AutoCloner

Multiple sequence alignment - TraesCS7D01G399800

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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	TraesCS7D01G399800	chr7D	100.000	2693	0	0	1	2693	515823899	515826591	0.000000e+00	4974.0
1	TraesCS7D01G399800	chr7D	76.801	569	96	17	2142	2680	577796095	577796657	1.220000e-73	287.0
2	TraesCS7D01G399800	chr7D	79.935	309	53	8	2352	2658	575755224	575754923	4.510000e-53	219.0
3	TraesCS7D01G399800	chr7D	80.000	130	24	2	2142	2271	572037663	572037536	7.940000e-16	95.3
4	TraesCS7D01G399800	chr7A	90.765	2718	137	40	6	2669	589456332	589458989	0.000000e+00	3524.0
5	TraesCS7D01G399800	chr7A	76.966	534	86	21	2142	2646	669875116	669875641	1.230000e-68	270.0
6	TraesCS7D01G399800	chr7A	80.392	306	57	3	2352	2656	634469865	634469562	2.090000e-56	230.0
7	TraesCS7D01G399800	chr7A	100.000	31	0	0	2189	2219	202529356	202529386	1.040000e-04	58.4
8	TraesCS7D01G399800	chr7B	91.799	1634	74	23	356	1951	548165243	548166854	0.000000e+00	2220.0
9	TraesCS7D01G399800	chr7B	93.421	152	9	1	1	152	548164829	548164979	9.700000e-55	224.0
10	TraesCS7D01G399800	chr4A	78.309	544	82	17	2140	2658	560406366	560405834	4.330000e-83	318.0
11	TraesCS7D01G399800	chr4A	75.958	287	47	17	2205	2474	24802156	24802437	7.830000e-26	128.0
12	TraesCS7D01G399800	chr4A	78.481	158	24	10	2142	2293	78816842	78816689	7.940000e-16	95.3
13	TraesCS7D01G399800	chr2D	77.210	509	78	16	2138	2614	416866633	416867135	2.060000e-66	263.0
14	TraesCS7D01G399800	chr3B	81.419	296	51	4	2352	2646	244618019	244618311	3.470000e-59	239.0
15	TraesCS7D01G399800	chr4D	77.130	446	69	17	2195	2614	29757047	29757485	7.500000e-56	228.0
16	TraesCS7D01G399800	chr4D	77.101	345	44	14	2208	2522	29688907	29689246	1.660000e-37	167.0
17	TraesCS7D01G399800	chr2B	75.835	509	89	9	2138	2613	488873716	488874223	7.500000e-56	228.0
18	TraesCS7D01G399800	chr4B	78.717	343	64	9	2352	2689	592812130	592811792	1.260000e-53	220.0
19	TraesCS7D01G399800	chr5D	77.949	390	59	12	2283	2650	495361143	495360759	4.510000e-53	219.0
20	TraesCS7D01G399800	chr5D	78.042	378	44	16	2195	2548	490160646	490161008	4.550000e-48	202.0
21	TraesCS7D01G399800	chr5D	78.261	138	23	6	2142	2277	511885562	511885430	6.180000e-12	82.4
22	TraesCS7D01G399800	chr1D	74.414	555	112	16	2142	2671	38296653	38297202	7.550000e-51	211.0
23	TraesCS7D01G399800	chr5A	84.685	111	16	1	2142	2252	501882821	501882930	2.830000e-20	110.0
24	TraesCS7D01G399800	chr6A	78.295	129	16	7	2235	2354	560743379	560743504	3.720000e-09	73.1
25	TraesCS7D01G399800	chr2A	80.208	96	15	4	2144	2237	605001643	605001736	4.810000e-08	69.4

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	TraesCS7D01G399800	chr7D	515823899	515826591	2692	False	4974	4974	100.000	1	2693	1	chr7D.!!$F1	2692
1	TraesCS7D01G399800	chr7D	577796095	577796657	562	False	287	287	76.801	2142	2680	1	chr7D.!!$F2	538
2	TraesCS7D01G399800	chr7A	589456332	589458989	2657	False	3524	3524	90.765	6	2669	1	chr7A.!!$F2	2663
3	TraesCS7D01G399800	chr7A	669875116	669875641	525	False	270	270	76.966	2142	2646	1	chr7A.!!$F3	504
4	TraesCS7D01G399800	chr7B	548164829	548166854	2025	False	1222	2220	92.610	1	1951	2	chr7B.!!$F1	1950
5	TraesCS7D01G399800	chr4A	560405834	560406366	532	True	318	318	78.309	2140	2658	1	chr4A.!!$R2	518
6	TraesCS7D01G399800	chr2D	416866633	416867135	502	False	263	263	77.210	2138	2614	1	chr2D.!!$F1	476
7	TraesCS7D01G399800	chr2B	488873716	488874223	507	False	228	228	75.835	2138	2613	1	chr2B.!!$F1	475
8	TraesCS7D01G399800	chr1D	38296653	38297202	549	False	211	211	74.414	2142	2671	1	chr1D.!!$F1	529

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
595	685	0.936297	CAAAGGCAAACGCTGTCTGC	60.936	55.0	0.0	0.0	39.84	4.26	F

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability	Orientation
2265	2399	0.109319	CCCTTTGGTTCCGATTTGCG	60.109	55.0	0.0	0.0	40.47	4.85	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
163	164	7.441890	TTCAATAAGAAAGCACGTATTTCCA	57.558	32.000	17.30	9.49	37.37	3.53
164	165	6.837992	TCAATAAGAAAGCACGTATTTCCAC	58.162	36.000	17.30	0.14	37.37	4.02
165	166	6.428465	TCAATAAGAAAGCACGTATTTCCACA	59.572	34.615	17.30	7.38	37.37	4.17
166	167	4.483476	AAGAAAGCACGTATTTCCACAC	57.517	40.909	17.30	0.00	37.37	3.82
167	168	3.472652	AGAAAGCACGTATTTCCACACA	58.527	40.909	17.30	0.00	37.37	3.72
168	169	3.880490	AGAAAGCACGTATTTCCACACAA	59.120	39.130	17.30	0.00	37.37	3.33
169	170	4.518970	AGAAAGCACGTATTTCCACACAAT	59.481	37.500	17.30	0.59	37.37	2.71
170	171	4.846779	AAGCACGTATTTCCACACAATT	57.153	36.364	0.00	0.00	0.00	2.32
171	172	4.159377	AGCACGTATTTCCACACAATTG	57.841	40.909	3.24	3.24	0.00	2.32
172	173	2.661195	GCACGTATTTCCACACAATTGC	59.339	45.455	5.05	0.00	0.00	3.56
201	202	4.201950	CCAAACTGGATTTCTATCGGCAAG	60.202	45.833	0.00	0.00	40.96	4.01
217	218	3.607078	CGGCAAGTTCTCAACAAAGTAGC	60.607	47.826	0.00	0.00	0.00	3.58
260	271	6.434028	AGTTTTTGGATATGAGCACTAGCAAA	59.566	34.615	0.00	0.00	45.49	3.68
261	272	6.832520	TTTTGGATATGAGCACTAGCAAAA	57.167	33.333	0.00	0.00	45.49	2.44
262	273	6.832520	TTTGGATATGAGCACTAGCAAAAA	57.167	33.333	0.00	0.00	45.49	1.94
351	439	4.769688	TGAGCATAACCAACAGATACCAG	58.230	43.478	0.00	0.00	0.00	4.00
352	440	3.545703	AGCATAACCAACAGATACCAGC	58.454	45.455	0.00	0.00	0.00	4.85
353	441	3.200825	AGCATAACCAACAGATACCAGCT	59.799	43.478	0.00	0.00	0.00	4.24
354	442	3.947834	GCATAACCAACAGATACCAGCTT	59.052	43.478	0.00	0.00	0.00	3.74
595	685	0.936297	CAAAGGCAAACGCTGTCTGC	60.936	55.000	0.00	0.00	39.84	4.26
726	818	1.404986	CGTCTAGAAATTCCGGTGGCA	60.405	52.381	0.00	0.00	0.00	4.92
735	827	2.755469	CCGGTGGCAATTGGGGAG	60.755	66.667	7.72	0.00	0.00	4.30
744	836	1.004745	GCAATTGGGGAGAAGAGACCA	59.995	52.381	7.72	0.00	0.00	4.02
811	903	1.301401	CTTCCGCTTCCGTGTCCAA	60.301	57.895	0.00	0.00	0.00	3.53
815	907	2.027625	CGCTTCCGTGTCCAACTCC	61.028	63.158	0.00	0.00	0.00	3.85
845	937	5.392595	GGCCGTCATAATTGCTGTTTTCTTA	60.393	40.000	0.00	0.00	0.00	2.10
856	948	3.251004	GCTGTTTTCTTATATGGGCCTCG	59.749	47.826	4.53	0.00	0.00	4.63
860	952	4.336889	TTTCTTATATGGGCCTCGACTG	57.663	45.455	4.53	0.00	0.00	3.51
977	1072	3.005897	TCTGGAGGAGAAAGAAACTCGTG	59.994	47.826	0.00	0.00	35.49	4.35
1693	1788	2.286772	CCGGTGCGCAATAGGAATTAAC	60.287	50.000	14.00	0.00	0.00	2.01
1715	1810	5.824429	ACATATGCTGTTATCATGTTGTGC	58.176	37.500	1.58	0.00	32.90	4.57
1783	1899	5.171339	ACTCCAGTATGTTTCTTCTGCAT	57.829	39.130	0.00	0.00	0.00	3.96
1791	1915	7.272731	CAGTATGTTTCTTCTGCATTGTTCATG	59.727	37.037	0.00	0.00	35.73	3.07
1828	1952	2.825086	GCAACCCGCACAGTTATTAG	57.175	50.000	0.00	0.00	41.79	1.73
1829	1953	2.081462	GCAACCCGCACAGTTATTAGT	58.919	47.619	0.00	0.00	41.79	2.24
1830	1954	2.095372	GCAACCCGCACAGTTATTAGTC	59.905	50.000	0.00	0.00	41.79	2.59
1831	1955	3.331150	CAACCCGCACAGTTATTAGTCA	58.669	45.455	0.00	0.00	0.00	3.41
1837	1968	4.106197	CGCACAGTTATTAGTCACTCTCC	58.894	47.826	0.00	0.00	0.00	3.71
1838	1969	4.380550	CGCACAGTTATTAGTCACTCTCCA	60.381	45.833	0.00	0.00	0.00	3.86
1844	1975	7.284489	ACAGTTATTAGTCACTCTCCATCTCTC	59.716	40.741	0.00	0.00	0.00	3.20
1848	1979	2.311542	AGTCACTCTCCATCTCTCCACT	59.688	50.000	0.00	0.00	0.00	4.00
1874	2005	3.399330	GGATGTCGAAGTGTTTCTTCCA	58.601	45.455	0.00	0.00	46.97	3.53
1914	2045	2.094494	TGAGCTTCGAGACCAGATTCAC	60.094	50.000	0.00	0.00	0.00	3.18
1921	2052	2.613977	CGAGACCAGATTCACCTTTGCT	60.614	50.000	0.00	0.00	0.00	3.91
1967	2100	8.788813	GCTGAAACAAACAGTTATATCAAATCG	58.211	33.333	0.00	0.00	40.26	3.34
1999	2132	6.336842	AGTGAAGCTGAATTTGTTAGCATT	57.663	33.333	0.00	0.00	39.84	3.56
2002	2135	6.810182	GTGAAGCTGAATTTGTTAGCATTCAT	59.190	34.615	0.00	0.00	38.45	2.57
2060	2193	2.288213	TGTACTTCAAGCGAGTCCACAG	60.288	50.000	0.00	0.00	0.00	3.66
2065	2198	3.953712	TCAAGCGAGTCCACAGATAAA	57.046	42.857	0.00	0.00	0.00	1.40
2066	2199	4.471904	TCAAGCGAGTCCACAGATAAAT	57.528	40.909	0.00	0.00	0.00	1.40
2067	2200	5.592104	TCAAGCGAGTCCACAGATAAATA	57.408	39.130	0.00	0.00	0.00	1.40
2070	2203	7.047891	TCAAGCGAGTCCACAGATAAATAAAT	58.952	34.615	0.00	0.00	0.00	1.40
2094	2227	7.048629	TCCAATCAAAGCTGAAACAAACATA	57.951	32.000	0.00	0.00	34.49	2.29
2100	2233	6.037720	TCAAAGCTGAAACAAACATAACTCGA	59.962	34.615	0.00	0.00	0.00	4.04
2135	2268	5.760253	CCTACATAACGGAAGAATCTGCAAT	59.240	40.000	0.00	0.00	35.16	3.56
2148	2281	5.188359	AGAATCTGCAATTGTTTAGGGCATT	59.812	36.000	7.40	0.74	33.50	3.56
2203	2336	1.591703	GATCGTGCTGTCTGGACCA	59.408	57.895	0.00	0.00	33.10	4.02
2389	2577	0.611896	CGCCAAAATCCCCCACTCTT	60.612	55.000	0.00	0.00	0.00	2.85
2401	2591	1.912043	CCCACTCTTGTCTTCCATCCT	59.088	52.381	0.00	0.00	0.00	3.24
2453	2643	1.988846	CTCCCACCCTCTTCTTCCTTT	59.011	52.381	0.00	0.00	0.00	3.11
2469	2659	3.867700	TTTCGCCACCGACGCATGA	62.868	57.895	0.00	0.00	44.30	3.07
2536	2726	1.542030	GGATCCGAGTATCACGCTCAT	59.458	52.381	0.00	0.00	33.45	2.90
2549	2739	0.387202	CGCTCATCCGGAAGATCAGT	59.613	55.000	9.01	0.00	30.59	3.41
2561	2751	1.063649	GATCAGTTCGGCTACGCGA	59.936	57.895	15.93	0.00	40.69	5.87
2568	2758	0.598158	TTCGGCTACGCGACAAACTT	60.598	50.000	15.93	0.00	40.69	2.66
2579	2769	0.657368	GACAAACTTGCCGCGTGAAG	60.657	55.000	4.92	9.12	0.00	3.02
2597	2787	3.924507	GCGAAGGCCACAATGGAT	58.075	55.556	5.01	0.00	40.96	3.41
2603	2793	2.134789	AGGCCACAATGGATGAGAAC	57.865	50.000	5.01	0.00	40.96	3.01
2623	2813	0.108615	CTCAAGAAGCGGATGGTCGT	60.109	55.000	0.00	0.00	0.00	4.34
2626	2816	2.558554	AAGAAGCGGATGGTCGTCGG	62.559	60.000	0.00	0.00	0.00	4.79
2627	2817	3.352338	GAAGCGGATGGTCGTCGGT	62.352	63.158	0.00	0.00	36.13	4.69
2631	2821	2.654877	GGATGGTCGTCGGTGTGT	59.345	61.111	0.00	0.00	0.00	3.72

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
3	4	2.099263	TCGAATTGACTCGAGATCCCAC	59.901	50.000	21.68	5.46	42.69	4.61
134	135	9.691362	AAATACGTGCTTTCTTATTGAAATGTT	57.309	25.926	0.00	0.00	42.96	2.71
136	137	8.798153	GGAAATACGTGCTTTCTTATTGAAATG	58.202	33.333	18.84	0.00	42.96	2.32
144	145	5.057819	TGTGTGGAAATACGTGCTTTCTTA	58.942	37.500	18.84	10.11	33.93	2.10
149	150	4.545610	CAATTGTGTGGAAATACGTGCTT	58.454	39.130	0.00	0.00	0.00	3.91
150	151	3.611530	GCAATTGTGTGGAAATACGTGCT	60.612	43.478	7.40	0.00	0.00	4.40
151	152	2.661195	GCAATTGTGTGGAAATACGTGC	59.339	45.455	7.40	0.00	0.00	5.34
152	153	3.894920	TGCAATTGTGTGGAAATACGTG	58.105	40.909	7.40	0.00	0.00	4.49
153	154	4.037446	ACTTGCAATTGTGTGGAAATACGT	59.963	37.500	7.40	0.00	0.00	3.57
154	155	4.545610	ACTTGCAATTGTGTGGAAATACG	58.454	39.130	7.40	0.00	0.00	3.06
155	156	5.405269	GGAACTTGCAATTGTGTGGAAATAC	59.595	40.000	7.40	0.00	0.00	1.89
156	157	5.069648	TGGAACTTGCAATTGTGTGGAAATA	59.930	36.000	7.40	0.00	0.00	1.40
157	158	4.141756	TGGAACTTGCAATTGTGTGGAAAT	60.142	37.500	7.40	0.00	0.00	2.17
158	159	3.196469	TGGAACTTGCAATTGTGTGGAAA	59.804	39.130	7.40	0.00	0.00	3.13
159	160	2.762887	TGGAACTTGCAATTGTGTGGAA	59.237	40.909	7.40	0.00	0.00	3.53
160	161	2.382882	TGGAACTTGCAATTGTGTGGA	58.617	42.857	7.40	0.00	0.00	4.02
161	162	2.886862	TGGAACTTGCAATTGTGTGG	57.113	45.000	7.40	0.00	0.00	4.17
162	163	4.033129	CAGTTTGGAACTTGCAATTGTGTG	59.967	41.667	7.40	0.05	40.46	3.82
163	164	4.183101	CAGTTTGGAACTTGCAATTGTGT	58.817	39.130	7.40	1.40	40.46	3.72
164	165	3.556775	CCAGTTTGGAACTTGCAATTGTG	59.443	43.478	7.40	0.77	40.96	3.33
165	166	3.450457	TCCAGTTTGGAACTTGCAATTGT	59.550	39.130	7.40	0.00	45.00	2.71
166	167	4.057406	TCCAGTTTGGAACTTGCAATTG	57.943	40.909	0.00	0.00	45.00	2.32
170	171	9.170983	CGATAGAAATCCAGTTTGGAACTTGCA	62.171	40.741	1.34	0.00	45.93	4.08
171	172	6.893975	CGATAGAAATCCAGTTTGGAACTTGC	60.894	42.308	1.34	0.00	45.93	4.01
172	173	6.403636	CCGATAGAAATCCAGTTTGGAACTTG	60.404	42.308	1.34	0.00	45.93	3.16
194	195	2.639065	ACTTTGTTGAGAACTTGCCGA	58.361	42.857	0.00	0.00	0.00	5.54
201	202	6.793492	AGAAGATGCTACTTTGTTGAGAAC	57.207	37.500	0.00	0.00	0.00	3.01
261	272	9.979578	TGCAAAATGACATGTCTTAGTAATTTT	57.020	25.926	25.55	21.70	38.65	1.82
262	273	9.979578	TTGCAAAATGACATGTCTTAGTAATTT	57.020	25.926	25.55	17.78	31.62	1.82
351	439	9.322776	CTTTTGTTCGATGCTAATATGATAAGC	57.677	33.333	0.00	0.00	36.77	3.09
352	440	9.322776	GCTTTTGTTCGATGCTAATATGATAAG	57.677	33.333	0.00	0.00	0.00	1.73
353	441	8.835439	TGCTTTTGTTCGATGCTAATATGATAA	58.165	29.630	0.00	0.00	0.00	1.75
354	442	8.376889	TGCTTTTGTTCGATGCTAATATGATA	57.623	30.769	0.00	0.00	0.00	2.15
577	667	1.360192	GCAGACAGCGTTTGCCTTT	59.640	52.632	11.33	0.00	44.31	3.11
726	818	1.279271	CGTGGTCTCTTCTCCCCAATT	59.721	52.381	0.00	0.00	0.00	2.32
735	827	2.003301	GGAAGCAATCGTGGTCTCTTC	58.997	52.381	0.00	0.00	33.24	2.87
744	836	3.632145	ACAAAACAGAAGGAAGCAATCGT	59.368	39.130	0.00	0.00	0.00	3.73
815	907	0.664761	CAATTATGACGGCCCAGCAG	59.335	55.000	0.00	0.00	0.00	4.24
828	920	7.510343	AGGCCCATATAAGAAAACAGCAATTAT	59.490	33.333	0.00	0.00	0.00	1.28
856	948	0.462047	CTCGGTTACATGGGCCAGTC	60.462	60.000	13.78	0.00	0.00	3.51
860	952	2.516225	GGCTCGGTTACATGGGCC	60.516	66.667	0.00	0.00	0.00	5.80
942	1037	5.465901	TCTCCTCCAGATGAGAATTGAGAT	58.534	41.667	0.72	0.00	44.42	2.75
943	1038	4.876580	TCTCCTCCAGATGAGAATTGAGA	58.123	43.478	0.72	0.00	44.42	3.27
944	1039	5.611128	TTCTCCTCCAGATGAGAATTGAG	57.389	43.478	10.27	0.00	44.42	3.02
945	1040	5.723405	TCTTTCTCCTCCAGATGAGAATTGA	59.277	40.000	13.82	12.35	44.60	2.57
946	1041	5.987098	TCTTTCTCCTCCAGATGAGAATTG	58.013	41.667	13.82	10.82	44.60	2.32
1460	1555	4.810184	GGGAGCCCCGGGTAGGAA	62.810	72.222	21.85	0.00	45.00	3.36
1693	1788	6.068473	AGCACAACATGATAACAGCATATG	57.932	37.500	0.00	0.00	0.00	1.78
1783	1899	0.398696	AGCCGTGGTACCATGAACAA	59.601	50.000	31.83	0.00	35.09	2.83
1791	1915	1.019805	GCAAAGAGAGCCGTGGTACC	61.020	60.000	4.43	4.43	0.00	3.34
1825	1949	4.017958	AGTGGAGAGATGGAGAGTGACTAA	60.018	45.833	0.00	0.00	0.00	2.24
1827	1951	2.311542	AGTGGAGAGATGGAGAGTGACT	59.688	50.000	0.00	0.00	0.00	3.41
1828	1952	2.426738	CAGTGGAGAGATGGAGAGTGAC	59.573	54.545	0.00	0.00	0.00	3.67
1829	1953	2.732763	CAGTGGAGAGATGGAGAGTGA	58.267	52.381	0.00	0.00	0.00	3.41
1830	1954	1.136695	GCAGTGGAGAGATGGAGAGTG	59.863	57.143	0.00	0.00	0.00	3.51
1831	1955	1.272928	TGCAGTGGAGAGATGGAGAGT	60.273	52.381	0.00	0.00	0.00	3.24
1837	1968	1.129917	ATCCCTGCAGTGGAGAGATG	58.870	55.000	22.98	0.00	34.80	2.90
1838	1969	1.129917	CATCCCTGCAGTGGAGAGAT	58.870	55.000	22.98	8.15	34.80	2.75
1844	1975	0.742281	CTTCGACATCCCTGCAGTGG	60.742	60.000	13.81	13.59	0.00	4.00
1848	1979	0.396435	AACACTTCGACATCCCTGCA	59.604	50.000	0.00	0.00	0.00	4.41
1874	2005	3.941483	CTCAAACAAACAGACCTGAGTGT	59.059	43.478	3.76	4.58	34.42	3.55
1914	2045	4.394300	CAGATTCAGGTTCACTAGCAAAGG	59.606	45.833	0.00	0.00	0.00	3.11
1921	2052	5.012046	TCAGCTTTCAGATTCAGGTTCACTA	59.988	40.000	0.00	0.00	0.00	2.74
1999	2132	3.916359	ATTGCATTGGAAATGGCATGA	57.084	38.095	0.00	0.00	35.98	3.07
2002	2135	3.008157	AGACAATTGCATTGGAAATGGCA	59.992	39.130	13.49	0.00	44.42	4.92
2015	2148	9.463443	ACACTTTAAGATGTTTTAGACAATTGC	57.537	29.630	5.05	0.00	42.62	3.56
2027	2160	6.704493	TCGCTTGAAGTACACTTTAAGATGTT	59.296	34.615	23.35	0.00	46.36	2.71
2034	2167	4.038282	TGGACTCGCTTGAAGTACACTTTA	59.962	41.667	0.00	0.00	36.11	1.85
2065	2198	8.992073	GTTTGTTTCAGCTTTGATTGGATTTAT	58.008	29.630	0.00	0.00	0.00	1.40
2066	2199	7.984050	TGTTTGTTTCAGCTTTGATTGGATTTA	59.016	29.630	0.00	0.00	0.00	1.40
2067	2200	6.822676	TGTTTGTTTCAGCTTTGATTGGATTT	59.177	30.769	0.00	0.00	0.00	2.17
2070	2203	5.336150	TGTTTGTTTCAGCTTTGATTGGA	57.664	34.783	0.00	0.00	0.00	3.53
2094	2227	2.445682	AGGAGTAGGCAGATCGAGTT	57.554	50.000	0.00	0.00	0.00	3.01
2100	2233	3.827302	CCGTTATGTAGGAGTAGGCAGAT	59.173	47.826	0.00	0.00	0.00	2.90
2135	2268	2.297597	CCGTTGGAAATGCCCTAAACAA	59.702	45.455	0.00	0.00	34.97	2.83
2148	2281	2.888464	TTTGTGGGTCGCCGTTGGAA	62.888	55.000	0.00	0.00	0.00	3.53
2265	2399	0.109319	CCCTTTGGTTCCGATTTGCG	60.109	55.000	0.00	0.00	40.47	4.85
2289	2447	1.255667	TTAGCGTGTCTGGACTCCCC	61.256	60.000	2.38	0.00	0.00	4.81
2389	2577	2.721167	CGGCGGAGGATGGAAGACA	61.721	63.158	0.00	0.00	0.00	3.41
2453	2643	3.867700	TTTCATGCGTCGGTGGCGA	62.868	57.895	0.00	0.00	0.00	5.54
2469	2659	1.772979	ACAGGTTCTCCCCCGGTTT	60.773	57.895	0.00	0.00	0.00	3.27
2525	2715	1.687563	TCTTCCGGATGAGCGTGATA	58.312	50.000	15.68	0.00	0.00	2.15
2536	2726	0.970937	AGCCGAACTGATCTTCCGGA	60.971	55.000	0.00	0.00	42.49	5.14
2561	2751	1.355210	CTTCACGCGGCAAGTTTGT	59.645	52.632	12.47	0.00	0.00	2.83
2593	2783	2.354103	CGCTTCTTGAGGTTCTCATCCA	60.354	50.000	0.00	0.00	40.39	3.41
2597	2787	1.338107	TCCGCTTCTTGAGGTTCTCA	58.662	50.000	0.00	0.00	38.87	3.27
2603	2793	0.807667	CGACCATCCGCTTCTTGAGG	60.808	60.000	0.00	0.00	36.94	3.86
2623	2813	2.188207	CCACCACACACACACCGA	59.812	61.111	0.00	0.00	0.00	4.69
2626	2816	2.770589	GCCACCACCACACACACAC	61.771	63.158	0.00	0.00	0.00	3.82
2627	2817	2.439338	GCCACCACCACACACACA	60.439	61.111	0.00	0.00	0.00	3.72
2631	2821	4.866224	CACCGCCACCACCACACA	62.866	66.667	0.00	0.00	0.00	3.72

Based at the University of Bristol with support from BBSRC.

AutoCloner maintained by Alex Coulton.