Multiple sequence alignment - TraesCS2D01G058200

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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 TraesCS2D01G058200 chr2D 100.000 3797 0 0 1 3797 23055098 23051302 0.000000e+00 7012
1 TraesCS2D01G058200 chr2D 91.580 962 62 11 1001 1944 23046349 23045389 0.000000e+00 1310
2 TraesCS2D01G058200 chr2D 81.970 1320 155 33 1998 3270 23045283 23044000 0.000000e+00 1042
3 TraesCS2D01G058200 chr2D 85.806 937 104 17 1030 1944 23026936 23026007 0.000000e+00 966
4 TraesCS2D01G058200 chr2D 83.164 986 111 33 1001 1944 23104850 23105822 0.000000e+00 850
5 TraesCS2D01G058200 chr2D 84.464 560 63 14 1999 2558 23025905 23025370 7.220000e-147 531
6 TraesCS2D01G058200 chr2A 94.207 2641 115 10 1001 3609 24544942 24542308 0.000000e+00 3995
7 TraesCS2D01G058200 chr2A 87.652 1563 141 25 406 1944 24572527 24570993 0.000000e+00 1770
8 TraesCS2D01G058200 chr2A 87.652 1563 141 25 406 1944 24601917 24600383 0.000000e+00 1770
9 TraesCS2D01G058200 chr2A 87.588 1563 142 26 406 1944 25639676 25641210 0.000000e+00 1764
10 TraesCS2D01G058200 chr2A 90.619 533 34 8 463 995 24545493 24544977 0.000000e+00 693
11 TraesCS2D01G058200 chr2A 82.857 805 101 18 1999 2799 24570891 24570120 0.000000e+00 688
12 TraesCS2D01G058200 chr2A 82.857 805 101 18 1999 2799 24600281 24599510 0.000000e+00 688
13 TraesCS2D01G058200 chr2A 82.512 812 103 17 1994 2799 25641305 25642083 0.000000e+00 676
14 TraesCS2D01G058200 chr2A 87.261 314 39 1 2 315 24545861 24545549 1.300000e-94 357
15 TraesCS2D01G058200 chr2A 95.288 191 9 0 3607 3797 24542053 24541863 1.710000e-78 303
16 TraesCS2D01G058200 chr2A 84.884 172 26 0 527 698 24547491 24547320 1.400000e-39 174
17 TraesCS2D01G058200 chr2A 92.771 83 6 0 913 995 24536488 24536406 1.850000e-23 121
18 TraesCS2D01G058200 chrUn 87.524 1563 143 26 406 1944 366633246 366634780 0.000000e+00 1759
19 TraesCS2D01G058200 chrUn 84.367 806 81 20 406 1192 342306443 342305664 0.000000e+00 749
20 TraesCS2D01G058200 chrUn 86.559 186 17 5 1999 2182 228953561 228953382 8.320000e-47 198
21 TraesCS2D01G058200 chrUn 86.010 193 17 6 1994 2182 366634875 366635061 8.320000e-47 198
22 TraesCS2D01G058200 chr1A 87.524 1563 143 27 406 1944 534356441 534357975 0.000000e+00 1759
23 TraesCS2D01G058200 chr1A 82.759 812 101 19 1994 2799 534358070 534358848 0.000000e+00 688
24 TraesCS2D01G058200 chr2B 86.617 1614 145 36 370 1944 37357316 37358897 0.000000e+00 1718
25 TraesCS2D01G058200 chr2B 86.705 1572 149 33 424 1944 37123511 37125073 0.000000e+00 1690
26 TraesCS2D01G058200 chr2B 84.073 1645 166 53 373 1944 37232147 37233768 0.000000e+00 1498
27 TraesCS2D01G058200 chr2B 89.244 595 60 4 3 596 37013843 37014434 0.000000e+00 741
28 TraesCS2D01G058200 chr2B 82.818 809 100 26 1994 2796 37015939 37016714 0.000000e+00 688
29 TraesCS2D01G058200 chr2B 82.512 812 99 25 1994 2799 37233863 37234637 0.000000e+00 673
30 TraesCS2D01G058200 chr2B 82.491 811 101 25 1994 2798 37358992 37359767 0.000000e+00 673
31 TraesCS2D01G058200 chr2B 82.389 812 100 25 1994 2799 37251021 37251795 0.000000e+00 667
32 TraesCS2D01G058200 chr2B 82.441 803 100 26 2001 2799 37216663 37217428 0.000000e+00 664
33 TraesCS2D01G058200 chr2B 81.579 646 73 25 373 995 37249305 37249927 3.410000e-135 492
34 TraesCS2D01G058200 chr2B 87.831 378 39 4 1 378 37123140 37123510 1.620000e-118 436
35 TraesCS2D01G058200 chr2B 85.851 417 29 10 587 995 37014456 37014850 2.110000e-112 416
36 TraesCS2D01G058200 chr2B 88.957 163 17 1 2637 2799 37138743 37138904 2.310000e-47 200
37 TraesCS2D01G058200 chr2B 85.542 166 16 2 373 531 37215583 37215747 2.350000e-37 167


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 TraesCS2D01G058200 chr2D 23051302 23055098 3796 True 7012.0 7012 100.0000 1 3797 1 chr2D.!!$R1 3796
1 TraesCS2D01G058200 chr2D 23044000 23046349 2349 True 1176.0 1310 86.7750 1001 3270 2 chr2D.!!$R3 2269
2 TraesCS2D01G058200 chr2D 23104850 23105822 972 False 850.0 850 83.1640 1001 1944 1 chr2D.!!$F1 943
3 TraesCS2D01G058200 chr2D 23025370 23026936 1566 True 748.5 966 85.1350 1030 2558 2 chr2D.!!$R2 1528
4 TraesCS2D01G058200 chr2A 24570120 24572527 2407 True 1229.0 1770 85.2545 406 2799 2 chr2A.!!$R3 2393
5 TraesCS2D01G058200 chr2A 24599510 24601917 2407 True 1229.0 1770 85.2545 406 2799 2 chr2A.!!$R4 2393
6 TraesCS2D01G058200 chr2A 25639676 25642083 2407 False 1220.0 1764 85.0500 406 2799 2 chr2A.!!$F1 2393
7 TraesCS2D01G058200 chr2A 24541863 24547491 5628 True 1104.4 3995 90.4518 2 3797 5 chr2A.!!$R2 3795
8 TraesCS2D01G058200 chrUn 366633246 366635061 1815 False 978.5 1759 86.7670 406 2182 2 chrUn.!!$F1 1776
9 TraesCS2D01G058200 chrUn 342305664 342306443 779 True 749.0 749 84.3670 406 1192 1 chrUn.!!$R2 786
10 TraesCS2D01G058200 chr1A 534356441 534358848 2407 False 1223.5 1759 85.1415 406 2799 2 chr1A.!!$F1 2393
11 TraesCS2D01G058200 chr2B 37357316 37359767 2451 False 1195.5 1718 84.5540 370 2798 2 chr2B.!!$F7 2428
12 TraesCS2D01G058200 chr2B 37232147 37234637 2490 False 1085.5 1498 83.2925 373 2799 2 chr2B.!!$F5 2426
13 TraesCS2D01G058200 chr2B 37123140 37125073 1933 False 1063.0 1690 87.2680 1 1944 2 chr2B.!!$F3 1943
14 TraesCS2D01G058200 chr2B 37013843 37016714 2871 False 615.0 741 85.9710 3 2796 3 chr2B.!!$F2 2793
15 TraesCS2D01G058200 chr2B 37249305 37251795 2490 False 579.5 667 81.9840 373 2799 2 chr2B.!!$F6 2426
16 TraesCS2D01G058200 chr2B 37215583 37217428 1845 False 415.5 664 83.9915 373 2799 2 chr2B.!!$F4 2426

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
298 1927 0.387929 TCCGACCCATTCTATCGCAC 59.612 55.0 0.0 0.0 34.52 5.34 F
655 2332 0.623723 TGGCCCAGGTCAGTATTTCC 59.376 55.0 0.0 0.0 0.00 3.13 F
2360 4262 0.039326 AGCGAGTGTACTACCCTGGT 59.961 55.0 0.0 0.0 0.00 4.00 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2258 4160 0.248336 CGCGTAGTGCCATCGTCTTA 60.248 55.000 0.00 0.0 42.08 2.10 R
2477 4379 0.591659 TCGCGATGAAGGGTATCTCG 59.408 55.000 3.71 0.0 34.94 4.04 R
3312 5258 3.632145 AGGCTTAATCCAATACCAAAGCG 59.368 43.478 0.00 0.0 40.10 4.68 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
70 1699 7.132863 GCTTTTCGAGAAATTGTGTAGAGTTT 58.867 34.615 0.00 0.00 0.00 2.66
79 1708 9.403583 AGAAATTGTGTAGAGTTTAAAGGTCAA 57.596 29.630 0.00 0.00 0.00 3.18
115 1744 5.432885 AAAGTTACGATGTTTCCTGTTGG 57.567 39.130 0.00 0.00 0.00 3.77
137 1766 7.411486 TGGTTTGTCATTCTTTCCTTGTAAA 57.589 32.000 0.00 0.00 0.00 2.01
158 1787 8.288208 TGTAAAACTTTGTCAAAACTGTTCGTA 58.712 29.630 0.00 0.00 0.00 3.43
166 1795 5.292589 TGTCAAAACTGTTCGTAGTTTCTCC 59.707 40.000 12.85 6.90 46.96 3.71
170 1799 3.149196 ACTGTTCGTAGTTTCTCCCGTA 58.851 45.455 0.00 0.00 0.00 4.02
257 1886 9.520515 ACCTTGAACAAATATCAGTTGAGTATT 57.479 29.630 0.00 0.00 0.00 1.89
298 1927 0.387929 TCCGACCCATTCTATCGCAC 59.612 55.000 0.00 0.00 34.52 5.34
386 2015 1.551883 ACCGCGTAAAGGTTGTATCCT 59.448 47.619 4.92 0.00 39.29 3.24
438 2074 2.739609 GCATGCCTAGGTTTCCATTTGC 60.740 50.000 11.31 4.00 0.00 3.68
521 2158 1.527370 GAGGTATCCGCCAAAGCCT 59.473 57.895 0.00 0.00 34.57 4.58
524 2161 1.141053 AGGTATCCGCCAAAGCCTAAG 59.859 52.381 0.00 0.00 34.57 2.18
588 2263 2.833794 TGGATCATAGTACGGCTTTGC 58.166 47.619 0.00 0.00 0.00 3.68
607 2282 1.128692 GCAGATGTAAACACGCAGGTC 59.871 52.381 0.00 0.00 0.00 3.85
609 2284 3.845178 CAGATGTAAACACGCAGGTCTA 58.155 45.455 0.00 0.00 0.00 2.59
635 2312 2.419324 ACGACTTCGCTTAGATTCGTCT 59.581 45.455 0.00 0.00 41.35 4.18
655 2332 0.623723 TGGCCCAGGTCAGTATTTCC 59.376 55.000 0.00 0.00 0.00 3.13
729 2444 8.964533 AGATTAATCATGGATCCACTAGTAGT 57.035 34.615 18.99 8.40 0.00 2.73
732 2447 9.601810 ATTAATCATGGATCCACTAGTAGTACA 57.398 33.333 18.99 0.00 0.00 2.90
733 2448 9.601810 TTAATCATGGATCCACTAGTAGTACAT 57.398 33.333 18.99 0.00 0.00 2.29
829 2544 6.321690 AGTGGGACGATATTATATGTAGGCTC 59.678 42.308 0.00 0.00 0.00 4.70
890 2605 7.013750 ACTGATCGATCGCCAGTATATATTCAT 59.986 37.037 28.86 8.18 39.15 2.57
897 2612 7.654022 TCGCCAGTATATATTCATACCATCA 57.346 36.000 0.00 0.00 32.72 3.07
946 2662 2.507339 CAGCTAGCTCTGCCTAACTC 57.493 55.000 16.15 0.00 0.00 3.01
953 2670 2.159170 AGCTCTGCCTAACTCGTTCATC 60.159 50.000 0.00 0.00 0.00 2.92
999 2745 6.049955 TCTCTTCGATTCCACCTGTAATTT 57.950 37.500 0.00 0.00 0.00 1.82
1129 2899 1.318158 GCTCCTTGATGCCACCCTTG 61.318 60.000 0.00 0.00 0.00 3.61
1251 3075 1.831736 GAGAAGATGGGGAAGAACGGA 59.168 52.381 0.00 0.00 0.00 4.69
1993 3854 5.185056 ACCGCCATTTTGCTACTTTATTTCT 59.815 36.000 0.00 0.00 0.00 2.52
2258 4160 0.106708 ACATGATCATACGCGGCCTT 59.893 50.000 12.47 0.00 0.00 4.35
2360 4262 0.039326 AGCGAGTGTACTACCCTGGT 59.961 55.000 0.00 0.00 0.00 4.00
2477 4379 3.680338 GAGGTTCGTCGACGCCCTC 62.680 68.421 37.48 37.48 44.01 4.30
2635 4537 5.978919 GCATGTAACATGTATGGTGGAATTG 59.021 40.000 0.00 0.00 0.00 2.32
2652 4556 7.009174 GGTGGAATTGTTTTGACTTATATTGCG 59.991 37.037 0.00 0.00 0.00 4.85
2697 4602 0.038159 AGAGTGACGAGGAAAAGGCG 60.038 55.000 0.00 0.00 0.00 5.52
2819 4751 3.753272 GACACTTCCTGAGCAAATTAGCA 59.247 43.478 0.00 0.00 36.85 3.49
2834 4767 6.531594 GCAAATTAGCAATGTAGAAACCCTTC 59.468 38.462 0.00 0.00 0.00 3.46
2860 4793 9.469807 CTGTACATCTGATAGGTAGTCAATTTC 57.530 37.037 0.00 0.00 0.00 2.17
2870 4803 5.176592 AGGTAGTCAATTTCCGCTAAACTC 58.823 41.667 0.00 0.00 0.00 3.01
2875 4808 4.023536 GTCAATTTCCGCTAAACTCCAACA 60.024 41.667 0.00 0.00 0.00 3.33
2937 4870 4.942761 AAGCTCAAATTTGCTTCAGGAA 57.057 36.364 13.54 0.00 45.09 3.36
2953 4886 6.620877 TTCAGGAACAGAACCATATGTACT 57.379 37.500 1.24 0.00 29.04 2.73
2963 4896 5.131142 AGAACCATATGTACTTGGAAGGAGG 59.869 44.000 14.45 0.00 36.79 4.30
3012 4945 5.299531 TCTGTATCACTAGTACAGTCATGGC 59.700 44.000 19.12 0.00 45.77 4.40
3050 4983 3.317149 GTCAAAAACCTAGTTCCCCACAC 59.683 47.826 0.00 0.00 0.00 3.82
3102 5039 0.676184 AGCTCGAGTCAGCACAAGAA 59.324 50.000 15.13 0.00 42.40 2.52
3139 5078 0.615331 TGAAGAGGACCATCACAGGC 59.385 55.000 0.00 0.00 0.00 4.85
3192 5138 4.090819 TCTACATATATAAGCCACCCGCA 58.909 43.478 0.00 0.00 41.38 5.69
3209 5155 1.066908 CGCAGGTGGTGATGTGTTTTT 59.933 47.619 0.00 0.00 0.00 1.94
3312 5258 8.732746 ATTGTTTCACTAACAGATATGTACCC 57.267 34.615 0.00 0.00 46.81 3.69
3379 5325 4.355287 AGGTGGATTTCTTTTCTTCCTCCT 59.645 41.667 5.77 5.77 43.84 3.69
3387 5333 5.242795 TCTTTTCTTCCTCCTTAGTTGGG 57.757 43.478 0.00 0.00 0.00 4.12
3430 5376 6.665465 AGCCTTTCGTTTGTAATCTTGTAAC 58.335 36.000 0.00 0.00 0.00 2.50
3460 5406 5.165961 TCTCAATAAAGGGAGAAGGTGTG 57.834 43.478 0.00 0.00 37.23 3.82
3463 5409 4.349636 TCAATAAAGGGAGAAGGTGTGTGA 59.650 41.667 0.00 0.00 0.00 3.58
3471 5417 2.952310 GAGAAGGTGTGTGAGGCTTTTT 59.048 45.455 0.00 0.00 0.00 1.94
3477 5423 3.826729 GGTGTGTGAGGCTTTTTCCTTAT 59.173 43.478 0.00 0.00 36.38 1.73
3544 5490 9.804758 AAAAACTTGTCGGTTTGAAATAATGTA 57.195 25.926 0.00 0.00 39.08 2.29
3674 5877 8.259411 ACATGTGGCAATTAATCACAATAACAT 58.741 29.630 11.25 3.49 43.38 2.71
3676 5879 8.700722 TGTGGCAATTAATCACAATAACATTC 57.299 30.769 6.10 0.00 38.30 2.67
3745 5948 9.098355 TCATACAATAGTTATCAGCAACAGTTC 57.902 33.333 0.00 0.00 0.00 3.01
3750 5953 5.695851 AGTTATCAGCAACAGTTCTTTGG 57.304 39.130 0.00 0.00 0.00 3.28
3756 5959 5.620206 TCAGCAACAGTTCTTTGGAGAATA 58.380 37.500 0.00 0.00 43.41 1.75
3784 5987 6.483307 GCAATTGCTCTGGTGTATAACTGATA 59.517 38.462 23.21 0.00 38.21 2.15
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
40 1669 4.043750 CACAATTTCTCGAAAAGCAAGCA 58.956 39.130 0.00 0.00 33.56 3.91
92 1721 5.358725 ACCAACAGGAAACATCGTAACTTTT 59.641 36.000 0.00 0.00 0.00 2.27
99 1728 3.020984 ACAAACCAACAGGAAACATCGT 58.979 40.909 0.00 0.00 0.00 3.73
101 1730 4.647424 TGACAAACCAACAGGAAACATC 57.353 40.909 0.00 0.00 0.00 3.06
102 1731 5.363580 AGAATGACAAACCAACAGGAAACAT 59.636 36.000 0.00 0.00 0.00 2.71
115 1744 8.926715 AGTTTTACAAGGAAAGAATGACAAAC 57.073 30.769 0.00 0.00 0.00 2.93
137 1766 6.490566 ACTACGAACAGTTTTGACAAAGTT 57.509 33.333 0.10 2.50 0.00 2.66
166 1795 0.458025 GCTCCTGTCGGTTTCTACGG 60.458 60.000 0.00 0.00 0.00 4.02
170 1799 2.048127 GCGCTCCTGTCGGTTTCT 60.048 61.111 0.00 0.00 0.00 2.52
175 1804 0.672401 TTAAAAGGCGCTCCTGTCGG 60.672 55.000 7.64 0.00 43.40 4.79
257 1886 7.338196 TCGGATGAAATGAAAAAGTAGGCATTA 59.662 33.333 0.00 0.00 31.30 1.90
266 1895 4.782019 TGGGTCGGATGAAATGAAAAAG 57.218 40.909 0.00 0.00 0.00 2.27
298 1927 8.660373 GGATAACTGTAATCTCAGTCTGTTTTG 58.340 37.037 0.00 0.00 46.25 2.44
386 2015 1.072505 GGTCTTGGAGGCGGTTTCA 59.927 57.895 0.00 0.00 0.00 2.69
438 2074 2.174349 GAAGAAACAGCGGCGCAG 59.826 61.111 35.02 29.01 0.00 5.18
521 2158 7.556844 TCATTAAACAAAGTTGGGTTTGCTTA 58.443 30.769 13.39 0.00 40.49 3.09
524 2161 5.236263 CCTCATTAAACAAAGTTGGGTTTGC 59.764 40.000 13.39 0.00 40.49 3.68
575 2219 4.459390 TTACATCTGCAAAGCCGTACTA 57.541 40.909 0.00 0.00 0.00 1.82
588 2263 2.688507 AGACCTGCGTGTTTACATCTG 58.311 47.619 0.00 0.00 0.00 2.90
607 2282 4.250570 TCTAAGCGAAGTCGTACGTTAG 57.749 45.455 16.05 13.17 42.22 2.34
609 2284 3.754188 ATCTAAGCGAAGTCGTACGTT 57.246 42.857 16.05 2.55 42.22 3.99
635 2312 1.005450 GGAAATACTGACCTGGGCCAA 59.995 52.381 8.04 0.00 0.00 4.52
655 2332 1.086696 CAACGTGCCAGTGGGATTAG 58.913 55.000 12.15 6.75 35.59 1.73
728 2443 4.384846 CCGCGTGGTAATCAAGATATGTAC 59.615 45.833 6.91 0.00 0.00 2.90
729 2444 4.552355 CCGCGTGGTAATCAAGATATGTA 58.448 43.478 6.91 0.00 0.00 2.29
730 2445 3.390135 CCGCGTGGTAATCAAGATATGT 58.610 45.455 6.91 0.00 0.00 2.29
731 2446 2.157668 GCCGCGTGGTAATCAAGATATG 59.842 50.000 17.91 0.00 37.67 1.78
732 2447 2.037251 AGCCGCGTGGTAATCAAGATAT 59.963 45.455 17.91 0.00 37.67 1.63
733 2448 1.411246 AGCCGCGTGGTAATCAAGATA 59.589 47.619 17.91 0.00 37.67 1.98
829 2544 3.358115 GCGTCGATTCATATCTACGTGTG 59.642 47.826 0.00 0.00 46.07 3.82
890 2605 8.650143 TCTTGCTATCTGTGTATATGATGGTA 57.350 34.615 0.00 0.00 0.00 3.25
897 2612 8.883731 GTTTGTGTTCTTGCTATCTGTGTATAT 58.116 33.333 0.00 0.00 0.00 0.86
946 2662 3.190327 AGCTCAGATAGGATCGATGAACG 59.810 47.826 0.54 0.00 44.09 3.95
953 2670 1.617850 AGCCAAGCTCAGATAGGATCG 59.382 52.381 0.00 0.00 30.62 3.69
999 2745 4.541482 GACGACGACCGCGCCATA 62.541 66.667 0.00 0.00 43.32 2.74
1063 2824 0.812014 TTTGAAGAACGGCGAGTGCA 60.812 50.000 16.62 0.00 45.35 4.57
1066 2827 2.235546 GCTTTGAAGAACGGCGAGT 58.764 52.632 16.62 0.00 0.00 4.18
1251 3075 0.900182 TCGAGTCTGTGTCCATGGCT 60.900 55.000 6.96 0.00 0.00 4.75
1327 3151 1.803289 GGCCTTCCTTGAATGCGAC 59.197 57.895 0.00 0.00 34.79 5.19
1332 3156 2.438434 CGCCGGCCTTCCTTGAAT 60.438 61.111 23.46 0.00 0.00 2.57
1954 3798 2.288666 GGCGGTGCAATTATCTGAGAA 58.711 47.619 0.00 0.00 0.00 2.87
1993 3854 3.387699 TGGAATGGCACGATGAGATCTTA 59.612 43.478 0.00 0.00 0.00 2.10
2258 4160 0.248336 CGCGTAGTGCCATCGTCTTA 60.248 55.000 0.00 0.00 42.08 2.10
2360 4262 2.359169 CCACGGGCTGCTTAGGAGA 61.359 63.158 4.57 0.00 0.00 3.71
2411 4313 0.820226 CGAAGCTGATGACTCCTCCA 59.180 55.000 0.00 0.00 0.00 3.86
2414 4316 1.110442 CCTCGAAGCTGATGACTCCT 58.890 55.000 0.00 0.00 0.00 3.69
2477 4379 0.591659 TCGCGATGAAGGGTATCTCG 59.408 55.000 3.71 0.00 34.94 4.04
2594 4496 9.278978 TGTTACATGCATCTTCTTGTAAGTTTA 57.721 29.630 8.25 0.00 37.30 2.01
2616 4518 8.085296 GTCAAAACAATTCCACCATACATGTTA 58.915 33.333 2.30 0.00 0.00 2.41
2635 4537 8.460831 AAAATCCACGCAATATAAGTCAAAAC 57.539 30.769 0.00 0.00 0.00 2.43
2652 4556 4.996758 CCCCTGATGAAAACAAAAATCCAC 59.003 41.667 0.00 0.00 0.00 4.02
2697 4602 4.593956 AGTTGTCCTTGATCCCATTCTTC 58.406 43.478 0.00 0.00 0.00 2.87
2819 4751 7.038302 TCAGATGTACAGAAGGGTTTCTACATT 60.038 37.037 0.33 0.00 40.32 2.71
2834 4767 9.469807 GAAATTGACTACCTATCAGATGTACAG 57.530 37.037 0.33 0.00 0.00 2.74
2860 4793 2.743636 TCTCTGTTGGAGTTTAGCGG 57.256 50.000 0.00 0.00 42.40 5.52
2870 4803 5.989477 TCCTACCAATTACATCTCTGTTGG 58.011 41.667 0.00 0.00 37.00 3.77
2937 4870 5.487488 TCCTTCCAAGTACATATGGTTCTGT 59.513 40.000 7.80 0.00 37.94 3.41
2953 4886 7.182026 TGTCTTCTATATTTCACCTCCTTCCAA 59.818 37.037 0.00 0.00 0.00 3.53
2991 4924 5.515797 TGCCATGACTGTACTAGTGATAC 57.484 43.478 5.39 0.00 40.53 2.24
3012 4945 8.932791 AGGTTTTTGACTCGTATGTTAGTTATG 58.067 33.333 0.00 0.00 0.00 1.90
3102 5039 6.352565 CCTCTTCACTGATGGTTTTCCTATCT 60.353 42.308 0.00 0.00 41.38 1.98
3139 5078 1.144936 GGGCCTCTTCGGTGATCTG 59.855 63.158 0.84 0.00 34.25 2.90
3272 5218 5.296035 GTGAAACAATTATAGGCTTAGGCGT 59.704 40.000 0.00 0.00 36.50 5.68
3312 5258 3.632145 AGGCTTAATCCAATACCAAAGCG 59.368 43.478 0.00 0.00 40.10 4.68
3379 5325 5.708230 ACGCAAATAAAGATGACCCAACTAA 59.292 36.000 0.00 0.00 0.00 2.24
3387 5333 6.787085 AGGCTATACGCAAATAAAGATGAC 57.213 37.500 0.00 0.00 41.67 3.06
3441 5387 4.651778 TCACACACCTTCTCCCTTTATTG 58.348 43.478 0.00 0.00 0.00 1.90
3460 5406 9.740710 ATATATACCATAAGGAAAAAGCCTCAC 57.259 33.333 0.00 0.00 37.26 3.51
3503 5449 9.649024 CGACAAGTTTTTAACTAATTAACCGAA 57.351 29.630 0.00 0.00 41.91 4.30
3504 5450 8.281893 CCGACAAGTTTTTAACTAATTAACCGA 58.718 33.333 0.00 0.00 41.91 4.69
3505 5451 8.069574 ACCGACAAGTTTTTAACTAATTAACCG 58.930 33.333 0.00 0.00 41.91 4.44
3506 5452 9.734620 AACCGACAAGTTTTTAACTAATTAACC 57.265 29.630 0.00 0.00 41.91 2.85
3517 5463 9.804758 ACATTATTTCAAACCGACAAGTTTTTA 57.195 25.926 0.00 0.00 37.87 1.52
3544 5490 8.696410 TTTTCATTTTACTCGTTTGAAAAGCT 57.304 26.923 5.33 0.00 39.84 3.74
3635 5838 3.878699 TGCCACATGTGATGTCATCATAC 59.121 43.478 27.46 7.55 42.70 2.39
3724 5927 7.752239 CCAAAGAACTGTTGCTGATAACTATTG 59.248 37.037 0.00 0.00 0.00 1.90
3742 5945 7.053710 GCAATTGCTTTATTCTCCAAAGAAC 57.946 36.000 23.21 0.00 40.08 3.01


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

AutoCloner maintained by Alex Coulton.