Multiple sequence alignment - TraesCS6B01G346400

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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 TraesCS6B01G346400 chr6B 100.000 2498 0 0 1 2498 610084346 610086843 0.000000e+00 4614.0
1 TraesCS6B01G346400 chr6B 83.413 832 84 33 1652 2453 540098968 540098161 0.000000e+00 723.0
2 TraesCS6B01G346400 chr6B 88.975 517 49 5 988 1497 610065010 610065525 1.260000e-177 632.0
3 TraesCS6B01G346400 chr6B 81.068 412 28 20 514 899 610064497 610064884 1.460000e-72 283.0
4 TraesCS6B01G346400 chr6B 86.957 69 9 0 147 215 166127585 166127653 7.410000e-11 78.7
5 TraesCS6B01G346400 chr6D 90.774 1680 86 28 1 1638 406196812 406198464 0.000000e+00 2180.0
6 TraesCS6B01G346400 chr6D 90.522 517 41 5 988 1497 406167781 406168296 0.000000e+00 676.0
7 TraesCS6B01G346400 chr6A 93.256 1290 45 16 344 1616 552712393 552713657 0.000000e+00 1862.0
8 TraesCS6B01G346400 chr6A 91.489 517 36 5 988 1497 552590870 552591385 0.000000e+00 704.0
9 TraesCS6B01G346400 chr6A 88.000 50 6 0 160 209 48553060 48553109 2.680000e-05 60.2
10 TraesCS6B01G346400 chr7B 85.697 811 80 22 1656 2453 60047961 60048748 0.000000e+00 822.0
11 TraesCS6B01G346400 chr5D 79.131 829 125 28 1656 2446 506205652 506204834 1.700000e-146 529.0
12 TraesCS6B01G346400 chr7D 79.363 659 95 24 1732 2378 506717771 506718400 2.300000e-115 425.0
13 TraesCS6B01G346400 chr2A 76.781 814 129 32 1656 2443 41228587 41229366 3.870000e-108 401.0
14 TraesCS6B01G346400 chr2D 85.075 67 10 0 144 210 331615775 331615841 4.460000e-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 TraesCS6B01G346400 chr6B 610084346 610086843 2497 False 4614.0 4614 100.0000 1 2498 1 chr6B.!!$F2 2497
1 TraesCS6B01G346400 chr6B 540098161 540098968 807 True 723.0 723 83.4130 1652 2453 1 chr6B.!!$R1 801
2 TraesCS6B01G346400 chr6B 610064497 610065525 1028 False 457.5 632 85.0215 514 1497 2 chr6B.!!$F3 983
3 TraesCS6B01G346400 chr6D 406196812 406198464 1652 False 2180.0 2180 90.7740 1 1638 1 chr6D.!!$F2 1637
4 TraesCS6B01G346400 chr6D 406167781 406168296 515 False 676.0 676 90.5220 988 1497 1 chr6D.!!$F1 509
5 TraesCS6B01G346400 chr6A 552712393 552713657 1264 False 1862.0 1862 93.2560 344 1616 1 chr6A.!!$F3 1272
6 TraesCS6B01G346400 chr6A 552590870 552591385 515 False 704.0 704 91.4890 988 1497 1 chr6A.!!$F2 509
7 TraesCS6B01G346400 chr7B 60047961 60048748 787 False 822.0 822 85.6970 1656 2453 1 chr7B.!!$F1 797
8 TraesCS6B01G346400 chr5D 506204834 506205652 818 True 529.0 529 79.1310 1656 2446 1 chr5D.!!$R1 790
9 TraesCS6B01G346400 chr7D 506717771 506718400 629 False 425.0 425 79.3630 1732 2378 1 chr7D.!!$F1 646
10 TraesCS6B01G346400 chr2A 41228587 41229366 779 False 401.0 401 76.7810 1656 2443 1 chr2A.!!$F1 787

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
915 1008 0.249398 CCCACGTATATAGCCCTGCC 59.751 60.0 0.0 0.0 0.0 4.85 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2284 2456 0.24912 CTGGTGTGTTGCGGGATCTA 59.751 55.0 0.0 0.0 0.0 1.98 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
22 23 3.736740 GCAAAAGGAAGAAAACTTCGGCA 60.737 43.478 0.00 0.00 34.37 5.69
47 48 8.945057 CACCCCCAAGATTTTAAATGTATTTTG 58.055 33.333 0.00 0.00 0.00 2.44
66 67 4.979943 TTGCTATCGATGGATGCAAAAA 57.020 36.364 13.60 0.00 40.43 1.94
95 97 4.082125 ACTTCAGCACCCCAAGATTTTAG 58.918 43.478 0.00 0.00 0.00 1.85
99 101 4.019174 CAGCACCCCAAGATTTTAGATGT 58.981 43.478 0.00 0.00 0.00 3.06
152 154 2.636893 AGGACATGTGATATGCTCCCTC 59.363 50.000 1.15 0.00 0.00 4.30
153 155 2.611473 GGACATGTGATATGCTCCCTCG 60.611 54.545 1.15 0.00 0.00 4.63
155 157 1.345741 CATGTGATATGCTCCCTCGGT 59.654 52.381 0.00 0.00 0.00 4.69
156 158 1.496060 TGTGATATGCTCCCTCGGTT 58.504 50.000 0.00 0.00 0.00 4.44
158 160 1.689273 GTGATATGCTCCCTCGGTTCT 59.311 52.381 0.00 0.00 0.00 3.01
165 167 4.829872 TGCTCCCTCGGTTCTAAAATAA 57.170 40.909 0.00 0.00 0.00 1.40
166 168 5.168647 TGCTCCCTCGGTTCTAAAATAAA 57.831 39.130 0.00 0.00 0.00 1.40
199 201 6.652062 ACCTTAGTACAACTTATTTTGGGACG 59.348 38.462 0.00 0.00 0.00 4.79
204 206 4.721132 ACAACTTATTTTGGGACGGAAGA 58.279 39.130 0.00 0.00 0.00 2.87
302 304 6.203915 ACAACGAGTTAATGAACAACATAGCA 59.796 34.615 0.00 0.00 38.38 3.49
341 343 5.050490 CAGTCCGTTTCATATGTTCCTAGG 58.950 45.833 0.82 0.82 0.00 3.02
401 403 3.367743 CGGCAGGTGCAGTGCAAT 61.368 61.111 21.67 9.01 41.47 3.56
424 426 0.528901 AACAGCGCACGAACACACTA 60.529 50.000 11.47 0.00 0.00 2.74
433 435 2.156891 CACGAACACACTAAACCATCGG 59.843 50.000 0.00 0.00 33.45 4.18
447 449 1.475571 CCATCGGCATCATGGTTCTGA 60.476 52.381 0.00 0.00 36.74 3.27
460 462 3.256704 TGGTTCTGAAGTAACCCATCCT 58.743 45.455 2.73 0.00 44.86 3.24
461 463 3.009033 TGGTTCTGAAGTAACCCATCCTG 59.991 47.826 2.73 0.00 44.86 3.86
462 464 3.010420 GTTCTGAAGTAACCCATCCTGC 58.990 50.000 0.00 0.00 0.00 4.85
464 466 2.237143 TCTGAAGTAACCCATCCTGCTG 59.763 50.000 0.00 0.00 0.00 4.41
467 476 1.819632 GTAACCCATCCTGCTGGCG 60.820 63.158 4.42 0.00 34.77 5.69
561 578 2.017049 AGAATGGAGCGAAAATTCCCG 58.983 47.619 0.00 0.00 31.91 5.14
806 850 2.662596 CCAGCCAAGCTCCGTACA 59.337 61.111 0.00 0.00 36.40 2.90
807 851 1.221840 CCAGCCAAGCTCCGTACAT 59.778 57.895 0.00 0.00 36.40 2.29
808 852 0.464036 CCAGCCAAGCTCCGTACATA 59.536 55.000 0.00 0.00 36.40 2.29
809 853 1.571919 CAGCCAAGCTCCGTACATAC 58.428 55.000 0.00 0.00 36.40 2.39
915 1008 0.249398 CCCACGTATATAGCCCTGCC 59.751 60.000 0.00 0.00 0.00 4.85
958 1051 2.176369 CACAAGCAACAACGACAACTG 58.824 47.619 0.00 0.00 0.00 3.16
992 1107 4.849310 TCCTATTGGCGCGGCACC 62.849 66.667 36.44 15.23 0.00 5.01
1350 1489 2.472029 GTGATGAGAAGGAGGAGGGAA 58.528 52.381 0.00 0.00 0.00 3.97
1426 1565 4.873129 CCGTCGATGGGTGCTCGG 62.873 72.222 16.43 3.96 36.78 4.63
1589 1728 0.318762 ACTCTGGACAGCGAACCTTC 59.681 55.000 0.00 0.00 0.00 3.46
1608 1747 6.352516 ACCTTCACAGTTGATTAGATCCATC 58.647 40.000 0.00 0.00 0.00 3.51
1616 1755 8.760103 CAGTTGATTAGATCCATCATCTGTAG 57.240 38.462 22.14 8.70 42.37 2.74
1617 1756 8.366401 CAGTTGATTAGATCCATCATCTGTAGT 58.634 37.037 22.14 5.91 42.37 2.73
1618 1757 9.593565 AGTTGATTAGATCCATCATCTGTAGTA 57.406 33.333 12.32 0.00 42.37 1.82
1641 1780 8.914011 AGTACATAATTTCAAGGAAATAAGGGC 58.086 33.333 4.77 0.00 40.77 5.19
1642 1781 6.805713 ACATAATTTCAAGGAAATAAGGGCG 58.194 36.000 4.77 0.00 40.77 6.13
1643 1782 3.801114 ATTTCAAGGAAATAAGGGCGC 57.199 42.857 0.00 0.00 40.00 6.53
1644 1783 2.507407 TTCAAGGAAATAAGGGCGCT 57.493 45.000 7.64 0.00 0.00 5.92
1645 1784 1.750193 TCAAGGAAATAAGGGCGCTG 58.250 50.000 7.64 0.00 0.00 5.18
1646 1785 0.101219 CAAGGAAATAAGGGCGCTGC 59.899 55.000 7.64 0.00 0.00 5.25
1647 1786 0.034089 AAGGAAATAAGGGCGCTGCT 60.034 50.000 7.64 0.00 0.00 4.24
1648 1787 0.837272 AGGAAATAAGGGCGCTGCTA 59.163 50.000 7.64 0.00 0.00 3.49
1649 1788 0.945099 GGAAATAAGGGCGCTGCTAC 59.055 55.000 7.64 0.00 0.00 3.58
1650 1789 0.582005 GAAATAAGGGCGCTGCTACG 59.418 55.000 7.64 0.00 0.00 3.51
1702 1841 2.527951 ATCTGCCACTTGAGCGACCC 62.528 60.000 0.00 0.00 0.00 4.46
1726 1865 3.763897 GGGTCACTTTCTACCATTGCAAT 59.236 43.478 5.99 5.99 37.51 3.56
1736 1875 8.744568 TTTCTACCATTGCAATACATGTCATA 57.255 30.769 12.53 0.00 0.00 2.15
1816 1963 9.644993 GTGAAGTAACAAATTATTTTTGCAACC 57.355 29.630 0.00 0.00 32.93 3.77
1828 1975 3.791973 TTTGCAACCGATGTCTTGTTT 57.208 38.095 0.00 0.00 0.00 2.83
1838 1989 5.298276 ACCGATGTCTTGTTTCAGCTTTTTA 59.702 36.000 0.00 0.00 0.00 1.52
1847 1998 8.085296 TCTTGTTTCAGCTTTTTACAACAGAAA 58.915 29.630 0.00 0.00 0.00 2.52
1893 2048 9.476202 GCAATAAAGGTCTTGTTTGAATTTAGT 57.524 29.630 8.93 0.00 0.00 2.24
1922 2078 1.543429 GCAGCAGAGGGTTGTTACAGT 60.543 52.381 0.00 0.00 0.00 3.55
1956 2115 4.883585 TGACAGAGACTTTGTTGCAGAAAT 59.116 37.500 0.00 0.00 0.00 2.17
1961 2120 4.601019 AGACTTTGTTGCAGAAATTCACG 58.399 39.130 11.02 0.00 0.00 4.35
2112 2272 0.106519 AGCTTGAGTTTGGGTGCACT 60.107 50.000 17.98 0.00 0.00 4.40
2115 2275 0.682532 TTGAGTTTGGGTGCACTGCA 60.683 50.000 17.98 0.00 35.60 4.41
2147 2307 2.933287 ATGGTGAAGGTGGGCGGA 60.933 61.111 0.00 0.00 0.00 5.54
2231 2403 1.410882 GGGAGAAGGAGTCGGATTGAG 59.589 57.143 0.00 0.00 0.00 3.02
2252 2424 2.596851 GGAGCTTGGGAGGAGCACA 61.597 63.158 0.00 0.00 42.56 4.57
2268 2440 0.820891 CACAAGTGGTGGCTGCTCTT 60.821 55.000 0.00 0.00 44.04 2.85
2277 2449 2.116125 GCTGCTCTTGTGGGGGTT 59.884 61.111 0.00 0.00 0.00 4.11
2284 2456 1.912043 CTCTTGTGGGGGTTCAGATCT 59.088 52.381 0.00 0.00 0.00 2.75
2306 2478 0.398696 ATCCCGCAACACACCAGTTA 59.601 50.000 0.00 0.00 0.00 2.24
2335 2510 1.047801 GGGGATTGCAACAACCACTT 58.952 50.000 17.05 0.00 0.00 3.16
2336 2511 1.270252 GGGGATTGCAACAACCACTTG 60.270 52.381 17.05 0.00 0.00 3.16
2355 2531 6.183360 CCACTTGGTTGCAAAAACTAGTCTAA 60.183 38.462 0.00 0.00 0.00 2.10
2378 2567 5.339008 AATACGTTGCTTCTGACCATCTA 57.661 39.130 0.00 0.00 0.00 1.98
2387 2576 4.680708 GCTTCTGACCATCTAATCCAACGA 60.681 45.833 0.00 0.00 0.00 3.85
2446 2637 3.069158 GGCTGATCCAAATCATTTCCCAG 59.931 47.826 0.00 0.00 41.05 4.45
2447 2638 3.069158 GCTGATCCAAATCATTTCCCAGG 59.931 47.826 0.00 0.00 41.05 4.45
2450 2641 5.340322 TGATCCAAATCATTTCCCAGGAAA 58.660 37.500 14.01 14.01 46.37 3.13
2458 2649 2.137810 TTTCCCAGGAAATAAGGGCG 57.862 50.000 7.79 0.00 42.52 6.13
2459 2650 0.257616 TTCCCAGGAAATAAGGGCGG 59.742 55.000 0.00 0.00 42.52 6.13
2460 2651 0.917333 TCCCAGGAAATAAGGGCGGT 60.917 55.000 0.00 0.00 42.52 5.68
2461 2652 0.751643 CCCAGGAAATAAGGGCGGTG 60.752 60.000 0.00 0.00 35.44 4.94
2462 2653 0.254747 CCAGGAAATAAGGGCGGTGA 59.745 55.000 0.00 0.00 0.00 4.02
2463 2654 1.133792 CCAGGAAATAAGGGCGGTGAT 60.134 52.381 0.00 0.00 0.00 3.06
2464 2655 2.105821 CCAGGAAATAAGGGCGGTGATA 59.894 50.000 0.00 0.00 0.00 2.15
2465 2656 3.244911 CCAGGAAATAAGGGCGGTGATAT 60.245 47.826 0.00 0.00 0.00 1.63
2466 2657 3.753272 CAGGAAATAAGGGCGGTGATATG 59.247 47.826 0.00 0.00 0.00 1.78
2467 2658 3.394606 AGGAAATAAGGGCGGTGATATGT 59.605 43.478 0.00 0.00 0.00 2.29
2468 2659 3.502211 GGAAATAAGGGCGGTGATATGTG 59.498 47.826 0.00 0.00 0.00 3.21
2469 2660 3.857157 AATAAGGGCGGTGATATGTGT 57.143 42.857 0.00 0.00 0.00 3.72
2470 2661 3.857157 ATAAGGGCGGTGATATGTGTT 57.143 42.857 0.00 0.00 0.00 3.32
2471 2662 2.038387 AAGGGCGGTGATATGTGTTC 57.962 50.000 0.00 0.00 0.00 3.18
2472 2663 0.908910 AGGGCGGTGATATGTGTTCA 59.091 50.000 0.00 0.00 0.00 3.18
2473 2664 1.490490 AGGGCGGTGATATGTGTTCAT 59.510 47.619 0.00 0.00 38.00 2.57
2474 2665 1.873591 GGGCGGTGATATGTGTTCATC 59.126 52.381 0.00 0.00 35.70 2.92
2476 2667 1.526887 GCGGTGATATGTGTTCATCGG 59.473 52.381 8.24 0.00 45.49 4.18
2477 2668 2.135139 CGGTGATATGTGTTCATCGGG 58.865 52.381 0.00 0.00 42.53 5.14
2478 2669 2.483013 CGGTGATATGTGTTCATCGGGT 60.483 50.000 0.00 0.00 42.53 5.28
2479 2670 2.872245 GGTGATATGTGTTCATCGGGTG 59.128 50.000 0.00 0.00 35.70 4.61
2480 2671 3.431626 GGTGATATGTGTTCATCGGGTGA 60.432 47.826 0.00 0.00 35.70 4.02
2481 2672 4.380531 GTGATATGTGTTCATCGGGTGAT 58.619 43.478 0.00 0.00 36.54 3.06
2482 2673 5.510690 GGTGATATGTGTTCATCGGGTGATA 60.511 44.000 0.00 0.00 36.54 2.15
2483 2674 5.989168 GTGATATGTGTTCATCGGGTGATAA 59.011 40.000 0.00 0.00 36.54 1.75
2484 2675 6.481976 GTGATATGTGTTCATCGGGTGATAAA 59.518 38.462 0.00 0.00 36.54 1.40
2485 2676 6.481976 TGATATGTGTTCATCGGGTGATAAAC 59.518 38.462 0.00 0.00 36.54 2.01
2486 2677 4.009370 TGTGTTCATCGGGTGATAAACA 57.991 40.909 0.00 0.00 39.83 2.83
2487 2678 4.000325 TGTGTTCATCGGGTGATAAACAG 59.000 43.478 0.00 0.00 42.15 3.16
2488 2679 4.250464 GTGTTCATCGGGTGATAAACAGA 58.750 43.478 0.00 0.00 42.15 3.41
2489 2680 4.876107 GTGTTCATCGGGTGATAAACAGAT 59.124 41.667 0.00 0.00 42.15 2.90
2490 2681 5.354234 GTGTTCATCGGGTGATAAACAGATT 59.646 40.000 0.00 0.00 42.15 2.40
2491 2682 6.537301 GTGTTCATCGGGTGATAAACAGATTA 59.463 38.462 0.00 0.00 42.15 1.75
2492 2683 6.761242 TGTTCATCGGGTGATAAACAGATTAG 59.239 38.462 0.00 0.00 37.73 1.73
2493 2684 6.724893 TCATCGGGTGATAAACAGATTAGA 57.275 37.500 0.00 0.00 32.18 2.10
2494 2685 7.303182 TCATCGGGTGATAAACAGATTAGAT 57.697 36.000 0.00 0.00 32.18 1.98
2495 2686 7.378966 TCATCGGGTGATAAACAGATTAGATC 58.621 38.462 0.00 0.00 32.18 2.75
2496 2687 6.724893 TCGGGTGATAAACAGATTAGATCA 57.275 37.500 0.00 0.00 0.00 2.92
2497 2688 6.749139 TCGGGTGATAAACAGATTAGATCAG 58.251 40.000 0.00 0.00 0.00 2.90
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
13 14 1.789576 ATCTTGGGGGTGCCGAAGTT 61.790 55.000 0.00 0.00 0.00 2.66
15 16 0.611896 AAATCTTGGGGGTGCCGAAG 60.612 55.000 0.00 0.00 0.00 3.79
22 23 7.609918 GCAAAATACATTTAAAATCTTGGGGGT 59.390 33.333 0.00 0.00 0.00 4.95
66 67 1.494721 TGGGGTGCTGAAGTCTTCTTT 59.505 47.619 13.67 0.00 33.64 2.52
120 122 7.415541 GCATATCACATGTCCTTACAAACACAT 60.416 37.037 0.00 0.00 39.58 3.21
183 185 5.240844 ACTTCTTCCGTCCCAAAATAAGTTG 59.759 40.000 0.00 0.00 0.00 3.16
248 250 7.195374 AGCCTTGGAAAATACTAGTACATGA 57.805 36.000 4.31 0.00 0.00 3.07
302 304 2.158900 GGACTGGATGTCGATGGATTGT 60.159 50.000 0.00 0.00 46.24 2.71
433 435 3.378427 GGGTTACTTCAGAACCATGATGC 59.622 47.826 6.86 0.00 46.98 3.91
447 449 0.034089 GCCAGCAGGATGGGTTACTT 60.034 55.000 5.64 0.00 40.97 2.24
461 463 2.222027 ACTAGGAATATTTGCGCCAGC 58.778 47.619 4.18 0.00 45.41 4.85
462 464 3.251004 GGAACTAGGAATATTTGCGCCAG 59.749 47.826 4.18 0.00 0.00 4.85
464 466 2.223377 CGGAACTAGGAATATTTGCGCC 59.777 50.000 4.18 0.00 0.00 6.53
467 476 3.003378 GTGGCGGAACTAGGAATATTTGC 59.997 47.826 0.00 0.00 0.00 3.68
561 578 0.898326 ATCCTTTGGGTTTCACGGCC 60.898 55.000 0.00 0.00 0.00 6.13
574 591 5.551977 AGGGGGATATTCATTCGTATCCTTT 59.448 40.000 10.31 0.00 43.77 3.11
806 850 2.203252 CTGGCTGGCCATGCGTAT 60.203 61.111 15.04 0.00 46.15 3.06
992 1107 1.202222 GCTTCTTGCCCATCACAATCG 60.202 52.381 0.00 0.00 35.15 3.34
996 1111 0.401356 TCAGCTTCTTGCCCATCACA 59.599 50.000 0.00 0.00 44.23 3.58
1350 1489 4.643387 AAGCTTGTCGCCGGCCTT 62.643 61.111 23.46 14.41 40.39 4.35
1401 1540 0.974010 ACCCATCGACGGCCTTCTTA 60.974 55.000 7.75 0.00 0.00 2.10
1556 1695 4.982241 TCCAGAGTCAAAGGACAGAAAT 57.018 40.909 0.00 0.00 46.80 2.17
1589 1728 7.422878 CAGATGATGGATCTAATCAACTGTG 57.577 40.000 24.67 13.27 44.04 3.66
1616 1755 7.860872 CGCCCTTATTTCCTTGAAATTATGTAC 59.139 37.037 7.31 0.00 41.64 2.90
1617 1756 7.469456 GCGCCCTTATTTCCTTGAAATTATGTA 60.469 37.037 7.31 0.00 41.64 2.29
1618 1757 6.682861 GCGCCCTTATTTCCTTGAAATTATGT 60.683 38.462 7.31 0.00 41.64 2.29
1630 1769 0.945099 GTAGCAGCGCCCTTATTTCC 59.055 55.000 2.29 0.00 0.00 3.13
1631 1770 0.582005 CGTAGCAGCGCCCTTATTTC 59.418 55.000 2.29 0.00 0.00 2.17
1646 1785 3.309675 CGGATCTTTGCCGCGTAG 58.690 61.111 4.92 0.00 42.55 3.51
1669 1808 1.297967 CAGATCTGACGACTCGCGG 60.298 63.158 18.34 0.00 46.49 6.46
1702 1841 2.749621 GCAATGGTAGAAAGTGACCCTG 59.250 50.000 0.00 0.00 34.58 4.45
1759 1898 5.352284 ACAACAAATTTCGCAACATAACCA 58.648 33.333 0.00 0.00 0.00 3.67
1798 1945 6.928492 AGACATCGGTTGCAAAAATAATTTGT 59.072 30.769 0.00 0.00 0.00 2.83
1816 1963 6.198687 TGTAAAAAGCTGAAACAAGACATCG 58.801 36.000 0.00 0.00 0.00 3.84
1828 1975 7.771183 ACAAGATTTCTGTTGTAAAAAGCTGA 58.229 30.769 0.00 0.00 37.12 4.26
1838 1989 7.614124 AAAATTGCAACAAGATTTCTGTTGT 57.386 28.000 0.00 0.00 43.24 3.32
1933 2092 3.541996 TCTGCAACAAAGTCTCTGTCA 57.458 42.857 0.00 0.00 0.00 3.58
1943 2102 3.791973 ACCGTGAATTTCTGCAACAAA 57.208 38.095 0.00 0.00 0.00 2.83
1956 2115 2.089887 TTGCTGTCCGCTACCGTGAA 62.090 55.000 0.00 0.00 40.11 3.18
1961 2120 1.671054 TTGCTTGCTGTCCGCTACC 60.671 57.895 0.00 0.00 40.11 3.18
2121 2281 3.499737 CTTCACCATGGGCGTCGC 61.500 66.667 18.09 9.22 0.00 5.19
2201 2373 2.391389 CCTTCTCCCGTTGCTTCGC 61.391 63.158 0.00 0.00 0.00 4.70
2212 2384 1.410882 CCTCAATCCGACTCCTTCTCC 59.589 57.143 0.00 0.00 0.00 3.71
2231 2403 3.093172 CTCCTCCCAAGCTCCCCC 61.093 72.222 0.00 0.00 0.00 5.40
2252 2424 0.820891 CACAAGAGCAGCCACCACTT 60.821 55.000 0.00 0.00 0.00 3.16
2268 2440 2.940514 TCTAGATCTGAACCCCCACA 57.059 50.000 5.18 0.00 0.00 4.17
2277 2449 2.362397 GTGTTGCGGGATCTAGATCTGA 59.638 50.000 27.65 10.13 37.92 3.27
2284 2456 0.249120 CTGGTGTGTTGCGGGATCTA 59.751 55.000 0.00 0.00 0.00 1.98
2335 2510 8.071368 CGTATTTTAGACTAGTTTTTGCAACCA 58.929 33.333 0.00 0.00 0.00 3.67
2336 2511 8.071967 ACGTATTTTAGACTAGTTTTTGCAACC 58.928 33.333 0.00 0.00 0.00 3.77
2355 2531 4.579869 AGATGGTCAGAAGCAACGTATTT 58.420 39.130 0.00 0.00 36.29 1.40
2378 2567 0.953960 GCCTTCGTGGTCGTTGGATT 60.954 55.000 0.00 0.00 38.35 3.01
2446 2637 3.502211 CACATATCACCGCCCTTATTTCC 59.498 47.826 0.00 0.00 0.00 3.13
2447 2638 4.134563 ACACATATCACCGCCCTTATTTC 58.865 43.478 0.00 0.00 0.00 2.17
2450 2641 3.135712 TGAACACATATCACCGCCCTTAT 59.864 43.478 0.00 0.00 0.00 1.73
2451 2642 2.502130 TGAACACATATCACCGCCCTTA 59.498 45.455 0.00 0.00 0.00 2.69
2452 2643 1.280710 TGAACACATATCACCGCCCTT 59.719 47.619 0.00 0.00 0.00 3.95
2453 2644 0.908910 TGAACACATATCACCGCCCT 59.091 50.000 0.00 0.00 0.00 5.19
2454 2645 1.873591 GATGAACACATATCACCGCCC 59.126 52.381 0.00 0.00 0.00 6.13
2455 2646 1.526887 CGATGAACACATATCACCGCC 59.473 52.381 0.00 0.00 0.00 6.13
2456 2647 1.526887 CCGATGAACACATATCACCGC 59.473 52.381 0.00 0.00 0.00 5.68
2457 2648 2.135139 CCCGATGAACACATATCACCG 58.865 52.381 0.00 0.00 0.00 4.94
2458 2649 2.872245 CACCCGATGAACACATATCACC 59.128 50.000 0.00 0.00 0.00 4.02
2459 2650 3.792401 TCACCCGATGAACACATATCAC 58.208 45.455 0.00 0.00 33.02 3.06
2460 2651 4.687901 ATCACCCGATGAACACATATCA 57.312 40.909 0.00 0.00 41.93 2.15
2461 2652 6.888430 GTTTATCACCCGATGAACACATATC 58.112 40.000 5.51 0.00 43.90 1.63
2462 2653 6.861065 GTTTATCACCCGATGAACACATAT 57.139 37.500 5.51 0.00 43.90 1.78
2468 2659 6.984474 TCTAATCTGTTTATCACCCGATGAAC 59.016 38.462 3.82 3.82 44.43 3.18
2469 2660 7.119709 TCTAATCTGTTTATCACCCGATGAA 57.880 36.000 0.00 0.00 41.93 2.57
2470 2661 6.724893 TCTAATCTGTTTATCACCCGATGA 57.275 37.500 0.00 0.00 43.13 2.92
2471 2662 7.154656 TGATCTAATCTGTTTATCACCCGATG 58.845 38.462 0.00 0.00 32.73 3.84
2472 2663 7.303182 TGATCTAATCTGTTTATCACCCGAT 57.697 36.000 0.00 0.00 35.50 4.18
2473 2664 6.724893 TGATCTAATCTGTTTATCACCCGA 57.275 37.500 0.00 0.00 0.00 5.14


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

AutoCloner maintained by Alex Coulton.