AutoCloner

Multiple sequence alignment - TraesCS3B01G410200

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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	TraesCS3B01G410200	chr3B	100.000	2631	0	0	1	2631	647168671	647171301	0.000000e+00	4859.0
1	TraesCS3B01G410200	chr3B	94.033	1106	36	18	1	1076	647135674	647134569	0.000000e+00	1650.0
2	TraesCS3B01G410200	chr3B	87.842	329	31	6	2188	2516	290615134	290615453	6.870000e-101	377.0
3	TraesCS3B01G410200	chr3B	88.742	302	27	7	766	1061	647134267	647134567	1.920000e-96	363.0
4	TraesCS3B01G410200	chr3B	92.784	97	7	0	418	514	742119800	742119896	9.820000e-30	141.0
5	TraesCS3B01G410200	chr3B	77.570	107	19	5	361	465	2120781	2120678	2.830000e-05	60.2
6	TraesCS3B01G410200	chr3A	89.497	1828	136	31	766	2547	627269172	627270989	0.000000e+00	2261.0
7	TraesCS3B01G410200	chr3A	89.524	105	9	2	420	522	369463400	369463504	5.910000e-27	132.0
8	TraesCS3B01G410200	chr3A	86.957	69	3	1	2563	2631	627271031	627271093	3.630000e-09	73.1
9	TraesCS3B01G410200	chr3D	87.879	1881	149	40	690	2547	484339444	484341268	0.000000e+00	2137.0
10	TraesCS3B01G410200	chr3D	84.416	154	20	4	2321	2472	602199378	602199529	5.870000e-32	148.0
11	TraesCS3B01G410200	chr3D	92.553	94	7	0	420	513	8867357	8867264	4.570000e-28	135.0
12	TraesCS3B01G410200	chr3D	92.771	83	6	0	2549	2631	484341296	484341378	1.280000e-23	121.0
13	TraesCS3B01G410200	chr3D	93.750	48	3	0	373	420	354528170	354528123	3.630000e-09	73.1
14	TraesCS3B01G410200	chr1B	96.117	412	16	0	1059	1470	434409086	434409497	0.000000e+00	673.0
15	TraesCS3B01G410200	chr1A	96.107	411	16	0	1059	1469	468599195	468598785	0.000000e+00	671.0
16	TraesCS3B01G410200	chr1A	91.667	48	4	0	373	420	35794483	35794530	1.690000e-07	67.6
17	TraesCS3B01G410200	chr1D	95.631	412	18	0	1059	1470	321704948	321704537	0.000000e+00	662.0
18	TraesCS3B01G410200	chr1D	95.620	411	18	0	1059	1469	369925926	369925516	0.000000e+00	660.0
19	TraesCS3B01G410200	chr1D	95.388	412	19	0	1059	1470	321640672	321641083	0.000000e+00	656.0
20	TraesCS3B01G410200	chr1D	89.474	114	7	3	2403	2516	390213888	390213996	3.530000e-29	139.0
21	TraesCS3B01G410200	chr1D	94.318	88	5	0	420	507	406688675	406688762	4.570000e-28	135.0
22	TraesCS3B01G410200	chr4A	94.050	437	21	4	1039	1474	23611234	23610802	0.000000e+00	658.0
23	TraesCS3B01G410200	chr4A	94.318	88	5	0	420	507	169903832	169903919	4.570000e-28	135.0
24	TraesCS3B01G410200	chr4D	94.762	420	22	0	1050	1469	444177282	444177701	0.000000e+00	654.0
25	TraesCS3B01G410200	chr5D	90.578	329	22	5	2188	2516	79988055	79988374	6.730000e-116	427.0
26	TraesCS3B01G410200	chr6A	89.124	331	27	5	2187	2516	251475484	251475162	1.130000e-108	403.0
27	TraesCS3B01G410200	chr6A	88.146	329	30	6	2188	2516	252021073	252021392	1.480000e-102	383.0
28	TraesCS3B01G410200	chr6A	94.348	230	12	1	1	229	19782657	19782428	4.170000e-93	351.0
29	TraesCS3B01G410200	chr6D	89.706	272	23	3	2245	2516	294698274	294698008	2.510000e-90	342.0
30	TraesCS3B01G410200	chr6D	93.478	92	6	0	422	513	293048693	293048784	1.270000e-28	137.0
31	TraesCS3B01G410200	chr7B	89.091	275	25	3	2242	2516	601441486	601441755	1.170000e-88	337.0
32	TraesCS3B01G410200	chr4B	88.298	282	27	5	2236	2516	397269108	397268832	1.510000e-87	333.0
33	TraesCS3B01G410200	chr7A	84.141	227	16	7	3	229	657527678	657527472	4.440000e-48	202.0
34	TraesCS3B01G410200	chr7A	88.485	165	18	1	2327	2491	397428945	397428782	5.740000e-47	198.0
35	TraesCS3B01G410200	chr7D	92.632	95	5	2	420	513	53572410	53572317	4.570000e-28	135.0
36	TraesCS3B01G410200	chr6B	90.196	102	9	1	420	520	546666483	546666584	5.910000e-27	132.0
37	TraesCS3B01G410200	chr5A	93.750	48	3	0	373	420	288027216	288027169	3.630000e-09	73.1
38	TraesCS3B01G410200	chr2D	95.556	45	2	0	376	420	129519238	129519194	3.630000e-09	73.1
39	TraesCS3B01G410200	chr2D	93.750	48	3	0	373	420	598558909	598558956	3.630000e-09	73.1
40	TraesCS3B01G410200	chr2D	93.617	47	3	0	374	420	544321667	544321621	1.310000e-08	71.3
41	TraesCS3B01G410200	chr5B	91.837	49	4	0	372	420	479312780	479312828	4.700000e-08	69.4

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	TraesCS3B01G410200	chr3B	647168671	647171301	2630	False	4859.00	4859	100.000	1	2631	1	chr3B.!!$F3	2630
1	TraesCS3B01G410200	chr3B	647134569	647135674	1105	True	1650.00	1650	94.033	1	1076	1	chr3B.!!$R2	1075
2	TraesCS3B01G410200	chr3A	627269172	627271093	1921	False	1167.05	2261	88.227	766	2631	2	chr3A.!!$F2	1865
3	TraesCS3B01G410200	chr3D	484339444	484341378	1934	False	1129.00	2137	90.325	690	2631	2	chr3D.!!$F2	1941

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
928	978	0.72914	CGCAGCGCCGAAATTTTTCT	60.729	50.0	2.29	0.0	35.07	2.52	F

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability	Orientation
2462	2580	0.04394	AAGCAGATCTGAGGAGGGGT	59.956	55.0	27.04	0.0	0.0	4.95	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
29	30	2.831565	ACACCATATTGCCCATTTGGT	58.168	42.857	3.18	3.18	45.47	3.67
115	116	1.359459	GGTAGCGAACGAAAGCCAGG	61.359	60.000	0.00	0.00	0.00	4.45
140	141	3.576982	TGACTGAAAGGTAATCGGACAGT	59.423	43.478	0.00	0.00	39.30	3.55
211	212	0.813184	ATGGTTGGAAAGATGCGCAG	59.187	50.000	18.32	0.00	0.00	5.18
232	233	9.159470	GCGCAGTTTTAATATCTCTAAATGTTC	57.841	33.333	0.30	0.00	0.00	3.18
454	484	8.897752	AGAGTGTAGATTCATTTATTTTGCTCC	58.102	33.333	0.00	0.00	0.00	4.70
455	485	7.697691	AGTGTAGATTCATTTATTTTGCTCCG	58.302	34.615	0.00	0.00	0.00	4.63
548	578	7.538678	CCCACAAGATAAAATTTGAGTTTCTCG	59.461	37.037	0.00	0.00	32.35	4.04
619	649	5.261216	AGAAATATGAAGCCGGGAAAAAGA	58.739	37.500	2.18	0.00	0.00	2.52
620	650	5.893824	AGAAATATGAAGCCGGGAAAAAGAT	59.106	36.000	2.18	0.00	0.00	2.40
630	660	2.831526	CGGGAAAAAGATTTGGACCCAT	59.168	45.455	0.00	0.00	36.04	4.00
635	665	6.061441	GGAAAAAGATTTGGACCCATTTGTT	58.939	36.000	0.00	0.00	0.00	2.83
649	679	7.310113	GGACCCATTTGTTATTCACCATAAACA	60.310	37.037	0.00	0.00	0.00	2.83
656	686	7.354025	TGTTATTCACCATAAACACTACACG	57.646	36.000	0.00	0.00	0.00	4.49
661	691	4.746115	TCACCATAAACACTACACGACAAC	59.254	41.667	0.00	0.00	0.00	3.32
668	699	5.866335	AACACTACACGACAACTGAAAAA	57.134	34.783	0.00	0.00	0.00	1.94
702	733	1.001641	GCAAGGCCCACTGTCAGAT	60.002	57.895	6.91	0.00	0.00	2.90
905	936	1.759445	CATCTTCCATCCACTCGACCT	59.241	52.381	0.00	0.00	0.00	3.85
928	978	0.729140	CGCAGCGCCGAAATTTTTCT	60.729	50.000	2.29	0.00	35.07	2.52
1327	1395	3.302347	CTTCCAGAGCTCCGCCGTT	62.302	63.158	10.93	0.00	0.00	4.44
1545	1613	1.059913	AGAGCTTGGTGGTGTAGCTT	58.940	50.000	0.00	0.00	44.78	3.74
1567	1635	0.247460	CATGTTCCTGTCCGCTCTCA	59.753	55.000	0.00	0.00	0.00	3.27
1594	1662	3.070159	TGTCTTGCCATATGTAGCTCCTC	59.930	47.826	1.24	0.00	0.00	3.71
1663	1748	7.814264	ATCTCATTTCAGTGTTTTTCTCTGT	57.186	32.000	0.00	0.00	38.39	3.41
1668	1753	4.818534	TCAGTGTTTTTCTCTGTGATGC	57.181	40.909	0.00	0.00	38.39	3.91
1690	1775	4.083802	GCGTACTGCTTTCTTGTTCTTCAT	60.084	41.667	2.99	0.00	41.73	2.57
1693	1778	7.572759	CGTACTGCTTTCTTGTTCTTCATTTA	58.427	34.615	0.00	0.00	0.00	1.40
1694	1779	8.230486	CGTACTGCTTTCTTGTTCTTCATTTAT	58.770	33.333	0.00	0.00	0.00	1.40
1711	1796	9.317936	CTTCATTTATGTTGTCTAGCTGTATGA	57.682	33.333	0.00	0.00	0.00	2.15
1714	1799	8.501580	CATTTATGTTGTCTAGCTGTATGATGG	58.498	37.037	0.00	0.00	0.00	3.51
1720	1805	4.466015	TGTCTAGCTGTATGATGGTTGTGA	59.534	41.667	0.00	0.00	0.00	3.58
1726	1811	4.577693	GCTGTATGATGGTTGTGATGTGAT	59.422	41.667	0.00	0.00	0.00	3.06
1738	1823	3.008266	TGTGATGTGATGCAGAGGAAGAA	59.992	43.478	0.00	0.00	0.00	2.52
1740	1825	2.084610	TGTGATGCAGAGGAAGAACG	57.915	50.000	0.00	0.00	0.00	3.95
1742	1827	0.737367	TGATGCAGAGGAAGAACGCG	60.737	55.000	3.53	3.53	0.00	6.01
1743	1828	1.424493	GATGCAGAGGAAGAACGCGG	61.424	60.000	12.47	0.00	0.00	6.46
1744	1829	2.048127	GCAGAGGAAGAACGCGGT	60.048	61.111	12.47	1.91	0.00	5.68
1770	1867	6.183360	TGCCGCATAATAATTTTCATCCCTTT	60.183	34.615	0.00	0.00	0.00	3.11
1772	1869	6.868339	CCGCATAATAATTTTCATCCCTTTCC	59.132	38.462	0.00	0.00	0.00	3.13
1783	1880	5.211078	TCATCCCTTTCCTCATTGGATTT	57.789	39.130	0.00	0.00	45.68	2.17
1787	1884	5.401750	TCCCTTTCCTCATTGGATTTTTCA	58.598	37.500	0.00	0.00	45.68	2.69
1788	1885	5.481473	TCCCTTTCCTCATTGGATTTTTCAG	59.519	40.000	0.00	0.00	45.68	3.02
1790	1887	6.161381	CCTTTCCTCATTGGATTTTTCAGTG	58.839	40.000	0.00	0.00	45.68	3.66
1791	1888	6.239402	CCTTTCCTCATTGGATTTTTCAGTGT	60.239	38.462	0.00	0.00	45.68	3.55
1793	1890	6.331369	TCCTCATTGGATTTTTCAGTGTTC	57.669	37.500	0.00	0.00	40.56	3.18
1794	1891	5.048782	TCCTCATTGGATTTTTCAGTGTTCG	60.049	40.000	0.00	0.00	40.56	3.95
1798	1895	7.038659	TCATTGGATTTTTCAGTGTTCGTTTT	58.961	30.769	0.00	0.00	0.00	2.43
1799	1896	6.879188	TTGGATTTTTCAGTGTTCGTTTTC	57.121	33.333	0.00	0.00	0.00	2.29
1800	1897	6.202516	TGGATTTTTCAGTGTTCGTTTTCT	57.797	33.333	0.00	0.00	0.00	2.52
1802	1899	6.750039	TGGATTTTTCAGTGTTCGTTTTCTTC	59.250	34.615	0.00	0.00	0.00	2.87
1803	1900	6.198403	GGATTTTTCAGTGTTCGTTTTCTTCC	59.802	38.462	0.00	0.00	0.00	3.46
1804	1901	5.630661	TTTTCAGTGTTCGTTTTCTTCCA	57.369	34.783	0.00	0.00	0.00	3.53
1808	1905	4.807304	TCAGTGTTCGTTTTCTTCCACTAC	59.193	41.667	0.00	0.00	32.29	2.73
1883	1980	2.164827	TGAAGAACAGTATCGCCGCTTA	59.835	45.455	0.00	0.00	0.00	3.09
1890	1987	4.878439	ACAGTATCGCCGCTTAATGATTA	58.122	39.130	5.12	0.00	0.00	1.75
1895	1992	1.191647	CGCCGCTTAATGATTACCGTC	59.808	52.381	4.47	0.00	0.00	4.79
1907	2004	2.922740	TTACCGTCCATGGATAAGCC	57.077	50.000	19.62	3.17	37.10	4.35
1913	2010	1.898574	CCATGGATAAGCCCACCGC	60.899	63.158	5.56	0.00	39.34	5.68
1914	2011	1.898574	CATGGATAAGCCCACCGCC	60.899	63.158	0.00	0.00	39.34	6.13
1918	2015	2.437716	ATAAGCCCACCGCCGTTG	60.438	61.111	0.00	0.00	38.78	4.10
1924	2021	4.622456	CCACCGCCGTTGTGTTGC	62.622	66.667	0.00	0.00	31.71	4.17
1951	2065	6.818142	CCATATTTGTTCCCCAGATTTTGTTC	59.182	38.462	0.00	0.00	0.00	3.18
1972	2086	0.609406	GGAAGTTTCCAGGTGCTCCC	60.609	60.000	6.03	0.00	46.76	4.30
1987	2101	1.228429	TCCCCGTTTGCCTCTTTGG	60.228	57.895	0.00	0.00	39.35	3.28
2043	2158	1.602377	GTAGCTGAAAACCAACGCTGT	59.398	47.619	0.00	0.00	32.49	4.40
2046	2161	1.308998	CTGAAAACCAACGCTGTCCT	58.691	50.000	0.00	0.00	0.00	3.85
2118	2235	3.756434	CCGAATCCAGCAAAGTAGGAAAA	59.244	43.478	0.00	0.00	34.62	2.29
2131	2248	2.149521	AGGAAAAGGGAGGGGAGAAA	57.850	50.000	0.00	0.00	0.00	2.52
2165	2282	4.593864	GCGGCGATCTCCACTCCC	62.594	72.222	12.98	0.00	0.00	4.30
2166	2283	4.271816	CGGCGATCTCCACTCCCG	62.272	72.222	0.00	0.00	0.00	5.14
2167	2284	3.148279	GGCGATCTCCACTCCCGT	61.148	66.667	0.00	0.00	0.00	5.28
2170	2287	1.753078	CGATCTCCACTCCCGTCCA	60.753	63.158	0.00	0.00	0.00	4.02
2171	2288	1.320344	CGATCTCCACTCCCGTCCAA	61.320	60.000	0.00	0.00	0.00	3.53
2183	2300	0.251165	CCGTCCAAACCCATCCAACT	60.251	55.000	0.00	0.00	0.00	3.16
2462	2580	0.034337	GTCCAGCACGAAGGTAACCA	59.966	55.000	0.00	0.00	37.17	3.67
2503	2621	1.801309	CGCTGCCCTCTAGGTCTAGC	61.801	65.000	0.00	1.50	38.26	3.42
2547	2665	2.836187	CCGGGGTCTGGGTTTGGAA	61.836	63.158	0.00	0.00	0.00	3.53
2552	2696	1.422402	GGGTCTGGGTTTGGAACTACA	59.578	52.381	0.00	0.00	0.00	2.74
2555	2699	1.073284	TCTGGGTTTGGAACTACAGGC	59.927	52.381	12.48	0.00	37.14	4.85
2604	2748	1.666209	CCAACATGGGTGATTCCGGC	61.666	60.000	0.00	0.00	37.00	6.13

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
29	30	2.617021	GGCCCTCTCGTGTTAAATTGGA	60.617	50.000	0.00	0.00	0.00	3.53
115	116	3.309954	GTCCGATTACCTTTCAGTCATGC	59.690	47.826	0.00	0.00	0.00	4.06
140	141	6.263392	TGGATCTTCGGTTTGTATGTTTTCAA	59.737	34.615	0.00	0.00	0.00	2.69
149	150	2.690786	CCGTTGGATCTTCGGTTTGTA	58.309	47.619	12.84	0.00	39.51	2.41
157	158	2.386661	TTCTCAGCCGTTGGATCTTC	57.613	50.000	0.00	0.00	0.00	2.87
454	484	7.346208	TGATTTCAACAACTGACTACATACG	57.654	36.000	0.00	0.00	32.21	3.06
564	594	8.647226	CGAGTTTCAAACAAGAACTCAAATTTT	58.353	29.630	2.41	0.00	31.71	1.82
565	595	7.201435	GCGAGTTTCAAACAAGAACTCAAATTT	60.201	33.333	2.41	0.00	31.71	1.82
619	649	5.545723	TGGTGAATAACAAATGGGTCCAAAT	59.454	36.000	0.00	0.00	0.00	2.32
620	650	4.901849	TGGTGAATAACAAATGGGTCCAAA	59.098	37.500	0.00	0.00	0.00	3.28
630	660	8.283992	CGTGTAGTGTTTATGGTGAATAACAAA	58.716	33.333	0.00	0.00	30.21	2.83
635	665	6.689554	TGTCGTGTAGTGTTTATGGTGAATA	58.310	36.000	0.00	0.00	0.00	1.75
649	679	4.761975	TCCTTTTTCAGTTGTCGTGTAGT	58.238	39.130	0.00	0.00	0.00	2.73
656	686	3.692791	AGCGTTCCTTTTTCAGTTGTC	57.307	42.857	0.00	0.00	0.00	3.18
661	691	2.096417	CGGTGTAGCGTTCCTTTTTCAG	60.096	50.000	0.00	0.00	0.00	3.02
668	699	2.048503	GCACGGTGTAGCGTTCCT	60.049	61.111	10.24	0.00	0.00	3.36
702	733	2.110578	TCCTCGATTCTGATTGGCTGA	58.889	47.619	0.00	0.00	0.00	4.26
830	861	3.576550	GGCTGAGATTGGTTTTTGGGTTA	59.423	43.478	0.00	0.00	0.00	2.85
922	972	1.473788	GCCGGCGGGATACTAGAAAAA	60.474	52.381	29.48	0.00	34.06	1.94
928	978	2.599578	GGAGCCGGCGGGATACTA	60.600	66.667	29.48	0.00	34.06	1.82
1099	1167	4.760047	TGCTTCCTCGGCGCCTTC	62.760	66.667	26.68	5.70	0.00	3.46
1156	1224	4.344865	GGCTTCTTCACCCCGCCA	62.345	66.667	0.00	0.00	40.41	5.69
1162	1230	2.359975	CGGTGGGGCTTCTTCACC	60.360	66.667	0.00	0.00	45.36	4.02
1352	1420	2.809861	AAGAGCCCGACGAGGTACGA	62.810	60.000	0.00	0.00	45.77	3.43
1494	1562	4.865905	ACATCACAGTAGGACTCTCTGAT	58.134	43.478	10.06	0.00	33.93	2.90
1545	1613	1.899814	AGAGCGGACAGGAACATGTTA	59.100	47.619	11.95	0.00	32.25	2.41
1567	1635	3.809832	GCTACATATGGCAAGACAACGAT	59.190	43.478	7.80	0.00	31.28	3.73
1594	1662	4.394099	TCATTGATAATTCATCGCAGCG	57.606	40.909	9.06	9.06	36.33	5.18
1660	1745	2.341257	AGAAAGCAGTACGCATCACAG	58.659	47.619	11.30	0.00	46.13	3.66
1663	1748	2.766313	ACAAGAAAGCAGTACGCATCA	58.234	42.857	11.30	0.00	46.13	3.07
1668	1753	5.597813	ATGAAGAACAAGAAAGCAGTACG	57.402	39.130	0.00	0.00	0.00	3.67
1690	1775	7.564793	ACCATCATACAGCTAGACAACATAAA	58.435	34.615	0.00	0.00	0.00	1.40
1693	1778	5.620738	ACCATCATACAGCTAGACAACAT	57.379	39.130	0.00	0.00	0.00	2.71
1694	1779	5.178061	CAACCATCATACAGCTAGACAACA	58.822	41.667	0.00	0.00	0.00	3.33
1711	1796	3.014623	CTCTGCATCACATCACAACCAT	58.985	45.455	0.00	0.00	0.00	3.55
1714	1799	2.703416	TCCTCTGCATCACATCACAAC	58.297	47.619	0.00	0.00	0.00	3.32
1720	1805	2.625737	CGTTCTTCCTCTGCATCACAT	58.374	47.619	0.00	0.00	0.00	3.21
1726	1811	2.048222	CCGCGTTCTTCCTCTGCA	60.048	61.111	4.92	0.00	0.00	4.41
1742	1827	5.405269	GGATGAAAATTATTATGCGGCAACC	59.595	40.000	6.82	0.00	0.00	3.77
1743	1828	5.405269	GGGATGAAAATTATTATGCGGCAAC	59.595	40.000	6.82	0.00	0.00	4.17
1744	1829	5.304101	AGGGATGAAAATTATTATGCGGCAA	59.696	36.000	6.82	0.00	0.00	4.52
1772	1869	5.762045	ACGAACACTGAAAAATCCAATGAG	58.238	37.500	0.00	0.00	0.00	2.90
1783	1880	4.698304	AGTGGAAGAAAACGAACACTGAAA	59.302	37.500	0.00	0.00	37.74	2.69
1787	1884	5.019785	AGTAGTGGAAGAAAACGAACACT	57.980	39.130	0.00	0.00	41.52	3.55
1788	1885	5.729974	AAGTAGTGGAAGAAAACGAACAC	57.270	39.130	0.00	0.00	0.00	3.32
1790	1887	9.726232	AAAATAAAGTAGTGGAAGAAAACGAAC	57.274	29.630	0.00	0.00	0.00	3.95
1793	1890	8.964150	CCAAAAATAAAGTAGTGGAAGAAAACG	58.036	33.333	0.00	0.00	0.00	3.60
1827	1924	1.470098	GCGCCATCAGAAAACATGAGT	59.530	47.619	0.00	0.00	0.00	3.41
1830	1927	1.904144	CAGCGCCATCAGAAAACATG	58.096	50.000	2.29	0.00	0.00	3.21
1832	1929	0.890542	AGCAGCGCCATCAGAAAACA	60.891	50.000	2.29	0.00	0.00	2.83
1845	1942	0.179092	TCATCTCCATCACAGCAGCG	60.179	55.000	0.00	0.00	0.00	5.18
1883	1980	5.003804	GCTTATCCATGGACGGTAATCATT	58.996	41.667	18.99	0.00	0.00	2.57
1890	1987	0.986019	TGGGCTTATCCATGGACGGT	60.986	55.000	18.99	3.68	36.21	4.83
1895	1992	1.898574	GCGGTGGGCTTATCCATGG	60.899	63.158	4.97	4.97	39.26	3.66
1907	2004	4.622456	GCAACACAACGGCGGTGG	62.622	66.667	30.22	19.82	40.54	4.61
1913	2010	3.057596	ACAAATATGGAGCAACACAACGG	60.058	43.478	0.00	0.00	0.00	4.44
1914	2011	4.159377	ACAAATATGGAGCAACACAACG	57.841	40.909	0.00	0.00	0.00	4.10
1918	2015	3.119137	GGGGAACAAATATGGAGCAACAC	60.119	47.826	0.00	0.00	0.00	3.32
1924	2021	6.155049	ACAAAATCTGGGGAACAAATATGGAG	59.845	38.462	0.00	0.00	0.00	3.86
1987	2101	2.203437	AACCACCAACGGAAGGGC	60.203	61.111	0.00	0.00	0.00	5.19
1989	2103	2.561037	GCCAACCACCAACGGAAGG	61.561	63.158	0.00	0.00	0.00	3.46
2118	2235	2.442262	AAGAAGTTTCTCCCCTCCCT	57.558	50.000	0.00	0.00	36.28	4.20
2131	2248	0.788391	CGCGCGGAAGTAAAAGAAGT	59.212	50.000	24.84	0.00	0.00	3.01
2161	2278	1.077716	GGATGGGTTTGGACGGGAG	60.078	63.158	0.00	0.00	0.00	4.30
2165	2282	1.165270	GAGTTGGATGGGTTTGGACG	58.835	55.000	0.00	0.00	0.00	4.79
2166	2283	1.886542	GTGAGTTGGATGGGTTTGGAC	59.113	52.381	0.00	0.00	0.00	4.02
2167	2284	1.203001	GGTGAGTTGGATGGGTTTGGA	60.203	52.381	0.00	0.00	0.00	3.53
2170	2287	0.893727	GCGGTGAGTTGGATGGGTTT	60.894	55.000	0.00	0.00	0.00	3.27
2171	2288	1.303317	GCGGTGAGTTGGATGGGTT	60.303	57.895	0.00	0.00	0.00	4.11
2208	2325	2.409651	GCTCCGACGAGGCTACTG	59.590	66.667	0.00	0.00	40.77	2.74
2211	2328	4.478371	TCCGCTCCGACGAGGCTA	62.478	66.667	0.00	0.00	40.77	3.93
2462	2580	0.043940	AAGCAGATCTGAGGAGGGGT	59.956	55.000	27.04	0.00	0.00	4.95
2503	2621	4.183865	TGAGCATCGGATCACAAAGTAAG	58.816	43.478	0.00	0.00	38.61	2.34
2547	2665	0.323542	ACTACTGCGAGGCCTGTAGT	60.324	55.000	21.99	21.99	40.26	2.73
2552	2696	0.905357	ATCAAACTACTGCGAGGCCT	59.095	50.000	3.86	3.86	0.00	5.19
2555	2699	3.252974	AGGAATCAAACTACTGCGAGG	57.747	47.619	0.00	0.00	0.00	4.63
2604	2748	2.200067	CAGGCTACTTTGCAGAGATCG	58.800	52.381	11.85	0.00	34.04	3.69

Based at the University of Bristol with support from BBSRC.

AutoCloner maintained by Alex Coulton.