Multiple sequence alignment - TraesCS1A01G119200

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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 TraesCS1A01G119200 chr1A 100.000 2273 0 0 1 2273 129722933 129725205 0.000000e+00 4198.0
1 TraesCS1A01G119200 chr5B 91.486 1433 107 10 3 1431 341778014 341779435 0.000000e+00 1956.0
2 TraesCS1A01G119200 chr5B 90.545 550 46 5 886 1433 341692493 341693038 0.000000e+00 723.0
3 TraesCS1A01G119200 chr5A 89.477 1416 102 29 1 1402 308412753 308411371 0.000000e+00 1746.0
4 TraesCS1A01G119200 chr5A 88.858 1418 107 31 1 1402 308388335 308386953 0.000000e+00 1696.0
5 TraesCS1A01G119200 chr2B 93.822 874 51 3 1333 2205 333420614 333421485 0.000000e+00 1312.0
6 TraesCS1A01G119200 chr2B 89.018 1029 92 14 263 1283 538083285 538084300 0.000000e+00 1254.0
7 TraesCS1A01G119200 chr2B 90.326 951 80 10 366 1308 538094933 538095879 0.000000e+00 1236.0
8 TraesCS1A01G119200 chr2B 84.507 568 73 14 1645 2205 457248322 457247763 4.270000e-152 547.0
9 TraesCS1A01G119200 chr2B 84.183 569 76 13 1645 2207 457238960 457238400 7.140000e-150 540.0
10 TraesCS1A01G119200 chr2B 85.829 374 46 3 5 377 353189119 353189486 7.610000e-105 390.0
11 TraesCS1A01G119200 chr2B 86.479 355 40 6 5 353 353181459 353181811 1.270000e-102 383.0
12 TraesCS1A01G119200 chr2B 84.974 386 49 4 1 385 592248184 592248561 1.270000e-102 383.0
13 TraesCS1A01G119200 chr4B 89.459 1053 85 16 268 1308 426498117 426497079 0.000000e+00 1306.0
14 TraesCS1A01G119200 chr4B 88.963 1051 93 14 268 1308 426491180 426490143 0.000000e+00 1277.0
15 TraesCS1A01G119200 chr4B 87.462 981 82 34 1253 2205 326647866 326648833 0.000000e+00 1092.0
16 TraesCS1A01G119200 chr4B 85.913 646 68 13 5 641 213885502 213886133 0.000000e+00 667.0
17 TraesCS1A01G119200 chr4B 85.915 639 69 12 10 641 213893177 213893801 0.000000e+00 662.0
18 TraesCS1A01G119200 chr4B 86.032 315 39 5 5 317 310527521 310527210 1.300000e-87 333.0
19 TraesCS1A01G119200 chr4B 83.799 358 48 6 26 380 333369153 333368803 4.680000e-87 331.0
20 TraesCS1A01G119200 chr4B 83.616 354 48 6 26 377 333348510 333348165 7.830000e-85 324.0
21 TraesCS1A01G119200 chr4B 84.566 311 45 3 5 314 199159573 199159265 2.840000e-79 305.0
22 TraesCS1A01G119200 chr4B 83.117 154 23 2 1 153 215333076 215333227 1.090000e-28 137.0
23 TraesCS1A01G119200 chr4B 83.333 84 6 3 302 385 310527205 310527130 1.130000e-08 71.3
24 TraesCS1A01G119200 chr3B 89.333 1050 90 13 268 1308 371422488 371421452 0.000000e+00 1299.0
25 TraesCS1A01G119200 chr3B 88.476 1050 97 17 268 1308 371414835 371413801 0.000000e+00 1247.0
26 TraesCS1A01G119200 chr3B 93.301 627 33 7 1329 1954 698351805 698352423 0.000000e+00 917.0
27 TraesCS1A01G119200 chr6B 93.174 879 53 7 1332 2208 561500667 561499794 0.000000e+00 1284.0
28 TraesCS1A01G119200 chr6B 93.088 868 53 6 1332 2197 561492657 561491795 0.000000e+00 1264.0
29 TraesCS1A01G119200 chr6B 94.008 751 37 5 1461 2206 400670033 400670780 0.000000e+00 1131.0
30 TraesCS1A01G119200 chr6B 83.831 402 51 10 3 400 288229453 288229844 9.920000e-99 370.0
31 TraesCS1A01G119200 chr6B 81.977 172 23 7 1239 1407 464496701 464496535 3.040000e-29 139.0
32 TraesCS1A01G119200 chr7B 88.457 927 68 31 1302 2208 430125343 430124436 0.000000e+00 1083.0
33 TraesCS1A01G119200 chr7B 87.823 928 66 32 1302 2209 430117367 430116467 0.000000e+00 1044.0
34 TraesCS1A01G119200 chr2A 90.032 632 54 9 1333 1962 612281890 612281266 0.000000e+00 809.0
35 TraesCS1A01G119200 chr3D 87.952 332 36 4 23 353 220295409 220295081 2.740000e-104 388.0
36 TraesCS1A01G119200 chr3D 87.915 331 35 5 23 352 220283557 220283231 3.540000e-103 385.0
37 TraesCS1A01G119200 chr3D 95.588 68 3 0 2206 2273 184389980 184389913 2.390000e-20 110.0
38 TraesCS1A01G119200 chr3D 95.588 68 3 0 2206 2273 223296300 223296233 2.390000e-20 110.0
39 TraesCS1A01G119200 chr2D 87.613 331 37 4 23 352 323549424 323549751 4.580000e-102 381.0
40 TraesCS1A01G119200 chr2D 87.613 331 37 4 23 352 323558044 323558371 4.580000e-102 381.0
41 TraesCS1A01G119200 chr2D 95.588 68 3 0 2206 2273 160315683 160315750 2.390000e-20 110.0
42 TraesCS1A01G119200 chr7D 87.048 332 39 4 23 353 73845065 73844737 2.760000e-99 372.0
43 TraesCS1A01G119200 chr7D 85.843 332 38 5 23 353 482263165 482263488 6.010000e-91 344.0
44 TraesCS1A01G119200 chr7A 98.529 68 1 0 2206 2273 369552953 369553020 1.100000e-23 121.0
45 TraesCS1A01G119200 chr5D 95.588 68 3 0 2206 2273 114630781 114630714 2.390000e-20 110.0
46 TraesCS1A01G119200 chr1D 95.588 68 3 0 2206 2273 115297700 115297633 2.390000e-20 110.0
47 TraesCS1A01G119200 chr1D 95.588 68 3 0 2206 2273 128298260 128298193 2.390000e-20 110.0
48 TraesCS1A01G119200 chr1B 95.588 68 3 0 2206 2273 452179543 452179610 2.390000e-20 110.0
49 TraesCS1A01G119200 chr1B 95.588 68 3 0 2206 2273 671905017 671905084 2.390000e-20 110.0


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 TraesCS1A01G119200 chr1A 129722933 129725205 2272 False 4198 4198 100.000 1 2273 1 chr1A.!!$F1 2272
1 TraesCS1A01G119200 chr5B 341778014 341779435 1421 False 1956 1956 91.486 3 1431 1 chr5B.!!$F2 1428
2 TraesCS1A01G119200 chr5B 341692493 341693038 545 False 723 723 90.545 886 1433 1 chr5B.!!$F1 547
3 TraesCS1A01G119200 chr5A 308411371 308412753 1382 True 1746 1746 89.477 1 1402 1 chr5A.!!$R2 1401
4 TraesCS1A01G119200 chr5A 308386953 308388335 1382 True 1696 1696 88.858 1 1402 1 chr5A.!!$R1 1401
5 TraesCS1A01G119200 chr2B 333420614 333421485 871 False 1312 1312 93.822 1333 2205 1 chr2B.!!$F1 872
6 TraesCS1A01G119200 chr2B 538083285 538084300 1015 False 1254 1254 89.018 263 1283 1 chr2B.!!$F4 1020
7 TraesCS1A01G119200 chr2B 538094933 538095879 946 False 1236 1236 90.326 366 1308 1 chr2B.!!$F5 942
8 TraesCS1A01G119200 chr2B 457247763 457248322 559 True 547 547 84.507 1645 2205 1 chr2B.!!$R2 560
9 TraesCS1A01G119200 chr2B 457238400 457238960 560 True 540 540 84.183 1645 2207 1 chr2B.!!$R1 562
10 TraesCS1A01G119200 chr4B 426497079 426498117 1038 True 1306 1306 89.459 268 1308 1 chr4B.!!$R5 1040
11 TraesCS1A01G119200 chr4B 426490143 426491180 1037 True 1277 1277 88.963 268 1308 1 chr4B.!!$R4 1040
12 TraesCS1A01G119200 chr4B 326647866 326648833 967 False 1092 1092 87.462 1253 2205 1 chr4B.!!$F4 952
13 TraesCS1A01G119200 chr4B 213885502 213886133 631 False 667 667 85.913 5 641 1 chr4B.!!$F1 636
14 TraesCS1A01G119200 chr4B 213893177 213893801 624 False 662 662 85.915 10 641 1 chr4B.!!$F2 631
15 TraesCS1A01G119200 chr3B 371421452 371422488 1036 True 1299 1299 89.333 268 1308 1 chr3B.!!$R2 1040
16 TraesCS1A01G119200 chr3B 371413801 371414835 1034 True 1247 1247 88.476 268 1308 1 chr3B.!!$R1 1040
17 TraesCS1A01G119200 chr3B 698351805 698352423 618 False 917 917 93.301 1329 1954 1 chr3B.!!$F1 625
18 TraesCS1A01G119200 chr6B 561499794 561500667 873 True 1284 1284 93.174 1332 2208 1 chr6B.!!$R3 876
19 TraesCS1A01G119200 chr6B 561491795 561492657 862 True 1264 1264 93.088 1332 2197 1 chr6B.!!$R2 865
20 TraesCS1A01G119200 chr6B 400670033 400670780 747 False 1131 1131 94.008 1461 2206 1 chr6B.!!$F2 745
21 TraesCS1A01G119200 chr7B 430124436 430125343 907 True 1083 1083 88.457 1302 2208 1 chr7B.!!$R2 906
22 TraesCS1A01G119200 chr7B 430116467 430117367 900 True 1044 1044 87.823 1302 2209 1 chr7B.!!$R1 907
23 TraesCS1A01G119200 chr2A 612281266 612281890 624 True 809 809 90.032 1333 1962 1 chr2A.!!$R1 629

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
70 73 0.886043 TTCTGCTGTTCATGCGCTGT 60.886 50.0 9.73 0.0 0.0 4.4 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1902 1961 0.03759 AAGCCACGCCCTTGTATCAA 59.962 50.0 0.0 0.0 0.0 2.57 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
52 55 1.709994 GGATTCGATCCCAGGGCCTT 61.710 60.000 1.32 0.00 43.88 4.35
62 65 1.073722 CAGGGCCTTCTGCTGTTCA 59.926 57.895 1.32 0.00 40.92 3.18
70 73 0.886043 TTCTGCTGTTCATGCGCTGT 60.886 50.000 9.73 0.00 0.00 4.40
106 111 2.301346 ACTGACTTGGTTGGCTGAAAG 58.699 47.619 0.00 0.00 0.00 2.62
164 169 6.423001 GCTTGATCTGAGTGAAGCAAAAATTT 59.577 34.615 8.00 0.00 40.47 1.82
183 188 3.577649 TTGTGAAAACAAAAGGTGCGA 57.422 38.095 0.00 0.00 0.00 5.10
333 339 2.755650 AGAAACACGAACAGGTAGCAG 58.244 47.619 0.00 0.00 0.00 4.24
347 353 5.067805 ACAGGTAGCAGAAAGGAAAAACAAG 59.932 40.000 0.00 0.00 0.00 3.16
348 354 4.584743 AGGTAGCAGAAAGGAAAAACAAGG 59.415 41.667 0.00 0.00 0.00 3.61
349 355 4.262036 GGTAGCAGAAAGGAAAAACAAGGG 60.262 45.833 0.00 0.00 0.00 3.95
350 356 2.700371 AGCAGAAAGGAAAAACAAGGGG 59.300 45.455 0.00 0.00 0.00 4.79
351 357 2.224281 GCAGAAAGGAAAAACAAGGGGG 60.224 50.000 0.00 0.00 0.00 5.40
770 779 1.382420 AAGGTGCAACAAAGGGGCA 60.382 52.632 3.64 0.00 39.98 5.36
1189 1206 3.147595 CCGGCTCCTCGTCCATGA 61.148 66.667 0.00 0.00 0.00 3.07
1210 1227 0.391661 GATCAGGAGCGAGGCAACAA 60.392 55.000 0.00 0.00 41.41 2.83
1220 1237 1.795170 GAGGCAACAAAGCGCTTGGA 61.795 55.000 30.92 0.00 39.56 3.53
1223 1240 0.318955 GCAACAAAGCGCTTGGATGT 60.319 50.000 30.92 23.94 39.56 3.06
1576 1629 5.187576 CCCCTGCCTCAATTTATTTTCTTCA 59.812 40.000 0.00 0.00 0.00 3.02
1592 1645 5.458041 TTCTTCAAATTTCTTCAGGCAGG 57.542 39.130 0.00 0.00 0.00 4.85
1607 1661 4.709397 TCAGGCAGGAAACAAAGAGAAAAA 59.291 37.500 0.00 0.00 0.00 1.94
1608 1662 5.045872 CAGGCAGGAAACAAAGAGAAAAAG 58.954 41.667 0.00 0.00 0.00 2.27
1617 1671 4.218312 ACAAAGAGAAAAAGCACAGGGAT 58.782 39.130 0.00 0.00 0.00 3.85
1693 1749 6.705302 TGCACCATTTAATAAATTGGCTTGA 58.295 32.000 11.47 0.00 38.96 3.02
1756 1812 4.121317 TGCAAACTTGAGCCATTTTTCAG 58.879 39.130 0.00 0.00 0.00 3.02
1779 1835 4.998033 GTCCAACCAAAACAACTCCAAAAA 59.002 37.500 0.00 0.00 0.00 1.94
1902 1961 2.261729 GAAGAAGGAAGGGAGAGGTGT 58.738 52.381 0.00 0.00 0.00 4.16
1915 1975 1.066143 AGAGGTGTTGATACAAGGGCG 60.066 52.381 0.00 0.00 35.69 6.13
1946 2010 5.405279 AGAGAGAGATATCAAGGGCTGATT 58.595 41.667 5.32 0.00 42.46 2.57
1973 2037 2.030007 ACAACATGAAGAATGCAACCCG 60.030 45.455 0.00 0.00 40.22 5.28
2011 2075 8.739039 TGATGAAATGTAAAATGACAAGGGTAG 58.261 33.333 0.00 0.00 31.83 3.18
2077 2141 7.502120 AATATATGACAAGGCACTCAACATC 57.498 36.000 0.00 0.00 38.49 3.06
2209 2275 2.594303 TTGGGGCGTCACAGCAAG 60.594 61.111 0.00 0.00 39.27 4.01
2210 2276 4.641645 TGGGGCGTCACAGCAAGG 62.642 66.667 0.00 0.00 39.27 3.61
2225 2291 3.284323 GCAAGGCTGCTATCATTGATG 57.716 47.619 9.46 1.24 45.74 3.07
2226 2292 2.882761 GCAAGGCTGCTATCATTGATGA 59.117 45.455 9.46 0.00 45.74 2.92
2227 2293 3.317149 GCAAGGCTGCTATCATTGATGAA 59.683 43.478 9.46 0.00 45.74 2.57
2228 2294 4.556898 GCAAGGCTGCTATCATTGATGAAG 60.557 45.833 9.46 4.90 45.74 3.02
2229 2295 3.752665 AGGCTGCTATCATTGATGAAGG 58.247 45.455 9.46 0.00 40.69 3.46
2230 2296 2.228343 GGCTGCTATCATTGATGAAGGC 59.772 50.000 9.46 10.97 40.69 4.35
2231 2297 2.882761 GCTGCTATCATTGATGAAGGCA 59.117 45.455 9.46 17.04 41.96 4.75
2232 2298 3.304525 GCTGCTATCATTGATGAAGGCAC 60.305 47.826 9.46 10.99 40.57 5.01
2233 2299 4.135306 CTGCTATCATTGATGAAGGCACT 58.865 43.478 9.46 0.00 40.57 4.40
2234 2300 4.132336 TGCTATCATTGATGAAGGCACTC 58.868 43.478 9.46 0.00 40.57 3.51
2235 2301 3.186001 GCTATCATTGATGAAGGCACTCG 59.814 47.826 9.46 0.00 38.49 4.18
2236 2302 2.768253 TCATTGATGAAGGCACTCGT 57.232 45.000 0.00 0.00 38.49 4.18
2237 2303 2.621338 TCATTGATGAAGGCACTCGTC 58.379 47.619 2.73 2.73 38.49 4.20
2238 2304 1.667724 CATTGATGAAGGCACTCGTCC 59.332 52.381 6.42 0.00 38.49 4.79
2239 2305 0.684535 TTGATGAAGGCACTCGTCCA 59.315 50.000 6.42 0.00 38.49 4.02
2240 2306 0.904649 TGATGAAGGCACTCGTCCAT 59.095 50.000 6.42 0.00 38.49 3.41
2241 2307 1.278985 TGATGAAGGCACTCGTCCATT 59.721 47.619 6.42 0.00 38.49 3.16
2242 2308 1.667724 GATGAAGGCACTCGTCCATTG 59.332 52.381 0.00 0.00 38.49 2.82
2243 2309 0.321564 TGAAGGCACTCGTCCATTGG 60.322 55.000 0.00 0.00 38.49 3.16
2244 2310 0.036388 GAAGGCACTCGTCCATTGGA 60.036 55.000 0.00 0.00 38.49 3.53
2245 2311 0.620556 AAGGCACTCGTCCATTGGAT 59.379 50.000 9.01 0.00 38.49 3.41
2246 2312 0.107508 AGGCACTCGTCCATTGGATG 60.108 55.000 17.44 17.44 39.89 3.51
2247 2313 4.907044 AAGGCACTCGTCCATTGGATGG 62.907 54.545 21.99 15.58 46.84 3.51
2259 2325 4.852134 CATTGGATGGACAGTTTCACAA 57.148 40.909 0.00 0.00 0.00 3.33
2260 2326 5.199024 CATTGGATGGACAGTTTCACAAA 57.801 39.130 0.00 0.00 0.00 2.83
2261 2327 4.916983 TTGGATGGACAGTTTCACAAAG 57.083 40.909 0.00 0.00 0.00 2.77
2262 2328 3.897239 TGGATGGACAGTTTCACAAAGT 58.103 40.909 0.00 0.00 0.00 2.66
2263 2329 4.277476 TGGATGGACAGTTTCACAAAGTT 58.723 39.130 0.00 0.00 0.00 2.66
2264 2330 4.097741 TGGATGGACAGTTTCACAAAGTTG 59.902 41.667 0.00 0.00 0.00 3.16
2265 2331 3.502191 TGGACAGTTTCACAAAGTTGC 57.498 42.857 0.00 0.00 0.00 4.17
2266 2332 2.822561 TGGACAGTTTCACAAAGTTGCA 59.177 40.909 0.00 0.00 0.00 4.08
2267 2333 3.446873 TGGACAGTTTCACAAAGTTGCAT 59.553 39.130 0.00 0.00 0.00 3.96
2268 2334 4.044426 GGACAGTTTCACAAAGTTGCATC 58.956 43.478 0.00 0.00 0.00 3.91
2269 2335 4.202050 GGACAGTTTCACAAAGTTGCATCT 60.202 41.667 0.00 0.00 0.00 2.90
2270 2336 5.329035 ACAGTTTCACAAAGTTGCATCTT 57.671 34.783 4.13 4.13 0.00 2.40
2271 2337 6.449635 ACAGTTTCACAAAGTTGCATCTTA 57.550 33.333 10.37 0.00 0.00 2.10
2272 2338 7.042797 ACAGTTTCACAAAGTTGCATCTTAT 57.957 32.000 10.37 0.01 0.00 1.73
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
3 4 6.928520 AGCCTCAATTATTTTCCTCTTTGTG 58.071 36.000 0.00 0.00 0.00 3.33
7 8 5.831103 TGGAGCCTCAATTATTTTCCTCTT 58.169 37.500 0.00 0.00 0.00 2.85
17 20 3.496692 CGAATCCCATGGAGCCTCAATTA 60.497 47.826 15.22 0.00 34.05 1.40
52 55 1.301953 ACAGCGCATGAACAGCAGA 60.302 52.632 11.47 0.00 0.00 4.26
62 65 1.022982 CACTGGTCATCACAGCGCAT 61.023 55.000 11.47 0.00 39.55 4.73
70 73 3.399234 AGTAGCCCACTGGTCATCA 57.601 52.632 0.00 0.00 35.62 3.07
95 99 4.219288 AGTCAATTCCATCTTTCAGCCAAC 59.781 41.667 0.00 0.00 0.00 3.77
106 111 5.183713 TGTTTCATGTCCAGTCAATTCCATC 59.816 40.000 0.00 0.00 0.00 3.51
164 169 2.416162 GGTCGCACCTTTTGTTTTCACA 60.416 45.455 0.00 0.00 34.73 3.58
183 188 1.076014 GGGTTCAAATCCCCACGGT 59.924 57.895 0.00 0.00 40.88 4.83
239 244 1.962807 CCACAAGGAATGTTTCAGCCA 59.037 47.619 0.00 0.00 41.46 4.75
290 295 2.040178 AGTTCAGTTCAGTTCGGGAGT 58.960 47.619 0.00 0.00 0.00 3.85
475 482 2.682136 TCCGTCCGAAGCCATGGA 60.682 61.111 18.40 0.00 0.00 3.41
942 954 4.767255 GACTCCAGCAGCACCCCG 62.767 72.222 0.00 0.00 0.00 5.73
1151 1164 1.038130 GCTCTCCTCTGGCGTAGGAA 61.038 60.000 8.75 1.07 42.56 3.36
1189 1206 2.351244 TTGCCTCGCTCCTGATCGT 61.351 57.895 0.00 0.00 0.00 3.73
1210 1227 0.618458 TAAGGGACATCCAAGCGCTT 59.382 50.000 18.98 18.98 38.23 4.68
1220 1237 1.602237 CCACGCAGGTAAGGGACAT 59.398 57.895 0.00 0.00 0.00 3.06
1223 1240 4.077184 CGCCACGCAGGTAAGGGA 62.077 66.667 0.00 0.00 40.61 4.20
1498 1520 1.829533 CAGCCCAGCAACAACCACT 60.830 57.895 0.00 0.00 0.00 4.00
1576 1629 5.612725 TTGTTTCCTGCCTGAAGAAATTT 57.387 34.783 0.00 0.00 32.54 1.82
1592 1645 4.805719 CCCTGTGCTTTTTCTCTTTGTTTC 59.194 41.667 0.00 0.00 0.00 2.78
1607 1661 1.005215 CCTCTCCAAAATCCCTGTGCT 59.995 52.381 0.00 0.00 0.00 4.40
1608 1662 1.467920 CCTCTCCAAAATCCCTGTGC 58.532 55.000 0.00 0.00 0.00 4.57
1617 1671 1.909302 CAGCCTACTCCCTCTCCAAAA 59.091 52.381 0.00 0.00 0.00 2.44
1735 1791 4.122046 ACTGAAAAATGGCTCAAGTTTGC 58.878 39.130 0.00 0.00 0.00 3.68
1756 1812 3.878160 TTGGAGTTGTTTTGGTTGGAC 57.122 42.857 0.00 0.00 0.00 4.02
1902 1961 0.037590 AAGCCACGCCCTTGTATCAA 59.962 50.000 0.00 0.00 0.00 2.57
1915 1975 5.509501 CCTTGATATCTCTCTCTCAAGCCAC 60.510 48.000 3.98 0.00 41.97 5.01
1946 2010 3.631227 TGCATTCTTCATGTTGTGTGTGA 59.369 39.130 0.00 0.00 34.98 3.58
2011 2075 6.845302 TCATCTCACTTGTTATGTTGCATTC 58.155 36.000 0.00 0.00 0.00 2.67
2077 2141 9.181061 TCATTCCTATATGTTTATGCCATGATG 57.819 33.333 0.00 0.00 0.00 3.07
2128 2193 4.416620 CGTGTGGTTATTGTGTTTGTTGT 58.583 39.130 0.00 0.00 0.00 3.32
2209 2275 2.228343 GCCTTCATCAATGATAGCAGCC 59.772 50.000 0.00 0.00 36.56 4.85
2210 2276 2.882761 TGCCTTCATCAATGATAGCAGC 59.117 45.455 11.36 0.00 39.06 5.25
2211 2277 4.135306 AGTGCCTTCATCAATGATAGCAG 58.865 43.478 14.32 1.51 42.24 4.24
2212 2278 4.132336 GAGTGCCTTCATCAATGATAGCA 58.868 43.478 11.36 11.36 40.58 3.49
2213 2279 3.186001 CGAGTGCCTTCATCAATGATAGC 59.814 47.826 0.00 7.47 36.56 2.97
2214 2280 4.375272 ACGAGTGCCTTCATCAATGATAG 58.625 43.478 0.00 0.00 36.56 2.08
2215 2281 4.371786 GACGAGTGCCTTCATCAATGATA 58.628 43.478 0.00 0.00 36.56 2.15
2216 2282 3.201290 GACGAGTGCCTTCATCAATGAT 58.799 45.455 0.00 0.00 36.56 2.45
2217 2283 2.621338 GACGAGTGCCTTCATCAATGA 58.379 47.619 0.00 0.00 34.44 2.57
2218 2284 1.667724 GGACGAGTGCCTTCATCAATG 59.332 52.381 0.00 0.00 0.00 2.82
2219 2285 1.278985 TGGACGAGTGCCTTCATCAAT 59.721 47.619 0.00 0.00 0.00 2.57
2220 2286 0.684535 TGGACGAGTGCCTTCATCAA 59.315 50.000 0.00 0.00 0.00 2.57
2221 2287 0.904649 ATGGACGAGTGCCTTCATCA 59.095 50.000 0.00 0.00 0.00 3.07
2222 2288 1.667724 CAATGGACGAGTGCCTTCATC 59.332 52.381 0.00 0.00 0.00 2.92
2223 2289 1.679944 CCAATGGACGAGTGCCTTCAT 60.680 52.381 0.00 0.00 0.00 2.57
2224 2290 0.321564 CCAATGGACGAGTGCCTTCA 60.322 55.000 0.00 0.00 0.00 3.02
2225 2291 0.036388 TCCAATGGACGAGTGCCTTC 60.036 55.000 0.00 0.00 0.00 3.46
2226 2292 0.620556 ATCCAATGGACGAGTGCCTT 59.379 50.000 3.09 0.00 32.98 4.35
2227 2293 0.107508 CATCCAATGGACGAGTGCCT 60.108 55.000 3.09 0.00 32.98 4.75
2228 2294 2.397751 CATCCAATGGACGAGTGCC 58.602 57.895 3.09 0.00 32.98 5.01
2237 2303 3.156293 TGTGAAACTGTCCATCCAATGG 58.844 45.455 0.00 0.00 45.28 3.16
2238 2304 4.852134 TTGTGAAACTGTCCATCCAATG 57.148 40.909 0.00 0.00 38.04 2.82
2239 2305 4.895297 ACTTTGTGAAACTGTCCATCCAAT 59.105 37.500 0.00 0.00 38.04 3.16
2240 2306 4.277476 ACTTTGTGAAACTGTCCATCCAA 58.723 39.130 0.00 0.00 38.04 3.53
2241 2307 3.897239 ACTTTGTGAAACTGTCCATCCA 58.103 40.909 0.00 0.00 38.04 3.41
2242 2308 4.610945 CAACTTTGTGAAACTGTCCATCC 58.389 43.478 0.00 0.00 38.04 3.51
2243 2309 4.044426 GCAACTTTGTGAAACTGTCCATC 58.956 43.478 0.00 0.00 38.04 3.51
2244 2310 3.446873 TGCAACTTTGTGAAACTGTCCAT 59.553 39.130 0.00 0.00 38.04 3.41
2245 2311 2.822561 TGCAACTTTGTGAAACTGTCCA 59.177 40.909 0.00 0.00 38.04 4.02
2246 2312 3.502191 TGCAACTTTGTGAAACTGTCC 57.498 42.857 0.00 0.00 38.04 4.02
2247 2313 4.925068 AGATGCAACTTTGTGAAACTGTC 58.075 39.130 0.00 0.00 38.04 3.51
2248 2314 4.989279 AGATGCAACTTTGTGAAACTGT 57.011 36.364 0.00 0.00 38.04 3.55


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

AutoCloner maintained by Alex Coulton.