AutoCloner

Multiple sequence alignment - TraesCS1D01G339400

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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	TraesCS1D01G339400	chr1D	100.000	3466	0	0	1	3466	429490956	429494421	0.000000e+00	6401.0
1	TraesCS1D01G339400	chr1D	90.774	3555	198	57	1	3466	429024154	429027667	0.000000e+00	4628.0
2	TraesCS1D01G339400	chr1B	89.819	2593	187	35	912	3462	580537520	580540077	0.000000e+00	3254.0
3	TraesCS1D01G339400	chr1B	76.710	1374	262	40	999	2359	589225986	589224658	0.000000e+00	712.0
4	TraesCS1D01G339400	chr1B	88.654	520	40	5	1	503	580530617	580531134	1.770000e-172	616.0
5	TraesCS1D01G339400	chr1B	81.218	394	55	12	2583	2966	658751912	658751528	2.020000e-77	300.0
6	TraesCS1D01G339400	chr1B	89.189	222	24	0	1	222	580532719	580532940	9.470000e-71	278.0
7	TraesCS1D01G339400	chr1B	91.489	141	11	1	999	1138	580531985	580532125	3.530000e-45	193.0
8	TraesCS1D01G339400	chr1A	91.674	2246	144	19	295	2510	526756820	526759052	0.000000e+00	3072.0
9	TraesCS1D01G339400	chr1A	84.813	428	52	5	3050	3466	526918915	526919340	5.350000e-113	418.0
10	TraesCS1D01G339400	chr1A	84.211	133	14	4	2569	2701	526763397	526763522	4.700000e-24	122.0
11	TraesCS1D01G339400	chr7B	79.115	1446	259	29	1010	2448	45176949	45175540	0.000000e+00	957.0
12	TraesCS1D01G339400	chr7A	79.577	1229	209	31	1004	2211	94914811	94916018	0.000000e+00	841.0
13	TraesCS1D01G339400	chr5D	72.734	1401	316	54	1019	2384	431970290	431971659	8.950000e-111	411.0
14	TraesCS1D01G339400	chr5A	72.578	1404	313	59	1019	2384	547060457	547061826	9.020000e-106	394.0
15	TraesCS1D01G339400	chr5A	91.379	58	5	0	2578	2635	229519193	229519250	2.870000e-11	80.5
16	TraesCS1D01G339400	chr2A	78.028	578	100	19	1797	2362	722061427	722060865	4.280000e-89	339.0
17	TraesCS1D01G339400	chr2A	94.595	37	1	1	3340	3376	31910112	31910077	4.830000e-04	56.5
18	TraesCS1D01G339400	chr2A	100.000	30	0	0	3347	3376	61509667	61509696	4.830000e-04	56.5
19	TraesCS1D01G339400	chr2A	100.000	29	0	0	455	483	71638866	71638894	2.000000e-03	54.7
20	TraesCS1D01G339400	chrUn	81.218	394	55	14	2583	2966	305223879	305224263	2.020000e-77	300.0
21	TraesCS1D01G339400	chrUn	80.964	394	56	14	2583	2966	305219560	305219944	9.410000e-76	294.0
22	TraesCS1D01G339400	chrUn	97.143	35	1	0	3341	3375	385633025	385633059	3.740000e-05	60.2
23	TraesCS1D01G339400	chrUn	97.143	35	1	0	3341	3375	385690944	385690978	3.740000e-05	60.2
24	TraesCS1D01G339400	chrUn	97.143	35	1	0	3341	3375	468781140	468781174	3.740000e-05	60.2
25	TraesCS1D01G339400	chr3B	75.839	447	84	19	2579	3014	428135552	428135985	4.530000e-49	206.0
26	TraesCS1D01G339400	chr6B	80.297	269	39	12	2585	2849	88733641	88733383	1.270000e-44	191.0
27	TraesCS1D01G339400	chr6A	87.333	150	15	3	2588	2734	517658614	517658466	5.950000e-38	169.0
28	TraesCS1D01G339400	chr2D	75.141	177	38	6	3204	3378	180898898	180898726	1.030000e-10	78.7
29	TraesCS1D01G339400	chr5B	91.111	45	3	1	455	498	642717035	642716991	3.740000e-05	60.2
30	TraesCS1D01G339400	chr5B	86.792	53	6	1	3322	3373	254949818	254949766	1.340000e-04	58.4
31	TraesCS1D01G339400	chr6D	73.077	182	40	9	3204	3381	192060371	192060195	4.830000e-04	56.5
32	TraesCS1D01G339400	chr3A	90.476	42	4	0	458	499	27738818	27738777	4.830000e-04	56.5
33	TraesCS1D01G339400	chr7D	96.875	32	1	0	455	486	27455226	27455257	2.000000e-03	54.7

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	TraesCS1D01G339400	chr1D	429490956	429494421	3465	False	6401.000000	6401	100.000000	1	3466	1	chr1D.!!$F2	3465
1	TraesCS1D01G339400	chr1D	429024154	429027667	3513	False	4628.000000	4628	90.774000	1	3466	1	chr1D.!!$F1	3465
2	TraesCS1D01G339400	chr1B	580537520	580540077	2557	False	3254.000000	3254	89.819000	912	3462	1	chr1B.!!$F1	2550
3	TraesCS1D01G339400	chr1B	589224658	589225986	1328	True	712.000000	712	76.710000	999	2359	1	chr1B.!!$R1	1360
4	TraesCS1D01G339400	chr1B	580530617	580532940	2323	False	362.333333	616	89.777333	1	1138	3	chr1B.!!$F2	1137
5	TraesCS1D01G339400	chr1A	526756820	526759052	2232	False	3072.000000	3072	91.674000	295	2510	1	chr1A.!!$F1	2215
6	TraesCS1D01G339400	chr7B	45175540	45176949	1409	True	957.000000	957	79.115000	1010	2448	1	chr7B.!!$R1	1438
7	TraesCS1D01G339400	chr7A	94914811	94916018	1207	False	841.000000	841	79.577000	1004	2211	1	chr7A.!!$F1	1207
8	TraesCS1D01G339400	chr5D	431970290	431971659	1369	False	411.000000	411	72.734000	1019	2384	1	chr5D.!!$F1	1365
9	TraesCS1D01G339400	chr5A	547060457	547061826	1369	False	394.000000	394	72.578000	1019	2384	1	chr5A.!!$F2	1365
10	TraesCS1D01G339400	chr2A	722060865	722061427	562	True	339.000000	339	78.028000	1797	2362	1	chr2A.!!$R2	565
11	TraesCS1D01G339400	chrUn	305219560	305224263	4703	False	297.000000	300	81.091000	2583	2966	2	chrUn.!!$F4	383

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
852	1459	1.266842	TCGTTATCGTCGTTCCGTACG	60.267	52.381	8.69	8.69	42.67	3.67	F

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability	Orientation
2567	3298	0.036164	AAGCGCCACACTCCAATGTA	59.964	50.0	2.29	0.0	0.0	2.29	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
312	329	3.464111	ACGATGATGATGATCAGCACA	57.536	42.857	17.26	16.02	46.19	4.57
326	343	5.422012	TGATCAGCACATAGACAGTCCTTTA	59.578	40.000	0.00	0.00	0.00	1.85
424	442	6.899393	ACATGAACTCTAGGAAAATGCAAA	57.101	33.333	0.00	0.00	0.00	3.68
460	488	6.410540	AGTCCAAGACTTGAATCAGGAATAC	58.589	40.000	16.99	0.00	40.28	1.89
489	517	6.775142	TGTCCTTCTAACCATTCAATCAAACA	59.225	34.615	0.00	0.00	0.00	2.83
595	1192	4.821260	CCGATGATGACATTATGGTGGAAA	59.179	41.667	0.00	0.00	36.82	3.13
648	1246	6.414732	ACCTGATTAAATCGGTGATGAAGAA	58.585	36.000	0.00	0.00	35.76	2.52
674	1278	7.341769	AGCAAACCTACCAATGCTAATGATAAA	59.658	33.333	0.00	0.00	46.61	1.40
745	1349	5.119743	CCAACGCTAGTGATGATGTATGATG	59.880	44.000	14.53	0.00	0.00	3.07
752	1359	8.602328	GCTAGTGATGATGTATGATGCTATTTC	58.398	37.037	0.00	0.00	0.00	2.17
822	1429	4.973663	CACCGTTATTCAAGTTTCCAACAC	59.026	41.667	0.00	0.00	0.00	3.32
827	1434	2.404923	TCAAGTTTCCAACACGGACA	57.595	45.000	0.00	0.00	46.36	4.02
852	1459	1.266842	TCGTTATCGTCGTTCCGTACG	60.267	52.381	8.69	8.69	42.67	3.67
895	1502	6.163135	AGCGTAATGGCTATAAGAAAGACT	57.837	37.500	0.00	0.00	42.62	3.24
1080	1703	3.785859	CAGGCCGGGAAGCAGCTA	61.786	66.667	2.18	0.00	0.00	3.32
1264	1893	2.107141	CGGGCATCGAGGAGTTCC	59.893	66.667	0.00	0.00	42.43	3.62
1389	2018	4.719369	GACGTGTCCGGCGAGCTT	62.719	66.667	9.30	0.00	38.78	3.74
1412	2041	1.086696	GTGCCGTCCTACGTGTACTA	58.913	55.000	0.00	0.00	40.58	1.82
1782	2436	3.535962	GAGGAGGAGGAGCAGCCG	61.536	72.222	0.00	0.00	43.43	5.52
1785	2439	4.828925	GAGGAGGAGCAGCCGCAC	62.829	72.222	0.00	0.00	43.43	5.34
1788	2442	4.521062	GAGGAGCAGCCGCACGAT	62.521	66.667	0.00	0.00	43.43	3.73
1789	2443	4.827087	AGGAGCAGCCGCACGATG	62.827	66.667	0.00	0.00	43.43	3.84
1939	2593	1.462238	ACTTCCTGTGGGTGCTCCT	60.462	57.895	4.53	0.00	36.20	3.69
2026	2695	2.037367	GGAGGGTTTCTTGGGGGC	59.963	66.667	0.00	0.00	0.00	5.80
2302	3020	4.070552	GGAGCGAGCGGTGAGGTT	62.071	66.667	0.00	0.00	0.00	3.50
2389	3113	1.369091	CGCAAGGCAGTGGACCATAC	61.369	60.000	0.00	0.00	0.00	2.39
2409	3133	2.261671	GGTCCTCTTGCGCTTCGA	59.738	61.111	9.73	0.93	0.00	3.71
2422	3146	1.363744	GCTTCGATGAGGAGGTTGTG	58.636	55.000	1.89	0.00	0.00	3.33
2432	3156	3.245622	TGAGGAGGTTGTGTGAGGATCTA	60.246	47.826	0.00	0.00	34.92	1.98
2515	3245	7.781548	AACGTGTGATGTTTCTTTTACTACT	57.218	32.000	0.00	0.00	0.00	2.57
2549	3280	1.021202	CCGCGGGCAAATAATCTTGA	58.979	50.000	20.10	0.00	0.00	3.02
2550	3281	1.002468	CCGCGGGCAAATAATCTTGAG	60.002	52.381	20.10	0.00	0.00	3.02
2552	3283	2.539547	CGCGGGCAAATAATCTTGAGTG	60.540	50.000	0.00	0.00	0.00	3.51
2554	3285	3.128589	GCGGGCAAATAATCTTGAGTGAA	59.871	43.478	0.00	0.00	0.00	3.18
2555	3286	4.731773	GCGGGCAAATAATCTTGAGTGAAG	60.732	45.833	0.00	0.00	0.00	3.02
2556	3287	4.676546	GGGCAAATAATCTTGAGTGAAGC	58.323	43.478	0.00	0.00	0.00	3.86
2557	3288	4.400567	GGGCAAATAATCTTGAGTGAAGCT	59.599	41.667	0.00	0.00	0.00	3.74
2558	3289	5.449725	GGGCAAATAATCTTGAGTGAAGCTC	60.450	44.000	0.00	0.00	44.36	4.09
2613	3344	1.704641	GGGCCCTTCTCAAACTTGTT	58.295	50.000	17.04	0.00	0.00	2.83
2634	3365	3.723260	TCACGAGATGCAACAACACTAA	58.277	40.909	0.00	0.00	0.00	2.24
2672	3404	4.617995	CGTCCAGGATCATCTCTTCTATGC	60.618	50.000	0.00	0.00	0.00	3.14
2693	3425	1.202256	CCGAATCATCCGACGAAGACA	60.202	52.381	0.00	0.00	0.00	3.41
2701	3439	1.058590	CCGACGAAGACAACGACGAG	61.059	60.000	0.00	0.00	46.85	4.18
2734	3479	1.300542	AAAAATTGCACGCCCGTGG	60.301	52.632	20.67	4.74	45.49	4.94
2800	3551	3.450457	GGCATTGAACATACATTTCCCCA	59.550	43.478	0.00	0.00	0.00	4.96
2801	3552	4.441913	GGCATTGAACATACATTTCCCCAG	60.442	45.833	0.00	0.00	0.00	4.45
2832	3583	1.268283	CCGCCCCTTTCTTCTCTCCT	61.268	60.000	0.00	0.00	0.00	3.69
2834	3585	0.254462	GCCCCTTTCTTCTCTCCTGG	59.746	60.000	0.00	0.00	0.00	4.45
2851	3602	4.766088	GCGGCCGAAGCAAAGCAG	62.766	66.667	33.48	0.00	42.56	4.24
2968	3720	2.903547	CGGCACCGGAAACAACTGG	61.904	63.158	9.46	0.00	41.66	4.00
2976	3728	1.881925	CGGAAACAACTGGATCTGCCA	60.882	52.381	0.00	0.00	46.96	4.92
3014	3767	2.031768	GCTCCAGGCGGATCCATC	59.968	66.667	13.41	2.66	41.79	3.51
3046	3842	2.579787	CGCTAGCCCACGAAGACG	60.580	66.667	9.66	0.00	45.75	4.18
3068	3864	4.179579	GAGGCGGCGCAAATGGAC	62.180	66.667	34.36	14.27	0.00	4.02
3111	3907	1.768870	CAAGAACCGGTGGGGAGATAT	59.231	52.381	8.52	0.00	39.97	1.63
3120	3916	0.695462	TGGGGAGATATGGCTGCAGT	60.695	55.000	16.64	0.00	0.00	4.40
3121	3917	1.352083	GGGGAGATATGGCTGCAGTA	58.648	55.000	16.64	5.36	0.00	2.74
3251	4047	4.708177	AGACTATGCAAGATACCGCAAAT	58.292	39.130	0.00	0.00	42.37	2.32
3278	4074	7.889873	AAATTATGGGATGACCGATTTTACA	57.110	32.000	0.00	0.00	44.64	2.41
3285	4081	4.752101	GGATGACCGATTTTACAGGATCTG	59.248	45.833	0.00	0.00	37.52	2.90
3294	4090	0.325296	TACAGGATCTGTTCGGGGCT	60.325	55.000	5.86	0.00	42.59	5.19
3296	4092	2.190578	GGATCTGTTCGGGGCTGG	59.809	66.667	0.00	0.00	0.00	4.85
3301	4097	0.183971	TCTGTTCGGGGCTGGAAAAA	59.816	50.000	0.00	0.00	0.00	1.94
3320	4116	1.154016	CGCCCTCGTCCGCTATATG	60.154	63.158	0.00	0.00	0.00	1.78
3325	4121	0.109086	CTCGTCCGCTATATGGGCAG	60.109	60.000	3.97	0.00	0.00	4.85
3429	7085	5.125417	ACATATGTTGATGTTAACCTGGCAC	59.875	40.000	1.41	0.00	36.64	5.01
3440	7096	1.830279	ACCTGGCACATGTCAATCTG	58.170	50.000	0.00	0.00	38.20	2.90
3443	7099	1.307355	TGGCACATGTCAATCTGGCG	61.307	55.000	0.00	0.00	32.00	5.69
3462	7118	1.739466	CGCCATGTAGCAATGTCTTGT	59.261	47.619	0.00	0.00	34.69	3.16

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
47	48	8.677148	ATAGTTGTGTAGGCGAAAAATCATAT	57.323	30.769	0.00	0.00	0.00	1.78
238	239	7.324375	CGCCGATCGTACTAAAATTGTAATAGA	59.676	37.037	15.09	0.00	0.00	1.98
248	249	1.745087	ACCTCGCCGATCGTACTAAAA	59.255	47.619	15.09	0.00	39.67	1.52
264	266	2.973694	TTGTAATCGGCACCTACCTC	57.026	50.000	0.00	0.00	0.00	3.85
312	329	6.923670	TGTAGGGATCTAAAGGACTGTCTAT	58.076	40.000	7.85	0.00	0.00	1.98
451	469	3.791320	AGAAGGACAGTGGTATTCCTGA	58.209	45.455	0.99	0.00	39.83	3.86
452	480	5.420409	GTTAGAAGGACAGTGGTATTCCTG	58.580	45.833	0.99	0.00	39.83	3.86
460	488	4.286297	TGAATGGTTAGAAGGACAGTGG	57.714	45.455	0.00	0.00	0.00	4.00
496	524	7.883391	AGTTATAGACTTAGCTTGTAGAGCA	57.117	36.000	0.00	0.00	44.87	4.26
537	1132	6.554605	CCCATTAATTCCACCCATAAAGATGT	59.445	38.462	0.00	0.00	0.00	3.06
547	1142	2.858787	TTCCCCCATTAATTCCACCC	57.141	50.000	0.00	0.00	0.00	4.61
579	1174	4.894705	CCCATGATTTCCACCATAATGTCA	59.105	41.667	0.00	0.00	0.00	3.58
595	1192	2.576191	TCGGGTCTTTTTCTCCCATGAT	59.424	45.455	0.00	0.00	41.12	2.45
648	1246	4.599041	TCATTAGCATTGGTAGGTTTGCT	58.401	39.130	1.61	1.61	46.51	3.91
674	1278	3.496130	CGTCCACGTACGTCCTATTCTAT	59.504	47.826	19.94	0.00	38.07	1.98
717	1321	3.699538	ACATCATCACTAGCGTTGGTAGA	59.300	43.478	9.77	0.00	37.13	2.59
745	1349	7.159437	CATATATGCTAGCGACAGAAATAGC	57.841	40.000	10.77	0.00	40.81	2.97
822	1429	1.844357	GACGATAACGATGTGTGTCCG	59.156	52.381	0.00	0.00	42.66	4.79
827	1434	2.523015	GGAACGACGATAACGATGTGT	58.477	47.619	0.00	0.00	42.66	3.72
874	1481	9.182933	GAGTTAGTCTTTCTTATAGCCATTACG	57.817	37.037	0.00	0.00	0.00	3.18
895	1502	3.184382	TGAGTGAGACCCCATGAGTTA	57.816	47.619	0.00	0.00	0.00	2.24
949	1556	8.603242	TCTGTCACTACTTATTGTCTTTTTCC	57.397	34.615	0.00	0.00	0.00	3.13
957	1564	6.761099	ACTCGATCTGTCACTACTTATTGT	57.239	37.500	0.00	0.00	0.00	2.71
960	1567	5.470777	GGCTACTCGATCTGTCACTACTTAT	59.529	44.000	0.00	0.00	0.00	1.73
963	1578	3.207778	GGCTACTCGATCTGTCACTACT	58.792	50.000	0.00	0.00	0.00	2.57
964	1579	2.943690	TGGCTACTCGATCTGTCACTAC	59.056	50.000	0.00	0.00	0.00	2.73
968	1583	0.741326	GCTGGCTACTCGATCTGTCA	59.259	55.000	0.00	0.00	0.00	3.58
1921	2575	1.062488	AAGGAGCACCCACAGGAAGT	61.062	55.000	0.00	0.00	37.41	3.01
2026	2695	1.443802	GAGCCCTCTTTCCTTTGTCG	58.556	55.000	0.00	0.00	0.00	4.35
2389	3113	1.743252	GAAGCGCAAGAGGACCCAG	60.743	63.158	11.47	0.00	43.02	4.45
2409	3133	2.030027	TCCTCACACAACCTCCTCAT	57.970	50.000	0.00	0.00	0.00	2.90
2422	3146	2.500229	CTCCTCCGAGTAGATCCTCAC	58.500	57.143	0.00	0.00	0.00	3.51
2432	3156	4.680537	ACCACCGCTCCTCCGAGT	62.681	66.667	0.00	0.00	38.49	4.18
2531	3262	1.670811	ACTCAAGATTATTTGCCCGCG	59.329	47.619	0.00	0.00	0.00	6.46
2549	3280	7.177216	TCCAATGTATTGAAATTGAGCTTCACT	59.823	33.333	6.18	0.00	40.14	3.41
2550	3281	7.315142	TCCAATGTATTGAAATTGAGCTTCAC	58.685	34.615	6.18	0.00	40.14	3.18
2552	3283	7.487189	CACTCCAATGTATTGAAATTGAGCTTC	59.513	37.037	6.18	0.00	40.14	3.86
2554	3285	6.435277	ACACTCCAATGTATTGAAATTGAGCT	59.565	34.615	6.18	0.00	40.14	4.09
2555	3286	6.529125	CACACTCCAATGTATTGAAATTGAGC	59.471	38.462	6.18	0.00	40.14	4.26
2556	3287	7.031372	CCACACTCCAATGTATTGAAATTGAG	58.969	38.462	6.18	6.30	40.14	3.02
2557	3288	6.572119	GCCACACTCCAATGTATTGAAATTGA	60.572	38.462	6.18	0.00	40.14	2.57
2558	3289	5.577945	GCCACACTCCAATGTATTGAAATTG	59.422	40.000	6.18	2.25	40.14	2.32
2560	3291	4.142403	CGCCACACTCCAATGTATTGAAAT	60.142	41.667	6.18	0.00	40.14	2.17
2561	3292	3.190327	CGCCACACTCCAATGTATTGAAA	59.810	43.478	6.18	0.00	40.14	2.69
2562	3293	2.746904	CGCCACACTCCAATGTATTGAA	59.253	45.455	6.18	0.00	40.14	2.69
2563	3294	2.355197	CGCCACACTCCAATGTATTGA	58.645	47.619	6.18	0.00	40.14	2.57
2564	3295	1.202177	GCGCCACACTCCAATGTATTG	60.202	52.381	0.00	0.00	37.52	1.90
2565	3296	1.094785	GCGCCACACTCCAATGTATT	58.905	50.000	0.00	0.00	0.00	1.89
2566	3297	0.253044	AGCGCCACACTCCAATGTAT	59.747	50.000	2.29	0.00	0.00	2.29
2567	3298	0.036164	AAGCGCCACACTCCAATGTA	59.964	50.000	2.29	0.00	0.00	2.29
2568	3299	0.823356	AAAGCGCCACACTCCAATGT	60.823	50.000	2.29	0.00	0.00	2.71
2569	3300	0.314935	AAAAGCGCCACACTCCAATG	59.685	50.000	2.29	0.00	0.00	2.82
2570	3301	1.000274	GAAAAAGCGCCACACTCCAAT	60.000	47.619	2.29	0.00	0.00	3.16
2571	3302	0.383949	GAAAAAGCGCCACACTCCAA	59.616	50.000	2.29	0.00	0.00	3.53
2613	3344	2.238942	AGTGTTGTTGCATCTCGTGA	57.761	45.000	0.00	0.00	0.00	4.35
2647	3379	3.843422	AGAAGAGATGATCCTGGACGAT	58.157	45.455	0.00	0.00	0.00	3.73
2672	3404	0.384309	TCTTCGTCGGATGATTCGGG	59.616	55.000	0.00	0.00	0.00	5.14
2693	3425	0.537188	ATGGATTGGAGCTCGTCGTT	59.463	50.000	7.83	0.00	0.00	3.85
2734	3479	2.675317	CGACCTGTGAGATTTGGGAGAC	60.675	54.545	0.00	0.00	0.00	3.36
2741	3489	6.402550	CGATTCAATTTCGACCTGTGAGATTT	60.403	38.462	0.00	0.00	38.88	2.17
2834	3585	4.766088	CTGCTTTGCTTCGGCCGC	62.766	66.667	23.51	7.33	40.91	6.53
2851	3602	2.891580	GGGAGAAGAAAAGGGGTTTGTC	59.108	50.000	0.00	0.00	0.00	3.18
2922	3674	2.582436	GAATCGCCCGAGGGACAA	59.418	61.111	13.28	0.00	37.85	3.18
2966	3718	0.543277	CCTTGTAGCTGGCAGATCCA	59.457	55.000	20.86	6.23	44.18	3.41
3081	3877	2.520968	GGTTCTTGGTGCCCCTGT	59.479	61.111	0.00	0.00	0.00	4.00
3083	3879	3.966543	CCGGTTCTTGGTGCCCCT	61.967	66.667	0.00	0.00	0.00	4.79
3147	3943	1.003355	CGAAGGCCCTTTCTGCTCA	60.003	57.895	0.00	0.00	0.00	4.26
3148	3944	2.402572	GCGAAGGCCCTTTCTGCTC	61.403	63.158	0.00	0.00	0.00	4.26
3149	3945	2.360475	GCGAAGGCCCTTTCTGCT	60.360	61.111	0.00	0.00	0.00	4.24
3278	4074	2.370445	CCAGCCCCGAACAGATCCT	61.370	63.158	0.00	0.00	0.00	3.24
3285	4081	1.284715	CGTTTTTCCAGCCCCGAAC	59.715	57.895	0.00	0.00	0.00	3.95
3320	4116	4.021981	GGCCATCTGAAATAATAACTGCCC	60.022	45.833	0.00	0.00	0.00	5.36
3325	4121	5.767816	AACGGGCCATCTGAAATAATAAC	57.232	39.130	4.39	0.00	0.00	1.89
3396	7043	8.677300	GTTAACATCAACATATGTCAACCAGAT	58.323	33.333	9.23	3.87	39.16	2.90
3412	7059	3.495331	ACATGTGCCAGGTTAACATCAA	58.505	40.909	8.10	0.00	32.27	2.57
3429	7085	0.030235	CATGGCGCCAGATTGACATG	59.970	55.000	35.36	21.13	0.00	3.21
3440	7096	1.097547	AGACATTGCTACATGGCGCC	61.098	55.000	22.73	22.73	34.52	6.53
3443	7099	2.733227	GCACAAGACATTGCTACATGGC	60.733	50.000	0.00	0.00	40.27	4.40

Based at the University of Bristol with support from BBSRC.

AutoCloner maintained by Alex Coulton.