AutoCloner

Multiple sequence alignment - TraesCS5D01G540000

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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	TraesCS5D01G540000	chr5D	100.000	3493	0	0	1	3493	551245079	551241587	0.000000e+00	6451.0
1	TraesCS5D01G540000	chr5D	91.950	1938	118	15	1559	3493	515465654	515463752	0.000000e+00	2680.0
2	TraesCS5D01G540000	chr5D	97.843	1530	32	1	953	2482	515568897	515567369	0.000000e+00	2641.0
3	TraesCS5D01G540000	chr5D	92.840	838	21	12	1	813	515569715	515568892	0.000000e+00	1179.0
4	TraesCS5D01G540000	chr5D	82.167	886	140	12	1578	2459	515411857	515410986	0.000000e+00	745.0
5	TraesCS5D01G540000	chr5D	88.595	605	54	8	956	1556	515466280	515465687	0.000000e+00	721.0
6	TraesCS5D01G540000	chr5D	85.880	602	82	3	1573	2173	515424376	515423777	3.800000e-179	638.0
7	TraesCS5D01G540000	chr5D	85.950	605	67	11	985	1579	515424998	515424402	6.360000e-177	630.0
8	TraesCS5D01G540000	chr5D	88.552	297	27	5	3	296	370307846	370307554	1.540000e-93	353.0
9	TraesCS5D01G540000	chr5D	87.662	154	16	2	363	514	1888046	1887894	3.580000e-40	176.0
10	TraesCS5D01G540000	chr5D	93.750	64	4	0	859	922	515466420	515466357	2.870000e-16	97.1
11	TraesCS5D01G540000	chr5D	73.016	315	57	18	3099	3407	560065180	560065472	6.210000e-13	86.1
12	TraesCS5D01G540000	chr5D	95.455	44	2	0	1513	1556	515338597	515338554	1.740000e-08	71.3
13	TraesCS5D01G540000	chr5A	91.163	1935	146	12	1561	3493	643734469	643732558	0.000000e+00	2603.0
14	TraesCS5D01G540000	chr5A	87.461	1922	168	29	751	2608	643855794	643853882	0.000000e+00	2146.0
15	TraesCS5D01G540000	chr5A	82.957	886	136	13	1578	2459	643626828	643625954	0.000000e+00	785.0
16	TraesCS5D01G540000	chr5A	82.042	852	133	11	1629	2467	643577937	643577093	0.000000e+00	708.0
17	TraesCS5D01G540000	chr5A	87.241	580	63	6	985	1557	643735078	643734503	0.000000e+00	651.0
18	TraesCS5D01G540000	chr5A	87.872	437	48	4	997	1433	643453876	643453445	3.110000e-140	508.0
19	TraesCS5D01G540000	chr5A	93.846	65	3	1	2815	2878	643853884	643853820	2.870000e-16	97.1
20	TraesCS5D01G540000	chr5B	92.168	881	69	0	1565	2445	648259954	648259074	0.000000e+00	1245.0
21	TraesCS5D01G540000	chr5B	86.446	878	117	2	1573	2449	648180260	648179384	0.000000e+00	961.0
22	TraesCS5D01G540000	chr5B	82.901	848	128	12	1629	2467	648135410	648134571	0.000000e+00	747.0
23	TraesCS5D01G540000	chr5B	82.597	770	114	13	1689	2457	648000808	648000058	0.000000e+00	662.0
24	TraesCS5D01G540000	chr5B	86.262	626	56	14	956	1557	648260611	648259992	0.000000e+00	652.0
25	TraesCS5D01G540000	chr5B	86.020	608	64	13	985	1579	648180885	648180286	1.770000e-177	632.0
26	TraesCS5D01G540000	chr5B	80.970	825	131	16	1636	2458	647993856	647993056	6.360000e-177	630.0
27	TraesCS5D01G540000	chr5B	87.500	432	51	1	997	1428	647994561	647994133	2.420000e-136	496.0
28	TraesCS5D01G540000	chr5B	81.766	521	50	23	1	514	664726088	664726570	9.090000e-106	394.0
29	TraesCS5D01G540000	chr5B	91.935	186	13	2	2885	3068	648258833	648258648	3.460000e-65	259.0
30	TraesCS5D01G540000	chr5B	93.220	59	4	0	2820	2878	648258930	648258872	1.730000e-13	87.9
31	TraesCS5D01G540000	chr5B	95.455	44	2	0	1513	1556	648135550	648135507	1.740000e-08	71.3
32	TraesCS5D01G540000	chr1A	83.610	482	44	19	1	478	309467880	309468330	1.500000e-113	420.0
33	TraesCS5D01G540000	chr1A	80.978	184	27	6	2639	2815	579532865	579533047	4.700000e-29	139.0
34	TraesCS5D01G540000	chr1A	80.435	184	28	6	2639	2815	579552001	579552183	2.190000e-27	134.0
35	TraesCS5D01G540000	chr2D	81.664	529	53	23	1	523	25325562	25325072	1.950000e-107	399.0
36	TraesCS5D01G540000	chrUn	81.942	515	50	21	1	511	93027063	93026588	2.530000e-106	396.0
37	TraesCS5D01G540000	chrUn	82.927	287	31	15	3	284	329646267	329646540	3.480000e-60	243.0
38	TraesCS5D01G540000	chrUn	80.978	184	27	6	2639	2815	303756150	303756332	4.700000e-29	139.0
39	TraesCS5D01G540000	chr7B	80.577	520	61	25	2	518	750018660	750018178	7.130000e-97	364.0
40	TraesCS5D01G540000	chr7B	81.044	517	45	32	1	514	23076391	23076857	2.560000e-96	363.0
41	TraesCS5D01G540000	chr7A	79.923	518	49	33	1	514	80572492	80572958	2.600000e-86	329.0
42	TraesCS5D01G540000	chr7A	84.314	153	17	6	2645	2792	232026278	232026428	3.630000e-30	143.0
43	TraesCS5D01G540000	chr7A	84.516	155	13	8	2645	2792	232059821	232059971	3.630000e-30	143.0
44	TraesCS5D01G540000	chr6D	86.254	291	26	6	1	291	100357598	100357322	1.580000e-78	303.0
45	TraesCS5D01G540000	chr6D	76.697	545	71	42	1	514	104137723	104138242	5.790000e-63	252.0
46	TraesCS5D01G540000	chr2B	89.506	162	16	1	356	516	541905987	541906148	1.640000e-48	204.0
47	TraesCS5D01G540000	chr2B	84.530	181	15	7	2636	2812	760300037	760299866	2.160000e-37	167.0
48	TraesCS5D01G540000	chr4D	73.196	582	133	17	2926	3493	441056603	441056031	4.600000e-44	189.0
49	TraesCS5D01G540000	chr6A	83.249	197	27	5	313	506	607066872	607066679	3.580000e-40	176.0
50	TraesCS5D01G540000	chr1B	85.714	154	20	2	362	514	18852477	18852325	1.000000e-35	161.0
51	TraesCS5D01G540000	chr1B	78.014	141	31	0	3340	3480	3570277	3570417	4.800000e-14	89.8
52	TraesCS5D01G540000	chr7D	80.435	184	28	5	2636	2812	163200874	163201056	2.190000e-27	134.0
53	TraesCS5D01G540000	chr3B	92.683	41	3	0	3343	3383	738911856	738911816	3.770000e-05	60.2

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	TraesCS5D01G540000	chr5D	551241587	551245079	3492	True	6451.000000	6451	100.000000	1	3493	1	chr5D.!!$R5	3492
1	TraesCS5D01G540000	chr5D	515567369	515569715	2346	True	1910.000000	2641	95.341500	1	2482	2	chr5D.!!$R8	2481
2	TraesCS5D01G540000	chr5D	515463752	515466420	2668	True	1166.033333	2680	91.431667	859	3493	3	chr5D.!!$R7	2634
3	TraesCS5D01G540000	chr5D	515410986	515411857	871	True	745.000000	745	82.167000	1578	2459	1	chr5D.!!$R4	881
4	TraesCS5D01G540000	chr5D	515423777	515424998	1221	True	634.000000	638	85.915000	985	2173	2	chr5D.!!$R6	1188
5	TraesCS5D01G540000	chr5A	643732558	643735078	2520	True	1627.000000	2603	89.202000	985	3493	2	chr5A.!!$R4	2508
6	TraesCS5D01G540000	chr5A	643853820	643855794	1974	True	1121.550000	2146	90.653500	751	2878	2	chr5A.!!$R5	2127
7	TraesCS5D01G540000	chr5A	643625954	643626828	874	True	785.000000	785	82.957000	1578	2459	1	chr5A.!!$R3	881
8	TraesCS5D01G540000	chr5A	643577093	643577937	844	True	708.000000	708	82.042000	1629	2467	1	chr5A.!!$R2	838
9	TraesCS5D01G540000	chr5B	648179384	648180885	1501	True	796.500000	961	86.233000	985	2449	2	chr5B.!!$R4	1464
10	TraesCS5D01G540000	chr5B	648000058	648000808	750	True	662.000000	662	82.597000	1689	2457	1	chr5B.!!$R1	768
11	TraesCS5D01G540000	chr5B	647993056	647994561	1505	True	563.000000	630	84.235000	997	2458	2	chr5B.!!$R2	1461
12	TraesCS5D01G540000	chr5B	648258648	648260611	1963	True	560.975000	1245	90.896250	956	3068	4	chr5B.!!$R5	2112
13	TraesCS5D01G540000	chr5B	648134571	648135550	979	True	409.150000	747	89.178000	1513	2467	2	chr5B.!!$R3	954
14	TraesCS5D01G540000	chr6D	104137723	104138242	519	False	252.000000	252	76.697000	1	514	1	chr6D.!!$F1	513

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
670	741	0.388649	AGTAGCGGTTCAAGCGTCAG	60.389	55.0	11.22	0.0	41.74	3.51	F
1837	2107	0.935898	GAATCATCAGAGCACGCCAG	59.064	55.0	0.00	0.0	0.00	4.85	F

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability	Orientation
2425	2712	0.454600	GCCGTGAGATCGAAGGTGTA	59.545	55.0	0.00	0.0	0.0	2.90	R
2812	3115	1.173043	CGCTGGGCCATTTCTACAAA	58.827	50.0	6.72	0.0	0.0	2.83	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
81	82	3.450115	CGTCGTCCTGGGACTCCC	61.450	72.222	16.44	7.25	45.71	4.30
96	97	2.959707	GACTCCCAAGATGATCGGTACT	59.040	50.000	0.00	0.00	0.00	2.73
164	165	2.026522	CGAGTCGGAGGAGGATGAC	58.973	63.158	4.10	0.00	0.00	3.06
311	327	3.126171	TCGTTTTATTGGAGCGGAATGTG	59.874	43.478	0.00	0.00	0.00	3.21
369	436	6.194508	CGTTTTATTGAAGCCGAATGTGTATG	59.805	38.462	0.00	0.00	0.00	2.39
411	478	3.198068	ACAAATATAGCGTGTCTGCTGG	58.802	45.455	0.00	0.00	46.70	4.85
499	566	1.836383	GATTCCGACGCTGTAATCGT	58.164	50.000	0.00	0.00	43.49	3.73
500	567	2.190981	GATTCCGACGCTGTAATCGTT	58.809	47.619	0.00	0.00	40.59	3.85
534	602	1.068333	ACACTTGCGTTGCCAATCATC	60.068	47.619	0.00	0.00	0.00	2.92
670	741	0.388649	AGTAGCGGTTCAAGCGTCAG	60.389	55.000	11.22	0.00	41.74	3.51
810	882	3.381908	CCCACTGGACATACTCTAGACAC	59.618	52.174	0.00	0.00	31.81	3.67
811	883	4.017126	CCACTGGACATACTCTAGACACA	58.983	47.826	0.00	0.00	31.81	3.72
812	884	4.142359	CCACTGGACATACTCTAGACACAC	60.142	50.000	0.00	0.00	31.81	3.82
813	885	4.017808	ACTGGACATACTCTAGACACACC	58.982	47.826	0.00	0.00	31.81	4.16
814	886	4.017126	CTGGACATACTCTAGACACACCA	58.983	47.826	0.00	0.00	28.55	4.17
815	887	3.762288	TGGACATACTCTAGACACACCAC	59.238	47.826	0.00	0.00	0.00	4.16
820	892	6.424032	ACATACTCTAGACACACCACTATCA	58.576	40.000	0.00	0.00	0.00	2.15
869	943	2.230508	GCGATAATAGTCGGATGGTGGA	59.769	50.000	0.00	0.00	41.72	4.02
872	946	2.550830	AATAGTCGGATGGTGGATGC	57.449	50.000	0.00	0.00	0.00	3.91
901	975	6.144402	GGAACTTATTTAACGTTCGACACTGA	59.856	38.462	2.82	0.00	38.27	3.41
919	993	8.523464	CGACACTGAACAAAATAAGAAACAAAG	58.477	33.333	0.00	0.00	0.00	2.77
928	1002	9.797556	ACAAAATAAGAAACAAAGTACTCCAAC	57.202	29.630	0.00	0.00	0.00	3.77
940	1014	6.884280	AAGTACTCCAACTTTGAGATTTGG	57.116	37.500	0.00	0.00	41.12	3.28
941	1015	5.941788	AGTACTCCAACTTTGAGATTTGGT	58.058	37.500	0.00	0.00	40.68	3.67
942	1016	5.765182	AGTACTCCAACTTTGAGATTTGGTG	59.235	40.000	0.00	0.00	40.68	4.17
943	1017	4.536765	ACTCCAACTTTGAGATTTGGTGT	58.463	39.130	2.28	2.28	40.56	4.16
944	1018	4.339247	ACTCCAACTTTGAGATTTGGTGTG	59.661	41.667	6.52	0.00	42.61	3.82
946	1020	5.441500	TCCAACTTTGAGATTTGGTGTGTA	58.558	37.500	0.00	0.00	40.68	2.90
948	1022	5.299279	CCAACTTTGAGATTTGGTGTGTACT	59.701	40.000	0.00	0.00	35.91	2.73
949	1023	6.183360	CCAACTTTGAGATTTGGTGTGTACTT	60.183	38.462	0.00	0.00	35.91	2.24
950	1024	6.377327	ACTTTGAGATTTGGTGTGTACTTG	57.623	37.500	0.00	0.00	0.00	3.16
951	1025	6.119536	ACTTTGAGATTTGGTGTGTACTTGA	58.880	36.000	0.00	0.00	0.00	3.02
992	1109	2.727544	GCCGAGCTAGCTCCTGAG	59.272	66.667	33.57	21.43	39.77	3.35
1587	1851	2.283388	AGACCCGCCCTCGTTACA	60.283	61.111	0.00	0.00	0.00	2.41
1837	2107	0.935898	GAATCATCAGAGCACGCCAG	59.064	55.000	0.00	0.00	0.00	4.85
2168	2455	0.984230	TGATCGAAGGGCTCCTGTTT	59.016	50.000	0.00	0.00	32.13	2.83
2425	2712	2.671396	GGTACATCGACGAATTTGTGCT	59.329	45.455	14.81	0.00	0.00	4.40
2489	2781	1.226888	CACTACGGCCGCTACTTCC	60.227	63.158	28.58	0.00	0.00	3.46
2515	2807	8.430801	TGAACAATAAGGGAAATTTTTGTGTG	57.569	30.769	4.83	0.00	35.44	3.82
2641	2934	4.166523	TCGCTCAGAATTGTAGAAACGAG	58.833	43.478	0.00	0.00	0.00	4.18
2685	2979	4.923871	TGAAAGTTAAGTCTCAGTCGATGC	59.076	41.667	0.00	0.00	0.00	3.91
2796	3099	4.586001	ACTTGGTTAAGTCTCGGTTGACTA	59.414	41.667	6.98	0.00	43.53	2.59
2812	3115	5.128991	GGTTGACTAAGACTTAGCCATACCT	59.871	44.000	20.05	1.03	36.71	3.08
2917	3255	0.874607	AAAGTGTCGACGAGTGTGCC	60.875	55.000	11.62	0.00	0.00	5.01
2931	3269	1.133407	GTGTGCCGAACTGGTTTTTCA	59.867	47.619	0.00	0.00	41.21	2.69
2997	3335	2.021457	CAAGCATCATGAGCACATCCA	58.979	47.619	16.20	0.00	34.15	3.41
3044	3383	1.537202	GGCAAGATCAAGACACACACC	59.463	52.381	0.00	0.00	0.00	4.16
3050	3389	4.780815	AGATCAAGACACACACCAAGAAA	58.219	39.130	0.00	0.00	0.00	2.52
3068	3407	8.933653	ACCAAGAAAATAGAAGGGAAAAATCAA	58.066	29.630	0.00	0.00	0.00	2.57
3129	3469	3.991773	CAGCAAAATCAACCACCATCAAG	59.008	43.478	0.00	0.00	0.00	3.02
3193	3533	3.374058	CCTCCAATAAAGAAACGACGCAT	59.626	43.478	0.00	0.00	0.00	4.73
3273	3613	6.255215	CAAAAGAAAGTTCGAGCAAACTACA	58.745	36.000	1.01	0.00	38.52	2.74
3411	3751	4.036380	CCACCAAACTTAAGTCACCTTGTC	59.964	45.833	8.95	0.00	31.89	3.18

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
81	82	3.108881	CGTCACAGTACCGATCATCTTG	58.891	50.000	0.00	0.00	0.00	3.02
86	87	0.963856	AGGCGTCACAGTACCGATCA	60.964	55.000	0.00	0.00	0.00	2.92
191	197	4.020128	GCCTCCTCCACCGATAGATAAAAT	60.020	45.833	0.00	0.00	39.76	1.82
192	198	3.323979	GCCTCCTCCACCGATAGATAAAA	59.676	47.826	0.00	0.00	39.76	1.52
194	200	2.110188	AGCCTCCTCCACCGATAGATAA	59.890	50.000	0.00	0.00	39.76	1.75
195	201	1.711375	AGCCTCCTCCACCGATAGATA	59.289	52.381	0.00	0.00	39.76	1.98
196	202	0.485099	AGCCTCCTCCACCGATAGAT	59.515	55.000	0.00	0.00	39.76	1.98
197	203	1.146452	TAGCCTCCTCCACCGATAGA	58.854	55.000	0.00	0.00	39.76	1.98
198	204	1.821753	CATAGCCTCCTCCACCGATAG	59.178	57.143	0.00	0.00	0.00	2.08
199	205	1.427753	TCATAGCCTCCTCCACCGATA	59.572	52.381	0.00	0.00	0.00	2.92
200	206	0.188587	TCATAGCCTCCTCCACCGAT	59.811	55.000	0.00	0.00	0.00	4.18
201	207	0.032515	TTCATAGCCTCCTCCACCGA	60.033	55.000	0.00	0.00	0.00	4.69
202	208	0.105039	GTTCATAGCCTCCTCCACCG	59.895	60.000	0.00	0.00	0.00	4.94
203	209	1.501582	AGTTCATAGCCTCCTCCACC	58.498	55.000	0.00	0.00	0.00	4.61
204	210	4.156477	AGATAGTTCATAGCCTCCTCCAC	58.844	47.826	0.00	0.00	0.00	4.02
334	361	9.100554	TCGGCTTCAATAAAACGATAGATAAAA	57.899	29.630	0.00	0.00	41.38	1.52
369	436	6.251655	TGTTCTCTTTTCTACTACGACTCC	57.748	41.667	0.00	0.00	0.00	3.85
534	602	5.901552	TGGGCAAGTTGTCTAAAGAAAAAG	58.098	37.500	7.52	0.00	0.00	2.27
592	663	0.889638	TCGGTAGATCTAGCAGGCCG	60.890	60.000	26.86	22.37	39.13	6.13
813	885	3.801638	GCAGCCTCACCAGTATGATAGTG	60.802	52.174	0.22	0.22	39.69	2.74
814	886	2.366916	GCAGCCTCACCAGTATGATAGT	59.633	50.000	0.00	0.00	39.69	2.12
815	887	2.366590	TGCAGCCTCACCAGTATGATAG	59.633	50.000	0.00	0.00	39.69	2.08
820	892	1.504912	ATCTGCAGCCTCACCAGTAT	58.495	50.000	9.47	0.00	0.00	2.12
845	917	2.029290	ACCATCCGACTATTATCGCCAC	60.029	50.000	0.00	0.00	40.87	5.01
869	943	4.004982	ACGTTAAATAAGTTCCACGGCAT	58.995	39.130	0.00	0.00	30.79	4.40
872	946	4.385447	TCGAACGTTAAATAAGTTCCACGG	59.615	41.667	0.00	0.00	40.62	4.94
919	993	5.531287	ACACCAAATCTCAAAGTTGGAGTAC	59.469	40.000	10.86	0.00	42.20	2.73
926	1000	6.601613	TCAAGTACACACCAAATCTCAAAGTT	59.398	34.615	0.00	0.00	0.00	2.66
928	1002	6.618287	TCAAGTACACACCAAATCTCAAAG	57.382	37.500	0.00	0.00	0.00	2.77
929	1003	6.375736	TGTTCAAGTACACACCAAATCTCAAA	59.624	34.615	0.00	0.00	0.00	2.69
930	1004	5.883115	TGTTCAAGTACACACCAAATCTCAA	59.117	36.000	0.00	0.00	0.00	3.02
931	1005	5.295787	GTGTTCAAGTACACACCAAATCTCA	59.704	40.000	5.28	0.00	46.00	3.27
932	1006	5.748592	GTGTTCAAGTACACACCAAATCTC	58.251	41.667	5.28	0.00	46.00	2.75
933	1007	5.751243	GTGTTCAAGTACACACCAAATCT	57.249	39.130	5.28	0.00	46.00	2.40
942	1016	0.584876	GGCCGTGTGTTCAAGTACAC	59.415	55.000	0.00	3.39	46.71	2.90
943	1017	0.533308	GGGCCGTGTGTTCAAGTACA	60.533	55.000	0.00	0.00	0.00	2.90
944	1018	1.562575	CGGGCCGTGTGTTCAAGTAC	61.563	60.000	19.97	0.00	0.00	2.73
946	1020	2.590575	CGGGCCGTGTGTTCAAGT	60.591	61.111	19.97	0.00	0.00	3.16
948	1022	2.589442	GACGGGCCGTGTGTTCAA	60.589	61.111	39.41	0.00	41.37	2.69
949	1023	4.953868	CGACGGGCCGTGTGTTCA	62.954	66.667	39.41	0.00	41.37	3.18
950	1024	4.955774	ACGACGGGCCGTGTGTTC	62.956	66.667	39.41	20.73	41.37	3.18
951	1025	4.955774	GACGACGGGCCGTGTGTT	62.956	66.667	39.41	17.38	43.49	3.32
1419	1537	1.600916	GCAGGTGAGCCGAACCTTT	60.601	57.895	0.00	0.00	46.14	3.11
1587	1851	1.606531	GAGCCATGTCCTCCTGCTT	59.393	57.895	0.00	0.00	31.23	3.91
2168	2455	2.927856	ATGACGAGTGGGTGCCCA	60.928	61.111	5.73	5.73	45.02	5.36
2425	2712	0.454600	GCCGTGAGATCGAAGGTGTA	59.545	55.000	0.00	0.00	0.00	2.90
2489	2781	8.550376	CACACAAAAATTTCCCTTATTGTTCAG	58.450	33.333	1.79	0.00	0.00	3.02
2515	2807	5.404946	AGCAAACATGCATGAAAGTATCAC	58.595	37.500	32.75	11.34	41.93	3.06
2641	2934	5.633996	CAGTCGACTGAGATTTAGCAATC	57.366	43.478	36.73	0.00	46.59	2.67
2665	2959	4.792521	AGCATCGACTGAGACTTAACTT	57.207	40.909	0.00	0.00	0.00	2.66
2667	2961	8.076781	TGAATATAGCATCGACTGAGACTTAAC	58.923	37.037	0.00	0.00	0.00	2.01
2668	2962	8.166422	TGAATATAGCATCGACTGAGACTTAA	57.834	34.615	0.00	0.00	0.00	1.85
2669	2963	7.745620	TGAATATAGCATCGACTGAGACTTA	57.254	36.000	0.00	0.00	0.00	2.24
2697	2991	7.921786	TTTTCACGGATCTTCACATAAGATT	57.078	32.000	2.04	0.00	37.14	2.40
2760	3063	7.120923	ACTTAACCAAGTCTAAGTCAAGTGA	57.879	36.000	0.00	0.00	41.25	3.41
2787	3090	3.587797	TGGCTAAGTCTTAGTCAACCG	57.412	47.619	21.87	0.00	44.25	4.44
2796	3099	6.869206	TCTACAAAGGTATGGCTAAGTCTT	57.131	37.500	0.00	0.00	0.00	3.01
2812	3115	1.173043	CGCTGGGCCATTTCTACAAA	58.827	50.000	6.72	0.00	0.00	2.83
2917	3255	7.193595	ACACTCTTTATTGAAAAACCAGTTCG	58.806	34.615	0.00	0.00	0.00	3.95
3050	3389	5.966319	AGGCCATTGATTTTTCCCTTCTATT	59.034	36.000	5.01	0.00	0.00	1.73
3129	3469	2.301346	CCCATAATCTGGTTGCTGTCC	58.699	52.381	0.00	0.00	44.30	4.02
3273	3613	6.797540	TCATCCCCTTATTGGAGGTAATGTAT	59.202	38.462	0.00	0.00	38.35	2.29
3411	3751	1.803334	TTGAAAATGGAGACGACGGG	58.197	50.000	0.00	0.00	0.00	5.28

Based at the University of Bristol with support from BBSRC.

AutoCloner maintained by Alex Coulton.