AutoCloner

Multiple sequence alignment - TraesCS1A01G135300

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	TraesCS1A01G135300	chr1A	100.000	7762	0	0	1	7762	208216706	208208945	0.000000e+00	14334
1	TraesCS1A01G135300	chr1A	96.608	855	29	0	5179	6033	207986861	207986007	0.000000e+00	1419
2	TraesCS1A01G135300	chr1A	96.583	439	15	0	6032	6470	207957766	207957328	0.000000e+00	728
3	TraesCS1A01G135300	chr1D	97.768	3943	59	7	3847	7762	153772865	153776805	0.000000e+00	6767
4	TraesCS1A01G135300	chr1D	97.507	3771	54	12	1	3758	153769121	153772864	0.000000e+00	6407
5	TraesCS1A01G135300	chr1D	95.238	126	6	0	4053	4178	164437705	164437580	4.750000e-47	200
6	TraesCS1A01G135300	chr1D	80.519	154	24	4	66	217	374610928	374610779	6.370000e-21	113
7	TraesCS1A01G135300	chr1B	96.815	3517	90	6	4250	7762	230946393	230949891	0.000000e+00	5854
8	TraesCS1A01G135300	chr1B	96.351	2220	52	5	436	2626	230942526	230944745	0.000000e+00	3624
9	TraesCS1A01G135300	chr1B	95.280	1462	37	5	2625	4060	230944835	230946290	0.000000e+00	2289
10	TraesCS1A01G135300	chr1B	90.338	414	21	7	1	413	230942135	230942530	6.900000e-145	525
11	TraesCS1A01G135300	chr1B	95.000	80	2	1	4173	4252	230946287	230946364	2.940000e-24	124
12	TraesCS1A01G135300	chr4B	86.722	2508	301	26	4276	6764	203850384	203847890	0.000000e+00	2758
13	TraesCS1A01G135300	chr4B	80.233	688	115	19	2834	3506	203851762	203851081	1.500000e-136	497
14	TraesCS1A01G135300	chr4D	86.603	2508	304	26	4276	6764	172023455	172025949	0.000000e+00	2741
15	TraesCS1A01G135300	chr4D	80.000	690	113	22	2834	3506	172022074	172022755	3.260000e-133	486
16	TraesCS1A01G135300	chr4D	95.385	130	5	1	4049	4178	55352565	55352437	1.020000e-48	206
17	TraesCS1A01G135300	chr4D	96.721	122	4	0	4057	4178	503357915	503358036	3.670000e-48	204
18	TraesCS1A01G135300	chr4A	86.518	2507	308	25	4276	6764	415680865	415683359	0.000000e+00	2730
19	TraesCS1A01G135300	chr4A	79.635	712	120	23	2834	3528	415679487	415680190	9.050000e-134	488
20	TraesCS1A01G135300	chr4A	82.143	140	24	1	80	219	584933131	584932993	1.370000e-22	119
21	TraesCS1A01G135300	chr4A	81.457	151	23	4	70	218	734002996	734003143	1.370000e-22	119
22	TraesCS1A01G135300	chrUn	100.000	391	0	0	1603	1993	479833821	479833431	0.000000e+00	723
23	TraesCS1A01G135300	chr5D	82.185	421	59	12	4571	4989	55548073	55547667	1.600000e-91	348
24	TraesCS1A01G135300	chr5D	84.836	244	29	7	2809	3049	55548837	55548599	1.010000e-58	239
25	TraesCS1A01G135300	chr5D	83.673	245	27	12	2809	3047	55545060	55544823	1.310000e-52	219
26	TraesCS1A01G135300	chr5D	82.305	243	35	5	4271	4513	55543592	55543358	3.670000e-48	204
27	TraesCS1A01G135300	chr5D	93.846	130	8	0	4056	4185	2138694	2138565	6.140000e-46	196
28	TraesCS1A01G135300	chr5D	82.270	141	22	2	80	218	530604576	530604715	1.370000e-22	119
29	TraesCS1A01G135300	chr5B	84.298	242	30	7	2809	3047	57977297	57977061	6.060000e-56	230
30	TraesCS1A01G135300	chr5B	79.452	219	41	3	1	217	227123573	227123789	1.350000e-32	152
31	TraesCS1A01G135300	chr5A	83.137	255	28	12	2783	3033	44287295	44287052	1.310000e-52	219
32	TraesCS1A01G135300	chr6A	84.141	227	24	7	1	218	235923084	235923307	7.890000e-50	209
33	TraesCS1A01G135300	chr6D	84.071	226	24	7	1	217	179955370	179955592	2.840000e-49	207
34	TraesCS1A01G135300	chr2A	97.521	121	3	0	4057	4177	78845572	78845692	2.840000e-49	207
35	TraesCS1A01G135300	chr2A	98.305	118	2	0	4057	4174	606523804	606523687	2.840000e-49	207
36	TraesCS1A01G135300	chr2B	94.488	127	7	0	4055	4181	248147357	248147231	6.140000e-46	196
37	TraesCS1A01G135300	chr2D	90.845	142	10	3	4034	4174	114520262	114520401	3.700000e-43	187

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	TraesCS1A01G135300	chr1A	208208945	208216706	7761	True	14334.0	14334	100.00000	1	7762	1	chr1A.!!$R3	7761
1	TraesCS1A01G135300	chr1A	207986007	207986861	854	True	1419.0	1419	96.60800	5179	6033	1	chr1A.!!$R2	854
2	TraesCS1A01G135300	chr1D	153769121	153776805	7684	False	6587.0	6767	97.63750	1	7762	2	chr1D.!!$F1	7761
3	TraesCS1A01G135300	chr1B	230942135	230949891	7756	False	2483.2	5854	94.75680	1	7762	5	chr1B.!!$F1	7761
4	TraesCS1A01G135300	chr4B	203847890	203851762	3872	True	1627.5	2758	83.47750	2834	6764	2	chr4B.!!$R1	3930
5	TraesCS1A01G135300	chr4D	172022074	172025949	3875	False	1613.5	2741	83.30150	2834	6764	2	chr4D.!!$F2	3930
6	TraesCS1A01G135300	chr4A	415679487	415683359	3872	False	1609.0	2730	83.07650	2834	6764	2	chr4A.!!$F2	3930
7	TraesCS1A01G135300	chr5D	55543358	55548837	5479	True	252.5	348	83.24975	2809	4989	4	chr5D.!!$R2	2180

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
91	92	1.366111	TTTTCATCTAGGTGCGCGCC	61.366	55.000	32.51	32.51	0.00	6.53	F
1056	1086	0.990374	AGCTCCCAACAGAAGCTGAT	59.010	50.000	0.82	0.00	35.18	2.90	F
1601	1631	1.203364	AGGTCCAGTCCTTCATGGTCT	60.203	52.381	0.00	0.00	37.84	3.85	F
2172	2202	1.247567	CCACGGATTCCAAGCAGTTT	58.752	50.000	3.09	0.00	0.00	2.66	F
3413	7440	0.457337	GTGGACGGCTTGTAGGTACG	60.457	60.000	0.00	0.00	0.00	3.67	F
4070	8307	0.107017	TTACCTACTCCCTCCGTCCG	60.107	60.000	0.00	0.00	0.00	4.79	F

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability	Orientation
1488	1518	1.834263	ACAATAGCAGGTCCACTCTCC	59.166	52.381	0.00	0.00	0.00	3.71	R
2438	2468	1.913778	ATTGCCTCACAGCACATGAA	58.086	45.000	0.00	0.00	43.97	2.57	R
3413	7440	0.679505	TAGGCATATGGCGTCTGACC	59.320	55.000	22.17	3.78	46.16	4.02	R
3830	8050	0.321034	ACCCGACGACCTTAAAAGCC	60.321	55.000	0.00	0.00	0.00	4.35	R
5286	9596	0.824759	GGTTACGATCCCTGTGAGCT	59.175	55.000	0.00	0.00	0.00	4.09	R
6771	11084	4.337763	CACGCAAAGATGAAGATAGCAAC	58.662	43.478	0.00	0.00	0.00	4.17	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
91	92	1.366111	TTTTCATCTAGGTGCGCGCC	61.366	55.000	32.51	32.51	0.00	6.53
153	154	5.013704	TCTCCTCTTAATTACCTTGCCACAA	59.986	40.000	0.00	0.00	0.00	3.33
259	261	9.502091	TTTATTGAGCTATACTCTCTCTCTCTC	57.498	37.037	0.00	0.00	46.41	3.20
260	262	6.747414	TTGAGCTATACTCTCTCTCTCTCT	57.253	41.667	0.00	0.00	46.41	3.10
261	263	6.346477	TGAGCTATACTCTCTCTCTCTCTC	57.654	45.833	0.00	0.00	46.41	3.20
262	264	6.077993	TGAGCTATACTCTCTCTCTCTCTCT	58.922	44.000	0.00	0.00	46.41	3.10
263	265	6.209589	TGAGCTATACTCTCTCTCTCTCTCTC	59.790	46.154	0.00	0.00	46.41	3.20
264	266	6.318913	AGCTATACTCTCTCTCTCTCTCTCT	58.681	44.000	0.00	0.00	0.00	3.10
265	267	6.435904	AGCTATACTCTCTCTCTCTCTCTCTC	59.564	46.154	0.00	0.00	0.00	3.20
266	268	6.435904	GCTATACTCTCTCTCTCTCTCTCTCT	59.564	46.154	0.00	0.00	0.00	3.10
267	269	6.909550	ATACTCTCTCTCTCTCTCTCTCTC	57.090	45.833	0.00	0.00	0.00	3.20
268	270	4.877773	ACTCTCTCTCTCTCTCTCTCTCT	58.122	47.826	0.00	0.00	0.00	3.10
269	271	4.892934	ACTCTCTCTCTCTCTCTCTCTCTC	59.107	50.000	0.00	0.00	0.00	3.20
270	272	5.136068	TCTCTCTCTCTCTCTCTCTCTCT	57.864	47.826	0.00	0.00	0.00	3.10
271	273	5.136828	TCTCTCTCTCTCTCTCTCTCTCTC	58.863	50.000	0.00	0.00	0.00	3.20
272	274	5.103728	TCTCTCTCTCTCTCTCTCTCTCTCT	60.104	48.000	0.00	0.00	0.00	3.10
273	275	5.136828	TCTCTCTCTCTCTCTCTCTCTCTC	58.863	50.000	0.00	0.00	0.00	3.20
274	276	5.103728	TCTCTCTCTCTCTCTCTCTCTCTCT	60.104	48.000	0.00	0.00	0.00	3.10
275	277	5.136828	TCTCTCTCTCTCTCTCTCTCTCTC	58.863	50.000	0.00	0.00	0.00	3.20
295	297	6.782494	TCTCTCCTACAGCCATTAATGTATCA	59.218	38.462	14.25	0.00	31.79	2.15
360	362	7.386851	TGATACTAGTCTTGCTACAAGCTTTT	58.613	34.615	0.00	0.00	42.97	2.27
364	366	8.034058	ACTAGTCTTGCTACAAGCTTTTATTG	57.966	34.615	0.00	0.00	42.97	1.90
420	422	6.209192	TGCTGTACTTCATGTTGAAATCCAAT	59.791	34.615	0.00	0.00	35.73	3.16
434	436	4.599047	AATCCAATCCGTTTGCTTTTGA	57.401	36.364	0.00	0.00	33.73	2.69
594	623	6.295802	GGAGATCCTGAATTCCTAGAATCCAG	60.296	46.154	2.27	0.00	0.00	3.86
1056	1086	0.990374	AGCTCCCAACAGAAGCTGAT	59.010	50.000	0.82	0.00	35.18	2.90
1218	1248	4.503910	GTTCAGGTTTTCAGCCTTTTGTT	58.496	39.130	0.00	0.00	33.31	2.83
1309	1339	7.469594	CGGCTTCTACATCTGTGGTAACTAATA	60.470	40.741	0.00	0.00	37.61	0.98
1488	1518	5.312079	ACTCAAGTGAAAAGAGAATCCCAG	58.688	41.667	0.00	0.00	33.66	4.45
1517	1547	7.048512	AGTGGACCTGCTATTGTTAAATCTAC	58.951	38.462	0.00	0.00	0.00	2.59
1601	1631	1.203364	AGGTCCAGTCCTTCATGGTCT	60.203	52.381	0.00	0.00	37.84	3.85
2172	2202	1.247567	CCACGGATTCCAAGCAGTTT	58.752	50.000	3.09	0.00	0.00	2.66
2310	2340	7.161404	ACACACAGTATAATGACACATCTGTT	58.839	34.615	7.27	0.00	33.35	3.16
2317	2347	7.981789	AGTATAATGACACATCTGTTGAACGAT	59.018	33.333	0.00	0.00	0.00	3.73
2438	2468	7.203218	GCTGTTGTTTAATCTGGAAACTTCTT	58.797	34.615	0.00	0.00	37.62	2.52
2487	2518	4.447054	TGTTTATGCGCTTGTGAAATTTGG	59.553	37.500	9.73	0.00	0.00	3.28
2545	2576	3.189287	GTGACTTGCAGAACATAAGGGTG	59.811	47.826	0.00	0.00	0.00	4.61
2762	2908	9.882996	ATATAATTATTGCATCGTCAGTGTTTG	57.117	29.630	2.68	0.00	0.00	2.93
3413	7440	0.457337	GTGGACGGCTTGTAGGTACG	60.457	60.000	0.00	0.00	0.00	3.67
3594	7775	0.539669	CTTTGTCCACCCTGTTCCCC	60.540	60.000	0.00	0.00	0.00	4.81
3794	8014	5.112686	CCTTGGAATGAGCAGTACTTACTC	58.887	45.833	13.54	13.54	33.46	2.59
3828	8048	4.523083	TGTCTAACTTGTCAGTTTGCCTT	58.477	39.130	0.00	0.00	40.66	4.35
3830	8050	5.163663	TGTCTAACTTGTCAGTTTGCCTTTG	60.164	40.000	0.00	0.00	40.66	2.77
3857	8077	0.877213	AGGTCGTCGGGTTTTTCACG	60.877	55.000	0.00	0.00	45.33	4.35
3858	8078	1.153597	GGTCGTCGGGTTTTTCACGT	61.154	55.000	0.00	0.00	44.19	4.49
4070	8307	0.107017	TTACCTACTCCCTCCGTCCG	60.107	60.000	0.00	0.00	0.00	4.79
4086	8323	2.774687	GTCCGAAAAAGCTTGTCCCTA	58.225	47.619	0.00	0.00	0.00	3.53
4135	8372	5.862845	AGTGCTAGATACATCCATTTGAGG	58.137	41.667	0.00	0.00	0.00	3.86
4142	8379	5.591877	AGATACATCCATTTGAGGAACAAGC	59.408	40.000	0.00	0.00	41.92	4.01
4653	8963	1.529948	AATGCACACAGCTGCTGGT	60.530	52.632	31.00	22.49	45.94	4.00
5286	9596	2.090775	TGGGGTAGATCCTGATGTGCTA	60.091	50.000	0.00	0.00	36.25	3.49
6280	10590	3.506844	GGTACGTCTCTCTGTCCTCTTTT	59.493	47.826	0.00	0.00	0.00	2.27
6828	11141	4.865865	CTTCCTCGGGATGAAGCC	57.134	61.111	1.63	0.00	32.37	4.35
6874	11187	1.209747	GGAAGATGTACACCCTGGGTC	59.790	57.143	17.46	5.67	31.02	4.46
6972	11288	1.156736	GCAACAATAGCCACTGACGT	58.843	50.000	0.00	0.00	0.00	4.34
7166	11483	2.552315	TGCTTTAGTGTGCTTAACAGGC	59.448	45.455	0.00	0.00	40.26	4.85
7298	11615	0.318191	CGCGAGATTGCTGCTAGCTA	60.318	55.000	17.23	1.31	42.97	3.32
7324	11641	0.394216	TGCGTTGCTTGATATGCCCT	60.394	50.000	0.00	0.00	0.00	5.19
7368	11685	2.196595	AGGCAGGGCTTCTGTAACATA	58.803	47.619	8.83	0.00	45.08	2.29
7387	11704	7.618019	AACATAATGACATAAGCTCCCTCTA	57.382	36.000	0.00	0.00	0.00	2.43
7502	11819	7.950512	TGATGTTTTATGTTGTTGGAAGATGT	58.049	30.769	0.00	0.00	0.00	3.06
7681	11998	0.673644	GGGTGACGCTGTACATGCTT	60.674	55.000	13.14	6.04	0.00	3.91
7684	12001	0.735978	TGACGCTGTACATGCTTCGG	60.736	55.000	14.43	4.78	32.37	4.30
7753	12070	3.186283	TGAGGTCCCCTGTTAGCATAAA	58.814	45.455	0.00	0.00	31.76	1.40

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
91	92	2.420022	CCACAAAGAAACGATGCTAGGG	59.580	50.000	0.00	0.00	0.00	3.53
175	176	2.437895	GTACCGGGGCAAAGGCTC	60.438	66.667	6.32	0.00	40.92	4.70
188	189	0.321653	CCAGTGCTCCACCTTGTACC	60.322	60.000	0.00	0.00	34.49	3.34
259	261	4.502259	GCTGTAGGAGAGAGAGAGAGAGAG	60.502	54.167	0.00	0.00	0.00	3.20
260	262	3.388024	GCTGTAGGAGAGAGAGAGAGAGA	59.612	52.174	0.00	0.00	0.00	3.10
261	263	3.495100	GGCTGTAGGAGAGAGAGAGAGAG	60.495	56.522	0.00	0.00	0.00	3.20
262	264	2.438021	GGCTGTAGGAGAGAGAGAGAGA	59.562	54.545	0.00	0.00	0.00	3.10
263	265	2.172505	TGGCTGTAGGAGAGAGAGAGAG	59.827	54.545	0.00	0.00	0.00	3.20
264	266	2.200955	TGGCTGTAGGAGAGAGAGAGA	58.799	52.381	0.00	0.00	0.00	3.10
265	267	2.727123	TGGCTGTAGGAGAGAGAGAG	57.273	55.000	0.00	0.00	0.00	3.20
266	268	3.678965	AATGGCTGTAGGAGAGAGAGA	57.321	47.619	0.00	0.00	0.00	3.10
267	269	5.304101	ACATTAATGGCTGTAGGAGAGAGAG	59.696	44.000	19.37	0.00	0.00	3.20
268	270	5.211973	ACATTAATGGCTGTAGGAGAGAGA	58.788	41.667	19.37	0.00	0.00	3.10
269	271	5.543507	ACATTAATGGCTGTAGGAGAGAG	57.456	43.478	19.37	0.00	0.00	3.20
270	272	6.782494	TGATACATTAATGGCTGTAGGAGAGA	59.218	38.462	19.37	0.00	31.79	3.10
271	273	6.997655	TGATACATTAATGGCTGTAGGAGAG	58.002	40.000	19.37	0.00	31.79	3.20
272	274	6.994421	TGATACATTAATGGCTGTAGGAGA	57.006	37.500	19.37	0.00	31.79	3.71
273	275	7.548427	CAGATGATACATTAATGGCTGTAGGAG	59.452	40.741	19.37	0.00	31.79	3.69
274	276	7.016563	ACAGATGATACATTAATGGCTGTAGGA	59.983	37.037	19.37	0.00	32.86	2.94
275	277	7.164122	ACAGATGATACATTAATGGCTGTAGG	58.836	38.462	19.37	5.53	32.86	3.18
295	297	3.953542	GGGGTTCCCTATCAAACAGAT	57.046	47.619	7.87	0.00	41.34	2.90
420	422	4.819630	ACTATCAACTCAAAAGCAAACGGA	59.180	37.500	0.00	0.00	0.00	4.69
434	436	5.482175	GGACAGGGCATCTATACTATCAACT	59.518	44.000	0.00	0.00	0.00	3.16
594	623	6.261826	CCCACTTCATATCCATCTCAAGAAAC	59.738	42.308	0.00	0.00	0.00	2.78
1056	1086	2.923121	ACAACAGCAGCTTCTTCTTCA	58.077	42.857	0.00	0.00	0.00	3.02
1309	1339	8.103305	AGGACACACAACACTATCAGATAAATT	58.897	33.333	0.00	0.00	0.00	1.82
1488	1518	1.834263	ACAATAGCAGGTCCACTCTCC	59.166	52.381	0.00	0.00	0.00	3.71
1517	1547	7.704271	AGCAATGTCATCTTTAATCACATCAG	58.296	34.615	0.00	0.00	0.00	2.90
1601	1631	3.372440	TCATGCTCTCTAGTCCTGTCA	57.628	47.619	0.00	0.00	0.00	3.58
1993	2023	6.038050	GGATCTGCAGAATTACTTCTTTCTGG	59.962	42.308	22.50	0.41	45.74	3.86
2172	2202	3.511477	AGAAGAGACTGGTCTGCCTTTA	58.489	45.455	8.06	0.00	40.61	1.85
2310	2340	5.104374	GTCACTTCCCGTATAAATCGTTCA	58.896	41.667	0.00	0.00	0.00	3.18
2317	2347	4.396790	GCCATTTGTCACTTCCCGTATAAA	59.603	41.667	0.00	0.00	0.00	1.40
2438	2468	1.913778	ATTGCCTCACAGCACATGAA	58.086	45.000	0.00	0.00	43.97	2.57
2487	2518	3.311048	GCATTTGAGGAAGTAGCACTAGC	59.689	47.826	0.00	0.00	42.56	3.42
2545	2576	9.193133	TGCAATCTTCTTATAAGCGTATAAGTC	57.807	33.333	27.68	15.16	45.14	3.01
2553	2584	5.053145	AGGACTGCAATCTTCTTATAAGCG	58.947	41.667	7.67	1.85	0.00	4.68
2762	2908	6.361481	GGTTTTACAATAGAACGAAACCAAGC	59.639	38.462	10.08	0.00	43.28	4.01
3413	7440	0.679505	TAGGCATATGGCGTCTGACC	59.320	55.000	22.17	3.78	46.16	4.02
3460	7487	6.494491	TGAATCCCCAGCATAAAAATGGATAG	59.506	38.462	0.00	0.00	36.09	2.08
3828	8048	1.515081	CCGACGACCTTAAAAGCCAA	58.485	50.000	0.00	0.00	0.00	4.52
3830	8050	0.321034	ACCCGACGACCTTAAAAGCC	60.321	55.000	0.00	0.00	0.00	4.35
3857	8077	6.359617	GTGTAATGTTCAATGTAACTGTGCAC	59.640	38.462	10.75	10.75	0.00	4.57
3858	8078	6.038714	TGTGTAATGTTCAATGTAACTGTGCA	59.961	34.615	0.00	0.00	0.00	4.57
4070	8307	6.096673	TCCATTTTAGGGACAAGCTTTTTC	57.903	37.500	0.00	0.00	0.00	2.29
4086	8323	6.426587	ACTTGGTGCTAGATACATCCATTTT	58.573	36.000	0.00	0.00	0.00	1.82
4122	8359	3.771216	AGCTTGTTCCTCAAATGGATGT	58.229	40.909	0.00	0.00	35.83	3.06
4135	8372	3.801114	AAACTTGTCCCAAGCTTGTTC	57.199	42.857	24.35	14.17	0.00	3.18
4247	8508	5.713792	TCACAGAAAAGACAACCAAAACA	57.286	34.783	0.00	0.00	0.00	2.83
4248	8509	5.005682	GCATCACAGAAAAGACAACCAAAAC	59.994	40.000	0.00	0.00	0.00	2.43
4653	8963	5.235850	TCTTAACCACTCCATTGCTTGTA	57.764	39.130	0.00	0.00	0.00	2.41
4869	9179	3.185246	ACTTCATCAATAGACCCTGCG	57.815	47.619	0.00	0.00	0.00	5.18
5286	9596	0.824759	GGTTACGATCCCTGTGAGCT	59.175	55.000	0.00	0.00	0.00	4.09
6771	11084	4.337763	CACGCAAAGATGAAGATAGCAAC	58.662	43.478	0.00	0.00	0.00	4.17
6828	11141	1.068055	GTGATGCTTTGCTCCAACCAG	60.068	52.381	0.00	0.00	0.00	4.00
6874	11187	1.804748	GCCTTCTCCTTAACACAACCG	59.195	52.381	0.00	0.00	0.00	4.44
6972	11288	5.734503	GCATCTGACGATCTGATTGTACTGA	60.735	44.000	10.47	12.57	33.58	3.41
6976	11292	3.632189	CGCATCTGACGATCTGATTGTA	58.368	45.455	10.47	0.00	33.58	2.41
6977	11293	2.467838	CGCATCTGACGATCTGATTGT	58.532	47.619	10.29	10.29	33.58	2.71
7070	11387	7.888021	TCTGGTTATATCAACAGACCAAATGTT	59.112	33.333	0.28	0.00	41.47	2.71
7298	11615	2.798976	ATCAAGCAACGCATGTTTGT	57.201	40.000	14.84	4.08	46.71	2.83
7324	11641	6.216801	ACGTTAGCAATACTGATCCTACAA	57.783	37.500	0.00	0.00	0.00	2.41
7368	11685	6.554982	TGTACATAGAGGGAGCTTATGTCATT	59.445	38.462	10.53	0.00	33.88	2.57
7387	11704	8.375506	TCTTTTCTAGATGTGGACTTTGTACAT	58.624	33.333	0.00	0.00	37.72	2.29
7551	11868	7.450074	ACCACAGATCAACATAGAAGTACAAA	58.550	34.615	0.00	0.00	0.00	2.83
7593	11910	5.104109	ACCATGCTATACCACATACCAGTTT	60.104	40.000	0.00	0.00	0.00	2.66
7681	11998	2.114411	GGGCTTCCACAAACCCGA	59.886	61.111	0.00	0.00	31.32	5.14
7684	12001	1.119684	AAACAGGGCTTCCACAAACC	58.880	50.000	0.00	0.00	0.00	3.27

Based at the University of Bristol with support from BBSRC.

AutoCloner maintained by Alex Coulton.