Multiple sequence alignment - TraesCS3D01G242500

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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 TraesCS3D01G242500 chr3D 100.000 4369 0 0 1 4369 337977012 337972644 0.000000e+00 8069.0
1 TraesCS3D01G242500 chr3D 88.281 128 15 0 2406 2533 308057873 308057746 2.100000e-33 154.0
2 TraesCS3D01G242500 chr3D 84.746 59 7 2 2707 2764 454510142 454510199 1.700000e-04 58.4
3 TraesCS3D01G242500 chr3B 93.510 4407 120 64 15 4369 435961904 435957612 0.000000e+00 6401.0
4 TraesCS3D01G242500 chr3B 89.844 128 13 0 2406 2533 413419083 413419210 9.720000e-37 165.0
5 TraesCS3D01G242500 chr3B 84.746 59 7 2 2707 2764 597089662 597089719 1.700000e-04 58.4
6 TraesCS3D01G242500 chr3A 94.386 2939 82 36 1480 4369 455804721 455801817 0.000000e+00 4436.0
7 TraesCS3D01G242500 chr3A 93.067 750 21 11 1 733 455806441 455805706 0.000000e+00 1068.0
8 TraesCS3D01G242500 chr3A 94.707 529 10 6 957 1485 455805284 455804774 0.000000e+00 806.0
9 TraesCS3D01G242500 chr3A 95.122 164 4 2 771 930 455805711 455805548 5.610000e-64 255.0
10 TraesCS3D01G242500 chr3A 89.844 128 13 0 2406 2533 427333265 427333138 9.720000e-37 165.0
11 TraesCS3D01G242500 chr3A 86.441 59 6 2 2707 2764 596515549 596515606 3.650000e-06 63.9
12 TraesCS3D01G242500 chr1A 91.946 149 8 4 2385 2532 565293956 565294101 5.730000e-49 206.0
13 TraesCS3D01G242500 chr1B 93.431 137 7 2 2397 2532 654716318 654716453 7.410000e-48 202.0
14 TraesCS3D01G242500 chr1B 85.612 139 14 6 2397 2532 669710471 669710336 1.640000e-29 141.0
15 TraesCS3D01G242500 chr1D 90.511 137 11 2 2397 2532 471001666 471001801 3.470000e-41 180.0
16 TraesCS3D01G242500 chr2D 100.000 28 0 0 2737 2764 425216036 425216009 8.000000e-03 52.8
17 TraesCS3D01G242500 chr2B 100.000 28 0 0 2737 2764 500590452 500590425 8.000000e-03 52.8
18 TraesCS3D01G242500 chr2A 100.000 28 0 0 2737 2764 562984804 562984831 8.000000e-03 52.8


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 TraesCS3D01G242500 chr3D 337972644 337977012 4368 True 8069.00 8069 100.0000 1 4369 1 chr3D.!!$R2 4368
1 TraesCS3D01G242500 chr3B 435957612 435961904 4292 True 6401.00 6401 93.5100 15 4369 1 chr3B.!!$R1 4354
2 TraesCS3D01G242500 chr3A 455801817 455806441 4624 True 1641.25 4436 94.3205 1 4369 4 chr3A.!!$R2 4368

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
954 981 0.114364 GATCCCTCTCCTCCTCCCTC 59.886 65.000 0.0 0.0 0.0 4.30 F
1037 1302 0.543277 TATCTCCCACAGGCAGCAAG 59.457 55.000 0.0 0.0 0.0 4.01 F
1592 1917 1.143684 TGCCTCTGGTTCTTTTCTGCT 59.856 47.619 0.0 0.0 0.0 4.24 F
2381 2720 0.326264 ATCTTTTCAGGTCTGCGGCT 59.674 50.000 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
1936 2266 1.294041 TGACAAGATGGGGCCATACA 58.706 50.000 4.39 0.0 36.70 2.29 R
2094 2424 2.344872 CTGGCCTTTTTGCTGCCC 59.655 61.111 3.32 0.0 44.72 5.36 R
3168 3535 0.907704 TACGGTGATGAGGGCTGGTT 60.908 55.000 0.00 0.0 0.00 3.67 R
4189 4586 0.393402 AGTCATGCATCACCGCACAT 60.393 50.000 0.00 0.0 46.56 3.21 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
465 478 8.067784 CCATTACATTACAAATTACGGTGCTAG 58.932 37.037 0.00 0.00 0.00 3.42
658 676 1.363807 GGGCCCAATCAATTAGCGC 59.636 57.895 19.95 0.00 0.00 5.92
678 696 3.611986 CGCTTGTTTCTTTCACAAAAGCA 59.388 39.130 0.00 0.00 41.44 3.91
748 769 4.320023 TCTCTCTATACATCACCGCTCTC 58.680 47.826 0.00 0.00 0.00 3.20
749 770 4.041075 TCTCTCTATACATCACCGCTCTCT 59.959 45.833 0.00 0.00 0.00 3.10
750 771 4.320023 TCTCTATACATCACCGCTCTCTC 58.680 47.826 0.00 0.00 0.00 3.20
751 772 4.041075 TCTCTATACATCACCGCTCTCTCT 59.959 45.833 0.00 0.00 0.00 3.10
752 773 4.320023 TCTATACATCACCGCTCTCTCTC 58.680 47.826 0.00 0.00 0.00 3.20
753 774 2.719531 TACATCACCGCTCTCTCTCT 57.280 50.000 0.00 0.00 0.00 3.10
754 775 1.388547 ACATCACCGCTCTCTCTCTC 58.611 55.000 0.00 0.00 0.00 3.20
755 776 1.064758 ACATCACCGCTCTCTCTCTCT 60.065 52.381 0.00 0.00 0.00 3.10
756 777 1.603802 CATCACCGCTCTCTCTCTCTC 59.396 57.143 0.00 0.00 0.00 3.20
757 778 0.908910 TCACCGCTCTCTCTCTCTCT 59.091 55.000 0.00 0.00 0.00 3.10
758 779 1.134521 TCACCGCTCTCTCTCTCTCTC 60.135 57.143 0.00 0.00 0.00 3.20
759 780 1.134401 CACCGCTCTCTCTCTCTCTCT 60.134 57.143 0.00 0.00 0.00 3.10
760 781 1.139058 ACCGCTCTCTCTCTCTCTCTC 59.861 57.143 0.00 0.00 0.00 3.20
761 782 1.414181 CCGCTCTCTCTCTCTCTCTCT 59.586 57.143 0.00 0.00 0.00 3.10
762 783 2.546795 CCGCTCTCTCTCTCTCTCTCTC 60.547 59.091 0.00 0.00 0.00 3.20
763 784 2.363680 CGCTCTCTCTCTCTCTCTCTCT 59.636 54.545 0.00 0.00 0.00 3.10
764 785 3.551863 CGCTCTCTCTCTCTCTCTCTCTC 60.552 56.522 0.00 0.00 0.00 3.20
765 786 3.640967 GCTCTCTCTCTCTCTCTCTCTCT 59.359 52.174 0.00 0.00 0.00 3.10
766 787 4.261994 GCTCTCTCTCTCTCTCTCTCTCTC 60.262 54.167 0.00 0.00 0.00 3.20
767 788 5.136068 TCTCTCTCTCTCTCTCTCTCTCT 57.864 47.826 0.00 0.00 0.00 3.10
768 789 5.136828 TCTCTCTCTCTCTCTCTCTCTCTC 58.863 50.000 0.00 0.00 0.00 3.20
769 790 5.103728 TCTCTCTCTCTCTCTCTCTCTCTCT 60.104 48.000 0.00 0.00 0.00 3.10
788 809 4.971282 TCTCTCTCTCTCTCTCTGAATCCT 59.029 45.833 0.00 0.00 0.00 3.24
830 853 1.000270 TCCCTCTCGCTCTCTTGCT 60.000 57.895 0.00 0.00 0.00 3.91
954 981 0.114364 GATCCCTCTCCTCCTCCCTC 59.886 65.000 0.00 0.00 0.00 4.30
1006 1270 3.733988 CGCCAAGAACAATCGAGCTACTA 60.734 47.826 0.00 0.00 0.00 1.82
1011 1275 3.762288 AGAACAATCGAGCTACTACACCA 59.238 43.478 0.00 0.00 0.00 4.17
1012 1276 4.402793 AGAACAATCGAGCTACTACACCAT 59.597 41.667 0.00 0.00 0.00 3.55
1013 1277 4.308899 ACAATCGAGCTACTACACCATC 57.691 45.455 0.00 0.00 0.00 3.51
1014 1278 3.243101 ACAATCGAGCTACTACACCATCG 60.243 47.826 0.00 0.00 0.00 3.84
1037 1302 0.543277 TATCTCCCACAGGCAGCAAG 59.457 55.000 0.00 0.00 0.00 4.01
1485 1750 5.649831 AGTTGGACTGCATTAATTTCTCTCC 59.350 40.000 0.00 0.00 0.00 3.71
1570 1895 5.338381 CCTTCTGACTGCCTAATCTGGTTAA 60.338 44.000 0.00 0.00 0.00 2.01
1579 1904 4.446371 CCTAATCTGGTTAACTGCCTCTG 58.554 47.826 5.42 0.00 0.00 3.35
1591 1916 1.538950 CTGCCTCTGGTTCTTTTCTGC 59.461 52.381 0.00 0.00 0.00 4.26
1592 1917 1.143684 TGCCTCTGGTTCTTTTCTGCT 59.856 47.619 0.00 0.00 0.00 4.24
1593 1918 1.538950 GCCTCTGGTTCTTTTCTGCTG 59.461 52.381 0.00 0.00 0.00 4.41
1594 1919 1.538950 CCTCTGGTTCTTTTCTGCTGC 59.461 52.381 0.00 0.00 0.00 5.25
1618 1943 1.473258 TTGGATCAAGATTTGGGGCG 58.527 50.000 0.00 0.00 0.00 6.13
1794 2120 7.500227 CCTCAGCCTGACAATCAAGAATAAATA 59.500 37.037 0.00 0.00 0.00 1.40
1795 2121 8.806429 TCAGCCTGACAATCAAGAATAAATAA 57.194 30.769 0.00 0.00 0.00 1.40
1796 2122 9.412460 TCAGCCTGACAATCAAGAATAAATAAT 57.588 29.630 0.00 0.00 0.00 1.28
1935 2265 4.191804 TCATTTTTCTTCTTCCACCCCA 57.808 40.909 0.00 0.00 0.00 4.96
1936 2266 4.750941 TCATTTTTCTTCTTCCACCCCAT 58.249 39.130 0.00 0.00 0.00 4.00
1937 2267 4.527816 TCATTTTTCTTCTTCCACCCCATG 59.472 41.667 0.00 0.00 0.00 3.66
1938 2268 3.611025 TTTTCTTCTTCCACCCCATGT 57.389 42.857 0.00 0.00 0.00 3.21
2068 2398 6.625362 CAACCTATCATATGTACGCATCTCT 58.375 40.000 1.90 0.00 36.58 3.10
2094 2424 4.879197 AAATCCAAAGAGCAGAAAAGGG 57.121 40.909 0.00 0.00 0.00 3.95
2381 2720 0.326264 ATCTTTTCAGGTCTGCGGCT 59.674 50.000 0.00 0.00 0.00 5.52
2599 2957 3.550030 GCATGGGCGATTTTGGTATGTAC 60.550 47.826 0.00 0.00 0.00 2.90
2672 3033 1.035932 GGTGCAGGAGCTACTACCGA 61.036 60.000 0.00 0.00 42.74 4.69
2705 3066 3.706594 AGAAGTGTGTGGTGAAGAAGAGA 59.293 43.478 0.00 0.00 0.00 3.10
2789 3150 4.144727 ATCCCCTCCGCTCTCCGT 62.145 66.667 0.00 0.00 34.38 4.69
3166 3533 2.103143 CGGCGGCAACAACAACAA 59.897 55.556 10.53 0.00 0.00 2.83
3167 3534 2.227568 CGGCGGCAACAACAACAAC 61.228 57.895 10.53 0.00 0.00 3.32
3168 3535 1.153745 GGCGGCAACAACAACAACA 60.154 52.632 3.07 0.00 0.00 3.33
3529 3901 5.583457 TGCATGCATGAGCTATATGTATGAC 59.417 40.000 29.25 23.05 45.56 3.06
3571 3943 2.158711 TCTCCTGGCTCCATTAATGCAG 60.159 50.000 10.11 5.94 0.00 4.41
3711 4088 3.932710 GGCAAGAAGATCGATGTACAACA 59.067 43.478 0.54 0.00 0.00 3.33
3728 4114 4.911390 ACAACAATCTTGGCTAGCTAACT 58.089 39.130 15.72 0.00 0.00 2.24
3729 4115 5.316987 ACAACAATCTTGGCTAGCTAACTT 58.683 37.500 15.72 6.39 0.00 2.66
3730 4116 5.182001 ACAACAATCTTGGCTAGCTAACTTG 59.818 40.000 20.74 20.74 0.00 3.16
3817 4203 0.668535 GAGGGTCGTTTTGCTGCTTT 59.331 50.000 0.00 0.00 0.00 3.51
3818 4204 1.067060 GAGGGTCGTTTTGCTGCTTTT 59.933 47.619 0.00 0.00 0.00 2.27
4001 4393 6.007076 TGGTGCAAGATTAAACTTGGATGTA 58.993 36.000 22.43 10.59 46.27 2.29
4002 4394 6.150976 TGGTGCAAGATTAAACTTGGATGTAG 59.849 38.462 22.43 1.11 46.27 2.74
4003 4395 6.404734 GGTGCAAGATTAAACTTGGATGTAGG 60.405 42.308 22.43 0.48 46.27 3.18
4004 4396 6.374333 GTGCAAGATTAAACTTGGATGTAGGA 59.626 38.462 22.43 0.00 46.27 2.94
4005 4397 6.599244 TGCAAGATTAAACTTGGATGTAGGAG 59.401 38.462 22.43 0.00 44.87 3.69
4006 4398 6.599638 GCAAGATTAAACTTGGATGTAGGAGT 59.400 38.462 22.43 0.00 44.87 3.85
4037 4429 1.365699 GATGCACGTTACGGTCCATT 58.634 50.000 10.20 0.00 0.00 3.16
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
227 235 3.222855 CTCTGCGCCCTCCGATCT 61.223 66.667 4.18 0.00 40.02 2.75
246 254 1.419874 GCTGCGTGATCTCTGCTCAC 61.420 60.000 11.06 0.00 39.69 3.51
247 255 1.153686 GCTGCGTGATCTCTGCTCA 60.154 57.895 11.06 0.00 0.00 4.26
318 330 2.891941 TTCAGACGGATGGGGCATGC 62.892 60.000 9.90 9.90 0.00 4.06
368 380 1.898154 GGTAGCCGGTCACATGTCT 59.102 57.895 1.90 0.00 0.00 3.41
369 381 1.518572 CGGTAGCCGGTCACATGTC 60.519 63.158 1.90 0.00 44.15 3.06
500 517 0.173708 AGCTAGCTACAACACCGAGC 59.826 55.000 17.69 0.00 36.42 5.03
502 519 2.022195 CCTAGCTAGCTACAACACCGA 58.978 52.381 20.67 0.00 0.00 4.69
577 594 1.423921 TCTTCCCCACTCCTTTGGTTC 59.576 52.381 0.00 0.00 34.44 3.62
658 676 5.446340 GGCTTGCTTTTGTGAAAGAAACAAG 60.446 40.000 3.25 7.79 44.03 3.16
678 696 3.574354 TTTCCATTGGCTTTTTGGCTT 57.426 38.095 0.00 0.00 42.34 4.35
707 728 2.944390 GGGGATGGTTGGGTGGGA 60.944 66.667 0.00 0.00 0.00 4.37
748 769 5.139727 AGAGAGAGAGAGAGAGAGAGAGAG 58.860 50.000 0.00 0.00 0.00 3.20
749 770 5.103728 AGAGAGAGAGAGAGAGAGAGAGAGA 60.104 48.000 0.00 0.00 0.00 3.10
750 771 5.139727 AGAGAGAGAGAGAGAGAGAGAGAG 58.860 50.000 0.00 0.00 0.00 3.20
751 772 5.103728 AGAGAGAGAGAGAGAGAGAGAGAGA 60.104 48.000 0.00 0.00 0.00 3.10
752 773 5.139727 AGAGAGAGAGAGAGAGAGAGAGAG 58.860 50.000 0.00 0.00 0.00 3.20
753 774 5.103728 AGAGAGAGAGAGAGAGAGAGAGAGA 60.104 48.000 0.00 0.00 0.00 3.10
754 775 5.139727 AGAGAGAGAGAGAGAGAGAGAGAG 58.860 50.000 0.00 0.00 0.00 3.20
755 776 5.103728 AGAGAGAGAGAGAGAGAGAGAGAGA 60.104 48.000 0.00 0.00 0.00 3.10
756 777 5.139727 AGAGAGAGAGAGAGAGAGAGAGAG 58.860 50.000 0.00 0.00 0.00 3.20
757 778 5.103728 AGAGAGAGAGAGAGAGAGAGAGAGA 60.104 48.000 0.00 0.00 0.00 3.10
758 779 5.009911 CAGAGAGAGAGAGAGAGAGAGAGAG 59.990 52.000 0.00 0.00 0.00 3.20
759 780 4.892345 CAGAGAGAGAGAGAGAGAGAGAGA 59.108 50.000 0.00 0.00 0.00 3.10
760 781 4.892345 TCAGAGAGAGAGAGAGAGAGAGAG 59.108 50.000 0.00 0.00 0.00 3.20
761 782 4.871822 TCAGAGAGAGAGAGAGAGAGAGA 58.128 47.826 0.00 0.00 0.00 3.10
762 783 5.604758 TTCAGAGAGAGAGAGAGAGAGAG 57.395 47.826 0.00 0.00 0.00 3.20
763 784 5.070981 GGATTCAGAGAGAGAGAGAGAGAGA 59.929 48.000 0.00 0.00 0.00 3.10
764 785 5.071519 AGGATTCAGAGAGAGAGAGAGAGAG 59.928 48.000 0.00 0.00 0.00 3.20
765 786 4.971282 AGGATTCAGAGAGAGAGAGAGAGA 59.029 45.833 0.00 0.00 0.00 3.10
766 787 5.163269 TGAGGATTCAGAGAGAGAGAGAGAG 60.163 48.000 0.00 0.00 0.00 3.20
767 788 4.721274 TGAGGATTCAGAGAGAGAGAGAGA 59.279 45.833 0.00 0.00 0.00 3.10
768 789 5.039920 TGAGGATTCAGAGAGAGAGAGAG 57.960 47.826 0.00 0.00 0.00 3.20
769 790 5.191522 TCTTGAGGATTCAGAGAGAGAGAGA 59.808 44.000 0.00 0.00 34.15 3.10
830 853 3.856309 AGCGAGAGGTGTGTGTGA 58.144 55.556 0.00 0.00 42.35 3.58
954 981 1.094785 CTGTGGGCTTATGAAACGGG 58.905 55.000 0.00 0.00 0.00 5.28
1006 1270 2.894126 GTGGGAGATAGATCGATGGTGT 59.106 50.000 0.54 0.00 0.00 4.16
1011 1275 2.175202 GCCTGTGGGAGATAGATCGAT 58.825 52.381 0.00 0.00 33.58 3.59
1012 1276 1.133482 TGCCTGTGGGAGATAGATCGA 60.133 52.381 0.00 0.00 33.58 3.59
1013 1277 1.271934 CTGCCTGTGGGAGATAGATCG 59.728 57.143 0.00 0.00 44.17 3.69
1014 1278 1.001860 GCTGCCTGTGGGAGATAGATC 59.998 57.143 9.30 0.00 44.17 2.75
1434 1699 0.318441 TCTTGCTCTTGTCACCCTCG 59.682 55.000 0.00 0.00 0.00 4.63
1485 1750 4.811555 TCAAGACACGGAAAATCACAAG 57.188 40.909 0.00 0.00 0.00 3.16
1570 1895 2.856222 CAGAAAAGAACCAGAGGCAGT 58.144 47.619 0.00 0.00 0.00 4.40
1579 1904 4.346129 CAATATCGCAGCAGAAAAGAACC 58.654 43.478 0.00 0.00 0.00 3.62
1591 1916 5.335426 CCCAAATCTTGATCCAATATCGCAG 60.335 44.000 0.00 0.00 0.00 5.18
1592 1917 4.520111 CCCAAATCTTGATCCAATATCGCA 59.480 41.667 0.00 0.00 0.00 5.10
1593 1918 4.082571 CCCCAAATCTTGATCCAATATCGC 60.083 45.833 0.00 0.00 0.00 4.58
1594 1919 4.082571 GCCCCAAATCTTGATCCAATATCG 60.083 45.833 0.00 0.00 0.00 2.92
1618 1943 1.943340 CAAGGAAGCGAAATCTAGCCC 59.057 52.381 0.00 0.00 0.00 5.19
1757 2083 2.490217 GCTGAGGCATGCAAGCTG 59.510 61.111 24.12 15.48 38.54 4.24
1817 2143 5.788450 AGAGTTCAAGACACGAAATCAGAT 58.212 37.500 0.00 0.00 39.34 2.90
1935 2265 1.852309 TGACAAGATGGGGCCATACAT 59.148 47.619 4.39 5.70 36.70 2.29
1936 2266 1.294041 TGACAAGATGGGGCCATACA 58.706 50.000 4.39 0.00 36.70 2.29
1937 2267 2.435372 TTGACAAGATGGGGCCATAC 57.565 50.000 4.39 0.00 36.70 2.39
1938 2268 3.464720 TTTTGACAAGATGGGGCCATA 57.535 42.857 4.39 0.00 36.70 2.74
2068 2398 6.239120 CCTTTTCTGCTCTTTGGATTTTCTGA 60.239 38.462 0.00 0.00 0.00 3.27
2094 2424 2.344872 CTGGCCTTTTTGCTGCCC 59.655 61.111 3.32 0.00 44.72 5.36
2599 2957 4.037684 ACATAATCGTTCTTCGTCCCTAGG 59.962 45.833 0.06 0.06 40.80 3.02
2705 3066 2.915659 TGGAACGACCGCTCCACT 60.916 61.111 10.14 0.00 42.61 4.00
3166 3533 1.380302 GGTGATGAGGGCTGGTTGT 59.620 57.895 0.00 0.00 0.00 3.32
3167 3534 1.746615 CGGTGATGAGGGCTGGTTG 60.747 63.158 0.00 0.00 0.00 3.77
3168 3535 0.907704 TACGGTGATGAGGGCTGGTT 60.908 55.000 0.00 0.00 0.00 3.67
3231 3598 3.318839 CAGCAAGAACCAACCAAATCTCA 59.681 43.478 0.00 0.00 0.00 3.27
3413 3781 4.523173 ACTGCTAGTACACTGACTGCTAAA 59.477 41.667 0.00 0.00 0.00 1.85
3418 3788 4.775058 AGAACTGCTAGTACACTGACTG 57.225 45.455 0.00 0.00 0.00 3.51
3529 3901 6.404074 GGAGAGACACAAGGAGCATAAAATTG 60.404 42.308 0.00 0.00 0.00 2.32
3571 3943 5.991606 TGGATATGTGCATTCTTAGTACTGC 59.008 40.000 5.39 0.04 35.21 4.40
3711 4088 5.316987 ACAACAAGTTAGCTAGCCAAGATT 58.683 37.500 12.13 0.00 0.00 2.40
3728 4114 2.333688 TCACGGGTTCATGACAACAA 57.666 45.000 0.00 0.00 0.00 2.83
3729 4115 2.150390 CATCACGGGTTCATGACAACA 58.850 47.619 0.00 0.00 0.00 3.33
3730 4116 1.468520 CCATCACGGGTTCATGACAAC 59.531 52.381 0.00 0.00 0.00 3.32
3817 4203 6.017109 GTGATCACTACCTGCAAGAAAGAAAA 60.017 38.462 18.83 0.00 34.07 2.29
3818 4204 5.470098 GTGATCACTACCTGCAAGAAAGAAA 59.530 40.000 18.83 0.00 34.07 2.52
3881 4271 2.554462 TGATATCTACACCAGCTCGCTC 59.446 50.000 3.98 0.00 0.00 5.03
4001 4393 2.621055 GCATCGATCAGTGACTACTCCT 59.379 50.000 0.00 0.00 34.07 3.69
4002 4394 2.359214 TGCATCGATCAGTGACTACTCC 59.641 50.000 0.00 0.00 34.07 3.85
4003 4395 3.367607 GTGCATCGATCAGTGACTACTC 58.632 50.000 0.00 0.00 34.07 2.59
4004 4396 2.223363 CGTGCATCGATCAGTGACTACT 60.223 50.000 0.00 0.00 42.86 2.57
4005 4397 2.112522 CGTGCATCGATCAGTGACTAC 58.887 52.381 0.00 0.00 42.86 2.73
4006 4398 1.743394 ACGTGCATCGATCAGTGACTA 59.257 47.619 14.18 0.00 42.86 2.59
4037 4429 5.606505 TGCATACGTATAATTCAGGCAGAA 58.393 37.500 7.96 0.00 41.28 3.02
4189 4586 0.393402 AGTCATGCATCACCGCACAT 60.393 50.000 0.00 0.00 46.56 3.21


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

AutoCloner maintained by Alex Coulton.