Multiple sequence alignment - TraesCS1A01G376800

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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 TraesCS1A01G376800 chr1A 100.000 2243 0 0 1 2243 550654534 550656776 0.000000e+00 4143
1 TraesCS1A01G376800 chr1A 93.227 1565 78 14 550 2099 550695203 550696754 0.000000e+00 2278
2 TraesCS1A01G376800 chr1A 94.491 962 34 3 1282 2243 550824910 550825852 0.000000e+00 1465
3 TraesCS1A01G376800 chr1A 94.491 962 28 4 1282 2243 550669614 550670550 0.000000e+00 1459
4 TraesCS1A01G376800 chr1A 94.595 666 34 2 340 1004 550682401 550683065 0.000000e+00 1029
5 TraesCS1A01G376800 chr1A 94.595 666 34 2 340 1004 550692030 550692694 0.000000e+00 1029
6 TraesCS1A01G376800 chr1A 86.946 429 47 7 1819 2241 550708211 550708636 7.250000e-130 473
7 TraesCS1A01G376800 chr1A 93.137 306 19 1 47 350 550681974 550682279 4.390000e-122 448
8 TraesCS1A01G376800 chr1A 93.046 302 19 1 51 350 550691607 550691908 7.350000e-120 440
9 TraesCS1A01G376800 chr1A 82.825 361 35 14 1876 2232 550665643 550665980 4.680000e-77 298
10 TraesCS1A01G376800 chr1B 86.792 1802 162 44 351 2097 628810920 628812700 0.000000e+00 1940
11 TraesCS1A01G376800 chr1B 86.259 1470 143 21 567 1985 628975198 628976659 0.000000e+00 1541
12 TraesCS1A01G376800 chr1B 85.348 1481 143 45 565 1985 628856125 628857591 0.000000e+00 1465
13 TraesCS1A01G376800 chr1B 83.867 1500 182 36 352 1812 629091668 629093146 0.000000e+00 1375
14 TraesCS1A01G376800 chr1B 83.229 1276 132 39 342 1588 628874393 628875615 0.000000e+00 1096
15 TraesCS1A01G376800 chr1B 82.877 1279 134 41 339 1588 628826840 628828062 0.000000e+00 1070
16 TraesCS1A01G376800 chr1B 84.511 1033 117 24 341 1348 628987479 628988493 0.000000e+00 981
17 TraesCS1A01G376800 chr1B 92.581 647 45 3 1341 1985 628899841 628900486 0.000000e+00 926
18 TraesCS1A01G376800 chr1B 84.426 976 106 25 353 1300 629053407 629054364 0.000000e+00 918
19 TraesCS1A01G376800 chr1B 84.065 979 106 27 341 1300 628911487 628912434 0.000000e+00 898
20 TraesCS1A01G376800 chr1B 83.673 931 106 21 366 1279 629073434 629074335 0.000000e+00 835
21 TraesCS1A01G376800 chr1B 86.352 762 63 18 342 1079 628939993 628940737 0.000000e+00 793
22 TraesCS1A01G376800 chr1B 86.765 476 52 9 1773 2241 629097556 629098027 9.180000e-144 520
23 TraesCS1A01G376800 chr1B 91.837 343 25 2 11 350 628920377 628920719 2.020000e-130 475
24 TraesCS1A01G376800 chr1B 92.097 329 23 2 25 350 628996713 628997041 5.640000e-126 460
25 TraesCS1A01G376800 chr1B 93.667 300 17 1 53 350 628911049 628911348 4.390000e-122 448
26 TraesCS1A01G376800 chr1B 93.333 300 18 1 53 350 628987055 628987354 2.040000e-120 442
27 TraesCS1A01G376800 chr1B 90.691 333 28 2 21 350 629056072 629056404 7.350000e-120 440
28 TraesCS1A01G376800 chr1B 89.106 358 28 7 1 350 628873912 628874266 3.420000e-118 435
29 TraesCS1A01G376800 chr1D 90.192 1305 55 23 340 1624 458166365 458167616 0.000000e+00 1633
30 TraesCS1A01G376800 chr1D 85.728 1051 92 15 340 1348 458207067 458208101 0.000000e+00 1057
31 TraesCS1A01G376800 chr1D 86.552 989 63 27 502 1458 458238130 458239080 0.000000e+00 1026
32 TraesCS1A01G376800 chr1D 96.522 575 19 1 1669 2243 458239155 458239728 0.000000e+00 950
33 TraesCS1A01G376800 chr1D 89.465 579 45 8 715 1281 458229905 458230479 0.000000e+00 717
34 TraesCS1A01G376800 chr1D 84.046 702 89 15 1550 2243 458201098 458201784 0.000000e+00 654
35 TraesCS1A01G376800 chr1D 87.789 303 33 3 51 350 458206643 458206944 3.540000e-93 351
36 TraesCS1A01G376800 chr1D 96.569 204 6 1 2041 2243 458276249 458276452 9.920000e-89 337


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 TraesCS1A01G376800 chr1A 550654534 550656776 2242 False 4143.0 4143 100.000000 1 2243 1 chr1A.!!$F1 2242
1 TraesCS1A01G376800 chr1A 550824910 550825852 942 False 1465.0 1465 94.491000 1282 2243 1 chr1A.!!$F3 961
2 TraesCS1A01G376800 chr1A 550691607 550696754 5147 False 1249.0 2278 93.622667 51 2099 3 chr1A.!!$F6 2048
3 TraesCS1A01G376800 chr1A 550665643 550670550 4907 False 878.5 1459 88.658000 1282 2243 2 chr1A.!!$F4 961
4 TraesCS1A01G376800 chr1A 550681974 550683065 1091 False 738.5 1029 93.866000 47 1004 2 chr1A.!!$F5 957
5 TraesCS1A01G376800 chr1B 628810920 628812700 1780 False 1940.0 1940 86.792000 351 2097 1 chr1B.!!$F1 1746
6 TraesCS1A01G376800 chr1B 628975198 628976659 1461 False 1541.0 1541 86.259000 567 1985 1 chr1B.!!$F7 1418
7 TraesCS1A01G376800 chr1B 628856125 628857591 1466 False 1465.0 1465 85.348000 565 1985 1 chr1B.!!$F3 1420
8 TraesCS1A01G376800 chr1B 629091668 629093146 1478 False 1375.0 1375 83.867000 352 1812 1 chr1B.!!$F10 1460
9 TraesCS1A01G376800 chr1B 628826840 628828062 1222 False 1070.0 1070 82.877000 339 1588 1 chr1B.!!$F2 1249
10 TraesCS1A01G376800 chr1B 628899841 628900486 645 False 926.0 926 92.581000 1341 1985 1 chr1B.!!$F4 644
11 TraesCS1A01G376800 chr1B 629073434 629074335 901 False 835.0 835 83.673000 366 1279 1 chr1B.!!$F9 913
12 TraesCS1A01G376800 chr1B 628939993 628940737 744 False 793.0 793 86.352000 342 1079 1 chr1B.!!$F6 737
13 TraesCS1A01G376800 chr1B 628873912 628875615 1703 False 765.5 1096 86.167500 1 1588 2 chr1B.!!$F12 1587
14 TraesCS1A01G376800 chr1B 628987055 628988493 1438 False 711.5 981 88.922000 53 1348 2 chr1B.!!$F14 1295
15 TraesCS1A01G376800 chr1B 629053407 629056404 2997 False 679.0 918 87.558500 21 1300 2 chr1B.!!$F15 1279
16 TraesCS1A01G376800 chr1B 628911049 628912434 1385 False 673.0 898 88.866000 53 1300 2 chr1B.!!$F13 1247
17 TraesCS1A01G376800 chr1D 458166365 458167616 1251 False 1633.0 1633 90.192000 340 1624 1 chr1D.!!$F1 1284
18 TraesCS1A01G376800 chr1D 458238130 458239728 1598 False 988.0 1026 91.537000 502 2243 2 chr1D.!!$F6 1741
19 TraesCS1A01G376800 chr1D 458229905 458230479 574 False 717.0 717 89.465000 715 1281 1 chr1D.!!$F3 566
20 TraesCS1A01G376800 chr1D 458206643 458208101 1458 False 704.0 1057 86.758500 51 1348 2 chr1D.!!$F5 1297
21 TraesCS1A01G376800 chr1D 458201098 458201784 686 False 654.0 654 84.046000 1550 2243 1 chr1D.!!$F2 693

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
593 780 2.288666 CCAACGGTTGTCTATGGATGG 58.711 52.381 18.73 0.0 32.82 3.51 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1878 5168 0.250338 GTAAGGATGGATGTCGGCCC 60.25 60.0 0.0 0.0 0.0 5.8 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
62 63 5.139727 AGAGAGAGAGAGAGAGAGAGAGAG 58.860 50.000 0.00 0.00 0.00 3.20
132 136 6.636562 AACTACTACCATGGACTTCTATCG 57.363 41.667 21.47 0.00 0.00 2.92
270 284 8.129211 AGTGCTGTTAGAATTTCTGTTTGTTAC 58.871 33.333 9.22 1.40 0.00 2.50
313 327 9.030301 GTACAAAAGTTAAAAGTGGTACGTCTA 57.970 33.333 0.00 0.00 0.00 2.59
323 338 7.647907 AAAGTGGTACGTCTATACAAAAGTG 57.352 36.000 0.00 0.00 0.00 3.16
348 517 5.435686 AAGTGCTTACTGTGGATAATGGA 57.564 39.130 0.00 0.00 0.00 3.41
593 780 2.288666 CCAACGGTTGTCTATGGATGG 58.711 52.381 18.73 0.00 32.82 3.51
975 4183 4.749310 AAGAGCGCACCAGAGCCG 62.749 66.667 11.47 0.00 41.97 5.52
989 4197 3.325870 CAGAGCCGTGTTTAATCACTCA 58.674 45.455 13.38 0.00 36.33 3.41
991 4199 2.415512 GAGCCGTGTTTAATCACTCACC 59.584 50.000 13.38 1.58 36.33 4.02
994 4202 3.608474 GCCGTGTTTAATCACTCACCAAC 60.608 47.826 13.38 0.00 36.33 3.77
999 4207 2.357327 TAATCACTCACCAACGACCG 57.643 50.000 0.00 0.00 0.00 4.79
1028 4236 2.974698 GGGAGGATCATTGCGCGG 60.975 66.667 8.83 0.00 36.25 6.46
1067 4275 1.700042 GGGAAGATGACGCAGGGGAT 61.700 60.000 0.00 0.00 0.00 3.85
1132 4343 0.975040 GAGGCAGCTCTTCTGGAGGA 60.975 60.000 0.00 0.00 43.06 3.71
1176 4387 3.645975 CGCCGTGCCGTGAGTTTT 61.646 61.111 0.00 0.00 0.00 2.43
1178 4389 2.637025 CCGTGCCGTGAGTTTTGG 59.363 61.111 0.00 0.00 0.00 3.28
1179 4390 2.637025 CGTGCCGTGAGTTTTGGG 59.363 61.111 0.00 0.00 0.00 4.12
1181 4392 0.881159 CGTGCCGTGAGTTTTGGGTA 60.881 55.000 0.00 0.00 0.00 3.69
1182 4393 0.589708 GTGCCGTGAGTTTTGGGTAC 59.410 55.000 0.00 0.00 0.00 3.34
1184 4395 0.600782 GCCGTGAGTTTTGGGTACGA 60.601 55.000 0.00 0.00 36.94 3.43
1186 4397 1.997606 CCGTGAGTTTTGGGTACGATC 59.002 52.381 0.00 0.00 36.94 3.69
1188 4399 2.921754 CGTGAGTTTTGGGTACGATCTC 59.078 50.000 0.00 0.00 36.94 2.75
1190 4401 4.312443 GTGAGTTTTGGGTACGATCTCAA 58.688 43.478 0.00 0.00 33.36 3.02
1191 4402 4.389077 GTGAGTTTTGGGTACGATCTCAAG 59.611 45.833 0.00 0.00 33.36 3.02
1192 4403 4.282449 TGAGTTTTGGGTACGATCTCAAGA 59.718 41.667 0.00 0.00 0.00 3.02
1193 4404 4.822026 AGTTTTGGGTACGATCTCAAGAG 58.178 43.478 0.00 0.00 0.00 2.85
1194 4405 2.961526 TTGGGTACGATCTCAAGAGC 57.038 50.000 0.00 0.00 0.00 4.09
1195 4406 2.145397 TGGGTACGATCTCAAGAGCT 57.855 50.000 0.00 0.00 0.00 4.09
1196 4407 3.292492 TGGGTACGATCTCAAGAGCTA 57.708 47.619 0.00 0.00 0.00 3.32
1197 4408 2.950309 TGGGTACGATCTCAAGAGCTAC 59.050 50.000 0.00 0.00 0.00 3.58
1198 4409 3.215975 GGGTACGATCTCAAGAGCTACT 58.784 50.000 0.00 0.00 0.00 2.57
1200 4411 3.251487 GGTACGATCTCAAGAGCTACTCC 59.749 52.174 0.00 0.00 0.00 3.85
1201 4412 2.303175 ACGATCTCAAGAGCTACTCCC 58.697 52.381 0.00 0.00 0.00 4.30
1202 4413 2.302260 CGATCTCAAGAGCTACTCCCA 58.698 52.381 0.00 0.00 0.00 4.37
1203 4414 2.293122 CGATCTCAAGAGCTACTCCCAG 59.707 54.545 0.00 0.00 0.00 4.45
1204 4415 3.561143 GATCTCAAGAGCTACTCCCAGA 58.439 50.000 0.00 0.00 0.00 3.86
1205 4416 3.458044 TCTCAAGAGCTACTCCCAGAA 57.542 47.619 0.00 0.00 0.00 3.02
1207 4418 3.096092 CTCAAGAGCTACTCCCAGAACT 58.904 50.000 0.00 0.00 0.00 3.01
1208 4419 3.511477 TCAAGAGCTACTCCCAGAACTT 58.489 45.455 0.00 0.00 0.00 2.66
1209 4420 3.511934 TCAAGAGCTACTCCCAGAACTTC 59.488 47.826 0.00 0.00 0.00 3.01
1210 4421 2.096248 AGAGCTACTCCCAGAACTTCG 58.904 52.381 0.00 0.00 0.00 3.79
1211 4422 2.093106 GAGCTACTCCCAGAACTTCGA 58.907 52.381 0.00 0.00 0.00 3.71
1212 4423 1.819903 AGCTACTCCCAGAACTTCGAC 59.180 52.381 0.00 0.00 0.00 4.20
1213 4424 1.467713 GCTACTCCCAGAACTTCGACG 60.468 57.143 0.00 0.00 0.00 5.12
1214 4425 2.082231 CTACTCCCAGAACTTCGACGA 58.918 52.381 0.00 0.00 0.00 4.20
1215 4426 1.546961 ACTCCCAGAACTTCGACGAT 58.453 50.000 0.00 0.00 0.00 3.73
1216 4427 1.202582 ACTCCCAGAACTTCGACGATG 59.797 52.381 9.03 9.03 0.00 3.84
1217 4428 0.530744 TCCCAGAACTTCGACGATGG 59.469 55.000 14.41 10.90 0.00 3.51
1218 4429 1.084370 CCCAGAACTTCGACGATGGC 61.084 60.000 14.41 6.71 0.00 4.40
1219 4430 1.084370 CCAGAACTTCGACGATGGCC 61.084 60.000 14.41 0.00 0.00 5.36
1221 4432 0.173708 AGAACTTCGACGATGGCCTC 59.826 55.000 14.41 8.18 0.00 4.70
1242 4453 3.854669 CCTGCCCACCGCCTCTAG 61.855 72.222 0.00 0.00 36.24 2.43
1243 4454 4.537433 CTGCCCACCGCCTCTAGC 62.537 72.222 0.00 0.00 36.24 3.42
1245 4456 4.096003 GCCCACCGCCTCTAGCAA 62.096 66.667 0.00 0.00 44.04 3.91
1246 4457 2.125106 CCCACCGCCTCTAGCAAC 60.125 66.667 0.00 0.00 44.04 4.17
1247 4458 2.662596 CCACCGCCTCTAGCAACA 59.337 61.111 0.00 0.00 44.04 3.33
1249 4460 1.741770 CACCGCCTCTAGCAACACC 60.742 63.158 0.00 0.00 44.04 4.16
1250 4461 2.125106 CCGCCTCTAGCAACACCC 60.125 66.667 0.00 0.00 44.04 4.61
1253 4464 2.662596 CCTCTAGCAACACCCGCA 59.337 61.111 0.00 0.00 0.00 5.69
1254 4465 1.448540 CCTCTAGCAACACCCGCAG 60.449 63.158 0.00 0.00 0.00 5.18
1255 4466 1.293498 CTCTAGCAACACCCGCAGT 59.707 57.895 0.00 0.00 0.00 4.40
1266 4477 0.759346 ACCCGCAGTGTCTTCTTCTT 59.241 50.000 0.00 0.00 0.00 2.52
1282 4493 8.978539 GTCTTCTTCTTCTTCTTCTTCTTCTTC 58.021 37.037 0.00 0.00 0.00 2.87
1538 4821 3.820467 GTCACTTGACACAATGGAATGGA 59.180 43.478 4.43 0.00 44.18 3.41
1644 4931 6.558771 TGAGATGAAACCAATGTAGTGTTG 57.441 37.500 0.00 0.00 0.00 3.33
1878 5168 9.701098 CCCATTTGGTAGATAATTGATCATTTG 57.299 33.333 12.10 0.00 36.98 2.32
1885 5175 4.520492 AGATAATTGATCATTTGGGCCGAC 59.480 41.667 12.10 0.00 36.98 4.79
2237 5537 5.794687 TTTTACATGCCAATGACGTCTAG 57.205 39.130 17.92 6.31 37.24 2.43
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
18 19 5.136828 TCTCTCTCTCTCTCTCTCTCTCTC 58.863 50.000 0.00 0.00 0.00 3.20
19 20 5.103728 TCTCTCTCTCTCTCTCTCTCTCTCT 60.104 48.000 0.00 0.00 0.00 3.10
20 21 5.136828 TCTCTCTCTCTCTCTCTCTCTCTC 58.863 50.000 0.00 0.00 0.00 3.20
243 249 6.498304 ACAAACAGAAATTCTAACAGCACTG 58.502 36.000 0.00 0.00 0.00 3.66
270 284 2.096980 TGTACAGACCTAGCAATCGACG 59.903 50.000 0.00 0.00 0.00 5.12
313 327 6.546034 ACAGTAAGCACTTTCCACTTTTGTAT 59.454 34.615 0.00 0.00 30.46 2.29
323 338 5.066505 CCATTATCCACAGTAAGCACTTTCC 59.933 44.000 0.00 0.00 30.46 3.13
348 517 4.431416 TGTGGTCTTGGTTAGTGACAAT 57.569 40.909 0.00 0.00 32.84 2.71
555 742 1.286257 TGGTGCTTGCCATACCCATAA 59.714 47.619 0.00 0.00 32.81 1.90
593 780 8.840867 CATACTCAAAAGTAATTTCGCTTGAAC 58.159 33.333 0.00 0.00 41.25 3.18
688 885 4.222588 GGTGATGGAATCTCTCTCCCATAG 59.777 50.000 0.00 0.00 45.81 2.23
975 4183 4.319261 GGTCGTTGGTGAGTGATTAAACAC 60.319 45.833 7.74 7.74 40.60 3.32
989 4197 2.999739 AAACGCCATCGGTCGTTGGT 63.000 55.000 18.08 1.32 41.59 3.67
991 4199 1.131826 GAAACGCCATCGGTCGTTG 59.868 57.895 13.30 0.00 41.59 4.10
994 4202 2.452813 CCAGAAACGCCATCGGTCG 61.453 63.158 0.00 0.00 40.69 4.79
999 4207 0.181350 ATCCTCCCAGAAACGCCATC 59.819 55.000 0.00 0.00 0.00 3.51
1028 4236 1.986575 GCTGCCAATGCTTCTCGTCC 61.987 60.000 0.00 0.00 38.71 4.79
1042 4250 2.892425 CGTCATCTTCCCGCTGCC 60.892 66.667 0.00 0.00 0.00 4.85
1164 4375 0.881159 CGTACCCAAAACTCACGGCA 60.881 55.000 0.00 0.00 0.00 5.69
1171 4382 4.822026 CTCTTGAGATCGTACCCAAAACT 58.178 43.478 0.00 0.00 0.00 2.66
1172 4383 3.371285 GCTCTTGAGATCGTACCCAAAAC 59.629 47.826 1.30 0.00 0.00 2.43
1173 4384 3.260884 AGCTCTTGAGATCGTACCCAAAA 59.739 43.478 1.30 0.00 0.00 2.44
1175 4386 2.457598 AGCTCTTGAGATCGTACCCAA 58.542 47.619 1.30 0.00 0.00 4.12
1176 4387 2.145397 AGCTCTTGAGATCGTACCCA 57.855 50.000 1.30 0.00 0.00 4.51
1178 4389 3.251487 GGAGTAGCTCTTGAGATCGTACC 59.749 52.174 1.30 0.00 0.00 3.34
1179 4390 3.251487 GGGAGTAGCTCTTGAGATCGTAC 59.749 52.174 1.30 0.00 0.00 3.67
1181 4392 2.303175 GGGAGTAGCTCTTGAGATCGT 58.697 52.381 1.30 0.00 0.00 3.73
1182 4393 2.293122 CTGGGAGTAGCTCTTGAGATCG 59.707 54.545 1.30 0.00 0.00 3.69
1184 4395 3.678965 TCTGGGAGTAGCTCTTGAGAT 57.321 47.619 1.30 0.00 0.00 2.75
1186 4397 3.096092 AGTTCTGGGAGTAGCTCTTGAG 58.904 50.000 0.00 0.00 0.00 3.02
1188 4399 3.674682 CGAAGTTCTGGGAGTAGCTCTTG 60.675 52.174 0.56 0.00 0.00 3.02
1190 4401 2.096248 CGAAGTTCTGGGAGTAGCTCT 58.904 52.381 0.56 0.00 0.00 4.09
1191 4402 2.093106 TCGAAGTTCTGGGAGTAGCTC 58.907 52.381 0.56 0.00 0.00 4.09
1192 4403 1.819903 GTCGAAGTTCTGGGAGTAGCT 59.180 52.381 0.56 0.00 0.00 3.32
1193 4404 1.467713 CGTCGAAGTTCTGGGAGTAGC 60.468 57.143 0.56 0.00 0.00 3.58
1194 4405 2.082231 TCGTCGAAGTTCTGGGAGTAG 58.918 52.381 0.56 0.00 0.00 2.57
1195 4406 2.189594 TCGTCGAAGTTCTGGGAGTA 57.810 50.000 0.56 0.00 0.00 2.59
1196 4407 1.202582 CATCGTCGAAGTTCTGGGAGT 59.797 52.381 0.00 0.00 0.00 3.85
1197 4408 1.469940 CCATCGTCGAAGTTCTGGGAG 60.470 57.143 0.00 0.00 0.00 4.30
1198 4409 0.530744 CCATCGTCGAAGTTCTGGGA 59.469 55.000 0.00 0.00 0.00 4.37
1200 4411 1.084370 GGCCATCGTCGAAGTTCTGG 61.084 60.000 0.00 2.96 0.00 3.86
1201 4412 0.108615 AGGCCATCGTCGAAGTTCTG 60.109 55.000 5.01 0.00 0.00 3.02
1202 4413 0.173708 GAGGCCATCGTCGAAGTTCT 59.826 55.000 5.01 0.00 0.00 3.01
1203 4414 2.666989 GAGGCCATCGTCGAAGTTC 58.333 57.895 5.01 0.00 0.00 3.01
1204 4415 4.913126 GAGGCCATCGTCGAAGTT 57.087 55.556 5.01 0.00 0.00 2.66
1213 4424 4.554036 GGCAGGGACGAGGCCATC 62.554 72.222 5.01 0.00 46.92 3.51
1225 4436 3.854669 CTAGAGGCGGTGGGCAGG 61.855 72.222 0.00 0.00 46.16 4.85
1228 4439 4.096003 TTGCTAGAGGCGGTGGGC 62.096 66.667 0.00 0.00 45.43 5.36
1233 4444 2.125106 GGGTGTTGCTAGAGGCGG 60.125 66.667 0.00 0.00 45.43 6.13
1235 4446 2.820037 GCGGGTGTTGCTAGAGGC 60.820 66.667 0.00 0.00 42.22 4.70
1237 4448 1.016130 CACTGCGGGTGTTGCTAGAG 61.016 60.000 0.00 0.00 40.79 2.43
1247 4458 0.759346 AAGAAGAAGACACTGCGGGT 59.241 50.000 0.00 0.00 0.00 5.28
1249 4460 2.447244 AGAAGAAGAAGACACTGCGG 57.553 50.000 0.00 0.00 0.00 5.69
1250 4461 3.648009 AGAAGAAGAAGAAGACACTGCG 58.352 45.455 0.00 0.00 0.00 5.18
1253 4464 7.360113 AGAAGAAGAAGAAGAAGAAGACACT 57.640 36.000 0.00 0.00 0.00 3.55
1254 4465 7.926018 AGAAGAAGAAGAAGAAGAAGAAGACAC 59.074 37.037 0.00 0.00 0.00 3.67
1255 4466 8.017418 AGAAGAAGAAGAAGAAGAAGAAGACA 57.983 34.615 0.00 0.00 0.00 3.41
1256 4467 8.887036 AAGAAGAAGAAGAAGAAGAAGAAGAC 57.113 34.615 0.00 0.00 0.00 3.01
1257 4468 8.923270 AGAAGAAGAAGAAGAAGAAGAAGAAGA 58.077 33.333 0.00 0.00 0.00 2.87
1259 4470 9.541143 GAAGAAGAAGAAGAAGAAGAAGAAGAA 57.459 33.333 0.00 0.00 0.00 2.52
1260 4471 8.923270 AGAAGAAGAAGAAGAAGAAGAAGAAGA 58.077 33.333 0.00 0.00 0.00 2.87
1262 4473 9.541143 GAAGAAGAAGAAGAAGAAGAAGAAGAA 57.459 33.333 0.00 0.00 0.00 2.52
1266 4477 8.923270 AGAAGAAGAAGAAGAAGAAGAAGAAGA 58.077 33.333 0.00 0.00 0.00 2.87
1385 4663 4.583073 ACACTGGGTATTTTCCAACTCAAC 59.417 41.667 0.00 0.00 33.36 3.18
1524 4807 4.283978 TGCTGAAATTCCATTCCATTGTGT 59.716 37.500 0.00 0.00 0.00 3.72
1538 4821 7.465781 GCGGCATAAACATAAATTGCTGAAATT 60.466 33.333 6.24 0.00 41.18 1.82
1644 4931 3.926616 TCAAACAGCTTAGCTACAGACC 58.073 45.455 6.35 0.00 36.40 3.85
1647 4934 5.525012 TGCATATCAAACAGCTTAGCTACAG 59.475 40.000 6.35 0.00 36.40 2.74
1820 5108 2.494059 CCTGAACATTCTGGTCACGTT 58.506 47.619 8.90 0.00 39.52 3.99
1878 5168 0.250338 GTAAGGATGGATGTCGGCCC 60.250 60.000 0.00 0.00 0.00 5.80
1885 5175 6.106648 TGATGCTTCTAGTAAGGATGGATG 57.893 41.667 11.62 0.00 0.00 3.51
2045 5344 9.696917 CCTCTTAACAATCAAGCAAATAACTTT 57.303 29.630 0.00 0.00 0.00 2.66


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

AutoCloner maintained by Alex Coulton.