Multiple sequence alignment - TraesCS5B01G449000

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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 TraesCS5B01G449000 chr5B 100.000 3000 0 0 1 3000 621399931 621396932 0.000000e+00 5541
1 TraesCS5B01G449000 chr5B 82.187 2021 241 61 2 1991 620305954 620307886 0.000000e+00 1628
2 TraesCS5B01G449000 chr5B 81.737 1785 220 53 68 1817 620668502 620670215 0.000000e+00 1393
3 TraesCS5B01G449000 chr5B 82.266 1077 151 26 75 1129 620825487 620826545 0.000000e+00 894
4 TraesCS5B01G449000 chr5B 81.761 636 64 30 1123 1750 620826506 620827097 4.500000e-133 484
5 TraesCS5B01G449000 chr5A 93.799 2403 108 20 2 2384 624476314 624473933 0.000000e+00 3574
6 TraesCS5B01G449000 chr5A 82.932 2033 237 59 2 1991 623684147 623686112 0.000000e+00 1731
7 TraesCS5B01G449000 chr5A 83.085 1141 162 25 2 1129 623954018 623955140 0.000000e+00 1009
8 TraesCS5B01G449000 chr5A 85.849 636 38 22 2402 3000 624473948 624473328 1.960000e-176 628
9 TraesCS5B01G449000 chr5A 81.732 635 67 25 1123 1750 623955101 623955693 4.500000e-133 484
10 TraesCS5B01G449000 chr5D 93.609 2347 110 19 1 2332 499957295 499954974 0.000000e+00 3467
11 TraesCS5B01G449000 chr5D 82.844 1807 216 48 3 1775 499446978 499448724 0.000000e+00 1533
12 TraesCS5B01G449000 chr5D 82.373 1146 166 25 4 1129 499652120 499653249 0.000000e+00 965
13 TraesCS5B01G449000 chr5D 85.971 613 34 12 2402 3000 499954954 499954380 2.560000e-170 608
14 TraesCS5B01G449000 chr5D 88.249 417 31 8 1340 1750 499653393 499653797 1.620000e-132 483


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 TraesCS5B01G449000 chr5B 621396932 621399931 2999 True 5541.0 5541 100.0000 1 3000 1 chr5B.!!$R1 2999
1 TraesCS5B01G449000 chr5B 620305954 620307886 1932 False 1628.0 1628 82.1870 2 1991 1 chr5B.!!$F1 1989
2 TraesCS5B01G449000 chr5B 620668502 620670215 1713 False 1393.0 1393 81.7370 68 1817 1 chr5B.!!$F2 1749
3 TraesCS5B01G449000 chr5B 620825487 620827097 1610 False 689.0 894 82.0135 75 1750 2 chr5B.!!$F3 1675
4 TraesCS5B01G449000 chr5A 624473328 624476314 2986 True 2101.0 3574 89.8240 2 3000 2 chr5A.!!$R1 2998
5 TraesCS5B01G449000 chr5A 623684147 623686112 1965 False 1731.0 1731 82.9320 2 1991 1 chr5A.!!$F1 1989
6 TraesCS5B01G449000 chr5A 623954018 623955693 1675 False 746.5 1009 82.4085 2 1750 2 chr5A.!!$F2 1748
7 TraesCS5B01G449000 chr5D 499954380 499957295 2915 True 2037.5 3467 89.7900 1 3000 2 chr5D.!!$R1 2999
8 TraesCS5B01G449000 chr5D 499446978 499448724 1746 False 1533.0 1533 82.8440 3 1775 1 chr5D.!!$F1 1772
9 TraesCS5B01G449000 chr5D 499652120 499653797 1677 False 724.0 965 85.3110 4 1750 2 chr5D.!!$F2 1746

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
211 218 0.118346 TCCCCATGTCCACACCTACT 59.882 55.0 0.0 0.0 0.0 2.57 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2100 2306 0.038166 GGAATGAACCAGAGCACCCA 59.962 55.0 0.0 0.0 0.0 4.51 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
182 189 1.375013 CAACCCAAATGCAGCAGCC 60.375 57.895 0.00 0.00 41.13 4.85
211 218 0.118346 TCCCCATGTCCACACCTACT 59.882 55.000 0.00 0.00 0.00 2.57
295 302 0.880278 CGAACTCACACACCACCAGG 60.880 60.000 0.00 0.00 42.21 4.45
310 321 0.895559 CCAGGAAAGGGCTCCACAAC 60.896 60.000 0.00 0.00 38.02 3.32
332 343 2.051345 GCAACTTGGGTCGCGTTG 60.051 61.111 5.77 2.05 40.59 4.10
410 421 4.377897 GGATTGCTACGTTAACCAGCTAT 58.622 43.478 21.20 19.38 36.26 2.97
448 459 1.647545 CTCATTGTTCGCCGGTGCAT 61.648 55.000 11.05 0.00 37.32 3.96
549 560 4.906618 TCTCCCAGAATACTCAACCAAAC 58.093 43.478 0.00 0.00 0.00 2.93
599 610 1.138859 TGATCCTTGCCTACACGATGG 59.861 52.381 0.00 0.00 0.00 3.51
806 819 2.017049 GGTTTGATGACGGCTGCTTAT 58.983 47.619 0.00 0.00 0.00 1.73
1228 1329 1.192428 CTACGCTGAGGTAAACCCCT 58.808 55.000 0.00 0.00 37.62 4.79
1234 1335 2.674958 GAGGTAAACCCCTCGACCA 58.325 57.895 0.00 0.00 41.58 4.02
1235 1338 0.248565 GAGGTAAACCCCTCGACCAC 59.751 60.000 0.00 0.00 41.58 4.16
1255 1362 0.318699 CGCCGAATCTCGCTCCATTA 60.319 55.000 0.00 0.00 38.82 1.90
1260 1367 2.658802 CGAATCTCGCTCCATTATCGTG 59.341 50.000 0.00 0.00 31.14 4.35
1285 1402 1.853114 TTCGCTCGTCGTGCTCTCTT 61.853 55.000 16.37 0.00 39.67 2.85
1291 1408 0.431233 CGTCGTGCTCTCTTTTCGTG 59.569 55.000 0.00 0.00 0.00 4.35
1325 1445 1.305201 TCTGACTGGTTTTGTTCGCC 58.695 50.000 0.00 0.00 0.00 5.54
1331 1451 2.719354 GTTTTGTTCGCCCGTGCT 59.281 55.556 0.00 0.00 34.43 4.40
1367 1487 2.678580 TGTCGGAGGCGATCACCA 60.679 61.111 1.91 0.00 28.88 4.17
1572 1692 0.853530 AAGAAGCCCAAGACCAAGGT 59.146 50.000 0.00 0.00 0.00 3.50
1609 1735 3.500642 GCGGCGAAGAAGAAGGCC 61.501 66.667 12.98 0.00 42.14 5.19
2098 2304 9.774413 CTAGACTGTAAATTTTATATCCGGGTT 57.226 33.333 0.00 0.00 0.00 4.11
2100 2306 8.050930 AGACTGTAAATTTTATATCCGGGTTGT 58.949 33.333 0.00 0.00 0.00 3.32
2116 2322 0.478072 TTGTGGGTGCTCTGGTTCAT 59.522 50.000 0.00 0.00 0.00 2.57
2341 2548 1.338294 TGCCCTGCAATGCAATTCTTG 60.338 47.619 9.92 0.00 38.41 3.02
2377 2584 4.455606 GATTTCCAGATCTGAAATCGGGT 58.544 43.478 26.70 13.15 36.17 5.28
2378 2585 4.301072 TTTCCAGATCTGAAATCGGGTT 57.699 40.909 24.62 0.00 35.36 4.11
2379 2586 3.266510 TCCAGATCTGAAATCGGGTTG 57.733 47.619 24.62 3.19 35.36 3.77
2380 2587 2.837591 TCCAGATCTGAAATCGGGTTGA 59.162 45.455 24.62 5.63 35.36 3.18
2381 2588 3.118629 TCCAGATCTGAAATCGGGTTGAG 60.119 47.826 24.62 2.45 35.36 3.02
2382 2589 3.118629 CCAGATCTGAAATCGGGTTGAGA 60.119 47.826 24.62 0.00 0.00 3.27
2383 2590 4.444022 CCAGATCTGAAATCGGGTTGAGAT 60.444 45.833 24.62 1.74 0.00 2.75
2384 2591 5.221521 CCAGATCTGAAATCGGGTTGAGATA 60.222 44.000 24.62 0.00 0.00 1.98
2385 2592 6.283694 CAGATCTGAAATCGGGTTGAGATAA 58.716 40.000 18.34 0.00 0.00 1.75
2386 2593 6.201806 CAGATCTGAAATCGGGTTGAGATAAC 59.798 42.308 18.34 0.00 0.00 1.89
2387 2594 5.677319 TCTGAAATCGGGTTGAGATAACT 57.323 39.130 0.00 0.00 0.00 2.24
2388 2595 6.049955 TCTGAAATCGGGTTGAGATAACTT 57.950 37.500 0.00 0.00 0.00 2.66
2389 2596 6.106673 TCTGAAATCGGGTTGAGATAACTTC 58.893 40.000 0.00 0.00 0.00 3.01
2390 2597 5.800296 TGAAATCGGGTTGAGATAACTTCA 58.200 37.500 0.00 0.00 0.00 3.02
2391 2598 6.234920 TGAAATCGGGTTGAGATAACTTCAA 58.765 36.000 0.00 0.00 0.00 2.69
2392 2599 6.712998 TGAAATCGGGTTGAGATAACTTCAAA 59.287 34.615 0.00 0.00 0.00 2.69
2393 2600 7.229707 TGAAATCGGGTTGAGATAACTTCAAAA 59.770 33.333 0.00 0.00 0.00 2.44
2394 2601 7.519032 AATCGGGTTGAGATAACTTCAAAAA 57.481 32.000 0.00 0.00 0.00 1.94
2427 2634 2.648059 GGGTTGAGATCTGGAATGTGG 58.352 52.381 0.00 0.00 0.00 4.17
2457 2665 5.633830 TGAGATCTGAAATTGGTTGCTTC 57.366 39.130 0.00 0.00 0.00 3.86
2495 2708 5.192927 TGGAAATGCCAATCTCGTCTTTAT 58.807 37.500 0.00 0.00 45.87 1.40
2514 2727 6.866248 TCTTTATTTTGCTTCCGTCCAATTTC 59.134 34.615 0.00 0.00 0.00 2.17
2515 2728 2.697431 TTTGCTTCCGTCCAATTTCG 57.303 45.000 0.00 0.00 0.00 3.46
2516 2729 0.878416 TTGCTTCCGTCCAATTTCGG 59.122 50.000 7.03 7.03 46.93 4.30
2545 2771 2.291741 GGCTGGCATCATAGCTGTAAAC 59.708 50.000 0.00 0.00 39.80 2.01
2578 2807 9.515226 AAAAGGCTGTTGTATTCTTATCTGTAA 57.485 29.630 0.00 0.00 0.00 2.41
2579 2808 9.515226 AAAGGCTGTTGTATTCTTATCTGTAAA 57.485 29.630 0.00 0.00 0.00 2.01
2594 2823 0.392060 GTAAAATGACCGGGGCGTCT 60.392 55.000 6.32 0.00 33.70 4.18
2647 2876 2.614057 GCGATTTTGGATGGACCTACTG 59.386 50.000 0.00 0.00 39.86 2.74
2648 2877 2.614057 CGATTTTGGATGGACCTACTGC 59.386 50.000 0.00 0.00 39.86 4.40
2649 2878 3.682718 CGATTTTGGATGGACCTACTGCT 60.683 47.826 0.00 0.00 39.86 4.24
2650 2879 2.787473 TTTGGATGGACCTACTGCTG 57.213 50.000 0.00 0.00 39.86 4.41
2651 2880 1.951209 TTGGATGGACCTACTGCTGA 58.049 50.000 0.00 0.00 39.86 4.26
2652 2881 1.951209 TGGATGGACCTACTGCTGAA 58.049 50.000 0.00 0.00 39.86 3.02
2653 2882 2.265367 TGGATGGACCTACTGCTGAAA 58.735 47.619 0.00 0.00 39.86 2.69
2654 2883 2.846206 TGGATGGACCTACTGCTGAAAT 59.154 45.455 0.00 0.00 39.86 2.17
2655 2884 4.037222 TGGATGGACCTACTGCTGAAATA 58.963 43.478 0.00 0.00 39.86 1.40
2656 2885 4.660303 TGGATGGACCTACTGCTGAAATAT 59.340 41.667 0.00 0.00 39.86 1.28
2657 2886 5.221722 TGGATGGACCTACTGCTGAAATATC 60.222 44.000 0.00 0.00 39.86 1.63
2658 2887 5.221722 GGATGGACCTACTGCTGAAATATCA 60.222 44.000 0.00 0.00 35.41 2.15
2659 2888 5.692115 TGGACCTACTGCTGAAATATCAA 57.308 39.130 0.00 0.00 34.49 2.57
2660 2889 5.674525 TGGACCTACTGCTGAAATATCAAG 58.325 41.667 0.00 0.00 34.49 3.02
2661 2890 4.513318 GGACCTACTGCTGAAATATCAAGC 59.487 45.833 0.00 0.00 34.49 4.01
2662 2891 5.363939 GACCTACTGCTGAAATATCAAGCT 58.636 41.667 0.00 0.00 34.49 3.74
2663 2892 5.121811 ACCTACTGCTGAAATATCAAGCTG 58.878 41.667 0.00 8.60 34.49 4.24
2664 2893 4.024218 CCTACTGCTGAAATATCAAGCTGC 60.024 45.833 0.00 0.00 34.83 5.25
2665 2894 3.618351 ACTGCTGAAATATCAAGCTGCT 58.382 40.909 0.00 0.00 34.83 4.24
2666 2895 4.774124 ACTGCTGAAATATCAAGCTGCTA 58.226 39.130 0.90 0.00 34.83 3.49
2667 2896 4.574013 ACTGCTGAAATATCAAGCTGCTAC 59.426 41.667 0.90 0.00 34.83 3.58
2668 2897 4.774124 TGCTGAAATATCAAGCTGCTACT 58.226 39.130 0.90 0.00 34.49 2.57
2669 2898 4.573607 TGCTGAAATATCAAGCTGCTACTG 59.426 41.667 0.90 0.00 34.49 2.74
2670 2899 4.554330 GCTGAAATATCAAGCTGCTACTGC 60.554 45.833 0.90 0.42 34.49 4.40
2671 2900 3.557185 TGAAATATCAAGCTGCTACTGCG 59.443 43.478 0.90 0.00 35.62 5.18
2686 2944 2.000447 ACTGCGTTAATCTTCCTTCGC 59.000 47.619 0.00 0.00 43.14 4.70
2705 2963 2.726681 CGCACGCATGGTTTTTAGGTAC 60.727 50.000 0.00 0.00 0.00 3.34
2712 2970 6.015772 ACGCATGGTTTTTAGGTACATCTTTT 60.016 34.615 0.00 0.00 0.00 2.27
2751 3009 6.114089 CAGTCTTGGAGAGATGAATGTGATT 58.886 40.000 0.00 0.00 36.61 2.57
2799 3078 0.974010 AATGGTGATGCAGGCTTGGG 60.974 55.000 0.00 0.00 0.00 4.12
2808 3087 1.570501 TGCAGGCTTGGGGAGATTTAT 59.429 47.619 0.00 0.00 0.00 1.40
2809 3088 1.959282 GCAGGCTTGGGGAGATTTATG 59.041 52.381 0.00 0.00 0.00 1.90
2810 3089 2.590821 CAGGCTTGGGGAGATTTATGG 58.409 52.381 0.00 0.00 0.00 2.74
2811 3090 1.133356 AGGCTTGGGGAGATTTATGGC 60.133 52.381 0.00 0.00 0.00 4.40
2812 3091 1.332195 GCTTGGGGAGATTTATGGCC 58.668 55.000 0.00 0.00 0.00 5.36
2813 3092 1.133356 GCTTGGGGAGATTTATGGCCT 60.133 52.381 3.32 0.00 0.00 5.19
2814 3093 2.690936 GCTTGGGGAGATTTATGGCCTT 60.691 50.000 3.32 0.00 0.00 4.35
2815 3094 2.754012 TGGGGAGATTTATGGCCTTG 57.246 50.000 3.32 0.00 0.00 3.61
2816 3095 1.217689 TGGGGAGATTTATGGCCTTGG 59.782 52.381 3.32 0.00 0.00 3.61
2862 3141 9.652114 AAATGAATGGGATCTTCTTAGCTAATT 57.348 29.630 6.64 0.00 0.00 1.40
2876 3155 1.981256 CTAATTGGCCCGCTAATGGT 58.019 50.000 0.00 0.00 0.00 3.55
2878 3157 1.042559 AATTGGCCCGCTAATGGTGG 61.043 55.000 0.00 0.00 44.75 4.61
2969 3249 2.401195 GCGGCAGAAGATTCGCAC 59.599 61.111 0.00 1.28 46.33 5.34
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
18 19 2.606725 CAGATGGTTTCTCGATGCAGAC 59.393 50.000 0.00 0.00 29.93 3.51
20 21 2.897436 TCAGATGGTTTCTCGATGCAG 58.103 47.619 0.00 0.00 29.93 4.41
211 218 2.357034 GAGAAACGCCGTGCTCCA 60.357 61.111 8.66 0.00 0.00 3.86
295 302 1.338020 CACAAGTTGTGGAGCCCTTTC 59.662 52.381 25.45 0.00 44.27 2.62
332 343 0.456995 GATAGGCTACGAGGCGATGC 60.457 60.000 0.00 0.00 46.58 3.91
410 421 0.737019 GATTTTCCGGCGTGGTCGTA 60.737 55.000 6.01 0.00 39.52 3.43
549 560 6.558771 TGTAATGAGATTGAGTTTGTGTGG 57.441 37.500 0.00 0.00 0.00 4.17
750 762 4.969196 CCCATCCGACGGCCATCG 62.969 72.222 15.64 15.64 45.88 3.84
825 838 1.900351 CTGATTGGTCGAGAGGGCA 59.100 57.895 0.00 0.00 0.00 5.36
974 1039 2.131067 GGGAAGCGAGGGGAGAGAG 61.131 68.421 0.00 0.00 0.00 3.20
975 1040 2.042843 GGGAAGCGAGGGGAGAGA 60.043 66.667 0.00 0.00 0.00 3.10
1130 1198 4.740822 CCTTGGGGGTCTTGGCGG 62.741 72.222 0.00 0.00 0.00 6.13
1234 1335 4.208686 GGAGCGAGATTCGGCGGT 62.209 66.667 7.21 6.42 40.84 5.68
1235 1338 2.978452 AATGGAGCGAGATTCGGCGG 62.978 60.000 7.21 0.00 40.84 6.13
1255 1362 4.485554 GAGCGAACAGAGCACGAT 57.514 55.556 0.00 0.00 37.01 3.73
1260 1367 2.126812 ACGACGAGCGAACAGAGC 60.127 61.111 0.00 0.00 44.57 4.09
1285 1402 2.115911 AGGGCAAACACGCACGAAA 61.116 52.632 0.00 0.00 41.46 3.46
1291 1408 0.955428 TCAGATCAGGGCAAACACGC 60.955 55.000 0.00 0.00 0.00 5.34
1325 1445 2.576002 GCGCAAACACAAAGCACGG 61.576 57.895 0.30 0.00 0.00 4.94
1331 1451 0.743688 ACCATCTGCGCAAACACAAA 59.256 45.000 13.05 0.00 0.00 2.83
1367 1487 2.705821 CGCCTCTCTCCTTCAGCGT 61.706 63.158 0.00 0.00 38.81 5.07
1572 1692 1.604593 GGCTTCTTCTTGGCTGGCA 60.605 57.895 0.00 0.00 0.00 4.92
2089 2295 1.906105 GAGCACCCACAACCCGGATA 61.906 60.000 0.73 0.00 0.00 2.59
2098 2304 0.478072 AATGAACCAGAGCACCCACA 59.522 50.000 0.00 0.00 0.00 4.17
2100 2306 0.038166 GGAATGAACCAGAGCACCCA 59.962 55.000 0.00 0.00 0.00 4.51
2116 2322 2.604079 TCCAAGGGTACGCCGGAA 60.604 61.111 5.05 0.00 34.97 4.30
2174 2380 4.344865 GGGACAAAGCCCTCGCCA 62.345 66.667 0.00 0.00 45.12 5.69
2183 2389 4.426313 GGAGGCCGGGGGACAAAG 62.426 72.222 2.18 0.00 29.21 2.77
2257 2463 3.972502 GCACTATTTGTTTTCGACACCAC 59.027 43.478 0.00 0.00 38.18 4.16
2341 2548 3.157087 TGGAAATCCAAAGAGGCAGAAC 58.843 45.455 0.00 0.00 44.35 3.01
2396 2603 5.183904 CCAGATCTCAACCCGATTTCTTTTT 59.816 40.000 0.00 0.00 0.00 1.94
2397 2604 4.702131 CCAGATCTCAACCCGATTTCTTTT 59.298 41.667 0.00 0.00 0.00 2.27
2398 2605 4.019321 TCCAGATCTCAACCCGATTTCTTT 60.019 41.667 0.00 0.00 0.00 2.52
2399 2606 3.519510 TCCAGATCTCAACCCGATTTCTT 59.480 43.478 0.00 0.00 0.00 2.52
2400 2607 3.107601 TCCAGATCTCAACCCGATTTCT 58.892 45.455 0.00 0.00 0.00 2.52
2401 2608 3.543680 TCCAGATCTCAACCCGATTTC 57.456 47.619 0.00 0.00 0.00 2.17
2402 2609 4.202441 CATTCCAGATCTCAACCCGATTT 58.798 43.478 0.00 0.00 0.00 2.17
2403 2610 3.200825 ACATTCCAGATCTCAACCCGATT 59.799 43.478 0.00 0.00 0.00 3.34
2404 2611 2.774234 ACATTCCAGATCTCAACCCGAT 59.226 45.455 0.00 0.00 0.00 4.18
2405 2612 2.093500 CACATTCCAGATCTCAACCCGA 60.093 50.000 0.00 0.00 0.00 5.14
2406 2613 2.283298 CACATTCCAGATCTCAACCCG 58.717 52.381 0.00 0.00 0.00 5.28
2407 2614 2.025887 ACCACATTCCAGATCTCAACCC 60.026 50.000 0.00 0.00 0.00 4.11
2408 2615 3.012518 CACCACATTCCAGATCTCAACC 58.987 50.000 0.00 0.00 0.00 3.77
2409 2616 3.012518 CCACCACATTCCAGATCTCAAC 58.987 50.000 0.00 0.00 0.00 3.18
2427 2634 6.928520 ACCAATTTCAGATCTCAAATTCCAC 58.071 36.000 13.74 0.00 31.22 4.02
2457 2665 9.868277 TTGGCATTTCCATACTAAAATACAAAG 57.132 29.630 0.00 0.00 46.04 2.77
2495 2708 3.006659 CGAAATTGGACGGAAGCAAAA 57.993 42.857 0.00 0.00 0.00 2.44
2514 2727 3.371097 ATGCCAGCCACGTACTCCG 62.371 63.158 0.00 0.00 44.03 4.63
2515 2728 1.521681 GATGCCAGCCACGTACTCC 60.522 63.158 0.00 0.00 0.00 3.85
2516 2729 0.179073 ATGATGCCAGCCACGTACTC 60.179 55.000 0.00 0.00 0.00 2.59
2545 2771 4.766404 ATACAACAGCCTTTTCCTTTCG 57.234 40.909 0.00 0.00 0.00 3.46
2578 2807 2.046314 CAGACGCCCCGGTCATTT 60.046 61.111 0.00 0.00 39.42 2.32
2579 2808 1.546589 TAACAGACGCCCCGGTCATT 61.547 55.000 0.00 0.00 39.42 2.57
2594 2823 7.759489 ATTCCAAATTTCAGCAGTAGTAACA 57.241 32.000 0.00 0.00 0.00 2.41
2647 2876 4.554330 GCAGTAGCAGCTTGATATTTCAGC 60.554 45.833 0.00 0.00 41.58 4.26
2648 2877 4.318618 CGCAGTAGCAGCTTGATATTTCAG 60.319 45.833 0.00 0.00 42.27 3.02
2649 2878 3.557185 CGCAGTAGCAGCTTGATATTTCA 59.443 43.478 0.00 0.00 42.27 2.69
2650 2879 3.557595 ACGCAGTAGCAGCTTGATATTTC 59.442 43.478 0.00 0.00 41.94 2.17
2651 2880 3.535561 ACGCAGTAGCAGCTTGATATTT 58.464 40.909 0.00 0.00 41.94 1.40
2652 2881 3.185246 ACGCAGTAGCAGCTTGATATT 57.815 42.857 0.00 0.00 41.94 1.28
2653 2882 2.898729 ACGCAGTAGCAGCTTGATAT 57.101 45.000 0.00 0.00 41.94 1.63
2654 2883 2.672961 AACGCAGTAGCAGCTTGATA 57.327 45.000 0.00 0.00 45.00 2.15
2655 2884 2.672961 TAACGCAGTAGCAGCTTGAT 57.327 45.000 0.00 0.00 45.00 2.57
2656 2885 2.448926 TTAACGCAGTAGCAGCTTGA 57.551 45.000 0.00 0.00 45.00 3.02
2657 2886 2.932614 AGATTAACGCAGTAGCAGCTTG 59.067 45.455 0.00 0.00 45.00 4.01
2658 2887 3.252974 AGATTAACGCAGTAGCAGCTT 57.747 42.857 0.00 0.00 45.00 3.74
2659 2888 2.969628 AGATTAACGCAGTAGCAGCT 57.030 45.000 0.00 0.00 45.00 4.24
2660 2889 2.285488 GGAAGATTAACGCAGTAGCAGC 59.715 50.000 0.00 0.00 45.00 5.25
2661 2890 3.786635 AGGAAGATTAACGCAGTAGCAG 58.213 45.455 0.00 0.00 45.00 4.24
2662 2891 3.887621 AGGAAGATTAACGCAGTAGCA 57.112 42.857 0.00 0.00 45.00 3.49
2663 2892 3.243177 CGAAGGAAGATTAACGCAGTAGC 59.757 47.826 0.00 0.00 45.00 3.58
2664 2893 3.243177 GCGAAGGAAGATTAACGCAGTAG 59.757 47.826 0.00 0.00 45.00 2.57
2665 2894 3.184541 GCGAAGGAAGATTAACGCAGTA 58.815 45.455 0.00 0.00 45.00 2.74
2667 2896 2.721129 GCGAAGGAAGATTAACGCAG 57.279 50.000 0.00 0.00 44.29 5.18
2669 2898 1.266891 CGTGCGAAGGAAGATTAACGC 60.267 52.381 0.00 0.00 44.95 4.84
2670 2899 1.266891 GCGTGCGAAGGAAGATTAACG 60.267 52.381 0.00 0.00 0.00 3.18
2671 2900 1.730064 TGCGTGCGAAGGAAGATTAAC 59.270 47.619 0.00 0.00 0.00 2.01
2686 2944 4.394920 AGATGTACCTAAAAACCATGCGTG 59.605 41.667 0.00 0.00 0.00 5.34
2712 2970 6.126409 TCCAAGACTGCCTTTCTTTCTAAAA 58.874 36.000 0.00 0.00 30.56 1.52
2751 3009 6.152154 GGGCCAATTAGCTTACTGTTAAGAAA 59.848 38.462 4.39 0.00 37.49 2.52
2799 3078 2.310538 CCACCAAGGCCATAAATCTCC 58.689 52.381 5.01 0.00 0.00 3.71
2811 3090 1.077265 ATCACCAAGCCCACCAAGG 59.923 57.895 0.00 0.00 37.03 3.61
2812 3091 1.880819 GCATCACCAAGCCCACCAAG 61.881 60.000 0.00 0.00 0.00 3.61
2813 3092 1.907807 GCATCACCAAGCCCACCAA 60.908 57.895 0.00 0.00 0.00 3.67
2814 3093 2.283101 GCATCACCAAGCCCACCA 60.283 61.111 0.00 0.00 0.00 4.17
2815 3094 2.283101 TGCATCACCAAGCCCACC 60.283 61.111 0.00 0.00 0.00 4.61
2816 3095 2.345760 CCTGCATCACCAAGCCCAC 61.346 63.158 0.00 0.00 0.00 4.61
2862 3141 3.334891 ACCACCATTAGCGGGCCA 61.335 61.111 4.39 0.00 0.00 5.36


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

AutoCloner maintained by Alex Coulton.