Multiple sequence alignment - TraesCS2A01G161800

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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 TraesCS2A01G161800 chr2A 100.000 4054 0 0 500 4553 114314061 114310008 0.000000e+00 7487.0
1 TraesCS2A01G161800 chr2A 100.000 258 0 0 1 258 114314560 114314303 1.150000e-130 477.0
2 TraesCS2A01G161800 chr3B 96.003 3553 101 21 583 4111 103242918 103246453 0.000000e+00 5736.0
3 TraesCS2A01G161800 chr2D 97.317 3317 68 10 582 3889 112874514 112871210 0.000000e+00 5613.0
4 TraesCS2A01G161800 chr2D 92.593 648 28 9 3921 4553 112870845 112870203 0.000000e+00 913.0
5 TraesCS2A01G161800 chr2D 95.522 67 3 0 1 67 112888124 112888190 1.730000e-19 108.0
6 TraesCS2A01G161800 chr5B 86.448 2959 323 47 990 3908 58898409 58895489 0.000000e+00 3171.0
7 TraesCS2A01G161800 chr5D 86.202 2870 323 44 1082 3920 56128547 56125720 0.000000e+00 3038.0
8 TraesCS2A01G161800 chr2B 93.489 2012 121 6 1021 3032 163323672 163321671 0.000000e+00 2981.0
9 TraesCS2A01G161800 chr2B 91.791 1547 85 15 3028 4553 163260465 163258940 0.000000e+00 2115.0
10 TraesCS2A01G161800 chr2B 90.000 380 35 3 648 1025 163334116 163333738 5.290000e-134 488.0
11 TraesCS2A01G161800 chr2B 87.109 256 33 0 1 256 163334653 163334398 1.600000e-74 291.0
12 TraesCS2A01G161800 chr2B 98.000 50 1 0 516 565 163334239 163334190 2.260000e-13 87.9
13 TraesCS2A01G161800 chr2B 100.000 32 0 0 500 531 163334313 163334282 4.920000e-05 60.2
14 TraesCS2A01G161800 chr5A 87.646 2048 218 23 1894 3912 44950820 44948779 0.000000e+00 2348.0
15 TraesCS2A01G161800 chr5A 82.559 883 108 23 1024 1904 44951997 44951159 0.000000e+00 736.0
16 TraesCS2A01G161800 chrUn 100.000 409 0 0 2245 2653 477841090 477840682 0.000000e+00 756.0


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 TraesCS2A01G161800 chr2A 114310008 114314560 4552 True 3982.000 7487 100.00000 1 4553 2 chr2A.!!$R1 4552
1 TraesCS2A01G161800 chr3B 103242918 103246453 3535 False 5736.000 5736 96.00300 583 4111 1 chr3B.!!$F1 3528
2 TraesCS2A01G161800 chr2D 112870203 112874514 4311 True 3263.000 5613 94.95500 582 4553 2 chr2D.!!$R1 3971
3 TraesCS2A01G161800 chr5B 58895489 58898409 2920 True 3171.000 3171 86.44800 990 3908 1 chr5B.!!$R1 2918
4 TraesCS2A01G161800 chr5D 56125720 56128547 2827 True 3038.000 3038 86.20200 1082 3920 1 chr5D.!!$R1 2838
5 TraesCS2A01G161800 chr2B 163321671 163323672 2001 True 2981.000 2981 93.48900 1021 3032 1 chr2B.!!$R2 2011
6 TraesCS2A01G161800 chr2B 163258940 163260465 1525 True 2115.000 2115 91.79100 3028 4553 1 chr2B.!!$R1 1525
7 TraesCS2A01G161800 chr2B 163333738 163334653 915 True 231.775 488 93.77725 1 1025 4 chr2B.!!$R3 1024
8 TraesCS2A01G161800 chr5A 44948779 44951997 3218 True 1542.000 2348 85.10250 1024 3912 2 chr5A.!!$R1 2888


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
960 1082 0.248907 TGATTCGAGATTCGCCCGTC 60.249 55.0 0.0 0.0 40.21 4.79 F
1395 1544 0.030297 ATGCAGAGGAGGACCAGGAT 60.030 55.0 0.0 0.0 38.94 3.24 F
2964 3483 0.694771 TGATCTGGGCTTCTGCTGTT 59.305 50.0 0.0 0.0 39.59 3.16 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2243 2759 1.869767 CCTCATAGCGCACCTTCAATC 59.130 52.381 11.47 0.00 0.00 2.67 R
3009 3528 2.065899 ACAAAACCAGCTGCCACTTA 57.934 45.000 8.66 0.00 0.00 2.24 R
4296 5189 0.888619 TCAGGACGAAGCTCGAACAT 59.111 50.000 11.64 2.18 43.74 2.71 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
30 31 1.696336 CTGGATATCCCCAGTCACCTG 59.304 57.143 19.34 0.00 46.62 4.00
51 52 1.086696 TTAGCGTCAGAAGCAATGGC 58.913 50.000 11.18 0.00 41.61 4.40
52 53 0.744414 TAGCGTCAGAAGCAATGGCC 60.744 55.000 11.18 0.00 42.56 5.36
56 57 1.666888 CGTCAGAAGCAATGGCCAAAC 60.667 52.381 10.96 1.32 42.56 2.93
75 76 4.559862 AACGATGGAGGTGAAGATCTTT 57.440 40.909 9.87 0.00 0.00 2.52
79 80 4.202202 CGATGGAGGTGAAGATCTTTAGCT 60.202 45.833 26.46 26.46 39.17 3.32
82 83 4.100189 TGGAGGTGAAGATCTTTAGCTAGC 59.900 45.833 26.28 17.04 37.10 3.42
84 85 2.797719 GGTGAAGATCTTTAGCTAGCGC 59.202 50.000 19.07 0.00 0.00 5.92
94 95 1.328279 TAGCTAGCGCTAATGCCTCA 58.672 50.000 21.20 7.77 46.79 3.86
107 108 2.327343 GCCTCACTGCACGCAATGA 61.327 57.895 2.91 2.91 31.18 2.57
112 113 0.870393 CACTGCACGCAATGAACTCT 59.130 50.000 0.00 0.00 0.00 3.24
125 126 5.163814 GCAATGAACTCTAATATCGATGGGC 60.164 44.000 8.54 0.00 0.00 5.36
149 150 3.937706 GTCCACTCATCCAATGACAAGAG 59.062 47.826 0.00 0.00 35.06 2.85
151 152 2.350804 CACTCATCCAATGACAAGAGCG 59.649 50.000 0.00 0.00 35.06 5.03
152 153 1.329906 CTCATCCAATGACAAGAGCGC 59.670 52.381 0.00 0.00 35.06 5.92
155 156 2.988010 TCCAATGACAAGAGCGCTAT 57.012 45.000 11.50 3.14 0.00 2.97
160 161 3.550437 ATGACAAGAGCGCTATTTCCT 57.450 42.857 15.88 1.39 0.00 3.36
166 167 3.737032 AGAGCGCTATTTCCTAGGAAC 57.263 47.619 24.21 11.45 33.41 3.62
190 191 6.207025 ACGTTCCATCTATATCTCTACACACC 59.793 42.308 0.00 0.00 0.00 4.16
193 194 4.702612 CCATCTATATCTCTACACACCGCT 59.297 45.833 0.00 0.00 0.00 5.52
195 196 2.802787 ATATCTCTACACACCGCTGC 57.197 50.000 0.00 0.00 0.00 5.25
204 205 4.389576 CACCGCTGCTGCCGTTTC 62.390 66.667 10.24 0.00 35.36 2.78
214 215 1.831652 CTGCCGTTTCTCCCACTCCT 61.832 60.000 0.00 0.00 0.00 3.69
218 219 2.152016 CCGTTTCTCCCACTCCTTTTC 58.848 52.381 0.00 0.00 0.00 2.29
224 225 1.279271 CTCCCACTCCTTTTCGGACAT 59.721 52.381 0.00 0.00 36.69 3.06
256 257 2.943033 GTGTATCTTTGCATAGCCCGTT 59.057 45.455 0.00 0.00 0.00 4.44
567 626 4.586841 CCTTGTGGGTTTTGAAAGATACCA 59.413 41.667 0.31 0.00 32.20 3.25
569 628 5.975693 TGTGGGTTTTGAAAGATACCATC 57.024 39.130 0.31 0.00 32.20 3.51
570 629 4.457603 TGTGGGTTTTGAAAGATACCATCG 59.542 41.667 0.31 0.00 32.20 3.84
571 630 4.457949 GTGGGTTTTGAAAGATACCATCGT 59.542 41.667 0.31 0.00 32.20 3.73
572 631 4.457603 TGGGTTTTGAAAGATACCATCGTG 59.542 41.667 0.31 0.00 32.20 4.35
573 632 4.142469 GGGTTTTGAAAGATACCATCGTGG 60.142 45.833 0.31 2.92 45.02 4.94
574 633 4.698304 GGTTTTGAAAGATACCATCGTGGA 59.302 41.667 10.46 0.00 40.96 4.02
575 634 5.357032 GGTTTTGAAAGATACCATCGTGGAT 59.643 40.000 10.46 1.33 40.96 3.41
577 636 5.351948 TTGAAAGATACCATCGTGGATCA 57.648 39.130 10.46 3.53 40.96 2.92
578 637 5.551305 TGAAAGATACCATCGTGGATCAT 57.449 39.130 10.46 2.05 40.96 2.45
579 638 5.299949 TGAAAGATACCATCGTGGATCATG 58.700 41.667 10.46 0.00 40.96 3.07
580 639 3.969287 AGATACCATCGTGGATCATGG 57.031 47.619 10.46 7.98 40.96 3.66
601 677 4.702274 ACCATGGGCCCAAGCACC 62.702 66.667 32.58 0.00 44.14 5.01
623 699 5.063204 CCCTTCGCCATTTGACATTCTATA 58.937 41.667 0.00 0.00 0.00 1.31
624 700 5.707298 CCCTTCGCCATTTGACATTCTATAT 59.293 40.000 0.00 0.00 0.00 0.86
625 701 6.128172 CCCTTCGCCATTTGACATTCTATATC 60.128 42.308 0.00 0.00 0.00 1.63
626 702 6.427853 CCTTCGCCATTTGACATTCTATATCA 59.572 38.462 0.00 0.00 0.00 2.15
627 703 7.360691 CCTTCGCCATTTGACATTCTATATCAG 60.361 40.741 0.00 0.00 0.00 2.90
628 704 5.409520 TCGCCATTTGACATTCTATATCAGC 59.590 40.000 0.00 0.00 0.00 4.26
629 705 5.391310 CGCCATTTGACATTCTATATCAGCC 60.391 44.000 0.00 0.00 0.00 4.85
630 706 5.105997 GCCATTTGACATTCTATATCAGCCC 60.106 44.000 0.00 0.00 0.00 5.19
631 707 6.005823 CCATTTGACATTCTATATCAGCCCA 58.994 40.000 0.00 0.00 0.00 5.36
632 708 6.662234 CCATTTGACATTCTATATCAGCCCAT 59.338 38.462 0.00 0.00 0.00 4.00
633 709 7.362660 CCATTTGACATTCTATATCAGCCCATG 60.363 40.741 0.00 0.00 0.00 3.66
634 710 4.582869 TGACATTCTATATCAGCCCATGC 58.417 43.478 0.00 0.00 37.95 4.06
751 849 1.214367 GAAAAACAGTCGCTCGTGGA 58.786 50.000 0.00 0.00 0.00 4.02
889 1010 3.182996 AGTTCCCACCCCCGCTTT 61.183 61.111 0.00 0.00 0.00 3.51
890 1011 2.203582 GTTCCCACCCCCGCTTTT 60.204 61.111 0.00 0.00 0.00 2.27
960 1082 0.248907 TGATTCGAGATTCGCCCGTC 60.249 55.000 0.00 0.00 40.21 4.79
1173 1307 0.107752 GGGACTCCGACTACGACTCT 60.108 60.000 0.00 0.00 42.66 3.24
1299 1442 1.284841 CCCCAAAGCCAGAGGAGGAT 61.285 60.000 0.00 0.00 0.00 3.24
1395 1544 0.030297 ATGCAGAGGAGGACCAGGAT 60.030 55.000 0.00 0.00 38.94 3.24
1416 1577 1.594833 GTACATCGACCTGCCCACA 59.405 57.895 0.00 0.00 0.00 4.17
2243 2759 2.437413 GTTGCTTAAGACCTTCCAGGG 58.563 52.381 6.67 0.00 40.58 4.45
2886 3405 3.378112 TCATTCCTAAGCTGAAAATGGCG 59.622 43.478 9.95 0.00 0.00 5.69
2964 3483 0.694771 TGATCTGGGCTTCTGCTGTT 59.305 50.000 0.00 0.00 39.59 3.16
3468 3987 2.752903 TGTCAAGCGACTACTCTATGCA 59.247 45.455 0.00 0.00 43.06 3.96
3625 4146 6.586844 GTGTAGGTAGTCTTCAAATGTGTCTC 59.413 42.308 0.00 0.00 0.00 3.36
3630 4151 2.668457 GTCTTCAAATGTGTCTCGCGAT 59.332 45.455 10.36 0.00 0.00 4.58
3713 4236 5.867903 TTCCACATTTCAACATGGAACTT 57.132 34.783 0.00 0.00 44.43 2.66
3730 4257 4.398358 GGAACTTGGTTATTGCCCTAGAAC 59.602 45.833 0.00 0.00 0.00 3.01
3758 4285 6.882610 AATTGATGCAGAACTGTTTCTACA 57.117 33.333 0.00 0.00 40.34 2.74
3829 4378 6.313658 AGTTCATTTCTTGTTTTGTTTCCTGC 59.686 34.615 0.00 0.00 0.00 4.85
3968 4854 1.807755 GCTCGATGCCATGTTCAGCTA 60.808 52.381 0.00 0.00 35.15 3.32
4071 4962 6.067217 AGCATTTTATCCAGTACCACTCTT 57.933 37.500 0.00 0.00 0.00 2.85
4077 4968 9.668497 ATTTTATCCAGTACCACTCTTCTTTAC 57.332 33.333 0.00 0.00 0.00 2.01
4228 5121 6.909909 GTGGTTTACACTGGAATTTAGGAAG 58.090 40.000 0.00 0.00 46.72 3.46
4233 5126 5.941948 ACACTGGAATTTAGGAAGTTTCG 57.058 39.130 0.00 0.00 0.00 3.46
4296 5189 3.118811 CCTTTGTCAACCCTTGCTTTCAA 60.119 43.478 0.00 0.00 0.00 2.69
4339 5232 7.450014 TGAGGTCTTTATTTATTGGAACTGCAA 59.550 33.333 0.00 0.00 0.00 4.08
4383 5289 2.334023 GGGCCTGATCTGGTAAGAGAT 58.666 52.381 18.82 0.00 35.37 2.75
4385 5291 4.100373 GGGCCTGATCTGGTAAGAGATAT 58.900 47.826 18.82 0.00 35.37 1.63
4391 5297 8.589338 GCCTGATCTGGTAAGAGATATTTTCTA 58.411 37.037 18.82 0.00 35.37 2.10
4409 5315 7.700022 TTTTCTACTCTTCTGTACCTAGTCC 57.300 40.000 0.00 0.00 0.00 3.85
4413 5319 5.370875 ACTCTTCTGTACCTAGTCCGTAT 57.629 43.478 0.00 0.00 0.00 3.06
4416 5322 4.164796 TCTTCTGTACCTAGTCCGTATCCA 59.835 45.833 0.00 0.00 0.00 3.41
4438 5346 6.420903 TCCAAGATATCTTCACTTATTTCGCG 59.579 38.462 15.24 0.00 33.11 5.87
4462 5370 5.049405 GCTACGGCTGTATTGCTAAAATCAT 60.049 40.000 5.70 0.00 35.22 2.45
4522 5430 6.150976 ACAGAGTTGACATTGTCAGTTTGAAA 59.849 34.615 18.27 0.60 43.69 2.69
4523 5431 7.148018 ACAGAGTTGACATTGTCAGTTTGAAAT 60.148 33.333 18.27 3.33 43.69 2.17
4533 5441 6.852858 TGTCAGTTTGAAATTGTCGACATA 57.147 33.333 20.80 10.84 0.00 2.29
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
23 24 2.433868 TCTGACGCTAAACAGGTGAC 57.566 50.000 0.00 0.00 35.20 3.67
25 26 1.461127 GCTTCTGACGCTAAACAGGTG 59.539 52.381 0.00 0.00 35.20 4.00
30 31 2.729156 GCCATTGCTTCTGACGCTAAAC 60.729 50.000 7.67 0.00 33.53 2.01
52 53 3.866651 AGATCTTCACCTCCATCGTTTG 58.133 45.455 0.00 0.00 0.00 2.93
56 57 4.054671 GCTAAAGATCTTCACCTCCATCG 58.945 47.826 8.78 0.00 0.00 3.84
79 80 0.530650 GCAGTGAGGCATTAGCGCTA 60.531 55.000 14.45 14.45 43.41 4.26
82 83 1.717937 GTGCAGTGAGGCATTAGCG 59.282 57.895 0.00 0.00 46.92 4.26
84 85 1.020861 TGCGTGCAGTGAGGCATTAG 61.021 55.000 0.00 0.00 46.92 1.73
87 88 1.676635 ATTGCGTGCAGTGAGGCAT 60.677 52.632 0.00 0.00 46.92 4.40
94 95 2.455674 TAGAGTTCATTGCGTGCAGT 57.544 45.000 0.00 0.00 0.00 4.40
107 108 2.897969 ACGGCCCATCGATATTAGAGTT 59.102 45.455 0.00 0.00 0.00 3.01
112 113 1.634960 TGGACGGCCCATCGATATTA 58.365 50.000 3.83 0.00 40.82 0.98
125 126 1.066215 TGTCATTGGATGAGTGGACGG 60.066 52.381 0.00 0.00 40.53 4.79
135 136 2.988010 TAGCGCTCTTGTCATTGGAT 57.012 45.000 16.34 0.00 0.00 3.41
149 150 2.220479 ACGTTCCTAGGAAATAGCGC 57.780 50.000 25.89 11.27 35.75 5.92
166 167 6.613233 GGTGTGTAGAGATATAGATGGAACG 58.387 44.000 0.00 0.00 0.00 3.95
174 175 3.504134 AGCAGCGGTGTGTAGAGATATAG 59.496 47.826 17.07 0.00 0.00 1.31
176 177 2.035193 CAGCAGCGGTGTGTAGAGATAT 59.965 50.000 17.07 0.00 0.00 1.63
190 191 3.793144 GGAGAAACGGCAGCAGCG 61.793 66.667 0.00 0.00 43.41 5.18
193 194 2.281484 GTGGGAGAAACGGCAGCA 60.281 61.111 0.00 0.00 0.00 4.41
195 196 1.376037 GGAGTGGGAGAAACGGCAG 60.376 63.158 0.00 0.00 0.00 4.85
203 204 3.468552 TCCGAAAAGGAGTGGGAGA 57.531 52.632 0.00 0.00 45.98 3.71
214 215 2.159430 CGTTGATGCTGATGTCCGAAAA 59.841 45.455 0.00 0.00 0.00 2.29
218 219 0.371301 CACGTTGATGCTGATGTCCG 59.629 55.000 0.00 0.00 0.00 4.79
224 225 3.125146 GCAAAGATACACGTTGATGCTGA 59.875 43.478 0.00 0.00 39.61 4.26
553 612 6.176896 TGATCCACGATGGTATCTTTCAAAA 58.823 36.000 0.00 0.00 39.03 2.44
565 624 1.942657 GTTGACCATGATCCACGATGG 59.057 52.381 7.98 7.98 44.23 3.51
567 626 1.559219 TGGTTGACCATGATCCACGAT 59.441 47.619 0.00 0.00 42.01 3.73
569 628 3.549412 TGGTTGACCATGATCCACG 57.451 52.632 0.00 0.00 42.01 4.94
579 638 1.984026 CTTGGGCCCATGGTTGACC 60.984 63.158 29.23 8.61 0.00 4.02
580 639 2.649129 GCTTGGGCCCATGGTTGAC 61.649 63.158 32.65 16.09 0.00 3.18
601 677 6.427853 TGATATAGAATGTCAAATGGCGAAGG 59.572 38.462 0.00 0.00 0.00 3.46
634 710 2.289945 GGGCTGTATGGATAGCTGGAAG 60.290 54.545 0.00 0.00 39.63 3.46
635 711 1.699634 GGGCTGTATGGATAGCTGGAA 59.300 52.381 0.00 0.00 39.63 3.53
636 712 1.352083 GGGCTGTATGGATAGCTGGA 58.648 55.000 0.00 0.00 39.63 3.86
637 713 0.036952 CGGGCTGTATGGATAGCTGG 60.037 60.000 0.00 0.00 39.63 4.85
638 714 0.969149 TCGGGCTGTATGGATAGCTG 59.031 55.000 0.00 0.00 39.63 4.24
639 715 1.717032 TTCGGGCTGTATGGATAGCT 58.283 50.000 0.00 0.00 39.63 3.32
640 716 2.622436 GATTCGGGCTGTATGGATAGC 58.378 52.381 0.00 0.00 39.01 2.97
641 717 2.417379 CCGATTCGGGCTGTATGGATAG 60.417 54.545 17.53 0.00 44.15 2.08
751 849 1.436336 CGCGTCGGAGGGACTATTT 59.564 57.895 0.00 0.00 43.79 1.40
838 958 3.766691 GTCTACCTTGCCGCCCGA 61.767 66.667 0.00 0.00 0.00 5.14
889 1010 0.393448 TCAACACGATGGGACGGAAA 59.607 50.000 0.00 0.00 37.61 3.13
890 1011 0.611200 ATCAACACGATGGGACGGAA 59.389 50.000 0.00 0.00 37.61 4.30
1299 1442 3.397439 GGCCTCTGCTGCTCCTCA 61.397 66.667 0.00 0.00 37.74 3.86
1395 1544 2.420568 GGGCAGGTCGATGTACGGA 61.421 63.158 0.00 0.00 42.82 4.69
1416 1577 3.645268 GATCCGCTGCCCAAACCCT 62.645 63.158 0.00 0.00 0.00 4.34
2243 2759 1.869767 CCTCATAGCGCACCTTCAATC 59.130 52.381 11.47 0.00 0.00 2.67
2886 3405 3.942115 GGTTAATCTGAAACTCCTGGAGC 59.058 47.826 23.43 8.18 32.04 4.70
3009 3528 2.065899 ACAAAACCAGCTGCCACTTA 57.934 45.000 8.66 0.00 0.00 2.24
3468 3987 4.503714 TTCAGTTCCCTCTTGAAGTTGT 57.496 40.909 0.00 0.00 0.00 3.32
3625 4146 6.274001 AGTAATTCTACAACAATGATCGCG 57.726 37.500 0.00 0.00 0.00 5.87
3663 4184 9.794719 ATCACATTCAGATACATCATCAGAAAT 57.205 29.630 0.00 0.00 41.05 2.17
3713 4236 3.985019 TTCGTTCTAGGGCAATAACCA 57.015 42.857 0.00 0.00 0.00 3.67
3730 4257 7.246311 AGAAACAGTTCTGCATCAATTATTCG 58.754 34.615 0.00 0.00 42.73 3.34
3829 4378 1.001974 TGGGAGGGCATTCGATTATCG 59.998 52.381 8.47 8.47 42.10 2.92
3914 4726 7.709182 TCATCCATCCAAAAGTATTACAGTACG 59.291 37.037 0.00 0.00 0.00 3.67
4165 5058 1.287425 GCCATCTACTTTCCGAACCG 58.713 55.000 0.00 0.00 0.00 4.44
4228 5121 7.569591 GCAGTATCATATAAGCCTTGACGAAAC 60.570 40.741 0.00 0.00 0.00 2.78
4233 5126 7.736447 AAAGCAGTATCATATAAGCCTTGAC 57.264 36.000 0.00 0.00 0.00 3.18
4262 5155 5.303333 GGGTTGACAAAGGACCTTCAAAATA 59.697 40.000 7.34 0.00 33.90 1.40
4296 5189 0.888619 TCAGGACGAAGCTCGAACAT 59.111 50.000 11.64 2.18 43.74 2.71
4339 5232 5.183904 CCGAAATCAAGAGGAACCTCAAAAT 59.816 40.000 20.84 9.13 44.99 1.82
4383 5289 9.406113 GGACTAGGTACAGAAGAGTAGAAAATA 57.594 37.037 0.00 0.00 0.00 1.40
4385 5291 6.373774 CGGACTAGGTACAGAAGAGTAGAAAA 59.626 42.308 0.00 0.00 0.00 2.29
4391 5297 3.717452 ACGGACTAGGTACAGAAGAGT 57.283 47.619 0.00 0.00 0.00 3.24
4400 5306 7.268212 AGATATCTTGGATACGGACTAGGTA 57.732 40.000 0.00 0.00 42.51 3.08
4413 5319 6.420903 CGCGAAATAAGTGAAGATATCTTGGA 59.579 38.462 22.61 6.21 36.11 3.53
4416 5322 5.986135 AGCGCGAAATAAGTGAAGATATCTT 59.014 36.000 17.96 17.96 39.23 2.40
4438 5346 4.272504 TGATTTTAGCAATACAGCCGTAGC 59.727 41.667 0.00 0.00 40.32 3.58
4462 5370 4.842574 TCAGCAGTTATTGGCAATGACTA 58.157 39.130 29.88 16.49 35.77 2.59
4522 5430 4.707105 TGGCATTCTGATATGTCGACAAT 58.293 39.130 24.13 16.56 32.81 2.71
4523 5431 4.135747 TGGCATTCTGATATGTCGACAA 57.864 40.909 24.13 12.36 32.81 3.18



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

AutoCloner maintained by Alex Coulton.