Multiple sequence alignment - TraesCS2D01G111800

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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 TraesCS2D01G111800 chr2D 100.000 2018 0 0 1 2018 62051304 62053321 0.000000e+00 3727.0
1 TraesCS2D01G111800 chr2D 100.000 102 0 0 2274 2375 62053577 62053678 3.120000e-44 189.0
2 TraesCS2D01G111800 chr2B 91.542 1939 83 28 1 1892 97413854 97415758 0.000000e+00 2597.0
3 TraesCS2D01G111800 chr2B 86.422 1090 83 35 826 1890 97424375 97425424 0.000000e+00 1133.0
4 TraesCS2D01G111800 chr2B 95.000 60 3 0 774 833 97417013 97417072 6.990000e-16 95.3
5 TraesCS2D01G111800 chr2A 92.476 1648 71 25 1 1604 62379665 62381303 0.000000e+00 2307.0
6 TraesCS2D01G111800 chr2A 96.774 93 3 0 1926 2018 59073745 59073837 3.160000e-34 156.0
7 TraesCS2D01G111800 chr2A 96.739 92 3 0 1926 2017 102056873 102056964 1.140000e-33 154.0
8 TraesCS2D01G111800 chr2A 75.263 380 52 30 1520 1890 62381504 62381850 2.460000e-30 143.0
9 TraesCS2D01G111800 chr2A 94.286 35 1 1 1629 1662 3718916 3718882 4.000000e-03 52.8
10 TraesCS2D01G111800 chr5D 97.849 93 2 0 1926 2018 544470811 544470719 6.790000e-36 161.0
11 TraesCS2D01G111800 chr5D 95.699 93 4 0 1926 2018 178492597 178492505 1.470000e-32 150.0
12 TraesCS2D01G111800 chr5D 100.000 28 0 0 1626 1653 11299565 11299592 4.000000e-03 52.8
13 TraesCS2D01G111800 chr4A 97.849 93 2 0 1926 2018 11732891 11732799 6.790000e-36 161.0
14 TraesCS2D01G111800 chr3D 97.849 93 2 0 1926 2018 461317443 461317351 6.790000e-36 161.0
15 TraesCS2D01G111800 chr3D 97.059 34 0 1 1612 1644 57504586 57504553 3.300000e-04 56.5
16 TraesCS2D01G111800 chr3D 100.000 30 0 0 1624 1653 63393958 63393929 3.300000e-04 56.5
17 TraesCS2D01G111800 chrUn 96.774 93 3 0 1926 2018 342611960 342612052 3.160000e-34 156.0
18 TraesCS2D01G111800 chr4D 96.774 93 3 0 1926 2018 9601588 9601496 3.160000e-34 156.0
19 TraesCS2D01G111800 chr4D 96.774 93 3 0 1926 2018 311200470 311200378 3.160000e-34 156.0
20 TraesCS2D01G111800 chr7A 93.137 102 7 0 2274 2375 16527116 16527015 1.470000e-32 150.0
21 TraesCS2D01G111800 chr7A 97.143 35 1 0 1615 1649 736440109 736440075 2.550000e-05 60.2
22 TraesCS2D01G111800 chr5A 93.137 102 7 0 2274 2375 708179650 708179549 1.470000e-32 150.0
23 TraesCS2D01G111800 chr1D 91.919 99 8 0 2274 2372 32527302 32527400 3.180000e-29 139.0


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 TraesCS2D01G111800 chr2D 62051304 62053678 2374 False 1958.00 3727 100.0000 1 2375 2 chr2D.!!$F1 2374
1 TraesCS2D01G111800 chr2B 97413854 97417072 3218 False 1346.15 2597 93.2710 1 1892 2 chr2B.!!$F2 1891
2 TraesCS2D01G111800 chr2B 97424375 97425424 1049 False 1133.00 1133 86.4220 826 1890 1 chr2B.!!$F1 1064
3 TraesCS2D01G111800 chr2A 62379665 62381850 2185 False 1225.00 2307 83.8695 1 1890 2 chr2A.!!$F3 1889

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
772 805 0.530744 TGCCTTGTGGTAGCTACGAG 59.469 55.0 17.48 11.79 35.27 4.18 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1908 2312 0.755698 GGTCCTATCCCTCGCACAGA 60.756 60.0 0.0 0.0 0.0 3.41 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 42 1.226211 CTGCTGCTCCGAATTTGCG 60.226 57.895 0.00 0.00 0.00 4.85
96 101 1.892329 GCTTCAGGCCTGGGAAAATCA 60.892 52.381 32.23 7.74 34.27 2.57
117 122 1.304381 AGCCCCTCGTACGTAACCA 60.304 57.895 16.05 0.00 0.00 3.67
295 305 2.040464 AGGAGGGTGGCCATCGAT 60.040 61.111 9.72 0.00 34.87 3.59
430 448 2.809601 CGGGCTCTCGGAACAACG 60.810 66.667 0.00 0.00 0.00 4.10
433 451 1.741770 GGCTCTCGGAACAACGCAT 60.742 57.895 0.00 0.00 0.00 4.73
460 478 3.741476 CTCGCAGCAAGCAACCCC 61.741 66.667 0.00 0.00 46.13 4.95
632 661 2.186160 TGCGTTTGGCTCCACTGTG 61.186 57.895 0.00 0.00 44.05 3.66
657 686 3.575256 TCACTCCCGTGTACTACAATGTT 59.425 43.478 0.00 0.00 41.89 2.71
660 689 5.575606 CACTCCCGTGTACTACAATGTTAAG 59.424 44.000 0.00 0.00 36.39 1.85
772 805 0.530744 TGCCTTGTGGTAGCTACGAG 59.469 55.000 17.48 11.79 35.27 4.18
824 857 1.268133 GGTATCGTCTCGCTGTCACTC 60.268 57.143 0.00 0.00 0.00 3.51
840 873 5.754782 TGTCACTCCCAAATATACAATGCT 58.245 37.500 0.00 0.00 0.00 3.79
842 875 5.822519 GTCACTCCCAAATATACAATGCTCA 59.177 40.000 0.00 0.00 0.00 4.26
942 975 1.005294 GAACGAGCCAACGAGCGTAA 61.005 55.000 0.00 0.00 35.74 3.18
1011 1054 3.040763 GCGATGATGCCGGAGAGC 61.041 66.667 5.05 0.00 0.00 4.09
1305 1348 3.771160 GTGGGGGTCGTGATCGCT 61.771 66.667 4.48 0.00 36.96 4.93
1312 1355 2.202663 TCGTGATCGCTCTGCTGC 60.203 61.111 4.48 0.00 36.96 5.25
1509 1819 9.284968 TCTTTGATTCGAAGAATTTTTAGAGGT 57.715 29.630 13.01 0.00 45.90 3.85
1622 2022 9.376075 GTTTTGTACTAGGTTTTATACTCCCTC 57.624 37.037 0.00 0.00 0.00 4.30
1623 2023 7.666063 TTGTACTAGGTTTTATACTCCCTCC 57.334 40.000 0.00 0.00 0.00 4.30
1627 2027 5.723405 ACTAGGTTTTATACTCCCTCCGTTT 59.277 40.000 0.00 0.00 0.00 3.60
1639 2039 6.659824 ACTCCCTCCGTTTCATATTAATTGT 58.340 36.000 0.00 0.00 0.00 2.71
1753 2155 0.890683 CTGTTTGGGGATCCTGCAAC 59.109 55.000 12.58 11.86 0.00 4.17
1754 2156 0.893270 TGTTTGGGGATCCTGCAACG 60.893 55.000 12.58 0.00 0.00 4.10
1758 2160 1.754234 GGGGATCCTGCAACGCAAT 60.754 57.895 12.58 0.00 38.41 3.56
1759 2161 1.728490 GGGGATCCTGCAACGCAATC 61.728 60.000 12.58 0.00 38.41 2.67
1761 2163 0.810648 GGATCCTGCAACGCAATCAA 59.189 50.000 3.84 0.00 38.41 2.57
1762 2164 1.202114 GGATCCTGCAACGCAATCAAA 59.798 47.619 3.84 0.00 38.41 2.69
1763 2165 2.253603 GATCCTGCAACGCAATCAAAC 58.746 47.619 0.00 0.00 38.41 2.93
1764 2166 1.028130 TCCTGCAACGCAATCAAACA 58.972 45.000 0.00 0.00 38.41 2.83
1776 2178 4.201647 CGCAATCAAACAGCCATTCATTTC 60.202 41.667 0.00 0.00 0.00 2.17
1777 2179 4.933400 GCAATCAAACAGCCATTCATTTCT 59.067 37.500 0.00 0.00 0.00 2.52
1778 2180 6.101332 GCAATCAAACAGCCATTCATTTCTA 58.899 36.000 0.00 0.00 0.00 2.10
1779 2181 6.759827 GCAATCAAACAGCCATTCATTTCTAT 59.240 34.615 0.00 0.00 0.00 1.98
1781 2183 6.839124 TCAAACAGCCATTCATTTCTATGT 57.161 33.333 0.00 0.00 33.34 2.29
1783 2185 7.669427 TCAAACAGCCATTCATTTCTATGTTT 58.331 30.769 0.00 0.00 39.48 2.83
1784 2186 7.735500 CAAACAGCCATTCATTTCTATGTTTG 58.264 34.615 11.59 11.59 45.36 2.93
1786 2188 5.105228 ACAGCCATTCATTTCTATGTTTGGG 60.105 40.000 0.00 0.00 36.37 4.12
1787 2189 4.406649 AGCCATTCATTTCTATGTTTGGGG 59.593 41.667 0.00 0.00 36.37 4.96
1788 2190 4.405358 GCCATTCATTTCTATGTTTGGGGA 59.595 41.667 0.00 0.00 36.37 4.81
1795 2197 3.297134 TCTATGTTTGGGGATGGAAGC 57.703 47.619 0.00 0.00 0.00 3.86
1796 2198 2.852449 TCTATGTTTGGGGATGGAAGCT 59.148 45.455 0.00 0.00 0.00 3.74
1903 2307 3.634397 CATGGAATGGTGGTAGTGAGT 57.366 47.619 0.00 0.00 41.79 3.41
1904 2308 4.753516 CATGGAATGGTGGTAGTGAGTA 57.246 45.455 0.00 0.00 41.79 2.59
1905 2309 4.697514 CATGGAATGGTGGTAGTGAGTAG 58.302 47.826 0.00 0.00 41.79 2.57
1906 2310 3.786553 TGGAATGGTGGTAGTGAGTAGT 58.213 45.455 0.00 0.00 0.00 2.73
1908 2312 5.525484 TGGAATGGTGGTAGTGAGTAGTAT 58.475 41.667 0.00 0.00 0.00 2.12
1909 2313 5.597182 TGGAATGGTGGTAGTGAGTAGTATC 59.403 44.000 0.00 0.00 0.00 2.24
1910 2314 5.834204 GGAATGGTGGTAGTGAGTAGTATCT 59.166 44.000 0.00 0.00 0.00 1.98
1911 2315 6.239064 GGAATGGTGGTAGTGAGTAGTATCTG 60.239 46.154 0.00 0.00 0.00 2.90
1912 2316 5.188988 TGGTGGTAGTGAGTAGTATCTGT 57.811 43.478 0.00 0.00 0.00 3.41
1913 2317 4.948004 TGGTGGTAGTGAGTAGTATCTGTG 59.052 45.833 0.00 0.00 0.00 3.66
1915 2319 3.626217 TGGTAGTGAGTAGTATCTGTGCG 59.374 47.826 0.00 0.00 0.00 5.34
1916 2320 3.875727 GGTAGTGAGTAGTATCTGTGCGA 59.124 47.826 0.00 0.00 0.00 5.10
1917 2321 4.024725 GGTAGTGAGTAGTATCTGTGCGAG 60.025 50.000 0.00 0.00 0.00 5.03
1918 2322 2.946329 AGTGAGTAGTATCTGTGCGAGG 59.054 50.000 0.00 0.00 0.00 4.63
1919 2323 2.033550 GTGAGTAGTATCTGTGCGAGGG 59.966 54.545 0.00 0.00 0.00 4.30
1921 2325 3.150767 GAGTAGTATCTGTGCGAGGGAT 58.849 50.000 0.00 0.00 0.00 3.85
1923 2327 4.328536 AGTAGTATCTGTGCGAGGGATAG 58.671 47.826 0.00 0.00 0.00 2.08
1924 2328 2.520069 AGTATCTGTGCGAGGGATAGG 58.480 52.381 0.00 0.00 0.00 2.57
1926 2330 1.333177 ATCTGTGCGAGGGATAGGAC 58.667 55.000 0.00 0.00 0.00 3.85
1927 2331 0.755698 TCTGTGCGAGGGATAGGACC 60.756 60.000 0.00 0.00 0.00 4.46
1935 2339 2.847715 GGATAGGACCCACCCCCG 60.848 72.222 0.00 0.00 40.05 5.73
1936 2340 3.557290 GATAGGACCCACCCCCGC 61.557 72.222 0.00 0.00 40.05 6.13
1958 2362 2.125673 CCAACCCTAGGCGACACG 60.126 66.667 2.05 0.00 0.00 4.49
1959 2363 2.125673 CAACCCTAGGCGACACGG 60.126 66.667 2.05 0.00 0.00 4.94
1960 2364 3.387947 AACCCTAGGCGACACGGG 61.388 66.667 12.96 12.96 44.92 5.28
2011 3605 4.824515 CCTCGCCTCCTCCGTCCT 62.825 72.222 0.00 0.00 0.00 3.85
2012 3606 3.522731 CTCGCCTCCTCCGTCCTG 61.523 72.222 0.00 0.00 0.00 3.86
2317 3911 2.874315 CGCATCGTTCGACGCAGA 60.874 61.111 13.14 0.00 42.21 4.26
2318 3912 2.224217 CGCATCGTTCGACGCAGAT 61.224 57.895 13.14 0.00 42.21 2.90
2319 3913 1.555538 GCATCGTTCGACGCAGATC 59.444 57.895 8.32 0.00 42.21 2.75
2320 3914 1.812214 GCATCGTTCGACGCAGATCC 61.812 60.000 8.32 0.00 42.21 3.36
2321 3915 1.298413 ATCGTTCGACGCAGATCCG 60.298 57.895 0.00 0.00 42.21 4.18
2322 3916 1.712018 ATCGTTCGACGCAGATCCGA 61.712 55.000 0.00 5.82 42.21 4.55
2323 3917 2.215604 CGTTCGACGCAGATCCGAC 61.216 63.158 0.00 0.00 33.65 4.79
2324 3918 2.099638 TTCGACGCAGATCCGACG 59.900 61.111 9.18 9.18 44.93 5.12
2325 3919 3.391160 TTCGACGCAGATCCGACGG 62.391 63.158 7.84 7.84 44.04 4.79
2327 3921 4.492160 GACGCAGATCCGACGGCA 62.492 66.667 9.66 0.00 34.15 5.69
2328 3922 3.982372 GACGCAGATCCGACGGCAA 62.982 63.158 9.66 0.00 34.15 4.52
2329 3923 3.257561 CGCAGATCCGACGGCAAG 61.258 66.667 9.66 0.00 0.00 4.01
2330 3924 2.892425 GCAGATCCGACGGCAAGG 60.892 66.667 9.66 0.00 0.00 3.61
2331 3925 2.892640 CAGATCCGACGGCAAGGA 59.107 61.111 9.66 0.00 41.30 3.36
2332 3926 1.227089 CAGATCCGACGGCAAGGAG 60.227 63.158 9.66 0.00 40.26 3.69
2333 3927 2.586357 GATCCGACGGCAAGGAGC 60.586 66.667 9.66 0.00 40.26 4.70
2342 3936 2.964389 GCAAGGAGCGGCGAGATC 60.964 66.667 12.98 4.67 33.78 2.75
2347 3941 2.646143 GAGCGGCGAGATCCCTAC 59.354 66.667 12.98 0.00 0.00 3.18
2348 3942 3.256716 GAGCGGCGAGATCCCTACG 62.257 68.421 12.98 0.00 0.00 3.51
2349 3943 4.344474 GCGGCGAGATCCCTACGG 62.344 72.222 12.98 0.00 0.00 4.02
2350 3944 4.344474 CGGCGAGATCCCTACGGC 62.344 72.222 0.00 12.87 46.14 5.68
2352 3946 3.052081 GCGAGATCCCTACGGCAT 58.948 61.111 0.00 0.00 0.00 4.40
2353 3947 1.373497 GCGAGATCCCTACGGCATG 60.373 63.158 0.00 0.00 0.00 4.06
2354 3948 1.373497 CGAGATCCCTACGGCATGC 60.373 63.158 9.90 9.90 0.00 4.06
2355 3949 1.373497 GAGATCCCTACGGCATGCG 60.373 63.158 12.44 9.76 0.00 4.73
2356 3950 2.088674 GAGATCCCTACGGCATGCGT 62.089 60.000 12.44 15.21 0.00 5.24
2357 3951 1.956170 GATCCCTACGGCATGCGTG 60.956 63.158 20.46 14.50 0.00 5.34
2358 3952 2.363711 GATCCCTACGGCATGCGTGA 62.364 60.000 20.46 12.26 0.00 4.35
2359 3953 2.644555 ATCCCTACGGCATGCGTGAC 62.645 60.000 20.46 5.69 0.00 3.67
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
18 20 1.021390 AAATTCGGAGCAGCAGGACG 61.021 55.000 0.00 0.00 0.00 4.79
31 33 0.629767 CAATGTCGTGCGCAAATTCG 59.370 50.000 14.00 12.45 0.00 3.34
40 42 1.226379 CGGATTGGCAATGTCGTGC 60.226 57.895 19.07 1.33 44.14 5.34
96 101 1.304381 TTACGTACGAGGGGCTGGT 60.304 57.895 24.41 0.00 0.00 4.00
117 122 1.511316 TAAATTTGGGGGAGGGCGGT 61.511 55.000 0.00 0.00 0.00 5.68
295 305 3.760035 GAGGCGTTCCGGAGCAGA 61.760 66.667 19.03 0.00 37.47 4.26
460 478 4.424430 GCACGTACGCGGTTGCTG 62.424 66.667 16.72 5.24 43.45 4.41
577 603 2.404995 ACGGAGCTTCGTCTACCGG 61.405 63.158 16.10 0.00 46.45 5.28
824 857 4.133820 TCGGTGAGCATTGTATATTTGGG 58.866 43.478 0.00 0.00 0.00 4.12
840 873 2.051076 CGGTCGTTCGTTCGGTGA 60.051 61.111 2.85 0.00 0.00 4.02
842 875 4.268939 TGCGGTCGTTCGTTCGGT 62.269 61.111 10.23 0.00 0.00 4.69
991 1034 2.356793 CTCCGGCATCATCGCTCC 60.357 66.667 0.00 0.00 0.00 4.70
1011 1054 1.687493 GTCCTCCCACTCCCCTCTG 60.687 68.421 0.00 0.00 0.00 3.35
1300 1343 1.143620 GGAAGAGCAGCAGAGCGAT 59.856 57.895 0.00 0.00 40.15 4.58
1305 1348 1.595882 GAGCAGGAAGAGCAGCAGA 59.404 57.895 0.00 0.00 0.00 4.26
1312 1355 1.934220 TACACCGCGAGCAGGAAGAG 61.934 60.000 8.23 0.00 0.00 2.85
1357 1400 4.883300 CTACTCGTCGTCGCCGCC 62.883 72.222 0.00 0.00 36.96 6.13
1509 1819 9.120538 GGTAGAAAACATGCATAGGATTAGAAA 57.879 33.333 0.00 0.00 0.00 2.52
1520 1830 5.564550 AGAACTCAGGTAGAAAACATGCAT 58.435 37.500 0.00 0.00 39.74 3.96
1521 1831 4.973168 AGAACTCAGGTAGAAAACATGCA 58.027 39.130 0.00 0.00 39.74 3.96
1612 2012 9.938280 CAATTAATATGAAACGGAGGGAGTATA 57.062 33.333 0.00 0.00 0.00 1.47
1622 2022 6.043327 TCAGCGACAATTAATATGAAACGG 57.957 37.500 0.00 0.00 0.00 4.44
1623 2023 8.547091 AAATCAGCGACAATTAATATGAAACG 57.453 30.769 0.00 0.00 0.00 3.60
1639 2039 7.843490 AATTTTGCTACTACTAAATCAGCGA 57.157 32.000 0.00 0.00 34.96 4.93
1753 2155 2.350899 TGAATGGCTGTTTGATTGCG 57.649 45.000 0.00 0.00 0.00 4.85
1754 2156 4.933400 AGAAATGAATGGCTGTTTGATTGC 59.067 37.500 0.00 0.00 0.00 3.56
1758 2160 6.839124 ACATAGAAATGAATGGCTGTTTGA 57.161 33.333 0.00 0.00 36.54 2.69
1759 2161 7.148540 CCAAACATAGAAATGAATGGCTGTTTG 60.149 37.037 14.59 14.59 45.75 2.93
1761 2163 6.400568 CCAAACATAGAAATGAATGGCTGTT 58.599 36.000 0.00 0.00 36.39 3.16
1762 2164 5.105228 CCCAAACATAGAAATGAATGGCTGT 60.105 40.000 7.97 0.00 39.22 4.40
1763 2165 5.353938 CCCAAACATAGAAATGAATGGCTG 58.646 41.667 7.97 0.00 39.22 4.85
1764 2166 4.406649 CCCCAAACATAGAAATGAATGGCT 59.593 41.667 7.97 0.00 39.22 4.75
1776 2178 3.303351 AGCTTCCATCCCCAAACATAG 57.697 47.619 0.00 0.00 0.00 2.23
1777 2179 3.756082 AAGCTTCCATCCCCAAACATA 57.244 42.857 0.00 0.00 0.00 2.29
1778 2180 2.568509 CAAAGCTTCCATCCCCAAACAT 59.431 45.455 0.00 0.00 0.00 2.71
1779 2181 1.969923 CAAAGCTTCCATCCCCAAACA 59.030 47.619 0.00 0.00 0.00 2.83
1781 2183 2.632512 GTTCAAAGCTTCCATCCCCAAA 59.367 45.455 0.00 0.00 0.00 3.28
1783 2185 1.146774 TGTTCAAAGCTTCCATCCCCA 59.853 47.619 0.00 0.00 0.00 4.96
1784 2186 1.923356 TGTTCAAAGCTTCCATCCCC 58.077 50.000 0.00 0.00 0.00 4.81
1786 2188 4.789012 TTGATGTTCAAAGCTTCCATCC 57.211 40.909 18.13 2.51 32.71 3.51
1787 2189 8.031277 ACTTAATTGATGTTCAAAGCTTCCATC 58.969 33.333 15.79 15.79 40.12 3.51
1788 2190 7.899973 ACTTAATTGATGTTCAAAGCTTCCAT 58.100 30.769 0.00 0.00 40.12 3.41
1795 2197 7.651808 ACCACAGACTTAATTGATGTTCAAAG 58.348 34.615 0.00 0.00 40.12 2.77
1796 2198 7.581213 ACCACAGACTTAATTGATGTTCAAA 57.419 32.000 0.00 0.00 40.12 2.69
1892 2296 4.496010 CGCACAGATACTACTCACTACCAC 60.496 50.000 0.00 0.00 0.00 4.16
1893 2297 3.626217 CGCACAGATACTACTCACTACCA 59.374 47.826 0.00 0.00 0.00 3.25
1894 2298 3.875727 TCGCACAGATACTACTCACTACC 59.124 47.826 0.00 0.00 0.00 3.18
1896 2300 4.127907 CCTCGCACAGATACTACTCACTA 58.872 47.826 0.00 0.00 0.00 2.74
1898 2302 2.033550 CCCTCGCACAGATACTACTCAC 59.966 54.545 0.00 0.00 0.00 3.51
1901 2305 2.730934 TCCCTCGCACAGATACTACT 57.269 50.000 0.00 0.00 0.00 2.57
1902 2306 3.440872 CCTATCCCTCGCACAGATACTAC 59.559 52.174 0.00 0.00 0.00 2.73
1903 2307 3.329814 TCCTATCCCTCGCACAGATACTA 59.670 47.826 0.00 0.00 0.00 1.82
1904 2308 2.108425 TCCTATCCCTCGCACAGATACT 59.892 50.000 0.00 0.00 0.00 2.12
1905 2309 2.229302 GTCCTATCCCTCGCACAGATAC 59.771 54.545 0.00 0.00 0.00 2.24
1906 2310 2.515854 GTCCTATCCCTCGCACAGATA 58.484 52.381 0.00 0.00 0.00 1.98
1908 2312 0.755698 GGTCCTATCCCTCGCACAGA 60.756 60.000 0.00 0.00 0.00 3.41
1909 2313 1.742768 GGTCCTATCCCTCGCACAG 59.257 63.158 0.00 0.00 0.00 3.66
1910 2314 1.760875 GGGTCCTATCCCTCGCACA 60.761 63.158 0.00 0.00 43.85 4.57
1911 2315 3.139565 GGGTCCTATCCCTCGCAC 58.860 66.667 0.00 0.00 43.85 5.34
1918 2322 2.847715 CGGGGGTGGGTCCTATCC 60.848 72.222 0.00 0.00 36.25 2.59
1919 2323 3.557290 GCGGGGGTGGGTCCTATC 61.557 72.222 0.00 0.00 36.25 2.08
1940 2344 2.436115 GTGTCGCCTAGGGTTGGC 60.436 66.667 11.72 0.00 46.42 4.52
1941 2345 2.125673 CGTGTCGCCTAGGGTTGG 60.126 66.667 11.72 0.00 0.00 3.77
1942 2346 2.125673 CCGTGTCGCCTAGGGTTG 60.126 66.667 11.72 0.00 0.00 3.77
1943 2347 3.387947 CCCGTGTCGCCTAGGGTT 61.388 66.667 11.72 0.00 39.05 4.11
1994 3588 4.824515 AGGACGGAGGAGGCGAGG 62.825 72.222 0.00 0.00 0.00 4.63
2302 3896 1.532343 CGGATCTGCGTCGAACGATG 61.532 60.000 11.38 11.38 46.05 3.84
2303 3897 1.298413 CGGATCTGCGTCGAACGAT 60.298 57.895 10.82 0.00 46.05 3.73
2304 3898 2.099638 CGGATCTGCGTCGAACGA 59.900 61.111 10.82 0.00 46.05 3.85
2305 3899 2.099638 TCGGATCTGCGTCGAACG 59.900 61.111 0.00 0.00 45.88 3.95
2306 3900 2.215604 CGTCGGATCTGCGTCGAAC 61.216 63.158 4.97 0.00 34.62 3.95
2307 3901 2.099638 CGTCGGATCTGCGTCGAA 59.900 61.111 4.97 0.00 34.62 3.71
2308 3902 3.872728 CCGTCGGATCTGCGTCGA 61.873 66.667 4.91 2.89 0.00 4.20
2310 3904 3.982372 TTGCCGTCGGATCTGCGTC 62.982 63.158 17.49 5.38 0.00 5.19
2311 3905 3.989698 CTTGCCGTCGGATCTGCGT 62.990 63.158 17.49 0.00 0.00 5.24
2312 3906 3.257561 CTTGCCGTCGGATCTGCG 61.258 66.667 17.49 10.29 0.00 5.18
2313 3907 2.892425 CCTTGCCGTCGGATCTGC 60.892 66.667 17.49 0.00 0.00 4.26
2314 3908 1.227089 CTCCTTGCCGTCGGATCTG 60.227 63.158 17.49 0.00 0.00 2.90
2315 3909 3.082579 GCTCCTTGCCGTCGGATCT 62.083 63.158 17.49 0.00 35.15 2.75
2316 3910 2.586357 GCTCCTTGCCGTCGGATC 60.586 66.667 17.49 0.00 35.15 3.36
2317 3911 4.514577 CGCTCCTTGCCGTCGGAT 62.515 66.667 17.49 0.00 38.78 4.18
2324 3918 4.537433 ATCTCGCCGCTCCTTGCC 62.537 66.667 0.00 0.00 38.78 4.52
2325 3919 2.964389 GATCTCGCCGCTCCTTGC 60.964 66.667 0.00 0.00 38.57 4.01
2326 3920 2.279784 GGATCTCGCCGCTCCTTG 60.280 66.667 0.00 0.00 0.00 3.61
2327 3921 2.642183 TAGGGATCTCGCCGCTCCTT 62.642 60.000 0.00 0.00 0.00 3.36
2328 3922 3.134703 TAGGGATCTCGCCGCTCCT 62.135 63.158 0.00 0.00 0.00 3.69
2329 3923 2.597805 TAGGGATCTCGCCGCTCC 60.598 66.667 0.00 0.00 0.00 4.70
2330 3924 2.646143 GTAGGGATCTCGCCGCTC 59.354 66.667 0.00 0.00 0.00 5.03
2331 3925 3.288290 CGTAGGGATCTCGCCGCT 61.288 66.667 0.00 0.00 0.00 5.52


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

AutoCloner maintained by Alex Coulton.