AutoCloner

Multiple sequence alignment - TraesCS7D01G236500

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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	TraesCS7D01G236500	chr7D	100.000	2354	0	0	1	2354	199527870	199525517	0.000000e+00	4348.0
1	TraesCS7D01G236500	chr7D	98.177	2194	33	2	168	2354	459950141	459952334	0.000000e+00	3823.0
2	TraesCS7D01G236500	chr7D	85.496	131	14	5	151	278	213056748	213056620	5.280000e-27	132.0
3	TraesCS7D01G236500	chr5D	98.684	2203	26	3	155	2354	475866421	475864219	0.000000e+00	3904.0
4	TraesCS7D01G236500	chr5D	97.590	2158	32	6	199	2354	320405050	320402911	0.000000e+00	3679.0
5	TraesCS7D01G236500	chr5D	99.376	801	5	0	155	955	475868024	475867224	0.000000e+00	1452.0
6	TraesCS7D01G236500	chr5D	99.252	802	5	1	155	955	475867223	475866422	0.000000e+00	1447.0
7	TraesCS7D01G236500	chr5D	98.876	801	7	2	155	955	475868823	475868025	0.000000e+00	1428.0
8	TraesCS7D01G236500	chr1D	97.816	2198	30	6	159	2354	209366682	209368863	0.000000e+00	3777.0
9	TraesCS7D01G236500	chr2D	97.508	1806	25	3	154	1957	9572340	9570553	0.000000e+00	3068.0
10	TraesCS7D01G236500	chr2D	97.324	411	10	1	1945	2354	9570534	9570124	0.000000e+00	697.0
11	TraesCS7D01G236500	chr7A	91.337	1847	76	18	570	2354	369529211	369527387	0.000000e+00	2447.0
12	TraesCS7D01G236500	chr7A	91.919	99	8	0	57	155	106411220	106411318	3.150000e-29	139.0
13	TraesCS7D01G236500	chr6B	96.988	1162	26	3	323	1476	9852199	9853359	0.000000e+00	1943.0
14	TraesCS7D01G236500	chr6B	97.140	874	23	2	1482	2354	9853411	9854283	0.000000e+00	1474.0
15	TraesCS7D01G236500	chr2A	95.705	908	37	2	570	1476	753533542	753532636	0.000000e+00	1459.0
16	TraesCS7D01G236500	chr2A	93.590	624	21	4	1482	2090	753532584	753531965	0.000000e+00	913.0
17	TraesCS7D01G236500	chr2A	97.315	149	4	0	2206	2354	753531600	753531452	1.080000e-63	254.0
18	TraesCS7D01G236500	chr2A	94.839	155	7	1	1	155	21994088	21994241	8.410000e-60	241.0
19	TraesCS7D01G236500	chr4A	96.110	874	31	3	1482	2354	650381906	650381035	0.000000e+00	1423.0
20	TraesCS7D01G236500	chr4A	96.689	151	4	1	1327	1476	650382108	650381958	1.400000e-62	250.0
21	TraesCS7D01G236500	chr2B	96.711	152	5	0	4	155	758040619	758040468	1.080000e-63	254.0
22	TraesCS7D01G236500	chr4B	91.613	155	13	0	1	155	168271825	168271979	5.100000e-52	215.0
23	TraesCS7D01G236500	chr4B	88.722	133	7	6	153	281	88427887	88428015	3.130000e-34	156.0
24	TraesCS7D01G236500	chr6A	91.503	153	7	4	4	155	563487443	563487296	3.070000e-49	206.0
25	TraesCS7D01G236500	chr5B	89.375	160	12	1	1	155	668606415	668606574	1.850000e-46	196.0
26	TraesCS7D01G236500	chr1A	95.918	49	2	0	1	49	13138901	13138853	1.940000e-11	80.5

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	TraesCS7D01G236500	chr7D	199525517	199527870	2353	True	4348.000000	4348	100.000000	1	2354	1	chr7D.!!$R1	2353
1	TraesCS7D01G236500	chr7D	459950141	459952334	2193	False	3823.000000	3823	98.177000	168	2354	1	chr7D.!!$F1	2186
2	TraesCS7D01G236500	chr5D	320402911	320405050	2139	True	3679.000000	3679	97.590000	199	2354	1	chr5D.!!$R1	2155
3	TraesCS7D01G236500	chr5D	475864219	475868823	4604	True	2057.750000	3904	99.047000	155	2354	4	chr5D.!!$R2	2199
4	TraesCS7D01G236500	chr1D	209366682	209368863	2181	False	3777.000000	3777	97.816000	159	2354	1	chr1D.!!$F1	2195
5	TraesCS7D01G236500	chr2D	9570124	9572340	2216	True	1882.500000	3068	97.416000	154	2354	2	chr2D.!!$R1	2200
6	TraesCS7D01G236500	chr7A	369527387	369529211	1824	True	2447.000000	2447	91.337000	570	2354	1	chr7A.!!$R1	1784
7	TraesCS7D01G236500	chr6B	9852199	9854283	2084	False	1708.500000	1943	97.064000	323	2354	2	chr6B.!!$F1	2031
8	TraesCS7D01G236500	chr2A	753531452	753533542	2090	True	875.333333	1459	95.536667	570	2354	3	chr2A.!!$R1	1784
9	TraesCS7D01G236500	chr4A	650381035	650382108	1073	True	836.500000	1423	96.399500	1327	2354	2	chr4A.!!$R1	1027

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
83	84	0.036388	CCATACAGGGACGCTGTTGT	60.036	55.0	27.69	15.5	36.37	3.32	F
97	98	0.104487	TGTTGTTGACCGCGTCCTTA	59.896	50.0	4.92	0.0	0.00	2.69	F

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability	Orientation
1216	3645	0.678048	CTGGCCCTGGCAAGAAGTAC	60.678	60.0	6.74	0.0	44.65	2.73	R
1587	4063	1.290134	CCTAAAGTCCAGAGCCCCTT	58.710	55.0	0.00	0.0	0.00	3.95	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
22	23	3.715638	CAGATGGTGGATGGATGCTAT	57.284	47.619	0.00	0.00	0.00	2.97
23	24	3.607741	CAGATGGTGGATGGATGCTATC	58.392	50.000	0.00	0.00	0.00	2.08
39	40	2.808543	GCTATCCAAAATAGCGTCCAGG	59.191	50.000	1.62	0.00	37.79	4.45
40	41	2.348411	ATCCAAAATAGCGTCCAGGG	57.652	50.000	0.00	0.00	0.00	4.45
41	42	1.281419	TCCAAAATAGCGTCCAGGGA	58.719	50.000	0.00	0.00	0.00	4.20
42	43	1.843851	TCCAAAATAGCGTCCAGGGAT	59.156	47.619	0.00	0.00	0.00	3.85
43	44	1.949525	CCAAAATAGCGTCCAGGGATG	59.050	52.381	3.08	3.08	0.00	3.51
44	45	1.949525	CAAAATAGCGTCCAGGGATGG	59.050	52.381	9.48	0.00	0.00	3.51
45	46	1.507140	AAATAGCGTCCAGGGATGGA	58.493	50.000	9.48	0.00	35.23	3.41
51	52	4.807321	TCCAGGGATGGACGTCAT	57.193	55.556	18.91	8.99	39.13	3.06
52	53	3.006061	TCCAGGGATGGACGTCATT	57.994	52.632	18.91	3.19	35.97	2.57
53	54	2.168458	TCCAGGGATGGACGTCATTA	57.832	50.000	18.91	3.20	35.97	1.90
54	55	2.039418	TCCAGGGATGGACGTCATTAG	58.961	52.381	18.91	0.00	35.97	1.73
55	56	1.541233	CCAGGGATGGACGTCATTAGC	60.541	57.143	18.91	5.66	35.97	3.09
56	57	1.138859	CAGGGATGGACGTCATTAGCA	59.861	52.381	18.91	5.86	35.97	3.49
57	58	2.050144	AGGGATGGACGTCATTAGCAT	58.950	47.619	18.91	10.86	35.97	3.79
58	59	2.146342	GGGATGGACGTCATTAGCATG	58.854	52.381	18.91	0.00	35.97	4.06
59	60	2.485479	GGGATGGACGTCATTAGCATGT	60.485	50.000	18.91	0.00	35.97	3.21
60	61	2.545526	GGATGGACGTCATTAGCATGTG	59.454	50.000	18.91	0.00	35.97	3.21
61	62	1.368641	TGGACGTCATTAGCATGTGC	58.631	50.000	18.91	0.00	42.49	4.57
62	63	3.626174	ATGGACGTCATTAGCATGTGCG	61.626	50.000	18.91	0.00	38.42	5.34
64	65	4.168181	GGACGTCATTAGCATGTGCGTC	62.168	54.545	18.91	18.54	46.54	5.19
65	66	4.168181	GACGTCATTAGCATGTGCGTCC	62.168	54.545	11.55	7.43	44.44	4.79
72	73	2.016961	GCATGTGCGTCCATACAGG	58.983	57.895	0.00	0.00	39.47	4.00
73	74	1.439353	GCATGTGCGTCCATACAGGG	61.439	60.000	0.00	0.00	38.24	4.45
74	75	0.177836	CATGTGCGTCCATACAGGGA	59.822	55.000	0.00	0.00	38.24	4.20
80	81	4.453454	TCCATACAGGGACGCTGT	57.547	55.556	26.10	26.10	38.24	4.40
81	82	2.678786	TCCATACAGGGACGCTGTT	58.321	52.632	27.69	14.16	38.24	3.16
82	83	0.249120	TCCATACAGGGACGCTGTTG	59.751	55.000	27.69	22.44	38.24	3.33
83	84	0.036388	CCATACAGGGACGCTGTTGT	60.036	55.000	27.69	15.50	36.37	3.32
84	85	1.610624	CCATACAGGGACGCTGTTGTT	60.611	52.381	27.69	12.31	36.37	2.83
85	86	1.464608	CATACAGGGACGCTGTTGTTG	59.535	52.381	27.69	18.80	36.37	3.33
86	87	0.753867	TACAGGGACGCTGTTGTTGA	59.246	50.000	27.69	9.03	36.37	3.18
87	88	0.814010	ACAGGGACGCTGTTGTTGAC	60.814	55.000	18.72	0.00	0.00	3.18
88	89	1.227853	AGGGACGCTGTTGTTGACC	60.228	57.895	0.00	0.00	0.00	4.02
89	90	2.604174	GGGACGCTGTTGTTGACCG	61.604	63.158	0.00	0.00	0.00	4.79
90	91	2.248431	GACGCTGTTGTTGACCGC	59.752	61.111	0.00	0.00	35.40	5.68
93	94	2.248431	GCTGTTGTTGACCGCGTC	59.752	61.111	4.92	3.35	0.00	5.19
94	95	2.935955	CTGTTGTTGACCGCGTCC	59.064	61.111	4.92	0.00	0.00	4.79
95	96	1.594293	CTGTTGTTGACCGCGTCCT	60.594	57.895	4.92	0.00	0.00	3.85
96	97	1.153329	TGTTGTTGACCGCGTCCTT	60.153	52.632	4.92	0.00	0.00	3.36
97	98	0.104487	TGTTGTTGACCGCGTCCTTA	59.896	50.000	4.92	0.00	0.00	2.69
98	99	0.509929	GTTGTTGACCGCGTCCTTAC	59.490	55.000	4.92	0.00	0.00	2.34
99	100	0.390124	TTGTTGACCGCGTCCTTACT	59.610	50.000	4.92	0.00	0.00	2.24
100	101	1.246649	TGTTGACCGCGTCCTTACTA	58.753	50.000	4.92	0.00	0.00	1.82
101	102	1.820519	TGTTGACCGCGTCCTTACTAT	59.179	47.619	4.92	0.00	0.00	2.12
102	103	3.016031	TGTTGACCGCGTCCTTACTATA	58.984	45.455	4.92	0.00	0.00	1.31
103	104	3.443329	TGTTGACCGCGTCCTTACTATAA	59.557	43.478	4.92	0.00	0.00	0.98
104	105	4.098349	TGTTGACCGCGTCCTTACTATAAT	59.902	41.667	4.92	0.00	0.00	1.28
105	106	4.924305	TGACCGCGTCCTTACTATAATT	57.076	40.909	4.92	0.00	0.00	1.40
106	107	6.183360	TGTTGACCGCGTCCTTACTATAATTA	60.183	38.462	4.92	0.00	0.00	1.40
107	108	6.389830	TGACCGCGTCCTTACTATAATTAA	57.610	37.500	4.92	0.00	0.00	1.40
108	109	6.804677	TGACCGCGTCCTTACTATAATTAAA	58.195	36.000	4.92	0.00	0.00	1.52
109	110	7.264221	TGACCGCGTCCTTACTATAATTAAAA	58.736	34.615	4.92	0.00	0.00	1.52
110	111	7.927629	TGACCGCGTCCTTACTATAATTAAAAT	59.072	33.333	4.92	0.00	0.00	1.82
111	112	8.667076	ACCGCGTCCTTACTATAATTAAAATT	57.333	30.769	4.92	0.00	0.00	1.82
112	113	9.112725	ACCGCGTCCTTACTATAATTAAAATTT	57.887	29.630	4.92	0.00	0.00	1.82
113	114	9.590088	CCGCGTCCTTACTATAATTAAAATTTC	57.410	33.333	4.92	0.00	0.00	2.17
114	115	9.590088	CGCGTCCTTACTATAATTAAAATTTCC	57.410	33.333	0.00	0.00	0.00	3.13
297	1113	1.209621	CCCCACCGATTTTCTCCCTA	58.790	55.000	0.00	0.00	0.00	3.53
866	3294	1.066143	CAGTAGAGGTTGGGACGCAAT	60.066	52.381	8.31	0.00	0.00	3.56
1030	3458	7.025963	GCTAATGTATGCAATAGATTTCCAGC	58.974	38.462	9.80	0.00	39.47	4.85
1080	3508	2.869801	TCCATTTCAACCGATCGCATAC	59.130	45.455	10.32	0.00	0.00	2.39
1092	3520	0.245266	TCGCATACCGCTTCAGTGAA	59.755	50.000	5.25	5.25	39.08	3.18
1216	3645	2.049156	TCCACTCGCGCACTGAAG	60.049	61.111	8.75	0.00	0.00	3.02
1283	3712	7.272084	GCCACGATTCATTGATTTTATAGATGC	59.728	37.037	0.00	0.00	0.00	3.91
1587	4063	1.980052	CGGTGGGGACTAGCAAAGA	59.020	57.895	0.00	0.00	0.00	2.52
1973	4510	3.402110	CACAGCCACTTAGTGTTCATCA	58.598	45.455	11.68	0.00	0.00	3.07

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
1	2	0.477204	AGCATCCATCCACCATCTGG	59.523	55.000	0.00	0.00	42.29	3.86
2	3	3.607741	GATAGCATCCATCCACCATCTG	58.392	50.000	0.00	0.00	0.00	2.90
3	4	3.996921	GATAGCATCCATCCACCATCT	57.003	47.619	0.00	0.00	0.00	2.90
15	16	4.065088	TGGACGCTATTTTGGATAGCATC	58.935	43.478	15.80	10.98	45.32	3.91
16	17	4.067896	CTGGACGCTATTTTGGATAGCAT	58.932	43.478	15.80	2.99	45.32	3.79
17	18	3.466836	CTGGACGCTATTTTGGATAGCA	58.533	45.455	15.80	0.00	45.32	3.49
18	19	2.808543	CCTGGACGCTATTTTGGATAGC	59.191	50.000	7.75	7.75	42.53	2.97
19	20	3.071023	TCCCTGGACGCTATTTTGGATAG	59.929	47.826	0.00	0.00	0.00	2.08
20	21	3.042682	TCCCTGGACGCTATTTTGGATA	58.957	45.455	0.00	0.00	0.00	2.59
21	22	1.843851	TCCCTGGACGCTATTTTGGAT	59.156	47.619	0.00	0.00	0.00	3.41
22	23	1.281419	TCCCTGGACGCTATTTTGGA	58.719	50.000	0.00	0.00	0.00	3.53
23	24	1.949525	CATCCCTGGACGCTATTTTGG	59.050	52.381	0.00	0.00	0.00	3.28
24	25	1.949525	CCATCCCTGGACGCTATTTTG	59.050	52.381	0.00	0.00	46.37	2.44
25	26	1.843851	TCCATCCCTGGACGCTATTTT	59.156	47.619	0.00	0.00	46.95	1.82
26	27	1.507140	TCCATCCCTGGACGCTATTT	58.493	50.000	0.00	0.00	46.95	1.40
27	28	3.240670	TCCATCCCTGGACGCTATT	57.759	52.632	0.00	0.00	46.95	1.73
35	36	1.541233	GCTAATGACGTCCATCCCTGG	60.541	57.143	14.12	0.00	44.64	4.45
36	37	1.138859	TGCTAATGACGTCCATCCCTG	59.861	52.381	14.12	0.00	33.53	4.45
37	38	1.496060	TGCTAATGACGTCCATCCCT	58.504	50.000	14.12	0.00	33.53	4.20
38	39	2.146342	CATGCTAATGACGTCCATCCC	58.854	52.381	14.12	0.00	35.67	3.85
39	40	2.545526	CACATGCTAATGACGTCCATCC	59.454	50.000	14.12	0.00	37.24	3.51
40	41	2.032549	GCACATGCTAATGACGTCCATC	60.033	50.000	14.12	0.00	37.24	3.51
41	42	1.942657	GCACATGCTAATGACGTCCAT	59.057	47.619	14.12	5.75	37.24	3.41
42	43	1.368641	GCACATGCTAATGACGTCCA	58.631	50.000	14.12	3.25	37.24	4.02
43	44	0.301687	CGCACATGCTAATGACGTCC	59.698	55.000	14.12	0.00	39.32	4.79
44	45	0.999406	ACGCACATGCTAATGACGTC	59.001	50.000	9.11	9.11	42.32	4.34
45	46	0.999406	GACGCACATGCTAATGACGT	59.001	50.000	1.82	9.90	45.73	4.34
46	47	0.301687	GGACGCACATGCTAATGACG	59.698	55.000	1.82	0.00	40.38	4.35
47	48	1.368641	TGGACGCACATGCTAATGAC	58.631	50.000	1.82	0.00	39.32	3.06
48	49	2.330440	ATGGACGCACATGCTAATGA	57.670	45.000	1.82	0.00	39.32	2.57
49	50	2.871633	TGTATGGACGCACATGCTAATG	59.128	45.455	1.82	0.00	39.32	1.90
50	51	3.133691	CTGTATGGACGCACATGCTAAT	58.866	45.455	1.82	0.00	39.32	1.73
51	52	2.549926	CTGTATGGACGCACATGCTAA	58.450	47.619	1.82	0.00	39.32	3.09
52	53	1.202521	CCTGTATGGACGCACATGCTA	60.203	52.381	1.82	0.00	37.09	3.49
53	54	0.462581	CCTGTATGGACGCACATGCT	60.463	55.000	1.82	0.00	37.09	3.79
54	55	1.439353	CCCTGTATGGACGCACATGC	61.439	60.000	0.00	2.40	38.35	4.06
55	56	0.177836	TCCCTGTATGGACGCACATG	59.822	55.000	2.96	0.00	38.35	3.21
56	57	0.178068	GTCCCTGTATGGACGCACAT	59.822	55.000	0.00	0.00	44.98	3.21
57	58	1.594833	GTCCCTGTATGGACGCACA	59.405	57.895	0.00	0.00	44.98	4.57
58	59	4.515404	GTCCCTGTATGGACGCAC	57.485	61.111	0.00	0.00	44.98	5.34
70	71	1.227853	GGTCAACAACAGCGTCCCT	60.228	57.895	0.00	0.00	0.00	4.20
71	72	2.604174	CGGTCAACAACAGCGTCCC	61.604	63.158	0.00	0.00	0.00	4.46
72	73	2.935955	CGGTCAACAACAGCGTCC	59.064	61.111	0.00	0.00	0.00	4.79
73	74	2.248431	GCGGTCAACAACAGCGTC	59.752	61.111	0.00	0.00	39.29	5.19
76	77	2.248431	GACGCGGTCAACAACAGC	59.752	61.111	12.47	0.00	44.54	4.40
77	78	1.157870	AAGGACGCGGTCAACAACAG	61.158	55.000	12.47	0.00	33.68	3.16
78	79	0.104487	TAAGGACGCGGTCAACAACA	59.896	50.000	12.47	0.00	33.68	3.33
79	80	0.509929	GTAAGGACGCGGTCAACAAC	59.490	55.000	12.47	0.00	33.68	3.32
80	81	0.390124	AGTAAGGACGCGGTCAACAA	59.610	50.000	12.47	0.00	33.68	2.83
81	82	1.246649	TAGTAAGGACGCGGTCAACA	58.753	50.000	12.47	0.00	33.68	3.33
82	83	2.573941	ATAGTAAGGACGCGGTCAAC	57.426	50.000	12.47	1.55	33.68	3.18
83	84	4.924305	ATTATAGTAAGGACGCGGTCAA	57.076	40.909	12.47	0.00	33.68	3.18
84	85	4.924305	AATTATAGTAAGGACGCGGTCA	57.076	40.909	12.47	0.00	33.68	4.02
85	86	7.698836	TTTTAATTATAGTAAGGACGCGGTC	57.301	36.000	12.47	5.53	0.00	4.79
86	87	8.667076	AATTTTAATTATAGTAAGGACGCGGT	57.333	30.769	12.47	0.00	0.00	5.68
87	88	9.590088	GAAATTTTAATTATAGTAAGGACGCGG	57.410	33.333	12.47	0.00	0.00	6.46
88	89	9.590088	GGAAATTTTAATTATAGTAAGGACGCG	57.410	33.333	3.53	3.53	0.00	6.01
297	1113	3.696548	GAGGGAGAAAAGAAAATCGGCAT	59.303	43.478	0.00	0.00	0.00	4.40
724	3148	5.068987	GCAGGAATGGATAAAATGTTGCCTA	59.931	40.000	0.00	0.00	0.00	3.93
866	3294	2.030363	CGAGCATACAAAACCTTTGCCA	60.030	45.455	0.00	0.00	33.85	4.92
1030	3458	2.931325	CAATTGCATCCATTTTGACCCG	59.069	45.455	0.00	0.00	0.00	5.28
1080	3508	1.459592	CGTAGGTTTTCACTGAAGCGG	59.540	52.381	0.00	0.00	0.00	5.52
1216	3645	0.678048	CTGGCCCTGGCAAGAAGTAC	60.678	60.000	6.74	0.00	44.65	2.73
1283	3712	1.902508	TCCTGTTTCTGAGGCTGTAGG	59.097	52.381	0.00	0.00	0.00	3.18
1587	4063	1.290134	CCTAAAGTCCAGAGCCCCTT	58.710	55.000	0.00	0.00	0.00	3.95
1973	4510	5.751586	TCCTTGTGAAACTGTTTTAGAGGT	58.248	37.500	18.60	0.00	38.04	3.85
2074	4612	8.663209	AGAACATAGATATAGCAGTTGATCCT	57.337	34.615	0.00	0.00	0.00	3.24

Based at the University of Bristol with support from BBSRC.

AutoCloner maintained by Alex Coulton.