Multiple sequence alignment - TraesCS7D01G062200

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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 TraesCS7D01G062200 chr7D 100.000 2348 0 0 1 2348 33812536 33810189 0.000000e+00 4337
1 TraesCS7D01G062200 chr7D 93.300 806 54 0 646 1451 99418986 99418181 0.000000e+00 1190
2 TraesCS7D01G062200 chr7D 90.497 926 52 11 1444 2348 412231633 412232543 0.000000e+00 1190
3 TraesCS7D01G062200 chr7D 92.928 806 51 1 646 1451 616483099 616483898 0.000000e+00 1168
4 TraesCS7D01G062200 chr7D 90.139 649 49 5 3 651 616482619 616483252 0.000000e+00 830
5 TraesCS7D01G062200 chr7D 89.181 647 60 5 5 651 66963786 66964422 0.000000e+00 798
6 TraesCS7D01G062200 chr3D 90.317 1735 120 26 646 2342 467277463 467275739 0.000000e+00 2230
7 TraesCS7D01G062200 chr3D 88.290 649 55 4 3 651 330489942 330490569 0.000000e+00 758
8 TraesCS7D01G062200 chr1D 90.030 1655 108 24 646 2254 399242195 399240552 0.000000e+00 2089
9 TraesCS7D01G062200 chr1D 90.741 864 58 10 1497 2345 174776657 174775801 0.000000e+00 1133
10 TraesCS7D01G062200 chr1D 89.214 649 55 7 3 651 467923635 467923002 0.000000e+00 797
11 TraesCS7D01G062200 chr1D 87.982 649 66 6 3 651 399242672 399242036 0.000000e+00 756
12 TraesCS7D01G062200 chr1D 88.354 644 56 8 6 646 484182242 484181615 0.000000e+00 756
13 TraesCS7D01G062200 chr1D 87.982 649 62 9 3 651 217011878 217011246 0.000000e+00 752
14 TraesCS7D01G062200 chr1D 87.441 637 67 5 3 638 348725987 348725363 0.000000e+00 721
15 TraesCS7D01G062200 chr1D 86.749 649 79 6 3 650 32517274 32516632 0.000000e+00 715
16 TraesCS7D01G062200 chr1D 86.595 649 72 9 3 650 453131753 453132387 0.000000e+00 702
17 TraesCS7D01G062200 chr1D 88.686 548 58 2 107 651 457217469 457216923 0.000000e+00 665
18 TraesCS7D01G062200 chr1D 84.604 656 88 9 3 651 469097770 469097121 7.080000e-180 640
19 TraesCS7D01G062200 chr5D 91.346 936 43 12 1444 2348 35279269 35278341 0.000000e+00 1245
20 TraesCS7D01G062200 chr5D 90.323 930 49 14 1444 2342 217060503 217061422 0.000000e+00 1181
21 TraesCS7D01G062200 chr5D 92.804 806 58 0 646 1451 108340108 108340913 0.000000e+00 1168
22 TraesCS7D01G062200 chr5D 92.804 806 57 1 646 1451 35280103 35279299 0.000000e+00 1166
23 TraesCS7D01G062200 chr5D 92.556 806 60 0 646 1451 432510131 432510936 0.000000e+00 1157
24 TraesCS7D01G062200 chr5D 87.701 935 68 20 1444 2342 432510966 432511889 0.000000e+00 1046
25 TraesCS7D01G062200 chr5D 91.135 643 47 5 9 651 35280577 35279945 0.000000e+00 863
26 TraesCS7D01G062200 chr5D 89.812 638 55 5 3 640 344691529 344690902 0.000000e+00 809
27 TraesCS7D01G062200 chr5D 88.000 650 64 8 3 651 430530040 430530676 0.000000e+00 756
28 TraesCS7D01G062200 chr1A 90.812 936 44 15 1444 2348 561698912 561697988 0.000000e+00 1214
29 TraesCS7D01G062200 chr1A 93.061 807 51 2 646 1451 561699744 561698942 0.000000e+00 1175
30 TraesCS7D01G062200 chr1A 88.326 651 60 9 3 651 561700221 561699585 0.000000e+00 767
31 TraesCS7D01G062200 chr6D 91.329 865 53 10 1497 2345 463787499 463786641 0.000000e+00 1162
32 TraesCS7D01G062200 chr6D 89.057 859 76 14 1497 2348 87469794 87468947 0.000000e+00 1050
33 TraesCS7D01G062200 chr6D 91.691 349 8 8 1444 1773 130207324 130206978 4.570000e-127 464
34 TraesCS7D01G062200 chr4D 92.308 806 62 0 646 1451 11877037 11876232 0.000000e+00 1146
35 TraesCS7D01G062200 chr4D 87.883 652 62 10 1 651 336529605 336530240 0.000000e+00 750
36 TraesCS7D01G062200 chr4D 87.211 649 62 9 3 651 23273881 23273254 0.000000e+00 719
37 TraesCS7D01G062200 chr4D 88.448 580 61 3 72 651 75774924 75774351 0.000000e+00 695
38 TraesCS7D01G062200 chr4D 86.154 650 83 6 3 651 479012977 479013620 0.000000e+00 695
39 TraesCS7D01G062200 chr7A 88.412 932 73 17 1444 2348 137912646 137913569 0.000000e+00 1090
40 TraesCS7D01G062200 chr6A 87.810 927 71 21 1444 2348 565389785 565390691 0.000000e+00 1048
41 TraesCS7D01G062200 chr6A 87.270 652 64 7 3 650 68505831 68505195 0.000000e+00 726
42 TraesCS7D01G062200 chr6A 86.731 618 65 10 30 646 170885853 170886454 0.000000e+00 671
43 TraesCS7D01G062200 chr3A 87.354 941 70 22 1444 2348 100357416 100356489 0.000000e+00 1033
44 TraesCS7D01G062200 chr3A 86.710 933 80 24 1444 2342 442284871 442285793 0.000000e+00 996
45 TraesCS7D01G062200 chr3A 91.286 482 23 9 1444 1906 109156427 109156908 7.080000e-180 640
46 TraesCS7D01G062200 chr5A 87.111 931 77 21 1444 2342 633987648 633988567 0.000000e+00 1014
47 TraesCS7D01G062200 chr5A 88.000 650 68 5 3 651 496567678 496568318 0.000000e+00 760
48 TraesCS7D01G062200 chr5A 88.825 519 39 6 1444 1943 639070142 639070660 9.220000e-174 619
49 TraesCS7D01G062200 chr5A 89.055 201 4 5 1444 1626 432933761 432933561 1.400000e-57 233
50 TraesCS7D01G062200 chr2D 90.462 650 40 9 3 651 77401835 77402463 0.000000e+00 837
51 TraesCS7D01G062200 chr7B 89.676 649 57 5 3 651 610812811 610813449 0.000000e+00 819
52 TraesCS7D01G062200 chr2B 88.136 649 68 4 3 651 243359005 243359644 0.000000e+00 763
53 TraesCS7D01G062200 chr5B 87.346 648 68 9 5 651 292164196 292163562 0.000000e+00 730
54 TraesCS7D01G062200 chr4B 87.136 653 69 7 3 651 517367567 517366926 0.000000e+00 726


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 TraesCS7D01G062200 chr7D 33810189 33812536 2347 True 4337.000000 4337 100.000000 1 2348 1 chr7D.!!$R1 2347
1 TraesCS7D01G062200 chr7D 99418181 99418986 805 True 1190.000000 1190 93.300000 646 1451 1 chr7D.!!$R2 805
2 TraesCS7D01G062200 chr7D 412231633 412232543 910 False 1190.000000 1190 90.497000 1444 2348 1 chr7D.!!$F2 904
3 TraesCS7D01G062200 chr7D 616482619 616483898 1279 False 999.000000 1168 91.533500 3 1451 2 chr7D.!!$F3 1448
4 TraesCS7D01G062200 chr7D 66963786 66964422 636 False 798.000000 798 89.181000 5 651 1 chr7D.!!$F1 646
5 TraesCS7D01G062200 chr3D 467275739 467277463 1724 True 2230.000000 2230 90.317000 646 2342 1 chr3D.!!$R1 1696
6 TraesCS7D01G062200 chr3D 330489942 330490569 627 False 758.000000 758 88.290000 3 651 1 chr3D.!!$F1 648
7 TraesCS7D01G062200 chr1D 399240552 399242672 2120 True 1422.500000 2089 89.006000 3 2254 2 chr1D.!!$R9 2251
8 TraesCS7D01G062200 chr1D 174775801 174776657 856 True 1133.000000 1133 90.741000 1497 2345 1 chr1D.!!$R2 848
9 TraesCS7D01G062200 chr1D 467923002 467923635 633 True 797.000000 797 89.214000 3 651 1 chr1D.!!$R6 648
10 TraesCS7D01G062200 chr1D 484181615 484182242 627 True 756.000000 756 88.354000 6 646 1 chr1D.!!$R8 640
11 TraesCS7D01G062200 chr1D 217011246 217011878 632 True 752.000000 752 87.982000 3 651 1 chr1D.!!$R3 648
12 TraesCS7D01G062200 chr1D 348725363 348725987 624 True 721.000000 721 87.441000 3 638 1 chr1D.!!$R4 635
13 TraesCS7D01G062200 chr1D 32516632 32517274 642 True 715.000000 715 86.749000 3 650 1 chr1D.!!$R1 647
14 TraesCS7D01G062200 chr1D 453131753 453132387 634 False 702.000000 702 86.595000 3 650 1 chr1D.!!$F1 647
15 TraesCS7D01G062200 chr1D 457216923 457217469 546 True 665.000000 665 88.686000 107 651 1 chr1D.!!$R5 544
16 TraesCS7D01G062200 chr1D 469097121 469097770 649 True 640.000000 640 84.604000 3 651 1 chr1D.!!$R7 648
17 TraesCS7D01G062200 chr5D 217060503 217061422 919 False 1181.000000 1181 90.323000 1444 2342 1 chr5D.!!$F2 898
18 TraesCS7D01G062200 chr5D 108340108 108340913 805 False 1168.000000 1168 92.804000 646 1451 1 chr5D.!!$F1 805
19 TraesCS7D01G062200 chr5D 432510131 432511889 1758 False 1101.500000 1157 90.128500 646 2342 2 chr5D.!!$F4 1696
20 TraesCS7D01G062200 chr5D 35278341 35280577 2236 True 1091.333333 1245 91.761667 9 2348 3 chr5D.!!$R2 2339
21 TraesCS7D01G062200 chr5D 344690902 344691529 627 True 809.000000 809 89.812000 3 640 1 chr5D.!!$R1 637
22 TraesCS7D01G062200 chr5D 430530040 430530676 636 False 756.000000 756 88.000000 3 651 1 chr5D.!!$F3 648
23 TraesCS7D01G062200 chr1A 561697988 561700221 2233 True 1052.000000 1214 90.733000 3 2348 3 chr1A.!!$R1 2345
24 TraesCS7D01G062200 chr6D 463786641 463787499 858 True 1162.000000 1162 91.329000 1497 2345 1 chr6D.!!$R3 848
25 TraesCS7D01G062200 chr6D 87468947 87469794 847 True 1050.000000 1050 89.057000 1497 2348 1 chr6D.!!$R1 851
26 TraesCS7D01G062200 chr4D 11876232 11877037 805 True 1146.000000 1146 92.308000 646 1451 1 chr4D.!!$R1 805
27 TraesCS7D01G062200 chr4D 336529605 336530240 635 False 750.000000 750 87.883000 1 651 1 chr4D.!!$F1 650
28 TraesCS7D01G062200 chr4D 23273254 23273881 627 True 719.000000 719 87.211000 3 651 1 chr4D.!!$R2 648
29 TraesCS7D01G062200 chr4D 75774351 75774924 573 True 695.000000 695 88.448000 72 651 1 chr4D.!!$R3 579
30 TraesCS7D01G062200 chr4D 479012977 479013620 643 False 695.000000 695 86.154000 3 651 1 chr4D.!!$F2 648
31 TraesCS7D01G062200 chr7A 137912646 137913569 923 False 1090.000000 1090 88.412000 1444 2348 1 chr7A.!!$F1 904
32 TraesCS7D01G062200 chr6A 565389785 565390691 906 False 1048.000000 1048 87.810000 1444 2348 1 chr6A.!!$F2 904
33 TraesCS7D01G062200 chr6A 68505195 68505831 636 True 726.000000 726 87.270000 3 650 1 chr6A.!!$R1 647
34 TraesCS7D01G062200 chr6A 170885853 170886454 601 False 671.000000 671 86.731000 30 646 1 chr6A.!!$F1 616
35 TraesCS7D01G062200 chr3A 100356489 100357416 927 True 1033.000000 1033 87.354000 1444 2348 1 chr3A.!!$R1 904
36 TraesCS7D01G062200 chr3A 442284871 442285793 922 False 996.000000 996 86.710000 1444 2342 1 chr3A.!!$F2 898
37 TraesCS7D01G062200 chr5A 633987648 633988567 919 False 1014.000000 1014 87.111000 1444 2342 1 chr5A.!!$F2 898
38 TraesCS7D01G062200 chr5A 496567678 496568318 640 False 760.000000 760 88.000000 3 651 1 chr5A.!!$F1 648
39 TraesCS7D01G062200 chr5A 639070142 639070660 518 False 619.000000 619 88.825000 1444 1943 1 chr5A.!!$F3 499
40 TraesCS7D01G062200 chr2D 77401835 77402463 628 False 837.000000 837 90.462000 3 651 1 chr2D.!!$F1 648
41 TraesCS7D01G062200 chr7B 610812811 610813449 638 False 819.000000 819 89.676000 3 651 1 chr7B.!!$F1 648
42 TraesCS7D01G062200 chr2B 243359005 243359644 639 False 763.000000 763 88.136000 3 651 1 chr2B.!!$F1 648
43 TraesCS7D01G062200 chr5B 292163562 292164196 634 True 730.000000 730 87.346000 5 651 1 chr5B.!!$R1 646
44 TraesCS7D01G062200 chr4B 517366926 517367567 641 True 726.000000 726 87.136000 3 651 1 chr4B.!!$R1 648

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
576 610 1.447838 CCCATCGACCTCAACACCG 60.448 63.158 0.0 0.0 0.0 4.94 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2157 2341 0.389025 GTCAGCACACAAAAAGGGGG 59.611 55.0 0.0 0.0 0.0 5.4 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
494 528 4.091939 GTGTACCCACGGGCCTCC 62.092 72.222 0.84 0.00 39.32 4.30
514 548 2.685380 CCTCTCCGGGGAGTGCTT 60.685 66.667 29.45 0.00 42.49 3.91
515 549 2.581354 CTCTCCGGGGAGTGCTTG 59.419 66.667 24.17 0.00 42.49 4.01
516 550 3.672295 CTCTCCGGGGAGTGCTTGC 62.672 68.421 24.17 0.00 42.49 4.01
517 551 4.785453 CTCCGGGGAGTGCTTGCC 62.785 72.222 0.00 0.00 37.47 4.52
523 557 4.681978 GGAGTGCTTGCCCGACGT 62.682 66.667 0.00 0.00 0.00 4.34
524 558 3.414700 GAGTGCTTGCCCGACGTG 61.415 66.667 0.00 0.00 0.00 4.49
525 559 3.858868 GAGTGCTTGCCCGACGTGA 62.859 63.158 0.00 0.00 0.00 4.35
526 560 3.414700 GTGCTTGCCCGACGTGAG 61.415 66.667 0.00 0.00 0.00 3.51
552 586 3.188786 CGCCTTCCACGCTAGCAC 61.189 66.667 16.45 0.00 0.00 4.40
553 587 2.820037 GCCTTCCACGCTAGCACC 60.820 66.667 16.45 0.00 0.00 5.01
554 588 2.125106 CCTTCCACGCTAGCACCC 60.125 66.667 16.45 0.00 0.00 4.61
555 589 2.509336 CTTCCACGCTAGCACCCG 60.509 66.667 16.45 0.05 0.00 5.28
556 590 4.752879 TTCCACGCTAGCACCCGC 62.753 66.667 16.45 0.00 38.99 6.13
571 605 4.812476 CGCGCCCATCGACCTCAA 62.812 66.667 0.00 0.00 41.67 3.02
572 606 3.195698 GCGCCCATCGACCTCAAC 61.196 66.667 0.00 0.00 41.67 3.18
573 607 2.264480 CGCCCATCGACCTCAACA 59.736 61.111 0.00 0.00 41.67 3.33
574 608 2.100631 CGCCCATCGACCTCAACAC 61.101 63.158 0.00 0.00 41.67 3.32
575 609 1.745489 GCCCATCGACCTCAACACC 60.745 63.158 0.00 0.00 0.00 4.16
576 610 1.447838 CCCATCGACCTCAACACCG 60.448 63.158 0.00 0.00 0.00 4.94
577 611 2.100631 CCATCGACCTCAACACCGC 61.101 63.158 0.00 0.00 0.00 5.68
578 612 2.100631 CATCGACCTCAACACCGCC 61.101 63.158 0.00 0.00 0.00 6.13
579 613 3.310860 ATCGACCTCAACACCGCCC 62.311 63.158 0.00 0.00 0.00 6.13
603 637 4.873129 CCGGTGGCTCGTCATCCG 62.873 72.222 0.00 5.83 40.72 4.18
604 638 4.873129 CGGTGGCTCGTCATCCGG 62.873 72.222 0.00 0.00 37.92 5.14
605 639 3.458163 GGTGGCTCGTCATCCGGA 61.458 66.667 6.61 6.61 37.11 5.14
606 640 2.105128 GTGGCTCGTCATCCGGAG 59.895 66.667 11.34 2.05 37.11 4.63
618 652 3.431725 CCGGAGGCGCAAGGAAAC 61.432 66.667 10.83 0.00 46.14 2.78
619 653 3.788766 CGGAGGCGCAAGGAAACG 61.789 66.667 10.83 0.00 38.28 3.60
730 771 1.447838 CCCATCGACCTCAACACCG 60.448 63.158 0.00 0.00 0.00 4.94
809 850 4.129737 CGTCGTGCTCCCGGATGT 62.130 66.667 0.73 0.00 0.00 3.06
877 918 1.895798 TGCAGAACCTCATCTTCGAGT 59.104 47.619 0.00 0.00 0.00 4.18
906 947 4.709840 GCCGCTGGCTATGATCAT 57.290 55.556 13.81 13.81 46.69 2.45
917 958 3.312828 GCTATGATCATGACGAGACACC 58.687 50.000 18.72 0.00 0.00 4.16
1019 1061 3.003763 GGACCTGGACGGCTTCCT 61.004 66.667 11.67 0.00 46.10 3.36
1020 1062 2.266055 GACCTGGACGGCTTCCTG 59.734 66.667 11.67 10.56 46.10 3.86
1071 1113 1.889829 CAAGAGGAAGAGGACGAGTGT 59.110 52.381 0.00 0.00 0.00 3.55
1101 1143 0.984230 TGGAGCCTTTGTTCGAGGAT 59.016 50.000 0.00 0.00 36.33 3.24
1108 1150 2.354103 CCTTTGTTCGAGGATGAGCTCA 60.354 50.000 20.79 20.79 36.33 4.26
1310 1352 2.882761 AGAAGTTTCCGCCTTACCAAAC 59.117 45.455 0.00 0.00 0.00 2.93
1371 1414 2.303022 GAGGGTGATCCAACAAGAGTGA 59.697 50.000 0.00 0.00 38.24 3.41
1382 1425 6.754193 TCCAACAAGAGTGAAACAAGTTTTT 58.246 32.000 0.00 0.00 41.43 1.94
1638 1809 1.454539 CAACCCGTGGAGGAGGTTT 59.545 57.895 0.00 0.00 41.97 3.27
1678 1851 1.376037 GCAGGGGAAGACCAACTCG 60.376 63.158 0.00 0.00 42.91 4.18
1837 2016 1.061502 AGGAGGAGGCTTGAGATGGAT 60.062 52.381 0.00 0.00 0.00 3.41
1883 2062 1.743252 CTGGAGGCGGAGAAGCAAC 60.743 63.158 0.00 0.00 39.27 4.17
2045 2224 2.437359 AGGCCGACATGCTCAAGC 60.437 61.111 0.00 0.00 42.50 4.01
2152 2336 0.320508 GTGGTCGAACTCAAGTCCCC 60.321 60.000 0.33 0.00 0.00 4.81
2153 2337 1.295746 GGTCGAACTCAAGTCCCCC 59.704 63.158 0.00 0.00 0.00 5.40
2175 2359 2.819477 CCCCCTTTTTGTGTGCTGA 58.181 52.632 0.00 0.00 0.00 4.26
2193 2378 2.436469 CATGTGTGCCGGCTGCTA 60.436 61.111 29.70 12.29 42.00 3.49
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
87 101 1.476891 GGTGGTCGTCTTGCTAGATGA 59.523 52.381 14.95 14.95 42.71 2.92
319 338 0.107456 CATGTAGAGCGCCTCCCAAT 59.893 55.000 2.29 0.00 0.00 3.16
320 339 1.522092 CATGTAGAGCGCCTCCCAA 59.478 57.895 2.29 0.00 0.00 4.12
321 340 3.094062 GCATGTAGAGCGCCTCCCA 62.094 63.158 2.29 2.33 0.00 4.37
497 531 2.685380 AAGCACTCCCCGGAGAGG 60.685 66.667 18.20 7.46 44.53 3.69
498 532 2.581354 CAAGCACTCCCCGGAGAG 59.419 66.667 17.73 12.08 44.53 3.20
499 533 3.706373 GCAAGCACTCCCCGGAGA 61.706 66.667 17.73 0.00 44.53 3.71
500 534 4.785453 GGCAAGCACTCCCCGGAG 62.785 72.222 0.73 9.29 46.91 4.63
506 540 4.681978 ACGTCGGGCAAGCACTCC 62.682 66.667 0.00 0.00 0.00 3.85
507 541 3.414700 CACGTCGGGCAAGCACTC 61.415 66.667 0.00 0.00 0.00 3.51
508 542 3.865929 CTCACGTCGGGCAAGCACT 62.866 63.158 0.00 0.00 0.00 4.40
509 543 3.414700 CTCACGTCGGGCAAGCAC 61.415 66.667 0.00 0.00 0.00 4.40
537 571 2.125106 GGGTGCTAGCGTGGAAGG 60.125 66.667 10.77 0.00 0.00 3.46
538 572 2.509336 CGGGTGCTAGCGTGGAAG 60.509 66.667 10.77 0.00 0.00 3.46
539 573 4.752879 GCGGGTGCTAGCGTGGAA 62.753 66.667 10.77 0.00 38.39 3.53
554 588 4.812476 TTGAGGTCGATGGGCGCG 62.812 66.667 0.00 0.00 40.61 6.86
555 589 3.195698 GTTGAGGTCGATGGGCGC 61.196 66.667 0.00 0.00 40.61 6.53
556 590 2.100631 GTGTTGAGGTCGATGGGCG 61.101 63.158 0.00 0.00 42.69 6.13
557 591 1.745489 GGTGTTGAGGTCGATGGGC 60.745 63.158 0.00 0.00 0.00 5.36
558 592 1.447838 CGGTGTTGAGGTCGATGGG 60.448 63.158 0.00 0.00 0.00 4.00
559 593 2.100631 GCGGTGTTGAGGTCGATGG 61.101 63.158 0.00 0.00 0.00 3.51
560 594 2.100631 GGCGGTGTTGAGGTCGATG 61.101 63.158 0.00 0.00 0.00 3.84
561 595 2.264794 GGCGGTGTTGAGGTCGAT 59.735 61.111 0.00 0.00 0.00 3.59
562 596 3.998672 GGGCGGTGTTGAGGTCGA 61.999 66.667 0.00 0.00 0.00 4.20
595 629 4.812476 TTGCGCCTCCGGATGACG 62.812 66.667 11.34 13.18 43.80 4.35
596 630 2.892425 CTTGCGCCTCCGGATGAC 60.892 66.667 11.34 2.18 33.87 3.06
597 631 4.161295 CCTTGCGCCTCCGGATGA 62.161 66.667 11.34 0.00 33.87 2.92
598 632 3.680620 TTCCTTGCGCCTCCGGATG 62.681 63.158 3.57 2.55 33.87 3.51
599 633 2.966732 TTTCCTTGCGCCTCCGGAT 61.967 57.895 3.57 0.00 33.87 4.18
600 634 3.632080 TTTCCTTGCGCCTCCGGA 61.632 61.111 4.18 2.93 34.32 5.14
601 635 3.431725 GTTTCCTTGCGCCTCCGG 61.432 66.667 4.18 0.00 34.32 5.14
602 636 3.788766 CGTTTCCTTGCGCCTCCG 61.789 66.667 4.18 0.00 37.57 4.63
603 637 4.103103 GCGTTTCCTTGCGCCTCC 62.103 66.667 4.18 0.00 46.93 4.30
794 835 2.362503 AGACATCCGGGAGCACGA 60.363 61.111 0.00 0.00 35.47 4.35
807 848 0.249868 CCTCGAACAGGTTGCAGACA 60.250 55.000 0.00 0.00 37.53 3.41
809 850 1.118965 TCCCTCGAACAGGTTGCAGA 61.119 55.000 0.00 0.00 41.51 4.26
846 887 2.497675 GAGGTTCTGCATGTAGTCCTCA 59.502 50.000 30.68 8.39 38.46 3.86
905 946 0.036952 CTGGCTTGGTGTCTCGTCAT 60.037 55.000 0.00 0.00 0.00 3.06
906 947 1.367471 CTGGCTTGGTGTCTCGTCA 59.633 57.895 0.00 0.00 0.00 4.35
952 993 1.898472 CTGATCGGGATCATAGCCAGT 59.102 52.381 11.48 0.00 45.74 4.00
1071 1113 0.976641 AAGGCTCCACTTCGATGTCA 59.023 50.000 0.13 0.00 0.00 3.58
1101 1143 1.228245 GGCTTGGTTGGTGAGCTCA 60.228 57.895 13.74 13.74 36.66 4.26
1382 1425 4.681421 CGCTCTCAAGAGTGGCAA 57.319 55.556 11.88 0.00 46.03 4.52
1596 1767 3.691342 CCCACGCGACTTGAGGGA 61.691 66.667 15.93 0.00 42.25 4.20
1623 1794 2.351276 CCAAACCTCCTCCACGGG 59.649 66.667 0.00 0.00 0.00 5.28
1678 1851 0.391793 CCCGCTTGTCCTCCTTCTTC 60.392 60.000 0.00 0.00 0.00 2.87
1837 2016 1.968017 CTTGGCTTGCTTCTCCGCA 60.968 57.895 0.00 0.00 38.31 5.69
2157 2341 0.389025 GTCAGCACACAAAAAGGGGG 59.611 55.000 0.00 0.00 0.00 5.40


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

AutoCloner maintained by Alex Coulton.