AutoCloner

Multiple sequence alignment - TraesCS4D01G143800

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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	TraesCS4D01G143800	chr4D	100.000	6691	0	0	1	6691	131371741	131378431	0.000000e+00	12357.0
1	TraesCS4D01G143800	chr4A	96.530	4496	104	26	1560	6019	434082463	434077984	0.000000e+00	7391.0
2	TraesCS4D01G143800	chr4A	92.091	1277	55	12	307	1566	434083742	434082495	0.000000e+00	1757.0
3	TraesCS4D01G143800	chr4A	94.273	681	32	3	6018	6691	434077806	434077126	0.000000e+00	1035.0
4	TraesCS4D01G143800	chr4A	82.439	1099	147	19	2013	3099	737376655	737375591	0.000000e+00	918.0
5	TraesCS4D01G143800	chr4A	85.603	257	24	6	38	282	434085248	434084993	2.390000e-64	257.0
6	TraesCS4D01G143800	chr4A	85.119	168	23	1	3753	3918	181680514	181680347	3.210000e-38	171.0
7	TraesCS4D01G143800	chr4A	85.906	149	14	3	3194	3335	684030326	684030178	1.160000e-32	152.0
8	TraesCS4D01G143800	chr4A	85.906	149	14	3	3194	3335	684056783	684056635	1.160000e-32	152.0
9	TraesCS4D01G143800	chr4A	86.022	93	13	0	6583	6675	434076958	434076866	4.270000e-17	100.0
10	TraesCS4D01G143800	chr4B	97.545	2525	36	6	522	3041	166706270	166703767	0.000000e+00	4296.0
11	TraesCS4D01G143800	chr4B	98.900	2000	21	1	3024	5022	166703586	166701587	0.000000e+00	3570.0
12	TraesCS4D01G143800	chr4B	97.620	1681	24	6	5020	6691	166701427	166699754	0.000000e+00	2868.0
13	TraesCS4D01G143800	chr4B	83.915	516	41	25	1	480	166706789	166706280	7.910000e-124	455.0
14	TraesCS4D01G143800	chr4B	77.350	234	40	11	6447	6675	166699332	166699107	7.040000e-25	126.0
15	TraesCS4D01G143800	chr4B	88.462	104	12	0	6558	6661	166699332	166699229	7.040000e-25	126.0
16	TraesCS4D01G143800	chr5A	83.259	1123	136	22	1989	3100	567117658	567116577	0.000000e+00	985.0
17	TraesCS4D01G143800	chr5A	87.037	162	21	0	3753	3914	375561254	375561093	4.120000e-42	183.0
18	TraesCS4D01G143800	chr5A	87.037	162	21	0	3753	3914	672324735	672324574	4.120000e-42	183.0
19	TraesCS4D01G143800	chr5A	87.037	162	21	0	3753	3914	680493756	680493595	4.120000e-42	183.0
20	TraesCS4D01G143800	chr5A	85.976	164	16	3	3194	3350	659134629	659134792	1.150000e-37	169.0
21	TraesCS4D01G143800	chr5A	86.577	149	13	3	3194	3335	105423562	105423414	2.500000e-34	158.0
22	TraesCS4D01G143800	chr1B	82.088	1111	153	19	2001	3099	461898965	461900041	0.000000e+00	907.0
23	TraesCS4D01G143800	chr7D	81.731	1144	142	21	1983	3100	118441289	118442391	0.000000e+00	893.0
24	TraesCS4D01G143800	chr7D	86.228	167	16	3	3194	3353	118442417	118442583	2.480000e-39	174.0
25	TraesCS4D01G143800	chr6D	81.047	860	97	27	2266	3100	432973908	432973090	5.700000e-175	625.0
26	TraesCS4D01G143800	chr6D	85.062	241	35	1	1989	2229	432974146	432973907	1.860000e-60	244.0
27	TraesCS4D01G143800	chr6D	87.037	162	21	0	3753	3914	407195095	407194934	4.120000e-42	183.0
28	TraesCS4D01G143800	chr6D	86.228	167	16	3	3194	3353	432973064	432972898	2.480000e-39	174.0
29	TraesCS4D01G143800	chr3A	79.161	787	102	24	3116	3875	28424635	28425386	7.800000e-134	488.0
30	TraesCS4D01G143800	chr3A	80.588	340	50	9	2775	3100	28424310	28424647	1.440000e-61	248.0
31	TraesCS4D01G143800	chr3D	84.343	396	51	6	2666	3051	20755690	20756084	1.760000e-100	377.0
32	TraesCS4D01G143800	chr3D	90.278	72	4	3	516	584	313907483	313907554	2.570000e-14	91.6
33	TraesCS4D01G143800	chrUn	87.209	172	22	0	2332	2503	316173393	316173564	5.290000e-46	196.0
34	TraesCS4D01G143800	chrUn	85.906	149	14	3	3194	3335	393662566	393662418	1.160000e-32	152.0
35	TraesCS4D01G143800	chr6B	87.209	172	22	0	2332	2503	600607217	600607046	5.290000e-46	196.0
36	TraesCS4D01G143800	chr2B	87.209	172	22	0	2332	2503	623526038	623525867	5.290000e-46	196.0
37	TraesCS4D01G143800	chr1A	87.037	162	21	0	3753	3914	543477414	543477253	4.120000e-42	183.0
38	TraesCS4D01G143800	chr3B	86.420	162	22	0	3753	3914	8724296	8724135	1.920000e-40	178.0
39	TraesCS4D01G143800	chr3B	87.179	78	6	4	511	585	405641368	405641292	1.200000e-12	86.1

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	TraesCS4D01G143800	chr4D	131371741	131378431	6690	False	12357.000000	12357	100.000000	1	6691	1	chr4D.!!$F1	6690
1	TraesCS4D01G143800	chr4A	434076866	434085248	8382	True	2108.000000	7391	90.903800	38	6691	5	chr4A.!!$R5	6653
2	TraesCS4D01G143800	chr4A	737375591	737376655	1064	True	918.000000	918	82.439000	2013	3099	1	chr4A.!!$R4	1086
3	TraesCS4D01G143800	chr4B	166699107	166706789	7682	True	1906.833333	4296	90.632000	1	6691	6	chr4B.!!$R1	6690
4	TraesCS4D01G143800	chr5A	567116577	567117658	1081	True	985.000000	985	83.259000	1989	3100	1	chr5A.!!$R3	1111
5	TraesCS4D01G143800	chr1B	461898965	461900041	1076	False	907.000000	907	82.088000	2001	3099	1	chr1B.!!$F1	1098
6	TraesCS4D01G143800	chr7D	118441289	118442583	1294	False	533.500000	893	83.979500	1983	3353	2	chr7D.!!$F1	1370
7	TraesCS4D01G143800	chr6D	432972898	432974146	1248	True	347.666667	625	84.112333	1989	3353	3	chr6D.!!$R2	1364
8	TraesCS4D01G143800	chr3A	28424310	28425386	1076	False	368.000000	488	79.874500	2775	3875	2	chr3A.!!$F1	1100

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
567	1838	0.249322	CCCGTGTATTAGAGGCGTGG	60.249	60.000	0.00	0.00	0.00	4.94	F
568	1839	0.874607	CCGTGTATTAGAGGCGTGGC	60.875	60.000	0.00	0.00	0.00	5.01	F
573	1846	1.407656	TATTAGAGGCGTGGCTGGGG	61.408	60.000	0.00	0.00	0.00	4.96	F
821	2094	2.100631	CCATTGACGCCCGAGACAC	61.101	63.158	0.00	0.00	0.00	3.67	F
858	2131	2.282462	CCTGTTTGCCCTCGCCTT	60.282	61.111	0.00	0.00	0.00	4.35	F
1013	2286	3.781307	AGTAATGGCTGGCGGCGA	61.781	61.111	12.98	9.26	42.94	5.54	F
2201	3517	7.946381	TGGTATTTGCATATTTACCACAGAA	57.054	32.000	7.47	0.00	39.25	3.02	F
3177	4777	3.964688	TCAACTGTTGTTCACTAGAGGGA	59.035	43.478	19.12	0.00	33.52	4.20	F
5368	7173	1.271054	GCATTGAGATGGCCGATAGGT	60.271	52.381	0.00	0.00	45.74	3.08	F

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Hairpin	End Stability	Orientation
2201	3517	6.646267	TCCAAACACTGTTCTAACTACACTT	58.354	36.000	0.00	0.00	3.16	R
2209	3525	7.397892	TTTGTCATTCCAAACACTGTTCTAA	57.602	32.000	0.00	29.67	2.10	R
2591	3908	6.560003	AAGAAAATGGACAGGTTTCCTTTT	57.440	33.333	7.32	42.15	2.27	R
2592	3909	6.560003	AAAGAAAATGGACAGGTTTCCTTT	57.440	33.333	7.32	36.51	3.11	R
3113	4713	1.542472	TCTGCAATGTGAGGCAACATG	59.458	47.619	6.60	39.89	3.21	R
3177	4777	6.428771	CCATGACTTCCAATCTTGCAATTTTT	59.571	34.615	0.00	0.00	1.94	R
3468	5083	6.013842	TGAACTATCATGGACAGTATAGCG	57.986	41.667	0.00	0.00	4.26	R
5422	7227	2.228582	GCATAACACTGACATGTGCCAA	59.771	45.455	1.15	41.30	4.52	R
6485	8474	1.876416	CGGCTTCGGGTTTCTTCTCAA	60.876	52.381	0.00	0.00	3.02	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
52	53	6.403333	AAACAGGCGAAGAAAAAGAAAAAC	57.597	33.333	0.00	0.00	0.00	2.43
85	96	2.322161	CAAACCACTACGTCGAACGAT	58.678	47.619	13.06	2.43	46.05	3.73
148	169	3.196685	GGCCCTATAGGTGAGATGATGTC	59.803	52.174	17.72	0.00	38.26	3.06
162	185	8.023706	GTGAGATGATGTCATACTCGCTATAAA	58.976	37.037	18.29	3.08	37.65	1.40
242	265	4.378774	CATTGCCACCATCAAAGAAAACA	58.621	39.130	0.00	0.00	0.00	2.83
259	282	6.591935	AGAAAACAATTAGACAGTCCACTCA	58.408	36.000	0.00	0.00	0.00	3.41
263	286	6.605471	ACAATTAGACAGTCCACTCATGTA	57.395	37.500	0.00	0.00	0.00	2.29
329	1577	5.364778	CCCGACATGTTTATAATCAGGTCA	58.635	41.667	27.67	7.41	42.81	4.02
391	1651	1.522130	CCGGCACAACCCGTATACC	60.522	63.158	0.00	0.00	46.71	2.73
494	1765	1.157870	CGTGCCACGTTTCCTTCTGT	61.158	55.000	9.53	0.00	36.74	3.41
496	1767	1.282875	GCCACGTTTCCTTCTGTGC	59.717	57.895	0.00	0.00	0.00	4.57
497	1768	1.949257	CCACGTTTCCTTCTGTGCC	59.051	57.895	0.00	0.00	0.00	5.01
498	1769	1.569493	CACGTTTCCTTCTGTGCCG	59.431	57.895	0.00	0.00	0.00	5.69
500	1771	1.157870	ACGTTTCCTTCTGTGCCGTG	61.158	55.000	0.00	0.00	0.00	4.94
501	1772	1.157870	CGTTTCCTTCTGTGCCGTGT	61.158	55.000	0.00	0.00	0.00	4.49
502	1773	0.586802	GTTTCCTTCTGTGCCGTGTC	59.413	55.000	0.00	0.00	0.00	3.67
503	1774	0.468226	TTTCCTTCTGTGCCGTGTCT	59.532	50.000	0.00	0.00	0.00	3.41
504	1775	0.249868	TTCCTTCTGTGCCGTGTCTG	60.250	55.000	0.00	0.00	0.00	3.51
505	1776	2.320587	CCTTCTGTGCCGTGTCTGC	61.321	63.158	0.00	0.00	0.00	4.26
506	1777	1.301244	CTTCTGTGCCGTGTCTGCT	60.301	57.895	0.00	0.00	0.00	4.24
507	1778	1.563435	CTTCTGTGCCGTGTCTGCTG	61.563	60.000	0.00	0.00	0.00	4.41
508	1779	2.994387	TTCTGTGCCGTGTCTGCTGG	62.994	60.000	0.00	0.00	0.00	4.85
509	1780	4.624364	TGTGCCGTGTCTGCTGGG	62.624	66.667	0.00	0.00	0.00	4.45
510	1781	4.626081	GTGCCGTGTCTGCTGGGT	62.626	66.667	0.00	0.00	0.00	4.51
511	1782	4.624364	TGCCGTGTCTGCTGGGTG	62.624	66.667	0.00	0.00	0.00	4.61
563	1834	1.300697	CGGCCCGTGTATTAGAGGC	60.301	63.158	0.00	0.00	43.09	4.70
565	1836	1.440476	GCCCGTGTATTAGAGGCGT	59.560	57.895	0.00	0.00	33.18	5.68
566	1837	0.874607	GCCCGTGTATTAGAGGCGTG	60.875	60.000	0.00	0.00	33.18	5.34
567	1838	0.249322	CCCGTGTATTAGAGGCGTGG	60.249	60.000	0.00	0.00	0.00	4.94
568	1839	0.874607	CCGTGTATTAGAGGCGTGGC	60.875	60.000	0.00	0.00	0.00	5.01
573	1846	1.407656	TATTAGAGGCGTGGCTGGGG	61.408	60.000	0.00	0.00	0.00	4.96
810	2083	2.180204	CGACCCCATCGCCATTGAC	61.180	63.158	0.00	0.00	45.52	3.18
811	2084	2.124736	ACCCCATCGCCATTGACG	60.125	61.111	0.00	0.00	0.00	4.35
812	2085	3.585990	CCCCATCGCCATTGACGC	61.586	66.667	0.00	0.00	0.00	5.19
813	2086	3.585990	CCCATCGCCATTGACGCC	61.586	66.667	0.00	0.00	0.00	5.68
814	2087	3.585990	CCATCGCCATTGACGCCC	61.586	66.667	0.00	0.00	0.00	6.13
815	2088	3.940640	CATCGCCATTGACGCCCG	61.941	66.667	0.00	0.00	0.00	6.13
816	2089	4.155733	ATCGCCATTGACGCCCGA	62.156	61.111	0.00	0.00	0.00	5.14
817	2090	4.812476	TCGCCATTGACGCCCGAG	62.812	66.667	0.00	0.00	0.00	4.63
818	2091	4.812476	CGCCATTGACGCCCGAGA	62.812	66.667	0.00	0.00	0.00	4.04
819	2092	3.195698	GCCATTGACGCCCGAGAC	61.196	66.667	0.00	0.00	0.00	3.36
820	2093	2.264480	CCATTGACGCCCGAGACA	59.736	61.111	0.00	0.00	0.00	3.41
821	2094	2.100631	CCATTGACGCCCGAGACAC	61.101	63.158	0.00	0.00	0.00	3.67
822	2095	2.100631	CATTGACGCCCGAGACACC	61.101	63.158	0.00	0.00	0.00	4.16
823	2096	2.283529	ATTGACGCCCGAGACACCT	61.284	57.895	0.00	0.00	0.00	4.00
858	2131	2.282462	CCTGTTTGCCCTCGCCTT	60.282	61.111	0.00	0.00	0.00	4.35
1013	2286	3.781307	AGTAATGGCTGGCGGCGA	61.781	61.111	12.98	9.26	42.94	5.54
2201	3517	7.946381	TGGTATTTGCATATTTACCACAGAA	57.054	32.000	7.47	0.00	39.25	3.02
3177	4777	3.964688	TCAACTGTTGTTCACTAGAGGGA	59.035	43.478	19.12	0.00	33.52	4.20
3468	5083	1.666054	CTGAGATTCTTCAGCCTGGC	58.334	55.000	11.65	11.65	38.28	4.85
3564	5179	3.277142	ACGAACCAGGAGAACAAACTT	57.723	42.857	0.00	0.00	0.00	2.66
3703	5343	3.117663	TGGCTGTAAGATAAATCCCCCAC	60.118	47.826	0.00	0.00	34.07	4.61
4489	6132	5.182169	TCATGGCATCATATCATGGCTAA	57.818	39.130	14.16	0.00	46.93	3.09
4620	6263	2.353704	GGATCATCACCGACAACTGTCA	60.354	50.000	10.32	0.00	44.99	3.58
4645	6288	3.005155	GCTTCATTCCAACTCTTTGTGCT	59.995	43.478	0.00	0.00	0.00	4.40
4646	6289	4.543692	CTTCATTCCAACTCTTTGTGCTG	58.456	43.478	0.00	0.00	0.00	4.41
4769	6412	1.765904	TCTGGTGGCACTGTTAAGACA	59.234	47.619	18.45	3.18	0.00	3.41
5030	6835	7.719778	TCTGATTCACATATACAAGTCATGC	57.280	36.000	0.00	0.00	0.00	4.06
5054	6859	5.991933	TTTTAACATTCATGCTGCCCTTA	57.008	34.783	0.00	0.00	0.00	2.69
5287	7092	4.330056	TGGAAAGTCCAGCTCCCA	57.670	55.556	0.00	0.00	42.67	4.37
5368	7173	1.271054	GCATTGAGATGGCCGATAGGT	60.271	52.381	0.00	0.00	45.74	3.08
5422	7227	3.498774	ACACTTGCTCTCCTTGTCAAT	57.501	42.857	0.00	0.00	0.00	2.57
5860	7665	3.456644	TCTTTGAGGGTTTGAGGTGTGTA	59.543	43.478	0.00	0.00	0.00	2.90
5861	7666	3.935818	TTGAGGGTTTGAGGTGTGTAA	57.064	42.857	0.00	0.00	0.00	2.41
5862	7667	3.485463	TGAGGGTTTGAGGTGTGTAAG	57.515	47.619	0.00	0.00	0.00	2.34
6272	8261	4.380233	CCAACCTCTTGCTGACATTTCATC	60.380	45.833	0.00	0.00	0.00	2.92
6352	8341	0.034767	TCTTCTCTCCCTCGCGGTTA	60.035	55.000	6.13	0.00	0.00	2.85

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
14	15	7.556733	TCGCCTGTTTTCTTAAGTTTTCTTA	57.443	32.000	1.63	0.00	40.91	2.10
17	18	6.492254	TCTTCGCCTGTTTTCTTAAGTTTTC	58.508	36.000	1.63	0.00	0.00	2.29
24	25	6.687081	TCTTTTTCTTCGCCTGTTTTCTTA	57.313	33.333	0.00	0.00	0.00	2.10
33	34	5.576447	TCTGTTTTTCTTTTTCTTCGCCT	57.424	34.783	0.00	0.00	0.00	5.52
36	37	9.516091	CTGTTTTTCTGTTTTTCTTTTTCTTCG	57.484	29.630	0.00	0.00	0.00	3.79
52	53	4.718940	AGTGGTTTGGTCTGTTTTTCTG	57.281	40.909	0.00	0.00	0.00	3.02
85	96	0.464916	TATCGCTAGCGGTCACTCCA	60.465	55.000	34.76	15.09	40.25	3.86
242	265	6.605471	TGTACATGAGTGGACTGTCTAATT	57.395	37.500	7.85	0.00	40.06	1.40
259	282	3.831911	CCCATTTGACCACCTTTGTACAT	59.168	43.478	0.00	0.00	0.00	2.29
263	286	2.316108	GACCCATTTGACCACCTTTGT	58.684	47.619	0.00	0.00	0.00	2.83
494	1765	4.624364	CACCCAGCAGACACGGCA	62.624	66.667	0.00	0.00	0.00	5.69
496	1767	4.704833	CCCACCCAGCAGACACGG	62.705	72.222	0.00	0.00	0.00	4.94
497	1768	3.883744	GACCCACCCAGCAGACACG	62.884	68.421	0.00	0.00	0.00	4.49
498	1769	2.032681	GACCCACCCAGCAGACAC	59.967	66.667	0.00	0.00	0.00	3.67
500	1771	2.348998	CTGACCCACCCAGCAGAC	59.651	66.667	0.00	0.00	0.00	3.51
501	1772	2.930019	CCTGACCCACCCAGCAGA	60.930	66.667	0.00	0.00	0.00	4.26
502	1773	4.039092	CCCTGACCCACCCAGCAG	62.039	72.222	0.00	0.00	0.00	4.24
503	1774	4.590553	TCCCTGACCCACCCAGCA	62.591	66.667	0.00	0.00	0.00	4.41
504	1775	3.721706	CTCCCTGACCCACCCAGC	61.722	72.222	0.00	0.00	0.00	4.85
505	1776	3.721706	GCTCCCTGACCCACCCAG	61.722	72.222	0.00	0.00	0.00	4.45
783	2056	3.453070	GATGGGGTCGCTGCTCCTC	62.453	68.421	0.00	0.66	0.00	3.71
815	2088	4.500116	GCTCGGGCGAGGTGTCTC	62.500	72.222	0.00	0.00	42.19	3.36
819	2092	4.473520	AATGGCTCGGGCGAGGTG	62.474	66.667	0.00	0.00	42.19	4.00
820	2093	4.473520	CAATGGCTCGGGCGAGGT	62.474	66.667	0.00	0.00	42.19	3.85
821	2094	4.161295	TCAATGGCTCGGGCGAGG	62.161	66.667	0.00	0.00	42.19	4.63
822	2095	2.892425	GTCAATGGCTCGGGCGAG	60.892	66.667	0.00	0.00	44.56	5.03
823	2096	4.812476	CGTCAATGGCTCGGGCGA	62.812	66.667	0.00	0.00	39.81	5.54
858	2131	1.883275	CCAATTCGGCAACCTGTACAA	59.117	47.619	0.00	0.00	0.00	2.41
1206	2479	3.999705	CTCCTCAGGAGCCTGGCCT	63.000	68.421	16.57	2.90	43.29	5.19
2201	3517	6.646267	TCCAAACACTGTTCTAACTACACTT	58.354	36.000	0.00	0.00	0.00	3.16
2209	3525	7.397892	TTTGTCATTCCAAACACTGTTCTAA	57.602	32.000	0.00	0.00	29.67	2.10
2591	3908	6.560003	AAGAAAATGGACAGGTTTCCTTTT	57.440	33.333	7.32	0.00	42.15	2.27
2592	3909	6.560003	AAAGAAAATGGACAGGTTTCCTTT	57.440	33.333	7.32	0.00	36.51	3.11
3113	4713	1.542472	TCTGCAATGTGAGGCAACATG	59.458	47.619	6.60	0.00	39.89	3.21
3177	4777	6.428771	CCATGACTTCCAATCTTGCAATTTTT	59.571	34.615	0.00	0.00	0.00	1.94
3468	5083	6.013842	TGAACTATCATGGACAGTATAGCG	57.986	41.667	0.00	0.00	0.00	4.26
4489	6132	7.122055	TCACCGTGCCATCTTCTTTATTTAAAT	59.878	33.333	5.89	5.89	0.00	1.40
4620	6263	5.535333	CACAAAGAGTTGGAATGAAGCAAT	58.465	37.500	0.00	0.00	39.22	3.56
4645	6288	4.272504	GTCTCAACGTTTGAATGGTTCTCA	59.727	41.667	0.00	0.00	39.58	3.27
4646	6289	4.608445	CGTCTCAACGTTTGAATGGTTCTC	60.608	45.833	0.00	0.00	43.94	2.87
4769	6412	7.517604	AGGTATAATCCATTTACAGGAGATGGT	59.482	37.037	2.02	0.00	40.89	3.55
5030	6835	4.824289	AGGGCAGCATGAATGTTAAAAAG	58.176	39.130	0.00	0.00	39.69	2.27
5287	7092	7.775561	GGAAAATAAGAACTGATATGGGACTGT	59.224	37.037	0.00	0.00	0.00	3.55
5368	7173	4.876679	TGTATGAAACCAGTCGTGACAAAA	59.123	37.500	2.44	0.00	0.00	2.44
5422	7227	2.228582	GCATAACACTGACATGTGCCAA	59.771	45.455	1.15	0.00	41.30	4.52
5552	7357	4.813027	TCTTTTCATTCCATTGCTCTTGC	58.187	39.130	0.00	0.00	40.20	4.01
5777	7582	5.663456	ACAACTCAGACATGTTGCAAAAAT	58.337	33.333	0.00	0.00	45.07	1.82
5835	7640	3.202151	ACACCTCAAACCCTCAAAGAGAA	59.798	43.478	0.00	0.00	0.00	2.87
5836	7641	2.777692	ACACCTCAAACCCTCAAAGAGA	59.222	45.455	0.00	0.00	0.00	3.10
5837	7642	2.880890	CACACCTCAAACCCTCAAAGAG	59.119	50.000	0.00	0.00	0.00	2.85
6485	8474	1.876416	CGGCTTCGGGTTTCTTCTCAA	60.876	52.381	0.00	0.00	0.00	3.02

Based at the University of Bristol with support from BBSRC.

AutoCloner maintained by Alex Coulton.