AutoCloner

Multiple sequence alignment - TraesCS6D01G210900

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	TraesCS6D01G210900	chr6D	100.000	2729	0	0	1	2729	297490903	297488175	0.000000e+00	5040.0
1	TraesCS6D01G210900	chr6D	91.869	1156	68	11	624	1764	297407760	297406616	0.000000e+00	1591.0
2	TraesCS6D01G210900	chr6D	89.545	880	49	12	883	1728	298207396	298206526	0.000000e+00	1075.0
3	TraesCS6D01G210900	chr6D	90.392	791	58	11	950	1729	298399370	298398587	0.000000e+00	1024.0
4	TraesCS6D01G210900	chr6D	94.935	612	23	5	1	604	75897583	75896972	0.000000e+00	952.0
5	TraesCS6D01G210900	chr6D	94.454	613	19	6	1	606	452503204	452502600	0.000000e+00	929.0
6	TraesCS6D01G210900	chr6D	87.752	743	65	19	996	1728	296993560	296992834	0.000000e+00	845.0
7	TraesCS6D01G210900	chr6D	87.308	717	69	12	1999	2712	297405201	297404504	0.000000e+00	800.0
8	TraesCS6D01G210900	chr6D	93.238	281	14	1	678	958	296993837	296993562	2.530000e-110	409.0
9	TraesCS6D01G210900	chr6D	89.547	287	21	3	1452	1729	298444330	298444044	3.340000e-94	355.0
10	TraesCS6D01G210900	chr6D	92.308	91	7	0	1910	2000	297405319	297405229	2.210000e-26	130.0
11	TraesCS6D01G210900	chr6D	94.118	51	3	0	625	675	296994094	296994044	8.100000e-11	78.7
12	TraesCS6D01G210900	chr6A	88.671	1121	93	19	625	1728	421463446	421464549	0.000000e+00	1336.0
13	TraesCS6D01G210900	chr6A	90.090	888	47	9	910	1762	421367787	421368668	0.000000e+00	1114.0
14	TraesCS6D01G210900	chr6A	88.864	880	61	16	883	1728	421225949	421226825	0.000000e+00	1048.0
15	TraesCS6D01G210900	chr6A	92.598	635	26	6	2086	2712	421369038	421369659	0.000000e+00	893.0
16	TraesCS6D01G210900	chr6A	94.421	233	11	2	625	857	421367560	421367790	9.290000e-95	357.0
17	TraesCS6D01G210900	chr6A	82.528	269	16	10	1760	2000	421368700	421368965	9.900000e-50	207.0
18	TraesCS6D01G210900	chr6B	88.691	1123	88	26	625	1728	461395050	461393948	0.000000e+00	1334.0
19	TraesCS6D01G210900	chr6B	89.169	794	45	18	997	1754	461961868	461961080	0.000000e+00	952.0
20	TraesCS6D01G210900	chr6B	90.490	347	27	6	1999	2341	461432227	461431883	1.150000e-123	453.0
21	TraesCS6D01G210900	chr6B	90.391	281	24	1	1452	1729	461847782	461847502	1.540000e-97	366.0
22	TraesCS6D01G210900	chr1D	95.908	611	19	4	1	605	394194504	394193894	0.000000e+00	985.0
23	TraesCS6D01G210900	chr1D	94.472	615	23	5	1	604	453148625	453148011	0.000000e+00	937.0
24	TraesCS6D01G210900	chr1D	94.243	608	31	2	1	604	261089263	261089870	0.000000e+00	926.0
25	TraesCS6D01G210900	chr7D	95.432	613	21	4	1	606	573371131	573371743	0.000000e+00	970.0
26	TraesCS6D01G210900	chr4D	94.771	612	24	5	1	604	16787888	16788499	0.000000e+00	946.0
27	TraesCS6D01G210900	chr4D	94.290	613	27	5	1	606	461233319	461232708	0.000000e+00	931.0
28	TraesCS6D01G210900	chr3D	94.337	618	21	6	1	604	2203660	2203043	0.000000e+00	935.0
29	TraesCS6D01G210900	chr3A	78.226	124	17	2	2582	2705	347437645	347437532	1.360000e-08	71.3

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	TraesCS6D01G210900	chr6D	297488175	297490903	2728	True	5040.000000	5040	100.000000	1	2729	1	chr6D.!!$R2	2728
1	TraesCS6D01G210900	chr6D	298206526	298207396	870	True	1075.000000	1075	89.545000	883	1728	1	chr6D.!!$R3	845
2	TraesCS6D01G210900	chr6D	298398587	298399370	783	True	1024.000000	1024	90.392000	950	1729	1	chr6D.!!$R4	779
3	TraesCS6D01G210900	chr6D	75896972	75897583	611	True	952.000000	952	94.935000	1	604	1	chr6D.!!$R1	603
4	TraesCS6D01G210900	chr6D	452502600	452503204	604	True	929.000000	929	94.454000	1	606	1	chr6D.!!$R6	605
5	TraesCS6D01G210900	chr6D	297404504	297407760	3256	True	840.333333	1591	90.495000	624	2712	3	chr6D.!!$R8	2088
6	TraesCS6D01G210900	chr6D	296992834	296994094	1260	True	444.233333	845	91.702667	625	1728	3	chr6D.!!$R7	1103
7	TraesCS6D01G210900	chr6A	421463446	421464549	1103	False	1336.000000	1336	88.671000	625	1728	1	chr6A.!!$F2	1103
8	TraesCS6D01G210900	chr6A	421225949	421226825	876	False	1048.000000	1048	88.864000	883	1728	1	chr6A.!!$F1	845
9	TraesCS6D01G210900	chr6A	421367560	421369659	2099	False	642.750000	1114	89.909250	625	2712	4	chr6A.!!$F3	2087
10	TraesCS6D01G210900	chr6B	461393948	461395050	1102	True	1334.000000	1334	88.691000	625	1728	1	chr6B.!!$R1	1103
11	TraesCS6D01G210900	chr6B	461961080	461961868	788	True	952.000000	952	89.169000	997	1754	1	chr6B.!!$R4	757
12	TraesCS6D01G210900	chr1D	394193894	394194504	610	True	985.000000	985	95.908000	1	605	1	chr1D.!!$R1	604
13	TraesCS6D01G210900	chr1D	453148011	453148625	614	True	937.000000	937	94.472000	1	604	1	chr1D.!!$R2	603
14	TraesCS6D01G210900	chr1D	261089263	261089870	607	False	926.000000	926	94.243000	1	604	1	chr1D.!!$F1	603
15	TraesCS6D01G210900	chr7D	573371131	573371743	612	False	970.000000	970	95.432000	1	606	1	chr7D.!!$F1	605
16	TraesCS6D01G210900	chr4D	16787888	16788499	611	False	946.000000	946	94.771000	1	604	1	chr4D.!!$F1	603
17	TraesCS6D01G210900	chr4D	461232708	461233319	611	True	931.000000	931	94.290000	1	606	1	chr4D.!!$R1	605
18	TraesCS6D01G210900	chr3D	2203043	2203660	617	True	935.000000	935	94.337000	1	604	1	chr3D.!!$R1	603

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
79	80	0.540923	GCCTTCTCCAGATCTGCAGT	59.459	55.0	17.76	0.42	0.0	4.40	F
261	271	0.555369	AGGAGAGGGAGTGGGGAGTA	60.555	60.0	0.00	0.00	0.0	2.59	F

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability	Orientation
1536	1876	0.446616	TGTCGTCGATCTGGAACTCG	59.553	55.0	0.0	0.0	36.25	4.18	R
2254	3814	0.309612	AATTGTTTGACGCCCGTGAC	59.690	50.0	0.0	0.0	0.00	3.67	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
79	80	0.540923	GCCTTCTCCAGATCTGCAGT	59.459	55.000	17.76	0.42	0.00	4.40
85	87	2.124403	CAGATCTGCAGTGGGGGC	60.124	66.667	14.67	0.00	0.00	5.80
261	271	0.555369	AGGAGAGGGAGTGGGGAGTA	60.555	60.000	0.00	0.00	0.00	2.59
370	388	1.468736	GGAATCTACCCGTGACACGTC	60.469	57.143	25.18	14.30	40.58	4.34
498	516	1.293963	CCTCGACGGATATACGCGGA	61.294	60.000	19.24	0.00	34.47	5.54
578	596	1.370051	GTGTTTTTCCACCTCGCGC	60.370	57.895	0.00	0.00	0.00	6.86
579	597	1.820056	TGTTTTTCCACCTCGCGCA	60.820	52.632	8.75	0.00	0.00	6.09
606	632	1.864862	CACAGGAGCAGAAACGCTG	59.135	57.895	0.00	0.00	44.01	5.18
607	633	0.882042	CACAGGAGCAGAAACGCTGT	60.882	55.000	0.00	0.00	46.62	4.40
608	634	0.679505	ACAGGAGCAGAAACGCTGTA	59.320	50.000	0.00	0.00	46.62	2.74
609	635	1.071605	CAGGAGCAGAAACGCTGTAC	58.928	55.000	0.00	0.00	46.62	2.90
610	636	0.969894	AGGAGCAGAAACGCTGTACT	59.030	50.000	0.00	0.00	46.62	2.73
611	637	1.344763	AGGAGCAGAAACGCTGTACTT	59.655	47.619	0.00	0.00	46.62	2.24
612	638	2.561419	AGGAGCAGAAACGCTGTACTTA	59.439	45.455	0.00	0.00	46.62	2.24
613	639	2.924290	GGAGCAGAAACGCTGTACTTAG	59.076	50.000	0.00	0.00	46.62	2.18
614	640	3.367087	GGAGCAGAAACGCTGTACTTAGA	60.367	47.826	0.00	0.00	46.62	2.10
615	641	3.839293	AGCAGAAACGCTGTACTTAGAG	58.161	45.455	0.00	0.00	46.62	2.43
616	642	3.256136	AGCAGAAACGCTGTACTTAGAGT	59.744	43.478	0.00	0.00	46.62	3.24
617	643	3.365220	GCAGAAACGCTGTACTTAGAGTG	59.635	47.826	0.00	0.00	46.62	3.51
618	644	4.795268	CAGAAACGCTGTACTTAGAGTGA	58.205	43.478	1.27	0.00	39.85	3.41
619	645	5.220381	CAGAAACGCTGTACTTAGAGTGAA	58.780	41.667	1.27	0.00	39.85	3.18
620	646	5.690409	CAGAAACGCTGTACTTAGAGTGAAA	59.310	40.000	1.27	0.00	39.85	2.69
621	647	5.690857	AGAAACGCTGTACTTAGAGTGAAAC	59.309	40.000	1.27	0.00	30.93	2.78
622	648	3.562505	ACGCTGTACTTAGAGTGAAACG	58.437	45.455	1.27	0.00	45.86	3.60
635	661	4.796369	GAGTGAAACGCTGTACTTAGAGT	58.204	43.478	0.00	0.00	45.86	3.24
675	905	1.512926	AGGAAGCAAGCAACGTACTG	58.487	50.000	0.00	0.00	0.00	2.74
709	939	8.742777	TCCATCATCCAAACAATAGAAAAAGAG	58.257	33.333	0.00	0.00	0.00	2.85
774	1010	2.126228	CAATGGCCGCAACTGCTG	60.126	61.111	0.00	0.00	39.32	4.41
873	1109	0.905357	AGCACCAGCCGTATTCTTCT	59.095	50.000	0.00	0.00	43.56	2.85
874	1110	1.134670	AGCACCAGCCGTATTCTTCTC	60.135	52.381	0.00	0.00	43.56	2.87
875	1111	1.134670	GCACCAGCCGTATTCTTCTCT	60.135	52.381	0.00	0.00	33.58	3.10
876	1112	2.678190	GCACCAGCCGTATTCTTCTCTT	60.678	50.000	0.00	0.00	33.58	2.85
877	1113	3.190874	CACCAGCCGTATTCTTCTCTTC	58.809	50.000	0.00	0.00	0.00	2.87
892	1128	1.227205	CTTCCTAGCAGCTCAGGCG	60.227	63.158	0.00	0.00	44.37	5.52
899	1136	2.753043	CAGCTCAGGCGGCCATTT	60.753	61.111	23.09	0.00	44.37	2.32
989	1236	0.998928	AGAGGAGCAGAGGAGTGAGA	59.001	55.000	0.00	0.00	0.00	3.27
1111	1412	4.954970	ACGGGCACAGCAACTGGG	62.955	66.667	0.00	0.00	38.04	4.45
1183	1484	0.902531	CCGGTGGATCAACTACCTGT	59.097	55.000	0.00	0.00	46.07	4.00
1358	1659	1.235948	AAGCGACTCGACTCGTCCTT	61.236	55.000	14.52	8.37	35.99	3.36
1409	1713	1.518056	CGCAAAGCCAAGAAGCCTGA	61.518	55.000	0.00	0.00	0.00	3.86
1413	1717	3.084039	CAAAGCCAAGAAGCCTGATGTA	58.916	45.455	0.00	0.00	0.00	2.29
1470	1777	4.435970	TCGCCGGAGCAGTCCCTA	62.436	66.667	5.05	0.00	40.20	3.53
1536	1876	3.069318	ACGGGCTCTTCCTCGGAC	61.069	66.667	0.00	0.00	34.28	4.79
1591	1931	1.079819	CTTGCGATGTCGGTGGACT	60.080	57.895	4.44	0.00	43.79	3.85
1653	1993	0.389025	ATAGTGCATCGCCATCGTCA	59.611	50.000	0.00	0.00	36.96	4.35
1697	2037	0.950555	GTCACGCTGTTCATGCAGGA	60.951	55.000	0.00	0.00	37.00	3.86
1789	2163	0.249031	AACGAGGCAAGCAAACAAGC	60.249	50.000	0.00	0.00	0.00	4.01
1807	2181	1.109323	GCCAACAACTGTTCCCAGCT	61.109	55.000	0.00	0.00	42.81	4.24
1849	2223	2.790433	AGCTGGGCAAGATTAAAACGA	58.210	42.857	0.00	0.00	0.00	3.85
1863	2237	9.511144	AAGATTAAAACGACAACAAAAGGTAAG	57.489	29.630	0.00	0.00	0.00	2.34
1940	3466	7.492352	ACTCTTGTCAAAGGTTATGTTACAC	57.508	36.000	0.00	0.00	33.90	2.90
2002	3559	1.966451	GTGTGAGGAAACAGGCCGG	60.966	63.158	0.00	0.00	0.00	6.13
2040	3597	1.730121	CGTGATGAATTTGCTTGCGCT	60.730	47.619	9.73	0.00	36.97	5.92
2045	3602	2.548875	TGAATTTGCTTGCGCTTTGTT	58.451	38.095	9.73	0.00	36.97	2.83
2057	3614	3.857093	TGCGCTTTGTTGTCTTCTTTTTC	59.143	39.130	9.73	0.00	0.00	2.29
2079	3636	8.610248	TTTCAGGAAATATAAACGAGTGTCAA	57.390	30.769	0.00	0.00	0.00	3.18
2254	3814	7.795734	GCATCGAGTTGAATGTATAAATCTGTG	59.204	37.037	0.00	0.00	0.00	3.66
2276	3836	0.040781	ACGGGCGTCAAACAATTTCG	60.041	50.000	0.00	0.00	0.00	3.46
2499	4061	4.883585	GGTCATCAGATGAATAACAAGGCA	59.116	41.667	15.02	0.00	41.69	4.75
2500	4062	5.533903	GGTCATCAGATGAATAACAAGGCAT	59.466	40.000	15.02	0.00	41.69	4.40
2589	4151	3.886123	TGATCGTGATGTAGAGGTCAGA	58.114	45.455	0.00	0.00	0.00	3.27
2590	4152	4.464947	TGATCGTGATGTAGAGGTCAGAT	58.535	43.478	0.00	0.00	0.00	2.90
2599	4161	8.363390	GTGATGTAGAGGTCAGATATGATGAAA	58.637	37.037	0.00	0.00	0.00	2.69
2606	4168	7.125507	AGAGGTCAGATATGATGAAAAGTCTGT	59.874	37.037	0.00	0.00	35.70	3.41
2643	4205	0.951558	AAGCGGACACAACAATCACC	59.048	50.000	0.00	0.00	0.00	4.02
2648	4210	1.862602	GACACAACAATCACCGGGGC	61.863	60.000	6.32	0.00	0.00	5.80
2649	4211	1.603455	CACAACAATCACCGGGGCT	60.603	57.895	6.32	0.00	0.00	5.19
2650	4212	1.152830	ACAACAATCACCGGGGCTT	59.847	52.632	6.32	0.00	0.00	4.35
2651	4213	1.178534	ACAACAATCACCGGGGCTTG	61.179	55.000	18.54	18.54	0.00	4.01
2652	4214	1.152830	AACAATCACCGGGGCTTGT	59.847	52.632	19.98	19.98	33.45	3.16
2653	4215	0.469144	AACAATCACCGGGGCTTGTT	60.469	50.000	28.42	28.42	37.08	2.83
2654	4216	1.178534	ACAATCACCGGGGCTTGTTG	61.179	55.000	19.98	13.55	0.00	3.33
2655	4217	1.606313	AATCACCGGGGCTTGTTGG	60.606	57.895	6.32	0.00	0.00	3.77
2656	4218	3.583882	ATCACCGGGGCTTGTTGGG	62.584	63.158	6.32	0.00	0.00	4.12
2667	4229	1.876497	CTTGTTGGGCGGATGTTGGG	61.876	60.000	0.00	0.00	0.00	4.12
2712	4279	4.276678	TGTGCAAGAGTTGATTCTCAAAGG	59.723	41.667	0.00	0.00	38.22	3.11
2713	4280	3.822735	TGCAAGAGTTGATTCTCAAAGGG	59.177	43.478	0.00	0.00	38.22	3.95
2714	4281	3.823304	GCAAGAGTTGATTCTCAAAGGGT	59.177	43.478	0.00	0.00	38.22	4.34
2715	4282	4.320788	GCAAGAGTTGATTCTCAAAGGGTG	60.321	45.833	0.00	0.00	38.22	4.61
2716	4283	4.713792	AGAGTTGATTCTCAAAGGGTGT	57.286	40.909	0.00	0.00	38.22	4.16
2717	4284	4.392940	AGAGTTGATTCTCAAAGGGTGTG	58.607	43.478	0.00	0.00	38.22	3.82
2718	4285	4.137543	GAGTTGATTCTCAAAGGGTGTGT	58.862	43.478	0.00	0.00	38.22	3.72
2719	4286	4.536765	AGTTGATTCTCAAAGGGTGTGTT	58.463	39.130	0.00	0.00	38.22	3.32
2720	4287	4.956075	AGTTGATTCTCAAAGGGTGTGTTT	59.044	37.500	0.00	0.00	38.22	2.83
2721	4288	4.916983	TGATTCTCAAAGGGTGTGTTTG	57.083	40.909	0.00	0.00	36.42	2.93
2722	4289	3.636300	TGATTCTCAAAGGGTGTGTTTGG	59.364	43.478	0.00	0.00	35.88	3.28
2723	4290	2.818751	TCTCAAAGGGTGTGTTTGGT	57.181	45.000	0.00	0.00	35.88	3.67
2724	4291	3.094484	TCTCAAAGGGTGTGTTTGGTT	57.906	42.857	0.00	0.00	35.88	3.67
2725	4292	3.020984	TCTCAAAGGGTGTGTTTGGTTC	58.979	45.455	0.00	0.00	35.88	3.62
2726	4293	1.746220	TCAAAGGGTGTGTTTGGTTCG	59.254	47.619	0.00	0.00	35.88	3.95
2727	4294	1.107945	AAAGGGTGTGTTTGGTTCGG	58.892	50.000	0.00	0.00	0.00	4.30
2728	4295	0.753848	AAGGGTGTGTTTGGTTCGGG	60.754	55.000	0.00	0.00	0.00	5.14

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
261	271	1.456705	GCATCGTCTCCCTCTCCCT	60.457	63.158	0.00	0.00	0.00	4.20
417	435	2.979813	CCGGCCGTATACGTATTTGTAC	59.020	50.000	26.12	4.76	37.74	2.90
488	506	2.159014	TCTTTGTTGCCTCCGCGTATAT	60.159	45.455	4.92	0.00	38.08	0.86
498	516	1.148310	CACGATCGTCTTTGTTGCCT	58.852	50.000	19.84	0.00	0.00	4.75
578	596	2.667418	CTCCTGTGCTCCCCTGTG	59.333	66.667	0.00	0.00	0.00	3.66
579	597	3.325753	GCTCCTGTGCTCCCCTGT	61.326	66.667	0.00	0.00	0.00	4.00
591	617	0.969894	AGTACAGCGTTTCTGCTCCT	59.030	50.000	0.00	0.00	45.23	3.69
606	632	5.697826	AGTACAGCGTTTCACTCTAAGTAC	58.302	41.667	0.00	0.00	0.00	2.73
607	633	5.954296	AGTACAGCGTTTCACTCTAAGTA	57.046	39.130	0.00	0.00	0.00	2.24
608	634	4.850347	AGTACAGCGTTTCACTCTAAGT	57.150	40.909	0.00	0.00	0.00	2.24
609	635	6.609533	TCTAAGTACAGCGTTTCACTCTAAG	58.390	40.000	0.00	0.00	0.00	2.18
610	636	6.206243	ACTCTAAGTACAGCGTTTCACTCTAA	59.794	38.462	0.00	0.00	0.00	2.10
611	637	5.704515	ACTCTAAGTACAGCGTTTCACTCTA	59.295	40.000	0.00	0.00	0.00	2.43
612	638	4.519730	ACTCTAAGTACAGCGTTTCACTCT	59.480	41.667	0.00	0.00	0.00	3.24
613	639	4.617645	CACTCTAAGTACAGCGTTTCACTC	59.382	45.833	0.00	0.00	0.00	3.51
614	640	4.277672	TCACTCTAAGTACAGCGTTTCACT	59.722	41.667	0.00	0.00	0.00	3.41
615	641	4.543692	TCACTCTAAGTACAGCGTTTCAC	58.456	43.478	0.00	0.00	0.00	3.18
616	642	4.517832	TCTCACTCTAAGTACAGCGTTTCA	59.482	41.667	0.00	0.00	0.00	2.69
617	643	5.044428	TCTCACTCTAAGTACAGCGTTTC	57.956	43.478	0.00	0.00	0.00	2.78
618	644	5.449107	TTCTCACTCTAAGTACAGCGTTT	57.551	39.130	0.00	0.00	0.00	3.60
619	645	4.616373	GCTTCTCACTCTAAGTACAGCGTT	60.616	45.833	0.00	0.00	0.00	4.84
620	646	3.119779	GCTTCTCACTCTAAGTACAGCGT	60.120	47.826	0.00	0.00	0.00	5.07
621	647	3.430931	GCTTCTCACTCTAAGTACAGCG	58.569	50.000	0.00	0.00	0.00	5.18
622	648	3.732471	CGGCTTCTCACTCTAAGTACAGC	60.732	52.174	0.00	0.00	0.00	4.40
635	661	1.271652	TGTTTATTGCCCGGCTTCTCA	60.272	47.619	11.61	0.11	0.00	3.27
675	905	2.353357	TTGGATGATGGAGTCCATGC	57.647	50.000	29.60	19.37	45.26	4.06
709	939	3.493503	GCGTTATATCCAAGTGGTAGTGC	59.506	47.826	0.00	0.00	36.34	4.40
774	1010	1.177401	GTCAATTGGAGCAGGTTCCC	58.823	55.000	5.42	0.00	36.35	3.97
873	1109	1.670949	CGCCTGAGCTGCTAGGAAGA	61.671	60.000	21.62	0.00	36.11	2.87
874	1110	1.227205	CGCCTGAGCTGCTAGGAAG	60.227	63.158	21.62	13.73	36.11	3.46
875	1111	2.725312	CCGCCTGAGCTGCTAGGAA	61.725	63.158	21.62	2.53	36.11	3.36
876	1112	3.150335	CCGCCTGAGCTGCTAGGA	61.150	66.667	21.62	3.14	36.11	2.94
877	1113	4.906792	GCCGCCTGAGCTGCTAGG	62.907	72.222	0.15	11.09	44.96	3.02
989	1236	2.450476	CCCTCACCATTGCTAGCTTTT	58.550	47.619	17.23	0.00	0.00	2.27
1055	1356	0.618680	CAGGGTCATGTCCTCCTCCA	60.619	60.000	8.93	0.00	31.06	3.86
1290	1591	1.977544	CTCGTTGTCCGTCCTCCCT	60.978	63.158	0.00	0.00	37.94	4.20
1358	1659	3.998672	GGCCGGACGTCTTGGACA	61.999	66.667	25.14	0.00	32.09	4.02
1470	1777	1.141881	GGTGGCAGATGACGTCGAT	59.858	57.895	11.62	5.64	0.00	3.59
1536	1876	0.446616	TGTCGTCGATCTGGAACTCG	59.553	55.000	0.00	0.00	36.25	4.18
1653	1993	3.055530	AGAAGTCCATCTCATCGTTGCTT	60.056	43.478	0.00	0.00	0.00	3.91
1697	2037	4.334552	TGACAAACTATGCATGTCACCAT	58.665	39.130	14.51	0.00	46.11	3.55
1766	2140	0.660300	GTTTGCTTGCCTCGTTTCCG	60.660	55.000	0.00	0.00	0.00	4.30
1837	2211	9.511144	CTTACCTTTTGTTGTCGTTTTAATCTT	57.489	29.630	0.00	0.00	0.00	2.40
1849	2223	6.322712	TCATAGGTTTGCTTACCTTTTGTTGT	59.677	34.615	14.25	0.00	46.39	3.32
1863	2237	2.019984	CTTCCCTGCTCATAGGTTTGC	58.980	52.381	0.00	0.00	36.02	3.68
1940	3466	7.591006	ACACAGTTATTAGTTACATCCGTTG	57.409	36.000	0.00	0.00	0.00	4.10
2002	3559	1.883926	ACGAGTAACCAAATGTTGCCC	59.116	47.619	0.00	0.00	40.09	5.36
2109	3666	3.701241	TGAGTGCCGAAAATTTGACAAC	58.299	40.909	0.00	0.00	0.00	3.32
2122	3681	4.621068	AAATGTGACATATTGAGTGCCG	57.379	40.909	0.00	0.00	0.00	5.69
2254	3814	0.309612	AATTGTTTGACGCCCGTGAC	59.690	50.000	0.00	0.00	0.00	3.67
2276	3836	0.250770	AACTCCCTCAAACCTTCCGC	60.251	55.000	0.00	0.00	0.00	5.54
2427	3988	9.599866	TGTCCATTTTGTATAACTAGACATGAG	57.400	33.333	0.00	0.00	0.00	2.90
2499	4061	2.964209	TCTTCTTCCGGCTCTCCATAT	58.036	47.619	0.00	0.00	0.00	1.78
2500	4062	2.454336	TCTTCTTCCGGCTCTCCATA	57.546	50.000	0.00	0.00	0.00	2.74
2536	4098	2.704464	TCTTCAGCATGTCCATCCTG	57.296	50.000	0.00	0.00	37.40	3.86
2589	4151	9.234827	TCATGTTTGACAGACTTTTCATCATAT	57.765	29.630	0.00	0.00	0.00	1.78
2590	4152	8.620116	TCATGTTTGACAGACTTTTCATCATA	57.380	30.769	0.00	0.00	0.00	2.15
2599	4161	3.817647	GCCTCTTCATGTTTGACAGACTT	59.182	43.478	0.00	0.00	0.00	3.01
2606	4168	2.297033	GCTTTGGCCTCTTCATGTTTGA	59.703	45.455	3.32	0.00	0.00	2.69
2648	4210	1.586028	CCAACATCCGCCCAACAAG	59.414	57.895	0.00	0.00	0.00	3.16
2649	4211	1.905843	CCCAACATCCGCCCAACAA	60.906	57.895	0.00	0.00	0.00	2.83
2650	4212	2.282816	CCCAACATCCGCCCAACA	60.283	61.111	0.00	0.00	0.00	3.33
2651	4213	3.758931	GCCCAACATCCGCCCAAC	61.759	66.667	0.00	0.00	0.00	3.77
2656	4218	2.828549	ATTCCGCCCAACATCCGC	60.829	61.111	0.00	0.00	0.00	5.54
2657	4219	2.480610	CCATTCCGCCCAACATCCG	61.481	63.158	0.00	0.00	0.00	4.18
2658	4220	2.785425	GCCATTCCGCCCAACATCC	61.785	63.158	0.00	0.00	0.00	3.51
2659	4221	2.785425	GGCCATTCCGCCCAACATC	61.785	63.158	0.00	0.00	43.66	3.06
2660	4222	2.759560	GGCCATTCCGCCCAACAT	60.760	61.111	0.00	0.00	43.66	2.71

Based at the University of Bristol with support from BBSRC.

AutoCloner maintained by Alex Coulton.