AutoCloner

Multiple sequence alignment - TraesCS1A01G019300

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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	TraesCS1A01G019300	chr1A	100.000	3255	0	0	1	3255	9662418	9665672	0.000000e+00	6011
1	TraesCS1A01G019300	chr4B	97.566	2383	50	3	13	2391	664113355	664115733	0.000000e+00	4072
2	TraesCS1A01G019300	chr4B	97.205	2397	61	3	1	2393	664138271	664140665	0.000000e+00	4050
3	TraesCS1A01G019300	chr6B	97.330	2397	55	3	1	2393	70703172	70705563	0.000000e+00	4063
4	TraesCS1A01G019300	chr6B	95.813	406	16	1	2851	3255	70706008	70706413	0.000000e+00	654
5	TraesCS1A01G019300	chrUn	97.247	2397	56	4	1	2393	194097416	194099806	0.000000e+00	4052
6	TraesCS1A01G019300	chrUn	97.046	914	25	1	2344	3255	273110849	273109936	0.000000e+00	1537
7	TraesCS1A01G019300	chr4A	97.281	2391	57	3	7	2393	701547924	701545538	0.000000e+00	4048
8	TraesCS1A01G019300	chr4A	98.043	511	10	0	2344	2854	701545635	701545125	0.000000e+00	889
9	TraesCS1A01G019300	chr4A	98.043	511	10	0	2344	2854	734634788	734635298	0.000000e+00	889
10	TraesCS1A01G019300	chr5B	97.118	2394	61	3	4	2393	127791147	127788758	0.000000e+00	4032
11	TraesCS1A01G019300	chr5B	97.038	2397	62	4	1	2393	708888183	708890574	0.000000e+00	4024
12	TraesCS1A01G019300	chr5B	98.239	511	9	0	2344	2854	127788855	127788345	0.000000e+00	894
13	TraesCS1A01G019300	chr5B	98.043	511	10	0	2344	2854	708890477	708890987	0.000000e+00	889
14	TraesCS1A01G019300	chr5B	95.588	408	15	2	2851	3255	688509743	688509336	0.000000e+00	651
15	TraesCS1A01G019300	chr5B	95.567	406	17	1	2851	3255	689156609	689157014	0.000000e+00	649
16	TraesCS1A01G019300	chr1B	97.076	2394	59	4	4	2393	560204023	560201637	0.000000e+00	4023
17	TraesCS1A01G019300	chr6A	96.918	2401	64	5	1	2393	575506502	575508900	0.000000e+00	4015
18	TraesCS1A01G019300	chr6A	96.078	2397	78	6	4	2393	18793086	18790699	0.000000e+00	3892
19	TraesCS1A01G019300	chr6A	94.826	889	37	6	2370	3255	29904690	29903808	0.000000e+00	1378
20	TraesCS1A01G019300	chr2A	98.630	511	7	0	2344	2854	32428671	32428161	0.000000e+00	905
21	TraesCS1A01G019300	chr2A	98.047	512	9	1	2344	2854	3026364	3025853	0.000000e+00	889
22	TraesCS1A01G019300	chr2A	95.823	407	15	1	2851	3255	765307440	765307846	0.000000e+00	656
23	TraesCS1A01G019300	chr2A	95.577	407	16	1	2851	3255	3025821	3025415	0.000000e+00	651
24	TraesCS1A01G019300	chr2A	95.086	407	18	2	2851	3255	772276733	772277139	9.850000e-180	640
25	TraesCS1A01G019300	chr3B	98.043	511	10	0	2344	2854	766121380	766120870	0.000000e+00	889
26	TraesCS1A01G019300	chr5A	96.069	407	13	2	2851	3255	550545979	550546384	0.000000e+00	660

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	TraesCS1A01G019300	chr1A	9662418	9665672	3254	False	6011.0	6011	100.0000	1	3255	1	chr1A.!!$F1	3254
1	TraesCS1A01G019300	chr4B	664113355	664115733	2378	False	4072.0	4072	97.5660	13	2391	1	chr4B.!!$F1	2378
2	TraesCS1A01G019300	chr4B	664138271	664140665	2394	False	4050.0	4050	97.2050	1	2393	1	chr4B.!!$F2	2392
3	TraesCS1A01G019300	chr6B	70703172	70706413	3241	False	2358.5	4063	96.5715	1	3255	2	chr6B.!!$F1	3254
4	TraesCS1A01G019300	chrUn	194097416	194099806	2390	False	4052.0	4052	97.2470	1	2393	1	chrUn.!!$F1	2392
5	TraesCS1A01G019300	chrUn	273109936	273110849	913	True	1537.0	1537	97.0460	2344	3255	1	chrUn.!!$R1	911
6	TraesCS1A01G019300	chr4A	701545125	701547924	2799	True	2468.5	4048	97.6620	7	2854	2	chr4A.!!$R1	2847
7	TraesCS1A01G019300	chr4A	734634788	734635298	510	False	889.0	889	98.0430	2344	2854	1	chr4A.!!$F1	510
8	TraesCS1A01G019300	chr5B	127788345	127791147	2802	True	2463.0	4032	97.6785	4	2854	2	chr5B.!!$R2	2850
9	TraesCS1A01G019300	chr5B	708888183	708890987	2804	False	2456.5	4024	97.5405	1	2854	2	chr5B.!!$F2	2853
10	TraesCS1A01G019300	chr1B	560201637	560204023	2386	True	4023.0	4023	97.0760	4	2393	1	chr1B.!!$R1	2389
11	TraesCS1A01G019300	chr6A	575506502	575508900	2398	False	4015.0	4015	96.9180	1	2393	1	chr6A.!!$F1	2392
12	TraesCS1A01G019300	chr6A	18790699	18793086	2387	True	3892.0	3892	96.0780	4	2393	1	chr6A.!!$R1	2389
13	TraesCS1A01G019300	chr6A	29903808	29904690	882	True	1378.0	1378	94.8260	2370	3255	1	chr6A.!!$R2	885
14	TraesCS1A01G019300	chr2A	32428161	32428671	510	True	905.0	905	98.6300	2344	2854	1	chr2A.!!$R1	510
15	TraesCS1A01G019300	chr2A	3025415	3026364	949	True	770.0	889	96.8120	2344	3255	2	chr2A.!!$R2	911
16	TraesCS1A01G019300	chr3B	766120870	766121380	510	True	889.0	889	98.0430	2344	2854	1	chr3B.!!$R1	510

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
975	989	0.690744	TGGCGGAGGAATCATGGAGA	60.691	55.0	0.00	0.00	0.0	3.71	F
1256	1273	0.102481	ATGTTTCCTCGGTCGATCGG	59.898	55.0	19.53	8.91	0.0	4.18	F

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability	Orientation
2198	2224	1.192146	TCCGCCTCTTGCCAGTACTT	61.192	55.0	0.0	0.0	36.24	2.24	R
3084	3148	1.410004	CACCTATTCCCCTCGCACTA	58.590	55.0	0.0	0.0	0.00	2.74	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
510	513	6.938542	AGAAGAAATAAAGAACGATCGATGC	58.061	36.000	24.34	10.20	0.00	3.91
599	608	4.875536	AGTGACTTTTTGGTGCCATTTTTC	59.124	37.500	0.00	0.00	0.00	2.29
794	808	1.000019	CCACGACTCCCCTCCACTA	60.000	63.158	0.00	0.00	0.00	2.74
975	989	0.690744	TGGCGGAGGAATCATGGAGA	60.691	55.000	0.00	0.00	0.00	3.71
991	1005	1.341778	GGAGAAACTCCCCTCCGTCTA	60.342	57.143	6.54	0.00	44.36	2.59
1093	1107	1.584495	CTGGTGGTCGACGATGACA	59.416	57.895	9.92	5.99	40.72	3.58
1129	1143	0.601558	GAAGCAGGACTACACCGTGA	59.398	55.000	5.28	0.00	34.73	4.35
1130	1144	1.000506	GAAGCAGGACTACACCGTGAA	59.999	52.381	5.28	0.00	34.73	3.18
1243	1260	4.179579	GGCTCGGCGGCATGTTTC	62.180	66.667	19.19	0.74	38.25	2.78
1256	1273	0.102481	ATGTTTCCTCGGTCGATCGG	59.898	55.000	19.53	8.91	0.00	4.18
1289	1306	4.275196	CGAGTATACGAGGGAAGATGAACA	59.725	45.833	0.00	0.00	35.09	3.18
1424	1442	9.403110	GTTCTGACGTTTCTGTCTAATTAGTAA	57.597	33.333	12.19	1.65	39.64	2.24
1750	1776	6.946340	TGAAGTTCTGGAGTAGATGCAATAA	58.054	36.000	4.17	0.00	34.80	1.40
1756	1782	9.331282	GTTCTGGAGTAGATGCAATAATAGTTT	57.669	33.333	0.00	0.00	34.80	2.66
1837	1863	3.640029	CCAGATTAATTTGATGCAGGCCT	59.360	43.478	0.00	0.00	0.00	5.19
1873	1899	0.901124	TCCTGCAGGAGAAGAAGCTC	59.099	55.000	32.00	0.00	39.78	4.09
2096	2122	4.044065	AGGAATTGGACCACAAACTATGGA	59.956	41.667	0.00	0.00	43.46	3.41
2179	2205	2.874701	CGAGGCATGGAAGAAAATCGAT	59.125	45.455	0.00	0.00	0.00	3.59
2198	2224	5.716094	TCGATATCGTCAAAGAAGGTTTGA	58.284	37.500	23.61	0.00	40.80	2.69
2279	2305	6.147164	AGTTGTTTGTGGTATTATGTGTCTCG	59.853	38.462	0.00	0.00	0.00	4.04
2324	2350	5.750067	ACAAGTTTGCTTTTGTAATGCTGAG	59.250	36.000	0.00	0.00	35.86	3.35
2326	2352	4.050553	GTTTGCTTTTGTAATGCTGAGCA	58.949	39.130	10.59	10.59	44.86	4.26
2327	2353	4.319139	TTGCTTTTGTAATGCTGAGCAA	57.681	36.364	12.69	4.64	43.62	3.91
2328	2354	3.904571	TGCTTTTGTAATGCTGAGCAAG	58.095	40.909	12.69	3.09	43.62	4.01
2329	2355	3.318839	TGCTTTTGTAATGCTGAGCAAGT	59.681	39.130	12.69	5.09	43.62	3.16
2330	2356	4.202141	TGCTTTTGTAATGCTGAGCAAGTT	60.202	37.500	12.69	4.65	43.62	2.66
2331	2357	5.009510	TGCTTTTGTAATGCTGAGCAAGTTA	59.990	36.000	12.69	3.49	43.62	2.24
2332	2358	5.570589	GCTTTTGTAATGCTGAGCAAGTTAG	59.429	40.000	12.69	4.19	43.62	2.34
2333	2359	4.685169	TTGTAATGCTGAGCAAGTTAGC	57.315	40.909	12.69	2.84	43.62	3.09
2335	2361	4.326826	TGTAATGCTGAGCAAGTTAGCTT	58.673	39.130	12.69	1.28	46.75	3.74
2336	2362	4.761739	TGTAATGCTGAGCAAGTTAGCTTT	59.238	37.500	12.69	0.45	46.75	3.51
2337	2363	4.861102	AATGCTGAGCAAGTTAGCTTTT	57.139	36.364	12.69	0.00	46.75	2.27
2338	2364	3.631145	TGCTGAGCAAGTTAGCTTTTG	57.369	42.857	3.81	0.00	46.75	2.44
2339	2365	2.951642	TGCTGAGCAAGTTAGCTTTTGT	59.048	40.909	3.81	0.00	46.75	2.83
2340	2366	3.381272	TGCTGAGCAAGTTAGCTTTTGTT	59.619	39.130	3.81	0.00	46.75	2.83
2341	2367	4.578516	TGCTGAGCAAGTTAGCTTTTGTTA	59.421	37.500	3.81	0.00	46.75	2.41
2342	2368	5.241506	TGCTGAGCAAGTTAGCTTTTGTTAT	59.758	36.000	3.81	0.00	46.75	1.89
2343	2369	5.570589	GCTGAGCAAGTTAGCTTTTGTTATG	59.429	40.000	0.00	0.00	46.75	1.90
2344	2370	6.633500	TGAGCAAGTTAGCTTTTGTTATGT	57.367	33.333	0.00	0.00	46.75	2.29
2345	2371	7.038154	TGAGCAAGTTAGCTTTTGTTATGTT	57.962	32.000	0.00	0.00	46.75	2.71
2346	2372	6.917477	TGAGCAAGTTAGCTTTTGTTATGTTG	59.083	34.615	0.00	0.00	46.75	3.33
2347	2373	7.038154	AGCAAGTTAGCTTTTGTTATGTTGA	57.962	32.000	0.00	0.00	43.70	3.18
2348	2374	7.488322	AGCAAGTTAGCTTTTGTTATGTTGAA	58.512	30.769	0.00	0.00	43.70	2.69
2349	2375	7.435192	AGCAAGTTAGCTTTTGTTATGTTGAAC	59.565	33.333	0.00	0.00	43.70	3.18
2350	2376	7.221838	GCAAGTTAGCTTTTGTTATGTTGAACA	59.778	33.333	0.00	0.00	33.46	3.18
2351	2377	9.081997	CAAGTTAGCTTTTGTTATGTTGAACAA	57.918	29.630	0.62	0.00	45.29	2.83
2352	2378	8.856490	AGTTAGCTTTTGTTATGTTGAACAAG	57.144	30.769	0.62	0.00	46.88	3.16
2353	2379	8.466798	AGTTAGCTTTTGTTATGTTGAACAAGT	58.533	29.630	0.62	0.00	46.88	3.16
2354	2380	9.083080	GTTAGCTTTTGTTATGTTGAACAAGTT	57.917	29.630	0.62	0.00	46.88	2.66
2355	2381	9.646427	TTAGCTTTTGTTATGTTGAACAAGTTT	57.354	25.926	0.62	0.00	46.88	2.66
2356	2382	7.962917	AGCTTTTGTTATGTTGAACAAGTTTG	58.037	30.769	0.62	0.00	46.88	2.93
2357	2383	6.682441	GCTTTTGTTATGTTGAACAAGTTTGC	59.318	34.615	0.62	0.00	46.88	3.68
2358	2384	7.412891	GCTTTTGTTATGTTGAACAAGTTTGCT	60.413	33.333	0.62	0.00	46.88	3.91
2359	2385	7.897575	TTTGTTATGTTGAACAAGTTTGCTT	57.102	28.000	0.62	0.00	46.88	3.91
2360	2386	7.897575	TTGTTATGTTGAACAAGTTTGCTTT	57.102	28.000	0.62	0.00	42.84	3.51
2361	2387	7.897575	TGTTATGTTGAACAAGTTTGCTTTT	57.102	28.000	0.62	0.00	36.39	2.27
2362	2388	7.737395	TGTTATGTTGAACAAGTTTGCTTTTG	58.263	30.769	0.62	0.00	36.39	2.44
2363	2389	7.386299	TGTTATGTTGAACAAGTTTGCTTTTGT	59.614	29.630	0.62	0.00	39.08	2.83
2364	2390	8.865001	GTTATGTTGAACAAGTTTGCTTTTGTA	58.135	29.630	0.62	0.00	36.56	2.41
2365	2391	7.897575	ATGTTGAACAAGTTTGCTTTTGTAA	57.102	28.000	0.62	0.00	36.56	2.41
2366	2392	7.897575	TGTTGAACAAGTTTGCTTTTGTAAT	57.102	28.000	0.00	0.00	36.56	1.89
2367	2393	7.737395	TGTTGAACAAGTTTGCTTTTGTAATG	58.263	30.769	0.00	0.00	36.56	1.90
2368	2394	6.343226	TGAACAAGTTTGCTTTTGTAATGC	57.657	33.333	0.00	0.00	36.56	3.56
2369	2395	6.105333	TGAACAAGTTTGCTTTTGTAATGCT	58.895	32.000	0.00	0.00	36.56	3.79
2370	2396	5.971895	ACAAGTTTGCTTTTGTAATGCTG	57.028	34.783	0.00	0.00	35.86	4.41
2371	2397	5.659463	ACAAGTTTGCTTTTGTAATGCTGA	58.341	33.333	0.00	0.00	35.86	4.26
2372	2398	6.105333	ACAAGTTTGCTTTTGTAATGCTGAA	58.895	32.000	0.00	0.00	35.86	3.02
2373	2399	6.035975	ACAAGTTTGCTTTTGTAATGCTGAAC	59.964	34.615	0.00	0.00	35.86	3.18
2439	2465	8.351495	TGATGAACAAGTTTGCTTTTGTTATC	57.649	30.769	2.92	7.27	44.88	1.75
2962	3024	1.918293	TCCTGCGGTGGTTGAGGAT	60.918	57.895	0.00	0.00	29.25	3.24
3021	3085	4.309950	GGTGGAGTTGCCGACGGT	62.310	66.667	16.73	0.00	40.66	4.83
3064	3128	3.866582	GCGAGTGGGGGATCTGGG	61.867	72.222	0.00	0.00	0.00	4.45
3084	3148	2.998668	GATGGAGGGAGGGAGGCCAT	62.999	65.000	5.01	0.00	41.76	4.40
3128	3192	0.994050	GGGGGAGGGTTCTAATGGCT	60.994	60.000	0.00	0.00	0.00	4.75

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
2	3	2.728435	GGTACACCACTAGGGCGGG	61.728	68.421	0.00	0.00	42.05	6.13
599	608	6.988580	TCTCACTGCAACCATATTAAGAGATG	59.011	38.462	0.00	0.00	0.00	2.90
794	808	4.681978	GCGTCGTGGGGAGTTGCT	62.682	66.667	0.00	0.00	0.00	3.91
975	989	0.115745	TGGTAGACGGAGGGGAGTTT	59.884	55.000	0.00	0.00	0.00	2.66
1004	1018	2.592032	TTGCTCCACGATGCCTCCA	61.592	57.895	0.00	0.00	0.00	3.86
1129	1143	3.461085	AGGTGGATATCAACCATGAGCTT	59.539	43.478	27.82	5.66	39.39	3.74
1130	1144	3.051581	AGGTGGATATCAACCATGAGCT	58.948	45.455	27.82	6.36	39.39	4.09
1243	1260	4.189188	AACGCCGATCGACCGAGG	62.189	66.667	26.72	8.47	41.67	4.63
1256	1273	2.965414	CTCGTATACTCGACATCAACGC	59.035	50.000	0.56	0.00	35.91	4.84
1424	1442	6.146347	GCGTCTACTTCAGAAACTTCAGAAAT	59.854	38.462	0.00	0.00	33.25	2.17
1837	1863	2.682494	AGCGGGCGGAGTTCCTTA	60.682	61.111	0.00	0.00	0.00	2.69
1873	1899	2.814336	GGAGAAGCCAACAAAGGTGTAG	59.186	50.000	0.00	0.00	36.80	2.74
1986	2012	1.821136	CCTGCCACTTCTTTCCATTCC	59.179	52.381	0.00	0.00	0.00	3.01
1987	2013	1.203287	GCCTGCCACTTCTTTCCATTC	59.797	52.381	0.00	0.00	0.00	2.67
2179	2205	7.384115	CAGTACTTCAAACCTTCTTTGACGATA	59.616	37.037	0.00	0.00	38.05	2.92
2198	2224	1.192146	TCCGCCTCTTGCCAGTACTT	61.192	55.000	0.00	0.00	36.24	2.24
2279	2305	4.048504	GTTCAACCACATAACTGCAAACC	58.951	43.478	0.00	0.00	0.00	3.27
2324	2350	7.221838	TGTTCAACATAACAAAAGCTAACTTGC	59.778	33.333	0.00	0.00	36.45	4.01
2326	2352	9.301153	CTTGTTCAACATAACAAAAGCTAACTT	57.699	29.630	0.00	0.00	45.88	2.66
2327	2353	8.466798	ACTTGTTCAACATAACAAAAGCTAACT	58.533	29.630	0.00	0.00	45.88	2.24
2328	2354	8.628882	ACTTGTTCAACATAACAAAAGCTAAC	57.371	30.769	0.00	0.00	45.88	2.34
2329	2355	9.646427	AAACTTGTTCAACATAACAAAAGCTAA	57.354	25.926	0.00	0.00	45.88	3.09
2330	2356	9.081997	CAAACTTGTTCAACATAACAAAAGCTA	57.918	29.630	0.00	0.00	45.88	3.32
2331	2357	7.412891	GCAAACTTGTTCAACATAACAAAAGCT	60.413	33.333	0.00	0.00	45.88	3.74
2332	2358	6.682441	GCAAACTTGTTCAACATAACAAAAGC	59.318	34.615	0.00	2.82	45.88	3.51
2333	2359	7.962917	AGCAAACTTGTTCAACATAACAAAAG	58.037	30.769	0.00	0.00	45.88	2.27
2334	2360	7.897575	AGCAAACTTGTTCAACATAACAAAA	57.102	28.000	0.00	0.00	45.88	2.44
2335	2361	7.897575	AAGCAAACTTGTTCAACATAACAAA	57.102	28.000	0.00	0.00	45.88	2.83
2336	2362	7.897575	AAAGCAAACTTGTTCAACATAACAA	57.102	28.000	0.00	0.00	44.81	2.83
2337	2363	7.386299	ACAAAAGCAAACTTGTTCAACATAACA	59.614	29.630	0.00	0.00	37.58	2.41
2338	2364	7.738345	ACAAAAGCAAACTTGTTCAACATAAC	58.262	30.769	0.00	0.00	35.85	1.89
2339	2365	7.897575	ACAAAAGCAAACTTGTTCAACATAA	57.102	28.000	0.00	0.00	35.85	1.90
2340	2366	8.988064	TTACAAAAGCAAACTTGTTCAACATA	57.012	26.923	0.00	0.00	37.05	2.29
2341	2367	7.897575	TTACAAAAGCAAACTTGTTCAACAT	57.102	28.000	0.00	0.00	37.05	2.71
2342	2368	7.623089	GCATTACAAAAGCAAACTTGTTCAACA	60.623	33.333	0.00	0.00	37.05	3.33
2343	2369	6.682441	GCATTACAAAAGCAAACTTGTTCAAC	59.318	34.615	0.00	0.00	37.05	3.18
2344	2370	6.593382	AGCATTACAAAAGCAAACTTGTTCAA	59.407	30.769	0.00	0.00	37.05	2.69
2345	2371	6.035866	CAGCATTACAAAAGCAAACTTGTTCA	59.964	34.615	0.00	0.00	37.05	3.18
2346	2372	6.255453	TCAGCATTACAAAAGCAAACTTGTTC	59.745	34.615	0.00	0.00	37.05	3.18
2347	2373	6.105333	TCAGCATTACAAAAGCAAACTTGTT	58.895	32.000	0.00	0.00	37.05	2.83
2348	2374	5.659463	TCAGCATTACAAAAGCAAACTTGT	58.341	33.333	0.00	0.00	39.13	3.16
2349	2375	6.035866	TGTTCAGCATTACAAAAGCAAACTTG	59.964	34.615	0.00	0.00	35.85	3.16
2350	2376	6.105333	TGTTCAGCATTACAAAAGCAAACTT	58.895	32.000	0.00	0.00	37.90	2.66
2351	2377	5.659463	TGTTCAGCATTACAAAAGCAAACT	58.341	33.333	0.00	0.00	31.60	2.66
2352	2378	5.964887	TGTTCAGCATTACAAAAGCAAAC	57.035	34.783	0.00	0.00	0.00	2.93
2353	2379	6.105333	ACTTGTTCAGCATTACAAAAGCAAA	58.895	32.000	0.00	0.00	34.17	3.68
2354	2380	5.659463	ACTTGTTCAGCATTACAAAAGCAA	58.341	33.333	0.00	0.00	34.17	3.91
2355	2381	5.261209	ACTTGTTCAGCATTACAAAAGCA	57.739	34.783	0.00	0.00	34.17	3.91
2356	2382	6.129088	GCTAACTTGTTCAGCATTACAAAAGC	60.129	38.462	0.00	0.00	34.17	3.51
2357	2383	7.141363	AGCTAACTTGTTCAGCATTACAAAAG	58.859	34.615	13.24	0.00	37.78	2.27
2358	2384	7.038154	AGCTAACTTGTTCAGCATTACAAAA	57.962	32.000	13.24	0.00	37.78	2.44
2359	2385	6.633500	AGCTAACTTGTTCAGCATTACAAA	57.367	33.333	13.24	0.00	37.78	2.83
2360	2386	6.633500	AAGCTAACTTGTTCAGCATTACAA	57.367	33.333	13.24	0.00	37.78	2.41
2361	2387	6.633500	AAAGCTAACTTGTTCAGCATTACA	57.367	33.333	13.24	0.00	37.78	2.41
2362	2388	6.918022	ACAAAAGCTAACTTGTTCAGCATTAC	59.082	34.615	13.24	0.00	37.78	1.89
2363	2389	7.038154	ACAAAAGCTAACTTGTTCAGCATTA	57.962	32.000	13.24	0.00	37.78	1.90
2364	2390	5.906073	ACAAAAGCTAACTTGTTCAGCATT	58.094	33.333	13.24	7.86	37.78	3.56
2365	2391	5.520376	ACAAAAGCTAACTTGTTCAGCAT	57.480	34.783	13.24	3.83	37.78	3.79
2366	2392	4.981806	ACAAAAGCTAACTTGTTCAGCA	57.018	36.364	13.24	0.00	37.78	4.41
2367	2393	6.918022	ACATAACAAAAGCTAACTTGTTCAGC	59.082	34.615	19.22	0.00	43.06	4.26
2368	2394	8.745837	CAACATAACAAAAGCTAACTTGTTCAG	58.254	33.333	19.22	15.91	43.06	3.02
2369	2395	8.462811	TCAACATAACAAAAGCTAACTTGTTCA	58.537	29.630	19.22	10.41	43.06	3.18
2370	2396	8.850454	TCAACATAACAAAAGCTAACTTGTTC	57.150	30.769	19.22	0.00	43.06	3.18
2371	2397	9.083080	GTTCAACATAACAAAAGCTAACTTGTT	57.917	29.630	19.45	19.45	45.33	2.83
2372	2398	8.247562	TGTTCAACATAACAAAAGCTAACTTGT	58.752	29.630	3.56	3.56	36.45	3.16
2373	2399	8.627487	TGTTCAACATAACAAAAGCTAACTTG	57.373	30.769	0.00	0.00	36.45	3.16
2439	2465	8.501580	CCAGCATCATAACAATCACATAACTAG	58.498	37.037	0.00	0.00	0.00	2.57
2839	2866	3.500448	TGTGCCACCATCTGAAACTTA	57.500	42.857	0.00	0.00	0.00	2.24
3047	3111	3.866582	CCCAGATCCCCCACTCGC	61.867	72.222	0.00	0.00	0.00	5.03
3064	3128	2.851588	GCCTCCCTCCCTCCATCC	60.852	72.222	0.00	0.00	0.00	3.51
3084	3148	1.410004	CACCTATTCCCCTCGCACTA	58.590	55.000	0.00	0.00	0.00	2.74
3128	3192	3.493699	CGAATTAGGCCCATCCGAAGTAA	60.494	47.826	0.00	0.00	40.77	2.24

Based at the University of Bristol with support from BBSRC.

AutoCloner maintained by Alex Coulton.