Multiple sequence alignment - TraesCS7A01G357900

Loading Multiple Alignment...

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 TraesCS7A01G357900 chr7A 100.000 3764 0 0 1 3764 526978917 526982680 0.000000e+00 6951
1 TraesCS7A01G357900 chr7A 95.893 560 23 0 1 560 132224693 132225252 0.000000e+00 907
2 TraesCS7A01G357900 chr2B 90.772 1463 93 20 579 2007 387369861 387368407 0.000000e+00 1916
3 TraesCS7A01G357900 chr2B 91.948 919 66 7 2007 2919 546664571 546663655 0.000000e+00 1280
4 TraesCS7A01G357900 chr2B 85.957 648 80 11 721 1363 546665244 546664603 0.000000e+00 682
5 TraesCS7A01G357900 chr2B 95.098 204 10 0 1804 2007 407883033 407883236 4.690000e-84 322
6 TraesCS7A01G357900 chr2B 92.258 155 11 1 3610 3764 227809383 227809536 6.330000e-53 219
7 TraesCS7A01G357900 chr7B 92.467 1301 78 10 720 2007 43128298 43127005 0.000000e+00 1842
8 TraesCS7A01G357900 chr7B 82.792 308 33 11 572 866 571045841 571046141 1.340000e-64 257
9 TraesCS7A01G357900 chr7B 83.913 230 27 5 572 793 521855704 521855477 1.060000e-50 211
10 TraesCS7A01G357900 chr3D 94.899 941 46 2 2009 2948 132030841 132029902 0.000000e+00 1471
11 TraesCS7A01G357900 chr3D 94.486 943 50 2 2007 2948 208628562 208629503 0.000000e+00 1452
12 TraesCS7A01G357900 chr3D 96.602 206 7 0 1802 2007 208627906 208628111 3.600000e-90 342
13 TraesCS7A01G357900 chr1D 94.894 940 46 2 2009 2947 225721186 225720248 0.000000e+00 1469
14 TraesCS7A01G357900 chr2A 87.500 1280 143 15 736 2007 96604665 96605935 0.000000e+00 1461
15 TraesCS7A01G357900 chr7D 93.691 951 49 6 2007 2948 185423637 185424585 0.000000e+00 1413
16 TraesCS7A01G357900 chr7D 92.781 942 65 3 2007 2947 325393621 325392682 0.000000e+00 1360
17 TraesCS7A01G357900 chr7D 89.882 850 52 18 2945 3764 537258919 537258074 0.000000e+00 1062
18 TraesCS7A01G357900 chr7D 94.178 584 27 3 1427 2007 185422578 185423157 0.000000e+00 883
19 TraesCS7A01G357900 chr4A 93.206 942 61 3 2008 2948 273295154 273296093 0.000000e+00 1382
20 TraesCS7A01G357900 chr4A 91.716 845 43 9 2945 3764 637403694 637402852 0.000000e+00 1147
21 TraesCS7A01G357900 chr4A 91.361 845 46 11 2945 3764 637489118 637488276 0.000000e+00 1131
22 TraesCS7A01G357900 chr4A 91.145 847 46 12 2945 3764 637297877 637297033 0.000000e+00 1122
23 TraesCS7A01G357900 chr4A 91.145 847 46 12 2945 3764 637355024 637354180 0.000000e+00 1122
24 TraesCS7A01G357900 chr4A 90.769 845 48 12 2945 3764 637612512 637611673 0.000000e+00 1101
25 TraesCS7A01G357900 chr4A 95.714 560 24 0 1 560 47967400 47967959 0.000000e+00 902
26 TraesCS7A01G357900 chr4A 95.357 560 26 0 1 560 457888506 457889065 0.000000e+00 891
27 TraesCS7A01G357900 chr4A 86.040 351 20 15 3439 3762 535950424 535950076 2.150000e-92 350
28 TraesCS7A01G357900 chr4A 88.182 110 2 6 566 665 654323825 654323933 1.840000e-23 121
29 TraesCS7A01G357900 chr6D 92.812 946 53 5 1065 2006 238453429 238454363 0.000000e+00 1356
30 TraesCS7A01G357900 chr6B 92.608 947 62 6 2007 2948 644657599 644656656 0.000000e+00 1354
31 TraesCS7A01G357900 chr6B 86.190 630 77 10 748 1371 644658255 644657630 0.000000e+00 673
32 TraesCS7A01G357900 chr6B 89.571 489 49 2 885 1371 418116308 418116796 1.490000e-173 619
33 TraesCS7A01G357900 chr6B 87.143 350 18 14 3439 3762 4742144 4742492 4.590000e-99 372
34 TraesCS7A01G357900 chr5B 91.860 946 72 5 2007 2948 314808837 314807893 0.000000e+00 1315
35 TraesCS7A01G357900 chr5B 87.204 633 67 12 745 1371 314809492 314808868 0.000000e+00 708
36 TraesCS7A01G357900 chr5B 82.647 340 48 7 614 947 360131827 360131493 1.320000e-74 291
37 TraesCS7A01G357900 chr5B 92.258 155 11 1 3610 3764 51553258 51553105 6.330000e-53 219
38 TraesCS7A01G357900 chr5B 83.333 210 25 6 593 795 269070643 269070437 6.420000e-43 185
39 TraesCS7A01G357900 chr4B 94.575 811 35 6 2945 3753 199719355 199720158 0.000000e+00 1245
40 TraesCS7A01G357900 chr3B 94.089 812 38 4 2945 3753 241263541 241262737 0.000000e+00 1225
41 TraesCS7A01G357900 chr3B 89.474 114 12 0 1004 1117 330640568 330640681 1.090000e-30 145
42 TraesCS7A01G357900 chr4D 93.374 815 39 6 1205 2007 505007117 505006306 0.000000e+00 1192
43 TraesCS7A01G357900 chr1A 89.405 840 56 10 2945 3755 108380209 108381044 0.000000e+00 1027
44 TraesCS7A01G357900 chr1A 95.357 560 25 1 1 560 555119698 555119140 0.000000e+00 889
45 TraesCS7A01G357900 chr6A 96.257 561 20 1 1 560 69095841 69096401 0.000000e+00 918
46 TraesCS7A01G357900 chr3A 95.714 560 24 0 1 560 710154280 710153721 0.000000e+00 902
47 TraesCS7A01G357900 chr3A 95.536 560 25 0 1 560 74839040 74838481 0.000000e+00 896
48 TraesCS7A01G357900 chr3A 95.357 560 26 0 1 560 585679263 585678704 0.000000e+00 891
49 TraesCS7A01G357900 chr5A 95.179 560 27 0 1 560 496245629 496245070 0.000000e+00 885
50 TraesCS7A01G357900 chr1B 89.030 629 58 10 749 1371 232237302 232236679 0.000000e+00 769
51 TraesCS7A01G357900 chr1B 86.246 349 20 15 3439 3762 295052063 295051718 1.660000e-93 353
52 TraesCS7A01G357900 chr1B 94.118 204 12 0 1804 2007 314128496 314128293 1.020000e-80 311
53 TraesCS7A01G357900 chrUn 85.938 256 10 11 3534 3764 45365696 45365442 2.240000e-62 250


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 TraesCS7A01G357900 chr7A 526978917 526982680 3763 False 6951.0 6951 100.0000 1 3764 1 chr7A.!!$F2 3763
1 TraesCS7A01G357900 chr7A 132224693 132225252 559 False 907.0 907 95.8930 1 560 1 chr7A.!!$F1 559
2 TraesCS7A01G357900 chr2B 387368407 387369861 1454 True 1916.0 1916 90.7720 579 2007 1 chr2B.!!$R1 1428
3 TraesCS7A01G357900 chr2B 546663655 546665244 1589 True 981.0 1280 88.9525 721 2919 2 chr2B.!!$R2 2198
4 TraesCS7A01G357900 chr7B 43127005 43128298 1293 True 1842.0 1842 92.4670 720 2007 1 chr7B.!!$R1 1287
5 TraesCS7A01G357900 chr3D 132029902 132030841 939 True 1471.0 1471 94.8990 2009 2948 1 chr3D.!!$R1 939
6 TraesCS7A01G357900 chr3D 208627906 208629503 1597 False 897.0 1452 95.5440 1802 2948 2 chr3D.!!$F1 1146
7 TraesCS7A01G357900 chr1D 225720248 225721186 938 True 1469.0 1469 94.8940 2009 2947 1 chr1D.!!$R1 938
8 TraesCS7A01G357900 chr2A 96604665 96605935 1270 False 1461.0 1461 87.5000 736 2007 1 chr2A.!!$F1 1271
9 TraesCS7A01G357900 chr7D 325392682 325393621 939 True 1360.0 1360 92.7810 2007 2947 1 chr7D.!!$R1 940
10 TraesCS7A01G357900 chr7D 185422578 185424585 2007 False 1148.0 1413 93.9345 1427 2948 2 chr7D.!!$F1 1521
11 TraesCS7A01G357900 chr7D 537258074 537258919 845 True 1062.0 1062 89.8820 2945 3764 1 chr7D.!!$R2 819
12 TraesCS7A01G357900 chr4A 273295154 273296093 939 False 1382.0 1382 93.2060 2008 2948 1 chr4A.!!$F2 940
13 TraesCS7A01G357900 chr4A 637402852 637403694 842 True 1147.0 1147 91.7160 2945 3764 1 chr4A.!!$R4 819
14 TraesCS7A01G357900 chr4A 637488276 637489118 842 True 1131.0 1131 91.3610 2945 3764 1 chr4A.!!$R5 819
15 TraesCS7A01G357900 chr4A 637297033 637297877 844 True 1122.0 1122 91.1450 2945 3764 1 chr4A.!!$R2 819
16 TraesCS7A01G357900 chr4A 637354180 637355024 844 True 1122.0 1122 91.1450 2945 3764 1 chr4A.!!$R3 819
17 TraesCS7A01G357900 chr4A 637611673 637612512 839 True 1101.0 1101 90.7690 2945 3764 1 chr4A.!!$R6 819
18 TraesCS7A01G357900 chr4A 47967400 47967959 559 False 902.0 902 95.7140 1 560 1 chr4A.!!$F1 559
19 TraesCS7A01G357900 chr4A 457888506 457889065 559 False 891.0 891 95.3570 1 560 1 chr4A.!!$F3 559
20 TraesCS7A01G357900 chr6D 238453429 238454363 934 False 1356.0 1356 92.8120 1065 2006 1 chr6D.!!$F1 941
21 TraesCS7A01G357900 chr6B 644656656 644658255 1599 True 1013.5 1354 89.3990 748 2948 2 chr6B.!!$R1 2200
22 TraesCS7A01G357900 chr5B 314807893 314809492 1599 True 1011.5 1315 89.5320 745 2948 2 chr5B.!!$R4 2203
23 TraesCS7A01G357900 chr4B 199719355 199720158 803 False 1245.0 1245 94.5750 2945 3753 1 chr4B.!!$F1 808
24 TraesCS7A01G357900 chr3B 241262737 241263541 804 True 1225.0 1225 94.0890 2945 3753 1 chr3B.!!$R1 808
25 TraesCS7A01G357900 chr4D 505006306 505007117 811 True 1192.0 1192 93.3740 1205 2007 1 chr4D.!!$R1 802
26 TraesCS7A01G357900 chr1A 108380209 108381044 835 False 1027.0 1027 89.4050 2945 3755 1 chr1A.!!$F1 810
27 TraesCS7A01G357900 chr1A 555119140 555119698 558 True 889.0 889 95.3570 1 560 1 chr1A.!!$R1 559
28 TraesCS7A01G357900 chr6A 69095841 69096401 560 False 918.0 918 96.2570 1 560 1 chr6A.!!$F1 559
29 TraesCS7A01G357900 chr3A 710153721 710154280 559 True 902.0 902 95.7140 1 560 1 chr3A.!!$R3 559
30 TraesCS7A01G357900 chr3A 74838481 74839040 559 True 896.0 896 95.5360 1 560 1 chr3A.!!$R1 559
31 TraesCS7A01G357900 chr3A 585678704 585679263 559 True 891.0 891 95.3570 1 560 1 chr3A.!!$R2 559
32 TraesCS7A01G357900 chr5A 496245070 496245629 559 True 885.0 885 95.1790 1 560 1 chr5A.!!$R1 559
33 TraesCS7A01G357900 chr1B 232236679 232237302 623 True 769.0 769 89.0300 749 1371 1 chr1B.!!$R1 622

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
729 736 1.205055 CTTCTTACCACCTCCTCCCC 58.795 60.0 0.00 0.00 0.0 4.81 F
1194 1312 0.472734 ACTTGGTGGAGGTCAGAGCT 60.473 55.0 0.40 0.40 0.0 4.09 F
2578 3207 0.321021 TGTTGCAACCATGGCCATTC 59.679 50.0 26.14 3.65 0.0 2.67 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2554 3183 0.033781 GCCATGGTTGCAACACATGT 59.966 50.000 34.19 17.65 36.60 3.21 R
2688 3317 1.067669 GCGATGTACAGGAGCTCATCA 59.932 52.381 17.19 3.09 37.21 3.07 R
3699 4366 0.253207 AAACTCCTAGGGTGAGGGGG 60.253 60.000 9.46 0.00 42.02 5.40 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
63 64 2.989480 CCTCTCCAGGCAGTTCTCT 58.011 57.895 0.00 0.00 30.98 3.10
81 82 1.826720 TCTAGTCCGGCCATTAAACGT 59.173 47.619 2.24 0.00 0.00 3.99
90 91 1.942586 GCCATTAAACGTCCGGACACT 60.943 52.381 32.80 17.04 0.00 3.55
93 94 2.600470 TTAAACGTCCGGACACTGTT 57.400 45.000 32.80 24.56 0.00 3.16
475 478 4.929819 TTCGCATACTATTCCACAGCTA 57.070 40.909 0.00 0.00 0.00 3.32
488 491 4.465446 AGCTAGCCCCTGGAGCGA 62.465 66.667 12.13 0.00 41.23 4.93
560 563 1.815003 CTTTGATCGCAGCCCTCTTTT 59.185 47.619 0.00 0.00 0.00 2.27
561 564 1.909700 TTGATCGCAGCCCTCTTTTT 58.090 45.000 0.00 0.00 0.00 1.94
653 660 4.439253 AGAATATTCTGTTACCCCTGGC 57.561 45.455 17.26 0.00 35.89 4.85
658 665 2.938798 TGTTACCCCTGGCCCCTG 60.939 66.667 0.00 0.00 0.00 4.45
697 704 6.239458 CCCCAAAACAAGAAAACTGCCTAATA 60.239 38.462 0.00 0.00 0.00 0.98
700 707 7.545615 CCAAAACAAGAAAACTGCCTAATATCC 59.454 37.037 0.00 0.00 0.00 2.59
729 736 1.205055 CTTCTTACCACCTCCTCCCC 58.795 60.000 0.00 0.00 0.00 4.81
762 822 2.365635 CGACCTCCTCCCCACCAT 60.366 66.667 0.00 0.00 0.00 3.55
798 860 4.335647 CCCAGCACGCCTCCAGTT 62.336 66.667 0.00 0.00 0.00 3.16
814 876 4.608514 TTGGCCTCCTCCCCACCA 62.609 66.667 3.32 0.00 0.00 4.17
815 877 3.908712 TTGGCCTCCTCCCCACCAT 62.909 63.158 3.32 0.00 0.00 3.55
818 880 2.693864 CCTCCTCCCCACCATGCT 60.694 66.667 0.00 0.00 0.00 3.79
844 906 2.270527 GCCTCTTCCTCCCAGCAC 59.729 66.667 0.00 0.00 0.00 4.40
1015 1132 0.679002 CACCATGGCTCCAACCTCTG 60.679 60.000 13.04 0.00 0.00 3.35
1026 1143 1.088340 CAACCTCTGGCATCTCGCAG 61.088 60.000 0.00 0.00 45.17 5.18
1028 1145 1.220206 CCTCTGGCATCTCGCAGTT 59.780 57.895 0.00 0.00 45.17 3.16
1137 1255 3.790437 CTGGATCCCGCTGCCACT 61.790 66.667 9.90 0.00 0.00 4.00
1194 1312 0.472734 ACTTGGTGGAGGTCAGAGCT 60.473 55.000 0.40 0.40 0.00 4.09
1225 1343 3.753815 TGGAATGCAAGTGTTCATGAGA 58.246 40.909 0.00 0.00 0.00 3.27
1491 1621 5.719173 AGTGAGAGTCATAGAGAAGCAAAC 58.281 41.667 0.00 0.00 0.00 2.93
1520 1650 2.832733 GCTACCTCTACCTTCTGGTTGT 59.167 50.000 0.00 0.00 46.05 3.32
1601 1740 1.515736 GCTTTGAGCCTTGCATCGC 60.516 57.895 0.00 0.00 34.48 4.58
1673 1812 2.308570 AGGTGTGATGTCCTATGCCAAA 59.691 45.455 0.00 0.00 31.66 3.28
1723 1862 3.319198 GCTGGGAGACGTTGGGGA 61.319 66.667 0.00 0.00 0.00 4.81
1933 2072 1.085893 CATATCCTTGTGTGTGCGCA 58.914 50.000 5.66 5.66 0.00 6.09
2296 2916 7.230108 CCCCGACTGTCTATAGTTCATTAGTTA 59.770 40.741 6.21 0.00 0.00 2.24
2297 2917 8.291032 CCCGACTGTCTATAGTTCATTAGTTAG 58.709 40.741 6.21 0.00 0.00 2.34
2504 3133 0.542702 CAGTCCAACCCCATGGCTTT 60.543 55.000 6.09 0.00 40.46 3.51
2507 3136 1.080638 TCCAACCCCATGGCTTTAGT 58.919 50.000 6.09 0.00 40.46 2.24
2539 3168 3.754530 TCGCGGCCATCAGTTCGA 61.755 61.111 6.13 0.00 0.00 3.71
2548 3177 1.511850 CATCAGTTCGAACACCTGCA 58.488 50.000 28.78 9.97 0.00 4.41
2554 3183 2.299013 AGTTCGAACACCTGCATCACTA 59.701 45.455 28.78 0.00 0.00 2.74
2578 3207 0.321021 TGTTGCAACCATGGCCATTC 59.679 50.000 26.14 3.65 0.00 2.67
2663 3292 3.889134 CTGAAGCTGCTCGTGCCCA 62.889 63.158 1.00 0.00 38.71 5.36
2688 3317 1.476471 GGCTTGATATCCTGCTGCAGT 60.476 52.381 26.41 12.91 0.00 4.40
2744 3373 4.012895 CAACGGCACCAGCACGAC 62.013 66.667 0.00 0.00 44.61 4.34
2782 3411 2.046892 CCCCAGTTCGTGCCTCAG 60.047 66.667 0.00 0.00 0.00 3.35
2797 3426 2.125673 CAGGGTCAAGTACGCGGG 60.126 66.667 12.47 0.00 45.40 6.13
3065 3697 1.404315 GCAGCCTACTAGCGTGTTCTT 60.404 52.381 0.00 0.00 38.01 2.52
3066 3698 2.931320 GCAGCCTACTAGCGTGTTCTTT 60.931 50.000 0.00 0.00 38.01 2.52
3072 3704 3.113260 ACTAGCGTGTTCTTTCTTGCT 57.887 42.857 0.00 0.00 36.51 3.91
3257 3893 9.809096 TGAACTTCAATTCTAGCTACTATTCAG 57.191 33.333 0.00 0.00 0.00 3.02
3283 3919 8.899427 ATCTAATACTAGCACGTACAAGACTA 57.101 34.615 0.00 0.00 0.00 2.59
3303 3939 2.275318 AGACTCGTACTACTGCGTACC 58.725 52.381 0.00 0.00 37.13 3.34
3356 3992 6.093219 TGAACTTTGCATGCTCTCTATTCTTC 59.907 38.462 20.33 7.58 0.00 2.87
3437 4073 7.841915 AGCTAGTTCTTTATTCTTTCAGAGC 57.158 36.000 0.00 0.00 0.00 4.09
3599 4241 1.536662 ACTGCTTCCCGACCTCCTT 60.537 57.895 0.00 0.00 0.00 3.36
3654 4321 0.179020 CCACTCCAGGCTGTTCAACA 60.179 55.000 14.43 0.00 0.00 3.33
3699 4366 2.273449 CAGCACCCTGGATCCCAC 59.727 66.667 9.90 0.00 35.38 4.61
3755 4422 4.706962 AGTTTCAGTCCAACTTGAGCTTTT 59.293 37.500 0.00 0.00 29.75 2.27
3759 4426 5.057149 TCAGTCCAACTTGAGCTTTTAGTC 58.943 41.667 0.00 0.00 0.00 2.59
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
63 64 1.134729 GGACGTTTAATGGCCGGACTA 60.135 52.381 9.82 0.00 0.00 2.59
81 82 1.373748 GCGCTTAACAGTGTCCGGA 60.374 57.895 0.00 0.00 32.54 5.14
93 94 3.451004 TTACTCCGGGCGCGCTTA 61.451 61.111 32.29 12.77 0.00 3.09
273 275 1.677633 CCCCTGGTGCGGTTTAAGG 60.678 63.158 0.00 0.00 0.00 2.69
351 354 4.499183 TGTTTGTTCGGCAATTGAACTTT 58.501 34.783 10.34 0.00 44.67 2.66
352 355 4.116747 TGTTTGTTCGGCAATTGAACTT 57.883 36.364 10.34 0.00 44.67 2.66
475 478 4.021925 GTGTTCGCTCCAGGGGCT 62.022 66.667 10.45 0.00 0.00 5.19
488 491 6.947644 AAAGGTTGGACTATTTAACGTGTT 57.052 33.333 0.00 0.00 0.00 3.32
530 533 3.302092 GCTGCGATCAAAGTAGAACGATG 60.302 47.826 0.00 0.00 36.09 3.84
539 542 0.326264 AAGAGGGCTGCGATCAAAGT 59.674 50.000 5.66 0.00 0.00 2.66
638 641 2.235761 GGGGCCAGGGGTAACAGAA 61.236 63.158 4.39 0.00 39.74 3.02
640 643 2.614013 AGGGGCCAGGGGTAACAG 60.614 66.667 4.39 0.00 39.74 3.16
642 645 1.209523 TTACAGGGGCCAGGGGTAAC 61.210 60.000 4.39 0.00 0.00 2.50
643 646 0.917333 CTTACAGGGGCCAGGGGTAA 60.917 60.000 4.39 6.71 0.00 2.85
645 648 2.614013 CTTACAGGGGCCAGGGGT 60.614 66.667 4.39 0.00 0.00 4.95
667 674 1.403687 TTTCTTGTTTTGGGGGCCGG 61.404 55.000 0.00 0.00 0.00 6.13
669 676 1.488812 AGTTTTCTTGTTTTGGGGGCC 59.511 47.619 0.00 0.00 0.00 5.80
670 677 2.560504 CAGTTTTCTTGTTTTGGGGGC 58.439 47.619 0.00 0.00 0.00 5.80
671 678 2.560504 GCAGTTTTCTTGTTTTGGGGG 58.439 47.619 0.00 0.00 0.00 5.40
672 679 2.170397 AGGCAGTTTTCTTGTTTTGGGG 59.830 45.455 0.00 0.00 0.00 4.96
675 682 7.545615 GGGATATTAGGCAGTTTTCTTGTTTTG 59.454 37.037 0.00 0.00 0.00 2.44
680 687 4.275936 CGGGGATATTAGGCAGTTTTCTTG 59.724 45.833 0.00 0.00 0.00 3.02
697 704 1.694696 GTAAGAAGGATCTGCGGGGAT 59.305 52.381 0.00 0.00 35.59 3.85
700 707 0.830648 TGGTAAGAAGGATCTGCGGG 59.169 55.000 0.00 0.00 35.59 6.13
795 857 2.936032 GTGGGGAGGAGGCCAACT 60.936 66.667 5.01 1.01 0.00 3.16
798 860 4.369591 ATGGTGGGGAGGAGGCCA 62.370 66.667 5.01 0.00 0.00 5.36
850 912 4.860881 CTGGGAGGAGGCCGGCTA 62.861 72.222 28.56 1.89 0.00 3.93
950 1067 3.665675 GAATGGAGACGCTGCCGGT 62.666 63.158 1.90 0.00 39.22 5.28
1015 1132 2.514824 GGGGAACTGCGAGATGCC 60.515 66.667 0.00 0.00 45.60 4.40
1026 1143 2.438434 CCAGCGACATGGGGGAAC 60.438 66.667 0.00 0.00 36.64 3.62
1028 1145 3.083349 CTCCAGCGACATGGGGGA 61.083 66.667 0.00 0.00 41.01 4.81
1137 1255 2.030371 CTGCAGCAGGAGAGAGACATA 58.970 52.381 15.35 0.00 34.74 2.29
1225 1343 3.903090 CCATCTTCCTTCTCTGCTCCTAT 59.097 47.826 0.00 0.00 0.00 2.57
1491 1621 5.757320 CAGAAGGTAGAGGTAGCAAATGATG 59.243 44.000 0.00 0.00 0.00 3.07
1520 1650 1.833630 CTCCTGCACCCTACTTCATGA 59.166 52.381 0.00 0.00 0.00 3.07
1601 1740 1.359848 CCAGATCGAACTTCGGTTGG 58.640 55.000 11.21 11.76 40.88 3.77
1677 1816 2.072487 ATGGCGGCCACATAGGAGT 61.072 57.895 26.48 2.08 41.22 3.85
1933 2072 2.682856 AGCACAAAGTTCGTCAACACAT 59.317 40.909 0.00 0.00 34.60 3.21
2091 2711 7.818997 ACTGACCGTATGATAGTATTTGAGA 57.181 36.000 0.00 0.00 0.00 3.27
2126 2746 2.766313 ACATTGCAAGTGCTCGTTAGA 58.234 42.857 4.94 0.00 42.66 2.10
2129 2749 2.217750 TGTACATTGCAAGTGCTCGTT 58.782 42.857 4.94 0.00 42.66 3.85
2215 2835 8.946085 CAACCAGAACTGTAGATATTAGCAAAA 58.054 33.333 1.18 0.00 0.00 2.44
2296 2916 6.596106 TGTAAACAATGTGTGTAGTGACAACT 59.404 34.615 0.00 0.00 40.60 3.16
2297 2917 6.777101 TGTAAACAATGTGTGTAGTGACAAC 58.223 36.000 0.00 0.00 40.60 3.32
2334 2956 7.881751 AGAAGTACTAAATACAACCAACCCTTC 59.118 37.037 0.00 0.00 36.09 3.46
2466 3095 2.537792 GATGGACGCGACGAACTCCA 62.538 60.000 15.93 15.47 34.87 3.86
2504 3133 0.110056 GACGAAACTCGGACGCACTA 60.110 55.000 0.67 0.00 45.59 2.74
2507 3136 2.427905 CGACGAAACTCGGACGCA 60.428 61.111 0.67 0.00 45.59 5.24
2539 3168 3.423539 ACATGTAGTGATGCAGGTGTT 57.576 42.857 0.00 0.00 0.00 3.32
2554 3183 0.033781 GCCATGGTTGCAACACATGT 59.966 50.000 34.19 17.65 36.60 3.21
2578 3207 2.733671 CGGAGCATGCAGTGACACG 61.734 63.158 21.98 9.13 0.00 4.49
2688 3317 1.067669 GCGATGTACAGGAGCTCATCA 59.932 52.381 17.19 3.09 37.21 3.07
2744 3373 2.108566 AGCCTAGCTGCTGCATCG 59.891 61.111 18.42 5.01 40.90 3.84
2797 3426 3.850095 GATACCTCCTCGCAGGCGC 62.850 68.421 9.11 0.00 36.98 6.53
3065 3697 6.678655 GCATGAATACACATTAGCAGCAAGAA 60.679 38.462 0.00 0.00 0.00 2.52
3066 3698 5.220912 GCATGAATACACATTAGCAGCAAGA 60.221 40.000 0.00 0.00 0.00 3.02
3072 3704 2.290367 GCGGCATGAATACACATTAGCA 59.710 45.455 0.00 0.00 0.00 3.49
3257 3893 7.863666 AGTCTTGTACGTGCTAGTATTAGATC 58.136 38.462 13.87 0.00 0.00 2.75
3303 3939 7.274250 GGAAAGAATAAGCAAAATAGCACACTG 59.726 37.037 0.00 0.00 36.85 3.66
3356 3992 6.481644 GGAACTAGCTTTGAACATATCTCTGG 59.518 42.308 0.00 0.00 0.00 3.86
3437 4073 7.119699 TGAGCTGAAAGTATGGAAACAACATAG 59.880 37.037 0.00 0.00 39.92 2.23
3448 4084 5.877012 ACTACAATGTGAGCTGAAAGTATGG 59.123 40.000 0.00 0.00 35.30 2.74
3513 4155 4.708421 CAGGAAGTTGATTCATCACCCATT 59.292 41.667 0.00 0.00 39.91 3.16
3599 4241 2.202797 GCTCTCCGCGATGCAAGA 60.203 61.111 8.23 1.16 0.00 3.02
3622 4289 1.069090 GAGTGGTGGCTGTGAACGA 59.931 57.895 0.00 0.00 0.00 3.85
3646 4313 1.076632 GGGGTGGTGGTGTTGAACA 60.077 57.895 0.00 0.00 0.00 3.18
3699 4366 0.253207 AAACTCCTAGGGTGAGGGGG 60.253 60.000 9.46 0.00 42.02 5.40


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

AutoCloner maintained by Alex Coulton.