AutoCloner

Multiple sequence alignment - TraesCS7D01G162500

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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	TraesCS7D01G162500	chr7D	100.000	4517	0	0	1	4517	112427598	112432114	0.000000e+00	8342.0
1	TraesCS7D01G162500	chr7D	93.465	505	28	3	4009	4508	418619196	418618692	0.000000e+00	745.0
2	TraesCS7D01G162500	chr7D	93.227	502	29	3	4009	4507	374149669	374149170	0.000000e+00	734.0
3	TraesCS7D01G162500	chr7D	98.077	52	0	1	2605	2656	73460737	73460687	6.220000e-14	89.8
4	TraesCS7D01G162500	chr7B	96.450	3972	111	16	1	3956	72236344	72240301	0.000000e+00	6527.0
5	TraesCS7D01G162500	chr7A	94.886	1623	59	8	2337	3953	117790241	117791845	0.000000e+00	2516.0
6	TraesCS7D01G162500	chr7A	91.978	1795	90	19	331	2088	117787891	117789668	0.000000e+00	2468.0
7	TraesCS7D01G162500	chr7A	92.843	503	29	5	4008	4507	661856554	661857052	0.000000e+00	723.0
8	TraesCS7D01G162500	chr7A	88.321	274	26	5	1	270	117787367	117787638	1.570000e-84	324.0
9	TraesCS7D01G162500	chr7A	87.770	278	28	3	1996	2269	117789672	117789947	2.030000e-83	320.0
10	TraesCS7D01G162500	chr7A	98.148	54	0	1	2605	2658	565424568	565424516	4.810000e-15	93.5
11	TraesCS7D01G162500	chr7A	96.364	55	1	1	2602	2656	197392651	197392704	6.220000e-14	89.8
12	TraesCS7D01G162500	chr7A	93.103	58	2	2	2605	2661	667212578	667212522	2.900000e-12	84.2
13	TraesCS7D01G162500	chr1D	93.452	504	29	2	4006	4506	283421095	283421597	0.000000e+00	745.0
14	TraesCS7D01G162500	chr1D	93.241	503	27	4	4009	4507	365327428	365327927	0.000000e+00	734.0
15	TraesCS7D01G162500	chr5A	92.717	508	33	4	4009	4512	620283377	620282870	0.000000e+00	730.0
16	TraesCS7D01G162500	chr5A	96.296	54	1	1	2602	2655	680119275	680119327	2.240000e-13	87.9
17	TraesCS7D01G162500	chr3D	92.871	505	33	2	4006	4507	251620050	251620554	0.000000e+00	730.0
18	TraesCS7D01G162500	chr3D	87.342	79	9	1	2345	2422	469482391	469482469	6.220000e-14	89.8
19	TraesCS7D01G162500	chr2D	93.042	503	29	4	4009	4507	596815769	596816269	0.000000e+00	730.0
20	TraesCS7D01G162500	chr2D	85.401	137	12	7	2347	2480	448141502	448141633	7.880000e-28	135.0
21	TraesCS7D01G162500	chr1B	92.843	503	30	4	4010	4507	256912327	256912828	0.000000e+00	725.0
22	TraesCS7D01G162500	chr2A	85.401	137	12	7	2347	2480	592783216	592783347	7.880000e-28	135.0
23	TraesCS7D01G162500	chr2A	96.364	55	2	0	2602	2656	449151340	449151394	1.730000e-14	91.6
24	TraesCS7D01G162500	chr2B	84.783	138	13	7	2347	2481	527886976	527887108	1.020000e-26	132.0
25	TraesCS7D01G162500	chr6A	98.077	52	0	1	2605	2656	276010057	276010007	6.220000e-14	89.8
26	TraesCS7D01G162500	chr3B	84.615	78	12	0	2345	2422	623826989	623827066	1.350000e-10	78.7

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	TraesCS7D01G162500	chr7D	112427598	112432114	4516	False	8342	8342	100.00000	1	4517	1	chr7D.!!$F1	4516
1	TraesCS7D01G162500	chr7D	418618692	418619196	504	True	745	745	93.46500	4009	4508	1	chr7D.!!$R3	499
2	TraesCS7D01G162500	chr7B	72236344	72240301	3957	False	6527	6527	96.45000	1	3956	1	chr7B.!!$F1	3955
3	TraesCS7D01G162500	chr7A	117787367	117791845	4478	False	1407	2516	90.73875	1	3953	4	chr7A.!!$F3	3952
4	TraesCS7D01G162500	chr1D	283421095	283421597	502	False	745	745	93.45200	4006	4506	1	chr1D.!!$F1	500
5	TraesCS7D01G162500	chr5A	620282870	620283377	507	True	730	730	92.71700	4009	4512	1	chr5A.!!$R1	503
6	TraesCS7D01G162500	chr3D	251620050	251620554	504	False	730	730	92.87100	4006	4507	1	chr3D.!!$F1	501
7	TraesCS7D01G162500	chr2D	596815769	596816269	500	False	730	730	93.04200	4009	4507	1	chr2D.!!$F2	498
8	TraesCS7D01G162500	chr1B	256912327	256912828	501	False	725	725	92.84300	4010	4507	1	chr1B.!!$F1	497

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
841	1060	0.107456	CGATAGATGGCCCAGCAACT	59.893	55.000	0.01	0.00	39.76	3.16	F
1519	1755	1.672356	GGCCGCAAAGCTCAAGAGA	60.672	57.895	0.32	0.00	0.00	3.10	F
2190	2529	1.911269	TCGACCAGTTGGCTAGGCA	60.911	57.895	16.16	16.16	39.32	4.75	F

Position	MSA Position	Penalty	Sequence	TM	GC	Hairpin	End Stability	Orientation
2190	2529	0.987294	TTTAGCCTGCTCCTGCTCTT	59.013	50.0	39.00	2.85	R
3062	3658	0.108662	CACGTCCTGTAGCAGCATCA	60.109	55.0	0.00	3.07	R
3956	4560	0.036294	GGCTTGTCCTAGCGAAACCT	60.036	55.0	42.15	3.50	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
156	159	7.143340	TGAATTCTTTTGATGTGCAAGAAGAG	58.857	34.615	7.05	0.00	39.34	2.85
245	248	6.198650	TCAATGTGCATAACTCAGGAAATG	57.801	37.500	0.00	0.00	0.00	2.32
443	654	1.546923	CTCACAAAATGGATGGCAGCA	59.453	47.619	4.64	0.00	0.00	4.41
710	929	2.697761	CCGCCGTCTTCTTCTCCGA	61.698	63.158	0.00	0.00	0.00	4.55
841	1060	0.107456	CGATAGATGGCCCAGCAACT	59.893	55.000	0.01	0.00	39.76	3.16
851	1070	2.100631	CCAGCAACTAACGGCTCGG	61.101	63.158	0.00	0.00	38.56	4.63
1102	1332	3.491652	GCGCCACGGAAGCTCTTC	61.492	66.667	0.00	1.12	38.80	2.87
1115	1345	4.273318	GAAGCTCTTCCTCTCTCTCTCTT	58.727	47.826	0.00	0.00	33.64	2.85
1194	1424	6.130058	GTGGAAGAATAGAATCGATTTTCGC	58.870	40.000	12.81	9.50	40.21	4.70
1197	1427	4.369182	AGAATAGAATCGATTTTCGCGGT	58.631	39.130	12.81	0.00	40.21	5.68
1385	1615	4.624452	GTCAACGTAGGCGATTTCTTTACT	59.376	41.667	0.00	0.00	42.00	2.24
1387	1617	2.928116	ACGTAGGCGATTTCTTTACTGC	59.072	45.455	0.00	0.00	42.00	4.40
1420	1650	7.456725	TCTTCTCTCTTCTGATTTGGTGATTT	58.543	34.615	0.00	0.00	0.00	2.17
1423	1653	6.432162	TCTCTCTTCTGATTTGGTGATTTTGG	59.568	38.462	0.00	0.00	0.00	3.28
1519	1755	1.672356	GGCCGCAAAGCTCAAGAGA	60.672	57.895	0.32	0.00	0.00	3.10
1636	1872	5.471116	TGTGGTTGTGATCTTTCTTCTCATG	59.529	40.000	0.00	0.00	0.00	3.07
1745	1985	5.628193	CAGCACACAAATAAGCTTCTTTCTG	59.372	40.000	0.00	6.63	34.61	3.02
2190	2529	1.911269	TCGACCAGTTGGCTAGGCA	60.911	57.895	16.16	16.16	39.32	4.75
2582	3177	5.499004	AAAAGTAATAGCCAGAGGTGTGA	57.501	39.130	0.00	0.00	0.00	3.58
2676	3271	4.451629	AGTAGTGGTGTAGTGATTTCCG	57.548	45.455	0.00	0.00	0.00	4.30
2981	3577	7.181569	TGTACAACCATGAAGATGTATCTGA	57.818	36.000	0.00	0.00	37.19	3.27
3062	3658	0.472471	TGTTCTCCTGGAAAGGCGTT	59.528	50.000	0.00	0.00	35.51	4.84
3203	3799	3.180507	TGGGAATTTCCTTTTGGGGATG	58.819	45.455	14.95	0.00	40.87	3.51
3411	4011	7.419172	GCTGTTCTATGTTCTCTAATACCCCTT	60.419	40.741	0.00	0.00	0.00	3.95
3444	4044	6.491745	TGTTTCTGTTGCAGGTTGGAATTATA	59.508	34.615	0.00	0.00	28.47	0.98
3554	4154	6.872920	TGAAGTAAATGTTGTTGGAGCTTTT	58.127	32.000	0.00	0.00	0.00	2.27
3569	4169	4.564769	GGAGCTTTTATCTTCTCTCACACG	59.435	45.833	0.00	0.00	0.00	4.49
3570	4170	4.499183	AGCTTTTATCTTCTCTCACACGG	58.501	43.478	0.00	0.00	0.00	4.94
3581	4181	4.116961	TCTCTCACACGGTTTTGTACTTG	58.883	43.478	0.00	0.00	0.00	3.16
3628	4228	2.229543	TGCAGCACCATTGTTTCAGATC	59.770	45.455	0.00	0.00	0.00	2.75
3805	4406	7.149015	GCAATGATGTTCTATCGATTTGATTGC	60.149	37.037	1.71	10.31	38.57	3.56
3855	4457	3.254892	TGGAGCACCGTTTTTGTTTTTC	58.745	40.909	0.00	0.00	39.42	2.29
3872	4474	1.305219	TTCTTTCGCCCGGAGCATTG	61.305	55.000	0.73	0.00	44.04	2.82
3890	4492	5.851047	CATTGGGAATGCTTTTTCTTCAC	57.149	39.130	0.00	0.00	31.20	3.18
3891	4493	3.641437	TGGGAATGCTTTTTCTTCACG	57.359	42.857	0.00	0.00	0.00	4.35
3902	4505	6.756074	TGCTTTTTCTTCACGAAATTGTTCAT	59.244	30.769	0.00	0.00	41.04	2.57
3959	4563	9.462606	AAAAGAATTCGGACTATTTTGATAGGT	57.537	29.630	0.00	0.00	0.00	3.08
3960	4564	9.462606	AAAGAATTCGGACTATTTTGATAGGTT	57.537	29.630	0.00	0.00	0.00	3.50
3961	4565	9.462606	AAGAATTCGGACTATTTTGATAGGTTT	57.537	29.630	0.00	0.00	0.00	3.27
3962	4566	9.110502	AGAATTCGGACTATTTTGATAGGTTTC	57.889	33.333	0.00	0.00	0.00	2.78
3963	4567	6.897259	TTCGGACTATTTTGATAGGTTTCG	57.103	37.500	0.00	0.00	0.00	3.46
3964	4568	4.807304	TCGGACTATTTTGATAGGTTTCGC	59.193	41.667	0.00	0.00	0.00	4.70
3965	4569	4.809426	CGGACTATTTTGATAGGTTTCGCT	59.191	41.667	0.00	0.00	0.00	4.93
3966	4570	5.981315	CGGACTATTTTGATAGGTTTCGCTA	59.019	40.000	0.00	0.00	0.00	4.26
3967	4571	6.144080	CGGACTATTTTGATAGGTTTCGCTAG	59.856	42.308	0.00	0.00	0.00	3.42
3968	4572	6.424207	GGACTATTTTGATAGGTTTCGCTAGG	59.576	42.308	0.00	0.00	0.00	3.02
3969	4573	7.120923	ACTATTTTGATAGGTTTCGCTAGGA	57.879	36.000	0.00	0.00	0.00	2.94
3970	4574	6.985059	ACTATTTTGATAGGTTTCGCTAGGAC	59.015	38.462	0.00	0.00	0.00	3.85
3971	4575	4.811969	TTTGATAGGTTTCGCTAGGACA	57.188	40.909	0.00	0.00	0.00	4.02
3972	4576	4.811969	TTGATAGGTTTCGCTAGGACAA	57.188	40.909	0.00	0.00	0.00	3.18
3973	4577	4.386867	TGATAGGTTTCGCTAGGACAAG	57.613	45.455	0.00	0.00	0.00	3.16
3974	4578	2.667473	TAGGTTTCGCTAGGACAAGC	57.333	50.000	0.00	0.00	39.21	4.01
3975	4579	0.036294	AGGTTTCGCTAGGACAAGCC	60.036	55.000	0.00	0.00	39.43	4.35
3986	4590	1.909700	GGACAAGCCTTTGACCATCA	58.090	50.000	3.00	0.00	44.96	3.07
3987	4591	2.238521	GGACAAGCCTTTGACCATCAA	58.761	47.619	3.00	0.00	44.96	2.57
3988	4592	2.827921	GGACAAGCCTTTGACCATCAAT	59.172	45.455	3.00	0.00	44.96	2.57
3989	4593	4.016444	GGACAAGCCTTTGACCATCAATA	58.984	43.478	3.00	0.00	44.96	1.90
3990	4594	4.462483	GGACAAGCCTTTGACCATCAATAA	59.538	41.667	3.00	0.00	44.96	1.40
3991	4595	5.391312	ACAAGCCTTTGACCATCAATAAC	57.609	39.130	0.00	0.00	36.11	1.89
3992	4596	5.079643	ACAAGCCTTTGACCATCAATAACT	58.920	37.500	0.00	0.00	36.11	2.24
3993	4597	5.183904	ACAAGCCTTTGACCATCAATAACTC	59.816	40.000	0.00	0.00	36.11	3.01
3994	4598	5.184892	AGCCTTTGACCATCAATAACTCT	57.815	39.130	0.00	0.00	36.11	3.24
3995	4599	6.313519	AGCCTTTGACCATCAATAACTCTA	57.686	37.500	0.00	0.00	36.11	2.43
3996	4600	6.904626	AGCCTTTGACCATCAATAACTCTAT	58.095	36.000	0.00	0.00	36.11	1.98
3997	4601	8.034313	AGCCTTTGACCATCAATAACTCTATA	57.966	34.615	0.00	0.00	36.11	1.31
3998	4602	8.494433	AGCCTTTGACCATCAATAACTCTATAA	58.506	33.333	0.00	0.00	36.11	0.98
3999	4603	9.289782	GCCTTTGACCATCAATAACTCTATAAT	57.710	33.333	0.00	0.00	36.11	1.28
4117	4721	9.783256	GTAATCCCATGTGTAAAAACTAATGAC	57.217	33.333	0.00	0.00	0.00	3.06
4144	4748	8.487313	TCTCGAGAATTTTATCGGAAAAATGA	57.513	30.769	14.01	3.19	41.76	2.57
4208	4816	4.592997	TGAGAGATAAGGTGAGGAGTGA	57.407	45.455	0.00	0.00	0.00	3.41
4255	4863	2.828868	GCGTAGGCATGGGGATGA	59.171	61.111	1.75	0.00	39.62	2.92
4261	4869	2.440065	GCATGGGGATGAACGGCA	60.440	61.111	0.00	0.00	0.00	5.69
4300	4909	3.181440	TGCCAGATTGTTCCAGAGACTTT	60.181	43.478	0.00	0.00	0.00	2.66
4341	4950	2.915869	TGAGGTTGTGGGAGATAAGGT	58.084	47.619	0.00	0.00	0.00	3.50
4438	5049	8.462811	TGCTTTCTATTCGTGAGATATAGATCC	58.537	37.037	0.00	0.00	38.62	3.36

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
156	159	6.599244	TGTTTGTAACTCCATGGATTCTGATC	59.401	38.462	16.63	3.94	0.00	2.92
344	509	6.424509	CCATTGTTTGTGAGTGTTGCATTATT	59.575	34.615	0.00	0.00	0.00	1.40
443	654	5.652452	AGTGGCTCTTCAGTTTTTGTTAGTT	59.348	36.000	0.00	0.00	0.00	2.24
710	929	4.827087	CCATGGCGCTGTCGAGCT	62.827	66.667	7.64	0.00	43.77	4.09
841	1060	2.719979	GAGCGATCCGAGCCGTTA	59.280	61.111	0.00	0.00	34.64	3.18
866	1085	0.250901	CAGGTAAGGTGCCTTGTGCT	60.251	55.000	13.34	0.00	42.00	4.40
923	1142	4.360405	ATGGGTTCGTGGGTGGGC	62.360	66.667	0.00	0.00	0.00	5.36
1102	1332	4.402474	GGGAAAGAAGAAGAGAGAGAGAGG	59.598	50.000	0.00	0.00	0.00	3.69
1194	1424	2.172717	AGTAATCCCCCTCAATTCACCG	59.827	50.000	0.00	0.00	0.00	4.94
1197	1427	3.469859	TCCAGTAATCCCCCTCAATTCA	58.530	45.455	0.00	0.00	0.00	2.57
1385	1615	1.006813	AGAGAGAAGAGAGGGAGGCA	58.993	55.000	0.00	0.00	0.00	4.75
1387	1617	3.053693	TCAGAAGAGAGAAGAGAGGGAGG	60.054	52.174	0.00	0.00	0.00	4.30
1519	1755	0.979665	TCTCTTTAGCAGCAGCCAGT	59.020	50.000	0.00	0.00	43.56	4.00
2033	2273	4.763073	CAGACATTAGGCAGTCAATGAGA	58.237	43.478	1.58	0.00	37.23	3.27
2190	2529	0.987294	TTTAGCCTGCTCCTGCTCTT	59.013	50.000	0.00	0.00	39.00	2.85
2220	2559	2.203972	CTCGAACGTAGGTTGGCGGA	62.204	60.000	5.36	0.00	36.24	5.54
2298	2890	5.468746	TCTCTGAAAATACTTTGACCAACCG	59.531	40.000	0.00	0.00	0.00	4.44
2493	3086	6.815641	ACACTTGTGTTTATATGAGCTCTCAG	59.184	38.462	16.19	0.00	43.61	3.35
2582	3177	4.944317	TGACATCGACAGTCTATCTCTGTT	59.056	41.667	17.59	0.00	44.68	3.16
2981	3577	4.279671	TGCCTTAATGATGTGTTTTTCCGT	59.720	37.500	0.00	0.00	0.00	4.69
3062	3658	0.108662	CACGTCCTGTAGCAGCATCA	60.109	55.000	0.00	0.00	0.00	3.07
3216	3812	6.267817	CCAATCCTGCAAGTTTATGTATGTG	58.732	40.000	0.00	0.00	0.00	3.21
3217	3813	5.163519	GCCAATCCTGCAAGTTTATGTATGT	60.164	40.000	0.00	0.00	0.00	2.29
3218	3814	5.163530	TGCCAATCCTGCAAGTTTATGTATG	60.164	40.000	0.00	0.00	35.40	2.39
3219	3815	4.955450	TGCCAATCCTGCAAGTTTATGTAT	59.045	37.500	0.00	0.00	35.40	2.29
3411	4011	3.573598	CTGCAACAGAAACACAAACACA	58.426	40.909	0.00	0.00	32.44	3.72
3444	4044	4.273318	GAGAGGTCAAAAATAGCCATGGT	58.727	43.478	14.67	2.69	0.00	3.55
3554	4154	5.209818	ACAAAACCGTGTGAGAGAAGATA	57.790	39.130	0.00	0.00	0.00	1.98
3569	4169	6.617879	ACAGAAAAGTCACAAGTACAAAACC	58.382	36.000	0.00	0.00	0.00	3.27
3570	4170	7.481798	CAGACAGAAAAGTCACAAGTACAAAAC	59.518	37.037	0.00	0.00	40.98	2.43
3581	4181	5.297547	TGTACCATCAGACAGAAAAGTCAC	58.702	41.667	0.00	0.00	40.98	3.67
3628	4228	7.645340	CACAACATTTTTACAGAAAGTGAGAGG	59.355	37.037	1.79	0.00	0.00	3.69
3805	4406	6.857964	AGACTAATTTTGAAAGCACATTCGTG	59.142	34.615	0.00	0.00	46.56	4.35
3855	4457	2.764314	CCAATGCTCCGGGCGAAAG	61.764	63.158	0.00	0.00	45.43	2.62
3872	4474	3.915437	TCGTGAAGAAAAAGCATTCCC	57.085	42.857	0.00	0.00	0.00	3.97
3889	4491	4.323417	TCTACAGGCATGAACAATTTCGT	58.677	39.130	4.84	0.00	34.04	3.85
3890	4492	4.944962	TCTACAGGCATGAACAATTTCG	57.055	40.909	4.84	0.00	34.04	3.46
3891	4493	6.012658	TGTTCTACAGGCATGAACAATTTC	57.987	37.500	4.84	0.00	44.44	2.17
3902	4505	4.397420	ACATGTTGAATGTTCTACAGGCA	58.603	39.130	17.28	0.00	44.35	4.75
3937	4541	8.062448	CGAAACCTATCAAAATAGTCCGAATTC	58.938	37.037	0.00	0.00	34.20	2.17
3943	4547	6.424207	CCTAGCGAAACCTATCAAAATAGTCC	59.576	42.308	0.00	0.00	34.20	3.85
3956	4560	0.036294	GGCTTGTCCTAGCGAAACCT	60.036	55.000	0.00	0.00	42.15	3.50
3957	4561	0.036294	AGGCTTGTCCTAGCGAAACC	60.036	55.000	0.00	0.00	45.41	3.27
3958	4562	1.809684	AAGGCTTGTCCTAGCGAAAC	58.190	50.000	0.00	0.00	46.94	2.78
3959	4563	2.151202	CAAAGGCTTGTCCTAGCGAAA	58.849	47.619	0.00	0.00	46.94	3.46
3960	4564	1.346395	TCAAAGGCTTGTCCTAGCGAA	59.654	47.619	0.00	0.00	46.94	4.70
3961	4565	0.973632	TCAAAGGCTTGTCCTAGCGA	59.026	50.000	0.00	0.00	46.94	4.93
3962	4566	1.079503	GTCAAAGGCTTGTCCTAGCG	58.920	55.000	0.00	0.00	46.94	4.26
3963	4567	1.271379	TGGTCAAAGGCTTGTCCTAGC	60.271	52.381	0.00	0.00	46.94	3.42
3964	4568	2.859165	TGGTCAAAGGCTTGTCCTAG	57.141	50.000	0.00	0.00	46.94	3.02
3965	4569	2.642311	TGATGGTCAAAGGCTTGTCCTA	59.358	45.455	0.00	0.00	46.94	2.94
3967	4571	1.909700	TGATGGTCAAAGGCTTGTCC	58.090	50.000	0.00	4.61	40.13	4.02
3968	4572	5.183904	AGTTATTGATGGTCAAAGGCTTGTC	59.816	40.000	0.00	0.00	40.12	3.18
3969	4573	5.079643	AGTTATTGATGGTCAAAGGCTTGT	58.920	37.500	0.00	0.00	40.12	3.16
3970	4574	5.416952	AGAGTTATTGATGGTCAAAGGCTTG	59.583	40.000	0.00	0.00	40.12	4.01
3971	4575	5.574188	AGAGTTATTGATGGTCAAAGGCTT	58.426	37.500	0.00	0.00	40.12	4.35
3972	4576	5.184892	AGAGTTATTGATGGTCAAAGGCT	57.815	39.130	0.00	0.00	40.12	4.58
3973	4577	8.677148	TTATAGAGTTATTGATGGTCAAAGGC	57.323	34.615	0.00	0.00	40.12	4.35
3997	4601	8.712363	CGTGCATCTTGCTAGTACAATATTATT	58.288	33.333	0.00	0.00	45.31	1.40
3998	4602	7.872993	ACGTGCATCTTGCTAGTACAATATTAT	59.127	33.333	0.00	0.00	45.31	1.28
3999	4603	7.169140	CACGTGCATCTTGCTAGTACAATATTA	59.831	37.037	0.82	0.00	45.31	0.98
4000	4604	6.018751	CACGTGCATCTTGCTAGTACAATATT	60.019	38.462	0.82	0.00	45.31	1.28
4001	4605	5.463392	CACGTGCATCTTGCTAGTACAATAT	59.537	40.000	0.82	0.00	45.31	1.28
4002	4606	4.803613	CACGTGCATCTTGCTAGTACAATA	59.196	41.667	0.82	0.00	45.31	1.90
4003	4607	3.618594	CACGTGCATCTTGCTAGTACAAT	59.381	43.478	0.82	0.00	45.31	2.71
4004	4608	2.993220	CACGTGCATCTTGCTAGTACAA	59.007	45.455	0.82	0.00	45.31	2.41
4007	4611	1.640428	GCACGTGCATCTTGCTAGTA	58.360	50.000	34.52	0.00	45.31	1.82
4117	4721	9.162793	CATTTTTCCGATAAAATTCTCGAGATG	57.837	33.333	17.44	1.00	35.98	2.90
4175	4780	5.534654	ACCTTATCTCTCATCTTTCTCGAGG	59.465	44.000	13.56	0.00	0.00	4.63
4208	4816	3.941188	CCAGTCACCACCACGCCT	61.941	66.667	0.00	0.00	0.00	5.52
4241	4849	1.836391	CCGTTCATCCCCATGCCTA	59.164	57.895	0.00	0.00	0.00	3.93
4275	4884	2.573009	TCTCTGGAACAATCTGGCATGA	59.427	45.455	0.00	0.00	38.70	3.07
4438	5049	5.989168	TGCCATCTTGTAATATAGACCGTTG	59.011	40.000	0.00	0.00	0.00	4.10

Based at the University of Bristol with support from BBSRC.

AutoCloner maintained by Alex Coulton.