AutoCloner

Multiple sequence alignment - TraesCS1D01G369500

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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	TraesCS1D01G369500	chr1D	100.000	2644	0	0	1	2644	448423163	448425806	0.000000e+00	4883.0
1	TraesCS1D01G369500	chr1D	87.557	1310	80	31	533	1814	448388498	448389752	0.000000e+00	1439.0
2	TraesCS1D01G369500	chr1D	87.330	884	55	29	534	1388	448376338	448377193	0.000000e+00	959.0
3	TraesCS1D01G369500	chr1D	91.209	273	21	1	1377	1646	448640276	448640548	4.160000e-98	368.0
4	TraesCS1D01G369500	chr1D	93.407	91	2	1	715	801	448639480	448639570	5.940000e-27	132.0
5	TraesCS1D01G369500	chr1D	85.417	96	12	2	813	906	448283058	448283153	6.020000e-17	99.0
6	TraesCS1D01G369500	chr1B	86.680	1952	109	60	606	2500	614291958	614293815	0.000000e+00	2025.0
7	TraesCS1D01G369500	chr1B	86.075	1149	72	35	533	1631	614277719	614278829	0.000000e+00	1155.0
8	TraesCS1D01G369500	chr1B	88.550	393	30	11	1264	1650	614420575	614420958	1.850000e-126	462.0
9	TraesCS1D01G369500	chr1B	87.179	390	40	6	1264	1650	614425837	614426219	4.040000e-118	435.0
10	TraesCS1D01G369500	chr1B	83.576	481	41	16	1188	1650	614442803	614443263	1.460000e-112	416.0
11	TraesCS1D01G369500	chr1B	91.034	145	13	0	2497	2641	614297674	614297818	2.080000e-46	196.0
12	TraesCS1D01G369500	chr1B	77.509	289	31	14	998	1263	614183417	614183694	2.740000e-30	143.0
13	TraesCS1D01G369500	chr1B	91.209	91	4	2	715	801	614442215	614442305	1.290000e-23	121.0
14	TraesCS1D01G369500	chr1B	89.041	73	8	0	813	885	614183241	614183313	1.010000e-14	91.6
15	TraesCS1D01G369500	chr1A	81.860	1301	98	62	641	1856	544197842	544199089	0.000000e+00	968.0
16	TraesCS1D01G369500	chr1A	83.618	702	63	27	697	1388	544194205	544194864	1.740000e-171	612.0
17	TraesCS1D01G369500	chr1A	88.025	476	40	10	1187	1650	544318871	544319341	4.980000e-152	547.0
18	TraesCS1D01G369500	chr1A	89.720	321	33	0	1264	1584	544293416	544293736	6.810000e-111	411.0
19	TraesCS1D01G369500	chr1A	91.743	109	9	0	1196	1304	544176996	544177104	4.560000e-33	152.0
20	TraesCS1D01G369500	chr1A	77.441	297	37	12	998	1271	544176716	544177005	1.640000e-32	150.0
21	TraesCS1D01G369500	chr1A	92.424	66	4	1	533	598	544197785	544197849	2.800000e-15	93.5
22	TraesCS1D01G369500	chr1A	95.556	45	1	1	1856	1899	544199126	544199170	1.310000e-08	71.3
23	TraesCS1D01G369500	chr7A	86.280	758	74	12	1903	2641	510547483	510548229	0.000000e+00	797.0
24	TraesCS1D01G369500	chr7D	90.459	566	21	9	1	533	198026935	198027500	0.000000e+00	715.0
25	TraesCS1D01G369500	chr7D	94.536	183	9	1	1931	2112	33053843	33053661	5.570000e-72	281.0
26	TraesCS1D01G369500	chr2A	88.768	552	33	20	1	525	401929203	401928654	0.000000e+00	649.0
27	TraesCS1D01G369500	chr2A	88.406	552	35	20	1	525	403887847	403887298	2.870000e-179	638.0
28	TraesCS1D01G369500	chr4A	90.459	283	23	4	1899	2180	693281527	693281248	1.160000e-98	370.0

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	TraesCS1D01G369500	chr1D	448423163	448425806	2643	False	4883.0	4883	100.0000	1	2644	1	chr1D.!!$F4	2643
1	TraesCS1D01G369500	chr1D	448388498	448389752	1254	False	1439.0	1439	87.5570	533	1814	1	chr1D.!!$F3	1281
2	TraesCS1D01G369500	chr1D	448376338	448377193	855	False	959.0	959	87.3300	534	1388	1	chr1D.!!$F2	854
3	TraesCS1D01G369500	chr1D	448639480	448640548	1068	False	250.0	368	92.3080	715	1646	2	chr1D.!!$F5	931
4	TraesCS1D01G369500	chr1B	614277719	614278829	1110	False	1155.0	1155	86.0750	533	1631	1	chr1B.!!$F1	1098
5	TraesCS1D01G369500	chr1B	614291958	614297818	5860	False	1110.5	2025	88.8570	606	2641	2	chr1B.!!$F5	2035
6	TraesCS1D01G369500	chr1B	614442215	614443263	1048	False	268.5	416	87.3925	715	1650	2	chr1B.!!$F6	935
7	TraesCS1D01G369500	chr1A	544194205	544199170	4965	False	436.2	968	88.3645	533	1899	4	chr1A.!!$F4	1366
8	TraesCS1D01G369500	chr7A	510547483	510548229	746	False	797.0	797	86.2800	1903	2641	1	chr7A.!!$F1	738
9	TraesCS1D01G369500	chr7D	198026935	198027500	565	False	715.0	715	90.4590	1	533	1	chr7D.!!$F1	532
10	TraesCS1D01G369500	chr2A	401928654	401929203	549	True	649.0	649	88.7680	1	525	1	chr2A.!!$R1	524
11	TraesCS1D01G369500	chr2A	403887298	403887847	549	True	638.0	638	88.4060	1	525	1	chr2A.!!$R2	524

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
688	3764	1.064389	CCCCACCCAATCTCTTTCCTC	60.064	57.143	0.0	0.0	0.0	3.71	F

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability	Orientation
2149	5641	0.174389	TGCCATCTCAGAACGCTCTC	59.826	55.0	0.0	0.0	0.0	3.2	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
49	50	5.461032	TGTTTGATTTTTATTCCAGCCGT	57.539	34.783	0.00	0.00	0.00	5.68
80	81	2.397044	TTGCCTGGTCCCTTTCATTT	57.603	45.000	0.00	0.00	0.00	2.32
135	136	1.683385	CATGATCTGGACCTACGCAGA	59.317	52.381	0.00	0.00	33.11	4.26
285	312	3.181504	CGATGAACATCATTTGCAGCTCA	60.182	43.478	13.92	0.00	37.20	4.26
450	477	7.324935	ACACATTTGTTATCTATACCGTCACA	58.675	34.615	0.00	0.00	28.43	3.58
451	478	7.985184	ACACATTTGTTATCTATACCGTCACAT	59.015	33.333	0.00	0.00	28.43	3.21
555	3603	8.000780	AGTGAAAACAAGAAAACAGAAGCTAT	57.999	30.769	0.00	0.00	0.00	2.97
599	3647	2.475371	ATATCGCCTGGCCTGCATCC	62.475	60.000	14.12	0.00	0.00	3.51
601	3649	3.865383	CGCCTGGCCTGCATCCTA	61.865	66.667	14.12	0.00	0.00	2.94
603	3651	2.750657	GCCTGGCCTGCATCCTACT	61.751	63.158	7.66	0.00	0.00	2.57
604	3652	1.918253	CCTGGCCTGCATCCTACTT	59.082	57.895	3.32	0.00	0.00	2.24
682	3758	1.203440	ACACTACCCCACCCAATCTCT	60.203	52.381	0.00	0.00	0.00	3.10
688	3764	1.064389	CCCCACCCAATCTCTTTCCTC	60.064	57.143	0.00	0.00	0.00	3.71
709	3787	3.625764	TCAACCTGTCTTTACACTTGTGC	59.374	43.478	0.10	0.00	0.00	4.57
801	3887	3.909312	CGATCGAGCTTCGCGAAT	58.091	55.556	23.67	8.60	39.28	3.34
808	3913	2.610833	TCGAGCTTCGCGAATCTACTAA	59.389	45.455	23.74	8.16	40.21	2.24
890	3998	2.874648	AATGCCGCCTGCTCGAATCA	62.875	55.000	0.00	0.00	42.00	2.57
910	4022	2.166254	CACCTTTCCAACACAAGCAGTT	59.834	45.455	0.00	0.00	0.00	3.16
919	4031	4.494350	AACACAAGCAGTTGAGCAATAG	57.506	40.909	0.00	0.00	37.10	1.73
982	4147	2.503765	TGGTGTTTGTTGGTGAGAGAGA	59.496	45.455	0.00	0.00	0.00	3.10
983	4148	3.054728	TGGTGTTTGTTGGTGAGAGAGAA	60.055	43.478	0.00	0.00	0.00	2.87
984	4149	3.561725	GGTGTTTGTTGGTGAGAGAGAAG	59.438	47.826	0.00	0.00	0.00	2.85
985	4150	4.442706	GTGTTTGTTGGTGAGAGAGAAGA	58.557	43.478	0.00	0.00	0.00	2.87
986	4151	4.509600	GTGTTTGTTGGTGAGAGAGAAGAG	59.490	45.833	0.00	0.00	0.00	2.85
987	4152	4.405680	TGTTTGTTGGTGAGAGAGAAGAGA	59.594	41.667	0.00	0.00	0.00	3.10
1104	4297	1.453155	ACCACTTCATCGTGCATTCC	58.547	50.000	0.00	0.00	33.60	3.01
1108	4301	1.556911	ACTTCATCGTGCATTCCTCCT	59.443	47.619	0.00	0.00	0.00	3.69
1109	4302	1.938577	CTTCATCGTGCATTCCTCCTG	59.061	52.381	0.00	0.00	0.00	3.86
1110	4303	0.462581	TCATCGTGCATTCCTCCTGC	60.463	55.000	0.00	0.00	40.10	4.85
1135	4333	3.345808	GCGGCGTTGCTCAGTGAA	61.346	61.111	9.37	0.00	0.00	3.18
1152	4350	5.629097	CAGTGAACTGAAATGATCTCTTGC	58.371	41.667	4.36	0.00	46.59	4.01
1283	4705	1.228124	CAAGGACAAGACGGCCCAA	60.228	57.895	0.00	0.00	0.00	4.12
1476	4898	1.534476	TACACCAAGGAGTCCGCCA	60.534	57.895	2.76	0.00	0.00	5.69
1666	5098	3.043586	CGCATACATACGTCCAGTCTTC	58.956	50.000	0.00	0.00	0.00	2.87
1752	5188	4.635765	TCTTGTGATTTCCGCTCATTTAGG	59.364	41.667	0.00	0.00	0.00	2.69
1770	5206	3.434940	AGGGTAAGTTTGCCTTCGATT	57.565	42.857	0.00	0.00	34.46	3.34
1771	5207	3.763057	AGGGTAAGTTTGCCTTCGATTT	58.237	40.909	0.00	0.00	34.46	2.17
1772	5208	3.506067	AGGGTAAGTTTGCCTTCGATTTG	59.494	43.478	0.00	0.00	34.46	2.32
1773	5209	3.504520	GGGTAAGTTTGCCTTCGATTTGA	59.495	43.478	0.00	0.00	34.46	2.69
1774	5210	4.157840	GGGTAAGTTTGCCTTCGATTTGAT	59.842	41.667	0.00	0.00	34.46	2.57
1775	5211	5.095490	GGTAAGTTTGCCTTCGATTTGATG	58.905	41.667	0.00	0.00	34.46	3.07
1856	5309	1.444553	CGAGGACAGTCGAAGGTGC	60.445	63.158	1.62	1.62	42.85	5.01
1857	5310	1.867919	CGAGGACAGTCGAAGGTGCT	61.868	60.000	10.80	10.80	42.85	4.40
1858	5311	0.318762	GAGGACAGTCGAAGGTGCTT	59.681	55.000	11.99	0.00	35.73	3.91
1859	5312	0.318762	AGGACAGTCGAAGGTGCTTC	59.681	55.000	6.01	0.00	37.16	3.86
1860	5313	0.033504	GGACAGTCGAAGGTGCTTCA	59.966	55.000	0.00	0.00	40.17	3.02
1862	5315	2.417719	GACAGTCGAAGGTGCTTCAAT	58.582	47.619	0.00	0.00	40.17	2.57
1901	5392	8.998377	AGAAGCTTTCTTCACTTCTTATCTTTC	58.002	33.333	0.00	0.00	46.04	2.62
1925	5416	0.747852	TTTTGGAACGGGAAAGGCAC	59.252	50.000	0.00	0.00	0.00	5.01
1961	5452	7.566709	CCAAATTACATTCAGCTCAAAAACAC	58.433	34.615	0.00	0.00	0.00	3.32
2045	5537	3.861840	TGAGTGTGCCTATGAGCTAAAC	58.138	45.455	0.00	0.00	0.00	2.01
2129	5621	5.188434	CAATGCCATTGAGACTCCTAGAAA	58.812	41.667	12.09	0.00	42.83	2.52
2139	5631	8.746052	TTGAGACTCCTAGAAAATGTGAAAAA	57.254	30.769	0.00	0.00	0.00	1.94
2140	5632	8.154649	TGAGACTCCTAGAAAATGTGAAAAAC	57.845	34.615	0.00	0.00	0.00	2.43
2141	5633	7.228706	TGAGACTCCTAGAAAATGTGAAAAACC	59.771	37.037	0.00	0.00	0.00	3.27
2145	5637	5.596361	TCCTAGAAAATGTGAAAAACCTGCA	59.404	36.000	0.00	0.00	0.00	4.41
2149	5641	4.856115	AAATGTGAAAAACCTGCAAACG	57.144	36.364	0.00	0.00	0.00	3.60
2155	5647	0.307760	AAAACCTGCAAACGAGAGCG	59.692	50.000	0.00	0.00	44.79	5.03
2170	5662	1.209019	AGAGCGTTCTGAGATGGCAAT	59.791	47.619	0.00	0.00	30.72	3.56
2204	5696	3.819337	CTGATTGTCTGATAGCCCAATGG	59.181	47.826	0.00	0.00	0.00	3.16
2218	5710	4.019174	GCCCAATGGATTTTCTCTGAAGA	58.981	43.478	0.00	0.00	0.00	2.87
2447	5940	2.161855	TGCCAATTCCTGTAGCTGTTG	58.838	47.619	0.00	0.00	0.00	3.33
2455	5948	1.474077	CCTGTAGCTGTTGAATTGGGC	59.526	52.381	0.00	0.00	0.00	5.36
2458	5951	1.135286	GTAGCTGTTGAATTGGGCTGC	60.135	52.381	0.00	0.00	34.88	5.25
2468	5961	1.792757	ATTGGGCTGCAGACCTGGAA	61.793	55.000	37.95	25.05	45.91	3.53
2469	5962	2.360475	GGGCTGCAGACCTGGAAC	60.360	66.667	32.56	2.87	41.12	3.62
2560	9915	2.681848	GGATCAGCAGGTTGTGATTCAG	59.318	50.000	0.00	0.00	33.43	3.02
2577	9932	6.708054	GTGATTCAGTAATGGATAGGTTCTGG	59.292	42.308	0.00	0.00	0.00	3.86
2591	9946	4.298626	AGGTTCTGGTGCTTATCATCCTA	58.701	43.478	0.00	0.00	0.00	2.94
2602	9957	4.932200	GCTTATCATCCTAAGGATTGTCGG	59.068	45.833	0.00	0.00	39.79	4.79
2627	9982	0.810648	GCTTGACATTCGGCAATGGA	59.189	50.000	12.20	0.00	43.47	3.41
2641	9996	1.089920	AATGGAAGCAGCGACATGTC	58.910	50.000	16.21	16.21	0.00	3.06

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
49	50	0.609151	CCAGGCAAAATGGATGTGCA	59.391	50.000	0.00	0.00	40.51	4.57
103	104	3.323115	TCCAGATCATGCCACAGATAGAC	59.677	47.826	0.00	0.00	0.00	2.59
135	136	5.357742	AGAAAGCCAACAAAGAAACCAAT	57.642	34.783	0.00	0.00	0.00	3.16
212	239	9.004231	ACCCATTCCTACTCATTTTAGACTAAT	57.996	33.333	0.00	0.00	0.00	1.73
263	290	3.181504	TGAGCTGCAAATGATGTTCATCG	60.182	43.478	1.02	0.00	35.76	3.84
348	375	5.596361	TGGCCAGAAAGAATTAAACAAGACA	59.404	36.000	0.00	0.00	0.00	3.41
450	477	8.773033	AGGGAGCAAATGAAGTCAAAATATAT	57.227	30.769	0.00	0.00	0.00	0.86
451	478	9.866655	ATAGGGAGCAAATGAAGTCAAAATATA	57.133	29.630	0.00	0.00	0.00	0.86
454	481	8.773033	ATATAGGGAGCAAATGAAGTCAAAAT	57.227	30.769	0.00	0.00	0.00	1.82
486	513	0.606401	CGCCCGCCCATATTGAGAAT	60.606	55.000	0.00	0.00	0.00	2.40
533	568	6.144563	GCCATAGCTTCTGTTTTCTTGTTTTC	59.855	38.462	0.00	0.00	35.50	2.29
534	569	5.985530	GCCATAGCTTCTGTTTTCTTGTTTT	59.014	36.000	0.00	0.00	35.50	2.43
535	570	5.532557	GCCATAGCTTCTGTTTTCTTGTTT	58.467	37.500	0.00	0.00	35.50	2.83
536	571	4.320494	CGCCATAGCTTCTGTTTTCTTGTT	60.320	41.667	0.00	0.00	36.60	2.83
538	573	3.751621	CGCCATAGCTTCTGTTTTCTTG	58.248	45.455	0.00	0.00	36.60	3.02
601	3649	8.135529	GCAAAGAAAAGGTAGAAATGTACAAGT	58.864	33.333	0.00	0.00	0.00	3.16
603	3651	8.001881	TGCAAAGAAAAGGTAGAAATGTACAA	57.998	30.769	0.00	0.00	0.00	2.41
604	3652	7.575414	TGCAAAGAAAAGGTAGAAATGTACA	57.425	32.000	0.00	0.00	0.00	2.90
682	3758	5.367945	AGTGTAAAGACAGGTTGAGGAAA	57.632	39.130	0.00	0.00	35.82	3.13
688	3764	3.627577	AGCACAAGTGTAAAGACAGGTTG	59.372	43.478	1.79	0.00	35.82	3.77
709	3787	1.208293	GAAGGCCAAGTAGGAGACCAG	59.792	57.143	5.01	0.00	41.22	4.00
801	3887	3.489738	GCCGCCACGTAGAAATTAGTAGA	60.490	47.826	0.00	0.00	0.00	2.59
808	3913	1.095228	CATGGCCGCCACGTAGAAAT	61.095	55.000	16.16	0.00	35.80	2.17
890	3998	2.143876	ACTGCTTGTGTTGGAAAGGT	57.856	45.000	0.00	0.00	0.00	3.50
913	4025	4.024218	CCAAATCTCACTGCTAGCTATTGC	60.024	45.833	17.23	0.00	40.05	3.56
915	4027	5.363939	GACCAAATCTCACTGCTAGCTATT	58.636	41.667	17.23	3.61	0.00	1.73
919	4031	2.093235	AGGACCAAATCTCACTGCTAGC	60.093	50.000	8.10	8.10	0.00	3.42
982	4147	4.162131	GGCCATCTTCTCTTCTCTTCTCTT	59.838	45.833	0.00	0.00	0.00	2.85
983	4148	3.706086	GGCCATCTTCTCTTCTCTTCTCT	59.294	47.826	0.00	0.00	0.00	3.10
984	4149	3.706086	AGGCCATCTTCTCTTCTCTTCTC	59.294	47.826	5.01	0.00	0.00	2.87
985	4150	3.706086	GAGGCCATCTTCTCTTCTCTTCT	59.294	47.826	5.01	0.00	0.00	2.85
986	4151	3.181466	GGAGGCCATCTTCTCTTCTCTTC	60.181	52.174	5.01	0.00	0.00	2.87
987	4152	2.771372	GGAGGCCATCTTCTCTTCTCTT	59.229	50.000	5.01	0.00	0.00	2.85
1080	4269	0.108138	GCACGATGAAGTGGTAGGCT	60.108	55.000	0.00	0.00	42.09	4.58
1135	4333	4.082895	GCACAAGCAAGAGATCATTTCAGT	60.083	41.667	0.00	0.00	41.58	3.41
1152	4350	0.671781	CCGGTCTTCTCCTGCACAAG	60.672	60.000	0.00	0.00	0.00	3.16
1211	4501	4.760047	TCGCCGGCCTTCTGCTTC	62.760	66.667	23.46	0.00	40.92	3.86
1476	4898	2.436646	CTTGTCCTTGCCGGCGAT	60.437	61.111	23.90	0.00	0.00	4.58
1661	5092	7.413109	CGAGTAAAGGAAGCAAATTAGGAAGAC	60.413	40.741	0.00	0.00	0.00	3.01
1666	5098	6.496338	AACGAGTAAAGGAAGCAAATTAGG	57.504	37.500	0.00	0.00	0.00	2.69
1752	5188	4.759516	TCAAATCGAAGGCAAACTTACC	57.240	40.909	0.00	0.00	40.21	2.85
1770	5206	4.242475	GGACACGAGTACATCAACATCAA	58.758	43.478	0.00	0.00	0.00	2.57
1771	5207	3.672241	CGGACACGAGTACATCAACATCA	60.672	47.826	0.00	0.00	44.60	3.07
1772	5208	2.852413	CGGACACGAGTACATCAACATC	59.148	50.000	0.00	0.00	44.60	3.06
1773	5209	2.416836	CCGGACACGAGTACATCAACAT	60.417	50.000	0.00	0.00	44.60	2.71
1774	5210	1.068125	CCGGACACGAGTACATCAACA	60.068	52.381	0.00	0.00	44.60	3.33
1775	5211	1.068055	ACCGGACACGAGTACATCAAC	60.068	52.381	9.46	0.00	44.60	3.18
1856	5309	3.138304	TCTGACAACCAACGGATTGAAG	58.862	45.455	0.00	0.00	38.15	3.02
1857	5310	3.201353	TCTGACAACCAACGGATTGAA	57.799	42.857	0.00	0.00	38.15	2.69
1858	5311	2.920724	TCTGACAACCAACGGATTGA	57.079	45.000	0.00	0.00	38.15	2.57
1859	5312	2.350772	GCTTCTGACAACCAACGGATTG	60.351	50.000	0.00	0.00	35.40	2.67
1860	5313	1.880027	GCTTCTGACAACCAACGGATT	59.120	47.619	0.00	0.00	0.00	3.01
1862	5315	0.468226	AGCTTCTGACAACCAACGGA	59.532	50.000	0.00	0.00	0.00	4.69
1925	5416	2.083774	TGTAATTTGGCGCCTTGAGAG	58.916	47.619	29.70	0.00	0.00	3.20
1926	5417	2.192664	TGTAATTTGGCGCCTTGAGA	57.807	45.000	29.70	2.88	0.00	3.27
2045	5537	1.276421	ACCTGTCTTCGGATGTTCCAG	59.724	52.381	0.00	0.00	35.91	3.86
2084	5576	2.357050	CCCATAATGTTGCTCACCAGGA	60.357	50.000	0.00	0.00	0.00	3.86
2129	5621	4.111916	CTCGTTTGCAGGTTTTTCACATT	58.888	39.130	0.00	0.00	0.00	2.71
2149	5641	0.174389	TGCCATCTCAGAACGCTCTC	59.826	55.000	0.00	0.00	0.00	3.20
2155	5647	5.579718	CAGATTTCATTGCCATCTCAGAAC	58.420	41.667	0.00	0.00	0.00	3.01
2170	5662	3.754850	CAGACAATCAGTGGCAGATTTCA	59.245	43.478	0.00	0.00	37.96	2.69
2182	5674	3.819337	CCATTGGGCTATCAGACAATCAG	59.181	47.826	0.00	0.00	31.67	2.90
2204	5696	6.648310	TGTGAGATGTGTCTTCAGAGAAAATC	59.352	38.462	0.00	0.00	33.97	2.17
2218	5710	3.369892	GCAACTAGGGATGTGAGATGTGT	60.370	47.826	0.00	0.00	0.00	3.72
2447	5940	1.318158	CCAGGTCTGCAGCCCAATTC	61.318	60.000	17.55	0.00	0.00	2.17
2455	5948	2.575532	TCAAAAGTTCCAGGTCTGCAG	58.424	47.619	7.63	7.63	0.00	4.41
2458	5951	3.947834	ACACTTCAAAAGTTCCAGGTCTG	59.052	43.478	0.00	0.00	40.46	3.51
2468	5961	6.153756	ACGCTGTTTTTAACACTTCAAAAGT	58.846	32.000	0.00	0.00	44.06	2.66
2469	5962	6.237463	GGACGCTGTTTTTAACACTTCAAAAG	60.237	38.462	0.00	0.00	36.25	2.27
2560	9915	4.423625	AGCACCAGAACCTATCCATTAC	57.576	45.455	0.00	0.00	0.00	1.89
2577	9932	5.406780	CGACAATCCTTAGGATGATAAGCAC	59.593	44.000	15.28	0.97	42.27	4.40
2591	9946	0.618968	AGCTCTCCCCGACAATCCTT	60.619	55.000	0.00	0.00	0.00	3.36
2602	9957	1.092345	GCCGAATGTCAAGCTCTCCC	61.092	60.000	0.00	0.00	0.00	4.30

Based at the University of Bristol with support from BBSRC.

AutoCloner maintained by Alex Coulton.