AutoCloner

Multiple sequence alignment - TraesCS6D01G266800

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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	TraesCS6D01G266800	chr6D	100.000	7249	0	0	1	7249	376950618	376943370	0.000000e+00	13387.0
1	TraesCS6D01G266800	chr6D	97.104	5180	61	22	2122	7249	376977414	376972272	0.000000e+00	8652.0
2	TraesCS6D01G266800	chr6D	90.964	2634	131	35	4130	6719	29114109	29116679	0.000000e+00	3446.0
3	TraesCS6D01G266800	chr6D	94.777	1302	49	17	821	2110	376978861	376977567	0.000000e+00	2010.0
4	TraesCS6D01G266800	chr6D	88.483	1094	77	22	816	1888	29111065	29112130	0.000000e+00	1277.0
5	TraesCS6D01G266800	chr6D	88.611	720	55	7	3323	4025	29113408	29114117	0.000000e+00	850.0
6	TraesCS6D01G266800	chr6D	86.853	715	65	8	3326	4025	13947751	13947051	0.000000e+00	773.0
7	TraesCS6D01G266800	chr6D	85.734	715	73	8	3326	4025	13959034	13958334	0.000000e+00	728.0
8	TraesCS6D01G266800	chr6D	89.738	458	21	6	2078	2511	29112176	29112631	4.910000e-156	562.0
9	TraesCS6D01G266800	chr6D	93.189	323	16	3	2509	2830	29112738	29113055	3.060000e-128	470.0
10	TraesCS6D01G266800	chr6D	87.715	407	24	12	2853	3256	29113030	29113413	1.110000e-122	451.0
11	TraesCS6D01G266800	chr6D	77.361	667	90	37	105	752	376979482	376978858	9.010000e-89	339.0
12	TraesCS6D01G266800	chr6D	83.784	185	22	5	6726	6904	29116730	29116912	1.250000e-37	169.0
13	TraesCS6D01G266800	chr6D	85.350	157	21	2	2120	2274	265493502	265493658	2.090000e-35	161.0
14	TraesCS6D01G266800	chr6D	91.667	60	4	1	2126	2185	376977515	376977457	1.680000e-11	82.4
15	TraesCS6D01G266800	chr6B	94.430	7343	258	63	1	7249	563138848	563131563	0.000000e+00	11154.0
16	TraesCS6D01G266800	chr6B	95.806	2766	81	22	4508	7249	563146205	563143451	0.000000e+00	4433.0
17	TraesCS6D01G266800	chr6B	92.438	2539	105	20	819	3289	563149831	563147312	0.000000e+00	3544.0
18	TraesCS6D01G266800	chr6B	93.702	1175	36	8	3294	4446	563147361	563146203	0.000000e+00	1725.0
19	TraesCS6D01G266800	chr6B	91.113	1294	49	18	4130	5399	60605325	60604074	0.000000e+00	1692.0
20	TraesCS6D01G266800	chr6B	88.829	1298	84	29	5447	6726	60604074	60602820	0.000000e+00	1537.0
21	TraesCS6D01G266800	chr6B	87.969	906	78	19	4137	5030	25401445	25400559	0.000000e+00	1040.0
22	TraesCS6D01G266800	chr6B	88.079	906	64	23	4137	5029	25454414	25453540	0.000000e+00	1035.0
23	TraesCS6D01G266800	chr6B	87.982	907	65	23	4137	5030	25429122	25428247	0.000000e+00	1031.0
24	TraesCS6D01G266800	chr6B	85.959	933	75	27	846	1755	60608412	60607513	0.000000e+00	946.0
25	TraesCS6D01G266800	chr6B	87.047	718	58	8	3323	4025	60606014	60605317	0.000000e+00	778.0
26	TraesCS6D01G266800	chr6B	85.505	683	38	12	1879	2511	60607465	60606794	0.000000e+00	656.0
27	TraesCS6D01G266800	chr6B	88.454	485	30	11	4137	4613	25392168	25391702	4.910000e-156	562.0
28	TraesCS6D01G266800	chr6B	94.375	320	15	2	2512	2830	60606684	60606367	8.450000e-134	488.0
29	TraesCS6D01G266800	chr6B	86.520	408	29	13	2853	3257	60606392	60606008	6.720000e-115	425.0
30	TraesCS6D01G266800	chr6B	87.164	335	19	7	4137	4463	25398055	25397737	6.910000e-95	359.0
31	TraesCS6D01G266800	chr6B	83.333	186	21	6	6726	6902	60602781	60602597	5.820000e-36	163.0
32	TraesCS6D01G266800	chr6A	95.010	6252	180	29	1064	7249	518553827	518547642	0.000000e+00	9696.0
33	TraesCS6D01G266800	chr6A	94.819	6176	201	41	1126	7249	518601863	518595755	0.000000e+00	9522.0
34	TraesCS6D01G266800	chr6A	90.296	2638	127	40	4130	6726	33294314	33291765	0.000000e+00	3334.0
35	TraesCS6D01G266800	chr6A	87.882	982	50	19	1592	2511	33296764	33295790	0.000000e+00	1090.0
36	TraesCS6D01G266800	chr6A	92.734	578	32	4	1	577	518557414	518556846	0.000000e+00	826.0
37	TraesCS6D01G266800	chr6A	88.022	718	51	8	3323	4025	33295003	33294306	0.000000e+00	817.0
38	TraesCS6D01G266800	chr6A	83.643	807	88	16	4752	5546	14522588	14521814	0.000000e+00	719.0
39	TraesCS6D01G266800	chr6A	84.441	707	82	14	3326	4025	14553963	14553278	0.000000e+00	671.0
40	TraesCS6D01G266800	chr6A	84.888	536	60	17	134	658	518555051	518554526	8.330000e-144	521.0
41	TraesCS6D01G266800	chr6A	93.146	321	20	2	2512	2830	33295680	33295360	3.060000e-128	470.0
42	TraesCS6D01G266800	chr6A	85.680	412	35	13	2853	3260	33295385	33294994	5.230000e-111	412.0
43	TraesCS6D01G266800	chr6A	94.466	253	9	3	780	1032	518554072	518553825	1.140000e-102	385.0
44	TraesCS6D01G266800	chr6A	96.226	212	7	1	817	1028	518602483	518602273	5.380000e-91	346.0
45	TraesCS6D01G266800	chr6A	75.862	783	120	36	10	773	518603213	518602481	1.170000e-87	335.0
46	TraesCS6D01G266800	chr6A	89.535	258	13	2	816	1059	33298451	33298194	1.520000e-81	315.0
47	TraesCS6D01G266800	chr6A	86.726	226	19	7	1201	1419	33298171	33297950	2.610000e-59	241.0
48	TraesCS6D01G266800	chr6A	91.538	130	8	3	1475	1601	33297837	33297708	7.470000e-40	176.0
49	TraesCS6D01G266800	chr6A	98.276	58	1	0	670	727	518554544	518554487	1.290000e-17	102.0
50	TraesCS6D01G266800	chrUn	89.049	831	61	19	4214	5030	355299260	355298446	0.000000e+00	1003.0
51	TraesCS6D01G266800	chrUn	87.358	617	64	4	3409	4025	469507769	469507167	0.000000e+00	695.0
52	TraesCS6D01G266800	chrUn	90.823	316	26	3	5232	5547	394744281	394744593	3.130000e-113	420.0
53	TraesCS6D01G266800	chr5B	91.241	137	11	1	2666	2801	211587207	211587343	1.240000e-42	185.0
54	TraesCS6D01G266800	chr4D	92.683	41	3	0	6948	6988	455480742	455480782	7.850000e-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	TraesCS6D01G266800	chr6D	376943370	376950618	7248	True	13387.000000	13387	100.000000	1	7249	1	chr6D.!!$R3	7248
1	TraesCS6D01G266800	chr6D	376972272	376979482	7210	True	2770.850000	8652	90.227250	105	7249	4	chr6D.!!$R4	7144
2	TraesCS6D01G266800	chr6D	29111065	29116912	5847	False	1032.142857	3446	88.926286	816	6904	7	chr6D.!!$F2	6088
3	TraesCS6D01G266800	chr6D	13947051	13947751	700	True	773.000000	773	86.853000	3326	4025	1	chr6D.!!$R1	699
4	TraesCS6D01G266800	chr6D	13958334	13959034	700	True	728.000000	728	85.734000	3326	4025	1	chr6D.!!$R2	699
5	TraesCS6D01G266800	chr6B	563131563	563138848	7285	True	11154.000000	11154	94.430000	1	7249	1	chr6B.!!$R4	7248
6	TraesCS6D01G266800	chr6B	563143451	563149831	6380	True	3234.000000	4433	93.982000	819	7249	3	chr6B.!!$R7	6430
7	TraesCS6D01G266800	chr6B	25453540	25454414	874	True	1035.000000	1035	88.079000	4137	5029	1	chr6B.!!$R3	892
8	TraesCS6D01G266800	chr6B	25428247	25429122	875	True	1031.000000	1031	87.982000	4137	5030	1	chr6B.!!$R2	893
9	TraesCS6D01G266800	chr6B	60602597	60608412	5815	True	835.625000	1692	87.835125	846	6902	8	chr6B.!!$R6	6056
10	TraesCS6D01G266800	chr6B	25397737	25401445	3708	True	699.500000	1040	87.566500	4137	5030	2	chr6B.!!$R5	893
11	TraesCS6D01G266800	chr6A	518595755	518603213	7458	True	3401.000000	9522	88.969000	10	7249	3	chr6A.!!$R5	7239
12	TraesCS6D01G266800	chr6A	518547642	518557414	9772	True	2306.000000	9696	93.074800	1	7249	5	chr6A.!!$R4	7248
13	TraesCS6D01G266800	chr6A	33291765	33298451	6686	True	856.875000	3334	89.103125	816	6726	8	chr6A.!!$R3	5910
14	TraesCS6D01G266800	chr6A	14521814	14522588	774	True	719.000000	719	83.643000	4752	5546	1	chr6A.!!$R1	794
15	TraesCS6D01G266800	chr6A	14553278	14553963	685	True	671.000000	671	84.441000	3326	4025	1	chr6A.!!$R2	699
16	TraesCS6D01G266800	chrUn	355298446	355299260	814	True	1003.000000	1003	89.049000	4214	5030	1	chrUn.!!$R1	816
17	TraesCS6D01G266800	chrUn	469507167	469507769	602	True	695.000000	695	87.358000	3409	4025	1	chrUn.!!$R2	616

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
719	2978	1.078759	CGTCCGGACTGCAGAACATC	61.079	60.000	30.92	7.16	0.00	3.06	F
1238	4199	1.823169	TTACAGAGCGCCGAGGGTTT	61.823	55.000	2.29	0.00	0.00	3.27	F
2052	6087	0.733150	GGAAGGTCGGCTGTTAATGC	59.267	55.000	0.00	0.00	0.00	3.56	F
2571	6946	3.866883	ACAACCTTGTTGTCTTGTTGG	57.133	42.857	6.78	0.00	40.35	3.77	F
3261	7824	1.147824	CAGCCATCTCCTTCGCCAT	59.852	57.895	0.00	0.00	0.00	4.40	F

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability	Orientation
1608	5604	0.623723	ACCCACCCACACCACATATC	59.376	55.000	0.00	0.0	0.00	1.63	R
2808	7184	0.388520	GTGCCCCGCAATTTCACTTC	60.389	55.000	0.00	0.0	41.47	3.01	R
3149	7565	1.141234	GAGAGTAAGGGCCGAACGG	59.859	63.158	9.00	9.0	38.57	4.44	R
4217	8978	5.105187	TGCTAGCAGACACAACTGATATTCT	60.105	40.000	14.93	0.0	37.95	2.40	R
7036	13765	9.369672	AGGGTGAAAAATAAAACCAATGTAGTA	57.630	29.630	0.00	0.0	34.18	1.82	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
137	138	3.071892	TCGGAACAACAAGGATGGTTACT	59.928	43.478	0.00	0.00	0.00	2.24
187	188	6.919662	GTGGCATGTAATTGTATGGATTTGAG	59.080	38.462	0.00	0.00	0.00	3.02
223	224	8.231692	TGAGGTATCAAGTTGTGAAATCAAAA	57.768	30.769	2.11	0.00	40.50	2.44
396	397	3.241530	AAGTCGCACTCCTGCCCA	61.242	61.111	0.00	0.00	40.73	5.36
402	403	1.662044	GCACTCCTGCCCAAACTTG	59.338	57.895	0.00	0.00	37.45	3.16
621	2865	3.120408	GCTTGCATCATCATGTATCCGAC	60.120	47.826	0.00	0.00	31.86	4.79
719	2978	1.078759	CGTCCGGACTGCAGAACATC	61.079	60.000	30.92	7.16	0.00	3.06
801	3422	2.278330	CCCAGCCCAACTTTGCCTC	61.278	63.158	0.00	0.00	0.00	4.70
1133	4093	2.280524	CAACCCTCGACCAACGCA	60.281	61.111	0.00	0.00	42.26	5.24
1238	4199	1.823169	TTACAGAGCGCCGAGGGTTT	61.823	55.000	2.29	0.00	0.00	3.27
1297	4263	3.056891	TCGAAAGGACATGAATTTTGGCC	60.057	43.478	0.00	6.17	43.13	5.36
1388	4354	3.768878	TGGTCGGATTTTGTTATGGGTT	58.231	40.909	0.00	0.00	0.00	4.11
1473	4511	3.841255	AGAAGGGTTCCAGTCCTTAAGAG	59.159	47.826	3.36	0.00	42.85	2.85
1518	4558	4.703897	TGGATCGTAGAATTGGATTGGAC	58.296	43.478	0.00	0.00	43.58	4.02
1519	4559	4.065789	GGATCGTAGAATTGGATTGGACC	58.934	47.826	0.00	0.00	43.58	4.46
1608	5604	2.102420	TCCTACTGGTTGTGTCACACTG	59.898	50.000	9.90	2.23	33.28	3.66
1666	5662	5.707764	GTCTCAAGGAAAGCTGGAAAAGTAT	59.292	40.000	0.00	0.00	0.00	2.12
1667	5663	5.707298	TCTCAAGGAAAGCTGGAAAAGTATG	59.293	40.000	0.00	0.00	0.00	2.39
1762	5759	3.739401	AGCAGCCTAATAGGTTTTGGT	57.261	42.857	8.28	7.23	37.80	3.67
1875	5875	1.479323	TCTAACGAATGGTCCTTCCCG	59.521	52.381	0.00	0.00	34.77	5.14
1897	5921	4.433615	GTCAACAAGAGAGCGAATATCCA	58.566	43.478	0.00	0.00	0.00	3.41
1940	5964	6.533367	CGTTCCTTGGAAGAATTTTTGTTGAA	59.467	34.615	1.83	0.00	0.00	2.69
2014	6047	3.565482	TGAGCATCTTGGTGTGTTCTTTC	59.435	43.478	0.00	0.00	34.92	2.62
2052	6087	0.733150	GGAAGGTCGGCTGTTAATGC	59.267	55.000	0.00	0.00	0.00	3.56
2186	6429	6.775629	ACAAAAAGAATCTTGCCTTAGGTGTA	59.224	34.615	0.00	0.00	0.00	2.90
2571	6946	3.866883	ACAACCTTGTTGTCTTGTTGG	57.133	42.857	6.78	0.00	40.35	3.77
2808	7184	6.348868	GGAACTGAGAGGCTTAAGTCAAAATG	60.349	42.308	10.23	0.00	0.00	2.32
3166	7582	3.015312	GCCGTTCGGCCCTTACTCT	62.015	63.158	23.38	0.00	44.99	3.24
3255	7818	3.801997	CCGCCCAGCCATCTCCTT	61.802	66.667	0.00	0.00	0.00	3.36
3256	7819	2.203126	CGCCCAGCCATCTCCTTC	60.203	66.667	0.00	0.00	0.00	3.46
3257	7820	2.203126	GCCCAGCCATCTCCTTCG	60.203	66.667	0.00	0.00	0.00	3.79
3258	7821	2.203126	CCCAGCCATCTCCTTCGC	60.203	66.667	0.00	0.00	0.00	4.70
3259	7822	2.203126	CCAGCCATCTCCTTCGCC	60.203	66.667	0.00	0.00	0.00	5.54
3260	7823	2.586245	CAGCCATCTCCTTCGCCA	59.414	61.111	0.00	0.00	0.00	5.69
3261	7824	1.147824	CAGCCATCTCCTTCGCCAT	59.852	57.895	0.00	0.00	0.00	4.40
3262	7825	1.147824	AGCCATCTCCTTCGCCATG	59.852	57.895	0.00	0.00	0.00	3.66
3263	7826	2.550101	GCCATCTCCTTCGCCATGC	61.550	63.158	0.00	0.00	0.00	4.06
3264	7827	1.153107	CCATCTCCTTCGCCATGCA	60.153	57.895	0.00	0.00	0.00	3.96
3265	7828	1.442526	CCATCTCCTTCGCCATGCAC	61.443	60.000	0.00	0.00	0.00	4.57
3266	7829	1.153086	ATCTCCTTCGCCATGCACC	60.153	57.895	0.00	0.00	0.00	5.01
3267	7830	2.930385	ATCTCCTTCGCCATGCACCG	62.930	60.000	0.00	0.00	0.00	4.94
3318	7881	1.152368	CCATCTCCTTCCCCATGCC	59.848	63.158	0.00	0.00	0.00	4.40
3359	7949	5.128919	CAGATCTAAATGCAAACCCTAGCT	58.871	41.667	0.00	0.00	0.00	3.32
4210	8971	9.921637	TCCTTTGGTATTTGCTTTTGTTATAAG	57.078	29.630	0.00	0.00	0.00	1.73
4211	8972	9.921637	CCTTTGGTATTTGCTTTTGTTATAAGA	57.078	29.630	0.00	0.00	0.00	2.10
7140	13872	3.578282	AGGTTATCAAAGTTTGCTTGGGG	59.422	43.478	10.90	0.00	34.71	4.96
7150	13882	1.505151	TTGCTTGGGGGTGCATAGGA	61.505	55.000	0.00	0.00	39.07	2.94
7189	13922	5.082425	AGCAAATTCTCCTTTGAGGACATT	58.918	37.500	0.97	0.00	40.06	2.71
7206	13939	4.392138	GGACATTCCTGTTTTCCTAGTTCG	59.608	45.833	0.00	0.00	35.14	3.95

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
137	138	8.452534	ACGTAAAATTAATCTACATTTTCGCCA	58.547	29.630	7.88	0.00	34.94	5.69
187	188	9.696917	ACAACTTGATACCTCATTTTCAAATTC	57.303	29.630	0.00	0.00	0.00	2.17
223	224	3.762288	AGTGACTGATCAGCATGCAAAAT	59.238	39.130	22.83	9.85	34.75	1.82
374	375	4.021925	AGGAGTGCGACTTGGGGC	62.022	66.667	0.00	0.00	0.00	5.80
665	2923	5.245075	TCAACAAAATACAATTGTCTCCCCC	59.755	40.000	15.85	0.00	39.98	5.40
719	2978	0.034059	GACTATGGGCCCATGAGTCG	59.966	60.000	42.19	26.53	37.82	4.18
873	3499	1.984321	GCGAGGAGACGGAGAGTGAC	61.984	65.000	0.00	0.00	0.00	3.67
1133	4093	2.750712	CGGGTTTTATCCGGTGAATGTT	59.249	45.455	0.00	0.00	43.45	2.71
1238	4199	2.281517	CACCAGTACCGTGACAACAAA	58.718	47.619	4.99	0.00	32.77	2.83
1268	4233	1.004161	TCATGTCCTTTCGATGCCCAA	59.996	47.619	0.00	0.00	0.00	4.12
1388	4354	8.486210	AGCTCTGTTTTGTAGTGGATATATCAA	58.514	33.333	14.60	0.00	0.00	2.57
1421	4459	1.743252	CAGTCGAAAGAGGCCCTGC	60.743	63.158	0.00	0.00	43.49	4.85
1518	4558	5.230182	TCTATAAGCGCACATAACAGATGG	58.770	41.667	11.47	0.00	0.00	3.51
1519	4559	6.769608	TTCTATAAGCGCACATAACAGATG	57.230	37.500	11.47	0.00	0.00	2.90
1608	5604	0.623723	ACCCACCCACACCACATATC	59.376	55.000	0.00	0.00	0.00	1.63
1666	5662	5.293560	TGTGTCACGATCAACTCAATTACA	58.706	37.500	0.00	0.00	0.00	2.41
1667	5663	5.668866	GCTGTGTCACGATCAACTCAATTAC	60.669	44.000	0.00	0.00	0.00	1.89
1762	5759	4.980573	ACCTTATACACAGGCAAACAGAA	58.019	39.130	0.00	0.00	34.32	3.02
1875	5875	4.433615	TGGATATTCGCTCTCTTGTTGAC	58.566	43.478	0.00	0.00	0.00	3.18
1897	5921	2.854963	ACGCATGCAAGACATATCCAT	58.145	42.857	19.57	0.00	36.64	3.41
2052	6087	1.626686	TACCAACCAAACATGCCCTG	58.373	50.000	0.00	0.00	0.00	4.45
2186	6429	1.202891	GGTGGGTGTTTGGTTCTAGCT	60.203	52.381	0.00	0.00	0.00	3.32
2571	6946	1.737838	TCACTCCATTCCACGCATTC	58.262	50.000	0.00	0.00	0.00	2.67
2808	7184	0.388520	GTGCCCCGCAATTTCACTTC	60.389	55.000	0.00	0.00	41.47	3.01
3008	7408	4.142093	CGGATTAGGGTTAAGGTTTCTCGA	60.142	45.833	0.00	0.00	0.00	4.04
3010	7410	5.349061	TCGGATTAGGGTTAAGGTTTCTC	57.651	43.478	0.00	0.00	0.00	2.87
3149	7565	1.141234	GAGAGTAAGGGCCGAACGG	59.859	63.158	9.00	9.00	38.57	4.44
3265	7828	4.845580	AAGGAGATGGCTGCGCGG	62.846	66.667	13.18	13.18	37.57	6.46
3266	7829	3.267860	GAAGGAGATGGCTGCGCG	61.268	66.667	0.00	0.00	37.57	6.86
3267	7830	3.267860	CGAAGGAGATGGCTGCGC	61.268	66.667	0.00	0.00	37.57	6.09
3268	7831	3.267860	GCGAAGGAGATGGCTGCG	61.268	66.667	0.00	0.00	37.57	5.18
3269	7832	2.899339	GGCGAAGGAGATGGCTGC	60.899	66.667	0.00	0.00	0.00	5.25
3270	7833	1.147824	ATGGCGAAGGAGATGGCTG	59.852	57.895	0.00	0.00	0.00	4.85
3271	7834	1.147824	CATGGCGAAGGAGATGGCT	59.852	57.895	0.00	0.00	0.00	4.75
3272	7835	2.550101	GCATGGCGAAGGAGATGGC	61.550	63.158	0.00	0.00	0.00	4.40
3273	7836	1.153107	TGCATGGCGAAGGAGATGG	60.153	57.895	0.00	0.00	0.00	3.51
3274	7837	1.442526	GGTGCATGGCGAAGGAGATG	61.443	60.000	0.00	0.00	0.00	2.90
3275	7838	1.153086	GGTGCATGGCGAAGGAGAT	60.153	57.895	0.00	0.00	0.00	2.75
3276	7839	2.268920	GGTGCATGGCGAAGGAGA	59.731	61.111	0.00	0.00	0.00	3.71
3277	7840	3.197790	CGGTGCATGGCGAAGGAG	61.198	66.667	0.00	0.00	0.00	3.69
3318	7881	2.193248	GAATGGGGAAGGAGCGGG	59.807	66.667	0.00	0.00	0.00	6.13
4210	8971	9.495754	GCAGACACAACTGATATTCTTTAATTC	57.504	33.333	0.00	0.00	39.94	2.17
4211	8972	9.236006	AGCAGACACAACTGATATTCTTTAATT	57.764	29.630	0.00	0.00	39.94	1.40
4212	8973	8.798859	AGCAGACACAACTGATATTCTTTAAT	57.201	30.769	0.00	0.00	39.94	1.40
4213	8974	9.371136	CTAGCAGACACAACTGATATTCTTTAA	57.629	33.333	0.00	0.00	37.95	1.52
4214	8975	7.492669	GCTAGCAGACACAACTGATATTCTTTA	59.507	37.037	10.63	0.00	37.95	1.85
4215	8976	6.314896	GCTAGCAGACACAACTGATATTCTTT	59.685	38.462	10.63	0.00	37.95	2.52
4216	8977	5.814705	GCTAGCAGACACAACTGATATTCTT	59.185	40.000	10.63	0.00	37.95	2.52
4217	8978	5.105187	TGCTAGCAGACACAACTGATATTCT	60.105	40.000	14.93	0.00	37.95	2.40
7035	13764	9.634163	GGGTGAAAAATAAAACCAATGTAGTAG	57.366	33.333	0.00	0.00	34.18	2.57
7036	13765	9.369672	AGGGTGAAAAATAAAACCAATGTAGTA	57.630	29.630	0.00	0.00	34.18	1.82
7116	13848	5.105756	CCCCAAGCAAACTTTGATAACCTAG	60.106	44.000	5.65	0.00	32.29	3.02
7140	13872	2.427095	GGTTCAAATGGTCCTATGCACC	59.573	50.000	0.00	0.00	0.00	5.01
7150	13882	1.904287	TGCTTAGCGGTTCAAATGGT	58.096	45.000	0.00	0.00	0.00	3.55
7189	13922	1.695242	TGCCGAACTAGGAAAACAGGA	59.305	47.619	0.00	0.00	0.00	3.86
7206	13939	4.704057	AGAGAAAGGACTCAAATCAATGCC	59.296	41.667	0.00	0.00	39.14	4.40

Based at the University of Bristol with support from BBSRC.

AutoCloner maintained by Alex Coulton.