Multiple sequence alignment - TraesCS5D01G288900

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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 TraesCS5D01G288900 chr5D 100.000 2360 0 0 1 2360 387959770 387962129 0.000000e+00 4359.0
1 TraesCS5D01G288900 chr5D 84.762 105 16 0 1089 1193 387989477 387989581 3.210000e-19 106.0
2 TraesCS5D01G288900 chr5B 89.351 1540 54 36 549 2059 466525109 466526567 0.000000e+00 1834.0
3 TraesCS5D01G288900 chr5B 91.166 283 14 2 2078 2360 466526552 466526823 7.960000e-100 374.0
4 TraesCS5D01G288900 chr5B 77.949 195 35 5 1087 1280 466616341 466616528 5.330000e-22 115.0
5 TraesCS5D01G288900 chr5A 96.036 782 18 4 715 1488 491093471 491094247 0.000000e+00 1260.0
6 TraesCS5D01G288900 chr5A 94.017 468 19 5 1593 2059 491094348 491094807 0.000000e+00 701.0
7 TraesCS5D01G288900 chr5A 84.533 375 40 7 1 375 460473055 460473411 2.880000e-94 355.0
8 TraesCS5D01G288900 chr5A 90.741 108 5 4 1470 1575 491094261 491094365 3.160000e-29 139.0
9 TraesCS5D01G288900 chr5A 82.243 107 19 0 1087 1193 491162911 491163017 2.500000e-15 93.5
10 TraesCS5D01G288900 chr4D 83.877 583 53 16 6 550 66566805 66566226 3.480000e-143 518.0
11 TraesCS5D01G288900 chr7D 81.109 577 62 27 3 550 15226895 15226337 3.630000e-113 418.0
12 TraesCS5D01G288900 chr7D 78.752 513 76 23 43 538 479145905 479146401 1.760000e-81 313.0
13 TraesCS5D01G288900 chr1B 81.125 551 74 22 1 540 403094095 403093564 4.690000e-112 414.0
14 TraesCS5D01G288900 chr1B 84.800 375 44 5 1 375 43996156 43996517 4.790000e-97 364.0
15 TraesCS5D01G288900 chr1B 84.434 212 23 6 2 205 565693959 565694168 1.430000e-47 200.0
16 TraesCS5D01G288900 chr2D 80.574 592 56 29 1 550 560955653 560956227 3.650000e-108 401.0
17 TraesCS5D01G288900 chr2D 79.596 544 55 27 1 500 651504102 651503571 2.910000e-89 339.0
18 TraesCS5D01G288900 chr6D 79.526 591 58 37 1 550 140035821 140036389 1.720000e-96 363.0
19 TraesCS5D01G288900 chr6D 96.875 32 0 1 1088 1119 37449700 37449730 4.000000e-03 52.8
20 TraesCS5D01G288900 chr1A 82.609 391 36 16 4 369 319088175 319087792 1.360000e-82 316.0
21 TraesCS5D01G288900 chr1A 77.547 579 92 22 1 550 359228042 359227473 4.900000e-82 315.0
22 TraesCS5D01G288900 chr7A 82.493 377 42 14 1 375 23526578 23526932 2.280000e-80 309.0
23 TraesCS5D01G288900 chr3D 91.975 162 12 1 1 161 164995982 164996143 2.360000e-55 226.0
24 TraesCS5D01G288900 chr3D 97.143 35 1 0 145 179 338301067 338301033 2.530000e-05 60.2
25 TraesCS5D01G288900 chr3D 96.970 33 1 0 151 183 164996144 164996176 3.280000e-04 56.5
26 TraesCS5D01G288900 chr7B 77.561 410 55 23 5 410 152488750 152488374 1.840000e-51 213.0
27 TraesCS5D01G288900 chr4A 77.607 326 40 12 243 538 706848666 706848988 1.450000e-37 167.0
28 TraesCS5D01G288900 chr6B 96.875 32 0 1 1088 1119 87560144 87560174 4.000000e-03 52.8


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 TraesCS5D01G288900 chr5D 387959770 387962129 2359 False 4359 4359 100.0000 1 2360 1 chr5D.!!$F1 2359
1 TraesCS5D01G288900 chr5B 466525109 466526823 1714 False 1104 1834 90.2585 549 2360 2 chr5B.!!$F2 1811
2 TraesCS5D01G288900 chr5A 491093471 491094807 1336 False 700 1260 93.5980 715 2059 3 chr5A.!!$F3 1344
3 TraesCS5D01G288900 chr4D 66566226 66566805 579 True 518 518 83.8770 6 550 1 chr4D.!!$R1 544
4 TraesCS5D01G288900 chr7D 15226337 15226895 558 True 418 418 81.1090 3 550 1 chr7D.!!$R1 547
5 TraesCS5D01G288900 chr1B 403093564 403094095 531 True 414 414 81.1250 1 540 1 chr1B.!!$R1 539
6 TraesCS5D01G288900 chr2D 560955653 560956227 574 False 401 401 80.5740 1 550 1 chr2D.!!$F1 549
7 TraesCS5D01G288900 chr2D 651503571 651504102 531 True 339 339 79.5960 1 500 1 chr2D.!!$R1 499
8 TraesCS5D01G288900 chr6D 140035821 140036389 568 False 363 363 79.5260 1 550 1 chr6D.!!$F2 549
9 TraesCS5D01G288900 chr1A 359227473 359228042 569 True 315 315 77.5470 1 550 1 chr1A.!!$R2 549

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
37 38 0.243095 ACCGACCTAGCGTTCTTGAC 59.757 55.0 0.0 0.0 0.0 3.18 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1935 2069 0.889306 ACCCGTCTCCTTTTCGAGAG 59.111 55.0 0.0 0.0 39.56 3.2 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
26 27 2.599408 AGAAGAGGAACACCGACCTA 57.401 50.000 0.00 0.00 36.57 3.08
37 38 0.243095 ACCGACCTAGCGTTCTTGAC 59.757 55.000 0.00 0.00 0.00 3.18
180 202 3.286751 GCACTGAAGCCACGCCAA 61.287 61.111 0.00 0.00 0.00 4.52
181 203 2.629656 GCACTGAAGCCACGCCAAT 61.630 57.895 0.00 0.00 0.00 3.16
206 231 2.357881 CCGAGCACTGAAGCTGCA 60.358 61.111 1.02 0.00 46.75 4.41
211 236 2.037136 GCACTGAAGCTGCACCGAT 61.037 57.895 1.02 0.00 34.56 4.18
236 270 2.031012 CCGAGCACTGAAGCCACA 59.969 61.111 0.00 0.00 34.23 4.17
297 331 1.682854 CAAAGGAGCCTGCAGTTTGAA 59.317 47.619 17.42 0.00 31.10 2.69
577 641 4.594970 TGAAGAGAAAACAACTTCACCCA 58.405 39.130 0.00 0.00 42.91 4.51
625 689 2.115427 TGCAAGTTCTCCATATCCCGA 58.885 47.619 0.00 0.00 0.00 5.14
628 692 1.343069 AGTTCTCCATATCCCGAGGC 58.657 55.000 0.00 0.00 0.00 4.70
659 725 9.157104 CATCTAGGTAGTTTTTCTTCTTCTTCC 57.843 37.037 0.00 0.00 0.00 3.46
660 726 8.493787 TCTAGGTAGTTTTTCTTCTTCTTCCT 57.506 34.615 0.00 0.00 32.39 3.36
661 727 8.586744 TCTAGGTAGTTTTTCTTCTTCTTCCTC 58.413 37.037 0.00 0.00 30.75 3.71
673 739 9.543783 TTCTTCTTCTTCCTCTGTTAAACTAAC 57.456 33.333 0.00 0.00 39.11 2.34
674 740 8.925338 TCTTCTTCTTCCTCTGTTAAACTAACT 58.075 33.333 0.00 0.00 39.38 2.24
677 743 8.305317 TCTTCTTCCTCTGTTAAACTAACTAGC 58.695 37.037 0.00 0.00 39.38 3.42
678 744 7.778185 TCTTCCTCTGTTAAACTAACTAGCT 57.222 36.000 0.00 0.00 39.38 3.32
679 745 8.191534 TCTTCCTCTGTTAAACTAACTAGCTT 57.808 34.615 0.00 0.00 39.38 3.74
680 746 8.088981 TCTTCCTCTGTTAAACTAACTAGCTTG 58.911 37.037 0.00 0.00 39.38 4.01
681 747 7.534723 TCCTCTGTTAAACTAACTAGCTTGA 57.465 36.000 1.04 0.00 39.38 3.02
682 748 7.959175 TCCTCTGTTAAACTAACTAGCTTGAA 58.041 34.615 1.04 0.00 39.38 2.69
683 749 8.426489 TCCTCTGTTAAACTAACTAGCTTGAAA 58.574 33.333 1.04 0.00 39.38 2.69
684 750 9.052759 CCTCTGTTAAACTAACTAGCTTGAAAA 57.947 33.333 1.04 0.00 39.38 2.29
920 995 5.006153 ACACGCATAGTACAATTCTAGCA 57.994 39.130 0.00 0.00 0.00 3.49
1011 1086 1.693062 TGCAAATCCACCAAGCAACAT 59.307 42.857 0.00 0.00 31.42 2.71
1022 1097 4.093998 CACCAAGCAACATCTAACAGCTAG 59.906 45.833 0.00 0.00 34.66 3.42
1023 1098 3.064545 CCAAGCAACATCTAACAGCTAGC 59.935 47.826 6.62 6.62 34.66 3.42
1024 1099 3.902881 AGCAACATCTAACAGCTAGCT 57.097 42.857 12.68 12.68 33.06 3.32
1025 1100 3.791245 AGCAACATCTAACAGCTAGCTC 58.209 45.455 16.15 0.00 33.06 4.09
1026 1101 3.196469 AGCAACATCTAACAGCTAGCTCA 59.804 43.478 16.15 1.88 33.06 4.26
1027 1102 3.308323 GCAACATCTAACAGCTAGCTCAC 59.692 47.826 16.15 0.00 0.00 3.51
1028 1103 4.498241 CAACATCTAACAGCTAGCTCACA 58.502 43.478 16.15 1.08 0.00 3.58
1029 1104 4.808414 ACATCTAACAGCTAGCTCACAA 57.192 40.909 16.15 0.00 0.00 3.33
1030 1105 4.753233 ACATCTAACAGCTAGCTCACAAG 58.247 43.478 16.15 10.18 0.00 3.16
1413 1496 8.766000 TGTTATGTATGTGTCTACAATTTCGT 57.234 30.769 0.00 0.00 40.84 3.85
1422 1505 8.053411 TGTGTCTACAATTTCGTTATATACGC 57.947 34.615 0.00 0.00 41.03 4.42
1507 1622 8.350722 TGTATTTGGCGTCAAGTTATTGTTTTA 58.649 29.630 2.20 0.00 37.68 1.52
1508 1623 7.631915 ATTTGGCGTCAAGTTATTGTTTTAC 57.368 32.000 1.31 0.00 37.68 2.01
1509 1624 5.752892 TGGCGTCAAGTTATTGTTTTACA 57.247 34.783 0.00 0.00 37.68 2.41
1510 1625 6.320494 TGGCGTCAAGTTATTGTTTTACAT 57.680 33.333 0.00 0.00 37.68 2.29
1512 1627 7.872881 TGGCGTCAAGTTATTGTTTTACATTA 58.127 30.769 0.00 0.00 37.68 1.90
1513 1628 8.516234 TGGCGTCAAGTTATTGTTTTACATTAT 58.484 29.630 0.00 0.00 37.68 1.28
1514 1629 9.991388 GGCGTCAAGTTATTGTTTTACATTATA 57.009 29.630 0.00 0.00 37.68 0.98
1567 1684 9.862371 GACTCTTTCATAAGTCAGAATAGAACA 57.138 33.333 0.00 0.00 41.26 3.18
1586 1703 5.968528 AACATATAGTTCACCCGCAAAAA 57.031 34.783 0.00 0.00 34.74 1.94
1748 1875 7.284716 CCTGTAGTTGTTTATAGATTTTCCCCC 59.715 40.741 0.00 0.00 0.00 5.40
1843 1974 2.036217 ACGTAAAACACATCTGGACGGA 59.964 45.455 0.00 0.00 33.32 4.69
1894 2025 8.910944 ACAATCAAATTATTTCTCATCCCTCTG 58.089 33.333 0.00 0.00 0.00 3.35
1898 2032 0.471617 ATTTCTCATCCCTCTGGGCG 59.528 55.000 0.00 0.00 43.94 6.13
1899 2033 1.626356 TTTCTCATCCCTCTGGGCGG 61.626 60.000 0.00 0.00 43.94 6.13
1900 2034 2.765807 CTCATCCCTCTGGGCGGT 60.766 66.667 0.00 0.00 43.94 5.68
1969 2103 7.554211 AGGAGACGGGTAGATAAGTTTAAAAG 58.446 38.462 0.00 0.00 0.00 2.27
2013 2147 5.669164 TTATTTTGCCCCATCAACTTACC 57.331 39.130 0.00 0.00 0.00 2.85
2059 2193 5.751586 TCAGTTTAAGGTGGTCTTGAGTTT 58.248 37.500 0.00 0.00 36.93 2.66
2060 2194 6.184789 TCAGTTTAAGGTGGTCTTGAGTTTT 58.815 36.000 0.00 0.00 36.93 2.43
2061 2195 6.661805 TCAGTTTAAGGTGGTCTTGAGTTTTT 59.338 34.615 0.00 0.00 36.93 1.94
2085 2219 2.715737 TTTTGCGCATAAAGGTGGTC 57.284 45.000 12.75 0.00 0.00 4.02
2086 2220 1.904287 TTTGCGCATAAAGGTGGTCT 58.096 45.000 12.75 0.00 0.00 3.85
2087 2221 1.904287 TTGCGCATAAAGGTGGTCTT 58.096 45.000 12.75 0.00 37.28 3.01
2088 2222 1.164411 TGCGCATAAAGGTGGTCTTG 58.836 50.000 5.66 0.00 35.55 3.02
2089 2223 1.271108 TGCGCATAAAGGTGGTCTTGA 60.271 47.619 5.66 0.00 35.55 3.02
2104 2238 5.235831 GTGGTCTTGAGTTAACAGTACAACC 59.764 44.000 8.61 8.45 0.00 3.77
2114 2248 8.288689 AGTTAACAGTACAACCAAATGAGTTT 57.711 30.769 8.61 0.00 0.00 2.66
2120 2254 8.691797 ACAGTACAACCAAATGAGTTTAAATGT 58.308 29.630 0.00 0.00 0.00 2.71
2178 2312 9.178758 AGATAAATGTATTTCTCTGGTTGTTCC 57.821 33.333 4.92 0.00 33.61 3.62
2179 2313 9.178758 GATAAATGTATTTCTCTGGTTGTTCCT 57.821 33.333 0.00 0.00 37.07 3.36
2180 2314 6.824305 AATGTATTTCTCTGGTTGTTCCTG 57.176 37.500 0.00 0.00 37.07 3.86
2181 2315 5.560722 TGTATTTCTCTGGTTGTTCCTGA 57.439 39.130 0.00 0.00 40.94 3.86
2182 2316 5.935945 TGTATTTCTCTGGTTGTTCCTGAA 58.064 37.500 0.00 0.00 42.23 3.02
2183 2317 6.361433 TGTATTTCTCTGGTTGTTCCTGAAA 58.639 36.000 0.00 0.00 42.23 2.69
2184 2318 6.831353 TGTATTTCTCTGGTTGTTCCTGAAAA 59.169 34.615 0.00 0.00 42.23 2.29
2185 2319 6.790232 ATTTCTCTGGTTGTTCCTGAAAAA 57.210 33.333 0.00 0.00 42.23 1.94
2194 2328 5.451242 GGTTGTTCCTGAAAAACAGCATACA 60.451 40.000 13.44 0.00 44.52 2.29
2203 2337 7.309133 CCTGAAAAACAGCATACATACCAAAGA 60.309 37.037 0.00 0.00 44.52 2.52
2218 2352 9.374838 ACATACCAAAGATAACCTACTTAAACG 57.625 33.333 0.00 0.00 0.00 3.60
2247 2381 8.143835 GGTGGAATGGAATTATGGAAATAAGTG 58.856 37.037 0.00 0.00 36.07 3.16
2280 2414 6.531948 TCTTGTGGTCAAAATTAAACAAACCG 59.468 34.615 0.00 0.00 32.87 4.44
2283 2417 5.232626 GTGGTCAAAATTAAACAAACCGTCC 59.767 40.000 0.00 0.00 0.00 4.79
2322 2456 6.183360 CCGGTTCCCAAATTTATCTTGAGTAC 60.183 42.308 0.00 0.00 0.00 2.73
2332 2466 9.860898 AAATTTATCTTGAGTACCTTTCAATGC 57.139 29.630 0.00 0.00 34.33 3.56
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
37 38 4.794439 TCGACATGTCTGCCGCCG 62.794 66.667 22.95 9.24 0.00 6.46
180 202 1.145598 CAGTGCTCGGGCTCATCAT 59.854 57.895 9.62 0.00 39.59 2.45
181 203 1.543944 TTCAGTGCTCGGGCTCATCA 61.544 55.000 9.62 0.00 39.59 3.07
266 300 1.073199 CTCCTTTGCCGTGGGACTT 59.927 57.895 0.00 0.00 0.00 3.01
279 313 1.613836 CTTCAAACTGCAGGCTCCTT 58.386 50.000 19.93 0.00 0.00 3.36
290 324 2.851195 AGACATGGAACGCTTCAAACT 58.149 42.857 0.00 0.00 0.00 2.66
297 331 2.481449 GGAATCGTAGACATGGAACGCT 60.481 50.000 10.71 0.76 42.51 5.07
443 505 3.365265 CAGCCACGCCCAAGGTTC 61.365 66.667 0.00 0.00 0.00 3.62
449 511 3.429372 AAGTTTCCAGCCACGCCCA 62.429 57.895 0.00 0.00 0.00 5.36
534 598 1.134699 TGCAGATCTCTAAGCCGTTGG 60.135 52.381 0.00 0.00 0.00 3.77
536 600 2.432146 TCATGCAGATCTCTAAGCCGTT 59.568 45.455 0.00 0.00 0.00 4.44
538 602 2.808523 TCATGCAGATCTCTAAGCCG 57.191 50.000 0.00 0.00 0.00 5.52
539 603 4.039004 TCTCTTCATGCAGATCTCTAAGCC 59.961 45.833 0.00 0.00 0.00 4.35
540 604 5.199024 TCTCTTCATGCAGATCTCTAAGC 57.801 43.478 0.00 0.00 0.00 3.09
541 605 7.548427 TGTTTTCTCTTCATGCAGATCTCTAAG 59.452 37.037 0.00 0.00 0.00 2.18
542 606 7.389232 TGTTTTCTCTTCATGCAGATCTCTAA 58.611 34.615 0.00 0.00 0.00 2.10
543 607 6.939622 TGTTTTCTCTTCATGCAGATCTCTA 58.060 36.000 0.00 0.00 0.00 2.43
544 608 5.802465 TGTTTTCTCTTCATGCAGATCTCT 58.198 37.500 0.00 0.00 0.00 3.10
545 609 6.149142 AGTTGTTTTCTCTTCATGCAGATCTC 59.851 38.462 0.00 0.00 0.00 2.75
546 610 6.002704 AGTTGTTTTCTCTTCATGCAGATCT 58.997 36.000 0.00 0.00 0.00 2.75
547 611 6.251655 AGTTGTTTTCTCTTCATGCAGATC 57.748 37.500 0.00 0.00 0.00 2.75
577 641 5.970317 TTGATGAGTTGCTGAAATCACAT 57.030 34.783 0.00 0.00 38.90 3.21
604 668 2.158957 TCGGGATATGGAGAACTTGCAC 60.159 50.000 0.00 0.00 0.00 4.57
613 677 2.650116 CGGGCCTCGGGATATGGAG 61.650 68.421 0.84 0.00 34.75 3.86
625 689 0.556747 ACTACCTAGATGTCGGGCCT 59.443 55.000 0.84 0.00 0.00 5.19
628 692 5.340439 AGAAAAACTACCTAGATGTCGGG 57.660 43.478 0.00 0.00 0.00 5.14
683 749 9.483916 AAAAATAATAACGGCAAGCTAGTTTTT 57.516 25.926 10.47 10.99 0.00 1.94
684 750 9.135843 GAAAAATAATAACGGCAAGCTAGTTTT 57.864 29.630 10.47 4.06 0.00 2.43
685 751 8.301002 TGAAAAATAATAACGGCAAGCTAGTTT 58.699 29.630 10.47 0.00 0.00 2.66
920 995 2.221169 TCAGAACTTTCATGCGTGCTT 58.779 42.857 0.00 0.00 0.00 3.91
1011 1086 3.826729 TGACTTGTGAGCTAGCTGTTAGA 59.173 43.478 24.99 3.86 0.00 2.10
1022 1097 1.303309 ACTGCTTGTGACTTGTGAGC 58.697 50.000 0.00 0.00 0.00 4.26
1023 1098 3.722147 ACTACTGCTTGTGACTTGTGAG 58.278 45.455 0.00 0.00 0.00 3.51
1024 1099 3.384789 AGACTACTGCTTGTGACTTGTGA 59.615 43.478 0.00 0.00 0.00 3.58
1025 1100 3.722147 AGACTACTGCTTGTGACTTGTG 58.278 45.455 0.00 0.00 0.00 3.33
1026 1101 4.100189 AGAAGACTACTGCTTGTGACTTGT 59.900 41.667 0.00 0.00 0.00 3.16
1027 1102 4.447054 CAGAAGACTACTGCTTGTGACTTG 59.553 45.833 0.00 0.00 38.49 3.16
1028 1103 4.342378 TCAGAAGACTACTGCTTGTGACTT 59.658 41.667 0.00 0.00 39.71 3.01
1029 1104 3.891977 TCAGAAGACTACTGCTTGTGACT 59.108 43.478 0.00 0.00 39.71 3.41
1030 1105 4.244425 TCAGAAGACTACTGCTTGTGAC 57.756 45.455 0.00 0.00 39.71 3.67
1422 1505 6.127810 ACCAGTGTACACAGTACATATACG 57.872 41.667 27.06 6.40 36.33 3.06
1537 1654 9.515020 CTATTCTGACTTATGAAAGAGTCTCAC 57.485 37.037 1.94 0.00 42.13 3.51
1619 1741 4.516698 GGGTCAGGCAATTCACATGTATAG 59.483 45.833 0.00 0.00 0.00 1.31
1703 1825 3.372206 CAGGTTGAAGCTTAACTCCGATG 59.628 47.826 0.00 0.00 0.00 3.84
1707 1829 4.895961 ACTACAGGTTGAAGCTTAACTCC 58.104 43.478 0.00 0.00 0.00 3.85
1744 1871 9.939802 GTTGTAGTTATGTAATAATCTAGGGGG 57.060 37.037 0.00 0.00 41.51 5.40
1759 1886 4.856487 CCATTTTGCACGGTTGTAGTTATG 59.144 41.667 0.00 0.00 0.00 1.90
1843 1974 2.961062 AGTTCAAGCTTTGTCCAGCAAT 59.039 40.909 0.00 0.00 42.84 3.56
1894 2025 2.914777 CTAGAAGCTGCTGACCGCCC 62.915 65.000 3.74 0.00 38.05 6.13
1898 2032 1.134551 CCCTTCTAGAAGCTGCTGACC 60.135 57.143 24.58 0.00 37.11 4.02
1899 2033 1.552792 ACCCTTCTAGAAGCTGCTGAC 59.447 52.381 24.58 0.46 37.11 3.51
1900 2034 1.944177 ACCCTTCTAGAAGCTGCTGA 58.056 50.000 24.58 0.00 37.11 4.26
1934 2068 1.174783 CCCGTCTCCTTTTCGAGAGA 58.825 55.000 0.00 0.00 39.56 3.10
1935 2069 0.889306 ACCCGTCTCCTTTTCGAGAG 59.111 55.000 0.00 0.00 39.56 3.20
1969 2103 9.844790 AATAAACAGTTTTATAGTTAAACGGCC 57.155 29.630 3.25 0.00 36.98 6.13
2065 2199 2.625790 AGACCACCTTTATGCGCAAAAA 59.374 40.909 17.11 9.65 0.00 1.94
2066 2200 2.235016 AGACCACCTTTATGCGCAAAA 58.765 42.857 17.11 15.16 0.00 2.44
2067 2201 1.904287 AGACCACCTTTATGCGCAAA 58.096 45.000 17.11 3.75 0.00 3.68
2068 2202 1.539388 CAAGACCACCTTTATGCGCAA 59.461 47.619 17.11 0.11 31.42 4.85
2069 2203 1.164411 CAAGACCACCTTTATGCGCA 58.836 50.000 14.96 14.96 31.42 6.09
2070 2204 1.398390 CTCAAGACCACCTTTATGCGC 59.602 52.381 0.00 0.00 31.42 6.09
2071 2205 2.699954 ACTCAAGACCACCTTTATGCG 58.300 47.619 0.00 0.00 31.42 4.73
2072 2206 5.472137 TGTTAACTCAAGACCACCTTTATGC 59.528 40.000 7.22 0.00 31.42 3.14
2073 2207 6.710744 ACTGTTAACTCAAGACCACCTTTATG 59.289 38.462 7.22 0.00 31.42 1.90
2074 2208 6.838382 ACTGTTAACTCAAGACCACCTTTAT 58.162 36.000 7.22 0.00 31.42 1.40
2075 2209 6.243216 ACTGTTAACTCAAGACCACCTTTA 57.757 37.500 7.22 0.00 31.42 1.85
2076 2210 5.112129 ACTGTTAACTCAAGACCACCTTT 57.888 39.130 7.22 0.00 31.42 3.11
2077 2211 4.772886 ACTGTTAACTCAAGACCACCTT 57.227 40.909 7.22 0.00 34.91 3.50
2078 2212 4.652421 TGTACTGTTAACTCAAGACCACCT 59.348 41.667 7.22 0.00 0.00 4.00
2079 2213 4.952460 TGTACTGTTAACTCAAGACCACC 58.048 43.478 7.22 0.00 0.00 4.61
2080 2214 5.235831 GGTTGTACTGTTAACTCAAGACCAC 59.764 44.000 7.22 0.95 0.00 4.16
2081 2215 5.104859 TGGTTGTACTGTTAACTCAAGACCA 60.105 40.000 7.22 10.76 0.00 4.02
2082 2216 5.362263 TGGTTGTACTGTTAACTCAAGACC 58.638 41.667 7.22 8.51 0.00 3.85
2083 2217 6.913873 TTGGTTGTACTGTTAACTCAAGAC 57.086 37.500 7.22 0.00 0.00 3.01
2084 2218 7.771361 TCATTTGGTTGTACTGTTAACTCAAGA 59.229 33.333 7.22 0.00 0.00 3.02
2085 2219 7.925993 TCATTTGGTTGTACTGTTAACTCAAG 58.074 34.615 7.22 0.00 0.00 3.02
2086 2220 7.554835 ACTCATTTGGTTGTACTGTTAACTCAA 59.445 33.333 7.22 4.89 0.00 3.02
2087 2221 7.051623 ACTCATTTGGTTGTACTGTTAACTCA 58.948 34.615 7.22 0.00 0.00 3.41
2088 2222 7.492352 ACTCATTTGGTTGTACTGTTAACTC 57.508 36.000 7.22 0.00 0.00 3.01
2089 2223 7.875327 AACTCATTTGGTTGTACTGTTAACT 57.125 32.000 7.22 0.00 0.00 2.24
2120 2254 7.446769 TCCACACTGTTTGTATAAAGAGCTAA 58.553 34.615 8.74 0.00 39.95 3.09
2135 2269 9.520515 ACATTTATCTTAAGAATCCACACTGTT 57.479 29.630 9.71 0.00 0.00 3.16
2177 2311 5.895636 TGGTATGTATGCTGTTTTTCAGG 57.104 39.130 0.00 0.00 43.78 3.86
2178 2312 7.592938 TCTTTGGTATGTATGCTGTTTTTCAG 58.407 34.615 0.00 0.00 46.12 3.02
2179 2313 7.517614 TCTTTGGTATGTATGCTGTTTTTCA 57.482 32.000 0.00 0.00 0.00 2.69
2181 2315 9.855021 GTTATCTTTGGTATGTATGCTGTTTTT 57.145 29.630 0.00 0.00 0.00 1.94
2182 2316 8.466798 GGTTATCTTTGGTATGTATGCTGTTTT 58.533 33.333 0.00 0.00 0.00 2.43
2183 2317 7.834181 AGGTTATCTTTGGTATGTATGCTGTTT 59.166 33.333 0.00 0.00 0.00 2.83
2184 2318 7.346471 AGGTTATCTTTGGTATGTATGCTGTT 58.654 34.615 0.00 0.00 0.00 3.16
2185 2319 6.900194 AGGTTATCTTTGGTATGTATGCTGT 58.100 36.000 0.00 0.00 0.00 4.40
2194 2328 9.813446 CTCGTTTAAGTAGGTTATCTTTGGTAT 57.187 33.333 0.00 0.00 0.00 2.73
2203 2337 5.025453 TCCACCCTCGTTTAAGTAGGTTAT 58.975 41.667 0.00 0.00 0.00 1.89
2218 2352 4.453480 TCCATAATTCCATTCCACCCTC 57.547 45.455 0.00 0.00 0.00 4.30
2256 2390 6.311690 ACGGTTTGTTTAATTTTGACCACAAG 59.688 34.615 0.00 0.00 37.32 3.16
2322 2456 3.017265 AGTTGAAAGCGCATTGAAAGG 57.983 42.857 11.47 0.00 0.00 3.11


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

AutoCloner maintained by Alex Coulton.