Multiple sequence alignment - TraesCS5D01G381900

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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 TraesCS5D01G381900 chr5D 100.000 2573 0 0 1 2573 451908412 451910984 0.000000e+00 4752.0
1 TraesCS5D01G381900 chr5D 92.175 869 60 3 1712 2573 417384174 417385041 0.000000e+00 1221.0
2 TraesCS5D01G381900 chr5D 86.925 979 67 13 1651 2573 436783490 436784463 0.000000e+00 1042.0
3 TraesCS5D01G381900 chr5D 97.222 432 11 1 2143 2573 436199445 436199014 0.000000e+00 730.0
4 TraesCS5D01G381900 chr5D 97.436 39 1 0 302 340 451908672 451908710 1.650000e-07 67.6
5 TraesCS5D01G381900 chr5D 97.436 39 1 0 261 299 451908713 451908751 1.650000e-07 67.6
6 TraesCS5D01G381900 chr5B 92.963 1080 46 9 563 1626 551678935 551680000 0.000000e+00 1546.0
7 TraesCS5D01G381900 chr5B 91.703 229 18 1 55 283 551678349 551678576 1.490000e-82 316.0
8 TraesCS5D01G381900 chr5B 91.912 136 11 0 347 482 551678614 551678749 9.400000e-45 191.0
9 TraesCS5D01G381900 chr5A 91.705 1085 48 12 596 1650 570777989 570779061 0.000000e+00 1467.0
10 TraesCS5D01G381900 chr5A 87.086 302 28 6 2 299 570777415 570777709 5.310000e-87 331.0
11 TraesCS5D01G381900 chr2D 90.986 943 47 5 1654 2573 166956103 166957030 0.000000e+00 1236.0
12 TraesCS5D01G381900 chr2D 80.064 311 28 16 1650 1959 373229552 373229829 1.560000e-47 200.0
13 TraesCS5D01G381900 chr2D 89.344 122 11 2 1647 1767 567391251 567391371 4.430000e-33 152.0
14 TraesCS5D01G381900 chr1A 88.547 943 67 13 1654 2573 394557230 394558154 0.000000e+00 1105.0
15 TraesCS5D01G381900 chr1A 88.148 945 66 17 1654 2573 394461779 394462702 0.000000e+00 1083.0
16 TraesCS5D01G381900 chr1A 87.275 943 78 20 1654 2573 497916681 497915758 0.000000e+00 1038.0
17 TraesCS5D01G381900 chr1A 95.620 274 11 1 2301 2573 577316489 577316762 3.040000e-119 438.0
18 TraesCS5D01G381900 chr1D 87.832 978 68 13 1647 2573 251990697 251989720 0.000000e+00 1099.0
19 TraesCS5D01G381900 chr3A 87.818 944 73 12 1654 2573 121493580 121492655 0.000000e+00 1068.0
20 TraesCS5D01G381900 chr3A 87.356 957 79 17 1641 2573 106565399 106566337 0.000000e+00 1059.0
21 TraesCS5D01G381900 chr4D 85.041 976 74 17 1654 2573 484752717 484751758 0.000000e+00 928.0
22 TraesCS5D01G381900 chr4D 96.715 274 8 1 2301 2573 488753048 488753321 3.020000e-124 455.0
23 TraesCS5D01G381900 chr3D 84.672 946 68 17 1651 2573 453224818 453223927 0.000000e+00 872.0
24 TraesCS5D01G381900 chr7D 83.824 544 72 11 1037 1573 362366821 362366287 1.060000e-138 503.0
25 TraesCS5D01G381900 chr7D 96.350 274 8 2 2301 2573 227293186 227292914 1.400000e-122 449.0
26 TraesCS5D01G381900 chr7D 77.485 342 48 9 1642 1958 412591252 412590915 7.320000e-41 178.0
27 TraesCS5D01G381900 chr7D 93.162 117 7 1 1651 1767 146977991 146978106 1.220000e-38 171.0
28 TraesCS5D01G381900 chr7D 81.197 234 25 4 87 302 362375945 362375713 1.220000e-38 171.0
29 TraesCS5D01G381900 chr7B 83.932 529 66 10 1037 1558 324390717 324391233 2.980000e-134 488.0
30 TraesCS5D01G381900 chr7B 83.571 140 15 3 769 907 324390440 324390572 9.670000e-25 124.0
31 TraesCS5D01G381900 chr2B 95.985 274 10 1 2301 2573 579919826 579920099 6.530000e-121 444.0
32 TraesCS5D01G381900 chr4B 95.620 274 11 1 2301 2573 624431053 624431326 3.040000e-119 438.0
33 TraesCS5D01G381900 chr6B 90.909 110 8 2 1656 1764 501125395 501125503 2.060000e-31 147.0
34 TraesCS5D01G381900 chr7A 88.496 113 11 2 1651 1762 696120537 696120648 4.470000e-28 135.0


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 TraesCS5D01G381900 chr5D 451908412 451910984 2572 False 1629.066667 4752 98.290667 1 2573 3 chr5D.!!$F3 2572
1 TraesCS5D01G381900 chr5D 417384174 417385041 867 False 1221.000000 1221 92.175000 1712 2573 1 chr5D.!!$F1 861
2 TraesCS5D01G381900 chr5D 436783490 436784463 973 False 1042.000000 1042 86.925000 1651 2573 1 chr5D.!!$F2 922
3 TraesCS5D01G381900 chr5B 551678349 551680000 1651 False 684.333333 1546 92.192667 55 1626 3 chr5B.!!$F1 1571
4 TraesCS5D01G381900 chr5A 570777415 570779061 1646 False 899.000000 1467 89.395500 2 1650 2 chr5A.!!$F1 1648
5 TraesCS5D01G381900 chr2D 166956103 166957030 927 False 1236.000000 1236 90.986000 1654 2573 1 chr2D.!!$F1 919
6 TraesCS5D01G381900 chr1A 394557230 394558154 924 False 1105.000000 1105 88.547000 1654 2573 1 chr1A.!!$F2 919
7 TraesCS5D01G381900 chr1A 394461779 394462702 923 False 1083.000000 1083 88.148000 1654 2573 1 chr1A.!!$F1 919
8 TraesCS5D01G381900 chr1A 497915758 497916681 923 True 1038.000000 1038 87.275000 1654 2573 1 chr1A.!!$R1 919
9 TraesCS5D01G381900 chr1D 251989720 251990697 977 True 1099.000000 1099 87.832000 1647 2573 1 chr1D.!!$R1 926
10 TraesCS5D01G381900 chr3A 121492655 121493580 925 True 1068.000000 1068 87.818000 1654 2573 1 chr3A.!!$R1 919
11 TraesCS5D01G381900 chr3A 106565399 106566337 938 False 1059.000000 1059 87.356000 1641 2573 1 chr3A.!!$F1 932
12 TraesCS5D01G381900 chr4D 484751758 484752717 959 True 928.000000 928 85.041000 1654 2573 1 chr4D.!!$R1 919
13 TraesCS5D01G381900 chr3D 453223927 453224818 891 True 872.000000 872 84.672000 1651 2573 1 chr3D.!!$R1 922
14 TraesCS5D01G381900 chr7D 362366287 362366821 534 True 503.000000 503 83.824000 1037 1573 1 chr7D.!!$R2 536
15 TraesCS5D01G381900 chr7B 324390440 324391233 793 False 306.000000 488 83.751500 769 1558 2 chr7B.!!$F1 789

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
270 273 0.03601 AGACGGTCATCCAGGCAAAG 60.036 55.0 11.27 0.0 0.0 2.77 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1898 2145 0.54083 AATGCACGGCAAAACCCCTA 60.541 50.0 2.68 0.0 43.62 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
49 51 4.660789 AAACATTCAAAGAACAGCTGCT 57.339 36.364 15.27 0.00 0.00 4.24
53 55 0.588252 TCAAAGAACAGCTGCTTCGC 59.412 50.000 15.27 0.00 0.00 4.70
147 149 1.355720 GGGATCTAATCATGGTGGGGG 59.644 57.143 0.00 0.00 0.00 5.40
174 176 0.323178 CTGGAGGGAATGCAGCAAGT 60.323 55.000 0.00 0.00 40.79 3.16
175 177 0.322816 TGGAGGGAATGCAGCAAGTC 60.323 55.000 0.00 0.00 0.00 3.01
215 217 2.719426 CAAAGCAGCTTCTTTGGAGG 57.281 50.000 25.55 5.42 45.50 4.30
255 258 1.966451 GCTGGGGTTCACCAAGACG 60.966 63.158 0.00 0.00 43.78 4.18
270 273 0.036010 AGACGGTCATCCAGGCAAAG 60.036 55.000 11.27 0.00 0.00 2.77
287 290 3.187432 GCAAAGCCAGACTCTGTTTACTC 59.813 47.826 5.32 0.00 0.00 2.59
292 295 3.583806 CCAGACTCTGTTTACTCTGCAG 58.416 50.000 7.63 7.63 30.60 4.41
293 296 3.006323 CCAGACTCTGTTTACTCTGCAGT 59.994 47.826 14.67 0.00 36.55 4.40
296 299 5.861251 CAGACTCTGTTTACTCTGCAGTAAG 59.139 44.000 14.67 7.28 44.33 2.34
297 300 4.561105 ACTCTGTTTACTCTGCAGTAAGC 58.439 43.478 14.67 9.44 44.33 3.09
307 310 2.175236 GCAGTAAGCAAGTCCAGGC 58.825 57.895 0.00 0.00 44.79 4.85
309 312 1.896220 CAGTAAGCAAGTCCAGGCAA 58.104 50.000 0.00 0.00 0.00 4.52
310 313 2.229792 CAGTAAGCAAGTCCAGGCAAA 58.770 47.619 0.00 0.00 0.00 3.68
311 314 2.227388 CAGTAAGCAAGTCCAGGCAAAG 59.773 50.000 0.00 0.00 0.00 2.77
312 315 1.068264 GTAAGCAAGTCCAGGCAAAGC 60.068 52.381 0.00 0.00 0.00 3.51
326 329 3.544356 GCAAAGCCAGACTCTGTTTAC 57.456 47.619 5.32 0.00 0.00 2.01
327 330 3.142174 GCAAAGCCAGACTCTGTTTACT 58.858 45.455 5.32 0.00 0.00 2.24
328 331 3.187432 GCAAAGCCAGACTCTGTTTACTC 59.813 47.826 5.32 0.00 0.00 2.59
329 332 4.636249 CAAAGCCAGACTCTGTTTACTCT 58.364 43.478 5.32 0.00 0.00 3.24
330 333 3.951775 AGCCAGACTCTGTTTACTCTG 57.048 47.619 5.32 0.00 0.00 3.35
331 334 2.028567 AGCCAGACTCTGTTTACTCTGC 60.029 50.000 5.32 0.00 30.60 4.26
334 337 2.992543 CAGACTCTGTTTACTCTGCAGC 59.007 50.000 9.47 0.00 0.00 5.25
368 374 1.268386 CGCCTTCTGCATGCATAGTTG 60.268 52.381 22.97 9.36 41.33 3.16
377 383 2.916716 GCATGCATAGTTGGTTTGTTCG 59.083 45.455 14.21 0.00 0.00 3.95
385 391 3.815809 AGTTGGTTTGTTCGGAGATCAA 58.184 40.909 0.00 0.00 43.45 2.57
502 508 0.336048 AATCAGGGGTGGTGGGAATG 59.664 55.000 0.00 0.00 0.00 2.67
503 509 0.850883 ATCAGGGGTGGTGGGAATGT 60.851 55.000 0.00 0.00 0.00 2.71
504 510 1.071314 TCAGGGGTGGTGGGAATGTT 61.071 55.000 0.00 0.00 0.00 2.71
505 511 0.899717 CAGGGGTGGTGGGAATGTTG 60.900 60.000 0.00 0.00 0.00 3.33
506 512 1.071314 AGGGGTGGTGGGAATGTTGA 61.071 55.000 0.00 0.00 0.00 3.18
507 513 0.041090 GGGGTGGTGGGAATGTTGAT 59.959 55.000 0.00 0.00 0.00 2.57
508 514 1.185315 GGGTGGTGGGAATGTTGATG 58.815 55.000 0.00 0.00 0.00 3.07
509 515 1.549950 GGGTGGTGGGAATGTTGATGT 60.550 52.381 0.00 0.00 0.00 3.06
510 516 1.545582 GGTGGTGGGAATGTTGATGTG 59.454 52.381 0.00 0.00 0.00 3.21
511 517 2.513753 GTGGTGGGAATGTTGATGTGA 58.486 47.619 0.00 0.00 0.00 3.58
512 518 2.890311 GTGGTGGGAATGTTGATGTGAA 59.110 45.455 0.00 0.00 0.00 3.18
513 519 3.057315 GTGGTGGGAATGTTGATGTGAAG 60.057 47.826 0.00 0.00 0.00 3.02
514 520 2.094545 GGTGGGAATGTTGATGTGAAGC 60.095 50.000 0.00 0.00 0.00 3.86
515 521 1.811965 TGGGAATGTTGATGTGAAGCG 59.188 47.619 0.00 0.00 0.00 4.68
516 522 1.468054 GGGAATGTTGATGTGAAGCGC 60.468 52.381 0.00 0.00 0.00 5.92
517 523 1.468054 GGAATGTTGATGTGAAGCGCC 60.468 52.381 2.29 0.00 0.00 6.53
518 524 1.470098 GAATGTTGATGTGAAGCGCCT 59.530 47.619 2.29 0.00 0.00 5.52
519 525 0.806868 ATGTTGATGTGAAGCGCCTG 59.193 50.000 2.29 0.00 0.00 4.85
520 526 0.534877 TGTTGATGTGAAGCGCCTGT 60.535 50.000 2.29 0.00 0.00 4.00
521 527 0.166814 GTTGATGTGAAGCGCCTGTC 59.833 55.000 2.29 0.00 0.00 3.51
522 528 1.291184 TTGATGTGAAGCGCCTGTCG 61.291 55.000 2.29 0.00 42.12 4.35
523 529 1.446099 GATGTGAAGCGCCTGTCGA 60.446 57.895 2.29 0.00 41.67 4.20
604 737 5.350504 AGAACAGGTAAGATGAGACATGG 57.649 43.478 0.00 0.00 31.78 3.66
614 747 5.365021 AGATGAGACATGGTTTCCCTTAG 57.635 43.478 0.00 0.00 0.00 2.18
653 786 4.275689 TCAGCTTTTCCACATGTGTAGTTG 59.724 41.667 23.79 19.83 0.00 3.16
654 787 3.004734 AGCTTTTCCACATGTGTAGTTGC 59.995 43.478 23.79 19.84 0.00 4.17
657 790 2.183478 TCCACATGTGTAGTTGCCTG 57.817 50.000 23.79 5.90 0.00 4.85
658 791 1.696884 TCCACATGTGTAGTTGCCTGA 59.303 47.619 23.79 8.18 0.00 3.86
659 792 2.305635 TCCACATGTGTAGTTGCCTGAT 59.694 45.455 23.79 0.00 0.00 2.90
660 793 3.517500 TCCACATGTGTAGTTGCCTGATA 59.482 43.478 23.79 0.00 0.00 2.15
661 794 4.019771 TCCACATGTGTAGTTGCCTGATAA 60.020 41.667 23.79 0.00 0.00 1.75
662 795 4.094887 CCACATGTGTAGTTGCCTGATAAC 59.905 45.833 23.79 0.00 0.00 1.89
663 796 4.937620 CACATGTGTAGTTGCCTGATAACT 59.062 41.667 18.03 0.00 41.06 2.24
664 797 5.412594 CACATGTGTAGTTGCCTGATAACTT 59.587 40.000 18.03 0.00 39.06 2.66
665 798 6.593770 CACATGTGTAGTTGCCTGATAACTTA 59.406 38.462 18.03 0.00 39.06 2.24
666 799 7.280876 CACATGTGTAGTTGCCTGATAACTTAT 59.719 37.037 18.03 0.00 39.06 1.73
667 800 7.280876 ACATGTGTAGTTGCCTGATAACTTATG 59.719 37.037 0.00 0.00 39.06 1.90
670 803 6.594159 GTGTAGTTGCCTGATAACTTATGTGT 59.406 38.462 0.00 0.00 39.06 3.72
673 806 6.476378 AGTTGCCTGATAACTTATGTGTCTT 58.524 36.000 0.00 0.00 34.91 3.01
677 810 7.791029 TGCCTGATAACTTATGTGTCTTATGA 58.209 34.615 0.00 0.00 0.00 2.15
679 812 7.928706 GCCTGATAACTTATGTGTCTTATGACT 59.071 37.037 9.87 0.00 43.29 3.41
734 867 9.537192 AATAGTGTCATAAATGCATGAAAATGG 57.463 29.630 0.00 0.00 36.71 3.16
924 1068 6.539826 CCTGCATTACATTGTCATCTTCTACA 59.460 38.462 0.00 0.00 0.00 2.74
928 1072 7.201679 GCATTACATTGTCATCTTCTACAGCTT 60.202 37.037 0.00 0.00 0.00 3.74
938 1082 1.938585 TCTACAGCTTGCCCACTACT 58.061 50.000 0.00 0.00 0.00 2.57
939 1083 3.095912 TCTACAGCTTGCCCACTACTA 57.904 47.619 0.00 0.00 0.00 1.82
940 1084 3.024547 TCTACAGCTTGCCCACTACTAG 58.975 50.000 0.00 0.00 0.00 2.57
1290 1484 2.863137 GCTCTTGATCCAGAACATCGTC 59.137 50.000 0.00 0.00 0.00 4.20
1293 1487 2.561733 TGATCCAGAACATCGTCGTC 57.438 50.000 0.00 0.00 0.00 4.20
1296 1490 2.497092 CCAGAACATCGTCGTCGCG 61.497 63.158 0.00 0.00 36.96 5.87
1574 1798 2.339769 AGGCCAGGAGTACTTTTGACT 58.660 47.619 5.01 0.00 0.00 3.41
1607 1831 2.866762 CGGGACAGAGCTTAGTTATTGC 59.133 50.000 0.00 0.00 0.00 3.56
1618 1842 4.495422 CTTAGTTATTGCTGTCTCGTGGT 58.505 43.478 0.00 0.00 0.00 4.16
1725 1949 4.621034 CGGTTTGAAAGATTTTCGGGATTG 59.379 41.667 0.00 0.00 0.00 2.67
1730 1954 3.449746 AAGATTTTCGGGATTGGACCA 57.550 42.857 0.00 0.00 0.00 4.02
1898 2145 3.319198 CTGGCGGTAGGGTGTGGT 61.319 66.667 0.00 0.00 0.00 4.16
2073 2323 1.047801 AACGAAAATTGCAAGGGCCT 58.952 45.000 0.00 0.00 40.13 5.19
2211 2462 9.322773 TGCTTGTTTTCAAATTCAATATGACAA 57.677 25.926 0.00 0.00 39.47 3.18
2243 2495 6.696583 CACAGCAAGTTTCACAAATATGACAA 59.303 34.615 0.00 0.00 0.00 3.18
2532 2836 1.125093 TCGGTCTTCTTCTTGGGCCA 61.125 55.000 0.00 0.00 0.00 5.36
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
49 51 4.635324 TCAGTTTATCATTCAGCATGCGAA 59.365 37.500 21.32 21.32 34.76 4.70
53 55 8.804743 GTTCAATTCAGTTTATCATTCAGCATG 58.195 33.333 0.00 0.00 37.54 4.06
103 105 3.584834 ACCAACCAATTTTAATCGCAGC 58.415 40.909 0.00 0.00 0.00 5.25
107 109 5.542779 TCCCAAACCAACCAATTTTAATCG 58.457 37.500 0.00 0.00 0.00 3.34
147 149 0.543749 CATTCCCTCCAGACTCCACC 59.456 60.000 0.00 0.00 0.00 4.61
174 176 1.618837 GTAGAGCACTTGGTCACCTGA 59.381 52.381 10.86 0.00 44.42 3.86
175 177 1.344438 TGTAGAGCACTTGGTCACCTG 59.656 52.381 10.86 0.00 44.42 4.00
199 201 0.767375 TCACCTCCAAAGAAGCTGCT 59.233 50.000 0.00 0.00 0.00 4.24
215 217 2.811317 CTGCCGGCGAGAGTTCAC 60.811 66.667 23.90 0.00 0.00 3.18
255 258 3.608432 GGCTTTGCCTGGATGACC 58.392 61.111 0.00 0.00 46.69 4.02
270 273 2.289072 TGCAGAGTAAACAGAGTCTGGC 60.289 50.000 23.79 14.55 44.09 4.85
292 295 1.068264 GCTTTGCCTGGACTTGCTTAC 60.068 52.381 0.00 0.00 0.00 2.34
293 296 1.247567 GCTTTGCCTGGACTTGCTTA 58.752 50.000 0.00 0.00 0.00 3.09
296 299 2.653115 GGCTTTGCCTGGACTTGC 59.347 61.111 0.00 0.00 46.69 4.01
306 309 3.142174 AGTAAACAGAGTCTGGCTTTGC 58.858 45.455 23.79 17.69 35.51 3.68
307 310 4.450419 CAGAGTAAACAGAGTCTGGCTTTG 59.550 45.833 23.79 15.58 41.41 2.77
309 312 3.556004 GCAGAGTAAACAGAGTCTGGCTT 60.556 47.826 23.79 17.58 44.09 4.35
310 313 2.028567 GCAGAGTAAACAGAGTCTGGCT 60.029 50.000 23.79 15.02 44.09 4.75
311 314 2.289072 TGCAGAGTAAACAGAGTCTGGC 60.289 50.000 23.79 14.55 44.09 4.85
312 315 3.583806 CTGCAGAGTAAACAGAGTCTGG 58.416 50.000 23.79 6.57 44.09 3.86
313 316 2.992543 GCTGCAGAGTAAACAGAGTCTG 59.007 50.000 20.43 18.83 45.87 3.51
314 317 2.630098 TGCTGCAGAGTAAACAGAGTCT 59.370 45.455 20.43 0.00 33.10 3.24
315 318 3.032017 TGCTGCAGAGTAAACAGAGTC 57.968 47.619 20.43 0.00 33.10 3.36
316 319 3.397482 CTTGCTGCAGAGTAAACAGAGT 58.603 45.455 20.43 0.00 33.10 3.24
317 320 2.159234 GCTTGCTGCAGAGTAAACAGAG 59.841 50.000 20.43 6.30 42.31 3.35
318 321 2.146342 GCTTGCTGCAGAGTAAACAGA 58.854 47.619 20.43 0.00 42.31 3.41
319 322 2.608467 GCTTGCTGCAGAGTAAACAG 57.392 50.000 20.43 2.50 42.31 3.16
330 333 3.319926 GAGAACGCCTGCTTGCTGC 62.320 63.158 0.00 0.00 43.25 5.25
331 334 2.866028 GAGAACGCCTGCTTGCTG 59.134 61.111 0.00 0.00 0.00 4.41
354 360 3.581024 ACAAACCAACTATGCATGCAG 57.419 42.857 26.69 15.79 0.00 4.41
358 364 3.417101 TCCGAACAAACCAACTATGCAT 58.583 40.909 3.79 3.79 0.00 3.96
368 374 4.866682 GAGATTGATCTCCGAACAAACC 57.133 45.455 9.39 0.00 45.88 3.27
482 488 0.336048 ATTCCCACCACCCCTGATTG 59.664 55.000 0.00 0.00 0.00 2.67
502 508 0.166814 GACAGGCGCTTCACATCAAC 59.833 55.000 7.64 0.00 0.00 3.18
503 509 1.291184 CGACAGGCGCTTCACATCAA 61.291 55.000 7.64 0.00 0.00 2.57
504 510 1.737735 CGACAGGCGCTTCACATCA 60.738 57.895 7.64 0.00 0.00 3.07
505 511 1.014044 TTCGACAGGCGCTTCACATC 61.014 55.000 7.64 0.00 40.61 3.06
506 512 1.005037 TTCGACAGGCGCTTCACAT 60.005 52.632 7.64 0.00 40.61 3.21
507 513 1.664649 CTTCGACAGGCGCTTCACA 60.665 57.895 7.64 0.00 40.61 3.58
508 514 2.383527 CCTTCGACAGGCGCTTCAC 61.384 63.158 7.64 0.00 40.61 3.18
509 515 2.048222 CCTTCGACAGGCGCTTCA 60.048 61.111 7.64 0.00 40.61 3.02
604 737 4.640647 CCTGCTAATGGAACTAAGGGAAAC 59.359 45.833 0.00 0.00 0.00 2.78
614 747 3.549794 AGCTGATTCCTGCTAATGGAAC 58.450 45.455 0.00 0.00 45.10 3.62
653 786 8.077836 GTCATAAGACACATAAGTTATCAGGC 57.922 38.462 0.00 0.00 44.34 4.85
677 810 9.438228 CATCATGCTAAGAATGAGATAATCAGT 57.562 33.333 0.00 0.00 42.53 3.41
711 844 5.813672 GCCATTTTCATGCATTTATGACACT 59.186 36.000 0.00 0.00 36.84 3.55
717 850 5.362263 GTCAGGCCATTTTCATGCATTTAT 58.638 37.500 5.01 0.00 0.00 1.40
734 867 2.426842 AGGATGCTTAAAGGTCAGGC 57.573 50.000 0.00 0.00 0.00 4.85
924 1068 3.103080 AGTACTAGTAGTGGGCAAGCT 57.897 47.619 13.29 0.00 0.00 3.74
928 1072 6.264744 CAGCTAATAAGTACTAGTAGTGGGCA 59.735 42.308 13.29 0.00 31.96 5.36
938 1082 8.465273 TCTGATCTTGCAGCTAATAAGTACTA 57.535 34.615 0.00 0.00 35.86 1.82
939 1083 7.353414 TCTGATCTTGCAGCTAATAAGTACT 57.647 36.000 0.00 0.00 35.86 2.73
940 1084 7.307101 GCTTCTGATCTTGCAGCTAATAAGTAC 60.307 40.741 0.00 0.00 35.86 2.73
1210 1404 1.134461 CATCTGGTTGCTGAGGAGGAG 60.134 57.143 0.00 0.00 0.00 3.69
1574 1798 2.035961 CTCTGTCCCGAAGAACACAAGA 59.964 50.000 0.00 0.00 0.00 3.02
1607 1831 2.019249 TCCGGTAATACCACGAGACAG 58.981 52.381 10.40 0.00 38.47 3.51
1618 1842 3.259876 GGCTACATCACCATCCGGTAATA 59.740 47.826 0.00 0.00 46.94 0.98
1651 1875 9.500864 CAAAAGGGTCAAAACACAAAATTTATG 57.499 29.630 0.00 0.00 0.00 1.90
1652 1876 9.237187 ACAAAAGGGTCAAAACACAAAATTTAT 57.763 25.926 0.00 0.00 0.00 1.40
1898 2145 0.540830 AATGCACGGCAAAACCCCTA 60.541 50.000 2.68 0.00 43.62 3.53
2073 2323 2.751688 GGGTGAACCTACCGCCAA 59.248 61.111 0.00 0.00 41.79 4.52
2140 2390 2.187163 GAGAACCCTACCGCCAGC 59.813 66.667 0.00 0.00 0.00 4.85
2211 2462 6.389830 TTGTGAAACTTGCTGTGATATTGT 57.610 33.333 0.00 0.00 38.04 2.71
2532 2836 1.038130 CCAGAGACCGGTTCCTCGAT 61.038 60.000 9.42 0.00 34.75 3.59


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

AutoCloner maintained by Alex Coulton.