AutoCloner

Multiple sequence alignment - TraesCS5A01G374900

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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	TraesCS5A01G374900	chr5A	100.000	3469	0	0	1	3469	573012898	573009430	0.000000e+00	6407
1	TraesCS5A01G374900	chr5A	94.858	2684	107	7	685	3347	634624169	634626842	0.000000e+00	4163
2	TraesCS5A01G374900	chr5A	95.538	1793	63	5	685	2472	552264222	552262442	0.000000e+00	2852
3	TraesCS5A01G374900	chr1D	94.645	2820	110	19	685	3469	42897256	42894443	0.000000e+00	4333
4	TraesCS5A01G374900	chr1D	96.294	1862	57	4	1616	3467	7181412	7183271	0.000000e+00	3046
5	TraesCS5A01G374900	chr1D	97.037	540	15	1	2929	3467	4306600	4306061	0.000000e+00	907
6	TraesCS5A01G374900	chr1A	93.706	2844	106	15	685	3469	572001396	571998567	0.000000e+00	4193
7	TraesCS5A01G374900	chr6A	93.527	2827	129	15	683	3469	116690036	116692848	0.000000e+00	4157
8	TraesCS5A01G374900	chr4D	91.718	2620	108	35	899	3469	488848778	488851337	0.000000e+00	3535
9	TraesCS5A01G374900	chr7A	95.969	1935	64	6	685	2610	689936403	689938332	0.000000e+00	3129
10	TraesCS5A01G374900	chr2D	96.819	1855	56	2	1616	3469	380679029	380680881	0.000000e+00	3096
11	TraesCS5A01G374900	chr3D	96.665	1859	54	4	1618	3469	594954002	594952145	0.000000e+00	3083
12	TraesCS5A01G374900	chr3D	96.609	1858	55	3	1616	3469	590154237	590156090	0.000000e+00	3075
13	TraesCS5A01G374900	chr2A	96.025	1459	52	4	857	2312	773340880	773339425	0.000000e+00	2368
14	TraesCS5A01G374900	chr2A	94.081	321	18	1	684	1003	773311614	773311934	1.450000e-133	486
15	TraesCS5A01G374900	chr2A	83.764	542	48	14	85	613	761486403	761485889	8.710000e-131	477
16	TraesCS5A01G374900	chr2A	92.013	313	24	1	684	995	38464159	38464471	4.110000e-119	438
17	TraesCS5A01G374900	chr2A	89.908	327	29	4	685	1009	704012642	704012966	5.350000e-113	418
18	TraesCS5A01G374900	chr4A	89.474	627	16	16	85	684	737526126	737526729	0.000000e+00	747
19	TraesCS5A01G374900	chr4B	85.955	534	50	14	85	604	239161	239683	6.550000e-152	547
20	TraesCS5A01G374900	chr4B	92.000	75	4	2	3	77	552021694	552021766	1.700000e-18	104

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	TraesCS5A01G374900	chr5A	573009430	573012898	3468	True	6407	6407	100.000	1	3469	1	chr5A.!!$R2	3468
1	TraesCS5A01G374900	chr5A	634624169	634626842	2673	False	4163	4163	94.858	685	3347	1	chr5A.!!$F1	2662
2	TraesCS5A01G374900	chr5A	552262442	552264222	1780	True	2852	2852	95.538	685	2472	1	chr5A.!!$R1	1787
3	TraesCS5A01G374900	chr1D	42894443	42897256	2813	True	4333	4333	94.645	685	3469	1	chr1D.!!$R2	2784
4	TraesCS5A01G374900	chr1D	7181412	7183271	1859	False	3046	3046	96.294	1616	3467	1	chr1D.!!$F1	1851
5	TraesCS5A01G374900	chr1D	4306061	4306600	539	True	907	907	97.037	2929	3467	1	chr1D.!!$R1	538
6	TraesCS5A01G374900	chr1A	571998567	572001396	2829	True	4193	4193	93.706	685	3469	1	chr1A.!!$R1	2784
7	TraesCS5A01G374900	chr6A	116690036	116692848	2812	False	4157	4157	93.527	683	3469	1	chr6A.!!$F1	2786
8	TraesCS5A01G374900	chr4D	488848778	488851337	2559	False	3535	3535	91.718	899	3469	1	chr4D.!!$F1	2570
9	TraesCS5A01G374900	chr7A	689936403	689938332	1929	False	3129	3129	95.969	685	2610	1	chr7A.!!$F1	1925
10	TraesCS5A01G374900	chr2D	380679029	380680881	1852	False	3096	3096	96.819	1616	3469	1	chr2D.!!$F1	1853
11	TraesCS5A01G374900	chr3D	594952145	594954002	1857	True	3083	3083	96.665	1618	3469	1	chr3D.!!$R1	1851
12	TraesCS5A01G374900	chr3D	590154237	590156090	1853	False	3075	3075	96.609	1616	3469	1	chr3D.!!$F1	1853
13	TraesCS5A01G374900	chr2A	773339425	773340880	1455	True	2368	2368	96.025	857	2312	1	chr2A.!!$R2	1455
14	TraesCS5A01G374900	chr2A	761485889	761486403	514	True	477	477	83.764	85	613	1	chr2A.!!$R1	528
15	TraesCS5A01G374900	chr4A	737526126	737526729	603	False	747	747	89.474	85	684	1	chr4A.!!$F1	599
16	TraesCS5A01G374900	chr4B	239161	239683	522	False	547	547	85.955	85	604	1	chr4B.!!$F1	519

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
738	782	0.249398	GCGTCCCACAGAATACCACT	59.751	55.0	0.0	0.0	0.0	4.0	F
1031	1089	0.969917	TGCTCTCCACTGCTCCTCTC	60.970	60.0	0.0	0.0	0.0	3.2	F

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability	Orientation
2199	2280	0.767375	TGACCTGCCTTCAAGAGCTT	59.233	50.000	0.0	0.0	0.00	3.74	R
2947	3102	1.215647	GCACCAAGACGAGGACGAT	59.784	57.895	0.0	0.0	42.66	3.73	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
20	21	3.033368	AGCTCACTTTTCTTCGTCTCC	57.967	47.619	0.00	0.00	0.00	3.71
21	22	2.630580	AGCTCACTTTTCTTCGTCTCCT	59.369	45.455	0.00	0.00	0.00	3.69
22	23	3.070302	AGCTCACTTTTCTTCGTCTCCTT	59.930	43.478	0.00	0.00	0.00	3.36
23	24	3.810386	GCTCACTTTTCTTCGTCTCCTTT	59.190	43.478	0.00	0.00	0.00	3.11
24	25	4.084276	GCTCACTTTTCTTCGTCTCCTTTC	60.084	45.833	0.00	0.00	0.00	2.62
25	26	5.277857	TCACTTTTCTTCGTCTCCTTTCT	57.722	39.130	0.00	0.00	0.00	2.52
26	27	5.671493	TCACTTTTCTTCGTCTCCTTTCTT	58.329	37.500	0.00	0.00	0.00	2.52
27	28	6.113411	TCACTTTTCTTCGTCTCCTTTCTTT	58.887	36.000	0.00	0.00	0.00	2.52
28	29	6.037172	TCACTTTTCTTCGTCTCCTTTCTTTG	59.963	38.462	0.00	0.00	0.00	2.77
29	30	6.037172	CACTTTTCTTCGTCTCCTTTCTTTGA	59.963	38.462	0.00	0.00	0.00	2.69
30	31	6.598064	ACTTTTCTTCGTCTCCTTTCTTTGAA	59.402	34.615	0.00	0.00	0.00	2.69
31	32	7.283354	ACTTTTCTTCGTCTCCTTTCTTTGAAT	59.717	33.333	0.00	0.00	0.00	2.57
32	33	6.787085	TTCTTCGTCTCCTTTCTTTGAATC	57.213	37.500	0.00	0.00	0.00	2.52
33	34	5.853936	TCTTCGTCTCCTTTCTTTGAATCA	58.146	37.500	0.00	0.00	0.00	2.57
34	35	6.288294	TCTTCGTCTCCTTTCTTTGAATCAA	58.712	36.000	0.00	0.00	0.00	2.57
35	36	5.924475	TCGTCTCCTTTCTTTGAATCAAC	57.076	39.130	0.00	0.00	0.00	3.18
36	37	4.447724	TCGTCTCCTTTCTTTGAATCAACG	59.552	41.667	0.00	0.00	0.00	4.10
37	38	4.447724	CGTCTCCTTTCTTTGAATCAACGA	59.552	41.667	0.00	0.00	0.00	3.85
38	39	5.120830	CGTCTCCTTTCTTTGAATCAACGAT	59.879	40.000	2.99	0.00	0.00	3.73
39	40	6.310467	CGTCTCCTTTCTTTGAATCAACGATA	59.690	38.462	2.99	0.00	0.00	2.92
40	41	7.463383	CGTCTCCTTTCTTTGAATCAACGATAG	60.463	40.741	11.14	11.14	46.19	2.08
41	42	6.313905	TCTCCTTTCTTTGAATCAACGATAGC	59.686	38.462	12.18	0.00	42.67	2.97
42	43	5.354234	TCCTTTCTTTGAATCAACGATAGCC	59.646	40.000	12.18	0.00	42.67	3.93
43	44	5.123820	CCTTTCTTTGAATCAACGATAGCCA	59.876	40.000	12.18	0.00	42.67	4.75
44	45	6.183360	CCTTTCTTTGAATCAACGATAGCCAT	60.183	38.462	12.18	0.00	42.67	4.40
45	46	5.991328	TCTTTGAATCAACGATAGCCATC	57.009	39.130	0.00	0.00	42.67	3.51
46	47	5.427378	TCTTTGAATCAACGATAGCCATCA	58.573	37.500	0.00	0.00	42.67	3.07
47	48	5.525012	TCTTTGAATCAACGATAGCCATCAG	59.475	40.000	0.00	0.00	42.67	2.90
48	49	3.133691	TGAATCAACGATAGCCATCAGC	58.866	45.455	0.00	0.00	44.25	4.26
65	66	3.699894	CTGGTGGCAGCGACCTCT	61.700	66.667	25.39	0.00	33.35	3.69
66	67	2.283604	TGGTGGCAGCGACCTCTA	60.284	61.111	25.39	4.59	33.35	2.43
67	68	1.680522	CTGGTGGCAGCGACCTCTAT	61.681	60.000	25.39	0.00	33.35	1.98
68	69	0.396556	TGGTGGCAGCGACCTCTATA	60.397	55.000	25.39	3.84	33.35	1.31
69	70	0.315568	GGTGGCAGCGACCTCTATAG	59.684	60.000	18.97	0.00	29.49	1.31
80	81	2.802787	CCTCTATAGGTGGCAGAACG	57.197	55.000	0.00	0.00	38.19	3.95
81	82	1.341531	CCTCTATAGGTGGCAGAACGG	59.658	57.143	0.00	0.00	38.19	4.44
82	83	2.032620	CTCTATAGGTGGCAGAACGGT	58.967	52.381	0.00	0.00	0.00	4.83
83	84	1.754803	TCTATAGGTGGCAGAACGGTG	59.245	52.381	0.00	0.00	0.00	4.94
196	205	2.350388	CGAAAGCACGCCAAACTTATGT	60.350	45.455	0.00	0.00	0.00	2.29
201	210	3.119849	AGCACGCCAAACTTATGTGATTC	60.120	43.478	0.00	0.00	32.39	2.52
224	234	2.225343	CCCCATGGCCACCATTACATAT	60.225	50.000	8.16	0.00	42.23	1.78
225	235	3.011144	CCCCATGGCCACCATTACATATA	59.989	47.826	8.16	0.00	42.23	0.86
226	236	4.272489	CCCATGGCCACCATTACATATAG	58.728	47.826	8.16	0.00	42.23	1.31
235	245	6.573680	GCCACCATTACATATAGTATGTCGGT	60.574	42.308	5.92	8.71	32.72	4.69
290	310	3.427098	GCATGACACAACATGGATCTGTG	60.427	47.826	14.32	14.32	45.14	3.66
382	408	3.560636	AGGCCTGTATTTTCGCAGTAT	57.439	42.857	3.11	0.00	0.00	2.12
430	456	7.285401	TGGAGAGATTTTTGCTTTGTAGAAACT	59.715	33.333	0.00	0.00	0.00	2.66
534	561	5.888982	ACAACAGGGGAAGGTATATACAG	57.111	43.478	14.70	0.00	0.00	2.74
587	614	4.434725	CGACGAATGAAGATCCAAACACTG	60.435	45.833	0.00	0.00	0.00	3.66
608	635	6.006449	ACTGAATAAATTGTCCAACTCAGCT	58.994	36.000	0.00	0.00	33.86	4.24
613	640	1.024271	TTGTCCAACTCAGCTGCAAC	58.976	50.000	9.47	1.20	0.00	4.17
738	782	0.249398	GCGTCCCACAGAATACCACT	59.751	55.000	0.00	0.00	0.00	4.00
785	829	1.355971	TTAGCGCTGATTTCGTGACC	58.644	50.000	22.90	0.00	0.00	4.02
804	849	1.135803	CCAAAAACTACCACATCGCGG	60.136	52.381	6.13	0.00	0.00	6.46
865	910	3.249189	GGCCCACCTGTCAGGACA	61.249	66.667	26.18	1.70	37.67	4.02
1031	1089	0.969917	TGCTCTCCACTGCTCCTCTC	60.970	60.000	0.00	0.00	0.00	3.20
1107	1171	2.551887	CGAGACCTCTGACGATGATGAT	59.448	50.000	0.00	0.00	0.00	2.45
1164	1228	6.426937	TGGAGTATTTTGTAAGTCAGCTCAAC	59.573	38.462	0.00	0.00	0.00	3.18
1184	1248	2.021441	ACCTCTCCTCTCCTCTCCTCTA	60.021	54.545	0.00	0.00	0.00	2.43
1466	1536	5.255687	AGTTGTCATGGCTGTGATTGATTA	58.744	37.500	0.00	0.00	0.00	1.75
1492	1562	8.436046	TTTTTGTGCTTTTCTGAATAATGCTT	57.564	26.923	0.00	0.00	0.00	3.91
1736	1809	1.896220	TTCAGGATGGTGTGAACTGC	58.104	50.000	0.00	0.00	36.16	4.40
2120	2201	7.392673	AGTCAAGCTGATATCATTCAAAACACT	59.607	33.333	5.72	0.00	0.00	3.55
2154	2235	6.918067	TGAAGGAGATACAAGTTGAGAGAA	57.082	37.500	10.54	0.00	0.00	2.87
2160	2241	6.071051	GGAGATACAAGTTGAGAGAAACCTCT	60.071	42.308	10.54	0.00	43.34	3.69
2446	2551	5.387113	TGTAATGCCCCTGATCTGTAATT	57.613	39.130	0.00	0.00	0.00	1.40
2498	2603	6.215431	CCCCTGAACCATATTATCCAGATGTA	59.785	42.308	0.00	0.00	0.00	2.29
2624	2759	8.389779	TGAAACTGAAACTTGCATTACATAGA	57.610	30.769	0.00	0.00	0.00	1.98
2661	2796	4.194640	ACACATATTGTCTGAGGATGCAC	58.805	43.478	0.00	0.00	29.79	4.57
2748	2891	7.603651	ACACTGAATAAGACTGACGAAACTAT	58.396	34.615	0.00	0.00	0.00	2.12
2804	2947	2.830370	GCGCCTGCCCTGCTAAAT	60.830	61.111	0.00	0.00	33.98	1.40
2868	3011	1.342975	TGGTAGCATCTGCACCTCCTA	60.343	52.381	18.22	3.09	45.16	2.94
2902	3057	2.875102	TGAAGATGATGGGAGGAGGA	57.125	50.000	0.00	0.00	0.00	3.71
2947	3102	1.202568	GGTGCGATGATCTGGATGTCA	60.203	52.381	0.00	0.00	0.00	3.58
3047	3202	4.704833	GCCTCTGCCCAGCGTCAA	62.705	66.667	0.00	0.00	0.00	3.18
3048	3203	2.270205	CCTCTGCCCAGCGTCAAT	59.730	61.111	0.00	0.00	0.00	2.57
3076	3231	2.659428	GCCTCTTTCATTGCCCATAGT	58.341	47.619	0.00	0.00	0.00	2.12
3241	3396	2.281539	TGTAGTCCACGAAGAGGTCA	57.718	50.000	0.00	0.00	39.94	4.02
3297	3453	1.152830	TCCCTTGCCAGTTGGGAAC	59.847	57.895	0.52	0.00	46.06	3.62
3333	3489	1.202582	TCCGAAGAAGAGGAAGAAGCG	59.797	52.381	0.00	0.00	32.86	4.68

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
0	1	2.630580	AGGAGACGAAGAAAAGTGAGCT	59.369	45.455	0.00	0.00	0.00	4.09
1	2	3.033368	AGGAGACGAAGAAAAGTGAGC	57.967	47.619	0.00	0.00	0.00	4.26
2	3	5.293560	AGAAAGGAGACGAAGAAAAGTGAG	58.706	41.667	0.00	0.00	0.00	3.51
3	4	5.277857	AGAAAGGAGACGAAGAAAAGTGA	57.722	39.130	0.00	0.00	0.00	3.41
4	5	5.993106	AAGAAAGGAGACGAAGAAAAGTG	57.007	39.130	0.00	0.00	0.00	3.16
5	6	6.113411	TCAAAGAAAGGAGACGAAGAAAAGT	58.887	36.000	0.00	0.00	0.00	2.66
6	7	6.604735	TCAAAGAAAGGAGACGAAGAAAAG	57.395	37.500	0.00	0.00	0.00	2.27
7	8	6.995511	TTCAAAGAAAGGAGACGAAGAAAA	57.004	33.333	0.00	0.00	0.00	2.29
8	9	6.765989	TGATTCAAAGAAAGGAGACGAAGAAA	59.234	34.615	0.00	0.00	0.00	2.52
9	10	6.288294	TGATTCAAAGAAAGGAGACGAAGAA	58.712	36.000	0.00	0.00	0.00	2.52
10	11	5.853936	TGATTCAAAGAAAGGAGACGAAGA	58.146	37.500	0.00	0.00	0.00	2.87
11	12	6.366630	GTTGATTCAAAGAAAGGAGACGAAG	58.633	40.000	0.00	0.00	0.00	3.79
12	13	5.050363	CGTTGATTCAAAGAAAGGAGACGAA	60.050	40.000	6.49	0.00	0.00	3.85
13	14	4.447724	CGTTGATTCAAAGAAAGGAGACGA	59.552	41.667	6.49	0.00	0.00	4.20
14	15	4.447724	TCGTTGATTCAAAGAAAGGAGACG	59.552	41.667	11.84	3.69	29.90	4.18
15	16	5.924475	TCGTTGATTCAAAGAAAGGAGAC	57.076	39.130	11.84	0.00	29.90	3.36
16	17	6.313905	GCTATCGTTGATTCAAAGAAAGGAGA	59.686	38.462	17.01	0.00	35.75	3.71
17	18	6.457528	GGCTATCGTTGATTCAAAGAAAGGAG	60.458	42.308	17.01	12.89	35.75	3.69
18	19	5.354234	GGCTATCGTTGATTCAAAGAAAGGA	59.646	40.000	17.01	0.44	35.75	3.36
19	20	5.123820	TGGCTATCGTTGATTCAAAGAAAGG	59.876	40.000	17.01	11.54	35.75	3.11
20	21	6.182039	TGGCTATCGTTGATTCAAAGAAAG	57.818	37.500	17.01	7.23	35.75	2.62
21	22	6.374053	TGATGGCTATCGTTGATTCAAAGAAA	59.626	34.615	17.01	0.00	35.75	2.52
22	23	5.879777	TGATGGCTATCGTTGATTCAAAGAA	59.120	36.000	17.01	3.25	35.75	2.52
23	24	5.427378	TGATGGCTATCGTTGATTCAAAGA	58.573	37.500	15.72	15.72	36.45	2.52
24	25	5.739752	TGATGGCTATCGTTGATTCAAAG	57.260	39.130	5.52	3.20	36.04	2.77
25	26	4.035558	GCTGATGGCTATCGTTGATTCAAA	59.964	41.667	5.52	0.00	36.04	2.69
26	27	3.561310	GCTGATGGCTATCGTTGATTCAA	59.439	43.478	5.52	0.00	36.04	2.69
27	28	3.133691	GCTGATGGCTATCGTTGATTCA	58.866	45.455	5.52	0.00	36.04	2.57
28	29	3.802722	GCTGATGGCTATCGTTGATTC	57.197	47.619	5.52	0.00	36.04	2.52
48	49	1.680522	ATAGAGGTCGCTGCCACCAG	61.681	60.000	18.62	0.00	42.13	4.00
49	50	0.396556	TATAGAGGTCGCTGCCACCA	60.397	55.000	18.62	0.00	36.23	4.17
50	51	0.315568	CTATAGAGGTCGCTGCCACC	59.684	60.000	8.50	8.50	0.00	4.61
51	52	0.315568	CCTATAGAGGTCGCTGCCAC	59.684	60.000	0.00	0.00	38.16	5.01
52	53	2.733590	CCTATAGAGGTCGCTGCCA	58.266	57.895	0.00	0.00	38.16	4.92
62	63	2.032620	ACCGTTCTGCCACCTATAGAG	58.967	52.381	0.00	0.00	0.00	2.43
63	64	1.754803	CACCGTTCTGCCACCTATAGA	59.245	52.381	0.00	0.00	0.00	1.98
64	65	1.754803	TCACCGTTCTGCCACCTATAG	59.245	52.381	0.00	0.00	0.00	1.31
65	66	1.479323	GTCACCGTTCTGCCACCTATA	59.521	52.381	0.00	0.00	0.00	1.31
66	67	0.249398	GTCACCGTTCTGCCACCTAT	59.751	55.000	0.00	0.00	0.00	2.57
67	68	1.116536	TGTCACCGTTCTGCCACCTA	61.117	55.000	0.00	0.00	0.00	3.08
68	69	1.768684	ATGTCACCGTTCTGCCACCT	61.769	55.000	0.00	0.00	0.00	4.00
69	70	0.036765	TATGTCACCGTTCTGCCACC	60.037	55.000	0.00	0.00	0.00	4.61
70	71	1.463444	GTTATGTCACCGTTCTGCCAC	59.537	52.381	0.00	0.00	0.00	5.01
71	72	1.609580	GGTTATGTCACCGTTCTGCCA	60.610	52.381	0.00	0.00	0.00	4.92
72	73	1.084289	GGTTATGTCACCGTTCTGCC	58.916	55.000	0.00	0.00	0.00	4.85
80	81	4.312443	TCTGTTTCTTCGGTTATGTCACC	58.688	43.478	0.00	0.00	0.00	4.02
81	82	6.481954	AATCTGTTTCTTCGGTTATGTCAC	57.518	37.500	0.00	0.00	0.00	3.67
82	83	7.504924	AAAATCTGTTTCTTCGGTTATGTCA	57.495	32.000	0.00	0.00	0.00	3.58
83	84	7.326063	CCAAAAATCTGTTTCTTCGGTTATGTC	59.674	37.037	0.00	0.00	0.00	3.06
175	184	2.241722	CATAAGTTTGGCGTGCTTTCG	58.758	47.619	0.00	0.00	0.00	3.46
225	235	9.698309	CAATCTATTTATCTGAACCGACATACT	57.302	33.333	0.00	0.00	0.00	2.12
226	236	9.477484	ACAATCTATTTATCTGAACCGACATAC	57.523	33.333	0.00	0.00	0.00	2.39
409	435	8.084684	GGATCAGTTTCTACAAAGCAAAAATCT	58.915	33.333	0.00	0.00	0.00	2.40
430	456	5.419788	CACAATCCATGGAAAAAGAGGATCA	59.580	40.000	20.67	0.00	38.09	2.92
505	531	2.119484	CTTCCCCTGTTGTACGCCCA	62.119	60.000	0.00	0.00	0.00	5.36
587	614	5.098211	GCAGCTGAGTTGGACAATTTATTC	58.902	41.667	20.43	0.00	0.00	1.75
608	635	4.728409	CTCATGCCCTGAGTTGCA	57.272	55.556	5.45	0.00	45.42	4.08
646	689	0.749049	GACTACCGGTCCATACCCAC	59.251	60.000	12.40	0.00	43.54	4.61
738	782	6.992715	TGGAGTTTTTGGTCAGTTTTCAAAAA	59.007	30.769	8.51	8.51	43.57	1.94
785	829	1.533731	ACCGCGATGTGGTAGTTTTTG	59.466	47.619	8.23	0.00	45.32	2.44
804	849	0.865769	ACGCTTGAAACGGTCATCAC	59.134	50.000	0.00	0.00	35.70	3.06
1031	1089	1.153745	CCGGAGTGCGAGAAGAAGG	60.154	63.158	5.27	0.00	0.00	3.46
1107	1171	2.820197	ACTGAACTCGCTCATGTACTCA	59.180	45.455	0.00	0.00	0.00	3.41
1164	1228	1.522900	AGAGGAGAGGAGAGGAGAGG	58.477	60.000	0.00	0.00	0.00	3.69
1184	1248	3.848377	CAAACCCTAACCCTAACCCTAGT	59.152	47.826	0.00	0.00	0.00	2.57
1466	1536	8.611654	AGCATTATTCAGAAAAGCACAAAAAT	57.388	26.923	0.00	0.00	0.00	1.82
1679	1752	9.852091	ATTTGAAGTGAGCTTTATTCTTCATTC	57.148	29.630	15.22	0.00	42.18	2.67
1710	1783	5.598005	AGTTCACACCATCCTGAAAATTCAA	59.402	36.000	0.00	0.00	36.64	2.69
1736	1809	3.947910	TCTACCCACTCTAAAACACCG	57.052	47.619	0.00	0.00	0.00	4.94
1932	2013	3.096092	GCCCATCCTGGTAATCAAACAA	58.904	45.455	0.00	0.00	35.17	2.83
2120	2201	4.968719	TGTATCTCCTTCATGGCTTTCCTA	59.031	41.667	0.00	0.00	35.26	2.94
2154	2235	9.554395	CTTCTTCTTCTCTTCTTTAAAGAGGTT	57.446	33.333	22.42	0.00	42.97	3.50
2160	2241	7.509546	TCCAGCTTCTTCTTCTCTTCTTTAAA	58.490	34.615	0.00	0.00	0.00	1.52
2199	2280	0.767375	TGACCTGCCTTCAAGAGCTT	59.233	50.000	0.00	0.00	0.00	3.74
2316	2407	8.807118	CATCAGATTCTAGTATTAGGCCAGTTA	58.193	37.037	5.01	0.00	0.00	2.24
2317	2408	7.675062	CATCAGATTCTAGTATTAGGCCAGTT	58.325	38.462	5.01	0.00	0.00	3.16
2522	2627	1.734465	GCAACAACTACCTAGCAGCAG	59.266	52.381	0.00	0.00	0.00	4.24
2624	2759	9.712305	GACAATATGTGTTATCTATGCTACCTT	57.288	33.333	0.00	0.00	41.96	3.50
2768	2911	3.058224	GCGCCTAACTGAAACTGAATGTT	60.058	43.478	0.00	0.00	41.29	2.71
2804	2947	3.755628	GGTACGACGCTCAGGCCA	61.756	66.667	5.01	0.00	34.44	5.36
2947	3102	1.215647	GCACCAAGACGAGGACGAT	59.784	57.895	0.00	0.00	42.66	3.73
3043	3198	2.514824	GAGGCGGGCTCCATTGAC	60.515	66.667	19.99	0.00	0.00	3.18
3047	3202	1.639635	ATGAAAGAGGCGGGCTCCAT	61.640	55.000	25.87	19.01	0.00	3.41
3048	3203	1.852157	AATGAAAGAGGCGGGCTCCA	61.852	55.000	25.87	17.69	0.00	3.86
3297	3453	2.438434	GACCCATGGCTCAACCCG	60.438	66.667	6.09	0.00	37.83	5.28
3358	3514	1.650912	GCTCAACACCACTGCACTG	59.349	57.895	0.00	0.00	0.00	3.66

Based at the University of Bristol with support from BBSRC.

AutoCloner maintained by Alex Coulton.