AutoCloner

Multiple sequence alignment - TraesCS2D01G529800

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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	TraesCS2D01G529800	chr2D	100.000	3046	0	0	1	3046	616925195	616922150	0.000000e+00	5626.0
1	TraesCS2D01G529800	chr2D	83.747	443	55	13	1	429	519921018	519921457	1.320000e-108	403.0
2	TraesCS2D01G529800	chr2D	95.604	91	4	0	2932	3022	133612866	133612776	2.450000e-31	147.0
3	TraesCS2D01G529800	chr2D	72.964	307	70	12	1583	1884	616626401	616626103	8.990000e-16	95.3
4	TraesCS2D01G529800	chr2B	94.053	2556	123	23	1	2532	752397078	752394528	0.000000e+00	3851.0
5	TraesCS2D01G529800	chr2B	96.042	379	14	1	2530	2908	752364538	752364161	1.550000e-172	616.0
6	TraesCS2D01G529800	chr2B	82.979	470	46	18	1	460	799894346	799894791	7.920000e-106	394.0
7	TraesCS2D01G529800	chr2B	93.220	118	7	1	2929	3046	752364052	752363936	4.040000e-39	172.0
8	TraesCS2D01G529800	chr2B	95.000	60	3	0	686	745	785825959	785826018	8.990000e-16	95.3
9	TraesCS2D01G529800	chr2B	76.159	151	28	7	1583	1726	751603507	751603358	4.210000e-09	73.1
10	TraesCS2D01G529800	chr2A	88.405	2182	171	30	760	2892	746917247	746915099	0.000000e+00	2553.0
11	TraesCS2D01G529800	chr2A	95.238	42	2	0	1685	1726	746840282	746840241	1.960000e-07	67.6
12	TraesCS2D01G529800	chr4D	83.484	442	59	10	1	429	130404153	130404593	1.700000e-107	399.0
13	TraesCS2D01G529800	chr4D	95.833	48	2	0	694	741	39405612	39405565	9.050000e-11	78.7
14	TraesCS2D01G529800	chr1D	83.447	441	58	10	1	429	409661583	409662020	2.200000e-106	396.0
15	TraesCS2D01G529800	chr6D	82.844	443	60	10	1	429	120768437	120767997	1.710000e-102	383.0
16	TraesCS2D01G529800	chr6D	79.159	523	89	16	1369	1884	62229621	62230130	8.090000e-91	344.0
17	TraesCS2D01G529800	chr3A	84.000	350	41	11	1	337	538226222	538226569	3.790000e-84	322.0
18	TraesCS2D01G529800	chr1A	84.000	350	41	11	1	337	178294941	178294594	3.790000e-84	322.0
19	TraesCS2D01G529800	chr1A	91.228	57	5	0	686	742	130844475	130844531	9.050000e-11	78.7
20	TraesCS2D01G529800	chr6A	77.437	554	108	12	1337	1884	79404548	79405090	6.340000e-82	315.0
21	TraesCS2D01G529800	chr6A	94.737	95	4	1	2929	3022	203777949	203778043	2.450000e-31	147.0
22	TraesCS2D01G529800	chr7A	83.429	350	43	12	1	337	155625932	155626279	8.200000e-81	311.0
23	TraesCS2D01G529800	chr5D	79.602	402	58	12	1498	1884	482854223	482854615	1.800000e-67	267.0
24	TraesCS2D01G529800	chr5D	95.699	93	3	1	2931	3022	229297042	229297134	6.800000e-32	148.0
25	TraesCS2D01G529800	chr5D	72.269	357	76	17	1550	1894	339086276	339085931	4.180000e-14	89.8
26	TraesCS2D01G529800	chr5B	83.621	232	27	5	1654	1884	592792208	592792429	1.110000e-49	207.0
27	TraesCS2D01G529800	chr5B	78.261	92	17	1	1539	1630	397965964	397965876	4.240000e-04	56.5
28	TraesCS2D01G529800	chr7D	96.703	91	3	0	2932	3022	583031836	583031746	5.260000e-33	152.0
29	TraesCS2D01G529800	chr7D	91.379	58	5	0	682	739	5579597	5579654	2.520000e-11	80.5
30	TraesCS2D01G529800	chr7D	88.710	62	7	0	686	747	300888167	300888228	3.260000e-10	76.8
31	TraesCS2D01G529800	chr7D	91.071	56	4	1	678	732	467043852	467043797	1.170000e-09	75.0
32	TraesCS2D01G529800	chr3D	96.703	91	3	0	2932	3022	7509718	7509628	5.260000e-33	152.0
33	TraesCS2D01G529800	chr3D	95.699	93	3	1	2931	3022	564803058	564802966	6.800000e-32	148.0
34	TraesCS2D01G529800	chr1B	94.000	100	2	4	2931	3028	3921244	3921147	6.800000e-32	148.0
35	TraesCS2D01G529800	chrUn	94.681	94	5	0	2929	3022	180565716	180565809	2.450000e-31	147.0
36	TraesCS2D01G529800	chr5A	94.231	52	3	0	684	735	419210172	419210121	2.520000e-11	80.5
37	TraesCS2D01G529800	chr5A	76.129	155	29	6	1492	1645	439773228	439773081	1.170000e-09	75.0
38	TraesCS2D01G529800	chr5A	71.582	373	75	20	1550	1903	439825633	439825273	4.210000e-09	73.1
39	TraesCS2D01G529800	chr3B	90.909	55	5	0	686	740	820445964	820446018	1.170000e-09	75.0

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	TraesCS2D01G529800	chr2D	616922150	616925195	3045	True	5626	5626	100.000	1	3046	1	chr2D.!!$R3	3045
1	TraesCS2D01G529800	chr2B	752394528	752397078	2550	True	3851	3851	94.053	1	2532	1	chr2B.!!$R2	2531
2	TraesCS2D01G529800	chr2B	752363936	752364538	602	True	394	616	94.631	2530	3046	2	chr2B.!!$R3	516
3	TraesCS2D01G529800	chr2A	746915099	746917247	2148	True	2553	2553	88.405	760	2892	1	chr2A.!!$R2	2132
4	TraesCS2D01G529800	chr6D	62229621	62230130	509	False	344	344	79.159	1369	1884	1	chr6D.!!$F1	515
5	TraesCS2D01G529800	chr6A	79404548	79405090	542	False	315	315	77.437	1337	1884	1	chr6A.!!$F1	547

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
878	888	0.621082	TTGCCACCATCACCGGATAA	59.379	50.0	9.46	0.0	30.87	1.75	F

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability	Orientation
2849	2916	0.539438	TCACACATGAAAGGGGTGGC	60.539	55.0	0.0	0.0	36.87	5.01	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
56	57	1.610363	TCGTGTTGGGCATGCTTTTA	58.390	45.000	18.92	0.00	34.19	1.52
71	72	7.320443	CATGCTTTTAAGGAACTACATGCTA	57.680	36.000	0.00	0.00	38.49	3.49
103	104	1.160137	GTTGGCTCAAAGCTCATCGT	58.840	50.000	0.00	0.00	41.99	3.73
139	140	5.482908	GTGGCACATCTAAGAGAGAGAAAA	58.517	41.667	13.86	0.00	44.52	2.29
202	203	4.427312	GAAACATGGGCATTTCTGATGAC	58.573	43.478	0.00	0.00	33.00	3.06
204	205	4.508551	ACATGGGCATTTCTGATGACTA	57.491	40.909	0.00	0.00	0.00	2.59
245	246	7.262048	TGTCCTATTTGTTTGGTTCAAAGAAC	58.738	34.615	1.37	1.37	36.58	3.01
246	247	7.093727	TGTCCTATTTGTTTGGTTCAAAGAACA	60.094	33.333	11.51	0.00	36.58	3.18
264	265	4.876107	AGAACACATATTAGTTGGCTTCGG	59.124	41.667	0.00	0.00	0.00	4.30
314	315	6.942005	ACTTGATGATGTGAACCTTGTAATGA	59.058	34.615	0.00	0.00	0.00	2.57
558	560	9.482627	AGCATAGAAACATCTATAGCACTTAAC	57.517	33.333	15.75	0.00	33.41	2.01
600	602	4.708421	AGGATGAAAAACACATGATCTGGG	59.292	41.667	0.00	0.00	0.00	4.45
613	615	3.942829	TGATCTGGGAGAACAACATGAC	58.057	45.455	0.00	0.00	0.00	3.06
645	647	5.034152	CACGAATATATGGCCAACAACAAC	58.966	41.667	10.96	0.00	0.00	3.32
658	660	5.449862	GCCAACAACAACATCACTTAAGACA	60.450	40.000	10.09	0.00	0.00	3.41
670	672	6.282199	TCACTTAAGACAGGACCATAGTTC	57.718	41.667	10.09	0.00	0.00	3.01
681	683	5.476599	CAGGACCATAGTTCAACATGGAAAA	59.523	40.000	19.83	0.00	43.80	2.29
728	731	5.269991	TCTTATATTATGGGACGGAGGGAG	58.730	45.833	0.00	0.00	0.00	4.30
786	789	2.937469	TGCATAAATGGAGGCAAACG	57.063	45.000	0.00	0.00	32.25	3.60
841	849	1.404583	GCCACAATCAATCAACCAGCC	60.405	52.381	0.00	0.00	0.00	4.85
852	862	2.911926	AACCAGCCAGAGCCCTTCC	61.912	63.158	0.00	0.00	41.25	3.46
878	888	0.621082	TTGCCACCATCACCGGATAA	59.379	50.000	9.46	0.00	30.87	1.75
880	890	0.818040	GCCACCATCACCGGATAACC	60.818	60.000	9.46	0.00	30.87	2.85
882	892	1.065053	CCACCATCACCGGATAACCAA	60.065	52.381	9.46	0.00	35.59	3.67
883	893	2.422803	CCACCATCACCGGATAACCAAT	60.423	50.000	9.46	0.00	35.59	3.16
970	983	2.529389	AACCCCAAGAGGCCGTCT	60.529	61.111	0.00	0.00	36.94	4.18
979	992	1.829096	GAGGCCGTCTACCTCCTCC	60.829	68.421	0.00	0.00	46.81	4.30
1164	1177	1.227674	GGTGATCATGTCCTCCGCC	60.228	63.158	0.00	0.00	0.00	6.13
1196	1221	4.953868	CACGTCGTTCCCGGCACA	62.954	66.667	0.00	0.00	39.06	4.57
1905	1952	3.343617	TGGTGCTAGCATTTACACTTCC	58.656	45.455	22.51	14.11	33.53	3.46
1911	1958	6.148811	GTGCTAGCATTTACACTTCCTGTTTA	59.851	38.462	22.51	0.00	33.91	2.01
1947	1994	1.269448	TGCTTTGTTGCCGAGATTTCC	59.731	47.619	0.00	0.00	0.00	3.13
1965	2012	4.513198	TTCCGATGGTTGTTTCATTTCC	57.487	40.909	0.00	0.00	0.00	3.13
1977	2024	1.667236	TCATTTCCTATGCAGGTGCG	58.333	50.000	0.00	0.00	45.83	5.34
1988	2035	1.898574	CAGGTGCGGCTTCCAGTTT	60.899	57.895	14.75	0.00	0.00	2.66
1997	2044	2.446435	GGCTTCCAGTTTTGCTATGGA	58.554	47.619	0.00	0.00	41.33	3.41
2003	2050	2.159198	CCAGTTTTGCTATGGATGTGGC	60.159	50.000	0.00	0.00	36.09	5.01
2004	2051	2.492881	CAGTTTTGCTATGGATGTGGCA	59.507	45.455	0.00	0.00	0.00	4.92
2005	2052	3.056678	CAGTTTTGCTATGGATGTGGCAA	60.057	43.478	0.00	0.00	41.90	4.52
2053	2113	1.956170	GCACGGCGTGATAGGATGG	60.956	63.158	40.94	13.97	35.23	3.51
2063	2123	1.270907	GATAGGATGGTCGATGGGCT	58.729	55.000	0.00	0.00	0.00	5.19
2097	2157	1.471684	CAGAGTTTGCATCTTGGGAGC	59.528	52.381	0.00	0.00	0.00	4.70
2102	2162	0.322816	TTGCATCTTGGGAGCCTGAC	60.323	55.000	0.00	0.00	0.00	3.51
2114	2174	1.002792	GAGCCTGACGTTGTTTGGAAC	60.003	52.381	0.00	0.00	0.00	3.62
2222	2284	7.004086	TCTTTAGTGTTCTTGGATGAATTGGT	58.996	34.615	0.00	0.00	0.00	3.67
2371	2433	7.649370	TTTACGTTTCACACCGTCAATATAA	57.351	32.000	0.00	0.00	38.43	0.98
2427	2489	2.107366	CAACTCCAAAAGGTTGTGGGT	58.893	47.619	0.00	0.00	38.27	4.51
2532	2594	3.763897	GGAACACTGTGCATCCCTTTAAT	59.236	43.478	17.85	0.00	0.00	1.40
2546	2608	3.203716	CCTTTAATTAGTGGACTCGGCC	58.796	50.000	0.00	0.00	0.00	6.13
2669	2733	3.222603	GGGCCTATTACATTCACAAGGG	58.777	50.000	0.84	0.00	0.00	3.95
2693	2757	6.826741	GGCAGAAACCAACCTTGTATTCTATA	59.173	38.462	0.00	0.00	33.01	1.31
2764	2828	4.020218	GCTATGCACTATCCCAACCATCTA	60.020	45.833	0.00	0.00	0.00	1.98
2799	2866	1.225704	GAGGGGTCAGGCATGAAGG	59.774	63.158	0.92	0.00	37.14	3.46
2849	2916	4.735578	GCACATGCCACTCAGATTAATTGG	60.736	45.833	0.00	0.00	34.31	3.16
2924	3004	4.081087	TGGACTAGTAGAAAACAGGGCATC	60.081	45.833	3.59	0.00	0.00	3.91
2943	3098	0.872388	CTGTGTTCCGGTTGGCTTAC	59.128	55.000	0.00	0.00	34.14	2.34
2973	3128	1.214305	TAAAGGGGCTCCATGTGGCT	61.214	55.000	4.79	0.00	34.83	4.75
2977	3132	3.138798	GGCTCCATGTGGCTGCTG	61.139	66.667	13.54	0.00	35.68	4.41
3007	3162	1.208293	CAGGCAGGAGGACCTTTAGTC	59.792	57.143	0.00	0.00	45.36	2.59
3037	3192	1.373748	CACACTAACACCGACCGGG	60.374	63.158	13.43	4.58	43.62	5.73
3038	3193	1.531365	ACACTAACACCGACCGGGA	60.531	57.895	13.43	0.00	39.97	5.14
3039	3194	1.080298	CACTAACACCGACCGGGAC	60.080	63.158	13.43	0.00	39.97	4.46
3040	3195	1.228675	ACTAACACCGACCGGGACT	60.229	57.895	13.43	0.00	39.97	3.85
3044	3199	0.758123	AACACCGACCGGGACTAAAA	59.242	50.000	13.43	0.00	39.97	1.52
3045	3200	0.319405	ACACCGACCGGGACTAAAAG	59.681	55.000	13.43	0.00	39.97	2.27

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
56	57	4.547671	TCTAGCCTAGCATGTAGTTCCTT	58.452	43.478	0.00	0.00	0.00	3.36
71	72	0.695347	AGCCAACTTGCTTCTAGCCT	59.305	50.000	0.00	0.00	41.51	4.58
103	104	1.463214	TGCCACCCTCCTCTCCAAA	60.463	57.895	0.00	0.00	0.00	3.28
139	140	6.412362	TCTTCAACTCTAACTTGAGCTTCT	57.588	37.500	0.00	0.00	37.58	2.85
202	203	5.008331	AGGACAGAATGCATATGCCAATAG	58.992	41.667	24.54	13.88	42.53	1.73
204	205	3.840991	AGGACAGAATGCATATGCCAAT	58.159	40.909	24.54	9.90	42.53	3.16
245	246	3.938963	ACACCGAAGCCAACTAATATGTG	59.061	43.478	0.00	0.00	0.00	3.21
246	247	4.216411	ACACCGAAGCCAACTAATATGT	57.784	40.909	0.00	0.00	0.00	2.29
264	265	3.936372	TCTACTCACTGCCTACAACAC	57.064	47.619	0.00	0.00	0.00	3.32
314	315	2.951642	CACAACCAGGAACAACTCACAT	59.048	45.455	0.00	0.00	0.00	3.21
373	374	7.869429	ACAAGACCAAATTGATGTTTCTCAATC	59.131	33.333	0.00	0.00	43.37	2.67
533	535	9.261180	TGTTAAGTGCTATAGATGTTTCTATGC	57.739	33.333	3.21	7.67	43.53	3.14
538	540	8.718102	TCCTTGTTAAGTGCTATAGATGTTTC	57.282	34.615	3.21	0.00	0.00	2.78
551	553	6.507771	CGCATGTTTTTGTTCCTTGTTAAGTG	60.508	38.462	0.00	0.00	0.00	3.16
558	560	3.052036	CCTCGCATGTTTTTGTTCCTTG	58.948	45.455	0.00	0.00	0.00	3.61
600	602	2.972625	TGATCCCGTCATGTTGTTCTC	58.027	47.619	0.00	0.00	0.00	2.87
613	615	3.370978	GCCATATATTCGTGTTGATCCCG	59.629	47.826	0.00	0.00	0.00	5.14
628	630	5.260424	AGTGATGTTGTTGTTGGCCATATA	58.740	37.500	6.09	0.00	0.00	0.86
645	647	6.227298	ACTATGGTCCTGTCTTAAGTGATG	57.773	41.667	1.63	0.00	0.00	3.07
658	660	4.927267	TTCCATGTTGAACTATGGTCCT	57.073	40.909	19.15	0.00	43.43	3.85
704	706	5.269991	TCCCTCCGTCCCATAATATAAGAG	58.730	45.833	0.00	0.00	0.00	2.85
706	708	5.024118	ACTCCCTCCGTCCCATAATATAAG	58.976	45.833	0.00	0.00	0.00	1.73
752	755	9.797642	TCCATTTATGCAATGAAGTAGTATGAT	57.202	29.630	0.00	0.00	44.78	2.45
753	756	9.276590	CTCCATTTATGCAATGAAGTAGTATGA	57.723	33.333	0.00	0.00	44.78	2.15
758	761	5.300034	TGCCTCCATTTATGCAATGAAGTAG	59.700	40.000	0.00	0.00	44.78	2.57
763	766	4.677514	CGTTTGCCTCCATTTATGCAATGA	60.678	41.667	0.00	0.00	44.78	2.57
786	789	1.400494	ACGCGCCTTCAATAATCCAAC	59.600	47.619	5.73	0.00	0.00	3.77
841	849	2.094338	GCAAGAATTTGGAAGGGCTCTG	60.094	50.000	0.00	0.00	34.79	3.35
852	862	2.671914	CGGTGATGGTGGCAAGAATTTG	60.672	50.000	0.00	0.00	37.36	2.32
878	888	0.036306	GGGTCGTCTTGGTGATTGGT	59.964	55.000	0.00	0.00	0.00	3.67
880	890	2.113860	ATGGGTCGTCTTGGTGATTG	57.886	50.000	0.00	0.00	0.00	2.67
882	892	1.340017	CCAATGGGTCGTCTTGGTGAT	60.340	52.381	0.00	0.00	35.70	3.06
883	893	0.036164	CCAATGGGTCGTCTTGGTGA	59.964	55.000	0.00	0.00	35.70	4.02
970	983	2.042230	GGCGAAGGGGAGGAGGTA	60.042	66.667	0.00	0.00	0.00	3.08
1196	1221	1.227263	GTGGTGGCGATACTGCGAT	60.227	57.895	0.00	0.00	35.06	4.58
1263	1291	2.354103	CCCAGAGCACGAAGATGAAGAA	60.354	50.000	0.00	0.00	0.00	2.52
1287	1315	2.348888	CGCGGAGGAACTACTGGGT	61.349	63.158	0.00	0.00	41.55	4.51
1323	1360	3.620187	CTTGCAGAACACGAGCGCG	62.620	63.158	8.75	8.75	44.79	6.86
1324	1361	1.630244	ATCTTGCAGAACACGAGCGC	61.630	55.000	0.00	0.00	28.85	5.92
1773	1817	1.078356	CAGCAGCAGCATGTCCTCT	60.078	57.895	3.17	0.00	45.49	3.69
1803	1847	0.759346	ACCGCTTCCACTTCTTCTGT	59.241	50.000	0.00	0.00	0.00	3.41
1805	1849	0.603975	GCACCGCTTCCACTTCTTCT	60.604	55.000	0.00	0.00	0.00	2.85
1886	1933	4.003648	ACAGGAAGTGTAAATGCTAGCAC	58.996	43.478	22.07	7.93	37.75	4.40
1905	1952	6.500775	CAAACAGAAGTGTGCAATAAACAG	57.499	37.500	0.00	0.00	36.84	3.16
1947	1994	5.036737	GCATAGGAAATGAAACAACCATCG	58.963	41.667	0.00	0.00	0.00	3.84
1965	2012	2.182842	GGAAGCCGCACCTGCATAG	61.183	63.158	0.00	0.00	42.21	2.23
1977	2024	2.446435	TCCATAGCAAAACTGGAAGCC	58.554	47.619	0.00	0.00	37.60	4.35
1988	2035	1.272369	TGGTTGCCACATCCATAGCAA	60.272	47.619	0.00	0.00	42.60	3.91
1997	2044	2.118076	CCCCACTGGTTGCCACAT	59.882	61.111	0.00	0.00	0.00	3.21
2003	2050	2.978010	GTCACGCCCCACTGGTTG	60.978	66.667	0.00	0.00	36.04	3.77
2004	2051	4.619227	CGTCACGCCCCACTGGTT	62.619	66.667	0.00	0.00	36.04	3.67
2097	2157	3.817960	CGTTCCAAACAACGTCAGG	57.182	52.632	0.00	0.00	43.41	3.86
2114	2174	3.369147	AGAAATCAGAAATGTGTCTCGCG	59.631	43.478	0.00	0.00	0.00	5.87
2222	2284	1.542472	CCAGCTTGTTGCATGTCATCA	59.458	47.619	0.00	0.00	45.94	3.07
2313	2375	1.680338	GTCTGTTGGTTGAGTGCCTT	58.320	50.000	0.00	0.00	0.00	4.35
2517	2579	4.947388	GTCCACTAATTAAAGGGATGCACA	59.053	41.667	0.00	0.00	0.00	4.57
2532	2594	1.404986	CGATTTGGCCGAGTCCACTAA	60.405	52.381	9.81	0.00	35.50	2.24
2546	2608	1.009108	TGTTGTGCCACGCGATTTG	60.009	52.632	15.93	0.00	0.00	2.32
2669	2733	6.759497	ATAGAATACAAGGTTGGTTTCTGC	57.241	37.500	14.74	0.00	35.61	4.26
2693	2757	5.822132	AGTATCTATTGCAGATGAGCCTT	57.178	39.130	0.00	0.00	44.10	4.35
2764	2828	4.202781	ACCCCTCAAACTGGTTATGGAATT	60.203	41.667	0.00	0.00	0.00	2.17
2799	2866	4.338400	GGGGTTTGATATGAGCCAAGTTAC	59.662	45.833	0.00	0.00	35.15	2.50
2849	2916	0.539438	TCACACATGAAAGGGGTGGC	60.539	55.000	0.00	0.00	36.87	5.01
2897	2964	5.665459	CCCTGTTTTCTACTAGTCCATCAG	58.335	45.833	0.00	2.52	0.00	2.90
2924	3004	0.872388	GTAAGCCAACCGGAACACAG	59.128	55.000	9.46	0.00	0.00	3.66
2928	3008	0.514255	GTTCGTAAGCCAACCGGAAC	59.486	55.000	9.46	0.00	37.18	3.62
2929	3009	0.603439	GGTTCGTAAGCCAACCGGAA	60.603	55.000	9.46	0.00	33.01	4.30
2930	3010	1.004679	GGTTCGTAAGCCAACCGGA	60.005	57.895	9.46	0.00	33.01	5.14
2931	3011	3.569902	GGTTCGTAAGCCAACCGG	58.430	61.111	0.00	0.00	33.01	5.28
2943	3098	1.219935	CCCCTTTAGTCCCGGTTCG	59.780	63.158	0.00	0.00	0.00	3.95
3007	3162	2.145536	GTTAGTGTGTTACCAACCGGG	58.854	52.381	6.32	0.00	44.81	5.73
3010	3165	2.545106	CGGTGTTAGTGTGTTACCAACC	59.455	50.000	0.00	0.00	31.00	3.77

Based at the University of Bristol with support from BBSRC.

AutoCloner maintained by Alex Coulton.