AutoCloner

Multiple sequence alignment - TraesCS3B01G337000

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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	TraesCS3B01G337000	chr3B	100.000	2624	0	0	1	2624	542928633	542931256	0.000000e+00	4846.0
1	TraesCS3B01G337000	chr3B	90.786	2518	113	38	198	2624	542896765	542899254	0.000000e+00	3254.0
2	TraesCS3B01G337000	chr3B	90.749	454	41	1	1250	1703	543067779	543068231	2.890000e-169	604.0
3	TraesCS3B01G337000	chr3B	82.386	704	64	30	738	1414	543173871	543174541	2.280000e-155	558.0
4	TraesCS3B01G337000	chr3B	92.230	296	16	6	357	648	543173450	543173742	1.880000e-111	412.0
5	TraesCS3B01G337000	chr3D	92.630	2266	102	32	400	2624	416575006	416577247	0.000000e+00	3199.0
6	TraesCS3B01G337000	chr3D	83.602	805	72	26	1036	1827	416951683	416952440	0.000000e+00	701.0
7	TraesCS3B01G337000	chr3D	80.899	712	94	19	921	1613	416989076	416989764	8.320000e-145	523.0
8	TraesCS3B01G337000	chr3D	90.933	375	32	2	1259	1633	416915592	416915964	1.080000e-138	503.0
9	TraesCS3B01G337000	chr3D	97.656	256	4	1	357	610	416948967	416949222	3.100000e-119	438.0
10	TraesCS3B01G337000	chr3D	82.651	513	35	26	357	851	416914137	416914613	3.140000e-109	405.0
11	TraesCS3B01G337000	chr3D	86.769	325	28	7	711	1024	416949352	416949672	5.380000e-92	348.0
12	TraesCS3B01G337000	chr3D	95.745	188	8	0	13	200	142708588	142708775	1.180000e-78	303.0
13	TraesCS3B01G337000	chr3D	92.857	210	5	2	198	407	416566849	416567048	1.970000e-76	296.0
14	TraesCS3B01G337000	chr3D	79.114	316	27	16	1623	1935	416563042	416563321	5.770000e-42	182.0
15	TraesCS3B01G337000	chr3A	87.606	1767	108	48	198	1903	533995920	533994204	0.000000e+00	1947.0
16	TraesCS3B01G337000	chr5B	80.012	1606	144	81	598	2090	511292021	511293562	0.000000e+00	1024.0
17	TraesCS3B01G337000	chr5B	95.288	191	9	0	10	200	447830659	447830849	1.180000e-78	303.0
18	TraesCS3B01G337000	chr5A	82.207	1051	83	51	627	1614	536970290	536971299	0.000000e+00	809.0
19	TraesCS3B01G337000	chr5D	83.389	897	90	28	766	1614	423474090	423474975	0.000000e+00	776.0
20	TraesCS3B01G337000	chr5D	95.745	188	8	0	13	200	121102476	121102663	1.180000e-78	303.0
21	TraesCS3B01G337000	chr5D	95.745	188	8	0	13	200	130661511	130661324	1.180000e-78	303.0
22	TraesCS3B01G337000	chr5D	95.288	191	9	0	10	200	350380484	350380294	1.180000e-78	303.0
23	TraesCS3B01G337000	chr5D	97.368	38	1	0	669	706	423473699	423473736	6.060000e-07	65.8
24	TraesCS3B01G337000	chr1D	95.312	192	9	0	9	200	176952966	176953157	3.280000e-79	305.0
25	TraesCS3B01G337000	chr4D	95.745	188	8	0	13	200	503922209	503922022	1.180000e-78	303.0
26	TraesCS3B01G337000	chr2D	95.745	188	8	0	13	200	627332310	627332497	1.180000e-78	303.0
27	TraesCS3B01G337000	chr2B	95.312	192	8	1	6	197	773422495	773422685	1.180000e-78	303.0

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	TraesCS3B01G337000	chr3B	542928633	542931256	2623	False	4846.000000	4846	100.000000	1	2624	1	chr3B.!!$F2	2623
1	TraesCS3B01G337000	chr3B	542896765	542899254	2489	False	3254.000000	3254	90.786000	198	2624	1	chr3B.!!$F1	2426
2	TraesCS3B01G337000	chr3B	543173450	543174541	1091	False	485.000000	558	87.308000	357	1414	2	chr3B.!!$F4	1057
3	TraesCS3B01G337000	chr3D	416575006	416577247	2241	False	3199.000000	3199	92.630000	400	2624	1	chr3D.!!$F2	2224
4	TraesCS3B01G337000	chr3D	416989076	416989764	688	False	523.000000	523	80.899000	921	1613	1	chr3D.!!$F3	692
5	TraesCS3B01G337000	chr3D	416948967	416952440	3473	False	495.666667	701	89.342333	357	1827	3	chr3D.!!$F6	1470
6	TraesCS3B01G337000	chr3D	416914137	416915964	1827	False	454.000000	503	86.792000	357	1633	2	chr3D.!!$F5	1276
7	TraesCS3B01G337000	chr3D	416563042	416567048	4006	False	239.000000	296	85.985500	198	1935	2	chr3D.!!$F4	1737
8	TraesCS3B01G337000	chr3A	533994204	533995920	1716	True	1947.000000	1947	87.606000	198	1903	1	chr3A.!!$R1	1705
9	TraesCS3B01G337000	chr5B	511292021	511293562	1541	False	1024.000000	1024	80.012000	598	2090	1	chr5B.!!$F2	1492
10	TraesCS3B01G337000	chr5A	536970290	536971299	1009	False	809.000000	809	82.207000	627	1614	1	chr5A.!!$F1	987
11	TraesCS3B01G337000	chr5D	423473699	423474975	1276	False	420.900000	776	90.378500	669	1614	2	chr5D.!!$F2	945

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
623	4301	0.096976	GTGTGTCTGTGTGTGTGTGC	59.903	55.0	0.0	0.0	0.0	4.57	F

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability	Orientation
1646	8464	0.179163	CACGCTCTCATCAGTACGCA	60.179	55.0	0.0	0.0	0.0	5.24	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
21	22	3.014623	GTCGGAAAAGATTAAGGGGGTG	58.985	50.000	0.00	0.00	0.00	4.61
22	23	2.645797	TCGGAAAAGATTAAGGGGGTGT	59.354	45.455	0.00	0.00	0.00	4.16
23	24	3.074836	TCGGAAAAGATTAAGGGGGTGTT	59.925	43.478	0.00	0.00	0.00	3.32
24	25	3.830178	CGGAAAAGATTAAGGGGGTGTTT	59.170	43.478	0.00	0.00	0.00	2.83
25	26	4.321675	CGGAAAAGATTAAGGGGGTGTTTG	60.322	45.833	0.00	0.00	0.00	2.93
26	27	4.020573	GGAAAAGATTAAGGGGGTGTTTGG	60.021	45.833	0.00	0.00	0.00	3.28
27	28	3.915346	AAGATTAAGGGGGTGTTTGGT	57.085	42.857	0.00	0.00	0.00	3.67
30	31	3.141272	AGATTAAGGGGGTGTTTGGTTCA	59.859	43.478	0.00	0.00	0.00	3.18
32	33	0.105709	AAGGGGGTGTTTGGTTCAGG	60.106	55.000	0.00	0.00	0.00	3.86
33	34	1.533033	GGGGGTGTTTGGTTCAGGG	60.533	63.158	0.00	0.00	0.00	4.45
34	35	1.539665	GGGGTGTTTGGTTCAGGGA	59.460	57.895	0.00	0.00	0.00	4.20
35	36	0.826256	GGGGTGTTTGGTTCAGGGAC	60.826	60.000	0.00	0.00	0.00	4.46
36	37	0.185175	GGGTGTTTGGTTCAGGGACT	59.815	55.000	0.00	0.00	43.88	3.85
37	38	1.411074	GGGTGTTTGGTTCAGGGACTT	60.411	52.381	0.00	0.00	34.60	3.01
38	39	2.384828	GGTGTTTGGTTCAGGGACTTT	58.615	47.619	0.00	0.00	34.60	2.66
39	40	2.764010	GGTGTTTGGTTCAGGGACTTTT	59.236	45.455	0.00	0.00	34.60	2.27
40	41	3.196901	GGTGTTTGGTTCAGGGACTTTTT	59.803	43.478	0.00	0.00	34.60	1.94
41	42	4.403113	GGTGTTTGGTTCAGGGACTTTTTA	59.597	41.667	0.00	0.00	34.60	1.52
43	44	5.126545	GTGTTTGGTTCAGGGACTTTTTAGT	59.873	40.000	0.00	0.00	34.60	2.24
44	45	5.358725	TGTTTGGTTCAGGGACTTTTTAGTC	59.641	40.000	0.00	0.00	34.60	2.59
64	65	4.823157	GTCCCAGAGACTAGAAAAAGTCC	58.177	47.826	0.00	0.00	45.86	3.85
65	66	3.838903	TCCCAGAGACTAGAAAAAGTCCC	59.161	47.826	0.00	0.00	45.86	4.46
66	67	3.841255	CCCAGAGACTAGAAAAAGTCCCT	59.159	47.826	0.00	0.00	45.86	4.20
67	68	5.024118	CCCAGAGACTAGAAAAAGTCCCTA	58.976	45.833	0.00	0.00	45.86	3.53
68	69	5.484290	CCCAGAGACTAGAAAAAGTCCCTAA	59.516	44.000	0.00	0.00	45.86	2.69
70	71	7.450903	CCAGAGACTAGAAAAAGTCCCTAAAA	58.549	38.462	0.00	0.00	45.86	1.52
71	72	7.937394	CCAGAGACTAGAAAAAGTCCCTAAAAA	59.063	37.037	0.00	0.00	45.86	1.94
91	92	2.971901	AACCCTAGGAACCAAACAGG	57.028	50.000	11.48	0.00	45.67	4.00
92	93	2.127651	ACCCTAGGAACCAAACAGGA	57.872	50.000	11.48	0.00	41.22	3.86
93	94	1.985895	ACCCTAGGAACCAAACAGGAG	59.014	52.381	11.48	0.00	41.22	3.69
95	96	1.282157	CCTAGGAACCAAACAGGAGGG	59.718	57.143	1.05	0.00	41.22	4.30
97	98	0.771755	AGGAACCAAACAGGAGGGAC	59.228	55.000	0.00	0.00	41.22	4.46
100	101	2.424379	GGAACCAAACAGGAGGGACTTT	60.424	50.000	0.00	0.00	41.55	2.66
101	102	3.296854	GAACCAAACAGGAGGGACTTTT	58.703	45.455	0.00	0.00	41.55	2.27
103	104	3.296854	ACCAAACAGGAGGGACTTTTTC	58.703	45.455	0.00	0.00	41.55	2.29
104	105	3.052869	ACCAAACAGGAGGGACTTTTTCT	60.053	43.478	0.00	0.00	41.55	2.52
105	106	4.167307	ACCAAACAGGAGGGACTTTTTCTA	59.833	41.667	0.00	0.00	41.55	2.10
106	107	4.519350	CCAAACAGGAGGGACTTTTTCTAC	59.481	45.833	0.00	0.00	41.55	2.59
107	108	5.130350	CAAACAGGAGGGACTTTTTCTACA	58.870	41.667	0.00	0.00	41.55	2.74
109	110	3.328050	ACAGGAGGGACTTTTTCTACAGG	59.672	47.826	0.00	0.00	41.55	4.00
111	112	2.910977	GGAGGGACTTTTTCTACAGGGA	59.089	50.000	0.00	0.00	41.55	4.20
112	113	3.307550	GGAGGGACTTTTTCTACAGGGAC	60.308	52.174	0.00	0.00	41.55	4.46
113	114	3.583526	GAGGGACTTTTTCTACAGGGACT	59.416	47.826	0.00	0.00	41.55	3.85
114	115	4.759953	AGGGACTTTTTCTACAGGGACTA	58.240	43.478	0.00	0.00	28.08	2.59
116	117	4.776308	GGGACTTTTTCTACAGGGACTAGA	59.224	45.833	0.00	0.00	36.02	2.43
117	118	5.247792	GGGACTTTTTCTACAGGGACTAGAA	59.752	44.000	0.00	0.00	36.02	2.10
171	172	4.823157	GTCCCTGAGACTAGAAAAAGTCC	58.177	47.826	0.00	0.00	45.86	3.85
172	173	4.528987	GTCCCTGAGACTAGAAAAAGTCCT	59.471	45.833	0.00	0.00	45.86	3.85
173	174	5.715753	GTCCCTGAGACTAGAAAAAGTCCTA	59.284	44.000	0.00	0.00	45.86	2.94
175	176	6.437793	TCCCTGAGACTAGAAAAAGTCCTAAG	59.562	42.308	0.00	0.00	45.86	2.18
177	178	7.317390	CCTGAGACTAGAAAAAGTCCTAAGAC	58.683	42.308	0.00	0.00	45.86	3.01
191	192	5.861727	GTCCTAAGACTCCTAAACCAAACA	58.138	41.667	0.00	0.00	40.10	2.83
192	193	5.699915	GTCCTAAGACTCCTAAACCAAACAC	59.300	44.000	0.00	0.00	40.10	3.32
193	194	5.001874	CCTAAGACTCCTAAACCAAACACC	58.998	45.833	0.00	0.00	0.00	4.16
194	195	3.503800	AGACTCCTAAACCAAACACCC	57.496	47.619	0.00	0.00	0.00	4.61
195	196	2.107726	AGACTCCTAAACCAAACACCCC	59.892	50.000	0.00	0.00	0.00	4.95
196	197	1.146359	ACTCCTAAACCAAACACCCCC	59.854	52.381	0.00	0.00	0.00	5.40
246	3857	3.607310	CGTTGTACTAGCTAGCTGATCCG	60.607	52.174	27.68	14.87	0.00	4.18
407	4039	1.182667	TTAGAACGAGCAGGCTAGCA	58.817	50.000	18.24	0.00	36.85	3.49
610	4272	1.136085	GTGTGTGTGTGTGTGTGTGTC	60.136	52.381	0.00	0.00	0.00	3.67
623	4301	0.096976	GTGTGTCTGTGTGTGTGTGC	59.903	55.000	0.00	0.00	0.00	4.57
625	4303	2.324477	GTCTGTGTGTGTGTGCGC	59.676	61.111	0.00	0.00	0.00	6.09
656	4365	1.039068	TCGACACGTAGGGTTTTGGA	58.961	50.000	0.00	0.00	0.00	3.53
733	4485	2.588146	TAGCTAGCGTCGTCGTTGCC	62.588	60.000	9.55	0.00	39.49	4.52
757	4517	1.609501	TGGTTGTAGCTCGAGCCCT	60.610	57.895	32.94	18.76	43.38	5.19
866	5533	0.664761	CCGGCCATCTTGCTAATGTG	59.335	55.000	2.24	0.00	0.00	3.21
968	5695	1.792367	CGTTGTTGCTGATCTCGTGAA	59.208	47.619	0.00	0.00	0.00	3.18
1012	5762	0.533755	GATCTCCATGGACGGCAAGG	60.534	60.000	11.44	0.00	0.00	3.61
1227	8023	1.656441	GCAACCGATCCATCATGCC	59.344	57.895	0.00	0.00	0.00	4.40
1236	8032	2.792947	CCATCATGCCCCAAGCTGC	61.793	63.158	0.00	0.00	44.23	5.25
1244	8040	1.304282	CCCCAAGCTGCTATGGTGT	59.696	57.895	21.28	0.00	34.79	4.16
1525	8328	0.824109	CGGCAGGATCTACTTCACCA	59.176	55.000	0.00	0.00	0.00	4.17
1531	8334	0.179081	GATCTACTTCACCACGGGCC	60.179	60.000	0.00	0.00	0.00	5.80
1587	8392	2.294078	GGTCCTCCTGGGTGGTGAG	61.294	68.421	7.49	0.00	37.07	3.51
1646	8464	0.969149	TGTTCGTGGATCAGCTCACT	59.031	50.000	0.00	0.00	0.00	3.41
1647	8465	1.337167	TGTTCGTGGATCAGCTCACTG	60.337	52.381	0.00	0.00	45.95	3.66
1681	8521	4.341235	AGAGCGTGGAGTATGCATTAAGTA	59.659	41.667	3.54	0.00	39.99	2.24
1882	8760	4.594491	ACCCTCTATGTATGCATGTGATCA	59.406	41.667	10.16	0.00	36.58	2.92
1905	8787	9.650539	ATCATCAGACATGAGTTATATGCTTAC	57.349	33.333	0.00	0.00	39.29	2.34
1935	8817	5.466728	TCCAGCTTCGCTATAATTTGATGTC	59.533	40.000	0.00	0.00	36.40	3.06
2129	9019	7.321908	CAATCACAATTTGATGTATGGGACAA	58.678	34.615	2.79	0.00	44.86	3.18
2243	9138	4.840005	TCACCACAACGCCGTGCA	62.840	61.111	0.00	0.00	35.47	4.57
2284	9179	9.562583	GCGGATGTAATACAAAAATAAAGAACA	57.437	29.630	0.00	0.00	0.00	3.18
2312	9207	6.077322	TGATCCTCCTTGAACCTTCAAAAAT	58.923	36.000	2.25	0.00	45.61	1.82
2533	9431	4.396357	ACAACCCCAACTCCAAATATGA	57.604	40.909	0.00	0.00	0.00	2.15

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
1	2	2.645797	ACACCCCCTTAATCTTTTCCGA	59.354	45.455	0.00	0.00	0.00	4.55
2	3	3.081710	ACACCCCCTTAATCTTTTCCG	57.918	47.619	0.00	0.00	0.00	4.30
4	5	4.591498	ACCAAACACCCCCTTAATCTTTTC	59.409	41.667	0.00	0.00	0.00	2.29
6	7	4.207698	ACCAAACACCCCCTTAATCTTT	57.792	40.909	0.00	0.00	0.00	2.52
7	8	3.915346	ACCAAACACCCCCTTAATCTT	57.085	42.857	0.00	0.00	0.00	2.40
8	9	3.141272	TGAACCAAACACCCCCTTAATCT	59.859	43.478	0.00	0.00	0.00	2.40
10	11	3.506398	CTGAACCAAACACCCCCTTAAT	58.494	45.455	0.00	0.00	0.00	1.40
13	14	0.105709	CCTGAACCAAACACCCCCTT	60.106	55.000	0.00	0.00	0.00	3.95
15	16	1.533033	CCCTGAACCAAACACCCCC	60.533	63.158	0.00	0.00	0.00	5.40
16	17	0.826256	GTCCCTGAACCAAACACCCC	60.826	60.000	0.00	0.00	0.00	4.95
17	18	0.185175	AGTCCCTGAACCAAACACCC	59.815	55.000	0.00	0.00	0.00	4.61
19	20	4.465632	AAAAAGTCCCTGAACCAAACAC	57.534	40.909	0.00	0.00	0.00	3.32
21	22	5.828747	GACTAAAAAGTCCCTGAACCAAAC	58.171	41.667	0.00	0.00	32.97	2.93
43	44	3.838903	GGGACTTTTTCTAGTCTCTGGGA	59.161	47.826	0.00	0.00	41.50	4.37
44	45	4.209307	GGGACTTTTTCTAGTCTCTGGG	57.791	50.000	0.00	0.00	41.50	4.45
70	71	3.205733	TCCTGTTTGGTTCCTAGGGTTTT	59.794	43.478	9.46	0.00	37.07	2.43
71	72	2.787035	TCCTGTTTGGTTCCTAGGGTTT	59.213	45.455	9.46	0.00	37.07	3.27
72	73	2.375509	CTCCTGTTTGGTTCCTAGGGTT	59.624	50.000	9.46	0.00	37.07	4.11
74	75	1.282157	CCTCCTGTTTGGTTCCTAGGG	59.718	57.143	9.46	0.00	37.07	3.53
75	76	1.282157	CCCTCCTGTTTGGTTCCTAGG	59.718	57.143	0.82	0.82	37.07	3.02
76	77	2.027100	GTCCCTCCTGTTTGGTTCCTAG	60.027	54.545	0.00	0.00	37.07	3.02
77	78	1.982958	GTCCCTCCTGTTTGGTTCCTA	59.017	52.381	0.00	0.00	37.07	2.94
78	79	0.771755	GTCCCTCCTGTTTGGTTCCT	59.228	55.000	0.00	0.00	37.07	3.36
79	80	0.771755	AGTCCCTCCTGTTTGGTTCC	59.228	55.000	0.00	0.00	37.07	3.62
80	81	2.658807	AAGTCCCTCCTGTTTGGTTC	57.341	50.000	0.00	0.00	37.07	3.62
81	82	3.398318	AAAAGTCCCTCCTGTTTGGTT	57.602	42.857	0.00	0.00	37.07	3.67
82	83	3.052869	AGAAAAAGTCCCTCCTGTTTGGT	60.053	43.478	0.00	0.00	37.07	3.67
83	84	3.566351	AGAAAAAGTCCCTCCTGTTTGG	58.434	45.455	0.00	0.00	37.10	3.28
85	86	5.377478	CTGTAGAAAAAGTCCCTCCTGTTT	58.623	41.667	0.00	0.00	0.00	2.83
86	87	4.202472	CCTGTAGAAAAAGTCCCTCCTGTT	60.202	45.833	0.00	0.00	0.00	3.16
87	88	3.328050	CCTGTAGAAAAAGTCCCTCCTGT	59.672	47.826	0.00	0.00	0.00	4.00
88	89	3.307762	CCCTGTAGAAAAAGTCCCTCCTG	60.308	52.174	0.00	0.00	0.00	3.86
89	90	2.913617	CCCTGTAGAAAAAGTCCCTCCT	59.086	50.000	0.00	0.00	0.00	3.69
90	91	2.910977	TCCCTGTAGAAAAAGTCCCTCC	59.089	50.000	0.00	0.00	0.00	4.30
91	92	3.583526	AGTCCCTGTAGAAAAAGTCCCTC	59.416	47.826	0.00	0.00	0.00	4.30
92	93	3.599348	AGTCCCTGTAGAAAAAGTCCCT	58.401	45.455	0.00	0.00	0.00	4.20
93	94	4.776308	TCTAGTCCCTGTAGAAAAAGTCCC	59.224	45.833	0.00	0.00	0.00	4.46
149	150	4.528987	AGGACTTTTTCTAGTCTCAGGGAC	59.471	45.833	0.00	0.00	43.26	4.46
151	152	6.437793	TCTTAGGACTTTTTCTAGTCTCAGGG	59.562	42.308	0.00	0.00	43.26	4.45
152	153	7.317390	GTCTTAGGACTTTTTCTAGTCTCAGG	58.683	42.308	0.00	0.00	43.26	3.86
169	170	5.221783	GGTGTTTGGTTTAGGAGTCTTAGGA	60.222	44.000	0.00	0.00	0.00	2.94
171	172	5.001874	GGGTGTTTGGTTTAGGAGTCTTAG	58.998	45.833	0.00	0.00	0.00	2.18
172	173	4.202493	GGGGTGTTTGGTTTAGGAGTCTTA	60.202	45.833	0.00	0.00	0.00	2.10
173	174	3.436035	GGGGTGTTTGGTTTAGGAGTCTT	60.436	47.826	0.00	0.00	0.00	3.01
175	176	2.511659	GGGGTGTTTGGTTTAGGAGTC	58.488	52.381	0.00	0.00	0.00	3.36
177	178	1.427753	AGGGGGTGTTTGGTTTAGGAG	59.572	52.381	0.00	0.00	0.00	3.69
178	179	1.536644	AGGGGGTGTTTGGTTTAGGA	58.463	50.000	0.00	0.00	0.00	2.94
179	180	3.159472	GTTAGGGGGTGTTTGGTTTAGG	58.841	50.000	0.00	0.00	0.00	2.69
180	181	4.108501	AGTTAGGGGGTGTTTGGTTTAG	57.891	45.455	0.00	0.00	0.00	1.85
181	182	5.659849	TTAGTTAGGGGGTGTTTGGTTTA	57.340	39.130	0.00	0.00	0.00	2.01
182	183	4.539596	TTAGTTAGGGGGTGTTTGGTTT	57.460	40.909	0.00	0.00	0.00	3.27
183	184	4.217510	GTTTAGTTAGGGGGTGTTTGGTT	58.782	43.478	0.00	0.00	0.00	3.67
184	185	3.436906	GGTTTAGTTAGGGGGTGTTTGGT	60.437	47.826	0.00	0.00	0.00	3.67
186	187	3.824443	CTGGTTTAGTTAGGGGGTGTTTG	59.176	47.826	0.00	0.00	0.00	2.93
188	189	3.073503	GTCTGGTTTAGTTAGGGGGTGTT	59.926	47.826	0.00	0.00	0.00	3.32
189	190	2.641321	GTCTGGTTTAGTTAGGGGGTGT	59.359	50.000	0.00	0.00	0.00	4.16
190	191	2.640826	TGTCTGGTTTAGTTAGGGGGTG	59.359	50.000	0.00	0.00	0.00	4.61
191	192	2.994355	TGTCTGGTTTAGTTAGGGGGT	58.006	47.619	0.00	0.00	0.00	4.95
192	193	4.586306	ATTGTCTGGTTTAGTTAGGGGG	57.414	45.455	0.00	0.00	0.00	5.40
193	194	5.566469	TGAATTGTCTGGTTTAGTTAGGGG	58.434	41.667	0.00	0.00	0.00	4.79
194	195	6.238648	ACTGAATTGTCTGGTTTAGTTAGGG	58.761	40.000	0.00	0.00	0.00	3.53
195	196	6.934645	TGACTGAATTGTCTGGTTTAGTTAGG	59.065	38.462	0.00	0.00	37.79	2.69
196	197	7.962964	TGACTGAATTGTCTGGTTTAGTTAG	57.037	36.000	0.00	0.00	37.79	2.34
407	4039	0.109723	TACGGGGCAGTGAAAAGCTT	59.890	50.000	0.00	0.00	0.00	3.74
610	4272	4.943591	GCGCGCACACACACACAG	62.944	66.667	29.10	0.00	0.00	3.66
636	4343	1.142474	CCAAAACCCTACGTGTCGAC	58.858	55.000	9.11	9.11	0.00	4.20
733	4485	0.888619	TCGAGCTACAACCACAGAGG	59.111	55.000	0.00	0.00	45.67	3.69
757	4517	0.179032	TGGCGTGCTTCCTTCTGAAA	60.179	50.000	0.00	0.00	31.06	2.69
866	5533	5.312895	AGGAGAAAGAAGAAGAGGAAAAGC	58.687	41.667	0.00	0.00	0.00	3.51
968	5695	3.984770	AGCTAGGTAGGAGTAGGATGAGT	59.015	47.826	0.00	0.00	0.00	3.41
1012	5762	4.853050	AGGCAGCAGATGAGGCGC	62.853	66.667	0.00	0.00	36.08	6.53
1211	8002	1.151450	GGGGCATGATGGATCGGTT	59.849	57.895	0.00	0.00	0.00	4.44
1227	8023	1.098050	GAACACCATAGCAGCTTGGG	58.902	55.000	21.00	16.12	37.32	4.12
1236	8032	2.419297	GGACTGCAGAGGAACACCATAG	60.419	54.545	23.35	0.00	0.00	2.23
1244	8040	1.270907	GAAGGAGGACTGCAGAGGAA	58.729	55.000	23.35	0.00	0.00	3.36
1525	8328	2.665603	GAAGAAGCAGAGGCCCGT	59.334	61.111	0.00	0.00	42.56	5.28
1531	8334	0.671781	CCCACCACGAAGAAGCAGAG	60.672	60.000	0.00	0.00	0.00	3.35
1587	8392	1.076995	GTACTTCATGCCCCACCCC	60.077	63.158	0.00	0.00	0.00	4.95
1646	8464	0.179163	CACGCTCTCATCAGTACGCA	60.179	55.000	0.00	0.00	0.00	5.24
1647	8465	0.867753	CCACGCTCTCATCAGTACGC	60.868	60.000	0.00	0.00	0.00	4.42
1681	8521	2.093288	ACTCCATCAATCGTCACAGCAT	60.093	45.455	0.00	0.00	0.00	3.79
1764	8636	5.765576	TGCCCAAATGGAGTAACTACTAA	57.234	39.130	0.00	0.00	36.50	2.24
2129	9019	2.023695	AGGAGGGCATTCCAAATCATGT	60.024	45.455	9.57	0.00	39.84	3.21
2134	9024	0.688749	GGCAGGAGGGCATTCCAAAT	60.689	55.000	9.57	0.00	42.77	2.32
2175	9066	5.316987	GTGTGGATCCCCATATAGGAAAAG	58.683	45.833	9.90	0.00	45.68	2.27
2312	9207	6.097915	ACTCCACGATCAGAAGAAACTTAA	57.902	37.500	0.00	0.00	0.00	1.85
2553	9451	1.048601	ATCCAATCGTCCTATGCCGT	58.951	50.000	0.00	0.00	0.00	5.68
2555	9453	1.072331	ACCATCCAATCGTCCTATGCC	59.928	52.381	0.00	0.00	0.00	4.40

Based at the University of Bristol with support from BBSRC.

AutoCloner maintained by Alex Coulton.