Multiple sequence alignment - TraesCS5D01G537400

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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 TraesCS5D01G537400 chr5D 100.000 3480 0 0 1 3480 550147935 550151414 0.000000e+00 6427.0
1 TraesCS5D01G537400 chr5D 86.747 83 7 3 1909 1989 548678730 548678650 4.780000e-14 89.8
2 TraesCS5D01G537400 chr5B 92.160 3125 163 17 1 3114 702264475 702267528 0.000000e+00 4338.0
3 TraesCS5D01G537400 chr5B 91.939 521 41 1 6 525 702262995 702263515 0.000000e+00 728.0
4 TraesCS5D01G537400 chr5B 84.561 421 37 8 563 978 702263516 702263913 3.260000e-105 392.0
5 TraesCS5D01G537400 chr5B 92.771 249 14 2 3167 3412 702267823 702268070 1.190000e-94 357.0
6 TraesCS5D01G537400 chr5B 93.056 72 3 1 3409 3478 702268100 702268171 1.710000e-18 104.0
7 TraesCS5D01G537400 chr5B 72.131 366 86 12 2098 2449 692799069 692798706 2.860000e-16 97.1
8 TraesCS5D01G537400 chr4A 96.720 1829 51 5 762 2587 617659341 617657519 0.000000e+00 3037.0
9 TraesCS5D01G537400 chr4A 92.480 758 52 3 6 762 617670394 617669641 0.000000e+00 1079.0
10 TraesCS5D01G537400 chr4A 94.480 471 24 2 2621 3090 617656624 617656155 0.000000e+00 725.0
11 TraesCS5D01G537400 chr4A 90.647 278 24 1 3205 3480 617655628 617655351 5.490000e-98 368.0
12 TraesCS5D01G537400 chr4A 80.080 502 85 8 1946 2441 617526327 617525835 3.300000e-95 359.0
13 TraesCS5D01G537400 chr4A 86.325 234 30 2 525 756 727800016 727800249 1.600000e-63 254.0
14 TraesCS5D01G537400 chr4A 73.193 332 74 11 2098 2417 619949106 619948778 4.750000e-19 106.0
15 TraesCS5D01G537400 chr4A 96.721 61 2 0 3141 3201 617655858 617655798 6.150000e-18 102.0
16 TraesCS5D01G537400 chr2A 86.325 234 30 2 525 756 699419577 699419344 1.600000e-63 254.0
17 TraesCS5D01G537400 chrUn 85.043 234 33 2 525 756 258246403 258246636 1.610000e-58 237.0
18 TraesCS5D01G537400 chrUn 85.043 234 33 2 525 756 366307657 366307424 1.610000e-58 237.0
19 TraesCS5D01G537400 chr4B 85.106 235 32 3 525 756 96268155 96267921 1.610000e-58 237.0
20 TraesCS5D01G537400 chr6A 84.979 233 34 1 525 756 543392254 543392486 5.810000e-58 235.0
21 TraesCS5D01G537400 chr6A 91.304 46 4 0 475 520 611426177 611426222 2.900000e-06 63.9
22 TraesCS5D01G537400 chr1D 84.979 233 33 2 527 757 172836317 172836549 5.810000e-58 235.0
23 TraesCS5D01G537400 chr3B 76.923 195 38 6 573 763 783163933 783163742 1.710000e-18 104.0
24 TraesCS5D01G537400 chr3B 77.041 196 36 7 573 763 783168903 783168712 1.710000e-18 104.0
25 TraesCS5D01G537400 chr3B 90.196 51 5 0 475 525 783154328 783154278 2.240000e-07 67.6
26 TraesCS5D01G537400 chr3B 90.196 51 5 0 475 525 783175744 783175694 2.240000e-07 67.6
27 TraesCS5D01G537400 chr7B 93.478 46 3 0 475 520 267349100 267349145 6.230000e-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 TraesCS5D01G537400 chr5D 550147935 550151414 3479 False 6427.0 6427 100.0000 1 3480 1 chr5D.!!$F1 3479
1 TraesCS5D01G537400 chr5B 702262995 702268171 5176 False 1183.8 4338 90.8974 1 3478 5 chr5B.!!$F1 3477
2 TraesCS5D01G537400 chr4A 617669641 617670394 753 True 1079.0 1079 92.4800 6 762 1 chr4A.!!$R2 756
3 TraesCS5D01G537400 chr4A 617655351 617659341 3990 True 1058.0 3037 94.6420 762 3480 4 chr4A.!!$R4 2718

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
613 2095 0.093705 GAACTTCTGACGATGCGCAC 59.906 55.0 14.9 6.01 0.0 5.34 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2588 4084 0.391661 GAGAGGTGGAGCATTCGCAA 60.392 55.0 0.0 0.0 42.27 4.85 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
50 1532 5.295787 GTGCTAATGAAATAATCCCGTGACA 59.704 40.000 0.00 0.00 0.00 3.58
193 1675 5.163764 TGGTTCTCGGATTCGATGAATTTTG 60.164 40.000 0.00 0.00 45.04 2.44
241 1723 9.947433 TTGCTCCAATTTCTAATCATTTCAATT 57.053 25.926 0.00 0.00 0.00 2.32
349 1831 5.864474 TCTCGAGCTTTTAGTCAGATCAAAC 59.136 40.000 7.81 0.00 0.00 2.93
357 1839 8.730680 GCTTTTAGTCAGATCAAACTGGAAATA 58.269 33.333 9.57 0.00 38.31 1.40
452 1934 2.649331 AAGTGTATCGAGAACCGTGG 57.351 50.000 0.00 0.00 39.75 4.94
462 1944 5.235305 TCGAGAACCGTGGTATAACTTAC 57.765 43.478 0.00 0.00 39.75 2.34
506 1988 1.768870 CGGTTGGATGGTTAGGAGGAT 59.231 52.381 0.00 0.00 0.00 3.24
532 2014 0.477597 ATCTCCAACCCAGGGGACAA 60.478 55.000 11.37 0.00 42.03 3.18
605 2087 9.151471 TCTGGATTTATTTTAGAACTTCTGACG 57.849 33.333 1.17 0.00 0.00 4.35
613 2095 0.093705 GAACTTCTGACGATGCGCAC 59.906 55.000 14.90 6.01 0.00 5.34
645 2127 0.449388 GACGTTCCCATCGACTACGT 59.551 55.000 10.62 10.62 46.73 3.57
693 2175 7.758980 AATATCAAGATGATATGTCGTCTCAGC 59.241 37.037 13.90 0.00 46.26 4.26
701 2183 0.827925 TGTCGTCTCAGCCTCTTGGT 60.828 55.000 0.00 0.00 35.27 3.67
715 2197 1.212688 TCTTGGTGGTGCTCATATGGG 59.787 52.381 2.13 0.00 0.00 4.00
726 2208 1.768275 CTCATATGGGTAGGGTGTGCA 59.232 52.381 2.13 0.00 0.00 4.57
918 2405 1.002792 CGGCGTCAACAGATCGAGATA 60.003 52.381 0.00 0.00 0.00 1.98
1091 2587 1.066587 GCGATCCTTCCTCTCACGG 59.933 63.158 0.00 0.00 0.00 4.94
1340 2836 0.972134 ACGGCGATGATGATCAGGAT 59.028 50.000 16.62 0.00 0.00 3.24
1493 2989 1.067776 GGATTCAGTGAAGACGACGGT 60.068 52.381 11.91 0.00 0.00 4.83
1941 3437 2.664851 CGAGCGGCAAGTGGACAA 60.665 61.111 1.45 0.00 0.00 3.18
2111 3607 2.359975 CCGGAGTGGAAGGTTGGC 60.360 66.667 0.00 0.00 42.00 4.52
2556 4052 5.178061 TCAGTGTTTCATATTCAGCGATGT 58.822 37.500 0.00 0.00 0.00 3.06
2581 4077 0.394625 GTACGCCTCTCCACCTCTCT 60.395 60.000 0.00 0.00 0.00 3.10
2603 4099 3.883997 TTTTTGCGAATGCTCCACC 57.116 47.368 0.00 0.00 43.34 4.61
2604 4100 1.327303 TTTTTGCGAATGCTCCACCT 58.673 45.000 0.00 0.00 43.34 4.00
2605 4101 0.881118 TTTTGCGAATGCTCCACCTC 59.119 50.000 0.00 0.00 43.34 3.85
2606 4102 0.036732 TTTGCGAATGCTCCACCTCT 59.963 50.000 0.00 0.00 43.34 3.69
2607 4103 0.391661 TTGCGAATGCTCCACCTCTC 60.392 55.000 0.00 0.00 43.34 3.20
2608 4104 1.522580 GCGAATGCTCCACCTCTCC 60.523 63.158 0.00 0.00 38.39 3.71
2609 4105 1.965754 GCGAATGCTCCACCTCTCCT 61.966 60.000 0.00 0.00 38.39 3.69
2610 4106 0.539051 CGAATGCTCCACCTCTCCTT 59.461 55.000 0.00 0.00 0.00 3.36
2611 4107 1.065854 CGAATGCTCCACCTCTCCTTT 60.066 52.381 0.00 0.00 0.00 3.11
2612 4108 2.616510 CGAATGCTCCACCTCTCCTTTT 60.617 50.000 0.00 0.00 0.00 2.27
2613 4109 3.425659 GAATGCTCCACCTCTCCTTTTT 58.574 45.455 0.00 0.00 0.00 1.94
2614 4110 2.276732 TGCTCCACCTCTCCTTTTTG 57.723 50.000 0.00 0.00 0.00 2.44
2681 5065 8.627403 AGCAAAATTGATACTATTCACATCTGG 58.373 33.333 0.00 0.00 0.00 3.86
2693 5096 9.911788 ACTATTCACATCTGGATTTGTCTATTT 57.088 29.630 0.00 0.00 0.00 1.40
2696 5099 8.408043 TTCACATCTGGATTTGTCTATTTTGT 57.592 30.769 0.00 0.00 0.00 2.83
2697 5100 8.408043 TCACATCTGGATTTGTCTATTTTGTT 57.592 30.769 0.00 0.00 0.00 2.83
2698 5101 8.859090 TCACATCTGGATTTGTCTATTTTGTTT 58.141 29.630 0.00 0.00 0.00 2.83
2708 5111 9.830975 ATTTGTCTATTTTGTTTAGTTTTGCCT 57.169 25.926 0.00 0.00 0.00 4.75
2769 5172 4.910585 GCTCCGTGCCCATACCCG 62.911 72.222 0.00 0.00 35.15 5.28
2818 5222 4.343526 AGACACTCCCATAGTATCTTGCAG 59.656 45.833 0.00 0.00 38.94 4.41
2902 5306 7.633621 AGAGTATGTTATTGTTCATGATTGCG 58.366 34.615 0.00 0.00 0.00 4.85
2905 5309 3.120025 TGTTATTGTTCATGATTGCGCGT 60.120 39.130 8.43 0.00 0.00 6.01
2906 5310 2.178474 ATTGTTCATGATTGCGCGTC 57.822 45.000 8.43 4.01 0.00 5.19
2968 5372 4.021192 GGATCCAAAGATGAAAAACAGGCA 60.021 41.667 6.95 0.00 30.90 4.75
2974 5378 4.843220 AGATGAAAAACAGGCACAAGAG 57.157 40.909 0.00 0.00 0.00 2.85
2987 5391 2.877300 GCACAAGAGGAGATTTCAGGCA 60.877 50.000 0.00 0.00 0.00 4.75
3058 5462 8.260818 AGAGATCGAAATCCAAAGAACATTAGA 58.739 33.333 0.00 0.00 31.78 2.10
3114 5518 2.094338 GTCCCTCGTACGAACTCCATTT 60.094 50.000 20.00 0.00 0.00 2.32
3115 5519 2.564062 TCCCTCGTACGAACTCCATTTT 59.436 45.455 20.00 0.00 0.00 1.82
3116 5520 2.671396 CCCTCGTACGAACTCCATTTTG 59.329 50.000 20.00 3.18 0.00 2.44
3117 5521 2.671396 CCTCGTACGAACTCCATTTTGG 59.329 50.000 20.00 8.84 39.43 3.28
3118 5522 2.070783 TCGTACGAACTCCATTTTGGC 58.929 47.619 17.11 0.00 37.47 4.52
3119 5523 1.801771 CGTACGAACTCCATTTTGGCA 59.198 47.619 10.44 0.00 37.47 4.92
3120 5524 2.412325 CGTACGAACTCCATTTTGGCAC 60.412 50.000 10.44 0.00 37.47 5.01
3121 5525 0.958822 ACGAACTCCATTTTGGCACC 59.041 50.000 0.00 0.00 37.47 5.01
3122 5526 0.243636 CGAACTCCATTTTGGCACCC 59.756 55.000 0.00 0.00 37.47 4.61
3123 5527 0.608130 GAACTCCATTTTGGCACCCC 59.392 55.000 0.00 0.00 37.47 4.95
3124 5528 0.835971 AACTCCATTTTGGCACCCCC 60.836 55.000 0.00 0.00 37.47 5.40
3233 6049 3.129113 TCTCGCATGGAAAAATGGATGTG 59.871 43.478 0.00 0.00 0.00 3.21
3235 6051 4.013050 TCGCATGGAAAAATGGATGTGTA 58.987 39.130 0.00 0.00 0.00 2.90
3254 6070 5.883115 TGTGTACTTCTCTCTGATCCACTAG 59.117 44.000 0.00 0.00 0.00 2.57
3264 6080 4.072839 TCTGATCCACTAGCCTATACACG 58.927 47.826 0.00 0.00 0.00 4.49
3268 6084 4.160642 TCCACTAGCCTATACACGAGAA 57.839 45.455 0.00 0.00 0.00 2.87
3287 6103 8.899776 CACGAGAATTTTTGAGAATTTCTTCTG 58.100 33.333 0.00 0.00 41.87 3.02
3406 6225 7.702348 GGGATTTTTCTTGAACGAATGAATAGG 59.298 37.037 0.00 0.00 0.00 2.57
3424 6276 3.297134 AGGTCATATTGGGCGTGAATT 57.703 42.857 0.00 0.00 0.00 2.17
3454 6308 8.669243 GGAACAGTAATGTTATTTTGGAGAGAG 58.331 37.037 8.79 0.00 31.35 3.20
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
1 2 2.126307 CTCCGCGAGTGACCAGTG 60.126 66.667 8.23 0.00 0.00 3.66
2 3 4.057428 GCTCCGCGAGTGACCAGT 62.057 66.667 8.23 0.00 31.39 4.00
25 1506 5.527582 GTCACGGGATTATTTCATTAGCACT 59.472 40.000 0.00 0.00 0.00 4.40
27 1508 5.432645 TGTCACGGGATTATTTCATTAGCA 58.567 37.500 0.00 0.00 0.00 3.49
241 1723 6.940298 GGAAGGCATACTATATTTTAGCACCA 59.060 38.462 0.00 0.00 0.00 4.17
349 1831 4.818546 AGTTCAAGGCGATGATATTTCCAG 59.181 41.667 0.00 0.00 0.00 3.86
357 1839 7.122055 TGGTTTATTTAAGTTCAAGGCGATGAT 59.878 33.333 0.00 0.00 0.00 2.45
452 1934 6.626882 GTCGTTAGAGTCGCTGTAAGTTATAC 59.373 42.308 0.00 0.00 35.30 1.47
462 1944 0.242825 TTGGGTCGTTAGAGTCGCTG 59.757 55.000 0.00 0.00 0.00 5.18
597 2079 0.733909 TGAGTGCGCATCGTCAGAAG 60.734 55.000 15.91 0.00 0.00 2.85
603 2085 2.029288 CCTGTTGAGTGCGCATCGT 61.029 57.895 15.91 0.21 0.00 3.73
605 2087 1.364626 CCTCCTGTTGAGTGCGCATC 61.365 60.000 15.91 13.03 39.65 3.91
613 2095 1.067495 GGAACGTCTCCTCCTGTTGAG 60.067 57.143 8.87 0.00 41.61 3.02
645 2127 1.141019 GAAGTCATCGTAGGCGCCA 59.859 57.895 31.54 12.31 38.14 5.69
670 2152 5.468592 GCTGAGACGACATATCATCTTGAT 58.531 41.667 0.00 0.00 40.72 2.57
693 2175 2.569059 CATATGAGCACCACCAAGAGG 58.431 52.381 0.00 0.00 42.21 3.69
701 2183 1.345009 ACCCTACCCATATGAGCACCA 60.345 52.381 3.65 0.00 0.00 4.17
759 2241 9.191995 CGCAAGCGGTCATATATAAATGATATA 57.808 33.333 6.55 0.00 38.13 0.86
760 2242 7.710907 ACGCAAGCGGTCATATATAAATGATAT 59.289 33.333 19.30 0.00 44.69 1.63
777 2259 0.524392 TTTGAACACAACGCAAGCGG 60.524 50.000 19.30 4.29 44.69 5.52
830 2312 4.339814 TGTTACCATGTTGTCAAGGGAAAC 59.660 41.667 5.17 4.67 37.06 2.78
856 2343 0.037326 CCCACGCACATAGTGTCTGT 60.037 55.000 0.00 0.00 39.40 3.41
857 2344 0.740868 CCCCACGCACATAGTGTCTG 60.741 60.000 0.00 0.00 39.40 3.51
858 2345 0.902984 TCCCCACGCACATAGTGTCT 60.903 55.000 0.00 0.00 39.40 3.41
859 2346 0.036765 TTCCCCACGCACATAGTGTC 60.037 55.000 0.00 0.00 39.40 3.67
860 2347 0.321298 GTTCCCCACGCACATAGTGT 60.321 55.000 0.00 0.00 42.97 3.55
1001 2497 1.436600 CGCAGATGGCAGATGGATAC 58.563 55.000 0.00 0.00 45.17 2.24
1091 2587 0.396556 GGGAGAGGAGAGGGTGAGAC 60.397 65.000 0.00 0.00 0.00 3.36
1134 2630 2.592993 CGGAAGGAAGGTGGCTGGA 61.593 63.158 0.00 0.00 0.00 3.86
1288 2784 2.109181 GGATGCCGTAGCTGTCCC 59.891 66.667 0.00 0.00 38.07 4.46
1792 3288 1.029408 TGCGGTGATGGTATTGGCAC 61.029 55.000 0.00 0.00 0.00 5.01
2028 3524 1.260033 GCGAGGAGAATTGATGCTTCG 59.740 52.381 0.00 0.00 0.00 3.79
2111 3607 1.226746 GGTGGAACAACTTCTCCGTG 58.773 55.000 0.00 0.00 46.61 4.94
2531 4027 6.317140 ACATCGCTGAATATGAAACACTGATT 59.683 34.615 0.00 0.00 0.00 2.57
2556 4052 1.681166 GGTGGAGAGGCGTACAGTCTA 60.681 57.143 0.00 0.00 33.03 2.59
2588 4084 0.391661 GAGAGGTGGAGCATTCGCAA 60.392 55.000 0.00 0.00 42.27 4.85
2589 4085 1.219124 GAGAGGTGGAGCATTCGCA 59.781 57.895 0.00 0.00 42.27 5.10
2590 4086 1.522580 GGAGAGGTGGAGCATTCGC 60.523 63.158 0.00 0.00 38.99 4.70
2591 4087 0.539051 AAGGAGAGGTGGAGCATTCG 59.461 55.000 0.00 0.00 0.00 3.34
2592 4088 2.797177 AAAGGAGAGGTGGAGCATTC 57.203 50.000 0.00 0.00 0.00 2.67
2593 4089 3.160269 CAAAAAGGAGAGGTGGAGCATT 58.840 45.455 0.00 0.00 0.00 3.56
2594 4090 2.376518 TCAAAAAGGAGAGGTGGAGCAT 59.623 45.455 0.00 0.00 0.00 3.79
2595 4091 1.774254 TCAAAAAGGAGAGGTGGAGCA 59.226 47.619 0.00 0.00 0.00 4.26
2596 4092 2.568623 TCAAAAAGGAGAGGTGGAGC 57.431 50.000 0.00 0.00 0.00 4.70
2597 4093 6.054860 TCTAATCAAAAAGGAGAGGTGGAG 57.945 41.667 0.00 0.00 0.00 3.86
2598 4094 6.418101 CATCTAATCAAAAAGGAGAGGTGGA 58.582 40.000 0.00 0.00 0.00 4.02
2599 4095 5.067023 GCATCTAATCAAAAAGGAGAGGTGG 59.933 44.000 0.00 0.00 0.00 4.61
2600 4096 5.067023 GGCATCTAATCAAAAAGGAGAGGTG 59.933 44.000 0.00 0.00 0.00 4.00
2601 4097 5.196695 GGCATCTAATCAAAAAGGAGAGGT 58.803 41.667 0.00 0.00 0.00 3.85
2602 4098 4.582240 GGGCATCTAATCAAAAAGGAGAGG 59.418 45.833 0.00 0.00 0.00 3.69
2603 4099 5.195940 TGGGCATCTAATCAAAAAGGAGAG 58.804 41.667 0.00 0.00 0.00 3.20
2604 4100 5.191727 TGGGCATCTAATCAAAAAGGAGA 57.808 39.130 0.00 0.00 0.00 3.71
2605 4101 5.738208 GCATGGGCATCTAATCAAAAAGGAG 60.738 44.000 0.00 0.00 40.72 3.69
2606 4102 4.099881 GCATGGGCATCTAATCAAAAAGGA 59.900 41.667 0.00 0.00 40.72 3.36
2607 4103 4.374399 GCATGGGCATCTAATCAAAAAGG 58.626 43.478 0.00 0.00 40.72 3.11
2699 5102 8.860088 GGATGGTATCAAATAATAGGCAAAACT 58.140 33.333 0.00 0.00 0.00 2.66
2700 5103 8.088365 GGGATGGTATCAAATAATAGGCAAAAC 58.912 37.037 0.00 0.00 0.00 2.43
2701 5104 7.234577 GGGGATGGTATCAAATAATAGGCAAAA 59.765 37.037 0.00 0.00 0.00 2.44
2702 5105 6.723977 GGGGATGGTATCAAATAATAGGCAAA 59.276 38.462 0.00 0.00 0.00 3.68
2703 5106 6.252995 GGGGATGGTATCAAATAATAGGCAA 58.747 40.000 0.00 0.00 0.00 4.52
2704 5107 5.572680 CGGGGATGGTATCAAATAATAGGCA 60.573 44.000 0.00 0.00 0.00 4.75
2705 5108 4.881850 CGGGGATGGTATCAAATAATAGGC 59.118 45.833 0.00 0.00 0.00 3.93
2706 5109 6.308015 TCGGGGATGGTATCAAATAATAGG 57.692 41.667 0.00 0.00 0.00 2.57
2707 5110 8.677300 CAATTCGGGGATGGTATCAAATAATAG 58.323 37.037 0.00 0.00 0.00 1.73
2708 5111 7.613801 CCAATTCGGGGATGGTATCAAATAATA 59.386 37.037 0.00 0.00 0.00 0.98
2709 5112 6.437162 CCAATTCGGGGATGGTATCAAATAAT 59.563 38.462 0.00 0.00 0.00 1.28
2710 5113 5.772672 CCAATTCGGGGATGGTATCAAATAA 59.227 40.000 0.00 0.00 0.00 1.40
2711 5114 5.321102 CCAATTCGGGGATGGTATCAAATA 58.679 41.667 0.00 0.00 0.00 1.40
2784 5187 2.940410 TGGGAGTGTCTCAAAAACGTTC 59.060 45.455 0.00 0.00 31.08 3.95
2902 5306 2.915738 TTTCTTAGAGAGACGGACGC 57.084 50.000 0.00 0.00 33.02 5.19
2905 5309 6.812998 TGTTTTCTTTTCTTAGAGAGACGGA 58.187 36.000 0.00 0.00 33.02 4.69
2906 5310 7.478520 TTGTTTTCTTTTCTTAGAGAGACGG 57.521 36.000 0.00 0.00 33.02 4.79
2944 5348 4.021192 GCCTGTTTTTCATCTTTGGATCCA 60.021 41.667 11.44 11.44 0.00 3.41
2968 5372 2.026449 CCTGCCTGAAATCTCCTCTTGT 60.026 50.000 0.00 0.00 0.00 3.16
2974 5378 4.752146 CAATTTTCCTGCCTGAAATCTCC 58.248 43.478 0.00 0.00 34.41 3.71
2987 5391 1.267806 CGTGTGAGCTGCAATTTTCCT 59.732 47.619 1.02 0.00 0.00 3.36
3058 5462 1.927487 TGAAAGGCCTTCATGTGCAT 58.073 45.000 20.79 0.00 39.20 3.96
3093 5497 1.101331 ATGGAGTTCGTACGAGGGAC 58.899 55.000 18.64 13.90 0.00 4.46
3128 5532 1.113517 TCGAAAGATAGCCTCGGGGG 61.114 60.000 1.90 0.00 33.44 5.40
3129 5533 0.032267 GTCGAAAGATAGCCTCGGGG 59.968 60.000 0.00 0.00 45.19 5.73
3130 5534 0.032267 GGTCGAAAGATAGCCTCGGG 59.968 60.000 0.00 0.00 45.19 5.14
3131 5535 0.317938 CGGTCGAAAGATAGCCTCGG 60.318 60.000 0.00 0.00 45.19 4.63
3132 5536 0.661552 TCGGTCGAAAGATAGCCTCG 59.338 55.000 0.00 0.00 45.19 4.63
3133 5537 2.358267 TCTTCGGTCGAAAGATAGCCTC 59.642 50.000 7.23 0.00 45.19 4.70
3134 5538 2.376109 TCTTCGGTCGAAAGATAGCCT 58.624 47.619 7.23 0.00 45.19 4.58
3135 5539 2.865343 TCTTCGGTCGAAAGATAGCC 57.135 50.000 7.23 0.00 45.19 3.93
3136 5540 4.360563 TCATTCTTCGGTCGAAAGATAGC 58.639 43.478 7.23 0.00 45.19 2.97
3137 5541 5.340932 CGATCATTCTTCGGTCGAAAGATAG 59.659 44.000 7.23 5.63 45.19 2.08
3138 5542 5.008316 TCGATCATTCTTCGGTCGAAAGATA 59.992 40.000 7.23 0.00 38.25 1.98
3139 5543 4.045104 CGATCATTCTTCGGTCGAAAGAT 58.955 43.478 7.23 8.04 45.19 2.40
3233 6049 4.277423 GGCTAGTGGATCAGAGAGAAGTAC 59.723 50.000 0.00 0.00 0.00 2.73
3235 6051 3.052944 AGGCTAGTGGATCAGAGAGAAGT 60.053 47.826 0.00 0.00 0.00 3.01
3254 6070 6.903883 TCTCAAAAATTCTCGTGTATAGGC 57.096 37.500 0.00 0.00 0.00 3.93
3264 6080 8.807667 TGCAGAAGAAATTCTCAAAAATTCTC 57.192 30.769 0.00 0.00 0.00 2.87
3357 6176 8.700051 TCCCATGTTTTTCAGAAGTAAATTTGA 58.300 29.630 0.00 0.00 0.00 2.69
3406 6225 5.298276 TCCTAAAATTCACGCCCAATATGAC 59.702 40.000 0.00 0.00 0.00 3.06


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

AutoCloner maintained by Alex Coulton.