AutoCloner

Multiple sequence alignment - TraesCS2A01G326100

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	TraesCS2A01G326100	chr2A	100.000	3523	0	0	1	3523	556985376	556988898	0.000000e+00	6506
1	TraesCS2A01G326100	chr2A	86.017	1037	102	19	1625	2641	555888002	555889015	0.000000e+00	1072
2	TraesCS2A01G326100	chr2A	91.667	744	35	13	805	1533	555887236	555887967	0.000000e+00	1005
3	TraesCS2A01G326100	chr2A	89.359	733	41	17	829	1544	555883165	555883877	0.000000e+00	887
4	TraesCS2A01G326100	chr2A	87.396	722	65	11	1944	2649	555884401	555885112	0.000000e+00	806
5	TraesCS2A01G326100	chr2A	89.711	311	25	6	1625	1933	555884020	555884325	1.190000e-104	390
6	TraesCS2A01G326100	chr2A	84.412	340	49	3	2101	2439	556378769	556379105	7.290000e-87	331
7	TraesCS2A01G326100	chr2A	80.000	210	33	4	1333	1533	451013338	451013129	2.830000e-31	147
8	TraesCS2A01G326100	chr2D	90.055	3630	212	59	1	3521	430023988	430020399	0.000000e+00	4566
9	TraesCS2A01G326100	chr2D	87.512	1033	89	19	1625	2641	430433608	430432600	0.000000e+00	1157
10	TraesCS2A01G326100	chr2D	91.064	761	29	18	805	1542	430434378	430433634	0.000000e+00	992
11	TraesCS2A01G326100	chr2D	88.745	693	39	17	829	1499	430442142	430441467	0.000000e+00	811
12	TraesCS2A01G326100	chr2D	86.695	714	70	11	1944	2641	430440481	430439777	0.000000e+00	769
13	TraesCS2A01G326100	chr2D	87.640	267	25	6	1672	1936	430440938	430440678	1.590000e-78	303
14	TraesCS2A01G326100	chr2D	87.660	235	28	1	993	1227	340510863	340511096	4.480000e-69	272
15	TraesCS2A01G326100	chr2B	86.317	1374	113	27	1632	2937	507912031	507910665	0.000000e+00	1426
16	TraesCS2A01G326100	chr2B	90.710	915	38	7	639	1542	507912945	507912067	0.000000e+00	1175
17	TraesCS2A01G326100	chr2B	87.094	1015	95	15	1637	2639	508183218	508182228	0.000000e+00	1116
18	TraesCS2A01G326100	chr2B	93.511	601	34	4	946	1542	508193399	508192800	0.000000e+00	889
19	TraesCS2A01G326100	chr2B	91.463	656	33	11	904	1542	508215230	508214581	0.000000e+00	880
20	TraesCS2A01G326100	chr2B	87.024	709	72	9	1944	2641	508214180	508213481	0.000000e+00	782
21	TraesCS2A01G326100	chr2B	87.540	313	32	5	1625	1936	508214558	508214252	4.330000e-94	355
22	TraesCS2A01G326100	chr5D	83.746	646	93	8	46	681	175808641	175809284	5.030000e-168	601
23	TraesCS2A01G326100	chr5D	79.877	651	113	13	46	681	192262570	192261923	8.910000e-126	460
24	TraesCS2A01G326100	chr7B	81.159	690	115	11	2	681	131170854	131170170	1.110000e-149	540
25	TraesCS2A01G326100	chr6D	81.135	705	98	17	2	681	56429173	56428479	1.860000e-147	532
26	TraesCS2A01G326100	chr4D	80.678	678	111	14	2	668	5927491	5926823	3.140000e-140	508
27	TraesCS2A01G326100	chr1B	80.655	641	97	14	46	681	493720816	493721434	4.120000e-129	472
28	TraesCS2A01G326100	chr3B	80.218	642	95	19	46	674	10564231	10564853	1.490000e-123	453
29	TraesCS2A01G326100	chr3A	79.442	681	106	24	1	668	507324967	507324308	5.360000e-123	451
30	TraesCS2A01G326100	chr3A	77.909	593	107	16	44	618	670649642	670649056	7.240000e-92	348

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	TraesCS2A01G326100	chr2A	556985376	556988898	3522	False	6506.000000	6506	100.000000	1	3523	1	chr2A.!!$F2	3522
1	TraesCS2A01G326100	chr2A	555883165	555889015	5850	False	832.000000	1072	88.830000	805	2649	5	chr2A.!!$F3	1844
2	TraesCS2A01G326100	chr2D	430020399	430023988	3589	True	4566.000000	4566	90.055000	1	3521	1	chr2D.!!$R1	3520
3	TraesCS2A01G326100	chr2D	430432600	430434378	1778	True	1074.500000	1157	89.288000	805	2641	2	chr2D.!!$R2	1836
4	TraesCS2A01G326100	chr2D	430439777	430442142	2365	True	627.666667	811	87.693333	829	2641	3	chr2D.!!$R3	1812
5	TraesCS2A01G326100	chr2B	507910665	507912945	2280	True	1300.500000	1426	88.513500	639	2937	2	chr2B.!!$R3	2298
6	TraesCS2A01G326100	chr2B	508182228	508183218	990	True	1116.000000	1116	87.094000	1637	2639	1	chr2B.!!$R1	1002
7	TraesCS2A01G326100	chr2B	508192800	508193399	599	True	889.000000	889	93.511000	946	1542	1	chr2B.!!$R2	596
8	TraesCS2A01G326100	chr2B	508213481	508215230	1749	True	672.333333	880	88.675667	904	2641	3	chr2B.!!$R4	1737
9	TraesCS2A01G326100	chr5D	175808641	175809284	643	False	601.000000	601	83.746000	46	681	1	chr5D.!!$F1	635
10	TraesCS2A01G326100	chr5D	192261923	192262570	647	True	460.000000	460	79.877000	46	681	1	chr5D.!!$R1	635
11	TraesCS2A01G326100	chr7B	131170170	131170854	684	True	540.000000	540	81.159000	2	681	1	chr7B.!!$R1	679
12	TraesCS2A01G326100	chr6D	56428479	56429173	694	True	532.000000	532	81.135000	2	681	1	chr6D.!!$R1	679
13	TraesCS2A01G326100	chr4D	5926823	5927491	668	True	508.000000	508	80.678000	2	668	1	chr4D.!!$R1	666
14	TraesCS2A01G326100	chr1B	493720816	493721434	618	False	472.000000	472	80.655000	46	681	1	chr1B.!!$F1	635
15	TraesCS2A01G326100	chr3B	10564231	10564853	622	False	453.000000	453	80.218000	46	674	1	chr3B.!!$F1	628
16	TraesCS2A01G326100	chr3A	507324308	507324967	659	True	451.000000	451	79.442000	1	668	1	chr3A.!!$R1	667
17	TraesCS2A01G326100	chr3A	670649056	670649642	586	True	348.000000	348	77.909000	44	618	1	chr3A.!!$R2	574

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
573	592	0.458260	CGTCCACATATCGTCCCACA	59.542	55.0	0.0	0.0	0.00	4.17	F
2019	2935	0.251474	TGGCGTACAGTCCACTAGGT	60.251	55.0	0.0	0.0	35.89	3.08	F

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability	Orientation
2394	3338	0.461961	GCGTAGGATTCCAGCTCAGT	59.538	55.0	5.29	0.0	0.0	3.41	R
2988	7898	0.040425	CAGTGCGTGTTTTGTAGCCC	60.040	55.0	0.00	0.0	0.0	5.19	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
84	85	3.629398	GGTCATCTTGATCGGCATTTCTT	59.371	43.478	0.00	0.00	0.00	2.52
143	154	4.289245	CGTCGTTGACCCCCGTGT	62.289	66.667	0.00	0.00	0.00	4.49
153	164	1.380785	CCCCCGTGTGCCTCTACTA	60.381	63.158	0.00	0.00	0.00	1.82
299	314	3.474570	GGACTCCTGCATCGCCCT	61.475	66.667	0.00	0.00	0.00	5.19
300	315	2.202987	GACTCCTGCATCGCCCTG	60.203	66.667	0.00	0.00	0.00	4.45
315	330	3.461773	CTGACCCGACGGCCTCAT	61.462	66.667	8.86	0.00	0.00	2.90
340	355	2.517414	GGCAGCCCATCATAGCCA	59.483	61.111	0.00	0.00	44.59	4.75
342	357	1.150081	GCAGCCCATCATAGCCACT	59.850	57.895	0.00	0.00	0.00	4.00
444	459	4.103103	TCGTCCTCAGCTGCGTCG	62.103	66.667	9.47	10.99	0.00	5.12
573	592	0.458260	CGTCCACATATCGTCCCACA	59.542	55.000	0.00	0.00	0.00	4.17
673	692	2.169789	CGGCTTGATCACCTGCTCG	61.170	63.158	12.37	10.66	0.00	5.03
676	696	1.086634	GCTTGATCACCTGCTCGTCC	61.087	60.000	0.00	0.00	0.00	4.79
687	707	3.461773	CTCGTCCCCGCCACTCAT	61.462	66.667	0.00	0.00	0.00	2.90
740	760	1.883275	CTCACCATTTTTGTGGCGGTA	59.117	47.619	0.00	0.00	43.27	4.02
850	886	1.094073	TACGCGACCCTCTGCTCTAC	61.094	60.000	15.93	0.00	0.00	2.59
861	897	1.818642	CTGCTCTACTTTGGCAGCTT	58.181	50.000	0.00	0.00	45.04	3.74
1313	1518	2.501128	CGGATGTCTGACCGGCAT	59.499	61.111	0.00	0.00	44.59	4.40
1415	1655	3.550431	CGGGAGGTCCATGGCGAT	61.550	66.667	6.96	0.00	37.91	4.58
1615	2257	3.802685	ACTAGCACTTGTTCAACTTCGTC	59.197	43.478	0.00	0.00	0.00	4.20
1616	2258	2.906354	AGCACTTGTTCAACTTCGTCT	58.094	42.857	0.00	0.00	0.00	4.18
1617	2259	2.866762	AGCACTTGTTCAACTTCGTCTC	59.133	45.455	0.00	0.00	0.00	3.36
1618	2260	2.607635	GCACTTGTTCAACTTCGTCTCA	59.392	45.455	0.00	0.00	0.00	3.27
1619	2261	3.248602	GCACTTGTTCAACTTCGTCTCAT	59.751	43.478	0.00	0.00	0.00	2.90
1620	2262	4.260784	GCACTTGTTCAACTTCGTCTCATT	60.261	41.667	0.00	0.00	0.00	2.57
1621	2263	5.200454	CACTTGTTCAACTTCGTCTCATTG	58.800	41.667	0.00	0.00	0.00	2.82
1622	2264	5.006649	CACTTGTTCAACTTCGTCTCATTGA	59.993	40.000	0.00	0.00	0.00	2.57
1623	2265	5.006746	ACTTGTTCAACTTCGTCTCATTGAC	59.993	40.000	0.00	0.00	42.06	3.18
1635	2278	7.987268	TCGTCTCATTGACTCATTTATACAC	57.013	36.000	0.00	0.00	43.25	2.90
1643	2286	6.925610	TGACTCATTTATACACATTGAGGC	57.074	37.500	0.00	0.00	41.80	4.70
1679	2322	4.484912	ACCAGTCTACCTTCTTGACTTCT	58.515	43.478	0.00	0.00	38.80	2.85
1757	2407	3.319198	GGGTTGTCGGAGGCCTCA	61.319	66.667	33.29	12.26	0.00	3.86
1758	2408	2.670148	GGGTTGTCGGAGGCCTCAT	61.670	63.158	33.29	0.00	0.00	2.90
1811	2518	1.153647	CATCACCGCCGTTCAGCTA	60.154	57.895	0.00	0.00	0.00	3.32
1885	2597	2.416162	GGTTTTTGCAACGACCACAGAA	60.416	45.455	20.26	0.00	32.41	3.02
1916	2642	9.584839	CTTTTTCTTTTCACAGTTTGTTTTCAG	57.415	29.630	0.00	0.00	0.00	3.02
1959	2875	9.595357	CTAACGAAATGTCCTAAAAAGAACTTC	57.405	33.333	0.00	0.00	0.00	3.01
1992	2908	4.067896	TCTGTTTCAGAGAACTTGGCATC	58.932	43.478	0.00	0.00	35.39	3.91
2019	2935	0.251474	TGGCGTACAGTCCACTAGGT	60.251	55.000	0.00	0.00	35.89	3.08
2037	2953	5.593502	ACTAGGTAGAGGTTTTCTATCCACG	59.406	44.000	0.00	0.00	39.89	4.94
2050	2966	1.946984	ATCCACGGGACCTAAACTGA	58.053	50.000	0.00	0.00	32.98	3.41
2137	3077	5.746990	AGCTAGCTTACTTTTCTCCTTCA	57.253	39.130	12.68	0.00	0.00	3.02
2270	3214	3.632107	GGTTGCACGTCGTCGCAA	61.632	61.111	22.58	22.58	45.45	4.85
2394	3338	1.670949	GCTCACGGCTGAGGAGATGA	61.671	60.000	18.80	2.71	43.90	2.92
2423	3367	0.180406	AATCCTACGCCACCATGGAC	59.820	55.000	21.47	6.42	40.96	4.02
2457	3401	2.676632	TCGGTACCACAATGCGTATT	57.323	45.000	13.54	0.00	0.00	1.89
2499	7346	2.947785	ACTCCGAGACCCCTCCCT	60.948	66.667	1.33	0.00	36.04	4.20
2504	7351	2.711922	CGAGACCCCTCCCTTGTCG	61.712	68.421	0.00	0.00	36.04	4.35
2641	7492	6.705381	TGAAATCATGAAACCACCAATTGTTC	59.295	34.615	0.00	1.92	0.00	3.18
2652	7531	3.006110	CACCAATTGTTCACTCATGCCTT	59.994	43.478	4.43	0.00	0.00	4.35
2774	7681	5.747197	CCCTATGATACGTTCACAACACTAC	59.253	44.000	0.00	0.00	37.11	2.73
2834	7741	9.511272	TGTATCCCCTTAGTTTCTAACTTTTTC	57.489	33.333	0.00	0.00	42.81	2.29
2957	7867	2.046314	CCCTGCCCTACAACACCG	60.046	66.667	0.00	0.00	0.00	4.94
2958	7868	2.046314	CCTGCCCTACAACACCGG	60.046	66.667	0.00	0.00	0.00	5.28
2972	7882	0.839946	CACCGGGGATCTCATTCCTT	59.160	55.000	6.32	0.00	35.97	3.36
2982	7892	2.745884	CATTCCTTGCGCGGGTCA	60.746	61.111	8.83	0.00	0.00	4.02
3001	7911	1.272212	CATGGGTGGGCTACAAAACAC	59.728	52.381	2.66	0.00	0.00	3.32
3006	7916	0.464735	TGGGCTACAAAACACGCACT	60.465	50.000	0.00	0.00	0.00	4.40
3010	7920	1.329292	GCTACAAAACACGCACTGTCA	59.671	47.619	0.00	0.00	30.29	3.58
3043	7954	3.224269	GGGTGGGCTGTTAGTTTGTTTA	58.776	45.455	0.00	0.00	0.00	2.01
3070	7981	5.290885	TCCTTTTTCTTTCTTGCGCTTTTTC	59.709	36.000	9.73	0.00	0.00	2.29
3081	7999	6.970484	TCTTGCGCTTTTTCTTCTTTATTCT	58.030	32.000	9.73	0.00	0.00	2.40
3464	8383	2.991190	GCGTGAACTTTTATCGACTCCA	59.009	45.455	0.00	0.00	0.00	3.86
3468	8387	5.520288	CGTGAACTTTTATCGACTCCATGAT	59.480	40.000	0.00	0.00	0.00	2.45
3518	8441	6.618287	TTGAACTCGTGACATTTTCTGAAT	57.382	33.333	0.00	0.00	0.00	2.57
3521	8444	6.259829	TGAACTCGTGACATTTTCTGAATTGA	59.740	34.615	7.58	0.00	0.00	2.57
3522	8445	5.990408	ACTCGTGACATTTTCTGAATTGAC	58.010	37.500	7.58	3.27	0.00	3.18

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
48	49	3.519930	GACCGGCGGGAGAGAGAC	61.520	72.222	31.78	6.86	36.97	3.36
49	50	3.360423	ATGACCGGCGGGAGAGAGA	62.360	63.158	31.78	5.55	36.97	3.10
84	85	6.417191	CGATCTAAGATCGGAAACCAAAAA	57.583	37.500	0.00	0.00	37.84	1.94
143	154	0.892755	CCGGTGTTGTAGTAGAGGCA	59.107	55.000	0.00	0.00	0.00	4.75
237	252	1.138247	GCGTAGATCGACGGGTGTT	59.862	57.895	26.24	0.00	43.13	3.32
238	253	2.768492	GGCGTAGATCGACGGGTGT	61.768	63.158	26.24	0.00	43.13	4.16
299	314	3.770040	CATGAGGCCGTCGGGTCA	61.770	66.667	14.38	0.00	41.80	4.02
406	421	4.457496	CGGCGAGGCAGACCACAT	62.457	66.667	0.00	0.00	39.06	3.21
482	498	4.162690	GAGGCCGGAGCGACCAAT	62.163	66.667	5.05	0.00	41.24	3.16
559	578	0.458669	GACGGTGTGGGACGATATGT	59.541	55.000	0.00	0.00	0.00	2.29
563	582	3.755628	CGGACGGTGTGGGACGAT	61.756	66.667	0.00	0.00	0.00	3.73
646	665	2.511373	ATCAAGCCGATCGCGCAA	60.511	55.556	24.07	13.17	44.76	4.85
647	666	2.961721	GATCAAGCCGATCGCGCA	60.962	61.111	24.07	9.51	41.24	6.09
673	692	1.745489	GACAATGAGTGGCGGGGAC	60.745	63.158	0.00	0.00	0.00	4.46
676	696	1.378882	CCATGACAATGAGTGGCGGG	61.379	60.000	0.00	0.00	38.59	6.13
687	707	7.608153	TCTAGATTTTTCGTACTCCATGACAA	58.392	34.615	0.00	0.00	0.00	3.18
797	817	2.380941	TGGACATGATCTTTGGGCATG	58.619	47.619	0.00	0.00	43.70	4.06
798	818	2.832643	TGGACATGATCTTTGGGCAT	57.167	45.000	0.00	0.00	0.00	4.40
799	819	2.832643	ATGGACATGATCTTTGGGCA	57.167	45.000	0.00	0.00	0.00	5.36
800	820	3.448301	TGAAATGGACATGATCTTTGGGC	59.552	43.478	0.00	0.00	0.00	5.36
801	821	5.664294	TTGAAATGGACATGATCTTTGGG	57.336	39.130	0.00	0.00	0.00	4.12
802	822	9.656040	TTAAATTGAAATGGACATGATCTTTGG	57.344	29.630	0.00	0.00	0.00	3.28
804	824	9.357652	CGTTAAATTGAAATGGACATGATCTTT	57.642	29.630	0.00	0.00	0.00	2.52
805	825	8.522830	ACGTTAAATTGAAATGGACATGATCTT	58.477	29.630	0.00	0.00	0.00	2.40
806	826	8.055279	ACGTTAAATTGAAATGGACATGATCT	57.945	30.769	0.00	0.00	0.00	2.75
807	827	9.221775	GTACGTTAAATTGAAATGGACATGATC	57.778	33.333	0.00	0.00	28.75	2.92
808	828	7.908082	CGTACGTTAAATTGAAATGGACATGAT	59.092	33.333	7.22	0.00	28.75	2.45
809	829	7.237871	CGTACGTTAAATTGAAATGGACATGA	58.762	34.615	7.22	0.00	28.75	3.07
850	886	2.415893	CGGGTTGAATAAGCTGCCAAAG	60.416	50.000	0.00	0.00	34.28	2.77
861	897	1.077787	CCAGGCTGCGGGTTGAATA	60.078	57.895	9.56	0.00	0.00	1.75
938	990	4.055710	TGGTGGATGAGTAAGTAGGTCA	57.944	45.455	0.00	0.00	0.00	4.02
994	1046	2.435586	AGCAGCAGCCATGTCGTC	60.436	61.111	0.00	0.00	43.56	4.20
1313	1518	4.825422	CCTGCTTTATCACAGAGAACTCA	58.175	43.478	4.64	0.00	35.90	3.41
1616	2258	9.112725	CCTCAATGTGTATAAATGAGTCAATGA	57.887	33.333	0.00	0.00	36.61	2.57
1617	2259	7.859377	GCCTCAATGTGTATAAATGAGTCAATG	59.141	37.037	0.00	0.00	36.61	2.82
1618	2260	7.013655	GGCCTCAATGTGTATAAATGAGTCAAT	59.986	37.037	0.00	0.00	36.61	2.57
1619	2261	6.318648	GGCCTCAATGTGTATAAATGAGTCAA	59.681	38.462	0.00	0.00	36.61	3.18
1620	2262	5.822519	GGCCTCAATGTGTATAAATGAGTCA	59.177	40.000	0.00	0.00	36.61	3.41
1621	2263	6.058183	AGGCCTCAATGTGTATAAATGAGTC	58.942	40.000	0.00	0.00	36.61	3.36
1622	2264	6.006275	AGGCCTCAATGTGTATAAATGAGT	57.994	37.500	0.00	0.00	36.61	3.41
1623	2265	6.319658	ACAAGGCCTCAATGTGTATAAATGAG	59.680	38.462	5.23	0.00	37.77	2.90
1635	2278	4.576463	GTCAATACCTACAAGGCCTCAATG	59.424	45.833	5.23	2.79	39.63	2.82
1643	2286	5.163437	GGTAGACTGGTCAATACCTACAAGG	60.163	48.000	10.19	0.00	46.91	3.61
1679	2322	3.966665	TCTCACCCATCTACATGCATACA	59.033	43.478	0.00	0.00	0.00	2.29
1736	2386	2.428925	GGCCTCCGACAACCCGATA	61.429	63.158	0.00	0.00	0.00	2.92
1757	2407	2.102420	TGCCCGTCTTATTGTCGATGAT	59.898	45.455	0.00	0.00	0.00	2.45
1758	2408	1.478916	TGCCCGTCTTATTGTCGATGA	59.521	47.619	0.00	0.00	0.00	2.92
1835	2542	8.338259	CAAGTTGGGATTATATCTTCTTCAACG	58.662	37.037	0.00	0.00	37.58	4.10
1885	2597	7.892609	ACAAACTGTGAAAAGAAAAAGGTAGT	58.107	30.769	0.00	0.00	0.00	2.73
1916	2642	8.630278	TTTCGTTAGTACTATGAAGCTGATTC	57.370	34.615	2.79	0.00	38.50	2.52
1992	2908	0.719465	GACTGTACGCCACAATTCCG	59.281	55.000	0.00	0.00	36.48	4.30
2019	2935	3.703052	GTCCCGTGGATAGAAAACCTCTA	59.297	47.826	0.00	0.00	41.00	2.43
2037	2953	2.304761	TGTGTCCATCAGTTTAGGTCCC	59.695	50.000	0.00	0.00	0.00	4.46
2050	2966	2.168521	CGTCCTCTGGTAATGTGTCCAT	59.831	50.000	0.00	0.00	33.01	3.41
2189	3133	0.537188	TCTTCTCCATGTTCTCGGGC	59.463	55.000	0.00	0.00	0.00	6.13
2394	3338	0.461961	GCGTAGGATTCCAGCTCAGT	59.538	55.000	5.29	0.00	0.00	3.41
2423	3367	1.884464	CCGATCACCATGGACAGCG	60.884	63.158	21.47	17.79	0.00	5.18
2450	3394	6.597672	AGGTGTTTAGATTCATCAAATACGCA	59.402	34.615	0.00	0.00	0.00	5.24
2457	3401	5.945784	CCTTCCAGGTGTTTAGATTCATCAA	59.054	40.000	0.00	0.00	0.00	2.57
2499	7346	0.534203	GTGGCTTTCCAGGACGACAA	60.534	55.000	0.00	0.00	44.48	3.18
2504	7351	2.814336	CAACTAAGTGGCTTTCCAGGAC	59.186	50.000	0.00	0.00	44.48	3.85
2527	7374	7.468768	GCATCAGCATAATGATTCCCATGATAG	60.469	40.741	0.00	0.00	37.84	2.08
2626	7477	4.740334	GCATGAGTGAACAATTGGTGGTTT	60.740	41.667	10.83	0.00	0.00	3.27
2641	7492	2.028420	TTGGATCGAAGGCATGAGTG	57.972	50.000	0.00	0.00	0.00	3.51
2652	7531	7.390440	AGAGTTGTGTCAATTAATTTGGATCGA	59.610	33.333	0.00	0.00	35.92	3.59
2803	7710	9.670442	AGTTAGAAACTAAGGGGATACATCATA	57.330	33.333	0.00	0.00	40.69	2.15
2834	7741	6.656632	TGAGAATTAGAGCCATAGGTAGTG	57.343	41.667	0.00	0.00	0.00	2.74
2909	7818	8.514330	ACGGGAATATTAGCATGTTTTCTTTA	57.486	30.769	0.00	0.00	0.00	1.85
2957	7867	1.169034	GCGCAAGGAATGAGATCCCC	61.169	60.000	0.30	0.00	40.59	4.81
2958	7868	1.502163	CGCGCAAGGAATGAGATCCC	61.502	60.000	8.75	0.00	40.59	3.85
2982	7892	1.627864	GTGTTTTGTAGCCCACCCAT	58.372	50.000	0.00	0.00	0.00	4.00
2987	7897	0.464735	AGTGCGTGTTTTGTAGCCCA	60.465	50.000	0.00	0.00	0.00	5.36
2988	7898	0.040425	CAGTGCGTGTTTTGTAGCCC	60.040	55.000	0.00	0.00	0.00	5.19
2989	7899	0.661020	ACAGTGCGTGTTTTGTAGCC	59.339	50.000	0.00	0.00	34.94	3.93
2992	7902	1.666700	GGTGACAGTGCGTGTTTTGTA	59.333	47.619	0.00	0.00	40.56	2.41
3001	7911	3.941188	ACTGGGGGTGACAGTGCG	61.941	66.667	0.00	0.00	46.67	5.34
3043	7954	3.319122	AGCGCAAGAAAGAAAAAGGACAT	59.681	39.130	11.47	0.00	43.02	3.06
3194	8113	9.644993	CGAATTTAAAAAGTGTTTGGGATTTTC	57.355	29.630	0.00	0.00	0.00	2.29
3196	8115	8.725405	ACGAATTTAAAAAGTGTTTGGGATTT	57.275	26.923	0.00	0.00	0.00	2.17
3197	8116	9.819267	TTACGAATTTAAAAAGTGTTTGGGATT	57.181	25.926	0.00	0.00	0.00	3.01
3198	8117	9.819267	TTTACGAATTTAAAAAGTGTTTGGGAT	57.181	25.926	0.00	0.00	0.00	3.85
3199	8118	9.085250	GTTTACGAATTTAAAAAGTGTTTGGGA	57.915	29.630	0.00	0.00	0.00	4.37
3200	8119	9.089601	AGTTTACGAATTTAAAAAGTGTTTGGG	57.910	29.630	0.00	0.00	0.00	4.12
3429	8348	6.660887	AAGTTCACGCATTTCAAAATTGTT	57.339	29.167	0.00	0.00	0.00	2.83
3445	8364	6.910536	ATCATGGAGTCGATAAAAGTTCAC	57.089	37.500	0.00	0.00	0.00	3.18

Based at the University of Bristol with support from BBSRC.

AutoCloner maintained by Alex Coulton.