AutoCloner

Multiple sequence alignment - TraesCS5D01G539300

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	TraesCS5D01G539300	chr5D	100.000	6604	0	0	1	6604	551022005	551015402	0.000000e+00	12196
1	TraesCS5D01G539300	chr5D	96.890	6655	114	31	1	6604	254535273	254528661	0.000000e+00	11057
2	TraesCS5D01G539300	chr5D	96.970	132	4	0	6367	6498	199428930	199429061	8.620000e-54	222
3	TraesCS5D01G539300	chr7D	97.592	6519	108	14	1	6472	509915926	509909410	0.000000e+00	11123
4	TraesCS5D01G539300	chr7D	98.347	121	2	0	6484	6604	509909450	509909330	5.190000e-51	213
5	TraesCS5D01G539300	chr7D	97.521	121	3	0	6484	6604	501018968	501018848	2.410000e-49	207
6	TraesCS5D01G539300	chr4D	97.451	5884	98	14	611	6472	40829854	40835707	0.000000e+00	9987
7	TraesCS5D01G539300	chr4D	97.309	446	12	0	1	446	40829331	40829776	0.000000e+00	758
8	TraesCS5D01G539300	chr4D	85.780	436	50	5	1	436	315817128	315817551	1.010000e-122	451
9	TraesCS5D01G539300	chr4D	98.319	119	2	0	6486	6604	40835669	40835787	6.710000e-50	209
10	TraesCS5D01G539300	chr2A	97.234	2314	45	10	2	2299	721732972	721735282	0.000000e+00	3901
11	TraesCS5D01G539300	chr2A	97.027	1850	48	6	3319	5167	195113158	195115001	0.000000e+00	3105
12	TraesCS5D01G539300	chr2A	96.296	1755	29	14	556	2299	195111437	195113166	0.000000e+00	2848
13	TraesCS5D01G539300	chr2A	97.315	1564	38	4	3598	5161	721735602	721737161	0.000000e+00	2652
14	TraesCS5D01G539300	chr2A	92.491	1345	44	7	5135	6472	721737165	721738459	0.000000e+00	1871
15	TraesCS5D01G539300	chr2A	93.899	1213	45	4	5135	6340	195115000	195116190	0.000000e+00	1803
16	TraesCS5D01G539300	chr2A	97.534	446	11	0	1	446	195110619	195111064	0.000000e+00	763
17	TraesCS5D01G539300	chr2A	97.039	304	2	3	3319	3621	721735274	721735571	7.640000e-139	505
18	TraesCS5D01G539300	chr2A	94.215	121	7	0	6484	6604	721738419	721738539	1.130000e-42	185
19	TraesCS5D01G539300	chr7A	96.112	2315	47	10	2	2299	678173681	678171393	0.000000e+00	3736
20	TraesCS5D01G539300	chr7A	97.946	1850	33	5	3319	5167	678171401	678169556	0.000000e+00	3201
21	TraesCS5D01G539300	chr7A	91.301	1345	36	18	5135	6472	678169557	678168287	0.000000e+00	1760
22	TraesCS5D01G539300	chr7A	96.694	121	4	0	6484	6604	678168327	678168207	1.120000e-47	202
23	TraesCS5D01G539300	chr1A	97.553	1880	27	9	438	2299	14530328	14528450	0.000000e+00	3199
24	TraesCS5D01G539300	chr1A	96.539	1849	40	7	3319	5167	14528458	14526634	0.000000e+00	3038
25	TraesCS5D01G539300	chr1A	94.477	1213	37	5	5135	6340	14526635	14525446	0.000000e+00	1842
26	TraesCS5D01G539300	chr1A	97.309	446	12	0	1	446	14530812	14530367	0.000000e+00	758
27	TraesCS5D01G539300	chr1A	90.678	354	12	10	5773	6105	13765077	13764724	1.010000e-122	451
28	TraesCS5D01G539300	chr1B	97.189	1850	45	5	3319	5167	154148262	154150105	0.000000e+00	3121
29	TraesCS5D01G539300	chr1B	96.353	1755	28	14	556	2299	154146541	154148270	0.000000e+00	2854
30	TraesCS5D01G539300	chr1B	91.262	1442	83	21	1097	2507	55536878	55535449	0.000000e+00	1925
31	TraesCS5D01G539300	chr1B	94.064	1213	43	9	5135	6340	154150104	154151294	0.000000e+00	1814
32	TraesCS5D01G539300	chr1B	94.465	795	16	8	1	768	154145748	154146541	0.000000e+00	1199
33	TraesCS5D01G539300	chr1B	90.141	355	13	10	5773	6105	17382939	17382585	6.080000e-120	442
34	TraesCS5D01G539300	chr6D	96.820	566	17	1	5016	5580	39577883	39577318	0.000000e+00	944
35	TraesCS5D01G539300	chr6D	96.975	562	16	1	4127	4688	39581154	39580594	0.000000e+00	942
36	TraesCS5D01G539300	chr6D	96.119	335	11	1	4681	5013	39578443	39578109	4.500000e-151	545
37	TraesCS5D01G539300	chr1D	90.868	657	42	10	435	1079	479501988	479502638	0.000000e+00	865
38	TraesCS5D01G539300	chrUn	90.152	660	47	11	435	1082	260016889	260016236	0.000000e+00	843
39	TraesCS5D01G539300	chrUn	99.027	411	4	0	3704	4114	477629048	477629458	0.000000e+00	737
40	TraesCS5D01G539300	chrUn	90.341	176	12	3	2332	2507	262118986	262118816	6.660000e-55	226
41	TraesCS5D01G539300	chrUn	92.424	132	9	1	6367	6498	214036525	214036655	3.140000e-43	187
42	TraesCS5D01G539300	chrUn	92.424	132	9	1	6367	6498	235654258	235654388	3.140000e-43	187
43	TraesCS5D01G539300	chrUn	92.424	132	9	1	6367	6498	253139894	253139764	3.140000e-43	187
44	TraesCS5D01G539300	chrUn	88.312	154	12	2	6457	6604	214036588	214036741	5.260000e-41	180
45	TraesCS5D01G539300	chrUn	88.312	154	12	2	6457	6604	235654321	235654474	5.260000e-41	180
46	TraesCS5D01G539300	chrUn	88.742	151	11	2	6460	6604	253139828	253139678	5.260000e-41	180
47	TraesCS5D01G539300	chr3A	97.312	186	5	0	3199	3384	365952930	365952745	3.840000e-82	316
48	TraesCS5D01G539300	chr3D	93.827	81	2	2	5697	5774	535396261	535396181	1.160000e-22	119

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	TraesCS5D01G539300	chr5D	551015402	551022005	6603	True	12196.000000	12196	100.00000	1	6604	1	chr5D.!!$R2	6603
1	TraesCS5D01G539300	chr5D	254528661	254535273	6612	True	11057.000000	11057	96.89000	1	6604	1	chr5D.!!$R1	6603
2	TraesCS5D01G539300	chr7D	509909330	509915926	6596	True	5668.000000	11123	97.96950	1	6604	2	chr7D.!!$R2	6603
3	TraesCS5D01G539300	chr4D	40829331	40835787	6456	False	3651.333333	9987	97.69300	1	6604	3	chr4D.!!$F2	6603
4	TraesCS5D01G539300	chr2A	195110619	195116190	5571	False	2129.750000	3105	96.18900	1	6340	4	chr2A.!!$F1	6339
5	TraesCS5D01G539300	chr2A	721732972	721738539	5567	False	1822.800000	3901	95.65880	2	6604	5	chr2A.!!$F2	6602
6	TraesCS5D01G539300	chr7A	678168207	678173681	5474	True	2224.750000	3736	95.51325	2	6604	4	chr7A.!!$R1	6602
7	TraesCS5D01G539300	chr1A	14525446	14530812	5366	True	2209.250000	3199	96.46950	1	6340	4	chr1A.!!$R2	6339
8	TraesCS5D01G539300	chr1B	154145748	154151294	5546	False	2247.000000	3121	95.51775	1	6340	4	chr1B.!!$F1	6339
9	TraesCS5D01G539300	chr1B	55535449	55536878	1429	True	1925.000000	1925	91.26200	1097	2507	1	chr1B.!!$R2	1410
10	TraesCS5D01G539300	chr6D	39577318	39581154	3836	True	810.333333	944	96.63800	4127	5580	3	chr6D.!!$R1	1453
11	TraesCS5D01G539300	chr1D	479501988	479502638	650	False	865.000000	865	90.86800	435	1079	1	chr1D.!!$F1	644
12	TraesCS5D01G539300	chrUn	260016236	260016889	653	True	843.000000	843	90.15200	435	1082	1	chrUn.!!$R1	647

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
327	328	0.904649	GATTTGGGGAAAGGCAAGGG	59.095	55.0	0.0	0.0	0.00	3.95	F
1044	1508	0.540923	GAGAAGATGGTGCCTGCTCT	59.459	55.0	0.0	0.0	34.24	4.09	F
1054	1518	0.906775	TGCCTGCTCTGTGATGATGA	59.093	50.0	0.0	0.0	0.00	2.92	F
2520	3025	2.496899	ATGAATGACTCTGCCCGTTT	57.503	45.0	0.0	0.0	0.00	3.60	F
2593	3098	1.110442	CAAACCACACCAAGAAGCCA	58.890	50.0	0.0	0.0	0.00	4.75	F
3047	3553	1.372582	AGATGTTGCTGCACATACCG	58.627	50.0	0.0	0.0	37.52	4.02	F
4299	4856	2.826674	TTAAAAGAGGGGCTGATGGG	57.173	50.0	0.0	0.0	0.00	4.00	F

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability	Orientation
2180	2685	1.230324	AGCCAAAGACAAGTTCGAGC	58.770	50.000	0.00	0.0	0.00	5.03	R
2520	3025	1.328279	TGTGTGAGGCGAGAGAGAAA	58.672	50.000	0.00	0.0	0.00	2.52	R
2593	3098	4.877378	TGTGTTAGTAGATTGGGACGTT	57.123	40.909	0.00	0.0	0.00	3.99	R
4108	4665	1.107114	AGTACTGCCCATGAGACTCG	58.893	55.000	0.00	0.0	0.00	4.18	R
4299	4856	1.349973	GCCGCTTGAAGCTCGATTC	59.650	57.895	15.92	0.0	39.60	2.52	R
4482	5040	3.119291	CAATCTGCTGACCTGATCGTAC	58.881	50.000	0.00	0.0	31.71	3.67	R
6211	9194	0.908198	CCTTCCTCCCTCAGGTTCAG	59.092	60.000	0.00	0.0	43.95	3.02	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
159	160	1.152963	AGTGCCTTGTTGGACGCTT	60.153	52.632	0.00	0.00	38.35	4.68
170	171	1.742768	GGACGCTTCCATCTCCGAT	59.257	57.895	3.96	0.00	42.30	4.18
312	313	4.703379	CAATCTCTGGAGCCTAGGATTT	57.297	45.455	14.75	0.00	0.00	2.17
327	328	0.904649	GATTTGGGGAAAGGCAAGGG	59.095	55.000	0.00	0.00	0.00	3.95
424	425	2.123854	TCTCTGCCGCGGGAGTAT	60.124	61.111	40.18	0.00	35.04	2.12
1044	1508	0.540923	GAGAAGATGGTGCCTGCTCT	59.459	55.000	0.00	0.00	34.24	4.09
1054	1518	0.906775	TGCCTGCTCTGTGATGATGA	59.093	50.000	0.00	0.00	0.00	2.92
1642	2125	7.776969	ACTGCATCTTGGATGAATACTATTGTT	59.223	33.333	11.16	0.00	0.00	2.83
2180	2685	6.574350	AGTTTGAGAGAAGTCCATATTACCG	58.426	40.000	0.00	0.00	0.00	4.02
2520	3025	2.496899	ATGAATGACTCTGCCCGTTT	57.503	45.000	0.00	0.00	0.00	3.60
2593	3098	1.110442	CAAACCACACCAAGAAGCCA	58.890	50.000	0.00	0.00	0.00	4.75
2713	3218	2.665777	CTACAACATGGAGCCGACG	58.334	57.895	0.00	0.00	0.00	5.12
2812	3317	9.229784	CAGAATTTAAGTGCATATTAGTGCTTG	57.770	33.333	0.00	0.00	45.27	4.01
3047	3553	1.372582	AGATGTTGCTGCACATACCG	58.627	50.000	0.00	0.00	37.52	4.02
3235	3742	4.517075	TGAAACATTGTTCAGCCGACAATA	59.483	37.500	1.83	0.00	43.75	1.90
3236	3743	5.009110	TGAAACATTGTTCAGCCGACAATAA	59.991	36.000	1.83	0.00	43.75	1.40
3260	3767	5.679734	AATACATATGCTTGCAGCTACAC	57.320	39.130	1.58	0.00	42.97	2.90
3400	3907	9.866655	TTCCCATCTTATTTATTAGAACATGCT	57.133	29.630	0.00	0.00	0.00	3.79
3691	4247	3.601981	GTGAGATTACTCGCCGCG	58.398	61.111	6.39	6.39	44.85	6.46
3781	4337	7.275888	TGGATCAATACAAAGCCAATGATAC	57.724	36.000	0.00	0.00	0.00	2.24
3977	4533	4.679372	GCTCTCGGCTTCTCAACTTCTAAT	60.679	45.833	0.00	0.00	38.06	1.73
4184	4741	5.888161	AGGTTCATATGGAAAGTTAAGGCAG	59.112	40.000	2.13	0.00	37.23	4.85
4209	4766	7.283580	AGTGATAATTAGTAAGACTGACGCTCT	59.716	37.037	0.00	0.00	0.00	4.09
4257	4814	4.383774	TTCGTCAAAGAAGTACAATGCG	57.616	40.909	0.00	0.00	0.00	4.73
4299	4856	2.826674	TTAAAAGAGGGGCTGATGGG	57.173	50.000	0.00	0.00	0.00	4.00
4482	5040	5.241506	TGATCACTTCCTTTTAAACAGCTGG	59.758	40.000	19.93	0.00	0.00	4.85
5114	8057	5.665459	ACTGTTGCTCCTGCTACTAATTAG	58.335	41.667	11.05	11.05	43.46	1.73
5469	8445	1.075536	ACCACAGGAAATCCCTCCAAC	59.924	52.381	0.00	0.00	45.60	3.77
5548	8525	2.652590	GCTGGAGGAAAATGAGAGCAT	58.347	47.619	0.00	0.00	35.92	3.79
5650	8627	5.009710	CACTGCGTACCTCCATTATTAGAGA	59.990	44.000	0.00	0.00	31.43	3.10
5958	8941	3.256558	GGTGGTATGTTCCGTACAAGAC	58.743	50.000	0.00	0.00	40.89	3.01
6099	9082	5.678583	AGCTCATGTATAAGTTGCAGTCAT	58.321	37.500	0.00	0.00	0.00	3.06
6142	9125	4.715534	TCCTCATCTCCGTCTCTCTATT	57.284	45.455	0.00	0.00	0.00	1.73
6211	9194	2.816672	CAAACAGAGAAAAGAGGGGAGC	59.183	50.000	0.00	0.00	0.00	4.70
6236	9219	0.758685	CTGAGGGAGGAAGGCGATCT	60.759	60.000	0.00	0.00	0.00	2.75
6246	9229	1.630126	AAGGCGATCTCATGGTGGCT	61.630	55.000	0.00	0.00	36.99	4.75
6330	9313	2.043852	GGCGTCTCCCCTCAGAGA	60.044	66.667	0.00	0.00	40.62	3.10
6335	9318	1.314730	GTCTCCCCTCAGAGATCGAC	58.685	60.000	0.00	0.00	44.46	4.20
6465	9449	1.186917	TTTAGGACCTTGACGGCGGA	61.187	55.000	13.24	0.00	35.61	5.54
6486	9470	1.437986	CTCCTTTAGGACCTCGGCG	59.562	63.158	0.00	0.00	39.78	6.46
6487	9471	2.017559	CTCCTTTAGGACCTCGGCGG	62.018	65.000	7.21	0.00	39.78	6.13
6488	9472	2.202892	CTTTAGGACCTCGGCGGC	60.203	66.667	7.21	0.00	35.61	6.53
6489	9473	4.137872	TTTAGGACCTCGGCGGCG	62.138	66.667	27.15	27.15	35.61	6.46
6512	9496	1.437986	CTCCTTTAGGACCTCGGCG	59.562	63.158	0.00	0.00	39.78	6.46
6513	9497	2.017559	CTCCTTTAGGACCTCGGCGG	62.018	65.000	7.21	0.00	39.78	6.13
6514	9498	2.202892	CTTTAGGACCTCGGCGGC	60.203	66.667	7.21	0.00	35.61	6.53
6515	9499	4.137872	TTTAGGACCTCGGCGGCG	62.138	66.667	27.15	27.15	35.61	6.46

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
159	160	1.444672	CAGCAGCATCGGAGATGGA	59.555	57.895	11.41	0.00	45.12	3.41
170	171	2.351244	CGGAGGAGTACCAGCAGCA	61.351	63.158	0.00	0.00	38.94	4.41
312	313	2.453497	TCCCCTTGCCTTTCCCCA	60.453	61.111	0.00	0.00	0.00	4.96
327	328	3.118482	TCACAATCAGCTCCAGAATCTCC	60.118	47.826	0.00	0.00	0.00	3.71
424	425	1.466856	CAGCAGCAGCCTTTCCAATA	58.533	50.000	0.00	0.00	43.56	1.90
1044	1508	1.611410	GGTGCTGGTGTCATCATCACA	60.611	52.381	19.01	1.65	37.52	3.58
1054	1518	0.317479	GAAGTCGTAGGTGCTGGTGT	59.683	55.000	0.00	0.00	0.00	4.16
1642	2125	3.819564	ATGGCTCATGCGAGTAAACTA	57.180	42.857	0.00	0.00	41.71	2.24
2180	2685	1.230324	AGCCAAAGACAAGTTCGAGC	58.770	50.000	0.00	0.00	0.00	5.03
2257	2762	7.988937	AGCAGACCCCTTATAATTATGAATGA	58.011	34.615	8.28	0.00	0.00	2.57
2352	2857	5.797051	AGCGGTTAGTACTTAAATTGACCA	58.203	37.500	0.00	0.00	0.00	4.02
2437	2942	8.942338	TTCGACGATAAGTAACTACCTAAGTA	57.058	34.615	0.00	0.00	37.50	2.24
2520	3025	1.328279	TGTGTGAGGCGAGAGAGAAA	58.672	50.000	0.00	0.00	0.00	2.52
2593	3098	4.877378	TGTGTTAGTAGATTGGGACGTT	57.123	40.909	0.00	0.00	0.00	3.99
2713	3218	6.545666	TCCTACAAGTCATCATCTCTCTCTTC	59.454	42.308	0.00	0.00	0.00	2.87
2812	3317	6.698766	CCATTTGAATAGTAGCATTTTGGAGC	59.301	38.462	0.00	0.00	0.00	4.70
3103	3610	1.939974	TGCCTCATCGAAGCACATAC	58.060	50.000	0.00	0.00	0.00	2.39
3400	3907	8.523915	AGTAATCATAATTTTCAGTGGCATCA	57.476	30.769	0.00	0.00	0.00	3.07
3691	4247	1.589716	ATCAAGCTGCTTCGTTGCCC	61.590	55.000	12.82	0.00	0.00	5.36
3781	4337	3.489738	GCCTGCATACTTTGTTGCCTATG	60.490	47.826	0.00	0.00	38.08	2.23
4108	4665	1.107114	AGTACTGCCCATGAGACTCG	58.893	55.000	0.00	0.00	0.00	4.18
4184	4741	7.377397	CAGAGCGTCAGTCTTACTAATTATCAC	59.623	40.741	0.00	0.00	0.00	3.06
4209	4766	4.580167	CCTCATCCAATCGGCTTTAATTCA	59.420	41.667	0.00	0.00	0.00	2.57
4257	4814	3.968649	TCACTTGCATTGTTTCAGCTTC	58.031	40.909	0.00	0.00	0.00	3.86
4299	4856	1.349973	GCCGCTTGAAGCTCGATTC	59.650	57.895	15.92	0.00	39.60	2.52
4482	5040	3.119291	CAATCTGCTGACCTGATCGTAC	58.881	50.000	0.00	0.00	31.71	3.67
4536	5094	6.155565	ACATAAGTGTGTAATGTAGTAGCCCA	59.844	38.462	0.00	0.00	37.14	5.36
4721	7437	6.914259	TGCGTTAAATTCACATGGTATTCAA	58.086	32.000	0.00	0.00	0.00	2.69
4885	7603	8.373981	CAGTTATCTCCATTATGGTGAGAAGAT	58.626	37.037	19.49	16.73	40.49	2.40
5114	8057	6.668541	TTAGCTATTGATTGAAGTGACTGC	57.331	37.500	0.00	0.00	0.00	4.40
5162	8135	3.094572	CAATCAAATCCAAGAGCAGGGT	58.905	45.455	0.00	0.00	0.00	4.34
5469	8445	4.189231	CGGGATTCACAGGTTAGTTTAGG	58.811	47.826	0.00	0.00	0.00	2.69
5584	8561	3.993865	TACCGGCTGGGGATGCTCA	62.994	63.158	18.00	0.00	41.60	4.26
5630	8607	9.654663	ATTTAATCTCTAATAATGGAGGTACGC	57.345	33.333	0.00	0.00	35.05	4.42
5650	8627	5.882557	GGTCAGTCCAGACATGACATTTAAT	59.117	40.000	21.26	0.00	39.24	1.40
5958	8941	8.522830	AGTCATCAATGTGTTTTTATTGTAGGG	58.477	33.333	0.00	0.00	36.09	3.53
6064	9047	7.231722	ACTTATACATGAGCTCGGTTTAGATCT	59.768	37.037	15.00	0.00	33.04	2.75
6099	9082	1.149101	GAGGCCATGGGATCCCTTTA	58.851	55.000	31.05	12.34	36.94	1.85
6142	9125	4.133820	GAGACGGAGAGAATCAGATCAGA	58.866	47.826	0.00	0.00	37.82	3.27
6211	9194	0.908198	CCTTCCTCCCTCAGGTTCAG	59.092	60.000	0.00	0.00	43.95	3.02
6236	9219	1.078497	CCTGCGTTAGCCACCATGA	60.078	57.895	0.00	0.00	44.33	3.07
6246	9229	1.607178	TCCGGTTCCTCCTGCGTTA	60.607	57.895	0.00	0.00	0.00	3.18
6465	9449	0.688087	CCGAGGTCCTAAAGGAGGCT	60.688	60.000	0.00	0.00	46.49	4.58
6470	9454	2.499685	CCGCCGAGGTCCTAAAGG	59.500	66.667	0.00	0.00	34.51	3.11
6471	9455	2.202892	GCCGCCGAGGTCCTAAAG	60.203	66.667	0.00	0.00	43.70	1.85
6472	9456	4.137872	CGCCGCCGAGGTCCTAAA	62.138	66.667	0.00	0.00	43.70	1.85
6487	9471	1.144276	GTCCTAAAGGAGGCTCCGC	59.856	63.158	27.11	5.21	46.49	5.54
6488	9472	0.688087	AGGTCCTAAAGGAGGCTCCG	60.688	60.000	27.11	13.17	46.49	4.63
6489	9473	1.124780	GAGGTCCTAAAGGAGGCTCC	58.875	60.000	26.42	26.42	46.49	4.70
6490	9474	0.747852	CGAGGTCCTAAAGGAGGCTC	59.252	60.000	5.78	5.78	46.49	4.70
6491	9475	0.688087	CCGAGGTCCTAAAGGAGGCT	60.688	60.000	0.00	0.00	46.49	4.58
6492	9476	1.823976	CCGAGGTCCTAAAGGAGGC	59.176	63.158	0.00	0.00	46.49	4.70
6493	9477	1.823976	GCCGAGGTCCTAAAGGAGG	59.176	63.158	10.77	0.00	46.49	4.30
6494	9478	1.437986	CGCCGAGGTCCTAAAGGAG	59.562	63.158	10.77	4.70	46.49	3.69
6495	9479	2.056223	CCGCCGAGGTCCTAAAGGA	61.056	63.158	10.77	0.00	43.08	3.36
6496	9480	2.499685	CCGCCGAGGTCCTAAAGG	59.500	66.667	0.00	0.00	34.51	3.11
6497	9481	2.202892	GCCGCCGAGGTCCTAAAG	60.203	66.667	0.00	0.00	43.70	1.85
6498	9482	4.137872	CGCCGCCGAGGTCCTAAA	62.138	66.667	0.00	0.00	43.70	1.85
6519	9503	4.753662	TCCGAGGGGTCGTGGAGG	62.754	72.222	0.00	0.00	33.83	4.30
6520	9504	3.141488	CTCCGAGGGGTCGTGGAG	61.141	72.222	0.00	0.00	41.82	3.86

Based at the University of Bristol with support from BBSRC.

AutoCloner maintained by Alex Coulton.