AutoCloner

Multiple sequence alignment - TraesCS7B01G198000

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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	TraesCS7B01G198000	chr7B	100.000	2404	0	0	1	2404	347978724	347981127	0.000000e+00	4440.0
1	TraesCS7B01G198000	chr7B	92.123	749	54	5	1	748	36861192	36861936	0.000000e+00	1051.0
2	TraesCS7B01G198000	chr7B	94.340	53	2	1	1663	1715	347980332	347980383	1.980000e-11	80.5
3	TraesCS7B01G198000	chr7B	94.340	53	2	1	1609	1660	347980386	347980438	1.980000e-11	80.5
4	TraesCS7B01G198000	chr7D	96.588	762	14	6	903	1660	320292773	320292020	0.000000e+00	1253.0
5	TraesCS7B01G198000	chr7D	89.424	851	71	9	1	847	565209114	565209949	0.000000e+00	1055.0
6	TraesCS7B01G198000	chr7D	97.211	251	6	1	2154	2404	320290890	320290641	7.940000e-115	424.0
7	TraesCS7B01G198000	chr7D	97.297	222	6	0	1936	2157	320291156	320290935	6.270000e-101	377.0
8	TraesCS7B01G198000	chr7D	90.572	297	7	7	1663	1939	320292071	320291776	8.120000e-100	374.0
9	TraesCS7B01G198000	chr3B	90.909	858	65	5	1	851	72112885	72112034	0.000000e+00	1140.0
10	TraesCS7B01G198000	chr4B	90.212	848	71	4	1	847	621845371	621846207	0.000000e+00	1096.0
11	TraesCS7B01G198000	chr5D	89.720	856	70	8	2	851	431560252	431559409	0.000000e+00	1077.0
12	TraesCS7B01G198000	chrUn	92.123	749	54	5	1	748	305359789	305359045	0.000000e+00	1051.0
13	TraesCS7B01G198000	chrUn	92.105	152	11	1	2003	2154	277314048	277314198	1.870000e-51	213.0
14	TraesCS7B01G198000	chr4D	89.215	853	66	11	1	847	476862987	476862155	0.000000e+00	1042.0
15	TraesCS7B01G198000	chr4D	91.667	156	13	0	2002	2157	65536295	65536140	1.450000e-52	217.0
16	TraesCS7B01G198000	chr4D	91.613	155	13	0	2003	2157	482703627	482703473	5.210000e-52	215.0
17	TraesCS7B01G198000	chr7A	96.486	626	17	4	903	1525	384388861	384389484	0.000000e+00	1029.0
18	TraesCS7B01G198000	chr7A	93.578	436	8	6	1521	1936	384394983	384395418	1.210000e-177	632.0
19	TraesCS7B01G198000	chr7A	96.053	152	3	1	2256	2404	384396010	384396161	6.640000e-61	244.0
20	TraesCS7B01G198000	chr7A	92.208	154	12	0	2004	2157	83784833	83784986	4.020000e-53	219.0
21	TraesCS7B01G198000	chr7A	96.154	52	2	0	1609	1660	384395125	384395176	4.260000e-13	86.1
22	TraesCS7B01G198000	chr7A	93.750	48	3	0	1936	1983	384395969	384396016	3.320000e-09	73.1
23	TraesCS7B01G198000	chr2D	88.262	869	85	9	1	863	564075234	564074377	0.000000e+00	1024.0
24	TraesCS7B01G198000	chr2D	88.042	853	68	16	1	847	638849227	638848403	0.000000e+00	979.0
25	TraesCS7B01G198000	chr2B	92.258	155	12	0	2003	2157	660461420	660461574	1.120000e-53	220.0
26	TraesCS7B01G198000	chr5B	92.157	153	12	0	2005	2157	574956445	574956597	1.450000e-52	217.0
27	TraesCS7B01G198000	chr6A	91.613	155	13	0	2003	2157	153372886	153373040	5.210000e-52	215.0
28	TraesCS7B01G198000	chr6B	89.820	167	14	3	1992	2157	720714439	720714603	6.730000e-51	211.0

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	TraesCS7B01G198000	chr7B	347978724	347981127	2403	False	1533.666667	4440	96.226667	1	2404	3	chr7B.!!$F2	2403
1	TraesCS7B01G198000	chr7B	36861192	36861936	744	False	1051.000000	1051	92.123000	1	748	1	chr7B.!!$F1	747
2	TraesCS7B01G198000	chr7D	565209114	565209949	835	False	1055.000000	1055	89.424000	1	847	1	chr7D.!!$F1	846
3	TraesCS7B01G198000	chr7D	320290641	320292773	2132	True	607.000000	1253	95.417000	903	2404	4	chr7D.!!$R1	1501
4	TraesCS7B01G198000	chr3B	72112034	72112885	851	True	1140.000000	1140	90.909000	1	851	1	chr3B.!!$R1	850
5	TraesCS7B01G198000	chr4B	621845371	621846207	836	False	1096.000000	1096	90.212000	1	847	1	chr4B.!!$F1	846
6	TraesCS7B01G198000	chr5D	431559409	431560252	843	True	1077.000000	1077	89.720000	2	851	1	chr5D.!!$R1	849
7	TraesCS7B01G198000	chrUn	305359045	305359789	744	True	1051.000000	1051	92.123000	1	748	1	chrUn.!!$R1	747
8	TraesCS7B01G198000	chr4D	476862155	476862987	832	True	1042.000000	1042	89.215000	1	847	1	chr4D.!!$R2	846
9	TraesCS7B01G198000	chr7A	384388861	384389484	623	False	1029.000000	1029	96.486000	903	1525	1	chr7A.!!$F2	622
10	TraesCS7B01G198000	chr7A	384394983	384396161	1178	False	258.800000	632	94.883750	1521	2404	4	chr7A.!!$F3	883
11	TraesCS7B01G198000	chr2D	564074377	564075234	857	True	1024.000000	1024	88.262000	1	863	1	chr2D.!!$R1	862
12	TraesCS7B01G198000	chr2D	638848403	638849227	824	True	979.000000	979	88.042000	1	847	1	chr2D.!!$R2	846

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
869	900	0.108992	ATACCACACGAATGCGACGT	60.109	50.0	0.0	0.0	44.83	4.34	F

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability	Orientation
1675	1763	0.040058	ATGCCCTCATCACCAAAGCA	59.96	50.0	0.0	0.0	0.0	3.91	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
128	135	3.372554	GAGGCCTGTGGGTAGACGC	62.373	68.421	12.00	0.00	34.45	5.19
183	190	3.555324	TGACTCGGGCAGCACCAA	61.555	61.111	0.00	0.00	42.05	3.67
189	196	4.329545	GGGCAGCACCAACCGAGA	62.330	66.667	0.00	0.00	42.05	4.04
241	248	2.678934	ACGGCTTGGACGAGGCTA	60.679	61.111	10.87	0.00	35.20	3.93
346	362	3.532155	GCCTCATCCCTCGCGTCT	61.532	66.667	5.77	0.00	0.00	4.18
349	365	3.068064	TCATCCCTCGCGTCTGCA	61.068	61.111	5.77	0.00	42.97	4.41
362	378	4.827087	CTGCAGCGTGCCTCCGAT	62.827	66.667	0.00	0.00	44.23	4.18
382	398	1.153745	CTTCCTCTTGGCCGACTCG	60.154	63.158	0.00	0.00	0.00	4.18
601	625	1.000394	CGGGAGCGTTTTTGGGAAAAT	60.000	47.619	0.00	0.00	37.12	1.82
602	626	2.412870	GGGAGCGTTTTTGGGAAAATG	58.587	47.619	0.68	0.68	42.19	2.32
751	782	1.416820	CGAAAAACGGACGCGCATA	59.583	52.632	5.73	0.00	38.46	3.14
789	820	1.826487	GGCCACCACTTTTGTCCGT	60.826	57.895	0.00	0.00	0.00	4.69
806	837	1.209127	GTGCCAATCCAAACGGACG	59.791	57.895	0.00	0.00	34.62	4.79
807	838	2.178273	GCCAATCCAAACGGACGC	59.822	61.111	0.00	0.00	34.62	5.19
808	839	2.478746	CCAATCCAAACGGACGCG	59.521	61.111	3.53	3.53	34.62	6.01
809	840	2.478746	CAATCCAAACGGACGCGG	59.521	61.111	12.47	0.00	34.62	6.46
833	864	1.153168	CGGATGAAATGGGTCGCCT	60.153	57.895	0.00	0.00	0.00	5.52
847	878	1.537202	GTCGCCTCATTGAAGTTGCTT	59.463	47.619	0.00	0.00	0.00	3.91
851	882	4.458989	TCGCCTCATTGAAGTTGCTTTTAT	59.541	37.500	0.00	0.00	0.00	1.40
852	883	5.645929	TCGCCTCATTGAAGTTGCTTTTATA	59.354	36.000	0.00	0.00	0.00	0.98
853	884	5.739161	CGCCTCATTGAAGTTGCTTTTATAC	59.261	40.000	0.00	0.00	0.00	1.47
855	886	6.350110	GCCTCATTGAAGTTGCTTTTATACCA	60.350	38.462	0.00	0.00	0.00	3.25
856	887	7.029563	CCTCATTGAAGTTGCTTTTATACCAC	58.970	38.462	0.00	0.00	0.00	4.16
857	888	7.309133	CCTCATTGAAGTTGCTTTTATACCACA	60.309	37.037	0.00	0.00	0.00	4.17
858	889	7.367285	TCATTGAAGTTGCTTTTATACCACAC	58.633	34.615	0.00	0.00	0.00	3.82
859	890	5.351233	TGAAGTTGCTTTTATACCACACG	57.649	39.130	0.00	0.00	0.00	4.49
860	891	5.057819	TGAAGTTGCTTTTATACCACACGA	58.942	37.500	0.00	0.00	0.00	4.35
861	892	5.527951	TGAAGTTGCTTTTATACCACACGAA	59.472	36.000	0.00	0.00	0.00	3.85
862	893	6.205853	TGAAGTTGCTTTTATACCACACGAAT	59.794	34.615	0.00	0.00	0.00	3.34
863	894	5.938322	AGTTGCTTTTATACCACACGAATG	58.062	37.500	0.00	0.00	0.00	2.67
864	895	4.349663	TGCTTTTATACCACACGAATGC	57.650	40.909	0.00	0.00	0.00	3.56
865	896	3.181515	TGCTTTTATACCACACGAATGCG	60.182	43.478	0.00	0.00	44.79	4.73
866	897	3.062909	GCTTTTATACCACACGAATGCGA	59.937	43.478	0.00	0.00	41.64	5.10
867	898	4.574759	CTTTTATACCACACGAATGCGAC	58.425	43.478	0.00	0.00	41.64	5.19
868	899	1.830086	TATACCACACGAATGCGACG	58.170	50.000	0.00	0.00	41.64	5.12
869	900	0.108992	ATACCACACGAATGCGACGT	60.109	50.000	0.00	0.00	44.83	4.34
870	901	0.730155	TACCACACGAATGCGACGTC	60.730	55.000	5.18	5.18	42.07	4.34
871	902	2.726691	CCACACGAATGCGACGTCC	61.727	63.158	10.58	3.43	42.07	4.79
872	903	2.019408	CACACGAATGCGACGTCCA	61.019	57.895	10.58	9.55	42.07	4.02
873	904	2.019951	ACACGAATGCGACGTCCAC	61.020	57.895	10.58	2.86	42.07	4.02
874	905	2.019408	CACGAATGCGACGTCCACA	61.019	57.895	10.58	9.26	42.07	4.17
875	906	1.733041	ACGAATGCGACGTCCACAG	60.733	57.895	10.58	6.79	39.87	3.66
876	907	2.444624	CGAATGCGACGTCCACAGG	61.445	63.158	10.58	0.00	40.82	4.00
877	908	1.374252	GAATGCGACGTCCACAGGT	60.374	57.895	10.58	1.16	0.00	4.00
878	909	0.949105	GAATGCGACGTCCACAGGTT	60.949	55.000	10.58	1.03	0.00	3.50
879	910	0.949105	AATGCGACGTCCACAGGTTC	60.949	55.000	10.58	0.00	0.00	3.62
880	911	2.737376	GCGACGTCCACAGGTTCC	60.737	66.667	10.58	0.00	0.00	3.62
881	912	3.048602	CGACGTCCACAGGTTCCT	58.951	61.111	10.58	0.00	0.00	3.36
882	913	1.080705	CGACGTCCACAGGTTCCTC	60.081	63.158	10.58	0.00	0.00	3.71
883	914	1.292541	GACGTCCACAGGTTCCTCC	59.707	63.158	3.51	0.00	0.00	4.30
884	915	2.261671	CGTCCACAGGTTCCTCCG	59.738	66.667	0.00	0.00	41.99	4.63
885	916	2.047179	GTCCACAGGTTCCTCCGC	60.047	66.667	0.00	0.00	41.99	5.54
886	917	2.525629	TCCACAGGTTCCTCCGCA	60.526	61.111	0.00	0.00	41.99	5.69
887	918	2.358737	CCACAGGTTCCTCCGCAC	60.359	66.667	0.00	0.00	41.99	5.34
888	919	2.358737	CACAGGTTCCTCCGCACC	60.359	66.667	0.00	0.00	41.99	5.01
889	920	3.637273	ACAGGTTCCTCCGCACCC	61.637	66.667	0.00	0.00	41.99	4.61
890	921	3.322466	CAGGTTCCTCCGCACCCT	61.322	66.667	0.00	0.00	41.99	4.34
891	922	3.003763	AGGTTCCTCCGCACCCTC	61.004	66.667	0.00	0.00	41.99	4.30
892	923	4.452733	GGTTCCTCCGCACCCTCG	62.453	72.222	0.00	0.00	0.00	4.63
901	932	4.035102	GCACCCTCGGCTTTCCCT	62.035	66.667	0.00	0.00	0.00	4.20
1004	1035	1.694169	AGGGGACTAGCACCATGGG	60.694	63.158	18.09	6.26	45.20	4.00
1032	1063	1.140804	GCTGCTCCTCTCCTTCGAC	59.859	63.158	0.00	0.00	0.00	4.20
1129	1160	2.765807	CCCCAGCCTCATCCGTCT	60.766	66.667	0.00	0.00	0.00	4.18
1224	1255	4.023193	CCGTTCCTTGCTTCTTGTGTTTAT	60.023	41.667	0.00	0.00	0.00	1.40
1301	1332	6.239008	CGGGGTTTATACGAGTCCTATGTTAA	60.239	42.308	0.00	0.00	0.00	2.01
1302	1333	7.150640	GGGGTTTATACGAGTCCTATGTTAAG	58.849	42.308	0.00	0.00	0.00	1.85
1303	1334	7.014615	GGGGTTTATACGAGTCCTATGTTAAGA	59.985	40.741	0.00	0.00	0.00	2.10
1320	1351	3.391665	GACAGAGGGGTGGATGCGG	62.392	68.421	0.00	0.00	0.00	5.69
1448	1479	0.902531	AACCTGGGAGTATGTGGACG	59.097	55.000	0.00	0.00	0.00	4.79
1449	1480	0.040646	ACCTGGGAGTATGTGGACGA	59.959	55.000	0.00	0.00	0.00	4.20
1647	1735	2.291735	TGGTGATGAGGGCATTCATGTT	60.292	45.455	8.26	0.00	37.90	2.71
1648	1736	2.762327	GGTGATGAGGGCATTCATGTTT	59.238	45.455	8.26	0.00	37.90	2.83
1649	1737	3.181483	GGTGATGAGGGCATTCATGTTTC	60.181	47.826	8.26	0.00	37.90	2.78
1650	1738	3.025978	TGATGAGGGCATTCATGTTTCC	58.974	45.455	8.26	0.00	37.90	3.13
1651	1739	2.601240	TGAGGGCATTCATGTTTCCA	57.399	45.000	0.00	0.00	0.00	3.53
1652	1740	2.449464	TGAGGGCATTCATGTTTCCAG	58.551	47.619	0.00	0.00	0.00	3.86
1653	1741	2.225091	TGAGGGCATTCATGTTTCCAGT	60.225	45.455	0.00	0.00	0.00	4.00
1654	1742	3.010027	TGAGGGCATTCATGTTTCCAGTA	59.990	43.478	0.00	0.00	0.00	2.74
1655	1743	4.016444	GAGGGCATTCATGTTTCCAGTAA	58.984	43.478	0.00	0.00	0.00	2.24
1656	1744	4.415596	AGGGCATTCATGTTTCCAGTAAA	58.584	39.130	0.00	0.00	0.00	2.01
1657	1745	4.837860	AGGGCATTCATGTTTCCAGTAAAA	59.162	37.500	0.00	0.00	0.00	1.52
1658	1746	5.306678	AGGGCATTCATGTTTCCAGTAAAAA	59.693	36.000	0.00	0.00	0.00	1.94
1685	1773	3.663176	GCTGCGCTGCTTTGGTGA	61.663	61.111	29.28	0.00	0.00	4.02
1686	1774	2.986306	GCTGCGCTGCTTTGGTGAT	61.986	57.895	29.28	0.00	0.00	3.06
1687	1775	1.154093	CTGCGCTGCTTTGGTGATG	60.154	57.895	9.73	0.00	0.00	3.07
1688	1776	1.579964	CTGCGCTGCTTTGGTGATGA	61.580	55.000	9.73	0.00	0.00	2.92
1689	1777	1.136147	GCGCTGCTTTGGTGATGAG	59.864	57.895	0.00	0.00	0.00	2.90
1690	1778	1.798735	CGCTGCTTTGGTGATGAGG	59.201	57.895	0.00	0.00	0.00	3.86
1691	1779	1.651240	CGCTGCTTTGGTGATGAGGG	61.651	60.000	0.00	0.00	0.00	4.30
1692	1780	1.941999	GCTGCTTTGGTGATGAGGGC	61.942	60.000	0.00	0.00	0.00	5.19
1693	1781	0.609957	CTGCTTTGGTGATGAGGGCA	60.610	55.000	0.00	0.00	0.00	5.36
1694	1782	0.040058	TGCTTTGGTGATGAGGGCAT	59.960	50.000	0.00	0.00	37.47	4.40
1695	1783	1.188863	GCTTTGGTGATGAGGGCATT	58.811	50.000	0.00	0.00	34.11	3.56
1696	1784	1.135721	GCTTTGGTGATGAGGGCATTC	59.864	52.381	0.00	0.00	34.11	2.67
1697	1785	2.449464	CTTTGGTGATGAGGGCATTCA	58.551	47.619	0.00	0.00	34.11	2.57
1698	1786	2.832643	TTGGTGATGAGGGCATTCAT	57.167	45.000	3.72	3.72	40.40	2.57
1699	1787	2.061509	TGGTGATGAGGGCATTCATG	57.938	50.000	8.26	0.00	37.90	3.07
1700	1788	1.285667	TGGTGATGAGGGCATTCATGT	59.714	47.619	8.26	0.00	37.90	3.21
1711	1799	6.599244	TGAGGGCATTCATGTTTCTAGTAAAG	59.401	38.462	0.00	0.00	0.00	1.85
1761	1849	6.208797	AGGATCCTTGTCGACGATTATGAATA	59.791	38.462	9.02	0.00	0.00	1.75
1783	1871	1.001048	CATTTGGGACGCATATGCCAG	60.001	52.381	21.77	11.32	41.65	4.85
1829	1937	4.757149	GTGAAGCTCTAACATGTCCTTGTT	59.243	41.667	0.00	4.31	42.31	2.83
1975	2706	1.526686	CAGTCACTGCCTGCAACCA	60.527	57.895	0.00	0.00	0.00	3.67
2136	2867	0.246635	CCAAGACTCGAACCCGTGAT	59.753	55.000	0.00	0.00	37.05	3.06
2192	2971	8.932945	TGAACTACACATTTTTAATGTTGCAA	57.067	26.923	0.00	0.00	0.00	4.08
2243	3022	3.260884	ACAGAAGACACGGACCATACAAT	59.739	43.478	0.00	0.00	0.00	2.71
2252	3031	9.524496	AGACACGGACCATACAATAATAGTATA	57.476	33.333	0.00	0.00	31.32	1.47
2292	3071	4.302455	CTCCATCAACATAGCTAACCTCG	58.698	47.826	0.00	0.00	0.00	4.63

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
183	190	2.732094	CGTCGGCGTTTTCTCGGT	60.732	61.111	6.85	0.00	0.00	4.69
349	365	3.077556	AAGGATCGGAGGCACGCT	61.078	61.111	0.00	0.00	0.00	5.07
362	378	1.229209	AGTCGGCCAAGAGGAAGGA	60.229	57.895	2.24	0.00	36.89	3.36
601	625	0.114168	CCACCACCATTTTCCTCCCA	59.886	55.000	0.00	0.00	0.00	4.37
602	626	1.257750	GCCACCACCATTTTCCTCCC	61.258	60.000	0.00	0.00	0.00	4.30
636	661	2.591193	CTACTCTTCTCCCCGGGCCT	62.591	65.000	17.73	0.00	0.00	5.19
698	729	6.069705	TCCATTCCCGACCTAATTTTAAGT	57.930	37.500	0.00	0.00	0.00	2.24
749	780	2.816520	GCGCCGACCCAAACGTAT	60.817	61.111	0.00	0.00	0.00	3.06
808	839	3.595758	CATTTCATCCGCCCGCCC	61.596	66.667	0.00	0.00	0.00	6.13
809	840	3.595758	CCATTTCATCCGCCCGCC	61.596	66.667	0.00	0.00	0.00	6.13
833	864	7.367285	GTGTGGTATAAAAGCAACTTCAATGA	58.633	34.615	0.00	0.00	37.33	2.57
847	878	2.599527	CGTCGCATTCGTGTGGTATAAA	59.400	45.455	0.00	0.00	36.96	1.40
851	882	0.730155	GACGTCGCATTCGTGTGGTA	60.730	55.000	0.00	0.00	41.64	3.25
852	883	2.019951	GACGTCGCATTCGTGTGGT	61.020	57.895	0.00	0.00	41.64	4.16
853	884	2.726691	GGACGTCGCATTCGTGTGG	61.727	63.158	9.92	0.00	41.64	4.17
855	886	2.019951	GTGGACGTCGCATTCGTGT	61.020	57.895	9.92	0.00	41.64	4.49
856	887	1.944699	CTGTGGACGTCGCATTCGTG	61.945	60.000	9.92	0.00	41.64	4.35
857	888	1.733041	CTGTGGACGTCGCATTCGT	60.733	57.895	9.92	0.00	44.27	3.85
858	889	2.444624	CCTGTGGACGTCGCATTCG	61.445	63.158	9.92	0.15	35.08	3.34
859	890	0.949105	AACCTGTGGACGTCGCATTC	60.949	55.000	9.92	0.00	35.08	2.67
860	891	0.949105	GAACCTGTGGACGTCGCATT	60.949	55.000	9.92	3.66	35.08	3.56
861	892	1.374252	GAACCTGTGGACGTCGCAT	60.374	57.895	9.92	0.00	35.08	4.73
862	893	2.028484	GAACCTGTGGACGTCGCA	59.972	61.111	9.92	10.16	0.00	5.10
863	894	2.737376	GGAACCTGTGGACGTCGC	60.737	66.667	9.92	5.63	0.00	5.19
864	895	1.080705	GAGGAACCTGTGGACGTCG	60.081	63.158	9.92	0.00	0.00	5.12
865	896	1.292541	GGAGGAACCTGTGGACGTC	59.707	63.158	7.13	7.13	35.41	4.34
866	897	2.571216	CGGAGGAACCTGTGGACGT	61.571	63.158	0.00	0.00	36.31	4.34
867	898	2.261671	CGGAGGAACCTGTGGACG	59.738	66.667	0.00	0.00	36.31	4.79
868	899	2.047179	GCGGAGGAACCTGTGGAC	60.047	66.667	0.00	0.00	36.31	4.02
869	900	2.525629	TGCGGAGGAACCTGTGGA	60.526	61.111	0.00	0.00	36.31	4.02
870	901	2.358737	GTGCGGAGGAACCTGTGG	60.359	66.667	0.00	0.00	36.31	4.17
871	902	2.358737	GGTGCGGAGGAACCTGTG	60.359	66.667	0.00	0.00	36.31	3.66
884	915	3.978571	GAGGGAAAGCCGAGGGTGC	62.979	68.421	0.00	0.00	33.83	5.01
885	916	2.245438	GAGAGGGAAAGCCGAGGGTG	62.245	65.000	0.00	0.00	33.83	4.61
886	917	1.990614	GAGAGGGAAAGCCGAGGGT	60.991	63.158	0.00	0.00	33.83	4.34
887	918	2.736826	GGAGAGGGAAAGCCGAGGG	61.737	68.421	0.00	0.00	33.83	4.30
888	919	2.904131	GGAGAGGGAAAGCCGAGG	59.096	66.667	0.00	0.00	33.83	4.63
889	920	2.496817	CGGAGAGGGAAAGCCGAG	59.503	66.667	0.00	0.00	46.29	4.63
890	921	3.771160	GCGGAGAGGGAAAGCCGA	61.771	66.667	0.00	0.00	46.29	5.54
891	922	4.082523	TGCGGAGAGGGAAAGCCG	62.083	66.667	0.00	0.00	46.14	5.52
892	923	2.436824	GTGCGGAGAGGGAAAGCC	60.437	66.667	0.00	0.00	0.00	4.35
893	924	2.436824	GGTGCGGAGAGGGAAAGC	60.437	66.667	0.00	0.00	0.00	3.51
894	925	2.245438	GAGGGTGCGGAGAGGGAAAG	62.245	65.000	0.00	0.00	0.00	2.62
895	926	2.203938	AGGGTGCGGAGAGGGAAA	60.204	61.111	0.00	0.00	0.00	3.13
896	927	2.683933	GAGGGTGCGGAGAGGGAA	60.684	66.667	0.00	0.00	0.00	3.97
930	961	4.697756	TCGCGGCTGGAAACTGGG	62.698	66.667	6.13	0.00	0.00	4.45
968	999	1.468985	CTCTTCTCTCTCCCTCGCAA	58.531	55.000	0.00	0.00	0.00	4.85
1224	1255	8.557864	CATCCAATTGCAAATACAGAAAAACAA	58.442	29.630	1.71	0.00	0.00	2.83
1301	1332	2.362369	CGCATCCACCCCTCTGTCT	61.362	63.158	0.00	0.00	0.00	3.41
1302	1333	2.187946	CGCATCCACCCCTCTGTC	59.812	66.667	0.00	0.00	0.00	3.51
1303	1334	3.402681	CCGCATCCACCCCTCTGT	61.403	66.667	0.00	0.00	0.00	3.41
1669	1757	1.154093	CATCACCAAAGCAGCGCAG	60.154	57.895	11.47	1.31	0.00	5.18
1670	1758	1.579964	CTCATCACCAAAGCAGCGCA	61.580	55.000	11.47	0.00	0.00	6.09
1671	1759	1.136147	CTCATCACCAAAGCAGCGC	59.864	57.895	0.00	0.00	0.00	5.92
1672	1760	1.651240	CCCTCATCACCAAAGCAGCG	61.651	60.000	0.00	0.00	0.00	5.18
1673	1761	1.941999	GCCCTCATCACCAAAGCAGC	61.942	60.000	0.00	0.00	0.00	5.25
1674	1762	0.609957	TGCCCTCATCACCAAAGCAG	60.610	55.000	0.00	0.00	0.00	4.24
1675	1763	0.040058	ATGCCCTCATCACCAAAGCA	59.960	50.000	0.00	0.00	0.00	3.91
1676	1764	1.135721	GAATGCCCTCATCACCAAAGC	59.864	52.381	0.00	0.00	31.27	3.51
1677	1765	2.449464	TGAATGCCCTCATCACCAAAG	58.551	47.619	0.00	0.00	31.27	2.77
1678	1766	2.601240	TGAATGCCCTCATCACCAAA	57.399	45.000	0.00	0.00	31.27	3.28
1679	1767	2.291735	ACATGAATGCCCTCATCACCAA	60.292	45.455	0.00	0.00	33.66	3.67
1680	1768	1.285667	ACATGAATGCCCTCATCACCA	59.714	47.619	0.00	0.00	33.66	4.17
1681	1769	2.062971	ACATGAATGCCCTCATCACC	57.937	50.000	0.00	0.00	33.66	4.02
1682	1770	3.698040	AGAAACATGAATGCCCTCATCAC	59.302	43.478	0.00	0.00	33.66	3.06
1683	1771	3.972133	AGAAACATGAATGCCCTCATCA	58.028	40.909	0.00	0.00	33.66	3.07
1684	1772	5.128919	ACTAGAAACATGAATGCCCTCATC	58.871	41.667	0.00	0.00	33.66	2.92
1685	1773	5.121380	ACTAGAAACATGAATGCCCTCAT	57.879	39.130	0.00	0.00	36.45	2.90
1686	1774	4.574674	ACTAGAAACATGAATGCCCTCA	57.425	40.909	0.00	0.00	0.00	3.86
1687	1775	6.823689	TCTTTACTAGAAACATGAATGCCCTC	59.176	38.462	0.00	0.00	0.00	4.30
1688	1776	6.721318	TCTTTACTAGAAACATGAATGCCCT	58.279	36.000	0.00	0.00	0.00	5.19
1689	1777	7.391148	TTCTTTACTAGAAACATGAATGCCC	57.609	36.000	0.00	0.00	39.90	5.36
1711	1799	4.096532	GCAGGCTACTTCCTTAACCATTTC	59.903	45.833	0.00	0.00	33.25	2.17
1761	1849	1.888512	GGCATATGCGTCCCAAATGAT	59.111	47.619	21.04	0.00	43.26	2.45
1783	1871	8.928733	TCACTAACGGTACATTAATTCTTCAAC	58.071	33.333	0.00	0.00	0.00	3.18
1829	1937	6.778821	TCCAATCTTCACATGTAGGAAAGAA	58.221	36.000	0.00	0.00	0.00	2.52
1975	2706	3.045634	TGAATTGTCCCGACCATAGGAT	58.954	45.455	0.00	0.00	33.88	3.24
1984	2715	3.410631	TTTAGCTGTGAATTGTCCCGA	57.589	42.857	0.00	0.00	0.00	5.14
2110	2841	1.531578	GGTTCGAGTCTTGGAAACAGC	59.468	52.381	0.00	0.00	44.54	4.40
2136	2867	1.142667	TGTTGCCTTGTGACCATGAGA	59.857	47.619	0.00	0.00	0.00	3.27
2243	3022	9.875691	GCCATCATCATGTGAACTATACTATTA	57.124	33.333	0.00	0.00	40.97	0.98
2252	3031	2.422519	GGAGGCCATCATCATGTGAACT	60.423	50.000	5.01	0.00	40.97	3.01
2334	3116	4.884744	TCAAGAGGAGGAGAACGAAGATAG	59.115	45.833	0.00	0.00	0.00	2.08

Based at the University of Bristol with support from BBSRC.

AutoCloner maintained by Alex Coulton.