AutoCloner

Multiple sequence alignment - TraesCS2A01G319900

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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	TraesCS2A01G319900	chr2A	100.000	2498	0	0	1	2498	547775218	547777715	0.000000e+00	4614.0
1	TraesCS2A01G319900	chr2A	96.535	1876	41	3	1	1876	566987955	566986104	0.000000e+00	3083.0
2	TraesCS2A01G319900	chr2A	84.545	440	38	13	697	1113	547271225	547271657	2.310000e-110	409.0
3	TraesCS2A01G319900	chr2D	83.766	1965	146	64	4	1876	420992054	420990171	0.000000e+00	1701.0
4	TraesCS2A01G319900	chr2D	90.753	584	48	4	1915	2498	164265451	164266028	0.000000e+00	774.0
5	TraesCS2A01G319900	chr2B	83.673	1911	155	62	6	1849	493651769	493649949	0.000000e+00	1655.0
6	TraesCS2A01G319900	chr2B	94.444	36	0	2	267	301	798373922	798373956	1.000000e-03	54.7
7	TraesCS2A01G319900	chr3D	89.807	569	51	7	1912	2479	605577626	605577064	0.000000e+00	723.0
8	TraesCS2A01G319900	chr7D	89.343	563	54	6	1917	2479	518104007	518103451	0.000000e+00	702.0
9	TraesCS2A01G319900	chr1A	80.546	586	84	17	1917	2498	257984781	257985340	8.260000e-115	424.0
10	TraesCS2A01G319900	chr1A	85.246	61	9	0	130	190	362208395	362208455	2.070000e-06	63.9
11	TraesCS2A01G319900	chr4B	89.206	315	28	1	1917	2231	665269864	665270172	3.010000e-104	388.0
12	TraesCS2A01G319900	chr5A	78.571	378	61	13	2125	2497	33097811	33097449	5.370000e-57	231.0
13	TraesCS2A01G319900	chr6B	75.000	536	82	19	1977	2497	210259064	210259562	1.520000e-47	200.0
14	TraesCS2A01G319900	chr5B	73.051	590	120	29	1917	2498	461698237	461697679	3.300000e-39	172.0
15	TraesCS2A01G319900	chr6D	83.851	161	23	3	18	178	337026977	337026820	1.550000e-32	150.0
16	TraesCS2A01G319900	chr3A	71.763	556	102	41	1965	2482	82457701	82458239	3.400000e-19	106.0
17	TraesCS2A01G319900	chr3A	76.667	210	37	6	2292	2498	737276214	737276014	3.400000e-19	106.0
18	TraesCS2A01G319900	chr3A	81.053	95	14	4	129	222	681326632	681326541	3.450000e-09	73.1
19	TraesCS2A01G319900	chr3B	79.195	149	19	10	15	158	638957571	638957430	2.650000e-15	93.5
20	TraesCS2A01G319900	chr3B	75.000	224	39	13	4	221	714500734	714500946	1.230000e-13	87.9
21	TraesCS2A01G319900	chr7A	97.059	34	1	0	265	298	222415136	222415169	9.650000e-05	58.4
22	TraesCS2A01G319900	chr5D	90.698	43	4	0	257	299	562727213	562727171	9.650000e-05	58.4
23	TraesCS2A01G319900	chr1B	97.059	34	1	0	264	297	484286528	484286561	9.650000e-05	58.4
24	TraesCS2A01G319900	chr6A	100.000	28	0	0	1877	1904	200254161	200254134	4.000000e-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	TraesCS2A01G319900	chr2A	547775218	547777715	2497	False	4614	4614	100.000	1	2498	1	chr2A.!!$F2	2497
1	TraesCS2A01G319900	chr2A	566986104	566987955	1851	True	3083	3083	96.535	1	1876	1	chr2A.!!$R1	1875
2	TraesCS2A01G319900	chr2D	420990171	420992054	1883	True	1701	1701	83.766	4	1876	1	chr2D.!!$R1	1872
3	TraesCS2A01G319900	chr2D	164265451	164266028	577	False	774	774	90.753	1915	2498	1	chr2D.!!$F1	583
4	TraesCS2A01G319900	chr2B	493649949	493651769	1820	True	1655	1655	83.673	6	1849	1	chr2B.!!$R1	1843
5	TraesCS2A01G319900	chr3D	605577064	605577626	562	True	723	723	89.807	1912	2479	1	chr3D.!!$R1	567
6	TraesCS2A01G319900	chr7D	518103451	518104007	556	True	702	702	89.343	1917	2479	1	chr7D.!!$R1	562
7	TraesCS2A01G319900	chr1A	257984781	257985340	559	False	424	424	80.546	1917	2498	1	chr1A.!!$F1	581

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
696	721	0.034186	CTGTAATCAAGGGCAGGGCA	60.034	55.0	0.0	0.0	0.0	5.36	F

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability	Orientation
1561	1689	0.032403	CACGAAGGTCACCGGTAACA	59.968	55.0	10.8	0.0	0.0	2.41	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
28	29	2.342279	CCACCGGTCACATCACGT	59.658	61.111	2.59	0.00	0.00	4.49
267	269	3.781079	TTCATGATTCGAATGGTTGCC	57.219	42.857	16.96	0.00	0.00	4.52
308	310	4.035675	CGTTGGAGATGCCTAAAAAGATCC	59.964	45.833	0.00	0.00	37.63	3.36
609	631	2.159572	GGACCAAATTTCCACACGATCG	60.160	50.000	14.88	14.88	32.82	3.69
642	664	5.706447	AGAGAATCCTAGGTGTGCTATACA	58.294	41.667	9.08	0.00	33.50	2.29
677	702	4.304939	GGTAGCCCGTGTGTTTATCTATC	58.695	47.826	0.00	0.00	0.00	2.08
690	715	7.715249	TGTGTTTATCTATCTGTAATCAAGGGC	59.285	37.037	0.00	0.00	0.00	5.19
691	716	7.715249	GTGTTTATCTATCTGTAATCAAGGGCA	59.285	37.037	0.00	0.00	0.00	5.36
692	717	7.933577	TGTTTATCTATCTGTAATCAAGGGCAG	59.066	37.037	0.00	0.00	0.00	4.85
693	718	4.963318	TCTATCTGTAATCAAGGGCAGG	57.037	45.455	0.00	0.00	0.00	4.85
694	719	3.648067	TCTATCTGTAATCAAGGGCAGGG	59.352	47.826	0.00	0.00	0.00	4.45
695	720	0.255890	TCTGTAATCAAGGGCAGGGC	59.744	55.000	0.00	0.00	0.00	5.19
696	721	0.034186	CTGTAATCAAGGGCAGGGCA	60.034	55.000	0.00	0.00	0.00	5.36
697	722	0.034186	TGTAATCAAGGGCAGGGCAG	60.034	55.000	0.00	0.00	0.00	4.85
698	723	0.753111	GTAATCAAGGGCAGGGCAGG	60.753	60.000	0.00	0.00	0.00	4.85
699	724	1.936767	TAATCAAGGGCAGGGCAGGG	61.937	60.000	0.00	0.00	0.00	4.45
805	832	2.051941	CCATTGGGCAAGTGCAGTT	58.948	52.632	0.00	0.00	44.36	3.16
841	868	0.037590	AGACCATTTACGCCCTTGCA	59.962	50.000	0.00	0.00	37.32	4.08
912	939	6.367161	AGCCTGTAAAGTGTTTAAACCCTTA	58.633	36.000	15.17	7.80	0.00	2.69
1050	1101	1.076923	GGTGGCGTCTCTCCTCCTA	60.077	63.158	0.00	0.00	35.08	2.94
1283	1378	9.088512	GTACGTATTTCAGATGAGAGAAAATGT	57.911	33.333	0.00	0.00	37.30	2.71
1317	1424	1.669115	GGCGTGTGATGCAGACTGT	60.669	57.895	3.99	0.00	0.00	3.55
1506	1620	3.371917	CCAAGTGCCCCTGAATATCTTCA	60.372	47.826	0.00	0.00	39.07	3.02
1561	1689	4.142816	GCTTTGCTCATGATTGTCGTTAGT	60.143	41.667	0.00	0.00	0.00	2.24
1591	1719	4.232221	GTGACCTTCGTGATTTCGTCTTA	58.768	43.478	0.00	0.00	0.00	2.10
1803	1931	2.226437	GAGATGAAAAGTTGGCGCTTCA	59.774	45.455	7.64	8.81	32.67	3.02
1855	1985	7.931948	TCAAAGAAAAGAGAGTTCTTATCCGTT	59.068	33.333	0.17	0.00	43.00	4.44
1876	2006	1.408683	GCAGTCCAAGTCCATGCCATA	60.409	52.381	0.00	0.00	0.00	2.74
1877	2007	2.750807	GCAGTCCAAGTCCATGCCATAT	60.751	50.000	0.00	0.00	0.00	1.78
1878	2008	3.496692	GCAGTCCAAGTCCATGCCATATA	60.497	47.826	0.00	0.00	0.00	0.86
1879	2009	4.067896	CAGTCCAAGTCCATGCCATATAC	58.932	47.826	0.00	0.00	0.00	1.47
1880	2010	3.067106	GTCCAAGTCCATGCCATATACG	58.933	50.000	0.00	0.00	0.00	3.06
1881	2011	2.703536	TCCAAGTCCATGCCATATACGT	59.296	45.455	0.00	0.00	0.00	3.57
1882	2012	3.135712	TCCAAGTCCATGCCATATACGTT	59.864	43.478	0.00	0.00	0.00	3.99
1883	2013	4.345547	TCCAAGTCCATGCCATATACGTTA	59.654	41.667	0.00	0.00	0.00	3.18
1884	2014	5.060506	CCAAGTCCATGCCATATACGTTAA	58.939	41.667	0.00	0.00	0.00	2.01
1885	2015	5.705441	CCAAGTCCATGCCATATACGTTAAT	59.295	40.000	0.00	0.00	0.00	1.40
1886	2016	6.206634	CCAAGTCCATGCCATATACGTTAATT	59.793	38.462	0.00	0.00	0.00	1.40
1887	2017	6.801539	AGTCCATGCCATATACGTTAATTG	57.198	37.500	0.00	0.00	0.00	2.32
1888	2018	5.181245	AGTCCATGCCATATACGTTAATTGC	59.819	40.000	0.00	0.00	0.00	3.56
1889	2019	4.457603	TCCATGCCATATACGTTAATTGCC	59.542	41.667	0.00	0.00	0.00	4.52
1890	2020	4.458989	CCATGCCATATACGTTAATTGCCT	59.541	41.667	0.00	0.00	0.00	4.75
1891	2021	5.645929	CCATGCCATATACGTTAATTGCCTA	59.354	40.000	0.00	0.00	0.00	3.93
1892	2022	6.150307	CCATGCCATATACGTTAATTGCCTAA	59.850	38.462	0.00	0.00	0.00	2.69
1893	2023	6.795098	TGCCATATACGTTAATTGCCTAAG	57.205	37.500	0.00	0.00	0.00	2.18
1894	2024	6.526526	TGCCATATACGTTAATTGCCTAAGA	58.473	36.000	0.00	0.00	0.00	2.10
1895	2025	6.993308	TGCCATATACGTTAATTGCCTAAGAA	59.007	34.615	0.00	0.00	0.00	2.52
1896	2026	7.499563	TGCCATATACGTTAATTGCCTAAGAAA	59.500	33.333	0.00	0.00	0.00	2.52
1897	2027	7.801783	GCCATATACGTTAATTGCCTAAGAAAC	59.198	37.037	0.00	0.00	0.00	2.78
1898	2028	8.007716	CCATATACGTTAATTGCCTAAGAAACG	58.992	37.037	0.00	4.09	40.64	3.60
1899	2029	4.673534	ACGTTAATTGCCTAAGAAACGG	57.326	40.909	9.78	0.00	39.86	4.44
1900	2030	4.317488	ACGTTAATTGCCTAAGAAACGGA	58.683	39.130	9.78	0.00	39.86	4.69
1901	2031	4.939439	ACGTTAATTGCCTAAGAAACGGAT	59.061	37.500	9.78	0.00	39.86	4.18
1902	2032	6.108015	ACGTTAATTGCCTAAGAAACGGATA	58.892	36.000	9.78	0.00	39.86	2.59
1903	2033	6.036408	ACGTTAATTGCCTAAGAAACGGATAC	59.964	38.462	9.78	0.00	39.86	2.24
1904	2034	6.036300	CGTTAATTGCCTAAGAAACGGATACA	59.964	38.462	0.00	0.00	35.72	2.29
1905	2035	7.413219	CGTTAATTGCCTAAGAAACGGATACAA	60.413	37.037	0.00	0.00	35.72	2.41
1906	2036	6.827586	AATTGCCTAAGAAACGGATACAAA	57.172	33.333	0.00	0.00	0.00	2.83
1907	2037	6.827586	ATTGCCTAAGAAACGGATACAAAA	57.172	33.333	0.00	0.00	0.00	2.44
1908	2038	6.827586	TTGCCTAAGAAACGGATACAAAAT	57.172	33.333	0.00	0.00	0.00	1.82
1909	2039	6.189677	TGCCTAAGAAACGGATACAAAATG	57.810	37.500	0.00	0.00	0.00	2.32
1910	2040	5.124776	TGCCTAAGAAACGGATACAAAATGG	59.875	40.000	0.00	0.00	0.00	3.16
2030	2160	4.473520	CCCAATCTGGCTCGCCGT	62.474	66.667	3.14	0.00	35.79	5.68
2050	2180	3.148279	CTCCCGCGACTAGGCCTT	61.148	66.667	12.58	0.00	0.00	4.35
2117	2247	1.071471	CAACGGCCCTTCTCTGTGT	59.929	57.895	0.00	0.00	0.00	3.72
2120	2250	1.371183	CGGCCCTTCTCTGTGTTGA	59.629	57.895	0.00	0.00	0.00	3.18
2121	2251	0.250295	CGGCCCTTCTCTGTGTTGAA	60.250	55.000	0.00	0.00	0.00	2.69
2123	2253	2.087646	GGCCCTTCTCTGTGTTGAATC	58.912	52.381	0.00	0.00	0.00	2.52
2308	2438	3.937062	GGGGCGCGCATTAACTCG	61.937	66.667	34.42	0.00	0.00	4.18
2309	2439	2.888534	GGGCGCGCATTAACTCGA	60.889	61.111	34.42	0.00	0.00	4.04
2323	2453	2.829003	TCGAGTAGCTGGGCCGAG	60.829	66.667	10.99	10.99	0.00	4.63

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
28	29	1.819208	CGAAGGCCGGCATTGATGA	60.819	57.895	33.60	0.00	33.91	2.92
267	269	1.344942	CGCCGACTCTCAAACCTTCG	61.345	60.000	0.00	0.00	0.00	3.79
308	310	6.254589	GGATTTGTCTGATCAAGTTCTCGTAG	59.745	42.308	0.00	0.00	0.00	3.51
362	364	1.976898	CGGGCTACACTACAACCCA	59.023	57.895	0.00	0.00	40.87	4.51
401	403	3.353029	CGTGCGTGATGTGGGCAA	61.353	61.111	0.00	0.00	38.58	4.52
609	631	3.742983	GGATTCTCTCCACGTCCAC	57.257	57.895	0.00	0.00	44.26	4.02
642	664	1.153429	GCTACCCCGATTGCGTTCT	60.153	57.895	0.00	0.00	35.23	3.01
677	702	0.034186	TGCCCTGCCCTTGATTACAG	60.034	55.000	0.00	0.00	0.00	2.74
817	844	1.743995	GGCGTAAATGGTCTGCGGT	60.744	57.895	0.00	0.00	0.00	5.68
912	939	5.945784	TGTGATGGTTAAATAGAGCAAAGCT	59.054	36.000	0.00	0.00	43.88	3.74
1426	1533	1.302033	CGCAGGTCTCCTTGTTGCT	60.302	57.895	0.00	0.00	32.80	3.91
1506	1620	8.785184	ACTCTACTAAGATATTTAGGTTGGCT	57.215	34.615	8.54	0.00	0.00	4.75
1561	1689	0.032403	CACGAAGGTCACCGGTAACA	59.968	55.000	10.80	0.00	0.00	2.41
1591	1719	0.544697	AACACCGTTCCTTCCACACT	59.455	50.000	0.00	0.00	0.00	3.55
1812	1940	1.330655	TGAATGAGGGACGAGGGAGC	61.331	60.000	0.00	0.00	0.00	4.70
1827	1955	8.940952	CGGATAAGAACTCTCTTTTCTTTGAAT	58.059	33.333	2.86	0.00	39.77	2.57
1855	1985	1.303561	GGCATGGACTTGGACTGCA	60.304	57.895	0.00	0.00	34.56	4.41
1876	2006	6.108015	TCCGTTTCTTAGGCAATTAACGTAT	58.892	36.000	0.00	0.00	37.31	3.06
1877	2007	5.477510	TCCGTTTCTTAGGCAATTAACGTA	58.522	37.500	0.00	0.00	37.31	3.57
1878	2008	4.317488	TCCGTTTCTTAGGCAATTAACGT	58.683	39.130	0.00	0.00	37.31	3.99
1879	2009	4.932268	TCCGTTTCTTAGGCAATTAACG	57.068	40.909	0.00	0.00	38.36	3.18
1880	2010	7.311364	TGTATCCGTTTCTTAGGCAATTAAC	57.689	36.000	0.00	0.00	0.00	2.01
1881	2011	7.925043	TTGTATCCGTTTCTTAGGCAATTAA	57.075	32.000	0.00	0.00	0.00	1.40
1882	2012	7.925043	TTTGTATCCGTTTCTTAGGCAATTA	57.075	32.000	0.00	0.00	0.00	1.40
1883	2013	6.827586	TTTGTATCCGTTTCTTAGGCAATT	57.172	33.333	0.00	0.00	0.00	2.32
1884	2014	6.827586	TTTTGTATCCGTTTCTTAGGCAAT	57.172	33.333	0.00	0.00	0.00	3.56
1885	2015	6.349777	CCATTTTGTATCCGTTTCTTAGGCAA	60.350	38.462	0.00	0.00	0.00	4.52
1886	2016	5.124776	CCATTTTGTATCCGTTTCTTAGGCA	59.875	40.000	0.00	0.00	0.00	4.75
1887	2017	5.578776	CCATTTTGTATCCGTTTCTTAGGC	58.421	41.667	0.00	0.00	0.00	3.93
1888	2018	5.124776	TGCCATTTTGTATCCGTTTCTTAGG	59.875	40.000	0.00	0.00	0.00	2.69
1889	2019	6.189677	TGCCATTTTGTATCCGTTTCTTAG	57.810	37.500	0.00	0.00	0.00	2.18
1890	2020	6.576662	TTGCCATTTTGTATCCGTTTCTTA	57.423	33.333	0.00	0.00	0.00	2.10
1891	2021	5.461032	TTGCCATTTTGTATCCGTTTCTT	57.539	34.783	0.00	0.00	0.00	2.52
1892	2022	5.461032	TTTGCCATTTTGTATCCGTTTCT	57.539	34.783	0.00	0.00	0.00	2.52
1893	2023	6.532365	TTTTTGCCATTTTGTATCCGTTTC	57.468	33.333	0.00	0.00	0.00	2.78
1894	2024	6.072783	CCATTTTTGCCATTTTGTATCCGTTT	60.073	34.615	0.00	0.00	0.00	3.60
1895	2025	5.411053	CCATTTTTGCCATTTTGTATCCGTT	59.589	36.000	0.00	0.00	0.00	4.44
1896	2026	4.934602	CCATTTTTGCCATTTTGTATCCGT	59.065	37.500	0.00	0.00	0.00	4.69
1897	2027	4.201802	GCCATTTTTGCCATTTTGTATCCG	60.202	41.667	0.00	0.00	0.00	4.18
1898	2028	4.943093	AGCCATTTTTGCCATTTTGTATCC	59.057	37.500	0.00	0.00	0.00	2.59
1899	2029	5.220453	CGAGCCATTTTTGCCATTTTGTATC	60.220	40.000	0.00	0.00	0.00	2.24
1900	2030	4.630940	CGAGCCATTTTTGCCATTTTGTAT	59.369	37.500	0.00	0.00	0.00	2.29
1901	2031	3.993081	CGAGCCATTTTTGCCATTTTGTA	59.007	39.130	0.00	0.00	0.00	2.41
1902	2032	2.807392	CGAGCCATTTTTGCCATTTTGT	59.193	40.909	0.00	0.00	0.00	2.83
1903	2033	2.807392	ACGAGCCATTTTTGCCATTTTG	59.193	40.909	0.00	0.00	0.00	2.44
1904	2034	3.066380	GACGAGCCATTTTTGCCATTTT	58.934	40.909	0.00	0.00	0.00	1.82
1905	2035	2.612721	GGACGAGCCATTTTTGCCATTT	60.613	45.455	0.00	0.00	36.34	2.32
1906	2036	1.066929	GGACGAGCCATTTTTGCCATT	60.067	47.619	0.00	0.00	36.34	3.16
1907	2037	0.532115	GGACGAGCCATTTTTGCCAT	59.468	50.000	0.00	0.00	36.34	4.40
1908	2038	1.531739	GGGACGAGCCATTTTTGCCA	61.532	55.000	0.00	0.00	38.95	4.92
1909	2039	1.215382	GGGACGAGCCATTTTTGCC	59.785	57.895	0.00	0.00	38.95	4.52
1910	2040	1.215382	GGGGACGAGCCATTTTTGC	59.785	57.895	0.00	0.00	38.95	3.68
2060	2190	4.087892	GAAGCCCCAGAGCAGCGA	62.088	66.667	0.00	0.00	34.23	4.93
2117	2247	2.297315	CCCGATCCAGATCTCGATTCAA	59.703	50.000	4.21	0.00	37.05	2.69
2120	2250	2.294449	TCCCGATCCAGATCTCGATT	57.706	50.000	4.21	0.00	37.05	3.34
2121	2251	1.889829	GTTCCCGATCCAGATCTCGAT	59.110	52.381	2.08	2.08	37.05	3.59
2123	2253	1.323412	AGTTCCCGATCCAGATCTCG	58.677	55.000	6.12	0.00	35.72	4.04
2190	2320	1.677552	GGAACCACGGACACCTCAT	59.322	57.895	0.00	0.00	0.00	2.90
2191	2321	2.863346	CGGAACCACGGACACCTCA	61.863	63.158	0.00	0.00	0.00	3.86
2289	2419	4.109675	AGTTAATGCGCGCCCCCT	62.110	61.111	30.77	14.12	0.00	4.79
2291	2421	3.937062	CGAGTTAATGCGCGCCCC	61.937	66.667	30.77	11.50	0.00	5.80
2308	2438	2.760385	ACCTCGGCCCAGCTACTC	60.760	66.667	0.00	0.00	0.00	2.59
2309	2439	2.760385	GACCTCGGCCCAGCTACT	60.760	66.667	0.00	0.00	0.00	2.57
2410	2540	4.430765	GACGCGACGGTGACCCAT	62.431	66.667	15.93	0.00	0.00	4.00

Based at the University of Bristol with support from BBSRC.

AutoCloner maintained by Alex Coulton.