AutoCloner

Multiple sequence alignment - TraesCS2D01G347300

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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	TraesCS2D01G347300	chr2D	100.000	2862	0	0	1	2862	445395364	445398225	0.000000e+00	5286
1	TraesCS2D01G347300	chr2D	84.286	560	69	17	1	551	445395853	445395304	1.950000e-146	529
2	TraesCS2D01G347300	chr2D	95.276	254	9	3	1	253	589910979	589910728	1.600000e-107	399
3	TraesCS2D01G347300	chr2A	94.428	2297	73	22	600	2862	587750367	587752642	0.000000e+00	3482
4	TraesCS2D01G347300	chr2A	91.126	1634	42	31	599	2209	610710257	610711810	0.000000e+00	2119
5	TraesCS2D01G347300	chr2A	97.762	715	14	2	2149	2862	610711795	610712508	0.000000e+00	1230
6	TraesCS2D01G347300	chr2B	92.830	2329	78	40	600	2862	523760144	523762449	0.000000e+00	3293
7	TraesCS2D01G347300	chr7B	93.321	554	36	1	1	554	607328269	607328821	0.000000e+00	817
8	TraesCS2D01G347300	chr7B	82.948	563	77	16	1	554	607328757	607328205	9.210000e-135	490
9	TraesCS2D01G347300	chr7B	79.870	308	34	18	1195	1496	692827474	692827189	1.740000e-47	200
10	TraesCS2D01G347300	chr7B	78.896	308	37	18	1195	1496	226424494	226424209	1.750000e-42	183
11	TraesCS2D01G347300	chr7B	81.188	202	25	11	1301	1496	692796978	692796784	1.780000e-32	150
12	TraesCS2D01G347300	chr1D	96.626	326	11	0	230	555	250741155	250740830	2.510000e-150	542
13	TraesCS2D01G347300	chr1D	97.095	241	7	0	1	241	250741322	250741082	9.550000e-110	407
14	TraesCS2D01G347300	chrUn	96.341	328	12	0	230	557	115109999	115110326	9.020000e-150	540
15	TraesCS2D01G347300	chrUn	95.238	63	3	0	1225	1287	476915496	476915434	1.810000e-17	100
16	TraesCS2D01G347300	chr7D	96.319	326	12	0	229	554	320285809	320285484	1.170000e-148	536
17	TraesCS2D01G347300	chr6D	95.796	333	13	1	230	561	81391821	81392153	1.170000e-148	536
18	TraesCS2D01G347300	chr6D	81.331	541	73	21	1000	1523	277100766	277100237	5.710000e-112	414
19	TraesCS2D01G347300	chr6D	94.981	259	13	0	1	259	97586825	97586567	9.550000e-110	407
20	TraesCS2D01G347300	chr6D	95.257	253	12	0	1	253	56859028	56858776	4.440000e-108	401
21	TraesCS2D01G347300	chr5D	96.605	324	10	1	230	553	397030035	397030357	1.170000e-148	536
22	TraesCS2D01G347300	chr5D	96.605	324	10	1	231	554	421912576	421912898	1.170000e-148	536
23	TraesCS2D01G347300	chr6B	81.818	539	68	23	1000	1520	439022259	439021733	2.640000e-115	425
24	TraesCS2D01G347300	chr6B	91.398	93	6	2	1195	1287	317213282	317213372	2.990000e-25	126
25	TraesCS2D01G347300	chr6B	90.323	93	7	2	1195	1287	317212042	317212132	1.390000e-23	121
26	TraesCS2D01G347300	chr6B	89.247	93	8	2	1195	1287	317214490	317214580	6.480000e-22	115
27	TraesCS2D01G347300	chr6A	81.682	535	70	19	997	1520	398253192	398253709	1.230000e-113	420
28	TraesCS2D01G347300	chr6A	89.247	93	8	2	1195	1287	472970433	472970343	6.480000e-22	115
29	TraesCS2D01G347300	chr1B	94.656	262	12	2	1	261	305284807	305284547	3.430000e-109	405
30	TraesCS2D01G347300	chr4D	94.275	262	13	2	1	261	63077310	63077050	1.600000e-107	399
31	TraesCS2D01G347300	chr3D	78.413	315	41	20	1195	1504	528819229	528818937	2.270000e-41	180
32	TraesCS2D01G347300	chr7A	78.667	300	37	12	1203	1496	709417751	709417473	1.050000e-39	174
33	TraesCS2D01G347300	chr7A	91.398	93	6	2	1195	1287	17370095	17370005	2.990000e-25	126
34	TraesCS2D01G347300	chr3B	78.405	301	37	12	1203	1496	452907784	452907505	1.360000e-38	171
35	TraesCS2D01G347300	chr3A	77.994	309	39	11	1195	1496	617439709	617439423	1.760000e-37	167
36	TraesCS2D01G347300	chr4B	77.273	308	32	19	1195	1496	142426811	142427086	2.300000e-31	147
37	TraesCS2D01G347300	chr4B	89.247	93	8	2	1195	1287	604144081	604143991	6.480000e-22	115
38	TraesCS2D01G347300	chr4B	89.024	82	8	1	1206	1287	251997906	251997826	1.810000e-17	100
39	TraesCS2D01G347300	chr4B	89.024	82	8	1	1206	1287	395244440	395244360	1.810000e-17	100
40	TraesCS2D01G347300	chr5A	92.135	89	6	1	1199	1287	23904454	23904541	1.080000e-24	124
41	TraesCS2D01G347300	chr5A	90.323	93	7	2	1195	1287	33880859	33880949	1.390000e-23	121
42	TraesCS2D01G347300	chr1A	89.247	93	8	2	1195	1287	22342316	22342226	6.480000e-22	115
43	TraesCS2D01G347300	chr1A	88.172	93	8	3	1195	1287	481274541	481274452	1.080000e-19	108
44	TraesCS2D01G347300	chr1A	89.412	85	8	1	1203	1287	432524358	432524275	3.900000e-19	106

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	TraesCS2D01G347300	chr2D	445395364	445398225	2861	False	5286.0	5286	100.000	1	2862	1	chr2D.!!$F1	2861
1	TraesCS2D01G347300	chr2D	445395304	445395853	549	True	529.0	529	84.286	1	551	1	chr2D.!!$R1	550
2	TraesCS2D01G347300	chr2A	587750367	587752642	2275	False	3482.0	3482	94.428	600	2862	1	chr2A.!!$F1	2262
3	TraesCS2D01G347300	chr2A	610710257	610712508	2251	False	1674.5	2119	94.444	599	2862	2	chr2A.!!$F2	2263
4	TraesCS2D01G347300	chr2B	523760144	523762449	2305	False	3293.0	3293	92.830	600	2862	1	chr2B.!!$F1	2262
5	TraesCS2D01G347300	chr7B	607328269	607328821	552	False	817.0	817	93.321	1	554	1	chr7B.!!$F1	553
6	TraesCS2D01G347300	chr7B	607328205	607328757	552	True	490.0	490	82.948	1	554	1	chr7B.!!$R2	553
7	TraesCS2D01G347300	chr6D	277100237	277100766	529	True	414.0	414	81.331	1000	1523	1	chr6D.!!$R3	523
8	TraesCS2D01G347300	chr6B	439021733	439022259	526	True	425.0	425	81.818	1000	1520	1	chr6B.!!$R1	520
9	TraesCS2D01G347300	chr6A	398253192	398253709	517	False	420.0	420	81.682	997	1520	1	chr6A.!!$F1	523

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
576	578	0.03601	CTCCCCCACACATCACAGTC	60.036	60.0	0.0	0.0	0.0	3.51	F

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability	Orientation
1918	2030	1.785768	TGCACACACGCGTATTAAGT	58.214	45.0	13.44	1.32	33.35	2.24	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
97	98	4.393155	CTACACGCCTGGCCAGCA	62.393	66.667	28.39	6.25	0.00	4.41
142	144	0.668706	CTAAGTCAGTGTGCAGCGCT	60.669	55.000	2.64	2.64	38.72	5.92
224	226	4.990426	GGTTGCTTCATTTTGTAGTGCAAT	59.010	37.500	0.00	0.00	40.29	3.56
286	288	4.990426	GGTTGCTTCATTTTGTAGTGCAAT	59.010	37.500	0.00	0.00	40.29	3.56
379	381	7.546667	CACAATGACTTAGCAATTTTTAGGCAT	59.453	33.333	0.00	0.00	36.15	4.40
394	396	2.268076	GCATTCTGGGGTGCAACGT	61.268	57.895	0.00	0.00	40.94	3.99
467	469	3.215597	TTCGTGTCGGGCGTCACAT	62.216	57.895	0.00	0.00	34.69	3.21
545	547	3.930229	TCGTCCATAGGTCAAATTTGTCG	59.070	43.478	17.47	9.47	0.00	4.35
558	560	4.701956	AATTTGTCGAATTTGCCGATCT	57.298	36.364	0.00	0.00	38.38	2.75
559	561	3.740044	TTTGTCGAATTTGCCGATCTC	57.260	42.857	0.00	0.00	38.38	2.75
560	562	1.651987	TGTCGAATTTGCCGATCTCC	58.348	50.000	0.00	0.00	38.38	3.71
561	563	0.938008	GTCGAATTTGCCGATCTCCC	59.062	55.000	0.00	0.00	38.38	4.30
562	564	0.179056	TCGAATTTGCCGATCTCCCC	60.179	55.000	0.00	0.00	0.00	4.81
563	565	1.166531	CGAATTTGCCGATCTCCCCC	61.167	60.000	0.00	0.00	0.00	5.40
564	566	0.106719	GAATTTGCCGATCTCCCCCA	60.107	55.000	0.00	0.00	0.00	4.96
565	567	0.395724	AATTTGCCGATCTCCCCCAC	60.396	55.000	0.00	0.00	0.00	4.61
566	568	1.570857	ATTTGCCGATCTCCCCCACA	61.571	55.000	0.00	0.00	0.00	4.17
567	569	2.478335	TTTGCCGATCTCCCCCACAC	62.478	60.000	0.00	0.00	0.00	3.82
568	570	3.399181	GCCGATCTCCCCCACACA	61.399	66.667	0.00	0.00	0.00	3.72
569	571	2.746375	GCCGATCTCCCCCACACAT	61.746	63.158	0.00	0.00	0.00	3.21
570	572	1.447643	CCGATCTCCCCCACACATC	59.552	63.158	0.00	0.00	0.00	3.06
571	573	1.337384	CCGATCTCCCCCACACATCA	61.337	60.000	0.00	0.00	0.00	3.07
572	574	0.179073	CGATCTCCCCCACACATCAC	60.179	60.000	0.00	0.00	0.00	3.06
573	575	0.911769	GATCTCCCCCACACATCACA	59.088	55.000	0.00	0.00	0.00	3.58
574	576	0.914644	ATCTCCCCCACACATCACAG	59.085	55.000	0.00	0.00	0.00	3.66
575	577	0.473694	TCTCCCCCACACATCACAGT	60.474	55.000	0.00	0.00	0.00	3.55
576	578	0.036010	CTCCCCCACACATCACAGTC	60.036	60.000	0.00	0.00	0.00	3.51
577	579	1.002134	CCCCCACACATCACAGTCC	60.002	63.158	0.00	0.00	0.00	3.85
578	580	1.002134	CCCCACACATCACAGTCCC	60.002	63.158	0.00	0.00	0.00	4.46
579	581	1.760527	CCCACACATCACAGTCCCA	59.239	57.895	0.00	0.00	0.00	4.37
580	582	0.321919	CCCACACATCACAGTCCCAG	60.322	60.000	0.00	0.00	0.00	4.45
581	583	0.397941	CCACACATCACAGTCCCAGT	59.602	55.000	0.00	0.00	0.00	4.00
582	584	1.609061	CCACACATCACAGTCCCAGTC	60.609	57.143	0.00	0.00	0.00	3.51
583	585	0.687354	ACACATCACAGTCCCAGTCC	59.313	55.000	0.00	0.00	0.00	3.85
584	586	0.979665	CACATCACAGTCCCAGTCCT	59.020	55.000	0.00	0.00	0.00	3.85
585	587	0.979665	ACATCACAGTCCCAGTCCTG	59.020	55.000	0.00	0.00	34.82	3.86
586	588	1.269958	CATCACAGTCCCAGTCCTGA	58.730	55.000	0.00	0.00	32.93	3.86
587	589	1.836166	CATCACAGTCCCAGTCCTGAT	59.164	52.381	0.00	0.00	32.93	2.90
588	590	1.269958	TCACAGTCCCAGTCCTGATG	58.730	55.000	0.00	0.00	32.93	3.07
589	591	0.979665	CACAGTCCCAGTCCTGATGT	59.020	55.000	0.00	0.00	32.93	3.06
590	592	2.179427	CACAGTCCCAGTCCTGATGTA	58.821	52.381	0.00	0.00	32.93	2.29
591	593	2.093973	CACAGTCCCAGTCCTGATGTAC	60.094	54.545	0.00	0.00	32.93	2.90
592	594	2.225394	ACAGTCCCAGTCCTGATGTACT	60.225	50.000	0.00	0.00	32.93	2.73
593	595	2.834549	CAGTCCCAGTCCTGATGTACTT	59.165	50.000	0.00	0.00	0.00	2.24
594	596	3.100671	AGTCCCAGTCCTGATGTACTTC	58.899	50.000	1.85	1.85	0.00	3.01
595	597	2.168728	GTCCCAGTCCTGATGTACTTCC	59.831	54.545	6.32	0.00	0.00	3.46
596	598	1.486726	CCCAGTCCTGATGTACTTCCC	59.513	57.143	6.32	0.00	0.00	3.97
597	599	2.472029	CCAGTCCTGATGTACTTCCCT	58.528	52.381	6.32	0.00	0.00	4.20
918	933	4.476113	TCCACTCCCATCTCTCATCATTTT	59.524	41.667	0.00	0.00	0.00	1.82
984	1008	1.063327	CTGTAGAGCGAGCGACCAG	59.937	63.158	0.00	0.00	0.00	4.00
998	1036	1.795889	CGACCAGAGCGTAGAAGAAGC	60.796	57.143	0.00	0.00	0.00	3.86
1544	1636	1.277273	GGGCTAGGAAAACCACGTACT	59.723	52.381	0.00	0.00	0.00	2.73
1917	2029	9.314321	GTGTGATGCACTATGTAGTAATAAACT	57.686	33.333	0.00	0.00	44.41	2.66
2568	2759	8.968242	GTTTAGGTAGAAAAACTCAAGCAAATG	58.032	33.333	0.00	0.00	33.71	2.32

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
11	12	2.542205	GGGCGTTACACAAAAAGGTCAC	60.542	50.000	0.00	0.00	0.00	3.67
97	98	2.186903	GGATCACACGGGTGCGAT	59.813	61.111	14.50	1.40	44.87	4.58
224	226	1.022735	GCTAGGCGCTACACTAGTGA	58.977	55.000	29.30	11.77	39.07	3.41
286	288	2.218037	CTCAGGCGCTGCACTAGTGA	62.218	60.000	27.08	10.55	39.30	3.41
379	381	1.826054	CCAACGTTGCACCCCAGAA	60.826	57.895	22.93	0.00	0.00	3.02
467	469	0.249953	TCACGCGGCTGACCTTTTTA	60.250	50.000	12.47	0.00	0.00	1.52
506	508	7.864108	ATGGACGAAATCAAATCACAGAATA	57.136	32.000	0.00	0.00	0.00	1.75
545	547	0.106719	TGGGGGAGATCGGCAAATTC	60.107	55.000	0.00	0.00	0.00	2.17
554	556	0.911769	TGTGATGTGTGGGGGAGATC	59.088	55.000	0.00	0.00	0.00	2.75
555	557	0.914644	CTGTGATGTGTGGGGGAGAT	59.085	55.000	0.00	0.00	0.00	2.75
556	558	0.473694	ACTGTGATGTGTGGGGGAGA	60.474	55.000	0.00	0.00	0.00	3.71
557	559	0.036010	GACTGTGATGTGTGGGGGAG	60.036	60.000	0.00	0.00	0.00	4.30
558	560	1.488705	GGACTGTGATGTGTGGGGGA	61.489	60.000	0.00	0.00	0.00	4.81
559	561	1.002134	GGACTGTGATGTGTGGGGG	60.002	63.158	0.00	0.00	0.00	5.40
560	562	1.002134	GGGACTGTGATGTGTGGGG	60.002	63.158	0.00	0.00	0.00	4.96
561	563	0.321919	CTGGGACTGTGATGTGTGGG	60.322	60.000	0.00	0.00	0.00	4.61
562	564	0.397941	ACTGGGACTGTGATGTGTGG	59.602	55.000	0.00	0.00	39.59	4.17
563	565	1.609061	GGACTGGGACTGTGATGTGTG	60.609	57.143	0.00	0.00	41.64	3.82
564	566	0.687354	GGACTGGGACTGTGATGTGT	59.313	55.000	0.00	0.00	41.64	3.72
565	567	0.979665	AGGACTGGGACTGTGATGTG	59.020	55.000	0.00	0.00	41.64	3.21
566	568	0.979665	CAGGACTGGGACTGTGATGT	59.020	55.000	0.00	0.00	41.64	3.06
567	569	1.269958	TCAGGACTGGGACTGTGATG	58.730	55.000	0.00	0.00	41.64	3.07
568	570	1.836166	CATCAGGACTGGGACTGTGAT	59.164	52.381	0.00	0.00	41.64	3.06
569	571	1.269958	CATCAGGACTGGGACTGTGA	58.730	55.000	0.00	0.00	41.64	3.58
570	572	0.979665	ACATCAGGACTGGGACTGTG	59.020	55.000	0.00	0.00	41.64	3.66
571	573	2.180276	GTACATCAGGACTGGGACTGT	58.820	52.381	0.00	2.19	45.09	3.55
572	574	2.461695	AGTACATCAGGACTGGGACTG	58.538	52.381	0.00	0.00	36.07	3.51
573	575	2.930109	AGTACATCAGGACTGGGACT	57.070	50.000	0.00	0.00	0.00	3.85
574	576	2.168728	GGAAGTACATCAGGACTGGGAC	59.831	54.545	0.00	0.00	0.00	4.46
575	577	2.467880	GGAAGTACATCAGGACTGGGA	58.532	52.381	0.00	0.00	0.00	4.37
576	578	1.486726	GGGAAGTACATCAGGACTGGG	59.513	57.143	0.00	0.00	0.00	4.45
577	579	2.472029	AGGGAAGTACATCAGGACTGG	58.528	52.381	0.00	0.00	0.00	4.00
578	580	3.866651	CAAGGGAAGTACATCAGGACTG	58.133	50.000	0.00	0.00	0.00	3.51
579	581	2.237392	GCAAGGGAAGTACATCAGGACT	59.763	50.000	0.00	0.00	0.00	3.85
580	582	2.633488	GCAAGGGAAGTACATCAGGAC	58.367	52.381	0.00	0.00	0.00	3.85
581	583	1.559682	GGCAAGGGAAGTACATCAGGA	59.440	52.381	0.00	0.00	0.00	3.86
582	584	1.743772	CGGCAAGGGAAGTACATCAGG	60.744	57.143	0.00	0.00	0.00	3.86
583	585	1.656652	CGGCAAGGGAAGTACATCAG	58.343	55.000	0.00	0.00	0.00	2.90
584	586	0.392461	GCGGCAAGGGAAGTACATCA	60.392	55.000	0.00	0.00	0.00	3.07
585	587	1.429148	CGCGGCAAGGGAAGTACATC	61.429	60.000	0.00	0.00	34.27	3.06
586	588	1.449601	CGCGGCAAGGGAAGTACAT	60.450	57.895	0.00	0.00	34.27	2.29
587	589	2.047655	CGCGGCAAGGGAAGTACA	60.048	61.111	0.00	0.00	34.27	2.90
588	590	1.810030	CTCGCGGCAAGGGAAGTAC	60.810	63.158	6.13	0.00	41.47	2.73
589	591	2.221906	GACTCGCGGCAAGGGAAGTA	62.222	60.000	6.13	0.00	41.47	2.24
590	592	3.591254	GACTCGCGGCAAGGGAAGT	62.591	63.158	6.13	0.00	41.47	3.01
591	593	2.815647	GACTCGCGGCAAGGGAAG	60.816	66.667	6.13	0.00	41.47	3.46
592	594	4.388499	GGACTCGCGGCAAGGGAA	62.388	66.667	6.13	0.00	41.47	3.97
918	933	0.107703	CGATTAGCTGCTGGTTGGGA	60.108	55.000	13.43	0.00	0.00	4.37
984	1008	2.468831	CTCATGGCTTCTTCTACGCTC	58.531	52.381	0.00	0.00	0.00	5.03
988	1012	3.389329	TGGATCCTCATGGCTTCTTCTAC	59.611	47.826	14.23	0.00	0.00	2.59
989	1013	3.645212	CTGGATCCTCATGGCTTCTTCTA	59.355	47.826	14.23	0.00	0.00	2.10
998	1036	0.531532	GTCGCACTGGATCCTCATGG	60.532	60.000	14.23	0.00	0.00	3.66
1532	1621	3.006217	GGGAGACAGTAGTACGTGGTTTT	59.994	47.826	0.00	0.00	0.00	2.43
1544	1636	2.514160	TGGAGATAGCAGGGAGACAGTA	59.486	50.000	0.00	0.00	0.00	2.74
1690	1794	3.680786	GTTCCGCCCCACTTTGGC	61.681	66.667	0.00	0.00	45.70	4.52
1912	2024	5.060816	GCACACACGCGTATTAAGTAGTTTA	59.939	40.000	13.44	0.00	0.00	2.01
1913	2025	4.143263	GCACACACGCGTATTAAGTAGTTT	60.143	41.667	13.44	0.00	0.00	2.66
1914	2026	3.365820	GCACACACGCGTATTAAGTAGTT	59.634	43.478	13.44	0.00	0.00	2.24
1915	2027	2.919229	GCACACACGCGTATTAAGTAGT	59.081	45.455	13.44	0.00	0.00	2.73
1916	2028	2.918600	TGCACACACGCGTATTAAGTAG	59.081	45.455	13.44	0.00	33.35	2.57
1917	2029	2.943993	TGCACACACGCGTATTAAGTA	58.056	42.857	13.44	0.00	33.35	2.24
1918	2030	1.785768	TGCACACACGCGTATTAAGT	58.214	45.000	13.44	1.32	33.35	2.24
1919	2031	2.093625	ACATGCACACACGCGTATTAAG	59.906	45.455	13.44	0.50	33.35	1.85
1920	2032	2.070028	ACATGCACACACGCGTATTAA	58.930	42.857	13.44	0.00	33.35	1.40
2115	2256	5.764686	TGCATTATGATCGCCTCTTGTTTAT	59.235	36.000	0.00	0.00	0.00	1.40
2568	2759	9.744468	GGTGATGGTCAAATTAATTTGTATACC	57.256	33.333	30.50	28.93	45.49	2.73
2589	2780	5.537674	AGTTCATTGCTGAAGAAAAGGTGAT	59.462	36.000	0.00	0.00	41.96	3.06

Based at the University of Bristol with support from BBSRC.

AutoCloner maintained by Alex Coulton.