Multiple sequence alignment - TraesCS3B01G267300

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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 TraesCS3B01G267300 chr3B 100.000 3138 0 0 1 3138 428766545 428769682 0.000000e+00 5795
1 TraesCS3B01G267300 chr3B 84.375 576 60 11 2568 3138 284606053 284605503 3.560000e-149 538
2 TraesCS3B01G267300 chr5A 89.896 2316 191 21 492 2766 513007922 513010235 0.000000e+00 2940
3 TraesCS3B01G267300 chr2A 89.802 1716 169 6 1 1712 56491126 56489413 0.000000e+00 2194
4 TraesCS3B01G267300 chr2A 90.373 1153 90 5 1711 2850 56489324 56488180 0.000000e+00 1495
5 TraesCS3B01G267300 chr1D 89.532 1729 163 13 1 1713 375165090 375163364 0.000000e+00 2174
6 TraesCS3B01G267300 chr1D 87.641 1505 169 11 1 1489 334020645 334019142 0.000000e+00 1733
7 TraesCS3B01G267300 chr1D 88.674 1448 124 19 1711 3137 71595038 71593610 0.000000e+00 1729
8 TraesCS3B01G267300 chr1D 87.713 1115 114 11 621 1713 243249337 243248224 0.000000e+00 1279
9 TraesCS3B01G267300 chr1D 86.984 315 38 2 2826 3137 334017825 334017511 4.980000e-93 351
10 TraesCS3B01G267300 chr4D 88.659 1737 175 11 1 1716 326946539 326944804 0.000000e+00 2097
11 TraesCS3B01G267300 chr4D 88.720 1445 118 15 1711 3134 326944706 326943286 0.000000e+00 1724
12 TraesCS3B01G267300 chr4D 83.152 552 60 14 2596 3137 482667211 482666683 1.020000e-129 473
13 TraesCS3B01G267300 chr6B 88.638 1725 179 9 3 1713 465632190 465630469 0.000000e+00 2084
14 TraesCS3B01G267300 chr6B 89.112 1442 142 6 1711 3138 465630381 465628941 0.000000e+00 1779
15 TraesCS3B01G267300 chr6B 89.445 1118 110 8 598 1713 644223902 644222791 0.000000e+00 1404
16 TraesCS3B01G267300 chr4A 88.097 1739 179 19 1 1716 259692204 259690471 0.000000e+00 2039
17 TraesCS3B01G267300 chr4A 87.727 1434 160 9 1711 3128 704437239 704438672 0.000000e+00 1659
18 TraesCS3B01G267300 chr5D 87.023 1757 184 27 1 1716 318511297 318513050 0.000000e+00 1941
19 TraesCS3B01G267300 chr5D 86.910 1757 181 31 1 1716 534901575 534903323 0.000000e+00 1925
20 TraesCS3B01G267300 chr5D 87.812 1444 133 13 1711 3134 318513149 318514569 0.000000e+00 1652
21 TraesCS3B01G267300 chr5D 90.964 996 79 2 1711 2696 534903421 534904415 0.000000e+00 1330
22 TraesCS3B01G267300 chr7A 86.931 1737 203 18 1 1716 451573164 451574897 0.000000e+00 1929
23 TraesCS3B01G267300 chr7D 86.766 1753 188 26 1 1713 182871957 182873705 0.000000e+00 1912
24 TraesCS3B01G267300 chr7D 87.828 1446 134 14 1711 3137 53166643 53165221 0.000000e+00 1657
25 TraesCS3B01G267300 chr7D 88.173 1412 120 18 1711 3101 182873808 182875193 0.000000e+00 1639
26 TraesCS3B01G267300 chr7D 87.526 1435 143 19 1713 3131 518131377 518132791 0.000000e+00 1626
27 TraesCS3B01G267300 chr7D 83.060 549 60 10 2596 3134 614569083 614569608 4.740000e-128 468
28 TraesCS3B01G267300 chrUn 86.739 1757 185 29 3 1716 91267082 91268833 0.000000e+00 1910
29 TraesCS3B01G267300 chr2D 86.283 1757 198 27 1 1716 102508835 102507081 0.000000e+00 1869
30 TraesCS3B01G267300 chr2D 88.427 1443 129 18 1711 3137 41761910 41760490 0.000000e+00 1705
31 TraesCS3B01G267300 chr2D 87.733 1451 131 13 1711 3137 38980373 38978946 0.000000e+00 1650
32 TraesCS3B01G267300 chr2D 85.663 279 37 2 2862 3137 101820412 101820134 1.100000e-74 291
33 TraesCS3B01G267300 chr6D 88.122 1448 126 16 1711 3137 327962445 327961023 0.000000e+00 1679
34 TraesCS3B01G267300 chr6D 89.884 949 83 8 598 1542 428307334 428306395 0.000000e+00 1208
35 TraesCS3B01G267300 chr6D 87.007 685 73 7 2468 3138 428304658 428303976 0.000000e+00 758
36 TraesCS3B01G267300 chr4B 87.289 889 92 12 2265 3138 649068525 649069407 0.000000e+00 996


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 TraesCS3B01G267300 chr3B 428766545 428769682 3137 False 5795.0 5795 100.0000 1 3138 1 chr3B.!!$F1 3137
1 TraesCS3B01G267300 chr3B 284605503 284606053 550 True 538.0 538 84.3750 2568 3138 1 chr3B.!!$R1 570
2 TraesCS3B01G267300 chr5A 513007922 513010235 2313 False 2940.0 2940 89.8960 492 2766 1 chr5A.!!$F1 2274
3 TraesCS3B01G267300 chr2A 56488180 56491126 2946 True 1844.5 2194 90.0875 1 2850 2 chr2A.!!$R1 2849
4 TraesCS3B01G267300 chr1D 375163364 375165090 1726 True 2174.0 2174 89.5320 1 1713 1 chr1D.!!$R3 1712
5 TraesCS3B01G267300 chr1D 71593610 71595038 1428 True 1729.0 1729 88.6740 1711 3137 1 chr1D.!!$R1 1426
6 TraesCS3B01G267300 chr1D 243248224 243249337 1113 True 1279.0 1279 87.7130 621 1713 1 chr1D.!!$R2 1092
7 TraesCS3B01G267300 chr1D 334017511 334020645 3134 True 1042.0 1733 87.3125 1 3137 2 chr1D.!!$R4 3136
8 TraesCS3B01G267300 chr4D 326943286 326946539 3253 True 1910.5 2097 88.6895 1 3134 2 chr4D.!!$R2 3133
9 TraesCS3B01G267300 chr4D 482666683 482667211 528 True 473.0 473 83.1520 2596 3137 1 chr4D.!!$R1 541
10 TraesCS3B01G267300 chr6B 465628941 465632190 3249 True 1931.5 2084 88.8750 3 3138 2 chr6B.!!$R2 3135
11 TraesCS3B01G267300 chr6B 644222791 644223902 1111 True 1404.0 1404 89.4450 598 1713 1 chr6B.!!$R1 1115
12 TraesCS3B01G267300 chr4A 259690471 259692204 1733 True 2039.0 2039 88.0970 1 1716 1 chr4A.!!$R1 1715
13 TraesCS3B01G267300 chr4A 704437239 704438672 1433 False 1659.0 1659 87.7270 1711 3128 1 chr4A.!!$F1 1417
14 TraesCS3B01G267300 chr5D 318511297 318514569 3272 False 1796.5 1941 87.4175 1 3134 2 chr5D.!!$F1 3133
15 TraesCS3B01G267300 chr5D 534901575 534904415 2840 False 1627.5 1925 88.9370 1 2696 2 chr5D.!!$F2 2695
16 TraesCS3B01G267300 chr7A 451573164 451574897 1733 False 1929.0 1929 86.9310 1 1716 1 chr7A.!!$F1 1715
17 TraesCS3B01G267300 chr7D 182871957 182875193 3236 False 1775.5 1912 87.4695 1 3101 2 chr7D.!!$F3 3100
18 TraesCS3B01G267300 chr7D 53165221 53166643 1422 True 1657.0 1657 87.8280 1711 3137 1 chr7D.!!$R1 1426
19 TraesCS3B01G267300 chr7D 518131377 518132791 1414 False 1626.0 1626 87.5260 1713 3131 1 chr7D.!!$F1 1418
20 TraesCS3B01G267300 chr7D 614569083 614569608 525 False 468.0 468 83.0600 2596 3134 1 chr7D.!!$F2 538
21 TraesCS3B01G267300 chrUn 91267082 91268833 1751 False 1910.0 1910 86.7390 3 1716 1 chrUn.!!$F1 1713
22 TraesCS3B01G267300 chr2D 102507081 102508835 1754 True 1869.0 1869 86.2830 1 1716 1 chr2D.!!$R4 1715
23 TraesCS3B01G267300 chr2D 41760490 41761910 1420 True 1705.0 1705 88.4270 1711 3137 1 chr2D.!!$R2 1426
24 TraesCS3B01G267300 chr2D 38978946 38980373 1427 True 1650.0 1650 87.7330 1711 3137 1 chr2D.!!$R1 1426
25 TraesCS3B01G267300 chr6D 327961023 327962445 1422 True 1679.0 1679 88.1220 1711 3137 1 chr6D.!!$R1 1426
26 TraesCS3B01G267300 chr6D 428303976 428307334 3358 True 983.0 1208 88.4455 598 3138 2 chr6D.!!$R2 2540
27 TraesCS3B01G267300 chr4B 649068525 649069407 882 False 996.0 996 87.2890 2265 3138 1 chr4B.!!$F1 873

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
747 789 0.319641 AAGCGGACTCTTTGACGGTC 60.32 55.0 0.0 0.0 35.9 4.79 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2476 3485 1.586422 CGTATTCTGACCCATGCCAG 58.414 55.0 0.0 0.0 0.0 4.85 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
79 81 2.462255 GATGCACAGTGGCGGTTGTG 62.462 60.000 1.84 10.35 45.70 3.33
81 83 4.312231 CACAGTGGCGGTTGTGCG 62.312 66.667 0.00 0.00 38.35 5.34
104 106 3.257624 GTGAGGGGAACTCTACTTCGAAA 59.742 47.826 0.00 0.00 46.72 3.46
152 154 2.048222 CCGTGTGTGAGTGCGGAT 60.048 61.111 0.00 0.00 46.33 4.18
168 170 3.372822 TGCGGATTGTTTCGAGATTTACC 59.627 43.478 0.00 0.00 0.00 2.85
173 175 2.690786 TGTTTCGAGATTTACCGTGGG 58.309 47.619 0.00 0.00 0.00 4.61
195 197 3.023832 AGAGAGGAAGCAAGAGAGTAGC 58.976 50.000 0.00 0.00 0.00 3.58
247 249 4.426416 CGTATGTAATCTTTGACGGTCCA 58.574 43.478 5.55 0.00 0.00 4.02
248 250 4.266976 CGTATGTAATCTTTGACGGTCCAC 59.733 45.833 5.55 0.00 0.00 4.02
251 254 4.062293 TGTAATCTTTGACGGTCCACTTG 58.938 43.478 5.55 0.00 0.00 3.16
328 333 2.414994 AGATGTGTGAGGCATGGAAG 57.585 50.000 0.00 0.00 0.00 3.46
368 373 2.552031 GACGTTGGAATTCTAGAGGCC 58.448 52.381 5.23 0.00 0.00 5.19
372 377 2.505819 GTTGGAATTCTAGAGGCCCTGA 59.494 50.000 0.00 0.00 0.00 3.86
409 415 3.114527 ACAAATGTGTGCTGGCAGA 57.885 47.368 20.86 0.00 36.31 4.26
432 438 2.625737 CATGCATCCGAAGACTCACTT 58.374 47.619 0.00 0.00 42.03 3.16
490 496 1.068417 GTGTCACCACAGGCACGTA 59.932 57.895 0.00 0.00 41.44 3.57
497 503 0.603569 CCACAGGCACGTAAGAGTCT 59.396 55.000 0.00 0.00 46.13 3.24
504 510 1.672145 GCACGTAAGAGTCTTGGGTCC 60.672 57.143 15.90 0.00 43.62 4.46
505 511 1.616865 CACGTAAGAGTCTTGGGTCCA 59.383 52.381 15.90 0.00 43.62 4.02
520 526 3.653836 TGGGTCCAAAAGTGTGGTAGTAT 59.346 43.478 0.00 0.00 39.88 2.12
531 537 3.069158 GTGTGGTAGTATAGGCATCGGTT 59.931 47.826 0.00 0.00 0.00 4.44
672 691 1.544246 ACGCAGTGCACACTATCTACA 59.456 47.619 21.04 0.00 42.51 2.74
705 726 2.159462 AGTAGGTGCTTAAGCGACGTAC 60.159 50.000 30.17 30.17 45.83 3.67
736 778 0.599558 TGTACGTGCTTAAGCGGACT 59.400 50.000 21.97 7.38 45.83 3.85
747 789 0.319641 AAGCGGACTCTTTGACGGTC 60.320 55.000 0.00 0.00 35.90 4.79
799 849 3.423154 CGGTTGCCTCGAAGCACC 61.423 66.667 8.54 12.11 43.97 5.01
833 883 0.759436 ATGTCTACCGCCCCCACTAG 60.759 60.000 0.00 0.00 0.00 2.57
957 1007 3.443037 CTCCATCTCAACTAGCAACTCG 58.557 50.000 0.00 0.00 0.00 4.18
978 1028 1.617850 CCACAGTCTCTGTCTCAAGCT 59.382 52.381 0.00 0.00 43.43 3.74
1029 1079 2.129555 AACCATCTGCCAAGCGTCCT 62.130 55.000 0.00 0.00 0.00 3.85
1057 1107 1.806461 GACGTCTGACCAGAGCACCA 61.806 60.000 8.70 0.00 38.27 4.17
1158 1209 0.826715 AGCTGGATGTCGTATGCACT 59.173 50.000 0.00 0.00 0.00 4.40
1249 1306 0.247814 CATCGGCGTTGATGTCAAGC 60.248 55.000 12.41 2.82 40.67 4.01
1270 1327 2.019807 TACCAGGGAAGACGAACCTT 57.980 50.000 0.00 0.00 30.66 3.50
1334 1391 2.429610 GTCTGGTATACCACATCACCGT 59.570 50.000 21.05 0.00 42.01 4.83
1341 1399 4.063529 CACATCACCGTGGCAACT 57.936 55.556 0.00 0.00 33.05 3.16
1384 1442 3.340814 TCCAACCTCTTCATGCTTCTC 57.659 47.619 0.00 0.00 0.00 2.87
1390 1448 6.128063 CCAACCTCTTCATGCTTCTCTTTAAG 60.128 42.308 0.00 0.00 0.00 1.85
1418 1476 6.532657 GTGATGCACCCTGAAATTTGATTAAG 59.467 38.462 0.00 0.00 0.00 1.85
1421 1480 7.531857 TGCACCCTGAAATTTGATTAAGTTA 57.468 32.000 0.00 0.00 0.00 2.24
1596 1678 5.909610 GTGTAGTTTCTGTTCTTGATGCAAC 59.090 40.000 0.00 0.00 0.00 4.17
1732 1920 4.039092 AGGCCCAAGAGCATGCGT 62.039 61.111 13.01 0.00 0.00 5.24
1798 1986 6.998074 TCAGTATTGAAGGTGACAAACAGATT 59.002 34.615 0.00 0.00 0.00 2.40
1873 2061 4.261155 CGCAAATGGAGAGTTCTGTTCAAA 60.261 41.667 0.00 0.00 0.00 2.69
1884 2072 8.744568 AGAGTTCTGTTCAAAGAAAGAAAGAT 57.255 30.769 0.00 0.00 37.90 2.40
1960 2149 8.585189 AAAAGATGAAGAAAAAGATTGACAGC 57.415 30.769 0.00 0.00 0.00 4.40
2083 2272 8.378565 AGAATTGAAAACATCAGAGAAGGTCTA 58.621 33.333 0.00 0.00 39.77 2.59
2109 2298 4.260170 AGTGCAAAAGAGGCAGATAAGAG 58.740 43.478 0.00 0.00 42.85 2.85
2233 2423 9.369904 AGTTCGTAGTTTACTTTTGTTAGAACA 57.630 29.630 0.00 0.00 36.52 3.18
2254 2444 4.082571 ACAAGGCAGTTTCTAATGTCATGC 60.083 41.667 0.00 0.00 0.00 4.06
2366 2556 8.920509 TTATTCAGCAATCATGTCATTTTGAG 57.079 30.769 8.73 2.49 0.00 3.02
2391 2581 4.425520 AGTTATGTTGCTCTTCGCTCTAC 58.574 43.478 0.00 0.00 40.11 2.59
2476 3485 2.125753 CTCGAGGAGTGGCAGCAC 60.126 66.667 3.91 0.00 0.00 4.40
2696 3734 4.898607 GTGTGTGACACCATGGGT 57.101 55.556 18.09 11.25 43.05 4.51
2698 3736 2.489938 GTGTGTGACACCATGGGTAT 57.510 50.000 18.09 0.00 43.05 2.73
2699 3737 2.083774 GTGTGTGACACCATGGGTATG 58.916 52.381 18.09 8.07 43.05 2.39
2700 3738 1.702401 TGTGTGACACCATGGGTATGT 59.298 47.619 18.09 11.70 32.11 2.29
2701 3739 2.907042 TGTGTGACACCATGGGTATGTA 59.093 45.455 18.09 0.00 32.11 2.29
2791 3877 0.329261 CATGGGCTTGGGACTTCTCA 59.671 55.000 0.00 0.00 0.00 3.27
2854 3945 0.615331 AGAGGCATGTGTCGGAATGT 59.385 50.000 0.00 0.00 0.00 2.71
3060 4155 3.434453 CCAAAAAGTGTGGTACCAGAGGA 60.434 47.826 16.93 0.00 0.00 3.71
3093 4188 0.253044 TGCAGTTAGGGAGTCATGGC 59.747 55.000 0.00 0.00 0.00 4.40
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
62 64 3.208383 CACAACCGCCACTGTGCA 61.208 61.111 1.29 0.00 36.80 4.57
79 81 0.971447 AGTAGAGTTCCCCTCACCGC 60.971 60.000 0.00 0.00 43.12 5.68
80 82 1.477295 GAAGTAGAGTTCCCCTCACCG 59.523 57.143 0.00 0.00 43.12 4.94
81 83 1.477295 CGAAGTAGAGTTCCCCTCACC 59.523 57.143 0.00 0.00 43.12 4.02
104 106 0.896940 CTTCTGCACACAGGCCCAAT 60.897 55.000 0.00 0.00 44.59 3.16
152 154 3.068560 CCCACGGTAAATCTCGAAACAA 58.931 45.455 0.00 0.00 0.00 2.83
168 170 0.108424 CTTGCTTCCTCTCTCCCACG 60.108 60.000 0.00 0.00 0.00 4.94
173 175 3.066760 GCTACTCTCTTGCTTCCTCTCTC 59.933 52.174 0.00 0.00 0.00 3.20
195 197 1.717032 TTCCATATCTCCCACCTCCG 58.283 55.000 0.00 0.00 0.00 4.63
228 230 4.553330 AGTGGACCGTCAAAGATTACAT 57.447 40.909 0.00 0.00 0.00 2.29
300 305 6.370994 CCATGCCTCACACATCTATTAAGATC 59.629 42.308 0.00 0.00 40.65 2.75
312 317 0.036732 GGTCTTCCATGCCTCACACA 59.963 55.000 0.00 0.00 0.00 3.72
328 333 0.391793 GGTGCCTGTAGAGCTTGGTC 60.392 60.000 0.00 0.00 0.00 4.02
333 338 2.701780 CGTCGGTGCCTGTAGAGCT 61.702 63.158 0.00 0.00 0.00 4.09
368 373 4.641541 TGCATCCACAAAGTTGATATCAGG 59.358 41.667 5.39 2.16 0.00 3.86
402 408 2.194212 GGATGCATGCCTCTGCCAG 61.194 63.158 20.37 0.00 41.58 4.85
409 415 0.179062 GAGTCTTCGGATGCATGCCT 60.179 55.000 16.68 4.84 0.00 4.75
463 469 2.027024 TGGTGACACACGCTCGTC 59.973 61.111 8.08 0.00 34.83 4.20
490 496 3.053619 ACACTTTTGGACCCAAGACTCTT 60.054 43.478 7.39 0.00 37.24 2.85
497 503 2.242708 ACTACCACACTTTTGGACCCAA 59.757 45.455 0.00 0.00 39.24 4.12
504 510 5.234329 CGATGCCTATACTACCACACTTTTG 59.766 44.000 0.00 0.00 0.00 2.44
505 511 5.357257 CGATGCCTATACTACCACACTTTT 58.643 41.667 0.00 0.00 0.00 2.27
520 526 2.313317 AGGTATTCGAACCGATGCCTA 58.687 47.619 0.00 0.00 44.77 3.93
531 537 6.164876 CGATCCTCTCTAACTAGGTATTCGA 58.835 44.000 0.00 0.00 35.18 3.71
581 587 2.019249 CCACATGACCAATGCTGTAGG 58.981 52.381 0.00 0.00 40.22 3.18
672 691 3.706373 CCTACTGCACTGGCCCGT 61.706 66.667 0.00 0.00 40.13 5.28
705 726 7.565073 GCTTAAGCACGTACAAATGTTTTTGAG 60.565 37.037 22.59 0.31 41.71 3.02
799 849 2.094539 CATGTGCTCGTCGTTGCG 59.905 61.111 8.03 0.00 0.00 4.85
850 900 3.691342 CGTGGAGGAGGCGGTTGA 61.691 66.667 0.00 0.00 0.00 3.18
909 959 1.611491 TGGTGTTTTCGGAATTGAGCC 59.389 47.619 0.00 0.00 0.00 4.70
957 1007 1.938926 GCTTGAGACAGAGACTGTGGC 60.939 57.143 9.15 0.00 45.44 5.01
978 1028 3.531207 CTCCTCCAGCGATGGCGA 61.531 66.667 16.69 11.93 46.35 5.54
1029 1079 0.387929 GGTCAGACGTCTCACCACAA 59.612 55.000 31.16 1.96 0.00 3.33
1057 1107 0.966920 ACCTGAACGTCATCGACCTT 59.033 50.000 0.00 0.00 40.62 3.50
1158 1209 0.179111 CGGCTTCGTCTGGATTGCTA 60.179 55.000 0.00 0.00 0.00 3.49
1199 1256 1.915769 AAGCCGCAGACCCTCTTCT 60.916 57.895 0.00 0.00 0.00 2.85
1249 1306 1.831736 AGGTTCGTCTTCCCTGGTATG 59.168 52.381 0.00 0.00 0.00 2.39
1334 1391 2.950781 TGGTTCACCATTTAGTTGCCA 58.049 42.857 0.00 0.00 42.01 4.92
1384 1442 4.832248 TCAGGGTGCATCACTACTTAAAG 58.168 43.478 0.00 0.00 34.40 1.85
1390 1448 4.458989 TCAAATTTCAGGGTGCATCACTAC 59.541 41.667 0.00 0.00 34.40 2.73
1434 1493 9.915629 CTACTTCAGAAACTTCACTAGTACATT 57.084 33.333 0.00 0.00 35.54 2.71
1563 1623 9.046296 CAAGAACAGAAACTACACTAGAACATT 57.954 33.333 0.00 0.00 0.00 2.71
1596 1678 7.080099 CCACATCAATTCAAGAAACTGTACTG 58.920 38.462 0.00 0.00 0.00 2.74
1667 1749 5.984926 GCACACCATCAGATTTTTCTTTTGA 59.015 36.000 0.00 0.00 0.00 2.69
1680 1763 7.816031 AGAAATTAAATTCAAGCACACCATCAG 59.184 33.333 6.07 0.00 0.00 2.90
1681 1764 7.669427 AGAAATTAAATTCAAGCACACCATCA 58.331 30.769 6.07 0.00 0.00 3.07
1793 1981 5.641209 CCAAACCAGAACTCTGTAGAATCTG 59.359 44.000 13.43 13.43 42.27 2.90
1798 1986 4.480115 TCTCCAAACCAGAACTCTGTAGA 58.520 43.478 6.01 0.00 42.27 2.59
2083 2272 1.696336 TCTGCCTCTTTTGCACTCTCT 59.304 47.619 0.00 0.00 34.46 3.10
2109 2298 3.365767 GCCGTAGTAGGGATCGTCATAAC 60.366 52.174 13.15 0.00 0.00 1.89
2233 2423 3.127548 CGCATGACATTAGAAACTGCCTT 59.872 43.478 0.00 0.00 0.00 4.35
2235 2425 2.420022 ACGCATGACATTAGAAACTGCC 59.580 45.455 0.00 0.00 0.00 4.85
2254 2444 5.997385 AGCAAACTTGTTTAACCTGATACG 58.003 37.500 0.00 0.00 0.00 3.06
2391 2581 6.427150 AGACTGCTTTGTATTTTGTTGTACG 58.573 36.000 0.00 0.00 0.00 3.67
2476 3485 1.586422 CGTATTCTGACCCATGCCAG 58.414 55.000 0.00 0.00 0.00 4.85
2696 3734 5.441709 TGACACTTGTCGTGACTTACATA 57.558 39.130 4.94 0.00 46.81 2.29
2697 3735 4.316205 TGACACTTGTCGTGACTTACAT 57.684 40.909 4.94 0.00 46.81 2.29
2698 3736 3.786516 TGACACTTGTCGTGACTTACA 57.213 42.857 4.94 0.00 46.81 2.41
2774 3837 1.075601 ATTGAGAAGTCCCAAGCCCA 58.924 50.000 0.00 0.00 0.00 5.36
2791 3877 2.091541 CAAGGTTGATACCCGTGCATT 58.908 47.619 0.00 0.00 46.28 3.56
2833 3924 0.107508 ATTCCGACACATGCCTCTGG 60.108 55.000 0.00 0.00 0.00 3.86
2854 3945 0.892755 ACCGTGCATCTCTAACCGAA 59.107 50.000 0.00 0.00 0.00 4.30
2992 4085 0.977395 CTCGAGAAACCCCACTTCCT 59.023 55.000 6.58 0.00 0.00 3.36
3039 4134 3.815809 TCCTCTGGTACCACACTTTTTG 58.184 45.455 11.60 0.00 0.00 2.44
3040 4135 4.513406 TTCCTCTGGTACCACACTTTTT 57.487 40.909 11.60 0.00 0.00 1.94
3060 4155 2.698855 ACTGCATACTCGGAAGCATT 57.301 45.000 0.00 0.00 36.28 3.56
3071 4166 3.733337 CCATGACTCCCTAACTGCATAC 58.267 50.000 0.00 0.00 0.00 2.39
3074 4169 0.253044 GCCATGACTCCCTAACTGCA 59.747 55.000 0.00 0.00 0.00 4.41


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

AutoCloner maintained by Alex Coulton.