Multiple sequence alignment - TraesCS1B01G304900

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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 TraesCS1B01G304900 chr1B 100.000 2319 0 0 708 3026 527646819 527649137 0.000000e+00 4283.0
1 TraesCS1B01G304900 chr1B 100.000 302 0 0 1 302 527646112 527646413 2.630000e-155 558.0
2 TraesCS1B01G304900 chr1D 96.000 1825 69 3 708 2528 394279857 394278033 0.000000e+00 2963.0
3 TraesCS1B01G304900 chr1D 85.714 532 56 9 2494 3020 394278147 394277631 7.380000e-151 544.0
4 TraesCS1B01G304900 chr1A 95.803 1811 73 2 708 2516 491128571 491130380 0.000000e+00 2920.0
5 TraesCS1B01G304900 chr1A 81.784 527 62 20 2516 3024 491130304 491130814 7.810000e-111 411.0
6 TraesCS1B01G304900 chr1A 88.372 172 9 3 1 170 491125782 491125944 2.380000e-46 196.0
7 TraesCS1B01G304900 chr1A 97.368 38 1 0 2759 2796 491130440 491130477 7.000000e-07 65.8


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 TraesCS1B01G304900 chr1B 527646112 527649137 3025 False 2420.5 4283 100.00000 1 3026 2 chr1B.!!$F1 3025
1 TraesCS1B01G304900 chr1D 394277631 394279857 2226 True 1753.5 2963 90.85700 708 3020 2 chr1D.!!$R1 2312
2 TraesCS1B01G304900 chr1A 491125782 491130814 5032 False 898.2 2920 90.83175 1 3024 4 chr1A.!!$F1 3023

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
268 1856 1.000359 CCACAATTCCCCACCCCTC 60.000 63.158 0.0 0.0 0.0 4.30 F
1083 3177 0.543277 TCTGCTTTGAGATGGCCGAT 59.457 50.000 0.0 0.0 0.0 4.18 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1668 3762 0.039527 CAAGGGTAAGGCGTTGCAAC 60.040 55.0 19.89 19.89 0.00 4.17 R
2942 5075 0.756294 TTTCGAGGACAGCCAAGACA 59.244 50.0 0.00 0.00 36.29 3.41 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
72 74 2.021584 CGCAGCTAAGACACACGCA 61.022 57.895 0.00 0.00 0.00 5.24
73 75 1.493311 GCAGCTAAGACACACGCAC 59.507 57.895 0.00 0.00 0.00 5.34
128 130 4.740822 CCCCTTTCTGGCGGTGGG 62.741 72.222 12.54 12.54 37.68 4.61
129 131 4.740822 CCCTTTCTGGCGGTGGGG 62.741 72.222 11.93 9.35 34.46 4.96
130 132 3.646715 CCTTTCTGGCGGTGGGGA 61.647 66.667 0.00 0.00 0.00 4.81
131 133 2.045926 CTTTCTGGCGGTGGGGAG 60.046 66.667 0.00 0.00 0.00 4.30
132 134 3.628646 CTTTCTGGCGGTGGGGAGG 62.629 68.421 0.00 0.00 0.00 4.30
212 1796 1.684734 GTGCCTCTCCCCGTTCCTA 60.685 63.158 0.00 0.00 0.00 2.94
245 1833 3.648660 ACCCCCATCCCTTCCCCT 61.649 66.667 0.00 0.00 0.00 4.79
248 1836 2.778717 CCCATCCCTTCCCCTCCC 60.779 72.222 0.00 0.00 0.00 4.30
268 1856 1.000359 CCACAATTCCCCACCCCTC 60.000 63.158 0.00 0.00 0.00 4.30
269 1857 1.378514 CACAATTCCCCACCCCTCG 60.379 63.158 0.00 0.00 0.00 4.63
270 1858 2.440247 CAATTCCCCACCCCTCGC 60.440 66.667 0.00 0.00 0.00 5.03
786 2880 3.670629 CTCCTCCACGGCCTCCTCT 62.671 68.421 0.00 0.00 0.00 3.69
885 2979 2.182030 CGCTTCCGGTCAGACCTC 59.818 66.667 17.95 1.01 35.66 3.85
1083 3177 0.543277 TCTGCTTTGAGATGGCCGAT 59.457 50.000 0.00 0.00 0.00 4.18
1110 3204 2.617274 GGTCACTTCTTGCGGCCAC 61.617 63.158 2.24 0.00 0.00 5.01
1191 3285 1.233019 CTGTCTGCAAAGGTGAGGTG 58.767 55.000 0.00 0.00 0.00 4.00
1200 3294 1.059913 AAGGTGAGGTGACTGAAGGG 58.940 55.000 0.00 0.00 44.43 3.95
1587 3681 6.787085 ACATTTGTTTCTTCTTCTACTCCG 57.213 37.500 0.00 0.00 0.00 4.63
1626 3720 4.804420 AGGGCGCCAGATCCTCCA 62.804 66.667 30.85 0.00 0.00 3.86
1780 3874 3.484229 CCGAGCATCAACTTCGTCAAATC 60.484 47.826 0.00 0.00 33.17 2.17
1854 3948 6.473521 GTCTGCAGATCAAACTTCTAATTCG 58.526 40.000 21.47 0.00 0.00 3.34
1911 4005 1.968493 ACTGAAAGCGTAGGAGAACCA 59.032 47.619 0.00 0.00 37.60 3.67
1923 4017 1.251251 GAGAACCAAGCAATGCAGGT 58.749 50.000 15.11 15.11 40.03 4.00
1959 4053 1.051556 GGAGGAGGGGAAGAAGCGAT 61.052 60.000 0.00 0.00 0.00 4.58
2064 4158 1.939255 GAGTATTGCAGAGGCTTCAGC 59.061 52.381 6.25 6.25 41.91 4.26
2124 4218 3.768757 CCCATTTTATCTCTTTGGGCACA 59.231 43.478 0.00 0.00 40.55 4.57
2127 4221 5.404946 CATTTTATCTCTTTGGGCACACTG 58.595 41.667 0.00 0.00 0.00 3.66
2142 4236 1.966354 ACACTGTGCTGAGTCTGATCA 59.034 47.619 7.90 0.00 0.00 2.92
2158 4253 5.641636 GTCTGATCAAAAGTCTTCCTCTTCC 59.358 44.000 0.00 0.00 0.00 3.46
2287 4384 7.011763 GTCATCAGATGAATTTTCCTTGATCGA 59.988 37.037 15.02 0.00 41.69 3.59
2345 4442 7.870509 AGTGTCATAAATAATGCACTGTCAT 57.129 32.000 11.56 0.00 44.29 3.06
2354 4451 7.458409 AATAATGCACTGTCATTTGAGTCTT 57.542 32.000 9.58 0.00 37.75 3.01
2444 4541 2.701073 AGTACCGAACTCTGTTGTCG 57.299 50.000 0.00 0.00 30.33 4.35
2470 4567 4.032960 ACTGGATGAATGCCAAGTAACA 57.967 40.909 0.00 0.00 34.44 2.41
2471 4568 4.406456 ACTGGATGAATGCCAAGTAACAA 58.594 39.130 0.00 0.00 34.44 2.83
2472 4569 4.832266 ACTGGATGAATGCCAAGTAACAAA 59.168 37.500 0.00 0.00 34.44 2.83
2473 4570 5.132897 TGGATGAATGCCAAGTAACAAAC 57.867 39.130 0.00 0.00 31.13 2.93
2474 4571 4.832266 TGGATGAATGCCAAGTAACAAACT 59.168 37.500 0.00 0.00 41.49 2.66
2475 4572 5.048083 TGGATGAATGCCAAGTAACAAACTC 60.048 40.000 0.00 0.00 37.50 3.01
2476 4573 5.183904 GGATGAATGCCAAGTAACAAACTCT 59.816 40.000 0.00 0.00 37.50 3.24
2477 4574 5.437289 TGAATGCCAAGTAACAAACTCTG 57.563 39.130 0.00 0.00 37.50 3.35
2478 4575 4.887071 TGAATGCCAAGTAACAAACTCTGT 59.113 37.500 0.00 0.00 37.50 3.41
2480 4577 6.544197 TGAATGCCAAGTAACAAACTCTGTTA 59.456 34.615 0.00 0.00 46.75 2.41
2500 4597 9.970395 TCTGTTATCATTTTATTGGATGAATGC 57.030 29.630 0.00 0.00 36.03 3.56
2501 4598 9.199982 CTGTTATCATTTTATTGGATGAATGCC 57.800 33.333 0.00 0.00 36.03 4.40
2502 4599 8.702819 TGTTATCATTTTATTGGATGAATGCCA 58.297 29.630 0.00 0.00 36.03 4.92
2510 4607 2.364632 TGGATGAATGCCAAGTAACGG 58.635 47.619 0.00 0.00 31.13 4.44
2511 4608 2.026729 TGGATGAATGCCAAGTAACGGA 60.027 45.455 0.00 0.00 31.13 4.69
2512 4609 2.354821 GGATGAATGCCAAGTAACGGAC 59.645 50.000 0.00 0.00 0.00 4.79
2513 4610 2.851263 TGAATGCCAAGTAACGGACT 57.149 45.000 0.00 0.00 41.56 3.85
2514 4611 2.695359 TGAATGCCAAGTAACGGACTC 58.305 47.619 0.00 0.00 37.44 3.36
2515 4612 2.301870 TGAATGCCAAGTAACGGACTCT 59.698 45.455 0.00 0.00 37.44 3.24
2516 4613 3.244422 TGAATGCCAAGTAACGGACTCTT 60.244 43.478 0.00 0.00 37.44 2.85
2517 4614 2.163818 TGCCAAGTAACGGACTCTTG 57.836 50.000 0.00 0.00 37.44 3.02
2518 4615 1.414919 TGCCAAGTAACGGACTCTTGT 59.585 47.619 0.00 0.00 37.44 3.16
2519 4616 2.067013 GCCAAGTAACGGACTCTTGTC 58.933 52.381 0.00 0.00 37.44 3.18
2520 4617 2.325761 CCAAGTAACGGACTCTTGTCG 58.674 52.381 0.00 0.00 43.79 4.35
2521 4618 1.719780 CAAGTAACGGACTCTTGTCGC 59.280 52.381 0.00 0.00 43.79 5.19
2522 4619 1.245732 AGTAACGGACTCTTGTCGCT 58.754 50.000 0.00 0.00 43.79 4.93
2523 4620 1.612463 AGTAACGGACTCTTGTCGCTT 59.388 47.619 0.00 0.00 43.79 4.68
2524 4621 2.816087 AGTAACGGACTCTTGTCGCTTA 59.184 45.455 0.00 0.00 43.79 3.09
2525 4622 2.806608 AACGGACTCTTGTCGCTTAA 57.193 45.000 0.00 0.00 43.79 1.85
2526 4623 3.314541 AACGGACTCTTGTCGCTTAAT 57.685 42.857 0.00 0.00 43.79 1.40
2527 4624 3.314541 ACGGACTCTTGTCGCTTAATT 57.685 42.857 0.00 0.00 43.79 1.40
2528 4625 2.993899 ACGGACTCTTGTCGCTTAATTG 59.006 45.455 0.00 0.00 43.79 2.32
2529 4626 3.250744 CGGACTCTTGTCGCTTAATTGA 58.749 45.455 0.00 0.00 43.79 2.57
2530 4627 3.678072 CGGACTCTTGTCGCTTAATTGAA 59.322 43.478 0.00 0.00 43.79 2.69
2531 4628 4.330074 CGGACTCTTGTCGCTTAATTGAAT 59.670 41.667 0.00 0.00 43.79 2.57
2532 4629 5.563842 GGACTCTTGTCGCTTAATTGAATG 58.436 41.667 0.00 0.00 43.79 2.67
2533 4630 5.351465 GGACTCTTGTCGCTTAATTGAATGA 59.649 40.000 0.00 0.00 43.79 2.57
2534 4631 6.128282 GGACTCTTGTCGCTTAATTGAATGAA 60.128 38.462 0.00 0.00 43.79 2.57
2535 4632 7.383102 ACTCTTGTCGCTTAATTGAATGAAT 57.617 32.000 0.00 0.00 0.00 2.57
2536 4633 7.246311 ACTCTTGTCGCTTAATTGAATGAATG 58.754 34.615 0.00 0.00 0.00 2.67
2537 4634 7.094634 ACTCTTGTCGCTTAATTGAATGAATGT 60.095 33.333 0.00 0.00 0.00 2.71
2538 4635 7.243487 TCTTGTCGCTTAATTGAATGAATGTC 58.757 34.615 0.00 0.00 0.00 3.06
2539 4636 6.493449 TGTCGCTTAATTGAATGAATGTCA 57.507 33.333 0.00 0.00 0.00 3.58
2540 4637 6.907741 TGTCGCTTAATTGAATGAATGTCAA 58.092 32.000 0.00 0.00 39.24 3.18
2541 4638 7.366513 TGTCGCTTAATTGAATGAATGTCAAA 58.633 30.769 0.00 0.00 38.44 2.69
2542 4639 8.028354 TGTCGCTTAATTGAATGAATGTCAAAT 58.972 29.630 0.00 0.00 38.44 2.32
2543 4640 9.502145 GTCGCTTAATTGAATGAATGTCAAATA 57.498 29.630 0.00 0.00 38.44 1.40
2658 4756 4.222124 ACTGGGCAAAGAGGTATGTTAG 57.778 45.455 0.00 0.00 0.00 2.34
2659 4757 3.587506 ACTGGGCAAAGAGGTATGTTAGT 59.412 43.478 0.00 0.00 0.00 2.24
2660 4758 4.781087 ACTGGGCAAAGAGGTATGTTAGTA 59.219 41.667 0.00 0.00 0.00 1.82
2665 4763 6.403878 GGCAAAGAGGTATGTTAGTAAGTCA 58.596 40.000 0.00 0.00 0.00 3.41
2686 4784 7.955918 AGTCACAATAAAGAAGAAAGGCATTT 58.044 30.769 0.00 0.00 0.00 2.32
2687 4785 8.424133 AGTCACAATAAAGAAGAAAGGCATTTT 58.576 29.630 0.00 0.00 0.00 1.82
2688 4786 8.490355 GTCACAATAAAGAAGAAAGGCATTTTG 58.510 33.333 0.00 0.00 0.00 2.44
2698 4796 6.682423 AGAAAGGCATTTTGTTTCCTTTTG 57.318 33.333 0.00 0.00 45.79 2.44
2712 4810 9.912634 TTGTTTCCTTTTGTGATAATCTTCATC 57.087 29.630 0.00 0.00 0.00 2.92
2713 4811 9.300681 TGTTTCCTTTTGTGATAATCTTCATCT 57.699 29.630 0.00 0.00 0.00 2.90
2715 4813 9.519191 TTTCCTTTTGTGATAATCTTCATCTCA 57.481 29.630 0.00 0.00 0.00 3.27
2738 4836 5.568685 TGACTCAACACTACTATCTCTGC 57.431 43.478 0.00 0.00 0.00 4.26
2755 4853 4.070716 CTCTGCTCTTGGTTGATGTTTCT 58.929 43.478 0.00 0.00 0.00 2.52
2833 4966 7.172190 ACAATCTACTCATGACTCAAAACACTG 59.828 37.037 0.00 0.00 0.00 3.66
2834 4967 5.541845 TCTACTCATGACTCAAAACACTGG 58.458 41.667 0.00 0.00 0.00 4.00
2848 4981 6.371548 TCAAAACACTGGTATCTATGTTCAGC 59.628 38.462 0.00 0.00 34.24 4.26
2885 5018 4.821805 GGATGTGGTCATGGATTTACGATT 59.178 41.667 0.00 0.00 34.06 3.34
2892 5025 8.017373 GTGGTCATGGATTTACGATTGATATTG 58.983 37.037 0.00 0.00 0.00 1.90
2929 5062 2.754946 TTTTCGAGCTGGTTACGGAT 57.245 45.000 0.00 0.00 0.00 4.18
2942 5075 1.968704 TACGGATGCTCTGTCGATCT 58.031 50.000 0.00 0.00 37.20 2.75
2958 5091 0.534412 ATCTGTCTTGGCTGTCCTCG 59.466 55.000 0.00 0.00 0.00 4.63
2962 5095 1.140052 TGTCTTGGCTGTCCTCGAAAA 59.860 47.619 0.00 0.00 0.00 2.29
2964 5097 2.416893 GTCTTGGCTGTCCTCGAAAATC 59.583 50.000 0.00 0.00 0.00 2.17
2965 5098 1.740025 CTTGGCTGTCCTCGAAAATCC 59.260 52.381 0.00 0.00 0.00 3.01
2966 5099 0.035439 TGGCTGTCCTCGAAAATCCC 60.035 55.000 0.00 0.00 0.00 3.85
2972 5105 0.323629 TCCTCGAAAATCCCGCAACT 59.676 50.000 0.00 0.00 0.00 3.16
2977 5110 2.997986 TCGAAAATCCCGCAACTAGTTC 59.002 45.455 4.77 0.21 0.00 3.01
2999 5132 5.383476 TCTAACTATACAGGACAGTAGGCC 58.617 45.833 0.00 0.00 0.00 5.19
3008 5141 1.414158 GACAGTAGGCCTAGGCATGA 58.586 55.000 34.09 16.26 44.11 3.07
3009 5142 1.069358 GACAGTAGGCCTAGGCATGAC 59.931 57.143 34.09 25.76 44.11 3.06
3012 5145 2.965831 CAGTAGGCCTAGGCATGACTTA 59.034 50.000 34.09 10.12 44.11 2.24
3020 5153 5.278660 GGCCTAGGCATGACTTAATTTGATG 60.279 44.000 34.09 0.00 44.11 3.07
3021 5154 5.532406 GCCTAGGCATGACTTAATTTGATGA 59.468 40.000 29.33 0.00 41.49 2.92
3023 5156 5.841957 AGGCATGACTTAATTTGATGACC 57.158 39.130 0.00 0.00 0.00 4.02
3024 5157 4.336433 AGGCATGACTTAATTTGATGACCG 59.664 41.667 0.00 0.00 0.00 4.79
3025 5158 4.096382 GGCATGACTTAATTTGATGACCGT 59.904 41.667 0.00 0.00 0.00 4.83
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
25 26 3.246936 GGCCGTGTAATAAAAGATCGTCC 59.753 47.826 0.00 0.00 0.00 4.79
36 37 2.091533 GCTTTGCGGCCGTGTAATA 58.908 52.632 28.70 5.70 0.00 0.98
37 38 2.874751 GCTTTGCGGCCGTGTAAT 59.125 55.556 28.70 0.00 0.00 1.89
72 74 4.217159 GAATCTACCCGCCCGCGT 62.217 66.667 4.92 0.00 37.81 6.01
212 1796 1.214992 GGGTGGGGGAGGAGAAATGT 61.215 60.000 0.00 0.00 0.00 2.71
248 1836 2.038813 GGGTGGGGAATTGTGGGG 59.961 66.667 0.00 0.00 0.00 4.96
252 1840 3.087065 CGAGGGGTGGGGAATTGT 58.913 61.111 0.00 0.00 0.00 2.71
253 1841 2.440247 GCGAGGGGTGGGGAATTG 60.440 66.667 0.00 0.00 0.00 2.32
876 2970 0.333312 TGAGAGGAGGGAGGTCTGAC 59.667 60.000 0.00 0.00 0.00 3.51
885 2979 1.827789 CTCGGAGCTGAGAGGAGGG 60.828 68.421 0.00 0.00 38.28 4.30
1040 3134 0.670162 GCACTCAAACATGGCAGTGT 59.330 50.000 13.75 0.00 38.83 3.55
1083 3177 1.407656 AAGAAGTGACCACCGGCTCA 61.408 55.000 0.00 0.00 0.00 4.26
1110 3204 0.251077 AACAAGGCCAGCAGAAGAGG 60.251 55.000 5.01 0.00 0.00 3.69
1191 3285 4.828072 AGGAGTAATGTTCCCTTCAGTC 57.172 45.455 0.00 0.00 35.20 3.51
1268 3362 1.069513 TGTTAGGACTGGACACGTTGG 59.930 52.381 0.00 0.00 0.00 3.77
1507 3601 4.765856 TCTCATCCTAGTAGTAATTCGGCC 59.234 45.833 0.00 0.00 0.00 6.13
1611 3705 2.203126 CTTGGAGGATCTGGCGCC 60.203 66.667 22.73 22.73 33.73 6.53
1626 3720 1.692519 AGTGGACTTGAACTACGCCTT 59.307 47.619 0.00 0.00 0.00 4.35
1668 3762 0.039527 CAAGGGTAAGGCGTTGCAAC 60.040 55.000 19.89 19.89 0.00 4.17
1780 3874 1.065273 GCGGCTCATGATTTGGCAG 59.935 57.895 0.00 0.00 0.00 4.85
1911 4005 1.891150 CTTGAGGAACCTGCATTGCTT 59.109 47.619 10.49 0.00 29.23 3.91
1959 4053 1.349688 ACATCCAACGAACCTAAGGCA 59.650 47.619 0.00 0.00 0.00 4.75
2064 4158 1.600485 ACCGTAAAAACTGGAGCAACG 59.400 47.619 0.00 0.00 0.00 4.10
2124 4218 3.758755 TTTGATCAGACTCAGCACAGT 57.241 42.857 0.00 0.00 0.00 3.55
2127 4221 4.314121 AGACTTTTGATCAGACTCAGCAC 58.686 43.478 0.00 0.00 0.00 4.40
2136 4230 4.629200 CGGAAGAGGAAGACTTTTGATCAG 59.371 45.833 0.00 0.00 0.00 2.90
2142 4236 3.142174 CAAGCGGAAGAGGAAGACTTTT 58.858 45.455 0.00 0.00 0.00 2.27
2158 4253 6.490566 AAACAGTACCCTATTAAACAAGCG 57.509 37.500 0.00 0.00 0.00 4.68
2287 4384 7.136822 TCCCATATAGTACACATCTGCTTTT 57.863 36.000 0.00 0.00 0.00 2.27
2345 4442 4.072131 GCCATCTACAACCAAGACTCAAA 58.928 43.478 0.00 0.00 0.00 2.69
2354 4451 2.637382 TCACTTCAGCCATCTACAACCA 59.363 45.455 0.00 0.00 0.00 3.67
2444 4541 3.445096 ACTTGGCATTCATCCAGTAAAGC 59.555 43.478 0.00 0.00 34.66 3.51
2474 4571 9.970395 GCATTCATCCAATAAAATGATAACAGA 57.030 29.630 0.00 0.00 32.24 3.41
2475 4572 9.199982 GGCATTCATCCAATAAAATGATAACAG 57.800 33.333 0.00 0.00 32.24 3.16
2476 4573 8.702819 TGGCATTCATCCAATAAAATGATAACA 58.297 29.630 0.00 0.00 32.24 2.41
2477 4574 9.545105 TTGGCATTCATCCAATAAAATGATAAC 57.455 29.630 0.00 0.00 38.57 1.89
2478 4575 9.767228 CTTGGCATTCATCCAATAAAATGATAA 57.233 29.630 0.00 0.00 42.18 1.75
2479 4576 8.926374 ACTTGGCATTCATCCAATAAAATGATA 58.074 29.630 0.00 0.00 42.18 2.15
2480 4577 7.798071 ACTTGGCATTCATCCAATAAAATGAT 58.202 30.769 0.00 0.00 42.18 2.45
2481 4578 7.185318 ACTTGGCATTCATCCAATAAAATGA 57.815 32.000 0.00 0.00 42.18 2.57
2482 4579 8.819974 GTTACTTGGCATTCATCCAATAAAATG 58.180 33.333 0.00 0.00 42.18 2.32
2483 4580 7.706179 CGTTACTTGGCATTCATCCAATAAAAT 59.294 33.333 0.00 0.00 42.18 1.82
2484 4581 7.032580 CGTTACTTGGCATTCATCCAATAAAA 58.967 34.615 0.00 0.00 42.18 1.52
2485 4582 6.405286 CCGTTACTTGGCATTCATCCAATAAA 60.405 38.462 0.00 0.00 42.18 1.40
2486 4583 5.067153 CCGTTACTTGGCATTCATCCAATAA 59.933 40.000 0.00 0.00 42.18 1.40
2487 4584 4.578516 CCGTTACTTGGCATTCATCCAATA 59.421 41.667 0.00 0.00 42.18 1.90
2488 4585 3.381272 CCGTTACTTGGCATTCATCCAAT 59.619 43.478 0.00 0.00 42.18 3.16
2489 4586 2.752354 CCGTTACTTGGCATTCATCCAA 59.248 45.455 0.00 0.00 40.98 3.53
2490 4587 2.026729 TCCGTTACTTGGCATTCATCCA 60.027 45.455 0.00 0.00 0.00 3.41
2491 4588 2.354821 GTCCGTTACTTGGCATTCATCC 59.645 50.000 0.00 0.00 0.00 3.51
2492 4589 3.270877 AGTCCGTTACTTGGCATTCATC 58.729 45.455 0.00 0.00 33.35 2.92
2493 4590 3.055094 AGAGTCCGTTACTTGGCATTCAT 60.055 43.478 0.00 0.00 39.07 2.57
2494 4591 2.301870 AGAGTCCGTTACTTGGCATTCA 59.698 45.455 0.00 0.00 39.07 2.57
2495 4592 2.973945 AGAGTCCGTTACTTGGCATTC 58.026 47.619 0.00 0.00 39.07 2.67
2496 4593 3.074412 CAAGAGTCCGTTACTTGGCATT 58.926 45.455 0.00 0.00 39.07 3.56
2497 4594 2.038557 ACAAGAGTCCGTTACTTGGCAT 59.961 45.455 0.00 0.00 43.28 4.40
2498 4595 1.414919 ACAAGAGTCCGTTACTTGGCA 59.585 47.619 0.00 0.00 43.28 4.92
2499 4596 2.067013 GACAAGAGTCCGTTACTTGGC 58.933 52.381 0.00 0.00 43.28 4.52
2500 4597 2.325761 CGACAAGAGTCCGTTACTTGG 58.674 52.381 0.00 0.00 43.28 3.61
2501 4598 1.719780 GCGACAAGAGTCCGTTACTTG 59.280 52.381 0.00 0.00 41.87 3.16
2502 4599 1.612463 AGCGACAAGAGTCCGTTACTT 59.388 47.619 0.00 0.00 41.87 2.24
2503 4600 1.245732 AGCGACAAGAGTCCGTTACT 58.754 50.000 0.00 0.00 41.87 2.24
2504 4601 2.061740 AAGCGACAAGAGTCCGTTAC 57.938 50.000 0.00 0.00 41.87 2.50
2505 4602 3.921119 TTAAGCGACAAGAGTCCGTTA 57.079 42.857 0.00 0.00 41.87 3.18
2506 4603 2.806608 TTAAGCGACAAGAGTCCGTT 57.193 45.000 0.00 0.00 41.87 4.44
2507 4604 2.993899 CAATTAAGCGACAAGAGTCCGT 59.006 45.455 0.00 0.00 41.87 4.69
2508 4605 3.250744 TCAATTAAGCGACAAGAGTCCG 58.749 45.455 0.00 0.00 41.87 4.79
2509 4606 5.351465 TCATTCAATTAAGCGACAAGAGTCC 59.649 40.000 0.00 0.00 41.87 3.85
2510 4607 6.408858 TCATTCAATTAAGCGACAAGAGTC 57.591 37.500 0.00 0.00 41.46 3.36
2511 4608 6.801539 TTCATTCAATTAAGCGACAAGAGT 57.198 33.333 0.00 0.00 0.00 3.24
2512 4609 7.246311 ACATTCATTCAATTAAGCGACAAGAG 58.754 34.615 0.00 0.00 0.00 2.85
2513 4610 7.094848 TGACATTCATTCAATTAAGCGACAAGA 60.095 33.333 0.00 0.00 0.00 3.02
2514 4611 7.022979 TGACATTCATTCAATTAAGCGACAAG 58.977 34.615 0.00 0.00 0.00 3.16
2515 4612 6.907741 TGACATTCATTCAATTAAGCGACAA 58.092 32.000 0.00 0.00 0.00 3.18
2516 4613 6.493449 TGACATTCATTCAATTAAGCGACA 57.507 33.333 0.00 0.00 0.00 4.35
2517 4614 7.795431 TTTGACATTCATTCAATTAAGCGAC 57.205 32.000 0.00 0.00 33.03 5.19
2526 4623 9.246670 AGAGTCCATTATTTGACATTCATTCAA 57.753 29.630 0.00 0.00 33.89 2.69
2527 4624 8.680001 CAGAGTCCATTATTTGACATTCATTCA 58.320 33.333 0.00 0.00 33.89 2.57
2528 4625 8.680903 ACAGAGTCCATTATTTGACATTCATTC 58.319 33.333 0.00 0.00 33.89 2.67
2529 4626 8.585471 ACAGAGTCCATTATTTGACATTCATT 57.415 30.769 0.00 0.00 33.89 2.57
2530 4627 8.464404 CAACAGAGTCCATTATTTGACATTCAT 58.536 33.333 0.00 0.00 33.89 2.57
2531 4628 7.448161 ACAACAGAGTCCATTATTTGACATTCA 59.552 33.333 0.00 0.00 33.89 2.57
2532 4629 7.820648 ACAACAGAGTCCATTATTTGACATTC 58.179 34.615 0.00 0.00 33.89 2.67
2533 4630 7.361201 CGACAACAGAGTCCATTATTTGACATT 60.361 37.037 0.00 0.00 35.07 2.71
2534 4631 6.092670 CGACAACAGAGTCCATTATTTGACAT 59.907 38.462 0.00 0.00 35.07 3.06
2535 4632 5.408299 CGACAACAGAGTCCATTATTTGACA 59.592 40.000 0.00 0.00 35.07 3.58
2536 4633 5.163854 CCGACAACAGAGTCCATTATTTGAC 60.164 44.000 0.00 0.00 35.07 3.18
2537 4634 4.935205 CCGACAACAGAGTCCATTATTTGA 59.065 41.667 0.00 0.00 35.07 2.69
2538 4635 4.695455 ACCGACAACAGAGTCCATTATTTG 59.305 41.667 0.00 0.00 35.07 2.32
2539 4636 4.906618 ACCGACAACAGAGTCCATTATTT 58.093 39.130 0.00 0.00 35.07 1.40
2540 4637 4.553330 ACCGACAACAGAGTCCATTATT 57.447 40.909 0.00 0.00 35.07 1.40
2541 4638 4.553330 AACCGACAACAGAGTCCATTAT 57.447 40.909 0.00 0.00 35.07 1.28
2542 4639 4.345859 AAACCGACAACAGAGTCCATTA 57.654 40.909 0.00 0.00 35.07 1.90
2543 4640 2.930826 AACCGACAACAGAGTCCATT 57.069 45.000 0.00 0.00 35.07 3.16
2544 4641 2.930826 AAACCGACAACAGAGTCCAT 57.069 45.000 0.00 0.00 35.07 3.41
2545 4642 2.696707 AGTAAACCGACAACAGAGTCCA 59.303 45.455 0.00 0.00 35.07 4.02
2658 4756 7.871853 TGCCTTTCTTCTTTATTGTGACTTAC 58.128 34.615 0.00 0.00 0.00 2.34
2659 4757 8.635765 ATGCCTTTCTTCTTTATTGTGACTTA 57.364 30.769 0.00 0.00 0.00 2.24
2660 4758 6.959639 TGCCTTTCTTCTTTATTGTGACTT 57.040 33.333 0.00 0.00 0.00 3.01
2665 4763 8.962884 AACAAAATGCCTTTCTTCTTTATTGT 57.037 26.923 0.00 0.00 0.00 2.71
2680 4778 7.489574 TTATCACAAAAGGAAACAAAATGCC 57.510 32.000 0.00 0.00 0.00 4.40
2686 4784 9.912634 GATGAAGATTATCACAAAAGGAAACAA 57.087 29.630 0.00 0.00 30.82 2.83
2687 4785 9.300681 AGATGAAGATTATCACAAAAGGAAACA 57.699 29.630 0.00 0.00 30.82 2.83
2688 4786 9.780413 GAGATGAAGATTATCACAAAAGGAAAC 57.220 33.333 0.00 0.00 30.82 2.78
2698 4796 8.763356 GTTGAGTCATGAGATGAAGATTATCAC 58.237 37.037 0.00 0.00 41.69 3.06
2708 4806 7.777440 AGATAGTAGTGTTGAGTCATGAGATGA 59.223 37.037 0.00 0.00 36.84 2.92
2709 4807 7.939782 AGATAGTAGTGTTGAGTCATGAGATG 58.060 38.462 0.00 0.00 0.00 2.90
2710 4808 7.998383 AGAGATAGTAGTGTTGAGTCATGAGAT 59.002 37.037 0.00 0.00 0.00 2.75
2712 4810 7.416817 CAGAGATAGTAGTGTTGAGTCATGAG 58.583 42.308 0.00 0.00 0.00 2.90
2713 4811 6.183360 GCAGAGATAGTAGTGTTGAGTCATGA 60.183 42.308 0.00 0.00 0.00 3.07
2715 4813 5.890985 AGCAGAGATAGTAGTGTTGAGTCAT 59.109 40.000 0.00 0.00 0.00 3.06
2738 4836 7.621428 ACATATCAGAAACATCAACCAAGAG 57.379 36.000 0.00 0.00 0.00 2.85
2755 4853 9.594478 TCTTCTTTATTGCGACTTAACATATCA 57.406 29.630 0.00 0.00 0.00 2.15
2805 4938 8.436200 GTGTTTTGAGTCATGAGTAGATTGTAC 58.564 37.037 2.17 0.00 0.00 2.90
2806 4939 8.367911 AGTGTTTTGAGTCATGAGTAGATTGTA 58.632 33.333 2.17 0.00 0.00 2.41
2808 4941 7.360691 CCAGTGTTTTGAGTCATGAGTAGATTG 60.361 40.741 2.17 0.00 0.00 2.67
2809 4942 6.652481 CCAGTGTTTTGAGTCATGAGTAGATT 59.348 38.462 2.17 0.00 0.00 2.40
2811 4944 5.070446 ACCAGTGTTTTGAGTCATGAGTAGA 59.930 40.000 2.17 0.00 0.00 2.59
2812 4945 5.300752 ACCAGTGTTTTGAGTCATGAGTAG 58.699 41.667 2.17 0.00 0.00 2.57
2814 4947 4.156455 ACCAGTGTTTTGAGTCATGAGT 57.844 40.909 1.67 1.67 0.00 3.41
2833 4966 9.025020 CAATATACGATGCTGAACATAGATACC 57.975 37.037 0.00 0.00 39.84 2.73
2834 4967 9.025020 CCAATATACGATGCTGAACATAGATAC 57.975 37.037 0.00 0.00 39.84 2.24
2848 4981 3.009033 ACCACATCCCCCAATATACGATG 59.991 47.826 0.00 0.00 37.07 3.84
2885 5018 4.341806 GGGCAATGAATCACACCAATATCA 59.658 41.667 0.00 0.00 0.00 2.15
2892 5025 3.683365 AAAAGGGCAATGAATCACACC 57.317 42.857 0.00 0.00 0.00 4.16
2929 5062 1.203287 CCAAGACAGATCGACAGAGCA 59.797 52.381 0.00 0.00 34.73 4.26
2942 5075 0.756294 TTTCGAGGACAGCCAAGACA 59.244 50.000 0.00 0.00 36.29 3.41
2958 5091 5.642491 AGTTAGAACTAGTTGCGGGATTTTC 59.358 40.000 14.14 0.00 37.52 2.29
2962 5095 6.548622 TGTATAGTTAGAACTAGTTGCGGGAT 59.451 38.462 14.14 2.18 44.06 3.85
2964 5097 6.140303 TGTATAGTTAGAACTAGTTGCGGG 57.860 41.667 14.14 0.00 44.06 6.13
2965 5098 6.039047 TCCTGTATAGTTAGAACTAGTTGCGG 59.961 42.308 14.14 0.00 44.06 5.69
2966 5099 6.911511 GTCCTGTATAGTTAGAACTAGTTGCG 59.088 42.308 14.14 0.00 44.06 4.85
2972 5105 7.718753 GCCTACTGTCCTGTATAGTTAGAACTA 59.281 40.741 4.66 4.66 44.84 2.24
2977 5110 5.386924 AGGCCTACTGTCCTGTATAGTTAG 58.613 45.833 1.29 0.00 31.17 2.34
2999 5132 6.293081 CGGTCATCAAATTAAGTCATGCCTAG 60.293 42.308 0.00 0.00 0.00 3.02


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

AutoCloner maintained by Alex Coulton.