AutoCloner

Multiple sequence alignment - TraesCS7D01G195400

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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	TraesCS7D01G195400	chr7D	100.000	2532	0	0	1	2532	151917963	151915432	0.000000e+00	4676
1	TraesCS7D01G195400	chr7D	94.063	1718	83	2	451	2168	151791995	151790297	0.000000e+00	2590
2	TraesCS7D01G195400	chr7D	85.210	1758	170	47	356	2066	152086333	152088047	0.000000e+00	1724
3	TraesCS7D01G195400	chr7D	90.909	1166	93	8	936	2097	151770228	151769072	0.000000e+00	1554
4	TraesCS7D01G195400	chr7D	94.090	423	9	3	1	407	151792414	151791992	2.020000e-176	628
5	TraesCS7D01G195400	chr7D	79.139	743	83	32	433	1137	152116211	152116919	6.060000e-122	448
6	TraesCS7D01G195400	chr7D	100.000	219	0	0	2864	3082	151915100	151914882	3.700000e-109	405
7	TraesCS7D01G195400	chr7D	86.280	379	37	5	2165	2531	151790115	151789740	6.190000e-107	398
8	TraesCS7D01G195400	chr7D	91.667	72	5	1	2943	3013	151784969	151784898	7.030000e-17	99
9	TraesCS7D01G195400	chr7A	90.502	2253	164	20	316	2531	151962241	151960002	0.000000e+00	2929
10	TraesCS7D01G195400	chr7A	89.126	1361	129	16	934	2283	151862689	151864041	0.000000e+00	1676
11	TraesCS7D01G195400	chr7A	84.449	1762	165	34	343	2066	152506501	152508191	0.000000e+00	1635
12	TraesCS7D01G195400	chr7A	86.317	687	79	10	1856	2532	151956756	151956075	0.000000e+00	734
13	TraesCS7D01G195400	chr7A	85.671	328	36	6	1	320	151962785	151962461	4.920000e-88	335
14	TraesCS7D01G195400	chr7A	87.097	124	15	1	2877	2999	151959959	151959836	4.140000e-29	139
15	TraesCS7D01G195400	chr7A	93.333	90	5	1	1	89	608509213	608509124	6.930000e-27	132
16	TraesCS7D01G195400	chr7B	92.838	1480	93	6	866	2337	113922418	113923892	0.000000e+00	2134
17	TraesCS7D01G195400	chr7B	84.701	1791	192	38	343	2082	113627648	113625889	0.000000e+00	1714
18	TraesCS7D01G195400	chr7B	91.227	1174	90	8	933	2097	113802903	113801734	0.000000e+00	1585
19	TraesCS7D01G195400	chr7B	91.467	750	50	7	123	864	113914689	113915432	0.000000e+00	1018
20	TraesCS7D01G195400	chr7B	91.579	190	8	8	2348	2532	113575377	113575191	3.940000e-64	255
21	TraesCS7D01G195400	chr7B	88.406	138	15	1	2877	3013	113575139	113575002	6.840000e-37	165
22	TraesCS7D01G195400	chrUn	85.795	1767	172	36	343	2066	235703261	235701531	0.000000e+00	1799
23	TraesCS7D01G195400	chrUn	85.682	1767	174	36	343	2066	85700421	85702151	0.000000e+00	1788
24	TraesCS7D01G195400	chrUn	84.701	1791	192	38	343	2082	185556500	185554741	0.000000e+00	1714
25	TraesCS7D01G195400	chrUn	92.553	94	7	0	1	94	316200539	316200632	5.360000e-28	135
26	TraesCS7D01G195400	chr1A	83.222	1800	179	64	362	2081	539322520	539324276	0.000000e+00	1537
27	TraesCS7D01G195400	chr1A	92.308	91	7	0	1	91	133417463	133417553	2.490000e-26	130
28	TraesCS7D01G195400	chr5D	93.548	93	5	1	1	92	331119029	331118937	1.490000e-28	137
29	TraesCS7D01G195400	chr6A	92.553	94	7	0	1	94	266828677	266828770	5.360000e-28	135
30	TraesCS7D01G195400	chr6A	92.553	94	7	0	1	94	266868294	266868387	5.360000e-28	135
31	TraesCS7D01G195400	chr3A	94.118	85	5	0	1	85	221948904	221948988	2.490000e-26	130
32	TraesCS7D01G195400	chr1B	92.308	91	7	0	1	91	625931459	625931369	2.490000e-26	130

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	TraesCS7D01G195400	chr7D	151914882	151917963	3081	True	2540.500000	4676	100.000000	1	3082	2	chr7D.!!$R4	3081
1	TraesCS7D01G195400	chr7D	152086333	152088047	1714	False	1724.000000	1724	85.210000	356	2066	1	chr7D.!!$F1	1710
2	TraesCS7D01G195400	chr7D	151769072	151770228	1156	True	1554.000000	1554	90.909000	936	2097	1	chr7D.!!$R1	1161
3	TraesCS7D01G195400	chr7D	151789740	151792414	2674	True	1205.333333	2590	91.477667	1	2531	3	chr7D.!!$R3	2530
4	TraesCS7D01G195400	chr7D	152116211	152116919	708	False	448.000000	448	79.139000	433	1137	1	chr7D.!!$F2	704
5	TraesCS7D01G195400	chr7A	151862689	151864041	1352	False	1676.000000	1676	89.126000	934	2283	1	chr7A.!!$F1	1349
6	TraesCS7D01G195400	chr7A	152506501	152508191	1690	False	1635.000000	1635	84.449000	343	2066	1	chr7A.!!$F2	1723
7	TraesCS7D01G195400	chr7A	151956075	151962785	6710	True	1034.250000	2929	87.396750	1	2999	4	chr7A.!!$R2	2998
8	TraesCS7D01G195400	chr7B	113922418	113923892	1474	False	2134.000000	2134	92.838000	866	2337	1	chr7B.!!$F2	1471
9	TraesCS7D01G195400	chr7B	113625889	113627648	1759	True	1714.000000	1714	84.701000	343	2082	1	chr7B.!!$R1	1739
10	TraesCS7D01G195400	chr7B	113801734	113802903	1169	True	1585.000000	1585	91.227000	933	2097	1	chr7B.!!$R2	1164
11	TraesCS7D01G195400	chr7B	113914689	113915432	743	False	1018.000000	1018	91.467000	123	864	1	chr7B.!!$F1	741
12	TraesCS7D01G195400	chrUn	235701531	235703261	1730	True	1799.000000	1799	85.795000	343	2066	1	chrUn.!!$R2	1723
13	TraesCS7D01G195400	chrUn	85700421	85702151	1730	False	1788.000000	1788	85.682000	343	2066	1	chrUn.!!$F1	1723
14	TraesCS7D01G195400	chrUn	185554741	185556500	1759	True	1714.000000	1714	84.701000	343	2082	1	chrUn.!!$R1	1739
15	TraesCS7D01G195400	chr1A	539322520	539324276	1756	False	1537.000000	1537	83.222000	362	2081	1	chr1A.!!$F2	1719

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
919	1286	1.065491	CACCATCCGTCCATTTCCTCA	60.065	52.381	0.0	0.0	0.0	3.86	F

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability	Orientation
2908	3573	0.036732	ATGAAGGAAGAGGCGTGCAA	59.963	50.0	0.0	0.0	0.0	4.08	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
74	91	8.228921	CGCTAAACGCTCTGATATTAGTTTAT	57.771	34.615	0.00	0.00	34.78	1.40
192	210	2.234300	AACCGTCACGTCTTGTTGAT	57.766	45.000	0.00	0.00	0.00	2.57
420	676	3.946402	CGCATTGATTGTAATTGGCGTA	58.054	40.909	0.00	0.00	38.56	4.42
684	997	3.718210	GAGTGGACGGCCTTAGCGG	62.718	68.421	9.82	0.00	44.47	5.52
746	1076	4.465413	GCTGCGTTTGAATCAGCC	57.535	55.556	2.32	0.00	45.34	4.85
919	1286	1.065491	CACCATCCGTCCATTTCCTCA	60.065	52.381	0.00	0.00	0.00	3.86
928	1297	5.600898	TCCGTCCATTTCCTCAACATAGATA	59.399	40.000	0.00	0.00	0.00	1.98
1223	1623	1.337728	CGTCAGGGTACATGACTTGCA	60.338	52.381	21.33	0.00	43.95	4.08
1254	1677	7.430992	TGTATTTCTGCTGCTATTGATCATC	57.569	36.000	0.00	0.00	0.00	2.92
1271	1704	9.908152	ATTGATCATCAAATGTATGCTTACATG	57.092	29.630	21.97	14.18	46.10	3.21
1655	2104	4.621832	GACCTCGTCGTCCTCTCT	57.378	61.111	0.00	0.00	0.00	3.10
1764	2219	2.203640	ACCCGTCTCTGGACAGCA	60.204	61.111	0.00	0.00	42.21	4.41
1772	2227	1.073216	CTCTGGACAGCAAGTACGCG	61.073	60.000	3.53	3.53	36.85	6.01
2018	2473	2.103771	CGAGTCCATGATCAAGATGGGT	59.896	50.000	12.80	2.49	40.84	4.51
2084	2539	4.836825	AGTGTCATGTCCTCAATTAGTGG	58.163	43.478	0.00	0.00	0.00	4.00
2105	2560	8.514330	AGTGGTTGTTCATTCTTTACTGTAAA	57.486	30.769	12.08	12.08	0.00	2.01
2132	2587	2.065512	CGTTCGATGATGGTTGTGTGA	58.934	47.619	0.00	0.00	0.00	3.58
2149	2604	9.607285	GGTTGTGTGAAACTATTTATTGTAGTG	57.393	33.333	0.00	0.00	38.04	2.74
2190	2830	9.921637	TGAGTAAAAATCATTTATTCACCAACC	57.078	29.630	3.07	0.00	29.53	3.77
2234	2875	1.072173	TCCATATCCACCTCGGCAATG	59.928	52.381	0.00	0.00	33.14	2.82
2238	2879	1.274703	ATCCACCTCGGCAATGGTCT	61.275	55.000	0.00	0.00	33.75	3.85
2243	2884	1.079819	CTCGGCAATGGTCTGTCGT	60.080	57.895	0.00	0.00	44.63	4.34
2251	2892	2.094762	ATGGTCTGTCGTAAAGCCAC	57.905	50.000	0.00	0.00	0.00	5.01
2261	2903	2.029200	TCGTAAAGCCACGATACCAACA	60.029	45.455	2.03	0.00	45.45	3.33
2288	2930	9.182214	AGATTTGCAGATTGTGTTTCTACATAT	57.818	29.630	0.00	0.00	36.50	1.78
2307	2949	9.689976	CTACATATTGTTCTAGAAGAGGATGTG	57.310	37.037	25.82	18.11	29.78	3.21
2476	3141	2.538449	CTCTCAACCAACGTACACACAC	59.462	50.000	0.00	0.00	0.00	3.82
2478	3143	2.869801	CTCAACCAACGTACACACACAT	59.130	45.455	0.00	0.00	0.00	3.21
2481	3146	3.034721	ACCAACGTACACACACATAGG	57.965	47.619	0.00	0.00	0.00	2.57
2484	3149	1.263356	ACGTACACACACATAGGCCT	58.737	50.000	11.78	11.78	0.00	5.19
2526	3191	0.319900	GGAAGAGTGCGAGTTGAGCA	60.320	55.000	0.00	0.00	42.99	4.26
2531	3196	1.739562	GTGCGAGTTGAGCAGAGGG	60.740	63.158	0.00	0.00	46.10	4.30
2900	3565	3.673484	CCCTTTGGCACCAGCACG	61.673	66.667	0.00	0.00	44.61	5.34
2908	3573	2.360350	CACCAGCACGAGCCCATT	60.360	61.111	0.00	0.00	43.56	3.16
2911	3576	2.180017	CAGCACGAGCCCATTTGC	59.820	61.111	0.00	0.00	43.56	3.68
2912	3577	2.282391	AGCACGAGCCCATTTGCA	60.282	55.556	0.00	0.00	43.56	4.08
2931	3596	0.108615	ACGCCTCTTCCTTCATGTCG	60.109	55.000	0.00	0.00	0.00	4.35
2937	3602	3.193263	CTCTTCCTTCATGTCGTGGATG	58.807	50.000	0.00	0.05	0.00	3.51
2940	3605	2.456577	TCCTTCATGTCGTGGATGAGA	58.543	47.619	0.00	0.00	31.52	3.27
2941	3606	2.166459	TCCTTCATGTCGTGGATGAGAC	59.834	50.000	0.00	0.00	37.85	3.36
2977	3642	2.200067	GCACTCCATCGAAGATGACAG	58.800	52.381	11.22	8.85	45.12	3.51
2979	3644	1.202348	ACTCCATCGAAGATGACAGCG	60.202	52.381	11.22	0.00	45.12	5.18
2983	3648	1.995484	CATCGAAGATGACAGCGTTGT	59.005	47.619	3.93	3.93	45.12	3.32
2992	3657	3.820590	CAGCGTTGTGGTGTTCCA	58.179	55.556	0.00	0.00	41.21	3.53
2993	3658	1.648720	CAGCGTTGTGGTGTTCCAG	59.351	57.895	0.00	0.00	45.24	3.86
2994	3659	0.813610	CAGCGTTGTGGTGTTCCAGA	60.814	55.000	0.00	0.00	45.24	3.86
2995	3660	0.108585	AGCGTTGTGGTGTTCCAGAT	59.891	50.000	0.00	0.00	45.24	2.90
2996	3661	0.951558	GCGTTGTGGTGTTCCAGATT	59.048	50.000	0.00	0.00	45.24	2.40
2998	3663	2.604614	GCGTTGTGGTGTTCCAGATTTC	60.605	50.000	0.00	0.00	45.24	2.17
3001	3666	1.418264	TGTGGTGTTCCAGATTTCCGA	59.582	47.619	0.00	0.00	45.24	4.55
3002	3667	2.158740	TGTGGTGTTCCAGATTTCCGAA	60.159	45.455	0.00	0.00	45.24	4.30
3003	3668	2.484264	GTGGTGTTCCAGATTTCCGAAG	59.516	50.000	0.00	0.00	45.24	3.79
3004	3669	1.468914	GGTGTTCCAGATTTCCGAAGC	59.531	52.381	0.00	0.00	0.00	3.86
3005	3670	2.151202	GTGTTCCAGATTTCCGAAGCA	58.849	47.619	0.00	0.00	0.00	3.91
3006	3671	2.160417	GTGTTCCAGATTTCCGAAGCAG	59.840	50.000	0.00	0.00	0.00	4.24
3007	3672	2.224523	TGTTCCAGATTTCCGAAGCAGT	60.225	45.455	0.00	0.00	0.00	4.40
3008	3673	2.099141	TCCAGATTTCCGAAGCAGTG	57.901	50.000	0.00	0.00	0.00	3.66
3009	3674	1.623311	TCCAGATTTCCGAAGCAGTGA	59.377	47.619	0.00	0.00	0.00	3.41
3010	3675	2.005451	CCAGATTTCCGAAGCAGTGAG	58.995	52.381	0.00	0.00	0.00	3.51
3011	3676	2.005451	CAGATTTCCGAAGCAGTGAGG	58.995	52.381	0.00	0.00	0.00	3.86
3012	3677	1.902508	AGATTTCCGAAGCAGTGAGGA	59.097	47.619	0.00	0.00	0.00	3.71
3013	3678	2.003301	GATTTCCGAAGCAGTGAGGAC	58.997	52.381	0.00	0.00	31.69	3.85
3014	3679	0.319555	TTTCCGAAGCAGTGAGGACG	60.320	55.000	0.00	0.00	31.69	4.79
3015	3680	1.461091	TTCCGAAGCAGTGAGGACGT	61.461	55.000	0.00	0.00	31.69	4.34
3016	3681	1.006102	CCGAAGCAGTGAGGACGTT	60.006	57.895	0.00	0.00	0.00	3.99
3017	3682	1.009389	CCGAAGCAGTGAGGACGTTC	61.009	60.000	0.00	0.00	0.00	3.95
3018	3683	0.318699	CGAAGCAGTGAGGACGTTCA	60.319	55.000	0.00	0.00	0.00	3.18
3019	3684	1.423395	GAAGCAGTGAGGACGTTCAG	58.577	55.000	0.00	0.00	0.00	3.02
3020	3685	0.034059	AAGCAGTGAGGACGTTCAGG	59.966	55.000	0.00	0.00	0.00	3.86
3021	3686	2.029844	GCAGTGAGGACGTTCAGGC	61.030	63.158	0.00	0.00	0.00	4.85
3022	3687	1.367471	CAGTGAGGACGTTCAGGCA	59.633	57.895	0.00	0.00	0.00	4.75
3023	3688	0.668706	CAGTGAGGACGTTCAGGCAG	60.669	60.000	0.00	0.00	0.00	4.85
3024	3689	1.374758	GTGAGGACGTTCAGGCAGG	60.375	63.158	0.00	0.00	0.00	4.85
3025	3690	2.435059	GAGGACGTTCAGGCAGGC	60.435	66.667	0.00	0.00	0.00	4.85
3026	3691	3.959991	GAGGACGTTCAGGCAGGCC	62.960	68.421	0.97	0.97	0.00	5.19
3027	3692	4.329545	GGACGTTCAGGCAGGCCA	62.330	66.667	13.63	0.00	38.92	5.36
3028	3693	2.281484	GACGTTCAGGCAGGCCAA	60.281	61.111	13.63	0.00	38.92	4.52
3029	3694	2.594592	ACGTTCAGGCAGGCCAAC	60.595	61.111	13.63	8.16	38.92	3.77
3030	3695	3.365265	CGTTCAGGCAGGCCAACC	61.365	66.667	13.63	5.55	38.92	3.77
3040	3705	3.989787	GGCCAACCTTTGCGTGGG	61.990	66.667	0.00	0.00	0.00	4.61
3041	3706	4.662961	GCCAACCTTTGCGTGGGC	62.663	66.667	0.00	0.00	45.53	5.36
3076	3741	1.073199	GTCCCCTGACCACCAGTTG	59.927	63.158	0.00	0.00	41.33	3.16

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
192	210	4.500205	CGTATTTATACTTCCCGAGGTGCA	60.500	45.833	0.00	0.00	0.00	4.57
420	676	4.528596	AGCTCCTAATTCATACGCTATGGT	59.471	41.667	5.54	0.00	36.81	3.55
720	1034	3.889196	TTCAAACGCAGCTAAACGAAT	57.111	38.095	9.63	0.00	0.00	3.34
746	1076	0.108329	ACCTCAATACAACCGCCTCG	60.108	55.000	0.00	0.00	0.00	4.63
928	1297	5.239525	GGCTACAGACAAGAATGTTTCAAGT	59.760	40.000	0.00	0.00	40.74	3.16
965	1349	7.836183	ACCAATTACAGGATCAAATTAAGCTCT	59.164	33.333	0.00	0.00	0.00	4.09
1223	1623	7.337689	TCAATAGCAGCAGAAATACAAGAACAT	59.662	33.333	0.00	0.00	0.00	2.71
1271	1704	0.594540	TTTGCGTTGCATGCACAGAC	60.595	50.000	22.58	15.51	40.28	3.51
1352	1801	1.187087	TGTTTGGTTTGGCGTCCTTT	58.813	45.000	0.00	0.00	0.00	3.11
1593	2042	3.429547	GCAAAGATCTTGGCGAGTAGAGA	60.430	47.826	18.92	0.00	28.78	3.10
1764	2219	1.403780	CCTTAGCTTGTCCGCGTACTT	60.404	52.381	4.92	0.00	34.40	2.24
1892	2347	4.117661	GCGTCGGAGCGGAAGAGT	62.118	66.667	0.00	0.00	0.00	3.24
1922	2377	3.164977	TCCTTGGTGGTGGCGTCA	61.165	61.111	0.00	0.00	37.07	4.35
1979	2434	1.273606	TCGCTGAAGTCCCTGAAGAAG	59.726	52.381	0.00	0.00	0.00	2.85
2084	2539	8.690840	GTGCATTTACAGTAAAGAATGAACAAC	58.309	33.333	11.41	0.62	37.76	3.32
2105	2560	1.637934	CATCATCGAACGCGTGCAT	59.362	52.632	19.21	7.19	38.98	3.96
2218	2859	0.468226	GACCATTGCCGAGGTGGATA	59.532	55.000	4.51	0.00	42.00	2.59
2219	2860	1.224592	GACCATTGCCGAGGTGGAT	59.775	57.895	4.51	0.00	42.00	3.41
2234	2875	0.038892	TCGTGGCTTTACGACAGACC	60.039	55.000	7.18	0.00	46.94	3.85
2243	2884	4.274602	TCTTGTTGGTATCGTGGCTTTA	57.725	40.909	0.00	0.00	0.00	1.85
2251	2892	4.944962	TCTGCAAATCTTGTTGGTATCG	57.055	40.909	0.00	0.00	0.00	2.92
2261	2903	7.275888	TGTAGAAACACAATCTGCAAATCTT	57.724	32.000	0.00	0.00	36.73	2.40
2288	2930	6.569801	CGTGTACACATCCTCTTCTAGAACAA	60.570	42.308	24.98	0.00	0.00	2.83
2307	2949	3.750130	TCTCTAGTGGTTGTCTCGTGTAC	59.250	47.826	0.00	0.00	0.00	2.90
2432	3096	8.709308	AGAGTTGCACCTTATACTTTCTATCAT	58.291	33.333	0.00	0.00	0.00	2.45
2434	3098	8.198109	TGAGAGTTGCACCTTATACTTTCTATC	58.802	37.037	6.19	0.00	0.00	2.08
2445	3109	3.211045	GTTGGTTGAGAGTTGCACCTTA	58.789	45.455	0.00	0.00	0.00	2.69
2476	3141	5.512232	GGAAGAGGATGTTTCTAGGCCTATG	60.512	48.000	14.30	7.89	0.00	2.23
2478	3143	3.967987	GGAAGAGGATGTTTCTAGGCCTA	59.032	47.826	13.09	13.09	0.00	3.93
2481	3146	2.774809	AGGGAAGAGGATGTTTCTAGGC	59.225	50.000	0.00	0.00	0.00	3.93
2900	3565	3.056313	GAGGCGTGCAAATGGGCTC	62.056	63.158	13.46	13.46	44.43	4.70
2907	3572	0.179032	TGAAGGAAGAGGCGTGCAAA	60.179	50.000	0.00	0.00	0.00	3.68
2908	3573	0.036732	ATGAAGGAAGAGGCGTGCAA	59.963	50.000	0.00	0.00	0.00	4.08
2911	3576	1.363744	GACATGAAGGAAGAGGCGTG	58.636	55.000	0.00	0.00	0.00	5.34
2912	3577	0.108615	CGACATGAAGGAAGAGGCGT	60.109	55.000	0.00	0.00	0.00	5.68
2931	3596	0.177604	CCTCAGCCAGTCTCATCCAC	59.822	60.000	0.00	0.00	0.00	4.02
2937	3602	0.398381	ATCCTCCCTCAGCCAGTCTC	60.398	60.000	0.00	0.00	0.00	3.36
2940	3605	2.373707	GCATCCTCCCTCAGCCAGT	61.374	63.158	0.00	0.00	0.00	4.00
2941	3606	2.372890	TGCATCCTCCCTCAGCCAG	61.373	63.158	0.00	0.00	0.00	4.85
2977	3642	0.951558	AATCTGGAACACCACAACGC	59.048	50.000	0.00	0.00	0.00	4.84
2979	3644	2.031157	CGGAAATCTGGAACACCACAAC	60.031	50.000	0.00	0.00	0.00	3.32
2983	3648	2.778299	CTTCGGAAATCTGGAACACCA	58.222	47.619	0.00	0.00	0.00	4.17
2988	3653	2.038426	TCACTGCTTCGGAAATCTGGAA	59.962	45.455	0.00	0.00	0.00	3.53
2990	3655	2.005451	CTCACTGCTTCGGAAATCTGG	58.995	52.381	0.00	0.00	0.00	3.86
2992	3657	1.902508	TCCTCACTGCTTCGGAAATCT	59.097	47.619	0.00	0.00	0.00	2.40
2993	3658	2.003301	GTCCTCACTGCTTCGGAAATC	58.997	52.381	0.00	0.00	0.00	2.17
2994	3659	1.673033	CGTCCTCACTGCTTCGGAAAT	60.673	52.381	0.00	0.00	0.00	2.17
2995	3660	0.319555	CGTCCTCACTGCTTCGGAAA	60.320	55.000	0.00	0.00	0.00	3.13
2996	3661	1.289066	CGTCCTCACTGCTTCGGAA	59.711	57.895	0.00	0.00	0.00	4.30
2998	3663	1.006102	AACGTCCTCACTGCTTCGG	60.006	57.895	0.00	0.00	0.00	4.30
3001	3666	0.034059	CCTGAACGTCCTCACTGCTT	59.966	55.000	0.00	0.00	0.00	3.91
3002	3667	1.668294	CCTGAACGTCCTCACTGCT	59.332	57.895	0.00	0.00	0.00	4.24
3003	3668	2.029844	GCCTGAACGTCCTCACTGC	61.030	63.158	0.00	0.00	0.00	4.40
3004	3669	0.668706	CTGCCTGAACGTCCTCACTG	60.669	60.000	0.00	0.00	0.00	3.66
3005	3670	1.668294	CTGCCTGAACGTCCTCACT	59.332	57.895	0.00	0.00	0.00	3.41
3006	3671	1.374758	CCTGCCTGAACGTCCTCAC	60.375	63.158	0.00	0.00	0.00	3.51
3007	3672	3.059982	CCTGCCTGAACGTCCTCA	58.940	61.111	0.00	0.00	0.00	3.86
3008	3673	2.435059	GCCTGCCTGAACGTCCTC	60.435	66.667	0.00	0.00	0.00	3.71
3009	3674	4.021925	GGCCTGCCTGAACGTCCT	62.022	66.667	0.00	0.00	0.00	3.85
3010	3675	3.842925	TTGGCCTGCCTGAACGTCC	62.843	63.158	9.97	0.00	36.94	4.79
3011	3676	2.281484	TTGGCCTGCCTGAACGTC	60.281	61.111	9.97	0.00	36.94	4.34
3012	3677	2.594592	GTTGGCCTGCCTGAACGT	60.595	61.111	9.97	0.00	36.94	3.99
3013	3678	3.365265	GGTTGGCCTGCCTGAACG	61.365	66.667	9.97	0.00	36.94	3.95
3014	3679	1.115326	AAAGGTTGGCCTGCCTGAAC	61.115	55.000	17.39	6.30	46.33	3.18
3015	3680	1.114722	CAAAGGTTGGCCTGCCTGAA	61.115	55.000	17.39	0.00	46.33	3.02
3016	3681	1.531365	CAAAGGTTGGCCTGCCTGA	60.531	57.895	17.39	0.00	46.33	3.86
3017	3682	3.053828	CAAAGGTTGGCCTGCCTG	58.946	61.111	17.39	5.47	46.33	4.85
3018	3683	2.919328	GCAAAGGTTGGCCTGCCT	60.919	61.111	12.08	12.08	46.33	4.75
3019	3684	4.362476	CGCAAAGGTTGGCCTGCC	62.362	66.667	3.32	6.13	46.33	4.85
3020	3685	3.605664	ACGCAAAGGTTGGCCTGC	61.606	61.111	3.32	2.77	46.33	4.85
3021	3686	2.336088	CACGCAAAGGTTGGCCTG	59.664	61.111	3.32	0.00	46.33	4.85
3023	3688	3.989787	CCCACGCAAAGGTTGGCC	61.990	66.667	0.00	0.00	0.00	5.36
3024	3689	4.662961	GCCCACGCAAAGGTTGGC	62.663	66.667	0.00	0.00	40.91	4.52
3025	3690	3.211564	CTGCCCACGCAAAGGTTGG	62.212	63.158	0.00	0.00	46.66	3.77
3026	3691	2.336088	CTGCCCACGCAAAGGTTG	59.664	61.111	0.00	0.00	46.66	3.77
3027	3692	2.912025	CCTGCCCACGCAAAGGTT	60.912	61.111	0.00	0.00	46.66	3.50
3028	3693	4.974721	CCCTGCCCACGCAAAGGT	62.975	66.667	0.00	0.00	46.66	3.50
3045	3710	2.282783	GGGGACACAAACATGCCCC	61.283	63.158	5.68	5.68	44.02	5.80
3047	3712	0.539438	TCAGGGGACACAAACATGCC	60.539	55.000	0.00	0.00	0.00	4.40

Based at the University of Bristol with support from BBSRC.

AutoCloner maintained by Alex Coulton.