AutoCloner

Multiple sequence alignment - TraesCS6A01G098200

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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	TraesCS6A01G098200	chr6A	100.000	1920	0	0	759	2678	65141312	65139393	0.000000e+00	3546.0
1	TraesCS6A01G098200	chr6A	91.326	1395	78	13	1300	2678	65133931	65132564	0.000000e+00	1866.0
2	TraesCS6A01G098200	chr6A	86.777	847	69	17	1331	2150	65073682	65072852	0.000000e+00	904.0
3	TraesCS6A01G098200	chr6A	100.000	488	0	0	1	488	65142070	65141583	0.000000e+00	902.0
4	TraesCS6A01G098200	chr6A	86.687	323	23	9	2186	2500	65072790	65072480	9.180000e-90	340.0
5	TraesCS6A01G098200	chr6A	93.194	191	13	0	1068	1258	65140907	65140717	5.640000e-72	281.0
6	TraesCS6A01G098200	chr6A	93.194	191	13	0	1164	1354	65141003	65140813	5.640000e-72	281.0
7	TraesCS6A01G098200	chr6A	94.737	95	5	0	1068	1162	65140811	65140717	5.970000e-32	148.0
8	TraesCS6A01G098200	chr6D	92.242	1637	65	25	1077	2678	49842862	49844471	0.000000e+00	2263.0
9	TraesCS6A01G098200	chr6D	86.428	781	63	21	1302	2061	49855351	49856109	0.000000e+00	815.0
10	TraesCS6A01G098200	chr6D	91.222	581	38	7	777	1353	49842375	49842946	0.000000e+00	778.0
11	TraesCS6A01G098200	chr6D	87.372	681	47	13	1300	1970	49848972	49849623	0.000000e+00	745.0
12	TraesCS6A01G098200	chr6D	87.016	516	42	14	2186	2678	49851730	49852243	2.330000e-155	558.0
13	TraesCS6A01G098200	chr6D	86.818	440	42	8	1312	1744	47810923	47810493	6.710000e-131	477.0
14	TraesCS6A01G098200	chr6D	89.877	326	26	4	2180	2500	49856380	49856703	1.920000e-111	412.0
15	TraesCS6A01G098200	chr6D	88.235	289	16	6	1065	1353	49842763	49843033	1.990000e-86	329.0
16	TraesCS6A01G098200	chr6D	93.684	190	12	0	1164	1353	49842670	49842859	4.360000e-73	285.0
17	TraesCS6A01G098200	chr6D	87.912	182	12	7	1077	1258	49842949	49843120	3.490000e-49	206.0
18	TraesCS6A01G098200	chr6D	90.000	80	6	2	1	80	49841969	49842046	4.720000e-18	102.0
19	TraesCS6A01G098200	chr6B	90.107	1031	60	19	1196	2205	121732767	121731758	0.000000e+00	1301.0
20	TraesCS6A01G098200	chr6B	94.259	540	28	1	777	1313	121733643	121733104	0.000000e+00	822.0
21	TraesCS6A01G098200	chr6B	89.827	521	17	11	2192	2678	121717192	121716674	1.050000e-178	636.0
22	TraesCS6A01G098200	chr6B	89.610	385	28	6	1300	1678	121529609	121529231	1.860000e-131	479.0
23	TraesCS6A01G098200	chr6B	89.785	372	30	3	125	488	121734118	121733747	1.120000e-128	470.0
24	TraesCS6A01G098200	chr6B	87.572	346	39	2	1312	1653	123724145	123724490	5.370000e-107	398.0
25	TraesCS6A01G098200	chr6B	89.375	320	27	4	2186	2500	121529079	121528762	1.930000e-106	396.0
26	TraesCS6A01G098200	chr6B	93.122	189	13	0	1166	1354	121733347	121733159	7.300000e-71	278.0
27	TraesCS6A01G098200	chr6B	94.340	159	9	0	1100	1258	121732767	121732609	7.410000e-61	244.0
28	TraesCS6A01G098200	chr6B	94.737	152	8	0	1068	1219	121733253	121733102	1.240000e-58	237.0
29	TraesCS6A01G098200	chr6B	95.789	95	4	0	1068	1162	121732703	121732609	1.280000e-33	154.0
30	TraesCS6A01G098200	chr6B	89.286	84	9	0	2067	2150	121529224	121529141	3.650000e-19	106.0
31	TraesCS6A01G098200	chr6B	91.228	57	5	0	1682	1738	123729750	123729806	7.950000e-11	78.7

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	TraesCS6A01G098200	chr6A	65139393	65142070	2677	True	1031.600000	3546	96.225000	1	2678	5	chr6A.!!$R3	2677
1	TraesCS6A01G098200	chr6A	65132564	65133931	1367	True	1866.000000	1866	91.326000	1300	2678	1	chr6A.!!$R1	1378
2	TraesCS6A01G098200	chr6A	65072480	65073682	1202	True	622.000000	904	86.732000	1331	2500	2	chr6A.!!$R2	1169
3	TraesCS6A01G098200	chr6D	49841969	49844471	2502	False	660.500000	2263	90.549167	1	2678	6	chr6D.!!$F1	2677
4	TraesCS6A01G098200	chr6D	49848972	49856703	7731	False	632.500000	815	87.673250	1300	2678	4	chr6D.!!$F2	1378
5	TraesCS6A01G098200	chr6B	121716674	121717192	518	True	636.000000	636	89.827000	2192	2678	1	chr6B.!!$R1	486
6	TraesCS6A01G098200	chr6B	121731758	121734118	2360	True	500.857143	1301	93.162714	125	2205	7	chr6B.!!$R3	2080
7	TraesCS6A01G098200	chr6B	121528762	121529609	847	True	327.000000	479	89.423667	1300	2500	3	chr6B.!!$R2	1200

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
24	25	1.001487	CACCACACGTTTCATGTGCAT	60.001	47.619	0.0	0.0	45.05	3.96	F
206	207	1.064314	AGACGACTCAGACCTAGCCAT	60.064	52.381	0.0	0.0	0.00	4.40	F

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability	Orientation
1504	8437	0.981183	AGGGTGCGGTTGAAGATGTA	59.019	50.0	0.00	0.0	0.0	2.29	R
1845	8806	1.089112	TGCATGCATCCTTCGTCTTG	58.911	50.0	18.46	0.0	0.0	3.02	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
24	25	1.001487	CACCACACGTTTCATGTGCAT	60.001	47.619	0.00	0.00	45.05	3.96
53	54	3.181418	ACCAATCCCTTGAAACAGGATGT	60.181	43.478	0.00	0.00	43.34	3.06
78	79	4.533225	CATACTGCATGCACTTCTTCTC	57.467	45.455	18.46	0.00	0.00	2.87
79	80	2.855209	ACTGCATGCACTTCTTCTCT	57.145	45.000	18.46	0.00	0.00	3.10
80	81	2.697654	ACTGCATGCACTTCTTCTCTC	58.302	47.619	18.46	0.00	0.00	3.20
82	83	2.673862	CTGCATGCACTTCTTCTCTCAG	59.326	50.000	18.46	0.00	0.00	3.35
84	85	2.672381	GCATGCACTTCTTCTCTCAGTC	59.328	50.000	14.21	0.00	0.00	3.51
85	86	2.713895	TGCACTTCTTCTCTCAGTCG	57.286	50.000	0.00	0.00	0.00	4.18
86	87	2.230660	TGCACTTCTTCTCTCAGTCGA	58.769	47.619	0.00	0.00	0.00	4.20
87	88	2.822561	TGCACTTCTTCTCTCAGTCGAT	59.177	45.455	0.00	0.00	0.00	3.59
88	89	4.010349	TGCACTTCTTCTCTCAGTCGATA	58.990	43.478	0.00	0.00	0.00	2.92
89	90	4.642437	TGCACTTCTTCTCTCAGTCGATAT	59.358	41.667	0.00	0.00	0.00	1.63
90	91	5.212194	GCACTTCTTCTCTCAGTCGATATC	58.788	45.833	0.00	0.00	0.00	1.63
91	92	5.008613	GCACTTCTTCTCTCAGTCGATATCT	59.991	44.000	0.34	0.00	0.00	1.98
92	93	6.658831	CACTTCTTCTCTCAGTCGATATCTC	58.341	44.000	0.34	0.00	0.00	2.75
93	94	6.259829	CACTTCTTCTCTCAGTCGATATCTCA	59.740	42.308	0.34	0.00	0.00	3.27
94	95	6.826231	ACTTCTTCTCTCAGTCGATATCTCAA	59.174	38.462	0.34	0.00	0.00	3.02
95	96	7.502226	ACTTCTTCTCTCAGTCGATATCTCAAT	59.498	37.037	0.34	0.00	0.00	2.57
96	97	7.433708	TCTTCTCTCAGTCGATATCTCAATC	57.566	40.000	0.34	0.00	0.00	2.67
98	99	4.693095	TCTCTCAGTCGATATCTCAATCGG	59.307	45.833	6.42	0.00	46.81	4.18
99	100	4.390264	TCTCAGTCGATATCTCAATCGGT	58.610	43.478	6.42	0.00	46.81	4.69
100	101	4.214332	TCTCAGTCGATATCTCAATCGGTG	59.786	45.833	6.42	5.19	46.81	4.94
101	102	2.983136	CAGTCGATATCTCAATCGGTGC	59.017	50.000	6.42	0.00	46.81	5.01
102	103	2.887783	AGTCGATATCTCAATCGGTGCT	59.112	45.455	6.42	1.18	46.81	4.40
103	104	4.072839	AGTCGATATCTCAATCGGTGCTA	58.927	43.478	6.42	0.00	46.81	3.49
104	105	4.702612	AGTCGATATCTCAATCGGTGCTAT	59.297	41.667	6.42	0.00	46.81	2.97
105	106	5.880887	AGTCGATATCTCAATCGGTGCTATA	59.119	40.000	6.42	0.00	46.81	1.31
106	107	6.544197	AGTCGATATCTCAATCGGTGCTATAT	59.456	38.462	6.42	0.00	46.81	0.86
107	108	7.067615	AGTCGATATCTCAATCGGTGCTATATT	59.932	37.037	6.42	0.00	46.81	1.28
108	109	7.702772	GTCGATATCTCAATCGGTGCTATATTT	59.297	37.037	6.42	0.00	46.81	1.40
109	110	7.702348	TCGATATCTCAATCGGTGCTATATTTG	59.298	37.037	6.42	0.00	46.81	2.32
110	111	7.489435	CGATATCTCAATCGGTGCTATATTTGT	59.511	37.037	0.34	0.00	43.92	2.83
111	112	6.791887	ATCTCAATCGGTGCTATATTTGTG	57.208	37.500	0.00	0.00	0.00	3.33
112	113	5.912892	TCTCAATCGGTGCTATATTTGTGA	58.087	37.500	0.00	0.00	0.00	3.58
113	114	5.985530	TCTCAATCGGTGCTATATTTGTGAG	59.014	40.000	0.00	0.00	0.00	3.51
114	115	5.912892	TCAATCGGTGCTATATTTGTGAGA	58.087	37.500	0.00	0.00	0.00	3.27
115	116	6.524734	TCAATCGGTGCTATATTTGTGAGAT	58.475	36.000	0.00	0.00	0.00	2.75
116	117	6.646653	TCAATCGGTGCTATATTTGTGAGATC	59.353	38.462	0.00	0.00	0.00	2.75
117	118	5.791336	TCGGTGCTATATTTGTGAGATCT	57.209	39.130	0.00	0.00	0.00	2.75
118	119	6.161855	TCGGTGCTATATTTGTGAGATCTT	57.838	37.500	0.00	0.00	0.00	2.40
119	120	5.985530	TCGGTGCTATATTTGTGAGATCTTG	59.014	40.000	0.00	0.00	0.00	3.02
120	121	5.333645	CGGTGCTATATTTGTGAGATCTTGC	60.334	44.000	0.00	0.00	0.00	4.01
121	122	5.333645	GGTGCTATATTTGTGAGATCTTGCG	60.334	44.000	0.00	0.00	0.00	4.85
122	123	5.235186	GTGCTATATTTGTGAGATCTTGCGT	59.765	40.000	0.00	0.00	0.00	5.24
123	124	5.234972	TGCTATATTTGTGAGATCTTGCGTG	59.765	40.000	0.00	0.00	0.00	5.34
131	132	6.552859	TGTGAGATCTTGCGTGAAAATTTA	57.447	33.333	0.00	0.00	0.00	1.40
138	139	6.746104	TCTTGCGTGAAAATTTACACATTG	57.254	33.333	0.00	0.00	36.91	2.82
188	189	9.506018	TTGATTGTGACTTGATTAAATCTCAGA	57.494	29.630	0.00	0.00	0.00	3.27
194	195	7.008810	GTGACTTGATTAAATCTCAGACGACTC	59.991	40.741	0.00	0.00	0.00	3.36
201	202	3.916359	ATCTCAGACGACTCAGACCTA	57.084	47.619	0.00	0.00	0.00	3.08
206	207	1.064314	AGACGACTCAGACCTAGCCAT	60.064	52.381	0.00	0.00	0.00	4.40
210	211	1.964933	GACTCAGACCTAGCCATACCC	59.035	57.143	0.00	0.00	0.00	3.69
218	219	5.998363	CAGACCTAGCCATACCCTTTATTTC	59.002	44.000	0.00	0.00	0.00	2.17
224	225	3.314357	GCCATACCCTTTATTTCACCGAC	59.686	47.826	0.00	0.00	0.00	4.79
247	248	7.409661	CGACACACATTAATTTGTTCATTGCTC	60.410	37.037	4.48	0.00	0.00	4.26
305	331	4.515191	GCAACAAACTACTTGGTCTGATGA	59.485	41.667	0.00	0.00	39.56	2.92
352	378	5.571784	TTACAGTCATGTAGGGTTAGACG	57.428	43.478	0.00	0.00	42.72	4.18
353	379	2.165845	ACAGTCATGTAGGGTTAGACGC	59.834	50.000	0.00	0.00	38.09	5.19
354	380	2.165641	CAGTCATGTAGGGTTAGACGCA	59.834	50.000	0.00	0.00	34.56	5.24
355	381	3.031736	AGTCATGTAGGGTTAGACGCAT	58.968	45.455	0.00	0.00	34.56	4.73
360	394	2.696187	TGTAGGGTTAGACGCATGCATA	59.304	45.455	19.57	4.27	32.95	3.14
438	497	5.938279	TCGATAGTATGTTGTACTCCCTCT	58.062	41.667	0.00	0.00	37.40	3.69
799	891	7.701539	TTTAGAAATGCTTTGATCTTAGCCA	57.298	32.000	14.39	5.97	36.56	4.75
808	900	3.920231	TGATCTTAGCCAGTTCATGCT	57.080	42.857	0.00	0.00	41.57	3.79
865	957	6.360370	ACTAACCATGTAACAGACTCACAT	57.640	37.500	0.00	0.00	33.22	3.21
891	983	3.382832	ACCGAGACCCGCCTTGAG	61.383	66.667	0.00	0.00	36.84	3.02
909	1001	7.412346	CGCCTTGAGTATAAATACATGATCAGC	60.412	40.741	0.00	0.00	35.74	4.26
912	1004	9.363763	CTTGAGTATAAATACATGATCAGCGAT	57.636	33.333	0.00	0.00	35.74	4.58
934	1026	3.051803	TCATCTCTAGACCCACCCAAGAT	60.052	47.826	0.00	0.00	0.00	2.40
1659	8592	2.028484	CCGCCACTGTACGTGTGT	59.972	61.111	14.81	0.00	42.20	3.72
1845	8806	2.753446	GCAGCCCCTCTTCCAAGC	60.753	66.667	0.00	0.00	0.00	4.01
1859	8826	0.449388	CCAAGCAAGACGAAGGATGC	59.551	55.000	0.00	0.00	39.06	3.91
1860	8827	1.159285	CAAGCAAGACGAAGGATGCA	58.841	50.000	0.00	0.00	41.18	3.96
1861	8828	1.741706	CAAGCAAGACGAAGGATGCAT	59.258	47.619	0.00	0.00	41.18	3.96
1862	8829	1.376543	AGCAAGACGAAGGATGCATG	58.623	50.000	2.46	0.00	41.18	4.06
1980	8961	3.025978	TCCTGGGTATACTGTGGTTACG	58.974	50.000	2.25	0.00	0.00	3.18
2288	9821	4.811969	TGACCATCACGTACCTACAAAT	57.188	40.909	0.00	0.00	0.00	2.32
2314	9847	7.963532	AGGTACTTGAGTTTGAGTAGATGAAA	58.036	34.615	0.00	0.00	27.25	2.69
2365	9908	4.202264	CGATATTACCCCTCTTCAAGCACT	60.202	45.833	0.00	0.00	0.00	4.40
2490	10037	3.054875	CCATCAACTCATCTCCAAGTGGA	60.055	47.826	0.00	0.00	43.08	4.02

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
10	11	2.779755	TAGGGATGCACATGAAACGT	57.220	45.000	0.00	0.00	0.00	3.99
11	12	3.427503	GGTTTAGGGATGCACATGAAACG	60.428	47.826	0.00	0.00	0.00	3.60
12	13	3.509575	TGGTTTAGGGATGCACATGAAAC	59.490	43.478	0.00	0.00	0.00	2.78
13	14	3.772387	TGGTTTAGGGATGCACATGAAA	58.228	40.909	0.00	0.00	0.00	2.69
14	15	3.448093	TGGTTTAGGGATGCACATGAA	57.552	42.857	0.00	0.00	0.00	2.57
24	25	4.140900	TGTTTCAAGGGATTGGTTTAGGGA	60.141	41.667	0.00	0.00	0.00	4.20
62	63	2.038164	ACTGAGAGAAGAAGTGCATGCA	59.962	45.455	18.46	18.46	0.00	3.96
65	66	2.822561	TCGACTGAGAGAAGAAGTGCAT	59.177	45.455	0.00	0.00	0.00	3.96
84	85	7.489435	ACAAATATAGCACCGATTGAGATATCG	59.511	37.037	0.00	0.00	45.27	2.92
85	86	8.598924	CACAAATATAGCACCGATTGAGATATC	58.401	37.037	0.00	0.00	0.00	1.63
86	87	8.314021	TCACAAATATAGCACCGATTGAGATAT	58.686	33.333	0.00	0.00	0.00	1.63
87	88	7.666623	TCACAAATATAGCACCGATTGAGATA	58.333	34.615	0.00	0.00	0.00	1.98
88	89	6.524734	TCACAAATATAGCACCGATTGAGAT	58.475	36.000	0.00	0.00	0.00	2.75
89	90	5.912892	TCACAAATATAGCACCGATTGAGA	58.087	37.500	0.00	0.00	0.00	3.27
90	91	5.985530	TCTCACAAATATAGCACCGATTGAG	59.014	40.000	0.00	0.00	0.00	3.02
91	92	5.912892	TCTCACAAATATAGCACCGATTGA	58.087	37.500	0.00	0.00	0.00	2.57
92	93	6.648310	AGATCTCACAAATATAGCACCGATTG	59.352	38.462	0.00	0.00	0.00	2.67
93	94	6.763355	AGATCTCACAAATATAGCACCGATT	58.237	36.000	0.00	0.00	0.00	3.34
94	95	6.352016	AGATCTCACAAATATAGCACCGAT	57.648	37.500	0.00	0.00	0.00	4.18
95	96	5.791336	AGATCTCACAAATATAGCACCGA	57.209	39.130	0.00	0.00	0.00	4.69
96	97	5.333645	GCAAGATCTCACAAATATAGCACCG	60.334	44.000	0.00	0.00	0.00	4.94
97	98	5.333645	CGCAAGATCTCACAAATATAGCACC	60.334	44.000	0.00	0.00	43.02	5.01
98	99	5.235186	ACGCAAGATCTCACAAATATAGCAC	59.765	40.000	0.00	0.00	43.62	4.40
99	100	5.234972	CACGCAAGATCTCACAAATATAGCA	59.765	40.000	0.00	0.00	43.62	3.49
100	101	5.463392	TCACGCAAGATCTCACAAATATAGC	59.537	40.000	0.00	0.00	43.62	2.97
101	102	7.468922	TTCACGCAAGATCTCACAAATATAG	57.531	36.000	0.00	0.00	43.62	1.31
102	103	7.841915	TTTCACGCAAGATCTCACAAATATA	57.158	32.000	0.00	0.00	43.62	0.86
103	104	6.741992	TTTCACGCAAGATCTCACAAATAT	57.258	33.333	0.00	0.00	43.62	1.28
104	105	6.552859	TTTTCACGCAAGATCTCACAAATA	57.447	33.333	0.00	0.00	43.62	1.40
105	106	5.437289	TTTTCACGCAAGATCTCACAAAT	57.563	34.783	0.00	0.00	43.62	2.32
106	107	4.891627	TTTTCACGCAAGATCTCACAAA	57.108	36.364	0.00	0.00	43.62	2.83
107	108	5.437289	AATTTTCACGCAAGATCTCACAA	57.563	34.783	0.00	0.00	43.62	3.33
108	109	5.437289	AAATTTTCACGCAAGATCTCACA	57.563	34.783	0.00	0.00	43.62	3.58
109	110	6.303259	GTGTAAATTTTCACGCAAGATCTCAC	59.697	38.462	11.52	0.00	43.62	3.51
110	111	6.017523	TGTGTAAATTTTCACGCAAGATCTCA	60.018	34.615	19.16	0.00	43.62	3.27
111	112	6.370593	TGTGTAAATTTTCACGCAAGATCTC	58.629	36.000	19.16	0.00	43.62	2.75
112	113	6.312399	TGTGTAAATTTTCACGCAAGATCT	57.688	33.333	19.16	0.00	43.62	2.75
113	114	7.114811	ACAATGTGTAAATTTTCACGCAAGATC	59.885	33.333	19.16	0.00	38.54	2.75
114	115	6.922957	ACAATGTGTAAATTTTCACGCAAGAT	59.077	30.769	19.16	7.42	38.54	2.40
115	116	6.269315	ACAATGTGTAAATTTTCACGCAAGA	58.731	32.000	19.16	5.66	38.54	3.02
116	117	6.509317	ACAATGTGTAAATTTTCACGCAAG	57.491	33.333	19.16	13.06	38.54	4.01
117	118	6.893958	AACAATGTGTAAATTTTCACGCAA	57.106	29.167	19.16	6.27	38.54	4.85
118	119	6.893958	AAACAATGTGTAAATTTTCACGCA	57.106	29.167	19.16	14.40	39.31	5.24
119	120	8.536407	ACTAAAACAATGTGTAAATTTTCACGC	58.464	29.630	19.16	9.80	37.38	5.34
176	177	5.654650	AGGTCTGAGTCGTCTGAGATTTAAT	59.345	40.000	1.98	0.00	36.44	1.40
188	189	2.299521	GTATGGCTAGGTCTGAGTCGT	58.700	52.381	0.00	0.00	0.00	4.34
194	195	5.568620	AATAAAGGGTATGGCTAGGTCTG	57.431	43.478	0.00	0.00	0.00	3.51
201	202	3.201266	TCGGTGAAATAAAGGGTATGGCT	59.799	43.478	0.00	0.00	0.00	4.75
206	207	4.202336	TGTGTGTCGGTGAAATAAAGGGTA	60.202	41.667	0.00	0.00	0.00	3.69
210	211	8.964420	AATTAATGTGTGTCGGTGAAATAAAG	57.036	30.769	0.00	0.00	0.00	1.85
218	219	5.515184	TGAACAAATTAATGTGTGTCGGTG	58.485	37.500	12.09	0.00	32.81	4.94
224	225	7.169476	TGTGAGCAATGAACAAATTAATGTGTG	59.831	33.333	12.09	0.84	32.81	3.82
247	248	6.565234	AGATTAATCGAGGTCTAGTGTTGTG	58.435	40.000	9.78	0.00	0.00	3.33
341	367	4.314961	CAATATGCATGCGTCTAACCCTA	58.685	43.478	17.45	0.00	0.00	3.53
343	369	2.350772	GCAATATGCATGCGTCTAACCC	60.351	50.000	17.45	0.00	44.26	4.11
385	420	2.552315	ACGACTCAATTTTGTGCGGAAT	59.448	40.909	0.00	0.00	0.00	3.01
386	421	1.944024	ACGACTCAATTTTGTGCGGAA	59.056	42.857	0.00	0.00	0.00	4.30
411	446	5.764192	GGGAGTACAACATACTATCGAGAGT	59.236	44.000	17.96	17.96	0.00	3.24
773	846	8.192774	TGGCTAAGATCAAAGCATTTCTAAATG	58.807	33.333	17.86	10.43	46.55	2.32
794	886	3.384789	ACGAAGATAGCATGAACTGGCTA	59.615	43.478	0.00	0.00	45.75	3.93
799	891	3.439293	CGACACGAAGATAGCATGAACT	58.561	45.455	0.00	0.00	0.00	3.01
837	929	5.467705	AGTCTGTTACATGGTTAGTTCGAC	58.532	41.667	0.00	0.00	0.00	4.20
909	1001	1.889829	GGGTGGGTCTAGAGATGATCG	59.110	57.143	0.00	0.00	0.00	3.69
912	1004	2.314852	TCTTGGGTGGGTCTAGAGATGA	59.685	50.000	0.00	0.00	0.00	2.92
921	1013	2.162681	CTTGTGAATCTTGGGTGGGTC	58.837	52.381	0.00	0.00	0.00	4.46
934	1026	2.104792	AGTAGTGAGCTTGGCTTGTGAA	59.895	45.455	0.00	0.00	39.88	3.18
1180	1276	4.193334	CTCCGACGCGATGCTCCA	62.193	66.667	15.93	0.00	0.00	3.86
1504	8437	0.981183	AGGGTGCGGTTGAAGATGTA	59.019	50.000	0.00	0.00	0.00	2.29
1647	8580	2.337532	GCCGGACACACGTACAGT	59.662	61.111	5.05	0.00	0.00	3.55
1845	8806	1.089112	TGCATGCATCCTTCGTCTTG	58.911	50.000	18.46	0.00	0.00	3.02
1919	8888	8.670521	AGTAGTATCATATCCATTCCATGTGA	57.329	34.615	0.00	0.00	0.00	3.58
1943	8915	2.752354	CCAGGATCGATCTGGTAGCTAG	59.248	54.545	23.96	2.13	44.97	3.42
1944	8916	2.796557	CCAGGATCGATCTGGTAGCTA	58.203	52.381	23.96	0.00	44.97	3.32
1945	8917	1.626686	CCAGGATCGATCTGGTAGCT	58.373	55.000	23.96	9.35	44.97	3.32
1966	8938	7.775093	AGTACATACTTCCGTAACCACAGTATA	59.225	37.037	0.00	0.00	30.96	1.47
1980	8961	3.734293	GCGTGGAGACAGTACATACTTCC	60.734	52.174	0.00	2.49	44.46	3.46
2054	9039	7.445402	CACTATCCCATAAGGTAAAACCATGAG	59.555	40.741	0.00	0.00	41.95	2.90
2115	9617	1.909700	TTTCTTGAGGAAGCCGCATT	58.090	45.000	0.00	0.00	32.55	3.56
2126	9628	7.846644	AAGATGATGCTAGTCTTTTCTTGAG	57.153	36.000	0.00	0.00	0.00	3.02
2288	9821	8.645814	TTCATCTACTCAAACTCAAGTACCTA	57.354	34.615	0.00	0.00	0.00	3.08
2291	9824	8.819643	AGTTTCATCTACTCAAACTCAAGTAC	57.180	34.615	0.00	0.00	35.86	2.73
2314	9847	1.681166	GGCAAGCATCCATGTGAGAGT	60.681	52.381	0.00	0.00	0.00	3.24
2365	9908	3.068165	CGGTGTAGGATGCTTCTACATGA	59.932	47.826	0.00	0.00	45.70	3.07
2490	10037	9.499479	GAGTATGGTGATGAATTGATATGTTCT	57.501	33.333	0.00	0.00	0.00	3.01
2501	10048	5.072329	CCCCAGTTAGAGTATGGTGATGAAT	59.928	44.000	0.00	0.00	31.85	2.57
2502	10049	4.408921	CCCCAGTTAGAGTATGGTGATGAA	59.591	45.833	0.00	0.00	31.85	2.57

Based at the University of Bristol with support from BBSRC.

AutoCloner maintained by Alex Coulton.