AutoCloner

Multiple sequence alignment - TraesCS4A01G090700

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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	TraesCS4A01G090700	chr4A	100.000	3508	0	0	1	3508	97263211	97259704	0.000000e+00	6479.0
1	TraesCS4A01G090700	chr4A	95.337	193	9	0	3020	3212	97260094	97259902	1.220000e-79	307.0
2	TraesCS4A01G090700	chr4A	95.337	193	9	0	3118	3310	97260192	97260000	1.220000e-79	307.0
3	TraesCS4A01G090700	chr4A	92.632	95	7	0	3020	3114	97259996	97259902	1.700000e-28	137.0
4	TraesCS4A01G090700	chr4A	92.632	95	7	0	3216	3310	97260192	97260098	1.700000e-28	137.0
5	TraesCS4A01G090700	chr4A	87.931	58	3	2	3155	3208	569867929	569867872	8.130000e-07	65.8
6	TraesCS4A01G090700	chr4D	92.446	2343	97	20	789	3098	368004775	368007070	0.000000e+00	3273.0
7	TraesCS4A01G090700	chr4D	95.933	418	12	4	3094	3508	368007197	368007612	0.000000e+00	673.0
8	TraesCS4A01G090700	chr4D	89.950	199	16	3	3017	3212	368007218	368007415	1.620000e-63	254.0
9	TraesCS4A01G090700	chr4D	93.277	119	8	0	3192	3310	368007197	368007315	3.600000e-40	176.0
10	TraesCS4A01G090700	chr4D	97.561	82	2	0	3115	3196	368006989	368007070	1.310000e-29	141.0
11	TraesCS4A01G090700	chr4D	93.750	80	5	0	3213	3292	368006989	368007068	1.710000e-23	121.0
12	TraesCS4A01G090700	chr7A	97.601	792	13	6	1	788	720918167	720918956	0.000000e+00	1352.0
13	TraesCS4A01G090700	chr7A	95.975	795	23	7	1	789	671308712	671307921	0.000000e+00	1282.0
14	TraesCS4A01G090700	chr6B	97.111	796	17	6	1	791	642910684	642909890	0.000000e+00	1338.0
15	TraesCS4A01G090700	chr3A	96.985	796	16	6	1	793	658885603	658884813	0.000000e+00	1330.0
16	TraesCS4A01G090700	chr3A	96.970	792	18	6	1	788	638934298	638933509	0.000000e+00	1325.0
17	TraesCS4A01G090700	chr3A	96.338	792	22	7	1	788	456750591	456749803	0.000000e+00	1295.0
18	TraesCS4A01G090700	chr3A	91.304	46	4	0	3155	3200	639021561	639021516	2.920000e-06	63.9
19	TraesCS4A01G090700	chr5A	96.393	804	25	4	1	801	394751651	394750849	0.000000e+00	1321.0
20	TraesCS4A01G090700	chr4B	89.167	1080	58	21	813	1873	453245210	453246249	0.000000e+00	1291.0
21	TraesCS4A01G090700	chr4B	94.005	784	42	3	1872	2654	453246334	453247113	0.000000e+00	1182.0
22	TraesCS4A01G090700	chr4B	94.907	216	9	2	3294	3508	453247666	453247880	1.560000e-88	337.0
23	TraesCS4A01G090700	chr4B	87.931	58	3	2	3155	3208	47623436	47623493	8.130000e-07	65.8
24	TraesCS4A01G090700	chr1A	95.975	795	24	8	1	791	102161576	102162366	0.000000e+00	1284.0
25	TraesCS4A01G090700	chr6A	95.723	795	27	7	1	789	80883212	80884005	0.000000e+00	1273.0
26	TraesCS4A01G090700	chr2D	93.478	46	2	1	3156	3200	588232351	588232396	2.260000e-07	67.6
27	TraesCS4A01G090700	chr3D	100.000	31	0	0	3264	3294	590836135	590836165	1.360000e-04	58.4

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	TraesCS4A01G090700	chr4A	97259704	97263211	3507	True	1473.400000	6479	95.1876	1	3508	5	chr4A.!!$R2	3507
1	TraesCS4A01G090700	chr4D	368004775	368007612	2837	False	773.000000	3273	93.8195	789	3508	6	chr4D.!!$F1	2719
2	TraesCS4A01G090700	chr7A	720918167	720918956	789	False	1352.000000	1352	97.6010	1	788	1	chr7A.!!$F1	787
3	TraesCS4A01G090700	chr7A	671307921	671308712	791	True	1282.000000	1282	95.9750	1	789	1	chr7A.!!$R1	788
4	TraesCS4A01G090700	chr6B	642909890	642910684	794	True	1338.000000	1338	97.1110	1	791	1	chr6B.!!$R1	790
5	TraesCS4A01G090700	chr3A	658884813	658885603	790	True	1330.000000	1330	96.9850	1	793	1	chr3A.!!$R4	792
6	TraesCS4A01G090700	chr3A	638933509	638934298	789	True	1325.000000	1325	96.9700	1	788	1	chr3A.!!$R2	787
7	TraesCS4A01G090700	chr3A	456749803	456750591	788	True	1295.000000	1295	96.3380	1	788	1	chr3A.!!$R1	787
8	TraesCS4A01G090700	chr5A	394750849	394751651	802	True	1321.000000	1321	96.3930	1	801	1	chr5A.!!$R1	800
9	TraesCS4A01G090700	chr4B	453245210	453247880	2670	False	936.666667	1291	92.6930	813	3508	3	chr4B.!!$F2	2695
10	TraesCS4A01G090700	chr1A	102161576	102162366	790	False	1284.000000	1284	95.9750	1	791	1	chr1A.!!$F1	790
11	TraesCS4A01G090700	chr6A	80883212	80884005	793	False	1273.000000	1273	95.7230	1	789	1	chr6A.!!$F1	788

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
613	631	1.074072	ATGCGTGGTGGGCTTACAA	59.926	52.632	0.0	0.0	0.0	2.41	F

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability	Orientation
2563	2693	0.542333	TCGGAAATATGGGCAACGGA	59.458	50.0	0.0	0.0	37.6	4.69	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
438	451	4.654915	GGTTGTTAACCCAAGCCTAGTAA	58.345	43.478	2.48	0.00	46.12	2.24
466	479	5.671493	CATGTCCCTAGTTTCTAACCGAAT	58.329	41.667	0.00	0.00	0.00	3.34
503	516	9.727859	TTTTCCATTTTATTTTAGGGGCTTTAC	57.272	29.630	0.00	0.00	0.00	2.01
613	631	1.074072	ATGCGTGGTGGGCTTACAA	59.926	52.632	0.00	0.00	0.00	2.41
774	793	3.762288	ACGTGCAAGTTCTATGACTCCTA	59.238	43.478	0.00	0.00	0.00	2.94
777	796	5.066117	CGTGCAAGTTCTATGACTCCTAGTA	59.934	44.000	0.00	0.00	0.00	1.82
914	937	4.680237	TTGGTGCGGCCGTGAGAG	62.680	66.667	28.70	0.00	41.21	3.20
921	944	2.579738	GGCCGTGAGAGAAGGGAC	59.420	66.667	0.00	0.00	0.00	4.46
955	978	2.584143	CGGTCCGTAATCCGTGGC	60.584	66.667	2.08	0.00	41.58	5.01
1025	1048	0.324738	TCGGGAGCCAGATCAGAAGT	60.325	55.000	0.00	0.00	0.00	3.01
1028	1051	2.223923	CGGGAGCCAGATCAGAAGTAAG	60.224	54.545	0.00	0.00	0.00	2.34
1161	1184	0.041982	AGGTGACCCTTCTCCTCTCC	59.958	60.000	0.00	0.00	41.11	3.71
1162	1185	0.041982	GGTGACCCTTCTCCTCTCCT	59.958	60.000	0.00	0.00	33.26	3.69
1163	1186	1.480789	GTGACCCTTCTCCTCTCCTC	58.519	60.000	0.00	0.00	0.00	3.71
1164	1187	1.006639	GTGACCCTTCTCCTCTCCTCT	59.993	57.143	0.00	0.00	0.00	3.69
1165	1188	1.286553	TGACCCTTCTCCTCTCCTCTC	59.713	57.143	0.00	0.00	0.00	3.20
1175	1198	4.023291	CTCCTCTCCTCTCTTGCTTAGTT	58.977	47.826	0.00	0.00	0.00	2.24
1184	1207	2.337583	TCTTGCTTAGTTGCGCTACTG	58.662	47.619	30.45	17.82	35.36	2.74
1195	1218	1.068588	TGCGCTACTGTGTTCTTGTCT	59.931	47.619	9.73	0.00	0.00	3.41
1205	1228	3.118920	TGTGTTCTTGTCTTGGTTCTCGA	60.119	43.478	0.00	0.00	0.00	4.04
1206	1229	3.491267	GTGTTCTTGTCTTGGTTCTCGAG	59.509	47.826	5.93	5.93	0.00	4.04
1259	1282	9.886132	TCCTAAGTTTAGTAATTGAGTCCAATC	57.114	33.333	0.00	0.00	41.84	2.67
1300	1323	3.188460	GTGCTTTCTTGTTCGCCTGATTA	59.812	43.478	0.00	0.00	0.00	1.75
1337	1360	2.740055	GCAGTCAGTCAGCACCCG	60.740	66.667	0.00	0.00	0.00	5.28
1370	1393	6.276832	ACTAAGTAGTCAAATTACTCGGCA	57.723	37.500	0.00	0.00	31.22	5.69
1375	1398	6.170506	AGTAGTCAAATTACTCGGCATGAAA	58.829	36.000	0.00	0.00	0.00	2.69
1462	1485	6.189677	TGTTTCCAACTTGTCACAACTTAG	57.810	37.500	0.00	0.00	0.00	2.18
1475	1498	3.569701	CACAACTTAGGCTGTGGTGAAAT	59.430	43.478	12.41	0.00	40.72	2.17
1489	1512	5.535783	TGTGGTGAAATATCAGGGCATATTG	59.464	40.000	0.00	0.00	35.88	1.90
1544	1572	2.740981	GAGACAGCAATTGAGGTCACTG	59.259	50.000	23.42	15.92	32.79	3.66
1549	1577	3.308053	CAGCAATTGAGGTCACTGTATCG	59.692	47.826	10.34	0.00	0.00	2.92
1717	1746	7.604545	GGTAGCTGATAGGGATAGAAACAAATC	59.395	40.741	0.00	0.00	0.00	2.17
1832	1861	3.567797	GAGGCCAAGATCGCACGC	61.568	66.667	5.01	0.00	0.00	5.34
1956	2085	9.546428	TTTCACTCATCAACATATATACAGGTG	57.454	33.333	0.00	0.00	0.00	4.00
2009	2138	1.294659	CTTTGCTCTGACGCCACCTC	61.295	60.000	0.00	0.00	0.00	3.85
2034	2163	5.570205	TTAATCCGGGCTTACCATGATTA	57.430	39.130	0.00	0.00	39.63	1.75
2128	2257	6.433847	TCTTACTGATCCAAACAAGGAGAA	57.566	37.500	0.00	0.00	41.90	2.87
2145	2274	3.908213	GAGAAATGGACTCCTCTATCGC	58.092	50.000	0.00	0.00	0.00	4.58
2210	2339	3.263261	TGTAAATGTTCTTATCGCGGCA	58.737	40.909	6.13	0.00	0.00	5.69
2258	2387	0.397941	GGCATGATCATCGGAAGGGA	59.602	55.000	4.86	0.00	0.00	4.20
2270	2399	1.202580	CGGAAGGGAGCATCTTCGATT	60.203	52.381	0.00	0.00	40.95	3.34
2318	2447	3.804325	GTCTGATGATCAATGTACCCGTG	59.196	47.826	0.00	0.00	0.00	4.94
2519	2648	3.599343	AGACGAATGATTGCACTGCTTA	58.401	40.909	1.98	0.00	0.00	3.09
2527	2656	4.835678	TGATTGCACTGCTTAAGATCTCA	58.164	39.130	6.67	0.00	0.00	3.27
2537	2667	5.804639	TGCTTAAGATCTCAAAGGCTACAA	58.195	37.500	6.67	0.00	0.00	2.41
2554	2684	3.515602	ACAACAATTGGCTTCTCCTCT	57.484	42.857	10.83	0.00	35.26	3.69
2563	2693	5.441718	TTGGCTTCTCCTCTGTGATTTAT	57.558	39.130	0.00	0.00	35.26	1.40
2580	2710	5.242838	TGATTTATCCGTTGCCCATATTTCC	59.757	40.000	0.00	0.00	0.00	3.13
2634	2764	2.899256	AGCAGCTTCTCTGAAACTCTCT	59.101	45.455	0.00	0.00	45.72	3.10
2676	2814	2.029623	GTGCCTGTAGGAGTTCGGATA	58.970	52.381	1.17	0.00	37.39	2.59
2745	2943	5.495640	AGCTTAGGAAAGGAGAATCTGTTG	58.504	41.667	0.00	0.00	32.98	3.33
2895	3099	1.597663	GTGTGTTTCTCCTGTTGGTCG	59.402	52.381	0.00	0.00	34.23	4.79
2957	3161	7.125204	TGTTTAAGCCTATTAGCACCTCTTCTA	59.875	37.037	0.00	0.00	34.23	2.10
2967	3171	3.007398	AGCACCTCTTCTAGTTGGAACTG	59.993	47.826	2.14	0.00	40.07	3.16
2980	3184	2.282462	AACTGGGAAGCAAGGCCG	60.282	61.111	0.00	0.00	0.00	6.13
2988	3192	1.244816	GAAGCAAGGCCGGTAGTTTT	58.755	50.000	1.90	0.00	0.00	2.43
3042	3248	0.927029	ATTGGGAGTTTAGAGGGCCC	59.073	55.000	16.46	16.46	39.29	5.80
3048	3254	0.777446	AGTTTAGAGGGCCCTTGCAA	59.223	50.000	29.39	17.40	40.13	4.08
3056	3262	1.069596	GGCCCTTGCAACAACCTTG	59.930	57.895	0.00	0.00	40.13	3.61
3070	3276	4.244862	ACAACCTTGTTGAACTGCAAAAG	58.755	39.130	13.46	0.00	38.47	2.27
3133	3470	5.359009	ACAGATTGATGCATTGGGAGTTTAG	59.641	40.000	0.00	0.00	0.00	1.85
3161	3498	4.463891	CCCTTGCATCAACCTTATTGAACT	59.536	41.667	0.00	0.00	31.55	3.01
3223	3560	6.446781	AGTAGAAACAGATTGATGCATTGG	57.553	37.500	0.00	0.00	0.00	3.16
3226	3563	4.401519	AGAAACAGATTGATGCATTGGGAG	59.598	41.667	0.00	0.00	0.00	4.30
3266	3603	6.202570	GCATCAACCTTATTGAACTGCAAAAA	59.797	34.615	9.32	0.00	40.48	1.94
3274	3611	7.646130	CCTTATTGAACTGCAAAAACGTCTTAA	59.354	33.333	0.00	0.00	40.48	1.85
3281	3618	9.228636	GAACTGCAAAAACGTCTTAAATTTAGA	57.771	29.630	0.00	0.00	0.00	2.10
3286	3623	9.829637	GCAAAAACGTCTTAAATTTAGAAACAG	57.170	29.630	0.00	0.00	0.00	3.16
3323	3663	4.668636	AGAAACAGACTAGCAGTAGGACT	58.331	43.478	0.00	0.00	0.00	3.85

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
246	255	1.546589	TACCACCGGGCTTCGACAAT	61.547	55.000	6.32	0.00	42.43	2.71
445	458	4.773674	TGATTCGGTTAGAAACTAGGGACA	59.226	41.667	0.00	0.00	42.91	4.02
685	704	4.326009	GTCATCAAACTTGCACAAACGTTT	59.674	37.500	7.96	7.96	0.00	3.60
811	834	0.101579	AAACAACCGAACGCAAAGGG	59.898	50.000	0.00	0.00	0.00	3.95
818	841	2.368685	GCAACAGTAAACAACCGAACG	58.631	47.619	0.00	0.00	0.00	3.95
914	937	2.203029	GGCGGATTCCGTCCCTTC	60.203	66.667	25.02	8.15	46.90	3.46
955	978	1.314730	CGGGGGATTGGGTTTTATCG	58.685	55.000	0.00	0.00	0.00	2.92
1025	1048	0.976073	CCCTTCCTCGTCTGGCCTTA	60.976	60.000	3.32	0.00	0.00	2.69
1028	1051	4.475135	GCCCTTCCTCGTCTGGCC	62.475	72.222	0.00	0.00	36.07	5.36
1069	1092	2.561373	GTACACTTTGCTGCCGCC	59.439	61.111	0.00	0.00	34.43	6.13
1070	1093	2.258013	TGGTACACTTTGCTGCCGC	61.258	57.895	0.00	0.00	0.00	6.53
1071	1094	4.057224	TGGTACACTTTGCTGCCG	57.943	55.556	0.00	0.00	0.00	5.69
1161	1184	1.719600	AGCGCAACTAAGCAAGAGAG	58.280	50.000	11.47	0.00	35.48	3.20
1162	1185	2.231478	AGTAGCGCAACTAAGCAAGAGA	59.769	45.455	11.47	0.00	35.48	3.10
1163	1186	2.346847	CAGTAGCGCAACTAAGCAAGAG	59.653	50.000	11.47	0.00	35.48	2.85
1164	1187	2.288825	ACAGTAGCGCAACTAAGCAAGA	60.289	45.455	11.47	0.00	35.48	3.02
1165	1188	2.069273	ACAGTAGCGCAACTAAGCAAG	58.931	47.619	11.47	0.00	35.48	4.01
1175	1198	1.068588	AGACAAGAACACAGTAGCGCA	59.931	47.619	11.47	0.00	0.00	6.09
1184	1207	3.454375	TCGAGAACCAAGACAAGAACAC	58.546	45.455	0.00	0.00	0.00	3.32
1195	1218	0.966179	TGCAGCTACTCGAGAACCAA	59.034	50.000	21.68	0.00	0.00	3.67
1205	1228	3.760580	AAGTTCTCAAGTGCAGCTACT	57.239	42.857	0.00	0.00	0.00	2.57
1206	1229	3.608008	GCAAAGTTCTCAAGTGCAGCTAC	60.608	47.826	0.00	0.00	35.28	3.58
1258	1281	7.517614	AGCACGAGAGATAGAATCTAATTGA	57.482	36.000	0.00	0.00	40.38	2.57
1259	1282	8.586570	AAAGCACGAGAGATAGAATCTAATTG	57.413	34.615	0.00	0.00	40.38	2.32
1300	1323	2.936202	CCGATGTCCTTTGATGGGAAT	58.064	47.619	0.00	0.00	34.35	3.01
1337	1360	3.770666	TGACTACTTAGTTCGCAGATGC	58.229	45.455	0.00	0.00	36.50	3.91
1462	1485	2.301346	CCCTGATATTTCACCACAGCC	58.699	52.381	0.00	0.00	0.00	4.85
1475	1498	7.673926	TGTACATACTCTCAATATGCCCTGATA	59.326	37.037	0.00	0.00	33.99	2.15
1489	1512	7.307751	CGAGAAGGAAGATCTGTACATACTCTC	60.308	44.444	0.00	0.12	0.00	3.20
1544	1572	3.997021	CTCAATGGGCCAATAGTCGATAC	59.003	47.826	11.89	0.00	0.00	2.24
1549	1577	2.301346	CCACTCAATGGGCCAATAGTC	58.699	52.381	11.89	0.00	45.95	2.59
1717	1746	8.925161	TTATGAAACTTGACAAAGACCAAAAG	57.075	30.769	0.00	0.00	36.84	2.27
1803	1832	0.819259	TTGGCCTCTTGCACTCACAC	60.819	55.000	3.32	0.00	43.89	3.82
1832	1861	4.387598	AGCCAATCAGATAGCAGCTTAAG	58.612	43.478	0.00	0.00	0.00	1.85
1922	2051	3.066621	TGTTGATGAGTGAAAGTGCCAAC	59.933	43.478	0.00	0.00	34.83	3.77
1977	2106	3.129462	CAGAGCAAAGAGACCGACTATGA	59.871	47.826	0.00	0.00	0.00	2.15
2009	2138	4.141287	TCATGGTAAGCCCGGATTAAATG	58.859	43.478	0.73	9.46	35.15	2.32
2034	2163	5.413309	TTTTCCTGAACCACACAAAACAT	57.587	34.783	0.00	0.00	0.00	2.71
2128	2257	2.950781	TCAGCGATAGAGGAGTCCATT	58.049	47.619	12.86	0.91	39.76	3.16
2210	2339	9.984590	ACTACCTTCTTCTTTCTAGATTCTACT	57.015	33.333	0.00	0.00	0.00	2.57
2258	2387	4.316645	CATCCAGATCAATCGAAGATGCT	58.683	43.478	8.28	3.82	45.12	3.79
2270	2399	1.227350	CGCTTCGGCATCCAGATCA	60.227	57.895	0.00	0.00	41.88	2.92
2318	2447	0.545548	ACAGACCCCTCAACCTCCTC	60.546	60.000	0.00	0.00	0.00	3.71
2519	2648	6.071728	CCAATTGTTGTAGCCTTTGAGATCTT	60.072	38.462	4.43	0.00	0.00	2.40
2527	2656	3.897505	AGAAGCCAATTGTTGTAGCCTTT	59.102	39.130	4.43	0.00	0.00	3.11
2537	2667	2.373169	TCACAGAGGAGAAGCCAATTGT	59.627	45.455	4.43	0.00	40.02	2.71
2554	2684	2.498644	TGGGCAACGGATAAATCACA	57.501	45.000	0.00	0.00	37.60	3.58
2563	2693	0.542333	TCGGAAATATGGGCAACGGA	59.458	50.000	0.00	0.00	37.60	4.69
2580	2710	2.947652	AGGTGATCTCATTGCCAATTCG	59.052	45.455	0.00	0.00	0.00	3.34
2634	2764	5.413523	CACACCATGATTCTCACAAAGATCA	59.586	40.000	0.00	0.00	32.82	2.92
2676	2814	8.641498	AACTGAAAACTTCTATCATTCCATGT	57.359	30.769	0.00	0.00	0.00	3.21
2862	3066	8.026607	CAGGAGAAACACACAAGAAACTAAAAA	58.973	33.333	0.00	0.00	0.00	1.94
2863	3067	7.175990	ACAGGAGAAACACACAAGAAACTAAAA	59.824	33.333	0.00	0.00	0.00	1.52
2868	3072	4.965119	ACAGGAGAAACACACAAGAAAC	57.035	40.909	0.00	0.00	0.00	2.78
2886	3090	5.721876	TTTTAACAGTACACGACCAACAG	57.278	39.130	0.00	0.00	0.00	3.16
2895	3099	7.227461	CACTGTCGATCATTTTAACAGTACAC	58.773	38.462	6.17	0.00	46.45	2.90
2948	3152	2.907042	CCCAGTTCCAACTAGAAGAGGT	59.093	50.000	0.00	0.00	37.08	3.85
2957	3161	1.479389	CCTTGCTTCCCAGTTCCAACT	60.479	52.381	0.00	0.00	40.60	3.16
2967	3171	2.124695	CTACCGGCCTTGCTTCCC	60.125	66.667	0.00	0.00	0.00	3.97
3048	3254	3.951775	TTTGCAGTTCAACAAGGTTGT	57.048	38.095	8.75	0.00	44.72	3.32
3070	3276	8.966194	GTACCTCTGTTCTTAAATATAAGACGC	58.034	37.037	0.00	0.00	45.52	5.19
3133	3470	2.054453	GGTTGATGCAAGGGCCCTC	61.054	63.158	28.84	15.10	40.13	4.30
3193	3530	9.890629	TGCATCAATCTGTTTCTACTTATTAGT	57.109	29.630	0.00	0.00	38.44	2.24
3213	3550	3.371917	CCCTCTAAACTCCCAATGCATCA	60.372	47.826	0.00	0.00	0.00	3.07
3223	3560	0.394488	GCAAGGGCCCTCTAAACTCC	60.394	60.000	28.84	0.00	0.00	3.85
3226	3563	1.340991	TGATGCAAGGGCCCTCTAAAC	60.341	52.381	28.84	17.29	40.13	2.01
3266	3603	9.420551	CTACCTCTGTTTCTAAATTTAAGACGT	57.579	33.333	0.00	0.00	0.00	4.34
3288	3625	9.949174	GCTAGTCTGTTTCTACTAATTACTACC	57.051	37.037	0.00	0.00	0.00	3.18
3323	3663	6.355747	AGTTCTTTGAAATTTGGCCATTTCA	58.644	32.000	24.32	24.32	46.71	2.69

Based at the University of Bristol with support from BBSRC.

AutoCloner maintained by Alex Coulton.