AutoCloner

Multiple sequence alignment - TraesCS2B01G111100

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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	TraesCS2B01G111100	chr2B	100.000	3023	0	0	1	3023	72894158	72897180	0.000000e+00	5583.0
1	TraesCS2B01G111100	chr2B	95.833	48	2	0	240	287	788993688	788993641	8.990000e-11	78.7
2	TraesCS2B01G111100	chr2A	91.911	3004	136	46	1	2948	49220090	49223042	0.000000e+00	4102.0
3	TraesCS2B01G111100	chr2A	90.805	87	6	1	2939	3023	49223074	49223160	6.850000e-22	115.0
4	TraesCS2B01G111100	chr2A	94.340	53	1	2	235	287	367649328	367649278	2.500000e-11	80.5
5	TraesCS2B01G111100	chr2A	93.333	45	3	0	2977	3021	49266435	49266479	1.950000e-07	67.6
6	TraesCS2B01G111100	chr2D	92.740	2383	95	33	401	2752	45798595	45800930	0.000000e+00	3371.0
7	TraesCS2B01G111100	chr2D	85.132	491	43	15	1	484	45798307	45798774	2.730000e-130	475.0
8	TraesCS2B01G111100	chr2D	91.844	282	12	6	2753	3023	45803284	45803565	1.700000e-102	383.0
9	TraesCS2B01G111100	chr2D	87.789	303	13	8	2461	2749	45802946	45803238	1.740000e-87	333.0
10	TraesCS2B01G111100	chr2D	89.873	158	10	5	2870	3023	45801596	45801751	6.610000e-47	198.0
11	TraesCS2B01G111100	chr2D	92.208	77	2	2	2781	2853	45801533	45801609	4.120000e-19	106.0
12	TraesCS2B01G111100	chr2D	91.525	59	1	2	239	293	36891126	36891184	8.990000e-11	78.7
13	TraesCS2B01G111100	chr2D	83.721	86	9	2	438	520	206242387	206242470	3.230000e-10	76.8
14	TraesCS2B01G111100	chr4D	87.349	166	15	4	272	434	427269497	427269659	5.150000e-43	185.0
15	TraesCS2B01G111100	chr4D	84.940	166	19	4	272	434	426902346	426902508	2.410000e-36	163.0
16	TraesCS2B01G111100	chr4D	85.981	107	15	0	519	625	474374201	474374307	6.850000e-22	115.0
17	TraesCS2B01G111100	chr4D	93.103	58	1	3	450	506	458556248	458556193	6.950000e-12	82.4
18	TraesCS2B01G111100	chr7B	87.075	147	16	1	291	434	102234317	102234463	2.410000e-36	163.0
19	TraesCS2B01G111100	chr7B	97.872	47	1	0	240	286	382332094	382332048	6.950000e-12	82.4
20	TraesCS2B01G111100	chr7A	86.667	150	16	3	289	434	126057823	126057972	2.410000e-36	163.0
21	TraesCS2B01G111100	chr7A	87.273	110	10	4	518	625	712673978	712673871	4.090000e-24	122.0
22	TraesCS2B01G111100	chr1A	86.275	153	16	3	286	434	385897480	385897631	8.670000e-36	161.0
23	TraesCS2B01G111100	chr1A	93.023	43	3	0	240	282	547404725	547404683	2.520000e-06	63.9
24	TraesCS2B01G111100	chr1A	96.970	33	1	0	233	265	564147563	564147595	4.210000e-04	56.5
25	TraesCS2B01G111100	chr3D	85.714	154	18	3	284	434	199244252	199244404	3.120000e-35	159.0
26	TraesCS2B01G111100	chr6D	86.000	150	18	2	288	434	351246506	351246357	1.120000e-34	158.0
27	TraesCS2B01G111100	chr5B	86.000	150	17	2	289	434	147437483	147437334	1.120000e-34	158.0
28	TraesCS2B01G111100	chr5B	88.158	76	8	1	432	506	464601426	464601501	4.150000e-14	89.8
29	TraesCS2B01G111100	chr5B	95.745	47	2	0	238	284	699404471	699404517	3.230000e-10	76.8
30	TraesCS2B01G111100	chr4A	88.785	107	11	1	519	625	533460103	533459998	2.450000e-26	130.0
31	TraesCS2B01G111100	chr1B	87.850	107	12	1	519	625	649337070	649336965	1.140000e-24	124.0
32	TraesCS2B01G111100	chr1B	87.850	107	12	1	519	625	652464817	652464922	1.140000e-24	124.0
33	TraesCS2B01G111100	chr6A	85.841	113	11	3	515	624	72438357	72438467	6.850000e-22	115.0
34	TraesCS2B01G111100	chr6A	86.239	109	11	4	519	625	456759068	456759174	6.850000e-22	115.0
35	TraesCS2B01G111100	chr4B	90.909	66	3	3	442	506	7042478	7042541	5.370000e-13	86.1
36	TraesCS2B01G111100	chr4B	93.333	45	3	0	240	284	320946700	320946656	1.950000e-07	67.6
37	TraesCS2B01G111100	chr4B	87.500	56	5	1	240	293	190690967	190690912	2.520000e-06	63.9
38	TraesCS2B01G111100	chr3A	88.571	70	4	3	438	506	744995426	744995360	6.950000e-12	82.4
39	TraesCS2B01G111100	chr1D	88.406	69	6	2	438	506	49343145	49343079	6.950000e-12	82.4
40	TraesCS2B01G111100	chr1D	94.000	50	3	0	237	286	449250756	449250805	3.230000e-10	76.8
41	TraesCS2B01G111100	chr5D	85.185	81	8	3	442	520	216151689	216151611	2.500000e-11	80.5
42	TraesCS2B01G111100	chr5D	92.727	55	3	1	240	293	5112183	5112237	8.990000e-11	78.7
43	TraesCS2B01G111100	chr7D	95.652	46	2	0	239	284	579762518	579762563	1.160000e-09	75.0
44	TraesCS2B01G111100	chr7D	95.556	45	2	0	240	284	32870356	32870312	4.180000e-09	73.1
45	TraesCS2B01G111100	chr7D	95.556	45	2	0	240	284	147465082	147465126	4.180000e-09	73.1

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	TraesCS2B01G111100	chr2B	72894158	72897180	3022	False	5583.0	5583	100.000	1	3023	1	chr2B.!!$F1	3022
1	TraesCS2B01G111100	chr2A	49220090	49223160	3070	False	2108.5	4102	91.358	1	3023	2	chr2A.!!$F2	3022
2	TraesCS2B01G111100	chr2D	45798307	45803565	5258	False	811.0	3371	89.931	1	3023	6	chr2D.!!$F3	3022

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
70	71	0.248990	TGTGCTTTGCCGCTTTTCAG	60.249	50.0	0.0	0.0	0.00	3.02	F
912	951	0.614415	CACTCACTCTCAGAGCCCCT	60.614	60.0	0.0	0.0	36.58	4.79	F

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability	Orientation
1011	1052	1.177256	CCTTCTTGTTGCAGCAGCCT	61.177	55.0	6.8	0.0	41.13	4.58	R
2786	5232	0.034059	AGAAACTGGACACCGAGCAG	59.966	55.0	0.0	0.0	0.00	4.24	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
70	71	0.248990	TGTGCTTTGCCGCTTTTCAG	60.249	50.000	0.00	0.00	0.00	3.02
95	104	3.134574	ACTTTGCCGGAAGATACAACA	57.865	42.857	5.05	0.00	0.00	3.33
96	105	2.812011	ACTTTGCCGGAAGATACAACAC	59.188	45.455	5.05	0.00	0.00	3.32
97	106	1.816074	TTGCCGGAAGATACAACACC	58.184	50.000	5.05	0.00	0.00	4.16
98	107	0.687920	TGCCGGAAGATACAACACCA	59.312	50.000	5.05	0.00	0.00	4.17
99	108	1.084289	GCCGGAAGATACAACACCAC	58.916	55.000	5.05	0.00	0.00	4.16
100	109	1.609580	GCCGGAAGATACAACACCACA	60.610	52.381	5.05	0.00	0.00	4.17
101	110	2.773487	CCGGAAGATACAACACCACAA	58.227	47.619	0.00	0.00	0.00	3.33
130	139	2.476619	ACAAGATGCGACTTCACTTTCG	59.523	45.455	0.00	0.00	38.31	3.46
142	151	2.358737	CTTTCGTTCCTGCCGCCT	60.359	61.111	0.00	0.00	0.00	5.52
151	168	2.703798	CCTGCCGCCTGGTGAATTG	61.704	63.158	9.25	0.00	37.67	2.32
295	315	9.807921	TTTTTAGAGATTTCAATGAACTACCCT	57.192	29.630	0.00	0.00	0.00	4.34
303	323	5.359194	TCAATGAACTACCCTCTCCATTC	57.641	43.478	0.00	0.00	0.00	2.67
304	324	4.164221	TCAATGAACTACCCTCTCCATTCC	59.836	45.833	0.00	0.00	0.00	3.01
312	332	8.582891	AACTACCCTCTCCATTCCTAAATATT	57.417	34.615	0.00	0.00	0.00	1.28
313	333	8.582891	ACTACCCTCTCCATTCCTAAATATTT	57.417	34.615	5.89	5.89	0.00	1.40
314	334	8.440771	ACTACCCTCTCCATTCCTAAATATTTG	58.559	37.037	11.05	1.40	0.00	2.32
316	336	7.290813	ACCCTCTCCATTCCTAAATATTTGTC	58.709	38.462	11.05	0.00	0.00	3.18
440	464	8.730680	TCTAAAAAGACTTATACTTACCGACGT	58.269	33.333	0.00	0.00	0.00	4.34
446	470	5.814783	ACTTATACTTACCGACGTAGCAAG	58.185	41.667	0.00	0.00	0.00	4.01
448	472	2.626088	ACTTACCGACGTAGCAAGAC	57.374	50.000	12.79	0.00	0.00	3.01
550	585	7.752239	CGAAGCAAAATGAATGAATCTACACTT	59.248	33.333	0.00	0.00	0.00	3.16
573	608	8.742777	ACTTTAAAGTATGTCTACGTACATCCA	58.257	33.333	19.26	0.00	40.52	3.41
582	617	7.198306	TGTCTACGTACATCCATATGTAGTG	57.802	40.000	1.24	0.22	46.68	2.74
651	687	0.819259	TTGTTGGTCAGAGCAGCCAC	60.819	55.000	13.27	5.15	31.19	5.01
652	688	2.031012	TTGGTCAGAGCAGCCACG	59.969	61.111	1.86	0.00	31.19	4.94
674	710	5.927689	ACGAAACGTTGATGTATAAACTCCA	59.072	36.000	0.00	0.00	36.35	3.86
912	951	0.614415	CACTCACTCTCAGAGCCCCT	60.614	60.000	0.00	0.00	36.58	4.79
1011	1052	0.468585	GGCAGATCATGGGCATGGAA	60.469	55.000	0.00	0.00	39.24	3.53
1898	1939	3.403057	CGACGTGCCGGTGAACAG	61.403	66.667	1.90	0.00	0.00	3.16
2110	2162	7.610305	ACCGATTAATATTTGCCCGATTAATCT	59.390	33.333	13.45	0.00	43.78	2.40
2115	2167	2.254546	TTGCCCGATTAATCTGCGAT	57.745	45.000	13.45	0.00	0.00	4.58
2117	2169	1.344438	TGCCCGATTAATCTGCGATCT	59.656	47.619	13.45	0.00	0.00	2.75
2202	2265	6.211384	ACCATAATTATTAATCCTTGCCTGCC	59.789	38.462	0.00	0.00	0.00	4.85
2203	2266	6.438425	CCATAATTATTAATCCTTGCCTGCCT	59.562	38.462	0.00	0.00	0.00	4.75
2204	2267	5.796424	AATTATTAATCCTTGCCTGCCTG	57.204	39.130	0.00	0.00	0.00	4.85
2205	2268	1.406903	ATTAATCCTTGCCTGCCTGC	58.593	50.000	0.00	0.00	0.00	4.85
2206	2269	0.039472	TTAATCCTTGCCTGCCTGCA	59.961	50.000	0.00	0.00	40.07	4.41
2261	2324	6.683708	CGTAATTGTGTCGTGTTTGTTTTAGT	59.316	34.615	0.00	0.00	0.00	2.24
2306	2369	2.104281	CCTCCGGGTTTAACATAGAGGG	59.896	54.545	14.70	0.76	36.58	4.30
2323	2386	2.982488	GAGGGGGAGGATGATATGTGTT	59.018	50.000	0.00	0.00	0.00	3.32
2365	2428	1.444553	GTCGAGTCGAGTTGCCTGG	60.445	63.158	17.12	0.00	36.23	4.45
2372	2442	3.745803	GAGTTGCCTGGCTGCTGC	61.746	66.667	21.03	7.10	38.76	5.25
2446	2519	3.801293	GCAAGAAGTGTAACACCGTACCT	60.801	47.826	0.00	0.00	41.43	3.08
2447	2520	4.559300	GCAAGAAGTGTAACACCGTACCTA	60.559	45.833	0.00	0.00	41.43	3.08
2448	2521	5.531634	CAAGAAGTGTAACACCGTACCTAA	58.468	41.667	0.00	0.00	41.43	2.69
2449	2522	5.126396	AGAAGTGTAACACCGTACCTAAC	57.874	43.478	0.00	0.00	41.43	2.34
2450	2523	4.829492	AGAAGTGTAACACCGTACCTAACT	59.171	41.667	0.00	0.00	41.43	2.24
2451	2524	6.003950	AGAAGTGTAACACCGTACCTAACTA	58.996	40.000	0.00	0.00	41.43	2.24
2452	2525	5.629079	AGTGTAACACCGTACCTAACTAC	57.371	43.478	0.00	0.00	41.43	2.73
2453	2526	4.459337	AGTGTAACACCGTACCTAACTACC	59.541	45.833	0.00	0.00	41.43	3.18
2461	2534	4.340381	ACCGTACCTAACTACCTATGCTTG	59.660	45.833	0.00	0.00	0.00	4.01
2496	2569	4.573201	CCCTTGTTTCAACGACTTGTCTTA	59.427	41.667	0.00	0.00	0.00	2.10
2559	2632	1.670811	CGATTTGCCCTGCGATTTACT	59.329	47.619	0.00	0.00	0.00	2.24
2603	2680	5.865552	GCAAATATATATTGGTGCTGGCAAG	59.134	40.000	18.69	0.00	30.59	4.01
2782	5228	1.757118	GTGTGATCTACCAGGCTGCTA	59.243	52.381	9.56	0.00	0.00	3.49
2783	5229	1.757118	TGTGATCTACCAGGCTGCTAC	59.243	52.381	9.56	0.52	0.00	3.58
2784	5230	2.035632	GTGATCTACCAGGCTGCTACT	58.964	52.381	9.56	0.00	0.00	2.57
2785	5231	3.223435	GTGATCTACCAGGCTGCTACTA	58.777	50.000	9.56	0.00	0.00	1.82
2786	5232	3.004944	GTGATCTACCAGGCTGCTACTAC	59.995	52.174	9.56	0.00	0.00	2.73
2787	5233	3.117474	TGATCTACCAGGCTGCTACTACT	60.117	47.826	9.56	0.00	0.00	2.57
2788	5234	2.656002	TCTACCAGGCTGCTACTACTG	58.344	52.381	9.56	0.00	0.00	2.74
2789	5235	1.067821	CTACCAGGCTGCTACTACTGC	59.932	57.143	9.56	0.00	0.00	4.40
2790	5236	0.616111	ACCAGGCTGCTACTACTGCT	60.616	55.000	9.56	0.00	35.11	4.24
2941	5391	4.413760	AGCAATGCTATAGGGATGCAATT	58.586	39.130	5.69	0.00	40.24	2.32
2948	5441	6.541907	TGCTATAGGGATGCAATTTGTGATA	58.458	36.000	1.04	0.00	33.48	2.15
2973	5466	4.283722	AGAGAACAAAATCTAGACGGGTGT	59.716	41.667	0.00	0.00	0.00	4.16

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
17	18	9.837525	GCAAATGGCTAAATTCAAGATCTATAG	57.162	33.333	0.00	0.00	40.25	1.31
18	19	9.353431	TGCAAATGGCTAAATTCAAGATCTATA	57.647	29.630	0.00	0.00	45.15	1.31
19	20	8.139989	GTGCAAATGGCTAAATTCAAGATCTAT	58.860	33.333	0.00	0.00	45.15	1.98
29	30	4.782019	TTCTCGTGCAAATGGCTAAATT	57.218	36.364	0.00	0.00	45.15	1.82
55	56	0.954452	AGGACTGAAAAGCGGCAAAG	59.046	50.000	1.45	0.00	0.00	2.77
70	71	2.693267	ATCTTCCGGCAAAGTAGGAC	57.307	50.000	0.00	0.00	33.16	3.85
95	104	2.208132	TCTTGTGTGTGGTTTGTGGT	57.792	45.000	0.00	0.00	0.00	4.16
96	105	2.799207	GCATCTTGTGTGTGGTTTGTGG	60.799	50.000	0.00	0.00	0.00	4.17
97	106	2.462889	GCATCTTGTGTGTGGTTTGTG	58.537	47.619	0.00	0.00	0.00	3.33
98	107	1.065401	CGCATCTTGTGTGTGGTTTGT	59.935	47.619	0.00	0.00	33.61	2.83
99	108	1.333308	TCGCATCTTGTGTGTGGTTTG	59.667	47.619	0.00	0.00	39.38	2.93
100	109	1.333619	GTCGCATCTTGTGTGTGGTTT	59.666	47.619	0.00	0.00	39.38	3.27
101	110	0.944386	GTCGCATCTTGTGTGTGGTT	59.056	50.000	0.00	0.00	39.38	3.67
130	139	3.842925	TTCACCAGGCGGCAGGAAC	62.843	63.158	27.46	0.00	34.57	3.62
142	151	3.055458	TCGTATCAGCTTCCAATTCACCA	60.055	43.478	0.00	0.00	0.00	4.17
151	168	6.688578	TCCAAATACTATCGTATCAGCTTCC	58.311	40.000	0.00	0.00	35.32	3.46
281	299	4.164221	GGAATGGAGAGGGTAGTTCATTGA	59.836	45.833	0.00	0.00	0.00	2.57
289	309	8.440771	ACAAATATTTAGGAATGGAGAGGGTAG	58.559	37.037	0.00	0.00	0.00	3.18
293	313	8.986929	AAGACAAATATTTAGGAATGGAGAGG	57.013	34.615	0.00	0.00	0.00	3.69
329	350	9.725019	TTTTGCTCCATATGTAGTCTATATTGG	57.275	33.333	1.24	3.77	0.00	3.16
342	363	8.573885	AGTGTATCATTCATTTTGCTCCATATG	58.426	33.333	0.00	0.00	0.00	1.78
436	460	2.327081	TTCACTCGTCTTGCTACGTC	57.673	50.000	0.00	0.00	43.31	4.34
440	464	4.700692	AGTGTAGATTCACTCGTCTTGCTA	59.299	41.667	0.00	0.00	44.07	3.49
506	541	6.870769	TGCTTCGTAGGTAAGTATAAGCTTT	58.129	36.000	3.20	0.00	38.84	3.51
508	543	6.461110	TTGCTTCGTAGGTAAGTATAAGCT	57.539	37.500	0.00	0.00	38.84	3.74
509	544	7.529880	TTTTGCTTCGTAGGTAAGTATAAGC	57.470	36.000	0.00	0.00	38.61	3.09
555	590	8.944029	ACTACATATGGATGTACGTAGACATAC	58.056	37.037	7.80	6.71	44.77	2.39
606	642	9.372189	ACCACCTACTCCGTTACTAAATATAAT	57.628	33.333	0.00	0.00	0.00	1.28
651	687	6.397831	TGGAGTTTATACATCAACGTTTCG	57.602	37.500	0.00	0.00	0.00	3.46
652	688	9.620660	ATTTTGGAGTTTATACATCAACGTTTC	57.379	29.630	0.00	0.00	0.00	2.78
674	710	5.450818	TGTACTCCCCAGCTGATTATTTT	57.549	39.130	17.39	0.00	0.00	1.82
890	929	1.830477	GGGCTCTGAGAGTGAGTGATT	59.170	52.381	11.64	0.00	34.30	2.57
912	951	0.324738	ACAGGGCACTAGCTAGCTGA	60.325	55.000	27.68	10.27	41.70	4.26
949	990	4.424626	TCGCTCTGTGCTAATCTAAGTTG	58.575	43.478	0.00	0.00	40.11	3.16
959	1000	2.407428	CGACCCTCGCTCTGTGCTA	61.407	63.158	0.00	0.00	40.11	3.49
1011	1052	1.177256	CCTTCTTGTTGCAGCAGCCT	61.177	55.000	6.80	0.00	41.13	4.58
1756	1797	2.444140	CCGGATCTCCTCGGGGTT	60.444	66.667	0.00	0.00	42.32	4.11
2080	2132	3.143728	GGGCAAATATTAATCGGTCGGT	58.856	45.455	0.00	0.00	0.00	4.69
2081	2133	2.158841	CGGGCAAATATTAATCGGTCGG	59.841	50.000	0.00	0.00	0.00	4.79
2082	2134	3.061322	TCGGGCAAATATTAATCGGTCG	58.939	45.455	0.00	0.00	0.00	4.79
2083	2135	5.622770	AATCGGGCAAATATTAATCGGTC	57.377	39.130	0.00	0.00	0.00	4.79
2110	2162	3.683365	ACCATGCATGTATAGATCGCA	57.317	42.857	24.58	8.62	36.95	5.10
2115	2167	9.719355	AACGAATTATTACCATGCATGTATAGA	57.281	29.630	24.58	7.09	0.00	1.98
2202	2265	0.251209	ATCCAGCCAGCCATATGCAG	60.251	55.000	0.00	0.00	44.83	4.41
2203	2266	0.186630	AATCCAGCCAGCCATATGCA	59.813	50.000	0.00	0.00	44.83	3.96
2204	2267	2.205022	TAATCCAGCCAGCCATATGC	57.795	50.000	0.00	0.00	41.71	3.14
2205	2268	7.414222	AATAAATAATCCAGCCAGCCATATG	57.586	36.000	0.00	0.00	0.00	1.78
2206	2269	8.439964	AAAATAAATAATCCAGCCAGCCATAT	57.560	30.769	0.00	0.00	0.00	1.78
2246	2309	6.696583	TCAGACGATTACTAAAACAAACACGA	59.303	34.615	0.00	0.00	0.00	4.35
2261	2324	1.737029	GCAGCAGCTGTCAGACGATTA	60.737	52.381	23.60	0.00	37.91	1.75
2306	2369	4.156455	ACACAACACATATCATCCTCCC	57.844	45.455	0.00	0.00	0.00	4.30
2323	2386	2.481289	TCTCACCACAACACAACACA	57.519	45.000	0.00	0.00	0.00	3.72
2365	2428	4.425577	AAACACTTATTACAGCAGCAGC	57.574	40.909	0.00	0.00	42.56	5.25
2446	2519	9.627123	AATCAATTAAGCAAGCATAGGTAGTTA	57.373	29.630	0.00	0.00	0.00	2.24
2447	2520	8.525290	AATCAATTAAGCAAGCATAGGTAGTT	57.475	30.769	0.00	0.00	0.00	2.24
2448	2521	7.229506	GGAATCAATTAAGCAAGCATAGGTAGT	59.770	37.037	0.00	0.00	0.00	2.73
2449	2522	7.308830	GGGAATCAATTAAGCAAGCATAGGTAG	60.309	40.741	0.00	0.00	0.00	3.18
2450	2523	6.490040	GGGAATCAATTAAGCAAGCATAGGTA	59.510	38.462	0.00	0.00	0.00	3.08
2451	2524	5.302823	GGGAATCAATTAAGCAAGCATAGGT	59.697	40.000	0.00	0.00	0.00	3.08
2452	2525	5.537674	AGGGAATCAATTAAGCAAGCATAGG	59.462	40.000	0.00	0.00	0.00	2.57
2453	2526	6.645790	AGGGAATCAATTAAGCAAGCATAG	57.354	37.500	0.00	0.00	0.00	2.23
2461	2534	6.089417	CGTTGAAACAAGGGAATCAATTAAGC	59.911	38.462	0.00	0.00	34.62	3.09
2526	2599	3.546815	GGGCAAATCGATCGAGACAATTG	60.547	47.826	23.84	20.31	0.00	2.32
2536	2609	0.947244	AATCGCAGGGCAAATCGATC	59.053	50.000	0.00	0.00	40.29	3.69
2537	2610	1.392589	AAATCGCAGGGCAAATCGAT	58.607	45.000	0.00	0.00	42.60	3.59
2538	2611	1.668751	GTAAATCGCAGGGCAAATCGA	59.331	47.619	0.00	0.00	35.34	3.59
2539	2612	1.670811	AGTAAATCGCAGGGCAAATCG	59.329	47.619	0.00	0.00	0.00	3.34
2559	2632	2.863739	CTGACTAACTGCAACGATCGA	58.136	47.619	24.34	0.00	0.00	3.59
2591	2668	4.519612	TGCACCTTGCCAGCACCA	62.520	61.111	0.00	0.00	44.23	4.17
2620	2697	1.736032	GCTGGCAGTTGACCGTACTAG	60.736	57.143	17.16	0.00	0.00	2.57
2621	2698	0.245539	GCTGGCAGTTGACCGTACTA	59.754	55.000	17.16	0.00	0.00	1.82
2676	5066	1.791103	CGGTCGTTTTGGCACCACAT	61.791	55.000	0.00	0.00	0.00	3.21
2782	5228	0.539901	ACTGGACACCGAGCAGTAGT	60.540	55.000	0.00	0.00	0.00	2.73
2783	5229	0.603569	AACTGGACACCGAGCAGTAG	59.396	55.000	0.00	0.00	0.00	2.57
2784	5230	1.000506	GAAACTGGACACCGAGCAGTA	59.999	52.381	0.00	0.00	0.00	2.74
2785	5231	0.249911	GAAACTGGACACCGAGCAGT	60.250	55.000	0.00	0.00	0.00	4.40
2786	5232	0.034059	AGAAACTGGACACCGAGCAG	59.966	55.000	0.00	0.00	0.00	4.24
2787	5233	0.249868	CAGAAACTGGACACCGAGCA	60.250	55.000	0.00	0.00	0.00	4.26
2788	5234	0.249911	ACAGAAACTGGACACCGAGC	60.250	55.000	0.00	0.00	35.51	5.03
2789	5235	2.240493	AACAGAAACTGGACACCGAG	57.760	50.000	0.00	0.00	35.51	4.63
2790	5236	2.702592	AAACAGAAACTGGACACCGA	57.297	45.000	0.00	0.00	35.51	4.69
2823	5270	3.305709	GCCCAAAAGTGGCCTTTTC	57.694	52.632	3.32	0.00	45.55	2.29
2884	5333	0.593128	CTGTTCGTTTTCTGGGCCAG	59.407	55.000	28.01	28.01	0.00	4.85
2892	5341	2.034053	TGTCATTGGGCTGTTCGTTTTC	59.966	45.455	0.00	0.00	0.00	2.29
2948	5441	6.154706	ACACCCGTCTAGATTTTGTTCTCTAT	59.845	38.462	0.00	0.00	0.00	1.98
2961	5454	1.402968	GCAATCGTACACCCGTCTAGA	59.597	52.381	0.00	0.00	0.00	2.43
2973	5466	3.129813	TCTCGCTTTTCCTAGCAATCGTA	59.870	43.478	0.00	0.00	41.28	3.43

Based at the University of Bristol with support from BBSRC.

AutoCloner maintained by Alex Coulton.