AutoCloner

Multiple sequence alignment - TraesCS7D01G239200

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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	TraesCS7D01G239200	chr7D	100.000	2857	0	0	1	2857	203949409	203946553	0.000000e+00	5276
1	TraesCS7D01G239200	chr7B	92.031	1945	61	33	275	2192	167576576	167574699	0.000000e+00	2647
2	TraesCS7D01G239200	chr7B	88.180	533	56	7	2329	2857	540776975	540776446	1.870000e-176	628
3	TraesCS7D01G239200	chr7B	87.805	533	53	12	2329	2857	544409433	544408909	5.230000e-172	614
4	TraesCS7D01G239200	chr7B	97.191	178	3	2	108	284	167577559	167577383	1.660000e-77	300
5	TraesCS7D01G239200	chr7B	94.595	148	5	2	2175	2322	167574559	167574415	2.860000e-55	226
6	TraesCS7D01G239200	chr7A	89.520	2042	87	51	346	2322	215547827	215545848	0.000000e+00	2468
7	TraesCS7D01G239200	chr7A	85.042	361	21	19	1	345	215548537	215548194	1.270000e-88	337
8	TraesCS7D01G239200	chr4A	91.269	607	52	1	1284	1890	710394077	710394682	0.000000e+00	826
9	TraesCS7D01G239200	chr4A	93.714	175	8	1	996	1170	710393737	710393908	2.820000e-65	259
10	TraesCS7D01G239200	chr2D	89.831	531	51	3	2329	2857	372702496	372703025	0.000000e+00	678
11	TraesCS7D01G239200	chr2D	89.266	531	54	3	2329	2857	190600337	190599808	0.000000e+00	662
12	TraesCS7D01G239200	chr6D	88.719	523	55	4	2329	2848	287031211	287031732	1.120000e-178	636
13	TraesCS7D01G239200	chr2B	88.324	531	60	2	2329	2857	745043144	745042614	1.120000e-178	636
14	TraesCS7D01G239200	chr4D	88.411	535	51	10	2329	2857	67272725	67273254	4.020000e-178	634
15	TraesCS7D01G239200	chr5B	87.970	532	60	4	2329	2857	508816301	508816831	2.420000e-175	625
16	TraesCS7D01G239200	chr1B	87.571	531	62	3	2329	2857	119294333	119293805	1.880000e-171	612
17	TraesCS7D01G239200	chr1B	82.989	435	62	11	1281	1706	29492572	29492141	1.610000e-102	383
18	TraesCS7D01G239200	chr1B	82.135	431	66	9	1278	1706	10415918	10416339	2.710000e-95	359
19	TraesCS7D01G239200	chr1B	80.825	412	67	10	1281	1683	10782276	10781868	2.140000e-81	313
20	TraesCS7D01G239200	chr1D	83.173	416	63	7	1293	1706	8260307	8260717	9.670000e-100	374

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	TraesCS7D01G239200	chr7D	203946553	203949409	2856	True	5276.000000	5276	100.000000	1	2857	1	chr7D.!!$R1	2856
1	TraesCS7D01G239200	chr7B	167574415	167577559	3144	True	1057.666667	2647	94.605667	108	2322	3	chr7B.!!$R3	2214
2	TraesCS7D01G239200	chr7B	540776446	540776975	529	True	628.000000	628	88.180000	2329	2857	1	chr7B.!!$R1	528
3	TraesCS7D01G239200	chr7B	544408909	544409433	524	True	614.000000	614	87.805000	2329	2857	1	chr7B.!!$R2	528
4	TraesCS7D01G239200	chr7A	215545848	215548537	2689	True	1402.500000	2468	87.281000	1	2322	2	chr7A.!!$R1	2321
5	TraesCS7D01G239200	chr4A	710393737	710394682	945	False	542.500000	826	92.491500	996	1890	2	chr4A.!!$F1	894
6	TraesCS7D01G239200	chr2D	372702496	372703025	529	False	678.000000	678	89.831000	2329	2857	1	chr2D.!!$F1	528
7	TraesCS7D01G239200	chr2D	190599808	190600337	529	True	662.000000	662	89.266000	2329	2857	1	chr2D.!!$R1	528
8	TraesCS7D01G239200	chr6D	287031211	287031732	521	False	636.000000	636	88.719000	2329	2848	1	chr6D.!!$F1	519
9	TraesCS7D01G239200	chr2B	745042614	745043144	530	True	636.000000	636	88.324000	2329	2857	1	chr2B.!!$R1	528
10	TraesCS7D01G239200	chr4D	67272725	67273254	529	False	634.000000	634	88.411000	2329	2857	1	chr4D.!!$F1	528
11	TraesCS7D01G239200	chr5B	508816301	508816831	530	False	625.000000	625	87.970000	2329	2857	1	chr5B.!!$F1	528
12	TraesCS7D01G239200	chr1B	119293805	119294333	528	True	612.000000	612	87.571000	2329	2857	1	chr1B.!!$R3	528

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
183	187	0.034896	AAACGGGCGATCAGTTCTGT	59.965	50.0	0.0	0.0	32.75	3.41	F
756	2013	0.107654	GGCCTAGCACGATTGGAGTT	60.108	55.0	0.0	0.0	0.00	3.01	F

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability	Orientation
1092	2369	0.528924	CGGTGGTGTCGAGGATGTAA	59.471	55.0	0.0	0.0	0.0	2.41	R
2324	3826	0.107214	TGAGGGGACGGATTTGATGC	60.107	55.0	0.0	0.0	0.0	3.91	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
19	20	1.240256	AATGCCGTGCCGTTAAGAAA	58.760	45.000	0.00	0.00	0.00	2.52
30	31	2.882137	CCGTTAAGAAAACAAGAGCCCA	59.118	45.455	0.00	0.00	0.00	5.36
53	57	0.533978	TAGCAGTTGGTCAAAGCGCA	60.534	50.000	11.47	0.00	0.00	6.09
103	107	0.452585	GAACTTCCCGTCCTCTCTCG	59.547	60.000	0.00	0.00	0.00	4.04
104	108	1.596895	AACTTCCCGTCCTCTCTCGC	61.597	60.000	0.00	0.00	0.00	5.03
105	109	1.751162	CTTCCCGTCCTCTCTCGCT	60.751	63.158	0.00	0.00	0.00	4.93
106	110	1.304217	TTCCCGTCCTCTCTCGCTT	60.304	57.895	0.00	0.00	0.00	4.68
115	119	0.720590	CTCTCTCGCTTGCTTGCTTC	59.279	55.000	0.00	0.00	0.00	3.86
177	181	1.741401	TGCAGAAACGGGCGATCAG	60.741	57.895	0.00	0.00	0.00	2.90
178	182	1.741770	GCAGAAACGGGCGATCAGT	60.742	57.895	0.00	0.00	0.00	3.41
179	183	1.298859	GCAGAAACGGGCGATCAGTT	61.299	55.000	0.00	0.00	35.34	3.16
180	184	0.721718	CAGAAACGGGCGATCAGTTC	59.278	55.000	0.00	0.00	32.75	3.01
181	185	0.608640	AGAAACGGGCGATCAGTTCT	59.391	50.000	0.00	0.00	32.75	3.01
182	186	0.721718	GAAACGGGCGATCAGTTCTG	59.278	55.000	0.00	0.00	32.75	3.02
183	187	0.034896	AAACGGGCGATCAGTTCTGT	59.965	50.000	0.00	0.00	32.75	3.41
184	188	0.034896	AACGGGCGATCAGTTCTGTT	59.965	50.000	0.00	0.00	0.00	3.16
185	189	0.389948	ACGGGCGATCAGTTCTGTTC	60.390	55.000	0.00	0.96	0.00	3.18
186	190	1.084370	CGGGCGATCAGTTCTGTTCC	61.084	60.000	0.00	0.00	0.00	3.62
187	191	1.084370	GGGCGATCAGTTCTGTTCCG	61.084	60.000	0.00	4.02	0.00	4.30
188	192	1.696832	GGCGATCAGTTCTGTTCCGC	61.697	60.000	18.65	18.65	40.33	5.54
194	198	0.514691	CAGTTCTGTTCCGCTTCTGC	59.485	55.000	0.00	0.00	0.00	4.26
195	199	0.603975	AGTTCTGTTCCGCTTCTGCC	60.604	55.000	0.00	0.00	35.36	4.85
294	1129	1.308047	TGCTTTTCGCTCAAGCTCAA	58.692	45.000	12.42	0.00	45.90	3.02
296	1131	1.942585	CTTTTCGCTCAAGCTCAACG	58.057	50.000	0.00	0.00	39.32	4.10
299	1134	0.859232	TTCGCTCAAGCTCAACGAAC	59.141	50.000	9.02	0.00	37.78	3.95
338	1191	1.001120	TACTGCTCCGGTGGATGGA	59.999	57.895	0.00	0.00	0.00	3.41
353	1572	2.680352	GGAGAGGGGCTCGTGACA	60.680	66.667	0.00	0.00	44.91	3.58
418	1649	3.559238	TGATCGGAAAAGAAAAGCAGC	57.441	42.857	0.00	0.00	0.00	5.25
419	1650	2.884012	TGATCGGAAAAGAAAAGCAGCA	59.116	40.909	0.00	0.00	0.00	4.41
420	1651	2.774439	TCGGAAAAGAAAAGCAGCAC	57.226	45.000	0.00	0.00	0.00	4.40
421	1652	1.002900	TCGGAAAAGAAAAGCAGCACG	60.003	47.619	0.00	0.00	0.00	5.34
422	1653	1.268539	CGGAAAAGAAAAGCAGCACGT	60.269	47.619	0.00	0.00	0.00	4.49
423	1654	2.385315	GGAAAAGAAAAGCAGCACGTC	58.615	47.619	0.00	0.00	0.00	4.34
471	1702	0.243636	GATTTTCCACCAACCGCCAG	59.756	55.000	0.00	0.00	0.00	4.85
472	1703	1.815817	ATTTTCCACCAACCGCCAGC	61.816	55.000	0.00	0.00	0.00	4.85
473	1704	4.966787	TTCCACCAACCGCCAGCC	62.967	66.667	0.00	0.00	0.00	4.85
660	1917	7.307493	TCTACTCAAAATCAAATCCACGATG	57.693	36.000	0.00	0.00	0.00	3.84
755	2012	1.264749	TGGCCTAGCACGATTGGAGT	61.265	55.000	3.32	0.00	0.00	3.85
756	2013	0.107654	GGCCTAGCACGATTGGAGTT	60.108	55.000	0.00	0.00	0.00	3.01
758	2015	1.656652	CCTAGCACGATTGGAGTTGG	58.343	55.000	0.00	0.00	0.00	3.77
759	2016	1.207089	CCTAGCACGATTGGAGTTGGA	59.793	52.381	0.00	0.00	0.00	3.53
763	2020	0.392998	CACGATTGGAGTTGGAGGGG	60.393	60.000	0.00	0.00	0.00	4.79
764	2021	1.452108	CGATTGGAGTTGGAGGGGC	60.452	63.158	0.00	0.00	0.00	5.80
825	2087	8.599055	AAAAACTACTACTACCACAAAGCTAC	57.401	34.615	0.00	0.00	0.00	3.58
844	2107	1.204941	ACTAGTGTCGATGGTGCTTCC	59.795	52.381	0.00	0.00	0.00	3.46
944	2219	2.642139	TACACTCGATCGAACCAACC	57.358	50.000	19.92	0.00	0.00	3.77
957	2232	2.361085	ACCAACCCATTCCTCCTACT	57.639	50.000	0.00	0.00	0.00	2.57
968	2245	0.395311	CCTCCTACTACCTCGGCACA	60.395	60.000	0.00	0.00	0.00	4.57
980	2257	2.421314	GGCACAACCAGCCCAAAC	59.579	61.111	0.00	0.00	46.50	2.93
981	2258	2.430610	GGCACAACCAGCCCAAACA	61.431	57.895	0.00	0.00	46.50	2.83
982	2259	1.067916	GCACAACCAGCCCAAACAG	59.932	57.895	0.00	0.00	0.00	3.16
983	2260	1.391157	GCACAACCAGCCCAAACAGA	61.391	55.000	0.00	0.00	0.00	3.41
984	2261	1.110442	CACAACCAGCCCAAACAGAA	58.890	50.000	0.00	0.00	0.00	3.02
985	2262	1.111277	ACAACCAGCCCAAACAGAAC	58.889	50.000	0.00	0.00	0.00	3.01
986	2263	1.341976	ACAACCAGCCCAAACAGAACT	60.342	47.619	0.00	0.00	0.00	3.01
987	2264	2.092103	ACAACCAGCCCAAACAGAACTA	60.092	45.455	0.00	0.00	0.00	2.24
988	2265	2.554032	CAACCAGCCCAAACAGAACTAG	59.446	50.000	0.00	0.00	0.00	2.57
989	2266	1.168714	CCAGCCCAAACAGAACTAGC	58.831	55.000	0.00	0.00	0.00	3.42
990	2267	0.798776	CAGCCCAAACAGAACTAGCG	59.201	55.000	0.00	0.00	0.00	4.26
1092	2369	2.361357	AGCGACGCCCTCTACACT	60.361	61.111	17.79	0.00	0.00	3.55
1184	2461	4.540735	CCCATGGTACGTCCGCCC	62.541	72.222	11.73	0.00	39.52	6.13
1185	2462	4.884257	CCATGGTACGTCCGCCCG	62.884	72.222	2.57	0.00	39.52	6.13
1216	2524	0.866427	CTCTGCATGCACGATCCATC	59.134	55.000	18.46	0.00	0.00	3.51
1247	2565	5.997732	TCGTTGTTACTACTCGTTATTGC	57.002	39.130	0.00	0.00	0.00	3.56
1279	2613	3.448660	TCGATCTGGCTCTGATTCTTTGA	59.551	43.478	0.00	0.00	0.00	2.69
1472	2806	2.341101	CGAGTGCTACGAGGTGGGT	61.341	63.158	0.00	0.00	0.00	4.51
1688	3022	2.257974	TCATCTACGACAACACGCTC	57.742	50.000	0.00	0.00	36.70	5.03
2088	3430	2.365941	GGGAGGAGTGGCTGTACTTATC	59.634	54.545	0.00	0.00	0.00	1.75
2095	3437	5.450688	GGAGTGGCTGTACTTATCTACTGTG	60.451	48.000	0.00	0.00	0.00	3.66
2100	3442	7.013464	GTGGCTGTACTTATCTACTGTGACTAT	59.987	40.741	0.00	0.00	0.00	2.12
2101	3443	8.215736	TGGCTGTACTTATCTACTGTGACTATA	58.784	37.037	0.00	0.00	0.00	1.31
2102	3444	8.505625	GGCTGTACTTATCTACTGTGACTATAC	58.494	40.741	0.00	0.00	0.00	1.47
2178	3523	3.752665	TGTCACCCGCCTAATTGTTAAA	58.247	40.909	0.00	0.00	0.00	1.52
2304	3806	1.546476	GGACACCGAGTTGTCTGATCT	59.454	52.381	10.40	0.00	44.63	2.75
2322	3824	9.509855	GTCTGATCTATGTTGTACTCTGTTAAG	57.490	37.037	0.00	0.00	0.00	1.85
2323	3825	9.462606	TCTGATCTATGTTGTACTCTGTTAAGA	57.537	33.333	0.00	0.00	0.00	2.10
2336	3838	4.832248	TCTGTTAAGAGCATCAAATCCGT	58.168	39.130	0.00	0.00	37.82	4.69
2405	3910	4.466015	ACCGGGTATTTCTCAAAAATGCAT	59.534	37.500	6.32	0.00	0.00	3.96
2407	3912	5.874261	CCGGGTATTTCTCAAAAATGCATTT	59.126	36.000	18.99	18.99	0.00	2.32
2550	4055	6.206243	CCAAAATTTGGCATGTTTGGTTATGA	59.794	34.615	20.57	0.00	45.17	2.15
2552	4057	7.614124	AAATTTGGCATGTTTGGTTATGATC	57.386	32.000	0.00	0.00	0.00	2.92
2567	4072	1.182667	TGATCGAGTTCATCCACGGT	58.817	50.000	0.00	0.00	0.00	4.83
2742	4247	2.496341	CGCCCGATTCTGCTCTCA	59.504	61.111	0.00	0.00	0.00	3.27
2790	4295	2.352617	GCCATTTCTTCACAATGCGGAA	60.353	45.455	0.00	0.00	31.26	4.30
2791	4296	3.860378	GCCATTTCTTCACAATGCGGAAA	60.860	43.478	0.00	0.00	31.26	3.13

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
16	17	3.696051	TGCTATGATGGGCTCTTGTTTTC	59.304	43.478	0.00	0.00	0.00	2.29
19	20	2.240667	ACTGCTATGATGGGCTCTTGTT	59.759	45.455	0.00	0.00	0.00	2.83
30	31	2.679837	CGCTTTGACCAACTGCTATGAT	59.320	45.455	0.00	0.00	0.00	2.45
103	107	0.942884	GCACAAGGAAGCAAGCAAGC	60.943	55.000	0.00	0.00	0.00	4.01
104	108	0.386476	TGCACAAGGAAGCAAGCAAG	59.614	50.000	0.00	0.00	37.90	4.01
105	109	0.102844	GTGCACAAGGAAGCAAGCAA	59.897	50.000	13.17	0.00	43.20	3.91
106	110	1.735360	GTGCACAAGGAAGCAAGCA	59.265	52.632	13.17	0.00	43.20	3.91
115	119	2.279851	TCCGTCACGTGCACAAGG	60.280	61.111	18.64	9.43	0.00	3.61
147	151	1.651631	GTTTCTGCACGCAACGTTTTT	59.348	42.857	0.00	0.00	38.32	1.94
177	181	1.578206	GGGCAGAAGCGGAACAGAAC	61.578	60.000	0.00	0.00	43.41	3.01
178	182	1.302511	GGGCAGAAGCGGAACAGAA	60.303	57.895	0.00	0.00	43.41	3.02
179	183	2.347490	GGGCAGAAGCGGAACAGA	59.653	61.111	0.00	0.00	43.41	3.41
180	184	2.747855	GGGGCAGAAGCGGAACAG	60.748	66.667	0.00	0.00	43.41	3.16
181	185	4.697756	CGGGGCAGAAGCGGAACA	62.698	66.667	0.00	0.00	43.41	3.18
182	186	4.388499	TCGGGGCAGAAGCGGAAC	62.388	66.667	0.00	0.00	43.41	3.62
183	187	4.082523	CTCGGGGCAGAAGCGGAA	62.083	66.667	0.00	0.00	43.41	4.30
194	198	3.282157	CAATGATGCGCCTCGGGG	61.282	66.667	4.18	0.00	0.00	5.73
195	199	3.957535	GCAATGATGCGCCTCGGG	61.958	66.667	4.18	0.00	43.83	5.14
338	1191	1.608717	GATGTGTCACGAGCCCCTCT	61.609	60.000	0.00	0.00	0.00	3.69
353	1572	5.461327	AGGAATTGATTATTGGGCAGATGT	58.539	37.500	0.00	0.00	0.00	3.06
396	1621	4.022068	TGCTGCTTTTCTTTTCCGATCAAT	60.022	37.500	0.00	0.00	0.00	2.57
418	1649	2.051345	GCTTTTGGCGTGGACGTG	60.051	61.111	0.00	0.00	42.22	4.49
476	1707	4.851179	GTTCGGTGATCGGCCCCC	62.851	72.222	0.00	0.00	39.77	5.40
477	1708	3.782443	AGTTCGGTGATCGGCCCC	61.782	66.667	0.00	0.00	39.77	5.80
481	1712	1.078759	GCTGTCAGTTCGGTGATCGG	61.079	60.000	0.93	0.00	39.77	4.18
482	1713	1.078759	GGCTGTCAGTTCGGTGATCG	61.079	60.000	0.93	0.00	40.90	3.69
603	1860	0.098200	GCGTCCCGGTTTTCTATTGC	59.902	55.000	0.00	0.00	0.00	3.56
660	1917	3.200593	CTGCTCCGCTGTGCATCC	61.201	66.667	5.32	0.00	39.97	3.51
739	1996	1.207089	TCCAACTCCAATCGTGCTAGG	59.793	52.381	0.00	0.00	0.00	3.02
764	2021	2.742710	TTCTTCGTCTGGCGTGTCGG	62.743	60.000	0.09	0.00	42.13	4.79
810	2067	4.082895	CGACACTAGTAGCTTTGTGGTAGT	60.083	45.833	0.00	0.00	36.41	2.73
825	2087	1.471676	GGGAAGCACCATCGACACTAG	60.472	57.143	0.00	0.00	41.20	2.57
944	2219	2.240279	CCGAGGTAGTAGGAGGAATGG	58.760	57.143	0.00	0.00	0.00	3.16
957	2232	2.345991	GCTGGTTGTGCCGAGGTA	59.654	61.111	0.00	0.00	41.21	3.08
968	2245	2.863809	CTAGTTCTGTTTGGGCTGGTT	58.136	47.619	0.00	0.00	0.00	3.67
978	2255	1.403514	GCTCTGCTCGCTAGTTCTGTT	60.404	52.381	0.00	0.00	0.00	3.16
979	2256	0.172352	GCTCTGCTCGCTAGTTCTGT	59.828	55.000	0.00	0.00	0.00	3.41
980	2257	0.527385	GGCTCTGCTCGCTAGTTCTG	60.527	60.000	0.00	0.00	0.00	3.02
981	2258	0.967887	TGGCTCTGCTCGCTAGTTCT	60.968	55.000	0.00	0.00	0.00	3.01
982	2259	0.103937	ATGGCTCTGCTCGCTAGTTC	59.896	55.000	0.00	0.00	0.00	3.01
983	2260	0.179089	CATGGCTCTGCTCGCTAGTT	60.179	55.000	0.00	0.00	0.00	2.24
984	2261	1.440893	CATGGCTCTGCTCGCTAGT	59.559	57.895	0.00	0.00	0.00	2.57
985	2262	1.300775	CCATGGCTCTGCTCGCTAG	60.301	63.158	0.00	0.00	0.00	3.42
986	2263	2.817424	CCATGGCTCTGCTCGCTA	59.183	61.111	0.00	0.00	0.00	4.26
987	2264	4.853050	GCCATGGCTCTGCTCGCT	62.853	66.667	29.98	0.00	38.26	4.93
1092	2369	0.528924	CGGTGGTGTCGAGGATGTAA	59.471	55.000	0.00	0.00	0.00	2.41
1184	2461	2.732412	TGCAGAGGAAGAAGAAGACG	57.268	50.000	0.00	0.00	0.00	4.18
1185	2462	2.677337	GCATGCAGAGGAAGAAGAAGAC	59.323	50.000	14.21	0.00	0.00	3.01
1247	2565	1.493950	GCCAGATCGATCAGCAACCG	61.494	60.000	26.47	7.33	0.00	4.44
1279	2613	1.640670	ACTGCATGTAACCCCTGGATT	59.359	47.619	0.00	0.00	0.00	3.01
1472	2806	1.816537	CTTCTCGATGAAGGGGCGA	59.183	57.895	13.60	0.00	46.25	5.54
1667	3001	3.626217	AGAGCGTGTTGTCGTAGATGATA	59.374	43.478	0.00	0.00	40.67	2.15
1721	3055	2.758327	TCGAGGTCGGACATGGGG	60.758	66.667	10.76	0.00	40.29	4.96
1829	3163	4.457496	CGGCGGCAGATGGTGACT	62.457	66.667	10.53	0.00	27.93	3.41
1998	3340	2.584261	ATCAGATGCTTCACGGCGCT	62.584	55.000	6.90	0.00	34.52	5.92
1999	3341	2.176273	ATCAGATGCTTCACGGCGC	61.176	57.895	6.90	0.00	34.52	6.53
2000	3342	1.640069	CATCAGATGCTTCACGGCG	59.360	57.895	4.80	4.80	34.52	6.46
2100	3442	8.953313	CACATCGGAACACCATATATAGTAGTA	58.047	37.037	0.00	0.00	0.00	1.82
2101	3443	7.577046	GCACATCGGAACACCATATATAGTAGT	60.577	40.741	0.00	0.00	0.00	2.73
2102	3444	6.752351	GCACATCGGAACACCATATATAGTAG	59.248	42.308	0.00	0.00	0.00	2.57
2196	3698	5.305585	GTGTCTCACCATCTCACCTTAAAA	58.694	41.667	0.00	0.00	0.00	1.52
2202	3704	0.737715	GCGTGTCTCACCATCTCACC	60.738	60.000	0.00	0.00	0.00	4.02
2223	3725	1.376683	TGCGTTACAGCACATCCCC	60.377	57.895	0.00	0.00	42.92	4.81
2224	3726	4.294523	TGCGTTACAGCACATCCC	57.705	55.556	0.00	0.00	42.92	3.85
2254	3756	6.128729	GCTGCATGTTTGTTTAAATCAACAC	58.871	36.000	14.18	10.44	36.36	3.32
2322	3824	0.181350	AGGGGACGGATTTGATGCTC	59.819	55.000	0.00	0.00	0.00	4.26
2323	3825	0.181350	GAGGGGACGGATTTGATGCT	59.819	55.000	0.00	0.00	0.00	3.79
2324	3826	0.107214	TGAGGGGACGGATTTGATGC	60.107	55.000	0.00	0.00	0.00	3.91
2325	3827	2.418368	TTGAGGGGACGGATTTGATG	57.582	50.000	0.00	0.00	0.00	3.07
2326	3828	2.723273	GTTTGAGGGGACGGATTTGAT	58.277	47.619	0.00	0.00	0.00	2.57
2327	3829	1.609580	CGTTTGAGGGGACGGATTTGA	60.610	52.381	0.00	0.00	35.74	2.69
2368	3871	3.524606	CGGTCAGTACCCGCGGAT	61.525	66.667	30.73	14.28	43.54	4.18
2377	3881	5.486735	TTTTGAGAAATACCCGGTCAGTA	57.513	39.130	0.00	0.00	0.00	2.74
2390	3894	7.307278	CCGAATGTGAAATGCATTTTTGAGAAA	60.307	33.333	24.81	8.25	36.77	2.52
2405	3910	2.920724	TGAGGTGTCCGAATGTGAAA	57.079	45.000	0.00	0.00	0.00	2.69
2407	3912	3.417069	AATTGAGGTGTCCGAATGTGA	57.583	42.857	0.00	0.00	0.00	3.58
2413	3918	7.002276	TGAGATATAGTAATTGAGGTGTCCGA	58.998	38.462	0.00	0.00	0.00	4.55
2545	4050	3.383505	ACCGTGGATGAACTCGATCATAA	59.616	43.478	1.54	0.00	40.08	1.90
2550	4055	2.007049	GCAACCGTGGATGAACTCGAT	61.007	52.381	0.00	0.00	0.00	3.59
2552	4057	1.635663	GGCAACCGTGGATGAACTCG	61.636	60.000	0.00	0.00	0.00	4.18
2567	4072	2.034066	CGAGAAGGGCAAGGGCAA	59.966	61.111	0.00	0.00	43.71	4.52
2672	4177	2.750637	GGAGGAGGACAGCGACGA	60.751	66.667	0.00	0.00	0.00	4.20

Based at the University of Bristol with support from BBSRC.

AutoCloner maintained by Alex Coulton.