AutoCloner

Multiple sequence alignment - TraesCS1A01G327900

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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	TraesCS1A01G327900	chr1A	100.000	2544	0	0	910	3453	517188515	517185972	0.000000e+00	4698.0
1	TraesCS1A01G327900	chr1A	100.000	546	0	0	1	546	517189424	517188879	0.000000e+00	1009.0
2	TraesCS1A01G327900	chr1A	83.911	895	131	6	1580	2462	517186880	517185987	0.000000e+00	843.0
3	TraesCS1A01G327900	chr1A	83.929	896	129	8	2545	3438	517187845	517186963	0.000000e+00	843.0
4	TraesCS1A01G327900	chr1A	80.041	972	129	42	910	1856	517106110	517105179	0.000000e+00	660.0
5	TraesCS1A01G327900	chr1D	93.110	2540	118	30	910	3444	420748082	420745595	0.000000e+00	3668.0
6	TraesCS1A01G327900	chr1D	91.850	2184	101	20	1295	3444	420848332	420846192	0.000000e+00	2976.0
7	TraesCS1A01G327900	chr1D	83.953	941	129	9	1589	2515	420746482	420745550	0.000000e+00	881.0
8	TraesCS1A01G327900	chr1D	84.000	900	124	11	2545	3438	420747455	420746570	0.000000e+00	846.0
9	TraesCS1A01G327900	chr1D	83.426	899	129	12	2545	3437	420848070	420847186	0.000000e+00	817.0
10	TraesCS1A01G327900	chr1D	92.945	567	26	7	1292	1853	420852935	420852378	0.000000e+00	813.0
11	TraesCS1A01G327900	chr1D	80.082	974	125	44	910	1856	420660709	420659778	0.000000e+00	660.0
12	TraesCS1A01G327900	chr1D	79.487	975	135	28	1581	2513	420847100	420846149	1.750000e-177	632.0
13	TraesCS1A01G327900	chr1D	94.269	349	13	3	910	1257	420853281	420852939	8.490000e-146	527.0
14	TraesCS1A01G327900	chr1D	96.271	295	8	2	3126	3420	420848377	420848668	6.700000e-132	481.0
15	TraesCS1A01G327900	chr1D	88.055	293	30	4	2150	2441	420848377	420848665	3.300000e-90	342.0
16	TraesCS1A01G327900	chr1D	100.000	32	0	0	3135	3166	420848333	420848364	3.720000e-05	60.2
17	TraesCS1A01G327900	chr1B	92.035	2172	121	24	1291	3439	569542798	569540656	0.000000e+00	3005.0
18	TraesCS1A01G327900	chr1B	93.565	575	37	0	2870	3444	569522579	569522005	0.000000e+00	857.0
19	TraesCS1A01G327900	chr1B	82.979	940	132	18	1581	2513	569541523	569540605	0.000000e+00	824.0
20	TraesCS1A01G327900	chr1B	83.297	916	121	18	2545	3443	569542507	569541607	0.000000e+00	815.0
21	TraesCS1A01G327900	chr1B	84.936	624	84	6	1894	2513	569522579	569521962	1.050000e-174	623.0
22	TraesCS1A01G327900	chr1B	92.938	354	13	2	910	1257	569543148	569542801	3.980000e-139	505.0
23	TraesCS1A01G327900	chr1B	91.304	207	12	2	941	1147	568972607	568972407	9.440000e-71	278.0
24	TraesCS1A01G327900	chr2D	93.625	549	29	4	1	546	459777405	459776860	0.000000e+00	815.0
25	TraesCS1A01G327900	chr4D	93.443	549	30	4	1	546	494026906	494026361	0.000000e+00	809.0
26	TraesCS1A01G327900	chr4D	93.260	549	30	6	1	546	54408642	54409186	0.000000e+00	802.0
27	TraesCS1A01G327900	chr3D	93.443	549	29	5	1	546	31790842	31790298	0.000000e+00	808.0
28	TraesCS1A01G327900	chr3D	92.896	549	32	4	1	546	609329842	609330386	0.000000e+00	791.0
29	TraesCS1A01G327900	chr5D	93.078	549	32	4	1	546	435193305	435192760	0.000000e+00	798.0
30	TraesCS1A01G327900	chr5D	93.078	549	32	4	1	546	442964969	442964424	0.000000e+00	798.0
31	TraesCS1A01G327900	chr5D	92.714	549	34	4	1	546	43087695	43087150	0.000000e+00	787.0
32	TraesCS1A01G327900	chr6D	92.896	549	32	5	1	546	124598059	124597515	0.000000e+00	791.0

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	TraesCS1A01G327900	chr1A	517185972	517189424	3452	True	1848.250000	4698	91.96000	1	3453	4	chr1A.!!$R2	3452
1	TraesCS1A01G327900	chr1A	517105179	517106110	931	True	660.000000	660	80.04100	910	1856	1	chr1A.!!$R1	946
2	TraesCS1A01G327900	chr1D	420745550	420748082	2532	True	1798.333333	3668	87.02100	910	3444	3	chr1D.!!$R2	2534
3	TraesCS1A01G327900	chr1D	420846149	420848332	2183	True	1475.000000	2976	84.92100	1295	3444	3	chr1D.!!$R3	2149
4	TraesCS1A01G327900	chr1D	420852378	420853281	903	True	670.000000	813	93.60700	910	1853	2	chr1D.!!$R4	943
5	TraesCS1A01G327900	chr1D	420659778	420660709	931	True	660.000000	660	80.08200	910	1856	1	chr1D.!!$R1	946
6	TraesCS1A01G327900	chr1B	569540605	569543148	2543	True	1287.250000	3005	87.81225	910	3443	4	chr1B.!!$R3	2533
7	TraesCS1A01G327900	chr1B	569521962	569522579	617	True	740.000000	857	89.25050	1894	3444	2	chr1B.!!$R2	1550
8	TraesCS1A01G327900	chr2D	459776860	459777405	545	True	815.000000	815	93.62500	1	546	1	chr2D.!!$R1	545
9	TraesCS1A01G327900	chr4D	494026361	494026906	545	True	809.000000	809	93.44300	1	546	1	chr4D.!!$R1	545
10	TraesCS1A01G327900	chr4D	54408642	54409186	544	False	802.000000	802	93.26000	1	546	1	chr4D.!!$F1	545
11	TraesCS1A01G327900	chr3D	31790298	31790842	544	True	808.000000	808	93.44300	1	546	1	chr3D.!!$R1	545
12	TraesCS1A01G327900	chr3D	609329842	609330386	544	False	791.000000	791	92.89600	1	546	1	chr3D.!!$F1	545
13	TraesCS1A01G327900	chr5D	435192760	435193305	545	True	798.000000	798	93.07800	1	546	1	chr5D.!!$R2	545
14	TraesCS1A01G327900	chr5D	442964424	442964969	545	True	798.000000	798	93.07800	1	546	1	chr5D.!!$R3	545
15	TraesCS1A01G327900	chr5D	43087150	43087695	545	True	787.000000	787	92.71400	1	546	1	chr5D.!!$R1	545
16	TraesCS1A01G327900	chr6D	124597515	124598059	544	True	791.000000	791	92.89600	1	546	1	chr6D.!!$R1	545

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
454	458	0.249676	TAGCCCGATTTGCAACGGTA	59.750	50.0	22.50	10.17	46.53	4.02	F
1263	1275	0.037605	GTTGGTACGGTAGCTGTGCT	60.038	55.0	17.26	0.00	43.41	4.40	F

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability	Orientation
1791	1855	0.902531	TTCCCTAGTTGGAGCCTTCG	59.097	55.0	0.00	0.0	38.35	3.79	R
3206	4290	0.391263	CCACGTGTTTAGGCTCTCCC	60.391	60.0	15.65	0.0	0.00	4.30	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
48	49	6.928520	ACAAACAAAATGCCCAAATCAAAAA	58.071	28.000	0.00	0.00	0.00	1.94
73	74	5.107375	CCAGCGAAATCAACCAAATCAAAAG	60.107	40.000	0.00	0.00	0.00	2.27
125	126	3.515602	AGCTCAAGGAAAATCACCTGT	57.484	42.857	0.00	0.00	37.85	4.00
129	130	6.012745	AGCTCAAGGAAAATCACCTGTTTAT	58.987	36.000	0.00	0.00	37.85	1.40
165	166	2.202557	TCGAGTGCATGTACGGCG	60.203	61.111	20.02	20.02	0.00	6.46
166	167	2.202557	CGAGTGCATGTACGGCGA	60.203	61.111	16.62	0.00	0.00	5.54
283	287	3.068691	CGAGGAGGGAGGCACGAA	61.069	66.667	0.00	0.00	0.00	3.85
286	290	4.452733	GGAGGGAGGCACGAACGG	62.453	72.222	0.00	0.00	0.00	4.44
293	297	4.011517	GGCACGAACGGGGAGGAA	62.012	66.667	0.00	0.00	0.00	3.36
415	419	0.798771	GCGGTCAGTTCTAGCGTCAG	60.799	60.000	0.00	0.00	39.87	3.51
454	458	0.249676	TAGCCCGATTTGCAACGGTA	59.750	50.000	22.50	10.17	46.53	4.02
455	459	0.393808	AGCCCGATTTGCAACGGTAT	60.394	50.000	22.50	10.98	46.53	2.73
478	482	1.473610	CCCAAACGTGGTACTGACACA	60.474	52.381	0.00	0.00	44.30	3.72
489	493	6.631238	CGTGGTACTGACACAGTAAAAATTTG	59.369	38.462	12.22	0.00	46.55	2.32
1029	1040	3.866582	CCCGTCATCTCCCAGGCC	61.867	72.222	0.00	0.00	0.00	5.19
1030	1041	2.765807	CCGTCATCTCCCAGGCCT	60.766	66.667	0.00	0.00	0.00	5.19
1031	1042	2.503061	CGTCATCTCCCAGGCCTG	59.497	66.667	26.87	26.87	0.00	4.85
1099	1110	4.351938	CCGTCGCCAAGGTCGTGA	62.352	66.667	0.00	0.00	0.00	4.35
1148	1159	1.695597	CCTCCCTCCAGGCAAGGAT	60.696	63.158	6.47	0.00	38.29	3.24
1176	1187	0.543749	GCCTAGCACCCTGATGTTCT	59.456	55.000	0.00	0.00	0.00	3.01
1262	1274	1.017701	GGTTGGTACGGTAGCTGTGC	61.018	60.000	17.26	5.90	0.00	4.57
1263	1275	0.037605	GTTGGTACGGTAGCTGTGCT	60.038	55.000	17.26	0.00	43.41	4.40
1264	1276	1.203052	GTTGGTACGGTAGCTGTGCTA	59.797	52.381	17.26	0.00	40.44	3.49
1265	1277	1.100510	TGGTACGGTAGCTGTGCTAG	58.899	55.000	17.26	0.00	42.11	3.42
1276	1288	2.904697	CTGTGCTAGCTGATGATCCA	57.095	50.000	17.23	0.00	0.00	3.41
1277	1289	3.189618	CTGTGCTAGCTGATGATCCAA	57.810	47.619	17.23	0.00	0.00	3.53
1278	1290	2.871022	CTGTGCTAGCTGATGATCCAAC	59.129	50.000	17.23	1.81	0.00	3.77
1279	1291	2.502947	TGTGCTAGCTGATGATCCAACT	59.497	45.455	17.23	0.00	0.00	3.16
1280	1292	2.871022	GTGCTAGCTGATGATCCAACTG	59.129	50.000	17.23	0.00	0.00	3.16
1281	1293	2.767960	TGCTAGCTGATGATCCAACTGA	59.232	45.455	17.23	0.00	0.00	3.41
1282	1294	3.390311	TGCTAGCTGATGATCCAACTGAT	59.610	43.478	17.23	0.00	36.01	2.90
1283	1295	3.747010	GCTAGCTGATGATCCAACTGATG	59.253	47.826	7.70	0.00	32.41	3.07
1284	1296	4.502777	GCTAGCTGATGATCCAACTGATGA	60.503	45.833	7.70	0.00	32.41	2.92
1285	1297	4.708576	AGCTGATGATCCAACTGATGAT	57.291	40.909	0.00	0.00	32.41	2.45
1286	1298	4.643463	AGCTGATGATCCAACTGATGATC	58.357	43.478	0.00	0.00	42.49	2.92
1287	1299	3.752222	GCTGATGATCCAACTGATGATCC	59.248	47.826	0.00	0.00	41.76	3.36
1288	1300	4.745783	GCTGATGATCCAACTGATGATCCA	60.746	45.833	0.00	0.00	41.76	3.41
1299	1311	4.629092	ACTGATGATCCAACTGATGATCG	58.371	43.478	0.00	0.00	44.37	3.69
1316	1357	3.895041	TGATCGAACTGGATGGCATACTA	59.105	43.478	11.73	0.00	0.00	1.82
1330	1373	8.709308	GGATGGCATACTACTTGATAGGAATAT	58.291	37.037	1.35	0.00	34.89	1.28
1343	1386	9.127277	CTTGATAGGAATATACTAGGGCTAGAC	57.873	40.741	0.00	0.00	36.97	2.59
1350	1393	8.035984	GGAATATACTAGGGCTAGACACAATTC	58.964	40.741	0.00	0.00	36.97	2.17
1353	1396	4.097418	ACTAGGGCTAGACACAATTCTGT	58.903	43.478	0.00	0.00	36.97	3.41
1440	1487	0.875059	GAACAAGCTTGGGGAAGACG	59.125	55.000	29.18	2.17	0.00	4.18
1535	1586	2.104170	TGAGTGGGTGGGTTGTTTTTC	58.896	47.619	0.00	0.00	0.00	2.29
1542	1593	2.543031	GGTGGGTTGTTTTTCTTCGAGC	60.543	50.000	0.00	0.00	0.00	5.03
1548	1599	3.328237	TGTTTTTCTTCGAGCGAAACC	57.672	42.857	6.77	6.41	33.34	3.27
1570	1621	7.100458	ACCGCTTTTTGCTAGATTCAATTAT	57.900	32.000	0.00	0.00	40.11	1.28
1571	1622	8.220755	ACCGCTTTTTGCTAGATTCAATTATA	57.779	30.769	0.00	0.00	40.11	0.98
1631	1687	7.804712	CATACAGATCTTATGCAGATTGAACC	58.195	38.462	0.00	0.00	42.92	3.62
1665	1729	6.434018	AAGATGCTCATTTGAAGAACTAGC	57.566	37.500	0.00	0.00	0.00	3.42
1791	1855	0.743097	GGATGGCAGTTCAAGATGGC	59.257	55.000	0.00	0.00	42.01	4.40
1811	1875	1.134670	CGAAGGCTCCAACTAGGGAAG	60.135	57.143	0.00	0.00	36.27	3.46
1992	3043	1.352156	CTCCCTGCTAAACGTGCGAC	61.352	60.000	0.00	0.00	0.00	5.19
2058	3109	2.652382	TTCGTGTTCCAGGAGCGCAA	62.652	55.000	16.34	7.45	30.00	4.85
2061	3112	3.423154	GTTCCAGGAGCGCAACGG	61.423	66.667	11.47	4.25	0.00	4.44
2387	3438	5.414789	TGTAGGTTTGCATGCTACTAAGA	57.585	39.130	20.33	5.55	0.00	2.10
2518	3575	6.594788	AGTTCATTGTATTGCAACAGGAAT	57.405	33.333	0.00	0.00	40.28	3.01
2544	3601	2.560981	TCTGGCACGAGTCAAGAATGTA	59.439	45.455	0.00	0.00	0.00	2.29
2659	3716	1.000955	ACCGCTCTGTCCTAACTGTTG	59.999	52.381	2.69	0.00	0.00	3.33
2686	3743	5.637810	TGTTGTTCATTCTTCTATGTCGGTC	59.362	40.000	0.00	0.00	0.00	4.79
2725	3782	0.741221	GCCTGTGGTGCTAGTGCTAC	60.741	60.000	0.00	0.00	40.48	3.58
2727	3784	0.608130	CTGTGGTGCTAGTGCTACCA	59.392	55.000	6.30	6.30	43.10	3.25
2735	3792	3.797256	GTGCTAGTGCTACCATTCTTACG	59.203	47.826	0.00	0.00	40.48	3.18
2801	3858	3.160679	AGGGAAACTAGCAGTTGCAAT	57.839	42.857	0.59	0.00	45.16	3.56
2833	3890	5.065731	GGAGTTGCTCCTTGAATATGTTCTG	59.934	44.000	7.86	0.00	46.41	3.02
2852	3909	0.399806	GCCTCCTCCTCCATCTCCTT	60.400	60.000	0.00	0.00	0.00	3.36
2878	3935	2.752358	CACCCTGCCTTGCTCTGA	59.248	61.111	0.00	0.00	0.00	3.27
2886	3943	1.024271	GCCTTGCTCTGACAACAACA	58.976	50.000	0.00	0.00	0.00	3.33
2970	4027	2.979676	CAGCCAAACCTGCGAGCA	60.980	61.111	0.00	0.00	0.00	4.26
2998	4055	4.367023	CAAAGCCGTCCCGACCGA	62.367	66.667	0.00	0.00	0.00	4.69
3048	4108	2.402572	CGCAGCGAGACTCTCCTCA	61.403	63.158	9.98	0.00	32.86	3.86
3206	4290	2.579787	GTGCCGGAGTCGTCATCG	60.580	66.667	5.05	0.00	38.55	3.84
3259	4344	1.134371	AGAGGGCCTAAGATCGTTTGC	60.134	52.381	5.73	0.00	0.00	3.68
3377	4462	9.725019	CATGTTTATAAGGATAAGACATGGCTA	57.275	33.333	0.00	0.00	39.56	3.93

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
48	49	2.890311	TGATTTGGTTGATTTCGCTGGT	59.110	40.909	0.00	0.00	0.00	4.00
73	74	0.252239	AGGGTTTCAGATTTGGGGCC	60.252	55.000	0.00	0.00	0.00	5.80
125	126	0.462937	CATCCACGGACGGGCATAAA	60.463	55.000	0.00	0.00	0.00	1.40
129	130	3.770040	CTCATCCACGGACGGGCA	61.770	66.667	0.00	0.00	0.00	5.36
247	251	4.761058	TCCTCTCTCGCCGCCCTT	62.761	66.667	0.00	0.00	0.00	3.95
283	287	0.323908	CTGTCTCTCTTCCTCCCCGT	60.324	60.000	0.00	0.00	0.00	5.28
286	290	1.111277	GCTCTGTCTCTCTTCCTCCC	58.889	60.000	0.00	0.00	0.00	4.30
292	296	1.882989	GCCCGTGCTCTGTCTCTCTT	61.883	60.000	0.00	0.00	33.53	2.85
293	297	2.347322	GCCCGTGCTCTGTCTCTCT	61.347	63.158	0.00	0.00	33.53	3.10
333	337	2.543802	CCGCTCGCTCGATAGGTGA	61.544	63.158	0.00	0.00	0.00	4.02
407	411	6.849588	TCGTATTTCTATGTACTGACGCTA	57.150	37.500	0.00	0.00	0.00	4.26
415	419	7.096312	CGGGCTAAACTTCGTATTTCTATGTAC	60.096	40.741	0.00	0.00	0.00	2.90
478	482	9.606631	TTGGTATCACTTTTGCAAATTTTTACT	57.393	25.926	13.65	0.00	0.00	2.24
489	493	3.179048	GGCGATTTGGTATCACTTTTGC	58.821	45.455	0.00	0.00	0.00	3.68
1099	1110	2.041819	GAGGGGGTCGAGGGACAT	60.042	66.667	0.00	0.00	45.28	3.06
1160	1171	2.111384	GAGGAGAACATCAGGGTGCTA	58.889	52.381	0.00	0.00	0.00	3.49
1262	1274	5.211174	TCATCAGTTGGATCATCAGCTAG	57.789	43.478	0.00	0.00	32.57	3.42
1263	1275	5.279859	GGATCATCAGTTGGATCATCAGCTA	60.280	44.000	0.00	0.00	35.38	3.32
1264	1276	4.505215	GGATCATCAGTTGGATCATCAGCT	60.505	45.833	0.00	0.00	35.38	4.24
1265	1277	3.752222	GGATCATCAGTTGGATCATCAGC	59.248	47.826	0.00	0.00	35.38	4.26
1266	1278	4.969484	TGGATCATCAGTTGGATCATCAG	58.031	43.478	0.00	0.00	35.38	2.90
1267	1279	5.104235	AGTTGGATCATCAGTTGGATCATCA	60.104	40.000	0.00	0.00	35.38	3.07
1268	1280	5.238868	CAGTTGGATCATCAGTTGGATCATC	59.761	44.000	0.00	0.00	41.30	2.92
1269	1281	5.104235	TCAGTTGGATCATCAGTTGGATCAT	60.104	40.000	0.00	0.00	41.30	2.45
1270	1282	4.225717	TCAGTTGGATCATCAGTTGGATCA	59.774	41.667	0.00	0.00	41.30	2.92
1272	1284	4.849813	TCAGTTGGATCATCAGTTGGAT	57.150	40.909	0.00	0.00	36.39	3.41
1273	1285	4.225717	TCATCAGTTGGATCATCAGTTGGA	59.774	41.667	0.00	0.00	32.57	3.53
1274	1286	4.520179	TCATCAGTTGGATCATCAGTTGG	58.480	43.478	0.00	0.00	32.57	3.77
1275	1287	5.050295	CGATCATCAGTTGGATCATCAGTTG	60.050	44.000	0.00	0.00	39.88	3.16
1276	1288	5.055144	CGATCATCAGTTGGATCATCAGTT	58.945	41.667	0.00	0.00	39.88	3.16
1277	1289	4.343239	TCGATCATCAGTTGGATCATCAGT	59.657	41.667	0.00	0.00	39.88	3.41
1278	1290	4.879598	TCGATCATCAGTTGGATCATCAG	58.120	43.478	0.00	0.00	39.88	2.90
1279	1291	4.942761	TCGATCATCAGTTGGATCATCA	57.057	40.909	0.00	0.00	39.88	3.07
1280	1292	5.177142	CAGTTCGATCATCAGTTGGATCATC	59.823	44.000	0.00	0.00	39.88	2.92
1281	1293	5.055144	CAGTTCGATCATCAGTTGGATCAT	58.945	41.667	0.00	0.00	39.88	2.45
1282	1294	4.436332	CAGTTCGATCATCAGTTGGATCA	58.564	43.478	0.00	0.00	39.88	2.92
1283	1295	3.806521	CCAGTTCGATCATCAGTTGGATC	59.193	47.826	0.00	0.00	37.22	3.36
1284	1296	3.452264	TCCAGTTCGATCATCAGTTGGAT	59.548	43.478	0.00	0.00	36.39	3.41
1285	1297	2.831526	TCCAGTTCGATCATCAGTTGGA	59.168	45.455	0.00	0.00	0.00	3.53
1286	1298	3.251479	TCCAGTTCGATCATCAGTTGG	57.749	47.619	0.00	0.00	0.00	3.77
1287	1299	3.558829	CCATCCAGTTCGATCATCAGTTG	59.441	47.826	0.00	0.00	0.00	3.16
1288	1300	3.801698	CCATCCAGTTCGATCATCAGTT	58.198	45.455	0.00	0.00	0.00	3.16
1299	1311	5.023533	TCAAGTAGTATGCCATCCAGTTC	57.976	43.478	0.00	0.00	0.00	3.01
1316	1357	8.847816	TCTAGCCCTAGTATATTCCTATCAAGT	58.152	37.037	2.53	0.00	34.84	3.16
1330	1373	5.269991	ACAGAATTGTGTCTAGCCCTAGTA	58.730	41.667	1.68	0.00	35.83	1.82
1353	1396	5.200483	AGAAGGAAGGTTGTTGTTCATGAA	58.800	37.500	3.38	3.38	0.00	2.57
1440	1487	5.116882	AGAAATTATACTGCAGTTCGACCC	58.883	41.667	27.06	9.39	0.00	4.46
1570	1621	8.233868	GTGTATGCAAAACACAGTGATTACATA	58.766	33.333	23.53	10.57	45.26	2.29
1571	1622	7.083858	GTGTATGCAAAACACAGTGATTACAT	58.916	34.615	23.53	11.49	45.26	2.29
1791	1855	0.902531	TTCCCTAGTTGGAGCCTTCG	59.097	55.000	0.00	0.00	38.35	3.79
2140	3191	1.757118	TGGAACTCGATCCAGATGTCC	59.243	52.381	3.55	0.00	44.52	4.02
2387	3438	1.594293	CGGTCAGCCACGTCTTGTT	60.594	57.895	0.00	0.00	34.09	2.83
2462	3513	4.241681	TCAACACCAGAAACAAGCAAAAC	58.758	39.130	0.00	0.00	0.00	2.43
2659	3716	7.148407	ACCGACATAGAAGAATGAACAACAATC	60.148	37.037	0.00	0.00	0.00	2.67
2725	3782	6.550843	TGCAAATAACATGACGTAAGAATGG	58.449	36.000	0.00	0.00	38.60	3.16
2727	3784	8.458052	TCATTGCAAATAACATGACGTAAGAAT	58.542	29.630	1.71	0.00	43.62	2.40
2735	3792	5.404946	AGCTGTCATTGCAAATAACATGAC	58.595	37.500	17.65	17.65	38.93	3.06
2794	3851	3.740832	GCAACTCCTTGGTAAATTGCAAC	59.259	43.478	0.00	0.00	41.56	4.17
2833	3890	0.399806	AAGGAGATGGAGGAGGAGGC	60.400	60.000	0.00	0.00	0.00	4.70
2852	3909	4.365111	GGCAGGGTGGTGATGGCA	62.365	66.667	0.00	0.00	39.18	4.92
2878	3935	1.181786	CAGTTGGGTGGTGTTGTTGT	58.818	50.000	0.00	0.00	0.00	3.32
2998	4055	3.938963	CACAAAATGTAGGCACCGTAGAT	59.061	43.478	0.00	0.00	0.00	1.98
3048	4108	2.045926	GAATCGCAGGGGTGTGCT	60.046	61.111	0.00	0.00	41.62	4.40
3206	4290	0.391263	CCACGTGTTTAGGCTCTCCC	60.391	60.000	15.65	0.00	0.00	4.30
3259	4344	1.374252	CTCTCAACCCGGAACACCG	60.374	63.158	0.73	0.00	45.51	4.94
3377	4462	9.623000	ACCATAAAAGGTTTATCGCTTATAGTT	57.377	29.630	0.00	0.00	39.34	2.24

Based at the University of Bristol with support from BBSRC.

AutoCloner maintained by Alex Coulton.