AutoCloner

Multiple sequence alignment - TraesCS3A01G416000

Loading Multiple Alignment...

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	TraesCS3A01G416000	chr3A	100.000	3084	0	0	1	3084	658892970	658889887	0.000000e+00	5696.0
1	TraesCS3A01G416000	chr3D	91.613	2468	123	23	678	3084	524299780	524297336	0.000000e+00	3334.0
2	TraesCS3A01G416000	chr3D	100.000	31	0	0	1276	1306	39337567	39337537	1.190000e-04	58.4
3	TraesCS3A01G416000	chr3B	90.744	1318	63	16	1313	2576	691709646	691708334	0.000000e+00	1703.0
4	TraesCS3A01G416000	chr3B	89.299	813	49	12	2286	3084	691714639	691713851	0.000000e+00	985.0
5	TraesCS3A01G416000	chr3B	89.883	514	32	9	2590	3084	691708073	691707561	0.000000e+00	643.0
6	TraesCS3A01G416000	chr3B	88.106	454	26	7	774	1225	691715073	691714646	5.900000e-142	514.0
7	TraesCS3A01G416000	chr3B	87.234	282	20	4	1004	1274	691711284	691711008	1.070000e-79	307.0
8	TraesCS3A01G416000	chr3B	88.136	177	8	7	800	974	691711449	691711284	6.750000e-47	198.0
9	TraesCS3A01G416000	chr3B	93.694	111	7	0	678	788	691715206	691715096	1.900000e-37	167.0
10	TraesCS3A01G416000	chr3B	95.946	74	3	0	678	751	691736843	691736770	1.500000e-23	121.0
11	TraesCS3A01G416000	chr3B	97.143	35	0	1	1271	1305	819458582	819458615	1.190000e-04	58.4
12	TraesCS3A01G416000	chr7A	98.097	683	11	2	1	683	732848125	732847445	0.000000e+00	1188.0
13	TraesCS3A01G416000	chr7A	79.448	652	116	10	1827	2469	10358101	10357459	2.180000e-121	446.0
14	TraesCS3A01G416000	chr7A	89.844	256	26	0	1342	1597	10358617	10358362	2.290000e-86	329.0
15	TraesCS3A01G416000	chr7A	80.755	265	49	2	1334	1597	115503350	115503613	4.030000e-49	206.0
16	TraesCS3A01G416000	chr7B	98.091	681	12	1	1	681	123046196	123046875	0.000000e+00	1184.0
17	TraesCS3A01G416000	chr7B	100.000	30	0	0	1276	1305	672409861	672409890	4.300000e-04	56.5
18	TraesCS3A01G416000	chr6B	97.797	681	14	1	1	681	117779957	117779278	0.000000e+00	1173.0
19	TraesCS3A01G416000	chr6A	97.797	681	14	1	1	681	122684952	122685631	0.000000e+00	1173.0
20	TraesCS3A01G416000	chr5B	97.797	681	14	1	1	681	145844182	145844861	0.000000e+00	1173.0
21	TraesCS3A01G416000	chr5A	97.797	681	14	1	1	681	404328209	404328888	0.000000e+00	1173.0
22	TraesCS3A01G416000	chr5A	91.667	48	2	2	1271	1317	619169079	619169033	7.140000e-07	65.8
23	TraesCS3A01G416000	chr2A	97.797	681	14	1	1	681	58540501	58541180	0.000000e+00	1173.0
24	TraesCS3A01G416000	chr2A	97.797	681	14	1	1	681	64506103	64505424	0.000000e+00	1173.0
25	TraesCS3A01G416000	chr1B	97.797	681	14	1	1	681	628614094	628614773	0.000000e+00	1173.0
26	TraesCS3A01G416000	chr7D	81.439	264	49	0	1334	1597	110220648	110220911	1.860000e-52	217.0
27	TraesCS3A01G416000	chr7D	80.755	265	49	2	1334	1597	110285837	110286100	4.030000e-49	206.0
28	TraesCS3A01G416000	chr7D	100.000	28	0	0	1278	1305	540864156	540864183	6.000000e-03	52.8
29	TraesCS3A01G416000	chr2B	94.286	35	2	0	1271	1305	710325664	710325630	2.000000e-03	54.7
30	TraesCS3A01G416000	chr2D	100.000	28	0	0	1278	1305	109901795	109901768	6.000000e-03	52.8
31	TraesCS3A01G416000	chr1A	100.000	28	0	0	1278	1305	339097930	339097957	6.000000e-03	52.8

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	TraesCS3A01G416000	chr3A	658889887	658892970	3083	True	5696.000000	5696	100.000000	1	3084	1	chr3A.!!$R1	3083
1	TraesCS3A01G416000	chr3D	524297336	524299780	2444	True	3334.000000	3334	91.613000	678	3084	1	chr3D.!!$R2	2406
2	TraesCS3A01G416000	chr3B	691707561	691715206	7645	True	645.285714	1703	89.585143	678	3084	7	chr3B.!!$R2	2406
3	TraesCS3A01G416000	chr7A	732847445	732848125	680	True	1188.000000	1188	98.097000	1	683	1	chr7A.!!$R1	682
4	TraesCS3A01G416000	chr7A	10357459	10358617	1158	True	387.500000	446	84.646000	1342	2469	2	chr7A.!!$R2	1127
5	TraesCS3A01G416000	chr7B	123046196	123046875	679	False	1184.000000	1184	98.091000	1	681	1	chr7B.!!$F1	680
6	TraesCS3A01G416000	chr6B	117779278	117779957	679	True	1173.000000	1173	97.797000	1	681	1	chr6B.!!$R1	680
7	TraesCS3A01G416000	chr6A	122684952	122685631	679	False	1173.000000	1173	97.797000	1	681	1	chr6A.!!$F1	680
8	TraesCS3A01G416000	chr5B	145844182	145844861	679	False	1173.000000	1173	97.797000	1	681	1	chr5B.!!$F1	680
9	TraesCS3A01G416000	chr5A	404328209	404328888	679	False	1173.000000	1173	97.797000	1	681	1	chr5A.!!$F1	680
10	TraesCS3A01G416000	chr2A	58540501	58541180	679	False	1173.000000	1173	97.797000	1	681	1	chr2A.!!$F1	680
11	TraesCS3A01G416000	chr2A	64505424	64506103	679	True	1173.000000	1173	97.797000	1	681	1	chr2A.!!$R1	680
12	TraesCS3A01G416000	chr1B	628614094	628614773	679	False	1173.000000	1173	97.797000	1	681	1	chr1B.!!$F1	680

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
900	943	0.323087	TCTCCGTCGTCCATCTCCAA	60.323	55.0	0.0	0.0	0.0	3.53	F

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability	Orientation
2847	8144	0.038892	GTTGCAAGCACCCACATCAG	60.039	55.0	0.0	0.0	0.0	2.9	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
92	93	1.246737	CCCTTGCTGCCTCACCTTTC	61.247	60.000	0.00	0.00	0.00	2.62
229	230	4.637534	CCTGCTTTTCTGTATGTGTATGCT	59.362	41.667	0.00	0.00	0.00	3.79
589	590	3.181479	GGTCGCCAGTGTCACTTGATATA	60.181	47.826	8.22	0.00	0.00	0.86
690	691	4.380655	GGCGTTCTTCTAGTGAGCTTAAGA	60.381	45.833	6.67	0.00	0.00	2.10
900	943	0.323087	TCTCCGTCGTCCATCTCCAA	60.323	55.000	0.00	0.00	0.00	3.53
933	976	2.360350	GCCAGGCAGCAGCAGTAA	60.360	61.111	6.55	0.00	44.61	2.24
1041	1084	4.379243	CCGTCCCACGAGCTGCTT	62.379	66.667	2.53	0.00	46.05	3.91
1069	4694	3.068691	CGGCCGTCTCTCTTCCCA	61.069	66.667	19.50	0.00	0.00	4.37
1134	4767	2.359230	GACGCTGGCAAGGAGCTT	60.359	61.111	0.00	0.00	44.79	3.74
1166	4799	3.506067	CAGGTCAGACCAATTTAACCACC	59.494	47.826	22.31	0.00	41.95	4.61
1167	4800	3.139397	AGGTCAGACCAATTTAACCACCA	59.861	43.478	22.31	0.00	41.95	4.17
1168	4801	3.254903	GGTCAGACCAATTTAACCACCAC	59.745	47.826	15.43	0.00	38.42	4.16
1199	4832	7.201496	CCAAGCATCTTGTCTTGATTAATTTGC	60.201	37.037	5.92	0.00	41.50	3.68
1203	4836	5.698832	TCTTGTCTTGATTAATTTGCCACG	58.301	37.500	0.00	0.00	0.00	4.94
1212	4845	5.419155	TGATTAATTTGCCACGGGTATTTCA	59.581	36.000	0.00	0.00	0.00	2.69
1225	4858	6.919662	CACGGGTATTTCATTACGTATGTACT	59.080	38.462	0.00	0.00	35.64	2.73
1227	4860	8.629158	ACGGGTATTTCATTACGTATGTACTAA	58.371	33.333	0.00	0.00	35.64	2.24
1228	4861	9.630098	CGGGTATTTCATTACGTATGTACTAAT	57.370	33.333	0.00	0.00	35.64	1.73
1274	4987	8.383619	GCAAGCATCAGTATATTTATTACTCCG	58.616	37.037	0.00	0.00	0.00	4.63
1275	4988	8.873830	CAAGCATCAGTATATTTATTACTCCGG	58.126	37.037	0.00	0.00	0.00	5.14
1307	6266	9.674824	AATATAAGAACGTTTAGATCACTACGG	57.325	33.333	0.46	1.94	0.00	4.02
1310	6269	4.940046	AGAACGTTTAGATCACTACGGAGA	59.060	41.667	0.00	0.00	0.00	3.71
1317	6276	4.879104	AGATCACTACGGAGAAAGTACG	57.121	45.455	0.00	0.00	0.00	3.67
1336	6295	3.325870	ACGTATAAGCATGCGCATATGT	58.674	40.909	24.84	23.09	43.20	2.29
1376	6335	1.153289	GTCCCTGAGCATGCGATGT	60.153	57.895	13.01	0.00	0.00	3.06
1381	6340	0.534427	CTGAGCATGCGATGTGGGAT	60.534	55.000	13.01	0.00	0.00	3.85
1454	6413	3.283751	CCCTTCTACTCAGACGACAGAT	58.716	50.000	0.00	0.00	0.00	2.90
1515	6474	2.092882	GCGGCGACAAGTACTGGAC	61.093	63.158	12.98	0.00	0.00	4.02
1638	6625	7.807687	TCATAACTCGCTAGTTTTTGTCTAC	57.192	36.000	9.11	0.00	43.60	2.59
1681	6684	4.383850	AGAGAGTCGATGAAACCATCTG	57.616	45.455	0.00	0.00	38.57	2.90
1684	6687	4.248859	AGAGTCGATGAAACCATCTGTTG	58.751	43.478	0.00	0.00	38.57	3.33
1699	6703	5.508489	CCATCTGTTGTCATAATTCCATGCC	60.508	44.000	0.00	0.00	0.00	4.40
1700	6704	3.627123	TCTGTTGTCATAATTCCATGCCG	59.373	43.478	0.00	0.00	0.00	5.69
1701	6705	3.615155	TGTTGTCATAATTCCATGCCGA	58.385	40.909	0.00	0.00	0.00	5.54
1702	6706	4.206375	TGTTGTCATAATTCCATGCCGAT	58.794	39.130	0.00	0.00	0.00	4.18
1703	6707	4.644234	TGTTGTCATAATTCCATGCCGATT	59.356	37.500	0.00	0.00	0.00	3.34
1753	6757	9.627123	TGGTGGAGAGGTAATCTTAATTTATTG	57.373	33.333	0.00	0.00	38.84	1.90
1795	6805	1.344763	AGGGAGGTTGTCGAGAAGTTG	59.655	52.381	0.00	0.00	0.00	3.16
1921	6956	0.107017	ATGCTCAAACCTGGATCCGG	60.107	55.000	14.26	14.26	0.00	5.14
1954	6989	4.168291	TGCCGCCACACTGTGACA	62.168	61.111	15.86	1.00	35.23	3.58
1985	7020	3.851128	GCTCCTCCTACCCGGTGC	61.851	72.222	0.00	0.00	33.35	5.01
2020	7055	1.689273	AGGTCTCATACAAGGGCGATC	59.311	52.381	0.00	0.00	0.00	3.69
2269	7310	1.137697	TCATCCAGCCTGATGCAGAT	58.862	50.000	7.94	0.00	44.83	2.90
2302	7343	1.604023	AGCGGAGGAGTTCGTCAGT	60.604	57.895	4.46	0.00	32.79	3.41
2338	7379	1.677552	CTACCGCACCCTCACCTTT	59.322	57.895	0.00	0.00	0.00	3.11
2448	7489	9.632638	ACTAGACAAAAATATATGAAGCACCAT	57.367	29.630	0.00	0.00	0.00	3.55
2486	7527	3.945285	ACGATGGGGTTTATGATTGTCAC	59.055	43.478	0.00	0.00	0.00	3.67
2504	7545	2.428890	TCACCGTTTGTTTGCCAAATCT	59.571	40.909	0.00	0.00	44.50	2.40
2518	7559	4.402155	TGCCAAATCTTTCAACACTCAGTT	59.598	37.500	0.00	0.00	42.42	3.16
2546	7587	3.840991	AGCTACCTACCCGATGTTGATA	58.159	45.455	0.00	0.00	0.00	2.15
2583	7627	9.017669	GTACGTTTGGTGATACTAGTAATCTTG	57.982	37.037	6.70	0.00	0.00	3.02
2585	7629	7.544566	ACGTTTGGTGATACTAGTAATCTTGTG	59.455	37.037	6.70	0.00	32.55	3.33
2586	7630	7.758076	CGTTTGGTGATACTAGTAATCTTGTGA	59.242	37.037	6.70	0.00	32.55	3.58
2587	7631	9.601217	GTTTGGTGATACTAGTAATCTTGTGAT	57.399	33.333	6.70	0.00	32.55	3.06
2630	7921	4.784394	GCATGTGCATCTTGATGTCGTAAG	60.784	45.833	11.61	0.00	41.59	2.34
2650	7941	9.647797	TCGTAAGAGAGTTTGCATAAGAATTTA	57.352	29.630	0.00	0.00	45.01	1.40
2656	7947	8.693542	AGAGTTTGCATAAGAATTTATTGTGC	57.306	30.769	15.82	15.82	42.91	4.57
2672	7968	5.981088	ATTGTGCAAATTGACCATAGTGA	57.019	34.783	0.00	0.00	0.00	3.41
2674	7970	5.375417	TGTGCAAATTGACCATAGTGAAG	57.625	39.130	0.00	0.00	0.00	3.02
2681	7977	7.062255	GCAAATTGACCATAGTGAAGTTTTAGC	59.938	37.037	0.00	0.00	24.40	3.09
2835	8132	4.143543	TGCTCCATTTCAAGAACATGACA	58.856	39.130	0.00	0.00	0.00	3.58
2847	8144	6.653320	TCAAGAACATGACACCTTACATAACC	59.347	38.462	0.00	0.00	0.00	2.85
2891	8188	2.039084	CCAAACTCACTTCTAGGCCACT	59.961	50.000	5.01	0.00	0.00	4.00
2897	8194	2.695666	TCACTTCTAGGCCACTGATAGC	59.304	50.000	5.01	0.00	0.00	2.97
2912	8209	2.757314	TGATAGCATGATCTAGCCGGAG	59.243	50.000	5.05	0.00	0.00	4.63
2939	8236	8.734386	CAGATAAAAAGTTAGAGGCACTTTCAT	58.266	33.333	1.71	0.00	42.47	2.57
2945	8242	6.426646	AGTTAGAGGCACTTTCATATAGGG	57.573	41.667	0.00	0.00	41.55	3.53
2947	8244	6.615726	AGTTAGAGGCACTTTCATATAGGGAA	59.384	38.462	0.00	0.00	41.55	3.97
2948	8245	5.297569	AGAGGCACTTTCATATAGGGAAC	57.702	43.478	0.00	0.00	41.55	3.62
2949	8246	4.721776	AGAGGCACTTTCATATAGGGAACA	59.278	41.667	0.00	0.00	41.55	3.18
2950	8247	5.370880	AGAGGCACTTTCATATAGGGAACAT	59.629	40.000	0.00	0.00	41.55	2.71
3005	8313	3.827302	ACATTATAGGCTAGGGTCTCACG	59.173	47.826	0.00	0.00	0.00	4.35
3029	8337	8.499162	ACGTTATCTTGAAAGACAGAAAGAATG	58.501	33.333	0.00	0.00	37.98	2.67
3054	8362	5.069516	GGCCTTCACCATACATTGATCAAAT	59.930	40.000	13.09	6.52	0.00	2.32

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
189	190	2.562398	GCACACACGCATCATGCA	59.438	55.556	11.00	0.00	45.36	3.96
247	248	6.872920	TCTATATCATACACACACAGCAACA	58.127	36.000	0.00	0.00	0.00	3.33
690	691	0.818296	AAATGTCTCGCGAGTAGCCT	59.182	50.000	33.33	15.23	44.76	4.58
700	701	3.187478	ACAATGCGAACAAATGTCTCG	57.813	42.857	11.26	11.26	34.30	4.04
792	833	0.249398	AGCGGTCGTTTGATAGGCTT	59.751	50.000	0.00	0.00	0.00	4.35
900	943	2.961062	CCTGGCATGCTTTTTATAGGCT	59.039	45.455	18.92	0.00	0.00	4.58
933	976	3.438087	GTGTTATCTGATTGCACTGCACT	59.562	43.478	2.26	0.00	38.71	4.40
1069	4694	0.538516	CCGAGGGAGAGGTCGATGAT	60.539	60.000	0.00	0.00	38.50	2.45
1134	4767	1.420138	GGTCTGACCTGGAAGAAACCA	59.580	52.381	19.53	0.00	34.73	3.67
1166	4799	1.210931	CAAGATGCTTGGCGTGGTG	59.789	57.895	0.00	0.00	0.00	4.17
1167	4800	1.228245	ACAAGATGCTTGGCGTGGT	60.228	52.632	11.40	0.00	0.00	4.16
1168	4801	0.957395	AGACAAGATGCTTGGCGTGG	60.957	55.000	11.40	0.00	31.33	4.94
1199	4832	5.051816	ACATACGTAATGAAATACCCGTGG	58.948	41.667	0.00	0.00	39.07	4.94
1225	4858	6.491062	TGCTACCACTAGACGCCTATTAATTA	59.509	38.462	0.00	0.00	0.00	1.40
1227	4860	4.831155	TGCTACCACTAGACGCCTATTAAT	59.169	41.667	0.00	0.00	0.00	1.40
1228	4861	4.209538	TGCTACCACTAGACGCCTATTAA	58.790	43.478	0.00	0.00	0.00	1.40
1229	4862	3.824133	TGCTACCACTAGACGCCTATTA	58.176	45.455	0.00	0.00	0.00	0.98
1230	4863	2.662866	TGCTACCACTAGACGCCTATT	58.337	47.619	0.00	0.00	0.00	1.73
1231	4864	2.359981	TGCTACCACTAGACGCCTAT	57.640	50.000	0.00	0.00	0.00	2.57
1305	6264	4.148348	GCATGCTTATACGTACTTTCTCCG	59.852	45.833	11.37	0.00	0.00	4.63
1307	6266	4.375105	GCGCATGCTTATACGTACTTTCTC	60.375	45.833	17.13	0.00	38.39	2.87
1310	6269	3.191669	TGCGCATGCTTATACGTACTTT	58.808	40.909	17.13	0.00	43.34	2.66
1317	6276	4.397382	CACACATATGCGCATGCTTATAC	58.603	43.478	32.48	0.38	38.87	1.47
1376	6335	1.383943	ACACCGCCTCCATATCCCA	60.384	57.895	0.00	0.00	0.00	4.37
1381	6340	3.071837	TCGCACACCGCCTCCATA	61.072	61.111	0.00	0.00	37.30	2.74
1426	6385	0.976641	CTGAGTAGAAGGGTGCCACA	59.023	55.000	0.00	0.00	0.00	4.17
1609	6587	8.142994	ACAAAAACTAGCGAGTTATGATATGG	57.857	34.615	23.11	8.51	45.50	2.74
1638	6625	4.891627	TCATTGGTTATTATGTGCCACG	57.108	40.909	0.00	0.00	0.00	4.94
1681	6684	4.836125	ATCGGCATGGAATTATGACAAC	57.164	40.909	0.00	0.00	35.77	3.32
1684	6687	5.392380	GGATGAATCGGCATGGAATTATGAC	60.392	44.000	0.00	0.00	32.57	3.06
1699	6703	6.913873	TGTATGCATATGATGGATGAATCG	57.086	37.500	10.16	0.00	41.64	3.34
1700	6704	8.129211	CACATGTATGCATATGATGGATGAATC	58.871	37.037	22.83	4.98	41.64	2.52
1701	6705	7.614192	ACACATGTATGCATATGATGGATGAAT	59.386	33.333	22.83	7.20	41.64	2.57
1702	6706	6.943718	ACACATGTATGCATATGATGGATGAA	59.056	34.615	22.83	0.00	41.64	2.57
1703	6707	6.373216	CACACATGTATGCATATGATGGATGA	59.627	38.462	22.83	0.00	41.64	2.92
1753	6757	2.422276	AACCAAGCGAAATCACAAGC	57.578	45.000	0.00	0.00	0.00	4.01
1795	6805	0.390340	TGCCTCTTGTGAGCACGATC	60.390	55.000	0.00	0.00	38.93	3.69
1954	6989	0.616111	AGGAGCGTGATGAGGTTCCT	60.616	55.000	4.49	4.49	41.41	3.36
1996	7031	1.340017	GCCCTTGTATGAGACCTGCAA	60.340	52.381	0.00	0.00	0.00	4.08
2302	7343	1.072505	GCGTCTGGGGTTTCCTTCA	59.927	57.895	0.00	0.00	36.20	3.02
2448	7489	1.766494	TCGTAAAGGCCTATCGTCCA	58.234	50.000	5.16	0.00	0.00	4.02
2504	7545	5.822519	AGCTTGATGTAACTGAGTGTTGAAA	59.177	36.000	0.00	0.00	39.55	2.69
2518	7559	3.301794	TCGGGTAGGTAGCTTGATGTA	57.698	47.619	0.00	0.00	0.00	2.29
2546	7587	9.903682	GTATCACCAAACGTACATGTATACTAT	57.096	33.333	9.18	0.00	0.00	2.12
2583	7627	7.276218	TGCCACGTGTAAAATTACTAGTATCAC	59.724	37.037	15.65	6.22	34.77	3.06
2585	7629	7.760131	TGCCACGTGTAAAATTACTAGTATC	57.240	36.000	15.65	0.00	34.77	2.24
2586	7630	7.767198	ACATGCCACGTGTAAAATTACTAGTAT	59.233	33.333	15.65	0.00	34.77	2.12
2587	7631	7.063662	CACATGCCACGTGTAAAATTACTAGTA	59.936	37.037	15.65	0.00	34.77	1.82
2588	7632	5.935789	ACATGCCACGTGTAAAATTACTAGT	59.064	36.000	15.65	0.00	34.77	2.57
2597	7888	1.198867	GATGCACATGCCACGTGTAAA	59.801	47.619	15.65	0.00	41.18	2.01
2630	7921	8.801913	GCACAATAAATTCTTATGCAAACTCTC	58.198	33.333	0.00	0.00	0.00	3.20
2647	7938	7.890515	TCACTATGGTCAATTTGCACAATAAA	58.109	30.769	0.00	0.00	0.00	1.40
2650	7941	5.981088	TCACTATGGTCAATTTGCACAAT	57.019	34.783	0.00	0.00	0.00	2.71
2651	7942	5.301551	ACTTCACTATGGTCAATTTGCACAA	59.698	36.000	0.00	0.00	0.00	3.33
2653	7944	5.376854	ACTTCACTATGGTCAATTTGCAC	57.623	39.130	0.00	0.00	0.00	4.57
2654	7945	6.403866	AAACTTCACTATGGTCAATTTGCA	57.596	33.333	0.00	0.00	0.00	4.08
2655	7946	7.062255	GCTAAAACTTCACTATGGTCAATTTGC	59.938	37.037	0.00	0.00	0.00	3.68
2656	7947	8.081633	TGCTAAAACTTCACTATGGTCAATTTG	58.918	33.333	0.00	0.00	0.00	2.32
2657	7948	8.177119	TGCTAAAACTTCACTATGGTCAATTT	57.823	30.769	0.00	0.00	0.00	1.82
2672	7968	6.431234	AGGTTCTCGATGATTTGCTAAAACTT	59.569	34.615	0.00	0.00	0.00	2.66
2674	7970	6.183309	AGGTTCTCGATGATTTGCTAAAAC	57.817	37.500	0.00	0.00	0.00	2.43
2681	7977	6.486253	TCAAGAAAGGTTCTCGATGATTTG	57.514	37.500	0.00	0.00	39.61	2.32
2808	8105	7.977853	GTCATGTTCTTGAAATGGAGCAATTAT	59.022	33.333	0.00	0.00	0.00	1.28
2835	8132	3.850173	ACCCACATCAGGTTATGTAAGGT	59.150	43.478	0.00	0.00	39.27	3.50
2847	8144	0.038892	GTTGCAAGCACCCACATCAG	60.039	55.000	0.00	0.00	0.00	2.90
2891	8188	2.757314	CTCCGGCTAGATCATGCTATCA	59.243	50.000	0.00	0.00	0.00	2.15
2897	8194	0.964700	TCTGCTCCGGCTAGATCATG	59.035	55.000	0.00	0.00	39.59	3.07
2912	8209	6.502136	AAGTGCCTCTAACTTTTTATCTGC	57.498	37.500	0.00	0.00	34.16	4.26
2939	8236	2.432874	CACACACCGGATGTTCCCTATA	59.567	50.000	9.46	0.00	40.64	1.31
2941	8238	0.611200	CACACACCGGATGTTCCCTA	59.389	55.000	9.46	0.00	40.64	3.53
2943	8240	0.322322	TACACACACCGGATGTTCCC	59.678	55.000	9.46	0.00	40.64	3.97
2945	8242	2.735134	GTCTTACACACACCGGATGTTC	59.265	50.000	9.46	0.00	40.64	3.18
2947	8244	1.336517	CGTCTTACACACACCGGATGT	60.337	52.381	9.46	9.72	44.81	3.06
2948	8245	1.068125	TCGTCTTACACACACCGGATG	60.068	52.381	9.46	8.94	0.00	3.51
2949	8246	1.250328	TCGTCTTACACACACCGGAT	58.750	50.000	9.46	0.00	0.00	4.18
2950	8247	1.031235	TTCGTCTTACACACACCGGA	58.969	50.000	9.46	0.00	0.00	5.14
3005	8313	8.239998	CCCATTCTTTCTGTCTTTCAAGATAAC	58.760	37.037	0.00	0.00	37.39	1.89
3029	8337	2.435372	TCAATGTATGGTGAAGGCCC	57.565	50.000	0.00	0.00	0.00	5.80

Based at the University of Bristol with support from BBSRC.

AutoCloner maintained by Alex Coulton.