Multiple sequence alignment - TraesCS7A01G269200

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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 TraesCS7A01G269200 chr7A 100.000 4279 0 0 1 4279 273517084 273512806 0.000000e+00 7902.0
1 TraesCS7A01G269200 chr7A 89.088 559 26 13 3754 4279 273462068 273461512 0.000000e+00 662.0
2 TraesCS7A01G269200 chr7A 86.898 519 54 11 3753 4264 359920387 359919876 1.730000e-158 569.0
3 TraesCS7A01G269200 chr7A 88.247 485 44 10 3754 4229 374532300 374532780 6.210000e-158 568.0
4 TraesCS7A01G269200 chr7B 95.971 2904 82 17 498 3390 232270749 232267870 0.000000e+00 4682.0
5 TraesCS7A01G269200 chr7B 83.817 482 25 18 1 439 232273262 232272791 3.980000e-110 409.0
6 TraesCS7A01G269200 chr7D 96.566 2679 67 12 646 3322 254900005 254897350 0.000000e+00 4414.0
7 TraesCS7A01G269200 chr7D 80.913 482 32 22 1 439 254902621 254902157 4.130000e-85 326.0
8 TraesCS7A01G269200 chr7D 85.113 309 32 5 3464 3772 254893851 254893557 1.930000e-78 303.0
9 TraesCS7A01G269200 chr7D 93.373 166 9 2 462 626 254902061 254901897 1.190000e-60 244.0
10 TraesCS7A01G269200 chr7D 95.489 133 6 0 3314 3446 254896611 254896479 3.350000e-51 213.0
11 TraesCS7A01G269200 chr5A 86.924 543 47 14 3754 4279 309608368 309607833 4.770000e-164 588.0
12 TraesCS7A01G269200 chr5A 86.716 542 46 17 3754 4279 309615070 309614539 2.870000e-161 579.0
13 TraesCS7A01G269200 chr5A 85.277 523 61 14 3754 4264 261993538 261994056 3.790000e-145 525.0
14 TraesCS7A01G269200 chr6A 88.589 482 46 8 3753 4229 270208844 270209321 1.030000e-160 577.0
15 TraesCS7A01G269200 chr6A 100.000 29 0 0 1068 1096 326395373 326395401 2.000000e-03 54.7
16 TraesCS7A01G269200 chr4A 86.347 542 52 17 3753 4279 306603933 306603399 4.800000e-159 571.0
17 TraesCS7A01G269200 chr1D 85.771 506 60 10 3754 4254 159224783 159225281 3.790000e-145 525.0


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 TraesCS7A01G269200 chr7A 273512806 273517084 4278 True 7902.0 7902 100.0000 1 4279 1 chr7A.!!$R2 4278
1 TraesCS7A01G269200 chr7A 273461512 273462068 556 True 662.0 662 89.0880 3754 4279 1 chr7A.!!$R1 525
2 TraesCS7A01G269200 chr7A 359919876 359920387 511 True 569.0 569 86.8980 3753 4264 1 chr7A.!!$R3 511
3 TraesCS7A01G269200 chr7B 232267870 232273262 5392 True 2545.5 4682 89.8940 1 3390 2 chr7B.!!$R1 3389
4 TraesCS7A01G269200 chr7D 254893557 254902621 9064 True 1100.0 4414 90.2908 1 3772 5 chr7D.!!$R1 3771
5 TraesCS7A01G269200 chr5A 309607833 309608368 535 True 588.0 588 86.9240 3754 4279 1 chr5A.!!$R1 525
6 TraesCS7A01G269200 chr5A 309614539 309615070 531 True 579.0 579 86.7160 3754 4279 1 chr5A.!!$R2 525
7 TraesCS7A01G269200 chr5A 261993538 261994056 518 False 525.0 525 85.2770 3754 4264 1 chr5A.!!$F1 510
8 TraesCS7A01G269200 chr4A 306603399 306603933 534 True 571.0 571 86.3470 3753 4279 1 chr4A.!!$R1 526

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
105 106 0.034186 TGGTGGCCCAGTGATTGATC 60.034 55.000 0.00 0.00 35.17 2.92 F
781 4693 0.036010 TGGACTTGGCTAGCTCAAGC 60.036 55.000 30.10 24.47 43.79 4.01 F
1254 5167 1.557443 GCCACAACTTCGTCAGGTCG 61.557 60.000 0.00 0.00 0.00 4.79 F
2430 6343 1.136774 GCCGGAAATTTGCGAGGTC 59.863 57.895 30.36 13.90 45.24 3.85 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1071 4984 1.449956 CTTCTGCCTCTGCCTCTGC 60.450 63.158 0.00 0.00 36.33 4.26 R
2253 6166 1.430632 GGTGGAATAGTCGTCGCGA 59.569 57.895 3.71 3.71 0.00 5.87 R
2829 6742 0.035152 TCCTGTCGGCCTCGTACTTA 60.035 55.000 0.00 0.00 37.69 2.24 R
3734 11020 0.036388 ACGCGGGAAAGTGACATGAT 60.036 50.000 12.47 0.00 0.00 2.45 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
39 40 1.201429 ATGGCCGTTCCTCTCCACTT 61.201 55.000 0.00 0.00 35.26 3.16
51 52 3.193479 CCTCTCCACTTATTTTTGCCACC 59.807 47.826 0.00 0.00 0.00 4.61
61 62 2.363306 TTTTGCCACCATCAGTCAGT 57.637 45.000 0.00 0.00 0.00 3.41
62 63 1.896220 TTTGCCACCATCAGTCAGTC 58.104 50.000 0.00 0.00 0.00 3.51
63 64 0.764271 TTGCCACCATCAGTCAGTCA 59.236 50.000 0.00 0.00 0.00 3.41
64 65 0.322648 TGCCACCATCAGTCAGTCAG 59.677 55.000 0.00 0.00 0.00 3.51
88 89 0.854062 CAAACATGCGCAACACTTGG 59.146 50.000 17.11 0.39 0.00 3.61
92 93 3.211564 ATGCGCAACACTTGGTGGC 62.212 57.895 17.11 0.00 43.46 5.01
105 106 0.034186 TGGTGGCCCAGTGATTGATC 60.034 55.000 0.00 0.00 35.17 2.92
106 107 0.257039 GGTGGCCCAGTGATTGATCT 59.743 55.000 0.00 0.00 0.00 2.75
107 108 1.386533 GTGGCCCAGTGATTGATCTG 58.613 55.000 0.00 0.00 0.00 2.90
109 110 1.105759 GGCCCAGTGATTGATCTGGC 61.106 60.000 5.77 0.00 46.83 4.85
110 111 1.105759 GCCCAGTGATTGATCTGGCC 61.106 60.000 0.00 0.00 46.83 5.36
111 112 0.466922 CCCAGTGATTGATCTGGCCC 60.467 60.000 0.00 0.00 46.83 5.80
140 158 2.613691 GCATCTTGCAATTGGAACCAG 58.386 47.619 8.47 0.00 44.26 4.00
149 167 3.617288 GCAATTGGAACCAGGTTGATTCC 60.617 47.826 10.47 5.20 40.60 3.01
154 172 4.033709 TGGAACCAGGTTGATTCCAAAAA 58.966 39.130 10.47 0.00 46.71 1.94
156 174 4.343814 GGAACCAGGTTGATTCCAAAAAGA 59.656 41.667 10.47 0.00 39.93 2.52
157 175 5.163353 GGAACCAGGTTGATTCCAAAAAGAA 60.163 40.000 10.47 0.00 39.93 2.52
158 176 5.948742 ACCAGGTTGATTCCAAAAAGAAA 57.051 34.783 0.00 0.00 33.49 2.52
159 177 6.306643 ACCAGGTTGATTCCAAAAAGAAAA 57.693 33.333 0.00 0.00 33.49 2.29
160 178 6.348498 ACCAGGTTGATTCCAAAAAGAAAAG 58.652 36.000 0.00 0.00 33.49 2.27
161 179 6.156083 ACCAGGTTGATTCCAAAAAGAAAAGA 59.844 34.615 0.00 0.00 33.49 2.52
165 183 9.166173 AGGTTGATTCCAAAAAGAAAAGAAAAG 57.834 29.630 0.00 0.00 33.49 2.27
252 294 0.665369 TCGCGTCTTCCTTTTCCGAC 60.665 55.000 5.77 0.00 0.00 4.79
345 391 3.923017 ATTTTAGGCACAACAGAGCAC 57.077 42.857 0.00 0.00 0.00 4.40
388 442 3.690139 TCAAGAGCGACGTCTTAGAGAAT 59.310 43.478 14.70 0.00 34.90 2.40
390 444 4.705337 AGAGCGACGTCTTAGAGAATTT 57.295 40.909 14.70 0.00 0.00 1.82
393 447 4.167268 AGCGACGTCTTAGAGAATTTGAC 58.833 43.478 14.70 0.00 0.00 3.18
397 451 6.021311 GCGACGTCTTAGAGAATTTGACTAAG 60.021 42.308 14.70 15.04 42.22 2.18
439 494 9.944376 ACGCAGTCATAAATAAATCCATATAGT 57.056 29.630 0.00 0.00 29.74 2.12
457 559 8.114290 CCATATAGTTTACACAAGTAACGCAAG 58.886 37.037 0.00 0.00 39.80 4.01
480 608 0.243365 ACGTCGGTGGCGTAAATACA 59.757 50.000 0.00 0.00 41.06 2.29
490 618 4.453136 GTGGCGTAAATACAGGAAGAACAA 59.547 41.667 0.00 0.00 0.00 2.83
562 2601 4.780815 TCTGGTTTACCATCCATCATCAC 58.219 43.478 1.37 0.00 46.46 3.06
576 2615 7.128234 TCCATCATCACACAAGAGAATGATA 57.872 36.000 0.00 0.00 30.64 2.15
627 2666 6.724893 GGCCAGATTAAAAAGGGCTAATAA 57.275 37.500 0.00 0.00 44.04 1.40
677 4588 4.095483 GTCATTCAGCGGTTTCTCATTGAT 59.905 41.667 0.00 0.00 0.00 2.57
781 4693 0.036010 TGGACTTGGCTAGCTCAAGC 60.036 55.000 30.10 24.47 43.79 4.01
937 4850 3.151022 AGCTCCTAGACAGCGGCC 61.151 66.667 0.00 0.00 42.14 6.13
1254 5167 1.557443 GCCACAACTTCGTCAGGTCG 61.557 60.000 0.00 0.00 0.00 4.79
1257 5170 2.027625 CAACTTCGTCAGGTCGGCC 61.028 63.158 0.00 0.00 0.00 6.13
1581 5494 2.281692 TCGCAGGTGCAGCAATGT 60.282 55.556 19.63 0.00 42.21 2.71
1816 5729 3.259314 TGGGTGCCATGGCTCAGT 61.259 61.111 35.53 0.00 42.51 3.41
2225 6138 2.463620 GCAGCATCGGCATCGTCAA 61.464 57.895 0.00 0.00 44.61 3.18
2430 6343 1.136774 GCCGGAAATTTGCGAGGTC 59.863 57.895 30.36 13.90 45.24 3.85
2676 6589 4.752879 CTGGTGCGGGTGTACGGG 62.753 72.222 0.00 0.00 0.00 5.28
2829 6742 1.369091 GCAACATCTGGTTCGCCGAT 61.369 55.000 0.00 0.00 37.72 4.18
3143 7063 3.917760 GGGATCAGCTCGACCGGG 61.918 72.222 6.32 0.00 0.00 5.73
3145 7065 4.593864 GATCAGCTCGACCGGGCC 62.594 72.222 10.97 0.00 43.99 5.80
3235 7155 2.433868 TGTAGACTCTGTTTCGTGGC 57.566 50.000 0.00 0.00 0.00 5.01
3241 7161 1.227823 TCTGTTTCGTGGCTGGGTG 60.228 57.895 0.00 0.00 0.00 4.61
3242 7162 2.203280 TGTTTCGTGGCTGGGTGG 60.203 61.111 0.00 0.00 0.00 4.61
3312 7233 0.474660 AGGGAAAGGACAGCTCAGGT 60.475 55.000 0.00 0.00 0.00 4.00
3391 8067 3.314357 AGCCGAAAAGGTTGTTCTAACAC 59.686 43.478 0.00 0.00 43.70 3.32
3427 8103 6.758416 CACCTCTTGATCGACAGAATTTATGA 59.242 38.462 0.00 0.00 0.00 2.15
3437 8113 5.163854 CGACAGAATTTATGAACGGAGCTTT 60.164 40.000 0.00 0.00 0.00 3.51
3452 8633 3.428589 GGAGCTTTAAATTGAGCCTGCAG 60.429 47.826 6.78 6.78 39.71 4.41
3480 10766 2.409948 ATTTAGAGGCTGTGAGGCAC 57.590 50.000 0.00 0.00 44.19 5.01
3496 10782 3.175710 ACTGGGTTGGAGGGCGTT 61.176 61.111 0.00 0.00 0.00 4.84
3497 10783 2.115266 CTGGGTTGGAGGGCGTTT 59.885 61.111 0.00 0.00 0.00 3.60
3507 10793 1.270041 GGAGGGCGTTTCATTTGCAAA 60.270 47.619 15.44 15.44 0.00 3.68
3541 10827 1.064825 GGGAAGTTTCACCTCCCTCA 58.935 55.000 3.58 0.00 37.63 3.86
3550 10836 0.690411 CACCTCCCTCATCAGCCTCT 60.690 60.000 0.00 0.00 0.00 3.69
3552 10838 0.398239 CCTCCCTCATCAGCCTCTCA 60.398 60.000 0.00 0.00 0.00 3.27
3556 10842 1.227205 CTCATCAGCCTCTCACGCC 60.227 63.158 0.00 0.00 0.00 5.68
3632 10918 0.037734 AACTTCCCGTGGTCATTCCC 59.962 55.000 0.00 0.00 34.77 3.97
3637 10923 3.124921 CGTGGTCATTCCCGCCAC 61.125 66.667 0.00 0.00 46.61 5.01
3644 10930 0.331278 TCATTCCCGCCACATTTCCT 59.669 50.000 0.00 0.00 0.00 3.36
3647 10933 3.451894 CCCGCCACATTTCCTGCC 61.452 66.667 0.00 0.00 0.00 4.85
3648 10934 2.676121 CCGCCACATTTCCTGCCA 60.676 61.111 0.00 0.00 0.00 4.92
3649 10935 2.568090 CGCCACATTTCCTGCCAC 59.432 61.111 0.00 0.00 0.00 5.01
3650 10936 2.267351 CGCCACATTTCCTGCCACA 61.267 57.895 0.00 0.00 0.00 4.17
3651 10937 1.597797 CGCCACATTTCCTGCCACAT 61.598 55.000 0.00 0.00 0.00 3.21
3652 10938 0.609662 GCCACATTTCCTGCCACATT 59.390 50.000 0.00 0.00 0.00 2.71
3653 10939 1.002315 GCCACATTTCCTGCCACATTT 59.998 47.619 0.00 0.00 0.00 2.32
3654 10940 2.932187 GCCACATTTCCTGCCACATTTC 60.932 50.000 0.00 0.00 0.00 2.17
3655 10941 2.354003 CCACATTTCCTGCCACATTTCC 60.354 50.000 0.00 0.00 0.00 3.13
3656 10942 2.564062 CACATTTCCTGCCACATTTCCT 59.436 45.455 0.00 0.00 0.00 3.36
3657 10943 2.564062 ACATTTCCTGCCACATTTCCTG 59.436 45.455 0.00 0.00 0.00 3.86
3658 10944 2.380064 TTTCCTGCCACATTTCCTGT 57.620 45.000 0.00 0.00 39.20 4.00
3659 10945 1.909700 TTCCTGCCACATTTCCTGTC 58.090 50.000 0.00 0.00 35.29 3.51
3705 10991 3.118592 GCTAAATAGCCCATATCCTCGCT 60.119 47.826 0.82 0.00 43.39 4.93
3724 11010 2.863809 CTGCCTACAACCTCCACTTTT 58.136 47.619 0.00 0.00 0.00 2.27
3734 11020 0.685097 CTCCACTTTTCTCCCCGTCA 59.315 55.000 0.00 0.00 0.00 4.35
3735 11021 1.279271 CTCCACTTTTCTCCCCGTCAT 59.721 52.381 0.00 0.00 0.00 3.06
3742 11028 1.567357 TTCTCCCCGTCATCATGTCA 58.433 50.000 0.00 0.00 0.00 3.58
3746 11032 1.628340 TCCCCGTCATCATGTCACTTT 59.372 47.619 0.00 0.00 0.00 2.66
3750 11036 1.660607 CGTCATCATGTCACTTTCCCG 59.339 52.381 0.00 0.00 0.00 5.14
3751 11037 1.398390 GTCATCATGTCACTTTCCCGC 59.602 52.381 0.00 0.00 0.00 6.13
3794 11080 0.793861 CGGCCGATCTTTCACGAAAA 59.206 50.000 24.07 0.00 0.00 2.29
3810 11097 2.350007 CGAAAAAGCGGATTCCAACGAA 60.350 45.455 3.09 0.00 0.00 3.85
3817 11104 2.139917 CGGATTCCAACGAAGAACACA 58.860 47.619 3.09 0.00 0.00 3.72
3837 11149 1.064825 AAGGACACGAGGGGAAACAT 58.935 50.000 0.00 0.00 0.00 2.71
3879 11192 6.348458 CCAACAAAGAACGATCACACATATGT 60.348 38.462 1.41 1.41 40.80 2.29
3924 11239 6.122277 AGATACACGATCCAAATCCAACAAT 58.878 36.000 0.00 0.00 34.80 2.71
4187 11514 3.068691 CCTCGGGCTCGGAACTGA 61.069 66.667 5.94 0.00 36.95 3.41
4197 11524 2.375766 CGGAACTGAGCGCAGACAC 61.376 63.158 25.03 13.39 45.17 3.67
4198 11525 2.029844 GGAACTGAGCGCAGACACC 61.030 63.158 25.03 18.01 45.17 4.16
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
5 6 3.712907 CATGGAACCGACCGGGGT 61.713 66.667 13.43 0.11 43.83 4.95
39 40 4.406456 ACTGACTGATGGTGGCAAAAATA 58.594 39.130 0.00 0.00 0.00 1.40
51 52 0.244721 TGGCGACTGACTGACTGATG 59.755 55.000 0.00 0.00 0.00 3.07
88 89 1.386533 CAGATCAATCACTGGGCCAC 58.613 55.000 0.00 0.00 0.00 5.01
140 158 9.161629 TCTTTTCTTTTCTTTTTGGAATCAACC 57.838 29.630 0.00 0.00 31.78 3.77
149 167 9.040543 GCGAAGTTTTCTTTTCTTTTCTTTTTG 57.959 29.630 0.00 0.00 40.61 2.44
154 172 6.852664 TCAGCGAAGTTTTCTTTTCTTTTCT 58.147 32.000 0.00 0.00 40.61 2.52
156 174 6.036470 CCTCAGCGAAGTTTTCTTTTCTTTT 58.964 36.000 0.00 0.00 40.61 2.27
157 175 5.125578 ACCTCAGCGAAGTTTTCTTTTCTTT 59.874 36.000 0.00 0.00 40.61 2.52
158 176 4.640647 ACCTCAGCGAAGTTTTCTTTTCTT 59.359 37.500 0.00 0.00 40.61 2.52
159 177 4.200092 ACCTCAGCGAAGTTTTCTTTTCT 58.800 39.130 0.00 0.00 40.61 2.52
160 178 4.553756 ACCTCAGCGAAGTTTTCTTTTC 57.446 40.909 0.00 0.00 40.61 2.29
161 179 4.672409 CAACCTCAGCGAAGTTTTCTTTT 58.328 39.130 0.00 0.00 40.61 2.27
165 183 1.335051 GGCAACCTCAGCGAAGTTTTC 60.335 52.381 0.00 0.00 0.00 2.29
170 188 1.699656 CGATGGCAACCTCAGCGAAG 61.700 60.000 0.00 0.00 45.36 3.79
171 189 1.741401 CGATGGCAACCTCAGCGAA 60.741 57.895 0.00 0.00 45.36 4.70
252 294 1.218316 GTGTAGAGGACCCAAGGCG 59.782 63.158 0.00 0.00 0.00 5.52
293 335 1.181786 GAGATCTCCATCCTAGGCGG 58.818 60.000 12.00 7.35 0.00 6.13
393 447 6.147581 TGCGTTTGTTACTCTAGACACTTAG 58.852 40.000 0.00 0.00 0.00 2.18
397 451 4.296690 ACTGCGTTTGTTACTCTAGACAC 58.703 43.478 0.00 0.00 0.00 3.67
439 494 3.374367 TGTGCTTGCGTTACTTGTGTAAA 59.626 39.130 0.00 0.00 39.96 2.01
440 495 2.937149 TGTGCTTGCGTTACTTGTGTAA 59.063 40.909 0.00 0.00 36.41 2.41
441 496 2.285756 GTGTGCTTGCGTTACTTGTGTA 59.714 45.455 0.00 0.00 0.00 2.90
442 497 1.063469 GTGTGCTTGCGTTACTTGTGT 59.937 47.619 0.00 0.00 0.00 3.72
443 498 1.741993 GTGTGCTTGCGTTACTTGTG 58.258 50.000 0.00 0.00 0.00 3.33
444 499 0.303493 CGTGTGCTTGCGTTACTTGT 59.697 50.000 0.00 0.00 0.00 3.16
445 500 0.303493 ACGTGTGCTTGCGTTACTTG 59.697 50.000 0.00 0.00 38.21 3.16
469 597 5.616488 TTTGTTCTTCCTGTATTTACGCC 57.384 39.130 0.00 0.00 0.00 5.68
480 608 7.654022 TGGATTTTACTGTTTTGTTCTTCCT 57.346 32.000 0.00 0.00 0.00 3.36
490 618 5.127031 CCCGGATTCATGGATTTTACTGTTT 59.873 40.000 0.73 0.00 0.00 2.83
562 2601 8.899427 ACCTGAACATATATCATTCTCTTGTG 57.101 34.615 7.46 0.00 0.00 3.33
576 2615 8.585471 AATGATTGTCTTCAACCTGAACATAT 57.415 30.769 0.00 0.00 36.33 1.78
781 4693 3.057526 CCGGGGAAAAGCTTTAGTTTCTG 60.058 47.826 13.10 6.05 34.74 3.02
1061 4974 4.154347 GCCTCTGCCTCCTGTCGG 62.154 72.222 0.00 0.00 0.00 4.79
1068 4981 3.388703 CTGCCTCTGCCTCTGCCTC 62.389 68.421 0.00 0.00 36.33 4.70
1070 4983 2.872931 CTTCTGCCTCTGCCTCTGCC 62.873 65.000 0.00 0.00 36.33 4.85
1071 4984 1.449956 CTTCTGCCTCTGCCTCTGC 60.450 63.158 0.00 0.00 36.33 4.26
1072 4985 1.449956 GCTTCTGCCTCTGCCTCTG 60.450 63.158 0.00 0.00 36.33 3.35
1073 4986 1.901654 CTGCTTCTGCCTCTGCCTCT 61.902 60.000 0.00 0.00 38.71 3.69
2253 6166 1.430632 GGTGGAATAGTCGTCGCGA 59.569 57.895 3.71 3.71 0.00 5.87
2430 6343 2.679132 CTTCGGATGGCCTACGGTCG 62.679 65.000 3.32 0.00 0.00 4.79
2483 6396 2.511145 CCTCTGCTTCGGCTGCTC 60.511 66.667 0.00 0.00 42.37 4.26
2489 6402 2.498726 GCTCCTCCTCTGCTTCGG 59.501 66.667 0.00 0.00 0.00 4.30
2829 6742 0.035152 TCCTGTCGGCCTCGTACTTA 60.035 55.000 0.00 0.00 37.69 2.24
2856 6769 1.669115 GTCGCTTGCCTGCTCAAGA 60.669 57.895 14.90 0.00 44.61 3.02
3143 7063 1.067495 AGTAGCTCTTTCACTGTCGGC 60.067 52.381 0.00 0.00 0.00 5.54
3145 7065 3.753842 GAGAGTAGCTCTTTCACTGTCG 58.246 50.000 0.00 0.00 41.35 4.35
3169 7089 0.247735 CGCTACAACTCTCTCCGACG 60.248 60.000 0.00 0.00 0.00 5.12
3173 7093 1.474879 AGAAGCGCTACAACTCTCTCC 59.525 52.381 12.05 0.00 0.00 3.71
3322 7243 1.689273 GGTGATCGGGCAGATAGAGTT 59.311 52.381 0.00 0.00 40.26 3.01
3427 8103 3.191371 CAGGCTCAATTTAAAGCTCCGTT 59.809 43.478 0.00 0.00 38.58 4.44
3457 8638 3.181451 TGCCTCACAGCCTCTAAATATGG 60.181 47.826 0.00 0.00 0.00 2.74
3472 10758 1.302832 CTCCAACCCAGTGCCTCAC 60.303 63.158 0.00 0.00 34.10 3.51
3480 10766 1.971695 GAAACGCCCTCCAACCCAG 60.972 63.158 0.00 0.00 0.00 4.45
3507 10793 0.543277 TTCCCTCTCATGCAAGCGAT 59.457 50.000 0.00 0.00 0.00 4.58
3541 10827 0.463295 CATTGGCGTGAGAGGCTGAT 60.463 55.000 0.00 0.00 37.59 2.90
3556 10842 1.154205 CCTAGCCTTCGACGCCATTG 61.154 60.000 0.10 0.00 0.00 2.82
3589 10875 1.065709 AGGCGACGACCACCATTAATT 60.066 47.619 0.00 0.00 0.00 1.40
3592 10878 1.216977 CAGGCGACGACCACCATTA 59.783 57.895 0.00 0.00 0.00 1.90
3632 10918 1.597797 ATGTGGCAGGAAATGTGGCG 61.598 55.000 0.00 0.00 43.28 5.69
3637 10923 2.564062 ACAGGAAATGTGGCAGGAAATG 59.436 45.455 0.00 0.00 41.91 2.32
3638 10924 2.827921 GACAGGAAATGTGGCAGGAAAT 59.172 45.455 0.00 0.00 44.17 2.17
3647 10933 5.732647 CGTTTTTATAGCGACAGGAAATGTG 59.267 40.000 0.00 0.00 44.17 3.21
3649 10935 5.263185 CCGTTTTTATAGCGACAGGAAATG 58.737 41.667 0.00 0.00 0.00 2.32
3650 10936 4.201881 GCCGTTTTTATAGCGACAGGAAAT 60.202 41.667 0.00 0.00 0.00 2.17
3651 10937 3.125658 GCCGTTTTTATAGCGACAGGAAA 59.874 43.478 0.00 0.00 0.00 3.13
3652 10938 2.674357 GCCGTTTTTATAGCGACAGGAA 59.326 45.455 0.00 0.00 0.00 3.36
3653 10939 2.273557 GCCGTTTTTATAGCGACAGGA 58.726 47.619 0.00 0.00 0.00 3.86
3654 10940 2.732001 GCCGTTTTTATAGCGACAGG 57.268 50.000 0.00 0.00 0.00 4.00
3693 10979 0.969149 TGTAGGCAGCGAGGATATGG 59.031 55.000 0.00 0.00 0.00 2.74
3703 10989 0.036875 AAGTGGAGGTTGTAGGCAGC 59.963 55.000 0.00 0.00 0.00 5.25
3705 10991 2.441750 AGAAAAGTGGAGGTTGTAGGCA 59.558 45.455 0.00 0.00 0.00 4.75
3724 11010 0.824109 GTGACATGATGACGGGGAGA 59.176 55.000 0.00 0.00 0.00 3.71
3734 11020 0.036388 ACGCGGGAAAGTGACATGAT 60.036 50.000 12.47 0.00 0.00 2.45
3735 11021 0.948623 CACGCGGGAAAGTGACATGA 60.949 55.000 12.47 0.00 40.56 3.07
3742 11028 0.108329 CCTACATCACGCGGGAAAGT 60.108 55.000 18.36 20.08 0.00 2.66
3746 11032 2.363276 ACCCTACATCACGCGGGA 60.363 61.111 16.24 16.24 39.08 5.14
3750 11036 2.106683 GTGCCACCCTACATCACGC 61.107 63.158 0.00 0.00 0.00 5.34
3751 11037 1.449601 GGTGCCACCCTACATCACG 60.450 63.158 1.17 0.00 30.04 4.35
3794 11080 1.804748 GTTCTTCGTTGGAATCCGCTT 59.195 47.619 0.00 0.00 0.00 4.68
3810 11097 1.202651 CCCTCGTGTCCTTTGTGTTCT 60.203 52.381 0.00 0.00 0.00 3.01
3817 11104 0.841289 TGTTTCCCCTCGTGTCCTTT 59.159 50.000 0.00 0.00 0.00 3.11
3837 11149 5.034852 TGTTGGTTTGAGTGATTCTCTCA 57.965 39.130 13.09 13.09 43.13 3.27
3859 11171 8.948631 ATCTAACATATGTGTGATCGTTCTTT 57.051 30.769 9.63 0.00 38.92 2.52
3879 11192 6.340962 TCTCTTTTGTGTTCGAGGATCTAA 57.659 37.500 0.00 0.00 0.00 2.10
3924 11239 3.760151 CCGGTTATCCTATGTATCGTCCA 59.240 47.826 0.00 0.00 0.00 4.02
3939 11254 3.134804 CCTCATGGAGAAGAACCGGTTAT 59.865 47.826 22.33 15.79 34.57 1.89
4056 11375 5.242615 TCATATGTGAGATAGAGCTTCGCTT 59.757 40.000 1.90 0.00 39.88 4.68
4178 11505 2.258591 GTCTGCGCTCAGTTCCGA 59.741 61.111 9.73 0.00 41.10 4.55
4187 11514 3.760035 CCGGTAGGTGTCTGCGCT 61.760 66.667 9.73 0.00 0.00 5.92


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

AutoCloner maintained by Alex Coulton.