AutoCloner

Multiple sequence alignment - TraesCS1A01G396300

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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	TraesCS1A01G396300	chr1A	100.000	2237	0	0	1	2237	562119556	562117320	0.000000e+00	4132.0
1	TraesCS1A01G396300	chr1A	89.646	367	26	9	1864	2226	562065028	562064670	7.280000e-125	457.0
2	TraesCS1A01G396300	chr1A	84.277	318	30	8	1875	2187	562143463	562143161	2.170000e-75	292.0
3	TraesCS1A01G396300	chr1A	98.507	134	0	2	1505	1637	562065158	562065026	3.710000e-58	235.0
4	TraesCS1A01G396300	chr1A	79.915	234	30	8	1424	1641	562143893	562143661	2.970000e-34	156.0
5	TraesCS1A01G396300	chr1A	79.570	186	20	8	1457	1631	562737342	562737520	1.400000e-22	117.0
6	TraesCS1A01G396300	chr1A	78.713	202	19	10	1454	1631	562735581	562735782	1.820000e-21	113.0
7	TraesCS1A01G396300	chr1A	90.123	81	6	2	2146	2225	562723423	562723502	1.090000e-18	104.0
8	TraesCS1A01G396300	chr1A	88.608	79	6	3	1750	1827	562130766	562130690	2.370000e-15	93.5
9	TraesCS1A01G396300	chr1A	93.333	45	2	1	1346	1390	562735497	562735540	5.160000e-07	65.8
10	TraesCS1A01G396300	chr1B	97.189	1352	18	3	1	1339	381501770	381500426	0.000000e+00	2268.0
11	TraesCS1A01G396300	chr1B	97.041	1352	24	3	1	1339	198408511	198407163	0.000000e+00	2261.0
12	TraesCS1A01G396300	chr1B	91.036	357	27	5	1864	2217	648676944	648676590	5.590000e-131	477.0
13	TraesCS1A01G396300	chr1B	82.680	485	57	18	1750	2225	648786887	648786421	2.670000e-109	405.0
14	TraesCS1A01G396300	chr1B	88.776	294	15	7	1345	1637	648677218	648676942	5.910000e-91	344.0
15	TraesCS1A01G396300	chr1B	84.545	330	33	7	1875	2201	648795343	648795029	6.000000e-81	311.0
16	TraesCS1A01G396300	chr1B	81.522	184	23	9	1346	1522	648992864	648992685	8.330000e-30	141.0
17	TraesCS1A01G396300	chr1B	79.602	201	23	10	1457	1639	649319453	649319653	6.480000e-26	128.0
18	TraesCS1A01G396300	chr1B	78.947	209	22	15	1451	1640	648795739	648795534	3.020000e-24	122.0
19	TraesCS1A01G396300	chr1D	93.639	1352	69	5	1	1339	361103115	361101768	0.000000e+00	2004.0
20	TraesCS1A01G396300	chr1D	82.625	541	65	23	1694	2221	469543293	469543817	3.390000e-123	451.0
21	TraesCS1A01G396300	chr1D	88.978	372	27	8	1864	2226	469068991	469068625	4.380000e-122	448.0
22	TraesCS1A01G396300	chr1D	91.973	299	16	3	1342	1637	469069282	469068989	1.600000e-111	412.0
23	TraesCS1A01G396300	chr1D	79.296	483	54	22	1752	2226	469556699	469557143	1.680000e-76	296.0
24	TraesCS1A01G396300	chr1D	80.093	216	24	7	1435	1632	469554815	469555029	2.320000e-30	143.0
25	TraesCS1A01G396300	chr1D	79.343	213	25	10	1426	1626	469556442	469556647	5.010000e-27	132.0
26	TraesCS1A01G396300	chr4B	92.857	1358	74	5	1	1343	105360425	105359076	0.000000e+00	1949.0
27	TraesCS1A01G396300	chr4B	97.773	494	7	2	847	1340	37425989	37425500	0.000000e+00	848.0
28	TraesCS1A01G396300	chr3A	91.077	1356	101	7	1	1338	472766281	472764928	0.000000e+00	1816.0
29	TraesCS1A01G396300	chr3B	89.793	1352	120	10	3	1339	112904373	112905721	0.000000e+00	1716.0
30	TraesCS1A01G396300	chr7A	89.225	1355	128	11	3	1343	538983129	538984479	0.000000e+00	1677.0
31	TraesCS1A01G396300	chr6B	95.257	1033	31	3	317	1336	567543090	567544117	0.000000e+00	1620.0
32	TraesCS1A01G396300	chr6D	93.757	849	40	1	1	836	382357059	382357907	0.000000e+00	1262.0
33	TraesCS1A01G396300	chr7D	91.721	773	63	1	1	773	264476450	264477221	0.000000e+00	1072.0
34	TraesCS1A01G396300	chr7D	90.371	727	53	10	629	1342	592202876	592202154	0.000000e+00	939.0

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	TraesCS1A01G396300	chr1A	562117320	562119556	2236	True	4132.0	4132	100.0000	1	2237	1	chr1A.!!$R1	2236
1	TraesCS1A01G396300	chr1A	562143161	562143893	732	True	224.0	292	82.0960	1424	2187	2	chr1A.!!$R4	763
2	TraesCS1A01G396300	chr1B	381500426	381501770	1344	True	2268.0	2268	97.1890	1	1339	1	chr1B.!!$R2	1338
3	TraesCS1A01G396300	chr1B	198407163	198408511	1348	True	2261.0	2261	97.0410	1	1339	1	chr1B.!!$R1	1338
4	TraesCS1A01G396300	chr1B	648676590	648677218	628	True	410.5	477	89.9060	1345	2217	2	chr1B.!!$R5	872
5	TraesCS1A01G396300	chr1B	648795029	648795739	710	True	216.5	311	81.7460	1451	2201	2	chr1B.!!$R6	750
6	TraesCS1A01G396300	chr1D	361101768	361103115	1347	True	2004.0	2004	93.6390	1	1339	1	chr1D.!!$R1	1338
7	TraesCS1A01G396300	chr1D	469543293	469543817	524	False	451.0	451	82.6250	1694	2221	1	chr1D.!!$F1	527
8	TraesCS1A01G396300	chr1D	469068625	469069282	657	True	430.0	448	90.4755	1342	2226	2	chr1D.!!$R2	884
9	TraesCS1A01G396300	chr4B	105359076	105360425	1349	True	1949.0	1949	92.8570	1	1343	1	chr4B.!!$R2	1342
10	TraesCS1A01G396300	chr3A	472764928	472766281	1353	True	1816.0	1816	91.0770	1	1338	1	chr3A.!!$R1	1337
11	TraesCS1A01G396300	chr3B	112904373	112905721	1348	False	1716.0	1716	89.7930	3	1339	1	chr3B.!!$F1	1336
12	TraesCS1A01G396300	chr7A	538983129	538984479	1350	False	1677.0	1677	89.2250	3	1343	1	chr7A.!!$F1	1340
13	TraesCS1A01G396300	chr6B	567543090	567544117	1027	False	1620.0	1620	95.2570	317	1336	1	chr6B.!!$F1	1019
14	TraesCS1A01G396300	chr6D	382357059	382357907	848	False	1262.0	1262	93.7570	1	836	1	chr6D.!!$F1	835
15	TraesCS1A01G396300	chr7D	264476450	264477221	771	False	1072.0	1072	91.7210	1	773	1	chr7D.!!$F1	772
16	TraesCS1A01G396300	chr7D	592202154	592202876	722	True	939.0	939	90.3710	629	1342	1	chr7D.!!$R1	713

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
175	178	0.443869	CAATTGACAGCCTTCGACGG	59.556	55.0	3.0	3.0	0.0	4.79	F

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability	Orientation
1839	1918	0.037877	ATGCTGGTGCTTCTTCTGCT	59.962	50.0	0.0	0.0	40.48	4.24	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
107	110	3.770040	CGGTCCTCACGGCCATCA	61.770	66.667	2.24	0.00	0.00	3.07
172	175	0.602638	ACGCAATTGACAGCCTTCGA	60.603	50.000	10.34	0.00	0.00	3.71
175	178	0.443869	CAATTGACAGCCTTCGACGG	59.556	55.000	3.00	3.00	0.00	4.79
922	945	2.608623	CCCACCTCCTTTTCCAATGTT	58.391	47.619	0.00	0.00	0.00	2.71
1358	1392	4.632538	AAAAAGAGTCCAGACAAAACGG	57.367	40.909	0.00	0.00	0.00	4.44
1401	1435	6.895756	TCTAGCACCTTCTCCTTTTGAGTATA	59.104	38.462	0.00	0.00	42.12	1.47
1402	1436	5.735766	AGCACCTTCTCCTTTTGAGTATAC	58.264	41.667	0.00	0.00	42.12	1.47
1447	1481	7.286316	GGTAGTATATATTAAGGGAGGCGCTAA	59.714	40.741	7.64	0.00	0.00	3.09
1557	1599	3.622612	GCTTGAGCCTTTTCTTTTTGCAA	59.377	39.130	0.00	0.00	34.31	4.08
1637	1703	5.397109	CCCGGTTTATAAGGAACACCTATGT	60.397	44.000	0.00	0.00	42.46	2.29
1642	1708	9.978044	GGTTTATAAGGAACACCTATGTACTAG	57.022	37.037	0.00	0.00	38.45	2.57
1649	1715	9.933240	AAGGAACACCTATGTACTAGTACTAAT	57.067	33.333	28.56	19.00	38.45	1.73
1650	1716	9.571816	AGGAACACCTATGTACTAGTACTAATC	57.428	37.037	28.56	16.31	38.45	1.75
1651	1717	9.347240	GGAACACCTATGTACTAGTACTAATCA	57.653	37.037	28.56	12.56	38.45	2.57
1654	1720	9.863650	ACACCTATGTACTAGTACTAATCATGT	57.136	33.333	28.56	21.76	37.26	3.21
1668	1734	6.952935	CTAATCATGTATTAGGAGCGTTCC	57.047	41.667	10.83	10.83	42.31	3.62
1674	1740	4.025360	TGTATTAGGAGCGTTCCCTTGTA	58.975	43.478	15.45	0.00	45.24	2.41
1675	1741	3.821421	ATTAGGAGCGTTCCCTTGTAG	57.179	47.619	15.45	0.00	45.24	2.74
1676	1742	2.226962	TAGGAGCGTTCCCTTGTAGT	57.773	50.000	15.45	0.00	45.24	2.73
1677	1743	2.226962	AGGAGCGTTCCCTTGTAGTA	57.773	50.000	15.45	0.00	45.24	1.82
1678	1744	2.532843	AGGAGCGTTCCCTTGTAGTAA	58.467	47.619	15.45	0.00	45.24	2.24
1679	1745	2.496470	AGGAGCGTTCCCTTGTAGTAAG	59.504	50.000	15.45	0.00	45.24	2.34
1681	1747	1.066358	AGCGTTCCCTTGTAGTAAGCC	60.066	52.381	0.00	0.00	0.00	4.35
1682	1748	1.066358	GCGTTCCCTTGTAGTAAGCCT	60.066	52.381	0.00	0.00	0.00	4.58
1683	1749	2.614734	GCGTTCCCTTGTAGTAAGCCTT	60.615	50.000	0.00	0.00	0.00	4.35
1684	1750	3.000727	CGTTCCCTTGTAGTAAGCCTTG	58.999	50.000	0.00	0.00	0.00	3.61
1699	1765	1.957695	CTTGCTCAGTGCTGTCGCA	60.958	57.895	12.20	12.20	45.60	5.10
1710	1776	2.778299	TGCTGTCGCAATTTCCTAAGT	58.222	42.857	0.00	0.00	44.62	2.24
1711	1777	2.483877	TGCTGTCGCAATTTCCTAAGTG	59.516	45.455	0.00	0.00	44.62	3.16
1713	1779	3.188460	GCTGTCGCAATTTCCTAAGTGAA	59.812	43.478	0.00	0.00	31.18	3.18
1714	1780	4.670221	GCTGTCGCAATTTCCTAAGTGAAG	60.670	45.833	0.00	0.00	31.18	3.02
1739	1805	2.676748	TCTTGCACAACCTCCCATTTT	58.323	42.857	0.00	0.00	0.00	1.82
1742	1808	4.837860	TCTTGCACAACCTCCCATTTTAAT	59.162	37.500	0.00	0.00	0.00	1.40
1744	1810	6.495181	TCTTGCACAACCTCCCATTTTAATTA	59.505	34.615	0.00	0.00	0.00	1.40
1780	1853	7.637229	CAGATCAATACAGTGTGATGGAAATC	58.363	38.462	5.88	4.52	34.61	2.17
1791	1864	5.521735	GTGTGATGGAAATCTGTAGCTGTAG	59.478	44.000	0.00	0.00	0.00	2.74
1799	1872	7.016170	TGGAAATCTGTAGCTGTAGCCAATATA	59.984	37.037	0.00	0.00	43.38	0.86
1800	1873	7.878127	GGAAATCTGTAGCTGTAGCCAATATAA	59.122	37.037	0.00	0.00	43.38	0.98
1807	1880	7.773224	TGTAGCTGTAGCCAATATAATGTTTGT	59.227	33.333	0.00	0.00	43.38	2.83
1827	1900	1.913778	TGTTCATGATGCAACCAGCT	58.086	45.000	0.00	0.00	45.94	4.24
1830	1909	3.379057	TGTTCATGATGCAACCAGCTATG	59.621	43.478	0.00	0.00	45.94	2.23
1831	1910	1.951602	TCATGATGCAACCAGCTATGC	59.048	47.619	10.48	10.48	45.94	3.14
1832	1911	1.000607	CATGATGCAACCAGCTATGCC	60.001	52.381	13.76	2.88	45.94	4.40
1834	1913	1.341285	TGATGCAACCAGCTATGCCTT	60.341	47.619	13.76	3.99	45.94	4.35
1835	1914	1.336125	GATGCAACCAGCTATGCCTTC	59.664	52.381	13.76	8.47	45.94	3.46
1836	1915	0.038021	TGCAACCAGCTATGCCTTCA	59.962	50.000	13.76	0.00	45.94	3.02
1837	1916	0.737219	GCAACCAGCTATGCCTTCAG	59.263	55.000	6.99	0.00	41.15	3.02
1838	1917	0.737219	CAACCAGCTATGCCTTCAGC	59.263	55.000	0.00	0.00	44.14	4.26
1848	1927	2.938354	GCCTTCAGCAGCAGAAGAA	58.062	52.632	25.12	8.83	44.00	2.52
1849	1928	0.803740	GCCTTCAGCAGCAGAAGAAG	59.196	55.000	25.12	16.39	44.00	2.85
1851	1930	1.520494	CTTCAGCAGCAGAAGAAGCA	58.480	50.000	20.22	0.00	44.00	3.91
1852	1931	1.197264	CTTCAGCAGCAGAAGAAGCAC	59.803	52.381	20.22	0.00	44.00	4.40
1855	1934	0.605860	AGCAGCAGAAGAAGCACCAG	60.606	55.000	0.00	0.00	0.00	4.00
1856	1935	1.874562	CAGCAGAAGAAGCACCAGC	59.125	57.895	0.00	0.00	42.56	4.85
1858	1937	0.037877	AGCAGAAGAAGCACCAGCAT	59.962	50.000	0.00	0.00	45.49	3.79
1862	1969	2.417933	CAGAAGAAGCACCAGCATACAC	59.582	50.000	0.00	0.00	45.49	2.90
1930	2048	4.157120	GGGGGCACGTATCGCACT	62.157	66.667	0.00	0.00	31.75	4.40
1955	2073	1.189403	GAACGGCGTCTACGAGATTG	58.811	55.000	15.17	0.00	43.02	2.67
2006	2125	2.450992	CCAACCAGGGGTGCAATTT	58.549	52.632	0.00	0.00	35.34	1.82
2032	2151	0.379669	GGCCACATCGCATTTCTGAG	59.620	55.000	0.00	0.00	0.00	3.35
2120	2240	5.413499	GTTTGCTTTGCATGATCTGGTAAT	58.587	37.500	0.00	0.00	38.76	1.89
2121	2241	4.642445	TGCTTTGCATGATCTGGTAATG	57.358	40.909	0.00	0.00	31.71	1.90
2122	2242	4.271661	TGCTTTGCATGATCTGGTAATGA	58.728	39.130	0.00	0.00	31.71	2.57
2160	2281	6.075205	GCGTGAACATGAGAATAAATCAATGC	60.075	38.462	0.00	0.00	0.00	3.56
2213	2334	7.506114	TGTCTACATCCACATTAGTTAATCCC	58.494	38.462	0.00	0.00	0.00	3.85
2226	2347	4.284178	AGTTAATCCCAGAAGCATGCAAT	58.716	39.130	21.98	8.26	0.00	3.56

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
107	110	1.480954	AGGCGTGAGGTGATAAATCGT	59.519	47.619	0.00	0.00	0.00	3.73
172	175	2.044352	GCCCAAAGGTATGCCCGT	60.044	61.111	0.00	0.00	38.74	5.28
175	178	0.324275	TTCCAGCCCAAAGGTATGCC	60.324	55.000	0.00	0.00	34.57	4.40
636	639	1.761198	CATCAGTCAGAGAGGCCATGA	59.239	52.381	5.01	0.00	0.00	3.07
922	945	1.074072	AAATGCGGGTGGTGTAGCA	59.926	52.632	0.00	0.00	44.13	3.49
1203	1226	3.551454	GCATGACAACACTCATGTGCTTT	60.551	43.478	10.14	0.00	46.44	3.51
1278	1310	8.759641	CATTGATTAAGAAGGAAGTCATAGACG	58.240	37.037	0.00	0.00	37.67	4.18
1356	1390	4.559153	AGATTGCAAAGTTCCATTTTCCG	58.441	39.130	1.71	0.00	0.00	4.30
1358	1392	6.089954	GTGCTAGATTGCAAAGTTCCATTTTC	59.910	38.462	1.71	0.00	45.12	2.29
1401	1435	8.653036	ACTACCACTCTCTTTTAGAATACTGT	57.347	34.615	0.00	0.00	32.46	3.55
1421	1455	5.597594	AGCGCCTCCCTTAATATATACTACC	59.402	44.000	2.29	0.00	0.00	3.18
1422	1456	6.712179	AGCGCCTCCCTTAATATATACTAC	57.288	41.667	2.29	0.00	0.00	2.73
1503	1537	0.798776	GGTGTTCAGCGTCCAGAATG	59.201	55.000	0.00	0.00	0.00	2.67
1557	1599	7.390027	AGTGAAAGCAAGATACTATGTTCAGT	58.610	34.615	0.00	0.00	0.00	3.41
1642	1708	7.541437	GGAACGCTCCTAATACATGATTAGTAC	59.459	40.741	16.77	0.00	43.92	2.73
1644	1710	6.456501	GGAACGCTCCTAATACATGATTAGT	58.543	40.000	16.77	0.00	43.92	2.24
1645	1711	5.869888	GGGAACGCTCCTAATACATGATTAG	59.130	44.000	4.57	8.57	44.69	1.73
1647	1713	4.348168	AGGGAACGCTCCTAATACATGATT	59.652	41.667	4.57	0.00	42.05	2.57
1648	1714	3.904339	AGGGAACGCTCCTAATACATGAT	59.096	43.478	4.57	0.00	42.05	2.45
1649	1715	3.305720	AGGGAACGCTCCTAATACATGA	58.694	45.455	4.57	0.00	42.05	3.07
1650	1716	3.753294	AGGGAACGCTCCTAATACATG	57.247	47.619	4.57	0.00	42.05	3.21
1651	1717	3.454812	ACAAGGGAACGCTCCTAATACAT	59.545	43.478	4.57	0.00	42.05	2.29
1652	1718	2.835764	ACAAGGGAACGCTCCTAATACA	59.164	45.455	4.57	0.00	42.05	2.29
1653	1719	3.538634	ACAAGGGAACGCTCCTAATAC	57.461	47.619	4.57	0.00	42.05	1.89
1654	1720	4.284178	ACTACAAGGGAACGCTCCTAATA	58.716	43.478	4.57	0.00	42.05	0.98
1655	1721	3.105283	ACTACAAGGGAACGCTCCTAAT	58.895	45.455	4.57	0.00	42.05	1.73
1656	1722	2.532843	ACTACAAGGGAACGCTCCTAA	58.467	47.619	4.57	0.00	42.05	2.69
1660	1726	2.269172	GCTTACTACAAGGGAACGCTC	58.731	52.381	0.00	0.00	0.00	5.03
1662	1728	1.066358	AGGCTTACTACAAGGGAACGC	60.066	52.381	0.00	0.00	0.00	4.84
1668	1734	3.265791	CTGAGCAAGGCTTACTACAAGG	58.734	50.000	0.00	0.00	39.88	3.61
1674	1740	3.239861	GCACTGAGCAAGGCTTACT	57.760	52.632	0.00	0.00	44.79	2.24
1719	1785	2.380064	AAATGGGAGGTTGTGCAAGA	57.620	45.000	0.00	0.00	0.00	3.02
1739	1805	2.217429	TCTGCAGCACGCGATAATTA	57.783	45.000	15.93	0.00	46.97	1.40
1742	1808	0.179113	TGATCTGCAGCACGCGATAA	60.179	50.000	15.93	0.00	46.97	1.75
1744	1810	0.812811	ATTGATCTGCAGCACGCGAT	60.813	50.000	15.93	0.00	46.97	4.58
1780	1853	7.969536	AACATTATATTGGCTACAGCTACAG	57.030	36.000	0.54	0.00	41.70	2.74
1791	1864	8.700722	TCATGAACAACAAACATTATATTGGC	57.299	30.769	0.00	0.00	0.00	4.52
1799	1872	5.236911	GGTTGCATCATGAACAACAAACATT	59.763	36.000	30.47	0.26	44.27	2.71
1800	1873	4.751098	GGTTGCATCATGAACAACAAACAT	59.249	37.500	30.47	0.72	44.27	2.71
1807	1880	2.241160	AGCTGGTTGCATCATGAACAA	58.759	42.857	0.00	4.87	45.94	2.83
1830	1909	0.803740	CTTCTTCTGCTGCTGAAGGC	59.196	55.000	34.10	2.01	39.05	4.35
1831	1910	0.803740	GCTTCTTCTGCTGCTGAAGG	59.196	55.000	34.10	24.93	39.05	3.46
1832	1911	1.197264	GTGCTTCTTCTGCTGCTGAAG	59.803	52.381	31.44	31.44	39.62	3.02
1834	1913	0.604780	GGTGCTTCTTCTGCTGCTGA	60.605	55.000	5.03	5.03	0.00	4.26
1835	1914	0.887836	TGGTGCTTCTTCTGCTGCTG	60.888	55.000	0.00	0.00	0.00	4.41
1836	1915	0.605860	CTGGTGCTTCTTCTGCTGCT	60.606	55.000	0.00	0.00	0.00	4.24
1837	1916	1.874562	CTGGTGCTTCTTCTGCTGC	59.125	57.895	0.00	0.00	0.00	5.25
1838	1917	0.887836	TGCTGGTGCTTCTTCTGCTG	60.888	55.000	0.00	0.00	40.48	4.41
1839	1918	0.037877	ATGCTGGTGCTTCTTCTGCT	59.962	50.000	0.00	0.00	40.48	4.24
1840	1919	1.399791	GTATGCTGGTGCTTCTTCTGC	59.600	52.381	0.00	0.00	40.48	4.26
1842	1921	2.038952	TGTGTATGCTGGTGCTTCTTCT	59.961	45.455	0.00	0.00	40.48	2.85
1843	1922	2.426522	TGTGTATGCTGGTGCTTCTTC	58.573	47.619	0.00	0.00	40.48	2.87
1846	1925	2.358957	TCATGTGTATGCTGGTGCTTC	58.641	47.619	0.00	0.00	40.48	3.86
1848	1927	2.172082	AGATCATGTGTATGCTGGTGCT	59.828	45.455	0.00	0.00	40.48	4.40
1849	1928	2.569059	AGATCATGTGTATGCTGGTGC	58.431	47.619	0.00	0.00	40.20	5.01
1851	1930	4.080695	ACTGAAGATCATGTGTATGCTGGT	60.081	41.667	0.00	0.00	34.21	4.00
1852	1931	4.449131	ACTGAAGATCATGTGTATGCTGG	58.551	43.478	0.00	0.00	34.21	4.85
1855	1934	7.081526	AGAAAACTGAAGATCATGTGTATGC	57.918	36.000	0.00	0.00	34.21	3.14
1856	1935	8.944029	AGAAGAAAACTGAAGATCATGTGTATG	58.056	33.333	0.00	0.00	35.57	2.39
1858	1937	7.933577	ACAGAAGAAAACTGAAGATCATGTGTA	59.066	33.333	0.00	0.00	38.55	2.90
1862	1969	7.646314	ACAACAGAAGAAAACTGAAGATCATG	58.354	34.615	0.00	0.00	38.55	3.07
1930	2048	2.741985	TAGACGCCGTTCGGTCGA	60.742	61.111	24.92	7.53	43.86	4.20
1955	2073	0.388659	TGCAGGACCATTTGCAACAC	59.611	50.000	0.00	0.00	46.42	3.32
2021	2140	4.645956	CAAAAGCTAGTCTCAGAAATGCG	58.354	43.478	0.00	0.00	0.00	4.73
2032	2151	6.237861	CGTTACCAGATTAGCAAAAGCTAGTC	60.238	42.308	10.79	10.79	31.79	2.59
2053	2172	2.610976	CCAAAGACACGTCCCATCGTTA	60.611	50.000	0.00	0.00	42.27	3.18
2120	2240	1.093972	CACGCTGCCATTATTGGTCA	58.906	50.000	5.58	3.73	45.57	4.02
2121	2241	1.378531	TCACGCTGCCATTATTGGTC	58.621	50.000	5.58	0.00	45.57	4.02
2122	2242	1.472480	GTTCACGCTGCCATTATTGGT	59.528	47.619	5.58	0.00	45.57	3.67
2134	2254	6.741992	TTGATTTATTCTCATGTTCACGCT	57.258	33.333	0.00	0.00	0.00	5.07
2160	2281	4.165036	GCTCTGCATCTAGTCATCATACG	58.835	47.826	0.00	0.00	0.00	3.06

Based at the University of Bristol with support from BBSRC.

AutoCloner maintained by Alex Coulton.