AutoCloner

Multiple sequence alignment - TraesCS2A01G085800

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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	TraesCS2A01G085800	chr2A	100.000	3002	0	0	1	3002	39453737	39450736	0.000000e+00	5544.0
1	TraesCS2A01G085800	chr2A	93.694	2125	74	22	864	2952	39355084	39357184	0.000000e+00	3127.0
2	TraesCS2A01G085800	chr2A	91.965	2178	110	24	849	3002	39410724	39408588	0.000000e+00	2992.0
3	TraesCS2A01G085800	chr2A	77.518	1370	251	44	864	2203	39310854	39312196	0.000000e+00	771.0
4	TraesCS2A01G085800	chr2A	90.268	411	37	3	1550	1960	39418930	39418523	4.400000e-148	534.0
5	TraesCS2A01G085800	chr2A	92.369	249	15	3	342	588	39310506	39310752	4.760000e-93	351.0
6	TraesCS2A01G085800	chr2A	93.373	166	10	1	418	583	39354804	39354968	8.310000e-61	244.0
7	TraesCS2A01G085800	chr2A	85.000	120	6	5	658	769	39354963	39355078	8.800000e-21	111.0
8	TraesCS2A01G085800	chr2A	88.889	90	7	2	327	413	39411068	39410979	1.140000e-19	108.0
9	TraesCS2A01G085800	chr2D	93.042	2659	105	29	327	2952	36051611	36054222	0.000000e+00	3812.0
10	TraesCS2A01G085800	chr2D	77.849	1571	260	52	660	2203	36096547	36095038	0.000000e+00	893.0
11	TraesCS2A01G085800	chr2D	78.800	1033	168	26	687	1709	35978443	35979434	0.000000e+00	647.0
12	TraesCS2A01G085800	chr2D	93.671	237	13	2	2768	3002	36198018	36198254	1.320000e-93	353.0
13	TraesCS2A01G085800	chr2D	97.778	135	3	0	138	272	36034285	36034419	1.800000e-57	233.0
14	TraesCS2A01G085800	chr2D	90.476	168	11	3	360	522	35927102	35927269	1.810000e-52	217.0
15	TraesCS2A01G085800	chr2D	93.333	75	5	0	1	75	36034024	36034098	8.800000e-21	111.0
16	TraesCS2A01G085800	chr2D	91.228	57	2	3	93	147	36034213	36034268	1.150000e-09	75.0
17	TraesCS2A01G085800	chr2B	95.324	1433	55	8	999	2431	61476412	61474992	0.000000e+00	2265.0
18	TraesCS2A01G085800	chr2B	93.801	742	46	0	995	1736	61367426	61368167	0.000000e+00	1116.0
19	TraesCS2A01G085800	chr2B	92.522	682	50	1	1328	2009	61311782	61312462	0.000000e+00	976.0
20	TraesCS2A01G085800	chr2B	91.476	657	46	7	1723	2373	61369454	61370106	0.000000e+00	894.0
21	TraesCS2A01G085800	chr2B	76.364	1540	265	60	635	2147	61361825	61363292	0.000000e+00	736.0
22	TraesCS2A01G085800	chr2B	86.059	581	32	19	2429	3001	61474957	61474418	2.010000e-161	579.0
23	TraesCS2A01G085800	chr2B	88.235	476	24	10	418	891	61476913	61476468	9.470000e-150	540.0
24	TraesCS2A01G085800	chr2B	96.124	129	4	1	138	265	61366494	61366622	3.030000e-50	209.0
25	TraesCS2A01G085800	chr2B	89.759	166	10	3	363	522	61491919	61491755	3.920000e-49	206.0
26	TraesCS2A01G085800	chr2B	100.000	86	0	0	2	87	61366410	61366495	3.100000e-35	159.0
27	TraesCS2A01G085800	chr2B	90.141	71	5	1	330	398	61366884	61366954	1.150000e-14	91.6
28	TraesCS2A01G085800	chr3D	92.464	836	53	5	1160	1994	380122973	380123799	0.000000e+00	1186.0
29	TraesCS2A01G085800	chr3D	90.744	605	34	8	1981	2570	380132158	380132755	0.000000e+00	787.0
30	TraesCS2A01G085800	chrUn	88.991	109	3	1	2694	2793	261568267	261568375	3.140000e-25	126.0
31	TraesCS2A01G085800	chr1B	87.719	114	4	2	2690	2793	633717402	633717289	1.130000e-24	124.0
32	TraesCS2A01G085800	chr5D	87.611	113	3	2	2692	2793	6252846	6252958	1.460000e-23	121.0
33	TraesCS2A01G085800	chr1D	87.156	109	5	1	2694	2793	51831536	51831644	6.800000e-22	115.0
34	TraesCS2A01G085800	chr6B	94.915	59	3	0	2694	2752	450091716	450091774	3.190000e-15	93.5

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	TraesCS2A01G085800	chr2A	39450736	39453737	3001	True	5544.000000	5544	100.000000	1	3002	1	chr2A.!!$R2	3001
1	TraesCS2A01G085800	chr2A	39408588	39411068	2480	True	1550.000000	2992	90.427000	327	3002	2	chr2A.!!$R3	2675
2	TraesCS2A01G085800	chr2A	39354804	39357184	2380	False	1160.666667	3127	90.689000	418	2952	3	chr2A.!!$F2	2534
3	TraesCS2A01G085800	chr2A	39310506	39312196	1690	False	561.000000	771	84.943500	342	2203	2	chr2A.!!$F1	1861
4	TraesCS2A01G085800	chr2D	36051611	36054222	2611	False	3812.000000	3812	93.042000	327	2952	1	chr2D.!!$F3	2625
5	TraesCS2A01G085800	chr2D	36095038	36096547	1509	True	893.000000	893	77.849000	660	2203	1	chr2D.!!$R1	1543
6	TraesCS2A01G085800	chr2D	35978443	35979434	991	False	647.000000	647	78.800000	687	1709	1	chr2D.!!$F2	1022
7	TraesCS2A01G085800	chr2B	61474418	61476913	2495	True	1128.000000	2265	89.872667	418	3001	3	chr2B.!!$R2	2583
8	TraesCS2A01G085800	chr2B	61311782	61312462	680	False	976.000000	976	92.522000	1328	2009	1	chr2B.!!$F1	681
9	TraesCS2A01G085800	chr2B	61361825	61370106	8281	False	534.266667	1116	91.317667	2	2373	6	chr2B.!!$F2	2371
10	TraesCS2A01G085800	chr3D	380122973	380123799	826	False	1186.000000	1186	92.464000	1160	1994	1	chr3D.!!$F1	834
11	TraesCS2A01G085800	chr3D	380132158	380132755	597	False	787.000000	787	90.744000	1981	2570	1	chr3D.!!$F2	589

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
436	5226	0.034756	GGCGGCCAAACCAAGATTTT	59.965	50.000	15.62	0.0	39.03	1.82	F
1109	5981	1.077501	ATGATTGGGACACGGGCTG	60.078	57.895	0.00	0.0	39.29	4.85	F

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability	Orientation
1397	6290	1.019673	ATGGCGAGATGTCAATGCAC	58.980	50.0	0.00	0.0	34.57	4.57	R
2647	8914	0.486879	AGCTTGGGTCCCATCCAAAA	59.513	50.0	12.68	0.0	42.91	2.44	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
130	4715	9.883142	TGAACATTTTCTAAAATTTGGTGAACT	57.117	25.926	0.00	0.00	36.52	3.01
286	4872	2.805353	CGTGCGGAGTTCGTGGAG	60.805	66.667	0.00	0.00	41.72	3.86
288	4874	4.373116	TGCGGAGTTCGTGGAGGC	62.373	66.667	0.00	0.00	41.72	4.70
289	4875	4.373116	GCGGAGTTCGTGGAGGCA	62.373	66.667	0.00	0.00	41.72	4.75
293	4879	1.314730	GGAGTTCGTGGAGGCAAAAA	58.685	50.000	0.00	0.00	0.00	1.94
294	4880	1.886542	GGAGTTCGTGGAGGCAAAAAT	59.113	47.619	0.00	0.00	0.00	1.82
297	4883	1.533731	GTTCGTGGAGGCAAAAATCGA	59.466	47.619	0.00	0.00	0.00	3.59
298	4884	1.438651	TCGTGGAGGCAAAAATCGAG	58.561	50.000	0.00	0.00	0.00	4.04
299	4885	1.156736	CGTGGAGGCAAAAATCGAGT	58.843	50.000	0.00	0.00	0.00	4.18
300	4886	1.135972	CGTGGAGGCAAAAATCGAGTG	60.136	52.381	0.00	0.00	0.00	3.51
301	4887	1.200020	GTGGAGGCAAAAATCGAGTGG	59.800	52.381	0.00	0.00	0.00	4.00
302	4888	1.073125	TGGAGGCAAAAATCGAGTGGA	59.927	47.619	0.00	0.00	0.00	4.02
303	4889	1.740025	GGAGGCAAAAATCGAGTGGAG	59.260	52.381	0.00	0.00	0.00	3.86
305	4891	2.416893	GAGGCAAAAATCGAGTGGAGAC	59.583	50.000	0.00	0.00	0.00	3.36
307	4893	2.066262	GCAAAAATCGAGTGGAGACGA	58.934	47.619	0.00	0.00	42.49	4.20
310	4896	2.365408	AAATCGAGTGGAGACGAACC	57.635	50.000	0.00	0.00	41.65	3.62
312	4898	1.254026	ATCGAGTGGAGACGAACCAA	58.746	50.000	0.00	0.00	41.65	3.67
313	4899	1.034356	TCGAGTGGAGACGAACCAAA	58.966	50.000	0.00	0.00	39.22	3.28
315	4901	2.036733	TCGAGTGGAGACGAACCAAATT	59.963	45.455	0.00	0.00	39.22	1.82
317	4903	3.120649	CGAGTGGAGACGAACCAAATTTC	60.121	47.826	0.00	0.00	39.22	2.17
318	4904	3.813166	GAGTGGAGACGAACCAAATTTCA	59.187	43.478	0.00	0.00	39.22	2.69
319	4905	3.815401	AGTGGAGACGAACCAAATTTCAG	59.185	43.478	0.00	0.00	39.22	3.02
320	4906	3.058224	GTGGAGACGAACCAAATTTCAGG	60.058	47.826	0.00	0.00	39.22	3.86
321	4907	3.146847	GGAGACGAACCAAATTTCAGGT	58.853	45.455	0.00	0.00	40.61	4.00
323	4909	2.293399	AGACGAACCAAATTTCAGGTGC	59.707	45.455	1.19	0.00	38.37	5.01
401	5186	2.349817	GCCATATCAACATTTCGGCGAG	60.350	50.000	10.46	0.54	0.00	5.03
402	5187	2.349817	CCATATCAACATTTCGGCGAGC	60.350	50.000	10.46	0.00	0.00	5.03
403	5188	2.017138	TATCAACATTTCGGCGAGCA	57.983	45.000	10.46	0.73	0.00	4.26
404	5189	0.447801	ATCAACATTTCGGCGAGCAC	59.552	50.000	10.46	0.00	0.00	4.40
406	5191	2.677003	AACATTTCGGCGAGCACGG	61.677	57.895	10.46	2.13	40.15	4.94
407	5192	3.864686	CATTTCGGCGAGCACGGG	61.865	66.667	10.46	0.00	40.15	5.28
436	5226	0.034756	GGCGGCCAAACCAAGATTTT	59.965	50.000	15.62	0.00	39.03	1.82
629	5423	5.355071	TCATTCCCGATTTCACTCTTGATTG	59.645	40.000	0.00	0.00	0.00	2.67
752	5581	2.708216	TTGCCTATCTGCAATCCGAA	57.292	45.000	0.00	0.00	45.77	4.30
754	5583	1.209261	TGCCTATCTGCAATCCGAACA	59.791	47.619	0.00	0.00	38.56	3.18
865	5722	4.904241	CAGGTTAGATCTGGATTCCCATC	58.096	47.826	5.18	2.15	42.59	3.51
957	5818	6.928520	ACCTCCATCAGAATCAAAAATTCAC	58.071	36.000	1.07	0.00	0.00	3.18
989	5853	1.134560	AGTTAGTGCGGGAAGATCGAC	59.865	52.381	0.00	0.00	0.00	4.20
1026	5898	2.356313	CGTCAGCACTCGCACCTT	60.356	61.111	0.00	0.00	42.27	3.50
1109	5981	1.077501	ATGATTGGGACACGGGCTG	60.078	57.895	0.00	0.00	39.29	4.85
1397	6290	2.449525	CCGCCGGTGATACGTTGTG	61.450	63.158	18.79	0.00	0.00	3.33
1479	6372	1.493950	CGGGAAGCGATGAGATGTGC	61.494	60.000	0.00	0.00	0.00	4.57
1557	6452	7.490079	CCATTTGCCATGGATGATATAATTTCG	59.510	37.037	18.40	0.00	41.64	3.46
1661	6556	2.948979	TCTCATTCAACACCAAGCGTTT	59.051	40.909	0.00	0.00	0.00	3.60
1975	8180	0.643310	GCATCGTCGATTGTTGCGTA	59.357	50.000	4.63	0.00	0.00	4.42
2038	8243	4.688419	CTGCAAACCACGCGCCAG	62.688	66.667	5.73	0.00	0.00	4.85
2089	8294	4.102367	AGCATATCCTGTCCTTTTCTCCTC	59.898	45.833	0.00	0.00	0.00	3.71
2149	8359	0.107654	AAGCCCTGCCGTGTAATCTC	60.108	55.000	0.00	0.00	0.00	2.75
2175	8391	0.253894	AGCTGCTGTGATATGTGGCA	59.746	50.000	0.00	0.00	0.00	4.92
2176	8392	0.379669	GCTGCTGTGATATGTGGCAC	59.620	55.000	11.55	11.55	35.63	5.01
2177	8393	2.015588	GCTGCTGTGATATGTGGCACT	61.016	52.381	19.83	6.99	36.05	4.40
2248	8472	1.440893	CTGAGCCCAGAGATGGTCG	59.559	63.158	0.00	0.00	43.02	4.79
2271	8495	4.152402	GCATGTTTCAAGAACTAGAAGCGA	59.848	41.667	0.00	0.00	0.00	4.93
2332	8557	4.649088	AGAAAAGGTGGTGCAACTAAAC	57.351	40.909	2.04	0.00	36.74	2.01
2406	8631	2.162208	GCCATGATCACTCTTTCGCAAA	59.838	45.455	0.00	0.00	0.00	3.68
2407	8632	3.366273	GCCATGATCACTCTTTCGCAAAA	60.366	43.478	0.00	0.00	0.00	2.44
2494	8757	7.786943	TCTCCTCAGGTATAGTCATCAGAAAAT	59.213	37.037	0.00	0.00	0.00	1.82
2501	8764	8.717717	AGGTATAGTCATCAGAAAATCAATGGA	58.282	33.333	0.00	0.00	0.00	3.41
2511	8774	4.840115	AGAAAATCAATGGAAGGGAAGCAA	59.160	37.500	0.00	0.00	0.00	3.91
2636	8903	7.886629	ATGTTCATGCATAAGGAATTAGTGT	57.113	32.000	0.00	0.00	0.00	3.55
2637	8904	7.701539	TGTTCATGCATAAGGAATTAGTGTT	57.298	32.000	0.00	0.00	0.00	3.32
2638	8905	7.537715	TGTTCATGCATAAGGAATTAGTGTTG	58.462	34.615	0.00	0.00	0.00	3.33
2639	8906	6.135290	TCATGCATAAGGAATTAGTGTTGC	57.865	37.500	0.00	0.00	0.00	4.17
2640	8907	5.651576	TCATGCATAAGGAATTAGTGTTGCA	59.348	36.000	0.00	7.14	42.35	4.08
2641	8908	5.565592	TGCATAAGGAATTAGTGTTGCAG	57.434	39.130	0.00	0.00	34.24	4.41
2642	8909	5.252547	TGCATAAGGAATTAGTGTTGCAGA	58.747	37.500	0.00	0.00	34.24	4.26
2643	8910	5.887598	TGCATAAGGAATTAGTGTTGCAGAT	59.112	36.000	0.00	0.00	34.24	2.90
2644	8911	6.038603	TGCATAAGGAATTAGTGTTGCAGATC	59.961	38.462	0.00	0.00	34.24	2.75
2645	8912	6.261826	GCATAAGGAATTAGTGTTGCAGATCT	59.738	38.462	0.00	0.00	0.00	2.75
2646	8913	7.519649	GCATAAGGAATTAGTGTTGCAGATCTC	60.520	40.741	0.00	0.00	0.00	2.75
2647	8914	5.690464	AGGAATTAGTGTTGCAGATCTCT	57.310	39.130	0.00	0.00	0.00	3.10
2657	8924	3.008835	TGCAGATCTCTTTTGGATGGG	57.991	47.619	0.00	0.00	0.00	4.00
2962	9235	5.153950	TGCAACCCTTTTAGTGTTTGTTT	57.846	34.783	0.00	0.00	0.00	2.83

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
104	4689	9.883142	AGTTCACCAAATTTTAGAAAATGTTCA	57.117	25.926	0.00	0.00	38.53	3.18
210	4796	2.894919	GCACACATGGGCCATTCC	59.105	61.111	18.46	0.00	38.87	3.01
269	4855	2.805353	CTCCACGAACTCCGCACG	60.805	66.667	0.00	0.00	43.32	5.34
270	4856	2.432628	CCTCCACGAACTCCGCAC	60.433	66.667	0.00	0.00	43.32	5.34
271	4857	4.373116	GCCTCCACGAACTCCGCA	62.373	66.667	0.00	0.00	43.32	5.69
272	4858	3.876589	TTGCCTCCACGAACTCCGC	62.877	63.158	0.00	0.00	43.32	5.54
273	4859	0.882927	TTTTGCCTCCACGAACTCCG	60.883	55.000	0.00	0.00	45.44	4.63
274	4860	1.314730	TTTTTGCCTCCACGAACTCC	58.685	50.000	0.00	0.00	0.00	3.85
276	4862	1.535462	CGATTTTTGCCTCCACGAACT	59.465	47.619	0.00	0.00	0.00	3.01
277	4863	1.533731	TCGATTTTTGCCTCCACGAAC	59.466	47.619	0.00	0.00	0.00	3.95
278	4864	1.804151	CTCGATTTTTGCCTCCACGAA	59.196	47.619	0.00	0.00	0.00	3.85
279	4865	1.270625	ACTCGATTTTTGCCTCCACGA	60.271	47.619	0.00	0.00	0.00	4.35
281	4867	1.200020	CCACTCGATTTTTGCCTCCAC	59.800	52.381	0.00	0.00	0.00	4.02
282	4868	1.073125	TCCACTCGATTTTTGCCTCCA	59.927	47.619	0.00	0.00	0.00	3.86
283	4869	1.740025	CTCCACTCGATTTTTGCCTCC	59.260	52.381	0.00	0.00	0.00	4.30
284	4870	2.416893	GTCTCCACTCGATTTTTGCCTC	59.583	50.000	0.00	0.00	0.00	4.70
286	4872	1.128692	CGTCTCCACTCGATTTTTGCC	59.871	52.381	0.00	0.00	0.00	4.52
288	4874	3.120649	GGTTCGTCTCCACTCGATTTTTG	60.121	47.826	0.00	0.00	36.01	2.44
289	4875	3.064931	GGTTCGTCTCCACTCGATTTTT	58.935	45.455	0.00	0.00	36.01	1.94
293	4879	1.254026	TTGGTTCGTCTCCACTCGAT	58.746	50.000	0.00	0.00	36.01	3.59
294	4880	1.034356	TTTGGTTCGTCTCCACTCGA	58.966	50.000	0.00	0.00	34.45	4.04
297	4883	3.815401	CTGAAATTTGGTTCGTCTCCACT	59.185	43.478	0.00	0.00	34.45	4.00
298	4884	3.058224	CCTGAAATTTGGTTCGTCTCCAC	60.058	47.826	0.00	0.00	34.45	4.02
299	4885	3.146066	CCTGAAATTTGGTTCGTCTCCA	58.854	45.455	0.00	0.00	0.00	3.86
300	4886	3.058224	CACCTGAAATTTGGTTCGTCTCC	60.058	47.826	0.00	0.00	33.75	3.71
301	4887	3.609409	GCACCTGAAATTTGGTTCGTCTC	60.609	47.826	0.00	0.00	33.75	3.36
302	4888	2.293399	GCACCTGAAATTTGGTTCGTCT	59.707	45.455	0.00	0.00	33.75	4.18
303	4889	2.607038	GGCACCTGAAATTTGGTTCGTC	60.607	50.000	0.00	0.00	33.75	4.20
305	4891	1.613437	AGGCACCTGAAATTTGGTTCG	59.387	47.619	0.00	0.00	33.75	3.95
323	4909	1.075542	TTGCGCGTCTGTTATTCAGG	58.924	50.000	8.43	0.00	43.76	3.86
384	5169	1.663643	GTGCTCGCCGAAATGTTGATA	59.336	47.619	0.00	0.00	0.00	2.15
459	5249	2.050144	AGAAAGAAGGCAGTGGAGACA	58.950	47.619	0.00	0.00	38.70	3.41
604	5397	4.507710	TCAAGAGTGAAATCGGGAATGAG	58.492	43.478	0.00	0.00	0.00	2.90
780	5609	0.110486	AAGAAGAAGCGGAAGGGCAA	59.890	50.000	0.00	0.00	34.64	4.52
781	5610	0.321653	GAAGAAGAAGCGGAAGGGCA	60.322	55.000	0.00	0.00	34.64	5.36
782	5611	0.321653	TGAAGAAGAAGCGGAAGGGC	60.322	55.000	0.00	0.00	0.00	5.19
783	5612	2.409948	ATGAAGAAGAAGCGGAAGGG	57.590	50.000	0.00	0.00	0.00	3.95
786	5615	7.495934	CCTCTTATTTATGAAGAAGAAGCGGAA	59.504	37.037	8.43	0.00	41.19	4.30
787	5616	6.986817	CCTCTTATTTATGAAGAAGAAGCGGA	59.013	38.462	8.43	0.00	41.19	5.54
788	5617	6.986817	TCCTCTTATTTATGAAGAAGAAGCGG	59.013	38.462	8.43	6.83	41.19	5.52
789	5618	7.170658	CCTCCTCTTATTTATGAAGAAGAAGCG	59.829	40.741	8.43	0.00	41.19	4.68
790	5619	7.443879	CCCTCCTCTTATTTATGAAGAAGAAGC	59.556	40.741	8.43	0.00	41.19	3.86
865	5722	4.821589	GGCAAGGAGGAGGCGACG	62.822	72.222	0.00	0.00	0.00	5.12
957	5818	4.363999	CCGCACTAACTGGATCTAAAGAG	58.636	47.826	0.00	0.00	0.00	2.85
989	5853	0.249073	CTTAGACATGTCTCCGCCGG	60.249	60.000	31.09	12.21	40.93	6.13
993	5865	1.132453	TGACGCTTAGACATGTCTCCG	59.868	52.381	31.09	28.93	40.93	4.63
1109	5981	2.223433	GCATCAACCTTGTAGATGCTGC	60.223	50.000	16.74	0.00	0.00	5.25
1250	6125	1.678728	GGTTGGTGGCGATGAAGATGA	60.679	52.381	0.00	0.00	0.00	2.92
1397	6290	1.019673	ATGGCGAGATGTCAATGCAC	58.980	50.000	0.00	0.00	34.57	4.57
1479	6372	4.552365	ATGGCTGGCCGTGGATCG	62.552	66.667	5.44	0.00	39.42	3.69
1557	6452	3.488090	GGGTGCAGCGCGTAAGAC	61.488	66.667	8.43	0.00	43.02	3.01
1661	6556	1.379916	CCATGCCACCTCCACTCAA	59.620	57.895	0.00	0.00	0.00	3.02
1975	8180	2.632377	CCAAACGTGCTCATATGGAGT	58.368	47.619	2.13	0.00	45.88	3.85
2038	8243	3.442273	ACTACACAAGAGCTAGAGCAGTC	59.558	47.826	4.01	0.00	45.16	3.51
2039	8244	3.192422	CACTACACAAGAGCTAGAGCAGT	59.808	47.826	4.01	0.00	45.16	4.40
2089	8294	5.578727	GCACTTCTTACATCCAGAACACTAG	59.421	44.000	0.00	0.00	0.00	2.57
2149	8359	4.053983	ACATATCACAGCAGCTTACATCG	58.946	43.478	0.00	0.00	0.00	3.84
2248	8472	4.152402	TCGCTTCTAGTTCTTGAAACATGC	59.848	41.667	0.00	0.00	0.00	4.06
2271	8495	1.522668	TCGCAAGCAGCAAAGTACAT	58.477	45.000	0.00	0.00	46.13	2.29
2349	8574	9.804977	CAGGATTATCTAATCTTTGGAGGAAAT	57.195	33.333	9.23	0.00	41.33	2.17
2406	8631	5.003096	ACATGGGGATCTTTGACTCTTTT	57.997	39.130	0.00	0.00	0.00	2.27
2407	8632	4.290722	AGACATGGGGATCTTTGACTCTTT	59.709	41.667	0.00	0.00	0.00	2.52
2415	8641	6.068853	TCCTGAAATAAGACATGGGGATCTTT	60.069	38.462	0.00	0.00	36.56	2.52
2494	8757	3.744940	ATCTTGCTTCCCTTCCATTGA	57.255	42.857	0.00	0.00	0.00	2.57
2501	8764	3.711863	TGCCATTAATCTTGCTTCCCTT	58.288	40.909	0.00	0.00	0.00	3.95
2511	8774	7.761981	ACCTATCTATCCATGCCATTAATCT	57.238	36.000	0.00	0.00	0.00	2.40
2570	8834	9.965902	AGGATCTTGAGAAAACATGTTAGTTAT	57.034	29.630	12.39	0.16	0.00	1.89
2572	8836	8.697507	AAGGATCTTGAGAAAACATGTTAGTT	57.302	30.769	12.39	3.05	0.00	2.24
2634	8901	3.760151	CCATCCAAAAGAGATCTGCAACA	59.240	43.478	0.00	0.00	0.00	3.33
2635	8902	3.129988	CCCATCCAAAAGAGATCTGCAAC	59.870	47.826	0.00	0.00	0.00	4.17
2636	8903	3.010472	TCCCATCCAAAAGAGATCTGCAA	59.990	43.478	0.00	0.00	0.00	4.08
2637	8904	2.577563	TCCCATCCAAAAGAGATCTGCA	59.422	45.455	0.00	0.00	0.00	4.41
2638	8905	2.948315	GTCCCATCCAAAAGAGATCTGC	59.052	50.000	0.00	0.00	0.00	4.26
2639	8906	3.549794	GGTCCCATCCAAAAGAGATCTG	58.450	50.000	0.00	0.00	0.00	2.90
2640	8907	2.511637	GGGTCCCATCCAAAAGAGATCT	59.488	50.000	1.78	0.00	0.00	2.75
2641	8908	2.242196	TGGGTCCCATCCAAAAGAGATC	59.758	50.000	6.47	0.00	0.00	2.75
2642	8909	2.287584	TGGGTCCCATCCAAAAGAGAT	58.712	47.619	6.47	0.00	0.00	2.75
2643	8910	1.753903	TGGGTCCCATCCAAAAGAGA	58.246	50.000	6.47	0.00	0.00	3.10
2644	8911	2.450476	CTTGGGTCCCATCCAAAAGAG	58.550	52.381	12.68	0.00	42.91	2.85
2645	8912	1.549950	GCTTGGGTCCCATCCAAAAGA	60.550	52.381	12.68	0.00	42.91	2.52
2646	8913	0.897621	GCTTGGGTCCCATCCAAAAG	59.102	55.000	12.68	6.01	42.91	2.27
2647	8914	0.486879	AGCTTGGGTCCCATCCAAAA	59.513	50.000	12.68	0.00	42.91	2.44
2657	8924	4.747810	CAACATATTGGAAAGCTTGGGTC	58.252	43.478	0.00	0.00	31.63	4.46
2892	9164	5.337009	GGTCTACTGTTCCTCGGAAATAACA	60.337	44.000	0.00	0.00	35.75	2.41
2934	9206	4.020543	ACACTAAAAGGGTTGCAACTTGA	58.979	39.130	27.64	8.10	0.00	3.02
2962	9235	4.177537	TGAATTGTTCCAGAGGGTGAAA	57.822	40.909	0.00	0.00	34.93	2.69

Based at the University of Bristol with support from BBSRC.

AutoCloner maintained by Alex Coulton.