AutoCloner

Multiple sequence alignment - TraesCS1D01G257900

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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	TraesCS1D01G257900	chr1D	100.000	2791	0	0	1	2791	350907152	350909942	0.000000e+00	5155.0
1	TraesCS1D01G257900	chr1D	82.219	703	91	23	2044	2737	273217094	273216417	2.410000e-160	575.0
2	TraesCS1D01G257900	chr6B	93.358	1084	50	11	851	1922	136918082	136919155	0.000000e+00	1583.0
3	TraesCS1D01G257900	chr6B	79.643	560	85	17	2190	2738	309313647	309313106	2.620000e-100	375.0
4	TraesCS1D01G257900	chr6B	78.033	478	60	30	266	703	497825129	497824657	2.760000e-65	259.0
5	TraesCS1D01G257900	chr1A	95.095	632	27	3	1998	2627	451739638	451740267	0.000000e+00	992.0
6	TraesCS1D01G257900	chr1A	90.398	729	30	6	1	720	451726668	451727365	0.000000e+00	922.0
7	TraesCS1D01G257900	chr1A	92.857	560	20	12	946	1488	451736028	451736584	0.000000e+00	795.0
8	TraesCS1D01G257900	chr1A	93.790	467	22	3	1521	1980	451736581	451737047	0.000000e+00	695.0
9	TraesCS1D01G257900	chr1A	92.818	181	11	1	736	914	451735535	451735715	7.670000e-66	261.0
10	TraesCS1D01G257900	chr1A	94.083	169	10	0	2623	2791	451741157	451741325	9.920000e-65	257.0
11	TraesCS1D01G257900	chr3D	81.974	699	97	18	2046	2737	97301447	97302123	1.450000e-157	566.0
12	TraesCS1D01G257900	chr3D	78.831	633	99	24	2115	2737	587370956	587370349	7.250000e-106	394.0
13	TraesCS1D01G257900	chr3D	80.178	449	43	25	266	703	347610921	347611334	7.560000e-76	294.0
14	TraesCS1D01G257900	chr3D	95.902	122	5	0	186	307	598417057	598416936	6.100000e-47	198.0
15	TraesCS1D01G257900	chr3D	88.785	107	12	0	582	688	580428062	580427956	6.270000e-27	132.0
16	TraesCS1D01G257900	chr5D	81.382	709	97	20	2037	2737	477220206	477219525	1.890000e-151	545.0
17	TraesCS1D01G257900	chr5D	82.222	315	29	14	555	846	456091296	456091606	2.150000e-61	246.0
18	TraesCS1D01G257900	chr5D	89.720	107	11	0	582	688	168711452	168711346	1.350000e-28	137.0
19	TraesCS1D01G257900	chr6D	80.780	692	96	17	2050	2737	374170143	374169485	8.920000e-140	507.0
20	TraesCS1D01G257900	chr6D	79.265	680	95	28	2068	2737	56799338	56798695	1.540000e-117	433.0
21	TraesCS1D01G257900	chr6D	84.574	188	21	7	552	734	226774388	226774204	2.210000e-41	180.0
22	TraesCS1D01G257900	chr6D	81.921	177	21	5	684	849	226774198	226774022	3.750000e-29	139.0
23	TraesCS1D01G257900	chr1B	80.960	646	102	13	2099	2737	291998530	291997899	2.500000e-135	492.0
24	TraesCS1D01G257900	chr2D	85.033	461	37	14	298	749	598614952	598615389	9.180000e-120	440.0
25	TraesCS1D01G257900	chr7A	83.168	404	45	10	298	701	236803351	236802971	5.720000e-92	348.0
26	TraesCS1D01G257900	chr2A	77.320	485	58	28	266	701	775611098	775610617	3.590000e-59	239.0
27	TraesCS1D01G257900	chr2A	95.522	134	6	0	298	431	732549421	732549554	6.050000e-52	215.0
28	TraesCS1D01G257900	chr2A	84.946	93	10	4	439	530	732549510	732549599	1.060000e-14	91.6
29	TraesCS1D01G257900	chrUn	77.931	435	49	22	266	697	394796113	394796503	7.780000e-56	228.0
30	TraesCS1D01G257900	chr4B	76.701	485	60	30	266	701	624393368	624393848	1.300000e-53	220.0
31	TraesCS1D01G257900	chr7D	76.433	471	49	31	265	703	514909622	514909182	6.100000e-47	198.0
32	TraesCS1D01G257900	chr4A	82.819	227	30	1	486	703	377605225	377605451	7.890000e-46	195.0
33	TraesCS1D01G257900	chr4A	88.158	152	17	1	582	733	570660400	570660250	2.210000e-41	180.0
34	TraesCS1D01G257900	chr4A	89.524	105	11	0	751	855	570660177	570660073	1.740000e-27	134.0
35	TraesCS1D01G257900	chr4A	82.781	151	10	5	266	413	377604978	377605115	1.360000e-23	121.0
36	TraesCS1D01G257900	chr4A	84.043	94	15	0	486	579	598704960	598705053	1.060000e-14	91.6
37	TraesCS1D01G257900	chr5B	78.261	322	49	13	2420	2737	631220158	631220462	1.320000e-43	187.0
38	TraesCS1D01G257900	chr3B	75.745	470	60	26	269	703	629593153	629592703	1.320000e-43	187.0
39	TraesCS1D01G257900	chr5A	82.143	224	31	1	489	703	136822499	136822276	1.710000e-42	183.0
40	TraesCS1D01G257900	chr5A	83.221	149	10	4	269	415	382761777	382761642	3.780000e-24	122.0
41	TraesCS1D01G257900	chr5A	91.667	60	4	1	790	849	382761125	382761067	6.410000e-12	82.4
42	TraesCS1D01G257900	chr5A	90.164	61	4	2	790	849	136822093	136822034	8.290000e-11	78.7
43	TraesCS1D01G257900	chr7B	75.159	471	49	33	265	703	58747062	58747496	2.880000e-35	159.0
44	TraesCS1D01G257900	chr7B	93.976	83	5	0	764	846	537020639	537020721	2.920000e-25	126.0
45	TraesCS1D01G257900	chr2B	84.106	151	18	5	705	853	36362727	36362581	1.040000e-29	141.0
46	TraesCS1D01G257900	chr2B	77.193	285	32	18	448	701	136270525	136270243	4.850000e-28	135.0
47	TraesCS1D01G257900	chr2B	91.667	60	5	0	790	849	136270100	136270041	1.780000e-12	84.2

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	TraesCS1D01G257900	chr1D	350907152	350909942	2790	False	5155	5155	100.0000	1	2791	1	chr1D.!!$F1	2790
1	TraesCS1D01G257900	chr1D	273216417	273217094	677	True	575	575	82.2190	2044	2737	1	chr1D.!!$R1	693
2	TraesCS1D01G257900	chr6B	136918082	136919155	1073	False	1583	1583	93.3580	851	1922	1	chr6B.!!$F1	1071
3	TraesCS1D01G257900	chr6B	309313106	309313647	541	True	375	375	79.6430	2190	2738	1	chr6B.!!$R1	548
4	TraesCS1D01G257900	chr1A	451726668	451727365	697	False	922	922	90.3980	1	720	1	chr1A.!!$F1	719
5	TraesCS1D01G257900	chr1A	451735535	451741325	5790	False	600	992	93.7286	736	2791	5	chr1A.!!$F2	2055
6	TraesCS1D01G257900	chr3D	97301447	97302123	676	False	566	566	81.9740	2046	2737	1	chr3D.!!$F1	691
7	TraesCS1D01G257900	chr3D	587370349	587370956	607	True	394	394	78.8310	2115	2737	1	chr3D.!!$R2	622
8	TraesCS1D01G257900	chr5D	477219525	477220206	681	True	545	545	81.3820	2037	2737	1	chr5D.!!$R2	700
9	TraesCS1D01G257900	chr6D	374169485	374170143	658	True	507	507	80.7800	2050	2737	1	chr6D.!!$R2	687
10	TraesCS1D01G257900	chr6D	56798695	56799338	643	True	433	433	79.2650	2068	2737	1	chr6D.!!$R1	669
11	TraesCS1D01G257900	chr1B	291997899	291998530	631	True	492	492	80.9600	2099	2737	1	chr1B.!!$R1	638

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
642	652	0.168348	GACGCGAGCAGAGTGACTAA	59.832	55.0	15.93	0.0	31.42	2.24	F
1238	1553	0.458669	TTCCGCTCACGTAATCCTCC	59.541	55.0	0.00	0.0	37.70	4.30	F

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability	Orientation
1786	2102	0.108615	CACACGGAGGTTAGCTCAGG	60.109	60.0	15.1	8.08	0.0	3.86	R
2642	6458	0.532862	CACGCACTCCACAGAACCTT	60.533	55.0	0.0	0.00	0.0	3.50	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
80	82	5.941647	TCATTCAAATGATCTGAGAGTTGCA	59.058	36.000	1.30	0.00	40.32	4.08
88	90	6.966534	TGATCTGAGAGTTGCATATACTCA	57.033	37.500	17.14	13.82	43.52	3.41
149	151	9.243637	TGCTAGTTGTTCACAATTCAAAATAAC	57.756	29.630	0.00	0.00	38.24	1.89
155	157	9.645059	TTGTTCACAATTCAAAATAACTTCACA	57.355	25.926	0.00	0.00	0.00	3.58
166	168	7.391554	TCAAAATAACTTCACAGGGATCTTCTG	59.608	37.037	12.73	12.73	38.16	3.02
167	169	6.627087	AATAACTTCACAGGGATCTTCTGA	57.373	37.500	18.63	2.31	36.22	3.27
169	171	5.511386	AACTTCACAGGGATCTTCTGAAT	57.489	39.130	18.63	0.62	36.22	2.57
172	174	7.020827	ACTTCACAGGGATCTTCTGAATTTA	57.979	36.000	18.63	4.01	36.22	1.40
173	175	7.637511	ACTTCACAGGGATCTTCTGAATTTAT	58.362	34.615	18.63	0.00	36.22	1.40
202	205	6.699575	ATGCCTTGTAAATTGATGGAGTAC	57.300	37.500	0.00	0.00	0.00	2.73
221	224	7.387673	TGGAGTACAGTAGTTGACAATCATTTG	59.612	37.037	0.00	0.00	38.86	2.32
224	227	8.939929	AGTACAGTAGTTGACAATCATTTGATG	58.060	33.333	0.00	0.00	36.64	3.07
231	234	7.719483	AGTTGACAATCATTTGATGAAACACT	58.281	30.769	0.00	0.00	43.50	3.55
236	239	9.844790	GACAATCATTTGATGAAACACTGAATA	57.155	29.630	0.00	0.00	43.50	1.75
333	336	5.012046	ACACTCATGGAGTACTTCATTGACA	59.988	40.000	14.39	0.00	41.37	3.58
334	337	5.349817	CACTCATGGAGTACTTCATTGACAC	59.650	44.000	14.39	0.00	41.37	3.67
335	338	5.247110	ACTCATGGAGTACTTCATTGACACT	59.753	40.000	14.39	0.00	41.51	3.55
336	339	5.482006	TCATGGAGTACTTCATTGACACTG	58.518	41.667	14.39	3.18	0.00	3.66
337	340	3.664107	TGGAGTACTTCATTGACACTGC	58.336	45.455	0.00	6.75	0.00	4.40
338	341	3.070878	TGGAGTACTTCATTGACACTGCA	59.929	43.478	0.00	10.50	35.56	4.41
339	342	4.065088	GGAGTACTTCATTGACACTGCAA	58.935	43.478	0.00	0.00	0.00	4.08
340	343	4.083802	GGAGTACTTCATTGACACTGCAAC	60.084	45.833	0.00	0.00	0.00	4.17
341	344	4.708177	AGTACTTCATTGACACTGCAACT	58.292	39.130	0.00	0.00	0.00	3.16
342	345	3.976793	ACTTCATTGACACTGCAACTG	57.023	42.857	0.00	0.00	0.00	3.16
343	346	3.544684	ACTTCATTGACACTGCAACTGA	58.455	40.909	0.00	0.00	0.00	3.41
344	347	4.139786	ACTTCATTGACACTGCAACTGAT	58.860	39.130	0.00	0.00	0.00	2.90
375	378	4.466827	TGACACAGGTTCAGAGTACTGTA	58.533	43.478	0.00	0.00	41.85	2.74
404	407	2.438614	CAGCAGCAGCAGAGGCAT	60.439	61.111	3.17	0.00	45.49	4.40
420	423	1.133253	CATTCAGCAGTCGCCAACG	59.867	57.895	0.00	0.00	39.83	4.10
539	549	3.665675	AAGATCCGCGTGACCCTGC	62.666	63.158	4.92	0.00	0.00	4.85
553	563	2.109126	CCTGCCTGCCGAAGTAAGC	61.109	63.158	0.00	0.00	0.00	3.09
559	569	0.526524	CTGCCGAAGTAAGCGAGAGG	60.527	60.000	0.00	0.00	0.00	3.69
560	570	1.227002	GCCGAAGTAAGCGAGAGGG	60.227	63.158	0.00	0.00	0.00	4.30
561	571	1.227002	CCGAAGTAAGCGAGAGGGC	60.227	63.158	0.00	0.00	0.00	5.19
562	572	1.511305	CGAAGTAAGCGAGAGGGCA	59.489	57.895	0.00	0.00	34.64	5.36
563	573	0.526524	CGAAGTAAGCGAGAGGGCAG	60.527	60.000	0.00	0.00	34.64	4.85
564	574	0.808060	GAAGTAAGCGAGAGGGCAGC	60.808	60.000	0.00	0.00	34.64	5.25
565	575	2.564553	AAGTAAGCGAGAGGGCAGCG	62.565	60.000	0.00	0.00	35.78	5.18
566	576	3.838271	TAAGCGAGAGGGCAGCGG	61.838	66.667	0.00	0.00	35.78	5.52
636	646	3.753434	CAGGGACGCGAGCAGAGT	61.753	66.667	15.93	0.00	34.91	3.24
642	652	0.168348	GACGCGAGCAGAGTGACTAA	59.832	55.000	15.93	0.00	31.42	2.24
666	676	3.718210	GATGCCCGTCGAGGTGGTC	62.718	68.421	4.18	3.15	38.74	4.02
768	778	4.824166	CGACGGTGGCTACGACGG	62.824	72.222	15.03	0.00	43.43	4.79
806	816	0.742635	GGCGAAGGAGGAAGAAGCAG	60.743	60.000	0.00	0.00	0.00	4.24
880	892	3.325201	ATTCGAACCCGAGGTGGCC	62.325	63.158	0.00	0.00	46.39	5.36
894	906	4.048470	GGCCTGGGTCTGTTCCCC	62.048	72.222	0.00	0.00	46.48	4.81
925	1196	5.758784	AGCCAAGGTTCTATATAAACGAAGC	59.241	40.000	0.00	4.91	35.90	3.86
957	1251	3.009253	TCCGGCTGGTAACCTATTCAAAA	59.991	43.478	12.43	0.00	36.30	2.44
1004	1310	2.831565	AGAGAGAAAGAGAGCCATGGT	58.168	47.619	14.67	0.00	0.00	3.55
1032	1341	3.069318	AAGGAGGAGGGCGACGAC	61.069	66.667	0.00	0.00	0.00	4.34
1120	1432	2.225467	GCATAGAAGAGGGCATGGTTC	58.775	52.381	0.00	0.00	0.00	3.62
1236	1551	0.460311	CCTTCCGCTCACGTAATCCT	59.540	55.000	0.00	0.00	37.70	3.24
1237	1552	1.536284	CCTTCCGCTCACGTAATCCTC	60.536	57.143	0.00	0.00	37.70	3.71
1238	1553	0.458669	TTCCGCTCACGTAATCCTCC	59.541	55.000	0.00	0.00	37.70	4.30
1252	1567	2.590575	CTCCGCACCCAAACGTGT	60.591	61.111	0.00	0.00	36.08	4.49
1272	1587	2.640332	GTTCTCCTCCCAGGAAGTCTTT	59.360	50.000	0.00	0.00	45.28	2.52
1275	1590	2.499693	CTCCTCCCAGGAAGTCTTTCTC	59.500	54.545	0.00	0.00	45.28	2.87
1573	1888	1.671850	GCGTGGACAATCTTTCGGAGA	60.672	52.381	0.00	0.00	39.13	3.71
1607	1922	0.877743	GACCTTCTGGAGCTGTTTGC	59.122	55.000	0.00	0.00	38.25	3.68
1659	1974	2.187946	GTGGATCGCAGGACAGGG	59.812	66.667	0.00	0.00	0.00	4.45
1697	2013	0.671472	TCGTAGAGTTCGTCCGCAGA	60.671	55.000	0.00	0.00	0.00	4.26
1827	2149	0.400213	TGGACGGCACTGGAATCTTT	59.600	50.000	0.00	0.00	0.00	2.52
1860	2182	4.981415	GCAAAAGCTTGGCTCTGG	57.019	55.556	14.33	0.00	38.25	3.86
1864	2186	1.891150	CAAAAGCTTGGCTCTGGTCAT	59.109	47.619	0.00	0.00	38.25	3.06
1922	2244	7.995488	AGGAATAGGATCTCACCAAGTTATTTG	59.005	37.037	0.00	0.00	36.50	2.32
1955	2277	9.908152	CAATATCTTGTTGCATTGATCATGTAT	57.092	29.630	0.00	0.00	34.98	2.29
2041	4937	6.389091	TCTTGTTTGCATTGATCATGTAACC	58.611	36.000	0.00	0.00	37.22	2.85
2064	4960	5.934043	CCATATTCTTTATGATCACTCGCCA	59.066	40.000	0.00	0.00	0.00	5.69
2382	5290	3.304659	CCGAACTTGTCATTTCCCACTTG	60.305	47.826	0.00	0.00	0.00	3.16
2407	5315	1.367346	TGCCCCTCCTTGACATTACA	58.633	50.000	0.00	0.00	0.00	2.41
2412	5320	3.264450	CCCCTCCTTGACATTACACTTCT	59.736	47.826	0.00	0.00	0.00	2.85
2569	5486	7.653311	GTGAACCATGCAATTCTTTCTAAAGTT	59.347	33.333	0.00	0.00	37.31	2.66
2642	6458	2.582226	CCAATAGCAGTCGCGCGA	60.582	61.111	31.40	31.40	45.49	5.87
2666	6482	0.531974	TCTGTGGAGTGCGTGTTTCC	60.532	55.000	0.00	0.00	0.00	3.13
2675	6491	2.539338	GCGTGTTTCCTCACCGCAA	61.539	57.895	0.00	0.00	37.58	4.85

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
80	82	6.228995	CAGAATGCATGGTCTGTGAGTATAT	58.771	40.000	16.97	0.00	37.16	0.86
149	151	9.050601	GTATAAATTCAGAAGATCCCTGTGAAG	57.949	37.037	11.18	0.00	32.75	3.02
172	174	9.365906	TCCATCAATTTACAAGGCATTATGTAT	57.634	29.630	0.00	0.00	32.46	2.29
173	175	8.759481	TCCATCAATTTACAAGGCATTATGTA	57.241	30.769	0.00	0.00	0.00	2.29
184	187	9.214957	CAACTACTGTACTCCATCAATTTACAA	57.785	33.333	0.00	0.00	0.00	2.41
202	205	9.121517	GTTTCATCAAATGATTGTCAACTACTG	57.878	33.333	0.00	0.00	39.39	2.74
221	224	9.630098	AATGTCAATTGTATTCAGTGTTTCATC	57.370	29.630	5.13	0.00	0.00	2.92
336	339	4.161333	GTGTCAATTGCAGTATCAGTTGC	58.839	43.478	0.00	0.00	40.67	4.17
337	340	5.361135	TGTGTCAATTGCAGTATCAGTTG	57.639	39.130	0.00	0.00	35.72	3.16
338	341	4.456911	CCTGTGTCAATTGCAGTATCAGTT	59.543	41.667	0.00	0.00	0.00	3.16
339	342	4.005650	CCTGTGTCAATTGCAGTATCAGT	58.994	43.478	0.00	0.00	0.00	3.41
340	343	4.005650	ACCTGTGTCAATTGCAGTATCAG	58.994	43.478	0.00	6.04	0.00	2.90
341	344	4.019792	ACCTGTGTCAATTGCAGTATCA	57.980	40.909	0.00	0.00	0.00	2.15
342	345	4.455533	TGAACCTGTGTCAATTGCAGTATC	59.544	41.667	0.00	4.25	0.00	2.24
343	346	4.397420	TGAACCTGTGTCAATTGCAGTAT	58.603	39.130	0.00	0.00	0.00	2.12
344	347	3.814625	TGAACCTGTGTCAATTGCAGTA	58.185	40.909	0.00	0.00	0.00	2.74
404	407	2.664851	CCGTTGGCGACTGCTGAA	60.665	61.111	2.89	0.00	42.25	3.02
539	549	0.526524	CTCTCGCTTACTTCGGCAGG	60.527	60.000	0.00	0.00	0.00	4.85
606	616	3.646715	CCCTGGCCGGTTCCTCAA	61.647	66.667	11.58	0.00	0.00	3.02
636	646	1.342076	ACGGGCATCTCCTCTTAGTCA	60.342	52.381	0.00	0.00	34.39	3.41
642	652	1.826054	CTCGACGGGCATCTCCTCT	60.826	63.158	0.00	0.00	34.39	3.69
784	794	3.310860	TTCTTCCTCCTTCGCCCGC	62.311	63.158	0.00	0.00	0.00	6.13
786	796	1.450491	GCTTCTTCCTCCTTCGCCC	60.450	63.158	0.00	0.00	0.00	6.13
822	834	6.524734	CCCTTCTGGTTTTAAATTTCTTGCT	58.475	36.000	0.00	0.00	0.00	3.91
894	906	2.859165	TAGAACCTTGGCTCTGGTTG	57.141	50.000	12.50	0.00	45.48	3.77
957	1251	3.627577	CCAAAGTACAACAGACTTGTGCT	59.372	43.478	0.00	0.00	45.05	4.40
1014	1320	3.068691	TCGTCGCCCTCCTCCTTG	61.069	66.667	0.00	0.00	0.00	3.61
1032	1341	4.671569	GGCGGCGGGAGATAGCAG	62.672	72.222	9.78	0.00	34.54	4.24
1120	1432	1.792006	GTGGTCGTGGTCACCTTTAG	58.208	55.000	0.00	0.00	34.66	1.85
1211	1526	4.681978	GTGAGCGGAAGGTGGCGT	62.682	66.667	0.00	0.00	45.11	5.68
1236	1551	2.124653	AACACGTTTGGGTGCGGA	60.125	55.556	0.00	0.00	41.65	5.54
1237	1552	2.113131	GAGAACACGTTTGGGTGCGG	62.113	60.000	0.00	0.00	41.65	5.69
1238	1553	1.278637	GAGAACACGTTTGGGTGCG	59.721	57.895	0.00	0.00	41.65	5.34
1252	1567	2.723530	AAGACTTCCTGGGAGGAGAA	57.276	50.000	6.99	0.00	46.73	2.87
1272	1587	1.457643	AATCCCAGGGCGATCGAGA	60.458	57.895	21.57	5.12	0.00	4.04
1275	1590	2.281070	CCAATCCCAGGGCGATCG	60.281	66.667	11.69	11.69	0.00	3.69
1479	1794	1.722011	ACTTTGGAGGAACGTATGCG	58.278	50.000	0.19	0.19	44.93	4.73
1512	1827	2.390599	CCGCCTCATGTTGTCACCG	61.391	63.158	0.00	0.00	0.00	4.94
1659	1974	2.678336	CGAATCCAAACCCTTGCTAGAC	59.322	50.000	0.00	0.00	0.00	2.59
1711	2027	1.122019	ATCGAGGGTGTGGATAGCCC	61.122	60.000	0.00	0.00	42.64	5.19
1786	2102	0.108615	CACACGGAGGTTAGCTCAGG	60.109	60.000	15.10	8.08	0.00	3.86
2018	4914	6.157904	TGGTTACATGATCAATGCAAACAAG	58.842	36.000	0.00	0.00	36.49	3.16
2041	4937	7.118825	ACATGGCGAGTGATCATAAAGAATATG	59.881	37.037	0.00	1.02	0.00	1.78
2332	5231	8.980481	TCATTCTTATTGATTTTAGTCCTCCC	57.020	34.615	0.00	0.00	0.00	4.30
2407	5315	9.851686	TCTCAATATGCATTATTACCAAGAAGT	57.148	29.630	3.54	0.00	0.00	3.01
2569	5486	8.618702	TTTTTAGTCGGTCATAACAATGGTTA	57.381	30.769	0.00	0.00	43.25	2.85
2614	5533	3.500343	ACTGCTATTGGCCTCACTTTTT	58.500	40.909	3.32	0.00	40.92	1.94
2621	6437	2.240500	CGCGACTGCTATTGGCCTC	61.241	63.158	0.00	0.00	40.92	4.70
2624	6440	4.285149	CGCGCGACTGCTATTGGC	62.285	66.667	28.94	0.00	39.65	4.52
2642	6458	0.532862	CACGCACTCCACAGAACCTT	60.533	55.000	0.00	0.00	0.00	3.50
2666	6482	1.557443	GACAACTCCGTTGCGGTGAG	61.557	60.000	15.14	5.81	46.20	3.51
2675	6491	4.056050	GAGTAAACACATGACAACTCCGT	58.944	43.478	0.00	0.00	0.00	4.69

Based at the University of Bristol with support from BBSRC.

AutoCloner maintained by Alex Coulton.