AutoCloner

Multiple sequence alignment - TraesCS2A01G398200

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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	TraesCS2A01G398200	chr2A	100.000	2477	0	0	1	2477	651618151	651615675	0.000000e+00	4575.0
1	TraesCS2A01G398200	chr2A	75.281	356	63	20	205	552	513838950	513838612	1.990000e-31	147.0
2	TraesCS2A01G398200	chr5A	96.393	1303	43	2	628	1926	109334111	109335413	0.000000e+00	2143.0
3	TraesCS2A01G398200	chr5A	94.749	895	33	11	1034	1921	310967814	310966927	0.000000e+00	1380.0
4	TraesCS2A01G398200	chr5A	96.733	551	17	1	618	1168	310968272	310967723	0.000000e+00	917.0
5	TraesCS2A01G398200	chr3A	96.544	1302	25	5	624	1925	587600891	587599610	0.000000e+00	2137.0
6	TraesCS2A01G398200	chr3A	78.544	261	42	9	202	455	9210247	9210500	2.550000e-35	159.0
7	TraesCS2A01G398200	chr1A	94.737	1235	39	3	690	1921	124012460	124013671	0.000000e+00	1897.0
8	TraesCS2A01G398200	chr1A	82.754	777	74	20	1180	1925	569474709	569475456	2.690000e-179	638.0
9	TraesCS2A01G398200	chr1A	95.696	395	13	2	1140	1531	569789178	569788785	1.250000e-177	632.0
10	TraesCS2A01G398200	chr1A	97.772	359	8	0	1563	1921	569788787	569788429	9.730000e-174	619.0
11	TraesCS2A01G398200	chr1A	95.798	238	10	0	628	865	124012221	124012458	3.860000e-103	385.0
12	TraesCS2A01G398200	chr5D	89.591	1345	62	32	630	1921	520433519	520432200	0.000000e+00	1637.0
13	TraesCS2A01G398200	chr5D	92.920	1144	48	10	783	1919	327624479	327625596	0.000000e+00	1633.0
14	TraesCS2A01G398200	chr5D	89.189	518	29	14	1432	1923	378789310	378788794	2.710000e-174	621.0
15	TraesCS2A01G398200	chr5D	92.593	162	12	0	627	788	327619256	327619417	1.480000e-57	233.0
16	TraesCS2A01G398200	chr5D	75.515	437	67	31	205	625	435928785	435928373	7.040000e-41	178.0
17	TraesCS2A01G398200	chr5D	83.333	150	21	4	216	365	276548468	276548613	4.300000e-28	135.0
18	TraesCS2A01G398200	chr5D	78.605	215	34	9	301	509	406532822	406532614	5.560000e-27	132.0
19	TraesCS2A01G398200	chr4A	96.943	785	20	2	1140	1921	623785272	623784489	0.000000e+00	1314.0
20	TraesCS2A01G398200	chr4A	96.325	517	19	0	628	1144	623795993	623795477	0.000000e+00	850.0
21	TraesCS2A01G398200	chr2D	90.620	629	42	7	2	627	506799546	506798932	0.000000e+00	819.0
22	TraesCS2A01G398200	chr2D	87.265	479	53	7	2000	2477	506798779	506798308	7.790000e-150	540.0
23	TraesCS2A01G398200	chr2D	74.592	429	82	23	205	626	508106694	508106286	1.970000e-36	163.0
24	TraesCS2A01G398200	chr2D	77.736	265	43	9	205	467	378895607	378895357	5.520000e-32	148.0
25	TraesCS2A01G398200	chr6D	91.962	423	23	3	1030	1449	117375009	117374595	1.280000e-162	582.0
26	TraesCS2A01G398200	chr4D	79.639	388	49	22	215	590	65095151	65094782	4.090000e-63	252.0
27	TraesCS2A01G398200	chr4D	84.211	57	9	0	913	969	401527339	401527283	3.440000e-04	56.5
28	TraesCS2A01G398200	chr4B	81.369	263	34	11	336	590	95432691	95432436	1.500000e-47	200.0
29	TraesCS2A01G398200	chr3D	79.537	259	38	11	205	455	345682	345431	1.180000e-38	171.0
30	TraesCS2A01G398200	chr3D	79.365	189	31	7	207	394	417121031	417121212	2.590000e-25	126.0
31	TraesCS2A01G398200	chr1D	84.328	134	17	2	837	969	130313213	130313343	7.190000e-26	128.0
32	TraesCS2A01G398200	chr5B	80.982	163	25	5	301	460	487574965	487574806	9.300000e-25	124.0
33	TraesCS2A01G398200	chrUn	82.353	119	13	6	343	457	293209731	293209845	2.030000e-16	97.1
34	TraesCS2A01G398200	chr7A	82.353	119	13	6	343	457	33653158	33653272	2.030000e-16	97.1
35	TraesCS2A01G398200	chr6A	91.111	45	4	0	614	658	395399458	395399414	7.400000e-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	TraesCS2A01G398200	chr2A	651615675	651618151	2476	True	4575.0	4575	100.0000	1	2477	1	chr2A.!!$R2	2476
1	TraesCS2A01G398200	chr5A	109334111	109335413	1302	False	2143.0	2143	96.3930	628	1926	1	chr5A.!!$F1	1298
2	TraesCS2A01G398200	chr5A	310966927	310968272	1345	True	1148.5	1380	95.7410	618	1921	2	chr5A.!!$R1	1303
3	TraesCS2A01G398200	chr3A	587599610	587600891	1281	True	2137.0	2137	96.5440	624	1925	1	chr3A.!!$R1	1301
4	TraesCS2A01G398200	chr1A	124012221	124013671	1450	False	1141.0	1897	95.2675	628	1921	2	chr1A.!!$F2	1293
5	TraesCS2A01G398200	chr1A	569474709	569475456	747	False	638.0	638	82.7540	1180	1925	1	chr1A.!!$F1	745
6	TraesCS2A01G398200	chr1A	569788429	569789178	749	True	625.5	632	96.7340	1140	1921	2	chr1A.!!$R1	781
7	TraesCS2A01G398200	chr5D	520432200	520433519	1319	True	1637.0	1637	89.5910	630	1921	1	chr5D.!!$R4	1291
8	TraesCS2A01G398200	chr5D	327624479	327625596	1117	False	1633.0	1633	92.9200	783	1919	1	chr5D.!!$F3	1136
9	TraesCS2A01G398200	chr5D	378788794	378789310	516	True	621.0	621	89.1890	1432	1923	1	chr5D.!!$R1	491
10	TraesCS2A01G398200	chr4A	623784489	623785272	783	True	1314.0	1314	96.9430	1140	1921	1	chr4A.!!$R1	781
11	TraesCS2A01G398200	chr4A	623795477	623795993	516	True	850.0	850	96.3250	628	1144	1	chr4A.!!$R2	516
12	TraesCS2A01G398200	chr2D	506798308	506799546	1238	True	679.5	819	88.9425	2	2477	2	chr2D.!!$R3	2475

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
417	418	0.397675	TGTGGGTTGGGTGATTGCAA	60.398	50.0	0.0	0.0	0.0	4.08	F

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability	Orientation
2248	2649	0.110464	GCGCTGCACTCTTCAAAGTC	60.11	55.0	0.0	0.0	0.0	3.01	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
37	38	5.895636	TGTAGCAAAATGGGTGATACAAG	57.104	39.130	0.39	0.00	42.98	3.16
72	73	8.956426	ACCAAAATAATAATATGGATAGCACCG	58.044	33.333	0.00	0.00	35.16	4.94
84	85	3.006706	GCACCGCGAATGCTAGAC	58.993	61.111	23.02	0.00	40.08	2.59
89	90	2.797278	CGCGAATGCTAGACCCCCT	61.797	63.158	0.00	0.00	39.65	4.79
90	91	1.527370	GCGAATGCTAGACCCCCTT	59.473	57.895	0.00	0.00	38.39	3.95
91	92	0.756903	GCGAATGCTAGACCCCCTTA	59.243	55.000	0.00	0.00	38.39	2.69
122	123	6.757897	TCTTTATGTTGTTCACATCCATCC	57.242	37.500	0.00	0.00	43.17	3.51
125	126	7.552687	TCTTTATGTTGTTCACATCCATCCTAC	59.447	37.037	0.00	0.00	43.17	3.18
197	198	2.987437	TCCCACCCATAACAACACCTTA	59.013	45.455	0.00	0.00	0.00	2.69
209	210	6.783708	AACAACACCTTATGGAAACTTCAA	57.216	33.333	0.81	0.00	37.04	2.69
212	213	7.791029	ACAACACCTTATGGAAACTTCAATTT	58.209	30.769	0.81	0.00	37.04	1.82
235	236	8.782339	TTTCTAAATAGTTACAACCCACTAGC	57.218	34.615	0.00	0.00	0.00	3.42
249	250	8.039538	ACAACCCACTAGCTATTTTTACTAGAC	58.960	37.037	0.00	0.00	37.44	2.59
256	257	9.319143	ACTAGCTATTTTTACTAGACATGCAAG	57.681	33.333	0.00	0.00	37.44	4.01
294	295	7.748031	CAAGTTGTGCATGTAAGTAAAAACA	57.252	32.000	0.00	0.00	0.00	2.83
295	296	8.179148	CAAGTTGTGCATGTAAGTAAAAACAA	57.821	30.769	0.00	0.00	0.00	2.83
330	331	3.302740	GCATTAGTCTCTATGCGTGCAAC	60.303	47.826	0.00	0.00	37.94	4.17
332	333	1.714794	AGTCTCTATGCGTGCAACAC	58.285	50.000	0.00	0.00	35.74	3.32
357	358	6.040247	GTCACATCATCAATTCATGCATGTT	58.960	36.000	25.43	11.46	29.47	2.71
358	359	7.197703	GTCACATCATCAATTCATGCATGTTA	58.802	34.615	25.43	15.41	29.47	2.41
409	410	5.199982	TGTATTTGATATGTGGGTTGGGT	57.800	39.130	0.00	0.00	0.00	4.51
417	418	0.397675	TGTGGGTTGGGTGATTGCAA	60.398	50.000	0.00	0.00	0.00	4.08
562	564	9.503399	CTTCCCACTAGTTTTAGATGTTTTAGT	57.497	33.333	0.00	0.00	0.00	2.24
581	583	9.952188	GTTTTAGTAACTTTCTTGCATTCTCTT	57.048	29.630	0.00	0.00	0.00	2.85
593	595	6.892658	TTGCATTCTCTTTTTAGCAAGGTA	57.107	33.333	0.00	0.00	37.10	3.08
622	624	0.726827	ACACGCGTGGCATCATTTAG	59.273	50.000	39.21	13.45	34.19	1.85
626	628	2.607635	ACGCGTGGCATCATTTAGTTAG	59.392	45.455	12.93	0.00	0.00	2.34
1049	1228	0.961019	GGTGCTTCATTGCAACCTCA	59.039	50.000	0.00	0.00	44.23	3.86
1731	2021	0.630673	TTGGATGGGATTGAGGGGTG	59.369	55.000	0.00	0.00	0.00	4.61
1732	2022	0.253583	TGGATGGGATTGAGGGGTGA	60.254	55.000	0.00	0.00	0.00	4.02
1904	2224	5.768662	ACGAGAGATAGAAATCATCCGGTTA	59.231	40.000	0.00	0.00	34.28	2.85
1960	2280	6.640518	ACTCTTAGCTAAATCATTTCCGACA	58.359	36.000	7.74	0.00	0.00	4.35
1998	2318	6.418101	ACAATGCTCATAAGTCACCTTACAT	58.582	36.000	0.00	0.00	36.03	2.29
2002	2322	7.124573	TGCTCATAAGTCACCTTACATGTAT	57.875	36.000	6.36	0.00	36.03	2.29
2003	2323	7.210174	TGCTCATAAGTCACCTTACATGTATC	58.790	38.462	6.36	0.00	36.03	2.24
2015	2416	8.237267	CACCTTACATGTATCTTTTTGTCTTCC	58.763	37.037	6.36	0.00	0.00	3.46
2032	2433	7.411486	TGTCTTCCAAAAAGTACATCCAAAA	57.589	32.000	0.00	0.00	0.00	2.44
2033	2434	8.017418	TGTCTTCCAAAAAGTACATCCAAAAT	57.983	30.769	0.00	0.00	0.00	1.82
2089	2490	9.474313	AATAATAGCCAATACAACAGAGGAAAA	57.526	29.630	0.00	0.00	0.00	2.29
2133	2534	6.693545	ACGAGCGAAAAACAAAATTACATTGA	59.306	30.769	0.00	0.00	0.00	2.57
2145	2546	9.838339	ACAAAATTACATTGAAAACCATACCAA	57.162	25.926	0.00	0.00	0.00	3.67
2150	2551	6.036577	ACATTGAAAACCATACCAACCATC	57.963	37.500	0.00	0.00	0.00	3.51
2151	2552	5.046663	ACATTGAAAACCATACCAACCATCC	60.047	40.000	0.00	0.00	0.00	3.51
2162	2563	2.890945	ACCAACCATCCTTTTTCTTCGG	59.109	45.455	0.00	0.00	0.00	4.30
2164	2565	3.057526	CCAACCATCCTTTTTCTTCGGTC	60.058	47.826	0.00	0.00	0.00	4.79
2165	2566	3.502123	ACCATCCTTTTTCTTCGGTCA	57.498	42.857	0.00	0.00	0.00	4.02
2167	2568	4.407365	ACCATCCTTTTTCTTCGGTCATT	58.593	39.130	0.00	0.00	0.00	2.57
2228	2629	0.046397	AAGGGGAGGGGATACTTGCT	59.954	55.000	0.00	0.00	0.00	3.91
2229	2630	0.695803	AGGGGAGGGGATACTTGCTG	60.696	60.000	0.00	0.00	0.00	4.41
2246	2647	4.634012	TGCTGAACACCCTTGTTATAGT	57.366	40.909	0.00	0.00	46.43	2.12
2248	2649	5.730550	TGCTGAACACCCTTGTTATAGTAG	58.269	41.667	0.00	0.00	46.43	2.57
2264	2665	8.029522	TGTTATAGTAGACTTTGAAGAGTGCAG	58.970	37.037	0.00	0.00	0.00	4.41
2265	2666	3.658709	AGTAGACTTTGAAGAGTGCAGC	58.341	45.455	0.00	0.00	0.00	5.25
2273	2674	1.687494	GAAGAGTGCAGCGCTAACCG	61.687	60.000	10.99	0.00	40.75	4.44
2276	2677	2.736995	GTGCAGCGCTAACCGTCA	60.737	61.111	10.99	0.00	39.71	4.35
2278	2679	2.736995	GCAGCGCTAACCGTCACA	60.737	61.111	10.99	0.00	39.71	3.58
2285	2686	2.605818	GCGCTAACCGTCACATGAAATA	59.394	45.455	0.00	0.00	39.71	1.40
2286	2687	3.062909	GCGCTAACCGTCACATGAAATAA	59.937	43.478	0.00	0.00	39.71	1.40
2353	2754	2.554032	GCAACACATACTTGCCTTCACT	59.446	45.455	0.00	0.00	38.48	3.41
2358	2759	2.093658	ACATACTTGCCTTCACTACCGG	60.094	50.000	0.00	0.00	0.00	5.28
2361	2763	3.262448	TTGCCTTCACTACCGGCCC	62.262	63.158	0.00	0.00	43.12	5.80
2390	2792	4.524802	TGGAGAAATAGGACCATGCAAT	57.475	40.909	0.00	0.00	0.00	3.56
2391	2793	4.209538	TGGAGAAATAGGACCATGCAATG	58.790	43.478	0.00	0.00	46.21	2.82
2434	2836	1.062587	CGGAGTCATCGCACCAAAATC	59.937	52.381	0.00	0.00	0.00	2.17
2439	2841	1.543802	TCATCGCACCAAAATCCAACC	59.456	47.619	0.00	0.00	0.00	3.77
2453	2855	1.403679	TCCAACCAACAACTTCGCTTG	59.596	47.619	0.00	0.00	0.00	4.01
2462	2864	2.032894	ACAACTTCGCTTGATTGACACG	60.033	45.455	0.00	0.00	0.00	4.49

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
2	3	8.145767	CCCATTTTGCTACAATCATCATTACAT	58.854	33.333	0.00	0.00	0.00	2.29
4	5	7.436080	CACCCATTTTGCTACAATCATCATTAC	59.564	37.037	0.00	0.00	0.00	1.89
5	6	7.341512	TCACCCATTTTGCTACAATCATCATTA	59.658	33.333	0.00	0.00	0.00	1.90
9	10	5.581126	TCACCCATTTTGCTACAATCATC	57.419	39.130	0.00	0.00	0.00	2.92
11	12	5.948758	TGTATCACCCATTTTGCTACAATCA	59.051	36.000	0.00	0.00	0.00	2.57
48	49	7.639850	CGCGGTGCTATCCATATTATTATTTTG	59.360	37.037	0.00	0.00	0.00	2.44
61	62	1.887242	GCATTCGCGGTGCTATCCA	60.887	57.895	23.76	0.00	39.45	3.41
62	63	2.939022	GCATTCGCGGTGCTATCC	59.061	61.111	23.76	1.87	39.45	2.59
72	73	0.756903	TAAGGGGGTCTAGCATTCGC	59.243	55.000	0.00	0.00	38.99	4.70
89	90	8.160765	TGTGAACAACATAAAGAAGATCCCTAA	58.839	33.333	0.00	0.00	32.36	2.69
90	91	7.685481	TGTGAACAACATAAAGAAGATCCCTA	58.315	34.615	0.00	0.00	32.36	3.53
91	92	6.542821	TGTGAACAACATAAAGAAGATCCCT	58.457	36.000	0.00	0.00	32.36	4.20
209	210	9.392259	GCTAGTGGGTTGTAACTATTTAGAAAT	57.608	33.333	0.00	0.00	0.00	2.17
212	213	7.729124	AGCTAGTGGGTTGTAACTATTTAGA	57.271	36.000	0.00	0.00	0.00	2.10
234	235	6.785191	TGCTTGCATGTCTAGTAAAAATAGC	58.215	36.000	1.14	0.00	0.00	2.97
235	236	8.778141	CATGCTTGCATGTCTAGTAAAAATAG	57.222	34.615	23.00	0.00	0.00	1.73
256	257	2.264813	CAACTTGCTTATGTGGCATGC	58.735	47.619	9.90	9.90	39.54	4.06
313	314	1.714794	GTGTTGCACGCATAGAGACT	58.285	50.000	0.00	0.00	0.00	3.24
324	325	1.530720	TGATGATGTGACGTGTTGCAC	59.469	47.619	0.00	0.00	35.63	4.57
330	331	4.033019	GCATGAATTGATGATGTGACGTG	58.967	43.478	9.25	0.00	0.00	4.49
332	333	4.281525	TGCATGAATTGATGATGTGACG	57.718	40.909	9.25	0.00	0.00	4.35
387	388	4.952957	CACCCAACCCACATATCAAATACA	59.047	41.667	0.00	0.00	0.00	2.29
388	389	5.197451	TCACCCAACCCACATATCAAATAC	58.803	41.667	0.00	0.00	0.00	1.89
389	390	5.458451	TCACCCAACCCACATATCAAATA	57.542	39.130	0.00	0.00	0.00	1.40
390	391	4.329638	TCACCCAACCCACATATCAAAT	57.670	40.909	0.00	0.00	0.00	2.32
393	394	3.630168	CAATCACCCAACCCACATATCA	58.370	45.455	0.00	0.00	0.00	2.15
394	395	2.362077	GCAATCACCCAACCCACATATC	59.638	50.000	0.00	0.00	0.00	1.63
395	396	2.292126	TGCAATCACCCAACCCACATAT	60.292	45.455	0.00	0.00	0.00	1.78
396	397	1.076187	TGCAATCACCCAACCCACATA	59.924	47.619	0.00	0.00	0.00	2.29
399	400	0.033366	GTTGCAATCACCCAACCCAC	59.967	55.000	0.59	0.00	36.27	4.61
463	464	9.415544	GGAAAGAACTATAGTTACGTTTCAAGA	57.584	33.333	28.08	0.00	38.56	3.02
464	465	9.420551	AGGAAAGAACTATAGTTACGTTTCAAG	57.579	33.333	28.08	1.06	38.56	3.02
465	466	9.768662	AAGGAAAGAACTATAGTTACGTTTCAA	57.231	29.630	28.08	0.00	38.56	2.69
466	467	9.768662	AAAGGAAAGAACTATAGTTACGTTTCA	57.231	29.630	28.08	0.00	38.56	2.69
529	531	6.303839	TCTAAAACTAGTGGGAAGCAAATGT	58.696	36.000	0.00	0.00	0.00	2.71
562	564	8.629158	TGCTAAAAAGAGAATGCAAGAAAGTTA	58.371	29.630	0.00	0.00	0.00	2.24
570	572	5.789643	ACCTTGCTAAAAAGAGAATGCAA	57.210	34.783	0.00	0.00	37.96	4.08
622	624	2.109181	CCTAGCAGGCGCCCTAAC	59.891	66.667	26.15	10.44	39.83	2.34
1049	1228	2.342648	GTCGTTGGAAGCTCCGGT	59.657	61.111	0.00	0.00	40.17	5.28
1281	1505	1.597854	CTGCGGTGGAGCTTTGACA	60.598	57.895	0.00	0.00	38.13	3.58
1314	1538	1.962822	CTGCACTGAAGCTTCGCCA	60.963	57.895	21.11	13.38	34.99	5.69
1315	1539	2.866028	CTGCACTGAAGCTTCGCC	59.134	61.111	21.11	9.72	34.99	5.54
1376	1602	1.019278	GTCACAACATCCGCCATCGT	61.019	55.000	0.00	0.00	0.00	3.73
1717	2007	0.417437	TCTCTCACCCCTCAATCCCA	59.583	55.000	0.00	0.00	0.00	4.37
1731	2021	2.224867	CCATCTCCTCCCTCTCTCTCTC	60.225	59.091	0.00	0.00	0.00	3.20
1732	2022	1.782752	CCATCTCCTCCCTCTCTCTCT	59.217	57.143	0.00	0.00	0.00	3.10
1768	2088	0.463620	GGAGCGCTTCTCTTCATCCT	59.536	55.000	13.26	0.00	41.60	3.24
1904	2224	9.454585	GCTAACTAAAGGAAAACGTTTACAATT	57.545	29.630	15.03	10.08	0.00	2.32
1941	2261	7.047891	AGACAATGTCGGAAATGATTTAGCTA	58.952	34.615	7.83	0.00	37.67	3.32
1942	2262	5.882557	AGACAATGTCGGAAATGATTTAGCT	59.117	36.000	7.83	0.00	37.67	3.32
1969	2289	4.808364	GGTGACTTATGAGCATTGTCTCTC	59.192	45.833	13.41	0.00	34.29	3.20
2089	2490	6.075099	CGCTCGTTAATTTTTGTGTCATGTTT	60.075	34.615	0.00	0.00	0.00	2.83
2092	2493	5.143660	TCGCTCGTTAATTTTTGTGTCATG	58.856	37.500	0.00	0.00	0.00	3.07
2105	2506	7.966157	TGTAATTTTGTTTTTCGCTCGTTAA	57.034	28.000	0.00	0.00	0.00	2.01
2110	2511	9.695884	TTTTCAATGTAATTTTGTTTTTCGCTC	57.304	25.926	0.00	0.00	31.22	5.03
2111	2512	9.484326	GTTTTCAATGTAATTTTGTTTTTCGCT	57.516	25.926	0.00	0.00	31.22	4.93
2127	2528	5.046663	GGATGGTTGGTATGGTTTTCAATGT	60.047	40.000	0.00	0.00	0.00	2.71
2133	2534	6.328934	AGAAAAAGGATGGTTGGTATGGTTTT	59.671	34.615	0.00	0.00	0.00	2.43
2143	2544	3.568007	TGACCGAAGAAAAAGGATGGTTG	59.432	43.478	0.00	0.00	0.00	3.77
2145	2546	3.502123	TGACCGAAGAAAAAGGATGGT	57.498	42.857	0.00	0.00	0.00	3.55
2150	2551	3.317150	GGCAAATGACCGAAGAAAAAGG	58.683	45.455	0.00	0.00	0.00	3.11
2162	2563	4.440214	CGTCAAGCGGCAAATGAC	57.560	55.556	17.97	17.97	39.98	3.06
2172	2573	5.004726	GTGCAATTTTCAATATCCGTCAAGC	59.995	40.000	0.00	0.00	0.00	4.01
2183	2584	8.306038	TGCTATCACTTAAGTGCAATTTTCAAT	58.694	29.630	27.49	15.80	45.25	2.57
2212	2613	1.134068	GTTCAGCAAGTATCCCCTCCC	60.134	57.143	0.00	0.00	0.00	4.30
2228	2629	7.549147	AAGTCTACTATAACAAGGGTGTTCA	57.451	36.000	0.00	0.00	45.00	3.18
2229	2630	8.092687	TCAAAGTCTACTATAACAAGGGTGTTC	58.907	37.037	0.00	0.00	45.00	3.18
2241	2642	6.565234	GCTGCACTCTTCAAAGTCTACTATA	58.435	40.000	0.00	0.00	0.00	1.31
2246	2647	2.677199	CGCTGCACTCTTCAAAGTCTA	58.323	47.619	0.00	0.00	0.00	2.59
2248	2649	0.110464	GCGCTGCACTCTTCAAAGTC	60.110	55.000	0.00	0.00	0.00	3.01
2264	2665	0.793861	TTTCATGTGACGGTTAGCGC	59.206	50.000	2.98	0.00	0.00	5.92
2265	2666	4.850859	TTATTTCATGTGACGGTTAGCG	57.149	40.909	1.14	1.14	0.00	4.26
2298	2699	6.957631	TGCCCTAGTCAAGATTCTTTCAATA	58.042	36.000	0.00	0.00	0.00	1.90
2299	2700	5.819991	TGCCCTAGTCAAGATTCTTTCAAT	58.180	37.500	0.00	0.00	0.00	2.57
2333	2734	4.154195	GGTAGTGAAGGCAAGTATGTGTTG	59.846	45.833	0.00	0.00	0.00	3.33
2353	2754	4.425099	CAACCATTTGGGCCGGTA	57.575	55.556	1.90	0.00	42.05	4.02
2361	2763	5.016173	TGGTCCTATTTCTCCAACCATTTG	58.984	41.667	0.00	0.00	32.08	2.32
2390	2792	6.459573	CGACCTCTTCTTTTGATTTTGTTCCA	60.460	38.462	0.00	0.00	0.00	3.53
2391	2793	5.915196	CGACCTCTTCTTTTGATTTTGTTCC	59.085	40.000	0.00	0.00	0.00	3.62
2398	2800	4.040461	TGACTCCGACCTCTTCTTTTGATT	59.960	41.667	0.00	0.00	0.00	2.57
2409	2811	1.226717	GTGCGATGACTCCGACCTC	60.227	63.158	0.00	0.00	0.00	3.85
2434	2836	1.403679	TCAAGCGAAGTTGTTGGTTGG	59.596	47.619	9.89	0.00	40.48	3.77
2439	2841	3.725740	GTGTCAATCAAGCGAAGTTGTTG	59.274	43.478	0.00	0.00	0.00	3.33

Based at the University of Bristol with support from BBSRC.

AutoCloner maintained by Alex Coulton.