AutoCloner

Multiple sequence alignment - TraesCS3A01G080000

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	TraesCS3A01G080000	chr3A	100.000	2412	0	0	1	2412	51812060	51809649	0.000000e+00	4455
1	TraesCS3A01G080000	chr3A	95.730	445	17	2	1969	2411	511224112	511224556	0.000000e+00	715
2	TraesCS3A01G080000	chr3A	86.713	286	8	7	3	281	668636517	668636779	8.440000e-75	291
3	TraesCS3A01G080000	chr6A	92.912	1820	95	9	594	2412	603769391	603767605	0.000000e+00	2615
4	TraesCS3A01G080000	chr6A	95.730	445	16	2	1969	2411	49437093	49436650	0.000000e+00	713
5	TraesCS3A01G080000	chr6A	91.212	330	25	3	1069	1394	394809294	394808965	1.700000e-121	446
6	TraesCS3A01G080000	chr6A	93.462	260	17	0	811	1070	394809594	394809335	1.050000e-103	387
7	TraesCS3A01G080000	chr6A	87.307	323	39	2	589	911	137905578	137905898	3.790000e-98	368
8	TraesCS3A01G080000	chr6A	88.400	250	26	2	542	790	394809828	394809581	5.040000e-77	298
9	TraesCS3A01G080000	chr7B	94.640	709	32	5	1706	2412	236938199	236937495	0.000000e+00	1094
10	TraesCS3A01G080000	chr7B	92.113	355	22	5	1069	1419	236938556	236938204	1.670000e-136	496
11	TraesCS3A01G080000	chr7B	93.313	329	16	4	1069	1393	748688394	748688720	4.660000e-132	481
12	TraesCS3A01G080000	chr7B	93.870	261	16	0	811	1071	748688094	748688354	6.250000e-106	394
13	TraesCS3A01G080000	chr7B	93.511	262	12	4	811	1071	157281383	157281640	3.760000e-103	385
14	TraesCS3A01G080000	chr7B	90.837	251	13	5	1	244	123384650	123384897	6.430000e-86	327
15	TraesCS3A01G080000	chr7B	89.600	250	23	2	542	790	236939090	236938843	5.010000e-82	315
16	TraesCS3A01G080000	chr7B	84.375	288	21	3	1	281	653340812	653341082	6.610000e-66	261
17	TraesCS3A01G080000	chr7B	83.813	278	10	9	1	273	699809453	699809206	5.190000e-57	231
18	TraesCS3A01G080000	chr7B	90.533	169	12	3	1236	1400	141620880	141621048	1.120000e-53	220
19	TraesCS3A01G080000	chr4A	94.618	706	35	2	1709	2412	723615376	723614672	0.000000e+00	1090
20	TraesCS3A01G080000	chr4A	92.676	355	22	1	1069	1419	723615738	723615384	2.140000e-140	508
21	TraesCS3A01G080000	chr4A	93.487	261	15	1	811	1071	725690683	725690425	1.050000e-103	387
22	TraesCS3A01G080000	chr4A	88.755	249	25	3	542	790	723616268	723616023	3.900000e-78	302
23	TraesCS3A01G080000	chr4A	88.000	250	26	3	542	790	725690916	725690670	2.350000e-75	292
24	TraesCS3A01G080000	chr4A	87.029	239	10	6	3	237	111069107	111068886	1.430000e-62	250
25	TraesCS3A01G080000	chr5A	91.900	679	55	0	592	1270	608641410	608640732	0.000000e+00	950
26	TraesCS3A01G080000	chr2A	91.420	676	58	0	592	1267	594173742	594174417	0.000000e+00	928
27	TraesCS3A01G080000	chr2A	92.704	233	16	1	278	510	268561356	268561125	3.840000e-88	335
28	TraesCS3A01G080000	chr2A	87.629	291	14	4	1	284	268561661	268561386	3.870000e-83	318
29	TraesCS3A01G080000	chr2A	84.615	286	12	7	3	281	469874861	469875121	3.080000e-64	255
30	TraesCS3A01G080000	chr7A	89.451	692	60	8	592	1270	622260454	622259763	0.000000e+00	861
31	TraesCS3A01G080000	chr7A	95.740	446	16	3	1969	2411	187793913	187793468	0.000000e+00	715
32	TraesCS3A01G080000	chr7A	95.730	445	17	2	1969	2411	721557734	721558178	0.000000e+00	715
33	TraesCS3A01G080000	chr7A	88.054	519	31	9	1	510	727857350	727857846	9.610000e-164	586
34	TraesCS3A01G080000	chr7A	92.219	347	27	0	924	1270	45330653	45330307	2.150000e-135	492
35	TraesCS3A01G080000	chr2D	97.534	446	9	1	1969	2412	374341356	374340911	0.000000e+00	761
36	TraesCS3A01G080000	chr5B	95.964	446	15	2	1969	2412	4576061	4576505	0.000000e+00	721
37	TraesCS3A01G080000	chr5B	89.062	512	29	5	1	507	517325890	517326379	5.700000e-171	610
38	TraesCS3A01G080000	chr1A	92.263	517	16	2	1	510	425125930	425126429	0.000000e+00	712
39	TraesCS3A01G080000	chr3D	91.489	517	20	6	1	510	21930733	21931232	0.000000e+00	689
40	TraesCS3A01G080000	chr1D	88.395	517	31	3	1	510	66758002	66758496	1.600000e-166	595
41	TraesCS3A01G080000	chr1D	92.903	310	14	2	206	510	370167246	370167552	6.120000e-121	444
42	TraesCS3A01G080000	chr4B	93.870	261	14	1	811	1071	569778672	569778414	2.250000e-105	392
43	TraesCS3A01G080000	chr4B	88.571	245	25	2	547	790	569778901	569778659	6.520000e-76	294
44	TraesCS3A01G080000	chr1B	93.487	261	15	1	811	1071	683278357	683278099	1.050000e-103	387
45	TraesCS3A01G080000	chr1B	82.292	288	12	10	1	281	542805233	542805488	1.880000e-51	213
46	TraesCS3A01G080000	chrUn	95.708	233	10	0	278	510	93957100	93957332	2.260000e-100	375
47	TraesCS3A01G080000	chrUn	88.000	250	27	2	542	790	359205501	359205748	2.350000e-75	292
48	TraesCS3A01G080000	chrUn	86.473	207	14	4	1149	1355	153368982	153368790	5.220000e-52	215
49	TraesCS3A01G080000	chr7D	89.236	288	8	7	1	281	568456687	568456958	2.970000e-89	339
50	TraesCS3A01G080000	chr2B	92.920	226	11	1	287	507	16377254	16377029	8.320000e-85	324
51	TraesCS3A01G080000	chr2B	86.254	291	12	5	1	284	736899594	736899325	8.440000e-75	291
52	TraesCS3A01G080000	chr6B	85.714	287	38	3	1421	1706	617182609	617182893	1.400000e-77	300
53	TraesCS3A01G080000	chr6B	82.374	278	17	9	1	273	29492464	29492714	1.880000e-51	213
54	TraesCS3A01G080000	chr6B	96.460	113	3	1	3	115	696382724	696382835	4.090000e-43	185
55	TraesCS3A01G080000	chr6D	84.791	263	30	6	1419	1680	410404432	410404685	3.080000e-64	255
56	TraesCS3A01G080000	chr3B	87.192	203	22	3	1202	1400	65705547	65705345	6.710000e-56	228

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	TraesCS3A01G080000	chr3A	51809649	51812060	2411	True	4455.000000	4455	100.000000	1	2412	1	chr3A.!!$R1	2411
1	TraesCS3A01G080000	chr6A	603767605	603769391	1786	True	2615.000000	2615	92.912000	594	2412	1	chr6A.!!$R2	1818
2	TraesCS3A01G080000	chr6A	394808965	394809828	863	True	377.000000	446	91.024667	542	1394	3	chr6A.!!$R3	852
3	TraesCS3A01G080000	chr7B	236937495	236939090	1595	True	635.000000	1094	92.117667	542	2412	3	chr7B.!!$R2	1870
4	TraesCS3A01G080000	chr7B	748688094	748688720	626	False	437.500000	481	93.591500	811	1393	2	chr7B.!!$F5	582
5	TraesCS3A01G080000	chr4A	723614672	723616268	1596	True	633.333333	1090	92.016333	542	2412	3	chr4A.!!$R2	1870
6	TraesCS3A01G080000	chr5A	608640732	608641410	678	True	950.000000	950	91.900000	592	1270	1	chr5A.!!$R1	678
7	TraesCS3A01G080000	chr2A	594173742	594174417	675	False	928.000000	928	91.420000	592	1267	1	chr2A.!!$F2	675
8	TraesCS3A01G080000	chr2A	268561125	268561661	536	True	326.500000	335	90.166500	1	510	2	chr2A.!!$R1	509
9	TraesCS3A01G080000	chr7A	622259763	622260454	691	True	861.000000	861	89.451000	592	1270	1	chr7A.!!$R3	678

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
516	560	0.031414	AGCCGAACCCTACCACCTAT	60.031	55.0	0.0	0.0	0.0	2.57	F

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability	Orientation
2171	2359	1.004277	TGGTATGGCAACCAGGAAGTC	59.996	52.381	14.79	0.0	44.68	3.01	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
26	27	0.795698	TCATGCATCAAACACCGTCG	59.204	50.000	0.00	0.00	0.00	5.12
35	36	4.796231	ACACCGTCGGATGCTCGC	62.796	66.667	20.51	0.00	0.00	5.03
45	46	2.586079	ATGCTCGCGGATCCAACG	60.586	61.111	13.41	14.99	0.00	4.10
75	76	2.282180	CCTTCCACACCAACCCCG	60.282	66.667	0.00	0.00	0.00	5.73
87	88	2.121129	CCAACCCCGAAACCCTAGATA	58.879	52.381	0.00	0.00	0.00	1.98
90	91	2.675583	ACCCCGAAACCCTAGATAGTC	58.324	52.381	0.00	0.00	0.00	2.59
103	104	5.471456	CCCTAGATAGTCATTTTGCATCCAC	59.529	44.000	0.00	0.00	0.00	4.02
104	105	5.471456	CCTAGATAGTCATTTTGCATCCACC	59.529	44.000	0.00	0.00	0.00	4.61
105	106	4.210331	AGATAGTCATTTTGCATCCACCC	58.790	43.478	0.00	0.00	0.00	4.61
106	107	1.560505	AGTCATTTTGCATCCACCCC	58.439	50.000	0.00	0.00	0.00	4.95
107	108	0.536724	GTCATTTTGCATCCACCCCC	59.463	55.000	0.00	0.00	0.00	5.40
146	147	2.623416	CGCCTCCTTTCTTTCCAGTTTT	59.377	45.455	0.00	0.00	0.00	2.43
180	181	1.752608	GATCCCATTCCAGATCCCCT	58.247	55.000	0.00	0.00	34.11	4.79
181	182	1.632920	GATCCCATTCCAGATCCCCTC	59.367	57.143	0.00	0.00	34.11	4.30
317	361	3.889692	CAGCCCACCACACACCCT	61.890	66.667	0.00	0.00	0.00	4.34
328	372	0.677842	ACACACCCTCACCTCGTTAC	59.322	55.000	0.00	0.00	0.00	2.50
390	434	2.780414	TGATCTGGATCCCCATGAACT	58.220	47.619	9.90	0.00	42.59	3.01
394	438	1.072965	CTGGATCCCCATGAACTAGCC	59.927	57.143	9.90	0.00	42.59	3.93
396	440	0.603975	GATCCCCATGAACTAGCCGC	60.604	60.000	0.00	0.00	0.00	6.53
442	486	2.128507	CGCTACCTCCACTCCCCTC	61.129	68.421	0.00	0.00	0.00	4.30
460	504	2.372688	CCCTCCCCTTCCTGGCTA	59.627	66.667	0.00	0.00	0.00	3.93
468	512	1.347062	CCTTCCTGGCTAGAGATCCC	58.653	60.000	0.00	0.00	0.00	3.85
488	532	1.689233	TCCTCTCCAATCCCACCCG	60.689	63.158	0.00	0.00	0.00	5.28
510	554	2.240162	CTCCACAGCCGAACCCTACC	62.240	65.000	0.00	0.00	0.00	3.18
511	555	2.589157	CCACAGCCGAACCCTACCA	61.589	63.158	0.00	0.00	0.00	3.25
512	556	1.375523	CACAGCCGAACCCTACCAC	60.376	63.158	0.00	0.00	0.00	4.16
513	557	2.267961	CAGCCGAACCCTACCACC	59.732	66.667	0.00	0.00	0.00	4.61
514	558	2.122056	AGCCGAACCCTACCACCT	59.878	61.111	0.00	0.00	0.00	4.00
515	559	0.974010	CAGCCGAACCCTACCACCTA	60.974	60.000	0.00	0.00	0.00	3.08
516	560	0.031414	AGCCGAACCCTACCACCTAT	60.031	55.000	0.00	0.00	0.00	2.57
517	561	0.391966	GCCGAACCCTACCACCTATC	59.608	60.000	0.00	0.00	0.00	2.08
518	562	0.672342	CCGAACCCTACCACCTATCG	59.328	60.000	0.00	0.00	0.00	2.92
519	563	0.031721	CGAACCCTACCACCTATCGC	59.968	60.000	0.00	0.00	0.00	4.58
520	564	0.031721	GAACCCTACCACCTATCGCG	59.968	60.000	0.00	0.00	0.00	5.87
521	565	2.024590	AACCCTACCACCTATCGCGC	62.025	60.000	0.00	0.00	0.00	6.86
522	566	2.201022	CCCTACCACCTATCGCGCT	61.201	63.158	5.56	0.00	0.00	5.92
523	567	1.007271	CCTACCACCTATCGCGCTG	60.007	63.158	5.56	0.00	0.00	5.18
524	568	1.661821	CTACCACCTATCGCGCTGC	60.662	63.158	5.56	0.00	0.00	5.25
525	569	3.146726	TACCACCTATCGCGCTGCC	62.147	63.158	5.56	0.00	0.00	4.85
526	570	4.529219	CCACCTATCGCGCTGCCA	62.529	66.667	5.56	0.00	0.00	4.92
527	571	3.264897	CACCTATCGCGCTGCCAC	61.265	66.667	5.56	0.00	0.00	5.01
528	572	4.530857	ACCTATCGCGCTGCCACC	62.531	66.667	5.56	0.00	0.00	4.61
529	573	4.529219	CCTATCGCGCTGCCACCA	62.529	66.667	5.56	0.00	0.00	4.17
530	574	3.264897	CTATCGCGCTGCCACCAC	61.265	66.667	5.56	0.00	0.00	4.16
531	575	4.830765	TATCGCGCTGCCACCACC	62.831	66.667	5.56	0.00	0.00	4.61
534	578	4.838152	CGCGCTGCCACCACCTAT	62.838	66.667	5.56	0.00	0.00	2.57
535	579	2.897350	GCGCTGCCACCACCTATC	60.897	66.667	0.00	0.00	0.00	2.08
536	580	2.586079	CGCTGCCACCACCTATCG	60.586	66.667	0.00	0.00	0.00	2.92
537	581	2.897350	GCTGCCACCACCTATCGC	60.897	66.667	0.00	0.00	0.00	4.58
538	582	2.586079	CTGCCACCACCTATCGCG	60.586	66.667	0.00	0.00	0.00	5.87
539	583	4.830765	TGCCACCACCTATCGCGC	62.831	66.667	0.00	0.00	0.00	6.86
601	645	4.798682	TTCCGCTCCCTCCCTCCC	62.799	72.222	0.00	0.00	0.00	4.30
744	788	2.513897	GTTTGCGGGATCCTCGGG	60.514	66.667	19.88	6.54	0.00	5.14
784	828	2.096707	TTGTAGGGAGGGGTCCGTCA	62.097	60.000	11.21	0.00	33.03	4.35
792	836	1.381327	GGGGTCCGTCATCTCCTCA	60.381	63.158	0.00	0.00	0.00	3.86
870	914	2.596851	GCTTCACCAGCCTCCTCCA	61.597	63.158	0.00	0.00	43.65	3.86
957	1001	1.290955	GCTGCTCCTTTTGCATGCA	59.709	52.632	18.46	18.46	39.86	3.96
982	1039	3.124921	CCGACAACGTCCCCATGC	61.125	66.667	0.00	0.00	37.88	4.06
1243	1426	1.648568	TGAGATCTCCCTCCTCAAGGT	59.351	52.381	20.03	0.00	44.56	3.50
1408	1595	5.334414	GGTGCATAACAAGAAGTCTCAAGTG	60.334	44.000	0.00	0.00	0.00	3.16
1512	1700	2.019249	TCATAGAAATGCCACAGCTGC	58.981	47.619	15.27	0.00	40.80	5.25
1519	1707	2.747460	GCCACAGCTGCGATTGGA	60.747	61.111	21.86	0.00	35.50	3.53
1624	1812	9.479549	AACTGGATTTTAACTCCAATGATATGT	57.520	29.630	5.57	0.00	42.12	2.29
1650	1838	3.887621	TGTAGGCTCGTTAAGAATGCT	57.112	42.857	0.00	0.00	0.00	3.79
1687	1875	1.284491	TGCTTGGGCATTCATACTCCA	59.716	47.619	0.00	0.00	44.28	3.86
1692	1880	4.524802	TGGGCATTCATACTCCATTCTT	57.475	40.909	0.00	0.00	0.00	2.52
1728	1916	6.150474	GGCATGTTACACATACCTACTTGTTT	59.850	38.462	0.00	0.00	38.66	2.83
1781	1969	6.182627	AGTGAGTTTAGAATCATGGATGCAA	58.817	36.000	0.00	0.00	0.00	4.08
1802	1990	5.867174	GCAAACAGTTTACAGTTGGTTTCTT	59.133	36.000	0.00	0.00	0.00	2.52
1866	2054	3.924114	TTCAGTTGGTTCTCAGTTGGA	57.076	42.857	0.00	0.00	0.00	3.53
1870	2058	4.103153	TCAGTTGGTTCTCAGTTGGATCTT	59.897	41.667	0.00	0.00	0.00	2.40
1896	2084	1.929836	GTTAGGCTCTGTTCTGCATCG	59.070	52.381	0.00	0.00	0.00	3.84
2171	2359	7.468441	TGGTTAATCAGCATTTGTATTGTACG	58.532	34.615	0.00	0.00	0.00	3.67
2186	2374	0.034337	GTACGACTTCCTGGTTGCCA	59.966	55.000	0.00	0.00	0.00	4.92
2189	2377	1.338769	ACGACTTCCTGGTTGCCATAC	60.339	52.381	0.00	0.00	30.82	2.39

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
11	12	0.096976	CATCCGACGGTGTTTGATGC	59.903	55.000	14.79	0.00	0.00	3.91
26	27	2.108976	TTGGATCCGCGAGCATCC	59.891	61.111	19.28	19.28	39.38	3.51
45	46	2.046217	GAAGGGTTGAGGACGGCC	60.046	66.667	0.00	0.00	0.00	6.13
75	76	7.255277	GGATGCAAAATGACTATCTAGGGTTTC	60.255	40.741	0.00	0.00	0.00	2.78
87	88	1.560505	GGGGTGGATGCAAAATGACT	58.439	50.000	0.00	0.00	0.00	3.41
146	147	1.625315	GGGATCGATGGATGGATGTGA	59.375	52.381	0.54	0.00	31.51	3.58
180	181	4.193334	CATCGGGCGAGACAGCGA	62.193	66.667	0.00	0.00	38.18	4.93
292	336	2.197324	TGGTGGGCTGGTTGGTTC	59.803	61.111	0.00	0.00	0.00	3.62
396	440	3.432051	GAGTGGATCCGGTCGCCAG	62.432	68.421	7.39	0.00	31.18	4.85
421	465	4.208686	GGAGTGGAGGTAGCGCCG	62.209	72.222	2.29	0.00	43.70	6.46
427	471	2.643808	GGGGAGGGGAGTGGAGGTA	61.644	68.421	0.00	0.00	0.00	3.08
442	486	3.347562	TAGCCAGGAAGGGGAGGGG	62.348	68.421	0.00	0.00	38.09	4.79
460	504	1.324014	TTGGAGAGGAGGGGATCTCT	58.676	55.000	0.00	0.00	41.43	3.10
468	512	1.348775	GGGTGGGATTGGAGAGGAGG	61.349	65.000	0.00	0.00	0.00	4.30
492	536	2.288025	GGTAGGGTTCGGCTGTGGA	61.288	63.158	0.00	0.00	0.00	4.02
499	543	0.672342	CGATAGGTGGTAGGGTTCGG	59.328	60.000	0.00	0.00	0.00	4.30
510	554	3.264897	GTGGCAGCGCGATAGGTG	61.265	66.667	12.10	0.00	42.04	4.00
511	555	4.530857	GGTGGCAGCGCGATAGGT	62.531	66.667	12.10	0.00	0.00	3.08
512	556	4.529219	TGGTGGCAGCGCGATAGG	62.529	66.667	12.10	0.00	0.00	2.57
513	557	3.264897	GTGGTGGCAGCGCGATAG	61.265	66.667	12.10	0.00	0.00	2.08
514	558	4.830765	GGTGGTGGCAGCGCGATA	62.831	66.667	22.25	0.00	0.00	2.92
517	561	4.838152	ATAGGTGGTGGCAGCGCG	62.838	66.667	22.25	0.00	0.00	6.86
518	562	2.897350	GATAGGTGGTGGCAGCGC	60.897	66.667	21.21	21.21	0.00	5.92
519	563	2.586079	CGATAGGTGGTGGCAGCG	60.586	66.667	12.58	0.00	0.00	5.18
520	564	2.897350	GCGATAGGTGGTGGCAGC	60.897	66.667	10.30	10.30	0.00	5.25
521	565	2.586079	CGCGATAGGTGGTGGCAG	60.586	66.667	0.00	0.00	0.00	4.85
522	566	4.830765	GCGCGATAGGTGGTGGCA	62.831	66.667	12.10	0.00	0.00	4.92
601	645	1.457643	TGGATCTACTGCGGGAGGG	60.458	63.158	4.51	0.00	0.00	4.30
710	754	3.349006	CCCTATGTCGCATGCCGC	61.349	66.667	13.15	5.61	36.73	6.53
722	766	0.765510	GAGGATCCCGCAAACCCTAT	59.234	55.000	8.55	0.00	0.00	2.57
765	809	1.305549	GACGGACCCCTCCCTACAA	60.306	63.158	0.00	0.00	31.93	2.41
792	836	1.773391	CATGGCCATCCCCTCCTCT	60.773	63.158	17.61	0.00	0.00	3.69
803	847	0.108992	GAGTACGACGAACATGGCCA	60.109	55.000	8.56	8.56	0.00	5.36
911	955	1.080093	CTTGAGGTCTGGCGCGTTA	60.080	57.895	8.43	0.00	0.00	3.18
912	956	2.357517	CTTGAGGTCTGGCGCGTT	60.358	61.111	8.43	0.00	0.00	4.84
957	1001	1.595357	GACGTTGTCGGGGAAGGAT	59.405	57.895	0.00	0.00	41.85	3.24
982	1039	2.487934	CATCGCATCTGAAACCCTAGG	58.512	52.381	0.06	0.06	0.00	3.02
1080	1263	4.514441	ACACATGCTTGAGAAGACAAGAAG	59.486	41.667	6.60	3.98	46.85	2.85
1243	1426	1.456296	GATGTTCTGGTGCTGCATCA	58.544	50.000	15.77	15.77	36.78	3.07
1428	1615	4.495422	CGTCTAATAGCCTGGCGATATTT	58.505	43.478	14.83	3.17	0.00	1.40
1650	1838	6.627953	GCCCAAGCAAAGAATCAAATAAGCTA	60.628	38.462	0.00	0.00	39.53	3.32
1680	1868	2.366916	CGCTCAGGGAAGAATGGAGTAT	59.633	50.000	0.00	0.00	0.00	2.12
1728	1916	4.870123	ACAGCTTCATTGGTTATTGCAA	57.130	36.364	0.00	0.00	0.00	4.08
1781	1969	7.704899	GCATAAAGAAACCAACTGTAAACTGTT	59.295	33.333	0.09	0.09	38.32	3.16
1802	1990	9.663904	GCTTCGAACTCAAATTATAATGCATAA	57.336	29.630	0.00	0.00	33.62	1.90
1813	2001	1.535462	CCGTGGCTTCGAACTCAAATT	59.465	47.619	0.00	0.00	0.00	1.82
1866	2054	7.713073	GCAGAACAGAGCCTAACTTATTAAGAT	59.287	37.037	10.39	1.03	0.00	2.40
1870	2058	6.294361	TGCAGAACAGAGCCTAACTTATTA	57.706	37.500	0.00	0.00	0.00	0.98
1896	2084	5.702865	TGCAGAGCAACTTCATTAATTGAC	58.297	37.500	0.00	0.00	34.76	3.18
1928	2116	3.535561	CTTCACCAAGGTACCAGCATAG	58.464	50.000	15.94	0.00	0.00	2.23
2171	2359	1.004277	TGGTATGGCAACCAGGAAGTC	59.996	52.381	14.79	0.00	44.68	3.01

Based at the University of Bristol with support from BBSRC.

AutoCloner maintained by Alex Coulton.