Multiple sequence alignment - TraesCS4B01G325100

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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 TraesCS4B01G325100 chr4B 100.000 5128 0 0 1 5128 615829683 615834810 0.000000e+00 9470.0
1 TraesCS4B01G325100 chr4B 88.957 163 12 3 2901 3057 272036516 272036678 4.050000e-46 196.0
2 TraesCS4B01G325100 chr4D 93.672 4630 156 50 1 4569 484288986 484293539 0.000000e+00 6800.0
3 TraesCS4B01G325100 chr4D 92.990 4294 128 55 852 5116 484289872 484294021 0.000000e+00 6102.0
4 TraesCS4B01G325100 chr5A 94.012 2121 91 10 1 2093 664549053 664551165 0.000000e+00 3181.0
5 TraesCS4B01G325100 chr5A 94.118 1326 51 11 2093 3396 664551489 664552809 0.000000e+00 1991.0
6 TraesCS4B01G325100 chr5A 95.726 936 31 4 3432 4367 664553028 664553954 0.000000e+00 1498.0
7 TraesCS4B01G325100 chr5A 91.503 765 37 17 4366 5128 664554275 664555013 0.000000e+00 1027.0
8 TraesCS4B01G325100 chr4A 92.466 292 21 1 55 346 738881609 738881319 2.860000e-112 416.0
9 TraesCS4B01G325100 chr5B 92.123 292 22 1 55 346 321629352 321629642 1.330000e-110 411.0
10 TraesCS4B01G325100 chr5B 91.453 117 6 3 2899 3014 295072209 295072322 1.910000e-34 158.0
11 TraesCS4B01G325100 chr6B 91.781 292 23 1 55 346 44820809 44821099 6.180000e-109 405.0
12 TraesCS4B01G325100 chr1D 90.566 159 13 1 3218 3376 2194139 2194295 5.200000e-50 209.0
13 TraesCS4B01G325100 chr1A 90.000 160 15 1 3218 3377 1314413 1314571 6.730000e-49 206.0
14 TraesCS4B01G325100 chr7A 90.991 111 9 1 2904 3014 83801001 83800892 1.150000e-31 148.0
15 TraesCS4B01G325100 chr7D 87.368 95 11 1 3281 3375 60088126 60088033 1.950000e-19 108.0
16 TraesCS4B01G325100 chr7D 78.824 170 20 11 2708 2868 394383890 394383728 3.270000e-17 100.0
17 TraesCS4B01G325100 chr7B 87.640 89 9 2 3287 3375 2516817 2516731 9.080000e-18 102.0
18 TraesCS4B01G325100 chr7B 78.824 170 20 11 2708 2868 223658164 223658002 3.270000e-17 100.0
19 TraesCS4B01G325100 chr2D 76.608 171 23 11 2700 2870 330485884 330485731 1.530000e-10 78.7
20 TraesCS4B01G325100 chr2A 86.667 60 8 0 2811 2870 437508620 437508561 3.310000e-07 67.6
21 TraesCS4B01G325100 chr5D 86.538 52 7 0 2723 2774 225256896 225256845 1.990000e-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 TraesCS4B01G325100 chr4B 615829683 615834810 5127 False 9470.00 9470 100.00000 1 5128 1 chr4B.!!$F2 5127
1 TraesCS4B01G325100 chr4D 484288986 484294021 5035 False 6451.00 6800 93.33100 1 5116 2 chr4D.!!$F1 5115
2 TraesCS4B01G325100 chr5A 664549053 664555013 5960 False 1924.25 3181 93.83975 1 5128 4 chr5A.!!$F1 5127

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
381 385 0.399833 TGTATGTGCAGGGTGCTTCA 59.600 50.000 0.00 0.75 45.31 3.02 F
1236 1297 0.320374 TGTACTTGGCTGAAGGTCCG 59.680 55.000 0.00 0.00 35.78 4.79 F
2311 2719 2.521103 GGAGGCATCAGGTCTGCTA 58.479 57.895 0.00 0.00 36.51 3.49 F
3569 4193 0.955428 CACGGCCATGTAACTGCAGT 60.955 55.000 15.25 15.25 33.71 4.40 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2149 2540 0.682209 GCCATGCCCAATGACTCACT 60.682 55.0 0.00 0.0 38.72 3.41 R
2753 3166 0.758734 CTCAATCCCTCACGGCCATA 59.241 55.0 2.24 0.0 0.00 2.74 R
3824 4453 1.666054 CTTCAGCCCTCTTGATCTGC 58.334 55.0 0.00 0.0 0.00 4.26 R
4425 5376 0.321671 TTTCAGTGGGAGGAGCTTCG 59.678 55.0 0.00 0.0 0.00 3.79 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
40 41 4.699735 TCAGCCAATCGCATCTTTTCTTTA 59.300 37.500 0.00 0.00 41.38 1.85
103 107 2.547211 GCATCACAGCTGCGAAATATCT 59.453 45.455 15.27 0.00 0.00 1.98
173 177 9.173939 CAGCTTATTCTTGTTTACTTTGTCTTG 57.826 33.333 0.00 0.00 0.00 3.02
184 188 2.880890 ACTTTGTCTTGGACACAGATGC 59.119 45.455 17.18 0.00 41.27 3.91
190 194 4.080975 TGTCTTGGACACAGATGCATATCA 60.081 41.667 0.00 0.00 37.67 2.15
201 205 6.260271 CACAGATGCATATCACTGTCAAAGAT 59.740 38.462 14.11 0.00 40.84 2.40
270 274 3.069443 TGGGGCTGAACATTTGACTTTTC 59.931 43.478 0.00 0.00 0.00 2.29
373 377 6.381133 TCTCCCACTATATATGTATGTGCAGG 59.619 42.308 0.00 0.00 0.00 4.85
381 385 0.399833 TGTATGTGCAGGGTGCTTCA 59.600 50.000 0.00 0.75 45.31 3.02
387 391 1.876156 GTGCAGGGTGCTTCATATAGC 59.124 52.381 0.00 0.00 45.31 2.97
469 473 6.090763 TGAACTAATTGAGAAGCGTATGTGTG 59.909 38.462 0.00 0.00 0.00 3.82
507 515 6.927416 TCCACGCTTTTAGTAGTTCATAAGA 58.073 36.000 0.00 0.00 0.00 2.10
510 518 7.201444 CCACGCTTTTAGTAGTTCATAAGAGTG 60.201 40.741 0.00 0.00 40.61 3.51
575 583 6.262496 GCCATAGTACCTTTAAGTTGGGATTC 59.738 42.308 0.00 0.00 0.00 2.52
605 613 2.760634 TCCTTTGAAGTATGCTGCGA 57.239 45.000 0.00 0.00 0.00 5.10
895 948 2.479566 TTCATTGGCAGAGTCTCACC 57.520 50.000 1.94 3.84 0.00 4.02
918 971 2.012673 GAGTGGTCATGAGCCAATCAC 58.987 52.381 26.04 17.23 46.64 3.06
976 1029 5.403166 CGTATGGCAGCATTTTTAATCCATG 59.597 40.000 0.00 0.00 34.91 3.66
1236 1297 0.320374 TGTACTTGGCTGAAGGTCCG 59.680 55.000 0.00 0.00 35.78 4.79
1346 1407 6.712241 ACGTGCATACAATATCTATGCTTC 57.288 37.500 19.04 13.58 44.65 3.86
1416 1477 3.119316 AGCTTGTAACTCTCTGACGATGG 60.119 47.826 0.00 0.00 0.00 3.51
1614 1675 5.348451 ACAATTTCACTGCACAAACAACTTC 59.652 36.000 0.00 0.00 0.00 3.01
1850 1911 5.614308 TCATCATGCATCGGTCTTCTAAAT 58.386 37.500 0.00 0.00 0.00 1.40
2218 2613 5.456497 TCGACACTAAGTTAAGTTTCACACG 59.544 40.000 0.00 3.67 0.00 4.49
2219 2614 5.456497 CGACACTAAGTTAAGTTTCACACGA 59.544 40.000 0.00 0.00 0.00 4.35
2267 2663 6.447162 TGTAATTCAACAAAACACACACACA 58.553 32.000 0.00 0.00 0.00 3.72
2269 2665 3.990318 TCAACAAAACACACACACACA 57.010 38.095 0.00 0.00 0.00 3.72
2277 2685 4.811555 AACACACACACACACATGATAC 57.188 40.909 0.00 0.00 0.00 2.24
2311 2719 2.521103 GGAGGCATCAGGTCTGCTA 58.479 57.895 0.00 0.00 36.51 3.49
2662 3075 7.639162 ACAGAGTTTAATAGAACTGAACACG 57.361 36.000 0.00 0.00 39.84 4.49
2678 3091 4.817464 TGAACACGTTTTGGCTTAGTGTAT 59.183 37.500 0.00 0.00 44.13 2.29
2753 3166 3.370840 TGCTGAAGATAGCCAAATGGT 57.629 42.857 0.71 0.00 43.02 3.55
2919 3332 5.338632 TCCTAATACAGTTGGACTCCTTCA 58.661 41.667 0.00 0.00 0.00 3.02
2988 3401 1.684450 GCTAGCCTACTCCCTCTGTTC 59.316 57.143 2.29 0.00 0.00 3.18
3027 3440 6.180472 ACTCCCTTCTACCACAATTACATTG 58.820 40.000 0.00 0.00 45.59 2.82
3028 3441 6.012858 ACTCCCTTCTACCACAATTACATTGA 60.013 38.462 3.47 0.00 42.83 2.57
3029 3442 6.177610 TCCCTTCTACCACAATTACATTGAC 58.822 40.000 3.47 0.00 42.83 3.18
3030 3443 5.943416 CCCTTCTACCACAATTACATTGACA 59.057 40.000 3.47 0.00 42.83 3.58
3031 3444 6.094048 CCCTTCTACCACAATTACATTGACAG 59.906 42.308 3.47 0.00 42.83 3.51
3033 3446 6.121776 TCTACCACAATTACATTGACAGGT 57.878 37.500 3.47 9.76 42.83 4.00
3034 3447 7.247456 TCTACCACAATTACATTGACAGGTA 57.753 36.000 3.47 10.25 42.83 3.08
3035 3448 7.101054 TCTACCACAATTACATTGACAGGTAC 58.899 38.462 3.47 0.00 42.83 3.34
3076 3490 9.030452 ACTGTTGCATTTATAGGAATTTAACCA 57.970 29.630 0.00 0.00 0.00 3.67
3388 3812 7.466804 TGTACTTGATTTCCTCCCAAAACTAT 58.533 34.615 0.00 0.00 0.00 2.12
3390 3814 7.855784 ACTTGATTTCCTCCCAAAACTATTT 57.144 32.000 0.00 0.00 0.00 1.40
3391 3815 8.262601 ACTTGATTTCCTCCCAAAACTATTTT 57.737 30.769 0.00 0.00 0.00 1.82
3392 3816 8.713971 ACTTGATTTCCTCCCAAAACTATTTTT 58.286 29.630 0.00 0.00 35.15 1.94
3468 4092 7.910683 GGAGGCAATATTTCTTCTAGTTTTTCG 59.089 37.037 0.00 0.00 0.00 3.46
3478 4102 7.230466 TCTTCTAGTTTTTCGTTCACACTTC 57.770 36.000 0.00 0.00 0.00 3.01
3569 4193 0.955428 CACGGCCATGTAACTGCAGT 60.955 55.000 15.25 15.25 33.71 4.40
3579 4203 7.312899 GCCATGTAACTGCAGTTTTACTTTAT 58.687 34.615 35.20 15.68 39.31 1.40
3663 4288 7.630026 TCACGATTGTTATATCTGTTTCATGC 58.370 34.615 0.00 0.00 0.00 4.06
3992 4621 4.097892 GTCATGGATATGGTTTTGGTGACC 59.902 45.833 0.00 0.00 37.69 4.02
4210 4839 6.961360 TCTTATACTATGTGTGAGGTGAGG 57.039 41.667 0.00 0.00 0.00 3.86
4211 4840 6.432581 TCTTATACTATGTGTGAGGTGAGGT 58.567 40.000 0.00 0.00 0.00 3.85
4212 4841 6.321435 TCTTATACTATGTGTGAGGTGAGGTG 59.679 42.308 0.00 0.00 0.00 4.00
4213 4842 2.889512 ACTATGTGTGAGGTGAGGTGA 58.110 47.619 0.00 0.00 0.00 4.02
4261 4890 1.028905 GTACTTGCTTGGGTTGTGCA 58.971 50.000 0.00 0.00 34.69 4.57
4268 4897 1.588674 CTTGGGTTGTGCAACTCGTA 58.411 50.000 13.78 2.96 44.56 3.43
4389 5340 9.502091 TCTATGTTGCTACTAGTTTTGTCATTT 57.498 29.630 0.00 0.00 0.00 2.32
4425 5376 5.012046 ACCTTGGAATTTTGGAGATTGTTCC 59.988 40.000 0.00 0.00 36.52 3.62
4490 5441 9.623350 AGTTTCTCGTTCTTACTACTTAATGAC 57.377 33.333 0.00 0.00 0.00 3.06
4519 5470 9.267084 GTTATTTGGTATTTGGATTTTGTGTGT 57.733 29.630 0.00 0.00 0.00 3.72
4570 5526 1.651240 ATTGTCATGTGAGCCGCAGC 61.651 55.000 0.00 0.00 40.32 5.25
4606 5563 0.674581 TGAATGGCAGCAGAGGTTCG 60.675 55.000 0.00 0.00 0.00 3.95
4624 5581 2.034687 CACCCTGCTCCCCACTTG 59.965 66.667 0.00 0.00 0.00 3.16
4657 5614 2.941453 TGCAGACTTCGATACTCCAC 57.059 50.000 0.00 0.00 0.00 4.02
4673 5630 3.815401 ACTCCACATTTCAAGAAAGGTCG 59.185 43.478 9.59 4.51 42.49 4.79
4674 5631 3.815401 CTCCACATTTCAAGAAAGGTCGT 59.185 43.478 9.59 0.00 42.49 4.34
4746 5703 4.006989 CGGATTTGATACAAGGTGGACAA 58.993 43.478 0.00 0.00 0.00 3.18
4747 5704 4.142687 CGGATTTGATACAAGGTGGACAAC 60.143 45.833 0.00 0.00 0.00 3.32
4749 5706 5.476945 GGATTTGATACAAGGTGGACAACTT 59.523 40.000 0.00 0.00 39.29 2.66
4755 5712 3.149436 CAAGGTGGACAACTTTGTGTG 57.851 47.619 0.00 0.00 42.43 3.82
4757 5714 0.814457 GGTGGACAACTTTGTGTGCA 59.186 50.000 0.00 0.00 46.16 4.57
4759 5716 0.814457 TGGACAACTTTGTGTGCACC 59.186 50.000 15.69 6.37 43.87 5.01
4760 5717 0.814457 GGACAACTTTGTGTGCACCA 59.186 50.000 15.69 9.21 42.43 4.17
4841 5799 6.147821 AGCACAATAATATATGCCAGTCGAAC 59.852 38.462 5.98 0.00 38.92 3.95
5030 5989 1.355066 GCTTCTTCGCCTTCAGGTCG 61.355 60.000 0.00 0.00 37.57 4.79
5108 6067 3.259625 CCTCTCCGACCTTCTCTTTCTTT 59.740 47.826 0.00 0.00 0.00 2.52
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
103 107 7.605691 GTCTTATCTTAGTATCCTACGCCAGTA 59.394 40.741 0.00 0.00 0.00 2.74
119 123 3.521560 CACTTGCCAGCGTCTTATCTTA 58.478 45.455 0.00 0.00 0.00 2.10
167 171 2.865119 ATGCATCTGTGTCCAAGACA 57.135 45.000 0.00 0.00 40.50 3.41
173 177 3.801698 ACAGTGATATGCATCTGTGTCC 58.198 45.455 15.74 0.00 37.43 4.02
184 188 5.496387 GTCGCAATCTTTGACAGTGATATG 58.504 41.667 0.00 0.00 32.91 1.78
190 194 1.792949 GTCGTCGCAATCTTTGACAGT 59.207 47.619 0.00 0.00 32.91 3.55
219 223 6.428159 GGCTCGTCCAACTAATAATCAATCAT 59.572 38.462 0.00 0.00 34.01 2.45
270 274 4.293415 GCTTCTGATCACTTGTTTTGGTG 58.707 43.478 0.00 0.00 35.06 4.17
381 385 4.307259 TCTTGGGAAGTTGGGAGCTATAT 58.693 43.478 0.00 0.00 0.00 0.86
387 391 2.230660 GTGTTCTTGGGAAGTTGGGAG 58.769 52.381 0.00 0.00 31.46 4.30
469 473 1.911464 GCGTGGAAAGAATAAAAGCGC 59.089 47.619 0.00 0.00 35.77 5.92
507 515 3.988976 ATCCAGCATACACAAGACACT 57.011 42.857 0.00 0.00 0.00 3.55
510 518 8.462016 AGAAATAAAATCCAGCATACACAAGAC 58.538 33.333 0.00 0.00 0.00 3.01
575 583 6.456181 GCATACTTCAAAGGAATCTGAACGAG 60.456 42.308 0.00 0.00 31.34 4.18
605 613 7.886970 CAGAATATCAATATCACAGGTTCCCAT 59.113 37.037 0.00 0.00 0.00 4.00
641 649 4.101585 CCACTCTCCTGTTTGATAGCCATA 59.898 45.833 0.00 0.00 0.00 2.74
895 948 2.189594 TTGGCTCATGACCACTCTTG 57.810 50.000 14.29 0.00 36.76 3.02
976 1029 7.754851 TGGTTTATCTACAAAGGAAGAAACC 57.245 36.000 6.31 6.31 39.96 3.27
1236 1297 3.067742 CCCATGCATGAAAATGACTCCTC 59.932 47.826 28.31 0.00 0.00 3.71
1346 1407 4.840680 TGTAGGTATCCCATTCAGATGAGG 59.159 45.833 0.00 0.00 35.16 3.86
1581 1642 2.544686 GCAGTGAAATTGTGCATTGCAA 59.455 40.909 13.94 0.00 44.19 4.08
1614 1675 2.740981 AGAGAACAAAGCAGATGAAGCG 59.259 45.455 0.00 0.00 37.01 4.68
2020 2086 8.418597 AAACTAGACAGTTGATACTACCAAGA 57.581 34.615 0.00 0.00 44.41 3.02
2149 2540 0.682209 GCCATGCCCAATGACTCACT 60.682 55.000 0.00 0.00 38.72 3.41
2176 2567 5.120830 GTGTCGATTACTCAATTTGCTGACT 59.879 40.000 0.00 0.00 0.00 3.41
2218 2613 4.568359 CGCTGTGGCAGGATATGTATAATC 59.432 45.833 0.00 0.00 38.60 1.75
2219 2614 4.507710 CGCTGTGGCAGGATATGTATAAT 58.492 43.478 0.00 0.00 38.60 1.28
2267 2663 7.910584 TCATATAGCAGGAATGTATCATGTGT 58.089 34.615 0.00 0.00 41.83 3.72
2269 2665 7.401204 TCCTCATATAGCAGGAATGTATCATGT 59.599 37.037 0.69 0.00 41.83 3.21
2277 2685 3.262660 TGCCTCCTCATATAGCAGGAATG 59.737 47.826 4.41 1.20 38.39 2.67
2311 2719 7.441836 GGTCCCTTGTTTCAATTAAACTGATT 58.558 34.615 0.00 0.00 46.42 2.57
2656 3069 3.685836 ACACTAAGCCAAAACGTGTTC 57.314 42.857 0.00 0.00 35.48 3.18
2662 3075 8.818057 CATCTAGTACATACACTAAGCCAAAAC 58.182 37.037 0.00 0.00 30.77 2.43
2678 3091 9.901172 TCACAAGAGTAATAGACATCTAGTACA 57.099 33.333 21.98 3.83 46.53 2.90
2753 3166 0.758734 CTCAATCCCTCACGGCCATA 59.241 55.000 2.24 0.00 0.00 2.74
2880 3293 6.445786 TGTATTAGGAAAGGTCAAGGGTGTAT 59.554 38.462 0.00 0.00 0.00 2.29
2883 3296 5.174037 TGTATTAGGAAAGGTCAAGGGTG 57.826 43.478 0.00 0.00 0.00 4.61
2919 3332 4.533311 TGGGAGTTCGTATTAGGAAAGGTT 59.467 41.667 0.63 0.00 0.00 3.50
2988 3401 1.002544 GGGAGTCCAAGAACAGTGAGG 59.997 57.143 12.30 0.00 0.00 3.86
3027 3440 6.043411 GTCTGGAATGTAAGATGTACCTGTC 58.957 44.000 0.00 0.00 0.00 3.51
3028 3441 5.721960 AGTCTGGAATGTAAGATGTACCTGT 59.278 40.000 0.00 0.00 0.00 4.00
3029 3442 6.045318 CAGTCTGGAATGTAAGATGTACCTG 58.955 44.000 0.00 0.00 0.00 4.00
3030 3443 5.721960 ACAGTCTGGAATGTAAGATGTACCT 59.278 40.000 4.53 0.00 37.91 3.08
3031 3444 5.978814 ACAGTCTGGAATGTAAGATGTACC 58.021 41.667 4.53 0.00 37.91 3.34
3033 3446 5.874810 GCAACAGTCTGGAATGTAAGATGTA 59.125 40.000 4.53 0.00 38.83 2.29
3034 3447 4.697352 GCAACAGTCTGGAATGTAAGATGT 59.303 41.667 4.53 0.00 38.83 3.06
3035 3448 4.696877 TGCAACAGTCTGGAATGTAAGATG 59.303 41.667 4.53 1.07 38.83 2.90
3076 3490 6.348213 GGCAACGTCTCAATTAACTACACATT 60.348 38.462 0.00 0.00 0.00 2.71
3442 3867 7.910683 CGAAAAACTAGAAGAAATATTGCCTCC 59.089 37.037 0.00 0.00 0.00 4.30
3458 4082 4.269363 ACCGAAGTGTGAACGAAAAACTAG 59.731 41.667 0.00 0.00 0.00 2.57
3468 4092 3.128068 ACCTTCAAAACCGAAGTGTGAAC 59.872 43.478 0.00 0.00 40.72 3.18
3478 4102 4.755123 ACTCAACTATGACCTTCAAAACCG 59.245 41.667 0.00 0.00 0.00 4.44
3663 4288 5.757320 CAGCACATACTTTTCAGAGGGATAG 59.243 44.000 0.00 0.00 0.00 2.08
3697 4326 5.445069 TGGTAATATGTGCTGCAAGGTTAT 58.555 37.500 2.77 0.00 0.00 1.89
3824 4453 1.666054 CTTCAGCCCTCTTGATCTGC 58.334 55.000 0.00 0.00 0.00 4.26
3992 4621 4.341235 TCCTTCATGGTATCGAAGTACTGG 59.659 45.833 0.00 0.00 37.52 4.00
4383 5334 7.712797 TCCAAGGTTTCAAAGAGTTAAATGAC 58.287 34.615 0.00 0.00 0.00 3.06
4389 5340 7.984617 CCAAAATTCCAAGGTTTCAAAGAGTTA 59.015 33.333 0.00 0.00 0.00 2.24
4425 5376 0.321671 TTTCAGTGGGAGGAGCTTCG 59.678 55.000 0.00 0.00 0.00 3.79
4507 5458 4.223320 ACGATGAACACACACAAAATCC 57.777 40.909 0.00 0.00 0.00 3.01
4537 5493 6.072563 TCACATGACAATACAATGAACTGTGG 60.073 38.462 0.00 0.00 33.06 4.17
4539 5495 6.348786 GCTCACATGACAATACAATGAACTGT 60.349 38.462 0.00 0.00 0.00 3.55
4606 5563 3.971702 AAGTGGGGAGCAGGGTGC 61.972 66.667 0.00 0.00 45.46 5.01
4624 5581 6.855914 TCGAAGTCTGCATTTGTTTTTACATC 59.144 34.615 0.00 0.00 0.00 3.06
4657 5614 3.563808 TGGACACGACCTTTCTTGAAATG 59.436 43.478 0.00 0.00 0.00 2.32
4673 5630 9.626045 CTCTTAAAGATTTTTGGTATTGGACAC 57.374 33.333 0.00 0.00 0.00 3.67
4674 5631 8.802267 CCTCTTAAAGATTTTTGGTATTGGACA 58.198 33.333 0.00 0.00 0.00 4.02
4746 5703 4.887071 TCTAGATTTTGGTGCACACAAAGT 59.113 37.500 23.44 22.02 38.84 2.66
4747 5704 5.437289 TCTAGATTTTGGTGCACACAAAG 57.563 39.130 23.44 16.18 38.84 2.77
4749 5706 5.069318 TCATCTAGATTTTGGTGCACACAA 58.931 37.500 20.43 16.88 0.00 3.33
4754 5711 5.009310 GCATGATCATCTAGATTTTGGTGCA 59.991 40.000 4.86 6.16 37.00 4.57
4755 5712 5.009310 TGCATGATCATCTAGATTTTGGTGC 59.991 40.000 4.86 16.47 37.00 5.01
4757 5714 7.658261 CATTGCATGATCATCTAGATTTTGGT 58.342 34.615 4.86 0.00 37.00 3.67
4758 5715 6.586463 GCATTGCATGATCATCTAGATTTTGG 59.414 38.462 4.86 0.00 37.00 3.28
4759 5716 7.327032 CAGCATTGCATGATCATCTAGATTTTG 59.673 37.037 11.91 0.00 37.00 2.44
4760 5717 7.371159 CAGCATTGCATGATCATCTAGATTTT 58.629 34.615 11.91 0.00 37.00 1.82
4829 5787 1.808411 ATTGTTCGTTCGACTGGCAT 58.192 45.000 0.00 0.00 0.00 4.40
4830 5788 1.529438 GAATTGTTCGTTCGACTGGCA 59.471 47.619 0.00 0.00 0.00 4.92
4841 5799 1.608590 AGTTGGTGCAGGAATTGTTCG 59.391 47.619 0.00 0.00 0.00 3.95
5108 6067 1.136329 AGAGCAAGGAGGGCAAGGAA 61.136 55.000 0.00 0.00 0.00 3.36


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

AutoCloner maintained by Alex Coulton.