AutoCloner

Multiple sequence alignment - TraesCS1D01G373400

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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	TraesCS1D01G373400	chr1D	100.000	3329	0	0	1	3329	451245151	451241823	0.000000e+00	6148.0
1	TraesCS1D01G373400	chr1D	93.806	888	54	1	1	888	451141848	451140962	0.000000e+00	1334.0
2	TraesCS1D01G373400	chr1D	95.664	761	25	5	2570	3329	29915671	29914918	0.000000e+00	1216.0
3	TraesCS1D01G373400	chr1D	86.748	981	104	13	94	1063	451196037	451195072	0.000000e+00	1068.0
4	TraesCS1D01G373400	chr1D	89.822	619	35	2	1547	2165	451139846	451139256	0.000000e+00	769.0
5	TraesCS1D01G373400	chr1D	93.056	288	12	3	1265	1552	451140381	451140102	6.640000e-112	414.0
6	TraesCS1D01G373400	chr1D	91.837	147	12	0	1265	1411	473863055	473863201	4.350000e-49	206.0
7	TraesCS1D01G373400	chr7D	95.635	779	14	4	2570	3329	44287328	44286551	0.000000e+00	1232.0
8	TraesCS1D01G373400	chr7D	95.170	766	24	12	2566	3329	519498233	519498987	0.000000e+00	1197.0
9	TraesCS1D01G373400	chr7D	87.234	94	9	3	1321	1411	543393765	543393672	1.630000e-18	104.0
10	TraesCS1D01G373400	chr7D	81.443	97	11	3	2281	2371	575582514	575582419	4.610000e-09	73.1
11	TraesCS1D01G373400	chr3D	95.561	766	20	6	2564	3329	421996872	421997623	0.000000e+00	1214.0
12	TraesCS1D01G373400	chr3D	94.087	761	32	8	2570	3329	563015365	563014617	0.000000e+00	1144.0
13	TraesCS1D01G373400	chr3D	93.161	775	34	15	2564	3329	87571224	87571988	0.000000e+00	1120.0
14	TraesCS1D01G373400	chr1B	91.441	888	67	6	1	884	619530458	619529576	0.000000e+00	1210.0
15	TraesCS1D01G373400	chr1B	88.338	969	100	8	1	960	619545873	619544909	0.000000e+00	1151.0
16	TraesCS1D01G373400	chr1B	87.112	1032	111	13	1547	2569	619429748	619428730	0.000000e+00	1149.0
17	TraesCS1D01G373400	chr1B	87.920	952	64	13	1548	2499	619543078	619542178	0.000000e+00	1074.0
18	TraesCS1D01G373400	chr1B	85.063	1031	130	17	40	1066	619536716	619535706	0.000000e+00	1029.0
19	TraesCS1D01G373400	chr1B	89.629	781	80	1	94	873	619431409	619430629	0.000000e+00	992.0
20	TraesCS1D01G373400	chr1B	88.536	724	44	8	1547	2261	619433421	619432728	0.000000e+00	841.0
21	TraesCS1D01G373400	chr1B	91.978	536	42	1	1548	2083	619585323	619584789	0.000000e+00	750.0
22	TraesCS1D01G373400	chr1B	83.402	723	109	8	56	771	619586893	619586175	0.000000e+00	660.0
23	TraesCS1D01G373400	chr1B	83.725	596	47	28	1016	1579	619544482	619543905	4.920000e-143	518.0
24	TraesCS1D01G373400	chr1B	92.908	282	15	2	1271	1552	619430280	619430004	4.000000e-109	405.0
25	TraesCS1D01G373400	chr1B	85.829	374	25	8	2197	2569	619584516	619584170	4.060000e-99	372.0
26	TraesCS1D01G373400	chr1B	82.410	415	37	12	804	1193	619586106	619585703	2.480000e-86	329.0
27	TraesCS1D01G373400	chr1B	87.037	270	13	4	1220	1474	619529040	619528778	5.440000e-73	285.0
28	TraesCS1D01G373400	chr1B	80.208	288	45	9	804	1087	619543743	619543464	4.350000e-49	206.0
29	TraesCS1D01G373400	chr1B	91.837	147	12	0	1265	1411	658915479	658915625	4.350000e-49	206.0
30	TraesCS1D01G373400	chr1B	87.963	108	8	4	3223	3329	550781	550884	4.510000e-24	122.0
31	TraesCS1D01G373400	chr1B	94.521	73	3	1	1477	1548	619433752	619433680	9.760000e-21	111.0
32	TraesCS1D01G373400	chr1B	96.970	33	0	1	1520	1552	619543366	619543335	2.000000e-03	54.7
33	TraesCS1D01G373400	chr1B	100.000	28	0	0	969	996	619544547	619544520	6.000000e-03	52.8
34	TraesCS1D01G373400	chr2D	93.963	762	36	7	2570	3329	621599950	621599197	0.000000e+00	1144.0
35	TraesCS1D01G373400	chr1A	87.525	986	101	10	94	1063	545908985	545908006	0.000000e+00	1120.0
36	TraesCS1D01G373400	chr1A	89.013	892	69	12	1	888	545897746	545896880	0.000000e+00	1077.0
37	TraesCS1D01G373400	chr1A	85.087	865	107	15	1714	2569	545895704	545894853	0.000000e+00	863.0
38	TraesCS1D01G373400	chr1A	88.218	348	18	5	1220	1552	545896438	545896099	8.660000e-106	394.0
39	TraesCS1D01G373400	chr1A	91.837	147	12	0	1265	1411	568108914	568109060	4.350000e-49	206.0
40	TraesCS1D01G373400	chr1A	97.368	76	2	0	1148	1223	545896723	545896648	2.700000e-26	130.0
41	TraesCS1D01G373400	chr1A	96.429	56	2	0	1168	1223	9255276	9255221	3.540000e-15	93.5
42	TraesCS1D01G373400	chr1A	96.429	56	2	0	1168	1223	516149160	516149215	3.540000e-15	93.5
43	TraesCS1D01G373400	chrUn	92.328	769	42	8	2570	3329	112917770	112917010	0.000000e+00	1077.0
44	TraesCS1D01G373400	chr5D	92.786	707	36	10	2570	3274	563436483	563435790	0.000000e+00	1009.0
45	TraesCS1D01G373400	chr3B	86.726	113	11	2	3221	3329	65134588	65134700	4.510000e-24	122.0
46	TraesCS1D01G373400	chr6D	96.429	56	2	0	1168	1223	318999232	318999287	3.540000e-15	93.5
47	TraesCS1D01G373400	chr6B	96.429	56	2	0	1168	1223	94140119	94140174	3.540000e-15	93.5
48	TraesCS1D01G373400	chr5B	96.429	56	2	0	1168	1223	673112072	673112127	3.540000e-15	93.5
49	TraesCS1D01G373400	chr5A	96.429	56	2	0	1168	1223	364529325	364529270	3.540000e-15	93.5
50	TraesCS1D01G373400	chr2B	96.429	56	2	0	1168	1223	728933442	728933387	3.540000e-15	93.5
51	TraesCS1D01G373400	chr2A	96.429	56	2	0	1168	1223	100973330	100973275	3.540000e-15	93.5

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	TraesCS1D01G373400	chr1D	451241823	451245151	3328	True	6148.000000	6148	100.000000	1	3329	1	chr1D.!!$R3	3328
1	TraesCS1D01G373400	chr1D	29914918	29915671	753	True	1216.000000	1216	95.664000	2570	3329	1	chr1D.!!$R1	759
2	TraesCS1D01G373400	chr1D	451195072	451196037	965	True	1068.000000	1068	86.748000	94	1063	1	chr1D.!!$R2	969
3	TraesCS1D01G373400	chr1D	451139256	451141848	2592	True	839.000000	1334	92.228000	1	2165	3	chr1D.!!$R4	2164
4	TraesCS1D01G373400	chr7D	44286551	44287328	777	True	1232.000000	1232	95.635000	2570	3329	1	chr7D.!!$R1	759
5	TraesCS1D01G373400	chr7D	519498233	519498987	754	False	1197.000000	1197	95.170000	2566	3329	1	chr7D.!!$F1	763
6	TraesCS1D01G373400	chr3D	421996872	421997623	751	False	1214.000000	1214	95.561000	2564	3329	1	chr3D.!!$F2	765
7	TraesCS1D01G373400	chr3D	563014617	563015365	748	True	1144.000000	1144	94.087000	2570	3329	1	chr3D.!!$R1	759
8	TraesCS1D01G373400	chr3D	87571224	87571988	764	False	1120.000000	1120	93.161000	2564	3329	1	chr3D.!!$F1	765
9	TraesCS1D01G373400	chr1B	619535706	619536716	1010	True	1029.000000	1029	85.063000	40	1066	1	chr1B.!!$R1	1026
10	TraesCS1D01G373400	chr1B	619528778	619530458	1680	True	747.500000	1210	89.239000	1	1474	2	chr1B.!!$R3	1473
11	TraesCS1D01G373400	chr1B	619428730	619433752	5022	True	699.600000	1149	90.541200	94	2569	5	chr1B.!!$R2	2475
12	TraesCS1D01G373400	chr1B	619584170	619586893	2723	True	527.750000	750	85.904750	56	2569	4	chr1B.!!$R5	2513
13	TraesCS1D01G373400	chr1B	619542178	619545873	3695	True	509.416667	1151	89.526833	1	2499	6	chr1B.!!$R4	2498
14	TraesCS1D01G373400	chr2D	621599197	621599950	753	True	1144.000000	1144	93.963000	2570	3329	1	chr2D.!!$R1	759
15	TraesCS1D01G373400	chr1A	545908006	545908985	979	True	1120.000000	1120	87.525000	94	1063	1	chr1A.!!$R2	969
16	TraesCS1D01G373400	chr1A	545894853	545897746	2893	True	616.000000	1077	89.921500	1	2569	4	chr1A.!!$R3	2568
17	TraesCS1D01G373400	chrUn	112917010	112917770	760	True	1077.000000	1077	92.328000	2570	3329	1	chrUn.!!$R1	759
18	TraesCS1D01G373400	chr5D	563435790	563436483	693	True	1009.000000	1009	92.786000	2570	3274	1	chr5D.!!$R1	704

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	3173	0.108992	GTACGTCATGCGGGAGTTCA	60.109	55.0	12.85	0.0	46.52	3.18	F
1411	4635	0.038166	AATGGCACCTTCGTCACCAT	59.962	50.0	0.00	0.0	37.50	3.55	F

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability	Orientation
2189	6303	0.322975	ACTTGACTCGATGCCTTGCT	59.677	50.0	0.0	0.0	0.00	3.91	R
2642	6949	1.097547	CCGGGACCAATGCTCACATC	61.098	60.0	0.0	0.0	34.62	3.06	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
46	47	3.558829	CACATCATTGATTCCGGACTCAG	59.441	47.826	22.01	13.32	0.00	3.35
241	2500	4.113354	GTCAACGATGTAGATGAAGGGAC	58.887	47.826	0.00	0.00	0.00	4.46
298	2557	1.971357	TCCGGATTAAGATGAGAGGGC	59.029	52.381	0.00	0.00	0.00	5.19
305	2564	0.531532	AAGATGAGAGGGCGATTGCG	60.532	55.000	0.00	0.00	44.10	4.85
485	2746	0.250124	TTGGCGTCGGTGAAGTCAAT	60.250	50.000	0.00	0.00	31.59	2.57
488	2749	0.949105	GCGTCGGTGAAGTCAATGGT	60.949	55.000	0.00	0.00	0.00	3.55
755	3076	1.758592	CGGAGAAACCAAGGACCCA	59.241	57.895	0.00	0.00	38.90	4.51
852	3173	0.108992	GTACGTCATGCGGGAGTTCA	60.109	55.000	12.85	0.00	46.52	3.18
961	3509	4.397417	GCCACTACCCCTACGTACTATATG	59.603	50.000	0.00	0.00	0.00	1.78
1192	4013	2.360475	GGCGAAGGGAAAGCAGCT	60.360	61.111	0.00	0.00	0.00	4.24
1409	4633	1.586154	CCAATGGCACCTTCGTCACC	61.586	60.000	0.00	0.00	0.00	4.02
1410	4634	0.888736	CAATGGCACCTTCGTCACCA	60.889	55.000	0.00	0.00	31.42	4.17
1411	4635	0.038166	AATGGCACCTTCGTCACCAT	59.962	50.000	0.00	0.00	37.50	3.55
1558	5644	5.784177	TCTGTCTGAAGTATCAAGAACCAC	58.216	41.667	0.00	0.00	34.49	4.16
1561	5647	4.621886	GTCTGAAGTATCAAGAACCACGAC	59.378	45.833	0.00	0.00	34.49	4.34
1691	5777	3.064207	TCATCTTCGCAAGTTACACCAC	58.936	45.455	0.00	0.00	39.48	4.16
1695	5781	0.753867	TCGCAAGTTACACCACAGGA	59.246	50.000	0.00	0.00	39.48	3.86
1705	5791	1.304282	ACCACAGGATGATGGTGCC	59.696	57.895	0.00	0.00	44.75	5.01
1830	5943	6.677920	GCTTATGAGCGTTATGTGACCAAAAT	60.678	38.462	0.00	0.00	39.48	1.82
1886	5999	1.889170	AGCGAATCGATCCTGATGCTA	59.111	47.619	6.91	0.00	28.94	3.49
1904	6017	4.905429	TGCTAATGCAGGTTTGTTAGAGA	58.095	39.130	6.68	0.00	45.31	3.10
1964	6078	2.489722	GGTTCTGACAAAGATCAAGGCC	59.510	50.000	0.00	0.00	33.93	5.19
2062	6176	5.716703	TCAGTCAGGATATGTTCACAGAAGA	59.283	40.000	0.00	0.00	0.00	2.87
2077	6191	3.722101	ACAGAAGAAGGAAGAAGGGGAAA	59.278	43.478	0.00	0.00	0.00	3.13
2148	6262	2.097036	CCAGAAGAAATGAGGCATGCA	58.903	47.619	21.36	0.00	0.00	3.96
2168	6282	3.749226	CAAGGGAAAGCTGAGAAGAAGT	58.251	45.455	0.00	0.00	0.00	3.01
2169	6283	4.140536	CAAGGGAAAGCTGAGAAGAAGTT	58.859	43.478	0.00	0.00	0.00	2.66
2171	6285	3.392616	AGGGAAAGCTGAGAAGAAGTTCA	59.607	43.478	5.50	0.00	34.82	3.18
2181	6295	2.368221	AGAAGAAGTTCAGCAGCAGAGT	59.632	45.455	5.50	0.00	34.82	3.24
2182	6296	2.926778	AGAAGTTCAGCAGCAGAGTT	57.073	45.000	5.50	0.00	0.00	3.01
2183	6297	3.205784	AGAAGTTCAGCAGCAGAGTTT	57.794	42.857	5.50	0.00	0.00	2.66
2184	6298	4.342862	AGAAGTTCAGCAGCAGAGTTTA	57.657	40.909	5.50	0.00	0.00	2.01
2186	6300	3.760580	AGTTCAGCAGCAGAGTTTAGT	57.239	42.857	0.00	0.00	0.00	2.24
2187	6301	4.078639	AGTTCAGCAGCAGAGTTTAGTT	57.921	40.909	0.00	0.00	0.00	2.24
2188	6302	4.455606	AGTTCAGCAGCAGAGTTTAGTTT	58.544	39.130	0.00	0.00	0.00	2.66
2189	6303	5.611374	AGTTCAGCAGCAGAGTTTAGTTTA	58.389	37.500	0.00	0.00	0.00	2.01
2190	6304	5.698545	AGTTCAGCAGCAGAGTTTAGTTTAG	59.301	40.000	0.00	0.00	0.00	1.85
2191	6305	3.997021	TCAGCAGCAGAGTTTAGTTTAGC	59.003	43.478	0.00	0.00	0.00	3.09
2192	6306	3.748048	CAGCAGCAGAGTTTAGTTTAGCA	59.252	43.478	0.00	0.00	0.00	3.49
2193	6307	4.214119	CAGCAGCAGAGTTTAGTTTAGCAA	59.786	41.667	0.00	0.00	0.00	3.91
2194	6308	4.453819	AGCAGCAGAGTTTAGTTTAGCAAG	59.546	41.667	0.00	0.00	0.00	4.01
2195	6309	4.378874	GCAGCAGAGTTTAGTTTAGCAAGG	60.379	45.833	0.00	0.00	0.00	3.61
2196	6310	3.753797	AGCAGAGTTTAGTTTAGCAAGGC	59.246	43.478	0.00	0.00	0.00	4.35
2197	6311	3.502211	GCAGAGTTTAGTTTAGCAAGGCA	59.498	43.478	0.00	0.00	0.00	4.75
2198	6312	4.156739	GCAGAGTTTAGTTTAGCAAGGCAT	59.843	41.667	0.00	0.00	0.00	4.40
2199	6313	5.674820	GCAGAGTTTAGTTTAGCAAGGCATC	60.675	44.000	0.00	0.00	0.00	3.91
2239	6512	5.104776	AGCAAGGCATGAATGAGTAACTAGA	60.105	40.000	0.00	0.00	0.00	2.43
2244	6517	6.765036	AGGCATGAATGAGTAACTAGACATTG	59.235	38.462	0.00	0.00	33.92	2.82
2245	6518	6.540189	GGCATGAATGAGTAACTAGACATTGT	59.460	38.462	0.00	0.00	33.92	2.71
2280	6576	5.470845	GCATTTATGTGCTTTCTCGTACT	57.529	39.130	0.00	0.00	41.82	2.73
2281	6577	5.869350	GCATTTATGTGCTTTCTCGTACTT	58.131	37.500	0.00	0.00	41.82	2.24
2282	6578	5.960105	GCATTTATGTGCTTTCTCGTACTTC	59.040	40.000	0.00	0.00	41.82	3.01
2283	6579	6.183360	GCATTTATGTGCTTTCTCGTACTTCT	60.183	38.462	0.00	0.00	41.82	2.85
2284	6580	6.946229	TTTATGTGCTTTCTCGTACTTCTC	57.054	37.500	0.00	0.00	0.00	2.87
2285	6581	4.792521	ATGTGCTTTCTCGTACTTCTCT	57.207	40.909	0.00	0.00	0.00	3.10
2286	6582	3.902150	TGTGCTTTCTCGTACTTCTCTG	58.098	45.455	0.00	0.00	0.00	3.35
2287	6583	2.664085	GTGCTTTCTCGTACTTCTCTGC	59.336	50.000	0.00	0.00	0.00	4.26
2288	6584	1.914700	GCTTTCTCGTACTTCTCTGCG	59.085	52.381	0.00	0.00	0.00	5.18
2289	6585	2.414293	GCTTTCTCGTACTTCTCTGCGA	60.414	50.000	0.00	0.00	0.00	5.10
2290	6586	3.732471	GCTTTCTCGTACTTCTCTGCGAT	60.732	47.826	0.00	0.00	32.79	4.58
2291	6587	3.406728	TTCTCGTACTTCTCTGCGATG	57.593	47.619	0.00	0.00	32.79	3.84
2292	6588	2.357075	TCTCGTACTTCTCTGCGATGT	58.643	47.619	0.00	0.00	34.70	3.06
2293	6589	2.747989	TCTCGTACTTCTCTGCGATGTT	59.252	45.455	0.00	0.00	32.79	2.71
2298	6594	4.327357	CGTACTTCTCTGCGATGTTGAAAT	59.673	41.667	0.00	0.00	32.79	2.17
2360	6661	4.828939	ACAATCAAGGCATTTGTCTGAGAA	59.171	37.500	0.00	0.00	38.01	2.87
2373	6674	7.523293	TTTGTCTGAGAAAATATTTGCTCCA	57.477	32.000	26.77	17.57	41.33	3.86
2378	6679	6.544931	TCTGAGAAAATATTTGCTCCATCAGG	59.455	38.462	26.77	13.45	41.33	3.86
2416	6718	8.736751	TTTTTCCACTGCTTTTCGTATAATTC	57.263	30.769	0.00	0.00	0.00	2.17
2501	6804	6.754702	ACTCATTCTGAATGTCAAATCAGG	57.245	37.500	25.08	10.74	42.62	3.86
2546	6853	8.999431	GGAAAGATTCATCTTACAACAGTGTTA	58.001	33.333	8.49	0.00	45.83	2.41
2549	6856	9.950496	AAGATTCATCTTACAACAGTGTTATCT	57.050	29.630	8.49	7.20	44.80	1.98
2948	7255	8.451908	AAGTGAAAATAGATGCCCTTATACAC	57.548	34.615	0.00	0.00	0.00	2.90

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
19	20	1.066002	CGGAATCAATGATGTGGGCAC	59.934	52.381	0.00	0.00	0.00	5.01
46	47	7.359849	CGTGTGGAGTGATGATGATGATAATTC	60.360	40.741	0.00	0.00	0.00	2.17
158	2417	0.787084	AGAGGACCTTGTCTCCCTCA	59.213	55.000	0.00	0.00	45.73	3.86
241	2500	1.108727	TTGCCTGAGCCACAAACTGG	61.109	55.000	0.00	0.00	44.08	4.00
298	2557	1.136529	CATGACGAATAGCCGCAATCG	60.137	52.381	9.91	9.91	40.90	3.34
305	2564	0.855349	CGCTGTCATGACGAATAGCC	59.145	55.000	22.99	10.82	34.27	3.93
307	2566	3.632189	TCATCGCTGTCATGACGAATAG	58.368	45.455	20.54	13.14	39.56	1.73
312	2571	1.520174	GACATCATCGCTGTCATGACG	59.480	52.381	20.54	15.64	42.08	4.35
363	2624	2.955660	TGTTTCCGAGCTTTTCATGGTT	59.044	40.909	0.00	0.00	0.00	3.67
488	2749	2.225791	CTCCACCGACGATTGGCTCA	62.226	60.000	9.87	0.00	32.37	4.26
565	2826	1.267806	GTTCTACACACCTTCGGACGA	59.732	52.381	0.00	0.00	0.00	4.20
755	3076	3.108343	CGTGGTCGCTAGTCCGAT	58.892	61.111	0.00	0.00	39.67	4.18
779	3100	1.219393	CCACGGAGAGGCTTCTTCC	59.781	63.158	0.00	2.15	32.53	3.46
840	3161	1.296715	GTGGTCTGAACTCCCGCAT	59.703	57.895	0.00	0.00	0.00	4.73
940	3276	5.879223	CCTCATATAGTACGTAGGGGTAGTG	59.121	48.000	0.00	0.00	0.00	2.74
961	3509	4.950205	TTCGGAACCAACCTATATCCTC	57.050	45.455	0.00	0.00	0.00	3.71
1192	4013	1.171308	GTGGTAGTACTCGTCCTGCA	58.829	55.000	0.00	0.00	0.00	4.41
1251	4460	4.194720	GTCGATGAGCCTCCGCGT	62.195	66.667	4.92	0.00	41.18	6.01
1252	4461	4.193334	TGTCGATGAGCCTCCGCG	62.193	66.667	0.00	0.00	41.18	6.46
1409	4633	3.077359	GACCTGAAGACCTTGGTGAATG	58.923	50.000	0.00	0.00	32.30	2.67
1410	4634	2.982488	AGACCTGAAGACCTTGGTGAAT	59.018	45.455	0.00	0.00	32.30	2.57
1411	4635	2.368875	GAGACCTGAAGACCTTGGTGAA	59.631	50.000	0.00	0.00	32.30	3.18
1474	4698	4.159879	AGGTTTAGTCACCTCGACCTTATG	59.840	45.833	0.00	0.00	44.63	1.90
1558	5644	3.729356	CTCATCTGTGGTGAGGTCG	57.271	57.895	0.21	0.00	39.48	4.79
1652	5738	1.002502	ACGGCAGGGCTTTCCTTAC	60.003	57.895	0.00	0.00	45.47	2.34
1691	5777	3.274586	CGCGGCACCATCATCCTG	61.275	66.667	0.00	0.00	0.00	3.86
1705	5791	4.657824	ACCTTGGTGTCCGTCGCG	62.658	66.667	0.00	0.00	0.00	5.87
1830	5943	5.946972	TGTTCTTGTTTTACTTCTTCACCCA	59.053	36.000	0.00	0.00	0.00	4.51
1886	5999	4.042187	ACCTCTCTCTAACAAACCTGCATT	59.958	41.667	0.00	0.00	0.00	3.56
1904	6017	1.211457	GCCACCATCATCTTCACCTCT	59.789	52.381	0.00	0.00	0.00	3.69
1964	6078	2.381752	AAAAGGGGGTTGGTCTCTTG	57.618	50.000	0.00	0.00	0.00	3.02
2062	6176	1.429299	CCACCTTTCCCCTTCTTCCTT	59.571	52.381	0.00	0.00	0.00	3.36
2105	6219	0.323451	GCGGAACCCTTCATCCCTTT	60.323	55.000	0.00	0.00	31.73	3.11
2148	6262	4.141390	TGAACTTCTTCTCAGCTTTCCCTT	60.141	41.667	0.00	0.00	0.00	3.95
2168	6282	4.452455	GCTAAACTAAACTCTGCTGCTGAA	59.548	41.667	10.47	0.00	0.00	3.02
2169	6283	3.997021	GCTAAACTAAACTCTGCTGCTGA	59.003	43.478	8.95	8.95	0.00	4.26
2171	6285	4.008074	TGCTAAACTAAACTCTGCTGCT	57.992	40.909	0.00	0.00	0.00	4.24
2174	6288	3.753797	GCCTTGCTAAACTAAACTCTGCT	59.246	43.478	0.00	0.00	0.00	4.24
2181	6295	4.575885	ACTCGATGCCTTGCTAAACTAAA	58.424	39.130	0.00	0.00	0.00	1.85
2182	6296	4.181578	GACTCGATGCCTTGCTAAACTAA	58.818	43.478	0.00	0.00	0.00	2.24
2183	6297	3.194755	TGACTCGATGCCTTGCTAAACTA	59.805	43.478	0.00	0.00	0.00	2.24
2184	6298	2.028112	TGACTCGATGCCTTGCTAAACT	60.028	45.455	0.00	0.00	0.00	2.66
2186	6300	2.760634	TGACTCGATGCCTTGCTAAA	57.239	45.000	0.00	0.00	0.00	1.85
2187	6301	2.028112	ACTTGACTCGATGCCTTGCTAA	60.028	45.455	0.00	0.00	0.00	3.09
2188	6302	1.550524	ACTTGACTCGATGCCTTGCTA	59.449	47.619	0.00	0.00	0.00	3.49
2189	6303	0.322975	ACTTGACTCGATGCCTTGCT	59.677	50.000	0.00	0.00	0.00	3.91
2190	6304	1.160137	AACTTGACTCGATGCCTTGC	58.840	50.000	0.00	0.00	0.00	4.01
2191	6305	3.589988	ACTAACTTGACTCGATGCCTTG	58.410	45.455	0.00	0.00	0.00	3.61
2192	6306	3.963428	ACTAACTTGACTCGATGCCTT	57.037	42.857	0.00	0.00	0.00	4.35
2193	6307	3.963428	AACTAACTTGACTCGATGCCT	57.037	42.857	0.00	0.00	0.00	4.75
2194	6308	4.033014	GCTAAACTAACTTGACTCGATGCC	59.967	45.833	0.00	0.00	0.00	4.40
2195	6309	4.625742	TGCTAAACTAACTTGACTCGATGC	59.374	41.667	0.00	0.00	0.00	3.91
2196	6310	6.183360	CCTTGCTAAACTAACTTGACTCGATG	60.183	42.308	0.00	0.00	0.00	3.84
2197	6311	5.869888	CCTTGCTAAACTAACTTGACTCGAT	59.130	40.000	0.00	0.00	0.00	3.59
2198	6312	5.227908	CCTTGCTAAACTAACTTGACTCGA	58.772	41.667	0.00	0.00	0.00	4.04
2199	6313	4.143094	GCCTTGCTAAACTAACTTGACTCG	60.143	45.833	0.00	0.00	0.00	4.18
2239	6512	2.289631	TGCTCGGATCTCACAACAATGT	60.290	45.455	0.00	0.00	41.61	2.71
2244	6517	4.572389	ACATAAATGCTCGGATCTCACAAC	59.428	41.667	0.00	0.00	0.00	3.32
2245	6518	4.571984	CACATAAATGCTCGGATCTCACAA	59.428	41.667	0.00	0.00	0.00	3.33
2271	6567	2.747989	ACATCGCAGAGAAGTACGAGAA	59.252	45.455	0.00	0.00	43.63	2.87
2272	6568	2.357075	ACATCGCAGAGAAGTACGAGA	58.643	47.619	0.00	0.00	43.63	4.04
2273	6569	2.834574	ACATCGCAGAGAAGTACGAG	57.165	50.000	0.00	0.00	43.63	4.18
2274	6570	2.486592	TCAACATCGCAGAGAAGTACGA	59.513	45.455	0.00	0.00	43.63	3.43
2275	6571	2.863739	TCAACATCGCAGAGAAGTACG	58.136	47.619	0.00	0.00	43.63	3.67
2276	6572	5.348724	TGATTTCAACATCGCAGAGAAGTAC	59.651	40.000	0.00	0.00	43.63	2.73
2277	6573	5.478407	TGATTTCAACATCGCAGAGAAGTA	58.522	37.500	0.00	0.00	43.63	2.24
2278	6574	4.318332	TGATTTCAACATCGCAGAGAAGT	58.682	39.130	0.00	0.00	43.63	3.01
2279	6575	4.628766	TCTGATTTCAACATCGCAGAGAAG	59.371	41.667	0.00	0.00	43.63	2.85
2280	6576	4.568956	TCTGATTTCAACATCGCAGAGAA	58.431	39.130	0.00	0.00	43.63	2.87
2281	6577	4.192429	TCTGATTTCAACATCGCAGAGA	57.808	40.909	0.00	0.00	43.63	3.10
2282	6578	6.036408	TGTTATCTGATTTCAACATCGCAGAG	59.964	38.462	0.00	0.00	43.63	3.35
2283	6579	5.874261	TGTTATCTGATTTCAACATCGCAGA	59.126	36.000	0.00	0.00	45.75	4.26
2284	6580	6.110543	TGTTATCTGATTTCAACATCGCAG	57.889	37.500	0.00	0.00	0.00	5.18
2285	6581	6.149308	ACTTGTTATCTGATTTCAACATCGCA	59.851	34.615	5.56	0.00	31.45	5.10
2286	6582	6.546395	ACTTGTTATCTGATTTCAACATCGC	58.454	36.000	5.56	0.00	31.45	4.58
2287	6583	7.182761	GGACTTGTTATCTGATTTCAACATCG	58.817	38.462	5.56	3.88	31.45	3.84
2288	6584	7.064609	TCGGACTTGTTATCTGATTTCAACATC	59.935	37.037	5.56	2.57	31.45	3.06
2289	6585	6.878923	TCGGACTTGTTATCTGATTTCAACAT	59.121	34.615	5.56	0.00	31.45	2.71
2290	6586	6.227522	TCGGACTTGTTATCTGATTTCAACA	58.772	36.000	0.00	0.00	0.00	3.33
2291	6587	6.721571	TCGGACTTGTTATCTGATTTCAAC	57.278	37.500	0.00	0.00	0.00	3.18
2292	6588	6.878923	ACATCGGACTTGTTATCTGATTTCAA	59.121	34.615	0.00	1.73	39.67	2.69
2293	6589	6.406370	ACATCGGACTTGTTATCTGATTTCA	58.594	36.000	0.00	0.00	39.67	2.69
2298	6594	5.886474	AGACTACATCGGACTTGTTATCTGA	59.114	40.000	0.00	0.00	35.94	3.27
2360	6661	5.134725	AGGACCTGATGGAGCAAATATTT	57.865	39.130	0.00	0.00	37.04	1.40
2416	6718	3.548745	TCCTCATTATGCCAGTGACAG	57.451	47.619	0.00	0.00	0.00	3.51
2517	6822	7.805071	CACTGTTGTAAGATGAATCTTTCCAAC	59.195	37.037	24.19	24.19	44.28	3.77
2546	6853	9.618890	AGTGCATGTAGATTATGTAACAAAGAT	57.381	29.630	0.00	0.00	0.00	2.40
2549	6856	9.884636	ACTAGTGCATGTAGATTATGTAACAAA	57.115	29.630	11.87	0.00	0.00	2.83
2642	6949	1.097547	CCGGGACCAATGCTCACATC	61.098	60.000	0.00	0.00	34.62	3.06
3000	7317	5.355910	TGCGTTTATAGAGGAAATTCAACCC	59.644	40.000	0.00	0.00	0.00	4.11

Based at the University of Bristol with support from BBSRC.

AutoCloner maintained by Alex Coulton.