Multiple sequence alignment - TraesCS3B01G113600

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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 TraesCS3B01G113600 chr3B 100.000 3409 0 0 1 3409 79559301 79562709 0.000000e+00 6296.0
1 TraesCS3B01G113600 chr3B 90.487 1766 123 22 816 2548 79781573 79783326 0.000000e+00 2289.0
2 TraesCS3B01G113600 chr3B 84.012 344 26 16 2586 2903 79784629 79784969 1.540000e-78 303.0
3 TraesCS3B01G113600 chr3B 89.726 146 6 2 561 698 79781547 79781691 9.720000e-41 178.0
4 TraesCS3B01G113600 chr3D 94.429 1777 64 15 812 2562 50075549 50077316 0.000000e+00 2700.0
5 TraesCS3B01G113600 chr3D 91.225 1755 122 21 816 2551 50381178 50382919 0.000000e+00 2359.0
6 TraesCS3B01G113600 chr3D 92.770 816 50 5 1 810 50074259 50075071 0.000000e+00 1171.0
7 TraesCS3B01G113600 chr3D 83.552 839 84 31 2583 3409 50078447 50079243 0.000000e+00 736.0
8 TraesCS3B01G113600 chr3D 82.665 698 68 26 2582 3234 50383010 50383699 1.370000e-158 569.0
9 TraesCS3B01G113600 chr3D 94.286 140 8 0 559 698 50381150 50381289 7.410000e-52 215.0
10 TraesCS3B01G113600 chr3D 91.026 156 13 1 386 541 50381012 50381166 3.450000e-50 209.0
11 TraesCS3B01G113600 chr3D 91.228 114 8 2 586 698 50075552 50075664 1.640000e-33 154.0
12 TraesCS3B01G113600 chr3A 93.338 1441 68 6 977 2411 63434159 63435577 0.000000e+00 2104.0
13 TraesCS3B01G113600 chr3A 92.230 1390 101 2 1027 2409 63389157 63390546 0.000000e+00 1962.0
14 TraesCS3B01G113600 chr3A 82.609 276 31 6 424 698 63426457 63426716 9.520000e-56 228.0
15 TraesCS3B01G113600 chr3A 78.299 341 46 22 2922 3251 621007860 621007537 9.650000e-46 195.0
16 TraesCS3B01G113600 chr3A 84.167 120 15 3 697 814 712382494 712382377 2.780000e-21 113.0
17 TraesCS3B01G113600 chr3A 77.419 186 30 10 3233 3409 715651255 715651073 2.160000e-17 100.0
18 TraesCS3B01G113600 chr3A 90.789 76 4 2 2407 2480 63390579 63390653 7.790000e-17 99.0
19 TraesCS3B01G113600 chr3A 89.333 75 7 1 1395 1469 63387379 63387452 3.620000e-15 93.5
20 TraesCS3B01G113600 chr3A 94.444 36 2 0 503 538 63391269 63391304 4.750000e-04 56.5
21 TraesCS3B01G113600 chr1B 80.215 839 152 13 1579 2410 101527948 101527117 4.830000e-173 617.0
22 TraesCS3B01G113600 chr1B 79.429 841 155 14 1579 2410 101271277 101270446 2.280000e-161 579.0
23 TraesCS3B01G113600 chr1B 81.728 301 40 9 1158 1449 101271621 101271327 1.580000e-58 237.0
24 TraesCS3B01G113600 chr1B 81.728 301 37 10 1158 1449 101528289 101527998 5.690000e-58 235.0
25 TraesCS3B01G113600 chr1B 84.466 103 13 3 3309 3409 592552528 592552427 7.790000e-17 99.0
26 TraesCS3B01G113600 chr1D 79.857 839 155 12 1579 2410 63429212 63428381 4.870000e-168 601.0
27 TraesCS3B01G113600 chr1A 77.354 839 176 13 1579 2410 62009702 62010533 5.110000e-133 484.0
28 TraesCS3B01G113600 chr5D 90.164 122 12 0 694 815 497941357 497941236 3.520000e-35 159.0
29 TraesCS3B01G113600 chr2D 86.111 144 17 3 675 815 122053908 122053765 5.890000e-33 152.0
30 TraesCS3B01G113600 chr5B 83.432 169 16 5 2406 2563 77588109 77588276 2.740000e-31 147.0
31 TraesCS3B01G113600 chr5B 83.784 74 9 3 3320 3391 100717882 100717954 2.200000e-07 67.6
32 TraesCS3B01G113600 chr2B 88.983 118 13 0 697 814 384308521 384308404 2.740000e-31 147.0
33 TraesCS3B01G113600 chr7A 87.705 122 15 0 694 815 731239417 731239296 3.550000e-30 143.0
34 TraesCS3B01G113600 chr7A 84.810 79 8 4 3303 3378 609129639 609129716 3.650000e-10 76.8
35 TraesCS3B01G113600 chr7D 84.615 143 17 4 678 815 171012497 171012355 1.650000e-28 137.0
36 TraesCS3B01G113600 chr4B 87.288 118 15 0 695 812 606841906 606841789 5.930000e-28 135.0
37 TraesCS3B01G113600 chr6D 83.333 120 20 0 695 814 336525706 336525587 1.000000e-20 111.0
38 TraesCS3B01G113600 chr7B 81.373 102 13 6 3303 3399 74330093 74330193 1.010000e-10 78.7
39 TraesCS3B01G113600 chr5A 76.761 142 20 10 3195 3328 528294712 528294848 2.200000e-07 67.6


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 TraesCS3B01G113600 chr3B 79559301 79562709 3408 False 6296.000000 6296 100.00000 1 3409 1 chr3B.!!$F1 3408
1 TraesCS3B01G113600 chr3B 79781547 79784969 3422 False 923.333333 2289 88.07500 561 2903 3 chr3B.!!$F2 2342
2 TraesCS3B01G113600 chr3D 50074259 50079243 4984 False 1190.250000 2700 90.49475 1 3409 4 chr3D.!!$F1 3408
3 TraesCS3B01G113600 chr3D 50381012 50383699 2687 False 838.000000 2359 89.80050 386 3234 4 chr3D.!!$F2 2848
4 TraesCS3B01G113600 chr3A 63434159 63435577 1418 False 2104.000000 2104 93.33800 977 2411 1 chr3A.!!$F2 1434
5 TraesCS3B01G113600 chr3A 63387379 63391304 3925 False 552.750000 1962 91.69900 503 2480 4 chr3A.!!$F3 1977
6 TraesCS3B01G113600 chr1B 101527117 101528289 1172 True 426.000000 617 80.97150 1158 2410 2 chr1B.!!$R3 1252
7 TraesCS3B01G113600 chr1B 101270446 101271621 1175 True 408.000000 579 80.57850 1158 2410 2 chr1B.!!$R2 1252
8 TraesCS3B01G113600 chr1D 63428381 63429212 831 True 601.000000 601 79.85700 1579 2410 1 chr1D.!!$R1 831
9 TraesCS3B01G113600 chr1A 62009702 62010533 831 False 484.000000 484 77.35400 1579 2410 1 chr1A.!!$F1 831

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
214 215 0.033504 GAATATCTTCCGCTCCCGCA 59.966 55.0 0.0 0.0 35.30 5.69 F
486 493 0.179189 GCTTCGAATTTGTGCTCCCG 60.179 55.0 0.0 0.0 0.00 5.14 F
814 2646 0.591741 CTCGTTACCGTCGCTGATCC 60.592 60.0 0.0 0.0 35.01 3.36 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1565 3541 0.535797 GGTACCCCGTCTTCTCCAAG 59.464 60.000 0.00 0.0 0.00 3.61 R
1874 3850 1.477685 GGTTGTTCCCGGAGACCAGA 61.478 60.000 0.73 0.0 0.00 3.86 R
2411 4390 1.625315 TGTCCAGGTGAATGAGACCAG 59.375 52.381 0.00 0.0 35.76 4.00 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
63 64 3.364964 CCAAGCATAGGTTCGTTGTTGTC 60.365 47.826 0.00 0.00 0.00 3.18
68 69 0.818040 AGGTTCGTTGTTGTCTGGCC 60.818 55.000 0.00 0.00 0.00 5.36
71 72 0.107410 TTCGTTGTTGTCTGGCCAGT 60.107 50.000 31.58 0.00 0.00 4.00
84 85 4.816925 GTCTGGCCAGTATAAAATGTCCTC 59.183 45.833 31.58 0.00 0.00 3.71
132 133 7.861629 TGAATGACTAGGGATTGTTGTATTCT 58.138 34.615 0.00 0.00 0.00 2.40
180 181 3.648545 ACTTCCTTTGCTCTCCTACAAGT 59.351 43.478 0.00 0.00 0.00 3.16
214 215 0.033504 GAATATCTTCCGCTCCCGCA 59.966 55.000 0.00 0.00 35.30 5.69
235 236 1.543802 TGACAAATTGGACATTCCGCC 59.456 47.619 0.00 0.00 40.17 6.13
288 289 2.300437 CTCTCCCCGGAATAACTCCATC 59.700 54.545 0.73 0.00 45.74 3.51
297 298 5.302059 CCGGAATAACTCCATCTAGTTCTCA 59.698 44.000 0.00 0.00 45.74 3.27
301 302 7.364762 GGAATAACTCCATCTAGTTCTCACCAA 60.365 40.741 0.00 0.00 44.67 3.67
319 320 4.342951 CACCAAATATACTCCCTCCGTACA 59.657 45.833 0.00 0.00 0.00 2.90
333 334 8.025270 TCCCTCCGTACAAAAATATAAGATCA 57.975 34.615 0.00 0.00 0.00 2.92
384 385 8.884124 AAATGATATCATATTTTGGGACGGAT 57.116 30.769 18.47 0.00 35.10 4.18
385 386 8.884124 AATGATATCATATTTTGGGACGGATT 57.116 30.769 18.47 0.00 35.10 3.01
386 387 8.884124 ATGATATCATATTTTGGGACGGATTT 57.116 30.769 16.75 0.00 34.26 2.17
387 388 8.704849 TGATATCATATTTTGGGACGGATTTT 57.295 30.769 0.00 0.00 0.00 1.82
388 389 9.142014 TGATATCATATTTTGGGACGGATTTTT 57.858 29.630 0.00 0.00 0.00 1.94
469 476 0.706433 AAACCATGTCCATCCTGGCT 59.294 50.000 0.00 0.00 37.47 4.75
470 477 0.706433 AACCATGTCCATCCTGGCTT 59.294 50.000 0.00 0.00 37.47 4.35
486 493 0.179189 GCTTCGAATTTGTGCTCCCG 60.179 55.000 0.00 0.00 0.00 5.14
509 516 5.065988 CGTTCCAAGTAATAACCAGATTGGG 59.934 44.000 0.00 0.00 43.37 4.12
526 533 3.281727 TGGGCAGAGAATATGGTTGAC 57.718 47.619 0.00 0.00 0.00 3.18
630 1087 6.255950 GGGATTTTTAGAATACGCTCAACAC 58.744 40.000 0.00 0.00 0.00 3.32
735 2091 2.674380 CCACCACTGAAGCCTGGC 60.674 66.667 11.65 11.65 0.00 4.85
767 2123 4.636435 CCCACCTCGCCAAACCGT 62.636 66.667 0.00 0.00 0.00 4.83
768 2124 3.353836 CCACCTCGCCAAACCGTG 61.354 66.667 0.00 0.00 0.00 4.94
774 2130 2.357517 CGCCAAACCGTGAGAGCT 60.358 61.111 0.00 0.00 0.00 4.09
780 2136 2.172483 AAACCGTGAGAGCTGCCGAT 62.172 55.000 0.00 0.00 0.00 4.18
800 2156 2.202756 GAATCCCTCGCGCTCGTT 60.203 61.111 5.56 0.00 36.96 3.85
810 2166 3.238241 CGCTCGTTACCGTCGCTG 61.238 66.667 0.00 0.00 35.01 5.18
814 2646 0.591741 CTCGTTACCGTCGCTGATCC 60.592 60.000 0.00 0.00 35.01 3.36
822 2654 2.098770 ACCGTCGCTGATCCTAGTTAAC 59.901 50.000 0.00 0.00 0.00 2.01
823 2655 2.543238 CCGTCGCTGATCCTAGTTAACC 60.543 54.545 0.88 0.00 0.00 2.85
851 2683 3.129813 CCCAAGGGGTTTTTAGAATACGC 59.870 47.826 0.00 0.00 38.25 4.42
1109 3016 2.142292 ATCCCGTTGCTTCTTGCCCT 62.142 55.000 0.00 0.00 42.00 5.19
1486 3429 1.136690 TTGCTCAATCGTGTCGTGTC 58.863 50.000 0.00 0.00 0.00 3.67
1504 3447 4.379813 CGTGTCCCCAATTCTGAATCAAAG 60.380 45.833 2.92 0.00 0.00 2.77
1874 3850 2.990479 GTCCGGGGAATGCAGACT 59.010 61.111 0.00 0.00 0.00 3.24
2058 4034 2.045131 GTGGCGGACTACCTCGTCT 61.045 63.158 0.00 0.00 34.38 4.18
2386 4365 0.038801 GCGCTCGAGATCATCATCCA 60.039 55.000 18.75 0.00 0.00 3.41
2411 4390 4.192317 AGATTCAACGGGCTGATTAGTTC 58.808 43.478 0.00 0.00 0.00 3.01
2447 4461 1.818674 GGACAGCCGTTGGATCAAAAT 59.181 47.619 0.00 0.00 0.00 1.82
2482 4498 1.735571 GTGTTGTTGTGTCGTTGTCCT 59.264 47.619 0.00 0.00 0.00 3.85
2485 4501 1.647346 TGTTGTGTCGTTGTCCTGTC 58.353 50.000 0.00 0.00 0.00 3.51
2501 4517 1.608590 CTGTCGCTTGTTTGTCCCATT 59.391 47.619 0.00 0.00 0.00 3.16
2530 4546 0.457443 GCAGCCCTCTTGTTAATGGC 59.543 55.000 0.00 0.00 42.48 4.40
2536 4553 3.767131 GCCCTCTTGTTAATGGCCTTTTA 59.233 43.478 9.46 1.87 36.07 1.52
2562 4587 9.467796 ACTTTTTCTATTATTAGGCTGAGCTTT 57.532 29.630 3.72 0.00 0.00 3.51
2571 4596 8.894768 TTATTAGGCTGAGCTTTATCTTTCTC 57.105 34.615 3.72 0.00 0.00 2.87
2572 4597 4.833478 AGGCTGAGCTTTATCTTTCTCA 57.167 40.909 3.72 0.00 34.74 3.27
2579 4666 3.929610 AGCTTTATCTTTCTCACTGACGC 59.070 43.478 0.00 0.00 0.00 5.19
2597 6974 3.071479 ACGCCTCAATAAAAAGCTTCGA 58.929 40.909 0.00 0.00 0.00 3.71
2701 7102 6.518493 ACATTTGTACACTCTTTCTTACGGA 58.482 36.000 0.00 0.00 0.00 4.69
2868 7278 0.793861 TGCTTCGTTCACGCCATTAC 59.206 50.000 0.00 0.00 39.60 1.89
2906 7316 4.682320 GCGTTGTGATCCTATAAAGGTGGA 60.682 45.833 0.00 0.00 44.09 4.02
2907 7317 5.050490 CGTTGTGATCCTATAAAGGTGGAG 58.950 45.833 0.00 0.00 44.09 3.86
2914 7347 2.368875 CCTATAAAGGTGGAGGTGCGAT 59.631 50.000 0.00 0.00 38.19 4.58
2917 7350 4.706842 ATAAAGGTGGAGGTGCGATAAT 57.293 40.909 0.00 0.00 0.00 1.28
2970 7403 2.642154 TTTTAAGAGGGGTCGCAACA 57.358 45.000 0.00 0.00 0.00 3.33
3079 7513 1.941377 TTAAGGGGAGGTCGCAACTA 58.059 50.000 0.00 0.00 0.00 2.24
3158 7592 1.534729 ATTTCAAGAGGGGTCGCAAC 58.465 50.000 0.00 0.00 0.00 4.17
3159 7593 0.472471 TTTCAAGAGGGGTCGCAACT 59.528 50.000 0.00 0.00 0.00 3.16
3160 7594 1.344065 TTCAAGAGGGGTCGCAACTA 58.656 50.000 0.00 0.00 0.00 2.24
3161 7595 0.606604 TCAAGAGGGGTCGCAACTAC 59.393 55.000 0.00 0.00 0.00 2.73
3162 7596 0.320374 CAAGAGGGGTCGCAACTACA 59.680 55.000 0.00 0.00 0.00 2.74
3163 7597 1.066143 CAAGAGGGGTCGCAACTACAT 60.066 52.381 0.00 0.00 0.00 2.29
3164 7598 0.537188 AGAGGGGTCGCAACTACATG 59.463 55.000 0.00 0.00 0.00 3.21
3165 7599 0.249398 GAGGGGTCGCAACTACATGT 59.751 55.000 2.69 2.69 0.00 3.21
3166 7600 0.690762 AGGGGTCGCAACTACATGTT 59.309 50.000 2.30 0.00 39.92 2.71
3167 7601 1.073284 AGGGGTCGCAACTACATGTTT 59.927 47.619 2.30 0.00 36.63 2.83
3168 7602 1.883926 GGGGTCGCAACTACATGTTTT 59.116 47.619 2.30 0.00 36.63 2.43
3169 7603 2.295070 GGGGTCGCAACTACATGTTTTT 59.705 45.455 2.30 0.00 36.63 1.94
3170 7604 3.561503 GGGTCGCAACTACATGTTTTTC 58.438 45.455 2.30 0.00 36.63 2.29
3171 7605 3.003897 GGGTCGCAACTACATGTTTTTCA 59.996 43.478 2.30 0.00 36.63 2.69
3172 7606 4.498345 GGGTCGCAACTACATGTTTTTCAA 60.498 41.667 2.30 0.00 36.63 2.69
3173 7607 4.675114 GGTCGCAACTACATGTTTTTCAAG 59.325 41.667 2.30 0.00 36.63 3.02
3174 7608 5.504994 GGTCGCAACTACATGTTTTTCAAGA 60.505 40.000 2.30 0.00 36.63 3.02
3175 7609 5.621228 GTCGCAACTACATGTTTTTCAAGAG 59.379 40.000 2.30 0.00 36.63 2.85
3176 7610 4.911610 CGCAACTACATGTTTTTCAAGAGG 59.088 41.667 2.30 0.00 36.63 3.69
3177 7611 5.222631 GCAACTACATGTTTTTCAAGAGGG 58.777 41.667 2.30 0.00 36.63 4.30
3178 7612 5.772521 CAACTACATGTTTTTCAAGAGGGG 58.227 41.667 2.30 0.00 36.63 4.79
3179 7613 5.061721 ACTACATGTTTTTCAAGAGGGGT 57.938 39.130 2.30 0.00 0.00 4.95
3180 7614 5.070685 ACTACATGTTTTTCAAGAGGGGTC 58.929 41.667 2.30 0.00 0.00 4.46
3181 7615 3.909732 ACATGTTTTTCAAGAGGGGTCA 58.090 40.909 0.00 0.00 0.00 4.02
3182 7616 3.636764 ACATGTTTTTCAAGAGGGGTCAC 59.363 43.478 0.00 0.00 0.00 3.67
3183 7617 3.374042 TGTTTTTCAAGAGGGGTCACA 57.626 42.857 0.00 0.00 0.00 3.58
3184 7618 3.287222 TGTTTTTCAAGAGGGGTCACAG 58.713 45.455 0.00 0.00 0.00 3.66
3211 7645 8.024145 TGTAAGTTTTAAAATGGGGTCACAAT 57.976 30.769 3.52 0.00 0.00 2.71
3222 7656 3.118112 TGGGGTCACAATTGCATGTTTTT 60.118 39.130 5.05 0.00 0.00 1.94
3258 7692 2.315176 CATGTGTTTTCAAGGGGGTCA 58.685 47.619 0.00 0.00 0.00 4.02
3294 7728 2.971307 TCAAGATGTCGCAACTGCATA 58.029 42.857 2.12 0.00 42.21 3.14
3303 7737 5.868257 TGTCGCAACTGCATATTTTTCTAG 58.132 37.500 2.12 0.00 42.21 2.43
3340 7774 9.405587 GCAAGTTTTTAAATAGCATCACAACTA 57.594 29.630 0.00 0.00 0.00 2.24
3370 7804 0.381801 AGGTTTGTCGCAACTGCAAG 59.618 50.000 2.12 0.00 42.21 4.01
3378 7812 3.053828 CAACTGCAAGCCCCAAGG 58.946 61.111 0.00 0.00 37.60 3.61
3395 7829 3.347216 CAAGGATGGGAATCGAAACTGT 58.653 45.455 0.00 0.00 0.00 3.55
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
63 64 4.780815 TGAGGACATTTTATACTGGCCAG 58.219 43.478 31.60 31.60 43.54 4.85
68 69 7.549134 TGCTGTACTTGAGGACATTTTATACTG 59.451 37.037 0.00 0.00 0.00 2.74
71 72 7.847096 TCTGCTGTACTTGAGGACATTTTATA 58.153 34.615 0.00 0.00 0.00 0.98
84 85 0.176680 ATCGGGCTCTGCTGTACTTG 59.823 55.000 0.00 0.00 0.00 3.16
132 133 4.039852 GGAAGGCAATGGGTTTAACTGAAA 59.960 41.667 0.00 0.00 0.00 2.69
180 181 7.595130 CGGAAGATATTCGACATATCTTGTTCA 59.405 37.037 28.27 0.00 45.90 3.18
214 215 2.166254 GGCGGAATGTCCAATTTGTCAT 59.834 45.455 0.00 0.00 35.91 3.06
258 259 1.147153 CCGGGGAGAGGATTGCTTC 59.853 63.158 0.00 0.00 0.00 3.86
288 289 7.256012 GGAGGGAGTATATTTGGTGAGAACTAG 60.256 44.444 0.00 0.00 0.00 2.57
297 298 4.549668 TGTACGGAGGGAGTATATTTGGT 58.450 43.478 0.00 0.00 0.00 3.67
357 358 8.575589 TCCGTCCCAAAATATGATATCATTTTG 58.424 33.333 24.87 24.87 45.39 2.44
386 387 6.547880 TCCAAGTAACTGCTAACATGGAAAAA 59.452 34.615 0.00 0.00 39.73 1.94
387 388 6.065374 TCCAAGTAACTGCTAACATGGAAAA 58.935 36.000 0.00 0.00 39.73 2.29
388 389 5.626142 TCCAAGTAACTGCTAACATGGAAA 58.374 37.500 0.00 0.00 39.73 3.13
390 391 4.832248 CTCCAAGTAACTGCTAACATGGA 58.168 43.478 0.00 0.00 40.23 3.41
469 476 1.533731 GAACGGGAGCACAAATTCGAA 59.466 47.619 0.00 0.00 0.00 3.71
470 477 1.153353 GAACGGGAGCACAAATTCGA 58.847 50.000 0.00 0.00 0.00 3.71
486 493 5.163550 GCCCAATCTGGTTATTACTTGGAAC 60.164 44.000 3.01 0.00 36.14 3.62
509 516 6.541641 AGATCAAAGTCAACCATATTCTCTGC 59.458 38.462 0.00 0.00 0.00 4.26
526 533 0.947244 GCGGGTGGCATAGATCAAAG 59.053 55.000 0.00 0.00 42.87 2.77
587 1044 3.093814 CCCCTTGGGTACACATTTAACC 58.906 50.000 0.00 0.00 38.25 2.85
630 1087 5.422331 TGAGAGATAACTTCAACCTACTGGG 59.578 44.000 0.00 0.00 41.89 4.45
691 2047 4.927782 GCAGTGGCCGGTGTGTGA 62.928 66.667 1.90 0.00 0.00 3.58
722 2078 1.376942 CTCCTGCCAGGCTTCAGTG 60.377 63.158 14.15 0.00 34.61 3.66
754 2110 1.738099 CTCTCACGGTTTGGCGAGG 60.738 63.158 0.00 0.00 0.00 4.63
767 2123 1.615883 GATTCCTATCGGCAGCTCTCA 59.384 52.381 0.00 0.00 0.00 3.27
768 2124 1.067213 GGATTCCTATCGGCAGCTCTC 60.067 57.143 0.00 0.00 0.00 3.20
774 2130 1.816863 GCGAGGGATTCCTATCGGCA 61.817 60.000 23.17 0.00 45.05 5.69
780 2136 2.552819 CGAGCGCGAGGGATTCCTA 61.553 63.158 12.10 0.00 45.05 2.94
800 2156 2.048444 AACTAGGATCAGCGACGGTA 57.952 50.000 0.00 0.00 0.00 4.02
810 2166 3.701040 TGGGTACACGGTTAACTAGGATC 59.299 47.826 5.42 0.00 0.00 3.36
814 2646 3.368739 CCCTTGGGTACACGGTTAACTAG 60.369 52.174 5.42 2.96 34.34 2.57
838 2670 6.261381 ACTGGTTGTTGAGCGTATTCTAAAAA 59.739 34.615 0.00 0.00 0.00 1.94
843 2675 3.402628 ACTGGTTGTTGAGCGTATTCT 57.597 42.857 0.00 0.00 0.00 2.40
844 2676 3.617263 CCTACTGGTTGTTGAGCGTATTC 59.383 47.826 0.00 0.00 0.00 1.75
845 2677 3.007614 ACCTACTGGTTGTTGAGCGTATT 59.992 43.478 0.00 0.00 46.05 1.89
847 2679 1.965643 ACCTACTGGTTGTTGAGCGTA 59.034 47.619 0.00 0.00 46.05 4.42
848 2680 0.756903 ACCTACTGGTTGTTGAGCGT 59.243 50.000 0.00 0.00 46.05 5.07
849 2681 3.606886 ACCTACTGGTTGTTGAGCG 57.393 52.632 0.00 0.00 46.05 5.03
881 2714 6.409704 CACTGGATGTGGAGATCTTCTTTTA 58.590 40.000 1.86 0.00 42.68 1.52
883 2716 4.841422 CACTGGATGTGGAGATCTTCTTT 58.159 43.478 1.86 0.00 42.68 2.52
911 2745 4.641645 TGCTTGTGTGGAGGCCCG 62.642 66.667 0.00 0.00 34.29 6.13
1109 3016 1.052617 TGCCACTGCCAGTAGTAACA 58.947 50.000 0.00 0.00 36.33 2.41
1486 3429 3.129287 CCGACTTTGATTCAGAATTGGGG 59.871 47.826 0.00 0.00 0.00 4.96
1504 3447 4.342352 AAATCGAGAAATTTCAGCCGAC 57.658 40.909 23.00 8.19 32.13 4.79
1565 3541 0.535797 GGTACCCCGTCTTCTCCAAG 59.464 60.000 0.00 0.00 0.00 3.61
1874 3850 1.477685 GGTTGTTCCCGGAGACCAGA 61.478 60.000 0.73 0.00 0.00 3.86
2020 3996 3.823330 CGCCGGCCGAGTAGTTCT 61.823 66.667 30.73 0.00 40.02 3.01
2058 4034 3.323286 TTCGCCCAACCCGATGGA 61.323 61.111 3.75 0.00 43.54 3.41
2386 4365 3.356529 AATCAGCCCGTTGAATCTCTT 57.643 42.857 0.00 0.00 0.00 2.85
2411 4390 1.625315 TGTCCAGGTGAATGAGACCAG 59.375 52.381 0.00 0.00 35.76 4.00
2447 4461 3.402110 ACAACACGAATCTCAGCAATGA 58.598 40.909 0.00 0.00 0.00 2.57
2482 4498 4.966123 TGGGACAAACAAGCGACA 57.034 50.000 0.00 0.00 31.92 4.35
2501 4517 3.825160 GAGGGCTGCACGGTCAACA 62.825 63.158 0.50 0.00 0.00 3.33
2536 4553 9.467796 AAAGCTCAGCCTAATAATAGAAAAAGT 57.532 29.630 0.00 0.00 0.00 2.66
2548 4573 6.765512 GTGAGAAAGATAAAGCTCAGCCTAAT 59.234 38.462 0.00 0.00 37.99 1.73
2549 4574 6.070538 AGTGAGAAAGATAAAGCTCAGCCTAA 60.071 38.462 0.00 0.00 37.99 2.69
2562 4587 3.089284 TGAGGCGTCAGTGAGAAAGATA 58.911 45.455 4.68 0.00 0.00 1.98
2565 4590 2.154854 TTGAGGCGTCAGTGAGAAAG 57.845 50.000 9.34 0.00 32.98 2.62
2566 4591 2.839486 ATTGAGGCGTCAGTGAGAAA 57.161 45.000 9.34 0.00 32.98 2.52
2569 4594 4.670221 GCTTTTTATTGAGGCGTCAGTGAG 60.670 45.833 13.94 7.92 32.98 3.51
2571 4596 3.189287 AGCTTTTTATTGAGGCGTCAGTG 59.811 43.478 13.94 0.00 32.98 3.66
2572 4597 3.412386 AGCTTTTTATTGAGGCGTCAGT 58.588 40.909 9.34 9.40 32.98 3.41
2579 4666 6.129088 GCAAACTTCGAAGCTTTTTATTGAGG 60.129 38.462 24.86 10.41 0.00 3.86
2718 7119 9.871238 ATAATAATACCGATTGTATGTGGACTC 57.129 33.333 0.00 0.00 40.11 3.36
2813 7223 6.350949 CCACCTTGTCCGATGGAAATAAAAAT 60.351 38.462 0.00 0.00 33.80 1.82
2823 7233 0.251165 AAACCCACCTTGTCCGATGG 60.251 55.000 0.00 0.00 0.00 3.51
2827 7237 0.666374 GTTGAAACCCACCTTGTCCG 59.334 55.000 0.00 0.00 0.00 4.79
2868 7278 6.089920 TCACAACGCAATTTAATCTACGAG 57.910 37.500 0.00 0.00 0.00 4.18
2906 7316 9.581099 CCTTAAAAACATAAAATTATCGCACCT 57.419 29.630 0.00 0.00 0.00 4.00
2907 7317 9.361315 ACCTTAAAAACATAAAATTATCGCACC 57.639 29.630 0.00 0.00 0.00 5.01
2917 7350 9.535878 GTTGTGATCCACCTTAAAAACATAAAA 57.464 29.630 0.00 0.00 32.73 1.52
2945 7378 4.850680 TGCGACCCCTCTTAAAAATATGT 58.149 39.130 0.00 0.00 0.00 2.29
2970 7403 2.887152 GTGACCCTCTTGAAAACATGCT 59.113 45.455 0.00 0.00 0.00 3.79
3079 7513 3.338249 CGACCCATCTTGAAAGACATGT 58.662 45.455 0.00 0.00 37.98 3.21
3158 7592 5.048713 GTGACCCCTCTTGAAAAACATGTAG 60.049 44.000 0.00 0.00 0.00 2.74
3159 7593 4.825085 GTGACCCCTCTTGAAAAACATGTA 59.175 41.667 0.00 0.00 0.00 2.29
3160 7594 3.636764 GTGACCCCTCTTGAAAAACATGT 59.363 43.478 0.00 0.00 0.00 3.21
3161 7595 3.636300 TGTGACCCCTCTTGAAAAACATG 59.364 43.478 0.00 0.00 0.00 3.21
3162 7596 3.891366 CTGTGACCCCTCTTGAAAAACAT 59.109 43.478 0.00 0.00 0.00 2.71
3163 7597 3.287222 CTGTGACCCCTCTTGAAAAACA 58.713 45.455 0.00 0.00 0.00 2.83
3164 7598 2.034685 GCTGTGACCCCTCTTGAAAAAC 59.965 50.000 0.00 0.00 0.00 2.43
3165 7599 2.091885 AGCTGTGACCCCTCTTGAAAAA 60.092 45.455 0.00 0.00 0.00 1.94
3166 7600 1.494721 AGCTGTGACCCCTCTTGAAAA 59.505 47.619 0.00 0.00 0.00 2.29
3167 7601 1.140312 AGCTGTGACCCCTCTTGAAA 58.860 50.000 0.00 0.00 0.00 2.69
3168 7602 0.397941 CAGCTGTGACCCCTCTTGAA 59.602 55.000 5.25 0.00 0.00 2.69
3169 7603 0.764369 ACAGCTGTGACCCCTCTTGA 60.764 55.000 20.97 0.00 0.00 3.02
3170 7604 0.976641 TACAGCTGTGACCCCTCTTG 59.023 55.000 29.57 0.00 0.00 3.02
3171 7605 1.625818 CTTACAGCTGTGACCCCTCTT 59.374 52.381 29.57 0.00 0.00 2.85
3172 7606 1.270907 CTTACAGCTGTGACCCCTCT 58.729 55.000 29.57 0.80 0.00 3.69
3173 7607 0.977395 ACTTACAGCTGTGACCCCTC 59.023 55.000 29.57 0.00 0.00 4.30
3174 7608 1.435256 AACTTACAGCTGTGACCCCT 58.565 50.000 29.57 5.93 0.00 4.79
3175 7609 2.271944 AAACTTACAGCTGTGACCCC 57.728 50.000 29.57 0.00 0.00 4.95
3176 7610 5.761165 TTTAAAACTTACAGCTGTGACCC 57.239 39.130 29.57 0.00 0.00 4.46
3177 7611 6.640907 CCATTTTAAAACTTACAGCTGTGACC 59.359 38.462 29.57 0.00 0.00 4.02
3178 7612 6.640907 CCCATTTTAAAACTTACAGCTGTGAC 59.359 38.462 29.57 0.00 0.00 3.67
3179 7613 6.239176 CCCCATTTTAAAACTTACAGCTGTGA 60.239 38.462 29.57 20.53 0.00 3.58
3180 7614 5.925969 CCCCATTTTAAAACTTACAGCTGTG 59.074 40.000 29.57 15.97 0.00 3.66
3181 7615 5.600898 ACCCCATTTTAAAACTTACAGCTGT 59.399 36.000 25.12 25.12 0.00 4.40
3182 7616 6.096673 ACCCCATTTTAAAACTTACAGCTG 57.903 37.500 13.48 13.48 0.00 4.24
3183 7617 5.836358 TGACCCCATTTTAAAACTTACAGCT 59.164 36.000 1.97 0.00 0.00 4.24
3184 7618 5.924254 GTGACCCCATTTTAAAACTTACAGC 59.076 40.000 1.97 0.00 0.00 4.40
3211 7645 3.181486 TGCGACACCTTAAAAACATGCAA 60.181 39.130 0.00 0.00 0.00 4.08
3222 7656 1.155889 CATGCAGTTGCGACACCTTA 58.844 50.000 6.90 0.00 45.83 2.69
3258 7692 5.184479 ACATCTTGAATAAACATGCAGCTGT 59.816 36.000 16.64 0.00 0.00 4.40
3340 7774 3.880490 TGCGACAAACCTAGAAAACATGT 59.120 39.130 0.00 0.00 0.00 3.21
3344 7778 4.279659 CAGTTGCGACAAACCTAGAAAAC 58.720 43.478 6.90 0.00 0.00 2.43
3378 7812 4.703897 TCCATACAGTTTCGATTCCCATC 58.296 43.478 0.00 0.00 0.00 3.51


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

AutoCloner maintained by Alex Coulton.