Multiple sequence alignment - TraesCS5D01G286100

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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 TraesCS5D01G286100 chr5D 100.000 2663 0 0 1 2663 386588496 386591158 0.000000e+00 4918.0
1 TraesCS5D01G286100 chr5D 92.588 877 53 7 766 1636 386512674 386513544 0.000000e+00 1249.0
2 TraesCS5D01G286100 chr5D 86.385 639 61 17 1001 1632 386209788 386210407 0.000000e+00 675.0
3 TraesCS5D01G286100 chr5D 91.925 322 22 4 458 776 386512333 386512653 5.230000e-122 448.0
4 TraesCS5D01G286100 chr5D 93.103 116 8 0 1635 1750 386514083 386514198 1.270000e-38 171.0
5 TraesCS5D01G286100 chr5D 90.517 116 11 0 275 390 386512201 386512316 1.280000e-33 154.0
6 TraesCS5D01G286100 chr5B 93.958 1771 84 9 3 1773 464194337 464196084 0.000000e+00 2656.0
7 TraesCS5D01G286100 chr5B 93.230 1034 60 7 604 1636 464170641 464171665 0.000000e+00 1513.0
8 TraesCS5D01G286100 chr5B 90.811 555 45 6 1896 2446 464196290 464196842 0.000000e+00 737.0
9 TraesCS5D01G286100 chr5B 86.698 639 59 17 1001 1632 464144532 464145151 0.000000e+00 686.0
10 TraesCS5D01G286100 chr5B 98.507 67 1 0 1838 1904 464196182 464196248 4.660000e-23 119.0
11 TraesCS5D01G286100 chr5B 100.000 43 0 0 1796 1838 464196085 464196127 2.200000e-11 80.5
12 TraesCS5D01G286100 chr5A 89.623 1908 104 28 1 1904 488050021 488051838 0.000000e+00 2340.0
13 TraesCS5D01G286100 chr5A 86.250 640 60 20 1001 1632 488038461 488039080 0.000000e+00 669.0
14 TraesCS5D01G286100 chr5A 88.730 559 47 12 622 1178 488046410 488046954 0.000000e+00 669.0
15 TraesCS5D01G286100 chr5A 92.111 469 25 1 1168 1636 488047430 488047886 0.000000e+00 651.0
16 TraesCS5D01G286100 chr5A 92.308 442 29 4 2110 2550 488052061 488052498 8.100000e-175 623.0
17 TraesCS5D01G286100 chr5A 89.655 174 8 3 1896 2059 488051890 488052063 2.080000e-51 213.0
18 TraesCS5D01G286100 chr5A 94.958 119 6 0 2545 2663 488251402 488251520 1.260000e-43 187.0
19 TraesCS5D01G286100 chr4A 74.803 254 50 12 145 387 19575796 19575546 4.690000e-18 102.0


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 TraesCS5D01G286100 chr5D 386588496 386591158 2662 False 4918.000 4918 100.00000 1 2663 1 chr5D.!!$F2 2662
1 TraesCS5D01G286100 chr5D 386209788 386210407 619 False 675.000 675 86.38500 1001 1632 1 chr5D.!!$F1 631
2 TraesCS5D01G286100 chr5D 386512201 386514198 1997 False 505.500 1249 92.03325 275 1750 4 chr5D.!!$F3 1475
3 TraesCS5D01G286100 chr5B 464170641 464171665 1024 False 1513.000 1513 93.23000 604 1636 1 chr5B.!!$F2 1032
4 TraesCS5D01G286100 chr5B 464194337 464196842 2505 False 898.125 2656 95.81900 3 2446 4 chr5B.!!$F3 2443
5 TraesCS5D01G286100 chr5B 464144532 464145151 619 False 686.000 686 86.69800 1001 1632 1 chr5B.!!$F1 631
6 TraesCS5D01G286100 chr5A 488046410 488052498 6088 False 899.200 2340 90.48540 1 2550 5 chr5A.!!$F3 2549
7 TraesCS5D01G286100 chr5A 488038461 488039080 619 False 669.000 669 86.25000 1001 1632 1 chr5A.!!$F1 631

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
122 3735 0.885196 TTTGTAGCAAATCACCGCCC 59.115 50.0 0.0 0.0 0.0 6.13 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1775 5969 0.167908 GGTGTGTGTGTGTGTGTGTG 59.832 55.0 0.0 0.0 0.0 3.82 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 3652 9.975218 ACTTTATGTAATCTGGATTGTAAACCT 57.025 29.630 6.13 0.00 32.50 3.50
65 3677 9.846248 CTCTGGTTAATTAAAAGTCCAATTCAG 57.154 33.333 0.00 0.00 0.00 3.02
67 3679 9.846248 CTGGTTAATTAAAAGTCCAATTCAGAG 57.154 33.333 0.00 0.00 0.00 3.35
122 3735 0.885196 TTTGTAGCAAATCACCGCCC 59.115 50.000 0.00 0.00 0.00 6.13
144 3757 1.337821 GAGTAGAAACGTCGGCACAG 58.662 55.000 0.00 0.00 0.00 3.66
145 3758 0.956633 AGTAGAAACGTCGGCACAGA 59.043 50.000 0.00 0.00 0.00 3.41
151 3764 2.011741 AACGTCGGCACAGAGTCACA 62.012 55.000 0.00 0.00 0.00 3.58
329 3943 3.379240 CTCTACATGCTTCCTGACGATG 58.621 50.000 0.00 0.00 0.00 3.84
422 4036 2.673043 GCCACCGTAGATCGAAGACAAA 60.673 50.000 0.00 0.00 42.51 2.83
447 4061 4.618378 AAATTTATCCCTTACCCTGCCA 57.382 40.909 0.00 0.00 0.00 4.92
448 4062 4.832560 AATTTATCCCTTACCCTGCCAT 57.167 40.909 0.00 0.00 0.00 4.40
449 4063 5.941146 AATTTATCCCTTACCCTGCCATA 57.059 39.130 0.00 0.00 0.00 2.74
450 4064 5.941146 ATTTATCCCTTACCCTGCCATAA 57.059 39.130 0.00 0.00 0.00 1.90
451 4065 4.717279 TTATCCCTTACCCTGCCATAAC 57.283 45.455 0.00 0.00 0.00 1.89
452 4066 2.280308 TCCCTTACCCTGCCATAACT 57.720 50.000 0.00 0.00 0.00 2.24
453 4067 2.124411 TCCCTTACCCTGCCATAACTC 58.876 52.381 0.00 0.00 0.00 3.01
454 4068 1.843851 CCCTTACCCTGCCATAACTCA 59.156 52.381 0.00 0.00 0.00 3.41
455 4069 2.241176 CCCTTACCCTGCCATAACTCAA 59.759 50.000 0.00 0.00 0.00 3.02
456 4070 3.308832 CCCTTACCCTGCCATAACTCAAA 60.309 47.826 0.00 0.00 0.00 2.69
460 4074 3.778265 ACCCTGCCATAACTCAAAATGT 58.222 40.909 0.00 0.00 0.00 2.71
506 4120 1.044611 GATAGACAGAGGGACAGGGC 58.955 60.000 0.00 0.00 0.00 5.19
564 4178 3.006756 GCGGCTAGGTCACAGCAGA 62.007 63.158 0.00 0.00 40.95 4.26
574 4188 2.608988 ACAGCAGACAGGAGGGGG 60.609 66.667 0.00 0.00 0.00 5.40
607 4223 9.573133 AAAGAACGATTATGCTTCCTTTAATTG 57.427 29.630 0.00 0.00 0.00 2.32
625 4241 5.378230 AATTGAGCATTGACTCCATAGGA 57.622 39.130 5.89 0.00 35.72 2.94
627 4243 4.842531 TGAGCATTGACTCCATAGGAAA 57.157 40.909 5.89 0.00 35.72 3.13
776 4424 6.009589 ACATCATGACATTACAAGGGTTCAA 58.990 36.000 0.00 0.00 0.00 2.69
930 4584 1.144969 ATAAACCACGAGTGTGTGCG 58.855 50.000 2.36 0.00 44.92 5.34
931 4585 1.492319 TAAACCACGAGTGTGTGCGC 61.492 55.000 0.00 0.00 44.92 6.09
952 4606 3.604582 CTTCTCTCCCAAGATCAACACC 58.395 50.000 0.00 0.00 0.00 4.16
964 4618 6.176183 CAAGATCAACACCAAACCTCTAGAT 58.824 40.000 0.00 0.00 0.00 1.98
965 4619 7.331026 CAAGATCAACACCAAACCTCTAGATA 58.669 38.462 0.00 0.00 0.00 1.98
974 4628 6.493802 CACCAAACCTCTAGATATAGCTGGTA 59.506 42.308 0.00 0.00 32.33 3.25
1004 4658 4.778143 GCCGCCCGAAGACATGGT 62.778 66.667 0.00 0.00 0.00 3.55
1059 4713 2.041508 CTCCAGCTGGCCCTCCTA 60.042 66.667 28.91 7.95 34.44 2.94
1221 4875 3.220999 CTCGTCGTTGTCCCTGGCA 62.221 63.158 0.00 0.00 0.00 4.92
1331 4985 0.036952 CTCCTCGCCTTCAAGAGCAA 60.037 55.000 0.00 0.00 33.39 3.91
1332 4986 0.396435 TCCTCGCCTTCAAGAGCAAA 59.604 50.000 0.00 0.00 33.39 3.68
1572 5226 2.095252 GTTCGCGCAGGAGAACCTC 61.095 63.158 8.75 0.00 45.94 3.85
1590 5244 2.665603 GAGGCGAAGGGCAGTCTT 59.334 61.111 0.00 0.00 46.16 3.01
1750 5944 4.679331 AGTAGGTAAGGAAGAACAGAGCT 58.321 43.478 0.00 0.00 0.00 4.09
1788 5982 3.717400 AAAAACACACACACACACACA 57.283 38.095 0.00 0.00 0.00 3.72
1789 5983 2.697431 AAACACACACACACACACAC 57.303 45.000 0.00 0.00 0.00 3.82
1896 6145 4.666412 TGATTTCACAATAGTTCCCCCA 57.334 40.909 0.00 0.00 0.00 4.96
1990 6299 2.302260 TGCAAATTCGGTGAGAACCAA 58.698 42.857 0.00 0.00 42.39 3.67
2018 6327 2.779755 AATATGTGTTCTGGGCGTCA 57.220 45.000 0.00 0.00 0.00 4.35
2019 6328 2.779755 ATATGTGTTCTGGGCGTCAA 57.220 45.000 0.00 0.00 0.00 3.18
2074 6393 2.107378 TGCTTCAAGGGTTGGATGTACA 59.893 45.455 0.00 0.00 0.00 2.90
2110 6429 6.877611 TTTCTAGAGAAAATTTGGAGCGTT 57.122 33.333 2.17 0.00 40.68 4.84
2169 6489 7.039313 ACTTTCACTGATATATCTGCGTACA 57.961 36.000 16.99 0.00 0.00 2.90
2284 6605 5.136828 ACAATGTGAACAAACAGGATACCA 58.863 37.500 0.00 0.00 32.52 3.25
2288 6609 4.134563 GTGAACAAACAGGATACCACACT 58.865 43.478 0.00 0.00 37.17 3.55
2372 6693 2.125832 CGACGGTAATGGTGGCGT 60.126 61.111 0.00 0.00 0.00 5.68
2396 6717 0.826715 ATGATCCTCCGTGTCCACAG 59.173 55.000 0.00 0.00 0.00 3.66
2447 6768 2.592194 CATGTTCACATGCTCAAGTGC 58.408 47.619 6.99 0.00 45.92 4.40
2516 6837 2.930562 GTGGAGTCAGGCCCCTGT 60.931 66.667 13.66 0.00 43.96 4.00
2536 6857 0.383590 CATCATCGAGACGGACTGCT 59.616 55.000 0.00 0.00 0.00 4.24
2543 6864 1.954362 GAGACGGACTGCTCCATGCT 61.954 60.000 0.00 0.00 43.37 3.79
2544 6865 1.078848 GACGGACTGCTCCATGCTT 60.079 57.895 0.00 0.00 43.37 3.91
2560 6881 3.911989 CTTGCGAGCATGCTAAAGG 57.088 52.632 22.74 11.48 35.36 3.11
2561 6882 1.372582 CTTGCGAGCATGCTAAAGGA 58.627 50.000 22.74 13.64 35.36 3.36
2562 6883 1.739466 CTTGCGAGCATGCTAAAGGAA 59.261 47.619 22.74 19.83 35.36 3.36
2563 6884 1.372582 TGCGAGCATGCTAAAGGAAG 58.627 50.000 22.74 7.33 35.36 3.46
2564 6885 1.066215 TGCGAGCATGCTAAAGGAAGA 60.066 47.619 22.74 0.00 35.36 2.87
2565 6886 2.216898 GCGAGCATGCTAAAGGAAGAT 58.783 47.619 22.74 0.00 0.00 2.40
2566 6887 2.032204 GCGAGCATGCTAAAGGAAGATG 60.032 50.000 22.74 1.77 0.00 2.90
2567 6888 3.201290 CGAGCATGCTAAAGGAAGATGT 58.799 45.455 22.74 0.00 0.00 3.06
2568 6889 3.624861 CGAGCATGCTAAAGGAAGATGTT 59.375 43.478 22.74 0.00 0.00 2.71
2569 6890 4.811024 CGAGCATGCTAAAGGAAGATGTTA 59.189 41.667 22.74 0.00 0.00 2.41
2570 6891 5.468072 CGAGCATGCTAAAGGAAGATGTTAT 59.532 40.000 22.74 0.00 0.00 1.89
2571 6892 6.347240 CGAGCATGCTAAAGGAAGATGTTATC 60.347 42.308 22.74 0.56 0.00 1.75
2572 6893 6.359804 AGCATGCTAAAGGAAGATGTTATCA 58.640 36.000 21.21 0.00 0.00 2.15
2573 6894 6.830324 AGCATGCTAAAGGAAGATGTTATCAA 59.170 34.615 21.21 0.00 0.00 2.57
2574 6895 6.914757 GCATGCTAAAGGAAGATGTTATCAAC 59.085 38.462 11.37 0.00 0.00 3.18
2575 6896 7.420800 CATGCTAAAGGAAGATGTTATCAACC 58.579 38.462 0.00 0.00 0.00 3.77
2576 6897 5.584649 TGCTAAAGGAAGATGTTATCAACCG 59.415 40.000 0.00 0.00 33.92 4.44
2577 6898 5.815740 GCTAAAGGAAGATGTTATCAACCGA 59.184 40.000 0.00 0.00 33.92 4.69
2578 6899 6.483640 GCTAAAGGAAGATGTTATCAACCGAT 59.516 38.462 0.00 0.00 33.92 4.18
2579 6900 7.656137 GCTAAAGGAAGATGTTATCAACCGATA 59.344 37.037 0.00 0.00 33.92 2.92
2580 6901 9.197694 CTAAAGGAAGATGTTATCAACCGATAG 57.802 37.037 0.00 0.00 35.53 2.08
2594 6915 2.800881 CGATAGGTGATAGCAGCACA 57.199 50.000 13.30 0.00 44.77 4.57
2595 6916 3.309961 CGATAGGTGATAGCAGCACAT 57.690 47.619 13.30 5.01 44.77 3.21
2596 6917 4.440839 CGATAGGTGATAGCAGCACATA 57.559 45.455 13.30 4.62 44.77 2.29
2597 6918 5.003692 CGATAGGTGATAGCAGCACATAT 57.996 43.478 13.30 10.09 43.42 1.78
2598 6919 6.136541 CGATAGGTGATAGCAGCACATATA 57.863 41.667 13.30 0.00 41.57 0.86
2599 6920 6.564328 CGATAGGTGATAGCAGCACATATAA 58.436 40.000 13.30 0.00 41.57 0.98
2600 6921 7.035612 CGATAGGTGATAGCAGCACATATAAA 58.964 38.462 13.30 0.00 41.57 1.40
2601 6922 7.708322 CGATAGGTGATAGCAGCACATATAAAT 59.292 37.037 13.30 0.00 41.57 1.40
2602 6923 8.728337 ATAGGTGATAGCAGCACATATAAATG 57.272 34.615 13.30 0.00 44.77 2.32
2603 6924 6.772605 AGGTGATAGCAGCACATATAAATGA 58.227 36.000 13.30 0.00 44.77 2.57
2604 6925 7.226441 AGGTGATAGCAGCACATATAAATGAA 58.774 34.615 13.30 0.00 44.77 2.57
2605 6926 7.720957 AGGTGATAGCAGCACATATAAATGAAA 59.279 33.333 13.30 0.00 44.77 2.69
2606 6927 8.517878 GGTGATAGCAGCACATATAAATGAAAT 58.482 33.333 5.09 0.00 42.00 2.17
2607 6928 9.552114 GTGATAGCAGCACATATAAATGAAATC 57.448 33.333 0.00 0.00 36.54 2.17
2608 6929 9.287373 TGATAGCAGCACATATAAATGAAATCA 57.713 29.630 0.00 0.00 36.54 2.57
2611 6932 6.921857 AGCAGCACATATAAATGAAATCAAGC 59.078 34.615 0.00 0.00 36.54 4.01
2612 6933 6.129273 GCAGCACATATAAATGAAATCAAGCG 60.129 38.462 0.00 0.00 36.54 4.68
2613 6934 6.914215 CAGCACATATAAATGAAATCAAGCGT 59.086 34.615 0.00 0.00 36.54 5.07
2614 6935 7.112565 CAGCACATATAAATGAAATCAAGCGTC 59.887 37.037 0.00 0.00 36.54 5.19
2615 6936 7.012704 AGCACATATAAATGAAATCAAGCGTCT 59.987 33.333 0.00 0.00 36.54 4.18
2616 6937 7.112565 GCACATATAAATGAAATCAAGCGTCTG 59.887 37.037 0.00 0.00 36.54 3.51
2617 6938 7.112565 CACATATAAATGAAATCAAGCGTCTGC 59.887 37.037 0.00 0.00 37.73 4.26
2618 6939 7.012704 ACATATAAATGAAATCAAGCGTCTGCT 59.987 33.333 0.00 0.00 44.55 4.24
2619 6940 7.322938 CATATAAATGAAATCAAGCGTCTGCTG 59.677 37.037 0.00 0.00 42.80 4.41
2627 6948 2.508887 GCGTCTGCTGAGCTCTGG 60.509 66.667 20.66 11.94 38.39 3.86
2628 6949 2.508887 CGTCTGCTGAGCTCTGGC 60.509 66.667 20.66 20.32 39.06 4.85
2629 6950 2.125188 GTCTGCTGAGCTCTGGCC 60.125 66.667 20.66 0.00 39.73 5.36
2630 6951 3.767806 TCTGCTGAGCTCTGGCCG 61.768 66.667 20.66 16.89 39.73 6.13
2631 6952 4.079850 CTGCTGAGCTCTGGCCGT 62.080 66.667 20.66 0.00 39.73 5.68
2632 6953 4.383861 TGCTGAGCTCTGGCCGTG 62.384 66.667 20.66 0.00 39.73 4.94
2633 6954 4.074526 GCTGAGCTCTGGCCGTGA 62.075 66.667 20.66 0.00 39.73 4.35
2634 6955 2.183811 CTGAGCTCTGGCCGTGAG 59.816 66.667 16.19 18.07 39.73 3.51
2639 6960 2.031012 CTCTGGCCGTGAGCACAA 59.969 61.111 11.82 0.00 46.50 3.33
2640 6961 1.597854 CTCTGGCCGTGAGCACAAA 60.598 57.895 11.82 0.00 46.50 2.83
2641 6962 1.153066 TCTGGCCGTGAGCACAAAA 60.153 52.632 0.00 0.00 46.50 2.44
2642 6963 0.537143 TCTGGCCGTGAGCACAAAAT 60.537 50.000 0.00 0.00 46.50 1.82
2643 6964 1.164411 CTGGCCGTGAGCACAAAATA 58.836 50.000 0.00 0.00 46.50 1.40
2644 6965 1.131126 CTGGCCGTGAGCACAAAATAG 59.869 52.381 0.00 0.00 46.50 1.73
2645 6966 1.271108 TGGCCGTGAGCACAAAATAGA 60.271 47.619 0.00 0.00 46.50 1.98
2646 6967 1.398390 GGCCGTGAGCACAAAATAGAG 59.602 52.381 1.20 0.00 46.50 2.43
2647 6968 1.398390 GCCGTGAGCACAAAATAGAGG 59.602 52.381 1.20 0.00 42.97 3.69
2648 6969 2.699954 CCGTGAGCACAAAATAGAGGT 58.300 47.619 1.20 0.00 0.00 3.85
2649 6970 3.074412 CCGTGAGCACAAAATAGAGGTT 58.926 45.455 1.20 0.00 0.00 3.50
2650 6971 4.250464 CCGTGAGCACAAAATAGAGGTTA 58.750 43.478 1.20 0.00 0.00 2.85
2651 6972 4.876107 CCGTGAGCACAAAATAGAGGTTAT 59.124 41.667 1.20 0.00 0.00 1.89
2652 6973 5.006746 CCGTGAGCACAAAATAGAGGTTATC 59.993 44.000 1.20 0.00 0.00 1.75
2653 6974 5.580691 CGTGAGCACAAAATAGAGGTTATCA 59.419 40.000 1.20 0.00 0.00 2.15
2654 6975 6.092122 CGTGAGCACAAAATAGAGGTTATCAA 59.908 38.462 1.20 0.00 0.00 2.57
2655 6976 7.360861 CGTGAGCACAAAATAGAGGTTATCAAA 60.361 37.037 1.20 0.00 0.00 2.69
2656 6977 8.462016 GTGAGCACAAAATAGAGGTTATCAAAT 58.538 33.333 0.00 0.00 0.00 2.32
2657 6978 8.461222 TGAGCACAAAATAGAGGTTATCAAATG 58.539 33.333 0.00 0.00 0.00 2.32
2658 6979 8.353423 AGCACAAAATAGAGGTTATCAAATGT 57.647 30.769 0.00 0.00 0.00 2.71
2659 6980 8.246180 AGCACAAAATAGAGGTTATCAAATGTG 58.754 33.333 0.00 0.00 0.00 3.21
2660 6981 8.243426 GCACAAAATAGAGGTTATCAAATGTGA 58.757 33.333 0.00 0.00 38.41 3.58
2661 6982 9.778993 CACAAAATAGAGGTTATCAAATGTGAG 57.221 33.333 0.00 0.00 37.14 3.51
2662 6983 8.960591 ACAAAATAGAGGTTATCAAATGTGAGG 58.039 33.333 0.00 0.00 37.14 3.86
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
40 3652 9.581289 TCTGAATTGGACTTTTAATTAACCAGA 57.419 29.630 9.61 0.00 29.60 3.86
72 3684 3.006430 CCGCCCATGTTTTCTACCTTTTT 59.994 43.478 0.00 0.00 0.00 1.94
102 3715 1.402325 GGGCGGTGATTTGCTACAAAC 60.402 52.381 0.00 0.00 0.00 2.93
122 3735 1.515736 GCCGACGTTTCTACTCCGG 60.516 63.158 0.00 0.00 38.83 5.14
144 3757 6.183360 CGTATGAGATTTGTGTTCTGTGACTC 60.183 42.308 0.00 0.00 0.00 3.36
145 3758 5.635280 CGTATGAGATTTGTGTTCTGTGACT 59.365 40.000 0.00 0.00 0.00 3.41
151 3764 4.081420 AGGAGCGTATGAGATTTGTGTTCT 60.081 41.667 0.00 0.00 0.00 3.01
329 3943 2.736721 TGTTCAAGTGATGCTTCTACGC 59.263 45.455 0.88 0.00 34.69 4.42
398 4012 0.099968 CTTCGATCTACGGTGGCGAA 59.900 55.000 6.74 6.74 42.82 4.70
422 4036 5.386060 GCAGGGTAAGGGATAAATTTAGCT 58.614 41.667 12.84 0.00 0.00 3.32
447 4061 3.689649 GGCCGAGACACATTTTGAGTTAT 59.310 43.478 0.00 0.00 0.00 1.89
448 4062 3.071479 GGCCGAGACACATTTTGAGTTA 58.929 45.455 0.00 0.00 0.00 2.24
449 4063 1.880027 GGCCGAGACACATTTTGAGTT 59.120 47.619 0.00 0.00 0.00 3.01
450 4064 1.523758 GGCCGAGACACATTTTGAGT 58.476 50.000 0.00 0.00 0.00 3.41
451 4065 0.804989 GGGCCGAGACACATTTTGAG 59.195 55.000 0.00 0.00 0.00 3.02
452 4066 0.608035 GGGGCCGAGACACATTTTGA 60.608 55.000 0.00 0.00 0.00 2.69
453 4067 0.609131 AGGGGCCGAGACACATTTTG 60.609 55.000 0.00 0.00 0.00 2.44
454 4068 0.322546 GAGGGGCCGAGACACATTTT 60.323 55.000 0.00 0.00 0.00 1.82
455 4069 1.299976 GAGGGGCCGAGACACATTT 59.700 57.895 0.00 0.00 0.00 2.32
456 4070 2.670148 GGAGGGGCCGAGACACATT 61.670 63.158 0.00 0.00 0.00 2.71
564 4178 2.713111 TTTGCTCCTCCCCCTCCTGT 62.713 60.000 0.00 0.00 0.00 4.00
574 4188 3.873952 AGCATAATCGTTCTTTGCTCCTC 59.126 43.478 0.00 0.00 39.32 3.71
607 4223 4.574013 CACTTTCCTATGGAGTCAATGCTC 59.426 45.833 0.00 0.00 31.21 4.26
776 4424 4.202161 CCATCAGCCTACATCGAAAGTACT 60.202 45.833 0.00 0.00 0.00 2.73
897 4551 4.081807 CGTGGTTTATATAGGTAGGGAGCC 60.082 50.000 0.00 0.00 0.00 4.70
930 4584 3.006247 GTGTTGATCTTGGGAGAGAAGC 58.994 50.000 0.00 0.00 34.85 3.86
931 4585 3.008375 TGGTGTTGATCTTGGGAGAGAAG 59.992 47.826 0.00 0.00 34.85 2.85
952 4606 8.588290 AGATACCAGCTATATCTAGAGGTTTG 57.412 38.462 15.03 0.00 37.57 2.93
974 4628 2.585247 GCGGCGCGAGGTAAAGAT 60.585 61.111 19.09 0.00 0.00 2.40
1004 4658 2.051614 GCATCGTCGTCGCGGATA 60.052 61.111 6.13 0.00 36.96 2.59
1059 4713 4.065281 GGTGACGCCGCCAGTAGT 62.065 66.667 0.00 0.00 42.48 2.73
1331 4985 1.080366 TTGACGACGTATGCGCCTT 60.080 52.632 4.18 0.00 42.83 4.35
1332 4986 1.804326 GTTGACGACGTATGCGCCT 60.804 57.895 4.18 0.00 42.83 5.52
1572 5226 3.302347 AAGACTGCCCTTCGCCTCG 62.302 63.158 0.00 0.00 36.24 4.63
1772 5966 0.871722 GTGTGTGTGTGTGTGTGTGT 59.128 50.000 0.00 0.00 0.00 3.72
1773 5967 0.871057 TGTGTGTGTGTGTGTGTGTG 59.129 50.000 0.00 0.00 0.00 3.82
1774 5968 0.871722 GTGTGTGTGTGTGTGTGTGT 59.128 50.000 0.00 0.00 0.00 3.72
1775 5969 0.167908 GGTGTGTGTGTGTGTGTGTG 59.832 55.000 0.00 0.00 0.00 3.82
1776 5970 0.250510 TGGTGTGTGTGTGTGTGTGT 60.251 50.000 0.00 0.00 0.00 3.72
1777 5971 0.877743 TTGGTGTGTGTGTGTGTGTG 59.122 50.000 0.00 0.00 0.00 3.82
1778 5972 1.742831 GATTGGTGTGTGTGTGTGTGT 59.257 47.619 0.00 0.00 0.00 3.72
1779 5973 2.016318 AGATTGGTGTGTGTGTGTGTG 58.984 47.619 0.00 0.00 0.00 3.82
1780 5974 2.418368 AGATTGGTGTGTGTGTGTGT 57.582 45.000 0.00 0.00 0.00 3.72
1781 5975 2.223548 CCAAGATTGGTGTGTGTGTGTG 60.224 50.000 3.30 0.00 43.43 3.82
1782 5976 2.023673 CCAAGATTGGTGTGTGTGTGT 58.976 47.619 3.30 0.00 43.43 3.72
1783 5977 2.780065 CCAAGATTGGTGTGTGTGTG 57.220 50.000 3.30 0.00 43.43 3.82
1990 6299 7.147915 ACGCCCAGAACACATATTATCAAAAAT 60.148 33.333 0.00 0.00 0.00 1.82
2009 6318 1.079127 AACGGAGATTGACGCCCAG 60.079 57.895 0.00 0.00 34.98 4.45
2018 6327 5.163513 GTTGATTGCAATTGAACGGAGATT 58.836 37.500 14.33 0.00 36.22 2.40
2019 6328 4.380867 GGTTGATTGCAATTGAACGGAGAT 60.381 41.667 14.33 0.00 36.22 2.75
2110 6429 3.244770 GGTACATCACCCAAACAAGGAGA 60.245 47.826 0.00 0.00 42.07 3.71
2263 6584 5.009610 GTGTGGTATCCTGTTTGTTCACATT 59.990 40.000 0.00 0.00 36.49 2.71
2284 6605 1.679898 GAGCCCAGGTAGCAAGTGT 59.320 57.895 0.00 0.00 0.00 3.55
2288 6609 1.995626 GGAGGAGCCCAGGTAGCAA 60.996 63.158 0.00 0.00 0.00 3.91
2372 6693 1.076265 ACACGGAGGATCATCCCGA 60.076 57.895 20.33 0.00 45.58 5.14
2396 6717 2.590007 AGAAGATGATGCCGCCGC 60.590 61.111 0.00 0.00 0.00 6.53
2487 6808 0.736053 GACTCCACTCTAGTGCGAGG 59.264 60.000 21.92 5.96 44.34 4.63
2516 6837 0.382158 GCAGTCCGTCTCGATGATGA 59.618 55.000 5.87 0.00 33.63 2.92
2543 6864 1.739466 CTTCCTTTAGCATGCTCGCAA 59.261 47.619 26.57 10.77 0.00 4.85
2544 6865 1.066215 TCTTCCTTTAGCATGCTCGCA 60.066 47.619 26.57 3.41 0.00 5.10
2550 6871 7.420800 GGTTGATAACATCTTCCTTTAGCATG 58.579 38.462 0.00 0.00 0.00 4.06
2551 6872 6.260936 CGGTTGATAACATCTTCCTTTAGCAT 59.739 38.462 0.00 0.00 0.00 3.79
2552 6873 5.584649 CGGTTGATAACATCTTCCTTTAGCA 59.415 40.000 0.00 0.00 0.00 3.49
2553 6874 5.815740 TCGGTTGATAACATCTTCCTTTAGC 59.184 40.000 0.00 0.00 0.00 3.09
2554 6875 9.197694 CTATCGGTTGATAACATCTTCCTTTAG 57.802 37.037 0.00 0.00 36.66 1.85
2555 6876 8.148351 CCTATCGGTTGATAACATCTTCCTTTA 58.852 37.037 0.00 0.00 36.66 1.85
2556 6877 6.992715 CCTATCGGTTGATAACATCTTCCTTT 59.007 38.462 0.00 0.00 36.66 3.11
2557 6878 6.099845 ACCTATCGGTTGATAACATCTTCCTT 59.900 38.462 0.00 0.00 42.13 3.36
2558 6879 5.602978 ACCTATCGGTTGATAACATCTTCCT 59.397 40.000 0.00 0.00 42.13 3.36
2559 6880 5.696724 CACCTATCGGTTGATAACATCTTCC 59.303 44.000 0.00 0.00 42.13 3.46
2560 6881 6.513180 TCACCTATCGGTTGATAACATCTTC 58.487 40.000 0.00 0.00 42.13 2.87
2561 6882 6.479972 TCACCTATCGGTTGATAACATCTT 57.520 37.500 0.00 0.00 42.13 2.40
2562 6883 6.672266 ATCACCTATCGGTTGATAACATCT 57.328 37.500 0.00 0.00 42.13 2.90
2563 6884 6.531948 GCTATCACCTATCGGTTGATAACATC 59.468 42.308 8.72 0.00 42.13 3.06
2564 6885 6.014584 TGCTATCACCTATCGGTTGATAACAT 60.015 38.462 8.72 0.00 42.13 2.71
2565 6886 5.303333 TGCTATCACCTATCGGTTGATAACA 59.697 40.000 8.72 8.02 42.13 2.41
2566 6887 5.779922 TGCTATCACCTATCGGTTGATAAC 58.220 41.667 8.72 6.34 42.13 1.89
2567 6888 5.566826 GCTGCTATCACCTATCGGTTGATAA 60.567 44.000 0.00 0.00 42.13 1.75
2568 6889 4.082190 GCTGCTATCACCTATCGGTTGATA 60.082 45.833 0.00 0.00 42.13 2.15
2569 6890 3.306364 GCTGCTATCACCTATCGGTTGAT 60.306 47.826 0.00 6.59 42.13 2.57
2570 6891 2.035961 GCTGCTATCACCTATCGGTTGA 59.964 50.000 0.00 0.00 42.13 3.18
2571 6892 2.224042 TGCTGCTATCACCTATCGGTTG 60.224 50.000 0.00 0.00 42.13 3.77
2572 6893 2.039418 TGCTGCTATCACCTATCGGTT 58.961 47.619 0.00 0.00 42.13 4.44
2574 6895 1.341209 TGTGCTGCTATCACCTATCGG 59.659 52.381 0.00 0.00 33.71 4.18
2575 6896 2.800881 TGTGCTGCTATCACCTATCG 57.199 50.000 0.00 0.00 33.71 2.92
2576 6897 8.824781 CATTTATATGTGCTGCTATCACCTATC 58.175 37.037 0.00 0.00 33.71 2.08
2577 6898 8.542926 TCATTTATATGTGCTGCTATCACCTAT 58.457 33.333 0.00 0.00 33.71 2.57
2578 6899 7.906327 TCATTTATATGTGCTGCTATCACCTA 58.094 34.615 0.00 0.00 33.71 3.08
2579 6900 6.772605 TCATTTATATGTGCTGCTATCACCT 58.227 36.000 0.00 0.00 33.71 4.00
2580 6901 7.439157 TTCATTTATATGTGCTGCTATCACC 57.561 36.000 0.00 0.00 33.71 4.02
2581 6902 9.552114 GATTTCATTTATATGTGCTGCTATCAC 57.448 33.333 0.00 0.00 33.34 3.06
2582 6903 9.287373 TGATTTCATTTATATGTGCTGCTATCA 57.713 29.630 0.00 0.00 33.34 2.15
2585 6906 8.077991 GCTTGATTTCATTTATATGTGCTGCTA 58.922 33.333 0.00 0.00 33.34 3.49
2586 6907 6.921857 GCTTGATTTCATTTATATGTGCTGCT 59.078 34.615 0.00 0.00 33.34 4.24
2587 6908 6.129273 CGCTTGATTTCATTTATATGTGCTGC 60.129 38.462 0.00 0.00 33.34 5.25
2588 6909 6.914215 ACGCTTGATTTCATTTATATGTGCTG 59.086 34.615 0.00 0.00 33.34 4.41
2589 6910 7.012704 AGACGCTTGATTTCATTTATATGTGCT 59.987 33.333 0.00 0.00 33.34 4.40
2590 6911 7.112565 CAGACGCTTGATTTCATTTATATGTGC 59.887 37.037 0.00 0.00 33.34 4.57
2591 6912 7.112565 GCAGACGCTTGATTTCATTTATATGTG 59.887 37.037 0.00 0.00 32.30 3.21
2592 6913 7.134815 GCAGACGCTTGATTTCATTTATATGT 58.865 34.615 0.00 0.00 32.30 2.29
2593 6914 7.544511 GCAGACGCTTGATTTCATTTATATG 57.455 36.000 0.00 0.00 34.30 1.78
2610 6931 2.508887 CCAGAGCTCAGCAGACGC 60.509 66.667 17.77 0.00 38.99 5.19
2611 6932 2.508887 GCCAGAGCTCAGCAGACG 60.509 66.667 17.77 0.00 35.50 4.18
2612 6933 2.125188 GGCCAGAGCTCAGCAGAC 60.125 66.667 24.77 6.73 39.73 3.51
2613 6934 3.767806 CGGCCAGAGCTCAGCAGA 61.768 66.667 24.77 0.00 39.73 4.26
2614 6935 4.079850 ACGGCCAGAGCTCAGCAG 62.080 66.667 24.77 23.08 39.73 4.24
2615 6936 4.383861 CACGGCCAGAGCTCAGCA 62.384 66.667 24.77 0.00 39.73 4.41
2616 6937 4.074526 TCACGGCCAGAGCTCAGC 62.075 66.667 17.77 17.83 39.73 4.26
2617 6938 2.183811 CTCACGGCCAGAGCTCAG 59.816 66.667 17.77 8.01 39.73 3.35
2622 6943 1.165907 TTTTGTGCTCACGGCCAGAG 61.166 55.000 16.00 16.00 40.92 3.35
2623 6944 0.537143 ATTTTGTGCTCACGGCCAGA 60.537 50.000 2.24 0.00 40.92 3.86
2624 6945 1.131126 CTATTTTGTGCTCACGGCCAG 59.869 52.381 2.24 0.00 40.92 4.85
2625 6946 1.164411 CTATTTTGTGCTCACGGCCA 58.836 50.000 2.24 0.00 40.92 5.36
2626 6947 1.398390 CTCTATTTTGTGCTCACGGCC 59.602 52.381 0.00 0.00 40.92 6.13
2627 6948 1.398390 CCTCTATTTTGTGCTCACGGC 59.602 52.381 0.00 0.00 42.22 5.68
2628 6949 2.699954 ACCTCTATTTTGTGCTCACGG 58.300 47.619 0.00 0.00 0.00 4.94
2629 6950 5.580691 TGATAACCTCTATTTTGTGCTCACG 59.419 40.000 0.00 0.00 0.00 4.35
2630 6951 6.985188 TGATAACCTCTATTTTGTGCTCAC 57.015 37.500 0.00 0.00 0.00 3.51
2631 6952 7.994425 TTTGATAACCTCTATTTTGTGCTCA 57.006 32.000 0.00 0.00 0.00 4.26
2632 6953 8.462016 ACATTTGATAACCTCTATTTTGTGCTC 58.538 33.333 0.00 0.00 0.00 4.26
2633 6954 8.246180 CACATTTGATAACCTCTATTTTGTGCT 58.754 33.333 0.00 0.00 0.00 4.40
2634 6955 8.243426 TCACATTTGATAACCTCTATTTTGTGC 58.757 33.333 0.00 0.00 0.00 4.57
2635 6956 9.778993 CTCACATTTGATAACCTCTATTTTGTG 57.221 33.333 0.00 0.00 0.00 3.33
2636 6957 8.960591 CCTCACATTTGATAACCTCTATTTTGT 58.039 33.333 0.00 0.00 0.00 2.83


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

AutoCloner maintained by Alex Coulton.