AutoCloner

Multiple sequence alignment - TraesCS5D01G459600

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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	TraesCS5D01G459600	chr5D	100.000	3362	0	0	1	3362	503470349	503473710	0.000000e+00	6209.0
1	TraesCS5D01G459600	chr5D	89.672	2227	195	20	89	2297	503431241	503433450	0.000000e+00	2806.0
2	TraesCS5D01G459600	chr5D	88.299	2299	226	30	16	2297	503502281	503504553	0.000000e+00	2715.0
3	TraesCS5D01G459600	chr5D	90.206	2042	187	9	160	2194	503651234	503653269	0.000000e+00	2651.0
4	TraesCS5D01G459600	chr5D	87.002	2308	274	20	1	2297	503642054	503644346	0.000000e+00	2577.0
5	TraesCS5D01G459600	chr5D	88.991	1090	56	18	2290	3354	503654570	503655620	0.000000e+00	1290.0
6	TraesCS5D01G459600	chr5D	86.091	1215	133	18	1094	2297	503637112	503638301	0.000000e+00	1275.0
7	TraesCS5D01G459600	chr5D	90.614	831	70	7	19	848	503636296	503637119	0.000000e+00	1096.0
8	TraesCS5D01G459600	chr5D	84.939	976	137	6	1325	2292	503644445	503645418	0.000000e+00	979.0
9	TraesCS5D01G459600	chr5D	84.156	385	29	16	2433	2813	503433593	503433949	8.930000e-91	344.0
10	TraesCS5D01G459600	chr5D	84.098	327	25	11	2833	3148	503434110	503434420	1.180000e-74	291.0
11	TraesCS5D01G459600	chr5D	82.890	263	24	8	2895	3148	503199641	503199891	2.030000e-52	217.0
12	TraesCS5D01G459600	chr5D	82.659	173	7	5	2590	2762	503199289	503199438	7.570000e-27	132.0
13	TraesCS5D01G459600	chr5D	88.889	108	8	2	2294	2400	503433489	503433593	2.720000e-26	130.0
14	TraesCS5D01G459600	chr5D	92.941	85	5	1	3279	3362	459067222	459067138	4.560000e-24	122.0
15	TraesCS5D01G459600	chr5B	89.584	3005	258	25	1	2980	632126603	632129577	0.000000e+00	3764.0
16	TraesCS5D01G459600	chr5B	80.922	477	49	20	1859	2295	632145480	632145006	4.160000e-89	339.0
17	TraesCS5D01G459600	chr5B	94.118	85	4	1	3279	3362	563123024	563122940	9.790000e-26	128.0
18	TraesCS5D01G459600	chr5A	90.300	2165	193	13	142	2297	631641593	631643749	0.000000e+00	2819.0
19	TraesCS5D01G459600	chr5A	90.122	1974	169	14	1	1970	631530482	631532433	0.000000e+00	2542.0
20	TraesCS5D01G459600	chr5A	89.777	1076	98	6	781	1852	631629209	631630276	0.000000e+00	1367.0
21	TraesCS5D01G459600	chr5A	88.944	805	76	9	1	803	631627350	631628143	0.000000e+00	981.0
22	TraesCS5D01G459600	chr5A	91.182	499	23	3	2696	3181	631644668	631644178	0.000000e+00	658.0
23	TraesCS5D01G459600	chr5A	92.500	400	19	5	2294	2692	631643788	631644177	2.260000e-156	562.0
24	TraesCS5D01G459600	chr5A	92.058	277	10	6	2381	2656	631631885	631632150	2.450000e-101	379.0
25	TraesCS5D01G459600	chr5A	86.111	180	23	2	3182	3359	631632147	631632326	3.420000e-45	193.0
26	TraesCS5D01G459600	chr5A	83.516	182	26	4	3178	3356	631644668	631644848	2.070000e-37	167.0
27	TraesCS5D01G459600	chr5A	94.048	84	4	1	3279	3362	578047252	578047170	3.520000e-25	126.0
28	TraesCS5D01G459600	chr7D	87.736	106	13	0	3249	3354	44403388	44403283	1.270000e-24	124.0
29	TraesCS5D01G459600	chr7D	87.736	106	13	0	3249	3354	44571605	44571500	1.270000e-24	124.0
30	TraesCS5D01G459600	chrUn	93.902	82	4	1	3279	3359	354341784	354341703	4.560000e-24	122.0
31	TraesCS5D01G459600	chr7A	92.857	84	6	0	3279	3362	46999470	46999387	4.560000e-24	122.0
32	TraesCS5D01G459600	chr1D	94.366	71	3	1	2696	2765	274951161	274951231	1.280000e-19	108.0
33	TraesCS5D01G459600	chr1D	91.781	73	5	1	2694	2765	274957117	274957189	2.130000e-17	100.0
34	TraesCS5D01G459600	chr1A	94.366	71	3	1	2696	2765	347621406	347621476	1.280000e-19	108.0
35	TraesCS5D01G459600	chr1A	89.041	73	7	1	2694	2765	347627232	347627304	4.620000e-14	89.8
36	TraesCS5D01G459600	chr1B	91.549	71	5	1	2696	2765	374319179	374319249	2.760000e-16	97.1

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	TraesCS5D01G459600	chr5D	503470349	503473710	3361	False	6209.000000	6209	100.00000	1	3362	1	chr5D.!!$F1	3361
1	TraesCS5D01G459600	chr5D	503502281	503504553	2272	False	2715.000000	2715	88.29900	16	2297	1	chr5D.!!$F2	2281
2	TraesCS5D01G459600	chr5D	503651234	503655620	4386	False	1970.500000	2651	89.59850	160	3354	2	chr5D.!!$F6	3194
3	TraesCS5D01G459600	chr5D	503636296	503645418	9122	False	1481.750000	2577	87.16150	1	2297	4	chr5D.!!$F5	2296
4	TraesCS5D01G459600	chr5D	503431241	503434420	3179	False	892.750000	2806	86.70375	89	3148	4	chr5D.!!$F4	3059
5	TraesCS5D01G459600	chr5B	632126603	632129577	2974	False	3764.000000	3764	89.58400	1	2980	1	chr5B.!!$F1	2979
6	TraesCS5D01G459600	chr5A	631530482	631532433	1951	False	2542.000000	2542	90.12200	1	1970	1	chr5A.!!$F1	1969
7	TraesCS5D01G459600	chr5A	631641593	631644848	3255	False	1182.666667	2819	88.77200	142	3356	3	chr5A.!!$F3	3214
8	TraesCS5D01G459600	chr5A	631627350	631632326	4976	False	730.000000	1367	89.22250	1	3359	4	chr5A.!!$F2	3358

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
858	7735	1.340248	TGAACACAGACTCGACCCTTC	59.66	52.381	0.0	0.0	0.00	3.46	F
1970	9932	0.250038	GCTCGGGCTGCTTATGATCA	60.25	55.000	0.0	0.0	35.22	2.92	F

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability	Orientation
2271	11245	0.244994	CTACTGCAAGGCACGTCTCT	59.755	55.0	0.0	0.0	39.30	3.10	R
3065	13770	0.108424	CTGAAGGCGAAGAGACTGGG	60.108	60.0	0.0	0.0	37.06	4.45	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
83	84	2.916716	CAATGTTTTCGCCAGTACATGC	59.083	45.455	0.00	0.00	31.98	4.06
121	124	3.803021	GCCACAAATCACTTGCCAATCAA	60.803	43.478	0.00	0.00	38.75	2.57
163	176	9.653287	TCTTATGTTGTTGATAACTCTGGTTAG	57.347	33.333	0.00	0.00	40.65	2.34
748	6539	6.718388	ACATGCATTCACAAATGTATACTCG	58.282	36.000	0.00	0.00	43.66	4.18
858	7735	1.340248	TGAACACAGACTCGACCCTTC	59.660	52.381	0.00	0.00	0.00	3.46
965	7842	3.564225	ACAGTTTCGGAATTGTTCTGGTC	59.436	43.478	0.00	0.00	32.48	4.02
1007	7884	2.450476	GCAACAGTGAGAAATGGGGAT	58.550	47.619	0.00	0.00	0.00	3.85
1008	7885	2.424956	GCAACAGTGAGAAATGGGGATC	59.575	50.000	0.00	0.00	0.00	3.36
1009	7886	3.689347	CAACAGTGAGAAATGGGGATCA	58.311	45.455	0.00	0.00	0.00	2.92
1029	7908	6.742718	GGATCAACATAGTTGAATGTTTCACG	59.257	38.462	15.54	0.00	45.54	4.35
1091	7970	2.672874	TCGATGTTGAAATCTCAAGCCG	59.327	45.455	0.00	0.00	42.27	5.52
1092	7971	2.672874	CGATGTTGAAATCTCAAGCCGA	59.327	45.455	0.00	0.00	42.27	5.54
1105	7984	3.210227	TCAAGCCGAAACAACATGAAGA	58.790	40.909	0.00	0.00	0.00	2.87
1146	8025	3.077359	GCTAGCAGGACAATGTTTGAGT	58.923	45.455	10.63	0.00	0.00	3.41
1157	8036	5.195940	ACAATGTTTGAGTATGGAGATGGG	58.804	41.667	0.00	0.00	0.00	4.00
1217	8096	1.135660	GGCGCTTAGGAAAACTCAAGC	60.136	52.381	7.64	0.00	39.96	4.01
1235	8120	3.801114	AGCTCAAGGAAAACAAACACC	57.199	42.857	0.00	0.00	0.00	4.16
1237	8122	3.131046	AGCTCAAGGAAAACAAACACCAG	59.869	43.478	0.00	0.00	0.00	4.00
1293	8178	1.200948	GCTCAGAACAACTGGCAATCC	59.799	52.381	0.00	0.00	45.76	3.01
1472	8357	2.422597	CAAGGTGGCTATCAAACGTGA	58.577	47.619	0.00	0.00	38.41	4.35
1475	8360	2.147958	GGTGGCTATCAAACGTGACAA	58.852	47.619	0.00	0.00	36.31	3.18
1481	8366	5.219633	GGCTATCAAACGTGACAAATTTGT	58.780	37.500	23.49	23.49	45.65	2.83
1530	8415	1.302366	TAGCGATGATGGCAAAGCTG	58.698	50.000	1.54	0.00	39.82	4.24
1624	8509	4.063967	CTCGTGGCACCCTGCGTA	62.064	66.667	12.86	0.00	46.21	4.42
1642	8527	4.102035	CGTAGGAACCTTTACGCTAACT	57.898	45.455	0.00	0.00	36.61	2.24
1708	8593	3.557903	ATTGGTGCTGCTCGTGCCT	62.558	57.895	7.05	0.00	38.71	4.75
1879	9841	9.021863	GTATCGGTTATATCGATCCTGAATTTC	57.978	37.037	0.00	0.00	44.82	2.17
1880	9842	7.228314	TCGGTTATATCGATCCTGAATTTCT	57.772	36.000	0.00	0.00	0.00	2.52
1970	9932	0.250038	GCTCGGGCTGCTTATGATCA	60.250	55.000	0.00	0.00	35.22	2.92
2080	10042	2.113860	TGAAGGAAAGATTGCTCCGG	57.886	50.000	0.00	0.00	36.78	5.14
2221	10617	1.681166	GCCTTGGTGATGAGATGCTGT	60.681	52.381	0.00	0.00	0.00	4.40
2240	11214	5.174395	GCTGTCTGAAGATGACACTAATGT	58.826	41.667	0.00	0.00	43.71	2.71
2271	11245	1.174783	GAGAACGTCAGCTGGACCTA	58.825	55.000	15.13	0.00	43.95	3.08
2279	11253	0.453793	CAGCTGGACCTAGAGACGTG	59.546	60.000	5.57	0.00	0.00	4.49
2288	11262	0.244994	CTAGAGACGTGCCTTGCAGT	59.755	55.000	0.00	0.00	40.08	4.40
2297	11271	0.108186	TGCCTTGCAGTAGACGATGG	60.108	55.000	0.00	0.00	33.32	3.51
2298	11272	1.432270	GCCTTGCAGTAGACGATGGC	61.432	60.000	0.00	0.00	0.00	4.40
2309	11283	1.064463	AGACGATGGCATGAAATGGGT	60.064	47.619	3.81	0.00	46.86	4.51
2312	11286	2.566724	ACGATGGCATGAAATGGGTTTT	59.433	40.909	3.81	0.00	46.86	2.43
2317	11614	5.752036	TGGCATGAAATGGGTTTTTGATA	57.248	34.783	0.00	0.00	46.86	2.15
2403	11713	5.567423	GCCAATTTTCCTACTGTCAATGCTT	60.567	40.000	0.00	0.00	0.00	3.91
2436	12529	5.204292	ACAGATCATGCCAGAGACTTACTA	58.796	41.667	0.00	0.00	0.00	1.82
2574	12675	4.666655	CGTTCGCCTGCACTATTATTATGC	60.667	45.833	0.00	0.00	39.88	3.14
2619	12723	4.520492	ACAGTTTTCAGTTGGGTCATCATC	59.480	41.667	0.00	0.00	0.00	2.92
2622	12726	5.416952	AGTTTTCAGTTGGGTCATCATCATC	59.583	40.000	0.00	0.00	0.00	2.92
2623	12727	4.573021	TTCAGTTGGGTCATCATCATCA	57.427	40.909	0.00	0.00	0.00	3.07
2624	12728	4.783560	TCAGTTGGGTCATCATCATCAT	57.216	40.909	0.00	0.00	0.00	2.45
2625	12729	5.120054	TCAGTTGGGTCATCATCATCATT	57.880	39.130	0.00	0.00	0.00	2.57
2626	12730	6.251255	TCAGTTGGGTCATCATCATCATTA	57.749	37.500	0.00	0.00	0.00	1.90
2627	12731	6.844829	TCAGTTGGGTCATCATCATCATTAT	58.155	36.000	0.00	0.00	0.00	1.28
2628	12732	6.713450	TCAGTTGGGTCATCATCATCATTATG	59.287	38.462	0.00	0.00	0.00	1.90
2629	12733	5.475909	AGTTGGGTCATCATCATCATTATGC	59.524	40.000	0.00	0.00	32.76	3.14
2630	12734	4.988029	TGGGTCATCATCATCATTATGCA	58.012	39.130	0.00	0.00	32.76	3.96
2631	12735	5.576128	TGGGTCATCATCATCATTATGCAT	58.424	37.500	3.79	3.79	32.76	3.96
2632	12736	6.723339	TGGGTCATCATCATCATTATGCATA	58.277	36.000	1.16	1.16	32.76	3.14
2633	12737	7.176490	TGGGTCATCATCATCATTATGCATAA	58.824	34.615	20.95	20.95	32.76	1.90
2823	13447	3.517100	ACCTGCAATCAGAGAAAGAGCTA	59.483	43.478	0.00	0.00	42.95	3.32
2947	13646	5.304871	TCTGCAGATATTCAAGATCAGCTCT	59.695	40.000	13.74	0.00	36.91	4.09
2989	13688	6.461927	GCTCAATCTTCCATTTGCAATGGATA	60.462	38.462	22.88	17.05	46.51	2.59
2990	13689	7.606135	TCAATCTTCCATTTGCAATGGATAT	57.394	32.000	22.88	18.03	46.51	1.63
2991	13690	7.438564	TCAATCTTCCATTTGCAATGGATATG	58.561	34.615	22.88	18.98	46.51	1.78
2992	13691	5.794726	TCTTCCATTTGCAATGGATATGG	57.205	39.130	22.88	20.42	46.51	2.74
2993	13692	5.456779	TCTTCCATTTGCAATGGATATGGA	58.543	37.500	20.85	20.85	46.51	3.41
2994	13693	6.079336	TCTTCCATTTGCAATGGATATGGAT	58.921	36.000	23.82	0.25	46.51	3.41
2999	13698	5.518848	TTTGCAATGGATATGGATGTCAC	57.481	39.130	0.00	0.00	0.00	3.67
3062	13767	6.321181	GCATATGTTTTCAGAAGGGTTATCCA	59.679	38.462	4.29	0.00	38.24	3.41
3063	13768	7.014615	GCATATGTTTTCAGAAGGGTTATCCAT	59.985	37.037	4.29	0.00	38.24	3.41
3064	13769	8.571336	CATATGTTTTCAGAAGGGTTATCCATC	58.429	37.037	0.00	0.00	38.24	3.51
3065	13770	5.261216	TGTTTTCAGAAGGGTTATCCATCC	58.739	41.667	0.00	0.00	38.24	3.51
3076	13781	3.071747	GGTTATCCATCCCCAGTCTCTTC	59.928	52.174	0.00	0.00	0.00	2.87
3081	13786	0.618968	ATCCCCAGTCTCTTCGCCTT	60.619	55.000	0.00	0.00	0.00	4.35
3137	13868	6.628185	AGAGCAAAAAGAAAATCCTATGCTG	58.372	36.000	1.20	0.00	0.00	4.41
3141	13872	5.588958	AAAAGAAAATCCTATGCTGCTCC	57.411	39.130	0.00	0.00	0.00	4.70
3159	13890	1.817099	CGCCAGACTGCCAGATTCC	60.817	63.158	0.00	0.00	0.00	3.01
3168	13899	2.644798	ACTGCCAGATTCCCTTAGTTGT	59.355	45.455	0.00	0.00	0.00	3.32
3175	13906	4.520492	CAGATTCCCTTAGTTGTTTGTGCT	59.480	41.667	0.00	0.00	0.00	4.40
3218	13949	8.798402	CCATACAAAGTAGTGGGACAAATTTTA	58.202	33.333	0.00	0.00	44.16	1.52
3294	14027	1.227674	GGCAAGGGGATGTAGCTCG	60.228	63.158	0.00	0.00	0.00	5.03
3310	14043	2.295253	CTCGGATGGTAGAGCGTTTT	57.705	50.000	0.00	0.00	0.00	2.43
3359	14092	6.079336	TCGATACCCCACTTCTCCATTATTA	58.921	40.000	0.00	0.00	0.00	0.98
3360	14093	6.729100	TCGATACCCCACTTCTCCATTATTAT	59.271	38.462	0.00	0.00	0.00	1.28
3361	14094	7.236847	TCGATACCCCACTTCTCCATTATTATT	59.763	37.037	0.00	0.00	0.00	1.40

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
6	7	4.029520	AGATCTCCTCTTGCTGCTAAAGA	58.970	43.478	0.00	1.59	32.80	2.52
10	11	4.833478	AAAAGATCTCCTCTTGCTGCTA	57.167	40.909	0.00	0.00	43.60	3.49
51	52	4.031652	GGCGAAAACATTGATGTGCATTAC	59.968	41.667	0.00	0.00	41.61	1.89
52	53	4.172505	GGCGAAAACATTGATGTGCATTA	58.827	39.130	0.00	0.00	41.61	1.90
55	56	1.339291	TGGCGAAAACATTGATGTGCA	59.661	42.857	0.00	0.00	41.61	4.57
83	84	2.158769	TGTGGCCACATTAGATGCCTAG	60.159	50.000	34.74	0.00	44.32	3.02
96	97	0.319813	GGCAAGTGATTTGTGGCCAC	60.320	55.000	29.67	29.67	41.02	5.01
121	124	8.700051	ACAACATAAGAGTACTCTGCAGAATAT	58.300	33.333	25.83	15.02	40.36	1.28
163	176	5.429957	AAGTGTGAAACTCAAATCTCAGC	57.570	39.130	0.00	0.00	38.56	4.26
226	241	7.174599	CGTATACCAGTTAGCCTTGACTAGTAT	59.825	40.741	0.00	0.00	35.72	2.12
748	6539	4.217118	GCTTGATATCACCATGAATGACCC	59.783	45.833	4.48	0.00	0.00	4.46
924	7801	3.585862	TGTAAACATCACTCTTCGAGGC	58.414	45.455	0.00	0.00	33.35	4.70
965	7842	7.636259	TGCCTTTTTCTTTGTAATCAATTCG	57.364	32.000	0.00	0.00	33.32	3.34
1007	7884	5.008118	TGCGTGAAACATTCAACTATGTTGA	59.992	36.000	8.81	8.81	45.44	3.18
1008	7885	5.211454	TGCGTGAAACATTCAACTATGTTG	58.789	37.500	4.25	4.25	45.44	3.33
1091	7970	6.865205	CCCTTCAAGAATCTTCATGTTGTTTC	59.135	38.462	0.00	0.00	0.00	2.78
1092	7971	6.239402	CCCCTTCAAGAATCTTCATGTTGTTT	60.239	38.462	0.00	0.00	0.00	2.83
1105	7984	2.800250	CTCTGCAACCCCTTCAAGAAT	58.200	47.619	0.00	0.00	0.00	2.40
1146	8025	1.629043	GGCGTCTACCCATCTCCATA	58.371	55.000	0.00	0.00	0.00	2.74
1157	8036	2.885266	TCTATCATGTCAGGGCGTCTAC	59.115	50.000	0.00	0.00	0.00	2.59
1170	8049	3.461061	ACGTTCTGCCACATCTATCATG	58.539	45.455	0.00	0.00	0.00	3.07
1217	8096	3.131046	AGCTGGTGTTTGTTTTCCTTGAG	59.869	43.478	0.00	0.00	0.00	3.02
1246	8131	0.699577	TTGTTCCTCCACCCCCAAGA	60.700	55.000	0.00	0.00	0.00	3.02
1293	8178	0.179150	GTGGCGTGACTGAGCTAGAG	60.179	60.000	0.00	0.00	0.00	2.43
1402	8287	0.118346	ACTGTACCAGATCCACCCCA	59.882	55.000	0.00	0.00	35.18	4.96
1403	8288	1.286248	AACTGTACCAGATCCACCCC	58.714	55.000	0.00	0.00	35.18	4.95
1472	8357	3.638160	ACTCACATCCTGCACAAATTTGT	59.362	39.130	18.13	18.13	43.36	2.83
1475	8360	5.072741	ACTTACTCACATCCTGCACAAATT	58.927	37.500	0.00	0.00	0.00	1.82
1481	8366	2.637382	TGGAACTTACTCACATCCTGCA	59.363	45.455	0.00	0.00	0.00	4.41
1530	8415	0.319900	ATACGAGATGATGGTGGCGC	60.320	55.000	0.00	0.00	0.00	6.53
1624	8509	4.322273	GGTGTAGTTAGCGTAAAGGTTCCT	60.322	45.833	0.00	0.00	0.00	3.36
1708	8593	3.120321	ACACTCGTGAAGGTAATGCAA	57.880	42.857	3.74	0.00	0.00	4.08
1970	9932	6.931840	GTGAACTTGTCTTCTTGGAAGACTAT	59.068	38.462	28.68	17.41	45.13	2.12
2080	10042	2.223805	CCACAAACTTCTTCAAGCACCC	60.224	50.000	0.00	0.00	32.09	4.61
2195	10458	0.745845	CTCATCACCAAGGCTTCCGG	60.746	60.000	0.00	0.00	0.00	5.14
2240	11214	2.897326	TGACGTTCTCTCCTTGAATGGA	59.103	45.455	0.00	0.00	35.43	3.41
2271	11245	0.244994	CTACTGCAAGGCACGTCTCT	59.755	55.000	0.00	0.00	39.30	3.10
2279	11253	1.432270	GCCATCGTCTACTGCAAGGC	61.432	60.000	0.00	0.00	39.30	4.35
2288	11262	2.172505	ACCCATTTCATGCCATCGTCTA	59.827	45.455	0.00	0.00	0.00	2.59
2297	11271	5.581874	CCACTATCAAAAACCCATTTCATGC	59.418	40.000	0.00	0.00	0.00	4.06
2298	11272	6.591062	CACCACTATCAAAAACCCATTTCATG	59.409	38.462	0.00	0.00	0.00	3.07
2309	11283	4.171878	TCCACACCACCACTATCAAAAA	57.828	40.909	0.00	0.00	0.00	1.94
2312	11286	3.308117	GGAATCCACACCACCACTATCAA	60.308	47.826	0.00	0.00	0.00	2.57
2317	11614	1.125093	TCGGAATCCACACCACCACT	61.125	55.000	0.00	0.00	0.00	4.00
2377	11686	2.432444	TGACAGTAGGAAAATTGGCGG	58.568	47.619	0.00	0.00	0.00	6.13
2379	11688	4.082026	AGCATTGACAGTAGGAAAATTGGC	60.082	41.667	0.00	0.00	0.00	4.52
2403	11713	1.134699	GCATGATCTGTCGGTGGAGAA	60.135	52.381	0.00	0.00	0.00	2.87
2574	12675	1.021390	CCAGCGCAAGACTAACAGGG	61.021	60.000	11.47	0.00	43.02	4.45
2625	12729	9.868277	CAAAGGAACCAGTTTTATTTATGCATA	57.132	29.630	1.16	1.16	0.00	3.14
2626	12730	8.374743	ACAAAGGAACCAGTTTTATTTATGCAT	58.625	29.630	3.79	3.79	0.00	3.96
2627	12731	7.731054	ACAAAGGAACCAGTTTTATTTATGCA	58.269	30.769	0.00	0.00	0.00	3.96
2628	12732	8.601845	AACAAAGGAACCAGTTTTATTTATGC	57.398	30.769	0.00	0.00	0.00	3.14
2630	12734	9.471084	CGAAACAAAGGAACCAGTTTTATTTAT	57.529	29.630	9.22	0.00	34.62	1.40
2631	12735	8.468399	ACGAAACAAAGGAACCAGTTTTATTTA	58.532	29.630	0.00	0.00	34.62	1.40
2632	12736	7.324935	ACGAAACAAAGGAACCAGTTTTATTT	58.675	30.769	0.00	0.00	34.62	1.40
2633	12737	6.869695	ACGAAACAAAGGAACCAGTTTTATT	58.130	32.000	0.00	0.00	34.62	1.40
2687	12794	3.997021	AGAAGAAACAAGATGCTGGTACG	59.003	43.478	0.00	0.00	0.00	3.67
2823	13447	4.082408	CACATGTGCAGTCCTCAATGAAAT	60.082	41.667	13.94	0.00	0.00	2.17
2930	13629	6.482898	ACTGACAGAGCTGATCTTGAATAT	57.517	37.500	10.08	0.00	35.47	1.28
2947	13646	0.679505	AGCAGGCGAACTAACTGACA	59.320	50.000	0.00	0.00	34.21	3.58
2999	13698	1.035139	GGCCCAAGCAATCAGTATGG	58.965	55.000	0.00	0.00	42.56	2.74
3062	13767	0.618968	AAGGCGAAGAGACTGGGGAT	60.619	55.000	0.00	0.00	37.06	3.85
3063	13768	1.229209	AAGGCGAAGAGACTGGGGA	60.229	57.895	0.00	0.00	37.06	4.81
3064	13769	1.219393	GAAGGCGAAGAGACTGGGG	59.781	63.158	0.00	0.00	37.06	4.96
3065	13770	0.108424	CTGAAGGCGAAGAGACTGGG	60.108	60.000	0.00	0.00	37.06	4.45
3076	13781	0.242825	TGAACCTACGTCTGAAGGCG	59.757	55.000	2.18	2.18	36.24	5.52
3081	13786	1.991121	ACCACTGAACCTACGTCTGA	58.009	50.000	0.00	0.00	0.00	3.27
3159	13890	5.705609	ATTACCAGCACAAACAACTAAGG	57.294	39.130	0.00	0.00	0.00	2.69
3168	13899	5.451242	GGAACTGTGAAATTACCAGCACAAA	60.451	40.000	0.00	0.00	40.34	2.83
3175	13906	5.882040	TGTATGGGAACTGTGAAATTACCA	58.118	37.500	0.00	0.00	43.13	3.25
3276	14009	1.227674	CGAGCTACATCCCCTTGCC	60.228	63.158	0.00	0.00	0.00	4.52
3277	14010	1.227674	CCGAGCTACATCCCCTTGC	60.228	63.158	0.00	0.00	0.00	4.01
3294	14027	3.556365	GCTAAGAAAACGCTCTACCATCC	59.444	47.826	0.00	0.00	0.00	3.51
3307	14040	3.334583	ACCTCTCGCATGCTAAGAAAA	57.665	42.857	17.13	0.00	0.00	2.29
3309	14042	3.243873	CCATACCTCTCGCATGCTAAGAA	60.244	47.826	17.13	4.41	0.00	2.52
3310	14043	2.297315	CCATACCTCTCGCATGCTAAGA	59.703	50.000	17.13	16.51	0.00	2.10

Based at the University of Bristol with support from BBSRC.

AutoCloner maintained by Alex Coulton.