Multiple sequence alignment - TraesCS3B01G507800

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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 TraesCS3B01G507800 chr3B 100.000 3182 0 0 1 3182 751750416 751753597 0.000000e+00 5877.0
1 TraesCS3B01G507800 chr3B 83.414 826 119 14 1605 2419 751913739 751914557 0.000000e+00 750.0
2 TraesCS3B01G507800 chr3B 82.225 872 125 14 1086 1947 751760815 751761666 0.000000e+00 725.0
3 TraesCS3B01G507800 chr3B 89.339 469 17 11 734 1195 751839712 751840154 2.770000e-155 558.0
4 TraesCS3B01G507800 chr3B 93.902 82 3 2 636 716 751839286 751839366 4.310000e-24 122.0
5 TraesCS3B01G507800 chr3A 93.140 1720 101 8 997 2710 698710566 698712274 0.000000e+00 2507.0
6 TraesCS3B01G507800 chr3A 84.529 1687 192 35 777 2419 698732976 698734637 0.000000e+00 1605.0
7 TraesCS3B01G507800 chr3A 82.869 502 45 15 133 632 698731094 698731556 2.280000e-111 412.0
8 TraesCS3B01G507800 chr3A 89.796 196 17 3 2758 2953 698714169 698714361 6.820000e-62 248.0
9 TraesCS3B01G507800 chr3A 78.457 311 48 15 2556 2858 698734703 698735002 5.420000e-43 185.0
10 TraesCS3B01G507800 chr3A 92.771 83 5 1 636 717 698732873 698732955 5.580000e-23 119.0
11 TraesCS3B01G507800 chr3A 74.725 273 57 11 1919 2185 699516663 699516397 9.330000e-21 111.0
12 TraesCS3B01G507800 chr3A 100.000 28 0 0 3155 3182 698714438 698714465 6.000000e-03 52.8
13 TraesCS3B01G507800 chr3D 90.463 1489 108 13 997 2482 564128413 564129870 0.000000e+00 1932.0
14 TraesCS3B01G507800 chr3D 85.212 1792 208 31 639 2419 564144002 564145747 0.000000e+00 1788.0
15 TraesCS3B01G507800 chr3D 93.953 645 28 8 1 639 564134634 564135273 0.000000e+00 965.0
16 TraesCS3B01G507800 chr3D 91.278 493 39 3 2464 2953 564129890 564130381 0.000000e+00 669.0
17 TraesCS3B01G507800 chr3D 84.896 384 53 4 1062 1444 564889761 564890140 1.790000e-102 383.0
18 TraesCS3B01G507800 chr3D 81.481 378 58 9 1068 1442 568009042 568009410 1.860000e-77 300.0
19 TraesCS3B01G507800 chr3D 79.310 377 68 7 1068 1442 566549728 566550096 4.070000e-64 255.0
20 TraesCS3B01G507800 chr3D 81.333 300 43 13 2560 2858 564145813 564146100 6.860000e-57 231.0
21 TraesCS3B01G507800 chr3D 86.207 145 12 4 3046 3182 564130380 564130524 1.980000e-32 150.0
22 TraesCS3B01G507800 chr3D 74.247 299 70 7 1919 2214 564908932 564908638 5.580000e-23 119.0
23 TraesCS3B01G507800 chr3D 72.848 302 74 7 1922 2218 565070915 565070617 2.610000e-16 97.1
24 TraesCS3B01G507800 chr3D 100.000 28 0 0 2951 2978 395057452 395057479 6.000000e-03 52.8
25 TraesCS3B01G507800 chr7A 91.971 137 8 1 2118 2254 701166250 701166117 4.190000e-44 189.0
26 TraesCS3B01G507800 chr7D 77.729 229 36 9 379 598 132747022 132746800 3.330000e-25 126.0
27 TraesCS3B01G507800 chr7D 94.286 35 2 0 2950 2984 295855510 295855476 2.000000e-03 54.7
28 TraesCS3B01G507800 chr5D 87.000 100 11 1 2952 3051 330393611 330393514 9.330000e-21 111.0
29 TraesCS3B01G507800 chr5D 84.545 110 15 2 271 379 322192982 322192874 1.210000e-19 108.0
30 TraesCS3B01G507800 chr5D 90.909 44 3 1 3012 3054 361674388 361674431 1.230000e-04 58.4
31 TraesCS3B01G507800 chr5B 87.000 100 11 1 2952 3051 383513028 383512931 9.330000e-21 111.0
32 TraesCS3B01G507800 chr5B 86.000 100 12 1 2952 3051 386392009 386391912 4.340000e-19 106.0
33 TraesCS3B01G507800 chr5A 83.654 104 11 3 2952 3051 426531315 426531416 3.380000e-15 93.5
34 TraesCS3B01G507800 chr5A 91.304 46 3 1 2951 2995 509339158 509339113 9.530000e-06 62.1
35 TraesCS3B01G507800 chr1B 94.286 35 2 0 3021 3055 386268754 386268788 2.000000e-03 54.7


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 TraesCS3B01G507800 chr3B 751750416 751753597 3181 False 5877.000000 5877 100.0000 1 3182 1 chr3B.!!$F1 3181
1 TraesCS3B01G507800 chr3B 751913739 751914557 818 False 750.000000 750 83.4140 1605 2419 1 chr3B.!!$F3 814
2 TraesCS3B01G507800 chr3B 751760815 751761666 851 False 725.000000 725 82.2250 1086 1947 1 chr3B.!!$F2 861
3 TraesCS3B01G507800 chr3B 751839286 751840154 868 False 340.000000 558 91.6205 636 1195 2 chr3B.!!$F4 559
4 TraesCS3B01G507800 chr3A 698710566 698714465 3899 False 935.933333 2507 94.3120 997 3182 3 chr3A.!!$F1 2185
5 TraesCS3B01G507800 chr3A 698731094 698735002 3908 False 580.250000 1605 84.6565 133 2858 4 chr3A.!!$F2 2725
6 TraesCS3B01G507800 chr3D 564144002 564146100 2098 False 1009.500000 1788 83.2725 639 2858 2 chr3D.!!$F7 2219
7 TraesCS3B01G507800 chr3D 564134634 564135273 639 False 965.000000 965 93.9530 1 639 1 chr3D.!!$F2 638
8 TraesCS3B01G507800 chr3D 564128413 564130524 2111 False 917.000000 1932 89.3160 997 3182 3 chr3D.!!$F6 2185

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
198 200 0.109039 GTGCGGTTGGTGTTGTTTGT 60.109 50.0 0.0 0.0 0.0 2.83 F
1383 3071 0.588252 CCACTGTCAACGGCTTCTTG 59.412 55.0 0.0 0.0 0.0 3.02 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1857 3551 0.530650 CCGTTGGATCCACGATGAGG 60.531 60.0 27.55 16.14 0.00 3.86 R
2428 4134 0.700564 TGCAAGGGAAGAGGCAAGAT 59.299 50.0 0.00 0.00 32.54 2.40 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
114 116 9.982651 TCTTATAACATGTAGGAAATAGCTCAC 57.017 33.333 0.00 0.00 0.00 3.51
128 130 7.396540 AAATAGCTCACAGGAAAAACCATAG 57.603 36.000 0.00 0.00 42.04 2.23
198 200 0.109039 GTGCGGTTGGTGTTGTTTGT 60.109 50.000 0.00 0.00 0.00 2.83
206 208 5.751028 CGGTTGGTGTTGTTTGTATTTCATT 59.249 36.000 0.00 0.00 0.00 2.57
207 209 6.918569 CGGTTGGTGTTGTTTGTATTTCATTA 59.081 34.615 0.00 0.00 0.00 1.90
208 210 7.596995 CGGTTGGTGTTGTTTGTATTTCATTAT 59.403 33.333 0.00 0.00 0.00 1.28
209 211 9.267084 GGTTGGTGTTGTTTGTATTTCATTATT 57.733 29.630 0.00 0.00 0.00 1.40
291 293 3.804036 TGACCAGTCAAAATCGTGAACT 58.196 40.909 0.00 0.00 36.53 3.01
504 509 7.954835 TGAGAAATCATTGGTCAGTCAAAATT 58.045 30.769 0.00 0.00 0.00 1.82
505 510 7.868922 TGAGAAATCATTGGTCAGTCAAAATTG 59.131 33.333 0.00 0.00 0.00 2.32
508 513 8.816640 AAATCATTGGTCAGTCAAAATTGTAC 57.183 30.769 0.00 0.00 0.00 2.90
555 560 4.464597 ACTTGAACGAGAGAGCTCCTTAAT 59.535 41.667 10.93 0.00 37.91 1.40
556 561 5.046950 ACTTGAACGAGAGAGCTCCTTAATT 60.047 40.000 10.93 0.00 37.91 1.40
559 566 6.231211 TGAACGAGAGAGCTCCTTAATTTTT 58.769 36.000 10.93 0.00 37.91 1.94
626 633 5.241403 TCAACTGAATTAGAGGCCTTCAA 57.759 39.130 6.77 4.27 0.00 2.69
632 639 4.080526 TGAATTAGAGGCCTTCAACCCTAC 60.081 45.833 6.77 0.00 0.00 3.18
642 1962 2.953466 TCAACCCTACGATCTTTCCG 57.047 50.000 0.00 0.00 0.00 4.30
646 1966 2.299521 ACCCTACGATCTTTCCGAGAG 58.700 52.381 0.00 0.00 37.93 3.20
660 1980 3.861840 TCCGAGAGAAATCCACACATTC 58.138 45.455 0.00 0.00 0.00 2.67
661 1981 3.260632 TCCGAGAGAAATCCACACATTCA 59.739 43.478 0.00 0.00 0.00 2.57
662 1983 3.372206 CCGAGAGAAATCCACACATTCAC 59.628 47.826 0.00 0.00 0.00 3.18
727 2048 6.663093 AGCCCATTAGAAATGTACACAATTCA 59.337 34.615 16.00 2.25 38.03 2.57
783 2432 2.092323 CTCTCCGAAACATTTTCCCCC 58.908 52.381 0.00 0.00 0.00 5.40
978 2655 4.787286 TGTACGGCGGCATTGGGG 62.787 66.667 13.24 0.00 0.00 4.96
979 2656 4.789123 GTACGGCGGCATTGGGGT 62.789 66.667 13.24 0.00 0.00 4.95
1302 2990 1.959226 CCGGGTCTTGGTCAACACG 60.959 63.158 0.00 0.00 41.85 4.49
1309 2997 3.345607 TTGGTCAACACGGCCACCA 62.346 57.895 6.28 6.28 37.13 4.17
1383 3071 0.588252 CCACTGTCAACGGCTTCTTG 59.412 55.000 0.00 0.00 0.00 3.02
1391 3079 1.415672 AACGGCTTCTTGGTCCTGGA 61.416 55.000 0.00 0.00 0.00 3.86
1458 3146 1.001745 GCGCCGTGGTCATTTTCAAC 61.002 55.000 0.00 0.00 0.00 3.18
1602 3290 1.227943 CATCGCCGGGGACATCAAT 60.228 57.895 25.09 3.42 0.00 2.57
1668 3356 2.677524 TCCAATGGTGCTGGCTGC 60.678 61.111 9.67 9.67 43.25 5.25
1733 3421 2.440539 TTGTCGGAGAAGCTTCAGAC 57.559 50.000 27.57 27.75 39.69 3.51
1778 3472 1.001974 CGACCCTCTTGGACATCACAA 59.998 52.381 0.00 0.00 38.00 3.33
1798 3492 1.986698 CGACGTCCGTTGTTTCCTAT 58.013 50.000 10.58 0.00 0.00 2.57
1849 3543 2.176369 CAATGGCATTAGAACGCGTTG 58.824 47.619 31.89 16.85 0.00 4.10
1850 3544 1.448985 ATGGCATTAGAACGCGTTGT 58.551 45.000 31.89 28.37 0.00 3.32
1851 3545 1.231221 TGGCATTAGAACGCGTTGTT 58.769 45.000 31.89 19.31 45.61 2.83
1861 3555 2.970324 GCGTTGTTGCGGTCCTCA 60.970 61.111 0.00 0.00 0.00 3.86
1862 3556 2.325082 GCGTTGTTGCGGTCCTCAT 61.325 57.895 0.00 0.00 0.00 2.90
1864 3558 1.787847 GTTGTTGCGGTCCTCATCG 59.212 57.895 0.00 0.00 0.00 3.84
1869 3563 1.613317 TTGCGGTCCTCATCGTGGAT 61.613 55.000 0.00 0.00 35.87 3.41
1914 3608 2.099652 CTGTGAAGACCGTGGGCAGA 62.100 60.000 0.00 0.00 0.00 4.26
1930 3624 2.759191 GCAGATACGCCATCTTCATCA 58.241 47.619 0.00 0.00 41.49 3.07
2103 3797 0.976641 TCGTCAAGGAGGACAAGCAT 59.023 50.000 0.00 0.00 37.66 3.79
2179 3873 2.026822 ACCATCAACCTCAGCGATTCTT 60.027 45.455 0.00 0.00 0.00 2.52
2280 3983 3.068590 CAGGTCTTTTGTGTTGCCTTGAT 59.931 43.478 0.00 0.00 0.00 2.57
2428 4134 6.322201 TGATGCTATCTATTGTCTCTGTGTGA 59.678 38.462 0.00 0.00 0.00 3.58
2458 4164 5.099042 TCTTCCCTTGCATTAGTACTTCC 57.901 43.478 0.00 0.00 0.00 3.46
2520 4264 4.558697 GCTCAATTTTAGCCCGTTTTCTGT 60.559 41.667 0.00 0.00 33.73 3.41
2541 4285 2.062519 GTTCTCGCTCTGTTGTTCTCC 58.937 52.381 0.00 0.00 0.00 3.71
2713 4468 4.717233 ACTTGCTTTTGTGACACAATGA 57.283 36.364 21.19 12.21 38.00 2.57
2782 6419 4.995124 AGAGCTTAAGATTTAAGACGCGA 58.005 39.130 15.93 0.00 0.00 5.87
2791 6428 6.526566 AGATTTAAGACGCGATTTGGATAC 57.473 37.500 15.93 0.00 0.00 2.24
2830 6469 4.990426 GGCACAATATTGAGTTGCTGTTTT 59.010 37.500 22.16 0.00 0.00 2.43
2831 6470 5.119125 GGCACAATATTGAGTTGCTGTTTTC 59.881 40.000 22.16 4.40 0.00 2.29
2840 6479 3.620488 AGTTGCTGTTTTCAAGACAGGA 58.380 40.909 9.98 4.16 43.63 3.86
2850 6489 8.099364 TGTTTTCAAGACAGGATTTGTAGATC 57.901 34.615 0.00 0.00 41.05 2.75
2859 6498 6.352516 ACAGGATTTGTAGATCCAGATGTTC 58.647 40.000 6.67 0.00 46.61 3.18
2913 6552 3.573967 AGTTATCAGGTGTTTTGCCTTGG 59.426 43.478 0.00 0.00 33.31 3.61
2934 6573 2.159114 GCTTGTTCCAGGCAAGAAACAA 60.159 45.455 10.26 7.02 44.29 2.83
2935 6574 3.493176 GCTTGTTCCAGGCAAGAAACAAT 60.493 43.478 10.26 0.00 44.29 2.71
2939 6578 3.749665 TCCAGGCAAGAAACAATTTGG 57.250 42.857 0.78 0.00 0.00 3.28
2944 6583 4.519540 GGCAAGAAACAATTTGGCTCTA 57.480 40.909 0.78 0.00 43.94 2.43
2946 6585 4.488879 GCAAGAAACAATTTGGCTCTAGG 58.511 43.478 0.78 0.83 0.00 3.02
2951 6590 4.917906 AACAATTTGGCTCTAGGAGTCT 57.082 40.909 0.78 0.00 35.05 3.24
2952 6591 6.213600 AGAAACAATTTGGCTCTAGGAGTCTA 59.786 38.462 0.78 0.00 35.05 2.59
2953 6592 5.346181 ACAATTTGGCTCTAGGAGTCTAC 57.654 43.478 0.78 0.00 35.05 2.59
2954 6593 5.026790 ACAATTTGGCTCTAGGAGTCTACT 58.973 41.667 0.78 0.00 35.05 2.57
2955 6594 5.128008 ACAATTTGGCTCTAGGAGTCTACTC 59.872 44.000 1.30 1.30 42.14 2.59
2965 6604 2.061509 GAGTCTACTCCCTCTGTCCC 57.938 60.000 0.00 0.00 37.02 4.46
2966 6605 1.285373 GAGTCTACTCCCTCTGTCCCA 59.715 57.143 0.00 0.00 37.02 4.37
2967 6606 1.933765 AGTCTACTCCCTCTGTCCCAT 59.066 52.381 0.00 0.00 0.00 4.00
2968 6607 3.132056 AGTCTACTCCCTCTGTCCCATA 58.868 50.000 0.00 0.00 0.00 2.74
2969 6608 3.532232 AGTCTACTCCCTCTGTCCCATAA 59.468 47.826 0.00 0.00 0.00 1.90
2970 6609 4.171044 AGTCTACTCCCTCTGTCCCATAAT 59.829 45.833 0.00 0.00 0.00 1.28
2971 6610 4.282195 GTCTACTCCCTCTGTCCCATAATG 59.718 50.000 0.00 0.00 0.00 1.90
2972 6611 1.771255 ACTCCCTCTGTCCCATAATGC 59.229 52.381 0.00 0.00 0.00 3.56
2973 6612 1.770658 CTCCCTCTGTCCCATAATGCA 59.229 52.381 0.00 0.00 0.00 3.96
2974 6613 2.173356 CTCCCTCTGTCCCATAATGCAA 59.827 50.000 0.00 0.00 0.00 4.08
2975 6614 2.173356 TCCCTCTGTCCCATAATGCAAG 59.827 50.000 0.00 0.00 0.00 4.01
2976 6615 2.173356 CCCTCTGTCCCATAATGCAAGA 59.827 50.000 0.00 0.00 0.00 3.02
2977 6616 3.209410 CCTCTGTCCCATAATGCAAGAC 58.791 50.000 0.00 0.00 0.00 3.01
2978 6617 3.209410 CTCTGTCCCATAATGCAAGACC 58.791 50.000 0.00 0.00 0.00 3.85
2979 6618 2.846206 TCTGTCCCATAATGCAAGACCT 59.154 45.455 0.00 0.00 0.00 3.85
2980 6619 3.266772 TCTGTCCCATAATGCAAGACCTT 59.733 43.478 0.00 0.00 0.00 3.50
2981 6620 4.473196 TCTGTCCCATAATGCAAGACCTTA 59.527 41.667 0.00 0.00 0.00 2.69
2982 6621 5.132648 TCTGTCCCATAATGCAAGACCTTAT 59.867 40.000 0.00 0.00 0.00 1.73
2983 6622 5.765510 TGTCCCATAATGCAAGACCTTATT 58.234 37.500 0.00 0.00 0.00 1.40
2984 6623 6.905736 TGTCCCATAATGCAAGACCTTATTA 58.094 36.000 0.00 0.00 0.00 0.98
2985 6624 6.770785 TGTCCCATAATGCAAGACCTTATTAC 59.229 38.462 0.00 0.00 0.00 1.89
2986 6625 6.770785 GTCCCATAATGCAAGACCTTATTACA 59.229 38.462 0.00 0.00 0.00 2.41
2987 6626 7.448469 GTCCCATAATGCAAGACCTTATTACAT 59.552 37.037 0.00 0.00 0.00 2.29
2988 6627 8.004215 TCCCATAATGCAAGACCTTATTACATT 58.996 33.333 0.00 0.00 0.00 2.71
2989 6628 8.641541 CCCATAATGCAAGACCTTATTACATTT 58.358 33.333 0.00 0.00 0.00 2.32
3038 6677 9.804758 GTAATAAGATCTTCTATTATGGGACGG 57.195 37.037 12.24 0.00 0.00 4.79
3039 6678 8.666129 AATAAGATCTTCTATTATGGGACGGA 57.334 34.615 12.24 0.00 0.00 4.69
3040 6679 6.597832 AAGATCTTCTATTATGGGACGGAG 57.402 41.667 0.88 0.00 0.00 4.63
3041 6680 5.020132 AGATCTTCTATTATGGGACGGAGG 58.980 45.833 0.00 0.00 0.00 4.30
3042 6681 4.464652 TCTTCTATTATGGGACGGAGGA 57.535 45.455 0.00 0.00 0.00 3.71
3043 6682 4.811498 TCTTCTATTATGGGACGGAGGAA 58.189 43.478 0.00 0.00 0.00 3.36
3044 6683 4.833380 TCTTCTATTATGGGACGGAGGAAG 59.167 45.833 0.00 0.00 0.00 3.46
3061 6700 5.211174 AGGAAGTAGTTTATATCACCGGC 57.789 43.478 0.00 0.00 0.00 6.13
3074 6713 2.212110 ACCGGCGGTGGAACTACTT 61.212 57.895 33.71 0.51 36.74 2.24
3075 6714 1.447314 CCGGCGGTGGAACTACTTC 60.447 63.158 19.97 0.00 36.74 3.01
3079 6718 1.270678 GGCGGTGGAACTACTTCAAGT 60.271 52.381 0.00 0.00 36.74 3.16
3138 6785 7.173907 GCTACATCTACCATGTTTGATGCTATT 59.826 37.037 13.14 0.00 39.68 1.73
3143 6790 5.999205 ACCATGTTTGATGCTATTTTCCA 57.001 34.783 0.00 0.00 0.00 3.53
3151 6798 6.839124 TTGATGCTATTTTCCATCTGTGTT 57.161 33.333 0.00 0.00 38.84 3.32
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
3 4 4.808364 CGGACATTGTGGTGAAATTTGTTT 59.192 37.500 0.00 0.00 0.00 2.83
12 14 0.464554 TGTTGCGGACATTGTGGTGA 60.465 50.000 0.00 0.00 32.00 4.02
112 114 6.264518 ACAACTAACCTATGGTTTTTCCTGTG 59.735 38.462 7.32 0.92 44.33 3.66
114 116 6.894339 ACAACTAACCTATGGTTTTTCCTG 57.106 37.500 7.32 2.35 44.33 3.86
240 242 7.502226 TCACCTGATAAGAAAACACACTTCATT 59.498 33.333 0.00 0.00 0.00 2.57
376 381 4.821260 TGCAACACTATAGCACCAATATGG 59.179 41.667 0.00 0.00 45.02 2.74
559 566 8.590204 GGGATCCTAATTTTTGACTTGGTAAAA 58.410 33.333 12.58 0.00 0.00 1.52
626 633 2.092538 TCTCTCGGAAAGATCGTAGGGT 60.093 50.000 0.00 0.00 32.19 4.34
632 639 3.799420 GTGGATTTCTCTCGGAAAGATCG 59.201 47.826 0.00 0.00 45.61 3.69
642 1962 5.947228 TTGTGAATGTGTGGATTTCTCTC 57.053 39.130 0.00 0.00 0.00 3.20
646 1966 7.099266 TGGATATTGTGAATGTGTGGATTTC 57.901 36.000 0.00 0.00 0.00 2.17
660 1980 5.047802 GGATTGTAATGGGCTGGATATTGTG 60.048 44.000 0.00 0.00 0.00 3.33
661 1981 5.079643 GGATTGTAATGGGCTGGATATTGT 58.920 41.667 0.00 0.00 0.00 2.71
662 1983 5.078949 TGGATTGTAATGGGCTGGATATTG 58.921 41.667 0.00 0.00 0.00 1.90
783 2432 0.108774 GCTAGGGATTCCGGGGAAAG 59.891 60.000 0.00 0.00 37.69 2.62
978 2655 1.462670 GACTCAGCTAGCTGCAAACAC 59.537 52.381 35.21 19.69 45.94 3.32
979 2656 1.800805 GACTCAGCTAGCTGCAAACA 58.199 50.000 35.21 19.45 45.94 2.83
1018 2705 0.899720 AAAGGCGTCGGAACCTCATA 59.100 50.000 1.60 0.00 34.31 2.15
1233 2921 1.134189 TCGAGGACTATCCAGAAGCGA 60.134 52.381 0.00 0.00 39.61 4.93
1391 3079 1.153061 TGAGGTGGACTCCTGTCGT 59.847 57.895 0.00 0.00 46.01 4.34
1420 3108 0.901124 CCTGTGAGAGGGTTGAGGAG 59.099 60.000 0.00 0.00 38.36 3.69
1450 3138 2.254051 CACCGGCGCGTTGAAAAT 59.746 55.556 8.43 0.00 0.00 1.82
1579 3267 2.046700 GTCCCCGGCGATGAAACA 60.047 61.111 9.30 0.00 0.00 2.83
1608 3296 9.408648 ACCACCTTCCTCATATAATTGTAAAAG 57.591 33.333 0.00 0.00 0.00 2.27
1733 3421 6.719365 ACAGAGAAAAACTTGACGAAATCAG 58.281 36.000 0.00 0.00 38.99 2.90
1798 3492 1.691434 GACTTCCCCACCAAAATGCAA 59.309 47.619 0.00 0.00 0.00 4.08
1849 3543 2.100631 CCACGATGAGGACCGCAAC 61.101 63.158 0.69 0.00 0.00 4.17
1850 3544 1.613317 ATCCACGATGAGGACCGCAA 61.613 55.000 0.69 0.00 38.13 4.85
1851 3545 2.016393 GATCCACGATGAGGACCGCA 62.016 60.000 0.00 0.00 38.13 5.69
1857 3551 0.530650 CCGTTGGATCCACGATGAGG 60.531 60.000 27.55 16.14 0.00 3.86
1861 3555 1.191535 TTCTCCGTTGGATCCACGAT 58.808 50.000 27.55 0.00 0.00 3.73
1862 3556 0.970640 TTTCTCCGTTGGATCCACGA 59.029 50.000 27.55 17.54 0.00 4.35
1864 3558 2.076863 CTGTTTCTCCGTTGGATCCAC 58.923 52.381 15.91 9.07 0.00 4.02
1869 3563 1.301401 CGCCTGTTTCTCCGTTGGA 60.301 57.895 0.00 0.00 0.00 3.53
1914 3608 1.417517 TGGCTGATGAAGATGGCGTAT 59.582 47.619 0.00 0.00 0.00 3.06
2123 3817 2.309755 AGCTGGATGATGGTGAAAGGAA 59.690 45.455 0.00 0.00 0.00 3.36
2179 3873 5.991606 CCGAGATTTGCTATCAGACCAATTA 59.008 40.000 2.91 0.00 0.00 1.40
2237 3932 1.640917 AGTGGAAGGGAGCGAGTTAA 58.359 50.000 0.00 0.00 0.00 2.01
2238 3933 2.097825 GTAGTGGAAGGGAGCGAGTTA 58.902 52.381 0.00 0.00 0.00 2.24
2239 3934 0.896226 GTAGTGGAAGGGAGCGAGTT 59.104 55.000 0.00 0.00 0.00 3.01
2428 4134 0.700564 TGCAAGGGAAGAGGCAAGAT 59.299 50.000 0.00 0.00 32.54 2.40
2458 4164 4.445452 ACAAACCAGATTGCATTGCTAG 57.555 40.909 10.49 0.00 33.52 3.42
2520 4264 2.545952 GGAGAACAACAGAGCGAGAACA 60.546 50.000 0.00 0.00 0.00 3.18
2541 4285 3.815809 TGAGGAATTAATAAGGCCACCG 58.184 45.455 5.01 0.00 0.00 4.94
2803 6442 3.441572 AGCAACTCAATATTGTGCCAGAC 59.558 43.478 20.10 7.03 0.00 3.51
2808 6447 5.691305 TGAAAACAGCAACTCAATATTGTGC 59.309 36.000 17.44 17.44 0.00 4.57
2830 6469 5.721480 TCTGGATCTACAAATCCTGTCTTGA 59.279 40.000 4.67 0.00 44.76 3.02
2831 6470 5.982356 TCTGGATCTACAAATCCTGTCTTG 58.018 41.667 4.67 0.00 44.76 3.02
2840 6479 9.606631 GAAAGTAGAACATCTGGATCTACAAAT 57.393 33.333 19.10 10.16 45.05 2.32
2946 6585 1.285373 TGGGACAGAGGGAGTAGACTC 59.715 57.143 0.75 0.75 42.14 3.36
2961 6600 6.770785 TGTAATAAGGTCTTGCATTATGGGAC 59.229 38.462 0.00 0.00 34.69 4.46
2962 6601 6.905736 TGTAATAAGGTCTTGCATTATGGGA 58.094 36.000 0.00 0.00 34.69 4.37
2963 6602 7.765695 ATGTAATAAGGTCTTGCATTATGGG 57.234 36.000 0.00 0.00 34.69 4.00
3012 6651 9.804758 CCGTCCCATAATAGAAGATCTTATTAC 57.195 37.037 8.25 0.00 0.00 1.89
3013 6652 9.763837 TCCGTCCCATAATAGAAGATCTTATTA 57.236 33.333 8.25 10.20 0.00 0.98
3014 6653 8.666129 TCCGTCCCATAATAGAAGATCTTATT 57.334 34.615 8.25 8.24 0.00 1.40
3015 6654 7.343316 CCTCCGTCCCATAATAGAAGATCTTAT 59.657 40.741 8.25 8.04 0.00 1.73
3016 6655 6.663953 CCTCCGTCCCATAATAGAAGATCTTA 59.336 42.308 8.25 0.00 0.00 2.10
3017 6656 5.482175 CCTCCGTCCCATAATAGAAGATCTT 59.518 44.000 7.95 7.95 0.00 2.40
3018 6657 5.020132 CCTCCGTCCCATAATAGAAGATCT 58.980 45.833 0.00 0.00 0.00 2.75
3019 6658 5.017490 TCCTCCGTCCCATAATAGAAGATC 58.983 45.833 0.00 0.00 0.00 2.75
3020 6659 5.011982 TCCTCCGTCCCATAATAGAAGAT 57.988 43.478 0.00 0.00 0.00 2.40
3021 6660 4.464652 TCCTCCGTCCCATAATAGAAGA 57.535 45.455 0.00 0.00 0.00 2.87
3022 6661 4.589374 ACTTCCTCCGTCCCATAATAGAAG 59.411 45.833 0.00 0.00 35.48 2.85
3023 6662 4.553678 ACTTCCTCCGTCCCATAATAGAA 58.446 43.478 0.00 0.00 0.00 2.10
3024 6663 4.194678 ACTTCCTCCGTCCCATAATAGA 57.805 45.455 0.00 0.00 0.00 1.98
3025 6664 5.078256 ACTACTTCCTCCGTCCCATAATAG 58.922 45.833 0.00 0.00 0.00 1.73
3026 6665 5.070823 ACTACTTCCTCCGTCCCATAATA 57.929 43.478 0.00 0.00 0.00 0.98
3027 6666 3.924922 ACTACTTCCTCCGTCCCATAAT 58.075 45.455 0.00 0.00 0.00 1.28
3028 6667 3.393426 ACTACTTCCTCCGTCCCATAA 57.607 47.619 0.00 0.00 0.00 1.90
3029 6668 3.393426 AACTACTTCCTCCGTCCCATA 57.607 47.619 0.00 0.00 0.00 2.74
3030 6669 2.249309 AACTACTTCCTCCGTCCCAT 57.751 50.000 0.00 0.00 0.00 4.00
3031 6670 2.019807 AAACTACTTCCTCCGTCCCA 57.980 50.000 0.00 0.00 0.00 4.37
3032 6671 5.537674 TGATATAAACTACTTCCTCCGTCCC 59.462 44.000 0.00 0.00 0.00 4.46
3033 6672 6.445475 GTGATATAAACTACTTCCTCCGTCC 58.555 44.000 0.00 0.00 0.00 4.79
3034 6673 6.445475 GGTGATATAAACTACTTCCTCCGTC 58.555 44.000 0.00 0.00 0.00 4.79
3035 6674 5.009410 CGGTGATATAAACTACTTCCTCCGT 59.991 44.000 0.00 0.00 0.00 4.69
3036 6675 5.458891 CGGTGATATAAACTACTTCCTCCG 58.541 45.833 0.00 0.00 0.00 4.63
3037 6676 5.780984 CCGGTGATATAAACTACTTCCTCC 58.219 45.833 0.00 0.00 0.00 4.30
3038 6677 5.228665 GCCGGTGATATAAACTACTTCCTC 58.771 45.833 1.90 0.00 0.00 3.71
3039 6678 4.261909 CGCCGGTGATATAAACTACTTCCT 60.262 45.833 10.20 0.00 0.00 3.36
3040 6679 3.985925 CGCCGGTGATATAAACTACTTCC 59.014 47.826 10.20 0.00 0.00 3.46
3041 6680 3.985925 CCGCCGGTGATATAAACTACTTC 59.014 47.826 18.79 0.00 0.00 3.01
3042 6681 3.385755 ACCGCCGGTGATATAAACTACTT 59.614 43.478 18.79 0.00 32.98 2.24
3043 6682 2.961062 ACCGCCGGTGATATAAACTACT 59.039 45.455 18.79 0.00 32.98 2.57
3044 6683 3.375782 ACCGCCGGTGATATAAACTAC 57.624 47.619 18.79 0.00 32.98 2.73
3061 6700 4.814771 AGAAAACTTGAAGTAGTTCCACCG 59.185 41.667 14.51 0.00 37.37 4.94
3074 6713 9.280174 ACGATGTCCTAAATTAAGAAAACTTGA 57.720 29.630 0.00 0.00 0.00 3.02
3107 6754 9.006839 CATCAAACATGGTAGATGTAGCATTAT 57.993 33.333 11.55 1.44 43.44 1.28
3122 6769 6.700081 CAGATGGAAAATAGCATCAAACATGG 59.300 38.462 0.00 0.00 0.00 3.66
3138 6785 4.439974 GCAAACACAGAACACAGATGGAAA 60.440 41.667 0.00 0.00 0.00 3.13
3143 6790 3.698029 GTGCAAACACAGAACACAGAT 57.302 42.857 0.00 0.00 46.61 2.90


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

AutoCloner maintained by Alex Coulton.