AutoCloner

Multiple sequence alignment - TraesCS5B01G516700

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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	TraesCS5B01G516700	chr5B	100.000	2288	0	0	1	2288	680628897	680626610	0.000000e+00	4226
1	TraesCS5B01G516700	chr5B	92.285	1711	102	17	1	1700	54116517	54114826	0.000000e+00	2401
2	TraesCS5B01G516700	chr7B	94.118	1717	82	5	2	1704	457414304	457416015	0.000000e+00	2593
3	TraesCS5B01G516700	chr7B	79.447	253	41	7	2045	2288	193324369	193324619	3.910000e-38	169
4	TraesCS5B01G516700	chr3B	94.046	1713	81	5	1	1699	97752874	97751169	0.000000e+00	2579
5	TraesCS5B01G516700	chr3B	92.865	1724	99	7	1	1706	200855010	200856727	0.000000e+00	2481
6	TraesCS5B01G516700	chr3B	90.877	1710	117	21	1	1700	496764915	496766595	0.000000e+00	2257
7	TraesCS5B01G516700	chr3B	92.689	424	21	1	1288	1701	79286839	79287262	9.040000e-169	603
8	TraesCS5B01G516700	chr3B	78.988	257	51	3	2034	2288	821285325	821285070	3.020000e-39	172
9	TraesCS5B01G516700	chr3B	81.643	207	37	1	2083	2288	821434700	821434494	1.090000e-38	171
10	TraesCS5B01G516700	chr1B	92.281	1710	114	12	1	1701	61492732	61491032	0.000000e+00	2410
11	TraesCS5B01G516700	chr1B	77.288	295	42	15	2003	2288	444064401	444064679	1.420000e-32	150
12	TraesCS5B01G516700	chr5A	93.758	1602	88	5	102	1699	651643133	651641540	0.000000e+00	2394
13	TraesCS5B01G516700	chr5A	89.428	1731	140	17	1	1701	312260226	312258509	0.000000e+00	2143
14	TraesCS5B01G516700	chr2A	91.512	1720	91	13	1	1705	706884754	706886433	0.000000e+00	2316
15	TraesCS5B01G516700	chr2A	84.091	176	26	2	2068	2242	175672479	175672305	3.910000e-38	169
16	TraesCS5B01G516700	chr6B	90.930	1720	118	13	1	1705	671866710	671865014	0.000000e+00	2278
17	TraesCS5B01G516700	chr6B	91.458	1639	125	13	1	1629	655067828	655066195	0.000000e+00	2237
18	TraesCS5B01G516700	chrUn	91.327	761	43	15	949	1707	386164732	386165471	0.000000e+00	1018
19	TraesCS5B01G516700	chr4A	82.986	623	70	15	1687	2288	629463635	629464242	4.330000e-147	531
20	TraesCS5B01G516700	chr4A	78.997	319	52	8	1982	2288	10995053	10994738	1.070000e-48	204
21	TraesCS5B01G516700	chr7D	80.899	267	47	4	2025	2288	489005805	489005540	8.280000e-50	207
22	TraesCS5B01G516700	chr4D	77.188	320	56	8	1982	2288	458046464	458046779	1.090000e-38	171
23	TraesCS5B01G516700	chr7A	77.255	255	47	7	2044	2288	103416475	103416728	3.060000e-29	139

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	TraesCS5B01G516700	chr5B	680626610	680628897	2287	True	4226	4226	100.000	1	2288	1	chr5B.!!$R2	2287
1	TraesCS5B01G516700	chr5B	54114826	54116517	1691	True	2401	2401	92.285	1	1700	1	chr5B.!!$R1	1699
2	TraesCS5B01G516700	chr7B	457414304	457416015	1711	False	2593	2593	94.118	2	1704	1	chr7B.!!$F2	1702
3	TraesCS5B01G516700	chr3B	97751169	97752874	1705	True	2579	2579	94.046	1	1699	1	chr3B.!!$R1	1698
4	TraesCS5B01G516700	chr3B	200855010	200856727	1717	False	2481	2481	92.865	1	1706	1	chr3B.!!$F2	1705
5	TraesCS5B01G516700	chr3B	496764915	496766595	1680	False	2257	2257	90.877	1	1700	1	chr3B.!!$F3	1699
6	TraesCS5B01G516700	chr1B	61491032	61492732	1700	True	2410	2410	92.281	1	1701	1	chr1B.!!$R1	1700
7	TraesCS5B01G516700	chr5A	651641540	651643133	1593	True	2394	2394	93.758	102	1699	1	chr5A.!!$R2	1597
8	TraesCS5B01G516700	chr5A	312258509	312260226	1717	True	2143	2143	89.428	1	1701	1	chr5A.!!$R1	1700
9	TraesCS5B01G516700	chr2A	706884754	706886433	1679	False	2316	2316	91.512	1	1705	1	chr2A.!!$F1	1704
10	TraesCS5B01G516700	chr6B	671865014	671866710	1696	True	2278	2278	90.930	1	1705	1	chr6B.!!$R2	1704
11	TraesCS5B01G516700	chr6B	655066195	655067828	1633	True	2237	2237	91.458	1	1629	1	chr6B.!!$R1	1628
12	TraesCS5B01G516700	chrUn	386164732	386165471	739	False	1018	1018	91.327	949	1707	1	chrUn.!!$F1	758
13	TraesCS5B01G516700	chr4A	629463635	629464242	607	False	531	531	82.986	1687	2288	1	chr4A.!!$F1	601

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
41	42	0.320334	TTCTTCTTCATCGCCGTGCA	60.32	50.0	0.0	0.0	0.0	4.57	F

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability	Orientation
1841	1915	0.176219	ACGTTCTTTGTCGTGGTCCA	59.824	50.0	0.0	0.0	38.85	4.02	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
41	42	0.320334	TTCTTCTTCATCGCCGTGCA	60.320	50.000	0.00	0.00	0.00	4.57
43	44	0.737367	CTTCTTCATCGCCGTGCAGA	60.737	55.000	0.00	0.00	0.00	4.26
100	101	1.333177	GTCGATCTGCCAGGTAGGAT	58.667	55.000	4.47	0.00	41.22	3.24
161	162	2.950990	TCTTCCTCCTCCTTAGGCTT	57.049	50.000	0.00	0.00	43.31	4.35
234	235	1.451936	GCGGTCATTAGGAGCCCAT	59.548	57.895	0.00	0.00	40.99	4.00
365	366	4.220821	AGGAATCAGCGTCTTCAACTCTTA	59.779	41.667	0.00	0.00	0.00	2.10
373	374	6.366332	CAGCGTCTTCAACTCTTATTTAGTGT	59.634	38.462	0.00	0.00	32.13	3.55
384	385	8.367660	ACTCTTATTTAGTGTCCTTCATGAGA	57.632	34.615	0.00	0.00	0.00	3.27
394	395	4.130118	GTCCTTCATGAGAACGGCATTAT	58.870	43.478	0.00	0.00	0.00	1.28
567	568	3.564218	ATGGCGATGGGGAGGAGC	61.564	66.667	0.00	0.00	0.00	4.70
613	615	1.355112	GGTGGGTAAGTAGTGGTGGT	58.645	55.000	0.00	0.00	0.00	4.16
1221	1265	3.070734	CCCTCAAGGTCATCATCTTCGAT	59.929	47.826	0.00	0.00	0.00	3.59
1272	1316	1.228657	GGAAGCACGACGAAGCCTTT	61.229	55.000	0.00	0.00	0.00	3.11
1333	1377	5.220043	CGTACTATCAAGTCTGCTTTGAACG	60.220	44.000	0.00	0.00	37.15	3.95
1336	1380	2.899976	TCAAGTCTGCTTTGAACGTGA	58.100	42.857	0.00	0.00	31.49	4.35
1425	1487	3.730061	GCTCTGTTGTGCTTATGATGTGC	60.730	47.826	0.00	0.00	0.00	4.57
1596	1661	2.263540	GGCATGCAGGCAACCAAG	59.736	61.111	26.25	0.00	43.51	3.61
1668	1733	2.093500	AGAGAAGTGTATGCAATGCGGA	60.093	45.455	0.00	0.00	0.00	5.54
1745	1810	2.126071	CTCCGTCGGACGCACAAT	60.126	61.111	24.26	0.00	40.91	2.71
1755	1820	0.310543	GACGCACAATGTTGAGGCAA	59.689	50.000	0.00	0.00	33.78	4.52
1772	1837	1.069227	GCAACTAAACTGAACGCAGGG	60.069	52.381	0.00	0.00	46.60	4.45
1793	1867	2.107950	TGTTGAGACCCTAATTGGCG	57.892	50.000	0.00	0.00	0.00	5.69
1799	1873	2.103263	GAGACCCTAATTGGCGACTGAT	59.897	50.000	0.00	0.00	0.00	2.90
1809	1883	2.723273	TGGCGACTGATAGAGAGACAA	58.277	47.619	0.00	0.00	0.00	3.18
1822	1896	4.099633	AGAGAGACAACATTCTGATCCCA	58.900	43.478	0.00	0.00	0.00	4.37
1830	1904	2.176148	ACATTCTGATCCCATGCATCCA	59.824	45.455	0.00	0.00	0.00	3.41
1835	1909	2.306219	CTGATCCCATGCATCCAGAGAT	59.694	50.000	0.00	0.00	0.00	2.75
1855	1929	2.217750	TGAACATGGACCACGACAAAG	58.782	47.619	0.00	0.00	0.00	2.77
1860	1934	0.176219	TGGACCACGACAAAGAACGT	59.824	50.000	0.00	0.00	43.50	3.99
1892	1967	5.407407	AGGAAAACACTCGATGATACAGT	57.593	39.130	0.00	0.00	0.00	3.55
1911	1986	0.863144	TACTTCAGAAAACGCGTGCC	59.137	50.000	14.98	4.92	0.00	5.01
1929	2004	5.050431	GCGTGCCAAAATTAAAGAACACATT	60.050	36.000	0.00	0.00	0.00	2.71
1932	2007	7.254252	CGTGCCAAAATTAAAGAACACATTCAA	60.254	33.333	0.00	0.00	37.29	2.69
1946	2021	8.247562	AGAACACATTCAATACAGTAGAGAGAC	58.752	37.037	0.00	0.00	37.29	3.36
1948	2023	7.896811	ACACATTCAATACAGTAGAGAGACAA	58.103	34.615	0.00	0.00	0.00	3.18
1969	2044	0.693049	AAAGACGGTCATGCCCTTCT	59.307	50.000	11.27	0.00	0.00	2.85
1974	2049	0.742281	CGGTCATGCCCTTCTCTGTG	60.742	60.000	0.00	0.00	0.00	3.66
1983	2058	1.489649	CCCTTCTCTGTGCATCTCCAT	59.510	52.381	0.00	0.00	0.00	3.41
1984	2059	2.092538	CCCTTCTCTGTGCATCTCCATT	60.093	50.000	0.00	0.00	0.00	3.16
1985	2060	3.204526	CCTTCTCTGTGCATCTCCATTC	58.795	50.000	0.00	0.00	0.00	2.67
1986	2061	3.118334	CCTTCTCTGTGCATCTCCATTCT	60.118	47.826	0.00	0.00	0.00	2.40
1987	2062	3.815856	TCTCTGTGCATCTCCATTCTC	57.184	47.619	0.00	0.00	0.00	2.87
1988	2063	2.433604	TCTCTGTGCATCTCCATTCTCC	59.566	50.000	0.00	0.00	0.00	3.71
1989	2064	2.169978	CTCTGTGCATCTCCATTCTCCA	59.830	50.000	0.00	0.00	0.00	3.86
1990	2065	2.573009	TCTGTGCATCTCCATTCTCCAA	59.427	45.455	0.00	0.00	0.00	3.53
1991	2066	2.943690	CTGTGCATCTCCATTCTCCAAG	59.056	50.000	0.00	0.00	0.00	3.61
1997	2072	1.925255	TCTCCATTCTCCAAGGGCAAT	59.075	47.619	0.00	0.00	33.09	3.56
2001	2076	0.625849	ATTCTCCAAGGGCAATCCGT	59.374	50.000	0.00	0.00	41.52	4.69
2011	2086	3.288092	AGGGCAATCCGTAATTTTCTCC	58.712	45.455	0.00	0.00	41.52	3.71
2012	2087	2.361119	GGGCAATCCGTAATTTTCTCCC	59.639	50.000	0.00	0.00	0.00	4.30
2014	2089	2.681344	GCAATCCGTAATTTTCTCCCGT	59.319	45.455	0.00	0.00	0.00	5.28
2019	2094	3.705579	TCCGTAATTTTCTCCCGTATCCA	59.294	43.478	0.00	0.00	0.00	3.41
2021	2096	5.539574	TCCGTAATTTTCTCCCGTATCCATA	59.460	40.000	0.00	0.00	0.00	2.74
2022	2097	6.041865	TCCGTAATTTTCTCCCGTATCCATAA	59.958	38.462	0.00	0.00	0.00	1.90
2023	2098	6.707161	CCGTAATTTTCTCCCGTATCCATAAA	59.293	38.462	0.00	0.00	0.00	1.40
2043	2118	1.599606	CGGACAGAGGGACCAGTCTG	61.600	65.000	17.61	17.61	44.92	3.51
2044	2119	1.594310	GACAGAGGGACCAGTCTGC	59.406	63.158	18.68	10.60	43.48	4.26
2051	2126	2.734591	GACCAGTCTGCGGACACA	59.265	61.111	27.02	0.00	44.36	3.72
2052	2127	1.373497	GACCAGTCTGCGGACACAG	60.373	63.158	27.02	16.63	44.36	3.66
2058	2133	2.970205	TCTGCGGACACAGATACCA	58.030	52.632	0.00	0.00	41.72	3.25
2059	2134	1.262417	TCTGCGGACACAGATACCAA	58.738	50.000	0.00	0.00	41.72	3.67
2061	2136	2.002586	CTGCGGACACAGATACCAAAG	58.997	52.381	0.00	0.00	40.25	2.77
2063	2138	1.338769	GCGGACACAGATACCAAAGGT	60.339	52.381	0.00	0.00	40.16	3.50
2065	2140	2.618053	GGACACAGATACCAAAGGTCG	58.382	52.381	0.00	0.00	37.09	4.79
2066	2141	2.028385	GGACACAGATACCAAAGGTCGT	60.028	50.000	0.00	0.00	37.09	4.34
2076	2151	1.133025	CCAAAGGTCGTCATCCAATGC	59.867	52.381	0.00	0.00	0.00	3.56
2091	2166	8.301720	GTCATCCAATGCAATCATGTATATGTT	58.698	33.333	0.00	0.00	35.73	2.71
2130	2205	9.150348	CAAATTAAAATGTACTTTGATCCACCC	57.850	33.333	0.00	0.00	0.00	4.61
2135	2210	3.248024	TGTACTTTGATCCACCCAGTCT	58.752	45.455	0.00	0.00	0.00	3.24
2151	2226	0.753262	GTCTGTCAGACCACACCAGT	59.247	55.000	20.54	0.00	39.28	4.00
2154	2229	1.598130	GTCAGACCACACCAGTGCC	60.598	63.158	0.00	0.00	44.53	5.01
2167	2242	3.272334	GTGCCGGATCGCATGTCC	61.272	66.667	5.05	0.00	41.70	4.02
2183	2258	3.980646	TGTCCGATCACAACCAAAAAG	57.019	42.857	0.00	0.00	0.00	2.27
2184	2259	3.546724	TGTCCGATCACAACCAAAAAGA	58.453	40.909	0.00	0.00	0.00	2.52
2185	2260	3.563808	TGTCCGATCACAACCAAAAAGAG	59.436	43.478	0.00	0.00	0.00	2.85
2218	2294	4.782019	AAGCTTTTACATGCCGAATTCA	57.218	36.364	6.22	0.00	0.00	2.57
2234	2318	5.048782	CCGAATTCAAAAGAACATCAGTCCA	60.049	40.000	6.22	0.00	0.00	4.02
2242	2326	5.733620	AAGAACATCAGTCCATGCATTTT	57.266	34.783	0.00	0.00	0.00	1.82
2255	2339	0.316841	GCATTTTTGTCCTGCCGGAA	59.683	50.000	5.05	0.00	42.08	4.30
2274	2358	1.079127	CGGCAATCCCAGTCGTCTT	60.079	57.895	0.00	0.00	0.00	3.01
2278	2362	1.740718	GCAATCCCAGTCGTCTTCTCC	60.741	57.143	0.00	0.00	0.00	3.71
2281	2365	1.609501	CCCAGTCGTCTTCTCCCCA	60.610	63.158	0.00	0.00	0.00	4.96

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
234	235	3.389983	AGTGGTGCAAGTACAAGACCTAA	59.610	43.478	0.00	0.00	0.00	2.69
365	366	5.178797	CCGTTCTCATGAAGGACACTAAAT	58.821	41.667	0.00	0.00	39.60	1.40
373	374	2.787473	AATGCCGTTCTCATGAAGGA	57.213	45.000	0.00	0.00	39.60	3.36
384	385	3.874543	TGCAGAACGAATATAATGCCGTT	59.125	39.130	0.00	0.00	46.15	4.44
394	395	1.934589	CCGGACATGCAGAACGAATA	58.065	50.000	0.00	0.00	0.00	1.75
567	568	4.038522	TCTCTTCTCTCACTGTCAACCTTG	59.961	45.833	0.00	0.00	0.00	3.61
613	615	4.173244	TCCCCCTATATTTACTCACCCTGA	59.827	45.833	0.00	0.00	0.00	3.86
900	944	0.751277	TGTGACACTTGTTGCTGGGG	60.751	55.000	7.20	0.00	0.00	4.96
913	957	2.038033	GGTAGTGGCCTTAGTTGTGACA	59.962	50.000	3.32	0.00	0.00	3.58
1037	1081	0.318441	CCTGAGCTTGAACTCCGTCA	59.682	55.000	0.00	0.00	35.72	4.35
1116	1160	2.616458	GGTGGCCCAACCCTGATCT	61.616	63.158	0.00	0.00	37.83	2.75
1221	1265	1.210234	ACGACCTCAATGCCATCATCA	59.790	47.619	0.00	0.00	31.27	3.07
1272	1316	3.399181	CCCTACTCCTTGGCGGCA	61.399	66.667	7.97	7.97	0.00	5.69
1333	1377	6.468956	CAGTTCAACGCATAAACCATAATCAC	59.531	38.462	0.00	0.00	0.00	3.06
1336	1380	6.509418	ACAGTTCAACGCATAAACCATAAT	57.491	33.333	0.00	0.00	0.00	1.28
1668	1733	1.082117	GTTGCCGTGCGCTACAGTAT	61.082	55.000	9.73	0.00	42.09	2.12
1731	1796	1.154672	CAACATTGTGCGTCCGACG	60.155	57.895	16.72	16.72	45.88	5.12
1745	1810	3.311322	CGTTCAGTTTAGTTGCCTCAACA	59.689	43.478	11.63	0.00	45.66	3.33
1755	1820	2.218603	CAACCCTGCGTTCAGTTTAGT	58.781	47.619	0.00	0.00	38.66	2.24
1772	1837	2.161609	CGCCAATTAGGGTCTCAACAAC	59.838	50.000	0.00	0.00	38.09	3.32
1786	1860	3.701542	TGTCTCTCTATCAGTCGCCAATT	59.298	43.478	0.00	0.00	0.00	2.32
1793	1867	7.094508	TCAGAATGTTGTCTCTCTATCAGTC	57.905	40.000	0.00	0.00	37.40	3.51
1799	1873	5.272402	TGGGATCAGAATGTTGTCTCTCTA	58.728	41.667	0.00	0.00	37.40	2.43
1809	1883	2.176148	TGGATGCATGGGATCAGAATGT	59.824	45.455	2.46	0.00	37.40	2.71
1822	1896	3.137728	TCCATGTTCATCTCTGGATGCAT	59.862	43.478	0.00	0.00	46.41	3.96
1830	1904	2.093973	GTCGTGGTCCATGTTCATCTCT	60.094	50.000	10.97	0.00	0.00	3.10
1835	1909	2.158885	TCTTTGTCGTGGTCCATGTTCA	60.159	45.455	10.97	8.85	0.00	3.18
1837	1911	2.616842	GTTCTTTGTCGTGGTCCATGTT	59.383	45.455	10.97	0.00	0.00	2.71
1841	1915	0.176219	ACGTTCTTTGTCGTGGTCCA	59.824	50.000	0.00	0.00	38.85	4.02
1855	1929	7.311408	AGTGTTTTCCTAGATACTACACGTTC	58.689	38.462	0.00	0.00	39.36	3.95
1860	1934	7.555195	TCATCGAGTGTTTTCCTAGATACTACA	59.445	37.037	0.00	0.00	0.00	2.74
1863	1937	7.589958	ATCATCGAGTGTTTTCCTAGATACT	57.410	36.000	0.00	0.00	0.00	2.12
1864	1938	8.350722	TGTATCATCGAGTGTTTTCCTAGATAC	58.649	37.037	0.00	0.00	36.37	2.24
1892	1967	0.863144	GGCACGCGTTTTCTGAAGTA	59.137	50.000	10.22	0.00	0.00	2.24
1948	2023	1.886542	GAAGGGCATGACCGTCTTTTT	59.113	47.619	24.76	6.75	40.62	1.94
1961	2036	0.251354	GAGATGCACAGAGAAGGGCA	59.749	55.000	0.00	0.00	41.00	5.36
1962	2037	0.463474	GGAGATGCACAGAGAAGGGC	60.463	60.000	0.00	0.00	0.00	5.19
1969	2044	2.190538	TGGAGAATGGAGATGCACAGA	58.809	47.619	0.00	0.00	0.00	3.41
1974	2049	1.978454	CCCTTGGAGAATGGAGATGC	58.022	55.000	0.00	0.00	0.00	3.91
1983	2058	1.281419	TACGGATTGCCCTTGGAGAA	58.719	50.000	0.00	0.00	0.00	2.87
1984	2059	1.281419	TTACGGATTGCCCTTGGAGA	58.719	50.000	0.00	0.00	0.00	3.71
1985	2060	2.348411	ATTACGGATTGCCCTTGGAG	57.652	50.000	0.00	0.00	0.00	3.86
1986	2061	2.818751	AATTACGGATTGCCCTTGGA	57.181	45.000	0.00	0.00	0.00	3.53
1987	2062	3.447229	AGAAAATTACGGATTGCCCTTGG	59.553	43.478	0.00	0.00	0.00	3.61
1988	2063	4.440112	GGAGAAAATTACGGATTGCCCTTG	60.440	45.833	0.00	0.00	0.00	3.61
1989	2064	3.699538	GGAGAAAATTACGGATTGCCCTT	59.300	43.478	0.00	0.00	0.00	3.95
1990	2065	3.288092	GGAGAAAATTACGGATTGCCCT	58.712	45.455	0.00	0.00	0.00	5.19
1991	2066	2.361119	GGGAGAAAATTACGGATTGCCC	59.639	50.000	0.00	0.00	0.00	5.36
1997	2072	3.705579	TGGATACGGGAGAAAATTACGGA	59.294	43.478	0.00	0.00	42.51	4.69
2001	2076	7.718272	CGTTTATGGATACGGGAGAAAATTA	57.282	36.000	0.00	0.00	42.51	1.40
2012	2087	3.552273	CCCTCTGTCCGTTTATGGATACG	60.552	52.174	0.00	0.00	40.91	3.06
2014	2089	3.640029	GTCCCTCTGTCCGTTTATGGATA	59.360	47.826	0.00	0.00	40.91	2.59
2019	2094	1.831736	CTGGTCCCTCTGTCCGTTTAT	59.168	52.381	0.00	0.00	0.00	1.40
2021	2096	0.763223	ACTGGTCCCTCTGTCCGTTT	60.763	55.000	0.00	0.00	0.00	3.60
2022	2097	1.152312	ACTGGTCCCTCTGTCCGTT	60.152	57.895	0.00	0.00	0.00	4.44
2023	2098	1.606889	GACTGGTCCCTCTGTCCGT	60.607	63.158	0.00	0.00	31.95	4.69
2027	2102	2.279069	CGCAGACTGGTCCCTCTGT	61.279	63.158	4.26	0.00	36.94	3.41
2028	2103	2.575993	CGCAGACTGGTCCCTCTG	59.424	66.667	4.26	8.69	37.55	3.35
2029	2104	2.681778	CCGCAGACTGGTCCCTCT	60.682	66.667	4.26	0.00	0.00	3.69
2030	2105	2.680352	TCCGCAGACTGGTCCCTC	60.680	66.667	4.26	0.00	0.00	4.30
2031	2106	2.997897	GTCCGCAGACTGGTCCCT	60.998	66.667	4.26	0.00	40.10	4.20
2032	2107	3.311110	TGTCCGCAGACTGGTCCC	61.311	66.667	4.26	0.00	43.91	4.46
2043	2118	1.338769	ACCTTTGGTATCTGTGTCCGC	60.339	52.381	0.00	0.00	32.11	5.54
2044	2119	2.618053	GACCTTTGGTATCTGTGTCCG	58.382	52.381	0.00	0.00	35.25	4.79
2051	2126	3.104512	TGGATGACGACCTTTGGTATCT	58.895	45.455	0.00	0.00	35.25	1.98
2052	2127	3.536956	TGGATGACGACCTTTGGTATC	57.463	47.619	0.00	0.00	35.25	2.24
2055	2130	2.436417	CATTGGATGACGACCTTTGGT	58.564	47.619	0.00	0.00	39.44	3.67
2056	2131	1.133025	GCATTGGATGACGACCTTTGG	59.867	52.381	0.00	0.00	0.00	3.28
2057	2132	1.811965	TGCATTGGATGACGACCTTTG	59.188	47.619	0.00	0.00	0.00	2.77
2058	2133	2.198827	TGCATTGGATGACGACCTTT	57.801	45.000	0.00	0.00	0.00	3.11
2059	2134	2.198827	TTGCATTGGATGACGACCTT	57.801	45.000	0.00	0.00	0.00	3.50
2061	2136	2.016318	TGATTGCATTGGATGACGACC	58.984	47.619	0.00	0.00	0.00	4.79
2063	2138	3.281158	ACATGATTGCATTGGATGACGA	58.719	40.909	0.00	0.00	30.68	4.20
2065	2140	7.823665	ACATATACATGATTGCATTGGATGAC	58.176	34.615	0.00	0.00	35.96	3.06
2066	2141	8.411991	AACATATACATGATTGCATTGGATGA	57.588	30.769	0.00	0.00	35.96	2.92
2104	2179	9.150348	GGGTGGATCAAAGTACATTTTAATTTG	57.850	33.333	0.00	0.00	34.85	2.32
2108	2183	7.007723	ACTGGGTGGATCAAAGTACATTTTAA	58.992	34.615	0.00	0.00	0.00	1.52
2110	2185	5.393866	ACTGGGTGGATCAAAGTACATTTT	58.606	37.500	0.00	0.00	0.00	1.82
2120	2195	1.625315	CTGACAGACTGGGTGGATCAA	59.375	52.381	7.51	0.00	0.00	2.57
2121	2196	1.203174	TCTGACAGACTGGGTGGATCA	60.203	52.381	7.51	0.00	0.00	2.92
2130	2205	0.752658	TGGTGTGGTCTGACAGACTG	59.247	55.000	29.70	0.00	44.46	3.51
2135	2210	1.146041	GCACTGGTGTGGTCTGACA	59.854	57.895	10.38	0.00	43.97	3.58
2167	2242	2.293122	TGCCTCTTTTTGGTTGTGATCG	59.707	45.455	0.00	0.00	0.00	3.69
2168	2243	4.320608	TTGCCTCTTTTTGGTTGTGATC	57.679	40.909	0.00	0.00	0.00	2.92
2197	2273	4.782019	TGAATTCGGCATGTAAAAGCTT	57.218	36.364	0.04	0.00	0.00	3.74
2218	2294	5.733620	AATGCATGGACTGATGTTCTTTT	57.266	34.783	0.00	0.00	0.00	2.27
2234	2318	0.247185	CCGGCAGGACAAAAATGCAT	59.753	50.000	0.00	0.00	41.78	3.96
2255	2339	1.827399	AAGACGACTGGGATTGCCGT	61.827	55.000	0.00	0.00	36.08	5.68

Based at the University of Bristol with support from BBSRC.

AutoCloner maintained by Alex Coulton.