AutoCloner

Multiple sequence alignment - TraesCS1D01G334900

Loading Multiple Alignment...

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	TraesCS1D01G334900	chr1D	100.000	2769	0	0	1	2769	424993356	424990588	0.000000e+00	5114.0
1	TraesCS1D01G334900	chr1D	94.451	793	26	6	1	783	453304177	453304961	0.000000e+00	1205.0
2	TraesCS1D01G334900	chr1D	93.695	793	25	8	1	783	303307347	303308124	0.000000e+00	1164.0
3	TraesCS1D01G334900	chr1A	87.177	1856	77	49	778	2571	520794132	520792376	0.000000e+00	1960.0
4	TraesCS1D01G334900	chr1B	87.606	1775	79	47	780	2456	574268410	574266679	0.000000e+00	1929.0
5	TraesCS1D01G334900	chr1B	100.000	29	0	0	2642	2670	574266407	574266379	1.000000e-03	54.7
6	TraesCS1D01G334900	chrUn	94.643	784	30	7	1	781	27209769	27210543	0.000000e+00	1205.0
7	TraesCS1D01G334900	chr3D	94.430	790	32	4	1	780	396432089	396431302	0.000000e+00	1205.0
8	TraesCS1D01G334900	chr3D	92.965	199	4	5	1	189	263005548	263005350	5.840000e-72	281.0
9	TraesCS1D01G334900	chr7D	94.311	791	31	6	1	781	159077222	159076436	0.000000e+00	1199.0
10	TraesCS1D01G334900	chr6D	93.970	796	27	13	1	784	411199475	411200261	0.000000e+00	1184.0
11	TraesCS1D01G334900	chr6D	93.813	792	35	6	3	783	420532005	420532793	0.000000e+00	1179.0
12	TraesCS1D01G334900	chr6D	93.695	793	31	10	1	783	388145262	388144479	0.000000e+00	1170.0
13	TraesCS1D01G334900	chr6D	98.065	155	3	0	1	155	27532186	27532340	1.260000e-68	270.0
14	TraesCS1D01G334900	chr5D	93.695	793	37	5	1	783	45203353	45204142	0.000000e+00	1175.0
15	TraesCS1D01G334900	chr4D	93.047	791	35	9	1	781	58652706	58651926	0.000000e+00	1138.0
16	TraesCS1D01G334900	chr5B	90.397	781	66	7	4	783	10467352	10466580	0.000000e+00	1018.0
17	TraesCS1D01G334900	chr4B	88.146	793	76	12	1	781	145391146	145390360	0.000000e+00	928.0

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	TraesCS1D01G334900	chr1D	424990588	424993356	2768	True	5114.00	5114	100.000	1	2769	1	chr1D.!!$R1	2768
1	TraesCS1D01G334900	chr1D	453304177	453304961	784	False	1205.00	1205	94.451	1	783	1	chr1D.!!$F2	782
2	TraesCS1D01G334900	chr1D	303307347	303308124	777	False	1164.00	1164	93.695	1	783	1	chr1D.!!$F1	782
3	TraesCS1D01G334900	chr1A	520792376	520794132	1756	True	1960.00	1960	87.177	778	2571	1	chr1A.!!$R1	1793
4	TraesCS1D01G334900	chr1B	574266379	574268410	2031	True	991.85	1929	93.803	780	2670	2	chr1B.!!$R1	1890
5	TraesCS1D01G334900	chrUn	27209769	27210543	774	False	1205.00	1205	94.643	1	781	1	chrUn.!!$F1	780
6	TraesCS1D01G334900	chr3D	396431302	396432089	787	True	1205.00	1205	94.430	1	780	1	chr3D.!!$R2	779
7	TraesCS1D01G334900	chr7D	159076436	159077222	786	True	1199.00	1199	94.311	1	781	1	chr7D.!!$R1	780
8	TraesCS1D01G334900	chr6D	411199475	411200261	786	False	1184.00	1184	93.970	1	784	1	chr6D.!!$F2	783
9	TraesCS1D01G334900	chr6D	420532005	420532793	788	False	1179.00	1179	93.813	3	783	1	chr6D.!!$F3	780
10	TraesCS1D01G334900	chr6D	388144479	388145262	783	True	1170.00	1170	93.695	1	783	1	chr6D.!!$R1	782
11	TraesCS1D01G334900	chr5D	45203353	45204142	789	False	1175.00	1175	93.695	1	783	1	chr5D.!!$F1	782
12	TraesCS1D01G334900	chr4D	58651926	58652706	780	True	1138.00	1138	93.047	1	781	1	chr4D.!!$R1	780
13	TraesCS1D01G334900	chr5B	10466580	10467352	772	True	1018.00	1018	90.397	4	783	1	chr5B.!!$R1	779
14	TraesCS1D01G334900	chr4B	145390360	145391146	786	True	928.00	928	88.146	1	781	1	chr4B.!!$R1	780

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
392	434	1.298014	CCTCGGCTTCCTCTGCTTT	59.702	57.895	0.0	0.0	0.0	3.51	F
707	752	1.545706	GCTTCTGAGGGGGACGACTT	61.546	60.000	0.0	0.0	0.0	3.01	F

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability	Orientation
1484	1581	0.032952	CGGTGTCCGTCCAAGAAAGA	59.967	55.0	0.0	0.0	42.73	2.52	R
2234	2385	0.033504	ACTACCGCACTTCCACTGTG	59.966	55.0	0.0	0.0	38.36	3.66	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
337	379	3.118738	CGCTGTACTTCTACCCTCCAATT	60.119	47.826	0.00	0.00	0.00	2.32
341	383	1.992557	ACTTCTACCCTCCAATTGGCA	59.007	47.619	20.33	7.94	34.44	4.92
392	434	1.298014	CCTCGGCTTCCTCTGCTTT	59.702	57.895	0.00	0.00	0.00	3.51
526	569	3.245264	GGAGAAAATGGAAGGGAACTGGA	60.245	47.826	0.00	0.00	42.68	3.86
707	752	1.545706	GCTTCTGAGGGGGACGACTT	61.546	60.000	0.00	0.00	0.00	3.01
788	834	2.807392	GCTGGAGATGCTCTAAATCAGC	59.193	50.000	0.00	0.00	39.32	4.26
1532	1630	3.567473	GCTGGGTTCTTCAGCGAC	58.433	61.111	0.21	0.00	46.33	5.19
1535	1633	1.006571	TGGGTTCTTCAGCGACGAC	60.007	57.895	0.00	0.00	0.00	4.34
1536	1634	1.737008	GGGTTCTTCAGCGACGACC	60.737	63.158	0.00	0.00	0.00	4.79
1627	1727	2.802787	ACAATGGAGGATCGATCGAC	57.197	50.000	22.06	14.00	29.90	4.20
1682	1798	8.187913	AGATATAGCATATGTATAGGCCAGTG	57.812	38.462	5.01	0.00	40.64	3.66
1693	1815	0.037447	AGGCCAGTGCTTCTTCTTCC	59.963	55.000	5.01	0.00	37.74	3.46
1696	1818	1.948144	GCCAGTGCTTCTTCTTCCTCC	60.948	57.143	0.00	0.00	33.53	4.30
1703	1825	2.115427	CTTCTTCTTCCTCCTCCTCCC	58.885	57.143	0.00	0.00	0.00	4.30
1705	1827	0.692756	CTTCTTCCTCCTCCTCCCCC	60.693	65.000	0.00	0.00	0.00	5.40
1748	1870	7.027760	CGTGTCATTTTTGCTCTAGTCTAGTA	58.972	38.462	6.77	0.00	0.00	1.82
1749	1871	7.219154	CGTGTCATTTTTGCTCTAGTCTAGTAG	59.781	40.741	6.77	4.76	0.00	2.57
1750	1872	8.030106	GTGTCATTTTTGCTCTAGTCTAGTAGT	58.970	37.037	6.77	0.00	0.00	2.73
1932	2068	3.424198	CGTATGATGTATCCGTTCCGTTG	59.576	47.826	0.00	0.00	0.00	4.10
1934	2070	2.883574	TGATGTATCCGTTCCGTTGTC	58.116	47.619	0.00	0.00	0.00	3.18
2010	2150	4.156622	CATGCGTGCCAGCGTCTG	62.157	66.667	0.00	0.52	40.67	3.51
2011	2151	4.687215	ATGCGTGCCAGCGTCTGT	62.687	61.111	6.19	0.00	40.67	3.41
2090	2238	0.965363	CCGCTGGGGTTTAATGTGCT	60.965	55.000	1.98	0.00	0.00	4.40
2095	2243	0.451783	GGGGTTTAATGTGCTCTGCG	59.548	55.000	0.00	0.00	0.00	5.18
2129	2277	1.544825	CGAGGCAAGGTTGGAGGAGA	61.545	60.000	0.00	0.00	0.00	3.71
2157	2305	2.734723	CACCACCGTCTGTCTGCG	60.735	66.667	0.00	0.00	0.00	5.18
2158	2306	3.224324	ACCACCGTCTGTCTGCGT	61.224	61.111	0.00	0.00	0.00	5.24
2159	2307	2.734723	CCACCGTCTGTCTGCGTG	60.735	66.667	0.00	0.00	0.00	5.34
2160	2308	2.027605	CACCGTCTGTCTGCGTGT	59.972	61.111	0.00	0.00	0.00	4.49
2161	2309	2.027605	ACCGTCTGTCTGCGTGTG	59.972	61.111	0.00	0.00	0.00	3.82
2177	2325	2.915659	TGTCCGTCTCGCCCTTGT	60.916	61.111	0.00	0.00	0.00	3.16
2200	2348	2.431454	TGTGTGGCATTCATTTCGCTA	58.569	42.857	0.00	0.00	0.00	4.26
2211	2362	1.061131	CATTTCGCTAGCTCGTGGTTG	59.939	52.381	13.93	0.00	0.00	3.77
2234	2385	1.280982	TCGATCTGCATTGCGAAGTC	58.719	50.000	3.84	0.00	0.00	3.01
2242	2393	1.511850	CATTGCGAAGTCACAGTGGA	58.488	50.000	0.00	0.00	0.00	4.02
2246	2397	0.861837	GCGAAGTCACAGTGGAAGTG	59.138	55.000	0.00	0.00	44.80	3.16
2256	2407	2.565834	ACAGTGGAAGTGCGGTAGTAAT	59.434	45.455	0.00	0.00	42.38	1.89
2257	2408	3.007614	ACAGTGGAAGTGCGGTAGTAATT	59.992	43.478	0.00	0.00	42.38	1.40
2258	2409	3.617263	CAGTGGAAGTGCGGTAGTAATTC	59.383	47.826	0.00	0.00	36.56	2.17
2259	2410	3.259876	AGTGGAAGTGCGGTAGTAATTCA	59.740	43.478	0.18	0.00	38.48	2.57
2260	2411	3.370061	GTGGAAGTGCGGTAGTAATTCAC	59.630	47.826	0.18	0.00	38.48	3.18
2261	2412	3.259876	TGGAAGTGCGGTAGTAATTCACT	59.740	43.478	0.18	0.00	38.48	3.41
2262	2413	3.617263	GGAAGTGCGGTAGTAATTCACTG	59.383	47.826	0.00	0.00	38.48	3.66
2263	2414	3.247006	AGTGCGGTAGTAATTCACTGG	57.753	47.619	0.00	0.00	38.24	4.00
2264	2415	2.565834	AGTGCGGTAGTAATTCACTGGT	59.434	45.455	0.00	0.00	38.24	4.00
2265	2416	3.765511	AGTGCGGTAGTAATTCACTGGTA	59.234	43.478	0.00	0.00	38.24	3.25
2266	2417	4.221262	AGTGCGGTAGTAATTCACTGGTAA	59.779	41.667	0.00	0.00	38.24	2.85
2267	2418	4.931002	GTGCGGTAGTAATTCACTGGTAAA	59.069	41.667	0.00	0.00	38.24	2.01
2268	2419	5.583457	GTGCGGTAGTAATTCACTGGTAAAT	59.417	40.000	0.00	0.00	38.24	1.40
2269	2420	5.813672	TGCGGTAGTAATTCACTGGTAAATC	59.186	40.000	0.00	0.00	38.24	2.17
2317	2471	1.228033	ACTTGTGGCCGTGGTAACC	60.228	57.895	0.00	0.00	0.00	2.85
2405	2559	1.736681	AGGACAAGTCGCGAGTACTAC	59.263	52.381	18.34	5.88	0.00	2.73
2406	2560	1.736681	GGACAAGTCGCGAGTACTACT	59.263	52.381	18.34	3.04	0.00	2.57
2407	2561	2.475852	GGACAAGTCGCGAGTACTACTG	60.476	54.545	18.34	13.68	0.00	2.74
2408	2562	2.149578	ACAAGTCGCGAGTACTACTGT	58.850	47.619	18.34	14.37	0.00	3.55
2409	2563	3.329386	ACAAGTCGCGAGTACTACTGTA	58.671	45.455	18.34	0.00	0.00	2.74
2410	2564	3.748048	ACAAGTCGCGAGTACTACTGTAA	59.252	43.478	18.34	0.00	0.00	2.41
2461	2632	1.837538	GCTACCGTTTTCAGCGTGCA	61.838	55.000	0.00	0.00	0.00	4.57
2463	2634	0.249531	TACCGTTTTCAGCGTGCAGA	60.250	50.000	0.00	0.00	0.00	4.26
2475	2646	1.004292	GCGTGCAGAAAGTGTAACGTT	60.004	47.619	5.88	5.88	45.86	3.99
2485	2656	6.628856	CAGAAAGTGTAACGTTTTCACATCTG	59.371	38.462	29.16	29.16	45.86	2.90
2489	2660	7.542534	AGTGTAACGTTTTCACATCTGTTTA	57.457	32.000	26.18	0.00	45.86	2.01
2490	2661	7.404203	AGTGTAACGTTTTCACATCTGTTTAC	58.596	34.615	26.18	9.22	45.86	2.01
2491	2662	7.064847	AGTGTAACGTTTTCACATCTGTTTACA	59.935	33.333	26.18	11.26	45.86	2.41
2517	2689	5.683509	GCATAGTGCAACATTAGAGAGAGGT	60.684	44.000	0.00	0.00	44.26	3.85
2535	2707	0.093026	GTCAACATTTCTCCGTCGCG	59.907	55.000	0.00	0.00	0.00	5.87
2559	2761	1.632645	GTCGCATTTACCCGTACGC	59.367	57.895	10.49	0.00	0.00	4.42
2589	2798	1.150536	TGCCAAGGCTCCGTCTTTT	59.849	52.632	12.96	0.00	42.51	2.27
2600	2809	4.007659	GCTCCGTCTTTTCCTTAAATGGA	58.992	43.478	0.00	0.00	0.00	3.41
2632	2841	2.805353	CGACCTCCTGCGTCAACG	60.805	66.667	0.00	0.00	43.27	4.10
2633	2842	2.649034	GACCTCCTGCGTCAACGA	59.351	61.111	6.75	0.00	43.02	3.85
2634	2843	1.733399	GACCTCCTGCGTCAACGAC	60.733	63.158	6.75	0.00	43.02	4.34
2679	2962	8.650143	ATTCATGTTTATTAAAGGGTGTGTCT	57.350	30.769	0.00	0.00	0.00	3.41
2680	2963	9.747898	ATTCATGTTTATTAAAGGGTGTGTCTA	57.252	29.630	0.00	0.00	0.00	2.59
2681	2964	8.786826	TCATGTTTATTAAAGGGTGTGTCTAG	57.213	34.615	0.00	0.00	0.00	2.43
2682	2965	7.827236	TCATGTTTATTAAAGGGTGTGTCTAGG	59.173	37.037	0.00	0.00	0.00	3.02
2683	2966	7.319052	TGTTTATTAAAGGGTGTGTCTAGGA	57.681	36.000	0.00	0.00	0.00	2.94
2684	2967	7.163441	TGTTTATTAAAGGGTGTGTCTAGGAC	58.837	38.462	0.00	0.00	0.00	3.85
2685	2968	6.938698	TTATTAAAGGGTGTGTCTAGGACA	57.061	37.500	0.00	0.00	40.50	4.02
2697	2980	4.930696	TGTCTAGGACACATCTAACCTGA	58.069	43.478	0.00	0.00	37.67	3.86
2698	2981	5.519808	TGTCTAGGACACATCTAACCTGAT	58.480	41.667	0.00	0.00	37.67	2.90
2699	2982	5.360999	TGTCTAGGACACATCTAACCTGATG	59.639	44.000	0.00	0.00	46.61	3.07
2711	2994	8.954950	CATCTAACCTGATGTCAACTCTATTT	57.045	34.615	0.00	0.00	39.05	1.40
2712	2995	8.824781	CATCTAACCTGATGTCAACTCTATTTG	58.175	37.037	0.00	0.00	39.05	2.32
2713	2996	7.907389	TCTAACCTGATGTCAACTCTATTTGT	58.093	34.615	0.00	0.00	0.00	2.83
2714	2997	9.031537	TCTAACCTGATGTCAACTCTATTTGTA	57.968	33.333	0.00	0.00	0.00	2.41
2715	2998	9.307121	CTAACCTGATGTCAACTCTATTTGTAG	57.693	37.037	0.00	0.00	0.00	2.74
2716	2999	7.246171	ACCTGATGTCAACTCTATTTGTAGT	57.754	36.000	0.00	0.00	0.00	2.73
2717	3000	7.324178	ACCTGATGTCAACTCTATTTGTAGTC	58.676	38.462	0.00	0.00	0.00	2.59
2718	3001	7.179338	ACCTGATGTCAACTCTATTTGTAGTCT	59.821	37.037	0.00	0.00	0.00	3.24
2719	3002	8.687242	CCTGATGTCAACTCTATTTGTAGTCTA	58.313	37.037	0.00	0.00	0.00	2.59

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
341	383	3.140141	CCGCCGGGCATGACAAAT	61.140	61.111	20.71	0.00	0.00	2.32
526	569	0.605589	CGTTTCTCCCCGCTTTTCCT	60.606	55.000	0.00	0.00	0.00	3.36
746	792	1.530655	CGTCCCCAACAGGCCTTTT	60.531	57.895	0.00	0.00	0.00	2.27
749	795	3.953775	CACGTCCCCAACAGGCCT	61.954	66.667	0.00	0.00	0.00	5.19
923	999	4.410400	GGAAGGGGGCTGTGACGG	62.410	72.222	0.00	0.00	0.00	4.79
926	1002	3.256960	GGTGGAAGGGGGCTGTGA	61.257	66.667	0.00	0.00	0.00	3.58
1067	1155	3.423154	CGCAGGACCAAGAACGCC	61.423	66.667	0.00	0.00	0.00	5.68
1484	1581	0.032952	CGGTGTCCGTCCAAGAAAGA	59.967	55.000	0.00	0.00	42.73	2.52
1682	1798	1.484653	GGAGGAGGAGGAAGAAGAAGC	59.515	57.143	0.00	0.00	0.00	3.86
1706	1828	5.577835	TGACACGAAAGAACCAAGAATTTG	58.422	37.500	0.00	0.00	0.00	2.32
1707	1829	5.828299	TGACACGAAAGAACCAAGAATTT	57.172	34.783	0.00	0.00	0.00	1.82
1748	1870	3.805971	GGTAACGGCGAAATTATGCTACT	59.194	43.478	16.62	0.00	0.00	2.57
1749	1871	3.059393	GGGTAACGGCGAAATTATGCTAC	60.059	47.826	16.62	0.65	37.60	3.58
1750	1872	3.132925	GGGTAACGGCGAAATTATGCTA	58.867	45.455	16.62	0.00	37.60	3.49
1779	1901	5.549742	TTTTCTTCCTTTGCATTGATGGT	57.450	34.783	0.00	0.00	0.00	3.55
1932	2068	4.557496	GCCTGACCTCATTTTCTGTTTGAC	60.557	45.833	0.00	0.00	0.00	3.18
1934	2070	3.571401	AGCCTGACCTCATTTTCTGTTTG	59.429	43.478	0.00	0.00	0.00	2.93
2090	2238	3.695606	GTCACAGGGAGGCGCAGA	61.696	66.667	10.83	0.00	0.00	4.26
2157	2305	3.222354	AAGGGCGAGACGGACACAC	62.222	63.158	0.00	0.00	0.00	3.82
2158	2306	2.915659	AAGGGCGAGACGGACACA	60.916	61.111	0.00	0.00	0.00	3.72
2159	2307	2.432628	CAAGGGCGAGACGGACAC	60.433	66.667	0.00	0.00	0.00	3.67
2160	2308	2.915659	ACAAGGGCGAGACGGACA	60.916	61.111	0.00	0.00	0.00	4.02
2161	2309	2.432628	CACAAGGGCGAGACGGAC	60.433	66.667	0.00	0.00	0.00	4.79
2177	2325	2.861750	GCGAAATGAATGCCACACAACA	60.862	45.455	0.00	0.00	0.00	3.33
2200	2348	2.093973	AGATCGAAATCAACCACGAGCT	60.094	45.455	0.00	0.00	44.39	4.09
2211	2362	3.242543	ACTTCGCAATGCAGATCGAAATC	60.243	43.478	16.60	0.00	39.90	2.17
2234	2385	0.033504	ACTACCGCACTTCCACTGTG	59.966	55.000	0.00	0.00	38.36	3.66
2242	2393	3.007614	ACCAGTGAATTACTACCGCACTT	59.992	43.478	0.00	0.00	37.69	3.16
2246	2397	6.047231	AGATTTACCAGTGAATTACTACCGC	58.953	40.000	0.00	0.00	37.60	5.68
2267	2418	9.288576	TGAAGTCATCATCACAAGTAAAAAGAT	57.711	29.630	0.00	0.00	31.50	2.40
2268	2419	8.675705	TGAAGTCATCATCACAAGTAAAAAGA	57.324	30.769	0.00	0.00	31.50	2.52
2317	2471	3.868754	GCCCAGACCAGGTAGTTAAGTTG	60.869	52.174	0.00	0.00	0.00	3.16
2405	2559	1.000506	ACGTGGGCACAGTAGTTACAG	59.999	52.381	0.00	0.00	0.00	2.74
2406	2560	1.042229	ACGTGGGCACAGTAGTTACA	58.958	50.000	0.00	0.00	0.00	2.41
2407	2561	1.269936	ACACGTGGGCACAGTAGTTAC	60.270	52.381	21.57	0.00	0.00	2.50
2408	2562	1.042229	ACACGTGGGCACAGTAGTTA	58.958	50.000	21.57	0.00	0.00	2.24
2409	2563	1.000506	CTACACGTGGGCACAGTAGTT	59.999	52.381	21.57	0.00	36.07	2.24
2410	2564	0.601558	CTACACGTGGGCACAGTAGT	59.398	55.000	21.57	0.00	36.07	2.73
2461	2632	6.315393	ACAGATGTGAAAACGTTACACTTTCT	59.685	34.615	26.69	24.31	35.83	2.52
2463	2634	6.431198	ACAGATGTGAAAACGTTACACTTT	57.569	33.333	26.69	18.91	35.83	2.66
2475	2646	6.149308	CACTATGCCTGTAAACAGATGTGAAA	59.851	38.462	11.69	0.00	46.59	2.69
2485	2656	4.701956	ATGTTGCACTATGCCTGTAAAC	57.298	40.909	0.00	0.00	44.23	2.01
2489	2660	4.080919	TCTCTAATGTTGCACTATGCCTGT	60.081	41.667	0.00	0.00	44.23	4.00
2490	2661	4.445453	TCTCTAATGTTGCACTATGCCTG	58.555	43.478	0.00	0.00	44.23	4.85
2491	2662	4.406972	TCTCTCTAATGTTGCACTATGCCT	59.593	41.667	0.00	0.00	44.23	4.75
2517	2689	0.319211	ACGCGACGGAGAAATGTTGA	60.319	50.000	15.93	0.00	0.00	3.18
2543	2745	2.616689	CGCGTACGGGTAAATGCG	59.383	61.111	22.83	8.54	39.57	4.73
2559	2761	2.280524	TTGGCACCGAAGACACCG	60.281	61.111	0.00	0.00	0.00	4.94
2589	2798	6.320164	CGGGTGATAAATGTTCCATTTAAGGA	59.680	38.462	12.03	0.00	35.41	3.36
2600	2809	1.065709	AGGTCGCGGGTGATAAATGTT	60.066	47.619	6.13	0.00	0.00	2.71
2632	2841	9.098355	TGAATTATTTGGCTATCTATATGCGTC	57.902	33.333	0.00	0.00	0.00	5.19
2633	2842	9.618890	ATGAATTATTTGGCTATCTATATGCGT	57.381	29.630	0.00	0.00	0.00	5.24
2634	2843	9.874215	CATGAATTATTTGGCTATCTATATGCG	57.126	33.333	0.00	0.00	0.00	4.73
2675	2958	4.930696	TCAGGTTAGATGTGTCCTAGACA	58.069	43.478	0.00	0.00	40.50	3.41
2676	2959	5.837437	CATCAGGTTAGATGTGTCCTAGAC	58.163	45.833	0.00	0.00	40.35	2.59
2687	2970	8.543774	ACAAATAGAGTTGACATCAGGTTAGAT	58.456	33.333	0.00	0.00	32.59	1.98
2688	2971	7.907389	ACAAATAGAGTTGACATCAGGTTAGA	58.093	34.615	0.00	0.00	32.59	2.10
2689	2972	9.307121	CTACAAATAGAGTTGACATCAGGTTAG	57.693	37.037	0.00	0.00	32.59	2.34
2690	2973	8.812972	ACTACAAATAGAGTTGACATCAGGTTA	58.187	33.333	0.00	0.00	32.59	2.85
2691	2974	7.680730	ACTACAAATAGAGTTGACATCAGGTT	58.319	34.615	0.00	0.00	32.59	3.50
2692	2975	7.179338	AGACTACAAATAGAGTTGACATCAGGT	59.821	37.037	0.00	0.00	32.59	4.00
2693	2976	7.551585	AGACTACAAATAGAGTTGACATCAGG	58.448	38.462	0.00	0.00	32.59	3.86

Based at the University of Bristol with support from BBSRC.

AutoCloner maintained by Alex Coulton.