AutoCloner

Multiple sequence alignment - TraesCS6A01G336700

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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	TraesCS6A01G336700	chr6A	100.000	3161	0	0	1	3161	570725041	570728201	0.000000e+00	5838.0
1	TraesCS6A01G336700	chr6A	94.578	498	26	1	2187	2683	126348761	126349258	0.000000e+00	769.0
2	TraesCS6A01G336700	chr6A	95.198	479	23	0	2681	3159	126349515	126349993	0.000000e+00	758.0
3	TraesCS6A01G336700	chr6A	84.691	307	38	4	1864	2161	574480198	574480504	6.630000e-77	298.0
4	TraesCS6A01G336700	chr6A	75.614	529	99	18	2195	2710	614102324	614102835	5.270000e-58	235.0
5	TraesCS6A01G336700	chr6A	80.727	275	47	6	2709	2983	614103070	614103338	3.190000e-50	209.0
6	TraesCS6A01G336700	chr6D	98.390	1304	21	0	886	2189	425088511	425087208	0.000000e+00	2292.0
7	TraesCS6A01G336700	chr6D	93.987	632	24	7	1	622	425089566	425088939	0.000000e+00	944.0
8	TraesCS6A01G336700	chr6D	81.162	998	146	25	1196	2163	429314696	429313711	0.000000e+00	763.0
9	TraesCS6A01G336700	chr6D	84.597	422	56	5	1750	2162	429347864	429348285	8.160000e-111	411.0
10	TraesCS6A01G336700	chr6D	91.772	158	0	3	617	761	425088666	425088509	1.150000e-49	207.0
11	TraesCS6A01G336700	chr7A	96.407	974	34	1	2186	3159	651216958	651217930	0.000000e+00	1604.0
12	TraesCS6A01G336700	chr7A	88.933	253	27	1	2190	2441	652617208	652616956	8.510000e-81	311.0
13	TraesCS6A01G336700	chr7A	89.655	145	12	2	744	888	629777729	629777870	6.960000e-42	182.0
14	TraesCS6A01G336700	chr2A	95.786	973	38	3	2186	3158	54665420	54666389	0.000000e+00	1567.0
15	TraesCS6A01G336700	chr2A	95.765	850	36	0	2310	3159	777617017	777617866	0.000000e+00	1371.0
16	TraesCS6A01G336700	chr2A	79.426	836	155	13	2185	3016	90216234	90215412	2.730000e-160	575.0
17	TraesCS6A01G336700	chr2A	90.141	142	10	3	759	898	779662555	779662416	6.960000e-42	182.0
18	TraesCS6A01G336700	chr2A	93.333	45	2	1	3046	3090	54666241	54666284	7.320000e-07	65.8
19	TraesCS6A01G336700	chr1A	95.661	968	42	0	2190	3157	276600785	276601752	0.000000e+00	1555.0
20	TraesCS6A01G336700	chr3B	88.083	579	68	1	2436	3014	299796417	299796994	0.000000e+00	686.0
21	TraesCS6A01G336700	chr3D	84.047	677	94	7	2343	3016	560955144	560954479	9.560000e-180	640.0
22	TraesCS6A01G336700	chr6B	82.277	773	100	20	1417	2163	646632791	646632030	4.450000e-178	634.0
23	TraesCS6A01G336700	chr6B	81.240	597	68	29	1611	2164	646647870	646648465	2.890000e-120	442.0
24	TraesCS6A01G336700	chr6B	84.254	362	54	2	2186	2547	29728501	29728143	1.800000e-92	350.0
25	TraesCS6A01G336700	chr6B	73.118	930	209	31	1266	2164	550052696	550051777	8.570000e-76	294.0
26	TraesCS6A01G336700	chr2B	77.630	827	152	14	2192	3015	160205673	160204877	3.690000e-129	472.0
27	TraesCS6A01G336700	chr2B	88.446	251	28	1	2191	2440	157638108	157637858	5.120000e-78	302.0
28	TraesCS6A01G336700	chr2B	92.481	133	8	1	759	891	408742941	408742811	4.160000e-44	189.0
29	TraesCS6A01G336700	chr2B	88.406	69	7	1	140	208	745860979	745860912	7.270000e-12	82.4
30	TraesCS6A01G336700	chr1B	75.673	929	181	35	1274	2172	524154639	524153726	3.770000e-114	422.0
31	TraesCS6A01G336700	chr1B	75.510	931	179	41	1274	2172	524161778	524160865	8.160000e-111	411.0
32	TraesCS6A01G336700	chr5B	83.398	259	42	1	2339	2596	508597799	508597541	4.070000e-59	239.0
33	TraesCS6A01G336700	chr5B	93.077	130	7	1	759	888	141902327	141902454	4.160000e-44	189.0
34	TraesCS6A01G336700	chr5B	91.791	134	9	1	760	893	406873362	406873493	5.380000e-43	185.0
35	TraesCS6A01G336700	chrUn	79.522	293	58	2	2724	3016	425938702	425938992	1.150000e-49	207.0
36	TraesCS6A01G336700	chrUn	93.130	131	7	1	760	890	64149702	64149830	1.160000e-44	191.0
37	TraesCS6A01G336700	chrUn	90.714	140	10	2	760	898	117156483	117156346	1.940000e-42	183.0
38	TraesCS6A01G336700	chrUn	77.512	209	28	10	148	353	289471604	289471412	1.200000e-19	108.0
39	TraesCS6A01G336700	chrUn	84.545	110	14	3	267	376	289471408	289471302	4.310000e-19	106.0
40	TraesCS6A01G336700	chr4B	93.007	143	7	2	760	901	626638173	626638033	4.130000e-49	206.0
41	TraesCS6A01G336700	chr1D	91.176	136	10	1	753	888	469558678	469558811	1.940000e-42	183.0
42	TraesCS6A01G336700	chr1D	77.912	249	40	11	130	373	432377025	432377263	1.180000e-29	141.0
43	TraesCS6A01G336700	chr4A	77.512	209	28	10	148	353	641983104	641982912	1.200000e-19	108.0
44	TraesCS6A01G336700	chr4A	84.545	110	14	3	267	376	641982908	641982802	4.310000e-19	106.0

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	TraesCS6A01G336700	chr6A	570725041	570728201	3160	False	5838.000000	5838	100.000000	1	3161	1	chr6A.!!$F1	3160
1	TraesCS6A01G336700	chr6A	126348761	126349993	1232	False	763.500000	769	94.888000	2187	3159	2	chr6A.!!$F3	972
2	TraesCS6A01G336700	chr6A	614102324	614103338	1014	False	222.000000	235	78.170500	2195	2983	2	chr6A.!!$F4	788
3	TraesCS6A01G336700	chr6D	425087208	425089566	2358	True	1147.666667	2292	94.716333	1	2189	3	chr6D.!!$R2	2188
4	TraesCS6A01G336700	chr6D	429313711	429314696	985	True	763.000000	763	81.162000	1196	2163	1	chr6D.!!$R1	967
5	TraesCS6A01G336700	chr7A	651216958	651217930	972	False	1604.000000	1604	96.407000	2186	3159	1	chr7A.!!$F2	973
6	TraesCS6A01G336700	chr2A	777617017	777617866	849	False	1371.000000	1371	95.765000	2310	3159	1	chr2A.!!$F1	849
7	TraesCS6A01G336700	chr2A	54665420	54666389	969	False	816.400000	1567	94.559500	2186	3158	2	chr2A.!!$F2	972
8	TraesCS6A01G336700	chr2A	90215412	90216234	822	True	575.000000	575	79.426000	2185	3016	1	chr2A.!!$R1	831
9	TraesCS6A01G336700	chr1A	276600785	276601752	967	False	1555.000000	1555	95.661000	2190	3157	1	chr1A.!!$F1	967
10	TraesCS6A01G336700	chr3B	299796417	299796994	577	False	686.000000	686	88.083000	2436	3014	1	chr3B.!!$F1	578
11	TraesCS6A01G336700	chr3D	560954479	560955144	665	True	640.000000	640	84.047000	2343	3016	1	chr3D.!!$R1	673
12	TraesCS6A01G336700	chr6B	646632030	646632791	761	True	634.000000	634	82.277000	1417	2163	1	chr6B.!!$R3	746
13	TraesCS6A01G336700	chr6B	646647870	646648465	595	False	442.000000	442	81.240000	1611	2164	1	chr6B.!!$F1	553
14	TraesCS6A01G336700	chr6B	550051777	550052696	919	True	294.000000	294	73.118000	1266	2164	1	chr6B.!!$R2	898
15	TraesCS6A01G336700	chr2B	160204877	160205673	796	True	472.000000	472	77.630000	2192	3015	1	chr2B.!!$R2	823
16	TraesCS6A01G336700	chr1B	524153726	524154639	913	True	422.000000	422	75.673000	1274	2172	1	chr1B.!!$R1	898
17	TraesCS6A01G336700	chr1B	524160865	524161778	913	True	411.000000	411	75.510000	1274	2172	1	chr1B.!!$R2	898

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
479	482	0.039617	GATCTCTGTCTGCGGATCGG	60.040	60.0	0.00	0.0	0.00	4.18	F
772	1073	0.115745	TTCAGGTACCCCCTTCGTCT	59.884	55.0	8.74	0.0	42.73	4.18	F

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability	Orientation
1835	2181	1.571936	ACAGGTGGTTGGGGTTTAAGT	59.428	47.619	0.0	0.0	0.0	2.24	R
2518	2892	2.012902	GCCAGCCAGATGATGTTGCC	62.013	60.000	0.0	0.0	0.0	4.52	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
44	45	5.617529	CGCTTCAGAGAAAATTGTGTGCATA	60.618	40.000	0.00	0.00	0.00	3.14
85	87	1.182385	GGGTCCTCGCCTCCATCTAG	61.182	65.000	0.00	0.00	0.00	2.43
128	130	7.745717	TCCTCACCTTCATCTAGAAAAAGAAA	58.254	34.615	15.53	3.96	35.40	2.52
235	238	2.304761	AGTCATCACCTCCGCCTAAAAA	59.695	45.455	0.00	0.00	0.00	1.94
236	239	3.054361	AGTCATCACCTCCGCCTAAAAAT	60.054	43.478	0.00	0.00	0.00	1.82
350	353	4.966787	TGGTTGGCCGCCCTTCAC	62.967	66.667	7.03	0.00	37.67	3.18
351	354	4.966787	GGTTGGCCGCCCTTCACA	62.967	66.667	7.03	0.00	0.00	3.58
359	362	1.526575	CCGCCCTTCACACAATGCTT	61.527	55.000	0.00	0.00	0.00	3.91
364	367	3.193267	GCCCTTCACACAATGCTTAATGA	59.807	43.478	0.00	0.00	0.00	2.57
477	480	2.545532	CCAAGATCTCTGTCTGCGGATC	60.546	54.545	0.00	0.00	35.98	3.36
479	482	0.039617	GATCTCTGTCTGCGGATCGG	60.040	60.000	0.00	0.00	0.00	4.18
590	600	1.333435	CGTGTAAACTGTTGTTCGGCC	60.333	52.381	0.00	0.00	34.96	6.13
592	602	0.236449	GTAAACTGTTGTTCGGCCCG	59.764	55.000	0.00	0.00	34.96	6.13
659	948	1.066358	GTCGGCAAAACCTAGCTACCT	60.066	52.381	0.00	0.00	35.61	3.08
761	1062	5.957842	TGTTGATCACCAAATTCAGGTAC	57.042	39.130	0.00	0.00	37.23	3.34
762	1063	4.764823	TGTTGATCACCAAATTCAGGTACC	59.235	41.667	2.73	2.73	37.23	3.34
763	1064	3.963129	TGATCACCAAATTCAGGTACCC	58.037	45.455	8.74	0.00	37.23	3.69
764	1065	2.891191	TCACCAAATTCAGGTACCCC	57.109	50.000	8.74	0.00	37.23	4.95
765	1066	1.356398	TCACCAAATTCAGGTACCCCC	59.644	52.381	8.74	0.00	37.23	5.40
769	1070	2.365582	CAAATTCAGGTACCCCCTTCG	58.634	52.381	8.74	0.00	42.73	3.79
770	1071	1.665137	AATTCAGGTACCCCCTTCGT	58.335	50.000	8.74	0.00	42.73	3.85
771	1072	1.201424	ATTCAGGTACCCCCTTCGTC	58.799	55.000	8.74	0.00	42.73	4.20
772	1073	0.115745	TTCAGGTACCCCCTTCGTCT	59.884	55.000	8.74	0.00	42.73	4.18
773	1074	0.324091	TCAGGTACCCCCTTCGTCTC	60.324	60.000	8.74	0.00	42.73	3.36
774	1075	0.613853	CAGGTACCCCCTTCGTCTCA	60.614	60.000	8.74	0.00	42.73	3.27
775	1076	0.115745	AGGTACCCCCTTCGTCTCAA	59.884	55.000	8.74	0.00	42.73	3.02
776	1077	0.978907	GGTACCCCCTTCGTCTCAAA	59.021	55.000	0.00	0.00	0.00	2.69
777	1078	1.348696	GGTACCCCCTTCGTCTCAAAA	59.651	52.381	0.00	0.00	0.00	2.44
778	1079	2.026542	GGTACCCCCTTCGTCTCAAAAT	60.027	50.000	0.00	0.00	0.00	1.82
779	1080	2.971901	ACCCCCTTCGTCTCAAAATT	57.028	45.000	0.00	0.00	0.00	1.82
780	1081	2.791655	ACCCCCTTCGTCTCAAAATTC	58.208	47.619	0.00	0.00	0.00	2.17
781	1082	2.375509	ACCCCCTTCGTCTCAAAATTCT	59.624	45.455	0.00	0.00	0.00	2.40
782	1083	3.181433	ACCCCCTTCGTCTCAAAATTCTT	60.181	43.478	0.00	0.00	0.00	2.52
783	1084	3.191371	CCCCCTTCGTCTCAAAATTCTTG	59.809	47.826	0.00	0.00	0.00	3.02
784	1085	3.821033	CCCCTTCGTCTCAAAATTCTTGT	59.179	43.478	0.00	0.00	0.00	3.16
785	1086	4.083271	CCCCTTCGTCTCAAAATTCTTGTC	60.083	45.833	0.00	0.00	0.00	3.18
786	1087	4.757149	CCCTTCGTCTCAAAATTCTTGTCT	59.243	41.667	0.00	0.00	0.00	3.41
787	1088	5.239525	CCCTTCGTCTCAAAATTCTTGTCTT	59.760	40.000	0.00	0.00	0.00	3.01
788	1089	6.426937	CCCTTCGTCTCAAAATTCTTGTCTTA	59.573	38.462	0.00	0.00	0.00	2.10
789	1090	7.041372	CCCTTCGTCTCAAAATTCTTGTCTTAA	60.041	37.037	0.00	0.00	0.00	1.85
790	1091	8.342634	CCTTCGTCTCAAAATTCTTGTCTTAAA	58.657	33.333	0.00	0.00	0.00	1.52
791	1092	9.884465	CTTCGTCTCAAAATTCTTGTCTTAAAT	57.116	29.630	0.00	0.00	0.00	1.40
818	1119	9.863845	TTGTCTAAATACGAATGTATCAAGTCA	57.136	29.630	0.00	0.00	40.42	3.41
819	1120	9.297586	TGTCTAAATACGAATGTATCAAGTCAC	57.702	33.333	0.00	0.00	40.42	3.67
820	1121	9.297586	GTCTAAATACGAATGTATCAAGTCACA	57.702	33.333	0.00	0.00	40.42	3.58
858	1159	6.222038	ACATCCGTGTATCTAGACAAATGT	57.778	37.500	0.00	0.00	36.63	2.71
859	1160	7.342769	ACATCCGTGTATCTAGACAAATGTA	57.657	36.000	0.00	0.00	36.63	2.29
860	1161	7.778083	ACATCCGTGTATCTAGACAAATGTAA	58.222	34.615	0.00	0.00	36.63	2.41
861	1162	7.921214	ACATCCGTGTATCTAGACAAATGTAAG	59.079	37.037	0.00	0.00	36.63	2.34
862	1163	7.634671	TCCGTGTATCTAGACAAATGTAAGA	57.365	36.000	0.00	1.82	0.00	2.10
863	1164	7.478322	TCCGTGTATCTAGACAAATGTAAGAC	58.522	38.462	0.00	0.00	0.00	3.01
864	1165	7.121611	TCCGTGTATCTAGACAAATGTAAGACA	59.878	37.037	0.00	0.00	0.00	3.41
865	1166	7.758076	CCGTGTATCTAGACAAATGTAAGACAA	59.242	37.037	0.00	0.00	0.00	3.18
866	1167	9.135843	CGTGTATCTAGACAAATGTAAGACAAA	57.864	33.333	0.00	0.00	0.00	2.83
875	1176	9.108284	AGACAAATGTAAGACAAAAATTTTGGG	57.892	29.630	20.79	5.88	31.16	4.12
876	1177	9.103861	GACAAATGTAAGACAAAAATTTTGGGA	57.896	29.630	20.79	2.33	31.16	4.37
877	1178	8.888716	ACAAATGTAAGACAAAAATTTTGGGAC	58.111	29.630	20.79	13.05	31.16	4.46
878	1179	7.707774	AATGTAAGACAAAAATTTTGGGACG	57.292	32.000	20.79	0.00	0.00	4.79
879	1180	5.593010	TGTAAGACAAAAATTTTGGGACGG	58.407	37.500	20.79	0.00	0.00	4.79
880	1181	5.360144	TGTAAGACAAAAATTTTGGGACGGA	59.640	36.000	20.79	0.42	0.00	4.69
881	1182	4.584327	AGACAAAAATTTTGGGACGGAG	57.416	40.909	20.79	0.00	0.00	4.63
882	1183	3.320826	AGACAAAAATTTTGGGACGGAGG	59.679	43.478	20.79	0.00	0.00	4.30
883	1184	2.367241	ACAAAAATTTTGGGACGGAGGG	59.633	45.455	20.79	0.00	0.00	4.30
884	1185	2.630580	CAAAAATTTTGGGACGGAGGGA	59.369	45.455	10.41	0.00	0.00	4.20
885	1186	2.215942	AAATTTTGGGACGGAGGGAG	57.784	50.000	0.00	0.00	0.00	4.30
886	1187	1.073098	AATTTTGGGACGGAGGGAGT	58.927	50.000	0.00	0.00	0.00	3.85
887	1188	1.961133	ATTTTGGGACGGAGGGAGTA	58.039	50.000	0.00	0.00	0.00	2.59
888	1189	1.961133	TTTTGGGACGGAGGGAGTAT	58.039	50.000	0.00	0.00	0.00	2.12
889	1190	1.961133	TTTGGGACGGAGGGAGTATT	58.039	50.000	0.00	0.00	0.00	1.89
890	1191	2.852714	TTGGGACGGAGGGAGTATTA	57.147	50.000	0.00	0.00	0.00	0.98
891	1192	3.339713	TTGGGACGGAGGGAGTATTAT	57.660	47.619	0.00	0.00	0.00	1.28
892	1193	4.474303	TTGGGACGGAGGGAGTATTATA	57.526	45.455	0.00	0.00	0.00	0.98
893	1194	4.687262	TGGGACGGAGGGAGTATTATAT	57.313	45.455	0.00	0.00	0.00	0.86
894	1195	5.019657	TGGGACGGAGGGAGTATTATATT	57.980	43.478	0.00	0.00	0.00	1.28
895	1196	4.775780	TGGGACGGAGGGAGTATTATATTG	59.224	45.833	0.00	0.00	0.00	1.90
998	1299	0.176910	TGTGGTGTTGCAGAGACGAA	59.823	50.000	0.00	0.00	0.00	3.85
1050	1351	0.955919	GGAACTGGACGGAAGGCTTG	60.956	60.000	3.46	0.00	40.87	4.01
1239	1540	2.742372	CCGACCCCAAGCGTCAAG	60.742	66.667	0.00	0.00	0.00	3.02
1584	1897	1.230324	GGCATTGGCGACTTCTATCC	58.770	55.000	0.00	0.00	42.47	2.59
1835	2181	1.768275	TCTGTGGTTTGGCTTCTCAGA	59.232	47.619	0.00	0.00	0.00	3.27
2308	2672	3.491104	CGTCTAGGTTGGACTCTATTGCC	60.491	52.174	0.00	0.00	0.00	4.52
2315	2679	1.630369	TGGACTCTATTGCCAACTGCT	59.370	47.619	0.00	0.00	42.00	4.24
2388	2754	8.631480	TTAGTATCTCATTAGGCTTGATCGTA	57.369	34.615	0.00	0.00	0.00	3.43
2468	2842	0.973632	TCGCTTCTTACCTTGCTGGA	59.026	50.000	3.40	0.00	39.71	3.86
2864	3736	0.596600	GAAGTGAACCTGTCGCACGA	60.597	55.000	0.00	0.00	39.39	4.35
3024	3896	3.851845	CTGGGACGCGGTCGACAAA	62.852	63.158	18.91	0.00	39.41	2.83

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
15	16	2.191128	ATTTTCTCTGAAGCGGCACT	57.809	45.000	1.45	0.00	0.00	4.40
71	73	3.861840	TGTTTTTCTAGATGGAGGCGAG	58.138	45.455	0.00	0.00	0.00	5.03
160	162	2.261671	CGCTCGCTGGTAGGTTGT	59.738	61.111	0.00	0.00	0.00	3.32
214	217	1.568504	TTTAGGCGGAGGTGATGACT	58.431	50.000	0.00	0.00	0.00	3.41
309	312	4.742201	ACACGTGGCGCTAGCTGG	62.742	66.667	21.57	0.00	44.37	4.85
395	398	3.761657	TGCTAAGCATGAAAAGCGATTG	58.238	40.909	0.00	0.00	37.01	2.67
428	431	2.769663	TCCGTATACATTCAGCACCCTT	59.230	45.455	3.32	0.00	0.00	3.95
544	554	1.134098	CCCATCCATTTAGGTGTCGCT	60.134	52.381	0.00	0.00	39.02	4.93
590	600	2.669569	CACAGACTTGGGCCACGG	60.670	66.667	15.13	9.43	0.00	4.94
761	1062	3.073274	AGAATTTTGAGACGAAGGGGG	57.927	47.619	0.00	0.00	0.00	5.40
762	1063	3.821033	ACAAGAATTTTGAGACGAAGGGG	59.179	43.478	0.00	0.00	0.00	4.79
763	1064	4.757149	AGACAAGAATTTTGAGACGAAGGG	59.243	41.667	0.00	0.00	0.00	3.95
764	1065	5.931441	AGACAAGAATTTTGAGACGAAGG	57.069	39.130	0.00	0.00	0.00	3.46
765	1066	9.884465	ATTTAAGACAAGAATTTTGAGACGAAG	57.116	29.630	0.00	0.00	0.00	3.79
792	1093	9.863845	TGACTTGATACATTCGTATTTAGACAA	57.136	29.630	0.00	0.00	38.48	3.18
793	1094	9.297586	GTGACTTGATACATTCGTATTTAGACA	57.702	33.333	0.00	0.00	38.48	3.41
794	1095	9.297586	TGTGACTTGATACATTCGTATTTAGAC	57.702	33.333	0.00	0.00	38.48	2.59
834	1135	7.342769	ACATTTGTCTAGATACACGGATGTA	57.657	36.000	0.00	0.00	45.37	2.29
835	1136	6.222038	ACATTTGTCTAGATACACGGATGT	57.778	37.500	0.00	0.00	43.30	3.06
836	1137	8.135529	TCTTACATTTGTCTAGATACACGGATG	58.864	37.037	0.00	0.00	0.00	3.51
837	1138	8.136165	GTCTTACATTTGTCTAGATACACGGAT	58.864	37.037	0.00	0.00	0.00	4.18
838	1139	7.121611	TGTCTTACATTTGTCTAGATACACGGA	59.878	37.037	0.00	0.00	0.00	4.69
839	1140	7.255569	TGTCTTACATTTGTCTAGATACACGG	58.744	38.462	0.00	0.00	0.00	4.94
840	1141	8.683550	TTGTCTTACATTTGTCTAGATACACG	57.316	34.615	0.00	0.00	0.00	4.49
849	1150	9.108284	CCCAAAATTTTTGTCTTACATTTGTCT	57.892	29.630	18.05	0.00	27.14	3.41
850	1151	9.103861	TCCCAAAATTTTTGTCTTACATTTGTC	57.896	29.630	18.05	0.00	27.14	3.18
851	1152	8.888716	GTCCCAAAATTTTTGTCTTACATTTGT	58.111	29.630	18.05	0.00	27.14	2.83
852	1153	8.061268	CGTCCCAAAATTTTTGTCTTACATTTG	58.939	33.333	18.05	2.04	0.00	2.32
853	1154	7.225734	CCGTCCCAAAATTTTTGTCTTACATTT	59.774	33.333	18.05	0.00	0.00	2.32
854	1155	6.704050	CCGTCCCAAAATTTTTGTCTTACATT	59.296	34.615	18.05	0.00	0.00	2.71
855	1156	6.041069	TCCGTCCCAAAATTTTTGTCTTACAT	59.959	34.615	18.05	0.00	0.00	2.29
856	1157	5.360144	TCCGTCCCAAAATTTTTGTCTTACA	59.640	36.000	18.05	0.00	0.00	2.41
857	1158	5.834169	TCCGTCCCAAAATTTTTGTCTTAC	58.166	37.500	18.05	10.42	0.00	2.34
858	1159	5.010213	CCTCCGTCCCAAAATTTTTGTCTTA	59.990	40.000	18.05	1.26	0.00	2.10
859	1160	4.202212	CCTCCGTCCCAAAATTTTTGTCTT	60.202	41.667	18.05	0.00	0.00	3.01
860	1161	3.320826	CCTCCGTCCCAAAATTTTTGTCT	59.679	43.478	18.05	0.00	0.00	3.41
861	1162	3.554129	CCCTCCGTCCCAAAATTTTTGTC	60.554	47.826	18.05	9.04	0.00	3.18
862	1163	2.367241	CCCTCCGTCCCAAAATTTTTGT	59.633	45.455	18.05	0.00	0.00	2.83
863	1164	2.630580	TCCCTCCGTCCCAAAATTTTTG	59.369	45.455	13.76	13.76	0.00	2.44
864	1165	2.897326	CTCCCTCCGTCCCAAAATTTTT	59.103	45.455	0.00	0.00	0.00	1.94
865	1166	2.158370	ACTCCCTCCGTCCCAAAATTTT	60.158	45.455	0.00	0.00	0.00	1.82
866	1167	1.427753	ACTCCCTCCGTCCCAAAATTT	59.572	47.619	0.00	0.00	0.00	1.82
867	1168	1.073098	ACTCCCTCCGTCCCAAAATT	58.927	50.000	0.00	0.00	0.00	1.82
868	1169	1.961133	TACTCCCTCCGTCCCAAAAT	58.039	50.000	0.00	0.00	0.00	1.82
869	1170	1.961133	ATACTCCCTCCGTCCCAAAA	58.039	50.000	0.00	0.00	0.00	2.44
870	1171	1.961133	AATACTCCCTCCGTCCCAAA	58.039	50.000	0.00	0.00	0.00	3.28
871	1172	2.852714	TAATACTCCCTCCGTCCCAA	57.147	50.000	0.00	0.00	0.00	4.12
872	1173	4.687262	ATATAATACTCCCTCCGTCCCA	57.313	45.455	0.00	0.00	0.00	4.37
873	1174	4.161754	CCAATATAATACTCCCTCCGTCCC	59.838	50.000	0.00	0.00	0.00	4.46
874	1175	4.776308	ACCAATATAATACTCCCTCCGTCC	59.224	45.833	0.00	0.00	0.00	4.79
875	1176	5.479375	TGACCAATATAATACTCCCTCCGTC	59.521	44.000	0.00	0.00	0.00	4.79
876	1177	5.399991	TGACCAATATAATACTCCCTCCGT	58.600	41.667	0.00	0.00	0.00	4.69
877	1178	5.995565	TGACCAATATAATACTCCCTCCG	57.004	43.478	0.00	0.00	0.00	4.63
878	1179	8.218488	ACTTTTGACCAATATAATACTCCCTCC	58.782	37.037	0.00	0.00	0.00	4.30
879	1180	9.274206	GACTTTTGACCAATATAATACTCCCTC	57.726	37.037	0.00	0.00	0.00	4.30
880	1181	9.004231	AGACTTTTGACCAATATAATACTCCCT	57.996	33.333	0.00	0.00	0.00	4.20
881	1182	9.274206	GAGACTTTTGACCAATATAATACTCCC	57.726	37.037	0.00	0.00	0.00	4.30
882	1183	9.274206	GGAGACTTTTGACCAATATAATACTCC	57.726	37.037	0.00	0.00	0.00	3.85
883	1184	9.832445	TGGAGACTTTTGACCAATATAATACTC	57.168	33.333	0.00	0.00	0.00	2.59
884	1185	9.614792	GTGGAGACTTTTGACCAATATAATACT	57.385	33.333	0.00	0.00	34.11	2.12
885	1186	8.837389	GGTGGAGACTTTTGACCAATATAATAC	58.163	37.037	0.00	0.00	34.11	1.89
886	1187	8.778059	AGGTGGAGACTTTTGACCAATATAATA	58.222	33.333	0.00	0.00	34.11	0.98
887	1188	7.643123	AGGTGGAGACTTTTGACCAATATAAT	58.357	34.615	0.00	0.00	34.11	1.28
888	1189	7.027874	AGGTGGAGACTTTTGACCAATATAA	57.972	36.000	0.00	0.00	34.11	0.98
889	1190	6.636454	AGGTGGAGACTTTTGACCAATATA	57.364	37.500	0.00	0.00	34.11	0.86
890	1191	5.520748	AGGTGGAGACTTTTGACCAATAT	57.479	39.130	0.00	0.00	34.11	1.28
891	1192	4.993705	AGGTGGAGACTTTTGACCAATA	57.006	40.909	0.00	0.00	34.11	1.90
892	1193	3.884037	AGGTGGAGACTTTTGACCAAT	57.116	42.857	0.00	0.00	34.11	3.16
893	1194	3.662759	AAGGTGGAGACTTTTGACCAA	57.337	42.857	0.00	0.00	34.11	3.67
894	1195	3.662759	AAAGGTGGAGACTTTTGACCA	57.337	42.857	0.00	0.00	34.70	4.02
895	1196	3.497262	CGTAAAGGTGGAGACTTTTGACC	59.503	47.826	0.00	0.00	38.88	4.02
998	1299	6.479884	AGATTTACAAACTGCCTCTTCATCT	58.520	36.000	0.00	0.00	0.00	2.90
1050	1351	1.276844	GATGCGGCGCACAGAATAC	59.723	57.895	38.84	17.44	43.04	1.89
1234	1535	3.806521	ACATCTATTGCAGCGATCTTGAC	59.193	43.478	0.00	0.00	0.00	3.18
1239	1540	3.186001	CAGGAACATCTATTGCAGCGATC	59.814	47.826	0.00	0.00	0.00	3.69
1584	1897	3.646715	TGGACAAAGGGAGGCGGG	61.647	66.667	0.00	0.00	0.00	6.13
1835	2181	1.571936	ACAGGTGGTTGGGGTTTAAGT	59.428	47.619	0.00	0.00	0.00	2.24
2468	2842	3.370953	CCCTGCTAGAGTTTGCTTACCAT	60.371	47.826	0.00	0.00	0.00	3.55
2518	2892	2.012902	GCCAGCCAGATGATGTTGCC	62.013	60.000	0.00	0.00	0.00	4.52
2864	3736	4.528596	CCCTATCGAGGTTGAGGTATGATT	59.471	45.833	0.00	0.00	41.95	2.57

Based at the University of Bristol with support from BBSRC.

AutoCloner maintained by Alex Coulton.