AutoCloner

Multiple sequence alignment - TraesCS3D01G076000

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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	TraesCS3D01G076000	chr3D	100.000	2258	0	0	1	2258	36825627	36823370	0.000000e+00	4170.0
1	TraesCS3D01G076000	chr3D	89.621	501	35	9	1773	2258	50657026	50657524	2.460000e-174	621.0
2	TraesCS3D01G076000	chr3D	84.917	484	37	15	509	970	50655296	50655765	7.350000e-125	457.0
3	TraesCS3D01G076000	chr3D	92.742	124	6	3	165	286	36823945	36823823	2.300000e-40	176.0
4	TraesCS3D01G076000	chr3D	92.742	124	6	3	1683	1805	36825463	36825342	2.300000e-40	176.0
5	TraesCS3D01G076000	chr3D	91.837	49	3	1	122	169	50656903	50656951	1.450000e-07	67.6
6	TraesCS3D01G076000	chr3A	88.903	1541	96	23	509	1987	47048760	47047233	0.000000e+00	1829.0
7	TraesCS3D01G076000	chr3A	88.796	357	30	9	163	514	47049140	47048789	1.600000e-116	429.0
8	TraesCS3D01G076000	chr3A	89.655	58	6	0	1648	1705	47050149	47050092	8.650000e-10	75.0
9	TraesCS3D01G076000	chr3B	87.080	952	53	23	509	1420	59328464	59327543	0.000000e+00	1013.0
10	TraesCS3D01G076000	chr3B	84.689	1045	63	28	662	1653	80656942	80657942	0.000000e+00	953.0
11	TraesCS3D01G076000	chr3B	90.404	594	44	4	1669	2251	59325213	59324622	0.000000e+00	769.0
12	TraesCS3D01G076000	chr3B	85.053	562	39	22	509	1044	80199389	80199931	4.270000e-147	531.0
13	TraesCS3D01G076000	chr3B	83.806	599	48	18	1098	1653	80199936	80200528	7.150000e-145	523.0
14	TraesCS3D01G076000	chr3B	84.843	541	51	5	2	514	59329031	59328494	1.200000e-142	516.0
15	TraesCS3D01G076000	chr3B	93.750	160	6	1	2092	2251	80657991	80658146	1.040000e-58	237.0
16	TraesCS3D01G076000	chr3B	89.873	158	15	1	1648	1804	59328878	59328721	3.800000e-48	202.0
17	TraesCS3D01G076000	chr3B	93.443	122	7	1	165	285	59325199	59325078	1.780000e-41	180.0
18	TraesCS3D01G076000	chr3B	97.674	86	2	0	1521	1606	59327546	59327461	5.020000e-32	148.0
19	TraesCS3D01G076000	chr1A	83.238	877	73	32	597	1436	552119701	552118862	0.000000e+00	737.0
20	TraesCS3D01G076000	chr1A	100.000	30	0	0	445	474	97997590	97997619	3.130000e-04	56.5
21	TraesCS3D01G076000	chr1D	82.135	918	94	34	597	1489	460995945	460995073	0.000000e+00	723.0
22	TraesCS3D01G076000	chr1D	81.358	928	65	46	612	1489	460982871	460982002	0.000000e+00	656.0
23	TraesCS3D01G076000	chr1B	81.916	929	83	35	605	1489	633261014	633260127	0.000000e+00	706.0
24	TraesCS3D01G076000	chr4A	78.590	766	93	35	681	1404	642186916	642186180	7.400000e-120	440.0
25	TraesCS3D01G076000	chr4A	76.786	616	72	35	827	1401	686578956	686579541	1.710000e-71	279.0
26	TraesCS3D01G076000	chr4A	75.538	372	56	18	941	1287	642671722	642671361	1.400000e-32	150.0
27	TraesCS3D01G076000	chr4A	94.231	52	3	0	1195	1246	688700440	688700389	1.860000e-11	80.5
28	TraesCS3D01G076000	chr4A	94.231	52	3	0	1195	1246	688755449	688755398	1.860000e-11	80.5
29	TraesCS3D01G076000	chr7D	78.289	608	87	25	668	1254	38522240	38522823	1.280000e-92	350.0
30	TraesCS3D01G076000	chr7D	74.785	698	98	29	737	1404	38006199	38005550	2.240000e-60	243.0

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	TraesCS3D01G076000	chr3D	36823370	36825627	2257	True	1507.333333	4170	95.161333	1	2258	3	chr3D.!!$R1	2257
1	TraesCS3D01G076000	chr3D	50655296	50657524	2228	False	381.866667	621	88.791667	122	2258	3	chr3D.!!$F1	2136
2	TraesCS3D01G076000	chr3A	47047233	47050149	2916	True	777.666667	1829	89.118000	163	1987	3	chr3A.!!$R1	1824
3	TraesCS3D01G076000	chr3B	80656942	80658146	1204	False	595.000000	953	89.219500	662	2251	2	chr3B.!!$F2	1589
4	TraesCS3D01G076000	chr3B	80199389	80200528	1139	False	527.000000	531	84.429500	509	1653	2	chr3B.!!$F1	1144
5	TraesCS3D01G076000	chr3B	59324622	59329031	4409	True	471.333333	1013	90.552833	2	2251	6	chr3B.!!$R1	2249
6	TraesCS3D01G076000	chr1A	552118862	552119701	839	True	737.000000	737	83.238000	597	1436	1	chr1A.!!$R1	839
7	TraesCS3D01G076000	chr1D	460995073	460995945	872	True	723.000000	723	82.135000	597	1489	1	chr1D.!!$R2	892
8	TraesCS3D01G076000	chr1D	460982002	460982871	869	True	656.000000	656	81.358000	612	1489	1	chr1D.!!$R1	877
9	TraesCS3D01G076000	chr1B	633260127	633261014	887	True	706.000000	706	81.916000	605	1489	1	chr1B.!!$R1	884
10	TraesCS3D01G076000	chr4A	642186180	642186916	736	True	440.000000	440	78.590000	681	1404	1	chr4A.!!$R1	723
11	TraesCS3D01G076000	chr4A	686578956	686579541	585	False	279.000000	279	76.786000	827	1401	1	chr4A.!!$F1	574
12	TraesCS3D01G076000	chr7D	38522240	38522823	583	False	350.000000	350	78.289000	668	1254	1	chr7D.!!$F1	586
13	TraesCS3D01G076000	chr7D	38005550	38006199	649	True	243.000000	243	74.785000	737	1404	1	chr7D.!!$R1	667

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
179	1028	0.423544	AAGTCCCTTCCTGATCCCCT	59.576	55.0	0.0	0.0	0.0	4.79	F

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability	Orientation
1508	2622	0.30776	GCCTGAAACGTCACTGTTGG	59.692	55.0	0.0	0.0	31.1	3.77	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
21	22	0.620030	TGGTGGTGGAGATGTGATGG	59.380	55.000	0.00	0.00	0.00	3.51
31	32	3.944015	GGAGATGTGATGGTTTCCTTCTG	59.056	47.826	3.94	0.00	0.00	3.02
39	40	4.580167	TGATGGTTTCCTTCTGTCAGTTTG	59.420	41.667	0.00	0.00	0.00	2.93
47	48	5.751586	TCCTTCTGTCAGTTTGTTAGGTTT	58.248	37.500	0.00	0.00	0.00	3.27
54	55	6.383415	TGTCAGTTTGTTAGGTTTGTTTGTC	58.617	36.000	0.00	0.00	0.00	3.18
58	59	6.530181	CAGTTTGTTAGGTTTGTTTGTCTTCC	59.470	38.462	0.00	0.00	0.00	3.46
71	72	5.596361	TGTTTGTCTTCCCTTTGATGCTTTA	59.404	36.000	0.00	0.00	0.00	1.85
79	80	2.986479	CCTTTGATGCTTTACGGTTTGC	59.014	45.455	0.00	0.00	0.00	3.68
116	117	1.729149	GCTTTGCGGTTTGGATCTTCG	60.729	52.381	0.00	0.00	0.00	3.79
130	131	3.251004	GGATCTTCGTGAATGGGTATTGC	59.749	47.826	0.00	0.00	0.00	3.56
131	132	3.627395	TCTTCGTGAATGGGTATTGCT	57.373	42.857	0.00	0.00	0.00	3.91
169	170	1.584724	TGGATCTCCCAAGTCCCTTC	58.415	55.000	0.00	0.00	43.29	3.46
170	171	0.840617	GGATCTCCCAAGTCCCTTCC	59.159	60.000	0.00	0.00	34.14	3.46
179	1028	0.423544	AAGTCCCTTCCTGATCCCCT	59.576	55.000	0.00	0.00	0.00	4.79
195	1044	1.271054	CCCCTGCTATACCTGATGCAC	60.271	57.143	0.00	0.00	0.00	4.57
210	1061	1.891919	GCACAGTGTCCGGCTTTGA	60.892	57.895	0.00	0.00	0.00	2.69
229	1080	6.378661	TTTGAGATCTCCCTCTTTCATGAA	57.621	37.500	20.03	3.38	34.38	2.57
261	1112	4.767409	GGTGTTCTTTGAGGCCTCTTTTAT	59.233	41.667	32.28	0.00	0.00	1.40
291	1142	3.449746	TTCAGGTGGGGAAATTACAGG	57.550	47.619	0.00	0.00	0.00	4.00
299	1150	2.362736	GGGAAATTACAGGGGACGTTC	58.637	52.381	0.00	0.00	0.00	3.95
386	1238	6.151312	TGCCTAATTTTACATTTAGCAACCGA	59.849	34.615	0.00	0.00	0.00	4.69
387	1239	7.030768	GCCTAATTTTACATTTAGCAACCGAA	58.969	34.615	0.00	0.00	0.00	4.30
430	1282	6.822073	TCGTAATGTGAATAATTCTGGTCG	57.178	37.500	0.00	0.00	0.00	4.79
443	1295	2.970324	GGTCGCAAGTTGCACCGA	60.970	61.111	26.56	13.56	45.36	4.69
452	1304	2.556622	CAAGTTGCACCGAGGGTAAAAT	59.443	45.455	0.00	0.00	32.11	1.82
453	1305	2.433436	AGTTGCACCGAGGGTAAAATC	58.567	47.619	0.00	0.00	32.11	2.17
457	1309	1.405121	GCACCGAGGGTAAAATCGTCT	60.405	52.381	0.00	0.00	37.23	4.18
460	1312	3.749609	CACCGAGGGTAAAATCGTCTTTT	59.250	43.478	0.00	4.41	37.23	2.27
461	1313	4.214758	CACCGAGGGTAAAATCGTCTTTTT	59.785	41.667	4.32	2.45	37.23	1.94
463	1315	5.640783	ACCGAGGGTAAAATCGTCTTTTTAG	59.359	40.000	4.32	0.00	37.23	1.85
482	1334	9.733219	CTTTTTAGGTGTCATTTAAACCGTTAA	57.267	29.630	0.00	0.00	39.07	2.01
521	1408	7.363431	GGAGTATCACAAAAGAAAGAGGTTTG	58.637	38.462	0.00	0.00	38.06	2.93
522	1409	6.739112	AGTATCACAAAAGAAAGAGGTTTGC	58.261	36.000	0.00	0.00	36.01	3.68
536	1423	2.765699	AGGTTTGCTGTGTCAAATTGGT	59.234	40.909	0.00	0.00	38.12	3.67
537	1424	3.957497	AGGTTTGCTGTGTCAAATTGGTA	59.043	39.130	0.00	0.00	38.12	3.25
593	1482	2.629639	AAAAAGGCCAGATTTACGCG	57.370	45.000	5.01	3.53	0.00	6.01
595	1484	1.029947	AAAGGCCAGATTTACGCGGG	61.030	55.000	12.47	0.00	0.00	6.13
597	1486	2.188469	GCCAGATTTACGCGGGGA	59.812	61.111	12.47	0.00	0.00	4.81
598	1487	1.450669	GCCAGATTTACGCGGGGAA	60.451	57.895	12.47	0.00	0.00	3.97
599	1488	1.027792	GCCAGATTTACGCGGGGAAA	61.028	55.000	12.76	12.76	0.00	3.13
618	1511	4.692155	GGAAAAATGGCCAGAATTGTCAAG	59.308	41.667	13.05	0.00	0.00	3.02
659	1558	1.876156	GCGCAGGAGGGAAAGAATATG	59.124	52.381	0.30	0.00	0.00	1.78
740	1674	1.005630	AGCTCGCTCGCTGTTTCTT	60.006	52.632	0.00	0.00	39.16	2.52
743	1677	1.355066	CTCGCTCGCTGTTTCTTCCC	61.355	60.000	0.00	0.00	0.00	3.97
773	1707	2.741878	CGTCCACGAATATTCTGGGCTT	60.742	50.000	23.95	1.82	43.02	4.35
807	1745	0.540830	ACCGCCATGCCCAAAACTTA	60.541	50.000	0.00	0.00	0.00	2.24
808	1746	0.605589	CCGCCATGCCCAAAACTTAA	59.394	50.000	0.00	0.00	0.00	1.85
809	1747	1.001406	CCGCCATGCCCAAAACTTAAA	59.999	47.619	0.00	0.00	0.00	1.52
810	1748	2.065512	CGCCATGCCCAAAACTTAAAC	58.934	47.619	0.00	0.00	0.00	2.01
811	1749	2.288763	CGCCATGCCCAAAACTTAAACT	60.289	45.455	0.00	0.00	0.00	2.66
921	1910	1.202521	TGAAGCAAAGTCACAGAGCGA	60.203	47.619	0.00	0.00	0.00	4.93
922	1911	1.458827	GAAGCAAAGTCACAGAGCGAG	59.541	52.381	0.00	0.00	0.00	5.03
923	1912	0.948141	AGCAAAGTCACAGAGCGAGC	60.948	55.000	0.00	0.00	0.00	5.03
929	1922	4.467062	CACAGAGCGAGCGAGCGA	62.467	66.667	1.41	0.00	43.00	4.93
1287	2365	4.687215	TGGCTGCTCGTGGTCTGC	62.687	66.667	0.00	0.00	0.00	4.26
1315	2406	3.059884	GCGTGTGAGACTCATTCTTTCA	58.940	45.455	8.73	0.00	33.22	2.69
1489	2603	1.690283	CGGCGCAGAGATGTTCAGTG	61.690	60.000	10.83	0.00	0.00	3.66
1688	5601	2.305927	GTTTCTGATCACTCCCCCTTCA	59.694	50.000	0.00	0.00	0.00	3.02
1783	5732	6.331369	TGTTCTTTGAGGCCTCTTTTATTG	57.669	37.500	32.28	15.22	0.00	1.90
1804	5754	7.765695	ATTGAATATATTCAGGTGCGGAAAT	57.234	32.000	23.61	11.47	46.34	2.17
1867	5817	0.960364	ATGACCTTCCAACGCGCATT	60.960	50.000	5.73	0.00	0.00	3.56
1902	5852	2.957680	ACATCAGCACAATTTGACACCA	59.042	40.909	2.79	0.00	0.00	4.17
1913	5863	5.126869	ACAATTTGACACCAAGATGTTGACA	59.873	36.000	3.74	0.00	35.46	3.58
1932	5882	0.396974	ACCAGACCAAAGCAAGGCAA	60.397	50.000	0.00	0.00	0.00	4.52
1944	5894	6.092533	CCAAAGCAAGGCAATAAAACCATTAG	59.907	38.462	0.00	0.00	0.00	1.73
1978	5928	4.262207	GGCACCATCAGAGAATAATCGAGA	60.262	45.833	0.00	0.00	0.00	4.04
2048	6003	1.534163	TCTGATGACGAGACGAAACGT	59.466	47.619	0.00	0.00	45.10	3.99
2061	6016	2.096481	GAAACGTTCGCGGCTGTTCA	62.096	55.000	6.13	0.00	46.45	3.18
2062	6017	2.101209	AAACGTTCGCGGCTGTTCAG	62.101	55.000	6.13	0.00	46.45	3.02
2064	6019	1.731613	CGTTCGCGGCTGTTCAGTA	60.732	57.895	6.13	0.00	36.88	2.74
2073	6028	4.378046	CGCGGCTGTTCAGTAAAACTAATT	60.378	41.667	0.00	0.00	0.00	1.40
2074	6029	5.086727	GCGGCTGTTCAGTAAAACTAATTC	58.913	41.667	0.00	0.00	0.00	2.17
2146	6114	5.473846	TGGCGAAAGAAAATACACATGGTAA	59.526	36.000	0.00	0.00	35.14	2.85

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
0	1	2.357465	CCATCACATCTCCACCACCAAT	60.357	50.000	0.00	0.00	0.00	3.16
4	5	2.496899	AACCATCACATCTCCACCAC	57.503	50.000	0.00	0.00	0.00	4.16
12	13	4.326826	TGACAGAAGGAAACCATCACATC	58.673	43.478	0.00	0.00	0.00	3.06
18	19	4.536765	ACAAACTGACAGAAGGAAACCAT	58.463	39.130	10.08	0.00	0.00	3.55
21	22	5.589050	ACCTAACAAACTGACAGAAGGAAAC	59.411	40.000	10.08	0.00	0.00	2.78
31	32	6.617879	AGACAAACAAACCTAACAAACTGAC	58.382	36.000	0.00	0.00	0.00	3.51
39	40	5.847111	AAGGGAAGACAAACAAACCTAAC	57.153	39.130	0.00	0.00	0.00	2.34
47	48	3.565307	AGCATCAAAGGGAAGACAAACA	58.435	40.909	0.00	0.00	0.00	2.83
54	55	3.081804	ACCGTAAAGCATCAAAGGGAAG	58.918	45.455	0.00	0.00	0.00	3.46
58	59	2.986479	GCAAACCGTAAAGCATCAAAGG	59.014	45.455	0.00	0.00	0.00	3.11
71	72	2.193536	GGGAGCACAAGCAAACCGT	61.194	57.895	0.00	0.00	45.49	4.83
79	80	4.240096	CAAAGCATAAAAGGGAGCACAAG	58.760	43.478	0.00	0.00	0.00	3.16
164	165	0.400525	TAGCAGGGGATCAGGAAGGG	60.401	60.000	0.00	0.00	0.00	3.95
169	170	1.905215	CAGGTATAGCAGGGGATCAGG	59.095	57.143	4.48	0.00	0.00	3.86
170	171	2.894731	TCAGGTATAGCAGGGGATCAG	58.105	52.381	4.48	0.00	0.00	2.90
195	1044	1.066573	AGATCTCAAAGCCGGACACTG	60.067	52.381	5.05	0.00	0.00	3.66
229	1080	7.816411	AGGCCTCAAAGAACACCTAAATATAT	58.184	34.615	0.00	0.00	0.00	0.86
337	1189	4.339247	GCTGTAAACATGCATATCTTGGGT	59.661	41.667	0.00	0.00	0.00	4.51
340	1192	4.974275	GCAGCTGTAAACATGCATATCTTG	59.026	41.667	16.64	0.00	38.54	3.02
343	1195	3.567164	AGGCAGCTGTAAACATGCATATC	59.433	43.478	16.64	0.00	40.46	1.63
404	1256	8.335356	CGACCAGAATTATTCACATTACGAAAT	58.665	33.333	7.74	0.00	0.00	2.17
407	1259	5.233476	GCGACCAGAATTATTCACATTACGA	59.767	40.000	7.74	0.00	0.00	3.43
408	1260	5.006261	TGCGACCAGAATTATTCACATTACG	59.994	40.000	7.74	6.38	0.00	3.18
414	1266	4.946784	ACTTGCGACCAGAATTATTCAC	57.053	40.909	7.74	0.00	0.00	3.18
430	1282	0.887387	TTACCCTCGGTGCAACTTGC	60.887	55.000	6.82	6.82	45.29	4.01
443	1295	6.301486	ACACCTAAAAAGACGATTTTACCCT	58.699	36.000	0.00	0.00	34.51	4.34
452	1304	7.518689	CGGTTTAAATGACACCTAAAAAGACGA	60.519	37.037	0.00	0.00	0.00	4.20
453	1305	6.575942	CGGTTTAAATGACACCTAAAAAGACG	59.424	38.462	0.00	0.00	0.00	4.18
482	1334	9.621629	TTTGTGATACTCCGTCCATTTAATTAT	57.378	29.630	0.00	0.00	0.00	1.28
485	1337	7.827236	TCTTTTGTGATACTCCGTCCATTTAAT	59.173	33.333	0.00	0.00	0.00	1.40
514	1401	3.181476	ACCAATTTGACACAGCAAACCTC	60.181	43.478	0.00	0.00	40.23	3.85
591	1480	1.540435	TTCTGGCCATTTTTCCCCGC	61.540	55.000	5.51	0.00	0.00	6.13
593	1482	2.305635	ACAATTCTGGCCATTTTTCCCC	59.694	45.455	5.51	0.00	0.00	4.81
595	1484	4.270245	TGACAATTCTGGCCATTTTTCC	57.730	40.909	5.51	0.00	0.00	3.13
597	1486	5.294734	ACTTGACAATTCTGGCCATTTTT	57.705	34.783	5.51	0.00	0.00	1.94
598	1487	4.961438	ACTTGACAATTCTGGCCATTTT	57.039	36.364	5.51	0.00	0.00	1.82
599	1488	4.961438	AACTTGACAATTCTGGCCATTT	57.039	36.364	5.51	0.00	0.00	2.32
618	1511	3.576648	CTGTCTTCTCTACCCGTGAAAC	58.423	50.000	0.00	0.00	0.00	2.78
687	1594	2.551912	GCGTGGTGGAGGTTGGTTG	61.552	63.158	0.00	0.00	0.00	3.77
688	1595	2.203294	GCGTGGTGGAGGTTGGTT	60.203	61.111	0.00	0.00	0.00	3.67
689	1596	4.265056	GGCGTGGTGGAGGTTGGT	62.265	66.667	0.00	0.00	0.00	3.67
690	1597	4.263572	TGGCGTGGTGGAGGTTGG	62.264	66.667	0.00	0.00	0.00	3.77
773	1707	1.667830	CGGTTTCAAGCGCTGGAGA	60.668	57.895	15.44	7.94	43.20	3.71
807	1745	2.042162	AGCATGGTCATGGAGGAAGTTT	59.958	45.455	12.23	0.00	39.16	2.66
808	1746	1.637553	AGCATGGTCATGGAGGAAGTT	59.362	47.619	12.23	0.00	39.16	2.66
809	1747	1.211457	GAGCATGGTCATGGAGGAAGT	59.789	52.381	19.79	0.00	39.16	3.01
810	1748	1.476471	GGAGCATGGTCATGGAGGAAG	60.476	57.143	25.18	0.00	39.16	3.46
811	1749	0.548031	GGAGCATGGTCATGGAGGAA	59.452	55.000	25.18	0.00	39.16	3.36
900	1889	1.194098	CGCTCTGTGACTTTGCTTCAG	59.806	52.381	0.00	0.00	0.00	3.02
923	1912	2.539972	CTTTCTTGCACGCTCGCTCG	62.540	60.000	0.00	0.00	0.00	5.03
929	1922	1.499056	CGATGCTTTCTTGCACGCT	59.501	52.632	0.00	0.00	46.33	5.07
1270	2348	4.687215	GCAGACCACGAGCAGCCA	62.687	66.667	0.00	0.00	0.00	4.75
1315	2406	1.009078	TCGTACGGTGATCGAACGAT	58.991	50.000	16.52	9.46	42.43	3.73
1473	2587	0.987715	CGTCACTGAACATCTCTGCG	59.012	55.000	0.00	0.00	0.00	5.18
1499	2613	1.604308	TCACTGTTGGCCATGCAGG	60.604	57.895	29.65	21.73	41.84	4.85
1508	2622	0.307760	GCCTGAAACGTCACTGTTGG	59.692	55.000	0.00	0.00	31.10	3.77
1581	2730	5.420409	GGGTGGTGAGTCTATTTCAGTTAG	58.580	45.833	0.00	0.00	0.00	2.34
1688	5601	1.135094	CAGGTGTAGCAGGGGATCAT	58.865	55.000	0.00	0.00	0.00	2.45
1759	5708	6.721208	TCAATAAAAGAGGCCTCAAAGAACAT	59.279	34.615	33.90	14.22	0.00	2.71
1769	5718	9.525826	CCTGAATATATTCAATAAAAGAGGCCT	57.474	33.333	24.61	3.86	45.26	5.19
1783	5732	6.183309	GGATTTCCGCACCTGAATATATTC	57.817	41.667	17.09	17.09	37.31	1.75
1840	5790	5.049954	GCGCGTTGGAAGGTCATATAATAAA	60.050	40.000	8.43	0.00	0.00	1.40
1867	5817	3.693578	TGCTGATGTTCCATGCGAAATTA	59.306	39.130	0.00	0.00	30.39	1.40
1902	5852	3.576078	TTGGTCTGGTGTCAACATCTT	57.424	42.857	0.00	0.00	0.00	2.40
1913	5863	0.396974	TTGCCTTGCTTTGGTCTGGT	60.397	50.000	0.00	0.00	0.00	4.00
1932	5882	5.817816	CCTGAGACGAAGCTAATGGTTTTAT	59.182	40.000	0.00	0.00	33.64	1.40
1944	5894	1.078848	ATGGTGCCTGAGACGAAGC	60.079	57.895	0.00	0.00	0.00	3.86
1978	5928	3.460103	CATTGGTGCAAGCTGAACTTTT	58.540	40.909	0.00	0.00	36.04	2.27
2002	5952	0.746923	AAGAAATAGAACGGGCGGCC	60.747	55.000	20.04	20.04	0.00	6.13
2015	5965	7.329717	GTCTCGTCATCAGAAGTGTAAAGAAAT	59.670	37.037	0.00	0.00	0.00	2.17
2048	6003	1.262151	GTTTTACTGAACAGCCGCGAA	59.738	47.619	8.23	0.00	0.00	4.70
2061	6016	8.020861	TGCAAATCGTACGAATTAGTTTTACT	57.979	30.769	23.56	0.00	0.00	2.24
2062	6017	8.816204	ATGCAAATCGTACGAATTAGTTTTAC	57.184	30.769	23.56	11.85	0.00	2.01
2064	6019	6.964934	GGATGCAAATCGTACGAATTAGTTTT	59.035	34.615	23.56	13.82	0.00	2.43
2073	6028	2.093921	TCTTGGGATGCAAATCGTACGA	60.094	45.455	21.93	21.93	0.00	3.43
2074	6029	2.276201	TCTTGGGATGCAAATCGTACG	58.724	47.619	9.53	9.53	0.00	3.67
2117	6085	5.516090	TGTGTATTTTCTTTCGCCACTTTC	58.484	37.500	0.00	0.00	0.00	2.62
2146	6114	7.966246	TTCTTGTGCTGAAATGCATATTTTT	57.034	28.000	0.00	0.00	45.23	1.94

Based at the University of Bristol with support from BBSRC.

AutoCloner maintained by Alex Coulton.