Multiple sequence alignment - TraesCS4B01G255100

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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 TraesCS4B01G255100 chr4B 100.000 3409 0 0 1 3409 520228202 520231610 0.000000e+00 6296
1 TraesCS4B01G255100 chr4B 84.597 1662 176 43 569 2202 520237257 520238866 0.000000e+00 1578
2 TraesCS4B01G255100 chr4B 87.010 408 29 15 1 388 520236561 520236964 4.040000e-119 438
3 TraesCS4B01G255100 chr4B 84.898 245 13 8 2304 2542 520238916 520239142 3.420000e-55 226
4 TraesCS4B01G255100 chr4D 95.282 1505 43 7 1 1483 423879194 423880692 0.000000e+00 2361
5 TraesCS4B01G255100 chr4D 82.846 2221 237 62 386 2544 423906084 423908222 0.000000e+00 1858
6 TraesCS4B01G255100 chr4D 92.638 1141 48 11 1519 2649 423880695 423881809 0.000000e+00 1609
7 TraesCS4B01G255100 chr4D 96.078 612 17 4 2801 3409 423885396 423886003 0.000000e+00 990
8 TraesCS4B01G255100 chr4D 82.410 415 35 13 1 388 423905645 423906048 9.120000e-86 327
9 TraesCS4B01G255100 chr4D 90.583 223 12 4 2651 2865 423885177 423885398 1.550000e-73 287
10 TraesCS4B01G255100 chr4A 83.762 2100 239 49 496 2547 40437588 40435543 0.000000e+00 1895
11 TraesCS4B01G255100 chr4A 85.452 708 72 13 827 1530 40413697 40413017 0.000000e+00 708
12 TraesCS4B01G255100 chr4A 83.979 568 79 6 1643 2200 40413027 40412462 5.010000e-148 534
13 TraesCS4B01G255100 chr4A 86.232 414 26 15 1 388 40438049 40437641 1.460000e-113 420
14 TraesCS4B01G255100 chr4A 85.749 414 28 15 1 388 40414517 40414109 3.170000e-110 409
15 TraesCS4B01G255100 chr4A 85.749 414 28 15 1 388 40493323 40492915 3.170000e-110 409
16 TraesCS4B01G255100 chr4A 90.345 145 10 4 244 388 40495044 40495184 1.620000e-43 187
17 TraesCS4B01G255100 chr2D 98.333 120 2 0 2898 3017 23548938 23549057 9.580000e-51 211
18 TraesCS4B01G255100 chr1A 75.446 448 69 32 1016 1455 564345820 564345406 2.700000e-41 180
19 TraesCS4B01G255100 chr1A 86.014 143 18 2 1033 1174 564573430 564573571 5.890000e-33 152
20 TraesCS4B01G255100 chr1B 85.542 166 22 2 1016 1180 653938849 653938685 4.520000e-39 172
21 TraesCS4B01G255100 chr1B 78.049 246 48 6 937 1180 653975601 653975360 2.120000e-32 150


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 TraesCS4B01G255100 chr4B 520228202 520231610 3408 False 6296.000000 6296 100.000000 1 3409 1 chr4B.!!$F1 3408
1 TraesCS4B01G255100 chr4B 520236561 520239142 2581 False 747.333333 1578 85.501667 1 2542 3 chr4B.!!$F2 2541
2 TraesCS4B01G255100 chr4D 423879194 423886003 6809 False 1311.750000 2361 93.645250 1 3409 4 chr4D.!!$F1 3408
3 TraesCS4B01G255100 chr4D 423905645 423908222 2577 False 1092.500000 1858 82.628000 1 2544 2 chr4D.!!$F2 2543
4 TraesCS4B01G255100 chr4A 40435543 40438049 2506 True 1157.500000 1895 84.997000 1 2547 2 chr4A.!!$R3 2546
5 TraesCS4B01G255100 chr4A 40412462 40414517 2055 True 550.333333 708 85.060000 1 2200 3 chr4A.!!$R2 2199

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
299 334 1.210478 ACTCAACACTGCACAGGTCTT 59.790 47.619 2.21 0.0 0.0 3.01 F
1562 1772 0.107945 ATCTTCAACTCTCAGCGGCC 60.108 55.000 0.00 0.0 0.0 6.13 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1860 2079 0.106868 CATCCTCCTCTGGCAATGCA 60.107 55.0 7.79 0.00 0.00 3.96 R
3002 6685 0.107456 CAACACCAGGCAGTCTGACT 59.893 55.0 0.94 0.94 46.18 3.41 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
162 188 3.626217 TGAGCAGAGCATCATTCACATTC 59.374 43.478 0.00 0.00 37.82 2.67
299 334 1.210478 ACTCAACACTGCACAGGTCTT 59.790 47.619 2.21 0.00 0.00 3.01
394 466 8.972458 TCCGATCCAATTAATTCATTGTTAGA 57.028 30.769 10.63 2.95 32.95 2.10
415 487 6.126863 AGACAATTCATGAGTTCCCAAGTA 57.873 37.500 0.00 0.00 0.00 2.24
416 488 6.176183 AGACAATTCATGAGTTCCCAAGTAG 58.824 40.000 0.00 0.00 0.00 2.57
417 489 6.013379 AGACAATTCATGAGTTCCCAAGTAGA 60.013 38.462 0.00 0.00 0.00 2.59
418 490 6.176183 ACAATTCATGAGTTCCCAAGTAGAG 58.824 40.000 0.00 0.00 0.00 2.43
419 491 3.895232 TCATGAGTTCCCAAGTAGAGC 57.105 47.619 0.00 0.00 0.00 4.09
437 516 3.139025 AGAGCAATTAGCCCATGGTACAT 59.861 43.478 11.73 0.00 45.65 2.29
438 517 3.225104 AGCAATTAGCCCATGGTACATG 58.775 45.455 11.73 2.34 45.65 3.21
439 518 2.297033 GCAATTAGCCCATGGTACATGG 59.703 50.000 18.93 18.93 39.95 3.66
440 519 4.002776 GCAATTAGCCCATGGTACATGGA 61.003 47.826 25.57 9.36 41.64 3.41
441 520 5.473969 GCAATTAGCCCATGGTACATGGAA 61.474 45.833 25.57 14.46 41.64 3.53
482 561 1.986882 AGCCCTTCTTCCAGTTTGTG 58.013 50.000 0.00 0.00 0.00 3.33
513 592 2.844811 CTGATTAATCAGCTACGCGC 57.155 50.000 27.87 0.00 46.63 6.86
605 767 3.005050 TGCAGAGCTCTTGAAACAAATGG 59.995 43.478 15.27 0.00 0.00 3.16
755 921 6.106648 TCTTGGTCTAATCCTGCATATCTG 57.893 41.667 0.00 0.00 0.00 2.90
761 927 5.872070 GTCTAATCCTGCATATCTGTAAGCC 59.128 44.000 0.00 0.00 0.00 4.35
885 1085 8.650714 GCTGAACTTGAAATGGATTAAAATGAC 58.349 33.333 0.00 0.00 0.00 3.06
1176 1380 3.933886 TGCCTTCTCCTCTAATCCAGAT 58.066 45.455 0.00 0.00 31.13 2.90
1186 1390 5.070981 TCCTCTAATCCAGATTACTGCAAGG 59.929 44.000 0.00 0.81 42.25 3.61
1215 1419 5.429681 TGAAAATTCCGATGGGTCTTCTA 57.570 39.130 0.00 0.00 33.83 2.10
1223 1427 5.144832 TCCGATGGGTCTTCTATATCAACA 58.855 41.667 0.00 0.00 33.83 3.33
1293 1497 0.749454 CTAGCCTGCCCCACAATGAC 60.749 60.000 0.00 0.00 0.00 3.06
1483 1693 6.358178 CCTGATACTCCTCCTAGCGATTATA 58.642 44.000 0.00 0.00 0.00 0.98
1485 1695 7.339721 CCTGATACTCCTCCTAGCGATTATAAA 59.660 40.741 0.00 0.00 0.00 1.40
1493 1703 7.497909 TCCTCCTAGCGATTATAAACCTTTTTG 59.502 37.037 0.00 0.00 0.00 2.44
1498 1708 7.524294 AGCGATTATAAACCTTTTTGCAATG 57.476 32.000 0.00 0.00 0.00 2.82
1504 1714 9.777297 ATTATAAACCTTTTTGCAATGTGAGTT 57.223 25.926 0.00 0.00 0.00 3.01
1512 1722 2.309613 TGCAATGTGAGTTTTCTGGCT 58.690 42.857 0.00 0.00 0.00 4.75
1515 1725 4.122046 GCAATGTGAGTTTTCTGGCTTTT 58.878 39.130 0.00 0.00 0.00 2.27
1553 1763 6.641314 TCGACAAAGTTCTACATCTTCAACTC 59.359 38.462 0.00 0.00 0.00 3.01
1562 1772 0.107945 ATCTTCAACTCTCAGCGGCC 60.108 55.000 0.00 0.00 0.00 6.13
1566 1776 4.443266 AACTCTCAGCGGCCGAGC 62.443 66.667 33.48 12.91 37.41 5.03
1600 1810 2.470983 ATTTGGCCCCGTCAAATTTG 57.529 45.000 12.15 12.15 44.01 2.32
1610 1820 3.317993 CCCGTCAAATTTGAGGTGTTCTT 59.682 43.478 29.27 0.00 40.44 2.52
1636 1846 4.850680 TGACCTTAACACTTGGTTTCTGT 58.149 39.130 0.00 0.00 40.96 3.41
1655 1865 6.721704 TCTGTATGATACATCAGTGCTCTT 57.278 37.500 5.65 0.00 40.64 2.85
1660 1870 4.763073 TGATACATCAGTGCTCTTTGAGG 58.237 43.478 3.23 0.00 32.11 3.86
1734 1944 2.821969 AGGTTTGCATGACATTCTGGTC 59.178 45.455 0.00 0.00 38.29 4.02
1803 2022 3.113745 CCGCATGAAGATGGTGCC 58.886 61.111 0.00 0.00 35.51 5.01
1833 2052 1.490069 AGGTTTGGCCAATGTTGCTTT 59.510 42.857 21.26 0.00 40.61 3.51
1860 2079 2.270874 CTTCGGGGGCCTTGCACTAT 62.271 60.000 0.84 0.00 29.71 2.12
2009 2228 1.250840 GGTGCACCCCACTGGAAATC 61.251 60.000 26.31 0.00 44.08 2.17
2059 2278 3.772025 GGAGAGAGATGGTCTTTTCCTGA 59.228 47.826 0.00 0.00 36.81 3.86
2082 2301 2.289444 TGACAAACGGGAGGACAAGATC 60.289 50.000 0.00 0.00 0.00 2.75
2097 2316 6.443792 GGACAAGATCCGTTTGTACAAAATT 58.556 36.000 22.14 7.79 38.87 1.82
2108 2327 2.814919 TGTACAAAATTAGCACCGGTGG 59.185 45.455 34.58 18.07 0.00 4.61
2116 2335 1.180029 TAGCACCGGTGGACTTACTC 58.820 55.000 34.58 15.96 0.00 2.59
2256 2483 4.794278 TTGAGCGTGACACCTCTTTATA 57.206 40.909 18.79 2.89 0.00 0.98
2257 2484 5.339008 TTGAGCGTGACACCTCTTTATAT 57.661 39.130 18.79 0.00 0.00 0.86
2258 2485 6.459670 TTGAGCGTGACACCTCTTTATATA 57.540 37.500 18.79 1.85 0.00 0.86
2259 2486 6.650427 TGAGCGTGACACCTCTTTATATAT 57.350 37.500 18.79 0.00 0.00 0.86
2354 2582 7.995463 TTTTTGTTTTCTTGAACCTATTCCG 57.005 32.000 0.00 0.00 33.49 4.30
2401 2631 5.450688 GGTTAGCTCTATTCTGTCGTCATGT 60.451 44.000 0.00 0.00 0.00 3.21
2402 2632 6.238676 GGTTAGCTCTATTCTGTCGTCATGTA 60.239 42.308 0.00 0.00 0.00 2.29
2403 2633 5.836821 AGCTCTATTCTGTCGTCATGTAA 57.163 39.130 0.00 0.00 0.00 2.41
2404 2634 6.208988 AGCTCTATTCTGTCGTCATGTAAA 57.791 37.500 0.00 0.00 0.00 2.01
2422 2652 9.665719 TCATGTAAATAAACTGATTGTAGCAGA 57.334 29.630 0.00 0.00 36.86 4.26
2477 2727 1.487976 CCCTAGCCATCTCTCTGCAAA 59.512 52.381 0.00 0.00 0.00 3.68
2478 2728 2.106166 CCCTAGCCATCTCTCTGCAAAT 59.894 50.000 0.00 0.00 0.00 2.32
2479 2729 3.326006 CCCTAGCCATCTCTCTGCAAATA 59.674 47.826 0.00 0.00 0.00 1.40
2480 2730 4.314121 CCTAGCCATCTCTCTGCAAATAC 58.686 47.826 0.00 0.00 0.00 1.89
2481 2731 3.920231 AGCCATCTCTCTGCAAATACA 57.080 42.857 0.00 0.00 0.00 2.29
2482 2732 3.806380 AGCCATCTCTCTGCAAATACAG 58.194 45.455 0.00 0.00 39.12 2.74
2483 2733 3.199508 AGCCATCTCTCTGCAAATACAGT 59.800 43.478 0.00 0.00 38.84 3.55
2484 2734 3.944015 GCCATCTCTCTGCAAATACAGTT 59.056 43.478 0.00 0.00 38.84 3.16
2485 2735 4.034975 GCCATCTCTCTGCAAATACAGTTC 59.965 45.833 0.00 0.00 38.84 3.01
2486 2736 4.574013 CCATCTCTCTGCAAATACAGTTCC 59.426 45.833 0.00 0.00 38.84 3.62
2487 2737 5.426504 CATCTCTCTGCAAATACAGTTCCT 58.573 41.667 0.00 0.00 38.84 3.36
2488 2738 4.825422 TCTCTCTGCAAATACAGTTCCTG 58.175 43.478 0.00 0.00 38.84 3.86
2489 2739 4.528206 TCTCTCTGCAAATACAGTTCCTGA 59.472 41.667 0.00 0.00 38.84 3.86
2490 2740 5.012046 TCTCTCTGCAAATACAGTTCCTGAA 59.988 40.000 0.00 0.00 38.84 3.02
2491 2741 5.620206 TCTCTGCAAATACAGTTCCTGAAA 58.380 37.500 0.00 0.00 38.84 2.69
2496 2746 6.454795 TGCAAATACAGTTCCTGAAATTTCC 58.545 36.000 15.48 0.00 32.74 3.13
2533 2783 7.012799 GCTGAATTTCTTGGAAATACTAGAGGG 59.987 40.741 0.00 0.00 0.00 4.30
2534 2784 8.158025 TGAATTTCTTGGAAATACTAGAGGGA 57.842 34.615 0.00 0.00 0.00 4.20
2586 2836 4.552365 ATCATGGCGTGCTCCCGG 62.552 66.667 0.65 0.00 0.00 5.73
2608 2858 4.889995 GGGAAAGGATAAACTGGATTCAGG 59.110 45.833 5.84 0.00 44.99 3.86
2622 2872 5.316987 TGGATTCAGGAAGGAGAAAGTTTC 58.683 41.667 7.57 7.57 0.00 2.78
2632 2882 7.396623 AGGAAGGAGAAAGTTTCGACTATCTAA 59.603 37.037 9.91 0.00 34.02 2.10
2642 2892 6.695292 TTTCGACTATCTAACGTTGAAACC 57.305 37.500 11.99 0.00 38.15 3.27
2649 2899 7.263496 ACTATCTAACGTTGAAACCCATACTC 58.737 38.462 11.99 0.00 0.00 2.59
2652 6268 2.774687 ACGTTGAAACCCATACTCCAC 58.225 47.619 0.00 0.00 0.00 4.02
2657 6273 4.927267 TGAAACCCATACTCCACTTCAT 57.073 40.909 0.00 0.00 0.00 2.57
2702 6318 4.714632 TGGTATAGCCCTTTACATTGCTC 58.285 43.478 0.00 0.00 35.34 4.26
2704 6320 4.998033 GGTATAGCCCTTTACATTGCTCTC 59.002 45.833 0.00 0.00 35.34 3.20
2708 6324 4.455606 AGCCCTTTACATTGCTCTCATAC 58.544 43.478 0.00 0.00 0.00 2.39
2796 6416 4.819769 ACTGCTCCGTTTTAAACCGTATA 58.180 39.130 4.40 0.00 0.00 1.47
2812 6432 2.682856 CGTATATGCTGGCAGTGGTTTT 59.317 45.455 17.16 0.00 0.00 2.43
2815 6435 5.334105 CGTATATGCTGGCAGTGGTTTTATC 60.334 44.000 17.16 0.00 0.00 1.75
2833 6453 8.221100 GGTTTTATCGTACATGCATGTATGTAG 58.779 37.037 38.96 29.03 45.77 2.74
2865 6548 2.125106 GGCTACTGCGGAGTTGGG 60.125 66.667 16.89 7.43 40.82 4.12
2896 6579 2.292559 TACGGGGGCCAGTACAACC 61.293 63.158 4.39 0.00 0.00 3.77
3010 6693 4.436368 CCACCGGGTAGTCAGACT 57.564 61.111 6.32 8.50 0.00 3.24
3086 6769 0.617935 TGGATCGTGATCTTGGCCAA 59.382 50.000 19.25 19.25 37.92 4.52
3135 6818 2.494918 GTGATGGACGTCCCCTCG 59.505 66.667 31.19 0.00 32.84 4.63
3265 6948 1.063649 CCGTCGACGACCATGTAGG 59.936 63.158 37.65 14.70 43.02 3.18
3390 7076 0.106708 AGAACAGCTTTGAGGTGCGA 59.893 50.000 7.02 0.00 46.94 5.10
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
394 466 6.126863 TCTACTTGGGAACTCATGAATTGT 57.873 37.500 0.00 0.00 0.00 2.71
399 471 3.173151 TGCTCTACTTGGGAACTCATGA 58.827 45.455 0.00 0.00 0.00 3.07
415 487 2.509548 TGTACCATGGGCTAATTGCTCT 59.490 45.455 18.09 0.00 44.09 4.09
416 488 2.930950 TGTACCATGGGCTAATTGCTC 58.069 47.619 18.09 0.00 44.01 4.26
417 489 3.225104 CATGTACCATGGGCTAATTGCT 58.775 45.455 18.09 0.00 42.39 3.91
418 490 2.297033 CCATGTACCATGGGCTAATTGC 59.703 50.000 18.09 0.00 41.94 3.56
419 491 3.831323 TCCATGTACCATGGGCTAATTG 58.169 45.455 18.09 5.75 39.60 2.32
437 516 3.521531 TGCACATAGTACCTTCCATTCCA 59.478 43.478 0.00 0.00 0.00 3.53
438 517 4.130118 CTGCACATAGTACCTTCCATTCC 58.870 47.826 0.00 0.00 0.00 3.01
439 518 4.770795 ACTGCACATAGTACCTTCCATTC 58.229 43.478 0.00 0.00 0.00 2.67
440 519 4.844349 ACTGCACATAGTACCTTCCATT 57.156 40.909 0.00 0.00 0.00 3.16
441 520 4.844349 AACTGCACATAGTACCTTCCAT 57.156 40.909 0.00 0.00 0.00 3.41
512 591 8.352942 AGGAAATCATGAATTAATTAACTCGGC 58.647 33.333 0.00 0.00 0.00 5.54
640 804 1.205893 AGCCGTTTGGTTTTCTTGCAA 59.794 42.857 0.00 0.00 37.67 4.08
755 921 2.787129 GCAAAACTGAACAACGGCTTAC 59.213 45.455 0.00 0.00 0.00 2.34
761 927 6.964934 AGTACTAAAAGCAAAACTGAACAACG 59.035 34.615 0.00 0.00 0.00 4.10
845 1037 7.391148 TCAAGTTCAGCTTTATTGGGATAAC 57.609 36.000 0.00 0.00 34.69 1.89
1176 1380 5.590530 TTTTCAAAAGCTCCTTGCAGTAA 57.409 34.783 4.06 0.00 45.94 2.24
1186 1390 4.176271 CCCATCGGAATTTTCAAAAGCTC 58.824 43.478 0.00 0.00 0.00 4.09
1215 1419 9.119418 TCAAATTCATCATAACGGTGTTGATAT 57.881 29.630 5.93 0.00 30.39 1.63
1293 1497 7.388460 ACTAAGAGCTTCATCAAATTCCTTG 57.612 36.000 0.00 0.00 36.25 3.61
1348 1552 0.323178 AGGCCATTGCAAGAGTCCAG 60.323 55.000 5.01 0.00 40.13 3.86
1483 1693 6.654582 AGAAAACTCACATTGCAAAAAGGTTT 59.345 30.769 1.71 9.61 0.00 3.27
1485 1695 5.581874 CAGAAAACTCACATTGCAAAAAGGT 59.418 36.000 1.71 0.00 0.00 3.50
1493 1703 3.375782 AAGCCAGAAAACTCACATTGC 57.624 42.857 0.00 0.00 0.00 3.56
1512 1722 2.026729 TGTCGACCATGATGGGCTAAAA 60.027 45.455 16.59 0.00 45.79 1.52
1515 1725 1.199615 TTGTCGACCATGATGGGCTA 58.800 50.000 16.59 0.32 45.79 3.93
1580 1790 3.165875 TCAAATTTGACGGGGCCAAATA 58.834 40.909 16.91 0.00 41.71 1.40
1597 1807 3.199946 AGGTCAGACAAGAACACCTCAAA 59.800 43.478 2.17 0.00 31.41 2.69
1600 1810 3.477210 AAGGTCAGACAAGAACACCTC 57.523 47.619 2.17 0.00 36.40 3.85
1610 1820 4.497291 AACCAAGTGTTAAGGTCAGACA 57.503 40.909 2.17 0.00 34.69 3.41
1636 1846 6.519382 CCTCAAAGAGCACTGATGTATCATA 58.481 40.000 0.00 0.00 36.02 2.15
1655 1865 2.616842 GGTCGAGAAACTTTTGCCTCAA 59.383 45.455 0.00 0.00 0.00 3.02
1660 1870 2.096819 TGTGTGGTCGAGAAACTTTTGC 59.903 45.455 0.00 0.00 0.00 3.68
1734 1944 2.355209 GCCAGAACTAGTTTCCTCCAGG 60.355 54.545 10.02 4.10 34.32 4.45
1803 2022 3.094484 TGGCCAAACCTACCCATAAAG 57.906 47.619 0.61 0.00 40.22 1.85
1833 2052 4.440829 GCCCCCGAAGATTGGCCA 62.441 66.667 0.00 0.00 37.94 5.36
1860 2079 0.106868 CATCCTCCTCTGGCAATGCA 60.107 55.000 7.79 0.00 0.00 3.96
1997 2216 2.838736 CATAGTCGGATTTCCAGTGGG 58.161 52.381 9.92 0.00 35.14 4.61
2059 2278 2.105821 TCTTGTCCTCCCGTTTGTCAAT 59.894 45.455 0.00 0.00 0.00 2.57
2082 2301 3.909574 CGGTGCTAATTTTGTACAAACGG 59.090 43.478 20.43 11.41 0.00 4.44
2097 2316 1.180029 GAGTAAGTCCACCGGTGCTA 58.820 55.000 29.75 16.32 0.00 3.49
2108 2327 6.146347 GTCTTCTGGTTGAATGTGAGTAAGTC 59.854 42.308 0.00 0.00 33.71 3.01
2116 2335 2.554032 GGTGGTCTTCTGGTTGAATGTG 59.446 50.000 0.00 0.00 33.71 3.21
2422 2652 0.329261 TCCCAGCTTACATGCAGCTT 59.671 50.000 15.74 1.54 45.82 3.74
2486 2736 3.131755 GCATCTTCCCTGGGAAATTTCAG 59.868 47.826 27.32 15.55 41.54 3.02
2487 2737 3.099141 GCATCTTCCCTGGGAAATTTCA 58.901 45.455 27.32 10.66 41.54 2.69
2488 2738 3.131755 CAGCATCTTCCCTGGGAAATTTC 59.868 47.826 27.32 16.78 41.54 2.17
2489 2739 3.102204 CAGCATCTTCCCTGGGAAATTT 58.898 45.455 27.32 13.11 41.54 1.82
2490 2740 2.312741 TCAGCATCTTCCCTGGGAAATT 59.687 45.455 27.32 15.50 41.54 1.82
2491 2741 1.925255 TCAGCATCTTCCCTGGGAAAT 59.075 47.619 27.32 19.66 41.54 2.17
2496 2746 3.629087 AGAAATTCAGCATCTTCCCTGG 58.371 45.455 0.00 0.00 0.00 4.45
2533 2783 2.671888 CAGATGTCACAGAGCACACATC 59.328 50.000 3.21 3.21 43.70 3.06
2534 2784 2.038164 ACAGATGTCACAGAGCACACAT 59.962 45.455 0.00 0.00 32.02 3.21
2586 2836 5.755849 TCCTGAATCCAGTTTATCCTTTCC 58.244 41.667 0.00 0.00 38.74 3.13
2608 2858 7.218583 CGTTAGATAGTCGAAACTTTCTCCTTC 59.781 40.741 2.45 0.00 41.26 3.46
2622 2872 4.487948 TGGGTTTCAACGTTAGATAGTCG 58.512 43.478 0.00 0.00 0.00 4.18
2632 2882 2.370849 AGTGGAGTATGGGTTTCAACGT 59.629 45.455 0.00 0.00 0.00 3.99
2702 6318 9.057089 GTGGGGAATTGTTATTTCTAGTATGAG 57.943 37.037 0.00 0.00 0.00 2.90
2704 6320 8.746052 TGTGGGGAATTGTTATTTCTAGTATG 57.254 34.615 0.00 0.00 0.00 2.39
2708 6324 7.545615 GCTTTTGTGGGGAATTGTTATTTCTAG 59.454 37.037 0.00 0.00 0.00 2.43
2796 6416 1.745087 CGATAAAACCACTGCCAGCAT 59.255 47.619 0.00 0.00 0.00 3.79
2812 6432 5.092781 CGCTACATACATGCATGTACGATA 58.907 41.667 35.53 25.67 45.11 2.92
2815 6435 2.408368 CCGCTACATACATGCATGTACG 59.592 50.000 35.53 31.05 45.11 3.67
2865 6548 4.878682 CCGTACGCCCCTTACGCC 62.879 72.222 10.49 0.00 40.82 5.68
2896 6579 0.456221 ACGTACAAGATGGAGCTCCG 59.544 55.000 27.43 15.16 39.43 4.63
3002 6685 0.107456 CAACACCAGGCAGTCTGACT 59.893 55.000 0.94 0.94 46.18 3.41
3010 6693 1.454847 GAACCCACAACACCAGGCA 60.455 57.895 0.00 0.00 0.00 4.75
3265 6948 1.079503 GAGACCATCAACAAGACCGC 58.920 55.000 0.00 0.00 0.00 5.68


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

AutoCloner maintained by Alex Coulton.