AutoCloner

Multiple sequence alignment - TraesCS2A01G419400

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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	TraesCS2A01G419400	chr2A	100.000	5704	0	0	1	5704	675074742	675080445	0.000000e+00	10534
1	TraesCS2A01G419400	chr2A	97.734	353	8	0	5352	5704	675746897	675747249	4.890000e-170	608
2	TraesCS2A01G419400	chr2A	79.457	589	60	27	4155	4701	675745335	675745904	1.510000e-95	361
3	TraesCS2A01G419400	chr2D	96.296	3915	88	13	910	4773	530254372	530258280	0.000000e+00	6373
4	TraesCS2A01G419400	chr2D	93.982	914	54	1	1	914	530197807	530198719	0.000000e+00	1382
5	TraesCS2A01G419400	chr2D	95.931	639	20	3	5066	5704	530258711	530259343	0.000000e+00	1031
6	TraesCS2A01G419400	chr2D	81.882	861	138	12	17	871	616212985	616212137	0.000000e+00	710
7	TraesCS2A01G419400	chr2D	80.207	869	154	15	13	873	558514183	558515041	2.240000e-178	636
8	TraesCS2A01G419400	chr2D	97.167	353	10	0	5352	5704	531263041	531263393	1.060000e-166	597
9	TraesCS2A01G419400	chr2D	94.087	389	11	4	4812	5190	530258404	530258790	1.070000e-161	580
10	TraesCS2A01G419400	chr2D	85.044	341	31	9	4155	4488	531259393	531259720	4.260000e-86	329
11	TraesCS2A01G419400	chr2D	76.172	256	24	21	5066	5316	531262746	531262969	3.640000e-17	100
12	TraesCS2A01G419400	chr2B	96.919	3538	80	4	964	4472	630131275	630134812	0.000000e+00	5903
13	TraesCS2A01G419400	chr2B	94.530	914	50	0	1	914	630106321	630107234	0.000000e+00	1411
14	TraesCS2A01G419400	chr2B	89.855	897	42	10	4825	5703	630135352	630136217	0.000000e+00	1107
15	TraesCS2A01G419400	chr2B	80.710	845	145	11	17	856	750060758	750059927	4.820000e-180	641
16	TraesCS2A01G419400	chr2B	96.516	287	6	1	4491	4773	630134955	630135241	6.690000e-129	472
17	TraesCS2A01G419400	chr2B	90.698	344	32	0	5361	5704	631101849	631102192	5.210000e-125	459
18	TraesCS2A01G419400	chr2B	81.086	608	59	27	4128	4701	631100458	631101043	8.780000e-118	435
19	TraesCS2A01G419400	chr2B	76.680	253	32	16	5066	5316	631101550	631101777	1.300000e-21	115
20	TraesCS2A01G419400	chr5A	83.294	844	136	4	13	854	292797881	292798721	0.000000e+00	773
21	TraesCS2A01G419400	chr5B	83.801	784	122	5	17	797	308995714	308996495	0.000000e+00	739
22	TraesCS2A01G419400	chr1D	83.003	706	109	11	154	852	127501653	127500952	3.750000e-176	628
23	TraesCS2A01G419400	chr7D	80.946	761	134	8	117	873	176557865	176557112	4.920000e-165	592
24	TraesCS2A01G419400	chr7B	78.435	626	105	19	28	645	718520953	718521556	1.160000e-101	381
25	TraesCS2A01G419400	chr4A	82.819	454	48	13	4291	4723	551215028	551215472	4.170000e-101	379
26	TraesCS2A01G419400	chr4D	82.781	453	49	13	4291	4723	47289079	47288636	1.500000e-100	377
27	TraesCS2A01G419400	chr4B	84.076	157	15	6	4336	4492	68670605	68670459	5.960000e-30	143
28	TraesCS2A01G419400	chr3B	86.667	120	9	3	5466	5579	732058593	732058711	6.000000e-25	126

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	TraesCS2A01G419400	chr2A	675074742	675080445	5703	False	10534.000000	10534	100.000000	1	5704	1	chr2A.!!$F1	5703
1	TraesCS2A01G419400	chr2A	675745335	675747249	1914	False	484.500000	608	88.595500	4155	5704	2	chr2A.!!$F2	1549
2	TraesCS2A01G419400	chr2D	530254372	530259343	4971	False	2661.333333	6373	95.438000	910	5704	3	chr2D.!!$F3	4794
3	TraesCS2A01G419400	chr2D	530197807	530198719	912	False	1382.000000	1382	93.982000	1	914	1	chr2D.!!$F1	913
4	TraesCS2A01G419400	chr2D	616212137	616212985	848	True	710.000000	710	81.882000	17	871	1	chr2D.!!$R1	854
5	TraesCS2A01G419400	chr2D	558514183	558515041	858	False	636.000000	636	80.207000	13	873	1	chr2D.!!$F2	860
6	TraesCS2A01G419400	chr2D	531259393	531263393	4000	False	342.000000	597	86.127667	4155	5704	3	chr2D.!!$F4	1549
7	TraesCS2A01G419400	chr2B	630131275	630136217	4942	False	2494.000000	5903	94.430000	964	5703	3	chr2B.!!$F2	4739
8	TraesCS2A01G419400	chr2B	630106321	630107234	913	False	1411.000000	1411	94.530000	1	914	1	chr2B.!!$F1	913
9	TraesCS2A01G419400	chr2B	750059927	750060758	831	True	641.000000	641	80.710000	17	856	1	chr2B.!!$R1	839
10	TraesCS2A01G419400	chr2B	631100458	631102192	1734	False	336.333333	459	82.821333	4128	5704	3	chr2B.!!$F3	1576
11	TraesCS2A01G419400	chr5A	292797881	292798721	840	False	773.000000	773	83.294000	13	854	1	chr5A.!!$F1	841
12	TraesCS2A01G419400	chr5B	308995714	308996495	781	False	739.000000	739	83.801000	17	797	1	chr5B.!!$F1	780
13	TraesCS2A01G419400	chr1D	127500952	127501653	701	True	628.000000	628	83.003000	154	852	1	chr1D.!!$R1	698
14	TraesCS2A01G419400	chr7D	176557112	176557865	753	True	592.000000	592	80.946000	117	873	1	chr7D.!!$R1	756
15	TraesCS2A01G419400	chr7B	718520953	718521556	603	False	381.000000	381	78.435000	28	645	1	chr7B.!!$F1	617

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
932	945	0.246635	ATAGTCTTTGGCGCACGTCT	59.753	50.000	10.83	1.92	0.00	4.18	F
933	946	0.666274	TAGTCTTTGGCGCACGTCTG	60.666	55.000	10.83	0.00	0.00	3.51	F
2759	2818	1.064017	TGTGGGAAACAGCCAAAGACT	60.064	47.619	0.00	0.00	33.78	3.24	F

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability	Orientation
2397	2456	4.273480	CCCTGCGTTCATATCTTTTGTAGG	59.727	45.833	0.00	0.00	0.00	3.18	R
3130	3189	6.558488	AAGGAGATAGCTCTTTCTCACAAT	57.442	37.500	17.93	3.94	35.79	2.71	R
4793	5079	0.889186	ATGGTTGACAGGTTGCGGTC	60.889	55.000	0.00	0.00	34.63	4.79	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
56	57	2.024590	GACCGGGGTCCATAGGTTCG	62.025	65.000	6.32	0.00	39.08	3.95
59	60	1.146263	GGGGTCCATAGGTTCGCTG	59.854	63.158	0.00	0.00	0.00	5.18
113	114	5.008811	TGGTAAACGAACTACATTTGGGTTG	59.991	40.000	0.00	0.00	0.00	3.77
224	226	8.150827	TCCCAATGCATCTATAGCTAATACTT	57.849	34.615	0.00	0.00	0.00	2.24
406	412	3.706086	ACAAGCATTTTCCACTTCCTGTT	59.294	39.130	0.00	0.00	0.00	3.16
411	417	4.518970	GCATTTTCCACTTCCTGTTACTGA	59.481	41.667	0.00	0.00	0.00	3.41
416	422	7.739498	TTTCCACTTCCTGTTACTGAATTAC	57.261	36.000	0.00	0.00	0.00	1.89
567	578	9.093458	ACCAAATAGATCTCAAAAAGGTTCATT	57.907	29.630	0.00	0.00	0.00	2.57
653	664	6.484288	TCAAATGGATCACAATCTTGTAGGT	58.516	36.000	0.00	0.00	39.91	3.08
727	739	4.910458	ACTGCTACAAACCCATAGTCTT	57.090	40.909	0.00	0.00	0.00	3.01
745	757	9.877178	CATAGTCTTAAGGAAACTACTCACAAT	57.123	33.333	1.85	0.00	42.68	2.71
756	768	7.148407	GGAAACTACTCACAATCGATCATGTTT	60.148	37.037	0.00	2.66	0.00	2.83
772	784	4.583907	TCATGTTTGCCTTCAAGTTGATGA	59.416	37.500	17.88	7.87	33.12	2.92
914	927	5.456763	GGGTTTCAGGAGTATATGAAGGCAT	60.457	44.000	0.00	0.00	36.81	4.40
915	928	6.239887	GGGTTTCAGGAGTATATGAAGGCATA	60.240	42.308	0.00	0.00	41.00	3.14
916	929	6.876257	GGTTTCAGGAGTATATGAAGGCATAG	59.124	42.308	0.00	0.00	40.14	2.23
917	930	7.445945	GTTTCAGGAGTATATGAAGGCATAGT	58.554	38.462	0.00	0.00	40.14	2.12
918	931	6.842437	TCAGGAGTATATGAAGGCATAGTC	57.158	41.667	0.00	0.00	40.14	2.59
919	932	6.556639	TCAGGAGTATATGAAGGCATAGTCT	58.443	40.000	0.00	0.00	40.14	3.24
920	933	7.013220	TCAGGAGTATATGAAGGCATAGTCTT	58.987	38.462	0.00	0.00	40.14	3.01
921	934	7.510685	TCAGGAGTATATGAAGGCATAGTCTTT	59.489	37.037	0.00	0.00	40.14	2.52
922	935	7.601886	CAGGAGTATATGAAGGCATAGTCTTTG	59.398	40.741	0.00	0.00	40.14	2.77
923	936	6.876257	GGAGTATATGAAGGCATAGTCTTTGG	59.124	42.308	0.00	0.00	40.14	3.28
924	937	6.234177	AGTATATGAAGGCATAGTCTTTGGC	58.766	40.000	8.55	8.55	40.14	4.52
925	938	1.737838	TGAAGGCATAGTCTTTGGCG	58.262	50.000	10.47	0.00	43.84	5.69
926	939	0.378610	GAAGGCATAGTCTTTGGCGC	59.621	55.000	0.00	0.00	43.84	6.53
927	940	0.322456	AAGGCATAGTCTTTGGCGCA	60.322	50.000	10.83	0.00	43.84	6.09
928	941	1.026718	AGGCATAGTCTTTGGCGCAC	61.027	55.000	10.83	0.00	43.84	5.34
929	942	1.060937	GCATAGTCTTTGGCGCACG	59.939	57.895	10.83	0.00	0.00	5.34
930	943	1.635663	GCATAGTCTTTGGCGCACGT	61.636	55.000	10.83	0.00	0.00	4.49
931	944	0.370273	CATAGTCTTTGGCGCACGTC	59.630	55.000	10.83	0.00	0.00	4.34
932	945	0.246635	ATAGTCTTTGGCGCACGTCT	59.753	50.000	10.83	1.92	0.00	4.18
933	946	0.666274	TAGTCTTTGGCGCACGTCTG	60.666	55.000	10.83	0.00	0.00	3.51
934	947	2.108157	TCTTTGGCGCACGTCTGT	59.892	55.556	10.83	0.00	0.00	3.41
942	955	2.264813	GGCGCACGTCTGTTCTATAAA	58.735	47.619	10.83	0.00	0.00	1.40
945	958	3.000971	GCGCACGTCTGTTCTATAAAGAC	60.001	47.826	0.30	0.00	37.55	3.01
972	985	6.094881	ACTTTGATTATGTACCAACAATCCCG	59.905	38.462	0.00	0.00	39.58	5.14
1840	1896	7.287061	TGTTTGAGTTTCTAGATCAGGGAAAA	58.713	34.615	0.00	0.00	32.00	2.29
1845	1901	8.772250	TGAGTTTCTAGATCAGGGAAAATATGT	58.228	33.333	0.00	0.00	32.00	2.29
2397	2456	4.636206	ACAAGAATTATCTTCGGACCAAGC	59.364	41.667	0.00	0.00	44.11	4.01
2639	2698	5.709966	CCACTAGCTTTGTTTTTGGGTATC	58.290	41.667	0.00	0.00	0.00	2.24
2759	2818	1.064017	TGTGGGAAACAGCCAAAGACT	60.064	47.619	0.00	0.00	33.78	3.24
2773	2832	6.149973	CAGCCAAAGACTATTTTGACAGATCA	59.850	38.462	0.00	0.00	39.79	2.92
3130	3189	6.772716	GGCATAAGGATGAAAGAATACTTGGA	59.227	38.462	0.00	0.00	32.74	3.53
3532	3591	5.492524	TGAAGAATGTTAAAGAGATCCCCCT	59.507	40.000	0.00	0.00	0.00	4.79
3591	3650	2.122783	GGGGACCGTTCATGAAATCA	57.877	50.000	10.35	0.00	40.86	2.57
3768	3827	4.101942	TGAACGAACTTTGCAATCAACAC	58.898	39.130	0.00	0.00	30.75	3.32
3839	3898	7.993183	ACTCGTATGGTTCAAAATGATTATCCT	59.007	33.333	0.00	0.00	0.00	3.24
3854	3913	6.467677	TGATTATCCTCTTGGTAATAGCAGC	58.532	40.000	0.00	0.00	34.23	5.25
3858	3917	2.131183	CTCTTGGTAATAGCAGCGAGC	58.869	52.381	7.53	0.00	46.19	5.03
3872	3931	2.103373	AGCGAGCCTCAGAAATCTACA	58.897	47.619	0.00	0.00	0.00	2.74
3958	4017	3.845781	AAGAAAAGGTGTCTCTGCAGA	57.154	42.857	17.19	17.19	0.00	4.26
3961	4020	4.070716	AGAAAAGGTGTCTCTGCAGATTG	58.929	43.478	18.63	6.76	0.00	2.67
4282	4344	5.895928	TCGTGACAATTTGAACCATTTTGA	58.104	33.333	2.79	0.00	0.00	2.69
4512	4707	6.872020	TCACCACTTAATGAAGTAGTAGTTGC	59.128	38.462	0.00	0.00	44.39	4.17
4704	4923	2.076863	CGGTGTGGGATTTTCTCTGAC	58.923	52.381	0.00	0.00	0.00	3.51
4768	4999	3.050275	GCCTGACCGCAACCTGTC	61.050	66.667	0.00	0.00	0.00	3.51
4769	5000	2.425592	CCTGACCGCAACCTGTCA	59.574	61.111	0.00	0.00	39.08	3.58
4775	5061	2.281070	CGCAACCTGTCAGCCACT	60.281	61.111	0.00	0.00	0.00	4.00
4792	5078	3.431233	GCCACTAGGTTTGAAGAACGTAC	59.569	47.826	0.00	0.00	37.19	3.67
4793	5079	3.671928	CCACTAGGTTTGAAGAACGTACG	59.328	47.826	15.01	15.01	0.00	3.67
4797	5083	1.453148	GGTTTGAAGAACGTACGACCG	59.547	52.381	24.41	0.00	0.00	4.79
4799	5085	0.030504	TTGAAGAACGTACGACCGCA	59.969	50.000	24.41	12.80	0.00	5.69
4802	5088	0.940991	AAGAACGTACGACCGCAACC	60.941	55.000	24.41	1.48	0.00	3.77
4803	5089	1.372128	GAACGTACGACCGCAACCT	60.372	57.895	24.41	0.00	0.00	3.50
4804	5090	1.611592	GAACGTACGACCGCAACCTG	61.612	60.000	24.41	0.00	0.00	4.00
4805	5091	2.049802	CGTACGACCGCAACCTGT	60.050	61.111	10.44	0.00	0.00	4.00
4806	5092	2.084681	CGTACGACCGCAACCTGTC	61.085	63.158	10.44	0.00	0.00	3.51
4807	5093	1.007038	GTACGACCGCAACCTGTCA	60.007	57.895	0.00	0.00	0.00	3.58
4808	5094	0.598158	GTACGACCGCAACCTGTCAA	60.598	55.000	0.00	0.00	0.00	3.18
4813	5099	0.889186	ACCGCAACCTGTCAACCATC	60.889	55.000	0.00	0.00	0.00	3.51
5077	7697	5.695851	AGAATGAGTTTGTAACAAGCCAG	57.304	39.130	0.00	0.00	0.00	4.85
5163	7786	0.109735	GCAAAGCCGTAAGAGCCAAC	60.110	55.000	0.00	0.00	43.02	3.77
5171	7794	1.719780	CGTAAGAGCCAACTTGACGAC	59.280	52.381	0.00	0.00	43.02	4.34
5367	8138	2.436109	GCCTGGAACTGCAGGGAA	59.564	61.111	19.93	0.00	38.95	3.97
5368	8139	1.000396	GCCTGGAACTGCAGGGAAT	60.000	57.895	19.93	0.44	38.95	3.01

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
14	15	8.130469	GGTCCATTTTCTTCGTGTAAAACTTTA	58.870	33.333	0.00	0.00	0.00	1.85
56	57	4.465886	TCTTATAGAGAGAGACCACCAGC	58.534	47.826	0.00	0.00	0.00	4.85
59	60	7.171630	TGTTTTCTTATAGAGAGAGACCACC	57.828	40.000	0.00	0.00	35.37	4.61
224	226	0.616395	TGGATAGCGGTCTTGGGTGA	60.616	55.000	0.00	0.00	0.00	4.02
406	412	8.511321	CAACCTTGCAAGTAATGTAATTCAGTA	58.489	33.333	24.35	0.00	37.87	2.74
411	417	7.151976	GGTTCAACCTTGCAAGTAATGTAATT	58.848	34.615	24.35	3.70	36.28	1.40
416	422	3.320541	TGGGTTCAACCTTGCAAGTAATG	59.679	43.478	24.35	18.51	38.64	1.90
727	739	7.165460	TGATCGATTGTGAGTAGTTTCCTTA	57.835	36.000	0.00	0.00	0.00	2.69
745	757	3.411446	ACTTGAAGGCAAACATGATCGA	58.589	40.909	0.00	0.00	32.73	3.59
772	784	0.400213	TTCTTCACGGTGGCCATCTT	59.600	50.000	15.59	0.26	0.00	2.40
914	927	0.666274	CAGACGTGCGCCAAAGACTA	60.666	55.000	4.18	0.00	0.00	2.59
915	928	1.956170	CAGACGTGCGCCAAAGACT	60.956	57.895	4.18	0.00	0.00	3.24
916	929	1.772063	AACAGACGTGCGCCAAAGAC	61.772	55.000	4.18	0.00	0.00	3.01
917	930	1.495584	GAACAGACGTGCGCCAAAGA	61.496	55.000	4.18	0.00	0.00	2.52
918	931	1.082756	GAACAGACGTGCGCCAAAG	60.083	57.895	4.18	0.00	0.00	2.77
919	932	0.249531	TAGAACAGACGTGCGCCAAA	60.250	50.000	4.18	0.00	0.00	3.28
920	933	0.037697	ATAGAACAGACGTGCGCCAA	60.038	50.000	4.18	0.00	0.00	4.52
921	934	0.812549	TATAGAACAGACGTGCGCCA	59.187	50.000	4.18	0.00	0.00	5.69
922	935	1.917273	TTATAGAACAGACGTGCGCC	58.083	50.000	4.18	0.00	0.00	6.53
923	936	3.000971	GTCTTTATAGAACAGACGTGCGC	60.001	47.826	0.00	0.00	30.65	6.09
924	937	4.413087	AGTCTTTATAGAACAGACGTGCG	58.587	43.478	0.00	0.00	41.64	5.34
925	938	6.553524	AGTAGTCTTTATAGAACAGACGTGC	58.446	40.000	0.00	0.00	41.64	5.34
926	939	8.851416	CAAAGTAGTCTTTATAGAACAGACGTG	58.149	37.037	0.00	0.00	41.31	4.49
927	940	8.790718	TCAAAGTAGTCTTTATAGAACAGACGT	58.209	33.333	0.00	0.00	41.31	4.34
928	941	9.790389	ATCAAAGTAGTCTTTATAGAACAGACG	57.210	33.333	6.72	0.00	41.31	4.18
942	955	9.959721	ATTGTTGGTACATAATCAAAGTAGTCT	57.040	29.630	0.00	0.00	39.30	3.24
945	958	8.621286	GGGATTGTTGGTACATAATCAAAGTAG	58.379	37.037	0.00	0.00	41.17	2.57
955	968	5.360649	TCATTCGGGATTGTTGGTACATA	57.639	39.130	0.00	0.00	39.30	2.29
972	985	2.986479	GCGTCCACAAAACCATTCATTC	59.014	45.455	0.00	0.00	0.00	2.67
1043	1056	2.391724	TTTCAGTGTCCCCGACCAGC	62.392	60.000	0.00	0.00	0.00	4.85
1050	1063	0.037734	ACCCGAATTTCAGTGTCCCC	59.962	55.000	0.00	0.00	0.00	4.81
1335	1350	2.707849	GGCGGCGGAAGTCTCTACA	61.708	63.158	9.78	0.00	0.00	2.74
1576	1592	4.389374	AGTAAGTTGACAACCATGACCTG	58.611	43.478	14.72	0.00	0.00	4.00
1840	1896	8.946085	CGATTATATAAACAAGCACCCACATAT	58.054	33.333	0.00	0.00	0.00	1.78
1845	1901	7.633193	AAACGATTATATAAACAAGCACCCA	57.367	32.000	0.00	0.00	0.00	4.51
1877	1936	7.170393	ACAAGCACGCCTATATAATCTCATA	57.830	36.000	0.00	0.00	0.00	2.15
2397	2456	4.273480	CCCTGCGTTCATATCTTTTGTAGG	59.727	45.833	0.00	0.00	0.00	3.18
3130	3189	6.558488	AAGGAGATAGCTCTTTCTCACAAT	57.442	37.500	17.93	3.94	35.79	2.71
3169	3228	5.221342	TGTCTCCTCTTCTCAACTGAACTTC	60.221	44.000	0.00	0.00	0.00	3.01
3591	3650	6.976934	ATGACTGTCAAAACTAAACCCATT	57.023	33.333	15.31	0.00	0.00	3.16
3768	3827	4.753233	ACAACAGATGACTTAGCAGCTAG	58.247	43.478	1.49	0.08	31.84	3.42
3839	3898	1.202533	GGCTCGCTGCTATTACCAAGA	60.203	52.381	0.00	0.00	42.39	3.02
3854	3913	2.690497	TCCTGTAGATTTCTGAGGCTCG	59.310	50.000	10.42	5.04	30.88	5.03
3858	3917	6.940739	TCTTCTTTCCTGTAGATTTCTGAGG	58.059	40.000	0.00	0.00	0.00	3.86
3872	3931	7.309770	AGTAACTTCACTCATCTTCTTTCCT	57.690	36.000	0.00	0.00	0.00	3.36
4282	4344	5.624159	TCAAGAGATGAACACAAACCTGAT	58.376	37.500	0.00	0.00	34.30	2.90
4321	4383	7.492669	CACAAGAACCTGATAACTAATCGACAT	59.507	37.037	0.00	0.00	37.42	3.06
4405	4476	3.469739	TCACTTGGGTTTCGGTTAGTTC	58.530	45.455	0.00	0.00	0.00	3.01
4512	4707	5.073311	TGAGTCCGGACTTCAGAATTTAG	57.927	43.478	36.55	0.00	42.66	1.85
4704	4923	3.305964	ACAAGTGATGTGAAGTCGTACG	58.694	45.455	9.53	9.53	41.93	3.67
4768	4999	2.480419	CGTTCTTCAAACCTAGTGGCTG	59.520	50.000	0.00	0.00	36.63	4.85
4769	5000	2.104281	ACGTTCTTCAAACCTAGTGGCT	59.896	45.455	0.00	0.00	36.63	4.75
4775	5061	3.609175	CGGTCGTACGTTCTTCAAACCTA	60.609	47.826	16.05	0.00	0.00	3.08
4792	5078	2.604174	GGTTGACAGGTTGCGGTCG	61.604	63.158	0.00	0.00	36.83	4.79
4793	5079	0.889186	ATGGTTGACAGGTTGCGGTC	60.889	55.000	0.00	0.00	34.63	4.79
4797	5083	1.609208	AGTGATGGTTGACAGGTTGC	58.391	50.000	0.00	0.00	0.00	4.17
4799	5085	3.244875	TGCATAGTGATGGTTGACAGGTT	60.245	43.478	0.00	0.00	33.26	3.50
4802	5088	3.603532	ACTGCATAGTGATGGTTGACAG	58.396	45.455	0.00	0.00	35.34	3.51
4803	5089	3.701205	ACTGCATAGTGATGGTTGACA	57.299	42.857	0.00	0.00	35.34	3.58
4804	5090	4.759782	ACTACTGCATAGTGATGGTTGAC	58.240	43.478	7.69	0.00	42.90	3.18
4995	7613	8.148807	TGTGAATCAACAAAGAATAGTTTCGA	57.851	30.769	0.00	0.00	36.93	3.71
5077	7697	0.457853	TCTGTACATGCTCGCCGAAC	60.458	55.000	0.00	0.00	0.00	3.95
5113	7734	1.331447	CATGCTCGCCGAATTGATTCA	59.669	47.619	4.75	0.00	36.61	2.57
5163	7786	3.059868	GTGTTGTGTACATGGTCGTCAAG	60.060	47.826	0.00	0.00	39.39	3.02
5171	7794	1.536766	CCTGCTGTGTTGTGTACATGG	59.463	52.381	0.00	0.00	39.39	3.66
5367	8138	1.781786	ACTACGACAGCAGGATGGAT	58.218	50.000	0.00	0.00	35.86	3.41
5368	8139	2.298610	CTACTACGACAGCAGGATGGA	58.701	52.381	0.00	0.00	35.86	3.41

Based at the University of Bristol with support from BBSRC.

AutoCloner maintained by Alex Coulton.