AutoCloner

Multiple sequence alignment - TraesCS3A01G064000

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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	TraesCS3A01G064000	chr3A	100.000	2786	0	0	1	2786	38137787	38135002	0.000000e+00	5145.0
1	TraesCS3A01G064000	chr3A	78.224	1644	251	38	985	2583	38013740	38012159	0.000000e+00	953.0
2	TraesCS3A01G064000	chr3A	85.945	619	84	2	1670	2285	38160010	38159392	0.000000e+00	658.0
3	TraesCS3A01G064000	chr3A	84.576	590	48	17	993	1555	38160578	38160005	1.890000e-151	545.0
4	TraesCS3A01G064000	chr3A	86.829	205	22	4	2392	2592	38157880	38157677	1.000000e-54	224.0
5	TraesCS3A01G064000	chr3A	97.619	84	2	0	2280	2363	38157961	38157878	8.040000e-31	145.0
6	TraesCS3A01G064000	chr3B	93.547	2123	105	20	682	2786	47211598	47209490	0.000000e+00	3133.0
7	TraesCS3A01G064000	chr3B	85.087	1435	163	20	972	2376	47223145	47221732	0.000000e+00	1417.0
8	TraesCS3A01G064000	chr3B	76.674	1419	286	29	1205	2588	47269903	47271311	0.000000e+00	745.0
9	TraesCS3A01G064000	chr3B	80.841	642	106	11	1154	1783	46303594	46304230	3.230000e-134	488.0
10	TraesCS3A01G064000	chr3B	87.624	202	24	1	2586	2786	47221354	47221153	1.670000e-57	233.0
11	TraesCS3A01G064000	chr3D	94.398	1571	64	17	806	2363	28218315	28216756	0.000000e+00	2392.0
12	TraesCS3A01G064000	chr3D	84.611	1787	200	35	986	2743	27662992	27664732	0.000000e+00	1707.0
13	TraesCS3A01G064000	chr3D	86.983	991	112	6	1376	2363	28224566	28223590	0.000000e+00	1099.0
14	TraesCS3A01G064000	chr3D	78.347	1464	248	32	1154	2588	28124475	28123052	0.000000e+00	883.0
15	TraesCS3A01G064000	chr3D	76.323	1398	272	39	1227	2588	28275284	28276658	0.000000e+00	693.0
16	TraesCS3A01G064000	chr3D	71.041	1181	272	53	1211	2364	27890277	27889140	3.610000e-54	222.0
17	TraesCS3A01G064000	chr3D	87.000	200	22	3	2392	2588	28216758	28216560	3.610000e-54	222.0
18	TraesCS3A01G064000	chr3D	89.928	139	13	1	2648	2786	28216319	28216182	7.930000e-41	178.0
19	TraesCS3A01G064000	chr1D	85.433	1826	214	27	974	2786	456280651	456278865	0.000000e+00	1851.0
20	TraesCS3A01G064000	chr1D	80.269	1485	220	35	972	2419	381004781	381006229	0.000000e+00	1051.0
21	TraesCS3A01G064000	chr7B	98.645	664	7	2	1	663	711451352	711452014	0.000000e+00	1175.0
22	TraesCS3A01G064000	chr7B	95.238	63	2	1	619	680	711451058	711450996	6.350000e-17	99.0
23	TraesCS3A01G064000	chr5A	97.612	670	8	3	1	663	622120063	622119395	0.000000e+00	1142.0
24	TraesCS3A01G064000	chr5A	96.552	58	1	1	619	675	622120357	622120414	8.210000e-16	95.3
25	TraesCS3A01G064000	chrUn	72.158	783	177	34	1644	2399	257141390	257140622	1.690000e-47	200.0
26	TraesCS3A01G064000	chrUn	72.158	783	177	34	1644	2399	279872609	279873377	1.690000e-47	200.0
27	TraesCS3A01G064000	chr5B	88.710	62	6	1	622	682	228756006	228756067	1.070000e-09	75.0

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	TraesCS3A01G064000	chr3A	38135002	38137787	2785	True	5145.000000	5145	100.00000	1	2786	1	chr3A.!!$R2	2785
1	TraesCS3A01G064000	chr3A	38012159	38013740	1581	True	953.000000	953	78.22400	985	2583	1	chr3A.!!$R1	1598
2	TraesCS3A01G064000	chr3A	38157677	38160578	2901	True	393.000000	658	88.74225	993	2592	4	chr3A.!!$R3	1599
3	TraesCS3A01G064000	chr3B	47209490	47211598	2108	True	3133.000000	3133	93.54700	682	2786	1	chr3B.!!$R1	2104
4	TraesCS3A01G064000	chr3B	47221153	47223145	1992	True	825.000000	1417	86.35550	972	2786	2	chr3B.!!$R2	1814
5	TraesCS3A01G064000	chr3B	47269903	47271311	1408	False	745.000000	745	76.67400	1205	2588	1	chr3B.!!$F2	1383
6	TraesCS3A01G064000	chr3B	46303594	46304230	636	False	488.000000	488	80.84100	1154	1783	1	chr3B.!!$F1	629
7	TraesCS3A01G064000	chr3D	27662992	27664732	1740	False	1707.000000	1707	84.61100	986	2743	1	chr3D.!!$F1	1757
8	TraesCS3A01G064000	chr3D	28223590	28224566	976	True	1099.000000	1099	86.98300	1376	2363	1	chr3D.!!$R3	987
9	TraesCS3A01G064000	chr3D	28216182	28218315	2133	True	930.666667	2392	90.44200	806	2786	3	chr3D.!!$R4	1980
10	TraesCS3A01G064000	chr3D	28123052	28124475	1423	True	883.000000	883	78.34700	1154	2588	1	chr3D.!!$R2	1434
11	TraesCS3A01G064000	chr3D	28275284	28276658	1374	False	693.000000	693	76.32300	1227	2588	1	chr3D.!!$F2	1361
12	TraesCS3A01G064000	chr3D	27889140	27890277	1137	True	222.000000	222	71.04100	1211	2364	1	chr3D.!!$R1	1153
13	TraesCS3A01G064000	chr1D	456278865	456280651	1786	True	1851.000000	1851	85.43300	974	2786	1	chr1D.!!$R1	1812
14	TraesCS3A01G064000	chr1D	381004781	381006229	1448	False	1051.000000	1051	80.26900	972	2419	1	chr1D.!!$F1	1447
15	TraesCS3A01G064000	chr7B	711451352	711452014	662	False	1175.000000	1175	98.64500	1	663	1	chr7B.!!$F1	662
16	TraesCS3A01G064000	chr5A	622119395	622120063	668	True	1142.000000	1142	97.61200	1	663	1	chr5A.!!$R1	662

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
925	933	0.037605	GCTAGTGTGCTACAACCGGT	60.038	55.0	0.0	0.0	0.0	5.28	F

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability	Orientation
2400	3975	0.386352	TACACTTGAGAACCGCGACG	60.386	55.0	8.23	0.0	0.0	5.12	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
262	269	2.514013	CGACGGTGTCATTAGCGCC	61.514	63.158	2.29	0.00	44.68	6.53
548	555	3.094484	AGGAGGAGACGAACAGAGAAT	57.906	47.619	0.00	0.00	0.00	2.40
640	647	4.039852	GTGTAAAAGGGGCAAATCCTCAAA	59.960	41.667	0.00	0.00	38.00	2.69
641	648	4.283212	TGTAAAAGGGGCAAATCCTCAAAG	59.717	41.667	0.00	0.00	38.00	2.77
643	650	1.928868	AGGGGCAAATCCTCAAAGTG	58.071	50.000	0.00	0.00	38.00	3.16
648	655	3.193479	GGGCAAATCCTCAAAGTGTTAGG	59.807	47.826	0.00	0.00	34.39	2.69
649	656	3.826729	GGCAAATCCTCAAAGTGTTAGGT	59.173	43.478	0.00	0.00	0.00	3.08
652	659	6.015772	GGCAAATCCTCAAAGTGTTAGGTAAA	60.016	38.462	0.00	0.00	0.00	2.01
653	660	7.084486	GCAAATCCTCAAAGTGTTAGGTAAAG	58.916	38.462	0.00	0.00	0.00	1.85
656	663	6.243216	TCCTCAAAGTGTTAGGTAAAGTGT	57.757	37.500	0.00	0.00	0.00	3.55
663	670	5.137551	AGTGTTAGGTAAAGTGTGGCAAAT	58.862	37.500	0.00	0.00	0.00	2.32
664	671	5.240844	AGTGTTAGGTAAAGTGTGGCAAATC	59.759	40.000	0.00	0.00	0.00	2.17
665	672	4.521256	TGTTAGGTAAAGTGTGGCAAATCC	59.479	41.667	0.00	0.00	0.00	3.01
666	673	3.525800	AGGTAAAGTGTGGCAAATCCT	57.474	42.857	0.00	0.00	35.26	3.24
667	674	3.421844	AGGTAAAGTGTGGCAAATCCTC	58.578	45.455	0.00	0.00	35.26	3.71
668	675	3.153919	GGTAAAGTGTGGCAAATCCTCA	58.846	45.455	0.00	0.00	36.09	3.86
669	676	3.572255	GGTAAAGTGTGGCAAATCCTCAA	59.428	43.478	0.00	0.00	39.78	3.02
670	677	4.038642	GGTAAAGTGTGGCAAATCCTCAAA	59.961	41.667	0.00	0.00	39.78	2.69
671	678	4.961438	AAAGTGTGGCAAATCCTCAAAT	57.039	36.364	0.00	0.00	39.78	2.32
672	679	4.961438	AAGTGTGGCAAATCCTCAAATT	57.039	36.364	0.00	0.00	39.78	1.82
673	680	4.525912	AGTGTGGCAAATCCTCAAATTC	57.474	40.909	0.00	0.00	39.78	2.17
674	681	3.259123	AGTGTGGCAAATCCTCAAATTCC	59.741	43.478	0.00	0.00	39.78	3.01
675	682	2.566724	TGTGGCAAATCCTCAAATTCCC	59.433	45.455	0.00	0.00	35.56	3.97
676	683	2.093500	GTGGCAAATCCTCAAATTCCCC	60.093	50.000	0.00	0.00	35.26	4.81
677	684	2.187100	GGCAAATCCTCAAATTCCCCA	58.813	47.619	0.00	0.00	0.00	4.96
678	685	2.571202	GGCAAATCCTCAAATTCCCCAA	59.429	45.455	0.00	0.00	0.00	4.12
679	686	3.008923	GGCAAATCCTCAAATTCCCCAAA	59.991	43.478	0.00	0.00	0.00	3.28
680	687	4.506448	GGCAAATCCTCAAATTCCCCAAAA	60.506	41.667	0.00	0.00	0.00	2.44
684	691	7.392953	GCAAATCCTCAAATTCCCCAAAAATTA	59.607	33.333	0.00	0.00	0.00	1.40
699	706	6.040842	CCCAAAAATTATAGATGTGGGGACAG	59.959	42.308	0.00	0.00	44.46	3.51
700	707	6.461509	CCAAAAATTATAGATGTGGGGACAGC	60.462	42.308	0.00	0.00	44.46	4.40
706	713	1.589716	GATGTGGGGACAGCAGTTGC	61.590	60.000	0.00	0.00	44.46	4.17
707	714	2.985847	GTGGGGACAGCAGTTGCC	60.986	66.667	0.00	0.00	44.46	4.52
708	715	4.284550	TGGGGACAGCAGTTGCCC	62.285	66.667	7.86	7.86	43.38	5.36
717	724	2.409870	GCAGTTGCCCGGAAGATGG	61.410	63.158	0.73	0.00	34.31	3.51
730	737	3.561725	CGGAAGATGGCTTTAGATTGACC	59.438	47.826	0.00	0.00	33.61	4.02
734	741	5.912149	AGATGGCTTTAGATTGACCCATA	57.088	39.130	0.00	0.00	33.50	2.74
756	763	7.307101	CCATATGTTTGTTTTGTTAGGTTGTGC	60.307	37.037	1.24	0.00	0.00	4.57
757	764	4.883083	TGTTTGTTTTGTTAGGTTGTGCA	58.117	34.783	0.00	0.00	0.00	4.57
758	765	5.297547	TGTTTGTTTTGTTAGGTTGTGCAA	58.702	33.333	0.00	0.00	0.00	4.08
759	766	5.934625	TGTTTGTTTTGTTAGGTTGTGCAAT	59.065	32.000	0.00	0.00	0.00	3.56
760	767	6.128445	TGTTTGTTTTGTTAGGTTGTGCAATG	60.128	34.615	0.00	0.00	0.00	2.82
761	768	5.330455	TGTTTTGTTAGGTTGTGCAATGA	57.670	34.783	0.00	0.00	0.00	2.57
762	769	5.911752	TGTTTTGTTAGGTTGTGCAATGAT	58.088	33.333	0.00	0.00	0.00	2.45
765	772	8.797438	TGTTTTGTTAGGTTGTGCAATGATATA	58.203	29.630	0.00	0.00	0.00	0.86
808	815	2.568696	TTTGCTGCGCTACAACAAAA	57.431	40.000	9.73	0.00	40.46	2.44
822	829	7.398746	GCTACAACAAAAAGAAATGTTTGACC	58.601	34.615	3.32	0.00	37.66	4.02
832	839	4.520492	AGAAATGTTTGACCAAGCTGTAGG	59.480	41.667	0.00	0.00	0.00	3.18
887	895	2.109387	CGGTGAACACAACGGGGA	59.891	61.111	7.25	0.00	40.47	4.81
902	910	3.505835	GGGACCCAACAGAACACAA	57.494	52.632	5.33	0.00	0.00	3.33
904	912	1.681264	GGGACCCAACAGAACACAAAG	59.319	52.381	5.33	0.00	0.00	2.77
905	913	2.375146	GGACCCAACAGAACACAAAGT	58.625	47.619	0.00	0.00	0.00	2.66
906	914	2.099098	GGACCCAACAGAACACAAAGTG	59.901	50.000	0.00	0.00	39.75	3.16
908	916	1.750778	CCCAACAGAACACAAAGTGCT	59.249	47.619	0.00	0.00	36.12	4.40
909	917	2.948979	CCCAACAGAACACAAAGTGCTA	59.051	45.455	0.00	0.00	32.01	3.49
910	918	3.003689	CCCAACAGAACACAAAGTGCTAG	59.996	47.826	0.00	0.00	32.01	3.42
911	919	3.627577	CCAACAGAACACAAAGTGCTAGT	59.372	43.478	0.00	0.00	32.01	2.57
912	920	4.496341	CCAACAGAACACAAAGTGCTAGTG	60.496	45.833	0.00	0.00	32.01	2.74
914	922	3.623060	ACAGAACACAAAGTGCTAGTGTG	59.377	43.478	8.46	8.46	44.99	3.82
915	923	2.614057	AGAACACAAAGTGCTAGTGTGC	59.386	45.455	9.64	10.18	44.99	4.57
916	924	2.332063	ACACAAAGTGCTAGTGTGCT	57.668	45.000	9.64	0.00	45.23	4.40
917	925	3.469008	ACACAAAGTGCTAGTGTGCTA	57.531	42.857	9.64	0.00	45.23	3.49
918	926	3.131396	ACACAAAGTGCTAGTGTGCTAC	58.869	45.455	9.64	0.00	45.23	3.58
919	927	3.130633	CACAAAGTGCTAGTGTGCTACA	58.869	45.455	0.00	0.00	36.55	2.74
920	928	3.559655	CACAAAGTGCTAGTGTGCTACAA	59.440	43.478	0.00	0.00	36.55	2.41
921	929	3.560068	ACAAAGTGCTAGTGTGCTACAAC	59.440	43.478	0.00	0.00	0.00	3.32
922	930	2.457366	AGTGCTAGTGTGCTACAACC	57.543	50.000	0.00	0.00	0.00	3.77
923	931	1.068474	GTGCTAGTGTGCTACAACCG	58.932	55.000	0.00	0.00	0.00	4.44
924	932	0.037697	TGCTAGTGTGCTACAACCGG	60.038	55.000	0.00	0.00	0.00	5.28
925	933	0.037605	GCTAGTGTGCTACAACCGGT	60.038	55.000	0.00	0.00	0.00	5.28
927	935	1.271379	CTAGTGTGCTACAACCGGTGA	59.729	52.381	8.52	0.00	0.00	4.02
928	936	0.466543	AGTGTGCTACAACCGGTGAA	59.533	50.000	8.52	0.00	0.00	3.18
929	937	1.134340	AGTGTGCTACAACCGGTGAAA	60.134	47.619	8.52	0.00	0.00	2.69
964	981	2.826702	GTCCCTCCGTGTGTGGTT	59.173	61.111	0.00	0.00	0.00	3.67
965	982	1.301479	GTCCCTCCGTGTGTGGTTC	60.301	63.158	0.00	0.00	0.00	3.62
966	983	2.032071	CCCTCCGTGTGTGGTTCC	59.968	66.667	0.00	0.00	0.00	3.62
967	984	2.032071	CCTCCGTGTGTGGTTCCC	59.968	66.667	0.00	0.00	0.00	3.97
1193	1268	1.817099	CTGAAGTGATCTGCCGCCC	60.817	63.158	0.00	0.00	0.00	6.13
1488	1572	0.545171	ACCTGCATCTCCTGGACATG	59.455	55.000	7.51	7.51	0.00	3.21
2017	2154	2.414785	GGATGGCGCGATTGGGTTT	61.415	57.895	12.10	0.00	0.00	3.27
2071	2208	6.127647	TGTGGCAGAGGAATATCAATTTTCAC	60.128	38.462	0.00	0.00	0.00	3.18
2400	3975	3.627577	ACATGCATGTTCGAATACCTTCC	59.372	43.478	26.61	0.00	37.90	3.46
2403	3978	2.284417	GCATGTTCGAATACCTTCCGTC	59.716	50.000	0.00	0.00	0.00	4.79
2452	4038	5.985911	ACTTAGTTACCGTCCATTTGCTAT	58.014	37.500	0.00	0.00	0.00	2.97
2528	4124	8.515695	TGTCTTCATGCTTCATATTCATTTCT	57.484	30.769	0.00	0.00	0.00	2.52
2567	4173	5.643379	TGGCCTTCTTTTGTGTTATCATC	57.357	39.130	3.32	0.00	0.00	2.92
2681	4496	6.139679	TGAATACCCAAGATCACTTTTCCT	57.860	37.500	0.00	0.00	33.70	3.36
2696	4513	7.458397	TCACTTTTCCTGGTAGTGTTTATGAT	58.542	34.615	18.56	0.00	40.08	2.45
2775	4592	1.216064	ATGCTAGGCCATGTCTTCCA	58.784	50.000	5.01	0.00	0.00	3.53

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
262	269	1.663702	AACGAAGTCAACCTCGCCG	60.664	57.895	1.24	0.00	45.00	6.46
548	555	0.321564	CCCGAGCATGAACCAACTCA	60.322	55.000	0.00	0.00	0.00	3.41
640	647	3.849563	TGCCACACTTTACCTAACACT	57.150	42.857	0.00	0.00	0.00	3.55
641	648	4.904253	TTTGCCACACTTTACCTAACAC	57.096	40.909	0.00	0.00	0.00	3.32
643	650	4.765339	AGGATTTGCCACACTTTACCTAAC	59.235	41.667	0.00	0.00	40.02	2.34
648	655	4.846779	TTGAGGATTTGCCACACTTTAC	57.153	40.909	0.00	0.00	36.95	2.01
649	656	6.418057	AATTTGAGGATTTGCCACACTTTA	57.582	33.333	0.00	0.00	36.95	1.85
652	659	3.259123	GGAATTTGAGGATTTGCCACACT	59.741	43.478	0.00	0.00	36.95	3.55
653	660	3.588955	GGAATTTGAGGATTTGCCACAC	58.411	45.455	0.00	0.00	36.95	3.82
656	663	2.187100	GGGGAATTTGAGGATTTGCCA	58.813	47.619	0.00	0.00	40.02	4.92
663	670	9.728100	ATCTATAATTTTTGGGGAATTTGAGGA	57.272	29.630	0.00	0.00	0.00	3.71
664	671	9.768662	CATCTATAATTTTTGGGGAATTTGAGG	57.231	33.333	0.00	0.00	0.00	3.86
667	674	9.328845	CCACATCTATAATTTTTGGGGAATTTG	57.671	33.333	0.00	0.00	32.38	2.32
668	675	8.493607	CCCACATCTATAATTTTTGGGGAATTT	58.506	33.333	0.00	0.00	38.89	1.82
669	676	8.033178	CCCACATCTATAATTTTTGGGGAATT	57.967	34.615	0.00	0.00	38.89	2.17
670	677	7.616528	CCCACATCTATAATTTTTGGGGAAT	57.383	36.000	0.00	0.00	38.89	3.01
674	681	5.896678	TGTCCCCACATCTATAATTTTTGGG	59.103	40.000	0.00	0.00	41.76	4.12
675	682	6.461509	GCTGTCCCCACATCTATAATTTTTGG	60.462	42.308	0.00	0.00	0.00	3.28
676	683	6.096705	TGCTGTCCCCACATCTATAATTTTTG	59.903	38.462	0.00	0.00	0.00	2.44
677	684	6.194235	TGCTGTCCCCACATCTATAATTTTT	58.806	36.000	0.00	0.00	0.00	1.94
678	685	5.765510	TGCTGTCCCCACATCTATAATTTT	58.234	37.500	0.00	0.00	0.00	1.82
679	686	5.103940	ACTGCTGTCCCCACATCTATAATTT	60.104	40.000	0.00	0.00	0.00	1.82
680	687	4.413520	ACTGCTGTCCCCACATCTATAATT	59.586	41.667	0.00	0.00	0.00	1.40
684	691	1.885049	ACTGCTGTCCCCACATCTAT	58.115	50.000	0.00	0.00	0.00	1.98
699	706	2.409870	CCATCTTCCGGGCAACTGC	61.410	63.158	0.00	0.00	43.74	4.40
700	707	3.909662	CCATCTTCCGGGCAACTG	58.090	61.111	0.00	0.00	45.15	3.16
706	713	2.880890	CAATCTAAAGCCATCTTCCGGG	59.119	50.000	0.00	0.00	0.00	5.73
707	714	3.561725	GTCAATCTAAAGCCATCTTCCGG	59.438	47.826	0.00	0.00	0.00	5.14
708	715	3.561725	GGTCAATCTAAAGCCATCTTCCG	59.438	47.826	0.00	0.00	0.00	4.30
717	724	7.100458	ACAAACATATGGGTCAATCTAAAGC	57.900	36.000	7.80	0.00	0.00	3.51
721	728	8.415950	ACAAAACAAACATATGGGTCAATCTA	57.584	30.769	7.80	0.00	0.00	1.98
730	737	7.307101	GCACAACCTAACAAAACAAACATATGG	60.307	37.037	7.80	0.00	0.00	2.74
734	741	5.482908	TGCACAACCTAACAAAACAAACAT	58.517	33.333	0.00	0.00	0.00	2.71
792	799	8.136485	AACATTTCTTTTTGTTGTAGCGCAGC	62.136	38.462	11.47	1.41	44.10	5.25
808	815	5.010012	CCTACAGCTTGGTCAAACATTTCTT	59.990	40.000	0.00	0.00	0.00	2.52
870	878	2.109387	TCCCCGTTGTGTTCACCG	59.891	61.111	0.37	0.00	0.00	4.94
887	895	1.476488	GCACTTTGTGTTCTGTTGGGT	59.524	47.619	0.00	0.00	35.75	4.51
895	903	2.614057	AGCACACTAGCACTTTGTGTTC	59.386	45.455	10.94	6.23	42.19	3.18
899	907	3.469008	TGTAGCACACTAGCACTTTGT	57.531	42.857	0.00	0.00	36.85	2.83
900	908	3.058914	GGTTGTAGCACACTAGCACTTTG	60.059	47.826	0.00	0.00	36.85	2.77
901	909	3.139077	GGTTGTAGCACACTAGCACTTT	58.861	45.455	0.00	0.00	36.85	2.66
902	910	2.767505	GGTTGTAGCACACTAGCACTT	58.232	47.619	0.00	0.00	36.85	3.16
904	912	1.068474	CGGTTGTAGCACACTAGCAC	58.932	55.000	0.00	0.00	36.85	4.40
905	913	0.037697	CCGGTTGTAGCACACTAGCA	60.038	55.000	0.00	0.00	36.85	3.49
906	914	0.037605	ACCGGTTGTAGCACACTAGC	60.038	55.000	0.00	0.00	0.00	3.42
908	916	1.330234	TCACCGGTTGTAGCACACTA	58.670	50.000	2.97	0.00	0.00	2.74
909	917	0.466543	TTCACCGGTTGTAGCACACT	59.533	50.000	2.97	0.00	0.00	3.55
910	918	1.301423	TTTCACCGGTTGTAGCACAC	58.699	50.000	2.97	0.00	0.00	3.82
911	919	2.147958	GATTTCACCGGTTGTAGCACA	58.852	47.619	2.97	0.00	0.00	4.57
912	920	2.095919	GTGATTTCACCGGTTGTAGCAC	60.096	50.000	2.97	8.36	40.85	4.40
913	921	2.147958	GTGATTTCACCGGTTGTAGCA	58.852	47.619	2.97	0.00	40.85	3.49
914	922	2.894307	GTGATTTCACCGGTTGTAGC	57.106	50.000	2.97	0.00	40.85	3.58
924	932	1.079503	GAGCGGAGTGGTGATTTCAC	58.920	55.000	1.99	1.99	45.72	3.18
925	933	0.036388	GGAGCGGAGTGGTGATTTCA	60.036	55.000	0.00	0.00	0.00	2.69
927	935	1.299976	GGGAGCGGAGTGGTGATTT	59.700	57.895	0.00	0.00	0.00	2.17
928	936	2.670148	GGGGAGCGGAGTGGTGATT	61.670	63.158	0.00	0.00	0.00	2.57
929	937	3.083997	GGGGAGCGGAGTGGTGAT	61.084	66.667	0.00	0.00	0.00	3.06
949	966	2.032071	GGAACCACACACGGAGGG	59.968	66.667	0.00	0.00	0.00	4.30
964	981	1.455217	GACCTAGCTAGCCACGGGA	60.455	63.158	15.74	0.00	0.00	5.14
965	982	1.043673	AAGACCTAGCTAGCCACGGG	61.044	60.000	15.74	10.89	0.00	5.28
966	983	0.103208	CAAGACCTAGCTAGCCACGG	59.897	60.000	15.74	11.88	0.00	4.94
967	984	0.528684	GCAAGACCTAGCTAGCCACG	60.529	60.000	15.74	4.23	0.00	4.94
1087	1135	2.437359	GTGAAGCTGCGGATGGCT	60.437	61.111	0.00	0.00	44.05	4.75
1173	1245	1.742880	GCGGCAGATCACTTCAGCA	60.743	57.895	0.00	0.00	38.54	4.41
1488	1572	3.672293	CACATGGTGTGGCTGTCC	58.328	61.111	0.00	0.00	44.27	4.02
2017	2154	3.780294	AGTGAGGGTAAGACAATATGGCA	59.220	43.478	0.00	0.00	0.00	4.92
2400	3975	0.386352	TACACTTGAGAACCGCGACG	60.386	55.000	8.23	0.00	0.00	5.12
2403	3978	1.455786	CTGTTACACTTGAGAACCGCG	59.544	52.381	0.00	0.00	0.00	6.46
2407	3982	7.247929	AGTTTAAGCTGTTACACTTGAGAAC	57.752	36.000	9.33	10.25	26.59	3.01
2528	4124	6.327626	AGAAGGCCATAAGCTTGTCTATCTAA	59.672	38.462	9.86	0.00	43.05	2.10
2567	4173	3.611113	CAGGACGAATACAACTACGTTGG	59.389	47.826	10.99	0.00	46.50	3.77
2681	4496	6.561737	TGCGAAAAATCATAAACACTACCA	57.438	33.333	0.00	0.00	0.00	3.25
2696	4513	8.641499	AAGACAAAATAGAAACATGCGAAAAA	57.359	26.923	0.00	0.00	0.00	1.94

Based at the University of Bristol with support from BBSRC.

AutoCloner maintained by Alex Coulton.