AutoCloner

Multiple sequence alignment - TraesCS5A01G035100

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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	TraesCS5A01G035100	chr5A	100.000	3628	0	0	1	3628	32701440	32705067	0.000000e+00	6700
1	TraesCS5A01G035100	chr5A	90.837	633	49	7	75	700	218993955	218993325	0.000000e+00	839
2	TraesCS5A01G035100	chr5D	94.600	2926	83	17	750	3626	42921916	42924815	0.000000e+00	4458
3	TraesCS5A01G035100	chr5B	93.745	1359	64	11	760	2109	38168756	38167410	0.000000e+00	2019
4	TraesCS5A01G035100	chr5B	89.039	1478	121	29	2173	3627	38167226	38165767	0.000000e+00	1794
5	TraesCS5A01G035100	chr1D	93.038	632	36	6	75	700	156120444	156119815	0.000000e+00	917
6	TraesCS5A01G035100	chr3D	91.456	632	46	6	75	700	358223996	358224625	0.000000e+00	861
7	TraesCS5A01G035100	chr3D	90.581	637	50	7	72	700	487393379	487394013	0.000000e+00	835
8	TraesCS5A01G035100	chr2D	90.673	654	46	12	59	700	154403974	154403324	0.000000e+00	856
9	TraesCS5A01G035100	chr2D	89.634	656	53	12	60	705	423369775	423369125	0.000000e+00	821
10	TraesCS5A01G035100	chr2D	90.094	636	53	7	72	700	28600448	28601080	0.000000e+00	817
11	TraesCS5A01G035100	chr2D	89.223	631	61	6	75	700	516935207	516935835	0.000000e+00	782
12	TraesCS5A01G035100	chr3A	89.889	633	54	7	75	700	693109513	693108884	0.000000e+00	806
13	TraesCS5A01G035100	chr4D	85.915	355	50	0	1247	1601	5103258	5102904	2.640000e-101	379
14	TraesCS5A01G035100	chr4A	85.634	355	51	0	1247	1601	598590334	598590688	1.230000e-99	374
15	TraesCS5A01G035100	chr4B	85.393	356	50	2	1247	1601	8983894	8983540	5.720000e-98	368
16	TraesCS5A01G035100	chrUn	85.106	329	49	0	1247	1575	478875269	478875597	1.610000e-88	337
17	TraesCS5A01G035100	chr6D	84.713	314	48	0	1742	2055	309953274	309953587	7.560000e-82	315
18	TraesCS5A01G035100	chr6D	76.567	367	81	5	1244	1607	309952358	309952722	2.860000e-46	196
19	TraesCS5A01G035100	chr6B	84.395	314	49	0	1742	2055	477790184	477790497	3.520000e-80	309
20	TraesCS5A01G035100	chr6B	76.776	366	82	3	1244	1607	477789268	477789632	6.140000e-48	202
21	TraesCS5A01G035100	chr6A	84.076	314	50	0	1742	2055	446728474	446728787	1.640000e-78	303
22	TraesCS5A01G035100	chr6A	76.022	367	83	5	1244	1607	446727565	446727929	6.190000e-43	185

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	TraesCS5A01G035100	chr5A	32701440	32705067	3627	False	6700.0	6700	100.0000	1	3628	1	chr5A.!!$F1	3627
1	TraesCS5A01G035100	chr5A	218993325	218993955	630	True	839.0	839	90.8370	75	700	1	chr5A.!!$R1	625
2	TraesCS5A01G035100	chr5D	42921916	42924815	2899	False	4458.0	4458	94.6000	750	3626	1	chr5D.!!$F1	2876
3	TraesCS5A01G035100	chr5B	38165767	38168756	2989	True	1906.5	2019	91.3920	760	3627	2	chr5B.!!$R1	2867
4	TraesCS5A01G035100	chr1D	156119815	156120444	629	True	917.0	917	93.0380	75	700	1	chr1D.!!$R1	625
5	TraesCS5A01G035100	chr3D	358223996	358224625	629	False	861.0	861	91.4560	75	700	1	chr3D.!!$F1	625
6	TraesCS5A01G035100	chr3D	487393379	487394013	634	False	835.0	835	90.5810	72	700	1	chr3D.!!$F2	628
7	TraesCS5A01G035100	chr2D	154403324	154403974	650	True	856.0	856	90.6730	59	700	1	chr2D.!!$R1	641
8	TraesCS5A01G035100	chr2D	423369125	423369775	650	True	821.0	821	89.6340	60	705	1	chr2D.!!$R2	645
9	TraesCS5A01G035100	chr2D	28600448	28601080	632	False	817.0	817	90.0940	72	700	1	chr2D.!!$F1	628
10	TraesCS5A01G035100	chr2D	516935207	516935835	628	False	782.0	782	89.2230	75	700	1	chr2D.!!$F2	625
11	TraesCS5A01G035100	chr3A	693108884	693109513	629	True	806.0	806	89.8890	75	700	1	chr3A.!!$R1	625
12	TraesCS5A01G035100	chr6D	309952358	309953587	1229	False	255.5	315	80.6400	1244	2055	2	chr6D.!!$F1	811
13	TraesCS5A01G035100	chr6B	477789268	477790497	1229	False	255.5	309	80.5855	1244	2055	2	chr6B.!!$F1	811
14	TraesCS5A01G035100	chr6A	446727565	446728787	1222	False	244.0	303	80.0490	1244	2055	2	chr6A.!!$F1	811

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
420	433	0.754957	CAGAGGAGATGGCGAGGAGT	60.755	60.0	0.00	3.85	F
586	602	0.999406	CCAACGAGTAATGGAGTGCG	59.001	55.0	39.12	5.34	F
1834	2381	1.250840	AAGCTTGTTTGATCGGCCCC	61.251	55.0	0.00	5.80	F

Position	MSA Position	Penalty	Sequence	TM	GC	Hairpin	End Stability	Orientation
1921	2468	1.272147	ACATCCTTGAACCCTGCCTTC	60.272	52.381	0.0	3.46	R
2461	3159	0.318441	CGGACCAAGCTGTGAGAAGA	59.682	55.000	0.0	2.87	R
3303	4004	1.337071	TCCTAAGACGGCATTAGCTCG	59.663	52.381	41.7	5.03	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
40	41	7.548196	AAAAACTATCACGAGTGACTGAAAA	57.452	32.000	8.20	0.00	43.11	2.29
41	42	7.730364	AAAACTATCACGAGTGACTGAAAAT	57.270	32.000	8.20	0.00	43.11	1.82
42	43	6.952935	AACTATCACGAGTGACTGAAAATC	57.047	37.500	8.20	0.00	43.11	2.17
43	44	5.096169	ACTATCACGAGTGACTGAAAATCG	58.904	41.667	8.20	0.00	43.11	3.34
44	45	3.636282	TCACGAGTGACTGAAAATCGA	57.364	42.857	1.24	0.00	37.16	3.59
45	46	4.174411	TCACGAGTGACTGAAAATCGAT	57.826	40.909	1.24	0.00	37.16	3.59
46	47	4.556233	TCACGAGTGACTGAAAATCGATT	58.444	39.130	4.39	4.39	37.16	3.34
47	48	4.621460	TCACGAGTGACTGAAAATCGATTC	59.379	41.667	11.83	0.97	37.16	2.52
48	49	4.385748	CACGAGTGACTGAAAATCGATTCA	59.614	41.667	11.83	6.19	37.70	2.57
49	50	5.062683	CACGAGTGACTGAAAATCGATTCAT	59.937	40.000	11.83	3.46	38.55	2.57
50	51	5.062683	ACGAGTGACTGAAAATCGATTCATG	59.937	40.000	11.83	5.13	38.55	3.07
51	52	5.227238	AGTGACTGAAAATCGATTCATGC	57.773	39.130	11.83	0.00	38.55	4.06
52	53	4.095483	AGTGACTGAAAATCGATTCATGCC	59.905	41.667	11.83	0.77	38.55	4.40
53	54	4.009002	TGACTGAAAATCGATTCATGCCA	58.991	39.130	11.83	3.36	38.55	4.92
54	55	4.641541	TGACTGAAAATCGATTCATGCCAT	59.358	37.500	11.83	0.00	38.55	4.40
55	56	5.125900	TGACTGAAAATCGATTCATGCCATT	59.874	36.000	11.83	0.00	38.55	3.16
56	57	5.969423	ACTGAAAATCGATTCATGCCATTT	58.031	33.333	11.83	0.00	38.55	2.32
57	58	6.400568	ACTGAAAATCGATTCATGCCATTTT	58.599	32.000	11.83	0.00	38.55	1.82
67	68	7.011189	CGATTCATGCCATTTTTCTGTTTTTC	58.989	34.615	0.00	0.00	0.00	2.29
69	70	9.206870	GATTCATGCCATTTTTCTGTTTTTCTA	57.793	29.630	0.00	0.00	0.00	2.10
70	71	8.954950	TTCATGCCATTTTTCTGTTTTTCTAA	57.045	26.923	0.00	0.00	0.00	2.10
139	141	4.771114	TCCGGGTCATCTCATGTTTAAT	57.229	40.909	0.00	0.00	0.00	1.40
261	268	5.982516	TGCGAATAAAAGCATTCAAGTGTTT	59.017	32.000	0.00	0.00	38.59	2.83
280	287	5.815222	GTGTTTAACCTGCATCCAAAACTTT	59.185	36.000	12.94	0.00	0.00	2.66
396	409	5.560722	TGTAACTCAGGATGACTTGGAAA	57.439	39.130	0.00	0.00	42.56	3.13
397	410	5.935945	TGTAACTCAGGATGACTTGGAAAA	58.064	37.500	0.00	0.00	42.56	2.29
398	411	6.542821	TGTAACTCAGGATGACTTGGAAAAT	58.457	36.000	0.00	0.00	42.56	1.82
420	433	0.754957	CAGAGGAGATGGCGAGGAGT	60.755	60.000	0.00	0.00	0.00	3.85
506	520	1.302033	CACCAAGAGCAGCGACCTT	60.302	57.895	0.00	0.00	0.00	3.50
517	532	3.196685	AGCAGCGACCTTTCTAGATCTTT	59.803	43.478	0.00	0.00	0.00	2.52
568	584	1.972075	GAGAGGCAGGGGTTATCTACC	59.028	57.143	0.00	0.00	46.99	3.18
586	602	0.999406	CCAACGAGTAATGGAGTGCG	59.001	55.000	0.00	0.00	39.12	5.34
632	648	6.524734	ACATAGTTTGTCTCAGATGTGTTGA	58.475	36.000	0.00	0.00	30.89	3.18
655	671	6.304445	TGAATGCAAATCGAACGATTGTAAAC	59.696	34.615	20.30	12.16	43.26	2.01
657	673	3.536837	GCAAATCGAACGATTGTAAACGG	59.463	43.478	20.30	7.93	43.26	4.44
674	690	2.673523	GAGGATGGCAGGCACACT	59.326	61.111	0.00	0.00	0.00	3.55
700	716	8.757982	ATCATCACCAACTCAGCTTTTTATAT	57.242	30.769	0.00	0.00	0.00	0.86
701	717	9.851686	ATCATCACCAACTCAGCTTTTTATATA	57.148	29.630	0.00	0.00	0.00	0.86
738	754	9.874205	ATTGTTTTGAGAAGATGTTTTCTTTCA	57.126	25.926	0.00	0.00	44.88	2.69
739	755	9.703892	TTGTTTTGAGAAGATGTTTTCTTTCAA	57.296	25.926	0.00	0.00	44.88	2.69
740	756	9.874205	TGTTTTGAGAAGATGTTTTCTTTCAAT	57.126	25.926	10.69	0.00	44.88	2.57
743	759	9.874205	TTTGAGAAGATGTTTTCTTTCAATTGT	57.126	25.926	5.13	0.00	44.88	2.71
745	761	9.950680	TGAGAAGATGTTTTCTTTCAATTGTAC	57.049	29.630	5.13	0.00	44.88	2.90
772	788	5.935945	TCTAGATGAGTTTGGGTTTTGACA	58.064	37.500	0.00	0.00	0.00	3.58
798	814	2.292016	CCCACAGTCATAGACTCTAGCG	59.708	54.545	0.00	0.00	41.37	4.26
863	879	2.268920	CCACCCACCACTCATCCG	59.731	66.667	0.00	0.00	0.00	4.18
867	883	4.838152	CCACCACTCATCCGCCCG	62.838	72.222	0.00	0.00	0.00	6.13
868	884	4.082523	CACCACTCATCCGCCCGT	62.083	66.667	0.00	0.00	0.00	5.28
869	885	4.082523	ACCACTCATCCGCCCGTG	62.083	66.667	0.00	0.00	0.00	4.94
870	886	3.770040	CCACTCATCCGCCCGTGA	61.770	66.667	0.00	0.00	0.00	4.35
871	887	2.509336	CACTCATCCGCCCGTGAC	60.509	66.667	0.00	0.00	0.00	3.67
873	889	3.461773	CTCATCCGCCCGTGACCT	61.462	66.667	0.00	0.00	0.00	3.85
874	890	3.432051	CTCATCCGCCCGTGACCTC	62.432	68.421	0.00	0.00	0.00	3.85
875	891	4.873129	CATCCGCCCGTGACCTCG	62.873	72.222	0.00	0.00	0.00	4.63
926	943	4.962836	CCCCATCATCCGCTGCCC	62.963	72.222	0.00	0.00	0.00	5.36
929	946	2.281345	CATCATCCGCTGCCCTCC	60.281	66.667	0.00	0.00	0.00	4.30
1566	1593	3.015753	GACCTCCCCTTCCCCACC	61.016	72.222	0.00	0.00	0.00	4.61
1648	2180	3.588955	TCTGCTATGCCATGCTTATACG	58.411	45.455	0.00	0.00	0.00	3.06
1834	2381	1.250840	AAGCTTGTTTGATCGGCCCC	61.251	55.000	0.00	0.00	0.00	5.80
1909	2456	5.157770	TCCCCACTGAAGAGGAGTATATT	57.842	43.478	0.00	0.00	0.00	1.28
1921	2468	6.516718	AGAGGAGTATATTGAATGGTTCACG	58.483	40.000	0.00	0.00	39.87	4.35
2085	2635	5.657826	TGCTAAAAATGGCTTGCAGATTA	57.342	34.783	0.00	0.00	0.00	1.75
2096	2646	5.695816	TGGCTTGCAGATTAACATTTTCAAC	59.304	36.000	0.00	0.00	0.00	3.18
2135	2685	3.228188	TGCTTTGTCAAGATGGGTCTT	57.772	42.857	0.00	0.00	45.46	3.01
2149	2699	1.265905	GGGTCTTGTTACGGCAACTTG	59.734	52.381	4.15	0.00	38.05	3.16
2270	2946	8.749499	GCATATGCAAAGACATGATAGTTTTTC	58.251	33.333	22.84	0.00	41.59	2.29
2340	3035	6.765403	TCCACAAGTATACAAAGTAGCAGTT	58.235	36.000	5.50	0.00	0.00	3.16
2378	3074	7.229306	ACTTTCTGCATGTTTGAGAGTGAATAA	59.771	33.333	0.00	0.00	0.00	1.40
2395	3091	8.682936	AGTGAATAATGGACCTTCATATTGTC	57.317	34.615	0.00	0.00	32.05	3.18
3200	3901	8.801913	GTCATTCTTTTGCTTTATGCTAATGTC	58.198	33.333	0.00	0.00	43.37	3.06
3303	4004	8.861033	TTTGAATATTTGCATAGCTTGACATC	57.139	30.769	0.00	0.00	0.00	3.06
3621	4322	8.980481	TGATTCTAGAACCTTTCTCTGTTTTT	57.020	30.769	7.48	0.00	41.14	1.94

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
16	17	7.548196	TTTTCAGTCACTCGTGATAGTTTTT	57.452	32.000	2.75	0.00	42.18	1.94
17	18	7.359264	CGATTTTCAGTCACTCGTGATAGTTTT	60.359	37.037	2.75	0.00	42.18	2.43
18	19	6.089551	CGATTTTCAGTCACTCGTGATAGTTT	59.910	38.462	2.75	0.00	42.18	2.66
19	20	5.573282	CGATTTTCAGTCACTCGTGATAGTT	59.427	40.000	2.75	0.00	42.18	2.24
20	21	5.096169	CGATTTTCAGTCACTCGTGATAGT	58.904	41.667	2.75	0.00	42.18	2.12
21	22	5.332707	TCGATTTTCAGTCACTCGTGATAG	58.667	41.667	2.75	0.00	42.18	2.08
22	23	5.305139	TCGATTTTCAGTCACTCGTGATA	57.695	39.130	2.75	0.00	42.18	2.15
23	24	4.174411	TCGATTTTCAGTCACTCGTGAT	57.826	40.909	2.75	0.00	42.18	3.06
24	25	3.636282	TCGATTTTCAGTCACTCGTGA	57.364	42.857	0.00	0.00	37.24	4.35
25	26	4.385748	TGAATCGATTTTCAGTCACTCGTG	59.614	41.667	12.81	0.00	32.07	4.35
26	27	4.556233	TGAATCGATTTTCAGTCACTCGT	58.444	39.130	12.81	0.00	32.07	4.18
27	28	5.487581	CATGAATCGATTTTCAGTCACTCG	58.512	41.667	12.81	0.00	38.90	4.18
28	29	5.261661	GCATGAATCGATTTTCAGTCACTC	58.738	41.667	12.81	0.00	38.90	3.51
29	30	4.095483	GGCATGAATCGATTTTCAGTCACT	59.905	41.667	12.81	0.00	38.90	3.41
30	31	4.142622	TGGCATGAATCGATTTTCAGTCAC	60.143	41.667	12.81	0.00	38.90	3.67
31	32	4.009002	TGGCATGAATCGATTTTCAGTCA	58.991	39.130	12.81	4.83	38.90	3.41
32	33	4.621068	TGGCATGAATCGATTTTCAGTC	57.379	40.909	12.81	5.41	38.90	3.51
33	34	5.587388	AATGGCATGAATCGATTTTCAGT	57.413	34.783	12.81	3.64	38.90	3.41
34	35	6.897259	AAAATGGCATGAATCGATTTTCAG	57.103	33.333	12.81	4.47	38.90	3.02
35	36	7.063662	CAGAAAAATGGCATGAATCGATTTTCA	59.936	33.333	22.95	8.06	39.77	2.69
36	37	7.063780	ACAGAAAAATGGCATGAATCGATTTTC	59.936	33.333	12.81	17.37	36.36	2.29
37	38	6.875195	ACAGAAAAATGGCATGAATCGATTTT	59.125	30.769	12.81	1.88	0.00	1.82
38	39	6.400568	ACAGAAAAATGGCATGAATCGATTT	58.599	32.000	12.81	0.00	0.00	2.17
39	40	5.969423	ACAGAAAAATGGCATGAATCGATT	58.031	33.333	11.20	11.20	0.00	3.34
40	41	5.587388	ACAGAAAAATGGCATGAATCGAT	57.413	34.783	0.00	0.00	0.00	3.59
41	42	5.389859	AACAGAAAAATGGCATGAATCGA	57.610	34.783	0.00	0.00	0.00	3.59
42	43	6.470557	AAAACAGAAAAATGGCATGAATCG	57.529	33.333	0.00	0.00	0.00	3.34
43	44	8.091385	AGAAAAACAGAAAAATGGCATGAATC	57.909	30.769	0.00	0.00	0.00	2.52
44	45	9.558396	TTAGAAAAACAGAAAAATGGCATGAAT	57.442	25.926	0.00	0.00	0.00	2.57
45	46	8.954950	TTAGAAAAACAGAAAAATGGCATGAA	57.045	26.923	0.00	0.00	0.00	2.57
67	68	5.288712	CGCACGGGCATCTTACTAATATTAG	59.711	44.000	18.99	18.99	41.24	1.73
69	70	3.994392	CGCACGGGCATCTTACTAATATT	59.006	43.478	11.77	0.00	41.24	1.28
70	71	3.006537	ACGCACGGGCATCTTACTAATAT	59.993	43.478	11.77	0.00	41.24	1.28
73	75	0.533491	ACGCACGGGCATCTTACTAA	59.467	50.000	11.77	0.00	41.24	2.24
104	106	1.341877	ACCCGGATCAATGCATTCCAA	60.342	47.619	9.53	0.00	0.00	3.53
105	107	0.258484	ACCCGGATCAATGCATTCCA	59.742	50.000	9.53	0.00	0.00	3.53
107	109	1.679139	TGACCCGGATCAATGCATTC	58.321	50.000	9.53	0.00	0.00	2.67
166	168	4.998671	TGTGAGCTCTAGAGAAGAATGG	57.001	45.455	24.24	0.00	32.46	3.16
243	250	6.699642	GCAGGTTAAACACTTGAATGCTTTTA	59.300	34.615	0.00	0.00	34.27	1.52
261	268	7.450014	TCTTCATAAAGTTTTGGATGCAGGTTA	59.550	33.333	0.00	0.00	33.95	2.85
355	368	8.827177	AGTTACATTCATAGTTGTCGAGAAAA	57.173	30.769	0.00	0.00	0.00	2.29
396	409	1.147824	CGCCATCTCCTCTGCCATT	59.852	57.895	0.00	0.00	0.00	3.16
397	410	1.756408	CTCGCCATCTCCTCTGCCAT	61.756	60.000	0.00	0.00	0.00	4.40
398	411	2.364186	TCGCCATCTCCTCTGCCA	60.364	61.111	0.00	0.00	0.00	4.92
420	433	2.605295	CACCACCACGACCCCCTA	60.605	66.667	0.00	0.00	0.00	3.53
466	479	2.275418	CTGCCCCCAACGCCTATT	59.725	61.111	0.00	0.00	0.00	1.73
468	481	3.712907	GTCTGCCCCCAACGCCTA	61.713	66.667	0.00	0.00	0.00	3.93
486	500	1.598130	GGTCGCTGCTCTTGGTGTT	60.598	57.895	0.00	0.00	0.00	3.32
532	547	3.005684	GCCTCTCACCTCATCTAGTCATG	59.994	52.174	0.00	0.00	0.00	3.07
536	551	2.665165	CTGCCTCTCACCTCATCTAGT	58.335	52.381	0.00	0.00	0.00	2.57
568	584	0.999406	CCGCACTCCATTACTCGTTG	59.001	55.000	0.00	0.00	0.00	4.10
627	643	3.887339	TCGTTCGATTTGCATTCAACA	57.113	38.095	0.00	0.00	30.75	3.33
632	648	5.282778	CGTTTACAATCGTTCGATTTGCATT	59.717	36.000	16.15	3.79	33.12	3.56
655	671	4.100084	TGTGCCTGCCATCCTCCG	62.100	66.667	0.00	0.00	0.00	4.63
657	673	0.471617	ATAGTGTGCCTGCCATCCTC	59.528	55.000	0.00	0.00	0.00	3.71
674	690	9.851686	ATATAAAAAGCTGAGTTGGTGATGATA	57.148	29.630	0.00	0.00	0.00	2.15
752	768	4.281688	CCATGTCAAAACCCAAACTCATCT	59.718	41.667	0.00	0.00	0.00	2.90
772	788	3.034635	GAGTCTATGACTGTGGGTCCAT	58.965	50.000	4.85	0.00	43.53	3.41
792	808	4.476361	CGACATGTGCACGCTAGA	57.524	55.556	13.13	0.00	0.00	2.43
869	885	4.897856	GAGCGAGCGAGCGAGGTC	62.898	72.222	1.41	8.58	43.00	3.85
876	892	3.326210	GATTGGCGAGCGAGCGAG	61.326	66.667	1.41	0.00	38.18	5.03
921	938	3.787001	GAGGGGAACGGAGGGCAG	61.787	72.222	0.00	0.00	0.00	4.85
926	943	2.359967	GGAGTGGAGGGGAACGGAG	61.360	68.421	0.00	0.00	0.00	4.63
929	946	2.711922	CGAGGAGTGGAGGGGAACG	61.712	68.421	0.00	0.00	0.00	3.95
970	993	3.403558	GAGGGAGTGGGGTGGAGC	61.404	72.222	0.00	0.00	0.00	4.70
990	1013	1.656441	CATCGCCATTGCCTTAGCC	59.344	57.895	0.00	0.00	38.69	3.93
993	1016	3.840437	GCCATCGCCATTGCCTTA	58.160	55.556	0.00	0.00	0.00	2.69
1648	2180	5.276161	CCACAACAATTAACAAACAGCGTTC	60.276	40.000	0.00	0.00	0.00	3.95
1697	2243	4.022935	TGACAGGACACAAAATTCAGCATC	60.023	41.667	0.00	0.00	0.00	3.91
1834	2381	4.728058	CAAAAGGTTGGGTGCACG	57.272	55.556	11.45	0.00	0.00	5.34
1909	2456	1.522668	CTGCCTTCGTGAACCATTCA	58.477	50.000	0.00	0.00	37.33	2.57
1921	2468	1.272147	ACATCCTTGAACCCTGCCTTC	60.272	52.381	0.00	0.00	0.00	3.46
2085	2635	7.839680	AAATGTAGGGAGAGTTGAAAATGTT	57.160	32.000	0.00	0.00	0.00	2.71
2096	2646	7.284034	ACAAAGCATATCAAAATGTAGGGAGAG	59.716	37.037	0.00	0.00	0.00	3.20
2135	2685	3.132925	GGAAGTACAAGTTGCCGTAACA	58.867	45.455	1.81	0.00	41.88	2.41
2139	2689	2.552315	CAATGGAAGTACAAGTTGCCGT	59.448	45.455	1.81	0.00	0.00	5.68
2149	2699	4.081642	TCCAGTCTACTGCAATGGAAGTAC	60.082	45.833	4.53	0.00	42.47	2.73
2244	2920	8.638685	AAAAACTATCATGTCTTTGCATATGC	57.361	30.769	21.09	21.09	42.50	3.14
2378	3074	4.508551	TGCAGACAATATGAAGGTCCAT	57.491	40.909	0.00	0.00	31.99	3.41
2461	3159	0.318441	CGGACCAAGCTGTGAGAAGA	59.682	55.000	0.00	0.00	0.00	2.87
2462	3160	0.318441	TCGGACCAAGCTGTGAGAAG	59.682	55.000	0.00	0.00	0.00	2.85
3010	3710	5.431179	AAACCATCGTCCTTATACACCTT	57.569	39.130	0.00	0.00	0.00	3.50
3303	4004	1.337071	TCCTAAGACGGCATTAGCTCG	59.663	52.381	0.00	0.00	41.70	5.03
3422	4123	2.490903	GTGCAAGTCATGAAGAGCCAAT	59.509	45.455	0.00	0.00	0.00	3.16

Based at the University of Bristol with support from BBSRC.

AutoCloner maintained by Alex Coulton.