Multiple sequence alignment - TraesCS2D01G236300

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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 TraesCS2D01G236300 chr2D 100.000 2885 0 0 1 2885 233140219 233137335 0.000000e+00 5328.0
1 TraesCS2D01G236300 chr2D 88.073 327 29 5 588 911 566317929 566317610 2.100000e-101 379.0
2 TraesCS2D01G236300 chr2D 100.000 64 0 0 517 580 291627445 291627382 5.050000e-23 119.0
3 TraesCS2D01G236300 chr2D 98.438 64 1 0 517 580 291609603 291609540 2.350000e-21 113.0
4 TraesCS2D01G236300 chr2D 86.170 94 11 2 2794 2885 553476207 553476114 1.830000e-17 100.0
5 TraesCS2D01G236300 chr6D 96.828 2207 61 8 579 2782 283304599 283302399 0.000000e+00 3679.0
6 TraesCS2D01G236300 chr6D 91.269 607 32 9 1 587 283305231 283304626 0.000000e+00 808.0
7 TraesCS2D01G236300 chr6D 84.342 562 60 16 905 1447 455891331 455890779 2.550000e-145 525.0
8 TraesCS2D01G236300 chr6D 90.698 129 11 1 1486 1613 455890516 455890388 1.370000e-38 171.0
9 TraesCS2D01G236300 chr6D 82.979 94 14 1 2794 2885 287844335 287844428 1.840000e-12 84.2
10 TraesCS2D01G236300 chr3A 95.561 1532 41 3 1252 2782 61628631 61630136 0.000000e+00 2427.0
11 TraesCS2D01G236300 chr3A 93.023 43 2 1 1661 1702 61628799 61628841 8.630000e-06 62.1
12 TraesCS2D01G236300 chr1A 95.366 1532 42 5 1252 2782 26844749 26846252 0.000000e+00 2409.0
13 TraesCS2D01G236300 chr1A 95.104 1532 46 5 1252 2782 50462728 50461225 0.000000e+00 2386.0
14 TraesCS2D01G236300 chr1A 89.206 315 29 4 596 910 408698867 408698558 3.490000e-104 388.0
15 TraesCS2D01G236300 chr1A 89.474 114 9 3 974 1084 56508089 56507976 1.080000e-29 141.0
16 TraesCS2D01G236300 chr1A 88.596 114 10 2 974 1084 251739132 251739245 5.010000e-28 135.0
17 TraesCS2D01G236300 chr6B 93.936 808 43 3 1613 2415 505325571 505326377 0.000000e+00 1216.0
18 TraesCS2D01G236300 chr6B 96.491 399 14 0 2384 2782 505326377 505326775 0.000000e+00 660.0
19 TraesCS2D01G236300 chr6B 87.311 331 35 6 583 908 104304482 104304810 3.510000e-99 372.0
20 TraesCS2D01G236300 chr6B 81.099 455 61 19 1009 1447 693099869 693099424 9.900000e-90 340.0
21 TraesCS2D01G236300 chr6B 83.439 314 25 13 905 1192 693125520 693125208 1.700000e-67 267.0
22 TraesCS2D01G236300 chr6B 84.018 219 29 4 1234 1447 693125206 693124989 3.770000e-49 206.0
23 TraesCS2D01G236300 chr6B 90.551 127 6 3 1493 1613 693124688 693124562 2.300000e-36 163.0
24 TraesCS2D01G236300 chr6B 89.394 132 8 1 1490 1615 693099068 693098937 8.270000e-36 161.0
25 TraesCS2D01G236300 chr1B 91.574 807 60 5 1613 2413 76952846 76953650 0.000000e+00 1107.0
26 TraesCS2D01G236300 chr1B 89.880 583 32 8 9 569 458108647 458108070 0.000000e+00 725.0
27 TraesCS2D01G236300 chr1B 95.238 399 18 1 2384 2782 76953652 76954049 5.250000e-177 630.0
28 TraesCS2D01G236300 chr1B 85.550 609 59 12 1 584 659105664 659105060 6.830000e-171 610.0
29 TraesCS2D01G236300 chr1B 84.262 610 65 14 1 584 659196494 659195890 1.500000e-157 566.0
30 TraesCS2D01G236300 chr7B 86.792 795 41 34 2 741 706375912 706375127 0.000000e+00 828.0
31 TraesCS2D01G236300 chr7B 89.484 523 47 5 1 518 656879487 656880006 0.000000e+00 654.0
32 TraesCS2D01G236300 chr7B 88.438 320 30 5 593 910 48228434 48228120 2.100000e-101 379.0
33 TraesCS2D01G236300 chr7B 91.339 127 5 3 1493 1613 634950847 634950721 4.940000e-38 169.0
34 TraesCS2D01G236300 chr7B 96.364 55 0 2 937 989 706374996 706374942 3.960000e-14 89.8
35 TraesCS2D01G236300 chr5B 89.865 592 32 8 1 569 93538728 93539314 0.000000e+00 736.0
36 TraesCS2D01G236300 chr5B 82.917 480 66 15 974 1444 581259261 581259733 4.450000e-113 418.0
37 TraesCS2D01G236300 chr5B 83.814 451 43 12 1656 2099 681162493 681162066 4.480000e-108 401.0
38 TraesCS2D01G236300 chr5B 92.857 84 4 1 888 969 93539577 93539660 1.400000e-23 121.0
39 TraesCS2D01G236300 chr2B 92.514 521 27 9 1 518 91293218 91293729 0.000000e+00 736.0
40 TraesCS2D01G236300 chr2B 100.000 48 0 0 937 984 91294135 91294182 3.960000e-14 89.8
41 TraesCS2D01G236300 chr4B 89.203 602 39 6 1 580 560497570 560498167 0.000000e+00 728.0
42 TraesCS2D01G236300 chr4B 92.222 90 5 2 893 980 560545711 560545800 3.020000e-25 126.0
43 TraesCS2D01G236300 chr4B 85.556 90 10 3 2798 2885 164286325 164286237 1.100000e-14 91.6
44 TraesCS2D01G236300 chr4B 92.157 51 3 1 2835 2885 326299426 326299377 1.430000e-08 71.3
45 TraesCS2D01G236300 chr3B 89.109 606 34 12 1 580 805917769 805917170 0.000000e+00 725.0
46 TraesCS2D01G236300 chr3B 88.545 323 30 6 590 910 798019035 798018718 4.510000e-103 385.0
47 TraesCS2D01G236300 chr5A 88.245 604 46 6 1 580 43187771 43188373 0.000000e+00 699.0
48 TraesCS2D01G236300 chr5A 87.730 326 37 3 588 911 467783141 467782817 7.550000e-101 377.0
49 TraesCS2D01G236300 chr6A 87.365 554 49 11 905 1447 602711542 602710999 1.470000e-172 616.0
50 TraesCS2D01G236300 chr6A 88.806 134 9 3 1486 1613 602710701 602710568 2.980000e-35 159.0
51 TraesCS2D01G236300 chr6A 88.596 114 10 1 974 1084 92818267 92818154 5.010000e-28 135.0
52 TraesCS2D01G236300 chr6A 85.714 91 10 3 2798 2885 260893723 260893813 3.060000e-15 93.5
53 TraesCS2D01G236300 chr7D 84.818 606 61 14 1 580 142215421 142214821 5.360000e-162 580.0
54 TraesCS2D01G236300 chr7D 92.603 365 12 4 2420 2782 569719593 569719242 7.130000e-141 510.0
55 TraesCS2D01G236300 chr7D 100.000 31 0 0 2854 2884 329571548 329571518 1.120000e-04 58.4
56 TraesCS2D01G236300 chrUn 93.151 365 12 2 2420 2782 104826162 104826515 9.160000e-145 523.0
57 TraesCS2D01G236300 chr4D 92.055 365 16 2 2420 2782 189519833 189520186 4.290000e-138 501.0
58 TraesCS2D01G236300 chr4D 81.188 606 78 15 1 580 410093462 410094057 3.390000e-124 455.0
59 TraesCS2D01G236300 chr4A 86.744 430 47 7 1613 2041 628909550 628909970 1.210000e-128 470.0
60 TraesCS2D01G236300 chr7A 88.685 327 30 6 590 910 4725634 4725309 2.690000e-105 392.0
61 TraesCS2D01G236300 chr7A 93.671 237 15 0 2504 2740 618430972 618431208 3.540000e-94 355.0
62 TraesCS2D01G236300 chr7A 93.506 231 11 3 2412 2640 575560596 575560824 9.900000e-90 340.0
63 TraesCS2D01G236300 chr1D 87.463 335 29 10 588 911 69690322 69689990 9.760000e-100 374.0
64 TraesCS2D01G236300 chr1D 93.966 232 9 4 2412 2640 123237900 123238129 2.130000e-91 346.0
65 TraesCS2D01G236300 chr1D 88.596 114 10 1 974 1084 24594914 24595027 5.010000e-28 135.0
66 TraesCS2D01G236300 chr1D 87.931 58 7 0 2828 2885 171857159 171857216 5.160000e-08 69.4
67 TraesCS2D01G236300 chr5D 80.705 539 49 27 1616 2139 539586501 539586003 4.540000e-98 368.0
68 TraesCS2D01G236300 chr5D 81.053 95 14 3 2794 2885 248137415 248137508 3.990000e-09 73.1
69 TraesCS2D01G236300 chr2A 100.000 29 0 0 2857 2885 243623963 243623935 1.000000e-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 TraesCS2D01G236300 chr2D 233137335 233140219 2884 True 5328.00 5328 100.000000 1 2885 1 chr2D.!!$R1 2884
1 TraesCS2D01G236300 chr6D 283302399 283305231 2832 True 2243.50 3679 94.048500 1 2782 2 chr6D.!!$R1 2781
2 TraesCS2D01G236300 chr6D 455890388 455891331 943 True 348.00 525 87.520000 905 1613 2 chr6D.!!$R2 708
3 TraesCS2D01G236300 chr3A 61628631 61630136 1505 False 1244.55 2427 94.292000 1252 2782 2 chr3A.!!$F1 1530
4 TraesCS2D01G236300 chr1A 26844749 26846252 1503 False 2409.00 2409 95.366000 1252 2782 1 chr1A.!!$F1 1530
5 TraesCS2D01G236300 chr1A 50461225 50462728 1503 True 2386.00 2386 95.104000 1252 2782 1 chr1A.!!$R1 1530
6 TraesCS2D01G236300 chr6B 505325571 505326775 1204 False 938.00 1216 95.213500 1613 2782 2 chr6B.!!$F2 1169
7 TraesCS2D01G236300 chr6B 693098937 693099869 932 True 250.50 340 85.246500 1009 1615 2 chr6B.!!$R1 606
8 TraesCS2D01G236300 chr6B 693124562 693125520 958 True 212.00 267 86.002667 905 1613 3 chr6B.!!$R2 708
9 TraesCS2D01G236300 chr1B 76952846 76954049 1203 False 868.50 1107 93.406000 1613 2782 2 chr1B.!!$F1 1169
10 TraesCS2D01G236300 chr1B 458108070 458108647 577 True 725.00 725 89.880000 9 569 1 chr1B.!!$R1 560
11 TraesCS2D01G236300 chr1B 659105060 659105664 604 True 610.00 610 85.550000 1 584 1 chr1B.!!$R2 583
12 TraesCS2D01G236300 chr1B 659195890 659196494 604 True 566.00 566 84.262000 1 584 1 chr1B.!!$R3 583
13 TraesCS2D01G236300 chr7B 656879487 656880006 519 False 654.00 654 89.484000 1 518 1 chr7B.!!$F1 517
14 TraesCS2D01G236300 chr7B 706374942 706375912 970 True 458.90 828 91.578000 2 989 2 chr7B.!!$R3 987
15 TraesCS2D01G236300 chr5B 93538728 93539660 932 False 428.50 736 91.361000 1 969 2 chr5B.!!$F2 968
16 TraesCS2D01G236300 chr2B 91293218 91294182 964 False 412.90 736 96.257000 1 984 2 chr2B.!!$F1 983
17 TraesCS2D01G236300 chr4B 560497570 560498167 597 False 728.00 728 89.203000 1 580 1 chr4B.!!$F1 579
18 TraesCS2D01G236300 chr3B 805917170 805917769 599 True 725.00 725 89.109000 1 580 1 chr3B.!!$R2 579
19 TraesCS2D01G236300 chr5A 43187771 43188373 602 False 699.00 699 88.245000 1 580 1 chr5A.!!$F1 579
20 TraesCS2D01G236300 chr6A 602710568 602711542 974 True 387.50 616 88.085500 905 1613 2 chr6A.!!$R2 708
21 TraesCS2D01G236300 chr7D 142214821 142215421 600 True 580.00 580 84.818000 1 580 1 chr7D.!!$R1 579
22 TraesCS2D01G236300 chr4D 410093462 410094057 595 False 455.00 455 81.188000 1 580 1 chr4D.!!$F2 579

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
832 942 1.135228 GCTCCGTCTCTGTCTCCTTTC 60.135 57.143 0.0 0.0 0.0 2.62 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2804 3479 0.179 CCGCCATCCAGCTTCTACTT 59.821 55.0 0.0 0.0 0.0 2.24 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
699 809 3.024356 TCGCCCTCTCCTCCTCCT 61.024 66.667 0.00 0.00 0.00 3.69
753 863 4.296729 ACGACCCACCCCGTCTCT 62.297 66.667 0.00 0.00 33.23 3.10
759 869 4.394712 CACCCCGTCTCTGTGCCC 62.395 72.222 0.00 0.00 0.00 5.36
800 910 2.105128 GCGTCTGAGTCCCATCCG 59.895 66.667 0.00 0.00 0.00 4.18
832 942 1.135228 GCTCCGTCTCTGTCTCCTTTC 60.135 57.143 0.00 0.00 0.00 2.62
1080 1302 2.677337 GAGCTACGACTACGACCTCTTT 59.323 50.000 0.00 0.00 42.66 2.52
1224 1467 4.870426 TGTTATTCAGCTGAGATTCGGTTC 59.130 41.667 17.43 3.16 0.00 3.62
1288 1531 1.847798 CTCCCGTTCCACCCCATCAA 61.848 60.000 0.00 0.00 0.00 2.57
1371 1625 3.806521 TGCGTTTTTGTTGCTGCAATTAT 59.193 34.783 19.11 0.00 0.00 1.28
1459 1871 7.341805 AGAAGATACTGGTGCATCAAAGTTAT 58.658 34.615 0.00 0.00 0.00 1.89
1530 2162 1.526917 CGGGTGGGAGATCAATGGC 60.527 63.158 0.00 0.00 0.00 4.40
1639 2277 6.416415 TGTAGAAGTTTGGTTCCAAGTACAA 58.584 36.000 4.44 0.00 0.00 2.41
1642 2280 5.891551 AGAAGTTTGGTTCCAAGTACAACAT 59.108 36.000 4.44 0.00 0.00 2.71
1873 2512 0.809385 ATCGTCGGAATGTCGTCTGT 59.191 50.000 0.00 0.00 0.00 3.41
1918 2557 5.645497 ACAAGGATATGTTTGTCTTCTGCTC 59.355 40.000 0.00 0.00 32.32 4.26
2034 2673 1.067071 GTACCTGAAGTTGCGGTAGCT 60.067 52.381 0.00 0.00 45.42 3.32
2244 2888 6.140737 CAGATTGAAAAACCTCGAAACGAAAG 59.859 38.462 0.00 0.00 34.74 2.62
2300 2944 4.336889 AGAAAATCCACAGACTGACGAA 57.663 40.909 10.08 0.00 0.00 3.85
2627 3302 2.101582 TGTTGTTGTATGGCAAACACCC 59.898 45.455 2.84 0.00 39.03 4.61
2787 3462 7.992180 ACATCACATGTTTCTTTTCAAGAAC 57.008 32.000 0.00 0.00 46.53 3.01
2788 3463 7.546358 ACATCACATGTTTCTTTTCAAGAACA 58.454 30.769 0.00 2.27 46.53 3.18
2789 3464 8.199449 ACATCACATGTTTCTTTTCAAGAACAT 58.801 29.630 0.00 4.19 46.53 2.71
2790 3465 9.681692 CATCACATGTTTCTTTTCAAGAACATA 57.318 29.630 0.00 0.00 46.53 2.29
2791 3466 9.683069 ATCACATGTTTCTTTTCAAGAACATAC 57.317 29.630 0.00 0.00 46.53 2.39
2792 3467 8.902806 TCACATGTTTCTTTTCAAGAACATACT 58.097 29.630 0.00 0.00 46.53 2.12
2793 3468 8.961092 CACATGTTTCTTTTCAAGAACATACTG 58.039 33.333 0.00 3.13 46.53 2.74
2794 3469 8.686334 ACATGTTTCTTTTCAAGAACATACTGT 58.314 29.630 0.00 1.58 46.53 3.55
2795 3470 9.173939 CATGTTTCTTTTCAAGAACATACTGTC 57.826 33.333 0.00 0.00 46.53 3.51
2796 3471 8.506168 TGTTTCTTTTCAAGAACATACTGTCT 57.494 30.769 0.00 0.00 46.53 3.41
2797 3472 9.607988 TGTTTCTTTTCAAGAACATACTGTCTA 57.392 29.630 0.00 0.00 46.53 2.59
2800 3475 8.833231 TCTTTTCAAGAACATACTGTCTAAGG 57.167 34.615 0.00 0.00 33.83 2.69
2801 3476 7.387948 TCTTTTCAAGAACATACTGTCTAAGGC 59.612 37.037 0.00 0.00 33.83 4.35
2802 3477 6.360370 TTCAAGAACATACTGTCTAAGGCT 57.640 37.500 0.00 0.00 0.00 4.58
2803 3478 5.724328 TCAAGAACATACTGTCTAAGGCTG 58.276 41.667 0.00 0.00 0.00 4.85
2804 3479 5.480422 TCAAGAACATACTGTCTAAGGCTGA 59.520 40.000 0.00 0.00 0.00 4.26
2805 3480 6.014584 TCAAGAACATACTGTCTAAGGCTGAA 60.015 38.462 0.00 0.00 0.00 3.02
2806 3481 5.971763 AGAACATACTGTCTAAGGCTGAAG 58.028 41.667 0.00 0.00 0.00 3.02
2807 3482 5.482175 AGAACATACTGTCTAAGGCTGAAGT 59.518 40.000 0.00 0.00 0.00 3.01
2808 3483 6.663953 AGAACATACTGTCTAAGGCTGAAGTA 59.336 38.462 0.00 0.00 0.00 2.24
2809 3484 6.458232 ACATACTGTCTAAGGCTGAAGTAG 57.542 41.667 0.00 0.00 0.00 2.57
2810 3485 6.188407 ACATACTGTCTAAGGCTGAAGTAGA 58.812 40.000 0.00 0.00 0.00 2.59
2811 3486 6.663953 ACATACTGTCTAAGGCTGAAGTAGAA 59.336 38.462 0.00 0.00 0.00 2.10
2812 3487 5.652994 ACTGTCTAAGGCTGAAGTAGAAG 57.347 43.478 0.00 0.00 0.00 2.85
2813 3488 4.081917 ACTGTCTAAGGCTGAAGTAGAAGC 60.082 45.833 0.00 0.00 38.76 3.86
2814 3489 4.090090 TGTCTAAGGCTGAAGTAGAAGCT 58.910 43.478 0.00 0.00 39.46 3.74
2815 3490 4.081972 TGTCTAAGGCTGAAGTAGAAGCTG 60.082 45.833 0.00 0.00 39.46 4.24
2816 3491 2.777832 AAGGCTGAAGTAGAAGCTGG 57.222 50.000 0.00 0.00 39.46 4.85
2817 3492 1.944177 AGGCTGAAGTAGAAGCTGGA 58.056 50.000 0.00 0.00 39.46 3.86
2818 3493 2.476199 AGGCTGAAGTAGAAGCTGGAT 58.524 47.619 0.00 0.00 39.46 3.41
2819 3494 2.170187 AGGCTGAAGTAGAAGCTGGATG 59.830 50.000 0.00 0.00 39.46 3.51
2820 3495 2.559440 GCTGAAGTAGAAGCTGGATGG 58.441 52.381 0.00 0.00 36.47 3.51
2821 3496 2.559440 CTGAAGTAGAAGCTGGATGGC 58.441 52.381 0.00 0.00 0.00 4.40
2822 3497 1.134699 TGAAGTAGAAGCTGGATGGCG 60.135 52.381 0.00 0.00 37.29 5.69
2823 3498 0.179000 AAGTAGAAGCTGGATGGCGG 59.821 55.000 0.00 0.00 37.29 6.13
2824 3499 1.889573 GTAGAAGCTGGATGGCGGC 60.890 63.158 0.00 0.00 37.29 6.53
2825 3500 3.445518 TAGAAGCTGGATGGCGGCG 62.446 63.158 0.51 0.51 37.29 6.46
2851 3526 5.857268 CCCCCTTTTTATTCCTGCAATATG 58.143 41.667 0.00 0.00 0.00 1.78
2852 3527 5.299949 CCCCTTTTTATTCCTGCAATATGC 58.700 41.667 0.00 0.00 45.29 3.14
2863 3538 1.762419 GCAATATGCATCGTGCCTTG 58.238 50.000 19.14 9.38 44.23 3.61
2864 3539 1.066002 GCAATATGCATCGTGCCTTGT 59.934 47.619 19.14 0.00 44.23 3.16
2865 3540 2.723209 CAATATGCATCGTGCCTTGTG 58.277 47.619 0.19 0.00 44.23 3.33
2866 3541 1.311859 ATATGCATCGTGCCTTGTGG 58.688 50.000 0.19 0.00 44.23 4.17
2867 3542 0.251634 TATGCATCGTGCCTTGTGGA 59.748 50.000 0.19 0.00 44.23 4.02
2868 3543 1.028330 ATGCATCGTGCCTTGTGGAG 61.028 55.000 0.00 0.00 44.23 3.86
2877 3552 3.927555 CCTTGTGGAGGCGTAAGAA 57.072 52.632 0.00 0.00 39.09 2.52
2878 3553 1.439679 CCTTGTGGAGGCGTAAGAAC 58.560 55.000 0.00 0.00 39.09 3.01
2879 3554 1.002087 CCTTGTGGAGGCGTAAGAACT 59.998 52.381 0.00 0.00 39.09 3.01
2880 3555 2.550208 CCTTGTGGAGGCGTAAGAACTT 60.550 50.000 0.00 0.00 39.09 2.66
2881 3556 3.306502 CCTTGTGGAGGCGTAAGAACTTA 60.307 47.826 0.00 0.00 39.09 2.24
2882 3557 4.504858 CTTGTGGAGGCGTAAGAACTTAT 58.495 43.478 0.00 0.00 43.02 1.73
2883 3558 3.857052 TGTGGAGGCGTAAGAACTTATG 58.143 45.455 8.82 8.82 43.02 1.90
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
832 942 3.770040 TGCGGATCACCTCCCACG 61.770 66.667 0.00 0.00 41.49 4.94
1190 1418 1.138036 GAATAACAAACCGCGGGGC 59.862 57.895 31.76 3.41 36.48 5.80
1224 1467 5.961843 CGAAAATCACCTCAGAATTTCATCG 59.038 40.000 0.00 0.00 37.29 3.84
1288 1531 2.370445 CCTCCCAGCCAATCCGAGT 61.370 63.158 0.00 0.00 0.00 4.18
1371 1625 5.303845 AGCACACATAGATAGATTCAGAGCA 59.696 40.000 0.00 0.00 0.00 4.26
1530 2162 5.666969 TTTTCCAGTTGTAGTTGATGTCG 57.333 39.130 0.00 0.00 0.00 4.35
1639 2277 4.501915 CCATGAACTTTGTGGCTGAAATGT 60.502 41.667 0.00 0.00 0.00 2.71
1642 2280 3.731652 CCATGAACTTTGTGGCTGAAA 57.268 42.857 0.00 0.00 0.00 2.69
1707 2345 2.095668 GGCTATCGACTATCACACTCCG 60.096 54.545 0.00 0.00 0.00 4.63
1873 2512 1.742411 CGGAAGAAATTAGCCTCCGCA 60.742 52.381 5.63 0.00 37.52 5.69
2244 2888 3.041946 TCTTCCCTAGGGATCAGAAAGC 58.958 50.000 31.52 0.00 44.74 3.51
2289 2933 0.798776 GCAATGGGTTCGTCAGTCTG 59.201 55.000 0.00 0.00 0.00 3.51
2300 2944 1.380785 CAGGATGCAGGCAATGGGT 60.381 57.895 0.00 0.00 0.00 4.51
2581 3256 8.935844 CAGCAGTAGTACAAAGATGTTTGATTA 58.064 33.333 21.09 7.89 45.22 1.75
2627 3302 4.678287 GCATCACAAATATGATTTGCCTCG 59.322 41.667 11.00 1.32 37.20 4.63
2787 3462 6.701145 TCTACTTCAGCCTTAGACAGTATG 57.299 41.667 0.00 0.00 46.00 2.39
2788 3463 6.183360 GCTTCTACTTCAGCCTTAGACAGTAT 60.183 42.308 0.00 0.00 0.00 2.12
2789 3464 5.125739 GCTTCTACTTCAGCCTTAGACAGTA 59.874 44.000 0.00 0.00 0.00 2.74
2790 3465 4.081917 GCTTCTACTTCAGCCTTAGACAGT 60.082 45.833 0.00 0.00 0.00 3.55
2791 3466 4.159506 AGCTTCTACTTCAGCCTTAGACAG 59.840 45.833 0.00 0.00 36.62 3.51
2792 3467 4.081972 CAGCTTCTACTTCAGCCTTAGACA 60.082 45.833 0.00 0.00 36.62 3.41
2793 3468 4.429108 CAGCTTCTACTTCAGCCTTAGAC 58.571 47.826 0.00 0.00 36.62 2.59
2794 3469 3.449018 CCAGCTTCTACTTCAGCCTTAGA 59.551 47.826 0.00 0.00 36.62 2.10
2795 3470 3.449018 TCCAGCTTCTACTTCAGCCTTAG 59.551 47.826 0.00 0.00 36.62 2.18
2796 3471 3.441101 TCCAGCTTCTACTTCAGCCTTA 58.559 45.455 0.00 0.00 36.62 2.69
2797 3472 2.260822 TCCAGCTTCTACTTCAGCCTT 58.739 47.619 0.00 0.00 36.62 4.35
2798 3473 1.944177 TCCAGCTTCTACTTCAGCCT 58.056 50.000 0.00 0.00 36.62 4.58
2799 3474 2.559440 CATCCAGCTTCTACTTCAGCC 58.441 52.381 0.00 0.00 36.62 4.85
2800 3475 2.559440 CCATCCAGCTTCTACTTCAGC 58.441 52.381 0.00 0.00 36.16 4.26
2801 3476 2.559440 GCCATCCAGCTTCTACTTCAG 58.441 52.381 0.00 0.00 0.00 3.02
2802 3477 1.134699 CGCCATCCAGCTTCTACTTCA 60.135 52.381 0.00 0.00 0.00 3.02
2803 3478 1.576356 CGCCATCCAGCTTCTACTTC 58.424 55.000 0.00 0.00 0.00 3.01
2804 3479 0.179000 CCGCCATCCAGCTTCTACTT 59.821 55.000 0.00 0.00 0.00 2.24
2805 3480 1.826024 CCGCCATCCAGCTTCTACT 59.174 57.895 0.00 0.00 0.00 2.57
2806 3481 1.889573 GCCGCCATCCAGCTTCTAC 60.890 63.158 0.00 0.00 0.00 2.59
2807 3482 2.505982 GCCGCCATCCAGCTTCTA 59.494 61.111 0.00 0.00 0.00 2.10
2808 3483 4.845580 CGCCGCCATCCAGCTTCT 62.846 66.667 0.00 0.00 0.00 2.85
2828 3503 5.742838 GCATATTGCAGGAATAAAAAGGGGG 60.743 44.000 0.00 0.00 44.26 5.40
2829 3504 5.299949 GCATATTGCAGGAATAAAAAGGGG 58.700 41.667 0.00 0.00 44.26 4.79
2851 3526 2.401766 CCTCCACAAGGCACGATGC 61.402 63.158 0.00 0.00 44.08 3.91
2852 3527 3.895025 CCTCCACAAGGCACGATG 58.105 61.111 0.00 0.00 38.67 3.84
2860 3535 2.457366 AGTTCTTACGCCTCCACAAG 57.543 50.000 0.00 0.00 0.00 3.16
2861 3536 2.922740 AAGTTCTTACGCCTCCACAA 57.077 45.000 0.00 0.00 0.00 3.33
2862 3537 3.857052 CATAAGTTCTTACGCCTCCACA 58.143 45.455 0.00 0.00 0.00 4.17
2863 3538 2.608090 GCATAAGTTCTTACGCCTCCAC 59.392 50.000 0.01 0.00 0.00 4.02
2864 3539 2.901249 GCATAAGTTCTTACGCCTCCA 58.099 47.619 0.01 0.00 0.00 3.86


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

AutoCloner maintained by Alex Coulton.