AutoCloner

Multiple sequence alignment - TraesCS7A01G106500

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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	TraesCS7A01G106500	chr7A	100.000	3542	0	0	1	3542	64626265	64622724	0.000000e+00	6541.0
1	TraesCS7A01G106500	chr7A	83.544	237	20	10	3172	3397	47972716	47972944	1.670000e-48	204.0
2	TraesCS7A01G106500	chr7A	83.974	156	24	1	361	515	138723916	138723761	7.920000e-32	148.0
3	TraesCS7A01G106500	chr7A	83.942	137	19	3	2742	2875	606634311	606634175	1.030000e-25	128.0
4	TraesCS7A01G106500	chr7B	92.311	2536	128	28	1	2500	2896677	2894173	0.000000e+00	3541.0
5	TraesCS7A01G106500	chr7B	89.165	683	50	8	2872	3542	694766251	694765581	0.000000e+00	830.0
6	TraesCS7A01G106500	chr7B	86.982	676	50	18	2879	3542	329035041	329035690	0.000000e+00	726.0
7	TraesCS7A01G106500	chr7B	90.887	406	21	6	2480	2882	2892715	2892323	6.730000e-147	531.0
8	TraesCS7A01G106500	chr7B	92.692	260	17	2	2625	2882	2892964	2893223	1.200000e-99	374.0
9	TraesCS7A01G106500	chr7B	82.394	142	20	4	2744	2882	594274265	594274126	6.210000e-23	119.0
10	TraesCS7A01G106500	chr7D	91.797	2487	126	32	427	2882	60303507	60301068	0.000000e+00	3391.0
11	TraesCS7A01G106500	chr7D	87.938	257	22	2	1	249	60328218	60327963	9.620000e-76	294.0
12	TraesCS7A01G106500	chr7D	85.870	184	18	6	246	423	60326451	60326270	4.670000e-44	189.0
13	TraesCS7A01G106500	chr2B	88.559	673	52	10	2882	3542	764504480	764503821	0.000000e+00	793.0
14	TraesCS7A01G106500	chr2B	80.970	268	39	9	2121	2387	656512688	656512944	6.000000e-48	202.0
15	TraesCS7A01G106500	chr2B	77.821	257	45	12	2888	3138	154247364	154247614	7.920000e-32	148.0
16	TraesCS7A01G106500	chr2B	80.851	141	26	1	2743	2882	770764661	770764521	3.740000e-20	110.0
17	TraesCS7A01G106500	chr3B	87.240	674	62	8	2882	3542	674454707	674455369	0.000000e+00	747.0
18	TraesCS7A01G106500	chr3B	79.070	215	37	8	2888	3097	424132297	424132086	1.330000e-29	141.0
19	TraesCS7A01G106500	chr3B	79.710	138	17	11	2888	3020	508208807	508208676	4.870000e-14	89.8
20	TraesCS7A01G106500	chr1A	84.906	212	24	6	2158	2362	10152062	10152272	1.290000e-49	207.0
21	TraesCS7A01G106500	chr1A	80.625	160	28	2	361	518	471710448	471710606	1.730000e-23	121.0
22	TraesCS7A01G106500	chr1A	82.353	136	20	4	2743	2875	499928287	499928421	8.040000e-22	115.0
23	TraesCS7A01G106500	chr6D	84.177	158	24	1	361	517	429134301	429134144	6.120000e-33	152.0
24	TraesCS7A01G106500	chr1D	81.522	184	28	4	2187	2364	8857593	8857776	2.850000e-31	147.0
25	TraesCS7A01G106500	chr1D	81.522	184	28	4	2187	2364	8870448	8870631	2.850000e-31	147.0
26	TraesCS7A01G106500	chr1D	81.522	184	28	4	2187	2364	8883306	8883489	2.850000e-31	147.0
27	TraesCS7A01G106500	chr1D	84.211	57	9	0	26	82	442046014	442046070	4.940000e-04	56.5
28	TraesCS7A01G106500	chr5D	81.646	158	27	2	361	517	324368425	324368581	2.870000e-26	130.0
29	TraesCS7A01G106500	chr5D	75.622	201	41	8	2888	3084	179916002	179915806	3.760000e-15	93.5
30	TraesCS7A01G106500	chr5B	81.013	158	28	2	361	517	375795861	375796017	1.340000e-24	124.0
31	TraesCS7A01G106500	chr6A	80.503	159	27	3	361	517	538026638	538026482	6.210000e-23	119.0
32	TraesCS7A01G106500	chr5A	89.691	97	5	3	2888	2983	381701386	381701294	6.210000e-23	119.0
33	TraesCS7A01G106500	chr4A	80.380	158	30	1	361	517	578106713	578106556	6.210000e-23	119.0
34	TraesCS7A01G106500	chr4A	82.222	135	21	3	2743	2875	597343956	597343823	2.890000e-21	113.0
35	TraesCS7A01G106500	chr4B	79.747	158	30	2	361	517	660085184	660085028	2.890000e-21	113.0
36	TraesCS7A01G106500	chr1B	80.851	141	24	3	2744	2882	99886340	99886201	1.340000e-19	108.0
37	TraesCS7A01G106500	chr6B	72.802	364	79	12	1179	1534	1019249	1019600	4.840000e-19	106.0

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	TraesCS7A01G106500	chr7A	64622724	64626265	3541	True	6541.0	6541	100.000	1	3542	1	chr7A.!!$R1	3541
1	TraesCS7A01G106500	chr7B	2892323	2896677	4354	True	2036.0	3541	91.599	1	2882	2	chr7B.!!$R3	2881
2	TraesCS7A01G106500	chr7B	694765581	694766251	670	True	830.0	830	89.165	2872	3542	1	chr7B.!!$R2	670
3	TraesCS7A01G106500	chr7B	329035041	329035690	649	False	726.0	726	86.982	2879	3542	1	chr7B.!!$F2	663
4	TraesCS7A01G106500	chr7D	60301068	60303507	2439	True	3391.0	3391	91.797	427	2882	1	chr7D.!!$R1	2455
5	TraesCS7A01G106500	chr7D	60326270	60328218	1948	True	241.5	294	86.904	1	423	2	chr7D.!!$R2	422
6	TraesCS7A01G106500	chr2B	764503821	764504480	659	True	793.0	793	88.559	2882	3542	1	chr2B.!!$R1	660
7	TraesCS7A01G106500	chr3B	674454707	674455369	662	False	747.0	747	87.240	2882	3542	1	chr3B.!!$F1	660

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	Hairpin	End Stability	Orientation
487	2016	1.226688	CGCACCATCGTCATCGTCT	60.227	57.895	38.33	4.18	F
766	2316	1.990799	TCGACTCAAACCTATGTGCG	58.009	50.000	0.00	5.34	F
2432	3996	0.873054	TCGTCACTCGTCAGAACTCC	59.127	55.000	40.80	3.85	F

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	End Stability	Orientation
1818	3379	0.739813	GCCAGATGAAGCCGTACGTT	60.740	55.0	15.21	2.23	3.99	R
2460	4024	0.966920	ACGGAAGACTTGACCATCGT	59.033	50.0	0.00	0.00	3.73	R
3462	6538	1.028330	CGGCAGAGCACATGTGGAAT	61.028	55.0	26.55	1.21	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
42	43	4.229096	CAAATGTCATTCCGTGGTGAAAG	58.771	43.478	0.00	0.00	0.00	2.62
125	126	8.902806	GGTTTTCAATTTCCTTTTTGGATTTCT	58.097	29.630	0.00	0.00	45.68	2.52
282	1806	1.825474	GAGAGGACCGTTGGAATCAGA	59.175	52.381	0.00	0.00	0.00	3.27
289	1813	3.660865	ACCGTTGGAATCAGACTACAAC	58.339	45.455	0.00	0.00	38.36	3.32
401	1930	8.531146	TCATCACAGTACAATGAATGTTAGAGA	58.469	33.333	3.48	0.00	43.63	3.10
425	1954	6.503589	TGATAAAAATTACAACCAGGTCCG	57.496	37.500	0.00	0.00	0.00	4.79
485	2014	2.571757	ACGCACCATCGTCATCGT	59.428	55.556	0.00	0.00	38.44	3.73
487	2016	1.226688	CGCACCATCGTCATCGTCT	60.227	57.895	0.00	0.00	38.33	4.18
524	2053	2.482839	CGGGCAAACCTTGTGAAATGTT	60.483	45.455	0.00	0.00	36.97	2.71
527	2057	4.051237	GGCAAACCTTGTGAAATGTTCTC	58.949	43.478	0.00	0.00	0.00	2.87
539	2085	5.458452	GTGAAATGTTCTCAAAAATCGTGCA	59.542	36.000	0.00	0.00	0.00	4.57
604	2150	4.173256	CCATTTGTGAGCCGGATAAAAAC	58.827	43.478	5.05	0.00	0.00	2.43
630	2176	7.641411	CGAGAAAATTATAGTGCCACAATTCAG	59.359	37.037	0.00	0.00	0.00	3.02
644	2191	8.087750	TGCCACAATTCAGGTCTTAAATTTAAG	58.912	33.333	25.70	25.70	41.10	1.85
743	2293	4.695217	TTGCGAAATTTCTCATGGGTAC	57.305	40.909	15.92	0.00	0.00	3.34
754	2304	4.725490	TCTCATGGGTACATATCGACTCA	58.275	43.478	0.00	0.00	34.99	3.41
766	2316	1.990799	TCGACTCAAACCTATGTGCG	58.009	50.000	0.00	0.00	0.00	5.34
768	2318	2.066262	CGACTCAAACCTATGTGCGTT	58.934	47.619	0.00	0.00	0.00	4.84
772	2322	5.163893	CGACTCAAACCTATGTGCGTTATTT	60.164	40.000	0.00	0.00	0.00	1.40
1085	2640	4.135153	GCGCTCTCTCCCGCTCAA	62.135	66.667	0.00	0.00	46.14	3.02
1087	2642	2.185608	GCTCTCTCCCGCTCAACC	59.814	66.667	0.00	0.00	0.00	3.77
1166	2721	3.248171	GGATCAGCACGACGACGC	61.248	66.667	7.30	3.61	43.96	5.19
1167	2722	3.248171	GATCAGCACGACGACGCC	61.248	66.667	7.30	0.00	43.96	5.68
1168	2723	3.964221	GATCAGCACGACGACGCCA	62.964	63.158	7.30	0.00	43.96	5.69
1169	2724	3.356639	ATCAGCACGACGACGCCAT	62.357	57.895	7.30	0.00	43.96	4.40
1170	2725	3.842126	CAGCACGACGACGCCATG	61.842	66.667	7.30	0.00	43.96	3.66
1263	2824	4.386951	CGCATCACCCCCGACACA	62.387	66.667	0.00	0.00	0.00	3.72
1264	2825	2.746277	GCATCACCCCCGACACAC	60.746	66.667	0.00	0.00	0.00	3.82
1266	2827	3.327404	ATCACCCCCGACACACCC	61.327	66.667	0.00	0.00	0.00	4.61
1293	2854	2.351244	CGAGCTCCACTACCAGCCA	61.351	63.158	8.47	0.00	36.17	4.75
1320	2881	3.414700	GTCAGCTTCACCGTGGCG	61.415	66.667	0.00	0.00	0.00	5.69
1680	3241	3.708220	GAAGCTCCTCAGGTCGCCG	62.708	68.421	4.41	0.00	0.00	6.46
1852	3413	1.949847	CTGGCACTGCTACTACCGCT	61.950	60.000	0.00	0.00	0.00	5.52
2419	3983	2.248431	GCGCAGGTTTGTCGTCAC	59.752	61.111	0.30	0.00	0.00	3.67
2420	3984	2.244651	GCGCAGGTTTGTCGTCACT	61.245	57.895	0.30	0.00	0.00	3.41
2421	3985	1.853319	CGCAGGTTTGTCGTCACTC	59.147	57.895	0.00	0.00	0.00	3.51
2422	3986	1.853319	GCAGGTTTGTCGTCACTCG	59.147	57.895	0.00	0.00	41.41	4.18
2427	3991	1.268896	GGTTTGTCGTCACTCGTCAGA	60.269	52.381	0.00	0.00	38.57	3.27
2428	3992	2.456989	GTTTGTCGTCACTCGTCAGAA	58.543	47.619	0.00	0.00	38.57	3.02
2429	3993	2.115348	TTGTCGTCACTCGTCAGAAC	57.885	50.000	0.00	0.00	38.57	3.01
2430	3994	1.306148	TGTCGTCACTCGTCAGAACT	58.694	50.000	0.00	0.00	40.80	3.01
2431	3995	1.263484	TGTCGTCACTCGTCAGAACTC	59.737	52.381	0.00	0.00	40.80	3.01
2432	3996	0.873054	TCGTCACTCGTCAGAACTCC	59.127	55.000	0.00	0.00	40.80	3.85
2444	4008	4.616373	CGTCAGAACTCCAAAGTCTACTCC	60.616	50.000	0.00	0.00	33.48	3.85
2447	4011	4.081917	CAGAACTCCAAAGTCTACTCCCTC	60.082	50.000	0.00	0.00	33.48	4.30
2450	4014	4.494591	ACTCCAAAGTCTACTCCCTCTTT	58.505	43.478	0.00	0.00	0.00	2.52
2452	4016	5.369993	ACTCCAAAGTCTACTCCCTCTTTTT	59.630	40.000	0.00	0.00	0.00	1.94
2478	4042	1.630148	GACGATGGTCAAGTCTTCCG	58.370	55.000	2.59	0.00	42.91	4.30
2510	5544	4.811557	CGGTCAAGTCTTCTTCACTTCTTT	59.188	41.667	0.00	0.00	31.40	2.52
2511	5545	5.050702	CGGTCAAGTCTTCTTCACTTCTTTC	60.051	44.000	0.00	0.00	31.40	2.62
2514	5548	7.066404	GGTCAAGTCTTCTTCACTTCTTTCTTT	59.934	37.037	0.00	0.00	31.40	2.52
2521	5555	9.103861	TCTTCTTCACTTCTTTCTTTCTTTCTC	57.896	33.333	0.00	0.00	0.00	2.87
2533	5567	7.897575	TTCTTTCTTTCTCTTGCAGATACTC	57.102	36.000	0.00	0.00	0.00	2.59
2534	5568	6.402222	TCTTTCTTTCTCTTGCAGATACTCC	58.598	40.000	0.00	0.00	0.00	3.85
2535	5569	6.212388	TCTTTCTTTCTCTTGCAGATACTCCT	59.788	38.462	0.00	0.00	0.00	3.69
2704	5739	1.134367	ACTATGCTATGCACGTGTCGT	59.866	47.619	18.38	12.99	43.04	4.34
2749	5785	6.683974	TTCAACACTACGTACTATACTCCC	57.316	41.667	0.00	0.00	0.00	4.30
2752	5788	4.967036	ACACTACGTACTATACTCCCTCC	58.033	47.826	0.00	0.00	0.00	4.30
2753	5789	4.410228	ACACTACGTACTATACTCCCTCCA	59.590	45.833	0.00	0.00	0.00	3.86
2762	5798	8.244802	CGTACTATACTCCCTCCATTCTAAATG	58.755	40.741	0.00	0.00	0.00	2.32
2766	5802	9.930693	CTATACTCCCTCCATTCTAAATGTAAC	57.069	37.037	0.00	0.00	0.00	2.50
2969	6006	1.612950	TGTTTGGATGCGCACTGAAAT	59.387	42.857	14.90	0.00	0.00	2.17
2985	6022	4.828939	ACTGAAATGCCAGACTGAAATGAA	59.171	37.500	3.32	0.00	37.59	2.57
3006	6043	7.615582	TGAATCTCAATACAGAAGCGAATTT	57.384	32.000	0.00	0.00	0.00	1.82
3017	6054	1.790387	GCGAATTTGCTCTCACGCT	59.210	52.632	10.62	0.00	42.19	5.07
3021	6058	1.021390	AATTTGCTCTCACGCTCGGG	61.021	55.000	0.00	0.00	0.00	5.14
3146	6200	4.308458	CCCCACGCGTGACCAAGA	62.308	66.667	39.10	0.00	0.00	3.02
3211	6266	2.511145	CAAGCTCCTCTCGCTGGC	60.511	66.667	0.00	0.00	37.87	4.85
3237	6295	1.452651	CTCCTCCTACGCCGGTACA	60.453	63.158	1.90	0.00	0.00	2.90
3247	6305	3.087253	CCGGTACAGGCATCCCCA	61.087	66.667	0.00	0.00	35.39	4.96
3301	6376	0.841961	CCCATCTCCTCTGCCATCAA	59.158	55.000	0.00	0.00	0.00	2.57
3321	6397	1.109920	GTCTCCTCTGCCGCTCCATA	61.110	60.000	0.00	0.00	0.00	2.74
3375	6451	3.842923	CACCGCCGCTCCTCATCT	61.843	66.667	0.00	0.00	0.00	2.90
3390	6466	3.565307	CTCATCTTCTACCTCTGCTCCT	58.435	50.000	0.00	0.00	0.00	3.69
3398	6474	1.963985	ACCTCTGCTCCTTCATCCTT	58.036	50.000	0.00	0.00	0.00	3.36
3399	6475	1.836802	ACCTCTGCTCCTTCATCCTTC	59.163	52.381	0.00	0.00	0.00	3.46
3400	6476	1.202510	CCTCTGCTCCTTCATCCTTCG	60.203	57.143	0.00	0.00	0.00	3.79
3401	6477	0.826715	TCTGCTCCTTCATCCTTCGG	59.173	55.000	0.00	0.00	0.00	4.30
3402	6478	0.539051	CTGCTCCTTCATCCTTCGGT	59.461	55.000	0.00	0.00	0.00	4.69
3403	6479	0.537188	TGCTCCTTCATCCTTCGGTC	59.463	55.000	0.00	0.00	0.00	4.79
3404	6480	0.179070	GCTCCTTCATCCTTCGGTCC	60.179	60.000	0.00	0.00	0.00	4.46
3405	6481	1.490574	CTCCTTCATCCTTCGGTCCT	58.509	55.000	0.00	0.00	0.00	3.85
3421	6497	2.350895	CTTCCATGCCACCGGACA	59.649	61.111	9.46	3.23	0.00	4.02
3454	6530	3.090532	GCCGGTTCCCCCATCTCT	61.091	66.667	1.90	0.00	0.00	3.10
3462	6538	0.043183	TCCCCCATCTCTTCTGCTCA	59.957	55.000	0.00	0.00	0.00	4.26
3485	6569	3.057548	CATGTGCTCTGCCGCCAA	61.058	61.111	0.00	0.00	0.00	4.52
3500	6584	1.379642	GCCAAATCCCCTCTTCTGCG	61.380	60.000	0.00	0.00	0.00	5.18
3502	6586	1.077429	AAATCCCCTCTTCTGCGCC	60.077	57.895	4.18	0.00	0.00	6.53

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
42	43	2.292103	TGTTTTGAGTGCTGGCAAAC	57.708	45.000	0.00	0.00	34.09	2.93
125	126	6.240894	AGTTCAAATGAGCTTGGTGAATAGA	58.759	36.000	6.41	0.00	31.30	1.98
194	195	6.325028	AGGTAAGCATGACTGACTACATACAT	59.675	38.462	0.00	0.00	0.00	2.29
282	1806	1.134228	AAGGTGGGTTCCGTTGTAGT	58.866	50.000	0.00	0.00	0.00	2.73
289	1813	6.408869	TCTAAGTTTTATAAGGTGGGTTCCG	58.591	40.000	0.00	0.00	0.00	4.30
401	1930	6.661805	ACGGACCTGGTTGTAATTTTTATCAT	59.338	34.615	0.00	0.00	0.00	2.45
425	1954	0.179108	GTCATCGCTAGGTGGTCCAC	60.179	60.000	14.13	14.13	35.89	4.02
524	2053	6.734137	AGTTTGTAATGCACGATTTTTGAGA	58.266	32.000	0.00	0.00	0.00	3.27
527	2057	7.995998	GTGTAAGTTTGTAATGCACGATTTTTG	59.004	33.333	0.00	0.00	0.00	2.44
565	2111	8.275758	TCACAAATGGCCCTATACTATTTTACA	58.724	33.333	0.00	0.00	0.00	2.41
604	2150	7.471721	TGAATTGTGGCACTATAATTTTCTCG	58.528	34.615	19.83	0.00	0.00	4.04
630	2176	8.987890	TGGTACGTACAACTTAAATTTAAGACC	58.012	33.333	34.09	27.53	42.05	3.85
644	2191	8.550376	TGAGAAAGTAAAAATGGTACGTACAAC	58.450	33.333	26.02	11.13	0.00	3.32
663	2210	6.738114	TGCTTACCTGTTGAAAATGAGAAAG	58.262	36.000	0.00	0.00	0.00	2.62
743	2293	4.148871	CGCACATAGGTTTGAGTCGATATG	59.851	45.833	0.00	0.00	0.00	1.78
754	2304	6.151985	TCCAATCAAATAACGCACATAGGTTT	59.848	34.615	0.00	0.00	0.00	3.27
1150	2705	3.248171	GGCGTCGTCGTGCTGATC	61.248	66.667	3.66	0.00	39.49	2.92
1152	2707	4.050934	ATGGCGTCGTCGTGCTGA	62.051	61.111	3.66	1.24	39.49	4.26
1153	2708	3.842126	CATGGCGTCGTCGTGCTG	61.842	66.667	6.05	0.00	39.49	4.41
1175	2730	0.041833	CTGGAGGTTGGAGAGGAGGA	59.958	60.000	0.00	0.00	0.00	3.71
1249	2810	3.327404	GGGTGTGTCGGGGGTGAT	61.327	66.667	0.00	0.00	0.00	3.06
1266	2827	4.680237	TGGAGCTCGTGCCGGTTG	62.680	66.667	7.83	0.00	40.80	3.77
1635	3196	4.326227	TCCCTGTACGGCCTGGGT	62.326	66.667	15.14	0.00	42.58	4.51
1658	3219	1.682684	GACCTGAGGAGCTTCCCGA	60.683	63.158	4.99	0.00	37.19	5.14
1737	3298	2.047274	ACCGTGTCCTTGATGCGG	60.047	61.111	0.00	0.00	46.83	5.69
1738	3299	2.444624	CGACCGTGTCCTTGATGCG	61.445	63.158	0.00	0.00	0.00	4.73
1818	3379	0.739813	GCCAGATGAAGCCGTACGTT	60.740	55.000	15.21	2.23	0.00	3.99
1852	3413	1.282570	CGGCGCTGCTTTCTTTTGA	59.717	52.632	7.64	0.00	0.00	2.69
1990	3551	1.092345	GCGGTGATCTCCTTCTTGCC	61.092	60.000	11.86	0.00	0.00	4.52
2333	3894	2.113243	GAAGCACCTCCGGAACCTGT	62.113	60.000	5.23	0.00	0.00	4.00
2419	3983	3.651803	AGACTTTGGAGTTCTGACGAG	57.348	47.619	0.00	0.00	35.88	4.18
2420	3984	4.142790	AGTAGACTTTGGAGTTCTGACGA	58.857	43.478	0.00	0.00	35.88	4.20
2421	3985	4.477780	GAGTAGACTTTGGAGTTCTGACG	58.522	47.826	0.00	0.00	35.88	4.35
2422	3986	4.322123	GGGAGTAGACTTTGGAGTTCTGAC	60.322	50.000	0.00	0.00	35.88	3.51
2427	3991	4.134933	AGAGGGAGTAGACTTTGGAGTT	57.865	45.455	0.00	0.00	35.88	3.01
2428	3992	3.837399	AGAGGGAGTAGACTTTGGAGT	57.163	47.619	0.00	0.00	39.32	3.85
2429	3993	5.491323	AAAAGAGGGAGTAGACTTTGGAG	57.509	43.478	0.00	0.00	33.72	3.86
2430	3994	5.906772	AAAAAGAGGGAGTAGACTTTGGA	57.093	39.130	0.00	0.00	33.72	3.53
2457	4021	1.201647	GGAAGACTTGACCATCGTCGA	59.798	52.381	0.00	0.00	42.37	4.20
2458	4022	1.630148	GGAAGACTTGACCATCGTCG	58.370	55.000	0.00	0.00	42.37	5.12
2459	4023	1.067776	ACGGAAGACTTGACCATCGTC	60.068	52.381	0.00	0.00	39.66	4.20
2460	4024	0.966920	ACGGAAGACTTGACCATCGT	59.033	50.000	0.00	0.00	0.00	3.73
2461	4025	1.202582	AGACGGAAGACTTGACCATCG	59.797	52.381	0.00	0.00	30.29	3.84
2478	4042	5.123805	AGAAGACTTGACCGTAAGAAGAC	57.876	43.478	0.00	0.00	43.02	3.01
2521	5555	5.009710	TCCGTTATGTAGGAGTATCTGCAAG	59.990	44.000	0.00	0.00	33.38	4.01
2611	5646	2.420628	TGCCGATGCAACAAAAAGAG	57.579	45.000	0.00	0.00	46.66	2.85
2807	5844	7.148738	ACGCATTTTAGCATATAGATTCACTCG	60.149	37.037	0.00	0.00	0.00	4.18
2969	6006	4.290711	TGAGATTCATTTCAGTCTGGCA	57.709	40.909	0.00	0.00	0.00	4.92
2985	6022	5.587844	AGCAAATTCGCTTCTGTATTGAGAT	59.412	36.000	0.00	0.00	39.99	2.75
3114	6152	1.925972	GGGGGAGAAGAGGCAGGTT	60.926	63.158	0.00	0.00	0.00	3.50
3194	6249	2.511145	GCCAGCGAGAGGAGCTTG	60.511	66.667	0.00	0.00	44.06	4.01
3211	6266	1.151908	CGTAGGAGGAGGAGGAGGG	59.848	68.421	0.00	0.00	0.00	4.30
3247	6305	2.031163	GGAACGAGCTGTGGCAGT	59.969	61.111	0.00	0.00	41.70	4.40
3375	6451	3.034635	GGATGAAGGAGCAGAGGTAGAA	58.965	50.000	0.00	0.00	0.00	2.10
3398	6474	2.668632	GTGGCATGGAAGGACCGA	59.331	61.111	0.00	0.00	42.61	4.69
3399	6475	2.438434	GGTGGCATGGAAGGACCG	60.438	66.667	0.00	0.00	42.61	4.79
3400	6476	2.438434	CGGTGGCATGGAAGGACC	60.438	66.667	0.00	0.00	39.54	4.46
3401	6477	2.438434	CCGGTGGCATGGAAGGAC	60.438	66.667	2.80	0.00	0.00	3.85
3402	6478	2.609299	TCCGGTGGCATGGAAGGA	60.609	61.111	8.77	2.66	0.00	3.36
3403	6479	2.438434	GTCCGGTGGCATGGAAGG	60.438	66.667	12.34	2.24	35.67	3.46
3404	6480	2.040544	GTGTCCGGTGGCATGGAAG	61.041	63.158	12.34	0.00	35.67	3.46
3405	6481	2.033448	GTGTCCGGTGGCATGGAA	59.967	61.111	12.34	2.33	35.67	3.53
3454	6530	1.814394	GCACATGTGGAATGAGCAGAA	59.186	47.619	26.55	0.00	36.02	3.02
3462	6538	1.028330	CGGCAGAGCACATGTGGAAT	61.028	55.000	26.55	1.21	0.00	3.01
3485	6569	2.592308	GGCGCAGAAGAGGGGATT	59.408	61.111	10.83	0.00	0.00	3.01
3500	6584	1.557371	AGCTAACTGAAGAAGGAGGGC	59.443	52.381	0.00	0.00	0.00	5.19
3502	6586	3.444388	ACGTAGCTAACTGAAGAAGGAGG	59.556	47.826	0.00	0.00	0.00	4.30

Based at the University of Bristol with support from BBSRC.

AutoCloner maintained by Alex Coulton.