AutoCloner

Multiple sequence alignment - TraesCS7D01G331200

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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	TraesCS7D01G331200	chr7D	100.000	2732	0	0	1	2732	422672276	422675007	0.000000e+00	5046.0
1	TraesCS7D01G331200	chr7D	84.783	506	43	12	2231	2732	244756790	244756315	6.840000e-131	477.0
2	TraesCS7D01G331200	chr7D	81.905	105	17	1	435	537	461627873	461627769	1.350000e-13	87.9
3	TraesCS7D01G331200	chr7D	97.143	35	1	0	608	642	422672848	422672882	2.940000e-05	60.2
4	TraesCS7D01G331200	chr7D	97.143	35	1	0	573	607	422672883	422672917	2.940000e-05	60.2
5	TraesCS7D01G331200	chr7D	86.538	52	7	0	432	483	3373068	3373119	1.060000e-04	58.4
6	TraesCS7D01G331200	chr7B	93.899	1967	107	11	184	2149	439671556	439673510	0.000000e+00	2955.0
7	TraesCS7D01G331200	chr7B	91.444	187	11	2	3	184	439670923	439671109	4.520000e-63	252.0
8	TraesCS7D01G331200	chr7B	96.591	88	3	0	2149	2236	439673631	439673718	2.190000e-31	147.0
9	TraesCS7D01G331200	chr7B	86.239	109	14	1	430	537	192781431	192781323	1.720000e-22	117.0
10	TraesCS7D01G331200	chr7B	89.552	67	7	0	430	496	717027708	717027774	4.850000e-13	86.1
11	TraesCS7D01G331200	chr7B	80.000	110	19	3	430	537	678380051	678380159	8.110000e-11	78.7
12	TraesCS7D01G331200	chr7A	90.177	1466	66	22	798	2236	510496323	510494909	0.000000e+00	1838.0
13	TraesCS7D01G331200	chr7A	84.762	105	14	2	435	537	584111438	584111542	1.340000e-18	104.0
14	TraesCS7D01G331200	chr6D	88.577	499	51	5	2235	2732	434318240	434318733	3.890000e-168	601.0
15	TraesCS7D01G331200	chr6D	85.521	518	51	9	2235	2732	372780550	372780037	1.120000e-143	520.0
16	TraesCS7D01G331200	chr6D	87.273	110	13	1	429	537	263436392	263436501	1.030000e-24	124.0
17	TraesCS7D01G331200	chr6D	92.500	40	1	2	548	586	188241311	188241349	3.800000e-04	56.5
18	TraesCS7D01G331200	chr5D	87.356	522	43	7	2231	2732	400366372	400366890	6.560000e-161	577.0
19	TraesCS7D01G331200	chr5D	84.770	499	55	11	2235	2732	520253136	520253614	5.290000e-132	481.0
20	TraesCS7D01G331200	chr5D	84.545	110	15	2	430	537	444850560	444850451	1.030000e-19	108.0
21	TraesCS7D01G331200	chr3D	86.873	518	48	2	2235	2732	480355919	480356436	1.840000e-156	562.0
22	TraesCS7D01G331200	chr3D	86.486	518	48	7	2235	2732	281006378	281006893	1.430000e-152	549.0
23	TraesCS7D01G331200	chr3D	83.846	520	48	13	2235	2732	523167138	523167643	1.920000e-126	462.0
24	TraesCS7D01G331200	chr3D	81.905	105	15	4	435	536	556891614	556891511	4.850000e-13	86.1
25	TraesCS7D01G331200	chr2D	86.948	521	42	12	2235	2732	186954401	186954918	1.840000e-156	562.0
26	TraesCS7D01G331200	chr2D	90.000	50	5	0	430	479	553758930	553758979	6.310000e-07	65.8
27	TraesCS7D01G331200	chr4D	86.240	516	51	6	2236	2732	115402208	115401694	2.390000e-150	542.0
28	TraesCS7D01G331200	chr4D	88.041	393	27	3	2359	2732	17033181	17032790	5.370000e-122	448.0
29	TraesCS7D01G331200	chr4D	91.489	47	3	1	548	594	189118675	189118720	2.270000e-06	63.9
30	TraesCS7D01G331200	chr3A	85.828	501	47	10	2235	2732	208743289	208743768	6.750000e-141	510.0
31	TraesCS7D01G331200	chr3A	86.364	110	12	3	430	537	549273077	549273185	1.720000e-22	117.0
32	TraesCS7D01G331200	chr3B	85.135	518	54	9	2235	2732	313808936	313809450	2.430000e-140	508.0
33	TraesCS7D01G331200	chr5B	86.441	413	48	6	2324	2732	306442600	306442192	1.930000e-121	446.0
34	TraesCS7D01G331200	chr5B	92.500	40	1	2	548	586	53078022	53078060	3.800000e-04	56.5
35	TraesCS7D01G331200	chr2B	86.239	109	14	1	430	537	47188853	47188961	1.720000e-22	117.0
36	TraesCS7D01G331200	chr2B	88.636	44	4	1	551	594	124039402	124039360	5.000000e-03	52.8
37	TraesCS7D01G331200	chr1A	86.239	109	14	1	430	537	12681910	12681802	1.720000e-22	117.0
38	TraesCS7D01G331200	chr1A	94.595	37	0	2	551	586	49722472	49722437	3.800000e-04	56.5
39	TraesCS7D01G331200	chr4A	85.321	109	14	2	430	536	739419273	739419381	8.000000e-21	111.0
40	TraesCS7D01G331200	chr4A	84.545	110	14	3	430	537	11180594	11180702	3.720000e-19	106.0
41	TraesCS7D01G331200	chr4A	81.982	111	17	3	429	537	6495153	6495262	1.040000e-14	91.6
42	TraesCS7D01G331200	chr4A	89.583	48	4	1	553	600	601329476	601329522	2.940000e-05	60.2
43	TraesCS7D01G331200	chr6B	83.495	103	15	2	435	535	561249755	561249653	8.050000e-16	95.3
44	TraesCS7D01G331200	chr6B	90.909	44	3	1	551	594	285533528	285533486	1.060000e-04	58.4
45	TraesCS7D01G331200	chr6B	92.500	40	1	2	548	586	208098501	208098539	3.800000e-04	56.5

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	TraesCS7D01G331200	chr7D	422672276	422675007	2731	False	1722.133333	5046	98.095333	1	2732	3	chr7D.!!$F2	2731
1	TraesCS7D01G331200	chr7B	439670923	439673718	2795	False	1118.000000	2955	93.978000	3	2236	3	chr7B.!!$F3	2233
2	TraesCS7D01G331200	chr7A	510494909	510496323	1414	True	1838.000000	1838	90.177000	798	2236	1	chr7A.!!$R1	1438
3	TraesCS7D01G331200	chr6D	372780037	372780550	513	True	520.000000	520	85.521000	2235	2732	1	chr6D.!!$R1	497
4	TraesCS7D01G331200	chr5D	400366372	400366890	518	False	577.000000	577	87.356000	2231	2732	1	chr5D.!!$F1	501
5	TraesCS7D01G331200	chr3D	480355919	480356436	517	False	562.000000	562	86.873000	2235	2732	1	chr3D.!!$F2	497
6	TraesCS7D01G331200	chr3D	281006378	281006893	515	False	549.000000	549	86.486000	2235	2732	1	chr3D.!!$F1	497
7	TraesCS7D01G331200	chr3D	523167138	523167643	505	False	462.000000	462	83.846000	2235	2732	1	chr3D.!!$F3	497
8	TraesCS7D01G331200	chr2D	186954401	186954918	517	False	562.000000	562	86.948000	2235	2732	1	chr2D.!!$F1	497
9	TraesCS7D01G331200	chr4D	115401694	115402208	514	True	542.000000	542	86.240000	2236	2732	1	chr4D.!!$R2	496
10	TraesCS7D01G331200	chr3B	313808936	313809450	514	False	508.000000	508	85.135000	2235	2732	1	chr3B.!!$F1	497

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
508	962	0.027979	CACTAAACATGCATCGCCGG	59.972	55.0	0.0	0.0	0.0	6.13	F

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability	Orientation
1988	2493	0.609662	ACAATTCACCATTGGCAGCC	59.39	50.0	3.66	3.66	46.06	4.85	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
69	74	3.916359	TTCCGGTTTATACATCCTGCA	57.084	42.857	0.00	0.00	0.00	4.41
71	76	1.864711	CCGGTTTATACATCCTGCACG	59.135	52.381	0.00	0.00	0.00	5.34
78	83	0.530744	TACATCCTGCACGTGTCTCC	59.469	55.000	18.38	0.09	0.00	3.71
85	90	0.392706	TGCACGTGTCTCCAAGTCAT	59.607	50.000	18.38	0.00	30.44	3.06
229	682	3.426829	CGTCGATCTAGAGGTATGCATGG	60.427	52.174	10.16	0.00	0.00	3.66
232	685	1.352083	TCTAGAGGTATGCATGGGCC	58.648	55.000	10.16	8.98	40.13	5.80
237	690	3.531059	AGAGGTATGCATGGGCCTAATA	58.469	45.455	10.16	0.00	40.13	0.98
241	694	4.106341	AGGTATGCATGGGCCTAATAAACT	59.894	41.667	10.16	0.00	40.13	2.66
298	752	2.738846	CAATACATCGCAGATGCCTACC	59.261	50.000	15.41	0.00	45.12	3.18
301	755	0.602106	CATCGCAGATGCCTACCCAG	60.602	60.000	0.00	0.00	45.12	4.45
314	768	2.625639	CTACCCAGCCCTATGAATCCT	58.374	52.381	0.00	0.00	0.00	3.24
338	792	2.231716	GGGCTAGTTCCAACCCAAAT	57.768	50.000	0.00	0.00	42.33	2.32
349	803	3.194542	TCCAACCCAAATAATTCGCAAGG	59.805	43.478	0.00	0.00	38.47	3.61
354	808	5.660460	ACCCAAATAATTCGCAAGGAAATC	58.340	37.500	0.00	0.00	38.36	2.17
357	811	5.229887	CCAAATAATTCGCAAGGAAATCGTG	59.770	40.000	0.00	0.00	38.36	4.35
358	812	5.560966	AATAATTCGCAAGGAAATCGTGT	57.439	34.783	0.00	0.00	38.36	4.49
378	832	9.787532	ATCGTGTTATCTTTGGTAATTCAAATG	57.212	29.630	0.00	0.00	36.24	2.32
464	918	0.595310	GAAGTCATCGTAGGCGCCTC	60.595	60.000	36.73	23.04	38.14	4.70
508	962	0.027979	CACTAAACATGCATCGCCGG	59.972	55.000	0.00	0.00	0.00	6.13
513	967	0.817013	AACATGCATCGCCGGAAATT	59.183	45.000	5.05	0.00	0.00	1.82
514	968	0.381801	ACATGCATCGCCGGAAATTC	59.618	50.000	5.05	0.00	0.00	2.17
515	969	0.318107	CATGCATCGCCGGAAATTCC	60.318	55.000	5.05	0.99	0.00	3.01
540	994	7.351223	CGAAATAGATCCAGAAAAATGCTCTC	58.649	38.462	0.00	0.00	0.00	3.20
542	996	7.565323	AATAGATCCAGAAAAATGCTCTCAC	57.435	36.000	0.00	0.00	0.00	3.51
563	1017	0.249398	AGCCGTGAATACCACTGTCC	59.751	55.000	0.00	0.00	43.53	4.02
572	1026	3.484953	ATACCACTGTCCTCCTAACCA	57.515	47.619	0.00	0.00	0.00	3.67
574	1028	1.909302	ACCACTGTCCTCCTAACCATG	59.091	52.381	0.00	0.00	0.00	3.66
575	1029	1.407437	CCACTGTCCTCCTAACCATGC	60.407	57.143	0.00	0.00	0.00	4.06
576	1030	1.278985	CACTGTCCTCCTAACCATGCA	59.721	52.381	0.00	0.00	0.00	3.96
577	1031	1.985159	ACTGTCCTCCTAACCATGCAA	59.015	47.619	0.00	0.00	0.00	4.08
578	1032	2.290323	ACTGTCCTCCTAACCATGCAAC	60.290	50.000	0.00	0.00	0.00	4.17
579	1033	1.004277	TGTCCTCCTAACCATGCAACC	59.996	52.381	0.00	0.00	0.00	3.77
580	1034	1.004277	GTCCTCCTAACCATGCAACCA	59.996	52.381	0.00	0.00	0.00	3.67
581	1035	1.004277	TCCTCCTAACCATGCAACCAC	59.996	52.381	0.00	0.00	0.00	4.16
582	1036	1.271871	CCTCCTAACCATGCAACCACA	60.272	52.381	0.00	0.00	0.00	4.17
583	1037	2.086869	CTCCTAACCATGCAACCACAG	58.913	52.381	0.00	0.00	0.00	3.66
584	1038	1.423541	TCCTAACCATGCAACCACAGT	59.576	47.619	0.00	0.00	0.00	3.55
585	1039	2.158534	TCCTAACCATGCAACCACAGTT	60.159	45.455	0.00	0.00	36.33	3.16
586	1040	2.627699	CCTAACCATGCAACCACAGTTT	59.372	45.455	0.00	0.00	32.45	2.66
587	1041	3.823873	CCTAACCATGCAACCACAGTTTA	59.176	43.478	0.00	0.00	32.45	2.01
588	1042	4.082787	CCTAACCATGCAACCACAGTTTAG	60.083	45.833	0.00	0.00	32.45	1.85
589	1043	2.944129	ACCATGCAACCACAGTTTAGT	58.056	42.857	0.00	0.00	32.45	2.24
590	1044	3.295973	ACCATGCAACCACAGTTTAGTT	58.704	40.909	0.00	0.00	32.45	2.24
591	1045	3.317993	ACCATGCAACCACAGTTTAGTTC	59.682	43.478	0.00	0.00	32.45	3.01
592	1046	3.554524	CATGCAACCACAGTTTAGTTCG	58.445	45.455	0.00	0.00	32.45	3.95
593	1047	1.332375	TGCAACCACAGTTTAGTTCGC	59.668	47.619	0.00	0.00	32.45	4.70
594	1048	1.659211	GCAACCACAGTTTAGTTCGCG	60.659	52.381	0.00	0.00	32.45	5.87
595	1049	0.584876	AACCACAGTTTAGTTCGCGC	59.415	50.000	0.00	0.00	29.61	6.86
596	1050	0.249741	ACCACAGTTTAGTTCGCGCT	60.250	50.000	5.56	0.00	0.00	5.92
597	1051	1.000060	ACCACAGTTTAGTTCGCGCTA	60.000	47.619	5.56	0.00	0.00	4.26
598	1052	2.063266	CCACAGTTTAGTTCGCGCTAA	58.937	47.619	5.56	0.94	0.00	3.09
599	1053	2.477375	CCACAGTTTAGTTCGCGCTAAA	59.523	45.455	12.92	12.92	38.26	1.85
600	1054	3.423123	CCACAGTTTAGTTCGCGCTAAAG	60.423	47.826	16.12	10.08	40.36	1.85
601	1055	3.183775	CACAGTTTAGTTCGCGCTAAAGT	59.816	43.478	16.12	16.18	42.22	2.66
602	1056	4.383649	CACAGTTTAGTTCGCGCTAAAGTA	59.616	41.667	19.54	4.32	40.58	2.24
603	1057	5.061808	CACAGTTTAGTTCGCGCTAAAGTAT	59.938	40.000	19.54	10.91	40.58	2.12
604	1058	6.252015	CACAGTTTAGTTCGCGCTAAAGTATA	59.748	38.462	19.54	0.00	40.58	1.47
605	1059	6.976925	ACAGTTTAGTTCGCGCTAAAGTATAT	59.023	34.615	19.54	10.33	40.58	0.86
606	1060	7.490402	ACAGTTTAGTTCGCGCTAAAGTATATT	59.510	33.333	19.54	7.82	40.58	1.28
607	1061	8.961092	CAGTTTAGTTCGCGCTAAAGTATATTA	58.039	33.333	19.54	0.00	40.58	0.98
608	1062	9.688592	AGTTTAGTTCGCGCTAAAGTATATTAT	57.311	29.630	18.92	0.99	40.68	1.28
609	1063	9.934641	GTTTAGTTCGCGCTAAAGTATATTATC	57.065	33.333	16.12	2.20	40.36	1.75
610	1064	8.679288	TTAGTTCGCGCTAAAGTATATTATCC	57.321	34.615	5.56	0.00	0.00	2.59
613	1067	6.939551	TCGCGCTAAAGTATATTATCCAAC	57.060	37.500	5.56	0.00	0.00	3.77
618	1072	7.360101	GCGCTAAAGTATATTATCCAACCACAG	60.360	40.741	0.00	0.00	0.00	3.66
627	1081	6.737254	ATTATCCAACCACAGTTTAGTTCG	57.263	37.500	0.00	0.00	32.45	3.95
687	1167	6.773976	TGATTGGGTAGAAAATTCATCCAC	57.226	37.500	0.00	0.00	0.00	4.02
694	1174	4.664688	AGAAAATTCATCCACACCTCCT	57.335	40.909	0.00	0.00	0.00	3.69
775	1255	2.484264	GGTCGCTTGCTTGATAAACACT	59.516	45.455	0.00	0.00	0.00	3.55
788	1268	6.489127	TGATAAACACTTTGATTACGTGGG	57.511	37.500	0.00	0.00	33.13	4.61
796	1276	3.965379	TTGATTACGTGGGAGCTAACA	57.035	42.857	0.00	0.00	0.00	2.41
851	1331	1.000274	CCCTTGTTCGCCAAAGAAAGG	60.000	52.381	0.00	0.00	34.03	3.11
869	1354	3.849951	GGCGAATCAGCGAGGGGA	61.850	66.667	0.00	0.00	38.18	4.81
931	1421	5.938438	GGATCATTCCAGCTGAGAATTAC	57.062	43.478	17.39	13.66	42.12	1.89
942	1436	6.538742	CCAGCTGAGAATTACGGAAAGAAATA	59.461	38.462	17.39	0.00	0.00	1.40
955	1450	0.773644	AGAAATAGCATCCCGGGCAT	59.226	50.000	18.49	7.71	0.00	4.40
1335	1836	2.047274	ATGGTGTTCGTCCCGCTG	60.047	61.111	0.00	0.00	0.00	5.18
1446	1947	2.772691	GGAGACGCCCGACTCGATT	61.773	63.158	12.42	0.00	37.69	3.34
1823	2324	3.244976	CGCTGGAAATGGTGAATTGTTC	58.755	45.455	0.00	0.00	0.00	3.18
1824	2325	3.305267	CGCTGGAAATGGTGAATTGTTCA	60.305	43.478	0.00	0.00	37.33	3.18
1907	2408	6.561519	AGCCTGTAAATAAGGACTGTACAT	57.438	37.500	0.00	0.00	36.91	2.29
1966	2471	3.196469	TGCATGTTTTGTGAAAGGTGGAA	59.804	39.130	0.00	0.00	0.00	3.53
2219	2848	1.371183	CTTCCCTCGTTGCTGGTGA	59.629	57.895	0.00	0.00	0.00	4.02
2246	2876	1.615384	GGCCTTTCAGAGCACTCCAAT	60.615	52.381	0.00	0.00	0.00	3.16
2268	2898	4.685447	CGACCCAAACGGATGACA	57.315	55.556	0.00	0.00	34.64	3.58
2348	2979	4.555709	TTGGGTCGGCAGTGCGTT	62.556	61.111	9.45	0.00	0.00	4.84
2378	3009	1.358759	CCCATTTTATGACCGCGCC	59.641	57.895	0.00	0.00	0.00	6.53
2391	3023	2.447887	CGCGCCCGCATAGATCATC	61.448	63.158	13.42	0.00	42.06	2.92
2392	3024	1.079543	GCGCCCGCATAGATCATCT	60.080	57.895	7.91	0.00	41.49	2.90
2396	3028	1.274728	GCCCGCATAGATCATCTCAGT	59.725	52.381	0.00	0.00	0.00	3.41
2397	3029	2.289320	GCCCGCATAGATCATCTCAGTT	60.289	50.000	0.00	0.00	0.00	3.16
2513	3149	2.663852	CGTGCGGGAAAGGTTCGT	60.664	61.111	0.00	0.00	0.00	3.85
2561	3216	0.542938	CTCCCTCCACACTCTGTCCA	60.543	60.000	0.00	0.00	0.00	4.02
2605	3261	1.381327	ACTAGCCTTGCCGCCTCTA	60.381	57.895	0.00	0.00	0.00	2.43
2625	3281	3.928769	CCACCATGTCGATGCGCG	61.929	66.667	0.00	0.00	42.69	6.86
2684	3340	4.761058	TCCGGCGCCTTCTCCTCT	62.761	66.667	26.68	0.00	0.00	3.69
2700	3356	1.280133	CCTCTGAGATCTGGTTTGGCA	59.720	52.381	6.17	0.00	0.00	4.92
2702	3358	3.415212	CTCTGAGATCTGGTTTGGCAAA	58.585	45.455	8.93	8.93	0.00	3.68

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
0	1	1.338020	GTGTGGGGCAAATAGCTATGC	59.662	52.381	7.09	8.95	44.79	3.14
1	2	1.956477	GGTGTGGGGCAAATAGCTATG	59.044	52.381	7.09	0.00	44.79	2.23
43	44	4.102681	AGGATGTATAAACCGGAAAGGAGG	59.897	45.833	9.46	0.00	45.00	4.30
69	74	1.964223	ACTGATGACTTGGAGACACGT	59.036	47.619	0.00	0.00	46.74	4.49
71	76	5.106908	GCTAAAACTGATGACTTGGAGACAC	60.107	44.000	0.00	0.00	42.67	3.67
78	83	9.069078	CATTATGTTGCTAAAACTGATGACTTG	57.931	33.333	0.00	0.00	0.00	3.16
85	90	8.165239	AGTTCACATTATGTTGCTAAAACTGA	57.835	30.769	0.00	0.00	0.00	3.41
298	752	4.338879	CCATAAAGGATTCATAGGGCTGG	58.661	47.826	0.00	0.00	41.22	4.85
314	768	2.650322	TGGGTTGGAACTAGCCCATAAA	59.350	45.455	8.50	0.00	45.40	1.40
338	792	6.537301	AGATAACACGATTTCCTTGCGAATTA	59.463	34.615	0.00	0.00	0.00	1.40
349	803	9.834628	TTGAATTACCAAAGATAACACGATTTC	57.165	29.630	0.00	0.00	0.00	2.17
354	808	9.277565	CTCATTTGAATTACCAAAGATAACACG	57.722	33.333	0.00	0.00	39.13	4.49
428	882	7.637519	CGATGACTTCATAAATGTCAACATGAC	59.362	37.037	0.00	3.58	42.80	3.06
438	892	4.376413	GCGCCTACGATGACTTCATAAATG	60.376	45.833	0.00	0.00	43.93	2.32
475	929	4.374399	TGTTTAGTGGAAGAAGACGTTCC	58.626	43.478	0.00	0.00	43.45	3.62
476	930	5.614887	GCATGTTTAGTGGAAGAAGACGTTC	60.615	44.000	0.00	0.00	0.00	3.95
488	942	0.027979	CGGCGATGCATGTTTAGTGG	59.972	55.000	2.46	0.00	0.00	4.00
491	945	1.013596	TTCCGGCGATGCATGTTTAG	58.986	50.000	9.30	0.00	0.00	1.85
513	967	6.122277	AGCATTTTTCTGGATCTATTTCGGA	58.878	36.000	0.00	0.00	0.00	4.55
514	968	6.261826	AGAGCATTTTTCTGGATCTATTTCGG	59.738	38.462	0.00	0.00	0.00	4.30
515	969	7.011763	TGAGAGCATTTTTCTGGATCTATTTCG	59.988	37.037	0.00	0.00	0.00	3.46
522	976	3.935203	TCGTGAGAGCATTTTTCTGGATC	59.065	43.478	0.00	0.00	34.84	3.36
555	1009	1.407437	GCATGGTTAGGAGGACAGTGG	60.407	57.143	0.00	0.00	0.00	4.00
563	1017	2.086869	CTGTGGTTGCATGGTTAGGAG	58.913	52.381	0.00	0.00	0.00	3.69
572	1026	2.031157	GCGAACTAAACTGTGGTTGCAT	60.031	45.455	0.00	0.00	35.63	3.96
574	1028	1.659211	CGCGAACTAAACTGTGGTTGC	60.659	52.381	0.00	0.00	35.63	4.17
575	1029	1.659211	GCGCGAACTAAACTGTGGTTG	60.659	52.381	12.10	0.00	35.63	3.77
576	1030	0.584876	GCGCGAACTAAACTGTGGTT	59.415	50.000	12.10	0.00	37.24	3.67
577	1031	0.249741	AGCGCGAACTAAACTGTGGT	60.250	50.000	12.10	0.00	0.00	4.16
578	1032	1.705256	TAGCGCGAACTAAACTGTGG	58.295	50.000	12.10	0.00	0.00	4.17
579	1033	3.183775	ACTTTAGCGCGAACTAAACTGTG	59.816	43.478	12.10	6.04	37.24	3.66
580	1034	3.387397	ACTTTAGCGCGAACTAAACTGT	58.613	40.909	12.10	7.69	37.24	3.55
581	1035	5.697848	ATACTTTAGCGCGAACTAAACTG	57.302	39.130	12.10	7.07	37.24	3.16
582	1036	7.998753	AATATACTTTAGCGCGAACTAAACT	57.001	32.000	12.10	6.92	37.24	2.66
583	1037	9.934641	GATAATATACTTTAGCGCGAACTAAAC	57.065	33.333	12.10	0.00	37.24	2.01
584	1038	9.132521	GGATAATATACTTTAGCGCGAACTAAA	57.867	33.333	12.10	14.20	39.27	1.85
585	1039	8.298854	TGGATAATATACTTTAGCGCGAACTAA	58.701	33.333	12.10	6.15	0.00	2.24
586	1040	7.819644	TGGATAATATACTTTAGCGCGAACTA	58.180	34.615	12.10	0.00	0.00	2.24
587	1041	6.684686	TGGATAATATACTTTAGCGCGAACT	58.315	36.000	12.10	0.00	0.00	3.01
588	1042	6.939551	TGGATAATATACTTTAGCGCGAAC	57.060	37.500	12.10	0.00	0.00	3.95
589	1043	6.366877	GGTTGGATAATATACTTTAGCGCGAA	59.633	38.462	12.10	0.00	0.00	4.70
590	1044	5.865552	GGTTGGATAATATACTTTAGCGCGA	59.134	40.000	12.10	0.00	0.00	5.87
591	1045	5.636121	TGGTTGGATAATATACTTTAGCGCG	59.364	40.000	0.00	0.00	0.00	6.86
592	1046	6.425721	TGTGGTTGGATAATATACTTTAGCGC	59.574	38.462	0.00	0.00	0.00	5.92
593	1047	7.656137	ACTGTGGTTGGATAATATACTTTAGCG	59.344	37.037	0.00	0.00	0.00	4.26
594	1048	8.904099	ACTGTGGTTGGATAATATACTTTAGC	57.096	34.615	0.00	0.00	0.00	3.09
601	1055	9.537192	CGAACTAAACTGTGGTTGGATAATATA	57.463	33.333	0.00	0.00	35.63	0.86
602	1056	7.012044	GCGAACTAAACTGTGGTTGGATAATAT	59.988	37.037	0.00	0.00	35.63	1.28
603	1057	6.314400	GCGAACTAAACTGTGGTTGGATAATA	59.686	38.462	0.00	0.00	35.63	0.98
604	1058	5.123344	GCGAACTAAACTGTGGTTGGATAAT	59.877	40.000	0.00	0.00	35.63	1.28
605	1059	4.453136	GCGAACTAAACTGTGGTTGGATAA	59.547	41.667	0.00	0.00	35.63	1.75
606	1060	3.998341	GCGAACTAAACTGTGGTTGGATA	59.002	43.478	0.00	0.00	35.63	2.59
607	1061	2.812011	GCGAACTAAACTGTGGTTGGAT	59.188	45.455	0.00	0.00	35.63	3.41
608	1062	2.215196	GCGAACTAAACTGTGGTTGGA	58.785	47.619	0.00	0.00	35.63	3.53
609	1063	1.070175	CGCGAACTAAACTGTGGTTGG	60.070	52.381	0.00	0.00	35.63	3.77
610	1064	1.659211	GCGCGAACTAAACTGTGGTTG	60.659	52.381	12.10	0.00	35.63	3.77
613	1067	1.705256	TAGCGCGAACTAAACTGTGG	58.295	50.000	12.10	0.00	0.00	4.17
618	1072	9.481800	AAAAATATACTTTAGCGCGAACTAAAC	57.518	29.630	12.10	0.00	37.24	2.01
650	1104	8.837099	TCTACCCAATCAATGTTAAATTCCAT	57.163	30.769	0.00	0.00	0.00	3.41
652	1106	9.936759	TTTTCTACCCAATCAATGTTAAATTCC	57.063	29.630	0.00	0.00	0.00	3.01
659	1113	8.260114	GGATGAATTTTCTACCCAATCAATGTT	58.740	33.333	0.00	0.00	0.00	2.71
663	1143	6.723515	TGTGGATGAATTTTCTACCCAATCAA	59.276	34.615	0.00	0.00	0.00	2.57
671	1151	5.501156	AGGAGGTGTGGATGAATTTTCTAC	58.499	41.667	0.64	0.64	0.00	2.59
687	1167	0.245539	CCTGCATTGCAAAGGAGGTG	59.754	55.000	28.06	11.91	38.41	4.00
694	1174	1.804396	CGTGGTCCCTGCATTGCAAA	61.804	55.000	13.18	0.00	38.41	3.68
775	1255	3.998341	GTGTTAGCTCCCACGTAATCAAA	59.002	43.478	0.00	0.00	0.00	2.69
788	1268	3.198872	GGCACTAATGAGGTGTTAGCTC	58.801	50.000	0.00	1.31	42.72	4.09
796	1276	2.551270	TGAAGAGGGCACTAATGAGGT	58.449	47.619	0.00	0.00	0.00	3.85
851	1331	4.918201	CCCCTCGCTGATTCGCCC	62.918	72.222	0.00	0.00	0.00	6.13
869	1354	2.554893	GGAGGAATTCGCTCGAGTCTAT	59.445	50.000	15.13	1.96	0.00	1.98
877	1362	2.103263	AGTATGGTGGAGGAATTCGCTC	59.897	50.000	12.85	12.85	0.00	5.03
931	1421	1.873591	CCGGGATGCTATTTCTTTCCG	59.126	52.381	0.00	0.00	36.43	4.30
994	1489	0.528901	CACGGTAAATCCATCGCCGA	60.529	55.000	8.31	0.00	44.57	5.54
1236	1737	2.691771	GCTCGACGTCTCCAGCAGA	61.692	63.158	20.16	6.53	0.00	4.26
1335	1836	1.390820	GCTCGAAGACGACGATGATC	58.609	55.000	0.00	0.00	43.81	2.92
1446	1947	1.595929	GAACGACTTGGTGGCCGAA	60.596	57.895	0.00	0.00	0.00	4.30
1851	2352	5.239306	ACATTTGTTCAGACACCTACACATG	59.761	40.000	0.00	0.00	35.74	3.21
1907	2408	8.801882	TCTCAACCTTCAGAGTAAAAGAAAAA	57.198	30.769	0.00	0.00	33.63	1.94
1966	2471	6.438425	AGCCTTTGAACAGAATGGTAAATCAT	59.562	34.615	0.00	0.00	33.00	2.45
1988	2493	0.609662	ACAATTCACCATTGGCAGCC	59.390	50.000	3.66	3.66	46.06	4.85
2268	2898	3.566742	ACGGATAAAAAGCGGACAAAAGT	59.433	39.130	0.00	0.00	0.00	2.66
2304	2934	3.599285	AAAGACGAATGCCGGGCGA	62.599	57.895	15.40	3.96	43.93	5.54
2348	2979	1.025812	AAAATGGGTCAACGCGTTGA	58.974	45.000	42.01	42.01	46.27	3.18
2356	2987	1.740585	CGCGGTCATAAAATGGGTCAA	59.259	47.619	0.00	0.00	0.00	3.18
2378	3009	3.986572	GACAACTGAGATGATCTATGCGG	59.013	47.826	0.00	0.00	0.00	5.69
2391	3023	0.710567	GCGACGACATGACAACTGAG	59.289	55.000	0.00	0.00	0.00	3.35
2392	3024	0.666274	GGCGACGACATGACAACTGA	60.666	55.000	0.00	0.00	0.00	3.41
2396	3028	1.374125	CAGGGCGACGACATGACAA	60.374	57.895	10.41	0.00	0.00	3.18
2397	3029	2.261361	CAGGGCGACGACATGACA	59.739	61.111	10.41	0.00	0.00	3.58
2457	3093	1.011131	CGCGCTAGGCCGATTTTTC	60.011	57.895	5.56	0.00	38.94	2.29
2625	3281	4.796495	ATCCGAAACGCCCAGGCC	62.796	66.667	2.37	0.00	37.98	5.19
2702	3358	2.171635	GCCGAGAATGAGGCGTTTT	58.828	52.632	0.00	0.00	44.22	2.43

Based at the University of Bristol with support from BBSRC.

AutoCloner maintained by Alex Coulton.