AutoCloner

Multiple sequence alignment - TraesCS6B01G196200

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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	TraesCS6B01G196200	chr6B	100.000	2987	0	0	1	2987	232741693	232738707	0.000000e+00	5517.0
1	TraesCS6B01G196200	chr6B	91.759	1262	91	7	736	1992	232870228	232868975	0.000000e+00	1742.0
2	TraesCS6B01G196200	chr6B	93.243	74	5	0	1	74	21189667	21189594	3.150000e-20	110.0
3	TraesCS6B01G196200	chr5B	97.031	2290	58	5	189	2473	380321583	380323867	0.000000e+00	3843.0
4	TraesCS6B01G196200	chr5B	93.022	1777	121	3	216	1992	380651400	380653173	0.000000e+00	2591.0
5	TraesCS6B01G196200	chr5B	91.134	891	60	10	2104	2987	619081444	619080566	0.000000e+00	1190.0
6	TraesCS6B01G196200	chr5B	92.049	742	44	7	2248	2987	619117916	619117188	0.000000e+00	1029.0
7	TraesCS6B01G196200	chr5B	93.243	74	5	0	1	74	632113697	632113770	3.150000e-20	110.0
8	TraesCS6B01G196200	chr7B	94.994	1778	62	17	216	1992	216674957	216676708	0.000000e+00	2765.0
9	TraesCS6B01G196200	chr7B	80.343	1109	178	20	886	1991	223664713	223663642	0.000000e+00	804.0
10	TraesCS6B01G196200	chr7D	95.079	1768	62	9	226	1992	241091575	241093318	0.000000e+00	2760.0
11	TraesCS6B01G196200	chr7D	80.078	1787	303	29	214	1991	394387546	394385804	0.000000e+00	1279.0
12	TraesCS6B01G196200	chr7A	94.457	1750	72	9	243	1991	257364088	257362363	0.000000e+00	2671.0
13	TraesCS6B01G196200	chr1D	89.374	894	79	12	2104	2987	74535576	74536463	0.000000e+00	1110.0
14	TraesCS6B01G196200	chr4D	92.883	548	33	4	2104	2645	485659344	485659891	0.000000e+00	791.0
15	TraesCS6B01G196200	chr4D	91.120	259	21	2	2729	2987	485659890	485660146	1.700000e-92	350.0
16	TraesCS6B01G196200	chr1A	79.886	1054	169	22	943	1991	143283611	143282596	0.000000e+00	732.0
17	TraesCS6B01G196200	chr5A	89.056	466	46	4	2526	2987	17410545	17411009	9.290000e-160	573.0
18	TraesCS6B01G196200	chr5A	88.361	421	39	7	2114	2530	17405076	17405490	5.750000e-137	497.0
19	TraesCS6B01G196200	chr4B	85.533	394	30	13	2104	2491	521215547	521215919	1.300000e-103	387.0
20	TraesCS6B01G196200	chr4B	92.347	196	12	3	189	382	270657892	270657698	2.930000e-70	276.0
21	TraesCS6B01G196200	chr4B	95.349	43	1	1	1936	1977	270658208	270658166	1.920000e-07	67.6
22	TraesCS6B01G196200	chr3A	87.692	130	14	2	1	129	721633021	721633149	1.850000e-32	150.0
23	TraesCS6B01G196200	chr3A	93.243	74	5	0	1	74	698862469	698862542	3.150000e-20	110.0
24	TraesCS6B01G196200	chr2A	90.179	112	5	1	1	112	256194631	256194526	1.120000e-29	141.0
25	TraesCS6B01G196200	chr6D	97.500	80	2	0	189	268	126845677	126845756	1.440000e-28	137.0
26	TraesCS6B01G196200	chr3B	91.209	91	7	1	1	91	793118691	793118602	4.040000e-24	122.0
27	TraesCS6B01G196200	chr3B	84.615	104	12	3	1	104	169349074	169349173	1.890000e-17	100.0
28	TraesCS6B01G196200	chr6A	92.500	80	6	0	1	80	568065959	568066038	6.770000e-22	115.0
29	TraesCS6B01G196200	chr4A	87.912	91	9	1	1	89	627001002	627000912	4.070000e-19	106.0

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	TraesCS6B01G196200	chr6B	232738707	232741693	2986	True	5517.0	5517	100.0000	1	2987	1	chr6B.!!$R2	2986
1	TraesCS6B01G196200	chr6B	232868975	232870228	1253	True	1742.0	1742	91.7590	736	1992	1	chr6B.!!$R3	1256
2	TraesCS6B01G196200	chr5B	380321583	380323867	2284	False	3843.0	3843	97.0310	189	2473	1	chr5B.!!$F1	2284
3	TraesCS6B01G196200	chr5B	380651400	380653173	1773	False	2591.0	2591	93.0220	216	1992	1	chr5B.!!$F2	1776
4	TraesCS6B01G196200	chr5B	619080566	619081444	878	True	1190.0	1190	91.1340	2104	2987	1	chr5B.!!$R1	883
5	TraesCS6B01G196200	chr5B	619117188	619117916	728	True	1029.0	1029	92.0490	2248	2987	1	chr5B.!!$R2	739
6	TraesCS6B01G196200	chr7B	216674957	216676708	1751	False	2765.0	2765	94.9940	216	1992	1	chr7B.!!$F1	1776
7	TraesCS6B01G196200	chr7B	223663642	223664713	1071	True	804.0	804	80.3430	886	1991	1	chr7B.!!$R1	1105
8	TraesCS6B01G196200	chr7D	241091575	241093318	1743	False	2760.0	2760	95.0790	226	1992	1	chr7D.!!$F1	1766
9	TraesCS6B01G196200	chr7D	394385804	394387546	1742	True	1279.0	1279	80.0780	214	1991	1	chr7D.!!$R1	1777
10	TraesCS6B01G196200	chr7A	257362363	257364088	1725	True	2671.0	2671	94.4570	243	1991	1	chr7A.!!$R1	1748
11	TraesCS6B01G196200	chr1D	74535576	74536463	887	False	1110.0	1110	89.3740	2104	2987	1	chr1D.!!$F1	883
12	TraesCS6B01G196200	chr4D	485659344	485660146	802	False	570.5	791	92.0015	2104	2987	2	chr4D.!!$F1	883
13	TraesCS6B01G196200	chr1A	143282596	143283611	1015	True	732.0	732	79.8860	943	1991	1	chr1A.!!$R1	1048

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
61	62	0.108138	GACGGGCAGAAGCACTACAT	60.108	55.0	0.0	0.0	43.86	2.29	F
62	63	0.391661	ACGGGCAGAAGCACTACATG	60.392	55.0	0.0	0.0	43.86	3.21	F

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability	Orientation
1094	1099	0.109597	CAGGTTTCTGGCATTGACGC	60.110	55.000	0.0	0.0	37.36	5.19	R
2044	2056	1.301401	CAACTCCGCCTTCGTCCAA	60.301	57.895	0.0	0.0	0.00	3.53	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
41	42	2.661504	TTGCAAAAGTGACGATGACG	57.338	45.000	0.00	0.00	45.75	4.35
42	43	0.865111	TGCAAAAGTGACGATGACGG	59.135	50.000	0.00	0.00	44.46	4.79
43	44	1.144969	GCAAAAGTGACGATGACGGA	58.855	50.000	0.00	0.00	44.46	4.69
44	45	1.136336	GCAAAAGTGACGATGACGGAC	60.136	52.381	0.00	0.00	44.46	4.79
45	46	1.124297	CAAAAGTGACGATGACGGACG	59.876	52.381	0.00	0.00	44.46	4.79
46	47	0.388134	AAAGTGACGATGACGGACGG	60.388	55.000	0.00	0.00	44.46	4.79
47	48	2.202570	GTGACGATGACGGACGGG	60.203	66.667	0.00	0.00	44.46	5.28
48	49	4.124351	TGACGATGACGGACGGGC	62.124	66.667	0.00	0.00	44.46	6.13
49	50	4.124351	GACGATGACGGACGGGCA	62.124	66.667	0.00	0.00	44.46	5.36
50	51	4.129737	ACGATGACGGACGGGCAG	62.130	66.667	0.00	0.00	44.46	4.85
51	52	3.822192	CGATGACGGACGGGCAGA	61.822	66.667	0.00	0.00	35.72	4.26
52	53	2.577059	GATGACGGACGGGCAGAA	59.423	61.111	0.00	0.00	0.00	3.02
53	54	1.519455	GATGACGGACGGGCAGAAG	60.519	63.158	0.00	0.00	0.00	2.85
54	55	3.665675	ATGACGGACGGGCAGAAGC	62.666	63.158	0.00	0.00	41.10	3.86
55	56	4.373116	GACGGACGGGCAGAAGCA	62.373	66.667	0.00	0.00	44.61	3.91
56	57	4.681978	ACGGACGGGCAGAAGCAC	62.682	66.667	0.00	0.00	44.61	4.40
57	58	4.379243	CGGACGGGCAGAAGCACT	62.379	66.667	0.00	0.00	43.86	4.40
58	59	2.978824	GGACGGGCAGAAGCACTA	59.021	61.111	0.00	0.00	43.86	2.74
59	60	1.448013	GGACGGGCAGAAGCACTAC	60.448	63.158	0.00	0.00	43.86	2.73
60	61	1.292223	GACGGGCAGAAGCACTACA	59.708	57.895	0.00	0.00	43.86	2.74
61	62	0.108138	GACGGGCAGAAGCACTACAT	60.108	55.000	0.00	0.00	43.86	2.29
62	63	0.391661	ACGGGCAGAAGCACTACATG	60.392	55.000	0.00	0.00	43.86	3.21
166	167	7.590359	AAAAATAGGGAAGGGATAGGGATAG	57.410	40.000	0.00	0.00	0.00	2.08
167	168	4.928445	ATAGGGAAGGGATAGGGATAGG	57.072	50.000	0.00	0.00	0.00	2.57
168	169	1.731062	AGGGAAGGGATAGGGATAGGG	59.269	57.143	0.00	0.00	0.00	3.53
169	170	1.728701	GGGAAGGGATAGGGATAGGGA	59.271	57.143	0.00	0.00	0.00	4.20
170	171	2.322543	GGGAAGGGATAGGGATAGGGAT	59.677	54.545	0.00	0.00	0.00	3.85
171	172	3.540687	GGGAAGGGATAGGGATAGGGATA	59.459	52.174	0.00	0.00	0.00	2.59
172	173	4.389264	GGGAAGGGATAGGGATAGGGATAG	60.389	54.167	0.00	0.00	0.00	2.08
173	174	4.389264	GGAAGGGATAGGGATAGGGATAGG	60.389	54.167	0.00	0.00	0.00	2.57
174	175	3.151634	AGGGATAGGGATAGGGATAGGG	58.848	54.545	0.00	0.00	0.00	3.53
175	176	3.148331	GGGATAGGGATAGGGATAGGGA	58.852	54.545	0.00	0.00	0.00	4.20
176	177	3.540687	GGGATAGGGATAGGGATAGGGAA	59.459	52.174	0.00	0.00	0.00	3.97
177	178	4.014593	GGGATAGGGATAGGGATAGGGAAA	60.015	50.000	0.00	0.00	0.00	3.13
178	179	5.220521	GGATAGGGATAGGGATAGGGAAAG	58.779	50.000	0.00	0.00	0.00	2.62
179	180	5.042523	GGATAGGGATAGGGATAGGGAAAGA	60.043	48.000	0.00	0.00	0.00	2.52
180	181	6.357063	GGATAGGGATAGGGATAGGGAAAGAT	60.357	46.154	0.00	0.00	0.00	2.40
181	182	7.146741	GGATAGGGATAGGGATAGGGAAAGATA	60.147	44.444	0.00	0.00	0.00	1.98
182	183	6.111564	AGGGATAGGGATAGGGAAAGATAG	57.888	45.833	0.00	0.00	0.00	2.08
183	184	5.042218	AGGGATAGGGATAGGGAAAGATAGG	60.042	48.000	0.00	0.00	0.00	2.57
184	185	5.220521	GGATAGGGATAGGGAAAGATAGGG	58.779	50.000	0.00	0.00	0.00	3.53
185	186	5.042523	GGATAGGGATAGGGAAAGATAGGGA	60.043	48.000	0.00	0.00	0.00	4.20
186	187	4.871806	AGGGATAGGGAAAGATAGGGAA	57.128	45.455	0.00	0.00	0.00	3.97
187	188	5.185475	AGGGATAGGGAAAGATAGGGAAA	57.815	43.478	0.00	0.00	0.00	3.13
271	275	2.813474	CGCGCGATGGGTTCTTGA	60.813	61.111	28.94	0.00	0.00	3.02
395	399	2.589157	AATCCGACCGCCTTCACCA	61.589	57.895	0.00	0.00	0.00	4.17
446	450	4.671590	TCGTCCGCCACCTCTCCA	62.672	66.667	0.00	0.00	0.00	3.86
927	932	1.456287	GCACCCACTCCCACTTCTT	59.544	57.895	0.00	0.00	0.00	2.52
1164	1169	0.900182	TGGAGATGCGGTCACAGTCT	60.900	55.000	0.00	0.00	0.00	3.24
1613	1624	2.093973	GGAGGAGAGCACGAATTGAAGA	60.094	50.000	0.00	0.00	0.00	2.87
1777	1789	3.134262	AGATGGCAGGGATCATCATATCG	59.866	47.826	0.00	0.00	41.45	2.92
1943	1955	3.073274	ACAAGGCCAATACAGAAGACC	57.927	47.619	5.01	0.00	0.00	3.85
1995	2007	4.039973	AGTGGAGACAGATAAAAACCGTCA	59.960	41.667	0.00	0.00	44.46	4.35
2010	2022	2.496470	ACCGTCACCTTCTCCACTTATC	59.504	50.000	0.00	0.00	0.00	1.75
2034	2046	2.158943	GGTGATAAACTCCCCCTTCTCG	60.159	54.545	0.00	0.00	0.00	4.04
2044	2056	1.486726	CCCCCTTCTCGACTTATTGCT	59.513	52.381	0.00	0.00	0.00	3.91
2070	2082	0.250901	AAGGCGGAGTTGCATGTCTT	60.251	50.000	0.00	0.00	36.28	3.01
2071	2083	0.674895	AGGCGGAGTTGCATGTCTTC	60.675	55.000	0.00	0.00	36.28	2.87
2099	2111	3.146066	TGACCAAGTTAGTTGCATGTCC	58.854	45.455	0.00	0.00	34.45	4.02
2313	2329	1.948611	GCGCTGTTTTAGATCCACCCA	60.949	52.381	0.00	0.00	0.00	4.51
2394	2410	6.421801	GCAGCCTAGCCAAATAATTACAATTG	59.578	38.462	3.24	3.24	0.00	2.32
2459	2477	6.257849	TCTGTGACAATGAACAAACTGAGTAC	59.742	38.462	0.00	0.00	0.00	2.73
2544	2563	6.442513	AGTTTTGAACTCTTCTCAAACTGG	57.557	37.500	9.97	0.00	41.32	4.00
2549	2568	3.778954	ACTCTTCTCAAACTGGAAGGG	57.221	47.619	0.00	0.00	43.45	3.95
2553	2574	3.652869	TCTTCTCAAACTGGAAGGGTCAT	59.347	43.478	0.00	0.00	39.30	3.06
2561	2582	5.615925	AACTGGAAGGGTCATATACTGAC	57.384	43.478	6.71	6.71	45.49	3.51
2597	2618	9.621629	TTATGTATTGTTATGTAGGAGTTTGGG	57.378	33.333	0.00	0.00	0.00	4.12
2645	2666	6.992063	TCTTGAATTACTCTGAGCAATTCC	57.008	37.500	28.03	16.93	37.70	3.01
2716	2737	0.035317	CCACTTGCACTACAGGAGCA	59.965	55.000	0.00	0.00	36.32	4.26
2742	2764	1.003438	GCGCGATCATCTTTCCTTTCC	60.003	52.381	12.10	0.00	0.00	3.13
2766	2789	0.699231	CTCCAGCCCCCTCCCTTTAT	60.699	60.000	0.00	0.00	0.00	1.40
2802	2825	6.434028	AGCTTTTATGTGCAAGAGGTTTGATA	59.566	34.615	0.00	0.00	0.00	2.15
2803	2826	7.039784	AGCTTTTATGTGCAAGAGGTTTGATAA	60.040	33.333	0.00	0.00	0.00	1.75
2841	2864	5.596836	ACAGTTTCACATTTCATTGGTGT	57.403	34.783	0.00	0.00	34.27	4.16
2880	2903	7.042797	TGAACTTGGAAGGATTTCTTTTCTG	57.957	36.000	0.00	0.00	35.50	3.02
2881	2904	6.607198	TGAACTTGGAAGGATTTCTTTTCTGT	59.393	34.615	0.00	0.00	35.50	3.41
2962	2986	3.160679	ACCCTCTTTTTGGTCCATGAG	57.839	47.619	0.00	0.00	0.00	2.90

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
19	20	3.788694	CGTCATCGTCACTTTTGCAAAAA	59.211	39.130	23.92	9.84	0.00	1.94
20	21	3.358775	CGTCATCGTCACTTTTGCAAAA	58.641	40.909	22.61	22.61	0.00	2.44
21	22	2.286713	CCGTCATCGTCACTTTTGCAAA	60.287	45.455	8.05	8.05	35.01	3.68
22	23	1.262950	CCGTCATCGTCACTTTTGCAA	59.737	47.619	0.00	0.00	35.01	4.08
23	24	0.865111	CCGTCATCGTCACTTTTGCA	59.135	50.000	0.00	0.00	35.01	4.08
24	25	1.136336	GTCCGTCATCGTCACTTTTGC	60.136	52.381	0.00	0.00	35.01	3.68
25	26	1.124297	CGTCCGTCATCGTCACTTTTG	59.876	52.381	0.00	0.00	35.01	2.44
26	27	1.415374	CGTCCGTCATCGTCACTTTT	58.585	50.000	0.00	0.00	35.01	2.27
27	28	0.388134	CCGTCCGTCATCGTCACTTT	60.388	55.000	0.00	0.00	35.01	2.66
28	29	1.211969	CCGTCCGTCATCGTCACTT	59.788	57.895	0.00	0.00	35.01	3.16
29	30	2.697761	CCCGTCCGTCATCGTCACT	61.698	63.158	0.00	0.00	35.01	3.41
30	31	2.202570	CCCGTCCGTCATCGTCAC	60.203	66.667	0.00	0.00	35.01	3.67
31	32	4.124351	GCCCGTCCGTCATCGTCA	62.124	66.667	0.00	0.00	35.01	4.35
32	33	4.124351	TGCCCGTCCGTCATCGTC	62.124	66.667	0.00	0.00	35.01	4.20
33	34	4.129737	CTGCCCGTCCGTCATCGT	62.130	66.667	0.00	0.00	35.01	3.73
34	35	3.350909	TTCTGCCCGTCCGTCATCG	62.351	63.158	0.00	0.00	0.00	3.84
35	36	1.519455	CTTCTGCCCGTCCGTCATC	60.519	63.158	0.00	0.00	0.00	2.92
36	37	2.579201	CTTCTGCCCGTCCGTCAT	59.421	61.111	0.00	0.00	0.00	3.06
37	38	4.373116	GCTTCTGCCCGTCCGTCA	62.373	66.667	0.00	0.00	0.00	4.35
38	39	4.373116	TGCTTCTGCCCGTCCGTC	62.373	66.667	0.00	0.00	38.71	4.79
39	40	4.681978	GTGCTTCTGCCCGTCCGT	62.682	66.667	0.00	0.00	38.71	4.69
40	41	3.001902	TAGTGCTTCTGCCCGTCCG	62.002	63.158	0.00	0.00	38.71	4.79
41	42	1.448013	GTAGTGCTTCTGCCCGTCC	60.448	63.158	0.00	0.00	38.71	4.79
42	43	0.108138	ATGTAGTGCTTCTGCCCGTC	60.108	55.000	0.00	0.00	38.71	4.79
43	44	0.391661	CATGTAGTGCTTCTGCCCGT	60.392	55.000	0.00	0.00	38.71	5.28
44	45	2.387309	CATGTAGTGCTTCTGCCCG	58.613	57.895	0.00	0.00	38.71	6.13
142	143	6.509280	CCTATCCCTATCCCTTCCCTATTTTT	59.491	42.308	0.00	0.00	0.00	1.94
143	144	6.039270	CCTATCCCTATCCCTTCCCTATTTT	58.961	44.000	0.00	0.00	0.00	1.82
144	145	5.524737	CCCTATCCCTATCCCTTCCCTATTT	60.525	48.000	0.00	0.00	0.00	1.40
145	146	4.014210	CCCTATCCCTATCCCTTCCCTATT	60.014	50.000	0.00	0.00	0.00	1.73
146	147	3.542402	CCCTATCCCTATCCCTTCCCTAT	59.458	52.174	0.00	0.00	0.00	2.57
147	148	2.940728	CCCTATCCCTATCCCTTCCCTA	59.059	54.545	0.00	0.00	0.00	3.53
148	149	1.731062	CCCTATCCCTATCCCTTCCCT	59.269	57.143	0.00	0.00	0.00	4.20
149	150	1.728701	TCCCTATCCCTATCCCTTCCC	59.271	57.143	0.00	0.00	0.00	3.97
150	151	3.805360	ATCCCTATCCCTATCCCTTCC	57.195	52.381	0.00	0.00	0.00	3.46
151	152	4.389264	CCCTATCCCTATCCCTATCCCTTC	60.389	54.167	0.00	0.00	0.00	3.46
152	153	3.542402	CCCTATCCCTATCCCTATCCCTT	59.458	52.174	0.00	0.00	0.00	3.95
153	154	3.151634	CCCTATCCCTATCCCTATCCCT	58.848	54.545	0.00	0.00	0.00	4.20
154	155	3.148331	TCCCTATCCCTATCCCTATCCC	58.852	54.545	0.00	0.00	0.00	3.85
155	156	4.920781	TTCCCTATCCCTATCCCTATCC	57.079	50.000	0.00	0.00	0.00	2.59
156	157	6.106407	TCTTTCCCTATCCCTATCCCTATC	57.894	45.833	0.00	0.00	0.00	2.08
157	158	6.715353	ATCTTTCCCTATCCCTATCCCTAT	57.285	41.667	0.00	0.00	0.00	2.57
158	159	6.164223	CCTATCTTTCCCTATCCCTATCCCTA	59.836	46.154	0.00	0.00	0.00	3.53
159	160	5.042218	CCTATCTTTCCCTATCCCTATCCCT	60.042	48.000	0.00	0.00	0.00	4.20
160	161	5.220521	CCTATCTTTCCCTATCCCTATCCC	58.779	50.000	0.00	0.00	0.00	3.85
161	162	5.042523	TCCCTATCTTTCCCTATCCCTATCC	60.043	48.000	0.00	0.00	0.00	2.59
162	163	6.106407	TCCCTATCTTTCCCTATCCCTATC	57.894	45.833	0.00	0.00	0.00	2.08
163	164	6.515763	TTCCCTATCTTTCCCTATCCCTAT	57.484	41.667	0.00	0.00	0.00	2.57
164	165	5.980040	TTCCCTATCTTTCCCTATCCCTA	57.020	43.478	0.00	0.00	0.00	3.53
165	166	4.871806	TTCCCTATCTTTCCCTATCCCT	57.128	45.455	0.00	0.00	0.00	4.20
166	167	5.163390	TCTTTCCCTATCTTTCCCTATCCC	58.837	45.833	0.00	0.00	0.00	3.85
167	168	6.961361	ATCTTTCCCTATCTTTCCCTATCC	57.039	41.667	0.00	0.00	0.00	2.59
168	169	7.978925	TCAATCTTTCCCTATCTTTCCCTATC	58.021	38.462	0.00	0.00	0.00	2.08
169	170	7.796637	TCTCAATCTTTCCCTATCTTTCCCTAT	59.203	37.037	0.00	0.00	0.00	2.57
170	171	7.139619	TCTCAATCTTTCCCTATCTTTCCCTA	58.860	38.462	0.00	0.00	0.00	3.53
171	172	5.973124	TCTCAATCTTTCCCTATCTTTCCCT	59.027	40.000	0.00	0.00	0.00	4.20
172	173	6.253946	TCTCAATCTTTCCCTATCTTTCCC	57.746	41.667	0.00	0.00	0.00	3.97
173	174	7.342581	ACTTCTCAATCTTTCCCTATCTTTCC	58.657	38.462	0.00	0.00	0.00	3.13
174	175	9.541143	CTACTTCTCAATCTTTCCCTATCTTTC	57.459	37.037	0.00	0.00	0.00	2.62
175	176	7.990314	GCTACTTCTCAATCTTTCCCTATCTTT	59.010	37.037	0.00	0.00	0.00	2.52
176	177	7.419634	GGCTACTTCTCAATCTTTCCCTATCTT	60.420	40.741	0.00	0.00	0.00	2.40
177	178	6.042666	GGCTACTTCTCAATCTTTCCCTATCT	59.957	42.308	0.00	0.00	0.00	1.98
178	179	6.183361	TGGCTACTTCTCAATCTTTCCCTATC	60.183	42.308	0.00	0.00	0.00	2.08
179	180	5.667626	TGGCTACTTCTCAATCTTTCCCTAT	59.332	40.000	0.00	0.00	0.00	2.57
180	181	5.030147	TGGCTACTTCTCAATCTTTCCCTA	58.970	41.667	0.00	0.00	0.00	3.53
181	182	3.846588	TGGCTACTTCTCAATCTTTCCCT	59.153	43.478	0.00	0.00	0.00	4.20
182	183	4.195416	CTGGCTACTTCTCAATCTTTCCC	58.805	47.826	0.00	0.00	0.00	3.97
183	184	4.195416	CCTGGCTACTTCTCAATCTTTCC	58.805	47.826	0.00	0.00	0.00	3.13
184	185	4.837972	ACCTGGCTACTTCTCAATCTTTC	58.162	43.478	0.00	0.00	0.00	2.62
185	186	4.917906	ACCTGGCTACTTCTCAATCTTT	57.082	40.909	0.00	0.00	0.00	2.52
186	187	4.621747	CGAACCTGGCTACTTCTCAATCTT	60.622	45.833	0.00	0.00	0.00	2.40
187	188	3.118956	CGAACCTGGCTACTTCTCAATCT	60.119	47.826	0.00	0.00	0.00	2.40
320	324	4.057428	GGAGGTGCAGACGAGCGT	62.057	66.667	0.00	0.00	37.31	5.07
395	399	0.112412	AAATCAACCTGGCCGTCCTT	59.888	50.000	0.00	0.00	0.00	3.36
446	450	2.758737	CTCGCGGTAGGGGGACTT	60.759	66.667	6.13	0.00	31.57	3.01
1094	1099	0.109597	CAGGTTTCTGGCATTGACGC	60.110	55.000	0.00	0.00	37.36	5.19
1164	1169	4.136796	CAAGAAACAGTTCTGATGGGTCA	58.863	43.478	6.83	0.00	43.59	4.02
1613	1624	2.196749	CAGCGATTCGACACTTAGCAT	58.803	47.619	10.88	0.00	0.00	3.79
1943	1955	1.872952	TGAAGACATGCAACTCCAACG	59.127	47.619	0.00	0.00	0.00	4.10
1995	2007	2.233922	CACCGTGATAAGTGGAGAAGGT	59.766	50.000	0.00	0.00	0.00	3.50
2034	2046	2.096013	GCCTTCGTCCAAGCAATAAGTC	59.904	50.000	0.00	0.00	0.00	3.01
2044	2056	1.301401	CAACTCCGCCTTCGTCCAA	60.301	57.895	0.00	0.00	0.00	3.53
2070	2082	6.941857	TGCAACTAACTTGGTCATATACTGA	58.058	36.000	0.00	0.00	0.00	3.41
2071	2083	7.280876	ACATGCAACTAACTTGGTCATATACTG	59.719	37.037	0.00	0.00	0.00	2.74
2099	2111	6.757897	TCTTATCCAAATACAGCCAACAAG	57.242	37.500	0.00	0.00	0.00	3.16
2183	2197	1.690219	AAGAAGGCGGCGATCCTCAT	61.690	55.000	12.98	0.00	32.45	2.90
2185	2199	1.592939	GAAGAAGGCGGCGATCCTC	60.593	63.158	12.98	0.63	32.45	3.71
2263	2279	1.853963	GTCCTCCTGCAGTCCTTCTA	58.146	55.000	13.81	0.00	0.00	2.10
2313	2329	5.118286	CCTTGCAAAAACTTGGAATGAGTT	58.882	37.500	0.00	0.00	38.92	3.01
2645	2666	6.375736	TCAGACTATACTCTCAACTCTTGTGG	59.624	42.308	0.00	0.00	0.00	4.17
2691	2712	0.747852	TGTAGTGCAAGTGGTCGTCA	59.252	50.000	0.00	0.00	0.00	4.35
2727	2749	3.461458	GAGGAGGGGAAAGGAAAGATGAT	59.539	47.826	0.00	0.00	0.00	2.45
2766	2789	6.172630	TGCACATAAAAGCTACAATGAGAGA	58.827	36.000	8.59	0.00	0.00	3.10
2802	2825	2.899256	ACTGTTGTGCTTATGCCCATTT	59.101	40.909	0.00	0.00	38.71	2.32
2803	2826	2.528564	ACTGTTGTGCTTATGCCCATT	58.471	42.857	0.00	0.00	38.71	3.16
2841	2864	0.179192	GTTCATTTCTCATGCGCGCA	60.179	50.000	38.27	38.27	0.00	6.09
2880	2903	9.023967	GCATACAATAATGAAGAAAATCACCAC	57.976	33.333	0.00	0.00	30.82	4.16
2881	2904	8.747471	TGCATACAATAATGAAGAAAATCACCA	58.253	29.630	0.00	0.00	30.82	4.17
2962	2986	3.536956	TCAATAGGAACATCACCGTCC	57.463	47.619	0.00	0.00	0.00	4.79

Based at the University of Bristol with support from BBSRC.

AutoCloner maintained by Alex Coulton.