AutoCloner

Multiple sequence alignment - TraesCS6D01G354200

Loading Multiple Alignment...

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	TraesCS6D01G354200	chr6D	100.000	2900	0	0	1	2900	449813405	449810506	0.000000e+00	5356.0
1	TraesCS6D01G354200	chr6B	88.841	1398	100	23	880	2233	681925094	681923709	0.000000e+00	1666.0
2	TraesCS6D01G354200	chr6B	88.255	596	43	9	2310	2900	681923345	681922772	0.000000e+00	688.0
3	TraesCS6D01G354200	chr6B	88.180	423	20	17	35	444	681925953	681925548	7.270000e-131	477.0
4	TraesCS6D01G354200	chr6B	87.010	408	37	7	474	874	681925550	681925152	2.050000e-121	446.0
5	TraesCS6D01G354200	chr6B	94.681	94	5	0	2761	2854	681922941	681922848	2.330000e-31	147.0
6	TraesCS6D01G354200	chr6B	95.312	64	3	0	2791	2854	681922941	681922878	5.110000e-18	102.0
7	TraesCS6D01G354200	chr6B	86.517	89	10	2	2219	2306	681923690	681923603	2.380000e-16	97.1
8	TraesCS6D01G354200	chr6A	89.896	1059	91	9	877	1922	595482056	595481001	0.000000e+00	1349.0
9	TraesCS6D01G354200	chr6A	87.802	787	51	18	1	777	595482938	595482187	0.000000e+00	880.0
10	TraesCS6D01G354200	chr6A	90.970	598	36	6	2310	2900	595480305	595479719	0.000000e+00	789.0
11	TraesCS6D01G354200	chr6A	84.302	344	34	4	1890	2233	595480999	595480676	4.660000e-83	318.0
12	TraesCS6D01G354200	chr6A	80.000	330	48	10	1145	1460	609160028	609159703	8.080000e-56	228.0
13	TraesCS6D01G354200	chr6A	77.410	332	57	12	1517	1846	609159574	609159259	6.380000e-42	182.0
14	TraesCS6D01G354200	chr6A	94.681	94	5	0	2761	2854	595479888	595479795	2.330000e-31	147.0
15	TraesCS6D01G354200	chr6A	95.312	64	3	0	2791	2854	595479888	595479825	5.110000e-18	102.0
16	TraesCS6D01G354200	chr6A	90.625	64	4	1	808	869	595482190	595482127	1.850000e-12	84.2
17	TraesCS6D01G354200	chr4B	86.598	582	49	19	312	874	30805341	30804770	1.480000e-172	616.0
18	TraesCS6D01G354200	chr4B	85.439	570	56	16	323	874	498829385	498828825	4.190000e-158	568.0
19	TraesCS6D01G354200	chr5B	85.370	581	58	16	312	874	669344671	669345242	6.970000e-161	577.0
20	TraesCS6D01G354200	chr1A	87.403	516	32	15	378	874	142890420	142890921	1.950000e-156	562.0
21	TraesCS6D01G354200	chr2B	86.093	453	44	8	432	874	244425139	244424696	1.220000e-128	470.0
22	TraesCS6D01G354200	chr2B	91.748	206	12	4	673	874	9570807	9571011	6.120000e-72	281.0
23	TraesCS6D01G354200	chr3D	80.000	550	46	29	229	768	578665576	578666071	5.950000e-92	348.0
24	TraesCS6D01G354200	chr5A	78.990	495	74	17	1415	1901	531891996	531892468	7.800000e-81	311.0
25	TraesCS6D01G354200	chr5A	78.831	496	74	18	1415	1901	532194612	532194139	3.630000e-79	305.0
26	TraesCS6D01G354200	chr7A	76.307	287	34	15	951	1235	707976506	707976252	3.920000e-24	122.0

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	TraesCS6D01G354200	chr6D	449810506	449813405	2899	True	5356.000000	5356	100.000000	1	2900	1	chr6D.!!$R1	2899
1	TraesCS6D01G354200	chr6B	681922772	681925953	3181	True	517.585714	1666	89.828000	35	2900	7	chr6B.!!$R1	2865
2	TraesCS6D01G354200	chr6A	595479719	595482938	3219	True	524.171429	1349	90.512571	1	2900	7	chr6A.!!$R1	2899
3	TraesCS6D01G354200	chr6A	609159259	609160028	769	True	205.000000	228	78.705000	1145	1846	2	chr6A.!!$R2	701
4	TraesCS6D01G354200	chr4B	30804770	30805341	571	True	616.000000	616	86.598000	312	874	1	chr4B.!!$R1	562
5	TraesCS6D01G354200	chr4B	498828825	498829385	560	True	568.000000	568	85.439000	323	874	1	chr4B.!!$R2	551
6	TraesCS6D01G354200	chr5B	669344671	669345242	571	False	577.000000	577	85.370000	312	874	1	chr5B.!!$F1	562
7	TraesCS6D01G354200	chr1A	142890420	142890921	501	False	562.000000	562	87.403000	378	874	1	chr1A.!!$F1	496

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
990	1112	0.108186	TGCATACCTGAACAGCCTCG	60.108	55.0	0.0	0.0	0.0	4.63	F

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability	Orientation
2044	2330	0.17907	TACACGCAACTGAACAGGCA	60.179	50.0	6.76	0.0	0.0	4.75	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
118	124	2.746359	CCAGCCAGATCCGATCCC	59.254	66.667	4.67	0.00	0.00	3.85
286	306	2.282446	GGAGACCGATCCCTCCCA	59.718	66.667	10.73	0.00	42.35	4.37
421	444	2.278857	CCTCTGTCGAATCGGCGG	60.279	66.667	10.16	10.16	39.39	6.13
465	498	4.580995	TCGAGAGGGATGAAATACTCTGTC	59.419	45.833	0.00	0.00	39.83	3.51
469	502	2.484889	GGATGAAATACTCTGTCCGCC	58.515	52.381	0.00	0.00	0.00	6.13
525	558	2.638025	TTAGCCTGGGGGAGGGGATC	62.638	65.000	0.00	0.00	43.07	3.36
533	566	0.836400	GGGGAGGGGATCGATTGCTA	60.836	60.000	0.00	0.00	0.00	3.49
544	581	1.202639	TCGATTGCTATGGGATGCGTT	60.203	47.619	0.00	0.00	0.00	4.84
547	584	0.813610	TTGCTATGGGATGCGTTCGG	60.814	55.000	0.00	0.00	0.00	4.30
664	713	0.512952	TCTCTTTCTTTCGCAAGCGC	59.487	50.000	9.97	0.00	39.59	5.92
669	718	0.512952	TTCTTTCGCAAGCGCTTCTC	59.487	50.000	22.21	14.08	39.59	2.87
676	725	2.097038	CAAGCGCTTCTCCCACTCG	61.097	63.158	22.21	1.22	0.00	4.18
768	817	2.005451	CAGTAGACTGCAATCAGGTGC	58.995	52.381	0.00	0.00	44.54	5.01
874	936	7.474445	TGAGAGCATCCTATTCCTTAGTCTAT	58.526	38.462	0.00	0.00	33.66	1.98
875	937	7.952930	TGAGAGCATCCTATTCCTTAGTCTATT	59.047	37.037	0.00	0.00	33.66	1.73
929	1051	6.587206	TTTCTATTTTGCACATGATGTCCA	57.413	33.333	0.00	0.00	0.00	4.02
936	1058	7.401955	TTTTGCACATGATGTCCATAATGTA	57.598	32.000	9.45	0.00	40.15	2.29
946	1068	8.806429	TGATGTCCATAATGTATTTGACTGTT	57.194	30.769	0.00	0.00	0.00	3.16
967	1089	6.572519	TGTTTTCCTTTTCACAATTCCAGAG	58.427	36.000	0.00	0.00	0.00	3.35
990	1112	0.108186	TGCATACCTGAACAGCCTCG	60.108	55.000	0.00	0.00	0.00	4.63
1014	1136	0.870307	GAACGATGGCGCTATCACGT	60.870	55.000	29.74	21.73	42.48	4.49
1023	1145	2.414293	GGCGCTATCACGTAGTATGAGG	60.414	54.545	7.64	0.00	41.61	3.86
1038	1160	3.572632	ATGAGGACATGCTTGCATAGT	57.427	42.857	7.84	8.69	35.21	2.12
1073	1195	1.661341	CTGGCAATACTGGTCTCTGC	58.339	55.000	0.00	0.00	0.00	4.26
1113	1235	7.703621	CAGATTTTGGTAGGCATCAACATTTAG	59.296	37.037	0.00	0.00	0.00	1.85
1122	1244	4.277258	GCATCAACATTTAGCATCTCACG	58.723	43.478	0.00	0.00	0.00	4.35
1142	1264	4.093556	CACGGTCAGCTTTTCTATCCTTTC	59.906	45.833	0.00	0.00	0.00	2.62
1143	1265	3.307242	CGGTCAGCTTTTCTATCCTTTCG	59.693	47.826	0.00	0.00	0.00	3.46
1180	1307	6.533367	GCCTAAATCTCTGTAACTCTGTCTTG	59.467	42.308	0.00	0.00	0.00	3.02
1237	1364	6.128254	GCCAATGTTAACAGGTTAGAGACTTC	60.128	42.308	14.65	0.00	0.00	3.01
1245	1373	4.896482	ACAGGTTAGAGACTTCTGTTCACT	59.104	41.667	0.00	0.00	35.44	3.41
1264	1392	6.478512	TCACTCTGCCAAACCTTTATTTTT	57.521	33.333	0.00	0.00	0.00	1.94
1368	1502	2.419198	CTGGGCTCCGATTCTCCG	59.581	66.667	0.00	0.00	0.00	4.63
1420	1568	7.504911	GGTAAGTGATGATCTAGTACCTGGTAA	59.495	40.741	8.40	0.00	0.00	2.85
1448	1603	9.388506	CAGTACTGGTTCTTCTTTATGAATCAT	57.611	33.333	15.49	0.00	33.53	2.45
1523	1761	2.420129	CCTTAGTGGCACAGATGGTACC	60.420	54.545	21.41	4.43	41.80	3.34
1578	1816	6.128172	CCATATCTAGATTTCAAACGATGGCC	60.128	42.308	11.25	0.00	0.00	5.36
1582	1826	3.157087	AGATTTCAAACGATGGCCAGTT	58.843	40.909	13.05	8.24	0.00	3.16
1588	1832	2.923020	CAAACGATGGCCAGTTTATTGC	59.077	45.455	19.48	0.00	38.37	3.56
1589	1833	1.832883	ACGATGGCCAGTTTATTGCA	58.167	45.000	13.05	0.00	0.00	4.08
1636	1880	4.228210	TCAGACCTTATTGCTTCCCTCAAT	59.772	41.667	0.00	0.00	37.79	2.57
1639	1883	6.019108	AGACCTTATTGCTTCCCTCAATTTT	58.981	36.000	0.00	0.00	35.87	1.82
1686	1937	5.474876	AGTTCTTGTAGCTTTTTCCTGATGG	59.525	40.000	0.00	0.00	0.00	3.51
1696	1947	2.806945	TTCCTGATGGAATTTCGCCT	57.193	45.000	0.00	0.00	46.57	5.52
1773	2024	1.584495	CATCGCCATCCCGTCGATA	59.416	57.895	0.00	0.00	40.48	2.92
1875	2127	2.907892	TGGTTCCTCCAGATGAACTCT	58.092	47.619	13.28	0.00	41.93	3.24
1926	2212	3.388676	CAGAGCTTCATCCTCTCCTGAAT	59.611	47.826	0.00	0.00	37.57	2.57
1929	2215	4.813809	AGCTTCATCCTCTCCTGAATCTA	58.186	43.478	0.00	0.00	28.86	1.98
1941	2227	1.863454	CTGAATCTATGGTCTGCGTGC	59.137	52.381	0.00	0.00	0.00	5.34
1943	2229	2.693074	TGAATCTATGGTCTGCGTGCTA	59.307	45.455	0.00	0.00	0.00	3.49
1944	2230	3.321968	TGAATCTATGGTCTGCGTGCTAT	59.678	43.478	0.00	0.00	0.00	2.97
1946	2232	3.097877	TCTATGGTCTGCGTGCTATTG	57.902	47.619	0.00	0.00	0.00	1.90
2027	2313	0.675633	ATTGGTGTGCTTGACCTTGC	59.324	50.000	0.00	0.00	34.26	4.01
2044	2330	6.054860	ACCTTGCTTATATCAGTGAAGTGT	57.945	37.500	0.00	0.00	0.00	3.55
2059	2345	1.009675	GTGTGCCTGTTCAGTTGCG	60.010	57.895	0.00	0.00	0.00	4.85
2087	2373	1.793414	TATCCTCTGCCTGCTAGCAA	58.207	50.000	19.86	2.79	43.52	3.91
2088	2374	1.138568	ATCCTCTGCCTGCTAGCAAT	58.861	50.000	19.86	3.51	43.52	3.56
2091	2377	1.022735	CTCTGCCTGCTAGCAATTGG	58.977	55.000	19.86	17.38	43.52	3.16
2092	2378	0.620030	TCTGCCTGCTAGCAATTGGA	59.380	50.000	22.21	13.85	43.52	3.53
2096	2382	2.428171	TGCCTGCTAGCAATTGGATTTC	59.572	45.455	22.21	7.54	40.56	2.17
2141	2431	4.319549	CCATTGATGATCTCACTTGCATCG	60.320	45.833	0.00	0.00	39.88	3.84
2200	2490	2.730672	CTTCTGCCGCCTTTCGTCG	61.731	63.158	0.00	0.00	36.19	5.12
2210	2500	3.314553	CGCCTTTCGTCGGTATGATATT	58.685	45.455	0.00	0.00	0.00	1.28
2233	2523	6.954616	TTCAACATAATGCATCTTGCTTTG	57.045	33.333	0.00	3.17	45.31	2.77
2234	2524	6.270156	TCAACATAATGCATCTTGCTTTGA	57.730	33.333	0.00	5.39	45.31	2.69
2241	2564	2.751259	TGCATCTTGCTTTGATCTGACC	59.249	45.455	0.75	0.00	45.31	4.02
2243	2566	2.099141	TCTTGCTTTGATCTGACCGG	57.901	50.000	0.00	0.00	0.00	5.28
2280	2603	7.877612	TGATGCATAGTTTCAGTTCAGTTCTAA	59.122	33.333	0.00	0.00	0.00	2.10
2283	2606	8.721478	TGCATAGTTTCAGTTCAGTTCTAATTC	58.279	33.333	0.00	0.00	0.00	2.17
2288	2611	9.620259	AGTTTCAGTTCAGTTCTAATTCTTTCT	57.380	29.630	0.00	0.00	0.00	2.52
2300	2623	9.541143	GTTCTAATTCTTTCTCCTATCTCAAGG	57.459	37.037	0.00	0.00	38.06	3.61
2302	2625	8.068110	TCTAATTCTTTCTCCTATCTCAAGGGA	58.932	37.037	0.00	0.00	37.24	4.20
2306	2629	6.712276	TCTTTCTCCTATCTCAAGGGAAAAC	58.288	40.000	0.00	0.00	36.36	2.43
2307	2630	6.502158	TCTTTCTCCTATCTCAAGGGAAAACT	59.498	38.462	0.00	0.00	36.36	2.66
2308	2631	6.704056	TTCTCCTATCTCAAGGGAAAACTT	57.296	37.500	0.00	0.00	37.24	2.66
2311	2634	8.393959	TCTCCTATCTCAAGGGAAAACTTTAT	57.606	34.615	0.00	0.00	37.24	1.40
2312	2635	8.836735	TCTCCTATCTCAAGGGAAAACTTTATT	58.163	33.333	0.00	0.00	37.24	1.40
2314	2637	9.822727	TCCTATCTCAAGGGAAAACTTTATTTT	57.177	29.630	0.00	0.00	37.24	1.82
2374	2958	3.563390	AGAGAGAAAAGTTGCTCTGTTGC	59.437	43.478	6.27	0.00	41.33	4.17
2375	2959	3.282021	AGAGAAAAGTTGCTCTGTTGCA	58.718	40.909	0.41	0.00	39.86	4.08
2381	2965	2.879372	TTGCTCTGTTGCAACCACA	58.121	47.368	26.14	15.51	46.43	4.17
2382	2966	1.401761	TTGCTCTGTTGCAACCACAT	58.598	45.000	26.14	0.00	46.43	3.21
2383	2967	2.268762	TGCTCTGTTGCAACCACATA	57.731	45.000	26.14	6.75	40.29	2.29
2384	2968	2.794103	TGCTCTGTTGCAACCACATAT	58.206	42.857	26.14	0.00	40.29	1.78
2385	2969	3.156293	TGCTCTGTTGCAACCACATATT	58.844	40.909	26.14	0.00	40.29	1.28
2425	3010	9.003658	GTTCATCTCTATTCTCCTGTTTCAAAA	57.996	33.333	0.00	0.00	0.00	2.44
2426	3011	8.783833	TCATCTCTATTCTCCTGTTTCAAAAG	57.216	34.615	0.00	0.00	0.00	2.27
2427	3012	8.597167	TCATCTCTATTCTCCTGTTTCAAAAGA	58.403	33.333	0.00	0.00	0.00	2.52
2440	3025	7.710475	CCTGTTTCAAAAGATGTTACCATGTTT	59.290	33.333	0.00	0.00	44.00	2.83
2444	3029	7.537596	TCAAAAGATGTTACCATGTTTCCAT	57.462	32.000	0.00	0.00	42.02	3.41
2635	3228	2.808202	GCATCTCTACATCATGCCGGTT	60.808	50.000	1.90	0.00	37.54	4.44
2686	3279	1.006102	CGCCGGAGCATAAGGGTAG	60.006	63.158	5.05	0.00	39.83	3.18
2773	3366	1.272554	GGAAGGACGGGTTGGAGGAT	61.273	60.000	0.00	0.00	0.00	3.24

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
6	7	4.876107	AGATTAAAACACCCGCTGATGTAG	59.124	41.667	0.00	0.00	0.00	2.74
8	9	3.686016	AGATTAAAACACCCGCTGATGT	58.314	40.909	0.00	0.00	0.00	3.06
118	124	3.181474	GGGTTCCTAATCGAGTTGGAGAG	60.181	52.174	15.20	0.00	0.00	3.20
465	498	1.103987	TTCAGATCGGAGAGAGGCGG	61.104	60.000	0.00	0.00	43.63	6.13
512	545	1.770110	CAATCGATCCCCTCCCCCA	60.770	63.158	0.00	0.00	0.00	4.96
516	549	1.065854	CCATAGCAATCGATCCCCTCC	60.066	57.143	0.00	0.00	0.00	4.30
525	558	1.195448	GAACGCATCCCATAGCAATCG	59.805	52.381	0.00	0.00	0.00	3.34
533	566	1.872237	CGTAATCCGAACGCATCCCAT	60.872	52.381	0.00	0.00	39.56	4.00
547	584	1.129326	CCGCCAGTTCGATCGTAATC	58.871	55.000	15.94	4.44	0.00	1.75
664	713	2.034053	GCATCTACTCGAGTGGGAGAAG	59.966	54.545	28.12	19.17	37.49	2.85
669	718	1.393603	TCAGCATCTACTCGAGTGGG	58.606	55.000	28.12	19.18	0.00	4.61
676	725	4.677584	AGTTTCGTGATCAGCATCTACTC	58.322	43.478	0.00	0.00	0.00	2.59
742	791	5.046014	ACCTGATTGCAGTCTACTGAAGAAT	60.046	40.000	14.21	7.94	46.59	2.40
768	817	7.230510	ACTGAATTGCTACCTCTATCAGACTAG	59.769	40.741	6.86	0.00	0.00	2.57
904	1024	7.440198	TGGACATCATGTGCAAAATAGAAAAA	58.560	30.769	9.95	0.00	45.65	1.94
919	1041	8.843262	ACAGTCAAATACATTATGGACATCATG	58.157	33.333	5.22	5.22	37.30	3.07
936	1058	8.791327	AATTGTGAAAAGGAAAACAGTCAAAT	57.209	26.923	0.00	0.00	0.00	2.32
946	1068	6.129179	AGTCTCTGGAATTGTGAAAAGGAAA	58.871	36.000	0.00	0.00	0.00	3.13
967	1089	1.740025	GGCTGTTCAGGTATGCAAGTC	59.260	52.381	0.00	0.00	0.00	3.01
990	1112	1.527311	GATAGCGCCATCGTTCCTTTC	59.473	52.381	2.29	0.00	38.14	2.62
1014	1136	4.694760	ATGCAAGCATGTCCTCATACTA	57.305	40.909	6.76	0.00	35.03	1.82
1023	1145	3.064545	GTCTTCCACTATGCAAGCATGTC	59.935	47.826	17.26	0.00	37.82	3.06
1038	1160	3.249189	AGGGCGGCAAGTCTTCCA	61.249	61.111	12.47	0.00	0.00	3.53
1073	1195	4.261322	CCAAAATCTGCAATACGATCCCAG	60.261	45.833	0.00	0.00	0.00	4.45
1113	1235	1.129437	GAAAAGCTGACCGTGAGATGC	59.871	52.381	0.00	0.00	0.00	3.91
1122	1244	4.254492	ACGAAAGGATAGAAAAGCTGACC	58.746	43.478	0.00	0.00	0.00	4.02
1143	1265	4.215613	AGAGATTTAGGCAACGTCCAAAAC	59.784	41.667	0.00	0.00	46.39	2.43
1180	1307	5.123820	TGTTATAAAGAGCACATGCCTGAAC	59.876	40.000	0.00	2.81	43.38	3.18
1237	1364	1.972872	AGGTTTGGCAGAGTGAACAG	58.027	50.000	1.86	0.00	0.00	3.16
1383	1517	4.948847	TCATCACTTACCCATCATTCTCG	58.051	43.478	0.00	0.00	0.00	4.04
1523	1761	4.962155	ACCTCTGTCAGAAAAGGTTACAG	58.038	43.478	3.67	0.00	39.05	2.74
1588	1832	8.159645	AACGTTTGTCCATCACAGATGTTCTG	62.160	42.308	0.00	3.03	42.83	3.02
1589	1833	3.748048	CGTTTGTCCATCACAGATGTTCT	59.252	43.478	6.29	0.00	35.97	3.01
1686	1937	0.452987	TGCATGCAGAGGCGAAATTC	59.547	50.000	18.46	0.00	45.35	2.17
1696	1947	2.034532	CACCCACCTGCATGCAGA	59.965	61.111	42.21	13.57	46.30	4.26
1875	2127	2.697761	GGCGCTGTACTCGTCCTCA	61.698	63.158	7.64	0.00	0.00	3.86
1907	2159	3.656496	AGATTCAGGAGAGGATGAAGCT	58.344	45.455	0.20	0.20	44.84	3.74
1926	2212	2.224042	CCAATAGCACGCAGACCATAGA	60.224	50.000	0.00	0.00	0.00	1.98
1929	2215	1.097547	GCCAATAGCACGCAGACCAT	61.098	55.000	0.00	0.00	42.97	3.55
1946	2232	2.685850	ATTTCTAGTGTGGTACCGCC	57.314	50.000	22.54	13.56	37.90	6.13
1955	2241	7.682787	AGTTGATGATCCCTATTTCTAGTGT	57.317	36.000	0.00	0.00	0.00	3.55
2027	2313	5.423015	ACAGGCACACTTCACTGATATAAG	58.577	41.667	0.00	0.00	35.08	1.73
2044	2330	0.179070	TACACGCAACTGAACAGGCA	60.179	50.000	6.76	0.00	0.00	4.75
2087	2373	5.892348	AGTTCCTACCAACAGAAATCCAAT	58.108	37.500	0.00	0.00	0.00	3.16
2088	2374	5.319043	AGTTCCTACCAACAGAAATCCAA	57.681	39.130	0.00	0.00	0.00	3.53
2091	2377	6.486993	AGTTCAAGTTCCTACCAACAGAAATC	59.513	38.462	0.00	0.00	29.71	2.17
2092	2378	6.365520	AGTTCAAGTTCCTACCAACAGAAAT	58.634	36.000	0.00	0.00	29.71	2.17
2096	2382	4.515567	GGAAGTTCAAGTTCCTACCAACAG	59.484	45.833	15.91	0.00	42.96	3.16
2141	2431	1.588082	CCATGGCAAACAGCTGACC	59.412	57.895	23.35	15.92	44.79	4.02
2165	2455	4.358851	CAGAAGCTAGACAGAGTATGCAC	58.641	47.826	0.00	0.00	0.00	4.57
2241	2564	0.948623	TGCATCAACCGAACTGACCG	60.949	55.000	0.00	0.00	0.00	4.79
2243	2566	3.262420	ACTATGCATCAACCGAACTGAC	58.738	45.455	0.19	0.00	0.00	3.51
2247	2570	4.154195	ACTGAAACTATGCATCAACCGAAC	59.846	41.667	0.19	0.00	0.00	3.95
2251	2574	5.182001	ACTGAACTGAAACTATGCATCAACC	59.818	40.000	0.19	0.00	0.00	3.77
2280	2603	7.516450	TTTCCCTTGAGATAGGAGAAAGAAT	57.484	36.000	0.00	0.00	37.50	2.40
2283	2606	6.716284	AGTTTTCCCTTGAGATAGGAGAAAG	58.284	40.000	0.00	0.00	36.61	2.62
2287	2610	9.467796	AAATAAAGTTTTCCCTTGAGATAGGAG	57.532	33.333	0.00	0.00	37.50	3.69
2288	2611	9.822727	AAAATAAAGTTTTCCCTTGAGATAGGA	57.177	29.630	0.00	0.00	37.50	2.94
2409	2994	7.505585	TGGTAACATCTTTTGAAACAGGAGAAT	59.494	33.333	0.00	0.00	46.17	2.40
2449	3034	5.125417	CGTGAAGGATTGTCCATGGTAATTT	59.875	40.000	12.58	6.41	39.61	1.82
2454	3039	1.340017	CCGTGAAGGATTGTCCATGGT	60.340	52.381	12.58	0.00	45.00	3.55
2457	3042	0.620556	AGCCGTGAAGGATTGTCCAT	59.379	50.000	0.00	0.00	45.00	3.41
2588	3180	6.055588	TGTGGTGGTTTTTCTTTTTGTTTCA	58.944	32.000	0.00	0.00	0.00	2.69
2635	3228	2.816718	GGCAACGCCTATACCGGA	59.183	61.111	9.46	0.00	46.69	5.14

Based at the University of Bristol with support from BBSRC.

AutoCloner maintained by Alex Coulton.