AutoCloner

Multiple sequence alignment - TraesCS5B01G335100

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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	TraesCS5B01G335100	chr5B	100.000	2960	0	0	1	2960	518320734	518317775	0.000000e+00	5467.0
1	TraesCS5B01G335100	chr5B	77.200	1000	177	34	1023	2012	518490993	518490035	1.210000e-148	536.0
2	TraesCS5B01G335100	chr5B	76.235	425	62	29	1	408	232855548	232855950	3.890000e-44	189.0
3	TraesCS5B01G335100	chr5D	92.527	2596	137	21	1	2562	429151844	429149272	0.000000e+00	3666.0
4	TraesCS5B01G335100	chr5D	78.645	1269	186	38	1023	2247	439737210	439735983	0.000000e+00	763.0
5	TraesCS5B01G335100	chr5D	78.340	1265	193	40	1023	2247	440064546	440063323	0.000000e+00	743.0
6	TraesCS5B01G335100	chr5D	84.796	638	80	10	1022	1652	429059889	429059262	2.500000e-175	625.0
7	TraesCS5B01G335100	chr5D	76.575	619	108	25	1652	2253	429059218	429058620	3.710000e-79	305.0
8	TraesCS5B01G335100	chr5D	89.189	222	9	5	2752	2959	429149141	429148921	2.260000e-66	263.0
9	TraesCS5B01G335100	chr5D	76.271	413	77	15	1	404	456727140	456726740	1.800000e-47	200.0
10	TraesCS5B01G335100	chr5D	77.500	280	37	13	1779	2047	429295939	429295675	8.550000e-31	145.0
11	TraesCS5B01G335100	chr5D	78.528	163	27	8	247	404	96125330	96125171	1.880000e-17	100.0
12	TraesCS5B01G335100	chr5A	91.188	2054	109	30	658	2699	545049217	545047224	0.000000e+00	2724.0
13	TraesCS5B01G335100	chr5A	82.949	997	138	16	1025	2013	544728228	544727256	0.000000e+00	870.0
14	TraesCS5B01G335100	chr5A	82.949	997	138	16	1025	2013	544749819	544748847	0.000000e+00	870.0
15	TraesCS5B01G335100	chr5A	82.949	997	138	16	1025	2013	544771847	544770875	0.000000e+00	870.0
16	TraesCS5B01G335100	chr5A	82.981	993	138	16	1025	2009	544794157	544793188	0.000000e+00	869.0
17	TraesCS5B01G335100	chr5A	85.604	646	70	14	1	627	545050089	545049448	0.000000e+00	656.0
18	TraesCS5B01G335100	chr5A	78.008	241	29	11	613	849	406474513	406474733	2.390000e-26	130.0
19	TraesCS5B01G335100	chr5A	94.737	76	3	1	2752	2827	545047219	545047145	1.860000e-22	117.0
20	TraesCS5B01G335100	chr2B	84.034	238	34	4	613	849	774481287	774481053	2.970000e-55	226.0
21	TraesCS5B01G335100	chrUn	79.870	308	56	4	1706	2013	447561118	447560817	1.380000e-53	220.0
22	TraesCS5B01G335100	chr3B	83.402	241	33	7	613	849	193607528	193607291	1.790000e-52	217.0
23	TraesCS5B01G335100	chr3B	78.261	207	30	15	210	407	438407244	438407444	5.180000e-23	119.0
24	TraesCS5B01G335100	chr6A	84.375	128	14	4	195	322	24468394	24468273	1.440000e-23	121.0
25	TraesCS5B01G335100	chr6A	76.712	219	34	15	196	405	292309414	292309624	4.030000e-19	106.0
26	TraesCS5B01G335100	chr6A	96.296	54	0	2	353	404	516401536	516401589	1.460000e-13	87.9
27	TraesCS5B01G335100	chr2A	75.962	208	35	14	210	409	483935743	483935543	3.140000e-15	93.5
28	TraesCS5B01G335100	chr1A	96.296	54	0	2	353	404	422044428	422044481	1.460000e-13	87.9
29	TraesCS5B01G335100	chr1B	89.552	67	3	4	357	420	412851457	412851522	6.800000e-12	82.4
30	TraesCS5B01G335100	chr1D	76.724	116	23	4	735	849	298708091	298707979	8.860000e-06	62.1

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	TraesCS5B01G335100	chr5B	518317775	518320734	2959	True	5467.000000	5467	100.000000	1	2960	1	chr5B.!!$R1	2959
1	TraesCS5B01G335100	chr5B	518490035	518490993	958	True	536.000000	536	77.200000	1023	2012	1	chr5B.!!$R2	989
2	TraesCS5B01G335100	chr5D	429148921	429151844	2923	True	1964.500000	3666	90.858000	1	2959	2	chr5D.!!$R7	2958
3	TraesCS5B01G335100	chr5D	439735983	439737210	1227	True	763.000000	763	78.645000	1023	2247	1	chr5D.!!$R3	1224
4	TraesCS5B01G335100	chr5D	440063323	440064546	1223	True	743.000000	743	78.340000	1023	2247	1	chr5D.!!$R4	1224
5	TraesCS5B01G335100	chr5D	429058620	429059889	1269	True	465.000000	625	80.685500	1022	2253	2	chr5D.!!$R6	1231
6	TraesCS5B01G335100	chr5A	545047145	545050089	2944	True	1165.666667	2724	90.509667	1	2827	3	chr5A.!!$R5	2826
7	TraesCS5B01G335100	chr5A	544727256	544728228	972	True	870.000000	870	82.949000	1025	2013	1	chr5A.!!$R1	988
8	TraesCS5B01G335100	chr5A	544748847	544749819	972	True	870.000000	870	82.949000	1025	2013	1	chr5A.!!$R2	988
9	TraesCS5B01G335100	chr5A	544770875	544771847	972	True	870.000000	870	82.949000	1025	2013	1	chr5A.!!$R3	988
10	TraesCS5B01G335100	chr5A	544793188	544794157	969	True	869.000000	869	82.981000	1025	2009	1	chr5A.!!$R4	984

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
871	1102	0.109723	TTGTTCCGGGTCCTCTTTGG	59.89	55.0	0.0	0.0	37.1	3.28	F

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability	Orientation
2436	2808	0.168128	GCACACAGACGGCCAATTAC	59.832	55.0	2.24	0.0	0.0	1.89	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
38	49	4.672409	GCTTCGAGGGTTTGGAATTTATG	58.328	43.478	0.00	0.00	0.00	1.90
39	50	4.157840	GCTTCGAGGGTTTGGAATTTATGT	59.842	41.667	0.00	0.00	0.00	2.29
40	51	5.637006	TTCGAGGGTTTGGAATTTATGTG	57.363	39.130	0.00	0.00	0.00	3.21
41	52	4.912586	TCGAGGGTTTGGAATTTATGTGA	58.087	39.130	0.00	0.00	0.00	3.58
42	53	5.317808	TCGAGGGTTTGGAATTTATGTGAA	58.682	37.500	0.00	0.00	0.00	3.18
43	54	5.949354	TCGAGGGTTTGGAATTTATGTGAAT	59.051	36.000	0.00	0.00	0.00	2.57
44	55	6.435904	TCGAGGGTTTGGAATTTATGTGAATT	59.564	34.615	0.00	0.00	32.16	2.17
45	56	7.039363	TCGAGGGTTTGGAATTTATGTGAATTT	60.039	33.333	0.00	0.00	29.75	1.82
46	57	7.063308	CGAGGGTTTGGAATTTATGTGAATTTG	59.937	37.037	0.00	0.00	29.75	2.32
47	58	7.744733	AGGGTTTGGAATTTATGTGAATTTGT	58.255	30.769	0.00	0.00	29.75	2.83
60	71	6.573664	TGTGAATTTGTAGGTCAGGAATTG	57.426	37.500	0.00	0.00	0.00	2.32
135	147	4.954970	CGCCACCTGCCCTTGTGT	62.955	66.667	0.00	0.00	36.24	3.72
136	148	2.521708	GCCACCTGCCCTTGTGTT	60.522	61.111	0.00	0.00	0.00	3.32
151	163	2.514824	GTTGCCCTCGAGCATCCC	60.515	66.667	6.99	0.00	43.64	3.85
164	176	1.454111	CATCCCCTCGACGACTCCT	60.454	63.158	0.00	0.00	0.00	3.69
173	185	0.241213	CGACGACTCCTGAAGCTTCA	59.759	55.000	26.87	26.87	35.57	3.02
175	187	2.266554	GACGACTCCTGAAGCTTCATG	58.733	52.381	28.57	24.87	36.46	3.07
190	202	4.646492	AGCTTCATGTGTTTCTTTTGGTCT	59.354	37.500	0.00	0.00	0.00	3.85
277	299	8.345565	ACAATCAGAAAACATAAACTGACACTC	58.654	33.333	0.00	0.00	41.16	3.51
409	436	4.659088	ACATTAGAGACGTATCACACACG	58.341	43.478	13.45	0.00	44.80	4.49
447	475	4.351938	CGTGTCCCGGTCTTCGCA	62.352	66.667	0.00	0.00	37.59	5.10
577	605	2.126071	ACTCCGACGTCCGCAATG	60.126	61.111	10.58	0.00	36.84	2.82
603	634	2.270205	CTGCTTGGTCTGGCCGAT	59.730	61.111	0.00	0.00	41.21	4.18
640	671	6.183361	GGAGGAGGTCCATGAAATTAGAAGAT	60.183	42.308	0.00	0.00	46.10	2.40
656	887	5.690464	AGAAGATACATCTTTGCAGAGGT	57.310	39.130	4.15	1.31	46.47	3.85
695	926	1.681780	CCTACATGGCGGTGGTCAAAT	60.682	52.381	0.00	0.00	0.00	2.32
730	961	1.048601	TCAACACAGGTCAGAGGTCC	58.951	55.000	0.00	0.00	0.00	4.46
759	990	6.239458	GGACCTCCAATGAACCATTTACAAAA	60.239	38.462	0.00	0.00	31.05	2.44
813	1044	9.657419	AAGATTTGAAACTCACTTGACATTTTT	57.343	25.926	0.00	0.00	0.00	1.94
871	1102	0.109723	TTGTTCCGGGTCCTCTTTGG	59.890	55.000	0.00	0.00	37.10	3.28
909	1140	9.161629	ACTGGTTTGTAATTTCTTTCTTTTTGG	57.838	29.630	0.00	0.00	0.00	3.28
910	1141	8.499403	TGGTTTGTAATTTCTTTCTTTTTGGG	57.501	30.769	0.00	0.00	0.00	4.12
1117	1354	3.241530	TGGTGTTCCTGCGCCTCT	61.242	61.111	4.18	0.00	39.62	3.69
1761	2079	0.764890	CCCCCATCTATTTCGCAGGA	59.235	55.000	0.00	0.00	0.00	3.86
1766	2084	2.547211	CCATCTATTTCGCAGGAAGCAG	59.453	50.000	0.00	0.00	46.13	4.24
1770	2088	0.524862	ATTTCGCAGGAAGCAGCAAG	59.475	50.000	0.00	0.00	46.13	4.01
1772	2090	3.437795	CGCAGGAAGCAGCAAGGG	61.438	66.667	0.00	0.00	46.13	3.95
1773	2091	3.066814	GCAGGAAGCAGCAAGGGG	61.067	66.667	0.00	0.00	44.79	4.79
1774	2092	2.759114	CAGGAAGCAGCAAGGGGA	59.241	61.111	0.00	0.00	0.00	4.81
1775	2093	1.075482	CAGGAAGCAGCAAGGGGAA	59.925	57.895	0.00	0.00	0.00	3.97
1776	2094	0.964358	CAGGAAGCAGCAAGGGGAAG	60.964	60.000	0.00	0.00	0.00	3.46
1777	2095	1.136329	AGGAAGCAGCAAGGGGAAGA	61.136	55.000	0.00	0.00	0.00	2.87
1845	2167	2.707849	GGACACCGCCGAGCTCTTA	61.708	63.158	12.85	0.00	0.00	2.10
1854	2176	1.804372	GCCGAGCTCTTATCTGGTGTG	60.804	57.143	12.85	0.00	0.00	3.82
1896	2218	2.743928	GTGCTCCGGGACAAGCAG	60.744	66.667	15.31	0.00	45.33	4.24
2061	2402	2.889512	AGAGGACCATGTGTGTCTGTA	58.110	47.619	0.00	0.00	33.22	2.74
2138	2506	6.237915	GGATTGTTTCTTGTTGCTGTTTTGAG	60.238	38.462	0.00	0.00	0.00	3.02
2153	2521	7.174772	TGCTGTTTTGAGCATTTATCTGTTCTA	59.825	33.333	0.00	0.00	44.16	2.10
2227	2599	4.994852	TCCGGTCTTCAGTTTACTTTCATG	59.005	41.667	0.00	0.00	0.00	3.07
2371	2743	4.079253	TCTGTTGAAATTCCTAAGGCACC	58.921	43.478	0.00	0.00	0.00	5.01
2377	2749	4.522789	TGAAATTCCTAAGGCACCTTGAAC	59.477	41.667	12.29	0.00	37.47	3.18
2389	2761	8.861086	TAAGGCACCTTGAACAAAATATGTTTA	58.139	29.630	12.29	0.00	43.23	2.01
2410	2782	7.663905	TGTTTATTTTAGAGAAAGGCTACTGCA	59.336	33.333	0.00	0.00	41.91	4.41
2418	2790	2.867109	AAGGCTACTGCACAAGATGT	57.133	45.000	0.00	0.00	41.91	3.06
2435	2807	7.752239	CACAAGATGTCAAAAACCATCTCATAC	59.248	37.037	2.90	0.00	45.32	2.39
2436	2808	6.668541	AGATGTCAAAAACCATCTCATACG	57.331	37.500	0.00	0.00	43.21	3.06
2452	2835	1.999048	TACGTAATTGGCCGTCTGTG	58.001	50.000	0.00	0.00	38.43	3.66
2461	2844	4.320456	CCGTCTGTGTGCCAGCCT	62.320	66.667	0.00	0.00	41.25	4.58
2462	2845	2.656646	CGTCTGTGTGCCAGCCTA	59.343	61.111	0.00	0.00	41.25	3.93
2463	2846	1.219124	CGTCTGTGTGCCAGCCTAT	59.781	57.895	0.00	0.00	41.25	2.57
2464	2847	0.459899	CGTCTGTGTGCCAGCCTATA	59.540	55.000	0.00	0.00	41.25	1.31
2501	2885	4.141088	TGTCCTAGGGTTATAGATGGTCGT	60.141	45.833	9.46	0.00	0.00	4.34
2570	2954	6.639632	ATGAAGATGGTTTGCGCTAAATAT	57.360	33.333	9.73	5.22	0.00	1.28
2694	3078	8.340443	GGTTTAACTTACAAGTGTTGTAGGAAG	58.660	37.037	13.93	7.36	45.92	3.46
2720	3104	4.494091	TTGAAAAATGCCAAAGGACCAA	57.506	36.364	0.00	0.00	0.00	3.67
2721	3105	4.703379	TGAAAAATGCCAAAGGACCAAT	57.297	36.364	0.00	0.00	0.00	3.16
2722	3106	5.046288	TGAAAAATGCCAAAGGACCAATT	57.954	34.783	0.00	0.00	0.00	2.32
2723	3107	5.062528	TGAAAAATGCCAAAGGACCAATTC	58.937	37.500	0.00	0.00	0.00	2.17
2724	3108	4.980339	AAAATGCCAAAGGACCAATTCT	57.020	36.364	0.00	0.00	0.00	2.40
2725	3109	4.980339	AAATGCCAAAGGACCAATTCTT	57.020	36.364	0.00	0.00	0.00	2.52
2726	3110	3.967332	ATGCCAAAGGACCAATTCTTG	57.033	42.857	0.00	0.00	0.00	3.02
2786	3171	4.603231	TGTTGGTCGTGTTTGTAGAAAC	57.397	40.909	8.49	8.49	41.72	2.78
2797	3182	6.238374	CGTGTTTGTAGAAACTTTCATGGTCT	60.238	38.462	15.66	0.00	41.87	3.85
2858	3249	9.934190	GTTTTAACAGTTTTCGATGTAGGTTTA	57.066	29.630	0.00	0.00	0.00	2.01
2875	3266	4.166919	AGGTTTAGGGCAGAGCATTAGATT	59.833	41.667	0.00	0.00	0.00	2.40
2877	3268	5.221126	GGTTTAGGGCAGAGCATTAGATTTG	60.221	44.000	0.00	0.00	0.00	2.32
2891	3282	2.306847	AGATTTGGGCGAACAGTTTGT	58.693	42.857	2.33	0.00	0.00	2.83
2892	3283	2.034558	AGATTTGGGCGAACAGTTTGTG	59.965	45.455	2.33	0.00	0.00	3.33
2893	3284	1.464734	TTTGGGCGAACAGTTTGTGA	58.535	45.000	2.33	0.00	0.00	3.58
2919	3318	1.266175	GTGATGATATGTGGCAGCAGC	59.734	52.381	0.00	0.00	41.10	5.25
2939	3338	2.619332	GCTCCAGTCTCCACTCTCTGTA	60.619	54.545	0.00	0.00	0.00	2.74
2951	3350	3.002862	CACTCTCTGTATAGCGAGGTCAC	59.997	52.174	10.72	0.00	39.53	3.67
2952	3351	2.210961	TCTCTGTATAGCGAGGTCACG	58.789	52.381	0.00	0.00	0.00	4.35

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
14	15	0.676782	ATTCCAAACCCTCGAAGCGG	60.677	55.000	0.00	0.00	0.00	5.52
19	20	4.912586	TCACATAAATTCCAAACCCTCGA	58.087	39.130	0.00	0.00	0.00	4.04
38	49	5.710099	TCCAATTCCTGACCTACAAATTCAC	59.290	40.000	0.00	0.00	0.00	3.18
39	50	5.886609	TCCAATTCCTGACCTACAAATTCA	58.113	37.500	0.00	0.00	0.00	2.57
40	51	6.603201	TGATCCAATTCCTGACCTACAAATTC	59.397	38.462	0.00	0.00	0.00	2.17
41	52	6.493166	TGATCCAATTCCTGACCTACAAATT	58.507	36.000	0.00	0.00	0.00	1.82
42	53	6.078456	TGATCCAATTCCTGACCTACAAAT	57.922	37.500	0.00	0.00	0.00	2.32
43	54	5.512942	TGATCCAATTCCTGACCTACAAA	57.487	39.130	0.00	0.00	0.00	2.83
44	55	5.512942	TTGATCCAATTCCTGACCTACAA	57.487	39.130	0.00	0.00	0.00	2.41
45	56	5.512942	TTTGATCCAATTCCTGACCTACA	57.487	39.130	0.00	0.00	0.00	2.74
46	57	5.300286	CCATTTGATCCAATTCCTGACCTAC	59.700	44.000	0.00	0.00	0.00	3.18
47	58	5.193527	TCCATTTGATCCAATTCCTGACCTA	59.806	40.000	0.00	0.00	0.00	3.08
60	71	1.303309	CGTGAGCCTCCATTTGATCC	58.697	55.000	0.00	0.00	0.00	3.36
135	147	3.797353	GGGGATGCTCGAGGGCAA	61.797	66.667	15.58	0.00	45.68	4.52
136	148	4.804420	AGGGGATGCTCGAGGGCA	62.804	66.667	15.58	8.34	46.63	5.36
151	163	1.137825	GCTTCAGGAGTCGTCGAGG	59.862	63.158	0.00	0.00	0.00	4.63
164	176	5.105392	ACCAAAAGAAACACATGAAGCTTCA	60.105	36.000	30.23	30.23	42.14	3.02
205	217	1.071071	CCTACGGAGGTCCAAACACAA	59.929	52.381	5.14	0.00	38.16	3.33
206	218	0.682852	CCTACGGAGGTCCAAACACA	59.317	55.000	5.14	0.00	38.16	3.72
255	277	6.821160	TGTGAGTGTCAGTTTATGTTTTCTGA	59.179	34.615	0.00	0.00	35.06	3.27
391	416	2.011947	CCCGTGTGTGATACGTCTCTA	58.988	52.381	0.00	0.00	39.76	2.43
432	459	1.982395	AGATGCGAAGACCGGGACA	60.982	57.895	6.32	0.00	39.04	4.02
447	475	3.643763	GTCGCTCCGATATTGAACAGAT	58.356	45.455	0.00	0.00	38.42	2.90
603	634	1.147191	ACCTCCTCCTCCGTGCATATA	59.853	52.381	0.00	0.00	0.00	0.86
640	671	4.763073	CAGATCACCTCTGCAAAGATGTA	58.237	43.478	0.00	0.00	44.73	2.29
652	883	5.039333	GCATTATTTTGCACAGATCACCTC	58.961	41.667	0.00	0.00	42.31	3.85
656	887	5.651576	TGTAGGCATTATTTTGCACAGATCA	59.348	36.000	0.00	0.00	44.59	2.92
695	926	0.829990	TTGACCGGCTAGCATGATGA	59.170	50.000	18.24	0.00	0.00	2.92
730	961	3.931907	TGGTTCATTGGAGGTCCTATG	57.068	47.619	12.68	12.68	46.15	2.23
781	1012	8.787852	GTCAAGTGAGTTTCAAATCTTTAGGAT	58.212	33.333	0.00	0.00	35.97	3.24
783	1014	7.930217	TGTCAAGTGAGTTTCAAATCTTTAGG	58.070	34.615	0.00	0.00	0.00	2.69
784	1015	9.956720	AATGTCAAGTGAGTTTCAAATCTTTAG	57.043	29.630	0.00	0.00	0.00	1.85
787	1018	9.657419	AAAAATGTCAAGTGAGTTTCAAATCTT	57.343	25.926	0.00	0.00	0.00	2.40
813	1044	4.190001	TGCGCGGTCCTAATTATTTTACA	58.810	39.130	8.83	0.00	0.00	2.41
910	1141	1.079057	GGCAAGGGTCTCGAAGGAC	60.079	63.158	0.00	0.00	35.66	3.85
1099	1336	3.050275	GAGGCGCAGGAACACCAC	61.050	66.667	10.83	0.00	0.00	4.16
1368	1618	3.441290	CGCGGGAGGAAGTCGAGT	61.441	66.667	0.00	0.00	0.00	4.18
1389	1639	2.098298	CCGCAATCGCCAAACTCG	59.902	61.111	0.00	0.00	33.11	4.18
1437	1687	0.967887	CCGAGTGGAAGAGGAGCAGA	60.968	60.000	0.00	0.00	37.49	4.26
1761	2079	1.381851	CCTCTTCCCCTTGCTGCTT	59.618	57.895	0.00	0.00	0.00	3.91
1766	2084	2.041115	GCGAACCTCTTCCCCTTGC	61.041	63.158	0.00	0.00	0.00	4.01
1787	2105	0.666577	GTTGTCTCCGACCGTCCAAG	60.667	60.000	0.00	0.00	0.00	3.61
1788	2106	1.364901	GTTGTCTCCGACCGTCCAA	59.635	57.895	0.00	0.00	0.00	3.53
1845	2167	2.927856	TCCGGCACCACACCAGAT	60.928	61.111	0.00	0.00	0.00	2.90
1935	2257	0.989164	TTACGCAAGCTTCGATCGTG	59.011	50.000	15.94	10.49	45.62	4.35
2061	2402	4.535781	TGTTTGCCACTTGATGCCTATAT	58.464	39.130	0.00	0.00	0.00	0.86
2206	2574	6.539649	TTCATGAAAGTAAACTGAAGACCG	57.460	37.500	5.45	0.00	0.00	4.79
2227	2599	6.534793	TCTCCAAAACAAGCAATTTCACTTTC	59.465	34.615	0.00	0.00	0.00	2.62
2257	2629	9.261180	GCAAGTATATGCTTCATAGTCAAACTA	57.739	33.333	2.71	0.00	43.06	2.24
2389	2761	5.560724	TGTGCAGTAGCCTTTCTCTAAAAT	58.439	37.500	0.00	0.00	41.13	1.82
2406	2778	4.044336	TGGTTTTTGACATCTTGTGCAG	57.956	40.909	0.00	0.00	0.00	4.41
2418	2790	7.627513	GCCAATTACGTATGAGATGGTTTTTGA	60.628	37.037	0.00	0.00	0.00	2.69
2435	2807	0.442310	CACACAGACGGCCAATTACG	59.558	55.000	2.24	0.00	0.00	3.18
2436	2808	0.168128	GCACACAGACGGCCAATTAC	59.832	55.000	2.24	0.00	0.00	1.89
2461	2844	7.202383	CCCTAGGACACCCTGCCTATATATATA	60.202	44.444	11.48	2.49	44.15	0.86
2462	2845	6.413325	CCCTAGGACACCCTGCCTATATATAT	60.413	46.154	11.48	0.00	44.15	0.86
2463	2846	5.103215	CCCTAGGACACCCTGCCTATATATA	60.103	48.000	11.48	0.00	44.15	0.86
2464	2847	4.327010	CCCTAGGACACCCTGCCTATATAT	60.327	50.000	11.48	0.00	44.15	0.86
2570	2954	7.727578	TCCTGCGGTATTTATCTAATATCCA	57.272	36.000	0.00	0.00	31.61	3.41
2588	2972	0.657368	GCTGTCGTTTGTTTCCTGCG	60.657	55.000	0.00	0.00	0.00	5.18
2596	2980	6.613755	ACTTTAACATTAGCTGTCGTTTGT	57.386	33.333	0.00	0.00	36.98	2.83
2602	2986	5.880887	AGGCCTAACTTTAACATTAGCTGTC	59.119	40.000	1.29	0.00	36.98	3.51
2674	3058	7.120923	TCTTCTTCCTACAACACTTGTAAGT	57.879	36.000	0.00	0.00	44.80	2.24
2694	3078	5.409520	GGTCCTTTGGCATTTTTCAATCTTC	59.590	40.000	0.00	0.00	0.00	2.87
2739	3123	7.996098	ACCTTCCGAGAATATTCTTCAAAAA	57.004	32.000	18.88	8.81	37.73	1.94
2740	3124	7.996098	AACCTTCCGAGAATATTCTTCAAAA	57.004	32.000	18.88	10.29	37.73	2.44
2741	3125	7.447238	ACAAACCTTCCGAGAATATTCTTCAAA	59.553	33.333	18.88	11.80	37.73	2.69
2742	3126	6.940298	ACAAACCTTCCGAGAATATTCTTCAA	59.060	34.615	18.88	10.85	37.73	2.69
2743	3127	6.472887	ACAAACCTTCCGAGAATATTCTTCA	58.527	36.000	18.88	3.93	37.73	3.02
2744	3128	6.986904	ACAAACCTTCCGAGAATATTCTTC	57.013	37.500	18.88	11.08	37.73	2.87
2745	3129	6.151144	CCAACAAACCTTCCGAGAATATTCTT	59.849	38.462	18.88	3.47	37.73	2.52
2746	3130	5.648092	CCAACAAACCTTCCGAGAATATTCT	59.352	40.000	17.96	17.96	41.00	2.40
2747	3131	5.414765	ACCAACAAACCTTCCGAGAATATTC	59.585	40.000	7.41	7.41	0.00	1.75
2748	3132	5.321927	ACCAACAAACCTTCCGAGAATATT	58.678	37.500	0.00	0.00	0.00	1.28
2749	3133	4.918588	ACCAACAAACCTTCCGAGAATAT	58.081	39.130	0.00	0.00	0.00	1.28
2750	3134	4.320870	GACCAACAAACCTTCCGAGAATA	58.679	43.478	0.00	0.00	0.00	1.75
2858	3249	2.423947	CCCAAATCTAATGCTCTGCCCT	60.424	50.000	0.00	0.00	0.00	5.19
2875	3266	1.336440	CATCACAAACTGTTCGCCCAA	59.664	47.619	0.00	0.00	0.00	4.12
2877	3268	1.234821	TCATCACAAACTGTTCGCCC	58.765	50.000	0.00	0.00	0.00	6.13
2891	3282	5.438833	TGCCACATATCATCACTTTCATCA	58.561	37.500	0.00	0.00	0.00	3.07
2892	3283	5.562307	GCTGCCACATATCATCACTTTCATC	60.562	44.000	0.00	0.00	0.00	2.92
2893	3284	4.277672	GCTGCCACATATCATCACTTTCAT	59.722	41.667	0.00	0.00	0.00	2.57
2919	3318	2.214376	ACAGAGAGTGGAGACTGGAG	57.786	55.000	0.00	0.00	35.08	3.86
2939	3338	2.494918	GCCACGTGACCTCGCTAT	59.505	61.111	19.30	0.00	0.00	2.97

Based at the University of Bristol with support from BBSRC.

AutoCloner maintained by Alex Coulton.