Multiple sequence alignment - TraesCS4B01G248100

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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 TraesCS4B01G248100 chr4B 100.000 2738 0 0 1 2738 513080167 513077430 0.000000e+00 5057.0
1 TraesCS4B01G248100 chr4B 85.104 819 71 20 704 1485 513450557 513451361 0.000000e+00 789.0
2 TraesCS4B01G248100 chr4B 88.707 549 50 7 1497 2042 513451403 513451942 0.000000e+00 660.0
3 TraesCS4B01G248100 chr4B 85.759 632 33 18 694 1290 512798011 512797402 1.390000e-172 616.0
4 TraesCS4B01G248100 chr4B 84.664 639 69 15 1497 2129 512797207 512796592 6.480000e-171 610.0
5 TraesCS4B01G248100 chr4B 88.770 187 18 3 321 506 512799132 512798948 2.740000e-55 226.0
6 TraesCS4B01G248100 chr4B 88.608 79 7 2 258 336 512800509 512800433 8.070000e-16 95.3
7 TraesCS4B01G248100 chr4D 85.761 1215 96 34 997 2169 416577912 416579091 0.000000e+00 1214.0
8 TraesCS4B01G248100 chr4D 86.158 1062 67 42 294 1290 416430213 416429167 0.000000e+00 1074.0
9 TraesCS4B01G248100 chr4D 85.432 961 103 25 1224 2169 416643072 416644010 0.000000e+00 965.0
10 TraesCS4B01G248100 chr4D 84.431 957 96 16 1209 2129 416146214 416145275 0.000000e+00 893.0
11 TraesCS4B01G248100 chr4D 88.383 637 53 10 2110 2738 416417113 416416490 0.000000e+00 747.0
12 TraesCS4B01G248100 chr4D 86.074 675 55 11 1168 1807 416694157 416694827 0.000000e+00 689.0
13 TraesCS4B01G248100 chr4D 85.106 611 59 12 669 1269 416423093 416422505 1.820000e-166 595.0
14 TraesCS4B01G248100 chr4D 84.713 628 59 17 735 1329 416693635 416694258 6.530000e-166 593.0
15 TraesCS4B01G248100 chr4D 84.469 631 41 20 2110 2726 416428235 416427648 1.100000e-158 569.0
16 TraesCS4B01G248100 chr4D 84.565 609 57 17 735 1310 416642308 416642912 1.100000e-158 569.0
17 TraesCS4B01G248100 chr4D 97.222 252 7 0 1 252 416430559 416430308 7.010000e-116 427.0
18 TraesCS4B01G248100 chr4D 90.511 274 13 6 731 1000 416146691 416146427 1.560000e-92 350.0
19 TraesCS4B01G248100 chr4D 91.765 170 8 1 704 873 416577650 416577813 5.900000e-57 231.0
20 TraesCS4B01G248100 chr4D 86.239 218 15 8 1893 2105 416417454 416417247 3.550000e-54 222.0
21 TraesCS4B01G248100 chr4D 84.058 207 21 7 2184 2379 416430684 416430479 3.600000e-44 189.0
22 TraesCS4B01G248100 chr4D 94.643 56 2 1 253 308 416430281 416430227 4.860000e-13 86.1
23 TraesCS4B01G248100 chr4A 81.746 1512 138 64 735 2168 47456097 47454646 0.000000e+00 1136.0
24 TraesCS4B01G248100 chr4A 84.746 944 80 26 1169 2068 47709464 47710387 0.000000e+00 887.0
25 TraesCS4B01G248100 chr4A 82.041 980 127 34 1169 2129 47736596 47737545 0.000000e+00 789.0
26 TraesCS4B01G248100 chr4A 81.818 968 75 45 343 1269 47649330 47650237 0.000000e+00 719.0
27 TraesCS4B01G248100 chr4A 90.255 431 31 5 1497 1921 47650432 47650857 1.110000e-153 553.0
28 TraesCS4B01G248100 chr4A 90.025 401 17 9 2053 2439 47650865 47651256 5.270000e-137 497.0
29 TraesCS4B01G248100 chr4A 81.601 587 49 28 785 1329 47736064 47736633 5.420000e-117 431.0
30 TraesCS4B01G248100 chr4A 81.481 540 55 26 831 1329 47709029 47709564 4.250000e-108 401.0
31 TraesCS4B01G248100 chr4A 94.466 253 11 2 1 252 47648479 47648729 1.190000e-103 387.0
32 TraesCS4B01G248100 chr4A 83.824 204 21 7 2184 2376 47648354 47648556 1.670000e-42 183.0
33 TraesCS4B01G248100 chr4A 89.855 138 8 6 2606 2738 47651317 47651453 3.620000e-39 172.0
34 TraesCS4B01G248100 chr4A 90.196 102 8 2 253 353 47648756 47648856 6.150000e-27 132.0
35 TraesCS4B01G248100 chr4A 95.349 43 2 0 2446 2488 47651249 47651291 4.890000e-08 69.4
36 TraesCS4B01G248100 chr1A 90.476 84 6 1 2501 2584 222350402 222350483 2.880000e-20 110.0
37 TraesCS4B01G248100 chr1A 85.393 89 11 1 2497 2585 99970831 99970745 1.040000e-14 91.6
38 TraesCS4B01G248100 chr5A 88.764 89 8 1 2497 2585 624795593 624795507 1.040000e-19 108.0
39 TraesCS4B01G248100 chrUn 93.939 66 4 0 406 471 45092036 45091971 1.730000e-17 100.0
40 TraesCS4B01G248100 chrUn 93.939 66 4 0 406 471 171042323 171042258 1.730000e-17 100.0
41 TraesCS4B01G248100 chr6D 93.939 66 4 0 406 471 83972096 83972031 1.730000e-17 100.0
42 TraesCS4B01G248100 chr6D 93.939 66 4 0 406 471 182571734 182571669 1.730000e-17 100.0
43 TraesCS4B01G248100 chr6D 93.939 66 4 0 406 471 283204786 283204721 1.730000e-17 100.0
44 TraesCS4B01G248100 chr6D 93.939 66 4 0 406 471 425589008 425588943 1.730000e-17 100.0
45 TraesCS4B01G248100 chr2A 88.235 85 9 1 2497 2581 447639718 447639801 1.730000e-17 100.0
46 TraesCS4B01G248100 chr2A 91.176 68 6 0 2497 2564 454473597 454473530 2.900000e-15 93.5
47 TraesCS4B01G248100 chr2A 100.000 30 0 0 2498 2527 36941704 36941733 3.810000e-04 56.5
48 TraesCS4B01G248100 chr7A 97.222 36 1 0 2541 2576 544248547 544248512 8.190000e-06 62.1
49 TraesCS4B01G248100 chr7D 91.111 45 2 1 2494 2538 8008339 8008381 2.940000e-05 60.2


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 TraesCS4B01G248100 chr4B 513077430 513080167 2737 True 5057.000 5057 100.00000 1 2738 1 chr4B.!!$R1 2737
1 TraesCS4B01G248100 chr4B 513450557 513451942 1385 False 724.500 789 86.90550 704 2042 2 chr4B.!!$F1 1338
2 TraesCS4B01G248100 chr4B 512796592 512800509 3917 True 386.825 616 86.95025 258 2129 4 chr4B.!!$R2 1871
3 TraesCS4B01G248100 chr4D 416642308 416644010 1702 False 767.000 965 84.99850 735 2169 2 chr4D.!!$F2 1434
4 TraesCS4B01G248100 chr4D 416577650 416579091 1441 False 722.500 1214 88.76300 704 2169 2 chr4D.!!$F1 1465
5 TraesCS4B01G248100 chr4D 416693635 416694827 1192 False 641.000 689 85.39350 735 1807 2 chr4D.!!$F3 1072
6 TraesCS4B01G248100 chr4D 416145275 416146691 1416 True 621.500 893 87.47100 731 2129 2 chr4D.!!$R2 1398
7 TraesCS4B01G248100 chr4D 416422505 416423093 588 True 595.000 595 85.10600 669 1269 1 chr4D.!!$R1 600
8 TraesCS4B01G248100 chr4D 416416490 416417454 964 True 484.500 747 87.31100 1893 2738 2 chr4D.!!$R3 845
9 TraesCS4B01G248100 chr4D 416427648 416430684 3036 True 469.020 1074 89.31000 1 2726 5 chr4D.!!$R4 2725
10 TraesCS4B01G248100 chr4A 47454646 47456097 1451 True 1136.000 1136 81.74600 735 2168 1 chr4A.!!$R1 1433
11 TraesCS4B01G248100 chr4A 47709029 47710387 1358 False 644.000 887 83.11350 831 2068 2 chr4A.!!$F2 1237
12 TraesCS4B01G248100 chr4A 47736064 47737545 1481 False 610.000 789 81.82100 785 2129 2 chr4A.!!$F3 1344
13 TraesCS4B01G248100 chr4A 47648354 47651453 3099 False 339.050 719 89.47350 1 2738 8 chr4A.!!$F1 2737

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
940 3796 0.457443 TGATTCGATCGCAGTCTGCT 59.543 50.0 22.13 4.68 42.25 4.24 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2383 5981 0.036294 AAAGCTTAGTCACCGGCCTC 60.036 55.0 0.0 0.0 0.0 4.7 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
95 221 2.431419 TCACCGAGGCCGTTTTATCATA 59.569 45.455 0.00 0.00 0.00 2.15
101 227 4.377431 CGAGGCCGTTTTATCATATTCTGC 60.377 45.833 0.00 0.00 0.00 4.26
187 314 7.334421 TGATCCTATATTCGGCTTAATTGCTTC 59.666 37.037 0.00 0.00 0.00 3.86
237 364 2.223805 GGTTTTTGCTGAACCAGGAGTG 60.224 50.000 10.33 0.00 44.71 3.51
252 379 0.733223 GAGTGGGTCGTTCGAAGAGC 60.733 60.000 0.00 8.09 38.43 4.09
255 382 4.170723 GGTCGTTCGAAGAGCCTG 57.829 61.111 0.00 0.00 38.43 4.85
316 496 1.584724 TCAGGTGGGGATTTCTCTCC 58.415 55.000 0.00 0.00 43.10 3.71
394 2371 6.633500 AGTAACTAAAGCAATTGCAAGTCA 57.367 33.333 30.89 14.95 45.16 3.41
560 3374 8.041323 AGTCCGAATTTGTGAATCTAGTACATT 58.959 33.333 0.00 0.00 0.00 2.71
574 3393 6.869695 TCTAGTACATTTCAGCGGTTCATTA 58.130 36.000 0.00 0.00 0.00 1.90
631 3453 1.557443 CTCACCCAAGTCACGCGAAC 61.557 60.000 15.93 11.04 0.00 3.95
655 3477 5.181009 TGCAACTCGAGAGAATCAATCAAT 58.819 37.500 21.68 0.00 41.32 2.57
722 3556 3.878086 TTTGAACTGAATGCGTGACTC 57.122 42.857 0.00 0.00 0.00 3.36
723 3557 2.820059 TGAACTGAATGCGTGACTCT 57.180 45.000 0.00 0.00 0.00 3.24
724 3558 2.677199 TGAACTGAATGCGTGACTCTC 58.323 47.619 0.00 0.00 0.00 3.20
938 3794 0.851495 GCTGATTCGATCGCAGTCTG 59.149 55.000 18.40 15.49 32.39 3.51
939 3795 0.851495 CTGATTCGATCGCAGTCTGC 59.149 55.000 15.22 15.22 40.69 4.26
940 3796 0.457443 TGATTCGATCGCAGTCTGCT 59.543 50.000 22.13 4.68 42.25 4.24
966 3822 3.775654 CTCCGCCTCCCTCCACAC 61.776 72.222 0.00 0.00 0.00 3.82
1242 4281 1.327690 GCCCCGACTACACTCCATCA 61.328 60.000 0.00 0.00 0.00 3.07
1248 4308 1.555075 GACTACACTCCATCAAGCCCA 59.445 52.381 0.00 0.00 0.00 5.36
1281 4362 0.965866 CGAGCCCAGACTACACTCCA 60.966 60.000 0.00 0.00 0.00 3.86
1282 4363 1.490574 GAGCCCAGACTACACTCCAT 58.509 55.000 0.00 0.00 0.00 3.41
1284 4365 1.195115 GCCCAGACTACACTCCATCA 58.805 55.000 0.00 0.00 0.00 3.07
1371 4740 3.909258 TTCGTCGAGCCCTGTTCGC 62.909 63.158 0.00 0.00 36.29 4.70
1390 4759 1.010350 CTCGCTTTCATGATGCCGC 60.010 57.895 13.37 5.99 0.00 6.53
1426 4795 3.760035 CGCCAGACTACACGCCCT 61.760 66.667 0.00 0.00 0.00 5.19
1443 4812 1.446792 CTTGACGCCGTCAGAGCAT 60.447 57.895 20.24 0.00 43.69 3.79
1475 4844 2.079925 ACCTTACTACACTCCGTCGAC 58.920 52.381 5.18 5.18 0.00 4.20
1569 4968 1.300620 CACGCCGTCAACTCCTTCA 60.301 57.895 0.00 0.00 0.00 3.02
1575 4974 1.291877 CGTCAACTCCTTCAAGGCGG 61.292 60.000 0.00 0.00 34.61 6.13
1747 5150 7.233632 AGCCTTGGCATATTGATATCTTGTAA 58.766 34.615 14.54 0.00 0.00 2.41
1748 5151 7.892241 AGCCTTGGCATATTGATATCTTGTAAT 59.108 33.333 14.54 0.00 0.00 1.89
1749 5152 9.177608 GCCTTGGCATATTGATATCTTGTAATA 57.822 33.333 6.79 0.38 0.00 0.98
1908 5334 5.237815 TGCGAGATTGTTCTCTGTTATTGT 58.762 37.500 1.90 0.00 45.30 2.71
1984 5418 4.591202 CAACATTGCCTATGTGATTCGAC 58.409 43.478 2.68 0.00 46.75 4.20
2013 5447 1.063717 CCCAGATACCCAGCAATTGGT 60.064 52.381 3.82 3.82 46.25 3.67
2023 5460 2.627699 CCAGCAATTGGTAAAGGTGTGT 59.372 45.455 10.31 0.00 42.41 3.72
2036 5473 4.623932 AAGGTGTGTCTGTGTGATGTAT 57.376 40.909 0.00 0.00 0.00 2.29
2044 5486 6.813152 TGTGTCTGTGTGATGTATTGATGTAG 59.187 38.462 0.00 0.00 0.00 2.74
2048 5492 8.972349 GTCTGTGTGATGTATTGATGTAGTATG 58.028 37.037 0.00 0.00 0.00 2.39
2051 5495 8.912988 TGTGTGATGTATTGATGTAGTATGAGA 58.087 33.333 0.00 0.00 0.00 3.27
2058 5502 8.138074 TGTATTGATGTAGTATGAGAGAAGCAC 58.862 37.037 0.00 0.00 0.00 4.40
2171 5754 6.857777 CTCAGATAGCTGTTTTTCTATGGG 57.142 41.667 8.04 0.00 42.84 4.00
2198 5781 0.314302 AGACGTCCAAGTCGAACTGG 59.686 55.000 13.01 7.57 45.26 4.00
2210 5793 1.465172 GAACTGGCCTCCCCCTTTT 59.535 57.895 3.32 0.00 0.00 2.27
2212 5795 0.471780 AACTGGCCTCCCCCTTTTTG 60.472 55.000 3.32 0.00 0.00 2.44
2217 5800 1.557099 GCCTCCCCCTTTTTGGTTAG 58.443 55.000 0.00 0.00 0.00 2.34
2218 5801 1.203137 GCCTCCCCCTTTTTGGTTAGT 60.203 52.381 0.00 0.00 0.00 2.24
2219 5802 2.042026 GCCTCCCCCTTTTTGGTTAGTA 59.958 50.000 0.00 0.00 0.00 1.82
2225 5808 4.521639 CCCCCTTTTTGGTTAGTACTTGTC 59.478 45.833 0.00 0.00 0.00 3.18
2319 5911 5.405571 AGCACTCGTAAACTGTTGTAATCTG 59.594 40.000 0.00 0.00 0.00 2.90
2344 5939 0.453390 CCAGCGATTTTGAAGCCCTC 59.547 55.000 0.00 0.00 0.00 4.30
2346 5941 1.131883 CAGCGATTTTGAAGCCCTCAG 59.868 52.381 0.00 0.00 34.81 3.35
2350 5945 2.095461 GATTTTGAAGCCCTCAGGGTC 58.905 52.381 12.83 1.82 45.47 4.46
2351 5946 0.112412 TTTTGAAGCCCTCAGGGTCC 59.888 55.000 12.83 1.05 45.47 4.46
2352 5947 0.772124 TTTGAAGCCCTCAGGGTCCT 60.772 55.000 12.83 0.00 45.47 3.85
2354 5949 1.301293 GAAGCCCTCAGGGTCCTTG 59.699 63.158 12.83 0.00 45.47 3.61
2355 5950 1.464198 AAGCCCTCAGGGTCCTTGT 60.464 57.895 12.83 0.00 45.47 3.16
2380 5978 6.701145 TTTTAAGTGCAATTACCACTGACA 57.299 33.333 6.03 0.00 42.37 3.58
2381 5979 5.682943 TTAAGTGCAATTACCACTGACAC 57.317 39.130 6.03 0.00 42.37 3.67
2382 5980 3.492102 AGTGCAATTACCACTGACACT 57.508 42.857 9.43 0.00 41.68 3.55
2383 5981 3.141398 AGTGCAATTACCACTGACACTG 58.859 45.455 9.43 0.00 41.68 3.66
2384 5982 3.138304 GTGCAATTACCACTGACACTGA 58.862 45.455 0.00 0.00 0.00 3.41
2439 6037 1.063174 GATGCTGGAAACGATGTCTGC 59.937 52.381 0.00 0.00 0.00 4.26
2489 6101 4.162509 GGGAGTAGACTCAGTTTGGCTAAT 59.837 45.833 11.64 0.00 44.60 1.73
2495 6107 6.992063 AGACTCAGTTTGGCTAATATGTTG 57.008 37.500 0.00 0.00 0.00 3.33
2576 6188 8.918202 AACATCTTACATTTGTTTACTGAGGA 57.082 30.769 0.00 0.00 29.60 3.71
2694 6319 1.133792 GTAGCTTGGGCATGGGTACAT 60.134 52.381 0.00 0.00 41.70 2.29
2721 6346 4.825546 AGCATCTTGTGACTCTTGTTTG 57.174 40.909 0.00 0.00 0.00 2.93
2728 6353 1.604278 GTGACTCTTGTTTGCACCTCC 59.396 52.381 0.00 0.00 0.00 4.30
2730 6355 1.876156 GACTCTTGTTTGCACCTCCAG 59.124 52.381 0.00 0.00 0.00 3.86
2731 6356 1.212935 ACTCTTGTTTGCACCTCCAGT 59.787 47.619 0.00 0.00 0.00 4.00
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
2 3 9.431887 TCGCAGGGATTTATATAAGATTACAAC 57.568 33.333 0.00 0.00 0.00 3.32
4 5 9.599866 CATCGCAGGGATTTATATAAGATTACA 57.400 33.333 0.00 0.00 31.28 2.41
101 227 1.572085 CTCCACGCCAACTTCTGCTG 61.572 60.000 0.00 0.00 0.00 4.41
187 314 6.183360 CCCAAAACCAAACTACAAAACATGTG 60.183 38.462 0.00 0.00 43.77 3.21
237 364 1.446272 CAGGCTCTTCGAACGACCC 60.446 63.158 0.00 0.00 0.00 4.46
394 2371 8.493787 TCTTTTCTTCCTTCTAGTTAGTTCCT 57.506 34.615 0.00 0.00 0.00 3.36
501 2481 1.072173 TCTGTGGTGGTGGATTGTCAG 59.928 52.381 0.00 0.00 0.00 3.51
550 3364 4.794278 TGAACCGCTGAAATGTACTAGA 57.206 40.909 0.00 0.00 0.00 2.43
631 3453 4.179298 TGATTGATTCTCTCGAGTTGCAG 58.821 43.478 13.13 2.11 0.00 4.41
667 3489 1.002544 GAGGCCCCTATTCTTCATCCG 59.997 57.143 0.00 0.00 0.00 4.18
668 3490 1.002544 CGAGGCCCCTATTCTTCATCC 59.997 57.143 0.00 0.00 0.00 3.51
678 3512 2.115480 CTCCGATCGAGGCCCCTA 59.885 66.667 18.66 0.00 34.67 3.53
680 3514 3.155167 AACTCCGATCGAGGCCCC 61.155 66.667 18.66 0.00 43.57 5.80
894 3744 4.264623 GGGGTGGGGGCATAATTAATATCA 60.265 45.833 0.00 0.00 0.00 2.15
938 3794 4.475135 GGCGGAGGTGGAGGAAGC 62.475 72.222 0.00 0.00 0.00 3.86
939 3795 2.685380 AGGCGGAGGTGGAGGAAG 60.685 66.667 0.00 0.00 0.00 3.46
940 3796 2.683933 GAGGCGGAGGTGGAGGAA 60.684 66.667 0.00 0.00 0.00 3.36
1206 4245 2.799371 CTCGCCGGAGTGTAGTCC 59.201 66.667 5.05 0.00 35.48 3.85
1227 4266 1.471676 GGGCTTGATGGAGTGTAGTCG 60.472 57.143 0.00 0.00 0.00 4.18
1242 4281 1.258445 CCGGAGTGTAGTCTGGGCTT 61.258 60.000 0.00 0.00 39.12 4.35
1248 4308 2.408241 GCTCGCCGGAGTGTAGTCT 61.408 63.158 5.05 0.00 42.53 3.24
1269 4350 1.834263 GGGCTTGATGGAGTGTAGTCT 59.166 52.381 0.00 0.00 0.00 3.24
1281 4362 0.824759 GAGTGTAGTCGGGGCTTGAT 59.175 55.000 0.00 0.00 0.00 2.57
1282 4363 1.255667 GGAGTGTAGTCGGGGCTTGA 61.256 60.000 0.00 0.00 0.00 3.02
1284 4365 2.348888 CGGAGTGTAGTCGGGGCTT 61.349 63.158 0.00 0.00 0.00 4.35
1337 4706 0.443088 CGAAGTGTACTCGAGCGACT 59.557 55.000 13.61 9.03 0.00 4.18
1371 4740 1.645455 CGGCATCATGAAAGCGAGG 59.355 57.895 14.87 5.75 0.00 4.63
1410 4779 1.741770 CAAGGGCGTGTAGTCTGGC 60.742 63.158 0.00 0.00 0.00 4.85
1426 4795 1.737735 CATGCTCTGACGGCGTCAA 60.738 57.895 37.97 26.27 42.26 3.18
1443 4812 3.767131 TGTAGTAAGGTGATGTAGCAGCA 59.233 43.478 2.07 0.00 38.68 4.41
1490 4859 2.434359 GGGACGGAGGCGAACAAG 60.434 66.667 0.00 0.00 0.00 3.16
1491 4860 4.011517 GGGGACGGAGGCGAACAA 62.012 66.667 0.00 0.00 0.00 2.83
1749 5152 9.553064 CTAATCTGTTGCTCCTATTACAATTCT 57.447 33.333 0.00 0.00 0.00 2.40
1750 5153 9.547753 TCTAATCTGTTGCTCCTATTACAATTC 57.452 33.333 0.00 0.00 0.00 2.17
1923 5349 4.368543 AAAGACGTCCGTCCGGCC 62.369 66.667 13.01 0.00 45.59 6.13
1924 5350 3.110178 CAAAGACGTCCGTCCGGC 61.110 66.667 13.01 0.00 45.59 6.13
1925 5351 0.877213 AAACAAAGACGTCCGTCCGG 60.877 55.000 13.01 0.00 45.59 5.14
1926 5352 0.231279 CAAACAAAGACGTCCGTCCG 59.769 55.000 13.01 7.86 45.59 4.79
1929 5358 2.012937 TGACAAACAAAGACGTCCGT 57.987 45.000 13.01 4.36 0.00 4.69
1935 5364 8.629986 CAATTTACATCGATGACAAACAAAGAC 58.370 33.333 31.33 0.00 0.00 3.01
1984 5418 3.206150 CTGGGTATCTGGGTGATTTTCG 58.794 50.000 0.00 0.00 36.65 3.46
2013 5447 4.415881 ACATCACACAGACACACCTTTA 57.584 40.909 0.00 0.00 0.00 1.85
2023 5460 8.912988 TCATACTACATCAATACATCACACAGA 58.087 33.333 0.00 0.00 0.00 3.41
2036 5473 6.530019 TGTGCTTCTCTCATACTACATCAA 57.470 37.500 0.00 0.00 0.00 2.57
2044 5486 4.656041 GCAACAATGTGCTTCTCTCATAC 58.344 43.478 0.00 0.00 41.51 2.39
2058 5502 2.787601 ACAGAGCAACAGCAACAATG 57.212 45.000 0.00 0.00 0.00 2.82
2198 5781 1.203137 ACTAACCAAAAAGGGGGAGGC 60.203 52.381 0.00 0.00 43.89 4.70
2210 5793 4.100344 TGCTGACTGACAAGTACTAACCAA 59.900 41.667 0.00 0.00 36.52 3.67
2212 5795 4.238514 CTGCTGACTGACAAGTACTAACC 58.761 47.826 0.00 0.00 36.52 2.85
2217 5800 3.717707 TCAACTGCTGACTGACAAGTAC 58.282 45.455 0.00 0.00 36.52 2.73
2218 5801 4.607293 ATCAACTGCTGACTGACAAGTA 57.393 40.909 0.00 0.00 36.69 2.24
2219 5802 2.988010 TCAACTGCTGACTGACAAGT 57.012 45.000 0.00 0.00 40.21 3.16
2225 5808 4.512944 ACACAAGTAATCAACTGCTGACTG 59.487 41.667 0.00 0.00 38.88 3.51
2360 5958 4.754618 CAGTGTCAGTGGTAATTGCACTTA 59.245 41.667 0.00 0.00 32.33 2.24
2379 5977 0.108615 CTTAGTCACCGGCCTCAGTG 60.109 60.000 0.00 6.11 35.24 3.66
2380 5978 1.889530 GCTTAGTCACCGGCCTCAGT 61.890 60.000 0.00 0.00 0.00 3.41
2381 5979 1.153549 GCTTAGTCACCGGCCTCAG 60.154 63.158 0.00 0.00 0.00 3.35
2382 5980 1.192146 AAGCTTAGTCACCGGCCTCA 61.192 55.000 0.00 0.00 0.00 3.86
2383 5981 0.036294 AAAGCTTAGTCACCGGCCTC 60.036 55.000 0.00 0.00 0.00 4.70
2384 5982 0.400594 AAAAGCTTAGTCACCGGCCT 59.599 50.000 0.00 0.00 0.00 5.19
2439 6037 7.490962 TGTTTACCAAACAGACATCTAGTTG 57.509 36.000 0.45 0.00 45.79 3.16
2552 6164 8.918202 TTCCTCAGTAAACAAATGTAAGATGT 57.082 30.769 0.00 0.00 0.00 3.06
2576 6188 5.070180 AGCATGCTGATGTAGAGATGTACTT 59.930 40.000 21.98 0.00 31.50 2.24
2669 6293 1.410648 CCCATGCCCAAGCTACTGAAT 60.411 52.381 0.00 0.00 40.80 2.57
2694 6319 5.105187 ACAAGAGTCACAAGATGCTATGCTA 60.105 40.000 0.00 0.00 0.00 3.49


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

AutoCloner maintained by Alex Coulton.