AutoCloner

Multiple sequence alignment - TraesCS7A01G364700

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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	TraesCS7A01G364700	chr7A	100.000	3167	0	0	1	3167	538801360	538804526	0.000000e+00	5849.0
1	TraesCS7A01G364700	chr7A	85.156	128	16	3	1	126	236876751	236876877	9.220000e-26	128.0
2	TraesCS7A01G364700	chr7A	89.474	76	6	2	691	764	493453647	493453572	9.350000e-16	95.3
3	TraesCS7A01G364700	chr7D	91.883	1774	105	17	844	2579	461145854	461144082	0.000000e+00	2442.0
4	TraesCS7A01G364700	chr7D	91.284	436	28	5	844	1270	461196851	461196417	1.270000e-163	586.0
5	TraesCS7A01G364700	chr7B	91.681	1743	103	19	844	2562	483769270	483767546	0.000000e+00	2377.0
6	TraesCS7A01G364700	chr7B	83.465	127	18	3	1	126	585451795	585451671	7.180000e-22	115.0
7	TraesCS7A01G364700	chr7B	83.158	95	13	3	672	764	582699995	582700088	2.020000e-12	84.2
8	TraesCS7A01G364700	chr4B	99.479	768	3	1	1	767	544023062	544022295	0.000000e+00	1395.0
9	TraesCS7A01G364700	chr4B	90.278	72	7	0	691	762	33821457	33821528	9.350000e-16	95.3
10	TraesCS7A01G364700	chr6A	95.101	592	25	2	2576	3167	200002514	200001927	0.000000e+00	929.0
11	TraesCS7A01G364700	chr5A	94.257	592	33	1	2576	3167	237475678	237475088	0.000000e+00	904.0
12	TraesCS7A01G364700	chr5A	93.750	592	33	2	2576	3167	222521933	222521346	0.000000e+00	885.0
13	TraesCS7A01G364700	chr4A	94.128	596	30	3	2574	3167	371787042	371786450	0.000000e+00	902.0
14	TraesCS7A01G364700	chr2A	94.098	593	35	0	2575	3167	231350027	231350619	0.000000e+00	902.0
15	TraesCS7A01G364700	chr2A	93.939	594	35	1	2575	3167	204819811	204819218	0.000000e+00	896.0
16	TraesCS7A01G364700	chr2A	93.051	590	37	2	2578	3167	465357527	465356942	0.000000e+00	859.0
17	TraesCS7A01G364700	chr2D	93.750	592	28	7	3	588	586291746	586292334	0.000000e+00	880.0
18	TraesCS7A01G364700	chr2D	88.636	176	11	3	590	756	586292397	586292572	4.140000e-49	206.0
19	TraesCS7A01G364700	chr3A	93.412	592	36	1	2576	3167	492329786	492330374	0.000000e+00	874.0
20	TraesCS7A01G364700	chr3A	93.063	591	36	3	2576	3165	685431992	685431406	0.000000e+00	859.0
21	TraesCS7A01G364700	chr3B	93.333	225	13	2	3	226	775568609	775568832	6.550000e-87	331.0
22	TraesCS7A01G364700	chr3B	93.953	215	10	2	244	455	775568960	775569174	3.940000e-84	322.0
23	TraesCS7A01G364700	chr3B	93.571	140	5	3	451	588	775575582	775575719	4.140000e-49	206.0
24	TraesCS7A01G364700	chr3B	90.278	72	6	1	691	761	434305764	434305693	3.360000e-15	93.5
25	TraesCS7A01G364700	chr3D	84.375	128	17	3	1	126	500864255	500864381	4.290000e-24	122.0
26	TraesCS7A01G364700	chr5B	91.045	67	6	0	691	757	448797631	448797565	1.210000e-14	91.6
27	TraesCS7A01G364700	chr2B	91.667	60	5	0	705	764	690936045	690936104	2.020000e-12	84.2
28	TraesCS7A01G364700	chr2B	89.231	65	7	0	691	755	180565736	180565800	7.280000e-12	82.4

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	TraesCS7A01G364700	chr7A	538801360	538804526	3166	False	5849.0	5849	100.000	1	3167	1	chr7A.!!$F2	3166
1	TraesCS7A01G364700	chr7D	461144082	461145854	1772	True	2442.0	2442	91.883	844	2579	1	chr7D.!!$R1	1735
2	TraesCS7A01G364700	chr7B	483767546	483769270	1724	True	2377.0	2377	91.681	844	2562	1	chr7B.!!$R1	1718
3	TraesCS7A01G364700	chr4B	544022295	544023062	767	True	1395.0	1395	99.479	1	767	1	chr4B.!!$R1	766
4	TraesCS7A01G364700	chr6A	200001927	200002514	587	True	929.0	929	95.101	2576	3167	1	chr6A.!!$R1	591
5	TraesCS7A01G364700	chr5A	237475088	237475678	590	True	904.0	904	94.257	2576	3167	1	chr5A.!!$R2	591
6	TraesCS7A01G364700	chr5A	222521346	222521933	587	True	885.0	885	93.750	2576	3167	1	chr5A.!!$R1	591
7	TraesCS7A01G364700	chr4A	371786450	371787042	592	True	902.0	902	94.128	2574	3167	1	chr4A.!!$R1	593
8	TraesCS7A01G364700	chr2A	231350027	231350619	592	False	902.0	902	94.098	2575	3167	1	chr2A.!!$F1	592
9	TraesCS7A01G364700	chr2A	204819218	204819811	593	True	896.0	896	93.939	2575	3167	1	chr2A.!!$R1	592
10	TraesCS7A01G364700	chr2A	465356942	465357527	585	True	859.0	859	93.051	2578	3167	1	chr2A.!!$R2	589
11	TraesCS7A01G364700	chr2D	586291746	586292572	826	False	543.0	880	91.193	3	756	2	chr2D.!!$F1	753
12	TraesCS7A01G364700	chr3A	492329786	492330374	588	False	874.0	874	93.412	2576	3167	1	chr3A.!!$F1	591
13	TraesCS7A01G364700	chr3A	685431406	685431992	586	True	859.0	859	93.063	2576	3165	1	chr3A.!!$R1	589
14	TraesCS7A01G364700	chr3B	775568609	775569174	565	False	326.5	331	93.643	3	455	2	chr3B.!!$F2	452

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
846	1033	0.109342	AAACACAGGAGGCACAGGAG	59.891	55.0	0.0	0.0	0.0	3.69	F
1962	2162	0.043940	AGCAGGAGGAAGGGAGTGAT	59.956	55.0	0.0	0.0	0.0	3.06	F

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability	Orientation
2148	2354	0.182061	CCTACTGGTCCATGCTGCAT	59.818	55.000	9.81	9.81	0.00	3.96	R
3001	3238	4.974438	TGCCCCGGACACCTCCTT	62.974	66.667	0.73	0.00	33.79	3.36	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
757	944	5.063880	GGATGAAAATTAGCAGTCCCGTAT	58.936	41.667	0.00	0.00	0.00	3.06
784	971	7.476540	TTTTCTTCCTTTTTAGGGGATTAGC	57.523	36.000	0.00	0.00	0.00	3.09
785	972	4.777463	TCTTCCTTTTTAGGGGATTAGCG	58.223	43.478	0.00	0.00	0.00	4.26
786	973	4.226620	TCTTCCTTTTTAGGGGATTAGCGT	59.773	41.667	0.00	0.00	0.00	5.07
787	974	4.146745	TCCTTTTTAGGGGATTAGCGTC	57.853	45.455	0.00	0.00	0.00	5.19
788	975	3.778629	TCCTTTTTAGGGGATTAGCGTCT	59.221	43.478	0.00	0.00	0.00	4.18
789	976	4.226620	TCCTTTTTAGGGGATTAGCGTCTT	59.773	41.667	0.00	0.00	0.00	3.01
790	977	4.948004	CCTTTTTAGGGGATTAGCGTCTTT	59.052	41.667	0.00	0.00	0.00	2.52
791	978	5.417894	CCTTTTTAGGGGATTAGCGTCTTTT	59.582	40.000	0.00	0.00	0.00	2.27
792	979	6.071560	CCTTTTTAGGGGATTAGCGTCTTTTT	60.072	38.462	0.00	0.00	0.00	1.94
793	980	6.505044	TTTTAGGGGATTAGCGTCTTTTTC	57.495	37.500	0.00	0.00	0.00	2.29
794	981	5.431179	TTAGGGGATTAGCGTCTTTTTCT	57.569	39.130	0.00	0.00	0.00	2.52
795	982	4.302559	AGGGGATTAGCGTCTTTTTCTT	57.697	40.909	0.00	0.00	0.00	2.52
796	983	5.431179	AGGGGATTAGCGTCTTTTTCTTA	57.569	39.130	0.00	0.00	0.00	2.10
797	984	5.429130	AGGGGATTAGCGTCTTTTTCTTAG	58.571	41.667	0.00	0.00	0.00	2.18
798	985	5.189145	AGGGGATTAGCGTCTTTTTCTTAGA	59.811	40.000	0.00	0.00	0.00	2.10
799	986	6.056236	GGGGATTAGCGTCTTTTTCTTAGAT	58.944	40.000	0.00	0.00	0.00	1.98
800	987	6.017852	GGGGATTAGCGTCTTTTTCTTAGATG	60.018	42.308	0.00	0.00	0.00	2.90
801	988	6.761714	GGGATTAGCGTCTTTTTCTTAGATGA	59.238	38.462	0.00	0.00	31.64	2.92
802	989	7.042389	GGGATTAGCGTCTTTTTCTTAGATGAG	60.042	40.741	0.00	0.00	31.64	2.90
803	990	7.042389	GGATTAGCGTCTTTTTCTTAGATGAGG	60.042	40.741	0.00	0.00	31.64	3.86
804	991	5.407407	AGCGTCTTTTTCTTAGATGAGGA	57.593	39.130	0.00	0.00	31.64	3.71
805	992	5.794894	AGCGTCTTTTTCTTAGATGAGGAA	58.205	37.500	0.00	0.00	31.64	3.36
806	993	5.872070	AGCGTCTTTTTCTTAGATGAGGAAG	59.128	40.000	0.00	0.00	31.64	3.46
807	994	5.064071	GCGTCTTTTTCTTAGATGAGGAAGG	59.936	44.000	0.00	0.00	31.64	3.46
808	995	6.398918	CGTCTTTTTCTTAGATGAGGAAGGA	58.601	40.000	0.00	0.00	31.64	3.36
809	996	6.874134	CGTCTTTTTCTTAGATGAGGAAGGAA	59.126	38.462	0.00	0.00	31.64	3.36
810	997	7.550906	CGTCTTTTTCTTAGATGAGGAAGGAAT	59.449	37.037	0.00	0.00	31.64	3.01
811	998	9.237187	GTCTTTTTCTTAGATGAGGAAGGAATT	57.763	33.333	0.00	0.00	0.00	2.17
812	999	9.454859	TCTTTTTCTTAGATGAGGAAGGAATTC	57.545	33.333	0.00	0.00	0.00	2.17
813	1000	8.581253	TTTTTCTTAGATGAGGAAGGAATTCC	57.419	34.615	17.31	17.31	41.42	3.01
814	1001	6.891306	TTCTTAGATGAGGAAGGAATTCCA	57.109	37.500	26.22	4.77	43.54	3.53
815	1002	6.491714	TCTTAGATGAGGAAGGAATTCCAG	57.508	41.667	26.22	10.09	43.54	3.86
816	1003	5.367937	TCTTAGATGAGGAAGGAATTCCAGG	59.632	44.000	26.22	2.31	43.54	4.45
817	1004	3.740780	AGATGAGGAAGGAATTCCAGGA	58.259	45.455	26.22	4.37	43.54	3.86
818	1005	4.114597	AGATGAGGAAGGAATTCCAGGAA	58.885	43.478	26.22	3.72	43.54	3.36
819	1006	3.721087	TGAGGAAGGAATTCCAGGAAC	57.279	47.619	26.22	14.09	43.54	3.62
820	1007	2.027192	TGAGGAAGGAATTCCAGGAACG	60.027	50.000	26.22	0.00	43.54	3.95
821	1008	2.236395	GAGGAAGGAATTCCAGGAACGA	59.764	50.000	26.22	0.00	43.54	3.85
822	1009	2.642807	AGGAAGGAATTCCAGGAACGAA	59.357	45.455	26.22	0.00	43.54	3.85
823	1010	3.073946	AGGAAGGAATTCCAGGAACGAAA	59.926	43.478	26.22	0.00	43.54	3.46
824	1011	3.824443	GGAAGGAATTCCAGGAACGAAAA	59.176	43.478	26.22	0.00	40.79	2.29
825	1012	4.279922	GGAAGGAATTCCAGGAACGAAAAA	59.720	41.667	26.22	0.00	40.79	1.94
846	1033	0.109342	AAACACAGGAGGCACAGGAG	59.891	55.000	0.00	0.00	0.00	3.69
862	1049	1.064389	AGGAGCAGAAACCCTAATGCC	60.064	52.381	0.00	0.00	39.51	4.40
883	1070	3.609103	GCGAAATGGACTGCGAAATAT	57.391	42.857	0.00	0.00	0.00	1.28
936	1132	1.202330	CTCTCTCCCAGAGTGCCATT	58.798	55.000	0.52	0.00	43.61	3.16
943	1139	1.004044	CCCAGAGTGCCATTCTTCTGT	59.996	52.381	0.00	0.00	0.00	3.41
947	1143	2.902486	AGAGTGCCATTCTTCTGTCAGA	59.098	45.455	0.00	0.00	0.00	3.27
950	1146	1.980765	TGCCATTCTTCTGTCAGAGGT	59.019	47.619	11.40	0.00	0.00	3.85
953	1149	3.438434	GCCATTCTTCTGTCAGAGGTTTC	59.562	47.826	11.40	0.00	0.00	2.78
954	1150	4.006319	CCATTCTTCTGTCAGAGGTTTCC	58.994	47.826	11.40	0.00	0.00	3.13
967	1167	1.905894	AGGTTTCCTGCTCTTCCTCTC	59.094	52.381	0.00	0.00	29.57	3.20
1131	1331	4.790962	TACCCGTCCTCGCTCGCT	62.791	66.667	0.00	0.00	35.54	4.93
1392	1592	3.898509	CTCTCCTCGGCTCCGCAG	61.899	72.222	2.96	2.55	39.59	5.18
1641	1841	3.357079	CACGACTGCCTGCCCAAC	61.357	66.667	0.00	0.00	0.00	3.77
1884	2084	1.429543	ATGGCGGTGATGGGGATGAT	61.430	55.000	0.00	0.00	0.00	2.45
1898	2098	2.307098	GGGATGATACCATGGAAGAGGG	59.693	54.545	21.47	0.00	32.09	4.30
1962	2162	0.043940	AGCAGGAGGAAGGGAGTGAT	59.956	55.000	0.00	0.00	0.00	3.06
1970	2170	1.202580	GGAAGGGAGTGATGACGATGG	60.203	57.143	0.00	0.00	0.00	3.51
2080	2280	4.314440	GCGGTGAGCTGTCCCACA	62.314	66.667	0.00	0.00	44.04	4.17
2124	2324	4.331108	GGCAACTGAAGAAGGAAGAAGAT	58.669	43.478	0.00	0.00	0.00	2.40
2178	2384	2.290323	GGACCAGTAGGATGTTTGCTGT	60.290	50.000	0.00	0.00	38.69	4.40
2184	2390	4.977963	CAGTAGGATGTTTGCTGTTGTTTG	59.022	41.667	0.00	0.00	0.00	2.93
2188	2394	5.244755	AGGATGTTTGCTGTTGTTTGTTTT	58.755	33.333	0.00	0.00	0.00	2.43
2189	2395	5.704978	AGGATGTTTGCTGTTGTTTGTTTTT	59.295	32.000	0.00	0.00	0.00	1.94
2247	2471	2.787473	TTGGTGATACTGCTTCCTGG	57.213	50.000	0.00	0.00	0.00	4.45
2249	2473	1.555075	TGGTGATACTGCTTCCTGGAC	59.445	52.381	0.00	0.00	0.00	4.02
2268	2492	3.378339	GACGTTCCGAATTCATATCCGT	58.622	45.455	6.22	6.57	0.00	4.69
2305	2533	8.017418	AGTTCAAGATAAAACATTTGGGTGAA	57.983	30.769	0.00	0.00	0.00	3.18
2306	2534	8.650490	AGTTCAAGATAAAACATTTGGGTGAAT	58.350	29.630	0.00	0.00	0.00	2.57
2338	2566	7.562454	AGCAGGAAATGAATGATTTGATTAGGA	59.438	33.333	0.00	0.00	34.18	2.94
2370	2598	2.414029	CGCAAGTGACGGCAACATTAAT	60.414	45.455	0.00	0.00	0.00	1.40
2393	2621	7.650834	ATCGGTGTTAATTTCCATTTGTTTG	57.349	32.000	0.00	0.00	0.00	2.93
2487	2715	1.398451	GGTGAAATGTCAAGTCACGCG	60.398	52.381	3.53	3.53	42.11	6.01
2488	2716	1.260561	GTGAAATGTCAAGTCACGCGT	59.739	47.619	5.58	5.58	34.87	6.01
2508	2736	4.702392	CGTTACTTGACTAGCAAAGCTTG	58.298	43.478	0.00	0.00	40.44	4.01
2531	2761	7.566760	TGCCATTTGGAAGTATTACTATGTG	57.433	36.000	0.00	0.00	37.39	3.21
2534	2764	7.041098	GCCATTTGGAAGTATTACTATGTGAGG	60.041	40.741	0.00	0.00	37.39	3.86
2542	2772	7.735326	AGTATTACTATGTGAGGGAAACACT	57.265	36.000	0.00	0.00	38.81	3.55
2595	2825	5.815740	ACTTTGTTAGAGTATGTAATGGGCG	59.184	40.000	0.00	0.00	0.00	6.13
2740	2970	9.378504	AGAGGAGATGTATCAATCTAATCAAGT	57.621	33.333	0.00	0.00	37.03	3.16

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
764	951	4.524053	ACGCTAATCCCCTAAAAAGGAAG	58.476	43.478	0.00	0.00	35.30	3.46
767	954	4.152284	AGACGCTAATCCCCTAAAAAGG	57.848	45.455	0.00	0.00	0.00	3.11
768	955	6.510879	AAAAGACGCTAATCCCCTAAAAAG	57.489	37.500	0.00	0.00	0.00	2.27
769	956	6.717997	AGAAAAAGACGCTAATCCCCTAAAAA	59.282	34.615	0.00	0.00	0.00	1.94
770	957	6.243148	AGAAAAAGACGCTAATCCCCTAAAA	58.757	36.000	0.00	0.00	0.00	1.52
771	958	5.812286	AGAAAAAGACGCTAATCCCCTAAA	58.188	37.500	0.00	0.00	0.00	1.85
772	959	5.431179	AGAAAAAGACGCTAATCCCCTAA	57.569	39.130	0.00	0.00	0.00	2.69
773	960	5.431179	AAGAAAAAGACGCTAATCCCCTA	57.569	39.130	0.00	0.00	0.00	3.53
774	961	4.302559	AAGAAAAAGACGCTAATCCCCT	57.697	40.909	0.00	0.00	0.00	4.79
775	962	5.425630	TCTAAGAAAAAGACGCTAATCCCC	58.574	41.667	0.00	0.00	0.00	4.81
776	963	6.761714	TCATCTAAGAAAAAGACGCTAATCCC	59.238	38.462	0.00	0.00	0.00	3.85
777	964	7.042389	CCTCATCTAAGAAAAAGACGCTAATCC	60.042	40.741	0.00	0.00	0.00	3.01
778	965	7.707035	TCCTCATCTAAGAAAAAGACGCTAATC	59.293	37.037	0.00	0.00	0.00	1.75
779	966	7.556844	TCCTCATCTAAGAAAAAGACGCTAAT	58.443	34.615	0.00	0.00	0.00	1.73
780	967	6.931838	TCCTCATCTAAGAAAAAGACGCTAA	58.068	36.000	0.00	0.00	0.00	3.09
781	968	6.525578	TCCTCATCTAAGAAAAAGACGCTA	57.474	37.500	0.00	0.00	0.00	4.26
782	969	5.407407	TCCTCATCTAAGAAAAAGACGCT	57.593	39.130	0.00	0.00	0.00	5.07
783	970	5.064071	CCTTCCTCATCTAAGAAAAAGACGC	59.936	44.000	0.00	0.00	0.00	5.19
784	971	6.398918	TCCTTCCTCATCTAAGAAAAAGACG	58.601	40.000	0.00	0.00	0.00	4.18
785	972	8.800370	ATTCCTTCCTCATCTAAGAAAAAGAC	57.200	34.615	0.00	0.00	0.00	3.01
786	973	9.454859	GAATTCCTTCCTCATCTAAGAAAAAGA	57.545	33.333	0.00	0.00	0.00	2.52
787	974	8.681806	GGAATTCCTTCCTCATCTAAGAAAAAG	58.318	37.037	17.73	0.00	46.44	2.27
788	975	8.581253	GGAATTCCTTCCTCATCTAAGAAAAA	57.419	34.615	17.73	0.00	46.44	1.94
803	990	5.447624	TTTTTCGTTCCTGGAATTCCTTC	57.552	39.130	24.73	9.71	36.82	3.46
825	1012	1.064017	TCCTGTGCCTCCTGTGTTTTT	60.064	47.619	0.00	0.00	0.00	1.94
826	1013	0.550914	TCCTGTGCCTCCTGTGTTTT	59.449	50.000	0.00	0.00	0.00	2.43
827	1014	0.109342	CTCCTGTGCCTCCTGTGTTT	59.891	55.000	0.00	0.00	0.00	2.83
828	1015	1.757306	CTCCTGTGCCTCCTGTGTT	59.243	57.895	0.00	0.00	0.00	3.32
829	1016	2.888447	GCTCCTGTGCCTCCTGTGT	61.888	63.158	0.00	0.00	0.00	3.72
830	1017	2.046507	GCTCCTGTGCCTCCTGTG	60.047	66.667	0.00	0.00	0.00	3.66
831	1018	2.527624	TGCTCCTGTGCCTCCTGT	60.528	61.111	0.00	0.00	0.00	4.00
832	1019	1.834856	TTCTGCTCCTGTGCCTCCTG	61.835	60.000	0.00	0.00	0.00	3.86
833	1020	1.130054	TTTCTGCTCCTGTGCCTCCT	61.130	55.000	0.00	0.00	0.00	3.69
834	1021	0.957888	GTTTCTGCTCCTGTGCCTCC	60.958	60.000	0.00	0.00	0.00	4.30
835	1022	0.957888	GGTTTCTGCTCCTGTGCCTC	60.958	60.000	0.00	0.00	0.00	4.70
836	1023	1.073897	GGTTTCTGCTCCTGTGCCT	59.926	57.895	0.00	0.00	0.00	4.75
837	1024	1.973812	GGGTTTCTGCTCCTGTGCC	60.974	63.158	0.00	0.00	0.00	5.01
838	1025	0.324943	TAGGGTTTCTGCTCCTGTGC	59.675	55.000	0.00	0.00	32.46	4.57
839	1026	2.859165	TTAGGGTTTCTGCTCCTGTG	57.141	50.000	0.00	0.00	32.46	3.66
840	1027	2.619074	GCATTAGGGTTTCTGCTCCTGT	60.619	50.000	0.00	0.00	32.46	4.00
841	1028	2.019984	GCATTAGGGTTTCTGCTCCTG	58.980	52.381	0.00	0.00	32.46	3.86
842	1029	1.064389	GGCATTAGGGTTTCTGCTCCT	60.064	52.381	0.00	0.00	35.03	3.69
846	1033	1.433471	GCGGCATTAGGGTTTCTGC	59.567	57.895	0.00	0.00	0.00	4.26
922	1114	1.280133	CAGAAGAATGGCACTCTGGGA	59.720	52.381	0.00	0.00	0.00	4.37
924	1116	2.289882	TGACAGAAGAATGGCACTCTGG	60.290	50.000	17.09	6.78	31.65	3.86
936	1132	2.037772	GCAGGAAACCTCTGACAGAAGA	59.962	50.000	8.09	0.00	34.36	2.87
943	1139	1.625818	GGAAGAGCAGGAAACCTCTGA	59.374	52.381	0.00	0.00	38.38	3.27
947	1143	1.905894	GAGAGGAAGAGCAGGAAACCT	59.094	52.381	0.00	0.00	0.00	3.50
950	1146	1.203364	AGGGAGAGGAAGAGCAGGAAA	60.203	52.381	0.00	0.00	0.00	3.13
953	1149	1.048160	GGAGGGAGAGGAAGAGCAGG	61.048	65.000	0.00	0.00	0.00	4.85
954	1150	1.391157	CGGAGGGAGAGGAAGAGCAG	61.391	65.000	0.00	0.00	0.00	4.24
1131	1331	1.011595	AGCAGTAGGAGGAGAGGGAA	58.988	55.000	0.00	0.00	0.00	3.97
1359	1559	4.851214	AGAGAGAGGAGGGCGCCC	62.851	72.222	39.29	39.29	0.00	6.13
1360	1560	3.223589	GAGAGAGAGGAGGGCGCC	61.224	72.222	21.18	21.18	0.00	6.53
1366	1566	0.535102	GCCGAGGAGAGAGAGAGGAG	60.535	65.000	0.00	0.00	0.00	3.69
1608	1808	2.280797	TGGTTCAGCAGTGACGCC	60.281	61.111	0.00	0.00	30.10	5.68
1620	1820	3.050275	GGCAGGCAGTCGTGGTTC	61.050	66.667	0.00	0.00	0.00	3.62
1641	1841	1.595489	GCATAATCGAAGTGGCAAGCG	60.595	52.381	0.00	0.00	0.00	4.68
1884	2084	0.846015	CATGCCCCTCTTCCATGGTA	59.154	55.000	12.58	0.02	34.26	3.25
1898	2098	3.291611	CAACCTCCTTGCCATGCC	58.708	61.111	0.00	0.00	0.00	4.40
1962	2162	0.804544	GGAAATCGTCGCCATCGTCA	60.805	55.000	0.00	0.00	36.96	4.35
2063	2263	2.238847	TATGTGGGACAGCTCACCGC	62.239	60.000	1.22	3.12	45.19	5.68
2079	2279	4.109766	CACAGGCATTGCACTCAAATATG	58.890	43.478	11.39	0.00	35.56	1.78
2080	2280	3.131577	CCACAGGCATTGCACTCAAATAT	59.868	43.478	11.39	0.00	35.56	1.28
2148	2354	0.182061	CCTACTGGTCCATGCTGCAT	59.818	55.000	9.81	9.81	0.00	3.96
2202	2421	6.049149	GCAGCAGATAGAAATGTAAGTGGTA	58.951	40.000	0.00	0.00	0.00	3.25
2213	2432	3.954200	TCACCAATGCAGCAGATAGAAA	58.046	40.909	0.00	0.00	0.00	2.52
2305	2533	7.893124	AATCATTCATTTCCTGCTCTACAAT	57.107	32.000	0.00	0.00	0.00	2.71
2306	2534	7.394077	TCAAATCATTCATTTCCTGCTCTACAA	59.606	33.333	0.00	0.00	31.79	2.41
2338	2566	2.603892	CGTCACTTGCGTACTACACTGT	60.604	50.000	0.00	0.00	0.00	3.55
2359	2587	6.254804	GGAAATTAACACCGATTAATGTTGCC	59.745	38.462	0.00	0.00	39.36	4.52
2360	2588	6.809196	TGGAAATTAACACCGATTAATGTTGC	59.191	34.615	0.00	0.00	39.36	4.17
2365	2593	9.936759	AACAAATGGAAATTAACACCGATTAAT	57.063	25.926	0.00	0.00	36.52	1.40
2370	2598	6.574350	ACAAACAAATGGAAATTAACACCGA	58.426	32.000	0.00	0.00	0.00	4.69
2393	2621	9.515020	TTTCTCACATCAAACTATGAAACAAAC	57.485	29.630	0.00	0.00	42.54	2.93
2446	2674	6.775629	TCACCTGTTCTTTTAGCTTTAACCAT	59.224	34.615	0.00	0.00	0.00	3.55
2508	2736	7.041098	CCTCACATAGTAATACTTCCAAATGGC	60.041	40.741	0.00	0.00	34.44	4.40
2531	2761	4.214332	CAGTAAGCTTTCAGTGTTTCCCTC	59.786	45.833	3.20	0.00	0.00	4.30
2534	2764	5.751243	TTCAGTAAGCTTTCAGTGTTTCC	57.249	39.130	3.20	0.00	0.00	3.13
2565	2795	8.592998	CATTACATACTCTAACAAAGTCGAACC	58.407	37.037	0.00	0.00	0.00	3.62
2760	2990	1.602237	GGTCGGGCAAGATGGAAGA	59.398	57.895	0.00	0.00	0.00	2.87
3001	3238	4.974438	TGCCCCGGACACCTCCTT	62.974	66.667	0.73	0.00	33.79	3.36

Based at the University of Bristol with support from BBSRC.

AutoCloner maintained by Alex Coulton.