Multiple sequence alignment - TraesCS5B01G515400

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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 TraesCS5B01G515400 chr5B 100.000 3479 0 0 1 3479 679691599 679688121 0.000000e+00 6425.0
1 TraesCS5B01G515400 chr5B 81.757 1787 236 46 1 1746 679746272 679744535 0.000000e+00 1411.0
2 TraesCS5B01G515400 chr5B 80.975 841 129 21 523 1353 679767276 679766457 3.790000e-179 638.0
3 TraesCS5B01G515400 chr5B 87.352 253 32 0 1347 1599 679766300 679766048 1.220000e-74 291.0
4 TraesCS5B01G515400 chr5B 90.698 86 8 0 2805 2890 166379170 166379085 7.890000e-22 115.0
5 TraesCS5B01G515400 chr5D 93.287 3426 158 34 1 3374 538673831 538670426 0.000000e+00 4987.0
6 TraesCS5B01G515400 chr5D 79.726 1973 330 37 510 2433 538677889 538675938 0.000000e+00 1363.0
7 TraesCS5B01G515400 chr5D 77.321 2068 329 76 756 2732 538681745 538679727 0.000000e+00 1092.0
8 TraesCS5B01G515400 chr5D 90.588 85 7 1 2805 2889 460393042 460393125 1.020000e-20 111.0
9 TraesCS5B01G515400 chr4A 90.195 2825 194 44 1 2777 630841943 630844732 0.000000e+00 3605.0
10 TraesCS5B01G515400 chr4A 91.623 573 40 2 2844 3409 630844881 630845452 0.000000e+00 785.0
11 TraesCS5B01G515400 chr4B 91.667 84 7 0 2806 2889 511163722 511163805 2.190000e-22 117.0
12 TraesCS5B01G515400 chr2D 90.698 86 8 0 2805 2890 74149816 74149731 7.890000e-22 115.0
13 TraesCS5B01G515400 chr7B 90.588 85 8 0 2805 2889 162120824 162120908 2.840000e-21 113.0
14 TraesCS5B01G515400 chr5A 90.588 85 8 0 2805 2889 174594109 174594025 2.840000e-21 113.0
15 TraesCS5B01G515400 chr3A 90.588 85 8 0 2805 2889 470095766 470095682 2.840000e-21 113.0
16 TraesCS5B01G515400 chr3D 81.818 99 14 3 811 909 435294449 435294355 2.880000e-11 80.5
17 TraesCS5B01G515400 chr3B 80.808 99 15 3 811 909 571299605 571299511 1.340000e-09 75.0


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 TraesCS5B01G515400 chr5B 679688121 679691599 3478 True 6425.000000 6425 100.000000 1 3479 1 chr5B.!!$R2 3478
1 TraesCS5B01G515400 chr5B 679744535 679746272 1737 True 1411.000000 1411 81.757000 1 1746 1 chr5B.!!$R3 1745
2 TraesCS5B01G515400 chr5B 679766048 679767276 1228 True 464.500000 638 84.163500 523 1599 2 chr5B.!!$R4 1076
3 TraesCS5B01G515400 chr5D 538670426 538681745 11319 True 2480.666667 4987 83.444667 1 3374 3 chr5D.!!$R1 3373
4 TraesCS5B01G515400 chr4A 630841943 630845452 3509 False 2195.000000 3605 90.909000 1 3409 2 chr4A.!!$F1 3408

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
299 8226 0.179116 GCTCATCGCTGCTCTCTTCA 60.179 55.0 0.0 0.0 35.14 3.02 F
301 8228 0.179153 TCATCGCTGCTCTCTTCACG 60.179 55.0 0.0 0.0 0.00 4.35 F
2291 10452 0.248743 ATGAATTTGCCGATGCTGCG 60.249 50.0 0.0 0.0 38.71 5.18 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2291 10452 0.108138 CCACACCCCGAAGATGACTC 60.108 60.000 0.00 0.0 0.0 3.36 R
2328 10489 1.893808 GGTGCCATGGTAGGATGCG 60.894 63.158 14.67 0.0 0.0 4.73 R
3427 11736 2.993863 AGGGGTTTCAGGGTGATTTAGT 59.006 45.455 0.00 0.0 0.0 2.24 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
146 8065 0.625849 TCTTGCCCATTCTTCCTCCC 59.374 55.000 0.00 0.00 0.00 4.30
198 8117 3.191581 CAGTAGACCGAACACACTCTCAT 59.808 47.826 0.00 0.00 0.00 2.90
203 8122 2.231478 ACCGAACACACTCTCATACTGG 59.769 50.000 0.00 0.00 0.00 4.00
294 8221 4.218578 CCGGCTCATCGCTGCTCT 62.219 66.667 0.00 0.00 43.91 4.09
295 8222 2.657944 CGGCTCATCGCTGCTCTC 60.658 66.667 0.00 0.00 38.36 3.20
296 8223 2.813901 GGCTCATCGCTGCTCTCT 59.186 61.111 0.00 0.00 39.13 3.10
299 8226 0.179116 GCTCATCGCTGCTCTCTTCA 60.179 55.000 0.00 0.00 35.14 3.02
301 8228 0.179153 TCATCGCTGCTCTCTTCACG 60.179 55.000 0.00 0.00 0.00 4.35
374 8306 9.661954 TTCTTCTTCTAGATCCATATACCTTGT 57.338 33.333 0.00 0.00 0.00 3.16
424 8363 4.617959 CATGGTCTATGGGTACGTAGTTG 58.382 47.826 0.00 0.00 37.45 3.16
439 8378 0.534877 AGTTGCTGATGTGGTTCGCA 60.535 50.000 0.00 0.00 0.00 5.10
441 8384 0.817229 TTGCTGATGTGGTTCGCACA 60.817 50.000 0.00 0.00 36.95 4.57
459 8402 2.741517 CACATTCGTTGCCATGAGTACA 59.258 45.455 0.00 0.00 0.00 2.90
482 8436 7.456725 ACATTATGTAGCTAGATTTGGCAGAT 58.543 34.615 8.90 0.00 32.40 2.90
582 8555 0.253347 AATGGCAGGAGGAGGAGGAA 60.253 55.000 0.00 0.00 0.00 3.36
659 8635 1.188219 TGCTTCAGCTCGTCCTCCTT 61.188 55.000 0.00 0.00 42.66 3.36
665 8641 1.003233 GCTCGTCCTCCTTGCCTTT 60.003 57.895 0.00 0.00 0.00 3.11
705 8681 4.383861 CCTCTGGCGTGCTGCTGA 62.384 66.667 0.00 0.94 45.43 4.26
784 8760 0.264359 ATGACCCTAGAGAGCAGGCT 59.736 55.000 0.00 0.00 0.00 4.58
871 8850 0.548682 ACCATCACTGCCTTCTCCCT 60.549 55.000 0.00 0.00 0.00 4.20
872 8851 1.273838 ACCATCACTGCCTTCTCCCTA 60.274 52.381 0.00 0.00 0.00 3.53
873 8852 1.415659 CCATCACTGCCTTCTCCCTAG 59.584 57.143 0.00 0.00 0.00 3.02
874 8853 1.127343 ATCACTGCCTTCTCCCTAGC 58.873 55.000 0.00 0.00 0.00 3.42
888 8867 2.043939 TCCCTAGCTAGAGGACAACCAA 59.956 50.000 22.70 1.56 39.15 3.67
915 8894 3.006756 GCGCCACCTGCTGACTCTA 62.007 63.158 0.00 0.00 38.05 2.43
1117 9097 1.993370 CTTCTCAAGAACGGGCTTACG 59.007 52.381 0.00 0.00 40.31 3.18
1218 9198 2.677836 TGCATTTATCAACGTCAGCCTC 59.322 45.455 0.00 0.00 0.00 4.70
1515 9658 2.190578 GGGGCCATCGTTCTGGAG 59.809 66.667 4.39 0.00 38.69 3.86
1667 9810 3.499737 GCACTCCATCGGGCAACG 61.500 66.667 0.00 0.00 46.11 4.10
1671 9814 0.390735 ACTCCATCGGGCAACGTAAC 60.391 55.000 0.00 0.00 44.69 2.50
1702 9845 1.847890 CTGCACCCGTAACCAAACCG 61.848 60.000 0.00 0.00 0.00 4.44
1761 9904 0.472471 AGTGGCGGAGAAAGGTGAAA 59.528 50.000 0.00 0.00 0.00 2.69
1772 9915 6.479095 GAGAAAGGTGAAATTCTCAGTCAG 57.521 41.667 9.90 0.00 46.89 3.51
1835 9978 3.056821 CAGGTACGGAGAACAATGACTCA 60.057 47.826 12.06 0.00 35.17 3.41
1853 9996 6.577103 TGACTCATTATTCTGAGACATGGAC 58.423 40.000 8.01 0.00 44.48 4.02
1857 10000 8.932610 ACTCATTATTCTGAGACATGGACTATT 58.067 33.333 8.01 0.00 44.48 1.73
1908 10051 3.471680 GGAATACAGGCTCTTGGATGAC 58.528 50.000 0.00 0.00 0.00 3.06
1986 10129 6.062095 AGTAGCAACTGACATTTACCTTTGT 58.938 36.000 0.00 0.00 33.57 2.83
2013 10156 3.753815 TGATGACAACCAGCATCAAAGA 58.246 40.909 0.00 0.00 45.55 2.52
2025 10168 2.297033 GCATCAAAGAAGGTGCCTCAAA 59.703 45.455 0.00 0.00 0.00 2.69
2199 10342 4.202212 TGTTCTACTAGCAGTGAGTTTGCA 60.202 41.667 0.00 0.00 43.92 4.08
2212 10355 5.594317 AGTGAGTTTGCAAGGTCATTACTTT 59.406 36.000 13.99 0.00 0.00 2.66
2213 10356 6.770785 AGTGAGTTTGCAAGGTCATTACTTTA 59.229 34.615 13.99 0.00 0.00 1.85
2215 10358 6.016610 TGAGTTTGCAAGGTCATTACTTTACC 60.017 38.462 8.36 0.00 0.00 2.85
2218 10361 7.668052 AGTTTGCAAGGTCATTACTTTACCATA 59.332 33.333 0.00 0.00 35.64 2.74
2220 10363 8.410673 TTGCAAGGTCATTACTTTACCATAAA 57.589 30.769 0.00 0.00 35.64 1.40
2222 10365 8.519526 TGCAAGGTCATTACTTTACCATAAAAG 58.480 33.333 0.00 0.00 41.35 2.27
2223 10366 7.973944 GCAAGGTCATTACTTTACCATAAAAGG 59.026 37.037 0.00 0.00 40.16 3.11
2226 10369 8.566109 AGGTCATTACTTTACCATAAAAGGGAT 58.434 33.333 0.00 0.00 40.16 3.85
2231 10374 8.671384 TTACTTTACCATAAAAGGGATGATCG 57.329 34.615 1.84 0.00 40.16 3.69
2232 10375 6.062095 ACTTTACCATAAAAGGGATGATCGG 58.938 40.000 1.84 0.00 40.16 4.18
2233 10376 2.863809 ACCATAAAAGGGATGATCGGC 58.136 47.619 0.00 0.00 0.00 5.54
2234 10377 2.162681 CCATAAAAGGGATGATCGGCC 58.837 52.381 0.00 0.00 0.00 6.13
2235 10378 2.224867 CCATAAAAGGGATGATCGGCCT 60.225 50.000 0.00 0.00 0.00 5.19
2237 10380 4.506625 CCATAAAAGGGATGATCGGCCTTA 60.507 45.833 0.00 0.00 0.00 2.69
2238 10381 3.884037 AAAAGGGATGATCGGCCTTAT 57.116 42.857 0.00 0.00 0.00 1.73
2240 10383 5.520748 AAAAGGGATGATCGGCCTTATAT 57.479 39.130 0.00 0.00 0.00 0.86
2247 10408 6.268847 GGGATGATCGGCCTTATATATCTCTT 59.731 42.308 0.00 0.00 0.00 2.85
2252 10413 4.160439 TCGGCCTTATATATCTCTTGCTGG 59.840 45.833 0.00 0.00 0.00 4.85
2254 10415 5.181748 GGCCTTATATATCTCTTGCTGGTG 58.818 45.833 0.00 0.00 0.00 4.17
2263 10424 0.686789 TCTTGCTGGTGAGCTGCTTA 59.313 50.000 14.30 0.00 46.39 3.09
2273 10434 4.006319 GGTGAGCTGCTTAGAAACAGAAT 58.994 43.478 2.53 0.00 35.90 2.40
2291 10452 0.248743 ATGAATTTGCCGATGCTGCG 60.249 50.000 0.00 0.00 38.71 5.18
2328 10489 0.036294 GGGTGGAGTTCCTGTGCTAC 60.036 60.000 0.00 0.00 36.82 3.58
2332 10493 0.108138 GGAGTTCCTGTGCTACGCAT 60.108 55.000 0.00 0.00 41.91 4.73
2349 10510 3.120086 ATCCTACCATGGCACCGGC 62.120 63.158 13.04 0.00 40.13 6.13
2445 10606 6.931281 TCCAGCTATTTCATCACAAGTATAGC 59.069 38.462 0.00 0.00 40.26 2.97
2487 10649 3.639094 CTGACACCCTATAGGAGAGGTTG 59.361 52.174 21.07 9.13 39.89 3.77
2490 10652 4.897051 ACACCCTATAGGAGAGGTTGATT 58.103 43.478 21.07 0.00 39.89 2.57
2518 10687 6.000891 TGTTGATTTATATGCCTCGAATGC 57.999 37.500 0.00 0.00 0.00 3.56
2616 10789 8.279970 AGCTACTCTATCATATCTGCTGTTAG 57.720 38.462 0.00 0.00 0.00 2.34
2646 10827 3.563808 GCCTCGAATGCAATGTAATACCA 59.436 43.478 0.00 0.00 0.00 3.25
2690 10871 2.669364 GCTTTTGTGAGCATGGAACAG 58.331 47.619 0.00 0.00 42.25 3.16
2759 10940 9.242477 GATTTCTTTCTCTTTTGTTTTCTGGAG 57.758 33.333 0.00 0.00 0.00 3.86
2903 11197 3.901844 AGGGAGTACAAAACTAGCAGTGA 59.098 43.478 0.00 0.00 39.07 3.41
3047 11341 5.283060 AGTTGCACGAGAAACATCATTAC 57.717 39.130 6.48 0.00 35.59 1.89
3191 11485 8.716646 TTAGATCATCGTGTACATTTTCATGT 57.283 30.769 0.00 0.00 46.07 3.21
3193 11487 8.357796 AGATCATCGTGTACATTTTCATGTAG 57.642 34.615 0.00 0.00 44.94 2.74
3227 11524 4.696899 TGTGACAGAGGTTACTACGATG 57.303 45.455 0.00 0.00 34.79 3.84
3353 11661 7.067372 TCTGATATGGTATTTGGCAAGAAACAG 59.933 37.037 0.00 0.00 0.00 3.16
3384 11693 1.301423 TGGAACTTTTTGGACGTCCG 58.699 50.000 28.70 16.67 39.43 4.79
3394 11703 4.904253 TTTGGACGTCCGAAAGAAATTT 57.096 36.364 31.06 0.00 36.49 1.82
3405 11714 7.480542 CGTCCGAAAGAAATTTTGGTTATACAG 59.519 37.037 6.84 0.00 36.91 2.74
3412 11721 9.476202 AAGAAATTTTGGTTATACAGAAAGTGC 57.524 29.630 0.00 0.00 0.00 4.40
3413 11722 8.637986 AGAAATTTTGGTTATACAGAAAGTGCA 58.362 29.630 0.00 0.00 0.00 4.57
3414 11723 9.255304 GAAATTTTGGTTATACAGAAAGTGCAA 57.745 29.630 0.00 0.00 0.00 4.08
3415 11724 8.587952 AATTTTGGTTATACAGAAAGTGCAAC 57.412 30.769 0.00 0.00 0.00 4.17
3435 11744 8.673711 GTGCAACTTATCCATGTTACTAAATCA 58.326 33.333 0.00 0.00 0.00 2.57
3436 11745 8.673711 TGCAACTTATCCATGTTACTAAATCAC 58.326 33.333 0.00 0.00 0.00 3.06
3437 11746 8.129211 GCAACTTATCCATGTTACTAAATCACC 58.871 37.037 0.00 0.00 0.00 4.02
3438 11747 8.621286 CAACTTATCCATGTTACTAAATCACCC 58.379 37.037 0.00 0.00 0.00 4.61
3439 11748 8.102484 ACTTATCCATGTTACTAAATCACCCT 57.898 34.615 0.00 0.00 0.00 4.34
3440 11749 7.993183 ACTTATCCATGTTACTAAATCACCCTG 59.007 37.037 0.00 0.00 0.00 4.45
3441 11750 6.575244 ATCCATGTTACTAAATCACCCTGA 57.425 37.500 0.00 0.00 0.00 3.86
3442 11751 6.381498 TCCATGTTACTAAATCACCCTGAA 57.619 37.500 0.00 0.00 0.00 3.02
3443 11752 6.785076 TCCATGTTACTAAATCACCCTGAAA 58.215 36.000 0.00 0.00 0.00 2.69
3444 11753 6.657541 TCCATGTTACTAAATCACCCTGAAAC 59.342 38.462 0.00 0.00 0.00 2.78
3445 11754 6.127730 CCATGTTACTAAATCACCCTGAAACC 60.128 42.308 0.00 0.00 0.00 3.27
3446 11755 5.318630 TGTTACTAAATCACCCTGAAACCC 58.681 41.667 0.00 0.00 0.00 4.11
3447 11756 3.451402 ACTAAATCACCCTGAAACCCC 57.549 47.619 0.00 0.00 0.00 4.95
3448 11757 2.993863 ACTAAATCACCCTGAAACCCCT 59.006 45.455 0.00 0.00 0.00 4.79
3449 11758 4.180723 ACTAAATCACCCTGAAACCCCTA 58.819 43.478 0.00 0.00 0.00 3.53
3450 11759 4.604490 ACTAAATCACCCTGAAACCCCTAA 59.396 41.667 0.00 0.00 0.00 2.69
3451 11760 4.479156 AAATCACCCTGAAACCCCTAAA 57.521 40.909 0.00 0.00 0.00 1.85
3452 11761 4.479156 AATCACCCTGAAACCCCTAAAA 57.521 40.909 0.00 0.00 0.00 1.52
3453 11762 3.975479 TCACCCTGAAACCCCTAAAAA 57.025 42.857 0.00 0.00 0.00 1.94
3474 11783 4.871933 AAAACTAAATCACCCTGGCTTG 57.128 40.909 0.00 0.00 0.00 4.01
3475 11784 3.806949 AACTAAATCACCCTGGCTTGA 57.193 42.857 0.00 0.00 0.00 3.02
3476 11785 3.806949 ACTAAATCACCCTGGCTTGAA 57.193 42.857 0.90 0.00 0.00 2.69
3477 11786 4.112634 ACTAAATCACCCTGGCTTGAAA 57.887 40.909 0.90 0.00 0.00 2.69
3478 11787 4.479158 ACTAAATCACCCTGGCTTGAAAA 58.521 39.130 0.90 0.00 0.00 2.29
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
18 7933 6.748658 GCGGTTGGATTAGGTGTTTAAATTAC 59.251 38.462 0.00 0.00 0.00 1.89
146 8065 1.625315 TGATCCAACTCCAGGTCTGTG 59.375 52.381 0.00 0.00 0.00 3.66
198 8117 4.220821 AGATCGAGCTTTTCAGTTCCAGTA 59.779 41.667 0.00 0.00 0.00 2.74
203 8122 2.999355 AGCAGATCGAGCTTTTCAGTTC 59.001 45.455 0.00 0.00 39.87 3.01
294 8221 4.373116 GACCAGCCGGCGTGAAGA 62.373 66.667 23.20 0.00 34.57 2.87
295 8222 4.379243 AGACCAGCCGGCGTGAAG 62.379 66.667 23.20 11.68 34.57 3.02
296 8223 4.373116 GAGACCAGCCGGCGTGAA 62.373 66.667 23.20 0.00 34.57 3.18
375 8307 9.672673 GCTATCACATTTATACAAGGGATACAT 57.327 33.333 0.00 0.00 39.74 2.29
376 8308 8.100791 GGCTATCACATTTATACAAGGGATACA 58.899 37.037 0.00 0.00 39.74 2.29
377 8309 8.100791 TGGCTATCACATTTATACAAGGGATAC 58.899 37.037 0.00 0.00 0.00 2.24
439 8378 3.052455 TGTACTCATGGCAACGAATGT 57.948 42.857 0.00 0.00 42.51 2.71
441 8384 5.822519 ACATAATGTACTCATGGCAACGAAT 59.177 36.000 0.00 0.00 42.51 3.34
459 8402 7.683578 TGATCTGCCAAATCTAGCTACATAAT 58.316 34.615 0.00 0.00 0.00 1.28
482 8436 6.059484 TCCGTGTCTACATGTACTCATATGA 58.941 40.000 5.07 5.07 32.47 2.15
582 8555 0.749818 TTCCACACACGCACCACAAT 60.750 50.000 0.00 0.00 0.00 2.71
659 8635 2.203422 CGGAACCCACCAAAGGCA 60.203 61.111 0.00 0.00 0.00 4.75
705 8681 0.251653 TACGACAGCCAGAGGAAGGT 60.252 55.000 0.00 0.00 0.00 3.50
773 8749 0.107606 CATCTTGCAGCCTGCTCTCT 60.108 55.000 18.96 0.00 45.31 3.10
784 8760 2.829914 GCCCGGCATCATCTTGCA 60.830 61.111 3.91 0.00 44.59 4.08
787 8763 1.033746 CACAAGCCCGGCATCATCTT 61.034 55.000 13.15 0.00 0.00 2.40
788 8764 1.452651 CACAAGCCCGGCATCATCT 60.453 57.895 13.15 0.00 0.00 2.90
789 8765 2.484062 CCACAAGCCCGGCATCATC 61.484 63.158 13.15 0.00 0.00 2.92
790 8766 2.440796 CCACAAGCCCGGCATCAT 60.441 61.111 13.15 0.00 0.00 2.45
809 8785 3.532641 AGAAAGAAGGTTGCCCAGAAT 57.467 42.857 0.00 0.00 0.00 2.40
871 8850 4.649674 CCATAGTTGGTTGTCCTCTAGCTA 59.350 45.833 0.00 0.00 38.30 3.32
872 8851 3.452627 CCATAGTTGGTTGTCCTCTAGCT 59.547 47.826 0.00 0.00 38.30 3.32
873 8852 3.451178 TCCATAGTTGGTTGTCCTCTAGC 59.549 47.826 0.00 0.00 44.06 3.42
874 8853 4.100189 CCTCCATAGTTGGTTGTCCTCTAG 59.900 50.000 0.00 0.00 44.06 2.43
888 8867 2.365635 AGGTGGCGCCTCCATAGT 60.366 61.111 40.44 23.01 46.96 2.12
915 8894 4.415150 CCCGATGCCTGCACCACT 62.415 66.667 0.00 0.00 0.00 4.00
1117 9097 4.792521 TCTTAGCTCTGGTCTTCAAGAC 57.207 45.455 9.27 9.27 44.32 3.01
1515 9658 3.648339 ATTGCAAACACTGATGTGGTC 57.352 42.857 1.71 0.00 44.45 4.02
1667 9810 3.120442 GGTGCAGTAATCCAACACGTTAC 60.120 47.826 0.00 0.00 32.00 2.50
1671 9814 0.802494 GGGTGCAGTAATCCAACACG 59.198 55.000 0.00 0.00 32.00 4.49
1702 9845 5.762218 CCTCTACAATCCTGTTCATCCAATC 59.238 44.000 0.00 0.00 36.96 2.67
1761 9904 6.071896 TCGTGATCTTTGTACTGACTGAGAAT 60.072 38.462 0.00 0.00 0.00 2.40
1772 9915 6.706055 TGAACTTCATCGTGATCTTTGTAC 57.294 37.500 0.00 0.00 0.00 2.90
1835 9978 8.373981 CCAGAATAGTCCATGTCTCAGAATAAT 58.626 37.037 0.00 0.00 0.00 1.28
1853 9996 0.758734 TCCCGGTGCATCCAGAATAG 59.241 55.000 0.00 0.00 35.57 1.73
1857 10000 0.331278 ATTTTCCCGGTGCATCCAGA 59.669 50.000 0.00 0.00 35.57 3.86
1908 10051 4.272489 TGTCCTTGATAGAAAAGCCCATG 58.728 43.478 0.00 0.00 0.00 3.66
2013 10156 1.143684 TCTTCAGCTTTGAGGCACCTT 59.856 47.619 0.00 0.00 34.17 3.50
2025 10168 4.464597 AGAACTTTATCGTCCTCTTCAGCT 59.535 41.667 0.00 0.00 0.00 4.24
2199 10342 8.395605 TCCCTTTTATGGTAAAGTAATGACCTT 58.604 33.333 0.00 0.00 34.11 3.50
2212 10355 3.244770 GGCCGATCATCCCTTTTATGGTA 60.245 47.826 0.00 0.00 0.00 3.25
2213 10356 2.489073 GGCCGATCATCCCTTTTATGGT 60.489 50.000 0.00 0.00 0.00 3.55
2215 10358 3.146104 AGGCCGATCATCCCTTTTATG 57.854 47.619 0.00 0.00 0.00 1.90
2218 10361 3.884037 ATAAGGCCGATCATCCCTTTT 57.116 42.857 12.19 4.25 39.54 2.27
2220 10363 6.146760 AGATATATAAGGCCGATCATCCCTT 58.853 40.000 11.78 11.78 41.57 3.95
2222 10365 5.777732 AGAGATATATAAGGCCGATCATCCC 59.222 44.000 0.00 0.00 0.00 3.85
2223 10366 6.909550 AGAGATATATAAGGCCGATCATCC 57.090 41.667 0.00 0.00 0.00 3.51
2226 10369 5.658634 AGCAAGAGATATATAAGGCCGATCA 59.341 40.000 0.00 0.00 0.00 2.92
2231 10374 5.046304 TCACCAGCAAGAGATATATAAGGCC 60.046 44.000 0.00 0.00 0.00 5.19
2232 10375 6.042638 TCACCAGCAAGAGATATATAAGGC 57.957 41.667 0.00 0.00 0.00 4.35
2233 10376 6.105333 GCTCACCAGCAAGAGATATATAAGG 58.895 44.000 0.00 0.00 46.06 2.69
2252 10413 4.692625 TCATTCTGTTTCTAAGCAGCTCAC 59.307 41.667 0.00 0.00 37.20 3.51
2254 10415 5.869753 TTCATTCTGTTTCTAAGCAGCTC 57.130 39.130 0.00 0.00 37.20 4.09
2263 10424 5.404946 CATCGGCAAATTCATTCTGTTTCT 58.595 37.500 0.00 0.00 0.00 2.52
2273 10434 1.137194 CGCAGCATCGGCAAATTCA 59.863 52.632 0.00 0.00 44.61 2.57
2291 10452 0.108138 CCACACCCCGAAGATGACTC 60.108 60.000 0.00 0.00 0.00 3.36
2328 10489 1.893808 GGTGCCATGGTAGGATGCG 60.894 63.158 14.67 0.00 0.00 4.73
2332 10493 3.792736 GCCGGTGCCATGGTAGGA 61.793 66.667 14.67 0.00 0.00 2.94
2349 10510 4.336433 CCAAGCTGTATACAGTGGGAAATG 59.664 45.833 28.95 17.76 45.45 2.32
2518 10687 8.831715 AAATGGGTAGCAAAGAAACTAAATTG 57.168 30.769 0.00 0.00 0.00 2.32
2616 10789 4.201950 ACATTGCATTCGAGGCATAGAAAC 60.202 41.667 13.61 0.00 41.58 2.78
2671 10852 2.034939 TGCTGTTCCATGCTCACAAAAG 59.965 45.455 0.00 0.00 0.00 2.27
2690 10871 5.187576 AGGATGATAGAGGAGCTCTTATTGC 59.812 44.000 14.64 0.00 41.50 3.56
2759 10940 5.705609 TCAATGGGAGCACTTTTAAGTTC 57.294 39.130 0.00 0.00 37.08 3.01
2777 10958 3.424703 ACAGCACAAACAGCCTATCAAT 58.575 40.909 0.00 0.00 0.00 2.57
3109 11403 9.831737 ATAAGCAACGCAATTATTATGAATCTC 57.168 29.630 0.00 0.00 0.00 2.75
3175 11469 7.289587 TGTGATCTACATGAAAATGTACACG 57.710 36.000 0.00 0.00 35.79 4.49
3227 11524 5.367945 TTCCTTCCATTCCATGTACTACC 57.632 43.478 0.00 0.00 0.00 3.18
3353 11661 5.696270 CCAAAAAGTTCCAAAGGCATCTAAC 59.304 40.000 0.00 0.00 0.00 2.34
3394 11703 6.952773 AAGTTGCACTTTCTGTATAACCAA 57.047 33.333 0.00 0.00 34.11 3.67
3405 11714 7.145932 AGTAACATGGATAAGTTGCACTTTC 57.854 36.000 0.00 5.35 39.51 2.62
3409 11718 8.673711 TGATTTAGTAACATGGATAAGTTGCAC 58.326 33.333 0.00 0.00 33.56 4.57
3410 11719 8.673711 GTGATTTAGTAACATGGATAAGTTGCA 58.326 33.333 0.00 0.00 33.56 4.08
3411 11720 8.129211 GGTGATTTAGTAACATGGATAAGTTGC 58.871 37.037 0.00 0.00 0.00 4.17
3412 11721 8.621286 GGGTGATTTAGTAACATGGATAAGTTG 58.379 37.037 0.00 0.00 0.00 3.16
3413 11722 8.557450 AGGGTGATTTAGTAACATGGATAAGTT 58.443 33.333 0.00 0.00 0.00 2.66
3414 11723 7.993183 CAGGGTGATTTAGTAACATGGATAAGT 59.007 37.037 0.00 0.00 0.00 2.24
3415 11724 8.210946 TCAGGGTGATTTAGTAACATGGATAAG 58.789 37.037 0.00 0.00 0.00 1.73
3416 11725 8.096621 TCAGGGTGATTTAGTAACATGGATAA 57.903 34.615 0.00 0.00 0.00 1.75
3417 11726 7.684317 TCAGGGTGATTTAGTAACATGGATA 57.316 36.000 0.00 0.00 0.00 2.59
3418 11727 6.575244 TCAGGGTGATTTAGTAACATGGAT 57.425 37.500 0.00 0.00 0.00 3.41
3419 11728 6.381498 TTCAGGGTGATTTAGTAACATGGA 57.619 37.500 0.00 0.00 0.00 3.41
3420 11729 6.127730 GGTTTCAGGGTGATTTAGTAACATGG 60.128 42.308 0.00 0.00 0.00 3.66
3421 11730 6.127730 GGGTTTCAGGGTGATTTAGTAACATG 60.128 42.308 0.00 0.00 0.00 3.21
3422 11731 5.949952 GGGTTTCAGGGTGATTTAGTAACAT 59.050 40.000 0.00 0.00 0.00 2.71
3423 11732 5.318630 GGGTTTCAGGGTGATTTAGTAACA 58.681 41.667 0.00 0.00 0.00 2.41
3424 11733 4.703575 GGGGTTTCAGGGTGATTTAGTAAC 59.296 45.833 0.00 0.00 0.00 2.50
3425 11734 4.604490 AGGGGTTTCAGGGTGATTTAGTAA 59.396 41.667 0.00 0.00 0.00 2.24
3426 11735 4.180723 AGGGGTTTCAGGGTGATTTAGTA 58.819 43.478 0.00 0.00 0.00 1.82
3427 11736 2.993863 AGGGGTTTCAGGGTGATTTAGT 59.006 45.455 0.00 0.00 0.00 2.24
3428 11737 3.739401 AGGGGTTTCAGGGTGATTTAG 57.261 47.619 0.00 0.00 0.00 1.85
3429 11738 5.602291 TTTAGGGGTTTCAGGGTGATTTA 57.398 39.130 0.00 0.00 0.00 1.40
3430 11739 4.479156 TTTAGGGGTTTCAGGGTGATTT 57.521 40.909 0.00 0.00 0.00 2.17
3431 11740 4.479156 TTTTAGGGGTTTCAGGGTGATT 57.521 40.909 0.00 0.00 0.00 2.57
3432 11741 4.479156 TTTTTAGGGGTTTCAGGGTGAT 57.521 40.909 0.00 0.00 0.00 3.06
3433 11742 3.975479 TTTTTAGGGGTTTCAGGGTGA 57.025 42.857 0.00 0.00 0.00 4.02
3452 11761 4.898861 TCAAGCCAGGGTGATTTAGTTTTT 59.101 37.500 0.00 0.00 0.00 1.94
3453 11762 4.479158 TCAAGCCAGGGTGATTTAGTTTT 58.521 39.130 0.00 0.00 0.00 2.43
3454 11763 4.112634 TCAAGCCAGGGTGATTTAGTTT 57.887 40.909 0.00 0.00 0.00 2.66
3455 11764 3.806949 TCAAGCCAGGGTGATTTAGTT 57.193 42.857 0.00 0.00 0.00 2.24
3456 11765 3.806949 TTCAAGCCAGGGTGATTTAGT 57.193 42.857 0.00 0.00 0.00 2.24


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

AutoCloner maintained by Alex Coulton.