AutoCloner

Multiple sequence alignment - TraesCS6D01G085100

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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	TraesCS6D01G085100	chr6D	100.000	3743	0	0	1	3743	50670957	50674699	0.000000e+00	6913.0
1	TraesCS6D01G085100	chr6B	91.714	3355	140	61	7	3273	120805362	120802058	0.000000e+00	4529.0
2	TraesCS6D01G085100	chr6B	90.701	2054	141	31	880	2920	10926141	10928157	0.000000e+00	2689.0
3	TraesCS6D01G085100	chr6B	84.392	551	49	19	3108	3647	120801599	120801075	1.200000e-139	507.0
4	TraesCS6D01G085100	chr6B	80.435	92	16	2	2224	2314	11577599	11577689	6.710000e-08	69.4
5	TraesCS6D01G085100	chr6A	93.545	2231	96	24	571	2761	64507609	64505387	0.000000e+00	3278.0
6	TraesCS6D01G085100	chr6A	84.181	885	78	29	2891	3743	64504982	64504128	0.000000e+00	802.0
7	TraesCS6D01G085100	chr6A	90.071	564	36	12	1	558	64534674	64534125	0.000000e+00	713.0
8	TraesCS6D01G085100	chr5A	85.948	918	122	5	1001	1915	708743157	708744070	0.000000e+00	974.0
9	TraesCS6D01G085100	chr5A	79.634	383	56	15	3324	3692	94800249	94800623	4.800000e-64	255.0
10	TraesCS6D01G085100	chr5A	81.159	207	29	9	3408	3610	111608271	111608071	1.390000e-34	158.0
11	TraesCS6D01G085100	chrUn	85.559	921	126	6	1001	1915	28574625	28573706	0.000000e+00	957.0
12	TraesCS6D01G085100	chrUn	83.082	662	104	3	2065	2725	28573118	28572464	2.490000e-166	595.0
13	TraesCS6D01G085100	chrUn	85.854	205	14	11	418	618	22879997	22879804	1.760000e-48	204.0
14	TraesCS6D01G085100	chr4B	85.621	918	125	5	1001	1915	670799118	670798205	0.000000e+00	957.0
15	TraesCS6D01G085100	chr4B	83.739	658	100	2	2068	2725	670797479	670796829	1.910000e-172	616.0
16	TraesCS6D01G085100	chr4B	84.524	84	6	3	418	501	500296031	500295955	4.010000e-10	76.8
17	TraesCS6D01G085100	chr2B	82.409	523	80	11	1034	1551	772821789	772822304	2.650000e-121	446.0
18	TraesCS6D01G085100	chr2D	82.432	444	66	10	1060	1494	629866392	629866832	9.810000e-101	377.0
19	TraesCS6D01G085100	chr3B	87.255	306	39	0	1302	1607	17604628	17604933	2.140000e-92	350.0
20	TraesCS6D01G085100	chr3B	78.704	216	36	9	3335	3546	518997950	518998159	6.520000e-28	135.0
21	TraesCS6D01G085100	chr5D	79.467	375	59	16	3324	3692	103602767	103602405	2.230000e-62	250.0
22	TraesCS6D01G085100	chr5B	80.163	368	37	24	3328	3675	670797212	670796861	3.740000e-60	243.0
23	TraesCS6D01G085100	chr3D	77.857	420	53	24	3324	3729	591608993	591608600	1.350000e-54	224.0
24	TraesCS6D01G085100	chr1B	86.000	200	16	8	422	619	432559350	432559161	1.760000e-48	204.0
25	TraesCS6D01G085100	chr1B	83.099	71	5	3	419	489	430892081	430892144	1.450000e-04	58.4
26	TraesCS6D01G085100	chr3A	79.181	293	39	16	3388	3675	722498637	722498912	2.300000e-42	183.0
27	TraesCS6D01G085100	chr4D	83.173	208	22	13	3407	3606	81970897	81971099	1.070000e-40	178.0
28	TraesCS6D01G085100	chr7B	85.714	154	11	9	3400	3550	187779525	187779380	6.480000e-33	152.0
29	TraesCS6D01G085100	chr7A	74.477	239	45	13	2084	2314	602805315	602805085	5.150000e-14	89.8
30	TraesCS6D01G085100	chr7D	88.889	63	1	3	412	473	10068345	10068402	5.190000e-09	73.1
31	TraesCS6D01G085100	chr4A	83.607	61	7	2	439	499	729615354	729615297	2.000000e-03	54.7

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	TraesCS6D01G085100	chr6D	50670957	50674699	3742	False	6913.0	6913	100.0000	1	3743	1	chr6D.!!$F1	3742
1	TraesCS6D01G085100	chr6B	10926141	10928157	2016	False	2689.0	2689	90.7010	880	2920	1	chr6B.!!$F1	2040
2	TraesCS6D01G085100	chr6B	120801075	120805362	4287	True	2518.0	4529	88.0530	7	3647	2	chr6B.!!$R1	3640
3	TraesCS6D01G085100	chr6A	64504128	64507609	3481	True	2040.0	3278	88.8630	571	3743	2	chr6A.!!$R2	3172
4	TraesCS6D01G085100	chr6A	64534125	64534674	549	True	713.0	713	90.0710	1	558	1	chr6A.!!$R1	557
5	TraesCS6D01G085100	chr5A	708743157	708744070	913	False	974.0	974	85.9480	1001	1915	1	chr5A.!!$F2	914
6	TraesCS6D01G085100	chrUn	28572464	28574625	2161	True	776.0	957	84.3205	1001	2725	2	chrUn.!!$R2	1724
7	TraesCS6D01G085100	chr4B	670796829	670799118	2289	True	786.5	957	84.6800	1001	2725	2	chr4B.!!$R2	1724
8	TraesCS6D01G085100	chr2B	772821789	772822304	515	False	446.0	446	82.4090	1034	1551	1	chr2B.!!$F1	517

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	End Stability	Orientation
504	512	0.104120	GCCAAAAGACAACACCACCC	59.896	55.0	0.00	4.61	F
672	685	0.512952	CACACTTCAACAGGCGCTAC	59.487	55.0	7.64	3.58	F
1890	1965	0.031585	TCACCGACGACAACCTCAAG	59.968	55.0	0.00	3.02	F

Position	MSA Position	Penalty	Sequence	TM	GC	Hairpin	End Stability	Orientation
1479	1551	0.179056	CGGTGTTCTTGGTGAGGTGT	60.179	55.0	0.00	4.16	R
2076	2442	0.608130	CGAACATGTCCTGGAGACCA	59.392	55.0	45.68	4.02	R
3566	5217	0.175989	TTTCGCCAACAAAACCCACC	59.824	50.0	0.00	4.61	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
71	74	9.984190	CTCATTCATATATGCAGCTAGTATCAT	57.016	33.333	7.92	0.00	0.00	2.45
144	147	4.278678	AGAAAAGAACACAAGTGCGAAG	57.721	40.909	0.00	0.00	0.00	3.79
162	165	4.437659	GCGAAGACAAACAACACAACCTAA	60.438	41.667	0.00	0.00	0.00	2.69
223	230	8.964476	AGAACCAATAAAGATATGTGTAGTGG	57.036	34.615	13.51	13.51	37.63	4.00
245	252	1.809684	GTAGTCCTTGTCCTTGTGGC	58.190	55.000	0.00	0.00	0.00	5.01
378	385	0.395724	CCTGCCTTGGTTATCCCACC	60.396	60.000	0.00	0.00	45.19	4.61
466	473	5.576128	TCCCCCGATTTCATTAAAGAAACT	58.424	37.500	7.95	0.00	40.03	2.66
486	494	9.680315	AGAAACTAATAGTCGTATTCATACAGC	57.320	33.333	0.00	0.00	32.87	4.40
492	500	7.715265	ATAGTCGTATTCATACAGCCAAAAG	57.285	36.000	0.00	0.00	32.87	2.27
504	512	0.104120	GCCAAAAGACAACACCACCC	59.896	55.000	0.00	0.00	0.00	4.61
670	683	1.893808	CCACACTTCAACAGGCGCT	60.894	57.895	7.64	0.00	0.00	5.92
672	685	0.512952	CACACTTCAACAGGCGCTAC	59.487	55.000	7.64	0.00	0.00	3.58
734	775	6.865205	GGAGATAGCCAAATTTTGCATGATAC	59.135	38.462	15.83	3.72	0.00	2.24
754	802	3.719924	ACATGAACGTAAAAGGTGACGA	58.280	40.909	0.00	0.00	41.60	4.20
843	892	0.985416	GACGACGCAAACGCAAAGTC	60.985	55.000	0.00	0.00	45.53	3.01
844	893	2.061495	CGACGCAAACGCAAAGTCG	61.061	57.895	1.99	1.99	46.32	4.18
867	916	4.389687	GCATGGTTAGATGCTTTTTGTTGG	59.610	41.667	0.00	0.00	44.57	3.77
868	917	3.988819	TGGTTAGATGCTTTTTGTTGGC	58.011	40.909	0.00	0.00	0.00	4.52
869	918	3.386078	TGGTTAGATGCTTTTTGTTGGCA	59.614	39.130	0.00	0.00	40.32	4.92
875	924	1.824272	GCTTTTTGTTGGCAGCAGCG	61.824	55.000	3.76	0.00	43.41	5.18
999	1063	3.148412	CACAGAACCACACATCATGGAA	58.852	45.455	0.00	0.00	39.87	3.53
1014	1078	3.523157	TCATGGAAATGGAGCTCAACCTA	59.477	43.478	17.19	0.00	0.00	3.08
1152	1222	2.519622	CCACCTCCACCTGCTGACA	61.520	63.158	0.00	0.00	0.00	3.58
1503	1578	4.250305	ACCAAGAACACCGCGCCT	62.250	61.111	0.00	0.00	0.00	5.52
1506	1581	2.665185	AAGAACACCGCGCCTGAC	60.665	61.111	0.00	0.00	0.00	3.51
1890	1965	0.031585	TCACCGACGACAACCTCAAG	59.968	55.000	0.00	0.00	0.00	3.02
1986	2164	5.046529	AGAGACATGCACTAACGAATGATC	58.953	41.667	0.00	0.00	0.00	2.92
2214	2891	4.796495	GTGGTAGGCGCCAAGGGG	62.796	72.222	31.54	0.00	40.68	4.79
2825	3816	9.029243	CAGACAATGCAAATAAGAGAGTAGTAG	57.971	37.037	0.00	0.00	0.00	2.57
2837	3828	7.688918	AAGAGAGTAGTAGGTAGCTAGGTAA	57.311	40.000	2.58	0.00	0.00	2.85
2863	3859	7.680442	AAAAAGCAAGGAAGAGAGAGAATAC	57.320	36.000	0.00	0.00	0.00	1.89
2920	3916	2.882137	GTGCCTAACTTGCTGTGGTAAA	59.118	45.455	0.00	0.00	0.00	2.01
2921	3917	3.316868	GTGCCTAACTTGCTGTGGTAAAA	59.683	43.478	0.00	0.00	0.00	1.52
2922	3918	3.568007	TGCCTAACTTGCTGTGGTAAAAG	59.432	43.478	0.00	0.00	0.00	2.27
2923	3919	3.818773	GCCTAACTTGCTGTGGTAAAAGA	59.181	43.478	0.00	0.00	0.00	2.52
2924	3920	4.320275	GCCTAACTTGCTGTGGTAAAAGAC	60.320	45.833	0.00	0.00	0.00	3.01
2996	4000	3.126831	CTGTCGCTTTCACTCTTTCACT	58.873	45.455	0.00	0.00	0.00	3.41
2997	4001	3.531538	TGTCGCTTTCACTCTTTCACTT	58.468	40.909	0.00	0.00	0.00	3.16
2998	4002	3.309682	TGTCGCTTTCACTCTTTCACTTG	59.690	43.478	0.00	0.00	0.00	3.16
3000	4004	3.555956	TCGCTTTCACTCTTTCACTTGTC	59.444	43.478	0.00	0.00	0.00	3.18
3012	4026	5.584649	TCTTTCACTTGTCGTTCATGACTTT	59.415	36.000	0.00	0.00	39.64	2.66
3014	4028	4.188462	TCACTTGTCGTTCATGACTTTGT	58.812	39.130	0.00	0.00	39.64	2.83
3026	4040	3.924114	TGACTTTGTTCACTTCCTCCA	57.076	42.857	0.00	0.00	0.00	3.86
3049	4063	7.006509	CCATACATTTTCTAACCTGATCCCAT	58.993	38.462	0.00	0.00	0.00	4.00
3055	4069	2.439507	TCTAACCTGATCCCATTCAGCC	59.560	50.000	0.00	0.00	41.50	4.85
3097	4111	4.376413	CGACTTCTTGTCATTTTCTGGACG	60.376	45.833	0.00	0.00	45.60	4.79
3129	4143	1.403914	CCGTGCAATTTGGCAAGCATA	60.404	47.619	14.57	0.00	46.93	3.14
3143	4157	4.363999	GCAAGCATATTAGAGACGTCACT	58.636	43.478	19.42	19.42	0.00	3.41
3147	4161	5.967088	AGCATATTAGAGACGTCACTTTGT	58.033	37.500	20.61	9.66	0.00	2.83
3200	4836	5.356751	AGACAGGCATGCGTTGAAATTAATA	59.643	36.000	22.83	0.00	0.00	0.98
3262	4898	7.565680	ACTCCTTCCGTGACAAAATATAAGAT	58.434	34.615	0.00	0.00	0.00	2.40
3264	4900	6.765989	TCCTTCCGTGACAAAATATAAGATGG	59.234	38.462	0.00	0.00	0.00	3.51
3321	4960	5.309020	AGAGGTTGCATACTCCATCACATAT	59.691	40.000	12.90	0.00	34.27	1.78
3345	4988	2.943653	CGGACGTTTGGTTCCTGC	59.056	61.111	0.00	0.00	0.00	4.85
3401	5046	9.956720	ATCAGTAATGACAAAAGAGTTCAAAAG	57.043	29.630	0.00	0.00	0.00	2.27
3402	5047	8.956426	TCAGTAATGACAAAAGAGTTCAAAAGT	58.044	29.630	0.00	0.00	0.00	2.66
3447	5097	9.760660	GACTTTCTTTTGCACTAGTATGTAATG	57.239	33.333	0.00	0.00	0.00	1.90
3468	5118	5.941555	TGTTTCACCAATAAAAACCCAGT	57.058	34.783	0.00	0.00	33.06	4.00
3483	5133	1.517242	CCAGTGTTGACTTCAGAGGC	58.483	55.000	0.00	0.00	0.00	4.70
3484	5134	1.202687	CCAGTGTTGACTTCAGAGGCA	60.203	52.381	0.00	0.00	39.83	4.75
3566	5217	1.383744	CTTTTCGCTCTGAAGTCGACG	59.616	52.381	10.46	0.00	37.99	5.12
3570	5221	1.444553	GCTCTGAAGTCGACGGTGG	60.445	63.158	10.46	2.73	0.00	4.61
3600	5252	8.138365	TGTTGGCGAAAAATCATATACTAGTC	57.862	34.615	0.00	0.00	0.00	2.59
3730	5382	6.353951	CCAGGAACTAAGAGGTATTTCCCATT	60.354	42.308	0.00	0.00	40.73	3.16

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
71	74	9.624697	GATTATCTAAGATTGTGTTTTGTGCAA	57.375	29.630	0.00	0.00	0.00	4.08
73	76	9.065871	GTGATTATCTAAGATTGTGTTTTGTGC	57.934	33.333	0.00	0.00	0.00	4.57
144	147	8.920509	ACTTTATTTAGGTTGTGTTGTTTGTC	57.079	30.769	0.00	0.00	0.00	3.18
202	209	6.984474	ACGTCCACTACACATATCTTTATTGG	59.016	38.462	0.00	0.00	0.00	3.16
223	230	2.609737	CCACAAGGACAAGGACTACGTC	60.610	54.545	0.00	0.00	36.89	4.34
335	342	4.258543	ACACTTGTATTGTACAATCGGGG	58.741	43.478	24.00	15.17	46.51	5.73
378	385	5.561145	GCTGCTTAGCTTGATCAATCATCTG	60.561	44.000	8.96	0.00	36.56	2.90
438	445	6.431722	TCTTTAATGAAATCGGGGGAAAGAT	58.568	36.000	0.00	0.00	29.23	2.40
439	446	5.822204	TCTTTAATGAAATCGGGGGAAAGA	58.178	37.500	0.00	0.00	31.17	2.52
440	447	6.524101	TTCTTTAATGAAATCGGGGGAAAG	57.476	37.500	1.49	0.00	0.00	2.62
441	448	6.495526	AGTTTCTTTAATGAAATCGGGGGAAA	59.504	34.615	16.78	0.00	38.09	3.13
466	473	9.256477	CTTTTGGCTGTATGAATACGACTATTA	57.744	33.333	0.00	0.00	36.06	0.98
486	494	1.479709	TGGGTGGTGTTGTCTTTTGG	58.520	50.000	0.00	0.00	0.00	3.28
492	500	3.603158	AAAAACTTGGGTGGTGTTGTC	57.397	42.857	0.00	0.00	0.00	3.18
504	512	7.067008	TCACCCTTGTCTTCTCTTAAAAACTTG	59.933	37.037	0.00	0.00	0.00	3.16
648	658	1.103398	GCCTGTTGAAGTGTGGTGCT	61.103	55.000	0.00	0.00	0.00	4.40
660	673	2.173669	CCATCCGTAGCGCCTGTTG	61.174	63.158	2.29	0.00	0.00	3.33
697	710	1.429148	CTATCTCCCGGTTGTTGCGC	61.429	60.000	0.00	0.00	0.00	6.09
698	711	1.429148	GCTATCTCCCGGTTGTTGCG	61.429	60.000	0.00	0.00	0.00	4.85
708	749	4.099881	TCATGCAAAATTTGGCTATCTCCC	59.900	41.667	18.26	0.00	0.00	4.30
734	775	4.490319	CGATCGTCACCTTTTACGTTCATG	60.490	45.833	7.03	0.00	37.57	3.07
867	916	2.907897	ATCTAACCGGACGCTGCTGC	62.908	60.000	9.46	5.34	0.00	5.25
868	917	0.872021	GATCTAACCGGACGCTGCTG	60.872	60.000	9.46	0.00	0.00	4.41
869	918	1.320344	TGATCTAACCGGACGCTGCT	61.320	55.000	9.46	0.00	0.00	4.24
875	924	2.857592	TTAGCGTGATCTAACCGGAC	57.142	50.000	9.46	0.00	0.00	4.79
973	1033	0.670162	ATGTGTGGTTCTGTGCTTGC	59.330	50.000	0.00	0.00	0.00	4.01
999	1063	2.428890	CGAGACTAGGTTGAGCTCCATT	59.571	50.000	12.15	0.00	0.00	3.16
1014	1078	0.725686	CGATGGACACGTACGAGACT	59.274	55.000	24.41	0.00	0.00	3.24
1479	1551	0.179056	CGGTGTTCTTGGTGAGGTGT	60.179	55.000	0.00	0.00	0.00	4.16
1503	1578	4.608774	AGGTCGACGGGGGTGTCA	62.609	66.667	9.92	0.00	38.84	3.58
1506	1581	3.760035	CTGAGGTCGACGGGGGTG	61.760	72.222	9.92	0.00	0.00	4.61
1890	1965	3.834799	CGTACCAGGACGAGGGCC	61.835	72.222	0.00	0.00	45.82	5.80
1986	2164	4.356162	CGAAATATCGGAGCTAACAACG	57.644	45.455	0.00	0.00	45.32	4.10
2076	2442	0.608130	CGAACATGTCCTGGAGACCA	59.392	55.000	0.00	0.00	45.68	4.02
2080	2446	1.078759	GCGACGAACATGTCCTGGAG	61.079	60.000	0.00	0.00	35.40	3.86
2863	3859	9.916397	CTGTACTAGCTCCATTTTTATTTTACG	57.084	33.333	0.00	0.00	0.00	3.18
2920	3916	3.728076	ACACACATACACGTCTGTCTT	57.272	42.857	0.00	0.00	0.00	3.01
2921	3917	4.841443	TTACACACATACACGTCTGTCT	57.159	40.909	0.00	0.00	0.00	3.41
2922	3918	6.462073	AAATTACACACATACACGTCTGTC	57.538	37.500	0.00	0.00	0.00	3.51
2923	3919	6.259167	ACAAAATTACACACATACACGTCTGT	59.741	34.615	0.00	0.00	0.00	3.41
2924	3920	6.655062	ACAAAATTACACACATACACGTCTG	58.345	36.000	0.00	0.00	0.00	3.51
2976	3980	3.179443	AGTGAAAGAGTGAAAGCGACA	57.821	42.857	0.00	0.00	0.00	4.35
2980	3984	3.309954	ACGACAAGTGAAAGAGTGAAAGC	59.690	43.478	0.00	0.00	0.00	3.51
2996	4000	4.634004	AGTGAACAAAGTCATGAACGACAA	59.366	37.500	0.00	0.00	38.43	3.18
2997	4001	4.188462	AGTGAACAAAGTCATGAACGACA	58.812	39.130	0.00	0.00	38.43	4.35
2998	4002	4.795970	AGTGAACAAAGTCATGAACGAC	57.204	40.909	0.00	0.00	36.08	4.34
3000	4004	4.273480	AGGAAGTGAACAAAGTCATGAACG	59.727	41.667	0.00	0.00	0.00	3.95
3012	4026	6.542821	AGAAAATGTATGGAGGAAGTGAACA	58.457	36.000	0.00	0.00	0.00	3.18
3014	4028	7.610305	GGTTAGAAAATGTATGGAGGAAGTGAA	59.390	37.037	0.00	0.00	0.00	3.18
3026	4040	8.281531	TGAATGGGATCAGGTTAGAAAATGTAT	58.718	33.333	0.00	0.00	0.00	2.29
3049	4063	5.596361	TGTCAAGTTATTTTCCTTGGCTGAA	59.404	36.000	5.70	0.00	42.38	3.02
3055	4069	6.300354	AGTCGTGTCAAGTTATTTTCCTTG	57.700	37.500	0.00	0.00	39.50	3.61
3089	4103	2.218603	GAAAAAGTCCAGCGTCCAGAA	58.781	47.619	0.00	0.00	0.00	3.02
3129	4143	5.927115	GGAGAAACAAAGTGACGTCTCTAAT	59.073	40.000	19.61	9.80	33.56	1.73
3143	4157	9.993454	CTGATAGATCATCATAGGAGAAACAAA	57.007	33.333	7.87	0.00	42.82	2.83
3147	4161	8.718158	ACACTGATAGATCATCATAGGAGAAA	57.282	34.615	7.87	0.00	42.82	2.52
3170	4806	0.534877	ACGCATGCCTGTCTTCAACA	60.535	50.000	13.15	0.00	36.18	3.33
3200	4836	7.617723	TGCCAGGAGTATAATTTTGTTTGGTAT	59.382	33.333	0.00	0.00	0.00	2.73
3262	4898	5.602628	GTTTTGTGTAGGGCATAAAAACCA	58.397	37.500	6.48	0.00	45.29	3.67
3305	4941	3.525537	GCCCGATATGTGATGGAGTATG	58.474	50.000	0.00	0.00	0.00	2.39
3377	5020	9.573133	AACTTTTGAACTCTTTTGTCATTACTG	57.427	29.630	0.00	0.00	0.00	2.74
3411	5061	6.753744	AGTGCAAAAGAAAGTCAAGTTCATTC	59.246	34.615	0.00	0.00	0.00	2.67
3415	5065	6.786207	ACTAGTGCAAAAGAAAGTCAAGTTC	58.214	36.000	0.00	0.00	0.00	3.01
3427	5077	9.329913	GTGAAACATTACATACTAGTGCAAAAG	57.670	33.333	5.39	0.00	36.32	2.27
3447	5097	5.666462	ACACTGGGTTTTTATTGGTGAAAC	58.334	37.500	0.00	0.00	33.63	2.78
3468	5118	5.129634	TGTATTTTGCCTCTGAAGTCAACA	58.870	37.500	0.00	0.00	0.00	3.33
3538	5189	5.949735	ACTTCAGAGCGAAAAGAAACAAAA	58.050	33.333	0.00	0.00	31.71	2.44
3539	5190	5.560966	ACTTCAGAGCGAAAAGAAACAAA	57.439	34.783	0.00	0.00	31.71	2.83
3542	5193	3.489785	TCGACTTCAGAGCGAAAAGAAAC	59.510	43.478	0.00	0.00	31.71	2.78
3543	5194	3.489785	GTCGACTTCAGAGCGAAAAGAAA	59.510	43.478	8.70	0.00	34.76	2.52
3546	5197	1.383744	CGTCGACTTCAGAGCGAAAAG	59.616	52.381	14.70	0.00	34.76	2.27
3552	5203	1.444553	CCACCGTCGACTTCAGAGC	60.445	63.158	14.70	0.00	0.00	4.09
3566	5217	0.175989	TTTCGCCAACAAAACCCACC	59.824	50.000	0.00	0.00	0.00	4.61
3570	5221	6.720012	ATATGATTTTTCGCCAACAAAACC	57.280	33.333	0.00	0.00	0.00	3.27
3698	5350	5.216665	ACCTCTTAGTTCCTGGGTGTATA	57.783	43.478	0.00	0.00	0.00	1.47
3700	5352	3.555117	ACCTCTTAGTTCCTGGGTGTA	57.445	47.619	0.00	0.00	0.00	2.90

Based at the University of Bristol with support from BBSRC.

AutoCloner maintained by Alex Coulton.