AutoCloner

Multiple sequence alignment - TraesCS5B01G209800

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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	TraesCS5B01G209800	chr5B	100.000	3374	0	0	1	3374	379595880	379599253	0.000000e+00	6231.0
1	TraesCS5B01G209800	chr5B	83.471	1579	186	51	831	2378	368787297	368785763	0.000000e+00	1400.0
2	TraesCS5B01G209800	chr5D	92.348	2679	131	25	720	3374	326903446	326906074	0.000000e+00	3744.0
3	TraesCS5B01G209800	chr5D	84.194	1588	169	50	831	2387	318934396	318932860	0.000000e+00	1467.0
4	TraesCS5B01G209800	chr5D	91.391	604	37	5	1	595	326902704	326903301	0.000000e+00	813.0
5	TraesCS5B01G209800	chr5D	80.027	736	111	24	1177	1901	319138528	319137818	2.320000e-141	512.0
6	TraesCS5B01G209800	chr5D	79.292	367	59	9	2768	3127	48846828	48846472	1.210000e-59	241.0
7	TraesCS5B01G209800	chr5A	91.770	2260	96	34	286	2517	429657809	429655612	0.000000e+00	3061.0
8	TraesCS5B01G209800	chr5A	82.198	1101	131	34	831	1902	415430308	415431372	0.000000e+00	887.0
9	TraesCS5B01G209800	chr5A	88.941	425	41	3	1959	2383	415431395	415431813	1.390000e-143	520.0
10	TraesCS5B01G209800	chr7A	87.209	516	66	0	1386	1901	138012319	138011804	3.750000e-164	588.0
11	TraesCS5B01G209800	chr7A	84.469	367	53	2	2010	2374	138011806	138011442	3.200000e-95	359.0
12	TraesCS5B01G209800	chr7A	80.453	353	53	8	2745	3093	301122337	301121997	4.320000e-64	255.0
13	TraesCS5B01G209800	chr7A	90.000	60	6	0	1023	1082	138012591	138012532	1.000000e-10	78.7
14	TraesCS5B01G209800	chr7A	81.176	85	16	0	2596	2680	448189094	448189010	6.040000e-08	69.4
15	TraesCS5B01G209800	chr7D	87.209	516	65	1	1386	1901	138086557	138086043	1.350000e-163	586.0
16	TraesCS5B01G209800	chr7D	86.240	516	71	0	1386	1901	138038832	138038317	8.180000e-156	560.0
17	TraesCS5B01G209800	chr7D	83.274	562	74	16	2577	3127	520395125	520395677	1.810000e-137	499.0
18	TraesCS5B01G209800	chr7D	83.651	367	56	2	2010	2374	138038319	138037955	3.220000e-90	342.0
19	TraesCS5B01G209800	chr7D	83.424	368	55	5	2010	2374	138086045	138085681	1.500000e-88	337.0
20	TraesCS5B01G209800	chr7D	79.370	349	52	13	2748	3092	271053938	271053606	9.420000e-56	228.0
21	TraesCS5B01G209800	chr7D	85.714	182	24	2	3115	3296	520395568	520395747	1.240000e-44	191.0
22	TraesCS5B01G209800	chr7D	78.049	328	50	17	3063	3373	365256922	365257244	1.600000e-43	187.0
23	TraesCS5B01G209800	chr7D	90.000	60	6	0	1023	1082	138039096	138039037	1.000000e-10	78.7
24	TraesCS5B01G209800	chr3A	81.569	548	79	15	2816	3360	113257311	113256783	1.860000e-117	433.0
25	TraesCS5B01G209800	chr1D	78.582	649	84	21	2745	3366	221922885	221923505	8.840000e-101	377.0
26	TraesCS5B01G209800	chr6B	75.607	783	123	35	2540	3309	573593573	573594300	3.250000e-85	326.0
27	TraesCS5B01G209800	chr6B	86.316	95	13	0	2259	2353	245977634	245977728	1.660000e-18	104.0
28	TraesCS5B01G209800	chr6B	80.000	125	16	8	2564	2681	204614091	204613969	2.160000e-12	84.2
29	TraesCS5B01G209800	chr2B	85.065	308	40	4	3057	3360	610920590	610920895	3.270000e-80	309.0
30	TraesCS5B01G209800	chr2B	79.259	270	41	10	3112	3367	394305481	394305213	1.240000e-39	174.0
31	TraesCS5B01G209800	chr1A	80.909	330	42	14	3056	3366	575588637	575588964	1.210000e-59	241.0
32	TraesCS5B01G209800	chr6A	82.288	271	41	5	3107	3372	521860307	521860575	9.420000e-56	228.0
33	TraesCS5B01G209800	chr3D	77.807	374	62	14	2540	2904	606613648	606614009	9.480000e-51	211.0
34	TraesCS5B01G209800	chr2D	78.723	329	49	17	2662	2982	109917239	109916924	2.050000e-47	200.0
35	TraesCS5B01G209800	chr2D	76.546	388	69	13	2745	3129	644415045	644414677	3.440000e-45	193.0
36	TraesCS5B01G209800	chr2D	76.871	147	25	8	2540	2681	606185540	606185682	1.300000e-09	75.0
37	TraesCS5B01G209800	chr6D	82.353	204	26	6	3115	3309	221221411	221221613	5.790000e-38	169.0
38	TraesCS5B01G209800	chr6D	83.654	104	12	4	2577	2677	131683575	131683676	3.580000e-15	93.5
39	TraesCS5B01G209800	chr6D	80.702	114	18	3	2577	2687	149735621	149735509	6.000000e-13	86.1
40	TraesCS5B01G209800	chr6D	84.337	83	12	1	2595	2677	131680057	131680138	2.790000e-11	80.5
41	TraesCS5B01G209800	chr1B	79.082	196	33	5	3179	3367	667439304	667439498	9.830000e-26	128.0

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	TraesCS5B01G209800	chr5B	379595880	379599253	3373	False	6231.0	6231	100.000000	1	3374	1	chr5B.!!$F1	3373
1	TraesCS5B01G209800	chr5B	368785763	368787297	1534	True	1400.0	1400	83.471000	831	2378	1	chr5B.!!$R1	1547
2	TraesCS5B01G209800	chr5D	326902704	326906074	3370	False	2278.5	3744	91.869500	1	3374	2	chr5D.!!$F1	3373
3	TraesCS5B01G209800	chr5D	318932860	318934396	1536	True	1467.0	1467	84.194000	831	2387	1	chr5D.!!$R2	1556
4	TraesCS5B01G209800	chr5D	319137818	319138528	710	True	512.0	512	80.027000	1177	1901	1	chr5D.!!$R3	724
5	TraesCS5B01G209800	chr5A	429655612	429657809	2197	True	3061.0	3061	91.770000	286	2517	1	chr5A.!!$R1	2231
6	TraesCS5B01G209800	chr5A	415430308	415431813	1505	False	703.5	887	85.569500	831	2383	2	chr5A.!!$F1	1552
7	TraesCS5B01G209800	chr7A	138011442	138012591	1149	True	341.9	588	87.226000	1023	2374	3	chr7A.!!$R3	1351
8	TraesCS5B01G209800	chr7D	138085681	138086557	876	True	461.5	586	85.316500	1386	2374	2	chr7D.!!$R3	988
9	TraesCS5B01G209800	chr7D	520395125	520395747	622	False	345.0	499	84.494000	2577	3296	2	chr7D.!!$F2	719
10	TraesCS5B01G209800	chr7D	138037955	138039096	1141	True	326.9	560	86.630333	1023	2374	3	chr7D.!!$R2	1351
11	TraesCS5B01G209800	chr3A	113256783	113257311	528	True	433.0	433	81.569000	2816	3360	1	chr3A.!!$R1	544
12	TraesCS5B01G209800	chr1D	221922885	221923505	620	False	377.0	377	78.582000	2745	3366	1	chr1D.!!$F1	621
13	TraesCS5B01G209800	chr6B	573593573	573594300	727	False	326.0	326	75.607000	2540	3309	1	chr6B.!!$F2	769

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
936	1055	0.104304	CCTCGCGGCTTGGTAGTAAT	59.896	55.0	6.13	0.0	0.00	1.89	F
1154	1349	1.145759	TTGCGCCGATCTGACGAATC	61.146	55.0	4.18	0.0	35.09	2.52	F

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability	Orientation
1957	2193	1.635663	CGTCCCGTGCCAAGAATCAC	61.636	60.000	0.0	0.0	0.00	3.06	R
2957	3235	1.332465	CGTCAACGCATGAAAACGTCA	60.332	47.619	0.0	0.0	42.68	4.35	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
69	70	7.041644	CGACTAGGTCTGATTTAGAGGAGTAAG	60.042	44.444	0.00	0.00	35.70	2.34
71	72	7.776500	ACTAGGTCTGATTTAGAGGAGTAAGTC	59.224	40.741	0.00	0.00	35.70	3.01
73	74	5.357596	GGTCTGATTTAGAGGAGTAAGTCGT	59.642	44.000	0.00	0.00	35.70	4.34
74	75	6.127675	GGTCTGATTTAGAGGAGTAAGTCGTT	60.128	42.308	0.00	0.00	35.70	3.85
107	108	7.184753	ACTTCTCTAATTGGTTTTAGGGGATCT	59.815	37.037	0.00	0.00	31.69	2.75
112	113	4.733077	TTGGTTTTAGGGGATCTGTTGA	57.267	40.909	0.00	0.00	0.00	3.18
124	125	4.133078	GGATCTGTTGAAGATGCCCTTAG	58.867	47.826	0.00	0.00	46.12	2.18
128	129	3.420893	TGTTGAAGATGCCCTTAGGTTG	58.579	45.455	0.00	0.00	34.68	3.77
174	175	1.836999	TTAGTGTGGCCATCCGCTGT	61.837	55.000	9.72	0.00	43.26	4.40
192	193	7.778083	TCCGCTGTTAGAAATATTAGTCTTCA	58.222	34.615	0.00	0.00	0.00	3.02
211	212	0.400815	AGACAACCCCCACCACACTA	60.401	55.000	0.00	0.00	0.00	2.74
268	272	0.537188	CCATACAACTCGGAGCACCT	59.463	55.000	4.58	0.00	0.00	4.00
273	277	0.868406	CAACTCGGAGCACCTCAAAC	59.132	55.000	4.58	0.00	31.08	2.93
280	284	2.359900	GGAGCACCTCAAACGAATCAT	58.640	47.619	0.00	0.00	31.08	2.45
282	286	1.470098	AGCACCTCAAACGAATCATGC	59.530	47.619	0.00	0.00	0.00	4.06
328	335	5.599999	AAAGGTTCAGAGCGACTGTATAT	57.400	39.130	12.21	0.00	45.86	0.86
329	336	6.710597	AAAGGTTCAGAGCGACTGTATATA	57.289	37.500	12.21	0.00	45.86	0.86
330	337	5.950758	AGGTTCAGAGCGACTGTATATAG	57.049	43.478	12.21	0.00	45.86	1.31
476	483	5.547465	CAGTAACAATCAGTTGGAGTACCA	58.453	41.667	0.00	0.00	45.34	3.25
632	652	3.834489	TTTCTTTTGAAATGCCAGCCA	57.166	38.095	0.00	0.00	42.84	4.75
684	743	6.929606	ACCGCTTAATAATTGATGAGTAGGTC	59.070	38.462	0.00	0.00	0.00	3.85
685	744	6.369065	CCGCTTAATAATTGATGAGTAGGTCC	59.631	42.308	0.00	0.00	0.00	4.46
686	745	6.369065	CGCTTAATAATTGATGAGTAGGTCCC	59.631	42.308	0.00	0.00	0.00	4.46
687	746	7.454225	GCTTAATAATTGATGAGTAGGTCCCT	58.546	38.462	0.00	0.00	0.00	4.20
688	747	7.604545	GCTTAATAATTGATGAGTAGGTCCCTC	59.395	40.741	0.00	0.00	0.00	4.30
689	748	6.441088	AATAATTGATGAGTAGGTCCCTCC	57.559	41.667	0.00	0.00	0.00	4.30
690	749	2.940514	TTGATGAGTAGGTCCCTCCA	57.059	50.000	0.00	0.00	39.02	3.86
691	750	2.940514	TGATGAGTAGGTCCCTCCAA	57.059	50.000	0.00	0.00	39.02	3.53
692	751	3.199442	TGATGAGTAGGTCCCTCCAAA	57.801	47.619	0.00	0.00	39.02	3.28
693	752	3.526899	TGATGAGTAGGTCCCTCCAAAA	58.473	45.455	0.00	0.00	39.02	2.44
694	753	3.913799	TGATGAGTAGGTCCCTCCAAAAA	59.086	43.478	0.00	0.00	39.02	1.94
807	911	2.291209	ATGTGAGCATGTGTTTCCCA	57.709	45.000	0.00	0.00	33.37	4.37
822	926	0.621082	TCCCATTTGATACCGCACCA	59.379	50.000	0.00	0.00	0.00	4.17
922	1037	2.779506	CCTATTTATCCCCAACCTCGC	58.220	52.381	0.00	0.00	0.00	5.03
936	1055	0.104304	CCTCGCGGCTTGGTAGTAAT	59.896	55.000	6.13	0.00	0.00	1.89
948	1069	7.163441	GGCTTGGTAGTAATATCCGGATTTTA	58.837	38.462	24.71	21.72	0.00	1.52
1109	1249	5.403558	TCCTCTATCCAGTATTCCAGTCA	57.596	43.478	0.00	0.00	0.00	3.41
1119	1263	5.839063	CCAGTATTCCAGTCAAGTCCCTATA	59.161	44.000	0.00	0.00	0.00	1.31
1154	1349	1.145759	TTGCGCCGATCTGACGAATC	61.146	55.000	4.18	0.00	35.09	2.52
1209	1404	2.247637	GACGACGATGTCACGATCAAA	58.752	47.619	0.00	0.00	38.75	2.69
1306	1507	3.486001	CCGGGTGGGTGAACCTTA	58.514	61.111	0.00	0.00	40.35	2.69
1323	1524	1.860950	CTTACCAAGCATCATCCGACG	59.139	52.381	0.00	0.00	0.00	5.12
1353	1554	6.127140	GCCTCCTCCAAATTTCTAGTAGTACA	60.127	42.308	2.52	0.00	0.00	2.90
1413	1642	3.103911	GTTGGCGTCGTCACCGAG	61.104	66.667	0.00	0.00	45.26	4.63
1907	2143	2.093783	CCGAGCAAATGAAGGTTACGTC	59.906	50.000	0.00	0.00	0.00	4.34
1925	2161	2.614057	CGTCTTGTTTCAGTTGCTTCCT	59.386	45.455	0.00	0.00	0.00	3.36
1934	2170	5.705609	TTCAGTTGCTTCCTTCCATTAAC	57.294	39.130	0.00	0.00	0.00	2.01
1955	2191	2.279851	CCCTTCGTGCGTGTGACA	60.280	61.111	0.00	0.00	0.00	3.58
1993	2239	3.567797	GAGAGCCATTGACGCGCC	61.568	66.667	5.73	0.00	0.00	6.53
2163	2409	2.369257	CTGCCTACGCCATCATCGGT	62.369	60.000	0.00	0.00	0.00	4.69
2415	2666	2.741612	CGTGTCGTTTGGTTACCTACA	58.258	47.619	2.07	0.00	0.00	2.74
2478	2730	2.362329	AAATGGGTTGGTGCGTGCAC	62.362	55.000	16.40	16.40	45.49	4.57
2479	2731	3.790416	ATGGGTTGGTGCGTGCACT	62.790	57.895	22.82	0.00	45.52	4.40
2480	2732	3.216292	GGGTTGGTGCGTGCACTT	61.216	61.111	22.82	0.00	45.52	3.16
2481	2733	2.331451	GGTTGGTGCGTGCACTTC	59.669	61.111	22.82	13.46	45.52	3.01
2482	2734	2.331451	GTTGGTGCGTGCACTTCC	59.669	61.111	22.82	14.08	45.52	3.46
2483	2735	2.124529	TTGGTGCGTGCACTTCCA	60.125	55.556	22.82	16.43	45.52	3.53
2484	2736	2.186160	TTGGTGCGTGCACTTCCAG	61.186	57.895	22.82	0.00	45.52	3.86
2485	2737	2.280797	GGTGCGTGCACTTCCAGA	60.281	61.111	22.82	0.00	45.52	3.86
2520	2780	8.713971	TGAAATAATAGGTGCCATCTTTAGAGA	58.286	33.333	0.00	0.00	36.09	3.10
2559	2820	8.740123	TTTCAGAGATGTAAAACAAGGTGTTA	57.260	30.769	0.00	0.00	40.14	2.41
2592	2854	9.809096	TTACTTCATGAAAAGTGCATTTTTACA	57.191	25.926	18.57	17.05	41.24	2.41
2631	2895	5.877012	ACTCCAACAGATGATGTACATTGAC	59.123	40.000	10.30	4.60	43.00	3.18
2652	2916	9.878599	ATTGACGATGTAAAAGTTAAACTTCAG	57.121	29.630	0.00	0.00	37.47	3.02
2873	3148	1.608109	TGCACACAAGCATAACACTGG	59.392	47.619	0.00	0.00	40.11	4.00
2951	3229	4.202223	GGCTTCATCATCATCAATGGCTTT	60.202	41.667	0.00	0.00	35.94	3.51
3055	3333	3.540314	TGTTTGCATCAAAGCCACTTT	57.460	38.095	0.00	0.00	33.82	2.66
3264	3587	1.047596	TGTTGCCACCAAATGCACCT	61.048	50.000	0.00	0.00	37.18	4.00
3301	3624	1.523711	ATGTTCATGTAGCCGCCCG	60.524	57.895	0.00	0.00	0.00	6.13
3313	3636	3.281395	CGCCCGTTCCACCGTTTT	61.281	61.111	0.00	0.00	0.00	2.43

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
78	79	8.671409	TCCCCTAAAACCAATTAGAGAAGTAAA	58.329	33.333	0.00	0.00	35.35	2.01
91	92	4.733077	TCAACAGATCCCCTAAAACCAA	57.267	40.909	0.00	0.00	0.00	3.67
97	98	3.117888	GGCATCTTCAACAGATCCCCTAA	60.118	47.826	0.00	0.00	40.67	2.69
107	108	3.181434	ACAACCTAAGGGCATCTTCAACA	60.181	43.478	0.00	0.00	36.93	3.33
112	113	3.181434	TGTCAACAACCTAAGGGCATCTT	60.181	43.478	0.00	0.00	39.40	2.40
118	119	3.610911	GGAGATGTCAACAACCTAAGGG	58.389	50.000	0.00	0.00	38.88	3.95
124	125	2.568623	ACAGGGAGATGTCAACAACC	57.431	50.000	0.00	0.00	0.00	3.77
174	175	9.886132	GGGTTGTCTGAAGACTAATATTTCTAA	57.114	33.333	11.55	0.00	44.99	2.10
192	193	0.400815	TAGTGTGGTGGGGGTTGTCT	60.401	55.000	0.00	0.00	0.00	3.41
211	212	2.496470	GTCGTAGAGGATGGGAAGTGTT	59.504	50.000	0.00	0.00	36.95	3.32
358	365	5.237996	CCTATCGGTCGACTTGATTGTACTA	59.762	44.000	22.54	8.36	0.00	1.82
359	366	4.036498	CCTATCGGTCGACTTGATTGTACT	59.964	45.833	22.54	7.00	0.00	2.73
360	367	4.201990	ACCTATCGGTCGACTTGATTGTAC	60.202	45.833	22.54	1.66	40.27	2.90
632	652	2.643551	GATGTGGGGTCAATGATCGTT	58.356	47.619	0.00	0.00	0.00	3.85
693	752	6.660094	TCAACTGTAAACCTACACACCTTTTT	59.340	34.615	0.00	0.00	34.28	1.94
694	753	6.181908	TCAACTGTAAACCTACACACCTTTT	58.818	36.000	0.00	0.00	34.28	2.27
695	754	5.747342	TCAACTGTAAACCTACACACCTTT	58.253	37.500	0.00	0.00	34.28	3.11
696	755	5.362105	TCAACTGTAAACCTACACACCTT	57.638	39.130	0.00	0.00	34.28	3.50
697	756	4.742743	GCTCAACTGTAAACCTACACACCT	60.743	45.833	0.00	0.00	34.28	4.00
698	757	3.497262	GCTCAACTGTAAACCTACACACC	59.503	47.826	0.00	0.00	34.28	4.16
699	758	4.124238	TGCTCAACTGTAAACCTACACAC	58.876	43.478	0.00	0.00	34.28	3.82
700	759	4.377021	CTGCTCAACTGTAAACCTACACA	58.623	43.478	0.00	0.00	34.28	3.72
701	760	3.186613	GCTGCTCAACTGTAAACCTACAC	59.813	47.826	0.00	0.00	34.28	2.90
702	761	3.181459	TGCTGCTCAACTGTAAACCTACA	60.181	43.478	0.00	0.00	36.57	2.74
703	762	3.186613	GTGCTGCTCAACTGTAAACCTAC	59.813	47.826	0.00	0.00	0.00	3.18
704	763	3.399330	GTGCTGCTCAACTGTAAACCTA	58.601	45.455	0.00	0.00	0.00	3.08
705	764	2.222027	GTGCTGCTCAACTGTAAACCT	58.778	47.619	0.00	0.00	0.00	3.50
706	765	1.069906	CGTGCTGCTCAACTGTAAACC	60.070	52.381	0.00	0.00	0.00	3.27
707	766	1.864711	TCGTGCTGCTCAACTGTAAAC	59.135	47.619	0.00	0.00	0.00	2.01
708	767	2.135139	CTCGTGCTGCTCAACTGTAAA	58.865	47.619	0.00	0.00	0.00	2.01
807	911	2.489938	ACAGTGGTGCGGTATCAAAT	57.510	45.000	0.00	0.00	0.00	2.32
822	926	4.822896	GCTACTATGTACTCCAGCTACAGT	59.177	45.833	2.47	2.47	0.00	3.55
922	1037	2.559668	TCCGGATATTACTACCAAGCCG	59.440	50.000	0.00	0.00	37.41	5.52
930	1049	7.672660	TCCTGCTCTAAAATCCGGATATTACTA	59.327	37.037	19.48	4.23	0.00	1.82
936	1055	5.623956	TTTCCTGCTCTAAAATCCGGATA	57.376	39.130	19.48	0.38	0.00	2.59
948	1069	1.277557	AGCACTTCGATTTCCTGCTCT	59.722	47.619	0.00	0.00	32.68	4.09
1020	1160	4.215742	CTCGCCGCCCAACCGATA	62.216	66.667	0.00	0.00	0.00	2.92
1109	1249	4.696479	CAGAGGTGCATTATAGGGACTT	57.304	45.455	0.00	0.00	41.75	3.01
1154	1349	0.397941	ATCATGCATCACGTAGGGGG	59.602	55.000	0.00	0.00	0.00	5.40
1209	1404	0.975040	AGATCCCGCAGAAGAGCACT	60.975	55.000	0.00	0.00	0.00	4.40
1306	1507	0.465705	ATCGTCGGATGATGCTTGGT	59.534	50.000	11.79	0.00	0.00	3.67
1323	1524	5.654209	ACTAGAAATTTGGAGGAGGCAAATC	59.346	40.000	0.00	0.00	0.00	2.17
1353	1554	7.431249	GCATGACATGAATCCATCATTAGTTT	58.569	34.615	19.76	0.00	46.85	2.66
1369	1570	4.246206	CCTGCGCCGCATGACATG	62.246	66.667	14.15	11.27	38.13	3.21
1907	2143	3.381272	TGGAAGGAAGCAACTGAAACAAG	59.619	43.478	0.00	0.00	0.00	3.16
1925	2161	3.670625	CACGAAGGGTCAGTTAATGGAA	58.329	45.455	0.00	0.00	0.00	3.53
1934	2170	2.029073	ACACGCACGAAGGGTCAG	59.971	61.111	0.00	0.00	42.14	3.51
1957	2193	1.635663	CGTCCCGTGCCAAGAATCAC	61.636	60.000	0.00	0.00	0.00	3.06
1977	2213	2.721167	TAGGCGCGTCAATGGCTCT	61.721	57.895	15.58	0.00	41.67	4.09
1993	2239	1.908066	GCCTGCACCCGAAAACGTAG	61.908	60.000	0.00	0.00	0.00	3.51
2426	2677	3.000925	ACAACAAATCACGACTTCACGTC	59.999	43.478	0.00	0.00	44.76	4.34
2479	2731	9.874205	CCTATTATTTCAAAAGCAATTCTGGAA	57.126	29.630	0.00	0.00	0.00	3.53
2480	2732	9.034800	ACCTATTATTTCAAAAGCAATTCTGGA	57.965	29.630	0.00	0.00	0.00	3.86
2481	2733	9.090692	CACCTATTATTTCAAAAGCAATTCTGG	57.909	33.333	0.00	0.00	0.00	3.86
2482	2734	8.598075	GCACCTATTATTTCAAAAGCAATTCTG	58.402	33.333	0.00	0.00	0.00	3.02
2483	2735	7.765819	GGCACCTATTATTTCAAAAGCAATTCT	59.234	33.333	0.00	0.00	0.00	2.40
2484	2736	7.548780	TGGCACCTATTATTTCAAAAGCAATTC	59.451	33.333	0.00	0.00	0.00	2.17
2485	2737	7.393216	TGGCACCTATTATTTCAAAAGCAATT	58.607	30.769	0.00	0.00	0.00	2.32
2520	2780	6.433404	ACATCTCTGAAATGCAACAGAAGATT	59.567	34.615	17.62	11.84	41.58	2.40
2528	2788	7.115378	CCTTGTTTTACATCTCTGAAATGCAAC	59.885	37.037	0.00	0.00	0.00	4.17
2534	2794	7.639113	AACACCTTGTTTTACATCTCTGAAA	57.361	32.000	0.00	0.00	37.26	2.69
2660	2924	5.221048	GCCGGTTATACATCTTCAATTTGCT	60.221	40.000	1.90	0.00	0.00	3.91
2870	3145	3.739810	CGAGCATTGAGTGATATGTCCAG	59.260	47.826	0.00	0.00	0.00	3.86
2873	3148	3.738282	GGACGAGCATTGAGTGATATGTC	59.262	47.826	0.00	0.00	33.40	3.06
2951	3229	5.971792	TCAACGCATGAAAACGTCAATAAAA	59.028	32.000	0.00	0.00	42.68	1.52
2957	3235	1.332465	CGTCAACGCATGAAAACGTCA	60.332	47.619	0.00	0.00	42.68	4.35
3264	3587	0.703488	TGATGGGAGGTGCCATGAAA	59.297	50.000	7.88	0.00	38.95	2.69
3301	3624	0.528901	GGTGCCAAAAACGGTGGAAC	60.529	55.000	0.00	0.00	43.27	3.62
3311	3634	2.247358	GAGAAATGGGAGGTGCCAAAA	58.753	47.619	0.00	0.00	38.95	2.44
3313	3636	0.039618	GGAGAAATGGGAGGTGCCAA	59.960	55.000	0.00	0.00	38.95	4.52

Based at the University of Bristol with support from BBSRC.

AutoCloner maintained by Alex Coulton.