AutoCloner

Multiple sequence alignment - TraesCS3D01G212900

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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	TraesCS3D01G212900	chr3D	100.000	2861	0	0	1	2861	286723002	286720142	0.000000e+00	5284.0
1	TraesCS3D01G212900	chr3D	82.033	423	60	10	2115	2523	123619004	123618584	2.110000e-91	346.0
2	TraesCS3D01G212900	chr3D	89.344	122	10	2	719	837	22286672	22286551	1.780000e-32	150.0
3	TraesCS3D01G212900	chr3D	89.831	118	11	1	719	835	535866151	535866268	1.780000e-32	150.0
4	TraesCS3D01G212900	chr3B	95.993	1073	34	2	835	1907	379343785	379342722	0.000000e+00	1735.0
5	TraesCS3D01G212900	chr3B	85.714	875	90	17	2017	2861	379303631	379302762	0.000000e+00	891.0
6	TraesCS3D01G212900	chr3B	95.122	82	4	0	1904	1985	379303710	379303629	2.310000e-26	130.0
7	TraesCS3D01G212900	chr3A	93.766	1139	44	12	826	1953	374972265	374971143	0.000000e+00	1685.0
8	TraesCS3D01G212900	chr3A	84.573	363	52	3	2164	2523	584028075	584028436	9.750000e-95	357.0
9	TraesCS3D01G212900	chr7D	95.252	695	31	2	141	834	174810297	174810990	0.000000e+00	1099.0
10	TraesCS3D01G212900	chr7D	83.133	415	55	9	2123	2523	290865596	290865183	5.830000e-97	364.0
11	TraesCS3D01G212900	chr7D	93.125	160	8	2	1	160	174810024	174810180	6.160000e-57	231.0
12	TraesCS3D01G212900	chr2B	91.702	699	38	4	141	835	796675433	796676115	0.000000e+00	952.0
13	TraesCS3D01G212900	chr2B	82.892	415	55	8	2115	2514	690213066	690213479	2.710000e-95	359.0
14	TraesCS3D01G212900	chr2B	76.109	586	86	26	2164	2720	789463153	789463713	1.020000e-64	257.0
15	TraesCS3D01G212900	chr2B	91.304	161	10	3	1	160	796675159	796675316	1.730000e-52	217.0
16	TraesCS3D01G212900	chr5B	90.682	719	41	9	141	835	369152731	369152015	0.000000e+00	933.0
17	TraesCS3D01G212900	chr5B	84.774	243	31	5	394	633	33848808	33849047	3.680000e-59	239.0
18	TraesCS3D01G212900	chr5B	83.766	154	12	4	1	153	369152997	369152856	1.790000e-27	134.0
19	TraesCS3D01G212900	chr5B	100.000	29	0	0	1471	1499	106960501	106960529	1.000000e-03	54.7
20	TraesCS3D01G212900	chr1A	87.366	744	41	14	141	834	393459771	393460511	0.000000e+00	804.0
21	TraesCS3D01G212900	chr1A	85.969	449	56	5	394	837	583817925	583817479	9.280000e-130	473.0
22	TraesCS3D01G212900	chr1A	77.090	646	85	26	2115	2722	538801384	538802004	5.950000e-82	315.0
23	TraesCS3D01G212900	chr1A	94.611	167	8	1	141	306	583818134	583817968	1.020000e-64	257.0
24	TraesCS3D01G212900	chr1A	85.093	161	15	6	1	160	393459502	393459654	3.820000e-34	156.0
25	TraesCS3D01G212900	chr1D	83.848	421	55	7	2115	2523	439108924	439108505	3.460000e-104	388.0
26	TraesCS3D01G212900	chr1D	76.335	693	96	34	2086	2729	487618229	487617556	2.770000e-80	309.0
27	TraesCS3D01G212900	chr1D	88.793	116	12	1	720	834	460645006	460645121	1.070000e-29	141.0
28	TraesCS3D01G212900	chr1D	87.037	108	12	2	2608	2715	8928674	8928779	1.390000e-23	121.0
29	TraesCS3D01G212900	chrUn	83.411	428	53	11	2115	2527	17329418	17329842	5.780000e-102	381.0
30	TraesCS3D01G212900	chr7A	84.211	361	53	3	2164	2522	88188457	88188099	5.870000e-92	348.0
31	TraesCS3D01G212900	chr2D	84.066	364	50	8	2164	2523	621946550	621946191	7.590000e-91	344.0
32	TraesCS3D01G212900	chr4A	76.507	647	96	28	2115	2724	692086357	692086984	4.630000e-78	302.0
33	TraesCS3D01G212900	chr6B	79.018	448	67	14	2164	2605	512987095	512986669	6.040000e-72	281.0
34	TraesCS3D01G212900	chr6B	82.979	282	45	3	2245	2523	43061678	43061397	4.730000e-63	252.0
35	TraesCS3D01G212900	chr6A	88.793	116	11	1	721	834	96150132	96150017	1.070000e-29	141.0
36	TraesCS3D01G212900	chr5A	83.636	110	14	3	2606	2713	489685777	489685884	1.810000e-17	100.0
37	TraesCS3D01G212900	chr5A	83.486	109	14	3	2606	2712	489685929	489686035	6.520000e-17	99.0
38	TraesCS3D01G212900	chr5A	87.179	78	6	2	183	259	267004966	267005040	5.080000e-13	86.1
39	TraesCS3D01G212900	chr5A	96.875	32	1	0	1471	1502	106144971	106144940	1.000000e-03	54.7
40	TraesCS3D01G212900	chr5D	100.000	29	0	0	1471	1499	97588628	97588656	1.000000e-03	54.7

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	TraesCS3D01G212900	chr3D	286720142	286723002	2860	True	5284.0	5284	100.0000	1	2861	1	chr3D.!!$R3	2860
1	TraesCS3D01G212900	chr3B	379342722	379343785	1063	True	1735.0	1735	95.9930	835	1907	1	chr3B.!!$R1	1072
2	TraesCS3D01G212900	chr3B	379302762	379303710	948	True	510.5	891	90.4180	1904	2861	2	chr3B.!!$R2	957
3	TraesCS3D01G212900	chr3A	374971143	374972265	1122	True	1685.0	1685	93.7660	826	1953	1	chr3A.!!$R1	1127
4	TraesCS3D01G212900	chr7D	174810024	174810990	966	False	665.0	1099	94.1885	1	834	2	chr7D.!!$F1	833
5	TraesCS3D01G212900	chr2B	796675159	796676115	956	False	584.5	952	91.5030	1	835	2	chr2B.!!$F3	834
6	TraesCS3D01G212900	chr2B	789463153	789463713	560	False	257.0	257	76.1090	2164	2720	1	chr2B.!!$F2	556
7	TraesCS3D01G212900	chr5B	369152015	369152997	982	True	533.5	933	87.2240	1	835	2	chr5B.!!$R1	834
8	TraesCS3D01G212900	chr1A	393459502	393460511	1009	False	480.0	804	86.2295	1	834	2	chr1A.!!$F2	833
9	TraesCS3D01G212900	chr1A	583817479	583818134	655	True	365.0	473	90.2900	141	837	2	chr1A.!!$R1	696
10	TraesCS3D01G212900	chr1A	538801384	538802004	620	False	315.0	315	77.0900	2115	2722	1	chr1A.!!$F1	607
11	TraesCS3D01G212900	chr1D	487617556	487618229	673	True	309.0	309	76.3350	2086	2729	1	chr1D.!!$R2	643
12	TraesCS3D01G212900	chr4A	692086357	692086984	627	False	302.0	302	76.5070	2115	2724	1	chr4A.!!$F1	609

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
671	862	1.16342	TTGCCACACCAGCACTTACG	61.163	55.0	0.0	0.0	40.69	3.18	F

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability	Orientation
1985	2191	0.543277	GAGCATCCCTCATGTGGTCA	59.457	55.0	12.65	0.0	40.45	4.02	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
373	533	4.175489	GAGCTAGTCCGTGCGCGA	62.175	66.667	23.45	4.29	41.33	5.87
610	801	4.087892	CTGACGAGTGGCCCCCTG	62.088	72.222	0.00	0.00	0.00	4.45
660	851	4.447389	GGTGTCATGTTAATTTTGCCACAC	59.553	41.667	0.00	0.00	0.00	3.82
671	862	1.163420	TTGCCACACCAGCACTTACG	61.163	55.000	0.00	0.00	40.69	3.18
702	894	3.599730	TCTGTCAGAAGCGATGTCAAT	57.400	42.857	0.00	0.00	0.00	2.57
705	897	5.664457	TCTGTCAGAAGCGATGTCAATATT	58.336	37.500	0.00	0.00	0.00	1.28
1006	1202	1.862201	CACGTACAACAAAAGCCGAGA	59.138	47.619	0.00	0.00	0.00	4.04
1046	1243	2.000447	GAACCTGTGCTTCGTATCACC	59.000	52.381	0.00	0.00	32.51	4.02
1048	1245	1.066858	ACCTGTGCTTCGTATCACCAG	60.067	52.381	0.00	0.00	32.51	4.00
1049	1246	1.204704	CCTGTGCTTCGTATCACCAGA	59.795	52.381	0.00	0.00	32.51	3.86
1050	1247	2.534298	CTGTGCTTCGTATCACCAGAG	58.466	52.381	0.00	0.00	32.51	3.35
1225	1422	3.933332	CCAAGAACAAGGTAATCGGACTC	59.067	47.826	0.00	0.00	0.00	3.36
1259	1456	4.401022	TCTGTGAATTCTCTTGTTGCCAT	58.599	39.130	7.05	0.00	0.00	4.40
1260	1457	4.828939	TCTGTGAATTCTCTTGTTGCCATT	59.171	37.500	7.05	0.00	0.00	3.16
1261	1458	4.873817	TGTGAATTCTCTTGTTGCCATTG	58.126	39.130	7.05	0.00	0.00	2.82
1262	1459	3.676646	GTGAATTCTCTTGTTGCCATTGC	59.323	43.478	7.05	0.00	38.26	3.56
1263	1460	3.256558	GAATTCTCTTGTTGCCATTGCC	58.743	45.455	0.00	0.00	36.33	4.52
1264	1461	1.702182	TTCTCTTGTTGCCATTGCCA	58.298	45.000	0.00	0.00	36.33	4.92
1673	1870	3.986006	GTGCCGGACGACTCCACA	61.986	66.667	5.05	0.00	36.12	4.17
1883	2087	1.004277	TCAAGGGCCTCGTATTTGCTT	59.996	47.619	6.46	0.00	0.00	3.91
1969	2175	5.343307	AAAAATGGGCTTATGGCTTACAG	57.657	39.130	2.11	0.00	41.46	2.74
1976	2182	6.664714	TGGGCTTATGGCTTACAGTTTTATA	58.335	36.000	2.11	0.00	41.46	0.98
1983	2189	5.258051	TGGCTTACAGTTTTATACTTGGGG	58.742	41.667	0.00	0.00	33.85	4.96
1984	2190	5.014333	TGGCTTACAGTTTTATACTTGGGGA	59.986	40.000	0.00	0.00	33.85	4.81
1985	2191	6.127101	GGCTTACAGTTTTATACTTGGGGAT	58.873	40.000	0.00	0.00	33.85	3.85
1986	2192	6.039382	GGCTTACAGTTTTATACTTGGGGATG	59.961	42.308	0.00	0.00	33.85	3.51
1987	2193	6.826741	GCTTACAGTTTTATACTTGGGGATGA	59.173	38.462	0.00	0.00	33.85	2.92
1988	2194	7.201705	GCTTACAGTTTTATACTTGGGGATGAC	60.202	40.741	0.00	0.00	33.85	3.06
1989	2195	5.506708	ACAGTTTTATACTTGGGGATGACC	58.493	41.667	0.00	0.00	33.85	4.02
1990	2196	5.014755	ACAGTTTTATACTTGGGGATGACCA	59.985	40.000	0.00	0.00	36.36	4.02
1991	2197	5.357032	CAGTTTTATACTTGGGGATGACCAC	59.643	44.000	0.00	0.00	41.03	4.16
1997	2203	2.310251	TGGGGATGACCACATGAGG	58.690	57.895	7.74	7.74	45.65	3.86
1998	2204	1.281199	TGGGGATGACCACATGAGGG	61.281	60.000	14.11	10.10	45.65	4.30
1999	2205	0.988145	GGGGATGACCACATGAGGGA	60.988	60.000	14.11	0.00	42.91	4.20
2000	2206	1.143813	GGGATGACCACATGAGGGAT	58.856	55.000	14.11	4.99	39.85	3.85
2001	2207	1.202855	GGGATGACCACATGAGGGATG	60.203	57.143	14.11	0.00	39.85	3.51
2002	2208	1.602311	GATGACCACATGAGGGATGC	58.398	55.000	14.11	0.99	36.82	3.91
2003	2209	1.142465	GATGACCACATGAGGGATGCT	59.858	52.381	14.11	0.00	36.82	3.79
2004	2210	0.543277	TGACCACATGAGGGATGCTC	59.457	55.000	14.11	2.21	35.15	4.26
2005	2211	0.835941	GACCACATGAGGGATGCTCT	59.164	55.000	14.11	0.00	35.15	4.09
2006	2212	0.545171	ACCACATGAGGGATGCTCTG	59.455	55.000	14.11	0.00	35.15	3.35
2007	2213	0.545171	CCACATGAGGGATGCTCTGT	59.455	55.000	0.00	0.00	35.15	3.41
2008	2214	1.764723	CCACATGAGGGATGCTCTGTA	59.235	52.381	0.00	0.00	35.15	2.74
2009	2215	2.224233	CCACATGAGGGATGCTCTGTAG	60.224	54.545	0.00	0.00	35.15	2.74
2033	2239	6.935208	AGCGAGTAGGACTTGTTTTTCTATTT	59.065	34.615	0.00	0.00	32.12	1.40
2066	2272	9.539194	AGGGAATCTTGTTTTTCTATTTGATCT	57.461	29.630	0.00	0.00	0.00	2.75
2082	2288	4.128925	TGATCTGTAACTAGCCTGCTTG	57.871	45.455	0.00	0.00	0.00	4.01
2083	2289	2.386661	TCTGTAACTAGCCTGCTTGC	57.613	50.000	0.00	0.00	0.00	4.01
2084	2290	1.902508	TCTGTAACTAGCCTGCTTGCT	59.097	47.619	0.00	5.86	45.38	3.91
2145	2360	8.164070	AGGTACACTGATTTGAACCTAAAATCT	58.836	33.333	9.54	0.00	42.17	2.40
2192	2418	9.965824	AATTACAACGAAATCTCTTGAAAACAT	57.034	25.926	0.00	0.00	0.00	2.71
2198	2424	8.833231	ACGAAATCTCTTGAAAACATCTTCTA	57.167	30.769	0.00	0.00	0.00	2.10
2235	2463	5.065218	TCTGCTCGAAGAAATATTCCAAAGC	59.935	40.000	0.00	0.00	34.09	3.51
2242	2470	6.466097	CGAAGAAATATTCCAAAGCTTTCGAC	59.534	38.462	9.23	0.00	32.47	4.20
2298	2527	2.487762	GTCATTCTTTCACCCGCATGAA	59.512	45.455	0.00	0.00	36.80	2.57
2299	2528	3.129287	GTCATTCTTTCACCCGCATGAAT	59.871	43.478	0.00	0.00	38.37	2.57
2305	2534	4.509970	TCTTTCACCCGCATGAATATTACG	59.490	41.667	0.00	0.00	38.37	3.18
2326	2555	5.764131	ACGAATAATGGTTTTTCAAAGCGA	58.236	33.333	0.00	0.00	0.00	4.93
2350	2580	1.401905	GAGTCGCCCATCCAAAATGAC	59.598	52.381	0.00	0.00	0.00	3.06
2354	2584	1.815866	CCCATCCAAAATGACGGGC	59.184	57.895	0.00	0.00	0.00	6.13
2361	2591	1.173043	CAAAATGACGGGCAGCCTTA	58.827	50.000	12.43	0.00	0.00	2.69
2409	2639	2.292126	TGATCCCCTAAAAATGCAGGCA	60.292	45.455	0.00	0.00	0.00	4.75
2413	2643	2.170166	CCCTAAAAATGCAGGCAGTCA	58.830	47.619	0.00	0.00	0.00	3.41
2437	2667	9.716531	TCAAATCACTATATCTTCACCATGATC	57.283	33.333	0.00	0.00	0.00	2.92
2474	2704	1.726791	CGTCCACAAAGAATCAGACCG	59.273	52.381	0.00	0.00	0.00	4.79
2476	2706	3.600388	GTCCACAAAGAATCAGACCGAT	58.400	45.455	0.00	0.00	35.12	4.18
2566	2798	2.346803	TGCGAGGACATAAAACTCTGC	58.653	47.619	0.00	0.00	34.11	4.26
2643	2901	5.960811	AGAACATAGAGGTCTTGAAGATCCA	59.039	40.000	1.04	0.00	43.38	3.41
2675	2934	2.093075	CACCTCTCAGTGCCAAGATGAT	60.093	50.000	0.00	0.00	0.00	2.45
2684	2943	3.054139	AGTGCCAAGATGATAGCTGGAAA	60.054	43.478	0.00	0.00	0.00	3.13
2690	2949	5.455755	CCAAGATGATAGCTGGAAATGAGGA	60.456	44.000	0.00	0.00	0.00	3.71
2702	2961	6.153510	GCTGGAAATGAGGAGACCTAAATTTT	59.846	38.462	0.00	0.00	33.14	1.82
2747	3006	2.757314	GAGGCCTGCTTGCTTTTCTATT	59.243	45.455	12.00	0.00	0.00	1.73
2761	3020	6.714810	TGCTTTTCTATTCAGCCTCTTACAAA	59.285	34.615	0.00	0.00	32.11	2.83
2764	3023	4.755411	TCTATTCAGCCTCTTACAAACCG	58.245	43.478	0.00	0.00	0.00	4.44
2769	3028	1.377229	CCTCTTACAAACCGGGCCA	59.623	57.895	6.32	0.00	0.00	5.36
2776	3035	4.631740	AAACCGGGCCAAAGGGGG	62.632	66.667	6.32	0.00	37.04	5.40
2814	3074	4.208632	CCGACTGGATCTGTTGGC	57.791	61.111	11.04	0.00	37.49	4.52
2846	3106	0.321122	ACGACCGTACGAGAGACCTT	60.321	55.000	18.76	0.00	37.03	3.50

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
94	96	2.413351	GACGCTATCTGCTCGCCA	59.587	61.111	0.00	0.00	40.11	5.69
360	520	3.506096	CCTCTCGCGCACGGACTA	61.506	66.667	8.75	0.00	40.63	2.59
525	689	4.719369	GCGAGGTCAACGGCGAGT	62.719	66.667	16.62	0.00	0.00	4.18
574	765	0.109735	GTGTCTCATGCGTCTCACGA	60.110	55.000	0.00	0.00	46.05	4.35
610	801	1.641577	CTGCCCGTTACACTAGAAGC	58.358	55.000	0.00	0.00	0.00	3.86
660	851	2.813908	GTCCGCCGTAAGTGCTGG	60.814	66.667	0.00	0.00	0.00	4.85
671	862	3.391665	CTGACAGATGGGGTCCGCC	62.392	68.421	3.03	0.00	34.36	6.13
702	894	6.920817	ACACTGATCTGTCACTAAACGAATA	58.079	36.000	1.69	0.00	0.00	1.75
705	897	4.848562	ACACTGATCTGTCACTAAACGA	57.151	40.909	1.69	0.00	0.00	3.85
792	988	6.725834	ACCATCACAATTGAAGACCCTATTTT	59.274	34.615	13.59	0.00	34.61	1.82
795	991	5.456921	ACCATCACAATTGAAGACCCTAT	57.543	39.130	13.59	0.00	34.61	2.57
856	1052	0.247460	TGTCAGCGTTGGATCTCCTG	59.753	55.000	0.00	0.00	36.82	3.86
916	1112	0.174845	CGAGGGCCACGAGATACAAA	59.825	55.000	18.99	0.00	0.00	2.83
1026	1223	2.000447	GGTGATACGAAGCACAGGTTC	59.000	52.381	0.00	0.00	43.95	3.62
1035	1232	2.656002	TCCTCCTCTGGTGATACGAAG	58.344	52.381	0.00	0.00	0.00	3.79
1046	1243	2.428171	CTGCTCTCTTCTTCCTCCTCTG	59.572	54.545	0.00	0.00	0.00	3.35
1048	1245	1.756538	CCTGCTCTCTTCTTCCTCCTC	59.243	57.143	0.00	0.00	0.00	3.71
1049	1246	1.622173	CCCTGCTCTCTTCTTCCTCCT	60.622	57.143	0.00	0.00	0.00	3.69
1050	1247	0.829990	CCCTGCTCTCTTCTTCCTCC	59.170	60.000	0.00	0.00	0.00	4.30
1225	1422	0.315251	TTCACAGAGCTGGAGTCACG	59.685	55.000	0.00	0.00	34.19	4.35
1259	1456	2.890311	ACACGAAATTGGATCTTGGCAA	59.110	40.909	0.00	0.00	0.00	4.52
1260	1457	2.487762	GACACGAAATTGGATCTTGGCA	59.512	45.455	0.00	0.00	0.00	4.92
1261	1458	2.159379	GGACACGAAATTGGATCTTGGC	60.159	50.000	0.00	0.00	0.00	4.52
1262	1459	3.081061	TGGACACGAAATTGGATCTTGG	58.919	45.455	0.00	0.00	0.00	3.61
1263	1460	4.156556	ACATGGACACGAAATTGGATCTTG	59.843	41.667	0.00	0.00	0.00	3.02
1264	1461	4.335416	ACATGGACACGAAATTGGATCTT	58.665	39.130	0.00	0.00	0.00	2.40
1448	1645	1.291588	CTTCTCCACGCTGCTCAGT	59.708	57.895	0.00	0.00	0.00	3.41
1502	1699	2.271173	TCCAGCGAGGAGAGCGTA	59.729	61.111	0.00	0.00	43.07	4.42
1673	1870	2.910479	TGGACCGTCACGAGCAGT	60.910	61.111	0.00	0.00	0.00	4.40
1857	2061	0.899720	TACGAGGCCCTTGAACGAAT	59.100	50.000	4.57	0.00	0.00	3.34
1859	2063	0.899720	AATACGAGGCCCTTGAACGA	59.100	50.000	4.57	0.00	0.00	3.85
1883	2087	2.402564	TCAAAAGTGGGGCAATGGAAA	58.597	42.857	0.00	0.00	0.00	3.13
1969	2175	5.258051	TGTGGTCATCCCCAAGTATAAAAC	58.742	41.667	0.00	0.00	35.92	2.43
1976	2182	1.283029	CTCATGTGGTCATCCCCAAGT	59.717	52.381	0.00	0.00	35.92	3.16
1983	2189	1.142465	AGCATCCCTCATGTGGTCATC	59.858	52.381	12.65	0.18	34.56	2.92
1984	2190	1.142465	GAGCATCCCTCATGTGGTCAT	59.858	52.381	12.65	1.88	40.45	3.06
1985	2191	0.543277	GAGCATCCCTCATGTGGTCA	59.457	55.000	12.65	0.00	40.45	4.02
1986	2192	0.835941	AGAGCATCCCTCATGTGGTC	59.164	55.000	12.65	8.46	43.31	4.02
1987	2193	0.545171	CAGAGCATCCCTCATGTGGT	59.455	55.000	12.65	0.00	43.31	4.16
1988	2194	0.545171	ACAGAGCATCCCTCATGTGG	59.455	55.000	6.84	6.84	43.31	4.17
1989	2195	3.109044	CTACAGAGCATCCCTCATGTG	57.891	52.381	0.00	0.00	43.31	3.21
2001	2207	1.670791	AGTCCTACTCGCTACAGAGC	58.329	55.000	0.00	0.00	46.00	4.09
2002	2208	3.011119	ACAAGTCCTACTCGCTACAGAG	58.989	50.000	0.00	0.00	43.56	3.35
2003	2209	3.069079	ACAAGTCCTACTCGCTACAGA	57.931	47.619	0.00	0.00	0.00	3.41
2004	2210	3.851976	AACAAGTCCTACTCGCTACAG	57.148	47.619	0.00	0.00	0.00	2.74
2005	2211	4.595762	AAAACAAGTCCTACTCGCTACA	57.404	40.909	0.00	0.00	0.00	2.74
2006	2212	5.228665	AGAAAAACAAGTCCTACTCGCTAC	58.771	41.667	0.00	0.00	0.00	3.58
2007	2213	5.464030	AGAAAAACAAGTCCTACTCGCTA	57.536	39.130	0.00	0.00	0.00	4.26
2008	2214	4.338379	AGAAAAACAAGTCCTACTCGCT	57.662	40.909	0.00	0.00	0.00	4.93
2009	2215	6.723131	AATAGAAAAACAAGTCCTACTCGC	57.277	37.500	0.00	0.00	0.00	5.03
2010	2216	8.557029	ACAAAATAGAAAAACAAGTCCTACTCG	58.443	33.333	0.00	0.00	0.00	4.18
2066	2272	2.859165	AAGCAAGCAGGCTAGTTACA	57.141	45.000	2.35	0.00	45.07	2.41
2174	2400	9.699985	CATAGAAGATGTTTTCAAGAGATTTCG	57.300	33.333	0.00	0.00	0.00	3.46
2192	2418	7.122138	AGCAGAGATTGAATCACATAGAAGA	57.878	36.000	8.03	0.00	0.00	2.87
2198	2424	4.397481	TCGAGCAGAGATTGAATCACAT	57.603	40.909	8.03	0.00	0.00	3.21
2248	2476	0.886563	GCTCCAGTTCAATTGCAGCT	59.113	50.000	0.00	0.00	0.00	4.24
2299	2528	9.279904	CGCTTTGAAAAACCATTATTCGTAATA	57.720	29.630	0.00	0.00	0.00	0.98
2305	2534	8.707839	TCAAATCGCTTTGAAAAACCATTATTC	58.292	29.630	11.77	0.00	45.91	1.75
2326	2555	2.214376	TTTGGATGGGCGACTCAAAT	57.786	45.000	0.00	0.00	0.00	2.32
2350	2580	1.679139	TCATTGATTAAGGCTGCCCG	58.321	50.000	16.57	0.00	35.76	6.13
2354	2584	6.250819	CAAGTACGTTCATTGATTAAGGCTG	58.749	40.000	0.00	0.00	0.00	4.85
2361	2591	2.752903	GGCCCAAGTACGTTCATTGATT	59.247	45.455	0.00	0.00	0.00	2.57
2398	2628	3.322828	AGTGATTTGACTGCCTGCATTTT	59.677	39.130	0.00	0.00	0.00	1.82
2401	2631	2.211250	AGTGATTTGACTGCCTGCAT	57.789	45.000	0.00	0.00	0.00	3.96
2409	2639	8.708378	TCATGGTGAAGATATAGTGATTTGACT	58.292	33.333	0.00	0.00	0.00	3.41
2413	2643	9.941325	GAGATCATGGTGAAGATATAGTGATTT	57.059	33.333	0.00	0.00	0.00	2.17
2455	2685	3.040147	TCGGTCTGATTCTTTGTGGAC	57.960	47.619	0.00	0.00	0.00	4.02
2545	2777	2.742053	GCAGAGTTTTATGTCCTCGCAA	59.258	45.455	0.00	0.00	0.00	4.85
2595	2827	9.126151	TCTTCGTCAATGTCTAGATAAATCTCT	57.874	33.333	0.00	0.00	38.32	3.10
2675	2934	3.121929	AGGTCTCCTCATTTCCAGCTA	57.878	47.619	0.00	0.00	0.00	3.32
2702	2961	0.110147	CGCCGTTGCCGTCATTTAAA	60.110	50.000	0.00	0.00	0.00	1.52
2731	2990	3.442977	AGGCTGAATAGAAAAGCAAGCAG	59.557	43.478	0.00	0.00	38.73	4.24
2747	3006	0.323629	CCCGGTTTGTAAGAGGCTGA	59.676	55.000	0.00	0.00	0.00	4.26
2769	3028	2.439245	GTTTCCCGCTCCCCCTTT	59.561	61.111	0.00	0.00	0.00	3.11
2776	3035	1.136500	CCTAGTACTGGTTTCCCGCTC	59.864	57.143	5.39	0.00	0.00	5.03
2780	3039	0.177373	CGGCCTAGTACTGGTTTCCC	59.823	60.000	5.39	0.00	0.00	3.97
2804	3064	3.595819	GCACCCAGCCAACAGATC	58.404	61.111	0.00	0.00	37.23	2.75
2814	3074	2.264794	GTCGTACCAGGCACCCAG	59.735	66.667	0.00	0.00	0.00	4.45

Based at the University of Bristol with support from BBSRC.

AutoCloner maintained by Alex Coulton.