AutoCloner

Multiple sequence alignment - TraesCS6B01G228800

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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	TraesCS6B01G228800	chr6B	100.000	2302	0	0	1	2302	363688103	363690404	0.000000e+00	4252
1	TraesCS6B01G228800	chr6B	91.078	863	77	0	2	864	245286267	245285405	0.000000e+00	1168
2	TraesCS6B01G228800	chr6B	90.993	866	70	3	1	864	346735828	346734969	0.000000e+00	1160
3	TraesCS6B01G228800	chr6D	89.583	1008	102	3	863	1868	188869944	188868938	0.000000e+00	1277
4	TraesCS6B01G228800	chr6D	90.043	462	45	1	863	1323	132392805	132393266	4.230000e-167	597
5	TraesCS6B01G228800	chr4B	92.254	865	61	2	1	864	173982113	173981254	0.000000e+00	1221
6	TraesCS6B01G228800	chr4B	92.139	865	67	1	1	864	390691151	390690287	0.000000e+00	1219
7	TraesCS6B01G228800	chr1B	92.326	860	64	2	1	859	520387589	520388447	0.000000e+00	1221
8	TraesCS6B01G228800	chr2B	91.214	865	73	3	2	864	724353468	724352605	0.000000e+00	1173
9	TraesCS6B01G228800	chr3B	91.098	865	74	3	1	864	358627827	358628689	0.000000e+00	1168
10	TraesCS6B01G228800	chr3B	90.722	873	77	4	1	871	437517510	437516640	0.000000e+00	1160
11	TraesCS6B01G228800	chr3B	86.297	956	119	9	1322	2269	397138810	397137859	0.000000e+00	1029
12	TraesCS6B01G228800	chr7B	91.088	864	72	2	1	864	445692368	445691510	0.000000e+00	1164
13	TraesCS6B01G228800	chr5D	86.930	987	120	8	1322	2302	525510941	525509958	0.000000e+00	1099
14	TraesCS6B01G228800	chr3D	86.754	989	113	13	1322	2302	274859630	274858652	0.000000e+00	1085
15	TraesCS6B01G228800	chr3D	86.321	965	117	12	1322	2281	111907908	111908862	0.000000e+00	1037
16	TraesCS6B01G228800	chr3D	86.354	960	120	10	1322	2273	316661774	316662730	0.000000e+00	1037
17	TraesCS6B01G228800	chr6A	86.382	984	121	10	1322	2302	468229489	468228516	0.000000e+00	1062
18	TraesCS6B01G228800	chr2D	86.542	966	119	11	1322	2281	276060783	276061743	0.000000e+00	1053
19	TraesCS6B01G228800	chr2D	90.065	463	44	2	863	1323	126958029	126958491	1.180000e-167	599
20	TraesCS6B01G228800	chr5A	86.097	971	113	15	1322	2281	441091129	441092088	0.000000e+00	1026
21	TraesCS6B01G228800	chr5B	90.909	462	41	1	863	1323	521395893	521396354	9.030000e-174	619
22	TraesCS6B01G228800	chr5B	90.693	462	42	1	863	1323	354237414	354237875	4.200000e-172	614
23	TraesCS6B01G228800	chr2A	90.693	462	41	2	863	1323	83228239	83228699	4.200000e-172	614
24	TraesCS6B01G228800	chr4D	90.476	462	43	1	863	1323	28464861	28464400	1.960000e-170	608
25	TraesCS6B01G228800	chr4D	90.260	462	43	2	863	1322	337468081	337467620	9.100000e-169	603
26	TraesCS6B01G228800	chr1D	89.407	472	47	2	863	1333	360146558	360146089	1.970000e-165	592

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	TraesCS6B01G228800	chr6B	363688103	363690404	2301	False	4252	4252	100.000	1	2302	1	chr6B.!!$F1	2301
1	TraesCS6B01G228800	chr6B	245285405	245286267	862	True	1168	1168	91.078	2	864	1	chr6B.!!$R1	862
2	TraesCS6B01G228800	chr6B	346734969	346735828	859	True	1160	1160	90.993	1	864	1	chr6B.!!$R2	863
3	TraesCS6B01G228800	chr6D	188868938	188869944	1006	True	1277	1277	89.583	863	1868	1	chr6D.!!$R1	1005
4	TraesCS6B01G228800	chr4B	173981254	173982113	859	True	1221	1221	92.254	1	864	1	chr4B.!!$R1	863
5	TraesCS6B01G228800	chr4B	390690287	390691151	864	True	1219	1219	92.139	1	864	1	chr4B.!!$R2	863
6	TraesCS6B01G228800	chr1B	520387589	520388447	858	False	1221	1221	92.326	1	859	1	chr1B.!!$F1	858
7	TraesCS6B01G228800	chr2B	724352605	724353468	863	True	1173	1173	91.214	2	864	1	chr2B.!!$R1	862
8	TraesCS6B01G228800	chr3B	358627827	358628689	862	False	1168	1168	91.098	1	864	1	chr3B.!!$F1	863
9	TraesCS6B01G228800	chr3B	437516640	437517510	870	True	1160	1160	90.722	1	871	1	chr3B.!!$R2	870
10	TraesCS6B01G228800	chr3B	397137859	397138810	951	True	1029	1029	86.297	1322	2269	1	chr3B.!!$R1	947
11	TraesCS6B01G228800	chr7B	445691510	445692368	858	True	1164	1164	91.088	1	864	1	chr7B.!!$R1	863
12	TraesCS6B01G228800	chr5D	525509958	525510941	983	True	1099	1099	86.930	1322	2302	1	chr5D.!!$R1	980
13	TraesCS6B01G228800	chr3D	274858652	274859630	978	True	1085	1085	86.754	1322	2302	1	chr3D.!!$R1	980
14	TraesCS6B01G228800	chr3D	111907908	111908862	954	False	1037	1037	86.321	1322	2281	1	chr3D.!!$F1	959
15	TraesCS6B01G228800	chr3D	316661774	316662730	956	False	1037	1037	86.354	1322	2273	1	chr3D.!!$F2	951
16	TraesCS6B01G228800	chr6A	468228516	468229489	973	True	1062	1062	86.382	1322	2302	1	chr6A.!!$R1	980
17	TraesCS6B01G228800	chr2D	276060783	276061743	960	False	1053	1053	86.542	1322	2281	1	chr2D.!!$F2	959
18	TraesCS6B01G228800	chr5A	441091129	441092088	959	False	1026	1026	86.097	1322	2281	1	chr5A.!!$F1	959

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
673	675	0.109039	GTCCGTCTCAGTCTCTTGCC	60.109	60.0	0.0	0.0	0.0	4.52	F

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability	Orientation
2204	2225	0.555769	ACCTCAAAGAGTGCCCCAAA	59.444	50.0	0.0	0.0	0.0	3.28	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
46	47	2.108157	ACGAAGGCACGCTTCACA	59.892	55.556	0.00	0.00	36.70	3.58
117	118	0.390340	GTGCAGATGTTCGGCTCAGA	60.390	55.000	0.00	0.00	38.41	3.27
191	192	2.434336	CGGTACCCATCCTCAATTGAGA	59.566	50.000	32.49	20.05	44.74	3.27
258	259	0.534412	CGACTCTTGGTCATCTGGCT	59.466	55.000	0.00	0.00	44.70	4.75
265	266	1.798626	TGGTCATCTGGCTCATAGCT	58.201	50.000	0.00	0.00	41.99	3.32
280	281	2.910688	TAGCTTATCCTTTGAGCCCG	57.089	50.000	0.00	0.00	37.11	6.13
283	284	1.406887	GCTTATCCTTTGAGCCCGTCA	60.407	52.381	0.00	0.00	0.00	4.35
393	394	3.005578	GTGAAAGGACTTAGTCGTGGAGT	59.994	47.826	8.39	0.00	32.65	3.85
466	468	3.021695	GTTTATACTGGTTTGGCCCCTC	58.978	50.000	0.00	0.00	36.04	4.30
507	509	3.833559	ATCCAGTTTGAGGTGGGATTT	57.166	42.857	0.00	0.00	34.81	2.17
613	615	4.082354	GTCCCTTTATATACAGCGGTCGAT	60.082	45.833	0.00	0.00	0.00	3.59
615	617	4.174009	CCTTTATATACAGCGGTCGATGG	58.826	47.826	13.10	0.00	35.60	3.51
641	643	1.828660	CTCATAGAGTCCCGGCCGT	60.829	63.158	26.12	4.65	0.00	5.68
649	651	0.759436	AGTCCCGGCCGTCTCATAAT	60.759	55.000	26.12	0.00	0.00	1.28
652	654	0.321671	CCCGGCCGTCTCATAATCAT	59.678	55.000	26.12	0.00	0.00	2.45
659	661	3.717707	CCGTCTCATAATCATTGTCCGT	58.282	45.455	0.00	0.00	0.00	4.69
671	673	3.057245	TCATTGTCCGTCTCAGTCTCTTG	60.057	47.826	0.00	0.00	0.00	3.02
673	675	0.109039	GTCCGTCTCAGTCTCTTGCC	60.109	60.000	0.00	0.00	0.00	4.52
675	677	0.389166	CCGTCTCAGTCTCTTGCCAC	60.389	60.000	0.00	0.00	0.00	5.01
742	744	1.600916	GGCCTTGAGTCGCCTTTGT	60.601	57.895	0.00	0.00	42.21	2.83
756	761	0.967380	CTTTGTGCCTGGGCCCTTAG	60.967	60.000	25.70	13.33	41.09	2.18
890	895	0.252789	TTGAAGGGTACGATGGGGGA	60.253	55.000	0.00	0.00	0.00	4.81
891	896	0.252789	TGAAGGGTACGATGGGGGAA	60.253	55.000	0.00	0.00	0.00	3.97
892	897	1.137697	GAAGGGTACGATGGGGGAAT	58.862	55.000	0.00	0.00	0.00	3.01
907	912	2.233922	GGGGAATTCTTGAGAGACGACA	59.766	50.000	5.23	0.00	0.00	4.35
914	919	5.723672	TTCTTGAGAGACGACAAAGGTAT	57.276	39.130	0.00	0.00	0.00	2.73
939	944	8.893563	TGTTTATTGTAGGAGGAAATGGAAAT	57.106	30.769	0.00	0.00	0.00	2.17
968	973	0.324614	TGTGCGGATGTTCTGATGGT	59.675	50.000	0.00	0.00	0.00	3.55
975	980	3.350833	GGATGTTCTGATGGTTGAAGCT	58.649	45.455	0.00	0.00	0.00	3.74
998	1003	6.515272	TTTAGCTCTCAAATTTGGCCTAAG	57.485	37.500	17.90	7.80	0.00	2.18
1004	1009	5.579047	TCTCAAATTTGGCCTAAGAATGGA	58.421	37.500	17.90	0.00	0.00	3.41
1019	1024	0.849094	ATGGAGCAAAGGGTGGGGTA	60.849	55.000	0.00	0.00	0.00	3.69
1025	1030	1.006162	GCAAAGGGTGGGGTATAACCA	59.994	52.381	9.57	0.82	41.02	3.67
1040	1045	6.935208	GGGTATAACCACCTAATCATCAACTC	59.065	42.308	0.50	0.00	41.02	3.01
1047	1052	5.939883	CCACCTAATCATCAACTCAGACAAA	59.060	40.000	0.00	0.00	0.00	2.83
1068	1073	3.853355	ATGGAGGTGATTGAGACCATC	57.147	47.619	0.00	0.00	35.76	3.51
1088	1093	1.407989	CCAGGAAGGAGGACAATCAGC	60.408	57.143	0.00	0.00	41.22	4.26
1094	1099	1.296715	GAGGACAATCAGCGGGTGT	59.703	57.895	7.12	0.00	0.00	4.16
1097	1102	1.302511	GACAATCAGCGGGTGTGGT	60.303	57.895	7.12	4.20	0.00	4.16
1098	1103	0.036765	GACAATCAGCGGGTGTGGTA	60.037	55.000	7.12	0.00	0.00	3.25
1102	1107	4.063967	CAGCGGGTGTGGTAGCGA	62.064	66.667	0.00	0.00	34.34	4.93
1118	1123	0.520404	GCGACAGTGTTCGAGGACTA	59.480	55.000	16.04	0.00	41.78	2.59
1156	1161	7.294676	TGTGATTTTGTCATGACTAGATTCG	57.705	36.000	25.55	0.00	39.48	3.34
1190	1195	5.683876	AGAGAGGCAAATAAAGTAGCTCA	57.316	39.130	0.00	0.00	0.00	4.26
1204	1209	5.867903	AGTAGCTCATGAACTTGCTAGAT	57.132	39.130	13.12	4.68	38.48	1.98
1256	1262	4.051661	TGAGGAGCCTCCAAATGAAATT	57.948	40.909	14.46	0.00	42.09	1.82
1257	1263	3.765511	TGAGGAGCCTCCAAATGAAATTG	59.234	43.478	14.46	0.00	42.09	2.32
1341	1347	8.984891	TGAAAAAGTATTCATGCCATGTTTAG	57.015	30.769	4.31	0.00	34.50	1.85
1395	1401	0.883833	GAACTAACCCGGACTGACGA	59.116	55.000	0.73	0.00	35.47	4.20
1413	1420	6.321848	TGACGATGTTTCAGTAGAACTACA	57.678	37.500	13.34	0.00	38.48	2.74
1431	1438	4.634443	ACTACAGTGGTGTTGTTTTCTGTC	59.366	41.667	0.00	0.00	39.27	3.51
1602	1614	1.082206	TAGTGGGCCCCTTGTAGCT	59.918	57.895	22.27	8.30	0.00	3.32
1682	1695	3.718723	ACCCTAGATGAGAAGTTCTGCT	58.281	45.455	10.90	7.36	0.00	4.24
1704	1717	1.164411	CGCAAGCCTTTGTATCCACA	58.836	50.000	0.00	0.00	36.65	4.17
1729	1742	2.305009	CTCAATCTGGAGCCCATTTCC	58.695	52.381	0.00	0.00	30.82	3.13
1836	1850	1.830279	GGGCTAAGGGTTTGTACCAC	58.170	55.000	0.00	0.00	46.96	4.16
1881	1899	5.136828	TCTCTCTCTCTCTCTCTCTCTCTC	58.863	50.000	0.00	0.00	0.00	3.20
1900	1918	1.606668	TCGTGTTCTTGATTTGGCACC	59.393	47.619	0.00	0.00	0.00	5.01
1938	1956	6.419771	GCGAGCTTTGTTAATATAGTTGGAC	58.580	40.000	0.00	0.00	0.00	4.02
1961	1980	1.760405	ATGGTGTTTCCCCCTCTCTT	58.240	50.000	0.00	0.00	34.77	2.85
1993	2013	7.432869	TGTGATGAATTGAGTTTTACCTTTGG	58.567	34.615	0.00	0.00	0.00	3.28
2068	2088	4.785346	ATCTCTTGCATATGAACACCCT	57.215	40.909	6.97	0.00	0.00	4.34
2135	2155	1.134367	CACTCAACTCGCGGATTCCTA	59.866	52.381	6.13	0.00	0.00	2.94
2153	2173	3.264964	TCCTAAGGTGACATTGGGGTAAC	59.735	47.826	12.35	0.00	0.00	2.50
2174	2195	2.551721	CCTATGCCTAGGGTTGATGCAG	60.552	54.545	11.72	0.00	40.91	4.41
2175	2196	1.216064	ATGCCTAGGGTTGATGCAGA	58.784	50.000	11.72	0.00	35.10	4.26
2193	2214	6.817765	TGCAGATTTTCGTCCTTATTTCTT	57.182	33.333	0.00	0.00	0.00	2.52

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
63	64	4.056125	CTCAGCGTGCGAGACCCA	62.056	66.667	7.59	0.00	31.84	4.51
180	181	0.933097	CGATGCCGTCTCAATTGAGG	59.067	55.000	30.33	19.21	42.30	3.86
208	209	1.022982	TCTACATCGACGACGCAGGT	61.023	55.000	0.00	3.23	39.58	4.00
258	259	3.244215	CGGGCTCAAAGGATAAGCTATGA	60.244	47.826	0.00	0.00	36.29	2.15
265	266	3.426787	TTTGACGGGCTCAAAGGATAA	57.573	42.857	0.00	0.00	42.85	1.75
280	281	1.609208	TCTTGAAGGGCAGCTTTGAC	58.391	50.000	0.00	0.00	0.00	3.18
283	284	2.234143	GAGTTCTTGAAGGGCAGCTTT	58.766	47.619	0.00	0.00	0.00	3.51
393	394	4.465632	TTAAGCTTCCTAGTTGCGATGA	57.534	40.909	0.00	0.00	0.00	2.92
466	468	1.024579	AAGCCATTACCTTCACCGCG	61.025	55.000	0.00	0.00	0.00	6.46
507	509	5.163301	GCTCCCTGGTAATCAAGACATAAGA	60.163	44.000	0.00	0.00	0.00	2.10
641	643	5.360999	ACTGAGACGGACAATGATTATGAGA	59.639	40.000	0.00	0.00	0.00	3.27
649	651	2.796557	AGAGACTGAGACGGACAATGA	58.203	47.619	0.00	0.00	0.00	2.57
652	654	1.000163	GCAAGAGACTGAGACGGACAA	60.000	52.381	0.00	0.00	0.00	3.18
659	661	2.298446	CAAGAGTGGCAAGAGACTGAGA	59.702	50.000	0.00	0.00	0.00	3.27
673	675	6.560253	AACTTGTATTGTAAGGCAAGAGTG	57.440	37.500	9.68	0.00	40.86	3.51
675	677	7.667043	TGTAACTTGTATTGTAAGGCAAGAG	57.333	36.000	9.68	0.00	40.86	2.85
742	744	3.731728	CAGCTAAGGGCCCAGGCA	61.732	66.667	27.56	4.30	44.11	4.75
756	761	0.449388	CTTGAAGATGGCGGTTCAGC	59.551	55.000	0.00	0.00	34.25	4.26
870	875	0.107361	CCCCCATCGTACCCTTCAAC	60.107	60.000	0.00	0.00	0.00	3.18
872	877	0.252789	TTCCCCCATCGTACCCTTCA	60.253	55.000	0.00	0.00	0.00	3.02
890	895	4.962155	ACCTTTGTCGTCTCTCAAGAATT	58.038	39.130	0.00	0.00	31.93	2.17
891	896	4.608948	ACCTTTGTCGTCTCTCAAGAAT	57.391	40.909	0.00	0.00	31.93	2.40
892	897	5.010719	ACATACCTTTGTCGTCTCTCAAGAA	59.989	40.000	0.00	0.00	31.93	2.52
907	912	9.990868	ATTTCCTCCTACAATAAACATACCTTT	57.009	29.630	0.00	0.00	0.00	3.11
914	919	8.893563	ATTTCCATTTCCTCCTACAATAAACA	57.106	30.769	0.00	0.00	0.00	2.83
939	944	5.523552	CAGAACATCCGCACAATAGTCAATA	59.476	40.000	0.00	0.00	0.00	1.90
941	946	3.684305	CAGAACATCCGCACAATAGTCAA	59.316	43.478	0.00	0.00	0.00	3.18
975	980	6.245408	TCTTAGGCCAAATTTGAGAGCTAAA	58.755	36.000	19.86	10.98	0.00	1.85
998	1003	0.972471	CCCCACCCTTTGCTCCATTC	60.972	60.000	0.00	0.00	0.00	2.67
1004	1009	1.286849	GGTTATACCCCACCCTTTGCT	59.713	52.381	0.00	0.00	30.04	3.91
1019	1024	7.092891	TGTCTGAGTTGATGATTAGGTGGTTAT	60.093	37.037	0.00	0.00	0.00	1.89
1025	1030	7.121759	CCATTTTGTCTGAGTTGATGATTAGGT	59.878	37.037	0.00	0.00	0.00	3.08
1040	1045	5.005740	TCTCAATCACCTCCATTTTGTCTG	58.994	41.667	0.00	0.00	0.00	3.51
1047	1052	3.117738	GGATGGTCTCAATCACCTCCATT	60.118	47.826	0.00	0.00	36.07	3.16
1068	1073	1.407989	GCTGATTGTCCTCCTTCCTGG	60.408	57.143	0.00	0.00	37.10	4.45
1088	1093	2.126071	CTGTCGCTACCACACCCG	60.126	66.667	0.00	0.00	0.00	5.28
1094	1099	0.240145	CTCGAACACTGTCGCTACCA	59.760	55.000	0.00	0.00	40.88	3.25
1097	1102	0.520404	GTCCTCGAACACTGTCGCTA	59.480	55.000	0.00	0.00	40.88	4.26
1098	1103	1.173444	AGTCCTCGAACACTGTCGCT	61.173	55.000	0.00	0.00	40.88	4.93
1102	1107	5.652891	AGTGATAATAGTCCTCGAACACTGT	59.347	40.000	6.24	0.00	35.31	3.55
1139	1144	6.873605	ACAATGTTCGAATCTAGTCATGACAA	59.126	34.615	27.02	12.70	0.00	3.18
1211	1216	7.716123	TCAAACCAGTCGGAAGTTTAAGAAATA	59.284	33.333	2.82	0.00	32.64	1.40
1219	1225	2.171870	TCCTCAAACCAGTCGGAAGTTT	59.828	45.455	0.00	0.00	34.13	2.66
1262	1268	5.431765	ACCAGTACATCATTTGTGAGGATC	58.568	41.667	0.00	0.00	39.48	3.36
1266	1272	8.729756	TGAAATAACCAGTACATCATTTGTGAG	58.270	33.333	0.00	0.00	39.48	3.51
1317	1323	9.638239	TTCTAAACATGGCATGAATACTTTTTC	57.362	29.630	32.74	0.00	0.00	2.29
1374	1380	1.264295	GTCAGTCCGGGTTAGTTCCT	58.736	55.000	0.00	0.00	0.00	3.36
1395	1401	6.183360	ACACCACTGTAGTTCTACTGAAACAT	60.183	38.462	18.72	4.10	33.52	2.71
1404	1411	6.537301	CAGAAAACAACACCACTGTAGTTCTA	59.463	38.462	0.00	0.00	33.11	2.10
1413	1420	3.016736	CTGGACAGAAAACAACACCACT	58.983	45.455	0.00	0.00	0.00	4.00
1431	1438	8.879759	TCGCATTAGTAGAACTTTTATTTCTGG	58.120	33.333	0.00	0.00	34.99	3.86
1448	1455	5.454232	CGTCAAAAAGTTTTGTCGCATTAGT	59.546	36.000	18.22	0.00	46.29	2.24
1450	1457	5.858159	CGTCAAAAAGTTTTGTCGCATTA	57.142	34.783	18.22	0.00	46.29	1.90
1486	1497	3.931578	TGAAGCTTCTAGTGCCTCTTTC	58.068	45.455	26.09	0.00	0.00	2.62
1602	1614	1.199327	GTCGGTCTCACGTGAAGATGA	59.801	52.381	20.49	10.43	34.94	2.92
1653	1665	9.268282	AGAACTTCTCATCTAGGGTTATTTGTA	57.732	33.333	0.00	0.00	0.00	2.41
1655	1667	7.011857	GCAGAACTTCTCATCTAGGGTTATTTG	59.988	40.741	0.00	0.00	0.00	2.32
1682	1695	1.312371	GGATACAAAGGCTTGCGGCA	61.312	55.000	0.00	0.00	44.01	5.69
1704	1717	3.243359	TGGGCTCCAGATTGAGTTTTT	57.757	42.857	0.00	0.00	34.74	1.94
1836	1850	9.453572	AGAGAGAGAGATCAAATACATAGCTAG	57.546	37.037	0.00	0.00	0.00	3.42
1881	1899	1.336440	TGGTGCCAAATCAAGAACACG	59.664	47.619	0.00	0.00	0.00	4.49
1900	1918	0.855349	GCTCGCGGTACATGAAGATG	59.145	55.000	6.13	0.00	35.49	2.90
1961	1980	9.515020	GTAAAACTCAATTCATCACAACAAGAA	57.485	29.630	0.00	0.00	0.00	2.52
2019	2039	9.865321	CATCAAGTGTTCTCAAATCCATAAAAT	57.135	29.630	0.00	0.00	0.00	1.82
2135	2155	2.070573	AGGTTACCCCAATGTCACCTT	58.929	47.619	0.00	0.00	39.29	3.50
2160	2180	3.941483	ACGAAAATCTGCATCAACCCTAG	59.059	43.478	0.00	0.00	0.00	3.02
2193	2214	8.527810	CAAAGAGTGCCCCAAAATTTATACTAA	58.472	33.333	0.00	0.00	0.00	2.24
2204	2225	0.555769	ACCTCAAAGAGTGCCCCAAA	59.444	50.000	0.00	0.00	0.00	3.28

Based at the University of Bristol with support from BBSRC.

AutoCloner maintained by Alex Coulton.