AutoCloner

Multiple sequence alignment - TraesCS3D01G114700

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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	TraesCS3D01G114700	chr3D	100.000	2489	0	0	1	2489	68169275	68171763	0.000000e+00	4597.0
1	TraesCS3D01G114700	chr3D	90.460	1195	60	14	738	1896	68273549	68274725	0.000000e+00	1526.0
2	TraesCS3D01G114700	chr3D	88.587	184	13	3	454	629	68273291	68273474	1.500000e-52	217.0
3	TraesCS3D01G114700	chr3D	90.132	152	13	2	2320	2471	68274801	68274950	1.950000e-46	196.0
4	TraesCS3D01G114700	chr3D	91.525	59	3	2	2232	2288	68171446	68171504	2.050000e-11	80.5
5	TraesCS3D01G114700	chr3D	91.525	59	3	2	2172	2230	68171506	68171562	2.050000e-11	80.5
6	TraesCS3D01G114700	chr3D	94.872	39	2	0	2000	2038	68274766	68274804	7.430000e-06	62.1
7	TraesCS3D01G114700	chr3B	92.261	1473	84	15	774	2232	113512784	113511328	0.000000e+00	2061.0
8	TraesCS3D01G114700	chr3B	89.751	683	43	12	811	1491	112948546	112947889	0.000000e+00	848.0
9	TraesCS3D01G114700	chr3B	89.474	684	52	9	811	1491	112465804	112465138	0.000000e+00	846.0
10	TraesCS3D01G114700	chr3B	88.825	698	37	16	796	1491	113503561	113504219	0.000000e+00	819.0
11	TraesCS3D01G114700	chr3B	89.286	672	45	11	811	1480	113483345	113483991	0.000000e+00	817.0
12	TraesCS3D01G114700	chr3B	87.701	683	54	15	811	1491	112497302	112496648	0.000000e+00	769.0
13	TraesCS3D01G114700	chr3B	91.929	508	34	4	1	502	113515300	113514794	0.000000e+00	704.0
14	TraesCS3D01G114700	chr3B	90.000	260	20	4	2232	2488	113511389	113511133	5.130000e-87	331.0
15	TraesCS3D01G114700	chr3B	90.476	84	3	4	639	717	113514709	113514626	3.390000e-19	106.0
16	TraesCS3D01G114700	chr3B	100.000	28	0	0	750	777	113512820	113512793	4.000000e-03	52.8
17	TraesCS3D01G114700	chr3A	90.100	1000	57	17	753	1712	80225561	80226558	0.000000e+00	1260.0
18	TraesCS3D01G114700	chr3A	92.598	635	33	5	1	629	80224888	80225514	0.000000e+00	900.0
19	TraesCS3D01G114700	chr3A	89.796	686	32	17	811	1491	80289619	80288967	0.000000e+00	845.0
20	TraesCS3D01G114700	chr3A	94.048	168	7	2	1729	1896	80226615	80226779	4.110000e-63	252.0
21	TraesCS3D01G114700	chr3A	92.466	146	8	3	2089	2232	80279137	80279281	3.240000e-49	206.0
22	TraesCS3D01G114700	chr3A	92.174	115	7	2	2089	2202	80278852	80278965	7.120000e-36	161.0
23	TraesCS3D01G114700	chr3A	91.262	103	5	3	2232	2331	80279221	80279322	1.200000e-28	137.0
24	TraesCS3D01G114700	chr3A	81.633	147	20	6	2089	2232	427770252	427770394	5.630000e-22	115.0
25	TraesCS3D01G114700	chr7B	90.415	699	39	17	796	1491	603657069	603657742	0.000000e+00	894.0
26	TraesCS3D01G114700	chr4D	89.312	683	56	8	811	1491	134550545	134549878	0.000000e+00	841.0
27	TraesCS3D01G114700	chr4D	88.102	706	44	19	796	1499	134563120	134563787	0.000000e+00	802.0
28	TraesCS3D01G114700	chr4D	88.843	242	20	6	2232	2469	134626286	134626048	8.710000e-75	291.0
29	TraesCS3D01G114700	chr4D	89.655	145	13	2	2089	2232	134626367	134626224	1.520000e-42	183.0
30	TraesCS3D01G114700	chr4D	94.643	112	5	1	1788	1899	134626582	134626472	3.290000e-39	172.0
31	TraesCS3D01G114700	chr7A	91.379	58	5	0	2117	2174	455611081	455611138	2.050000e-11	80.5
32	TraesCS3D01G114700	chr6D	83.529	85	13	1	2092	2175	269895907	269895823	7.380000e-11	78.7
33	TraesCS3D01G114700	chr5B	82.927	82	11	2	2134	2212	676304435	676304354	1.240000e-08	71.3

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	TraesCS3D01G114700	chr3D	68169275	68171763	2488	False	1586.000000	4597	94.350000	1	2489	3	chr3D.!!$F1	2488
1	TraesCS3D01G114700	chr3D	68273291	68274950	1659	False	500.275000	1526	91.012750	454	2471	4	chr3D.!!$F2	2017
2	TraesCS3D01G114700	chr3B	112947889	112948546	657	True	848.000000	848	89.751000	811	1491	1	chr3B.!!$R3	680
3	TraesCS3D01G114700	chr3B	112465138	112465804	666	True	846.000000	846	89.474000	811	1491	1	chr3B.!!$R1	680
4	TraesCS3D01G114700	chr3B	113503561	113504219	658	False	819.000000	819	88.825000	796	1491	1	chr3B.!!$F2	695
5	TraesCS3D01G114700	chr3B	113483345	113483991	646	False	817.000000	817	89.286000	811	1480	1	chr3B.!!$F1	669
6	TraesCS3D01G114700	chr3B	112496648	112497302	654	True	769.000000	769	87.701000	811	1491	1	chr3B.!!$R2	680
7	TraesCS3D01G114700	chr3B	113511133	113515300	4167	True	650.960000	2061	92.933200	1	2488	5	chr3B.!!$R4	2487
8	TraesCS3D01G114700	chr3A	80288967	80289619	652	True	845.000000	845	89.796000	811	1491	1	chr3A.!!$R1	680
9	TraesCS3D01G114700	chr3A	80224888	80226779	1891	False	804.000000	1260	92.248667	1	1896	3	chr3A.!!$F2	1895
10	TraesCS3D01G114700	chr7B	603657069	603657742	673	False	894.000000	894	90.415000	796	1491	1	chr7B.!!$F1	695
11	TraesCS3D01G114700	chr4D	134549878	134550545	667	True	841.000000	841	89.312000	811	1491	1	chr4D.!!$R1	680
12	TraesCS3D01G114700	chr4D	134563120	134563787	667	False	802.000000	802	88.102000	796	1499	1	chr4D.!!$F1	703
13	TraesCS3D01G114700	chr4D	134626048	134626582	534	True	215.333333	291	91.047000	1788	2469	3	chr4D.!!$R2	681

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
742	2553	0.036732	GACCTGGCCACTCATCAACA	59.963	55.0	0.0	0.0	0.0	3.33	F

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability	Orientation
1950	3933	0.746563	ACCACCACAAACAGACACCG	60.747	55.0	0.0	0.0	0.0	4.94	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
64	65	3.015312	GCCGTCTAAGAACCCGCCT	62.015	63.158	0.00	0.00	0.00	5.52
124	125	2.352805	GCTGGTAGCAGCAAGGGT	59.647	61.111	35.55	0.00	46.73	4.34
150	151	4.388499	GGTCGGGAAGAGCGGCAA	62.388	66.667	1.45	0.00	37.64	4.52
151	152	2.815647	GTCGGGAAGAGCGGCAAG	60.816	66.667	1.45	0.00	0.00	4.01
290	293	7.220030	GCTCCTGAGATATTTGATCCTGTAAA	58.780	38.462	0.00	0.00	0.00	2.01
409	412	6.169557	TCTTACCACGGCATCTGTAATAAT	57.830	37.500	0.00	0.00	0.00	1.28
550	569	0.888736	TGTTCCTCACCATGTTGCGG	60.889	55.000	0.00	0.00	0.00	5.69
564	583	3.851128	GCGGTGCTCCTAGTCCCC	61.851	72.222	2.85	0.00	0.00	4.81
656	700	7.850492	CCAAAAATAAAAGTGAAAGGAAAAGCG	59.150	33.333	0.00	0.00	0.00	4.68
719	767	1.067212	AGACACTTGTCACGACAGGTC	59.933	52.381	11.57	13.79	46.73	3.85
723	2534	1.202417	ACTTGTCACGACAGGTCACAG	60.202	52.381	8.96	1.57	46.73	3.66
734	2545	3.151906	GTCACAGACCTGGCCACT	58.848	61.111	0.00	0.00	34.19	4.00
737	2548	0.837691	TCACAGACCTGGCCACTCAT	60.838	55.000	0.00	0.00	34.19	2.90
738	2549	0.392193	CACAGACCTGGCCACTCATC	60.392	60.000	0.00	0.00	34.19	2.92
739	2550	0.837691	ACAGACCTGGCCACTCATCA	60.838	55.000	0.00	0.00	34.19	3.07
740	2551	0.325933	CAGACCTGGCCACTCATCAA	59.674	55.000	0.00	0.00	0.00	2.57
741	2552	0.326264	AGACCTGGCCACTCATCAAC	59.674	55.000	0.00	0.00	0.00	3.18
742	2553	0.036732	GACCTGGCCACTCATCAACA	59.963	55.000	0.00	0.00	0.00	3.33
743	2554	0.700564	ACCTGGCCACTCATCAACAT	59.299	50.000	0.00	0.00	0.00	2.71
744	2555	1.076024	ACCTGGCCACTCATCAACATT	59.924	47.619	0.00	0.00	0.00	2.71
745	2556	2.173519	CCTGGCCACTCATCAACATTT	58.826	47.619	0.00	0.00	0.00	2.32
747	2558	3.367703	CCTGGCCACTCATCAACATTTTC	60.368	47.826	0.00	0.00	0.00	2.29
748	2559	3.229293	TGGCCACTCATCAACATTTTCA	58.771	40.909	0.00	0.00	0.00	2.69
952	2859	1.238439	AACAATCCAACGCAGTCCAG	58.762	50.000	0.00	0.00	45.00	3.86
1533	3460	0.695347	AGAGAAGGTCCTTTGCCTGG	59.305	55.000	5.36	0.00	36.30	4.45
1608	3550	1.273327	AGATGCGTGATGTGTCTGTGA	59.727	47.619	0.00	0.00	0.00	3.58
1625	3567	3.711086	TGTGATTTCTATCTCTGCTCGC	58.289	45.455	0.00	0.00	0.00	5.03
1638	3580	2.202797	CTCGCATGGTGTCCGAGG	60.203	66.667	10.69	0.00	43.33	4.63
1659	3601	2.949644	GGTGTTGTGTGGCTAGTTTTCT	59.050	45.455	0.00	0.00	0.00	2.52
1896	3878	3.350219	AGTCAGTTAATTCGCCCATGT	57.650	42.857	0.00	0.00	0.00	3.21
1934	3917	9.262472	GTTGTTGATTGTTTTTAGATAGCTACG	57.738	33.333	0.00	0.00	0.00	3.51
1935	3918	8.542497	TGTTGATTGTTTTTAGATAGCTACGT	57.458	30.769	0.00	0.00	0.00	3.57
1950	3933	4.260334	GCTACGTGCTTATTCCTTGAAC	57.740	45.455	0.00	0.00	38.95	3.18
1955	3938	2.812011	GTGCTTATTCCTTGAACGGTGT	59.188	45.455	0.00	0.00	0.00	4.16
1976	3959	4.099824	GTCTGTTTGTGGTGGTTTTTACG	58.900	43.478	0.00	0.00	0.00	3.18
1977	3960	2.855370	CTGTTTGTGGTGGTTTTTACGC	59.145	45.455	0.00	0.00	0.00	4.42
1978	3961	2.492484	TGTTTGTGGTGGTTTTTACGCT	59.508	40.909	0.00	0.00	0.00	5.07
1980	3963	2.039818	TGTGGTGGTTTTTACGCTGA	57.960	45.000	0.00	0.00	0.00	4.26
1982	3965	2.753452	TGTGGTGGTTTTTACGCTGAAA	59.247	40.909	0.00	0.00	0.00	2.69
1983	3966	3.381908	TGTGGTGGTTTTTACGCTGAAAT	59.618	39.130	0.00	0.00	0.00	2.17
1987	3970	5.044558	GGTGGTTTTTACGCTGAAATGAAA	58.955	37.500	0.00	0.00	0.00	2.69
1988	3971	5.520649	GGTGGTTTTTACGCTGAAATGAAAA	59.479	36.000	0.00	0.00	0.00	2.29
1989	3972	6.036191	GGTGGTTTTTACGCTGAAATGAAAAA	59.964	34.615	0.00	0.00	0.00	1.94
1990	3973	6.897663	GTGGTTTTTACGCTGAAATGAAAAAC	59.102	34.615	11.09	11.09	43.94	2.43
1991	3974	6.117542	GGTTTTTACGCTGAAATGAAAAACG	58.882	36.000	12.51	0.00	44.87	3.60
1992	3975	6.237622	GGTTTTTACGCTGAAATGAAAAACGT	60.238	34.615	12.51	0.00	44.87	3.99
1993	3976	7.044183	GGTTTTTACGCTGAAATGAAAAACGTA	60.044	33.333	12.51	0.00	44.87	3.57
1994	3977	7.966157	TTTTACGCTGAAATGAAAAACGTAA	57.034	28.000	0.00	0.00	41.20	3.18
1995	3978	8.563289	TTTTACGCTGAAATGAAAAACGTAAT	57.437	26.923	6.00	0.00	42.08	1.89
1996	3979	7.541743	TTACGCTGAAATGAAAAACGTAATG	57.458	32.000	0.00	0.00	38.95	1.90
1997	3980	4.381566	ACGCTGAAATGAAAAACGTAATGC	59.618	37.500	0.00	0.00	0.00	3.56
1998	3981	4.201485	CGCTGAAATGAAAAACGTAATGCC	60.201	41.667	0.00	0.00	0.00	4.40
2087	4070	4.576053	TCAGCGTATCCCAAAATTCATCTG	59.424	41.667	0.00	0.00	0.00	2.90
2232	4227	8.822855	GGTCAAACTTAAATTTTGAAATCCGTT	58.177	29.630	11.62	0.00	42.98	4.44
2241	4236	8.950208	AAATTTTGAAATCCGTTTAAGTCCAA	57.050	26.923	0.00	0.00	0.00	3.53
2242	4237	8.950208	AATTTTGAAATCCGTTTAAGTCCAAA	57.050	26.923	0.00	0.00	0.00	3.28
2243	4238	8.950208	ATTTTGAAATCCGTTTAAGTCCAAAA	57.050	26.923	0.00	0.00	36.07	2.44
2244	4239	8.773404	TTTTGAAATCCGTTTAAGTCCAAAAA	57.227	26.923	0.00	0.00	30.96	1.94
2245	4240	8.950208	TTTGAAATCCGTTTAAGTCCAAAAAT	57.050	26.923	0.00	0.00	0.00	1.82
2247	4242	9.465985	TTGAAATCCGTTTAAGTCCAAAAATAC	57.534	29.630	0.00	0.00	0.00	1.89
2248	4243	8.630917	TGAAATCCGTTTAAGTCCAAAAATACA	58.369	29.630	0.00	0.00	0.00	2.29
2249	4244	9.634163	GAAATCCGTTTAAGTCCAAAAATACAT	57.366	29.630	0.00	0.00	0.00	2.29
2253	4248	9.451002	TCCGTTTAAGTCCAAAAATACATATCA	57.549	29.630	0.00	0.00	0.00	2.15
2291	4286	8.250332	TGGTAAGTTAAATCTTGAAATCCATGC	58.750	33.333	0.00	0.00	0.00	4.06
2292	4287	8.250332	GGTAAGTTAAATCTTGAAATCCATGCA	58.750	33.333	0.00	0.00	0.00	3.96
2293	4288	9.076596	GTAAGTTAAATCTTGAAATCCATGCAC	57.923	33.333	0.00	0.00	0.00	4.57
2294	4289	6.324819	AGTTAAATCTTGAAATCCATGCACG	58.675	36.000	0.00	0.00	0.00	5.34
2368	4363	9.662545	AAGGCAAAATTTCAAAAATCATTAACG	57.337	25.926	0.00	0.00	0.00	3.18
2392	4387	8.336080	ACGAAGAAAGAGTTGAATCAAAGTTAC	58.664	33.333	0.00	0.00	0.00	2.50
2461	4456	5.454755	CCATATTGTAAGGTTGAGGTCGGAT	60.455	44.000	0.00	0.00	0.00	4.18
2473	4468	3.580022	TGAGGTCGGATCAAGCATCATAT	59.420	43.478	0.00	0.00	32.33	1.78

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
4	5	1.153939	CTGGCTCTTGGTCGACGAG	60.154	63.158	9.92	11.68	0.00	4.18
124	125	2.602267	TTCCCGACCTTCTCGCCA	60.602	61.111	0.00	0.00	41.46	5.69
241	242	2.671370	ATCATGAAGCCTGCGCCGAT	62.671	55.000	4.18	0.00	34.57	4.18
290	293	6.374417	ACCAAGTCACTGATATTTACAGGT	57.626	37.500	0.00	0.00	39.38	4.00
379	382	3.197766	AGATGCCGTGGTAAGATCTCAAA	59.802	43.478	0.00	0.00	0.00	2.69
440	443	4.065321	AGACAACTCCACACTCTTCAAG	57.935	45.455	0.00	0.00	0.00	3.02
441	444	4.191544	CAAGACAACTCCACACTCTTCAA	58.808	43.478	0.00	0.00	0.00	2.69
505	524	3.199946	TGGGATAAATGTCAGTCACCTCC	59.800	47.826	0.00	0.00	0.00	4.30
550	569	0.831307	AATTCGGGGACTAGGAGCAC	59.169	55.000	0.00	0.00	0.00	4.40
564	583	1.262950	TGCTGGTTTGTGTCGAATTCG	59.737	47.619	21.78	21.78	41.45	3.34
601	633	0.253327	AACTTCTCCAATCCTCCCGC	59.747	55.000	0.00	0.00	0.00	6.13
667	711	4.093011	AGCGGATAGGAGCAGAGATATTT	58.907	43.478	0.00	0.00	35.48	1.40
717	765	1.004440	GAGTGGCCAGGTCTGTGAC	60.004	63.158	5.11	0.00	0.00	3.67
719	767	0.392193	GATGAGTGGCCAGGTCTGTG	60.392	60.000	5.11	0.00	0.00	3.66
723	2534	0.036732	TGTTGATGAGTGGCCAGGTC	59.963	55.000	5.11	6.93	0.00	3.85
740	2551	9.764363	GGTCTTTCTTTAGGAAAATGAAAATGT	57.236	29.630	0.00	0.00	42.52	2.71
741	2552	8.915654	CGGTCTTTCTTTAGGAAAATGAAAATG	58.084	33.333	0.00	0.00	42.52	2.32
742	2553	8.638873	ACGGTCTTTCTTTAGGAAAATGAAAAT	58.361	29.630	0.00	0.00	42.52	1.82
743	2554	8.002984	ACGGTCTTTCTTTAGGAAAATGAAAA	57.997	30.769	0.00	0.00	42.52	2.29
744	2555	7.576861	ACGGTCTTTCTTTAGGAAAATGAAA	57.423	32.000	0.00	0.00	42.52	2.69
745	2556	7.283580	TCAACGGTCTTTCTTTAGGAAAATGAA	59.716	33.333	0.00	0.00	42.52	2.57
747	2558	6.966021	TCAACGGTCTTTCTTTAGGAAAATG	58.034	36.000	0.00	0.00	42.52	2.32
748	2559	7.309194	CCATCAACGGTCTTTCTTTAGGAAAAT	60.309	37.037	0.00	0.00	42.52	1.82
1096	3005	4.379243	CTGCTTCTCACCGCCGGT	62.379	66.667	1.02	1.02	35.62	5.28
1224	3139	1.811266	CACCTTGATGTCGCCGGAG	60.811	63.158	5.05	0.00	0.00	4.63
1503	3430	1.619332	GACCTTCTCTCTGGTTCGGTT	59.381	52.381	0.00	0.00	36.59	4.44
1544	3472	1.066303	CGATCACTACCCACTCAGCTC	59.934	57.143	0.00	0.00	0.00	4.09
1608	3550	3.070734	ACCATGCGAGCAGAGATAGAAAT	59.929	43.478	3.58	0.00	0.00	2.17
1625	3567	0.955428	CAACACCCTCGGACACCATG	60.955	60.000	0.00	0.00	0.00	3.66
1638	3580	2.949644	AGAAAACTAGCCACACAACACC	59.050	45.455	0.00	0.00	0.00	4.16
1659	3601	3.706802	TTGAAATTGCGCACTGAAAGA	57.293	38.095	11.12	0.00	37.43	2.52
1782	3764	6.107901	TGGGACCCAAACAAATATTTTGAG	57.892	37.500	12.05	0.00	36.24	3.02
1800	3782	8.062065	TGTCCACTAATATTTGATTTTGGGAC	57.938	34.615	3.83	0.00	40.14	4.46
1934	3917	2.812011	ACACCGTTCAAGGAATAAGCAC	59.188	45.455	0.00	0.00	34.73	4.40
1935	3918	3.071479	GACACCGTTCAAGGAATAAGCA	58.929	45.455	0.00	0.00	34.73	3.91
1950	3933	0.746563	ACCACCACAAACAGACACCG	60.747	55.000	0.00	0.00	0.00	4.94
1955	3938	3.427773	GCGTAAAAACCACCACAAACAGA	60.428	43.478	0.00	0.00	0.00	3.41
1976	3959	4.091365	GGGCATTACGTTTTTCATTTCAGC	59.909	41.667	0.00	0.00	0.00	4.26
1977	3960	5.226396	TGGGCATTACGTTTTTCATTTCAG	58.774	37.500	0.00	0.00	0.00	3.02
1978	3961	5.010112	TCTGGGCATTACGTTTTTCATTTCA	59.990	36.000	0.00	0.00	0.00	2.69
1980	3963	5.461032	TCTGGGCATTACGTTTTTCATTT	57.539	34.783	0.00	0.00	0.00	2.32
1982	3965	5.659440	ATTCTGGGCATTACGTTTTTCAT	57.341	34.783	0.00	0.00	0.00	2.57
1983	3966	5.461032	AATTCTGGGCATTACGTTTTTCA	57.539	34.783	0.00	0.00	0.00	2.69
1987	3970	4.282195	TCCAAAATTCTGGGCATTACGTTT	59.718	37.500	0.00	0.00	37.06	3.60
1988	3971	3.829601	TCCAAAATTCTGGGCATTACGTT	59.170	39.130	0.00	0.00	37.06	3.99
1989	3972	3.426615	TCCAAAATTCTGGGCATTACGT	58.573	40.909	0.00	0.00	37.06	3.57
1990	3973	4.142182	ACATCCAAAATTCTGGGCATTACG	60.142	41.667	0.00	0.00	37.06	3.18
1991	3974	5.343307	ACATCCAAAATTCTGGGCATTAC	57.657	39.130	0.00	0.00	37.06	1.89
1992	3975	5.954752	TGTACATCCAAAATTCTGGGCATTA	59.045	36.000	0.00	0.00	37.06	1.90
1993	3976	4.776837	TGTACATCCAAAATTCTGGGCATT	59.223	37.500	0.00	0.00	37.06	3.56
1994	3977	4.352009	TGTACATCCAAAATTCTGGGCAT	58.648	39.130	0.00	0.00	37.06	4.40
1995	3978	3.772387	TGTACATCCAAAATTCTGGGCA	58.228	40.909	0.00	0.00	37.06	5.36
1996	3979	5.343307	AATGTACATCCAAAATTCTGGGC	57.657	39.130	9.23	0.00	37.06	5.36
1997	3980	5.581874	GCAAATGTACATCCAAAATTCTGGG	59.418	40.000	9.23	0.00	37.06	4.45
1998	3981	6.164876	TGCAAATGTACATCCAAAATTCTGG	58.835	36.000	9.23	0.00	37.87	3.86
2050	4033	5.992217	GGATACGCTGAAATTGAGGAAGTAT	59.008	40.000	0.00	0.00	0.00	2.12
2051	4034	5.357257	GGATACGCTGAAATTGAGGAAGTA	58.643	41.667	0.00	0.00	0.00	2.24
2052	4035	4.192317	GGATACGCTGAAATTGAGGAAGT	58.808	43.478	0.00	0.00	0.00	3.01
2053	4036	3.561725	GGGATACGCTGAAATTGAGGAAG	59.438	47.826	0.00	0.00	37.60	3.46
2054	4037	3.054728	TGGGATACGCTGAAATTGAGGAA	60.055	43.478	0.00	0.00	37.60	3.36
2055	4038	2.503765	TGGGATACGCTGAAATTGAGGA	59.496	45.455	0.00	0.00	37.60	3.71
2087	4070	3.751518	ACCCACATCTAGTTGGTCAAAC	58.248	45.455	5.80	0.00	42.26	2.93
2265	4260	8.250332	GCATGGATTTCAAGATTTAACTTACCA	58.750	33.333	0.00	0.00	0.00	3.25
2266	4261	8.250332	TGCATGGATTTCAAGATTTAACTTACC	58.750	33.333	0.00	0.00	0.00	2.85
2267	4262	9.076596	GTGCATGGATTTCAAGATTTAACTTAC	57.923	33.333	0.00	0.00	0.00	2.34
2268	4263	7.967854	CGTGCATGGATTTCAAGATTTAACTTA	59.032	33.333	0.00	0.00	0.00	2.24
2269	4264	6.808212	CGTGCATGGATTTCAAGATTTAACTT	59.192	34.615	0.00	0.00	0.00	2.66
2270	4265	6.071952	ACGTGCATGGATTTCAAGATTTAACT	60.072	34.615	11.36	0.00	0.00	2.24
2271	4266	6.033831	CACGTGCATGGATTTCAAGATTTAAC	59.966	38.462	11.36	0.00	0.00	2.01
2272	4267	6.092092	CACGTGCATGGATTTCAAGATTTAA	58.908	36.000	11.36	0.00	0.00	1.52
2273	4268	5.182950	ACACGTGCATGGATTTCAAGATTTA	59.817	36.000	17.22	0.00	0.00	1.40
2274	4269	4.022068	ACACGTGCATGGATTTCAAGATTT	60.022	37.500	17.22	0.00	0.00	2.17
2275	4270	3.507233	ACACGTGCATGGATTTCAAGATT	59.493	39.130	17.22	0.00	0.00	2.40
2276	4271	3.084039	ACACGTGCATGGATTTCAAGAT	58.916	40.909	17.22	0.00	0.00	2.40
2277	4272	2.483877	GACACGTGCATGGATTTCAAGA	59.516	45.455	17.22	0.00	0.00	3.02
2278	4273	2.485426	AGACACGTGCATGGATTTCAAG	59.515	45.455	17.22	0.00	0.00	3.02
2279	4274	2.503331	AGACACGTGCATGGATTTCAA	58.497	42.857	17.22	0.00	0.00	2.69
2280	4275	2.183478	AGACACGTGCATGGATTTCA	57.817	45.000	17.22	0.00	0.00	2.69
2281	4276	4.882671	ATAAGACACGTGCATGGATTTC	57.117	40.909	17.22	2.66	0.00	2.17
2282	4277	5.182487	TGTATAAGACACGTGCATGGATTT	58.818	37.500	17.22	2.51	31.20	2.17
2283	4278	4.765273	TGTATAAGACACGTGCATGGATT	58.235	39.130	17.22	4.22	31.20	3.01
2284	4279	4.400529	TGTATAAGACACGTGCATGGAT	57.599	40.909	17.22	5.66	31.20	3.41
2285	4280	3.878160	TGTATAAGACACGTGCATGGA	57.122	42.857	17.22	0.00	31.20	3.41
2286	4281	4.260743	CCAATGTATAAGACACGTGCATGG	60.261	45.833	17.22	6.47	42.17	3.66
2287	4282	4.570369	TCCAATGTATAAGACACGTGCATG	59.430	41.667	17.22	3.82	42.17	4.06
2288	4283	4.765273	TCCAATGTATAAGACACGTGCAT	58.235	39.130	17.22	6.09	42.17	3.96
2289	4284	4.195225	TCCAATGTATAAGACACGTGCA	57.805	40.909	17.22	3.60	42.17	4.57
2290	4285	5.734855	ATTCCAATGTATAAGACACGTGC	57.265	39.130	17.22	8.74	42.17	5.34
2291	4286	7.382488	CCTCTATTCCAATGTATAAGACACGTG	59.618	40.741	15.48	15.48	42.17	4.49
2292	4287	7.287005	TCCTCTATTCCAATGTATAAGACACGT	59.713	37.037	0.00	0.00	42.17	4.49
2293	4288	7.658261	TCCTCTATTCCAATGTATAAGACACG	58.342	38.462	0.00	0.00	42.17	4.49
2294	4289	9.482627	CTTCCTCTATTCCAATGTATAAGACAC	57.517	37.037	0.00	0.00	42.17	3.67
2461	4456	8.985315	ATCTAACCTTGAAATATGATGCTTGA	57.015	30.769	0.00	0.00	0.00	3.02

Based at the University of Bristol with support from BBSRC.

AutoCloner maintained by Alex Coulton.