AutoCloner

Multiple sequence alignment - TraesCS3A01G169000

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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	TraesCS3A01G169000	chr3A	100.000	2573	0	0	1	2573	176989481	176992053	0.000000e+00	4752.0
1	TraesCS3A01G169000	chr3A	89.586	797	58	18	78	856	207263590	207262801	0.000000e+00	989.0
2	TraesCS3A01G169000	chr3A	92.319	703	39	10	168	856	207271554	207270853	0.000000e+00	985.0
3	TraesCS3A01G169000	chr3A	87.411	699	73	15	1882	2573	247546999	247546309	0.000000e+00	789.0
4	TraesCS3A01G169000	chr1A	93.463	1744	76	13	78	1784	248729887	248731629	0.000000e+00	2555.0
5	TraesCS3A01G169000	chr1A	93.070	1746	77	10	80	1784	265066220	265067962	0.000000e+00	2514.0
6	TraesCS3A01G169000	chr1A	95.086	1221	45	6	78	1294	265093877	265095086	0.000000e+00	1908.0
7	TraesCS3A01G169000	chr1A	96.932	880	24	3	78	955	248700353	248701231	0.000000e+00	1472.0
8	TraesCS3A01G169000	chr1A	82.537	1025	121	45	1553	2564	149427260	149426281	0.000000e+00	848.0
9	TraesCS3A01G169000	chr1A	81.384	1026	120	45	1550	2564	201846775	201845810	0.000000e+00	771.0
10	TraesCS3A01G169000	chr1A	87.228	689	73	13	1879	2561	507857189	507857868	0.000000e+00	771.0
11	TraesCS3A01G169000	chr1A	92.615	501	36	1	1285	1785	265095109	265095608	0.000000e+00	719.0
12	TraesCS3A01G169000	chr1A	90.485	515	31	12	1550	2060	443228688	443229188	0.000000e+00	664.0
13	TraesCS3A01G169000	chr1A	88.789	223	23	2	990	1210	243673839	243673617	3.260000e-69	272.0
14	TraesCS3A01G169000	chr1A	85.882	85	6	6	863	946	60065368	60065289	4.560000e-13	86.1
15	TraesCS3A01G169000	chr5A	92.644	1740	92	11	78	1784	166020176	166021912	0.000000e+00	2471.0
16	TraesCS3A01G169000	chr5A	92.385	1694	83	19	81	1742	166011898	166013577	0.000000e+00	2372.0
17	TraesCS3A01G169000	chr5A	96.135	1216	44	3	80	1294	21704933	21706146	0.000000e+00	1982.0
18	TraesCS3A01G169000	chr5A	95.004	1221	47	6	78	1294	21712740	21713950	0.000000e+00	1905.0
19	TraesCS3A01G169000	chr5A	94.340	477	25	2	1283	1759	21706168	21706642	0.000000e+00	730.0
20	TraesCS3A01G169000	chr5A	94.105	475	27	1	1285	1759	21713973	21714446	0.000000e+00	721.0
21	TraesCS3A01G169000	chr5A	96.154	78	3	0	3	80	486228819	486228742	7.470000e-26	128.0
22	TraesCS3A01G169000	chr6A	89.281	1670	141	22	937	2573	243009942	243008278	0.000000e+00	2058.0
23	TraesCS3A01G169000	chr6A	90.525	1277	114	7	1290	2564	243001211	242999940	0.000000e+00	1681.0
24	TraesCS3A01G169000	chr6A	83.559	1034	117	39	1550	2573	268945375	268946365	0.000000e+00	918.0
25	TraesCS3A01G169000	chr6A	86.981	699	77	13	1882	2573	529854127	529853436	0.000000e+00	774.0
26	TraesCS3A01G169000	chr6A	86.981	699	77	13	1882	2573	529890447	529889756	0.000000e+00	774.0
27	TraesCS3A01G169000	chr6A	93.352	361	24	0	937	1297	243001596	243001236	3.770000e-148	534.0
28	TraesCS3A01G169000	chr6A	96.250	80	3	0	1	80	245884125	245884204	5.780000e-27	132.0
29	TraesCS3A01G169000	chr4A	87.464	694	74	12	1884	2573	409255462	409254778	0.000000e+00	787.0
30	TraesCS3A01G169000	chr4A	87.143	700	74	13	1882	2573	570821174	570820483	0.000000e+00	780.0
31	TraesCS3A01G169000	chr4A	87.032	694	77	12	1884	2573	409247284	409246600	0.000000e+00	771.0
32	TraesCS3A01G169000	chr7A	94.146	410	23	1	1285	1693	421720626	421721035	7.820000e-175	623.0
33	TraesCS3A01G169000	chr7A	94.118	119	5	2	846	964	160448221	160448105	2.030000e-41	180.0
34	TraesCS3A01G169000	chr2A	85.962	577	64	16	78	642	721895936	721895365	3.660000e-168	601.0
35	TraesCS3A01G169000	chr2A	87.242	533	57	10	81	607	721912012	721911485	4.740000e-167	597.0
36	TraesCS3A01G169000	chr7B	96.250	80	3	0	1	80	385649208	385649287	5.780000e-27	132.0
37	TraesCS3A01G169000	chr4B	96.250	80	3	0	1	80	475322812	475322891	5.780000e-27	132.0
38	TraesCS3A01G169000	chr1B	95.062	81	4	0	1	81	168084537	168084457	7.470000e-26	128.0
39	TraesCS3A01G169000	chrUn	95.000	80	4	0	1	80	144131297	144131376	2.690000e-25	126.0
40	TraesCS3A01G169000	chrUn	95.000	80	4	0	1	80	157486895	157486974	2.690000e-25	126.0
41	TraesCS3A01G169000	chrUn	95.000	80	4	0	1	80	242266074	242265995	2.690000e-25	126.0
42	TraesCS3A01G169000	chrUn	95.000	80	4	0	1	80	335739047	335739126	2.690000e-25	126.0

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	TraesCS3A01G169000	chr3A	176989481	176992053	2572	False	4752.0	4752	100.0000	1	2573	1	chr3A.!!$F1	2572
1	TraesCS3A01G169000	chr3A	207262801	207263590	789	True	989.0	989	89.5860	78	856	1	chr3A.!!$R1	778
2	TraesCS3A01G169000	chr3A	207270853	207271554	701	True	985.0	985	92.3190	168	856	1	chr3A.!!$R2	688
3	TraesCS3A01G169000	chr3A	247546309	247546999	690	True	789.0	789	87.4110	1882	2573	1	chr3A.!!$R3	691
4	TraesCS3A01G169000	chr1A	248729887	248731629	1742	False	2555.0	2555	93.4630	78	1784	1	chr1A.!!$F2	1706
5	TraesCS3A01G169000	chr1A	265066220	265067962	1742	False	2514.0	2514	93.0700	80	1784	1	chr1A.!!$F3	1704
6	TraesCS3A01G169000	chr1A	248700353	248701231	878	False	1472.0	1472	96.9320	78	955	1	chr1A.!!$F1	877
7	TraesCS3A01G169000	chr1A	265093877	265095608	1731	False	1313.5	1908	93.8505	78	1785	2	chr1A.!!$F6	1707
8	TraesCS3A01G169000	chr1A	149426281	149427260	979	True	848.0	848	82.5370	1553	2564	1	chr1A.!!$R2	1011
9	TraesCS3A01G169000	chr1A	201845810	201846775	965	True	771.0	771	81.3840	1550	2564	1	chr1A.!!$R3	1014
10	TraesCS3A01G169000	chr1A	507857189	507857868	679	False	771.0	771	87.2280	1879	2561	1	chr1A.!!$F5	682
11	TraesCS3A01G169000	chr1A	443228688	443229188	500	False	664.0	664	90.4850	1550	2060	1	chr1A.!!$F4	510
12	TraesCS3A01G169000	chr5A	166020176	166021912	1736	False	2471.0	2471	92.6440	78	1784	1	chr5A.!!$F2	1706
13	TraesCS3A01G169000	chr5A	166011898	166013577	1679	False	2372.0	2372	92.3850	81	1742	1	chr5A.!!$F1	1661
14	TraesCS3A01G169000	chr5A	21704933	21706642	1709	False	1356.0	1982	95.2375	80	1759	2	chr5A.!!$F3	1679
15	TraesCS3A01G169000	chr5A	21712740	21714446	1706	False	1313.0	1905	94.5545	78	1759	2	chr5A.!!$F4	1681
16	TraesCS3A01G169000	chr6A	243008278	243009942	1664	True	2058.0	2058	89.2810	937	2573	1	chr6A.!!$R1	1636
17	TraesCS3A01G169000	chr6A	242999940	243001596	1656	True	1107.5	1681	91.9385	937	2564	2	chr6A.!!$R4	1627
18	TraesCS3A01G169000	chr6A	268945375	268946365	990	False	918.0	918	83.5590	1550	2573	1	chr6A.!!$F2	1023
19	TraesCS3A01G169000	chr6A	529853436	529854127	691	True	774.0	774	86.9810	1882	2573	1	chr6A.!!$R2	691
20	TraesCS3A01G169000	chr6A	529889756	529890447	691	True	774.0	774	86.9810	1882	2573	1	chr6A.!!$R3	691
21	TraesCS3A01G169000	chr4A	409254778	409255462	684	True	787.0	787	87.4640	1884	2573	1	chr4A.!!$R2	689
22	TraesCS3A01G169000	chr4A	570820483	570821174	691	True	780.0	780	87.1430	1882	2573	1	chr4A.!!$R3	691
23	TraesCS3A01G169000	chr4A	409246600	409247284	684	True	771.0	771	87.0320	1884	2573	1	chr4A.!!$R1	689
24	TraesCS3A01G169000	chr2A	721895365	721895936	571	True	601.0	601	85.9620	78	642	1	chr2A.!!$R1	564
25	TraesCS3A01G169000	chr2A	721911485	721912012	527	True	597.0	597	87.2420	81	607	1	chr2A.!!$R2	526

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
73	74	0.040499	GGTTTCCCAAGCCCACCATA	59.96	55.0	0.0	0.0	0.0	2.74	F

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability	Orientation
2028	2127	0.795698	TCACACATGCATTCGTTCCG	59.204	50.0	0.0	0.0	0.0	4.3	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
20	21	2.278857	CGCAAGGAGATCCGTCCG	60.279	66.667	0.00	0.00	42.05	4.79
21	22	2.107141	GCAAGGAGATCCGTCCGG	59.893	66.667	0.00	0.00	42.05	5.14
22	23	2.815308	CAAGGAGATCCGTCCGGG	59.185	66.667	0.00	0.00	42.05	5.73
23	24	2.444140	AAGGAGATCCGTCCGGGG	60.444	66.667	0.00	0.00	42.05	5.73
24	25	3.312989	AAGGAGATCCGTCCGGGGT	62.313	63.158	0.00	0.00	42.05	4.95
25	26	3.537874	GGAGATCCGTCCGGGGTG	61.538	72.222	0.00	0.00	36.01	4.61
26	27	2.758737	GAGATCCGTCCGGGGTGT	60.759	66.667	0.00	0.00	36.01	4.16
27	28	2.758737	AGATCCGTCCGGGGTGTC	60.759	66.667	0.00	0.00	36.01	3.67
28	29	4.203076	GATCCGTCCGGGGTGTCG	62.203	72.222	0.00	0.00	36.01	4.35
33	34	4.736896	GTCCGGGGTGTCGCTCAC	62.737	72.222	0.00	2.71	45.47	3.51
45	46	2.909965	GCTCACGGCCCCAAACAA	60.910	61.111	0.00	0.00	34.27	2.83
46	47	2.275380	GCTCACGGCCCCAAACAAT	61.275	57.895	0.00	0.00	34.27	2.71
47	48	0.963355	GCTCACGGCCCCAAACAATA	60.963	55.000	0.00	0.00	34.27	1.90
48	49	1.762708	CTCACGGCCCCAAACAATAT	58.237	50.000	0.00	0.00	0.00	1.28
49	50	1.405105	CTCACGGCCCCAAACAATATG	59.595	52.381	0.00	0.00	0.00	1.78
50	51	1.004862	TCACGGCCCCAAACAATATGA	59.995	47.619	0.00	0.00	0.00	2.15
51	52	1.405105	CACGGCCCCAAACAATATGAG	59.595	52.381	0.00	0.00	0.00	2.90
52	53	0.385390	CGGCCCCAAACAATATGAGC	59.615	55.000	0.00	0.00	0.00	4.26
53	54	1.484038	GGCCCCAAACAATATGAGCA	58.516	50.000	0.00	0.00	0.00	4.26
54	55	1.410153	GGCCCCAAACAATATGAGCAG	59.590	52.381	0.00	0.00	0.00	4.24
55	56	1.410153	GCCCCAAACAATATGAGCAGG	59.590	52.381	0.00	0.00	0.00	4.85
56	57	2.738743	CCCCAAACAATATGAGCAGGT	58.261	47.619	0.00	0.00	0.00	4.00
57	58	3.099141	CCCCAAACAATATGAGCAGGTT	58.901	45.455	0.00	0.00	0.00	3.50
58	59	3.515104	CCCCAAACAATATGAGCAGGTTT	59.485	43.478	0.00	0.00	32.33	3.27
59	60	4.381932	CCCCAAACAATATGAGCAGGTTTC	60.382	45.833	0.00	0.00	29.89	2.78
60	61	4.381932	CCCAAACAATATGAGCAGGTTTCC	60.382	45.833	0.00	0.00	29.89	3.13
61	62	4.381932	CCAAACAATATGAGCAGGTTTCCC	60.382	45.833	0.00	0.00	29.89	3.97
62	63	3.737559	ACAATATGAGCAGGTTTCCCA	57.262	42.857	0.00	0.00	0.00	4.37
63	64	4.046286	ACAATATGAGCAGGTTTCCCAA	57.954	40.909	0.00	0.00	0.00	4.12
64	65	4.019174	ACAATATGAGCAGGTTTCCCAAG	58.981	43.478	0.00	0.00	0.00	3.61
65	66	2.128771	TATGAGCAGGTTTCCCAAGC	57.871	50.000	0.00	0.00	35.08	4.01
66	67	0.613012	ATGAGCAGGTTTCCCAAGCC	60.613	55.000	0.00	0.00	35.34	4.35
67	68	1.979155	GAGCAGGTTTCCCAAGCCC	60.979	63.158	0.00	0.00	35.34	5.19
68	69	2.203625	GCAGGTTTCCCAAGCCCA	60.204	61.111	0.00	0.00	0.00	5.36
69	70	2.574018	GCAGGTTTCCCAAGCCCAC	61.574	63.158	0.00	0.00	0.00	4.61
70	71	1.908299	CAGGTTTCCCAAGCCCACC	60.908	63.158	0.00	0.00	0.00	4.61
71	72	2.200092	GGTTTCCCAAGCCCACCA	59.800	61.111	0.00	0.00	0.00	4.17
72	73	1.229177	GGTTTCCCAAGCCCACCAT	60.229	57.895	0.00	0.00	0.00	3.55
73	74	0.040499	GGTTTCCCAAGCCCACCATA	59.960	55.000	0.00	0.00	0.00	2.74
74	75	1.182667	GTTTCCCAAGCCCACCATAC	58.817	55.000	0.00	0.00	0.00	2.39
75	76	0.322997	TTTCCCAAGCCCACCATACG	60.323	55.000	0.00	0.00	0.00	3.06
76	77	2.124320	CCCAAGCCCACCATACGG	60.124	66.667	0.00	0.00	38.77	4.02
272	284	6.845758	TTAAATCGAGGGAAGAGTGACTTA	57.154	37.500	0.00	0.00	39.13	2.24
359	374	5.911752	TCACCATAACACACTTGCAATTTT	58.088	33.333	0.00	0.00	0.00	1.82
429	444	6.816136	ACAATTCTTTTCCCATTTTTCGAGT	58.184	32.000	0.00	0.00	0.00	4.18
782	826	0.540365	CCCGTAACCCTAGCCCGATA	60.540	60.000	0.00	0.00	0.00	2.92
1019	1072	3.535962	GGCCTCTCCGAGCTCTGG	61.536	72.222	12.85	14.57	0.00	3.86
1111	1164	0.249911	GCACCTGAGTTCTTCCACGT	60.250	55.000	0.00	0.00	0.00	4.49
1481	1566	2.327343	GCGATGCCTGTTGCTGTCA	61.327	57.895	0.00	0.00	42.00	3.58
1581	1666	2.821378	CACAAGTTCCTGATGGATGCAA	59.179	45.455	0.00	0.00	42.81	4.08
2000	2098	0.107848	CCTCCGATAACCCACGCTTT	60.108	55.000	0.00	0.00	0.00	3.51
2084	2184	1.643868	CTTGCGCTGTGCCCGAATTA	61.644	55.000	9.73	0.00	45.60	1.40
2122	2222	2.886523	CTCTTTTGCCTTGTCACCATCA	59.113	45.455	0.00	0.00	0.00	3.07
2195	2296	3.535561	CATCCGCATACTTCTCCTTTGT	58.464	45.455	0.00	0.00	0.00	2.83
2242	2343	1.134521	ACCGATATGTTGTCGTGGCAT	60.135	47.619	0.00	0.00	37.39	4.40
2252	2353	1.083489	GTCGTGGCATCATTTTCGGA	58.917	50.000	0.00	0.00	0.00	4.55
2253	2354	1.670811	GTCGTGGCATCATTTTCGGAT	59.329	47.619	0.00	0.00	0.00	4.18
2311	2417	7.416817	CCACGATGACAAAATGCTTCATAATA	58.583	34.615	0.00	0.00	29.93	0.98
2323	2429	9.851686	AAATGCTTCATAATACTCTTATCACCA	57.148	29.630	0.00	0.00	0.00	4.17
2357	2468	8.483307	AAAATTGCATAATCTTGAACATGTCC	57.517	30.769	0.00	0.00	0.00	4.02
2369	2480	0.543277	ACATGTCCTCCGCATCATGT	59.457	50.000	0.00	0.00	43.63	3.21
2408	2522	5.934625	TGTTTAACTTTGTTGTTGCACCAAT	59.065	32.000	0.00	0.00	0.00	3.16
2448	2563	5.300034	GGGGATTTACCGGATTCGTTATTTT	59.700	40.000	9.46	0.00	40.11	1.82
2503	2619	4.941263	GGTGTAGATTTGTTATGCCTCACA	59.059	41.667	0.00	0.00	0.00	3.58

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
0	1	1.742768	GACGGATCTCCTTGCGGAT	59.257	57.895	0.00	0.00	39.01	4.18
2	3	2.107141	GGACGGATCTCCTTGCGG	59.893	66.667	0.00	0.00	34.45	5.69
3	4	2.278857	CGGACGGATCTCCTTGCG	60.279	66.667	2.45	2.45	41.94	4.85
4	5	2.107141	CCGGACGGATCTCCTTGC	59.893	66.667	4.40	0.00	37.50	4.01
5	6	2.797278	CCCCGGACGGATCTCCTTG	61.797	68.421	13.13	0.00	37.50	3.61
6	7	2.444140	CCCCGGACGGATCTCCTT	60.444	66.667	13.13	0.00	37.50	3.36
7	8	3.752167	ACCCCGGACGGATCTCCT	61.752	66.667	13.13	0.00	37.50	3.69
8	9	3.537874	CACCCCGGACGGATCTCC	61.538	72.222	13.13	0.00	37.50	3.71
9	10	2.758737	ACACCCCGGACGGATCTC	60.759	66.667	13.13	0.00	37.50	2.75
10	11	2.758737	GACACCCCGGACGGATCT	60.759	66.667	13.13	0.00	37.50	2.75
11	12	4.203076	CGACACCCCGGACGGATC	62.203	72.222	13.13	3.56	37.50	3.36
16	17	4.736896	GTGAGCGACACCCCGGAC	62.737	72.222	0.73	0.00	43.05	4.79
28	29	0.963355	TATTGTTTGGGGCCGTGAGC	60.963	55.000	0.00	0.00	42.60	4.26
29	30	1.405105	CATATTGTTTGGGGCCGTGAG	59.595	52.381	0.00	0.00	0.00	3.51
30	31	1.004862	TCATATTGTTTGGGGCCGTGA	59.995	47.619	0.00	0.00	0.00	4.35
31	32	1.405105	CTCATATTGTTTGGGGCCGTG	59.595	52.381	0.00	0.00	0.00	4.94
32	33	1.762708	CTCATATTGTTTGGGGCCGT	58.237	50.000	0.00	0.00	0.00	5.68
33	34	0.385390	GCTCATATTGTTTGGGGCCG	59.615	55.000	0.00	0.00	0.00	6.13
34	35	1.410153	CTGCTCATATTGTTTGGGGCC	59.590	52.381	0.00	0.00	0.00	5.80
35	36	1.410153	CCTGCTCATATTGTTTGGGGC	59.590	52.381	0.00	0.00	0.00	5.80
36	37	2.738743	ACCTGCTCATATTGTTTGGGG	58.261	47.619	0.00	0.00	0.00	4.96
37	38	4.381932	GGAAACCTGCTCATATTGTTTGGG	60.382	45.833	0.00	0.00	29.89	4.12
38	39	4.747810	GGAAACCTGCTCATATTGTTTGG	58.252	43.478	0.00	0.00	29.89	3.28
55	56	1.182667	GTATGGTGGGCTTGGGAAAC	58.817	55.000	0.00	0.00	0.00	2.78
56	57	0.322997	CGTATGGTGGGCTTGGGAAA	60.323	55.000	0.00	0.00	0.00	3.13
57	58	1.301623	CGTATGGTGGGCTTGGGAA	59.698	57.895	0.00	0.00	0.00	3.97
58	59	2.675242	CCGTATGGTGGGCTTGGGA	61.675	63.158	0.00	0.00	0.00	4.37
59	60	2.124320	CCGTATGGTGGGCTTGGG	60.124	66.667	0.00	0.00	0.00	4.12
60	61	2.124320	CCCGTATGGTGGGCTTGG	60.124	66.667	0.00	0.00	40.47	3.61
69	70	2.098233	GCGTCACACACCCGTATGG	61.098	63.158	0.00	0.00	41.37	2.74
70	71	2.098233	GGCGTCACACACCCGTATG	61.098	63.158	0.00	0.00	0.00	2.39
71	72	2.263540	GGCGTCACACACCCGTAT	59.736	61.111	0.00	0.00	0.00	3.06
72	73	3.993584	GGGCGTCACACACCCGTA	61.994	66.667	0.00	0.00	29.69	4.02
359	374	5.308976	TGAAGCATAAGAGGCATGGAATA	57.691	39.130	0.00	0.00	0.00	1.75
782	826	0.178861	AGGGAGTTGGTGAGATGGGT	60.179	55.000	0.00	0.00	0.00	4.51
1019	1072	1.483424	GCTTGAGGCATCGACGTAGC	61.483	60.000	0.00	5.86	41.35	3.58
1022	1075	2.125512	GGCTTGAGGCATCGACGT	60.126	61.111	0.00	0.00	44.01	4.34
1111	1164	1.607801	CGAGTGAGGGATGCAGTGGA	61.608	60.000	0.00	0.00	0.00	4.02
1453	1538	2.106938	GGCATCGCAGACATCGGA	59.893	61.111	0.00	0.00	42.51	4.55
1481	1566	1.380302	GGTGGTCTTGGCATCCAGT	59.620	57.895	6.79	0.00	33.81	4.00
1581	1666	2.584391	GGTCTCGCTGGGGACTTGT	61.584	63.158	11.14	0.00	33.46	3.16
1867	1965	2.620115	AGAGGTTCACGTTTCGTAGTCA	59.380	45.455	0.00	0.00	38.32	3.41
2000	2098	2.947652	CGTCTCGAGGGTTATACCTTCA	59.052	50.000	13.56	0.00	43.85	3.02
2028	2127	0.795698	TCACACATGCATTCGTTCCG	59.204	50.000	0.00	0.00	0.00	4.30
2122	2222	1.676678	CGGGTGTCCCATGAGTCGAT	61.677	60.000	5.64	0.00	45.83	3.59
2226	2327	5.581126	AAAATGATGCCACGACAACATAT	57.419	34.783	0.00	0.00	32.51	1.78
2227	2328	4.436718	CGAAAATGATGCCACGACAACATA	60.437	41.667	0.00	0.00	32.51	2.29
2234	2335	2.036958	ATCCGAAAATGATGCCACGA	57.963	45.000	0.00	0.00	0.00	4.35
2344	2454	0.684535	TGCGGAGGACATGTTCAAGA	59.315	50.000	6.96	0.00	0.00	3.02
2349	2460	1.065199	ACATGATGCGGAGGACATGTT	60.065	47.619	16.59	6.26	43.32	2.71
2391	2502	3.374678	AGCAAATTGGTGCAACAACAAAG	59.625	39.130	21.66	11.28	44.48	2.77
2392	2503	3.341823	AGCAAATTGGTGCAACAACAAA	58.658	36.364	21.66	0.00	44.48	2.83
2448	2563	6.555360	ACAATTTAAATGGGGCCGGATATAAA	59.445	34.615	5.05	0.27	0.00	1.40
2487	2602	4.142093	GGCAAGATGTGAGGCATAACAAAT	60.142	41.667	0.00	0.00	38.06	2.32
2541	2657	9.006839	TGACTTGTTTAGTTCTCTCTCGTTATA	57.993	33.333	0.00	0.00	37.17	0.98

Based at the University of Bristol with support from BBSRC.

AutoCloner maintained by Alex Coulton.