Multiple sequence alignment - TraesCS1D01G280400

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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 TraesCS1D01G280400 chr1D 100.000 3884 0 0 1 3884 378870073 378866190 0.000000e+00 7173.0
1 TraesCS1D01G280400 chr1D 87.786 131 11 5 704 832 144462717 144462844 8.690000e-32 148.0
2 TraesCS1D01G280400 chr1D 87.597 129 12 4 705 830 114367284 114367157 3.130000e-31 147.0
3 TraesCS1D01G280400 chr1D 86.813 91 9 2 3391 3481 71022127 71022214 8.880000e-17 99.0
4 TraesCS1D01G280400 chr1D 80.000 120 20 2 3371 3489 436107062 436106946 6.910000e-13 86.1
5 TraesCS1D01G280400 chr1B 97.304 2114 46 3 1 2112 507473735 507471631 0.000000e+00 3578.0
6 TraesCS1D01G280400 chr1B 96.950 754 19 2 2154 2903 507471633 507470880 0.000000e+00 1262.0
7 TraesCS1D01G280400 chr1B 95.821 694 24 4 2901 3593 507470840 507470151 0.000000e+00 1116.0
8 TraesCS1D01G280400 chr1B 95.635 252 10 1 3588 3839 507454674 507454424 1.680000e-108 403.0
9 TraesCS1D01G280400 chr1B 88.889 90 10 0 3795 3884 666933539 666933628 1.140000e-20 111.0
10 TraesCS1D01G280400 chr5B 94.078 2094 95 15 831 2903 466968126 466970211 0.000000e+00 3153.0
11 TraesCS1D01G280400 chr5B 92.650 2000 113 18 831 2815 466949479 466951459 0.000000e+00 2848.0
12 TraesCS1D01G280400 chr5B 87.040 679 44 18 1 669 466781388 466780744 0.000000e+00 726.0
13 TraesCS1D01G280400 chr5B 86.842 494 21 15 2904 3397 466970260 466970709 2.680000e-141 512.0
14 TraesCS1D01G280400 chr5B 92.812 320 20 3 3478 3797 466970704 466971020 9.830000e-126 460.0
15 TraesCS1D01G280400 chr5B 85.308 422 51 5 991 1402 466781654 466782074 3.590000e-115 425.0
16 TraesCS1D01G280400 chr5B 90.090 111 7 4 704 812 354776405 354776513 1.450000e-29 141.0
17 TraesCS1D01G280400 chr5B 89.011 91 9 1 3793 3882 407219557 407219467 1.140000e-20 111.0
18 TraesCS1D01G280400 chr5B 91.358 81 5 2 3795 3874 266358799 266358720 4.100000e-20 110.0
19 TraesCS1D01G280400 chr5A 93.519 2083 106 10 831 2903 491313172 491315235 0.000000e+00 3072.0
20 TraesCS1D01G280400 chr5A 89.619 578 35 11 2820 3397 491319623 491320175 0.000000e+00 712.0
21 TraesCS1D01G280400 chr5A 91.139 316 28 0 3079 3394 491315408 491315723 2.770000e-116 429.0
22 TraesCS1D01G280400 chr5A 92.701 274 13 3 3518 3791 491321208 491321474 4.710000e-104 388.0
23 TraesCS1D01G280400 chr5A 85.417 384 33 12 1 383 491295944 491295583 1.020000e-100 377.0
24 TraesCS1D01G280400 chr5A 88.189 254 15 6 429 669 491295580 491295329 4.910000e-74 289.0
25 TraesCS1D01G280400 chr5A 93.023 129 9 0 2906 3034 491315286 491315414 5.120000e-44 189.0
26 TraesCS1D01G280400 chr5A 89.011 91 9 1 3794 3884 640614555 640614644 1.140000e-20 111.0
27 TraesCS1D01G280400 chr5D 93.221 1549 82 11 1139 2679 388426200 388427733 0.000000e+00 2257.0
28 TraesCS1D01G280400 chr5D 89.276 718 55 14 3081 3797 388430736 388431432 0.000000e+00 880.0
29 TraesCS1D01G280400 chr5D 88.296 675 46 17 1 669 388104021 388103374 0.000000e+00 778.0
30 TraesCS1D01G280400 chr5D 79.573 1077 137 45 1857 2890 388414735 388415771 0.000000e+00 693.0
31 TraesCS1D01G280400 chr5D 92.827 474 27 2 2924 3397 388327584 388328050 0.000000e+00 680.0
32 TraesCS1D01G280400 chr5D 93.333 315 18 3 831 1143 388423930 388424243 2.730000e-126 462.0
33 TraesCS1D01G280400 chr5D 84.323 421 44 8 988 1386 388104279 388104699 3.640000e-105 392.0
34 TraesCS1D01G280400 chr5D 94.672 244 13 0 2904 3147 388430492 388430735 2.830000e-101 379.0
35 TraesCS1D01G280400 chr5D 93.644 236 15 0 2665 2900 388430220 388430455 1.720000e-93 353.0
36 TraesCS1D01G280400 chr5D 85.000 320 22 3 3478 3797 388328045 388328338 6.310000e-78 302.0
37 TraesCS1D01G280400 chr5D 87.550 249 30 1 1533 1781 388414348 388414595 1.770000e-73 287.0
38 TraesCS1D01G280400 chr5D 86.047 129 11 4 3668 3796 388416295 388416416 8.760000e-27 132.0
39 TraesCS1D01G280400 chr1A 91.766 1093 52 12 218 1306 479711731 479710673 0.000000e+00 1485.0
40 TraesCS1D01G280400 chr6D 88.583 508 43 9 2901 3397 106953810 106954313 1.540000e-168 603.0
41 TraesCS1D01G280400 chr6D 92.933 283 18 2 3478 3759 106954308 106954589 1.000000e-110 411.0
42 TraesCS1D01G280400 chr6D 83.696 368 37 7 1025 1392 106953116 106953460 3.740000e-85 326.0
43 TraesCS1D01G280400 chr6D 91.549 213 18 0 2691 2903 106953558 106953770 1.060000e-75 294.0
44 TraesCS1D01G280400 chr6A 86.822 516 43 15 2901 3397 130414651 130415160 1.580000e-153 553.0
45 TraesCS1D01G280400 chr6A 91.228 285 20 5 3478 3759 130415155 130415437 2.190000e-102 383.0
46 TraesCS1D01G280400 chr6A 91.758 182 15 0 2722 2903 130414430 130414611 1.790000e-63 254.0
47 TraesCS1D01G280400 chr3B 89.764 127 9 3 705 830 737411205 737411328 4.020000e-35 159.0
48 TraesCS1D01G280400 chrUn 86.822 129 13 3 704 830 10696767 10696641 1.450000e-29 141.0
49 TraesCS1D01G280400 chr7D 86.822 129 13 4 705 830 472740528 472740401 1.450000e-29 141.0
50 TraesCS1D01G280400 chr7D 88.889 90 10 0 3792 3881 530125723 530125634 1.140000e-20 111.0
51 TraesCS1D01G280400 chr7D 85.714 98 12 2 3384 3481 451897712 451897617 6.870000e-18 102.0
52 TraesCS1D01G280400 chr7B 86.923 130 11 6 704 830 687546793 687546667 1.450000e-29 141.0
53 TraesCS1D01G280400 chr7B 87.500 96 5 6 3390 3481 5188958 5188866 1.910000e-18 104.0
54 TraesCS1D01G280400 chr4A 89.583 96 8 2 3789 3883 703627109 703627203 1.900000e-23 121.0
55 TraesCS1D01G280400 chr6B 86.486 111 12 2 2911 3019 57695358 57695467 6.820000e-23 119.0
56 TraesCS1D01G280400 chr7A 88.889 90 10 0 3792 3881 610449144 610449055 1.140000e-20 111.0
57 TraesCS1D01G280400 chr7A 86.316 95 10 3 3387 3481 696849821 696849912 2.470000e-17 100.0
58 TraesCS1D01G280400 chr2A 87.368 95 12 0 3790 3884 756964449 756964355 4.100000e-20 110.0
59 TraesCS1D01G280400 chr4D 86.957 92 9 1 3390 3481 464800967 464801055 2.470000e-17 100.0
60 TraesCS1D01G280400 chr2D 82.857 105 14 3 3390 3493 533671575 533671676 1.490000e-14 91.6


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 TraesCS1D01G280400 chr1D 378866190 378870073 3883 True 7173.000000 7173 100.000000 1 3884 1 chr1D.!!$R2 3883
1 TraesCS1D01G280400 chr1B 507470151 507473735 3584 True 1985.333333 3578 96.691667 1 3593 3 chr1B.!!$R2 3592
2 TraesCS1D01G280400 chr5B 466949479 466951459 1980 False 2848.000000 2848 92.650000 831 2815 1 chr5B.!!$F3 1984
3 TraesCS1D01G280400 chr5B 466968126 466971020 2894 False 1375.000000 3153 91.244000 831 3797 3 chr5B.!!$F4 2966
4 TraesCS1D01G280400 chr5B 466780744 466781388 644 True 726.000000 726 87.040000 1 669 1 chr5B.!!$R3 668
5 TraesCS1D01G280400 chr5A 491313172 491321474 8302 False 958.000000 3072 92.000200 831 3791 5 chr5A.!!$F2 2960
6 TraesCS1D01G280400 chr5A 491295329 491295944 615 True 333.000000 377 86.803000 1 669 2 chr5A.!!$R1 668
7 TraesCS1D01G280400 chr5D 388423930 388431432 7502 False 866.200000 2257 92.829200 831 3797 5 chr5D.!!$F4 2966
8 TraesCS1D01G280400 chr5D 388103374 388104021 647 True 778.000000 778 88.296000 1 669 1 chr5D.!!$R1 668
9 TraesCS1D01G280400 chr5D 388327584 388328338 754 False 491.000000 680 88.913500 2924 3797 2 chr5D.!!$F2 873
10 TraesCS1D01G280400 chr5D 388414348 388416416 2068 False 370.666667 693 84.390000 1533 3796 3 chr5D.!!$F3 2263
11 TraesCS1D01G280400 chr1A 479710673 479711731 1058 True 1485.000000 1485 91.766000 218 1306 1 chr1A.!!$R1 1088
12 TraesCS1D01G280400 chr6D 106953116 106954589 1473 False 408.500000 603 89.190250 1025 3759 4 chr6D.!!$F1 2734
13 TraesCS1D01G280400 chr6A 130414430 130415437 1007 False 396.666667 553 89.936000 2722 3759 3 chr6A.!!$F1 1037

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
388 394 0.392998 GGCCGTGGTGATGAACTGAT 60.393 55.000 0.00 0.0 0.0 2.90 F
389 395 0.729116 GCCGTGGTGATGAACTGATG 59.271 55.000 0.00 0.0 0.0 3.07 F
1361 3366 1.866015 ACAATGTGGAGGAGATCGGA 58.134 50.000 0.00 0.0 0.0 4.55 F
1416 3421 2.305009 CAGCATTCCCTGGATTCCTTC 58.695 52.381 3.95 0.0 0.0 3.46 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1361 3366 2.779755 TCATCAAACAGGTGGCGTAT 57.220 45.000 0.0 0.0 0.0 3.06 R
1556 3568 2.796593 CAACAAGCCTTAAACTGCAAGC 59.203 45.455 0.0 0.0 37.6 4.01 R
2693 7319 0.307760 GCCAGAAATACCGATTGGCG 59.692 55.000 0.0 0.0 44.1 5.69 R
3186 12368 0.764271 TGCACTCCTCATCACCACAA 59.236 50.000 0.0 0.0 0.0 3.33 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
176 180 0.670854 GGGTGACGAGCTGTTCTTCC 60.671 60.000 0.00 0.00 0.00 3.46
231 235 1.743394 AGGCGGAATTCGTTCATTTCC 59.257 47.619 0.00 0.00 41.72 3.13
275 279 1.834896 TGCGGCTACCTTAGGAATTGA 59.165 47.619 4.77 0.00 0.00 2.57
382 388 2.606213 TGAGGGCCGTGGTGATGA 60.606 61.111 0.65 0.00 0.00 2.92
383 389 2.184020 CTGAGGGCCGTGGTGATGAA 62.184 60.000 0.65 0.00 0.00 2.57
384 390 1.745489 GAGGGCCGTGGTGATGAAC 60.745 63.158 0.65 0.00 0.00 3.18
385 391 2.185310 GAGGGCCGTGGTGATGAACT 62.185 60.000 0.65 0.00 0.00 3.01
386 392 2.040544 GGGCCGTGGTGATGAACTG 61.041 63.158 0.00 0.00 0.00 3.16
387 393 1.003839 GGCCGTGGTGATGAACTGA 60.004 57.895 0.00 0.00 0.00 3.41
388 394 0.392998 GGCCGTGGTGATGAACTGAT 60.393 55.000 0.00 0.00 0.00 2.90
389 395 0.729116 GCCGTGGTGATGAACTGATG 59.271 55.000 0.00 0.00 0.00 3.07
394 400 3.431346 CGTGGTGATGAACTGATGATCCT 60.431 47.826 0.00 0.00 0.00 3.24
529 542 3.989817 GAGTGGTTGGATTTTGCATTGTC 59.010 43.478 0.00 0.00 0.00 3.18
578 598 4.699257 GTCCAAAGTTTGATCTGAGCATCT 59.301 41.667 17.33 0.00 34.92 2.90
604 626 6.524734 TGTCCTGGATTTATGTATACTGCAG 58.475 40.000 13.48 13.48 0.00 4.41
638 660 5.979517 CAGGGTAAAAATGCTTGCTTATAGC 59.020 40.000 0.00 0.00 42.82 2.97
852 875 7.021196 ACAGTAATGTGTCGCATTTTATCAAC 58.979 34.615 16.41 7.91 44.82 3.18
1159 3156 3.257393 CAGTTCAGGTGTGTGCTATCTC 58.743 50.000 0.00 0.00 0.00 2.75
1361 3366 1.866015 ACAATGTGGAGGAGATCGGA 58.134 50.000 0.00 0.00 0.00 4.55
1416 3421 2.305009 CAGCATTCCCTGGATTCCTTC 58.695 52.381 3.95 0.00 0.00 3.46
1823 3835 2.762327 TCACTAATTCCCCCGACAGTAC 59.238 50.000 0.00 0.00 0.00 2.73
2697 7323 4.156922 CAGTTTATTTCATACAACCCGCCA 59.843 41.667 0.00 0.00 0.00 5.69
2777 7405 4.202716 ACCTCCAAGGGATGAACTTGAAAT 60.203 41.667 6.74 0.00 46.27 2.17
3012 7704 1.678101 GTGTCCACTCTTTGCTGCTTT 59.322 47.619 0.00 0.00 0.00 3.51
3140 12321 1.404391 GCATGGAGTTGGAATGCTCAG 59.596 52.381 0.00 0.00 42.70 3.35
3167 12348 1.618640 GAGCGTGTCAGGAAGCGAAC 61.619 60.000 0.00 0.00 34.34 3.95
3186 12368 6.828785 AGCGAACCCATGAGTATTATTTTTCT 59.171 34.615 0.00 0.00 0.00 2.52
3188 12370 7.432252 GCGAACCCATGAGTATTATTTTTCTTG 59.568 37.037 0.00 0.00 0.00 3.02
3324 12506 6.318144 ACATATCAGATTTGCAGTCCAGAAAG 59.682 38.462 1.00 0.00 0.00 2.62
3405 12587 6.147437 TGTTTGATTAGTATTCCCCCTGTT 57.853 37.500 0.00 0.00 0.00 3.16
3421 12603 7.550042 TCCCCCTGTTCCATAATATAAGAGTA 58.450 38.462 0.00 0.00 0.00 2.59
3492 12677 6.270231 GGACAGAGGGAGTATTGTATAACCAT 59.730 42.308 0.00 0.00 0.00 3.55
3495 12680 5.047235 AGAGGGAGTATTGTATAACCATCGC 60.047 44.000 0.00 0.00 34.19 4.58
3601 13796 2.313317 CGGGTGAGCCTACCTGTAATA 58.687 52.381 0.00 0.00 41.32 0.98
3608 13803 7.419865 GGGTGAGCCTACCTGTAATATTACTTT 60.420 40.741 22.82 11.59 40.66 2.66
3804 14001 9.556030 GAAAGAAAATGTTTTATACTCCCTTCG 57.444 33.333 0.00 0.00 0.00 3.79
3805 14002 8.631480 AAGAAAATGTTTTATACTCCCTTCGT 57.369 30.769 0.00 0.00 0.00 3.85
3806 14003 8.631480 AGAAAATGTTTTATACTCCCTTCGTT 57.369 30.769 0.00 0.00 0.00 3.85
3807 14004 8.727910 AGAAAATGTTTTATACTCCCTTCGTTC 58.272 33.333 0.00 0.00 0.00 3.95
3808 14005 6.997239 AATGTTTTATACTCCCTTCGTTCC 57.003 37.500 0.00 0.00 0.00 3.62
3809 14006 5.750352 TGTTTTATACTCCCTTCGTTCCT 57.250 39.130 0.00 0.00 0.00 3.36
3810 14007 6.855763 TGTTTTATACTCCCTTCGTTCCTA 57.144 37.500 0.00 0.00 0.00 2.94
3811 14008 7.243604 TGTTTTATACTCCCTTCGTTCCTAA 57.756 36.000 0.00 0.00 0.00 2.69
3812 14009 7.678837 TGTTTTATACTCCCTTCGTTCCTAAA 58.321 34.615 0.00 0.00 0.00 1.85
3813 14010 8.323567 TGTTTTATACTCCCTTCGTTCCTAAAT 58.676 33.333 0.00 0.00 0.00 1.40
3814 14011 9.822185 GTTTTATACTCCCTTCGTTCCTAAATA 57.178 33.333 0.00 0.00 0.00 1.40
3863 14060 7.972832 TGAACTACATACGAAGGAAAATTGT 57.027 32.000 0.00 0.00 0.00 2.71
3864 14061 8.385898 TGAACTACATACGAAGGAAAATTGTT 57.614 30.769 0.00 0.00 0.00 2.83
3865 14062 8.286800 TGAACTACATACGAAGGAAAATTGTTG 58.713 33.333 0.00 0.00 0.00 3.33
3866 14063 7.972832 ACTACATACGAAGGAAAATTGTTGA 57.027 32.000 0.00 0.00 0.00 3.18
3867 14064 8.385898 ACTACATACGAAGGAAAATTGTTGAA 57.614 30.769 0.00 0.00 0.00 2.69
3868 14065 9.010029 ACTACATACGAAGGAAAATTGTTGAAT 57.990 29.630 0.00 0.00 0.00 2.57
3869 14066 9.490663 CTACATACGAAGGAAAATTGTTGAATC 57.509 33.333 0.00 0.00 0.00 2.52
3870 14067 8.110860 ACATACGAAGGAAAATTGTTGAATCT 57.889 30.769 0.00 0.00 0.00 2.40
3871 14068 9.226606 ACATACGAAGGAAAATTGTTGAATCTA 57.773 29.630 0.00 0.00 0.00 1.98
3872 14069 9.490663 CATACGAAGGAAAATTGTTGAATCTAC 57.509 33.333 0.00 0.00 0.00 2.59
3873 14070 7.504924 ACGAAGGAAAATTGTTGAATCTACA 57.495 32.000 0.00 0.00 0.00 2.74
3874 14071 8.110860 ACGAAGGAAAATTGTTGAATCTACAT 57.889 30.769 0.00 0.00 0.00 2.29
3875 14072 8.576442 ACGAAGGAAAATTGTTGAATCTACATT 58.424 29.630 0.00 0.00 0.00 2.71
3876 14073 9.410556 CGAAGGAAAATTGTTGAATCTACATTT 57.589 29.630 0.00 0.00 0.00 2.32
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
74 76 0.663688 GAGAAGATACGCGCTGAGGA 59.336 55.000 5.73 0.00 0.00 3.71
231 235 3.257561 CGACGGCGAATCTGGCTG 61.258 66.667 16.62 0.00 42.49 4.85
275 279 1.599047 CACAGACGCCCCTGATTCT 59.401 57.895 6.96 0.00 37.59 2.40
287 293 3.474034 GACAGCTCGCGCACAGAC 61.474 66.667 8.75 0.00 39.10 3.51
382 388 1.134580 CACAGCCGAGGATCATCAGTT 60.135 52.381 8.28 0.00 33.17 3.16
383 389 0.463204 CACAGCCGAGGATCATCAGT 59.537 55.000 8.28 0.00 33.17 3.41
384 390 0.249784 CCACAGCCGAGGATCATCAG 60.250 60.000 8.28 0.00 33.17 2.90
385 391 1.689243 CCCACAGCCGAGGATCATCA 61.689 60.000 8.28 0.00 33.17 3.07
386 392 1.070445 CCCACAGCCGAGGATCATC 59.930 63.158 0.00 0.00 33.17 2.92
387 393 0.765903 ATCCCACAGCCGAGGATCAT 60.766 55.000 0.00 0.00 35.41 2.45
388 394 0.982852 AATCCCACAGCCGAGGATCA 60.983 55.000 0.00 0.00 39.53 2.92
389 395 0.250081 GAATCCCACAGCCGAGGATC 60.250 60.000 0.00 0.00 39.53 3.36
529 542 1.706443 GACAAAACTACCGAGGACCG 58.294 55.000 0.00 0.00 38.18 4.79
578 598 8.201242 TGCAGTATACATAAATCCAGGACATA 57.799 34.615 5.50 0.00 0.00 2.29
604 626 4.142381 GCATTTTTACCCTGTGACCATCTC 60.142 45.833 0.00 0.00 0.00 2.75
638 660 5.178252 CCACAAACTATCTGTCAAGTGTCTG 59.822 44.000 0.00 0.00 0.00 3.51
702 725 8.629158 GCCAGAACATATATCCTAGTCTATCTG 58.371 40.741 0.00 0.00 0.00 2.90
852 875 2.046285 CCCCACTTAGCTTTGCCGG 61.046 63.158 0.00 0.00 0.00 6.13
915 938 6.245408 ACAAAAATGTCCCATGTTAGCTCTA 58.755 36.000 0.00 0.00 0.00 2.43
1159 3156 1.603802 AGCACAAACAGATCAACCACG 59.396 47.619 0.00 0.00 0.00 4.94
1361 3366 2.779755 TCATCAAACAGGTGGCGTAT 57.220 45.000 0.00 0.00 0.00 3.06
1402 3407 6.187682 GTTTCAAATAGAAGGAATCCAGGGA 58.812 40.000 0.61 0.00 37.57 4.20
1416 3421 4.836125 ATAGCCATGCGGTTTCAAATAG 57.164 40.909 0.00 0.00 33.28 1.73
1556 3568 2.796593 CAACAAGCCTTAAACTGCAAGC 59.203 45.455 0.00 0.00 37.60 4.01
2028 4106 5.304101 ACAAGTTTAAAAGCATGGATCCACA 59.696 36.000 18.99 0.00 0.00 4.17
2639 4765 6.111382 AGCCCAGATTCATATATTGTGATCG 58.889 40.000 0.00 0.00 0.00 3.69
2693 7319 0.307760 GCCAGAAATACCGATTGGCG 59.692 55.000 0.00 0.00 44.10 5.69
2697 7323 4.141251 AGGTTATGGCCAGAAATACCGATT 60.141 41.667 15.77 0.00 0.00 3.34
2777 7405 2.432444 CGCCAAACTTATTCTCCACCA 58.568 47.619 0.00 0.00 0.00 4.17
3012 7704 5.129320 ACATCATCAGTATCCAGCAGTAACA 59.871 40.000 0.00 0.00 0.00 2.41
3140 12321 4.724602 TGACACGCTCGCTGCTCC 62.725 66.667 0.00 0.00 40.11 4.70
3167 12348 7.975616 CACCACAAGAAAAATAATACTCATGGG 59.024 37.037 0.00 0.00 0.00 4.00
3186 12368 0.764271 TGCACTCCTCATCACCACAA 59.236 50.000 0.00 0.00 0.00 3.33
3188 12370 1.065926 TGATGCACTCCTCATCACCAC 60.066 52.381 0.00 0.00 43.63 4.16
3299 12481 5.363562 TCTGGACTGCAAATCTGATATGT 57.636 39.130 0.00 0.00 0.00 2.29
3324 12506 1.264020 TCTTGCTCGAACACAACATGC 59.736 47.619 0.00 0.00 0.00 4.06
3430 12612 5.689068 GCGTTTTTGACACTAGTGTAGTAGT 59.311 40.000 27.98 4.69 45.05 2.73
3431 12613 5.919141 AGCGTTTTTGACACTAGTGTAGTAG 59.081 40.000 27.98 15.80 45.05 2.57
3432 12614 5.835257 AGCGTTTTTGACACTAGTGTAGTA 58.165 37.500 27.98 14.71 45.05 1.82
3601 13796 2.222027 GCATCCGCTGGCTAAAGTAAT 58.778 47.619 0.00 0.00 34.30 1.89
3644 13840 0.252284 AGGACCTCGGGAAGTGATGT 60.252 55.000 0.00 0.00 0.00 3.06
3837 14034 9.661563 ACAATTTTCCTTCGTATGTAGTTCATA 57.338 29.630 0.00 0.00 37.91 2.15
3838 14035 8.561738 ACAATTTTCCTTCGTATGTAGTTCAT 57.438 30.769 0.00 0.00 40.25 2.57
3839 14036 7.972832 ACAATTTTCCTTCGTATGTAGTTCA 57.027 32.000 0.00 0.00 0.00 3.18
3840 14037 8.500773 TCAACAATTTTCCTTCGTATGTAGTTC 58.499 33.333 0.00 0.00 0.00 3.01
3841 14038 8.385898 TCAACAATTTTCCTTCGTATGTAGTT 57.614 30.769 0.00 0.00 0.00 2.24
3842 14039 7.972832 TCAACAATTTTCCTTCGTATGTAGT 57.027 32.000 0.00 0.00 0.00 2.73
3843 14040 9.490663 GATTCAACAATTTTCCTTCGTATGTAG 57.509 33.333 0.00 0.00 0.00 2.74
3844 14041 9.226606 AGATTCAACAATTTTCCTTCGTATGTA 57.773 29.630 0.00 0.00 0.00 2.29
3845 14042 8.110860 AGATTCAACAATTTTCCTTCGTATGT 57.889 30.769 0.00 0.00 0.00 2.29
3846 14043 9.490663 GTAGATTCAACAATTTTCCTTCGTATG 57.509 33.333 0.00 0.00 0.00 2.39
3847 14044 9.226606 TGTAGATTCAACAATTTTCCTTCGTAT 57.773 29.630 0.00 0.00 0.00 3.06
3848 14045 8.610248 TGTAGATTCAACAATTTTCCTTCGTA 57.390 30.769 0.00 0.00 0.00 3.43
3849 14046 7.504924 TGTAGATTCAACAATTTTCCTTCGT 57.495 32.000 0.00 0.00 0.00 3.85
3850 14047 8.970691 AATGTAGATTCAACAATTTTCCTTCG 57.029 30.769 0.00 0.00 0.00 3.79


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

AutoCloner maintained by Alex Coulton.