AutoCloner

Multiple sequence alignment - TraesCS3B01G542200

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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	TraesCS3B01G542200	chr3B	100.000	2699	0	0	1	2699	780296513	780293815	0.000000e+00	4985.0
1	TraesCS3B01G542200	chr3B	88.040	1781	167	34	1	1761	780330548	780328794	0.000000e+00	2067.0
2	TraesCS3B01G542200	chr3B	84.607	1871	208	49	1	1835	780302730	780300904	0.000000e+00	1786.0
3	TraesCS3B01G542200	chr3B	84.051	1787	210	50	1	1761	780322192	780320455	0.000000e+00	1652.0
4	TraesCS3B01G542200	chr3B	83.996	1787	211	50	1	1761	780326797	780325060	0.000000e+00	1646.0
5	TraesCS3B01G542200	chr3B	83.940	1787	212	50	1	1761	780316818	780315081	0.000000e+00	1640.0
6	TraesCS3B01G542200	chr3B	90.119	253	15	6	1	250	780337159	780336914	1.210000e-83	320.0
7	TraesCS3B01G542200	chr3B	86.408	309	12	5	1	306	780306385	780306104	7.260000e-81	311.0
8	TraesCS3B01G542200	chr3D	86.136	1861	207	33	1	1835	583182294	583180459	0.000000e+00	1960.0
9	TraesCS3B01G542200	chr3D	85.983	1862	208	40	1	1835	583278899	583277064	0.000000e+00	1943.0
10	TraesCS3B01G542200	chr3D	93.990	1198	56	6	757	1951	583162206	583161022	0.000000e+00	1799.0
11	TraesCS3B01G542200	chr3D	85.232	1747	198	44	121	1835	583188165	583186447	0.000000e+00	1742.0
12	TraesCS3B01G542200	chr3D	94.066	1129	61	3	757	1880	583179303	583178176	0.000000e+00	1709.0
13	TraesCS3B01G542200	chr3D	91.614	1109	79	7	793	1896	583027005	583025906	0.000000e+00	1520.0
14	TraesCS3B01G542200	chr3D	93.346	1022	62	4	863	1880	583275015	583273996	0.000000e+00	1506.0
15	TraesCS3B01G542200	chr3D	81.717	1805	215	60	69	1835	583170658	583168931	0.000000e+00	1399.0
16	TraesCS3B01G542200	chr3D	81.112	1726	213	65	69	1761	583225500	583223855	0.000000e+00	1277.0
17	TraesCS3B01G542200	chr3D	82.098	1430	179	43	434	1835	583284706	583283326	0.000000e+00	1151.0
18	TraesCS3B01G542200	chr3D	86.154	390	39	12	2211	2594	583188621	583188241	9.000000e-110	407.0
19	TraesCS3B01G542200	chr3D	92.727	55	4	0	2575	2629	583161022	583160968	2.230000e-11	80.5
20	TraesCS3B01G542200	chr6A	84.894	1880	185	54	759	2596	34273335	34271513	0.000000e+00	1807.0
21	TraesCS3B01G542200	chr6A	84.467	1867	194	50	759	2596	34390707	34388908	0.000000e+00	1753.0
22	TraesCS3B01G542200	chr6A	87.953	1270	112	14	759	2015	34278137	34276896	0.000000e+00	1459.0
23	TraesCS3B01G542200	chrUn	84.965	1869	175	59	759	2596	101984231	101982438	0.000000e+00	1797.0
24	TraesCS3B01G542200	chrUn	90.779	1117	79	12	793	1896	41699047	41700152	0.000000e+00	1471.0
25	TraesCS3B01G542200	chrUn	89.053	338	25	7	1	337	352587618	352587944	2.500000e-110	409.0
26	TraesCS3B01G542200	chrUn	87.755	98	12	0	654	751	41696968	41697065	6.110000e-22	115.0
27	TraesCS3B01G542200	chr6B	84.652	1896	183	51	759	2596	62676357	62674512	0.000000e+00	1790.0
28	TraesCS3B01G542200	chr6B	85.080	1803	201	33	759	2537	62688906	62687148	0.000000e+00	1777.0
29	TraesCS3B01G542200	chr6B	84.154	1868	204	47	759	2596	62618644	62616839	0.000000e+00	1725.0
30	TraesCS3B01G542200	chr6B	88.821	1154	101	15	759	1898	62634143	62633004	0.000000e+00	1391.0
31	TraesCS3B01G542200	chr6B	81.116	699	85	23	1915	2596	62632948	62632280	1.430000e-142	516.0
32	TraesCS3B01G542200	chr6B	80.513	585	70	26	2027	2596	62683037	62682482	2.500000e-110	409.0
33	TraesCS3B01G542200	chr6B	80.882	408	56	14	2055	2461	62629296	62628910	4.370000e-78	302.0
34	TraesCS3B01G542200	chr6B	79.587	387	51	16	2027	2410	62679158	62678797	4.460000e-63	252.0
35	TraesCS3B01G542200	chr6B	83.152	184	22	6	2420	2596	62678497	62678316	2.780000e-35	159.0
36	TraesCS3B01G542200	chr6B	83.152	184	22	6	2420	2596	62684571	62684390	2.780000e-35	159.0
37	TraesCS3B01G542200	chr7D	75.943	557	65	29	200	751	39552959	39552467	3.500000e-54	222.0
38	TraesCS3B01G542200	chr4A	76.011	371	35	29	200	558	645502485	645502157	2.800000e-30	143.0
39	TraesCS3B01G542200	chr4A	98.667	75	1	0	2625	2699	245258111	245258037	1.690000e-27	134.0
40	TraesCS3B01G542200	chr4B	100.000	73	0	0	2627	2699	256336690	256336618	4.690000e-28	135.0
41	TraesCS3B01G542200	chr4B	100.000	71	0	0	2629	2699	207089596	207089666	6.060000e-27	132.0
42	TraesCS3B01G542200	chr7B	100.000	72	0	0	2628	2699	203280351	203280280	1.690000e-27	134.0
43	TraesCS3B01G542200	chr7B	98.649	74	0	1	2626	2699	400932352	400932280	2.180000e-26	130.0
44	TraesCS3B01G542200	chr5B	98.667	75	1	0	2625	2699	111682695	111682621	1.690000e-27	134.0
45	TraesCS3B01G542200	chr5B	100.000	72	0	0	2628	2699	694170746	694170675	1.690000e-27	134.0
46	TraesCS3B01G542200	chr5D	98.649	74	1	0	2626	2699	513512801	513512874	6.060000e-27	132.0
47	TraesCS3B01G542200	chr2A	100.000	71	0	0	2629	2699	238727246	238727176	6.060000e-27	132.0

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	TraesCS3B01G542200	chr3B	780293815	780296513	2698	True	4985.000000	4985	100.000000	1	2699	1	chr3B.!!$R1	2698
1	TraesCS3B01G542200	chr3B	780315081	780330548	15467	True	1751.250000	2067	85.006750	1	1761	4	chr3B.!!$R4	1760
2	TraesCS3B01G542200	chr3B	780300904	780306385	5481	True	1048.500000	1786	85.507500	1	1835	2	chr3B.!!$R3	1834
3	TraesCS3B01G542200	chr3D	583178176	583182294	4118	True	1834.500000	1960	90.101000	1	1880	2	chr3D.!!$R6	1879
4	TraesCS3B01G542200	chr3D	583273996	583278899	4903	True	1724.500000	1943	89.664500	1	1880	2	chr3D.!!$R8	1879
5	TraesCS3B01G542200	chr3D	583025906	583027005	1099	True	1520.000000	1520	91.614000	793	1896	1	chr3D.!!$R1	1103
6	TraesCS3B01G542200	chr3D	583168931	583170658	1727	True	1399.000000	1399	81.717000	69	1835	1	chr3D.!!$R2	1766
7	TraesCS3B01G542200	chr3D	583223855	583225500	1645	True	1277.000000	1277	81.112000	69	1761	1	chr3D.!!$R3	1692
8	TraesCS3B01G542200	chr3D	583283326	583284706	1380	True	1151.000000	1151	82.098000	434	1835	1	chr3D.!!$R4	1401
9	TraesCS3B01G542200	chr3D	583186447	583188621	2174	True	1074.500000	1742	85.693000	121	2594	2	chr3D.!!$R7	2473
10	TraesCS3B01G542200	chr3D	583160968	583162206	1238	True	939.750000	1799	93.358500	757	2629	2	chr3D.!!$R5	1872
11	TraesCS3B01G542200	chr6A	34388908	34390707	1799	True	1753.000000	1753	84.467000	759	2596	1	chr6A.!!$R1	1837
12	TraesCS3B01G542200	chr6A	34271513	34278137	6624	True	1633.000000	1807	86.423500	759	2596	2	chr6A.!!$R2	1837
13	TraesCS3B01G542200	chrUn	101982438	101984231	1793	True	1797.000000	1797	84.965000	759	2596	1	chrUn.!!$R1	1837
14	TraesCS3B01G542200	chrUn	41696968	41700152	3184	False	793.000000	1471	89.267000	654	1896	2	chrUn.!!$F2	1242
15	TraesCS3B01G542200	chr6B	62616839	62618644	1805	True	1725.000000	1725	84.154000	759	2596	1	chr6B.!!$R1	1837
16	TraesCS3B01G542200	chr6B	62674512	62688906	14394	True	757.666667	1790	82.689333	759	2596	6	chr6B.!!$R3	1837
17	TraesCS3B01G542200	chr6B	62628910	62634143	5233	True	736.333333	1391	83.606333	759	2596	3	chr6B.!!$R2	1837

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
305	4291	1.409064	TGGTAGCAGAACCAGATAGCG	59.591	52.381	1.78	0.0	44.68	4.26	F

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability	Orientation
2189	39011	0.030773	GTGAGCATACGATCGCCAGA	59.969	55.0	16.6	0.0	31.8	3.86	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
238	4224	1.689984	TGCAACTGAAACATGCCAGA	58.310	45.000	14.74	0.00	39.31	3.86
305	4291	1.409064	TGGTAGCAGAACCAGATAGCG	59.591	52.381	1.78	0.00	44.68	4.26
573	4585	7.207383	CCCATAGACTCGTTCATAAATGTACA	58.793	38.462	0.00	0.00	0.00	2.90
694	8445	4.945543	TGAGCATGCAACTATGTGAAGATT	59.054	37.500	21.98	0.00	0.00	2.40
702	8453	5.406780	GCAACTATGTGAAGATTCCCTATCG	59.593	44.000	0.00	0.00	38.36	2.92
775	8575	5.838529	TGAGTGAACATGAGACGACTTTTA	58.161	37.500	0.00	0.00	0.00	1.52
883	10569	7.390823	TGTCTACCAATCAAATGCAACTACTA	58.609	34.615	0.00	0.00	0.00	1.82
1059	12782	2.038837	TCGCGTCAGTGAGACCGAT	61.039	57.895	5.77	0.00	44.66	4.18
1297	13020	0.681564	AGAGACCTTCGCCGAGATGT	60.682	55.000	0.00	0.00	0.00	3.06
1322	13045	0.465824	ATCATCCAAGAGCTGCAGGC	60.466	55.000	17.12	7.98	42.19	4.85
1633	29157	4.885907	GCATTGGAGATCTTCAGAATGGAA	59.114	41.667	14.83	0.00	36.16	3.53
1675	29199	8.095169	GGAAATTAGTCCAGAACAGAGTTTCTA	58.905	37.037	0.00	0.00	37.65	2.10
1763	38481	1.685517	TGAGGATGAGCCGATCTTGAG	59.314	52.381	0.00	0.00	43.43	3.02
1764	38482	1.000731	GAGGATGAGCCGATCTTGAGG	59.999	57.143	0.00	0.00	43.43	3.86
1854	38608	7.864108	TCCATCTCAAATTTTGTGATATCGT	57.136	32.000	20.41	3.39	40.70	3.73
1886	38643	6.310149	TCTCTGGAGCTCTGTGATGAATATA	58.690	40.000	14.64	0.00	0.00	0.86
1896	38653	9.217278	GCTCTGTGATGAATATACATGAGAAAT	57.783	33.333	0.00	0.00	0.00	2.17
1938	38698	9.577222	ACATGTGTATGATTTCAATCCATCATA	57.423	29.630	0.00	0.00	40.09	2.15
2011	38775	7.495901	TGTGGTAAATCACAACAACAATGATT	58.504	30.769	0.00	0.00	43.70	2.57
2022	38794	7.490725	CACAACAACAATGATTTTAGACCAACA	59.509	33.333	0.00	0.00	0.00	3.33
2025	38797	6.646240	ACAACAATGATTTTAGACCAACATGC	59.354	34.615	0.00	0.00	0.00	4.06
2041	38815	1.714899	ATGCAGGTTATCGGTTGCGC	61.715	55.000	0.00	0.00	39.34	6.09
2042	38816	3.098555	CAGGTTATCGGTTGCGCC	58.901	61.111	4.18	0.00	0.00	6.53
2139	38961	2.560542	GCCACATGGTTGATGGTTGTAA	59.439	45.455	0.00	0.00	36.23	2.41
2141	38963	4.400884	GCCACATGGTTGATGGTTGTAATA	59.599	41.667	0.00	0.00	36.23	0.98
2142	38964	5.105554	GCCACATGGTTGATGGTTGTAATAA	60.106	40.000	0.00	0.00	36.23	1.40
2155	38977	9.669353	GATGGTTGTAATAAGCACATAAATCAG	57.331	33.333	0.00	0.00	0.00	2.90
2156	38978	8.800370	TGGTTGTAATAAGCACATAAATCAGA	57.200	30.769	0.00	0.00	0.00	3.27
2158	38980	9.669353	GGTTGTAATAAGCACATAAATCAGATG	57.331	33.333	0.00	0.00	0.00	2.90
2160	38982	9.625747	TTGTAATAAGCACATAAATCAGATGGA	57.374	29.630	0.00	0.00	0.00	3.41
2161	38983	9.276590	TGTAATAAGCACATAAATCAGATGGAG	57.723	33.333	0.00	0.00	0.00	3.86
2162	38984	9.277783	GTAATAAGCACATAAATCAGATGGAGT	57.722	33.333	0.00	0.00	0.00	3.85
2164	38986	9.499479	AATAAGCACATAAATCAGATGGAGTAG	57.501	33.333	0.00	0.00	0.00	2.57
2184	39006	4.851639	AGCAGATTCCCTTCATAGTTGT	57.148	40.909	0.00	0.00	0.00	3.32
2189	39011	7.836183	AGCAGATTCCCTTCATAGTTGTAAATT	59.164	33.333	0.00	0.00	0.00	1.82
2195	39017	5.220854	CCCTTCATAGTTGTAAATTCTGGCG	60.221	44.000	0.00	0.00	0.00	5.69
2199	39021	5.462068	TCATAGTTGTAAATTCTGGCGATCG	59.538	40.000	11.69	11.69	0.00	3.69
2202	39024	5.357257	AGTTGTAAATTCTGGCGATCGTAT	58.643	37.500	17.81	0.34	0.00	3.06
2203	39025	5.234329	AGTTGTAAATTCTGGCGATCGTATG	59.766	40.000	17.81	6.99	0.00	2.39
2204	39026	3.493129	TGTAAATTCTGGCGATCGTATGC	59.507	43.478	17.81	0.00	0.00	3.14
2205	39027	2.533266	AATTCTGGCGATCGTATGCT	57.467	45.000	17.81	0.00	0.00	3.79
2206	39028	2.071688	ATTCTGGCGATCGTATGCTC	57.928	50.000	17.81	0.00	0.00	4.26
2207	39029	0.744281	TTCTGGCGATCGTATGCTCA	59.256	50.000	17.81	5.31	0.00	4.26
2208	39030	0.030773	TCTGGCGATCGTATGCTCAC	59.969	55.000	17.81	0.00	0.00	3.51
2209	39031	0.031314	CTGGCGATCGTATGCTCACT	59.969	55.000	17.81	0.00	0.00	3.41
2289	39116	9.287373	TCACATTGCTGATATAATCAAATAGCA	57.713	29.630	0.00	0.00	39.11	3.49
2505	39343	7.336679	CACATTAACACCAATAACATCTCTCCA	59.663	37.037	0.00	0.00	0.00	3.86
2511	39349	6.879458	ACACCAATAACATCTCTCCAGTAAAC	59.121	38.462	0.00	0.00	0.00	2.01
2552	39394	8.250143	TCATCAAAGCATGGTAGATAGACTTA	57.750	34.615	11.12	0.00	0.00	2.24
2554	39396	7.661536	TCAAAGCATGGTAGATAGACTTAGT	57.338	36.000	0.00	0.00	0.00	2.24
2633	39478	8.884124	AAATCCATTACCACTATATTCCATGG	57.116	34.615	4.97	4.97	38.26	3.66
2635	39480	7.829224	TCCATTACCACTATATTCCATGGAT	57.171	36.000	17.06	8.54	35.16	3.41
2636	39481	8.230848	TCCATTACCACTATATTCCATGGATT	57.769	34.615	17.06	14.99	35.16	3.01
2637	39482	8.677871	TCCATTACCACTATATTCCATGGATTT	58.322	33.333	17.06	9.13	35.16	2.17
2638	39483	8.960591	CCATTACCACTATATTCCATGGATTTC	58.039	37.037	17.06	0.00	36.04	2.17
2639	39484	8.668353	CATTACCACTATATTCCATGGATTTCG	58.332	37.037	17.06	6.17	36.04	3.46
2641	39486	6.467677	ACCACTATATTCCATGGATTTCGAG	58.532	40.000	17.06	11.85	36.04	4.04
2644	39489	6.309009	CACTATATTCCATGGATTTCGAGTCG	59.691	42.308	17.06	6.09	0.00	4.18
2645	39490	1.651987	TTCCATGGATTTCGAGTCGC	58.348	50.000	17.06	0.00	0.00	5.19
2646	39491	0.824109	TCCATGGATTTCGAGTCGCT	59.176	50.000	11.44	0.00	0.00	4.93
2647	39492	1.202417	TCCATGGATTTCGAGTCGCTC	60.202	52.381	11.44	4.43	0.00	5.03
2694	39539	8.804688	GACTAGTCTATGAGTCGCAAAAATAT	57.195	34.615	15.91	0.00	33.27	1.28
2695	39540	8.581057	ACTAGTCTATGAGTCGCAAAAATATG	57.419	34.615	0.00	0.00	0.00	1.78
2696	39541	6.851222	AGTCTATGAGTCGCAAAAATATGG	57.149	37.500	0.00	0.00	0.00	2.74
2698	39543	6.480320	AGTCTATGAGTCGCAAAAATATGGTC	59.520	38.462	0.00	0.00	0.00	4.02

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
573	4585	4.390297	GCTCTGCTGTCTTCTTATCGTTTT	59.610	41.667	0.00	0.00	0.00	2.43
694	8445	6.989155	AACAATGGTATAGTTCGATAGGGA	57.011	37.500	0.00	0.00	0.00	4.20
751	8502	4.527509	AAGTCGTCTCATGTTCACTCAT	57.472	40.909	0.00	0.00	0.00	2.90
752	8503	4.322080	AAAGTCGTCTCATGTTCACTCA	57.678	40.909	0.00	0.00	0.00	3.41
883	10569	8.674607	CGAAGGCCTATTTATACAGAAAACTTT	58.325	33.333	5.16	0.00	0.00	2.66
908	10604	1.135286	TGATGTGTCTACTGCTCTGCG	60.135	52.381	0.00	0.00	0.00	5.18
1043	12766	0.388649	AACATCGGTCTCACTGACGC	60.389	55.000	0.00	0.00	46.24	5.19
1297	13020	0.627451	AGCTCTTGGATGATGGCCAA	59.373	50.000	10.96	0.00	42.81	4.52
1322	13045	2.695666	TCATCTCCTTTCCTTAGAGCCG	59.304	50.000	0.00	0.00	0.00	5.52
1763	38481	6.062095	ACTGTATACATATGGGAAAACTGCC	58.938	40.000	5.91	0.00	0.00	4.85
1764	38482	7.713507	TGTACTGTATACATATGGGAAAACTGC	59.286	37.037	5.91	0.00	0.00	4.40
1812	38562	6.008960	AGATGGATCAAAACTTTGCTCTTCT	58.991	36.000	6.12	6.27	38.05	2.85
1854	38608	4.159321	CACAGAGCTCCAGAGAGATGTTAA	59.841	45.833	10.93	0.00	39.37	2.01
1896	38653	9.546428	CATACACATGTCCTTTTCTCATGTATA	57.454	33.333	0.00	4.31	46.54	1.47
1897	38654	8.267183	TCATACACATGTCCTTTTCTCATGTAT	58.733	33.333	0.00	2.33	46.54	2.29
1898	38655	7.619965	TCATACACATGTCCTTTTCTCATGTA	58.380	34.615	0.00	0.00	46.54	2.29
1900	38657	6.990341	TCATACACATGTCCTTTTCTCATG	57.010	37.500	0.00	0.00	42.86	3.07
1901	38658	8.585471	AAATCATACACATGTCCTTTTCTCAT	57.415	30.769	0.00	0.00	33.57	2.90
1902	38659	7.665145	TGAAATCATACACATGTCCTTTTCTCA	59.335	33.333	0.00	0.00	33.57	3.27
1903	38660	8.044060	TGAAATCATACACATGTCCTTTTCTC	57.956	34.615	0.00	0.00	33.57	2.87
1904	38661	8.408043	TTGAAATCATACACATGTCCTTTTCT	57.592	30.769	0.00	0.00	33.57	2.52
1905	38662	9.294030	GATTGAAATCATACACATGTCCTTTTC	57.706	33.333	0.00	1.35	35.49	2.29
1906	38663	8.253113	GGATTGAAATCATACACATGTCCTTTT	58.747	33.333	0.00	0.00	37.15	2.27
1907	38664	7.396907	TGGATTGAAATCATACACATGTCCTTT	59.603	33.333	0.00	0.00	37.15	3.11
1908	38665	6.891361	TGGATTGAAATCATACACATGTCCTT	59.109	34.615	0.00	0.00	37.15	3.36
1996	38757	7.490725	TGTTGGTCTAAAATCATTGTTGTTGTG	59.509	33.333	0.00	0.00	0.00	3.33
1998	38759	8.489559	CATGTTGGTCTAAAATCATTGTTGTTG	58.510	33.333	0.00	0.00	0.00	3.33
2011	38775	4.634004	CGATAACCTGCATGTTGGTCTAAA	59.366	41.667	16.55	0.00	35.17	1.85
2022	38794	1.714899	GCGCAACCGATAACCTGCAT	61.715	55.000	0.30	0.00	36.29	3.96
2025	38797	1.743623	TGGCGCAACCGATAACCTG	60.744	57.895	10.83	0.00	43.94	4.00
2041	38815	5.928976	TCATGAATCTTATGGTAGGTGTGG	58.071	41.667	0.00	0.00	0.00	4.17
2042	38816	9.212641	CTAATCATGAATCTTATGGTAGGTGTG	57.787	37.037	0.00	0.00	0.00	3.82
2139	38961	7.605691	GCTACTCCATCTGATTTATGTGCTTAT	59.394	37.037	0.00	0.00	0.00	1.73
2141	38963	5.762218	GCTACTCCATCTGATTTATGTGCTT	59.238	40.000	0.00	0.00	0.00	3.91
2142	38964	5.163269	TGCTACTCCATCTGATTTATGTGCT	60.163	40.000	0.00	0.00	0.00	4.40
2155	38977	3.389329	TGAAGGGAATCTGCTACTCCATC	59.611	47.826	0.00	0.00	0.00	3.51
2156	38978	3.387962	TGAAGGGAATCTGCTACTCCAT	58.612	45.455	0.00	0.00	0.00	3.41
2158	38980	4.591072	ACTATGAAGGGAATCTGCTACTCC	59.409	45.833	0.00	0.00	0.00	3.85
2160	38982	5.426833	ACAACTATGAAGGGAATCTGCTACT	59.573	40.000	0.00	0.00	0.00	2.57
2161	38983	5.675538	ACAACTATGAAGGGAATCTGCTAC	58.324	41.667	0.00	0.00	0.00	3.58
2162	38984	5.957771	ACAACTATGAAGGGAATCTGCTA	57.042	39.130	0.00	0.00	0.00	3.49
2163	38985	4.851639	ACAACTATGAAGGGAATCTGCT	57.148	40.909	0.00	0.00	0.00	4.24
2164	38986	7.573968	ATTTACAACTATGAAGGGAATCTGC	57.426	36.000	0.00	0.00	0.00	4.26
2184	39006	3.987868	GAGCATACGATCGCCAGAATTTA	59.012	43.478	16.60	0.00	0.00	1.40
2189	39011	0.030773	GTGAGCATACGATCGCCAGA	59.969	55.000	16.60	0.00	31.80	3.86
2195	39017	2.793790	CTGAGCAAGTGAGCATACGATC	59.206	50.000	0.00	0.00	36.85	3.69
2199	39021	7.721286	ATATTAACTGAGCAAGTGAGCATAC	57.279	36.000	0.00	0.00	39.81	2.39
2202	39024	7.307694	CAAAATATTAACTGAGCAAGTGAGCA	58.692	34.615	0.00	0.00	39.81	4.26
2203	39025	6.749118	CCAAAATATTAACTGAGCAAGTGAGC	59.251	38.462	0.00	0.00	39.81	4.26
2204	39026	7.820648	ACCAAAATATTAACTGAGCAAGTGAG	58.179	34.615	0.00	0.00	39.81	3.51
2205	39027	7.759489	ACCAAAATATTAACTGAGCAAGTGA	57.241	32.000	0.00	0.00	39.81	3.41
2206	39028	9.507280	CATACCAAAATATTAACTGAGCAAGTG	57.493	33.333	0.00	0.00	39.81	3.16
2207	39029	9.243105	ACATACCAAAATATTAACTGAGCAAGT	57.757	29.630	0.00	0.00	42.60	3.16
2264	39091	9.902196	TTGCTATTTGATTATATCAGCAATGTG	57.098	29.630	8.89	0.66	39.93	3.21
2287	39114	8.242053	CCACTTGATCTATCCATCATATTTTGC	58.758	37.037	0.00	0.00	32.69	3.68
2361	39190	9.499479	CCAGCATACTAATATCTTTTCATCTGT	57.501	33.333	0.00	0.00	0.00	3.41
2474	39312	8.855110	AGATGTTATTGGTGTTAATGTGTCAAA	58.145	29.630	0.00	0.00	0.00	2.69
2477	39315	8.268850	AGAGATGTTATTGGTGTTAATGTGTC	57.731	34.615	0.00	0.00	0.00	3.67
2496	39334	3.887621	TTCCCGTTTACTGGAGAGATG	57.112	47.619	0.00	0.00	30.87	2.90
2505	39343	5.712917	TGAGGCAAAATATTTCCCGTTTACT	59.287	36.000	0.10	0.00	0.00	2.24
2511	39349	4.916983	TGATGAGGCAAAATATTTCCCG	57.083	40.909	0.10	0.00	0.00	5.14
2565	39410	3.680777	AACAGGGGTGGAGAAAGAAAA	57.319	42.857	0.00	0.00	0.00	2.29
2575	39420	5.105567	TGTATACAATGTAACAGGGGTGG	57.894	43.478	2.20	0.00	0.00	4.61
2669	39514	8.695284	CATATTTTTGCGACTCATAGACTAGTC	58.305	37.037	15.41	15.41	39.00	2.59
2670	39515	7.653713	CCATATTTTTGCGACTCATAGACTAGT	59.346	37.037	0.00	0.00	0.00	2.57
2671	39516	7.653713	ACCATATTTTTGCGACTCATAGACTAG	59.346	37.037	0.00	0.00	0.00	2.57
2674	39519	6.604735	ACCATATTTTTGCGACTCATAGAC	57.395	37.500	0.00	0.00	0.00	2.59
2675	39520	6.844696	GACCATATTTTTGCGACTCATAGA	57.155	37.500	0.00	0.00	0.00	1.98

Based at the University of Bristol with support from BBSRC.

AutoCloner maintained by Alex Coulton.