AutoCloner

Multiple sequence alignment - TraesCS2B01G102200

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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	TraesCS2B01G102200	chr2B	100.000	3030	0	0	1	3030	63219861	63222890	0.000000e+00	5596.0
1	TraesCS2B01G102200	chr2B	96.437	1207	37	3	1010	2215	63249842	63251043	0.000000e+00	1986.0
2	TraesCS2B01G102200	chr2B	86.656	1214	108	23	1010	2215	63255078	63256245	0.000000e+00	1295.0
3	TraesCS2B01G102200	chr2B	87.912	273	27	5	1193	1465	63260768	63261034	1.750000e-82	316.0
4	TraesCS2B01G102200	chr2B	83.898	236	32	4	625	857	63247545	63247777	1.410000e-53	220.0
5	TraesCS2B01G102200	chr2B	86.154	195	24	3	640	834	63254524	63254715	1.100000e-49	207.0
6	TraesCS2B01G102200	chr2A	91.443	2162	145	15	25	2168	41206997	41209136	0.000000e+00	2931.0
7	TraesCS2B01G102200	chr2A	88.825	1208	91	19	975	2168	41217815	41218992	0.000000e+00	1443.0
8	TraesCS2B01G102200	chr2A	91.264	435	22	4	975	1401	41227490	41227916	2.030000e-161	579.0
9	TraesCS2B01G102200	chr2A	84.068	295	44	3	294	587	41214122	41214414	6.400000e-72	281.0
10	TraesCS2B01G102200	chr2A	89.076	119	13	0	765	883	41214525	41214643	6.770000e-32	148.0
11	TraesCS2B01G102200	chr2D	87.469	1197	114	13	1035	2215	36783351	36784527	0.000000e+00	1347.0
12	TraesCS2B01G102200	chr2D	84.449	881	109	15	25	894	36782364	36783227	0.000000e+00	843.0
13	TraesCS2B01G102200	chr2D	82.946	258	42	2	294	551	36787558	36787813	6.530000e-57	231.0
14	TraesCS2B01G102200	chr2D	89.091	55	5	1	758	812	187015598	187015651	1.950000e-07	67.6
15	TraesCS2B01G102200	chr3D	91.667	816	54	12	2218	3030	565116646	565115842	0.000000e+00	1118.0
16	TraesCS2B01G102200	chr3D	92.529	763	38	5	2217	2960	526944134	526943372	0.000000e+00	1075.0
17	TraesCS2B01G102200	chr3D	93.352	707	42	5	2256	2960	500471561	500470858	0.000000e+00	1040.0
18	TraesCS2B01G102200	chr3D	89.692	747	34	16	2216	2960	593771227	593771932	0.000000e+00	913.0
19	TraesCS2B01G102200	chr4D	93.440	747	46	2	2217	2960	506053024	506053770	0.000000e+00	1105.0
20	TraesCS2B01G102200	chr1B	92.420	752	46	7	2218	2960	483882919	483883668	0.000000e+00	1062.0
21	TraesCS2B01G102200	chr1B	90.695	763	57	8	2211	2960	35973647	35972886	0.000000e+00	1003.0
22	TraesCS2B01G102200	chr1B	83.534	249	35	4	1923	2168	666574537	666574292	8.450000e-56	228.0
23	TraesCS2B01G102200	chr1B	97.500	80	1	1	2952	3030	483883689	483883768	5.270000e-28	135.0
24	TraesCS2B01G102200	chr1B	100.000	29	0	0	1	29	525838947	525838919	2.000000e-03	54.7
25	TraesCS2B01G102200	chr6B	89.437	852	57	15	2212	3030	63686429	63685578	0.000000e+00	1044.0
26	TraesCS2B01G102200	chr7D	92.236	747	36	10	2218	2960	75328283	75327555	0.000000e+00	1038.0
27	TraesCS2B01G102200	chr7D	90.759	725	37	12	2218	2913	583038706	583039429	0.000000e+00	941.0
28	TraesCS2B01G102200	chr7D	83.276	293	45	3	1924	2213	151694440	151694731	1.790000e-67	267.0
29	TraesCS2B01G102200	chr3B	91.667	768	36	9	2217	2960	817903214	817903977	0.000000e+00	1038.0
30	TraesCS2B01G102200	chr3B	97.500	80	1	1	2952	3030	744373023	744373102	5.270000e-28	135.0
31	TraesCS2B01G102200	chr1A	87.141	871	54	25	2217	3030	536940877	536941746	0.000000e+00	935.0
32	TraesCS2B01G102200	chr1A	82.215	298	48	4	1922	2215	405358260	405357964	5.010000e-63	252.0
33	TraesCS2B01G102200	chr5A	89.221	770	46	15	2218	2960	662048603	662049362	0.000000e+00	928.0
34	TraesCS2B01G102200	chr5A	97.500	80	1	1	2952	3030	622362228	622362149	5.270000e-28	135.0
35	TraesCS2B01G102200	chr5A	97.500	80	1	1	2952	3030	662049383	662049462	5.270000e-28	135.0
36	TraesCS2B01G102200	chr6A	86.127	865	66	31	2218	3030	12944564	12943702	0.000000e+00	883.0
37	TraesCS2B01G102200	chr6A	78.488	172	29	8	1931	2096	609259208	609259377	4.130000e-19	106.0
38	TraesCS2B01G102200	chr5B	83.958	854	69	30	2218	3030	535214017	535213191	0.000000e+00	756.0
39	TraesCS2B01G102200	chr6D	87.960	299	33	3	1920	2215	89358078	89358376	1.730000e-92	350.0
40	TraesCS2B01G102200	chr6D	75.497	302	44	23	1920	2207	462467812	462468097	1.480000e-23	121.0
41	TraesCS2B01G102200	chr7B	82.784	273	45	2	1944	2215	113565638	113565909	3.020000e-60	243.0
42	TraesCS2B01G102200	chr7B	97.500	80	1	1	2952	3030	732939272	732939351	5.270000e-28	135.0
43	TraesCS2B01G102200	chrUn	95.294	85	3	1	2947	3030	26490195	26490279	1.900000e-27	134.0
44	TraesCS2B01G102200	chr1D	82.517	143	23	2	1928	2069	348094272	348094413	1.140000e-24	124.0

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	TraesCS2B01G102200	chr2B	63219861	63222890	3029	False	5596.0	5596	100.000000	1	3030	1	chr2B.!!$F1	3029
1	TraesCS2B01G102200	chr2B	63247545	63256245	8700	False	927.0	1986	88.286250	625	2215	4	chr2B.!!$F3	1590
2	TraesCS2B01G102200	chr2A	41206997	41209136	2139	False	2931.0	2931	91.443000	25	2168	1	chr2A.!!$F1	2143
3	TraesCS2B01G102200	chr2A	41214122	41218992	4870	False	624.0	1443	87.323000	294	2168	3	chr2A.!!$F3	1874
4	TraesCS2B01G102200	chr2D	36782364	36787813	5449	False	807.0	1347	84.954667	25	2215	3	chr2D.!!$F2	2190
5	TraesCS2B01G102200	chr3D	565115842	565116646	804	True	1118.0	1118	91.667000	2218	3030	1	chr3D.!!$R3	812
6	TraesCS2B01G102200	chr3D	526943372	526944134	762	True	1075.0	1075	92.529000	2217	2960	1	chr3D.!!$R2	743
7	TraesCS2B01G102200	chr3D	500470858	500471561	703	True	1040.0	1040	93.352000	2256	2960	1	chr3D.!!$R1	704
8	TraesCS2B01G102200	chr3D	593771227	593771932	705	False	913.0	913	89.692000	2216	2960	1	chr3D.!!$F1	744
9	TraesCS2B01G102200	chr4D	506053024	506053770	746	False	1105.0	1105	93.440000	2217	2960	1	chr4D.!!$F1	743
10	TraesCS2B01G102200	chr1B	35972886	35973647	761	True	1003.0	1003	90.695000	2211	2960	1	chr1B.!!$R1	749
11	TraesCS2B01G102200	chr1B	483882919	483883768	849	False	598.5	1062	94.960000	2218	3030	2	chr1B.!!$F1	812
12	TraesCS2B01G102200	chr6B	63685578	63686429	851	True	1044.0	1044	89.437000	2212	3030	1	chr6B.!!$R1	818
13	TraesCS2B01G102200	chr7D	75327555	75328283	728	True	1038.0	1038	92.236000	2218	2960	1	chr7D.!!$R1	742
14	TraesCS2B01G102200	chr7D	583038706	583039429	723	False	941.0	941	90.759000	2218	2913	1	chr7D.!!$F2	695
15	TraesCS2B01G102200	chr3B	817903214	817903977	763	False	1038.0	1038	91.667000	2217	2960	1	chr3B.!!$F2	743
16	TraesCS2B01G102200	chr1A	536940877	536941746	869	False	935.0	935	87.141000	2217	3030	1	chr1A.!!$F1	813
17	TraesCS2B01G102200	chr5A	662048603	662049462	859	False	531.5	928	93.360500	2218	3030	2	chr5A.!!$F1	812
18	TraesCS2B01G102200	chr6A	12943702	12944564	862	True	883.0	883	86.127000	2218	3030	1	chr6A.!!$R1	812
19	TraesCS2B01G102200	chr5B	535213191	535214017	826	True	756.0	756	83.958000	2218	3030	1	chr5B.!!$R1	812

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
703	1864	0.250858	CCAGATGTGCAAGGTCACCA	60.251	55.0	0.0	0.0	36.17	4.17	F
1178	11417	0.036952	CGCACCTGTGTCCTCTGATT	60.037	55.0	0.0	0.0	0.00	2.57	F

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability	Orientation
1745	11996	0.107945	GCGTCCTCTTCCTTGATGCT	60.108	55.0	0.0	0.0	37.89	3.79	R
2954	16061	0.680921	CGGTTAGACGGGAGGGTGTA	60.681	60.0	0.0	0.0	0.00	2.90	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
18	19	1.508088	GCTACATGCACCAGGTTGC	59.492	57.895	6.98	6.98	39.16	4.17
19	20	1.937546	GCTACATGCACCAGGTTGCC	61.938	60.000	10.46	0.00	39.88	4.52
20	21	1.304052	TACATGCACCAGGTTGCCC	60.304	57.895	10.46	0.00	42.25	5.36
21	22	1.788518	TACATGCACCAGGTTGCCCT	61.789	55.000	10.46	0.00	42.25	5.19
22	23	1.909781	CATGCACCAGGTTGCCCTT	60.910	57.895	10.46	0.00	42.25	3.95
23	24	1.152269	ATGCACCAGGTTGCCCTTT	60.152	52.632	10.46	0.00	42.25	3.11
85	95	4.729856	AACCGCGGCGTACCAGAC	62.730	66.667	28.58	0.00	34.57	3.51
152	162	0.538287	GGCAAGGCAGTGAAGGACTT	60.538	55.000	0.00	0.00	32.61	3.01
207	217	2.144730	CTCCTCTACTCGGTGGTATCG	58.855	57.143	0.00	0.00	0.00	2.92
259	269	0.756294	TCGGTGTTGAAGAAGGCAGA	59.244	50.000	0.00	0.00	0.00	4.26
264	274	1.202806	TGTTGAAGAAGGCAGACAGGG	60.203	52.381	0.00	0.00	0.00	4.45
463	473	5.193663	AGTGGTCACTCAATGATATCTCG	57.806	43.478	3.98	0.00	40.28	4.04
551	563	3.463505	CGGCACAAGACGTAGCAG	58.536	61.111	0.00	0.00	42.75	4.24
645	1799	0.311165	ACCACTCTGACAACGACGAG	59.689	55.000	0.00	0.00	0.00	4.18
703	1864	0.250858	CCAGATGTGCAAGGTCACCA	60.251	55.000	0.00	0.00	36.17	4.17
708	1869	2.040544	GTGCAAGGTCACCATCCGG	61.041	63.158	0.00	0.00	38.77	5.14
851	2014	3.895704	ATTGTGGGTGGAGGTTTACTT	57.104	42.857	0.00	0.00	0.00	2.24
890	2825	5.121298	CCGGATGTGTCAGCAGATAAATATG	59.879	44.000	0.00	0.00	0.00	1.78
967	2929	2.952116	AGGTAGAGGCAGAGTCATACC	58.048	52.381	0.00	0.00	34.22	2.73
1153	11392	3.620300	GATGTCGTCGTGTCCGCCA	62.620	63.158	0.00	0.00	0.00	5.69
1162	11401	1.140161	GTGTCCGCCATACTACGCA	59.860	57.895	0.00	0.00	0.00	5.24
1165	11404	1.755395	TCCGCCATACTACGCACCT	60.755	57.895	0.00	0.00	0.00	4.00
1178	11417	0.036952	CGCACCTGTGTCCTCTGATT	60.037	55.000	0.00	0.00	0.00	2.57
1308	11547	1.292223	GCAGCTACGTGGAGTCCAA	59.708	57.895	15.09	0.00	34.18	3.53
1343	11582	1.678970	GGCCACACCTGGATGTTCC	60.679	63.158	0.00	1.81	40.55	3.62
1362	11601	3.766691	TTGCTACCTCGACGGGGC	61.767	66.667	15.39	0.00	36.97	5.80
1403	11642	1.205655	TCATCTCGCTGTTCCTCAAGG	59.794	52.381	0.00	0.00	0.00	3.61
1546	11797	2.202401	GTCGTCCACGCCGAGTAC	60.202	66.667	0.00	0.00	39.60	2.73
1552	11803	1.800315	CCACGCCGAGTACGAGTTG	60.800	63.158	0.00	0.00	42.66	3.16
1594	11845	1.302192	GCTGGTAAAGTGGCCGTCA	60.302	57.895	0.00	0.00	0.00	4.35
1636	11887	1.493311	CGCCTTTCACTCGAGCAAC	59.507	57.895	13.61	0.00	0.00	4.17
1667	11918	0.674581	CCCGCAGTTCATCAGCAAGA	60.675	55.000	0.00	0.00	0.00	3.02
1675	11926	3.073650	AGTTCATCAGCAAGAAGGACCTT	59.926	43.478	6.40	6.40	0.00	3.50
1705	11956	0.249911	GGTTCCTCAAGCACGACTGT	60.250	55.000	0.00	0.00	0.00	3.55
1733	11984	2.978010	GGTGCAAGGTCACCGTGG	60.978	66.667	12.12	0.00	45.95	4.94
1743	11994	2.207229	TCACCGTGGTCCAGGAGTG	61.207	63.158	13.28	16.95	0.00	3.51
1797	12048	2.517402	TGGGAACGGCGTTTGCTT	60.517	55.556	27.48	3.19	42.25	3.91
1805	12056	0.660300	CGGCGTTTGCTTGGTTTCTC	60.660	55.000	0.00	0.00	42.25	2.87
1807	12058	1.335051	GGCGTTTGCTTGGTTTCTCTC	60.335	52.381	0.00	0.00	42.25	3.20
1835	12089	0.249447	TCCGTGGATAGATGCGCTTG	60.249	55.000	9.73	0.00	0.00	4.01
1858	12112	3.944650	TCGCTATATTTTTGGCTCTTGCA	59.055	39.130	0.00	0.00	41.91	4.08
1865	12119	1.603456	TTTGGCTCTTGCATGTTCGA	58.397	45.000	0.00	0.00	41.91	3.71
1878	12132	6.984740	TGCATGTTCGAAGAAAATTGTTAC	57.015	33.333	0.00	0.00	45.90	2.50
1879	12133	5.623264	TGCATGTTCGAAGAAAATTGTTACG	59.377	36.000	0.00	0.00	45.90	3.18
1909	12163	7.066374	ACTATTTCTTCTTCTCGTTTCATGC	57.934	36.000	0.00	0.00	0.00	4.06
1910	12164	4.749245	TTTCTTCTTCTCGTTTCATGCC	57.251	40.909	0.00	0.00	0.00	4.40
1918	12172	0.390603	TCGTTTCATGCCTACCCGTG	60.391	55.000	0.00	0.00	0.00	4.94
1986	12246	4.080129	AGTTCTTGATCCATACCAGCACAT	60.080	41.667	0.00	0.00	0.00	3.21
1993	12253	3.111484	TCCATACCAGCACATCCTAACA	58.889	45.455	0.00	0.00	0.00	2.41
1994	12254	3.134623	TCCATACCAGCACATCCTAACAG	59.865	47.826	0.00	0.00	0.00	3.16
1996	12256	2.770164	ACCAGCACATCCTAACAGAC	57.230	50.000	0.00	0.00	0.00	3.51
2000	12260	0.721718	GCACATCCTAACAGACGCAC	59.278	55.000	0.00	0.00	0.00	5.34
2008	12268	3.676172	TCCTAACAGACGCACAAATAACG	59.324	43.478	0.00	0.00	0.00	3.18
2016	12276	4.093850	AGACGCACAAATAACGGAATAACC	59.906	41.667	0.00	0.00	0.00	2.85
2053	12313	5.978934	ACAACGAGTAAAACACGAAGATT	57.021	34.783	3.96	0.00	35.77	2.40
2080	12340	2.964464	AGCTCTGTGTCATCATCCCTAG	59.036	50.000	0.00	0.00	0.00	3.02
2097	12357	2.096248	CTAGACCTTGCGAGAAGACCT	58.904	52.381	1.22	0.00	0.00	3.85
2110	12370	2.435805	AGAAGACCTCTGCAACACAAGA	59.564	45.455	0.00	0.00	31.12	3.02
2120	12380	3.475575	TGCAACACAAGAATCTGCAGTA	58.524	40.909	14.67	0.48	38.06	2.74
2195	12455	1.234615	CCTTTTTCTTCGCTCCCGCA	61.235	55.000	0.00	0.00	35.30	5.69
2209	12469	1.001520	TCCCGCATCGAAAAGACAAGA	59.998	47.619	0.00	0.00	0.00	3.02
2953	16060	2.590092	CGTAGGAGGGCCCAAAGG	59.410	66.667	27.56	7.78	37.41	3.11
2954	16061	2.298661	CGTAGGAGGGCCCAAAGGT	61.299	63.158	27.56	0.88	37.41	3.50
3008	16173	2.359354	GCGGTGTGGTGCCATGTA	60.359	61.111	0.00	0.00	0.00	2.29

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
2	3	4.413928	GGCAACCTGGTGCATGTA	57.586	55.556	18.44	0.00	46.81	2.29
14	15	4.754322	TCAAAGTTTCTCAAAAGGGCAAC	58.246	39.130	0.00	0.00	0.00	4.17
15	16	5.413309	TTCAAAGTTTCTCAAAAGGGCAA	57.587	34.783	0.00	0.00	0.00	4.52
16	17	5.413309	TTTCAAAGTTTCTCAAAAGGGCA	57.587	34.783	0.00	0.00	0.00	5.36
17	18	6.735678	TTTTTCAAAGTTTCTCAAAAGGGC	57.264	33.333	0.00	0.00	0.00	5.19
79	85	2.029073	CTTCACGTGGCGTCTGGT	59.971	61.111	17.00	0.00	38.32	4.00
85	95	2.125912	CTCCTCCTTCACGTGGCG	60.126	66.667	17.00	6.87	0.00	5.69
185	195	2.085479	ACCACCGAGTAGAGGAGGT	58.915	57.895	0.00	0.00	45.78	3.85
218	228	1.078848	GATGCTCAGCGACAAGGGT	60.079	57.895	0.00	0.00	0.00	4.34
229	239	1.550072	TCAACACCGAGATGATGCTCA	59.450	47.619	0.00	0.00	34.56	4.26
259	269	2.687200	TATGCGCCACCTCCCTGT	60.687	61.111	4.18	0.00	0.00	4.00
264	274	1.889573	GCTTCCTATGCGCCACCTC	60.890	63.158	4.18	0.00	0.00	3.85
274	284	2.028130	GCATTGCGCTGCTTCCTAT	58.972	52.632	13.86	0.00	39.12	2.57
327	337	1.305297	TGAGGACTGAGGCCGTCAT	60.305	57.895	0.00	4.00	33.51	3.06
402	412	1.180456	TTTCCGTCGAGGTGGCACTA	61.180	55.000	18.45	0.00	41.99	2.74
645	1799	2.106332	CCATCGTAGGCCGTGTCC	59.894	66.667	0.00	0.00	37.94	4.02
703	1864	8.075761	AGAGTCTAAATTAACTTGTACCGGAT	57.924	34.615	9.46	0.00	0.00	4.18
752	1913	8.951243	TCACATAAATTGGACGATATTTTGTCA	58.049	29.630	5.97	0.00	37.92	3.58
851	2014	6.588204	ACACATCCGGCTATTCAATACTTAA	58.412	36.000	0.00	0.00	0.00	1.85
890	2825	3.297830	AAGCCGGCAAAAGTTTGATAC	57.702	42.857	31.54	0.00	40.55	2.24
967	2929	6.271488	TCGGAACCGGGTTGTATAATATAG	57.729	41.667	18.88	0.00	40.25	1.31
1153	11392	1.749634	GAGGACACAGGTGCGTAGTAT	59.250	52.381	0.00	0.00	40.77	2.12
1162	11401	3.261897	CAGGTTAATCAGAGGACACAGGT	59.738	47.826	0.00	0.00	0.00	4.00
1165	11404	4.808414	CTCAGGTTAATCAGAGGACACA	57.192	45.455	0.25	0.00	0.00	3.72
1293	11532	2.092882	GCGTTGGACTCCACGTAGC	61.093	63.158	16.46	8.79	33.22	3.58
1308	11547	3.349006	CTGCTGCCTTGAACGCGT	61.349	61.111	5.58	5.58	0.00	6.01
1338	11577	0.038892	GTCGAGGTAGCAACGGAACA	60.039	55.000	10.53	0.00	0.00	3.18
1340	11579	1.210931	CGTCGAGGTAGCAACGGAA	59.789	57.895	10.53	0.00	0.00	4.30
1343	11582	2.202570	CCCGTCGAGGTAGCAACG	60.203	66.667	4.18	7.33	38.74	4.10
1385	11624	1.270907	ACCTTGAGGAACAGCGAGAT	58.729	50.000	3.59	0.00	38.94	2.75
1546	11797	4.641645	TGCACCAGGGCCAACTCG	62.642	66.667	6.18	0.00	0.00	4.18
1580	11831	2.858158	GCGTGACGGCCACTTTAC	59.142	61.111	7.25	0.00	43.53	2.01
1625	11876	1.300971	CCCCACATGTTGCTCGAGTG	61.301	60.000	15.13	6.36	0.00	3.51
1626	11877	1.003355	CCCCACATGTTGCTCGAGT	60.003	57.895	15.13	0.00	0.00	4.18
1650	11901	1.129998	CCTTCTTGCTGATGAACTGCG	59.870	52.381	0.00	0.00	44.53	5.18
1653	11904	2.641815	AGGTCCTTCTTGCTGATGAACT	59.358	45.455	0.00	0.00	0.00	3.01
1675	11926	1.613630	GAGGAACCTGGAGCCCTCA	60.614	63.158	20.46	0.00	43.47	3.86
1705	11956	4.912485	TTGCACCGGACGGCGAAA	62.912	61.111	16.62	0.00	39.32	3.46
1732	11983	1.267574	TGATGCTCCACTCCTGGACC	61.268	60.000	0.00	0.00	42.15	4.46
1733	11984	0.615331	TTGATGCTCCACTCCTGGAC	59.385	55.000	0.00	0.00	42.15	4.02
1743	11994	1.472376	CGTCCTCTTCCTTGATGCTCC	60.472	57.143	0.00	0.00	0.00	4.70
1745	11996	0.107945	GCGTCCTCTTCCTTGATGCT	60.108	55.000	0.00	0.00	37.89	3.79
1746	11997	1.424493	CGCGTCCTCTTCCTTGATGC	61.424	60.000	0.00	0.00	37.61	3.91
1786	12037	0.660300	GAGAAACCAAGCAAACGCCG	60.660	55.000	0.00	0.00	0.00	6.46
1797	12048	3.447586	CGGATGGAACTAGAGAGAAACCA	59.552	47.826	0.00	0.00	0.00	3.67
1835	12089	4.201910	TGCAAGAGCCAAAAATATAGCGAC	60.202	41.667	0.00	0.00	41.13	5.19
1840	12094	6.094742	TCGAACATGCAAGAGCCAAAAATATA	59.905	34.615	0.00	0.00	41.13	0.86
1858	12112	4.843984	CGCGTAACAATTTTCTTCGAACAT	59.156	37.500	0.00	0.00	0.00	2.71
1865	12119	9.667989	AAATAGTAAACGCGTAACAATTTTCTT	57.332	25.926	14.46	0.67	0.00	2.52
1878	12132	5.285607	ACGAGAAGAAGAAATAGTAAACGCG	59.714	40.000	3.53	3.53	0.00	6.01
1879	12133	6.629182	ACGAGAAGAAGAAATAGTAAACGC	57.371	37.500	0.00	0.00	0.00	4.84
1979	12239	1.002366	GCGTCTGTTAGGATGTGCTG	58.998	55.000	0.00	0.00	0.00	4.41
1986	12246	3.676172	CGTTATTTGTGCGTCTGTTAGGA	59.324	43.478	0.00	0.00	0.00	2.94
1993	12253	4.093850	GGTTATTCCGTTATTTGTGCGTCT	59.906	41.667	0.00	0.00	0.00	4.18
1994	12254	4.142859	TGGTTATTCCGTTATTTGTGCGTC	60.143	41.667	0.00	0.00	39.52	5.19
1996	12256	4.343811	TGGTTATTCCGTTATTTGTGCG	57.656	40.909	0.00	0.00	39.52	5.34
2000	12260	6.027749	GTGCTCTTGGTTATTCCGTTATTTG	58.972	40.000	0.00	0.00	39.52	2.32
2008	12268	2.808906	AGGGTGCTCTTGGTTATTCC	57.191	50.000	0.00	0.00	0.00	3.01
2016	12276	2.875933	TCGTTGTTTTAGGGTGCTCTTG	59.124	45.455	0.00	0.00	0.00	3.02
2053	12313	1.618343	TGATGACACAGAGCTTCGGAA	59.382	47.619	0.00	0.00	0.00	4.30
2080	12340	0.892063	AGAGGTCTTCTCGCAAGGTC	59.108	55.000	0.00	0.00	46.82	3.85
2097	12357	2.574450	TGCAGATTCTTGTGTTGCAGA	58.426	42.857	0.00	0.00	39.61	4.26
2110	12370	4.826274	TGCTTAGGTCTTACTGCAGATT	57.174	40.909	23.35	0.27	0.00	2.40
2120	12380	9.959721	TTGAAGTTTATTATCTGCTTAGGTCTT	57.040	29.630	0.00	0.00	0.00	3.01
2195	12455	6.027749	GTGTTTGTGTTCTTGTCTTTTCGAT	58.972	36.000	0.00	0.00	0.00	3.59
2209	12469	7.259290	CAGTTATTCTGGTAGTGTTTGTGTT	57.741	36.000	0.00	0.00	40.23	3.32
2316	12576	2.358939	ACGCCGACGACTTTTCTATT	57.641	45.000	0.00	0.00	43.93	1.73
2366	12626	3.050275	GCCGACGGCTGAGCTTTT	61.050	61.111	31.30	0.00	46.69	2.27
2551	14179	3.682315	CGCGGATCGATGACGTGC	61.682	66.667	16.43	6.75	41.67	5.34
2953	16060	0.820226	GGTTAGACGGGAGGGTGTAC	59.180	60.000	0.00	0.00	0.00	2.90
2954	16061	0.680921	CGGTTAGACGGGAGGGTGTA	60.681	60.000	0.00	0.00	0.00	2.90
3008	16173	3.470888	CCCGTCCCGCCTCTTCAT	61.471	66.667	0.00	0.00	0.00	2.57

Based at the University of Bristol with support from BBSRC.

AutoCloner maintained by Alex Coulton.