AutoCloner

Multiple sequence alignment - TraesCS6D01G359800

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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	TraesCS6D01G359800	chr6D	100.000	3516	0	0	1	3516	451893028	451896543	0.000000e+00	6493.0
1	TraesCS6D01G359800	chr6A	93.116	2571	96	29	976	3516	597788372	597790891	0.000000e+00	3692.0
2	TraesCS6D01G359800	chr6A	94.667	75	4	0	3022	3096	597790363	597790437	2.220000e-22	117.0
3	TraesCS6D01G359800	chr6B	92.720	1717	101	17	684	2386	686363416	686365122	0.000000e+00	2457.0
4	TraesCS6D01G359800	chr6B	95.186	997	31	8	2490	3477	686365258	686366246	0.000000e+00	1559.0
5	TraesCS6D01G359800	chr6B	89.620	684	54	8	1	672	686228304	686228982	0.000000e+00	854.0
6	TraesCS6D01G359800	chr6B	88.889	99	8	2	3001	3096	686365740	686365838	6.170000e-23	119.0
7	TraesCS6D01G359800	chr6B	98.000	50	1	0	3014	3063	686365822	686365871	1.740000e-13	87.9
8	TraesCS6D01G359800	chr7B	84.184	1391	188	14	1020	2395	679359641	679361014	0.000000e+00	1321.0
9	TraesCS6D01G359800	chr7B	81.650	703	110	15	141	830	436822636	436823332	1.830000e-157	566.0
10	TraesCS6D01G359800	chr7B	77.778	504	92	14	329	815	680199556	680199056	3.430000e-75	292.0
11	TraesCS6D01G359800	chr7B	82.946	129	18	4	756	884	18104787	18104663	2.870000e-21	113.0
12	TraesCS6D01G359800	chr2B	79.220	1333	231	37	1063	2367	713940330	713939016	0.000000e+00	885.0
13	TraesCS6D01G359800	chr2B	84.667	600	88	4	4	603	603305679	603306274	2.340000e-166	595.0
14	TraesCS6D01G359800	chr2A	78.960	1250	235	16	1137	2364	723625413	723626656	0.000000e+00	826.0
15	TraesCS6D01G359800	chr3B	84.298	847	115	11	1	833	620460390	620459548	0.000000e+00	811.0
16	TraesCS6D01G359800	chr3B	79.438	890	151	22	3	875	73740951	73740077	5.020000e-168	601.0
17	TraesCS6D01G359800	chr4D	83.099	852	117	21	3	833	385489878	385489033	0.000000e+00	750.0
18	TraesCS6D01G359800	chr7D	82.471	850	124	13	1	830	247305674	247306518	0.000000e+00	721.0
19	TraesCS6D01G359800	chr7D	83.630	617	93	4	3	618	454391433	454392042	1.090000e-159	573.0
20	TraesCS6D01G359800	chr7D	80.255	785	129	14	38	808	601054147	601053375	5.090000e-158	568.0
21	TraesCS6D01G359800	chr7D	79.502	522	86	16	324	830	564064543	564064028	5.580000e-93	351.0
22	TraesCS6D01G359800	chr7D	85.915	71	9	1	801	871	539750358	539750427	1.350000e-09	75.0
23	TraesCS6D01G359800	chr2D	81.384	838	137	13	3	831	590275041	590275868	0.000000e+00	665.0
24	TraesCS6D01G359800	chr3D	85.783	626	77	5	1	615	401890784	401890160	0.000000e+00	652.0
25	TraesCS6D01G359800	chr3A	85.789	570	65	8	1	557	650026165	650026731	1.090000e-164	590.0
26	TraesCS6D01G359800	chr5D	81.619	729	113	13	123	830	230489006	230488278	5.060000e-163	584.0
27	TraesCS6D01G359800	chrUn	75.021	1189	237	37	1206	2361	15345711	15346872	2.440000e-136	496.0
28	TraesCS6D01G359800	chrUn	75.000	1196	237	38	1206	2367	272743955	272742788	2.440000e-136	496.0
29	TraesCS6D01G359800	chr5B	78.783	641	105	19	258	875	641135433	641136065	5.470000e-108	401.0

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	TraesCS6D01G359800	chr6D	451893028	451896543	3515	False	6493.000	6493	100.00000	1	3516	1	chr6D.!!$F1	3515
1	TraesCS6D01G359800	chr6A	597788372	597790891	2519	False	1904.500	3692	93.89150	976	3516	2	chr6A.!!$F1	2540
2	TraesCS6D01G359800	chr6B	686363416	686366246	2830	False	1055.725	2457	93.69875	684	3477	4	chr6B.!!$F2	2793
3	TraesCS6D01G359800	chr6B	686228304	686228982	678	False	854.000	854	89.62000	1	672	1	chr6B.!!$F1	671
4	TraesCS6D01G359800	chr7B	679359641	679361014	1373	False	1321.000	1321	84.18400	1020	2395	1	chr7B.!!$F2	1375
5	TraesCS6D01G359800	chr7B	436822636	436823332	696	False	566.000	566	81.65000	141	830	1	chr7B.!!$F1	689
6	TraesCS6D01G359800	chr7B	680199056	680199556	500	True	292.000	292	77.77800	329	815	1	chr7B.!!$R2	486
7	TraesCS6D01G359800	chr2B	713939016	713940330	1314	True	885.000	885	79.22000	1063	2367	1	chr2B.!!$R1	1304
8	TraesCS6D01G359800	chr2B	603305679	603306274	595	False	595.000	595	84.66700	4	603	1	chr2B.!!$F1	599
9	TraesCS6D01G359800	chr2A	723625413	723626656	1243	False	826.000	826	78.96000	1137	2364	1	chr2A.!!$F1	1227
10	TraesCS6D01G359800	chr3B	620459548	620460390	842	True	811.000	811	84.29800	1	833	1	chr3B.!!$R2	832
11	TraesCS6D01G359800	chr3B	73740077	73740951	874	True	601.000	601	79.43800	3	875	1	chr3B.!!$R1	872
12	TraesCS6D01G359800	chr4D	385489033	385489878	845	True	750.000	750	83.09900	3	833	1	chr4D.!!$R1	830
13	TraesCS6D01G359800	chr7D	247305674	247306518	844	False	721.000	721	82.47100	1	830	1	chr7D.!!$F1	829
14	TraesCS6D01G359800	chr7D	454391433	454392042	609	False	573.000	573	83.63000	3	618	1	chr7D.!!$F2	615
15	TraesCS6D01G359800	chr7D	601053375	601054147	772	True	568.000	568	80.25500	38	808	1	chr7D.!!$R2	770
16	TraesCS6D01G359800	chr7D	564064028	564064543	515	True	351.000	351	79.50200	324	830	1	chr7D.!!$R1	506
17	TraesCS6D01G359800	chr2D	590275041	590275868	827	False	665.000	665	81.38400	3	831	1	chr2D.!!$F1	828
18	TraesCS6D01G359800	chr3D	401890160	401890784	624	True	652.000	652	85.78300	1	615	1	chr3D.!!$R1	614
19	TraesCS6D01G359800	chr3A	650026165	650026731	566	False	590.000	590	85.78900	1	557	1	chr3A.!!$F1	556
20	TraesCS6D01G359800	chr5D	230488278	230489006	728	True	584.000	584	81.61900	123	830	1	chr5D.!!$R1	707
21	TraesCS6D01G359800	chrUn	15345711	15346872	1161	False	496.000	496	75.02100	1206	2361	1	chrUn.!!$F1	1155
22	TraesCS6D01G359800	chrUn	272742788	272743955	1167	True	496.000	496	75.00000	1206	2367	1	chrUn.!!$R1	1161
23	TraesCS6D01G359800	chr5B	641135433	641136065	632	False	401.000	401	78.78300	258	875	1	chr5B.!!$F1	617

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
848	917	0.179086	TTTGAGCTGGATATGCGCGA	60.179	50.0	12.10	0.0	33.01	5.87	F
2074	2201	0.026027	GTCGACGACGCCTACTACAG	59.974	60.0	12.94	0.0	39.58	2.74	F

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability	Orientation
2408	2541	0.106918	TGGAACTTGAGGCGTTTGGT	60.107	50.0	0.0	0.0	0.00	3.67	R
3010	3224	0.336048	ATGGGGATGAACCAACAGGG	59.664	55.0	0.0	0.0	42.17	4.45	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
114	116	0.660300	GAGAAACAAAGTTGGCCGCG	60.660	55.000	0.00	0.00	0.00	6.46
250	253	3.391049	AGTTGAGTTCGGAGCAAAGTAC	58.609	45.455	0.00	0.00	0.00	2.73
264	267	3.851098	CAAAGTACTCCCTCTGCAGTAC	58.149	50.000	14.67	8.54	43.68	2.73
300	303	3.510360	ACCCTATCCCGATTAATCACTCG	59.490	47.826	15.57	2.84	34.73	4.18
418	427	6.363626	CTTCGTCTGAATCCGATAAATCGAAT	59.636	38.462	13.71	0.00	42.12	3.34
714	782	1.228583	ACTGACACCGCAGAGGAGA	60.229	57.895	0.00	0.00	45.00	3.71
844	913	3.698040	CCCCATATTTGAGCTGGATATGC	59.302	47.826	0.00	0.00	34.13	3.14
847	916	0.870393	ATTTGAGCTGGATATGCGCG	59.130	50.000	0.00	0.00	33.01	6.86
848	917	0.179086	TTTGAGCTGGATATGCGCGA	60.179	50.000	12.10	0.00	33.01	5.87
854	923	3.490759	GGATATGCGCGATGCCGG	61.491	66.667	12.10	0.00	45.60	6.13
885	954	0.671251	GTTTGTGGCGTCCATTTGGA	59.329	50.000	1.90	0.00	43.08	3.53
917	986	3.953775	CTGGCCAGTGACCGGGTT	61.954	66.667	25.53	0.00	0.00	4.11
920	989	2.745037	GCCAGTGACCGGGTTGTA	59.255	61.111	6.32	0.00	0.00	2.41
933	1002	1.298602	GGTTGTACACCCGAACGTTT	58.701	50.000	0.46	0.00	40.19	3.60
935	1004	1.932511	GTTGTACACCCGAACGTTTGA	59.067	47.619	17.38	0.00	0.00	2.69
936	1005	1.855513	TGTACACCCGAACGTTTGAG	58.144	50.000	17.38	6.28	0.00	3.02
937	1006	1.142474	GTACACCCGAACGTTTGAGG	58.858	55.000	17.38	17.14	0.00	3.86
938	1007	0.600782	TACACCCGAACGTTTGAGGC	60.601	55.000	17.38	0.00	0.00	4.70
940	1009	2.356553	CCCGAACGTTTGAGGCGA	60.357	61.111	17.38	0.00	0.00	5.54
942	1011	1.663702	CCGAACGTTTGAGGCGAGT	60.664	57.895	17.38	0.00	0.00	4.18
943	1012	1.219522	CCGAACGTTTGAGGCGAGTT	61.220	55.000	17.38	0.00	0.00	3.01
944	1013	0.580104	CGAACGTTTGAGGCGAGTTT	59.420	50.000	10.16	0.00	0.00	2.66
946	1015	0.661020	AACGTTTGAGGCGAGTTTGG	59.339	50.000	0.00	0.00	0.00	3.28
950	1019	4.697756	TGAGGCGAGTTTGGGGCG	62.698	66.667	0.00	0.00	0.00	6.13
951	1020	4.388499	GAGGCGAGTTTGGGGCGA	62.388	66.667	0.00	0.00	0.00	5.54
952	1021	4.394712	AGGCGAGTTTGGGGCGAG	62.395	66.667	0.00	0.00	0.00	5.03
953	1022	4.699522	GGCGAGTTTGGGGCGAGT	62.700	66.667	0.00	0.00	0.00	4.18
954	1023	3.119096	GCGAGTTTGGGGCGAGTC	61.119	66.667	0.00	0.00	0.00	3.36
977	1048	3.338818	TGCTCTTATATTTGCTTGCGC	57.661	42.857	0.00	0.00	0.00	6.09
1068	1141	0.664767	GAGCTAGCGCCGTATGAAGG	60.665	60.000	9.55	0.00	36.60	3.46
1077	1150	2.007049	GCCGTATGAAGGTCACAGTGG	61.007	57.143	0.00	0.00	0.00	4.00
1347	1423	3.352338	CTCCTTAACGACGCCGGCT	62.352	63.158	26.68	11.91	40.78	5.52
2074	2201	0.026027	GTCGACGACGCCTACTACAG	59.974	60.000	12.94	0.00	39.58	2.74
2332	2465	2.144833	TACGTTTCGCTCTTCCGCCA	62.145	55.000	0.00	0.00	0.00	5.69
2333	2466	2.314647	CGTTTCGCTCTTCCGCCAA	61.315	57.895	0.00	0.00	0.00	4.52
2338	2471	1.667830	CGCTCTTCCGCCAAGACAA	60.668	57.895	0.00	0.00	36.08	3.18
2350	2483	2.731572	CCAAGACAAGGATGCCTTCAT	58.268	47.619	0.00	0.00	42.67	2.57
2368	2501	0.036105	ATGAACTGCTGCACATCCGA	60.036	50.000	0.00	0.00	0.00	4.55
2388	2521	4.153117	CCGACCTCTCAAAACTCTGATTTG	59.847	45.833	0.00	0.00	38.76	2.32
2392	2525	6.831976	ACCTCTCAAAACTCTGATTTGTACT	58.168	36.000	0.00	0.00	38.57	2.73
2394	2527	6.370166	CCTCTCAAAACTCTGATTTGTACTCC	59.630	42.308	0.00	0.00	38.57	3.85
2396	2529	8.190326	TCTCAAAACTCTGATTTGTACTCCTA	57.810	34.615	0.00	0.00	38.57	2.94
2397	2530	8.088981	TCTCAAAACTCTGATTTGTACTCCTAC	58.911	37.037	0.00	0.00	38.57	3.18
2398	2531	7.963532	TCAAAACTCTGATTTGTACTCCTACT	58.036	34.615	0.00	0.00	38.57	2.57
2399	2532	8.429641	TCAAAACTCTGATTTGTACTCCTACTT	58.570	33.333	0.00	0.00	38.57	2.24
2400	2533	9.706691	CAAAACTCTGATTTGTACTCCTACTTA	57.293	33.333	0.00	0.00	33.99	2.24
2401	2534	9.708092	AAAACTCTGATTTGTACTCCTACTTAC	57.292	33.333	0.00	0.00	0.00	2.34
2402	2535	8.653036	AACTCTGATTTGTACTCCTACTTACT	57.347	34.615	0.00	0.00	0.00	2.24
2403	2536	9.750783	AACTCTGATTTGTACTCCTACTTACTA	57.249	33.333	0.00	0.00	0.00	1.82
2404	2537	9.176460	ACTCTGATTTGTACTCCTACTTACTAC	57.824	37.037	0.00	0.00	0.00	2.73
2405	2538	9.398538	CTCTGATTTGTACTCCTACTTACTACT	57.601	37.037	0.00	0.00	0.00	2.57
2406	2539	9.393512	TCTGATTTGTACTCCTACTTACTACTC	57.606	37.037	0.00	0.00	0.00	2.59
2407	2540	9.398538	CTGATTTGTACTCCTACTTACTACTCT	57.601	37.037	0.00	0.00	0.00	3.24
2410	2543	9.625747	ATTTGTACTCCTACTTACTACTCTACC	57.374	37.037	0.00	0.00	0.00	3.18
2411	2544	7.739995	TGTACTCCTACTTACTACTCTACCA	57.260	40.000	0.00	0.00	0.00	3.25
2412	2545	8.150827	TGTACTCCTACTTACTACTCTACCAA	57.849	38.462	0.00	0.00	0.00	3.67
2413	2546	8.605947	TGTACTCCTACTTACTACTCTACCAAA	58.394	37.037	0.00	0.00	0.00	3.28
2414	2547	7.936496	ACTCCTACTTACTACTCTACCAAAC	57.064	40.000	0.00	0.00	0.00	2.93
2415	2548	6.597280	ACTCCTACTTACTACTCTACCAAACG	59.403	42.308	0.00	0.00	0.00	3.60
2416	2549	5.355350	TCCTACTTACTACTCTACCAAACGC	59.645	44.000	0.00	0.00	0.00	4.84
2417	2550	4.446994	ACTTACTACTCTACCAAACGCC	57.553	45.455	0.00	0.00	0.00	5.68
2418	2551	4.085009	ACTTACTACTCTACCAAACGCCT	58.915	43.478	0.00	0.00	0.00	5.52
2419	2552	4.157472	ACTTACTACTCTACCAAACGCCTC	59.843	45.833	0.00	0.00	0.00	4.70
2420	2553	2.522185	ACTACTCTACCAAACGCCTCA	58.478	47.619	0.00	0.00	0.00	3.86
2421	2554	2.895404	ACTACTCTACCAAACGCCTCAA	59.105	45.455	0.00	0.00	0.00	3.02
2429	2562	1.593196	CAAACGCCTCAAGTTCCAGA	58.407	50.000	0.00	0.00	0.00	3.86
2443	2577	5.832539	AGTTCCAGATCTTCTTTCCTCAA	57.167	39.130	0.00	0.00	0.00	3.02
2444	2578	6.192970	AGTTCCAGATCTTCTTTCCTCAAA	57.807	37.500	0.00	0.00	0.00	2.69
2445	2579	6.605119	AGTTCCAGATCTTCTTTCCTCAAAA	58.395	36.000	0.00	0.00	0.00	2.44
2481	2624	9.814899	AGTACAAATCTATCTATGATAGCATGC	57.185	33.333	10.51	10.51	35.94	4.06
2847	3052	1.593196	TTTCTCAAACCCTCGCTGTG	58.407	50.000	0.00	0.00	0.00	3.66
2877	3091	1.597797	CTCACCTGTACCCGCCGTAA	61.598	60.000	0.00	0.00	0.00	3.18
2991	3205	1.759299	CCCCTGGTTCATGCCCATG	60.759	63.158	4.62	1.86	40.09	3.66
2997	3211	1.444250	GTTCATGCCCATGCCCATG	59.556	57.895	14.29	14.29	40.05	3.66
2998	3212	1.001888	TTCATGCCCATGCCCATGT	59.998	52.632	17.81	0.00	39.74	3.21
2999	3213	0.618107	TTCATGCCCATGCCCATGTT	60.618	50.000	17.81	0.00	39.74	2.71
3003	3217	1.044231	TGCCCATGCCCATGTTCATC	61.044	55.000	7.42	0.00	37.11	2.92
3009	3223	1.230074	TGCCCATGTTCATCCCCATA	58.770	50.000	0.00	0.00	0.00	2.74
3010	3224	1.133513	TGCCCATGTTCATCCCCATAC	60.134	52.381	0.00	0.00	0.00	2.39
3011	3225	1.823250	GCCCATGTTCATCCCCATACC	60.823	57.143	0.00	0.00	0.00	2.73
3012	3226	1.203050	CCCATGTTCATCCCCATACCC	60.203	57.143	0.00	0.00	0.00	3.69
3430	3644	6.173339	TGTGGATTGGTTTTTGCTGTAAAAA	58.827	32.000	11.53	11.53	43.88	1.94
3469	3683	4.412207	GTCAGGACACACAAAAACAGAAC	58.588	43.478	0.00	0.00	0.00	3.01
3505	3721	2.030457	CGCATAGAAAAGCCACTTACCG	59.970	50.000	0.00	0.00	0.00	4.02

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
50	52	3.603532	CTCTTAGGATGCTTGCACTTGA	58.396	45.455	0.00	0.00	0.00	3.02
114	116	0.529378	CAAGCTCACAAGGGATTGCC	59.471	55.000	0.00	0.00	0.00	4.52
250	253	0.467384	CATGGGTACTGCAGAGGGAG	59.533	60.000	23.35	0.00	38.63	4.30
264	267	4.489771	GGGTGTCCGGAGCATGGG	62.490	72.222	3.06	0.00	0.00	4.00
300	303	3.584733	AGGGCTCAATCAAAGGGATAC	57.415	47.619	0.00	0.00	34.28	2.24
418	427	9.753674	ACCCATCAAAAGATTTAAGATGAGTTA	57.246	29.630	16.24	0.00	36.08	2.24
434	443	3.620488	GAGCAGTATGGACCCATCAAAA	58.380	45.455	4.57	0.00	37.82	2.44
714	782	5.824624	TCATTTGTTCTCTGCTGTCTTCTTT	59.175	36.000	0.00	0.00	0.00	2.52
847	916	3.838271	TCCGAGCTGACCGGCATC	61.838	66.667	0.00	0.00	46.10	3.91
848	917	4.148825	GTCCGAGCTGACCGGCAT	62.149	66.667	0.00	0.00	46.10	4.40
854	923	1.557443	CCACAAACGTCCGAGCTGAC	61.557	60.000	0.00	0.00	0.00	3.51
865	934	0.662970	CCAAATGGACGCCACAAACG	60.663	55.000	0.50	0.00	35.80	3.60
878	947	7.680113	GCCAGGCATAAAAATTTGATCCAAATG	60.680	37.037	6.55	0.00	42.32	2.32
879	948	6.319405	GCCAGGCATAAAAATTTGATCCAAAT	59.681	34.615	6.55	0.00	44.62	2.32
885	954	4.225717	ACTGGCCAGGCATAAAAATTTGAT	59.774	37.500	35.42	6.62	0.00	2.57
888	957	3.582208	TCACTGGCCAGGCATAAAAATTT	59.418	39.130	35.42	8.04	0.00	1.82
916	985	2.203401	CTCAAACGTTCGGGTGTACAA	58.797	47.619	0.00	0.00	0.00	2.41
917	986	1.538634	CCTCAAACGTTCGGGTGTACA	60.539	52.381	0.00	0.00	0.00	2.90
920	989	1.890510	GCCTCAAACGTTCGGGTGT	60.891	57.895	0.00	0.00	0.00	4.16
927	996	0.661020	CCAAACTCGCCTCAAACGTT	59.339	50.000	0.00	0.00	0.00	3.99
930	999	1.956802	CCCCAAACTCGCCTCAAAC	59.043	57.895	0.00	0.00	0.00	2.93
933	1002	4.697756	CGCCCCAAACTCGCCTCA	62.698	66.667	0.00	0.00	0.00	3.86
935	1004	4.394712	CTCGCCCCAAACTCGCCT	62.395	66.667	0.00	0.00	0.00	5.52
936	1005	4.699522	ACTCGCCCCAAACTCGCC	62.700	66.667	0.00	0.00	0.00	5.54
937	1006	3.119096	GACTCGCCCCAAACTCGC	61.119	66.667	0.00	0.00	0.00	5.03
938	1007	2.558554	ATCGACTCGCCCCAAACTCG	62.559	60.000	0.00	0.00	0.00	4.18
940	1009	1.079127	CATCGACTCGCCCCAAACT	60.079	57.895	0.00	0.00	0.00	2.66
942	1011	2.435938	GCATCGACTCGCCCCAAA	60.436	61.111	0.00	0.00	0.00	3.28
943	1012	3.371097	GAGCATCGACTCGCCCCAA	62.371	63.158	0.00	0.00	0.00	4.12
944	1013	3.838271	GAGCATCGACTCGCCCCA	61.838	66.667	0.00	0.00	0.00	4.96
946	1015	0.315568	ATAAGAGCATCGACTCGCCC	59.684	55.000	0.00	0.00	42.67	6.13
950	1019	6.588552	CAAGCAAATATAAGAGCATCGACTC	58.411	40.000	0.00	0.00	42.67	3.36
951	1020	5.049818	GCAAGCAAATATAAGAGCATCGACT	60.050	40.000	0.00	0.00	42.67	4.18
952	1021	5.142962	GCAAGCAAATATAAGAGCATCGAC	58.857	41.667	0.00	0.00	42.67	4.20
953	1022	4.084380	CGCAAGCAAATATAAGAGCATCGA	60.084	41.667	0.00	0.00	42.67	3.59
954	1023	4.146719	CGCAAGCAAATATAAGAGCATCG	58.853	43.478	0.00	0.00	42.67	3.84
977	1048	2.222819	GGATGAACAAAACTAGCGCGAG	60.223	50.000	16.50	16.50	0.00	5.03
1034	1106	3.792421	GCTAGCTCAACTTACGAAGCTAC	59.208	47.826	7.70	0.00	34.29	3.58
1045	1117	0.249073	CATACGGCGCTAGCTCAACT	60.249	55.000	13.93	0.00	44.37	3.16
1077	1150	2.941720	GCTTGATGGACTTGGATGACTC	59.058	50.000	0.00	0.00	0.00	3.36
1157	1230	0.531974	TGGCCTTGTCGAACACTGAC	60.532	55.000	3.32	0.00	36.88	3.51
1663	1760	1.466866	CGTATGGCTTGAACTCGACGA	60.467	52.381	0.00	0.00	0.00	4.20
2074	2201	1.000145	GGCGAAGTCGATGAAAGACC	59.000	55.000	4.59	0.00	43.02	3.85
2321	2454	1.301677	CCTTGTCTTGGCGGAAGAGC	61.302	60.000	0.00	0.00	41.58	4.09
2333	2466	3.009916	AGTTCATGAAGGCATCCTTGTCT	59.990	43.478	8.80	0.00	44.82	3.41
2338	2471	1.284198	AGCAGTTCATGAAGGCATCCT	59.716	47.619	25.54	10.50	33.87	3.24
2350	2483	0.950555	GTCGGATGTGCAGCAGTTCA	60.951	55.000	0.00	0.00	0.00	3.18
2368	2501	6.831976	AGTACAAATCAGAGTTTTGAGAGGT	58.168	36.000	3.88	0.00	37.48	3.85
2388	2521	8.888716	GTTTGGTAGAGTAGTAAGTAGGAGTAC	58.111	40.741	0.00	0.00	0.00	2.73
2392	2525	5.355350	GCGTTTGGTAGAGTAGTAAGTAGGA	59.645	44.000	0.00	0.00	0.00	2.94
2394	2527	5.356470	AGGCGTTTGGTAGAGTAGTAAGTAG	59.644	44.000	0.00	0.00	0.00	2.57
2396	2529	4.085009	AGGCGTTTGGTAGAGTAGTAAGT	58.915	43.478	0.00	0.00	0.00	2.24
2397	2530	4.157289	TGAGGCGTTTGGTAGAGTAGTAAG	59.843	45.833	0.00	0.00	0.00	2.34
2398	2531	4.081406	TGAGGCGTTTGGTAGAGTAGTAA	58.919	43.478	0.00	0.00	0.00	2.24
2399	2532	3.689347	TGAGGCGTTTGGTAGAGTAGTA	58.311	45.455	0.00	0.00	0.00	1.82
2400	2533	2.522185	TGAGGCGTTTGGTAGAGTAGT	58.478	47.619	0.00	0.00	0.00	2.73
2401	2534	3.056749	ACTTGAGGCGTTTGGTAGAGTAG	60.057	47.826	0.00	0.00	0.00	2.57
2402	2535	2.895404	ACTTGAGGCGTTTGGTAGAGTA	59.105	45.455	0.00	0.00	0.00	2.59
2403	2536	1.692519	ACTTGAGGCGTTTGGTAGAGT	59.307	47.619	0.00	0.00	0.00	3.24
2404	2537	2.457366	ACTTGAGGCGTTTGGTAGAG	57.543	50.000	0.00	0.00	0.00	2.43
2405	2538	2.549349	GGAACTTGAGGCGTTTGGTAGA	60.549	50.000	0.00	0.00	0.00	2.59
2406	2539	1.804748	GGAACTTGAGGCGTTTGGTAG	59.195	52.381	0.00	0.00	0.00	3.18
2407	2540	1.141254	TGGAACTTGAGGCGTTTGGTA	59.859	47.619	0.00	0.00	0.00	3.25
2408	2541	0.106918	TGGAACTTGAGGCGTTTGGT	60.107	50.000	0.00	0.00	0.00	3.67
2409	2542	0.593128	CTGGAACTTGAGGCGTTTGG	59.407	55.000	0.00	0.00	0.00	3.28
2410	2543	1.593196	TCTGGAACTTGAGGCGTTTG	58.407	50.000	0.00	0.00	0.00	2.93
2411	2544	2.039084	AGATCTGGAACTTGAGGCGTTT	59.961	45.455	0.00	0.00	0.00	3.60
2412	2545	1.625818	AGATCTGGAACTTGAGGCGTT	59.374	47.619	0.00	0.00	0.00	4.84
2413	2546	1.270907	AGATCTGGAACTTGAGGCGT	58.729	50.000	0.00	0.00	0.00	5.68
2414	2547	2.093764	AGAAGATCTGGAACTTGAGGCG	60.094	50.000	0.00	0.00	0.00	5.52
2415	2548	3.625649	AGAAGATCTGGAACTTGAGGC	57.374	47.619	0.00	0.00	0.00	4.70
2416	2549	4.940654	GGAAAGAAGATCTGGAACTTGAGG	59.059	45.833	0.00	0.00	0.00	3.86
2417	2550	5.803552	AGGAAAGAAGATCTGGAACTTGAG	58.196	41.667	0.00	0.00	0.00	3.02
2418	2551	5.307976	TGAGGAAAGAAGATCTGGAACTTGA	59.692	40.000	0.00	0.00	0.00	3.02
2419	2552	5.555017	TGAGGAAAGAAGATCTGGAACTTG	58.445	41.667	0.00	0.00	0.00	3.16
2420	2553	5.832539	TGAGGAAAGAAGATCTGGAACTT	57.167	39.130	0.00	0.00	0.00	2.66
2421	2554	5.832539	TTGAGGAAAGAAGATCTGGAACT	57.167	39.130	0.00	0.00	0.00	3.01
2429	2562	8.469309	TGATGAAACTTTTGAGGAAAGAAGAT	57.531	30.769	5.60	0.00	46.24	2.40
2476	2619	2.791004	GCTCCATTTGAATAACGCATGC	59.209	45.455	7.91	7.91	0.00	4.06
2479	2622	2.351455	TCGCTCCATTTGAATAACGCA	58.649	42.857	0.00	0.00	0.00	5.24
2480	2623	3.098636	GTTCGCTCCATTTGAATAACGC	58.901	45.455	0.00	0.00	0.00	4.84
2481	2624	4.092821	TCTGTTCGCTCCATTTGAATAACG	59.907	41.667	0.00	0.00	0.00	3.18
2486	2629	5.009510	TGAATTTCTGTTCGCTCCATTTGAA	59.990	36.000	0.00	0.00	0.00	2.69
2629	2828	4.038282	TGGATGCAAAGCCACATGATATTC	59.962	41.667	0.00	0.00	0.00	1.75
2847	3052	2.770164	ACAGGTGAGATTACACAGGC	57.230	50.000	0.00	0.00	41.88	4.85
2937	3151	2.109517	CTCAGATGGGGATGGCTCCG	62.110	65.000	0.00	0.00	43.11	4.63
2991	3205	1.620822	GTATGGGGATGAACATGGGC	58.379	55.000	0.00	0.00	0.00	5.36
2997	3211	2.654863	CAACAGGGTATGGGGATGAAC	58.345	52.381	0.00	0.00	0.00	3.18
2998	3212	1.568597	CCAACAGGGTATGGGGATGAA	59.431	52.381	0.00	0.00	32.87	2.57
2999	3213	1.221635	CCAACAGGGTATGGGGATGA	58.778	55.000	0.00	0.00	32.87	2.92
3010	3224	0.336048	ATGGGGATGAACCAACAGGG	59.664	55.000	0.00	0.00	42.17	4.45
3011	3225	2.102578	GAATGGGGATGAACCAACAGG	58.897	52.381	0.00	0.00	42.17	4.00
3012	3226	2.102578	GGAATGGGGATGAACCAACAG	58.897	52.381	0.00	0.00	42.17	3.16
3430	3644	7.001674	TGTCCTGACCTAATTGTATGTTGTTT	58.998	34.615	0.00	0.00	0.00	2.83
3452	3666	3.372822	TCCTCGTTCTGTTTTTGTGTGTC	59.627	43.478	0.00	0.00	0.00	3.67
3469	3683	3.869272	GCGCCTGCAATGTCCTCG	61.869	66.667	0.00	0.00	42.15	4.63

Based at the University of Bristol with support from BBSRC.

AutoCloner maintained by Alex Coulton.