AutoCloner

Multiple sequence alignment - TraesCS5B01G457800

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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	TraesCS5B01G457800	chr5B	100.000	2522	0	0	1	2522	632232144	632229623	0.000000e+00	4658.0
1	TraesCS5B01G457800	chr5D	97.960	2157	14	8	1	2135	503742696	503740548	0.000000e+00	3712.0
2	TraesCS5B01G457800	chr5D	84.145	801	105	8	768	1557	503808370	503807581	0.000000e+00	756.0
3	TraesCS5B01G457800	chr5D	82.178	707	108	11	861	1558	503883064	503882367	2.160000e-165	592.0
4	TraesCS5B01G457800	chr5D	98.246	285	4	1	2238	2522	503740550	503740267	4.840000e-137	497.0
5	TraesCS5B01G457800	chr5D	90.431	209	15	3	7	211	171303275	171303482	1.150000e-68	270.0
6	TraesCS5B01G457800	chr5D	84.579	214	23	9	211	420	344902865	344902658	1.180000e-48	204.0
7	TraesCS5B01G457800	chr5D	87.838	74	9	0	1178	1251	503878053	503877980	1.240000e-13	87.9
8	TraesCS5B01G457800	chr5A	86.082	1128	71	38	818	1922	631674703	631673639	0.000000e+00	1134.0
9	TraesCS5B01G457800	chr5A	80.148	811	119	23	768	1558	631706629	631705841	3.640000e-158	568.0
10	TraesCS5B01G457800	chr5A	82.987	529	84	6	1028	1552	632159066	632158540	8.160000e-130	473.0
11	TraesCS5B01G457800	chr5A	95.614	114	5	0	2129	2242	702691714	702691827	1.540000e-42	183.0
12	TraesCS5B01G457800	chr5A	73.113	424	68	30	842	1255	632004868	632004481	2.650000e-20	110.0
13	TraesCS5B01G457800	chr2D	91.220	205	16	2	7	210	388512548	388512751	6.870000e-71	278.0
14	TraesCS5B01G457800	chr4B	90.141	213	17	2	7	215	501187936	501187724	8.890000e-70	274.0
15	TraesCS5B01G457800	chr4B	84.500	200	19	9	229	425	372722493	372722303	1.190000e-43	187.0
16	TraesCS5B01G457800	chr4A	90.777	206	18	1	7	211	321432115	321431910	8.890000e-70	274.0
17	TraesCS5B01G457800	chr4D	90.431	209	15	3	7	211	436383909	436383702	1.150000e-68	270.0
18	TraesCS5B01G457800	chr4D	89.904	208	18	1	7	211	80917406	80917613	5.350000e-67	265.0
19	TraesCS5B01G457800	chr4D	97.321	112	2	1	2130	2240	394397262	394397151	3.310000e-44	189.0
20	TraesCS5B01G457800	chr4D	82.949	217	29	7	207	421	497214699	497214909	3.310000e-44	189.0
21	TraesCS5B01G457800	chr6B	90.244	205	19	1	7	211	552396704	552396501	1.490000e-67	267.0
22	TraesCS5B01G457800	chr3D	89.904	208	18	1	7	211	295291278	295291071	5.350000e-67	265.0
23	TraesCS5B01G457800	chr3D	85.052	194	25	3	228	420	531850404	531850214	7.120000e-46	195.0
24	TraesCS5B01G457800	chr3D	95.614	114	5	0	2133	2246	478123951	478124064	1.540000e-42	183.0
25	TraesCS5B01G457800	chr6A	85.492	193	23	3	228	420	514495726	514495539	1.980000e-46	196.0
26	TraesCS5B01G457800	chr6A	83.256	215	27	5	208	420	539713440	539713233	3.310000e-44	189.0
27	TraesCS5B01G457800	chr3A	97.297	111	3	0	2132	2242	638982539	638982429	3.310000e-44	189.0
28	TraesCS5B01G457800	chr3A	96.429	112	3	1	2133	2244	610593485	610593595	1.540000e-42	183.0
29	TraesCS5B01G457800	chr1A	95.000	120	4	2	2133	2251	489400704	489400822	1.190000e-43	187.0
30	TraesCS5B01G457800	chr7B	84.536	194	23	6	229	420	464635234	464635046	4.280000e-43	185.0
31	TraesCS5B01G457800	chr7A	94.828	116	6	0	2125	2240	701211513	701211628	5.540000e-42	182.0
32	TraesCS5B01G457800	chr3B	94.828	116	6	0	2129	2244	173555438	173555323	5.540000e-42	182.0
33	TraesCS5B01G457800	chr2B	91.406	128	11	0	2132	2259	133013713	133013586	2.580000e-40	176.0
34	TraesCS5B01G457800	chr2B	82.192	219	26	11	208	421	473258005	473258215	2.580000e-40	176.0

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	TraesCS5B01G457800	chr5B	632229623	632232144	2521	True	4658.0	4658	100.000	1	2522	1	chr5B.!!$R1	2521
1	TraesCS5B01G457800	chr5D	503740267	503742696	2429	True	2104.5	3712	98.103	1	2522	2	chr5D.!!$R5	2521
2	TraesCS5B01G457800	chr5D	503807581	503808370	789	True	756.0	756	84.145	768	1557	1	chr5D.!!$R2	789
3	TraesCS5B01G457800	chr5D	503882367	503883064	697	True	592.0	592	82.178	861	1558	1	chr5D.!!$R4	697
4	TraesCS5B01G457800	chr5A	631673639	631674703	1064	True	1134.0	1134	86.082	818	1922	1	chr5A.!!$R1	1104
5	TraesCS5B01G457800	chr5A	631705841	631706629	788	True	568.0	568	80.148	768	1558	1	chr5A.!!$R2	790
6	TraesCS5B01G457800	chr5A	632158540	632159066	526	True	473.0	473	82.987	1028	1552	1	chr5A.!!$R4	524

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
606	618	0.739561	CCGGTTTGTGGAAAAACGGA	59.26	50.0	19.8	0.0	42.33	4.69	F

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability	Orientation
2222	2273	0.033796	ATGTACTCCCTCCGTTCGGA	60.034	55.0	13.34	13.34	0.0	4.55	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
144	145	4.279145	AGGTAAAGAGATCGCCTACTTCA	58.721	43.478	0.00	0.00	0.00	3.02
298	299	9.191479	ACTAACTTAGACTTGCATGTATAGAGT	57.809	33.333	5.05	9.81	0.00	3.24
299	300	9.457110	CTAACTTAGACTTGCATGTATAGAGTG	57.543	37.037	5.05	2.31	0.00	3.51
300	301	7.411486	ACTTAGACTTGCATGTATAGAGTGT	57.589	36.000	5.05	0.00	0.00	3.55
338	339	5.246883	AGAATTGCCAAAACTTGCCTAGAAT	59.753	36.000	0.00	0.00	0.00	2.40
366	367	8.500753	AAATTGGGAAAAGGTCAAGTTTTTAC	57.499	30.769	0.00	0.00	0.00	2.01
388	389	3.130734	TGCCAAGTAGTCTAATCCCCT	57.869	47.619	0.00	0.00	0.00	4.79
411	422	1.955080	CCCCTACTAGACCTACTTGCG	59.045	57.143	0.00	0.00	0.00	4.85
515	527	1.375523	CGTGGAGAGGGTTTTCGGG	60.376	63.158	0.00	0.00	0.00	5.14
518	530	1.674651	GGAGAGGGTTTTCGGGCAC	60.675	63.158	0.00	0.00	0.00	5.01
606	618	0.739561	CCGGTTTGTGGAAAAACGGA	59.260	50.000	19.80	0.00	42.33	4.69
717	729	5.997384	ATTACATCCTAACTACCCGATCC	57.003	43.478	0.00	0.00	0.00	3.36
1606	1655	2.666508	CGTATCATGGCGCAAGGTATAC	59.333	50.000	10.83	9.08	38.28	1.47
1997	2048	5.664294	ATATGAACCAAAGCATGAAAGCA	57.336	34.783	0.00	0.00	36.85	3.91
2112	2163	3.000078	CGAGTTCGGTTCAATGTATTCGG	60.000	47.826	0.00	0.00	35.37	4.30
2135	2186	5.121811	GGTTGATCTCAGCATTCACATACT	58.878	41.667	0.00	0.00	0.00	2.12
2136	2187	5.236047	GGTTGATCTCAGCATTCACATACTC	59.764	44.000	0.00	0.00	0.00	2.59
2137	2188	4.953667	TGATCTCAGCATTCACATACTCC	58.046	43.478	0.00	0.00	0.00	3.85
2138	2189	3.827008	TCTCAGCATTCACATACTCCC	57.173	47.619	0.00	0.00	0.00	4.30
2139	2190	3.378512	TCTCAGCATTCACATACTCCCT	58.621	45.455	0.00	0.00	0.00	4.20
2140	2191	3.386078	TCTCAGCATTCACATACTCCCTC	59.614	47.826	0.00	0.00	0.00	4.30
2141	2192	2.435805	TCAGCATTCACATACTCCCTCC	59.564	50.000	0.00	0.00	0.00	4.30
2142	2193	1.414181	AGCATTCACATACTCCCTCCG	59.586	52.381	0.00	0.00	0.00	4.63
2143	2194	1.139058	GCATTCACATACTCCCTCCGT	59.861	52.381	0.00	0.00	0.00	4.69
2144	2195	2.420129	GCATTCACATACTCCCTCCGTT	60.420	50.000	0.00	0.00	0.00	4.44
2145	2196	3.458189	CATTCACATACTCCCTCCGTTC	58.542	50.000	0.00	0.00	0.00	3.95
2146	2197	1.100510	TCACATACTCCCTCCGTTCG	58.899	55.000	0.00	0.00	0.00	3.95
2147	2198	1.100510	CACATACTCCCTCCGTTCGA	58.899	55.000	0.00	0.00	0.00	3.71
2148	2199	1.475280	CACATACTCCCTCCGTTCGAA	59.525	52.381	0.00	0.00	0.00	3.71
2149	2200	2.094390	CACATACTCCCTCCGTTCGAAA	60.094	50.000	0.00	0.00	0.00	3.46
2150	2201	2.764572	ACATACTCCCTCCGTTCGAAAT	59.235	45.455	0.00	0.00	0.00	2.17
2151	2202	3.197116	ACATACTCCCTCCGTTCGAAATT	59.803	43.478	0.00	0.00	0.00	1.82
2152	2203	4.403432	ACATACTCCCTCCGTTCGAAATTA	59.597	41.667	0.00	0.00	0.00	1.40
2153	2204	3.242549	ACTCCCTCCGTTCGAAATTAC	57.757	47.619	0.00	0.00	0.00	1.89
2154	2205	2.830321	ACTCCCTCCGTTCGAAATTACT	59.170	45.455	0.00	0.00	0.00	2.24
2155	2206	3.260128	ACTCCCTCCGTTCGAAATTACTT	59.740	43.478	0.00	0.00	0.00	2.24
2156	2207	3.592059	TCCCTCCGTTCGAAATTACTTG	58.408	45.455	0.00	0.00	0.00	3.16
2157	2208	3.007182	TCCCTCCGTTCGAAATTACTTGT	59.993	43.478	0.00	0.00	0.00	3.16
2158	2209	3.749609	CCCTCCGTTCGAAATTACTTGTT	59.250	43.478	0.00	0.00	0.00	2.83
2159	2210	4.931002	CCCTCCGTTCGAAATTACTTGTTA	59.069	41.667	0.00	0.00	0.00	2.41
2160	2211	5.163923	CCCTCCGTTCGAAATTACTTGTTAC	60.164	44.000	0.00	0.00	0.00	2.50
2161	2212	5.406175	CCTCCGTTCGAAATTACTTGTTACA	59.594	40.000	0.00	0.00	0.00	2.41
2162	2213	6.400727	CCTCCGTTCGAAATTACTTGTTACAG	60.401	42.308	0.00	0.00	0.00	2.74
2163	2214	6.215121	TCCGTTCGAAATTACTTGTTACAGA	58.785	36.000	0.00	0.00	0.00	3.41
2164	2215	6.700960	TCCGTTCGAAATTACTTGTTACAGAA	59.299	34.615	0.00	0.00	0.00	3.02
2165	2216	7.224362	TCCGTTCGAAATTACTTGTTACAGAAA	59.776	33.333	0.00	0.00	0.00	2.52
2166	2217	8.013378	CCGTTCGAAATTACTTGTTACAGAAAT	58.987	33.333	0.00	0.00	0.00	2.17
2167	2218	8.827599	CGTTCGAAATTACTTGTTACAGAAATG	58.172	33.333	0.00	0.00	0.00	2.32
2168	2219	9.113876	GTTCGAAATTACTTGTTACAGAAATGG	57.886	33.333	0.00	0.00	0.00	3.16
2169	2220	8.610248	TCGAAATTACTTGTTACAGAAATGGA	57.390	30.769	0.00	0.00	0.00	3.41
2170	2221	9.226606	TCGAAATTACTTGTTACAGAAATGGAT	57.773	29.630	0.00	0.00	0.00	3.41
2171	2222	9.277565	CGAAATTACTTGTTACAGAAATGGATG	57.722	33.333	0.00	0.00	0.00	3.51
2178	2229	9.823647	ACTTGTTACAGAAATGGATGTATCTAG	57.176	33.333	0.00	0.00	34.00	2.43
2180	2231	9.817809	TTGTTACAGAAATGGATGTATCTAGAC	57.182	33.333	0.00	0.00	32.24	2.59
2181	2232	8.135529	TGTTACAGAAATGGATGTATCTAGACG	58.864	37.037	0.00	0.00	32.24	4.18
2182	2233	6.716934	ACAGAAATGGATGTATCTAGACGT	57.283	37.500	0.00	0.00	0.00	4.34
2183	2234	7.818997	ACAGAAATGGATGTATCTAGACGTA	57.181	36.000	0.00	0.00	0.00	3.57
2184	2235	8.410673	ACAGAAATGGATGTATCTAGACGTAT	57.589	34.615	0.00	0.00	0.00	3.06
2185	2236	8.861086	ACAGAAATGGATGTATCTAGACGTATT	58.139	33.333	0.00	0.00	0.00	1.89
2186	2237	9.698309	CAGAAATGGATGTATCTAGACGTATTT	57.302	33.333	0.00	0.00	0.00	1.40
2210	2261	7.946655	TTAGTTCTAGATACATCCATTTGCG	57.053	36.000	0.00	0.00	0.00	4.85
2211	2262	6.161855	AGTTCTAGATACATCCATTTGCGA	57.838	37.500	0.00	0.00	0.00	5.10
2212	2263	6.219473	AGTTCTAGATACATCCATTTGCGAG	58.781	40.000	0.00	0.00	0.00	5.03
2213	2264	6.040955	AGTTCTAGATACATCCATTTGCGAGA	59.959	38.462	0.00	0.00	0.00	4.04
2214	2265	5.773575	TCTAGATACATCCATTTGCGAGAC	58.226	41.667	0.00	0.00	0.00	3.36
2215	2266	4.406648	AGATACATCCATTTGCGAGACA	57.593	40.909	0.00	0.00	0.00	3.41
2216	2267	4.769688	AGATACATCCATTTGCGAGACAA	58.230	39.130	0.00	0.00	36.13	3.18
2217	2268	4.813161	AGATACATCCATTTGCGAGACAAG	59.187	41.667	0.00	0.00	40.06	3.16
2218	2269	2.783135	ACATCCATTTGCGAGACAAGT	58.217	42.857	0.00	0.00	40.06	3.16
2219	2270	3.937814	ACATCCATTTGCGAGACAAGTA	58.062	40.909	0.00	0.00	40.06	2.24
2220	2271	4.323417	ACATCCATTTGCGAGACAAGTAA	58.677	39.130	0.00	0.00	40.06	2.24
2221	2272	4.943705	ACATCCATTTGCGAGACAAGTAAT	59.056	37.500	0.00	0.00	40.06	1.89
2222	2273	5.415701	ACATCCATTTGCGAGACAAGTAATT	59.584	36.000	0.00	0.00	40.06	1.40
2223	2274	5.545658	TCCATTTGCGAGACAAGTAATTC	57.454	39.130	0.00	0.00	40.06	2.17
2224	2275	4.394920	TCCATTTGCGAGACAAGTAATTCC	59.605	41.667	0.00	0.00	40.06	3.01
2225	2276	4.334443	CATTTGCGAGACAAGTAATTCCG	58.666	43.478	0.00	0.00	40.06	4.30
2226	2277	3.306917	TTGCGAGACAAGTAATTCCGA	57.693	42.857	0.00	0.00	33.24	4.55
2227	2278	3.306917	TGCGAGACAAGTAATTCCGAA	57.693	42.857	0.00	0.00	0.00	4.30
2228	2279	2.991190	TGCGAGACAAGTAATTCCGAAC	59.009	45.455	0.00	0.00	0.00	3.95
2229	2280	2.027688	GCGAGACAAGTAATTCCGAACG	59.972	50.000	0.00	0.00	0.00	3.95
2230	2281	2.597305	CGAGACAAGTAATTCCGAACGG	59.403	50.000	6.94	6.94	0.00	4.44
2231	2282	3.671433	CGAGACAAGTAATTCCGAACGGA	60.671	47.826	12.04	12.04	43.52	4.69
2232	2283	3.846360	AGACAAGTAATTCCGAACGGAG	58.154	45.455	15.34	5.60	46.06	4.63
2233	2284	2.928116	GACAAGTAATTCCGAACGGAGG	59.072	50.000	15.34	4.52	46.06	4.30
2234	2285	2.277084	CAAGTAATTCCGAACGGAGGG	58.723	52.381	15.34	0.00	46.06	4.30
2235	2286	1.856629	AGTAATTCCGAACGGAGGGA	58.143	50.000	15.34	2.49	46.06	4.20
2236	2287	1.755380	AGTAATTCCGAACGGAGGGAG	59.245	52.381	15.34	0.00	46.06	4.30
2237	2288	1.479730	GTAATTCCGAACGGAGGGAGT	59.520	52.381	15.34	4.12	46.06	3.85
2238	2289	1.856629	AATTCCGAACGGAGGGAGTA	58.143	50.000	15.34	1.05	46.06	2.59
2239	2290	1.109609	ATTCCGAACGGAGGGAGTAC	58.890	55.000	15.34	0.00	46.06	2.73
2240	2291	0.251297	TTCCGAACGGAGGGAGTACA	60.251	55.000	15.34	0.00	46.06	2.90
2304	2355	6.869315	TCCAAGAAACAAACATTCATACGA	57.131	33.333	0.00	0.00	0.00	3.43
2385	2436	0.739112	GCTTTGAGGACTGAGGCTCG	60.739	60.000	10.42	7.38	0.00	5.03
2493	2544	1.202405	GCAAAGGATTTATGCCCACCG	60.202	52.381	0.00	0.00	35.03	4.94

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
144	145	4.472833	AGCCTCACTCAGGTAAATCTTCAT	59.527	41.667	0.00	0.00	45.61	2.57
296	297	6.238484	GCAATTCTAACAAGTCTTGTCACACT	60.238	38.462	18.42	5.47	44.59	3.55
297	298	5.909610	GCAATTCTAACAAGTCTTGTCACAC	59.090	40.000	18.42	0.75	44.59	3.82
298	299	5.008613	GGCAATTCTAACAAGTCTTGTCACA	59.991	40.000	18.42	6.58	44.59	3.58
299	300	5.008613	TGGCAATTCTAACAAGTCTTGTCAC	59.991	40.000	18.42	3.00	44.59	3.67
300	301	5.129634	TGGCAATTCTAACAAGTCTTGTCA	58.870	37.500	18.42	3.32	44.59	3.58
338	339	9.521841	AAAAACTTGACCTTTTCCCAATTTTAA	57.478	25.926	0.00	0.00	0.00	1.52
366	367	3.456277	AGGGGATTAGACTACTTGGCAAG	59.544	47.826	25.06	25.06	0.00	4.01
404	415	4.491676	GTCACTTTGTAGGATCGCAAGTA	58.508	43.478	0.00	0.00	39.48	2.24
411	422	1.278238	CGGCGTCACTTTGTAGGATC	58.722	55.000	0.00	0.00	0.00	3.36
515	527	0.179059	CCACCCAAAAACCCTTGTGC	60.179	55.000	0.00	0.00	0.00	4.57
518	530	0.756294	GTCCCACCCAAAAACCCTTG	59.244	55.000	0.00	0.00	0.00	3.61
717	729	5.163683	CCCTTAAACTGTCTGCAATCATCTG	60.164	44.000	0.00	0.00	0.00	2.90
1997	2048	6.449635	TGTTAGCATGAACAAGAACAGTTT	57.550	33.333	0.00	0.00	36.39	2.66
2112	2163	5.121811	AGTATGTGAATGCTGAGATCAACC	58.878	41.667	0.00	0.00	0.00	3.77
2135	2186	3.007182	ACAAGTAATTTCGAACGGAGGGA	59.993	43.478	0.00	0.00	0.00	4.20
2136	2187	3.332034	ACAAGTAATTTCGAACGGAGGG	58.668	45.455	0.00	0.00	0.00	4.30
2137	2188	5.406175	TGTAACAAGTAATTTCGAACGGAGG	59.594	40.000	0.00	0.00	0.00	4.30
2138	2189	6.364165	TCTGTAACAAGTAATTTCGAACGGAG	59.636	38.462	0.00	0.00	0.00	4.63
2139	2190	6.215121	TCTGTAACAAGTAATTTCGAACGGA	58.785	36.000	0.00	0.00	0.00	4.69
2140	2191	6.456447	TCTGTAACAAGTAATTTCGAACGG	57.544	37.500	0.00	0.00	0.00	4.44
2141	2192	8.827599	CATTTCTGTAACAAGTAATTTCGAACG	58.172	33.333	0.00	0.00	0.00	3.95
2142	2193	9.113876	CCATTTCTGTAACAAGTAATTTCGAAC	57.886	33.333	0.00	0.00	0.00	3.95
2143	2194	9.058174	TCCATTTCTGTAACAAGTAATTTCGAA	57.942	29.630	0.00	0.00	0.00	3.71
2144	2195	8.610248	TCCATTTCTGTAACAAGTAATTTCGA	57.390	30.769	0.00	0.00	0.00	3.71
2145	2196	9.277565	CATCCATTTCTGTAACAAGTAATTTCG	57.722	33.333	0.00	0.00	0.00	3.46
2152	2203	9.823647	CTAGATACATCCATTTCTGTAACAAGT	57.176	33.333	0.00	0.00	32.02	3.16
2154	2205	9.817809	GTCTAGATACATCCATTTCTGTAACAA	57.182	33.333	0.00	0.00	32.02	2.83
2155	2206	8.135529	CGTCTAGATACATCCATTTCTGTAACA	58.864	37.037	0.00	0.00	32.02	2.41
2156	2207	8.136165	ACGTCTAGATACATCCATTTCTGTAAC	58.864	37.037	0.00	0.00	32.02	2.50
2157	2208	8.234136	ACGTCTAGATACATCCATTTCTGTAA	57.766	34.615	0.00	0.00	32.02	2.41
2158	2209	7.818997	ACGTCTAGATACATCCATTTCTGTA	57.181	36.000	0.00	0.00	32.75	2.74
2159	2210	6.716934	ACGTCTAGATACATCCATTTCTGT	57.283	37.500	0.00	0.00	0.00	3.41
2160	2211	9.698309	AAATACGTCTAGATACATCCATTTCTG	57.302	33.333	0.00	0.00	0.00	3.02
2184	2235	8.826710	CGCAAATGGATGTATCTAGAACTAAAA	58.173	33.333	0.00	0.00	0.00	1.52
2185	2236	8.201464	TCGCAAATGGATGTATCTAGAACTAAA	58.799	33.333	0.00	0.00	0.00	1.85
2186	2237	7.722363	TCGCAAATGGATGTATCTAGAACTAA	58.278	34.615	0.00	0.00	0.00	2.24
2187	2238	7.230712	TCTCGCAAATGGATGTATCTAGAACTA	59.769	37.037	0.00	0.00	0.00	2.24
2188	2239	6.040955	TCTCGCAAATGGATGTATCTAGAACT	59.959	38.462	0.00	0.00	0.00	3.01
2189	2240	6.144724	GTCTCGCAAATGGATGTATCTAGAAC	59.855	42.308	0.00	0.00	0.00	3.01
2190	2241	6.183360	TGTCTCGCAAATGGATGTATCTAGAA	60.183	38.462	0.00	0.00	0.00	2.10
2191	2242	5.301805	TGTCTCGCAAATGGATGTATCTAGA	59.698	40.000	0.00	0.00	0.00	2.43
2192	2243	5.532557	TGTCTCGCAAATGGATGTATCTAG	58.467	41.667	0.00	0.00	0.00	2.43
2193	2244	5.529581	TGTCTCGCAAATGGATGTATCTA	57.470	39.130	0.00	0.00	0.00	1.98
2194	2245	4.406648	TGTCTCGCAAATGGATGTATCT	57.593	40.909	0.00	0.00	0.00	1.98
2195	2246	4.572389	ACTTGTCTCGCAAATGGATGTATC	59.428	41.667	0.00	0.00	36.53	2.24
2196	2247	4.517285	ACTTGTCTCGCAAATGGATGTAT	58.483	39.130	0.00	0.00	36.53	2.29
2197	2248	3.937814	ACTTGTCTCGCAAATGGATGTA	58.062	40.909	0.00	0.00	36.53	2.29
2198	2249	2.783135	ACTTGTCTCGCAAATGGATGT	58.217	42.857	0.00	0.00	36.53	3.06
2199	2250	4.944962	TTACTTGTCTCGCAAATGGATG	57.055	40.909	0.00	0.00	36.53	3.51
2200	2251	5.066505	GGAATTACTTGTCTCGCAAATGGAT	59.933	40.000	0.00	0.00	36.53	3.41
2201	2252	4.394920	GGAATTACTTGTCTCGCAAATGGA	59.605	41.667	0.00	0.00	36.53	3.41
2202	2253	4.662145	GGAATTACTTGTCTCGCAAATGG	58.338	43.478	0.00	0.00	36.53	3.16
2203	2254	4.092821	TCGGAATTACTTGTCTCGCAAATG	59.907	41.667	0.00	0.00	36.53	2.32
2204	2255	4.250464	TCGGAATTACTTGTCTCGCAAAT	58.750	39.130	0.00	0.00	36.53	2.32
2205	2256	3.655486	TCGGAATTACTTGTCTCGCAAA	58.345	40.909	0.00	0.00	36.53	3.68
2206	2257	3.306917	TCGGAATTACTTGTCTCGCAA	57.693	42.857	0.00	0.00	35.50	4.85
2207	2258	2.991190	GTTCGGAATTACTTGTCTCGCA	59.009	45.455	0.00	0.00	0.00	5.10
2208	2259	2.027688	CGTTCGGAATTACTTGTCTCGC	59.972	50.000	0.00	0.00	0.00	5.03
2209	2260	2.597305	CCGTTCGGAATTACTTGTCTCG	59.403	50.000	5.19	0.00	0.00	4.04
2210	2261	3.841643	TCCGTTCGGAATTACTTGTCTC	58.158	45.455	11.66	0.00	0.00	3.36
2211	2262	3.368116	CCTCCGTTCGGAATTACTTGTCT	60.368	47.826	14.79	0.00	33.41	3.41
2212	2263	2.928116	CCTCCGTTCGGAATTACTTGTC	59.072	50.000	14.79	0.00	33.41	3.18
2213	2264	2.354403	CCCTCCGTTCGGAATTACTTGT	60.354	50.000	14.79	0.00	33.41	3.16
2214	2265	2.093869	TCCCTCCGTTCGGAATTACTTG	60.094	50.000	14.79	1.97	33.41	3.16
2215	2266	2.167900	CTCCCTCCGTTCGGAATTACTT	59.832	50.000	14.79	0.00	33.41	2.24
2216	2267	1.755380	CTCCCTCCGTTCGGAATTACT	59.245	52.381	14.79	0.00	33.41	2.24
2217	2268	1.479730	ACTCCCTCCGTTCGGAATTAC	59.520	52.381	14.79	0.00	33.41	1.89
2218	2269	1.856629	ACTCCCTCCGTTCGGAATTA	58.143	50.000	14.79	2.82	33.41	1.40
2219	2270	1.479730	GTACTCCCTCCGTTCGGAATT	59.520	52.381	14.79	0.00	33.41	2.17
2220	2271	1.109609	GTACTCCCTCCGTTCGGAAT	58.890	55.000	14.79	2.09	33.41	3.01
2221	2272	0.251297	TGTACTCCCTCCGTTCGGAA	60.251	55.000	14.79	0.04	33.41	4.30
2222	2273	0.033796	ATGTACTCCCTCCGTTCGGA	60.034	55.000	13.34	13.34	0.00	4.55
2223	2274	0.822164	AATGTACTCCCTCCGTTCGG	59.178	55.000	4.74	4.74	0.00	4.30
2224	2275	2.667473	AAATGTACTCCCTCCGTTCG	57.333	50.000	0.00	0.00	0.00	3.95
2270	2321	5.379732	TTGTTTCTTGGAACAGAAAACGT	57.620	34.783	0.00	0.00	43.07	3.99
2304	2355	3.403038	GTGAATGCTACTCCGGCAATAT	58.597	45.455	0.00	0.00	43.14	1.28
2385	2436	2.365941	GAGTAATGTAGCTCAGTCCCCC	59.634	54.545	0.00	0.00	0.00	5.40

Based at the University of Bristol with support from BBSRC.

AutoCloner maintained by Alex Coulton.