AutoCloner

Multiple sequence alignment - TraesCS1D01G252700

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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	TraesCS1D01G252700	chr1D	100.000	3793	0	0	1	3793	344708243	344704451	0.000000e+00	7005.0
1	TraesCS1D01G252700	chr1D	96.797	2435	56	5	1	2422	344748793	344746368	0.000000e+00	4045.0
2	TraesCS1D01G252700	chr1D	95.447	1208	52	3	2485	3690	344746366	344745160	0.000000e+00	1923.0
3	TraesCS1D01G252700	chr1D	77.396	1221	229	31	886	2092	297787816	297789003	0.000000e+00	682.0
4	TraesCS1D01G252700	chr1D	75.945	873	188	18	2162	3022	297734763	297733901	2.710000e-116	429.0
5	TraesCS1D01G252700	chr1D	75.771	875	186	17	2162	3022	297752086	297751224	5.860000e-113	418.0
6	TraesCS1D01G252700	chr1D	75.657	875	188	19	2159	3020	297814813	297815675	2.730000e-111	412.0
7	TraesCS1D01G252700	chr1D	75.639	665	111	23	2	621	297746945	297746287	2.230000e-72	283.0
8	TraesCS1D01G252700	chr1D	82.533	229	36	4	1	227	297816188	297816414	8.310000e-47	198.0
9	TraesCS1D01G252700	chr1D	78.767	292	53	8	334	621	297706670	297706384	1.800000e-43	187.0
10	TraesCS1D01G252700	chr1D	97.561	41	0	1	3410	3450	344693213	344693174	6.800000e-08	69.4
11	TraesCS1D01G252700	chr1A	92.234	1558	87	16	1	1541	444460696	444459156	0.000000e+00	2176.0
12	TraesCS1D01G252700	chr1A	94.057	1262	68	5	2152	3408	444458628	444457369	0.000000e+00	1908.0
13	TraesCS1D01G252700	chr1A	96.230	557	19	1	1582	2136	444459162	444458606	0.000000e+00	911.0
14	TraesCS1D01G252700	chr1A	76.591	1226	244	29	913	2127	370836224	370835031	5.350000e-178	634.0
15	TraesCS1D01G252700	chr1A	75.106	470	107	9	906	1368	370749372	370748906	1.070000e-50	211.0
16	TraesCS1D01G252700	chr1A	86.598	194	21	2	2840	3028	370642487	370642294	3.840000e-50	209.0
17	TraesCS1D01G252700	chr1A	78.082	292	55	8	334	621	370669100	370668814	3.890000e-40	176.0
18	TraesCS1D01G252700	chr1A	95.349	43	1	1	3408	3450	444429430	444429389	2.450000e-07	67.6
19	TraesCS1D01G252700	chrUn	95.613	1208	51	2	2485	3690	398792753	398793960	0.000000e+00	1936.0
20	TraesCS1D01G252700	chrUn	99.653	864	1	1	969	1832	375175581	375174720	0.000000e+00	1578.0
21	TraesCS1D01G252700	chrUn	95.981	622	24	1	2485	3105	375174459	375173838	0.000000e+00	1009.0
22	TraesCS1D01G252700	chrUn	100.000	412	0	0	1379	1790	477555903	477556314	0.000000e+00	761.0
23	TraesCS1D01G252700	chrUn	97.143	245	6	1	2178	2422	375174704	375174461	2.730000e-111	412.0
24	TraesCS1D01G252700	chrUn	97.510	241	6	0	2182	2422	398792511	398792751	2.730000e-111	412.0
25	TraesCS1D01G252700	chr1B	92.263	1383	74	4	1	1369	465933548	465934911	0.000000e+00	1930.0
26	TraesCS1D01G252700	chr1B	93.530	881	40	5	2152	3029	465936054	465936920	0.000000e+00	1295.0
27	TraesCS1D01G252700	chr1B	96.028	705	27	1	1429	2133	465935370	465936073	0.000000e+00	1146.0
28	TraesCS1D01G252700	chr1B	77.591	714	136	22	1417	2118	462307167	462307868	9.810000e-111	411.0
29	TraesCS1D01G252700	chr1B	76.347	668	100	32	1	621	462132492	462133148	4.760000e-79	305.0
30	TraesCS1D01G252700	chr1B	80.892	314	53	7	1816	2126	461837916	461838225	1.360000e-59	241.0
31	TraesCS1D01G252700	chr1B	79.570	279	43	10	2750	3022	461760789	461761059	1.800000e-43	187.0
32	TraesCS1D01G252700	chr1B	91.304	138	11	1	3035	3172	466324206	466324070	1.800000e-43	187.0
33	TraesCS1D01G252700	chr2D	96.562	349	11	1	3446	3793	412250101	412249753	9.140000e-161	577.0
34	TraesCS1D01G252700	chr2D	95.989	349	13	1	3446	3793	364890540	364890888	1.980000e-157	566.0
35	TraesCS1D01G252700	chr5D	95.751	353	13	2	3442	3793	280770920	280770569	5.500000e-158	568.0
36	TraesCS1D01G252700	chr5D	94.475	362	17	3	3433	3793	211862620	211862979	4.280000e-154	555.0
37	TraesCS1D01G252700	chr3D	95.989	349	13	1	3446	3793	297241208	297240860	1.980000e-157	566.0
38	TraesCS1D01G252700	chr3D	95.251	358	14	3	3437	3793	499251573	499251928	7.110000e-157	564.0
39	TraesCS1D01G252700	chr4D	95.726	351	13	2	3445	3793	328579401	328579751	7.110000e-157	564.0
40	TraesCS1D01G252700	chr7B	87.552	241	23	4	3174	3408	382612529	382612768	4.830000e-69	272.0
41	TraesCS1D01G252700	chr4A	81.132	106	15	5	3044	3148	627321470	627321369	3.140000e-11	80.5

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	TraesCS1D01G252700	chr1D	344704451	344708243	3792	True	7005.000000	7005	100.000000	1	3793	1	chr1D.!!$R6	3792
1	TraesCS1D01G252700	chr1D	344745160	344748793	3633	True	2984.000000	4045	96.122000	1	3690	2	chr1D.!!$R7	3689
2	TraesCS1D01G252700	chr1D	297787816	297789003	1187	False	682.000000	682	77.396000	886	2092	1	chr1D.!!$F1	1206
3	TraesCS1D01G252700	chr1D	297733901	297734763	862	True	429.000000	429	75.945000	2162	3022	1	chr1D.!!$R2	860
4	TraesCS1D01G252700	chr1D	297751224	297752086	862	True	418.000000	418	75.771000	2162	3022	1	chr1D.!!$R4	860
5	TraesCS1D01G252700	chr1D	297814813	297816414	1601	False	305.000000	412	79.095000	1	3020	2	chr1D.!!$F2	3019
6	TraesCS1D01G252700	chr1D	297746287	297746945	658	True	283.000000	283	75.639000	2	621	1	chr1D.!!$R3	619
7	TraesCS1D01G252700	chr1A	444457369	444460696	3327	True	1665.000000	2176	94.173667	1	3408	3	chr1A.!!$R6	3407
8	TraesCS1D01G252700	chr1A	370835031	370836224	1193	True	634.000000	634	76.591000	913	2127	1	chr1A.!!$R4	1214
9	TraesCS1D01G252700	chrUn	398792511	398793960	1449	False	1174.000000	1936	96.561500	2182	3690	2	chrUn.!!$F2	1508
10	TraesCS1D01G252700	chrUn	375173838	375175581	1743	True	999.666667	1578	97.592333	969	3105	3	chrUn.!!$R1	2136
11	TraesCS1D01G252700	chr1B	465933548	465936920	3372	False	1457.000000	1930	93.940333	1	3029	3	chr1B.!!$F5	3028
12	TraesCS1D01G252700	chr1B	462307167	462307868	701	False	411.000000	411	77.591000	1417	2118	1	chr1B.!!$F4	701
13	TraesCS1D01G252700	chr1B	462132492	462133148	656	False	305.000000	305	76.347000	1	621	1	chr1B.!!$F3	620

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
911	969	1.468914	CTTTTTGGCTACTCGGCTTCC	59.531	52.381	0.0	0.0	39.32	3.46	F
1400	1492	0.871057	TGTGTGTGTGTGTGTGTGTG	59.129	50.000	0.0	0.0	0.00	3.82	F

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability	Orientation
2789	3268	0.386985	GAACACGTCCGTCTCCTCAC	60.387	60.0	0.00	0.0	0.0	3.51	R
3168	3992	2.093783	GCACTAGACATGTTGCCGTAAC	59.906	50.0	8.74	0.0	39.8	2.50	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
606	664	3.763057	TCAGACTACACTACTTGCCAGA	58.237	45.455	0.00	0.00	0.00	3.86
911	969	1.468914	CTTTTTGGCTACTCGGCTTCC	59.531	52.381	0.00	0.00	39.32	3.46
1400	1492	0.871057	TGTGTGTGTGTGTGTGTGTG	59.129	50.000	0.00	0.00	0.00	3.82
1401	1493	0.871722	GTGTGTGTGTGTGTGTGTGT	59.128	50.000	0.00	0.00	0.00	3.72
2252	2720	7.129457	TCATATAATCTGTCTGTCTTGCCTT	57.871	36.000	0.00	0.00	0.00	4.35
2287	2755	5.693769	ACTAGTACATGTGCCACCTTAAT	57.306	39.130	9.11	0.00	0.00	1.40
2509	2981	2.361119	ACATTCCGTTCGATAGCAGCTA	59.639	45.455	4.10	4.10	0.00	3.32
2789	3268	1.244019	CCAAGGCCGAGGGAAAAGTG	61.244	60.000	8.52	0.00	0.00	3.16
2821	3300	4.862574	CGGACGTGTTCAGATTCTGATTAA	59.137	41.667	16.82	0.00	40.39	1.40
3042	3866	4.621991	CCCGTGTATCTTCCAACTATGAG	58.378	47.826	0.00	0.00	0.00	2.90
3181	4005	0.445829	TGCATCGTTACGGCAACATG	59.554	50.000	4.53	1.89	36.92	3.21
3207	4031	3.005050	AGTGCATCCATCTGTTTTGTGTG	59.995	43.478	0.00	0.00	0.00	3.82
3210	4034	3.254166	GCATCCATCTGTTTTGTGTGTCT	59.746	43.478	0.00	0.00	0.00	3.41
3261	4085	8.213518	ACGATCTAAATCATGCACTTTGTATT	57.786	30.769	0.00	0.00	31.76	1.89
3311	4135	2.550208	CCCGCTTCTGGACTAAACAACT	60.550	50.000	0.00	0.00	0.00	3.16
3381	4206	3.230134	AGACTCAACTGCTCTCTCTGTT	58.770	45.455	0.00	0.00	0.00	3.16
3455	4280	3.430218	GCATTCACACTATGTAGCGATCC	59.570	47.826	0.00	0.00	0.00	3.36
3463	4288	0.955178	ATGTAGCGATCCGACCTCAG	59.045	55.000	0.00	0.00	0.00	3.35
3481	4306	1.728971	CAGACGGTCAAATCTCTGTGC	59.271	52.381	11.27	0.00	0.00	4.57
3572	4397	8.547894	GCAATCACACACTTATTACATCGAATA	58.452	33.333	0.00	0.00	0.00	1.75
3671	4496	1.275291	GAGTCCATCAACTCCAACGGA	59.725	52.381	0.00	0.00	39.85	4.69
3685	4511	0.463654	AACGGAAAGCTGAGTGCACA	60.464	50.000	21.04	0.00	45.94	4.57
3690	4516	2.454055	GAAAGCTGAGTGCACAACAAC	58.546	47.619	21.04	13.63	45.94	3.32
3691	4517	0.378257	AAGCTGAGTGCACAACAACG	59.622	50.000	21.04	8.92	45.94	4.10
3692	4518	0.461870	AGCTGAGTGCACAACAACGA	60.462	50.000	21.04	0.00	45.94	3.85
3693	4519	0.316196	GCTGAGTGCACAACAACGAC	60.316	55.000	21.04	5.22	42.31	4.34
3694	4520	0.304705	CTGAGTGCACAACAACGACC	59.695	55.000	21.04	0.00	0.00	4.79
3695	4521	0.107897	TGAGTGCACAACAACGACCT	60.108	50.000	21.04	0.00	0.00	3.85
3696	4522	1.137282	TGAGTGCACAACAACGACCTA	59.863	47.619	21.04	0.00	0.00	3.08
3697	4523	1.792949	GAGTGCACAACAACGACCTAG	59.207	52.381	21.04	0.00	0.00	3.02
3698	4524	0.234884	GTGCACAACAACGACCTAGC	59.765	55.000	13.17	0.00	0.00	3.42
3699	4525	1.218875	TGCACAACAACGACCTAGCG	61.219	55.000	0.00	0.00	37.29	4.26
3700	4526	1.491563	CACAACAACGACCTAGCGC	59.508	57.895	0.00	0.00	33.86	5.92
3701	4527	1.068417	ACAACAACGACCTAGCGCA	59.932	52.632	11.47	0.00	33.86	6.09
3702	4528	1.219522	ACAACAACGACCTAGCGCAC	61.220	55.000	11.47	0.00	33.86	5.34
3703	4529	1.666872	AACAACGACCTAGCGCACC	60.667	57.895	11.47	0.00	33.86	5.01
3704	4530	2.095978	AACAACGACCTAGCGCACCT	62.096	55.000	11.47	0.00	33.86	4.00
3705	4531	1.374252	CAACGACCTAGCGCACCTT	60.374	57.895	11.47	0.00	33.86	3.50
3707	4533	0.108945	AACGACCTAGCGCACCTTAC	60.109	55.000	11.47	0.00	33.86	2.34
3708	4534	0.964358	ACGACCTAGCGCACCTTACT	60.964	55.000	11.47	0.00	33.86	2.24
3709	4535	0.248539	CGACCTAGCGCACCTTACTC	60.249	60.000	11.47	0.00	0.00	2.59
3710	4536	1.104630	GACCTAGCGCACCTTACTCT	58.895	55.000	11.47	0.00	0.00	3.24
3711	4537	1.477295	GACCTAGCGCACCTTACTCTT	59.523	52.381	11.47	0.00	0.00	2.85
3713	4539	1.534175	CCTAGCGCACCTTACTCTTCG	60.534	57.143	11.47	0.00	0.00	3.79
3715	4541	0.109226	AGCGCACCTTACTCTTCGTC	60.109	55.000	11.47	0.00	0.00	4.20
3716	4542	0.109226	GCGCACCTTACTCTTCGTCT	60.109	55.000	0.30	0.00	0.00	4.18
3718	4544	2.415090	GCGCACCTTACTCTTCGTCTAA	60.415	50.000	0.30	0.00	0.00	2.10
3720	4546	4.232221	CGCACCTTACTCTTCGTCTAAAA	58.768	43.478	0.00	0.00	0.00	1.52
3722	4548	5.164080	CGCACCTTACTCTTCGTCTAAAAAG	60.164	44.000	0.00	0.00	0.00	2.27
3723	4549	5.695363	GCACCTTACTCTTCGTCTAAAAAGT	59.305	40.000	0.00	0.00	0.00	2.66
3725	4551	7.146648	CACCTTACTCTTCGTCTAAAAAGTCT	58.853	38.462	0.00	0.00	0.00	3.24
3726	4552	7.115095	CACCTTACTCTTCGTCTAAAAAGTCTG	59.885	40.741	0.00	0.00	0.00	3.51
3727	4553	6.089685	CCTTACTCTTCGTCTAAAAAGTCTGC	59.910	42.308	0.00	0.00	0.00	4.26
3728	4554	4.945246	ACTCTTCGTCTAAAAAGTCTGCA	58.055	39.130	0.00	0.00	0.00	4.41
3729	4555	5.357257	ACTCTTCGTCTAAAAAGTCTGCAA	58.643	37.500	0.00	0.00	0.00	4.08
3730	4556	5.234543	ACTCTTCGTCTAAAAAGTCTGCAAC	59.765	40.000	0.00	0.00	0.00	4.17
3731	4557	5.113383	TCTTCGTCTAAAAAGTCTGCAACA	58.887	37.500	0.00	0.00	0.00	3.33
3734	4560	7.439955	TCTTCGTCTAAAAAGTCTGCAACATAA	59.560	33.333	0.00	0.00	0.00	1.90
3735	4561	7.667043	TCGTCTAAAAAGTCTGCAACATAAT	57.333	32.000	0.00	0.00	0.00	1.28
3736	4562	8.766000	TCGTCTAAAAAGTCTGCAACATAATA	57.234	30.769	0.00	0.00	0.00	0.98
3737	4563	8.653338	TCGTCTAAAAAGTCTGCAACATAATAC	58.347	33.333	0.00	0.00	0.00	1.89
3739	4565	8.440833	GTCTAAAAAGTCTGCAACATAATACGT	58.559	33.333	0.00	0.00	0.00	3.57
3740	4566	8.995220	TCTAAAAAGTCTGCAACATAATACGTT	58.005	29.630	0.00	0.00	0.00	3.99
3741	4567	7.851822	AAAAAGTCTGCAACATAATACGTTG	57.148	32.000	0.00	0.00	45.25	4.10
3742	4568	6.554334	AAAGTCTGCAACATAATACGTTGT	57.446	33.333	0.00	0.00	44.49	3.32
3743	4569	7.661127	AAAGTCTGCAACATAATACGTTGTA	57.339	32.000	0.00	0.00	44.49	2.41
3746	4572	4.833126	CTGCAACATAATACGTTGTAGCC	58.167	43.478	4.58	0.00	45.62	3.93
3747	4573	3.623960	TGCAACATAATACGTTGTAGCCC	59.376	43.478	0.00	0.00	44.49	5.19
3748	4574	3.302870	GCAACATAATACGTTGTAGCCCG	60.303	47.826	0.00	0.00	44.49	6.13
3749	4575	4.114073	CAACATAATACGTTGTAGCCCGA	58.886	43.478	0.00	0.00	39.11	5.14
3750	4576	4.389890	ACATAATACGTTGTAGCCCGAA	57.610	40.909	0.00	0.00	0.00	4.30
3751	4577	4.757594	ACATAATACGTTGTAGCCCGAAA	58.242	39.130	0.00	0.00	0.00	3.46
3752	4578	4.567959	ACATAATACGTTGTAGCCCGAAAC	59.432	41.667	0.00	0.00	0.00	2.78
3763	4589	2.280524	CCGAAACGGGTCAGCACA	60.281	61.111	2.00	0.00	44.15	4.57
3764	4590	1.671054	CCGAAACGGGTCAGCACAT	60.671	57.895	2.00	0.00	44.15	3.21
3765	4591	1.497278	CGAAACGGGTCAGCACATG	59.503	57.895	0.00	0.00	0.00	3.21
3766	4592	1.875963	GAAACGGGTCAGCACATGG	59.124	57.895	0.00	0.00	0.00	3.66
3767	4593	0.605319	GAAACGGGTCAGCACATGGA	60.605	55.000	0.00	0.00	0.00	3.41
3768	4594	0.179004	AAACGGGTCAGCACATGGAA	60.179	50.000	0.00	0.00	0.00	3.53
3769	4595	0.038166	AACGGGTCAGCACATGGAAT	59.962	50.000	0.00	0.00	0.00	3.01
3770	4596	0.908910	ACGGGTCAGCACATGGAATA	59.091	50.000	0.00	0.00	0.00	1.75
3771	4597	1.490490	ACGGGTCAGCACATGGAATAT	59.510	47.619	0.00	0.00	0.00	1.28
3772	4598	1.875514	CGGGTCAGCACATGGAATATG	59.124	52.381	0.00	0.00	0.00	1.78
3773	4599	1.610522	GGGTCAGCACATGGAATATGC	59.389	52.381	0.00	0.00	39.74	3.14
3780	4606	4.572985	GCACATGGAATATGCTAGCAAA	57.427	40.909	23.54	0.00	36.40	3.68
3781	4607	4.935702	GCACATGGAATATGCTAGCAAAA	58.064	39.130	23.54	13.65	36.40	2.44
3782	4608	5.535333	GCACATGGAATATGCTAGCAAAAT	58.465	37.500	23.54	15.43	36.40	1.82
3783	4609	6.680810	GCACATGGAATATGCTAGCAAAATA	58.319	36.000	23.54	10.42	36.40	1.40
3784	4610	7.147312	GCACATGGAATATGCTAGCAAAATAA	58.853	34.615	23.54	6.66	36.40	1.40
3785	4611	7.115378	GCACATGGAATATGCTAGCAAAATAAC	59.885	37.037	23.54	14.01	36.40	1.89
3786	4612	8.136800	CACATGGAATATGCTAGCAAAATAACA	58.863	33.333	23.54	18.42	0.00	2.41
3787	4613	8.137437	ACATGGAATATGCTAGCAAAATAACAC	58.863	33.333	23.54	8.12	0.00	3.32
3788	4614	7.880160	TGGAATATGCTAGCAAAATAACACT	57.120	32.000	23.54	4.02	0.00	3.55
3789	4615	7.706159	TGGAATATGCTAGCAAAATAACACTG	58.294	34.615	23.54	0.00	0.00	3.66
3790	4616	7.339212	TGGAATATGCTAGCAAAATAACACTGT	59.661	33.333	23.54	2.62	0.00	3.55
3791	4617	8.836413	GGAATATGCTAGCAAAATAACACTGTA	58.164	33.333	23.54	5.07	0.00	2.74
3792	4618	9.869844	GAATATGCTAGCAAAATAACACTGTAG	57.130	33.333	23.54	0.00	0.00	2.74

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
696	754	4.624452	GGTTTGCTTACTCCTAGTTGTACG	59.376	45.833	0.00	0.00	0.00	3.67
911	969	5.649395	TCAATGGAGTGATAGGAAAAAGCTG	59.351	40.000	0.00	0.00	0.00	4.24
2241	2709	5.003804	AGTTGGTTGTATAAGGCAAGACAG	58.996	41.667	0.00	0.00	0.00	3.51
2252	2720	8.192774	GCACATGTACTAGTAGTTGGTTGTATA	58.807	37.037	8.40	0.00	0.00	1.47
2501	2973	2.159179	TGACCCAGATGTAGCTGCTA	57.841	50.000	5.02	5.02	34.56	3.49
2509	2981	2.107204	GCCTTATCCATGACCCAGATGT	59.893	50.000	0.00	0.00	0.00	3.06
2603	3075	1.076332	CGTTGGGCAGCAAGTAGTAC	58.924	55.000	0.00	0.00	0.00	2.73
2789	3268	0.386985	GAACACGTCCGTCTCCTCAC	60.387	60.000	0.00	0.00	0.00	3.51
2821	3300	2.737180	CCGCTCGGATGGTAGCAT	59.263	61.111	7.23	7.23	38.70	3.79
2852	3331	6.267014	TCATACTTCCATAGTACCTAGTTGCC	59.733	42.308	0.00	0.00	41.99	4.52
3168	3992	2.093783	GCACTAGACATGTTGCCGTAAC	59.906	50.000	8.74	0.00	39.80	2.50
3181	4005	4.697352	ACAAAACAGATGGATGCACTAGAC	59.303	41.667	0.00	0.00	0.00	2.59
3207	4031	5.119694	GGAGAATGGAAAGGATACACAGAC	58.880	45.833	0.00	0.00	41.41	3.51
3210	4034	4.536090	AGTGGAGAATGGAAAGGATACACA	59.464	41.667	0.00	0.00	41.41	3.72
3261	4085	8.871862	GCTAAATGCAAATATTCATTGTGTTGA	58.128	29.630	0.00	0.00	42.31	3.18
3463	4288	1.795768	TGCACAGAGATTTGACCGTC	58.204	50.000	0.00	0.00	0.00	4.79
3481	4306	3.555795	CCGATCCAGGGATGACACTTATG	60.556	52.174	5.35	0.00	34.60	1.90
3614	4439	9.547753	GATGCTTCCACAGTTATCTTATTTAGA	57.452	33.333	0.00	0.00	37.28	2.10
3615	4440	8.491152	CGATGCTTCCACAGTTATCTTATTTAG	58.509	37.037	0.00	0.00	0.00	1.85
3631	4456	2.028839	TCGTTTACCTTCGATGCTTCCA	60.029	45.455	0.00	0.00	0.00	3.53
3671	4496	1.202177	CGTTGTTGTGCACTCAGCTTT	60.202	47.619	19.41	0.00	45.94	3.51
3685	4511	1.666872	GGTGCGCTAGGTCGTTGTT	60.667	57.895	9.73	0.00	0.00	2.83
3690	4516	0.248539	GAGTAAGGTGCGCTAGGTCG	60.249	60.000	9.73	0.00	0.00	4.79
3691	4517	1.104630	AGAGTAAGGTGCGCTAGGTC	58.895	55.000	9.73	0.00	0.00	3.85
3692	4518	1.477295	GAAGAGTAAGGTGCGCTAGGT	59.523	52.381	9.73	0.00	0.00	3.08
3693	4519	1.534175	CGAAGAGTAAGGTGCGCTAGG	60.534	57.143	9.73	0.00	0.00	3.02
3694	4520	1.132643	ACGAAGAGTAAGGTGCGCTAG	59.867	52.381	9.73	0.00	0.00	3.42
3695	4521	1.131883	GACGAAGAGTAAGGTGCGCTA	59.868	52.381	9.73	0.00	0.00	4.26
3696	4522	0.109226	GACGAAGAGTAAGGTGCGCT	60.109	55.000	9.73	0.00	0.00	5.92
3697	4523	0.109226	AGACGAAGAGTAAGGTGCGC	60.109	55.000	0.00	0.00	0.00	6.09
3698	4524	3.482722	TTAGACGAAGAGTAAGGTGCG	57.517	47.619	0.00	0.00	0.00	5.34
3699	4525	5.695363	ACTTTTTAGACGAAGAGTAAGGTGC	59.305	40.000	0.00	0.00	0.00	5.01
3700	4526	7.115095	CAGACTTTTTAGACGAAGAGTAAGGTG	59.885	40.741	0.00	0.00	0.00	4.00
3701	4527	7.146648	CAGACTTTTTAGACGAAGAGTAAGGT	58.853	38.462	0.00	0.00	0.00	3.50
3702	4528	6.089685	GCAGACTTTTTAGACGAAGAGTAAGG	59.910	42.308	0.00	0.00	0.00	2.69
3703	4529	6.641314	TGCAGACTTTTTAGACGAAGAGTAAG	59.359	38.462	0.00	0.00	0.00	2.34
3704	4530	6.509656	TGCAGACTTTTTAGACGAAGAGTAA	58.490	36.000	0.00	0.00	0.00	2.24
3705	4531	6.080648	TGCAGACTTTTTAGACGAAGAGTA	57.919	37.500	0.00	0.00	0.00	2.59
3707	4533	5.234329	TGTTGCAGACTTTTTAGACGAAGAG	59.766	40.000	0.00	0.00	0.00	2.85
3708	4534	5.113383	TGTTGCAGACTTTTTAGACGAAGA	58.887	37.500	0.00	0.00	0.00	2.87
3709	4535	5.403897	TGTTGCAGACTTTTTAGACGAAG	57.596	39.130	0.00	0.00	0.00	3.79
3710	4536	7.485418	TTATGTTGCAGACTTTTTAGACGAA	57.515	32.000	0.00	0.00	0.00	3.85
3711	4537	7.667043	ATTATGTTGCAGACTTTTTAGACGA	57.333	32.000	0.00	0.00	0.00	4.20
3713	4539	8.440833	ACGTATTATGTTGCAGACTTTTTAGAC	58.559	33.333	0.00	0.00	0.00	2.59
3715	4541	9.051027	CAACGTATTATGTTGCAGACTTTTTAG	57.949	33.333	14.17	0.00	38.15	1.85
3716	4542	8.561212	ACAACGTATTATGTTGCAGACTTTTTA	58.439	29.630	22.77	0.00	46.24	1.52
3718	4544	6.966021	ACAACGTATTATGTTGCAGACTTTT	58.034	32.000	22.77	4.24	46.24	2.27
3720	4546	6.183360	GCTACAACGTATTATGTTGCAGACTT	60.183	38.462	24.03	10.93	46.24	3.01
3722	4548	5.490213	GCTACAACGTATTATGTTGCAGAC	58.510	41.667	24.03	15.19	46.24	3.51
3723	4549	4.569162	GGCTACAACGTATTATGTTGCAGA	59.431	41.667	24.03	12.71	46.24	4.26
3725	4551	3.623960	GGGCTACAACGTATTATGTTGCA	59.376	43.478	22.77	13.12	46.24	4.08
3726	4552	3.302870	CGGGCTACAACGTATTATGTTGC	60.303	47.826	22.77	13.73	46.24	4.17
3728	4554	4.389890	TCGGGCTACAACGTATTATGTT	57.610	40.909	0.00	0.00	0.00	2.71
3729	4555	4.389890	TTCGGGCTACAACGTATTATGT	57.610	40.909	0.00	0.00	0.00	2.29
3730	4556	4.317558	CGTTTCGGGCTACAACGTATTATG	60.318	45.833	0.00	0.00	38.75	1.90
3731	4557	3.798337	CGTTTCGGGCTACAACGTATTAT	59.202	43.478	0.00	0.00	38.75	1.28
3734	4560	1.632422	CGTTTCGGGCTACAACGTAT	58.368	50.000	0.00	0.00	38.75	3.06
3735	4561	0.388391	CCGTTTCGGGCTACAACGTA	60.388	55.000	12.30	0.00	44.15	3.57
3736	4562	1.665599	CCGTTTCGGGCTACAACGT	60.666	57.895	12.30	0.00	44.15	3.99
3737	4563	3.161817	CCGTTTCGGGCTACAACG	58.838	61.111	0.00	8.13	44.15	4.10
3747	4573	1.497278	CATGTGCTGACCCGTTTCG	59.503	57.895	0.00	0.00	0.00	3.46
3748	4574	0.605319	TCCATGTGCTGACCCGTTTC	60.605	55.000	0.00	0.00	0.00	2.78
3749	4575	0.179004	TTCCATGTGCTGACCCGTTT	60.179	50.000	0.00	0.00	0.00	3.60
3750	4576	0.038166	ATTCCATGTGCTGACCCGTT	59.962	50.000	0.00	0.00	0.00	4.44
3751	4577	0.908910	TATTCCATGTGCTGACCCGT	59.091	50.000	0.00	0.00	0.00	5.28
3752	4578	1.875514	CATATTCCATGTGCTGACCCG	59.124	52.381	0.00	0.00	0.00	5.28
3753	4579	1.610522	GCATATTCCATGTGCTGACCC	59.389	52.381	0.00	0.00	43.11	4.46
3759	4585	4.572985	TTTGCTAGCATATTCCATGTGC	57.427	40.909	20.13	0.00	46.26	4.57
3760	4586	8.136800	TGTTATTTTGCTAGCATATTCCATGTG	58.863	33.333	20.13	0.00	0.00	3.21
3761	4587	8.137437	GTGTTATTTTGCTAGCATATTCCATGT	58.863	33.333	20.13	0.45	0.00	3.21
3762	4588	8.355169	AGTGTTATTTTGCTAGCATATTCCATG	58.645	33.333	20.13	0.00	0.00	3.66
3763	4589	8.355169	CAGTGTTATTTTGCTAGCATATTCCAT	58.645	33.333	20.13	6.77	0.00	3.41
3764	4590	7.339212	ACAGTGTTATTTTGCTAGCATATTCCA	59.661	33.333	20.13	8.68	0.00	3.53
3765	4591	7.707104	ACAGTGTTATTTTGCTAGCATATTCC	58.293	34.615	20.13	6.08	0.00	3.01
3766	4592	9.869844	CTACAGTGTTATTTTGCTAGCATATTC	57.130	33.333	20.13	11.71	0.00	1.75

Based at the University of Bristol with support from BBSRC.

AutoCloner maintained by Alex Coulton.