AutoCloner

Multiple sequence alignment - TraesCS2D01G411800

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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	TraesCS2D01G411800	chr2D	100.000	4145	0	0	1	4145	526513513	526517657	0.000000e+00	7655.0
1	TraesCS2D01G411800	chr2D	93.861	847	41	8	2	839	70391102	70391946	0.000000e+00	1266.0
2	TraesCS2D01G411800	chr2A	93.364	1944	84	21	840	2750	671702130	671704061	0.000000e+00	2833.0
3	TraesCS2D01G411800	chr2A	95.546	696	25	5	2749	3439	671704142	671704836	0.000000e+00	1109.0
4	TraesCS2D01G411800	chr2A	94.752	705	36	1	3442	4145	671704876	671705580	0.000000e+00	1096.0
5	TraesCS2D01G411800	chr2B	93.372	1901	80	18	840	2718	622912183	622914059	0.000000e+00	2771.0
6	TraesCS2D01G411800	chr2B	94.628	726	35	3	2716	3439	622914104	622914827	0.000000e+00	1122.0
7	TraesCS2D01G411800	chr2B	93.626	706	44	1	3441	4145	622914866	622915571	0.000000e+00	1053.0
8	TraesCS2D01G411800	chr7D	94.131	852	39	9	2	842	351642037	351641186	0.000000e+00	1286.0
9	TraesCS2D01G411800	chr7D	93.514	848	43	9	2	839	114467494	114468339	0.000000e+00	1251.0
10	TraesCS2D01G411800	chr3D	94.007	851	37	11	2	841	214958885	214959732	0.000000e+00	1277.0
11	TraesCS2D01G411800	chr6D	93.466	857	41	12	2	848	423491562	423492413	0.000000e+00	1258.0
12	TraesCS2D01G411800	chr6D	93.522	849	44	9	2	841	460305989	460306835	0.000000e+00	1253.0
13	TraesCS2D01G411800	chr6D	86.076	79	11	0	2972	3050	325819641	325819719	7.380000e-13	86.1
14	TraesCS2D01G411800	chr4D	93.450	855	43	11	2	847	374339001	374338151	0.000000e+00	1256.0
15	TraesCS2D01G411800	chr3A	93.427	852	44	9	2	842	660861630	660860780	0.000000e+00	1253.0
16	TraesCS2D01G411800	chr1D	93.240	858	44	11	1	847	84729687	84728833	0.000000e+00	1251.0
17	TraesCS2D01G411800	chr1D	97.727	44	1	0	2671	2714	59951846	59951889	4.440000e-10	76.8
18	TraesCS2D01G411800	chr1D	90.385	52	5	0	2674	2725	327989407	327989356	7.440000e-08	69.4
19	TraesCS2D01G411800	chr3B	88.043	184	20	1	3457	3640	586051515	586051334	2.510000e-52	217.0
20	TraesCS2D01G411800	chr3B	91.209	91	8	0	2828	2918	586051607	586051517	1.560000e-24	124.0
21	TraesCS2D01G411800	chr6B	86.076	79	11	0	2972	3050	496988523	496988445	7.380000e-13	86.1
22	TraesCS2D01G411800	chr6B	91.228	57	2	3	2672	2726	648175672	648175727	1.600000e-09	75.0
23	TraesCS2D01G411800	chr6A	86.076	79	11	0	2972	3050	464689207	464689285	7.380000e-13	86.1
24	TraesCS2D01G411800	chr6A	93.878	49	1	2	2672	2718	104118406	104118358	5.750000e-09	73.1
25	TraesCS2D01G411800	chr1B	90.741	54	5	0	2660	2713	10310764	10310817	5.750000e-09	73.1
26	TraesCS2D01G411800	chr5D	95.238	42	2	0	2672	2713	249531573	249531532	2.670000e-07	67.6
27	TraesCS2D01G411800	chr5D	87.719	57	6	1	2671	2727	441926092	441926037	9.620000e-07	65.8

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	TraesCS2D01G411800	chr2D	526513513	526517657	4144	False	7655.000000	7655	100.000000	1	4145	1	chr2D.!!$F2	4144
1	TraesCS2D01G411800	chr2D	70391102	70391946	844	False	1266.000000	1266	93.861000	2	839	1	chr2D.!!$F1	837
2	TraesCS2D01G411800	chr2A	671702130	671705580	3450	False	1679.333333	2833	94.554000	840	4145	3	chr2A.!!$F1	3305
3	TraesCS2D01G411800	chr2B	622912183	622915571	3388	False	1648.666667	2771	93.875333	840	4145	3	chr2B.!!$F1	3305
4	TraesCS2D01G411800	chr7D	351641186	351642037	851	True	1286.000000	1286	94.131000	2	842	1	chr7D.!!$R1	840
5	TraesCS2D01G411800	chr7D	114467494	114468339	845	False	1251.000000	1251	93.514000	2	839	1	chr7D.!!$F1	837
6	TraesCS2D01G411800	chr3D	214958885	214959732	847	False	1277.000000	1277	94.007000	2	841	1	chr3D.!!$F1	839
7	TraesCS2D01G411800	chr6D	423491562	423492413	851	False	1258.000000	1258	93.466000	2	848	1	chr6D.!!$F2	846
8	TraesCS2D01G411800	chr6D	460305989	460306835	846	False	1253.000000	1253	93.522000	2	841	1	chr6D.!!$F3	839
9	TraesCS2D01G411800	chr4D	374338151	374339001	850	True	1256.000000	1256	93.450000	2	847	1	chr4D.!!$R1	845
10	TraesCS2D01G411800	chr3A	660860780	660861630	850	True	1253.000000	1253	93.427000	2	842	1	chr3A.!!$R1	840
11	TraesCS2D01G411800	chr1D	84728833	84729687	854	True	1251.000000	1251	93.240000	1	847	1	chr1D.!!$R1	846

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
758	776	0.534412	TTGTTTGCCAACACACAGGG	59.466	50.0	2.27	0.0	42.87	4.45	F
1615	1661	0.462581	TGAGCAGTTCATCATCGCCC	60.463	55.0	0.00	0.0	0.00	6.13	F

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability	Orientation
2501	2563	1.25775	TGACAGCGTCCCATACAGCT	61.258	55.000	6.3	0.0	38.10	4.24	R
3176	3367	1.47851	CCACTGAGAATCGTAGCACCT	59.521	52.381	0.0	0.0	38.61	4.00	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
26	27	1.005037	CAGTCACGCACAAGGGCTA	60.005	57.895	0.00	0.00	0.00	3.93
37	38	2.153401	AAGGGCTAGTGTGTGGGCA	61.153	57.895	0.00	0.00	33.14	5.36
96	97	0.966875	CCAAGCTGCCAGTTGCCATA	60.967	55.000	0.00	0.00	40.16	2.74
97	98	1.108776	CAAGCTGCCAGTTGCCATAT	58.891	50.000	0.00	0.00	40.16	1.78
111	112	5.010516	AGTTGCCATATGTTTTGCAGTGTAA	59.989	36.000	1.24	0.00	34.81	2.41
355	363	2.004583	TGTAGCGCTACATGACAACC	57.995	50.000	39.24	16.27	40.77	3.77
758	776	0.534412	TTGTTTGCCAACACACAGGG	59.466	50.000	2.27	0.00	42.87	4.45
785	803	1.207791	CTGGTCCTCTTAGGCACCAT	58.792	55.000	13.94	0.00	41.44	3.55
787	805	2.366916	CTGGTCCTCTTAGGCACCATAG	59.633	54.545	13.94	4.63	41.44	2.23
812	833	4.954933	GGCAGATCCCTTAACGCA	57.045	55.556	0.00	0.00	0.00	5.24
843	864	3.050619	GACAGTTATCGGCGTCCAATAG	58.949	50.000	6.85	0.00	0.00	1.73
895	916	7.228706	ACAAATATTTATCGCGGAATCTCCTTT	59.771	33.333	6.13	0.00	33.30	3.11
896	917	6.969828	ATATTTATCGCGGAATCTCCTTTC	57.030	37.500	6.13	0.00	33.30	2.62
1316	1347	2.586792	GTCGCTGGCTGGGATTCT	59.413	61.111	13.90	0.00	39.82	2.40
1371	1402	2.920912	AGTTCTTGGCCGTCGGGA	60.921	61.111	14.38	0.00	34.06	5.14
1382	1428	2.408241	CGTCGGGACAGAGGAGGAC	61.408	68.421	0.00	0.00	0.00	3.85
1545	1591	8.023128	TCCAAAGAAGAATCTTAAAAAGCATCG	58.977	33.333	0.00	0.00	45.19	3.84
1567	1613	9.484326	CATCGACTTAGATTGATCGAGTATTAG	57.516	37.037	1.51	0.00	45.83	1.73
1599	1645	4.864806	ACTGTACGTTATGTTGCTGATGAG	59.135	41.667	0.00	0.00	0.00	2.90
1615	1661	0.462581	TGAGCAGTTCATCATCGCCC	60.463	55.000	0.00	0.00	0.00	6.13
1912	1959	2.553602	CCGCCATTGCTTAATCATAGCA	59.446	45.455	0.00	0.00	46.26	3.49
1931	1993	2.911484	CATGCTACCCACTCTCCTTTC	58.089	52.381	0.00	0.00	0.00	2.62
1932	1994	2.327325	TGCTACCCACTCTCCTTTCT	57.673	50.000	0.00	0.00	0.00	2.52
2070	2132	1.676014	CCTTCGGGTGTGGAATCTGAC	60.676	57.143	0.00	0.00	0.00	3.51
2142	2204	8.956426	TCATCTGGGATGTTTGTTAACTATTTC	58.044	33.333	7.22	0.00	35.24	2.17
2160	2222	2.630317	GCTGCCGATTCTGATGCG	59.370	61.111	0.00	0.00	0.00	4.73
2182	2244	1.156736	CGAGAAGCAAACCGTCCAAT	58.843	50.000	0.00	0.00	0.00	3.16
2236	2298	4.769688	TGGATTAGACGATTGCACTGAAT	58.230	39.130	0.00	0.00	0.00	2.57
2400	2462	7.856894	GCATAGAAGAATCTCAAATTTCTCAGC	59.143	37.037	0.00	0.00	37.10	4.26
2501	2563	5.417580	GGTTATGGCCTTGTCAACTGATAAA	59.582	40.000	3.32	0.00	0.00	1.40
2669	2731	9.673454	AGTTAACGTCAAATTTTATGAACTTCC	57.327	29.630	0.00	0.00	0.00	3.46
2676	2738	8.718734	GTCAAATTTTATGAACTTCCGTACTCT	58.281	33.333	0.00	0.00	0.00	3.24
2680	2742	7.463961	TTTTATGAACTTCCGTACTCTCTCT	57.536	36.000	0.00	0.00	0.00	3.10
2762	2953	4.100963	AGTCGCATCTATTATGTTGGGTGA	59.899	41.667	0.00	0.00	0.00	4.02
2822	3013	3.267031	AGGAAACTGATAACAAGGGGAGG	59.733	47.826	0.00	0.00	41.13	4.30
2856	3047	2.662866	CTGGAATGATGCAATGGGTCT	58.337	47.619	0.00	0.00	0.00	3.85
2879	3070	0.693049	AGAACACCCAGGCGAAGATT	59.307	50.000	0.00	0.00	0.00	2.40
2963	3154	4.806330	ACTACGATTTGTCTGACGATGTT	58.194	39.130	2.98	0.00	0.00	2.71
3095	3286	8.942033	TGTACAGGATCAGTTATAGTCCTAGTA	58.058	37.037	0.00	0.00	39.01	1.82
3138	3329	2.015456	TGTGATCAGGGACAGTGTCT	57.985	50.000	22.18	2.25	32.47	3.41
3176	3367	5.410439	GGTCTAGAACATTAAAAGTTGCCGA	59.590	40.000	1.90	0.00	0.00	5.54
3181	3372	2.030274	ACATTAAAAGTTGCCGAGGTGC	60.030	45.455	0.00	0.00	0.00	5.01
3185	3376	0.949105	AAAGTTGCCGAGGTGCTACG	60.949	55.000	0.00	0.00	41.04	3.51
3220	3411	9.513906	TGGAAATTCAATATGTTTACTCTGTCA	57.486	29.630	0.00	0.00	0.00	3.58
3287	3478	3.812262	CATCAGTCATGCTGGTTATCCA	58.188	45.455	14.50	0.00	45.08	3.41
3346	3539	4.077108	TGATGCAAGATTTGACAAGCTCT	58.923	39.130	0.00	0.00	0.00	4.09
3434	3631	6.841443	ACACTCATCAAAATCGATCAGATC	57.159	37.500	0.00	0.00	38.98	2.75
3437	3634	7.551974	ACACTCATCAAAATCGATCAGATCTTT	59.448	33.333	8.82	0.76	38.98	2.52
3438	3635	7.851472	CACTCATCAAAATCGATCAGATCTTTG	59.149	37.037	13.76	13.76	38.98	2.77
3439	3636	7.551974	ACTCATCAAAATCGATCAGATCTTTGT	59.448	33.333	17.15	7.58	38.98	2.83
3440	3637	7.691158	TCATCAAAATCGATCAGATCTTTGTG	58.309	34.615	17.15	14.99	38.98	3.33
3441	3638	7.335171	TCATCAAAATCGATCAGATCTTTGTGT	59.665	33.333	17.15	9.25	38.98	3.72
3443	3640	4.871993	AATCGATCAGATCTTTGTGTGC	57.128	40.909	8.82	0.00	38.98	4.57
3444	3641	2.621338	TCGATCAGATCTTTGTGTGCC	58.379	47.619	8.82	0.00	0.00	5.01
3446	3643	2.606725	CGATCAGATCTTTGTGTGCCTC	59.393	50.000	8.82	0.00	0.00	4.70
3447	3644	2.479566	TCAGATCTTTGTGTGCCTCC	57.520	50.000	0.00	0.00	0.00	4.30
3465	3698	3.556843	CCTCCGGTTTTTGCCATTCATTT	60.557	43.478	0.00	0.00	0.00	2.32
3538	3771	1.547820	TCAAGTTTTGCCACAAGTGCA	59.452	42.857	0.00	0.00	36.84	4.57
3598	3831	3.005578	GGTTACATCTGTCCTCGGATACC	59.994	52.174	0.00	0.00	37.56	2.73
3611	3844	2.143122	CGGATACCGCATACTGCAAAT	58.857	47.619	0.00	0.00	45.36	2.32
3613	3846	2.878406	GGATACCGCATACTGCAAATGT	59.122	45.455	9.71	0.00	45.36	2.71
3617	3850	2.936498	ACCGCATACTGCAAATGTAGAC	59.064	45.455	5.49	0.00	45.36	2.59
3618	3851	2.935849	CCGCATACTGCAAATGTAGACA	59.064	45.455	5.49	0.00	45.36	3.41
3619	3852	3.373748	CCGCATACTGCAAATGTAGACAA	59.626	43.478	5.49	0.00	45.36	3.18
3620	3853	4.142708	CCGCATACTGCAAATGTAGACAAA	60.143	41.667	5.49	0.00	45.36	2.83
3630	3864	4.483476	AATGTAGACAAAGGCGTCAAAC	57.517	40.909	0.00	0.00	38.43	2.93
3643	3877	2.762472	CGTCAAACGATGCAGATGTTC	58.238	47.619	0.00	0.00	46.05	3.18
3659	3893	2.500229	TGTTCGAAACACCTGGAATCC	58.500	47.619	0.00	0.00	36.25	3.01
3666	3900	4.037446	CGAAACACCTGGAATCCTTGAAAA	59.963	41.667	0.00	0.00	0.00	2.29
3736	3970	5.047235	CAGGGCATATGTAGTTACCTCTACC	60.047	48.000	4.29	0.00	39.39	3.18
3991	4225	0.608130	CCGGTCTGTTCCACTGATCA	59.392	55.000	0.00	0.00	28.97	2.92
3996	4230	3.949842	TCTGTTCCACTGATCAGACAG	57.050	47.619	29.27	27.05	40.65	3.51
4008	4242	2.271944	TCAGACAGTCTCTTCACGGA	57.728	50.000	0.00	0.00	0.00	4.69
4062	4296	0.313672	TCAATTGCCACCTGCGTTTC	59.686	50.000	0.00	0.00	45.60	2.78
4130	4364	0.868406	CAAGCAGTTCGAACAGGACC	59.132	55.000	28.78	9.54	0.00	4.46

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
96	97	4.333913	TGCCATTTACACTGCAAAACAT	57.666	36.364	0.00	0.00	0.00	2.71
97	98	3.808466	TGCCATTTACACTGCAAAACA	57.192	38.095	0.00	0.00	0.00	2.83
350	358	2.494870	CCTACTAACACTAGGCGGTTGT	59.505	50.000	0.00	0.00	0.00	3.32
355	363	1.202382	GCCACCTACTAACACTAGGCG	60.202	57.143	0.00	0.00	35.04	5.52
463	471	3.228188	TGCCATCTCAGGTCAAAGTTT	57.772	42.857	0.00	0.00	0.00	2.66
605	617	0.672401	CGCCCCACGTGACACTTTAT	60.672	55.000	19.30	0.00	36.87	1.40
721	738	2.151202	CAACTAATGCCCACACGTCTT	58.849	47.619	0.00	0.00	0.00	3.01
724	741	1.975660	AACAACTAATGCCCACACGT	58.024	45.000	0.00	0.00	0.00	4.49
758	776	1.198759	TAAGAGGACCAGCCCACACC	61.199	60.000	0.00	0.00	37.37	4.16
785	803	2.199117	GGATCTGCCCACACGTCTA	58.801	57.895	0.00	0.00	0.00	2.59
812	833	2.390938	CGATAACTGTCACACGTGTGT	58.609	47.619	39.25	26.22	45.76	3.72
843	864	9.959749	TTGTTAAGATGTCTTTTCAACCATAAC	57.040	29.630	0.00	0.00	37.40	1.89
1061	1092	3.080641	TGGACCACCATGGCTCTG	58.919	61.111	13.04	2.23	42.67	3.35
1127	1158	4.329545	GCGCCCAGGAACCTGACA	62.330	66.667	20.79	0.00	46.30	3.58
1371	1402	3.753434	CGCTGCGTCCTCCTCTGT	61.753	66.667	14.93	0.00	0.00	3.41
1412	1458	3.399181	GTCACCTCATCCCCGCCA	61.399	66.667	0.00	0.00	0.00	5.69
1421	1467	2.050714	GCGTCGAACGTCACCTCA	60.051	61.111	0.00	0.00	44.73	3.86
1573	1619	5.123805	TCAGCAACATAACGTACAGTACA	57.876	39.130	11.37	0.00	0.00	2.90
1574	1620	5.803461	TCATCAGCAACATAACGTACAGTAC	59.197	40.000	0.00	0.00	0.00	2.73
1575	1621	5.956642	TCATCAGCAACATAACGTACAGTA	58.043	37.500	0.00	0.00	0.00	2.74
1576	1622	4.816392	TCATCAGCAACATAACGTACAGT	58.184	39.130	0.00	0.00	0.00	3.55
1577	1623	4.259970	GCTCATCAGCAACATAACGTACAG	60.260	45.833	0.00	0.00	46.06	2.74
1599	1645	1.802960	CATAGGGCGATGATGAACTGC	59.197	52.381	0.00	0.00	0.00	4.40
1615	1661	5.605534	ACAGTTCCGATCTTCCAATCATAG	58.394	41.667	0.00	0.00	0.00	2.23
1734	1780	2.045242	CATGGCTGGAGCTGTGCT	60.045	61.111	0.00	0.00	43.88	4.40
1912	1959	2.839228	AGAAAGGAGAGTGGGTAGCAT	58.161	47.619	0.00	0.00	0.00	3.79
1931	1993	7.640240	GCGGACAAGCTTTAAGTAATGATAAAG	59.360	37.037	0.00	0.00	33.88	1.85
1932	1994	7.335924	AGCGGACAAGCTTTAAGTAATGATAAA	59.664	33.333	0.00	0.00	46.80	1.40
2015	2077	3.123621	CCTGCATACGACAGAGTTTTGTC	59.876	47.826	0.00	0.00	43.14	3.18
2070	2132	1.696644	CGCTTGTAACTCGAGTGCG	59.303	57.895	25.98	25.98	39.35	5.34
2142	2204	2.630317	GCATCAGAATCGGCAGCG	59.370	61.111	0.00	0.00	0.00	5.18
2160	2222	1.289800	GGACGGTTTGCTTCTCGGAC	61.290	60.000	0.00	0.00	0.00	4.79
2182	2244	4.538490	TGGAGAATTCCCTAAGTTGGCTAA	59.462	41.667	0.65	0.00	43.33	3.09
2400	2462	3.479505	TTTGGTCAATATTTCGTGGCG	57.520	42.857	0.00	0.00	0.00	5.69
2501	2563	1.257750	TGACAGCGTCCCATACAGCT	61.258	55.000	6.30	0.00	38.10	4.24
2662	2724	4.035909	GGATCAGAGAGAGTACGGAAGTTC	59.964	50.000	0.00	0.00	46.40	3.01
2669	2731	9.566530	CAATTAATATGGATCAGAGAGAGTACG	57.433	37.037	0.00	0.00	0.00	3.67
2676	2738	6.870439	CAGCGACAATTAATATGGATCAGAGA	59.130	38.462	0.00	0.00	0.00	3.10
2680	2742	7.984422	AATCAGCGACAATTAATATGGATCA	57.016	32.000	0.00	0.00	0.00	2.92
2791	2982	7.148340	CCTTGTTATCAGTTTCCTTAGCTGAAG	60.148	40.741	0.00	0.00	41.75	3.02
2822	3013	1.853963	TTCCAGGAGGAGCACTAGAC	58.146	55.000	0.00	0.00	46.74	2.59
2856	3047	1.701031	TTCGCCTGGGTGTTCTCCAA	61.701	55.000	0.00	0.00	33.36	3.53
2963	3154	3.262660	AGAGCATGAAGGACATTCTCACA	59.737	43.478	0.00	0.00	46.40	3.58
3095	3286	7.177744	ACAACCATAAGAAACCCATACGAAATT	59.822	33.333	0.00	0.00	0.00	1.82
3138	3329	5.836898	TGTTCTAGACCTGGAAACTAAGACA	59.163	40.000	0.00	6.15	31.87	3.41
3176	3367	1.478510	CCACTGAGAATCGTAGCACCT	59.521	52.381	0.00	0.00	38.61	4.00
3181	3372	6.968131	TTGAATTTCCACTGAGAATCGTAG	57.032	37.500	0.00	0.00	38.61	3.51
3279	3470	6.476706	GCATTTATTTTCACAGCTGGATAACC	59.523	38.462	19.93	2.98	0.00	2.85
3287	3478	5.411361	TCGTACTGCATTTATTTTCACAGCT	59.589	36.000	0.00	0.00	0.00	4.24
3297	3488	4.247258	TGAACCGTTCGTACTGCATTTAT	58.753	39.130	6.78	0.00	0.00	1.40
3346	3539	8.723311	CCGTTCTTATACAACAACCATTCTTAA	58.277	33.333	0.00	0.00	0.00	1.85
3444	3641	3.317603	AATGAATGGCAAAAACCGGAG	57.682	42.857	9.46	0.00	0.00	4.63
3446	3643	5.174395	TGATAAATGAATGGCAAAAACCGG	58.826	37.500	0.00	0.00	0.00	5.28
3447	3644	5.220453	GCTGATAAATGAATGGCAAAAACCG	60.220	40.000	0.00	0.00	0.00	4.44
3465	3698	1.643286	TCCATGGGTTTTGGGCTGATA	59.357	47.619	13.02	0.00	34.85	2.15
3538	3771	4.324641	GCAAGGAAGATAGGGAAAAGAGGT	60.325	45.833	0.00	0.00	0.00	3.85
3611	3844	1.862201	CGTTTGACGCCTTTGTCTACA	59.138	47.619	0.00	0.00	39.64	2.74
3613	3846	2.512485	TCGTTTGACGCCTTTGTCTA	57.488	45.000	0.00	0.00	42.21	2.59
3617	3850	0.040514	TGCATCGTTTGACGCCTTTG	60.041	50.000	0.00	0.00	42.21	2.77
3618	3851	0.238289	CTGCATCGTTTGACGCCTTT	59.762	50.000	0.00	0.00	42.21	3.11
3619	3852	0.602638	TCTGCATCGTTTGACGCCTT	60.603	50.000	0.00	0.00	42.21	4.35
3620	3853	0.391661	ATCTGCATCGTTTGACGCCT	60.392	50.000	0.00	0.00	42.21	5.52
3630	3864	2.474526	GGTGTTTCGAACATCTGCATCG	60.475	50.000	0.00	0.20	44.35	3.84
3643	3877	2.778299	TCAAGGATTCCAGGTGTTTCG	58.222	47.619	5.29	0.00	0.00	3.46
3666	3900	8.902806	TCGAAGCTATTATTGGAATTCAACAAT	58.097	29.630	7.93	10.83	36.54	2.71
3736	3970	3.126831	GGATCACGGCTATGTTCTTCTG	58.873	50.000	0.00	0.00	0.00	3.02
3991	4225	0.885196	GCTCCGTGAAGAGACTGTCT	59.115	55.000	10.66	10.66	35.82	3.41
3996	4230	1.202359	GGAGATGCTCCGTGAAGAGAC	60.202	57.143	0.00	0.00	41.08	3.36
4008	4242	0.470833	AGGAGCATACCGGAGATGCT	60.471	55.000	33.89	33.89	38.68	3.79
4087	4321	3.452990	TCGGGCCTATGACAATTTGACTA	59.547	43.478	0.84	0.00	0.00	2.59

Based at the University of Bristol with support from BBSRC.

AutoCloner maintained by Alex Coulton.