AutoCloner

Multiple sequence alignment - TraesCS1A01G292000

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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	TraesCS1A01G292000	chr1A	100.000	3306	0	0	1	3306	487724475	487727780	0.000000e+00	6106
1	TraesCS1A01G292000	chr1A	97.912	814	17	0	1	814	486682010	486682823	0.000000e+00	1410
2	TraesCS1A01G292000	chr1A	100.000	693	0	0	3562	4254	487728036	487728728	0.000000e+00	1280
3	TraesCS1A01G292000	chr1A	81.115	789	141	8	9	793	573641130	573640346	3.610000e-175	625
4	TraesCS1A01G292000	chr1B	91.882	2513	133	40	810	3306	522007247	522009704	0.000000e+00	3445
5	TraesCS1A01G292000	chr1B	91.346	520	30	8	3562	4067	522009733	522010251	0.000000e+00	697
6	TraesCS1A01G292000	chr1B	95.385	195	9	0	4060	4254	522010322	522010516	1.150000e-80	311
7	TraesCS1A01G292000	chr1D	93.061	1859	67	25	812	2642	388635524	388637348	0.000000e+00	2662
8	TraesCS1A01G292000	chr1D	94.206	535	26	3	2772	3306	388637341	388637870	0.000000e+00	811
9	TraesCS1A01G292000	chr1D	94.314	510	22	5	3562	4067	388637896	388638402	0.000000e+00	774
10	TraesCS1A01G292000	chr1D	94.000	200	7	1	4060	4254	388638474	388638673	8.940000e-77	298
11	TraesCS1A01G292000	chr5B	94.328	811	46	0	1	811	230357149	230357959	0.000000e+00	1243
12	TraesCS1A01G292000	chr3B	94.226	814	47	0	1	814	336987558	336986745	0.000000e+00	1243
13	TraesCS1A01G292000	chr3B	87.346	814	93	3	1	814	177092099	177091296	0.000000e+00	924
14	TraesCS1A01G292000	chr6D	93.366	814	53	1	1	814	408888729	408887917	0.000000e+00	1203
15	TraesCS1A01G292000	chr2A	91.032	814	70	2	1	814	654902957	654903767	0.000000e+00	1096
16	TraesCS1A01G292000	chr4B	89.803	814	83	0	1	814	536708137	536707324	0.000000e+00	1044
17	TraesCS1A01G292000	chr2B	81.749	789	134	10	9	792	19040173	19039390	0.000000e+00	651

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	TraesCS1A01G292000	chr1A	487724475	487728728	4253	False	3693.000000	6106	100.00000	1	4254	2	chr1A.!!$F2	4253
1	TraesCS1A01G292000	chr1A	486682010	486682823	813	False	1410.000000	1410	97.91200	1	814	1	chr1A.!!$F1	813
2	TraesCS1A01G292000	chr1A	573640346	573641130	784	True	625.000000	625	81.11500	9	793	1	chr1A.!!$R1	784
3	TraesCS1A01G292000	chr1B	522007247	522010516	3269	False	1484.333333	3445	92.87100	810	4254	3	chr1B.!!$F1	3444
4	TraesCS1A01G292000	chr1D	388635524	388638673	3149	False	1136.250000	2662	93.89525	812	4254	4	chr1D.!!$F1	3442
5	TraesCS1A01G292000	chr5B	230357149	230357959	810	False	1243.000000	1243	94.32800	1	811	1	chr5B.!!$F1	810
6	TraesCS1A01G292000	chr3B	336986745	336987558	813	True	1243.000000	1243	94.22600	1	814	1	chr3B.!!$R2	813
7	TraesCS1A01G292000	chr3B	177091296	177092099	803	True	924.000000	924	87.34600	1	814	1	chr3B.!!$R1	813
8	TraesCS1A01G292000	chr6D	408887917	408888729	812	True	1203.000000	1203	93.36600	1	814	1	chr6D.!!$R1	813
9	TraesCS1A01G292000	chr2A	654902957	654903767	810	False	1096.000000	1096	91.03200	1	814	1	chr2A.!!$F1	813
10	TraesCS1A01G292000	chr4B	536707324	536708137	813	True	1044.000000	1044	89.80300	1	814	1	chr4B.!!$R1	813
11	TraesCS1A01G292000	chr2B	19039390	19040173	783	True	651.000000	651	81.74900	9	792	1	chr2B.!!$R1	783

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
858	859	1.335872	GGCCGTCCTGTCACAAATTTG	60.336	52.381	16.67	16.67	0.0	2.32	F
1764	1784	0.592637	TTGCTTTGACATGGAGTGCG	59.407	50.000	0.00	0.00	0.0	5.34	F

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability	Orientation
2648	2688	0.599558	CCATGAGTGCTTGTGTTGGG	59.40	55.000	0.0	0.0	0.0	4.12	R
3646	3689	3.710209	AAATGTCTGCCAGAGCTTAGT	57.29	42.857	0.0	0.0	40.8	2.24	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
683	684	1.379044	GGTGGGATCAAGGTGGCAG	60.379	63.158	0.00	0.00	0.00	4.85
818	819	5.136105	AGGCTTCAGGGCAGAAAATATTAG	58.864	41.667	0.00	0.00	43.56	1.73
858	859	1.335872	GGCCGTCCTGTCACAAATTTG	60.336	52.381	16.67	16.67	0.00	2.32
1322	1324	4.338682	CGAAAGGGTAGTAGTCTGCTATGT	59.661	45.833	0.65	0.00	0.00	2.29
1323	1325	5.163540	CGAAAGGGTAGTAGTCTGCTATGTT	60.164	44.000	0.65	0.00	0.00	2.71
1324	1326	6.039047	CGAAAGGGTAGTAGTCTGCTATGTTA	59.961	42.308	0.65	0.00	0.00	2.41
1325	1327	6.963083	AAGGGTAGTAGTCTGCTATGTTAG	57.037	41.667	0.65	0.00	0.00	2.34
1326	1328	5.386924	AGGGTAGTAGTCTGCTATGTTAGG	58.613	45.833	0.65	0.00	0.00	2.69
1327	1329	4.523558	GGGTAGTAGTCTGCTATGTTAGGG	59.476	50.000	0.65	0.00	0.00	3.53
1328	1330	5.383476	GGTAGTAGTCTGCTATGTTAGGGA	58.617	45.833	0.65	0.00	0.00	4.20
1329	1331	5.832060	GGTAGTAGTCTGCTATGTTAGGGAA	59.168	44.000	0.65	0.00	0.00	3.97
1330	1332	5.855740	AGTAGTCTGCTATGTTAGGGAAC	57.144	43.478	0.00	0.00	36.00	3.62
1490	1502	7.805071	GGCATGATTAACAGAATAACACTATGC	59.195	37.037	0.00	0.00	35.29	3.14
1491	1503	8.344831	GCATGATTAACAGAATAACACTATGCA	58.655	33.333	0.00	0.00	35.88	3.96
1513	1525	7.596494	TGCATATCTTAATTAAGCAGAATGGC	58.404	34.615	18.68	14.73	35.86	4.40
1515	1527	8.248945	GCATATCTTAATTAAGCAGAATGGCAT	58.751	33.333	18.68	7.65	35.86	4.40
1619	1639	4.853007	AGCTTCCTTTCTGACTGCATAAT	58.147	39.130	0.00	0.00	0.00	1.28
1621	1641	6.599445	AGCTTCCTTTCTGACTGCATAATAT	58.401	36.000	0.00	0.00	0.00	1.28
1677	1697	6.549364	AGTGTTGGACTTGGATGAAACATTAA	59.451	34.615	0.00	0.00	30.96	1.40
1764	1784	0.592637	TTGCTTTGACATGGAGTGCG	59.407	50.000	0.00	0.00	0.00	5.34
1790	1810	1.236616	CCGACAAGGCAAGCATGTGA	61.237	55.000	7.34	0.00	0.00	3.58
1800	1821	2.730090	GCAAGCATGTGACCATCTTTCG	60.730	50.000	0.00	0.00	0.00	3.46
1996	2025	3.380637	TCTTATACTCTTCACCGCTGGTC	59.619	47.826	0.00	0.00	31.02	4.02
2025	2054	4.039124	GGTTTGTCCTGTCCAACATTCATT	59.961	41.667	0.00	0.00	0.00	2.57
2259	2288	2.346803	TCGCTGAAATAGTGAAGTGCC	58.653	47.619	0.00	0.00	42.69	5.01
2267	2296	0.685097	TAGTGAAGTGCCACCCTGAC	59.315	55.000	0.00	0.00	37.76	3.51
2334	2363	6.467723	CAAGTGCTTGTACAAGGTACTTAG	57.532	41.667	31.42	20.86	40.41	2.18
2335	2364	5.408604	CAAGTGCTTGTACAAGGTACTTAGG	59.591	44.000	31.42	18.27	40.41	2.69
2336	2365	6.962957	CAAGTGCTTGTACAAGGTACTTAGGT	60.963	42.308	31.42	12.59	40.41	3.08
2337	2366	7.738950	CAAGTGCTTGTACAAGGTACTTAGGTA	60.739	40.741	31.42	5.23	40.41	3.08
2440	2477	7.775053	ATCCACCTTTATTATTGTGTTGTGT	57.225	32.000	0.00	0.00	0.00	3.72
2486	2523	6.778834	ATGTGCATATCCAAGATTGAAACA	57.221	33.333	0.00	0.00	0.00	2.83
2487	2524	6.778834	TGTGCATATCCAAGATTGAAACAT	57.221	33.333	0.00	0.00	0.00	2.71
2488	2525	6.566141	TGTGCATATCCAAGATTGAAACATG	58.434	36.000	0.00	0.00	0.00	3.21
2489	2526	6.153170	TGTGCATATCCAAGATTGAAACATGT	59.847	34.615	0.00	0.00	0.00	3.21
2490	2527	6.694411	GTGCATATCCAAGATTGAAACATGTC	59.306	38.462	0.00	0.00	0.00	3.06
2558	2597	6.959639	TCAGTTTCTTAGAAAAATGCCACT	57.040	33.333	9.14	0.00	34.96	4.00
2623	2663	7.384524	AGAATGGATTGAACCAGATCTATGA	57.615	36.000	0.00	0.00	43.49	2.15
2630	2670	2.180946	ACCAGATCTATGAGGGCACA	57.819	50.000	0.00	0.00	0.00	4.57
2648	2688	3.374745	CACATTTGCACTGGACTGTTTC	58.625	45.455	0.00	0.00	0.00	2.78
2661	2701	1.476488	ACTGTTTCCCAACACAAGCAC	59.524	47.619	0.00	0.00	38.03	4.40
2717	2759	7.701539	TTGCCTGATGTTATCTTGTTTATGT	57.298	32.000	0.00	0.00	0.00	2.29
2765	2807	1.737793	CCGTATGTTCCTGCCAACTTC	59.262	52.381	0.00	0.00	0.00	3.01
2767	2809	3.369052	CCGTATGTTCCTGCCAACTTCTA	60.369	47.826	0.00	0.00	0.00	2.10
2794	2836	5.422012	TGCTGTTGATCCTAGTCTGTTCATA	59.578	40.000	0.00	0.00	0.00	2.15
2795	2837	5.982516	GCTGTTGATCCTAGTCTGTTCATAG	59.017	44.000	0.00	0.00	0.00	2.23
2804	2846	7.179966	TCCTAGTCTGTTCATAGTCCTGTTTA	58.820	38.462	0.00	0.00	0.00	2.01
2805	2847	7.839705	TCCTAGTCTGTTCATAGTCCTGTTTAT	59.160	37.037	0.00	0.00	0.00	1.40
2806	2848	7.923344	CCTAGTCTGTTCATAGTCCTGTTTATG	59.077	40.741	0.00	0.00	0.00	1.90
2807	2849	7.482169	AGTCTGTTCATAGTCCTGTTTATGA	57.518	36.000	0.00	0.00	35.18	2.15
2808	2850	7.907389	AGTCTGTTCATAGTCCTGTTTATGAA	58.093	34.615	3.52	3.52	41.51	2.57
2865	2907	4.096833	CAGTTTTCTAATGCTGGCATGCTA	59.903	41.667	18.92	11.28	36.68	3.49
2869	2911	2.107031	TCTAATGCTGGCATGCTACCAT	59.893	45.455	18.92	11.98	36.36	3.55
2882	2924	5.507985	GCATGCTACCATTTTCAGGGAATAC	60.508	44.000	11.37	0.00	0.00	1.89
2936	2978	7.162761	TGTCCAAAGATTTCCGTAGAATTGTA	58.837	34.615	0.00	0.00	0.00	2.41
2942	2984	8.617290	AAGATTTCCGTAGAATTGTACTTGTT	57.383	30.769	10.68	0.00	0.00	2.83
3039	3081	4.141413	CCATGGATGATCAGGTAAAGTGGA	60.141	45.833	5.56	0.00	0.00	4.02
3061	3103	7.534239	GTGGAACTGTTGATAAAATCGTTCTTC	59.466	37.037	0.00	0.00	32.27	2.87
3071	3113	9.158233	TGATAAAATCGTTCTTCGGTTCTAAAT	57.842	29.630	0.00	0.00	42.40	1.40
3080	3122	9.601971	CGTTCTTCGGTTCTAAATTTAAAATCA	57.398	29.630	0.00	0.00	35.71	2.57
3084	3126	9.855021	CTTCGGTTCTAAATTTAAAATCACCAT	57.145	29.630	0.00	0.00	0.00	3.55
3085	3127	9.849166	TTCGGTTCTAAATTTAAAATCACCATC	57.151	29.630	0.00	0.00	0.00	3.51
3106	3148	8.912988	ACCATCGTTATTGATCCAATTATGTTT	58.087	29.630	0.00	0.00	35.54	2.83
3214	3256	2.362077	GTTTCACATGCCAGAGTGGTTT	59.638	45.455	0.00	0.00	40.46	3.27
3645	3688	3.742640	GCCCGCAGAGAAGAAAGATGTAT	60.743	47.826	0.00	0.00	0.00	2.29
3646	3689	4.501571	GCCCGCAGAGAAGAAAGATGTATA	60.502	45.833	0.00	0.00	0.00	1.47
3647	3690	4.985409	CCCGCAGAGAAGAAAGATGTATAC	59.015	45.833	0.00	0.00	0.00	1.47
3663	3713	4.278310	TGTATACTAAGCTCTGGCAGACA	58.722	43.478	14.43	3.56	41.70	3.41
3772	3826	3.202829	ACGAGGGAGTAAACTGCAAAA	57.797	42.857	3.97	0.00	35.89	2.44
3788	3842	2.365293	GCAAAACATGGTCAGGGTTCTT	59.635	45.455	0.00	0.00	0.00	2.52
3794	3848	3.074390	ACATGGTCAGGGTTCTTCATCAA	59.926	43.478	0.00	0.00	0.00	2.57
3802	3856	7.122650	GGTCAGGGTTCTTCATCAATGATTAAA	59.877	37.037	0.00	0.00	36.56	1.52
3834	3890	4.935352	ATAGCACTTTTTGGTTGCTGAA	57.065	36.364	5.58	0.00	37.13	3.02
3862	3918	2.584791	GCTTGGTGAAGTTACAATGCG	58.415	47.619	0.00	0.00	0.00	4.73
3880	3936	2.000447	GCGTCTCATTCCGCTTTTACT	59.000	47.619	0.00	0.00	46.08	2.24
3882	3938	3.725010	GCGTCTCATTCCGCTTTTACTTG	60.725	47.826	0.00	0.00	46.08	3.16
3934	3990	5.003804	ACATCACATGTCTGTAAACCTTCC	58.996	41.667	8.48	0.00	39.92	3.46
3940	3996	3.589641	TGTCTGTAAACCTTCCCCTGTA	58.410	45.455	0.00	0.00	0.00	2.74
3991	4047	1.133823	TGCTTCTGCCCAGTCTTTCAA	60.134	47.619	0.00	0.00	38.71	2.69
4058	4115	1.133025	CCTGCGCCTATTGAAACTTGG	59.867	52.381	4.18	0.00	0.00	3.61
4066	4201	5.572896	CGCCTATTGAAACTTGGAATTCAAC	59.427	40.000	7.93	0.00	45.34	3.18
4088	4223	8.141268	TCAACTTTGAACTGAATATCAAAACCC	58.859	33.333	2.99	0.00	42.96	4.11
4107	4242	2.305927	CCCTCCAAAGACACACATACCT	59.694	50.000	0.00	0.00	0.00	3.08
4121	4256	4.766891	ACACATACCTCCAATCCAAACAAG	59.233	41.667	0.00	0.00	0.00	3.16

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
578	579	2.245287	GGTAGGGGGATATCGGATCTCT	59.755	54.545	0.00	0.00	0.00	3.10
692	693	2.658422	GAGGTGGTTTACGGCCGA	59.342	61.111	35.90	13.31	0.00	5.54
818	819	1.880027	CCAGTTAACAAGACAGCCCAC	59.120	52.381	8.61	0.00	0.00	4.61
858	859	1.681327	TGGGCGAGGAGGTACTGTC	60.681	63.158	0.00	0.00	41.55	3.51
861	862	2.754658	CGTGGGCGAGGAGGTACT	60.755	66.667	0.00	0.00	41.40	2.73
1088	1090	4.154347	GGACCTGCAGGAGGAGCG	62.154	72.222	39.19	11.20	46.33	5.03
1142	1144	1.306568	AGGGACCTGAGGAGCTTCC	60.307	63.158	4.99	0.45	36.58	3.46
1306	1308	6.546772	AGTTCCCTAACATAGCAGACTACTAC	59.453	42.308	0.00	0.00	38.12	2.73
1322	1324	2.023695	ACGGTGATCCCTAGTTCCCTAA	60.024	50.000	0.00	0.00	0.00	2.69
1323	1325	1.572415	ACGGTGATCCCTAGTTCCCTA	59.428	52.381	0.00	0.00	0.00	3.53
1324	1326	0.338814	ACGGTGATCCCTAGTTCCCT	59.661	55.000	0.00	0.00	0.00	4.20
1325	1327	0.464452	CACGGTGATCCCTAGTTCCC	59.536	60.000	0.74	0.00	0.00	3.97
1326	1328	0.464452	CCACGGTGATCCCTAGTTCC	59.536	60.000	10.28	0.00	0.00	3.62
1327	1329	1.192428	ACCACGGTGATCCCTAGTTC	58.808	55.000	10.28	0.00	0.00	3.01
1328	1330	3.393854	ACCACGGTGATCCCTAGTT	57.606	52.632	10.28	0.00	0.00	2.24
1490	1502	9.569167	CATGCCATTCTGCTTAATTAAGATATG	57.431	33.333	26.00	19.47	35.33	1.78
1491	1503	8.248945	GCATGCCATTCTGCTTAATTAAGATAT	58.751	33.333	26.00	11.23	35.33	1.63
1677	1697	2.618709	TCGATGACTCGTATGCACAGAT	59.381	45.455	0.00	0.00	45.25	2.90
1764	1784	1.599542	GCTTGCCTTGTCGGATGATAC	59.400	52.381	0.00	0.00	33.16	2.24
1790	1810	1.545841	GAAAAGGGGCGAAAGATGGT	58.454	50.000	0.00	0.00	0.00	3.55
1800	1821	5.598417	ACAACAATATCATAGGAAAAGGGGC	59.402	40.000	0.00	0.00	0.00	5.80
2015	2044	5.716094	TGATGGAGAGCAAAATGAATGTTG	58.284	37.500	0.00	0.00	0.00	3.33
2193	2222	4.278975	AGTCAGGAACAAAGAGTCCATC	57.721	45.455	0.00	0.00	0.00	3.51
2259	2288	3.009033	TCCCACTAAAATCAGTCAGGGTG	59.991	47.826	0.00	0.00	34.68	4.61
2267	2296	3.372440	AAGGCCTCCCACTAAAATCAG	57.628	47.619	5.23	0.00	0.00	2.90
2432	2469	5.278120	GGTGTACCTCCAATTTACACAACAC	60.278	44.000	15.66	8.67	44.94	3.32
2558	2597	2.994355	ACCAACCAGGACTAACCCTTA	58.006	47.619	0.00	0.00	41.22	2.69
2604	2643	4.805609	GCCCTCATAGATCTGGTTCAATCC	60.806	50.000	5.18	0.00	0.00	3.01
2643	2683	1.748493	GAGTGCTTGTGTTGGGAAACA	59.252	47.619	0.00	0.00	0.00	2.83
2648	2688	0.599558	CCATGAGTGCTTGTGTTGGG	59.400	55.000	0.00	0.00	0.00	4.12
2682	2722	8.934697	AGATAACATCAGGCAAAGGTACTATAA	58.065	33.333	0.00	0.00	38.49	0.98
2687	2727	5.648092	ACAAGATAACATCAGGCAAAGGTAC	59.352	40.000	0.00	0.00	0.00	3.34
2736	2778	4.271776	GGCAGGAACATACGGTACAATAAC	59.728	45.833	0.00	0.00	0.00	1.89
2765	2807	7.225784	ACAGACTAGGATCAACAGCATATAG	57.774	40.000	0.00	0.00	0.00	1.31
2767	2809	6.098838	TGAACAGACTAGGATCAACAGCATAT	59.901	38.462	0.00	0.00	0.00	1.78
2794	2836	7.449704	AGAAAGCTTGATTTCATAAACAGGACT	59.550	33.333	12.81	0.00	40.86	3.85
2795	2837	7.540055	CAGAAAGCTTGATTTCATAAACAGGAC	59.460	37.037	12.81	0.00	40.86	3.85
2865	2907	5.501156	GTCTCTGTATTCCCTGAAAATGGT	58.499	41.667	0.00	0.00	0.00	3.55
2869	2911	5.014123	ACATGGTCTCTGTATTCCCTGAAAA	59.986	40.000	0.00	0.00	0.00	2.29
2882	2924	4.484537	AAGATCCTTCACATGGTCTCTG	57.515	45.455	0.00	0.00	0.00	3.35
3039	3081	6.204108	ACCGAAGAACGATTTTATCAACAGTT	59.796	34.615	0.00	0.00	45.77	3.16
3061	3103	7.966204	ACGATGGTGATTTTAAATTTAGAACCG	59.034	33.333	3.48	0.00	0.00	4.44
3071	3113	8.961634	TGGATCAATAACGATGGTGATTTTAAA	58.038	29.630	0.00	0.00	30.94	1.52
3077	3119	8.733458	CATAATTGGATCAATAACGATGGTGAT	58.267	33.333	0.00	0.00	32.43	3.06
3080	3122	8.463930	AACATAATTGGATCAATAACGATGGT	57.536	30.769	0.00	0.00	32.43	3.55
3106	3148	8.846943	TCACTCTCATAAGCTAAAATGTTTCA	57.153	30.769	0.00	0.00	0.00	2.69
3154	3196	5.248640	GGTCTCACATCATTTTGGAGAGAA	58.751	41.667	0.00	0.00	35.47	2.87
3645	3688	4.826274	AAATGTCTGCCAGAGCTTAGTA	57.174	40.909	0.00	0.00	40.80	1.82
3646	3689	3.710209	AAATGTCTGCCAGAGCTTAGT	57.290	42.857	0.00	0.00	40.80	2.24
3772	3826	2.644299	TGATGAAGAACCCTGACCATGT	59.356	45.455	0.00	0.00	0.00	3.21
3808	3862	6.434028	TCAGCAACCAAAAAGTGCTATAGAAT	59.566	34.615	3.21	0.00	34.16	2.40
3811	3865	5.627499	TCAGCAACCAAAAAGTGCTATAG	57.373	39.130	0.00	0.00	34.16	1.31
3834	3890	2.622064	ACTTCACCAAGCGACTTTCT	57.378	45.000	0.00	0.00	32.09	2.52
3862	3918	4.000988	TCCAAGTAAAAGCGGAATGAGAC	58.999	43.478	0.00	0.00	0.00	3.36
3880	3936	9.733556	TCTGCAATAAATTAGAAGTTACTCCAA	57.266	29.630	0.00	0.00	0.00	3.53
3882	3938	9.989869	GTTCTGCAATAAATTAGAAGTTACTCC	57.010	33.333	0.00	0.00	30.51	3.85
4066	4201	7.039784	TGGAGGGTTTTGATATTCAGTTCAAAG	60.040	37.037	0.00	0.00	41.42	2.77
4088	4223	3.007940	TGGAGGTATGTGTGTCTTTGGAG	59.992	47.826	0.00	0.00	0.00	3.86
4107	4242	2.892852	CTGGAAGCTTGTTTGGATTGGA	59.107	45.455	2.10	0.00	0.00	3.53
4121	4256	3.471680	CCCTATCTTTAGCACTGGAAGC	58.528	50.000	0.00	0.00	37.60	3.86
4218	4358	2.271800	CTGGCGTTTACTCTGATGGAC	58.728	52.381	0.00	0.00	0.00	4.02

Based at the University of Bristol with support from BBSRC.

AutoCloner maintained by Alex Coulton.