Multiple sequence alignment - TraesCS2D01G026100

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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 TraesCS2D01G026100 chr2D 100.000 2300 0 0 1 2300 11126563 11128862 0.000000e+00 4248.0
1 TraesCS2D01G026100 chr2D 90.639 1111 90 8 80 1187 11163832 11164931 0.000000e+00 1463.0
2 TraesCS2D01G026100 chr2D 94.259 540 31 0 1416 1955 11165608 11166147 0.000000e+00 826.0
3 TraesCS2D01G026100 chr2B 89.609 1357 93 23 80 1422 17207415 17206093 0.000000e+00 1681.0
4 TraesCS2D01G026100 chr2B 93.018 888 57 3 1416 2300 17205946 17205061 0.000000e+00 1291.0
5 TraesCS2D01G026100 chr2B 89.290 803 74 6 1508 2300 16966608 16967408 0.000000e+00 996.0
6 TraesCS2D01G026100 chr2B 85.195 743 79 21 688 1414 16965779 16966506 0.000000e+00 734.0
7 TraesCS2D01G026100 chr2B 89.157 249 25 2 2023 2271 152751985 152752231 2.220000e-80 309.0
8 TraesCS2D01G026100 chr2B 85.593 118 15 1 443 560 16965609 16965724 3.100000e-24 122.0
9 TraesCS2D01G026100 chrUn 93.161 775 49 3 1527 2300 12501152 12501923 0.000000e+00 1134.0
10 TraesCS2D01G026100 chrUn 93.161 775 49 3 1527 2300 342143934 342144705 0.000000e+00 1134.0
11 TraesCS2D01G026100 chrUn 89.935 616 55 2 636 1250 12499513 12500122 0.000000e+00 787.0
12 TraesCS2D01G026100 chrUn 86.573 499 39 13 79 561 12498998 12499484 5.630000e-146 527.0
13 TraesCS2D01G026100 chr4D 78.187 651 93 22 739 1374 460565854 460566470 1.000000e-98 370.0
14 TraesCS2D01G026100 chr4D 81.624 468 58 16 953 1399 460651668 460652128 1.680000e-96 363.0
15 TraesCS2D01G026100 chr4D 82.093 430 64 9 953 1371 460582989 460583416 2.810000e-94 355.0
16 TraesCS2D01G026100 chr4D 81.368 424 64 9 958 1368 460667882 460668303 4.740000e-87 331.0
17 TraesCS2D01G026100 chr4D 87.938 257 31 0 1416 1672 460647305 460647561 1.030000e-78 303.0
18 TraesCS2D01G026100 chr4B 82.075 424 66 6 958 1372 575047487 575047909 1.010000e-93 353.0
19 TraesCS2D01G026100 chr4B 88.525 244 28 0 1416 1659 575650686 575650443 1.730000e-76 296.0
20 TraesCS2D01G026100 chr4B 87.295 244 31 0 1416 1659 575613222 575612979 1.740000e-71 279.0
21 TraesCS2D01G026100 chr7A 91.093 247 21 1 2025 2271 260001026 260000781 1.320000e-87 333.0
22 TraesCS2D01G026100 chr5D 89.200 250 27 0 2022 2271 377147852 377148101 1.720000e-81 313.0
23 TraesCS2D01G026100 chr3A 89.157 249 26 1 2024 2271 61433152 61432904 2.220000e-80 309.0
24 TraesCS2D01G026100 chr5B 88.800 250 26 1 2024 2273 176590308 176590061 2.870000e-79 305.0
25 TraesCS2D01G026100 chr4A 88.571 245 26 2 1429 1672 7737146 7736903 1.730000e-76 296.0
26 TraesCS2D01G026100 chr4A 94.828 58 2 1 850 906 7737822 7737765 3.150000e-14 89.8


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 TraesCS2D01G026100 chr2D 11126563 11128862 2299 False 4248.000000 4248 100.000000 1 2300 1 chr2D.!!$F1 2299
1 TraesCS2D01G026100 chr2D 11163832 11166147 2315 False 1144.500000 1463 92.449000 80 1955 2 chr2D.!!$F2 1875
2 TraesCS2D01G026100 chr2B 17205061 17207415 2354 True 1486.000000 1681 91.313500 80 2300 2 chr2B.!!$R1 2220
3 TraesCS2D01G026100 chr2B 16965609 16967408 1799 False 617.333333 996 86.692667 443 2300 3 chr2B.!!$F2 1857
4 TraesCS2D01G026100 chrUn 342143934 342144705 771 False 1134.000000 1134 93.161000 1527 2300 1 chrUn.!!$F1 773
5 TraesCS2D01G026100 chrUn 12498998 12501923 2925 False 816.000000 1134 89.889667 79 2300 3 chrUn.!!$F2 2221
6 TraesCS2D01G026100 chr4D 460565854 460566470 616 False 370.000000 370 78.187000 739 1374 1 chr4D.!!$F1 635

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
476 486 0.606401 CAGCCCCACACCTACTGTTG 60.606 60.0 0.0 0.0 0.0 3.33 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2171 3336 1.15415 GCACCGCTTCATCAAGTGC 60.154 57.895 0.0 0.0 45.99 4.4 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
47 48 7.754851 TTTTTATACACCTGTCTTTTCCCTC 57.245 36.000 0.00 0.00 0.00 4.30
48 49 6.697641 TTTATACACCTGTCTTTTCCCTCT 57.302 37.500 0.00 0.00 0.00 3.69
49 50 7.801893 TTTATACACCTGTCTTTTCCCTCTA 57.198 36.000 0.00 0.00 0.00 2.43
50 51 5.678955 ATACACCTGTCTTTTCCCTCTAC 57.321 43.478 0.00 0.00 0.00 2.59
51 52 3.588569 ACACCTGTCTTTTCCCTCTACT 58.411 45.455 0.00 0.00 0.00 2.57
52 53 3.974642 ACACCTGTCTTTTCCCTCTACTT 59.025 43.478 0.00 0.00 0.00 2.24
53 54 4.412528 ACACCTGTCTTTTCCCTCTACTTT 59.587 41.667 0.00 0.00 0.00 2.66
54 55 5.104067 ACACCTGTCTTTTCCCTCTACTTTT 60.104 40.000 0.00 0.00 0.00 2.27
55 56 5.470437 CACCTGTCTTTTCCCTCTACTTTTC 59.530 44.000 0.00 0.00 0.00 2.29
56 57 5.004448 CCTGTCTTTTCCCTCTACTTTTCC 58.996 45.833 0.00 0.00 0.00 3.13
57 58 5.221945 CCTGTCTTTTCCCTCTACTTTTCCT 60.222 44.000 0.00 0.00 0.00 3.36
58 59 6.013639 CCTGTCTTTTCCCTCTACTTTTCCTA 60.014 42.308 0.00 0.00 0.00 2.94
59 60 7.311360 CCTGTCTTTTCCCTCTACTTTTCCTAT 60.311 40.741 0.00 0.00 0.00 2.57
60 61 7.394816 TGTCTTTTCCCTCTACTTTTCCTATG 58.605 38.462 0.00 0.00 0.00 2.23
61 62 7.236847 TGTCTTTTCCCTCTACTTTTCCTATGA 59.763 37.037 0.00 0.00 0.00 2.15
62 63 8.101419 GTCTTTTCCCTCTACTTTTCCTATGAA 58.899 37.037 0.00 0.00 0.00 2.57
63 64 8.836735 TCTTTTCCCTCTACTTTTCCTATGAAT 58.163 33.333 0.00 0.00 0.00 2.57
64 65 9.114952 CTTTTCCCTCTACTTTTCCTATGAATC 57.885 37.037 0.00 0.00 0.00 2.52
65 66 7.749377 TTCCCTCTACTTTTCCTATGAATCA 57.251 36.000 0.00 0.00 0.00 2.57
66 67 7.749377 TCCCTCTACTTTTCCTATGAATCAA 57.251 36.000 0.00 0.00 0.00 2.57
67 68 7.796054 TCCCTCTACTTTTCCTATGAATCAAG 58.204 38.462 0.00 0.00 0.00 3.02
68 69 7.623677 TCCCTCTACTTTTCCTATGAATCAAGA 59.376 37.037 0.00 0.00 0.00 3.02
69 70 8.267894 CCCTCTACTTTTCCTATGAATCAAGAA 58.732 37.037 0.00 0.00 0.00 2.52
70 71 9.323985 CCTCTACTTTTCCTATGAATCAAGAAG 57.676 37.037 0.00 0.00 0.00 2.85
71 72 8.723942 TCTACTTTTCCTATGAATCAAGAAGC 57.276 34.615 0.00 0.00 0.00 3.86
72 73 8.543774 TCTACTTTTCCTATGAATCAAGAAGCT 58.456 33.333 0.00 0.00 0.00 3.74
73 74 9.823647 CTACTTTTCCTATGAATCAAGAAGCTA 57.176 33.333 0.00 0.00 0.00 3.32
89 90 7.389884 TCAAGAAGCTATAGATGATTTGATGGC 59.610 37.037 3.21 0.00 0.00 4.40
126 127 6.803154 ACTACTCAAGTTTAACTCAATGCC 57.197 37.500 0.00 0.00 33.35 4.40
127 128 4.749245 ACTCAAGTTTAACTCAATGCCG 57.251 40.909 0.00 0.00 0.00 5.69
164 166 8.182227 CCTAGACTCGATTTTGGAATTTAAACC 58.818 37.037 0.00 0.00 0.00 3.27
168 170 8.631480 ACTCGATTTTGGAATTTAAACCTAGT 57.369 30.769 0.00 0.00 0.00 2.57
170 172 8.398878 TCGATTTTGGAATTTAAACCTAGTGT 57.601 30.769 0.00 0.00 0.00 3.55
265 274 9.889128 ATCAATACACCTTAAATTTGAAATGGG 57.111 29.630 0.00 0.00 0.00 4.00
297 306 6.872628 TGCCTAAGCTTTCAATGAGATATG 57.127 37.500 3.20 0.00 40.80 1.78
310 319 7.506114 TCAATGAGATATGTTTGGTACCCTAC 58.494 38.462 10.07 7.98 0.00 3.18
324 333 7.062749 TGGTACCCTACTTTGCTCATATTAG 57.937 40.000 10.07 0.00 0.00 1.73
424 434 2.736144 TGTTACGAGATGGACACACC 57.264 50.000 0.00 0.00 39.54 4.16
476 486 0.606401 CAGCCCCACACCTACTGTTG 60.606 60.000 0.00 0.00 0.00 3.33
486 496 5.458891 CACACCTACTGTTGTACACTAGTC 58.541 45.833 12.97 0.00 0.00 2.59
492 502 7.085116 CCTACTGTTGTACACTAGTCTTTCTG 58.915 42.308 12.97 0.00 0.00 3.02
535 553 6.516693 GCCATATATTAACTTGCAGAAACCCC 60.517 42.308 0.00 0.00 0.00 4.95
553 571 8.174757 AGAAACCCCTATAAAAACACCTTACAT 58.825 33.333 0.00 0.00 0.00 2.29
628 651 0.961857 TAGGCACGGCTCGTTCACTA 60.962 55.000 0.00 0.00 38.32 2.74
652 675 7.451731 AGGTTCTCTCATGGTCCAATATTTA 57.548 36.000 0.00 0.00 0.00 1.40
691 714 2.531522 TGGATATGCCTCACACATCG 57.468 50.000 0.00 0.00 37.63 3.84
756 779 2.074230 AACCATGGCTGTTGCACACG 62.074 55.000 13.04 0.00 41.91 4.49
914 958 3.450817 TCACCTCCGATCAAGAGCAAATA 59.549 43.478 4.54 0.00 0.00 1.40
915 959 4.101585 TCACCTCCGATCAAGAGCAAATAT 59.898 41.667 4.54 0.00 0.00 1.28
916 960 5.304357 TCACCTCCGATCAAGAGCAAATATA 59.696 40.000 4.54 0.00 0.00 0.86
917 961 6.014242 TCACCTCCGATCAAGAGCAAATATAT 60.014 38.462 4.54 0.00 0.00 0.86
948 992 3.072476 CCAGGTGAGAGTGGTGGG 58.928 66.667 0.00 0.00 0.00 4.61
995 1043 3.441241 CCGATCCCAGGCTAGTAGT 57.559 57.895 0.00 0.00 0.00 2.73
1014 1062 2.240667 AGTTGCCATGGCTTCTACATCT 59.759 45.455 35.53 16.38 42.51 2.90
1026 1074 4.991056 GCTTCTACATCTGTTCACAAGACA 59.009 41.667 0.00 0.00 0.00 3.41
1042 1090 1.304381 ACAATGGCCGCCATGTTCT 60.304 52.632 25.76 7.10 44.40 3.01
1142 1190 2.119495 AGAGCACAATAATCTCCCCGT 58.881 47.619 0.00 0.00 0.00 5.28
1146 1194 2.614057 GCACAATAATCTCCCCGTGAAG 59.386 50.000 0.00 0.00 0.00 3.02
1158 1206 2.360475 GTGAAGCTGGGCCACTCC 60.360 66.667 0.00 0.00 0.00 3.85
1166 1214 4.021925 GGGCCACTCCGAAGCTGT 62.022 66.667 4.39 0.00 34.94 4.40
1175 1223 1.810030 CCGAAGCTGTAAGGGTCGC 60.810 63.158 0.00 0.00 0.00 5.19
1219 1267 4.308458 CCACTGCCGTCCCGACAA 62.308 66.667 0.00 0.00 0.00 3.18
1271 1322 0.463654 CCCGCCATGTTGCTAGCTAA 60.464 55.000 17.23 5.90 0.00 3.09
1310 1671 5.945191 TGATGTTCAATTGAAGCATCAGGTA 59.055 36.000 33.66 23.42 41.64 3.08
1320 1681 1.019673 GCATCAGGTACCATGTGCTG 58.980 55.000 21.23 11.87 0.00 4.41
1346 1707 1.226542 CATGCCATGGCTGAGTCCT 59.773 57.895 35.53 10.10 42.51 3.85
1399 1769 1.364171 GTGCCGAGTCTGTGTCAGT 59.636 57.895 0.00 0.00 32.61 3.41
1400 1770 0.664767 GTGCCGAGTCTGTGTCAGTC 60.665 60.000 0.00 0.00 32.61 3.51
1401 1771 1.106944 TGCCGAGTCTGTGTCAGTCA 61.107 55.000 0.00 0.00 32.61 3.41
1402 1772 0.387878 GCCGAGTCTGTGTCAGTCAG 60.388 60.000 0.00 0.00 32.61 3.51
1422 1948 4.326278 TCAGTCGTGTCGCATCTTATTTTC 59.674 41.667 0.00 0.00 0.00 2.29
1581 2737 5.385198 TGCTTTGAAGGATTCCACTACTTT 58.615 37.500 5.29 0.00 46.93 2.66
1586 2742 9.284968 CTTTGAAGGATTCCACTACTTTAAAGA 57.715 33.333 21.92 4.89 46.93 2.52
1693 2849 1.130955 GGTGCAAAAGCACGACATTG 58.869 50.000 13.65 0.00 41.19 2.82
1848 3006 0.767375 TTGCTCTCTCCTGCAAAGGT 59.233 50.000 0.00 0.00 44.75 3.50
1897 3055 7.042797 ACACAGCAAGAAAGAAACACATTAT 57.957 32.000 0.00 0.00 0.00 1.28
1959 3117 2.228582 CACCAAATTGATCGCCTGACAA 59.771 45.455 0.00 0.00 0.00 3.18
2051 3216 6.730001 TTTAAGAAAAGGAGGATTACCCCT 57.270 37.500 0.00 0.00 38.08 4.79
2171 3336 5.928839 AGCAATATTTGTCGCTACTCCTATG 59.071 40.000 0.00 0.00 31.60 2.23
2222 3387 4.290093 AGCCTAATACCAGACAGACATCA 58.710 43.478 0.00 0.00 0.00 3.07
2271 3437 0.887933 CCACAACCAAGCCACATACC 59.112 55.000 0.00 0.00 0.00 2.73
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
23 24 7.523415 AGAGGGAAAAGACAGGTGTATAAAAA 58.477 34.615 0.00 0.00 0.00 1.94
24 25 7.086685 AGAGGGAAAAGACAGGTGTATAAAA 57.913 36.000 0.00 0.00 0.00 1.52
25 26 6.697641 AGAGGGAAAAGACAGGTGTATAAA 57.302 37.500 0.00 0.00 0.00 1.40
26 27 6.958192 AGTAGAGGGAAAAGACAGGTGTATAA 59.042 38.462 0.00 0.00 0.00 0.98
27 28 6.500336 AGTAGAGGGAAAAGACAGGTGTATA 58.500 40.000 0.00 0.00 0.00 1.47
28 29 5.342866 AGTAGAGGGAAAAGACAGGTGTAT 58.657 41.667 0.00 0.00 0.00 2.29
29 30 4.748701 AGTAGAGGGAAAAGACAGGTGTA 58.251 43.478 0.00 0.00 0.00 2.90
30 31 3.588569 AGTAGAGGGAAAAGACAGGTGT 58.411 45.455 0.00 0.00 0.00 4.16
31 32 4.625607 AAGTAGAGGGAAAAGACAGGTG 57.374 45.455 0.00 0.00 0.00 4.00
32 33 5.456330 GGAAAAGTAGAGGGAAAAGACAGGT 60.456 44.000 0.00 0.00 0.00 4.00
33 34 5.004448 GGAAAAGTAGAGGGAAAAGACAGG 58.996 45.833 0.00 0.00 0.00 4.00
34 35 5.870706 AGGAAAAGTAGAGGGAAAAGACAG 58.129 41.667 0.00 0.00 0.00 3.51
35 36 5.906772 AGGAAAAGTAGAGGGAAAAGACA 57.093 39.130 0.00 0.00 0.00 3.41
36 37 7.621796 TCATAGGAAAAGTAGAGGGAAAAGAC 58.378 38.462 0.00 0.00 0.00 3.01
37 38 7.808279 TCATAGGAAAAGTAGAGGGAAAAGA 57.192 36.000 0.00 0.00 0.00 2.52
38 39 9.114952 GATTCATAGGAAAAGTAGAGGGAAAAG 57.885 37.037 0.00 0.00 36.43 2.27
39 40 8.611257 TGATTCATAGGAAAAGTAGAGGGAAAA 58.389 33.333 0.00 0.00 36.43 2.29
40 41 8.158025 TGATTCATAGGAAAAGTAGAGGGAAA 57.842 34.615 0.00 0.00 36.43 3.13
41 42 7.749377 TGATTCATAGGAAAAGTAGAGGGAA 57.251 36.000 0.00 0.00 36.43 3.97
42 43 7.623677 TCTTGATTCATAGGAAAAGTAGAGGGA 59.376 37.037 0.00 0.00 36.43 4.20
43 44 7.796054 TCTTGATTCATAGGAAAAGTAGAGGG 58.204 38.462 0.00 0.00 36.43 4.30
44 45 9.323985 CTTCTTGATTCATAGGAAAAGTAGAGG 57.676 37.037 0.00 0.00 36.43 3.69
45 46 8.825745 GCTTCTTGATTCATAGGAAAAGTAGAG 58.174 37.037 10.53 5.72 36.43 2.43
46 47 8.543774 AGCTTCTTGATTCATAGGAAAAGTAGA 58.456 33.333 10.53 2.89 36.43 2.59
47 48 8.729805 AGCTTCTTGATTCATAGGAAAAGTAG 57.270 34.615 0.00 0.00 36.43 2.57
54 55 9.539194 TCATCTATAGCTTCTTGATTCATAGGA 57.461 33.333 0.00 0.00 0.00 2.94
62 63 9.451002 CCATCAAATCATCTATAGCTTCTTGAT 57.549 33.333 0.00 3.57 32.65 2.57
63 64 7.389884 GCCATCAAATCATCTATAGCTTCTTGA 59.610 37.037 0.00 1.43 0.00 3.02
64 65 7.174426 TGCCATCAAATCATCTATAGCTTCTTG 59.826 37.037 0.00 0.00 0.00 3.02
65 66 7.229308 TGCCATCAAATCATCTATAGCTTCTT 58.771 34.615 0.00 0.00 0.00 2.52
66 67 6.776744 TGCCATCAAATCATCTATAGCTTCT 58.223 36.000 0.00 0.00 0.00 2.85
67 68 7.174599 ACTTGCCATCAAATCATCTATAGCTTC 59.825 37.037 0.00 0.00 0.00 3.86
68 69 7.002879 ACTTGCCATCAAATCATCTATAGCTT 58.997 34.615 0.00 0.00 0.00 3.74
69 70 6.430308 CACTTGCCATCAAATCATCTATAGCT 59.570 38.462 0.00 0.00 0.00 3.32
70 71 6.349115 CCACTTGCCATCAAATCATCTATAGC 60.349 42.308 0.00 0.00 0.00 2.97
71 72 6.938596 TCCACTTGCCATCAAATCATCTATAG 59.061 38.462 0.00 0.00 0.00 1.31
72 73 6.712095 GTCCACTTGCCATCAAATCATCTATA 59.288 38.462 0.00 0.00 0.00 1.31
73 74 5.533903 GTCCACTTGCCATCAAATCATCTAT 59.466 40.000 0.00 0.00 0.00 1.98
74 75 4.883585 GTCCACTTGCCATCAAATCATCTA 59.116 41.667 0.00 0.00 0.00 1.98
75 76 3.698040 GTCCACTTGCCATCAAATCATCT 59.302 43.478 0.00 0.00 0.00 2.90
76 77 3.488047 CGTCCACTTGCCATCAAATCATC 60.488 47.826 0.00 0.00 0.00 2.92
77 78 2.424601 CGTCCACTTGCCATCAAATCAT 59.575 45.455 0.00 0.00 0.00 2.45
89 90 4.761235 TGAGTAGTTCTACGTCCACTTG 57.239 45.455 0.00 0.00 0.00 3.16
116 117 2.746277 GACGGCCGGCATTGAGTT 60.746 61.111 30.38 1.19 0.00 3.01
127 128 3.902086 GTCTAGGAGCGGACGGCC 61.902 72.222 0.00 0.00 45.17 6.13
189 191 9.527157 TGACCAACTTTATGAGGAAATTTATCA 57.473 29.630 7.75 7.75 0.00 2.15
265 274 4.770795 TGAAAGCTTAGGCATTACTCTCC 58.229 43.478 0.00 0.00 41.70 3.71
310 319 9.926751 CACTTACATGAACTAATATGAGCAAAG 57.073 33.333 0.00 0.00 0.00 2.77
324 333 7.781548 ATAATTACGGTCCACTTACATGAAC 57.218 36.000 0.00 0.00 0.00 3.18
424 434 7.442062 AGTGGCAAAGGATGAATAAAGTTTTTG 59.558 33.333 0.00 0.00 0.00 2.44
524 542 4.525100 GGTGTTTTTATAGGGGTTTCTGCA 59.475 41.667 0.00 0.00 0.00 4.41
628 651 5.983333 AATATTGGACCATGAGAGAACCT 57.017 39.130 0.00 0.00 0.00 3.50
652 675 9.990868 ATATCCATTTCCCTTTTGTAGTAAACT 57.009 29.630 0.00 0.00 0.00 2.66
691 714 5.575957 CAATCATTGCTGTAGTCATTGACC 58.424 41.667 13.14 0.00 32.18 4.02
948 992 5.246429 AGGTCAGGCTATAAGTATTGGCTAC 59.754 44.000 8.16 7.49 40.96 3.58
995 1043 2.025981 ACAGATGTAGAAGCCATGGCAA 60.026 45.455 37.18 17.42 44.88 4.52
1014 1062 0.950836 CGGCCATTGTCTTGTGAACA 59.049 50.000 2.24 0.00 0.00 3.18
1026 1074 1.892338 CAAGAACATGGCGGCCATT 59.108 52.632 31.17 19.44 42.23 3.16
1086 1134 1.230635 CGTCCTGGTGGTGCAAAGAG 61.231 60.000 0.00 0.00 34.23 2.85
1121 1169 3.069586 CACGGGGAGATTATTGTGCTCTA 59.930 47.826 0.00 0.00 0.00 2.43
1142 1190 4.020617 CGGAGTGGCCCAGCTTCA 62.021 66.667 0.00 0.00 0.00 3.02
1154 1202 0.896226 GACCCTTACAGCTTCGGAGT 59.104 55.000 0.00 0.00 0.00 3.85
1158 1206 1.810030 GGCGACCCTTACAGCTTCG 60.810 63.158 0.00 0.00 0.00 3.79
1166 1214 3.443045 GTCCGACGGCGACCCTTA 61.443 66.667 15.16 0.00 40.82 2.69
1175 1223 2.432628 GCTCTTGTGGTCCGACGG 60.433 66.667 7.84 7.84 0.00 4.79
1219 1267 3.698040 CACAAGGCTTCCTTATCAGCATT 59.302 43.478 0.00 0.00 42.67 3.56
1257 1305 0.657840 GGCCGTTAGCTAGCAACATG 59.342 55.000 18.83 12.97 43.05 3.21
1261 1312 1.448985 CTTTGGCCGTTAGCTAGCAA 58.551 50.000 18.83 6.50 43.05 3.91
1271 1322 1.176527 CATCAACATCCTTTGGCCGT 58.823 50.000 0.00 0.00 0.00 5.68
1310 1671 3.491964 GCATGATTATTGCAGCACATGGT 60.492 43.478 19.32 0.00 39.90 3.55
1320 1681 2.297880 TCAGCCATGGCATGATTATTGC 59.702 45.455 37.18 20.37 44.88 3.56
1346 1707 2.428530 CACACAGACTAGCTCATGCCTA 59.571 50.000 0.00 0.00 40.80 3.93
1399 1769 3.503827 AATAAGATGCGACACGACTGA 57.496 42.857 0.00 0.00 0.00 3.41
1400 1770 4.492570 GGAAAATAAGATGCGACACGACTG 60.493 45.833 0.00 0.00 0.00 3.51
1401 1771 3.617263 GGAAAATAAGATGCGACACGACT 59.383 43.478 0.00 0.00 0.00 4.18
1402 1772 3.617263 AGGAAAATAAGATGCGACACGAC 59.383 43.478 0.00 0.00 0.00 4.34
1422 1948 1.339438 ACAGAGCACCAATACTGCAGG 60.339 52.381 19.93 2.50 37.08 4.85
1630 2786 5.982356 ACTTAGCTCATTGATTGCTCAGTA 58.018 37.500 11.12 0.00 38.84 2.74
1633 2789 6.225981 TCTACTTAGCTCATTGATTGCTCA 57.774 37.500 3.88 0.00 38.15 4.26
1634 2790 5.695816 CCTCTACTTAGCTCATTGATTGCTC 59.304 44.000 3.88 0.00 38.15 4.26
1848 3006 7.918562 GTCATGTTGGTTAACTGCTTTCTTTAA 59.081 33.333 5.42 0.00 37.68 1.52
1959 3117 3.884037 AGGATGTCAGTTTGGGTTCTT 57.116 42.857 0.00 0.00 0.00 2.52
2031 3193 3.269643 CCAGGGGTAATCCTCCTTTTCTT 59.730 47.826 0.00 0.00 33.94 2.52
2051 3216 2.124024 GCCCAGATGCAGATGCCA 60.124 61.111 1.72 0.00 41.18 4.92
2171 3336 1.154150 GCACCGCTTCATCAAGTGC 60.154 57.895 0.00 0.00 45.99 4.40
2222 3387 6.569610 CGGTTTTAGATGTTAGGCATTTGTGT 60.570 38.462 0.00 0.00 38.06 3.72
2271 3437 2.430921 GACACACCGAGGAGCACG 60.431 66.667 0.00 0.00 0.00 5.34


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

AutoCloner maintained by Alex Coulton.