AutoCloner

Multiple sequence alignment - TraesCS3D01G290800

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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	TraesCS3D01G290800	chr3D	100.000	4145	0	0	1	4145	400990389	400994533	0.000000e+00	7655.0
1	TraesCS3D01G290800	chr3A	94.112	2123	76	21	345	2430	521301411	521303521	0.000000e+00	3182.0
2	TraesCS3D01G290800	chr3A	95.370	1728	43	8	2427	4145	521303632	521305331	0.000000e+00	2713.0
3	TraesCS3D01G290800	chr3A	93.127	291	17	3	1	291	521301122	521301409	1.380000e-114	424.0
4	TraesCS3D01G290800	chr3B	93.582	1340	67	7	1063	2402	526692210	526693530	0.000000e+00	1980.0
5	TraesCS3D01G290800	chr3B	94.007	1068	35	4	2400	3439	526693687	526694753	0.000000e+00	1591.0
6	TraesCS3D01G290800	chr3B	88.868	1051	75	23	7	1044	526690955	526691976	0.000000e+00	1254.0
7	TraesCS3D01G290800	chr3B	95.373	670	24	4	3480	4145	526695003	526695669	0.000000e+00	1059.0
8	TraesCS3D01G290800	chr3B	86.592	179	22	2	309	485	652753409	652753231	3.270000e-46	196.0
9	TraesCS3D01G290800	chr3B	72.692	509	97	32	7	484	452273333	452273830	9.350000e-27	132.0
10	TraesCS3D01G290800	chr3B	100.000	45	0	0	3438	3482	526694856	526694900	2.660000e-12	84.2
11	TraesCS3D01G290800	chr3B	92.308	39	1	2	2222	2259	370025662	370025625	2.000000e-03	54.7
12	TraesCS3D01G290800	chr5A	94.068	236	14	0	1072	1307	384619158	384619393	3.940000e-95	359.0
13	TraesCS3D01G290800	chr5A	73.420	459	74	35	62	484	104394037	104394483	1.210000e-25	128.0
14	TraesCS3D01G290800	chr5A	93.878	49	3	0	1443	1491	384619391	384619439	1.600000e-09	75.0
15	TraesCS3D01G290800	chr7D	74.162	507	90	30	8	484	499562348	499561853	5.510000e-39	172.0
16	TraesCS3D01G290800	chr6D	92.000	100	5	3	1172	1270	326170979	326170882	2.010000e-28	137.0
17	TraesCS3D01G290800	chr6D	96.970	33	0	1	531	562	2100216	2100184	2.000000e-03	54.7
18	TraesCS3D01G290800	chr2A	72.912	491	91	28	13	472	763814196	763814675	9.350000e-27	132.0
19	TraesCS3D01G290800	chr2A	90.000	50	2	3	491	539	74163674	74163627	1.240000e-05	62.1
20	TraesCS3D01G290800	chr5D	72.837	497	89	33	8	470	237216623	237217107	1.210000e-25	128.0
21	TraesCS3D01G290800	chr5D	94.872	39	2	0	496	534	505395760	505395722	1.240000e-05	62.1
22	TraesCS3D01G290800	chr4D	87.387	111	11	3	376	484	21791511	21791620	1.560000e-24	124.0
23	TraesCS3D01G290800	chr5B	94.737	76	4	0	1181	1256	657403127	657403202	7.280000e-23	119.0
24	TraesCS3D01G290800	chr5B	76.506	166	26	10	93	252	122564315	122564473	1.240000e-10	78.7
25	TraesCS3D01G290800	chr5B	94.872	39	1	1	2222	2260	530930042	530930005	4.470000e-05	60.2
26	TraesCS3D01G290800	chr7B	94.667	75	4	0	1181	1255	253708132	253708206	2.620000e-22	117.0
27	TraesCS3D01G290800	chr7B	84.211	114	15	3	376	487	217737894	217737782	1.580000e-19	108.0
28	TraesCS3D01G290800	chr7B	85.484	62	5	4	494	554	304493207	304493265	1.240000e-05	62.1
29	TraesCS3D01G290800	chr7B	89.796	49	3	2	495	541	718351062	718351110	1.240000e-05	62.1
30	TraesCS3D01G290800	chr7B	100.000	30	0	0	1463	1492	253708208	253708237	5.790000e-04	56.5
31	TraesCS3D01G290800	chr2D	85.841	113	12	4	3012	3122	579595005	579594895	2.620000e-22	117.0
32	TraesCS3D01G290800	chr2D	82.576	132	15	8	358	484	572628320	572628192	4.380000e-20	110.0
33	TraesCS3D01G290800	chr2D	84.848	66	4	5	474	533	53145752	53145817	1.240000e-05	62.1
34	TraesCS3D01G290800	chr2D	90.000	50	2	3	491	539	74980879	74980832	1.240000e-05	62.1
35	TraesCS3D01G290800	chr2D	96.970	33	0	1	531	562	458155240	458155208	2.000000e-03	54.7
36	TraesCS3D01G290800	chr1B	85.586	111	13	3	376	484	140355968	140356077	3.390000e-21	113.0
37	TraesCS3D01G290800	chr1B	84.211	114	15	3	376	487	444887994	444887882	1.580000e-19	108.0
38	TraesCS3D01G290800	chr1B	89.130	46	3	2	2213	2257	22665339	22665383	5.790000e-04	56.5
39	TraesCS3D01G290800	chr1B	89.130	46	3	2	2213	2257	606697265	606697309	5.790000e-04	56.5
40	TraesCS3D01G290800	chr6A	75.978	179	35	7	52	224	314405703	314405527	7.380000e-13	86.1
41	TraesCS3D01G290800	chr4B	79.646	113	19	4	3012	3122	227095159	227095269	1.240000e-10	78.7
42	TraesCS3D01G290800	chr4B	97.143	35	1	0	2222	2256	11747746	11747780	4.470000e-05	60.2
43	TraesCS3D01G290800	chr7A	92.857	42	3	0	2212	2253	227084470	227084511	1.240000e-05	62.1
44	TraesCS3D01G290800	chr1D	97.297	37	0	1	528	563	466373974	466374010	1.240000e-05	62.1
45	TraesCS3D01G290800	chr1A	97.297	37	0	1	528	563	558518588	558518624	1.240000e-05	62.1
46	TraesCS3D01G290800	chr2B	90.698	43	4	0	2222	2264	549189781	549189739	1.610000e-04	58.4
47	TraesCS3D01G290800	chr6B	86.792	53	4	3	502	554	406503774	406503823	5.790000e-04	56.5
48	TraesCS3D01G290800	chr4A	89.130	46	3	2	2213	2257	714338944	714338988	5.790000e-04	56.5
49	TraesCS3D01G290800	chr4A	90.476	42	2	2	2213	2253	717048723	717048763	2.000000e-03	54.7

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	TraesCS3D01G290800	chr3D	400990389	400994533	4144	False	7655.000000	7655	100.000	1	4145	1	chr3D.!!$F1	4144
1	TraesCS3D01G290800	chr3A	521301122	521305331	4209	False	2106.333333	3182	94.203	1	4145	3	chr3A.!!$F1	4144
2	TraesCS3D01G290800	chr3B	526690955	526695669	4714	False	1193.640000	1980	94.366	7	4145	5	chr3B.!!$F2	4138

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
869	889	0.300789	GCATCGAACCGACGGAATTC	59.699	55.0	23.38	13.88	39.18	2.17	F
1915	2155	0.038343	GAGCTCTCTCGCATCCATCC	60.038	60.0	6.43	0.00	0.00	3.51	F

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability	Orientation
2238	2478	0.105298	AGTATTACCCCCTCCGTCCC	60.105	60.0	0.0	0.0	0.0	4.46	R
3734	4515	0.036306	AACCATTCACCTCGGGACAC	59.964	55.0	0.0	0.0	0.0	3.67	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
23	24	5.539582	TTTTTAGGTCGATGAATTCCGTG	57.460	39.130	2.27	0.00	0.00	4.94
46	47	7.170998	CGTGAACACAACCTTCTCTAACTTTAT	59.829	37.037	5.80	0.00	0.00	1.40
154	155	6.291377	AGAACTAAAAGTGCTCAGAATGTCA	58.709	36.000	0.00	0.00	22.85	3.58
327	334	3.390175	TCTTCTTCCTCCACCTCTAGG	57.610	52.381	0.00	0.00	42.17	3.02
334	341	5.860648	TTCCTCCACCTCTAGGAAAATTT	57.139	39.130	2.23	0.00	46.43	1.82
337	344	7.138054	TCCTCCACCTCTAGGAAAATTTATC	57.862	40.000	2.23	0.00	38.97	1.75
346	353	7.439655	CCTCTAGGAAAATTTATCTCCAGTTCG	59.560	40.741	9.52	0.00	37.39	3.95
419	426	6.292328	GGAGCTTCATTTTCAAAACTTTTCGG	60.292	38.462	0.00	0.00	0.00	4.30
427	434	9.424659	CATTTTCAAAACTTTTCGGAGAAATTG	57.575	29.630	0.00	0.00	45.90	2.32
473	480	4.720649	TGGTCCAATTCGTTTTTGTTCA	57.279	36.364	0.00	0.00	0.00	3.18
474	481	4.677584	TGGTCCAATTCGTTTTTGTTCAG	58.322	39.130	0.00	0.00	0.00	3.02
475	482	3.489416	GGTCCAATTCGTTTTTGTTCAGC	59.511	43.478	0.00	0.00	0.00	4.26
488	496	7.006742	CGTTTTTGTTCAGCGGTTTATACATAC	59.993	37.037	0.00	0.00	0.00	2.39
516	524	7.644490	TGCAAAAATGTCGTATATTATGGGAC	58.356	34.615	0.00	3.34	0.00	4.46
686	694	7.112148	GTGAGACGATGAATTTTCTTTTGTGAC	59.888	37.037	0.00	0.00	0.00	3.67
687	695	7.026631	AGACGATGAATTTTCTTTTGTGACA	57.973	32.000	0.00	0.00	0.00	3.58
730	746	5.197451	TGAGAAAAACCTGTAGCCTTCAAA	58.803	37.500	0.00	0.00	0.00	2.69
759	775	2.305927	GGAACTTGGAAGGAGATGGTGA	59.694	50.000	0.00	0.00	0.00	4.02
868	888	0.390603	TGCATCGAACCGACGGAATT	60.391	50.000	23.38	4.92	39.18	2.17
869	889	0.300789	GCATCGAACCGACGGAATTC	59.699	55.000	23.38	13.88	39.18	2.17
870	890	1.635844	CATCGAACCGACGGAATTCA	58.364	50.000	23.38	6.39	39.18	2.57
871	891	1.323534	CATCGAACCGACGGAATTCAC	59.676	52.381	23.38	4.01	39.18	3.18
1389	1629	4.544689	CTCTCCGAGCTCGCCGTG	62.545	72.222	30.49	16.74	38.18	4.94
1422	1662	2.328099	CGTCTGCCTGCCCAAGAAC	61.328	63.158	0.00	0.00	0.00	3.01
1440	1680	2.586357	GTCTTCGCCATCCGCTCC	60.586	66.667	0.00	0.00	36.73	4.70
1532	1772	2.357517	CAAGCTCCACCGCGTCTT	60.358	61.111	4.92	0.00	34.40	3.01
1597	1837	2.362503	TCCGGACGCTGGAGATGT	60.363	61.111	0.00	0.00	33.41	3.06
1599	1839	1.079127	CCGGACGCTGGAGATGTTT	60.079	57.895	0.00	0.00	29.82	2.83
1731	1971	1.070758	AGGACAATCACGCTTCACACT	59.929	47.619	0.00	0.00	0.00	3.55
1915	2155	0.038343	GAGCTCTCTCGCATCCATCC	60.038	60.000	6.43	0.00	0.00	3.51
2041	2281	0.721718	GATGAACGGAAGCCTCAACG	59.278	55.000	0.00	0.00	31.12	4.10
2061	2301	0.763035	AGGCTACGTGTTCCTTGGTT	59.237	50.000	0.00	0.00	0.00	3.67
2099	2339	3.503363	TGCCTTGTCACAAGTCAATGATC	59.497	43.478	16.50	0.00	0.00	2.92
2115	2355	6.763135	GTCAATGATCCATGTAGTTCAAGCTA	59.237	38.462	0.00	0.00	0.00	3.32
2217	2457	1.805345	AGAGTAGTTCGACCGTGACTG	59.195	52.381	0.00	0.00	0.00	3.51
2218	2458	1.534595	GAGTAGTTCGACCGTGACTGT	59.465	52.381	0.00	0.00	0.00	3.55
2219	2459	2.738846	GAGTAGTTCGACCGTGACTGTA	59.261	50.000	0.00	0.00	0.00	2.74
2220	2460	2.481952	AGTAGTTCGACCGTGACTGTAC	59.518	50.000	0.00	0.00	0.00	2.90
2222	2462	1.952296	AGTTCGACCGTGACTGTACTT	59.048	47.619	0.00	0.00	0.00	2.24
2224	2464	2.410785	TCGACCGTGACTGTACTTTG	57.589	50.000	0.00	0.00	0.00	2.77
2225	2465	1.948834	TCGACCGTGACTGTACTTTGA	59.051	47.619	0.00	0.00	0.00	2.69
2226	2466	2.031420	TCGACCGTGACTGTACTTTGAG	60.031	50.000	0.00	0.00	0.00	3.02
2227	2467	2.287427	CGACCGTGACTGTACTTTGAGT	60.287	50.000	0.00	0.00	0.00	3.41
2229	2469	2.691526	ACCGTGACTGTACTTTGAGTCA	59.308	45.455	9.13	9.13	44.99	3.41
2237	2477	8.958119	TGACTGTACTTTGAGTCACTTATTTT	57.042	30.769	9.13	0.00	42.88	1.82
2238	2478	8.826710	TGACTGTACTTTGAGTCACTTATTTTG	58.173	33.333	9.13	0.00	42.88	2.44
2239	2479	8.154649	ACTGTACTTTGAGTCACTTATTTTGG	57.845	34.615	0.00	0.00	0.00	3.28
2240	2480	7.228706	ACTGTACTTTGAGTCACTTATTTTGGG	59.771	37.037	0.00	0.00	0.00	4.12
2242	2482	6.635030	ACTTTGAGTCACTTATTTTGGGAC	57.365	37.500	0.00	0.00	0.00	4.46
2243	2483	5.238650	ACTTTGAGTCACTTATTTTGGGACG	59.761	40.000	0.00	0.00	33.84	4.79
2244	2484	3.670625	TGAGTCACTTATTTTGGGACGG	58.329	45.455	0.00	0.00	33.84	4.79
2245	2485	3.325425	TGAGTCACTTATTTTGGGACGGA	59.675	43.478	0.00	0.00	33.84	4.69
2246	2486	3.933332	GAGTCACTTATTTTGGGACGGAG	59.067	47.826	0.00	0.00	33.84	4.63
2275	2539	9.269453	GGTAATACTTTGAAGTTACAGTGAAGT	57.731	33.333	0.00	0.00	40.37	3.01
2348	2612	1.909376	CATGCTGCTGACAAAGATGC	58.091	50.000	0.00	0.00	0.00	3.91
2396	2660	9.865484	GAGAAAGACAACTTAAGTATTTGTGTC	57.135	33.333	21.78	21.78	33.59	3.67
2464	3001	5.530915	TCAGAACATAACAAGTGGTTGAAGG	59.469	40.000	0.00	0.00	40.73	3.46
2484	3021	4.777463	AGGCACACACTACTTAACACTTT	58.223	39.130	0.00	0.00	0.00	2.66
2552	3089	7.177216	TGCATAGCTTAATTTTATCCCATCTGG	59.823	37.037	0.00	0.00	0.00	3.86
2691	3228	0.740868	TGAGCTTGGATTTCTCGCGG	60.741	55.000	6.13	0.00	0.00	6.46
2865	3423	4.637534	GCTGAAAATAAGATGACAGAGGCA	59.362	41.667	0.00	0.00	0.00	4.75
2907	3465	1.920610	AGAAGATGCTTGCAAAGGCT	58.079	45.000	11.46	0.00	46.35	4.58
3147	3705	5.070446	CCTGCAGTTGGAGTATACCTGATAA	59.930	44.000	13.81	0.00	0.00	1.75
3295	3859	6.882678	GGTTCAACCCTTCTTTACATAGCTAA	59.117	38.462	0.00	0.00	30.04	3.09
3324	3888	6.508777	AGTTAGAACAGAGTTTGAGACAGAC	58.491	40.000	0.00	0.00	0.00	3.51
3398	3967	6.357367	ACAGGAGATGAGTTTTACTTGTGTT	58.643	36.000	0.00	0.00	0.00	3.32
3598	4377	1.413767	GCATAGACCGTGTGCTCGTG	61.414	60.000	0.00	0.00	40.08	4.35
3639	4420	4.253685	CGTTGGTGACATTGGAAGAGTAT	58.746	43.478	0.00	0.00	42.32	2.12
3640	4421	5.046878	ACGTTGGTGACATTGGAAGAGTATA	60.047	40.000	0.00	0.00	42.32	1.47
3684	4465	7.431084	GTCTGAAATTCAAACAGCGAAAAAGTA	59.569	33.333	0.00	0.00	0.00	2.24
3734	4515	0.179089	CAGATGGGACTTGGAGCTCG	60.179	60.000	7.83	0.00	0.00	5.03
3859	4640	2.815589	GCCCCAGTTGAAGAACAGATGT	60.816	50.000	0.00	0.00	34.17	3.06
3869	4650	4.756642	TGAAGAACAGATGTGCGAGAAAAT	59.243	37.500	0.00	0.00	0.00	1.82
3871	4652	5.695851	AGAACAGATGTGCGAGAAAATTT	57.304	34.783	0.00	0.00	0.00	1.82
3896	4677	1.292941	TGAGAGAGGGGAGGGAGAGG	61.293	65.000	0.00	0.00	0.00	3.69
3951	4732	6.405731	GCTCAGAGCTCTAATACCCTATCATG	60.406	46.154	17.75	0.00	38.45	3.07
3997	4781	5.821204	AGATTCAACCAAAAGACTCGTTTG	58.179	37.500	9.72	9.72	36.03	2.93
4014	4798	4.750598	TCGTTTGGTTCATTCATTGTACGA	59.249	37.500	0.00	0.00	32.67	3.43

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
23	24	9.880064	GAAATAAAGTTAGAGAAGGTTGTGTTC	57.120	33.333	0.00	0.00	0.00	3.18
225	232	1.303561	TGCCCTTGTGGACATCAGC	60.304	57.895	0.00	0.00	35.39	4.26
229	236	1.303888	CTGCTGCCCTTGTGGACAT	60.304	57.895	0.00	0.00	35.39	3.06
327	334	7.515371	CGAGCTACGAACTGGAGATAAATTTTC	60.515	40.741	0.00	0.00	45.77	2.29
334	341	1.602851	GCGAGCTACGAACTGGAGATA	59.397	52.381	9.32	0.00	45.77	1.98
337	344	1.583967	CGCGAGCTACGAACTGGAG	60.584	63.158	0.00	0.00	45.77	3.86
346	353	1.874466	GAGCAAGACCGCGAGCTAC	60.874	63.158	8.23	0.28	37.48	3.58
419	426	4.943705	TCACATACCAAGGAGCAATTTCTC	59.056	41.667	0.00	0.00	0.00	2.87
427	434	3.462021	GATGAGTCACATACCAAGGAGC	58.538	50.000	0.00	0.00	39.56	4.70
473	480	4.145365	TGCAAGGTATGTATAAACCGCT	57.855	40.909	0.00	0.00	40.88	5.52
474	481	4.886247	TTGCAAGGTATGTATAAACCGC	57.114	40.909	0.00	0.00	40.88	5.68
475	482	7.757624	ACATTTTTGCAAGGTATGTATAAACCG	59.242	33.333	16.66	3.92	40.88	4.44
488	496	7.594758	CCCATAATATACGACATTTTTGCAAGG	59.405	37.037	0.00	0.00	0.00	3.61
516	524	4.521146	TGAACTAAGTAGTACTCCCTCCG	58.479	47.826	2.58	0.00	34.99	4.63
658	666	7.431960	CACAAAAGAAAATTCATCGTCTCACAA	59.568	33.333	0.00	0.00	0.00	3.33
667	675	7.202526	TGACCTGTCACAAAAGAAAATTCATC	58.797	34.615	0.00	0.00	34.14	2.92
730	746	4.476113	TCTCCTTCCAAGTTCCATCATGAT	59.524	41.667	1.18	1.18	0.00	2.45
795	811	0.251165	GTTGGGCTGGGCTGTTCTAA	60.251	55.000	0.00	0.00	0.00	2.10
796	812	1.133809	AGTTGGGCTGGGCTGTTCTA	61.134	55.000	0.00	0.00	0.00	2.10
910	930	1.642952	GCTGGCTTTTGGAGAGCTCG	61.643	60.000	8.37	0.00	40.01	5.03
1025	1050	3.793144	GCTTGCGCTTGAGGTCCG	61.793	66.667	9.73	0.00	0.00	4.79
1026	1051	3.793144	CGCTTGCGCTTGAGGTCC	61.793	66.667	9.73	0.00	0.00	4.46
1027	1052	3.793144	CCGCTTGCGCTTGAGGTC	61.793	66.667	9.73	0.00	0.00	3.85
1440	1680	3.214250	GAGGGATAGCACGGCGAGG	62.214	68.421	16.62	6.41	0.00	4.63
1583	1823	1.079503	GTGAAACATCTCCAGCGTCC	58.920	55.000	0.00	0.00	36.32	4.79
1597	1837	2.192861	CCAAGCCCGTGCAGTGAAA	61.193	57.895	0.00	0.00	41.13	2.69
1599	1839	3.555324	TCCAAGCCCGTGCAGTGA	61.555	61.111	0.00	0.00	41.13	3.41
1731	1971	1.289066	CTTCTGCGTCTTGGGTCGA	59.711	57.895	0.00	0.00	0.00	4.20
1915	2155	7.040755	ACACTGCAGTAATAGCTGATAGAGTAG	60.041	40.741	21.20	2.70	38.70	2.57
2020	2260	1.734465	GTTGAGGCTTCCGTTCATCAG	59.266	52.381	0.00	0.00	0.00	2.90
2041	2281	0.320697	ACCAAGGAACACGTAGCCTC	59.679	55.000	3.82	0.00	0.00	4.70
2061	2301	2.305928	AGGCAAACACACTGTAATGCA	58.694	42.857	12.46	0.00	41.93	3.96
2217	2457	7.570691	CGTCCCAAAATAAGTGACTCAAAGTAC	60.571	40.741	0.00	0.00	0.00	2.73
2218	2458	6.425721	CGTCCCAAAATAAGTGACTCAAAGTA	59.574	38.462	0.00	0.00	0.00	2.24
2219	2459	5.238650	CGTCCCAAAATAAGTGACTCAAAGT	59.761	40.000	0.00	0.00	0.00	2.66
2220	2460	5.334879	CCGTCCCAAAATAAGTGACTCAAAG	60.335	44.000	0.00	0.00	0.00	2.77
2222	2462	4.069304	CCGTCCCAAAATAAGTGACTCAA	58.931	43.478	0.00	0.00	0.00	3.02
2224	2464	3.933332	CTCCGTCCCAAAATAAGTGACTC	59.067	47.826	0.00	0.00	0.00	3.36
2225	2465	3.307480	CCTCCGTCCCAAAATAAGTGACT	60.307	47.826	0.00	0.00	0.00	3.41
2226	2466	3.007635	CCTCCGTCCCAAAATAAGTGAC	58.992	50.000	0.00	0.00	0.00	3.67
2227	2467	2.026636	CCCTCCGTCCCAAAATAAGTGA	60.027	50.000	0.00	0.00	0.00	3.41
2229	2469	1.283905	CCCCTCCGTCCCAAAATAAGT	59.716	52.381	0.00	0.00	0.00	2.24
2230	2470	1.409661	CCCCCTCCGTCCCAAAATAAG	60.410	57.143	0.00	0.00	0.00	1.73
2232	2472	0.550638	ACCCCCTCCGTCCCAAAATA	60.551	55.000	0.00	0.00	0.00	1.40
2233	2473	0.550638	TACCCCCTCCGTCCCAAAAT	60.551	55.000	0.00	0.00	0.00	1.82
2236	2476	0.342665	TATTACCCCCTCCGTCCCAA	59.657	55.000	0.00	0.00	0.00	4.12
2237	2477	0.398948	GTATTACCCCCTCCGTCCCA	60.399	60.000	0.00	0.00	0.00	4.37
2238	2478	0.105298	AGTATTACCCCCTCCGTCCC	60.105	60.000	0.00	0.00	0.00	4.46
2239	2479	1.798626	AAGTATTACCCCCTCCGTCC	58.201	55.000	0.00	0.00	0.00	4.79
2240	2480	2.767960	TCAAAGTATTACCCCCTCCGTC	59.232	50.000	0.00	0.00	0.00	4.79
2242	2482	3.199289	ACTTCAAAGTATTACCCCCTCCG	59.801	47.826	0.00	0.00	37.52	4.63
2243	2483	4.857130	ACTTCAAAGTATTACCCCCTCC	57.143	45.455	0.00	0.00	37.52	4.30
2244	2484	6.714278	TGTAACTTCAAAGTATTACCCCCTC	58.286	40.000	0.00	0.00	38.57	4.30
2245	2485	6.273965	ACTGTAACTTCAAAGTATTACCCCCT	59.726	38.462	0.00	0.00	38.57	4.79
2246	2486	6.373495	CACTGTAACTTCAAAGTATTACCCCC	59.627	42.308	0.00	0.00	38.57	5.40
2396	2660	6.543465	TCCTGGAATCTACAAATTGCTACATG	59.457	38.462	0.00	0.00	0.00	3.21
2464	3001	9.166126	GAAATAAAAGTGTTAAGTAGTGTGTGC	57.834	33.333	0.00	0.00	0.00	4.57
2484	3021	2.152830	CCCAAACCCACGTCGAAATAA	58.847	47.619	0.00	0.00	0.00	1.40
2691	3228	3.192212	CCAGGAAAACAGCTTCTGATTCC	59.808	47.826	18.93	18.93	43.75	3.01
2865	3423	6.716628	TCTTGTGATCAGCAAAACTAAAGGAT	59.283	34.615	0.00	0.00	0.00	3.24
3147	3705	3.702548	TGGTGTATGCCTATCGTGTAAGT	59.297	43.478	0.00	0.00	0.00	2.24
3253	3811	1.056660	ACCCAACCACTCGAGATTGT	58.943	50.000	21.68	9.86	0.00	2.71
3295	3859	6.981559	GTCTCAAACTCTGTTCTAACTTCACT	59.018	38.462	0.00	0.00	0.00	3.41
3398	3967	3.496884	GCAACTGAGGTTTCATTACGACA	59.503	43.478	0.00	0.00	32.73	4.35
3484	4262	2.867456	GCATGTTTGAGTGCAAATGC	57.133	45.000	0.00	0.00	45.01	3.56
3495	4273	4.099380	TGCTGTATGACATGCATGTTTG	57.901	40.909	31.82	18.28	41.95	2.93
3552	4330	8.498054	AAATCTTCACAGTAATCACCACATAG	57.502	34.615	0.00	0.00	0.00	2.23
3553	4331	7.277760	CGAAATCTTCACAGTAATCACCACATA	59.722	37.037	0.00	0.00	0.00	2.29
3554	4332	6.092670	CGAAATCTTCACAGTAATCACCACAT	59.907	38.462	0.00	0.00	0.00	3.21
3598	4377	4.043200	GCAGGTGGAGCGGCAAAC	62.043	66.667	1.45	0.00	0.00	2.93
3639	4420	5.949952	TCAGACACCTAGCATAGACAGTTTA	59.050	40.000	0.00	0.00	42.77	2.01
3640	4421	4.772624	TCAGACACCTAGCATAGACAGTTT	59.227	41.667	0.00	0.00	42.77	2.66
3684	4465	1.734655	AGGTGACTGAGTCCACCAAT	58.265	50.000	25.31	11.26	41.13	3.16
3734	4515	0.036306	AACCATTCACCTCGGGACAC	59.964	55.000	0.00	0.00	0.00	3.67
3744	4525	2.032426	ACCGTGTTTTCGAACCATTCAC	59.968	45.455	0.00	2.65	0.00	3.18
3859	4640	7.361201	CCTCTCTCAATACAAAATTTTCTCGCA	60.361	37.037	0.00	0.00	0.00	5.10
3869	4650	3.523564	CCCTCCCCTCTCTCAATACAAAA	59.476	47.826	0.00	0.00	0.00	2.44
3871	4652	2.317900	TCCCTCCCCTCTCTCAATACAA	59.682	50.000	0.00	0.00	0.00	2.41
3896	4677	2.237392	AGACAATGCACCTAAGGTCTCC	59.763	50.000	0.00	0.00	31.02	3.71
3968	4752	5.635120	AGTCTTTTGGTTGAATCTTAGCCT	58.365	37.500	0.00	0.00	0.00	4.58
3997	4781	4.980590	TGCAATCGTACAATGAATGAACC	58.019	39.130	0.00	0.00	0.00	3.62
3998	4782	7.165812	GGTATTGCAATCGTACAATGAATGAAC	59.834	37.037	16.86	2.25	37.11	3.18
4014	4798	5.532406	GGTGATGTGTATGAGGTATTGCAAT	59.468	40.000	17.56	17.56	0.00	3.56

Based at the University of Bristol with support from BBSRC.

AutoCloner maintained by Alex Coulton.