Multiple sequence alignment - TraesCS2B01G053900

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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 TraesCS2B01G053900 chr2B 100.000 2615 0 0 1 2615 26347871 26350485 0.000000e+00 4830.0
1 TraesCS2B01G053900 chr2B 87.751 547 64 3 1069 1614 26354503 26355047 1.020000e-178 636.0
2 TraesCS2B01G053900 chr2B 80.365 219 36 7 2270 2482 8709065 8708848 2.690000e-35 159.0
3 TraesCS2B01G053900 chr2B 74.924 331 54 20 2306 2615 80620977 80621299 9.830000e-25 124.0
4 TraesCS2B01G053900 chr2B 79.290 169 29 6 1996 2161 7779318 7779153 2.130000e-21 113.0
5 TraesCS2B01G053900 chr2B 87.129 101 11 2 1996 2096 742379604 742379702 2.130000e-21 113.0
6 TraesCS2B01G053900 chr2B 77.301 163 29 7 2062 2219 449955136 449954977 3.580000e-14 89.8
7 TraesCS2B01G053900 chr2D 83.154 2321 212 87 57 2299 14436485 14438704 0.000000e+00 1954.0
8 TraesCS2B01G053900 chr2D 81.588 2368 212 93 362 2615 14641636 14643893 0.000000e+00 1751.0
9 TraesCS2B01G053900 chr2D 82.095 1279 125 37 362 1607 14590682 14591889 0.000000e+00 998.0
10 TraesCS2B01G053900 chr2D 88.182 550 61 4 1061 1608 14647719 14648266 0.000000e+00 652.0
11 TraesCS2B01G053900 chr2D 85.432 556 74 7 1062 1614 14596441 14596992 2.920000e-159 571.0
12 TraesCS2B01G053900 chr2D 84.896 576 62 14 1035 1609 14704196 14704747 2.270000e-155 558.0
13 TraesCS2B01G053900 chr2D 86.154 455 47 8 1163 1609 14711919 14712365 6.550000e-131 477.0
14 TraesCS2B01G053900 chr2D 92.150 293 14 5 1 292 14434183 14434467 3.130000e-109 405.0
15 TraesCS2B01G053900 chr2D 87.786 262 19 8 61 320 14590419 14590669 7.080000e-76 294.0
16 TraesCS2B01G053900 chr2D 90.526 95 4 3 1649 1743 14591996 14592085 1.270000e-23 121.0
17 TraesCS2B01G053900 chr2D 84.404 109 15 2 2269 2376 300890464 300890357 3.560000e-19 106.0
18 TraesCS2B01G053900 chr2D 84.545 110 13 4 2269 2376 466812753 466812646 3.560000e-19 106.0
19 TraesCS2B01G053900 chr2A 82.848 1510 164 50 1088 2531 16745994 16747474 0.000000e+00 1266.0
20 TraesCS2B01G053900 chr2A 93.662 852 30 4 1 850 16744832 16745661 0.000000e+00 1253.0
21 TraesCS2B01G053900 chr2A 87.546 538 66 1 1077 1614 16771383 16771919 2.860000e-174 621.0
22 TraesCS2B01G053900 chr2A 86.703 549 71 2 1062 1609 16751244 16751791 2.230000e-170 608.0
23 TraesCS2B01G053900 chr2A 88.983 118 13 0 955 1072 16745807 16745924 2.100000e-31 147.0
24 TraesCS2B01G053900 chr1D 79.303 459 71 19 1996 2441 259264968 259265415 1.520000e-77 300.0
25 TraesCS2B01G053900 chr1D 75.620 484 73 31 1996 2463 307444513 307444059 5.710000e-47 198.0
26 TraesCS2B01G053900 chr1D 80.412 194 34 4 2420 2611 483477016 483477207 7.540000e-31 145.0
27 TraesCS2B01G053900 chr1D 75.882 340 49 15 2306 2615 397182129 397181793 2.710000e-30 143.0
28 TraesCS2B01G053900 chr1D 78.488 172 33 4 2001 2171 54902110 54902278 2.750000e-20 110.0
29 TraesCS2B01G053900 chr3B 77.681 457 67 24 1996 2422 3214127 3214578 2.010000e-61 246.0
30 TraesCS2B01G053900 chr3B 77.090 323 50 17 2066 2377 794108789 794109098 5.790000e-37 165.0
31 TraesCS2B01G053900 chr3B 78.295 258 43 8 2355 2609 794109389 794109636 1.250000e-33 154.0
32 TraesCS2B01G053900 chr3B 77.559 254 32 15 2373 2610 13951523 13951279 2.110000e-26 130.0
33 TraesCS2B01G053900 chr3D 78.698 338 52 11 2270 2597 319831229 319831556 9.490000e-50 207.0
34 TraesCS2B01G053900 chr3D 84.577 201 23 7 2398 2591 579577672 579577871 2.660000e-45 193.0
35 TraesCS2B01G053900 chr3D 78.431 255 38 12 2116 2360 502064465 502064712 1.620000e-32 150.0
36 TraesCS2B01G053900 chr3D 74.425 348 60 18 2036 2377 47462991 47462667 3.530000e-24 122.0
37 TraesCS2B01G053900 chr1B 80.645 248 38 8 2367 2611 62714139 62714379 1.600000e-42 183.0
38 TraesCS2B01G053900 chr3A 79.310 232 37 10 1996 2220 568245580 568245807 4.510000e-33 152.0
39 TraesCS2B01G053900 chr6D 80.905 199 29 8 2418 2615 110721553 110721363 5.830000e-32 148.0
40 TraesCS2B01G053900 chr1A 82.558 172 24 4 2444 2614 522198045 522197879 2.100000e-31 147.0
41 TraesCS2B01G053900 chr1A 87.000 100 8 5 2282 2378 21614651 21614554 9.900000e-20 108.0
42 TraesCS2B01G053900 chr7A 80.214 187 26 8 1996 2173 4578127 4577943 2.110000e-26 130.0
43 TraesCS2B01G053900 chr6B 75.000 308 54 12 1996 2290 23113500 23113203 1.270000e-23 121.0
44 TraesCS2B01G053900 chr5D 75.758 165 33 5 2062 2220 51541352 51541515 2.790000e-10 76.8


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 TraesCS2B01G053900 chr2B 26347871 26350485 2614 False 4830.0 4830 100.000000 1 2615 1 chr2B.!!$F1 2614
1 TraesCS2B01G053900 chr2B 26354503 26355047 544 False 636.0 636 87.751000 1069 1614 1 chr2B.!!$F2 545
2 TraesCS2B01G053900 chr2D 14641636 14648266 6630 False 1201.5 1751 84.885000 362 2615 2 chr2D.!!$F6 2253
3 TraesCS2B01G053900 chr2D 14434183 14438704 4521 False 1179.5 1954 87.652000 1 2299 2 chr2D.!!$F4 2298
4 TraesCS2B01G053900 chr2D 14596441 14596992 551 False 571.0 571 85.432000 1062 1614 1 chr2D.!!$F1 552
5 TraesCS2B01G053900 chr2D 14704196 14704747 551 False 558.0 558 84.896000 1035 1609 1 chr2D.!!$F2 574
6 TraesCS2B01G053900 chr2D 14590419 14592085 1666 False 471.0 998 86.802333 61 1743 3 chr2D.!!$F5 1682
7 TraesCS2B01G053900 chr2A 16744832 16751791 6959 False 818.5 1266 88.049000 1 2531 4 chr2A.!!$F2 2530
8 TraesCS2B01G053900 chr2A 16771383 16771919 536 False 621.0 621 87.546000 1077 1614 1 chr2A.!!$F1 537

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
572 2821 0.743701 GACTACGACGGAGGAGCTCA 60.744 60.0 17.19 0.0 31.08 4.26 F
1524 9300 0.320771 GCACGAGGAGGAAGAGCAAA 60.321 55.0 0.00 0.0 0.00 3.68 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1573 9355 0.033011 AGCTCATCCAGGTAGTCGGT 60.033 55.0 0.00 0.0 0.0 4.69 R
2480 10404 2.059345 TTTCCCTTTCCGGAAGCCGT 62.059 55.0 17.97 0.0 46.8 5.68 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 96 4.284746 AGAAGAGGGGTTGACTTGTTCTAG 59.715 45.833 0.00 0.00 0.00 2.43
240 2487 5.997746 CAGAGGGTAACACTGATCTTTTTCA 59.002 40.000 0.00 0.00 42.45 2.69
331 2578 1.400530 CCAGATACCACCCCTCCGTC 61.401 65.000 0.00 0.00 0.00 4.79
334 2581 1.382695 ATACCACCCCTCCGTCCTG 60.383 63.158 0.00 0.00 0.00 3.86
343 2590 4.021368 CACCCCTCCGTCCTGTAATATAAG 60.021 50.000 0.00 0.00 0.00 1.73
346 2593 4.831155 CCCTCCGTCCTGTAATATAAGACA 59.169 45.833 0.00 0.00 0.00 3.41
360 2607 9.364989 GTAATATAAGACATTTTTGCAAGCCAA 57.635 29.630 0.00 0.00 0.00 4.52
379 2626 4.631377 GCCAACAGCCTTTGATTTTAATCC 59.369 41.667 0.32 0.00 32.82 3.01
383 2630 5.709966 ACAGCCTTTGATTTTAATCCGAAC 58.290 37.500 0.32 0.00 34.50 3.95
385 2632 4.698304 AGCCTTTGATTTTAATCCGAACGA 59.302 37.500 0.00 0.00 34.50 3.85
392 2639 7.789341 TGATTTTAATCCGAACGATTTTGTG 57.211 32.000 0.00 0.00 41.58 3.33
412 2659 0.969149 TACAGGTGAGGTGACTGCAG 59.031 55.000 13.48 13.48 44.43 4.41
572 2821 0.743701 GACTACGACGGAGGAGCTCA 60.744 60.000 17.19 0.00 31.08 4.26
591 2840 6.367983 AGCTCAAAATTAGCAGGATATTCCA 58.632 36.000 1.73 0.00 42.62 3.53
601 2850 1.156736 GGATATTCCAATGGCGACGG 58.843 55.000 0.00 0.00 36.28 4.79
648 2897 2.359967 GCCCTACGTGAGCCCTCTT 61.360 63.158 0.00 0.00 0.00 2.85
886 3173 0.810031 ATATATTCCATCCGCGCGCC 60.810 55.000 27.36 8.11 0.00 6.53
908 3195 2.292103 GCTTGTGAACAAAAGCACCA 57.708 45.000 20.53 0.00 46.45 4.17
939 3231 2.807108 GCCTATAGCTAACCACCACAGC 60.807 54.545 0.00 0.00 38.99 4.40
1018 3321 2.428187 TGGACAACCACGGCGATT 59.572 55.556 16.62 1.30 41.77 3.34
1022 3325 1.149987 GACAACCACGGCGATTTGTA 58.850 50.000 16.62 0.00 32.34 2.41
1025 3328 1.136085 CAACCACGGCGATTTGTACTG 60.136 52.381 16.62 0.00 0.00 2.74
1036 3339 0.320946 TTTGTACTGCTACACCGGCC 60.321 55.000 0.00 0.00 32.28 6.13
1078 3381 2.837291 CCTCCTGCTCCTCCTCCG 60.837 72.222 0.00 0.00 0.00 4.63
1107 3464 1.684983 TCGTCCTTGGACTCGTTTCTT 59.315 47.619 16.60 0.00 0.00 2.52
1363 9132 2.358737 CGGCGCTCAACTTCCCTT 60.359 61.111 7.64 0.00 0.00 3.95
1520 9296 0.534412 ACATGCACGAGGAGGAAGAG 59.466 55.000 0.00 0.00 0.00 2.85
1524 9300 0.320771 GCACGAGGAGGAAGAGCAAA 60.321 55.000 0.00 0.00 0.00 3.68
1573 9355 4.704103 AGCTGGAGGACCTCGGCA 62.704 66.667 28.12 16.79 34.32 5.69
1610 9392 1.337260 GCTTCTCAGGATCACGTGTGT 60.337 52.381 16.51 5.63 34.14 3.72
1612 9394 1.328279 TCTCAGGATCACGTGTGTGT 58.672 50.000 16.51 0.12 46.49 3.72
1613 9395 2.510613 TCTCAGGATCACGTGTGTGTA 58.489 47.619 16.51 0.00 46.49 2.90
1614 9396 2.888414 TCTCAGGATCACGTGTGTGTAA 59.112 45.455 16.51 0.00 46.49 2.41
1615 9397 3.509967 TCTCAGGATCACGTGTGTGTAAT 59.490 43.478 16.51 0.00 46.49 1.89
1631 9413 9.028185 GTGTGTGTAATATACAGCTTAGTTACC 57.972 37.037 0.00 0.00 39.77 2.85
1639 9488 8.908786 ATATACAGCTTAGTTACCAGTACGTA 57.091 34.615 0.00 0.00 0.00 3.57
1640 9489 5.302357 ACAGCTTAGTTACCAGTACGTAC 57.698 43.478 18.10 18.10 0.00 3.67
1641 9490 5.006386 ACAGCTTAGTTACCAGTACGTACT 58.994 41.667 22.45 22.45 36.90 2.73
1642 9492 6.173339 ACAGCTTAGTTACCAGTACGTACTA 58.827 40.000 26.95 10.21 34.13 1.82
1644 9494 7.987458 ACAGCTTAGTTACCAGTACGTACTATA 59.013 37.037 26.95 18.82 34.13 1.31
1656 9510 6.148976 CAGTACGTACTATATAGGCTTGCAGA 59.851 42.308 26.95 0.00 34.13 4.26
1658 9512 8.045507 AGTACGTACTATATAGGCTTGCAGATA 58.954 37.037 26.36 0.00 34.13 1.98
1703 9557 1.398958 TTGGAGCACCTGGGTTTTGC 61.399 55.000 0.71 0.00 37.04 3.68
1750 9604 4.407496 CGTGATAAACGCCCAACTTTTA 57.593 40.909 0.00 0.00 46.99 1.52
1798 9670 3.435671 GGACGATGAACAAACAACCCTAG 59.564 47.826 0.00 0.00 0.00 3.02
1799 9671 2.812011 ACGATGAACAAACAACCCTAGC 59.188 45.455 0.00 0.00 0.00 3.42
1801 9673 3.502211 CGATGAACAAACAACCCTAGCTT 59.498 43.478 0.00 0.00 0.00 3.74
1885 9757 1.866925 GACAACCTACACGCTTGGC 59.133 57.895 0.00 0.00 0.00 4.52
1933 9805 3.368571 GCAGCAGCCAACCCACTC 61.369 66.667 0.00 0.00 33.58 3.51
1935 9807 1.673665 CAGCAGCCAACCCACTCTC 60.674 63.158 0.00 0.00 0.00 3.20
1957 9829 0.100682 GTTGATCTCGCTGACGCCTA 59.899 55.000 0.00 0.00 39.84 3.93
1969 9842 0.246635 GACGCCTACTTGCTTCAGGA 59.753 55.000 0.00 0.00 30.48 3.86
1989 9862 1.692411 AACCAAGACACCAAGCCTTC 58.308 50.000 0.00 0.00 0.00 3.46
1990 9863 0.535102 ACCAAGACACCAAGCCTTCG 60.535 55.000 0.00 0.00 0.00 3.79
1991 9864 1.576421 CAAGACACCAAGCCTTCGC 59.424 57.895 0.00 0.00 0.00 4.70
2014 9895 1.000607 TCAACTAGTTGACGAGCGCTT 60.001 47.619 30.07 0.00 43.90 4.68
2015 9896 1.387084 CAACTAGTTGACGAGCGCTTC 59.613 52.381 28.17 6.79 42.93 3.86
2023 9904 2.105128 CGAGCGCTTCTTCGGGAT 59.895 61.111 13.26 0.00 0.00 3.85
2024 9905 1.519455 CGAGCGCTTCTTCGGGATT 60.519 57.895 13.26 0.00 0.00 3.01
2029 9910 1.483424 CGCTTCTTCGGGATTCTCGC 61.483 60.000 0.00 0.00 0.00 5.03
2039 9920 2.564771 GGGATTCTCGCAATGATCACA 58.435 47.619 0.00 0.00 0.00 3.58
2199 10090 4.332543 CCTTTTGGCTTTTCACTGGTTTTC 59.667 41.667 0.00 0.00 0.00 2.29
2200 10091 4.817318 TTTGGCTTTTCACTGGTTTTCT 57.183 36.364 0.00 0.00 0.00 2.52
2202 10093 5.923733 TTGGCTTTTCACTGGTTTTCTTA 57.076 34.783 0.00 0.00 0.00 2.10
2203 10094 5.514274 TGGCTTTTCACTGGTTTTCTTAG 57.486 39.130 0.00 0.00 0.00 2.18
2304 10203 1.290009 GCATGGTTTTGCTTCCGCT 59.710 52.632 0.00 0.00 39.57 5.52
2332 10231 1.301716 GCTGTGCCTCTCGGAAACA 60.302 57.895 0.00 0.00 0.00 2.83
2334 10233 0.034059 CTGTGCCTCTCGGAAACAGT 59.966 55.000 0.00 0.00 39.67 3.55
2340 10239 3.562557 TGCCTCTCGGAAACAGTAAAAAC 59.437 43.478 0.00 0.00 0.00 2.43
2341 10240 3.562557 GCCTCTCGGAAACAGTAAAAACA 59.437 43.478 0.00 0.00 0.00 2.83
2342 10241 4.215613 GCCTCTCGGAAACAGTAAAAACAT 59.784 41.667 0.00 0.00 0.00 2.71
2343 10242 5.689819 CCTCTCGGAAACAGTAAAAACATG 58.310 41.667 0.00 0.00 0.00 3.21
2349 10252 6.752815 TCGGAAACAGTAAAAACATGGTTTTC 59.247 34.615 24.23 15.48 32.95 2.29
2393 10317 0.736325 CGGCCGTGTCTCTCGAAAAT 60.736 55.000 19.50 0.00 0.00 1.82
2454 10378 0.248296 GACACGTTTTTGCTTCCGCA 60.248 50.000 0.00 0.00 46.24 5.69
2507 10431 2.619646 TCCGGAAAGGGAAAAAGAAACG 59.380 45.455 0.00 0.00 41.52 3.60
2509 10433 3.549423 CCGGAAAGGGAAAAAGAAACGTC 60.549 47.826 0.00 0.00 35.97 4.34
2513 10437 3.859061 AGGGAAAAAGAAACGTCCTCT 57.141 42.857 0.00 0.00 0.00 3.69
2525 10449 1.415289 ACGTCCTCTCGGTTCCTTTTT 59.585 47.619 0.00 0.00 34.94 1.94
2573 10497 3.061322 TCGTCAAAACCTATCAACACGG 58.939 45.455 0.00 0.00 0.00 4.94
2583 10507 4.341520 ACCTATCAACACGGGATCTAGTTC 59.658 45.833 0.00 0.00 0.00 3.01
2602 10526 2.426522 TCTGAAGATTTTGACGCCAGG 58.573 47.619 0.00 0.00 0.00 4.45
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
240 2487 6.041069 GCCATCTACTATGTAGAAGTGAACCT 59.959 42.308 10.86 0.00 0.00 3.50
331 2578 9.023967 GCTTGCAAAAATGTCTTATATTACAGG 57.976 33.333 0.00 0.00 0.00 4.00
334 2581 8.925161 TGGCTTGCAAAAATGTCTTATATTAC 57.075 30.769 0.00 0.00 0.00 1.89
343 2590 2.032636 GCTGTTGGCTTGCAAAAATGTC 60.033 45.455 0.00 0.00 38.06 3.06
346 2593 1.596603 GGCTGTTGGCTTGCAAAAAT 58.403 45.000 0.00 0.00 41.46 1.82
360 2607 5.619086 CGTTCGGATTAAAATCAAAGGCTGT 60.619 40.000 5.15 0.00 37.15 4.40
379 2626 3.491639 TCACCTGTACACAAAATCGTTCG 59.508 43.478 0.00 0.00 0.00 3.95
383 2630 3.186409 CACCTCACCTGTACACAAAATCG 59.814 47.826 0.00 0.00 0.00 3.34
385 2632 4.134563 GTCACCTCACCTGTACACAAAAT 58.865 43.478 0.00 0.00 0.00 1.82
392 2639 0.679505 TGCAGTCACCTCACCTGTAC 59.320 55.000 0.00 0.00 0.00 2.90
572 2821 6.517194 CGCCATTGGAATATCCTGCTAATTTT 60.517 38.462 6.95 0.00 37.46 1.82
648 2897 0.701659 TGGGGTTGTGTAAAGGGGGA 60.702 55.000 0.00 0.00 0.00 4.81
886 3173 2.195922 GTGCTTTTGTTCACAAGCTGG 58.804 47.619 19.56 0.00 44.90 4.85
939 3231 2.661537 TGTCAGTTGGCGTGCTCG 60.662 61.111 3.31 3.31 40.37 5.03
1014 3317 1.924524 CCGGTGTAGCAGTACAAATCG 59.075 52.381 0.00 0.00 40.94 3.34
1018 3321 1.294138 GGCCGGTGTAGCAGTACAA 59.706 57.895 1.90 0.00 40.94 2.41
1078 3381 1.376037 CCAAGGACGACAAGGAGGC 60.376 63.158 0.00 0.00 0.00 4.70
1107 3464 2.125552 CCGCTGCTCATGTCGGAA 60.126 61.111 0.00 0.00 44.23 4.30
1161 3518 3.184683 GTCGAGGCTGCTCGCTTG 61.185 66.667 13.96 1.91 45.45 4.01
1177 3534 2.180017 GATGTACGACGGTGCGGT 59.820 61.111 0.00 0.00 35.12 5.68
1179 3536 2.947621 CCGATGTACGACGGTGCG 60.948 66.667 18.22 0.00 45.77 5.34
1230 3587 1.524165 CGTCGAGTCCCGGATCTCT 60.524 63.158 18.59 5.99 39.14 3.10
1446 9216 0.321671 TCTTTCTCTTGGAGTGGCGG 59.678 55.000 0.00 0.00 0.00 6.13
1520 9296 2.804931 GCGTGGCCATCGTTTTGC 60.805 61.111 22.72 10.34 0.00 3.68
1524 9300 3.958147 CTCCTGCGTGGCCATCGTT 62.958 63.158 22.72 0.00 35.26 3.85
1573 9355 0.033011 AGCTCATCCAGGTAGTCGGT 60.033 55.000 0.00 0.00 0.00 4.69
1611 9393 9.604626 CGTACTGGTAACTAAGCTGTATATTAC 57.395 37.037 0.00 0.00 40.62 1.89
1612 9394 9.342308 ACGTACTGGTAACTAAGCTGTATATTA 57.658 33.333 0.00 0.00 40.62 0.98
1613 9395 8.230472 ACGTACTGGTAACTAAGCTGTATATT 57.770 34.615 0.00 0.00 40.62 1.28
1614 9396 7.814264 ACGTACTGGTAACTAAGCTGTATAT 57.186 36.000 0.00 0.00 40.62 0.86
1615 9397 7.987458 AGTACGTACTGGTAACTAAGCTGTATA 59.013 37.037 26.87 0.00 40.62 1.47
1631 9413 6.148976 TCTGCAAGCCTATATAGTACGTACTG 59.851 42.308 33.23 18.78 37.10 2.74
1656 9510 2.052104 GCACCGCCCCAAAGCTTAT 61.052 57.895 0.00 0.00 0.00 1.73
1703 9557 8.794406 GTGTAATTAATTCACCAATTAACTGCG 58.206 33.333 3.39 0.00 43.92 5.18
1746 9600 6.875972 TTGGGGCTATTGGCTTTAATAAAA 57.124 33.333 0.10 0.00 41.46 1.52
1747 9601 6.875972 TTTGGGGCTATTGGCTTTAATAAA 57.124 33.333 0.10 0.00 41.46 1.40
1750 9604 4.164030 CCTTTTGGGGCTATTGGCTTTAAT 59.836 41.667 0.10 0.00 41.46 1.40
1798 9670 5.800438 GTGCAAAGTGTTATAGCCTTAAAGC 59.200 40.000 0.00 0.00 0.00 3.51
1799 9671 6.021596 CGTGCAAAGTGTTATAGCCTTAAAG 58.978 40.000 0.00 0.00 0.00 1.85
1801 9673 5.239351 TCGTGCAAAGTGTTATAGCCTTAA 58.761 37.500 0.00 0.00 0.00 1.85
1933 9805 1.916651 CGTCAGCGAGATCAACTTGAG 59.083 52.381 0.00 0.00 41.33 3.02
1935 9807 0.368227 GCGTCAGCGAGATCAACTTG 59.632 55.000 0.00 0.00 41.33 3.16
1969 9842 2.031870 GAAGGCTTGGTGTCTTGGTTT 58.968 47.619 3.46 0.00 41.26 3.27
2014 9895 1.480545 TCATTGCGAGAATCCCGAAGA 59.519 47.619 0.00 0.00 0.00 2.87
2015 9896 1.939974 TCATTGCGAGAATCCCGAAG 58.060 50.000 0.00 0.00 0.00 3.79
2023 9904 1.328374 CGCATGTGATCATTGCGAGAA 59.672 47.619 34.28 4.15 45.09 2.87
2024 9905 0.932399 CGCATGTGATCATTGCGAGA 59.068 50.000 34.28 0.00 45.09 4.04
2039 9920 2.581354 GCTCTCAGTCCACCGCAT 59.419 61.111 0.00 0.00 0.00 4.73
2114 9995 4.501198 GCGTTCGAAGAAAAACAAAATCCA 59.499 37.500 0.00 0.00 45.90 3.41
2116 9997 4.203563 ACGCGTTCGAAGAAAAACAAAATC 59.796 37.500 5.58 0.00 45.90 2.17
2117 9998 4.099824 ACGCGTTCGAAGAAAAACAAAAT 58.900 34.783 5.58 0.00 45.90 1.82
2118 9999 3.490399 ACGCGTTCGAAGAAAAACAAAA 58.510 36.364 5.58 0.00 45.90 2.44
2122 10003 4.068024 GAAAACGCGTTCGAAGAAAAAC 57.932 40.909 26.77 3.88 45.90 2.43
2173 10054 3.197265 CCAGTGAAAAGCCAAAAGGTTG 58.803 45.455 0.00 0.00 35.99 3.77
2251 10146 6.802608 AGCAAAACTGTACCCTTAAGAAAAC 58.197 36.000 3.36 0.00 0.00 2.43
2256 10151 6.206498 GTGAAAGCAAAACTGTACCCTTAAG 58.794 40.000 0.00 0.00 0.00 1.85
2259 10154 3.066203 CGTGAAAGCAAAACTGTACCCTT 59.934 43.478 0.00 0.00 0.00 3.95
2260 10155 2.616842 CGTGAAAGCAAAACTGTACCCT 59.383 45.455 0.00 0.00 0.00 4.34
2261 10156 2.614983 TCGTGAAAGCAAAACTGTACCC 59.385 45.455 0.00 0.00 0.00 3.69
2262 10157 3.558418 TCTCGTGAAAGCAAAACTGTACC 59.442 43.478 0.00 0.00 0.00 3.34
2263 10158 4.318831 CCTCTCGTGAAAGCAAAACTGTAC 60.319 45.833 0.00 0.00 0.00 2.90
2264 10159 3.807622 CCTCTCGTGAAAGCAAAACTGTA 59.192 43.478 0.00 0.00 0.00 2.74
2327 10226 8.487313 AAGGAAAACCATGTTTTTACTGTTTC 57.513 30.769 13.41 0.00 38.48 2.78
2364 10267 2.434884 CACGGCCGTGCTTCTCAT 60.435 61.111 42.21 9.65 39.39 2.90
2434 10358 3.907927 CGGAAGCAAAAACGTGTCA 57.092 47.368 0.00 0.00 0.00 3.58
2454 10378 4.078516 GGCACGGCCGTACCTCTT 62.079 66.667 35.63 8.46 39.62 2.85
2480 10404 2.059345 TTTCCCTTTCCGGAAGCCGT 62.059 55.000 17.97 0.00 46.80 5.68
2545 10469 7.486870 GTGTTGATAGGTTTTGACGAACTTTTT 59.513 33.333 0.00 0.00 0.00 1.94
2546 10470 6.970613 GTGTTGATAGGTTTTGACGAACTTTT 59.029 34.615 0.00 0.00 0.00 2.27
2547 10471 6.492254 GTGTTGATAGGTTTTGACGAACTTT 58.508 36.000 0.00 0.00 0.00 2.66
2548 10472 5.277154 CGTGTTGATAGGTTTTGACGAACTT 60.277 40.000 0.00 0.00 0.00 2.66
2549 10473 4.210537 CGTGTTGATAGGTTTTGACGAACT 59.789 41.667 0.00 0.00 0.00 3.01
2550 10474 4.451557 CGTGTTGATAGGTTTTGACGAAC 58.548 43.478 0.00 0.00 0.00 3.95
2573 10497 6.237969 GCGTCAAAATCTTCAGAACTAGATCC 60.238 42.308 0.00 0.00 30.95 3.36
2583 10507 2.426522 TCCTGGCGTCAAAATCTTCAG 58.573 47.619 0.00 0.00 0.00 3.02


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

AutoCloner maintained by Alex Coulton.