AutoCloner

Multiple sequence alignment - TraesCS1B01G258500

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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	TraesCS1B01G258500	chr1B	100.000	3209	0	0	1	3209	455355280	455358488	0.000000e+00	5927
1	TraesCS1B01G258500	chr7D	91.798	3292	167	49	1	3209	608421470	608424741	0.000000e+00	4488
2	TraesCS1B01G258500	chr7D	90.177	906	74	5	1532	2436	607622331	607621440	0.000000e+00	1166
3	TraesCS1B01G258500	chr7D	90.141	852	69	5	1586	2436	610203362	610204199	0.000000e+00	1094
4	TraesCS1B01G258500	chr7D	82.645	605	75	23	2433	3032	607619798	607619219	2.860000e-140	508
5	TraesCS1B01G258500	chr7D	82.178	606	77	24	2433	3032	610210800	610211380	2.880000e-135	492
6	TraesCS1B01G258500	chr7D	77.614	612	123	13	1015	1619	607933268	607933872	3.040000e-95	359
7	TraesCS1B01G258500	chr7D	84.053	301	34	13	3	291	263359510	263359808	8.770000e-71	278
8	TraesCS1B01G258500	chr7A	90.684	2426	123	41	800	3206	700421543	700423884	0.000000e+00	3133
9	TraesCS1B01G258500	chr7A	89.631	1437	127	9	988	2420	699865839	699864421	0.000000e+00	1808
10	TraesCS1B01G258500	chr7A	80.571	350	44	17	2686	3025	699863650	699863315	6.870000e-62	248
11	TraesCS1B01G258500	chrUn	93.478	1656	74	17	800	2440	83447978	83446342	0.000000e+00	2429
12	TraesCS1B01G258500	chr7B	88.650	1533	147	11	892	2413	693258746	693257230	0.000000e+00	1842
13	TraesCS1B01G258500	chr7B	89.478	1169	115	5	1269	2436	697265105	697263944	0.000000e+00	1471
14	TraesCS1B01G258500	chr7B	90.466	965	80	3	998	1962	696909499	696908547	0.000000e+00	1262
15	TraesCS1B01G258500	chr7B	87.267	644	71	4	1574	2213	700731675	700732311	0.000000e+00	725
16	TraesCS1B01G258500	chr7B	88.419	449	47	3	1965	2413	696906809	696906366	1.310000e-148	536
17	TraesCS1B01G258500	chr7B	89.398	415	39	3	2475	2888	693256918	693256508	4.750000e-143	518
18	TraesCS1B01G258500	chr7B	89.398	415	37	4	2475	2888	696906053	696905645	1.710000e-142	516
19	TraesCS1B01G258500	chr7B	81.457	604	84	21	2433	3032	697262267	697261688	1.350000e-128	470
20	TraesCS1B01G258500	chr7B	81.395	602	87	20	2433	3032	696904678	696904100	4.850000e-128	468
21	TraesCS1B01G258500	chr7B	82.042	529	53	18	2684	3209	693954269	693953780	2.300000e-111	412
22	TraesCS1B01G258500	chr7B	88.253	332	36	3	950	1279	697277402	697277072	8.340000e-106	394
23	TraesCS1B01G258500	chr7B	76.849	622	128	13	1033	1642	695502277	695501660	1.430000e-88	337
24	TraesCS1B01G258500	chr7B	78.220	528	101	14	1089	1608	697402262	697402783	3.090000e-85	326
25	TraesCS1B01G258500	chr7B	76.238	606	134	5	1033	1634	697615773	697615174	2.400000e-81	313
26	TraesCS1B01G258500	chr7B	89.712	243	22	2	2432	2674	693954565	693954326	1.120000e-79	307
27	TraesCS1B01G258500	chr7B	89.778	225	22	1	2429	2653	696905208	696904985	1.460000e-73	287
28	TraesCS1B01G258500	chr7B	79.200	375	51	22	2661	3025	693255226	693254869	5.350000e-58	235
29	TraesCS1B01G258500	chr7B	84.795	171	20	4	2723	2888	697263432	697263263	1.980000e-37	167
30	TraesCS1B01G258500	chr1D	91.791	268	21	1	25	291	315637599	315637332	3.910000e-99	372
31	TraesCS1B01G258500	chr1D	91.892	259	21	0	33	291	172038751	172039009	2.350000e-96	363
32	TraesCS1B01G258500	chr4D	89.726	292	26	4	4	291	327653415	327653706	1.410000e-98	370
33	TraesCS1B01G258500	chr6D	90.672	268	24	1	24	290	273274461	273274194	3.940000e-94	355
34	TraesCS1B01G258500	chr3D	90.763	249	21	2	44	290	328214672	328214424	6.640000e-87	331
35	TraesCS1B01G258500	chr3D	92.793	222	15	1	71	291	328157791	328157570	1.440000e-83	320
36	TraesCS1B01G258500	chr3D	86.594	276	28	7	23	291	207011429	207011702	2.420000e-76	296

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	TraesCS1B01G258500	chr1B	455355280	455358488	3208	False	5927.000000	5927	100.000000	1	3209	1	chr1B.!!$F1	3208
1	TraesCS1B01G258500	chr7D	608421470	608424741	3271	False	4488.000000	4488	91.798000	1	3209	1	chr7D.!!$F3	3208
2	TraesCS1B01G258500	chr7D	610203362	610204199	837	False	1094.000000	1094	90.141000	1586	2436	1	chr7D.!!$F4	850
3	TraesCS1B01G258500	chr7D	607619219	607622331	3112	True	837.000000	1166	86.411000	1532	3032	2	chr7D.!!$R1	1500
4	TraesCS1B01G258500	chr7D	610210800	610211380	580	False	492.000000	492	82.178000	2433	3032	1	chr7D.!!$F5	599
5	TraesCS1B01G258500	chr7D	607933268	607933872	604	False	359.000000	359	77.614000	1015	1619	1	chr7D.!!$F2	604
6	TraesCS1B01G258500	chr7A	700421543	700423884	2341	False	3133.000000	3133	90.684000	800	3206	1	chr7A.!!$F1	2406
7	TraesCS1B01G258500	chr7A	699863315	699865839	2524	True	1028.000000	1808	85.101000	988	3025	2	chr7A.!!$R1	2037
8	TraesCS1B01G258500	chrUn	83446342	83447978	1636	True	2429.000000	2429	93.478000	800	2440	1	chrUn.!!$R1	1640
9	TraesCS1B01G258500	chr7B	693254869	693258746	3877	True	865.000000	1842	85.749333	892	3025	3	chr7B.!!$R4	2133
10	TraesCS1B01G258500	chr7B	700731675	700732311	636	False	725.000000	725	87.267000	1574	2213	1	chr7B.!!$F2	639
11	TraesCS1B01G258500	chr7B	697261688	697265105	3417	True	702.666667	1471	85.243333	1269	3032	3	chr7B.!!$R7	1763
12	TraesCS1B01G258500	chr7B	696904100	696909499	5399	True	613.800000	1262	87.891200	998	3032	5	chr7B.!!$R6	2034
13	TraesCS1B01G258500	chr7B	693953780	693954565	785	True	359.500000	412	85.877000	2432	3209	2	chr7B.!!$R5	777
14	TraesCS1B01G258500	chr7B	695501660	695502277	617	True	337.000000	337	76.849000	1033	1642	1	chr7B.!!$R1	609
15	TraesCS1B01G258500	chr7B	697402262	697402783	521	False	326.000000	326	78.220000	1089	1608	1	chr7B.!!$F1	519
16	TraesCS1B01G258500	chr7B	697615174	697615773	599	True	313.000000	313	76.238000	1033	1634	1	chr7B.!!$R3	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
92	94	0.110486	TCTTCCACCCAAACAGCTCC	59.890	55.0	0.0	0.0	0.0	4.70	F
980	1062	0.613260	CATTTCCCCTCCTCGACACA	59.387	55.0	0.0	0.0	0.0	3.72	F

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability	Orientation
2086	3934	1.000607	CTTCTTGACGTCCACCGAGAA	60.001	52.381	14.12	12.71	40.7	2.87	R
2631	4793	1.070601	GTGTTTGCAGGCCTTTGGATT	59.929	47.619	0.00	0.00	0.0	3.01	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	46	1.000274	CACACACACACTCATCGGAGA	60.000	52.381	0.00	0.00	44.26	3.71
52	54	1.411977	CACTCATCGGAGAGGCAAGAT	59.588	52.381	9.33	0.00	44.26	2.40
75	77	0.692756	GGCCTAGCCCTTCTTCCTCT	60.693	60.000	0.00	0.00	44.06	3.69
92	94	0.110486	TCTTCCACCCAAACAGCTCC	59.890	55.000	0.00	0.00	0.00	4.70
132	134	2.430465	AGTGCATATCATCCATTCGGC	58.570	47.619	0.00	0.00	0.00	5.54
196	199	2.016704	GTCTCGTGTCACGCACCTG	61.017	63.158	20.56	7.91	44.97	4.00
233	236	2.522436	TGGAACCCACCGACGTCT	60.522	61.111	14.70	0.00	0.00	4.18
274	277	1.153061	CCATCCCATGGCATCTGCT	59.847	57.895	6.09	0.00	44.70	4.24
278	281	1.077285	CCCATGGCATCTGCTGTGA	60.077	57.895	6.09	0.00	41.70	3.58
291	294	0.737715	GCTGTGAGATCACCACGACC	60.738	60.000	10.34	2.15	45.88	4.79
338	341	4.554363	CGACGAGCCACTAGCCGG	62.554	72.222	0.00	0.00	45.47	6.13
405	411	2.816958	CGTGCTGGTGCTGCTAGG	60.817	66.667	0.00	0.00	40.48	3.02
481	487	2.281484	GCAGGCACGACCCAAAGA	60.281	61.111	0.00	0.00	40.58	2.52
487	528	3.986006	ACGACCCAAAGAGCGCGA	61.986	61.111	12.10	0.00	0.00	5.87
500	541	4.473520	CGCGACCCCATGGCTTCT	62.474	66.667	6.09	0.00	33.59	2.85
501	542	2.514824	GCGACCCCATGGCTTCTC	60.515	66.667	6.09	0.00	33.59	2.87
502	543	2.202932	CGACCCCATGGCTTCTCG	60.203	66.667	6.09	5.25	33.59	4.04
503	544	2.514824	GACCCCATGGCTTCTCGC	60.515	66.667	6.09	0.00	38.13	5.03
504	545	4.473520	ACCCCATGGCTTCTCGCG	62.474	66.667	6.09	0.00	40.44	5.87
508	549	3.869272	CATGGCTTCTCGCGGCAC	61.869	66.667	6.13	0.00	39.87	5.01
565	608	4.812476	CGTTGGCCTCATCCGCGA	62.812	66.667	8.23	0.00	31.78	5.87
624	667	1.077716	AGCTACGGGCAATTCACCC	60.078	57.895	3.27	3.27	44.79	4.61
666	709	1.402720	GGGCGGACATGACACAAAATG	60.403	52.381	0.00	0.00	0.00	2.32
734	788	2.357637	ACCGATGACCAACACAAACAAG	59.642	45.455	0.00	0.00	0.00	3.16
738	792	4.499040	CGATGACCAACACAAACAAGAAAC	59.501	41.667	0.00	0.00	0.00	2.78
752	806	4.347813	ACAAGAAACGGACAAAATCAACG	58.652	39.130	0.00	0.00	0.00	4.10
756	810	4.334481	AGAAACGGACAAAATCAACGTCTT	59.666	37.500	0.00	0.00	36.69	3.01
776	850	3.113514	TTGGGTCACCGCTCAAGCA	62.114	57.895	2.50	0.00	42.21	3.91
777	851	3.050275	GGGTCACCGCTCAAGCAC	61.050	66.667	2.50	0.00	42.21	4.40
781	855	0.737715	GTCACCGCTCAAGCACCTAG	60.738	60.000	2.50	0.00	42.21	3.02
833	907	7.368059	AGAATTTCATTTTGTAACCGTCTTCC	58.632	34.615	0.00	0.00	0.00	3.46
963	1045	4.446413	GTTCCCGTCGGCGACCAT	62.446	66.667	31.86	0.00	41.33	3.55
980	1062	0.613260	CATTTCCCCTCCTCGACACA	59.387	55.000	0.00	0.00	0.00	3.72
981	1063	1.210478	CATTTCCCCTCCTCGACACAT	59.790	52.381	0.00	0.00	0.00	3.21
1290	1375	1.229658	CTTCCTCCCCTCCCACTGT	60.230	63.158	0.00	0.00	0.00	3.55
1583	1689	2.009042	GCATTGCGAGACTAAGCTGGT	61.009	52.381	0.00	0.00	0.00	4.00
1598	1704	2.025887	AGCTGGTCCCCTTTGTATTCTG	60.026	50.000	0.00	0.00	0.00	3.02
1860	1970	2.919328	AGGCTTGGGCTGTTTGGC	60.919	61.111	0.00	0.00	36.97	4.52
1998	3846	2.305009	GGCCTGCATTATCTCAAAGCT	58.695	47.619	0.00	0.00	0.00	3.74
2086	3934	3.788227	TGCCAGACTTGTTGGAGTATT	57.212	42.857	0.00	0.00	37.96	1.89
2259	4115	5.652452	AGTTATGTTATGCCTTTCCCTTCAC	59.348	40.000	0.00	0.00	0.00	3.18
2261	4117	4.046286	TGTTATGCCTTTCCCTTCACAT	57.954	40.909	0.00	0.00	0.00	3.21
2298	4170	7.801716	TTGTCTAATGCTTAACAGTTCAGTT	57.198	32.000	0.00	0.00	35.55	3.16
2325	4197	6.105333	GCAATTGGCCATTCTTATTTACACA	58.895	36.000	6.09	0.00	36.11	3.72
2349	4221	5.720041	AGCCTAGTAGTGGTTATGTTCTTGA	59.280	40.000	0.00	0.00	0.00	3.02
2389	4261	7.984422	AGTGAACATATTTGTGATCTGTTGA	57.016	32.000	0.00	0.00	35.83	3.18
2415	4287	6.256321	CCTGTTTGTTTCAATTCCAGTTTCAG	59.744	38.462	0.00	0.00	0.00	3.02
2465	4626	8.046708	TGCCTAATTACTGTGTTCACAGATAAT	58.953	33.333	31.09	25.02	39.99	1.28
2469	4630	7.928307	ATTACTGTGTTCACAGATAATTGCT	57.072	32.000	31.09	14.14	39.99	3.91
2486	4647	1.269988	TGCTTGAGTCACTGCTCTGAC	60.270	52.381	15.57	6.29	40.91	3.51
2582	4744	9.070179	TCACATCTATCATTTATTGATTGTGGG	57.930	33.333	14.80	7.90	44.24	4.61
2631	4793	7.996098	AGTGACTTAAGCTAGGCAATAAAAA	57.004	32.000	1.29	0.00	34.24	1.94
2764	4929	4.448395	GCATTGCAAATTACAGTGCTGAAA	59.552	37.500	16.76	0.00	44.59	2.69
2785	4950	4.071961	ACTGAACACACAACAGCATCTA	57.928	40.909	0.00	0.00	35.38	1.98
2786	4951	3.809832	ACTGAACACACAACAGCATCTAC	59.190	43.478	0.00	0.00	35.38	2.59
2787	4952	3.802866	TGAACACACAACAGCATCTACA	58.197	40.909	0.00	0.00	0.00	2.74
2788	4953	4.388485	TGAACACACAACAGCATCTACAT	58.612	39.130	0.00	0.00	0.00	2.29
2789	4954	5.546526	TGAACACACAACAGCATCTACATA	58.453	37.500	0.00	0.00	0.00	2.29
2796	4961	8.186163	CACACAACAGCATCTACATATTCAAAT	58.814	33.333	0.00	0.00	0.00	2.32
2797	4962	8.400947	ACACAACAGCATCTACATATTCAAATC	58.599	33.333	0.00	0.00	0.00	2.17
2822	4989	8.927411	TCTGGTTTAGATGAATCATACTGATGA	58.073	33.333	0.00	0.00	46.13	2.92
2839	5006	4.769688	TGATGAAACGGATGCTATTCTGT	58.230	39.130	0.00	0.00	36.79	3.41
2935	6793	3.526899	TGGACCCCAAATGTCTTCTCTA	58.473	45.455	0.00	0.00	33.22	2.43
3049	6907	3.197265	CGTGGATGTAGCATCATTGTGA	58.803	45.455	10.71	0.00	0.00	3.58
3184	7046	4.836125	TTGGATGTTCTTTTCTGAGTGC	57.164	40.909	0.00	0.00	0.00	4.40

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
18	19	0.393673	TGAGTGTGTGTGTGTTGGGG	60.394	55.000	0.00	0.00	0.00	4.96
22	24	1.138069	TCCGATGAGTGTGTGTGTGTT	59.862	47.619	0.00	0.00	0.00	3.32
29	31	0.900182	TGCCTCTCCGATGAGTGTGT	60.900	55.000	4.44	0.00	39.75	3.72
66	68	2.512056	TGTTTGGGTGGAAGAGGAAGAA	59.488	45.455	0.00	0.00	0.00	2.52
71	73	0.111253	AGCTGTTTGGGTGGAAGAGG	59.889	55.000	0.00	0.00	0.00	3.69
75	77	0.178992	CTGGAGCTGTTTGGGTGGAA	60.179	55.000	0.00	0.00	0.00	3.53
107	109	5.240891	CGAATGGATGATATGCACTAGGTT	58.759	41.667	0.00	0.00	31.88	3.50
132	134	2.108970	GGAGGTAACACCCTAGTCCTG	58.891	57.143	0.00	0.00	42.26	3.86
198	201	3.050275	GAGGTGAGGTTGGCACGC	61.050	66.667	0.00	0.00	37.13	5.34
207	210	1.679898	GTGGGTTCCAGAGGTGAGG	59.320	63.158	0.00	0.00	32.34	3.86
211	214	2.203182	TCGGTGGGTTCCAGAGGT	59.797	61.111	0.00	0.00	32.34	3.85
278	281	3.771160	GGCCGGTCGTGGTGATCT	61.771	66.667	1.90	0.00	0.00	2.75
310	313	4.717629	CTCGTCGCCGGTGAAGCA	62.718	66.667	23.92	12.95	33.95	3.91
417	423	4.969196	CGCCCATGATCCGGGTCG	62.969	72.222	10.84	15.65	46.40	4.79
455	461	3.716006	CGTGCCTGCTTGTGGTCG	61.716	66.667	0.00	0.00	0.00	4.79
458	464	3.357079	GGTCGTGCCTGCTTGTGG	61.357	66.667	0.00	0.00	0.00	4.17
462	468	1.898574	CTTTGGGTCGTGCCTGCTT	60.899	57.895	0.00	0.00	37.43	3.91
466	472	2.032681	GCTCTTTGGGTCGTGCCT	59.967	61.111	0.00	0.00	37.43	4.75
487	528	4.473520	CGCGAGAAGCCATGGGGT	62.474	66.667	15.13	0.00	44.76	4.95
531	574	4.021925	GCCCGGCAACTCTGAGGT	62.022	66.667	9.85	0.00	0.00	3.85
553	596	3.267860	CTGCTTCGCGGATGAGGC	61.268	66.667	6.13	0.00	41.00	4.70
557	600	2.169789	CACTCCTGCTTCGCGGATG	61.170	63.158	6.13	0.00	37.02	3.51
558	601	2.185350	CACTCCTGCTTCGCGGAT	59.815	61.111	6.13	0.00	37.02	4.18
565	608	2.667536	CACAGCGCACTCCTGCTT	60.668	61.111	11.47	0.00	41.77	3.91
602	645	0.178068	TGAATTGCCCGTAGCTCCTC	59.822	55.000	0.00	0.00	44.23	3.71
624	667	3.680789	GGCATTTCGTCGAAACCTTATG	58.319	45.455	21.91	16.26	34.23	1.90
709	752	2.559698	TGTGTTGGTCATCGGTTCAT	57.440	45.000	0.00	0.00	0.00	2.57
710	753	2.333688	TTGTGTTGGTCATCGGTTCA	57.666	45.000	0.00	0.00	0.00	3.18
713	756	2.045561	TGTTTGTGTTGGTCATCGGT	57.954	45.000	0.00	0.00	0.00	4.69
714	757	2.616376	TCTTGTTTGTGTTGGTCATCGG	59.384	45.455	0.00	0.00	0.00	4.18
717	760	4.420168	CGTTTCTTGTTTGTGTTGGTCAT	58.580	39.130	0.00	0.00	0.00	3.06
718	761	3.366476	CCGTTTCTTGTTTGTGTTGGTCA	60.366	43.478	0.00	0.00	0.00	4.02
719	762	3.119779	TCCGTTTCTTGTTTGTGTTGGTC	60.120	43.478	0.00	0.00	0.00	4.02
720	763	2.820787	TCCGTTTCTTGTTTGTGTTGGT	59.179	40.909	0.00	0.00	0.00	3.67
721	764	3.175929	GTCCGTTTCTTGTTTGTGTTGG	58.824	45.455	0.00	0.00	0.00	3.77
722	765	3.827625	TGTCCGTTTCTTGTTTGTGTTG	58.172	40.909	0.00	0.00	0.00	3.33
723	766	4.506886	TTGTCCGTTTCTTGTTTGTGTT	57.493	36.364	0.00	0.00	0.00	3.32
724	767	4.506886	TTTGTCCGTTTCTTGTTTGTGT	57.493	36.364	0.00	0.00	0.00	3.72
725	768	5.574830	TGATTTTGTCCGTTTCTTGTTTGTG	59.425	36.000	0.00	0.00	0.00	3.33
734	788	4.205323	AGACGTTGATTTTGTCCGTTTC	57.795	40.909	0.00	0.00	33.09	2.78
738	792	3.602390	ACAAGACGTTGATTTTGTCCG	57.398	42.857	0.00	0.00	37.10	4.79
752	806	1.227853	AGCGGTGACCCAACAAGAC	60.228	57.895	0.00	0.00	0.00	3.01
756	810	1.227823	CTTGAGCGGTGACCCAACA	60.228	57.895	0.00	0.00	0.00	3.33
766	820	1.812922	CTGCTAGGTGCTTGAGCGG	60.813	63.158	0.00	0.00	45.83	5.52
776	850	1.059913	AACTTCACTGGCTGCTAGGT	58.940	50.000	17.56	2.53	0.00	3.08
777	851	2.028112	TGTAACTTCACTGGCTGCTAGG	60.028	50.000	17.56	6.57	0.00	3.02
781	855	3.253188	TCAAATGTAACTTCACTGGCTGC	59.747	43.478	0.00	0.00	0.00	5.25
827	901	1.454653	GTACTTGTGTTCGCGGAAGAC	59.545	52.381	6.13	8.85	36.54	3.01
833	907	1.941476	GCCGAGTACTTGTGTTCGCG	61.941	60.000	9.32	0.00	36.78	5.87
901	980	2.246126	GGTGGGGTGGAAGGGGAAT	61.246	63.158	0.00	0.00	0.00	3.01
963	1045	0.902531	GATGTGTCGAGGAGGGGAAA	59.097	55.000	0.00	0.00	0.00	3.13
1290	1375	2.123468	TCCATCGGGATCCAGCGA	60.123	61.111	15.23	14.73	38.64	4.93
1583	1689	3.618997	GCTCGAACAGAATACAAAGGGGA	60.619	47.826	0.00	0.00	0.00	4.81
1598	1704	4.681978	ACTGCCCGGTGCTCGAAC	62.682	66.667	14.76	0.00	42.43	3.95
1860	1970	1.431488	CTGCGGTTCCATCACGGATG	61.431	60.000	6.85	6.85	45.80	3.51
1946	2059	2.028930	AGTGAGAACGTCTTCACCATCC	60.029	50.000	21.76	4.48	33.95	3.51
1998	3846	1.625315	AGCACATACCTCTCTGTTGCA	59.375	47.619	0.00	0.00	0.00	4.08
2086	3934	1.000607	CTTCTTGACGTCCACCGAGAA	60.001	52.381	14.12	12.71	40.70	2.87
2259	4115	7.762615	AGCATTAGACAATCCATGTGAAAAATG	59.237	33.333	0.00	0.00	44.12	2.32
2261	4117	7.230849	AGCATTAGACAATCCATGTGAAAAA	57.769	32.000	0.00	0.00	44.12	1.94
2298	4170	7.118971	GTGTAAATAAGAATGGCCAATTGCAAA	59.881	33.333	10.96	0.00	43.89	3.68
2325	4197	5.720041	TCAAGAACATAACCACTACTAGGCT	59.280	40.000	0.00	0.00	0.00	4.58
2389	4261	5.675684	AACTGGAATTGAAACAAACAGGT	57.324	34.783	0.00	0.00	0.00	4.00
2465	4626	1.413812	TCAGAGCAGTGACTCAAGCAA	59.586	47.619	14.37	0.00	39.26	3.91
2486	4647	4.531332	GCACACTGCTCTTTCTTTGTTAG	58.469	43.478	0.00	0.00	40.96	2.34
2530	4691	7.675062	AGCCTATAACTGATTTATGAGACTGG	58.325	38.462	0.00	0.00	32.31	4.00
2582	4744	9.945904	CTTAAGGAAATATATCAGGGGTTCTAC	57.054	37.037	0.00	0.00	0.00	2.59
2631	4793	1.070601	GTGTTTGCAGGCCTTTGGATT	59.929	47.619	0.00	0.00	0.00	3.01
2764	4929	2.923121	AGATGCTGTTGTGTGTTCAGT	58.077	42.857	0.00	0.00	0.00	3.41
2813	4980	6.648310	CAGAATAGCATCCGTTTCATCAGTAT	59.352	38.462	0.00	0.00	0.00	2.12
2822	4989	3.347216	AGCAACAGAATAGCATCCGTTT	58.653	40.909	0.00	0.00	0.00	3.60
2935	6793	7.296628	ACAAGACAGAAGTTTAGATCAGACT	57.703	36.000	0.00	0.00	0.00	3.24
3049	6907	3.617263	GTCTACCGCGAATTGAGAACATT	59.383	43.478	8.23	0.00	0.00	2.71
3184	7046	0.992072	CATAGACACGAACACTGCCG	59.008	55.000	0.00	0.00	0.00	5.69

Based at the University of Bristol with support from BBSRC.

AutoCloner maintained by Alex Coulton.