Multiple sequence alignment - TraesCS2A01G386300

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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 TraesCS2A01G386300 chr2A 100.000 3329 0 0 1 3329 632294261 632290933 0.000000e+00 6148.0
1 TraesCS2A01G386300 chr2A 89.722 467 35 7 2873 3329 35472063 35472526 4.790000e-163 584.0
2 TraesCS2A01G386300 chr2A 79.221 231 35 9 588 812 699414965 699414742 7.440000e-32 148.0
3 TraesCS2A01G386300 chr2D 93.529 2148 101 12 1191 3329 487056421 487054303 0.000000e+00 3162.0
4 TraesCS2A01G386300 chr2D 93.713 668 33 4 509 1170 487057183 487056519 0.000000e+00 992.0
5 TraesCS2A01G386300 chr2D 91.189 454 35 2 1 453 487057649 487057200 2.200000e-171 612.0
6 TraesCS2A01G386300 chr2D 87.838 444 45 5 2890 3329 585913148 585912710 2.290000e-141 512.0
7 TraesCS2A01G386300 chr2B 88.486 1711 106 36 1 1671 571765210 571763551 0.000000e+00 1984.0
8 TraesCS2A01G386300 chr2B 95.700 1000 37 4 1672 2668 571763429 571762433 0.000000e+00 1604.0
9 TraesCS2A01G386300 chr2B 92.105 456 31 3 2878 3329 24105334 24104880 3.620000e-179 638.0
10 TraesCS2A01G386300 chr2B 94.118 204 10 2 2663 2865 571753895 571753693 3.230000e-80 309.0
11 TraesCS2A01G386300 chr4D 91.216 444 35 2 2890 3329 54384427 54383984 4.750000e-168 601.0
12 TraesCS2A01G386300 chr3D 90.821 414 35 1 2919 3329 380453522 380453935 4.850000e-153 551.0
13 TraesCS2A01G386300 chr3D 78.400 375 42 14 1118 1465 281599840 281600202 1.210000e-49 207.0
14 TraesCS2A01G386300 chr4B 88.315 445 45 5 2889 3329 654587521 654587962 8.180000e-146 527.0
15 TraesCS2A01G386300 chr4B 87.810 443 46 5 2890 3329 299678572 299679009 2.290000e-141 512.0
16 TraesCS2A01G386300 chr5D 86.801 447 53 4 2888 3329 481150811 481151256 8.300000e-136 494.0
17 TraesCS2A01G386300 chr7D 80.617 227 39 5 1362 1585 34151378 34151154 1.590000e-38 171.0
18 TraesCS2A01G386300 chr6D 100.000 32 0 0 1317 1348 403795232 403795201 3.590000e-05 60.2
19 TraesCS2A01G386300 chr6A 100.000 32 0 0 1317 1348 550279832 550279801 3.590000e-05 60.2


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 TraesCS2A01G386300 chr2A 632290933 632294261 3328 True 6148.000000 6148 100.000000 1 3329 1 chr2A.!!$R1 3328
1 TraesCS2A01G386300 chr2D 487054303 487057649 3346 True 1588.666667 3162 92.810333 1 3329 3 chr2D.!!$R2 3328
2 TraesCS2A01G386300 chr2B 571762433 571765210 2777 True 1794.000000 1984 92.093000 1 2668 2 chr2B.!!$R3 2667

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
502 523 0.321653 TTGAAAAGGAGGAGAGCCGC 60.322 55.0 0.0 0.0 39.96 6.53 F
1758 2009 0.042131 AGGACGAAGGATGGGTGGTA 59.958 55.0 0.0 0.0 0.00 3.25 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1809 2060 1.118965 TGAACCAGAAGGCCGAGTCA 61.119 55.0 0.0 0.00 39.06 3.41 R
3031 3285 0.044092 TCTCCTGACATGGGCCCTAA 59.956 55.0 25.7 2.97 0.00 2.69 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
25 26 8.185003 TGTGTCGACTTTGAATGTGAATATAG 57.815 34.615 17.92 0.00 0.00 1.31
205 225 1.202806 ACACATGCACACCAGTAAGCT 60.203 47.619 0.00 0.00 0.00 3.74
246 266 9.029243 CACTCACACAATATCTACTGAAGATTC 57.971 37.037 0.00 0.00 42.62 2.52
275 295 2.158623 GGGGCCTCATGATCAACACATA 60.159 50.000 0.84 0.00 0.00 2.29
279 299 4.697352 GGCCTCATGATCAACACATATACC 59.303 45.833 0.00 0.00 0.00 2.73
300 320 3.116300 CTCACTATTGACGGGAACATCG 58.884 50.000 0.00 0.00 0.00 3.84
301 321 1.593006 CACTATTGACGGGAACATCGC 59.407 52.381 0.00 0.00 0.00 4.58
368 388 5.817816 CGAAGCATCAAACCTAGGAGTAATT 59.182 40.000 17.98 0.00 0.00 1.40
369 389 6.984474 CGAAGCATCAAACCTAGGAGTAATTA 59.016 38.462 17.98 0.00 0.00 1.40
373 393 7.939588 AGCATCAAACCTAGGAGTAATTAATCC 59.060 37.037 21.68 21.68 40.58 3.01
374 394 7.175119 GCATCAAACCTAGGAGTAATTAATCCC 59.825 40.741 24.62 10.03 41.15 3.85
375 395 8.440771 CATCAAACCTAGGAGTAATTAATCCCT 58.559 37.037 24.62 15.70 41.15 4.20
376 396 8.401955 TCAAACCTAGGAGTAATTAATCCCTT 57.598 34.615 24.62 12.46 41.15 3.95
408 428 5.588845 TGGATTACAATCACCCTCCAAAAT 58.411 37.500 4.45 0.00 37.15 1.82
423 443 6.018016 CCCTCCAAAATTTGCACTAGTTTTTG 60.018 38.462 17.26 17.26 37.14 2.44
462 483 9.208022 TGAAGTGATTAGAAATGTGACTTACAG 57.792 33.333 0.00 0.00 43.80 2.74
475 496 6.524734 TGTGACTTACAGATGTGTTGATCTT 58.475 36.000 0.00 0.00 38.19 2.40
476 497 6.992123 TGTGACTTACAGATGTGTTGATCTTT 59.008 34.615 0.00 0.00 38.19 2.52
477 498 7.498900 TGTGACTTACAGATGTGTTGATCTTTT 59.501 33.333 0.00 0.00 38.19 2.27
478 499 7.800380 GTGACTTACAGATGTGTTGATCTTTTG 59.200 37.037 0.00 0.00 38.19 2.44
479 500 7.498900 TGACTTACAGATGTGTTGATCTTTTGT 59.501 33.333 0.00 0.00 38.19 2.83
480 501 8.225603 ACTTACAGATGTGTTGATCTTTTGTT 57.774 30.769 0.00 0.00 38.19 2.83
481 502 8.686334 ACTTACAGATGTGTTGATCTTTTGTTT 58.314 29.630 0.00 0.00 38.19 2.83
482 503 8.854979 TTACAGATGTGTTGATCTTTTGTTTG 57.145 30.769 0.00 0.00 38.19 2.93
483 504 6.866480 ACAGATGTGTTGATCTTTTGTTTGT 58.134 32.000 0.00 0.00 30.30 2.83
484 505 7.322664 ACAGATGTGTTGATCTTTTGTTTGTT 58.677 30.769 0.00 0.00 30.30 2.83
485 506 7.276218 ACAGATGTGTTGATCTTTTGTTTGTTG 59.724 33.333 0.00 0.00 30.30 3.33
486 507 7.488792 CAGATGTGTTGATCTTTTGTTTGTTGA 59.511 33.333 0.00 0.00 29.72 3.18
487 508 8.034215 AGATGTGTTGATCTTTTGTTTGTTGAA 58.966 29.630 0.00 0.00 27.38 2.69
488 509 7.953158 TGTGTTGATCTTTTGTTTGTTGAAA 57.047 28.000 0.00 0.00 0.00 2.69
489 510 8.370493 TGTGTTGATCTTTTGTTTGTTGAAAA 57.630 26.923 0.00 0.00 0.00 2.29
490 511 8.494347 TGTGTTGATCTTTTGTTTGTTGAAAAG 58.506 29.630 0.00 0.00 39.52 2.27
491 512 7.956943 GTGTTGATCTTTTGTTTGTTGAAAAGG 59.043 33.333 0.00 0.00 38.94 3.11
492 513 7.875041 TGTTGATCTTTTGTTTGTTGAAAAGGA 59.125 29.630 0.00 0.00 38.94 3.36
493 514 8.382875 GTTGATCTTTTGTTTGTTGAAAAGGAG 58.617 33.333 0.00 0.00 38.94 3.69
494 515 7.041107 TGATCTTTTGTTTGTTGAAAAGGAGG 58.959 34.615 0.00 0.00 38.94 4.30
495 516 6.597832 TCTTTTGTTTGTTGAAAAGGAGGA 57.402 33.333 0.00 0.00 38.94 3.71
496 517 6.630071 TCTTTTGTTTGTTGAAAAGGAGGAG 58.370 36.000 0.00 0.00 38.94 3.69
497 518 6.435904 TCTTTTGTTTGTTGAAAAGGAGGAGA 59.564 34.615 0.00 0.00 38.94 3.71
498 519 5.835113 TTGTTTGTTGAAAAGGAGGAGAG 57.165 39.130 0.00 0.00 0.00 3.20
499 520 3.632145 TGTTTGTTGAAAAGGAGGAGAGC 59.368 43.478 0.00 0.00 0.00 4.09
500 521 2.568623 TGTTGAAAAGGAGGAGAGCC 57.431 50.000 0.00 0.00 0.00 4.70
501 522 1.270839 TGTTGAAAAGGAGGAGAGCCG 60.271 52.381 0.00 0.00 39.96 5.52
502 523 0.321653 TTGAAAAGGAGGAGAGCCGC 60.322 55.000 0.00 0.00 39.96 6.53
503 524 1.194781 TGAAAAGGAGGAGAGCCGCT 61.195 55.000 0.00 0.00 39.96 5.52
504 525 0.742635 GAAAAGGAGGAGAGCCGCTG 60.743 60.000 0.00 0.00 39.96 5.18
505 526 2.190488 AAAAGGAGGAGAGCCGCTGG 62.190 60.000 0.00 0.00 39.96 4.85
560 581 7.284034 GCTGCATATTATAGTCCCAATAGCAAT 59.716 37.037 0.00 0.00 0.00 3.56
583 605 1.799544 TTCTACTCCCGCCGTTTTTC 58.200 50.000 0.00 0.00 0.00 2.29
584 606 0.680618 TCTACTCCCGCCGTTTTTCA 59.319 50.000 0.00 0.00 0.00 2.69
599 621 6.368213 CCGTTTTTCAATACAAGACCACTAC 58.632 40.000 0.00 0.00 0.00 2.73
616 638 5.133221 CCACTACCCCATTTTTCAGATAGG 58.867 45.833 0.00 0.00 0.00 2.57
729 756 4.646945 TGGTGTCTCTTTCTCTATGGCTAG 59.353 45.833 0.00 0.00 0.00 3.42
812 848 4.098044 CGGGAAGAGATAGTGAGCTTGTAA 59.902 45.833 0.00 0.00 0.00 2.41
813 849 5.353111 GGGAAGAGATAGTGAGCTTGTAAC 58.647 45.833 0.00 0.00 0.00 2.50
859 895 9.845214 ATTAATACCAGAGGGAGTATAAGATGT 57.155 33.333 0.00 0.00 38.05 3.06
861 897 5.878406 ACCAGAGGGAGTATAAGATGTTG 57.122 43.478 0.00 0.00 38.05 3.33
862 898 4.101741 ACCAGAGGGAGTATAAGATGTTGC 59.898 45.833 0.00 0.00 38.05 4.17
863 899 4.101585 CCAGAGGGAGTATAAGATGTTGCA 59.898 45.833 0.00 0.00 35.59 4.08
864 900 5.053145 CAGAGGGAGTATAAGATGTTGCAC 58.947 45.833 0.00 0.00 0.00 4.57
865 901 4.716784 AGAGGGAGTATAAGATGTTGCACA 59.283 41.667 0.00 0.00 0.00 4.57
866 902 4.770795 AGGGAGTATAAGATGTTGCACAC 58.229 43.478 0.00 0.00 0.00 3.82
867 903 3.555956 GGGAGTATAAGATGTTGCACACG 59.444 47.826 0.00 0.00 0.00 4.49
868 904 4.430007 GGAGTATAAGATGTTGCACACGA 58.570 43.478 0.00 0.00 0.00 4.35
934 971 8.885494 TTCAAGAATGTTTTTGTTTATCAGGG 57.115 30.769 0.00 0.00 0.00 4.45
935 972 7.441017 TCAAGAATGTTTTTGTTTATCAGGGG 58.559 34.615 0.00 0.00 0.00 4.79
970 1009 4.991687 ACTGTCAACTAACTTGCTTCTAGC 59.008 41.667 0.00 0.00 42.82 3.42
1017 1056 4.268359 AGAAGATGAATGCTTTCTCCCAC 58.732 43.478 12.96 3.53 32.78 4.61
1172 1218 6.012858 TGGGATCTACAAGGTAATCACAACTT 60.013 38.462 0.00 0.00 28.92 2.66
1189 1235 6.765512 TCACAACTTCACTCATTCATGTTGTA 59.234 34.615 0.00 0.00 42.70 2.41
1219 1335 3.507233 CAGCCAAACAAGCTTTCCTATGA 59.493 43.478 0.00 0.00 38.95 2.15
1314 1442 5.851177 CAGTTTTTGAACGCACTAACCATAG 59.149 40.000 0.00 0.00 35.14 2.23
1405 1533 3.262420 CCACAAGGACAAGAAGTATCCG 58.738 50.000 0.00 0.00 37.60 4.18
1426 1554 3.414700 GGCACTCGCACGAACAGG 61.415 66.667 0.00 0.00 41.24 4.00
1552 1680 1.340991 GCTCCCAATGGGCAGAAGTTA 60.341 52.381 14.88 0.00 43.94 2.24
1642 1770 0.968405 GGCAAGCTCCCAAAATGTGA 59.032 50.000 0.00 0.00 0.00 3.58
1652 1780 5.125417 GCTCCCAAAATGTGAATGCTAGTAA 59.875 40.000 0.00 0.00 0.00 2.24
1664 1792 8.432359 TGTGAATGCTAGTAATAATTATTCGCG 58.568 33.333 13.95 0.00 36.74 5.87
1684 1933 3.096461 CGTCATACGTACCGTTCTTCAG 58.904 50.000 0.00 0.00 41.54 3.02
1702 1951 3.680169 TCAGGACCATTCCATCCCTAAT 58.320 45.455 0.00 0.00 45.72 1.73
1758 2009 0.042131 AGGACGAAGGATGGGTGGTA 59.958 55.000 0.00 0.00 0.00 3.25
1804 2055 3.197790 CGGTGCAGAGAATGGCCG 61.198 66.667 0.00 0.00 0.00 6.13
1807 2058 4.032452 TGCAGAGAATGGCCGCCA 62.032 61.111 16.17 16.17 38.19 5.69
1809 2060 2.270205 CAGAGAATGGCCGCCACT 59.730 61.111 16.16 2.47 35.80 4.00
1831 2082 0.250295 CTCGGCCTTCTGGTTCAACA 60.250 55.000 0.00 0.00 35.27 3.33
1836 2087 1.880027 GCCTTCTGGTTCAACAACGAT 59.120 47.619 0.00 0.00 32.68 3.73
1841 2092 3.738982 TCTGGTTCAACAACGATCATGT 58.261 40.909 0.00 0.00 32.68 3.21
2079 2330 2.631428 CAACCGTGCAACCAGACG 59.369 61.111 0.00 0.00 35.31 4.18
2157 2408 3.462678 GCCGGAGAGTGGAGGGAC 61.463 72.222 5.05 0.00 0.00 4.46
2349 2600 2.684374 ACGTACGGCATATACAGACACA 59.316 45.455 21.06 0.00 0.00 3.72
2536 2790 7.122650 ACAATTTGGAGGGTGTAATGTCATAAG 59.877 37.037 0.78 0.00 0.00 1.73
2658 2912 2.000429 ATGCGCTTTCCAATTCAAGC 58.000 45.000 9.73 4.18 41.79 4.01
2702 2956 3.567478 ATTTCCCTGATGCTAGACACC 57.433 47.619 0.00 0.00 0.00 4.16
2801 3055 5.705609 AATCTGGGTCACACACAAATAAC 57.294 39.130 0.00 0.00 26.79 1.89
2874 3128 0.106569 CATTAGGCATGTGGGCAGGA 60.107 55.000 0.00 0.00 46.44 3.86
2877 3131 1.496444 TAGGCATGTGGGCAGGAACA 61.496 55.000 0.00 0.00 46.44 3.18
2886 3140 0.823356 GGGCAGGAACACAGAAAGCA 60.823 55.000 0.00 0.00 0.00 3.91
2895 3149 5.652452 AGGAACACAGAAAGCACTTTTTACT 59.348 36.000 0.00 0.00 32.11 2.24
2907 3161 2.441750 ACTTTTTACTGGTGCAGGGAGA 59.558 45.455 0.00 0.00 35.51 3.71
2936 3190 0.690192 ACCATCCACCGTTCACATGA 59.310 50.000 0.00 0.00 0.00 3.07
2940 3194 3.427909 CCATCCACCGTTCACATGATTTG 60.428 47.826 0.00 0.00 0.00 2.32
2970 3224 5.222151 TGTGTTTAAGTGGGACCCATTCATA 60.222 40.000 18.51 2.08 35.28 2.15
3068 3322 3.304726 GGAGAAGTACTTTTTGCAGTGGC 60.305 47.826 10.02 0.00 41.68 5.01
3114 3368 3.045634 TCCTCTCTCTCAAACAAACCCA 58.954 45.455 0.00 0.00 0.00 4.51
3116 3370 3.755378 CCTCTCTCTCAAACAAACCCATG 59.245 47.826 0.00 0.00 0.00 3.66
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
25 26 9.962759 GTTGTCATATTTCAAATTTCATGAAGC 57.037 29.630 8.41 0.00 38.01 3.86
170 190 5.049749 GTGCATGTGTGTGTGAGTTTATGTA 60.050 40.000 0.00 0.00 0.00 2.29
179 199 0.393537 TGGTGTGCATGTGTGTGTGA 60.394 50.000 0.00 0.00 0.00 3.58
205 225 2.364324 GTGAGTGTGTGTGGGACTAGAA 59.636 50.000 0.00 0.00 0.00 2.10
246 266 0.324552 TCATGAGGCCCCATGGTTTG 60.325 55.000 25.34 2.79 43.01 2.93
275 295 4.028131 TGTTCCCGTCAATAGTGAGGTAT 58.972 43.478 11.45 0.00 37.85 2.73
279 299 3.116300 CGATGTTCCCGTCAATAGTGAG 58.884 50.000 0.00 0.00 33.27 3.51
300 320 2.533266 TTTCAGTGTGAGAGTGAGGC 57.467 50.000 0.00 0.00 35.35 4.70
301 321 8.954950 ATTATTATTTCAGTGTGAGAGTGAGG 57.045 34.615 0.00 0.00 35.35 3.86
343 363 2.567615 ACTCCTAGGTTTGATGCTTCGT 59.432 45.455 9.08 0.00 0.00 3.85
373 393 2.925724 TGTAATCCAACGCCCATAAGG 58.074 47.619 0.00 0.00 39.47 2.69
374 394 4.578516 TGATTGTAATCCAACGCCCATAAG 59.421 41.667 2.41 0.00 35.44 1.73
375 395 4.336993 GTGATTGTAATCCAACGCCCATAA 59.663 41.667 2.41 0.00 35.44 1.90
376 396 3.880490 GTGATTGTAATCCAACGCCCATA 59.120 43.478 2.41 0.00 35.44 2.74
388 408 6.172630 GCAAATTTTGGAGGGTGATTGTAAT 58.827 36.000 10.96 0.00 0.00 1.89
460 481 7.488792 TCAACAAACAAAAGATCAACACATCTG 59.511 33.333 0.00 0.00 33.13 2.90
462 483 7.754069 TCAACAAACAAAAGATCAACACATC 57.246 32.000 0.00 0.00 0.00 3.06
475 496 5.394115 GCTCTCCTCCTTTTCAACAAACAAA 60.394 40.000 0.00 0.00 0.00 2.83
476 497 4.097892 GCTCTCCTCCTTTTCAACAAACAA 59.902 41.667 0.00 0.00 0.00 2.83
477 498 3.632145 GCTCTCCTCCTTTTCAACAAACA 59.368 43.478 0.00 0.00 0.00 2.83
478 499 3.004839 GGCTCTCCTCCTTTTCAACAAAC 59.995 47.826 0.00 0.00 0.00 2.93
479 500 3.222603 GGCTCTCCTCCTTTTCAACAAA 58.777 45.455 0.00 0.00 0.00 2.83
480 501 2.810400 CGGCTCTCCTCCTTTTCAACAA 60.810 50.000 0.00 0.00 0.00 2.83
481 502 1.270839 CGGCTCTCCTCCTTTTCAACA 60.271 52.381 0.00 0.00 0.00 3.33
482 503 1.443802 CGGCTCTCCTCCTTTTCAAC 58.556 55.000 0.00 0.00 0.00 3.18
483 504 0.321653 GCGGCTCTCCTCCTTTTCAA 60.322 55.000 0.00 0.00 0.00 2.69
484 505 1.194781 AGCGGCTCTCCTCCTTTTCA 61.195 55.000 0.00 0.00 0.00 2.69
485 506 0.742635 CAGCGGCTCTCCTCCTTTTC 60.743 60.000 0.00 0.00 0.00 2.29
486 507 1.298014 CAGCGGCTCTCCTCCTTTT 59.702 57.895 0.00 0.00 0.00 2.27
487 508 2.664081 CCAGCGGCTCTCCTCCTTT 61.664 63.158 0.00 0.00 0.00 3.11
488 509 3.080121 CCAGCGGCTCTCCTCCTT 61.080 66.667 0.00 0.00 0.00 3.36
499 520 1.543802 TCAAATTTGTAAGGCCAGCGG 59.456 47.619 17.47 0.00 0.00 5.52
500 521 3.508744 ATCAAATTTGTAAGGCCAGCG 57.491 42.857 17.47 0.00 0.00 5.18
501 522 4.627035 GTCAATCAAATTTGTAAGGCCAGC 59.373 41.667 17.47 0.00 0.00 4.85
502 523 5.782047 TGTCAATCAAATTTGTAAGGCCAG 58.218 37.500 17.47 1.98 0.00 4.85
503 524 5.798125 TGTCAATCAAATTTGTAAGGCCA 57.202 34.783 17.47 6.59 0.00 5.36
560 581 3.615224 AAACGGCGGGAGTAGAATTTA 57.385 42.857 13.24 0.00 0.00 1.40
583 605 3.992943 TGGGGTAGTGGTCTTGTATTG 57.007 47.619 0.00 0.00 0.00 1.90
584 606 5.530176 AAATGGGGTAGTGGTCTTGTATT 57.470 39.130 0.00 0.00 0.00 1.89
599 621 7.323420 GTTTTCTTCCTATCTGAAAAATGGGG 58.677 38.462 0.00 0.00 40.07 4.96
859 895 1.003003 TCCATCTCCATTCGTGTGCAA 59.997 47.619 0.00 0.00 0.00 4.08
861 897 1.293924 CTCCATCTCCATTCGTGTGC 58.706 55.000 0.00 0.00 0.00 4.57
862 898 2.094026 TCACTCCATCTCCATTCGTGTG 60.094 50.000 0.00 0.00 0.00 3.82
863 899 2.093973 GTCACTCCATCTCCATTCGTGT 60.094 50.000 0.00 0.00 0.00 4.49
864 900 2.544685 GTCACTCCATCTCCATTCGTG 58.455 52.381 0.00 0.00 0.00 4.35
865 901 1.482593 GGTCACTCCATCTCCATTCGT 59.517 52.381 0.00 0.00 35.97 3.85
866 902 1.482182 TGGTCACTCCATCTCCATTCG 59.518 52.381 0.00 0.00 41.93 3.34
934 971 2.526304 TGACAGTTGACACTACTGCC 57.474 50.000 7.12 0.00 45.38 4.85
935 972 3.458189 AGTTGACAGTTGACACTACTGC 58.542 45.455 7.12 2.27 45.38 4.40
1172 1218 9.883142 TGTATTGTATACAACATGAATGAGTGA 57.117 29.630 20.26 0.00 38.86 3.41
1189 1235 5.982890 AAGCTTGTTTGGCTGTATTGTAT 57.017 34.783 0.00 0.00 40.19 2.29
1197 1313 3.507233 TCATAGGAAAGCTTGTTTGGCTG 59.493 43.478 0.00 0.00 40.19 4.85
1219 1335 1.156736 GTGTATTGCAAGGTCACGCT 58.843 50.000 4.94 0.00 0.00 5.07
1314 1442 2.224079 TCTGTTTGAGCATCGTTTGAGC 59.776 45.455 0.00 0.00 38.61 4.26
1420 1548 3.670377 GCCGTGGTTGCCCTGTTC 61.670 66.667 0.00 0.00 0.00 3.18
1435 1563 3.062466 GCCTTCCAGAAACCCGCC 61.062 66.667 0.00 0.00 0.00 6.13
1438 1566 1.606601 GGTGGCCTTCCAGAAACCC 60.607 63.158 3.32 0.00 44.48 4.11
1552 1680 2.996249 ACTCGTGCATGATCCAATCT 57.004 45.000 9.53 0.00 0.00 2.40
1642 1770 8.528917 TGACGCGAATAATTATTACTAGCATT 57.471 30.769 15.93 5.00 0.00 3.56
1684 1933 4.453480 TTCATTAGGGATGGAATGGTCC 57.547 45.455 0.00 0.00 45.21 4.46
1702 1951 8.928270 AACGTACAACCAAATTAACATTTTCA 57.072 26.923 0.00 0.00 29.41 2.69
1758 2009 1.267806 CGCTTCTTGAACACCTTGCAT 59.732 47.619 0.00 0.00 0.00 3.96
1807 2058 1.122019 AACCAGAAGGCCGAGTCAGT 61.122 55.000 0.00 0.00 39.06 3.41
1809 2060 1.118965 TGAACCAGAAGGCCGAGTCA 61.119 55.000 0.00 0.00 39.06 3.41
1816 2067 1.305201 TCGTTGTTGAACCAGAAGGC 58.695 50.000 0.00 0.00 39.06 4.35
1836 2087 2.397754 CGCCATGAACGCCACATGA 61.398 57.895 15.30 0.00 45.22 3.07
2079 2330 1.618640 GAGAAGCTTGTCCGTCGTGC 61.619 60.000 12.50 0.00 0.00 5.34
2157 2408 2.415893 GGACGCCATGAATTTGTCAAGG 60.416 50.000 0.00 0.00 46.16 3.61
2349 2600 7.008992 GCGTTAGTGTGTATCTTTTCGTATCTT 59.991 37.037 0.00 0.00 0.00 2.40
2686 2940 1.227380 GCGGTGTCTAGCATCAGGG 60.227 63.158 0.00 0.00 0.00 4.45
2702 2956 8.131455 ACTGTAAAGAATATCAATACACTGCG 57.869 34.615 0.00 0.00 0.00 5.18
2768 3022 6.597672 TGTGTGACCCAGATTATATGTTGTTC 59.402 38.462 0.00 0.00 0.00 3.18
2801 3055 4.512944 ACGCTGCACAAAATCCTCTATATG 59.487 41.667 0.00 0.00 0.00 1.78
2874 3128 5.185056 ACCAGTAAAAAGTGCTTTCTGTGTT 59.815 36.000 0.00 0.00 31.45 3.32
2877 3131 5.248870 CACCAGTAAAAAGTGCTTTCTGT 57.751 39.130 0.00 0.00 31.45 3.41
2886 3140 2.441750 TCTCCCTGCACCAGTAAAAAGT 59.558 45.455 0.00 0.00 0.00 2.66
2895 3149 2.063979 CCGGTATCTCCCTGCACCA 61.064 63.158 0.00 0.00 0.00 4.17
2907 3161 1.145377 GTGGATGGTTCGCCGGTAT 59.855 57.895 1.90 0.00 41.18 2.73
2936 3190 4.082787 CCCACTTAAACACAGATCGCAAAT 60.083 41.667 0.00 0.00 0.00 2.32
2940 3194 2.415512 GTCCCACTTAAACACAGATCGC 59.584 50.000 0.00 0.00 0.00 4.58
3026 3280 3.330701 TCCTGACATGGGCCCTAATAATC 59.669 47.826 25.70 12.27 0.00 1.75
3031 3285 0.044092 TCTCCTGACATGGGCCCTAA 59.956 55.000 25.70 2.97 0.00 2.69
3068 3322 4.517832 AGATGTTGCATGCATATGTACCTG 59.482 41.667 23.37 0.00 36.65 4.00
3075 3329 4.041815 AGAGGAGAGATGTTGCATGCATAT 59.958 41.667 23.37 18.68 0.00 1.78
3076 3330 3.390311 AGAGGAGAGATGTTGCATGCATA 59.610 43.478 23.37 14.42 0.00 3.14
3141 3395 4.093011 TGCTGTAAAAATATTGGCCACCT 58.907 39.130 3.88 0.00 0.00 4.00
3143 3397 5.874261 ACAATGCTGTAAAAATATTGGCCAC 59.126 36.000 3.88 0.00 34.07 5.01


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

AutoCloner maintained by Alex Coulton.