AutoCloner

Multiple sequence alignment - TraesCS6D01G058100

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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	TraesCS6D01G058100	chr6D	100.000	2762	0	0	1	2762	27514154	27511393	0.000000e+00	5101.0
1	TraesCS6D01G058100	chr6D	84.955	771	78	18	943	1677	27507185	27506417	0.000000e+00	747.0
2	TraesCS6D01G058100	chr6D	86.115	713	45	15	2076	2762	27505333	27504649	0.000000e+00	719.0
3	TraesCS6D01G058100	chr6D	90.181	387	35	2	1693	2076	27505955	27505569	4.110000e-138	501.0
4	TraesCS6D01G058100	chr6D	79.321	677	107	19	1013	1671	27546824	27546163	7.020000e-121	444.0
5	TraesCS6D01G058100	chr6D	84.783	92	14	0	2633	2724	27312252	27312161	2.930000e-15	93.5
6	TraesCS6D01G058100	chr6D	85.393	89	13	0	2663	2751	36326135	36326223	2.930000e-15	93.5
7	TraesCS6D01G058100	chr6B	96.558	1075	29	3	1693	2762	51139218	51138147	0.000000e+00	1773.0
8	TraesCS6D01G058100	chr6B	90.061	986	63	22	733	1696	51140630	51139658	0.000000e+00	1245.0
9	TraesCS6D01G058100	chr6B	86.634	808	68	21	3	772	51141274	51140469	0.000000e+00	857.0
10	TraesCS6D01G058100	chr6B	87.001	677	75	5	1013	1677	51098634	51097959	0.000000e+00	750.0
11	TraesCS6D01G058100	chr6B	84.390	615	44	21	2176	2762	51096737	51096147	8.640000e-155	556.0
12	TraesCS6D01G058100	chr6B	89.922	387	36	2	1693	2076	51097497	51097111	1.910000e-136	496.0
13	TraesCS6D01G058100	chr6B	76.796	543	97	21	1060	1586	82004606	82005135	7.530000e-71	278.0
14	TraesCS6D01G058100	chr6B	77.698	139	28	1	1454	1589	58939430	58939292	6.340000e-12	82.4
15	TraesCS6D01G058100	chr6A	92.616	1097	45	9	1693	2760	30652851	30653940	0.000000e+00	1544.0
16	TraesCS6D01G058100	chr6A	87.746	710	76	6	978	1677	30715897	30716605	0.000000e+00	819.0
17	TraesCS6D01G058100	chr6A	84.661	678	59	22	2107	2760	30717126	30717782	3.880000e-178	634.0
18	TraesCS6D01G058100	chr6A	93.939	363	21	1	1108	1470	30612435	30612796	5.200000e-152	547.0
19	TraesCS6D01G058100	chr6A	93.074	231	15	1	1466	1696	30628173	30628402	1.230000e-88	337.0
20	TraesCS6D01G058100	chr6A	75.670	448	75	23	1085	1518	47685580	47685153	2.810000e-45	193.0
21	TraesCS6D01G058100	chr6A	84.158	202	20	6	905	1096	30603581	30603780	4.700000e-43	185.0
22	TraesCS6D01G058100	chr1B	86.088	611	46	20	133	727	412521538	412520951	3.020000e-174	621.0
23	TraesCS6D01G058100	chr1B	84.408	667	51	22	133	789	297441074	297441697	8.460000e-170	606.0
24	TraesCS6D01G058100	chr5B	86.979	576	42	15	133	698	46549064	46548512	3.910000e-173	617.0
25	TraesCS6D01G058100	chr5B	86.713	572	44	15	133	694	427836217	427835668	8.460000e-170	606.0
26	TraesCS6D01G058100	chr5B	86.515	571	45	15	133	694	497237187	497236640	1.420000e-167	599.0
27	TraesCS6D01G058100	chr2A	86.957	575	41	16	131	694	44891554	44891003	1.410000e-172	616.0
28	TraesCS6D01G058100	chr2A	75.764	458	91	17	1068	1515	762930858	762930411	2.150000e-51	213.0
29	TraesCS6D01G058100	chr3A	86.690	571	44	14	133	694	718393172	718392625	3.040000e-169	604.0
30	TraesCS6D01G058100	chr2B	86.340	571	46	14	133	694	285161702	285162249	6.590000e-166	593.0
31	TraesCS6D01G058100	chr2B	86.364	572	45	13	133	694	695232734	695233282	6.590000e-166	593.0
32	TraesCS6D01G058100	chrUn	76.000	550	102	22	1054	1586	27073079	27073615	9.810000e-65	257.0
33	TraesCS6D01G058100	chrUn	75.140	535	109	19	1061	1586	26705231	26704712	2.140000e-56	230.0
34	TraesCS6D01G058100	chrUn	80.702	114	20	2	2620	2732	103308014	103307902	1.360000e-13	87.9
35	TraesCS6D01G058100	chr5D	80.142	141	16	7	46	177	358203729	358203866	8.140000e-16	95.3
36	TraesCS6D01G058100	chr3D	90.625	64	6	0	56	119	328460272	328460335	4.900000e-13	86.1
37	TraesCS6D01G058100	chr3D	91.525	59	5	0	56	114	535963082	535963140	6.340000e-12	82.4
38	TraesCS6D01G058100	chr3D	75.956	183	28	11	56	223	540929499	540929680	2.280000e-11	80.5
39	TraesCS6D01G058100	chr1A	80.952	105	13	4	51	148	277829692	277829588	2.950000e-10	76.8
40	TraesCS6D01G058100	chr2D	75.135	185	33	10	53	224	187314971	187315155	1.060000e-09	75.0
41	TraesCS6D01G058100	chr3B	81.443	97	11	5	56	145	716331698	716331794	3.820000e-09	73.1

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	TraesCS6D01G058100	chr6D	27511393	27514154	2761	True	5101.000000	5101	100.000000	1	2762	1	chr6D.!!$R2	2761
1	TraesCS6D01G058100	chr6D	27504649	27507185	2536	True	655.666667	747	87.083667	943	2762	3	chr6D.!!$R4	1819
2	TraesCS6D01G058100	chr6D	27546163	27546824	661	True	444.000000	444	79.321000	1013	1671	1	chr6D.!!$R3	658
3	TraesCS6D01G058100	chr6B	51138147	51141274	3127	True	1291.666667	1773	91.084333	3	2762	3	chr6B.!!$R3	2759
4	TraesCS6D01G058100	chr6B	51096147	51098634	2487	True	600.666667	750	87.104333	1013	2762	3	chr6B.!!$R2	1749
5	TraesCS6D01G058100	chr6B	82004606	82005135	529	False	278.000000	278	76.796000	1060	1586	1	chr6B.!!$F1	526
6	TraesCS6D01G058100	chr6A	30652851	30653940	1089	False	1544.000000	1544	92.616000	1693	2760	1	chr6A.!!$F4	1067
7	TraesCS6D01G058100	chr6A	30715897	30717782	1885	False	726.500000	819	86.203500	978	2760	2	chr6A.!!$F5	1782
8	TraesCS6D01G058100	chr1B	412520951	412521538	587	True	621.000000	621	86.088000	133	727	1	chr1B.!!$R1	594
9	TraesCS6D01G058100	chr1B	297441074	297441697	623	False	606.000000	606	84.408000	133	789	1	chr1B.!!$F1	656
10	TraesCS6D01G058100	chr5B	46548512	46549064	552	True	617.000000	617	86.979000	133	698	1	chr5B.!!$R1	565
11	TraesCS6D01G058100	chr5B	427835668	427836217	549	True	606.000000	606	86.713000	133	694	1	chr5B.!!$R2	561
12	TraesCS6D01G058100	chr5B	497236640	497237187	547	True	599.000000	599	86.515000	133	694	1	chr5B.!!$R3	561
13	TraesCS6D01G058100	chr2A	44891003	44891554	551	True	616.000000	616	86.957000	131	694	1	chr2A.!!$R1	563
14	TraesCS6D01G058100	chr3A	718392625	718393172	547	True	604.000000	604	86.690000	133	694	1	chr3A.!!$R1	561
15	TraesCS6D01G058100	chr2B	285161702	285162249	547	False	593.000000	593	86.340000	133	694	1	chr2B.!!$F1	561
16	TraesCS6D01G058100	chr2B	695232734	695233282	548	False	593.000000	593	86.364000	133	694	1	chr2B.!!$F2	561
17	TraesCS6D01G058100	chrUn	27073079	27073615	536	False	257.000000	257	76.000000	1054	1586	1	chrUn.!!$F1	532
18	TraesCS6D01G058100	chrUn	26704712	26705231	519	True	230.000000	230	75.140000	1061	1586	1	chrUn.!!$R1	525

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
985	1038	0.459237	AAATCTCACTCGCAGCCTCG	60.459	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
2081	2902	1.202927	AGCACTGCCACCATACACTTT	60.203	47.619	0.0	0.0	0.0	2.66	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	3.792736	GGCGGGTATGAGGTGCCA	61.793	66.667	0.00	0.00	45.06	4.92
47	48	3.041211	AGGTGCCATGTAGATGCTCTTA	58.959	45.455	0.00	0.00	0.00	2.10
64	65	7.953158	TGCTCTTATGCATTGACTAGATTAC	57.047	36.000	3.54	0.00	38.12	1.89
72	73	7.881775	TGCATTGACTAGATTACTGACTCTA	57.118	36.000	0.00	0.00	0.00	2.43
80	81	7.328277	CTAGATTACTGACTCTAGTGCAAGT	57.672	40.000	0.00	0.00	37.34	3.16
97	98	3.005155	GCAAGTGAGAGTTTGCTGGAAAT	59.995	43.478	0.00	0.00	44.70	2.17
103	104	4.943705	TGAGAGTTTGCTGGAAATATGTCC	59.056	41.667	4.79	4.79	38.27	4.02
114	115	7.072454	TGCTGGAAATATGTCCTAGAGGTAATT	59.928	37.037	13.33	0.00	38.62	1.40
172	189	7.205992	TGTTTTTAGTGCTACAATTGCAATGA	58.794	30.769	13.82	0.61	42.41	2.57
197	215	9.376075	GATTCTTGAATGTTAGATTCAGAGACA	57.624	33.333	5.00	4.42	38.98	3.41
255	273	4.713553	TCTCTAGTCATGCCTCTAGACTG	58.286	47.826	13.89	8.76	42.21	3.51
256	274	4.165180	TCTCTAGTCATGCCTCTAGACTGT	59.835	45.833	13.89	0.00	42.21	3.55
262	280	2.889170	TGCCTCTAGACTGTCTCACT	57.111	50.000	14.62	0.00	0.00	3.41
412	432	6.918022	TGTGATCACGTCATCAGTATGTTATC	59.082	38.462	20.54	0.00	39.48	1.75
422	442	9.557338	GTCATCAGTATGTTATCGGTATACTTC	57.443	37.037	2.25	0.00	35.93	3.01
475	497	7.993101	CAAAAGATTGCATCCTTCTCTTCATA	58.007	34.615	0.00	0.00	0.00	2.15
584	606	0.898326	CACCAGGGTTTAAGTGGGCC	60.898	60.000	0.00	0.00	35.48	5.80
687	717	6.099557	AGTTGAAGAGAATCCTATGCTAGCTT	59.900	38.462	17.23	12.56	33.66	3.74
850	903	9.607285	TTTTGAGAAACGAATCTTATTGCTAAC	57.393	29.630	0.00	0.00	0.00	2.34
852	905	8.547967	TGAGAAACGAATCTTATTGCTAACTT	57.452	30.769	0.00	0.00	0.00	2.66
853	906	8.999431	TGAGAAACGAATCTTATTGCTAACTTT	58.001	29.630	0.00	0.00	0.00	2.66
854	907	9.827411	GAGAAACGAATCTTATTGCTAACTTTT	57.173	29.630	0.00	0.00	0.00	2.27
883	936	9.515226	TTTTAGTGGTGAATCTTATTGCTAACT	57.485	29.630	0.00	0.00	0.00	2.24
884	937	9.515226	TTTAGTGGTGAATCTTATTGCTAACTT	57.485	29.630	0.00	0.00	0.00	2.66
891	944	9.084164	GTGAATCTTATTGCTAACTTAGACGAA	57.916	33.333	0.00	0.00	0.00	3.85
892	945	9.302345	TGAATCTTATTGCTAACTTAGACGAAG	57.698	33.333	0.00	0.00	41.37	3.79
938	991	1.749033	CTATCGTGGGCTTCCCTCC	59.251	63.158	3.27	0.00	45.70	4.30
939	992	1.759459	CTATCGTGGGCTTCCCTCCC	61.759	65.000	3.27	0.00	45.70	4.30
949	1002	2.032151	GCTTCCCTCCCCTCTACAGAG	61.032	61.905	0.00	0.00	41.71	3.35
985	1038	0.459237	AAATCTCACTCGCAGCCTCG	60.459	55.000	0.00	0.00	0.00	4.63
1055	1140	3.730761	CACCCGCACAGAGCAAGC	61.731	66.667	0.00	0.00	46.13	4.01
1374	1480	2.510238	CCGAGCGCTTCTCCTTGG	60.510	66.667	13.26	0.00	38.62	3.61
1507	1622	3.411517	CCGCCTGGACATTCCCCT	61.412	66.667	0.00	0.00	35.03	4.79
1577	1701	2.361104	GCCATCCGCCACTTCCAA	60.361	61.111	0.00	0.00	0.00	3.53
1611	1735	4.278170	TGGGCAGAGACAAACAAAACATAG	59.722	41.667	0.00	0.00	0.00	2.23
1689	1828	3.833442	CTTCCAAATCCGTTTTGCTACC	58.167	45.455	3.26	0.00	42.85	3.18
1734	2316	4.645588	AGTGTCTATACTGGAGGTAACAGC	59.354	45.833	0.00	0.00	39.55	4.40
1773	2355	6.806739	GTGGGTATAACAAAATCAGCTTGTTC	59.193	38.462	4.04	0.00	43.98	3.18
2081	2902	6.038161	GCTACATGCCTGTTGACATATGTAAA	59.962	38.462	8.71	4.69	36.79	2.01
2238	3101	5.801947	GCTTAATGTGTACATTTGGAAGCTG	59.198	40.000	23.44	5.14	44.23	4.24
2563	3459	9.243105	ACTTATGTTGCTAGGATTTGTTAATGT	57.757	29.630	0.00	0.00	0.00	2.71
2584	3480	5.820131	TGTTGTATCAAAGCTCACTTGTTG	58.180	37.500	0.00	0.00	35.85	3.33

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
0	1	2.956987	CCTCAAACGCCCAAGCAG	59.043	61.111	0.00	0.00	39.83	4.24
14	15	2.109181	GCACCTCATACCCGCCTC	59.891	66.667	0.00	0.00	0.00	4.70
47	48	7.358770	AGAGTCAGTAATCTAGTCAATGCAT	57.641	36.000	0.00	0.00	0.00	3.96
59	60	5.955488	TCACTTGCACTAGAGTCAGTAATC	58.045	41.667	0.00	0.00	0.00	1.75
64	65	3.505680	ACTCTCACTTGCACTAGAGTCAG	59.494	47.826	11.65	0.00	44.03	3.51
79	80	5.163713	GGACATATTTCCAGCAAACTCTCAC	60.164	44.000	2.86	0.00	35.49	3.51
80	81	4.943705	GGACATATTTCCAGCAAACTCTCA	59.056	41.667	2.86	0.00	35.49	3.27
161	178	9.361315	TCTAACATTCAAGAATCATTGCAATTG	57.639	29.630	9.83	5.51	0.00	2.32
172	189	9.902684	ATGTCTCTGAATCTAACATTCAAGAAT	57.097	29.630	0.00	0.00	37.55	2.40
197	215	4.877378	ATCTTTCCACACATGCAAACAT	57.123	36.364	0.00	0.00	36.79	2.71
255	273	8.837389	ACAAAACCATAAAACTCTAAGTGAGAC	58.163	33.333	0.00	0.00	45.39	3.36
256	274	8.974060	ACAAAACCATAAAACTCTAAGTGAGA	57.026	30.769	0.00	0.00	45.39	3.27
286	304	9.567848	CTTAACAATAACAATGTCCATGGTTAC	57.432	33.333	12.58	3.89	39.33	2.50
327	345	8.450578	TGTTATCCTCGCAATATTTTCTCATT	57.549	30.769	0.00	0.00	0.00	2.57
342	360	7.545965	GTCTATCCAATACCATTGTTATCCTCG	59.454	40.741	0.00	0.00	0.00	4.63
343	361	7.824779	GGTCTATCCAATACCATTGTTATCCTC	59.175	40.741	0.00	0.00	35.97	3.71
375	393	6.626302	TGACGTGATCACATAGTGTTTCATA	58.374	36.000	24.93	0.00	34.79	2.15
412	432	5.299531	TGTCCATGAGAAGAGAAGTATACCG	59.700	44.000	0.00	0.00	0.00	4.02
422	442	3.258971	GGAGGTTGTCCATGAGAAGAG	57.741	52.381	0.00	0.00	46.10	2.85
475	497	9.606631	GGAACTTCAGTAGTCATTATTCAAGAT	57.393	33.333	0.00	0.00	35.54	2.40
491	513	7.944554	TCAAGGAAGAATATTTGGAACTTCAGT	59.055	33.333	13.06	1.42	38.73	3.41
584	606	4.155733	TAGGCCCGCATGACCACG	62.156	66.667	0.00	0.00	0.00	4.94
762	792	6.886459	AGCTAGCATAAGATTGTCTTCCAAAA	59.114	34.615	18.83	0.00	37.89	2.44
766	796	6.934048	AAAGCTAGCATAAGATTGTCTTCC	57.066	37.500	18.83	0.00	37.89	3.46
798	830	6.690194	AAAGCTAGCAATAAGATTCACCTG	57.310	37.500	18.83	0.00	0.00	4.00
825	878	8.999431	AGTTAGCAATAAGATTCGTTTCTCAAA	58.001	29.630	0.00	0.00	0.00	2.69
828	881	9.827411	AAAAGTTAGCAATAAGATTCGTTTCTC	57.173	29.630	0.00	0.00	0.00	2.87
857	910	9.515226	AGTTAGCAATAAGATTCACCACTAAAA	57.485	29.630	0.00	0.00	0.00	1.52
858	911	9.515226	AAGTTAGCAATAAGATTCACCACTAAA	57.485	29.630	0.00	0.00	0.00	1.85
860	913	9.817809	CTAAGTTAGCAATAAGATTCACCACTA	57.182	33.333	0.00	0.00	0.00	2.74
861	914	8.540388	TCTAAGTTAGCAATAAGATTCACCACT	58.460	33.333	4.93	0.00	0.00	4.00
862	915	8.604890	GTCTAAGTTAGCAATAAGATTCACCAC	58.395	37.037	4.93	0.00	0.00	4.16
863	916	7.491372	CGTCTAAGTTAGCAATAAGATTCACCA	59.509	37.037	4.93	0.00	0.00	4.17
864	917	7.705325	TCGTCTAAGTTAGCAATAAGATTCACC	59.295	37.037	4.93	0.00	0.00	4.02
865	918	8.630278	TCGTCTAAGTTAGCAATAAGATTCAC	57.370	34.615	4.93	0.00	0.00	3.18
866	919	9.302345	CTTCGTCTAAGTTAGCAATAAGATTCA	57.698	33.333	4.93	0.00	0.00	2.57
867	920	8.756864	CCTTCGTCTAAGTTAGCAATAAGATTC	58.243	37.037	4.93	0.00	32.89	2.52
868	921	8.258708	ACCTTCGTCTAAGTTAGCAATAAGATT	58.741	33.333	4.93	0.00	32.89	2.40
869	922	7.783042	ACCTTCGTCTAAGTTAGCAATAAGAT	58.217	34.615	4.93	0.00	32.89	2.40
870	923	7.166691	ACCTTCGTCTAAGTTAGCAATAAGA	57.833	36.000	4.93	0.00	32.89	2.10
871	924	7.544566	TCAACCTTCGTCTAAGTTAGCAATAAG	59.455	37.037	4.93	6.20	32.89	1.73
872	925	7.380536	TCAACCTTCGTCTAAGTTAGCAATAA	58.619	34.615	4.93	0.00	32.89	1.40
873	926	6.927416	TCAACCTTCGTCTAAGTTAGCAATA	58.073	36.000	4.93	0.00	32.89	1.90
874	927	5.790593	TCAACCTTCGTCTAAGTTAGCAAT	58.209	37.500	4.93	0.00	32.89	3.56
875	928	5.204409	TCAACCTTCGTCTAAGTTAGCAA	57.796	39.130	4.93	0.00	32.89	3.91
876	929	4.280174	ACTCAACCTTCGTCTAAGTTAGCA	59.720	41.667	4.93	0.00	32.89	3.49
877	930	4.807443	ACTCAACCTTCGTCTAAGTTAGC	58.193	43.478	4.93	0.24	32.89	3.09
878	931	6.906659	TGTACTCAACCTTCGTCTAAGTTAG	58.093	40.000	3.29	3.29	32.89	2.34
879	932	6.488006	ACTGTACTCAACCTTCGTCTAAGTTA	59.512	38.462	0.00	0.00	32.89	2.24
880	933	5.301298	ACTGTACTCAACCTTCGTCTAAGTT	59.699	40.000	0.00	0.00	32.89	2.66
881	934	4.826183	ACTGTACTCAACCTTCGTCTAAGT	59.174	41.667	0.00	0.00	32.89	2.24
882	935	5.154932	CACTGTACTCAACCTTCGTCTAAG	58.845	45.833	0.00	0.00	34.73	2.18
883	936	4.022589	CCACTGTACTCAACCTTCGTCTAA	60.023	45.833	0.00	0.00	0.00	2.10
884	937	3.504906	CCACTGTACTCAACCTTCGTCTA	59.495	47.826	0.00	0.00	0.00	2.59
891	944	1.435256	AAGCCCACTGTACTCAACCT	58.565	50.000	0.00	0.00	0.00	3.50
892	945	2.152016	GAAAGCCCACTGTACTCAACC	58.848	52.381	0.00	0.00	0.00	3.77
938	991	5.675538	CCCAATAGTTTTCTCTGTAGAGGG	58.324	45.833	8.91	0.00	42.30	4.30
939	992	5.104735	AGCCCAATAGTTTTCTCTGTAGAGG	60.105	44.000	8.91	0.00	42.30	3.69
949	1002	6.808704	GTGAGATTTGAAGCCCAATAGTTTTC	59.191	38.462	0.00	0.00	34.23	2.29
985	1038	3.403968	GGACACTGGAGAAGAGAAAACC	58.596	50.000	0.00	0.00	0.00	3.27
1043	1121	2.047844	TCCTCGCTTGCTCTGTGC	60.048	61.111	0.00	0.00	43.25	4.57
1047	1132	3.780173	GCCCTCCTCGCTTGCTCT	61.780	66.667	0.00	0.00	0.00	4.09
1055	1140	2.725008	GTCATCTCGCCCTCCTCG	59.275	66.667	0.00	0.00	0.00	4.63
1272	1378	1.340399	ATGAAGCAGCCGAGGATGGA	61.340	55.000	9.57	0.00	31.39	3.41
1507	1622	2.967201	TCCTTCTTCGTGTCAAACCCTA	59.033	45.455	0.00	0.00	0.00	3.53
1577	1701	1.203187	TCTCTGCCCACTAAGACCACT	60.203	52.381	0.00	0.00	0.00	4.00
1611	1735	0.645868	GATGAGTAAACGCAGGCGAC	59.354	55.000	21.62	8.27	42.83	5.19
1689	1828	7.706179	ACACTTTCAAATGGTTGATGTAAACTG	59.294	33.333	0.00	0.00	43.29	3.16
1734	2316	1.172180	ACCCACGGTGTCAAAGCATG	61.172	55.000	7.45	0.00	32.98	4.06
2081	2902	1.202927	AGCACTGCCACCATACACTTT	60.203	47.619	0.00	0.00	0.00	2.66
2408	3295	6.268847	AGTTGGCCTCTCCTATAAGTGATAAG	59.731	42.308	3.32	0.00	35.26	1.73
2563	3459	6.449635	AACAACAAGTGAGCTTTGATACAA	57.550	33.333	3.66	0.00	31.49	2.41
2591	3489	4.059511	TCGAAGGTGCAATTTTAGACGAA	58.940	39.130	0.00	0.00	0.00	3.85
2592	3490	3.655486	TCGAAGGTGCAATTTTAGACGA	58.345	40.909	0.00	0.00	0.00	4.20
2593	3491	3.432252	ACTCGAAGGTGCAATTTTAGACG	59.568	43.478	0.00	0.00	0.00	4.18
2594	3492	5.358298	AACTCGAAGGTGCAATTTTAGAC	57.642	39.130	0.00	0.00	0.00	2.59
2595	3493	5.763204	AGAAACTCGAAGGTGCAATTTTAGA	59.237	36.000	0.00	0.00	0.00	2.10

Based at the University of Bristol with support from BBSRC.

AutoCloner maintained by Alex Coulton.