AutoCloner

Multiple sequence alignment - TraesCS5D01G358400

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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	TraesCS5D01G358400	chr5D	100.000	2743	0	0	1	2743	438521832	438519090	0.000000e+00	5066
1	TraesCS5D01G358400	chr5D	84.391	1717	242	16	222	1927	438559120	438557419	0.000000e+00	1663
2	TraesCS5D01G358400	chr5D	81.662	1805	297	27	142	1927	438605328	438603539	0.000000e+00	1469
3	TraesCS5D01G358400	chr5D	81.495	1686	263	30	213	1877	438545227	438543570	0.000000e+00	1339
4	TraesCS5D01G358400	chr5D	82.368	1554	243	21	198	1742	438455282	438453751	0.000000e+00	1323
5	TraesCS5D01G358400	chr5A	92.391	1945	114	16	71	1993	554083402	554081470	0.000000e+00	2741
6	TraesCS5D01G358400	chr5A	79.863	1758	306	31	143	1877	554060589	554058857	0.000000e+00	1242
7	TraesCS5D01G358400	chr5A	80.545	1578	254	43	211	1753	554201378	554199819	0.000000e+00	1164
8	TraesCS5D01G358400	chr5A	87.576	660	70	7	2088	2743	554081272	554080621	0.000000e+00	754
9	TraesCS5D01G358400	chr5B	90.570	1930	147	20	16	1926	533389920	533388007	0.000000e+00	2523
10	TraesCS5D01G358400	chr5B	81.607	1805	296	29	142	1927	533509408	533507621	0.000000e+00	1461
11	TraesCS5D01G358400	chr5B	81.748	1545	230	30	287	1812	533089139	533087628	0.000000e+00	1243
12	TraesCS5D01G358400	chr5B	83.623	1264	176	24	145	1393	533383935	533382688	0.000000e+00	1158
13	TraesCS5D01G358400	chr5B	79.264	1495	252	33	276	1748	533451369	533449911	0.000000e+00	990
14	TraesCS5D01G358400	chrUn	80.776	1649	266	31	146	1778	63292092	63290479	0.000000e+00	1242
15	TraesCS5D01G358400	chr2A	86.408	515	64	5	2079	2588	723828351	723827838	2.390000e-155	558
16	TraesCS5D01G358400	chr2B	86.019	515	66	5	2079	2588	713694954	713694441	5.160000e-152	547
17	TraesCS5D01G358400	chr4A	85.029	521	72	4	2073	2588	684977269	684977788	2.420000e-145	525
18	TraesCS5D01G358400	chr4A	78.682	516	100	8	2079	2587	602863316	602863828	4.380000e-88	335
19	TraesCS5D01G358400	chr2D	83.752	517	74	9	2079	2588	589503429	589502916	5.310000e-132	481
20	TraesCS5D01G358400	chr2D	87.662	154	19	0	2588	2741	589502729	589502576	2.170000e-41	180
21	TraesCS5D01G358400	chr4B	78.876	516	101	6	2078	2587	3785058	3785571	2.620000e-90	342
22	TraesCS5D01G358400	chr4D	78.252	515	95	11	2078	2587	2071175	2071677	5.700000e-82	315
23	TraesCS5D01G358400	chr7D	78.319	452	80	14	2118	2555	624769338	624769785	2.690000e-70	276

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	TraesCS5D01G358400	chr5D	438519090	438521832	2742	True	5066.0	5066	100.0000	1	2743	1	chr5D.!!$R2	2742
1	TraesCS5D01G358400	chr5D	438557419	438559120	1701	True	1663.0	1663	84.3910	222	1927	1	chr5D.!!$R4	1705
2	TraesCS5D01G358400	chr5D	438603539	438605328	1789	True	1469.0	1469	81.6620	142	1927	1	chr5D.!!$R5	1785
3	TraesCS5D01G358400	chr5D	438543570	438545227	1657	True	1339.0	1339	81.4950	213	1877	1	chr5D.!!$R3	1664
4	TraesCS5D01G358400	chr5D	438453751	438455282	1531	True	1323.0	1323	82.3680	198	1742	1	chr5D.!!$R1	1544
5	TraesCS5D01G358400	chr5A	554080621	554083402	2781	True	1747.5	2741	89.9835	71	2743	2	chr5A.!!$R3	2672
6	TraesCS5D01G358400	chr5A	554058857	554060589	1732	True	1242.0	1242	79.8630	143	1877	1	chr5A.!!$R1	1734
7	TraesCS5D01G358400	chr5A	554199819	554201378	1559	True	1164.0	1164	80.5450	211	1753	1	chr5A.!!$R2	1542
8	TraesCS5D01G358400	chr5B	533388007	533389920	1913	True	2523.0	2523	90.5700	16	1926	1	chr5B.!!$R3	1910
9	TraesCS5D01G358400	chr5B	533507621	533509408	1787	True	1461.0	1461	81.6070	142	1927	1	chr5B.!!$R5	1785
10	TraesCS5D01G358400	chr5B	533087628	533089139	1511	True	1243.0	1243	81.7480	287	1812	1	chr5B.!!$R1	1525
11	TraesCS5D01G358400	chr5B	533382688	533383935	1247	True	1158.0	1158	83.6230	145	1393	1	chr5B.!!$R2	1248
12	TraesCS5D01G358400	chr5B	533449911	533451369	1458	True	990.0	990	79.2640	276	1748	1	chr5B.!!$R4	1472
13	TraesCS5D01G358400	chrUn	63290479	63292092	1613	True	1242.0	1242	80.7760	146	1778	1	chrUn.!!$R1	1632
14	TraesCS5D01G358400	chr2A	723827838	723828351	513	True	558.0	558	86.4080	2079	2588	1	chr2A.!!$R1	509
15	TraesCS5D01G358400	chr2B	713694441	713694954	513	True	547.0	547	86.0190	2079	2588	1	chr2B.!!$R1	509
16	TraesCS5D01G358400	chr4A	684977269	684977788	519	False	525.0	525	85.0290	2073	2588	1	chr4A.!!$F2	515
17	TraesCS5D01G358400	chr4A	602863316	602863828	512	False	335.0	335	78.6820	2079	2587	1	chr4A.!!$F1	508
18	TraesCS5D01G358400	chr2D	589502576	589503429	853	True	330.5	481	85.7070	2079	2741	2	chr2D.!!$R1	662
19	TraesCS5D01G358400	chr4B	3785058	3785571	513	False	342.0	342	78.8760	2078	2587	1	chr4B.!!$F1	509
20	TraesCS5D01G358400	chr4D	2071175	2071677	502	False	315.0	315	78.2520	2078	2587	1	chr4D.!!$F1	509

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	End Stability	Orientation
24	25	0.101040	AAGCATGTGTGTGTGTGTGC	59.899	50.000	0.00	4.57	F
63	64	0.714180	TAGAGGGGAGGCCAAGTGTA	59.286	55.000	5.01	2.90	F
610	670	1.067565	TCGCAGTCAAGAGGCTAAGTG	60.068	52.381	0.00	3.16	F
1607	1726	0.859232	CTTCCGTTGTGTTCGTCCTG	59.141	55.000	0.00	3.86	F

Position	MSA Position	Penalty	Sequence	TM	GC	Hairpin	End Stability	Orientation
1542	1661	0.324368	TCCTGGACGCATAGGAGTGT	60.324	55.0	38.15	3.55	R
1589	1708	0.531090	CCAGGACGAACACAACGGAA	60.531	55.0	34.93	4.30	R
1644	1763	0.944311	CGTCGTGCAAAGTAGGCAGT	60.944	55.0	42.85	4.40	R
2710	3158	0.249120	TCTGCTATTGTGGTGGTCCG	59.751	55.0	36.30	4.79	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
22	23	1.405105	GGAAAGCATGTGTGTGTGTGT	59.595	47.619	0.00	0.00	0.00	3.72
24	25	0.101040	AAGCATGTGTGTGTGTGTGC	59.899	50.000	0.00	0.00	0.00	4.57
50	51	3.130516	TGTGTGCGAGTTCTATTAGAGGG	59.869	47.826	0.00	0.00	0.00	4.30
55	56	2.559231	CGAGTTCTATTAGAGGGGAGGC	59.441	54.545	0.00	0.00	0.00	4.70
63	64	0.714180	TAGAGGGGAGGCCAAGTGTA	59.286	55.000	5.01	0.00	0.00	2.90
69	70	2.233676	GGGGAGGCCAAGTGTATTTTTG	59.766	50.000	5.01	0.00	0.00	2.44
81	82	6.320494	AGTGTATTTTTGAAACATGCGGTA	57.680	33.333	0.00	0.00	0.00	4.02
120	125	3.006967	ACTGATAGCCATATTGTCCGGTC	59.993	47.826	0.00	0.00	0.00	4.79
122	127	3.646162	TGATAGCCATATTGTCCGGTCTT	59.354	43.478	0.00	0.00	0.00	3.01
185	202	6.271488	TGCAAGTTCATAAAGGAATGGAAG	57.729	37.500	0.00	0.00	0.00	3.46
273	301	2.354821	GAGGGAACATGACAATAACCGC	59.645	50.000	0.00	0.00	0.00	5.68
297	325	5.470368	GTGGGAGCAGGAAAGAATAAAAAC	58.530	41.667	0.00	0.00	0.00	2.43
358	386	4.598036	ACATCTCATGAACTTGGGGAAT	57.402	40.909	0.00	0.00	0.00	3.01
501	531	6.695278	AGGTAATTTGTTCAACACACAATTCG	59.305	34.615	2.56	0.00	33.98	3.34
583	643	3.077088	TCTCTAGGGACTGTTAGGTGGTT	59.923	47.826	0.00	0.00	41.52	3.67
610	670	1.067565	TCGCAGTCAAGAGGCTAAGTG	60.068	52.381	0.00	0.00	0.00	3.16
615	675	2.028567	AGTCAAGAGGCTAAGTGCAGAC	60.029	50.000	0.00	0.00	45.15	3.51
617	677	2.028658	TCAAGAGGCTAAGTGCAGACTG	60.029	50.000	0.00	0.00	45.15	3.51
768	828	6.410540	ACCAAACAAGAGCTTAGATTCTAGG	58.589	40.000	0.00	0.00	0.00	3.02
987	1059	7.036863	AGGGACCTCAAAGTTGGAAATATCTTA	60.037	37.037	0.00	0.00	0.00	2.10
1016	1088	6.479972	TGTCGATATGAAACCCAAGATAGT	57.520	37.500	0.00	0.00	0.00	2.12
1098	1170	5.221067	CGTAGTTGGCACATAGTGAGTATCT	60.221	44.000	0.58	0.00	39.30	1.98
1099	1171	5.016051	AGTTGGCACATAGTGAGTATCTG	57.984	43.478	0.58	0.00	39.30	2.90
1224	1304	4.685575	GCAATGGAAGGCATCTTCTCTACT	60.686	45.833	6.16	0.00	46.42	2.57
1288	1368	6.596888	GGTTGTAACTGGTATAAGGAGAAACC	59.403	42.308	0.00	0.00	39.35	3.27
1491	1610	1.617357	AGACCAACGAACTACCAGACC	59.383	52.381	0.00	0.00	0.00	3.85
1542	1661	3.067461	AGTTTTGCTTTGCGTCCATGTAA	59.933	39.130	0.00	0.00	0.00	2.41
1576	1695	3.456277	GTCCAGGAGAACCCAGATAACAT	59.544	47.826	0.00	0.00	37.41	2.71
1607	1726	0.859232	CTTCCGTTGTGTTCGTCCTG	59.141	55.000	0.00	0.00	0.00	3.86
1644	1763	0.402504	ACTTACAACCCCCAATCGCA	59.597	50.000	0.00	0.00	0.00	5.10
1703	1825	9.956720	AATCAAATAAGAAATATTCAGCCTTCG	57.043	29.630	0.00	0.00	32.96	3.79
1858	1998	6.291377	AGTGATGTATCTTGTGTTGTTCAGT	58.709	36.000	0.00	0.00	0.00	3.41
1860	2000	7.041780	AGTGATGTATCTTGTGTTGTTCAGTTC	60.042	37.037	0.00	0.00	0.00	3.01
1894	2039	9.904647	CTTTGAATGTGTTTTGTATTCTGTTTG	57.095	29.630	0.00	0.00	33.21	2.93
1899	2045	5.105752	GTGTTTTGTATTCTGTTTGTGCCA	58.894	37.500	0.00	0.00	0.00	4.92
1900	2046	5.578727	GTGTTTTGTATTCTGTTTGTGCCAA	59.421	36.000	0.00	0.00	0.00	4.52
1909	2055	6.588719	TTCTGTTTGTGCCAAAATATAGCT	57.411	33.333	0.00	0.00	0.00	3.32
1981	2127	3.122613	GCAGTCTCACGATCTTTGAAGTG	59.877	47.826	0.00	0.00	36.06	3.16
1990	2136	2.325583	TCTTTGAAGTGGCGTTCTGT	57.674	45.000	1.66	0.00	0.00	3.41
1991	2137	1.939934	TCTTTGAAGTGGCGTTCTGTG	59.060	47.619	1.66	0.00	0.00	3.66
1992	2138	1.670811	CTTTGAAGTGGCGTTCTGTGT	59.329	47.619	1.66	0.00	0.00	3.72
1993	2139	2.605837	TTGAAGTGGCGTTCTGTGTA	57.394	45.000	1.66	0.00	0.00	2.90
1994	2140	2.605837	TGAAGTGGCGTTCTGTGTAA	57.394	45.000	1.66	0.00	0.00	2.41
1995	2141	2.479837	TGAAGTGGCGTTCTGTGTAAG	58.520	47.619	1.66	0.00	0.00	2.34
1996	2142	2.159014	TGAAGTGGCGTTCTGTGTAAGT	60.159	45.455	1.66	0.00	0.00	2.24
1998	2144	3.022607	AGTGGCGTTCTGTGTAAGTAC	57.977	47.619	0.00	0.00	0.00	2.73
1999	2145	2.626743	AGTGGCGTTCTGTGTAAGTACT	59.373	45.455	0.00	0.00	0.00	2.73
2000	2146	2.729882	GTGGCGTTCTGTGTAAGTACTG	59.270	50.000	0.00	0.00	0.00	2.74
2001	2147	2.288579	TGGCGTTCTGTGTAAGTACTGG	60.289	50.000	0.00	0.00	0.00	4.00
2002	2148	2.029649	GGCGTTCTGTGTAAGTACTGGA	60.030	50.000	0.00	0.00	0.00	3.86
2003	2149	3.368116	GGCGTTCTGTGTAAGTACTGGAT	60.368	47.826	0.00	0.00	0.00	3.41
2004	2150	4.142315	GGCGTTCTGTGTAAGTACTGGATA	60.142	45.833	0.00	0.00	0.00	2.59
2005	2151	5.451520	GGCGTTCTGTGTAAGTACTGGATAT	60.452	44.000	0.00	0.00	0.00	1.63
2007	2153	6.534079	GCGTTCTGTGTAAGTACTGGATATTT	59.466	38.462	0.00	0.00	0.00	1.40
2009	2155	9.017669	CGTTCTGTGTAAGTACTGGATATTTAC	57.982	37.037	0.00	0.00	36.80	2.01
2038	2252	5.762179	AGAGGTCATAATCCACACTTCAA	57.238	39.130	0.00	0.00	0.00	2.69
2043	2257	8.319057	AGGTCATAATCCACACTTCAATACTA	57.681	34.615	0.00	0.00	0.00	1.82
2044	2258	8.768397	AGGTCATAATCCACACTTCAATACTAA	58.232	33.333	0.00	0.00	0.00	2.24
2045	2259	9.391006	GGTCATAATCCACACTTCAATACTAAA	57.609	33.333	0.00	0.00	0.00	1.85
2316	2573	3.352338	GACCTGTTCCGATCGCCGT	62.352	63.158	10.32	0.00	36.31	5.68
2318	2575	2.582498	CTGTTCCGATCGCCGTCC	60.582	66.667	10.32	0.00	36.31	4.79
2319	2576	3.350909	CTGTTCCGATCGCCGTCCA	62.351	63.158	10.32	0.48	36.31	4.02
2320	2577	2.582498	GTTCCGATCGCCGTCCAG	60.582	66.667	10.32	0.00	36.31	3.86
2321	2578	3.833645	TTCCGATCGCCGTCCAGG	61.834	66.667	10.32	0.00	44.97	4.45
2386	2646	2.835431	CGAGGAGATCCAGCCCGT	60.835	66.667	0.92	0.00	38.89	5.28
2404	2664	2.183300	GTGCAGGACCATCGCGTA	59.817	61.111	5.77	0.00	0.00	4.42
2411	2671	1.027357	GGACCATCGCGTAGGAGTAA	58.973	55.000	22.65	0.00	0.00	2.24
2435	2696	4.655647	CTGGTGCACAGCTGGGCT	62.656	66.667	38.67	5.92	46.62	5.19
2542	2803	1.295423	CCACTACAACCCGTCCTGG	59.705	63.158	0.00	0.00	37.55	4.45
2643	3091	2.347490	GTGGCCTGCTTCTTCCGA	59.653	61.111	3.32	0.00	0.00	4.55

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
0	1	2.099592	CACACACACACATGCTTTCCTT	59.900	45.455	0.00	0.00	0.00	3.36
1	2	1.677576	CACACACACACATGCTTTCCT	59.322	47.619	0.00	0.00	0.00	3.36
2	3	1.405105	ACACACACACACATGCTTTCC	59.595	47.619	0.00	0.00	0.00	3.13
3	4	2.453080	CACACACACACACATGCTTTC	58.547	47.619	0.00	0.00	0.00	2.62
4	5	1.469595	GCACACACACACACATGCTTT	60.470	47.619	0.00	0.00	0.00	3.51
5	6	0.101040	GCACACACACACACATGCTT	59.899	50.000	0.00	0.00	0.00	3.91
6	7	1.729276	GCACACACACACACATGCT	59.271	52.632	0.00	0.00	0.00	3.79
7	8	1.655046	CGCACACACACACACATGC	60.655	57.895	0.00	0.00	0.00	4.06
8	9	1.655046	GCGCACACACACACACATG	60.655	57.895	0.30	0.00	0.00	3.21
9	10	2.715005	GCGCACACACACACACAT	59.285	55.556	0.30	0.00	0.00	3.21
10	11	3.858989	CGCGCACACACACACACA	61.859	61.111	8.75	0.00	0.00	3.72
11	12	3.860125	ACGCGCACACACACACAC	61.860	61.111	5.73	0.00	0.00	3.82
12	13	3.858989	CACGCGCACACACACACA	61.859	61.111	5.73	0.00	0.00	3.72
13	14	3.860125	ACACGCGCACACACACAC	61.860	61.111	5.73	0.00	0.00	3.82
14	15	3.858989	CACACGCGCACACACACA	61.859	61.111	5.73	0.00	0.00	3.72
35	36	2.901192	GGCCTCCCCTCTAATAGAACTC	59.099	54.545	0.00	0.00	0.00	3.01
36	37	2.250273	TGGCCTCCCCTCTAATAGAACT	59.750	50.000	3.32	0.00	0.00	3.01
37	38	2.690840	TGGCCTCCCCTCTAATAGAAC	58.309	52.381	3.32	0.00	0.00	3.01
38	39	3.311402	ACTTGGCCTCCCCTCTAATAGAA	60.311	47.826	3.32	0.00	0.00	2.10
39	40	2.250273	ACTTGGCCTCCCCTCTAATAGA	59.750	50.000	3.32	0.00	0.00	1.98
40	41	2.370189	CACTTGGCCTCCCCTCTAATAG	59.630	54.545	3.32	0.00	0.00	1.73
50	51	4.864704	TTCAAAAATACACTTGGCCTCC	57.135	40.909	3.32	0.00	0.00	4.30
55	56	5.107530	CCGCATGTTTCAAAAATACACTTGG	60.108	40.000	0.00	0.00	0.00	3.61
63	64	5.537188	ACACATACCGCATGTTTCAAAAAT	58.463	33.333	0.00	0.00	46.01	1.82
69	70	4.794169	AGAAAACACATACCGCATGTTTC	58.206	39.130	2.35	2.06	46.01	2.78
81	82	7.066284	GGCTATCAGTTGACATAGAAAACACAT	59.934	37.037	0.00	0.00	0.00	3.21
120	125	3.052036	CAAGCCACGTCAAAATTCCAAG	58.948	45.455	0.00	0.00	0.00	3.61
122	127	2.028130	ACAAGCCACGTCAAAATTCCA	58.972	42.857	0.00	0.00	0.00	3.53
273	301	2.691409	TATTCTTTCCTGCTCCCACG	57.309	50.000	0.00	0.00	0.00	4.94
297	325	8.674263	ATCTTATAATCTTGTGCTTTCTCCAG	57.326	34.615	0.00	0.00	0.00	3.86
358	386	6.829985	TTCCTGATCATGAGGAGGATTTTA	57.170	37.500	20.86	8.07	40.79	1.52
583	643	1.067565	CCTCTTGACTGCGACTTGCTA	60.068	52.381	0.00	0.00	46.63	3.49
610	670	2.288666	TGTTCCTTGTTGACAGTCTGC	58.711	47.619	1.31	0.00	0.00	4.26
615	675	7.035004	TGAATTCTTTTGTTCCTTGTTGACAG	58.965	34.615	7.05	0.00	0.00	3.51
617	677	6.476706	CCTGAATTCTTTTGTTCCTTGTTGAC	59.523	38.462	7.05	0.00	0.00	3.18
987	1059	5.047566	TGGGTTTCATATCGACATCCAAT	57.952	39.130	0.00	0.00	0.00	3.16
1016	1088	1.562008	TCCTCGCCATACCAAAATCCA	59.438	47.619	0.00	0.00	0.00	3.41
1224	1304	5.048643	GCCGAAGCTATAGACATCAGACTTA	60.049	44.000	3.21	0.00	35.50	2.24
1491	1610	6.212187	TCTGGTGAAGTATCTATGATGGATGG	59.788	42.308	1.17	0.00	0.00	3.51
1542	1661	0.324368	TCCTGGACGCATAGGAGTGT	60.324	55.000	0.00	0.00	38.15	3.55
1576	1695	0.608856	AACGGAAGACATGCATGGCA	60.609	50.000	33.44	0.00	44.86	4.92
1589	1708	0.531090	CCAGGACGAACACAACGGAA	60.531	55.000	0.00	0.00	34.93	4.30
1644	1763	0.944311	CGTCGTGCAAAGTAGGCAGT	60.944	55.000	0.00	0.00	42.85	4.40
1703	1825	6.258507	TCTCGGTAAAAGTAAAACTGTTGACC	59.741	38.462	0.00	0.00	26.94	4.02
1845	1985	3.591023	TCGTGAGAACTGAACAACACAA	58.409	40.909	0.00	0.00	37.03	3.33
1860	2000	6.201517	ACAAAACACATTCAAAGATCGTGAG	58.798	36.000	0.00	0.00	0.00	3.51
1894	2039	4.878397	ACTGAGACAGCTATATTTTGGCAC	59.122	41.667	0.00	0.00	34.37	5.01
1944	2090	9.411801	TCGTGAGACTGCTATATTCATATTTTC	57.588	33.333	0.00	0.00	33.31	2.29
1981	2127	2.029649	TCCAGTACTTACACAGAACGCC	60.030	50.000	0.00	0.00	0.00	5.68
2009	2155	9.838339	AAGTGTGGATTATGACCTCTAAATAAG	57.162	33.333	0.00	0.00	0.00	1.73
2047	2261	8.366401	CAGGAGATGATACATCACTAATTCACT	58.634	37.037	13.06	0.00	40.03	3.41
2048	2262	7.117523	GCAGGAGATGATACATCACTAATTCAC	59.882	40.741	13.06	0.00	40.03	3.18
2049	2263	7.015974	AGCAGGAGATGATACATCACTAATTCA	59.984	37.037	13.06	0.00	40.03	2.57
2050	2264	7.385267	AGCAGGAGATGATACATCACTAATTC	58.615	38.462	13.06	2.37	40.03	2.17
2053	2310	5.048434	CGAGCAGGAGATGATACATCACTAA	60.048	44.000	13.06	0.00	40.03	2.24
2056	2313	3.005261	ACGAGCAGGAGATGATACATCAC	59.995	47.826	13.06	7.39	40.03	3.06
2063	2320	4.093472	AGTAGTACGAGCAGGAGATGAT	57.907	45.455	0.00	0.00	0.00	2.45
2069	2326	4.437239	GTGTAGTAGTAGTACGAGCAGGA	58.563	47.826	9.99	0.00	33.97	3.86
2070	2327	3.559242	GGTGTAGTAGTAGTACGAGCAGG	59.441	52.174	9.99	0.00	33.97	4.85
2071	2328	4.186926	TGGTGTAGTAGTAGTACGAGCAG	58.813	47.826	9.99	0.00	33.97	4.24
2184	2441	1.800286	CGCGAGCATCTCTGACATGAA	60.800	52.381	0.00	0.00	0.00	2.57
2213	2470	1.815421	CGGCTCCTCATGAAACCCG	60.815	63.158	0.00	3.20	0.00	5.28
2216	2473	2.464459	CGCCGGCTCCTCATGAAAC	61.464	63.158	26.68	0.00	0.00	2.78
2243	2500	2.355986	CCGGCTGTAGTAGGGTGCA	61.356	63.158	0.00	0.00	0.00	4.57
2246	2503	1.380920	GTCCCGGCTGTAGTAGGGT	60.381	63.158	0.00	0.00	44.13	4.34
2327	2584	1.336440	TCGCCATGAACAAGGTGTTTG	59.664	47.619	8.97	0.00	41.28	2.93
2328	2585	1.336755	GTCGCCATGAACAAGGTGTTT	59.663	47.619	8.97	0.00	41.28	2.83
2386	2646	2.557059	CTACGCGATGGTCCTGCACA	62.557	60.000	15.93	0.00	0.00	4.57
2404	2664	1.065126	GCACCAGCCTCATTTACTCCT	60.065	52.381	0.00	0.00	33.58	3.69
2411	2671	4.410225	CTGTGCACCAGCCTCATT	57.590	55.556	15.69	0.00	41.13	2.57
2542	2803	2.222217	CGTTACGTGCGGCTCTAGC	61.222	63.158	0.00	0.00	41.14	3.42
2555	2816	3.899395	GGTGGTGCCCATCGTTAC	58.101	61.111	0.00	0.00	35.28	2.50
2578	2839	4.308458	CACGCGGTGGGGTCAGAA	62.308	66.667	12.47	0.00	37.19	3.02
2618	3066	2.527951	GAAGCAGGCCACGGAGACAT	62.528	60.000	5.01	0.00	0.00	3.06
2707	3155	1.024579	GCTATTGTGGTGGTCCGGTG	61.025	60.000	0.00	0.00	36.30	4.94
2710	3158	0.249120	TCTGCTATTGTGGTGGTCCG	59.751	55.000	0.00	0.00	36.30	4.79
2714	3162	1.376543	CAGCTCTGCTATTGTGGTGG	58.623	55.000	0.00	0.00	36.40	4.61

Based at the University of Bristol with support from BBSRC.

AutoCloner maintained by Alex Coulton.