AutoCloner

Multiple sequence alignment - TraesCS3A01G050000

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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	TraesCS3A01G050000	chr3A	100.000	3239	0	0	1	3239	26405093	26408331	0.000000e+00	5982
1	TraesCS3A01G050000	chr3A	87.778	90	9	2	955	1043	26489121	26489209	1.590000e-18	104
2	TraesCS3A01G050000	chr7B	91.249	2457	180	24	1	2448	64320454	64322884	0.000000e+00	3314
3	TraesCS3A01G050000	chr3B	92.038	1457	89	12	1442	2884	29799280	29800723	0.000000e+00	2023
4	TraesCS3A01G050000	chr3B	86.771	1731	198	20	1138	2860	29610440	29612147	0.000000e+00	1899
5	TraesCS3A01G050000	chr3B	86.037	1726	163	42	734	2450	30376413	30378069	0.000000e+00	1781
6	TraesCS3A01G050000	chr3B	89.331	1406	121	19	1047	2447	29853849	29855230	0.000000e+00	1738
7	TraesCS3A01G050000	chr3B	88.486	1407	120	25	1047	2448	29628324	29629693	0.000000e+00	1663
8	TraesCS3A01G050000	chr3B	79.171	1085	155	39	3	1043	30503054	30504111	0.000000e+00	686
9	TraesCS3A01G050000	chr3B	78.713	1057	155	39	1	1043	30532092	30533092	2.720000e-180	641
10	TraesCS3A01G050000	chr3B	90.833	360	30	2	2882	3239	29800958	29801316	2.260000e-131	479
11	TraesCS3A01G050000	chr3B	77.580	843	135	33	214	1043	30243172	30243973	8.190000e-126	460
12	TraesCS3A01G050000	chr3B	90.291	206	18	2	3024	3229	30178809	30179012	5.330000e-68	268
13	TraesCS3A01G050000	chr3B	91.623	191	14	2	3039	3229	30140917	30141105	2.480000e-66	263
14	TraesCS3A01G050000	chr3B	89.320	206	20	2	3024	3229	30142922	30143125	1.150000e-64	257
15	TraesCS3A01G050000	chr3B	89.320	206	20	2	3024	3229	30151003	30151206	1.150000e-64	257
16	TraesCS3A01G050000	chr3B	89.320	206	20	2	3024	3229	30152012	30152215	1.150000e-64	257
17	TraesCS3A01G050000	chr3B	88.835	206	21	2	3024	3229	30144942	30145145	5.360000e-63	252
18	TraesCS3A01G050000	chr3B	88.835	206	21	2	3024	3229	30155042	30155245	5.360000e-63	252
19	TraesCS3A01G050000	chr3B	88.835	206	21	2	3024	3229	30156052	30156255	5.360000e-63	252
20	TraesCS3A01G050000	chr3B	87.793	213	26	0	1	213	30515496	30515708	1.930000e-62	250
21	TraesCS3A01G050000	chr3B	82.305	243	30	9	1	233	30473261	30473500	7.090000e-47	198
22	TraesCS3A01G050000	chr7D	90.759	1331	96	18	1123	2448	105686153	105687461	0.000000e+00	1751
23	TraesCS3A01G050000	chr7D	90.776	683	60	2	1	681	105684974	105685655	0.000000e+00	909
24	TraesCS3A01G050000	chr7D	94.359	195	10	1	928	1121	105685654	105685848	6.790000e-77	298
25	TraesCS3A01G050000	chr3D	89.130	1380	123	21	1076	2448	18801212	18802571	0.000000e+00	1692
26	TraesCS3A01G050000	chr3D	90.745	1221	99	6	1051	2268	18952565	18953774	0.000000e+00	1616
27	TraesCS3A01G050000	chr3D	79.235	366	51	14	686	1043	18800670	18801018	6.990000e-57	231

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	TraesCS3A01G050000	chr3A	26405093	26408331	3238	False	5982.000000	5982	100.000000	1	3239	1	chr3A.!!$F1	3238
1	TraesCS3A01G050000	chr7B	64320454	64322884	2430	False	3314.000000	3314	91.249000	1	2448	1	chr7B.!!$F1	2447
2	TraesCS3A01G050000	chr3B	29610440	29612147	1707	False	1899.000000	1899	86.771000	1138	2860	1	chr3B.!!$F1	1722
3	TraesCS3A01G050000	chr3B	30376413	30378069	1656	False	1781.000000	1781	86.037000	734	2450	1	chr3B.!!$F6	1716
4	TraesCS3A01G050000	chr3B	29853849	29855230	1381	False	1738.000000	1738	89.331000	1047	2447	1	chr3B.!!$F3	1400
5	TraesCS3A01G050000	chr3B	29628324	29629693	1369	False	1663.000000	1663	88.486000	1047	2448	1	chr3B.!!$F2	1401
6	TraesCS3A01G050000	chr3B	29799280	29801316	2036	False	1251.000000	2023	91.435500	1442	3239	2	chr3B.!!$F11	1797
7	TraesCS3A01G050000	chr3B	30503054	30504111	1057	False	686.000000	686	79.171000	3	1043	1	chr3B.!!$F8	1040
8	TraesCS3A01G050000	chr3B	30532092	30533092	1000	False	641.000000	641	78.713000	1	1043	1	chr3B.!!$F10	1042
9	TraesCS3A01G050000	chr3B	30243172	30243973	801	False	460.000000	460	77.580000	214	1043	1	chr3B.!!$F5	829
10	TraesCS3A01G050000	chr3B	30140917	30145145	4228	False	257.333333	263	89.926000	3024	3229	3	chr3B.!!$F12	205
11	TraesCS3A01G050000	chr3B	30151003	30156255	5252	False	254.500000	257	89.077500	3024	3229	4	chr3B.!!$F13	205
12	TraesCS3A01G050000	chr7D	105684974	105687461	2487	False	986.000000	1751	91.964667	1	2448	3	chr7D.!!$F1	2447
13	TraesCS3A01G050000	chr3D	18952565	18953774	1209	False	1616.000000	1616	90.745000	1051	2268	1	chr3D.!!$F1	1217
14	TraesCS3A01G050000	chr3D	18800670	18802571	1901	False	961.500000	1692	84.182500	686	2448	2	chr3D.!!$F2	1762

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
518	542	0.250727	AACCCAACAGTATGCACGCT	60.251	50.0	0.0	0.0	42.53	5.07	F
901	949	0.391661	TGCGATGCTTGTCTCTTCCC	60.392	55.0	0.0	0.0	0.00	3.97	F

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability	Orientation
1955	2494	1.005215	CATTTCTCCTGCCTCCAACCT	59.995	52.381	0.0	0.0	0.0	3.50	R
2829	3408	2.095718	GCCGAATCTTCACTGGAACAAC	60.096	50.000	0.0	0.0	38.7	3.32	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
33	34	1.224315	CCATCATCTGTGGGCGGAA	59.776	57.895	0.00	0.00	33.10	4.30
36	37	2.487086	CCATCATCTGTGGGCGGAATTA	60.487	50.000	0.00	0.00	33.10	1.40
99	106	7.108841	AGATACACCGCTTCTGTAGATTAAA	57.891	36.000	0.00	0.00	0.00	1.52
124	131	6.554334	AGTCTTCAATTTTAGCGCACTAAA	57.446	33.333	11.47	7.13	44.70	1.85
127	134	7.750903	AGTCTTCAATTTTAGCGCACTAAATTC	59.249	33.333	11.47	6.24	45.46	2.17
131	138	5.897377	ATTTTAGCGCACTAAATTCAGGT	57.103	34.783	11.47	0.00	45.46	4.00
160	167	8.994429	TTACAAGAAAAATGAACACAACATGT	57.006	26.923	0.00	0.00	46.42	3.21
258	278	3.813166	GGGTTCTGATCGTTTTTGTGAGA	59.187	43.478	0.00	0.00	0.00	3.27
310	330	5.698832	TGTGTAAGTTGCAGCATTGATTAC	58.301	37.500	2.55	4.47	0.00	1.89
361	384	7.176690	AGGTTGTAATACCTGATTGAACCTTTG	59.823	37.037	0.00	0.00	46.71	2.77
380	403	3.773418	TGGGGTCGATCACAAAACTAA	57.227	42.857	0.00	0.00	0.00	2.24
392	415	8.587950	CGATCACAAAACTAAGTCTTATCAGTC	58.412	37.037	0.00	0.00	0.00	3.51
400	423	9.646427	AAACTAAGTCTTATCAGTCTCATTGAC	57.354	33.333	0.00	0.00	45.67	3.18
456	480	3.105959	AGAAAAGCATGCCCATACCTT	57.894	42.857	15.66	0.00	0.00	3.50
509	533	4.202326	CCTGACTAGTGTAAACCCAACAGT	60.202	45.833	0.00	0.00	34.87	3.55
511	535	6.295688	CCTGACTAGTGTAAACCCAACAGTAT	60.296	42.308	0.00	0.00	33.46	2.12
518	542	0.250727	AACCCAACAGTATGCACGCT	60.251	50.000	0.00	0.00	42.53	5.07
531	555	0.951040	GCACGCTGCTGGTCTAGTTT	60.951	55.000	0.00	0.00	40.96	2.66
545	569	5.642063	TGGTCTAGTTTTGTAGCATAAGCAC	59.358	40.000	0.00	0.00	45.49	4.40
568	594	2.109425	ATCTTCGGTTTAGCCACACC	57.891	50.000	0.00	0.00	36.97	4.16
590	616	3.376859	CGGTTCATGCTGCTGGTAAATAA	59.623	43.478	0.00	0.00	0.00	1.40
668	706	3.337694	ACCATCCAACAATGCCATTTG	57.662	42.857	0.00	0.00	0.00	2.32
800	840	7.851228	TGCTCTATCAAAAGGAAGTCAGATAA	58.149	34.615	0.00	0.00	0.00	1.75
815	855	9.296400	GAAGTCAGATAAGTAGAACATGTTCTC	57.704	37.037	37.67	28.16	46.13	2.87
827	867	5.752712	GAACATGTTCTCTTGTTCTTCACC	58.247	41.667	27.66	0.00	46.19	4.02
901	949	0.391661	TGCGATGCTTGTCTCTTCCC	60.392	55.000	0.00	0.00	0.00	3.97
932	983	8.510132	AAAAACAACCAACGTAATACTATTGC	57.490	30.769	0.00	0.00	0.00	3.56
1121	1658	8.450578	TGGTCTGGAAATCATAATGAATGTAC	57.549	34.615	0.00	0.00	36.89	2.90
1161	1700	8.370182	ACAAAAGAAAATAACATCAGCTTCCAT	58.630	29.630	0.00	0.00	0.00	3.41
1162	1701	8.866956	CAAAAGAAAATAACATCAGCTTCCATC	58.133	33.333	0.00	0.00	0.00	3.51
1421	1960	6.342111	GTTATGGTGTGGTTTTCAAAGGAAA	58.658	36.000	0.00	0.00	41.13	3.13
1437	1976	3.714391	AGGAAAACTATACGATGGTCGC	58.286	45.455	0.00	0.00	45.12	5.19
1514	2053	2.368439	TGAGGTTATGAGCATTGGCAC	58.632	47.619	0.00	0.00	44.61	5.01
1563	2102	3.483808	TTTGGATTTTGTTTGGAGGGC	57.516	42.857	0.00	0.00	0.00	5.19
1636	2175	3.611766	ACATTTACTCAGAGAACCCCG	57.388	47.619	3.79	0.00	0.00	5.73
1955	2494	6.664816	AGTTATGGAATGATGCTTTTGGAGAA	59.335	34.615	0.00	0.00	0.00	2.87
2068	2607	6.604396	AGATGATGGATTACAAGCATGTGAAA	59.396	34.615	4.51	0.00	40.84	2.69
2195	2734	6.814506	AATGTTTGAGAGAAGTTCAGATGG	57.185	37.500	5.50	0.00	0.00	3.51
2229	2768	2.168313	ACCAAAGCAAAACTTCTGTGGG	59.832	45.455	3.77	0.00	37.88	4.61
2324	2886	9.478768	TTTATTTCAGTAACTTGACATACGTGA	57.521	29.630	0.00	0.00	0.00	4.35
2334	2896	7.575414	ACTTGACATACGTGATTATCTCTCT	57.425	36.000	0.00	0.00	0.00	3.10
2335	2897	8.001881	ACTTGACATACGTGATTATCTCTCTT	57.998	34.615	0.00	0.00	0.00	2.85
2361	2923	6.395426	TCAGTGAAAATTCAGCTCACAATT	57.605	33.333	4.43	0.00	41.58	2.32
2450	3014	3.251004	ACGATTGCCAACTCTTTGAGAAC	59.749	43.478	1.25	0.00	34.24	3.01
2452	3016	0.944386	TGCCAACTCTTTGAGAACGC	59.056	50.000	1.25	0.72	34.24	4.84
2463	3027	0.892358	TGAGAACGCGACCTGTACCT	60.892	55.000	15.93	0.00	0.00	3.08
2464	3028	1.089920	GAGAACGCGACCTGTACCTA	58.910	55.000	15.93	0.00	0.00	3.08
2501	3065	3.118261	AGTGGAGTTCGGCATTGTATCAT	60.118	43.478	0.00	0.00	0.00	2.45
2508	3072	6.551736	AGTTCGGCATTGTATCATAAAACAC	58.448	36.000	0.00	0.00	0.00	3.32
2583	3150	6.585322	CCATCTCAGACTTCAAATTTGCTTTC	59.415	38.462	13.54	8.62	0.00	2.62
2644	3211	1.494721	GAGAAGGGCAATATGGTGGGA	59.505	52.381	0.00	0.00	0.00	4.37
2658	3226	2.990284	TGGTGGGAATCTAAGGTGGAAA	59.010	45.455	0.00	0.00	0.00	3.13
2662	3230	6.192044	GGTGGGAATCTAAGGTGGAAATTAA	58.808	40.000	0.00	0.00	0.00	1.40
2705	3284	0.466189	ACCCTTATTCCAGGCATGCG	60.466	55.000	12.44	0.00	31.69	4.73
2720	3299	4.159879	AGGCATGCGTAAACTAGAGTAAGT	59.840	41.667	11.96	0.00	0.00	2.24
2740	3319	6.992063	AAGTTAGCACTATCTGGAACAATG	57.008	37.500	0.00	0.00	31.27	2.82
2788	3367	8.986477	AAACAGAACTTGGATAAATGTATTGC	57.014	30.769	0.00	0.00	0.00	3.56
2869	3448	2.675844	GGCACACAATATGAGCGTACAA	59.324	45.455	0.00	0.00	45.11	2.41
2870	3449	3.242413	GGCACACAATATGAGCGTACAAG	60.242	47.826	0.00	0.00	45.11	3.16
2876	3455	2.979814	TATGAGCGTACAAGGTGCAT	57.020	45.000	0.00	0.00	0.00	3.96
2883	3699	2.093783	GCGTACAAGGTGCATGTTCTAC	59.906	50.000	0.00	0.00	32.27	2.59
2888	3704	4.151883	ACAAGGTGCATGTTCTACCATTT	58.848	39.130	11.34	0.00	36.94	2.32
2890	3706	4.032960	AGGTGCATGTTCTACCATTTCA	57.967	40.909	11.34	0.00	36.94	2.69
2897	3713	6.660521	TGCATGTTCTACCATTTCAGAAGATT	59.339	34.615	0.00	0.00	33.77	2.40
2901	3717	8.327941	TGTTCTACCATTTCAGAAGATTTGAG	57.672	34.615	0.00	0.00	31.62	3.02
2906	3722	6.248433	ACCATTTCAGAAGATTTGAGCCTTA	58.752	36.000	0.00	0.00	0.00	2.69
2915	3731	8.464404	CAGAAGATTTGAGCCTTATGAATTCAA	58.536	33.333	13.09	0.00	34.55	2.69
2933	3749	9.393512	TGAATTCAAAATTTGTTCAATGGACTT	57.606	25.926	5.45	0.00	0.00	3.01
2958	3774	8.939201	TGATTCAGAAATTAAACAAAGCAACA	57.061	26.923	0.00	0.00	0.00	3.33
2959	3775	9.545105	TGATTCAGAAATTAAACAAAGCAACAT	57.455	25.926	0.00	0.00	0.00	2.71
2961	3777	8.939201	TTCAGAAATTAAACAAAGCAACATCA	57.061	26.923	0.00	0.00	0.00	3.07
3037	3853	2.544267	CCTTGAACAAACAGACTCGGAC	59.456	50.000	0.00	0.00	0.00	4.79
3128	3946	2.501723	GAGCATGTCAAGAAGTAGGGGA	59.498	50.000	0.00	0.00	0.00	4.81
3188	9055	1.477700	GATGGCCAACTTGCATTGCTA	59.522	47.619	10.96	0.87	0.00	3.49
3229	9096	9.574516	ACTGGTTAGTTCTGTCAAAGAATTAAT	57.425	29.630	0.00	0.00	46.53	1.40

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
99	106	7.843490	TTAGTGCGCTAAAATTGAAGACTAT	57.157	32.000	17.19	0.00	34.54	2.12
114	121	1.271379	ACCACCTGAATTTAGTGCGCT	60.271	47.619	9.73	4.58	0.00	5.92
124	131	8.017418	TCATTTTTCTTGTAAACCACCTGAAT	57.983	30.769	0.00	0.00	0.00	2.57
127	134	7.010091	GTGTTCATTTTTCTTGTAAACCACCTG	59.990	37.037	0.00	0.00	0.00	4.00
131	138	7.872993	TGTTGTGTTCATTTTTCTTGTAAACCA	59.127	29.630	0.00	0.00	0.00	3.67
160	167	5.595542	ACCATTTACATCTAGTAGGTACGCA	59.404	40.000	0.00	0.00	33.43	5.24
258	278	9.023962	TGAGCTTAAAATGGTGATACAAAAGAT	57.976	29.630	0.00	0.00	0.00	2.40
310	330	1.818674	CCAAATCTTTTCCAGACCCCG	59.181	52.381	0.00	0.00	32.83	5.73
361	384	3.671716	ACTTAGTTTTGTGATCGACCCC	58.328	45.455	0.00	0.00	0.00	4.95
400	423	3.450817	GTCCCACCCCCAATTTCATTTAG	59.549	47.826	0.00	0.00	0.00	1.85
518	542	3.762407	TGCTACAAAACTAGACCAGCA	57.238	42.857	0.00	0.00	35.33	4.41
531	555	5.163864	CGAAGATTGTGTGCTTATGCTACAA	60.164	40.000	18.71	18.71	44.29	2.41
545	569	2.811431	TGTGGCTAAACCGAAGATTGTG	59.189	45.455	0.00	0.00	43.94	3.33
568	594	1.164411	TTTACCAGCAGCATGAACCG	58.836	50.000	0.00	0.00	39.69	4.44
763	803	6.856135	TTTGATAGAGCAGCTATGTTGATG	57.144	37.500	0.00	0.00	39.90	3.07
805	845	5.192927	TGGTGAAGAACAAGAGAACATGTT	58.807	37.500	11.78	11.78	39.98	2.71
815	855	4.572985	TTGCAAGATGGTGAAGAACAAG	57.427	40.909	0.00	0.00	0.00	3.16
919	970	4.796830	ACAGTGTCACGCAATAGTATTACG	59.203	41.667	12.89	12.89	0.00	3.18
932	983	8.067784	ACATTTATGAGTAAAAACAGTGTCACG	58.932	33.333	0.00	0.00	33.76	4.35
1034	1097	7.551262	TGGTTGCAAAACTAGTACTACATATGG	59.449	37.037	0.00	0.00	32.01	2.74
1090	1324	6.769341	TCATTATGATTTCCAGACCATCAGTG	59.231	38.462	0.00	0.00	30.52	3.66
1153	1692	3.396685	AGTACCTGAGAGATGGAAGCT	57.603	47.619	0.00	0.00	30.44	3.74
1161	1700	4.203226	CTGCTGATGTAGTACCTGAGAGA	58.797	47.826	0.00	0.00	0.00	3.10
1162	1701	3.243367	GCTGCTGATGTAGTACCTGAGAG	60.243	52.174	0.00	0.00	0.00	3.20
1380	1919	2.748209	AACCACCTTTACCAAGCTGT	57.252	45.000	0.00	0.00	0.00	4.40
1421	1960	1.340248	CCAGGCGACCATCGTATAGTT	59.660	52.381	0.00	0.00	42.81	2.24
1426	1965	1.216977	CAACCAGGCGACCATCGTA	59.783	57.895	0.00	0.00	42.81	3.43
1437	1976	3.645884	CAAGAATTTCACAGCAACCAGG	58.354	45.455	0.00	0.00	0.00	4.45
1514	2053	5.862924	AACAACATTAACATGAGAGGTCG	57.137	39.130	0.00	0.00	34.11	4.79
1636	2175	5.300539	GCCTCTCCCATCCTAAAATTTCTTC	59.699	44.000	0.00	0.00	0.00	2.87
1777	2316	3.557475	CCAAAATCAGCAATCTTTGGGCA	60.557	43.478	10.81	0.00	42.66	5.36
1955	2494	1.005215	CATTTCTCCTGCCTCCAACCT	59.995	52.381	0.00	0.00	0.00	3.50
2068	2607	5.587844	CGATTTCCTCCATTTCTCTTGTGAT	59.412	40.000	0.00	0.00	0.00	3.06
2103	2642	2.823154	GCACCACAAGCCAATTAAGGTA	59.177	45.455	0.00	0.00	0.00	3.08
2229	2768	8.158169	TGCATGGAGAAATATCTTACATCAAC	57.842	34.615	0.00	0.00	35.54	3.18
2334	2896	6.629128	TGTGAGCTGAATTTTCACTGAAAAA	58.371	32.000	18.57	4.44	43.32	1.94
2335	2897	6.206395	TGTGAGCTGAATTTTCACTGAAAA	57.794	33.333	17.31	17.31	44.04	2.29
2361	2923	9.158233	GGTAGAACTTGCACTTTGTACATTATA	57.842	33.333	13.04	0.00	0.00	0.98
2450	3014	3.976793	TTATCTTAGGTACAGGTCGCG	57.023	47.619	0.00	0.00	0.00	5.87
2452	3016	5.519206	GCTTGTTTATCTTAGGTACAGGTCG	59.481	44.000	0.00	0.00	0.00	4.79
2463	3027	3.932710	CTCCACTGCGCTTGTTTATCTTA	59.067	43.478	9.73	0.00	0.00	2.10
2464	3028	2.744202	CTCCACTGCGCTTGTTTATCTT	59.256	45.455	9.73	0.00	0.00	2.40
2583	3150	2.236395	AGAAGGAAAGTGGTGGTATCCG	59.764	50.000	0.00	0.00	35.31	4.18
2637	3204	2.352561	TCCACCTTAGATTCCCACCA	57.647	50.000	0.00	0.00	0.00	4.17
2658	3226	8.364142	TGTTGCACAGGCTACTTAAATTTTAAT	58.636	29.630	0.00	0.00	44.53	1.40
2662	3230	5.534654	TCTGTTGCACAGGCTACTTAAATTT	59.465	36.000	13.87	0.00	45.94	1.82
2720	3299	7.872993	GCTATACATTGTTCCAGATAGTGCTAA	59.127	37.037	0.00	0.00	0.00	3.09
2824	3403	5.505173	AATCTTCACTGGAACAACAAGTG	57.495	39.130	0.00	0.00	38.70	3.16
2826	3405	4.319766	CCGAATCTTCACTGGAACAACAAG	60.320	45.833	0.00	0.00	38.70	3.16
2827	3406	3.563808	CCGAATCTTCACTGGAACAACAA	59.436	43.478	0.00	0.00	38.70	2.83
2829	3408	2.095718	GCCGAATCTTCACTGGAACAAC	60.096	50.000	0.00	0.00	38.70	3.32
2869	3448	4.012374	CTGAAATGGTAGAACATGCACCT	58.988	43.478	0.00	0.00	33.28	4.00
2870	3449	4.009675	TCTGAAATGGTAGAACATGCACC	58.990	43.478	0.00	0.00	0.00	5.01
2876	3455	7.094634	GCTCAAATCTTCTGAAATGGTAGAACA	60.095	37.037	0.00	0.00	0.00	3.18
2883	3699	5.656213	AAGGCTCAAATCTTCTGAAATGG	57.344	39.130	0.00	0.00	0.00	3.16
2888	3704	7.830697	TGAATTCATAAGGCTCAAATCTTCTGA	59.169	33.333	3.38	0.00	0.00	3.27
2890	3706	8.585471	TTGAATTCATAAGGCTCAAATCTTCT	57.415	30.769	9.40	0.00	0.00	2.85
2897	3713	9.558396	AACAAATTTTGAATTCATAAGGCTCAA	57.442	25.926	15.81	0.00	0.00	3.02
2906	3722	9.563748	AGTCCATTGAACAAATTTTGAATTCAT	57.436	25.926	15.81	0.00	29.40	2.57
2931	3747	9.853921	GTTGCTTTGTTTAATTTCTGAATCAAG	57.146	29.630	0.00	0.00	0.00	3.02
2933	3749	8.939201	TGTTGCTTTGTTTAATTTCTGAATCA	57.061	26.923	0.00	0.00	0.00	2.57
2981	3797	8.618677	CCCATCTGTGCATATATGAAATATGTC	58.381	37.037	17.10	0.00	40.40	3.06
2998	3814	0.179000	GGTAGAGCCACCCATCTGTG	59.821	60.000	0.00	0.00	37.17	3.66
3037	3853	5.972107	AATGGAAACTCTGGAAACATCTG	57.028	39.130	0.00	0.00	41.51	2.90
3128	3946	7.676004	TGATGAACACGGGTATAACATCATAT	58.324	34.615	18.74	0.00	38.02	1.78
3188	9055	6.476378	ACTAACCAGTATGTGCAAGAGAATT	58.524	36.000	0.00	0.00	31.45	2.17

Based at the University of Bristol with support from BBSRC.

AutoCloner maintained by Alex Coulton.