AutoCloner

Multiple sequence alignment - TraesCS6D01G022100

Loading Multiple Alignment...

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	TraesCS6D01G022100	chr6D	100.000	2613	0	0	1	2613	8657267	8654655	0.000000e+00	4826.0
1	TraesCS6D01G022100	chr6D	79.729	1253	232	13	901	2148	8552889	8551654	0.000000e+00	887.0
2	TraesCS6D01G022100	chr6D	78.074	1350	253	34	962	2289	8894017	8895345	0.000000e+00	813.0
3	TraesCS6D01G022100	chr6D	80.165	1094	188	22	1063	2148	7718933	7720005	0.000000e+00	791.0
4	TraesCS6D01G022100	chr6D	100.000	168	0	0	2994	3161	8654274	8654107	8.510000e-81	311.0
5	TraesCS6D01G022100	chr6D	93.548	93	6	0	3009	3101	34080051	34080143	4.250000e-29	139.0
6	TraesCS6D01G022100	chr6D	87.324	71	9	0	2221	2291	7887632	7887702	7.270000e-12	82.4
7	TraesCS6D01G022100	chr6B	92.698	2424	126	17	216	2606	15744862	15742457	0.000000e+00	3448.0
8	TraesCS6D01G022100	chr6B	79.058	1189	232	16	980	2162	52568264	52567087	0.000000e+00	800.0
9	TraesCS6D01G022100	chr6B	78.886	1203	231	21	971	2163	15751033	15749844	0.000000e+00	793.0
10	TraesCS6D01G022100	chr6B	78.086	1191	248	12	962	2148	52981086	52979905	0.000000e+00	741.0
11	TraesCS6D01G022100	chr6B	78.195	1119	216	21	1063	2169	14545319	14544217	0.000000e+00	689.0
12	TraesCS6D01G022100	chr6B	77.349	1192	247	17	966	2148	16433112	16434289	0.000000e+00	684.0
13	TraesCS6D01G022100	chr6B	76.704	1159	228	31	988	2139	15264291	15263168	9.700000e-170	606.0
14	TraesCS6D01G022100	chr6B	75.325	1155	265	16	990	2139	15397956	15396817	1.290000e-148	536.0
15	TraesCS6D01G022100	chr6B	97.633	169	3	1	2994	3161	15742113	15741945	3.990000e-74	289.0
16	TraesCS6D01G022100	chr6B	90.698	215	17	3	1	213	15748080	15747867	1.860000e-72	283.0
17	TraesCS6D01G022100	chr6B	100.000	36	0	0	3126	3161	1947634	1947669	2.030000e-07	67.6
18	TraesCS6D01G022100	chr6A	96.664	1349	35	4	988	2335	9338941	9340280	0.000000e+00	2233.0
19	TraesCS6D01G022100	chr6A	77.816	1154	234	17	994	2139	35581602	35580463	0.000000e+00	693.0
20	TraesCS6D01G022100	chr6A	94.286	70	4	0	3032	3101	9480077	9480146	1.200000e-19	108.0
21	TraesCS6D01G022100	chr2B	78.518	1336	251	25	841	2162	709426326	709425013	0.000000e+00	845.0
22	TraesCS6D01G022100	chr2B	77.471	1194	249	19	982	2163	89494601	89495786	0.000000e+00	697.0
23	TraesCS6D01G022100	chr2B	91.139	79	7	0	3081	3159	529499653	529499731	1.200000e-19	108.0
24	TraesCS6D01G022100	chr1B	76.219	1169	259	17	988	2148	662153020	662154177	4.510000e-168	601.0
25	TraesCS6D01G022100	chr5B	93.413	167	11	0	2995	3161	37063577	37063743	6.770000e-62	248.0
26	TraesCS6D01G022100	chr5B	93.617	94	6	0	3008	3101	556788335	556788242	1.180000e-29	141.0
27	TraesCS6D01G022100	chr5B	93.827	81	5	0	3081	3161	15814355	15814275	4.280000e-24	122.0
28	TraesCS6D01G022100	chr4A	86.957	92	11	1	3008	3099	16976080	16976170	5.580000e-18	102.0
29	TraesCS6D01G022100	chr3A	100.000	36	0	0	3126	3161	303564028	303563993	2.030000e-07	67.6
30	TraesCS6D01G022100	chr2D	100.000	36	0	0	3126	3161	110057941	110057906	2.030000e-07	67.6
31	TraesCS6D01G022100	chr3B	100.000	35	0	0	3127	3161	26534325	26534359	7.320000e-07	65.8

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	TraesCS6D01G022100	chr6D	8654107	8657267	3160	True	2568.50	4826	100.00000	1	3161	2	chr6D.!!$R2	3160
1	TraesCS6D01G022100	chr6D	8551654	8552889	1235	True	887.00	887	79.72900	901	2148	1	chr6D.!!$R1	1247
2	TraesCS6D01G022100	chr6D	8894017	8895345	1328	False	813.00	813	78.07400	962	2289	1	chr6D.!!$F3	1327
3	TraesCS6D01G022100	chr6D	7718933	7720005	1072	False	791.00	791	80.16500	1063	2148	1	chr6D.!!$F1	1085
4	TraesCS6D01G022100	chr6B	15741945	15751033	9088	True	1203.25	3448	89.97875	1	3161	4	chr6B.!!$R6	3160
5	TraesCS6D01G022100	chr6B	52567087	52568264	1177	True	800.00	800	79.05800	980	2162	1	chr6B.!!$R4	1182
6	TraesCS6D01G022100	chr6B	52979905	52981086	1181	True	741.00	741	78.08600	962	2148	1	chr6B.!!$R5	1186
7	TraesCS6D01G022100	chr6B	14544217	14545319	1102	True	689.00	689	78.19500	1063	2169	1	chr6B.!!$R1	1106
8	TraesCS6D01G022100	chr6B	16433112	16434289	1177	False	684.00	684	77.34900	966	2148	1	chr6B.!!$F2	1182
9	TraesCS6D01G022100	chr6B	15263168	15264291	1123	True	606.00	606	76.70400	988	2139	1	chr6B.!!$R2	1151
10	TraesCS6D01G022100	chr6B	15396817	15397956	1139	True	536.00	536	75.32500	990	2139	1	chr6B.!!$R3	1149
11	TraesCS6D01G022100	chr6A	9338941	9340280	1339	False	2233.00	2233	96.66400	988	2335	1	chr6A.!!$F1	1347
12	TraesCS6D01G022100	chr6A	35580463	35581602	1139	True	693.00	693	77.81600	994	2139	1	chr6A.!!$R1	1145
13	TraesCS6D01G022100	chr2B	709425013	709426326	1313	True	845.00	845	78.51800	841	2162	1	chr2B.!!$R1	1321
14	TraesCS6D01G022100	chr2B	89494601	89495786	1185	False	697.00	697	77.47100	982	2163	1	chr2B.!!$F1	1181
15	TraesCS6D01G022100	chr1B	662153020	662154177	1157	False	601.00	601	76.21900	988	2148	1	chr1B.!!$F1	1160

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
73	3027	0.029167	CGCTGAATGTTGTGTGTGCA	59.971	50.0	0.0	0.0	0.00	4.57	F
226	6183	0.036388	CCCTACAAGTGGCGACATGT	60.036	55.0	14.1	14.1	46.14	3.21	F
252	6209	0.110486	AAAAGCGGAAGGAGAAGGCA	59.890	50.0	0.0	0.0	0.00	4.75	F

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Hairpin	End Stability	Orientation
1207	7223	0.251209	GGGTTGGAGGGGAACTTGAC	60.251	60.000	0.00	0.00	3.18	R
1923	7949	6.463049	GCTCCAGGCTAAGACAGATAATTACA	60.463	42.308	0.53	38.06	2.41	R
2339	8379	3.404869	TGGAGATACCAGGAGTCATGT	57.595	47.619	3.80	44.64	3.21	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
61	3015	4.582701	TTTGTCCAACATTTCGCTGAAT	57.417	36.364	0.00	0.00	0.00	2.57
73	3027	0.029167	CGCTGAATGTTGTGTGTGCA	59.971	50.000	0.00	0.00	0.00	4.57
129	3084	4.550422	GGCAAGATTTTGGTGAAGAAGAC	58.450	43.478	0.00	0.00	34.79	3.01
131	3086	4.787598	CAAGATTTTGGTGAAGAAGACCG	58.212	43.478	0.00	0.00	36.12	4.79
156	3111	2.158813	TGGTCCTCCGATATTGCTTTCC	60.159	50.000	0.00	0.00	36.30	3.13
164	3119	5.192927	TCCGATATTGCTTTCCTCATTTGT	58.807	37.500	0.00	0.00	0.00	2.83
166	3121	4.736793	CGATATTGCTTTCCTCATTTGTGC	59.263	41.667	0.00	0.00	0.00	4.57
213	3168	2.187958	ACTAGTTGCTCATGCCCTACA	58.812	47.619	0.00	0.00	38.71	2.74
214	3169	2.571653	ACTAGTTGCTCATGCCCTACAA	59.428	45.455	0.00	0.00	38.71	2.41
226	6183	0.036388	CCCTACAAGTGGCGACATGT	60.036	55.000	14.10	14.10	46.14	3.21
252	6209	0.110486	AAAAGCGGAAGGAGAAGGCA	59.890	50.000	0.00	0.00	0.00	4.75
269	6226	2.023695	AGGCATTGTGAATGGGGAAGAT	60.024	45.455	0.00	0.00	39.31	2.40
271	6228	3.960102	GGCATTGTGAATGGGGAAGATTA	59.040	43.478	0.00	0.00	39.31	1.75
273	6230	5.070847	GGCATTGTGAATGGGGAAGATTATT	59.929	40.000	0.00	0.00	39.31	1.40
274	6231	5.987347	GCATTGTGAATGGGGAAGATTATTG	59.013	40.000	0.00	0.00	39.31	1.90
289	6246	5.482908	AGATTATTGCTGAGAACTTGTCGT	58.517	37.500	0.00	0.00	0.00	4.34
292	6249	0.880278	TGCTGAGAACTTGTCGTGGC	60.880	55.000	0.00	0.00	0.00	5.01
328	6285	9.278734	GTGAGAGAGTTGTTAAGTTTTTGAAAG	57.721	33.333	0.00	0.00	0.00	2.62
438	6395	3.311048	GCTAGAGATGCCTTAACTTGTGC	59.689	47.826	0.00	0.00	0.00	4.57
442	6399	2.744202	AGATGCCTTAACTTGTGCGAAG	59.256	45.455	0.00	0.00	0.00	3.79
447	6404	3.975035	GCCTTAACTTGTGCGAAGAAAAG	59.025	43.478	2.46	5.32	0.00	2.27
448	6405	4.261031	GCCTTAACTTGTGCGAAGAAAAGA	60.261	41.667	2.46	0.00	0.00	2.52
450	6407	6.438763	CCTTAACTTGTGCGAAGAAAAGAAT	58.561	36.000	2.46	0.00	0.00	2.40
461	6419	6.092122	TGCGAAGAAAAGAATCGATACACAAT	59.908	34.615	0.00	0.00	38.82	2.71
470	6428	3.326836	TCGATACACAATGTTGCTCCA	57.673	42.857	0.00	0.00	0.00	3.86
493	6451	6.264832	CAACATTGCTTCACTCAACAAACTA	58.735	36.000	0.00	0.00	0.00	2.24
505	6463	7.762615	TCACTCAACAAACTAGTTTATATCCCG	59.237	37.037	20.15	8.99	0.00	5.14
576	6544	1.274703	TGGCCACTCAATCTCCCTCC	61.275	60.000	0.00	0.00	0.00	4.30
577	6545	1.529309	GCCACTCAATCTCCCTCCC	59.471	63.158	0.00	0.00	0.00	4.30
578	6546	0.985490	GCCACTCAATCTCCCTCCCT	60.985	60.000	0.00	0.00	0.00	4.20
583	6551	2.840102	AATCTCCCTCCCTCGCGG	60.840	66.667	6.13	0.00	0.00	6.46
630	6598	4.811555	TGTTCTTGAAATCACAACGAGG	57.188	40.909	0.00	0.00	0.00	4.63
641	6609	8.792633	TGAAATCACAACGAGGAAGAAAAATAT	58.207	29.630	0.00	0.00	0.00	1.28
728	6696	9.159364	TCATCTAAATCAGTCACTTTTGATCTG	57.841	33.333	0.00	0.00	33.09	2.90
761	6729	6.590234	ACTAGCCACTTTATTTTTCTTGGG	57.410	37.500	0.00	0.00	0.00	4.12
796	6764	6.612049	AGAACCTTATTTTTGTTGGGTGGTTA	59.388	34.615	0.00	0.00	35.70	2.85
812	6782	5.182487	GGTGGTTATTTTTAGGGCATTTGG	58.818	41.667	0.00	0.00	0.00	3.28
831	6801	7.094677	GCATTTGGGCTGATCTAAATTGTTTTT	60.095	33.333	0.00	0.00	0.00	1.94
864	6840	5.458595	TGAGCTGATCTAAATGGGTCTCTA	58.541	41.667	0.00	0.00	0.00	2.43
865	6841	5.899547	TGAGCTGATCTAAATGGGTCTCTAA	59.100	40.000	0.00	0.00	0.00	2.10
866	6842	6.556495	TGAGCTGATCTAAATGGGTCTCTAAT	59.444	38.462	0.00	0.00	0.00	1.73
867	6843	7.071698	TGAGCTGATCTAAATGGGTCTCTAATT	59.928	37.037	0.00	0.00	0.00	1.40
868	6844	7.449247	AGCTGATCTAAATGGGTCTCTAATTC	58.551	38.462	0.00	0.00	0.00	2.17
869	6845	7.292120	AGCTGATCTAAATGGGTCTCTAATTCT	59.708	37.037	0.00	0.00	0.00	2.40
870	6846	7.602265	GCTGATCTAAATGGGTCTCTAATTCTC	59.398	40.741	0.00	0.00	0.00	2.87
871	6847	8.789767	TGATCTAAATGGGTCTCTAATTCTCT	57.210	34.615	0.00	0.00	0.00	3.10
886	6862	9.349713	CTCTAATTCTCTATAGTCCAACTCAGT	57.650	37.037	0.00	0.00	0.00	3.41
947	6937	0.606673	GCAAACCCTCACCACTCTCC	60.607	60.000	0.00	0.00	0.00	3.71
973	6963	4.467084	TCGCACCATTCCCTCGCC	62.467	66.667	0.00	0.00	0.00	5.54
1047	7048	0.760945	CCAAGCTCCTCCCGTATCCT	60.761	60.000	0.00	0.00	0.00	3.24
1923	7949	1.315690	CATTCATTGCTCATCGGCCT	58.684	50.000	0.00	0.00	0.00	5.19
2248	8279	6.796629	CTTGTAAGCTTTGTTTCAGTGTTC	57.203	37.500	3.20	0.00	0.00	3.18
2310	8350	3.791353	GTCACTGCTTGTTTGTTAGTTGC	59.209	43.478	0.00	0.00	0.00	4.17
2319	8359	6.129088	GCTTGTTTGTTAGTTGCTAATGCTTC	60.129	38.462	0.00	0.00	40.48	3.86
2409	8450	4.406456	TGGCATGGTTATGAACTTGTTCT	58.594	39.130	13.65	3.69	36.36	3.01
2416	8457	5.009610	TGGTTATGAACTTGTTCTTCCTTGC	59.990	40.000	13.65	0.00	0.00	4.01
2418	8459	1.333619	TGAACTTGTTCTTCCTTGCGC	59.666	47.619	13.65	0.00	0.00	6.09
2443	8484	7.467267	GCCATATCGACACACATATTGAAAGTT	60.467	37.037	0.00	0.00	0.00	2.66
2444	8485	8.397906	CCATATCGACACACATATTGAAAGTTT	58.602	33.333	0.00	0.00	0.00	2.66
2445	8486	9.425893	CATATCGACACACATATTGAAAGTTTC	57.574	33.333	8.75	8.75	0.00	2.78
2446	8487	7.672983	ATCGACACACATATTGAAAGTTTCT	57.327	32.000	16.33	0.09	0.00	2.52
2448	8489	5.565259	CGACACACATATTGAAAGTTTCTGC	59.435	40.000	16.33	0.00	0.00	4.26
2449	8490	6.389830	ACACACATATTGAAAGTTTCTGCA	57.610	33.333	16.33	1.68	0.00	4.41
2450	8491	6.804677	ACACACATATTGAAAGTTTCTGCAA	58.195	32.000	16.33	4.12	0.00	4.08
2451	8492	7.436118	ACACACATATTGAAAGTTTCTGCAAT	58.564	30.769	16.33	10.77	35.38	3.56
2483	8529	6.426025	TCATTCTGCAATATCAGTGAGTATGC	59.574	38.462	15.93	15.93	35.63	3.14
2549	8595	3.056536	GCCACGGAGATGATATGAGCTAA	60.057	47.826	0.00	0.00	0.00	3.09
2583	8629	8.522830	TCAAATGAACTCACATAAATTCCCTTC	58.477	33.333	0.00	0.00	0.00	3.46
2586	8632	6.414732	TGAACTCACATAAATTCCCTTCGAT	58.585	36.000	0.00	0.00	0.00	3.59
2588	8634	5.989477	ACTCACATAAATTCCCTTCGATGA	58.011	37.500	0.00	0.00	0.00	2.92
2592	8638	8.292444	TCACATAAATTCCCTTCGATGAAAAT	57.708	30.769	0.00	0.00	0.00	1.82
2606	8652	4.142469	CGATGAAAATTTCTGTACCCCACC	60.142	45.833	7.29	0.00	0.00	4.61
2607	8653	4.463050	TGAAAATTTCTGTACCCCACCT	57.537	40.909	7.29	0.00	0.00	4.00
2608	8654	4.810345	TGAAAATTTCTGTACCCCACCTT	58.190	39.130	7.29	0.00	0.00	3.50
2609	8655	5.212745	TGAAAATTTCTGTACCCCACCTTT	58.787	37.500	7.29	0.00	0.00	3.11
2610	8656	5.663556	TGAAAATTTCTGTACCCCACCTTTT	59.336	36.000	7.29	0.00	0.00	2.27
2611	8657	6.157123	TGAAAATTTCTGTACCCCACCTTTTT	59.843	34.615	7.29	0.00	0.00	1.94
3049	9095	4.137543	AGTTTGTTGGTTCCTTGCTCTAG	58.862	43.478	0.00	0.00	0.00	2.43

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
0	1	7.688918	AGAATGGGAGAATCATCTACTCTTT	57.311	36.000	0.00	0.00	36.67	2.52
1	2	7.688918	AAGAATGGGAGAATCATCTACTCTT	57.311	36.000	0.00	0.00	36.67	2.85
2	3	8.971032	ATAAGAATGGGAGAATCATCTACTCT	57.029	34.615	0.00	0.00	36.67	3.24
32	2986	5.634859	GCGAAATGTTGGACAAATGAATTCT	59.365	36.000	7.05	0.00	0.00	2.40
61	3015	0.813210	TCGCATCTGCACACACAACA	60.813	50.000	2.72	0.00	42.21	3.33
93	3047	4.796038	ATCTTGCCCAACATTCTTTCAG	57.204	40.909	0.00	0.00	0.00	3.02
96	3051	5.065235	CCAAAATCTTGCCCAACATTCTTT	58.935	37.500	0.00	0.00	0.00	2.52
105	3060	2.956132	TCTTCACCAAAATCTTGCCCA	58.044	42.857	0.00	0.00	0.00	5.36
109	3064	4.787598	CGGTCTTCTTCACCAAAATCTTG	58.212	43.478	0.00	0.00	32.89	3.02
129	3084	1.475403	ATATCGGAGGACCATAGCGG	58.525	55.000	0.00	0.00	42.50	5.52
131	3086	2.234908	AGCAATATCGGAGGACCATAGC	59.765	50.000	0.00	0.00	35.59	2.97
143	3098	4.736793	GCACAAATGAGGAAAGCAATATCG	59.263	41.667	0.00	0.00	0.00	2.92
164	3119	3.760738	TCCAATATCCAAAGTGTGTGCA	58.239	40.909	0.00	0.00	0.00	4.57
166	3121	8.455903	AATAGATCCAATATCCAAAGTGTGTG	57.544	34.615	0.00	0.00	0.00	3.82
194	3149	2.988010	TGTAGGGCATGAGCAACTAG	57.012	50.000	0.00	0.00	44.61	2.57
200	3155	2.785868	CCACTTGTAGGGCATGAGC	58.214	57.895	0.00	0.00	41.10	4.26
213	3168	3.049674	CGCCACATGTCGCCACTT	61.050	61.111	9.99	0.00	0.00	3.16
226	6183	3.669344	CTTCCGCTTTTGCCGCCA	61.669	61.111	0.00	0.00	43.93	5.69
230	6187	0.523519	CTTCTCCTTCCGCTTTTGCC	59.476	55.000	0.00	0.00	43.93	4.52
233	6190	0.110486	TGCCTTCTCCTTCCGCTTTT	59.890	50.000	0.00	0.00	0.00	2.27
252	6209	5.901276	AGCAATAATCTTCCCCATTCACAAT	59.099	36.000	0.00	0.00	0.00	2.71
269	6226	3.745975	CCACGACAAGTTCTCAGCAATAA	59.254	43.478	0.00	0.00	0.00	1.40
271	6228	2.146342	CCACGACAAGTTCTCAGCAAT	58.854	47.619	0.00	0.00	0.00	3.56
273	6230	0.880278	GCCACGACAAGTTCTCAGCA	60.880	55.000	0.00	0.00	0.00	4.41
274	6231	1.569479	GGCCACGACAAGTTCTCAGC	61.569	60.000	0.00	0.00	0.00	4.26
289	6246	2.305927	CTCTCTCACTTTTAAGGGGCCA	59.694	50.000	4.39	0.00	0.00	5.36
292	6249	4.974399	ACAACTCTCTCACTTTTAAGGGG	58.026	43.478	0.00	0.00	0.00	4.79
346	6303	8.705594	CCTAACTCCTATCAAGTTAATTCCTCA	58.294	37.037	0.00	0.00	38.41	3.86
390	6347	5.638133	ACCCCTTAAAAGGTTTAACTCCTC	58.362	41.667	7.94	0.00	44.98	3.71
400	6357	2.990998	TCTAGCCAACCCCTTAAAAGGT	59.009	45.455	7.94	0.00	44.98	3.50
409	6366	4.887615	GCATCTCTAGCCAACCCC	57.112	61.111	0.00	0.00	0.00	4.95
438	6395	7.456253	ACATTGTGTATCGATTCTTTTCTTCG	58.544	34.615	1.71	0.00	0.00	3.79
442	6399	7.023575	AGCAACATTGTGTATCGATTCTTTTC	58.976	34.615	1.71	0.00	0.00	2.29
447	6404	4.332543	TGGAGCAACATTGTGTATCGATTC	59.667	41.667	1.71	0.00	0.00	2.52
448	6405	4.260985	TGGAGCAACATTGTGTATCGATT	58.739	39.130	1.71	0.00	0.00	3.34
450	6407	3.326836	TGGAGCAACATTGTGTATCGA	57.673	42.857	0.00	0.00	0.00	3.59
470	6428	5.329035	AGTTTGTTGAGTGAAGCAATGTT	57.671	34.783	0.00	0.00	0.00	2.71
493	6451	1.045407	TGAGCGCCGGGATATAAACT	58.955	50.000	2.29	0.00	0.00	2.66
505	6463	1.919918	GCAAATACAAATGTGAGCGCC	59.080	47.619	2.29	0.00	0.00	6.53
555	6523	1.213926	GAGGGAGATTGAGTGGCCAAT	59.786	52.381	7.24	5.98	39.27	3.16
577	6545	1.224069	CCCTAATCACATGCCGCGAG	61.224	60.000	8.23	0.00	0.00	5.03
578	6546	1.227527	CCCTAATCACATGCCGCGA	60.228	57.895	8.23	0.00	0.00	5.87
583	6551	1.462616	TGTGTGCCCTAATCACATGC	58.537	50.000	0.00	0.00	44.96	4.06
671	6639	8.734386	GTGTCTCAAAAGAACTTTGGATGATAT	58.266	33.333	5.06	0.00	44.00	1.63
672	6640	7.719193	TGTGTCTCAAAAGAACTTTGGATGATA	59.281	33.333	5.06	2.37	44.00	2.15
773	6741	5.702065	AACCACCCAACAAAAATAAGGTT	57.298	34.783	0.00	0.00	32.40	3.50
785	6753	3.579151	TGCCCTAAAAATAACCACCCAAC	59.421	43.478	0.00	0.00	0.00	3.77
796	6764	3.180507	TCAGCCCAAATGCCCTAAAAAT	58.819	40.909	0.00	0.00	0.00	1.82
831	6801	8.896744	CCATTTAGATCAGCTCAAGTTGATAAA	58.103	33.333	5.91	6.98	44.27	1.40
864	6840	6.897966	TGGACTGAGTTGGACTATAGAGAATT	59.102	38.462	6.78	0.00	0.00	2.17
865	6841	6.436027	TGGACTGAGTTGGACTATAGAGAAT	58.564	40.000	6.78	0.00	0.00	2.40
866	6842	5.827756	TGGACTGAGTTGGACTATAGAGAA	58.172	41.667	6.78	0.00	0.00	2.87
867	6843	5.441500	CTGGACTGAGTTGGACTATAGAGA	58.558	45.833	6.78	0.00	0.00	3.10
868	6844	4.037446	GCTGGACTGAGTTGGACTATAGAG	59.963	50.000	6.78	0.00	0.00	2.43
869	6845	3.954904	GCTGGACTGAGTTGGACTATAGA	59.045	47.826	6.78	0.00	0.00	1.98
870	6846	3.068873	GGCTGGACTGAGTTGGACTATAG	59.931	52.174	0.00	0.00	0.00	1.31
871	6847	3.031736	GGCTGGACTGAGTTGGACTATA	58.968	50.000	0.00	0.00	0.00	1.31
886	6862	2.940467	TTGATGGGCTGGGCTGGA	60.940	61.111	0.00	0.00	0.00	3.86
947	6937	2.907897	GAATGGTGCGAGACGGAGGG	62.908	65.000	0.00	0.00	0.00	4.30
1047	7048	0.964358	GAGAGACGGGGAAGACGGAA	60.964	60.000	0.00	0.00	35.23	4.30
1207	7223	0.251209	GGGTTGGAGGGGAACTTGAC	60.251	60.000	0.00	0.00	0.00	3.18
1923	7949	6.463049	GCTCCAGGCTAAGACAGATAATTACA	60.463	42.308	0.53	0.00	38.06	2.41
2339	8379	3.404869	TGGAGATACCAGGAGTCATGT	57.595	47.619	3.80	0.00	44.64	3.21
2409	8450	0.176910	TGTCGATATGGCGCAAGGAA	59.823	50.000	10.83	0.00	38.28	3.36
2416	8457	3.987220	TCAATATGTGTGTCGATATGGCG	59.013	43.478	0.00	0.00	0.00	5.69
2418	8459	7.482654	ACTTTCAATATGTGTGTCGATATGG	57.517	36.000	0.00	0.00	0.00	2.74
2443	8484	5.648960	TGCAGAATGAACTGATATTGCAGAA	59.351	36.000	0.00	0.00	39.69	3.02
2444	8485	5.187687	TGCAGAATGAACTGATATTGCAGA	58.812	37.500	0.00	0.00	39.69	4.26
2445	8486	5.494632	TGCAGAATGAACTGATATTGCAG	57.505	39.130	0.00	0.00	39.69	4.41
2446	8487	5.900865	TTGCAGAATGAACTGATATTGCA	57.099	34.783	0.00	0.00	39.69	4.08
2448	8489	9.827411	CTGATATTGCAGAATGAACTGATATTG	57.173	33.333	0.00	0.00	39.69	1.90
2449	8490	9.570468	ACTGATATTGCAGAATGAACTGATATT	57.430	29.630	0.00	0.00	39.69	1.28
2450	8491	9.000486	CACTGATATTGCAGAATGAACTGATAT	58.000	33.333	0.00	0.00	39.69	1.63
2451	8492	8.206189	TCACTGATATTGCAGAATGAACTGATA	58.794	33.333	0.00	0.00	39.69	2.15
2483	8529	6.485648	TCATGGAAAGATATCAAGAGTGCATG	59.514	38.462	5.32	11.10	0.00	4.06
2572	8618	8.802267	ACAGAAATTTTCATCGAAGGGAATTTA	58.198	29.630	11.53	0.00	27.08	1.40
2583	8629	4.142469	GGTGGGGTACAGAAATTTTCATCG	60.142	45.833	11.53	2.49	0.00	3.84
2586	8632	4.463050	AGGTGGGGTACAGAAATTTTCA	57.537	40.909	11.53	0.00	0.00	2.69
2588	8634	6.569127	AAAAAGGTGGGGTACAGAAATTTT	57.431	33.333	0.00	0.00	0.00	1.82
3049	9095	9.928236	GAATGAAGATATTCAGCTTACAAGAAC	57.072	33.333	8.95	0.00	37.10	3.01

Based at the University of Bristol with support from BBSRC.

AutoCloner maintained by Alex Coulton.