AutoCloner

Multiple sequence alignment - TraesCS5B01G125400

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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	TraesCS5B01G125400	chr5B	100.000	2934	0	0	1	2934	228168946	228171879	0.000000e+00	5419.0
1	TraesCS5B01G125400	chr5B	90.017	591	45	11	1	587	57989708	57990288	0.000000e+00	752.0
2	TraesCS5B01G125400	chrUn	93.892	1932	60	17	585	2482	306016127	306018034	0.000000e+00	2861.0
3	TraesCS5B01G125400	chrUn	95.142	988	24	9	1514	2482	324543453	324544435	0.000000e+00	1537.0
4	TraesCS5B01G125400	chrUn	93.128	713	27	6	585	1294	462098985	462098292	0.000000e+00	1026.0
5	TraesCS5B01G125400	chrUn	87.363	364	17	13	2591	2934	306018666	306019020	9.860000e-105	390.0
6	TraesCS5B01G125400	chrUn	87.363	364	17	13	2591	2934	324545067	324545421	9.860000e-105	390.0
7	TraesCS5B01G125400	chrUn	95.506	89	3	1	2506	2593	306018541	306018629	1.100000e-29	141.0
8	TraesCS5B01G125400	chrUn	95.506	89	3	1	2506	2593	324544942	324545030	1.100000e-29	141.0
9	TraesCS5B01G125400	chr5A	91.829	1799	67	27	585	2338	277967781	277969544	0.000000e+00	2435.0
10	TraesCS5B01G125400	chr5A	95.088	285	10	4	2540	2821	277977834	277978117	2.070000e-121	446.0
11	TraesCS5B01G125400	chr5A	98.000	50	1	0	2885	2934	277978141	277978190	1.450000e-13	87.9
12	TraesCS5B01G125400	chr3B	92.020	589	42	4	1	585	154435209	154434622	0.000000e+00	822.0
13	TraesCS5B01G125400	chr3B	89.848	591	45	14	1	585	819548894	819548313	0.000000e+00	745.0
14	TraesCS5B01G125400	chr3B	89.696	592	46	11	1	585	819547916	819547333	0.000000e+00	741.0
15	TraesCS5B01G125400	chr6B	90.972	576	35	7	1	570	68261756	68262320	0.000000e+00	760.0
16	TraesCS5B01G125400	chr6B	90.186	591	43	9	1	585	279204122	279204703	0.000000e+00	756.0
17	TraesCS5B01G125400	chr6B	88.983	590	53	4	1	587	91206792	91207372	0.000000e+00	719.0
18	TraesCS5B01G125400	chr7B	90.000	590	47	4	1	587	608922978	608922398	0.000000e+00	752.0
19	TraesCS5B01G125400	chr7B	89.112	597	45	12	1	588	406699594	406699009	0.000000e+00	725.0
20	TraesCS5B01G125400	chr1D	85.468	523	36	16	1365	1870	463856818	463857317	2.610000e-140	508.0
21	TraesCS5B01G125400	chr1B	86.957	437	45	8	1365	1792	639004802	639005235	5.690000e-132	481.0
22	TraesCS5B01G125400	chr1A	83.685	521	46	21	1367	1870	555817777	555818275	3.450000e-124	455.0

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	TraesCS5B01G125400	chr5B	228168946	228171879	2933	False	5419.000000	5419	100.000000	1	2934	1	chr5B.!!$F2	2933
1	TraesCS5B01G125400	chr5B	57989708	57990288	580	False	752.000000	752	90.017000	1	587	1	chr5B.!!$F1	586
2	TraesCS5B01G125400	chrUn	306016127	306019020	2893	False	1130.666667	2861	92.253667	585	2934	3	chrUn.!!$F1	2349
3	TraesCS5B01G125400	chrUn	462098292	462098985	693	True	1026.000000	1026	93.128000	585	1294	1	chrUn.!!$R1	709
4	TraesCS5B01G125400	chrUn	324543453	324545421	1968	False	689.333333	1537	92.670333	1514	2934	3	chrUn.!!$F2	1420
5	TraesCS5B01G125400	chr5A	277967781	277969544	1763	False	2435.000000	2435	91.829000	585	2338	1	chr5A.!!$F1	1753
6	TraesCS5B01G125400	chr3B	154434622	154435209	587	True	822.000000	822	92.020000	1	585	1	chr3B.!!$R1	584
7	TraesCS5B01G125400	chr3B	819547333	819548894	1561	True	743.000000	745	89.772000	1	585	2	chr3B.!!$R2	584
8	TraesCS5B01G125400	chr6B	68261756	68262320	564	False	760.000000	760	90.972000	1	570	1	chr6B.!!$F1	569
9	TraesCS5B01G125400	chr6B	279204122	279204703	581	False	756.000000	756	90.186000	1	585	1	chr6B.!!$F3	584
10	TraesCS5B01G125400	chr6B	91206792	91207372	580	False	719.000000	719	88.983000	1	587	1	chr6B.!!$F2	586
11	TraesCS5B01G125400	chr7B	608922398	608922978	580	True	752.000000	752	90.000000	1	587	1	chr7B.!!$R2	586
12	TraesCS5B01G125400	chr7B	406699009	406699594	585	True	725.000000	725	89.112000	1	588	1	chr7B.!!$R1	587

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
963	1967	0.815615	CAGCTAAACCCCAGCGATCC	60.816	60.0	0.0	0.0	43.97	3.36	F

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability	Orientation
2766	4334	0.81361	TGCATGCATGTACCCGTAGC	60.814	55.0	26.79	10.47	0.0	3.58	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
214	1194	1.670590	CTTGGAATGGCCGCCAAAA	59.329	52.632	18.00	7.99	43.09	2.44
271	1251	9.658475	TTGTTGAACTATTTGTTGTATTTCTCG	57.342	29.630	0.00	0.00	39.30	4.04
442	1434	1.345176	GCTCGCACGTGCTACATTC	59.655	57.895	35.27	15.82	39.32	2.67
454	1446	4.334443	GTGCTACATTCTAACGCATTGTG	58.666	43.478	0.00	0.00	32.75	3.33
455	1447	4.000325	TGCTACATTCTAACGCATTGTGT	59.000	39.130	0.00	0.00	0.00	3.72
655	1651	1.242076	GGATGCATATGCCTGACCAC	58.758	55.000	24.54	7.97	41.18	4.16
664	1660	1.199615	TGCCTGACCACGAATCCATA	58.800	50.000	0.00	0.00	0.00	2.74
691	1687	7.330208	CCTTAGAACGGAAGAAAATAAACTCGA	59.670	37.037	0.00	0.00	0.00	4.04
700	1696	7.148623	GGAAGAAAATAAACTCGATGTCGTTCT	60.149	37.037	2.04	0.00	40.80	3.01
759	1763	3.864243	ACGTGTTTACCACTTGTTCTCA	58.136	40.909	0.00	0.00	42.20	3.27
772	1776	2.536066	TGTTCTCATTTCCTCCGAGGA	58.464	47.619	13.54	13.54	44.10	3.71
895	1899	2.258726	GCGGTCAAAGTCACACCCC	61.259	63.158	0.00	0.00	0.00	4.95
902	1906	1.739466	CAAAGTCACACCCCATCATCG	59.261	52.381	0.00	0.00	0.00	3.84
918	1922	1.000827	CATCGTCGATCAGCTTAGCCT	60.001	52.381	4.34	0.00	0.00	4.58
963	1967	0.815615	CAGCTAAACCCCAGCGATCC	60.816	60.000	0.00	0.00	43.97	3.36
979	1983	2.224305	CGATCCATCCTTAACCCCACTC	60.224	54.545	0.00	0.00	0.00	3.51
986	1990	3.589641	TCCTTAACCCCACTCACTTGTA	58.410	45.455	0.00	0.00	0.00	2.41
1009	2013	7.868922	TGTACTCGTCAAACCGCATATATAATT	59.131	33.333	0.00	0.00	0.00	1.40
1015	2019	5.943416	TCAAACCGCATATATAATTCCCCAG	59.057	40.000	0.00	0.00	0.00	4.45
1017	2021	3.214328	CCGCATATATAATTCCCCAGGC	58.786	50.000	0.00	0.00	0.00	4.85
1062	2066	2.820330	CACAACACATCCAACCAAACC	58.180	47.619	0.00	0.00	0.00	3.27
1063	2067	2.430332	CACAACACATCCAACCAAACCT	59.570	45.455	0.00	0.00	0.00	3.50
1064	2068	2.430332	ACAACACATCCAACCAAACCTG	59.570	45.455	0.00	0.00	0.00	4.00
1065	2069	2.692557	CAACACATCCAACCAAACCTGA	59.307	45.455	0.00	0.00	0.00	3.86
1066	2070	2.306847	ACACATCCAACCAAACCTGAC	58.693	47.619	0.00	0.00	0.00	3.51
1278	2282	2.046023	TCCCGCTCGTCGTCCTTA	60.046	61.111	0.00	0.00	36.19	2.69
1345	2349	0.533308	CTCCTCGTACTCCTCCTCCG	60.533	65.000	0.00	0.00	0.00	4.63
1457	2473	1.597027	CGGTTGCGAGGAACAAGGT	60.597	57.895	9.54	0.00	0.00	3.50
1466	2482	1.832167	GGAACAAGGTGGGCAGCAA	60.832	57.895	0.00	0.00	0.00	3.91
1496	2512	3.934684	GCGCGAGAAGATGGCAGC	61.935	66.667	12.10	0.00	31.94	5.25
1498	2514	3.267860	GCGAGAAGATGGCAGCGG	61.268	66.667	0.00	0.00	31.94	5.52
1710	2726	4.070552	GCCTTCGCCGAGGTCTGT	62.071	66.667	0.00	0.00	39.11	3.41
1803	2834	1.524863	CCAGTCGTTCCAGGTCGTCT	61.525	60.000	6.67	4.43	0.00	4.18
1873	2913	2.202878	CCTGGTGTACGCATCCCG	60.203	66.667	8.97	0.00	44.21	5.14
1978	3023	6.481976	CAGTTTTATGTGTGGTCAGTCAGTTA	59.518	38.462	0.00	0.00	0.00	2.24
2012	3057	3.303938	TGATTTGCTGGGTTTCTTTGGA	58.696	40.909	0.00	0.00	0.00	3.53
2030	3075	7.216494	TCTTTGGATGTTTTCCTTCATTTTCC	58.784	34.615	0.00	0.00	45.68	3.13
2146	3191	7.768120	AGGAAGTTAGTTCATTAATCAGCTCAG	59.232	37.037	2.03	0.00	36.82	3.35
2175	3220	6.258160	GCAACTATTTGTGCCATAAGTAGTG	58.742	40.000	9.52	6.21	32.90	2.74
2339	3385	9.884636	TCGGATGTTCTTTTTCTCTTGATTATA	57.115	29.630	0.00	0.00	0.00	0.98
2340	3386	9.922305	CGGATGTTCTTTTTCTCTTGATTATAC	57.078	33.333	0.00	0.00	0.00	1.47
2421	3467	8.356000	CCAAATATTGGTACTCCCTTGTTTAA	57.644	34.615	0.87	0.00	45.93	1.52
2520	4048	1.795768	ACACCACTAACAGTCGCATG	58.204	50.000	0.00	0.00	0.00	4.06
2544	4072	6.094603	TGGAGAAAGAAGAGCTTTGAATATGC	59.905	38.462	0.00	0.00	46.52	3.14
2549	4077	4.643334	AGAAGAGCTTTGAATATGCATGCA	59.357	37.500	25.04	25.04	0.00	3.96
2588	4116	5.047566	TGTTCTTGGACTTTTGATGAGGA	57.952	39.130	0.00	0.00	0.00	3.71
2589	4117	5.065914	TGTTCTTGGACTTTTGATGAGGAG	58.934	41.667	0.00	0.00	0.00	3.69
2605	4173	2.904434	GAGGAGTTAGAAGGTGTTCCCA	59.096	50.000	0.00	0.00	32.48	4.37
2636	4204	1.002430	TGCCTTGAAAGAGTCGAGCAT	59.998	47.619	0.00	0.00	36.51	3.79
2665	4233	4.063967	CCGTCCGTGCAGCTACCA	62.064	66.667	0.00	0.00	0.00	3.25
2703	4271	4.095334	TGACTCAGATTTTTCATCGCCATG	59.905	41.667	0.00	0.00	0.00	3.66
2717	4285	2.702788	CCATGGCGCACATTCAGCA	61.703	57.895	10.83	0.00	37.84	4.41
2759	4327	2.253513	CCGGTGGCAGTGGTTAAAG	58.746	57.895	0.00	0.00	0.00	1.85
2766	4334	4.320935	GGTGGCAGTGGTTAAAGTTATGTG	60.321	45.833	0.00	0.00	0.00	3.21
2815	4383	2.643933	GCAAATGGAAGTGCTTCTCC	57.356	50.000	11.18	0.00	39.45	3.71
2822	4390	0.988063	GAAGTGCTTCTCCCTCCCTT	59.012	55.000	4.80	0.00	36.69	3.95
2823	4391	1.352687	GAAGTGCTTCTCCCTCCCTTT	59.647	52.381	4.80	0.00	36.69	3.11
2827	4395	1.203364	TGCTTCTCCCTCCCTTTCTCT	60.203	52.381	0.00	0.00	0.00	3.10
2829	4397	2.115427	CTTCTCCCTCCCTTTCTCTCC	58.885	57.143	0.00	0.00	0.00	3.71
2831	4399	0.341609	CTCCCTCCCTTTCTCTCCCT	59.658	60.000	0.00	0.00	0.00	4.20
2832	4400	0.800239	TCCCTCCCTTTCTCTCCCTT	59.200	55.000	0.00	0.00	0.00	3.95
2833	4401	1.208706	CCCTCCCTTTCTCTCCCTTC	58.791	60.000	0.00	0.00	0.00	3.46
2835	4403	1.274126	CCTCCCTTTCTCTCCCTTCCT	60.274	57.143	0.00	0.00	0.00	3.36
2836	4404	2.556766	CTCCCTTTCTCTCCCTTCCTT	58.443	52.381	0.00	0.00	0.00	3.36
2838	4406	4.104831	CTCCCTTTCTCTCCCTTCCTTTA	58.895	47.826	0.00	0.00	0.00	1.85
2840	4408	3.847184	CCCTTTCTCTCCCTTCCTTTACT	59.153	47.826	0.00	0.00	0.00	2.24
2841	4409	5.030820	CCCTTTCTCTCCCTTCCTTTACTA	58.969	45.833	0.00	0.00	0.00	1.82
2843	4411	5.394333	CCTTTCTCTCCCTTCCTTTACTACG	60.394	48.000	0.00	0.00	0.00	3.51
2844	4412	4.581309	TCTCTCCCTTCCTTTACTACGA	57.419	45.455	0.00	0.00	0.00	3.43
2845	4413	4.525024	TCTCTCCCTTCCTTTACTACGAG	58.475	47.826	0.00	0.00	0.00	4.18
2846	4414	4.018597	TCTCTCCCTTCCTTTACTACGAGT	60.019	45.833	0.00	0.00	0.00	4.18
2857	4445	6.942576	TCCTTTACTACGAGTAACTAGTGGTT	59.057	38.462	0.00	0.00	40.12	3.67
2859	4447	6.500684	TTACTACGAGTAACTAGTGGTTGG	57.499	41.667	1.52	0.00	35.89	3.77
2873	4461	2.555325	GTGGTTGGGCTACCTTTTGTAC	59.445	50.000	10.00	0.00	39.04	2.90
2874	4462	2.444010	TGGTTGGGCTACCTTTTGTACT	59.556	45.455	10.00	0.00	39.04	2.73
2875	4463	3.651904	TGGTTGGGCTACCTTTTGTACTA	59.348	43.478	10.00	0.00	39.04	1.82
2876	4464	4.259356	GGTTGGGCTACCTTTTGTACTAG	58.741	47.826	0.00	0.00	37.76	2.57
2877	4465	4.263199	GGTTGGGCTACCTTTTGTACTAGT	60.263	45.833	0.00	0.00	37.76	2.57
2878	4466	5.046376	GGTTGGGCTACCTTTTGTACTAGTA	60.046	44.000	0.00	0.00	37.76	1.82
2879	4467	5.927281	TGGGCTACCTTTTGTACTAGTAG	57.073	43.478	1.87	0.00	37.76	2.57
2880	4468	5.336102	TGGGCTACCTTTTGTACTAGTAGT	58.664	41.667	8.14	8.14	37.76	2.73
2881	4469	6.493166	TGGGCTACCTTTTGTACTAGTAGTA	58.507	40.000	5.90	5.90	37.76	1.82
2893	4481	7.294017	TGTACTAGTAGTAAGTTGTTTGGCT	57.706	36.000	11.64	0.00	31.62	4.75
2902	4490	6.872920	AGTAAGTTGTTTGGCTTTTCATGAA	58.127	32.000	3.38	3.38	0.00	2.57

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
38	39	5.822204	AGTGAGAGTAGTCTACATCTTGGT	58.178	41.667	12.54	0.00	30.97	3.67
121	1100	3.428532	GAATGGCATGATAGGAGGCAAT	58.571	45.455	0.00	0.00	41.29	3.56
214	1194	3.581024	AACGCACAAATCATGATGCTT	57.419	38.095	9.46	0.16	35.35	3.91
378	1360	6.153170	TGCATTTTATCTCACAACACATCCAT	59.847	34.615	0.00	0.00	0.00	3.41
430	1422	2.357327	TGCGTTAGAATGTAGCACGT	57.643	45.000	0.00	0.00	33.36	4.49
433	1425	4.000325	ACACAATGCGTTAGAATGTAGCA	59.000	39.130	0.00	0.00	42.28	3.49
437	1429	3.120199	GCTCACACAATGCGTTAGAATGT	60.120	43.478	0.00	0.00	0.00	2.71
442	1434	1.464687	GCAGCTCACACAATGCGTTAG	60.465	52.381	0.00	0.00	0.00	2.34
513	1509	0.170339	GCGTGCCCATTGTTAGGTTC	59.830	55.000	0.00	0.00	0.00	3.62
522	1518	4.356442	GTTTGCGGCGTGCCCATT	62.356	61.111	9.37	0.00	45.60	3.16
591	1587	4.464244	TGCTATGTTACTCTCTTGCTCTGT	59.536	41.667	0.00	0.00	0.00	3.41
655	1651	4.579454	TCCGTTCTAAGGTATGGATTCG	57.421	45.455	0.00	0.00	0.00	3.34
664	1660	7.117379	CGAGTTTATTTTCTTCCGTTCTAAGGT	59.883	37.037	0.00	0.00	0.00	3.50
691	1687	0.390340	ATCAGCGCACAGAACGACAT	60.390	50.000	11.47	0.00	0.00	3.06
700	1696	4.783621	GCCAGGGATCAGCGCACA	62.784	66.667	11.47	0.00	0.00	4.57
895	1899	2.660715	GCTAAGCTGATCGACGATGATG	59.339	50.000	16.49	6.05	0.00	3.07
902	1906	1.269517	CCTGAGGCTAAGCTGATCGAC	60.270	57.143	0.00	0.00	0.00	4.20
933	1937	1.602323	TTTAGCTGGGCCACGTTGG	60.602	57.895	0.00	0.00	41.55	3.77
934	1938	1.579429	GTTTAGCTGGGCCACGTTG	59.421	57.895	0.00	0.00	0.00	4.10
963	1967	3.244911	ACAAGTGAGTGGGGTTAAGGATG	60.245	47.826	0.00	0.00	0.00	3.51
979	1983	1.191647	GCGGTTTGACGAGTACAAGTG	59.808	52.381	0.00	0.00	35.47	3.16
986	1990	6.367969	GGAATTATATATGCGGTTTGACGAGT	59.632	38.462	0.00	0.00	35.47	4.18
1015	2019	4.475135	GGAAGAGAGTGCCGGGCC	62.475	72.222	17.97	8.02	0.00	5.80
1017	2021	0.175989	GTAAGGAAGAGAGTGCCGGG	59.824	60.000	2.18	0.00	0.00	5.73
1062	2066	0.758734	TGTCAGGTCAACCAGGTCAG	59.241	55.000	1.33	0.00	38.89	3.51
1063	2067	1.347707	GATGTCAGGTCAACCAGGTCA	59.652	52.381	1.33	0.00	38.89	4.02
1064	2068	1.673033	CGATGTCAGGTCAACCAGGTC	60.673	57.143	1.33	0.00	38.89	3.85
1065	2069	0.321671	CGATGTCAGGTCAACCAGGT	59.678	55.000	1.33	0.00	38.89	4.00
1066	2070	1.021390	GCGATGTCAGGTCAACCAGG	61.021	60.000	1.33	0.00	38.89	4.45
1278	2282	2.446802	GAGGCGGAGGAGGGGAAT	60.447	66.667	0.00	0.00	0.00	3.01
1345	2349	2.484241	CGGGGTAGTTGGCATAGTTACC	60.484	54.545	0.00	0.00	34.40	2.85
1457	2473	3.490031	TTCTTCGCCTTGCTGCCCA	62.490	57.895	0.00	0.00	0.00	5.36
1466	2482	4.803426	CGCGCCTCTTCTTCGCCT	62.803	66.667	0.00	0.00	45.34	5.52
1498	2514	4.821589	CTCTTCCACCTCGGCCGC	62.822	72.222	23.51	0.00	33.14	6.53
1508	2524	0.323542	GACGTCCTCCTCCTCTTCCA	60.324	60.000	3.51	0.00	0.00	3.53
1509	2525	1.378124	CGACGTCCTCCTCCTCTTCC	61.378	65.000	10.58	0.00	0.00	3.46
1512	2528	2.272797	CCGACGTCCTCCTCCTCT	59.727	66.667	10.58	0.00	0.00	3.69
1873	2913	2.582978	GGTAACCTCGCCCAGACC	59.417	66.667	0.00	0.00	0.00	3.85
1978	3023	4.118410	CAGCAAATCAGAGCTAGACGAAT	58.882	43.478	0.00	0.00	39.50	3.34
2012	3057	4.280677	TGAGCGGAAAATGAAGGAAAACAT	59.719	37.500	0.00	0.00	0.00	2.71
2146	3191	2.442413	TGGCACAAATAGTTGCCTACC	58.558	47.619	13.48	2.97	41.81	3.18
2339	3385	5.359009	TGCGCTTGGACTAGTAATAAGTAGT	59.641	40.000	9.73	0.00	43.25	2.73
2340	3386	5.828747	TGCGCTTGGACTAGTAATAAGTAG	58.171	41.667	9.73	1.87	35.14	2.57
2341	3387	5.840243	TGCGCTTGGACTAGTAATAAGTA	57.160	39.130	9.73	0.00	0.00	2.24
2491	3537	7.478322	CGACTGTTAGTGGTGTACTATATGTT	58.522	38.462	0.00	0.00	41.36	2.71
2492	3538	6.459298	GCGACTGTTAGTGGTGTACTATATGT	60.459	42.308	0.00	0.00	41.36	2.29
2494	3540	5.591472	TGCGACTGTTAGTGGTGTACTATAT	59.409	40.000	0.00	0.00	41.36	0.86
2495	3541	4.943093	TGCGACTGTTAGTGGTGTACTATA	59.057	41.667	0.00	0.00	41.36	1.31
2497	3543	3.148412	TGCGACTGTTAGTGGTGTACTA	58.852	45.455	0.00	0.00	40.89	1.82
2498	3544	1.958579	TGCGACTGTTAGTGGTGTACT	59.041	47.619	0.00	0.00	43.56	2.73
2499	3545	2.427232	TGCGACTGTTAGTGGTGTAC	57.573	50.000	0.00	0.00	0.00	2.90
2502	3548	1.078709	CCATGCGACTGTTAGTGGTG	58.921	55.000	0.00	0.00	0.00	4.17
2503	3549	0.973632	TCCATGCGACTGTTAGTGGT	59.026	50.000	0.00	0.00	0.00	4.16
2504	3550	1.204704	TCTCCATGCGACTGTTAGTGG	59.795	52.381	0.00	0.00	0.00	4.00
2520	4048	6.094603	TGCATATTCAAAGCTCTTCTTTCTCC	59.905	38.462	0.00	0.00	42.82	3.71
2588	4116	4.232091	TCTCTTGGGAACACCTTCTAACT	58.768	43.478	0.00	0.00	42.67	2.24
2589	4117	4.570930	CTCTCTTGGGAACACCTTCTAAC	58.429	47.826	0.00	0.00	42.67	2.34
2605	4173	4.210331	TCTTTCAAGGCAAAAGCTCTCTT	58.790	39.130	0.00	0.00	34.43	2.85
2703	4271	2.581409	GCATGCTGAATGTGCGCC	60.581	61.111	11.37	0.00	38.65	6.53
2759	4327	2.542595	GCATGTACCCGTAGCACATAAC	59.457	50.000	0.00	0.00	31.81	1.89
2766	4334	0.813610	TGCATGCATGTACCCGTAGC	60.814	55.000	26.79	10.47	0.00	3.58
2814	4382	1.208706	GAAGGGAGAGAAAGGGAGGG	58.791	60.000	0.00	0.00	0.00	4.30
2815	4383	1.208706	GGAAGGGAGAGAAAGGGAGG	58.791	60.000	0.00	0.00	0.00	4.30
2822	4390	4.927049	TCGTAGTAAAGGAAGGGAGAGAA	58.073	43.478	0.00	0.00	0.00	2.87
2823	4391	4.018597	ACTCGTAGTAAAGGAAGGGAGAGA	60.019	45.833	0.00	0.00	0.00	3.10
2827	4395	5.574188	AGTTACTCGTAGTAAAGGAAGGGA	58.426	41.667	8.43	0.00	41.80	4.20
2829	4397	7.414984	CCACTAGTTACTCGTAGTAAAGGAAGG	60.415	44.444	0.00	6.05	41.80	3.46
2831	4399	6.942576	ACCACTAGTTACTCGTAGTAAAGGAA	59.057	38.462	0.00	0.00	41.80	3.36
2832	4400	6.476378	ACCACTAGTTACTCGTAGTAAAGGA	58.524	40.000	0.00	0.00	41.80	3.36
2833	4401	6.749923	ACCACTAGTTACTCGTAGTAAAGG	57.250	41.667	0.00	8.35	41.80	3.11
2835	4403	6.071952	CCCAACCACTAGTTACTCGTAGTAAA	60.072	42.308	0.00	0.00	41.80	2.01
2836	4404	5.415701	CCCAACCACTAGTTACTCGTAGTAA	59.584	44.000	0.00	4.12	38.28	2.24
2838	4406	3.760684	CCCAACCACTAGTTACTCGTAGT	59.239	47.826	0.00	0.00	36.18	2.73
2840	4408	2.493278	GCCCAACCACTAGTTACTCGTA	59.507	50.000	0.00	0.00	36.18	3.43
2841	4409	1.274447	GCCCAACCACTAGTTACTCGT	59.726	52.381	0.00	0.00	36.18	4.18
2843	4411	3.118847	GGTAGCCCAACCACTAGTTACTC	60.119	52.174	0.00	0.00	39.50	2.59
2844	4412	2.836372	GGTAGCCCAACCACTAGTTACT	59.164	50.000	0.00	0.00	39.50	2.24
2845	4413	2.836372	AGGTAGCCCAACCACTAGTTAC	59.164	50.000	0.00	0.00	42.40	2.50
2846	4414	3.194904	AGGTAGCCCAACCACTAGTTA	57.805	47.619	0.00	0.00	42.40	2.24
2857	4445	5.336102	ACTACTAGTACAAAAGGTAGCCCA	58.664	41.667	0.00	0.00	34.86	5.36
2859	4447	8.060931	ACTTACTACTAGTACAAAAGGTAGCC	57.939	38.462	0.00	0.00	34.86	3.93
2873	4461	8.149973	TGAAAAGCCAAACAACTTACTACTAG	57.850	34.615	0.00	0.00	0.00	2.57
2874	4462	8.564574	CATGAAAAGCCAAACAACTTACTACTA	58.435	33.333	0.00	0.00	0.00	1.82
2875	4463	7.284489	TCATGAAAAGCCAAACAACTTACTACT	59.716	33.333	0.00	0.00	0.00	2.57
2876	4464	7.422399	TCATGAAAAGCCAAACAACTTACTAC	58.578	34.615	0.00	0.00	0.00	2.73
2877	4465	7.575414	TCATGAAAAGCCAAACAACTTACTA	57.425	32.000	0.00	0.00	0.00	1.82
2878	4466	6.463995	TCATGAAAAGCCAAACAACTTACT	57.536	33.333	0.00	0.00	0.00	2.24
2879	4467	6.292328	GCTTCATGAAAAGCCAAACAACTTAC	60.292	38.462	9.88	0.00	44.75	2.34
2880	4468	5.752955	GCTTCATGAAAAGCCAAACAACTTA	59.247	36.000	9.88	0.00	44.75	2.24
2881	4469	4.571984	GCTTCATGAAAAGCCAAACAACTT	59.428	37.500	9.88	0.00	44.75	2.66

Based at the University of Bristol with support from BBSRC.

AutoCloner maintained by Alex Coulton.