AutoCloner

Multiple sequence alignment - TraesCS2D01G073600

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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	TraesCS2D01G073600	chr2D	100.000	2627	0	0	1	2627	30936565	30933939	0.000000e+00	4852.0
1	TraesCS2D01G073600	chr2D	93.282	908	27	7	870	1749	30980192	30979291	0.000000e+00	1308.0
2	TraesCS2D01G073600	chr2D	90.769	65	5	1	1746	1809	30979137	30979073	4.660000e-13	86.1
3	TraesCS2D01G073600	chr2A	92.761	967	38	8	874	1809	33271147	33270182	0.000000e+00	1369.0
4	TraesCS2D01G073600	chr2B	91.004	956	49	13	874	1803	51228636	51229580	0.000000e+00	1254.0
5	TraesCS2D01G073600	chr2B	88.278	836	86	8	1801	2627	393108557	393109389	0.000000e+00	990.0
6	TraesCS2D01G073600	chrUn	93.976	830	47	3	1	829	27522369	27523196	0.000000e+00	1253.0
7	TraesCS2D01G073600	chrUn	88.235	833	91	3	1801	2627	347367471	347366640	0.000000e+00	989.0
8	TraesCS2D01G073600	chr7D	94.161	822	45	2	1	820	29931314	29932134	0.000000e+00	1249.0
9	TraesCS2D01G073600	chr7D	89.010	828	81	5	1808	2627	94548551	94547726	0.000000e+00	1016.0
10	TraesCS2D01G073600	chr7D	87.798	713	61	11	933	1628	133327725	133327022	0.000000e+00	811.0
11	TraesCS2D01G073600	chr4D	93.954	827	48	2	1	826	442408108	442407283	0.000000e+00	1249.0
12	TraesCS2D01G073600	chr4D	93.630	832	49	4	1	830	481686582	481687411	0.000000e+00	1240.0
13	TraesCS2D01G073600	chr4D	93.502	831	51	3	1	830	462378050	462378878	0.000000e+00	1232.0
14	TraesCS2D01G073600	chr4D	88.862	835	82	7	1802	2627	461466908	461467740	0.000000e+00	1016.0
15	TraesCS2D01G073600	chr5D	94.132	818	46	2	4	820	397632628	397631812	0.000000e+00	1243.0
16	TraesCS2D01G073600	chr5D	93.720	828	50	2	1	828	518876633	518875808	0.000000e+00	1240.0
17	TraesCS2D01G073600	chr5D	93.630	832	49	3	1	830	553557797	553558626	0.000000e+00	1240.0
18	TraesCS2D01G073600	chr5D	93.405	834	51	4	1	833	44049214	44050044	0.000000e+00	1232.0
19	TraesCS2D01G073600	chr1D	88.982	835	81	8	1801	2627	458392842	458392011	0.000000e+00	1022.0
20	TraesCS2D01G073600	chr1D	88.489	834	86	6	1801	2626	75673472	75674303	0.000000e+00	1000.0
21	TraesCS2D01G073600	chr6A	88.595	833	87	3	1802	2627	176566679	176565848	0.000000e+00	1005.0
22	TraesCS2D01G073600	chr1A	88.715	833	81	9	1802	2627	22870379	22871205	0.000000e+00	1005.0
23	TraesCS2D01G073600	chr3B	88.475	833	86	4	1802	2627	42124167	42123338	0.000000e+00	998.0
24	TraesCS2D01G073600	chr7A	87.377	713	64	11	933	1628	131937295	131936592	0.000000e+00	795.0
25	TraesCS2D01G073600	chr7B	85.414	713	78	11	933	1628	94630775	94630072	0.000000e+00	717.0

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	TraesCS2D01G073600	chr2D	30933939	30936565	2626	True	4852.00	4852	100.0000	1	2627	1	chr2D.!!$R1	2626
1	TraesCS2D01G073600	chr2D	30979073	30980192	1119	True	697.05	1308	92.0255	870	1809	2	chr2D.!!$R2	939
2	TraesCS2D01G073600	chr2A	33270182	33271147	965	True	1369.00	1369	92.7610	874	1809	1	chr2A.!!$R1	935
3	TraesCS2D01G073600	chr2B	51228636	51229580	944	False	1254.00	1254	91.0040	874	1803	1	chr2B.!!$F1	929
4	TraesCS2D01G073600	chr2B	393108557	393109389	832	False	990.00	990	88.2780	1801	2627	1	chr2B.!!$F2	826
5	TraesCS2D01G073600	chrUn	27522369	27523196	827	False	1253.00	1253	93.9760	1	829	1	chrUn.!!$F1	828
6	TraesCS2D01G073600	chrUn	347366640	347367471	831	True	989.00	989	88.2350	1801	2627	1	chrUn.!!$R1	826
7	TraesCS2D01G073600	chr7D	29931314	29932134	820	False	1249.00	1249	94.1610	1	820	1	chr7D.!!$F1	819
8	TraesCS2D01G073600	chr7D	94547726	94548551	825	True	1016.00	1016	89.0100	1808	2627	1	chr7D.!!$R1	819
9	TraesCS2D01G073600	chr7D	133327022	133327725	703	True	811.00	811	87.7980	933	1628	1	chr7D.!!$R2	695
10	TraesCS2D01G073600	chr4D	442407283	442408108	825	True	1249.00	1249	93.9540	1	826	1	chr4D.!!$R1	825
11	TraesCS2D01G073600	chr4D	481686582	481687411	829	False	1240.00	1240	93.6300	1	830	1	chr4D.!!$F3	829
12	TraesCS2D01G073600	chr4D	462378050	462378878	828	False	1232.00	1232	93.5020	1	830	1	chr4D.!!$F2	829
13	TraesCS2D01G073600	chr4D	461466908	461467740	832	False	1016.00	1016	88.8620	1802	2627	1	chr4D.!!$F1	825
14	TraesCS2D01G073600	chr5D	397631812	397632628	816	True	1243.00	1243	94.1320	4	820	1	chr5D.!!$R1	816
15	TraesCS2D01G073600	chr5D	518875808	518876633	825	True	1240.00	1240	93.7200	1	828	1	chr5D.!!$R2	827
16	TraesCS2D01G073600	chr5D	553557797	553558626	829	False	1240.00	1240	93.6300	1	830	1	chr5D.!!$F2	829
17	TraesCS2D01G073600	chr5D	44049214	44050044	830	False	1232.00	1232	93.4050	1	833	1	chr5D.!!$F1	832
18	TraesCS2D01G073600	chr1D	458392011	458392842	831	True	1022.00	1022	88.9820	1801	2627	1	chr1D.!!$R1	826
19	TraesCS2D01G073600	chr1D	75673472	75674303	831	False	1000.00	1000	88.4890	1801	2626	1	chr1D.!!$F1	825
20	TraesCS2D01G073600	chr6A	176565848	176566679	831	True	1005.00	1005	88.5950	1802	2627	1	chr6A.!!$R1	825
21	TraesCS2D01G073600	chr1A	22870379	22871205	826	False	1005.00	1005	88.7150	1802	2627	1	chr1A.!!$F1	825
22	TraesCS2D01G073600	chr3B	42123338	42124167	829	True	998.00	998	88.4750	1802	2627	1	chr3B.!!$R1	825
23	TraesCS2D01G073600	chr7A	131936592	131937295	703	True	795.00	795	87.3770	933	1628	1	chr7A.!!$R1	695
24	TraesCS2D01G073600	chr7B	94630072	94630775	703	True	717.00	717	85.4140	933	1628	1	chr7B.!!$R1	695

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
811	818	0.111639	AAGCCCGAACAAAAGCCCTA	59.888	50.0	0.0	0.0	0.0	3.53	F

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability	Orientation
2264	2482	1.035139	CTTCCCATGTATGCTTGGCC	58.965	55.0	9.87	0.0	38.27	5.36	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
335	338	2.694109	GGACAGACCGCTAAACCTAGAT	59.306	50.000	0.00	0.00	0.00	1.98
342	345	6.642950	CAGACCGCTAAACCTAGATAAATCTG	59.357	42.308	2.66	0.00	37.76	2.90
423	426	4.452114	TCAGACATTTCATCAAACACCTCG	59.548	41.667	0.00	0.00	0.00	4.63
455	458	1.271379	GGTGAGCTAGAGCACCCAAAA	60.271	52.381	18.65	0.00	46.91	2.44
463	466	0.613012	GAGCACCCAAAATGCCCTCT	60.613	55.000	0.00	0.00	44.53	3.69
566	569	4.717313	GTGGCTGGAACCGGGACC	62.717	72.222	6.32	9.52	0.00	4.46
618	622	1.873270	GAACCGGGACCAATGGTTGC	61.873	60.000	17.01	0.00	45.63	4.17
733	737	2.285368	TCCCCTGGGCTCACGAAT	60.285	61.111	7.39	0.00	34.68	3.34
790	797	2.375345	CCGGGACTAATGGGCTGGT	61.375	63.158	0.00	0.00	0.00	4.00
793	800	0.623723	GGGACTAATGGGCTGGTCAA	59.376	55.000	0.00	0.00	0.00	3.18
811	818	0.111639	AAGCCCGAACAAAAGCCCTA	59.888	50.000	0.00	0.00	0.00	3.53
820	827	5.321516	CGAACAAAAGCCCTATTTTCTACG	58.678	41.667	0.00	0.00	30.01	3.51
822	829	5.874895	ACAAAAGCCCTATTTTCTACGAC	57.125	39.130	0.00	0.00	30.01	4.34
833	840	7.360946	CCCTATTTTCTACGACTGTTTGGAAAG	60.361	40.741	0.00	0.00	0.00	2.62
834	841	7.386848	CCTATTTTCTACGACTGTTTGGAAAGA	59.613	37.037	0.00	0.00	0.00	2.52
835	842	6.598753	TTTTCTACGACTGTTTGGAAAGAG	57.401	37.500	0.00	0.00	35.59	2.85
836	843	3.650139	TCTACGACTGTTTGGAAAGAGC	58.350	45.455	0.00	0.00	32.96	4.09
837	844	2.622064	ACGACTGTTTGGAAAGAGCT	57.378	45.000	0.00	0.00	32.96	4.09
838	845	2.919228	ACGACTGTTTGGAAAGAGCTT	58.081	42.857	0.00	0.00	32.96	3.74
839	846	4.067972	ACGACTGTTTGGAAAGAGCTTA	57.932	40.909	0.00	0.00	32.96	3.09
840	847	4.058817	ACGACTGTTTGGAAAGAGCTTAG	58.941	43.478	0.00	0.00	32.96	2.18
841	848	3.120511	CGACTGTTTGGAAAGAGCTTAGC	60.121	47.826	0.00	0.00	32.96	3.09
842	849	3.815401	GACTGTTTGGAAAGAGCTTAGCA	59.185	43.478	7.07	0.00	32.96	3.49
843	850	4.401925	ACTGTTTGGAAAGAGCTTAGCAT	58.598	39.130	7.07	0.00	32.96	3.79
844	851	5.560724	ACTGTTTGGAAAGAGCTTAGCATA	58.439	37.500	7.07	0.00	32.96	3.14
845	852	5.645497	ACTGTTTGGAAAGAGCTTAGCATAG	59.355	40.000	7.07	0.00	32.96	2.23
846	853	4.396166	TGTTTGGAAAGAGCTTAGCATAGC	59.604	41.667	7.07	2.12	41.53	2.97
847	854	3.912496	TGGAAAGAGCTTAGCATAGCA	57.088	42.857	7.07	0.00	43.68	3.49
848	855	4.428294	TGGAAAGAGCTTAGCATAGCAT	57.572	40.909	7.07	0.00	43.68	3.79
849	856	5.551305	TGGAAAGAGCTTAGCATAGCATA	57.449	39.130	7.07	0.00	43.68	3.14
850	857	5.545588	TGGAAAGAGCTTAGCATAGCATAG	58.454	41.667	7.07	0.00	43.68	2.23
851	858	4.934602	GGAAAGAGCTTAGCATAGCATAGG	59.065	45.833	7.07	0.00	43.68	2.57
865	872	3.828875	GCATAGGCTGAGTCTTAACCT	57.171	47.619	0.00	0.00	36.96	3.50
866	873	3.462021	GCATAGGCTGAGTCTTAACCTG	58.538	50.000	0.00	0.00	36.96	4.00
867	874	3.462021	CATAGGCTGAGTCTTAACCTGC	58.538	50.000	0.00	0.00	31.79	4.85
868	875	1.650528	AGGCTGAGTCTTAACCTGCT	58.349	50.000	0.00	0.00	0.00	4.24
904	911	3.657634	CTGTACGCCTCTACCGTCTATA	58.342	50.000	0.00	0.00	39.88	1.31
905	912	4.060900	CTGTACGCCTCTACCGTCTATAA	58.939	47.826	0.00	0.00	39.88	0.98
926	937	1.410004	CGCCTCCTACCTTATCACCA	58.590	55.000	0.00	0.00	0.00	4.17
1045	1059	0.968393	AGTGCTCGTCTCCTTCCTCC	60.968	60.000	0.00	0.00	0.00	4.30
1046	1060	1.682684	TGCTCGTCTCCTTCCTCCC	60.683	63.158	0.00	0.00	0.00	4.30
1092	1106	2.345244	CAGGACTTCTGCGTGGCT	59.655	61.111	0.00	0.00	36.60	4.75
1146	1160	3.291383	TGCAAAAAGGGCGTCGGG	61.291	61.111	0.00	0.00	0.00	5.14
1173	1187	1.134560	GACTTCTACTACCACGGCCTG	59.865	57.143	0.00	0.00	0.00	4.85
1332	1361	2.148982	CGAGCTGCTCTTCGTCACG	61.149	63.158	25.59	8.30	0.00	4.35
1371	1400	1.122227	GCTTCATCAGCTCCTCCTCT	58.878	55.000	0.00	0.00	46.27	3.69
1455	1484	1.181098	ACTACCAGTACAACGGCGGT	61.181	55.000	13.24	0.00	0.00	5.68
1604	1633	2.225467	GCAGGTCAAGAAGCTCAAGTT	58.775	47.619	0.00	0.00	31.91	2.66
1679	1708	0.027979	TCGTCGTTTCTCGTCGTGTT	59.972	50.000	6.74	0.00	46.88	3.32
1794	1995	6.591935	TCTATATATCGCCAATTGGGATTCC	58.408	40.000	25.73	7.75	43.58	3.01
1810	2011	5.549228	TGGGATTCCTGCAATATGATCTACT	59.451	40.000	2.01	0.00	0.00	2.57
1869	2071	3.577848	TCACAATAGCAAATTGGGCTTGT	59.422	39.130	9.83	6.95	42.62	3.16
1903	2105	3.704061	AGCTCTCTCCACATCTTTCCTAC	59.296	47.826	0.00	0.00	0.00	3.18
1912	2114	1.632965	ATCTTTCCTACCCACCGCCC	61.633	60.000	0.00	0.00	0.00	6.13
1946	2149	9.764363	GTGGAAATCAAGATTTTTCTTACCTTT	57.236	29.630	9.22	0.00	40.77	3.11
1998	2205	3.749954	GCCACTTTGGATAGATGCCATCT	60.750	47.826	12.62	12.62	40.96	2.90
2042	2254	1.562475	TGTATGGCCCTACAAACTCCC	59.438	52.381	17.49	0.00	0.00	4.30
2075	2287	8.947055	AGTTTCACCATTTGCAATATTATTCC	57.053	30.769	0.00	0.00	0.00	3.01
2125	2337	5.114764	TGTCATTCAAAGATCCAGGCATA	57.885	39.130	0.00	0.00	0.00	3.14
2244	2461	4.747009	GCCTTAGGACAGTTCTTCCAACTT	60.747	45.833	0.69	0.00	35.33	2.66
2264	2482	5.597806	ACTTCAATGCATGCAATCTATTGG	58.402	37.500	26.68	13.77	38.21	3.16
2276	2495	3.882102	ATCTATTGGGCCAAGCATACA	57.118	42.857	25.16	5.41	0.00	2.29
2280	2499	0.687098	TTGGGCCAAGCATACATGGG	60.687	55.000	16.66	0.00	35.12	4.00
2283	2502	1.035139	GGCCAAGCATACATGGGAAG	58.965	55.000	0.00	0.00	35.12	3.46
2285	2504	1.766494	CCAAGCATACATGGGAAGCA	58.234	50.000	0.00	0.00	30.72	3.91
2289	2508	1.789078	GCATACATGGGAAGCAGCGG	61.789	60.000	0.00	0.00	0.00	5.52
2333	2552	1.375396	CGGTGTCTTCGGCATTGGA	60.375	57.895	0.00	0.00	0.00	3.53
2350	2570	6.488006	GGCATTGGAAGCTCTCAAATATTCTA	59.512	38.462	5.90	0.00	0.00	2.10
2494	2715	1.314730	GGCGGTCACCTTTTGAAAGA	58.685	50.000	5.09	0.00	38.28	2.52
2497	2718	2.293399	GCGGTCACCTTTTGAAAGATGT	59.707	45.455	5.09	0.00	38.28	3.06
2523	2744	1.207089	CCGAGTTCTCTGGTGGCATTA	59.793	52.381	0.00	0.00	0.00	1.90
2524	2745	2.354704	CCGAGTTCTCTGGTGGCATTAA	60.355	50.000	0.00	0.00	0.00	1.40
2531	2752	5.708736	TCTCTGGTGGCATTAATCCTTTA	57.291	39.130	0.00	0.00	0.00	1.85
2532	2753	6.266131	TCTCTGGTGGCATTAATCCTTTAT	57.734	37.500	0.00	0.00	0.00	1.40

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
133	134	8.286800	TGTTATTATATAGTGCGATGGTTTTGC	58.713	33.333	0.00	0.00	35.05	3.68
314	317	2.097825	TCTAGGTTTAGCGGTCTGTCC	58.902	52.381	0.00	0.00	0.00	4.02
318	321	6.239345	CCAGATTTATCTAGGTTTAGCGGTCT	60.239	42.308	0.00	0.00	34.85	3.85
335	338	3.272020	AGCTCCATTTTCCCCCAGATTTA	59.728	43.478	0.00	0.00	0.00	1.40
342	345	1.453928	CCGAGCTCCATTTTCCCCC	60.454	63.158	8.47	0.00	0.00	5.40
423	426	0.539051	AGCTCACCTCCTATGCACAC	59.461	55.000	0.00	0.00	0.00	3.82
455	458	2.765807	CCGGTGAGGAGAGGGCAT	60.766	66.667	0.00	0.00	45.00	4.40
463	466	1.840598	TTTTTCTGGCCGGTGAGGA	59.159	52.632	12.43	0.00	45.00	3.71
656	660	1.382629	CCCATTTGTCCCGGTTCCT	59.617	57.895	0.00	0.00	0.00	3.36
657	661	0.963856	GACCCATTTGTCCCGGTTCC	60.964	60.000	0.00	0.00	0.00	3.62
716	720	2.285368	ATTCGTGAGCCCAGGGGA	60.285	61.111	7.91	0.00	37.50	4.81
733	737	0.397394	TCATGGGGTATTCGTCCCGA	60.397	55.000	0.00	0.00	46.03	5.14
744	748	2.204090	AACCGGGACTCATGGGGT	60.204	61.111	6.32	0.00	0.00	4.95
790	797	1.460273	GGGCTTTTGTTCGGGCTTGA	61.460	55.000	0.00	0.00	0.00	3.02
793	800	0.331616	ATAGGGCTTTTGTTCGGGCT	59.668	50.000	0.00	0.00	0.00	5.19
802	809	5.557866	ACAGTCGTAGAAAATAGGGCTTTT	58.442	37.500	0.00	0.00	39.69	2.27
811	818	6.293462	GCTCTTTCCAAACAGTCGTAGAAAAT	60.293	38.462	0.00	0.00	39.69	1.82
820	827	3.815401	TGCTAAGCTCTTTCCAAACAGTC	59.185	43.478	0.00	0.00	0.00	3.51
822	829	5.448360	GCTATGCTAAGCTCTTTCCAAACAG	60.448	44.000	3.90	0.00	39.50	3.16
845	852	3.462021	CAGGTTAAGACTCAGCCTATGC	58.538	50.000	0.00	0.00	37.95	3.14
846	853	3.133721	AGCAGGTTAAGACTCAGCCTATG	59.866	47.826	0.00	0.00	0.00	2.23
847	854	3.379452	AGCAGGTTAAGACTCAGCCTAT	58.621	45.455	0.00	0.00	0.00	2.57
848	855	2.821437	AGCAGGTTAAGACTCAGCCTA	58.179	47.619	0.00	0.00	0.00	3.93
849	856	1.650528	AGCAGGTTAAGACTCAGCCT	58.349	50.000	0.00	0.00	0.00	4.58
850	857	2.498078	AGTAGCAGGTTAAGACTCAGCC	59.502	50.000	0.00	0.00	0.00	4.85
851	858	3.056465	ACAGTAGCAGGTTAAGACTCAGC	60.056	47.826	0.00	0.00	0.00	4.26
852	859	4.792521	ACAGTAGCAGGTTAAGACTCAG	57.207	45.455	0.00	0.00	0.00	3.35
853	860	4.155462	CGTACAGTAGCAGGTTAAGACTCA	59.845	45.833	0.00	0.00	0.00	3.41
854	861	4.155644	ACGTACAGTAGCAGGTTAAGACTC	59.844	45.833	0.00	0.00	0.00	3.36
855	862	4.077822	ACGTACAGTAGCAGGTTAAGACT	58.922	43.478	0.00	0.00	0.00	3.24
856	863	4.431661	ACGTACAGTAGCAGGTTAAGAC	57.568	45.455	0.00	0.00	0.00	3.01
857	864	5.551760	GTACGTACAGTAGCAGGTTAAGA	57.448	43.478	20.67	0.00	35.72	2.10
867	874	4.270178	GTACAGCTGGTACGTACAGTAG	57.730	50.000	26.02	19.97	42.69	2.57
904	911	1.413077	GTGATAAGGTAGGAGGCGCTT	59.587	52.381	7.64	0.00	0.00	4.68
905	912	1.041437	GTGATAAGGTAGGAGGCGCT	58.959	55.000	7.64	0.00	0.00	5.92
926	937	9.466497	CTCATTTGGTGTTTATATAGGCCATAT	57.534	33.333	5.01	9.09	34.14	1.78
1024	1035	1.446966	GGAAGGAGACGAGCACTGC	60.447	63.158	0.00	0.00	0.00	4.40
1025	1036	0.172352	GAGGAAGGAGACGAGCACTG	59.828	60.000	0.00	0.00	0.00	3.66
1026	1037	0.968393	GGAGGAAGGAGACGAGCACT	60.968	60.000	0.00	0.00	0.00	4.40
1146	1160	0.380024	GGTAGTAGAAGTCGTCCGCC	59.620	60.000	0.00	0.00	0.00	6.13
1151	1165	0.807496	GCCGTGGTAGTAGAAGTCGT	59.193	55.000	0.00	0.00	0.00	4.34
1332	1361	4.554036	GCGAGGATGGTGCCCTCC	62.554	72.222	4.61	4.61	45.70	4.30
1371	1400	3.648339	GTCTTGGTGTAGACGGTGTTA	57.352	47.619	0.00	0.00	35.62	2.41
1500	1529	3.002583	TCGGTGATCTGCAGGCCA	61.003	61.111	15.13	9.35	0.00	5.36
1679	1708	4.336153	TGTTATCGTCTAGGCACGTAATCA	59.664	41.667	4.15	0.00	40.79	2.57
1794	1995	9.941325	AAGATCCTTTAGTAGATCATATTGCAG	57.059	33.333	0.00	0.00	41.16	4.41
1826	2028	3.700038	GAGAGGTCCGACTAGATTTTGGA	59.300	47.826	0.00	0.00	0.00	3.53
1842	2044	4.019174	CCCAATTTGCTATTGTGAGAGGT	58.981	43.478	10.03	0.00	0.00	3.85
1869	2071	4.935808	GTGGAGAGAGCTTTCGGAATTTTA	59.064	41.667	0.00	0.00	0.00	1.52
1912	2114	4.627611	ATCTTGATTTCCACAATGCTCG	57.372	40.909	0.00	0.00	0.00	5.03
1998	2205	3.007940	ACAACTATGGCTACTGTCTTGCA	59.992	43.478	0.00	0.00	0.00	4.08
2068	2280	3.104512	TCGGTCACCACTCAGGAATAAT	58.895	45.455	0.00	0.00	41.22	1.28
2075	2287	3.868757	TCTTAATCGGTCACCACTCAG	57.131	47.619	0.00	0.00	0.00	3.35
2244	2461	3.243941	GCCCAATAGATTGCATGCATTGA	60.244	43.478	25.32	12.12	36.48	2.57
2264	2482	1.035139	CTTCCCATGTATGCTTGGCC	58.965	55.000	9.87	0.00	38.27	5.36
2283	2502	1.153958	GATGAACAAAGCCCGCTGC	60.154	57.895	0.00	0.00	41.71	5.25
2285	2504	1.168714	GAAGATGAACAAAGCCCGCT	58.831	50.000	0.00	0.00	0.00	5.52
2289	2508	3.742882	GGCTTTTGAAGATGAACAAAGCC	59.257	43.478	16.04	16.04	39.86	4.35
2333	2552	9.077885	TGTTTGGTTTAGAATATTTGAGAGCTT	57.922	29.630	0.00	0.00	0.00	3.74
2350	2570	3.938334	GGAATTGTGCAAGTGTTTGGTTT	59.062	39.130	0.00	0.00	34.79	3.27
2431	2652	2.645838	ATTCCGGTGGATCTCATTGG	57.354	50.000	0.00	0.00	0.00	3.16
2460	2681	1.501741	CGCCGCTTTGTGTATGCTT	59.498	52.632	0.00	0.00	0.00	3.91
2462	2683	2.100216	CCGCCGCTTTGTGTATGC	59.900	61.111	0.00	0.00	0.00	3.14
2494	2715	2.158900	CCAGAGAACTCGGCCATAACAT	60.159	50.000	2.24	0.00	34.09	2.71
2497	2718	1.207089	CACCAGAGAACTCGGCCATAA	59.793	52.381	2.24	0.00	34.09	1.90
2542	2763	2.499289	AGAAACTGACGAGCCATGATCT	59.501	45.455	0.00	0.00	0.00	2.75

Based at the University of Bristol with support from BBSRC.

AutoCloner maintained by Alex Coulton.