AutoCloner

Multiple sequence alignment - TraesCS2D01G398900

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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	TraesCS2D01G398900	chr2D	100.000	2490	0	0	1	2490	512036288	512033799	0.000000e+00	4599.0
1	TraesCS2D01G398900	chr2D	93.718	1942	110	10	1	1931	102818799	102816859	0.000000e+00	2900.0
2	TraesCS2D01G398900	chr2D	89.831	177	15	3	2000	2174	587159175	587159000	8.960000e-55	224.0
3	TraesCS2D01G398900	chr2D	89.024	82	6	3	2074	2153	587159177	587159097	5.670000e-17	99.0
4	TraesCS2D01G398900	chr6D	93.588	1934	114	8	1	1925	83084016	83085948	0.000000e+00	2876.0
5	TraesCS2D01G398900	chr6D	87.097	186	20	4	2000	2182	334244897	334244713	9.030000e-50	207.0
6	TraesCS2D01G398900	chr1D	93.588	1934	115	7	1	1925	405758670	405756737	0.000000e+00	2876.0
7	TraesCS2D01G398900	chr7D	92.947	1900	125	7	1	1893	133094607	133092710	0.000000e+00	2758.0
8	TraesCS2D01G398900	chr7D	82.787	366	58	5	2042	2403	465485704	465486068	3.090000e-84	322.0
9	TraesCS2D01G398900	chr7D	83.333	354	52	4	2088	2436	30285435	30285084	1.110000e-83	320.0
10	TraesCS2D01G398900	chr7D	92.000	75	6	0	2000	2074	30285449	30285375	3.390000e-19	106.0
11	TraesCS2D01G398900	chr7D	88.235	68	4	2	1930	1993	100233480	100233547	7.380000e-11	78.7
12	TraesCS2D01G398900	chr3B	92.443	1932	132	11	1	1924	187545736	187543811	0.000000e+00	2747.0
13	TraesCS2D01G398900	chr6A	91.990	1935	144	8	1	1925	606648267	606646334	0.000000e+00	2704.0
14	TraesCS2D01G398900	chr6A	86.081	467	59	6	2000	2462	473610121	473609657	4.780000e-137	497.0
15	TraesCS2D01G398900	chr7B	91.981	1933	143	10	1	1925	587483894	587485822	0.000000e+00	2700.0
16	TraesCS2D01G398900	chr7B	91.602	1941	150	11	1	1931	587444567	587446504	0.000000e+00	2669.0
17	TraesCS2D01G398900	chr7B	86.207	87	8	3	2399	2481	508138880	508138794	9.480000e-15	91.6
18	TraesCS2D01G398900	chr5B	91.697	1939	147	9	1	1925	467379884	467377946	0.000000e+00	2676.0
19	TraesCS2D01G398900	chr2A	88.287	572	41	12	1926	2490	655217741	655217189	0.000000e+00	662.0
20	TraesCS2D01G398900	chr3A	89.136	359	31	6	1926	2278	501226389	501226033	8.170000e-120	440.0
21	TraesCS2D01G398900	chr3A	89.855	69	3	3	1930	1994	654061265	654061333	4.410000e-13	86.1
22	TraesCS2D01G398900	chr7A	82.768	354	54	4	2088	2436	30675086	30674735	2.410000e-80	309.0
23	TraesCS2D01G398900	chr7A	90.789	76	4	3	2000	2074	30675100	30675027	5.670000e-17	99.0
24	TraesCS2D01G398900	chr7A	87.143	70	5	3	1929	1994	154336585	154336654	2.660000e-10	76.8
25	TraesCS2D01G398900	chr6B	80.263	304	37	18	2074	2362	495426495	495426790	9.030000e-50	207.0
26	TraesCS2D01G398900	chr6B	85.484	186	23	4	2000	2182	486080999	486081183	9.090000e-45	191.0
27	TraesCS2D01G398900	chr6B	87.179	78	6	2	1929	2002	486080874	486080951	4.410000e-13	86.1
28	TraesCS2D01G398900	chr2B	88.608	79	5	2	1928	2002	773172887	773172965	2.640000e-15	93.5
29	TraesCS2D01G398900	chr5D	88.000	75	4	2	2000	2074	365031679	365031610	1.590000e-12	84.2
30	TraesCS2D01G398900	chr1B	88.732	71	4	2	1928	1994	387757804	387757874	1.590000e-12	84.2

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	TraesCS2D01G398900	chr2D	512033799	512036288	2489	True	4599	4599	100.000	1	2490	1	chr2D.!!$R2	2489
1	TraesCS2D01G398900	chr2D	102816859	102818799	1940	True	2900	2900	93.718	1	1931	1	chr2D.!!$R1	1930
2	TraesCS2D01G398900	chr6D	83084016	83085948	1932	False	2876	2876	93.588	1	1925	1	chr6D.!!$F1	1924
3	TraesCS2D01G398900	chr1D	405756737	405758670	1933	True	2876	2876	93.588	1	1925	1	chr1D.!!$R1	1924
4	TraesCS2D01G398900	chr7D	133092710	133094607	1897	True	2758	2758	92.947	1	1893	1	chr7D.!!$R1	1892
5	TraesCS2D01G398900	chr3B	187543811	187545736	1925	True	2747	2747	92.443	1	1924	1	chr3B.!!$R1	1923
6	TraesCS2D01G398900	chr6A	606646334	606648267	1933	True	2704	2704	91.990	1	1925	1	chr6A.!!$R2	1924
7	TraesCS2D01G398900	chr7B	587483894	587485822	1928	False	2700	2700	91.981	1	1925	1	chr7B.!!$F2	1924
8	TraesCS2D01G398900	chr7B	587444567	587446504	1937	False	2669	2669	91.602	1	1931	1	chr7B.!!$F1	1930
9	TraesCS2D01G398900	chr5B	467377946	467379884	1938	True	2676	2676	91.697	1	1925	1	chr5B.!!$R1	1924
10	TraesCS2D01G398900	chr2A	655217189	655217741	552	True	662	662	88.287	1926	2490	1	chr2A.!!$R1	564

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
536	544	0.843309	TGGCGGGTATGTGATGGATT	59.157	50.0	0.0	0.0	0.0	3.01	F

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability	Orientation
1746	1762	1.324736	GCAGTCCGACTTATCTTTGCG	59.675	52.381	0.0	0.0	0.0	4.85	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
151	155	6.769512	TCAAAACAGTAATTCAGGCTCTACT	58.230	36.000	0.00	0.00	0.00	2.57
375	383	1.067213	GCATGGCGGTTGTTGGTTTAT	60.067	47.619	0.00	0.00	0.00	1.40
384	392	3.129813	GGTTGTTGGTTTATCCGGATTCC	59.870	47.826	24.71	21.40	39.52	3.01
419	427	6.485171	AGTTGATGAAGGCAAAGTATTACCT	58.515	36.000	0.00	0.00	36.43	3.08
426	434	3.053619	AGGCAAAGTATTACCTTCAGGGG	60.054	47.826	0.00	0.00	40.27	4.79
431	439	4.976540	AGTATTACCTTCAGGGGCATAC	57.023	45.455	0.00	1.33	40.27	2.39
436	444	1.840635	ACCTTCAGGGGCATACTCTTC	59.159	52.381	0.00	0.00	40.27	2.87
444	452	2.288886	GGGGCATACTCTTCATACGGTC	60.289	54.545	0.00	0.00	0.00	4.79
499	507	2.969821	TACACATGGCCTGGAACTTT	57.030	45.000	3.32	0.00	0.00	2.66
536	544	0.843309	TGGCGGGTATGTGATGGATT	59.157	50.000	0.00	0.00	0.00	3.01
614	622	5.602561	TCTCAGCTAGAAGGCATAATACCAA	59.397	40.000	0.00	0.00	34.17	3.67
625	633	7.480760	AGGCATAATACCAAGTTGAAATTGT	57.519	32.000	3.87	0.00	0.00	2.71
628	636	9.083080	GGCATAATACCAAGTTGAAATTGTTAC	57.917	33.333	3.87	0.00	0.00	2.50
651	659	2.143122	GATTTATTCATGAGCGGGCGA	58.857	47.619	0.00	0.00	0.00	5.54
683	691	8.010733	TGGGATGAAAATTTGATCAAGTATCC	57.989	34.615	16.59	16.59	33.22	2.59
701	709	7.565190	AGTATCCATTCTATCCACATGATGT	57.435	36.000	0.00	0.00	34.76	3.06
836	844	5.659849	AATTTGAAGGATAGCCAGGATCT	57.340	39.130	0.00	0.00	36.29	2.75
975	983	3.316588	TGGCAGTCGAGATGAATAGAGTC	59.683	47.826	1.78	0.00	0.00	3.36
1016	1024	9.447157	TGATTCATGTATGTGTTCTATTTGTGA	57.553	29.630	0.00	0.00	0.00	3.58
1093	1101	2.039818	TCGAATAGCCGTGAGAGAGT	57.960	50.000	0.00	0.00	0.00	3.24
1138	1146	1.211703	TCTTCAAGTGCACAGGACCAA	59.788	47.619	21.04	1.77	0.00	3.67
1139	1147	1.334869	CTTCAAGTGCACAGGACCAAC	59.665	52.381	21.04	0.00	0.00	3.77
1192	1200	1.598701	GCGGCAAAGGGAGCAAATCT	61.599	55.000	0.00	0.00	0.00	2.40
1308	1318	1.670791	TTTGGACCACTTTCACGTCC	58.329	50.000	0.00	0.00	45.30	4.79
1310	1320	3.390003	GGACCACTTTCACGTCCAA	57.610	52.632	0.62	0.00	44.60	3.53
1320	1330	3.401033	TTCACGTCCAATCATGACACT	57.599	42.857	0.00	0.00	32.91	3.55
1332	1342	3.959293	TCATGACACTGCTCAATTGGAT	58.041	40.909	5.42	0.00	0.00	3.41
1408	1420	2.496899	AAGATCATGTGGTGTGGACC	57.503	50.000	0.00	0.00	43.48	4.46
1422	1434	1.774631	GGACCCCTCCCCCTAATGG	60.775	68.421	0.00	0.00	0.00	3.16
1424	1436	0.626574	GACCCCTCCCCCTAATGGTT	60.627	60.000	0.00	0.00	0.00	3.67
1509	1522	5.505819	CGTAGCTCGTAATTCATCTGGAGAA	60.506	44.000	0.00	0.00	34.52	2.87
1513	1526	6.825721	AGCTCGTAATTCATCTGGAGAAATTT	59.174	34.615	0.00	0.00	0.00	1.82
1560	1573	2.029380	TCGGTGTACCAGTGTGAATGAG	60.029	50.000	1.50	0.00	35.14	2.90
1702	1718	1.421480	CCCTCTGGCTGATCTGATGA	58.579	55.000	3.42	0.00	0.00	2.92
1732	1748	8.786838	AGGCTCTTAGTATATCTAGGATGATCA	58.213	37.037	0.00	0.00	34.90	2.92
1825	1841	4.736611	AGTACTAGGTCCGATGGGATTA	57.263	45.455	0.00	0.00	46.14	1.75
1830	1846	7.731688	AGTACTAGGTCCGATGGGATTATTTTA	59.268	37.037	0.00	0.00	46.14	1.52
1849	1865	3.561120	AATTCCGTTCCGCCCTGCA	62.561	57.895	0.00	0.00	0.00	4.41
1952	1968	9.613428	ACTGACCATTCGATTTCTTATCAATTA	57.387	29.630	0.00	0.00	0.00	1.40
1974	1994	8.783833	ATTATGATTCTGCCATGTGTACTATC	57.216	34.615	0.00	0.00	0.00	2.08
1985	2005	6.702282	GCCATGTGTACTATCTAGAAGTTTCC	59.298	42.308	11.25	3.93	0.00	3.13
1986	2006	7.632898	GCCATGTGTACTATCTAGAAGTTTCCA	60.633	40.741	11.25	7.36	0.00	3.53
2032	2052	4.524053	TCTTTCATGCATGATCTTGCTCT	58.476	39.130	29.13	16.04	43.18	4.09
2034	2054	5.758784	TCTTTCATGCATGATCTTGCTCTAG	59.241	40.000	29.13	18.67	43.18	2.43
2039	2059	5.450592	TGCATGATCTTGCTCTAGTAGAG	57.549	43.478	27.81	21.00	45.04	2.43
2045	2065	7.328277	TGATCTTGCTCTAGTAGAGTTTCTC	57.672	40.000	24.74	16.21	44.12	2.87
2062	2082	3.513680	TCTCGCTTGAATAAAGGCGTA	57.486	42.857	0.00	0.00	37.00	4.42
2100	2121	9.955102	TTTATTATAGATCTTCATGCATGCTCT	57.045	29.630	22.25	19.84	0.00	4.09
2105	2126	2.014857	TCTTCATGCATGCTCTTGCTC	58.985	47.619	22.25	0.00	43.18	4.26
2120	2141	4.748892	TCTTGCTCCATTAGAGTTTCTCG	58.251	43.478	0.00	0.00	45.21	4.04
2121	2142	2.893637	TGCTCCATTAGAGTTTCTCGC	58.106	47.619	0.00	0.00	45.21	5.03
2132	2153	9.267096	CATTAGAGTTTCTCGCTTGAATAAAAC	57.733	33.333	0.00	0.00	35.36	2.43
2134	2155	7.123160	AGAGTTTCTCGCTTGAATAAAACTC	57.877	36.000	14.70	14.70	35.36	3.01
2201	2222	7.830099	AAAGACTTCTGATCAACCATTTCTT	57.170	32.000	0.00	0.00	0.00	2.52
2205	2226	7.939039	AGACTTCTGATCAACCATTTCTTACAA	59.061	33.333	0.00	0.00	0.00	2.41
2206	2227	8.641498	ACTTCTGATCAACCATTTCTTACAAT	57.359	30.769	0.00	0.00	0.00	2.71
2253	2274	6.389091	TCAATCAAATGTTGCAACACTATCC	58.611	36.000	33.29	4.07	42.51	2.59
2255	2276	5.627499	TCAAATGTTGCAACACTATCCTC	57.373	39.130	33.29	2.47	42.51	3.71
2256	2277	5.316167	TCAAATGTTGCAACACTATCCTCT	58.684	37.500	33.29	13.17	42.51	3.69
2269	2290	8.986847	CAACACTATCCTCTCATATTCATGAAC	58.013	37.037	11.07	0.00	40.66	3.18
2283	2305	8.906867	CATATTCATGAACTTAACCATTGAGGT	58.093	33.333	11.07	0.00	43.47	3.85
2320	2342	8.851960	ATGTGTTATATATACGTATTGGAGCG	57.148	34.615	14.33	0.00	0.00	5.03

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
65	66	6.976934	ATCCAGTCAGAAAGCCTTTAAAAA	57.023	33.333	0.00	0.00	0.00	1.94
151	155	3.637911	AAATCCCCATAGCGTACACAA	57.362	42.857	0.00	0.00	0.00	3.33
207	211	7.184936	TCCCCACCAAAAGTTCCTTATAATCTA	59.815	37.037	0.00	0.00	0.00	1.98
375	383	0.757561	TCGCACATAGGGAATCCGGA	60.758	55.000	6.61	6.61	36.09	5.14
384	392	3.310774	CCTTCATCAACTTCGCACATAGG	59.689	47.826	0.00	0.00	0.00	2.57
419	427	3.069586	CGTATGAAGAGTATGCCCCTGAA	59.930	47.826	0.00	0.00	0.00	3.02
426	434	4.745620	GGAAAGACCGTATGAAGAGTATGC	59.254	45.833	0.00	0.00	0.00	3.14
444	452	2.094894	CACAGAACTAGCATGCGGAAAG	59.905	50.000	13.01	11.05	0.00	2.62
499	507	3.699038	CGCCAAATGATCCCCTTCTTAAA	59.301	43.478	0.00	0.00	0.00	1.52
651	659	5.549742	TCAAATTTTCATCCCAGCACTTT	57.450	34.783	0.00	0.00	0.00	2.66
701	709	9.326413	GAATACGAATCTTAAGAATTTCCTCCA	57.674	33.333	9.71	0.00	0.00	3.86
872	880	7.420624	TTCCATATTATCTCCCAAATCCCTT	57.579	36.000	0.00	0.00	0.00	3.95
957	965	4.642437	TGCTTGACTCTATTCATCTCGACT	59.358	41.667	0.00	0.00	0.00	4.18
961	969	5.016051	TGGTGCTTGACTCTATTCATCTC	57.984	43.478	0.00	0.00	0.00	2.75
975	983	3.340928	TGAATCAGTCTGATGGTGCTTG	58.659	45.455	16.15	0.00	37.15	4.01
1080	1088	2.279069	CCACCACTCTCTCACGGCT	61.279	63.158	0.00	0.00	0.00	5.52
1138	1146	4.040217	TGCCAGCAAAATCAATAACCAAGT	59.960	37.500	0.00	0.00	0.00	3.16
1139	1147	4.389687	GTGCCAGCAAAATCAATAACCAAG	59.610	41.667	0.00	0.00	0.00	3.61
1192	1200	2.020720	TGCTCGCCAGAAAAGAAACAA	58.979	42.857	0.00	0.00	0.00	2.83
1308	1318	4.157105	TCCAATTGAGCAGTGTCATGATTG	59.843	41.667	7.12	0.00	29.77	2.67
1310	1320	3.959293	TCCAATTGAGCAGTGTCATGAT	58.041	40.909	7.12	0.00	0.00	2.45
1320	1330	2.423446	TGCTAGCATCCAATTGAGCA	57.577	45.000	14.93	10.03	37.58	4.26
1332	1342	3.326588	TCTCCTTACCTTTGTTGCTAGCA	59.673	43.478	14.93	14.93	0.00	3.49
1408	1420	4.444611	TGATATAACCATTAGGGGGAGGG	58.555	47.826	0.00	0.00	42.91	4.30
1422	1434	7.072030	GGCGTCAACATTGATCTTGATATAAC	58.928	38.462	0.00	0.00	39.73	1.89
1424	1436	6.287525	TGGCGTCAACATTGATCTTGATATA	58.712	36.000	0.00	0.00	39.73	0.86
1509	1522	7.994425	AAAGTCCCACAAAGAAACAAAAATT	57.006	28.000	0.00	0.00	0.00	1.82
1513	1526	7.841956	TCAATAAAGTCCCACAAAGAAACAAA	58.158	30.769	0.00	0.00	0.00	2.83
1702	1718	9.420118	CATCCTAGATATACTAAGAGCCTCATT	57.580	37.037	0.00	0.00	0.00	2.57
1738	1754	8.088981	AGTCCGACTTATCTTTGCGATATTAAT	58.911	33.333	0.00	0.00	34.68	1.40
1746	1762	1.324736	GCAGTCCGACTTATCTTTGCG	59.675	52.381	0.00	0.00	0.00	4.85
1849	1865	4.765273	TCATTCGTTACAGCATACACCAT	58.235	39.130	0.00	0.00	0.00	3.55
1936	1952	9.552114	GGCAGAATCATAATTGATAAGAAATCG	57.448	33.333	0.00	0.00	41.83	3.34
1943	1959	8.467963	ACACATGGCAGAATCATAATTGATAA	57.532	30.769	0.00	0.00	41.83	1.75
1952	1968	6.430962	AGATAGTACACATGGCAGAATCAT	57.569	37.500	0.00	0.00	0.00	2.45
1953	1969	5.876651	AGATAGTACACATGGCAGAATCA	57.123	39.130	0.00	0.00	0.00	2.57
1958	1978	6.398234	ACTTCTAGATAGTACACATGGCAG	57.602	41.667	0.00	0.00	0.00	4.85
2003	2023	7.041303	GCAAGATCATGCATGAAAGATTCTAGA	60.041	37.037	31.79	6.12	45.70	2.43
2014	2034	8.610339	ACTCTACTAGAGCAAGATCATGCATGA	61.610	40.741	30.47	30.47	46.12	3.07
2015	2035	6.517027	ACTCTACTAGAGCAAGATCATGCATG	60.517	42.308	23.62	21.07	46.12	4.06
2016	2036	5.539574	ACTCTACTAGAGCAAGATCATGCAT	59.460	40.000	23.62	14.35	46.12	3.96
2017	2037	4.892345	ACTCTACTAGAGCAAGATCATGCA	59.108	41.667	23.62	3.63	46.12	3.96
2018	2038	5.452078	ACTCTACTAGAGCAAGATCATGC	57.548	43.478	14.96	14.96	46.12	4.06
2019	2039	7.715657	AGAAACTCTACTAGAGCAAGATCATG	58.284	38.462	12.36	0.00	46.12	3.07
2032	2052	7.974501	CCTTTATTCAAGCGAGAAACTCTACTA	59.025	37.037	0.00	0.00	0.00	1.82
2034	2054	6.455780	GCCTTTATTCAAGCGAGAAACTCTAC	60.456	42.308	0.00	0.00	0.00	2.59
2039	2059	3.120304	ACGCCTTTATTCAAGCGAGAAAC	60.120	43.478	10.49	0.00	36.27	2.78
2045	2065	2.869801	TGGATACGCCTTTATTCAAGCG	59.130	45.455	1.18	1.18	42.51	4.68
2078	2098	6.148976	GCAAGAGCATGCATGAAGATCTATAA	59.851	38.462	30.64	0.00	45.70	0.98
2080	2100	4.456222	GCAAGAGCATGCATGAAGATCTAT	59.544	41.667	30.64	11.46	45.70	1.98
2100	2121	3.055819	AGCGAGAAACTCTAATGGAGCAA	60.056	43.478	0.00	0.00	45.48	3.91
2105	2126	7.539712	TTATTCAAGCGAGAAACTCTAATGG	57.460	36.000	0.00	0.00	0.00	3.16
2182	2203	8.186821	GGATTGTAAGAAATGGTTGATCAGAAG	58.813	37.037	0.00	0.00	0.00	2.85
2185	2206	7.395190	TGGATTGTAAGAAATGGTTGATCAG	57.605	36.000	0.00	0.00	0.00	2.90
2218	2239	9.322773	TGCAACATTTGATTGAAATTCTTTGTA	57.677	25.926	0.00	0.00	31.41	2.41
2219	2240	8.211116	TGCAACATTTGATTGAAATTCTTTGT	57.789	26.923	0.00	0.00	31.41	2.83
2256	2277	9.123902	CCTCAATGGTTAAGTTCATGAATATGA	57.876	33.333	12.12	1.11	41.44	2.15
2320	2342	2.359214	GGGAAAACCTTAGCTGCATAGC	59.641	50.000	1.02	0.00	42.75	2.97
2391	2413	7.430441	ACTGACACGTACATATTACATGCATA	58.570	34.615	0.00	0.00	0.00	3.14
2397	2419	7.438757	ACAAACAACTGACACGTACATATTACA	59.561	33.333	0.00	0.00	0.00	2.41
2436	2458	8.642908	TTCACGTGAGTTGGATATATTGTTAG	57.357	34.615	19.11	0.00	46.40	2.34
2446	2468	2.290641	GTGCTTTTCACGTGAGTTGGAT	59.709	45.455	19.11	0.00	46.40	3.41

Based at the University of Bristol with support from BBSRC.

AutoCloner maintained by Alex Coulton.