Multiple sequence alignment - TraesCS1B01G234200

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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 TraesCS1B01G234200 chr1B 100.000 3697 0 0 1 3697 419984228 419987924 0.000000e+00 6828.0
1 TraesCS1B01G234200 chr1B 94.118 102 5 1 2126 2227 533757878 533757778 1.780000e-33 154.0
2 TraesCS1B01G234200 chr1B 91.176 102 5 1 2126 2227 640477641 640477544 6.440000e-28 135.0
3 TraesCS1B01G234200 chr1D 91.610 3826 161 46 1 3697 309974168 309970374 0.000000e+00 5140.0
4 TraesCS1B01G234200 chr1A 94.668 1519 66 8 570 2077 389821841 389820327 0.000000e+00 2342.0
5 TraesCS1B01G234200 chr1A 89.033 1623 107 33 2109 3664 389820332 389818714 0.000000e+00 1945.0
6 TraesCS1B01G234200 chr1A 83.170 511 25 19 20 489 389822343 389821853 9.560000e-111 411.0
7 TraesCS1B01G234200 chr1A 84.362 243 13 7 2 221 56982831 56983071 8.040000e-52 215.0
8 TraesCS1B01G234200 chr1A 82.305 243 19 8 2 221 212577549 212577790 4.870000e-44 189.0
9 TraesCS1B01G234200 chr3A 93.007 1530 76 13 570 2077 128564227 128565747 0.000000e+00 2204.0
10 TraesCS1B01G234200 chr3A 88.015 1652 117 31 2077 3664 128565809 128567443 0.000000e+00 1879.0
11 TraesCS1B01G234200 chr3A 87.726 497 24 13 20 489 128563729 128564215 2.510000e-151 545.0
12 TraesCS1B01G234200 chr4A 85.185 243 11 7 2 221 362910384 362910624 3.710000e-55 226.0
13 TraesCS1B01G234200 chr6A 84.362 243 13 8 2 221 214069000 214069240 8.040000e-52 215.0
14 TraesCS1B01G234200 chr2A 83.951 243 14 9 2 221 165942570 165942330 3.740000e-50 209.0
15 TraesCS1B01G234200 chr2A 92.793 111 8 0 1594 1704 745527300 745527410 1.060000e-35 161.0
16 TraesCS1B01G234200 chr3B 83.128 243 16 14 2 221 727664760 727664520 8.100000e-47 198.0
17 TraesCS1B01G234200 chr5A 82.716 243 17 8 2 221 362701639 362701399 3.770000e-45 193.0
18 TraesCS1B01G234200 chr2D 93.220 59 3 1 1644 1702 615502489 615502546 6.580000e-13 86.1


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 TraesCS1B01G234200 chr1B 419984228 419987924 3696 False 6828.000000 6828 100.000000 1 3697 1 chr1B.!!$F1 3696
1 TraesCS1B01G234200 chr1D 309970374 309974168 3794 True 5140.000000 5140 91.610000 1 3697 1 chr1D.!!$R1 3696
2 TraesCS1B01G234200 chr1A 389818714 389822343 3629 True 1566.000000 2342 88.957000 20 3664 3 chr1A.!!$R1 3644
3 TraesCS1B01G234200 chr3A 128563729 128567443 3714 False 1542.666667 2204 89.582667 20 3664 3 chr3A.!!$F1 3644

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
128 156 0.608035 GGAAACGGAGACATGGCCAA 60.608 55.000 10.96 0.0 0.00 4.52 F
774 850 1.002544 GGGAGACTTGTTGGAGACAGG 59.997 57.143 0.00 0.0 44.54 4.00 F
1436 1526 0.173255 CCATCGGCAAATGGTTCCAC 59.827 55.000 8.14 0.0 41.18 4.02 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1167 1253 1.188219 AGCTCTTCTTGCCTCCGACA 61.188 55.000 0.00 0.00 0.00 4.35 R
1804 1894 1.942657 CATACGGAAATGGGACTGCAG 59.057 52.381 13.48 13.48 0.00 4.41 R
2929 3117 0.391793 GAGGTGTGGAGCAACTAGCC 60.392 60.000 0.00 0.00 46.91 3.93 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
128 156 0.608035 GGAAACGGAGACATGGCCAA 60.608 55.000 10.96 0.00 0.00 4.52
154 182 1.228862 GCCCCACCACACCTGAAAT 60.229 57.895 0.00 0.00 0.00 2.17
345 417 6.824704 AGCCGTAGTATACATCTATCTCTTCC 59.175 42.308 5.50 0.00 43.24 3.46
429 501 1.442769 TTCTCTTGGAAGCATCGCAC 58.557 50.000 0.00 0.00 0.00 5.34
470 543 4.029043 GCAAGTTCAAACAAGTCTTCGTC 58.971 43.478 0.00 0.00 0.00 4.20
495 568 9.602568 TCCAATTGACTAAACGTTGCTATATTA 57.397 29.630 7.12 0.00 0.00 0.98
496 569 9.646336 CCAATTGACTAAACGTTGCTATATTAC 57.354 33.333 7.12 0.00 0.00 1.89
504 577 9.793245 CTAAACGTTGCTATATTACAATACAGC 57.207 33.333 0.00 5.48 40.82 4.40
505 578 8.433421 AAACGTTGCTATATTACAATACAGCT 57.567 30.769 12.17 0.00 40.98 4.24
506 579 7.639162 ACGTTGCTATATTACAATACAGCTC 57.361 36.000 12.17 6.09 40.98 4.09
507 580 6.645415 ACGTTGCTATATTACAATACAGCTCC 59.355 38.462 12.17 3.79 40.98 4.70
508 581 6.868864 CGTTGCTATATTACAATACAGCTCCT 59.131 38.462 12.17 0.00 40.98 3.69
509 582 7.148738 CGTTGCTATATTACAATACAGCTCCTG 60.149 40.741 12.17 0.00 40.98 3.86
552 625 7.007636 CGTAGGTACAAGTTCAAACAAAACAAC 59.992 37.037 0.00 0.00 0.00 3.32
609 685 1.681780 CCGTAGCAATCCATGGTTGGT 60.682 52.381 24.84 24.84 44.06 3.67
610 686 2.091541 CGTAGCAATCCATGGTTGGTT 58.908 47.619 25.91 12.72 44.06 3.67
617 693 4.459330 CAATCCATGGTTGGTTTTGGTTT 58.541 39.130 12.58 0.00 44.06 3.27
693 769 3.423539 ACAAATGGCTAGAGAACAGCA 57.576 42.857 0.00 0.00 40.95 4.41
706 782 1.507141 AACAGCAACGGCAGCACTAC 61.507 55.000 0.00 0.00 44.61 2.73
774 850 1.002544 GGGAGACTTGTTGGAGACAGG 59.997 57.143 0.00 0.00 44.54 4.00
948 1028 1.131638 ACCAACCACTGAGAAGAGCA 58.868 50.000 0.00 0.00 0.00 4.26
953 1033 2.050144 ACCACTGAGAAGAGCAAAGGA 58.950 47.619 0.00 0.00 0.00 3.36
1167 1253 3.508012 CGTCGGAGATATCCAAGATCCTT 59.492 47.826 7.26 0.00 40.67 3.36
1309 1399 1.082019 TCCACTGCCCACTCCCATA 59.918 57.895 0.00 0.00 0.00 2.74
1321 1411 3.706594 CCACTCCCATACTTTCTCTGCTA 59.293 47.826 0.00 0.00 0.00 3.49
1322 1412 4.442192 CCACTCCCATACTTTCTCTGCTAC 60.442 50.000 0.00 0.00 0.00 3.58
1400 1490 2.202932 CGGAGTTCCATCAGCGGG 60.203 66.667 0.00 0.00 35.14 6.13
1406 1496 1.760480 TTCCATCAGCGGGATCGGA 60.760 57.895 7.80 7.80 32.57 4.55
1436 1526 0.173255 CCATCGGCAAATGGTTCCAC 59.827 55.000 8.14 0.00 41.18 4.02
1437 1527 1.176527 CATCGGCAAATGGTTCCACT 58.823 50.000 0.00 0.00 0.00 4.00
1798 1888 4.858433 CGTGCCGCCATTGCCATG 62.858 66.667 0.00 0.00 0.00 3.66
1804 1894 0.249155 CCGCCATTGCCATGACAATC 60.249 55.000 4.02 0.00 38.19 2.67
1809 1899 2.481276 CCATTGCCATGACAATCTGCAG 60.481 50.000 7.63 7.63 38.19 4.41
1814 1904 1.340308 CCATGACAATCTGCAGTCCCA 60.340 52.381 14.67 6.56 33.89 4.37
1829 1919 4.393062 GCAGTCCCATTTCCGTATGATATG 59.607 45.833 0.00 0.00 33.61 1.78
1868 1958 1.887854 TGAGTTCGTGTGGAATCCGTA 59.112 47.619 0.00 0.00 36.92 4.02
2058 2158 5.030295 CCGTGCAATATTCAGAACATTCAC 58.970 41.667 0.00 6.65 0.00 3.18
2113 2273 7.397192 ACAAGGTGATTAAGGTGCATAATCTTT 59.603 33.333 15.90 8.07 39.44 2.52
2160 2320 8.044908 GGGATTTACACAGGACAAAAGTATCTA 58.955 37.037 0.00 0.00 0.00 1.98
2188 2348 1.827969 CAACAGGAGGTCTCAGGTAGG 59.172 57.143 0.14 0.00 0.00 3.18
2215 2377 7.458409 AAAACTCTGACTGCACAATATCAAT 57.542 32.000 0.00 0.00 0.00 2.57
2240 2402 5.242838 TGATTGTCCATTTGTCCTACCAAAC 59.757 40.000 0.00 0.00 37.16 2.93
2412 2578 0.891373 TCTGCCTCTGTCAGTGTAGC 59.109 55.000 0.00 0.00 33.48 3.58
2430 2596 6.204882 AGTGTAGCTTGTGAGATTTTAACACC 59.795 38.462 0.00 0.00 35.31 4.16
2504 2670 1.375523 GCTTCCGACGTGGGTGATT 60.376 57.895 16.77 0.00 38.76 2.57
2662 2828 2.528743 CGGCAGATGATCGTGTGGC 61.529 63.158 23.98 23.98 35.04 5.01
2748 2919 8.812972 GGTGATAGTATGTTGTGATATAAGGGA 58.187 37.037 0.00 0.00 0.00 4.20
2892 3070 1.019278 AGCTCGCCGTGTTAATGGTG 61.019 55.000 0.00 0.00 43.34 4.17
2905 3093 6.451393 GTGTTAATGGTGAAATGTGCCTTTA 58.549 36.000 0.00 0.00 0.00 1.85
2913 3101 4.990426 GTGAAATGTGCCTTTAGTGCAAAT 59.010 37.500 0.00 0.00 41.06 2.32
2929 3117 7.375106 AGTGCAAATAATTGAGAGAAGACTG 57.625 36.000 0.00 0.00 38.94 3.51
2930 3118 6.373774 AGTGCAAATAATTGAGAGAAGACTGG 59.626 38.462 0.00 0.00 38.94 4.00
2946 3134 0.674895 CTGGCTAGTTGCTCCACACC 60.675 60.000 0.00 0.00 42.39 4.16
2948 3136 0.391793 GGCTAGTTGCTCCACACCTC 60.392 60.000 0.00 0.00 42.39 3.85
3005 3193 2.554032 AGTTTTCTCTTCCATGCCAACG 59.446 45.455 0.00 0.00 0.00 4.10
3033 3221 3.914094 GCACCAGCAGATGCATGA 58.086 55.556 2.46 0.00 45.16 3.07
3035 3223 1.725557 GCACCAGCAGATGCATGAGG 61.726 60.000 2.46 0.49 45.16 3.86
3132 3342 5.256474 CAAAATCACAAGGTGGACTAGGAT 58.744 41.667 0.00 0.00 33.87 3.24
3191 3403 5.590530 TTTTTGGCTTTCTGAGTTGCTTA 57.409 34.783 0.00 0.00 0.00 3.09
3204 3416 2.802816 AGTTGCTTACTCAAGTTCAGCG 59.197 45.455 8.62 0.00 36.47 5.18
3208 3420 2.666994 GCTTACTCAAGTTCAGCGTACC 59.333 50.000 0.00 0.00 34.00 3.34
3248 3460 3.133721 GGAGCTACATCTGACAATCAGGT 59.866 47.826 6.01 0.00 44.39 4.00
3260 3472 3.016736 ACAATCAGGTAATTTCTGGCCG 58.983 45.455 0.00 0.00 33.36 6.13
3272 3484 5.913137 ATTTCTGGCCGATGAAATTACAA 57.087 34.783 19.12 1.88 39.10 2.41
3380 3592 4.127171 CTGGTACTGCAACTAACAACAGT 58.873 43.478 0.00 0.00 45.02 3.55
3399 3611 8.700973 ACAACAGTATTACAAAGGGAAAACATT 58.299 29.630 0.00 0.00 0.00 2.71
3411 3623 3.265995 GGGAAAACATTCACCTCCCTAGA 59.734 47.826 0.00 0.00 42.25 2.43
3442 3659 1.600636 CGCTATACCGGTCGGGGTA 60.601 63.158 12.40 0.00 46.09 3.69
3467 3696 4.883354 GGGAGGCAAGCCGGATGG 62.883 72.222 5.05 0.00 41.95 3.51
3468 3697 4.115199 GGAGGCAAGCCGGATGGT 62.115 66.667 5.05 0.00 41.95 3.55
3469 3698 2.825836 GAGGCAAGCCGGATGGTG 60.826 66.667 5.05 0.00 41.95 4.17
3472 3701 4.120331 GCAAGCCGGATGGTGCAC 62.120 66.667 11.40 8.80 37.25 4.57
3473 3702 3.443045 CAAGCCGGATGGTGCACC 61.443 66.667 29.67 29.67 37.67 5.01
3493 3722 4.087892 CCACACGGCTAGCAGGCT 62.088 66.667 19.27 0.00 38.85 4.58
3506 3741 2.040009 GCAGGCTATTCTACGGGCCA 62.040 60.000 4.39 0.00 46.23 5.36
3553 3811 3.807209 GCAAGCAAAGGACTCTTCTACCA 60.807 47.826 0.00 0.00 31.82 3.25
3562 3820 3.703921 GACTCTTCTACCAAGGAGTCCT 58.296 50.000 5.62 5.62 44.98 3.85
3576 3834 3.011032 AGGAGTCCTCTAGGTCGGTTTAA 59.989 47.826 5.62 0.00 36.34 1.52
3584 3842 6.894103 TCCTCTAGGTCGGTTTAATACTCTTT 59.106 38.462 0.00 0.00 36.34 2.52
3591 3849 7.388776 AGGTCGGTTTAATACTCTTTTAACCAC 59.611 37.037 0.00 0.00 0.00 4.16
3599 3857 2.441750 ACTCTTTTAACCACAGGCCTCA 59.558 45.455 0.00 0.00 0.00 3.86
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
82 87 0.612732 TCTGTAGGGTACGTGGTGGG 60.613 60.000 0.00 0.00 0.00 4.61
83 88 1.136305 CATCTGTAGGGTACGTGGTGG 59.864 57.143 0.00 0.00 0.00 4.61
84 89 1.822990 ACATCTGTAGGGTACGTGGTG 59.177 52.381 0.00 0.00 0.00 4.17
85 90 2.226962 ACATCTGTAGGGTACGTGGT 57.773 50.000 0.00 0.00 0.00 4.16
86 91 3.705043 GTACATCTGTAGGGTACGTGG 57.295 52.381 0.00 0.00 0.00 4.94
128 156 2.036256 GTGGTGGGGCTTGATGCT 59.964 61.111 0.00 0.00 42.39 3.79
163 191 6.097554 TCTCTGACTCTCTGTTTCTGTTTCTT 59.902 38.462 0.00 0.00 0.00 2.52
374 446 0.467844 TCCCGGCGTATTAGCTACCA 60.468 55.000 6.01 0.00 37.29 3.25
470 543 9.646336 GTAATATAGCAACGTTTAGTCAATTGG 57.354 33.333 5.42 0.00 0.00 3.16
495 568 2.093447 GGCACTACAGGAGCTGTATTGT 60.093 50.000 3.15 0.00 44.49 2.71
496 569 2.169352 AGGCACTACAGGAGCTGTATTG 59.831 50.000 0.00 0.00 44.49 1.90
509 582 0.250166 ACGGTTGTTGGAGGCACTAC 60.250 55.000 0.00 0.00 41.55 2.73
510 583 1.274167 CTACGGTTGTTGGAGGCACTA 59.726 52.381 0.00 0.00 41.55 2.74
511 584 3.320300 CCTACGGTTGTTGGAGGCACT 62.320 57.143 0.00 0.00 42.79 4.40
512 585 0.953960 CCTACGGTTGTTGGAGGCAC 60.954 60.000 0.00 0.00 42.79 5.01
513 586 1.373435 CCTACGGTTGTTGGAGGCA 59.627 57.895 0.00 0.00 42.79 4.75
514 587 0.609662 TACCTACGGTTGTTGGAGGC 59.390 55.000 2.98 0.00 42.79 4.70
515 588 1.619827 TGTACCTACGGTTGTTGGAGG 59.380 52.381 2.98 0.00 42.79 4.30
561 634 1.830279 TCTGGACGTACCACCTACAG 58.170 55.000 0.00 0.00 44.64 2.74
609 685 5.885352 TGACATGACTTCAGAGAAACCAAAA 59.115 36.000 0.00 0.00 0.00 2.44
610 686 5.436175 TGACATGACTTCAGAGAAACCAAA 58.564 37.500 0.00 0.00 0.00 3.28
617 693 4.159321 GGTCTCATGACATGACTTCAGAGA 59.841 45.833 14.24 5.70 44.61 3.10
693 769 3.131396 GCAATATAGTAGTGCTGCCGTT 58.869 45.455 0.00 0.00 45.44 4.44
706 782 3.386768 ACTACCACCGCTGCAATATAG 57.613 47.619 0.00 0.00 0.00 1.31
774 850 1.650825 GCTTTCTCTGCTACTCCTGC 58.349 55.000 0.00 0.00 0.00 4.85
948 1028 2.026822 CACCAGTGCACTATCCTCCTTT 60.027 50.000 21.20 0.00 0.00 3.11
1167 1253 1.188219 AGCTCTTCTTGCCTCCGACA 61.188 55.000 0.00 0.00 0.00 4.35
1309 1399 3.466395 AGGAGAGGTAGCAGAGAAAGT 57.534 47.619 0.00 0.00 0.00 2.66
1321 1411 4.104738 TGGAAACATTCAGAAAGGAGAGGT 59.895 41.667 0.00 0.00 33.40 3.85
1322 1412 4.655963 TGGAAACATTCAGAAAGGAGAGG 58.344 43.478 0.00 0.00 33.40 3.69
1400 1490 1.218316 GGACTGGTGGTGTCCGATC 59.782 63.158 0.00 0.00 43.55 3.69
1406 1496 3.068881 CCGATGGACTGGTGGTGT 58.931 61.111 0.00 0.00 0.00 4.16
1436 1526 2.579787 CGGCTCGCGTCCTTGTAG 60.580 66.667 5.77 0.00 0.00 2.74
1437 1527 4.124351 CCGGCTCGCGTCCTTGTA 62.124 66.667 5.77 0.00 0.00 2.41
1763 1853 3.849953 GCCGTTCACCGCATCGAC 61.850 66.667 0.00 0.00 34.38 4.20
1798 1888 2.424956 GGAAATGGGACTGCAGATTGTC 59.575 50.000 23.35 8.12 0.00 3.18
1804 1894 1.942657 CATACGGAAATGGGACTGCAG 59.057 52.381 13.48 13.48 0.00 4.41
1809 1899 4.625742 CGACATATCATACGGAAATGGGAC 59.374 45.833 0.00 0.00 0.00 4.46
1814 1904 4.627058 TGCACGACATATCATACGGAAAT 58.373 39.130 0.00 0.00 0.00 2.17
1829 1919 2.224079 TCAGCTTTGATTCTTGCACGAC 59.776 45.455 0.00 0.00 0.00 4.34
1868 1958 4.887987 GCTCCTCGCAGCGCTGAT 62.888 66.667 40.21 0.17 38.92 2.90
2058 2158 8.997323 GGAGTATAAAAGATGTTGATCCATGAG 58.003 37.037 0.00 0.00 0.00 2.90
2160 2320 4.614475 TGAGACCTCCTGTTGATGTAGAT 58.386 43.478 0.00 0.00 0.00 1.98
2215 2377 4.991776 TGGTAGGACAAATGGACAATCAA 58.008 39.130 0.00 0.00 0.00 2.57
2255 2421 4.635765 GCTATGCCATCAGTAGTTGAACAA 59.364 41.667 0.00 0.00 39.77 2.83
2270 2436 9.979999 ATGACCTGTTATCATTTGGCTATGCCA 62.980 40.741 7.24 7.24 44.52 4.92
2412 2578 4.666655 CGCTCGGTGTTAAAATCTCACAAG 60.667 45.833 0.00 0.00 34.27 3.16
2662 2828 2.952978 ACTACCGACTCCAGCTTATCTG 59.047 50.000 0.00 0.00 42.49 2.90
2892 3070 7.832503 ATTATTTGCACTAAAGGCACATTTC 57.167 32.000 0.00 0.00 41.75 2.17
2905 3093 6.373774 CCAGTCTTCTCTCAATTATTTGCACT 59.626 38.462 0.00 0.00 32.61 4.40
2913 3101 6.634805 CAACTAGCCAGTCTTCTCTCAATTA 58.365 40.000 0.00 0.00 32.29 1.40
2929 3117 0.391793 GAGGTGTGGAGCAACTAGCC 60.392 60.000 0.00 0.00 46.91 3.93
2930 3118 0.610687 AGAGGTGTGGAGCAACTAGC 59.389 55.000 0.00 0.00 46.91 3.42
2946 3134 0.918983 TTTGCCCCCACAGGATAGAG 59.081 55.000 0.00 0.00 38.24 2.43
2948 3136 0.625849 AGTTTGCCCCCACAGGATAG 59.374 55.000 0.00 0.00 38.24 2.08
2978 3166 5.833131 TGGCATGGAAGAGAAAACTAACTTT 59.167 36.000 0.00 0.00 0.00 2.66
3005 3193 1.466167 CTGCTGGTGCACATGTAGAAC 59.534 52.381 20.43 0.00 45.31 3.01
3030 3218 4.946160 TTCTCCATAAACAACCCCTCAT 57.054 40.909 0.00 0.00 0.00 2.90
3031 3219 4.662278 CTTTCTCCATAAACAACCCCTCA 58.338 43.478 0.00 0.00 0.00 3.86
3032 3220 3.444034 GCTTTCTCCATAAACAACCCCTC 59.556 47.826 0.00 0.00 0.00 4.30
3033 3221 3.181423 TGCTTTCTCCATAAACAACCCCT 60.181 43.478 0.00 0.00 0.00 4.79
3035 3223 4.381932 CCATGCTTTCTCCATAAACAACCC 60.382 45.833 0.00 0.00 0.00 4.11
3132 3342 3.876320 GAGCCAATTTTGCCACAAAAGAA 59.124 39.130 10.81 0.00 0.00 2.52
3173 3385 3.492102 AGTAAGCAACTCAGAAAGCCA 57.508 42.857 0.00 0.00 30.33 4.75
3204 3416 4.202030 CCAAGTGTCTAGATTCTCCGGTAC 60.202 50.000 0.00 0.00 0.00 3.34
3208 3420 3.490078 GCTCCAAGTGTCTAGATTCTCCG 60.490 52.174 0.00 0.00 0.00 4.63
3248 3460 7.397892 TTGTAATTTCATCGGCCAGAAATTA 57.602 32.000 27.19 27.19 46.73 1.40
3260 3472 6.529125 CACCATGACTTGCTTGTAATTTCATC 59.471 38.462 0.00 0.00 0.00 2.92
3272 3484 2.154139 TGGGTCACCATGACTTGCT 58.846 52.632 8.75 0.00 46.19 3.91
3377 3589 7.812669 GGTGAATGTTTTCCCTTTGTAATACTG 59.187 37.037 0.00 0.00 0.00 2.74
3380 3592 7.177744 GGAGGTGAATGTTTTCCCTTTGTAATA 59.822 37.037 0.00 0.00 34.55 0.98
3399 3611 3.487372 CGTCATGTATCTAGGGAGGTGA 58.513 50.000 0.00 0.00 0.00 4.02
3411 3623 2.352421 GGTATAGCGCACCGTCATGTAT 60.352 50.000 11.47 0.00 0.00 2.29
3442 3659 3.382832 CTTGCCTCCCGACGGACT 61.383 66.667 17.49 0.00 33.32 3.85
3481 3710 1.401670 CGTAGAATAGCCTGCTAGCCG 60.402 57.143 13.29 5.57 31.45 5.52
3506 3741 1.404391 CTAGACGCTACATTGGTCGGT 59.596 52.381 0.00 0.00 35.87 4.69
3553 3811 1.001282 ACCGACCTAGAGGACTCCTT 58.999 55.000 1.60 0.00 38.94 3.36
3562 3820 9.860898 GTTAAAAGAGTATTAAACCGACCTAGA 57.139 33.333 0.00 0.00 0.00 2.43
3576 3834 4.288626 TGAGGCCTGTGGTTAAAAGAGTAT 59.711 41.667 12.00 0.00 0.00 2.12
3584 3842 1.559682 GAGGATGAGGCCTGTGGTTAA 59.440 52.381 12.00 0.00 38.73 2.01
3591 3849 4.904241 CTTATAAAGGAGGATGAGGCCTG 58.096 47.826 12.00 0.00 38.73 4.85


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

AutoCloner maintained by Alex Coulton.