AutoCloner

Multiple sequence alignment - TraesCS6A01G381500

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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	TraesCS6A01G381500	chr6A	100.000	2975	0	0	1	2975	601151217	601148243	0.000000e+00	5494
1	TraesCS6A01G381500	chr6A	92.998	914	33	5	1	885	596680277	596681188	0.000000e+00	1304
2	TraesCS6A01G381500	chr6A	80.405	148	22	6	2710	2852	600965438	600965583	4.060000e-19	106
3	TraesCS6A01G381500	chr6B	89.665	1103	99	6	882	1969	691790959	691789857	0.000000e+00	1391
4	TraesCS6A01G381500	chr6B	94.904	726	25	6	96	809	18556509	18555784	0.000000e+00	1125
5	TraesCS6A01G381500	chr6B	82.341	991	95	35	2014	2970	691789660	691788716	0.000000e+00	787
6	TraesCS6A01G381500	chr2A	94.635	876	36	7	14	880	688204950	688204077	0.000000e+00	1347
7	TraesCS6A01G381500	chr2A	93.311	882	29	5	1	880	719321803	719320950	0.000000e+00	1275
8	TraesCS6A01G381500	chr2A	94.667	150	8	0	1	150	202074511	202074660	1.780000e-57	233
9	TraesCS6A01G381500	chr1A	92.442	913	34	15	1	880	589671654	589670744	0.000000e+00	1271
10	TraesCS6A01G381500	chr7A	93.092	883	32	5	1	880	515739717	515738861	0.000000e+00	1266
11	TraesCS6A01G381500	chr3A	91.524	932	33	13	1	888	634127532	634126603	0.000000e+00	1242
12	TraesCS6A01G381500	chr3A	92.874	856	32	5	1	851	143019358	143018527	0.000000e+00	1216
13	TraesCS6A01G381500	chr5A	95.664	761	18	7	131	886	599374258	599375008	0.000000e+00	1208
14	TraesCS6A01G381500	chr6D	86.358	865	105	12	1559	2417	454746784	454747641	0.000000e+00	931
15	TraesCS6A01G381500	chr6D	95.292	531	22	3	2445	2975	454827810	454827283	0.000000e+00	839
16	TraesCS6A01G381500	chr6D	95.984	498	17	1	885	1379	454746292	454746789	0.000000e+00	806
17	TraesCS6A01G381500	chr6D	81.784	538	62	16	2441	2972	454747626	454748133	4.590000e-113	418
18	TraesCS6A01G381500	chrUn	77.988	686	105	30	2014	2693	333016956	333016311	3.600000e-104	388
19	TraesCS6A01G381500	chrUn	77.988	686	105	30	2014	2693	333019742	333019097	3.600000e-104	388
20	TraesCS6A01G381500	chrUn	77.988	686	105	30	2014	2693	389610233	389609588	3.600000e-104	388
21	TraesCS6A01G381500	chrUn	78.107	676	104	28	2014	2684	410542663	410543299	3.600000e-104	388
22	TraesCS6A01G381500	chrUn	81.863	408	62	10	2014	2417	75867646	75867247	1.710000e-87	333
23	TraesCS6A01G381500	chrUn	81.618	408	63	10	2014	2417	294266748	294266349	7.950000e-86	327

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	TraesCS6A01G381500	chr6A	601148243	601151217	2974	True	5494.000000	5494	100.000	1	2975	1	chr6A.!!$R1	2974
1	TraesCS6A01G381500	chr6A	596680277	596681188	911	False	1304.000000	1304	92.998	1	885	1	chr6A.!!$F1	884
2	TraesCS6A01G381500	chr6B	18555784	18556509	725	True	1125.000000	1125	94.904	96	809	1	chr6B.!!$R1	713
3	TraesCS6A01G381500	chr6B	691788716	691790959	2243	True	1089.000000	1391	86.003	882	2970	2	chr6B.!!$R2	2088
4	TraesCS6A01G381500	chr2A	688204077	688204950	873	True	1347.000000	1347	94.635	14	880	1	chr2A.!!$R1	866
5	TraesCS6A01G381500	chr2A	719320950	719321803	853	True	1275.000000	1275	93.311	1	880	1	chr2A.!!$R2	879
6	TraesCS6A01G381500	chr1A	589670744	589671654	910	True	1271.000000	1271	92.442	1	880	1	chr1A.!!$R1	879
7	TraesCS6A01G381500	chr7A	515738861	515739717	856	True	1266.000000	1266	93.092	1	880	1	chr7A.!!$R1	879
8	TraesCS6A01G381500	chr3A	634126603	634127532	929	True	1242.000000	1242	91.524	1	888	1	chr3A.!!$R2	887
9	TraesCS6A01G381500	chr3A	143018527	143019358	831	True	1216.000000	1216	92.874	1	851	1	chr3A.!!$R1	850
10	TraesCS6A01G381500	chr5A	599374258	599375008	750	False	1208.000000	1208	95.664	131	886	1	chr5A.!!$F1	755
11	TraesCS6A01G381500	chr6D	454827283	454827810	527	True	839.000000	839	95.292	2445	2975	1	chr6D.!!$R1	530
12	TraesCS6A01G381500	chr6D	454746292	454748133	1841	False	718.333333	931	88.042	885	2972	3	chr6D.!!$F1	2087
13	TraesCS6A01G381500	chrUn	333016311	333019742	3431	True	388.000000	388	77.988	2014	2693	2	chrUn.!!$R4	679
14	TraesCS6A01G381500	chrUn	389609588	389610233	645	True	388.000000	388	77.988	2014	2693	1	chrUn.!!$R3	679
15	TraesCS6A01G381500	chrUn	410542663	410543299	636	False	388.000000	388	78.107	2014	2684	1	chrUn.!!$F1	670

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
880	1071	1.153369	GCGGCTGTTGGAGATGCTA	60.153	57.895	0.0	0.0	0.0	3.49	F

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability	Orientation
2410	2776	0.034059	GAGGGGACACAGTCACACAG	59.966	60.0	1.48	0.0	37.77	3.66	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
376	545	2.029110	CGCCATGGGTTCAATGTCTTTT	60.029	45.455	15.13	0.00	0.00	2.27
584	762	8.956426	TCTTTCATGTCTTGAACTTTAGTTTGT	58.044	29.630	0.80	0.00	43.99	2.83
682	861	6.884096	TTGTGTCAAATTTCACATGTTCAC	57.116	33.333	12.07	6.10	42.77	3.18
750	937	3.424302	CGTTGTATTTTTGCGCTCTGCTA	60.424	43.478	9.73	0.00	46.63	3.49
820	1011	4.940593	GCGCAAAACCAGCCGCAA	62.941	61.111	0.30	0.00	33.78	4.85
839	1030	2.810458	GCGCGCGGTAAACAGGTA	60.810	61.111	33.06	0.00	0.00	3.08
844	1035	2.511879	GCGCGGTAAACAGGTATTTTG	58.488	47.619	8.83	0.00	0.00	2.44
845	1036	2.511879	CGCGGTAAACAGGTATTTTGC	58.488	47.619	0.00	0.00	0.00	3.68
880	1071	1.153369	GCGGCTGTTGGAGATGCTA	60.153	57.895	0.00	0.00	0.00	3.49
900	1091	4.202367	GCTATTAGCACCATCAGTTACCCT	60.202	45.833	10.83	0.00	41.89	4.34
1036	1233	1.927895	CAAGCCGTACCTGAGTCATC	58.072	55.000	0.00	0.00	0.00	2.92
1152	1352	2.705730	CTCTCTCTCGGTGAGTTCTCA	58.294	52.381	6.93	0.00	43.13	3.27
1167	1367	0.250234	TCTCAGTGCTGCACCATACC	59.750	55.000	27.74	3.23	34.49	2.73
1188	1388	1.550524	CCTGAGGAGACGGACATGAAA	59.449	52.381	0.00	0.00	0.00	2.69
1210	1410	1.601759	GAGGTCAAGCAGCTGCCAA	60.602	57.895	34.39	17.70	43.38	4.52
1370	1573	1.497991	CTGTTTGTGGACGTCGTCAT	58.502	50.000	25.64	0.00	33.68	3.06
1374	1577	2.448926	TTGTGGACGTCGTCATCAAT	57.551	45.000	25.64	0.00	33.68	2.57
1385	1588	1.807755	CGTCATCAATCATCCACCGCT	60.808	52.381	0.00	0.00	0.00	5.52
1389	1592	1.750018	CAATCATCCACCGCTGCCA	60.750	57.895	0.00	0.00	0.00	4.92
1395	1598	2.252072	ATCCACCGCTGCCACGTTAT	62.252	55.000	0.00	0.00	0.00	1.89
1429	1632	0.454600	GGAGCTGGATCAACGTCGTA	59.545	55.000	0.00	0.00	0.00	3.43
1430	1633	1.546834	GAGCTGGATCAACGTCGTAC	58.453	55.000	0.00	0.00	0.00	3.67
1509	1712	3.305403	GCATTATGCAGCTCATCAGCATT	60.305	43.478	12.80	0.00	44.17	3.56
1511	1714	5.900202	GCATTATGCAGCTCATCAGCATTAG	60.900	44.000	12.80	5.92	44.17	1.73
1524	1727	1.635663	GCATTAGCAACGACGCAGGT	61.636	55.000	0.00	0.00	41.58	4.00
1533	1736	3.106407	GACGCAGGTCGCAGTGTC	61.106	66.667	0.00	0.00	42.60	3.67
1538	1741	4.057428	AGGTCGCAGTGTCCTCGC	62.057	66.667	0.00	0.00	0.00	5.03
1578	1781	2.554032	CAACATCACAACCTGGACCTTC	59.446	50.000	0.00	0.00	0.00	3.46
1579	1782	1.774254	ACATCACAACCTGGACCTTCA	59.226	47.619	0.00	0.00	0.00	3.02
1581	1784	2.341846	TCACAACCTGGACCTTCAAC	57.658	50.000	0.00	0.00	0.00	3.18
1584	1787	2.618709	CACAACCTGGACCTTCAACTTC	59.381	50.000	0.00	0.00	0.00	3.01
1588	1791	1.433534	CTGGACCTTCAACTTCGAGC	58.566	55.000	0.00	0.00	0.00	5.03
1590	1793	0.034896	GGACCTTCAACTTCGAGCCA	59.965	55.000	0.00	0.00	0.00	4.75
1591	1794	1.433534	GACCTTCAACTTCGAGCCAG	58.566	55.000	0.00	0.00	0.00	4.85
1592	1795	0.603975	ACCTTCAACTTCGAGCCAGC	60.604	55.000	0.00	0.00	0.00	4.85
1689	1892	1.618837	CTCCTTCCAGAGTTTCCGACA	59.381	52.381	0.00	0.00	0.00	4.35
1760	1963	3.157087	ACCACAATTTCTGGCTGGTAAG	58.843	45.455	0.00	0.00	33.29	2.34
1812	2015	0.248094	TCGCGCTCTACATCAACGAG	60.248	55.000	5.56	0.00	0.00	4.18
1815	2018	1.862008	GCGCTCTACATCAACGAGGAG	60.862	57.143	0.00	0.00	0.00	3.69
1837	2043	1.079750	GAAGAGGAAGGACGCGCTT	60.080	57.895	5.73	1.30	0.00	4.68
1863	2069	3.437049	GTGTGTTCTATGGCAACTCCTTC	59.563	47.826	0.00	0.00	35.26	3.46
1866	2072	4.702131	GTGTTCTATGGCAACTCCTTCATT	59.298	41.667	0.00	0.00	35.26	2.57
1867	2073	4.701651	TGTTCTATGGCAACTCCTTCATTG	59.298	41.667	0.00	0.00	35.26	2.82
1872	2078	0.108945	GCAACTCCTTCATTGCCAGC	60.109	55.000	0.00	0.00	44.42	4.85
1874	2080	0.962356	AACTCCTTCATTGCCAGCCG	60.962	55.000	0.00	0.00	0.00	5.52
1876	2082	2.045045	CCTTCATTGCCAGCCGGA	60.045	61.111	5.05	0.00	0.00	5.14
1953	2159	2.018324	GCAAGCAAAACAGGAGCGC	61.018	57.895	0.00	0.00	0.00	5.92
1954	2160	1.359833	CAAGCAAAACAGGAGCGCA	59.640	52.632	11.47	0.00	0.00	6.09
1955	2161	0.936297	CAAGCAAAACAGGAGCGCAC	60.936	55.000	11.47	1.97	0.00	5.34
1969	2175	0.810648	GCGCACCATGGAAAAGATGA	59.189	50.000	21.47	0.00	0.00	2.92
1970	2176	1.202222	GCGCACCATGGAAAAGATGAG	60.202	52.381	21.47	7.99	0.00	2.90
1971	2177	2.086869	CGCACCATGGAAAAGATGAGT	58.913	47.619	21.47	0.00	0.00	3.41
1979	2185	5.105997	CCATGGAAAAGATGAGTTGAAGACC	60.106	44.000	5.56	0.00	0.00	3.85
1980	2186	5.047566	TGGAAAAGATGAGTTGAAGACCA	57.952	39.130	0.00	0.00	0.00	4.02
1988	2194	3.674997	TGAGTTGAAGACCATAACAGGC	58.325	45.455	0.00	0.00	0.00	4.85
1991	2197	5.189736	TGAGTTGAAGACCATAACAGGCTAT	59.810	40.000	0.00	0.00	0.00	2.97
1993	2199	4.322080	TGAAGACCATAACAGGCTATCG	57.678	45.455	0.00	0.00	0.00	2.92
1997	2203	3.898123	AGACCATAACAGGCTATCGATGT	59.102	43.478	8.54	0.00	0.00	3.06
1998	2204	4.021894	AGACCATAACAGGCTATCGATGTC	60.022	45.833	8.54	2.12	0.00	3.06
2002	2208	5.760253	CCATAACAGGCTATCGATGTCTTTT	59.240	40.000	8.54	7.06	0.00	2.27
2003	2209	6.260936	CCATAACAGGCTATCGATGTCTTTTT	59.739	38.462	8.54	3.82	0.00	1.94
2005	2211	5.091261	ACAGGCTATCGATGTCTTTTTCT	57.909	39.130	8.54	0.00	0.00	2.52
2006	2212	6.222038	ACAGGCTATCGATGTCTTTTTCTA	57.778	37.500	8.54	0.00	0.00	2.10
2007	2213	6.821388	ACAGGCTATCGATGTCTTTTTCTAT	58.179	36.000	8.54	0.00	0.00	1.98
2008	2214	7.952671	ACAGGCTATCGATGTCTTTTTCTATA	58.047	34.615	8.54	0.00	0.00	1.31
2009	2215	8.589338	ACAGGCTATCGATGTCTTTTTCTATAT	58.411	33.333	8.54	0.00	0.00	0.86
2012	2218	9.081997	GGCTATCGATGTCTTTTTCTATATCAG	57.918	37.037	8.54	0.00	0.00	2.90
2042	2400	7.719483	TCCTGATTTCTTATTTCATTCCATGC	58.281	34.615	0.00	0.00	0.00	4.06
2102	2460	5.107259	TGTCAACGTTGTATGCTTGTATGAC	60.107	40.000	26.47	13.67	35.30	3.06
2119	2477	0.172803	GACCTTCATACGCGACAGGT	59.827	55.000	15.93	15.76	40.75	4.00
2120	2478	1.402968	GACCTTCATACGCGACAGGTA	59.597	52.381	15.93	0.00	38.01	3.08
2121	2479	2.029623	ACCTTCATACGCGACAGGTAT	58.970	47.619	15.93	0.00	36.02	2.73
2123	2481	3.050619	CCTTCATACGCGACAGGTATTC	58.949	50.000	15.93	0.00	0.00	1.75
2126	2484	2.946990	TCATACGCGACAGGTATTCTCA	59.053	45.455	15.93	0.00	0.00	3.27
2162	2521	2.151202	TGAAGAAACGCTGAATGTCCC	58.849	47.619	0.00	0.00	0.00	4.46
2231	2594	4.987963	TTGATGGATCATGTCTATGGCT	57.012	40.909	0.00	0.00	36.56	4.75
2252	2615	4.816925	GCTGTGGGGTCATCTTCTATAAAC	59.183	45.833	0.00	0.00	0.00	2.01
2309	2672	1.563111	CACGCATGGATGGCAATTTC	58.437	50.000	0.00	0.00	0.00	2.17
2320	2683	6.638610	TGGATGGCAATTTCGTTTGAATTAT	58.361	32.000	0.00	0.00	33.20	1.28
2334	2697	7.967854	TCGTTTGAATTATCATAGGCTGTTTTG	59.032	33.333	0.00	0.00	34.96	2.44
2359	2725	3.092301	TCGAGAATGTCATGGACTGTCT	58.908	45.455	7.85	0.83	33.15	3.41
2371	2737	3.808728	TGGACTGTCTATATGCTTTGCC	58.191	45.455	7.85	0.00	0.00	4.52
2381	2747	8.597167	TGTCTATATGCTTTGCCTCTATTGTAT	58.403	33.333	0.00	0.00	0.00	2.29
2410	2776	6.494842	TGTTATGCAGAGACAAGTTTGAAAC	58.505	36.000	0.00	0.00	0.00	2.78
2417	2783	5.122239	CAGAGACAAGTTTGAAACTGTGTGA	59.878	40.000	21.63	0.00	41.91	3.58
2418	2784	5.122396	AGAGACAAGTTTGAAACTGTGTGAC	59.878	40.000	21.63	13.41	41.91	3.67
2419	2785	5.003804	AGACAAGTTTGAAACTGTGTGACT	58.996	37.500	21.63	14.92	41.91	3.41
2420	2786	5.046910	ACAAGTTTGAAACTGTGTGACTG	57.953	39.130	11.83	6.72	41.91	3.51
2421	2787	4.518970	ACAAGTTTGAAACTGTGTGACTGT	59.481	37.500	11.83	7.36	41.91	3.55
2422	2788	4.685169	AGTTTGAAACTGTGTGACTGTG	57.315	40.909	10.18	0.00	41.01	3.66
2423	2789	4.072131	AGTTTGAAACTGTGTGACTGTGT	58.928	39.130	10.18	0.00	41.01	3.72
2431	2797	0.034059	GTGTGACTGTGTCCCCTCAG	59.966	60.000	0.00	0.00	38.01	3.35
2511	2877	4.109766	CCCTTCAACGAGAAAACCAAAAC	58.890	43.478	0.00	0.00	35.40	2.43
2648	3082	3.963374	ACTCATTCTTCTCCATCGATCCA	59.037	43.478	0.00	0.00	0.00	3.41
2712	4216	6.677913	ACTTTTACATGTTACATTCTGCACC	58.322	36.000	2.30	0.00	0.00	5.01
2731	4235	3.376859	CACCTGCAGAAATACGCCATTTA	59.623	43.478	17.39	0.00	36.96	1.40
2826	5353	7.819644	TGTTTATCATTGAACCAGAATGACAG	58.180	34.615	0.00	0.00	41.46	3.51
2913	5444	9.695526	CACAATTCCATGTTGAATCTTAGAAAA	57.304	29.630	1.85	0.00	33.91	2.29

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
12	13	1.237954	TTGCGCCGCATTGAGGTTAA	61.238	50.000	14.63	0.00	38.76	2.01
365	534	4.828939	AGAAGGCACATCAAAAGACATTGA	59.171	37.500	0.00	0.00	43.03	2.57
584	762	7.069331	ACAAGTTCATCCAACCAAGTTCAAATA	59.931	33.333	0.00	0.00	35.28	1.40
730	917	4.000325	TCTAGCAGAGCGCAAAAATACAA	59.000	39.130	11.47	0.00	46.13	2.41
855	1046	2.742372	CCAACAGCCGCGCTAAGT	60.742	61.111	5.56	0.00	36.40	2.24
880	1071	5.279506	CGATAGGGTAACTGATGGTGCTAAT	60.280	44.000	0.00	0.00	0.00	1.73
1036	1233	2.802792	CCACATTGCCCGCTGATG	59.197	61.111	3.21	3.21	0.00	3.07
1152	1352	1.925455	AGGGGTATGGTGCAGCACT	60.925	57.895	22.79	10.57	34.40	4.40
1167	1367	0.684479	TCATGTCCGTCTCCTCAGGG	60.684	60.000	0.00	0.00	0.00	4.45
1188	1388	1.302285	CAGCTGCTTGACCTCCCAT	59.698	57.895	0.00	0.00	0.00	4.00
1210	1410	2.591715	GTCACAAGGCACTGGCGT	60.592	61.111	0.00	0.00	40.86	5.68
1370	1573	1.451927	GGCAGCGGTGGATGATTGA	60.452	57.895	17.54	0.00	0.00	2.57
1374	1577	4.758251	CGTGGCAGCGGTGGATGA	62.758	66.667	17.54	0.00	0.00	2.92
1389	1592	2.502577	GGTAGCCGGGCATAACGT	59.497	61.111	23.09	0.97	0.00	3.99
1402	1605	1.043116	TGATCCAGCTCCACGGGTAG	61.043	60.000	0.00	0.00	34.76	3.18
1429	1632	0.463116	GCCCCGGAATCAATGTACGT	60.463	55.000	0.73	0.00	0.00	3.57
1430	1633	1.164041	GGCCCCGGAATCAATGTACG	61.164	60.000	0.73	0.00	0.00	3.67
1431	1634	0.822121	GGGCCCCGGAATCAATGTAC	60.822	60.000	12.23	0.00	0.00	2.90
1437	1640	4.750695	TCAGGGGCCCCGGAATCA	62.751	66.667	38.40	18.54	41.95	2.57
1486	1689	1.068472	GCTGATGAGCTGCATAATGCC	60.068	52.381	1.02	0.00	42.52	4.40
1503	1706	0.247419	CTGCGTCGTTGCTAATGCTG	60.247	55.000	0.00	0.00	40.48	4.41
1551	1754	2.605338	CCAGGTTGTGATGTTGAAAGCG	60.605	50.000	0.00	0.00	0.00	4.68
1578	1781	1.915614	ATTGCGCTGGCTCGAAGTTG	61.916	55.000	9.73	0.00	40.82	3.16
1579	1782	1.672356	ATTGCGCTGGCTCGAAGTT	60.672	52.632	9.73	0.00	40.82	2.66
1581	1784	2.402388	CATTGCGCTGGCTCGAAG	59.598	61.111	9.73	0.00	40.82	3.79
1592	1795	0.664166	GACAACCTTGTGCCATTGCG	60.664	55.000	0.00	0.00	42.43	4.85
1689	1892	3.657398	TCAGGATCAACCATGCTCATT	57.343	42.857	0.00	0.00	42.04	2.57
1760	1963	4.464112	GACCTTGTTCTTAATGTTGACGC	58.536	43.478	0.00	0.00	0.00	5.19
1812	2015	1.478916	CGTCCTTCCTCTTCTTCCTCC	59.521	57.143	0.00	0.00	0.00	4.30
1815	2018	0.458716	CGCGTCCTTCCTCTTCTTCC	60.459	60.000	0.00	0.00	0.00	3.46
1837	2043	2.371841	AGTTGCCATAGAACACACCAGA	59.628	45.455	0.00	0.00	0.00	3.86
1863	2069	2.484062	GGTGATCCGGCTGGCAATG	61.484	63.158	6.73	0.00	34.14	2.82
1874	2080	1.056660	ATCCATGTACCGGGTGATCC	58.943	55.000	10.66	0.00	0.00	3.36
1876	2082	2.637872	CCTTATCCATGTACCGGGTGAT	59.362	50.000	10.66	6.06	0.00	3.06
1953	2159	5.474532	TCTTCAACTCATCTTTTCCATGGTG	59.525	40.000	12.58	1.02	0.00	4.17
1954	2160	5.474876	GTCTTCAACTCATCTTTTCCATGGT	59.525	40.000	12.58	0.00	0.00	3.55
1955	2161	5.105997	GGTCTTCAACTCATCTTTTCCATGG	60.106	44.000	4.97	4.97	0.00	3.66
1969	2175	5.675538	GATAGCCTGTTATGGTCTTCAACT	58.324	41.667	0.00	0.00	0.00	3.16
1970	2176	4.508124	CGATAGCCTGTTATGGTCTTCAAC	59.492	45.833	0.00	0.00	0.00	3.18
1971	2177	4.404394	TCGATAGCCTGTTATGGTCTTCAA	59.596	41.667	0.00	0.00	0.00	2.69
1979	2185	6.851222	AAAAGACATCGATAGCCTGTTATG	57.149	37.500	0.00	0.00	32.91	1.90
1980	2186	7.275920	AGAAAAAGACATCGATAGCCTGTTAT	58.724	34.615	0.00	0.00	32.91	1.89
1988	2194	9.579768	CCCTGATATAGAAAAAGACATCGATAG	57.420	37.037	0.00	0.00	0.00	2.08
1991	2197	7.597288	TCCCTGATATAGAAAAAGACATCGA	57.403	36.000	0.00	0.00	0.00	3.59
1993	2199	9.225436	GGATTCCCTGATATAGAAAAAGACATC	57.775	37.037	0.00	0.00	0.00	3.06
2012	2218	8.363390	GGAATGAAATAAGAAATCAGGATTCCC	58.637	37.037	0.00	0.00	29.54	3.97
2102	2460	2.795175	ATACCTGTCGCGTATGAAGG	57.205	50.000	5.77	9.68	0.00	3.46
2111	2469	2.541762	GCTGATTGAGAATACCTGTCGC	59.458	50.000	0.00	0.00	0.00	5.19
2112	2470	3.126831	GGCTGATTGAGAATACCTGTCG	58.873	50.000	0.00	0.00	0.00	4.35
2119	2477	4.033009	TGGACTCTGGCTGATTGAGAATA	58.967	43.478	0.00	0.00	0.00	1.75
2120	2478	2.842496	TGGACTCTGGCTGATTGAGAAT	59.158	45.455	0.00	0.00	0.00	2.40
2121	2479	2.259917	TGGACTCTGGCTGATTGAGAA	58.740	47.619	0.00	0.00	0.00	2.87
2123	2481	2.169978	TCATGGACTCTGGCTGATTGAG	59.830	50.000	0.00	0.00	0.00	3.02
2126	2484	2.842496	TCTTCATGGACTCTGGCTGATT	59.158	45.455	0.00	0.00	0.00	2.57
2162	2521	5.426504	ACAAGCCTGATCTCTACTGAAATG	58.573	41.667	0.00	0.00	0.00	2.32
2209	2568	5.067954	CAGCCATAGACATGATCCATCAAA	58.932	41.667	0.00	0.00	40.69	2.69
2217	2580	1.422781	CCCCACAGCCATAGACATGAT	59.577	52.381	0.00	0.00	33.67	2.45
2231	2594	5.104527	CCTGTTTATAGAAGATGACCCCACA	60.105	44.000	0.00	0.00	0.00	4.17
2252	2615	9.760077	ACTAACTTAATACCGATCATTTACCTG	57.240	33.333	0.00	0.00	0.00	4.00
2269	2632	7.441760	TGCGTGGTAAATTCTTCACTAACTTAA	59.558	33.333	0.00	0.00	0.00	1.85
2305	2668	8.225603	ACAGCCTATGATAATTCAAACGAAAT	57.774	30.769	0.00	0.00	34.96	2.17
2309	2672	7.754924	ACAAAACAGCCTATGATAATTCAAACG	59.245	33.333	0.00	0.00	34.96	3.60
2320	2683	5.060506	TCTCGAAAACAAAACAGCCTATGA	58.939	37.500	0.00	0.00	0.00	2.15
2334	2697	4.452455	ACAGTCCATGACATTCTCGAAAAC	59.548	41.667	0.00	0.00	34.60	2.43
2410	2776	0.034059	GAGGGGACACAGTCACACAG	59.966	60.000	1.48	0.00	37.77	3.66
2440	2806	7.399765	TGATCCAATCCCATACAATTTCAAACT	59.600	33.333	0.00	0.00	0.00	2.66
2441	2807	7.555087	TGATCCAATCCCATACAATTTCAAAC	58.445	34.615	0.00	0.00	0.00	2.93
2442	2808	7.730672	TGATCCAATCCCATACAATTTCAAA	57.269	32.000	0.00	0.00	0.00	2.69
2443	2809	7.785985	AGATGATCCAATCCCATACAATTTCAA	59.214	33.333	0.00	0.00	0.00	2.69
2521	2928	6.978080	TGGCAAAGATACTGTTGTTTCTTTTC	59.022	34.615	10.35	7.25	45.42	2.29
2712	4216	4.614555	TGTAAATGGCGTATTTCTGCAG	57.385	40.909	7.63	7.63	39.61	4.41
2731	4235	6.914665	TCAGGATTTTAGGGATTCATCATGT	58.085	36.000	0.00	0.00	29.79	3.21
2913	5444	8.632906	AGAAGAAGATGAACAAGAAATCATGT	57.367	30.769	0.00	0.00	36.45	3.21

Based at the University of Bristol with support from BBSRC.

AutoCloner maintained by Alex Coulton.