Multiple sequence alignment - TraesCS5B01G247300

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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 TraesCS5B01G247300 chr5B 100.000 2708 0 0 1 2708 429068744 429066037 0.000000e+00 5001.0
1 TraesCS5B01G247300 chr5B 93.487 1904 110 11 638 2537 429177628 429175735 0.000000e+00 2817.0
2 TraesCS5B01G247300 chr5B 91.091 1549 130 6 448 1991 429094498 429092953 0.000000e+00 2089.0
3 TraesCS5B01G247300 chr5B 92.191 461 20 7 6 465 429183746 429183301 2.940000e-179 638.0
4 TraesCS5B01G247300 chr5B 93.684 190 11 1 454 642 429183227 429183038 1.590000e-72 283.0
5 TraesCS5B01G247300 chr5B 76.667 300 45 13 6 284 429095076 429094781 2.810000e-30 143.0
6 TraesCS5B01G247300 chr5A 94.431 2496 120 14 1 2487 464160301 464157816 0.000000e+00 3821.0
7 TraesCS5B01G247300 chr5A 85.500 2062 235 34 6 2012 464177765 464175713 0.000000e+00 2093.0
8 TraesCS5B01G247300 chr5A 80.600 1201 213 14 523 1714 464207507 464206318 0.000000e+00 909.0
9 TraesCS5B01G247300 chr5A 96.053 152 4 2 2557 2708 482021425 482021574 2.080000e-61 246.0
10 TraesCS5B01G247300 chr5A 90.291 103 9 1 2389 2490 464175713 464175611 1.690000e-27 134.0
11 TraesCS5B01G247300 chr5A 85.714 84 9 3 2475 2557 123575894 123575813 4.800000e-13 86.1
12 TraesCS5B01G247300 chr5A 86.250 80 9 2 2475 2554 533565716 533565793 4.800000e-13 86.1
13 TraesCS5B01G247300 chr5D 86.445 2523 266 46 6 2490 362887312 362884828 0.000000e+00 2695.0
14 TraesCS5B01G247300 chr5D 89.770 1525 145 9 524 2043 362869069 362867551 0.000000e+00 1941.0
15 TraesCS5B01G247300 chr5D 80.910 1231 208 16 502 1718 362969346 362968129 0.000000e+00 946.0
16 TraesCS5B01G247300 chr5D 88.095 84 8 2 2475 2557 466651553 466651635 6.170000e-17 99.0
17 TraesCS5B01G247300 chrUn 97.368 152 4 0 2557 2708 355919845 355919996 2.670000e-65 259.0
18 TraesCS5B01G247300 chrUn 97.386 153 3 1 2557 2708 362350292 362350444 2.670000e-65 259.0
19 TraesCS5B01G247300 chrUn 97.368 152 4 0 2557 2708 454067105 454067256 2.670000e-65 259.0
20 TraesCS5B01G247300 chrUn 96.053 152 3 1 2557 2708 341018622 341018770 7.490000e-61 244.0
21 TraesCS5B01G247300 chr7B 97.386 153 3 1 2557 2708 622428546 622428394 2.670000e-65 259.0
22 TraesCS5B01G247300 chr2D 97.386 153 3 1 2557 2708 591995083 591995235 2.670000e-65 259.0
23 TraesCS5B01G247300 chr2D 75.524 143 27 7 2419 2554 562227932 562228073 2.250000e-06 63.9
24 TraesCS5B01G247300 chr3D 97.368 152 3 1 2557 2708 589250759 589250609 9.620000e-65 257.0
25 TraesCS5B01G247300 chr3D 85.897 78 10 1 2477 2554 132240956 132240880 6.210000e-12 82.4
26 TraesCS5B01G247300 chr3D 79.200 125 20 6 2433 2554 581976567 581976688 6.210000e-12 82.4
27 TraesCS5B01G247300 chr1A 96.732 153 4 1 2557 2708 371942722 371942570 1.240000e-63 254.0
28 TraesCS5B01G247300 chr1A 81.818 88 14 2 2113 2199 572029265 572029179 3.740000e-09 73.1
29 TraesCS5B01G247300 chr6A 74.220 481 117 6 839 1314 423533965 423533487 7.650000e-46 195.0
30 TraesCS5B01G247300 chr6B 74.229 454 103 7 843 1287 460209394 460209842 7.700000e-41 178.0
31 TraesCS5B01G247300 chr6D 81.281 203 27 8 2299 2493 471612461 471612262 1.300000e-33 154.0
32 TraesCS5B01G247300 chr4A 89.157 83 5 4 2475 2555 738936926 738936846 1.720000e-17 100.0
33 TraesCS5B01G247300 chr4A 78.873 142 22 7 2416 2554 520202540 520202404 3.710000e-14 89.8
34 TraesCS5B01G247300 chr4B 85.185 81 10 2 2475 2554 101835066 101834987 6.210000e-12 82.4


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 TraesCS5B01G247300 chr5B 429066037 429068744 2707 True 5001.0 5001 100.0000 1 2708 1 chr5B.!!$R1 2707
1 TraesCS5B01G247300 chr5B 429175735 429177628 1893 True 2817.0 2817 93.4870 638 2537 1 chr5B.!!$R2 1899
2 TraesCS5B01G247300 chr5B 429092953 429095076 2123 True 1116.0 2089 83.8790 6 1991 2 chr5B.!!$R3 1985
3 TraesCS5B01G247300 chr5B 429183038 429183746 708 True 460.5 638 92.9375 6 642 2 chr5B.!!$R4 636
4 TraesCS5B01G247300 chr5A 464157816 464160301 2485 True 3821.0 3821 94.4310 1 2487 1 chr5A.!!$R2 2486
5 TraesCS5B01G247300 chr5A 464175611 464177765 2154 True 1113.5 2093 87.8955 6 2490 2 chr5A.!!$R4 2484
6 TraesCS5B01G247300 chr5A 464206318 464207507 1189 True 909.0 909 80.6000 523 1714 1 chr5A.!!$R3 1191
7 TraesCS5B01G247300 chr5D 362884828 362887312 2484 True 2695.0 2695 86.4450 6 2490 1 chr5D.!!$R2 2484
8 TraesCS5B01G247300 chr5D 362867551 362869069 1518 True 1941.0 1941 89.7700 524 2043 1 chr5D.!!$R1 1519
9 TraesCS5B01G247300 chr5D 362968129 362969346 1217 True 946.0 946 80.9100 502 1718 1 chr5D.!!$R3 1216

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
75 84 0.179045 ACGAACAGCTTGGCAACTCT 60.179 50.0 0.0 0.0 37.61 3.24 F
1113 1359 0.252284 ACGGGGATGTCAAGTCCTCT 60.252 55.0 0.0 0.0 33.88 3.69 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1459 1705 0.031449 GCTAGCTCCGCGATCTCTTT 59.969 55.0 8.23 0.0 0.0 2.52 R
2143 2404 1.098050 GTCATTTCAGGCAAGCGGAT 58.902 50.0 0.00 0.0 0.0 4.18 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
74 83 1.194772 GTACGAACAGCTTGGCAACTC 59.805 52.381 0.00 0.00 37.61 3.01
75 84 0.179045 ACGAACAGCTTGGCAACTCT 60.179 50.000 0.00 0.00 37.61 3.24
192 201 1.016130 CACCTGCTCATGTCACGGAC 61.016 60.000 0.00 0.00 0.00 4.79
195 204 3.188786 GCTCATGTCACGGACGGC 61.189 66.667 0.00 0.00 34.95 5.68
418 534 7.676683 ATCTTAGCCTACCAAACTCATCTAA 57.323 36.000 0.00 0.00 0.00 2.10
571 810 3.879295 TCTTTGTGATTGCTATAGCCTGC 59.121 43.478 21.84 10.95 41.18 4.85
619 858 2.544685 CTACACAAGATGAAGCGGGAG 58.455 52.381 0.00 0.00 0.00 4.30
809 1055 1.211969 GCGACGTGGAAGTAGCTGA 59.788 57.895 0.11 0.00 39.21 4.26
949 1195 4.161102 GGAAGTCCCTATGCTGGTATACT 58.839 47.826 2.25 0.00 0.00 2.12
992 1238 2.426024 TCTTCCAGCTCATACACGGTAC 59.574 50.000 0.00 0.00 0.00 3.34
1113 1359 0.252284 ACGGGGATGTCAAGTCCTCT 60.252 55.000 0.00 0.00 33.88 3.69
1305 1551 3.870299 GCTTTGGGGTTGTTTTGTTGGAA 60.870 43.478 0.00 0.00 0.00 3.53
1459 1705 7.739444 AGGATGGGGATAACACAGAGATTATTA 59.261 37.037 0.00 0.00 0.00 0.98
1514 1760 2.305635 AGATGTGTGGTGACAATAGGCA 59.694 45.455 0.00 0.00 46.06 4.75
1618 1870 0.183731 GGAATGCCTACTTGGGGAGG 59.816 60.000 0.00 0.00 36.00 4.30
1655 1907 3.927142 AGCTCGACAATAACTAGTGTTGC 59.073 43.478 16.89 10.97 36.05 4.17
1809 2061 5.186198 AGCCTATTGTTGTAGCTACCTTTG 58.814 41.667 21.01 5.14 0.00 2.77
1815 2067 7.811117 ATTGTTGTAGCTACCTTTGTGTTAA 57.189 32.000 21.01 2.56 0.00 2.01
1933 2186 9.453325 TCGTAAATTTTGAATAGTTCGCTTTTT 57.547 25.926 0.00 0.00 0.00 1.94
2086 2347 6.121776 TGGACTTCTACATGAGCCTTTTTA 57.878 37.500 0.00 0.00 0.00 1.52
2097 2358 1.616865 AGCCTTTTTACTTTTCGGCCC 59.383 47.619 0.00 0.00 38.27 5.80
2143 2404 1.813513 GCTTCTAGCAAGACAAGCCA 58.186 50.000 1.14 0.00 41.89 4.75
2234 2496 4.085261 TCGTTCACTCGATTTCGTTTTCTG 60.085 41.667 0.00 0.00 40.80 3.02
2241 2503 7.010738 TCACTCGATTTCGTTTTCTGTACTTTT 59.989 33.333 0.00 0.00 40.80 2.27
2245 2507 8.602328 TCGATTTCGTTTTCTGTACTTTTTACA 58.398 29.630 0.00 0.00 40.80 2.41
2495 2768 7.822334 TCAGTTGTATATGAAAAATGTCGACCT 59.178 33.333 14.12 0.00 0.00 3.85
2496 2769 9.093970 CAGTTGTATATGAAAAATGTCGACCTA 57.906 33.333 14.12 0.00 0.00 3.08
2498 2771 7.709269 TGTATATGAAAAATGTCGACCTAGC 57.291 36.000 14.12 0.00 0.00 3.42
2560 2833 7.789273 ATCAAGCATTTGAAAAATTCACACA 57.211 28.000 0.00 0.00 45.82 3.72
2561 2834 7.789273 TCAAGCATTTGAAAAATTCACACAT 57.211 28.000 0.00 0.00 40.26 3.21
2562 2835 8.211116 TCAAGCATTTGAAAAATTCACACATT 57.789 26.923 0.00 0.00 40.26 2.71
2563 2836 8.336806 TCAAGCATTTGAAAAATTCACACATTC 58.663 29.630 0.00 0.00 40.26 2.67
2564 2837 7.193377 AGCATTTGAAAAATTCACACATTCC 57.807 32.000 0.00 0.00 39.87 3.01
2565 2838 6.205270 AGCATTTGAAAAATTCACACATTCCC 59.795 34.615 0.00 0.00 39.87 3.97
2566 2839 6.017275 GCATTTGAAAAATTCACACATTCCCA 60.017 34.615 0.00 0.00 39.87 4.37
2567 2840 6.917217 TTTGAAAAATTCACACATTCCCAC 57.083 33.333 0.00 0.00 39.87 4.61
2568 2841 5.604758 TGAAAAATTCACACATTCCCACA 57.395 34.783 0.00 0.00 34.08 4.17
2569 2842 5.982356 TGAAAAATTCACACATTCCCACAA 58.018 33.333 0.00 0.00 34.08 3.33
2570 2843 6.047870 TGAAAAATTCACACATTCCCACAAG 58.952 36.000 0.00 0.00 34.08 3.16
2571 2844 5.612725 AAAATTCACACATTCCCACAAGT 57.387 34.783 0.00 0.00 0.00 3.16
2572 2845 5.612725 AAATTCACACATTCCCACAAGTT 57.387 34.783 0.00 0.00 0.00 2.66
2573 2846 4.853924 ATTCACACATTCCCACAAGTTC 57.146 40.909 0.00 0.00 0.00 3.01
2574 2847 2.582052 TCACACATTCCCACAAGTTCC 58.418 47.619 0.00 0.00 0.00 3.62
2575 2848 1.613437 CACACATTCCCACAAGTTCCC 59.387 52.381 0.00 0.00 0.00 3.97
2576 2849 1.216678 ACACATTCCCACAAGTTCCCA 59.783 47.619 0.00 0.00 0.00 4.37
2577 2850 2.315176 CACATTCCCACAAGTTCCCAA 58.685 47.619 0.00 0.00 0.00 4.12
2578 2851 2.697751 CACATTCCCACAAGTTCCCAAA 59.302 45.455 0.00 0.00 0.00 3.28
2579 2852 3.133721 CACATTCCCACAAGTTCCCAAAA 59.866 43.478 0.00 0.00 0.00 2.44
2580 2853 3.777522 ACATTCCCACAAGTTCCCAAAAA 59.222 39.130 0.00 0.00 0.00 1.94
2613 2886 8.815565 TTGTATCAAATTGGAGCTAATAACCA 57.184 30.769 0.00 0.00 0.00 3.67
2614 2887 8.815565 TGTATCAAATTGGAGCTAATAACCAA 57.184 30.769 6.31 6.31 45.64 3.67
2619 2892 4.871871 TTGGAGCTAATAACCAATCCCA 57.128 40.909 0.00 0.00 38.52 4.37
2620 2893 4.871871 TGGAGCTAATAACCAATCCCAA 57.128 40.909 0.00 0.00 0.00 4.12
2621 2894 4.532834 TGGAGCTAATAACCAATCCCAAC 58.467 43.478 0.00 0.00 0.00 3.77
2622 2895 4.017958 TGGAGCTAATAACCAATCCCAACA 60.018 41.667 0.00 0.00 0.00 3.33
2623 2896 5.140454 GGAGCTAATAACCAATCCCAACAT 58.860 41.667 0.00 0.00 0.00 2.71
2624 2897 5.010012 GGAGCTAATAACCAATCCCAACATG 59.990 44.000 0.00 0.00 0.00 3.21
2625 2898 4.895297 AGCTAATAACCAATCCCAACATGG 59.105 41.667 0.00 0.00 40.16 3.66
2626 2899 4.892934 GCTAATAACCAATCCCAACATGGA 59.107 41.667 0.00 0.00 40.96 3.41
2627 2900 5.362430 GCTAATAACCAATCCCAACATGGAA 59.638 40.000 0.00 0.00 40.96 3.53
2628 2901 5.937975 AATAACCAATCCCAACATGGAAG 57.062 39.130 0.00 0.00 40.96 3.46
2629 2902 2.999185 ACCAATCCCAACATGGAAGT 57.001 45.000 0.00 0.00 40.96 3.01
2630 2903 4.396357 AACCAATCCCAACATGGAAGTA 57.604 40.909 0.00 0.00 40.96 2.24
2631 2904 4.608170 ACCAATCCCAACATGGAAGTAT 57.392 40.909 0.00 0.00 40.96 2.12
2632 2905 4.946646 ACCAATCCCAACATGGAAGTATT 58.053 39.130 0.00 0.00 40.96 1.89
2633 2906 4.711355 ACCAATCCCAACATGGAAGTATTG 59.289 41.667 0.00 1.84 40.96 1.90
2634 2907 4.099881 CCAATCCCAACATGGAAGTATTGG 59.900 45.833 13.54 13.54 40.96 3.16
2635 2908 4.879295 ATCCCAACATGGAAGTATTGGA 57.121 40.909 11.12 0.06 43.66 3.53
2636 2909 4.666412 TCCCAACATGGAAGTATTGGAA 57.334 40.909 11.12 0.00 43.66 3.53
2637 2910 5.004361 TCCCAACATGGAAGTATTGGAAA 57.996 39.130 11.12 0.00 43.66 3.13
2638 2911 5.398236 TCCCAACATGGAAGTATTGGAAAA 58.602 37.500 11.12 0.00 43.66 2.29
2639 2912 5.841237 TCCCAACATGGAAGTATTGGAAAAA 59.159 36.000 11.12 0.00 43.66 1.94
2640 2913 5.931724 CCCAACATGGAAGTATTGGAAAAAC 59.068 40.000 11.12 0.00 43.66 2.43
2641 2914 6.239572 CCCAACATGGAAGTATTGGAAAAACT 60.240 38.462 11.12 0.00 43.66 2.66
2642 2915 7.216494 CCAACATGGAAGTATTGGAAAAACTT 58.784 34.615 4.86 0.00 43.66 2.66
2643 2916 8.364142 CCAACATGGAAGTATTGGAAAAACTTA 58.636 33.333 4.86 0.00 43.66 2.24
2644 2917 9.927668 CAACATGGAAGTATTGGAAAAACTTAT 57.072 29.630 0.00 0.00 33.72 1.73
2678 2951 8.737168 AAAATCTCAAATATCCTTCATCGTGA 57.263 30.769 0.00 0.00 0.00 4.35
2679 2952 7.959689 AATCTCAAATATCCTTCATCGTGAG 57.040 36.000 0.00 0.00 34.01 3.51
2681 2954 6.507900 TCTCAAATATCCTTCATCGTGAGAC 58.492 40.000 0.00 0.00 46.97 3.36
2682 2955 6.096846 TCTCAAATATCCTTCATCGTGAGACA 59.903 38.462 0.00 0.00 46.97 3.41
2683 2956 6.820335 TCAAATATCCTTCATCGTGAGACAT 58.180 36.000 0.00 0.00 46.97 3.06
2684 2957 7.951591 TCAAATATCCTTCATCGTGAGACATA 58.048 34.615 0.00 0.00 46.97 2.29
2685 2958 8.588472 TCAAATATCCTTCATCGTGAGACATAT 58.412 33.333 0.00 0.00 46.97 1.78
2686 2959 9.860898 CAAATATCCTTCATCGTGAGACATATA 57.139 33.333 0.00 0.00 46.97 0.86
2688 2961 9.862371 AATATCCTTCATCGTGAGACATATAAC 57.138 33.333 0.00 0.00 46.97 1.89
2689 2962 6.085555 TCCTTCATCGTGAGACATATAACC 57.914 41.667 0.00 0.00 46.97 2.85
2690 2963 5.596772 TCCTTCATCGTGAGACATATAACCA 59.403 40.000 0.00 0.00 46.97 3.67
2691 2964 6.267699 TCCTTCATCGTGAGACATATAACCAT 59.732 38.462 0.00 0.00 46.97 3.55
2692 2965 6.587990 CCTTCATCGTGAGACATATAACCATC 59.412 42.308 0.00 0.00 46.97 3.51
2693 2966 6.648879 TCATCGTGAGACATATAACCATCA 57.351 37.500 0.00 0.00 46.97 3.07
2694 2967 6.447162 TCATCGTGAGACATATAACCATCAC 58.553 40.000 0.00 0.00 46.97 3.06
2695 2968 6.265422 TCATCGTGAGACATATAACCATCACT 59.735 38.462 0.00 0.00 46.97 3.41
2696 2969 7.447238 TCATCGTGAGACATATAACCATCACTA 59.553 37.037 0.00 0.00 46.97 2.74
2697 2970 7.761038 TCGTGAGACATATAACCATCACTAT 57.239 36.000 0.00 0.00 35.93 2.12
2698 2971 8.857694 TCGTGAGACATATAACCATCACTATA 57.142 34.615 0.00 0.00 35.93 1.31
2699 2972 9.292195 TCGTGAGACATATAACCATCACTATAA 57.708 33.333 0.00 0.00 35.93 0.98
2700 2973 9.908152 CGTGAGACATATAACCATCACTATAAA 57.092 33.333 0.00 0.00 35.93 1.40
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
98 107 2.388735 AGGCACTCGTCAATATCTGGA 58.611 47.619 0.00 0.00 0.00 3.86
192 201 1.439353 CCATCCGTCCAATCTTGCCG 61.439 60.000 0.00 0.00 0.00 5.69
195 204 0.734889 GTGCCATCCGTCCAATCTTG 59.265 55.000 0.00 0.00 0.00 3.02
418 534 7.110155 TGTTTGAGGAGAAAGAAAAGTACTGT 58.890 34.615 0.00 0.00 0.00 3.55
571 810 1.531578 CTCTCTTGGATCATGCATGCG 59.468 52.381 22.25 0.00 0.00 4.73
619 858 2.665185 ACCGTGCTGCCGAAAGTC 60.665 61.111 11.24 0.00 0.00 3.01
809 1055 2.146342 CAACCGTCTTGCATCTCTTGT 58.854 47.619 0.00 0.00 0.00 3.16
949 1195 1.816074 GTGCCATTTGGGACGAACTA 58.184 50.000 5.44 0.00 46.37 2.24
992 1238 0.540365 GGGGATACACATGCCATGGG 60.540 60.000 15.13 5.12 44.28 4.00
1113 1359 4.202274 TGGTCCGTGTCAAGAAGAATGTTA 60.202 41.667 0.00 0.00 0.00 2.41
1237 1483 2.035832 GCAGGTTGGTTTGCATGTACTT 59.964 45.455 0.00 0.00 40.02 2.24
1305 1551 1.165270 GCAATTTGGCCGTGAGTAGT 58.835 50.000 0.00 0.00 0.00 2.73
1459 1705 0.031449 GCTAGCTCCGCGATCTCTTT 59.969 55.000 8.23 0.00 0.00 2.52
1514 1760 2.094675 CCGCAACTTCCTTCATGGATT 58.905 47.619 0.00 0.00 45.68 3.01
1655 1907 7.244166 ACTTTCTTCTCGATGCTGAAATATG 57.756 36.000 0.00 0.00 0.00 1.78
2086 2347 1.302271 GTCTTCCGGGCCGAAAAGT 60.302 57.895 30.79 0.00 0.00 2.66
2097 2358 3.114616 CCGCAGCTGTGTCTTCCG 61.115 66.667 24.85 12.94 0.00 4.30
2143 2404 1.098050 GTCATTTCAGGCAAGCGGAT 58.902 50.000 0.00 0.00 0.00 4.18
2535 2808 8.211116 TGTGTGAATTTTTCAAATGCTTGATT 57.789 26.923 0.00 0.00 41.22 2.57
2537 2810 7.789273 ATGTGTGAATTTTTCAAATGCTTGA 57.211 28.000 0.00 0.00 42.15 3.02
2538 2811 7.588488 GGAATGTGTGAATTTTTCAAATGCTTG 59.412 33.333 0.00 0.00 42.15 4.01
2539 2812 7.255208 GGGAATGTGTGAATTTTTCAAATGCTT 60.255 33.333 0.00 0.00 42.15 3.91
2540 2813 6.205270 GGGAATGTGTGAATTTTTCAAATGCT 59.795 34.615 0.00 0.00 42.15 3.79
2541 2814 6.017275 TGGGAATGTGTGAATTTTTCAAATGC 60.017 34.615 0.00 0.00 42.15 3.56
2542 2815 7.012138 TGTGGGAATGTGTGAATTTTTCAAATG 59.988 33.333 0.00 0.00 42.15 2.32
2543 2816 7.052873 TGTGGGAATGTGTGAATTTTTCAAAT 58.947 30.769 0.00 0.00 42.15 2.32
2544 2817 6.409704 TGTGGGAATGTGTGAATTTTTCAAA 58.590 32.000 0.00 0.00 42.15 2.69
2545 2818 5.982356 TGTGGGAATGTGTGAATTTTTCAA 58.018 33.333 0.00 0.00 42.15 2.69
2546 2819 5.604758 TGTGGGAATGTGTGAATTTTTCA 57.395 34.783 0.00 0.00 37.33 2.69
2547 2820 6.048509 ACTTGTGGGAATGTGTGAATTTTTC 58.951 36.000 0.00 0.00 0.00 2.29
2548 2821 5.988287 ACTTGTGGGAATGTGTGAATTTTT 58.012 33.333 0.00 0.00 0.00 1.94
2549 2822 5.612725 ACTTGTGGGAATGTGTGAATTTT 57.387 34.783 0.00 0.00 0.00 1.82
2550 2823 5.453198 GGAACTTGTGGGAATGTGTGAATTT 60.453 40.000 0.00 0.00 0.00 1.82
2551 2824 4.039124 GGAACTTGTGGGAATGTGTGAATT 59.961 41.667 0.00 0.00 0.00 2.17
2552 2825 3.573967 GGAACTTGTGGGAATGTGTGAAT 59.426 43.478 0.00 0.00 0.00 2.57
2553 2826 2.955660 GGAACTTGTGGGAATGTGTGAA 59.044 45.455 0.00 0.00 0.00 3.18
2554 2827 2.582052 GGAACTTGTGGGAATGTGTGA 58.418 47.619 0.00 0.00 0.00 3.58
2555 2828 1.613437 GGGAACTTGTGGGAATGTGTG 59.387 52.381 0.00 0.00 0.00 3.82
2556 2829 1.216678 TGGGAACTTGTGGGAATGTGT 59.783 47.619 0.00 0.00 0.00 3.72
2557 2830 1.993956 TGGGAACTTGTGGGAATGTG 58.006 50.000 0.00 0.00 0.00 3.21
2558 2831 2.765689 TTGGGAACTTGTGGGAATGT 57.234 45.000 0.00 0.00 0.00 2.71
2559 2832 4.414337 TTTTTGGGAACTTGTGGGAATG 57.586 40.909 0.00 0.00 0.00 2.67
2587 2860 9.249053 TGGTTATTAGCTCCAATTTGATACAAA 57.751 29.630 0.00 0.00 0.00 2.83
2588 2861 8.815565 TGGTTATTAGCTCCAATTTGATACAA 57.184 30.769 0.00 0.00 0.00 2.41
2589 2862 8.815565 TTGGTTATTAGCTCCAATTTGATACA 57.184 30.769 0.00 0.00 36.48 2.29
2598 2871 4.871871 TGGGATTGGTTATTAGCTCCAA 57.128 40.909 6.31 6.31 43.83 3.53
2599 2872 4.017958 TGTTGGGATTGGTTATTAGCTCCA 60.018 41.667 0.00 0.00 0.00 3.86
2600 2873 4.532834 TGTTGGGATTGGTTATTAGCTCC 58.467 43.478 0.00 0.00 0.00 4.70
2601 2874 5.010012 CCATGTTGGGATTGGTTATTAGCTC 59.990 44.000 0.00 0.00 32.67 4.09
2602 2875 4.895297 CCATGTTGGGATTGGTTATTAGCT 59.105 41.667 0.00 0.00 32.67 3.32
2603 2876 4.892934 TCCATGTTGGGATTGGTTATTAGC 59.107 41.667 0.00 0.00 38.32 3.09
2604 2877 6.607198 ACTTCCATGTTGGGATTGGTTATTAG 59.393 38.462 0.00 0.00 38.32 1.73
2605 2878 6.498538 ACTTCCATGTTGGGATTGGTTATTA 58.501 36.000 0.00 0.00 38.32 0.98
2606 2879 5.341169 ACTTCCATGTTGGGATTGGTTATT 58.659 37.500 0.00 0.00 38.32 1.40
2607 2880 4.946646 ACTTCCATGTTGGGATTGGTTAT 58.053 39.130 0.00 0.00 38.32 1.89
2608 2881 4.396357 ACTTCCATGTTGGGATTGGTTA 57.604 40.909 0.00 0.00 38.32 2.85
2609 2882 3.258722 ACTTCCATGTTGGGATTGGTT 57.741 42.857 0.00 0.00 38.32 3.67
2610 2883 2.999185 ACTTCCATGTTGGGATTGGT 57.001 45.000 0.00 0.00 38.32 3.67
2611 2884 4.099881 CCAATACTTCCATGTTGGGATTGG 59.900 45.833 14.46 14.46 37.24 3.16
2612 2885 4.955450 TCCAATACTTCCATGTTGGGATTG 59.045 41.667 9.83 8.25 40.34 2.67
2613 2886 5.205517 TCCAATACTTCCATGTTGGGATT 57.794 39.130 9.83 0.00 40.34 3.01
2614 2887 4.879295 TCCAATACTTCCATGTTGGGAT 57.121 40.909 9.83 0.00 40.34 3.85
2615 2888 4.666412 TTCCAATACTTCCATGTTGGGA 57.334 40.909 9.83 0.00 40.34 4.37
2616 2889 5.736951 TTTTCCAATACTTCCATGTTGGG 57.263 39.130 9.83 0.00 40.34 4.12
2617 2890 6.758254 AGTTTTTCCAATACTTCCATGTTGG 58.242 36.000 4.52 4.52 41.07 3.77
2618 2891 9.927668 ATAAGTTTTTCCAATACTTCCATGTTG 57.072 29.630 0.00 0.00 34.26 3.33
2652 2925 9.177608 TCACGATGAAGGATATTTGAGATTTTT 57.822 29.630 0.00 0.00 0.00 1.94
2653 2926 8.737168 TCACGATGAAGGATATTTGAGATTTT 57.263 30.769 0.00 0.00 0.00 1.82
2654 2927 8.206867 TCTCACGATGAAGGATATTTGAGATTT 58.793 33.333 0.00 0.00 34.69 2.17
2655 2928 7.655328 GTCTCACGATGAAGGATATTTGAGATT 59.345 37.037 0.00 0.00 40.13 2.40
2656 2929 7.151308 GTCTCACGATGAAGGATATTTGAGAT 58.849 38.462 0.00 0.00 40.13 2.75
2657 2930 6.096846 TGTCTCACGATGAAGGATATTTGAGA 59.903 38.462 0.00 0.00 36.71 3.27
2658 2931 6.276091 TGTCTCACGATGAAGGATATTTGAG 58.724 40.000 0.00 0.00 0.00 3.02
2659 2932 6.220726 TGTCTCACGATGAAGGATATTTGA 57.779 37.500 0.00 0.00 0.00 2.69
2660 2933 8.768957 ATATGTCTCACGATGAAGGATATTTG 57.231 34.615 0.00 0.00 0.00 2.32
2662 2935 9.862371 GTTATATGTCTCACGATGAAGGATATT 57.138 33.333 0.00 0.00 0.00 1.28
2663 2936 8.470805 GGTTATATGTCTCACGATGAAGGATAT 58.529 37.037 0.00 0.00 0.00 1.63
2664 2937 7.450323 TGGTTATATGTCTCACGATGAAGGATA 59.550 37.037 0.00 0.00 0.00 2.59
2665 2938 6.267699 TGGTTATATGTCTCACGATGAAGGAT 59.732 38.462 0.00 0.00 0.00 3.24
2666 2939 5.596772 TGGTTATATGTCTCACGATGAAGGA 59.403 40.000 0.00 0.00 0.00 3.36
2667 2940 5.842907 TGGTTATATGTCTCACGATGAAGG 58.157 41.667 0.00 0.00 0.00 3.46
2668 2941 7.115520 GTGATGGTTATATGTCTCACGATGAAG 59.884 40.741 0.00 0.00 0.00 3.02
2669 2942 6.923508 GTGATGGTTATATGTCTCACGATGAA 59.076 38.462 0.00 0.00 0.00 2.57
2670 2943 6.265422 AGTGATGGTTATATGTCTCACGATGA 59.735 38.462 0.00 0.00 38.37 2.92
2671 2944 6.450545 AGTGATGGTTATATGTCTCACGATG 58.549 40.000 0.00 0.00 38.37 3.84
2672 2945 6.656632 AGTGATGGTTATATGTCTCACGAT 57.343 37.500 0.00 0.00 38.37 3.73
2673 2946 7.761038 ATAGTGATGGTTATATGTCTCACGA 57.239 36.000 0.00 0.00 38.37 4.35
2674 2947 9.908152 TTTATAGTGATGGTTATATGTCTCACG 57.092 33.333 0.00 0.00 38.37 4.35


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

AutoCloner maintained by Alex Coulton.