Multiple sequence alignment - TraesCS7D01G509300

Loading Multiple Alignment...

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 TraesCS7D01G509300 chr7D 100.000 5523 0 0 1 5523 612888602 612894124 0.000000e+00 10200.0
1 TraesCS7D01G509300 chr7D 100.000 28 0 0 5235 5262 612893788 612893815 1.000000e-02 52.8
2 TraesCS7D01G509300 chr7D 100.000 28 0 0 5187 5214 612893836 612893863 1.000000e-02 52.8
3 TraesCS7D01G509300 chr7B 95.122 3239 105 31 1750 4968 702321441 702324646 0.000000e+00 5057.0
4 TraesCS7D01G509300 chr7B 93.319 943 46 6 816 1741 702320416 702321358 0.000000e+00 1376.0
5 TraesCS7D01G509300 chr7B 89.976 828 48 20 3 812 702319573 702320383 0.000000e+00 1037.0
6 TraesCS7D01G509300 chr7B 92.118 406 21 3 5119 5523 702324837 702325232 3.740000e-156 562.0
7 TraesCS7D01G509300 chr7B 86.788 386 26 9 4466 4846 702390636 702391001 1.850000e-109 407.0
8 TraesCS7D01G509300 chr7B 79.963 534 32 27 5047 5523 702428054 702428569 1.920000e-84 324.0
9 TraesCS7D01G509300 chr7B 80.992 121 14 7 4974 5085 702324724 702324844 2.740000e-13 87.9
10 TraesCS7D01G509300 chr7B 100.000 28 0 0 5235 5262 702324905 702324932 1.000000e-02 52.8
11 TraesCS7D01G509300 chr7B 94.286 35 1 1 5181 5214 702324946 702324980 1.000000e-02 52.8
12 TraesCS7D01G509300 chr7A 94.605 2669 102 16 819 3460 704270821 704273474 0.000000e+00 4093.0
13 TraesCS7D01G509300 chr7A 92.424 1650 55 18 3450 5061 704273615 704275232 0.000000e+00 2290.0
14 TraesCS7D01G509300 chr7A 90.855 667 45 12 163 818 704270044 704270705 0.000000e+00 880.0
15 TraesCS7D01G509300 chr7A 96.886 289 9 0 5235 5523 704275502 704275790 8.320000e-133 484.0
16 TraesCS7D01G509300 chr7A 97.403 154 4 0 5061 5214 704275376 704275529 4.240000e-66 263.0
17 TraesCS7D01G509300 chr7A 95.122 164 8 0 2 165 704269774 704269937 5.490000e-65 259.0
18 TraesCS7D01G509300 chrUn 87.619 105 12 1 2578 2681 196936472 196936576 2.700000e-23 121.0
19 TraesCS7D01G509300 chrUn 86.667 105 13 1 2578 2681 196962254 196962358 1.260000e-21 115.0
20 TraesCS7D01G509300 chr6B 80.180 111 12 7 2052 2152 471050752 471050642 2.130000e-09 75.0


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 TraesCS7D01G509300 chr7D 612888602 612894124 5522 False 3435.200000 10200 100.000000 1 5523 3 chr7D.!!$F1 5522
1 TraesCS7D01G509300 chr7B 702319573 702325232 5659 False 1175.071429 5057 92.259000 3 5523 7 chr7B.!!$F3 5520
2 TraesCS7D01G509300 chr7B 702428054 702428569 515 False 324.000000 324 79.963000 5047 5523 1 chr7B.!!$F2 476
3 TraesCS7D01G509300 chr7A 704269774 704275790 6016 False 1378.166667 4093 94.549167 2 5523 6 chr7A.!!$F1 5521

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
127 134 1.075536 GAAAGTCCATGGTCCACCCTT 59.924 52.381 12.58 0.0 34.29 3.95 F
829 1071 1.273327 TGAGCAGTGAGAGCGAAATGA 59.727 47.619 0.00 0.0 37.01 2.57 F
1941 2279 1.405105 GTTTTGCTCTGCTTGACCACA 59.595 47.619 0.00 0.0 0.00 4.17 F
1976 2314 0.604780 ACAGCCATCACAGTCACAGC 60.605 55.000 0.00 0.0 0.00 4.40 F
2144 2484 0.670854 GTTGCCGAACAGAGACCCTC 60.671 60.000 0.00 0.0 31.78 4.30 F
2746 3089 1.197721 GTGCCCTTCGTTGATGTTCTG 59.802 52.381 0.00 0.0 0.00 3.02 F
4411 4924 0.250295 TGCTTTTGTGTCCTCTCCCG 60.250 55.000 0.00 0.0 0.00 5.14 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1609 1873 0.179127 ACATGACTCATGACGGCGAG 60.179 55.000 23.3 1.55 43.81 5.03 R
1960 2298 1.066573 AGTAGCTGTGACTGTGATGGC 60.067 52.381 0.0 0.00 0.00 4.40 R
3676 4170 2.525368 GGCCATACTGGACCAAAAACT 58.475 47.619 0.0 0.00 40.64 2.66 R
3826 4328 4.142093 CCATATCCAACTGAAGCCCAAAAG 60.142 45.833 0.0 0.00 0.00 2.27 R
4122 4629 0.749454 GCACATCCCGCTCCTCATTT 60.749 55.000 0.0 0.00 0.00 2.32 R
4474 4989 0.868406 GTCCAAACTTCTGCTCCACG 59.132 55.000 0.0 0.00 0.00 4.94 R
5375 6177 0.472044 TGGTTGCAAGTGTAGGCTCA 59.528 50.000 0.0 0.00 0.00 4.26 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
40 41 2.106338 TCTGAATCCACAACTTCAGGCA 59.894 45.455 11.22 0.00 45.41 4.75
81 82 3.751175 TGGTTTGGAGAATTCATCGTCAC 59.249 43.478 8.44 0.00 0.00 3.67
127 134 1.075536 GAAAGTCCATGGTCCACCCTT 59.924 52.381 12.58 0.00 34.29 3.95
542 665 7.874940 TCGTGAACTTTTCTCAAATTCATGAT 58.125 30.769 0.00 0.00 39.30 2.45
622 747 2.034939 CCATGAACTTGTTGCAAGCTCA 59.965 45.455 14.63 14.63 0.00 4.26
812 940 4.442073 CACGAGCTTTTTCAAATGGTTGAG 59.558 41.667 10.17 1.55 44.49 3.02
814 942 4.370917 GAGCTTTTTCAAATGGTTGAGCA 58.629 39.130 0.00 0.00 44.49 4.26
815 943 4.374399 AGCTTTTTCAAATGGTTGAGCAG 58.626 39.130 0.00 0.00 44.49 4.24
816 944 4.122046 GCTTTTTCAAATGGTTGAGCAGT 58.878 39.130 0.00 0.00 44.49 4.40
817 945 4.025480 GCTTTTTCAAATGGTTGAGCAGTG 60.025 41.667 0.00 0.00 44.49 3.66
818 946 4.998671 TTTTCAAATGGTTGAGCAGTGA 57.001 36.364 0.00 0.00 44.49 3.41
829 1071 1.273327 TGAGCAGTGAGAGCGAAATGA 59.727 47.619 0.00 0.00 37.01 2.57
916 1164 2.093921 GCTTAGCGAACTCCTTTCCTCT 60.094 50.000 0.00 0.00 0.00 3.69
960 1208 4.038080 GCCGCTCCAAAACCCACG 62.038 66.667 0.00 0.00 0.00 4.94
963 1211 1.597027 CGCTCCAAAACCCACGTCT 60.597 57.895 0.00 0.00 0.00 4.18
1211 1469 4.475135 GAGGGACAAGGAGCCGCC 62.475 72.222 0.00 0.00 0.00 6.13
1217 1475 2.668212 CAAGGAGCCGCCGTTCAA 60.668 61.111 0.00 0.00 43.43 2.69
1609 1873 2.239654 TCCTCTCCATTTCCACCACATC 59.760 50.000 0.00 0.00 0.00 3.06
1635 1899 2.868583 CGTCATGAGTCATGTGAATCCC 59.131 50.000 28.03 10.75 41.98 3.85
1748 2012 7.982224 GGTACCTGGTGTTTTGATATAACTTC 58.018 38.462 10.23 0.00 0.00 3.01
1941 2279 1.405105 GTTTTGCTCTGCTTGACCACA 59.595 47.619 0.00 0.00 0.00 4.17
1976 2314 0.604780 ACAGCCATCACAGTCACAGC 60.605 55.000 0.00 0.00 0.00 4.40
2144 2484 0.670854 GTTGCCGAACAGAGACCCTC 60.671 60.000 0.00 0.00 31.78 4.30
2456 2796 1.962807 CAAGGAGAGAGCCTCGATGAT 59.037 52.381 0.00 0.00 42.89 2.45
2746 3089 1.197721 GTGCCCTTCGTTGATGTTCTG 59.802 52.381 0.00 0.00 0.00 3.02
2779 3122 1.544246 GTAACTCCATTGTGCCAACCC 59.456 52.381 0.00 0.00 0.00 4.11
3147 3490 9.431690 CTTCCTCTCCATCTATATCATCCATTA 57.568 37.037 0.00 0.00 0.00 1.90
3173 3516 7.449704 ACACTATTGGCTCATTTTCTTTTCTCT 59.550 33.333 0.00 0.00 0.00 3.10
3676 4170 6.405538 ACATTTGCTTCCTCTCAAAACAAAA 58.594 32.000 0.00 0.00 36.02 2.44
4117 4624 4.544564 TCTTAAGATCTACCTCTGGCCT 57.455 45.455 3.32 0.00 0.00 5.19
4122 4629 0.339859 ATCTACCTCTGGCCTGGACA 59.660 55.000 10.07 0.34 0.00 4.02
4253 4760 1.688735 CAGGACCACTTGTCACTCTGA 59.311 52.381 0.00 0.00 46.38 3.27
4260 4767 3.548587 CACTTGTCACTCTGAATTTGCG 58.451 45.455 0.00 0.00 0.00 4.85
4276 4786 5.813080 ATTTGCGAAGTGGTAACCTTATC 57.187 39.130 0.00 0.00 0.00 1.75
4308 4821 5.473066 TCATCTTGCAGATTATCGGATCA 57.527 39.130 0.00 0.00 31.32 2.92
4332 4845 0.800012 GCCCGCTCAACGTTATCAAA 59.200 50.000 0.00 0.00 41.42 2.69
4407 4920 4.101741 ACTTAGAGTGCTTTTGTGTCCTCT 59.898 41.667 0.00 0.00 34.01 3.69
4408 4921 3.118905 AGAGTGCTTTTGTGTCCTCTC 57.881 47.619 0.00 0.00 0.00 3.20
4409 4922 2.147150 GAGTGCTTTTGTGTCCTCTCC 58.853 52.381 0.00 0.00 0.00 3.71
4411 4924 0.250295 TGCTTTTGTGTCCTCTCCCG 60.250 55.000 0.00 0.00 0.00 5.14
4419 4934 1.258445 TGTCCTCTCCCGCTTTCCTC 61.258 60.000 0.00 0.00 0.00 3.71
4474 4989 1.200020 CAGATTGAAACGCCCAAGGAC 59.800 52.381 0.00 0.00 0.00 3.85
4558 5073 3.882888 TGTTTCTGTTTGTGGAGATCACC 59.117 43.478 1.62 1.62 45.48 4.02
4591 5106 2.935481 TGGAGTGGCAAGGGAGGG 60.935 66.667 0.00 0.00 0.00 4.30
4689 5204 1.818959 CGACCGGTCCCCTGTTAACA 61.819 60.000 28.52 8.28 0.00 2.41
4780 5295 0.600255 AAGAGAACGAAGGCCACGTG 60.600 55.000 24.16 9.08 43.16 4.49
4781 5296 1.300697 GAGAACGAAGGCCACGTGT 60.301 57.895 24.16 16.34 43.16 4.49
4791 5306 2.830285 GCCACGTGTTTGGTCGCTT 61.830 57.895 15.65 0.00 39.09 4.68
4927 5442 2.037772 TGGTCTCTTGTTCTTCTGCTCC 59.962 50.000 0.00 0.00 0.00 4.70
4991 5578 6.341316 TGTATGTTCAAGTCTATGGAGAAGC 58.659 40.000 0.00 0.00 31.96 3.86
5117 5867 2.304180 CTGGAGTCCTGGACTGATTTGT 59.696 50.000 32.86 8.20 43.53 2.83
5130 5880 7.350382 TGGACTGATTTGTATAATTTAGGGCA 58.650 34.615 0.00 0.00 0.00 5.36
5160 5916 8.970691 AATTACTCAAATGTAAATGTGTGCTC 57.029 30.769 0.00 0.00 36.22 4.26
5269 6070 1.409241 GCTTCTCCCCTGCATTCATCA 60.409 52.381 0.00 0.00 0.00 3.07
5270 6071 2.295885 CTTCTCCCCTGCATTCATCAC 58.704 52.381 0.00 0.00 0.00 3.06
5271 6072 1.588239 TCTCCCCTGCATTCATCACT 58.412 50.000 0.00 0.00 0.00 3.41
5272 6073 1.211212 TCTCCCCTGCATTCATCACTG 59.789 52.381 0.00 0.00 0.00 3.66
5273 6074 0.994247 TCCCCTGCATTCATCACTGT 59.006 50.000 0.00 0.00 0.00 3.55
5274 6075 1.355381 TCCCCTGCATTCATCACTGTT 59.645 47.619 0.00 0.00 0.00 3.16
5275 6076 1.747355 CCCCTGCATTCATCACTGTTC 59.253 52.381 0.00 0.00 0.00 3.18
5276 6077 2.439409 CCCTGCATTCATCACTGTTCA 58.561 47.619 0.00 0.00 0.00 3.18
5277 6078 3.021695 CCCTGCATTCATCACTGTTCAT 58.978 45.455 0.00 0.00 0.00 2.57
5278 6079 3.066342 CCCTGCATTCATCACTGTTCATC 59.934 47.826 0.00 0.00 0.00 2.92
5375 6177 3.244875 TGCCACAAACACCATAGTCAGAT 60.245 43.478 0.00 0.00 0.00 2.90
5388 6210 3.883830 AGTCAGATGAGCCTACACTTG 57.116 47.619 0.00 0.00 0.00 3.16
5465 6288 1.153489 GAGCTCAGCAAGATCGCCA 60.153 57.895 9.40 0.00 29.25 5.69
5468 6291 0.812811 GCTCAGCAAGATCGCCATCA 60.813 55.000 0.00 0.00 0.00 3.07
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 3.498777 CAGATACATGATCTTGCAGGCAG 59.501 47.826 8.45 0.00 42.70 4.85
40 41 9.010029 CCAAACCATGTAGTATTCAACTTAACT 57.990 33.333 0.00 0.00 39.80 2.24
81 82 0.952497 AACTGTGTGCTCATGGCTCG 60.952 55.000 7.54 0.00 42.39 5.03
116 123 2.053747 AGGTAATGAAGGGTGGACCA 57.946 50.000 0.00 0.00 43.89 4.02
127 134 4.202727 TGGGTGATTGGGAAAAGGTAATGA 60.203 41.667 0.00 0.00 0.00 2.57
198 313 3.945640 ATGACTAAACCCGGCCTAAAT 57.054 42.857 0.00 0.00 0.00 1.40
483 606 7.729124 ATGATCATGGATTGGAAAAAGTTCT 57.271 32.000 7.59 0.00 33.92 3.01
516 639 7.874940 TCATGAATTTGAGAAAAGTTCACGAT 58.125 30.769 0.00 0.00 32.30 3.73
596 721 5.010922 AGCTTGCAACAAGTTCATGGATTTA 59.989 36.000 8.95 0.00 0.00 1.40
674 801 7.278875 TGGCTTTGAAAAAGTTTGTGGATAAT 58.721 30.769 2.01 0.00 0.00 1.28
740 868 8.924511 AGACAGTTTATGGATTTGAGAAAAGA 57.075 30.769 0.00 0.00 0.00 2.52
746 874 9.918630 AATTTGAAGACAGTTTATGGATTTGAG 57.081 29.630 0.00 0.00 0.00 3.02
812 940 1.005340 CCTCATTTCGCTCTCACTGC 58.995 55.000 0.00 0.00 0.00 4.40
814 942 1.066573 CCACCTCATTTCGCTCTCACT 60.067 52.381 0.00 0.00 0.00 3.41
815 943 1.066858 TCCACCTCATTTCGCTCTCAC 60.067 52.381 0.00 0.00 0.00 3.51
816 944 1.266178 TCCACCTCATTTCGCTCTCA 58.734 50.000 0.00 0.00 0.00 3.27
817 945 2.386661 TTCCACCTCATTTCGCTCTC 57.613 50.000 0.00 0.00 0.00 3.20
818 946 2.427506 GTTTCCACCTCATTTCGCTCT 58.572 47.619 0.00 0.00 0.00 4.09
829 1071 0.602905 CGCTTCTTCCGTTTCCACCT 60.603 55.000 0.00 0.00 0.00 4.00
943 1191 4.038080 CGTGGGTTTTGGAGCGGC 62.038 66.667 0.00 0.00 0.00 6.53
960 1208 1.671901 CTGCGAGGGGAGAGGAAGAC 61.672 65.000 0.00 0.00 32.53 3.01
963 1211 1.078528 TTCTGCGAGGGGAGAGGAA 59.921 57.895 0.00 0.00 41.94 3.36
1153 1411 4.214327 GGCGGAGGAGAAGGCGAG 62.214 72.222 0.00 0.00 0.00 5.03
1190 1448 3.787001 GCTCCTTGTCCCTCCCCG 61.787 72.222 0.00 0.00 0.00 5.73
1211 1469 3.147294 CGGTCTGCTCGTTGAACG 58.853 61.111 12.12 12.12 44.19 3.95
1217 1475 1.375140 TCGTAGACGGTCTGCTCGT 60.375 57.895 20.58 0.00 44.03 4.18
1310 1568 4.416601 CCTCGTCCCCCTTCCCCT 62.417 72.222 0.00 0.00 0.00 4.79
1311 1569 4.410033 TCCTCGTCCCCCTTCCCC 62.410 72.222 0.00 0.00 0.00 4.81
1313 1571 2.764547 CCTCCTCGTCCCCCTTCC 60.765 72.222 0.00 0.00 0.00 3.46
1609 1873 0.179127 ACATGACTCATGACGGCGAG 60.179 55.000 23.30 1.55 43.81 5.03
1635 1899 3.812053 GCATTGTATAAGAGGACAGCCAG 59.188 47.826 0.00 0.00 36.29 4.85
1730 1994 8.120465 CGTGGTATGAAGTTATATCAAAACACC 58.880 37.037 0.00 0.00 30.48 4.16
1741 2005 6.534079 GCTTTACAGACGTGGTATGAAGTTAT 59.466 38.462 0.00 0.00 0.00 1.89
1743 2007 4.689345 GCTTTACAGACGTGGTATGAAGTT 59.311 41.667 0.00 0.00 0.00 2.66
1744 2008 4.243270 GCTTTACAGACGTGGTATGAAGT 58.757 43.478 0.00 0.00 0.00 3.01
1745 2009 3.617263 GGCTTTACAGACGTGGTATGAAG 59.383 47.826 0.00 0.00 0.00 3.02
1746 2010 3.259876 AGGCTTTACAGACGTGGTATGAA 59.740 43.478 0.00 0.00 30.31 2.57
1748 2012 3.187700 GAGGCTTTACAGACGTGGTATG 58.812 50.000 0.00 0.00 30.31 2.39
1792 2130 9.722056 CTACATAAACAAATCAAATACCTCAGC 57.278 33.333 0.00 0.00 0.00 4.26
1838 2176 1.131504 ACAGAGATCGCTTCGACAGTC 59.868 52.381 0.00 0.00 39.18 3.51
1960 2298 1.066573 AGTAGCTGTGACTGTGATGGC 60.067 52.381 0.00 0.00 0.00 4.40
1976 2314 4.445453 TGGAAATGCATCACTAGCAGTAG 58.555 43.478 0.00 0.00 46.36 2.57
1981 2319 4.340381 AGGAAATGGAAATGCATCACTAGC 59.660 41.667 0.00 0.00 0.00 3.42
2144 2484 1.913317 TGATCTTGTGAGCGTCATCG 58.087 50.000 0.00 0.00 40.37 3.84
2456 2796 4.779489 TCTTCATTGAACTCCTCATCCTCA 59.221 41.667 0.00 0.00 32.78 3.86
2779 3122 6.942532 ATGTGTTAGTATAGGCAACAATGG 57.057 37.500 0.00 0.00 41.41 3.16
3147 3490 7.449704 AGAGAAAAGAAAATGAGCCAATAGTGT 59.550 33.333 0.00 0.00 0.00 3.55
3155 3498 6.201615 CCACAAAAGAGAAAAGAAAATGAGCC 59.798 38.462 0.00 0.00 0.00 4.70
3173 3516 5.819379 TGTACATACCACGTAAACCACAAAA 59.181 36.000 0.00 0.00 0.00 2.44
3314 3657 3.598019 TCAGCAATTTGAATTCCCAGC 57.402 42.857 2.27 0.47 0.00 4.85
3676 4170 2.525368 GGCCATACTGGACCAAAAACT 58.475 47.619 0.00 0.00 40.64 2.66
3826 4328 4.142093 CCATATCCAACTGAAGCCCAAAAG 60.142 45.833 0.00 0.00 0.00 2.27
4117 4624 1.198094 TCCCGCTCCTCATTTGTCCA 61.198 55.000 0.00 0.00 0.00 4.02
4122 4629 0.749454 GCACATCCCGCTCCTCATTT 60.749 55.000 0.00 0.00 0.00 2.32
4253 4760 5.944007 AGATAAGGTTACCACTTCGCAAATT 59.056 36.000 3.51 0.00 0.00 1.82
4308 4821 1.823169 TAACGTTGAGCGGGCTCCTT 61.823 55.000 17.36 6.70 46.52 3.36
4389 4902 2.147150 GGAGAGGACACAAAAGCACTC 58.853 52.381 0.00 0.00 0.00 3.51
4411 4924 2.013021 GCAGATCGCTGAGGAAAGC 58.987 57.895 0.00 0.00 45.17 3.51
4438 4953 9.934190 GTTTCAATCTGCAAAACAAACAAATAT 57.066 25.926 6.16 0.00 33.97 1.28
4440 4955 6.960431 CGTTTCAATCTGCAAAACAAACAAAT 59.040 30.769 10.62 0.00 33.51 2.32
4474 4989 0.868406 GTCCAAACTTCTGCTCCACG 59.132 55.000 0.00 0.00 0.00 4.94
4591 5106 4.803908 CCGGCTCCTCCTTTGGGC 62.804 72.222 0.00 0.00 0.00 5.36
4689 5204 9.614792 GATCAGTTCAAAATATTACAGTACCCT 57.385 33.333 0.00 0.00 0.00 4.34
4799 5314 8.504812 TTGCATAATATCTGCTAACAAGACAA 57.495 30.769 10.54 0.00 40.34 3.18
4800 5315 8.681486 ATTGCATAATATCTGCTAACAAGACA 57.319 30.769 10.54 0.00 40.34 3.41
4803 5318 9.608617 CAGAATTGCATAATATCTGCTAACAAG 57.391 33.333 10.54 0.00 40.34 3.16
4853 5368 4.408276 TCCATCTAAGATCTAACCTCCCG 58.592 47.826 0.00 0.00 0.00 5.14
4892 5407 6.133356 ACAAGAGACCAAGGGTTTTTATTCA 58.867 36.000 0.00 0.00 35.25 2.57
4927 5442 1.866853 GAGCAAACCAAGGGGAAGCG 61.867 60.000 0.00 0.00 38.05 4.68
4991 5578 5.176223 GTGTGAACTCCAGCAAATTTGATTG 59.824 40.000 22.31 17.02 0.00 2.67
5160 5916 4.733850 TGCAACTACTCTGTCTACAATCG 58.266 43.478 0.00 0.00 0.00 3.34
5269 6070 5.163195 ACCAAAACTCTAGTGGATGAACAGT 60.163 40.000 3.46 0.00 36.23 3.55
5270 6071 5.308825 ACCAAAACTCTAGTGGATGAACAG 58.691 41.667 3.46 0.00 36.23 3.16
5271 6072 5.304686 ACCAAAACTCTAGTGGATGAACA 57.695 39.130 3.46 0.00 36.23 3.18
5272 6073 6.369065 CAGTACCAAAACTCTAGTGGATGAAC 59.631 42.308 3.46 0.00 36.23 3.18
5273 6074 6.464222 CAGTACCAAAACTCTAGTGGATGAA 58.536 40.000 3.46 0.00 36.23 2.57
5274 6075 5.046591 CCAGTACCAAAACTCTAGTGGATGA 60.047 44.000 3.46 0.00 34.14 2.92
5275 6076 5.046591 TCCAGTACCAAAACTCTAGTGGATG 60.047 44.000 3.46 0.42 35.79 3.51
5276 6077 5.091552 TCCAGTACCAAAACTCTAGTGGAT 58.908 41.667 3.46 0.00 35.79 3.41
5277 6078 4.485875 TCCAGTACCAAAACTCTAGTGGA 58.514 43.478 3.46 0.00 37.56 4.02
5278 6079 4.884668 TCCAGTACCAAAACTCTAGTGG 57.115 45.455 0.00 0.00 38.46 4.00
5375 6177 0.472044 TGGTTGCAAGTGTAGGCTCA 59.528 50.000 0.00 0.00 0.00 4.26
5388 6210 2.288152 TGGAAAAGAAATCGCTGGTTGC 60.288 45.455 0.00 0.00 38.57 4.17
5453 6276 2.038689 AGATGATGATGGCGATCTTGCT 59.961 45.455 10.25 0.00 34.52 3.91
5454 6277 2.424557 AGATGATGATGGCGATCTTGC 58.575 47.619 10.25 0.42 0.00 4.01
5465 6288 4.321718 CCATTCGCCTACAAGATGATGAT 58.678 43.478 0.00 0.00 0.00 2.45
5468 6291 2.498167 GCCATTCGCCTACAAGATGAT 58.502 47.619 0.00 0.00 0.00 2.45


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

AutoCloner maintained by Alex Coulton.