Multiple sequence alignment - TraesCS7B01G390800

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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 TraesCS7B01G390800 chr7B 100.000 2550 0 0 1 2550 657478342 657480891 0.000000e+00 4710.0
1 TraesCS7B01G390800 chr7B 99.249 1998 13 1 1 1996 657495276 657497273 0.000000e+00 3605.0
2 TraesCS7B01G390800 chr7B 95.000 340 17 0 1228 1567 657500720 657501059 3.730000e-148 534.0
3 TraesCS7B01G390800 chr7B 98.104 211 4 0 2074 2284 657497273 657497483 4.010000e-98 368.0
4 TraesCS7B01G390800 chr7B 89.177 231 15 5 1853 2081 657532241 657532463 1.930000e-71 279.0
5 TraesCS7B01G390800 chr7B 87.342 79 3 1 1751 1829 657532116 657532187 1.630000e-12 84.2
6 TraesCS7B01G390800 chr7D 89.339 1013 48 23 637 1602 586783155 586784154 0.000000e+00 1218.0
7 TraesCS7B01G390800 chr7D 91.948 534 40 2 1 531 586782623 586782090 0.000000e+00 745.0
8 TraesCS7B01G390800 chr7D 91.418 536 24 12 1157 1682 586765838 586766361 0.000000e+00 715.0
9 TraesCS7B01G390800 chr7D 90.772 531 46 3 1 531 586764821 586764294 0.000000e+00 706.0
10 TraesCS7B01G390800 chr7D 89.423 520 30 8 637 1145 586765356 586765861 1.290000e-177 632.0
11 TraesCS7B01G390800 chr7D 98.165 109 2 0 2119 2227 586766740 586766848 9.310000e-45 191.0
12 TraesCS7B01G390800 chr7D 98.058 103 2 0 533 635 586764863 586764965 2.020000e-41 180.0
13 TraesCS7B01G390800 chr7D 97.087 103 3 0 533 635 586782665 586782767 9.380000e-40 174.0
14 TraesCS7B01G390800 chr7A 89.762 840 35 22 739 1561 677871128 677871933 0.000000e+00 1027.0
15 TraesCS7B01G390800 chr7A 84.518 394 29 14 1853 2225 677872457 677872839 6.710000e-96 361.0
16 TraesCS7B01G390800 chr5B 94.891 274 8 3 2278 2550 281571140 281570872 8.430000e-115 424.0
17 TraesCS7B01G390800 chr5B 94.203 276 10 4 2276 2550 63251589 63251859 1.410000e-112 416.0
18 TraesCS7B01G390800 chr5B 94.495 109 6 0 998 1106 445173802 445173910 4.360000e-38 169.0
19 TraesCS7B01G390800 chr6B 93.972 282 12 4 2269 2550 695731235 695730959 3.030000e-114 422.0
20 TraesCS7B01G390800 chr6B 94.545 275 10 1 2276 2550 165072590 165072321 1.090000e-113 420.0
21 TraesCS7B01G390800 chr1B 94.585 277 8 4 2275 2550 295769576 295769306 3.030000e-114 422.0
22 TraesCS7B01G390800 chr1B 94.505 273 9 2 2279 2550 104950820 104950553 1.410000e-112 416.0
23 TraesCS7B01G390800 chr1B 87.037 216 28 0 1228 1443 428801992 428802207 7.050000e-61 244.0
24 TraesCS7B01G390800 chr1B 85.294 102 13 2 1439 1539 428802292 428802392 1.250000e-18 104.0
25 TraesCS7B01G390800 chr3B 95.149 268 7 2 2283 2550 734166415 734166154 3.920000e-113 418.0
26 TraesCS7B01G390800 chr3B 93.310 284 10 5 2271 2550 401515636 401515358 6.570000e-111 411.0
27 TraesCS7B01G390800 chr2A 94.203 276 10 2 2275 2550 18195187 18195456 1.410000e-112 416.0
28 TraesCS7B01G390800 chr2A 94.118 34 2 0 7 40 779429657 779429690 5.000000e-03 52.8
29 TraesCS7B01G390800 chr2A 96.774 31 1 0 10 40 779526378 779526408 5.000000e-03 52.8
30 TraesCS7B01G390800 chr2A 96.774 31 1 0 10 40 779625884 779625914 5.000000e-03 52.8
31 TraesCS7B01G390800 chr1D 87.037 216 28 0 1228 1443 316678681 316678896 7.050000e-61 244.0
32 TraesCS7B01G390800 chr1D 85.484 186 25 2 948 1132 316678382 316678566 2.590000e-45 193.0
33 TraesCS7B01G390800 chr1A 87.037 216 28 0 1228 1443 397770015 397770230 7.050000e-61 244.0
34 TraesCS7B01G390800 chr1A 86.145 166 23 0 966 1131 397769736 397769901 2.020000e-41 180.0
35 TraesCS7B01G390800 chr4D 93.130 131 9 0 1229 1359 3588484 3588354 2.590000e-45 193.0
36 TraesCS7B01G390800 chr6A 95.327 107 5 0 999 1105 129316997 129317103 1.210000e-38 171.0
37 TraesCS7B01G390800 chr5D 92.920 113 8 0 998 1110 373763090 373763202 5.640000e-37 165.0
38 TraesCS7B01G390800 chr5D 82.524 103 17 1 4 106 406482600 406482499 3.490000e-14 89.8
39 TraesCS7B01G390800 chr5D 95.455 44 2 0 4 47 445190990 445191033 1.270000e-08 71.3
40 TraesCS7B01G390800 chr6D 93.519 108 7 0 999 1106 106048845 106048952 7.300000e-36 161.0
41 TraesCS7B01G390800 chr5A 93.478 46 3 0 2 47 562492702 562492747 4.550000e-08 69.4
42 TraesCS7B01G390800 chr4A 81.481 81 12 2 553 632 479421445 479421367 2.120000e-06 63.9


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 TraesCS7B01G390800 chr7B 657478342 657480891 2549 False 4710.000000 4710 100.0000 1 2550 1 chr7B.!!$F1 2549
1 TraesCS7B01G390800 chr7B 657495276 657501059 5783 False 1502.333333 3605 97.4510 1 2284 3 chr7B.!!$F2 2283
2 TraesCS7B01G390800 chr7D 586782090 586782623 533 True 745.000000 745 91.9480 1 531 1 chr7D.!!$R2 530
3 TraesCS7B01G390800 chr7D 586764294 586764821 527 True 706.000000 706 90.7720 1 531 1 chr7D.!!$R1 530
4 TraesCS7B01G390800 chr7D 586782665 586784154 1489 False 696.000000 1218 93.2130 533 1602 2 chr7D.!!$F2 1069
5 TraesCS7B01G390800 chr7D 586764863 586766848 1985 False 429.500000 715 94.2660 533 2227 4 chr7D.!!$F1 1694
6 TraesCS7B01G390800 chr7A 677871128 677872839 1711 False 694.000000 1027 87.1400 739 2225 2 chr7A.!!$F1 1486
7 TraesCS7B01G390800 chr1D 316678382 316678896 514 False 218.500000 244 86.2605 948 1443 2 chr1D.!!$F1 495


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
444 448 0.391661 CACAACAGACTATGGCCGCT 60.392 55.0 0.0 0.0 0.0 5.52 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2289 3153 0.533308 ACACGTGTGGGCGTTAACAT 60.533 50.0 22.71 0.0 43.83 2.71 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
226 227 1.149174 CCATAGGTGCCAATCCGCT 59.851 57.895 0.00 0.00 0.00 5.52
444 448 0.391661 CACAACAGACTATGGCCGCT 60.392 55.000 0.00 0.00 0.00 5.52
1021 1444 4.404073 AGATGCAGATCTTCGTTAAGACCT 59.596 41.667 0.00 0.00 44.40 3.85
1756 2564 3.099002 TCCGCATGGATTGGATGTG 57.901 52.632 0.00 0.00 40.17 3.21
2007 2863 3.732774 CGGTGATGTTTTGCAGATCATGG 60.733 47.826 5.58 0.00 0.00 3.66
2008 2864 3.429822 GGTGATGTTTTGCAGATCATGGG 60.430 47.826 5.58 0.00 0.00 4.00
2009 2865 3.444742 GTGATGTTTTGCAGATCATGGGA 59.555 43.478 5.58 0.00 0.00 4.37
2011 2867 1.820519 TGTTTTGCAGATCATGGGAGC 59.179 47.619 0.00 0.00 0.00 4.70
2012 2868 1.820519 GTTTTGCAGATCATGGGAGCA 59.179 47.619 0.00 0.00 0.00 4.26
2013 2869 2.429610 GTTTTGCAGATCATGGGAGCAT 59.570 45.455 0.00 0.00 34.87 3.79
2239 3103 3.181521 GCTTGCACTGGTTGTTGTTTTTC 60.182 43.478 0.00 0.00 0.00 2.29
2253 3117 3.884169 TGTTTTTCTCGAAAATCTGCCG 58.116 40.909 5.74 0.00 39.69 5.69
2298 3162 5.876576 AAAAAGAACGGAAATGTTAACGC 57.123 34.783 0.26 0.00 30.75 4.84
2299 3163 3.547649 AAGAACGGAAATGTTAACGCC 57.452 42.857 0.26 0.00 30.75 5.68
2300 3164 1.808343 AGAACGGAAATGTTAACGCCC 59.192 47.619 0.26 0.00 30.75 6.13
2301 3165 1.536331 GAACGGAAATGTTAACGCCCA 59.464 47.619 0.26 0.00 30.75 5.36
2302 3166 0.876399 ACGGAAATGTTAACGCCCAC 59.124 50.000 0.26 0.00 0.00 4.61
2304 3168 1.400500 CGGAAATGTTAACGCCCACAC 60.400 52.381 0.26 0.00 0.00 3.82
2305 3169 1.400500 GGAAATGTTAACGCCCACACG 60.400 52.381 0.26 0.00 39.50 4.49
2319 6607 3.882013 CACGTGTGGGCGTTTGCA 61.882 61.111 7.58 0.00 43.83 4.08
2328 6616 4.036804 GCGTTTGCACATCGCCCA 62.037 61.111 15.37 0.00 43.41 5.36
2344 6632 4.758251 CACGCGCCTCCATCACCA 62.758 66.667 5.73 0.00 0.00 4.17
2345 6633 4.760047 ACGCGCCTCCATCACCAC 62.760 66.667 5.73 0.00 0.00 4.16
2348 6636 2.981302 CGCCTCCATCACCACTCA 59.019 61.111 0.00 0.00 0.00 3.41
2349 6637 1.524002 CGCCTCCATCACCACTCAT 59.476 57.895 0.00 0.00 0.00 2.90
2350 6638 0.107508 CGCCTCCATCACCACTCATT 60.108 55.000 0.00 0.00 0.00 2.57
2351 6639 1.679944 CGCCTCCATCACCACTCATTT 60.680 52.381 0.00 0.00 0.00 2.32
2352 6640 2.450476 GCCTCCATCACCACTCATTTT 58.550 47.619 0.00 0.00 0.00 1.82
2353 6641 2.165030 GCCTCCATCACCACTCATTTTG 59.835 50.000 0.00 0.00 0.00 2.44
2354 6642 2.165030 CCTCCATCACCACTCATTTTGC 59.835 50.000 0.00 0.00 0.00 3.68
2355 6643 2.165030 CTCCATCACCACTCATTTTGCC 59.835 50.000 0.00 0.00 0.00 4.52
2357 6645 2.353011 CCATCACCACTCATTTTGCCAC 60.353 50.000 0.00 0.00 0.00 5.01
2360 6648 1.876799 CACCACTCATTTTGCCACGTA 59.123 47.619 0.00 0.00 0.00 3.57
2361 6649 2.487762 CACCACTCATTTTGCCACGTAT 59.512 45.455 0.00 0.00 0.00 3.06
2363 6651 2.746904 CCACTCATTTTGCCACGTATGA 59.253 45.455 0.00 0.00 0.00 2.15
2364 6652 3.190327 CCACTCATTTTGCCACGTATGAA 59.810 43.478 0.00 0.00 0.00 2.57
2365 6653 4.142403 CCACTCATTTTGCCACGTATGAAT 60.142 41.667 0.00 0.00 0.00 2.57
2367 6655 6.194463 CACTCATTTTGCCACGTATGAATAG 58.806 40.000 0.00 0.00 0.00 1.73
2369 6657 6.767902 ACTCATTTTGCCACGTATGAATAGAT 59.232 34.615 0.00 0.00 0.00 1.98
2370 6658 6.958255 TCATTTTGCCACGTATGAATAGATG 58.042 36.000 0.00 0.00 0.00 2.90
2372 6660 5.984233 TTTGCCACGTATGAATAGATGAC 57.016 39.130 0.00 0.00 0.00 3.06
2373 6661 4.664150 TGCCACGTATGAATAGATGACA 57.336 40.909 0.00 0.00 0.00 3.58
2374 6662 5.213891 TGCCACGTATGAATAGATGACAT 57.786 39.130 0.00 0.00 0.00 3.06
2375 6663 5.230182 TGCCACGTATGAATAGATGACATC 58.770 41.667 7.39 7.39 0.00 3.06
2376 6664 5.221422 TGCCACGTATGAATAGATGACATCA 60.221 40.000 17.57 4.35 0.00 3.07
2377 6665 5.347093 GCCACGTATGAATAGATGACATCAG 59.653 44.000 17.57 0.66 0.00 2.90
2378 6666 5.347093 CCACGTATGAATAGATGACATCAGC 59.653 44.000 17.57 4.42 0.00 4.26
2379 6667 5.922544 CACGTATGAATAGATGACATCAGCA 59.077 40.000 17.57 9.50 34.14 4.41
2380 6668 6.589139 CACGTATGAATAGATGACATCAGCAT 59.411 38.462 17.57 14.95 34.14 3.79
2381 6669 7.756722 CACGTATGAATAGATGACATCAGCATA 59.243 37.037 17.57 14.12 34.14 3.14
2382 6670 8.306761 ACGTATGAATAGATGACATCAGCATAA 58.693 33.333 17.57 0.00 34.14 1.90
2383 6671 9.310716 CGTATGAATAGATGACATCAGCATAAT 57.689 33.333 17.57 6.51 34.14 1.28
2407 6695 9.719355 AATTTATTTATTTTTGGTTCTCGGCTT 57.281 25.926 0.00 0.00 0.00 4.35
2412 6700 8.943909 TTTATTTTTGGTTCTCGGCTTAAAAA 57.056 26.923 0.00 0.00 33.33 1.94
2414 6702 6.836577 TTTTTGGTTCTCGGCTTAAAAATG 57.163 33.333 0.00 0.00 0.00 2.32
2415 6703 5.523438 TTTGGTTCTCGGCTTAAAAATGT 57.477 34.783 0.00 0.00 0.00 2.71
2418 6706 4.339814 TGGTTCTCGGCTTAAAAATGTTGT 59.660 37.500 0.00 0.00 0.00 3.32
2419 6707 5.531659 TGGTTCTCGGCTTAAAAATGTTGTA 59.468 36.000 0.00 0.00 0.00 2.41
2420 6708 6.207810 TGGTTCTCGGCTTAAAAATGTTGTAT 59.792 34.615 0.00 0.00 0.00 2.29
2421 6709 6.745907 GGTTCTCGGCTTAAAAATGTTGTATC 59.254 38.462 0.00 0.00 0.00 2.24
2422 6710 7.361799 GGTTCTCGGCTTAAAAATGTTGTATCT 60.362 37.037 0.00 0.00 0.00 1.98
2423 6711 7.303634 TCTCGGCTTAAAAATGTTGTATCTC 57.696 36.000 0.00 0.00 0.00 2.75
2424 6712 6.315393 TCTCGGCTTAAAAATGTTGTATCTCC 59.685 38.462 0.00 0.00 0.00 3.71
2425 6713 6.177610 TCGGCTTAAAAATGTTGTATCTCCT 58.822 36.000 0.00 0.00 0.00 3.69
2426 6714 7.332557 TCGGCTTAAAAATGTTGTATCTCCTA 58.667 34.615 0.00 0.00 0.00 2.94
2469 6757 8.468720 AAAATCCGTTTTTACCATTAAATCCG 57.531 30.769 0.00 0.00 35.75 4.18
2470 6758 6.762702 ATCCGTTTTTACCATTAAATCCGT 57.237 33.333 0.00 0.00 0.00 4.69
2471 6759 6.180771 TCCGTTTTTACCATTAAATCCGTC 57.819 37.500 0.00 0.00 0.00 4.79
2472 6760 5.939296 TCCGTTTTTACCATTAAATCCGTCT 59.061 36.000 0.00 0.00 0.00 4.18
2473 6761 6.092533 TCCGTTTTTACCATTAAATCCGTCTC 59.907 38.462 0.00 0.00 0.00 3.36
2474 6762 5.955496 CGTTTTTACCATTAAATCCGTCTCG 59.045 40.000 0.00 0.00 0.00 4.04
2475 6763 6.183360 CGTTTTTACCATTAAATCCGTCTCGA 60.183 38.462 0.00 0.00 0.00 4.04
2476 6764 6.651755 TTTTACCATTAAATCCGTCTCGAC 57.348 37.500 0.00 0.00 0.00 4.20
2490 6778 4.809455 GTCTCGACGAGATCTTCAAAAC 57.191 45.455 28.81 10.84 40.98 2.43
2491 6779 4.477780 GTCTCGACGAGATCTTCAAAACT 58.522 43.478 28.81 0.00 40.98 2.66
2492 6780 5.629097 GTCTCGACGAGATCTTCAAAACTA 58.371 41.667 28.81 0.33 40.98 2.24
2493 6781 5.735427 GTCTCGACGAGATCTTCAAAACTAG 59.265 44.000 28.81 0.00 40.98 2.57
2494 6782 5.642491 TCTCGACGAGATCTTCAAAACTAGA 59.358 40.000 23.27 0.00 33.35 2.43
2495 6783 5.629097 TCGACGAGATCTTCAAAACTAGAC 58.371 41.667 0.00 0.00 0.00 2.59
2496 6784 4.794246 CGACGAGATCTTCAAAACTAGACC 59.206 45.833 0.00 0.00 0.00 3.85
2497 6785 5.074584 ACGAGATCTTCAAAACTAGACCC 57.925 43.478 0.00 0.00 0.00 4.46
2498 6786 4.106197 CGAGATCTTCAAAACTAGACCCG 58.894 47.826 0.00 0.00 0.00 5.28
2499 6787 4.142447 CGAGATCTTCAAAACTAGACCCGA 60.142 45.833 0.00 0.00 0.00 5.14
2500 6788 5.450688 CGAGATCTTCAAAACTAGACCCGAT 60.451 44.000 0.00 0.00 0.00 4.18
2501 6789 5.665459 AGATCTTCAAAACTAGACCCGATG 58.335 41.667 0.00 0.00 0.00 3.84
2502 6790 4.884668 TCTTCAAAACTAGACCCGATGT 57.115 40.909 0.00 0.00 0.00 3.06
2503 6791 5.223449 TCTTCAAAACTAGACCCGATGTT 57.777 39.130 0.00 0.00 0.00 2.71
2504 6792 4.994852 TCTTCAAAACTAGACCCGATGTTG 59.005 41.667 0.00 0.00 0.00 3.33
2505 6793 4.610605 TCAAAACTAGACCCGATGTTGA 57.389 40.909 0.00 0.00 0.00 3.18
2506 6794 5.160607 TCAAAACTAGACCCGATGTTGAT 57.839 39.130 0.00 0.00 0.00 2.57
2507 6795 6.288941 TCAAAACTAGACCCGATGTTGATA 57.711 37.500 0.00 0.00 0.00 2.15
2508 6796 6.884832 TCAAAACTAGACCCGATGTTGATAT 58.115 36.000 0.00 0.00 0.00 1.63
2509 6797 6.761242 TCAAAACTAGACCCGATGTTGATATG 59.239 38.462 0.00 0.00 0.00 1.78
2510 6798 5.871396 AACTAGACCCGATGTTGATATGT 57.129 39.130 0.00 0.00 0.00 2.29
2511 6799 5.871396 ACTAGACCCGATGTTGATATGTT 57.129 39.130 0.00 0.00 0.00 2.71
2512 6800 6.235231 ACTAGACCCGATGTTGATATGTTT 57.765 37.500 0.00 0.00 0.00 2.83
2513 6801 6.281405 ACTAGACCCGATGTTGATATGTTTC 58.719 40.000 0.00 0.00 0.00 2.78
2514 6802 4.119862 AGACCCGATGTTGATATGTTTCG 58.880 43.478 0.00 0.00 0.00 3.46
2515 6803 4.116961 GACCCGATGTTGATATGTTTCGA 58.883 43.478 0.00 0.00 0.00 3.71
2516 6804 3.869246 ACCCGATGTTGATATGTTTCGAC 59.131 43.478 0.00 0.00 0.00 4.20
2517 6805 3.060540 CCCGATGTTGATATGTTTCGACG 60.061 47.826 0.00 0.00 33.42 5.12
2518 6806 3.794564 CCGATGTTGATATGTTTCGACGA 59.205 43.478 0.00 0.00 33.42 4.20
2519 6807 4.444388 CCGATGTTGATATGTTTCGACGAT 59.556 41.667 0.00 0.00 33.42 3.73
2520 6808 5.051039 CCGATGTTGATATGTTTCGACGATT 60.051 40.000 0.00 0.00 33.42 3.34
2521 6809 6.410845 CGATGTTGATATGTTTCGACGATTT 58.589 36.000 0.00 0.00 33.42 2.17
2522 6810 6.899771 CGATGTTGATATGTTTCGACGATTTT 59.100 34.615 0.00 0.00 33.42 1.82
2523 6811 7.425309 CGATGTTGATATGTTTCGACGATTTTT 59.575 33.333 0.00 0.00 33.42 1.94
2543 6831 2.307934 TTTTTGCCAGAAGTTGCCAC 57.692 45.000 0.00 0.00 0.00 5.01
2544 6832 0.102120 TTTTGCCAGAAGTTGCCACG 59.898 50.000 0.00 0.00 0.00 4.94
2545 6833 0.749818 TTTGCCAGAAGTTGCCACGA 60.750 50.000 0.00 0.00 0.00 4.35
2546 6834 0.537143 TTGCCAGAAGTTGCCACGAT 60.537 50.000 0.00 0.00 0.00 3.73
2547 6835 1.236616 TGCCAGAAGTTGCCACGATG 61.237 55.000 0.00 0.00 0.00 3.84
2548 6836 1.237285 GCCAGAAGTTGCCACGATGT 61.237 55.000 0.00 0.00 0.00 3.06
2549 6837 1.238439 CCAGAAGTTGCCACGATGTT 58.762 50.000 0.00 0.00 0.00 2.71
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
444 448 1.604604 GCTGGTTGTGGCTAGTTTCA 58.395 50.000 0.00 0.00 0.00 2.69
1021 1444 2.661054 TGATCGTCTTCCCGGTCAA 58.339 52.632 0.00 0.00 44.37 3.18
2011 2867 0.742505 AAACCGATCCAGCATGCATG 59.257 50.000 22.70 22.70 31.97 4.06
2012 2868 2.346766 TAAACCGATCCAGCATGCAT 57.653 45.000 21.98 4.29 31.97 3.96
2013 2869 1.742831 GTTAAACCGATCCAGCATGCA 59.257 47.619 21.98 0.00 31.97 3.96
2239 3103 1.212616 CCTAGCGGCAGATTTTCGAG 58.787 55.000 1.45 0.00 0.00 4.04
2253 3117 7.730364 TTTTAATGAAATCGAGATCCCTAGC 57.270 36.000 0.00 0.00 0.00 3.42
2284 3148 0.875728 TGTGGGCGTTAACATTTCCG 59.124 50.000 6.39 0.00 0.00 4.30
2285 3149 1.400500 CGTGTGGGCGTTAACATTTCC 60.400 52.381 6.39 1.91 0.00 3.13
2287 3151 1.002251 CACGTGTGGGCGTTAACATTT 60.002 47.619 7.58 0.00 43.83 2.32
2288 3152 0.589223 CACGTGTGGGCGTTAACATT 59.411 50.000 7.58 0.00 43.83 2.71
2289 3153 0.533308 ACACGTGTGGGCGTTAACAT 60.533 50.000 22.71 0.00 43.83 2.71
2292 3156 3.720531 CACACGTGTGGGCGTTAA 58.279 55.556 35.65 0.00 43.83 2.01
2304 3168 3.192954 ATGTGCAAACGCCCACACG 62.193 57.895 0.00 0.00 43.89 4.49
2305 3169 1.371635 GATGTGCAAACGCCCACAC 60.372 57.895 0.00 0.00 43.89 3.82
2306 3170 2.902419 CGATGTGCAAACGCCCACA 61.902 57.895 0.00 0.00 45.01 4.17
2307 3171 2.126888 CGATGTGCAAACGCCCAC 60.127 61.111 0.00 0.00 0.00 4.61
2308 3172 4.036804 GCGATGTGCAAACGCCCA 62.037 61.111 18.18 0.00 45.35 5.36
2328 6616 4.760047 GTGGTGATGGAGGCGCGT 62.760 66.667 8.43 0.27 0.00 6.01
2333 6621 2.165030 GCAAAATGAGTGGTGATGGAGG 59.835 50.000 0.00 0.00 0.00 4.30
2335 6623 2.170166 GGCAAAATGAGTGGTGATGGA 58.830 47.619 0.00 0.00 0.00 3.41
2339 6627 0.950836 CGTGGCAAAATGAGTGGTGA 59.049 50.000 0.00 0.00 0.00 4.02
2342 6630 2.746904 TCATACGTGGCAAAATGAGTGG 59.253 45.455 0.00 0.00 0.00 4.00
2344 6632 6.112734 TCTATTCATACGTGGCAAAATGAGT 58.887 36.000 0.00 0.00 30.53 3.41
2345 6633 6.603237 TCTATTCATACGTGGCAAAATGAG 57.397 37.500 0.00 0.00 30.53 2.90
2348 6636 6.542005 TGTCATCTATTCATACGTGGCAAAAT 59.458 34.615 0.00 0.00 0.00 1.82
2349 6637 5.877564 TGTCATCTATTCATACGTGGCAAAA 59.122 36.000 0.00 0.00 0.00 2.44
2350 6638 5.423886 TGTCATCTATTCATACGTGGCAAA 58.576 37.500 0.00 0.00 0.00 3.68
2351 6639 5.017294 TGTCATCTATTCATACGTGGCAA 57.983 39.130 0.00 0.00 0.00 4.52
2352 6640 4.664150 TGTCATCTATTCATACGTGGCA 57.336 40.909 0.00 0.00 0.00 4.92
2353 6641 5.230182 TGATGTCATCTATTCATACGTGGC 58.770 41.667 13.90 0.00 0.00 5.01
2354 6642 5.347093 GCTGATGTCATCTATTCATACGTGG 59.653 44.000 13.90 0.00 0.00 4.94
2355 6643 5.922544 TGCTGATGTCATCTATTCATACGTG 59.077 40.000 13.90 0.00 0.00 4.49
2357 6645 8.693542 TTATGCTGATGTCATCTATTCATACG 57.306 34.615 13.90 0.00 0.00 3.06
2381 6669 9.719355 AAGCCGAGAACCAAAAATAAATAAATT 57.281 25.926 0.00 0.00 0.00 1.82
2387 6675 8.943909 TTTTTAAGCCGAGAACCAAAAATAAA 57.056 26.923 0.00 0.00 0.00 1.40
2388 6676 8.983724 CATTTTTAAGCCGAGAACCAAAAATAA 58.016 29.630 0.00 0.00 35.15 1.40
2389 6677 8.145122 ACATTTTTAAGCCGAGAACCAAAAATA 58.855 29.630 0.00 0.00 35.15 1.40
2391 6679 6.342111 ACATTTTTAAGCCGAGAACCAAAAA 58.658 32.000 0.00 0.00 31.65 1.94
2392 6680 5.908341 ACATTTTTAAGCCGAGAACCAAAA 58.092 33.333 0.00 0.00 0.00 2.44
2393 6681 5.523438 ACATTTTTAAGCCGAGAACCAAA 57.477 34.783 0.00 0.00 0.00 3.28
2394 6682 5.163499 ACAACATTTTTAAGCCGAGAACCAA 60.163 36.000 0.00 0.00 0.00 3.67
2396 6684 4.866921 ACAACATTTTTAAGCCGAGAACC 58.133 39.130 0.00 0.00 0.00 3.62
2397 6685 7.527457 AGATACAACATTTTTAAGCCGAGAAC 58.473 34.615 0.00 0.00 0.00 3.01
2398 6686 7.148306 GGAGATACAACATTTTTAAGCCGAGAA 60.148 37.037 0.00 0.00 0.00 2.87
2399 6687 6.315393 GGAGATACAACATTTTTAAGCCGAGA 59.685 38.462 0.00 0.00 0.00 4.04
2401 6689 6.177610 AGGAGATACAACATTTTTAAGCCGA 58.822 36.000 0.00 0.00 0.00 5.54
2402 6690 6.436843 AGGAGATACAACATTTTTAAGCCG 57.563 37.500 0.00 0.00 0.00 5.52
2444 6732 8.089597 ACGGATTTAATGGTAAAAACGGATTTT 58.910 29.630 1.60 1.60 43.52 1.82
2445 6733 7.604549 ACGGATTTAATGGTAAAAACGGATTT 58.395 30.769 0.00 0.00 37.02 2.17
2446 6734 7.121611 AGACGGATTTAATGGTAAAAACGGATT 59.878 33.333 0.00 0.00 37.02 3.01
2447 6735 6.600427 AGACGGATTTAATGGTAAAAACGGAT 59.400 34.615 0.00 0.00 37.02 4.18
2448 6736 5.939296 AGACGGATTTAATGGTAAAAACGGA 59.061 36.000 0.00 0.00 37.02 4.69
2449 6737 6.185852 AGACGGATTTAATGGTAAAAACGG 57.814 37.500 0.00 0.00 37.02 4.44
2450 6738 5.955496 CGAGACGGATTTAATGGTAAAAACG 59.045 40.000 0.00 0.00 37.89 3.60
2451 6739 6.957635 GTCGAGACGGATTTAATGGTAAAAAC 59.042 38.462 0.00 0.00 32.98 2.43
2452 6740 7.064060 GTCGAGACGGATTTAATGGTAAAAA 57.936 36.000 0.00 0.00 32.98 1.94
2453 6741 6.651755 GTCGAGACGGATTTAATGGTAAAA 57.348 37.500 0.00 0.00 32.98 1.52
2469 6757 4.477780 AGTTTTGAAGATCTCGTCGAGAC 58.522 43.478 26.46 18.95 41.76 3.36
2470 6758 4.768130 AGTTTTGAAGATCTCGTCGAGA 57.232 40.909 26.15 26.15 43.20 4.04
2471 6759 5.735427 GTCTAGTTTTGAAGATCTCGTCGAG 59.265 44.000 16.33 16.33 0.00 4.04
2472 6760 5.391736 GGTCTAGTTTTGAAGATCTCGTCGA 60.392 44.000 0.00 0.00 0.00 4.20
2473 6761 4.794246 GGTCTAGTTTTGAAGATCTCGTCG 59.206 45.833 0.00 0.00 0.00 5.12
2474 6762 5.103687 GGGTCTAGTTTTGAAGATCTCGTC 58.896 45.833 0.00 0.00 0.00 4.20
2475 6763 4.380655 CGGGTCTAGTTTTGAAGATCTCGT 60.381 45.833 0.00 0.00 0.00 4.18
2476 6764 4.106197 CGGGTCTAGTTTTGAAGATCTCG 58.894 47.826 0.00 0.00 0.00 4.04
2477 6765 5.326200 TCGGGTCTAGTTTTGAAGATCTC 57.674 43.478 0.00 0.00 0.00 2.75
2478 6766 5.187967 ACATCGGGTCTAGTTTTGAAGATCT 59.812 40.000 0.00 0.00 0.00 2.75
2479 6767 5.420409 ACATCGGGTCTAGTTTTGAAGATC 58.580 41.667 0.00 0.00 0.00 2.75
2480 6768 5.422214 ACATCGGGTCTAGTTTTGAAGAT 57.578 39.130 0.00 0.00 0.00 2.40
2481 6769 4.884668 ACATCGGGTCTAGTTTTGAAGA 57.115 40.909 0.00 0.00 0.00 2.87
2482 6770 4.994852 TCAACATCGGGTCTAGTTTTGAAG 59.005 41.667 0.00 0.00 0.00 3.02
2483 6771 4.963373 TCAACATCGGGTCTAGTTTTGAA 58.037 39.130 0.00 0.00 0.00 2.69
2484 6772 4.610605 TCAACATCGGGTCTAGTTTTGA 57.389 40.909 0.00 0.00 0.00 2.69
2485 6773 6.538742 ACATATCAACATCGGGTCTAGTTTTG 59.461 38.462 0.00 0.00 0.00 2.44
2486 6774 6.650120 ACATATCAACATCGGGTCTAGTTTT 58.350 36.000 0.00 0.00 0.00 2.43
2487 6775 6.235231 ACATATCAACATCGGGTCTAGTTT 57.765 37.500 0.00 0.00 0.00 2.66
2488 6776 5.871396 ACATATCAACATCGGGTCTAGTT 57.129 39.130 0.00 0.00 0.00 2.24
2489 6777 5.871396 AACATATCAACATCGGGTCTAGT 57.129 39.130 0.00 0.00 0.00 2.57
2490 6778 5.402568 CGAAACATATCAACATCGGGTCTAG 59.597 44.000 0.00 0.00 0.00 2.43
2491 6779 5.068067 TCGAAACATATCAACATCGGGTCTA 59.932 40.000 0.00 0.00 0.00 2.59
2492 6780 4.119862 CGAAACATATCAACATCGGGTCT 58.880 43.478 0.00 0.00 0.00 3.85
2493 6781 4.025979 GTCGAAACATATCAACATCGGGTC 60.026 45.833 0.00 0.00 0.00 4.46
2494 6782 3.869246 GTCGAAACATATCAACATCGGGT 59.131 43.478 0.00 0.00 0.00 5.28
2495 6783 3.060540 CGTCGAAACATATCAACATCGGG 60.061 47.826 0.00 0.00 0.00 5.14
2496 6784 3.794564 TCGTCGAAACATATCAACATCGG 59.205 43.478 0.00 0.00 0.00 4.18
2497 6785 5.561199 ATCGTCGAAACATATCAACATCG 57.439 39.130 0.00 0.00 0.00 3.84
2498 6786 8.601243 AAAAATCGTCGAAACATATCAACATC 57.399 30.769 0.00 0.00 0.00 3.06
2530 6818 1.238439 AACATCGTGGCAACTTCTGG 58.762 50.000 0.00 0.00 37.61 3.86



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

AutoCloner maintained by Alex Coulton.