AutoCloner

Multiple sequence alignment - TraesCS5D01G442400

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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	TraesCS5D01G442400	chr5D	100.000	3229	0	0	1	3229	494644939	494648167	0.000000e+00	5963.0
1	TraesCS5D01G442400	chr5D	77.259	1671	269	66	615	2197	494684360	494686007	0.000000e+00	878.0
2	TraesCS5D01G442400	chr5D	79.508	1220	185	29	987	2147	494773752	494774965	0.000000e+00	808.0
3	TraesCS5D01G442400	chr5D	78.604	1103	197	20	1056	2125	494783298	494784394	0.000000e+00	693.0
4	TraesCS5D01G442400	chr5D	77.169	438	56	20	2469	2889	494472970	494473380	7.020000e-52	215.0
5	TraesCS5D01G442400	chr5B	89.339	2617	190	29	1	2570	610866412	610868986	0.000000e+00	3205.0
6	TraesCS5D01G442400	chr5B	80.016	1286	188	37	988	2225	610965571	610966835	0.000000e+00	887.0
7	TraesCS5D01G442400	chr5B	78.483	1450	236	49	982	2391	610874073	610875486	0.000000e+00	880.0
8	TraesCS5D01G442400	chr5B	90.649	663	50	9	2573	3229	610869115	610869771	0.000000e+00	870.0
9	TraesCS5D01G442400	chr5B	77.852	1490	241	51	773	2199	610922720	610924183	0.000000e+00	841.0
10	TraesCS5D01G442400	chr5B	78.068	1418	220	46	696	2050	611045076	611046465	0.000000e+00	811.0
11	TraesCS5D01G442400	chr5B	79.863	1172	172	35	987	2118	611077259	611078406	0.000000e+00	798.0
12	TraesCS5D01G442400	chr5B	77.384	1468	225	55	987	2393	610927129	610928550	0.000000e+00	773.0
13	TraesCS5D01G442400	chr5B	77.704	758	128	22	986	1717	610880424	610881166	2.980000e-115	425.0
14	TraesCS5D01G442400	chr5B	77.747	364	48	12	2469	2811	610692700	610693051	3.290000e-45	193.0
15	TraesCS5D01G442400	chr5B	91.935	62	4	1	879	939	610866026	610866087	5.740000e-13	86.1
16	TraesCS5D01G442400	chr5A	91.019	2405	142	22	586	2931	618125466	618127855	0.000000e+00	3177.0
17	TraesCS5D01G442400	chr5A	77.072	1762	284	72	696	2375	618158449	618160172	0.000000e+00	905.0
18	TraesCS5D01G442400	chr5A	79.936	1256	185	32	987	2197	618270565	618271798	0.000000e+00	861.0
19	TraesCS5D01G442400	chr5A	81.198	968	141	18	1349	2301	618430536	618431477	0.000000e+00	741.0
20	TraesCS5D01G442400	chr5A	81.934	548	50	12	1	546	618123431	618123931	4.980000e-113	418.0
21	TraesCS5D01G442400	chr5A	92.553	188	12	2	3043	3229	618127853	618128039	5.310000e-68	268.0
22	TraesCS5D01G442400	chr5A	91.406	128	8	2	988	1115	618404789	618404913	4.280000e-39	172.0
23	TraesCS5D01G442400	chr1D	78.236	1213	200	25	994	2147	491604275	491603068	0.000000e+00	719.0

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	TraesCS5D01G442400	chr5D	494644939	494648167	3228	False	5963.000000	5963	100.000	1	3229	1	chr5D.!!$F2	3228
1	TraesCS5D01G442400	chr5D	494684360	494686007	1647	False	878.000000	878	77.259	615	2197	1	chr5D.!!$F3	1582
2	TraesCS5D01G442400	chr5D	494773752	494774965	1213	False	808.000000	808	79.508	987	2147	1	chr5D.!!$F4	1160
3	TraesCS5D01G442400	chr5D	494783298	494784394	1096	False	693.000000	693	78.604	1056	2125	1	chr5D.!!$F5	1069
4	TraesCS5D01G442400	chr5B	610866026	610869771	3745	False	1387.033333	3205	90.641	1	3229	3	chr5B.!!$F7	3228
5	TraesCS5D01G442400	chr5B	610965571	610966835	1264	False	887.000000	887	80.016	988	2225	1	chr5B.!!$F4	1237
6	TraesCS5D01G442400	chr5B	610874073	610875486	1413	False	880.000000	880	78.483	982	2391	1	chr5B.!!$F2	1409
7	TraesCS5D01G442400	chr5B	611045076	611046465	1389	False	811.000000	811	78.068	696	2050	1	chr5B.!!$F5	1354
8	TraesCS5D01G442400	chr5B	610922720	610928550	5830	False	807.000000	841	77.618	773	2393	2	chr5B.!!$F8	1620
9	TraesCS5D01G442400	chr5B	611077259	611078406	1147	False	798.000000	798	79.863	987	2118	1	chr5B.!!$F6	1131
10	TraesCS5D01G442400	chr5B	610880424	610881166	742	False	425.000000	425	77.704	986	1717	1	chr5B.!!$F3	731
11	TraesCS5D01G442400	chr5A	618123431	618128039	4608	False	1287.666667	3177	88.502	1	3229	3	chr5A.!!$F5	3228
12	TraesCS5D01G442400	chr5A	618158449	618160172	1723	False	905.000000	905	77.072	696	2375	1	chr5A.!!$F1	1679
13	TraesCS5D01G442400	chr5A	618270565	618271798	1233	False	861.000000	861	79.936	987	2197	1	chr5A.!!$F2	1210
14	TraesCS5D01G442400	chr5A	618430536	618431477	941	False	741.000000	741	81.198	1349	2301	1	chr5A.!!$F4	952
15	TraesCS5D01G442400	chr1D	491603068	491604275	1207	True	719.000000	719	78.236	994	2147	1	chr1D.!!$R1	1153

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
53	440	0.875908	CACCTCACACTCACACCGTG	60.876	60.000	0.00	0.00	38.32	4.94	F
1514	3598	1.005097	TCAAGAACCAGGATGCAGCAT	59.995	47.619	7.91	7.91	31.97	3.79	F

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability	Orientation
1991	4102	0.035439	TTCCATTCAGCCGGGAGAAC	60.035	55.000	2.18	0.0	31.19	3.01	R
2433	8777	1.686587	GGCTTTAGTTGGTGCAAAGGT	59.313	47.619	0.00	0.0	31.38	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
40	427	0.950555	GCATCGACAACTGCACCTCA	60.951	55.000	3.89	0.00	38.28	3.86
53	440	0.875908	CACCTCACACTCACACCGTG	60.876	60.000	0.00	0.00	38.32	4.94
102	489	2.618442	TCGCATCTGACCATATTGCA	57.382	45.000	0.37	0.00	32.94	4.08
141	528	2.115427	TGGATTGTCCTAGCCGATGAA	58.885	47.619	0.00	0.00	37.46	2.57
144	531	1.195115	TTGTCCTAGCCGATGAAGCT	58.805	50.000	0.00	0.00	44.49	3.74
145	532	1.195115	TGTCCTAGCCGATGAAGCTT	58.805	50.000	0.00	0.00	41.83	3.74
336	725	3.401033	TCATGTCGGTCAATGTGACTT	57.599	42.857	8.21	0.00	46.19	3.01
350	739	7.998767	GTCAATGTGACTTAAATCGTCGATATG	59.001	37.037	8.43	0.00	43.73	1.78
373	764	1.606668	CCCTCAGCGCAAACAAAACTA	59.393	47.619	11.47	0.00	0.00	2.24
381	772	5.630680	CAGCGCAAACAAAACTATTCATCTT	59.369	36.000	11.47	0.00	0.00	2.40
387	778	8.650714	GCAAACAAAACTATTCATCTTTCCATC	58.349	33.333	0.00	0.00	0.00	3.51
392	783	4.708177	ACTATTCATCTTTCCATCACGGG	58.292	43.478	0.00	0.00	34.36	5.28
401	792	2.060383	CCATCACGGGCTCCTCTCA	61.060	63.158	0.00	0.00	0.00	3.27
427	818	1.133823	CACCACAATGGCATAGGGCTA	60.134	52.381	15.29	0.00	42.67	3.93
449	840	2.126031	GCAACGACGTCTCCTCCC	60.126	66.667	14.70	0.00	0.00	4.30
474	865	6.250527	CGAAGGTAAATGGCAGAAAATTTACG	59.749	38.462	12.15	1.29	44.61	3.18
479	870	4.989279	ATGGCAGAAAATTTACGCAGAT	57.011	36.364	0.00	0.00	0.00	2.90
480	871	4.355543	TGGCAGAAAATTTACGCAGATC	57.644	40.909	8.21	0.00	0.00	2.75
546	939	9.803315	GAAATAAATGGATCTTAACTTCCCAAC	57.197	33.333	0.00	0.00	0.00	3.77
547	940	9.547279	AAATAAATGGATCTTAACTTCCCAACT	57.453	29.630	0.00	0.00	0.00	3.16
551	944	8.525290	AATGGATCTTAACTTCCCAACTATTG	57.475	34.615	0.00	0.00	0.00	1.90
552	945	7.027874	TGGATCTTAACTTCCCAACTATTGT	57.972	36.000	0.00	0.00	0.00	2.71
553	946	6.884295	TGGATCTTAACTTCCCAACTATTGTG	59.116	38.462	0.00	0.00	0.00	3.33
554	947	6.884836	GGATCTTAACTTCCCAACTATTGTGT	59.115	38.462	0.00	0.00	0.00	3.72
555	948	7.393515	GGATCTTAACTTCCCAACTATTGTGTT	59.606	37.037	0.00	0.00	0.00	3.32
556	949	7.739498	TCTTAACTTCCCAACTATTGTGTTC	57.261	36.000	0.00	0.00	0.00	3.18
557	950	7.284074	TCTTAACTTCCCAACTATTGTGTTCA	58.716	34.615	0.00	0.00	0.00	3.18
558	951	7.776030	TCTTAACTTCCCAACTATTGTGTTCAA	59.224	33.333	0.00	0.00	37.98	2.69
559	952	6.783708	AACTTCCCAACTATTGTGTTCAAA	57.216	33.333	0.00	0.00	37.11	2.69
560	953	6.783708	ACTTCCCAACTATTGTGTTCAAAA	57.216	33.333	0.00	0.00	37.11	2.44
561	954	7.176589	ACTTCCCAACTATTGTGTTCAAAAA	57.823	32.000	0.00	0.00	37.11	1.94
613	2535	2.171840	AGATACGATGATCCCTTCCCG	58.828	52.381	0.00	0.00	0.00	5.14
733	2656	1.450312	GTGCCAATCCCCTCTCGTG	60.450	63.158	0.00	0.00	0.00	4.35
776	2721	3.851184	CCTCTCCCCCGGATCCCT	61.851	72.222	0.73	0.00	0.00	4.20
875	2820	2.770048	CCCGGGCATCTTCCTCCT	60.770	66.667	8.08	0.00	0.00	3.69
1085	3111	5.925397	GTGTGCTCAAGATAGATGGATACTG	59.075	44.000	0.00	0.00	37.61	2.74
1086	3112	5.835280	TGTGCTCAAGATAGATGGATACTGA	59.165	40.000	0.00	0.00	37.61	3.41
1087	3113	6.496218	TGTGCTCAAGATAGATGGATACTGAT	59.504	38.462	0.00	0.00	37.61	2.90
1336	3393	1.218047	CTCAAGGGGCGATTCACGA	59.782	57.895	0.00	0.00	45.77	4.35
1514	3598	1.005097	TCAAGAACCAGGATGCAGCAT	59.995	47.619	7.91	7.91	31.97	3.79
1662	3749	1.456296	TGTGACATGGAAGCTGATGC	58.544	50.000	0.00	0.00	40.05	3.91
1783	3894	1.748122	CGGCAGGCTGAAGCAGATT	60.748	57.895	20.86	0.00	44.36	2.40
1792	3903	3.015327	GCTGAAGCAGATTTGTGAGGAT	58.985	45.455	0.00	0.00	41.59	3.24
1796	3907	6.349611	GCTGAAGCAGATTTGTGAGGATAAAA	60.350	38.462	0.00	0.00	41.59	1.52
1799	3910	6.461110	AGCAGATTTGTGAGGATAAAATGG	57.539	37.500	0.00	0.00	0.00	3.16
2079	4194	9.000978	AGAGACCAATTATCATATATGCCATCT	57.999	33.333	7.92	2.66	0.00	2.90
2225	8545	6.106673	TCCTTTCTCGCGAGATAAAAGAAAT	58.893	36.000	34.44	0.00	41.52	2.17
2229	8549	9.755064	CTTTCTCGCGAGATAAAAGAAATAAAA	57.245	29.630	37.00	21.93	41.52	1.52
2230	8550	9.755064	TTTCTCGCGAGATAAAAGAAATAAAAG	57.245	29.630	37.00	6.31	40.84	2.27
2231	8551	8.697846	TCTCGCGAGATAAAAGAAATAAAAGA	57.302	30.769	33.84	6.31	40.84	2.52
2232	8552	9.146984	TCTCGCGAGATAAAAGAAATAAAAGAA	57.853	29.630	33.84	5.68	40.84	2.52
2233	8553	9.755064	CTCGCGAGATAAAAGAAATAAAAGAAA	57.245	29.630	32.06	0.00	40.84	2.52
2234	8554	9.755064	TCGCGAGATAAAAGAAATAAAAGAAAG	57.245	29.630	3.71	0.00	33.31	2.62
2235	8555	9.543018	CGCGAGATAAAAGAAATAAAAGAAAGT	57.457	29.630	0.00	0.00	0.00	2.66
2288	8617	6.238103	CGTACCTTGATTATCCATTGTGTGTC	60.238	42.308	0.00	0.00	0.00	3.67
2377	8721	1.820519	GCATCCTTGTTCCAATGCTCA	59.179	47.619	0.00	0.00	40.98	4.26
2421	8765	6.863645	GGACTTGTTTTGGAAAATAGAAGCTC	59.136	38.462	0.00	0.00	0.00	4.09
2433	8777	5.975988	AATAGAAGCTCCATTACCTTGGA	57.024	39.130	0.00	0.00	43.56	3.53
2571	8925	2.606717	TGTAGCGACTGACTACAACG	57.393	50.000	1.30	0.00	45.24	4.10
2584	9064	3.531262	CTACAACGGTAGGTTTTGTGC	57.469	47.619	0.00	0.00	42.71	4.57
2605	9085	2.190981	GCCGTCCTTAATACGTCACTG	58.809	52.381	0.00	0.00	38.67	3.66
2609	9089	4.037208	CCGTCCTTAATACGTCACTGGTAT	59.963	45.833	0.00	0.00	38.67	2.73
2643	9123	1.917273	TCGCTGTGTCGGTTATTAGC	58.083	50.000	0.00	0.00	0.00	3.09
2698	9204	8.671384	AATGTAAAGTATGTATGCCGTGTATT	57.329	30.769	0.00	0.00	0.00	1.89
2699	9205	9.767228	AATGTAAAGTATGTATGCCGTGTATTA	57.233	29.630	0.00	0.00	0.00	0.98
2712	9218	4.119862	CCGTGTATTAGGACCTTGTGATG	58.880	47.826	0.00	0.00	0.00	3.07
2800	9309	7.493743	AAGCATTGACTGATGATATGTTCTC	57.506	36.000	0.00	0.00	0.00	2.87
2811	9320	9.734620	CTGATGATATGTTCTCTTAGCTATAGC	57.265	37.037	17.33	17.33	42.49	2.97
2812	9321	8.690884	TGATGATATGTTCTCTTAGCTATAGCC	58.309	37.037	21.17	3.86	43.38	3.93
2870	9381	1.386533	ATTGCTGGTAGTGCATCTGC	58.613	50.000	0.00	0.00	40.34	4.26
2888	9399	1.336440	TGCGTGCTTGTTATGCTGTTT	59.664	42.857	0.00	0.00	0.00	2.83
2889	9400	2.223688	TGCGTGCTTGTTATGCTGTTTT	60.224	40.909	0.00	0.00	0.00	2.43
2899	9410	5.537188	TGTTATGCTGTTTTGGATTGTTCC	58.463	37.500	0.00	0.00	42.94	3.62
2904	9415	3.243401	GCTGTTTTGGATTGTTCCGACTT	60.243	43.478	0.00	0.00	45.89	3.01
2923	9434	3.249320	ACTTAGTTTTCGAAAAGACGGGC	59.751	43.478	23.08	10.61	0.00	6.13
2984	9495	8.806146	AGCACAAGTGAATTATATGACCTTTTT	58.194	29.630	4.04	0.00	0.00	1.94
3003	9514	7.117454	CCTTTTTCGCTAACATAACATACGAG	58.883	38.462	0.00	0.00	0.00	4.18
3005	9516	6.801367	TTTCGCTAACATAACATACGAGAC	57.199	37.500	0.00	0.00	0.00	3.36
3036	9547	1.901833	GTGCCCCTCAAACCATGAAAT	59.098	47.619	0.00	0.00	37.67	2.17
3053	9564	5.664294	TGAAATTTGCAAGCCATATCTGT	57.336	34.783	0.00	0.00	0.00	3.41
3080	9591	2.009774	CTGTTGCTGGAGTAAATCGGG	58.990	52.381	0.00	0.00	0.00	5.14
3083	9594	2.107950	TGCTGGAGTAAATCGGGTTG	57.892	50.000	0.00	0.00	0.00	3.77
3087	9598	1.283613	TGGAGTAAATCGGGTTGGCAT	59.716	47.619	0.00	0.00	0.00	4.40
3112	9623	2.226330	TCTGGTCCATGAAAACCAACG	58.774	47.619	13.39	5.76	44.66	4.10
3118	9629	3.248125	GTCCATGAAAACCAACGTCGTAA	59.752	43.478	0.00	0.00	0.00	3.18

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
6	7	3.557595	GTCGATGCTAGAGAACAAATGGG	59.442	47.826	0.00	0.00	0.00	4.00
12	399	3.838120	CAGTTGTCGATGCTAGAGAACA	58.162	45.455	14.92	0.00	42.22	3.18
13	400	2.600867	GCAGTTGTCGATGCTAGAGAAC	59.399	50.000	1.49	8.00	40.73	3.01
19	406	0.608130	AGGTGCAGTTGTCGATGCTA	59.392	50.000	9.89	0.00	42.98	3.49
53	440	6.336842	TGATATAGGCGAGTAAAAGGGTAC	57.663	41.667	0.00	0.00	0.00	3.34
141	528	2.925170	ACAGAGGACGCCCAAGCT	60.925	61.111	0.00	0.00	36.60	3.74
144	531	1.671742	GAAGACAGAGGACGCCCAA	59.328	57.895	0.00	0.00	33.88	4.12
145	532	2.636412	CGAAGACAGAGGACGCCCA	61.636	63.158	0.00	0.00	33.88	5.36
265	654	7.707893	GCATTTGCTATTCCTCACACATTTAAT	59.292	33.333	0.00	0.00	38.21	1.40
266	655	7.035004	GCATTTGCTATTCCTCACACATTTAA	58.965	34.615	0.00	0.00	38.21	1.52
272	661	2.420022	ACGCATTTGCTATTCCTCACAC	59.580	45.455	0.51	0.00	39.32	3.82
336	725	5.393135	GCTGAGGGATCATATCGACGATTTA	60.393	44.000	16.73	0.00	0.00	1.40
350	739	0.881118	TTTGTTTGCGCTGAGGGATC	59.119	50.000	9.73	0.00	0.00	3.36
373	764	2.092212	AGCCCGTGATGGAAAGATGAAT	60.092	45.455	0.00	0.00	42.00	2.57
381	772	1.306141	AGAGGAGCCCGTGATGGAA	60.306	57.895	0.00	0.00	42.00	3.53
387	778	2.681778	AGGTGAGAGGAGCCCGTG	60.682	66.667	0.00	0.00	0.00	4.94
392	783	2.363172	GGTGGGAGGTGAGAGGAGC	61.363	68.421	0.00	0.00	0.00	4.70
401	792	1.803453	ATGCCATTGTGGTGGGAGGT	61.803	55.000	0.00	0.00	43.16	3.85
427	818	0.033504	AGGAGACGTCGTTGCATTGT	59.966	50.000	10.46	0.00	0.00	2.71
449	840	6.250527	CGTAAATTTTCTGCCATTTACCTTCG	59.749	38.462	0.00	0.00	40.51	3.79
472	863	4.177026	GTGTTAGATGTTCAGATCTGCGT	58.823	43.478	18.36	6.31	34.42	5.24
474	865	4.424626	TCGTGTTAGATGTTCAGATCTGC	58.575	43.478	18.36	5.62	34.42	4.26
613	2535	2.825836	CCAGACTGCAATCGCCCC	60.826	66.667	0.00	0.00	37.32	5.80
748	2687	2.411290	GGAGAGGCGCGAGAAGAG	59.589	66.667	12.10	0.00	0.00	2.85
865	2810	2.066999	GGGGTGCGAGGAGGAAGAT	61.067	63.158	0.00	0.00	0.00	2.40
941	2933	9.688091	TGCGTCTATCTATATCTATTCCTTCTT	57.312	33.333	0.00	0.00	0.00	2.52
1085	3111	2.076622	TAGCGCCTTGGCTCTCGATC	62.077	60.000	7.47	0.00	43.54	3.69
1086	3112	2.127869	TAGCGCCTTGGCTCTCGAT	61.128	57.895	7.47	0.00	43.54	3.59
1087	3113	2.754254	TAGCGCCTTGGCTCTCGA	60.754	61.111	7.47	0.00	43.54	4.04
1336	3393	4.785301	CCTTCCTGATGTCATAACACCAT	58.215	43.478	0.00	0.00	38.48	3.55
1396	3459	1.586422	CATCGCACCTGATGGTAAGG	58.414	55.000	0.00	0.00	46.60	2.69
1514	3598	3.555586	GCACCGACTTGAAAGGTTAGGTA	60.556	47.826	0.00	0.00	35.85	3.08
1662	3749	4.279169	TGAAATGGAGCAAGGACTTGAAAG	59.721	41.667	15.76	0.00	42.93	2.62
1783	3894	6.438741	TGTTATTGCCCATTTTATCCTCACAA	59.561	34.615	0.00	0.00	0.00	3.33
1860	3971	1.831580	AGCTTCTTTGAGACCATGGC	58.168	50.000	13.04	4.70	0.00	4.40
1991	4102	0.035439	TTCCATTCAGCCGGGAGAAC	60.035	55.000	2.18	0.00	31.19	3.01
2229	8549	6.183360	CGGCTGTCTCAATACTACTACTTTCT	60.183	42.308	0.00	0.00	0.00	2.52
2230	8550	5.972382	CGGCTGTCTCAATACTACTACTTTC	59.028	44.000	0.00	0.00	0.00	2.62
2231	8551	5.679127	GCGGCTGTCTCAATACTACTACTTT	60.679	44.000	0.00	0.00	0.00	2.66
2232	8552	4.202030	GCGGCTGTCTCAATACTACTACTT	60.202	45.833	0.00	0.00	0.00	2.24
2233	8553	3.315749	GCGGCTGTCTCAATACTACTACT	59.684	47.826	0.00	0.00	0.00	2.57
2234	8554	3.315749	AGCGGCTGTCTCAATACTACTAC	59.684	47.826	0.00	0.00	0.00	2.73
2235	8555	3.552875	AGCGGCTGTCTCAATACTACTA	58.447	45.455	0.00	0.00	0.00	1.82
2236	8556	2.359531	GAGCGGCTGTCTCAATACTACT	59.640	50.000	7.50	0.00	0.00	2.57
2377	8721	9.010029	ACAAGTCCAAATTTAGACGATTTATGT	57.990	29.630	10.49	7.81	38.08	2.29
2421	8765	2.231235	GTGCAAAGGTCCAAGGTAATGG	59.769	50.000	0.00	0.00	42.12	3.16
2433	8777	1.686587	GGCTTTAGTTGGTGCAAAGGT	59.313	47.619	0.00	0.00	31.38	3.50
2527	8881	2.359230	GCAACTGCGAGGAAGCCT	60.359	61.111	0.00	0.00	36.03	4.58
2539	8893	2.544267	GTCGCTACAAAACAGAGCAACT	59.456	45.455	0.00	0.00	35.91	3.16
2570	8924	2.559330	GGCGCACAAAACCTACCG	59.441	61.111	10.83	0.00	0.00	4.02
2571	8925	2.178892	GACGGCGCACAAAACCTACC	62.179	60.000	10.83	0.00	0.00	3.18
2605	9085	4.809426	AGCGAAGTAACACAAGCATATACC	59.191	41.667	0.00	0.00	0.00	2.73
2609	9089	3.431912	CACAGCGAAGTAACACAAGCATA	59.568	43.478	0.00	0.00	0.00	3.14
2643	9123	4.612259	GCAGTGCAAAAGTAGACATGAGTG	60.612	45.833	11.09	0.00	0.00	3.51
2698	9204	4.133820	CAACACAACATCACAAGGTCCTA	58.866	43.478	0.00	0.00	0.00	2.94
2699	9205	2.951642	CAACACAACATCACAAGGTCCT	59.048	45.455	0.00	0.00	0.00	3.85
2712	9218	7.376072	GTGCTTTAGACTGAATTACAACACAAC	59.624	37.037	0.00	0.00	0.00	3.32
2752	9261	4.672899	AGGGTTACATGCACACCTTTATT	58.327	39.130	8.13	0.00	0.00	1.40
2754	9263	3.073209	TGAGGGTTACATGCACACCTTTA	59.927	43.478	8.13	0.00	0.00	1.85
2789	9298	6.659668	ACGGCTATAGCTAAGAGAACATATCA	59.340	38.462	23.53	0.00	41.70	2.15
2790	9299	6.970043	CACGGCTATAGCTAAGAGAACATATC	59.030	42.308	23.53	1.61	41.70	1.63
2795	9304	4.832590	TCACGGCTATAGCTAAGAGAAC	57.167	45.455	23.53	4.14	41.70	3.01
2800	9309	4.428209	CATCCATCACGGCTATAGCTAAG	58.572	47.826	23.53	16.85	41.70	2.18
2811	9320	1.884464	CACGCTCCATCCATCACGG	60.884	63.158	0.00	0.00	0.00	4.94
2812	9321	1.884464	CCACGCTCCATCCATCACG	60.884	63.158	0.00	0.00	0.00	4.35
2870	9381	2.725723	CCAAAACAGCATAACAAGCACG	59.274	45.455	0.00	0.00	0.00	5.34
2888	9399	5.049954	CGAAAACTAAGTCGGAACAATCCAA	60.050	40.000	0.00	0.00	46.97	3.53
2889	9400	4.449743	CGAAAACTAAGTCGGAACAATCCA	59.550	41.667	0.00	0.00	46.97	3.41
2899	9410	4.375706	CCCGTCTTTTCGAAAACTAAGTCG	60.376	45.833	19.08	16.85	38.62	4.18
2904	9415	3.116079	AGCCCGTCTTTTCGAAAACTA	57.884	42.857	19.08	7.91	0.00	2.24
2923	9434	5.576128	TGTTTCCCCTACAATCCCTTTAAG	58.424	41.667	0.00	0.00	0.00	1.85
2984	9495	4.553351	CGGTCTCGTATGTTATGTTAGCGA	60.553	45.833	0.00	0.00	0.00	4.93
3036	9547	2.827322	AGCAACAGATATGGCTTGCAAA	59.173	40.909	15.44	0.00	41.25	3.68
3053	9564	2.057137	ACTCCAGCAACAGAAAGCAA	57.943	45.000	0.00	0.00	0.00	3.91
3080	9591	4.402155	TCATGGACCAGAAAATATGCCAAC	59.598	41.667	0.00	0.00	0.00	3.77
3083	9594	5.596836	TTTCATGGACCAGAAAATATGCC	57.403	39.130	13.48	0.00	31.35	4.40
3087	9598	6.515862	CGTTGGTTTTCATGGACCAGAAAATA	60.516	38.462	23.14	16.74	45.92	1.40
3112	9623	8.699283	AATCAAAACTAGACAGGTATTACGAC	57.301	34.615	0.00	0.00	0.00	4.34
3118	9629	9.574516	AACAAAGAATCAAAACTAGACAGGTAT	57.425	29.630	0.00	0.00	0.00	2.73

Based at the University of Bristol with support from BBSRC.

AutoCloner maintained by Alex Coulton.