AutoCloner

Multiple sequence alignment - TraesCS6B01G099400

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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	TraesCS6B01G099400	chr6B	100.000	2264	0	0	1	2264	77328193	77325930	0.000000e+00	4181.0
1	TraesCS6B01G099400	chr7B	94.489	1887	78	11	1	1864	535437174	535435291	0.000000e+00	2885.0
2	TraesCS6B01G099400	chr7B	93.541	1827	86	14	1	1799	666615818	666617640	0.000000e+00	2691.0
3	TraesCS6B01G099400	chr7B	93.544	1611	75	5	1	1584	664951493	664949885	0.000000e+00	2372.0
4	TraesCS6B01G099400	chr7B	80.033	606	86	22	1675	2264	692398609	692399195	1.250000e-112	416.0
5	TraesCS6B01G099400	chr5B	94.336	1889	78	12	1	1864	123786950	123788834	0.000000e+00	2868.0
6	TraesCS6B01G099400	chr5B	93.797	1870	82	6	1	1847	514050647	514052505	0.000000e+00	2780.0
7	TraesCS6B01G099400	chr5B	90.421	2140	161	24	1	2121	705251017	705248903	0.000000e+00	2776.0
8	TraesCS6B01G099400	chr5B	93.017	1790	92	16	1	1762	18184088	18185872	0.000000e+00	2582.0
9	TraesCS6B01G099400	chr5B	88.976	254	27	1	2011	2264	123789070	123789322	1.690000e-81	313.0
10	TraesCS6B01G099400	chr5B	81.944	144	7	2	1721	1864	18185796	18185920	1.110000e-18	104.0
11	TraesCS6B01G099400	chr5B	88.060	67	4	3	1749	1814	514052335	514052398	2.410000e-10	76.8
12	TraesCS6B01G099400	chr3D	89.485	2311	170	31	1	2264	581472605	581474889	0.000000e+00	2854.0
13	TraesCS6B01G099400	chr4A	94.725	1782	69	9	1	1780	692377076	692375318	0.000000e+00	2747.0
14	TraesCS6B01G099400	chr4A	83.538	407	51	12	1721	2116	692375412	692375011	1.280000e-97	366.0
15	TraesCS6B01G099400	chr3B	93.516	1789	86	13	1	1762	734227389	734225604	0.000000e+00	2634.0
16	TraesCS6B01G099400	chr4B	88.075	1870	161	32	433	2264	633304982	633306827	0.000000e+00	2161.0
17	TraesCS6B01G099400	chr4B	95.675	1133	44	2	683	1813	522404483	522405612	0.000000e+00	1816.0
18	TraesCS6B01G099400	chr4B	98.077	52	1	0	1813	1864	522405632	522405683	8.610000e-15	91.6
19	TraesCS6B01G099400	chr2D	89.130	1426	112	27	720	2121	126689046	126687640	0.000000e+00	1735.0
20	TraesCS6B01G099400	chr2D	94.215	726	42	0	1	726	126713124	126712399	0.000000e+00	1109.0
21	TraesCS6B01G099400	chr2D	91.489	94	6	1	1721	1814	89189133	89189224	6.560000e-26	128.0
22	TraesCS6B01G099400	chr2D	90.722	97	7	1	1721	1817	104927854	104927760	6.560000e-26	128.0
23	TraesCS6B01G099400	chr2B	93.388	726	48	0	1	726	799675275	799676000	0.000000e+00	1075.0

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	TraesCS6B01G099400	chr6B	77325930	77328193	2263	True	4181.0	4181	100.0000	1	2264	1	chr6B.!!$R1	2263
1	TraesCS6B01G099400	chr7B	535435291	535437174	1883	True	2885.0	2885	94.4890	1	1864	1	chr7B.!!$R1	1863
2	TraesCS6B01G099400	chr7B	666615818	666617640	1822	False	2691.0	2691	93.5410	1	1799	1	chr7B.!!$F1	1798
3	TraesCS6B01G099400	chr7B	664949885	664951493	1608	True	2372.0	2372	93.5440	1	1584	1	chr7B.!!$R2	1583
4	TraesCS6B01G099400	chr7B	692398609	692399195	586	False	416.0	416	80.0330	1675	2264	1	chr7B.!!$F2	589
5	TraesCS6B01G099400	chr5B	705248903	705251017	2114	True	2776.0	2776	90.4210	1	2121	1	chr5B.!!$R1	2120
6	TraesCS6B01G099400	chr5B	123786950	123789322	2372	False	1590.5	2868	91.6560	1	2264	2	chr5B.!!$F2	2263
7	TraesCS6B01G099400	chr5B	514050647	514052505	1858	False	1428.4	2780	90.9285	1	1847	2	chr5B.!!$F3	1846
8	TraesCS6B01G099400	chr5B	18184088	18185920	1832	False	1343.0	2582	87.4805	1	1864	2	chr5B.!!$F1	1863
9	TraesCS6B01G099400	chr3D	581472605	581474889	2284	False	2854.0	2854	89.4850	1	2264	1	chr3D.!!$F1	2263
10	TraesCS6B01G099400	chr4A	692375011	692377076	2065	True	1556.5	2747	89.1315	1	2116	2	chr4A.!!$R1	2115
11	TraesCS6B01G099400	chr3B	734225604	734227389	1785	True	2634.0	2634	93.5160	1	1762	1	chr3B.!!$R1	1761
12	TraesCS6B01G099400	chr4B	633304982	633306827	1845	False	2161.0	2161	88.0750	433	2264	1	chr4B.!!$F1	1831
13	TraesCS6B01G099400	chr4B	522404483	522405683	1200	False	953.8	1816	96.8760	683	1864	2	chr4B.!!$F2	1181
14	TraesCS6B01G099400	chr2D	126687640	126689046	1406	True	1735.0	1735	89.1300	720	2121	1	chr2D.!!$R2	1401
15	TraesCS6B01G099400	chr2D	126712399	126713124	725	True	1109.0	1109	94.2150	1	726	1	chr2D.!!$R3	725
16	TraesCS6B01G099400	chr2B	799675275	799676000	725	False	1075.0	1075	93.3880	1	726	1	chr2B.!!$F1	725

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
376	378	0.849094	TAGGTTGACATGGGCCCCTT	60.849	55.0	22.27	3.26	0.0	3.95	F

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability	Orientation
2189	2526	0.040058	TAGCTCGGGGTTGTGAGGTA	59.96	55.0	0.0	0.0	42.47	3.08	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
164	166	1.407299	CCAAATCGATGAGCCTGGTGA	60.407	52.381	0.00	0.00	0.00	4.02
190	192	9.147732	AGACAACAAGAGATGGTATGTCATATA	57.852	33.333	0.00	0.00	40.63	0.86
196	198	8.370940	CAAGAGATGGTATGTCATATAGTGGTT	58.629	37.037	0.00	0.00	0.00	3.67
266	268	5.452917	GGCCTAGTAAGTATCATTGGTCGTT	60.453	44.000	0.00	0.00	0.00	3.85
344	346	1.737029	CGTGAGGATGCATGAGTTCGT	60.737	52.381	2.46	0.00	0.00	3.85
376	378	0.849094	TAGGTTGACATGGGCCCCTT	60.849	55.000	22.27	3.26	0.00	3.95
392	394	1.619704	CCCTTGATTCCAACCCTTCCC	60.620	57.143	0.00	0.00	0.00	3.97
422	424	6.070596	CCATCATAGTGGCCTGACTATAATGA	60.071	42.308	20.73	14.94	36.96	2.57
478	480	2.103941	GAGCCCAAGGGTAGAATCAGAG	59.896	54.545	7.05	0.00	37.65	3.35
512	514	2.891580	GAGGCGATATGGACAACCTAGA	59.108	50.000	0.00	0.00	37.04	2.43
572	574	1.043673	ATGGAGCCTCCGGACACTAC	61.044	60.000	6.21	1.40	40.17	2.73
603	605	3.252215	GTCAATGTGACAATTCGGGACAA	59.748	43.478	3.52	0.00	46.22	3.18
612	614	3.255642	ACAATTCGGGACAAAATGTGAGG	59.744	43.478	0.00	0.00	0.00	3.86
661	663	2.035626	AGGGCAATCCAACCACGG	59.964	61.111	0.00	0.00	38.24	4.94
852	902	5.697067	AGAAGAGTACGGAGGACTGATAAT	58.303	41.667	0.00	0.00	0.00	1.28
857	907	2.478292	ACGGAGGACTGATAATGGGTT	58.522	47.619	0.00	0.00	0.00	4.11
860	910	2.509964	GGAGGACTGATAATGGGTTGGT	59.490	50.000	0.00	0.00	0.00	3.67
874	924	3.134804	TGGGTTGGTGTTTGGTTATTTGG	59.865	43.478	0.00	0.00	0.00	3.28
875	925	3.495276	GGGTTGGTGTTTGGTTATTTGGG	60.495	47.826	0.00	0.00	0.00	4.12
1019	1074	0.552848	ATGGCTTCATCCGGTTCCAT	59.447	50.000	0.00	0.00	0.00	3.41
1028	1083	2.579201	CGGTTCCATGACGAGGCT	59.421	61.111	0.00	0.00	0.00	4.58
1124	1179	3.892588	GTGAAAACCCCTTCATGTTGGTA	59.107	43.478	0.00	0.00	37.63	3.25
1130	1185	2.026641	CCCTTCATGTTGGTATGCAGG	58.973	52.381	0.00	0.00	40.01	4.85
1170	1225	0.679505	CCACTGACCGGAAGAAGTCA	59.320	55.000	9.46	0.00	40.61	3.41
1211	1266	7.175104	AGATATTTTGTGTGTCCCAACTATGT	58.825	34.615	0.00	0.00	0.00	2.29
1454	1510	5.745312	TTGAAGAATCCTTACAGAGAGCA	57.255	39.130	0.00	0.00	31.62	4.26
1714	1771	5.754782	TGTCATGGACCTATTGTGCTATTT	58.245	37.500	0.00	0.00	36.06	1.40
1715	1772	6.186957	TGTCATGGACCTATTGTGCTATTTT	58.813	36.000	0.00	0.00	36.06	1.82
1716	1773	7.342581	TGTCATGGACCTATTGTGCTATTTTA	58.657	34.615	0.00	0.00	36.06	1.52
1717	1774	7.998383	TGTCATGGACCTATTGTGCTATTTTAT	59.002	33.333	0.00	0.00	36.06	1.40
1718	1775	8.292448	GTCATGGACCTATTGTGCTATTTTATG	58.708	37.037	0.00	0.00	36.06	1.90
1719	1776	7.448161	TCATGGACCTATTGTGCTATTTTATGG	59.552	37.037	0.00	0.00	36.06	2.74
1720	1777	6.068010	TGGACCTATTGTGCTATTTTATGGG	58.932	40.000	0.00	0.00	36.06	4.00
1721	1778	6.126332	TGGACCTATTGTGCTATTTTATGGGA	60.126	38.462	0.00	0.00	36.06	4.37
1722	1779	6.775629	GGACCTATTGTGCTATTTTATGGGAA	59.224	38.462	0.00	0.00	31.57	3.97
1723	1780	7.255486	GGACCTATTGTGCTATTTTATGGGAAC	60.255	40.741	0.00	0.00	31.57	3.62
1724	1781	7.354312	ACCTATTGTGCTATTTTATGGGAACT	58.646	34.615	0.00	0.00	0.00	3.01
1725	1782	8.499406	ACCTATTGTGCTATTTTATGGGAACTA	58.501	33.333	0.00	0.00	0.00	2.24
1726	1783	9.520515	CCTATTGTGCTATTTTATGGGAACTAT	57.479	33.333	0.00	0.00	0.00	2.12
1728	1785	6.633500	TGTGCTATTTTATGGGAACTATGC	57.367	37.500	0.00	0.00	0.00	3.14
1729	1786	6.125719	TGTGCTATTTTATGGGAACTATGCA	58.874	36.000	0.00	0.00	0.00	3.96
1730	1787	6.605194	TGTGCTATTTTATGGGAACTATGCAA	59.395	34.615	0.00	0.00	0.00	4.08
1731	1788	7.287466	TGTGCTATTTTATGGGAACTATGCAAT	59.713	33.333	0.00	0.00	0.00	3.56
1732	1789	7.596248	GTGCTATTTTATGGGAACTATGCAATG	59.404	37.037	0.00	0.00	0.00	2.82
1733	1790	7.505248	TGCTATTTTATGGGAACTATGCAATGA	59.495	33.333	0.00	0.00	0.00	2.57
1734	1791	8.359642	GCTATTTTATGGGAACTATGCAATGAA	58.640	33.333	0.00	0.00	0.00	2.57
1735	1792	9.683069	CTATTTTATGGGAACTATGCAATGAAC	57.317	33.333	0.00	0.00	0.00	3.18
1736	1793	6.463995	TTTATGGGAACTATGCAATGAACC	57.536	37.500	0.00	0.00	0.00	3.62
1737	1794	3.737559	TGGGAACTATGCAATGAACCT	57.262	42.857	0.00	0.00	0.00	3.50
1738	1795	4.853468	TGGGAACTATGCAATGAACCTA	57.147	40.909	0.00	0.00	0.00	3.08
1739	1796	5.186256	TGGGAACTATGCAATGAACCTAA	57.814	39.130	0.00	0.00	0.00	2.69
1740	1797	5.575157	TGGGAACTATGCAATGAACCTAAA	58.425	37.500	0.00	0.00	0.00	1.85
1741	1798	6.194235	TGGGAACTATGCAATGAACCTAAAT	58.806	36.000	0.00	0.00	0.00	1.40
1742	1799	6.667414	TGGGAACTATGCAATGAACCTAAATT	59.333	34.615	0.00	0.00	0.00	1.82
1743	1800	7.836685	TGGGAACTATGCAATGAACCTAAATTA	59.163	33.333	0.00	0.00	0.00	1.40
1744	1801	8.860088	GGGAACTATGCAATGAACCTAAATTAT	58.140	33.333	0.00	0.00	0.00	1.28
1745	1802	9.683069	GGAACTATGCAATGAACCTAAATTATG	57.317	33.333	0.00	0.00	0.00	1.90
1746	1803	9.185192	GAACTATGCAATGAACCTAAATTATGC	57.815	33.333	0.00	0.00	0.00	3.14
1747	1804	8.469309	ACTATGCAATGAACCTAAATTATGCT	57.531	30.769	0.00	0.00	33.87	3.79
1748	1805	9.573166	ACTATGCAATGAACCTAAATTATGCTA	57.427	29.630	0.00	0.00	33.87	3.49
1762	1856	9.903682	CTAAATTATGCTATTTGATGGGAACTG	57.096	33.333	0.00	0.00	0.00	3.16
1780	1874	6.072673	GGGAACTGTGTAATGAACCTAAGTTG	60.073	42.308	0.00	0.00	35.94	3.16
1847	2038	3.220674	TGTCCATGTGGTGAATTGTGA	57.779	42.857	0.00	0.00	36.34	3.58
1927	2123	3.936203	AGGAACTGCGGCGTCCAA	61.936	61.111	15.47	0.00	37.18	3.53
1956	2153	2.203070	GCTACCCAGACGCCATGG	60.203	66.667	7.63	7.63	37.58	3.66
1958	2155	2.044806	GCTACCCAGACGCCATGGAT	62.045	60.000	18.40	1.25	40.51	3.41
1960	2157	1.744320	TACCCAGACGCCATGGATCG	61.744	60.000	18.40	13.43	40.51	3.69
1961	2158	2.796193	CCCAGACGCCATGGATCGA	61.796	63.158	18.40	0.00	40.51	3.59
1969	2166	1.443407	CCATGGATCGAGGCGTCTT	59.557	57.895	5.56	0.00	0.00	3.01
1972	2169	1.330655	ATGGATCGAGGCGTCTTGGT	61.331	55.000	4.01	0.00	0.00	3.67
1992	2189	3.006247	GTCTTTGCTCCAGACCAGAATC	58.994	50.000	0.45	0.00	35.53	2.52
2009	2328	5.174037	AGAATCGGTTCTGTAAATCCCAA	57.826	39.130	10.88	0.00	42.97	4.12
2023	2342	1.966451	CCCAAACGCCAGGAGTCAC	60.966	63.158	0.00	0.00	0.00	3.67
2111	2444	0.532862	CGGTTGCACCTCTTCACACT	60.533	55.000	0.00	0.00	35.66	3.55
2116	2449	4.319177	GTTGCACCTCTTCACACTTAGAT	58.681	43.478	0.00	0.00	0.00	1.98
2122	2455	4.202461	ACCTCTTCACACTTAGATGCCAAA	60.202	41.667	0.00	0.00	0.00	3.28
2165	2498	6.375455	CCTTTGCAGATTATAAGTCCTTGTGT	59.625	38.462	0.00	0.00	0.00	3.72
2189	2526	4.384647	GCCCACTCCATAACTCATTCTTCT	60.385	45.833	0.00	0.00	0.00	2.85
2208	2545	0.040058	TACCTCACAACCCCGAGCTA	59.960	55.000	0.00	0.00	0.00	3.32
2226	2566	0.178903	TACTGCCCCCACACTCTCTT	60.179	55.000	0.00	0.00	0.00	2.85
2227	2567	1.298014	CTGCCCCCACACTCTCTTC	59.702	63.158	0.00	0.00	0.00	2.87
2247	2587	2.523168	CCCAACCAAACGCCCCTT	60.523	61.111	0.00	0.00	0.00	3.95
2256	2596	1.135689	CAAACGCCCCTTCAAATCTCG	60.136	52.381	0.00	0.00	0.00	4.04

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
63	65	6.990341	TGTAACATCATCCACTCTTCAATG	57.010	37.500	0.00	0.00	0.00	2.82
64	66	6.942005	TGTTGTAACATCATCCACTCTTCAAT	59.058	34.615	0.00	0.00	33.17	2.57
164	166	5.745312	TGACATACCATCTCTTGTTGTCT	57.255	39.130	0.00	0.00	34.55	3.41
190	192	1.682854	CACCTCAAATGCACAACCACT	59.317	47.619	0.00	0.00	0.00	4.00
266	268	3.667166	CGTCGTCGTCAAAAGATGAGAGA	60.667	47.826	0.00	0.00	39.19	3.10
344	346	5.801531	TGTCAACCTAGTAGCTTCAAGAA	57.198	39.130	0.00	0.00	0.00	2.52
376	378	0.842905	TCCGGGAAGGGTTGGAATCA	60.843	55.000	0.00	0.00	41.52	2.57
392	394	1.071471	GGCCACTATGATGGGTCCG	59.929	63.158	0.00	0.00	40.43	4.79
456	458	0.830648	TGATTCTACCCTTGGGCTCG	59.169	55.000	5.46	0.00	0.00	5.03
478	480	0.038526	TCGCCTCTCAACCGTTTCTC	60.039	55.000	0.00	0.00	0.00	2.87
512	514	2.241941	TGGTTCATGCCAGTGTATCCAT	59.758	45.455	0.00	0.00	33.97	3.41
572	574	2.296792	TGTCACATTGACCACAGTTGG	58.703	47.619	3.91	0.00	46.40	3.77
603	605	5.426689	TCTTAGAGCATGTCCTCACATTT	57.573	39.130	0.00	0.00	40.66	2.32
612	614	6.970484	TGTTTTCCTTTTCTTAGAGCATGTC	58.030	36.000	0.00	0.00	0.00	3.06
852	902	3.134804	CCAAATAACCAAACACCAACCCA	59.865	43.478	0.00	0.00	0.00	4.51
857	907	5.246429	GGATTACCCAAATAACCAAACACCA	59.754	40.000	0.00	0.00	34.14	4.17
874	924	5.675684	ATTGGTCAACCATTTGGATTACC	57.324	39.130	2.03	3.51	46.97	2.85
875	925	7.659390	TCAAAATTGGTCAACCATTTGGATTAC	59.341	33.333	20.26	0.00	46.97	1.89
1039	1094	0.400213	TTCGGCATGTCCTCTTGGTT	59.600	50.000	0.00	0.00	34.23	3.67
1124	1179	0.892358	CACCTTGCACTCACCTGCAT	60.892	55.000	0.00	0.00	46.47	3.96
1130	1185	1.202698	AGACCTTCACCTTGCACTCAC	60.203	52.381	0.00	0.00	0.00	3.51
1170	1225	5.896073	AATATCTTCTTCCTTCCGTCCAT	57.104	39.130	0.00	0.00	0.00	3.41
1211	1266	1.587876	GGACGTGCGCGATCATGTA	60.588	57.895	28.73	0.00	42.00	2.29
1476	1532	2.364317	CCGCTCCTTCCTCTCCCA	60.364	66.667	0.00	0.00	0.00	4.37
1714	1771	5.765510	AGGTTCATTGCATAGTTCCCATAA	58.234	37.500	0.00	0.00	0.00	1.90
1715	1772	5.387113	AGGTTCATTGCATAGTTCCCATA	57.613	39.130	0.00	0.00	0.00	2.74
1716	1773	4.255510	AGGTTCATTGCATAGTTCCCAT	57.744	40.909	0.00	0.00	0.00	4.00
1717	1774	3.737559	AGGTTCATTGCATAGTTCCCA	57.262	42.857	0.00	0.00	0.00	4.37
1718	1775	6.715347	ATTTAGGTTCATTGCATAGTTCCC	57.285	37.500	0.00	0.00	0.00	3.97
1719	1776	9.683069	CATAATTTAGGTTCATTGCATAGTTCC	57.317	33.333	0.00	0.00	0.00	3.62
1720	1777	9.185192	GCATAATTTAGGTTCATTGCATAGTTC	57.815	33.333	0.00	0.00	0.00	3.01
1721	1778	8.917088	AGCATAATTTAGGTTCATTGCATAGTT	58.083	29.630	0.00	0.00	0.00	2.24
1722	1779	8.469309	AGCATAATTTAGGTTCATTGCATAGT	57.531	30.769	0.00	0.00	0.00	2.12
1726	1783	9.531942	CAAATAGCATAATTTAGGTTCATTGCA	57.468	29.630	0.00	0.00	0.00	4.08
1727	1784	9.748708	TCAAATAGCATAATTTAGGTTCATTGC	57.251	29.630	0.00	0.00	0.00	3.56
1731	1788	8.859090	CCCATCAAATAGCATAATTTAGGTTCA	58.141	33.333	0.00	0.00	0.00	3.18
1732	1789	9.077885	TCCCATCAAATAGCATAATTTAGGTTC	57.922	33.333	0.00	0.00	0.00	3.62
1733	1790	9.432982	TTCCCATCAAATAGCATAATTTAGGTT	57.567	29.630	0.00	0.00	0.00	3.50
1734	1791	8.860088	GTTCCCATCAAATAGCATAATTTAGGT	58.140	33.333	0.00	0.00	0.00	3.08
1735	1792	9.082313	AGTTCCCATCAAATAGCATAATTTAGG	57.918	33.333	0.00	0.00	0.00	2.69
1736	1793	9.903682	CAGTTCCCATCAAATAGCATAATTTAG	57.096	33.333	0.00	0.00	0.00	1.85
1737	1794	9.420118	ACAGTTCCCATCAAATAGCATAATTTA	57.580	29.630	0.00	0.00	0.00	1.40
1738	1795	8.199449	CACAGTTCCCATCAAATAGCATAATTT	58.801	33.333	0.00	0.00	0.00	1.82
1739	1796	7.342799	ACACAGTTCCCATCAAATAGCATAATT	59.657	33.333	0.00	0.00	0.00	1.40
1740	1797	6.835488	ACACAGTTCCCATCAAATAGCATAAT	59.165	34.615	0.00	0.00	0.00	1.28
1741	1798	6.186957	ACACAGTTCCCATCAAATAGCATAA	58.813	36.000	0.00	0.00	0.00	1.90
1742	1799	5.754782	ACACAGTTCCCATCAAATAGCATA	58.245	37.500	0.00	0.00	0.00	3.14
1743	1800	4.603131	ACACAGTTCCCATCAAATAGCAT	58.397	39.130	0.00	0.00	0.00	3.79
1744	1801	4.032960	ACACAGTTCCCATCAAATAGCA	57.967	40.909	0.00	0.00	0.00	3.49
1745	1802	6.318648	TCATTACACAGTTCCCATCAAATAGC	59.681	38.462	0.00	0.00	0.00	2.97
1746	1803	7.864108	TCATTACACAGTTCCCATCAAATAG	57.136	36.000	0.00	0.00	0.00	1.73
1747	1804	7.122055	GGTTCATTACACAGTTCCCATCAAATA	59.878	37.037	0.00	0.00	0.00	1.40
1748	1805	6.071391	GGTTCATTACACAGTTCCCATCAAAT	60.071	38.462	0.00	0.00	0.00	2.32
1749	1806	5.242838	GGTTCATTACACAGTTCCCATCAAA	59.757	40.000	0.00	0.00	0.00	2.69
1750	1807	4.764823	GGTTCATTACACAGTTCCCATCAA	59.235	41.667	0.00	0.00	0.00	2.57
1762	1856	5.941948	AGCACAACTTAGGTTCATTACAC	57.058	39.130	0.00	0.00	32.73	2.90
1780	1874	7.801716	TTACATAGTTCCCATCAAATAGCAC	57.198	36.000	0.00	0.00	0.00	4.40
1847	2038	7.671398	ACCTCTCTGGATATGACAATTTTGTTT	59.329	33.333	0.00	0.00	39.49	2.83
1927	2123	1.620819	CTGGGTAGCAGAACAGAGTGT	59.379	52.381	0.00	0.00	32.86	3.55
1956	2153	0.173708	AAGACCAAGACGCCTCGATC	59.826	55.000	0.00	0.00	0.00	3.69
1958	2155	0.319555	CAAAGACCAAGACGCCTCGA	60.320	55.000	0.00	0.00	0.00	4.04
1960	2157	0.603975	AGCAAAGACCAAGACGCCTC	60.604	55.000	0.00	0.00	0.00	4.70
1961	2158	0.603975	GAGCAAAGACCAAGACGCCT	60.604	55.000	0.00	0.00	0.00	5.52
1972	2169	2.354103	CGATTCTGGTCTGGAGCAAAGA	60.354	50.000	4.09	0.00	38.46	2.52
1992	2189	2.413634	GCGTTTGGGATTTACAGAACCG	60.414	50.000	0.00	0.00	0.00	4.44
2009	2328	3.231736	ACCGTGACTCCTGGCGTT	61.232	61.111	0.00	0.00	0.00	4.84
2023	2342	1.966451	GGCAAAGGTCCAGACACCG	60.966	63.158	0.00	0.00	41.90	4.94
2076	2409	3.190874	CAACCGCAGATTTACCTCTCTC	58.809	50.000	0.00	0.00	0.00	3.20
2099	2432	2.906389	TGGCATCTAAGTGTGAAGAGGT	59.094	45.455	0.00	0.00	0.00	3.85
2105	2438	3.325870	CGACTTTGGCATCTAAGTGTGA	58.674	45.455	7.73	0.00	38.64	3.58
2111	2444	2.107950	CCACCGACTTTGGCATCTAA	57.892	50.000	0.00	0.00	0.00	2.10
2122	2455	1.890510	GACCAAAACGCCACCGACT	60.891	57.895	0.00	0.00	38.29	4.18
2165	2498	2.846206	AGAATGAGTTATGGAGTGGGCA	59.154	45.455	0.00	0.00	0.00	5.36
2189	2526	0.040058	TAGCTCGGGGTTGTGAGGTA	59.960	55.000	0.00	0.00	42.47	3.08
2208	2545	1.462238	AAGAGAGTGTGGGGGCAGT	60.462	57.895	0.00	0.00	0.00	4.40
2241	2581	1.967319	TATGCGAGATTTGAAGGGGC	58.033	50.000	0.00	0.00	0.00	5.80

Based at the University of Bristol with support from BBSRC.

AutoCloner maintained by Alex Coulton.