AutoCloner

Multiple sequence alignment - TraesCS7A01G172500

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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	TraesCS7A01G172500	chr7A	100.000	2975	0	0	1	2975	127346888	127349862	0.000000e+00	5494.0
1	TraesCS7A01G172500	chr7A	74.088	521	87	33	2469	2967	165225666	165225172	1.420000e-38	171.0
2	TraesCS7A01G172500	chr7A	72.814	526	94	28	1043	1545	127371102	127371601	1.860000e-27	134.0
3	TraesCS7A01G172500	chr7D	89.894	2078	111	35	647	2705	125855986	125857983	0.000000e+00	2582.0
4	TraesCS7A01G172500	chr7D	74.125	514	99	23	1043	1545	125887850	125888340	6.550000e-42	182.0
5	TraesCS7A01G172500	chr7D	88.525	61	5	2	587	646	492223826	492223767	4.110000e-09	73.1
6	TraesCS7A01G172500	chr7B	94.399	1339	48	6	670	1992	87028561	87029888	0.000000e+00	2032.0
7	TraesCS7A01G172500	chr7B	82.857	595	78	13	57	641	595304868	595304288	2.050000e-141	512.0
8	TraesCS7A01G172500	chr7B	82.991	341	41	9	2223	2561	87030528	87030853	2.900000e-75	292.0
9	TraesCS7A01G172500	chr7B	86.957	207	11	4	2020	2214	87029886	87030088	4.990000e-53	219.0
10	TraesCS7A01G172500	chr7B	90.909	154	14	0	2802	2955	87078498	87078651	1.080000e-49	207.0
11	TraesCS7A01G172500	chr7B	78.386	347	56	12	2625	2965	97636716	97637049	1.080000e-49	207.0
12	TraesCS7A01G172500	chr7B	90.476	147	12	2	2559	2704	87078306	87078451	3.030000e-45	193.0
13	TraesCS7A01G172500	chr7B	73.745	518	94	27	1043	1545	87125860	87126350	6.600000e-37	165.0
14	TraesCS7A01G172500	chr7B	72.944	462	94	24	2274	2722	433526300	433526743	6.690000e-27	132.0
15	TraesCS7A01G172500	chr6A	97.653	639	13	2	1	638	560358263	560358900	0.000000e+00	1096.0
16	TraesCS7A01G172500	chr6A	97.653	639	13	2	1	638	560399629	560400266	0.000000e+00	1096.0
17	TraesCS7A01G172500	chr6A	97.653	639	13	2	1	638	560406249	560406886	0.000000e+00	1096.0
18	TraesCS7A01G172500	chr2A	95.370	648	27	2	1	646	651982029	651981383	0.000000e+00	1027.0
19	TraesCS7A01G172500	chr2A	76.370	584	109	20	2379	2950	35975251	35974685	1.350000e-73	287.0
20	TraesCS7A01G172500	chr2A	78.333	360	66	10	2461	2810	104285278	104285635	3.860000e-54	222.0
21	TraesCS7A01G172500	chr3B	82.609	598	87	13	57	644	728065304	728065894	2.050000e-141	512.0
22	TraesCS7A01G172500	chr3B	77.465	355	69	2	2624	2967	648896927	648896573	5.030000e-48	202.0
23	TraesCS7A01G172500	chr3B	77.507	369	56	19	2381	2732	23690887	23691245	2.340000e-46	196.0
24	TraesCS7A01G172500	chr2B	78.186	408	77	9	2405	2803	157804434	157804838	1.770000e-62	250.0
25	TraesCS7A01G172500	chr2B	72.973	740	134	45	2275	2967	236888421	236887701	6.500000e-47	198.0
26	TraesCS7A01G172500	chr2B	72.409	714	154	34	2277	2962	773826799	773826101	1.410000e-43	187.0
27	TraesCS7A01G172500	chr2B	75.414	362	70	15	2625	2969	626107193	626106834	1.100000e-34	158.0
28	TraesCS7A01G172500	chr2B	72.556	583	117	31	2403	2955	14313767	14314336	1.850000e-32	150.0
29	TraesCS7A01G172500	chr2B	94.595	37	2	0	1231	1267	141156523	141156487	1.150000e-04	58.4
30	TraesCS7A01G172500	chr1B	75.681	514	102	16	2469	2962	529294608	529295118	4.960000e-58	235.0
31	TraesCS7A01G172500	chr1B	77.165	381	62	16	2599	2957	603101799	603102176	6.500000e-47	198.0
32	TraesCS7A01G172500	chr1B	82.468	154	25	2	2279	2430	161988082	161987929	1.860000e-27	134.0
33	TraesCS7A01G172500	chr4D	79.114	316	52	11	1223	1531	116132044	116131736	3.890000e-49	206.0
34	TraesCS7A01G172500	chr5A	76.601	406	64	16	1125	1528	457511705	457512081	8.410000e-46	195.0
35	TraesCS7A01G172500	chr4A	77.778	315	58	10	1223	1531	460460009	460460317	1.820000e-42	183.0
36	TraesCS7A01G172500	chr3A	77.143	350	56	17	2454	2783	171372272	171372617	6.550000e-42	182.0
37	TraesCS7A01G172500	chr3A	75.926	216	46	6	2277	2488	75156429	75156216	4.060000e-19	106.0
38	TraesCS7A01G172500	chr5D	76.060	401	65	16	1125	1523	355797691	355797320	2.360000e-41	180.0
39	TraesCS7A01G172500	chr5D	75.066	377	60	24	1053	1421	64292422	64292072	8.590000e-31	145.0
40	TraesCS7A01G172500	chr2D	80.402	199	37	2	2595	2792	475492563	475492760	1.850000e-32	150.0
41	TraesCS7A01G172500	chr2D	79.070	172	34	2	2277	2446	481061921	481062092	1.870000e-22	117.0
42	TraesCS7A01G172500	chr2D	77.157	197	35	9	2275	2465	544790978	544790786	4.060000e-19	106.0
43	TraesCS7A01G172500	chr2D	88.333	60	6	1	574	633	599287453	599287511	1.480000e-08	71.3
44	TraesCS7A01G172500	chr6D	73.407	455	88	23	2534	2961	469903625	469904073	4.000000e-29	139.0
45	TraesCS7A01G172500	chr6D	88.525	61	5	2	587	646	84302306	84302247	4.110000e-09	73.1
46	TraesCS7A01G172500	chr1D	78.238	193	36	5	2279	2466	104575689	104575880	5.210000e-23	119.0
47	TraesCS7A01G172500	chr6B	81.905	105	19	0	2605	2709	714631450	714631346	4.080000e-14	89.8
48	TraesCS7A01G172500	chr3D	84.211	95	11	4	551	643	562522788	562522880	4.080000e-14	89.8

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	TraesCS7A01G172500	chr7A	127346888	127349862	2974	False	5494.000000	5494	100.000000	1	2975	1	chr7A.!!$F1	2974
1	TraesCS7A01G172500	chr7D	125855986	125857983	1997	False	2582.000000	2582	89.894000	647	2705	1	chr7D.!!$F1	2058
2	TraesCS7A01G172500	chr7B	87028561	87030853	2292	False	847.666667	2032	88.115667	670	2561	3	chr7B.!!$F4	1891
3	TraesCS7A01G172500	chr7B	595304288	595304868	580	True	512.000000	512	82.857000	57	641	1	chr7B.!!$R1	584
4	TraesCS7A01G172500	chr6A	560358263	560358900	637	False	1096.000000	1096	97.653000	1	638	1	chr6A.!!$F1	637
5	TraesCS7A01G172500	chr6A	560399629	560400266	637	False	1096.000000	1096	97.653000	1	638	1	chr6A.!!$F2	637
6	TraesCS7A01G172500	chr6A	560406249	560406886	637	False	1096.000000	1096	97.653000	1	638	1	chr6A.!!$F3	637
7	TraesCS7A01G172500	chr2A	651981383	651982029	646	True	1027.000000	1027	95.370000	1	646	1	chr2A.!!$R2	645
8	TraesCS7A01G172500	chr2A	35974685	35975251	566	True	287.000000	287	76.370000	2379	2950	1	chr2A.!!$R1	571
9	TraesCS7A01G172500	chr3B	728065304	728065894	590	False	512.000000	512	82.609000	57	644	1	chr3B.!!$F2	587
10	TraesCS7A01G172500	chr1B	529294608	529295118	510	False	235.000000	235	75.681000	2469	2962	1	chr1B.!!$F1	493

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
930	962	0.107945	GTCCCCTACTTGCTCTGCTG	60.108	60.0	0.0	0.0	0.0	4.41	F

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability	Orientation
2357	2836	0.035458	AGTTTGAGGCCCTCGTTGAG	59.965	55.0	6.21	0.0	32.35	3.02	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
180	183	6.515272	TCTTCTCAAATTCCATACAAAGCC	57.485	37.500	0.00	0.00	0.00	4.35
524	540	2.282180	TGAAAGGGTTCGGGCTGC	60.282	61.111	0.00	0.00	36.46	5.25
668	684	1.411246	CCCAATCCTGTTCATGCATGG	59.589	52.381	25.97	10.24	0.00	3.66
669	685	2.104967	CCAATCCTGTTCATGCATGGT	58.895	47.619	25.97	0.00	0.00	3.55
670	686	2.159156	CCAATCCTGTTCATGCATGGTG	60.159	50.000	25.97	13.11	0.00	4.17
671	687	1.108776	ATCCTGTTCATGCATGGTGC	58.891	50.000	25.97	16.03	45.29	5.01
672	688	0.966875	TCCTGTTCATGCATGGTGCC	60.967	55.000	25.97	11.90	44.23	5.01
673	689	1.138036	CTGTTCATGCATGGTGCCG	59.862	57.895	25.97	9.42	44.23	5.69
674	690	2.274232	CTGTTCATGCATGGTGCCGG	62.274	60.000	25.97	12.35	44.23	6.13
675	691	2.035469	TTCATGCATGGTGCCGGT	59.965	55.556	25.97	0.00	44.23	5.28
694	710	2.031012	TGCCGGACAAGCACTCTG	59.969	61.111	5.05	0.00	34.69	3.35
735	764	1.336755	CCACCACACAACCTGTAAAGC	59.663	52.381	0.00	0.00	0.00	3.51
858	890	2.505337	TTCCGTTCCACGCGATCG	60.505	61.111	15.93	11.69	40.91	3.69
909	941	5.922546	GAAATTGTTCGGTTTAAAATGGCC	58.077	37.500	0.00	0.00	0.00	5.36
918	950	1.296984	TTAAAATGGCCCGTCCCCTA	58.703	50.000	0.00	0.00	0.00	3.53
923	955	4.484872	GGCCCGTCCCCTACTTGC	62.485	72.222	0.00	0.00	0.00	4.01
930	962	0.107945	GTCCCCTACTTGCTCTGCTG	60.108	60.000	0.00	0.00	0.00	4.41
1047	1079	1.827399	TTGAGACCGAGCTGTTCCCC	61.827	60.000	0.00	0.00	0.00	4.81
1191	1223	2.124403	TCCGTCCGCCTCTACCTC	60.124	66.667	0.00	0.00	0.00	3.85
1308	1340	1.431036	GACGTACCACCGCTACCTC	59.569	63.158	0.00	0.00	0.00	3.85
1975	2010	2.552315	GGGTTCATTTCTCGTGCTTGAA	59.448	45.455	0.00	0.00	0.00	2.69
1992	2027	2.113243	GAACTCACCTGCTCCCCGTT	62.113	60.000	0.00	0.00	0.00	4.44
1993	2028	2.046892	CTCACCTGCTCCCCGTTG	60.047	66.667	0.00	0.00	0.00	4.10
1994	2029	2.525629	TCACCTGCTCCCCGTTGA	60.526	61.111	0.00	0.00	0.00	3.18
1995	2030	2.111999	CTCACCTGCTCCCCGTTGAA	62.112	60.000	0.00	0.00	0.00	2.69
1996	2031	1.672356	CACCTGCTCCCCGTTGAAG	60.672	63.158	0.00	0.00	0.00	3.02
1997	2032	2.147387	ACCTGCTCCCCGTTGAAGT	61.147	57.895	0.00	0.00	0.00	3.01
1999	2034	1.237285	CCTGCTCCCCGTTGAAGTTG	61.237	60.000	0.00	0.00	0.00	3.16
2000	2035	0.250295	CTGCTCCCCGTTGAAGTTGA	60.250	55.000	0.00	0.00	0.00	3.18
2001	2036	0.181587	TGCTCCCCGTTGAAGTTGAA	59.818	50.000	0.00	0.00	0.00	2.69
2002	2037	0.591659	GCTCCCCGTTGAAGTTGAAC	59.408	55.000	0.00	0.00	0.00	3.18
2003	2038	1.235724	CTCCCCGTTGAAGTTGAACC	58.764	55.000	0.00	0.00	0.00	3.62
2004	2039	0.533308	TCCCCGTTGAAGTTGAACCG	60.533	55.000	0.00	0.00	0.00	4.44
2005	2040	0.816421	CCCCGTTGAAGTTGAACCGT	60.816	55.000	0.00	0.00	0.00	4.83
2006	2041	0.306533	CCCGTTGAAGTTGAACCGTG	59.693	55.000	0.00	0.00	0.00	4.94
2007	2042	0.316689	CCGTTGAAGTTGAACCGTGC	60.317	55.000	0.00	0.00	0.00	5.34
2008	2043	0.653323	CGTTGAAGTTGAACCGTGCG	60.653	55.000	0.00	0.00	0.00	5.34
2009	2044	0.928451	GTTGAAGTTGAACCGTGCGC	60.928	55.000	0.00	0.00	0.00	6.09
2010	2045	2.127758	GAAGTTGAACCGTGCGCG	60.128	61.111	13.88	13.88	37.95	6.86
2024	2059	4.695231	CGCGGTTCCTGTCGTCGT	62.695	66.667	0.00	0.00	0.00	4.34
2025	2060	3.103911	GCGGTTCCTGTCGTCGTG	61.104	66.667	0.00	0.00	0.00	4.35
2026	2061	3.103911	CGGTTCCTGTCGTCGTGC	61.104	66.667	0.00	0.00	0.00	5.34
2027	2062	3.103911	GGTTCCTGTCGTCGTGCG	61.104	66.667	0.00	0.00	43.01	5.34
2028	2063	2.354305	GTTCCTGTCGTCGTGCGT	60.354	61.111	0.00	0.00	42.13	5.24
2029	2064	1.947642	GTTCCTGTCGTCGTGCGTT	60.948	57.895	0.00	0.00	42.13	4.84
2074	2109	1.410517	CTCGCTATCTCCCAAGAGCAA	59.589	52.381	0.00	0.00	40.22	3.91
2075	2110	1.137086	TCGCTATCTCCCAAGAGCAAC	59.863	52.381	0.00	0.00	40.22	4.17
2076	2111	1.576356	GCTATCTCCCAAGAGCAACG	58.424	55.000	0.00	0.00	40.22	4.10
2077	2112	1.808133	GCTATCTCCCAAGAGCAACGG	60.808	57.143	0.00	0.00	40.22	4.44
2078	2113	1.757118	CTATCTCCCAAGAGCAACGGA	59.243	52.381	0.00	0.00	40.22	4.69
2145	2184	3.350912	GGCGTGCGTTGAAATTAGTATG	58.649	45.455	0.00	0.00	0.00	2.39
2167	2214	5.834169	TGTTTCGTGTCTATGTCAGTAACA	58.166	37.500	0.00	0.00	43.51	2.41
2268	2747	4.445452	TCATGCTTTGGAAGAAAGATGC	57.555	40.909	0.00	0.00	0.00	3.91
2309	2788	1.477558	CCAGCACCTCAAACCTGTCTT	60.478	52.381	0.00	0.00	0.00	3.01
2314	2793	3.303791	GCACCTCAAACCTGTCTTAAACG	60.304	47.826	0.00	0.00	0.00	3.60
2326	2805	1.947934	CTTAAACGTTCGGGCGGACG	61.948	60.000	0.00	0.00	35.98	4.79
2384	2863	0.322008	GGGCCTCAAACTGGTCTCAG	60.322	60.000	0.84	0.00	46.10	3.35
2396	2875	1.748122	GTCTCAGACGTCCGGGCTA	60.748	63.158	13.01	0.00	0.00	3.93
2409	2901	2.508751	GGGCTATCCGACACCCCTC	61.509	68.421	0.00	0.00	36.24	4.30
2418	2910	0.034059	CGACACCCCTCATATCCAGC	59.966	60.000	0.00	0.00	0.00	4.85
2425	2917	2.649312	CCCCTCATATCCAGCCCAAATA	59.351	50.000	0.00	0.00	0.00	1.40
2447	2939	2.888447	GCAGGATATGAGGCGGCCT	61.888	63.158	24.13	24.13	36.03	5.19
2449	2941	0.247736	CAGGATATGAGGCGGCCTAC	59.752	60.000	23.92	15.78	31.76	3.18
2561	3065	2.440430	TCCTCTCTCGCTTCCCCG	60.440	66.667	0.00	0.00	0.00	5.73
2622	3126	2.046314	GCTCCGGCAGCCACTAAA	60.046	61.111	13.30	0.00	43.17	1.85
2642	3146	1.079503	GCTCCAACCTCGACATTGAC	58.920	55.000	5.63	0.00	0.00	3.18
2652	3156	1.539827	TCGACATTGACGAGAAGCTGA	59.460	47.619	7.12	0.00	34.85	4.26
2654	3158	2.669670	CGACATTGACGAGAAGCTGACT	60.670	50.000	2.30	0.00	0.00	3.41
2695	3200	2.436109	CAAGGTGGACACAGGGGG	59.564	66.667	4.69	0.00	0.00	5.40
2696	3201	2.038762	AAGGTGGACACAGGGGGT	60.039	61.111	4.69	0.00	0.00	4.95
2712	3217	1.068250	GGTAGCTCCGGATCTGCAC	59.932	63.158	22.34	11.84	0.00	4.57
2762	3268	4.496336	GCCGAAGCTGCCCCTCAT	62.496	66.667	0.00	0.00	35.50	2.90
2764	3270	2.515523	CGAAGCTGCCCCTCATGG	60.516	66.667	0.00	0.00	0.00	3.66
2773	3279	4.431131	CCCTCATGGCCCGTGCTT	62.431	66.667	0.00	0.00	37.74	3.91
2784	3290	2.506217	CGTGCTTAGCTCCGCGAA	60.506	61.111	8.23	0.00	0.00	4.70
2787	3293	3.265636	GCTTAGCTCCGCGAAGGC	61.266	66.667	8.23	8.89	40.62	4.35
2815	3332	3.471806	GCTCCGTCCCCTTCTCCC	61.472	72.222	0.00	0.00	0.00	4.30
2865	3382	1.292223	GTGCTAGTGCCCACTTCGA	59.708	57.895	6.21	0.00	42.54	3.71
2867	3384	0.108186	TGCTAGTGCCCACTTCGATG	60.108	55.000	6.21	0.00	42.54	3.84
2869	3386	0.811616	CTAGTGCCCACTTCGATGGC	60.812	60.000	6.21	4.40	45.56	4.40
2895	3412	2.812499	GCACGCCGGAATAGGAGA	59.188	61.111	5.05	0.00	35.00	3.71
2943	3460	3.068691	CAAGGGAGAGGGACGCGA	61.069	66.667	15.93	0.00	0.00	5.87
2954	3471	3.255379	GACGCGACGGAGCAATCC	61.255	66.667	15.93	0.00	36.85	3.01

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
493	509	1.352352	CCTTTCAGCCTCTTCCCTCAA	59.648	52.381	0.00	0.00	0.00	3.02
524	540	1.599797	GTTCGGTGTGGTGGAAGGG	60.600	63.158	0.00	0.00	0.00	3.95
673	689	3.050275	GTGCTTGTCCGGCAGACC	61.050	66.667	0.00	0.00	45.68	3.85
674	690	2.029844	GAGTGCTTGTCCGGCAGAC	61.030	63.158	0.00	0.00	46.51	3.51
675	691	2.210013	AGAGTGCTTGTCCGGCAGA	61.210	57.895	0.00	0.00	40.54	4.26
694	710	4.581824	TGGTTCACGGTGGTATAGAGATAC	59.418	45.833	8.50	0.00	37.75	2.24
909	941	1.517832	CAGAGCAAGTAGGGGACGG	59.482	63.158	0.00	0.00	0.00	4.79
923	955	1.575576	GCAGGACAAGTGCAGCAGAG	61.576	60.000	0.00	0.00	40.86	3.35
930	962	3.730761	CTGGCGCAGGACAAGTGC	61.731	66.667	10.83	0.00	41.56	4.40
966	998	2.101965	CTCTGCGAGGTCGAGCTG	59.898	66.667	23.97	14.96	43.02	4.24
1047	1079	1.920574	CTCTTGTACACGCGGATGAAG	59.079	52.381	12.47	5.94	0.00	3.02
1762	1794	2.825836	CACCATCGCCCTCTTGCC	60.826	66.667	0.00	0.00	0.00	4.52
1932	1964	1.374252	GACGCGGTCCAACATGTCT	60.374	57.895	12.47	0.00	0.00	3.41
1935	1967	4.147322	GCGACGCGGTCCAACATG	62.147	66.667	12.47	0.00	0.00	3.21
1956	1988	4.024893	TGAGTTCAAGCACGAGAAATGAAC	60.025	41.667	13.70	13.70	46.31	3.18
1975	2010	2.526873	AACGGGGAGCAGGTGAGT	60.527	61.111	0.00	0.00	0.00	3.41
1992	2027	2.876879	CGCGCACGGTTCAACTTCA	61.877	57.895	8.75	0.00	34.97	3.02
1993	2028	2.127758	CGCGCACGGTTCAACTTC	60.128	61.111	8.75	0.00	34.97	3.01
2007	2042	4.695231	ACGACGACAGGAACCGCG	62.695	66.667	0.00	0.00	0.00	6.46
2008	2043	3.103911	CACGACGACAGGAACCGC	61.104	66.667	0.00	0.00	0.00	5.68
2009	2044	3.103911	GCACGACGACAGGAACCG	61.104	66.667	0.00	0.00	0.00	4.44
2022	2057	3.864218	TATTAGCCGCCCTAACGCACG	62.864	57.143	0.00	0.00	38.77	5.34
2023	2058	0.249573	TATTAGCCGCCCTAACGCAC	60.250	55.000	0.00	0.00	38.77	5.34
2024	2059	0.464870	TTATTAGCCGCCCTAACGCA	59.535	50.000	0.00	0.00	38.77	5.24
2025	2060	1.585297	TTTATTAGCCGCCCTAACGC	58.415	50.000	0.00	0.00	38.77	4.84
2026	2061	3.395639	TCATTTATTAGCCGCCCTAACG	58.604	45.455	0.00	0.00	38.77	3.18
2027	2062	4.320275	GCTTCATTTATTAGCCGCCCTAAC	60.320	45.833	0.00	0.00	38.77	2.34
2028	2063	3.818773	GCTTCATTTATTAGCCGCCCTAA	59.181	43.478	0.00	0.00	40.16	2.69
2029	2064	3.181449	TGCTTCATTTATTAGCCGCCCTA	60.181	43.478	0.00	0.00	34.03	3.53
2074	2109	3.256136	ACGAGAGAAGACTTCAAATCCGT	59.744	43.478	17.34	14.25	0.00	4.69
2075	2110	3.839293	ACGAGAGAAGACTTCAAATCCG	58.161	45.455	17.34	13.71	0.00	4.18
2076	2111	5.615764	GCAAACGAGAGAAGACTTCAAATCC	60.616	44.000	17.34	1.58	0.00	3.01
2077	2112	5.178438	AGCAAACGAGAGAAGACTTCAAATC	59.822	40.000	17.34	10.28	0.00	2.17
2078	2113	5.059833	AGCAAACGAGAGAAGACTTCAAAT	58.940	37.500	17.34	2.48	0.00	2.32
2145	2184	6.758593	TTGTTACTGACATAGACACGAAAC	57.241	37.500	0.00	0.00	38.26	2.78
2176	2223	9.612066	AGCCTATCAAGTTTTTCAAAATTCAAA	57.388	25.926	0.00	0.00	0.00	2.69
2268	2747	2.481449	GGTGTAGATGCTCTTACGTGGG	60.481	54.545	0.00	0.00	0.00	4.61
2288	2767	0.890996	GACAGGTTTGAGGTGCTGGG	60.891	60.000	0.00	0.00	0.00	4.45
2294	2773	4.146745	ACGTTTAAGACAGGTTTGAGGT	57.853	40.909	0.00	0.00	0.00	3.85
2309	2788	2.430582	CGTCCGCCCGAACGTTTA	60.431	61.111	0.46	0.00	34.30	2.01
2357	2836	0.035458	AGTTTGAGGCCCTCGTTGAG	59.965	55.000	6.21	0.00	32.35	3.02
2361	2840	2.113243	GACCAGTTTGAGGCCCTCGT	62.113	60.000	6.21	0.00	32.35	4.18
2396	2875	1.132849	TGGATATGAGGGGTGTCGGAT	60.133	52.381	0.00	0.00	0.00	4.18
2406	2898	5.688807	CCTATATTTGGGCTGGATATGAGG	58.311	45.833	0.00	0.00	0.00	3.86
2418	2910	5.688807	CCTCATATCCTGCCTATATTTGGG	58.311	45.833	0.00	0.00	0.00	4.12
2425	2917	1.198713	CCGCCTCATATCCTGCCTAT	58.801	55.000	0.00	0.00	0.00	2.57
2467	2959	2.186903	GGTCGATGATGTGCCGGT	59.813	61.111	1.90	0.00	0.00	5.28
2506	3005	4.017126	GGGTTCTTAGAGGGGACAAATTG	58.983	47.826	0.00	0.00	0.00	2.32
2510	3009	2.735259	AGGGTTCTTAGAGGGGACAA	57.265	50.000	0.00	0.00	0.00	3.18
2511	3010	2.626149	GCTAGGGTTCTTAGAGGGGACA	60.626	54.545	0.00	0.00	0.00	4.02
2561	3065	2.000825	GAATTGGAGGAGGGAGGGGC	62.001	65.000	0.00	0.00	0.00	5.80
2571	3075	2.024414	GGATTCGGTTGGAATTGGAGG	58.976	52.381	0.00	0.00	45.33	4.30
2576	3080	2.486592	GTCGTTGGATTCGGTTGGAATT	59.513	45.455	0.00	0.00	45.33	2.17
2622	3126	0.976641	TCAATGTCGAGGTTGGAGCT	59.023	50.000	9.18	0.00	0.00	4.09
2642	3146	0.525311	TGCAGAGAGTCAGCTTCTCG	59.475	55.000	8.00	5.26	37.07	4.04
2695	3200	1.068250	GGTGCAGATCCGGAGCTAC	59.932	63.158	24.15	18.40	0.00	3.58
2696	3201	2.490148	CGGTGCAGATCCGGAGCTA	61.490	63.158	24.15	4.67	43.68	3.32
2761	3267	2.190578	GAGCTAAGCACGGGCCAT	59.809	61.111	5.73	0.00	42.56	4.40
2762	3268	4.096003	GGAGCTAAGCACGGGCCA	62.096	66.667	5.73	0.00	42.56	5.36
2794	3300	3.155167	GAAGGGGACGGAGCGGAT	61.155	66.667	0.00	0.00	0.00	4.18
2916	3433	4.399395	CTCCCTTGCTCGCTGCCA	62.399	66.667	0.00	0.00	42.00	4.92

Based at the University of Bristol with support from BBSRC.

AutoCloner maintained by Alex Coulton.