AutoCloner

Multiple sequence alignment - TraesCS7A01G499100

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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	TraesCS7A01G499100	chr7A	100.000	2861	0	0	1	2861	689400034	689397174	0.000000e+00	5284
1	TraesCS7A01G499100	chr7A	98.291	2750	43	3	112	2861	60711667	60708922	0.000000e+00	4815
2	TraesCS7A01G499100	chr7A	98.077	104	2	0	1	104	337908955	337908852	6.300000e-42	182
3	TraesCS7A01G499100	chr5A	98.510	2751	41	0	111	2861	556701942	556704692	0.000000e+00	4854
4	TraesCS7A01G499100	chr5A	98.509	2750	41	0	112	2861	556697028	556699777	0.000000e+00	4852
5	TraesCS7A01G499100	chr5A	98.182	2751	48	2	112	2861	709483052	709480303	0.000000e+00	4802
6	TraesCS7A01G499100	chr5A	97.745	2750	55	3	112	2861	465387596	465390338	0.000000e+00	4728
7	TraesCS7A01G499100	chr6A	94.505	2311	123	3	345	2654	316458216	316460523	0.000000e+00	3561
8	TraesCS7A01G499100	chr5B	98.419	2024	32	0	112	2135	320400488	320402511	0.000000e+00	3561
9	TraesCS7A01G499100	chr5B	95.575	113	2	2	1	113	616286686	616286795	8.150000e-41	178
10	TraesCS7A01G499100	chr2A	93.205	2237	116	12	627	2861	434071699	434073901	0.000000e+00	3256
11	TraesCS7A01G499100	chr2A	93.997	1316	78	1	1546	2861	717806091	717807405	0.000000e+00	1991
12	TraesCS7A01G499100	chr4B	98.083	1774	31	3	112	1883	16675793	16677565	0.000000e+00	3085
13	TraesCS7A01G499100	chr4B	98.095	105	1	1	1	104	220302068	220302172	6.300000e-42	182
14	TraesCS7A01G499100	chr1D	96.520	1523	51	2	1339	2861	432575929	432577449	0.000000e+00	2518
15	TraesCS7A01G499100	chr4A	92.659	1226	84	4	112	1333	478728895	478730118	0.000000e+00	1760
16	TraesCS7A01G499100	chr4A	94.737	114	3	2	1	113	18924924	18924813	1.050000e-39	174
17	TraesCS7A01G499100	chr4A	94.690	113	4	1	1	113	213431743	213431633	1.050000e-39	174
18	TraesCS7A01G499100	chr1A	95.614	114	2	2	1	113	591590016	591590127	2.260000e-41	180
19	TraesCS7A01G499100	chr1A	94.737	114	3	2	1	113	282222647	282222536	1.050000e-39	174
20	TraesCS7A01G499100	chr6D	95.575	113	2	2	1	113	248391108	248390999	8.150000e-41	178
21	TraesCS7A01G499100	chr4D	95.575	113	2	2	1	113	198575873	198575982	8.150000e-41	178

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	TraesCS7A01G499100	chr7A	689397174	689400034	2860	True	5284	5284	100.0000	1	2861	1	chr7A.!!$R3	2860
1	TraesCS7A01G499100	chr7A	60708922	60711667	2745	True	4815	4815	98.2910	112	2861	1	chr7A.!!$R1	2749
2	TraesCS7A01G499100	chr5A	556697028	556704692	7664	False	4853	4854	98.5095	111	2861	2	chr5A.!!$F2	2750
3	TraesCS7A01G499100	chr5A	709480303	709483052	2749	True	4802	4802	98.1820	112	2861	1	chr5A.!!$R1	2749
4	TraesCS7A01G499100	chr5A	465387596	465390338	2742	False	4728	4728	97.7450	112	2861	1	chr5A.!!$F1	2749
5	TraesCS7A01G499100	chr6A	316458216	316460523	2307	False	3561	3561	94.5050	345	2654	1	chr6A.!!$F1	2309
6	TraesCS7A01G499100	chr5B	320400488	320402511	2023	False	3561	3561	98.4190	112	2135	1	chr5B.!!$F1	2023
7	TraesCS7A01G499100	chr2A	434071699	434073901	2202	False	3256	3256	93.2050	627	2861	1	chr2A.!!$F1	2234
8	TraesCS7A01G499100	chr2A	717806091	717807405	1314	False	1991	1991	93.9970	1546	2861	1	chr2A.!!$F2	1315
9	TraesCS7A01G499100	chr4B	16675793	16677565	1772	False	3085	3085	98.0830	112	1883	1	chr4B.!!$F1	1771
10	TraesCS7A01G499100	chr1D	432575929	432577449	1520	False	2518	2518	96.5200	1339	2861	1	chr1D.!!$F1	1522
11	TraesCS7A01G499100	chr4A	478728895	478730118	1223	False	1760	1760	92.6590	112	1333	1	chr4A.!!$F1	1221

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
26	27	0.180406	AATACCACCCAGATGGCGAC	59.820	55.000	0.00	0.00	44.33	5.19	F
386	393	1.056700	CGATCCACATCCCCTTCCCT	61.057	60.000	0.00	0.00	0.00	4.20	F
688	696	1.449070	TCTCGGCTGCAGCAATCAG	60.449	57.895	37.63	25.39	44.36	2.90	F

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability	Orientation
1143	1155	1.617322	AACACGGAGAGTACTGCTCA	58.383	50.000	18.17	0.00	46.47	4.26	R
1406	1419	3.264193	ACCAACATGCTCATTCTCAGGTA	59.736	43.478	0.00	0.00	0.00	3.08	R
2380	7311	4.106925	GCACTAGCCAGCTGCCCT	62.107	66.667	8.66	9.26	42.71	5.19	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
22	23	4.171234	AGATCCTAATACCACCCAGATGG	58.829	47.826	0.00	0.00	46.10	3.51
23	24	2.054799	TCCTAATACCACCCAGATGGC	58.945	52.381	0.00	0.00	44.33	4.40
24	25	1.270839	CCTAATACCACCCAGATGGCG	60.271	57.143	0.00	0.00	44.33	5.69
25	26	1.691976	CTAATACCACCCAGATGGCGA	59.308	52.381	0.00	0.00	44.33	5.54
26	27	0.180406	AATACCACCCAGATGGCGAC	59.820	55.000	0.00	0.00	44.33	5.19
27	28	2.028125	ATACCACCCAGATGGCGACG	62.028	60.000	0.00	0.00	44.33	5.12
28	29	4.082523	CCACCCAGATGGCGACGT	62.083	66.667	0.00	0.00	37.83	4.34
29	30	2.815211	CACCCAGATGGCGACGTG	60.815	66.667	0.00	0.00	37.83	4.49
30	31	4.082523	ACCCAGATGGCGACGTGG	62.083	66.667	0.00	0.00	37.83	4.94
31	32	4.838152	CCCAGATGGCGACGTGGG	62.838	72.222	8.67	8.67	43.83	4.61
53	54	1.234821	CGTAAGGCACACAACCATGT	58.765	50.000	0.00	0.00	41.61	3.21
54	55	1.606668	CGTAAGGCACACAACCATGTT	59.393	47.619	0.00	0.00	37.82	2.71
55	56	2.809119	CGTAAGGCACACAACCATGTTA	59.191	45.455	0.00	0.00	37.82	2.41
56	57	3.120338	CGTAAGGCACACAACCATGTTAG	60.120	47.826	0.00	0.00	37.82	2.34
57	58	2.656947	AGGCACACAACCATGTTAGT	57.343	45.000	0.00	0.00	37.82	2.24
58	59	3.780804	AGGCACACAACCATGTTAGTA	57.219	42.857	0.00	0.00	37.82	1.82
59	60	4.093472	AGGCACACAACCATGTTAGTAA	57.907	40.909	0.00	0.00	37.82	2.24
60	61	4.465886	AGGCACACAACCATGTTAGTAAA	58.534	39.130	0.00	0.00	37.82	2.01
61	62	4.890581	AGGCACACAACCATGTTAGTAAAA	59.109	37.500	0.00	0.00	37.82	1.52
62	63	5.009610	AGGCACACAACCATGTTAGTAAAAG	59.990	40.000	0.00	0.00	37.82	2.27
63	64	5.221165	GGCACACAACCATGTTAGTAAAAGT	60.221	40.000	0.00	0.00	37.82	2.66
64	65	6.270064	GCACACAACCATGTTAGTAAAAGTT	58.730	36.000	0.00	0.00	37.82	2.66
65	66	6.754675	GCACACAACCATGTTAGTAAAAGTTT	59.245	34.615	0.00	0.00	37.82	2.66
66	67	7.276878	GCACACAACCATGTTAGTAAAAGTTTT	59.723	33.333	6.06	6.06	37.82	2.43
67	68	8.591312	CACACAACCATGTTAGTAAAAGTTTTG	58.409	33.333	11.18	0.00	37.82	2.44
68	69	8.308207	ACACAACCATGTTAGTAAAAGTTTTGT	58.692	29.630	11.18	1.09	37.82	2.83
69	70	9.790389	CACAACCATGTTAGTAAAAGTTTTGTA	57.210	29.630	11.18	0.15	37.82	2.41
83	84	8.882415	AAAAGTTTTGTAATGTCTAGACTCGA	57.118	30.769	23.01	4.10	0.00	4.04
84	85	7.870588	AAGTTTTGTAATGTCTAGACTCGAC	57.129	36.000	23.01	16.76	0.00	4.20
85	86	7.216973	AGTTTTGTAATGTCTAGACTCGACT	57.783	36.000	23.01	12.10	32.70	4.18
86	87	7.659186	AGTTTTGTAATGTCTAGACTCGACTT	58.341	34.615	23.01	11.11	32.70	3.01
87	88	7.808856	AGTTTTGTAATGTCTAGACTCGACTTC	59.191	37.037	23.01	8.27	32.70	3.01
88	89	5.466432	TGTAATGTCTAGACTCGACTTCG	57.534	43.478	23.01	0.00	41.45	3.79
89	90	4.331992	TGTAATGTCTAGACTCGACTTCGG	59.668	45.833	23.01	0.00	40.29	4.30
90	91	1.085091	TGTCTAGACTCGACTTCGGC	58.915	55.000	23.01	0.00	40.29	5.54
91	92	1.338864	TGTCTAGACTCGACTTCGGCT	60.339	52.381	23.01	0.00	40.29	5.52
92	93	2.093816	TGTCTAGACTCGACTTCGGCTA	60.094	50.000	23.01	0.00	40.29	3.93
93	94	2.935201	GTCTAGACTCGACTTCGGCTAA	59.065	50.000	15.91	0.00	40.29	3.09
94	95	3.001533	GTCTAGACTCGACTTCGGCTAAG	59.998	52.174	15.91	0.00	41.33	2.18
95	96	1.096416	AGACTCGACTTCGGCTAAGG	58.904	55.000	3.67	0.00	39.73	2.69
96	97	1.093159	GACTCGACTTCGGCTAAGGA	58.907	55.000	3.67	0.00	39.73	3.36
97	98	1.064357	GACTCGACTTCGGCTAAGGAG	59.936	57.143	3.67	4.03	39.73	3.69
98	99	1.096416	CTCGACTTCGGCTAAGGAGT	58.904	55.000	3.67	0.00	39.73	3.85
99	100	1.473278	CTCGACTTCGGCTAAGGAGTT	59.527	52.381	3.67	0.00	39.73	3.01
100	101	1.201647	TCGACTTCGGCTAAGGAGTTG	59.798	52.381	3.67	1.71	39.73	3.16
101	102	1.736032	CGACTTCGGCTAAGGAGTTGG	60.736	57.143	3.67	0.00	39.73	3.77
102	103	1.549170	GACTTCGGCTAAGGAGTTGGA	59.451	52.381	3.67	0.00	39.73	3.53
103	104	1.975680	ACTTCGGCTAAGGAGTTGGAA	59.024	47.619	3.67	0.00	39.73	3.53
104	105	2.370849	ACTTCGGCTAAGGAGTTGGAAA	59.629	45.455	3.67	0.00	39.73	3.13
105	106	3.181448	ACTTCGGCTAAGGAGTTGGAAAA	60.181	43.478	3.67	0.00	39.73	2.29
106	107	3.495434	TCGGCTAAGGAGTTGGAAAAA	57.505	42.857	0.00	0.00	0.00	1.94
107	108	3.408634	TCGGCTAAGGAGTTGGAAAAAG	58.591	45.455	0.00	0.00	0.00	2.27
108	109	2.488153	CGGCTAAGGAGTTGGAAAAAGG	59.512	50.000	0.00	0.00	0.00	3.11
109	110	2.826128	GGCTAAGGAGTTGGAAAAAGGG	59.174	50.000	0.00	0.00	0.00	3.95
110	111	2.826128	GCTAAGGAGTTGGAAAAAGGGG	59.174	50.000	0.00	0.00	0.00	4.79
190	191	9.989869	GGAAATTTTCTTCTTCCTTATCTAACG	57.010	33.333	8.93	0.00	36.48	3.18
194	195	8.530269	TTTTCTTCTTCCTTATCTAACGTCAC	57.470	34.615	0.00	0.00	0.00	3.67
386	393	1.056700	CGATCCACATCCCCTTCCCT	61.057	60.000	0.00	0.00	0.00	4.20
688	696	1.449070	TCTCGGCTGCAGCAATCAG	60.449	57.895	37.63	25.39	44.36	2.90
877	886	2.784596	CGCTACATGGGCGTGTTG	59.215	61.111	21.50	0.00	46.37	3.33
1087	1098	4.641396	AGACATCCGATGTTTCTGTTTCA	58.359	39.130	15.20	0.00	45.03	2.69
1254	1267	9.807649	GACCAAGATTTAATGCTTATGTTTGAT	57.192	29.630	0.00	0.00	0.00	2.57
1406	1419	2.579410	ACTTACCTTCGCAACCCAAT	57.421	45.000	0.00	0.00	0.00	3.16
1434	1447	3.254166	AGAATGAGCATGTTGGTGTTGAC	59.746	43.478	0.00	0.00	0.00	3.18
2380	7311	4.892934	ACATTCTTAACAGGCAGGTTCAAA	59.107	37.500	0.00	0.00	32.29	2.69
2787	7718	3.576982	CACACTAGGTTGTGGACTAGGAA	59.423	47.826	5.73	0.00	42.79	3.36

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
0	1	4.171234	CCATCTGGGTGGTATTAGGATCT	58.829	47.826	0.00	0.00	34.46	2.75
1	2	3.307762	GCCATCTGGGTGGTATTAGGATC	60.308	52.174	1.64	0.00	41.47	3.36
2	3	2.644798	GCCATCTGGGTGGTATTAGGAT	59.355	50.000	1.64	0.00	41.47	3.24
3	4	2.054799	GCCATCTGGGTGGTATTAGGA	58.945	52.381	1.64	0.00	41.47	2.94
4	5	1.270839	CGCCATCTGGGTGGTATTAGG	60.271	57.143	1.64	0.00	43.79	2.69
5	6	2.169832	CGCCATCTGGGTGGTATTAG	57.830	55.000	1.64	0.00	43.79	1.73
13	14	4.082523	CCACGTCGCCATCTGGGT	62.083	66.667	0.00	0.00	39.65	4.51
14	15	4.838152	CCCACGTCGCCATCTGGG	62.838	72.222	3.68	3.68	37.61	4.45
23	24	4.807039	CCTTACGGGCCCACGTCG	62.807	72.222	24.92	10.02	45.08	5.12
32	33	0.608035	ATGGTTGTGTGCCTTACGGG	60.608	55.000	0.00	0.00	38.36	5.28
33	34	0.521291	CATGGTTGTGTGCCTTACGG	59.479	55.000	0.00	0.00	0.00	4.02
34	35	1.234821	ACATGGTTGTGTGCCTTACG	58.765	50.000	0.00	0.00	33.85	3.18
35	36	3.818773	ACTAACATGGTTGTGTGCCTTAC	59.181	43.478	0.00	0.00	35.83	2.34
36	37	4.093472	ACTAACATGGTTGTGTGCCTTA	57.907	40.909	0.00	0.00	35.83	2.69
37	38	2.944129	ACTAACATGGTTGTGTGCCTT	58.056	42.857	0.00	0.00	35.83	4.35
38	39	2.656947	ACTAACATGGTTGTGTGCCT	57.343	45.000	0.00	0.00	35.83	4.75
39	40	4.839668	TTTACTAACATGGTTGTGTGCC	57.160	40.909	8.17	0.00	35.83	5.01
40	41	5.827666	ACTTTTACTAACATGGTTGTGTGC	58.172	37.500	8.17	0.00	35.83	4.57
41	42	8.591312	CAAAACTTTTACTAACATGGTTGTGTG	58.409	33.333	8.17	0.00	35.83	3.82
42	43	8.308207	ACAAAACTTTTACTAACATGGTTGTGT	58.692	29.630	8.17	2.36	35.83	3.72
43	44	8.696410	ACAAAACTTTTACTAACATGGTTGTG	57.304	30.769	8.17	1.76	35.83	3.33
57	58	9.970395	TCGAGTCTAGACATTACAAAACTTTTA	57.030	29.630	24.44	0.00	0.00	1.52
58	59	8.762426	GTCGAGTCTAGACATTACAAAACTTTT	58.238	33.333	24.44	0.00	38.42	2.27
59	60	8.142551	AGTCGAGTCTAGACATTACAAAACTTT	58.857	33.333	24.44	0.00	40.84	2.66
60	61	7.659186	AGTCGAGTCTAGACATTACAAAACTT	58.341	34.615	24.44	0.00	40.84	2.66
61	62	7.216973	AGTCGAGTCTAGACATTACAAAACT	57.783	36.000	24.44	12.17	40.84	2.66
62	63	7.201249	CGAAGTCGAGTCTAGACATTACAAAAC	60.201	40.741	24.44	10.36	43.02	2.43
63	64	6.800408	CGAAGTCGAGTCTAGACATTACAAAA	59.200	38.462	24.44	0.00	43.02	2.44
64	65	6.312487	CGAAGTCGAGTCTAGACATTACAAA	58.688	40.000	24.44	0.38	43.02	2.83
65	66	5.163784	CCGAAGTCGAGTCTAGACATTACAA	60.164	44.000	24.44	1.41	43.02	2.41
66	67	4.331992	CCGAAGTCGAGTCTAGACATTACA	59.668	45.833	24.44	1.08	43.02	2.41
67	68	4.785975	GCCGAAGTCGAGTCTAGACATTAC	60.786	50.000	24.44	17.11	43.02	1.89
68	69	3.311871	GCCGAAGTCGAGTCTAGACATTA	59.688	47.826	24.44	6.33	43.02	1.90
69	70	2.097791	GCCGAAGTCGAGTCTAGACATT	59.902	50.000	24.44	10.61	43.02	2.71
70	71	1.671845	GCCGAAGTCGAGTCTAGACAT	59.328	52.381	24.44	9.84	43.02	3.06
71	72	1.085091	GCCGAAGTCGAGTCTAGACA	58.915	55.000	24.44	1.16	43.02	3.41
72	73	1.371595	AGCCGAAGTCGAGTCTAGAC	58.628	55.000	15.41	15.41	43.02	2.59
73	74	2.975732	TAGCCGAAGTCGAGTCTAGA	57.024	50.000	1.43	0.00	43.02	2.43
74	75	2.288458	CCTTAGCCGAAGTCGAGTCTAG	59.712	54.545	1.43	0.00	43.02	2.43
75	76	2.093288	TCCTTAGCCGAAGTCGAGTCTA	60.093	50.000	1.43	0.00	43.02	2.59
76	77	1.096416	CCTTAGCCGAAGTCGAGTCT	58.904	55.000	1.43	0.00	43.02	3.24
77	78	1.064357	CTCCTTAGCCGAAGTCGAGTC	59.936	57.143	1.43	0.00	43.02	3.36
78	79	1.096416	CTCCTTAGCCGAAGTCGAGT	58.904	55.000	1.43	0.00	43.02	4.18
79	80	1.096416	ACTCCTTAGCCGAAGTCGAG	58.904	55.000	1.43	0.00	43.02	4.04
80	81	1.201647	CAACTCCTTAGCCGAAGTCGA	59.798	52.381	1.43	0.00	43.02	4.20
81	82	1.630148	CAACTCCTTAGCCGAAGTCG	58.370	55.000	0.00	0.00	39.44	4.18
82	83	1.549170	TCCAACTCCTTAGCCGAAGTC	59.451	52.381	0.00	0.00	32.74	3.01
83	84	1.640917	TCCAACTCCTTAGCCGAAGT	58.359	50.000	0.00	0.00	32.74	3.01
84	85	2.762535	TTCCAACTCCTTAGCCGAAG	57.237	50.000	0.00	0.00	34.63	3.79
85	86	3.495434	TTTTCCAACTCCTTAGCCGAA	57.505	42.857	0.00	0.00	0.00	4.30
86	87	3.408634	CTTTTTCCAACTCCTTAGCCGA	58.591	45.455	0.00	0.00	0.00	5.54
87	88	2.488153	CCTTTTTCCAACTCCTTAGCCG	59.512	50.000	0.00	0.00	0.00	5.52
88	89	2.826128	CCCTTTTTCCAACTCCTTAGCC	59.174	50.000	0.00	0.00	0.00	3.93
89	90	2.826128	CCCCTTTTTCCAACTCCTTAGC	59.174	50.000	0.00	0.00	0.00	3.09
90	91	3.075432	TCCCCCTTTTTCCAACTCCTTAG	59.925	47.826	0.00	0.00	0.00	2.18
91	92	3.065175	TCCCCCTTTTTCCAACTCCTTA	58.935	45.455	0.00	0.00	0.00	2.69
92	93	1.863581	TCCCCCTTTTTCCAACTCCTT	59.136	47.619	0.00	0.00	0.00	3.36
93	94	1.429299	CTCCCCCTTTTTCCAACTCCT	59.571	52.381	0.00	0.00	0.00	3.69
94	95	1.427753	TCTCCCCCTTTTTCCAACTCC	59.572	52.381	0.00	0.00	0.00	3.85
95	96	2.971901	TCTCCCCCTTTTTCCAACTC	57.028	50.000	0.00	0.00	0.00	3.01
96	97	3.699025	TTTCTCCCCCTTTTTCCAACT	57.301	42.857	0.00	0.00	0.00	3.16
97	98	4.974645	ATTTTCTCCCCCTTTTTCCAAC	57.025	40.909	0.00	0.00	0.00	3.77
98	99	4.349636	GGAATTTTCTCCCCCTTTTTCCAA	59.650	41.667	0.00	0.00	33.27	3.53
99	100	3.907474	GGAATTTTCTCCCCCTTTTTCCA	59.093	43.478	0.00	0.00	33.27	3.53
100	101	4.168101	AGGAATTTTCTCCCCCTTTTTCC	58.832	43.478	0.00	0.00	35.95	3.13
101	102	5.825593	AAGGAATTTTCTCCCCCTTTTTC	57.174	39.130	0.00	0.00	35.95	2.29
104	105	9.656323	GTTATATAAGGAATTTTCTCCCCCTTT	57.344	33.333	0.00	0.00	38.16	3.11
105	106	8.797674	TGTTATATAAGGAATTTTCTCCCCCTT	58.202	33.333	0.00	0.00	40.11	3.95
106	107	8.225416	GTGTTATATAAGGAATTTTCTCCCCCT	58.775	37.037	0.00	0.00	35.95	4.79
107	108	8.225416	AGTGTTATATAAGGAATTTTCTCCCCC	58.775	37.037	0.00	0.00	35.95	5.40
227	228	4.021368	ACGGTGTTAGCTAACAGAACTGAT	60.021	41.667	34.07	17.04	45.82	2.90
386	393	1.480498	GGGTTTGAGAAAGGGGAAGCA	60.480	52.381	0.00	0.00	0.00	3.91
529	536	2.606519	CAAGGTCGGACCCCTCCA	60.607	66.667	23.21	0.00	39.75	3.86
876	885	2.575735	TGCCATGAACTTACCCATCTCA	59.424	45.455	0.00	0.00	0.00	3.27
877	886	2.945668	GTGCCATGAACTTACCCATCTC	59.054	50.000	0.00	0.00	0.00	2.75
1087	1098	7.446319	TGTCAAGTCACAATCAATGATCTTCTT	59.554	33.333	0.00	0.00	0.00	2.52
1143	1155	1.617322	AACACGGAGAGTACTGCTCA	58.383	50.000	18.17	0.00	46.47	4.26
1254	1267	3.493699	CCACCTTTGTCTCCGAGTGTTTA	60.494	47.826	0.00	0.00	0.00	2.01
1406	1419	3.264193	ACCAACATGCTCATTCTCAGGTA	59.736	43.478	0.00	0.00	0.00	3.08
1434	1447	6.332735	TCCACTTCATACATATTCTCCTCG	57.667	41.667	0.00	0.00	0.00	4.63
2380	7311	4.106925	GCACTAGCCAGCTGCCCT	62.107	66.667	8.66	9.26	42.71	5.19
2709	7640	2.744494	GCTGTTTCCATTGCAACCCAAA	60.744	45.455	0.00	0.00	36.92	3.28
2787	7718	6.207417	CACCTTACAAATGGTTGAGAACTGAT	59.793	38.462	0.00	0.00	38.20	2.90

Based at the University of Bristol with support from BBSRC.

AutoCloner maintained by Alex Coulton.