Multiple sequence alignment - TraesCS6B01G024800

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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 TraesCS6B01G024800 chr6B 100.000 2687 0 0 1 2687 15116204 15113518 0.000000e+00 4963
1 TraesCS6B01G024800 chr6B 93.641 1714 76 5 2 1688 21458164 21459871 0.000000e+00 2531
2 TraesCS6B01G024800 chr6B 78.520 1122 211 20 583 1688 14323583 14324690 0.000000e+00 710
3 TraesCS6B01G024800 chr6B 77.267 827 155 13 1049 1847 65158559 65157738 3.150000e-124 455
4 TraesCS6B01G024800 chr6B 77.188 754 155 15 944 1689 52573770 52573026 8.890000e-115 424
5 TraesCS6B01G024800 chr6B 77.264 497 69 27 1998 2475 15749068 15748597 4.440000e-63 252
6 TraesCS6B01G024800 chr6B 80.970 268 34 10 1510 1760 670582035 670581768 2.110000e-46 196
7 TraesCS6B01G024800 chr6D 89.961 1524 100 22 364 1847 8147359 8145849 0.000000e+00 1917
8 TraesCS6B01G024800 chr6D 87.417 1359 108 24 508 1820 8249768 8251109 0.000000e+00 1504
9 TraesCS6B01G024800 chr6D 83.782 1338 186 16 364 1688 8245319 8246638 0.000000e+00 1240
10 TraesCS6B01G024800 chr6D 79.964 1113 200 20 583 1688 7424008 7422912 0.000000e+00 798
11 TraesCS6B01G024800 chr6D 77.265 1214 240 26 496 1688 7477202 7476004 0.000000e+00 680
12 TraesCS6B01G024800 chr6D 77.444 1197 229 26 514 1688 9548229 9547052 0.000000e+00 676
13 TraesCS6B01G024800 chr6D 89.824 511 34 8 1843 2346 8145814 8145315 8.110000e-180 640
14 TraesCS6B01G024800 chr6D 92.097 329 17 5 1 327 8244921 8245242 3.150000e-124 455
15 TraesCS6B01G024800 chr6D 89.503 362 33 5 1843 2200 8251166 8251526 1.130000e-123 453
16 TraesCS6B01G024800 chr6D 89.583 336 24 1 2363 2687 8145334 8144999 1.490000e-112 416
17 TraesCS6B01G024800 chr6D 79.545 176 31 4 2030 2200 7680878 7681053 1.310000e-23 121
18 TraesCS6B01G024800 chr6A 88.150 1519 115 28 376 1847 8624655 8623155 0.000000e+00 1748
19 TraesCS6B01G024800 chr6A 87.591 1507 126 23 369 1838 8712096 8713578 0.000000e+00 1690
20 TraesCS6B01G024800 chr6A 77.896 1217 215 36 502 1688 15873219 15872027 0.000000e+00 708
21 TraesCS6B01G024800 chr6A 92.949 312 19 3 1843 2152 8713621 8713931 4.080000e-123 451
22 TraesCS6B01G024800 chr6A 84.615 481 42 12 1843 2313 8623120 8622662 1.470000e-122 449
23 TraesCS6B01G024800 chr6A 85.776 232 21 8 69 299 8625045 8624825 4.470000e-58 235
24 TraesCS6B01G024800 chr6A 91.241 137 4 3 1 136 8711774 8711903 2.130000e-41 180
25 TraesCS6B01G024800 chr4A 78.200 1211 220 35 505 1688 667380016 667381209 0.000000e+00 734
26 TraesCS6B01G024800 chr2B 76.812 1380 241 45 530 1847 89494616 89495978 0.000000e+00 702
27 TraesCS6B01G024800 chr2B 76.774 310 37 11 1573 1847 709454739 709454430 1.000000e-29 141
28 TraesCS6B01G024800 chr2B 81.818 176 13 6 1686 1842 70988965 70989140 2.170000e-26 130
29 TraesCS6B01G024800 chr7A 78.185 1036 196 21 671 1688 162577976 162578999 3.770000e-178 634
30 TraesCS6B01G024800 chr5B 74.584 842 162 28 1049 1847 621235474 621234642 3.340000e-84 322
31 TraesCS6B01G024800 chr5D 73.969 849 155 40 1049 1847 499862079 499861247 1.570000e-72 283
32 TraesCS6B01G024800 chr1D 78.603 229 39 7 2061 2281 416354449 416354223 2.790000e-30 143
33 TraesCS6B01G024800 chr5A 77.055 292 28 20 1595 1849 624202193 624201904 6.040000e-27 132


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 TraesCS6B01G024800 chr6B 15113518 15116204 2686 True 4963.000000 4963 100.000000 1 2687 1 chr6B.!!$R1 2686
1 TraesCS6B01G024800 chr6B 21458164 21459871 1707 False 2531.000000 2531 93.641000 2 1688 1 chr6B.!!$F2 1686
2 TraesCS6B01G024800 chr6B 14323583 14324690 1107 False 710.000000 710 78.520000 583 1688 1 chr6B.!!$F1 1105
3 TraesCS6B01G024800 chr6B 65157738 65158559 821 True 455.000000 455 77.267000 1049 1847 1 chr6B.!!$R4 798
4 TraesCS6B01G024800 chr6B 52573026 52573770 744 True 424.000000 424 77.188000 944 1689 1 chr6B.!!$R3 745
5 TraesCS6B01G024800 chr6D 8144999 8147359 2360 True 991.000000 1917 89.789333 364 2687 3 chr6D.!!$R4 2323
6 TraesCS6B01G024800 chr6D 8244921 8251526 6605 False 913.000000 1504 88.199750 1 2200 4 chr6D.!!$F2 2199
7 TraesCS6B01G024800 chr6D 7422912 7424008 1096 True 798.000000 798 79.964000 583 1688 1 chr6D.!!$R1 1105
8 TraesCS6B01G024800 chr6D 7476004 7477202 1198 True 680.000000 680 77.265000 496 1688 1 chr6D.!!$R2 1192
9 TraesCS6B01G024800 chr6D 9547052 9548229 1177 True 676.000000 676 77.444000 514 1688 1 chr6D.!!$R3 1174
10 TraesCS6B01G024800 chr6A 8622662 8625045 2383 True 810.666667 1748 86.180333 69 2313 3 chr6A.!!$R2 2244
11 TraesCS6B01G024800 chr6A 8711774 8713931 2157 False 773.666667 1690 90.593667 1 2152 3 chr6A.!!$F1 2151
12 TraesCS6B01G024800 chr6A 15872027 15873219 1192 True 708.000000 708 77.896000 502 1688 1 chr6A.!!$R1 1186
13 TraesCS6B01G024800 chr4A 667380016 667381209 1193 False 734.000000 734 78.200000 505 1688 1 chr4A.!!$F1 1183
14 TraesCS6B01G024800 chr2B 89494616 89495978 1362 False 702.000000 702 76.812000 530 1847 1 chr2B.!!$F2 1317
15 TraesCS6B01G024800 chr7A 162577976 162578999 1023 False 634.000000 634 78.185000 671 1688 1 chr7A.!!$F1 1017
16 TraesCS6B01G024800 chr5B 621234642 621235474 832 True 322.000000 322 74.584000 1049 1847 1 chr5B.!!$R1 798
17 TraesCS6B01G024800 chr5D 499861247 499862079 832 True 283.000000 283 73.969000 1049 1847 1 chr5D.!!$R1 798

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
370 411 0.169894 GTTTGCAAGCAGCCTAGCTC 59.830 55.0 8.58 0.0 45.89 4.09 F
427 561 0.245266 TTATCAGAGGCACGACGCAA 59.755 50.0 0.00 0.0 45.17 4.85 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1321 5830 0.112995 AAAGCAATGCCCACCTCAGA 59.887 50.0 0.0 0.0 0.0 3.27 R
2425 7034 0.674895 ATCCTCGCACAGCTTGGTTC 60.675 55.0 0.0 0.0 0.0 3.62 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
179 182 1.799994 GCCGCTTCAAAATTGTTGCAT 59.200 42.857 0.00 0.00 0.00 3.96
365 406 1.944032 CTTTTGTTTGCAAGCAGCCT 58.056 45.000 15.79 0.00 44.83 4.58
366 407 2.802774 GCTTTTGTTTGCAAGCAGCCTA 60.803 45.455 15.79 0.00 44.18 3.93
367 408 2.798976 TTTGTTTGCAAGCAGCCTAG 57.201 45.000 15.79 0.00 44.83 3.02
368 409 0.314935 TTGTTTGCAAGCAGCCTAGC 59.685 50.000 15.79 0.00 44.83 3.42
370 411 0.169894 GTTTGCAAGCAGCCTAGCTC 59.830 55.000 8.58 0.00 45.89 4.09
371 412 0.962356 TTTGCAAGCAGCCTAGCTCC 60.962 55.000 0.00 0.00 45.89 4.70
373 414 1.818785 GCAAGCAGCCTAGCTCCAG 60.819 63.158 0.00 0.00 45.89 3.86
374 415 1.818785 CAAGCAGCCTAGCTCCAGC 60.819 63.158 0.00 0.00 45.89 4.85
427 561 0.245266 TTATCAGAGGCACGACGCAA 59.755 50.000 0.00 0.00 45.17 4.85
987 5489 3.129813 CCGCTGTACAGTATTACCTGACA 59.870 47.826 23.44 0.00 36.30 3.58
1256 5765 2.482374 GTTGCAGGCTGTCGCATC 59.518 61.111 17.16 3.54 38.10 3.91
1258 5767 3.549900 TTGCAGGCTGTCGCATCCA 62.550 57.895 17.16 0.06 38.10 3.41
1321 5830 6.380079 AGAAGACATTAAGGTGGTCAGATT 57.620 37.500 0.00 0.00 34.04 2.40
1390 5899 1.544825 TAAGGAGAGGCTGCAACGCT 61.545 55.000 0.50 0.00 0.00 5.07
1392 5901 1.079127 GGAGAGGCTGCAACGCTTA 60.079 57.895 0.50 0.00 0.00 3.09
1508 6017 3.882888 CCCCGGTACTACGTTATGAAGTA 59.117 47.826 0.00 0.00 0.00 2.24
1934 6530 9.481340 AAACTTTCCTTTAGATGAAAATCTTGC 57.519 29.630 0.00 0.00 30.65 4.01
1999 6596 1.402613 GTTGCCACACCGTGTTAAACT 59.597 47.619 0.00 0.00 0.00 2.66
2251 6853 7.822658 TGTCCCTTAGCATATTTTGTTAACAC 58.177 34.615 8.07 0.00 29.26 3.32
2277 6879 8.204160 CAGTAAAGTGGTCTTATGTATCATCCA 58.796 37.037 0.00 0.00 33.09 3.41
2279 6881 9.209175 GTAAAGTGGTCTTATGTATCATCCATC 57.791 37.037 0.00 0.00 33.09 3.51
2317 6926 4.956075 AGCTGGAAAGTCAGAAAAGGAAAA 59.044 37.500 0.00 0.00 36.93 2.29
2318 6927 5.068329 AGCTGGAAAGTCAGAAAAGGAAAAG 59.932 40.000 0.00 0.00 36.93 2.27
2325 6934 7.718334 AAGTCAGAAAAGGAAAAGGAAAAGA 57.282 32.000 0.00 0.00 0.00 2.52
2326 6935 7.904558 AGTCAGAAAAGGAAAAGGAAAAGAT 57.095 32.000 0.00 0.00 0.00 2.40
2328 6937 9.072375 AGTCAGAAAAGGAAAAGGAAAAGATAG 57.928 33.333 0.00 0.00 0.00 2.08
2329 6938 7.810282 GTCAGAAAAGGAAAAGGAAAAGATAGC 59.190 37.037 0.00 0.00 0.00 2.97
2330 6939 7.505585 TCAGAAAAGGAAAAGGAAAAGATAGCA 59.494 33.333 0.00 0.00 0.00 3.49
2331 6940 8.309656 CAGAAAAGGAAAAGGAAAAGATAGCAT 58.690 33.333 0.00 0.00 0.00 3.79
2332 6941 9.533831 AGAAAAGGAAAAGGAAAAGATAGCATA 57.466 29.630 0.00 0.00 0.00 3.14
2333 6942 9.794685 GAAAAGGAAAAGGAAAAGATAGCATAG 57.205 33.333 0.00 0.00 0.00 2.23
2334 6943 9.533831 AAAAGGAAAAGGAAAAGATAGCATAGA 57.466 29.630 0.00 0.00 0.00 1.98
2335 6944 9.533831 AAAGGAAAAGGAAAAGATAGCATAGAA 57.466 29.630 0.00 0.00 0.00 2.10
2336 6945 9.706529 AAGGAAAAGGAAAAGATAGCATAGAAT 57.293 29.630 0.00 0.00 0.00 2.40
2337 6946 9.348476 AGGAAAAGGAAAAGATAGCATAGAATC 57.652 33.333 0.00 0.00 0.00 2.52
2338 6947 9.348476 GGAAAAGGAAAAGATAGCATAGAATCT 57.652 33.333 0.00 0.00 33.87 2.40
2341 6950 9.692325 AAAGGAAAAGATAGCATAGAATCTTGT 57.308 29.630 0.00 0.00 40.66 3.16
2342 6951 8.674263 AGGAAAAGATAGCATAGAATCTTGTG 57.326 34.615 0.00 0.00 40.66 3.33
2343 6952 7.718753 AGGAAAAGATAGCATAGAATCTTGTGG 59.281 37.037 0.00 0.00 40.66 4.17
2344 6953 7.716998 GGAAAAGATAGCATAGAATCTTGTGGA 59.283 37.037 0.00 0.00 40.66 4.02
2345 6954 9.113838 GAAAAGATAGCATAGAATCTTGTGGAA 57.886 33.333 0.00 0.00 40.66 3.53
2346 6955 9.466497 AAAAGATAGCATAGAATCTTGTGGAAA 57.534 29.630 0.00 0.00 40.66 3.13
2347 6956 9.466497 AAAGATAGCATAGAATCTTGTGGAAAA 57.534 29.630 0.00 0.00 40.66 2.29
2348 6957 8.674263 AGATAGCATAGAATCTTGTGGAAAAG 57.326 34.615 0.00 0.00 0.00 2.27
2349 6958 7.718753 AGATAGCATAGAATCTTGTGGAAAAGG 59.281 37.037 0.00 0.00 0.00 3.11
2350 6959 5.819991 AGCATAGAATCTTGTGGAAAAGGA 58.180 37.500 0.00 0.00 0.00 3.36
2351 6960 6.248433 AGCATAGAATCTTGTGGAAAAGGAA 58.752 36.000 0.00 0.00 0.00 3.36
2352 6961 6.721208 AGCATAGAATCTTGTGGAAAAGGAAA 59.279 34.615 0.00 0.00 0.00 3.13
2353 6962 7.233348 AGCATAGAATCTTGTGGAAAAGGAAAA 59.767 33.333 0.00 0.00 0.00 2.29
2354 6963 7.543520 GCATAGAATCTTGTGGAAAAGGAAAAG 59.456 37.037 0.00 0.00 0.00 2.27
2355 6964 6.410942 AGAATCTTGTGGAAAAGGAAAAGG 57.589 37.500 0.00 0.00 0.00 3.11
2356 6965 6.136155 AGAATCTTGTGGAAAAGGAAAAGGA 58.864 36.000 0.00 0.00 0.00 3.36
2357 6966 6.611236 AGAATCTTGTGGAAAAGGAAAAGGAA 59.389 34.615 0.00 0.00 0.00 3.36
2358 6967 6.806668 ATCTTGTGGAAAAGGAAAAGGAAA 57.193 33.333 0.00 0.00 0.00 3.13
2359 6968 6.613153 TCTTGTGGAAAAGGAAAAGGAAAA 57.387 33.333 0.00 0.00 0.00 2.29
2360 6969 6.639563 TCTTGTGGAAAAGGAAAAGGAAAAG 58.360 36.000 0.00 0.00 0.00 2.27
2361 6970 6.439058 TCTTGTGGAAAAGGAAAAGGAAAAGA 59.561 34.615 0.00 0.00 0.00 2.52
2373 6982 9.348476 AGGAAAAGGAAAAGATAGCATAGAATC 57.652 33.333 0.00 0.00 0.00 2.52
2408 7017 5.874810 TCAAATGTAGGAACAGTAGACATGC 59.125 40.000 0.00 0.00 39.49 4.06
2420 7029 5.656859 ACAGTAGACATGCTATGTACCTCAA 59.343 40.000 0.00 0.00 45.03 3.02
2425 7034 9.197694 GTAGACATGCTATGTACCTCAATTTAG 57.802 37.037 0.00 0.00 45.03 1.85
2438 7047 4.479619 CTCAATTTAGAACCAAGCTGTGC 58.520 43.478 0.00 0.00 0.00 4.57
2450 7059 1.884926 GCTGTGCGAGGATAGTGCC 60.885 63.158 0.00 0.00 0.00 5.01
2457 7066 1.331756 GCGAGGATAGTGCCACATTTG 59.668 52.381 0.00 0.00 0.00 2.32
2469 7078 3.387374 TGCCACATTTGTTTGTTCCTGAT 59.613 39.130 0.00 0.00 0.00 2.90
2485 7094 9.793259 TTGTTCCTGATTTGAAGTTATAGAAGT 57.207 29.630 0.00 0.00 0.00 3.01
2490 7099 8.669243 CCTGATTTGAAGTTATAGAAGTTGGAC 58.331 37.037 0.00 0.00 0.00 4.02
2496 7105 8.251750 TGAAGTTATAGAAGTTGGACGAAATG 57.748 34.615 0.00 0.00 0.00 2.32
2498 7107 8.480643 AAGTTATAGAAGTTGGACGAAATGAG 57.519 34.615 0.00 0.00 0.00 2.90
2522 7142 2.159713 TGCAGTAAGGCAAAGGGGA 58.840 52.632 0.00 0.00 41.65 4.81
2533 7153 0.032813 CAAAGGGGATGGTCCATGCT 60.033 55.000 21.39 1.34 38.64 3.79
2570 7190 8.890718 AGATATGTGATTTGAAGATCAGTTGTG 58.109 33.333 0.00 0.00 36.76 3.33
2574 7194 5.239306 GTGATTTGAAGATCAGTTGTGTCCA 59.761 40.000 0.00 0.00 36.76 4.02
2591 7211 1.962807 TCCATTTTCTGGTGCTTGTGG 59.037 47.619 0.00 0.00 46.08 4.17
2624 7244 7.899973 AGAAACAAGATTATTTCAATGCAGGT 58.100 30.769 0.00 0.00 37.30 4.00
2626 7246 5.969423 ACAAGATTATTTCAATGCAGGTGG 58.031 37.500 0.00 0.00 0.00 4.61
2634 7254 0.523072 CAATGCAGGTGGAGGAAACG 59.477 55.000 0.00 0.00 0.00 3.60
2635 7255 0.609131 AATGCAGGTGGAGGAAACGG 60.609 55.000 0.00 0.00 0.00 4.44
2639 7259 0.460284 CAGGTGGAGGAAACGGATCG 60.460 60.000 0.00 0.00 0.00 3.69
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
12 13 4.024133 TGTCATGTTCAATCTTTGGTCACG 60.024 41.667 0.00 0.00 0.00 4.35
179 182 1.481363 TGTCCGGCGTACATTTCCATA 59.519 47.619 0.00 0.00 0.00 2.74
365 406 4.739356 TGGGCTGGGCTGGAGCTA 62.739 66.667 0.00 0.00 41.70 3.32
427 561 2.539081 GGGTTTGGGGCTGGACTCT 61.539 63.158 0.00 0.00 0.00 3.24
987 5489 0.544357 TGTCCATGGACCCGAAGAGT 60.544 55.000 36.27 0.00 43.97 3.24
1256 5765 2.886081 CAATCTTCTCCTCGTCAGTGG 58.114 52.381 0.00 0.00 0.00 4.00
1258 5767 1.205893 GGCAATCTTCTCCTCGTCAGT 59.794 52.381 0.00 0.00 0.00 3.41
1290 5799 7.514721 ACCACCTTAATGTCTTCTTCAAGTAA 58.485 34.615 0.00 0.00 0.00 2.24
1321 5830 0.112995 AAAGCAATGCCCACCTCAGA 59.887 50.000 0.00 0.00 0.00 3.27
1347 5856 1.496060 AGGTCAGCACCATCGGATTA 58.504 50.000 0.00 0.00 46.68 1.75
1508 6017 6.240894 TGTAGCAATCTGTTTTCCTTGAGAT 58.759 36.000 0.00 0.00 0.00 2.75
1587 6102 3.119388 CCTTGTGTGGGCATATGAACTTG 60.119 47.826 6.97 0.00 0.00 3.16
2028 6625 2.112998 CTCCCGTACAAATACCAGGGA 58.887 52.381 0.80 0.80 38.17 4.20
2069 6666 5.296283 GCACTCTGCTTTTCATCATCATACT 59.704 40.000 0.00 0.00 40.96 2.12
2142 6743 6.757897 TGGCAGAAGTTAACTTGATAATGG 57.242 37.500 25.17 7.60 36.11 3.16
2200 6802 7.154191 AGATGCCCTCATTATCTAAAAAGGA 57.846 36.000 0.00 0.00 31.96 3.36
2201 6803 7.830099 AAGATGCCCTCATTATCTAAAAAGG 57.170 36.000 0.00 0.00 31.96 3.11
2206 6808 6.299141 GGACAAAGATGCCCTCATTATCTAA 58.701 40.000 0.00 0.00 31.96 2.10
2251 6853 8.204160 TGGATGATACATAAGACCACTTTACTG 58.796 37.037 0.00 0.00 37.53 2.74
2277 6879 5.503927 TCCAGCTAGAAATTTGCAGAAGAT 58.496 37.500 0.00 0.00 0.00 2.40
2279 6881 5.633830 TTCCAGCTAGAAATTTGCAGAAG 57.366 39.130 0.00 0.00 0.00 2.85
2317 6926 7.718753 CCACAAGATTCTATGCTATCTTTTCCT 59.281 37.037 0.00 0.00 38.66 3.36
2318 6927 7.716998 TCCACAAGATTCTATGCTATCTTTTCC 59.283 37.037 0.00 0.00 38.66 3.13
2325 6934 7.577303 TCCTTTTCCACAAGATTCTATGCTAT 58.423 34.615 0.00 0.00 0.00 2.97
2326 6935 6.957631 TCCTTTTCCACAAGATTCTATGCTA 58.042 36.000 0.00 0.00 0.00 3.49
2328 6937 6.515272 TTCCTTTTCCACAAGATTCTATGC 57.485 37.500 0.00 0.00 0.00 3.14
2329 6938 8.031277 CCTTTTCCTTTTCCACAAGATTCTATG 58.969 37.037 0.00 0.00 0.00 2.23
2330 6939 7.950124 TCCTTTTCCTTTTCCACAAGATTCTAT 59.050 33.333 0.00 0.00 0.00 1.98
2331 6940 7.294584 TCCTTTTCCTTTTCCACAAGATTCTA 58.705 34.615 0.00 0.00 0.00 2.10
2332 6941 6.136155 TCCTTTTCCTTTTCCACAAGATTCT 58.864 36.000 0.00 0.00 0.00 2.40
2333 6942 6.405278 TCCTTTTCCTTTTCCACAAGATTC 57.595 37.500 0.00 0.00 0.00 2.52
2334 6943 6.806668 TTCCTTTTCCTTTTCCACAAGATT 57.193 33.333 0.00 0.00 0.00 2.40
2335 6944 6.806668 TTTCCTTTTCCTTTTCCACAAGAT 57.193 33.333 0.00 0.00 0.00 2.40
2336 6945 6.439058 TCTTTTCCTTTTCCTTTTCCACAAGA 59.561 34.615 0.00 0.00 0.00 3.02
2337 6946 6.639563 TCTTTTCCTTTTCCTTTTCCACAAG 58.360 36.000 0.00 0.00 0.00 3.16
2338 6947 6.613153 TCTTTTCCTTTTCCTTTTCCACAA 57.387 33.333 0.00 0.00 0.00 3.33
2339 6948 6.806668 ATCTTTTCCTTTTCCTTTTCCACA 57.193 33.333 0.00 0.00 0.00 4.17
2340 6949 6.868864 GCTATCTTTTCCTTTTCCTTTTCCAC 59.131 38.462 0.00 0.00 0.00 4.02
2341 6950 6.553100 TGCTATCTTTTCCTTTTCCTTTTCCA 59.447 34.615 0.00 0.00 0.00 3.53
2342 6951 6.993079 TGCTATCTTTTCCTTTTCCTTTTCC 58.007 36.000 0.00 0.00 0.00 3.13
2343 6952 9.794685 CTATGCTATCTTTTCCTTTTCCTTTTC 57.205 33.333 0.00 0.00 0.00 2.29
2344 6953 9.533831 TCTATGCTATCTTTTCCTTTTCCTTTT 57.466 29.630 0.00 0.00 0.00 2.27
2345 6954 9.533831 TTCTATGCTATCTTTTCCTTTTCCTTT 57.466 29.630 0.00 0.00 0.00 3.11
2346 6955 9.706529 ATTCTATGCTATCTTTTCCTTTTCCTT 57.293 29.630 0.00 0.00 0.00 3.36
2347 6956 9.348476 GATTCTATGCTATCTTTTCCTTTTCCT 57.652 33.333 0.00 0.00 0.00 3.36
2348 6957 9.348476 AGATTCTATGCTATCTTTTCCTTTTCC 57.652 33.333 0.00 0.00 0.00 3.13
2351 6960 9.692325 ACAAGATTCTATGCTATCTTTTCCTTT 57.308 29.630 0.00 0.00 38.66 3.11
2352 6961 9.118300 CACAAGATTCTATGCTATCTTTTCCTT 57.882 33.333 0.00 0.00 38.66 3.36
2353 6962 7.718753 CCACAAGATTCTATGCTATCTTTTCCT 59.281 37.037 0.00 0.00 38.66 3.36
2354 6963 7.716998 TCCACAAGATTCTATGCTATCTTTTCC 59.283 37.037 0.00 0.00 38.66 3.13
2355 6964 8.668510 TCCACAAGATTCTATGCTATCTTTTC 57.331 34.615 0.00 0.00 38.66 2.29
2356 6965 9.638176 ATTCCACAAGATTCTATGCTATCTTTT 57.362 29.630 0.00 0.00 38.66 2.27
2357 6966 9.638176 AATTCCACAAGATTCTATGCTATCTTT 57.362 29.630 0.00 0.00 38.66 2.52
2358 6967 9.638176 AAATTCCACAAGATTCTATGCTATCTT 57.362 29.630 0.00 0.00 40.73 2.40
2359 6968 9.282569 GAAATTCCACAAGATTCTATGCTATCT 57.717 33.333 0.00 0.00 32.62 1.98
2360 6969 9.060347 TGAAATTCCACAAGATTCTATGCTATC 57.940 33.333 0.00 0.00 0.00 2.08
2361 6970 8.985315 TGAAATTCCACAAGATTCTATGCTAT 57.015 30.769 0.00 0.00 0.00 2.97
2373 6982 7.432869 TGTTCCTACATTTGAAATTCCACAAG 58.567 34.615 0.00 0.00 0.00 3.16
2408 7017 7.770897 AGCTTGGTTCTAAATTGAGGTACATAG 59.229 37.037 0.00 0.00 0.00 2.23
2420 7029 2.744202 CTCGCACAGCTTGGTTCTAAAT 59.256 45.455 0.00 0.00 0.00 1.40
2425 7034 0.674895 ATCCTCGCACAGCTTGGTTC 60.675 55.000 0.00 0.00 0.00 3.62
2438 7047 2.632377 ACAAATGTGGCACTATCCTCG 58.368 47.619 19.83 3.54 0.00 4.63
2450 7059 7.278424 ACTTCAAATCAGGAACAAACAAATGTG 59.722 33.333 0.00 0.00 32.81 3.21
2469 7078 8.665643 TTTCGTCCAACTTCTATAACTTCAAA 57.334 30.769 0.00 0.00 0.00 2.69
2485 7094 4.071423 TGCAAAGATCTCATTTCGTCCAA 58.929 39.130 0.00 0.00 0.00 3.53
2490 7099 5.728898 GCCTTACTGCAAAGATCTCATTTCG 60.729 44.000 0.00 0.00 0.00 3.46
2522 7142 3.317406 TCACCAGTATAGCATGGACCAT 58.683 45.455 0.00 0.00 39.02 3.55
2574 7194 5.806654 AATTACCACAAGCACCAGAAAAT 57.193 34.783 0.00 0.00 0.00 1.82
2624 7244 1.828595 TCAATCGATCCGTTTCCTCCA 59.171 47.619 0.00 0.00 0.00 3.86
2626 7246 3.717707 TCATCAATCGATCCGTTTCCTC 58.282 45.455 0.00 0.00 0.00 3.71
2634 7254 5.463724 GGTAAGTGACTTCATCAATCGATCC 59.536 44.000 0.00 0.00 39.72 3.36
2635 7255 6.042777 TGGTAAGTGACTTCATCAATCGATC 58.957 40.000 0.00 0.00 39.72 3.69
2667 7287 2.951229 TTGAGGAAAACTCCCTGTCC 57.049 50.000 0.00 0.00 46.01 4.02


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

AutoCloner maintained by Alex Coulton.