AutoCloner

Multiple sequence alignment - TraesCS6D01G185400

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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	TraesCS6D01G185400	chr6D	100.000	2444	0	0	1	2444	238802219	238804662	0.000000e+00	4514
1	TraesCS6D01G185400	chr6B	89.933	2096	174	25	355	2430	105723844	105725922	0.000000e+00	2667
2	TraesCS6D01G185400	chr6B	91.460	363	31	0	1	363	105723661	105724023	1.300000e-137	499
3	TraesCS6D01G185400	chr4B	86.942	2106	228	33	352	2433	485380276	485382358	0.000000e+00	2322
4	TraesCS6D01G185400	chr4B	86.074	2104	237	38	355	2433	165971223	165969151	0.000000e+00	2211
5	TraesCS6D01G185400	chr7B	86.435	2101	228	35	360	2433	518289576	518287506	0.000000e+00	2248
6	TraesCS6D01G185400	chr7B	86.292	2101	231	35	360	2433	518305585	518303515	0.000000e+00	2231
7	TraesCS6D01G185400	chr7B	93.388	363	24	0	1	363	476087715	476087353	2.770000e-149	538
8	TraesCS6D01G185400	chr3B	87.313	2002	194	37	352	2314	286885020	286883040	0.000000e+00	2235
9	TraesCS6D01G185400	chr3B	93.388	363	24	0	1	363	40495385	40495747	2.770000e-149	538
10	TraesCS6D01G185400	chr3B	92.562	363	27	0	1	363	115675502	115675140	2.780000e-144	521
11	TraesCS6D01G185400	chr3A	85.394	2095	259	33	360	2433	46666435	46664367	0.000000e+00	2130
12	TraesCS6D01G185400	chr7A	85.033	2118	266	33	355	2444	582571938	582574032	0.000000e+00	2108
13	TraesCS6D01G185400	chr5D	85.933	1962	225	29	355	2296	518099187	518097257	0.000000e+00	2047
14	TraesCS6D01G185400	chr3D	87.024	1233	121	27	1229	2444	197126149	197124939	0.000000e+00	1354
15	TraesCS6D01G185400	chr2B	91.995	887	57	8	360	1236	298276317	298277199	0.000000e+00	1232
16	TraesCS6D01G185400	chr2B	93.646	362	23	0	2	363	298276130	298276491	2.140000e-150	542
17	TraesCS6D01G185400	chr2B	92.837	363	26	0	1	363	279189253	279188891	5.990000e-146	527
18	TraesCS6D01G185400	chr2D	90.346	549	44	8	1781	2323	279510470	279509925	0.000000e+00	712
19	TraesCS6D01G185400	chr1B	93.824	340	21	0	1	340	556072666	556072327	1.680000e-141	512
20	TraesCS6D01G185400	chrUn	92.011	363	29	0	1	363	79019891	79019529	6.030000e-141	510
21	TraesCS6D01G185400	chrUn	91.185	363	32	0	1	363	41661273	41661635	6.070000e-136	494

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	TraesCS6D01G185400	chr6D	238802219	238804662	2443	False	4514	4514	100.0000	1	2444	1	chr6D.!!$F1	2443
1	TraesCS6D01G185400	chr6B	105723661	105725922	2261	False	1583	2667	90.6965	1	2430	2	chr6B.!!$F1	2429
2	TraesCS6D01G185400	chr4B	485380276	485382358	2082	False	2322	2322	86.9420	352	2433	1	chr4B.!!$F1	2081
3	TraesCS6D01G185400	chr4B	165969151	165971223	2072	True	2211	2211	86.0740	355	2433	1	chr4B.!!$R1	2078
4	TraesCS6D01G185400	chr7B	518287506	518289576	2070	True	2248	2248	86.4350	360	2433	1	chr7B.!!$R2	2073
5	TraesCS6D01G185400	chr7B	518303515	518305585	2070	True	2231	2231	86.2920	360	2433	1	chr7B.!!$R3	2073
6	TraesCS6D01G185400	chr3B	286883040	286885020	1980	True	2235	2235	87.3130	352	2314	1	chr3B.!!$R2	1962
7	TraesCS6D01G185400	chr3A	46664367	46666435	2068	True	2130	2130	85.3940	360	2433	1	chr3A.!!$R1	2073
8	TraesCS6D01G185400	chr7A	582571938	582574032	2094	False	2108	2108	85.0330	355	2444	1	chr7A.!!$F1	2089
9	TraesCS6D01G185400	chr5D	518097257	518099187	1930	True	2047	2047	85.9330	355	2296	1	chr5D.!!$R1	1941
10	TraesCS6D01G185400	chr3D	197124939	197126149	1210	True	1354	1354	87.0240	1229	2444	1	chr3D.!!$R1	1215
11	TraesCS6D01G185400	chr2B	298276130	298277199	1069	False	887	1232	92.8205	2	1236	2	chr2B.!!$F1	1234
12	TraesCS6D01G185400	chr2D	279509925	279510470	545	True	712	712	90.3460	1781	2323	1	chr2D.!!$R1	542

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
316	317	0.17904	TGGTCCTCCGTTTGGTCAAC	60.179	55.0	0.0	0.0	36.3	3.18	F

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability	Orientation
1481	1503	0.322975	CTTCCCTATCCTCATGCCGG	59.677	60.0	0.0	0.0	0.0	6.13	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
44	45	0.240145	TGTCAGCGTGGTTACTCTCG	59.760	55.000	0.00	0.00	0.00	4.04
72	73	4.312443	CAGATTGTTTTGGCATGAGCTTT	58.688	39.130	0.00	0.00	41.70	3.51
123	124	1.077930	CTCACATGGGTGGCCTGAG	60.078	63.158	3.32	2.46	45.32	3.35
140	141	4.708177	CCTGAGAACCCGAATATGTCATT	58.292	43.478	0.00	0.00	0.00	2.57
164	165	2.290577	GGAGCAACAACCCTGAGATCTT	60.291	50.000	0.00	0.00	0.00	2.40
168	169	4.225942	AGCAACAACCCTGAGATCTTATCA	59.774	41.667	0.00	0.00	0.00	2.15
264	265	7.698506	TTATTCACCTCCTACTCATATACCG	57.301	40.000	0.00	0.00	0.00	4.02
305	306	3.954258	CCAATGGAGTTAAATGGTCCTCC	59.046	47.826	0.00	0.00	43.13	4.30
306	307	3.560636	ATGGAGTTAAATGGTCCTCCG	57.439	47.619	0.00	0.00	45.27	4.63
307	308	2.262637	TGGAGTTAAATGGTCCTCCGT	58.737	47.619	0.00	0.00	45.27	4.69
308	309	2.640826	TGGAGTTAAATGGTCCTCCGTT	59.359	45.455	0.00	0.00	45.27	4.44
309	310	5.750827	AATGGAGTTAAATGGTCCTCCGTTT	60.751	40.000	8.49	9.02	46.27	3.60
310	311	7.745425	AATGGAGTTAAATGGTCCTCCGTTTG	61.745	42.308	12.82	0.00	46.27	2.93
313	314	3.644861	AATGGTCCTCCGTTTGGTC	57.355	52.632	0.00	0.00	39.68	4.02
314	315	0.768622	AATGGTCCTCCGTTTGGTCA	59.231	50.000	0.00	0.00	39.68	4.02
315	316	0.768622	ATGGTCCTCCGTTTGGTCAA	59.231	50.000	0.00	0.00	36.30	3.18
316	317	0.179040	TGGTCCTCCGTTTGGTCAAC	60.179	55.000	0.00	0.00	36.30	3.18
317	318	0.887836	GGTCCTCCGTTTGGTCAACC	60.888	60.000	0.00	0.00	36.30	3.77
318	319	0.179040	GTCCTCCGTTTGGTCAACCA	60.179	55.000	0.00	0.00	45.94	3.67
329	330	1.748493	TGGTCAACCAACAACTTCAGC	59.252	47.619	0.00	0.00	44.35	4.26
330	331	1.748493	GGTCAACCAACAACTTCAGCA	59.252	47.619	0.00	0.00	35.64	4.41
331	332	2.479560	GGTCAACCAACAACTTCAGCAC	60.480	50.000	0.00	0.00	35.64	4.40
332	333	1.748493	TCAACCAACAACTTCAGCACC	59.252	47.619	0.00	0.00	0.00	5.01
333	334	1.750778	CAACCAACAACTTCAGCACCT	59.249	47.619	0.00	0.00	0.00	4.00
334	335	2.948979	CAACCAACAACTTCAGCACCTA	59.051	45.455	0.00	0.00	0.00	3.08
335	336	3.290948	ACCAACAACTTCAGCACCTAA	57.709	42.857	0.00	0.00	0.00	2.69
336	337	3.832527	ACCAACAACTTCAGCACCTAAT	58.167	40.909	0.00	0.00	0.00	1.73
337	338	3.569701	ACCAACAACTTCAGCACCTAATG	59.430	43.478	0.00	0.00	0.00	1.90
338	339	3.820467	CCAACAACTTCAGCACCTAATGA	59.180	43.478	0.00	0.00	0.00	2.57
339	340	4.083110	CCAACAACTTCAGCACCTAATGAG	60.083	45.833	0.00	0.00	0.00	2.90
340	341	4.357918	ACAACTTCAGCACCTAATGAGT	57.642	40.909	0.00	0.00	0.00	3.41
341	342	4.319177	ACAACTTCAGCACCTAATGAGTC	58.681	43.478	0.00	0.00	0.00	3.36
342	343	3.238108	ACTTCAGCACCTAATGAGTCG	57.762	47.619	0.00	0.00	0.00	4.18
343	344	2.093973	ACTTCAGCACCTAATGAGTCGG	60.094	50.000	0.00	0.00	0.00	4.79
344	345	1.557099	TCAGCACCTAATGAGTCGGT	58.443	50.000	0.00	0.00	0.00	4.69
345	346	2.730382	TCAGCACCTAATGAGTCGGTA	58.270	47.619	0.00	0.00	0.00	4.02
346	347	2.688446	TCAGCACCTAATGAGTCGGTAG	59.312	50.000	0.00	0.00	0.00	3.18
347	348	2.688446	CAGCACCTAATGAGTCGGTAGA	59.312	50.000	2.26	0.00	0.00	2.59
348	349	2.952978	AGCACCTAATGAGTCGGTAGAG	59.047	50.000	2.26	0.00	0.00	2.43
349	350	2.544069	GCACCTAATGAGTCGGTAGAGC	60.544	54.545	2.26	2.89	0.00	4.09
350	351	2.688446	CACCTAATGAGTCGGTAGAGCA	59.312	50.000	2.26	0.00	0.00	4.26
351	352	3.130516	CACCTAATGAGTCGGTAGAGCAA	59.869	47.826	2.26	0.00	0.00	3.91
352	353	3.961408	ACCTAATGAGTCGGTAGAGCAAT	59.039	43.478	2.26	0.00	0.00	3.56
353	354	4.038162	ACCTAATGAGTCGGTAGAGCAATC	59.962	45.833	2.26	0.00	0.00	2.67
358	359	3.067320	TGAGTCGGTAGAGCAATCTCATG	59.933	47.826	0.00	0.00	41.81	3.07
435	436	7.698506	TTATTCACCTCCTACTCATATACCG	57.301	40.000	0.00	0.00	0.00	4.02
570	571	6.867550	AGATGAGTTCGATGACATAGACAAA	58.132	36.000	0.00	0.00	0.00	2.83
650	651	9.974980	GAAGGTTATACTAGAGGAAATGAAGAG	57.025	37.037	0.00	0.00	0.00	2.85
701	702	7.763985	GGAAGAAGTAAGGAAGATTGAGAAGAG	59.236	40.741	0.00	0.00	0.00	2.85
732	733	3.485394	TGGCAGCACTATTTCTTCACAA	58.515	40.909	0.00	0.00	0.00	3.33
776	778	5.645497	GGATATCCTTTGATACATGTGAGGC	59.355	44.000	14.97	0.00	36.32	4.70
813	815	4.558226	TCCAGCTGAGCAAGATAGAAAA	57.442	40.909	17.39	0.00	0.00	2.29
835	837	2.381961	AGTCCAGAGGAAGAGAGACCTT	59.618	50.000	0.00	0.00	36.57	3.50
845	850	6.260663	AGGAAGAGAGACCTTAGATTGAAGT	58.739	40.000	0.00	0.00	31.95	3.01
876	887	5.946942	AGGAACAAGATGATCAAGAGCTA	57.053	39.130	0.00	0.00	0.00	3.32
993	1004	6.363882	TCATTGGCCTATTGTCATACATGAA	58.636	36.000	3.32	0.00	38.75	2.57
1035	1046	3.315470	CCAATCCTCTTGATGACATGCTG	59.685	47.826	0.00	0.00	32.68	4.41
1187	1202	9.088987	TGATACTTATGTTCCTGATGCTATACA	57.911	33.333	0.00	0.00	0.00	2.29
1388	1403	1.575244	CACGATCCACTACATGCTGG	58.425	55.000	0.00	0.00	0.00	4.85
1479	1501	3.661944	CACACATGAAGAGAGAAGCTGT	58.338	45.455	0.00	0.00	0.00	4.40
1480	1502	3.432592	CACACATGAAGAGAGAAGCTGTG	59.567	47.826	0.00	0.00	38.69	3.66
1481	1503	2.415857	CACATGAAGAGAGAAGCTGTGC	59.584	50.000	0.00	0.00	0.00	4.57
1590	1647	2.424956	GAGCTGTTTCATGACCCATTCC	59.575	50.000	0.00	0.00	0.00	3.01
1612	1670	5.423290	TCCGAGTATATCATCCATTGATGCT	59.577	40.000	1.85	0.00	46.60	3.79
1620	1678	3.958147	TCATCCATTGATGCTTGCTGAAT	59.042	39.130	1.85	0.00	46.60	2.57
1622	1680	5.595133	TCATCCATTGATGCTTGCTGAATTA	59.405	36.000	1.85	0.00	46.60	1.40
1669	1727	5.510520	GCCATTTCTTAAATGTTGTCCCACA	60.511	40.000	10.54	0.00	45.28	4.17
1672	1730	7.309990	CCATTTCTTAAATGTTGTCCCACAGAT	60.310	37.037	10.54	0.00	45.28	2.90
1856	1915	7.011499	TCTGCTTTTACCTTGATACACCTAA	57.989	36.000	0.00	0.00	0.00	2.69
1921	1981	4.885907	CCATTGAGAGCAATCACTTACCAT	59.114	41.667	0.00	0.00	42.66	3.55
1965	2025	4.099113	TCTCTGGATCAGTAGCATGTGAAG	59.901	45.833	0.00	0.00	32.61	3.02
1992	2052	5.997843	ACATGGATGAGTGATGATTCTTGA	58.002	37.500	0.00	0.00	0.00	3.02
2093	2158	0.250038	CCTAGATCGGTGGCATGTGG	60.250	60.000	0.00	0.00	0.00	4.17
2331	2419	3.450578	AGTGCTTTCAACTGCAATGTTG	58.549	40.909	11.56	11.56	46.09	3.33
2358	2446	7.345653	TGTTCCTGGTAATAAGTGATCTGATCT	59.654	37.037	17.82	1.54	0.00	2.75
2433	2522	4.280425	TGGCACAATCAGCATTTGAACTTA	59.720	37.500	0.98	0.00	39.77	2.24

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
44	45	0.247460	GCCAAAACAATCTGGAGGGC	59.753	55.000	0.00	0.00	34.35	5.19
46	47	2.827322	TCATGCCAAAACAATCTGGAGG	59.173	45.455	0.00	0.00	34.35	4.30
123	124	5.179555	GCTCCTAAATGACATATTCGGGTTC	59.820	44.000	0.00	0.00	0.00	3.62
140	141	2.334977	TCTCAGGGTTGTTGCTCCTAA	58.665	47.619	0.00	0.00	0.00	2.69
164	165	7.391554	GCATTGGATTACTAGAGGCAAATGATA	59.608	37.037	0.00	0.00	0.00	2.15
168	169	5.448654	TGCATTGGATTACTAGAGGCAAAT	58.551	37.500	0.00	0.00	0.00	2.32
264	265	1.002868	ACACATCTCCTGGTGCTGC	60.003	57.895	0.00	0.00	38.57	5.25
309	310	1.748493	GCTGAAGTTGTTGGTTGACCA	59.252	47.619	0.00	0.00	45.94	4.02
310	311	1.748493	TGCTGAAGTTGTTGGTTGACC	59.252	47.619	0.00	0.00	0.00	4.02
311	312	2.479560	GGTGCTGAAGTTGTTGGTTGAC	60.480	50.000	0.00	0.00	0.00	3.18
312	313	1.748493	GGTGCTGAAGTTGTTGGTTGA	59.252	47.619	0.00	0.00	0.00	3.18
313	314	1.750778	AGGTGCTGAAGTTGTTGGTTG	59.249	47.619	0.00	0.00	0.00	3.77
314	315	2.143876	AGGTGCTGAAGTTGTTGGTT	57.856	45.000	0.00	0.00	0.00	3.67
315	316	3.290948	TTAGGTGCTGAAGTTGTTGGT	57.709	42.857	0.00	0.00	0.00	3.67
316	317	3.820467	TCATTAGGTGCTGAAGTTGTTGG	59.180	43.478	0.00	0.00	0.00	3.77
317	318	4.516698	ACTCATTAGGTGCTGAAGTTGTTG	59.483	41.667	0.00	0.00	0.00	3.33
318	319	4.718961	ACTCATTAGGTGCTGAAGTTGTT	58.281	39.130	0.00	0.00	0.00	2.83
319	320	4.319177	GACTCATTAGGTGCTGAAGTTGT	58.681	43.478	0.00	0.00	0.00	3.32
320	321	3.369147	CGACTCATTAGGTGCTGAAGTTG	59.631	47.826	0.00	0.00	0.00	3.16
321	322	3.589988	CGACTCATTAGGTGCTGAAGTT	58.410	45.455	0.00	0.00	0.00	2.66
322	323	2.093973	CCGACTCATTAGGTGCTGAAGT	60.094	50.000	0.00	0.00	0.00	3.01
323	324	2.093973	ACCGACTCATTAGGTGCTGAAG	60.094	50.000	0.00	0.00	36.81	3.02
324	325	1.899814	ACCGACTCATTAGGTGCTGAA	59.100	47.619	0.00	0.00	36.81	3.02
325	326	1.557099	ACCGACTCATTAGGTGCTGA	58.443	50.000	0.00	0.00	36.81	4.26
326	327	2.688446	TCTACCGACTCATTAGGTGCTG	59.312	50.000	0.00	0.00	38.90	4.41
327	328	2.952978	CTCTACCGACTCATTAGGTGCT	59.047	50.000	0.00	0.00	38.90	4.40
328	329	2.544069	GCTCTACCGACTCATTAGGTGC	60.544	54.545	0.00	0.00	38.90	5.01
329	330	2.688446	TGCTCTACCGACTCATTAGGTG	59.312	50.000	0.00	0.00	38.90	4.00
330	331	3.014304	TGCTCTACCGACTCATTAGGT	57.986	47.619	0.00	0.00	41.73	3.08
331	332	4.279671	AGATTGCTCTACCGACTCATTAGG	59.720	45.833	0.00	0.00	0.00	2.69
332	333	5.009110	TGAGATTGCTCTACCGACTCATTAG	59.991	44.000	0.00	0.00	41.84	1.73
333	334	4.887655	TGAGATTGCTCTACCGACTCATTA	59.112	41.667	0.00	0.00	41.84	1.90
334	335	3.701542	TGAGATTGCTCTACCGACTCATT	59.298	43.478	0.00	0.00	41.84	2.57
335	336	3.291584	TGAGATTGCTCTACCGACTCAT	58.708	45.455	0.00	0.00	41.84	2.90
336	337	2.723273	TGAGATTGCTCTACCGACTCA	58.277	47.619	0.00	0.00	41.84	3.41
337	338	3.067461	ACATGAGATTGCTCTACCGACTC	59.933	47.826	0.00	0.00	41.84	3.36
338	339	3.027412	ACATGAGATTGCTCTACCGACT	58.973	45.455	0.00	0.00	41.84	4.18
339	340	3.119291	CACATGAGATTGCTCTACCGAC	58.881	50.000	0.00	0.00	41.84	4.79
340	341	2.481969	GCACATGAGATTGCTCTACCGA	60.482	50.000	0.00	0.00	41.84	4.69
341	342	1.863454	GCACATGAGATTGCTCTACCG	59.137	52.381	0.00	0.00	41.84	4.02
342	343	2.871022	CTGCACATGAGATTGCTCTACC	59.129	50.000	0.00	0.00	41.84	3.18
343	344	2.871022	CCTGCACATGAGATTGCTCTAC	59.129	50.000	0.00	0.00	41.84	2.59
344	345	2.158856	CCCTGCACATGAGATTGCTCTA	60.159	50.000	0.00	0.00	41.84	2.43
345	346	1.408405	CCCTGCACATGAGATTGCTCT	60.408	52.381	0.00	0.00	41.84	4.09
346	347	1.022735	CCCTGCACATGAGATTGCTC	58.977	55.000	0.00	0.00	39.62	4.26
347	348	0.622136	TCCCTGCACATGAGATTGCT	59.378	50.000	0.00	0.00	39.62	3.91
348	349	1.688772	ATCCCTGCACATGAGATTGC	58.311	50.000	0.00	0.00	39.33	3.56
349	350	4.277672	CCTAAATCCCTGCACATGAGATTG	59.722	45.833	0.00	0.00	0.00	2.67
350	351	4.079558	ACCTAAATCCCTGCACATGAGATT	60.080	41.667	0.00	0.00	0.00	2.40
351	352	3.461085	ACCTAAATCCCTGCACATGAGAT	59.539	43.478	0.00	0.00	0.00	2.75
352	353	2.846206	ACCTAAATCCCTGCACATGAGA	59.154	45.455	0.00	0.00	0.00	3.27
353	354	3.287867	ACCTAAATCCCTGCACATGAG	57.712	47.619	0.00	0.00	0.00	2.90
358	359	5.036117	TCTTCATACCTAAATCCCTGCAC	57.964	43.478	0.00	0.00	0.00	4.57
435	436	1.002868	ACACATCTCCTGGTGCTGC	60.003	57.895	0.00	0.00	38.57	5.25
650	651	3.949132	AGCTCTTTTCCACTCTTGATCC	58.051	45.455	0.00	0.00	0.00	3.36
732	733	4.873010	TCCCAGAAATACTCAGCTCTAGT	58.127	43.478	3.82	3.82	0.00	2.57
776	778	0.034756	TGGATGTGACGGTGTTGGAG	59.965	55.000	0.00	0.00	0.00	3.86
813	815	2.381961	AGGTCTCTCTTCCTCTGGACTT	59.618	50.000	0.00	0.00	0.00	3.01
835	837	7.279615	TGTTCCTTGAGTTCAACTTCAATCTA	58.720	34.615	0.00	0.00	0.00	1.98
845	850	6.298361	TGATCATCTTGTTCCTTGAGTTCAA	58.702	36.000	0.00	0.00	0.00	2.69
876	887	6.713762	TCAACTTGATCACTTGGAAATTGT	57.286	33.333	10.92	0.00	0.00	2.71
1035	1046	4.248691	AGAAGCAAAGAAATCACAAGGC	57.751	40.909	0.00	0.00	0.00	4.35
1187	1202	5.627499	ATCACACGTTTCATTAAGCATGT	57.373	34.783	0.00	0.00	34.06	3.21
1316	1331	1.899814	AGGAGGCGATACAAGTGACAA	59.100	47.619	0.00	0.00	0.00	3.18
1388	1403	2.352960	GGAATGTCATCTCGAACTTGGC	59.647	50.000	0.00	0.00	0.00	4.52
1479	1501	2.519622	CCCTATCCTCATGCCGGCA	61.520	63.158	34.80	34.80	0.00	5.69
1480	1502	1.768684	TTCCCTATCCTCATGCCGGC	61.769	60.000	22.73	22.73	0.00	6.13
1481	1503	0.322975	CTTCCCTATCCTCATGCCGG	59.677	60.000	0.00	0.00	0.00	6.13
1610	1668	7.404203	CCAAATAGCAATTTAATTCAGCAAGC	58.596	34.615	3.47	0.00	33.45	4.01
1612	1670	7.393216	ACCCAAATAGCAATTTAATTCAGCAA	58.607	30.769	3.47	0.00	33.45	3.91
1620	1678	6.426328	CACAAGCAACCCAAATAGCAATTTAA	59.574	34.615	0.00	0.00	33.45	1.52
1622	1680	4.756135	CACAAGCAACCCAAATAGCAATTT	59.244	37.500	0.00	0.00	35.65	1.82
1669	1727	7.781324	ACCATATGTCAAAGGTGAAAAATCT	57.219	32.000	1.24	0.00	34.87	2.40
1856	1915	4.769688	TCAGCATCCGACACTTAATGATT	58.230	39.130	0.00	0.00	0.00	2.57
1921	1981	7.605309	CAGAGAACATAGCATGCTAATCCATAA	59.395	37.037	30.06	8.32	31.73	1.90
1965	2025	6.757237	AGAATCATCACTCATCCATGTCTAC	58.243	40.000	0.00	0.00	0.00	2.59
2093	2158	0.393808	TGCCCAAGCTAACCCGATTC	60.394	55.000	0.00	0.00	40.80	2.52
2158	2230	2.777692	ACATACCACCGATCCCAAGAAT	59.222	45.455	0.00	0.00	0.00	2.40
2163	2235	0.834612	GGAACATACCACCGATCCCA	59.165	55.000	0.00	0.00	0.00	4.37
2331	2419	6.640518	TCAGATCACTTATTACCAGGAACAC	58.359	40.000	0.00	0.00	0.00	3.32
2390	2479	3.759086	CCAAAAGGTTCCTAAAGAGAGCC	59.241	47.826	0.00	0.00	35.01	4.70

Based at the University of Bristol with support from BBSRC.

AutoCloner maintained by Alex Coulton.