AutoCloner

Multiple sequence alignment - TraesCS4D01G173400

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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	TraesCS4D01G173400	chr4D	100.000	4234	0	0	1	4234	301302456	301298223	0.000000e+00	7819.0
1	TraesCS4D01G173400	chr4D	77.959	245	50	3	2887	3129	403396612	403396370	2.640000e-32	150.0
2	TraesCS4D01G173400	chr4A	96.401	3557	111	11	1	3548	180394993	180398541	0.000000e+00	5843.0
3	TraesCS4D01G173400	chr4A	96.768	495	14	1	3740	4234	180402528	180403020	0.000000e+00	824.0
4	TraesCS4D01G173400	chr4A	77.959	245	50	3	2887	3129	60926372	60926130	2.640000e-32	150.0
5	TraesCS4D01G173400	chr4B	96.458	2315	79	3	1	2312	375140466	375138152	0.000000e+00	3818.0
6	TraesCS4D01G173400	chr4B	95.427	1662	59	9	2574	4234	375137748	375136103	0.000000e+00	2632.0
7	TraesCS4D01G173400	chr4B	80.000	135	27	0	2995	3129	500253403	500253269	2.690000e-17	100.0
8	TraesCS4D01G173400	chr2B	75.944	1218	258	22	1084	2282	88839339	88840540	1.010000e-165	593.0
9	TraesCS4D01G173400	chr2B	78.431	153	19	10	3508	3652	53414335	53414481	2.100000e-13	87.9
10	TraesCS4D01G173400	chr2A	75.862	1218	259	22	1084	2282	57547333	57548534	4.720000e-164	588.0
11	TraesCS4D01G173400	chr3A	87.603	121	15	0	2976	3096	131406668	131406788	1.590000e-29	141.0
12	TraesCS4D01G173400	chr3A	81.203	133	20	5	2968	3096	398881171	398881040	7.490000e-18	102.0
13	TraesCS4D01G173400	chr3D	81.061	132	22	2	2968	3096	323698839	323698970	7.490000e-18	102.0
14	TraesCS4D01G173400	chr3D	94.643	56	3	0	3583	3638	177030008	177029953	2.100000e-13	87.9
15	TraesCS4D01G173400	chr3B	79.856	139	23	4	2968	3103	395380212	395380076	3.480000e-16	97.1
16	TraesCS4D01G173400	chr1B	89.041	73	8	0	3583	3655	70321283	70321211	1.620000e-14	91.6
17	TraesCS4D01G173400	chr1B	89.583	48	2	3	3537	3581	70321300	70321253	1.640000e-04	58.4
18	TraesCS4D01G173400	chr6A	77.019	161	32	5	3497	3655	532026778	532026621	2.100000e-13	87.9
19	TraesCS4D01G173400	chr2D	88.732	71	8	0	3585	3655	241661973	241661903	2.100000e-13	87.9
20	TraesCS4D01G173400	chr7D	92.857	56	4	0	3583	3638	593035234	593035289	9.760000e-12	82.4
21	TraesCS4D01G173400	chr5A	88.060	67	8	0	3586	3652	558315463	558315397	3.510000e-11	80.5
22	TraesCS4D01G173400	chr5A	92.683	41	3	0	3541	3581	346189556	346189516	4.570000e-05	60.2
23	TraesCS4D01G173400	chr6B	85.714	70	10	0	3583	3652	249443295	249443364	1.630000e-09	75.0
24	TraesCS4D01G173400	chr6B	97.143	35	1	0	3547	3581	249443291	249443325	4.570000e-05	60.2
25	TraesCS4D01G173400	chr5D	92.683	41	3	0	3541	3581	259536755	259536795	4.570000e-05	60.2
26	TraesCS4D01G173400	chr5D	85.965	57	4	4	3529	3581	215302536	215302592	1.640000e-04	58.4
27	TraesCS4D01G173400	chr7A	92.500	40	3	0	3542	3581	718430942	718430981	1.640000e-04	58.4
28	TraesCS4D01G173400	chr5B	92.500	40	3	0	3542	3581	230883447	230883486	1.640000e-04	58.4
29	TraesCS4D01G173400	chr5B	88.889	45	5	0	3508	3552	636609486	636609442	5.910000e-04	56.5
30	TraesCS4D01G173400	chr1D	100.000	29	0	0	3551	3579	348055149	348055121	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	TraesCS4D01G173400	chr4D	301298223	301302456	4233	True	7819.0	7819	100.0000	1	4234	1	chr4D.!!$R1	4233
1	TraesCS4D01G173400	chr4A	180394993	180403020	8027	False	3333.5	5843	96.5845	1	4234	2	chr4A.!!$F1	4233
2	TraesCS4D01G173400	chr4B	375136103	375140466	4363	True	3225.0	3818	95.9425	1	4234	2	chr4B.!!$R2	4233
3	TraesCS4D01G173400	chr2B	88839339	88840540	1201	False	593.0	593	75.9440	1084	2282	1	chr2B.!!$F2	1198
4	TraesCS4D01G173400	chr2A	57547333	57548534	1201	False	588.0	588	75.8620	1084	2282	1	chr2A.!!$F1	1198

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
227	228	0.332632	TCCTCCTTGCATCCCCTTTG	59.667	55.000	0.00	0.00	0.00	2.77	F
500	502	2.365293	AGTAAAGGGCTTGGTTGCAAAG	59.635	45.455	0.00	0.00	34.04	2.77	F
1446	1452	0.329261	CAGGCCTCATCACCCTTGAA	59.671	55.000	0.00	0.00	34.61	2.69	F
2163	2190	1.069823	CAGCAGATGGAGCTTATCGGT	59.930	52.381	11.55	7.69	41.14	4.69	F

Position	MSA Position	Penalty	Sequence	TM	GC	Hairpin	End Stability	Orientation
1059	1065	1.584308	GCTAATGAGACGAACAGCGAC	59.416	52.381	44.57	5.19	R
2193	2220	2.287373	CGAGTAGTAGTAAGCACGGAGG	59.713	54.545	0.00	4.30	R
2885	3103	1.080772	CACGCCGAAGCTGTAGACA	60.081	57.895	36.60	3.41	R
4131	8184	1.610102	GGCTGCTTGAGATCTGTGTGT	60.610	52.381	0.00	3.72	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
35	36	9.733219	CAGTATACTTAGCCTGTCTTAGTTAAC	57.267	37.037	1.56	0.00	36.26	2.01
227	228	0.332632	TCCTCCTTGCATCCCCTTTG	59.667	55.000	0.00	0.00	0.00	2.77
500	502	2.365293	AGTAAAGGGCTTGGTTGCAAAG	59.635	45.455	0.00	0.00	34.04	2.77
728	731	3.971305	TGGTTTGTTCTTCCTGAGTCCTA	59.029	43.478	0.00	0.00	0.00	2.94
849	854	8.293867	TGCTTGCAGTTTTATAACGAGTTAAAT	58.706	29.630	0.00	0.00	39.31	1.40
939	944	9.486497	TTTTCATTGCAGCTGTTTGATTATTAA	57.514	25.926	16.64	4.51	0.00	1.40
955	960	9.562583	TTGATTATTAAATTGGCGTAAACAGAC	57.437	29.630	0.00	0.00	0.00	3.51
996	1001	5.136828	AGTGACATTGACTCCGAGATATCT	58.863	41.667	4.47	4.47	0.00	1.98
997	1002	5.240623	AGTGACATTGACTCCGAGATATCTC	59.759	44.000	20.93	20.93	39.55	2.75
998	1003	5.240623	GTGACATTGACTCCGAGATATCTCT	59.759	44.000	26.29	10.98	40.75	3.10
999	1004	5.240403	TGACATTGACTCCGAGATATCTCTG	59.760	44.000	26.29	21.17	40.75	3.35
1059	1065	1.375652	CTGTCTGCACCTGCTCCTG	60.376	63.158	0.00	0.00	42.66	3.86
1062	1068	2.433838	CTGCACCTGCTCCTGTCG	60.434	66.667	0.00	0.00	42.66	4.35
1065	1071	2.433838	CACCTGCTCCTGTCGCTG	60.434	66.667	0.00	0.00	0.00	5.18
1069	1075	2.049156	TGCTCCTGTCGCTGTTCG	60.049	61.111	0.00	0.00	40.15	3.95
1077	1083	2.415491	CCTGTCGCTGTTCGTCTCATTA	60.415	50.000	0.00	0.00	39.67	1.90
1327	1333	1.941325	CCTGAGGTCTAATCGGTTGC	58.059	55.000	0.00	0.00	0.00	4.17
1446	1452	0.329261	CAGGCCTCATCACCCTTGAA	59.671	55.000	0.00	0.00	34.61	2.69
1772	1799	4.534500	TGGAAAGAAAGTGGCTACTGGATA	59.466	41.667	2.40	0.00	37.19	2.59
1825	1852	1.093159	ATTTCTGCTAGCTGCTGTGC	58.907	50.000	17.23	16.37	43.37	4.57
2163	2190	1.069823	CAGCAGATGGAGCTTATCGGT	59.930	52.381	11.55	7.69	41.14	4.69
2193	2220	1.805428	AACATGCAAACCTCGTGCCC	61.805	55.000	0.00	0.00	41.49	5.36
2196	2223	3.056328	GCAAACCTCGTGCCCCTC	61.056	66.667	0.00	0.00	35.91	4.30
2214	2241	2.287373	CCTCCGTGCTTACTACTACTCG	59.713	54.545	0.00	0.00	0.00	4.18
2309	2336	2.243478	TGCCTTTCACCCCTGCATATTA	59.757	45.455	0.00	0.00	0.00	0.98
2315	2342	7.396055	GCCTTTCACCCCTGCATATTATTATTA	59.604	37.037	0.00	0.00	0.00	0.98
2382	2437	2.496871	CCTATCATCCCTGAGCTAGCAG	59.503	54.545	18.83	6.27	34.12	4.24
2534	2752	3.828875	TGTTTAGCAAAAACAAGGGGG	57.171	42.857	13.20	0.00	37.22	5.40
2548	2766	4.239495	ACAAGGGGGAAAAATAGCCTTTT	58.761	39.130	0.00	0.00	0.00	2.27
2699	2917	1.100510	CACACATCCATGCAGAAGGG	58.899	55.000	0.00	0.00	0.00	3.95
2885	3103	2.879103	AATTCACCCACAAGTCGGAT	57.121	45.000	0.00	0.00	0.00	4.18
3176	3394	2.357517	CGGCAGTTCACCGCTTCT	60.358	61.111	0.00	0.00	44.90	2.85
3269	3487	0.514691	GCTTGTTCGTCCAGAAGCAG	59.485	55.000	0.00	0.00	40.47	4.24
3281	3499	0.395686	AGAAGCAGCTCAAGCACTGA	59.604	50.000	4.59	0.00	45.16	3.41
3348	3567	4.406001	TTCAACGCGTGCATGTTAATTA	57.594	36.364	14.98	0.00	0.00	1.40
3553	3777	5.108385	AGATGTTCTAACCTTTTTGTGCG	57.892	39.130	0.00	0.00	0.00	5.34
3554	3778	4.578928	AGATGTTCTAACCTTTTTGTGCGT	59.421	37.500	0.00	0.00	0.00	5.24
3557	3781	4.859798	TGTTCTAACCTTTTTGTGCGTTTG	59.140	37.500	0.00	0.00	0.00	2.93
3560	3784	5.096849	TCTAACCTTTTTGTGCGTTTGTTC	58.903	37.500	0.00	0.00	0.00	3.18
3561	3785	3.305398	ACCTTTTTGTGCGTTTGTTCA	57.695	38.095	0.00	0.00	0.00	3.18
3563	3787	3.249917	CCTTTTTGTGCGTTTGTTCACT	58.750	40.909	0.00	0.00	34.49	3.41
3564	3788	3.303229	CCTTTTTGTGCGTTTGTTCACTC	59.697	43.478	0.00	0.00	34.49	3.51
3565	3789	3.560902	TTTTGTGCGTTTGTTCACTCA	57.439	38.095	0.00	0.00	34.49	3.41
3566	3790	3.773860	TTTGTGCGTTTGTTCACTCAT	57.226	38.095	0.00	0.00	34.49	2.90
3567	3791	3.773860	TTGTGCGTTTGTTCACTCATT	57.226	38.095	0.00	0.00	34.49	2.57
3568	3792	3.773860	TGTGCGTTTGTTCACTCATTT	57.226	38.095	0.00	0.00	34.49	2.32
3569	3793	3.690422	TGTGCGTTTGTTCACTCATTTC	58.310	40.909	0.00	0.00	34.49	2.17
3573	3797	4.975502	TGCGTTTGTTCACTCATTTCAATC	59.024	37.500	0.00	0.00	0.00	2.67
3574	3798	5.215160	GCGTTTGTTCACTCATTTCAATCT	58.785	37.500	0.00	0.00	0.00	2.40
3575	3799	5.116074	GCGTTTGTTCACTCATTTCAATCTG	59.884	40.000	0.00	0.00	0.00	2.90
3579	6559	9.121517	GTTTGTTCACTCATTTCAATCTGTATG	57.878	33.333	0.00	0.00	0.00	2.39
3581	6561	8.032952	TGTTCACTCATTTCAATCTGTATGTC	57.967	34.615	0.00	0.00	0.00	3.06
3616	6596	6.873605	TCACTCATTTCAATCTGTATGTCGTT	59.126	34.615	0.00	0.00	0.00	3.85
3667	6680	8.759641	TGTATTTGTGATCGAAAAATGTTTTGG	58.240	29.630	9.23	0.00	0.00	3.28
3668	6681	8.973378	GTATTTGTGATCGAAAAATGTTTTGGA	58.027	29.630	9.23	1.47	0.00	3.53
3669	6682	6.820470	TTGTGATCGAAAAATGTTTTGGAC	57.180	33.333	0.00	0.00	0.00	4.02
3671	6684	5.746245	TGTGATCGAAAAATGTTTTGGACAC	59.254	36.000	13.95	13.95	42.04	3.67
3673	6686	6.254589	GTGATCGAAAAATGTTTTGGACACAA	59.745	34.615	15.05	0.00	42.04	3.33
3715	6731	7.682021	GCAAAAACTCCATCCATTCCATAGTAC	60.682	40.741	0.00	0.00	0.00	2.73
3780	7833	4.323715	GGAACGGAGGGAGTAATAACCAAA	60.324	45.833	0.00	0.00	0.00	3.28
3781	7834	4.914177	ACGGAGGGAGTAATAACCAAAA	57.086	40.909	0.00	0.00	0.00	2.44
3790	7843	6.661805	GGGAGTAATAACCAAAATCAAGGTGA	59.338	38.462	0.00	0.00	38.37	4.02
3808	7861	2.458620	TGACCGTATCACCCACATACA	58.541	47.619	0.00	0.00	29.99	2.29
3937	7990	2.093783	GGAACAATAACTTCTCACGCCG	59.906	50.000	0.00	0.00	0.00	6.46
4102	8155	6.487689	AAGCTTACTGAAAACTATGTCAGC	57.512	37.500	0.00	0.00	44.25	4.26
4131	8184	4.519906	AAAACAGGACTCCTCTTTCCAA	57.480	40.909	0.00	0.00	33.92	3.53
4144	8197	4.503817	CCTCTTTCCAACACACAGATCTCA	60.504	45.833	0.00	0.00	0.00	3.27
4197	8250	1.507141	GGTTCACCAAGTCTGCACCG	61.507	60.000	0.00	0.00	35.64	4.94

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
35	36	3.923017	CTTTGTTAAAGTGGGCTCAGG	57.077	47.619	0.00	0.00	33.80	3.86
75	76	1.588674	ACGCTCGTTTCCAACATCAA	58.411	45.000	0.00	0.00	0.00	2.57
227	228	3.242870	CGGAAGGCATCAATAAAGCAGAC	60.243	47.826	0.00	0.00	0.00	3.51
669	671	2.019249	CACGGTCATGCCATGAAAGAT	58.981	47.619	9.36	0.00	41.69	2.40
708	711	7.148623	CGTAATTAGGACTCAGGAAGAACAAAC	60.149	40.741	0.00	0.00	0.00	2.93
849	854	8.200792	ACAACTTTAAACATAACTCCATTTGCA	58.799	29.630	0.00	0.00	0.00	4.08
939	944	3.135994	ACTTCGTCTGTTTACGCCAATT	58.864	40.909	0.00	0.00	42.56	2.32
955	960	6.382821	GTCACTAAATGAGAGACAACTTCG	57.617	41.667	0.00	0.00	43.23	3.79
996	1001	7.398618	CCTCTAAGATTTAGATAGCCCATCAGA	59.601	40.741	0.00	0.00	35.96	3.27
997	1002	7.555087	CCTCTAAGATTTAGATAGCCCATCAG	58.445	42.308	0.00	0.00	35.96	2.90
998	1003	6.070538	GCCTCTAAGATTTAGATAGCCCATCA	60.071	42.308	0.00	0.00	35.96	3.07
999	1004	6.156083	AGCCTCTAAGATTTAGATAGCCCATC	59.844	42.308	13.19	0.00	0.00	3.51
1059	1065	1.584308	GCTAATGAGACGAACAGCGAC	59.416	52.381	0.00	0.00	44.57	5.19
1062	1068	3.770666	TGTAGCTAATGAGACGAACAGC	58.229	45.455	0.00	0.00	0.00	4.40
1065	1071	3.770666	TGCTGTAGCTAATGAGACGAAC	58.229	45.455	5.38	0.00	42.66	3.95
1069	1075	4.377839	TGTCTGCTGTAGCTAATGAGAC	57.622	45.455	11.98	11.98	42.66	3.36
1077	1083	1.686052	GAGGCTATGTCTGCTGTAGCT	59.314	52.381	5.38	0.00	40.43	3.32
1446	1452	5.221864	CCCTGTAAAGGAGTTGTAGGAAAGT	60.222	44.000	0.00	0.00	0.00	2.66
1772	1799	2.294233	CCAACAGCAGCCGCAATTATAT	59.706	45.455	0.00	0.00	42.27	0.86
1825	1852	5.863397	TCTTTGAAAAGCACACAGTGAAAAG	59.137	36.000	7.81	4.50	35.99	2.27
2193	2220	2.287373	CGAGTAGTAGTAAGCACGGAGG	59.713	54.545	0.00	0.00	0.00	4.30
2196	2223	3.242673	CCTTCGAGTAGTAGTAAGCACGG	60.243	52.174	0.00	0.00	0.00	4.94
2214	2241	4.590850	AACCACAAGCTTTTCATCCTTC	57.409	40.909	0.00	0.00	0.00	3.46
2332	2387	9.155975	TGTTTGTGTTATGCTAACAAAACAAAT	57.844	25.926	23.58	1.27	43.32	2.32
2333	2388	8.534333	TGTTTGTGTTATGCTAACAAAACAAA	57.466	26.923	23.58	18.97	43.32	2.83
2351	2406	3.317149	CAGGGATGATAGGCATGTTTGTG	59.683	47.826	0.00	0.00	37.34	3.33
2382	2437	7.512297	CATGGTCTTTTTGTGCATGTAAATTC	58.488	34.615	0.00	0.00	0.00	2.17
2531	2749	6.599356	TCTACAAAAAGGCTATTTTTCCCC	57.401	37.500	9.14	0.00	30.31	4.81
2532	2750	7.041721	CCATCTACAAAAAGGCTATTTTTCCC	58.958	38.462	9.14	0.00	30.31	3.97
2533	2751	7.545615	CACCATCTACAAAAAGGCTATTTTTCC	59.454	37.037	9.14	0.00	30.31	3.13
2534	2752	8.088365	ACACCATCTACAAAAAGGCTATTTTTC	58.912	33.333	9.14	0.00	30.31	2.29
2548	2766	3.153369	ACATTGCCACACCATCTACAA	57.847	42.857	0.00	0.00	0.00	2.41
2699	2917	3.970746	ATGAGCAAGCTTGGGGCCC	62.971	63.158	27.10	18.17	43.05	5.80
2846	3064	3.887621	TTCCTGGACTCATAGGTTTCG	57.112	47.619	0.00	0.00	35.54	3.46
2885	3103	1.080772	CACGCCGAAGCTGTAGACA	60.081	57.895	0.00	0.00	36.60	3.41
3269	3487	3.748048	TGAATACAAGTCAGTGCTTGAGC	59.252	43.478	24.67	14.65	46.34	4.26
3330	3549	4.628333	ACTACTAATTAACATGCACGCGTT	59.372	37.500	10.22	0.00	0.00	4.84
3427	3646	5.631512	GCAAGCAGGTAGTAGAAGATAATCG	59.368	44.000	0.00	0.00	0.00	3.34
3548	3772	3.127721	TGAAATGAGTGAACAAACGCACA	59.872	39.130	0.00	0.00	37.48	4.57
3549	3773	3.690422	TGAAATGAGTGAACAAACGCAC	58.310	40.909	0.00	0.00	32.49	5.34
3550	3774	4.362932	TTGAAATGAGTGAACAAACGCA	57.637	36.364	0.00	0.00	34.27	5.24
3551	3775	5.116074	CAGATTGAAATGAGTGAACAAACGC	59.884	40.000	0.00	0.00	0.00	4.84
3553	3777	9.121517	CATACAGATTGAAATGAGTGAACAAAC	57.878	33.333	0.00	0.00	0.00	2.93
3554	3778	8.849168	ACATACAGATTGAAATGAGTGAACAAA	58.151	29.630	0.00	0.00	0.00	2.83
3557	3781	8.173775	CAGACATACAGATTGAAATGAGTGAAC	58.826	37.037	0.00	0.00	0.00	3.18
3560	3784	7.118825	ACACAGACATACAGATTGAAATGAGTG	59.881	37.037	0.00	0.00	31.53	3.51
3561	3785	7.164122	ACACAGACATACAGATTGAAATGAGT	58.836	34.615	0.00	0.00	0.00	3.41
3563	3787	7.984422	AACACAGACATACAGATTGAAATGA	57.016	32.000	0.00	0.00	0.00	2.57
3564	3788	8.077991	ACAAACACAGACATACAGATTGAAATG	58.922	33.333	0.00	0.00	0.00	2.32
3565	3789	8.169977	ACAAACACAGACATACAGATTGAAAT	57.830	30.769	0.00	0.00	0.00	2.17
3566	3790	7.566760	ACAAACACAGACATACAGATTGAAA	57.433	32.000	0.00	0.00	0.00	2.69
3567	3791	7.281999	TGAACAAACACAGACATACAGATTGAA	59.718	33.333	0.00	0.00	0.00	2.69
3568	3792	6.765512	TGAACAAACACAGACATACAGATTGA	59.234	34.615	0.00	0.00	0.00	2.57
3569	3793	6.852853	GTGAACAAACACAGACATACAGATTG	59.147	38.462	0.00	0.00	40.11	2.67
3573	3797	5.523552	TGAGTGAACAAACACAGACATACAG	59.476	40.000	0.00	0.00	42.45	2.74
3574	3798	5.423886	TGAGTGAACAAACACAGACATACA	58.576	37.500	0.00	0.00	42.45	2.29
3575	3799	5.984233	TGAGTGAACAAACACAGACATAC	57.016	39.130	0.00	0.00	42.45	2.39
3579	6559	5.879237	TGAAATGAGTGAACAAACACAGAC	58.121	37.500	0.00	0.00	42.45	3.51
3581	6561	7.166970	CAGATTGAAATGAGTGAACAAACACAG	59.833	37.037	0.00	0.00	42.45	3.66
3664	6677	8.768955	GCATGTTTATTTTTATGTTGTGTCCAA	58.231	29.630	0.00	0.00	0.00	3.53
3682	6698	5.798125	TGGATGGAGTTTTTGCATGTTTA	57.202	34.783	0.00	0.00	38.05	2.01
3790	7843	3.101437	TCTTGTATGTGGGTGATACGGT	58.899	45.455	0.00	0.00	0.00	4.83
3808	7861	7.500559	GGTATGCCTTGTATTCTCTGAATTCTT	59.499	37.037	7.05	0.00	0.00	2.52
3937	7990	5.048846	TCCTCCCCTGTAATTTTATCAGC	57.951	43.478	0.00	0.00	0.00	4.26
3991	8044	5.078411	AGATATGGACGCTATGGTGATTC	57.922	43.478	0.00	0.00	0.00	2.52
4131	8184	1.610102	GGCTGCTTGAGATCTGTGTGT	60.610	52.381	0.00	0.00	0.00	3.72
4162	8215	4.201980	GGTGAACCAAAAGTAACTCCACAC	60.202	45.833	0.00	0.00	35.64	3.82
4197	8250	2.579207	TTGTCGCTAGGTATGTCAGC	57.421	50.000	0.00	0.00	0.00	4.26
4212	8265	2.074547	TCCGGTTGATCTCGTTTGTC	57.925	50.000	0.00	0.00	0.00	3.18

Based at the University of Bristol with support from BBSRC.

AutoCloner maintained by Alex Coulton.