AutoCloner

Multiple sequence alignment - TraesCS1D01G324900

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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	TraesCS1D01G324900	chr1D	100.000	2515	0	0	1	2515	417105555	417108069	0.000000e+00	4645.0
1	TraesCS1D01G324900	chr1D	94.193	2101	109	8	425	2515	336737274	336735177	0.000000e+00	3192.0
2	TraesCS1D01G324900	chr3D	95.513	2273	94	5	245	2512	330477416	330475147	0.000000e+00	3626.0
3	TraesCS1D01G324900	chr3D	95.604	91	4	0	14	104	330477965	330477875	2.020000e-31	147.0
4	TraesCS1D01G324900	chr3D	98.246	57	1	0	48	104	57606443	57606499	1.590000e-17	100.0
5	TraesCS1D01G324900	chr6D	95.301	2277	100	5	245	2515	46527415	46525140	0.000000e+00	3605.0
6	TraesCS1D01G324900	chr6D	94.622	2101	101	6	425	2515	452662260	452664358	0.000000e+00	3243.0
7	TraesCS1D01G324900	chr6D	95.604	91	4	0	14	104	46528091	46528001	2.020000e-31	147.0
8	TraesCS1D01G324900	chr4D	93.734	2282	98	19	245	2515	222630232	222627985	0.000000e+00	3380.0
9	TraesCS1D01G324900	chr4D	94.095	1321	62	8	1208	2515	261238234	261236917	0.000000e+00	1993.0
10	TraesCS1D01G324900	chr4D	96.703	91	3	0	14	104	222630908	222630818	4.330000e-33	152.0
11	TraesCS1D01G324900	chr4D	98.246	57	1	0	48	104	125872323	125872379	1.590000e-17	100.0
12	TraesCS1D01G324900	chr4D	98.246	57	1	0	48	104	125937259	125937203	1.590000e-17	100.0
13	TraesCS1D01G324900	chr4D	96.552	58	1	1	47	104	125861666	125861610	7.410000e-16	95.3
14	TraesCS1D01G324900	chr2D	93.863	2102	117	6	425	2515	239244439	239246539	0.000000e+00	3157.0
15	TraesCS1D01G324900	chr2D	94.056	2002	89	7	539	2515	397123831	397125827	0.000000e+00	3011.0
16	TraesCS1D01G324900	chr2D	95.580	362	11	4	111	467	397123452	397123813	2.170000e-160	575.0
17	TraesCS1D01G324900	chr5D	93.422	2022	106	5	520	2515	384518892	384516872	0.000000e+00	2972.0
18	TraesCS1D01G324900	chr5D	91.395	2115	124	13	443	2515	401772744	401774842	0.000000e+00	2844.0
19	TraesCS1D01G324900	chr5D	93.133	1165	54	5	111	1271	16496486	16495344	0.000000e+00	1685.0
20	TraesCS1D01G324900	chr5D	94.636	261	14	0	174	434	20273180	20272920	3.010000e-109	405.0
21	TraesCS1D01G324900	chr5D	97.802	91	2	0	14	104	16497065	16496975	9.310000e-35	158.0
22	TraesCS1D01G324900	chr2B	92.330	1382	86	13	443	1821	738352954	738351590	0.000000e+00	1947.0
23	TraesCS1D01G324900	chr7D	94.688	866	42	1	429	1290	51245844	51244979	0.000000e+00	1341.0
24	TraesCS1D01G324900	chr5A	92.105	760	43	8	111	853	384014021	384014780	0.000000e+00	1055.0
25	TraesCS1D01G324900	chr5A	93.750	48	3	0	336	383	235650357	235650404	3.470000e-09	73.1
26	TraesCS1D01G324900	chr6B	94.515	237	9	2	111	343	238444966	238444730	1.840000e-96	363.0
27	TraesCS1D01G324900	chr4B	94.093	237	10	3	111	343	644594316	644594552	8.560000e-95	357.0
28	TraesCS1D01G324900	chr4B	91.213	239	11	4	111	345	368725522	368725754	1.450000e-82	316.0
29	TraesCS1D01G324900	chr3A	92.373	236	14	3	112	343	5992854	5992619	1.440000e-87	333.0
30	TraesCS1D01G324900	chr3A	88.803	259	8	4	111	348	615143762	615143504	5.260000e-77	298.0
31	TraesCS1D01G324900	chr3A	97.778	45	1	0	339	383	5992582	5992538	7.460000e-11	78.7
32	TraesCS1D01G324900	chr7B	91.775	231	15	3	111	337	725302837	725303067	4.040000e-83	318.0
33	TraesCS1D01G324900	chr4A	96.552	58	2	0	47	104	433610729	433610672	2.060000e-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	TraesCS1D01G324900	chr1D	417105555	417108069	2514	False	4645.0	4645	100.0000	1	2515	1	chr1D.!!$F1	2514
1	TraesCS1D01G324900	chr1D	336735177	336737274	2097	True	3192.0	3192	94.1930	425	2515	1	chr1D.!!$R1	2090
2	TraesCS1D01G324900	chr3D	330475147	330477965	2818	True	1886.5	3626	95.5585	14	2512	2	chr3D.!!$R1	2498
3	TraesCS1D01G324900	chr6D	452662260	452664358	2098	False	3243.0	3243	94.6220	425	2515	1	chr6D.!!$F1	2090
4	TraesCS1D01G324900	chr6D	46525140	46528091	2951	True	1876.0	3605	95.4525	14	2515	2	chr6D.!!$R1	2501
5	TraesCS1D01G324900	chr4D	261236917	261238234	1317	True	1993.0	1993	94.0950	1208	2515	1	chr4D.!!$R3	1307
6	TraesCS1D01G324900	chr4D	222627985	222630908	2923	True	1766.0	3380	95.2185	14	2515	2	chr4D.!!$R4	2501
7	TraesCS1D01G324900	chr2D	239244439	239246539	2100	False	3157.0	3157	93.8630	425	2515	1	chr2D.!!$F1	2090
8	TraesCS1D01G324900	chr2D	397123452	397125827	2375	False	1793.0	3011	94.8180	111	2515	2	chr2D.!!$F2	2404
9	TraesCS1D01G324900	chr5D	384516872	384518892	2020	True	2972.0	2972	93.4220	520	2515	1	chr5D.!!$R2	1995
10	TraesCS1D01G324900	chr5D	401772744	401774842	2098	False	2844.0	2844	91.3950	443	2515	1	chr5D.!!$F1	2072
11	TraesCS1D01G324900	chr5D	16495344	16497065	1721	True	921.5	1685	95.4675	14	1271	2	chr5D.!!$R3	1257
12	TraesCS1D01G324900	chr2B	738351590	738352954	1364	True	1947.0	1947	92.3300	443	1821	1	chr2B.!!$R1	1378
13	TraesCS1D01G324900	chr7D	51244979	51245844	865	True	1341.0	1341	94.6880	429	1290	1	chr7D.!!$R1	861
14	TraesCS1D01G324900	chr5A	384014021	384014780	759	False	1055.0	1055	92.1050	111	853	1	chr5A.!!$F2	742

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
788	1338	0.106519	AGGCTGCCTGACAAGTTTGT	60.107	50.0	22.71	0.0	45.65	2.83	F

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability	Orientation
2196	2948	0.037326	CTCCTTGTAGCCGCTTCACA	60.037	55.0	0.0	0.0	0.0	3.58	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
96	97	7.942341	TCCATCTTAATTGTCACTGGTTTAGTT	59.058	33.333	0.00	0.00	37.60	2.24
104	105	7.925043	TTGTCACTGGTTTAGTTCAACTTTA	57.075	32.000	0.00	0.00	37.60	1.85
106	107	7.925993	TGTCACTGGTTTAGTTCAACTTTATG	58.074	34.615	0.00	0.00	37.60	1.90
108	109	6.016610	TCACTGGTTTAGTTCAACTTTATGCC	60.017	38.462	0.00	0.00	37.60	4.40
213	741	2.566833	TGGAACAATGTCCAGTCCTG	57.433	50.000	3.80	0.00	42.97	3.86
214	742	1.774254	TGGAACAATGTCCAGTCCTGT	59.226	47.619	3.80	0.00	42.97	4.00
215	743	2.174639	TGGAACAATGTCCAGTCCTGTT	59.825	45.455	3.80	0.00	42.97	3.16
216	744	3.222603	GGAACAATGTCCAGTCCTGTTT	58.777	45.455	0.00	0.00	37.65	2.83
217	745	4.141367	TGGAACAATGTCCAGTCCTGTTTA	60.141	41.667	3.80	0.00	42.97	2.01
218	746	5.010282	GGAACAATGTCCAGTCCTGTTTAT	58.990	41.667	0.00	0.00	37.65	1.40
219	747	6.177610	GGAACAATGTCCAGTCCTGTTTATA	58.822	40.000	0.00	0.00	37.65	0.98
220	748	6.316390	GGAACAATGTCCAGTCCTGTTTATAG	59.684	42.308	0.00	0.00	37.65	1.31
221	749	5.186198	ACAATGTCCAGTCCTGTTTATAGC	58.814	41.667	0.00	0.00	0.00	2.97
222	750	5.045578	ACAATGTCCAGTCCTGTTTATAGCT	60.046	40.000	0.00	0.00	0.00	3.32
223	751	4.471904	TGTCCAGTCCTGTTTATAGCTG	57.528	45.455	0.00	0.00	0.00	4.24
224	752	3.838317	TGTCCAGTCCTGTTTATAGCTGT	59.162	43.478	0.00	0.00	0.00	4.40
225	753	4.184629	GTCCAGTCCTGTTTATAGCTGTG	58.815	47.826	0.00	0.00	0.00	3.66
226	754	3.838317	TCCAGTCCTGTTTATAGCTGTGT	59.162	43.478	0.00	0.00	0.00	3.72
227	755	4.081642	TCCAGTCCTGTTTATAGCTGTGTC	60.082	45.833	0.00	0.00	0.00	3.67
228	756	4.184629	CAGTCCTGTTTATAGCTGTGTCC	58.815	47.826	0.00	0.00	0.00	4.02
229	757	4.081420	CAGTCCTGTTTATAGCTGTGTCCT	60.081	45.833	0.00	0.00	0.00	3.85
230	758	4.081420	AGTCCTGTTTATAGCTGTGTCCTG	60.081	45.833	0.00	0.00	0.00	3.86
231	759	3.838317	TCCTGTTTATAGCTGTGTCCTGT	59.162	43.478	0.00	0.00	0.00	4.00
232	760	4.286032	TCCTGTTTATAGCTGTGTCCTGTT	59.714	41.667	0.00	0.00	0.00	3.16
233	761	5.003804	CCTGTTTATAGCTGTGTCCTGTTT	58.996	41.667	0.00	0.00	0.00	2.83
234	762	6.014070	TCCTGTTTATAGCTGTGTCCTGTTTA	60.014	38.462	0.00	0.00	0.00	2.01
235	763	6.823689	CCTGTTTATAGCTGTGTCCTGTTTAT	59.176	38.462	0.00	0.00	0.00	1.40
236	764	7.985184	CCTGTTTATAGCTGTGTCCTGTTTATA	59.015	37.037	0.00	0.00	0.00	0.98
237	765	8.942338	TGTTTATAGCTGTGTCCTGTTTATAG	57.058	34.615	0.00	0.00	0.00	1.31
238	766	7.494625	TGTTTATAGCTGTGTCCTGTTTATAGC	59.505	37.037	0.00	0.00	0.00	2.97
239	767	5.878406	ATAGCTGTGTCCTGTTTATAGCT	57.122	39.130	0.00	0.00	42.16	3.32
240	768	4.559862	AGCTGTGTCCTGTTTATAGCTT	57.440	40.909	0.00	0.00	36.72	3.74
241	769	4.911390	AGCTGTGTCCTGTTTATAGCTTT	58.089	39.130	0.00	0.00	36.72	3.51
242	770	5.316987	AGCTGTGTCCTGTTTATAGCTTTT	58.683	37.500	0.00	0.00	36.72	2.27
243	771	5.182001	AGCTGTGTCCTGTTTATAGCTTTTG	59.818	40.000	0.00	0.00	36.72	2.44
244	772	5.619981	GCTGTGTCCTGTTTATAGCTTTTGG	60.620	44.000	0.00	0.00	0.00	3.28
245	773	5.381757	TGTGTCCTGTTTATAGCTTTTGGT	58.618	37.500	0.00	0.00	0.00	3.67
246	774	5.472137	TGTGTCCTGTTTATAGCTTTTGGTC	59.528	40.000	0.00	0.00	0.00	4.02
247	775	5.007682	TGTCCTGTTTATAGCTTTTGGTCC	58.992	41.667	0.00	0.00	0.00	4.46
248	776	5.007682	GTCCTGTTTATAGCTTTTGGTCCA	58.992	41.667	0.00	0.00	0.00	4.02
253	781	7.973944	CCTGTTTATAGCTTTTGGTCCATTTAC	59.026	37.037	0.00	0.00	0.00	2.01
427	955	9.176460	TGTTATTCTTGTTGCTGATGATGATTA	57.824	29.630	0.00	0.00	0.00	1.75
515	1043	1.185315	GCCCTGGCAAACACATGTAT	58.815	50.000	2.58	0.00	41.49	2.29
647	1176	4.097892	GCTTGGAAGGTTTTGAGTTCTTCA	59.902	41.667	0.00	0.00	37.82	3.02
739	1289	2.676839	CTGTCTAGTGCTTGATTGGCAG	59.323	50.000	0.00	0.00	40.54	4.85
788	1338	0.106519	AGGCTGCCTGACAAGTTTGT	60.107	50.000	22.71	0.00	45.65	2.83
829	1379	0.823356	GCCCCACAAAGTGAAGCTGA	60.823	55.000	0.00	0.00	35.23	4.26
1044	1594	1.237533	TGTACTACCAGCACGACGAA	58.762	50.000	0.00	0.00	0.00	3.85
1199	1794	2.721167	CGGGGATGACGAGGAGCAA	61.721	63.158	0.00	0.00	0.00	3.91
1214	1809	2.158696	GGAGCAACCTATTCTGGCTGAT	60.159	50.000	0.00	0.00	34.44	2.90
1217	1812	3.137913	AGCAACCTATTCTGGCTGATGAT	59.862	43.478	0.00	0.00	32.76	2.45
1224	1819	0.835276	TCTGGCTGATGATGACCCTG	59.165	55.000	0.00	0.00	0.00	4.45
1236	1831	1.224592	GACCCTGCTATGGTGGTGG	59.775	63.158	0.00	0.00	35.85	4.61
1334	2064	1.832600	CTGATGACGACCTCACGATG	58.167	55.000	0.00	0.00	37.03	3.84
1373	2103	2.048023	CGCAATGGTGGTGCCTGAT	61.048	57.895	0.00	0.00	38.86	2.90
1858	2595	0.731174	CGAAATCGGCCGGTTTTTGG	60.731	55.000	35.16	23.26	35.37	3.28
1916	2657	0.802607	GAGACTTCCGCGTCACATCC	60.803	60.000	4.92	0.00	36.38	3.51
2146	2893	2.558359	CCAAAGCTAGGTTCCAACTTGG	59.442	50.000	7.80	7.01	39.43	3.61
2233	2985	2.282887	GGTCACCCCAAATGGCGT	60.283	61.111	0.00	0.00	0.00	5.68
2275	3027	4.273318	AGTAGACCCTATTTTACGGACGT	58.727	43.478	1.98	1.98	0.00	4.34
2312	3064	3.522553	CTTTTCCGACCCTTGTAGCTAG	58.477	50.000	0.00	0.00	0.00	3.42
2356	3108	1.218047	CCGATTCAGCTGGAACCGA	59.782	57.895	15.13	0.00	45.80	4.69
2402	3154	3.380004	CCATAGCTTGCCCGTTATTTTCA	59.620	43.478	0.00	0.00	0.00	2.69
2442	3194	4.439289	GCTTCACAGTTAGGCATTTCATCC	60.439	45.833	0.00	0.00	0.00	3.51
2444	3196	2.355756	CACAGTTAGGCATTTCATCCCG	59.644	50.000	0.00	0.00	0.00	5.14
2455	3207	3.275617	TTTCATCCCGGAATCGACAAT	57.724	42.857	0.73	0.00	39.00	2.71

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
0	1	8.051468	TCATATCCATAATCAAACCCTAACCA	57.949	34.615	0.00	0.00	0.00	3.67
1	2	8.934023	TTCATATCCATAATCAAACCCTAACC	57.066	34.615	0.00	0.00	0.00	2.85
31	32	2.287977	TGAACAGAGGAAGGAGTCGA	57.712	50.000	0.00	0.00	0.00	4.20
108	109	7.716123	ACCCATATTTGAACATTGGCATAAATG	59.284	33.333	0.00	4.89	42.21	2.32
208	736	4.184629	CAGGACACAGCTATAAACAGGAC	58.815	47.826	0.00	0.00	0.00	3.85
209	737	3.838317	ACAGGACACAGCTATAAACAGGA	59.162	43.478	0.00	0.00	0.00	3.86
210	738	4.207891	ACAGGACACAGCTATAAACAGG	57.792	45.455	0.00	0.00	0.00	4.00
211	739	7.849804	ATAAACAGGACACAGCTATAAACAG	57.150	36.000	0.00	0.00	0.00	3.16
212	740	7.494625	GCTATAAACAGGACACAGCTATAAACA	59.505	37.037	0.00	0.00	0.00	2.83
213	741	7.711339	AGCTATAAACAGGACACAGCTATAAAC	59.289	37.037	0.00	0.00	36.19	2.01
214	742	7.792032	AGCTATAAACAGGACACAGCTATAAA	58.208	34.615	0.00	0.00	36.19	1.40
215	743	7.361457	AGCTATAAACAGGACACAGCTATAA	57.639	36.000	0.00	0.00	36.19	0.98
216	744	6.978674	AGCTATAAACAGGACACAGCTATA	57.021	37.500	0.00	0.00	36.19	1.31
217	745	5.878406	AGCTATAAACAGGACACAGCTAT	57.122	39.130	0.00	0.00	36.19	2.97
218	746	5.677319	AAGCTATAAACAGGACACAGCTA	57.323	39.130	0.00	0.00	36.91	3.32
219	747	4.559862	AAGCTATAAACAGGACACAGCT	57.440	40.909	0.00	0.00	39.46	4.24
220	748	5.393962	CAAAAGCTATAAACAGGACACAGC	58.606	41.667	0.00	0.00	0.00	4.40
221	749	5.473504	ACCAAAAGCTATAAACAGGACACAG	59.526	40.000	0.00	0.00	0.00	3.66
222	750	5.381757	ACCAAAAGCTATAAACAGGACACA	58.618	37.500	0.00	0.00	0.00	3.72
223	751	5.106277	GGACCAAAAGCTATAAACAGGACAC	60.106	44.000	0.00	0.00	0.00	3.67
224	752	5.007682	GGACCAAAAGCTATAAACAGGACA	58.992	41.667	0.00	0.00	0.00	4.02
225	753	5.007682	TGGACCAAAAGCTATAAACAGGAC	58.992	41.667	0.00	0.00	0.00	3.85
226	754	5.249780	TGGACCAAAAGCTATAAACAGGA	57.750	39.130	0.00	0.00	0.00	3.86
227	755	6.530019	AATGGACCAAAAGCTATAAACAGG	57.470	37.500	0.00	0.00	0.00	4.00
228	756	8.519526	TGTAAATGGACCAAAAGCTATAAACAG	58.480	33.333	0.00	0.00	0.00	3.16
229	757	8.410673	TGTAAATGGACCAAAAGCTATAAACA	57.589	30.769	0.00	0.00	0.00	2.83
230	758	8.520351	ACTGTAAATGGACCAAAAGCTATAAAC	58.480	33.333	0.00	0.00	0.00	2.01
231	759	8.644374	ACTGTAAATGGACCAAAAGCTATAAA	57.356	30.769	0.00	0.00	0.00	1.40
232	760	9.391006	CTACTGTAAATGGACCAAAAGCTATAA	57.609	33.333	0.00	0.00	0.00	0.98
233	761	8.764558	TCTACTGTAAATGGACCAAAAGCTATA	58.235	33.333	0.00	0.00	0.00	1.31
234	762	7.630082	TCTACTGTAAATGGACCAAAAGCTAT	58.370	34.615	0.00	0.00	0.00	2.97
235	763	7.011499	TCTACTGTAAATGGACCAAAAGCTA	57.989	36.000	0.00	0.00	0.00	3.32
236	764	5.876357	TCTACTGTAAATGGACCAAAAGCT	58.124	37.500	0.00	0.00	0.00	3.74
237	765	6.759497	ATCTACTGTAAATGGACCAAAAGC	57.241	37.500	0.00	0.00	0.00	3.51
238	766	8.840321	CCATATCTACTGTAAATGGACCAAAAG	58.160	37.037	14.04	0.00	39.60	2.27
239	767	8.333235	ACCATATCTACTGTAAATGGACCAAAA	58.667	33.333	21.25	0.00	39.60	2.44
240	768	7.867921	ACCATATCTACTGTAAATGGACCAAA	58.132	34.615	21.25	0.00	39.60	3.28
241	769	7.446106	ACCATATCTACTGTAAATGGACCAA	57.554	36.000	21.25	0.00	39.60	3.67
242	770	7.347222	AGAACCATATCTACTGTAAATGGACCA	59.653	37.037	21.25	0.00	39.60	4.02
243	771	7.736893	AGAACCATATCTACTGTAAATGGACC	58.263	38.462	21.25	14.73	39.60	4.46
244	772	9.915629	CTAGAACCATATCTACTGTAAATGGAC	57.084	37.037	21.25	16.09	39.60	4.02
245	773	8.585881	GCTAGAACCATATCTACTGTAAATGGA	58.414	37.037	21.25	4.36	39.60	3.41
246	774	8.589338	AGCTAGAACCATATCTACTGTAAATGG	58.411	37.037	16.21	16.21	42.32	3.16
247	775	9.416794	CAGCTAGAACCATATCTACTGTAAATG	57.583	37.037	0.00	0.00	32.46	2.32
248	776	9.148879	ACAGCTAGAACCATATCTACTGTAAAT	57.851	33.333	13.14	0.00	39.59	1.40
253	781	6.398234	ACACAGCTAGAACCATATCTACTG	57.602	41.667	0.00	0.00	37.24	2.74
427	955	4.351111	CCTACTATATCTTGGCAAAGGGGT	59.649	45.833	0.00	0.00	33.90	4.95
647	1176	7.335422	ACTGCAAGATTTCTCAATTACGATCTT	59.665	33.333	0.00	0.00	37.43	2.40
739	1289	4.868734	CGAGGGTCAAGTAGTGGTTAATTC	59.131	45.833	0.00	0.00	0.00	2.17
788	1338	4.838152	GGCCGGCGAGCATCTTCA	62.838	66.667	22.54	0.00	0.00	3.02
981	1531	0.179234	TCTTCACGGTGAACAAGGCA	59.821	50.000	19.07	0.00	32.21	4.75
985	1535	2.542178	CGAACATCTTCACGGTGAACAA	59.458	45.455	19.07	10.93	32.21	2.83
1199	1794	3.072184	GGTCATCATCAGCCAGAATAGGT	59.928	47.826	0.00	0.00	0.00	3.08
1214	1809	0.839277	CCACCATAGCAGGGTCATCA	59.161	55.000	0.00	0.00	36.19	3.07
1217	1812	1.561769	CCACCACCATAGCAGGGTCA	61.562	60.000	0.00	0.00	36.19	4.02
1224	1819	1.893808	CATCCGCCACCACCATAGC	60.894	63.158	0.00	0.00	0.00	2.97
1236	1831	0.882474	ATAGCTAGGTCGTCATCCGC	59.118	55.000	0.00	0.00	36.19	5.54
1245	1867	0.106894	GCCACCACCATAGCTAGGTC	59.893	60.000	10.78	0.00	37.23	3.85
1250	1872	1.604378	GTCAGCCACCACCATAGCT	59.396	57.895	0.00	0.00	35.52	3.32
1302	1924	3.641436	TCGTCATCAGCCACCATAGTAAT	59.359	43.478	0.00	0.00	0.00	1.89
1305	1927	1.137086	GTCGTCATCAGCCACCATAGT	59.863	52.381	0.00	0.00	0.00	2.12
1334	2064	1.212935	AGGTCATCATTAGGCACCACC	59.787	52.381	0.00	0.00	39.61	4.61
1373	2103	2.093711	CACCACCATCACGAGGTCATTA	60.094	50.000	0.00	0.00	37.23	1.90
1600	2336	6.338214	TGAGCATGCACAAAATTAAACCTA	57.662	33.333	21.98	0.00	0.00	3.08
1916	2657	2.795329	AGTTGGTAGGCCACATTTGAG	58.205	47.619	5.01	0.00	46.01	3.02
1987	2733	5.427036	TCGTTCATGGTAGGTTGTTTTTC	57.573	39.130	0.00	0.00	0.00	2.29
2096	2843	6.031051	ATTGTTTGCTATCACAAGACGGAGT	61.031	40.000	0.00	0.00	37.97	3.85
2196	2948	0.037326	CTCCTTGTAGCCGCTTCACA	60.037	55.000	0.00	0.00	0.00	3.58
2275	3027	3.745458	GGAAAAGCATGATTTTTGGCGAA	59.255	39.130	21.57	0.00	32.62	4.70
2312	3064	1.002624	TTGTCTGAATGGCCGGGAC	60.003	57.895	2.18	0.00	0.00	4.46
2356	3108	1.247567	CCCGCAGTTCAAATTCCAGT	58.752	50.000	0.00	0.00	0.00	4.00
2442	3194	2.480419	GCCAATCTATTGTCGATTCCGG	59.520	50.000	0.00	0.00	36.06	5.14
2444	3196	3.059597	CGTGCCAATCTATTGTCGATTCC	60.060	47.826	2.25	0.00	36.06	3.01
2455	3207	2.614481	GGGTTTGAGTCGTGCCAATCTA	60.614	50.000	0.27	0.00	0.00	1.98

Based at the University of Bristol with support from BBSRC.

AutoCloner maintained by Alex Coulton.