AutoCloner

Multiple sequence alignment - TraesCS1A01G094900

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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	TraesCS1A01G094900	chr1A	100.000	3497	0	0	1	3497	90164497	90161001	0.000000e+00	6458.0
1	TraesCS1A01G094900	chr1B	95.551	2877	95	15	650	3497	148416656	148413784	0.000000e+00	4573.0
2	TraesCS1A01G094900	chr1B	84.906	371	39	10	289	647	61402452	61402087	3.320000e-95	359.0
3	TraesCS1A01G094900	chr1B	80.952	147	27	1	502	647	152945657	152945803	7.930000e-22	115.0
4	TraesCS1A01G094900	chr1D	95.433	2890	87	16	650	3497	93105550	93102664	0.000000e+00	4564.0
5	TraesCS1A01G094900	chr2D	92.049	2352	177	5	1010	3355	156592469	156594816	0.000000e+00	3299.0
6	TraesCS1A01G094900	chr2D	92.492	2211	157	4	960	3165	156707430	156709636	0.000000e+00	3155.0
7	TraesCS1A01G094900	chr2D	91.874	2215	168	6	960	3166	182575956	182573746	0.000000e+00	3083.0
8	TraesCS1A01G094900	chr2D	85.818	275	26	8	658	926	156707080	156707347	2.660000e-71	279.0
9	TraesCS1A01G094900	chr2D	81.979	283	24	16	653	926	182576289	182576025	7.600000e-52	215.0
10	TraesCS1A01G094900	chr2B	90.266	2558	195	26	650	3165	214312560	214315105	0.000000e+00	3295.0
11	TraesCS1A01G094900	chr2B	91.507	2402	176	14	960	3356	214281104	214283482	0.000000e+00	3280.0
12	TraesCS1A01G094900	chr2B	86.380	279	22	10	671	945	214280766	214281032	1.230000e-74	291.0
13	TraesCS1A01G094900	chr2B	83.871	248	32	5	1	241	38259662	38259416	2.720000e-56	230.0
14	TraesCS1A01G094900	chr2A	92.450	2212	156	5	962	3166	197566213	197564006	0.000000e+00	3149.0
15	TraesCS1A01G094900	chr2A	90.689	2352	182	20	650	2973	166254198	166256540	0.000000e+00	3096.0
16	TraesCS1A01G094900	chr2A	91.995	2211	168	4	960	3165	166628058	166630264	0.000000e+00	3094.0
17	TraesCS1A01G094900	chr2A	85.867	375	39	9	289	654	677083133	677083502	1.520000e-103	387.0
18	TraesCS1A01G094900	chr2A	85.867	375	39	9	289	654	677121743	677122112	1.520000e-103	387.0
19	TraesCS1A01G094900	chr2A	85.600	375	40	10	289	654	677133649	677134018	7.080000e-102	381.0
20	TraesCS1A01G094900	chr2A	85.598	368	40	8	289	647	500499450	500499813	1.190000e-99	374.0
21	TraesCS1A01G094900	chr2A	87.023	262	28	4	3096	3355	166256549	166256806	1.230000e-74	291.0
22	TraesCS1A01G094900	chr2A	86.029	272	25	8	661	926	166627709	166627973	2.660000e-71	279.0
23	TraesCS1A01G094900	chr2A	86.592	179	18	5	750	926	197344832	197344658	3.560000e-45	193.0
24	TraesCS1A01G094900	chr5A	86.930	658	62	14	1	647	249848600	249847956	0.000000e+00	717.0
25	TraesCS1A01G094900	chr5A	85.598	368	40	8	289	647	591462201	591462564	1.190000e-99	374.0
26	TraesCS1A01G094900	chr4B	84.906	371	39	8	289	647	446509265	446509630	3.320000e-95	359.0
27	TraesCS1A01G094900	chr7D	78.693	352	58	12	307	647	207242290	207242635	5.880000e-53	219.0
28	TraesCS1A01G094900	chr7D	79.253	241	38	11	1	234	207242057	207242292	1.300000e-34	158.0
29	TraesCS1A01G094900	chr3B	93.023	43	3	0	229	271	66172675	66172717	2.910000e-06	63.9

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	TraesCS1A01G094900	chr1A	90161001	90164497	3496	True	6458.0	6458	100.0000	1	3497	1	chr1A.!!$R1	3496
1	TraesCS1A01G094900	chr1B	148413784	148416656	2872	True	4573.0	4573	95.5510	650	3497	1	chr1B.!!$R2	2847
2	TraesCS1A01G094900	chr1D	93102664	93105550	2886	True	4564.0	4564	95.4330	650	3497	1	chr1D.!!$R1	2847
3	TraesCS1A01G094900	chr2D	156592469	156594816	2347	False	3299.0	3299	92.0490	1010	3355	1	chr2D.!!$F1	2345
4	TraesCS1A01G094900	chr2D	156707080	156709636	2556	False	1717.0	3155	89.1550	658	3165	2	chr2D.!!$F2	2507
5	TraesCS1A01G094900	chr2D	182573746	182576289	2543	True	1649.0	3083	86.9265	653	3166	2	chr2D.!!$R1	2513
6	TraesCS1A01G094900	chr2B	214312560	214315105	2545	False	3295.0	3295	90.2660	650	3165	1	chr2B.!!$F1	2515
7	TraesCS1A01G094900	chr2B	214280766	214283482	2716	False	1785.5	3280	88.9435	671	3356	2	chr2B.!!$F2	2685
8	TraesCS1A01G094900	chr2A	197564006	197566213	2207	True	3149.0	3149	92.4500	962	3166	1	chr2A.!!$R2	2204
9	TraesCS1A01G094900	chr2A	166254198	166256806	2608	False	1693.5	3096	88.8560	650	3355	2	chr2A.!!$F5	2705
10	TraesCS1A01G094900	chr2A	166627709	166630264	2555	False	1686.5	3094	89.0120	661	3165	2	chr2A.!!$F6	2504
11	TraesCS1A01G094900	chr5A	249847956	249848600	644	True	717.0	717	86.9300	1	647	1	chr5A.!!$R1	646

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
707	734	0.608640	TTCGTCTTCTTCCTCCTGGC	59.391	55.0	0.0	0.0	0.00	4.85	F
1509	1651	0.249868	CCGGCATCCGCTTTGAGATA	60.250	55.0	0.0	0.0	46.86	1.98	F

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability	Orientation
2160	2302	0.540365	CCTGGAAGTTGCCACCATGT	60.540	55.000	0.0	0.0	33.52	3.21	R
2813	2959	1.681264	GTAGCAACCTTGGCAAACACT	59.319	47.619	0.0	0.0	0.00	3.55	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
103	104	8.084985	TGATAATTAATCAGTCCCGCCATATA	57.915	34.615	0.00	0.00	39.77	0.86
132	133	1.502990	TTGTGTGGAATGTGCGTCCG	61.503	55.000	0.00	0.00	38.06	4.79
142	143	0.669318	TGTGCGTCCGAATCTTGACC	60.669	55.000	0.00	0.00	0.00	4.02
197	198	2.663602	GCACGGAGTATGAGATATTGCG	59.336	50.000	0.00	0.00	41.61	4.85
214	215	4.346734	TTGCGCTGAATTCTCATTTCTC	57.653	40.909	9.73	0.00	0.00	2.87
215	216	2.349580	TGCGCTGAATTCTCATTTCTCG	59.650	45.455	9.73	0.51	0.00	4.04
236	237	8.358582	TCTCGTTAGAAATTTAGTACTCCCTT	57.641	34.615	0.00	0.00	0.00	3.95
237	238	8.465201	TCTCGTTAGAAATTTAGTACTCCCTTC	58.535	37.037	0.00	0.00	0.00	3.46
241	242	9.597170	GTTAGAAATTTAGTACTCCCTTCGATT	57.403	33.333	0.00	0.00	0.00	3.34
255	256	5.600898	TCCCTTCGATTCATATTACCTGTCA	59.399	40.000	0.00	0.00	0.00	3.58
320	339	6.039829	GGATCAGGGAGTCCATTTTTATTGTC	59.960	42.308	12.30	0.00	34.57	3.18
327	346	8.414003	GGGAGTCCATTTTTATTGTCCTTATTC	58.586	37.037	12.30	0.00	0.00	1.75
328	347	8.966868	GGAGTCCATTTTTATTGTCCTTATTCA	58.033	33.333	3.60	0.00	0.00	2.57
330	349	9.753674	AGTCCATTTTTATTGTCCTTATTCAGA	57.246	29.630	0.00	0.00	0.00	3.27
339	358	9.952030	TTATTGTCCTTATTCAGAACATGTACA	57.048	29.630	0.00	0.00	0.00	2.90
340	359	7.667043	TTGTCCTTATTCAGAACATGTACAC	57.333	36.000	0.00	0.00	0.00	2.90
341	360	6.764379	TGTCCTTATTCAGAACATGTACACA	58.236	36.000	0.00	0.00	0.00	3.72
342	361	7.220740	TGTCCTTATTCAGAACATGTACACAA	58.779	34.615	0.00	0.00	0.00	3.33
343	362	7.387673	TGTCCTTATTCAGAACATGTACACAAG	59.612	37.037	0.00	0.00	0.00	3.16
344	363	6.371548	TCCTTATTCAGAACATGTACACAAGC	59.628	38.462	0.00	0.00	0.00	4.01
345	364	6.403636	CCTTATTCAGAACATGTACACAAGCC	60.404	42.308	0.00	0.00	0.00	4.35
346	365	3.483808	TCAGAACATGTACACAAGCCA	57.516	42.857	0.00	0.00	0.00	4.75
347	366	4.019792	TCAGAACATGTACACAAGCCAT	57.980	40.909	0.00	0.00	0.00	4.40
348	367	4.397420	TCAGAACATGTACACAAGCCATT	58.603	39.130	0.00	0.00	0.00	3.16
349	368	5.555966	TCAGAACATGTACACAAGCCATTA	58.444	37.500	0.00	0.00	0.00	1.90
350	369	6.000840	TCAGAACATGTACACAAGCCATTAA	58.999	36.000	0.00	0.00	0.00	1.40
351	370	6.658816	TCAGAACATGTACACAAGCCATTAAT	59.341	34.615	0.00	0.00	0.00	1.40
352	371	7.826744	TCAGAACATGTACACAAGCCATTAATA	59.173	33.333	0.00	0.00	0.00	0.98
356	375	8.752005	ACATGTACACAAGCCATTAATAATCT	57.248	30.769	0.00	0.00	0.00	2.40
374	393	8.904099	AATAATCTAAGAGGATGTAAAACCGG	57.096	34.615	0.00	0.00	0.00	5.28
375	394	4.748277	TCTAAGAGGATGTAAAACCGGG	57.252	45.455	6.32	0.00	0.00	5.73
426	445	5.591643	AAGTAATGTCGTGCAAGTTGTAG	57.408	39.130	4.48	0.00	0.00	2.74
486	512	3.179265	CGCGTGGTGGCTAGAACG	61.179	66.667	0.00	0.65	39.00	3.95
506	532	2.505405	GAGGAAGTGGGGTTGAAAGAC	58.495	52.381	0.00	0.00	0.00	3.01
508	534	1.202722	GGAAGTGGGGTTGAAAGACGA	60.203	52.381	0.00	0.00	0.00	4.20
515	541	2.622436	GGGTTGAAAGACGATGAGGAG	58.378	52.381	0.00	0.00	0.00	3.69
525	551	5.860941	AGACGATGAGGAGATGTGTTTAT	57.139	39.130	0.00	0.00	0.00	1.40
530	556	8.637196	ACGATGAGGAGATGTGTTTATCTATA	57.363	34.615	0.00	0.00	37.53	1.31
537	563	9.988815	AGGAGATGTGTTTATCTATAACATCAC	57.011	33.333	14.49	9.16	37.53	3.06
538	564	9.764363	GGAGATGTGTTTATCTATAACATCACA	57.236	33.333	14.49	12.51	37.53	3.58
552	578	7.895975	ATAACATCACAACCATGAGATATCG	57.104	36.000	0.00	0.00	35.08	2.92
584	610	5.621228	CGAATAGCCTTTAAATTCGCATCAC	59.379	40.000	7.67	0.00	43.56	3.06
590	616	4.788100	CCTTTAAATTCGCATCACGTGAAG	59.212	41.667	24.13	19.87	46.85	3.02
600	626	4.214437	GCATCACGTGAAGTTTCTCTTTG	58.786	43.478	24.13	12.89	36.40	2.77
629	655	3.907894	TTTTGTTAGTCCGTGGCAATC	57.092	42.857	0.00	0.00	0.00	2.67
647	673	2.502142	TCCACGGACACTTAGCTAGA	57.498	50.000	0.00	0.00	0.00	2.43
648	674	2.366533	TCCACGGACACTTAGCTAGAG	58.633	52.381	0.00	0.00	0.00	2.43
700	727	2.739379	CTGCCTTTCTTCGTCTTCTTCC	59.261	50.000	0.00	0.00	0.00	3.46
707	734	0.608640	TTCGTCTTCTTCCTCCTGGC	59.391	55.000	0.00	0.00	0.00	4.85
847	899	4.540502	GCCACCTATTTATAATCCCTCCCT	59.459	45.833	0.00	0.00	0.00	4.20
912	964	1.134175	CTCCAACGAGCTCTTCTCTCC	59.866	57.143	12.85	0.00	39.70	3.71
919	971	1.153469	GCTCTTCTCTCCCAAGGCG	60.153	63.158	0.00	0.00	0.00	5.52
935	987	2.665000	CGGCTCCAGTCCACACAT	59.335	61.111	0.00	0.00	0.00	3.21
949	1025	1.400846	CACACATTCATCCAGCTGCTC	59.599	52.381	8.66	0.00	0.00	4.26
982	1117	1.064803	CTCCATCGAGACTCCAAGACG	59.935	57.143	0.00	0.00	38.52	4.18
1007	1142	2.969827	GACCAAACCAATGGCGGG	59.030	61.111	0.00	0.46	44.75	6.13
1107	1242	2.769621	TCGGGCAGCCATCTGGAT	60.770	61.111	15.19	0.00	40.65	3.41
1259	1401	2.048222	CCGCGTCAAGGAGAGCAA	60.048	61.111	4.92	0.00	0.00	3.91
1398	1540	3.324108	TTCCTTAACGCCGGGGCT	61.324	61.111	19.97	9.41	39.32	5.19
1509	1651	0.249868	CCGGCATCCGCTTTGAGATA	60.250	55.000	0.00	0.00	46.86	1.98
1599	1741	1.379977	TTCTGGCGATCTCGTCCCT	60.380	57.895	1.28	0.00	44.42	4.20
1626	1768	1.079819	CATCGCCGGACTTGTCACT	60.080	57.895	5.05	0.00	0.00	3.41
1674	1816	3.153919	TCCTGATGGCACCAAAGTTAAC	58.846	45.455	0.00	0.00	0.00	2.01
2160	2302	3.713288	CGTATCTCGTGGAAAGGCAATA	58.287	45.455	0.00	0.00	34.52	1.90
2662	2808	2.612212	ACAACGCTCGTTTTTGTGAGAT	59.388	40.909	4.78	0.00	36.00	2.75
3146	3295	2.705127	AGGAGATGAAGAGAAGATGCCC	59.295	50.000	0.00	0.00	0.00	5.36
3238	3387	1.199789	GATGCATGCAACGTTCTTCCA	59.800	47.619	26.68	0.00	0.00	3.53
3355	3505	6.350277	GGTCTACTGCTGTATTGACAAGTACT	60.350	42.308	18.50	0.00	34.35	2.73
3357	3507	8.407064	GTCTACTGCTGTATTGACAAGTACTAT	58.593	37.037	14.42	0.00	34.35	2.12
3358	3508	9.623000	TCTACTGCTGTATTGACAAGTACTATA	57.377	33.333	3.72	0.00	34.35	1.31
3417	3569	2.158667	AGAAACAACACCAGGTTCCGAT	60.159	45.455	0.00	0.00	37.72	4.18

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
3	4	9.516546	GGGAGGATAATTCGTATTAGGAAAAAT	57.483	33.333	3.17	0.98	30.10	1.82
5	6	8.271398	AGGGAGGATAATTCGTATTAGGAAAA	57.729	34.615	3.17	0.00	30.10	2.29
103	104	6.158598	GCACATTCCACACAATAAACATTCT	58.841	36.000	0.00	0.00	0.00	2.40
132	133	7.203910	TCTCTTTATAGCTTCGGTCAAGATTC	58.796	38.462	0.00	0.00	33.29	2.52
197	198	6.893958	TCTAACGAGAAATGAGAATTCAGC	57.106	37.500	8.44	0.00	36.61	4.26
214	215	7.253422	TCGAAGGGAGTACTAAATTTCTAACG	58.747	38.462	0.00	0.00	0.00	3.18
215	216	9.597170	AATCGAAGGGAGTACTAAATTTCTAAC	57.403	33.333	0.00	0.00	0.00	2.34
241	242	9.559732	CATCCATTTTAGTGACAGGTAATATGA	57.440	33.333	8.41	0.00	0.00	2.15
276	277	7.038017	CCTGATCCATATTACAGGTAGTCCATT	60.038	40.741	0.00	0.00	43.16	3.16
277	278	6.441924	CCTGATCCATATTACAGGTAGTCCAT	59.558	42.308	0.00	0.00	43.16	3.41
279	280	5.187967	CCCTGATCCATATTACAGGTAGTCC	59.812	48.000	0.00	0.00	45.65	3.85
280	281	6.017192	TCCCTGATCCATATTACAGGTAGTC	58.983	44.000	0.00	0.00	45.65	2.59
281	282	5.977533	TCCCTGATCCATATTACAGGTAGT	58.022	41.667	0.00	0.00	45.65	2.73
282	283	6.019748	ACTCCCTGATCCATATTACAGGTAG	58.980	44.000	0.00	0.00	45.65	3.18
283	284	5.977533	ACTCCCTGATCCATATTACAGGTA	58.022	41.667	0.00	0.00	45.65	3.08
285	286	4.223923	GGACTCCCTGATCCATATTACAGG	59.776	50.000	0.00	0.00	46.37	4.00
286	287	4.840680	TGGACTCCCTGATCCATATTACAG	59.159	45.833	0.00	0.00	40.17	2.74
287	288	4.826616	TGGACTCCCTGATCCATATTACA	58.173	43.478	0.00	0.00	40.17	2.41
295	296	5.893824	ACAATAAAAATGGACTCCCTGATCC	59.106	40.000	0.00	0.00	35.37	3.36
298	317	5.015178	AGGACAATAAAAATGGACTCCCTGA	59.985	40.000	0.00	0.00	0.00	3.86
320	339	6.403636	GGCTTGTGTACATGTTCTGAATAAGG	60.404	42.308	2.30	0.00	0.00	2.69
327	346	4.771590	AATGGCTTGTGTACATGTTCTG	57.228	40.909	2.30	0.00	0.00	3.02
328	347	8.574251	TTATTAATGGCTTGTGTACATGTTCT	57.426	30.769	2.30	0.00	0.00	3.01
329	348	9.450807	GATTATTAATGGCTTGTGTACATGTTC	57.549	33.333	2.30	0.00	0.00	3.18
330	349	9.189156	AGATTATTAATGGCTTGTGTACATGTT	57.811	29.630	2.30	0.00	0.00	2.71
331	350	8.752005	AGATTATTAATGGCTTGTGTACATGT	57.248	30.769	2.69	2.69	0.00	3.21
336	355	9.778741	CCTCTTAGATTATTAATGGCTTGTGTA	57.221	33.333	0.00	0.00	0.00	2.90
337	356	8.494433	TCCTCTTAGATTATTAATGGCTTGTGT	58.506	33.333	0.00	0.00	0.00	3.72
338	357	8.908786	TCCTCTTAGATTATTAATGGCTTGTG	57.091	34.615	0.00	0.00	0.00	3.33
339	358	9.512588	CATCCTCTTAGATTATTAATGGCTTGT	57.487	33.333	0.00	0.00	0.00	3.16
340	359	9.512588	ACATCCTCTTAGATTATTAATGGCTTG	57.487	33.333	0.00	0.00	0.00	4.01
348	367	9.991906	CCGGTTTTACATCCTCTTAGATTATTA	57.008	33.333	0.00	0.00	0.00	0.98
349	368	7.937394	CCCGGTTTTACATCCTCTTAGATTATT	59.063	37.037	0.00	0.00	0.00	1.40
350	369	7.450903	CCCGGTTTTACATCCTCTTAGATTAT	58.549	38.462	0.00	0.00	0.00	1.28
351	370	6.183361	CCCCGGTTTTACATCCTCTTAGATTA	60.183	42.308	0.00	0.00	0.00	1.75
352	371	5.397559	CCCCGGTTTTACATCCTCTTAGATT	60.398	44.000	0.00	0.00	0.00	2.40
356	375	3.452878	TCCCCGGTTTTACATCCTCTTA	58.547	45.455	0.00	0.00	0.00	2.10
360	379	3.529216	TTTTCCCCGGTTTTACATCCT	57.471	42.857	0.00	0.00	0.00	3.24
409	428	1.156736	GCCTACAACTTGCACGACAT	58.843	50.000	0.00	0.00	0.00	3.06
426	445	3.782656	TTTATCTCCTATTTCCCCGCC	57.217	47.619	0.00	0.00	0.00	6.13
486	512	2.505405	GTCTTTCAACCCCACTTCCTC	58.495	52.381	0.00	0.00	0.00	3.71
506	532	9.347934	GTTATAGATAAACACATCTCCTCATCG	57.652	37.037	0.00	0.00	36.63	3.84
530	556	5.674525	ACGATATCTCATGGTTGTGATGTT	58.325	37.500	0.34	0.00	36.87	2.71
537	563	3.751479	TGGGACGATATCTCATGGTTG	57.249	47.619	0.34	0.00	30.48	3.77
552	578	1.680338	AAAGGCTATTCGCATGGGAC	58.320	50.000	12.67	0.57	41.67	4.46
572	598	3.896648	AACTTCACGTGATGCGAATTT	57.103	38.095	26.26	13.11	44.77	1.82
576	602	2.058798	GAGAAACTTCACGTGATGCGA	58.941	47.619	26.26	9.20	44.77	5.10
578	604	4.214437	CAAAGAGAAACTTCACGTGATGC	58.786	43.478	26.26	9.23	37.93	3.91
579	605	5.409643	ACAAAGAGAAACTTCACGTGATG	57.590	39.130	25.11	25.11	37.93	3.07
600	626	9.426837	TGCCACGGACTAACAAAATATATATAC	57.573	33.333	0.00	0.00	0.00	1.47
611	637	1.072489	TGGATTGCCACGGACTAACAA	59.928	47.619	0.00	0.00	39.92	2.83
629	655	2.093106	ACTCTAGCTAAGTGTCCGTGG	58.907	52.381	7.50	0.00	0.00	4.94
647	673	7.336427	GCGACACTGGGATACTAATATACTACT	59.664	40.741	0.00	0.00	0.00	2.57
648	674	7.120285	TGCGACACTGGGATACTAATATACTAC	59.880	40.741	0.00	0.00	0.00	2.73
836	888	1.944588	TGGAGGAAGAGGGAGGGATTA	59.055	52.381	0.00	0.00	0.00	1.75
837	889	0.725133	TGGAGGAAGAGGGAGGGATT	59.275	55.000	0.00	0.00	0.00	3.01
847	899	3.851976	TCTTGGATGGAAATGGAGGAAGA	59.148	43.478	0.00	0.00	0.00	2.87
912	964	4.785453	GGACTGGAGCCGCCTTGG	62.785	72.222	0.00	0.00	42.50	3.61
919	971	0.036732	TGAATGTGTGGACTGGAGCC	59.963	55.000	0.00	0.00	0.00	4.70
982	1117	1.244019	ATTGGTTTGGTCGAGGCTGC	61.244	55.000	0.00	0.00	0.00	5.25
1007	1142	4.364409	GACCGTCGTTGCCGTTGC	62.364	66.667	0.00	0.00	38.26	4.17
1095	1230	2.184830	CACCGCATCCAGATGGCTG	61.185	63.158	9.58	0.00	41.93	4.85
1107	1242	4.015406	ACCATCCGCTTCACCGCA	62.015	61.111	0.00	0.00	0.00	5.69
1259	1401	2.927856	TGGCCATGACCCAGTCGT	60.928	61.111	0.00	0.00	34.95	4.34
1599	1741	0.818445	GTCCGGCGATGTAGGAGAGA	60.818	60.000	9.30	0.00	34.29	3.10
1686	1828	1.305201	GGATGCCGGCGATCTTAAAA	58.695	50.000	26.99	8.92	0.00	1.52
2160	2302	0.540365	CCTGGAAGTTGCCACCATGT	60.540	55.000	0.00	0.00	33.52	3.21
2226	2368	1.886313	CATGAGCTTGCCGATCGCT	60.886	57.895	10.32	0.00	38.78	4.93
2662	2808	2.037121	TCGATTGTCTGAAGCAAGTCCA	59.963	45.455	0.00	0.00	0.00	4.02
2813	2959	1.681264	GTAGCAACCTTGGCAAACACT	59.319	47.619	0.00	0.00	0.00	3.55
3203	3352	2.221169	TGCATCAACGCTTCAGAAGTT	58.779	42.857	11.94	0.00	0.00	2.66
3238	3387	3.366883	GCATATGCTTACGCTCTAGCTCT	60.367	47.826	20.64	0.00	38.22	4.09
3255	3405	6.006275	ACCCTTTCACTTACATCAGCATAT	57.994	37.500	0.00	0.00	0.00	1.78
3360	3510	9.912634	GCAATGCAATGTGGTAACTATTATAAT	57.087	29.630	0.00	2.97	37.61	1.28
3361	3511	8.907885	TGCAATGCAATGTGGTAACTATTATAA	58.092	29.630	5.01	0.00	34.76	0.98

Based at the University of Bristol with support from BBSRC.

AutoCloner maintained by Alex Coulton.