Multiple sequence alignment - TraesCS4A01G265900

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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 TraesCS4A01G265900 chr4A 100.000 3014 0 0 1 3014 578006015 578009028 0.000000e+00 5566.0
1 TraesCS4A01G265900 chr4A 93.433 2147 109 11 1 2125 578177202 578175066 0.000000e+00 3155.0
2 TraesCS4A01G265900 chr4A 88.207 1026 111 7 982 2007 578233566 578234581 0.000000e+00 1216.0
3 TraesCS4A01G265900 chr4A 84.659 352 36 9 135 483 578104756 578104420 4.810000e-88 335.0
4 TraesCS4A01G265900 chr4A 83.969 131 19 2 1 130 578104943 578104814 1.130000e-24 124.0
5 TraesCS4A01G265900 chr4A 90.385 52 5 0 2617 2668 578008563 578008614 5.390000e-08 69.4
6 TraesCS4A01G265900 chr4A 90.385 52 5 0 2549 2600 578008631 578008682 5.390000e-08 69.4
7 TraesCS4A01G265900 chr4B 90.917 2169 148 19 1 2129 37298452 37296293 0.000000e+00 2868.0
8 TraesCS4A01G265900 chr4B 87.741 1036 116 7 982 2016 37174481 37173456 0.000000e+00 1199.0
9 TraesCS4A01G265900 chr4B 78.297 834 146 21 1137 1963 36013811 36013006 3.470000e-139 505.0
10 TraesCS4A01G265900 chr4D 90.746 2172 135 19 1 2136 25365003 25362862 0.000000e+00 2837.0
11 TraesCS4A01G265900 chr4D 87.757 1217 120 12 935 2136 25321332 25320130 0.000000e+00 1395.0
12 TraesCS4A01G265900 chr4D 88.114 1018 111 8 982 1999 25194510 25193503 0.000000e+00 1201.0
13 TraesCS4A01G265900 chr4D 85.938 320 26 5 636 939 25338833 25338517 1.040000e-84 324.0
14 TraesCS4A01G265900 chr3B 87.992 1574 133 25 604 2125 39544745 39546314 0.000000e+00 1808.0
15 TraesCS4A01G265900 chr3B 86.170 188 26 0 2129 2316 309833564 309833377 1.420000e-48 204.0
16 TraesCS4A01G265900 chr3B 77.852 149 21 4 2135 2282 522328741 522328604 6.930000e-12 82.4
17 TraesCS4A01G265900 chr2D 87.558 434 37 10 2583 3014 516646899 516647317 1.260000e-133 486.0
18 TraesCS4A01G265900 chr2D 90.876 274 23 2 2360 2632 516646710 516646982 1.710000e-97 366.0
19 TraesCS4A01G265900 chr2D 91.099 191 17 0 2132 2322 516646386 516646576 2.980000e-65 259.0
20 TraesCS4A01G265900 chr6A 89.008 373 38 3 2596 2966 549260749 549261120 2.740000e-125 459.0
21 TraesCS4A01G265900 chr3A 87.079 178 20 3 2132 2307 67278985 67279161 6.590000e-47 198.0
22 TraesCS4A01G265900 chr3A 85.876 177 22 3 2133 2307 11903168 11902993 5.130000e-43 185.0
23 TraesCS4A01G265900 chr1D 86.592 179 21 3 2131 2307 192671921 192672098 8.530000e-46 195.0
24 TraesCS4A01G265900 chr5A 81.879 149 22 4 2133 2279 553530829 553530974 1.470000e-23 121.0
25 TraesCS4A01G265900 chr7D 76.364 220 34 14 2802 3011 784035 784246 5.320000e-18 102.0
26 TraesCS4A01G265900 chr7B 82.353 119 18 3 2878 2994 626115863 626115746 1.910000e-17 100.0
27 TraesCS4A01G265900 chr1A 78.431 153 17 7 2132 2281 223220600 223220461 5.350000e-13 86.1
28 TraesCS4A01G265900 chr5B 89.062 64 6 1 2119 2182 340598455 340598517 8.960000e-11 78.7


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 TraesCS4A01G265900 chr4A 578006015 578009028 3013 False 1901.600000 5566 93.590000 1 3014 3 chr4A.!!$F2 3013
1 TraesCS4A01G265900 chr4A 578175066 578177202 2136 True 3155.000000 3155 93.433000 1 2125 1 chr4A.!!$R1 2124
2 TraesCS4A01G265900 chr4A 578233566 578234581 1015 False 1216.000000 1216 88.207000 982 2007 1 chr4A.!!$F1 1025
3 TraesCS4A01G265900 chr4A 578104420 578104943 523 True 229.500000 335 84.314000 1 483 2 chr4A.!!$R2 482
4 TraesCS4A01G265900 chr4B 37296293 37298452 2159 True 2868.000000 2868 90.917000 1 2129 1 chr4B.!!$R3 2128
5 TraesCS4A01G265900 chr4B 37173456 37174481 1025 True 1199.000000 1199 87.741000 982 2016 1 chr4B.!!$R2 1034
6 TraesCS4A01G265900 chr4B 36013006 36013811 805 True 505.000000 505 78.297000 1137 1963 1 chr4B.!!$R1 826
7 TraesCS4A01G265900 chr4D 25362862 25365003 2141 True 2837.000000 2837 90.746000 1 2136 1 chr4D.!!$R4 2135
8 TraesCS4A01G265900 chr4D 25320130 25321332 1202 True 1395.000000 1395 87.757000 935 2136 1 chr4D.!!$R2 1201
9 TraesCS4A01G265900 chr4D 25193503 25194510 1007 True 1201.000000 1201 88.114000 982 1999 1 chr4D.!!$R1 1017
10 TraesCS4A01G265900 chr3B 39544745 39546314 1569 False 1808.000000 1808 87.992000 604 2125 1 chr3B.!!$F1 1521
11 TraesCS4A01G265900 chr2D 516646386 516647317 931 False 370.333333 486 89.844333 2132 3014 3 chr2D.!!$F1 882

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
469 536 0.389025 CAAACCAAGTTCCACTGCCC 59.611 55.000 0.0 0.0 0.0 5.36 F
695 763 2.038426 GCCAAGCAATGTTTTAAGGGGT 59.962 45.455 0.0 0.0 0.0 4.95 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1548 1698 0.179161 CGAAGTCGGCGATCTTGACT 60.179 55.0 22.80 9.66 44.46 3.41 R
2454 2722 0.592247 CGACAAGCAGTTGCCACAAC 60.592 55.0 2.23 2.23 43.38 3.32 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
176 231 7.813627 ACTTTCTTAACTCGATTAGTGGACTTC 59.186 37.037 0.00 0.00 38.88 3.01
298 362 9.750125 CTAGTCTAACAATGTATTGATAGCACA 57.250 33.333 11.29 2.00 40.70 4.57
444 511 1.342076 TGGAGATCTAACGGCTCAGGT 60.342 52.381 0.00 0.00 0.00 4.00
469 536 0.389025 CAAACCAAGTTCCACTGCCC 59.611 55.000 0.00 0.00 0.00 5.36
579 646 3.257561 CACCAGCGATTCTCGGCG 61.258 66.667 0.00 0.00 40.84 6.46
599 667 3.275999 CGGGAAACGTAATGGAGGAAAT 58.724 45.455 0.00 0.00 37.93 2.17
602 670 3.242641 GGAAACGTAATGGAGGAAATCGC 60.243 47.826 0.00 0.00 0.00 4.58
668 736 3.151554 GGAACAAACCCAACCGTCTATT 58.848 45.455 0.00 0.00 0.00 1.73
695 763 2.038426 GCCAAGCAATGTTTTAAGGGGT 59.962 45.455 0.00 0.00 0.00 4.95
701 769 7.446931 CCAAGCAATGTTTTAAGGGGTTATTTT 59.553 33.333 0.00 0.00 0.00 1.82
703 771 6.939730 AGCAATGTTTTAAGGGGTTATTTTGG 59.060 34.615 0.00 0.00 0.00 3.28
771 872 7.215719 ACATCATGAATATCCATTCTTGCAG 57.784 36.000 0.00 6.09 42.16 4.41
954 1083 9.726232 CGTTACTCAATCATCAATTTCATCATT 57.274 29.630 0.00 0.00 0.00 2.57
968 1097 9.976511 CAATTTCATCATTCTATTGCCAATACT 57.023 29.630 0.00 0.00 0.00 2.12
1020 1167 3.130160 GCGGCTGCCAGAGAAAGG 61.130 66.667 20.29 0.12 33.98 3.11
1021 1168 2.665000 CGGCTGCCAGAGAAAGGA 59.335 61.111 20.29 0.00 0.00 3.36
1476 1626 2.047274 GCGTTGTCTGGCCTAGCA 60.047 61.111 3.32 0.00 0.00 3.49
1530 1680 3.580319 AAGCCGGCCAACCTCCTT 61.580 61.111 26.15 4.89 0.00 3.36
1531 1681 2.228480 AAGCCGGCCAACCTCCTTA 61.228 57.895 26.15 0.00 0.00 2.69
1538 1688 2.802719 GGCCAACCTCCTTATCAACAA 58.197 47.619 0.00 0.00 0.00 2.83
1539 1689 3.161866 GGCCAACCTCCTTATCAACAAA 58.838 45.455 0.00 0.00 0.00 2.83
1548 1698 1.543802 CTTATCAACAAAGCCGGGCAA 59.456 47.619 23.09 1.94 0.00 4.52
1844 1996 2.887568 CGAGCTGCCGGCACTTAG 60.888 66.667 29.03 17.85 44.79 2.18
1917 2069 4.070552 GACCACCGGAAGCGAGCT 62.071 66.667 9.46 0.00 0.00 4.09
2020 2180 3.461773 AGCGGTGCTGATAGGCGT 61.462 61.111 0.00 0.00 37.57 5.68
2022 2182 2.184322 CGGTGCTGATAGGCGTGT 59.816 61.111 0.00 0.00 34.52 4.49
2023 2183 1.435925 CGGTGCTGATAGGCGTGTA 59.564 57.895 0.00 0.00 34.52 2.90
2024 2184 0.179121 CGGTGCTGATAGGCGTGTAA 60.179 55.000 0.00 0.00 34.52 2.41
2025 2185 1.737696 CGGTGCTGATAGGCGTGTAAA 60.738 52.381 0.00 0.00 34.52 2.01
2026 2186 2.352388 GGTGCTGATAGGCGTGTAAAA 58.648 47.619 0.00 0.00 34.52 1.52
2027 2187 2.095372 GGTGCTGATAGGCGTGTAAAAC 59.905 50.000 0.00 0.00 34.52 2.43
2054 2222 6.949352 AAATGTTGAACTGTCACATTCTCT 57.051 33.333 11.26 0.00 35.90 3.10
2091 2262 3.355378 AGCTAGGCATTTGCACATACAA 58.645 40.909 4.74 0.00 44.36 2.41
2098 2269 5.185635 AGGCATTTGCACATACAAATAGTGT 59.814 36.000 4.74 0.00 46.00 3.55
2116 2287 5.941948 AGTGTACCATACTTTGAACTTGC 57.058 39.130 0.00 0.00 0.00 4.01
2117 2288 4.451096 AGTGTACCATACTTTGAACTTGCG 59.549 41.667 0.00 0.00 0.00 4.85
2125 2296 2.222027 CTTTGAACTTGCGAGGGTCTT 58.778 47.619 5.79 0.00 0.00 3.01
2141 2312 4.543337 AGGGTCTTACTCTCTAAGGGTGTA 59.457 45.833 0.00 0.00 0.00 2.90
2146 2317 7.123847 GGTCTTACTCTCTAAGGGTGTATTTGA 59.876 40.741 0.00 0.00 0.00 2.69
2156 2327 3.076785 AGGGTGTATTTGATTGGGGAACA 59.923 43.478 0.00 0.00 0.00 3.18
2184 2355 1.819928 TGGAATGTCATGGTTCCGTG 58.180 50.000 15.77 4.81 45.45 4.94
2199 2370 0.320421 CCGTGACATTCCGTTCCACT 60.320 55.000 0.00 0.00 0.00 4.00
2201 2372 1.604438 CGTGACATTCCGTTCCACTGA 60.604 52.381 0.00 0.00 0.00 3.41
2216 2387 2.164219 CCACTGAAATGGGTTGATTCCG 59.836 50.000 0.00 0.00 35.95 4.30
2219 2390 3.895041 ACTGAAATGGGTTGATTCCGTTT 59.105 39.130 0.00 0.00 43.77 3.60
2235 2406 2.352323 CCGTTTCTATGTTTGGTTGGGC 60.352 50.000 0.00 0.00 0.00 5.36
2237 2408 2.897326 GTTTCTATGTTTGGTTGGGCCT 59.103 45.455 4.53 0.00 38.35 5.19
2238 2409 4.083565 GTTTCTATGTTTGGTTGGGCCTA 58.916 43.478 4.53 0.00 38.35 3.93
2239 2410 4.390129 TTCTATGTTTGGTTGGGCCTAA 57.610 40.909 4.53 0.00 38.35 2.69
2245 2416 5.258216 TGTTTGGTTGGGCCTAATAAGTA 57.742 39.130 4.25 0.00 38.35 2.24
2251 2422 7.395525 TGGTTGGGCCTAATAAGTATAATGA 57.604 36.000 4.25 0.00 38.35 2.57
2287 2458 3.399330 AGTGTTTGGTTGGAGATACGTG 58.601 45.455 0.00 0.00 0.00 4.49
2309 2480 7.120285 ACGTGATTGAAGTCATTTGATTCATCT 59.880 33.333 0.00 0.00 33.26 2.90
2316 2487 7.550551 TGAAGTCATTTGATTCATCTCACCTAC 59.449 37.037 0.00 0.00 0.00 3.18
2322 2493 9.205719 CATTTGATTCATCTCACCTACTATCAG 57.794 37.037 0.00 0.00 0.00 2.90
2399 2667 7.259290 ACAAGTCATTTACTCAAAATCGTGT 57.741 32.000 0.00 0.00 37.50 4.49
2474 2742 2.050985 GTGGCAACTGCTTGTCGC 60.051 61.111 1.06 0.00 41.70 5.19
2501 2769 1.228245 GTCCAGGTGTGGCACATGT 60.228 57.895 24.95 11.29 43.39 3.21
2525 2793 3.699894 AGGTGCAGCCTCCTGTCG 61.700 66.667 13.29 0.00 46.96 4.35
2528 2796 2.917227 TGCAGCCTCCTGTCGTGA 60.917 61.111 0.00 0.00 41.26 4.35
2543 2811 1.148310 CGTGATCCAACTTTGCTCGT 58.852 50.000 0.00 0.00 0.00 4.18
2557 2825 3.362399 CTCGTGGTCATCCGCAGCT 62.362 63.158 0.00 0.00 43.79 4.24
2561 2829 4.479993 GGTCATCCGCAGCTGCCT 62.480 66.667 32.07 14.87 37.91 4.75
2562 2830 3.200593 GTCATCCGCAGCTGCCTG 61.201 66.667 32.07 24.80 42.13 4.85
2569 2837 4.687215 GCAGCTGCCTGACGTGGA 62.687 66.667 28.76 0.00 41.77 4.02
2570 2838 2.433838 CAGCTGCCTGACGTGGAG 60.434 66.667 0.00 0.00 41.77 3.86
2571 2839 4.385405 AGCTGCCTGACGTGGAGC 62.385 66.667 9.45 9.45 33.51 4.70
2572 2840 4.687215 GCTGCCTGACGTGGAGCA 62.687 66.667 12.08 7.72 33.53 4.26
2573 2841 2.267006 CTGCCTGACGTGGAGCAT 59.733 61.111 0.00 0.00 34.16 3.79
2574 2842 1.812922 CTGCCTGACGTGGAGCATC 60.813 63.158 0.00 0.00 34.16 3.91
2575 2843 2.887568 GCCTGACGTGGAGCATCG 60.888 66.667 0.00 0.00 34.37 3.84
2576 2844 2.887568 CCTGACGTGGAGCATCGC 60.888 66.667 0.00 0.00 34.37 4.58
2577 2845 2.887568 CTGACGTGGAGCATCGCC 60.888 66.667 0.00 0.00 34.37 5.54
2578 2846 4.794439 TGACGTGGAGCATCGCCG 62.794 66.667 0.00 0.00 34.37 6.46
2582 2850 3.838271 GTGGAGCATCGCCGGAGA 61.838 66.667 11.31 11.31 34.37 3.71
2583 2851 2.839632 TGGAGCATCGCCGGAGAT 60.840 61.111 15.69 15.69 34.37 2.75
2584 2852 2.048690 GGAGCATCGCCGGAGATC 60.049 66.667 18.68 12.77 34.37 2.75
2585 2853 2.048690 GAGCATCGCCGGAGATCC 60.049 66.667 18.68 9.73 0.00 3.36
2595 2863 3.607661 GGAGATCCGGAGCGACCC 61.608 72.222 22.16 17.23 34.64 4.46
2643 2911 4.129737 ACCCGACGTGGAGCATCG 62.130 66.667 0.00 0.00 42.00 3.84
2650 2918 3.838271 GTGGAGCATCGCCGGAGA 61.838 66.667 11.31 11.31 34.37 3.71
2651 2919 2.839632 TGGAGCATCGCCGGAGAT 60.840 61.111 15.69 15.69 34.37 2.75
2652 2920 2.048690 GGAGCATCGCCGGAGATC 60.049 66.667 18.68 12.77 34.37 2.75
2653 2921 2.048690 GAGCATCGCCGGAGATCC 60.049 66.667 18.68 9.73 0.00 3.36
2663 2931 3.934962 GGAGATCCGGAGCAGCCC 61.935 72.222 23.83 15.72 0.00 5.19
2689 2957 2.894387 GATCAGCAGCAGCCCGAC 60.894 66.667 0.00 0.00 43.56 4.79
2715 2991 2.450500 AGCTGATAGGAGAGGGAGATGT 59.549 50.000 0.00 0.00 0.00 3.06
2716 2992 2.562298 GCTGATAGGAGAGGGAGATGTG 59.438 54.545 0.00 0.00 0.00 3.21
2725 3001 2.202756 GGAGATGTGTCGCCGGAC 60.203 66.667 5.05 0.00 43.71 4.79
2743 3019 0.383590 ACATGGAGAGATGTCGCTCG 59.616 55.000 7.51 0.00 42.61 5.03
2791 3068 0.752009 TAAGAGAGACGAGGGCGCAT 60.752 55.000 10.83 0.00 42.48 4.73
2800 3077 1.214062 GAGGGCGCATATCGAGAGG 59.786 63.158 10.83 0.00 41.67 3.69
2802 3079 2.262915 GGCGCATATCGAGAGGGG 59.737 66.667 10.83 4.26 41.67 4.79
2817 3094 3.237741 GGGGAGCGAGATGAGGGG 61.238 72.222 0.00 0.00 0.00 4.79
2820 3097 2.801631 GGAGCGAGATGAGGGGGTG 61.802 68.421 0.00 0.00 0.00 4.61
2931 3208 3.427773 GGTATGAGCGTATTCCGGATCTC 60.428 52.174 4.15 8.01 36.94 2.75
2932 3209 0.591659 TGAGCGTATTCCGGATCTCG 59.408 55.000 4.15 11.55 36.94 4.04
2982 3260 1.381928 TTCCGGTACCTCGCTGCTAG 61.382 60.000 10.90 0.00 0.00 3.42
3003 3281 0.106918 AAACACAAGAACGAGCCCCA 60.107 50.000 0.00 0.00 0.00 4.96
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
176 231 7.706179 AGTGTCACAAAGTTCCAAACATAATTG 59.294 33.333 5.62 0.00 0.00 2.32
265 329 9.502091 TCAATACATTGTTAGACTAGCAAAGTT 57.498 29.630 20.20 9.35 37.53 2.66
298 362 6.204882 CACCTTCTCCTTTTATTTTCGTGACT 59.795 38.462 0.00 0.00 0.00 3.41
401 468 6.238676 CCATTCACATGTCTTGAGATCAATCC 60.239 42.308 0.00 0.00 35.02 3.01
469 536 7.490840 TGATTTTGATGTATGTATTTGGCCTG 58.509 34.615 3.32 0.00 0.00 4.85
507 574 9.398538 ACCGTTGTATAATAATACACCAATGTT 57.601 29.630 0.00 0.00 45.97 2.71
508 575 8.967664 ACCGTTGTATAATAATACACCAATGT 57.032 30.769 0.00 0.00 45.97 2.71
540 607 6.016108 GGTGGCTGGTAAAATACACTTGTAAA 60.016 38.462 0.00 0.00 33.76 2.01
553 620 0.037590 AATCGCTGGTGGCTGGTAAA 59.962 50.000 0.00 0.00 39.13 2.01
579 646 3.311596 CGATTTCCTCCATTACGTTTCCC 59.688 47.826 0.00 0.00 0.00 3.97
695 763 4.346418 TGCCAAAGCTTTCCTCCAAAATAA 59.654 37.500 9.23 0.00 40.80 1.40
701 769 2.897271 TATGCCAAAGCTTTCCTCCA 57.103 45.000 9.23 4.51 40.80 3.86
703 771 5.451103 GGAGATTTATGCCAAAGCTTTCCTC 60.451 44.000 9.23 1.88 40.80 3.71
829 932 6.712095 TGCTGAGATTTTGATGTGTAACTTCT 59.288 34.615 0.00 0.00 41.21 2.85
954 1083 4.332543 CGCAAGAACAGTATTGGCAATAGA 59.667 41.667 19.79 0.00 43.02 1.98
1134 1281 0.965866 AGTCGATCAGGCGGAACTCA 60.966 55.000 0.00 0.00 0.00 3.41
1462 1612 1.762957 GAGGTATGCTAGGCCAGACAA 59.237 52.381 5.01 0.00 0.00 3.18
1467 1617 2.507854 GCGGAGGTATGCTAGGCCA 61.508 63.158 5.01 0.00 0.00 5.36
1530 1680 1.173043 CTTGCCCGGCTTTGTTGATA 58.827 50.000 11.61 0.00 0.00 2.15
1531 1681 0.827507 ACTTGCCCGGCTTTGTTGAT 60.828 50.000 11.61 0.00 0.00 2.57
1538 1688 0.678048 GATCTTGACTTGCCCGGCTT 60.678 55.000 11.61 0.00 0.00 4.35
1539 1689 1.078143 GATCTTGACTTGCCCGGCT 60.078 57.895 11.61 0.00 0.00 5.52
1548 1698 0.179161 CGAAGTCGGCGATCTTGACT 60.179 55.000 22.80 9.66 44.46 3.41
1917 2069 1.886585 GAGCAGCTCTGAGACGGAA 59.113 57.895 15.78 0.00 0.00 4.30
1987 2139 1.427020 GCTGCTTGATCACTTCGCC 59.573 57.895 0.00 0.00 0.00 5.54
2010 2162 6.715344 TTTACAGTTTTACACGCCTATCAG 57.285 37.500 0.00 0.00 0.00 2.90
2019 2179 8.905103 ACAGTTCAACATTTACAGTTTTACAC 57.095 30.769 0.00 0.00 0.00 2.90
2020 2180 8.731605 TGACAGTTCAACATTTACAGTTTTACA 58.268 29.630 0.00 0.00 0.00 2.41
2022 2182 8.731605 TGTGACAGTTCAACATTTACAGTTTTA 58.268 29.630 0.00 0.00 31.90 1.52
2023 2183 7.598278 TGTGACAGTTCAACATTTACAGTTTT 58.402 30.769 0.00 0.00 31.90 2.43
2024 2184 7.151999 TGTGACAGTTCAACATTTACAGTTT 57.848 32.000 0.00 0.00 31.90 2.66
2025 2185 6.751514 TGTGACAGTTCAACATTTACAGTT 57.248 33.333 0.00 0.00 31.90 3.16
2026 2186 6.942532 ATGTGACAGTTCAACATTTACAGT 57.057 33.333 0.00 0.00 31.90 3.55
2027 2187 7.642669 AGAATGTGACAGTTCAACATTTACAG 58.357 34.615 10.08 0.00 35.44 2.74
2098 2269 4.250464 CCTCGCAAGTTCAAAGTATGGTA 58.750 43.478 0.00 0.00 39.48 3.25
2116 2287 3.215975 CCCTTAGAGAGTAAGACCCTCG 58.784 54.545 0.00 0.00 34.08 4.63
2117 2288 3.955551 CACCCTTAGAGAGTAAGACCCTC 59.044 52.174 0.00 0.00 0.00 4.30
2125 2296 7.147549 CCCAATCAAATACACCCTTAGAGAGTA 60.148 40.741 0.00 0.00 0.00 2.59
2141 2312 4.230455 TCCACTTTGTTCCCCAATCAAAT 58.770 39.130 0.00 0.00 31.81 2.32
2146 2317 2.905736 CCATTCCACTTTGTTCCCCAAT 59.094 45.455 0.00 0.00 31.81 3.16
2156 2327 4.419282 ACCATGACATTCCATTCCACTTT 58.581 39.130 0.00 0.00 0.00 2.66
2199 2370 4.148838 AGAAACGGAATCAACCCATTTCA 58.851 39.130 0.00 0.00 35.64 2.69
2201 2372 5.714806 ACATAGAAACGGAATCAACCCATTT 59.285 36.000 0.00 0.00 0.00 2.32
2216 2387 2.897326 AGGCCCAACCAAACATAGAAAC 59.103 45.455 0.00 0.00 43.14 2.78
2219 2390 4.601406 ATTAGGCCCAACCAAACATAGA 57.399 40.909 0.00 0.00 43.14 1.98
2235 2406 8.706035 CGGAACCGTTTCATTATACTTATTAGG 58.294 37.037 4.99 0.00 32.80 2.69
2287 2458 7.914346 GGTGAGATGAATCAAATGACTTCAATC 59.086 37.037 10.26 11.07 33.03 2.67
2399 2667 2.433604 TGGCTTTTCCAAATCACAGCAA 59.566 40.909 0.00 0.00 43.21 3.91
2454 2722 0.592247 CGACAAGCAGTTGCCACAAC 60.592 55.000 2.23 2.23 43.38 3.32
2474 2742 3.052082 CACCTGGACAAGCAGCCG 61.052 66.667 0.00 0.00 0.00 5.52
2481 2749 0.822944 CATGTGCCACACCTGGACAA 60.823 55.000 0.00 0.00 40.55 3.18
2487 2755 0.767375 AGAAGACATGTGCCACACCT 59.233 50.000 1.15 0.00 32.73 4.00
2522 2790 1.126846 CGAGCAAAGTTGGATCACGAC 59.873 52.381 0.00 0.00 0.00 4.34
2525 2793 1.197721 CCACGAGCAAAGTTGGATCAC 59.802 52.381 0.00 0.00 0.00 3.06
2528 2796 1.202758 TGACCACGAGCAAAGTTGGAT 60.203 47.619 0.00 0.00 0.00 3.41
2543 2811 4.783621 GGCAGCTGCGGATGACCA 62.784 66.667 31.19 0.00 43.26 4.02
2557 2825 2.265739 GATGCTCCACGTCAGGCA 59.734 61.111 8.02 8.02 39.06 4.75
2561 2829 4.794439 CGGCGATGCTCCACGTCA 62.794 66.667 0.00 0.00 33.53 4.35
2578 2846 3.607661 GGGTCGCTCCGGATCTCC 61.608 72.222 3.57 6.22 37.00 3.71
2579 2847 3.967335 CGGGTCGCTCCGGATCTC 61.967 72.222 3.57 0.00 45.78 2.75
2586 2854 3.966026 CTTCACGTCGGGTCGCTCC 62.966 68.421 0.00 0.00 0.00 4.70
2587 2855 2.504244 CTTCACGTCGGGTCGCTC 60.504 66.667 0.00 0.00 0.00 5.03
2588 2856 4.719369 GCTTCACGTCGGGTCGCT 62.719 66.667 0.00 0.00 0.00 4.93
2590 2858 3.966026 GAGGCTTCACGTCGGGTCG 62.966 68.421 0.00 0.00 0.00 4.79
2591 2859 2.126031 GAGGCTTCACGTCGGGTC 60.126 66.667 0.00 0.00 0.00 4.46
2599 2867 2.962697 GATCTCCGGCGAGGCTTCAC 62.963 65.000 9.30 0.00 40.77 3.18
2600 2868 2.759973 ATCTCCGGCGAGGCTTCA 60.760 61.111 9.30 0.00 40.77 3.02
2601 2869 2.028337 GATCTCCGGCGAGGCTTC 59.972 66.667 9.30 0.00 40.77 3.86
2602 2870 3.541713 GGATCTCCGGCGAGGCTT 61.542 66.667 9.30 0.00 40.77 4.35
2646 2914 3.934962 GGGCTGCTCCGGATCTCC 61.935 72.222 3.57 6.62 34.94 3.71
2647 2915 4.292178 CGGGCTGCTCCGGATCTC 62.292 72.222 18.06 0.00 45.78 2.75
2663 2931 2.653448 CTGCTGATCTCCGCGTCG 60.653 66.667 4.92 0.00 0.00 5.12
2664 2932 2.959071 GCTGCTGATCTCCGCGTC 60.959 66.667 4.92 0.00 0.00 5.19
2665 2933 3.713205 CTGCTGCTGATCTCCGCGT 62.713 63.158 4.92 0.00 0.00 6.01
2666 2934 2.960659 CTGCTGCTGATCTCCGCG 60.961 66.667 0.00 0.00 0.00 6.46
2667 2935 3.270839 GCTGCTGCTGATCTCCGC 61.271 66.667 10.92 0.00 36.03 5.54
2689 2957 1.578926 CTCTCCTATCAGCTCCGCG 59.421 63.158 0.00 0.00 0.00 6.46
2692 2960 1.427368 TCTCCCTCTCCTATCAGCTCC 59.573 57.143 0.00 0.00 0.00 4.70
2716 2992 1.739338 ATCTCTCCATGTCCGGCGAC 61.739 60.000 9.30 5.41 39.66 5.19
2725 3001 0.665298 TCGAGCGACATCTCTCCATG 59.335 55.000 0.00 0.00 0.00 3.66
2730 3006 0.817634 CCCTCTCGAGCGACATCTCT 60.818 60.000 7.81 0.00 0.00 3.10
2743 3019 1.152546 GCCTCTCCTCCTCCCTCTC 60.153 68.421 0.00 0.00 0.00 3.20
2770 3046 1.654954 GCGCCCTCGTCTCTCTTACA 61.655 60.000 0.00 0.00 38.14 2.41
2771 3047 1.064458 GCGCCCTCGTCTCTCTTAC 59.936 63.158 0.00 0.00 38.14 2.34
2774 3050 0.538516 ATATGCGCCCTCGTCTCTCT 60.539 55.000 4.18 0.00 38.14 3.10
2791 3068 1.073373 CTCGCTCCCCCTCTCGATA 59.927 63.158 0.00 0.00 0.00 2.92
2800 3077 3.237741 CCCCTCATCTCGCTCCCC 61.238 72.222 0.00 0.00 0.00 4.81
2802 3079 2.444895 ACCCCCTCATCTCGCTCC 60.445 66.667 0.00 0.00 0.00 4.70
2829 3106 0.831288 CCCTCATCTCGCTCTCCCAT 60.831 60.000 0.00 0.00 0.00 4.00
2949 3226 2.274432 GGAACCCCCGATTCCCAC 59.726 66.667 0.00 0.00 39.91 4.61
2982 3260 0.317854 GGGCTCGTTCTTGTGTTTGC 60.318 55.000 0.00 0.00 0.00 3.68


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

AutoCloner maintained by Alex Coulton.