AutoCloner

Multiple sequence alignment - TraesCS6B01G453400

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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	TraesCS6B01G453400	chr6B	100.000	2974	0	0	1	2974	711722820	711725793	0.000000e+00	5493.0
1	TraesCS6B01G453400	chr6B	92.732	1197	84	3	1378	2573	711655466	711654272	0.000000e+00	1725.0
2	TraesCS6B01G453400	chr6B	82.757	1763	260	28	1228	2974	710318981	710317247	0.000000e+00	1531.0
3	TraesCS6B01G453400	chr6B	99.068	644	6	0	1	644	77051738	77052381	0.000000e+00	1157.0
4	TraesCS6B01G453400	chr6B	81.374	1208	190	20	1348	2524	710222837	710224040	0.000000e+00	952.0
5	TraesCS6B01G453400	chr6B	92.629	407	28	1	2570	2974	711636617	711636211	4.270000e-163	584.0
6	TraesCS6B01G453400	chr6B	79.135	393	44	21	971	1334	711660896	711660513	1.380000e-58	237.0
7	TraesCS6B01G453400	chr6B	91.667	168	12	2	645	810	711709326	711709493	6.410000e-57	231.0
8	TraesCS6B01G453400	chr6B	81.004	279	47	4	2648	2922	615085612	615085336	1.800000e-52	217.0
9	TraesCS6B01G453400	chr6B	78.683	319	57	8	2641	2955	711738124	711737813	5.030000e-48	202.0
10	TraesCS6B01G453400	chr6B	93.617	94	5	1	826	918	710643125	710643032	4.000000e-29	139.0
11	TraesCS6B01G453400	chr6B	95.833	72	3	0	826	897	711755658	711755729	1.870000e-22	117.0
12	TraesCS6B01G453400	chr6B	79.070	172	27	7	745	907	710684557	710684386	3.130000e-20	110.0
13	TraesCS6B01G453400	chr6B	78.286	175	29	7	745	910	711334390	711334216	1.460000e-18	104.0
14	TraesCS6B01G453400	chr6A	94.550	2165	91	19	830	2974	613079103	613081260	0.000000e+00	3319.0
15	TraesCS6B01G453400	chr6A	99.068	644	6	0	1	644	10407464	10406821	0.000000e+00	1157.0
16	TraesCS6B01G453400	chr6A	99.068	644	6	0	1	644	12604083	12603440	0.000000e+00	1157.0
17	TraesCS6B01G453400	chr6A	82.581	1240	183	24	1351	2570	608680032	608678806	0.000000e+00	1062.0
18	TraesCS6B01G453400	chr6A	82.462	1243	182	25	1351	2570	608793372	608792143	0.000000e+00	1055.0
19	TraesCS6B01G453400	chr6A	91.421	746	60	3	2233	2974	612568152	612567407	0.000000e+00	1020.0
20	TraesCS6B01G453400	chr6A	98.069	259	5	0	2716	2974	613038420	613038678	4.520000e-123	451.0
21	TraesCS6B01G453400	chr6A	91.018	167	14	1	645	810	612578579	612578413	1.070000e-54	224.0
22	TraesCS6B01G453400	chr6A	90.419	167	15	1	645	810	612299316	612299482	4.990000e-53	219.0
23	TraesCS6B01G453400	chr6A	78.638	323	62	5	2605	2922	554833215	554832895	1.080000e-49	207.0
24	TraesCS6B01G453400	chr6A	89.349	169	10	6	971	1139	612572327	612572167	3.890000e-49	206.0
25	TraesCS6B01G453400	chr6A	87.283	173	14	4	645	810	613093914	613094085	1.090000e-44	191.0
26	TraesCS6B01G453400	chr6A	92.982	114	7	1	826	939	611901475	611901587	6.590000e-37	165.0
27	TraesCS6B01G453400	chr6A	85.135	148	16	3	826	970	612109730	612109586	2.390000e-31	147.0
28	TraesCS6B01G453400	chr6A	93.103	87	6	0	826	912	125259531	125259617	8.650000e-26	128.0
29	TraesCS6B01G453400	chr1B	94.420	2025	64	14	971	2974	92326984	92324988	0.000000e+00	3068.0
30	TraesCS6B01G453400	chr1B	99.068	644	6	0	1	644	651483601	651482958	0.000000e+00	1157.0
31	TraesCS6B01G453400	chr1B	98.916	646	7	0	1	646	667064960	667064315	0.000000e+00	1155.0
32	TraesCS6B01G453400	chr1B	93.671	158	7	2	815	972	92327168	92327014	1.780000e-57	233.0
33	TraesCS6B01G453400	chr1B	87.745	204	13	8	645	838	92327412	92327211	8.290000e-56	228.0
34	TraesCS6B01G453400	chr6D	82.928	1769	259	27	1221	2974	465347887	465346147	0.000000e+00	1554.0
35	TraesCS6B01G453400	chr6D	82.759	1247	177	27	1348	2570	461820158	461818926	0.000000e+00	1077.0
36	TraesCS6B01G453400	chr6D	82.315	1244	187	22	1348	2570	462026482	462025251	0.000000e+00	1048.0
37	TraesCS6B01G453400	chr6D	78.431	357	67	8	2605	2955	466525200	466525552	1.070000e-54	224.0
38	TraesCS6B01G453400	chr6D	92.188	128	9	1	645	771	466328457	466328584	2.360000e-41	180.0
39	TraesCS6B01G453400	chr6D	90.826	109	7	3	826	934	465967306	465967201	3.090000e-30	143.0
40	TraesCS6B01G453400	chr6D	89.000	100	10	1	826	924	465745291	465745192	4.030000e-24	122.0
41	TraesCS6B01G453400	chr6D	87.179	78	10	0	650	727	466131354	466131277	4.080000e-14	89.8
42	TraesCS6B01G453400	chr4A	99.378	643	4	0	1	643	618865853	618865211	0.000000e+00	1166.0
43	TraesCS6B01G453400	chr5A	99.222	643	5	0	1	643	632428730	632429372	0.000000e+00	1160.0
44	TraesCS6B01G453400	chr3B	99.222	643	5	0	1	643	812910931	812910289	0.000000e+00	1160.0
45	TraesCS6B01G453400	chr2A	98.920	648	7	0	1	648	653285257	653284610	0.000000e+00	1158.0
46	TraesCS6B01G453400	chr3D	78.158	1346	200	51	1615	2934	464051326	464052603	0.000000e+00	771.0
47	TraesCS6B01G453400	chrUn	73.913	184	31	11	2663	2833	33026942	33026763	1.150000e-04	58.4

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	TraesCS6B01G453400	chr6B	711722820	711725793	2973	False	5493.000000	5493	100.000000	1	2974	1	chr6B.!!$F4	2973
1	TraesCS6B01G453400	chr6B	711654272	711655466	1194	True	1725.000000	1725	92.732000	1378	2573	1	chr6B.!!$R7	1195
2	TraesCS6B01G453400	chr6B	710317247	710318981	1734	True	1531.000000	1531	82.757000	1228	2974	1	chr6B.!!$R2	1746
3	TraesCS6B01G453400	chr6B	77051738	77052381	643	False	1157.000000	1157	99.068000	1	644	1	chr6B.!!$F1	643
4	TraesCS6B01G453400	chr6B	710222837	710224040	1203	False	952.000000	952	81.374000	1348	2524	1	chr6B.!!$F2	1176
5	TraesCS6B01G453400	chr6A	613079103	613081260	2157	False	3319.000000	3319	94.550000	830	2974	1	chr6A.!!$F5	2144
6	TraesCS6B01G453400	chr6A	10406821	10407464	643	True	1157.000000	1157	99.068000	1	644	1	chr6A.!!$R1	643
7	TraesCS6B01G453400	chr6A	12603440	12604083	643	True	1157.000000	1157	99.068000	1	644	1	chr6A.!!$R2	643
8	TraesCS6B01G453400	chr6A	608678806	608680032	1226	True	1062.000000	1062	82.581000	1351	2570	1	chr6A.!!$R4	1219
9	TraesCS6B01G453400	chr6A	608792143	608793372	1229	True	1055.000000	1055	82.462000	1351	2570	1	chr6A.!!$R5	1219
10	TraesCS6B01G453400	chr6A	612567407	612568152	745	True	1020.000000	1020	91.421000	2233	2974	1	chr6A.!!$R7	741
11	TraesCS6B01G453400	chr1B	92324988	92327412	2424	True	1176.333333	3068	91.945333	645	2974	3	chr1B.!!$R3	2329
12	TraesCS6B01G453400	chr1B	651482958	651483601	643	True	1157.000000	1157	99.068000	1	644	1	chr1B.!!$R1	643
13	TraesCS6B01G453400	chr1B	667064315	667064960	645	True	1155.000000	1155	98.916000	1	646	1	chr1B.!!$R2	645
14	TraesCS6B01G453400	chr6D	465346147	465347887	1740	True	1554.000000	1554	82.928000	1221	2974	1	chr6D.!!$R3	1753
15	TraesCS6B01G453400	chr6D	461818926	461820158	1232	True	1077.000000	1077	82.759000	1348	2570	1	chr6D.!!$R1	1222
16	TraesCS6B01G453400	chr6D	462025251	462026482	1231	True	1048.000000	1048	82.315000	1348	2570	1	chr6D.!!$R2	1222
17	TraesCS6B01G453400	chr4A	618865211	618865853	642	True	1166.000000	1166	99.378000	1	643	1	chr4A.!!$R1	642
18	TraesCS6B01G453400	chr5A	632428730	632429372	642	False	1160.000000	1160	99.222000	1	643	1	chr5A.!!$F1	642
19	TraesCS6B01G453400	chr3B	812910289	812910931	642	True	1160.000000	1160	99.222000	1	643	1	chr3B.!!$R1	642
20	TraesCS6B01G453400	chr2A	653284610	653285257	647	True	1158.000000	1158	98.920000	1	648	1	chr2A.!!$R1	647
21	TraesCS6B01G453400	chr3D	464051326	464052603	1277	False	771.000000	771	78.158000	1615	2934	1	chr3D.!!$F1	1319

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
822	897	0.520404	CGAAGCAATCAAGCTGCAGT	59.48	50.0	16.64	0.0	45.89	4.4	F

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability	Orientation
2466	2657	3.526931	ACATCGTCCAATTCAGATCGT	57.473	42.857	0.0	0.0	0.0	3.73	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
439	440	2.358737	CCCGCTCACCTGACCAAC	60.359	66.667	0.00	0.00	0.00	3.77
475	476	0.840288	TAGTGGGTCCCATGCTGTGT	60.840	55.000	15.49	0.00	35.28	3.72
536	537	1.021390	ATTAGGCAGCAGTGTCGCAC	61.021	55.000	7.98	2.28	31.53	5.34
666	667	2.317040	GGGATCGGGAGTCAGTTATGA	58.683	52.381	0.00	0.00	0.00	2.15
728	729	3.330853	GTCGCCGTCGGATGCATC	61.331	66.667	18.81	18.81	36.13	3.91
740	748	2.551504	CGGATGCATCAATGAGGATCCA	60.552	50.000	27.25	0.00	33.04	3.41
741	749	3.082548	GGATGCATCAATGAGGATCCAG	58.917	50.000	27.25	0.00	33.38	3.86
778	786	2.014068	GCGACCAAATAAGCAGCTCCT	61.014	52.381	0.00	0.00	0.00	3.69
795	803	3.580084	TCCTTTGGGAGCTGCAGT	58.420	55.556	16.64	1.59	36.57	4.40
804	812	1.817099	GAGCTGCAGTCCCCAATCG	60.817	63.158	16.64	0.00	0.00	3.34
810	818	0.960364	GCAGTCCCCAATCGAAGCAA	60.960	55.000	0.00	0.00	0.00	3.91
811	819	1.755179	CAGTCCCCAATCGAAGCAAT	58.245	50.000	0.00	0.00	0.00	3.56
812	820	1.672881	CAGTCCCCAATCGAAGCAATC	59.327	52.381	0.00	0.00	0.00	2.67
813	821	1.281867	AGTCCCCAATCGAAGCAATCA	59.718	47.619	0.00	0.00	0.00	2.57
814	822	2.091541	GTCCCCAATCGAAGCAATCAA	58.908	47.619	0.00	0.00	0.00	2.57
815	823	2.098117	GTCCCCAATCGAAGCAATCAAG	59.902	50.000	0.00	0.00	0.00	3.02
816	824	1.202336	CCCCAATCGAAGCAATCAAGC	60.202	52.381	0.00	0.00	0.00	4.01
822	897	0.520404	CGAAGCAATCAAGCTGCAGT	59.480	50.000	16.64	0.00	45.89	4.40
857	932	4.224147	TCCGGATTACAATCAGAAACAGGA	59.776	41.667	0.00	0.00	37.15	3.86
948	1023	3.688159	GGCGGACACCACGGTACT	61.688	66.667	0.00	0.00	0.00	2.73
997	1103	0.826715	CTCAGCAAATCCTCCCTCGA	59.173	55.000	0.00	0.00	0.00	4.04
1027	1133	1.258676	GAGTTCGTCCTCCTGTTCCT	58.741	55.000	0.00	0.00	0.00	3.36
1039	1145	2.246327	TCCTGTTCCTTTTCCCCTTGTT	59.754	45.455	0.00	0.00	0.00	2.83
1176	1282	4.627058	TGTCAAAATTGCGTCAGTCTCTA	58.373	39.130	0.00	0.00	0.00	2.43
1177	1283	4.447724	TGTCAAAATTGCGTCAGTCTCTAC	59.552	41.667	0.00	0.00	0.00	2.59
1178	1284	4.447724	GTCAAAATTGCGTCAGTCTCTACA	59.552	41.667	0.00	0.00	0.00	2.74
1179	1285	4.447724	TCAAAATTGCGTCAGTCTCTACAC	59.552	41.667	0.00	0.00	0.00	2.90
1180	1286	3.944055	AATTGCGTCAGTCTCTACACT	57.056	42.857	0.00	0.00	0.00	3.55
1181	1287	2.706555	TTGCGTCAGTCTCTACACTG	57.293	50.000	0.00	0.00	44.61	3.66
1182	1288	0.241213	TGCGTCAGTCTCTACACTGC	59.759	55.000	0.00	0.00	43.18	4.40
1183	1289	0.794981	GCGTCAGTCTCTACACTGCG	60.795	60.000	10.87	10.87	43.18	5.18
1184	1290	0.179187	CGTCAGTCTCTACACTGCGG	60.179	60.000	0.00	0.00	43.18	5.69
1185	1291	0.171455	GTCAGTCTCTACACTGCGGG	59.829	60.000	0.00	0.00	43.18	6.13
1186	1292	0.251209	TCAGTCTCTACACTGCGGGT	60.251	55.000	0.00	0.00	43.18	5.28
1189	1295	1.817447	AGTCTCTACACTGCGGGTAAC	59.183	52.381	0.00	0.00	0.00	2.50
1191	1297	3.012518	GTCTCTACACTGCGGGTAACTA	58.987	50.000	0.00	0.00	0.00	2.24
1192	1298	3.012518	TCTCTACACTGCGGGTAACTAC	58.987	50.000	0.00	0.00	0.00	2.73
1193	1299	2.751259	CTCTACACTGCGGGTAACTACA	59.249	50.000	0.00	0.00	0.00	2.74
1194	1300	3.359033	TCTACACTGCGGGTAACTACAT	58.641	45.455	0.00	0.00	0.00	2.29
1196	1302	1.206371	ACACTGCGGGTAACTACATCC	59.794	52.381	0.00	0.00	0.00	3.51
1197	1303	1.480954	CACTGCGGGTAACTACATCCT	59.519	52.381	0.00	0.00	0.00	3.24
1198	1304	2.093658	CACTGCGGGTAACTACATCCTT	60.094	50.000	0.00	0.00	0.00	3.36
1199	1305	2.570302	ACTGCGGGTAACTACATCCTTT	59.430	45.455	0.00	0.00	0.00	3.11
1204	1311	4.571919	CGGGTAACTACATCCTTTTGTGA	58.428	43.478	0.00	0.00	0.00	3.58
1254	1381	2.577700	TGCGTGTTTATGTGGGAAAGT	58.422	42.857	0.00	0.00	0.00	2.66
1255	1382	3.741249	TGCGTGTTTATGTGGGAAAGTA	58.259	40.909	0.00	0.00	0.00	2.24
1256	1383	4.328536	TGCGTGTTTATGTGGGAAAGTAT	58.671	39.130	0.00	0.00	0.00	2.12
1257	1384	4.155099	TGCGTGTTTATGTGGGAAAGTATG	59.845	41.667	0.00	0.00	0.00	2.39
1258	1385	4.393680	GCGTGTTTATGTGGGAAAGTATGA	59.606	41.667	0.00	0.00	0.00	2.15
1259	1386	5.106475	GCGTGTTTATGTGGGAAAGTATGAA	60.106	40.000	0.00	0.00	0.00	2.57
1260	1387	6.568844	GCGTGTTTATGTGGGAAAGTATGAAA	60.569	38.462	0.00	0.00	0.00	2.69
1261	1388	7.021196	CGTGTTTATGTGGGAAAGTATGAAAG	58.979	38.462	0.00	0.00	0.00	2.62
1262	1389	7.308348	CGTGTTTATGTGGGAAAGTATGAAAGT	60.308	37.037	0.00	0.00	0.00	2.66
1263	1390	8.357402	GTGTTTATGTGGGAAAGTATGAAAGTT	58.643	33.333	0.00	0.00	0.00	2.66
1264	1391	8.573035	TGTTTATGTGGGAAAGTATGAAAGTTC	58.427	33.333	0.00	0.00	0.00	3.01
1265	1392	8.793592	GTTTATGTGGGAAAGTATGAAAGTTCT	58.206	33.333	0.00	0.00	0.00	3.01
1407	1561	6.620877	TGTAGGACAATGAAGTTGATAGGT	57.379	37.500	0.00	0.00	40.37	3.08
1619	1779	2.281208	GCCAACACCACCGTGCTA	60.281	61.111	0.00	0.00	44.40	3.49
1653	1813	1.340017	GCATACTGGAAAGCAGGACCA	60.340	52.381	0.00	0.00	0.00	4.02
1658	1818	0.401738	TGGAAAGCAGGACCAGAAGG	59.598	55.000	0.00	0.00	42.21	3.46
1791	1951	5.776744	AGTTCGTAATCTTAACCGAAGTGT	58.223	37.500	0.00	0.00	40.37	3.55
2369	2556	5.327732	ACATAATTCTGCATTATCCCCCTG	58.672	41.667	0.00	0.00	36.10	4.45
2466	2657	9.405587	GAATTTGTTCAACATTTCCGAAGAATA	57.594	29.630	0.00	0.00	0.00	1.75
2822	3043	2.158871	TGTATCTATGGGTTTCGGGCAC	60.159	50.000	0.00	0.00	0.00	5.01

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
439	440	3.865745	CCACTAACTTATCCAACTCAGCG	59.134	47.826	0.00	0.00	0.00	5.18
475	476	1.596934	GAATCAGGTGAGCGGGACA	59.403	57.895	0.00	0.00	0.00	4.02
721	722	2.488545	GCTGGATCCTCATTGATGCATC	59.511	50.000	20.14	20.14	41.43	3.91
722	723	2.515854	GCTGGATCCTCATTGATGCAT	58.484	47.619	14.23	0.00	41.43	3.96
723	724	1.812708	CGCTGGATCCTCATTGATGCA	60.813	52.381	14.23	0.00	40.26	3.96
724	725	0.873054	CGCTGGATCCTCATTGATGC	59.127	55.000	14.23	3.83	34.05	3.91
726	727	1.135094	ACCGCTGGATCCTCATTGAT	58.865	50.000	14.23	0.00	0.00	2.57
727	728	0.178767	CACCGCTGGATCCTCATTGA	59.821	55.000	14.23	0.00	0.00	2.57
728	729	1.442526	GCACCGCTGGATCCTCATTG	61.443	60.000	14.23	5.05	0.00	2.82
778	786	1.376466	GACTGCAGCTCCCAAAGGA	59.624	57.895	15.27	0.00	41.08	3.36
795	803	2.368439	CTTGATTGCTTCGATTGGGGA	58.632	47.619	0.00	0.00	0.00	4.81
804	812	1.465354	CGACTGCAGCTTGATTGCTTC	60.465	52.381	15.27	0.00	41.98	3.86
857	932	3.367498	CGGAGACTGAATTCGAAAGAGGT	60.367	47.826	0.00	0.00	43.69	3.85
912	987	4.323417	CGCCAGGCCAGATTTATGTATAA	58.677	43.478	5.01	0.00	0.00	0.98
917	992	0.179020	TCCGCCAGGCCAGATTTATG	60.179	55.000	5.01	0.00	37.47	1.90
948	1023	3.056393	TCGTCTCCTCTTAAAATTGGCGA	60.056	43.478	0.00	0.00	0.00	5.54
981	1087	0.984230	TGTTCGAGGGAGGATTTGCT	59.016	50.000	0.00	0.00	0.00	3.91
997	1103	3.980583	ACGAACTCACCGTCATGTT	57.019	47.368	0.00	0.00	34.97	2.71
1027	1133	4.918588	GAGGATCTACAACAAGGGGAAAA	58.081	43.478	0.00	0.00	0.00	2.29
1176	1282	1.206371	GGATGTAGTTACCCGCAGTGT	59.794	52.381	0.00	0.00	0.00	3.55
1177	1283	1.480954	AGGATGTAGTTACCCGCAGTG	59.519	52.381	0.00	0.00	0.00	3.66
1178	1284	1.861982	AGGATGTAGTTACCCGCAGT	58.138	50.000	0.00	0.00	0.00	4.40
1179	1285	2.981859	AAGGATGTAGTTACCCGCAG	57.018	50.000	0.00	0.00	0.00	5.18
1180	1286	3.244630	ACAAAAGGATGTAGTTACCCGCA	60.245	43.478	0.00	0.00	0.00	5.69
1181	1287	3.126343	CACAAAAGGATGTAGTTACCCGC	59.874	47.826	0.00	0.00	30.84	6.13
1182	1288	4.571919	TCACAAAAGGATGTAGTTACCCG	58.428	43.478	0.00	0.00	30.84	5.28
1183	1289	5.557866	ACTCACAAAAGGATGTAGTTACCC	58.442	41.667	0.00	0.00	30.84	3.69
1184	1290	8.788325	ATTACTCACAAAAGGATGTAGTTACC	57.212	34.615	0.00	0.00	30.84	2.85
1191	1297	9.739276	TCTTCATAATTACTCACAAAAGGATGT	57.261	29.630	0.00	0.00	0.00	3.06
1194	1300	9.793259	AGTTCTTCATAATTACTCACAAAAGGA	57.207	29.630	0.00	0.00	0.00	3.36
1212	1319	7.172532	ACGCAATTTTGATAGTACAGTTCTTCA	59.827	33.333	0.00	0.00	0.00	3.02
1213	1320	7.478667	CACGCAATTTTGATAGTACAGTTCTTC	59.521	37.037	0.00	0.00	0.00	2.87
1256	1383	9.554724	GACGCAATTTTGATTATAGAACTTTCA	57.445	29.630	0.00	0.00	0.00	2.69
1257	1384	9.774742	AGACGCAATTTTGATTATAGAACTTTC	57.225	29.630	0.00	0.00	0.00	2.62
1260	1387	9.774742	GAAAGACGCAATTTTGATTATAGAACT	57.225	29.630	0.00	0.00	0.00	3.01
1261	1388	9.774742	AGAAAGACGCAATTTTGATTATAGAAC	57.225	29.630	0.00	0.00	0.00	3.01
1262	1389	9.773328	CAGAAAGACGCAATTTTGATTATAGAA	57.227	29.630	0.00	0.00	0.00	2.10
1263	1390	8.946085	ACAGAAAGACGCAATTTTGATTATAGA	58.054	29.630	0.00	0.00	0.00	1.98
1264	1391	9.003112	CACAGAAAGACGCAATTTTGATTATAG	57.997	33.333	0.00	0.00	0.00	1.31
1265	1392	7.967854	CCACAGAAAGACGCAATTTTGATTATA	59.032	33.333	0.00	0.00	0.00	0.98
1266	1393	6.808212	CCACAGAAAGACGCAATTTTGATTAT	59.192	34.615	0.00	0.00	0.00	1.28
1330	1472	6.259550	ACTTATTGAGACAGGTGCAATTTC	57.740	37.500	0.00	0.00	34.41	2.17
1619	1779	1.912043	AGTATGCTCCTGGTTGCTTCT	59.088	47.619	13.47	7.77	0.00	2.85
1653	1813	4.040755	AGGTGAATGGTGTATAGCCTTCT	58.959	43.478	7.86	0.00	0.00	2.85
1791	1951	5.179742	GGTCATCAACGTAACAATTGGTACA	59.820	40.000	28.39	13.02	38.08	2.90
2369	2556	3.559655	GGTTTGACCCAAATCTGCAAAAC	59.440	43.478	0.00	0.00	35.74	2.43
2466	2657	3.526931	ACATCGTCCAATTCAGATCGT	57.473	42.857	0.00	0.00	0.00	3.73
2822	3043	5.163513	GGCATACCTCACAAATTTGTCTTG	58.836	41.667	20.85	13.53	39.91	3.02

Based at the University of Bristol with support from BBSRC.

AutoCloner maintained by Alex Coulton.