Multiple sequence alignment - TraesCS3A01G434100

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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 TraesCS3A01G434100 chr3A 100.000 2372 0 0 1 2372 676002752 676005123 0.000000e+00 4381.0
1 TraesCS3A01G434100 chr3A 93.604 1673 70 16 628 2265 579910749 579909079 0.000000e+00 2462.0
2 TraesCS3A01G434100 chr3A 90.920 1663 79 34 1 1620 733879832 733878199 0.000000e+00 2169.0
3 TraesCS3A01G434100 chr3A 88.277 1399 107 31 901 2265 706571320 706569945 0.000000e+00 1622.0
4 TraesCS3A01G434100 chr3A 94.595 592 32 0 1 592 579911340 579910749 0.000000e+00 917.0
5 TraesCS3A01G434100 chr5A 95.698 2278 82 6 1 2265 27043743 27041469 0.000000e+00 3650.0
6 TraesCS3A01G434100 chr5A 95.245 1388 48 5 1 1372 345653549 345652164 0.000000e+00 2182.0
7 TraesCS3A01G434100 chr5A 95.238 1386 50 5 3 1372 501876991 501878376 0.000000e+00 2180.0
8 TraesCS3A01G434100 chr2A 94.144 2271 100 10 26 2265 110292163 110294431 0.000000e+00 3426.0
9 TraesCS3A01G434100 chr2A 88.711 1435 113 29 855 2266 259698878 259700286 0.000000e+00 1707.0
10 TraesCS3A01G434100 chr2A 94.895 901 30 4 1 885 15511948 15511048 0.000000e+00 1395.0
11 TraesCS3A01G434100 chr4A 95.162 1385 54 2 1 1372 525154202 525152818 0.000000e+00 2174.0
12 TraesCS3A01G434100 chr4A 94.888 1389 54 4 1 1372 490349397 490350785 0.000000e+00 2156.0
13 TraesCS3A01G434100 chr4A 88.850 1426 100 24 858 2265 192322528 192321144 0.000000e+00 1698.0
14 TraesCS3A01G434100 chr4A 95.349 43 2 0 1443 1485 192322012 192321970 4.230000e-08 69.4
15 TraesCS3A01G434100 chr1A 95.101 1388 52 3 1 1372 7955947 7957334 0.000000e+00 2172.0
16 TraesCS3A01G434100 chr1A 94.888 1389 49 6 1 1372 50632957 50631574 0.000000e+00 2152.0
17 TraesCS3A01G434100 chr7A 94.741 1388 57 4 1 1372 153030978 153029591 0.000000e+00 2145.0
18 TraesCS3A01G434100 chr7B 94.669 1388 57 5 1 1372 615589544 615588158 0.000000e+00 2137.0
19 TraesCS3A01G434100 chr7B 95.735 680 28 1 1587 2265 611047069 611046390 0.000000e+00 1094.0
20 TraesCS3A01G434100 chr6B 88.616 1423 102 22 855 2266 425151559 425152932 0.000000e+00 1676.0
21 TraesCS3A01G434100 chr6B 92.409 606 26 5 1 587 26658262 26657658 0.000000e+00 846.0
22 TraesCS3A01G434100 chr5D 92.997 871 32 10 1 842 384512171 384511301 0.000000e+00 1243.0
23 TraesCS3A01G434100 chr3D 90.498 884 64 13 1400 2268 571734847 571733969 0.000000e+00 1149.0
24 TraesCS3A01G434100 chr3D 94.545 715 31 6 1558 2265 229426201 229425488 0.000000e+00 1098.0
25 TraesCS3A01G434100 chr3D 93.978 714 36 7 1558 2265 37628708 37629420 0.000000e+00 1074.0
26 TraesCS3A01G434100 chr3D 88.692 902 53 21 1400 2265 416553282 416554170 0.000000e+00 1055.0
27 TraesCS3A01G434100 chr6A 96.041 682 23 4 1587 2265 136675608 136676288 0.000000e+00 1107.0
28 TraesCS3A01G434100 chr6A 95.766 685 25 3 1587 2269 436400288 436400970 0.000000e+00 1101.0
29 TraesCS3A01G434100 chr5B 93.695 682 30 3 1 669 61819022 61819703 0.000000e+00 1009.0
30 TraesCS3A01G434100 chr3B 94.066 573 20 5 1 560 60549084 60548513 0.000000e+00 857.0
31 TraesCS3A01G434100 chr6D 93.458 107 7 0 2266 2372 238921664 238921558 2.440000e-35 159.0


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 TraesCS3A01G434100 chr3A 676002752 676005123 2371 False 4381.0 4381 100.0000 1 2372 1 chr3A.!!$F1 2371
1 TraesCS3A01G434100 chr3A 733878199 733879832 1633 True 2169.0 2169 90.9200 1 1620 1 chr3A.!!$R2 1619
2 TraesCS3A01G434100 chr3A 579909079 579911340 2261 True 1689.5 2462 94.0995 1 2265 2 chr3A.!!$R3 2264
3 TraesCS3A01G434100 chr3A 706569945 706571320 1375 True 1622.0 1622 88.2770 901 2265 1 chr3A.!!$R1 1364
4 TraesCS3A01G434100 chr5A 27041469 27043743 2274 True 3650.0 3650 95.6980 1 2265 1 chr5A.!!$R1 2264
5 TraesCS3A01G434100 chr5A 345652164 345653549 1385 True 2182.0 2182 95.2450 1 1372 1 chr5A.!!$R2 1371
6 TraesCS3A01G434100 chr5A 501876991 501878376 1385 False 2180.0 2180 95.2380 3 1372 1 chr5A.!!$F1 1369
7 TraesCS3A01G434100 chr2A 110292163 110294431 2268 False 3426.0 3426 94.1440 26 2265 1 chr2A.!!$F1 2239
8 TraesCS3A01G434100 chr2A 259698878 259700286 1408 False 1707.0 1707 88.7110 855 2266 1 chr2A.!!$F2 1411
9 TraesCS3A01G434100 chr2A 15511048 15511948 900 True 1395.0 1395 94.8950 1 885 1 chr2A.!!$R1 884
10 TraesCS3A01G434100 chr4A 525152818 525154202 1384 True 2174.0 2174 95.1620 1 1372 1 chr4A.!!$R1 1371
11 TraesCS3A01G434100 chr4A 490349397 490350785 1388 False 2156.0 2156 94.8880 1 1372 1 chr4A.!!$F1 1371
12 TraesCS3A01G434100 chr4A 192321144 192322528 1384 True 883.7 1698 92.0995 858 2265 2 chr4A.!!$R2 1407
13 TraesCS3A01G434100 chr1A 7955947 7957334 1387 False 2172.0 2172 95.1010 1 1372 1 chr1A.!!$F1 1371
14 TraesCS3A01G434100 chr1A 50631574 50632957 1383 True 2152.0 2152 94.8880 1 1372 1 chr1A.!!$R1 1371
15 TraesCS3A01G434100 chr7A 153029591 153030978 1387 True 2145.0 2145 94.7410 1 1372 1 chr7A.!!$R1 1371
16 TraesCS3A01G434100 chr7B 615588158 615589544 1386 True 2137.0 2137 94.6690 1 1372 1 chr7B.!!$R2 1371
17 TraesCS3A01G434100 chr7B 611046390 611047069 679 True 1094.0 1094 95.7350 1587 2265 1 chr7B.!!$R1 678
18 TraesCS3A01G434100 chr6B 425151559 425152932 1373 False 1676.0 1676 88.6160 855 2266 1 chr6B.!!$F1 1411
19 TraesCS3A01G434100 chr6B 26657658 26658262 604 True 846.0 846 92.4090 1 587 1 chr6B.!!$R1 586
20 TraesCS3A01G434100 chr5D 384511301 384512171 870 True 1243.0 1243 92.9970 1 842 1 chr5D.!!$R1 841
21 TraesCS3A01G434100 chr3D 571733969 571734847 878 True 1149.0 1149 90.4980 1400 2268 1 chr3D.!!$R2 868
22 TraesCS3A01G434100 chr3D 229425488 229426201 713 True 1098.0 1098 94.5450 1558 2265 1 chr3D.!!$R1 707
23 TraesCS3A01G434100 chr3D 37628708 37629420 712 False 1074.0 1074 93.9780 1558 2265 1 chr3D.!!$F1 707
24 TraesCS3A01G434100 chr3D 416553282 416554170 888 False 1055.0 1055 88.6920 1400 2265 1 chr3D.!!$F2 865
25 TraesCS3A01G434100 chr6A 136675608 136676288 680 False 1107.0 1107 96.0410 1587 2265 1 chr6A.!!$F1 678
26 TraesCS3A01G434100 chr6A 436400288 436400970 682 False 1101.0 1101 95.7660 1587 2269 1 chr6A.!!$F2 682
27 TraesCS3A01G434100 chr5B 61819022 61819703 681 False 1009.0 1009 93.6950 1 669 1 chr5B.!!$F1 668
28 TraesCS3A01G434100 chr3B 60548513 60549084 571 True 857.0 857 94.0660 1 560 1 chr3B.!!$R1 559

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
119 120 1.688735 CTCCCATGCCTGATCTAACGA 59.311 52.381 0.0 0.0 0.0 3.85 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1390 1445 0.178873 ACCTTAGCTCCCAGGTCCAA 60.179 55.0 6.38 0.0 39.37 3.53 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
64 65 7.518052 CGCCATCAGATCAAGAAGAAGTATTTC 60.518 40.741 0.00 0.00 0.00 2.17
70 71 9.743057 CAGATCAAGAAGAAGTATTTCGATACT 57.257 33.333 0.00 0.00 38.90 2.12
119 120 1.688735 CTCCCATGCCTGATCTAACGA 59.311 52.381 0.00 0.00 0.00 3.85
189 191 4.639135 AGGTTTGTCTCTGCTTTGTTTC 57.361 40.909 0.00 0.00 0.00 2.78
235 237 2.036862 TGCTAGTGCTAGATCATGCTGG 59.963 50.000 10.17 0.00 40.48 4.85
597 628 8.565416 CATCTAGCTTTGATGCTTTGATGATTA 58.435 33.333 18.12 0.00 44.98 1.75
620 651 2.302260 TGTTGTTTGATTCGGAGCCAA 58.698 42.857 0.00 0.00 0.00 4.52
646 677 2.760634 ACACACGCTATGTTCCATGA 57.239 45.000 0.00 0.00 40.64 3.07
1049 1083 3.217626 CAGAAGGTGAAGAGCCAAAGTT 58.782 45.455 0.00 0.00 0.00 2.66
1125 1159 2.622452 CCTCAGGAATGTTTGGCTCCAT 60.622 50.000 0.00 0.00 0.00 3.41
1379 1434 0.555769 AAGGCAGTTTGAACCTGGGA 59.444 50.000 0.00 0.00 32.92 4.37
1380 1435 0.111253 AGGCAGTTTGAACCTGGGAG 59.889 55.000 0.00 0.00 30.82 4.30
1381 1436 1.527433 GGCAGTTTGAACCTGGGAGC 61.527 60.000 0.00 0.00 0.00 4.70
1382 1437 0.823356 GCAGTTTGAACCTGGGAGCA 60.823 55.000 0.00 0.00 0.00 4.26
1386 1441 3.070015 CAGTTTGAACCTGGGAGCATTTT 59.930 43.478 0.00 0.00 0.00 1.82
1387 1442 3.070015 AGTTTGAACCTGGGAGCATTTTG 59.930 43.478 0.00 0.00 0.00 2.44
1388 1443 0.968405 TGAACCTGGGAGCATTTTGC 59.032 50.000 0.00 0.00 45.46 3.68
1400 1455 1.676615 GCATTTTGCATTGGACCTGGG 60.677 52.381 0.00 0.00 44.26 4.45
1402 1457 1.631405 TTTTGCATTGGACCTGGGAG 58.369 50.000 0.00 0.00 0.00 4.30
1482 1616 5.010617 AGTTTGAACTTGTGAACCTTGTTGT 59.989 36.000 0.00 0.00 35.21 3.32
1614 1797 1.000233 TTATGCACCTGGGCCTTGG 60.000 57.895 4.53 9.97 0.00 3.61
1928 2123 7.838193 AGAGAGAGAAAAATTAAATGGGCTGAT 59.162 33.333 0.00 0.00 0.00 2.90
2269 2469 8.157476 AGTTGACATATTTCTTGTAGTGGAAGT 58.843 33.333 0.00 0.00 0.00 3.01
2270 2470 7.905604 TGACATATTTCTTGTAGTGGAAGTG 57.094 36.000 0.00 0.00 0.00 3.16
2271 2471 6.878923 TGACATATTTCTTGTAGTGGAAGTGG 59.121 38.462 0.00 0.00 0.00 4.00
2272 2472 6.779860 ACATATTTCTTGTAGTGGAAGTGGT 58.220 36.000 0.00 0.00 0.00 4.16
2273 2473 7.231467 ACATATTTCTTGTAGTGGAAGTGGTT 58.769 34.615 0.00 0.00 0.00 3.67
2274 2474 7.390718 ACATATTTCTTGTAGTGGAAGTGGTTC 59.609 37.037 0.00 0.00 0.00 3.62
2275 2475 4.764050 TTCTTGTAGTGGAAGTGGTTCA 57.236 40.909 0.00 0.00 33.93 3.18
2276 2476 4.067972 TCTTGTAGTGGAAGTGGTTCAC 57.932 45.455 0.00 0.00 33.93 3.18
2277 2477 2.922740 TGTAGTGGAAGTGGTTCACC 57.077 50.000 0.00 0.00 34.49 4.02
2278 2478 1.418637 TGTAGTGGAAGTGGTTCACCC 59.581 52.381 0.00 0.00 34.49 4.61
2279 2479 1.418637 GTAGTGGAAGTGGTTCACCCA 59.581 52.381 0.00 0.00 42.51 4.51
2296 2496 1.974543 CAATGGTTTGGACCTGGGC 59.025 57.895 0.00 0.00 46.66 5.36
2297 2497 1.229177 AATGGTTTGGACCTGGGCC 60.229 57.895 13.16 13.16 46.66 5.80
2298 2498 1.739608 AATGGTTTGGACCTGGGCCT 61.740 55.000 21.75 0.00 46.66 5.19
2299 2499 2.035783 GGTTTGGACCTGGGCCTC 59.964 66.667 21.75 10.15 42.99 4.70
2300 2500 2.539081 GGTTTGGACCTGGGCCTCT 61.539 63.158 21.75 0.00 42.99 3.69
2301 2501 1.460699 GTTTGGACCTGGGCCTCTT 59.539 57.895 21.75 0.00 0.00 2.85
2302 2502 0.609406 GTTTGGACCTGGGCCTCTTC 60.609 60.000 21.75 4.01 0.00 2.87
2303 2503 0.772124 TTTGGACCTGGGCCTCTTCT 60.772 55.000 21.75 0.00 0.00 2.85
2304 2504 0.772124 TTGGACCTGGGCCTCTTCTT 60.772 55.000 21.75 0.00 0.00 2.52
2305 2505 0.772124 TGGACCTGGGCCTCTTCTTT 60.772 55.000 21.75 0.00 0.00 2.52
2306 2506 0.034960 GGACCTGGGCCTCTTCTTTC 60.035 60.000 12.69 0.00 0.00 2.62
2307 2507 0.988063 GACCTGGGCCTCTTCTTTCT 59.012 55.000 4.53 0.00 0.00 2.52
2308 2508 0.695347 ACCTGGGCCTCTTCTTTCTG 59.305 55.000 4.53 0.00 0.00 3.02
2309 2509 0.034670 CCTGGGCCTCTTCTTTCTGG 60.035 60.000 4.53 0.00 0.00 3.86
2310 2510 0.034670 CTGGGCCTCTTCTTTCTGGG 60.035 60.000 4.53 0.00 0.00 4.45
2311 2511 1.379176 GGGCCTCTTCTTTCTGGGC 60.379 63.158 0.84 0.00 43.32 5.36
2312 2512 1.688211 GGCCTCTTCTTTCTGGGCT 59.312 57.895 0.00 0.00 42.14 5.19
2313 2513 0.679321 GGCCTCTTCTTTCTGGGCTG 60.679 60.000 0.00 0.00 42.14 4.85
2314 2514 0.037447 GCCTCTTCTTTCTGGGCTGT 59.963 55.000 0.00 0.00 39.68 4.40
2315 2515 1.279271 GCCTCTTCTTTCTGGGCTGTA 59.721 52.381 0.00 0.00 39.68 2.74
2316 2516 2.937433 GCCTCTTCTTTCTGGGCTGTAC 60.937 54.545 0.00 0.00 39.68 2.90
2317 2517 2.355209 CCTCTTCTTTCTGGGCTGTACC 60.355 54.545 0.00 0.00 37.93 3.34
2318 2518 2.303022 CTCTTCTTTCTGGGCTGTACCA 59.697 50.000 0.00 0.00 42.05 3.25
2319 2519 2.912956 TCTTCTTTCTGGGCTGTACCAT 59.087 45.455 0.00 0.00 40.36 3.55
2320 2520 4.101114 TCTTCTTTCTGGGCTGTACCATA 58.899 43.478 0.00 0.00 40.36 2.74
2321 2521 4.162320 TCTTCTTTCTGGGCTGTACCATAG 59.838 45.833 0.00 0.00 40.36 2.23
2322 2522 2.771943 TCTTTCTGGGCTGTACCATAGG 59.228 50.000 0.00 0.00 40.36 2.57
2323 2523 0.837272 TTCTGGGCTGTACCATAGGC 59.163 55.000 0.00 0.00 40.36 3.93
2324 2524 0.326143 TCTGGGCTGTACCATAGGCA 60.326 55.000 7.43 0.00 42.02 4.75
2325 2525 0.546122 CTGGGCTGTACCATAGGCAA 59.454 55.000 7.43 0.00 42.02 4.52
2326 2526 1.143684 CTGGGCTGTACCATAGGCAAT 59.856 52.381 7.43 0.00 42.02 3.56
2327 2527 1.568597 TGGGCTGTACCATAGGCAATT 59.431 47.619 7.43 0.00 42.02 2.32
2328 2528 2.230660 GGGCTGTACCATAGGCAATTC 58.769 52.381 7.43 0.00 42.02 2.17
2329 2529 2.230660 GGCTGTACCATAGGCAATTCC 58.769 52.381 0.91 0.00 40.17 3.01
2330 2530 2.158608 GGCTGTACCATAGGCAATTCCT 60.159 50.000 0.91 2.61 43.36 3.36
2331 2531 2.880890 GCTGTACCATAGGCAATTCCTG 59.119 50.000 6.68 0.00 46.98 3.86
2346 2546 6.917217 CAATTCCTGCAAAACTGGTTTAAA 57.083 33.333 0.00 0.00 38.49 1.52
2347 2547 7.313951 CAATTCCTGCAAAACTGGTTTAAAA 57.686 32.000 0.00 0.00 38.49 1.52
2348 2548 6.918892 ATTCCTGCAAAACTGGTTTAAAAC 57.081 33.333 0.00 0.00 38.49 2.43
2365 2565 8.214721 GTTTAAAACCATCCCTCAGAATAGAG 57.785 38.462 0.00 0.00 35.39 2.43
2366 2566 4.429854 AAACCATCCCTCAGAATAGAGC 57.570 45.455 0.00 0.00 34.26 4.09
2367 2567 2.334023 ACCATCCCTCAGAATAGAGCC 58.666 52.381 0.00 0.00 34.26 4.70
2368 2568 2.333069 CCATCCCTCAGAATAGAGCCA 58.667 52.381 0.00 0.00 34.26 4.75
2369 2569 2.038295 CCATCCCTCAGAATAGAGCCAC 59.962 54.545 0.00 0.00 34.26 5.01
2370 2570 1.403814 TCCCTCAGAATAGAGCCACG 58.596 55.000 0.00 0.00 34.26 4.94
2371 2571 0.249657 CCCTCAGAATAGAGCCACGC 60.250 60.000 0.00 0.00 34.26 5.34
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
64 65 6.533723 TGACTTTATTTGTGGCTACAGTATCG 59.466 38.462 2.22 0.0 38.23 2.92
70 71 4.393834 TGCTGACTTTATTTGTGGCTACA 58.606 39.130 0.00 0.0 34.31 2.74
119 120 1.822990 CAGAGCTTGCCATTCACCATT 59.177 47.619 0.00 0.0 0.00 3.16
257 259 1.195448 CATCTTGTTCGACACACAGGC 59.805 52.381 0.00 0.0 33.98 4.85
597 628 2.749621 GGCTCCGAATCAAACAACATCT 59.250 45.455 0.00 0.0 0.00 2.90
646 677 9.814899 TTGTTGAACTATCAAACAACATCAAAT 57.185 25.926 0.00 0.0 46.66 2.32
746 778 1.043116 TCCCGAGTGAGCCGATCATT 61.043 55.000 0.00 0.0 40.92 2.57
1049 1083 4.891627 TCTTCGACAATTTCAACAGCAA 57.108 36.364 0.00 0.0 0.00 3.91
1117 1151 3.387962 AGTTCCTAGATGAATGGAGCCA 58.612 45.455 0.00 0.0 32.57 4.75
1125 1159 1.860641 TGCCGGAGTTCCTAGATGAA 58.139 50.000 5.05 0.0 0.00 2.57
1218 1273 2.095110 CGCCAATTCTTCTTGCATCACA 60.095 45.455 0.00 0.0 0.00 3.58
1379 1434 1.276989 CCAGGTCCAATGCAAAATGCT 59.723 47.619 3.78 0.0 45.31 3.79
1380 1435 1.676615 CCCAGGTCCAATGCAAAATGC 60.677 52.381 0.00 0.0 45.29 3.56
1381 1436 1.901159 TCCCAGGTCCAATGCAAAATG 59.099 47.619 0.00 0.0 0.00 2.32
1382 1437 2.181975 CTCCCAGGTCCAATGCAAAAT 58.818 47.619 0.00 0.0 0.00 1.82
1386 1441 0.913934 TAGCTCCCAGGTCCAATGCA 60.914 55.000 0.00 0.0 0.00 3.96
1387 1442 0.255890 TTAGCTCCCAGGTCCAATGC 59.744 55.000 0.00 0.0 0.00 3.56
1388 1443 1.133976 CCTTAGCTCCCAGGTCCAATG 60.134 57.143 0.00 0.0 0.00 2.82
1389 1444 1.216990 CCTTAGCTCCCAGGTCCAAT 58.783 55.000 0.00 0.0 0.00 3.16
1390 1445 0.178873 ACCTTAGCTCCCAGGTCCAA 60.179 55.000 6.38 0.0 39.37 3.53
1391 1446 0.714180 TACCTTAGCTCCCAGGTCCA 59.286 55.000 14.04 0.0 42.81 4.02
1393 1448 2.162264 ACTACCTTAGCTCCCAGGTC 57.838 55.000 14.04 0.0 42.81 3.85
1395 1450 2.838202 TCAAACTACCTTAGCTCCCAGG 59.162 50.000 0.00 0.0 36.10 4.45
1396 1451 4.254492 GTTCAAACTACCTTAGCTCCCAG 58.746 47.826 0.00 0.0 0.00 4.45
1400 1455 4.254492 CCAGGTTCAAACTACCTTAGCTC 58.746 47.826 0.00 0.0 43.45 4.09
1402 1457 3.008704 TCCCAGGTTCAAACTACCTTAGC 59.991 47.826 0.00 0.0 43.45 3.09
1482 1616 0.938713 GCAAAATGCAACAGCAGCAA 59.061 45.000 0.00 0.0 46.27 3.91
2282 2482 2.035783 GAGGCCCAGGTCCAAACC 59.964 66.667 0.00 0.0 46.87 3.27
2283 2483 0.609406 GAAGAGGCCCAGGTCCAAAC 60.609 60.000 0.00 0.0 0.00 2.93
2284 2484 0.772124 AGAAGAGGCCCAGGTCCAAA 60.772 55.000 0.00 0.0 0.00 3.28
2285 2485 0.772124 AAGAAGAGGCCCAGGTCCAA 60.772 55.000 0.00 0.0 0.00 3.53
2286 2486 0.772124 AAAGAAGAGGCCCAGGTCCA 60.772 55.000 0.00 0.0 0.00 4.02
2287 2487 0.034960 GAAAGAAGAGGCCCAGGTCC 60.035 60.000 0.00 0.0 0.00 4.46
2288 2488 0.988063 AGAAAGAAGAGGCCCAGGTC 59.012 55.000 0.00 0.0 0.00 3.85
2289 2489 0.695347 CAGAAAGAAGAGGCCCAGGT 59.305 55.000 0.00 0.0 0.00 4.00
2290 2490 0.034670 CCAGAAAGAAGAGGCCCAGG 60.035 60.000 0.00 0.0 0.00 4.45
2291 2491 0.034670 CCCAGAAAGAAGAGGCCCAG 60.035 60.000 0.00 0.0 0.00 4.45
2292 2492 2.078452 CCCAGAAAGAAGAGGCCCA 58.922 57.895 0.00 0.0 0.00 5.36
2293 2493 1.379176 GCCCAGAAAGAAGAGGCCC 60.379 63.158 0.00 0.0 37.66 5.80
2294 2494 0.679321 CAGCCCAGAAAGAAGAGGCC 60.679 60.000 0.00 0.0 45.00 5.19
2295 2495 0.037447 ACAGCCCAGAAAGAAGAGGC 59.963 55.000 0.00 0.0 44.20 4.70
2296 2496 2.355209 GGTACAGCCCAGAAAGAAGAGG 60.355 54.545 0.00 0.0 0.00 3.69
2297 2497 2.303022 TGGTACAGCCCAGAAAGAAGAG 59.697 50.000 0.00 0.0 36.04 2.85
2298 2498 2.334977 TGGTACAGCCCAGAAAGAAGA 58.665 47.619 0.00 0.0 36.04 2.87
2299 2499 2.859165 TGGTACAGCCCAGAAAGAAG 57.141 50.000 0.00 0.0 36.04 2.85
2318 2518 8.886717 TAAACCAGTTTTGCAGGAATTGCCTAT 61.887 37.037 0.37 0.0 41.64 2.57
2319 2519 7.646583 TAAACCAGTTTTGCAGGAATTGCCTA 61.647 38.462 0.37 0.0 41.64 3.93
2320 2520 6.916648 TAAACCAGTTTTGCAGGAATTGCCT 61.917 40.000 0.37 0.0 41.64 4.75
2321 2521 4.742138 TAAACCAGTTTTGCAGGAATTGCC 60.742 41.667 0.37 0.0 41.64 4.52
2322 2522 4.376146 TAAACCAGTTTTGCAGGAATTGC 58.624 39.130 0.37 0.0 42.14 3.56
2323 2523 6.917217 TTTAAACCAGTTTTGCAGGAATTG 57.083 33.333 0.37 0.0 34.23 2.32
2324 2524 7.315247 GTTTTAAACCAGTTTTGCAGGAATT 57.685 32.000 0.37 0.0 34.23 2.17
2325 2525 6.918892 GTTTTAAACCAGTTTTGCAGGAAT 57.081 33.333 0.37 0.0 34.23 3.01
2340 2540 7.201741 GCTCTATTCTGAGGGATGGTTTTAAAC 60.202 40.741 0.00 0.0 34.82 2.01
2341 2541 6.828785 GCTCTATTCTGAGGGATGGTTTTAAA 59.171 38.462 0.00 0.0 34.82 1.52
2342 2542 6.357367 GCTCTATTCTGAGGGATGGTTTTAA 58.643 40.000 0.00 0.0 34.82 1.52
2343 2543 5.163195 GGCTCTATTCTGAGGGATGGTTTTA 60.163 44.000 0.00 0.0 34.82 1.52
2344 2544 4.385754 GGCTCTATTCTGAGGGATGGTTTT 60.386 45.833 0.00 0.0 34.82 2.43
2345 2545 3.137360 GGCTCTATTCTGAGGGATGGTTT 59.863 47.826 0.00 0.0 34.82 3.27
2346 2546 2.708325 GGCTCTATTCTGAGGGATGGTT 59.292 50.000 0.00 0.0 34.82 3.67
2347 2547 2.334023 GGCTCTATTCTGAGGGATGGT 58.666 52.381 0.00 0.0 34.82 3.55
2348 2548 2.038295 GTGGCTCTATTCTGAGGGATGG 59.962 54.545 0.00 0.0 34.82 3.51
2349 2549 2.288702 CGTGGCTCTATTCTGAGGGATG 60.289 54.545 0.00 0.0 34.82 3.51
2350 2550 1.967066 CGTGGCTCTATTCTGAGGGAT 59.033 52.381 0.00 0.0 34.82 3.85
2351 2551 1.403814 CGTGGCTCTATTCTGAGGGA 58.596 55.000 0.00 0.0 34.82 4.20
2352 2552 0.249657 GCGTGGCTCTATTCTGAGGG 60.250 60.000 0.00 0.0 34.82 4.30
2353 2553 3.280920 GCGTGGCTCTATTCTGAGG 57.719 57.895 0.00 0.0 34.82 3.86


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

AutoCloner maintained by Alex Coulton.