AutoCloner

Multiple sequence alignment - TraesCS3A01G231300

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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	TraesCS3A01G231300	chr3A	100.000	3079	0	0	1	3079	431742267	431739189	0.000000e+00	5686
1	TraesCS3A01G231300	chr3D	92.402	2356	112	18	738	3079	302946944	302949246	0.000000e+00	3297
2	TraesCS3A01G231300	chr3D	94.290	648	18	9	1	639	302946119	302946756	0.000000e+00	974
3	TraesCS3A01G231300	chr3D	91.837	98	8	0	2982	3079	302949278	302949375	1.490000e-28	137
4	TraesCS3A01G231300	chr3B	92.604	2312	126	24	770	3073	418440453	418438179	0.000000e+00	3280
5	TraesCS3A01G231300	chr3B	94.087	575	17	4	1	575	418442949	418442392	0.000000e+00	857
6	TraesCS3A01G231300	chr1D	77.753	890	121	37	1112	1964	478292745	478291896	2.780000e-130	475
7	TraesCS3A01G231300	chr1D	83.482	224	35	1	2429	2650	398920336	398920559	1.120000e-49	207
8	TraesCS3A01G231300	chr1D	79.487	234	34	14	2098	2326	51560603	51560379	1.480000e-33	154
9	TraesCS3A01G231300	chr1B	83.401	494	52	15	41	526	636480184	636479713	6.100000e-117	431
10	TraesCS3A01G231300	chr1B	83.807	352	44	8	1624	1964	666079236	666078887	3.830000e-84	322
11	TraesCS3A01G231300	chr1B	77.647	510	84	19	1112	1600	666079727	666079227	1.810000e-72	283
12	TraesCS3A01G231300	chr1B	79.911	224	42	2	2429	2650	534219287	534219509	8.840000e-36	161
13	TraesCS3A01G231300	chr1A	84.273	337	40	8	1639	1964	574499196	574498862	1.780000e-82	316
14	TraesCS3A01G231300	chr1A	84.791	263	40	0	1338	1600	574499464	574499202	6.550000e-67	265
15	TraesCS3A01G231300	chr1A	80.357	224	40	2	2429	2650	495644349	495644570	1.900000e-37	167
16	TraesCS3A01G231300	chr7B	82.353	221	33	6	2098	2314	602638908	602639126	1.460000e-43	187
17	TraesCS3A01G231300	chr7B	80.184	217	36	6	2414	2627	378674534	378674746	4.110000e-34	156
18	TraesCS3A01G231300	chr5D	81.092	238	39	6	2098	2330	435163035	435163271	5.240000e-43	185
19	TraesCS3A01G231300	chr5D	83.432	169	22	6	2482	2648	543226379	543226543	5.320000e-33	152
20	TraesCS3A01G231300	chr4B	80.786	229	38	6	2098	2323	574168725	574168500	1.130000e-39	174
21	TraesCS3A01G231300	chr4D	79.825	228	41	5	2098	2322	459382653	459382428	8.840000e-36	161
22	TraesCS3A01G231300	chr4D	79.464	224	41	5	2102	2323	354037574	354037794	1.480000e-33	154
23	TraesCS3A01G231300	chr4D	79.167	216	37	7	2098	2310	324896389	324896179	3.200000e-30	143
24	TraesCS3A01G231300	chr5B	84.049	163	20	6	2482	2642	684618924	684619082	5.320000e-33	152
25	TraesCS3A01G231300	chr2A	79.904	209	36	6	2436	2639	5786261	5786468	6.880000e-32	148

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	TraesCS3A01G231300	chr3A	431739189	431742267	3078	True	5686.000000	5686	100.0000	1	3079	1	chr3A.!!$R1	3078
1	TraesCS3A01G231300	chr3D	302946119	302949375	3256	False	1469.333333	3297	92.8430	1	3079	3	chr3D.!!$F1	3078
2	TraesCS3A01G231300	chr3B	418438179	418442949	4770	True	2068.500000	3280	93.3455	1	3073	2	chr3B.!!$R1	3072
3	TraesCS3A01G231300	chr1D	478291896	478292745	849	True	475.000000	475	77.7530	1112	1964	1	chr1D.!!$R2	852
4	TraesCS3A01G231300	chr1B	666078887	666079727	840	True	302.500000	322	80.7270	1112	1964	2	chr1B.!!$R2	852
5	TraesCS3A01G231300	chr1A	574498862	574499464	602	True	290.500000	316	84.5320	1338	1964	2	chr1A.!!$R1	626

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
451	452	0.111253	AGCTTAGCTGGGCACAGTTT	59.889	50.0	19.18	9.12	46.62	2.66	F
861	2663	0.183492	ACAACAGAGCCAAGCCAGAA	59.817	50.0	0.00	0.00	0.00	3.02	F

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability	Orientation
1990	3840	0.248054	AACAGTTCAAAGCACGCACG	60.248	50.000	0.0	0.0	0.0	5.34	R
2304	4160	1.133792	CCCCGTCCTGATTTATTGGCT	60.134	52.381	0.0	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
78	79	2.668457	CTGCGTATGTCTCTGAACCAAC	59.332	50.000	0.00	0.00	0.00	3.77
93	94	1.765314	ACCAACTCTCAGCTCACACTT	59.235	47.619	0.00	0.00	0.00	3.16
140	141	2.522372	TCGAGTTAACTTCGCTCTCG	57.478	50.000	10.02	7.17	45.85	4.04
315	316	3.763897	GGAATTCACCTACATTGTTGGCT	59.236	43.478	15.91	2.62	31.94	4.75
422	423	0.112995	ACACAGTTGACATGGGGCAT	59.887	50.000	0.00	0.00	0.00	4.40
427	428	1.378382	TTGACATGGGGCATGGACG	60.378	57.895	0.00	0.00	45.16	4.79
428	429	2.516930	GACATGGGGCATGGACGG	60.517	66.667	0.00	0.00	45.16	4.79
429	430	3.014538	ACATGGGGCATGGACGGA	61.015	61.111	0.00	0.00	45.16	4.69
431	432	3.809013	ATGGGGCATGGACGGACC	61.809	66.667	0.00	0.00	39.54	4.46
451	452	0.111253	AGCTTAGCTGGGCACAGTTT	59.889	50.000	19.18	9.12	46.62	2.66
539	540	6.260493	ACATCTCTGTAATCTACTCCACGTAC	59.740	42.308	0.00	0.00	32.49	3.67
540	541	5.737860	TCTCTGTAATCTACTCCACGTACA	58.262	41.667	0.00	0.00	0.00	2.90
541	542	5.583854	TCTCTGTAATCTACTCCACGTACAC	59.416	44.000	0.00	0.00	0.00	2.90
584	1556	5.751586	TGGACAAATCCTTACTTGTATCCC	58.248	41.667	0.00	0.00	46.43	3.85
605	1577	3.946201	AGTTCTGGCTGCCTGCGT	61.946	61.111	21.03	4.41	44.05	5.24
606	1578	2.980233	GTTCTGGCTGCCTGCGTT	60.980	61.111	21.03	0.00	44.05	4.84
639	2300	1.273606	ACGCAGAGATGCAGTACAACT	59.726	47.619	0.00	0.00	33.39	3.16
686	2488	9.342308	TGGAGGTGAGTATGAATTTCATTTATC	57.658	33.333	16.62	12.34	38.26	1.75
687	2489	9.342308	GGAGGTGAGTATGAATTTCATTTATCA	57.658	33.333	16.62	14.37	38.26	2.15
698	2500	9.304731	TGAATTTCATTTATCAAATGCTACAGC	57.695	29.630	6.73	0.00	46.09	4.40
720	2522	4.323751	CACTTAATCGAAAACGCTACAGC	58.676	43.478	0.00	0.00	37.78	4.40
732	2534	1.351153	GCTACAGCACTCGTTTCTCC	58.649	55.000	0.00	0.00	41.59	3.71
734	2536	2.600731	CTACAGCACTCGTTTCTCCTG	58.399	52.381	0.00	0.00	0.00	3.86
735	2537	0.601311	ACAGCACTCGTTTCTCCTGC	60.601	55.000	0.00	0.00	0.00	4.85
736	2538	1.373497	AGCACTCGTTTCTCCTGCG	60.373	57.895	0.00	0.00	32.92	5.18
737	2539	1.664965	GCACTCGTTTCTCCTGCGT	60.665	57.895	0.00	0.00	0.00	5.24
738	2540	1.891060	GCACTCGTTTCTCCTGCGTG	61.891	60.000	0.00	0.00	0.00	5.34
739	2541	1.664965	ACTCGTTTCTCCTGCGTGC	60.665	57.895	0.00	0.00	0.00	5.34
740	2542	2.357034	TCGTTTCTCCTGCGTGCC	60.357	61.111	0.00	0.00	0.00	5.01
741	2543	2.357517	CGTTTCTCCTGCGTGCCT	60.358	61.111	0.00	0.00	0.00	4.75
742	2544	2.671177	CGTTTCTCCTGCGTGCCTG	61.671	63.158	0.00	0.00	0.00	4.85
743	2545	2.669569	TTTCTCCTGCGTGCCTGC	60.670	61.111	0.00	0.00	0.00	4.85
795	2597	1.375268	GCAGAGGCACAGACTCACC	60.375	63.158	2.30	0.00	40.81	4.02
801	2603	2.740055	CACAGACTCACCGCAGCC	60.740	66.667	0.00	0.00	0.00	4.85
839	2641	1.129326	CGACCTCGAGACACAACAAC	58.871	55.000	15.71	0.00	43.02	3.32
855	2657	1.745087	ACAACACACAACAGAGCCAAG	59.255	47.619	0.00	0.00	0.00	3.61
859	2661	0.820891	ACACAACAGAGCCAAGCCAG	60.821	55.000	0.00	0.00	0.00	4.85
860	2662	0.535780	CACAACAGAGCCAAGCCAGA	60.536	55.000	0.00	0.00	0.00	3.86
861	2663	0.183492	ACAACAGAGCCAAGCCAGAA	59.817	50.000	0.00	0.00	0.00	3.02
862	2664	1.321474	CAACAGAGCCAAGCCAGAAA	58.679	50.000	0.00	0.00	0.00	2.52
863	2665	1.000938	CAACAGAGCCAAGCCAGAAAC	60.001	52.381	0.00	0.00	0.00	2.78
864	2666	0.183492	ACAGAGCCAAGCCAGAAACA	59.817	50.000	0.00	0.00	0.00	2.83
865	2667	1.321474	CAGAGCCAAGCCAGAAACAA	58.679	50.000	0.00	0.00	0.00	2.83
866	2668	1.268899	CAGAGCCAAGCCAGAAACAAG	59.731	52.381	0.00	0.00	0.00	3.16
867	2669	0.600057	GAGCCAAGCCAGAAACAAGG	59.400	55.000	0.00	0.00	0.00	3.61
868	2670	0.829182	AGCCAAGCCAGAAACAAGGG	60.829	55.000	0.00	0.00	0.00	3.95
869	2671	1.820010	GCCAAGCCAGAAACAAGGGG	61.820	60.000	0.00	0.00	0.00	4.79
986	2788	1.627864	ACAAAACCCCATTCCTTCCG	58.372	50.000	0.00	0.00	0.00	4.30
987	2789	1.133294	ACAAAACCCCATTCCTTCCGT	60.133	47.619	0.00	0.00	0.00	4.69
1616	3455	4.740822	GCATTCCCCGGCACCACT	62.741	66.667	0.00	0.00	0.00	4.00
1617	3456	2.751436	CATTCCCCGGCACCACTG	60.751	66.667	0.00	0.00	0.00	3.66
1618	3457	4.740822	ATTCCCCGGCACCACTGC	62.741	66.667	0.00	0.00	43.41	4.40
1802	3644	3.463585	GGGGTCATACCGGCGTCA	61.464	66.667	6.01	0.00	39.83	4.35
1905	3747	1.153369	ATGATCAACCCGGACAGCG	60.153	57.895	0.73	0.00	0.00	5.18
1990	3840	0.819259	TGCAGTTTGCTGGGAGTGTC	60.819	55.000	2.48	0.00	45.31	3.67
2016	3866	4.490799	GCGTGCTTTGAACTGTTTTTCTTG	60.491	41.667	0.00	0.00	0.00	3.02
2020	3870	5.637387	TGCTTTGAACTGTTTTTCTTGTTCC	59.363	36.000	0.00	0.00	38.29	3.62
2039	3889	3.692690	TCCTTGTGTTTTATGTAGCCCC	58.307	45.455	0.00	0.00	0.00	5.80
2105	3955	6.368516	GCTACTACTAGTACATCCTACTTCCG	59.631	46.154	0.00	0.00	0.00	4.30
2109	3959	3.666345	AGTACATCCTACTTCCGTCCT	57.334	47.619	0.00	0.00	0.00	3.85
2121	3971	7.343833	TCCTACTTCCGTCCTGATTTATTAGTT	59.656	37.037	0.00	0.00	0.00	2.24
2126	3976	6.138263	TCCGTCCTGATTTATTAGTTCCCTA	58.862	40.000	0.00	0.00	0.00	3.53
2243	4098	9.839817	TGTGATCCAAGGATATAATTTTTCGTA	57.160	29.630	0.68	0.00	34.60	3.43
2304	4160	7.519032	AAATTCGACACAAAATAAGAAGGGA	57.481	32.000	0.00	0.00	0.00	4.20
2348	4205	5.588845	TGGTATGAAAACCAGGAATGGAAT	58.411	37.500	0.31	0.00	44.68	3.01
2395	4252	5.066375	ACAATATTTGTGTGCGTATGCAGAT	59.934	36.000	10.60	0.00	47.00	2.90
2419	4276	4.687483	ACGGTTATAAGAACCTCAAACGTG	59.313	41.667	4.53	0.00	40.67	4.49
2424	4281	2.038387	AGAACCTCAAACGTGTGCTT	57.962	45.000	0.00	0.00	0.00	3.91
2431	4288	4.213482	ACCTCAAACGTGTGCTTCTATTTC	59.787	41.667	0.00	0.00	0.00	2.17
2433	4290	5.637810	CCTCAAACGTGTGCTTCTATTTCTA	59.362	40.000	0.00	0.00	0.00	2.10
2514	4371	5.981174	TGCGACACTAGTTCAAATGTAAAC	58.019	37.500	0.00	0.00	0.00	2.01
2599	4456	0.393820	TCGTTGTCCCCTTTAAGCGT	59.606	50.000	0.00	0.00	0.00	5.07
2601	4458	1.607251	CGTTGTCCCCTTTAAGCGTCT	60.607	52.381	0.00	0.00	0.00	4.18
2644	4501	6.942532	TTTCTTAAGTTGCTCATGAGTTGT	57.057	33.333	23.38	7.94	0.00	3.32
2654	4511	3.256558	CTCATGAGTTGTTCGATGCTCA	58.743	45.455	14.95	9.88	41.43	4.26
2693	4552	6.800072	TTGTTTTCATTGTCCCCTTTAAGT	57.200	33.333	0.00	0.00	0.00	2.24
2703	4562	1.569072	CCCCTTTAAGTGCCCATAGGT	59.431	52.381	0.00	0.00	34.57	3.08
2704	4563	2.024369	CCCCTTTAAGTGCCCATAGGTT	60.024	50.000	0.00	0.00	34.57	3.50
2705	4564	3.565670	CCCCTTTAAGTGCCCATAGGTTT	60.566	47.826	0.00	0.00	34.57	3.27
2795	4654	8.044908	TCTTAGTTTTCTTGTGTTTAGAGGTGT	58.955	33.333	0.00	0.00	0.00	4.16
2843	4702	0.179051	AAAGGGACCAAACACGCGTA	60.179	50.000	13.44	0.00	0.00	4.42
2844	4703	0.179051	AAGGGACCAAACACGCGTAA	60.179	50.000	13.44	0.00	0.00	3.18
2849	4708	3.058363	GGGACCAAACACGCGTAAAATAA	60.058	43.478	13.44	0.00	0.00	1.40
2860	4719	5.291128	CACGCGTAAAATAAAGAGGACTGAT	59.709	40.000	13.44	0.00	0.00	2.90
3030	4891	1.069906	CAAAGGAGTCCAAAGCGTTCG	60.070	52.381	12.86	0.00	0.00	3.95
3036	4897	1.066093	TCCAAAGCGTTCGACGACA	59.934	52.632	10.82	0.00	46.05	4.35
3038	4899	0.511221	CCAAAGCGTTCGACGACATT	59.489	50.000	10.82	0.00	46.05	2.71
3056	4917	1.890876	TTTGGTATGACTGCGCAGTT	58.109	45.000	40.77	29.16	42.66	3.16

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
78	79	2.096220	ATGCAAGTGTGAGCTGAGAG	57.904	50.000	0.00	0.00	0.00	3.20
93	94	6.262944	CCTATTCAGGTGCACTAAATAATGCA	59.737	38.462	17.98	0.00	40.30	3.96
130	131	2.876645	GCGTGACCGAGAGCGAAG	60.877	66.667	0.00	0.00	40.82	3.79
140	141	4.980805	TCTTGCGTGGGCGTGACC	62.981	66.667	0.00	0.00	44.10	4.02
315	316	3.448093	TGGCAACCAGATAATGAACCA	57.552	42.857	0.00	0.00	0.00	3.67
422	423	1.609501	AGCTAAGCTGGTCCGTCCA	60.610	57.895	0.00	0.00	45.01	4.02
432	433	0.111253	AAACTGTGCCCAGCTAAGCT	59.889	50.000	8.46	0.00	42.81	3.74
433	434	0.242017	CAAACTGTGCCCAGCTAAGC	59.758	55.000	0.00	0.21	42.81	3.09
434	435	1.537202	GACAAACTGTGCCCAGCTAAG	59.463	52.381	0.00	0.00	42.81	2.18
435	436	1.133945	TGACAAACTGTGCCCAGCTAA	60.134	47.619	0.00	0.00	42.81	3.09
451	452	2.630098	CCCTTCACTCTCAGAGTTGACA	59.370	50.000	3.92	0.00	41.37	3.58
565	566	3.564225	GCGGGGATACAAGTAAGGATTTG	59.436	47.826	0.00	0.00	39.74	2.32
655	2454	4.744795	ATTCATACTCACCTCCAGACAC	57.255	45.455	0.00	0.00	0.00	3.67
706	2508	0.091344	CGAGTGCTGTAGCGTTTTCG	59.909	55.000	0.00	2.75	45.83	3.46
707	2509	1.137513	ACGAGTGCTGTAGCGTTTTC	58.862	50.000	0.00	0.00	45.83	2.29
708	2510	1.578583	AACGAGTGCTGTAGCGTTTT	58.421	45.000	0.00	0.00	43.49	2.43
712	2514	0.985549	GAGAAACGAGTGCTGTAGCG	59.014	55.000	0.00	0.00	45.83	4.26
720	2522	1.891060	GCACGCAGGAGAAACGAGTG	61.891	60.000	0.00	0.00	0.00	3.51
839	2641	1.102809	TGGCTTGGCTCTGTTGTGTG	61.103	55.000	0.00	0.00	0.00	3.82
855	2657	0.679505	GTTTCCCCCTTGTTTCTGGC	59.320	55.000	0.00	0.00	0.00	4.85
859	2661	3.028130	TGTCTTGTTTCCCCCTTGTTTC	58.972	45.455	0.00	0.00	0.00	2.78
860	2662	3.031013	CTGTCTTGTTTCCCCCTTGTTT	58.969	45.455	0.00	0.00	0.00	2.83
861	2663	2.243736	TCTGTCTTGTTTCCCCCTTGTT	59.756	45.455	0.00	0.00	0.00	2.83
862	2664	1.850345	TCTGTCTTGTTTCCCCCTTGT	59.150	47.619	0.00	0.00	0.00	3.16
863	2665	2.508526	CTCTGTCTTGTTTCCCCCTTG	58.491	52.381	0.00	0.00	0.00	3.61
864	2666	1.202940	GCTCTGTCTTGTTTCCCCCTT	60.203	52.381	0.00	0.00	0.00	3.95
865	2667	0.402121	GCTCTGTCTTGTTTCCCCCT	59.598	55.000	0.00	0.00	0.00	4.79
866	2668	0.402121	AGCTCTGTCTTGTTTCCCCC	59.598	55.000	0.00	0.00	0.00	5.40
867	2669	1.072331	TGAGCTCTGTCTTGTTTCCCC	59.928	52.381	16.19	0.00	0.00	4.81
868	2670	2.147150	GTGAGCTCTGTCTTGTTTCCC	58.853	52.381	16.19	0.00	0.00	3.97
869	2671	2.545946	GTGTGAGCTCTGTCTTGTTTCC	59.454	50.000	16.19	0.00	0.00	3.13
986	2788	4.383552	GCCTATGTATGGAGGATGATGGAC	60.384	50.000	0.00	0.00	34.46	4.02
987	2789	3.776969	GCCTATGTATGGAGGATGATGGA	59.223	47.826	0.00	0.00	34.46	3.41
1174	2977	2.813908	CGAAACCTTCCTCCGCGG	60.814	66.667	22.12	22.12	0.00	6.46
1421	3260	4.118995	CCGTACAGCGTGCCGGTA	62.119	66.667	1.90	0.00	39.32	4.02
1532	3371	2.496817	GAGGCCATCTCGCGAACT	59.503	61.111	11.33	1.35	32.18	3.01
1990	3840	0.248054	AACAGTTCAAAGCACGCACG	60.248	50.000	0.00	0.00	0.00	5.34
2016	3866	4.082408	GGGGCTACATAAAACACAAGGAAC	60.082	45.833	0.00	0.00	0.00	3.62
2020	3870	5.722021	AAAGGGGCTACATAAAACACAAG	57.278	39.130	0.00	0.00	0.00	3.16
2039	3889	7.816031	CCTGCATTATTAAGGATGCCATAAAAG	59.184	37.037	18.01	10.41	46.16	2.27
2064	3914	7.110043	AGTAGTAGCTCTAATAAACACCACC	57.890	40.000	0.00	0.00	0.00	4.61
2261	4116	7.028962	CGAATTTTGACCATAGCTTTGATCAA	58.971	34.615	9.67	9.67	0.00	2.57
2263	4118	6.688813	GTCGAATTTTGACCATAGCTTTGATC	59.311	38.462	5.65	0.00	0.00	2.92
2304	4160	1.133792	CCCCGTCCTGATTTATTGGCT	60.134	52.381	0.00	0.00	0.00	4.75
2348	4205	3.306917	TCGCTTCGAGGAATGTTTACA	57.693	42.857	0.00	0.00	0.00	2.41
2395	4252	5.863397	CACGTTTGAGGTTCTTATAACCGTA	59.137	40.000	1.46	0.00	44.82	4.02
2404	4261	2.038387	AGCACACGTTTGAGGTTCTT	57.962	45.000	5.75	0.00	0.00	2.52
2419	4276	8.349983	TGTTTTGGACTTTAGAAATAGAAGCAC	58.650	33.333	0.00	0.00	0.00	4.40
2424	4281	9.621629	TCAAGTGTTTTGGACTTTAGAAATAGA	57.378	29.630	0.00	0.00	31.05	1.98
2433	4290	9.476202	GCTATTATTTCAAGTGTTTTGGACTTT	57.524	29.630	0.00	0.00	31.05	2.66
2471	4328	8.279800	TGTCGCATTTGAATATTAACTAATCGG	58.720	33.333	0.00	0.00	0.00	4.18
2476	4333	9.811995	ACTAGTGTCGCATTTGAATATTAACTA	57.188	29.630	0.00	0.00	0.00	2.24
2482	4339	7.609760	TTGAACTAGTGTCGCATTTGAATAT	57.390	32.000	0.00	0.00	0.00	1.28
2547	4404	7.199766	TGTGCGAGTTGAATTCAAGTTTAAAT	58.800	30.769	25.50	2.74	39.43	1.40
2644	4501	1.980951	GCAACCGCATGAGCATCGAA	61.981	55.000	0.00	0.00	42.27	3.71
2713	4572	7.534085	AAATGCAATGCTCATAGTGAAAATG	57.466	32.000	6.82	0.00	0.00	2.32
2714	4573	8.556213	AAAAATGCAATGCTCATAGTGAAAAT	57.444	26.923	6.82	0.00	0.00	1.82
2786	4645	5.319043	AGGTTGATCCAAAACACCTCTAA	57.681	39.130	0.00	0.00	39.02	2.10
2795	4654	4.733077	TTGGTCCTAGGTTGATCCAAAA	57.267	40.909	9.08	0.00	39.02	2.44
2844	4703	9.930158	AGTCTAGTCTATCAGTCCTCTTTATTT	57.070	33.333	0.00	0.00	0.00	1.40
2849	4708	7.447238	GCATAAGTCTAGTCTATCAGTCCTCTT	59.553	40.741	0.00	0.00	0.00	2.85
2860	4719	6.042093	CCTCCCAAATGCATAAGTCTAGTCTA	59.958	42.308	0.00	0.00	0.00	2.59
2900	4759	5.066505	GGTGGTATTAGATTTGGAGCACTTG	59.933	44.000	0.00	0.00	38.32	3.16
2936	4797	3.250744	TCGTTCGAATCGCTTGAAAGAT	58.749	40.909	0.00	0.00	0.00	2.40
3030	4891	2.029244	CGCAGTCATACCAAATGTCGTC	59.971	50.000	0.00	0.00	0.00	4.20
3036	4897	2.113860	ACTGCGCAGTCATACCAAAT	57.886	45.000	36.44	10.78	36.92	2.32
3038	4899	1.155889	CAACTGCGCAGTCATACCAA	58.844	50.000	40.60	0.00	41.58	3.67

Based at the University of Bristol with support from BBSRC.

AutoCloner maintained by Alex Coulton.