AutoCloner

Multiple sequence alignment - TraesCS2D01G357400

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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	TraesCS2D01G357400	chr2D	100.000	4060	0	0	1	4060	459336369	459332310	0.000000e+00	7498.0
1	TraesCS2D01G357400	chr2D	74.704	423	89	13	184	602	56291549	56291141	5.400000e-39	172.0
2	TraesCS2D01G357400	chr2A	92.606	3530	168	40	594	4060	602653654	602650155	0.000000e+00	4987.0
3	TraesCS2D01G357400	chr2A	86.379	580	55	9	1	579	602655265	602654709	2.680000e-171	612.0
4	TraesCS2D01G357400	chr2B	91.751	3443	191	46	662	4059	540809021	540805627	0.000000e+00	4698.0
5	TraesCS2D01G357400	chr2B	88.487	608	57	6	1	602	540809640	540809040	0.000000e+00	723.0
6	TraesCS2D01G357400	chr4B	81.572	1438	235	19	1394	2810	637724190	637722762	0.000000e+00	1160.0
7	TraesCS2D01G357400	chr4B	91.111	180	16	0	1140	1319	637724594	637724415	1.130000e-60	244.0
8	TraesCS2D01G357400	chr4D	80.952	1491	257	19	1338	2810	497152587	497151106	0.000000e+00	1155.0
9	TraesCS2D01G357400	chr4D	78.753	1379	255	26	1448	2810	497160179	497158823	0.000000e+00	889.0
10	TraesCS2D01G357400	chr4D	77.621	1345	247	35	1448	2780	497158427	497157125	0.000000e+00	767.0
11	TraesCS2D01G357400	chr4D	90.556	180	17	0	1140	1319	497152980	497152801	5.240000e-59	239.0
12	TraesCS2D01G357400	chr5A	81.280	1437	241	18	1394	2810	676951099	676949671	0.000000e+00	1138.0
13	TraesCS2D01G357400	chr5A	80.870	920	143	24	1400	2309	676943998	676943102	0.000000e+00	693.0
14	TraesCS2D01G357400	chr5A	76.223	1308	263	30	1448	2746	676960335	676959067	0.000000e+00	649.0
15	TraesCS2D01G357400	chr5A	81.684	475	84	1	2339	2810	676943107	676942633	3.800000e-105	392.0
16	TraesCS2D01G357400	chr5A	90.698	172	16	0	1133	1304	676951561	676951390	3.160000e-56	230.0
17	TraesCS2D01G357400	chr1B	73.607	1364	294	48	1468	2807	287841452	287842773	7.950000e-127	464.0
18	TraesCS2D01G357400	chr3D	86.702	188	22	2	1130	1314	554717218	554717031	5.320000e-49	206.0
19	TraesCS2D01G357400	chr3D	74.510	204	41	8	2610	2810	237823236	237823041	1.210000e-10	78.7
20	TraesCS2D01G357400	chr1A	75.893	336	75	6	2054	2386	577705877	577705545	2.510000e-37	167.0
21	TraesCS2D01G357400	chr3B	74.419	215	44	8	2599	2810	345704080	345703874	9.350000e-12	82.4

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	TraesCS2D01G357400	chr2D	459332310	459336369	4059	True	7498.0	7498	100.0000	1	4060	1	chr2D.!!$R2	4059
1	TraesCS2D01G357400	chr2A	602650155	602655265	5110	True	2799.5	4987	89.4925	1	4060	2	chr2A.!!$R1	4059
2	TraesCS2D01G357400	chr2B	540805627	540809640	4013	True	2710.5	4698	90.1190	1	4059	2	chr2B.!!$R1	4058
3	TraesCS2D01G357400	chr4B	637722762	637724594	1832	True	702.0	1160	86.3415	1140	2810	2	chr4B.!!$R1	1670
4	TraesCS2D01G357400	chr4D	497157125	497160179	3054	True	828.0	889	78.1870	1448	2810	2	chr4D.!!$R2	1362
5	TraesCS2D01G357400	chr4D	497151106	497152980	1874	True	697.0	1155	85.7540	1140	2810	2	chr4D.!!$R1	1670
6	TraesCS2D01G357400	chr5A	676949671	676951561	1890	True	684.0	1138	85.9890	1133	2810	2	chr5A.!!$R3	1677
7	TraesCS2D01G357400	chr5A	676959067	676960335	1268	True	649.0	649	76.2230	1448	2746	1	chr5A.!!$R1	1298
8	TraesCS2D01G357400	chr5A	676942633	676943998	1365	True	542.5	693	81.2770	1400	2810	2	chr5A.!!$R2	1410
9	TraesCS2D01G357400	chr1B	287841452	287842773	1321	False	464.0	464	73.6070	1468	2807	1	chr1B.!!$F1	1339

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
143	144	1.061905	CCCATCCTACCTCCCATGCA	61.062	60.0	0.00	0.00	0.00	3.96	F
1239	2295	0.325933	CCACTTCCACTGCATCTCCA	59.674	55.0	0.00	0.00	0.00	3.86	F
2283	3606	0.675837	GGTCAAGTCCGGGCTTTACC	60.676	60.0	30.79	30.79	36.13	2.85	F

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Hairpin	End Stability	Orientation
1958	3275	2.499205	CCGAACGCCTGCCTCATA	59.501	61.111	0.00	0.00	2.15	R
2392	3715	3.509388	GTGAGATCACCGTCCGTTT	57.491	52.632	1.33	40.85	3.60	R
3595	4964	0.310854	CGCTTTGTGTGTTTCCCTCC	59.689	55.000	0.00	0.00	4.30	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
37	38	3.435327	ACAACATAACAACGATGTCGCAT	59.565	39.130	0.00	0.00	44.43	4.73
59	60	3.994392	TGCGATTCAAAGAGGTCACTTAC	59.006	43.478	0.00	0.00	0.00	2.34
61	62	5.047590	TGCGATTCAAAGAGGTCACTTACTA	60.048	40.000	0.00	0.00	0.00	1.82
75	76	3.064958	CACTTACTATCGACGAGGAAGCA	59.935	47.826	17.37	0.00	38.28	3.91
78	79	3.357166	ACTATCGACGAGGAAGCATTC	57.643	47.619	3.01	0.00	46.67	2.67
101	102	2.663188	GGGCATGCCGTCGATCTC	60.663	66.667	29.90	10.13	36.85	2.75
121	122	3.378512	TCTTGGTAGAGATGACATGCCT	58.621	45.455	0.00	0.00	0.00	4.75
143	144	1.061905	CCCATCCTACCTCCCATGCA	61.062	60.000	0.00	0.00	0.00	3.96
151	152	3.131046	CCTACCTCCCATGCATTTTGTTC	59.869	47.826	0.00	0.00	0.00	3.18
161	162	5.178067	CCATGCATTTTGTTCCTTTGACTTC	59.822	40.000	0.00	0.00	0.00	3.01
164	165	5.126869	TGCATTTTGTTCCTTTGACTTCTGA	59.873	36.000	0.00	0.00	0.00	3.27
166	167	6.534793	GCATTTTGTTCCTTTGACTTCTGAAA	59.465	34.615	0.00	0.00	0.00	2.69
182	183	9.297586	GACTTCTGAAATTTTTAACCGAAAGTT	57.702	29.630	0.00	0.00	42.83	2.66
250	251	7.115378	GGCTTTGAAACAATACAGTCTTGAATG	59.885	37.037	5.71	0.00	0.00	2.67
262	263	6.339730	ACAGTCTTGAATGCATTTTGACAAA	58.660	32.000	26.74	0.00	0.00	2.83
307	308	9.643693	GTTTCATGAATGATAAATTCACCAAGT	57.356	29.630	9.40	0.00	40.37	3.16
342	343	2.311841	ACTGAAACCCCAATCCCTAAGG	59.688	50.000	0.00	0.00	0.00	2.69
348	349	3.822880	ACCCCAATCCCTAAGGTCTAAA	58.177	45.455	0.00	0.00	0.00	1.85
385	386	4.583073	AGGCAAATGAACTCGGTAAAAACT	59.417	37.500	0.00	0.00	0.00	2.66
472	474	5.913137	ATTCAACTGTGGTCTTGTTCAAA	57.087	34.783	0.00	0.00	0.00	2.69
488	490	5.627172	TGTTCAAAAGTTCTCTTCACAACG	58.373	37.500	0.00	0.00	32.90	4.10
538	540	6.772716	AGTTTGGACTTTCTGCTCAAAAGATA	59.227	34.615	11.35	0.00	37.22	1.98
650	1698	9.774742	GTCATAGTAACAAGCCTTTGAAATAAG	57.225	33.333	0.00	0.00	37.73	1.73
659	1707	8.135529	ACAAGCCTTTGAAATAAGAAGTTGTAC	58.864	33.333	0.00	0.00	37.73	2.90
704	1752	1.135083	GCTAGCCGTTGAGCTGTCTTA	60.135	52.381	2.29	0.00	44.67	2.10
718	1766	4.999950	AGCTGTCTTACTCTTCCAAACATG	59.000	41.667	0.00	0.00	0.00	3.21
767	1816	2.027561	GGGGAAAACCATTGTTTAGGCC	60.028	50.000	0.00	0.00	43.80	5.19
768	1817	2.635427	GGGAAAACCATTGTTTAGGCCA	59.365	45.455	5.01	0.00	43.80	5.36
777	1826	5.163195	ACCATTGTTTAGGCCATAGGACTAG	60.163	44.000	5.01	0.00	45.03	2.57
815	1864	2.953466	TGGCAACCACTACGAGATAC	57.047	50.000	0.00	0.00	0.00	2.24
816	1865	2.453521	TGGCAACCACTACGAGATACT	58.546	47.619	0.00	0.00	0.00	2.12
817	1866	3.623703	TGGCAACCACTACGAGATACTA	58.376	45.455	0.00	0.00	0.00	1.82
883	1936	1.162800	GCATCCGGCTCTCAATCACC	61.163	60.000	0.00	0.00	40.25	4.02
891	1944	1.134159	GCTCTCAATCACCATCCTGCT	60.134	52.381	0.00	0.00	0.00	4.24
908	1961	3.372206	CCTGCTTTCCTTGTTCGTATCAG	59.628	47.826	0.00	0.00	0.00	2.90
983	2036	6.183360	CGCTTACTTGTTCGTATCATTTTCCT	60.183	38.462	0.00	0.00	0.00	3.36
1035	2088	2.228822	GCAGGTGAATGAATTGTCCGTT	59.771	45.455	0.00	0.00	0.00	4.44
1036	2089	3.670627	GCAGGTGAATGAATTGTCCGTTC	60.671	47.826	0.00	0.00	0.00	3.95
1039	2092	3.751175	GGTGAATGAATTGTCCGTTCTGA	59.249	43.478	0.00	0.00	0.00	3.27
1050	2103	4.109050	TGTCCGTTCTGATTTTGTTTTGC	58.891	39.130	0.00	0.00	0.00	3.68
1056	2109	3.981211	TCTGATTTTGTTTTGCAGCTCC	58.019	40.909	0.00	0.00	0.00	4.70
1062	2115	1.081840	GTTTTGCAGCTCCGCTCAC	60.082	57.895	0.00	0.00	36.40	3.51
1063	2116	2.260869	TTTTGCAGCTCCGCTCACC	61.261	57.895	0.00	0.00	36.40	4.02
1078	2131	2.223502	GCTCACCGTATGTCGATGAAGA	60.224	50.000	0.00	0.00	41.93	2.87
1079	2132	3.364062	CTCACCGTATGTCGATGAAGAC	58.636	50.000	0.00	0.00	41.93	3.01
1082	2135	3.791887	CACCGTATGTCGATGAAGACTTC	59.208	47.826	8.34	8.34	42.86	3.01
1239	2295	0.325933	CCACTTCCACTGCATCTCCA	59.674	55.000	0.00	0.00	0.00	3.86
1568	2876	1.071857	CTTAAGGCTCCCGGGATAACC	59.928	57.143	27.07	24.95	0.00	2.85
1925	3242	4.755614	GGCGTCTCGAGCGTCGTT	62.756	66.667	23.40	0.00	41.35	3.85
1958	3275	1.489560	GCCAGGACAACTACACCCCT	61.490	60.000	0.00	0.00	0.00	4.79
2075	3398	1.890510	GGTCCACACGTTCGGCTTT	60.891	57.895	0.00	0.00	0.00	3.51
2258	3581	2.885644	CATCCCGGAGTTCGCGTG	60.886	66.667	0.73	0.00	37.59	5.34
2283	3606	0.675837	GGTCAAGTCCGGGCTTTACC	60.676	60.000	30.79	30.79	36.13	2.85
2392	3715	1.085091	GTCGTACCGAGAGCTGAAGA	58.915	55.000	0.00	0.00	36.23	2.87
2441	3764	0.900647	AAGTCAGCTGCCTCTACCGT	60.901	55.000	9.47	0.00	0.00	4.83
3093	4420	6.599244	TGAGATTGTTCACCACAGATTAATCC	59.401	38.462	11.92	0.00	36.48	3.01
3094	4421	6.484288	AGATTGTTCACCACAGATTAATCCA	58.516	36.000	11.92	0.00	36.48	3.41
3095	4422	6.600822	AGATTGTTCACCACAGATTAATCCAG	59.399	38.462	11.92	7.78	36.48	3.86
3097	4424	6.367374	TGTTCACCACAGATTAATCCAGTA	57.633	37.500	11.92	0.00	0.00	2.74
3099	4426	5.023533	TCACCACAGATTAATCCAGTAGC	57.976	43.478	11.92	0.00	0.00	3.58
3100	4427	4.716784	TCACCACAGATTAATCCAGTAGCT	59.283	41.667	11.92	0.00	0.00	3.32
3194	4543	4.993705	TGTTCTGGAGGTAGGAATTTGT	57.006	40.909	0.00	0.00	0.00	2.83
3249	4598	3.809832	GCTTTCTGCTCTGAACAACTGTA	59.190	43.478	0.00	0.00	38.95	2.74
3392	4741	7.907389	TGAGATAGAGTTCCTCTTGCTTTTTA	58.093	34.615	0.00	0.00	41.50	1.52
3393	4742	8.543774	TGAGATAGAGTTCCTCTTGCTTTTTAT	58.456	33.333	0.00	0.00	41.50	1.40
3406	4755	8.410673	TCTTGCTTTTTATATGTGGTTTACCA	57.589	30.769	0.00	0.00	45.30	3.25
3446	4796	1.103803	TAAAAGCACACCGCCAAACA	58.896	45.000	0.00	0.00	44.04	2.83
3447	4797	0.247736	AAAAGCACACCGCCAAACAA	59.752	45.000	0.00	0.00	44.04	2.83
3452	4802	2.101582	AGCACACCGCCAAACAATAAAA	59.898	40.909	0.00	0.00	44.04	1.52
3473	4823	4.227864	AGGTATTGAAGAAGCCCTCAAG	57.772	45.455	0.00	0.00	0.00	3.02
3476	4826	1.901591	TTGAAGAAGCCCTCAAGCAG	58.098	50.000	0.00	0.00	34.23	4.24
3478	4828	1.421268	TGAAGAAGCCCTCAAGCAGAA	59.579	47.619	0.00	0.00	34.23	3.02
3481	4831	1.353694	AGAAGCCCTCAAGCAGAACAT	59.646	47.619	0.00	0.00	34.23	2.71
3537	4906	5.236478	CACGACAACAAGAATACAGGAGTTT	59.764	40.000	0.00	0.00	0.00	2.66
3595	4964	0.242825	TTCTACGACAACGCCCTCAG	59.757	55.000	0.00	0.00	43.96	3.35
3734	5105	4.430765	GGTGTCGTCGCCATCGGT	62.431	66.667	7.40	0.00	43.16	4.69
3830	5201	3.640967	TGAAACCTCCAGAACCCAATTTG	59.359	43.478	0.00	0.00	0.00	2.32

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
37	38	2.839486	AGTGACCTCTTTGAATCGCA	57.161	45.000	0.00	0.00	0.00	5.10
59	60	3.304257	CAGAATGCTTCCTCGTCGATAG	58.696	50.000	0.00	0.00	0.00	2.08
61	62	1.202463	CCAGAATGCTTCCTCGTCGAT	60.202	52.381	0.00	0.00	31.97	3.59
75	76	2.124151	GGCATGCCCGACCAGAAT	60.124	61.111	27.24	0.00	0.00	2.40
101	102	3.133542	TGAGGCATGTCATCTCTACCAAG	59.866	47.826	0.00	0.00	0.00	3.61
112	113	0.915872	AGGATGGGTGAGGCATGTCA	60.916	55.000	0.00	0.00	0.00	3.58
114	115	0.839946	GTAGGATGGGTGAGGCATGT	59.160	55.000	0.00	0.00	0.00	3.21
121	122	0.647738	ATGGGAGGTAGGATGGGTGA	59.352	55.000	0.00	0.00	0.00	4.02
143	144	9.671279	AAATTTCAGAAGTCAAAGGAACAAAAT	57.329	25.926	0.00	0.00	0.00	1.82
151	152	7.918562	TCGGTTAAAAATTTCAGAAGTCAAAGG	59.081	33.333	0.00	0.00	0.00	3.11
207	208	1.207329	AGCCCTCGTCATAAGGAACAC	59.793	52.381	0.00	0.00	35.83	3.32
275	276	9.642327	TGAATTTATCATTCATGAAACTTGGTG	57.358	29.630	13.09	5.18	40.69	4.17
342	343	4.946157	GCCTTTAGGGTTTAGGGTTTAGAC	59.054	45.833	0.00	0.00	37.43	2.59
348	349	3.907459	TTTGCCTTTAGGGTTTAGGGT	57.093	42.857	0.00	0.00	37.43	4.34
363	364	4.866921	AGTTTTTACCGAGTTCATTTGCC	58.133	39.130	0.00	0.00	0.00	4.52
500	502	7.396339	AGAAAGTCCAAACTAAGTTTCCTTTGT	59.604	33.333	0.00	0.00	38.11	2.83
505	507	5.299531	AGCAGAAAGTCCAAACTAAGTTTCC	59.700	40.000	0.00	0.00	36.09	3.13
538	540	6.464222	TCGTCTCTAAATTTGACTCCATTGT	58.536	36.000	0.00	0.00	0.00	2.71
620	1667	6.296026	TCAAAGGCTTGTTACTATGACAGTT	58.704	36.000	0.00	0.00	34.94	3.16
622	1669	6.801539	TTCAAAGGCTTGTTACTATGACAG	57.198	37.500	0.00	0.00	33.94	3.51
624	1671	9.774742	CTTATTTCAAAGGCTTGTTACTATGAC	57.225	33.333	0.00	0.00	33.94	3.06
628	1676	9.569122	ACTTCTTATTTCAAAGGCTTGTTACTA	57.431	29.630	0.00	0.00	33.94	1.82
637	1685	9.529325	AAAAGTACAACTTCTTATTTCAAAGGC	57.471	29.630	0.00	0.00	37.47	4.35
650	1698	5.873211	GCTTGAGCAAAAAGTACAACTTC	57.127	39.130	0.00	0.00	38.06	3.01
704	1752	2.494059	CGTGGACATGTTTGGAAGAGT	58.506	47.619	0.00	0.00	0.00	3.24
741	1789	5.071115	CCTAAACAATGGTTTTCCCCTTTCA	59.929	40.000	2.92	0.00	44.63	2.69
743	1791	4.202419	GCCTAAACAATGGTTTTCCCCTTT	60.202	41.667	2.92	0.00	44.63	3.11
767	1816	3.754323	GTGACCTCGATCCTAGTCCTATG	59.246	52.174	0.00	0.00	0.00	2.23
768	1817	3.244981	GGTGACCTCGATCCTAGTCCTAT	60.245	52.174	0.00	0.00	0.00	2.57
777	1826	1.354506	CGTACGGTGACCTCGATCC	59.645	63.158	7.57	0.00	0.00	3.36
815	1864	2.166459	TGATGCGAACAAGGAGGACTAG	59.834	50.000	0.00	0.00	0.00	2.57
816	1865	2.176045	TGATGCGAACAAGGAGGACTA	58.824	47.619	0.00	0.00	0.00	2.59
817	1866	0.976641	TGATGCGAACAAGGAGGACT	59.023	50.000	0.00	0.00	0.00	3.85
883	1936	2.154462	ACGAACAAGGAAAGCAGGATG	58.846	47.619	0.00	0.00	40.87	3.51
891	1944	4.449743	CGGAAACTGATACGAACAAGGAAA	59.550	41.667	0.00	0.00	0.00	3.13
908	1961	0.440371	CGAAGAAGCTGCTCGGAAAC	59.560	55.000	1.00	0.00	0.00	2.78
983	2036	0.103755	CATCTCTCGGCAAGCTGCTA	59.896	55.000	0.90	0.00	44.28	3.49
1035	2088	3.550639	CGGAGCTGCAAAACAAAATCAGA	60.551	43.478	5.91	0.00	0.00	3.27
1036	2089	2.727798	CGGAGCTGCAAAACAAAATCAG	59.272	45.455	5.91	0.00	0.00	2.90
1062	2115	3.181490	TGGAAGTCTTCATCGACATACGG	60.181	47.826	14.49	0.00	42.82	4.02
1063	2116	4.028852	TGGAAGTCTTCATCGACATACG	57.971	45.455	14.49	0.00	44.09	3.06
1064	2117	8.594881	AATAATGGAAGTCTTCATCGACATAC	57.405	34.615	14.49	0.00	36.38	2.39
1925	3242	3.997400	CTGGCCGTCGGAGAGGAGA	62.997	68.421	17.49	0.00	46.48	3.71
1958	3275	2.499205	CCGAACGCCTGCCTCATA	59.501	61.111	0.00	0.00	0.00	2.15
2075	3398	4.651008	GCGTCGTGGTCGTTCCCA	62.651	66.667	0.00	0.00	38.33	4.37
2392	3715	3.509388	GTGAGATCACCGTCCGTTT	57.491	52.632	1.33	0.00	40.85	3.60
3065	4391	4.263018	TCTGTGGTGAACAATCTCAGAG	57.737	45.455	0.00	0.00	38.67	3.35
3099	4426	9.855361	CTTCATCGATTTGTAAGCTTTGTATAG	57.145	33.333	3.20	0.00	0.00	1.31
3100	4427	9.378551	ACTTCATCGATTTGTAAGCTTTGTATA	57.621	29.630	3.20	0.00	0.00	1.47
3177	4526	6.405278	AACAAAACAAATTCCTACCTCCAG	57.595	37.500	0.00	0.00	0.00	3.86
3182	4531	6.280643	AGCAGAAACAAAACAAATTCCTACC	58.719	36.000	0.00	0.00	0.00	3.18
3194	4543	5.882557	AGAACTCTTCAGAGCAGAAACAAAA	59.117	36.000	3.58	0.00	45.79	2.44
3277	4626	8.186163	TCGACTGTTAATTACACTGTTCGATAT	58.814	33.333	16.07	0.00	32.10	1.63
3279	4628	6.384224	TCGACTGTTAATTACACTGTTCGAT	58.616	36.000	16.07	0.00	32.10	3.59
3280	4629	5.761003	TCGACTGTTAATTACACTGTTCGA	58.239	37.500	16.07	16.07	32.10	3.71
3281	4630	6.442487	TTCGACTGTTAATTACACTGTTCG	57.558	37.500	0.00	12.24	32.10	3.95
3299	4648	9.559958	ACATGAGATTAATTTTGTCATTTCGAC	57.440	29.630	0.00	0.00	45.61	4.20
3406	4755	8.851541	TTTTATATATAAAGCCGGACGGAAAT	57.148	30.769	15.99	4.12	34.00	2.17
3438	4788	7.087639	TCTTCAATACCTTTTATTGTTTGGCG	58.912	34.615	4.39	0.00	36.56	5.69
3439	4789	8.825667	TTCTTCAATACCTTTTATTGTTTGGC	57.174	30.769	4.39	0.00	36.56	4.52
3446	4796	7.182060	TGAGGGCTTCTTCAATACCTTTTATT	58.818	34.615	0.00	0.00	0.00	1.40
3447	4797	6.731467	TGAGGGCTTCTTCAATACCTTTTAT	58.269	36.000	0.00	0.00	0.00	1.40
3452	4802	3.623453	GCTTGAGGGCTTCTTCAATACCT	60.623	47.826	0.00	0.00	0.00	3.08
3481	4831	9.051679	CGTCCCATGTATGTTATCTCATTTTTA	57.948	33.333	0.00	0.00	0.00	1.52
3502	4861	1.669760	TTGTCGTGGCATTCGTCCC	60.670	57.895	0.00	0.00	0.00	4.46
3537	4906	3.128764	CGTGGCATTGTGTAGTCTCTAGA	59.871	47.826	0.00	0.00	0.00	2.43
3595	4964	0.310854	CGCTTTGTGTGTTTCCCTCC	59.689	55.000	0.00	0.00	0.00	4.30
3721	5092	4.794439	CAGCACCGATGGCGACGA	62.794	66.667	0.00	0.00	40.82	4.20
4031	5402	1.690633	TGATGTCAGCCTCCCCTCC	60.691	63.158	0.00	0.00	0.00	4.30

Based at the University of Bristol with support from BBSRC.

AutoCloner maintained by Alex Coulton.