AutoCloner

Multiple sequence alignment - TraesCS6B01G102700

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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	TraesCS6B01G102700	chr6B	100.000	2948	0	0	1	2948	80823971	80821024	0.000000e+00	5445.0
1	TraesCS6B01G102700	chr6B	87.673	1298	113	26	6	1293	80742326	80741066	0.000000e+00	1467.0
2	TraesCS6B01G102700	chr6B	85.075	938	109	14	982	1913	80235959	80235047	0.000000e+00	928.0
3	TraesCS6B01G102700	chr6B	82.644	991	131	17	1929	2900	81660922	81661890	0.000000e+00	839.0
4	TraesCS6B01G102700	chr6B	82.265	998	124	14	1929	2892	80235059	80234081	0.000000e+00	813.0
5	TraesCS6B01G102700	chr6B	82.179	982	139	14	1929	2892	80733484	80732521	0.000000e+00	811.0
6	TraesCS6B01G102700	chr6B	84.704	778	102	12	976	1749	80781228	80780464	0.000000e+00	761.0
7	TraesCS6B01G102700	chr6B	84.522	659	78	8	1263	1915	80741066	80740426	5.360000e-177	630.0
8	TraesCS6B01G102700	chr6B	84.370	659	79	8	1263	1915	80737588	80736948	2.490000e-175	625.0
9	TraesCS6B01G102700	chr6B	84.084	666	84	12	1263	1915	81660280	81660936	8.970000e-175	623.0
10	TraesCS6B01G102700	chr6B	84.219	659	80	8	1263	1915	80734110	80733470	1.160000e-173	619.0
11	TraesCS6B01G102700	chr6B	82.102	704	89	15	2214	2892	80775624	80774933	4.260000e-158	568.0
12	TraesCS6B01G102700	chr6B	86.321	424	43	5	871	1293	80734519	80734110	5.800000e-122	448.0
13	TraesCS6B01G102700	chr6B	86.085	424	44	5	871	1293	80737997	80737588	2.700000e-120	442.0
14	TraesCS6B01G102700	chr6B	92.105	38	3	0	2911	2948	80234028	80233991	1.000000e-03	54.7
15	TraesCS6B01G102700	chrUn	92.528	1887	119	7	29	1909	27164120	27165990	0.000000e+00	2684.0
16	TraesCS6B01G102700	chrUn	93.920	954	55	2	1995	2948	27183408	27184358	0.000000e+00	1437.0
17	TraesCS6B01G102700	chrUn	84.961	1024	99	20	1929	2900	27274229	27275249	0.000000e+00	987.0
18	TraesCS6B01G102700	chrUn	85.224	961	105	25	976	1917	27273303	27274245	0.000000e+00	953.0
19	TraesCS6B01G102700	chrUn	95.430	547	20	4	1	544	27163011	27163555	0.000000e+00	867.0
20	TraesCS6B01G102700	chrUn	83.049	997	118	10	1929	2892	27268423	27269401	0.000000e+00	857.0
21	TraesCS6B01G102700	chrUn	90.892	527	44	3	1	523	27266478	27267004	0.000000e+00	704.0
22	TraesCS6B01G102700	chrUn	85.435	666	71	11	1256	1915	27267792	27268437	0.000000e+00	669.0
23	TraesCS6B01G102700	chrUn	83.595	701	73	17	1	677	27272306	27272988	1.160000e-173	619.0
24	TraesCS6B01G102700	chrUn	93.247	385	23	1	1	382	27013841	27013457	5.520000e-157	564.0
25	TraesCS6B01G102700	chrUn	87.247	494	28	15	508	998	27013465	27013004	5.590000e-147	531.0
26	TraesCS6B01G102700	chrUn	86.392	316	37	4	978	1293	27267488	27267797	1.010000e-89	340.0
27	TraesCS6B01G102700	chrUn	85.106	94	5	2	751	835	27273092	27273185	1.460000e-13	87.9
28	TraesCS6B01G102700	chr6A	88.122	985	78	22	1	968	46882860	46881898	0.000000e+00	1134.0
29	TraesCS6B01G102700	chr6A	89.583	528	50	3	1	523	46785195	46784668	0.000000e+00	665.0
30	TraesCS6B01G102700	chr6A	83.285	694	89	7	2210	2885	46782995	46782311	5.400000e-172	614.0
31	TraesCS6B01G102700	chr6A	81.445	706	92	17	2214	2892	46761611	46760918	2.580000e-150	542.0
32	TraesCS6B01G102700	chr6A	86.164	318	38	1	976	1293	46784186	46783875	3.640000e-89	339.0
33	TraesCS6B01G102700	chr6A	86.942	291	36	2	249	537	46763524	46763234	2.830000e-85	326.0
34	TraesCS6B01G102700	chr6A	85.294	204	16	10	746	949	46784435	46784246	6.440000e-47	198.0
35	TraesCS6B01G102700	chr6A	83.784	148	15	7	585	725	46784651	46784506	6.630000e-27	132.0
36	TraesCS6B01G102700	chr1B	80.488	779	131	12	992	1755	477492875	477492103	7.080000e-161	577.0
37	TraesCS6B01G102700	chr1A	79.080	435	72	11	2307	2724	455041052	455040620	6.220000e-72	281.0
38	TraesCS6B01G102700	chr5B	90.566	53	3	1	553	605	38829199	38829149	5.270000e-08	69.4
39	TraesCS6B01G102700	chr5D	100.000	30	0	0	553	582	105021020	105020991	4.100000e-04	56.5
40	TraesCS6B01G102700	chr5D	100.000	28	0	0	555	582	498490246	498490273	5.000000e-03	52.8
41	TraesCS6B01G102700	chr3D	100.000	30	0	0	553	582	47480216	47480187	4.100000e-04	56.5
42	TraesCS6B01G102700	chr3B	100.000	30	0	0	553	582	74281490	74281461	4.100000e-04	56.5
43	TraesCS6B01G102700	chr2B	100.000	30	0	0	553	582	68130938	68130909	4.100000e-04	56.5

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	TraesCS6B01G102700	chr6B	80821024	80823971	2947	True	5445.000000	5445	100.000000	1	2948	1	chr6B.!!$R3	2947
1	TraesCS6B01G102700	chr6B	80780464	80781228	764	True	761.000000	761	84.704000	976	1749	1	chr6B.!!$R2	773
2	TraesCS6B01G102700	chr6B	81660280	81661890	1610	False	731.000000	839	83.364000	1263	2900	2	chr6B.!!$F1	1637
3	TraesCS6B01G102700	chr6B	80732521	80742326	9805	True	720.285714	1467	85.052714	6	2892	7	chr6B.!!$R5	2886
4	TraesCS6B01G102700	chr6B	80233991	80235959	1968	True	598.566667	928	86.481667	982	2948	3	chr6B.!!$R4	1966
5	TraesCS6B01G102700	chr6B	80774933	80775624	691	True	568.000000	568	82.102000	2214	2892	1	chr6B.!!$R1	678
6	TraesCS6B01G102700	chrUn	27163011	27165990	2979	False	1775.500000	2684	93.979000	1	1909	2	chrUn.!!$F2	1908
7	TraesCS6B01G102700	chrUn	27183408	27184358	950	False	1437.000000	1437	93.920000	1995	2948	1	chrUn.!!$F1	953
8	TraesCS6B01G102700	chrUn	27266478	27275249	8771	False	652.112500	987	85.581750	1	2900	8	chrUn.!!$F3	2899
9	TraesCS6B01G102700	chrUn	27013004	27013841	837	True	547.500000	564	90.247000	1	998	2	chrUn.!!$R1	997
10	TraesCS6B01G102700	chr6A	46881898	46882860	962	True	1134.000000	1134	88.122000	1	968	1	chr6A.!!$R1	967
11	TraesCS6B01G102700	chr6A	46760918	46763524	2606	True	434.000000	542	84.193500	249	2892	2	chr6A.!!$R2	2643
12	TraesCS6B01G102700	chr6A	46782311	46785195	2884	True	389.600000	665	85.622000	1	2885	5	chr6A.!!$R3	2884
13	TraesCS6B01G102700	chr1B	477492103	477492875	772	True	577.000000	577	80.488000	992	1755	1	chr1B.!!$R1	763

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
865	2083	0.31836	TGTACAACGTGAGACAGCGG	60.318	55.0	0.0	0.0	0.0	5.52	F

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability	Orientation
2636	16846	0.035915	GAGTCCTTGACCCTCTTGGC	60.036	60.0	0.0	0.0	37.83	4.52	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
43	44	2.287915	CACCTCGTTCCAGTTGTGAAAG	59.712	50.000	0.00	0.00	0.00	2.62
58	59	1.064017	TGAAAGTTTGGGGCTGACACT	60.064	47.619	0.00	0.00	0.00	3.55
84	88	3.119245	GCTTGATCACACTTGCCAATCAT	60.119	43.478	0.00	0.00	0.00	2.45
100	104	6.153170	TGCCAATCATGACATTCAATAACACT	59.847	34.615	0.00	0.00	0.00	3.55
191	196	7.201741	GGGAGCTCTTGGTCATTAATCTTTAAC	60.202	40.741	14.64	0.00	42.05	2.01
270	278	8.940397	TTTATCAAACTCTCCCAAAAGAAGAT	57.060	30.769	0.00	0.00	0.00	2.40
303	311	5.456763	GCCATCCATTCCTTAGTCCATAAGT	60.457	44.000	0.00	0.00	39.50	2.24
315	323	8.207545	CCTTAGTCCATAAGTAATCTTGCTTCT	58.792	37.037	0.00	0.00	39.50	2.85
340	348	3.073062	AGTTTGCTACACTCCTTGGTCAT	59.927	43.478	0.00	0.00	0.00	3.06
546	1643	8.918202	AGAAAACTTGTATGGTCATCTGTTTA	57.082	30.769	0.00	0.00	0.00	2.01
630	1728	9.907229	ACTACCTTTTTAGGAAGAATGGATTAG	57.093	33.333	0.00	0.00	0.00	1.73
783	1995	2.279918	GTGTGACCAGGTTCGCGT	60.280	61.111	5.77	0.00	0.00	6.01
843	2061	2.234908	ACAGTAGGTGGAGAGAATGTGC	59.765	50.000	0.00	0.00	0.00	4.57
865	2083	0.318360	TGTACAACGTGAGACAGCGG	60.318	55.000	0.00	0.00	0.00	5.52
896	2114	5.139435	TGAACTGTCTTCATACACTCTGG	57.861	43.478	0.00	0.00	0.00	3.86
949	2176	2.755952	AGCCCCCAATTCCAATCTAC	57.244	50.000	0.00	0.00	0.00	2.59
950	2177	2.217776	AGCCCCCAATTCCAATCTACT	58.782	47.619	0.00	0.00	0.00	2.57
951	2178	2.175715	AGCCCCCAATTCCAATCTACTC	59.824	50.000	0.00	0.00	0.00	2.59
952	2179	2.753168	GCCCCCAATTCCAATCTACTCC	60.753	54.545	0.00	0.00	0.00	3.85
953	2180	2.513738	CCCCCAATTCCAATCTACTCCA	59.486	50.000	0.00	0.00	0.00	3.86
954	2181	3.435601	CCCCCAATTCCAATCTACTCCAG	60.436	52.174	0.00	0.00	0.00	3.86
955	2182	3.435601	CCCCAATTCCAATCTACTCCAGG	60.436	52.174	0.00	0.00	0.00	4.45
956	2183	3.459598	CCCAATTCCAATCTACTCCAGGA	59.540	47.826	0.00	0.00	0.00	3.86
957	2184	4.445448	CCCAATTCCAATCTACTCCAGGAG	60.445	50.000	15.72	15.72	35.52	3.69
958	2185	4.164988	CCAATTCCAATCTACTCCAGGAGT	59.835	45.833	25.92	25.92	45.54	3.85
959	2186	5.121811	CAATTCCAATCTACTCCAGGAGTG	58.878	45.833	29.93	19.52	43.30	3.51
960	2187	3.474798	TCCAATCTACTCCAGGAGTGT	57.525	47.619	29.93	14.14	43.30	3.55
1268	2546	3.035363	TCTATTTCCTGCCGTACATGGA	58.965	45.455	0.00	0.00	0.00	3.41
1439	2758	2.234913	GAATACACCGCCCACCTCGT	62.235	60.000	0.00	0.00	0.00	4.18
1443	2762	4.619227	ACCGCCCACCTCGTGTTG	62.619	66.667	0.00	0.00	0.00	3.33
1543	2871	1.593209	GACGACAACCCGTTGCTCA	60.593	57.895	7.48	0.00	43.49	4.26
1558	2886	2.259012	TGCTCAAATTGGAATGGCCTT	58.741	42.857	3.32	0.00	37.63	4.35
1698	3026	2.432146	TGATCAGCCTCTTTATCGTGCT	59.568	45.455	0.00	0.00	0.00	4.40
1738	3066	5.125356	CACTCTACATCCATTGCCAACATA	58.875	41.667	0.00	0.00	0.00	2.29
1773	3101	2.022718	ATCATACTGGCTCCCTCCTC	57.977	55.000	0.00	0.00	0.00	3.71
1777	3105	2.912987	TACTGGCTCCCTCCTCGCTC	62.913	65.000	0.00	0.00	0.00	5.03
1799	3131	7.412563	CGCTCGTCATTCTCCTTTAACAAATTA	60.413	37.037	0.00	0.00	0.00	1.40
1892	3240	5.046376	TGACCTTGTCAGATCACACATACAT	60.046	40.000	0.00	0.00	37.67	2.29
1914	3262	8.446599	ACATAGTAATTAAACTACCATGTGCC	57.553	34.615	9.70	0.00	32.60	5.01
1915	3263	8.050325	ACATAGTAATTAAACTACCATGTGCCA	58.950	33.333	9.70	0.00	32.60	4.92
1916	3264	8.898761	CATAGTAATTAAACTACCATGTGCCAA	58.101	33.333	0.00	0.00	34.87	4.52
1917	3265	7.768807	AGTAATTAAACTACCATGTGCCAAA	57.231	32.000	0.00	0.00	0.00	3.28
1918	3266	8.184304	AGTAATTAAACTACCATGTGCCAAAA	57.816	30.769	0.00	0.00	0.00	2.44
1919	3267	8.811994	AGTAATTAAACTACCATGTGCCAAAAT	58.188	29.630	0.00	0.00	0.00	1.82
1920	3268	9.430623	GTAATTAAACTACCATGTGCCAAAATT	57.569	29.630	0.00	0.00	0.00	1.82
1924	3272	9.832445	TTAAACTACCATGTGCCAAAATTAAAA	57.168	25.926	0.00	0.00	0.00	1.52
1925	3273	8.738645	AAACTACCATGTGCCAAAATTAAAAA	57.261	26.923	0.00	0.00	0.00	1.94
1956	3304	1.378531	TGTGCCGGTGAATTGATAGC	58.621	50.000	1.90	0.00	0.00	2.97
2084	6913	9.843334	GTCGAATAAAATGGGTGTTAAAACATA	57.157	29.630	0.00	0.00	41.59	2.29
2102	6943	6.803366	AACATAATACCCGTCTTAAGACCT	57.197	37.500	26.12	13.43	41.86	3.85
2103	6944	6.803366	ACATAATACCCGTCTTAAGACCTT	57.197	37.500	26.12	14.65	41.86	3.50
2104	6945	7.191593	ACATAATACCCGTCTTAAGACCTTT	57.808	36.000	26.12	14.33	41.86	3.11
2105	6946	7.046033	ACATAATACCCGTCTTAAGACCTTTG	58.954	38.462	26.12	14.03	41.86	2.77
2106	6947	5.750352	AATACCCGTCTTAAGACCTTTGA	57.250	39.130	26.12	11.12	41.86	2.69
2107	6948	3.679824	ACCCGTCTTAAGACCTTTGAG	57.320	47.619	26.12	13.06	41.86	3.02
2108	6949	2.289506	ACCCGTCTTAAGACCTTTGAGC	60.290	50.000	26.12	3.06	41.86	4.26
2109	6950	2.289444	CCCGTCTTAAGACCTTTGAGCA	60.289	50.000	26.12	0.00	41.86	4.26
2110	6951	3.600388	CCGTCTTAAGACCTTTGAGCAT	58.400	45.455	26.12	0.00	41.86	3.79
2111	6952	3.372206	CCGTCTTAAGACCTTTGAGCATG	59.628	47.826	26.12	10.52	41.86	4.06
2112	6953	4.245660	CGTCTTAAGACCTTTGAGCATGA	58.754	43.478	26.12	0.00	41.86	3.07
2113	6954	4.092091	CGTCTTAAGACCTTTGAGCATGAC	59.908	45.833	26.12	1.43	41.86	3.06
2117	6958	1.344438	AGACCTTTGAGCATGACGACA	59.656	47.619	0.00	0.00	0.00	4.35
2131	6972	2.942376	TGACGACAATGCTCAACAACTT	59.058	40.909	0.00	0.00	0.00	2.66
2132	6973	3.376859	TGACGACAATGCTCAACAACTTT	59.623	39.130	0.00	0.00	0.00	2.66
2134	6975	3.376859	ACGACAATGCTCAACAACTTTGA	59.623	39.130	0.00	0.00	0.00	2.69
2162	7003	8.964420	ACAATGGATCTTACAAAATGTTAACG	57.036	30.769	0.26	0.00	0.00	3.18
2163	7004	7.540745	ACAATGGATCTTACAAAATGTTAACGC	59.459	33.333	0.26	0.00	0.00	4.84
2221	7089	5.631512	GGACGAGAAATATGACTATGACTGC	59.368	44.000	0.00	0.00	0.00	4.40
2259	7127	2.727777	CGTTCTTGACACTGAAGACGA	58.272	47.619	0.00	0.00	31.43	4.20
2363	10718	7.232127	AGGTTGTCTTCTTGAATTCATCAACAT	59.768	33.333	22.42	18.05	43.08	2.71
2364	10719	7.540055	GGTTGTCTTCTTGAATTCATCAACATC	59.460	37.037	22.42	15.88	43.08	3.06
2365	10720	7.991084	TGTCTTCTTGAATTCATCAACATCT	57.009	32.000	9.40	0.00	43.08	2.90
2394	10749	1.623811	AGCGTATGACTGGGTCAACTT	59.376	47.619	4.46	0.00	45.96	2.66
2414	10769	4.283467	ACTTAAAATTTCAGGACTTGGCCC	59.717	41.667	0.00	0.00	0.00	5.80
2567	16777	4.731313	AGGAGAAAGTTGGAACAGGAAT	57.269	40.909	0.00	0.00	42.39	3.01
2578	16788	6.486993	AGTTGGAACAGGAATCTCAACTTAAC	59.513	38.462	0.00	0.00	41.00	2.01
2636	16846	3.730761	GCAAGCACTCTGGGCACG	61.731	66.667	0.00	0.00	0.00	5.34
2682	16892	2.933878	AAGGTTCGCAACAGACGCCA	62.934	55.000	2.28	0.00	0.00	5.69
2699	16909	3.900892	ACATCGCGGCTCGGTAGG	61.901	66.667	6.13	0.00	39.05	3.18
2708	16918	1.067582	GCTCGGTAGGAACCCATCG	59.932	63.158	0.00	0.00	43.54	3.84
2726	16950	0.736325	CGTCACCGACATGAAGTCCC	60.736	60.000	0.00	0.00	44.66	4.46
2732	16956	4.096003	ACATGAAGTCCCGGGGCG	62.096	66.667	21.92	7.53	0.00	6.13
2743	16967	2.036006	CCGGGGCGACGAAATTCAA	61.036	57.895	0.00	0.00	35.47	2.69
2750	16974	1.401018	GCGACGAAATTCAACCTTGGG	60.401	52.381	0.00	0.00	0.00	4.12
2761	16985	2.772924	CCTTGGGAAGGCCACCAT	59.227	61.111	18.41	0.00	42.78	3.55
2774	16998	2.158943	GGCCACCATAGAACTAGTCACC	60.159	54.545	0.00	0.00	0.00	4.02
2778	17002	1.754803	CCATAGAACTAGTCACCGCCA	59.245	52.381	0.00	0.00	0.00	5.69
2800	17028	5.602978	CCATAGTTGGATCCTACCTACTTGT	59.397	44.000	20.86	5.17	46.92	3.16
2803	17031	6.051179	AGTTGGATCCTACCTACTTGTTTC	57.949	41.667	20.86	0.00	41.59	2.78
2812	17040	4.411256	ACCTACTTGTTTCGTTTCCTGA	57.589	40.909	0.00	0.00	0.00	3.86
2816	17044	6.151480	ACCTACTTGTTTCGTTTCCTGAAAAA	59.849	34.615	0.00	0.00	37.10	1.94
2857	17085	5.220557	TGTGCAAATCAGATGTCGTAATG	57.779	39.130	0.00	0.00	0.00	1.90
2863	17091	1.749063	TCAGATGTCGTAATGGTCGCT	59.251	47.619	0.00	0.00	0.00	4.93
2877	17105	3.381045	TGGTCGCTAGCTTCATTTATCG	58.619	45.455	13.93	0.00	0.00	2.92
2885	17113	5.409826	GCTAGCTTCATTTATCGTGCCTTAT	59.590	40.000	7.70	0.00	0.00	1.73
2888	17116	7.100458	AGCTTCATTTATCGTGCCTTATTTT	57.900	32.000	0.00	0.00	0.00	1.82
2892	17120	9.573133	CTTCATTTATCGTGCCTTATTTTTCTT	57.427	29.630	0.00	0.00	0.00	2.52

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
43	44	1.507141	CGACAGTGTCAGCCCCAAAC	61.507	60.000	22.66	0.00	32.09	2.93
58	59	0.867746	GCAAGTGTGATCAAGCGACA	59.132	50.000	0.00	0.00	0.00	4.35
84	88	7.714813	TGAGTTCTTCAGTGTTATTGAATGTCA	59.285	33.333	0.00	0.00	34.33	3.58
100	104	5.474189	TCATGATTGTGCAATGAGTTCTTCA	59.526	36.000	1.77	0.00	40.85	3.02
191	196	5.408299	TCACTTGATCTTGTACACAAATCCG	59.592	40.000	0.00	0.00	35.15	4.18
266	274	8.578593	AGGAATGGATGGCTATATATGATCTT	57.421	34.615	0.00	0.00	0.00	2.40
270	278	8.860517	ACTAAGGAATGGATGGCTATATATGA	57.139	34.615	0.00	0.00	0.00	2.15
303	311	8.504005	GTGTAGCAAACTTAAGAAGCAAGATTA	58.496	33.333	10.09	0.00	0.00	1.75
315	323	5.043737	ACCAAGGAGTGTAGCAAACTTAA	57.956	39.130	0.00	0.00	0.00	1.85
340	348	6.763355	AGCTTTGAGAGATGAAGTAACTTGA	58.237	36.000	0.00	0.00	0.00	3.02
505	1599	5.182190	AAGTTTTCTTGGCTAAGCTAGCTTC	59.818	40.000	32.51	19.23	42.48	3.86
619	1717	8.353423	ACAAACATTTAGCACTAATCCATTCT	57.647	30.769	0.00	0.00	0.00	2.40
630	1728	8.905103	AATTCCGTAATACAAACATTTAGCAC	57.095	30.769	0.00	0.00	0.00	4.40
728	1832	1.064621	GCGCATGCCAATTGACGAT	59.935	52.632	13.15	0.00	33.98	3.73
759	1968	2.767505	GAACCTGGTCACACCTAACAG	58.232	52.381	0.00	0.00	39.58	3.16
783	1995	1.118965	TCGGCTGAGAGAAACCCACA	61.119	55.000	0.00	0.00	0.00	4.17
843	2061	1.649171	GCTGTCTCACGTTGTACATCG	59.351	52.381	21.59	21.59	0.00	3.84
896	2114	0.332972	AGAAGCTGGGATTTGGGGTC	59.667	55.000	0.00	0.00	0.00	4.46
949	2176	1.755959	CCTGAGATCACACTCCTGGAG	59.244	57.143	22.00	22.00	36.22	3.86
950	2177	1.359130	TCCTGAGATCACACTCCTGGA	59.641	52.381	0.00	0.00	36.75	3.86
951	2178	1.755959	CTCCTGAGATCACACTCCTGG	59.244	57.143	0.00	0.00	36.22	4.45
952	2179	2.166050	CACTCCTGAGATCACACTCCTG	59.834	54.545	0.22	0.00	36.22	3.86
953	2180	2.225242	ACACTCCTGAGATCACACTCCT	60.225	50.000	0.22	0.00	36.22	3.69
954	2181	2.094286	CACACTCCTGAGATCACACTCC	60.094	54.545	0.22	0.00	36.22	3.85
955	2182	2.822561	TCACACTCCTGAGATCACACTC	59.177	50.000	0.22	0.00	37.42	3.51
956	2183	2.881734	TCACACTCCTGAGATCACACT	58.118	47.619	0.22	0.00	0.00	3.55
957	2184	3.446873	AGATCACACTCCTGAGATCACAC	59.553	47.826	0.22	0.00	43.40	3.82
958	2185	3.698539	GAGATCACACTCCTGAGATCACA	59.301	47.826	0.22	0.00	43.40	3.58
959	2186	3.698539	TGAGATCACACTCCTGAGATCAC	59.301	47.826	0.22	5.26	43.40	3.06
960	2187	3.973425	TGAGATCACACTCCTGAGATCA	58.027	45.455	0.22	0.00	43.40	2.92
1512	2834	3.433453	TCGTCGTCGGATTCGCCA	61.433	61.111	1.55	0.00	37.69	5.69
1558	2886	4.040047	ACATGGATGAGGTATGACAAGGA	58.960	43.478	0.00	0.00	0.00	3.36
1561	2889	4.842531	ACACATGGATGAGGTATGACAA	57.157	40.909	0.00	0.00	0.00	3.18
1698	3026	0.941542	GTGCGTTTTGCCAGTAGACA	59.058	50.000	0.00	0.00	45.60	3.41
1738	3066	8.754080	GCCAGTATGATACCTCATAAGATAGTT	58.246	37.037	0.00	0.00	44.07	2.24
1773	3101	3.250744	TGTTAAAGGAGAATGACGAGCG	58.749	45.455	0.00	0.00	0.00	5.03
1852	3200	7.395772	TGACAAGGTCATCCTGCAAATATAAAA	59.604	33.333	0.00	0.00	44.35	1.52
1858	3206	3.087031	CTGACAAGGTCATCCTGCAAAT	58.913	45.455	0.00	0.00	44.35	2.32
1870	3218	4.890158	TGTATGTGTGATCTGACAAGGT	57.110	40.909	0.00	0.00	0.00	3.50
1892	3240	8.865420	TTTGGCACATGGTAGTTTAATTACTA	57.135	30.769	0.00	0.00	39.30	1.82
1926	3274	1.611491	CACCGGCACATGGTAGTTTTT	59.389	47.619	0.00	0.00	37.72	1.94
1927	3275	1.202830	TCACCGGCACATGGTAGTTTT	60.203	47.619	0.00	0.00	37.72	2.43
1928	3276	0.398696	TCACCGGCACATGGTAGTTT	59.601	50.000	0.00	0.00	37.72	2.66
1929	3277	0.398696	TTCACCGGCACATGGTAGTT	59.601	50.000	0.00	0.00	37.72	2.24
1930	3278	0.618458	ATTCACCGGCACATGGTAGT	59.382	50.000	0.00	0.00	37.72	2.73
1931	3279	1.401552	CAATTCACCGGCACATGGTAG	59.598	52.381	0.00	0.00	37.72	3.18
1932	3280	1.003696	TCAATTCACCGGCACATGGTA	59.996	47.619	0.00	0.00	37.72	3.25
1933	3281	0.251121	TCAATTCACCGGCACATGGT	60.251	50.000	0.00	0.00	41.47	3.55
1934	3282	1.105457	ATCAATTCACCGGCACATGG	58.895	50.000	0.00	0.00	0.00	3.66
1935	3283	2.287188	GCTATCAATTCACCGGCACATG	60.287	50.000	0.00	0.00	0.00	3.21
1936	3284	1.949525	GCTATCAATTCACCGGCACAT	59.050	47.619	0.00	0.00	0.00	3.21
1937	3285	1.339535	TGCTATCAATTCACCGGCACA	60.340	47.619	0.00	0.00	0.00	4.57
1956	3304	3.141398	CCGAGATGGTGGTTGGAATATG	58.859	50.000	0.00	0.00	0.00	1.78
1978	3326	2.125326	CACCCCTCGCGATGACCTA	61.125	63.158	10.36	0.00	0.00	3.08
1981	3329	0.104304	AATACACCCCTCGCGATGAC	59.896	55.000	10.36	0.00	0.00	3.06
2084	6913	5.731591	CTCAAAGGTCTTAAGACGGGTATT	58.268	41.667	25.44	14.21	45.65	1.89
2102	6943	2.617250	GCATTGTCGTCATGCTCAAA	57.383	45.000	8.39	0.00	38.22	2.69
2107	6948	1.197492	TGTTGAGCATTGTCGTCATGC	59.803	47.619	7.78	7.78	41.29	4.06
2108	6949	3.058708	AGTTGTTGAGCATTGTCGTCATG	60.059	43.478	0.00	0.00	0.00	3.07
2109	6950	3.141398	AGTTGTTGAGCATTGTCGTCAT	58.859	40.909	0.00	0.00	0.00	3.06
2110	6951	2.560504	AGTTGTTGAGCATTGTCGTCA	58.439	42.857	0.00	0.00	0.00	4.35
2111	6952	3.609103	AAGTTGTTGAGCATTGTCGTC	57.391	42.857	0.00	0.00	0.00	4.20
2112	6953	3.376859	TCAAAGTTGTTGAGCATTGTCGT	59.623	39.130	0.00	0.00	0.00	4.34
2113	6954	3.951306	TCAAAGTTGTTGAGCATTGTCG	58.049	40.909	0.00	0.00	0.00	4.35
2117	6958	5.581126	TGTCTTCAAAGTTGTTGAGCATT	57.419	34.783	0.00	0.00	0.00	3.56
2131	6972	8.859090	ACATTTTGTAAGATCCATTGTCTTCAA	58.141	29.630	0.00	0.00	37.18	2.69
2132	6973	8.408043	ACATTTTGTAAGATCCATTGTCTTCA	57.592	30.769	0.00	0.00	37.18	3.02
2178	7019	2.305635	TCCACTATGGCTTTCTGCTCAA	59.694	45.455	0.00	0.00	42.39	3.02
2185	7026	2.961526	TCTCGTCCACTATGGCTTTC	57.038	50.000	0.00	0.00	37.47	2.62
2192	7033	8.516234	GTCATAGTCATATTTCTCGTCCACTAT	58.484	37.037	0.00	0.00	0.00	2.12
2193	7034	7.720074	AGTCATAGTCATATTTCTCGTCCACTA	59.280	37.037	0.00	0.00	0.00	2.74
2221	7089	1.402259	ACGCTATCCTCGTCAGAGTTG	59.598	52.381	0.00	0.00	42.86	3.16
2259	7127	2.159142	ACGTCTTCAACCTCTTCAACGT	60.159	45.455	0.00	0.00	37.29	3.99
2363	10718	4.503469	CCAGTCATACGCTAGTCCTCTAGA	60.503	50.000	6.47	0.00	44.52	2.43
2364	10719	3.749088	CCAGTCATACGCTAGTCCTCTAG	59.251	52.174	0.00	0.00	44.55	2.43
2365	10720	3.496337	CCCAGTCATACGCTAGTCCTCTA	60.496	52.174	0.00	0.00	0.00	2.43
2394	10749	2.823154	CGGGCCAAGTCCTGAAATTTTA	59.177	45.455	4.39	0.00	34.34	1.52
2414	10769	0.677731	ACTGGCCATGTCCATGAACG	60.678	55.000	5.51	0.00	41.20	3.95
2567	16777	5.011738	AGTTGGATTCCTCGTTAAGTTGAGA	59.988	40.000	3.95	0.00	34.04	3.27
2578	16788	5.080969	TGTAGGTAAAGTTGGATTCCTCG	57.919	43.478	3.95	0.00	0.00	4.63
2636	16846	0.035915	GAGTCCTTGACCCTCTTGGC	60.036	60.000	0.00	0.00	37.83	4.52
2666	16876	1.841663	ATGTGGCGTCTGTTGCGAAC	61.842	55.000	0.00	0.00	0.00	3.95
2670	16880	2.476051	CGATGTGGCGTCTGTTGC	59.524	61.111	0.00	0.00	0.00	4.17
2671	16881	2.476051	GCGATGTGGCGTCTGTTG	59.524	61.111	0.00	0.00	0.00	3.33
2682	16892	3.900892	CCTACCGAGCCGCGATGT	61.901	66.667	8.23	0.00	44.57	3.06
2708	16918	0.736325	CGGGACTTCATGTCGGTGAC	60.736	60.000	0.00	0.00	46.24	3.67
2726	16950	1.133869	GTTGAATTTCGTCGCCCCG	59.866	57.895	0.00	0.00	0.00	5.73
2732	16956	3.057526	CCTTCCCAAGGTTGAATTTCGTC	60.058	47.826	0.00	0.00	43.95	4.20
2750	16974	3.451178	TGACTAGTTCTATGGTGGCCTTC	59.549	47.826	3.32	0.00	0.00	3.46
2761	16985	3.894759	ACTATGGCGGTGACTAGTTCTA	58.105	45.455	0.00	0.00	0.00	2.10
2778	17002	7.417570	CGAAACAAGTAGGTAGGATCCAACTAT	60.418	40.741	15.82	0.00	0.00	2.12
2831	17059	5.413969	ACGACATCTGATTTGCACATATG	57.586	39.130	0.00	0.00	0.00	1.78
2832	17060	7.308169	CCATTACGACATCTGATTTGCACATAT	60.308	37.037	0.00	0.00	0.00	1.78
2850	17078	1.746787	TGAAGCTAGCGACCATTACGA	59.253	47.619	9.55	0.00	0.00	3.43
2852	17080	6.400091	CGATAAATGAAGCTAGCGACCATTAC	60.400	42.308	22.89	17.75	0.00	1.89
2857	17085	3.182572	CACGATAAATGAAGCTAGCGACC	59.817	47.826	9.55	3.08	31.66	4.79
2863	17091	7.801716	AAATAAGGCACGATAAATGAAGCTA	57.198	32.000	0.00	0.00	0.00	3.32

Based at the University of Bristol with support from BBSRC.

AutoCloner maintained by Alex Coulton.