AutoCloner

Multiple sequence alignment - TraesCS5D01G310400

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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	TraesCS5D01G310400	chr5D	100.000	2401	0	0	1	2401	407015630	407013230	0.000000e+00	4434.0
1	TraesCS5D01G310400	chr5D	94.925	867	38	6	16	880	371016050	371016912	0.000000e+00	1352.0
2	TraesCS5D01G310400	chr7D	95.046	868	36	7	16	880	42199015	42198152	0.000000e+00	1358.0
3	TraesCS5D01G310400	chr7D	94.965	854	36	7	26	876	89869213	89870062	0.000000e+00	1332.0
4	TraesCS5D01G310400	chr7D	94.560	864	39	8	16	876	601070297	601069439	0.000000e+00	1328.0
5	TraesCS5D01G310400	chr1D	94.419	878	45	4	1	876	426911760	426912635	0.000000e+00	1347.0
6	TraesCS5D01G310400	chr1D	93.386	892	55	4	1	891	33406790	33407678	0.000000e+00	1317.0
7	TraesCS5D01G310400	chr4D	95.082	854	39	3	1	852	97495276	97494424	0.000000e+00	1341.0
8	TraesCS5D01G310400	chr4D	84.807	362	31	9	935	1285	122206094	122205746	2.290000e-90	342.0
9	TraesCS5D01G310400	chr2D	95.487	842	33	5	39	878	77120612	77121450	0.000000e+00	1339.0
10	TraesCS5D01G310400	chr3D	94.476	869	38	10	16	879	463677807	463676944	0.000000e+00	1330.0
11	TraesCS5D01G310400	chr5A	93.399	712	39	6	880	1587	512619143	512619850	0.000000e+00	1048.0
12	TraesCS5D01G310400	chr5A	88.278	836	42	21	1616	2401	512619841	512620670	0.000000e+00	950.0
13	TraesCS5D01G310400	chr5B	90.361	664	31	15	1627	2261	488114419	488115078	0.000000e+00	841.0
14	TraesCS5D01G310400	chr5B	88.559	708	46	16	892	1584	488113730	488114417	0.000000e+00	826.0
15	TraesCS5D01G310400	chr5B	91.398	93	5	1	2309	2401	488115168	488115257	9.010000e-25	124.0
16	TraesCS5D01G310400	chr7A	84.031	382	39	7	913	1285	213114639	213114271	4.910000e-92	348.0
17	TraesCS5D01G310400	chr4B	85.042	361	32	10	935	1285	185241033	185240685	4.910000e-92	348.0
18	TraesCS5D01G310400	chr4B	82.566	304	36	3	987	1285	672244142	672243851	3.960000e-63	252.0
19	TraesCS5D01G310400	chr4A	84.156	385	33	11	917	1285	448509059	448509431	4.910000e-92	348.0
20	TraesCS5D01G310400	chr4A	92.308	65	5	0	1	65	697491837	697491773	2.540000e-15	93.5
21	TraesCS5D01G310400	chr7B	84.123	359	39	5	932	1285	171984449	171984794	4.950000e-87	331.0
22	TraesCS5D01G310400	chrUn	83.553	304	33	3	987	1285	100076748	100077039	3.930000e-68	268.0

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	TraesCS5D01G310400	chr5D	407013230	407015630	2400	True	4434	4434	100.0000	1	2401	1	chr5D.!!$R1	2400
1	TraesCS5D01G310400	chr5D	371016050	371016912	862	False	1352	1352	94.9250	16	880	1	chr5D.!!$F1	864
2	TraesCS5D01G310400	chr7D	42198152	42199015	863	True	1358	1358	95.0460	16	880	1	chr7D.!!$R1	864
3	TraesCS5D01G310400	chr7D	89869213	89870062	849	False	1332	1332	94.9650	26	876	1	chr7D.!!$F1	850
4	TraesCS5D01G310400	chr7D	601069439	601070297	858	True	1328	1328	94.5600	16	876	1	chr7D.!!$R2	860
5	TraesCS5D01G310400	chr1D	426911760	426912635	875	False	1347	1347	94.4190	1	876	1	chr1D.!!$F2	875
6	TraesCS5D01G310400	chr1D	33406790	33407678	888	False	1317	1317	93.3860	1	891	1	chr1D.!!$F1	890
7	TraesCS5D01G310400	chr4D	97494424	97495276	852	True	1341	1341	95.0820	1	852	1	chr4D.!!$R1	851
8	TraesCS5D01G310400	chr2D	77120612	77121450	838	False	1339	1339	95.4870	39	878	1	chr2D.!!$F1	839
9	TraesCS5D01G310400	chr3D	463676944	463677807	863	True	1330	1330	94.4760	16	879	1	chr3D.!!$R1	863
10	TraesCS5D01G310400	chr5A	512619143	512620670	1527	False	999	1048	90.8385	880	2401	2	chr5A.!!$F1	1521
11	TraesCS5D01G310400	chr5B	488113730	488115257	1527	False	597	841	90.1060	892	2401	3	chr5B.!!$F1	1509

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
53	54	1.001974	AGTTGCCATGTCGCTGAACTA	59.998	47.619	0.0	0.0	0.0	2.24	F
622	628	1.071542	TGGAAAATGAGCAGTCGTGGA	59.928	47.619	0.0	0.0	0.0	4.02	F

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability	Orientation
1055	1068	0.241213	CTGCGACTTGGACTCGAAGA	59.759	55.000	7.72	0.0	38.90	2.87	R
1717	1741	1.338020	CTGAACAAAACAGGACTGCCC	59.662	52.381	0.00	0.0	33.31	5.36	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
53	54	1.001974	AGTTGCCATGTCGCTGAACTA	59.998	47.619	0.00	0.00	0.00	2.24
200	201	5.520632	CCATGTATGGTCTTGTCTACTACG	58.479	45.833	2.66	0.00	43.05	3.51
214	215	4.034048	GTCTACTACGGTTGCCATGATTTG	59.966	45.833	0.00	0.00	0.00	2.32
226	228	7.226523	GGTTGCCATGATTTGAAAAACTTTAGT	59.773	33.333	0.00	0.00	0.00	2.24
505	511	2.230266	GGCAACAATAACATGTTCGGGT	59.770	45.455	15.85	8.65	41.44	5.28
506	512	3.440872	GGCAACAATAACATGTTCGGGTA	59.559	43.478	15.85	0.00	41.44	3.69
568	574	3.324556	AGTTGCCATGTAACCTGCAAAAT	59.675	39.130	6.41	0.00	44.44	1.82
576	582	2.652941	AACCTGCAAAATACATGGCG	57.347	45.000	0.00	0.00	0.00	5.69
602	608	1.133792	CAACTTGGGTGTGGGAGAGTT	60.134	52.381	0.00	0.00	0.00	3.01
611	617	3.486383	GTGTGGGAGAGTTGGAAAATGA	58.514	45.455	0.00	0.00	0.00	2.57
622	628	1.071542	TGGAAAATGAGCAGTCGTGGA	59.928	47.619	0.00	0.00	0.00	4.02
631	637	1.983224	CAGTCGTGGAAGATGGGGT	59.017	57.895	0.00	0.00	0.00	4.95
933	946	3.887916	AAACTAGGGTTTTGCCTACCA	57.112	42.857	0.00	0.00	42.28	3.25
969	982	1.309950	CTCCTTCCGAGCATCTACGA	58.690	55.000	0.00	0.00	0.00	3.43
976	989	1.777030	CGAGCATCTACGAGTCGCCT	61.777	60.000	13.59	0.00	0.00	5.52
1005	1018	2.512896	GCTGGCCTTCCGATGGAT	59.487	61.111	3.32	0.00	34.14	3.41
1172	1185	3.733960	GAACCCGTTCAAGCCGGC	61.734	66.667	21.89	21.89	44.13	6.13
1248	1264	3.706373	ACCCAGAAGCGCATCCGT	61.706	61.111	11.47	0.40	36.67	4.69
1365	1381	5.120208	CCTTCTGATGTTAGTTTGTACCACG	59.880	44.000	0.00	0.00	0.00	4.94
1412	1428	8.712285	TTATGGATCGGTAAAGTTTAAGTGAG	57.288	34.615	0.00	0.00	0.00	3.51
1421	1437	6.544931	GGTAAAGTTTAAGTGAGAAGTTGGGT	59.455	38.462	0.00	0.00	0.00	4.51
1491	1508	5.694006	GGTGATGATGATGTAAGTAGACAGC	59.306	44.000	0.00	0.00	36.26	4.40
1537	1558	6.220930	GTCTGTGACTTGTGTGGTAATCTTA	58.779	40.000	0.00	0.00	0.00	2.10
1587	1611	6.477053	TGTTAATCCATTGGAGAGAGAGAG	57.523	41.667	11.78	0.00	34.05	3.20
1588	1612	6.197903	TGTTAATCCATTGGAGAGAGAGAGA	58.802	40.000	11.78	0.00	34.05	3.10
1589	1613	6.323482	TGTTAATCCATTGGAGAGAGAGAGAG	59.677	42.308	11.78	0.00	34.05	3.20
1590	1614	4.812403	ATCCATTGGAGAGAGAGAGAGA	57.188	45.455	11.78	0.00	34.05	3.10
1591	1615	4.169059	TCCATTGGAGAGAGAGAGAGAG	57.831	50.000	0.00	0.00	0.00	3.20
1592	1616	3.785325	TCCATTGGAGAGAGAGAGAGAGA	59.215	47.826	0.00	0.00	0.00	3.10
1593	1617	4.139786	CCATTGGAGAGAGAGAGAGAGAG	58.860	52.174	0.00	0.00	0.00	3.20
1594	1618	4.141413	CCATTGGAGAGAGAGAGAGAGAGA	60.141	50.000	0.00	0.00	0.00	3.10
1595	1619	4.760530	TTGGAGAGAGAGAGAGAGAGAG	57.239	50.000	0.00	0.00	0.00	3.20
1596	1620	3.994317	TGGAGAGAGAGAGAGAGAGAGA	58.006	50.000	0.00	0.00	0.00	3.10
1597	1621	3.963374	TGGAGAGAGAGAGAGAGAGAGAG	59.037	52.174	0.00	0.00	0.00	3.20
1598	1622	4.219115	GGAGAGAGAGAGAGAGAGAGAGA	58.781	52.174	0.00	0.00	0.00	3.10
1599	1623	4.280677	GGAGAGAGAGAGAGAGAGAGAGAG	59.719	54.167	0.00	0.00	0.00	3.20
1600	1624	5.136068	AGAGAGAGAGAGAGAGAGAGAGA	57.864	47.826	0.00	0.00	0.00	3.10
1601	1625	5.139727	AGAGAGAGAGAGAGAGAGAGAGAG	58.860	50.000	0.00	0.00	0.00	3.20
1602	1626	5.103728	AGAGAGAGAGAGAGAGAGAGAGAGA	60.104	48.000	0.00	0.00	0.00	3.10
1603	1627	5.139727	AGAGAGAGAGAGAGAGAGAGAGAG	58.860	50.000	0.00	0.00	0.00	3.20
1604	1628	5.103728	AGAGAGAGAGAGAGAGAGAGAGAGA	60.104	48.000	0.00	0.00	0.00	3.10
1605	1629	5.139727	AGAGAGAGAGAGAGAGAGAGAGAG	58.860	50.000	0.00	0.00	0.00	3.20
1606	1630	5.103728	AGAGAGAGAGAGAGAGAGAGAGAGA	60.104	48.000	0.00	0.00	0.00	3.10
1607	1631	5.139727	AGAGAGAGAGAGAGAGAGAGAGAG	58.860	50.000	0.00	0.00	0.00	3.20
1608	1632	5.103728	AGAGAGAGAGAGAGAGAGAGAGAGA	60.104	48.000	0.00	0.00	0.00	3.10
1609	1633	5.139727	AGAGAGAGAGAGAGAGAGAGAGAG	58.860	50.000	0.00	0.00	0.00	3.20
1610	1634	5.103728	AGAGAGAGAGAGAGAGAGAGAGAGA	60.104	48.000	0.00	0.00	0.00	3.10
1611	1635	5.139727	AGAGAGAGAGAGAGAGAGAGAGAG	58.860	50.000	0.00	0.00	0.00	3.20
1612	1636	5.103728	AGAGAGAGAGAGAGAGAGAGAGAGA	60.104	48.000	0.00	0.00	0.00	3.10
1613	1637	5.139727	AGAGAGAGAGAGAGAGAGAGAGAG	58.860	50.000	0.00	0.00	0.00	3.20
1614	1638	5.103728	AGAGAGAGAGAGAGAGAGAGAGAGA	60.104	48.000	0.00	0.00	0.00	3.10
1615	1639	5.139727	AGAGAGAGAGAGAGAGAGAGAGAG	58.860	50.000	0.00	0.00	0.00	3.20
1616	1640	5.103728	AGAGAGAGAGAGAGAGAGAGAGAGA	60.104	48.000	0.00	0.00	0.00	3.10
1617	1641	5.139727	AGAGAGAGAGAGAGAGAGAGAGAG	58.860	50.000	0.00	0.00	0.00	3.20
1618	1642	5.103728	AGAGAGAGAGAGAGAGAGAGAGAGA	60.104	48.000	0.00	0.00	0.00	3.10
1619	1643	5.139727	AGAGAGAGAGAGAGAGAGAGAGAG	58.860	50.000	0.00	0.00	0.00	3.20
1620	1644	5.103728	AGAGAGAGAGAGAGAGAGAGAGAGA	60.104	48.000	0.00	0.00	0.00	3.10
1621	1645	5.714863	AGAGAGAGAGAGAGAGAGAGAGAT	58.285	45.833	0.00	0.00	0.00	2.75
1622	1646	5.539574	AGAGAGAGAGAGAGAGAGAGAGATG	59.460	48.000	0.00	0.00	0.00	2.90
1623	1647	5.462240	AGAGAGAGAGAGAGAGAGAGATGA	58.538	45.833	0.00	0.00	0.00	2.92
1624	1648	6.083383	AGAGAGAGAGAGAGAGAGAGATGAT	58.917	44.000	0.00	0.00	0.00	2.45
1625	1649	7.244558	AGAGAGAGAGAGAGAGAGAGATGATA	58.755	42.308	0.00	0.00	0.00	2.15
1654	1678	4.625311	TGCGATGATATATACAAGGTTGCG	59.375	41.667	0.00	0.00	0.00	4.85
1686	1710	5.356882	TCATGTCAATCAGTTTTCGGTTC	57.643	39.130	0.00	0.00	0.00	3.62
1692	1716	4.025229	TCAATCAGTTTTCGGTTCGTCTTG	60.025	41.667	0.00	0.00	0.00	3.02
1717	1741	4.443063	TCGCCGTCAAATTTATGTCTATCG	59.557	41.667	0.00	0.00	0.00	2.92
1719	1743	4.084013	GCCGTCAAATTTATGTCTATCGGG	60.084	45.833	0.00	0.00	35.65	5.14
1747	1774	4.437390	CCTGTTTTGTTCAGTATCATCGCC	60.437	45.833	0.00	0.00	0.00	5.54
1749	1776	2.325583	TTGTTCAGTATCATCGCCCC	57.674	50.000	0.00	0.00	0.00	5.80
1776	1803	3.861276	TCGGTCTATAACGGCATATGG	57.139	47.619	4.56	0.00	0.00	2.74
2117	2164	3.188159	TCGTTTCTACACAGCCAAACT	57.812	42.857	0.00	0.00	0.00	2.66
2131	2178	5.343307	AGCCAAACTGACTTGAAAACATT	57.657	34.783	0.00	0.00	0.00	2.71
2132	2179	5.111293	AGCCAAACTGACTTGAAAACATTG	58.889	37.500	0.00	0.00	0.00	2.82
2137	2186	3.450457	ACTGACTTGAAAACATTGGGCAA	59.550	39.130	0.00	0.00	0.00	4.52
2158	2207	7.656948	GGGCAACAACATAATGTGCATAATAAT	59.343	33.333	0.00	0.00	39.74	1.28
2188	2237	3.246416	AGACTTCAGAGTACCCACTGT	57.754	47.619	10.57	0.00	35.88	3.55
2189	2238	4.383931	AGACTTCAGAGTACCCACTGTA	57.616	45.455	10.57	3.16	35.88	2.74
2190	2239	4.737578	AGACTTCAGAGTACCCACTGTAA	58.262	43.478	10.57	5.35	35.88	2.41
2191	2240	4.523558	AGACTTCAGAGTACCCACTGTAAC	59.476	45.833	10.57	4.26	35.88	2.50
2197	2258	5.104444	TCAGAGTACCCACTGTAACCAAAAA	60.104	40.000	10.57	0.00	34.21	1.94
2271	2361	4.636206	GGAAAGCAATCCTTTACGACAGAT	59.364	41.667	0.00	0.00	43.64	2.90

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
53	54	0.534877	TTCAGCGACATGGCAACTGT	60.535	50.000	16.12	0.00	34.64	3.55
190	191	2.172679	TCATGGCAACCGTAGTAGACA	58.827	47.619	0.00	0.00	0.00	3.41
200	201	6.375945	AAAGTTTTTCAAATCATGGCAACC	57.624	33.333	0.00	0.00	0.00	3.77
214	215	6.387041	AGGTGGCAACTACTAAAGTTTTTC	57.613	37.500	1.40	0.00	46.61	2.29
226	228	5.416952	GTCTAGTGTTAGTAGGTGGCAACTA	59.583	44.000	8.51	8.51	37.61	2.24
511	517	6.148480	GTGATTGTAAGCAGATGACAACTCTT	59.852	38.462	0.00	3.99	35.99	2.85
519	525	5.985530	CCTATTCGTGATTGTAAGCAGATGA	59.014	40.000	0.00	0.00	0.00	2.92
568	574	2.746904	CCAAGTTGTCATTCGCCATGTA	59.253	45.455	1.45	0.00	34.06	2.29
576	582	1.613437	CCCACACCCAAGTTGTCATTC	59.387	52.381	1.45	0.00	0.00	2.67
602	608	1.071542	TCCACGACTGCTCATTTTCCA	59.928	47.619	0.00	0.00	0.00	3.53
611	617	1.599047	CCCATCTTCCACGACTGCT	59.401	57.895	0.00	0.00	0.00	4.24
622	628	2.233922	CACGACTTCTGTACCCCATCTT	59.766	50.000	0.00	0.00	0.00	2.40
631	637	2.967397	CCCCGCACGACTTCTGTA	59.033	61.111	0.00	0.00	0.00	2.74
891	898	9.462606	AGTTTTCTTTTCTCTTTCTTGACCTTA	57.537	29.630	0.00	0.00	0.00	2.69
892	899	8.354711	AGTTTTCTTTTCTCTTTCTTGACCTT	57.645	30.769	0.00	0.00	0.00	3.50
893	900	7.946381	AGTTTTCTTTTCTCTTTCTTGACCT	57.054	32.000	0.00	0.00	0.00	3.85
894	901	8.346300	CCTAGTTTTCTTTTCTCTTTCTTGACC	58.654	37.037	0.00	0.00	0.00	4.02
895	902	8.346300	CCCTAGTTTTCTTTTCTCTTTCTTGAC	58.654	37.037	0.00	0.00	0.00	3.18
933	946	3.083997	GGAGAGGTGGATGGCGGT	61.084	66.667	0.00	0.00	0.00	5.68
990	1003	1.224315	CACATCCATCGGAAGGCCA	59.776	57.895	5.01	0.00	34.34	5.36
995	1008	2.513666	GCGGCACATCCATCGGAA	60.514	61.111	0.00	0.00	34.34	4.30
1055	1068	0.241213	CTGCGACTTGGACTCGAAGA	59.759	55.000	7.72	0.00	38.90	2.87
1160	1173	1.982073	GAGGAATGCCGGCTTGAACG	61.982	60.000	29.70	0.00	39.96	3.95
1194	1210	2.485122	CGGCCAAACTGCGAATCC	59.515	61.111	2.24	0.00	0.00	3.01
1365	1381	2.690497	TCTGATGCAGAGGTACAGTAGC	59.310	50.000	1.13	1.13	35.39	3.58
1491	1508	1.851053	CTCGTCATCATCTCGTGCTTG	59.149	52.381	0.00	0.00	0.00	4.01
1537	1558	9.646427	TGTGCAAAAGACAAACTAAAAATTACT	57.354	25.926	0.00	0.00	0.00	2.24
1587	1611	5.136828	TCTCTCTCTCTCTCTCTCTCTCTC	58.863	50.000	0.00	0.00	0.00	3.20
1588	1612	5.103728	TCTCTCTCTCTCTCTCTCTCTCTCT	60.104	48.000	0.00	0.00	0.00	3.10
1589	1613	5.136828	TCTCTCTCTCTCTCTCTCTCTCTC	58.863	50.000	0.00	0.00	0.00	3.20
1590	1614	5.103728	TCTCTCTCTCTCTCTCTCTCTCTCT	60.104	48.000	0.00	0.00	0.00	3.10
1591	1615	5.136828	TCTCTCTCTCTCTCTCTCTCTCTC	58.863	50.000	0.00	0.00	0.00	3.20
1592	1616	5.103728	TCTCTCTCTCTCTCTCTCTCTCTCT	60.104	48.000	0.00	0.00	0.00	3.10
1593	1617	5.136828	TCTCTCTCTCTCTCTCTCTCTCTC	58.863	50.000	0.00	0.00	0.00	3.20
1594	1618	5.103728	TCTCTCTCTCTCTCTCTCTCTCTCT	60.104	48.000	0.00	0.00	0.00	3.10
1595	1619	5.136828	TCTCTCTCTCTCTCTCTCTCTCTC	58.863	50.000	0.00	0.00	0.00	3.20
1596	1620	5.103728	TCTCTCTCTCTCTCTCTCTCTCTCT	60.104	48.000	0.00	0.00	0.00	3.10
1597	1621	5.136828	TCTCTCTCTCTCTCTCTCTCTCTC	58.863	50.000	0.00	0.00	0.00	3.20
1598	1622	5.136068	TCTCTCTCTCTCTCTCTCTCTCT	57.864	47.826	0.00	0.00	0.00	3.10
1599	1623	5.538053	TCATCTCTCTCTCTCTCTCTCTCTC	59.462	48.000	0.00	0.00	0.00	3.20
1600	1624	5.462240	TCATCTCTCTCTCTCTCTCTCTCT	58.538	45.833	0.00	0.00	0.00	3.10
1601	1625	5.798125	TCATCTCTCTCTCTCTCTCTCTC	57.202	47.826	0.00	0.00	0.00	3.20
1602	1626	7.677319	TCATATCATCTCTCTCTCTCTCTCTCT	59.323	40.741	0.00	0.00	0.00	3.10
1603	1627	7.845037	TCATATCATCTCTCTCTCTCTCTCTC	58.155	42.308	0.00	0.00	0.00	3.20
1604	1628	7.803487	TCATATCATCTCTCTCTCTCTCTCT	57.197	40.000	0.00	0.00	0.00	3.10
1607	1631	8.781196	GCATATCATATCATCTCTCTCTCTCTC	58.219	40.741	0.00	0.00	0.00	3.20
1608	1632	7.443272	CGCATATCATATCATCTCTCTCTCTCT	59.557	40.741	0.00	0.00	0.00	3.10
1609	1633	7.442062	TCGCATATCATATCATCTCTCTCTCTC	59.558	40.741	0.00	0.00	0.00	3.20
1610	1634	7.281841	TCGCATATCATATCATCTCTCTCTCT	58.718	38.462	0.00	0.00	0.00	3.10
1611	1635	7.495135	TCGCATATCATATCATCTCTCTCTC	57.505	40.000	0.00	0.00	0.00	3.20
1612	1636	7.720515	TCATCGCATATCATATCATCTCTCTCT	59.279	37.037	0.00	0.00	0.00	3.10
1613	1637	7.873910	TCATCGCATATCATATCATCTCTCTC	58.126	38.462	0.00	0.00	0.00	3.20
1614	1638	7.820578	TCATCGCATATCATATCATCTCTCT	57.179	36.000	0.00	0.00	0.00	3.10
1648	1672	2.228822	ACATGAAAATCTCACCGCAACC	59.771	45.455	0.00	0.00	36.69	3.77
1654	1678	6.506500	ACTGATTGACATGAAAATCTCACC	57.493	37.500	19.01	2.02	36.69	4.02
1692	1716	4.795970	AGACATAAATTTGACGGCGATC	57.204	40.909	16.62	8.31	0.00	3.69
1717	1741	1.338020	CTGAACAAAACAGGACTGCCC	59.662	52.381	0.00	0.00	33.31	5.36
1719	1743	4.515191	TGATACTGAACAAAACAGGACTGC	59.485	41.667	0.00	0.00	39.38	4.40
1776	1803	5.392057	GCACACTAAACAAAGATAGAAGGGC	60.392	44.000	0.00	0.00	0.00	5.19
1816	1846	6.238103	GCTACAAGTCGCATGCTTTTAGAATA	60.238	38.462	17.13	0.00	31.46	1.75
2012	2059	3.191371	GGAAGGTTGATGCTTGATTCGTT	59.809	43.478	0.00	0.00	0.00	3.85
2117	2164	3.196469	TGTTGCCCAATGTTTTCAAGTCA	59.804	39.130	0.00	0.00	0.00	3.41
2125	2172	5.469421	CACATTATGTTGTTGCCCAATGTTT	59.531	36.000	0.00	0.00	35.12	2.83
2130	2177	2.366590	TGCACATTATGTTGTTGCCCAA	59.633	40.909	0.00	0.00	0.00	4.12
2131	2178	1.966354	TGCACATTATGTTGTTGCCCA	59.034	42.857	0.00	0.00	0.00	5.36
2132	2179	2.739885	TGCACATTATGTTGTTGCCC	57.260	45.000	0.00	0.00	0.00	5.36
2158	2207	6.239232	GGGTACTCTGAAGTCTTGTTGTTCTA	60.239	42.308	0.00	0.00	36.92	2.10
2174	2223	4.345859	TTTGGTTACAGTGGGTACTCTG	57.654	45.455	0.00	3.25	34.07	3.35
2261	2327	9.863845	TGTTTAGTTTGATATCATCTGTCGTAA	57.136	29.630	6.17	0.00	0.00	3.18
2262	2328	9.516314	CTGTTTAGTTTGATATCATCTGTCGTA	57.484	33.333	6.17	0.00	0.00	3.43
2264	2330	8.634475	TCTGTTTAGTTTGATATCATCTGTCG	57.366	34.615	6.17	0.00	0.00	4.35
2265	2331	9.593134	ACTCTGTTTAGTTTGATATCATCTGTC	57.407	33.333	6.17	4.91	0.00	3.51

Based at the University of Bristol with support from BBSRC.

AutoCloner maintained by Alex Coulton.