AutoCloner

Multiple sequence alignment - TraesCS1B01G199800

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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	TraesCS1B01G199800	chr1B	100.000	2264	0	0	1	2264	357902161	357899898	0.000000e+00	4181.0
1	TraesCS1B01G199800	chr1B	91.155	1074	78	8	659	1718	623645811	623646881	0.000000e+00	1441.0
2	TraesCS1B01G199800	chr1B	94.393	428	23	1	1838	2264	649299434	649299007	0.000000e+00	656.0
3	TraesCS1B01G199800	chr1B	96.447	394	14	0	1817	2210	550438223	550437830	0.000000e+00	651.0
4	TraesCS1B01G199800	chr1B	92.857	84	6	0	2181	2264	38185305	38185388	3.050000e-24	122.0
5	TraesCS1B01G199800	chr1B	98.333	60	1	0	1724	1783	357900494	357900435	3.080000e-19	106.0
6	TraesCS1B01G199800	chr5B	93.949	2198	104	22	1	2174	454660906	454663098	0.000000e+00	3295.0
7	TraesCS1B01G199800	chr5B	92.046	1735	125	7	1	1730	548566795	548565069	0.000000e+00	2427.0
8	TraesCS1B01G199800	chr5B	96.203	395	15	0	1816	2210	530938958	530938564	0.000000e+00	647.0
9	TraesCS1B01G199800	chr5B	78.022	455	65	22	1538	1971	16030060	16030500	1.040000e-63	254.0
10	TraesCS1B01G199800	chr5B	94.048	84	5	0	2181	2264	433000600	433000517	6.560000e-26	128.0
11	TraesCS1B01G199800	chr5B	92.857	84	6	0	2181	2264	471293021	471292938	3.050000e-24	122.0
12	TraesCS1B01G199800	chr5B	98.333	60	1	0	1724	1783	658085769	658085828	3.080000e-19	106.0
13	TraesCS1B01G199800	chr5B	96.667	60	2	0	1724	1783	426534430	426534489	1.430000e-17	100.0
14	TraesCS1B01G199800	chr6B	98.122	1810	34	0	1	1810	650646695	650644886	0.000000e+00	3155.0
15	TraesCS1B01G199800	chr6B	97.633	1732	39	1	1	1730	687514429	687512698	0.000000e+00	2970.0
16	TraesCS1B01G199800	chr6B	97.171	1732	46	2	1	1730	661051615	661053345	0.000000e+00	2924.0
17	TraesCS1B01G199800	chr6B	96.363	1732	50	6	1	1730	114144823	114143103	0.000000e+00	2837.0
18	TraesCS1B01G199800	chr6B	84.615	169	8	4	2096	2264	661053523	661053673	3.890000e-33	152.0
19	TraesCS1B01G199800	chr6B	96.667	60	2	0	1724	1783	650645028	650644969	1.430000e-17	100.0
20	TraesCS1B01G199800	chr6A	95.490	1818	67	10	1	1809	74992223	74990412	0.000000e+00	2889.0
21	TraesCS1B01G199800	chr2B	95.843	1732	64	3	1	1730	154585535	154583810	0.000000e+00	2793.0
22	TraesCS1B01G199800	chr2B	93.710	1733	99	5	1	1730	47387777	47386052	0.000000e+00	2588.0
23	TraesCS1B01G199800	chr2B	94.420	448	25	0	1817	2264	45597854	45598301	0.000000e+00	689.0
24	TraesCS1B01G199800	chr2B	95.939	394	16	0	1817	2210	153866968	153867361	6.820000e-180	640.0
25	TraesCS1B01G199800	chr2B	93.069	101	7	0	2164	2264	770083417	770083317	5.040000e-32	148.0
26	TraesCS1B01G199800	chr7B	93.621	1740	99	8	1	1730	27326584	27328321	0.000000e+00	2588.0
27	TraesCS1B01G199800	chr7B	86.129	310	20	7	1978	2264	577213230	577213539	1.690000e-81	313.0
28	TraesCS1B01G199800	chr7B	85.799	169	15	4	2096	2264	707571047	707570888	1.080000e-38	171.0
29	TraesCS1B01G199800	chr7B	96.875	32	1	0	1779	1810	102654357	102654388	1.000000e-03	54.7
30	TraesCS1B01G199800	chr7B	100.000	29	0	0	1782	1810	133430906	133430878	1.000000e-03	54.7
31	TraesCS1B01G199800	chr7B	100.000	29	0	0	1782	1810	235456347	235456319	1.000000e-03	54.7
32	TraesCS1B01G199800	chr3B	94.261	1603	89	3	1	1602	16203482	16201882	0.000000e+00	2447.0
33	TraesCS1B01G199800	chr3B	96.667	60	2	0	1724	1783	393330736	393330795	1.430000e-17	100.0
34	TraesCS1B01G199800	chrUn	95.884	413	17	0	1852	2264	17580370	17580782	0.000000e+00	669.0
35	TraesCS1B01G199800	chrUn	93.458	428	27	1	1838	2264	361055983	361055556	3.170000e-178	634.0
36	TraesCS1B01G199800	chr4A	95.970	397	15	1	1815	2210	712879384	712879780	0.000000e+00	643.0
37	TraesCS1B01G199800	chr4A	95.000	60	3	0	1724	1783	712879145	712879204	6.660000e-16	95.3
38	TraesCS1B01G199800	chr4A	92.157	51	4	0	2214	2264	698021626	698021576	3.120000e-09	73.1
39	TraesCS1B01G199800	chr7A	93.458	428	27	1	1838	2264	497717644	497717217	3.170000e-178	634.0
40	TraesCS1B01G199800	chr7D	90.167	478	40	6	1257	1730	21073387	21072913	1.150000e-172	616.0
41	TraesCS1B01G199800	chr4B	89.456	294	23	5	1979	2264	469021309	469021016	4.600000e-97	364.0
42	TraesCS1B01G199800	chr2A	94.048	84	5	0	2181	2264	148613372	148613289	6.560000e-26	128.0
43	TraesCS1B01G199800	chr5A	100.000	29	0	0	2219	2247	323373539	323373567	1.000000e-03	54.7

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	TraesCS1B01G199800	chr1B	357899898	357902161	2263	True	2143.50	4181	99.1665	1	2264	2	chr1B.!!$R3	2263
1	TraesCS1B01G199800	chr1B	623645811	623646881	1070	False	1441.00	1441	91.1550	659	1718	1	chr1B.!!$F2	1059
2	TraesCS1B01G199800	chr5B	454660906	454663098	2192	False	3295.00	3295	93.9490	1	2174	1	chr5B.!!$F3	2173
3	TraesCS1B01G199800	chr5B	548565069	548566795	1726	True	2427.00	2427	92.0460	1	1730	1	chr5B.!!$R4	1729
4	TraesCS1B01G199800	chr6B	687512698	687514429	1731	True	2970.00	2970	97.6330	1	1730	1	chr6B.!!$R2	1729
5	TraesCS1B01G199800	chr6B	114143103	114144823	1720	True	2837.00	2837	96.3630	1	1730	1	chr6B.!!$R1	1729
6	TraesCS1B01G199800	chr6B	650644886	650646695	1809	True	1627.50	3155	97.3945	1	1810	2	chr6B.!!$R3	1809
7	TraesCS1B01G199800	chr6B	661051615	661053673	2058	False	1538.00	2924	90.8930	1	2264	2	chr6B.!!$F1	2263
8	TraesCS1B01G199800	chr6A	74990412	74992223	1811	True	2889.00	2889	95.4900	1	1809	1	chr6A.!!$R1	1808
9	TraesCS1B01G199800	chr2B	154583810	154585535	1725	True	2793.00	2793	95.8430	1	1730	1	chr2B.!!$R2	1729
10	TraesCS1B01G199800	chr2B	47386052	47387777	1725	True	2588.00	2588	93.7100	1	1730	1	chr2B.!!$R1	1729
11	TraesCS1B01G199800	chr7B	27326584	27328321	1737	False	2588.00	2588	93.6210	1	1730	1	chr7B.!!$F1	1729
12	TraesCS1B01G199800	chr3B	16201882	16203482	1600	True	2447.00	2447	94.2610	1	1602	1	chr3B.!!$R1	1601
13	TraesCS1B01G199800	chr4A	712879145	712879780	635	False	369.15	643	95.4850	1724	2210	2	chr4A.!!$F1	486

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
584	585	2.036475	GAGGAAGCACAAGTGTCAGAGA	59.964	50.0	1.79	0.0	0.0	3.1	F

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability	Orientation
2123	2482	0.096108	GCGAGCAAAGCAAGCTAGAC	59.904	55.0	8.81	0.0	43.58	2.59	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
584	585	2.036475	GAGGAAGCACAAGTGTCAGAGA	59.964	50.000	1.79	0.00	0.00	3.10
1161	1178	1.046472	TGAAGGTGTCCACTGACCGT	61.046	55.000	0.00	0.00	41.01	4.83
1534	1553	1.494721	AGGGCACACAAAGAGAAGGAA	59.505	47.619	0.00	0.00	0.00	3.36
1536	1555	2.487265	GGGCACACAAAGAGAAGGAAGA	60.487	50.000	0.00	0.00	0.00	2.87
1576	1595	0.668535	GAAAACTTGCAAGGGCTCGT	59.331	50.000	29.18	6.16	41.91	4.18
1594	1613	0.749649	GTGATGCACGAGAGGAGGAT	59.250	55.000	0.00	0.00	0.00	3.24
1661	1683	3.561120	AATGGAAAGGCACCGGCGA	62.561	57.895	9.30	0.00	42.47	5.54
1733	1757	2.172505	ACCTTGTGTCCATGAACTGTCA	59.827	45.455	0.00	0.00	38.41	3.58
1811	1840	7.686438	TTGAGATTATGTGCAAACTATGTGT	57.314	32.000	0.00	0.00	0.00	3.72
1860	1982	2.378445	GTGTGCAAAAACACCAGGTT	57.622	45.000	0.00	0.00	43.84	3.50
2058	2417	1.123077	AAGCTGTCTGGTGTGTCTGA	58.877	50.000	0.00	0.00	0.00	3.27
2059	2418	1.346062	AGCTGTCTGGTGTGTCTGAT	58.654	50.000	0.00	0.00	0.00	2.90
2060	2419	1.001746	AGCTGTCTGGTGTGTCTGATG	59.998	52.381	0.00	0.00	0.00	3.07
2061	2420	1.943046	GCTGTCTGGTGTGTCTGATGG	60.943	57.143	0.00	0.00	0.00	3.51
2062	2421	1.620323	CTGTCTGGTGTGTCTGATGGA	59.380	52.381	0.00	0.00	0.00	3.41
2063	2422	1.344438	TGTCTGGTGTGTCTGATGGAC	59.656	52.381	0.00	0.00	44.70	4.02
2076	2435	3.164977	TGGACACCCAGACGCCAA	61.165	61.111	0.00	0.00	37.58	4.52
2077	2436	2.358737	GGACACCCAGACGCCAAG	60.359	66.667	0.00	0.00	0.00	3.61
2078	2437	2.358737	GACACCCAGACGCCAAGG	60.359	66.667	0.00	0.00	0.00	3.61
2079	2438	3.168528	ACACCCAGACGCCAAGGT	61.169	61.111	0.00	0.00	0.00	3.50
2080	2439	2.358737	CACCCAGACGCCAAGGTC	60.359	66.667	0.00	0.00	37.19	3.85
2081	2440	3.637273	ACCCAGACGCCAAGGTCC	61.637	66.667	0.00	0.00	37.66	4.46
2082	2441	3.636231	CCCAGACGCCAAGGTCCA	61.636	66.667	0.00	0.00	37.66	4.02
2083	2442	2.671070	CCAGACGCCAAGGTCCAT	59.329	61.111	0.00	0.00	37.66	3.41
2084	2443	1.746615	CCAGACGCCAAGGTCCATG	60.747	63.158	0.00	0.00	37.66	3.66
2085	2444	1.746615	CAGACGCCAAGGTCCATGG	60.747	63.158	8.90	8.90	41.08	3.66
2090	2449	2.671070	CCAAGGTCCATGGCGTCT	59.329	61.111	6.96	0.87	0.00	4.18
2091	2450	1.746615	CCAAGGTCCATGGCGTCTG	60.747	63.158	6.96	1.76	0.00	3.51
2092	2451	2.045926	AAGGTCCATGGCGTCTGC	60.046	61.111	6.96	0.00	41.71	4.26
2103	2462	4.394712	CGTCTGCCTCCCACACCC	62.395	72.222	0.00	0.00	0.00	4.61
2104	2463	3.249189	GTCTGCCTCCCACACCCA	61.249	66.667	0.00	0.00	0.00	4.51
2105	2464	2.930019	TCTGCCTCCCACACCCAG	60.930	66.667	0.00	0.00	0.00	4.45
2106	2465	2.930019	CTGCCTCCCACACCCAGA	60.930	66.667	0.00	0.00	0.00	3.86
2107	2466	3.249189	TGCCTCCCACACCCAGAC	61.249	66.667	0.00	0.00	0.00	3.51
2108	2467	4.394712	GCCTCCCACACCCAGACG	62.395	72.222	0.00	0.00	0.00	4.18
2109	2468	4.394712	CCTCCCACACCCAGACGC	62.395	72.222	0.00	0.00	0.00	5.19
2110	2469	4.394712	CTCCCACACCCAGACGCC	62.395	72.222	0.00	0.00	0.00	5.68
2112	2471	4.704833	CCCACACCCAGACGCCAG	62.705	72.222	0.00	0.00	0.00	4.85
2113	2472	4.704833	CCACACCCAGACGCCAGG	62.705	72.222	0.00	0.00	0.00	4.45
2129	2488	1.306226	AGGGACCCTGGTGTCTAGC	60.306	63.158	13.95	0.58	35.54	3.42
2130	2489	1.306226	GGGACCCTGGTGTCTAGCT	60.306	63.158	2.09	0.00	35.54	3.32
2131	2490	0.910088	GGGACCCTGGTGTCTAGCTT	60.910	60.000	2.09	0.00	35.54	3.74
2132	2491	0.250513	GGACCCTGGTGTCTAGCTTG	59.749	60.000	12.89	0.00	35.54	4.01
2133	2492	0.391793	GACCCTGGTGTCTAGCTTGC	60.392	60.000	0.00	0.00	32.39	4.01
2134	2493	0.838122	ACCCTGGTGTCTAGCTTGCT	60.838	55.000	0.00	0.00	0.00	3.91
2135	2494	0.326264	CCCTGGTGTCTAGCTTGCTT	59.674	55.000	0.00	0.00	0.00	3.91
2136	2495	1.271597	CCCTGGTGTCTAGCTTGCTTT	60.272	52.381	0.00	0.00	0.00	3.51
2137	2496	1.808945	CCTGGTGTCTAGCTTGCTTTG	59.191	52.381	0.00	0.00	0.00	2.77
2138	2497	1.198637	CTGGTGTCTAGCTTGCTTTGC	59.801	52.381	0.00	0.00	0.00	3.68
2139	2498	1.202806	TGGTGTCTAGCTTGCTTTGCT	60.203	47.619	0.00	4.36	43.79	3.91
2140	2499	1.466558	GGTGTCTAGCTTGCTTTGCTC	59.533	52.381	0.00	0.00	41.46	4.26
2141	2500	1.127582	GTGTCTAGCTTGCTTTGCTCG	59.872	52.381	0.00	0.00	41.46	5.03
2142	2501	0.096108	GTCTAGCTTGCTTTGCTCGC	59.904	55.000	0.00	0.00	41.46	5.03
2143	2502	1.059994	CTAGCTTGCTTTGCTCGCG	59.940	57.895	0.00	0.00	41.46	5.87
2144	2503	2.893114	CTAGCTTGCTTTGCTCGCGC	62.893	60.000	0.00	0.00	41.46	6.86
2145	2504	4.688419	GCTTGCTTTGCTCGCGCA	62.688	61.111	8.75	0.00	46.24	6.09
2155	2514	4.056125	CTCGCGCAGGTGACCAGA	62.056	66.667	8.75	0.00	0.00	3.86
2156	2515	4.357947	TCGCGCAGGTGACCAGAC	62.358	66.667	8.75	0.00	0.00	3.51
2157	2516	4.662961	CGCGCAGGTGACCAGACA	62.663	66.667	8.75	0.00	0.00	3.41
2158	2517	2.280797	GCGCAGGTGACCAGACAA	60.281	61.111	3.63	0.00	0.00	3.18
2159	2518	2.320587	GCGCAGGTGACCAGACAAG	61.321	63.158	3.63	0.00	0.00	3.16
2160	2519	2.320587	CGCAGGTGACCAGACAAGC	61.321	63.158	3.63	0.00	0.00	4.01
2161	2520	1.072159	GCAGGTGACCAGACAAGCT	59.928	57.895	3.63	0.00	0.00	3.74
2162	2521	1.233285	GCAGGTGACCAGACAAGCTG	61.233	60.000	3.63	0.00	44.49	4.24
2163	2522	0.107456	CAGGTGACCAGACAAGCTGT	59.893	55.000	3.63	0.00	43.33	4.40
2172	2531	3.386543	GACAAGCTGTCTGGTGTGT	57.613	52.632	8.50	0.00	43.73	3.72
2173	2532	1.221414	GACAAGCTGTCTGGTGTGTC	58.779	55.000	8.50	2.76	43.73	3.67
2174	2533	0.833287	ACAAGCTGTCTGGTGTGTCT	59.167	50.000	0.00	0.00	0.00	3.41
2175	2534	1.210478	ACAAGCTGTCTGGTGTGTCTT	59.790	47.619	0.00	0.00	0.00	3.01
2199	2558	3.637273	ACCCAGACGCCAAGGTCC	61.637	66.667	0.00	0.00	37.66	4.46
2210	2569	2.045926	AAGGTCCATGGCGTCTGC	60.046	61.111	6.96	0.00	41.71	4.26
2221	2580	4.394712	CGTCTGCCTCCCACACCC	62.395	72.222	0.00	0.00	0.00	4.61
2222	2581	3.249189	GTCTGCCTCCCACACCCA	61.249	66.667	0.00	0.00	0.00	4.51
2223	2582	2.930019	TCTGCCTCCCACACCCAG	60.930	66.667	0.00	0.00	0.00	4.45
2224	2583	2.930019	CTGCCTCCCACACCCAGA	60.930	66.667	0.00	0.00	0.00	3.86
2225	2584	3.249189	TGCCTCCCACACCCAGAC	61.249	66.667	0.00	0.00	0.00	3.51
2226	2585	4.394712	GCCTCCCACACCCAGACG	62.395	72.222	0.00	0.00	0.00	4.18
2227	2586	4.394712	CCTCCCACACCCAGACGC	62.395	72.222	0.00	0.00	0.00	5.19
2228	2587	4.394712	CTCCCACACCCAGACGCC	62.395	72.222	0.00	0.00	0.00	5.68
2230	2589	4.704833	CCCACACCCAGACGCCAG	62.705	72.222	0.00	0.00	0.00	4.85
2231	2590	4.704833	CCACACCCAGACGCCAGG	62.705	72.222	0.00	0.00	0.00	4.45
2246	2605	2.612115	AGGGACCCTGGCTTCTGG	60.612	66.667	13.95	0.00	29.57	3.86
2247	2606	2.936032	GGGACCCTGGCTTCTGGT	60.936	66.667	2.09	0.00	34.33	4.00
2248	2607	2.539081	GGGACCCTGGCTTCTGGTT	61.539	63.158	2.09	0.00	30.97	3.67
2249	2608	1.460699	GGACCCTGGCTTCTGGTTT	59.539	57.895	0.00	0.00	30.97	3.27
2250	2609	0.895559	GGACCCTGGCTTCTGGTTTG	60.896	60.000	0.00	0.00	30.97	2.93
2251	2610	1.527433	GACCCTGGCTTCTGGTTTGC	61.527	60.000	0.00	0.00	30.97	3.68
2252	2611	1.228675	CCCTGGCTTCTGGTTTGCT	60.229	57.895	0.00	0.00	0.00	3.91
2253	2612	0.829182	CCCTGGCTTCTGGTTTGCTT	60.829	55.000	0.00	0.00	0.00	3.91
2254	2613	1.043022	CCTGGCTTCTGGTTTGCTTT	58.957	50.000	0.00	0.00	0.00	3.51
2255	2614	1.269936	CCTGGCTTCTGGTTTGCTTTG	60.270	52.381	0.00	0.00	0.00	2.77
2256	2615	0.104671	TGGCTTCTGGTTTGCTTTGC	59.895	50.000	0.00	0.00	0.00	3.68
2257	2616	0.390492	GGCTTCTGGTTTGCTTTGCT	59.610	50.000	0.00	0.00	0.00	3.91
2258	2617	1.603931	GGCTTCTGGTTTGCTTTGCTC	60.604	52.381	0.00	0.00	0.00	4.26
2259	2618	1.067516	GCTTCTGGTTTGCTTTGCTCA	59.932	47.619	0.00	0.00	0.00	4.26
2260	2619	2.735823	CTTCTGGTTTGCTTTGCTCAC	58.264	47.619	0.00	0.00	0.00	3.51
2261	2620	0.662619	TCTGGTTTGCTTTGCTCACG	59.337	50.000	0.00	0.00	0.00	4.35
2262	2621	0.936297	CTGGTTTGCTTTGCTCACGC	60.936	55.000	0.00	0.00	0.00	5.34
2263	2622	1.065600	GGTTTGCTTTGCTCACGCA	59.934	52.632	0.00	0.00	46.24	5.24

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
23	24	5.220912	CCATATTGTCTACCGTCTCGTGTTA	60.221	44.000	0.00	0.00	0.00	2.41
584	585	2.376109	CTCTACGACCACCACTACCAT	58.624	52.381	0.00	0.00	0.00	3.55
687	688	2.646175	GCTAGCTCGACCACCACCA	61.646	63.158	7.70	0.00	0.00	4.17
1161	1178	4.974645	ACCTTCTGTCCATGACTTGTTA	57.025	40.909	0.00	0.00	33.15	2.41
1353	1371	4.046938	TCGTGATCTATCCAAGTGAAGC	57.953	45.455	0.00	0.00	0.00	3.86
1534	1553	1.754226	GCCCTCTCTTCTTGACGATCT	59.246	52.381	0.00	0.00	0.00	2.75
1536	1555	1.561643	TGCCCTCTCTTCTTGACGAT	58.438	50.000	0.00	0.00	0.00	3.73
1576	1595	0.749049	CATCCTCCTCTCGTGCATCA	59.251	55.000	0.00	0.00	0.00	3.07
1594	1613	0.249868	CCTTCTTGTCACGTGCCTCA	60.250	55.000	11.67	7.23	0.00	3.86
1661	1683	4.527509	AGTCTTGACAGTTCATCATCGT	57.472	40.909	3.49	0.00	0.00	3.73
1765	1794	5.505181	AATAGTCATGGACACAAGGTCTT	57.495	39.130	0.00	0.00	46.16	3.01
1810	1839	7.513968	TGTCTTTTGTTAATGTTTTTGCACAC	58.486	30.769	0.00	0.00	0.00	3.82
1811	1840	7.600375	TCTGTCTTTTGTTAATGTTTTTGCACA	59.400	29.630	0.00	0.00	0.00	4.57
1860	1982	3.625897	CCTGGCGTCTGGGTGTGA	61.626	66.667	4.79	0.00	0.00	3.58
2058	2417	2.469465	CTTGGCGTCTGGGTGTCCAT	62.469	60.000	0.00	0.00	43.11	3.41
2059	2418	3.164977	TTGGCGTCTGGGTGTCCA	61.165	61.111	0.00	0.00	41.58	4.02
2060	2419	2.358737	CTTGGCGTCTGGGTGTCC	60.359	66.667	0.00	0.00	0.00	4.02
2061	2420	2.358737	CCTTGGCGTCTGGGTGTC	60.359	66.667	0.00	0.00	0.00	3.67
2062	2421	3.168528	ACCTTGGCGTCTGGGTGT	61.169	61.111	3.86	0.00	0.00	4.16
2063	2422	2.358737	GACCTTGGCGTCTGGGTG	60.359	66.667	9.02	0.00	31.60	4.61
2064	2423	3.637273	GGACCTTGGCGTCTGGGT	61.637	66.667	4.30	4.30	33.07	4.51
2065	2424	2.971598	ATGGACCTTGGCGTCTGGG	61.972	63.158	4.80	1.36	33.07	4.45
2066	2425	1.746615	CATGGACCTTGGCGTCTGG	60.747	63.158	0.00	0.00	33.07	3.86
2067	2426	1.746615	CCATGGACCTTGGCGTCTG	60.747	63.158	5.56	0.00	33.07	3.51
2068	2427	2.671070	CCATGGACCTTGGCGTCT	59.329	61.111	5.56	0.00	33.07	4.18
2073	2432	1.746615	CAGACGCCATGGACCTTGG	60.747	63.158	18.40	19.92	37.31	3.61
2074	2433	2.401766	GCAGACGCCATGGACCTTG	61.402	63.158	18.40	9.09	0.00	3.61
2075	2434	2.045926	GCAGACGCCATGGACCTT	60.046	61.111	18.40	0.00	0.00	3.50
2086	2445	4.394712	GGGTGTGGGAGGCAGACG	62.395	72.222	0.00	0.00	0.00	4.18
2087	2446	3.249189	TGGGTGTGGGAGGCAGAC	61.249	66.667	0.00	0.00	0.00	3.51
2088	2447	2.930019	CTGGGTGTGGGAGGCAGA	60.930	66.667	0.00	0.00	0.00	4.26
2089	2448	2.930019	TCTGGGTGTGGGAGGCAG	60.930	66.667	0.00	0.00	0.00	4.85
2090	2449	3.249189	GTCTGGGTGTGGGAGGCA	61.249	66.667	0.00	0.00	0.00	4.75
2091	2450	4.394712	CGTCTGGGTGTGGGAGGC	62.395	72.222	0.00	0.00	0.00	4.70
2092	2451	4.394712	GCGTCTGGGTGTGGGAGG	62.395	72.222	0.00	0.00	0.00	4.30
2093	2452	4.394712	GGCGTCTGGGTGTGGGAG	62.395	72.222	0.00	0.00	0.00	4.30
2095	2454	4.704833	CTGGCGTCTGGGTGTGGG	62.705	72.222	0.00	0.00	0.00	4.61
2096	2455	4.704833	CCTGGCGTCTGGGTGTGG	62.705	72.222	4.79	0.00	0.00	4.17
2097	2456	4.704833	CCCTGGCGTCTGGGTGTG	62.705	72.222	22.99	0.00	44.42	3.82
2111	2470	1.306226	GCTAGACACCAGGGTCCCT	60.306	63.158	3.85	3.85	38.59	4.20
2112	2471	0.910088	AAGCTAGACACCAGGGTCCC	60.910	60.000	0.00	0.00	38.59	4.46
2113	2472	0.250513	CAAGCTAGACACCAGGGTCC	59.749	60.000	0.00	0.00	38.59	4.46
2114	2473	0.391793	GCAAGCTAGACACCAGGGTC	60.392	60.000	0.00	0.00	38.08	4.46
2115	2474	0.838122	AGCAAGCTAGACACCAGGGT	60.838	55.000	0.00	0.00	0.00	4.34
2116	2475	0.326264	AAGCAAGCTAGACACCAGGG	59.674	55.000	0.00	0.00	0.00	4.45
2117	2476	1.808945	CAAAGCAAGCTAGACACCAGG	59.191	52.381	0.00	0.00	0.00	4.45
2118	2477	1.198637	GCAAAGCAAGCTAGACACCAG	59.801	52.381	0.00	0.00	0.00	4.00
2119	2478	1.202806	AGCAAAGCAAGCTAGACACCA	60.203	47.619	0.00	0.00	41.32	4.17
2120	2479	1.466558	GAGCAAAGCAAGCTAGACACC	59.533	52.381	0.00	0.00	43.58	4.16
2121	2480	1.127582	CGAGCAAAGCAAGCTAGACAC	59.872	52.381	0.00	0.00	43.58	3.67
2122	2481	1.432514	CGAGCAAAGCAAGCTAGACA	58.567	50.000	0.00	0.00	43.58	3.41
2123	2482	0.096108	GCGAGCAAAGCAAGCTAGAC	59.904	55.000	8.81	0.00	43.58	2.59
2124	2483	1.354337	CGCGAGCAAAGCAAGCTAGA	61.354	55.000	0.00	0.00	43.58	2.43
2125	2484	1.059994	CGCGAGCAAAGCAAGCTAG	59.940	57.895	0.00	0.00	43.58	3.42
2126	2485	3.168271	CGCGAGCAAAGCAAGCTA	58.832	55.556	0.00	0.00	43.58	3.32
2138	2497	4.056125	TCTGGTCACCTGCGCGAG	62.056	66.667	12.10	4.18	0.00	5.03
2139	2498	4.357947	GTCTGGTCACCTGCGCGA	62.358	66.667	12.10	0.00	0.00	5.87
2140	2499	4.662961	TGTCTGGTCACCTGCGCG	62.663	66.667	0.00	0.00	0.00	6.86
2141	2500	2.280797	TTGTCTGGTCACCTGCGC	60.281	61.111	0.00	0.00	0.00	6.09
2142	2501	2.320587	GCTTGTCTGGTCACCTGCG	61.321	63.158	0.00	0.00	0.00	5.18
2143	2502	1.072159	AGCTTGTCTGGTCACCTGC	59.928	57.895	0.00	0.00	0.00	4.85
2144	2503	2.924185	CAGCTTGTCTGGTCACCTG	58.076	57.895	0.00	0.00	39.15	4.00
2155	2514	0.833287	AGACACACCAGACAGCTTGT	59.167	50.000	0.00	0.00	0.00	3.16
2156	2515	1.959042	AAGACACACCAGACAGCTTG	58.041	50.000	0.00	0.00	0.00	4.01
2157	2516	3.557898	CCATAAGACACACCAGACAGCTT	60.558	47.826	0.00	0.00	0.00	3.74
2158	2517	2.027745	CCATAAGACACACCAGACAGCT	60.028	50.000	0.00	0.00	0.00	4.24
2159	2518	2.028112	TCCATAAGACACACCAGACAGC	60.028	50.000	0.00	0.00	0.00	4.40
2160	2519	3.589988	GTCCATAAGACACACCAGACAG	58.410	50.000	0.00	0.00	45.55	3.51
2161	2520	3.678056	GTCCATAAGACACACCAGACA	57.322	47.619	0.00	0.00	45.55	3.41
2171	2530	1.739371	GCGTCTGGGTGTCCATAAGAC	60.739	57.143	0.00	0.00	46.51	3.01
2172	2531	0.535335	GCGTCTGGGTGTCCATAAGA	59.465	55.000	0.00	0.00	43.11	2.10
2173	2532	0.462047	GGCGTCTGGGTGTCCATAAG	60.462	60.000	0.00	0.00	43.11	1.73
2174	2533	1.195442	TGGCGTCTGGGTGTCCATAA	61.195	55.000	0.00	0.00	43.11	1.90
2175	2534	1.195442	TTGGCGTCTGGGTGTCCATA	61.195	55.000	0.00	0.00	43.11	2.74
2210	2569	4.394712	GCGTCTGGGTGTGGGAGG	62.395	72.222	0.00	0.00	0.00	4.30
2211	2570	4.394712	GGCGTCTGGGTGTGGGAG	62.395	72.222	0.00	0.00	0.00	4.30
2213	2572	4.704833	CTGGCGTCTGGGTGTGGG	62.705	72.222	0.00	0.00	0.00	4.61
2214	2573	4.704833	CCTGGCGTCTGGGTGTGG	62.705	72.222	4.79	0.00	0.00	4.17
2215	2574	4.704833	CCCTGGCGTCTGGGTGTG	62.705	72.222	22.99	0.00	44.42	3.82
2229	2588	2.612115	CCAGAAGCCAGGGTCCCT	60.612	66.667	3.85	3.85	0.00	4.20
2230	2589	2.081585	AAACCAGAAGCCAGGGTCCC	62.082	60.000	0.00	0.00	32.67	4.46
2231	2590	0.895559	CAAACCAGAAGCCAGGGTCC	60.896	60.000	0.00	0.00	32.67	4.46
2232	2591	1.527433	GCAAACCAGAAGCCAGGGTC	61.527	60.000	0.00	0.00	32.67	4.46
2233	2592	1.531602	GCAAACCAGAAGCCAGGGT	60.532	57.895	0.00	0.00	36.19	4.34
2234	2593	0.829182	AAGCAAACCAGAAGCCAGGG	60.829	55.000	0.00	0.00	0.00	4.45
2235	2594	1.043022	AAAGCAAACCAGAAGCCAGG	58.957	50.000	0.00	0.00	0.00	4.45
2236	2595	1.870993	GCAAAGCAAACCAGAAGCCAG	60.871	52.381	0.00	0.00	0.00	4.85
2237	2596	0.104671	GCAAAGCAAACCAGAAGCCA	59.895	50.000	0.00	0.00	0.00	4.75
2238	2597	0.390492	AGCAAAGCAAACCAGAAGCC	59.610	50.000	0.00	0.00	0.00	4.35
2239	2598	1.067516	TGAGCAAAGCAAACCAGAAGC	59.932	47.619	0.00	0.00	0.00	3.86
2240	2599	2.735823	GTGAGCAAAGCAAACCAGAAG	58.264	47.619	0.00	0.00	0.00	2.85
2241	2600	1.065401	CGTGAGCAAAGCAAACCAGAA	59.935	47.619	0.00	0.00	0.00	3.02
2242	2601	0.662619	CGTGAGCAAAGCAAACCAGA	59.337	50.000	0.00	0.00	0.00	3.86
2243	2602	3.168628	CGTGAGCAAAGCAAACCAG	57.831	52.632	0.00	0.00	0.00	4.00

Based at the University of Bristol with support from BBSRC.

AutoCloner maintained by Alex Coulton.