Multiple sequence alignment - TraesCS6A01G302900

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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 TraesCS6A01G302900 chr6A 100.000 2952 0 0 1 2952 536228295 536225344 0.000000e+00 5452
1 TraesCS6A01G302900 chr6B 89.667 2071 121 44 5 2018 583511392 583509358 0.000000e+00 2553
2 TraesCS6A01G302900 chr6B 90.043 934 61 17 2023 2952 583507651 583506746 0.000000e+00 1181
3 TraesCS6A01G302900 chr6D 92.404 1277 53 18 826 2081 389918038 389916785 0.000000e+00 1781
4 TraesCS6A01G302900 chr6D 92.386 880 53 7 2080 2952 389916623 389915751 0.000000e+00 1242
5 TraesCS6A01G302900 chr6D 85.022 454 53 9 2 446 389920356 389919909 5.800000e-122 448
6 TraesCS6A01G302900 chr6D 84.615 234 12 11 434 662 389919883 389919669 8.290000e-51 211
7 TraesCS6A01G302900 chr6D 92.188 128 5 3 683 809 389918234 389918111 3.020000e-40 176


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 TraesCS6A01G302900 chr6A 536225344 536228295 2951 True 5452.0 5452 100.000 1 2952 1 chr6A.!!$R1 2951
1 TraesCS6A01G302900 chr6B 583506746 583511392 4646 True 1867.0 2553 89.855 5 2952 2 chr6B.!!$R1 2947
2 TraesCS6A01G302900 chr6D 389915751 389920356 4605 True 771.6 1781 89.323 2 2952 5 chr6D.!!$R1 2950

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
189 203 0.178068 TCGCAGAAGAATAGGTGCCC 59.822 55.0 0.0 0.0 31.98 5.36 F
709 2196 0.522915 GCCTAACTCGAACTCGACGG 60.523 60.0 0.0 0.0 44.22 4.79 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1816 3370 0.393077 AAATCACCTAGGCGATCCCG 59.607 55.0 12.7 0.0 39.21 5.14 R
2189 5613 0.601558 TGTGCTAGGAGTTGACCGTC 59.398 55.0 0.0 0.0 34.73 4.79 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
19 20 2.266055 GTCAGGCTGCTAGCGGTT 59.734 61.111 24.21 10.81 43.62 4.44
27 28 2.131183 GCTGCTAGCGGTTCTTCTATG 58.869 52.381 24.21 0.00 0.00 2.23
42 43 2.540383 TCTATGGAACACAGACTGGCT 58.460 47.619 7.51 0.00 36.73 4.75
85 88 1.148310 GACATGGTGTCCAGTGAACG 58.852 55.000 0.00 0.00 41.37 3.95
111 114 4.730600 CAATCGATTGTCACAACACTGA 57.269 40.909 26.58 0.00 34.35 3.41
185 199 5.355350 CCTTCAAAATCGCAGAAGAATAGGT 59.645 40.000 0.00 0.00 43.58 3.08
189 203 0.178068 TCGCAGAAGAATAGGTGCCC 59.822 55.000 0.00 0.00 31.98 5.36
198 212 4.881157 AGAATAGGTGCCCCAACTTAAT 57.119 40.909 0.00 0.00 31.86 1.40
207 221 3.964031 TGCCCCAACTTAATGTGAAGTTT 59.036 39.130 0.00 0.00 45.30 2.66
209 223 5.104735 TGCCCCAACTTAATGTGAAGTTTTT 60.105 36.000 0.00 0.00 45.30 1.94
210 224 6.098409 TGCCCCAACTTAATGTGAAGTTTTTA 59.902 34.615 0.00 0.00 45.30 1.52
277 295 9.515020 CACATTATCGTTTAAAAGCATGGTATT 57.485 29.630 0.00 0.00 0.00 1.89
312 330 4.380233 GGAGACATGGCTTCTTGTGAATTG 60.380 45.833 0.41 0.00 0.00 2.32
313 331 3.057033 AGACATGGCTTCTTGTGAATTGC 60.057 43.478 0.00 0.00 0.00 3.56
314 332 2.895404 ACATGGCTTCTTGTGAATTGCT 59.105 40.909 0.00 0.00 0.00 3.91
315 333 3.057033 ACATGGCTTCTTGTGAATTGCTC 60.057 43.478 0.00 0.00 0.00 4.26
319 338 3.229552 GCTTCTTGTGAATTGCTCGAAC 58.770 45.455 0.00 0.00 0.00 3.95
364 384 1.034292 GGAGACAGCCATTTGAGCCC 61.034 60.000 0.00 0.00 0.00 5.19
371 391 1.815421 CCATTTGAGCCCGTCCGAG 60.815 63.158 0.00 0.00 0.00 4.63
410 431 2.547211 CTGAGCCCATCGTGATGATTTC 59.453 50.000 11.35 6.09 41.20 2.17
446 467 1.124462 CGAACGAGGAGCGATCATTC 58.876 55.000 1.84 0.00 41.30 2.67
518 573 4.752879 TGTTACAGCCGGCGCCTC 62.753 66.667 26.68 16.25 34.57 4.70
595 654 4.345962 CACGGGTCGCCACGTACA 62.346 66.667 0.00 0.00 42.04 2.90
596 655 4.347453 ACGGGTCGCCACGTACAC 62.347 66.667 0.00 0.00 42.15 2.90
600 660 2.633509 GGTCGCCACGTACACCTCT 61.634 63.158 0.00 0.00 0.00 3.69
623 683 4.912395 GCCCCAACCACCTGTGCA 62.912 66.667 0.00 0.00 0.00 4.57
624 684 2.912025 CCCCAACCACCTGTGCAC 60.912 66.667 10.75 10.75 0.00 4.57
625 685 3.286751 CCCAACCACCTGTGCACG 61.287 66.667 13.13 7.03 0.00 5.34
626 686 3.964875 CCAACCACCTGTGCACGC 61.965 66.667 13.13 0.00 0.00 5.34
658 718 4.200874 TCTCCGCCTTCTTGTAAACAAAA 58.799 39.130 0.00 0.00 35.15 2.44
674 2155 7.927629 TGTAAACAAAACTTACTCCGTATCAGT 59.072 33.333 0.00 0.00 31.73 3.41
675 2156 7.417496 AAACAAAACTTACTCCGTATCAGTC 57.583 36.000 0.00 0.00 0.00 3.51
676 2157 6.092955 ACAAAACTTACTCCGTATCAGTCA 57.907 37.500 0.00 0.00 0.00 3.41
709 2196 0.522915 GCCTAACTCGAACTCGACGG 60.523 60.000 0.00 0.00 44.22 4.79
711 2198 1.465354 CCTAACTCGAACTCGACGGTG 60.465 57.143 0.00 0.00 44.22 4.94
728 2215 1.408822 GGTGGTCTATTTCCAGCCAGG 60.409 57.143 3.19 0.00 44.60 4.45
761 2248 1.939980 AGGAGGATAACCGGATAGGC 58.060 55.000 9.46 0.00 46.52 3.93
762 2249 0.531200 GGAGGATAACCGGATAGGCG 59.469 60.000 9.46 0.00 46.52 5.52
763 2250 0.531200 GAGGATAACCGGATAGGCGG 59.469 60.000 9.46 0.00 46.52 6.13
811 2323 1.959042 CCATTCATCGGTCTGGGAAG 58.041 55.000 0.00 0.00 0.00 3.46
863 2408 2.703409 CGGCCAAGAAAGCGATCG 59.297 61.111 11.69 11.69 0.00 3.69
865 2410 1.716172 GGCCAAGAAAGCGATCGAC 59.284 57.895 21.57 10.46 0.00 4.20
867 2412 1.706287 GCCAAGAAAGCGATCGACCC 61.706 60.000 21.57 0.32 0.00 4.46
874 2419 3.195698 GCGATCGACCCACAAGCC 61.196 66.667 21.57 0.00 0.00 4.35
875 2420 2.885644 CGATCGACCCACAAGCCG 60.886 66.667 10.26 0.00 0.00 5.52
876 2421 2.577059 GATCGACCCACAAGCCGA 59.423 61.111 0.00 0.00 35.43 5.54
877 2422 1.144057 GATCGACCCACAAGCCGAT 59.856 57.895 0.00 0.00 43.38 4.18
878 2423 1.153369 ATCGACCCACAAGCCGATG 60.153 57.895 0.00 0.00 39.84 3.84
879 2424 2.593468 ATCGACCCACAAGCCGATGG 62.593 60.000 0.00 0.00 39.84 3.51
880 2425 2.668632 GACCCACAAGCCGATGGA 59.331 61.111 0.00 0.00 38.34 3.41
881 2426 1.224592 GACCCACAAGCCGATGGAT 59.775 57.895 0.00 0.00 38.34 3.41
1153 2701 0.612229 ATCCCTATCCGATGCTGCTG 59.388 55.000 0.00 0.00 0.00 4.41
1608 3162 2.143594 GATCGGGCCGACGAAGCTAT 62.144 60.000 33.71 13.24 46.92 2.97
1619 3173 1.153369 GAAGCTATGGCGGTGCAGA 60.153 57.895 0.00 0.00 44.37 4.26
1747 3301 3.599584 CACCAGATGCCCTTGCTG 58.400 61.111 0.00 0.00 38.71 4.41
1816 3370 1.738030 GCTTGCCTTTGATGGTGCATC 60.738 52.381 0.00 0.00 40.88 3.91
1833 3387 0.251832 ATCGGGATCGCCTAGGTGAT 60.252 55.000 33.16 33.16 46.55 3.06
1884 3438 4.646492 AGTGGTCAATATGCCTCCAAATTC 59.354 41.667 0.00 0.00 0.00 2.17
1895 3449 3.181483 GCCTCCAAATTCCAGCATAGTTG 60.181 47.826 0.00 0.00 0.00 3.16
1958 3517 6.115446 TGAAGTATGAAATTGCTCCGATCTT 58.885 36.000 0.00 0.00 0.00 2.40
1982 3541 7.744087 TTTTCTTGACACTACATGTTAGCAT 57.256 32.000 2.30 0.00 43.56 3.79
2028 5289 3.772387 TGCCAACCTTACATGGAATTCA 58.228 40.909 7.93 0.00 39.12 2.57
2066 5327 0.515564 GTGAACACGGGATCAAACGG 59.484 55.000 0.00 1.36 0.00 4.44
2071 5332 1.231221 CACGGGATCAAACGGTGAAA 58.769 50.000 8.26 0.00 40.50 2.69
2101 5525 9.817365 CACTTAATTTATTGAGCATTAGGATCG 57.183 33.333 0.00 0.00 33.60 3.69
2121 5545 5.582689 TCGTGCATCAAGATAGAAGAGAA 57.417 39.130 0.00 0.00 0.00 2.87
2202 5626 1.249407 GACTCAGACGGTCAACTCCT 58.751 55.000 11.27 0.00 34.23 3.69
2210 5634 1.623811 ACGGTCAACTCCTAGCACAAT 59.376 47.619 0.00 0.00 0.00 2.71
2223 5647 0.958091 GCACAATAAGCCACACCACA 59.042 50.000 0.00 0.00 0.00 4.17
2230 5654 1.050204 AAGCCACACCACATTGCATT 58.950 45.000 0.00 0.00 0.00 3.56
2231 5655 0.319083 AGCCACACCACATTGCATTG 59.681 50.000 7.04 7.04 0.00 2.82
2233 5657 0.033642 CCACACCACATTGCATTGCA 59.966 50.000 7.38 7.38 36.47 4.08
2234 5658 1.338294 CCACACCACATTGCATTGCAT 60.338 47.619 12.95 0.00 38.76 3.96
2235 5659 1.996898 CACACCACATTGCATTGCATC 59.003 47.619 12.95 0.00 38.76 3.91
2236 5660 1.066716 ACACCACATTGCATTGCATCC 60.067 47.619 12.95 0.00 38.76 3.51
2237 5661 1.206132 CACCACATTGCATTGCATCCT 59.794 47.619 12.95 0.00 38.76 3.24
2247 5671 0.107508 ATTGCATCCTCTCACCACCG 60.108 55.000 0.00 0.00 0.00 4.94
2251 5675 3.625632 ATCCTCTCACCACCGGCCT 62.626 63.158 0.00 0.00 0.00 5.19
2276 5700 2.426842 GGATTCACTTCCCAAGGAGG 57.573 55.000 0.00 0.00 34.79 4.30
2300 5728 1.603455 CGGGGGTGTTGTTCATGCT 60.603 57.895 0.00 0.00 0.00 3.79
2429 5857 1.729797 GCGACGGTTGTCTCTCTCTTC 60.730 57.143 0.00 0.00 43.21 2.87
2430 5858 1.807742 CGACGGTTGTCTCTCTCTTCT 59.192 52.381 0.00 0.00 43.21 2.85
2431 5859 2.159626 CGACGGTTGTCTCTCTCTTCTC 60.160 54.545 0.00 0.00 43.21 2.87
2432 5860 3.078837 GACGGTTGTCTCTCTCTTCTCT 58.921 50.000 0.00 0.00 42.08 3.10
2434 5862 4.653868 ACGGTTGTCTCTCTCTTCTCTTA 58.346 43.478 0.00 0.00 0.00 2.10
2435 5863 4.456566 ACGGTTGTCTCTCTCTTCTCTTAC 59.543 45.833 0.00 0.00 0.00 2.34
2436 5864 4.698304 CGGTTGTCTCTCTCTTCTCTTACT 59.302 45.833 0.00 0.00 0.00 2.24
2439 5867 4.850680 TGTCTCTCTCTTCTCTTACTCCC 58.149 47.826 0.00 0.00 0.00 4.30
2440 5868 4.204799 GTCTCTCTCTTCTCTTACTCCCC 58.795 52.174 0.00 0.00 0.00 4.81
2465 5893 1.287739 CCACCCTCTCTCTCTTCTCCT 59.712 57.143 0.00 0.00 0.00 3.69
2490 5918 0.610687 CCCTCTCTCTCCCAACACAC 59.389 60.000 0.00 0.00 0.00 3.82
2605 6033 0.535335 CTACGAAGGGTAGCTTGGCA 59.465 55.000 0.00 0.00 42.02 4.92
2670 6098 1.066430 GGATGGTGTCCGAAAGTGCTA 60.066 52.381 0.00 0.00 37.23 3.49
2673 6101 2.422597 TGGTGTCCGAAAGTGCTATTG 58.577 47.619 0.00 0.00 0.00 1.90
2701 6129 2.743928 GTGTGCGGCTTCTCAGGG 60.744 66.667 0.00 0.00 0.00 4.45
2702 6130 3.241530 TGTGCGGCTTCTCAGGGT 61.242 61.111 0.00 0.00 0.00 4.34
2756 6184 0.678684 TGCATGCTCACCCATGACAG 60.679 55.000 20.33 0.00 44.12 3.51
2792 6221 0.750850 TTGTGCCGCCCTAGATCTAC 59.249 55.000 0.00 0.00 0.00 2.59
2922 6351 8.070034 TCAATTCGAACTTGTATTAGGGAGTA 57.930 34.615 0.00 0.00 0.00 2.59
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 2.510238 CCGCTAGCAGCCTGACAC 60.510 66.667 16.45 0.00 38.18 3.67
19 20 3.055819 GCCAGTCTGTGTTCCATAGAAGA 60.056 47.826 0.00 0.00 33.69 2.87
27 28 1.968540 GCCAGCCAGTCTGTGTTCC 60.969 63.158 0.00 0.00 41.25 3.62
42 43 1.962807 CATGTGTTTTCTCCTTGGCCA 59.037 47.619 0.00 0.00 0.00 5.36
108 111 6.036953 GTCAAGGCTGATTAGTTTCATCTCAG 59.963 42.308 0.00 0.00 37.10 3.35
111 114 6.059787 AGTCAAGGCTGATTAGTTTCATCT 57.940 37.500 0.00 0.00 33.05 2.90
156 159 1.999735 TCTGCGATTTTGAAGGCGTAG 59.000 47.619 0.00 0.00 37.73 3.51
157 160 2.087501 TCTGCGATTTTGAAGGCGTA 57.912 45.000 0.00 0.00 0.00 4.42
159 162 1.464608 TCTTCTGCGATTTTGAAGGCG 59.535 47.619 0.00 0.00 38.10 5.52
161 164 5.355350 ACCTATTCTTCTGCGATTTTGAAGG 59.645 40.000 0.00 0.00 38.10 3.46
162 165 6.253746 CACCTATTCTTCTGCGATTTTGAAG 58.746 40.000 0.00 0.00 38.69 3.02
164 167 4.094887 GCACCTATTCTTCTGCGATTTTGA 59.905 41.667 0.00 0.00 0.00 2.69
185 199 3.237268 ACTTCACATTAAGTTGGGGCA 57.763 42.857 0.00 0.00 36.26 5.36
198 212 9.552114 CATGCAAAACAAAATAAAAACTTCACA 57.448 25.926 0.00 0.00 0.00 3.58
236 254 7.984391 ACGATAATGTGATATCAACTTTGCAA 58.016 30.769 7.07 0.00 32.84 4.08
237 255 7.552458 ACGATAATGTGATATCAACTTTGCA 57.448 32.000 7.07 0.14 32.84 4.08
267 285 5.133660 TCCTTGGGTACAATAATACCATGCT 59.866 40.000 4.45 0.00 45.72 3.79
277 295 3.118038 GCCATGTCTCCTTGGGTACAATA 60.118 47.826 0.00 0.00 36.60 1.90
279 297 1.004277 GCCATGTCTCCTTGGGTACAA 59.996 52.381 0.00 0.00 36.60 2.41
281 299 0.912486 AGCCATGTCTCCTTGGGTAC 59.088 55.000 0.00 0.00 42.80 3.34
312 330 1.936547 CTATTTCAGCCCAGTTCGAGC 59.063 52.381 0.00 0.00 0.00 5.03
313 331 2.932614 CACTATTTCAGCCCAGTTCGAG 59.067 50.000 0.00 0.00 0.00 4.04
314 332 2.301870 ACACTATTTCAGCCCAGTTCGA 59.698 45.455 0.00 0.00 0.00 3.71
315 333 2.416547 CACACTATTTCAGCCCAGTTCG 59.583 50.000 0.00 0.00 0.00 3.95
319 338 1.683011 CCCCACACTATTTCAGCCCAG 60.683 57.143 0.00 0.00 0.00 4.45
364 384 0.508641 CAGAAACAAGCACTCGGACG 59.491 55.000 0.00 0.00 0.00 4.79
371 391 1.002033 CAGTCCAGCAGAAACAAGCAC 60.002 52.381 0.00 0.00 0.00 4.40
410 431 2.802667 CGCCTTCATCGCCGTTGAG 61.803 63.158 0.00 0.00 0.00 3.02
446 467 2.049433 AAGCAACGACGACGGGAG 60.049 61.111 12.58 2.05 44.46 4.30
483 538 2.124695 GGTGGCTCGGGATTCACC 60.125 66.667 7.05 7.05 42.11 4.02
489 544 1.534476 TGTAACAGGTGGCTCGGGA 60.534 57.895 0.00 0.00 0.00 5.14
595 654 2.762459 TTGGGGCGCGATAGAGGT 60.762 61.111 12.10 0.00 39.76 3.85
596 655 2.280186 GTTGGGGCGCGATAGAGG 60.280 66.667 12.10 0.00 39.76 3.69
600 660 4.476752 GGTGGTTGGGGCGCGATA 62.477 66.667 12.10 0.00 0.00 2.92
622 682 3.832171 GAGAAGCTCGTGCGCGTG 61.832 66.667 20.50 18.52 45.42 5.34
674 2155 0.261991 AGGCTCTATCCCGTTCCTGA 59.738 55.000 0.00 0.00 0.00 3.86
675 2156 1.996798 TAGGCTCTATCCCGTTCCTG 58.003 55.000 0.00 0.00 0.00 3.86
676 2157 2.091222 AGTTAGGCTCTATCCCGTTCCT 60.091 50.000 0.00 0.00 0.00 3.36
709 2196 1.408822 CCCTGGCTGGAAATAGACCAC 60.409 57.143 12.58 0.00 38.35 4.16
711 2198 0.466372 GCCCTGGCTGGAAATAGACC 60.466 60.000 12.58 0.00 38.35 3.85
728 2215 1.709994 CCTCCTATCCAACCCTGGCC 61.710 65.000 0.00 0.00 43.17 5.36
761 2248 1.962822 ATGCGTGCATGGCTATCCG 60.963 57.895 6.53 0.00 35.03 4.18
762 2249 4.069869 ATGCGTGCATGGCTATCC 57.930 55.556 6.53 0.00 35.03 2.59
797 2285 2.989639 TGGCTTCCCAGACCGATG 59.010 61.111 0.00 0.00 35.79 3.84
811 2323 2.125106 CCGCCCTAGTTCACTGGC 60.125 66.667 0.00 0.00 40.54 4.85
863 2408 0.815615 GATCCATCGGCTTGTGGGTC 60.816 60.000 0.53 0.53 38.37 4.46
865 2410 1.889105 CGATCCATCGGCTTGTGGG 60.889 63.158 0.73 0.00 45.93 4.61
949 2494 3.723348 GTGGACGTTTGCTCGCCC 61.723 66.667 0.00 0.00 34.11 6.13
950 2495 4.072088 CGTGGACGTTTGCTCGCC 62.072 66.667 0.00 0.00 34.11 5.54
1588 3142 4.508128 GCTTCGTCGGCCCGATCA 62.508 66.667 10.04 0.00 38.42 2.92
1608 3162 4.056125 CGTCTCTCTGCACCGCCA 62.056 66.667 0.00 0.00 0.00 5.69
1619 3173 2.195096 CTCGTCATCGACTACGTCTCT 58.805 52.381 17.77 0.00 41.35 3.10
1747 3301 4.327982 TCGATCTCAATGAACCATCCTC 57.672 45.455 0.00 0.00 0.00 3.71
1816 3370 0.393077 AAATCACCTAGGCGATCCCG 59.607 55.000 12.70 0.00 39.21 5.14
1849 3403 7.878127 GGCATATTGACCACTATTAGTACACAT 59.122 37.037 0.00 0.00 0.00 3.21
1884 3438 7.867403 ACAATTCTGTAAAAACAACTATGCTGG 59.133 33.333 0.00 0.00 32.54 4.85
1935 3494 6.610741 AAGATCGGAGCAATTTCATACTTC 57.389 37.500 0.00 0.00 0.00 3.01
1958 3517 7.744087 ATGCTAACATGTAGTGTCAAGAAAA 57.256 32.000 0.00 0.00 41.14 2.29
1987 3546 6.430864 TGGCAATTGGGTTATATTCTTGAGA 58.569 36.000 7.72 0.00 0.00 3.27
2028 5289 3.520721 TCACCTGATCTTCATCACACCAT 59.479 43.478 0.00 0.00 33.80 3.55
2083 5507 4.702831 TGCACGATCCTAATGCTCAATAA 58.297 39.130 0.00 0.00 40.13 1.40
2101 5525 5.523188 CCACTTCTCTTCTATCTTGATGCAC 59.477 44.000 0.00 0.00 0.00 4.57
2145 5569 5.940470 CCTAAGAGGAGCTACAACAAACATT 59.060 40.000 0.00 0.00 37.67 2.71
2189 5613 0.601558 TGTGCTAGGAGTTGACCGTC 59.398 55.000 0.00 0.00 34.73 4.79
2202 5626 2.224646 TGTGGTGTGGCTTATTGTGCTA 60.225 45.455 0.00 0.00 0.00 3.49
2210 5634 1.921982 ATGCAATGTGGTGTGGCTTA 58.078 45.000 0.00 0.00 0.00 3.09
2223 5647 2.029623 GGTGAGAGGATGCAATGCAAT 58.970 47.619 13.45 0.60 43.62 3.56
2230 5654 2.659063 CCGGTGGTGAGAGGATGCA 61.659 63.158 0.00 0.00 0.00 3.96
2231 5655 2.187946 CCGGTGGTGAGAGGATGC 59.812 66.667 0.00 0.00 0.00 3.91
2233 5657 3.083997 GGCCGGTGGTGAGAGGAT 61.084 66.667 1.90 0.00 0.00 3.24
2234 5658 4.316823 AGGCCGGTGGTGAGAGGA 62.317 66.667 1.90 0.00 0.00 3.71
2235 5659 3.775654 GAGGCCGGTGGTGAGAGG 61.776 72.222 1.90 0.00 0.00 3.69
2236 5660 4.135153 CGAGGCCGGTGGTGAGAG 62.135 72.222 1.90 0.00 0.00 3.20
2251 5675 2.582436 GGAAGTGAATCCCGCCGA 59.418 61.111 0.00 0.00 33.05 5.54
2259 5683 2.236395 CGTACCTCCTTGGGAAGTGAAT 59.764 50.000 0.00 0.00 41.11 2.57
2261 5685 1.263356 CGTACCTCCTTGGGAAGTGA 58.737 55.000 0.00 0.00 41.11 3.41
2263 5687 1.264295 GACGTACCTCCTTGGGAAGT 58.736 55.000 0.00 0.00 44.24 3.01
2276 5700 0.945743 GAACAACACCCCCGACGTAC 60.946 60.000 0.00 0.00 0.00 3.67
2300 5728 1.386155 CCATACCCCCAAACCAGCA 59.614 57.895 0.00 0.00 0.00 4.41
2413 5841 4.698304 AGTAAGAGAAGAGAGAGACAACCG 59.302 45.833 0.00 0.00 0.00 4.44
2416 5844 5.258051 GGGAGTAAGAGAAGAGAGAGACAA 58.742 45.833 0.00 0.00 0.00 3.18
2417 5845 4.324719 GGGGAGTAAGAGAAGAGAGAGACA 60.325 50.000 0.00 0.00 0.00 3.41
2444 5872 1.687996 GGAGAAGAGAGAGAGGGTGGG 60.688 61.905 0.00 0.00 0.00 4.61
2445 5873 1.287739 AGGAGAAGAGAGAGAGGGTGG 59.712 57.143 0.00 0.00 0.00 4.61
2447 5875 2.381961 ACAAGGAGAAGAGAGAGAGGGT 59.618 50.000 0.00 0.00 0.00 4.34
2465 5893 1.084866 TGGGAGAGAGAGGGAGACAA 58.915 55.000 0.00 0.00 0.00 3.18
2490 5918 2.222027 GAAGGTGGAAACTCACACAGG 58.778 52.381 0.00 0.00 39.31 4.00
2532 5960 0.609662 GTGCCATTGTTGAAGCCCAT 59.390 50.000 0.00 0.00 0.00 4.00
2610 6038 1.814394 CCACACCAGATCCACAATGTG 59.186 52.381 6.37 6.37 37.72 3.21
2670 6098 0.904394 GCACACCATCCCAACCCAAT 60.904 55.000 0.00 0.00 0.00 3.16
2673 6101 3.061848 CGCACACCATCCCAACCC 61.062 66.667 0.00 0.00 0.00 4.11
2701 6129 2.610374 TCCTCGTTGCACTTAACAACAC 59.390 45.455 7.34 0.00 46.14 3.32
2702 6130 2.869801 CTCCTCGTTGCACTTAACAACA 59.130 45.455 7.34 0.00 46.14 3.33
2756 6184 2.014128 ACAACACATTACCGCTATGGC 58.986 47.619 0.00 0.00 43.94 4.40
2792 6221 2.019984 GGCAGTAATGAAGGAAGCTGG 58.980 52.381 0.00 0.00 0.00 4.85
2911 6340 6.143915 AGCAAACCAGATCTACTCCCTAATA 58.856 40.000 0.00 0.00 0.00 0.98
2917 6346 5.735766 AGTAAAGCAAACCAGATCTACTCC 58.264 41.667 0.00 0.00 0.00 3.85
2922 6351 3.589288 AGGGAGTAAAGCAAACCAGATCT 59.411 43.478 0.00 0.00 0.00 2.75


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

AutoCloner maintained by Alex Coulton.