AutoCloner

Multiple sequence alignment - TraesCS5A01G451900

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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	TraesCS5A01G451900	chr5A	100.000	3080	0	0	1	3080	633636814	633633735	0.000000e+00	5688
1	TraesCS5A01G451900	chr5A	76.636	2033	327	83	816	2766	633109521	633111487	0.000000e+00	987
2	TraesCS5A01G451900	chr5A	78.577	1363	254	24	1035	2383	633754606	633753268	0.000000e+00	865
3	TraesCS5A01G451900	chr5A	80.406	1133	199	12	983	2097	633149304	633150431	0.000000e+00	841
4	TraesCS5A01G451900	chr5A	95.534	515	19	1	1	515	69550821	69550311	0.000000e+00	821
5	TraesCS5A01G451900	chr5A	79.927	1096	175	21	893	1970	642905532	642906600	0.000000e+00	763
6	TraesCS5A01G451900	chr5A	83.537	164	9	9	2464	2614	633150810	633150968	1.490000e-28	137
7	TraesCS5A01G451900	chr5B	88.082	2383	205	35	728	3051	636349452	636347090	0.000000e+00	2754
8	TraesCS5A01G451900	chr5B	81.387	1139	186	16	983	2102	635776805	635777936	0.000000e+00	905
9	TraesCS5A01G451900	chr5B	79.538	1300	225	24	1007	2291	636541519	636540246	0.000000e+00	889
10	TraesCS5A01G451900	chr5D	90.369	2139	142	30	512	2613	505936110	505933999	0.000000e+00	2750
11	TraesCS5A01G451900	chr5D	82.332	1132	178	12	983	2097	505779644	505780770	0.000000e+00	963
12	TraesCS5A01G451900	chr5D	79.046	1279	215	35	852	2107	514294480	514295728	0.000000e+00	828
13	TraesCS5A01G451900	chr5D	91.683	505	22	3	2595	3080	505933555	505933052	0.000000e+00	682
14	TraesCS5A01G451900	chr7A	96.532	519	12	3	1	513	664105622	664105104	0.000000e+00	854
15	TraesCS5A01G451900	chr7A	96.289	512	19	0	1	512	673412837	673413348	0.000000e+00	841
16	TraesCS5A01G451900	chr7A	95.551	517	20	1	1	514	529440767	529440251	0.000000e+00	824
17	TraesCS5A01G451900	chr7A	95.728	515	15	3	1	511	706307837	706308348	0.000000e+00	822
18	TraesCS5A01G451900	chr2A	96.498	514	17	1	1	514	780769714	780769202	0.000000e+00	848
19	TraesCS5A01G451900	chr6A	95.954	519	20	1	1	519	491002540	491002023	0.000000e+00	841
20	TraesCS5A01G451900	chr6A	95.728	515	19	1	1	512	63309225	63309739	0.000000e+00	826
21	TraesCS5A01G451900	chr6A	95.183	519	25	0	1	519	100938132	100937614	0.000000e+00	821
22	TraesCS5A01G451900	chr2B	74.131	1036	207	38	1067	2079	39985536	39986533	3.750000e-99	372

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	TraesCS5A01G451900	chr5A	633633735	633636814	3079	True	5688	5688	100.0000	1	3080	1	chr5A.!!$R2	3079
1	TraesCS5A01G451900	chr5A	633109521	633111487	1966	False	987	987	76.6360	816	2766	1	chr5A.!!$F1	1950
2	TraesCS5A01G451900	chr5A	633753268	633754606	1338	True	865	865	78.5770	1035	2383	1	chr5A.!!$R3	1348
3	TraesCS5A01G451900	chr5A	69550311	69550821	510	True	821	821	95.5340	1	515	1	chr5A.!!$R1	514
4	TraesCS5A01G451900	chr5A	642905532	642906600	1068	False	763	763	79.9270	893	1970	1	chr5A.!!$F2	1077
5	TraesCS5A01G451900	chr5A	633149304	633150968	1664	False	489	841	81.9715	983	2614	2	chr5A.!!$F3	1631
6	TraesCS5A01G451900	chr5B	636347090	636349452	2362	True	2754	2754	88.0820	728	3051	1	chr5B.!!$R1	2323
7	TraesCS5A01G451900	chr5B	635776805	635777936	1131	False	905	905	81.3870	983	2102	1	chr5B.!!$F1	1119
8	TraesCS5A01G451900	chr5B	636540246	636541519	1273	True	889	889	79.5380	1007	2291	1	chr5B.!!$R2	1284
9	TraesCS5A01G451900	chr5D	505933052	505936110	3058	True	1716	2750	91.0260	512	3080	2	chr5D.!!$R1	2568
10	TraesCS5A01G451900	chr5D	505779644	505780770	1126	False	963	963	82.3320	983	2097	1	chr5D.!!$F1	1114
11	TraesCS5A01G451900	chr5D	514294480	514295728	1248	False	828	828	79.0460	852	2107	1	chr5D.!!$F2	1255
12	TraesCS5A01G451900	chr7A	664105104	664105622	518	True	854	854	96.5320	1	513	1	chr7A.!!$R2	512
13	TraesCS5A01G451900	chr7A	673412837	673413348	511	False	841	841	96.2890	1	512	1	chr7A.!!$F1	511
14	TraesCS5A01G451900	chr7A	529440251	529440767	516	True	824	824	95.5510	1	514	1	chr7A.!!$R1	513
15	TraesCS5A01G451900	chr7A	706307837	706308348	511	False	822	822	95.7280	1	511	1	chr7A.!!$F2	510
16	TraesCS5A01G451900	chr2A	780769202	780769714	512	True	848	848	96.4980	1	514	1	chr2A.!!$R1	513
17	TraesCS5A01G451900	chr6A	491002023	491002540	517	True	841	841	95.9540	1	519	1	chr6A.!!$R2	518
18	TraesCS5A01G451900	chr6A	63309225	63309739	514	False	826	826	95.7280	1	512	1	chr6A.!!$F1	511
19	TraesCS5A01G451900	chr6A	100937614	100938132	518	True	821	821	95.1830	1	519	1	chr6A.!!$R1	518
20	TraesCS5A01G451900	chr2B	39985536	39986533	997	False	372	372	74.1310	1067	2079	1	chr2B.!!$F1	1012

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
723	750	0.111253	ACAGCCCAGAAAACTCAGGG	59.889	55.0	0.0	0.0	44.37	4.45	F

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability	Orientation
2233	2360	2.100197	TCTGGGTTCATCGACGAGAAT	58.9	47.619	3.01	0.0	0.0	2.4	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
126	127	1.963515	GACCACAGCCCATTTCTGTTT	59.036	47.619	0.00	0.00	42.38	2.83
135	136	2.489329	CCCATTTCTGTTTCATGAGCGT	59.511	45.455	0.00	0.00	0.00	5.07
230	231	6.610020	ACCTGTATTGTACTAGCATTAGGTCA	59.390	38.462	0.00	0.00	0.00	4.02
277	278	2.753055	TCGTCCCATCGATTGTTGAA	57.247	45.000	0.00	0.00	34.85	2.69
422	443	5.536554	CTGTATTTGAACAGTCTCGCAAT	57.463	39.130	0.00	0.00	41.63	3.56
441	462	5.105752	GCAATTTTAGTGACCACAAACACA	58.894	37.500	2.78	0.00	39.18	3.72
556	579	2.880268	TGATCATCCAATCCAATCGTGC	59.120	45.455	0.00	0.00	0.00	5.34
586	612	4.164843	ACCACCTATGTTTATTCGGCAT	57.835	40.909	0.00	0.00	0.00	4.40
587	613	5.298989	ACCACCTATGTTTATTCGGCATA	57.701	39.130	0.00	0.00	0.00	3.14
589	615	6.303839	ACCACCTATGTTTATTCGGCATAAT	58.696	36.000	0.00	0.00	0.00	1.28
590	616	7.455058	ACCACCTATGTTTATTCGGCATAATA	58.545	34.615	0.00	0.00	0.00	0.98
591	617	7.940137	ACCACCTATGTTTATTCGGCATAATAA	59.060	33.333	0.04	0.04	31.15	1.40
592	618	8.450964	CCACCTATGTTTATTCGGCATAATAAG	58.549	37.037	3.76	0.00	33.90	1.73
593	619	7.962918	CACCTATGTTTATTCGGCATAATAAGC	59.037	37.037	8.82	8.82	33.90	3.09
594	620	7.883311	ACCTATGTTTATTCGGCATAATAAGCT	59.117	33.333	13.90	0.00	35.06	3.74
595	621	8.391106	CCTATGTTTATTCGGCATAATAAGCTC	58.609	37.037	13.90	6.66	35.06	4.09
596	622	6.223138	TGTTTATTCGGCATAATAAGCTCG	57.777	37.500	13.90	0.00	35.06	5.03
597	623	5.756347	TGTTTATTCGGCATAATAAGCTCGT	59.244	36.000	13.90	0.00	35.06	4.18
598	624	5.839262	TTATTCGGCATAATAAGCTCGTG	57.161	39.130	0.00	0.00	29.95	4.35
686	713	2.335011	GCACTTCCGTTGGGTTGC	59.665	61.111	0.00	0.00	33.83	4.17
694	721	2.491022	CGTTGGGTTGCGGGGAAAA	61.491	57.895	0.00	0.00	0.00	2.29
695	722	1.365999	GTTGGGTTGCGGGGAAAAG	59.634	57.895	0.00	0.00	0.00	2.27
696	723	1.075896	TTGGGTTGCGGGGAAAAGT	60.076	52.632	0.00	0.00	0.00	2.66
697	724	0.185416	TTGGGTTGCGGGGAAAAGTA	59.815	50.000	0.00	0.00	0.00	2.24
698	725	0.406361	TGGGTTGCGGGGAAAAGTAT	59.594	50.000	0.00	0.00	0.00	2.12
699	726	1.634459	TGGGTTGCGGGGAAAAGTATA	59.366	47.619	0.00	0.00	0.00	1.47
700	727	2.019249	GGGTTGCGGGGAAAAGTATAC	58.981	52.381	0.00	0.00	0.00	1.47
701	728	2.618559	GGGTTGCGGGGAAAAGTATACA	60.619	50.000	5.50	0.00	0.00	2.29
702	729	3.083293	GGTTGCGGGGAAAAGTATACAA	58.917	45.455	5.50	0.00	0.00	2.41
703	730	3.506844	GGTTGCGGGGAAAAGTATACAAA	59.493	43.478	5.50	0.00	0.00	2.83
704	731	4.022155	GGTTGCGGGGAAAAGTATACAAAA	60.022	41.667	5.50	0.00	0.00	2.44
708	735	4.729595	CGGGGAAAAGTATACAAAACAGC	58.270	43.478	5.50	0.00	0.00	4.40
717	744	6.327279	AGTATACAAAACAGCCCAGAAAAC	57.673	37.500	5.50	0.00	0.00	2.43
718	745	6.068670	AGTATACAAAACAGCCCAGAAAACT	58.931	36.000	5.50	0.00	0.00	2.66
719	746	3.801114	ACAAAACAGCCCAGAAAACTC	57.199	42.857	0.00	0.00	0.00	3.01
720	747	3.096092	ACAAAACAGCCCAGAAAACTCA	58.904	40.909	0.00	0.00	0.00	3.41
721	748	3.131046	ACAAAACAGCCCAGAAAACTCAG	59.869	43.478	0.00	0.00	0.00	3.35
722	749	1.986882	AACAGCCCAGAAAACTCAGG	58.013	50.000	0.00	0.00	0.00	3.86
723	750	0.111253	ACAGCCCAGAAAACTCAGGG	59.889	55.000	0.00	0.00	44.37	4.45
752	779	0.968393	AGCAACTCCGAGGTCTCCTC	60.968	60.000	5.79	5.79	46.44	3.71
764	791	0.458260	GTCTCCTCGCCTTCTTCCTC	59.542	60.000	0.00	0.00	0.00	3.71
771	798	1.301293	GCCTTCTTCCTCCCCACAG	59.699	63.158	0.00	0.00	0.00	3.66
780	807	4.263572	TCCCCACAGGCCACAACG	62.264	66.667	5.01	0.00	34.51	4.10
912	958	1.444933	TCCCTTTGCTTTCCTCTGGA	58.555	50.000	0.00	0.00	0.00	3.86
921	967	5.965033	TGCTTTCCTCTGGAGATTAATCT	57.035	39.130	17.96	17.96	40.50	2.40
941	994	1.885887	TGCTTTTCTTTCCCACCATCG	59.114	47.619	0.00	0.00	0.00	3.84
984	1053	2.233922	TCACGTGGATTCTTTCTCCCTC	59.766	50.000	17.00	0.00	31.32	4.30
987	1056	1.134371	GTGGATTCTTTCTCCCTCCCG	60.134	57.143	0.00	0.00	31.32	5.14
1140	1220	9.699410	TTCATAATATCCAGGATTTTCACTGTT	57.301	29.630	7.44	0.00	32.90	3.16
1142	1222	8.906867	CATAATATCCAGGATTTTCACTGTTGT	58.093	33.333	7.44	0.00	32.90	3.32
1187	1267	1.964223	CTACCCTGACGGATACAGCAT	59.036	52.381	0.00	0.00	34.47	3.79
1269	1355	0.392193	CATCTTGCGACCTGAGGCTT	60.392	55.000	0.00	0.00	0.00	4.35
1272	1358	0.886490	CTTGCGACCTGAGGCTTGTT	60.886	55.000	0.00	0.00	0.00	2.83
1280	1366	2.242043	CCTGAGGCTTGTTGACCAATT	58.758	47.619	0.00	0.00	31.20	2.32
1281	1367	2.629617	CCTGAGGCTTGTTGACCAATTT	59.370	45.455	0.00	0.00	31.20	1.82
1301	1387	2.521105	ACCGGGTTATCGTATTCAGC	57.479	50.000	6.32	0.00	0.00	4.26
1305	1391	2.206750	GGGTTATCGTATTCAGCGCAA	58.793	47.619	11.47	0.00	0.00	4.85
1331	1417	4.687976	ACAGGGCCTAGGATTTTCAATTT	58.312	39.130	14.75	0.00	0.00	1.82
1345	1431	4.661993	TTCAATTTCGACGATTCCACTG	57.338	40.909	0.00	0.00	0.00	3.66
1362	1448	3.725754	TGGGTTTGCTCCAGAGTTC	57.274	52.632	0.00	0.00	0.00	3.01
1368	1454	2.805099	GTTTGCTCCAGAGTTCTGTGAG	59.195	50.000	16.66	16.66	42.27	3.51
1377	1463	5.104941	TCCAGAGTTCTGTGAGTTCAAAAGA	60.105	40.000	8.23	0.00	42.27	2.52
1418	1504	2.567169	CCGCATACCTTAGGGATGATCA	59.433	50.000	26.63	0.00	36.25	2.92
1581	1695	5.894393	TGTTAGTTTCATTGTTGGGGAAGAA	59.106	36.000	0.00	0.00	0.00	2.52
1649	1763	0.977395	AAAGCAGAGCTCTACGGGTT	59.023	50.000	17.75	13.32	38.25	4.11
1652	1766	0.458716	GCAGAGCTCTACGGGTTGAC	60.459	60.000	17.75	0.00	0.00	3.18
1665	1779	3.068691	TTGACGAGGGAGGCGAGG	61.069	66.667	0.00	0.00	0.00	4.63
1883	2000	1.215647	GTGAGGATCTGAACGCGGT	59.784	57.895	12.47	1.91	34.92	5.68
2019	2143	1.538047	GCTTCAAGGATGTCAAGGCA	58.462	50.000	0.00	0.00	0.00	4.75
2021	2145	2.094854	GCTTCAAGGATGTCAAGGCAAG	60.095	50.000	0.00	0.00	0.00	4.01
2125	2249	7.035004	GCCAAATCATATAAACTGCTTGTCAA	58.965	34.615	0.00	0.00	0.00	3.18
2158	2285	6.655078	AATTTCTTGTACTCACTTGCCATT	57.345	33.333	0.00	0.00	0.00	3.16
2292	2426	1.945387	TGATTTCATCTGGAGCGCTC	58.055	50.000	29.38	29.38	0.00	5.03
2311	2445	2.416547	CTCCCTTGCAATCGTGTAACAG	59.583	50.000	0.00	0.00	35.74	3.16
2343	2477	5.565455	ATTTTCTGGCAAAATTTCCTCCA	57.435	34.783	0.00	0.00	0.00	3.86
2463	2613	4.976224	ACCGCATATTTGGTTAAACTCC	57.024	40.909	0.00	0.00	33.81	3.85
2466	2616	5.420739	ACCGCATATTTGGTTAAACTCCATT	59.579	36.000	0.00	0.00	33.81	3.16
2467	2617	5.748152	CCGCATATTTGGTTAAACTCCATTG	59.252	40.000	0.00	0.00	34.75	2.82
2468	2618	5.231991	CGCATATTTGGTTAAACTCCATTGC	59.768	40.000	0.00	0.00	34.75	3.56
2524	2743	9.269453	CTTGAAGCATGATAGAATGATCTTGTA	57.731	33.333	0.00	0.00	37.10	2.41
2665	3358	4.633126	GCAGTGAAGAGCATTTGTATCTGA	59.367	41.667	0.00	0.00	0.00	3.27
2674	3367	7.983307	AGAGCATTTGTATCTGACATTTTCTC	58.017	34.615	0.00	0.00	38.07	2.87
2690	3383	7.920738	ACATTTTCTCTGTTTCTAATATCGCC	58.079	34.615	0.00	0.00	0.00	5.54
2726	3419	2.820197	GTCCATGTTCTTGTTCCTTCCC	59.180	50.000	0.00	0.00	0.00	3.97
2771	3464	8.918202	TGACAAGTTTGAGGTTATCTGTAAAT	57.082	30.769	0.00	0.00	0.00	1.40
2802	3495	6.832900	TCCATGGTATATCTGCAAAACATGAA	59.167	34.615	12.58	0.00	37.29	2.57
2813	3506	6.930164	TCTGCAAAACATGAAAATTATGTGCT	59.070	30.769	0.00	0.00	38.67	4.40
2862	3556	1.630878	GGGAGGGAGACACAAACAGAT	59.369	52.381	0.00	0.00	0.00	2.90
3073	3795	8.485578	TTGTGGGATAAAAAGTCTTATTTGGT	57.514	30.769	0.00	0.00	0.00	3.67

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
183	184	0.248990	CACAAACTGCGCCACACATT	60.249	50.000	4.18	0.00	0.00	2.71
230	231	0.616111	ACTGCCAGATCTCGAACCCT	60.616	55.000	0.00	0.00	0.00	4.34
288	289	7.757242	ACCCCTTATTCTTCTTCTTCTATGT	57.243	36.000	0.00	0.00	0.00	2.29
305	306	3.879892	GCATTTTTGCACAAAACCCCTTA	59.120	39.130	8.01	0.00	39.70	2.69
362	379	2.016704	GCGTATCCGTCGATGCCAG	61.017	63.158	0.00	0.00	36.15	4.85
363	380	2.027024	GCGTATCCGTCGATGCCA	59.973	61.111	0.00	0.00	36.15	4.92
364	381	1.729838	GAGCGTATCCGTCGATGCC	60.730	63.158	0.00	0.00	36.15	4.40
365	382	2.075489	CGAGCGTATCCGTCGATGC	61.075	63.158	0.00	0.00	38.78	3.91
384	401	6.715264	TCAAATACAGTCACTCTCTCTGTACA	59.285	38.462	6.44	0.00	43.98	2.90
422	443	9.307121	CAAAATATGTGTTTGTGGTCACTAAAA	57.693	29.630	2.66	0.00	35.82	1.52
556	579	7.463648	CGAATAAACATAGGTGGTTCGTGTAAG	60.464	40.741	11.57	0.00	36.46	2.34
590	616	9.162764	ACAGTAAATATAATTGTTCACGAGCTT	57.837	29.630	0.00	0.00	0.00	3.74
591	617	8.718102	ACAGTAAATATAATTGTTCACGAGCT	57.282	30.769	0.00	0.00	0.00	4.09
656	682	4.079253	ACGGAAGTGCACATCCTTAATTT	58.921	39.130	31.95	10.37	46.97	1.82
657	683	3.686016	ACGGAAGTGCACATCCTTAATT	58.314	40.909	31.95	11.08	46.97	1.40
658	684	3.350219	ACGGAAGTGCACATCCTTAAT	57.650	42.857	31.95	16.15	46.97	1.40
686	713	4.380128	GGCTGTTTTGTATACTTTTCCCCG	60.380	45.833	4.17	0.00	0.00	5.73
694	721	6.068670	AGTTTTCTGGGCTGTTTTGTATACT	58.931	36.000	4.17	0.00	0.00	2.12
695	722	6.016610	TGAGTTTTCTGGGCTGTTTTGTATAC	60.017	38.462	0.00	0.00	0.00	1.47
696	723	6.065374	TGAGTTTTCTGGGCTGTTTTGTATA	58.935	36.000	0.00	0.00	0.00	1.47
697	724	4.892934	TGAGTTTTCTGGGCTGTTTTGTAT	59.107	37.500	0.00	0.00	0.00	2.29
698	725	4.274147	TGAGTTTTCTGGGCTGTTTTGTA	58.726	39.130	0.00	0.00	0.00	2.41
699	726	3.096092	TGAGTTTTCTGGGCTGTTTTGT	58.904	40.909	0.00	0.00	0.00	2.83
700	727	3.491447	CCTGAGTTTTCTGGGCTGTTTTG	60.491	47.826	0.00	0.00	38.42	2.44
701	728	2.695147	CCTGAGTTTTCTGGGCTGTTTT	59.305	45.455	0.00	0.00	38.42	2.43
702	729	2.310538	CCTGAGTTTTCTGGGCTGTTT	58.689	47.619	0.00	0.00	38.42	2.83
703	730	1.986882	CCTGAGTTTTCTGGGCTGTT	58.013	50.000	0.00	0.00	38.42	3.16
704	731	3.733709	CCTGAGTTTTCTGGGCTGT	57.266	52.632	0.00	0.00	38.42	4.40
723	750	2.749441	GAGTTGCTGGGCCTGAGC	60.749	66.667	15.36	17.58	36.95	4.26
752	779	2.269241	GTGGGGAGGAAGAAGGCG	59.731	66.667	0.00	0.00	0.00	5.52
771	798	3.578272	TTCGTGTGCGTTGTGGCC	61.578	61.111	0.00	0.00	39.49	5.36
780	807	0.770008	GATTTTGCGTGTTCGTGTGC	59.230	50.000	0.00	0.00	39.49	4.57
912	958	6.153510	GGTGGGAAAGAAAAGCAGATTAATCT	59.846	38.462	12.37	12.37	37.72	2.40
921	967	1.885887	CGATGGTGGGAAAGAAAAGCA	59.114	47.619	0.00	0.00	0.00	3.91
941	994	3.996888	GCCGCCGCGTGCTAATAC	61.997	66.667	12.58	0.06	38.05	1.89
987	1056	4.489771	CCCATCTGGTGACCGGCC	62.490	72.222	5.33	0.00	0.00	6.13
1269	1355	2.660670	ACCCGGTAAATTGGTCAACA	57.339	45.000	0.00	0.00	0.00	3.33
1272	1358	3.055240	ACGATAACCCGGTAAATTGGTCA	60.055	43.478	0.00	0.00	0.00	4.02
1280	1366	3.550639	CGCTGAATACGATAACCCGGTAA	60.551	47.826	0.00	0.00	0.00	2.85
1281	1367	2.030893	CGCTGAATACGATAACCCGGTA	60.031	50.000	0.00	0.00	0.00	4.02
1305	1391	4.488770	TGAAAATCCTAGGCCCTGTTTTT	58.511	39.130	2.96	2.21	0.00	1.94
1331	1417	0.682852	AAACCCAGTGGAATCGTCGA	59.317	50.000	11.95	0.00	34.81	4.20
1345	1431	1.528129	CAGAACTCTGGAGCAAACCC	58.472	55.000	0.00	0.00	40.20	4.11
1362	1448	3.303395	GGCTTCGTCTTTTGAACTCACAG	60.303	47.826	0.00	0.00	0.00	3.66
1368	1454	4.328983	TCGATATGGCTTCGTCTTTTGAAC	59.671	41.667	5.31	0.00	37.82	3.18
1377	1463	1.546476	GATCCCTCGATATGGCTTCGT	59.454	52.381	0.00	0.00	37.82	3.85
1418	1504	4.039609	TGATGATGCATTCTATCGTCAGGT	59.960	41.667	0.00	0.00	42.55	4.00
1581	1695	2.128771	ACCTATGCGCTTCAATGGTT	57.871	45.000	9.73	0.00	32.80	3.67
1667	1781	4.169696	TTATGGACTGCCCCGGCG	62.170	66.667	0.00	0.00	45.51	6.46
2019	2143	3.118112	CCACTATGAGAGATGGGCAACTT	60.118	47.826	0.00	0.00	0.00	2.66
2021	2145	2.435805	TCCACTATGAGAGATGGGCAAC	59.564	50.000	0.00	0.00	32.73	4.17
2196	2323	9.527157	TCCATATCACTTGAAAATCAACCTAAA	57.473	29.630	0.00	0.00	32.21	1.85
2233	2360	2.100197	TCTGGGTTCATCGACGAGAAT	58.900	47.619	3.01	0.00	0.00	2.40
2292	2426	2.151202	ACTGTTACACGATTGCAAGGG	58.849	47.619	4.94	1.22	0.00	3.95
2295	2429	2.946329	ACCAACTGTTACACGATTGCAA	59.054	40.909	0.00	0.00	0.00	4.08
2311	2445	7.728847	ATTTTGCCAGAAAATTAAGACCAAC	57.271	32.000	0.00	0.00	0.00	3.77
2459	2609	5.195940	ACTTACAATGCTATGCAATGGAGT	58.804	37.500	11.53	11.08	42.95	3.85
2461	2611	6.601217	TGTAACTTACAATGCTATGCAATGGA	59.399	34.615	11.53	0.76	42.95	3.41
2462	2612	6.794374	TGTAACTTACAATGCTATGCAATGG	58.206	36.000	11.53	0.92	42.95	3.16
2499	2714	9.049523	GTACAAGATCATTCTATCATGCTTCAA	57.950	33.333	0.00	0.00	29.68	2.69
2524	2743	5.221843	TGTTTGCCCACTCTTACAATCTAGT	60.222	40.000	0.00	0.00	0.00	2.57
2665	3358	7.254455	CGGCGATATTAGAAACAGAGAAAATGT	60.254	37.037	0.00	0.00	0.00	2.71
2674	3367	3.736252	CAGACCGGCGATATTAGAAACAG	59.264	47.826	9.30	0.00	0.00	3.16
2726	3419	1.453155	ACAGCCTAAATGCCGAACAG	58.547	50.000	0.00	0.00	0.00	3.16
2771	3464	7.953005	TTTGCAGATATACCATGGAAGAAAA	57.047	32.000	21.47	4.05	0.00	2.29
2777	3470	6.363882	TCATGTTTTGCAGATATACCATGGA	58.636	36.000	21.47	2.01	31.66	3.41
2790	3483	6.073167	CCAGCACATAATTTTCATGTTTTGCA	60.073	34.615	0.00	0.00	34.39	4.08
2824	3518	1.134280	CCCACACAGAAGCCTCTATGG	60.134	57.143	0.00	0.00	29.70	2.74
2834	3528	0.105194	TGTCTCCCTCCCACACAGAA	60.105	55.000	0.00	0.00	0.00	3.02
2862	3556	8.097038	ACTCTCAATACTCAAGCTAACATTTGA	58.903	33.333	0.00	0.00	32.75	2.69
3017	3737	3.476552	TGCCAAGACCAGAAGTTAACAG	58.523	45.455	8.61	0.00	0.00	3.16

Based at the University of Bristol with support from BBSRC.

AutoCloner maintained by Alex Coulton.