Multiple sequence alignment - TraesCS2D01G344400

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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 TraesCS2D01G344400 chr2D 100.000 2706 0 0 1 2706 440592764 440590059 0.000000e+00 4998
1 TraesCS2D01G344400 chr2D 93.069 101 5 2 2507 2606 440590156 440590255 2.170000e-31 147
2 TraesCS2D01G344400 chr2A 90.618 1780 65 37 662 2414 584053610 584051906 0.000000e+00 2268
3 TraesCS2D01G344400 chr2A 86.795 621 81 1 1 620 584054371 584053751 0.000000e+00 691
4 TraesCS2D01G344400 chr2A 97.973 148 2 1 2560 2706 584051744 584051597 3.460000e-64 255
5 TraesCS2D01G344400 chr2A 97.638 127 2 1 2399 2525 584051870 584051745 1.630000e-52 217
6 TraesCS2D01G344400 chr2A 73.005 426 86 22 159 576 527366946 527367350 3.660000e-24 122
7 TraesCS2D01G344400 chr2B 92.349 928 48 17 897 1810 518382717 518381799 0.000000e+00 1299
8 TraesCS2D01G344400 chr2B 90.173 692 57 7 1828 2509 518375686 518374996 0.000000e+00 891
9 TraesCS2D01G344400 chr2B 89.513 534 55 1 88 620 518383785 518383252 0.000000e+00 675
10 TraesCS2D01G344400 chr2B 88.571 105 10 1 2510 2614 97569865 97569967 2.830000e-25 126
11 TraesCS2D01G344400 chr2B 88.776 98 7 3 2510 2606 97569959 97569865 1.700000e-22 117
12 TraesCS2D01G344400 chr5B 79.298 541 94 10 85 620 272003662 272003135 1.980000e-96 363
13 TraesCS2D01G344400 chr7A 76.181 529 106 11 85 609 403359176 403358664 7.430000e-66 261
14 TraesCS2D01G344400 chr7A 87.619 105 12 1 2504 2607 202994974 202995078 1.320000e-23 121
15 TraesCS2D01G344400 chr3A 77.679 448 73 17 85 523 67117152 67116723 5.790000e-62 248
16 TraesCS2D01G344400 chr3A 74.614 453 90 19 1 448 508152011 508152443 2.770000e-40 176
17 TraesCS2D01G344400 chr3A 82.558 172 23 4 279 448 65307827 65307661 7.810000e-31 145
18 TraesCS2D01G344400 chr3A 92.405 79 6 0 2531 2609 513606681 513606603 2.200000e-21 113
19 TraesCS2D01G344400 chr5A 73.380 571 129 16 58 621 507962524 507961970 9.890000e-45 191
20 TraesCS2D01G344400 chr3D 74.138 406 82 18 60 461 386401046 386401432 2.170000e-31 147
21 TraesCS2D01G344400 chr3D 92.405 79 6 0 2531 2609 393656650 393656572 2.200000e-21 113
22 TraesCS2D01G344400 chr4D 87.255 102 11 2 2509 2609 385735099 385734999 6.120000e-22 115
23 TraesCS2D01G344400 chr4D 87.629 97 12 0 2507 2603 385734999 385735095 2.200000e-21 113


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 TraesCS2D01G344400 chr2D 440590059 440592764 2705 True 4998.00 4998 100.000 1 2706 1 chr2D.!!$R1 2705
1 TraesCS2D01G344400 chr2A 584051597 584054371 2774 True 857.75 2268 93.256 1 2706 4 chr2A.!!$R1 2705
2 TraesCS2D01G344400 chr2B 518381799 518383785 1986 True 987.00 1299 90.931 88 1810 2 chr2B.!!$R3 1722
3 TraesCS2D01G344400 chr2B 518374996 518375686 690 True 891.00 891 90.173 1828 2509 1 chr2B.!!$R2 681
4 TraesCS2D01G344400 chr5B 272003135 272003662 527 True 363.00 363 79.298 85 620 1 chr5B.!!$R1 535
5 TraesCS2D01G344400 chr7A 403358664 403359176 512 True 261.00 261 76.181 85 609 1 chr7A.!!$R1 524

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
713 836 0.034896 AAGTGTGGTCGGATGTGGTC 59.965 55.0 0.0 0.0 0.0 4.02 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2183 2491 1.002544 CCCGAGCTTCTCAAAAGGACT 59.997 52.381 0.0 0.0 0.0 3.85 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
32 33 3.081804 AGGAATCTAAAGTGGCAAACCG 58.918 45.455 0.00 0.00 39.70 4.44
42 43 1.595929 GGCAAACCGTCACCGAGAA 60.596 57.895 0.00 0.00 35.63 2.87
46 47 0.963962 AAACCGTCACCGAGAAGCTA 59.036 50.000 0.00 0.00 35.63 3.32
72 73 1.358787 TGGCCCCAACAAGATGAAGAT 59.641 47.619 0.00 0.00 0.00 2.40
80 81 7.147915 GCCCCAACAAGATGAAGATAAACAATA 60.148 37.037 0.00 0.00 0.00 1.90
105 106 5.134339 ACCCTAGCTCCCATTAATCAATTGA 59.866 40.000 11.26 11.26 0.00 2.57
137 139 1.439543 AGAAGAGCAAAGTGGAGGGT 58.560 50.000 0.00 0.00 0.00 4.34
155 157 1.674962 GGTCGGACGTACAAGCTATCT 59.325 52.381 0.00 0.00 0.00 1.98
156 158 2.286891 GGTCGGACGTACAAGCTATCTC 60.287 54.545 0.00 0.00 0.00 2.75
208 210 3.273618 ACAACTAGGAGAAGGAGAGGGAT 59.726 47.826 0.00 0.00 0.00 3.85
238 240 1.726248 GGCGTTGCAATCAAAATGTCC 59.274 47.619 0.59 0.00 33.37 4.02
247 249 1.902938 TCAAAATGTCCGCCACATGA 58.097 45.000 0.00 0.00 45.77 3.07
321 324 2.237143 TCATAGGTGTGCAAAGGGAGAG 59.763 50.000 0.00 0.00 0.00 3.20
333 336 4.401925 CAAAGGGAGAGGATGAAGTTTGT 58.598 43.478 0.00 0.00 0.00 2.83
334 337 4.731313 AAGGGAGAGGATGAAGTTTGTT 57.269 40.909 0.00 0.00 0.00 2.83
344 347 4.827284 GGATGAAGTTTGTTTGGAAGAGGA 59.173 41.667 0.00 0.00 0.00 3.71
350 353 6.983906 AGTTTGTTTGGAAGAGGATGAAAT 57.016 33.333 0.00 0.00 0.00 2.17
370 385 9.730705 ATGAAATAGAAGTTCAACATTGAGAGA 57.269 29.630 5.50 0.00 38.44 3.10
500 516 4.099266 AGAAATGGAGGAGTCGAAGATCAG 59.901 45.833 0.00 0.00 40.67 2.90
510 526 3.387374 AGTCGAAGATCAGATTGCAGGAT 59.613 43.478 0.00 0.00 40.67 3.24
561 577 6.547141 AGAAGTGGTTGATCAACATGAAGAAA 59.453 34.615 33.42 10.49 42.85 2.52
587 603 5.290158 GGATTAACGAGCGTAACAATGAAGA 59.710 40.000 0.00 0.00 0.00 2.87
623 714 8.647226 CATTCGTGTATCGCAAATCTATGATTA 58.353 33.333 0.00 0.00 39.67 1.75
645 736 9.443283 GATTAAACTGATGATGATTTGTGCTAC 57.557 33.333 0.00 0.00 0.00 3.58
647 738 5.808042 ACTGATGATGATTTGTGCTACAC 57.192 39.130 0.00 0.00 34.56 2.90
704 827 6.148811 AGGTTTACATATGAAAAGTGTGGTCG 59.851 38.462 10.38 0.00 0.00 4.79
705 828 6.311723 GTTTACATATGAAAAGTGTGGTCGG 58.688 40.000 10.38 0.00 0.00 4.79
706 829 4.280436 ACATATGAAAAGTGTGGTCGGA 57.720 40.909 10.38 0.00 0.00 4.55
707 830 4.843728 ACATATGAAAAGTGTGGTCGGAT 58.156 39.130 10.38 0.00 0.00 4.18
709 832 2.631160 TGAAAAGTGTGGTCGGATGT 57.369 45.000 0.00 0.00 0.00 3.06
711 834 1.535462 GAAAAGTGTGGTCGGATGTGG 59.465 52.381 0.00 0.00 0.00 4.17
712 835 0.472471 AAAGTGTGGTCGGATGTGGT 59.528 50.000 0.00 0.00 0.00 4.16
713 836 0.034896 AAGTGTGGTCGGATGTGGTC 59.965 55.000 0.00 0.00 0.00 4.02
714 837 1.736645 GTGTGGTCGGATGTGGTCG 60.737 63.158 0.00 0.00 0.00 4.79
715 838 2.204461 TGTGGTCGGATGTGGTCGT 61.204 57.895 0.00 0.00 0.00 4.34
716 839 1.445582 GTGGTCGGATGTGGTCGTC 60.446 63.158 0.00 0.00 0.00 4.20
717 840 1.904378 TGGTCGGATGTGGTCGTCA 60.904 57.895 0.00 0.00 0.00 4.35
718 841 1.153823 GGTCGGATGTGGTCGTCAG 60.154 63.158 0.00 0.00 0.00 3.51
719 842 1.592400 GGTCGGATGTGGTCGTCAGA 61.592 60.000 0.00 0.00 32.96 3.27
720 843 0.179161 GTCGGATGTGGTCGTCAGAG 60.179 60.000 0.00 0.00 35.26 3.35
721 844 0.608308 TCGGATGTGGTCGTCAGAGT 60.608 55.000 0.00 0.00 32.02 3.24
722 845 0.456824 CGGATGTGGTCGTCAGAGTG 60.457 60.000 0.00 0.00 0.00 3.51
736 859 2.696707 TCAGAGTGGACAACGTTTAGGT 59.303 45.455 0.00 0.00 0.00 3.08
749 872 7.485810 ACAACGTTTAGGTCTTTAAATTTGCT 58.514 30.769 0.00 0.00 29.88 3.91
795 927 3.370978 CGTCTCACATTACCCATGAACAC 59.629 47.826 0.00 0.00 36.24 3.32
829 961 3.329386 CTCGTGGTCACTTGTTGATGAT 58.671 45.455 0.00 0.00 36.32 2.45
889 1021 0.371301 CGCGATTGTGACTGGACATG 59.629 55.000 0.00 0.00 0.00 3.21
917 1202 5.242838 TGGCTAGTAATTTCCACAAGGTTTG 59.757 40.000 0.00 0.00 35.89 2.93
1100 1387 1.136984 GATGACGACGGCGAGTTCT 59.863 57.895 22.49 0.00 41.64 3.01
1509 1799 3.913573 GTCTATGTGCGCGGCGTG 61.914 66.667 24.46 17.40 0.00 5.34
1510 1800 4.429212 TCTATGTGCGCGGCGTGT 62.429 61.111 24.46 9.86 0.00 4.49
1511 1801 4.208948 CTATGTGCGCGGCGTGTG 62.209 66.667 24.46 6.94 0.00 3.82
2121 2429 5.249420 GCTAGTCCTCTGGAAACTTCAATT 58.751 41.667 0.00 0.00 31.38 2.32
2180 2488 4.020128 GGTCCTCTGGAAACAAGACACTAT 60.020 45.833 0.00 0.00 42.06 2.12
2181 2489 4.932200 GTCCTCTGGAAACAAGACACTATG 59.068 45.833 0.00 0.00 42.06 2.23
2182 2490 4.020218 TCCTCTGGAAACAAGACACTATGG 60.020 45.833 0.00 0.00 42.06 2.74
2183 2491 4.020218 CCTCTGGAAACAAGACACTATGGA 60.020 45.833 0.00 0.00 42.06 3.41
2184 2492 5.152623 TCTGGAAACAAGACACTATGGAG 57.847 43.478 0.00 0.00 42.06 3.86
2185 2493 4.593206 TCTGGAAACAAGACACTATGGAGT 59.407 41.667 0.00 0.00 42.06 3.85
2186 2494 4.894784 TGGAAACAAGACACTATGGAGTC 58.105 43.478 0.00 0.00 37.44 3.36
2187 2495 4.254492 GGAAACAAGACACTATGGAGTCC 58.746 47.826 0.73 0.73 34.38 3.85
2246 2562 4.094590 CACAATTTGCTGAGTTGCCAAAAA 59.905 37.500 0.00 0.00 0.00 1.94
2525 2899 4.561254 AATAGTACTCCCTCTGACCCAT 57.439 45.455 0.00 0.00 0.00 4.00
2526 2900 5.681494 AATAGTACTCCCTCTGACCCATA 57.319 43.478 0.00 0.00 0.00 2.74
2527 2901 3.315880 AGTACTCCCTCTGACCCATAC 57.684 52.381 0.00 0.00 0.00 2.39
2528 2902 2.860041 AGTACTCCCTCTGACCCATACT 59.140 50.000 0.00 0.00 0.00 2.12
2529 2903 4.052922 AGTACTCCCTCTGACCCATACTA 58.947 47.826 0.00 0.00 0.00 1.82
2530 2904 4.481280 AGTACTCCCTCTGACCCATACTAA 59.519 45.833 0.00 0.00 0.00 2.24
2531 2905 4.561254 ACTCCCTCTGACCCATACTAAT 57.439 45.455 0.00 0.00 0.00 1.73
2532 2906 4.897051 ACTCCCTCTGACCCATACTAATT 58.103 43.478 0.00 0.00 0.00 1.40
2533 2907 4.656112 ACTCCCTCTGACCCATACTAATTG 59.344 45.833 0.00 0.00 0.00 2.32
2534 2908 4.890988 TCCCTCTGACCCATACTAATTGA 58.109 43.478 0.00 0.00 0.00 2.57
2535 2909 4.654262 TCCCTCTGACCCATACTAATTGAC 59.346 45.833 0.00 0.00 0.00 3.18
2536 2910 4.501571 CCCTCTGACCCATACTAATTGACG 60.502 50.000 0.00 0.00 0.00 4.35
2537 2911 4.051922 CTCTGACCCATACTAATTGACGC 58.948 47.826 0.00 0.00 0.00 5.19
2538 2912 3.704566 TCTGACCCATACTAATTGACGCT 59.295 43.478 0.00 0.00 0.00 5.07
2539 2913 3.792401 TGACCCATACTAATTGACGCTG 58.208 45.455 0.00 0.00 0.00 5.18
2540 2914 2.544267 GACCCATACTAATTGACGCTGC 59.456 50.000 0.00 0.00 0.00 5.25
2541 2915 2.170607 ACCCATACTAATTGACGCTGCT 59.829 45.455 0.00 0.00 0.00 4.24
2542 2916 3.206150 CCCATACTAATTGACGCTGCTT 58.794 45.455 0.00 0.00 0.00 3.91
2543 2917 3.627577 CCCATACTAATTGACGCTGCTTT 59.372 43.478 0.00 0.00 0.00 3.51
2544 2918 4.814234 CCCATACTAATTGACGCTGCTTTA 59.186 41.667 0.00 0.00 0.00 1.85
2545 2919 5.050091 CCCATACTAATTGACGCTGCTTTAG 60.050 44.000 0.00 0.72 0.00 1.85
2546 2920 5.523916 CCATACTAATTGACGCTGCTTTAGT 59.476 40.000 0.00 6.17 37.06 2.24
2547 2921 6.700081 CCATACTAATTGACGCTGCTTTAGTA 59.300 38.462 0.00 7.93 38.80 1.82
2548 2922 7.306632 CCATACTAATTGACGCTGCTTTAGTAC 60.307 40.741 13.23 0.00 37.87 2.73
2549 2923 5.475719 ACTAATTGACGCTGCTTTAGTACA 58.524 37.500 0.00 0.00 32.78 2.90
2550 2924 5.929992 ACTAATTGACGCTGCTTTAGTACAA 59.070 36.000 0.00 0.00 32.78 2.41
2551 2925 4.663636 ATTGACGCTGCTTTAGTACAAC 57.336 40.909 0.00 0.00 0.00 3.32
2552 2926 3.380479 TGACGCTGCTTTAGTACAACT 57.620 42.857 0.00 0.00 0.00 3.16
2553 2927 3.724374 TGACGCTGCTTTAGTACAACTT 58.276 40.909 0.00 0.00 0.00 2.66
2554 2928 4.124238 TGACGCTGCTTTAGTACAACTTT 58.876 39.130 0.00 0.00 0.00 2.66
2555 2929 4.025229 TGACGCTGCTTTAGTACAACTTTG 60.025 41.667 0.00 0.00 0.00 2.77
2556 2930 3.875134 ACGCTGCTTTAGTACAACTTTGT 59.125 39.130 0.00 0.00 44.86 2.83
2557 2931 5.051816 ACGCTGCTTTAGTACAACTTTGTA 58.948 37.500 0.00 0.00 42.35 2.41
2621 2995 7.931948 CGGAGGGAGTATTAAAATTACAGTGAT 59.068 37.037 0.00 0.00 0.00 3.06
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
5 6 8.745590 GGTTTGCCACTTTAGATTCCTATTTTA 58.254 33.333 0.00 0.00 34.09 1.52
11 12 3.081804 CGGTTTGCCACTTTAGATTCCT 58.918 45.455 0.00 0.00 34.09 3.36
16 17 2.215196 GTGACGGTTTGCCACTTTAGA 58.785 47.619 0.00 0.00 34.09 2.10
18 19 1.310904 GGTGACGGTTTGCCACTTTA 58.689 50.000 0.00 0.00 34.09 1.85
51 52 1.358787 TCTTCATCTTGTTGGGGCCAT 59.641 47.619 4.39 0.00 0.00 4.40
72 73 5.987019 ATGGGAGCTAGGGTTATTGTTTA 57.013 39.130 0.00 0.00 0.00 2.01
80 81 5.669798 ATTGATTAATGGGAGCTAGGGTT 57.330 39.130 0.00 0.00 0.00 4.11
105 106 8.295288 CACTTTGCTCTTCTTTGTCATCTAATT 58.705 33.333 0.00 0.00 0.00 1.40
137 139 1.596260 CGAGATAGCTTGTACGTCCGA 59.404 52.381 0.00 0.00 0.00 4.55
155 157 1.864711 CTGTCCGTTTCTCTTTTGCGA 59.135 47.619 0.00 0.00 0.00 5.10
156 158 1.864711 TCTGTCCGTTTCTCTTTTGCG 59.135 47.619 0.00 0.00 0.00 4.85
170 172 5.814705 CCTAGTTGTTTCTCATCATCTGTCC 59.185 44.000 0.00 0.00 0.00 4.02
265 268 3.336997 TCTCCTCCTTCTTCACCTCCTTA 59.663 47.826 0.00 0.00 0.00 2.69
321 324 4.827284 TCCTCTTCCAAACAAACTTCATCC 59.173 41.667 0.00 0.00 0.00 3.51
333 336 8.163408 TGAACTTCTATTTCATCCTCTTCCAAA 58.837 33.333 0.00 0.00 0.00 3.28
334 337 7.689299 TGAACTTCTATTTCATCCTCTTCCAA 58.311 34.615 0.00 0.00 0.00 3.53
344 347 9.730705 TCTCTCAATGTTGAACTTCTATTTCAT 57.269 29.630 0.00 0.00 36.64 2.57
350 353 7.767250 TCTCTCTCTCAATGTTGAACTTCTA 57.233 36.000 0.00 0.00 36.64 2.10
370 385 9.315363 TCTTACTTCTCCAAGTCTATTTTCTCT 57.685 33.333 0.00 0.00 42.27 3.10
424 440 1.825090 ATTCCTTGCAATGTCGCAGA 58.175 45.000 0.00 0.00 44.14 4.26
426 442 1.885233 TCAATTCCTTGCAATGTCGCA 59.115 42.857 0.00 0.00 41.03 5.10
463 479 2.928757 CCATTTCTCTCGCAAGTCTCAG 59.071 50.000 0.00 0.00 39.48 3.35
500 516 4.884164 ACAAAAGGCTAGTATCCTGCAATC 59.116 41.667 0.00 0.00 33.43 2.67
510 526 6.049149 GTCTGCATCATACAAAAGGCTAGTA 58.951 40.000 0.00 0.00 0.00 1.82
519 535 5.181811 CCACTTCTTGTCTGCATCATACAAA 59.818 40.000 0.00 0.00 31.86 2.83
523 539 4.558226 ACCACTTCTTGTCTGCATCATA 57.442 40.909 0.00 0.00 0.00 2.15
561 577 5.172934 TCATTGTTACGCTCGTTAATCCTT 58.827 37.500 0.00 0.00 0.00 3.36
587 603 3.242944 CGATACACGAATGAATCAAGCGT 59.757 43.478 7.72 7.72 45.77 5.07
590 606 4.777140 TGCGATACACGAATGAATCAAG 57.223 40.909 0.00 0.00 45.77 3.02
623 714 6.207221 TGTGTAGCACAAATCATCATCAGTTT 59.793 34.615 0.00 0.00 41.69 2.66
704 827 0.108615 CCACTCTGACGACCACATCC 60.109 60.000 0.00 0.00 0.00 3.51
705 828 0.888619 TCCACTCTGACGACCACATC 59.111 55.000 0.00 0.00 0.00 3.06
706 829 0.603569 GTCCACTCTGACGACCACAT 59.396 55.000 0.00 0.00 0.00 3.21
707 830 0.753848 TGTCCACTCTGACGACCACA 60.754 55.000 0.00 0.00 38.11 4.17
709 832 0.387929 GTTGTCCACTCTGACGACCA 59.612 55.000 0.00 0.00 41.76 4.02
711 834 0.030369 ACGTTGTCCACTCTGACGAC 59.970 55.000 0.94 0.00 43.38 4.34
712 835 0.742505 AACGTTGTCCACTCTGACGA 59.257 50.000 0.00 0.00 38.11 4.20
713 836 1.567504 AAACGTTGTCCACTCTGACG 58.432 50.000 0.00 0.00 38.11 4.35
714 837 3.057734 CCTAAACGTTGTCCACTCTGAC 58.942 50.000 0.00 0.00 35.77 3.51
715 838 2.696707 ACCTAAACGTTGTCCACTCTGA 59.303 45.455 0.00 0.00 0.00 3.27
716 839 3.057734 GACCTAAACGTTGTCCACTCTG 58.942 50.000 0.00 0.00 0.00 3.35
717 840 2.963782 AGACCTAAACGTTGTCCACTCT 59.036 45.455 0.00 0.00 0.00 3.24
718 841 3.382048 AGACCTAAACGTTGTCCACTC 57.618 47.619 0.00 0.00 0.00 3.51
719 842 3.832615 AAGACCTAAACGTTGTCCACT 57.167 42.857 0.00 0.00 0.00 4.00
720 843 5.989551 TTAAAGACCTAAACGTTGTCCAC 57.010 39.130 0.00 0.00 0.00 4.02
721 844 7.571080 AATTTAAAGACCTAAACGTTGTCCA 57.429 32.000 0.00 0.00 0.00 4.02
722 845 7.096353 GCAAATTTAAAGACCTAAACGTTGTCC 60.096 37.037 0.00 0.00 29.73 4.02
736 859 6.825610 ACAACCCATTCAGCAAATTTAAAGA 58.174 32.000 0.00 0.00 0.00 2.52
805 937 1.227853 AACAAGTGACCACGAGCCC 60.228 57.895 0.00 0.00 36.20 5.19
829 961 6.975772 CCGTTTCTTGGAAATAACACTTGAAA 59.024 34.615 0.00 0.00 0.00 2.69
867 999 2.027073 TCCAGTCACAATCGCGCAC 61.027 57.895 8.75 0.00 0.00 5.34
889 1021 6.156519 CCTTGTGGAAATTACTAGCCAAAAC 58.843 40.000 0.00 0.00 34.57 2.43
917 1202 3.546616 GGCAACAGCTTGTTTTGAAATGC 60.547 43.478 0.00 0.00 38.77 3.56
930 1215 2.203538 CTTGTGGGGGCAACAGCT 60.204 61.111 0.00 0.00 39.74 4.24
983 1270 5.920273 CCAATAATGCAACGAATAATCCACC 59.080 40.000 0.00 0.00 0.00 4.61
1075 1362 2.485582 CCGTCGTCATCAGCGTCT 59.514 61.111 0.00 0.00 0.00 4.18
1754 2060 8.701908 ATATGTAGTAACGTGGAATAGAGGAA 57.298 34.615 0.00 0.00 0.00 3.36
1873 2179 1.256812 GGAGGGCAAGCAAAAGCTTA 58.743 50.000 0.00 0.00 0.00 3.09
1921 2227 5.814764 AATATCAGCAGCTGAACTTGAAG 57.185 39.130 28.78 0.00 44.04 3.02
1922 2228 5.474532 ACAAATATCAGCAGCTGAACTTGAA 59.525 36.000 31.59 16.83 44.04 2.69
1924 2230 5.306532 ACAAATATCAGCAGCTGAACTTG 57.693 39.130 28.78 27.79 44.04 3.16
1991 2299 4.156190 CAGGAATAATGATCATGGCAGAGC 59.844 45.833 9.46 0.00 0.00 4.09
2180 2488 2.289072 CGAGCTTCTCAAAAGGACTCCA 60.289 50.000 0.00 0.00 0.00 3.86
2181 2489 2.342179 CGAGCTTCTCAAAAGGACTCC 58.658 52.381 0.00 0.00 0.00 3.85
2182 2490 2.342179 CCGAGCTTCTCAAAAGGACTC 58.658 52.381 0.00 0.00 0.00 3.36
2183 2491 1.002544 CCCGAGCTTCTCAAAAGGACT 59.997 52.381 0.00 0.00 0.00 3.85
2184 2492 1.270893 ACCCGAGCTTCTCAAAAGGAC 60.271 52.381 0.00 0.00 0.00 3.85
2185 2493 1.056660 ACCCGAGCTTCTCAAAAGGA 58.943 50.000 0.00 0.00 0.00 3.36
2186 2494 1.897560 AACCCGAGCTTCTCAAAAGG 58.102 50.000 0.00 0.00 0.00 3.11
2187 2495 4.455877 ACATAAACCCGAGCTTCTCAAAAG 59.544 41.667 0.00 0.00 0.00 2.27
2348 2667 6.640907 GCAGGATTACAAAACAAACCTAGTTG 59.359 38.462 0.00 0.00 34.52 3.16
2525 2899 6.623486 TGTACTAAAGCAGCGTCAATTAGTA 58.377 36.000 10.87 10.87 37.78 1.82
2526 2900 5.475719 TGTACTAAAGCAGCGTCAATTAGT 58.524 37.500 12.19 12.19 39.43 2.24
2527 2901 6.090898 AGTTGTACTAAAGCAGCGTCAATTAG 59.909 38.462 0.00 0.00 0.00 1.73
2528 2902 5.929992 AGTTGTACTAAAGCAGCGTCAATTA 59.070 36.000 0.00 0.00 0.00 1.40
2529 2903 4.755123 AGTTGTACTAAAGCAGCGTCAATT 59.245 37.500 0.00 0.00 0.00 2.32
2530 2904 4.315803 AGTTGTACTAAAGCAGCGTCAAT 58.684 39.130 0.00 0.00 0.00 2.57
2531 2905 3.724374 AGTTGTACTAAAGCAGCGTCAA 58.276 40.909 0.00 0.00 0.00 3.18
2532 2906 3.380479 AGTTGTACTAAAGCAGCGTCA 57.620 42.857 0.00 0.00 0.00 4.35
2533 2907 4.025145 ACAAAGTTGTACTAAAGCAGCGTC 60.025 41.667 0.00 0.00 40.16 5.19
2534 2908 3.875134 ACAAAGTTGTACTAAAGCAGCGT 59.125 39.130 0.00 0.00 40.16 5.07
2535 2909 4.468095 ACAAAGTTGTACTAAAGCAGCG 57.532 40.909 0.00 0.00 40.16 5.18
2554 2928 5.237779 GCTGCTTTAGTACAACTTTGGTACA 59.762 40.000 0.00 0.00 42.73 2.90
2555 2929 5.614013 CGCTGCTTTAGTACAACTTTGGTAC 60.614 44.000 0.00 0.00 41.05 3.34
2556 2930 4.449743 CGCTGCTTTAGTACAACTTTGGTA 59.550 41.667 0.00 0.00 0.00 3.25
2557 2931 3.250040 CGCTGCTTTAGTACAACTTTGGT 59.750 43.478 0.00 0.00 0.00 3.67
2558 2932 3.250040 ACGCTGCTTTAGTACAACTTTGG 59.750 43.478 0.00 0.00 0.00 3.28
2621 2995 5.300792 CCCAAAAGAAGCTACAGTAAAACCA 59.699 40.000 0.00 0.00 0.00 3.67


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

AutoCloner maintained by Alex Coulton.