AutoCloner

Multiple sequence alignment - TraesCS3D01G176400

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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	TraesCS3D01G176400	chr3D	100.000	3197	0	0	1	3197	157753713	157750517	0.000000e+00	5904.0
1	TraesCS3D01G176400	chr3D	83.019	159	21	3	3025	3183	157660326	157660174	4.300000e-29	139.0
2	TraesCS3D01G176400	chr3A	89.751	2293	149	50	289	2516	170387659	170389930	0.000000e+00	2854.0
3	TraesCS3D01G176400	chr3A	83.459	931	99	35	13	907	170311876	170310965	0.000000e+00	815.0
4	TraesCS3D01G176400	chr3A	83.121	942	100	40	289	1183	170314649	170315578	0.000000e+00	804.0
5	TraesCS3D01G176400	chr3A	89.624	559	21	15	2634	3183	170390038	170390568	0.000000e+00	676.0
6	TraesCS3D01G176400	chr3A	98.099	263	5	0	1185	1447	170310274	170310536	2.910000e-125	459.0
7	TraesCS3D01G176400	chr3A	89.203	389	11	14	2803	3183	170310910	170310545	1.050000e-124	457.0
8	TraesCS3D01G176400	chr3A	89.954	219	19	3	13	230	170314407	170314623	2.430000e-71	279.0
9	TraesCS3D01G176400	chr3A	89.954	219	19	3	13	230	170387417	170387633	2.430000e-71	279.0
10	TraesCS3D01G176400	chr3B	90.578	1677	76	31	992	2633	229008997	229007368	0.000000e+00	2146.0
11	TraesCS3D01G176400	chr3B	85.554	713	62	24	13	703	229160215	229159522	0.000000e+00	708.0
12	TraesCS3D01G176400	chr3B	87.852	568	20	12	2637	3183	229007311	229006772	3.500000e-174	621.0
13	TraesCS3D01G176400	chr6D	86.752	2023	132	57	346	2342	438530993	438532905	0.000000e+00	2126.0
14	TraesCS3D01G176400	chr6D	85.987	1727	114	49	345	2022	438525327	438523680	0.000000e+00	1731.0
15	TraesCS3D01G176400	chr6D	91.274	573	15	8	2634	3197	438519550	438519004	0.000000e+00	749.0
16	TraesCS3D01G176400	chr6D	93.210	486	25	3	2056	2541	438523677	438523200	0.000000e+00	708.0
17	TraesCS3D01G176400	chr6D	92.694	219	15	1	13	230	438530716	438530934	6.660000e-82	315.0
18	TraesCS3D01G176400	chr6D	85.764	288	29	8	13	299	438525604	438525328	8.670000e-76	294.0
19	TraesCS3D01G176400	chrUn	85.935	1486	138	50	13	1450	287218543	287217081	0.000000e+00	1520.0
20	TraesCS3D01G176400	chrUn	86.235	1206	106	41	289	1447	293323145	293324337	0.000000e+00	1253.0
21	TraesCS3D01G176400	chrUn	83.673	931	97	35	13	907	287215744	287216655	0.000000e+00	826.0
22	TraesCS3D01G176400	chrUn	83.673	931	97	35	13	907	300437124	300436213	0.000000e+00	826.0
23	TraesCS3D01G176400	chrUn	83.208	929	105	35	13	907	293325677	293324766	0.000000e+00	804.0
24	TraesCS3D01G176400	chrUn	83.333	876	96	34	66	907	389792196	389791337	0.000000e+00	763.0
25	TraesCS3D01G176400	chrUn	98.099	263	5	0	1185	1447	389790646	389790908	2.910000e-125	459.0
26	TraesCS3D01G176400	chrUn	89.203	389	11	14	2803	3183	293324711	293324346	1.050000e-124	457.0
27	TraesCS3D01G176400	chrUn	89.203	389	11	14	2803	3183	389791282	389790917	1.050000e-124	457.0
28	TraesCS3D01G176400	chrUn	88.325	394	15	14	2798	3183	287216705	287217075	8.140000e-121	444.0
29	TraesCS3D01G176400	chrUn	97.674	258	6	0	1190	1447	300435527	300435784	8.140000e-121	444.0
30	TraesCS3D01G176400	chrUn	88.325	394	15	14	2798	3183	300436163	300435793	8.140000e-121	444.0
31	TraesCS3D01G176400	chrUn	90.411	219	18	3	13	230	293322903	293323119	5.220000e-73	285.0
32	TraesCS3D01G176400	chr7B	91.667	84	5	2	2764	2845	750378819	750378902	7.250000e-22	115.0
33	TraesCS3D01G176400	chr7D	87.805	82	6	2	1486	1567	327491085	327491008	3.400000e-15	93.5
34	TraesCS3D01G176400	chr5A	94.915	59	3	0	1511	1569	1710949	1710891	3.400000e-15	93.5

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	TraesCS3D01G176400	chr3D	157750517	157753713	3196	True	5904.000000	5904	100.000000	1	3197	1	chr3D.!!$R2	3196
1	TraesCS3D01G176400	chr3A	170387417	170390568	3151	False	1269.666667	2854	89.776333	13	3183	3	chr3A.!!$F2	3170
2	TraesCS3D01G176400	chr3A	170310545	170311876	1331	True	636.000000	815	86.331000	13	3183	2	chr3A.!!$R1	3170
3	TraesCS3D01G176400	chr3A	170310274	170315578	5304	False	514.000000	804	90.391333	13	1447	3	chr3A.!!$F1	1434
4	TraesCS3D01G176400	chr3B	229006772	229008997	2225	True	1383.500000	2146	89.215000	992	3183	2	chr3B.!!$R2	2191
5	TraesCS3D01G176400	chr3B	229159522	229160215	693	True	708.000000	708	85.554000	13	703	1	chr3B.!!$R1	690
6	TraesCS3D01G176400	chr6D	438530716	438532905	2189	False	1220.500000	2126	89.723000	13	2342	2	chr6D.!!$F1	2329
7	TraesCS3D01G176400	chr6D	438519004	438525604	6600	True	870.500000	1731	89.058750	13	3197	4	chr6D.!!$R1	3184
8	TraesCS3D01G176400	chrUn	287217081	287218543	1462	True	1520.000000	1520	85.935000	13	1450	1	chrUn.!!$R1	1437
9	TraesCS3D01G176400	chrUn	293322903	293324337	1434	False	769.000000	1253	88.323000	13	1447	2	chrUn.!!$F4	1434
10	TraesCS3D01G176400	chrUn	287215744	287217075	1331	False	635.000000	826	85.999000	13	3183	2	chrUn.!!$F3	3170
11	TraesCS3D01G176400	chrUn	300435793	300437124	1331	True	635.000000	826	85.999000	13	3183	2	chrUn.!!$R3	3170
12	TraesCS3D01G176400	chrUn	293324346	293325677	1331	True	630.500000	804	86.205500	13	3183	2	chrUn.!!$R2	3170
13	TraesCS3D01G176400	chrUn	389790917	389792196	1279	True	610.000000	763	86.268000	66	3183	2	chrUn.!!$R4	3117

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
750	4965	0.253044	GCAGTCACCTGGCTAATCCA	59.747	55.0	0.0	0.0	44.18	3.41	F

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability	Orientation
2662	10526	1.194772	GCAGTCTGTCAACGGCTTAAC	59.805	52.381	0.93	0.0	37.37	2.01	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
53	4175	5.040635	TGGAAACAAAGAAAAATCGCAGAC	58.959	37.500	0.00	0.00	36.76	3.51
57	4179	3.058914	ACAAAGAAAAATCGCAGACTCCG	60.059	43.478	0.00	0.00	42.51	4.63
105	4228	3.696548	CTCTCAAACCAAGGGCTAAATCC	59.303	47.826	0.00	0.00	0.00	3.01
111	4234	4.059773	ACCAAGGGCTAAATCCAATTGA	57.940	40.909	7.12	0.00	30.39	2.57
225	4349	6.095300	TGAATACAATGCCTAATGACCAACAG	59.905	38.462	0.00	0.00	0.00	3.16
251	4384	8.863872	AGTAGTAGATAAAACATGGCAAAACT	57.136	30.769	0.00	0.00	0.00	2.66
267	4400	4.715896	CAAAACTACAGCAGCACAGTATG	58.284	43.478	0.00	0.00	46.00	2.39
334	4467	6.674694	AGAAAAATGAATGAGACATCGAGG	57.325	37.500	0.00	0.00	0.00	4.63
336	4469	3.834489	AATGAATGAGACATCGAGGCT	57.166	42.857	0.00	0.00	39.48	4.58
359	4493	1.933812	GGGGATTGGGGGTCTTGGA	60.934	63.158	0.00	0.00	0.00	3.53
390	4524	2.254546	TGATTGAAGCCAAGTGACGT	57.745	45.000	0.00	0.00	35.48	4.34
516	4662	2.093106	GGAGCGACCTAGTTCTCTTCA	58.907	52.381	0.00	0.00	35.41	3.02
534	4680	2.980568	TCAGTTCCGTTTGTGTTCAGT	58.019	42.857	0.00	0.00	0.00	3.41
546	4692	1.444553	GTTCAGTCCGTCGCTCCTG	60.445	63.158	0.00	0.00	0.00	3.86
590	4770	2.573869	GTGGCTGCTCTCTACGCA	59.426	61.111	0.00	0.00	35.80	5.24
603	4783	0.960364	CTACGCATTGGTGTGGGCTT	60.960	55.000	0.00	0.00	40.16	4.35
617	4797	1.077005	TGGGCTTATTGGGCTGAGTTT	59.923	47.619	0.00	0.00	0.00	2.66
650	4831	1.272985	TGGAATGGGACCATTTCACCC	60.273	52.381	18.85	14.52	44.39	4.61
682	4871	1.784358	CCATGCACTCCATTCCCAAT	58.216	50.000	0.00	0.00	29.71	3.16
713	4928	2.812619	CCCCCGCCTCATTCCTCTC	61.813	68.421	0.00	0.00	0.00	3.20
743	4958	2.046507	CCTCAGCAGTCACCTGGC	60.047	66.667	0.00	0.00	39.22	4.85
745	4960	1.260538	CCTCAGCAGTCACCTGGCTA	61.261	60.000	0.00	0.00	39.22	3.93
746	4961	0.610174	CTCAGCAGTCACCTGGCTAA	59.390	55.000	0.00	0.00	39.22	3.09
747	4962	1.209019	CTCAGCAGTCACCTGGCTAAT	59.791	52.381	0.00	0.00	39.22	1.73
748	4963	1.208052	TCAGCAGTCACCTGGCTAATC	59.792	52.381	0.00	0.00	39.22	1.75
750	4965	0.253044	GCAGTCACCTGGCTAATCCA	59.747	55.000	0.00	0.00	44.18	3.41
751	4966	1.133976	GCAGTCACCTGGCTAATCCAT	60.134	52.381	0.00	0.00	45.50	3.41
752	4967	2.684927	GCAGTCACCTGGCTAATCCATT	60.685	50.000	0.00	0.00	45.50	3.16
753	4968	3.209410	CAGTCACCTGGCTAATCCATTC	58.791	50.000	0.00	0.00	45.50	2.67
754	4969	2.173569	AGTCACCTGGCTAATCCATTCC	59.826	50.000	0.00	0.00	45.50	3.01
755	4970	2.173569	GTCACCTGGCTAATCCATTCCT	59.826	50.000	0.00	0.00	45.50	3.36
756	4971	2.173356	TCACCTGGCTAATCCATTCCTG	59.827	50.000	0.00	0.00	45.50	3.86
757	4972	1.496429	ACCTGGCTAATCCATTCCTGG	59.504	52.381	0.00	0.00	45.50	4.45
758	4973	1.613836	CTGGCTAATCCATTCCTGGC	58.386	55.000	0.00	0.00	45.50	4.85
759	4974	1.144503	CTGGCTAATCCATTCCTGGCT	59.855	52.381	0.00	0.00	45.50	4.75
760	4975	2.373169	CTGGCTAATCCATTCCTGGCTA	59.627	50.000	0.00	0.00	45.50	3.93
761	4976	2.782925	TGGCTAATCCATTCCTGGCTAA	59.217	45.455	0.00	0.00	42.80	3.09
762	4977	3.398967	TGGCTAATCCATTCCTGGCTAAT	59.601	43.478	0.00	0.00	42.80	1.73
763	4978	4.013050	GGCTAATCCATTCCTGGCTAATC	58.987	47.826	0.00	0.00	42.80	1.75
764	4979	4.013050	GCTAATCCATTCCTGGCTAATCC	58.987	47.826	0.00	0.00	42.80	3.01
765	4980	4.507335	GCTAATCCATTCCTGGCTAATCCA	60.507	45.833	0.00	0.00	42.80	3.41
766	4981	4.754411	AATCCATTCCTGGCTAATCCAT	57.246	40.909	0.00	0.00	45.50	3.41
815	5030	0.984230	TGGGTCCAGTGCCTTTCTAG	59.016	55.000	0.00	0.00	0.00	2.43
820	5035	0.608640	CCAGTGCCTTTCTAGTCGGT	59.391	55.000	0.00	0.00	0.00	4.69
829	5044	4.849329	CTAGTCGGTCCCACGCGC	62.849	72.222	5.73	0.00	0.00	6.86
908	5124	2.268280	CAGCCACTCCTCCTGCAG	59.732	66.667	6.78	6.78	0.00	4.41
909	5125	2.203907	AGCCACTCCTCCTGCAGT	60.204	61.111	13.81	0.00	0.00	4.40
910	5126	2.267324	GCCACTCCTCCTGCAGTC	59.733	66.667	13.81	0.00	0.00	3.51
911	5127	2.985456	CCACTCCTCCTGCAGTCC	59.015	66.667	13.81	0.00	0.00	3.85
912	5128	2.575993	CACTCCTCCTGCAGTCCG	59.424	66.667	13.81	0.00	0.00	4.79
933	5174	2.201771	AGGTCCTCCTATCCGCCC	59.798	66.667	0.00	0.00	43.12	6.13
934	5175	2.923568	GGTCCTCCTATCCGCCCC	60.924	72.222	0.00	0.00	0.00	5.80
935	5176	3.303928	GTCCTCCTATCCGCCCCG	61.304	72.222	0.00	0.00	0.00	5.73
936	5177	3.829226	TCCTCCTATCCGCCCCGT	61.829	66.667	0.00	0.00	0.00	5.28
937	5178	2.116772	CCTCCTATCCGCCCCGTA	59.883	66.667	0.00	0.00	0.00	4.02
938	5179	1.305046	CCTCCTATCCGCCCCGTAT	60.305	63.158	0.00	0.00	0.00	3.06
939	5180	1.321074	CCTCCTATCCGCCCCGTATC	61.321	65.000	0.00	0.00	0.00	2.24
940	5181	1.304713	TCCTATCCGCCCCGTATCC	60.305	63.158	0.00	0.00	0.00	2.59
962	5203	4.829588	GGTTCCCGATTCGACTCC	57.170	61.111	7.83	1.13	0.00	3.85
963	5204	1.895238	GGTTCCCGATTCGACTCCA	59.105	57.895	7.83	0.00	0.00	3.86
964	5205	0.459759	GGTTCCCGATTCGACTCCAC	60.460	60.000	7.83	0.00	0.00	4.02
965	5206	0.459759	GTTCCCGATTCGACTCCACC	60.460	60.000	7.83	0.00	0.00	4.61
966	5207	1.610554	TTCCCGATTCGACTCCACCC	61.611	60.000	7.83	0.00	0.00	4.61
967	5208	2.104331	CCGATTCGACTCCACCCG	59.896	66.667	7.83	0.00	0.00	5.28
1099	5355	4.567597	ACGACTCCCACCCACCCA	62.568	66.667	0.00	0.00	0.00	4.51
1742	6037	4.083862	AAGGAAGAGGACGGCGCC	62.084	66.667	19.07	19.07	0.00	6.53
1776	6071	2.044946	ATCTTCCCTGCAACGCCC	60.045	61.111	0.00	0.00	0.00	6.13
1862	6157	1.530013	ATTGCACAGCCACCTTCAGC	61.530	55.000	0.00	0.00	0.00	4.26
1977	6275	2.357517	AGCTCGGTTGCTGTTCCG	60.358	61.111	0.00	0.00	46.93	4.30
2052	6350	4.660938	GGCGCTGGTCTTGGGGTT	62.661	66.667	7.64	0.00	0.00	4.11
2190	6488	4.264460	ACAAGAACTCAGGTCATCAGAC	57.736	45.455	0.00	0.00	44.21	3.51
2220	6519	5.003692	TGCTTCACATTGTGCTGTAAAAA	57.996	34.783	12.04	0.00	32.98	1.94
2230	6529	5.957842	TGTGCTGTAAAAATCTCCGATTT	57.042	34.783	0.00	0.00	0.00	2.17
2333	6633	4.536765	AGTTGGTGGTGTTCTTCTCATTT	58.463	39.130	0.00	0.00	0.00	2.32
2537	6844	0.373716	GGCCTGCAAGTCGTAATTCG	59.626	55.000	0.00	0.00	41.41	3.34
2585	10393	8.748412	TGAGAAGAGAAAGGAAATTGAAAACAA	58.252	29.630	0.00	0.00	0.00	2.83
2587	10395	9.538508	AGAAGAGAAAGGAAATTGAAAACAATG	57.461	29.630	0.00	0.00	0.00	2.82
2614	10425	3.357079	GTGCTGCCTGGAACACGG	61.357	66.667	0.00	0.00	0.00	4.94
2650	10514	3.685139	TCAGTCATCCAGTTTGAGTCC	57.315	47.619	0.00	0.00	0.00	3.85
2662	10526	3.891366	AGTTTGAGTCCATTCTGTTTGGG	59.109	43.478	0.00	0.00	34.85	4.12
2687	10551	1.559814	CGTTGACAGACTGCACACG	59.440	57.895	1.25	4.51	0.00	4.49
2747	10612	3.966665	AGTTCCTTTTGATTGCCCTTTCA	59.033	39.130	0.00	0.00	0.00	2.69
2753	10618	5.185635	CCTTTTGATTGCCCTTTCACATAGA	59.814	40.000	0.00	0.00	0.00	1.98
2953	10832	3.536956	AAAGAGAACTCCAACGACACA	57.463	42.857	0.00	0.00	0.00	3.72
2991	10872	3.870419	GCAGAATCTTACTCCTCTTGCAG	59.130	47.826	0.00	0.00	0.00	4.41

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
4	5	6.899393	ATCCACTCAAATTTACTGCTGAAA	57.101	33.333	0.00	0.00	0.00	2.69
5	6	6.899393	AATCCACTCAAATTTACTGCTGAA	57.101	33.333	0.00	0.00	0.00	3.02
6	7	6.899393	AAATCCACTCAAATTTACTGCTGA	57.101	33.333	0.00	0.00	0.00	4.26
7	8	6.366877	CCAAAATCCACTCAAATTTACTGCTG	59.633	38.462	0.00	0.00	0.00	4.41
8	9	6.267471	TCCAAAATCCACTCAAATTTACTGCT	59.733	34.615	0.00	0.00	0.00	4.24
9	10	6.454795	TCCAAAATCCACTCAAATTTACTGC	58.545	36.000	0.00	0.00	0.00	4.40
10	11	8.764287	GTTTCCAAAATCCACTCAAATTTACTG	58.236	33.333	0.00	0.00	0.00	2.74
11	12	8.482128	TGTTTCCAAAATCCACTCAAATTTACT	58.518	29.630	0.00	0.00	0.00	2.24
15	16	8.046107	TCTTTGTTTCCAAAATCCACTCAAATT	58.954	29.630	0.00	0.00	39.95	1.82
53	4175	1.360551	CCTGCCATAGACGTCGGAG	59.639	63.158	10.46	6.32	0.00	4.63
57	4179	0.535335	TCAACCCTGCCATAGACGTC	59.465	55.000	7.70	7.70	0.00	4.34
105	4228	6.014669	TGACCCTGGGTTTTTATTCTCAATTG	60.015	38.462	21.59	0.00	35.25	2.32
111	4234	5.333566	TCTTGACCCTGGGTTTTTATTCT	57.666	39.130	21.59	0.00	35.25	2.40
155	4278	4.696455	CAGTCCAGCCATGTTTTCTTTTT	58.304	39.130	0.00	0.00	0.00	1.94
161	4284	0.675633	GTGCAGTCCAGCCATGTTTT	59.324	50.000	0.00	0.00	0.00	2.43
225	4349	8.947115	AGTTTTGCCATGTTTTATCTACTACTC	58.053	33.333	0.00	0.00	0.00	2.59
251	4384	5.977635	AGATTAACATACTGTGCTGCTGTA	58.022	37.500	0.00	2.39	36.25	2.74
286	4419	9.761504	CTTATCGATTTCATGCTATGGAGATAT	57.238	33.333	1.71	0.00	0.00	1.63
287	4420	8.971073	TCTTATCGATTTCATGCTATGGAGATA	58.029	33.333	1.71	0.00	0.00	1.98
321	4454	3.102090	TCGAGCCTCGATGTCTCAT	57.898	52.632	13.77	0.00	44.82	2.90
334	4467	2.113986	CCCCAATCCCCATCGAGC	59.886	66.667	0.00	0.00	0.00	5.03
336	4469	2.043772	ACCCCCAATCCCCATCGA	59.956	61.111	0.00	0.00	0.00	3.59
359	4493	3.751698	GGCTTCAATCAACGGTAGTTTCT	59.248	43.478	0.00	0.00	38.79	2.52
412	4546	2.799371	GGTAGGGACGTCGAGCAG	59.201	66.667	9.92	0.00	0.00	4.24
493	4630	1.378124	GAGAACTAGGTCGCTCCGCT	61.378	60.000	4.01	0.00	41.99	5.52
516	4662	2.285977	GGACTGAACACAAACGGAACT	58.714	47.619	0.00	0.00	0.00	3.01
573	4753	2.573869	TGCGTAGAGAGCAGCCAC	59.426	61.111	0.00	0.00	40.01	5.01
590	4770	1.864669	CCCAATAAGCCCACACCAAT	58.135	50.000	0.00	0.00	0.00	3.16
603	4783	4.365514	TGAGTGAAAACTCAGCCCAATA	57.634	40.909	4.48	0.00	41.34	1.90
617	4797	3.156293	CCCATTCCATGTGTTGAGTGAA	58.844	45.455	0.00	0.00	0.00	3.18
682	4871	3.998672	GGGGGAAGCGTGACGTCA	61.999	66.667	15.76	15.76	0.00	4.35
713	4928	0.739561	GCTGAGGACTGTACCTACGG	59.260	60.000	0.00	0.00	40.73	4.02
722	4937	2.360138	AGGTGACTGCTGAGGACTG	58.640	57.895	0.00	0.00	41.13	3.51
723	4938	4.963944	AGGTGACTGCTGAGGACT	57.036	55.556	0.00	0.00	41.13	3.85
743	4958	5.246981	TGGATTAGCCAGGAATGGATTAG	57.753	43.478	0.00	0.00	43.33	1.73
756	4971	1.543429	CGACCCAGGAATGGATTAGCC	60.543	57.143	0.00	0.00	37.10	3.93
757	4972	1.543429	CCGACCCAGGAATGGATTAGC	60.543	57.143	0.00	0.00	0.00	3.09
758	4973	2.047061	TCCGACCCAGGAATGGATTAG	58.953	52.381	0.00	0.00	37.36	1.73
759	4974	1.766496	GTCCGACCCAGGAATGGATTA	59.234	52.381	0.00	0.00	42.77	1.75
760	4975	0.546598	GTCCGACCCAGGAATGGATT	59.453	55.000	0.00	0.00	42.77	3.01
761	4976	1.686325	CGTCCGACCCAGGAATGGAT	61.686	60.000	0.00	0.00	42.77	3.41
762	4977	2.355986	CGTCCGACCCAGGAATGGA	61.356	63.158	0.00	0.00	42.77	3.41
763	4978	2.186903	CGTCCGACCCAGGAATGG	59.813	66.667	0.00	0.00	42.77	3.16
764	4979	2.511600	GCGTCCGACCCAGGAATG	60.512	66.667	0.00	0.00	42.77	2.67
765	4980	4.143333	CGCGTCCGACCCAGGAAT	62.143	66.667	0.00	0.00	42.77	3.01
807	5022	0.172803	CGTGGGACCGACTAGAAAGG	59.827	60.000	5.02	0.00	0.00	3.11
837	5052	2.570284	GCCTTTTGGGGTCCGTTGG	61.570	63.158	0.00	0.00	40.82	3.77
967	5208	1.153025	GATTAGGGGTTCGGGTGCC	60.153	63.158	0.00	0.00	0.00	5.01
1742	6037	3.466791	ATGGGCGCCTCAATCTCCG	62.467	63.158	28.56	0.00	0.00	4.63
1977	6275	2.948801	ATCCTAGTCCGGTCTGCCCC	62.949	65.000	11.77	0.00	0.00	5.80
2052	6350	3.385384	CGAGGGCTCAGTCCAGCA	61.385	66.667	0.00	0.00	41.65	4.41
2190	6488	4.458654	GCACAATGTGAAGCAATCAGCTG	61.459	47.826	18.66	7.63	44.05	4.24
2199	6497	5.922544	AGATTTTTACAGCACAATGTGAAGC	59.077	36.000	18.66	1.28	35.23	3.86
2201	6499	6.446318	GGAGATTTTTACAGCACAATGTGAA	58.554	36.000	18.66	0.45	35.23	3.18
2205	6503	5.295431	TCGGAGATTTTTACAGCACAATG	57.705	39.130	0.00	0.00	0.00	2.82
2230	6529	8.437575	ACTCTTTAGAGAAAAATGTTACCTCCA	58.562	33.333	13.47	0.00	44.74	3.86
2471	6778	7.012327	CCCTTCACTGCATTTCTCGAATTATAA	59.988	37.037	0.00	0.00	0.00	0.98
2551	10359	9.853177	AATTTCCTTTCTCTTCTCACTCTTTTA	57.147	29.630	0.00	0.00	0.00	1.52
2558	10366	8.190784	TGTTTTCAATTTCCTTTCTCTTCTCAC	58.809	33.333	0.00	0.00	0.00	3.51
2585	10393	4.077108	CCAGGCAGCACATGTATTATCAT	58.923	43.478	0.00	0.00	0.00	2.45
2587	10395	3.743521	TCCAGGCAGCACATGTATTATC	58.256	45.455	0.00	0.00	0.00	1.75
2614	10425	2.728839	GACTGAAGGATCATCGATTCGC	59.271	50.000	0.00	0.00	34.37	4.70
2650	10514	2.556622	ACGGCTTAACCCAAACAGAATG	59.443	45.455	0.00	0.00	37.33	2.67
2662	10526	1.194772	GCAGTCTGTCAACGGCTTAAC	59.805	52.381	0.93	0.00	37.37	2.01
2747	10612	2.299013	TCAAAGCACACTCCGTCTATGT	59.701	45.455	0.00	0.00	0.00	2.29
2753	10618	0.107410	TGGTTCAAAGCACACTCCGT	60.107	50.000	0.00	0.00	0.00	4.69
2761	10626	7.816995	GTGAATTTATATTGGTGGTTCAAAGCA	59.183	33.333	0.00	0.00	0.00	3.91
2762	10627	7.816995	TGTGAATTTATATTGGTGGTTCAAAGC	59.183	33.333	0.00	0.00	0.00	3.51
2854	10722	6.685527	TGCTTCAGTCTGTCTATACTACTG	57.314	41.667	0.00	0.00	39.59	2.74
2953	10832	0.251354	CTGCAGGAGTGTGTATGGCT	59.749	55.000	5.57	0.00	0.00	4.75
2991	10872	1.141234	GGTTCATCGTCGTCCCTCC	59.859	63.158	0.00	0.00	0.00	4.30

Based at the University of Bristol with support from BBSRC.

AutoCloner maintained by Alex Coulton.