Multiple sequence alignment - TraesCS2A01G373300

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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 TraesCS2A01G373300 chr2A 100.000 3335 0 0 1 3335 615703359 615700025 0.000000e+00 6159.0
1 TraesCS2A01G373300 chr2A 87.925 265 30 2 2589 2853 680295311 680295573 8.980000e-81 311.0
2 TraesCS2A01G373300 chr2A 82.069 290 48 3 2589 2876 187199819 187200106 9.240000e-61 244.0
3 TraesCS2A01G373300 chr2D 96.082 1608 51 4 848 2455 473700400 473698805 0.000000e+00 2610.0
4 TraesCS2A01G373300 chr2D 88.386 508 49 4 2836 3333 314228917 314229424 1.320000e-168 603.0
5 TraesCS2A01G373300 chr2D 89.804 255 22 4 2589 2843 314196059 314196309 1.150000e-84 324.0
6 TraesCS2A01G373300 chr2B 94.327 1657 67 8 848 2495 554290680 554289042 0.000000e+00 2514.0
7 TraesCS2A01G373300 chr2B 89.231 520 34 16 1 500 221999463 221998946 6.070000e-177 630.0
8 TraesCS2A01G373300 chr2B 89.320 515 38 15 1 500 775130019 775130531 6.070000e-177 630.0
9 TraesCS2A01G373300 chr2B 84.706 510 51 7 2589 3075 530727955 530728460 5.000000e-133 484.0
10 TraesCS2A01G373300 chr2B 88.235 170 16 3 514 682 221998463 221998297 2.030000e-47 200.0
11 TraesCS2A01G373300 chr6B 99.060 851 8 0 1 851 204355034 204355884 0.000000e+00 1528.0
12 TraesCS2A01G373300 chr6B 84.660 691 72 21 1 674 289783958 289783285 0.000000e+00 658.0
13 TraesCS2A01G373300 chr6B 90.078 514 35 6 1 500 16957730 16957219 0.000000e+00 652.0
14 TraesCS2A01G373300 chr6B 91.000 200 18 0 659 858 16956770 16956571 1.520000e-68 270.0
15 TraesCS2A01G373300 chr3B 94.971 855 35 5 1 852 17282339 17281490 0.000000e+00 1334.0
16 TraesCS2A01G373300 chr3B 94.737 855 41 3 1 854 117940302 117941153 0.000000e+00 1327.0
17 TraesCS2A01G373300 chr3B 96.398 805 28 1 47 851 473706157 473705354 0.000000e+00 1325.0
18 TraesCS2A01G373300 chr3B 89.515 515 37 15 1 500 4541334 4541846 1.310000e-178 636.0
19 TraesCS2A01G373300 chr3B 90.155 193 19 0 659 851 4542088 4542280 5.520000e-63 252.0
20 TraesCS2A01G373300 chr3B 97.959 49 1 0 1 49 473706361 473706313 5.930000e-13 86.1
21 TraesCS2A01G373300 chr7D 89.150 765 57 20 2589 3333 556638073 556637315 0.000000e+00 929.0
22 TraesCS2A01G373300 chr7D 86.658 787 56 23 2589 3333 127694715 127695494 0.000000e+00 826.0
23 TraesCS2A01G373300 chr7D 89.432 511 38 11 2836 3333 410056420 410055913 6.070000e-177 630.0
24 TraesCS2A01G373300 chr7D 89.811 265 26 1 2589 2853 79613483 79613746 4.120000e-89 339.0
25 TraesCS2A01G373300 chr4A 85.696 776 75 12 2589 3332 703223039 703223810 0.000000e+00 785.0
26 TraesCS2A01G373300 chr3D 90.927 496 41 4 2840 3333 351285005 351285498 0.000000e+00 664.0
27 TraesCS2A01G373300 chr3D 93.438 320 16 3 1 318 576313395 576313079 1.400000e-128 470.0
28 TraesCS2A01G373300 chr3D 85.000 220 17 6 651 858 576312620 576312405 3.370000e-50 209.0
29 TraesCS2A01G373300 chr7B 89.608 510 40 11 2837 3334 425477343 425477851 1.310000e-178 636.0
30 TraesCS2A01G373300 chr7B 86.408 206 27 1 653 858 390741303 390741507 1.200000e-54 224.0
31 TraesCS2A01G373300 chr7B 86.429 140 19 0 719 858 602310981 602310842 1.600000e-33 154.0
32 TraesCS2A01G373300 chr1B 89.600 500 48 3 2838 3333 262525880 262525381 1.690000e-177 632.0
33 TraesCS2A01G373300 chr5B 89.733 487 49 1 2848 3333 476789523 476789037 3.650000e-174 621.0
34 TraesCS2A01G373300 chr5D 88.025 476 47 6 2863 3329 356897661 356897187 3.760000e-154 555.0
35 TraesCS2A01G373300 chr5D 85.824 261 34 3 2593 2853 356897974 356897717 1.180000e-69 274.0
36 TraesCS2A01G373300 chrUn 82.873 543 51 15 2589 3106 1800635 1800110 1.820000e-122 449.0
37 TraesCS2A01G373300 chr4B 82.965 452 45 7 2589 3008 13389790 13389339 2.430000e-101 379.0


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 TraesCS2A01G373300 chr2A 615700025 615703359 3334 True 6159.00 6159 100.0000 1 3335 1 chr2A.!!$R1 3334
1 TraesCS2A01G373300 chr2D 473698805 473700400 1595 True 2610.00 2610 96.0820 848 2455 1 chr2D.!!$R1 1607
2 TraesCS2A01G373300 chr2D 314228917 314229424 507 False 603.00 603 88.3860 2836 3333 1 chr2D.!!$F2 497
3 TraesCS2A01G373300 chr2B 554289042 554290680 1638 True 2514.00 2514 94.3270 848 2495 1 chr2B.!!$R1 1647
4 TraesCS2A01G373300 chr2B 775130019 775130531 512 False 630.00 630 89.3200 1 500 1 chr2B.!!$F2 499
5 TraesCS2A01G373300 chr2B 530727955 530728460 505 False 484.00 484 84.7060 2589 3075 1 chr2B.!!$F1 486
6 TraesCS2A01G373300 chr2B 221998297 221999463 1166 True 415.00 630 88.7330 1 682 2 chr2B.!!$R2 681
7 TraesCS2A01G373300 chr6B 204355034 204355884 850 False 1528.00 1528 99.0600 1 851 1 chr6B.!!$F1 850
8 TraesCS2A01G373300 chr6B 289783285 289783958 673 True 658.00 658 84.6600 1 674 1 chr6B.!!$R1 673
9 TraesCS2A01G373300 chr6B 16956571 16957730 1159 True 461.00 652 90.5390 1 858 2 chr6B.!!$R2 857
10 TraesCS2A01G373300 chr3B 17281490 17282339 849 True 1334.00 1334 94.9710 1 852 1 chr3B.!!$R1 851
11 TraesCS2A01G373300 chr3B 117940302 117941153 851 False 1327.00 1327 94.7370 1 854 1 chr3B.!!$F1 853
12 TraesCS2A01G373300 chr3B 473705354 473706361 1007 True 705.55 1325 97.1785 1 851 2 chr3B.!!$R2 850
13 TraesCS2A01G373300 chr3B 4541334 4542280 946 False 444.00 636 89.8350 1 851 2 chr3B.!!$F2 850
14 TraesCS2A01G373300 chr7D 556637315 556638073 758 True 929.00 929 89.1500 2589 3333 1 chr7D.!!$R2 744
15 TraesCS2A01G373300 chr7D 127694715 127695494 779 False 826.00 826 86.6580 2589 3333 1 chr7D.!!$F2 744
16 TraesCS2A01G373300 chr7D 410055913 410056420 507 True 630.00 630 89.4320 2836 3333 1 chr7D.!!$R1 497
17 TraesCS2A01G373300 chr4A 703223039 703223810 771 False 785.00 785 85.6960 2589 3332 1 chr4A.!!$F1 743
18 TraesCS2A01G373300 chr3D 576312405 576313395 990 True 339.50 470 89.2190 1 858 2 chr3D.!!$R1 857
19 TraesCS2A01G373300 chr7B 425477343 425477851 508 False 636.00 636 89.6080 2837 3334 1 chr7B.!!$F2 497
20 TraesCS2A01G373300 chr5D 356897187 356897974 787 True 414.50 555 86.9245 2593 3329 2 chr5D.!!$R1 736
21 TraesCS2A01G373300 chrUn 1800110 1800635 525 True 449.00 449 82.8730 2589 3106 1 chrUn.!!$R1 517

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
926 2006 0.808755 CCCATGTTACAAAGACCGCC 59.191 55.0 0.0 0.0 0.0 6.13 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2510 3599 0.108138 ATTCTCTGGCGAGGTTTCGG 60.108 55.0 0.0 0.0 46.76 4.3 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
603 1559 2.224523 TGCTGGTTCGAAACAGGAGAAT 60.225 45.455 36.96 0.00 35.30 2.40
870 1950 8.948631 TGACTCTAATTTTAACCTATCAGCAG 57.051 34.615 0.00 0.00 0.00 4.24
871 1951 7.495934 TGACTCTAATTTTAACCTATCAGCAGC 59.504 37.037 0.00 0.00 0.00 5.25
926 2006 0.808755 CCCATGTTACAAAGACCGCC 59.191 55.000 0.00 0.00 0.00 6.13
934 2014 4.339814 TGTTACAAAGACCGCCATCTTTTT 59.660 37.500 7.04 4.67 44.74 1.94
1125 2205 2.038975 TCCTTCCCCGTCCTCCTG 59.961 66.667 0.00 0.00 0.00 3.86
1237 2317 2.029073 CCACGACGACCAGTGCTT 59.971 61.111 0.00 0.00 37.07 3.91
1241 2321 1.007271 CGACGACCAGTGCTTCTGT 60.007 57.895 0.00 0.00 42.19 3.41
1282 2362 1.257750 CGTCTCCATGGACAGGACCA 61.258 60.000 21.02 0.00 44.41 4.02
1289 2369 1.609210 TGGACAGGACCATGCTCGA 60.609 57.895 0.00 0.00 34.77 4.04
1339 2428 1.392710 GGCGCCTCTTGCTCCTACTA 61.393 60.000 22.15 0.00 41.84 1.82
1340 2429 0.031449 GCGCCTCTTGCTCCTACTAG 59.969 60.000 0.00 0.00 38.05 2.57
1346 2435 0.386113 CTTGCTCCTACTAGACCGGC 59.614 60.000 0.00 0.00 0.00 6.13
1410 2499 2.821810 GGCCTCTTCAAGCGCCTC 60.822 66.667 2.29 0.00 37.96 4.70
1581 2670 2.610859 ACCCTCTTCCGGTGGCAT 60.611 61.111 0.00 0.00 30.39 4.40
1870 2959 4.361971 TCGTCGTCCTCAGGCCCT 62.362 66.667 0.00 0.00 0.00 5.19
2153 3242 4.776322 CGGCGGGCTGTTCATGGA 62.776 66.667 0.00 0.00 0.00 3.41
2211 3300 0.326264 AGGTGGACAACATCAGAGGC 59.674 55.000 0.00 0.00 30.48 4.70
2274 3363 0.042731 TCGAAATGGAGGAGGGGAGT 59.957 55.000 0.00 0.00 0.00 3.85
2277 3366 1.210722 GAAATGGAGGAGGGGAGTGTC 59.789 57.143 0.00 0.00 0.00 3.67
2325 3414 3.558505 CTTGTTCTGCAATTCTTCCGTG 58.441 45.455 0.00 0.00 36.36 4.94
2327 3416 0.881118 TTCTGCAATTCTTCCGTGGC 59.119 50.000 0.00 0.00 0.00 5.01
2364 3453 3.373439 GTCTTAGAACTGCATGCAGAAGG 59.627 47.826 45.50 28.25 46.30 3.46
2367 3456 1.627329 AGAACTGCATGCAGAAGGAGA 59.373 47.619 45.50 12.26 46.30 3.71
2368 3457 2.008329 GAACTGCATGCAGAAGGAGAG 58.992 52.381 45.50 23.60 46.30 3.20
2387 3476 0.665972 GATGAGAGATCGGCTTCGGC 60.666 60.000 0.00 0.00 40.88 5.54
2416 3505 1.115467 TCGTGTTTGGGTTGGCAAAT 58.885 45.000 0.00 0.00 0.00 2.32
2483 3572 2.512485 TTTGCTGCACTTGAACATGG 57.488 45.000 0.00 0.00 0.00 3.66
2495 3584 0.967380 GAACATGGCTGGGAGGGTTG 60.967 60.000 0.00 0.00 0.00 3.77
2496 3585 2.043652 CATGGCTGGGAGGGTTGG 60.044 66.667 0.00 0.00 0.00 3.77
2497 3586 3.350163 ATGGCTGGGAGGGTTGGG 61.350 66.667 0.00 0.00 0.00 4.12
2498 3587 4.938756 TGGCTGGGAGGGTTGGGT 62.939 66.667 0.00 0.00 0.00 4.51
2499 3588 4.366684 GGCTGGGAGGGTTGGGTG 62.367 72.222 0.00 0.00 0.00 4.61
2501 3590 4.366684 CTGGGAGGGTTGGGTGCC 62.367 72.222 0.00 0.00 0.00 5.01
2519 3608 3.423154 CCGCTGCACCGAAACCTC 61.423 66.667 2.22 0.00 0.00 3.85
2520 3609 3.777925 CGCTGCACCGAAACCTCG 61.778 66.667 0.00 0.00 45.02 4.63
2521 3610 4.090057 GCTGCACCGAAACCTCGC 62.090 66.667 0.00 0.00 44.04 5.03
2522 3611 3.423154 CTGCACCGAAACCTCGCC 61.423 66.667 0.00 0.00 44.04 5.54
2523 3612 4.243008 TGCACCGAAACCTCGCCA 62.243 61.111 0.00 0.00 44.04 5.69
2524 3613 3.423154 GCACCGAAACCTCGCCAG 61.423 66.667 0.00 0.00 44.04 4.85
2525 3614 2.342279 CACCGAAACCTCGCCAGA 59.658 61.111 0.00 0.00 44.04 3.86
2526 3615 1.738099 CACCGAAACCTCGCCAGAG 60.738 63.158 0.00 0.00 44.04 3.35
2537 3626 0.537188 TCGCCAGAGAATTGAGTCCC 59.463 55.000 0.00 0.00 0.00 4.46
2538 3627 0.250234 CGCCAGAGAATTGAGTCCCA 59.750 55.000 0.00 0.00 0.00 4.37
2539 3628 1.743996 GCCAGAGAATTGAGTCCCAC 58.256 55.000 0.00 0.00 0.00 4.61
2540 3629 1.280421 GCCAGAGAATTGAGTCCCACT 59.720 52.381 0.00 0.00 0.00 4.00
2541 3630 2.501723 GCCAGAGAATTGAGTCCCACTA 59.498 50.000 0.00 0.00 0.00 2.74
2542 3631 3.135530 GCCAGAGAATTGAGTCCCACTAT 59.864 47.826 0.00 0.00 0.00 2.12
2543 3632 4.742138 GCCAGAGAATTGAGTCCCACTATC 60.742 50.000 0.00 0.00 0.00 2.08
2544 3633 4.653341 CCAGAGAATTGAGTCCCACTATCT 59.347 45.833 0.00 0.00 0.00 1.98
2545 3634 5.835819 CCAGAGAATTGAGTCCCACTATCTA 59.164 44.000 0.00 0.00 0.00 1.98
2546 3635 6.496565 CCAGAGAATTGAGTCCCACTATCTAT 59.503 42.308 0.00 0.00 0.00 1.98
2547 3636 7.309744 CCAGAGAATTGAGTCCCACTATCTATC 60.310 44.444 0.00 0.00 0.00 2.08
2548 3637 7.451255 CAGAGAATTGAGTCCCACTATCTATCT 59.549 40.741 0.00 0.00 0.00 1.98
2549 3638 8.010105 AGAGAATTGAGTCCCACTATCTATCTT 58.990 37.037 0.00 0.00 0.00 2.40
2550 3639 9.303116 GAGAATTGAGTCCCACTATCTATCTTA 57.697 37.037 0.00 0.00 0.00 2.10
2551 3640 9.661954 AGAATTGAGTCCCACTATCTATCTTAA 57.338 33.333 0.00 0.00 0.00 1.85
2555 3644 7.727181 TGAGTCCCACTATCTATCTTAAAAGC 58.273 38.462 0.00 0.00 0.00 3.51
2556 3645 7.344612 TGAGTCCCACTATCTATCTTAAAAGCA 59.655 37.037 0.00 0.00 0.00 3.91
2557 3646 8.268878 AGTCCCACTATCTATCTTAAAAGCAT 57.731 34.615 0.00 0.00 0.00 3.79
2558 3647 8.371699 AGTCCCACTATCTATCTTAAAAGCATC 58.628 37.037 0.00 0.00 0.00 3.91
2559 3648 8.371699 GTCCCACTATCTATCTTAAAAGCATCT 58.628 37.037 0.00 0.00 0.00 2.90
2560 3649 8.589338 TCCCACTATCTATCTTAAAAGCATCTC 58.411 37.037 0.00 0.00 0.00 2.75
2561 3650 7.821846 CCCACTATCTATCTTAAAAGCATCTCC 59.178 40.741 0.00 0.00 0.00 3.71
2562 3651 8.370940 CCACTATCTATCTTAAAAGCATCTCCA 58.629 37.037 0.00 0.00 0.00 3.86
2563 3652 9.770097 CACTATCTATCTTAAAAGCATCTCCAA 57.230 33.333 0.00 0.00 0.00 3.53
2571 3660 8.635765 TCTTAAAAGCATCTCCAATAAACAGT 57.364 30.769 0.00 0.00 0.00 3.55
2572 3661 8.730680 TCTTAAAAGCATCTCCAATAAACAGTC 58.269 33.333 0.00 0.00 0.00 3.51
2573 3662 5.904362 AAAGCATCTCCAATAAACAGTCC 57.096 39.130 0.00 0.00 0.00 3.85
2574 3663 4.574674 AGCATCTCCAATAAACAGTCCA 57.425 40.909 0.00 0.00 0.00 4.02
2575 3664 5.121380 AGCATCTCCAATAAACAGTCCAT 57.879 39.130 0.00 0.00 0.00 3.41
2576 3665 6.252599 AGCATCTCCAATAAACAGTCCATA 57.747 37.500 0.00 0.00 0.00 2.74
2577 3666 6.845908 AGCATCTCCAATAAACAGTCCATAT 58.154 36.000 0.00 0.00 0.00 1.78
2578 3667 6.713903 AGCATCTCCAATAAACAGTCCATATG 59.286 38.462 0.00 0.00 0.00 1.78
2579 3668 6.488006 GCATCTCCAATAAACAGTCCATATGT 59.512 38.462 1.24 0.00 0.00 2.29
2580 3669 7.661437 GCATCTCCAATAAACAGTCCATATGTA 59.339 37.037 1.24 0.00 0.00 2.29
2581 3670 9.559732 CATCTCCAATAAACAGTCCATATGTAA 57.440 33.333 1.24 0.00 0.00 2.41
2583 3672 9.967451 TCTCCAATAAACAGTCCATATGTAAAA 57.033 29.630 1.24 0.00 0.00 1.52
2585 3674 9.747898 TCCAATAAACAGTCCATATGTAAAAGT 57.252 29.630 1.24 0.00 0.00 2.66
2637 3727 2.682856 TCAAGAACAGAAAACGCTGCTT 59.317 40.909 0.00 0.00 39.51 3.91
2680 3773 5.722021 AAAAAGAATTACATCACCGCCTT 57.278 34.783 0.00 0.00 0.00 4.35
2702 3795 7.547227 CCTTCCGGAGATGTAAAATTGAAAAT 58.453 34.615 3.34 0.00 0.00 1.82
2943 4120 4.002797 GGCTGGATTTGCCGACTT 57.997 55.556 0.00 0.00 41.03 3.01
2974 4151 1.627834 GCAGCCCATATAGCTCCTCTT 59.372 52.381 0.00 0.00 38.95 2.85
3006 4183 2.355193 GCTCCCTTCTCCTCTGCGT 61.355 63.158 0.00 0.00 0.00 5.24
3022 4215 4.664677 GTCACCGTCCGCAGCAGT 62.665 66.667 0.00 0.00 0.00 4.40
3050 4243 1.281867 CCAACCACTGGCCATCTTCTA 59.718 52.381 5.51 0.00 38.76 2.10
3077 4271 1.947146 CGCACAAGGTGTTCGACGA 60.947 57.895 0.00 0.00 39.26 4.20
3218 4416 0.036765 TCGTGGGACGAGGAATTTGG 60.037 55.000 0.00 0.00 46.73 3.28
3323 4522 1.272490 TGCGTTCATTCGGAGAGAACT 59.728 47.619 17.01 0.00 42.39 3.01
3329 4528 4.808414 TCATTCGGAGAGAACTGATTGT 57.192 40.909 0.00 0.00 42.39 2.71
3330 4529 4.498241 TCATTCGGAGAGAACTGATTGTG 58.502 43.478 0.00 0.00 42.39 3.33
3331 4530 2.370281 TCGGAGAGAACTGATTGTGC 57.630 50.000 0.00 0.00 0.00 4.57
3332 4531 1.618343 TCGGAGAGAACTGATTGTGCA 59.382 47.619 0.00 0.00 0.00 4.57
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
372 603 9.884465 GCTACATGACCAATAACTTTTGATATC 57.116 33.333 0.00 0.00 0.00 1.63
863 1943 0.106669 ACTGCATGATGGCTGCTGAT 60.107 50.000 9.69 0.00 39.96 2.90
866 1946 0.106669 ATGACTGCATGATGGCTGCT 60.107 50.000 0.00 0.00 40.34 4.24
901 1981 3.245122 GGTCTTTGTAACATGGGAAGGGA 60.245 47.826 0.00 0.00 0.00 4.20
1125 2205 2.047002 AGACGAGGGAGAAGAGTAGC 57.953 55.000 0.00 0.00 0.00 3.58
1289 2369 3.908081 ACGCCGTGACGTGGAACT 61.908 61.111 3.64 0.00 46.28 3.01
1339 2428 3.965694 TCTTCTTACTCTTAGCCGGTCT 58.034 45.455 1.90 3.10 0.00 3.85
1340 2429 4.082354 TGTTCTTCTTACTCTTAGCCGGTC 60.082 45.833 1.90 0.00 0.00 4.79
1346 2435 8.594881 TTTCTTGCTGTTCTTCTTACTCTTAG 57.405 34.615 0.00 0.00 0.00 2.18
1410 2499 2.515523 CGGGGAGCTTGCCTGATG 60.516 66.667 0.00 0.00 36.14 3.07
1935 3024 1.227999 CCATCACGGCGTTGTTCAGT 61.228 55.000 11.19 0.00 0.00 3.41
2153 3242 1.151810 TCCTTCCTGTCCTTGGGCT 60.152 57.895 0.00 0.00 0.00 5.19
2211 3300 3.466791 ATGGATGCCGAAGCTCCCG 62.467 63.158 0.00 0.00 40.80 5.14
2274 3363 3.000041 CGAAATCAACCTTCGGATGACA 59.000 45.455 0.00 0.00 41.50 3.58
2325 3414 0.461693 GACTCTCCTGTCATGCAGCC 60.462 60.000 10.54 0.00 43.71 4.85
2327 3416 3.698539 TCTAAGACTCTCCTGTCATGCAG 59.301 47.826 9.40 9.40 44.63 4.41
2364 3453 2.095768 CGAAGCCGATCTCTCATCTCTC 60.096 54.545 0.00 0.00 38.22 3.20
2367 3456 0.958091 CCGAAGCCGATCTCTCATCT 59.042 55.000 0.00 0.00 38.22 2.90
2368 3457 0.665972 GCCGAAGCCGATCTCTCATC 60.666 60.000 0.00 0.00 38.22 2.92
2387 3476 1.444119 CCAAACACGACACACCCCAG 61.444 60.000 0.00 0.00 0.00 4.45
2416 3505 6.999950 TCTTGCCTGTAAGTAAGATGTACAA 58.000 36.000 0.00 0.00 32.54 2.41
2456 3545 2.689471 TCAAGTGCAGCAAAATCACTGT 59.311 40.909 0.00 0.00 40.54 3.55
2502 3591 3.423154 GAGGTTTCGGTGCAGCGG 61.423 66.667 34.92 18.38 0.00 5.52
2503 3592 3.777925 CGAGGTTTCGGTGCAGCG 61.778 66.667 31.22 31.22 43.05 5.18
2504 3593 4.090057 GCGAGGTTTCGGTGCAGC 62.090 66.667 5.64 5.64 46.76 5.25
2505 3594 3.423154 GGCGAGGTTTCGGTGCAG 61.423 66.667 0.00 0.00 46.76 4.41
2506 3595 4.243008 TGGCGAGGTTTCGGTGCA 62.243 61.111 0.00 0.00 46.76 4.57
2507 3596 3.423154 CTGGCGAGGTTTCGGTGC 61.423 66.667 0.00 0.00 46.76 5.01
2508 3597 1.738099 CTCTGGCGAGGTTTCGGTG 60.738 63.158 0.00 0.00 46.76 4.94
2509 3598 1.469335 TTCTCTGGCGAGGTTTCGGT 61.469 55.000 0.00 0.00 46.76 4.69
2510 3599 0.108138 ATTCTCTGGCGAGGTTTCGG 60.108 55.000 0.00 0.00 46.76 4.30
2512 3601 2.675348 CTCAATTCTCTGGCGAGGTTTC 59.325 50.000 0.00 0.00 37.86 2.78
2513 3602 2.039084 ACTCAATTCTCTGGCGAGGTTT 59.961 45.455 0.00 0.00 37.86 3.27
2514 3603 1.625818 ACTCAATTCTCTGGCGAGGTT 59.374 47.619 0.00 1.22 37.86 3.50
2515 3604 1.205893 GACTCAATTCTCTGGCGAGGT 59.794 52.381 0.00 0.00 37.86 3.85
2516 3605 1.472376 GGACTCAATTCTCTGGCGAGG 60.472 57.143 0.00 0.00 37.86 4.63
2517 3606 1.472376 GGGACTCAATTCTCTGGCGAG 60.472 57.143 0.00 0.00 38.67 5.03
2518 3607 0.537188 GGGACTCAATTCTCTGGCGA 59.463 55.000 0.00 0.00 0.00 5.54
2519 3608 0.250234 TGGGACTCAATTCTCTGGCG 59.750 55.000 0.00 0.00 0.00 5.69
2520 3609 1.280421 AGTGGGACTCAATTCTCTGGC 59.720 52.381 0.00 0.00 0.00 4.85
2521 3610 4.653341 AGATAGTGGGACTCAATTCTCTGG 59.347 45.833 0.00 0.00 0.00 3.86
2522 3611 5.867903 AGATAGTGGGACTCAATTCTCTG 57.132 43.478 0.00 0.00 0.00 3.35
2523 3612 7.534852 AGATAGATAGTGGGACTCAATTCTCT 58.465 38.462 0.00 0.00 0.00 3.10
2524 3613 7.775053 AGATAGATAGTGGGACTCAATTCTC 57.225 40.000 0.00 0.00 0.00 2.87
2525 3614 9.661954 TTAAGATAGATAGTGGGACTCAATTCT 57.338 33.333 0.00 0.00 0.00 2.40
2529 3618 8.204836 GCTTTTAAGATAGATAGTGGGACTCAA 58.795 37.037 0.00 0.00 0.00 3.02
2530 3619 7.344612 TGCTTTTAAGATAGATAGTGGGACTCA 59.655 37.037 0.00 0.00 0.00 3.41
2531 3620 7.727181 TGCTTTTAAGATAGATAGTGGGACTC 58.273 38.462 0.00 0.00 0.00 3.36
2532 3621 7.676683 TGCTTTTAAGATAGATAGTGGGACT 57.323 36.000 0.00 0.00 0.00 3.85
2533 3622 8.371699 AGATGCTTTTAAGATAGATAGTGGGAC 58.628 37.037 0.00 0.00 0.00 4.46
2534 3623 8.497910 AGATGCTTTTAAGATAGATAGTGGGA 57.502 34.615 0.00 0.00 0.00 4.37
2535 3624 7.821846 GGAGATGCTTTTAAGATAGATAGTGGG 59.178 40.741 0.00 0.00 0.00 4.61
2536 3625 8.370940 TGGAGATGCTTTTAAGATAGATAGTGG 58.629 37.037 0.00 0.00 0.00 4.00
2537 3626 9.770097 TTGGAGATGCTTTTAAGATAGATAGTG 57.230 33.333 0.00 0.00 0.00 2.74
2545 3634 9.247861 ACTGTTTATTGGAGATGCTTTTAAGAT 57.752 29.630 0.00 0.00 0.00 2.40
2546 3635 8.635765 ACTGTTTATTGGAGATGCTTTTAAGA 57.364 30.769 0.00 0.00 0.00 2.10
2547 3636 7.970614 GGACTGTTTATTGGAGATGCTTTTAAG 59.029 37.037 0.00 0.00 0.00 1.85
2548 3637 7.450014 TGGACTGTTTATTGGAGATGCTTTTAA 59.550 33.333 0.00 0.00 0.00 1.52
2549 3638 6.945435 TGGACTGTTTATTGGAGATGCTTTTA 59.055 34.615 0.00 0.00 0.00 1.52
2550 3639 5.774690 TGGACTGTTTATTGGAGATGCTTTT 59.225 36.000 0.00 0.00 0.00 2.27
2551 3640 5.324409 TGGACTGTTTATTGGAGATGCTTT 58.676 37.500 0.00 0.00 0.00 3.51
2552 3641 4.922206 TGGACTGTTTATTGGAGATGCTT 58.078 39.130 0.00 0.00 0.00 3.91
2553 3642 4.574674 TGGACTGTTTATTGGAGATGCT 57.425 40.909 0.00 0.00 0.00 3.79
2554 3643 6.488006 ACATATGGACTGTTTATTGGAGATGC 59.512 38.462 7.80 0.00 0.00 3.91
2555 3644 9.559732 TTACATATGGACTGTTTATTGGAGATG 57.440 33.333 7.80 0.00 0.00 2.90
2557 3646 9.967451 TTTTACATATGGACTGTTTATTGGAGA 57.033 29.630 7.80 0.00 0.00 3.71
2559 3648 9.747898 ACTTTTACATATGGACTGTTTATTGGA 57.252 29.630 7.80 0.00 0.00 3.53
2618 3707 2.682856 TGAAGCAGCGTTTTCTGTTCTT 59.317 40.909 0.00 0.00 36.49 2.52
2622 3711 1.742831 TGTTGAAGCAGCGTTTTCTGT 59.257 42.857 0.00 0.00 36.49 3.41
2663 3756 1.597663 CGGAAGGCGGTGATGTAATTC 59.402 52.381 0.00 0.00 0.00 2.17
2680 3773 7.753132 CGAAATTTTCAATTTTACATCTCCGGA 59.247 33.333 2.93 2.93 0.00 5.14
3006 4183 4.662961 CACTGCTGCGGACGGTGA 62.663 66.667 16.72 0.00 45.45 4.02
3203 4401 1.067846 GCAAACCAAATTCCTCGTCCC 60.068 52.381 0.00 0.00 0.00 4.46
3218 4416 5.159209 CAATGTCCTCTTCTTCATGCAAAC 58.841 41.667 0.00 0.00 0.00 2.93


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

AutoCloner maintained by Alex Coulton.