 7.055667 TGCTAATATGTCCTGTTCTTCTAGG 57.944 40.000 0.00 0.00 35.34 3.02
2548 2862 2.351276 CCTCCCTTGGTTCCCGTG 59.649 66.667 0.00 0.00 0.00 4.94
2580 2894 4.434725 CGATGTGCATGTGTTCAAGTCTAC 60.435 45.833 0.00 0.00 0.00 2.59
2659 2973 7.496920 CCTCTGAATTCTGACATATGCAGTTTA 59.503 37.037 19.76 11.37 34.98 2.01
2815 3129 6.371548 TGAAATTCTGGAATAGTTGGTTCGAG 59.628 38.462 0.00 0.00 34.10 4.04
3242 3556 6.455360 TGGTACTTGGTAGTTAGATTACCG 57.545 41.667 0.00 0.00 42.85 4.02
3415 3744 7.604549 AGTTGAATCATATGATTGTTGTGCAA 58.395 30.769 30.86 23.24 44.14 4.08
4027 4378 1.202794 TGCATCTGTGGCAAGACTCAA 60.203 47.619 0.00 0.00 38.54 3.02
4077 4428 3.496337 CCATGTTCTAGGCAGATGCAGAT 60.496 47.826 7.19 0.00 44.36 2.90
4083 4434 0.815734 AGGCAGATGCAGATTGTTGC 59.184 50.000 7.19 0.00 44.36 4.17
4086 4437 1.469251 GCAGATGCAGATTGTTGCTGG 60.469 52.381 0.00 0.00 44.38 4.85
4143 4494 6.404954 CCTCTTGTTACCGAAAAAGGTTTTCA 60.405 38.462 12.53 0.00 43.00 2.69
4392 4751 3.399181 TTTCCTCCGGAGCCGCAT 61.399 61.111 26.87 0.00 38.24 4.73
4638 4998 3.190079 CATCTATGACCTTGACACCACG 58.810 50.000 0.00 0.00 0.00 4.94
4675 5035 2.576191 CCCTATCCCAACCAAAGAGACA 59.424 50.000 0.00 0.00 0.00 3.41
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
18 19 4.990426 CACACCCAAACCATTTGATCTTTC 59.010 41.667 2.86 0.00 43.26 2.62
19 20 4.408596 ACACACCCAAACCATTTGATCTTT 59.591 37.500 2.86 0.00 43.26 2.52
29 30 1.152860 ATGCGACACACCCAAACCA 60.153 52.632 0.00 0.00 0.00 3.67
30 31 1.579429 GATGCGACACACCCAAACC 59.421 57.895 0.00 0.00 0.00 3.27
35 36 2.813908 GTCCGATGCGACACACCC 60.814 66.667 0.00 0.00 32.74 4.61
50 51 2.585247 GCCGCCTACATCACCGTC 60.585 66.667 0.00 0.00 0.00 4.79
54 55 4.540153 ATGTGCCGCCTACATCAC 57.460 55.556 0.00 0.00 33.72 3.06
59 60 4.530857 AGCCGATGTGCCGCCTAC 62.531 66.667 0.00 0.00 0.00 3.18
64 65 0.530650 ACTAATCAGCCGATGTGCCG 60.531 55.000 0.00 0.00 30.13 5.69
65 66 1.599542 GAACTAATCAGCCGATGTGCC 59.400 52.381 0.00 0.00 30.13 5.01
66 67 2.541762 GAGAACTAATCAGCCGATGTGC 59.458 50.000 0.00 0.00 30.13 4.57
67 68 2.791560 CGAGAACTAATCAGCCGATGTG 59.208 50.000 0.00 0.00 30.13 3.21
68 69 2.799917 GCGAGAACTAATCAGCCGATGT 60.800 50.000 0.00 0.00 30.13 3.06
69 70 1.789464 GCGAGAACTAATCAGCCGATG 59.211 52.381 0.00 0.00 30.13 3.84
70 71 1.600663 CGCGAGAACTAATCAGCCGAT 60.601 52.381 0.00 0.00 32.47 4.18
71 72 0.248498 CGCGAGAACTAATCAGCCGA 60.248 55.000 0.00 0.00 32.47 5.54
109 110 3.578456 CCAAGTAGGGCAACGCTG 58.422 61.111 0.00 0.00 37.60 5.18
122 123 2.047560 GTCGGACCCGTTCCCAAG 60.048 66.667 8.42 0.00 42.27 3.61
137 138 3.750130 AGTGCAGTGAAATGTCATGAGTC 59.250 43.478 0.00 0.00 35.80 3.36
158 159 1.463831 GCACAGAGTGAAGTCATGCAG 59.536 52.381 0.58 0.00 35.23 4.41
159 160 1.202675 TGCACAGAGTGAAGTCATGCA 60.203 47.619 11.13 11.13 38.06 3.96
160 161 1.516161 TGCACAGAGTGAAGTCATGC 58.484 50.000 0.58 7.22 35.23 4.06
161 162 4.761235 AAATGCACAGAGTGAAGTCATG 57.239 40.909 0.58 0.00 35.23 3.07
162 163 6.882610 TTAAAATGCACAGAGTGAAGTCAT 57.117 33.333 0.58 0.00 35.23 3.06
163 164 6.691754 TTTAAAATGCACAGAGTGAAGTCA 57.308 33.333 0.58 0.00 35.23 3.41
164 165 6.417930 GGTTTTAAAATGCACAGAGTGAAGTC 59.582 38.462 3.52 0.00 35.23 3.01
165 166 6.273071 GGTTTTAAAATGCACAGAGTGAAGT 58.727 36.000 3.52 0.00 35.23 3.01
166 167 5.399301 CGGTTTTAAAATGCACAGAGTGAAG 59.601 40.000 3.52 0.00 35.23 3.02
300 306 8.611757 GTTAACCGTTCGGTTTTTGGTATATAT 58.388 33.333 29.62 8.01 45.24 0.86
368 377 2.853457 CAACTTGCACGGTTGTTCG 58.147 52.632 18.28 0.00 39.14 3.95
379 388 7.434897 TCATGTACAAGAAAAATGACAACTTGC 59.565 33.333 0.00 0.00 40.72 4.01
707 718 8.770438 TTCGGTTTGTACGGTATTAATACTTT 57.230 30.769 21.86 13.05 33.81 2.66
735 746 6.543100 GGTTTACATGGTTCGGTTTATATGGA 59.457 38.462 0.00 0.00 0.00 3.41
788 799 1.338973 GGGTGTGTCTCGTTGTAGTCA 59.661 52.381 0.00 0.00 0.00 3.41
789 800 1.612463 AGGGTGTGTCTCGTTGTAGTC 59.388 52.381 0.00 0.00 0.00 2.59
790 801 1.700955 AGGGTGTGTCTCGTTGTAGT 58.299 50.000 0.00 0.00 0.00 2.73
791 802 2.814280 AAGGGTGTGTCTCGTTGTAG 57.186 50.000 0.00 0.00 0.00 2.74
798 809 4.073293 CCCACATATAAGGGTGTGTCTC 57.927 50.000 3.90 0.00 43.14 3.36
813 824 8.755028 GGTTTGGATAAAATTTAGTACCCACAT 58.245 33.333 0.00 0.00 0.00 3.21
830 841 1.073931 TTGGGGAACGGGTTTGGATA 58.926 50.000 0.00 0.00 0.00 2.59
832 843 0.540830 CATTGGGGAACGGGTTTGGA 60.541 55.000 0.00 0.00 0.00 3.53
1420 1450 7.014326 AGAGATCAATTCGGCACACTATAGTTA 59.986 37.037 1.56 0.00 0.00 2.24
1424 1454 5.791336 AGAGATCAATTCGGCACACTATA 57.209 39.130 0.00 0.00 0.00 1.31
1491 1521 7.148672 CGATCCATATACATCAACTTCAGAAGC 60.149 40.741 10.33 0.00 0.00 3.86
1496 1526 6.419484 ACCGATCCATATACATCAACTTCA 57.581 37.500 0.00 0.00 0.00 3.02
1509 1539 8.379331 TCCATTATAATCACAAACCGATCCATA 58.621 33.333 0.00 0.00 0.00 2.74
1544 1574 7.806149 AAAACAAACAGTACAGTAGCAAAAC 57.194 32.000 0.00 0.00 0.00 2.43
1699 1733 5.126384 TCCATTCACCGCCTATTTTAAAAGG 59.874 40.000 6.79 4.26 35.86 3.11
1715 1750 5.863935 GCTTTCACAACCTTATTCCATTCAC 59.136 40.000 0.00 0.00 0.00 3.18
1773 2085 2.762887 TCAACACCACATTTTTGCCTGA 59.237 40.909 0.00 0.00 0.00 3.86
1832 2144 3.056322 GGCCAGAAAGCAGTGAATTCAAT 60.056 43.478 10.35 6.06 0.00 2.57
1903 2215 3.195396 AGCTTTTCTTGAACAAGGTTGCA 59.805 39.130 13.46 0.00 38.88 4.08
1953 2267 5.700402 ACTGCATGGAAAGTATAGAAGGT 57.300 39.130 0.00 0.00 0.00 3.50
2289 2603 6.039616 CAGATTTCTGTGGTCTAGCTAGAAC 58.960 44.000 28.64 28.64 39.09 3.01
2333 2647 2.949447 ACACAAAAGAATGTCAGGGCT 58.051 42.857 0.00 0.00 0.00 5.19
2489 2803 4.072131 TGGATGAGCAAAGGAAGTTGTAC 58.928 43.478 0.00 0.00 0.00 2.90
2548 2862 3.173599 CACATGCACATCGGAAAATCAC 58.826 45.455 0.00 0.00 0.00 3.06
2580 2894 8.446273 CCTGCTAGAAATGAATATAATCAACCG 58.554 37.037 0.00 0.00 32.06 4.44
2659 2973 5.990713 ATTCTCTCTTCCCCATCTTCAAT 57.009 39.130 0.00 0.00 0.00 2.57
2815 3129 5.886960 AGACAATAGAACTGCAAATGGTC 57.113 39.130 0.00 0.00 0.00 4.02
3186 3500 6.846325 AGGTCTAAAATCAGCTAAATACGC 57.154 37.500 0.00 0.00 0.00 4.42
3242 3556 8.693504 CAATCGAAAATATATTGTCATGTTGCC 58.306 33.333 14.66 0.00 0.00 4.52
3277 3606 8.201464 TGTTTCGACCTGAATATAAGAAGCATA 58.799 33.333 0.00 0.00 36.22 3.14
3278 3607 7.047891 TGTTTCGACCTGAATATAAGAAGCAT 58.952 34.615 0.00 0.00 36.22 3.79
3415 3744 2.948979 TCTGTCAATCCGCAAAAACTGT 59.051 40.909 0.00 0.00 0.00 3.55
3464 3793 3.258722 AGGGGCAAGAATTTCAAAGGA 57.741 42.857 0.00 0.00 0.00 3.36
3856 4200 8.336235 GGGGGAATTCTGGATATACATTGAATA 58.664 37.037 5.23 0.00 0.00 1.75
3946 4297 6.486657 CCTAGGAATCAGTGTGAAAGTGAAAA 59.513 38.462 1.05 0.00 41.61 2.29
4027 4378 2.233271 CCTGTTTTCACTCAGCATGGT 58.767 47.619 0.00 0.00 36.16 3.55
4077 4428 2.223923 GCACATAACCAACCAGCAACAA 60.224 45.455 0.00 0.00 0.00 2.83
4083 4434 2.360483 TGTGTTGCACATAACCAACCAG 59.640 45.455 0.00 0.00 39.62 4.00
4255 4610 3.319198 CGGTGGTAGTGCTGGGGT 61.319 66.667 0.00 0.00 0.00 4.95
4259 4614 2.048597 TTCGCGGTGGTAGTGCTG 60.049 61.111 6.13 0.00 0.00 4.41
4392 4751 2.268920 GGCTCTCATTGCCCGTCA 59.731 61.111 0.00 0.00 44.32 4.35
4638 4998 2.665603 GGGCAGGTCTCAGGTGAC 59.334 66.667 0.00 0.00 36.31 3.67
4675 5035 2.434774 GGTGGGACCTTTCCGCTT 59.565 61.111 0.00 0.00 43.94 4.68


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

AutoCloner maintained by Alex Coulton.