AutoCloner

Multiple sequence alignment - TraesCS2D01G382400

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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	TraesCS2D01G382400	chr2D	100.000	4335	0	0	1	4335	486389347	486393681	0.000000e+00	8006.0
1	TraesCS2D01G382400	chr2D	84.987	2671	279	71	945	3573	487725390	487722800	0.000000e+00	2599.0
2	TraesCS2D01G382400	chr2D	85.501	2076	181	50	1636	3637	487934202	487932173	0.000000e+00	2056.0
3	TraesCS2D01G382400	chr2D	82.525	1917	226	50	941	2811	487594609	487592756	0.000000e+00	1583.0
4	TraesCS2D01G382400	chr2D	85.372	834	51	34	775	1562	487935097	487934289	0.000000e+00	798.0
5	TraesCS2D01G382400	chr2D	82.222	360	37	14	951	1309	488059614	488059281	7.100000e-73	285.0
6	TraesCS2D01G382400	chr2D	76.190	378	41	21	424	758	487935673	487935302	2.090000e-33	154.0
7	TraesCS2D01G382400	chr2A	91.604	2787	126	43	1632	4335	631855769	631858530	0.000000e+00	3751.0
8	TraesCS2D01G382400	chr2A	89.590	1633	81	38	1	1564	631854059	631855671	0.000000e+00	1991.0
9	TraesCS2D01G382400	chr2A	83.008	1589	167	47	1862	3416	46336247	46337766	0.000000e+00	1343.0
10	TraesCS2D01G382400	chr2A	85.120	1371	133	41	2296	3637	632588115	632586787	0.000000e+00	1336.0
11	TraesCS2D01G382400	chr2A	86.212	689	58	13	1636	2294	632588884	632588203	0.000000e+00	712.0
12	TraesCS2D01G382400	chr2A	83.828	606	38	22	784	1364	632589788	632589218	4.970000e-144	521.0
13	TraesCS2D01G382400	chr2A	93.909	197	12	0	1366	1562	632589184	632588988	9.110000e-77	298.0
14	TraesCS2D01G382400	chr2A	81.250	368	43	17	951	1310	632596477	632596128	1.540000e-69	274.0
15	TraesCS2D01G382400	chr2A	84.358	179	23	2	1610	1788	632595168	632594995	2.070000e-38	171.0
16	TraesCS2D01G382400	chr2A	82.906	117	6	6	661	776	632590076	632589973	4.620000e-15	93.5
17	TraesCS2D01G382400	chr2B	93.750	2000	94	15	2348	4335	571346934	571348914	0.000000e+00	2972.0
18	TraesCS2D01G382400	chr2B	85.004	2614	284	59	1075	3637	572180077	572177521	0.000000e+00	2556.0
19	TraesCS2D01G382400	chr2B	89.005	2010	108	37	425	2364	571344951	571346917	0.000000e+00	2383.0
20	TraesCS2D01G382400	chr2B	85.549	2076	175	56	1636	3637	572313757	572311733	0.000000e+00	2056.0
21	TraesCS2D01G382400	chr2B	97.273	440	12	0	1	440	571343869	571344308	0.000000e+00	747.0
22	TraesCS2D01G382400	chr2B	87.327	434	30	11	1153	1562	572314291	572313859	1.410000e-129	473.0
23	TraesCS2D01G382400	chr2B	89.677	310	19	4	737	1033	572314602	572314293	2.450000e-102	383.0
24	TraesCS2D01G382400	chr2B	87.302	126	11	1	656	776	572314928	572314803	5.850000e-29	139.0
25	TraesCS2D01G382400	chr7D	83.711	1590	159	48	1862	3416	446551625	446550101	0.000000e+00	1410.0
26	TraesCS2D01G382400	chr4B	83.258	1559	168	38	1862	3387	16786691	16788189	0.000000e+00	1347.0
27	TraesCS2D01G382400	chr7A	83.967	1104	112	32	2059	3143	321636922	321635865	0.000000e+00	998.0
28	TraesCS2D01G382400	chr3D	85.080	878	94	18	2564	3416	16449271	16450136	0.000000e+00	861.0
29	TraesCS2D01G382400	chr6B	83.355	763	83	17	1862	2623	247035823	247035104	0.000000e+00	665.0
30	TraesCS2D01G382400	chr4A	82.653	686	75	17	1862	2546	729645109	729644467	6.290000e-158	568.0
31	TraesCS2D01G382400	chr6A	84.156	385	37	13	3267	3637	226334905	226334531	6.900000e-93	351.0

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	TraesCS2D01G382400	chr2D	486389347	486393681	4334	False	8006.000000	8006	100.000000	1	4335	1	chr2D.!!$F1	4334
1	TraesCS2D01G382400	chr2D	487722800	487725390	2590	True	2599.000000	2599	84.987000	945	3573	1	chr2D.!!$R2	2628
2	TraesCS2D01G382400	chr2D	487592756	487594609	1853	True	1583.000000	1583	82.525000	941	2811	1	chr2D.!!$R1	1870
3	TraesCS2D01G382400	chr2D	487932173	487935673	3500	True	1002.666667	2056	82.354333	424	3637	3	chr2D.!!$R4	3213
4	TraesCS2D01G382400	chr2A	631854059	631858530	4471	False	2871.000000	3751	90.597000	1	4335	2	chr2A.!!$F2	4334
5	TraesCS2D01G382400	chr2A	46336247	46337766	1519	False	1343.000000	1343	83.008000	1862	3416	1	chr2A.!!$F1	1554
6	TraesCS2D01G382400	chr2A	632586787	632590076	3289	True	592.100000	1336	86.395000	661	3637	5	chr2A.!!$R1	2976
7	TraesCS2D01G382400	chr2A	632594995	632596477	1482	True	222.500000	274	82.804000	951	1788	2	chr2A.!!$R2	837
8	TraesCS2D01G382400	chr2B	572177521	572180077	2556	True	2556.000000	2556	85.004000	1075	3637	1	chr2B.!!$R1	2562
9	TraesCS2D01G382400	chr2B	571343869	571348914	5045	False	2034.000000	2972	93.342667	1	4335	3	chr2B.!!$F1	4334
10	TraesCS2D01G382400	chr2B	572311733	572314928	3195	True	762.750000	2056	87.463750	656	3637	4	chr2B.!!$R2	2981
11	TraesCS2D01G382400	chr7D	446550101	446551625	1524	True	1410.000000	1410	83.711000	1862	3416	1	chr7D.!!$R1	1554
12	TraesCS2D01G382400	chr4B	16786691	16788189	1498	False	1347.000000	1347	83.258000	1862	3387	1	chr4B.!!$F1	1525
13	TraesCS2D01G382400	chr7A	321635865	321636922	1057	True	998.000000	998	83.967000	2059	3143	1	chr7A.!!$R1	1084
14	TraesCS2D01G382400	chr3D	16449271	16450136	865	False	861.000000	861	85.080000	2564	3416	1	chr3D.!!$F1	852
15	TraesCS2D01G382400	chr6B	247035104	247035823	719	True	665.000000	665	83.355000	1862	2623	1	chr6B.!!$R1	761
16	TraesCS2D01G382400	chr4A	729644467	729645109	642	True	568.000000	568	82.653000	1862	2546	1	chr4A.!!$R1	684

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
696	1411	1.153369	CCTTCCGTGCGATGGATGT	60.153	57.895	0.00	0.0	37.91	3.06	F
1386	3226	0.571661	GTTGTTGACGCACGTACGAA	59.428	50.000	24.41	0.8	36.70	3.85	F
2553	4785	1.068055	CCTGCAAAGTCAAGCATCACC	60.068	52.381	0.00	0.0	40.42	4.02	F

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability	Orientation
2158	4231	1.457346	CTGCCCAGCTACTTTCTTGG	58.543	55.0	0.00	0.00	0.00	3.61	R
2810	5094	0.247460	TGTCGAGATGCTTCCTGTGG	59.753	55.0	0.00	0.00	0.00	4.17	R
4232	6618	0.395311	CCATCTTCACTGCCTGGCAT	60.395	55.0	23.64	9.78	38.13	4.40	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
53	54	4.766891	AGACAACATTGATTCACGGGATTT	59.233	37.500	0.00	0.00	0.00	2.17
515	1195	4.326278	TCAAGTCGTCGCACATTCTATTTC	59.674	41.667	0.00	0.00	0.00	2.17
516	1196	4.111375	AGTCGTCGCACATTCTATTTCT	57.889	40.909	0.00	0.00	0.00	2.52
519	1199	5.408604	AGTCGTCGCACATTCTATTTCTTTT	59.591	36.000	0.00	0.00	0.00	2.27
696	1411	1.153369	CCTTCCGTGCGATGGATGT	60.153	57.895	0.00	0.00	37.91	3.06
701	1416	1.217585	CCGTGCGATGGATGTAGCTG	61.218	60.000	0.00	0.00	0.00	4.24
710	1431	1.348775	GGATGTAGCTGGGGAGGCTT	61.349	60.000	0.00	0.00	40.74	4.35
795	1945	4.539083	ACGTCGTGCTTGGCCACA	62.539	61.111	3.88	0.00	35.47	4.17
814	1964	3.996825	GCCTAAATCACGGCACTTG	57.003	52.632	0.00	0.00	45.59	3.16
1035	2239	2.100749	GCCTTCTCTTCCTCTCTAGCAC	59.899	54.545	0.00	0.00	0.00	4.40
1036	2240	3.631250	CCTTCTCTTCCTCTCTAGCACT	58.369	50.000	0.00	0.00	0.00	4.40
1037	2241	3.632145	CCTTCTCTTCCTCTCTAGCACTC	59.368	52.174	0.00	0.00	0.00	3.51
1038	2242	4.526970	CTTCTCTTCCTCTCTAGCACTCT	58.473	47.826	0.00	0.00	0.00	3.24
1039	2243	5.397447	CCTTCTCTTCCTCTCTAGCACTCTA	60.397	48.000	0.00	0.00	0.00	2.43
1040	2244	5.290493	TCTCTTCCTCTCTAGCACTCTAG	57.710	47.826	0.00	0.00	42.87	2.43
1041	2245	3.815401	CTCTTCCTCTCTAGCACTCTAGC	59.185	52.174	0.00	0.00	41.59	3.42
1042	2246	3.201045	TCTTCCTCTCTAGCACTCTAGCA	59.799	47.826	0.00	0.00	41.59	3.49
1043	2247	2.925724	TCCTCTCTAGCACTCTAGCAC	58.074	52.381	0.00	0.00	41.59	4.40
1044	2248	2.239907	TCCTCTCTAGCACTCTAGCACA	59.760	50.000	0.00	0.00	41.59	4.57
1045	2249	2.357637	CCTCTCTAGCACTCTAGCACAC	59.642	54.545	0.00	0.00	41.59	3.82
1046	2250	2.010497	TCTCTAGCACTCTAGCACACG	58.990	52.381	0.00	0.00	41.59	4.49
1360	3159	8.175069	TCATTGTATGAAACTTTTGATAGCGTC	58.825	33.333	0.00	0.00	36.11	5.19
1386	3226	0.571661	GTTGTTGACGCACGTACGAA	59.428	50.000	24.41	0.80	36.70	3.85
1623	3601	6.715280	ACAGGACTGATGATCAACTTAACAT	58.285	36.000	6.29	0.00	0.00	2.71
1624	3602	6.596888	ACAGGACTGATGATCAACTTAACATG	59.403	38.462	6.29	1.23	0.00	3.21
1625	3603	5.587844	AGGACTGATGATCAACTTAACATGC	59.412	40.000	0.00	0.00	0.00	4.06
1781	3786	1.071471	CTACACGGATCATGGGGGC	59.929	63.158	0.00	0.00	0.00	5.80
1812	3817	9.273016	GTTCACTTGGTACATGCATATATACTT	57.727	33.333	0.00	0.00	39.30	2.24
1814	3819	8.646900	TCACTTGGTACATGCATATATACTTCA	58.353	33.333	0.00	0.00	39.30	3.02
1815	3820	8.929746	CACTTGGTACATGCATATATACTTCAG	58.070	37.037	0.00	3.70	39.30	3.02
1817	3822	7.244886	TGGTACATGCATATATACTTCAGCT	57.755	36.000	0.00	0.00	0.00	4.24
1961	4001	9.520204	AAAAGCTATTCGAAAATGGTATTCATG	57.480	29.630	0.00	0.00	35.99	3.07
2041	4112	5.900425	TGTATGCTTTGAGTCTCATCTCTC	58.100	41.667	2.68	0.00	35.68	3.20
2349	4539	2.778659	GCTTGCTTGCTATTCTGAACG	58.221	47.619	0.00	0.00	0.00	3.95
2466	4694	4.976731	CGAAATGAGTCCAGTATAGGTTCG	59.023	45.833	0.00	0.00	0.00	3.95
2553	4785	1.068055	CCTGCAAAGTCAAGCATCACC	60.068	52.381	0.00	0.00	40.42	4.02
2556	4791	2.429971	TGCAAAGTCAAGCATCACCAAA	59.570	40.909	0.00	0.00	35.51	3.28
2561	4796	1.340889	GTCAAGCATCACCAAAAGGCA	59.659	47.619	0.00	0.00	0.00	4.75
2628	4863	5.277974	CGCCGATATTCTTTTCATGTGGAAT	60.278	40.000	0.00	2.16	34.91	3.01
2641	4876	9.535878	TTTTCATGTGGAATAAGGTAACAAAAC	57.464	29.630	0.00	0.00	35.03	2.43
2650	4885	6.894339	ATAAGGTAACAAAACTCCCAGTTG	57.106	37.500	0.00	0.00	37.56	3.16
2678	4939	7.598278	TCTTGTCTAGTTCATCTTCTCTGTTC	58.402	38.462	0.00	0.00	0.00	3.18
2715	4981	6.860539	GTGTTTTGTTTTGCCAAATTTGTCTT	59.139	30.769	16.73	0.00	34.50	3.01
2720	4993	8.729805	TTGTTTTGCCAAATTTGTCTTCTAAT	57.270	26.923	16.73	0.00	0.00	1.73
2721	4994	9.823647	TTGTTTTGCCAAATTTGTCTTCTAATA	57.176	25.926	16.73	0.29	0.00	0.98
2725	5002	8.477984	TTGCCAAATTTGTCTTCTAATAATGC	57.522	30.769	16.73	8.49	0.00	3.56
2726	5003	6.751425	TGCCAAATTTGTCTTCTAATAATGCG	59.249	34.615	16.73	0.00	0.00	4.73
2731	5008	9.559958	AAATTTGTCTTCTAATAATGCGTCTTG	57.440	29.630	0.00	0.00	0.00	3.02
2797	5081	1.688197	GAGGGCTCTCAGGAAGATCAG	59.312	57.143	9.30	0.00	39.74	2.90
2810	5094	3.680458	GGAAGATCAGAGAAACCGTGTTC	59.320	47.826	0.00	0.00	0.00	3.18
3039	5334	5.921408	GGTTGAACTTACTCTGTAGTCTGTG	59.079	44.000	0.00	0.00	37.15	3.66
3270	5603	2.103771	CTGCAGTACATGGGAGCAGTAT	59.896	50.000	17.92	0.00	45.57	2.12
3295	5630	0.463620	GCTCCAGAGGTTCCTAGCTG	59.536	60.000	0.00	3.26	30.79	4.24
3425	5790	0.163788	CGTGCTCGTGCCTTTGTAAG	59.836	55.000	7.05	0.00	38.71	2.34
3592	5973	3.608316	TTAGTGGGCCAAAATTGATGC	57.392	42.857	8.40	0.00	0.00	3.91
3595	5976	4.519182	GGCCAAAATTGATGCCCG	57.481	55.556	0.00	0.00	37.94	6.13
3833	6216	3.689347	TGGAGTTGAACTTCCATGGATG	58.311	45.455	22.73	22.73	0.00	3.51
3865	6248	9.270640	GATGAAGACATGAAGTATAGCATTTCT	57.729	33.333	0.00	0.00	36.82	2.52
3869	6252	6.699204	AGACATGAAGTATAGCATTTCTGACG	59.301	38.462	0.00	0.00	32.14	4.35
3933	6316	6.428159	GGGATACAGACCACATACAAATGATC	59.572	42.308	0.00	0.00	35.90	2.92
3934	6317	6.146184	GGATACAGACCACATACAAATGATCG	59.854	42.308	0.00	0.00	36.54	3.69
4107	6491	6.759497	ATATTTTACTTGCCTCCAACTGTC	57.241	37.500	0.00	0.00	0.00	3.51
4118	6502	4.645535	CCTCCAACTGTCAAGATGAAGAA	58.354	43.478	0.00	0.00	0.00	2.52
4122	6506	8.206867	CCTCCAACTGTCAAGATGAAGAATATA	58.793	37.037	0.00	0.00	0.00	0.86
4232	6618	4.475381	TCAGTACCTGGGTATAAATGGCAA	59.525	41.667	2.63	0.00	32.82	4.52

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
449	1114	2.012948	GCTGCAGCTGAAAACGTGC	61.013	57.895	31.33	1.74	38.21	5.34
535	1217	1.698714	CTCACGCAAGCGCATGATGA	61.699	55.000	18.15	16.85	44.19	2.92
696	1411	0.252696	TTGAGAAGCCTCCCCAGCTA	60.253	55.000	0.00	0.00	40.49	3.32
701	1416	2.677848	GGGTTGAGAAGCCTCCCC	59.322	66.667	0.00	0.00	45.51	4.81
710	1431	1.837051	ACAGCTCCGTGGGTTGAGA	60.837	57.895	0.00	0.00	0.00	3.27
814	1964	1.680338	ATGCCCGCCTAAACTTGATC	58.320	50.000	0.00	0.00	0.00	2.92
816	1966	1.917872	AAATGCCCGCCTAAACTTGA	58.082	45.000	0.00	0.00	0.00	3.02
848	2004	3.737172	GGCGTGCGCAACTTCCAT	61.737	61.111	14.00	0.00	44.11	3.41
1035	2239	1.015607	TGTGCATGCGTGTGCTAGAG	61.016	55.000	14.09	0.00	45.27	2.43
1036	2240	0.391528	ATGTGCATGCGTGTGCTAGA	60.392	50.000	14.09	0.00	45.27	2.43
1037	2241	0.247934	CATGTGCATGCGTGTGCTAG	60.248	55.000	14.09	0.00	45.27	3.42
1038	2242	0.673022	TCATGTGCATGCGTGTGCTA	60.673	50.000	14.09	0.00	45.27	3.49
1039	2243	1.310216	ATCATGTGCATGCGTGTGCT	61.310	50.000	14.09	0.00	45.27	4.40
1040	2244	1.137459	CATCATGTGCATGCGTGTGC	61.137	55.000	14.09	4.66	45.25	4.57
1041	2245	0.448593	TCATCATGTGCATGCGTGTG	59.551	50.000	14.09	11.14	38.65	3.82
1042	2246	1.135603	GTTCATCATGTGCATGCGTGT	60.136	47.619	14.09	0.00	38.65	4.49
1043	2247	1.131693	AGTTCATCATGTGCATGCGTG	59.868	47.619	14.09	11.87	38.65	5.34
1044	2248	1.399440	GAGTTCATCATGTGCATGCGT	59.601	47.619	14.09	0.00	38.65	5.24
1045	2249	1.593793	CGAGTTCATCATGTGCATGCG	60.594	52.381	14.09	0.00	38.65	4.73
1046	2250	1.667212	TCGAGTTCATCATGTGCATGC	59.333	47.619	11.82	11.82	38.65	4.06
1134	2349	2.931649	TTCCCCTTCACCCCGTCC	60.932	66.667	0.00	0.00	0.00	4.79
1135	2350	2.181445	GAGTTCCCCTTCACCCCGTC	62.181	65.000	0.00	0.00	0.00	4.79
1136	2351	2.122099	AGTTCCCCTTCACCCCGT	60.122	61.111	0.00	0.00	0.00	5.28
1137	2352	2.669240	GAGTTCCCCTTCACCCCG	59.331	66.667	0.00	0.00	0.00	5.73
1138	2353	2.669240	CGAGTTCCCCTTCACCCC	59.331	66.667	0.00	0.00	0.00	4.95
1139	2354	1.900545	CTCCGAGTTCCCCTTCACCC	61.901	65.000	0.00	0.00	0.00	4.61
1140	2355	1.597461	CTCCGAGTTCCCCTTCACC	59.403	63.158	0.00	0.00	0.00	4.02
1141	2356	1.079057	GCTCCGAGTTCCCCTTCAC	60.079	63.158	0.00	0.00	0.00	3.18
1142	2357	2.291043	GGCTCCGAGTTCCCCTTCA	61.291	63.158	0.00	0.00	0.00	3.02
1143	2358	2.585153	GGCTCCGAGTTCCCCTTC	59.415	66.667	0.00	0.00	0.00	3.46
1360	3159	0.248054	GTGCGTCAACAACACCACAG	60.248	55.000	0.00	0.00	32.73	3.66
1386	3226	1.079127	GCACACATCGGCCTGTACT	60.079	57.895	0.00	0.00	0.00	2.73
1579	3419	6.485313	TCCTGTTTGAATTAACGAGAACACAT	59.515	34.615	0.00	0.00	0.00	3.21
1624	3602	1.473677	TGTAGTCCTGCAATGCAATGC	59.526	47.619	19.99	19.99	46.58	3.56
1625	3603	2.159338	GGTGTAGTCCTGCAATGCAATG	60.159	50.000	9.92	3.58	38.41	2.82
1739	3744	4.063689	AGATGAAGATGTGATCATTCGGC	58.936	43.478	0.00	0.00	36.45	5.54
1781	3786	1.464608	CATGTACCAAGTGAACCAGCG	59.535	52.381	0.00	0.00	0.00	5.18
1961	4001	8.677148	ATTTAAGGGAAAAAGGAAAAGAAAGC	57.323	30.769	0.00	0.00	0.00	3.51
1991	4032	9.545105	TGCTGTTTCAGATTCAAAAACAATAAT	57.455	25.926	13.95	0.00	41.04	1.28
1993	4051	8.980610	CATGCTGTTTCAGATTCAAAAACAATA	58.019	29.630	13.95	8.76	41.04	1.90
1994	4052	7.496591	ACATGCTGTTTCAGATTCAAAAACAAT	59.503	29.630	13.95	6.65	41.04	2.71
1997	4055	6.833342	ACATGCTGTTTCAGATTCAAAAAC	57.167	33.333	0.00	6.86	32.44	2.43
2041	4112	6.095860	TCTGCCAAATTGAGGTAATTCTCATG	59.904	38.462	0.00	0.00	42.57	3.07
2054	4125	8.694581	TCAACATATATGATCTGCCAAATTGA	57.305	30.769	19.63	10.92	0.00	2.57
2158	4231	1.457346	CTGCCCAGCTACTTTCTTGG	58.543	55.000	0.00	0.00	0.00	3.61
2349	4539	7.224753	TCACTGCAAATTAAGTAGGATCGAATC	59.775	37.037	0.00	0.00	0.00	2.52
2466	4694	2.874701	GTCACCATACTCCATGACATGC	59.125	50.000	10.10	0.00	40.95	4.06
2553	4785	1.636988	GCATAAGCAGCTGCCTTTTG	58.363	50.000	34.39	27.51	43.38	2.44
2561	4796	2.123982	GGCTGGGCATAAGCAGCT	60.124	61.111	11.54	0.00	44.61	4.24
2628	4863	5.757988	ACAACTGGGAGTTTTGTTACCTTA	58.242	37.500	0.00	0.00	36.03	2.69
2641	4876	4.962155	ACTAGACAAGAAACAACTGGGAG	58.038	43.478	0.00	0.00	0.00	4.30
2650	4885	7.870445	ACAGAGAAGATGAACTAGACAAGAAAC	59.130	37.037	0.00	0.00	0.00	2.78
2678	4939	6.680758	GCAAAACAAAACACGTGAAAATTAGG	59.319	34.615	25.01	9.59	0.00	2.69
2715	4981	6.148645	TGAAAGCAACAAGACGCATTATTAGA	59.851	34.615	0.00	0.00	0.00	2.10
2720	4993	3.563808	ACTGAAAGCAACAAGACGCATTA	59.436	39.130	0.00	0.00	37.60	1.90
2721	4994	2.358898	ACTGAAAGCAACAAGACGCATT	59.641	40.909	0.00	0.00	37.60	3.56
2725	5002	4.667668	GCTCATACTGAAAGCAACAAGACG	60.668	45.833	0.00	0.00	37.60	4.18
2726	5003	4.214119	TGCTCATACTGAAAGCAACAAGAC	59.786	41.667	0.00	0.00	42.71	3.01
2731	5008	4.756084	AACTGCTCATACTGAAAGCAAC	57.244	40.909	0.00	0.00	44.79	4.17
2754	5031	1.346068	CTTCTCTTCCGATCCCCCATC	59.654	57.143	0.00	0.00	0.00	3.51
2776	5053	1.047801	GATCTTCCTGAGAGCCCTCC	58.952	60.000	0.00	0.00	37.93	4.30
2790	5074	3.071023	TGGAACACGGTTTCTCTGATCTT	59.929	43.478	0.00	0.00	0.00	2.40
2810	5094	0.247460	TGTCGAGATGCTTCCTGTGG	59.753	55.000	0.00	0.00	0.00	4.17
3270	5603	1.988107	AGGAACCTCTGGAGCATTTGA	59.012	47.619	0.00	0.00	0.00	2.69
3295	5630	7.476540	TGTATGTACACCATATATGAGGTCC	57.523	40.000	14.54	3.75	38.29	4.46
3425	5790	7.410800	TCAATTGATTGCAGTCAAATTTGAC	57.589	32.000	34.21	34.21	45.36	3.18
3592	5973	4.039730	AGGATCAGTATCAAATCAGACGGG	59.960	45.833	0.00	0.00	33.41	5.28
3595	5976	6.418057	AGGAGGATCAGTATCAAATCAGAC	57.582	41.667	0.00	0.00	36.25	3.51
3833	6216	7.170658	GCTATACTTCATGTCTTCATCCTGAAC	59.829	40.741	0.00	0.00	32.21	3.18
3847	6230	7.223582	ACTTCGTCAGAAATGCTATACTTCATG	59.776	37.037	0.00	0.00	35.71	3.07
3869	6252	5.511088	TCGCTGTAAATTCGAAAGACTTC	57.489	39.130	0.00	0.00	41.84	3.01
3886	6269	6.071334	TCCCTATTACTATTCTTGGATCGCTG	60.071	42.308	0.00	0.00	0.00	5.18
3916	6299	6.656314	TTGTACGATCATTTGTATGTGGTC	57.344	37.500	0.00	0.00	33.34	4.02
4232	6618	0.395311	CCATCTTCACTGCCTGGCAT	60.395	55.000	23.64	9.78	38.13	4.40

Based at the University of Bristol with support from BBSRC.

AutoCloner maintained by Alex Coulton.