Multiple sequence alignment - TraesCS7A01G067300

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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 TraesCS7A01G067300 chr7A 100.000 2652 0 0 1 2652 33680251 33677600 0.000000e+00 4898.0
1 TraesCS7A01G067300 chr7A 94.011 885 44 5 1771 2650 65036283 65037163 0.000000e+00 1332.0
2 TraesCS7A01G067300 chr7A 93.708 890 46 8 1769 2652 114106451 114105566 0.000000e+00 1325.0
3 TraesCS7A01G067300 chr7A 93.483 890 49 6 1770 2652 167969381 167968494 0.000000e+00 1314.0
4 TraesCS7A01G067300 chr7A 90.137 730 57 9 93 814 597080908 597081630 0.000000e+00 935.0
5 TraesCS7A01G067300 chr7A 88.428 579 48 5 1111 1689 33972528 33971969 0.000000e+00 680.0
6 TraesCS7A01G067300 chr7A 84.974 579 46 6 1111 1689 33985935 33985398 1.390000e-152 549.0
7 TraesCS7A01G067300 chr7A 88.889 396 34 3 1321 1706 33738573 33738178 1.850000e-131 479.0
8 TraesCS7A01G067300 chr7A 89.316 234 23 2 1096 1327 33740901 33740668 2.580000e-75 292.0
9 TraesCS7A01G067300 chr7A 85.965 114 9 5 818 929 33741595 33741487 6.000000e-22 115.0
10 TraesCS7A01G067300 chr7A 100.000 28 0 0 1710 1737 33971899 33971872 5.000000e-03 52.8
11 TraesCS7A01G067300 chr7A 100.000 28 0 0 1710 1737 33985328 33985301 5.000000e-03 52.8
12 TraesCS7A01G067300 chr6A 97.683 820 17 2 1 819 77372328 77373146 0.000000e+00 1408.0
13 TraesCS7A01G067300 chr6A 93.326 884 51 8 1771 2649 577560315 577561195 0.000000e+00 1299.0
14 TraesCS7A01G067300 chr1A 97.666 814 18 1 1 814 503206767 503207579 0.000000e+00 1397.0
15 TraesCS7A01G067300 chr1A 97.543 814 17 2 1 814 201968846 201968036 0.000000e+00 1389.0
16 TraesCS7A01G067300 chr1A 96.107 822 23 3 1 814 10361636 10362456 0.000000e+00 1332.0
17 TraesCS7A01G067300 chr1A 93.126 902 41 9 1770 2652 517959919 517959020 0.000000e+00 1303.0
18 TraesCS7A01G067300 chr5A 93.423 897 42 7 1771 2652 536933346 536934240 0.000000e+00 1314.0
19 TraesCS7A01G067300 chr5A 93.222 900 38 8 1767 2652 12497168 12498058 0.000000e+00 1303.0
20 TraesCS7A01G067300 chr3A 93.281 893 50 8 1769 2652 122929971 122930862 0.000000e+00 1308.0
21 TraesCS7A01G067300 chr4A 92.920 904 44 11 1766 2652 197796085 197795185 0.000000e+00 1297.0
22 TraesCS7A01G067300 chr4A 86.891 923 71 20 815 1709 692164165 692165065 0.000000e+00 989.0
23 TraesCS7A01G067300 chr4A 86.942 919 71 20 815 1706 692259821 692260717 0.000000e+00 987.0
24 TraesCS7A01G067300 chr4A 87.338 616 47 13 1111 1706 692087299 692087903 0.000000e+00 676.0
25 TraesCS7A01G067300 chr4A 86.905 168 14 5 923 1082 692087030 692087197 5.830000e-42 182.0
26 TraesCS7A01G067300 chr4A 88.189 127 14 1 816 941 692086187 692086313 1.640000e-32 150.0
27 TraesCS7A01G067300 chr6B 91.575 819 58 10 1 815 685493339 685492528 0.000000e+00 1120.0
28 TraesCS7A01G067300 chr6B 91.352 821 60 9 1 815 621062048 621061233 0.000000e+00 1112.0
29 TraesCS7A01G067300 chr2A 91.052 827 59 12 1 820 664902052 664902870 0.000000e+00 1103.0
30 TraesCS7A01G067300 chr2A 97.778 45 1 0 42 86 193043820 193043864 7.870000e-11 78.7
31 TraesCS7A01G067300 chr2B 88.633 783 69 16 42 814 765981445 765982217 0.000000e+00 935.0
32 TraesCS7A01G067300 chr7D 84.575 765 62 23 961 1689 33465984 33465240 0.000000e+00 708.0


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 TraesCS7A01G067300 chr7A 33677600 33680251 2651 True 4898.000000 4898 100.000000 1 2652 1 chr7A.!!$R1 2651
1 TraesCS7A01G067300 chr7A 65036283 65037163 880 False 1332.000000 1332 94.011000 1771 2650 1 chr7A.!!$F1 879
2 TraesCS7A01G067300 chr7A 114105566 114106451 885 True 1325.000000 1325 93.708000 1769 2652 1 chr7A.!!$R2 883
3 TraesCS7A01G067300 chr7A 167968494 167969381 887 True 1314.000000 1314 93.483000 1770 2652 1 chr7A.!!$R3 882
4 TraesCS7A01G067300 chr7A 597080908 597081630 722 False 935.000000 935 90.137000 93 814 1 chr7A.!!$F2 721
5 TraesCS7A01G067300 chr7A 33971872 33972528 656 True 366.400000 680 94.214000 1111 1737 2 chr7A.!!$R5 626
6 TraesCS7A01G067300 chr7A 33985301 33985935 634 True 300.900000 549 92.487000 1111 1737 2 chr7A.!!$R6 626
7 TraesCS7A01G067300 chr7A 33738178 33741595 3417 True 295.333333 479 88.056667 818 1706 3 chr7A.!!$R4 888
8 TraesCS7A01G067300 chr6A 77372328 77373146 818 False 1408.000000 1408 97.683000 1 819 1 chr6A.!!$F1 818
9 TraesCS7A01G067300 chr6A 577560315 577561195 880 False 1299.000000 1299 93.326000 1771 2649 1 chr6A.!!$F2 878
10 TraesCS7A01G067300 chr1A 503206767 503207579 812 False 1397.000000 1397 97.666000 1 814 1 chr1A.!!$F2 813
11 TraesCS7A01G067300 chr1A 201968036 201968846 810 True 1389.000000 1389 97.543000 1 814 1 chr1A.!!$R1 813
12 TraesCS7A01G067300 chr1A 10361636 10362456 820 False 1332.000000 1332 96.107000 1 814 1 chr1A.!!$F1 813
13 TraesCS7A01G067300 chr1A 517959020 517959919 899 True 1303.000000 1303 93.126000 1770 2652 1 chr1A.!!$R2 882
14 TraesCS7A01G067300 chr5A 536933346 536934240 894 False 1314.000000 1314 93.423000 1771 2652 1 chr5A.!!$F2 881
15 TraesCS7A01G067300 chr5A 12497168 12498058 890 False 1303.000000 1303 93.222000 1767 2652 1 chr5A.!!$F1 885
16 TraesCS7A01G067300 chr3A 122929971 122930862 891 False 1308.000000 1308 93.281000 1769 2652 1 chr3A.!!$F1 883
17 TraesCS7A01G067300 chr4A 197795185 197796085 900 True 1297.000000 1297 92.920000 1766 2652 1 chr4A.!!$R1 886
18 TraesCS7A01G067300 chr4A 692164165 692165065 900 False 989.000000 989 86.891000 815 1709 1 chr4A.!!$F1 894
19 TraesCS7A01G067300 chr4A 692259821 692260717 896 False 987.000000 987 86.942000 815 1706 1 chr4A.!!$F2 891
20 TraesCS7A01G067300 chr4A 692086187 692087903 1716 False 336.000000 676 87.477333 816 1706 3 chr4A.!!$F3 890
21 TraesCS7A01G067300 chr6B 685492528 685493339 811 True 1120.000000 1120 91.575000 1 815 1 chr6B.!!$R2 814
22 TraesCS7A01G067300 chr6B 621061233 621062048 815 True 1112.000000 1112 91.352000 1 815 1 chr6B.!!$R1 814
23 TraesCS7A01G067300 chr2A 664902052 664902870 818 False 1103.000000 1103 91.052000 1 820 1 chr2A.!!$F2 819
24 TraesCS7A01G067300 chr2B 765981445 765982217 772 False 935.000000 935 88.633000 42 814 1 chr2B.!!$F1 772
25 TraesCS7A01G067300 chr7D 33465240 33465984 744 True 708.000000 708 84.575000 961 1689 1 chr7D.!!$R1 728

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
466 489 0.469917 GCTACATTGCTGGGCTAGGA 59.53 55.0 0.0 0.0 0.0 2.94 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1745 5133 0.036732 TTCAGAAGCTGACCGCCAAT 59.963 50.0 0.0 0.0 40.46 3.16 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
37 46 3.667497 TGTGCTCTCTCTAAACTGTGG 57.333 47.619 0.00 0.00 0.00 4.17
61 70 1.734465 CGAAGGAGCTCCATGTTGAAC 59.266 52.381 33.90 8.72 38.89 3.18
91 100 6.390721 TGAAGACACTTGTAGAGCTTGTATC 58.609 40.000 0.00 0.00 0.00 2.24
301 312 2.443632 TGACAATTGGGACCCACTTACA 59.556 45.455 14.59 14.44 30.78 2.41
466 489 0.469917 GCTACATTGCTGGGCTAGGA 59.530 55.000 0.00 0.00 0.00 2.94
479 502 1.134560 GGCTAGGACCGTGTAGTTCAG 59.865 57.143 0.00 0.00 0.00 3.02
703 728 5.455056 AGGTCGCTATAGTCAGTTTATGG 57.545 43.478 0.84 0.00 0.00 2.74
868 893 4.260907 CCGCATATTGACTGAGAAACATGG 60.261 45.833 0.00 0.00 0.00 3.66
982 1783 7.042321 CGTAATATTCAATTTCGGCCTGACTAA 60.042 37.037 0.00 0.00 0.00 2.24
997 1801 9.367444 CGGCCTGACTAATAGGTAAAATAATAG 57.633 37.037 0.00 0.00 37.64 1.73
1037 1842 0.545071 CCCTGCCCTGGGTTCAAAAT 60.545 55.000 15.56 0.00 42.25 1.82
1082 2185 1.135660 CGAAGAGTCAGCAGCGAAGTA 60.136 52.381 0.00 0.00 0.00 2.24
1085 2188 0.109086 GAGTCAGCAGCGAAGTAGCA 60.109 55.000 0.00 0.00 40.15 3.49
1173 2361 0.962489 CGGCGTAGGAAGGAGATCAT 59.038 55.000 0.00 0.00 0.00 2.45
1181 2369 2.524440 AGGAAGGAGATCATGGAGGGTA 59.476 50.000 0.00 0.00 0.00 3.69
1185 2373 1.899142 GGAGATCATGGAGGGTAGAGC 59.101 57.143 0.00 0.00 0.00 4.09
1195 2383 1.478916 GAGGGTAGAGCAGAAGGTCAC 59.521 57.143 0.00 0.00 44.60 3.67
1222 2427 1.466858 AATCCCTCCCTTTTGTCCCA 58.533 50.000 0.00 0.00 0.00 4.37
1238 2443 6.381498 TTGTCCCATGTAAATCTGTCCTTA 57.619 37.500 0.00 0.00 0.00 2.69
1257 2464 3.038417 GGATCGATCTTGCGGCGG 61.038 66.667 23.96 0.00 0.00 6.13
1319 2526 5.268387 TGAGAAAGAAGCTAGAGGATGAGT 58.732 41.667 0.00 0.00 0.00 3.41
1352 4660 2.122413 TGTGGGACAGGGAGCTGT 60.122 61.111 0.00 0.00 41.80 4.40
1393 4701 0.674534 AAGAGCTTGACGACGAAGGT 59.325 50.000 0.00 0.54 33.89 3.50
1522 4857 0.173935 ATTACGTCGCCGACATGGAA 59.826 50.000 18.40 5.12 42.00 3.53
1532 4867 1.186200 CGACATGGAAGAGAGGTGGA 58.814 55.000 0.00 0.00 0.00 4.02
1543 4878 5.453198 GGAAGAGAGGTGGAAGAATCAGATC 60.453 48.000 0.00 0.00 0.00 2.75
1545 4880 3.708631 GAGAGGTGGAAGAATCAGATCCA 59.291 47.826 0.00 0.00 40.84 3.41
1553 4888 5.014544 TGGAAGAATCAGATCCAGTTTCCTT 59.985 40.000 10.66 0.00 38.30 3.36
1558 4893 2.897326 TCAGATCCAGTTTCCTTCGACA 59.103 45.455 0.00 0.00 0.00 4.35
1612 4948 2.192263 GAGGGGTCTCTTCAGGTCAAT 58.808 52.381 0.00 0.00 37.07 2.57
1636 4975 1.416813 CGTGTCAGCTCGATCCAAGC 61.417 60.000 6.63 6.63 40.14 4.01
1649 4988 0.613260 TCCAAGCCTGTTATCTGCGT 59.387 50.000 0.00 0.00 0.00 5.24
1675 5014 3.650369 CGTAAGTGGCCACGCTTT 58.350 55.556 29.68 20.67 44.64 3.51
1681 5020 0.609131 AGTGGCCACGCTTTATTGCT 60.609 50.000 29.68 5.62 32.39 3.91
1737 5125 5.352569 CCCACAGATTCTAGAACATCACAAC 59.647 44.000 7.48 0.00 0.00 3.32
1738 5126 5.062683 CCACAGATTCTAGAACATCACAACG 59.937 44.000 7.48 0.00 0.00 4.10
1739 5127 5.863935 CACAGATTCTAGAACATCACAACGA 59.136 40.000 7.48 0.00 0.00 3.85
1740 5128 6.034363 CACAGATTCTAGAACATCACAACGAG 59.966 42.308 7.48 0.00 0.00 4.18
1741 5129 6.071896 ACAGATTCTAGAACATCACAACGAGA 60.072 38.462 7.48 0.00 0.00 4.04
1742 5130 6.808704 CAGATTCTAGAACATCACAACGAGAA 59.191 38.462 7.48 0.00 0.00 2.87
1743 5131 7.329471 CAGATTCTAGAACATCACAACGAGAAA 59.671 37.037 7.48 0.00 30.74 2.52
1744 5132 7.543868 AGATTCTAGAACATCACAACGAGAAAG 59.456 37.037 7.48 0.00 30.74 2.62
1745 5133 6.327279 TCTAGAACATCACAACGAGAAAGA 57.673 37.500 0.00 0.00 0.00 2.52
1746 5134 6.925211 TCTAGAACATCACAACGAGAAAGAT 58.075 36.000 0.00 0.00 0.00 2.40
1747 5135 7.378966 TCTAGAACATCACAACGAGAAAGATT 58.621 34.615 0.00 0.00 0.00 2.40
1748 5136 6.233430 AGAACATCACAACGAGAAAGATTG 57.767 37.500 0.00 0.00 0.00 2.67
1749 5137 5.180117 AGAACATCACAACGAGAAAGATTGG 59.820 40.000 0.00 0.00 0.00 3.16
1750 5138 3.189287 ACATCACAACGAGAAAGATTGGC 59.811 43.478 0.00 0.00 0.00 4.52
1751 5139 1.798223 TCACAACGAGAAAGATTGGCG 59.202 47.619 0.00 0.00 0.00 5.69
1752 5140 1.135972 CACAACGAGAAAGATTGGCGG 60.136 52.381 0.00 0.00 0.00 6.13
1753 5141 1.156736 CAACGAGAAAGATTGGCGGT 58.843 50.000 0.00 0.00 0.00 5.68
1754 5142 1.128692 CAACGAGAAAGATTGGCGGTC 59.871 52.381 0.00 0.00 0.00 4.79
1755 5143 0.320374 ACGAGAAAGATTGGCGGTCA 59.680 50.000 0.00 0.00 0.00 4.02
1756 5144 1.002366 CGAGAAAGATTGGCGGTCAG 58.998 55.000 0.00 0.00 0.00 3.51
1764 5152 0.036732 ATTGGCGGTCAGCTTCTGAA 59.963 50.000 0.00 0.00 42.46 3.02
1765 5153 0.884704 TTGGCGGTCAGCTTCTGAAC 60.885 55.000 1.94 1.94 44.00 3.18
1818 5206 2.166254 CGGTTCGTAAGGCCCTTTAGTA 59.834 50.000 0.00 0.00 38.47 1.82
1819 5207 3.181472 CGGTTCGTAAGGCCCTTTAGTAT 60.181 47.826 0.00 0.00 38.47 2.12
1907 5298 1.303317 CCGGTGCTAAAGGGCAACT 60.303 57.895 0.00 0.00 46.59 3.16
1916 5307 0.251165 AAAGGGCAACTACGTGGCAT 60.251 50.000 0.00 0.00 45.56 4.40
1987 5378 1.202211 CCGGTATTAAAAGGTTGGCGC 60.202 52.381 0.00 0.00 0.00 6.53
2192 5601 8.811017 TCACAACCACCATTAATTAATTCACAT 58.189 29.630 8.01 0.00 0.00 3.21
2261 5694 0.618458 TAATTGGTGCCTTCGGAGCT 59.382 50.000 0.00 0.00 0.00 4.09
2310 5751 4.016113 GGAGCACGATAACAATTGGAAC 57.984 45.455 10.83 0.00 0.00 3.62
2320 5761 6.128035 CGATAACAATTGGAACTGGTTCATGA 60.128 38.462 10.83 0.00 41.20 3.07
2383 5825 0.250553 TGGTCGAGCAAAAATCCCGT 60.251 50.000 16.20 0.00 0.00 5.28
2392 5834 5.621329 CGAGCAAAAATCCCGTTATTTCCTT 60.621 40.000 0.00 0.00 0.00 3.36
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
37 46 2.100605 ACATGGAGCTCCTTCGAAAC 57.899 50.000 32.28 4.83 36.82 2.78
61 70 5.931146 AGCTCTACAAGTGTCTTCAATCTTG 59.069 40.000 0.00 0.00 41.74 3.02
301 312 5.491323 TTGGTCCCAGTTTTCAAGTTTTT 57.509 34.783 0.00 0.00 0.00 1.94
466 489 5.061179 ACTAATTTTGCTGAACTACACGGT 58.939 37.500 0.00 0.00 0.00 4.83
937 969 1.517276 CGATCATGTTACGGCTCGAAC 59.483 52.381 1.50 3.27 0.00 3.95
941 973 6.584942 TGAATATTACGATCATGTTACGGCTC 59.415 38.462 11.69 0.00 0.00 4.70
997 1801 4.458397 GGGGCTAATGGGTTTTCTACTAC 58.542 47.826 0.00 0.00 0.00 2.73
1007 1811 3.429580 GGCAGGGGGCTAATGGGT 61.430 66.667 0.00 0.00 44.01 4.51
1037 1842 1.211949 AGCGGCTAATGGGCTTTCTAA 59.788 47.619 0.00 0.00 38.46 2.10
1159 2344 2.524440 ACCCTCCATGATCTCCTTCCTA 59.476 50.000 0.00 0.00 0.00 2.94
1173 2361 0.413832 ACCTTCTGCTCTACCCTCCA 59.586 55.000 0.00 0.00 0.00 3.86
1181 2369 1.899142 GAGGAAGTGACCTTCTGCTCT 59.101 52.381 2.80 0.00 45.36 4.09
1185 2373 4.141824 GGGATTAGAGGAAGTGACCTTCTG 60.142 50.000 2.80 0.00 45.36 3.02
1195 2383 4.228438 ACAAAAGGGAGGGATTAGAGGAAG 59.772 45.833 0.00 0.00 0.00 3.46
1198 2386 3.117851 GGACAAAAGGGAGGGATTAGAGG 60.118 52.174 0.00 0.00 0.00 3.69
1199 2387 3.117851 GGGACAAAAGGGAGGGATTAGAG 60.118 52.174 0.00 0.00 0.00 2.43
1200 2388 2.850568 GGGACAAAAGGGAGGGATTAGA 59.149 50.000 0.00 0.00 0.00 2.10
1201 2389 2.580783 TGGGACAAAAGGGAGGGATTAG 59.419 50.000 0.00 0.00 31.92 1.73
1202 2390 2.650013 TGGGACAAAAGGGAGGGATTA 58.350 47.619 0.00 0.00 31.92 1.75
1203 2391 1.466858 TGGGACAAAAGGGAGGGATT 58.533 50.000 0.00 0.00 31.92 3.01
1204 2392 3.213999 TGGGACAAAAGGGAGGGAT 57.786 52.632 0.00 0.00 31.92 3.85
1205 2393 4.783155 TGGGACAAAAGGGAGGGA 57.217 55.556 0.00 0.00 31.92 4.20
1238 2443 2.279517 GCCGCAAGATCGATCCGT 60.280 61.111 21.66 7.59 43.02 4.69
1265 2472 0.982852 TCCAGATTCGGCTCCATGGT 60.983 55.000 12.58 0.00 0.00 3.55
1277 2484 2.124151 GGCCGCCATGTCCAGATT 60.124 61.111 3.91 0.00 0.00 2.40
1380 4688 2.226200 TCGTAATCACCTTCGTCGTCAA 59.774 45.455 0.00 0.00 0.00 3.18
1381 4689 1.805943 TCGTAATCACCTTCGTCGTCA 59.194 47.619 0.00 0.00 0.00 4.35
1393 4701 5.063944 GTCTGGTTCGTAGTACTCGTAATCA 59.936 44.000 0.00 5.88 0.00 2.57
1470 4805 4.143721 CGTCCTCGTAGTAGAACGTATACG 60.144 50.000 23.24 23.24 43.31 3.06
1494 4829 2.298411 GGCGACGTAATAAGGGTTCA 57.702 50.000 0.00 0.00 0.00 3.18
1522 4857 3.966665 GGATCTGATTCTTCCACCTCTCT 59.033 47.826 0.00 0.00 0.00 3.10
1532 4867 5.046304 TCGAAGGAAACTGGATCTGATTCTT 60.046 40.000 0.00 0.00 42.68 2.52
1543 4878 2.484264 GGACATTGTCGAAGGAAACTGG 59.516 50.000 10.56 0.00 35.11 4.00
1545 4880 3.403038 CTGGACATTGTCGAAGGAAACT 58.597 45.455 10.56 0.00 36.11 2.66
1553 4888 2.434185 GGCGCTGGACATTGTCGA 60.434 61.111 7.64 6.04 32.65 4.20
1558 4893 0.254178 ATCTCTTGGCGCTGGACATT 59.746 50.000 7.64 0.00 0.00 2.71
1636 4975 3.485877 GCAAGCTTTACGCAGATAACAGG 60.486 47.826 0.00 0.00 42.61 4.00
1649 4988 1.161843 GGCCACTTACGCAAGCTTTA 58.838 50.000 0.00 0.00 45.62 1.85
1707 5049 4.838423 TGTTCTAGAATCTGTGGGTTCAGA 59.162 41.667 8.75 0.00 46.39 3.27
1708 5050 5.152623 TGTTCTAGAATCTGTGGGTTCAG 57.847 43.478 8.75 0.00 36.85 3.02
1737 5125 1.002366 CTGACCGCCAATCTTTCTCG 58.998 55.000 0.00 0.00 0.00 4.04
1738 5126 0.729690 GCTGACCGCCAATCTTTCTC 59.270 55.000 0.00 0.00 0.00 2.87
1739 5127 0.326264 AGCTGACCGCCAATCTTTCT 59.674 50.000 0.00 0.00 40.39 2.52
1740 5128 1.131315 GAAGCTGACCGCCAATCTTTC 59.869 52.381 0.00 0.00 40.39 2.62
1741 5129 1.168714 GAAGCTGACCGCCAATCTTT 58.831 50.000 0.00 0.00 40.39 2.52
1742 5130 0.326264 AGAAGCTGACCGCCAATCTT 59.674 50.000 0.00 0.00 40.39 2.40
1743 5131 0.392193 CAGAAGCTGACCGCCAATCT 60.392 55.000 0.00 0.00 40.39 2.40
1744 5132 0.391661 TCAGAAGCTGACCGCCAATC 60.392 55.000 0.00 0.00 40.39 2.67
1745 5133 0.036732 TTCAGAAGCTGACCGCCAAT 59.963 50.000 0.00 0.00 40.46 3.16
1746 5134 0.884704 GTTCAGAAGCTGACCGCCAA 60.885 55.000 0.00 0.00 40.46 4.52
1747 5135 1.301716 GTTCAGAAGCTGACCGCCA 60.302 57.895 0.00 0.00 40.46 5.69
1748 5136 0.674895 ATGTTCAGAAGCTGACCGCC 60.675 55.000 0.00 0.00 40.46 6.13
1749 5137 0.723981 GATGTTCAGAAGCTGACCGC 59.276 55.000 0.00 0.00 40.46 5.68
1750 5138 1.728971 GTGATGTTCAGAAGCTGACCG 59.271 52.381 0.00 0.00 40.46 4.79
1751 5139 2.481952 GTGTGATGTTCAGAAGCTGACC 59.518 50.000 0.00 0.00 40.46 4.02
1752 5140 3.397482 AGTGTGATGTTCAGAAGCTGAC 58.603 45.455 0.00 0.00 40.46 3.51
1753 5141 3.758755 AGTGTGATGTTCAGAAGCTGA 57.241 42.857 0.00 0.00 38.87 4.26
1754 5142 4.388165 CACTAGTGTGATGTTCAGAAGCTG 59.612 45.833 15.06 0.00 46.55 4.24
1755 5143 4.564041 CACTAGTGTGATGTTCAGAAGCT 58.436 43.478 15.06 0.00 46.55 3.74
1756 5144 3.124297 GCACTAGTGTGATGTTCAGAAGC 59.876 47.826 23.44 0.56 46.55 3.86
1757 5145 4.309933 TGCACTAGTGTGATGTTCAGAAG 58.690 43.478 23.44 0.00 46.55 2.85
1758 5146 4.039124 TCTGCACTAGTGTGATGTTCAGAA 59.961 41.667 23.44 8.11 46.55 3.02
1759 5147 3.573967 TCTGCACTAGTGTGATGTTCAGA 59.426 43.478 23.44 20.16 46.55 3.27
1760 5148 3.917988 TCTGCACTAGTGTGATGTTCAG 58.082 45.455 23.44 18.42 46.55 3.02
1761 5149 4.058124 GTTCTGCACTAGTGTGATGTTCA 58.942 43.478 23.44 10.31 46.55 3.18
1762 5150 4.151335 CAGTTCTGCACTAGTGTGATGTTC 59.849 45.833 23.44 6.13 46.55 3.18
1763 5151 4.060900 CAGTTCTGCACTAGTGTGATGTT 58.939 43.478 23.44 4.24 46.55 2.71
1764 5152 3.555795 CCAGTTCTGCACTAGTGTGATGT 60.556 47.826 23.44 9.79 46.55 3.06
1765 5153 2.998670 CCAGTTCTGCACTAGTGTGATG 59.001 50.000 23.44 16.05 46.55 3.07
1916 5307 3.916438 TACCCCCGAAGCTGGCTCA 62.916 63.158 0.00 0.00 0.00 4.26
1985 5376 7.170658 TGAAAAAGAAATCATAAACCCAAAGCG 59.829 33.333 0.00 0.00 0.00 4.68
2044 5438 9.674068 TGTAGTATCATAAAATACCAGCAAACA 57.326 29.630 0.00 0.00 33.42 2.83
2226 5641 6.151691 CACCAATTAGGAGAAATTGTGTGTG 58.848 40.000 15.31 10.23 42.68 3.82
2228 5643 5.163513 GCACCAATTAGGAGAAATTGTGTG 58.836 41.667 17.31 17.31 42.68 3.82
2230 5645 4.463891 AGGCACCAATTAGGAGAAATTGTG 59.536 41.667 8.13 7.57 42.68 3.33
2310 5751 0.251916 TTACCGCCCTCATGAACCAG 59.748 55.000 0.00 0.00 0.00 4.00
2320 5761 1.043022 CTATTACCCGTTACCGCCCT 58.957 55.000 0.00 0.00 0.00 5.19
2383 5825 9.369904 GCATAGAAGCAATTCAAAAGGAAATAA 57.630 29.630 0.00 0.00 39.39 1.40
2392 5834 3.128589 GGACCGCATAGAAGCAATTCAAA 59.871 43.478 0.00 0.00 0.00 2.69


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

AutoCloner maintained by Alex Coulton.