AutoCloner

Multiple sequence alignment - TraesCS5A01G419000

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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	TraesCS5A01G419000	chr5A	100.000	2417	0	0	1	2417	606626334	606628750	0.000000e+00	4464.0
1	TraesCS5A01G419000	chr5A	88.977	880	58	11	825	1668	606538148	606539024	0.000000e+00	1051.0
2	TraesCS5A01G419000	chr5A	87.375	903	68	12	825	1686	606542006	606542903	0.000000e+00	994.0
3	TraesCS5A01G419000	chr5A	88.685	654	48	12	1687	2325	606544085	606544727	0.000000e+00	774.0
4	TraesCS5A01G419000	chr5A	89.362	47	3	2	2371	2417	606544745	606544789	9.330000e-05	58.4
5	TraesCS5A01G419000	chr5D	90.268	894	63	15	818	1709	485375291	485376162	0.000000e+00	1147.0
6	TraesCS5A01G419000	chr5D	89.667	871	52	19	825	1664	485354473	485355336	0.000000e+00	1075.0
7	TraesCS5A01G419000	chr5D	85.623	939	86	19	825	1743	485350653	485351562	0.000000e+00	941.0
8	TraesCS5A01G419000	chr5D	86.433	855	89	20	915	1759	485302242	485303079	0.000000e+00	911.0
9	TraesCS5A01G419000	chr5D	86.483	762	53	33	1666	2417	485822886	485823607	0.000000e+00	791.0
10	TraesCS5A01G419000	chr5D	86.447	760	55	22	1666	2417	485611612	485612331	0.000000e+00	789.0
11	TraesCS5A01G419000	chr5D	88.786	651	42	13	1687	2325	485379896	485380527	0.000000e+00	769.0
12	TraesCS5A01G419000	chr5D	85.050	796	60	22	1	780	485353639	485354391	0.000000e+00	756.0
13	TraesCS5A01G419000	chr5D	86.610	590	57	12	825	1398	485738104	485738687	1.220000e-177	632.0
14	TraesCS5A01G419000	chr5D	81.349	756	79	25	825	1537	485918062	485918798	2.100000e-155	558.0
15	TraesCS5A01G419000	chr5D	81.388	634	70	21	825	1426	485602513	485603130	7.820000e-130	473.0
16	TraesCS5A01G419000	chr5D	91.489	47	2	2	2371	2417	485380544	485380588	2.010000e-06	63.9
17	TraesCS5A01G419000	chr5B	91.224	809	41	13	825	1606	596933376	596934181	0.000000e+00	1074.0
18	TraesCS5A01G419000	chr5B	94.627	670	29	6	3	667	596921363	596922030	0.000000e+00	1031.0
19	TraesCS5A01G419000	chr5B	87.889	900	66	16	825	1709	596913978	596914849	0.000000e+00	1018.0
20	TraesCS5A01G419000	chr5B	87.241	917	76	9	825	1709	596918351	596919258	0.000000e+00	1007.0
21	TraesCS5A01G419000	chr5B	87.029	902	66	21	825	1683	596908738	596909631	0.000000e+00	970.0
22	TraesCS5A01G419000	chr5B	87.833	600	49	11	201	780	596917671	596918266	0.000000e+00	682.0
23	TraesCS5A01G419000	chr5B	83.860	601	50	21	1664	2257	596934444	596935004	1.650000e-146	529.0
24	TraesCS5A01G419000	chr5B	92.647	204	14	1	1	203	596917307	596917510	2.350000e-75	292.0
25	TraesCS5A01G419000	chr5B	89.831	118	5	4	666	780	596933181	596933294	6.960000e-31	145.0
26	TraesCS5A01G419000	chr5B	91.209	91	8	0	2327	2417	596935003	596935093	9.070000e-25	124.0
27	TraesCS5A01G419000	chr1A	83.471	605	98	2	1	603	577939650	577940254	1.620000e-156	562.0

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	TraesCS5A01G419000	chr5A	606626334	606628750	2416	False	4464.000000	4464	100.00000	1	2417	1	chr5A.!!$F1	2416
1	TraesCS5A01G419000	chr5A	606538148	606544789	6641	False	719.350000	1051	88.59975	825	2417	4	chr5A.!!$F2	1592
2	TraesCS5A01G419000	chr5D	485350653	485355336	4683	False	924.000000	1075	86.78000	1	1743	3	chr5D.!!$F7	1742
3	TraesCS5A01G419000	chr5D	485302242	485303079	837	False	911.000000	911	86.43300	915	1759	1	chr5D.!!$F1	844
4	TraesCS5A01G419000	chr5D	485822886	485823607	721	False	791.000000	791	86.48300	1666	2417	1	chr5D.!!$F5	751
5	TraesCS5A01G419000	chr5D	485611612	485612331	719	False	789.000000	789	86.44700	1666	2417	1	chr5D.!!$F3	751
6	TraesCS5A01G419000	chr5D	485375291	485380588	5297	False	659.966667	1147	90.18100	818	2417	3	chr5D.!!$F8	1599
7	TraesCS5A01G419000	chr5D	485738104	485738687	583	False	632.000000	632	86.61000	825	1398	1	chr5D.!!$F4	573
8	TraesCS5A01G419000	chr5D	485918062	485918798	736	False	558.000000	558	81.34900	825	1537	1	chr5D.!!$F6	712
9	TraesCS5A01G419000	chr5D	485602513	485603130	617	False	473.000000	473	81.38800	825	1426	1	chr5D.!!$F2	601
10	TraesCS5A01G419000	chr5B	596908738	596909631	893	False	970.000000	970	87.02900	825	1683	1	chr5B.!!$F1	858
11	TraesCS5A01G419000	chr5B	596913978	596922030	8052	False	806.000000	1031	90.04740	1	1709	5	chr5B.!!$F2	1708
12	TraesCS5A01G419000	chr5B	596933181	596935093	1912	False	468.000000	1074	89.03100	666	2417	4	chr5B.!!$F3	1751
13	TraesCS5A01G419000	chr1A	577939650	577940254	604	False	562.000000	562	83.47100	1	603	1	chr1A.!!$F1	602

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
370	4124	0.323629	TTTGTCGGTAAGAGGGGCAG	59.676	55.0	0.0	0.0	0.0	4.85	F
380	4134	0.343372	AGAGGGGCAGTTAGGATGGA	59.657	55.0	0.0	0.0	0.0	3.41	F

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability	Orientation
1362	9106	1.164411	GCACATTCACATTCGGGACA	58.836	50.0	0.0	0.00	0.0	4.02	R
1510	9274	2.094894	CACCGAGCTTGCATGTAAGAAG	59.905	50.0	25.5	14.83	0.0	2.85	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
31	3618	1.003839	TCACCCTGGCATGAACGTC	60.004	57.895	0.00	0.00	0.00	4.34
47	3634	2.469058	GTCGTCTACGGCAGTCTCT	58.531	57.895	1.62	0.00	44.43	3.10
74	3661	1.066929	TGTGTGCGATCACTGTAGCAT	60.067	47.619	10.70	0.00	43.49	3.79
139	3726	5.776744	AGAAGACAAATTGGATGAAACTGC	58.223	37.500	0.00	0.00	0.00	4.40
153	3740	8.049117	TGGATGAAACTGCTGAATCTTAATAGT	58.951	33.333	0.00	0.00	0.00	2.12
324	4078	1.003928	ACCCGGGTCTTATTGTGTTCC	59.996	52.381	24.16	0.00	0.00	3.62
329	4083	3.621214	CGGGTCTTATTGTGTTCCATCCA	60.621	47.826	0.00	0.00	0.00	3.41
342	4096	6.043590	TGTGTTCCATCCATAAGATAGCATCT	59.956	38.462	0.00	0.00	42.61	2.90
357	4111	3.062763	AGCATCTCACACTTCTTTGTCG	58.937	45.455	0.00	0.00	0.00	4.35
370	4124	0.323629	TTTGTCGGTAAGAGGGGCAG	59.676	55.000	0.00	0.00	0.00	4.85
380	4134	0.343372	AGAGGGGCAGTTAGGATGGA	59.657	55.000	0.00	0.00	0.00	3.41
387	4141	3.134458	GGCAGTTAGGATGGAATTCTCG	58.866	50.000	5.23	0.00	31.64	4.04
403	4157	3.784701	TCTCGTCTCTCAATAGTTGCC	57.215	47.619	0.00	0.00	0.00	4.52
444	4198	5.993055	TCCTCATCAAGCTTGACATTATCA	58.007	37.500	30.66	7.00	40.49	2.15
458	4212	5.091261	ACATTATCAGAGACAGGTGAACC	57.909	43.478	0.00	0.00	0.00	3.62
501	4255	9.975218	AAATTGGTAATATAGGTCTTCAGTTGT	57.025	29.630	0.00	0.00	0.00	3.32
523	4277	5.350365	TGTTCTTCACCAACAATAGTATCGC	59.650	40.000	0.00	0.00	30.67	4.58
530	4284	3.495983	CCAACAATAGTATCGCCATCCCA	60.496	47.826	0.00	0.00	0.00	4.37
533	4287	3.006967	ACAATAGTATCGCCATCCCACTC	59.993	47.826	0.00	0.00	0.00	3.51
538	4292	4.129737	CGCCATCCCACTCGACGT	62.130	66.667	0.00	0.00	0.00	4.34
539	4293	2.509336	GCCATCCCACTCGACGTG	60.509	66.667	0.00	7.72	43.41	4.49
555	4319	7.995998	CACTCGACGTGGAAAATTTTATTTTTG	59.004	33.333	2.75	0.00	40.02	2.44
558	4322	9.894783	TCGACGTGGAAAATTTTATTTTTGATA	57.105	25.926	2.75	0.00	0.00	2.15
595	4359	5.008019	GCGATGAGATGAACATATTTGGTGT	59.992	40.000	0.00	0.00	0.00	4.16
609	4373	2.593346	TGGTGTTGTTGTCATTTGGC	57.407	45.000	0.00	0.00	0.00	4.52
610	4374	1.137872	TGGTGTTGTTGTCATTTGGCC	59.862	47.619	0.00	0.00	0.00	5.36
615	4379	1.619654	TGTTGTCATTTGGCCTCCTG	58.380	50.000	3.32	0.00	0.00	3.86
712	4481	1.666011	GAGAACGTGTGGAGGCAGA	59.334	57.895	0.00	0.00	0.00	4.26
761	4534	2.489971	AGACGGTTGAGCAAATCGAAA	58.510	42.857	11.26	0.00	0.00	3.46
775	4548	3.345808	GAAACTGCAGCGTCGGCA	61.346	61.111	15.27	4.87	43.41	5.69
776	4549	3.579626	GAAACTGCAGCGTCGGCAC	62.580	63.158	15.27	0.00	43.41	5.01
777	4550	4.908687	AACTGCAGCGTCGGCACA	62.909	61.111	15.27	0.00	43.41	4.57
797	4570	1.446792	CGTCGGCACAGCTCTTCAT	60.447	57.895	0.00	0.00	0.00	2.57
799	4572	0.390340	GTCGGCACAGCTCTTCATCA	60.390	55.000	0.00	0.00	0.00	3.07
803	4576	2.030893	CGGCACAGCTCTTCATCAAAAA	60.031	45.455	0.00	0.00	0.00	1.94
805	4578	2.975851	GCACAGCTCTTCATCAAAAACG	59.024	45.455	0.00	0.00	0.00	3.60
806	4579	3.558505	CACAGCTCTTCATCAAAAACGG	58.441	45.455	0.00	0.00	0.00	4.44
807	4580	3.003689	CACAGCTCTTCATCAAAAACGGT	59.996	43.478	0.00	0.00	0.00	4.83
808	4581	3.632145	ACAGCTCTTCATCAAAAACGGTT	59.368	39.130	0.00	0.00	0.00	4.44
809	4582	3.976942	CAGCTCTTCATCAAAAACGGTTG	59.023	43.478	0.00	0.00	0.00	3.77
811	4584	4.023707	AGCTCTTCATCAAAAACGGTTGAG	60.024	41.667	0.00	0.00	40.72	3.02
812	4585	4.222114	CTCTTCATCAAAAACGGTTGAGC	58.778	43.478	0.00	0.00	40.72	4.26
813	4586	3.629855	TCTTCATCAAAAACGGTTGAGCA	59.370	39.130	0.00	0.00	40.72	4.26
814	4587	4.097135	TCTTCATCAAAAACGGTTGAGCAA	59.903	37.500	0.00	0.00	40.72	3.91
815	4588	4.377839	TCATCAAAAACGGTTGAGCAAA	57.622	36.364	0.00	0.00	40.72	3.68
816	4589	4.942852	TCATCAAAAACGGTTGAGCAAAT	58.057	34.783	0.00	0.00	40.72	2.32
820	4593	3.701532	AAAACGGTTGAGCAAATCGAA	57.298	38.095	11.26	0.00	0.00	3.71
822	4595	1.588674	ACGGTTGAGCAAATCGAACA	58.411	45.000	11.26	0.00	0.00	3.18
823	4596	2.151202	ACGGTTGAGCAAATCGAACAT	58.849	42.857	11.26	0.00	0.00	2.71
933	4769	4.750021	ATCAGAGCAGAAGCAACATCTA	57.250	40.909	0.00	0.00	45.49	1.98
1330	9074	2.823593	CGATGCCCGCCATTGTCA	60.824	61.111	0.00	0.00	33.29	3.58
1389	9133	2.742428	ATGTGAATGTGCCTATGCCT	57.258	45.000	0.00	0.00	36.33	4.75
1542	9474	3.792124	GCAAGCTCGGTGTTTTATATGCC	60.792	47.826	0.00	0.00	0.00	4.40
1551	9483	6.939730	TCGGTGTTTTATATGCCATGTATCAT	59.060	34.615	0.00	0.00	0.00	2.45
1565	9497	9.095700	TGCCATGTATCATAGTACCAGTAATTA	57.904	33.333	0.00	0.00	0.00	1.40
1623	9563	4.829064	TGGTAGTGTTTGAATGTTGAGC	57.171	40.909	0.00	0.00	0.00	4.26
1636	9576	1.606668	TGTTGAGCGTTTTGTCCCATC	59.393	47.619	0.00	0.00	0.00	3.51
1647	9587	6.238157	GCGTTTTGTCCCATCGTATGTATTTA	60.238	38.462	0.00	0.00	0.00	1.40
1750	13528	3.269592	TTGTCTCTTCCCTCCCAGTTA	57.730	47.619	0.00	0.00	0.00	2.24
1779	13557	7.424001	GGAAAATCATCTCTAATCCTGCAAAG	58.576	38.462	0.00	0.00	0.00	2.77
1832	13610	4.399004	TGCACCAAAAACTGCAATTACT	57.601	36.364	0.00	0.00	40.45	2.24
1855	13637	8.816640	ACTAAAAACAGTCCAAATTGCATAAG	57.183	30.769	0.00	0.00	0.00	1.73
1856	13638	8.637986	ACTAAAAACAGTCCAAATTGCATAAGA	58.362	29.630	0.00	0.00	0.00	2.10
1864	13646	6.820656	AGTCCAAATTGCATAAGAGAGTGTAG	59.179	38.462	0.00	0.00	0.00	2.74
1867	13649	8.318412	TCCAAATTGCATAAGAGAGTGTAGTTA	58.682	33.333	0.00	0.00	0.00	2.24
1991	13785	0.174617	AACTGCACCCAACAAAACGG	59.825	50.000	0.00	0.00	0.00	4.44
2034	13846	8.831550	GTTAATTGCACCCAAAAAGTGAAAATA	58.168	29.630	0.00	0.00	36.36	1.40
2067	13889	3.497118	TCCGCGCATGATAAACAAAAAG	58.503	40.909	8.75	0.00	0.00	2.27
2069	13891	3.300590	CCGCGCATGATAAACAAAAAGAC	59.699	43.478	8.75	0.00	0.00	3.01
2119	13951	9.999660	AGTTACTAAAACCCTTTTGAAAACAAA	57.000	25.926	0.00	0.00	34.19	2.83
2348	15540	0.984995	ACTAAGAGCCCGAAAAGCCT	59.015	50.000	0.00	0.00	0.00	4.58
2385	15754	7.264947	ACAAATTTGGAAGAAACAACACCTAG	58.735	34.615	21.74	0.00	0.00	3.02

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
31	3618	0.803117	TGAAGAGACTGCCGTAGACG	59.197	55.000	0.00	0.00	39.44	4.18
264	4017	1.343465	AGTTCGATCAACGGTTCTGGT	59.657	47.619	0.00	0.00	40.32	4.00
304	4057	1.003928	GGAACACAATAAGACCCGGGT	59.996	52.381	30.81	30.81	0.00	5.28
324	4078	6.699366	AGTGTGAGATGCTATCTTATGGATG	58.301	40.000	1.06	0.00	40.38	3.51
329	4083	8.263640	ACAAAGAAGTGTGAGATGCTATCTTAT	58.736	33.333	1.06	0.00	40.38	1.73
342	4096	4.500887	CCTCTTACCGACAAAGAAGTGTGA	60.501	45.833	0.00	0.00	32.77	3.58
357	4111	1.875488	TCCTAACTGCCCCTCTTACC	58.125	55.000	0.00	0.00	0.00	2.85
370	4124	5.067936	TGAGAGACGAGAATTCCATCCTAAC	59.932	44.000	0.65	0.00	0.00	2.34
380	4134	5.112686	GGCAACTATTGAGAGACGAGAATT	58.887	41.667	0.00	0.00	0.00	2.17
387	4141	2.961526	TCCGGCAACTATTGAGAGAC	57.038	50.000	0.00	0.00	0.00	3.36
403	4157	0.734889	GATGCCAAAGGTGACATCCG	59.265	55.000	0.00	0.00	34.22	4.18
444	4198	4.503714	TCTTTTTGGTTCACCTGTCTCT	57.496	40.909	0.00	0.00	36.82	3.10
501	4255	4.873827	GGCGATACTATTGTTGGTGAAGAA	59.126	41.667	0.00	0.00	0.00	2.52
530	4284	7.916450	TCAAAAATAAAATTTTCCACGTCGAGT	59.084	29.630	6.72	0.00	30.31	4.18
549	4313	9.985730	ATCGCCAATGATAAACATATCAAAAAT	57.014	25.926	2.93	0.00	39.59	1.82
555	4319	7.601073	TCTCATCGCCAATGATAAACATATC	57.399	36.000	0.00	0.00	43.44	1.63
558	4322	5.999600	TCATCTCATCGCCAATGATAAACAT	59.000	36.000	0.00	0.00	43.44	2.71
565	4329	3.264998	TGTTCATCTCATCGCCAATGA	57.735	42.857	0.00	0.00	42.21	2.57
578	4342	7.144661	TGACAACAACACCAAATATGTTCATC	58.855	34.615	0.00	0.00	38.22	2.92
582	4346	7.226325	CCAAATGACAACAACACCAAATATGTT	59.774	33.333	0.00	0.00	40.95	2.71
595	4359	1.962807	CAGGAGGCCAAATGACAACAA	59.037	47.619	5.01	0.00	0.00	2.83
610	4374	8.620174	ACCTCTGGTAGAACCTATAGCAGGAG	62.620	50.000	11.08	7.88	44.85	3.69
615	4379	4.471548	TGACCTCTGGTAGAACCTATAGC	58.528	47.826	0.00	0.00	39.58	2.97
622	4386	2.094182	TGCGATTGACCTCTGGTAGAAC	60.094	50.000	0.00	0.00	35.25	3.01
633	4397	0.810648	TGCCATTCTTGCGATTGACC	59.189	50.000	0.00	0.00	0.00	4.02
776	4549	4.731612	AGAGCTGTGCCGACGCTG	62.732	66.667	0.00	0.00	33.81	5.18
777	4550	3.923563	GAAGAGCTGTGCCGACGCT	62.924	63.158	0.00	0.00	35.54	5.07
778	4551	3.482783	GAAGAGCTGTGCCGACGC	61.483	66.667	0.00	0.00	0.00	5.19
779	4552	1.416813	GATGAAGAGCTGTGCCGACG	61.417	60.000	0.00	0.00	0.00	5.12
780	4553	0.390340	TGATGAAGAGCTGTGCCGAC	60.390	55.000	0.00	0.00	0.00	4.79
781	4554	0.321346	TTGATGAAGAGCTGTGCCGA	59.679	50.000	0.00	0.00	0.00	5.54
782	4555	1.159285	TTTGATGAAGAGCTGTGCCG	58.841	50.000	0.00	0.00	0.00	5.69
783	4556	3.311966	GTTTTTGATGAAGAGCTGTGCC	58.688	45.455	0.00	0.00	0.00	5.01
784	4557	2.975851	CGTTTTTGATGAAGAGCTGTGC	59.024	45.455	0.00	0.00	0.00	4.57
785	4558	3.003689	ACCGTTTTTGATGAAGAGCTGTG	59.996	43.478	0.00	0.00	0.00	3.66
786	4559	3.214328	ACCGTTTTTGATGAAGAGCTGT	58.786	40.909	0.00	0.00	0.00	4.40
797	4570	3.065510	TCGATTTGCTCAACCGTTTTTGA	59.934	39.130	0.00	0.00	34.30	2.69
799	4572	3.701532	TCGATTTGCTCAACCGTTTTT	57.298	38.095	0.00	0.00	0.00	1.94
803	4576	1.588674	TGTTCGATTTGCTCAACCGT	58.411	45.000	0.00	0.00	0.00	4.83
805	4578	2.253603	GCATGTTCGATTTGCTCAACC	58.746	47.619	7.31	0.00	33.61	3.77
806	4579	2.658325	GTGCATGTTCGATTTGCTCAAC	59.342	45.455	13.65	3.33	37.28	3.18
807	4580	2.665245	CGTGCATGTTCGATTTGCTCAA	60.665	45.455	13.65	0.00	37.28	3.02
808	4581	1.136000	CGTGCATGTTCGATTTGCTCA	60.136	47.619	13.65	0.00	37.28	4.26
809	4582	1.527696	CGTGCATGTTCGATTTGCTC	58.472	50.000	13.65	10.09	37.28	4.26
811	4584	0.728803	TGCGTGCATGTTCGATTTGC	60.729	50.000	7.93	7.56	36.91	3.68
812	4585	0.976963	GTGCGTGCATGTTCGATTTG	59.023	50.000	7.93	0.00	0.00	2.32
813	4586	0.590682	TGTGCGTGCATGTTCGATTT	59.409	45.000	7.93	0.00	0.00	2.17
814	4587	0.166597	CTGTGCGTGCATGTTCGATT	59.833	50.000	7.93	0.00	0.00	3.34
815	4588	0.670239	TCTGTGCGTGCATGTTCGAT	60.670	50.000	7.93	0.00	0.00	3.59
816	4589	1.300542	TCTGTGCGTGCATGTTCGA	60.301	52.632	7.93	0.00	0.00	3.71
820	4593	0.518636	GAATGTCTGTGCGTGCATGT	59.481	50.000	7.93	0.00	0.00	3.21
822	4595	1.081892	GAGAATGTCTGTGCGTGCAT	58.918	50.000	0.00	0.00	0.00	3.96
823	4596	0.249826	TGAGAATGTCTGTGCGTGCA	60.250	50.000	0.00	0.00	0.00	4.57
1224	8968	2.692368	ACGATGGAGGGCATGGGT	60.692	61.111	0.00	0.00	0.00	4.51
1362	9106	1.164411	GCACATTCACATTCGGGACA	58.836	50.000	0.00	0.00	0.00	4.02
1510	9274	2.094894	CACCGAGCTTGCATGTAAGAAG	59.905	50.000	25.50	14.83	0.00	2.85
1596	9536	7.644490	TCAACATTCAAACACTACCAATACAC	58.356	34.615	0.00	0.00	0.00	2.90
1679	12268	5.642063	TGCAAGACAAGTATAACTTACCTGC	59.358	40.000	10.24	10.24	36.03	4.85
1680	12269	7.849804	ATGCAAGACAAGTATAACTTACCTG	57.150	36.000	0.00	0.00	36.03	4.00
1709	13487	7.656137	AGACAATGTAACATCACTCGTTAACTT	59.344	33.333	3.71	0.00	30.96	2.66
1750	13528	6.520272	CAGGATTAGAGATGATTTTCCGAGT	58.480	40.000	0.00	0.00	0.00	4.18
1832	13610	8.855110	TCTCTTATGCAATTTGGACTGTTTTTA	58.145	29.630	0.00	0.00	0.00	1.52
2119	13951	9.500785	CCCCAGAATGTTTGTGTTTATTTTTAT	57.499	29.630	0.00	0.00	0.00	1.40
2120	13952	8.705594	TCCCCAGAATGTTTGTGTTTATTTTTA	58.294	29.630	0.00	0.00	0.00	1.52
2121	13953	7.569240	TCCCCAGAATGTTTGTGTTTATTTTT	58.431	30.769	0.00	0.00	0.00	1.94
2122	13954	7.130681	TCCCCAGAATGTTTGTGTTTATTTT	57.869	32.000	0.00	0.00	0.00	1.82
2123	13955	6.739331	TCCCCAGAATGTTTGTGTTTATTT	57.261	33.333	0.00	0.00	0.00	1.40
2142	13974	2.418609	GCAGGTACAAATGCATTTCCCC	60.419	50.000	21.70	19.24	42.11	4.81
2348	15540	5.359194	TCCAAATTTGTTGCCTTTTACCA	57.641	34.783	16.73	0.00	0.00	3.25
2385	15754	4.906437	GCATCGAGAAGAAACACAAAGAAC	59.094	41.667	0.00	0.00	0.00	3.01

Based at the University of Bristol with support from BBSRC.

AutoCloner maintained by Alex Coulton.