AutoCloner

Multiple sequence alignment - TraesCS4A01G234900

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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	TraesCS4A01G234900	chr4A	100.000	3419	0	0	1	3419	544033679	544030261	0.000000e+00	6314.0
1	TraesCS4A01G234900	chr4A	86.456	443	46	7	2490	2923	645259487	645259050	1.110000e-129	473.0
2	TraesCS4A01G234900	chr4A	83.871	62	7	2	2467	2527	684393425	684393366	4.770000e-04	56.5
3	TraesCS4A01G234900	chr4D	95.068	2575	94	15	864	3419	52779257	52781817	0.000000e+00	4021.0
4	TraesCS4A01G234900	chr4D	95.775	852	34	2	1	851	52778424	52779274	0.000000e+00	1373.0
5	TraesCS4A01G234900	chr4B	93.834	2465	135	7	864	3319	77664336	77666792	0.000000e+00	3694.0
6	TraesCS4A01G234900	chr4B	94.860	856	33	4	1	851	77663504	77664353	0.000000e+00	1327.0
7	TraesCS4A01G234900	chr4B	95.238	105	5	0	3315	3419	77733531	77733635	2.110000e-37	167.0
8	TraesCS4A01G234900	chr2B	86.199	442	47	7	2491	2923	799588896	799589332	1.860000e-127	466.0
9	TraesCS4A01G234900	chr6A	85.681	426	43	11	2490	2913	63094399	63093990	1.880000e-117	433.0
10	TraesCS4A01G234900	chr6A	80.000	130	17	2	3122	3251	63092314	63092194	1.690000e-13	87.9
11	TraesCS4A01G234900	chrUn	84.897	437	46	11	2490	2923	282890591	282891010	1.130000e-114	424.0
12	TraesCS4A01G234900	chrUn	84.897	437	46	11	2490	2923	295720950	295720531	1.130000e-114	424.0
13	TraesCS4A01G234900	chrUn	84.897	437	46	11	2490	2923	311088032	311088451	1.130000e-114	424.0
14	TraesCS4A01G234900	chrUn	81.429	210	21	9	2918	3116	320011858	320012060	4.570000e-34	156.0
15	TraesCS4A01G234900	chrUn	81.429	210	21	9	2918	3116	322841635	322841837	4.570000e-34	156.0
16	TraesCS4A01G234900	chrUn	81.429	210	21	9	2918	3116	346199874	346199672	4.570000e-34	156.0
17	TraesCS4A01G234900	chrUn	81.429	210	21	9	2918	3116	367263293	367263091	4.570000e-34	156.0
18	TraesCS4A01G234900	chrUn	83.871	93	10	2	3176	3268	60419659	60419572	2.190000e-12	84.2
19	TraesCS4A01G234900	chr3B	84.828	435	48	10	2489	2913	20066124	20066550	4.080000e-114	422.0
20	TraesCS4A01G234900	chr5A	84.703	438	43	15	2489	2913	10619993	10619567	1.900000e-112	416.0
21	TraesCS4A01G234900	chr5A	97.297	37	1	0	2482	2518	430241341	430241377	2.850000e-06	63.9
22	TraesCS4A01G234900	chr5A	86.441	59	3	5	2473	2529	342228568	342228623	3.680000e-05	60.2
23	TraesCS4A01G234900	chr7A	84.174	436	49	13	2490	2913	484716062	484715635	4.110000e-109	405.0
24	TraesCS4A01G234900	chr7A	89.091	55	4	2	2472	2525	734679619	734679566	2.200000e-07	67.6
25	TraesCS4A01G234900	chr7A	83.871	62	8	2	2468	2527	539609971	539609910	1.330000e-04	58.4
26	TraesCS4A01G234900	chr2A	84.174	436	46	15	2490	2913	104786167	104785743	5.310000e-108	401.0
27	TraesCS4A01G234900	chr2A	92.000	50	1	3	2481	2527	459095611	459095562	2.200000e-07	67.6
28	TraesCS4A01G234900	chr7D	83.294	419	45	15	2471	2879	634437376	634436973	2.510000e-96	363.0
29	TraesCS4A01G234900	chr3A	81.429	210	21	9	2918	3116	730427561	730427359	4.570000e-34	156.0
30	TraesCS4A01G234900	chr3A	95.349	43	0	2	2487	2527	667945256	667945298	2.200000e-07	67.6
31	TraesCS4A01G234900	chr1D	75.241	311	37	18	2918	3213	467899656	467899371	1.000000e-20	111.0

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	TraesCS4A01G234900	chr4A	544030261	544033679	3418	True	6314.00	6314	100.0000	1	3419	1	chr4A.!!$R1	3418
1	TraesCS4A01G234900	chr4D	52778424	52781817	3393	False	2697.00	4021	95.4215	1	3419	2	chr4D.!!$F1	3418
2	TraesCS4A01G234900	chr4B	77663504	77666792	3288	False	2510.50	3694	94.3470	1	3319	2	chr4B.!!$F2	3318
3	TraesCS4A01G234900	chr6A	63092194	63094399	2205	True	260.45	433	82.8405	2490	3251	2	chr6A.!!$R1	761

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
543	546	0.175760	CCTGGATCGTGTGGTGGTAG	59.824	60.0	0.0	0.0	0.0	3.18	F
681	684	0.261696	AAAGGTGGGCTTTGTCTGGT	59.738	50.0	0.0	0.0	0.0	4.00	F

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability	Orientation
1495	1516	0.991920	ACGGGGTCAATCTCAACCAT	59.008	50.0	0.0	0.0	37.28	3.55	R
2647	2672	0.747255	TCTTCGGGCAGCATCTACTC	59.253	55.0	0.0	0.0	0.00	2.59	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
101	103	7.415206	GGTTTTGACTACCTATCATTTCGCAAT	60.415	37.037	0.00	0.00	32.75	3.56
219	222	1.370414	GCGTGCGTGCTCAACAAAT	60.370	52.632	0.00	0.00	0.00	2.32
381	384	3.143515	AGCATCTCCGCGAGCTGA	61.144	61.111	8.23	0.00	35.72	4.26
477	480	3.053291	GGGACATTGCCGTTGCGA	61.053	61.111	0.00	0.00	41.78	5.10
543	546	0.175760	CCTGGATCGTGTGGTGGTAG	59.824	60.000	0.00	0.00	0.00	3.18
640	643	1.160137	GAGACACTGCGCCATTCTTT	58.840	50.000	4.18	0.00	0.00	2.52
666	669	2.647802	TCTGGGTTTAGGGGAAGAAAGG	59.352	50.000	0.00	0.00	0.00	3.11
681	684	0.261696	AAAGGTGGGCTTTGTCTGGT	59.738	50.000	0.00	0.00	0.00	4.00
765	769	1.581447	CAAGCTTTTCTCCGTGGCC	59.419	57.895	0.00	0.00	0.00	5.36
795	799	1.872773	GACTCCATCTGGACCTCCTT	58.127	55.000	0.00	0.00	39.78	3.36
799	803	1.203300	TCCATCTGGACCTCCTTCACA	60.203	52.381	0.00	0.00	39.78	3.58
844	852	1.773496	GACTCGGAAAACAGTCGCG	59.227	57.895	0.00	0.00	30.15	5.87
845	853	0.662374	GACTCGGAAAACAGTCGCGA	60.662	55.000	3.71	3.71	30.15	5.87
846	854	0.663568	ACTCGGAAAACAGTCGCGAG	60.664	55.000	10.24	0.00	40.81	5.03
847	855	1.945776	CTCGGAAAACAGTCGCGAGC	61.946	60.000	10.24	4.59	34.16	5.03
848	856	2.470286	GGAAAACAGTCGCGAGCG	59.530	61.111	10.24	11.64	41.35	5.03
849	857	2.470286	GAAAACAGTCGCGAGCGG	59.530	61.111	10.24	8.19	40.25	5.52
850	858	3.631049	GAAAACAGTCGCGAGCGGC	62.631	63.158	10.24	14.65	45.28	6.53
856	864	4.148645	GTCGCGAGCGGCTTTTCC	62.149	66.667	10.24	0.00	41.28	3.13
857	865	4.373116	TCGCGAGCGGCTTTTCCT	62.373	61.111	17.68	0.00	40.44	3.36
858	866	2.508439	CGCGAGCGGCTTTTCCTA	60.508	61.111	9.90	0.00	40.44	2.94
859	867	2.098233	CGCGAGCGGCTTTTCCTAA	61.098	57.895	9.90	0.00	40.44	2.69
860	868	1.632046	CGCGAGCGGCTTTTCCTAAA	61.632	55.000	9.90	0.00	40.44	1.85
861	869	0.519961	GCGAGCGGCTTTTCCTAAAA	59.480	50.000	2.97	0.00	39.11	1.52
862	870	1.068816	GCGAGCGGCTTTTCCTAAAAA	60.069	47.619	2.97	0.00	39.11	1.94
944	957	2.287849	GCAACTTTCCAACAGAAGCCTC	60.288	50.000	0.00	0.00	35.40	4.70
948	961	2.260844	TTCCAACAGAAGCCTCACAG	57.739	50.000	0.00	0.00	0.00	3.66
949	962	1.131638	TCCAACAGAAGCCTCACAGT	58.868	50.000	0.00	0.00	0.00	3.55
953	967	3.243201	CCAACAGAAGCCTCACAGTTTTC	60.243	47.826	0.00	0.00	0.00	2.29
959	973	0.955919	GCCTCACAGTTTTCCCCTCG	60.956	60.000	0.00	0.00	0.00	4.63
995	1010	1.878088	GACTACGCATAGGATCGGTCA	59.122	52.381	0.00	0.00	32.08	4.02
1003	1018	1.687563	TAGGATCGGTCAAGCGATGA	58.312	50.000	20.41	4.45	35.05	2.92
1041	1056	1.302511	AAAAGTGCTGCCCGACGAT	60.303	52.632	0.00	0.00	0.00	3.73
1083	1098	4.749310	CTCGCTCCACGCAGCCTT	62.749	66.667	0.00	0.00	43.23	4.35
1122	1137	3.395702	AAGACGTGGCGGGGCATA	61.396	61.111	0.00	0.00	0.00	3.14
1129	1144	2.110213	GGCGGGGCATAATCGACA	59.890	61.111	0.00	0.00	31.36	4.35
1130	1145	1.961277	GGCGGGGCATAATCGACAG	60.961	63.158	0.00	0.00	31.36	3.51
1136	1151	0.815213	GGCATAATCGACAGCCAGCA	60.815	55.000	12.68	0.00	46.26	4.41
1164	1179	1.743772	CGCAACATCTTCCTCCCGAAT	60.744	52.381	0.00	0.00	0.00	3.34
1194	1209	4.576463	GCCGGTATCTTCATCAACTTCAAT	59.424	41.667	1.90	0.00	0.00	2.57
1204	1219	4.093408	TCATCAACTTCAATGAGCTAACGC	59.907	41.667	0.00	0.00	0.00	4.84
1209	1224	4.002982	ACTTCAATGAGCTAACGCATTCA	58.997	39.130	0.00	0.00	43.42	2.57
1240	1255	2.192979	GCCCATCGCCCATCAAGA	59.807	61.111	0.00	0.00	0.00	3.02
1248	1263	1.176527	CGCCCATCAAGATTGTTGGT	58.823	50.000	17.32	0.00	43.36	3.67
1347	1362	0.616395	TAAGACGATGGGAGGCACCA	60.616	55.000	2.69	3.04	46.24	4.17
1495	1516	1.075601	AGAGCCATTTGAAGACCCCA	58.924	50.000	0.00	0.00	0.00	4.96
1847	1869	6.988580	TCTTGCAGGTTGTCATTATCAGATAG	59.011	38.462	0.00	0.00	0.00	2.08
1899	1921	2.903784	TCTTGAATCCGAGAGTTTCCCA	59.096	45.455	0.00	0.00	0.00	4.37
1986	2008	0.109723	TGCAGGTGTGGGTCCTTAAC	59.890	55.000	0.00	0.00	32.37	2.01
2005	2027	6.761242	CCTTAACGAATCACATGGACATAAGA	59.239	38.462	0.00	0.00	0.00	2.10
2043	2068	4.069312	TGATAGGGACCTCAAGTTACCA	57.931	45.455	0.00	0.00	0.00	3.25
2130	2155	5.895636	TTCAGCATTACGATGAAACCAAT	57.104	34.783	0.00	0.00	46.65	3.16
2132	2157	4.096231	TCAGCATTACGATGAAACCAATGG	59.904	41.667	0.00	0.00	37.01	3.16
2163	2188	6.546484	AGAGGATTTTGAATGGAACTCTGAA	58.454	36.000	0.00	0.00	0.00	3.02
2182	2207	8.304596	ACTCTGAAAACGATGTCTTAGATACAA	58.695	33.333	0.00	0.00	0.00	2.41
2369	2394	4.415881	ACGATGATATTACTGGCCAACA	57.584	40.909	7.01	0.00	0.00	3.33
2385	2410	3.009723	CCAACATGGACGTATTGAAGCT	58.990	45.455	0.00	0.00	40.96	3.74
2445	2470	8.172555	TCCCTACTAGAAAGGTCCCTATATAG	57.827	42.308	12.82	2.46	31.70	1.31
2476	2501	7.601705	AAATTGTATTGGCTATTAGGTGCAT	57.398	32.000	0.00	0.00	0.00	3.96
2507	2532	2.394632	ACAACTAGATGATACCCCGCA	58.605	47.619	7.05	0.00	0.00	5.69
2513	2538	0.461339	GATGATACCCCGCACGTTGT	60.461	55.000	0.00	0.00	0.00	3.32
2537	2562	3.363426	GCGAAAATTTTGTATCAGCGCAA	59.637	39.130	19.70	0.00	41.34	4.85
2553	2578	5.086058	CAGCGCAAACGTTAATTCATAGTT	58.914	37.500	11.47	0.00	42.83	2.24
2609	2634	7.996644	GGATCAAAGTGATTACCCTATAAACCA	59.003	37.037	0.00	0.00	37.20	3.67
2614	2639	7.504926	AGTGATTACCCTATAAACCAGAACA	57.495	36.000	0.00	0.00	0.00	3.18
2659	2684	1.667724	ACAATTGCGAGTAGATGCTGC	59.332	47.619	5.05	0.00	0.00	5.25
2703	2729	7.993821	TTTTTCTTGATTACAAATGAACGCA	57.006	28.000	0.00	0.00	35.49	5.24
2722	2748	2.792116	GCAGTCGCTCTAGTGATAAAGC	59.208	50.000	0.00	0.00	36.88	3.51
2731	2757	8.144478	TCGCTCTAGTGATAAAGCAATTCTAAT	58.856	33.333	0.00	0.00	34.39	1.73
2783	2809	6.864342	TGGTAGAATCTGTAGTCTAGTTTGC	58.136	40.000	0.00	0.00	33.20	3.68
2824	2850	6.179756	TGTTGATGATGTAGCATGTTAGGTT	58.820	36.000	0.00	0.00	0.00	3.50
2908	2935	7.774134	TGAATATGAAACATTGGGATGACTTG	58.226	34.615	0.00	0.00	36.73	3.16
2915	2942	7.396907	TGAAACATTGGGATGACTTGATAACAT	59.603	33.333	0.00	0.00	36.73	2.71
2926	4374	2.602257	TGATAACATCAGTGCCGAGG	57.398	50.000	0.00	0.00	33.59	4.63
2962	4413	2.357836	CATGCTTGAGGGTGGCCT	59.642	61.111	3.32	0.00	0.00	5.19
3087	4546	4.275810	TGTGGGAAGTAGTACGAAGCTAT	58.724	43.478	0.00	0.00	0.00	2.97
3160	4661	9.296400	GCTTTACCATATGCGAGAAAAATTTAA	57.704	29.630	0.00	0.00	0.00	1.52
3194	4695	2.368439	GTTGCTGATGTGGCAGGAATA	58.632	47.619	0.00	0.00	45.72	1.75
3373	4874	8.475331	TCTTACTCAATCTGACCGTTTATTTC	57.525	34.615	0.00	0.00	0.00	2.17

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
21	22	0.613572	TGCTCGGACATACCCACTCA	60.614	55.000	0.00	0.00	34.64	3.41
101	103	0.033366	TGCTGCTCGTAGTTTGCTGA	59.967	50.000	0.00	0.00	0.00	4.26
203	205	0.310543	TCCATTTGTTGAGCACGCAC	59.689	50.000	0.00	0.00	0.00	5.34
219	222	1.153107	CCGGCTGAGATTGCATCCA	60.153	57.895	0.00	0.00	0.00	3.41
342	345	0.679002	AGCAGTCGCCGTACTTCCTA	60.679	55.000	0.00	0.00	39.83	2.94
381	384	1.276421	CTCCTCACCACCGACAAGAAT	59.724	52.381	0.00	0.00	0.00	2.40
640	643	0.103823	TCCCCTAAACCCAGAACCCA	60.104	55.000	0.00	0.00	0.00	4.51
666	669	1.363807	GCAACCAGACAAAGCCCAC	59.636	57.895	0.00	0.00	0.00	4.61
681	684	0.688087	AAGAAAAACCACCCGGGCAA	60.688	50.000	24.08	0.00	42.05	4.52
795	799	4.677378	CGCAATATTTTTCCGTTGTTGTGA	59.323	37.500	0.00	0.00	0.00	3.58
799	803	2.990514	GCCGCAATATTTTTCCGTTGTT	59.009	40.909	0.00	0.00	0.00	2.83
840	848	2.495366	TTAGGAAAAGCCGCTCGCGA	62.495	55.000	9.26	9.26	44.76	5.87
841	849	1.632046	TTTAGGAAAAGCCGCTCGCG	61.632	55.000	0.00	0.00	44.76	5.87
842	850	0.519961	TTTTAGGAAAAGCCGCTCGC	59.480	50.000	0.00	0.00	43.43	5.03
843	851	2.981400	TTTTTAGGAAAAGCCGCTCG	57.019	45.000	0.00	0.00	43.43	5.03
864	872	2.970324	TGCCGCTCGCGACTTTTT	60.970	55.556	13.51	0.00	42.08	1.94
865	873	3.712881	GTGCCGCTCGCGACTTTT	61.713	61.111	13.51	0.00	42.08	2.27
944	957	2.543777	TCTTCGAGGGGAAAACTGTG	57.456	50.000	0.00	0.00	33.34	3.66
948	961	3.252701	GGTTCTTTCTTCGAGGGGAAAAC	59.747	47.826	0.00	0.56	33.34	2.43
949	962	3.137728	AGGTTCTTTCTTCGAGGGGAAAA	59.862	43.478	0.00	0.00	33.34	2.29
953	967	2.418884	GCTAGGTTCTTTCTTCGAGGGG	60.419	54.545	0.00	0.00	0.00	4.79
959	973	4.097012	CGTAGTCGCTAGGTTCTTTCTTC	58.903	47.826	0.00	0.00	0.00	2.87
986	1001	1.212616	CTTCATCGCTTGACCGATCC	58.787	55.000	0.00	0.00	45.35	3.36
995	1010	0.461693	GCTCTCCTGCTTCATCGCTT	60.462	55.000	0.00	0.00	0.00	4.68
1003	1018	3.764466	CCGGTCGCTCTCCTGCTT	61.764	66.667	0.00	0.00	0.00	3.91
1041	1056	3.356639	GAGGACATCCGCGAGCACA	62.357	63.158	8.23	0.00	42.08	4.57
1122	1137	3.121030	GCGTGCTGGCTGTCGATT	61.121	61.111	12.85	0.00	0.00	3.34
1164	1179	3.118075	TGATGAAGATACCGGCCAATGAA	60.118	43.478	0.00	0.00	0.00	2.57
1194	1209	4.507710	AGAATTCTGAATGCGTTAGCTCA	58.492	39.130	7.30	0.00	45.42	4.26
1240	1255	0.591170	CTTTCGCCGACACCAACAAT	59.409	50.000	0.00	0.00	0.00	2.71
1329	1344	1.274703	ATGGTGCCTCCCATCGTCTT	61.275	55.000	0.00	0.00	41.47	3.01
1333	1348	2.484062	GCAATGGTGCCTCCCATCG	61.484	63.158	0.65	0.00	44.55	3.84
1347	1362	2.996734	CTTTGGGGCGGTGGCAAT	60.997	61.111	0.00	0.00	42.47	3.56
1495	1516	0.991920	ACGGGGTCAATCTCAACCAT	59.008	50.000	0.00	0.00	37.28	3.55
1566	1587	1.113788	CCCATTGCCCATTCAACGAT	58.886	50.000	0.00	0.00	0.00	3.73
1678	1699	2.286950	GCACATATAATGCACCACACCG	60.287	50.000	7.32	0.00	42.88	4.94
1847	1869	6.183360	TGGTGGTTTAATGACATGATATGTGC	60.183	38.462	0.00	0.00	45.03	4.57
1899	1921	8.348285	TCTTCGAATTCCCAAGATAACAATTT	57.652	30.769	0.00	0.00	0.00	1.82
1986	2008	5.007039	CCACTTCTTATGTCCATGTGATTCG	59.993	44.000	0.00	0.00	0.00	3.34
2005	2027	4.776837	CCTATCATGCTCTAGGATCCACTT	59.223	45.833	15.82	0.00	37.31	3.16
2043	2068	3.620488	ACCATTGTTTAGACATGGCGAT	58.380	40.909	12.01	0.00	37.67	4.58
2098	2123	7.022979	TCATCGTAATGCTGAATGTTCTTTTG	58.977	34.615	0.00	0.00	32.58	2.44
2104	2129	5.182950	TGGTTTCATCGTAATGCTGAATGTT	59.817	36.000	0.00	0.00	33.08	2.71
2130	2155	7.642186	TCCATTCAAAATCCTCTTCTATTCCA	58.358	34.615	0.00	0.00	0.00	3.53
2132	2157	9.183368	AGTTCCATTCAAAATCCTCTTCTATTC	57.817	33.333	0.00	0.00	0.00	1.75
2182	2207	4.261801	CCACCCTTGTTGATCGTATCTTT	58.738	43.478	0.00	0.00	0.00	2.52
2256	2281	7.264221	TGCTCAAATTTTTGCTCAACTTTCTA	58.736	30.769	11.81	0.00	38.05	2.10
2262	2287	3.495753	CCCTGCTCAAATTTTTGCTCAAC	59.504	43.478	11.81	0.00	38.05	3.18
2270	2295	2.026915	GCCAATCCCCTGCTCAAATTTT	60.027	45.455	0.00	0.00	0.00	1.82
2369	2394	7.336931	ACATAAAAGAAGCTTCAATACGTCCAT	59.663	33.333	27.57	0.28	0.00	3.41
2385	2410	6.039941	CCCAACAAGGTGTGTACATAAAAGAA	59.960	38.462	0.00	0.00	40.60	2.52
2445	2470	9.736023	CCTAATAGCCAATACAATTTTCTGTTC	57.264	33.333	0.00	0.00	0.00	3.18
2507	2532	5.744345	TGATACAAAATTTTCGCAACAACGT	59.256	32.000	0.00	0.00	0.00	3.99
2513	2538	3.363426	GCGCTGATACAAAATTTTCGCAA	59.637	39.130	19.70	1.22	39.78	4.85
2518	2543	4.742659	ACGTTTGCGCTGATACAAAATTTT	59.257	33.333	9.73	0.00	42.83	1.82
2537	2562	7.378461	CACTGTTTGCAACTATGAATTAACGTT	59.622	33.333	5.88	5.88	0.00	3.99
2614	2639	8.421002	GTGCCATACCAAATCCTTAACATATTT	58.579	33.333	0.00	0.00	0.00	1.40
2647	2672	0.747255	TCTTCGGGCAGCATCTACTC	59.253	55.000	0.00	0.00	0.00	2.59
2659	2684	7.549488	AGAAAAATGTCATTAGTACTCTTCGGG	59.451	37.037	0.00	0.00	0.00	5.14
2703	2729	4.720649	TTGCTTTATCACTAGAGCGACT	57.279	40.909	0.00	0.00	37.78	4.18
2783	2809	0.039798	ACAACGCATGCAGCTTCTTG	60.040	50.000	19.57	12.32	42.61	3.02
2863	2890	6.588348	TTCAACTCACATATACAAGATGCG	57.412	37.500	0.00	0.00	0.00	4.73
2908	2935	1.541233	CCCCTCGGCACTGATGTTATC	60.541	57.143	0.00	0.00	0.00	1.75
2915	2942	2.363018	CTCTCCCCTCGGCACTGA	60.363	66.667	0.00	0.00	0.00	3.41
2926	4374	0.034960	GCTTTGTCCCTTCCTCTCCC	60.035	60.000	0.00	0.00	0.00	4.30
2962	4413	0.613260	ACTGATCTAAGCGGGCAACA	59.387	50.000	0.00	0.00	39.74	3.33
2969	4420	3.444703	AGTTGGCTACTGATCTAAGCG	57.555	47.619	0.00	0.00	37.11	4.68
3160	4661	1.480954	CAGCAACGTACCTCCCACTAT	59.519	52.381	0.00	0.00	0.00	2.12
3194	4695	6.534475	AACATGCAAGTTATCCACATCATT	57.466	33.333	5.33	0.00	0.00	2.57

Based at the University of Bristol with support from BBSRC.

AutoCloner maintained by Alex Coulton.