AutoCloner

Multiple sequence alignment - TraesCS5D01G017900

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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	TraesCS5D01G017900	chr5D	100.000	2732	0	0	1	2732	10496638	10493907	0.000000e+00	5046.0
1	TraesCS5D01G017900	chr5D	94.658	1273	45	7	554	1812	511491442	511490179	0.000000e+00	1953.0
2	TraesCS5D01G017900	chr5D	95.850	771	21	5	1786	2556	511490176	511489417	0.000000e+00	1236.0
3	TraesCS5D01G017900	chr5D	96.111	180	5	1	2553	2732	511489315	511489138	2.660000e-75	292.0
4	TraesCS5D01G017900	chr5D	92.929	198	13	1	256	452	511491639	511491442	1.240000e-73	287.0
5	TraesCS5D01G017900	chr2D	98.551	2553	21	8	185	2732	33339269	33336728	0.000000e+00	4495.0
6	TraesCS5D01G017900	chr2D	88.929	560	52	8	1071	1623	288162114	288161558	0.000000e+00	682.0
7	TraesCS5D01G017900	chr2D	87.455	558	48	13	2024	2579	493886317	493886854	8.310000e-175	623.0
8	TraesCS5D01G017900	chr2D	96.063	254	9	1	2480	2732	542429802	542429549	1.960000e-111	412.0
9	TraesCS5D01G017900	chr7D	98.344	2295	25	4	445	2732	2873575	2871287	0.000000e+00	4015.0
10	TraesCS5D01G017900	chr5B	93.740	2572	111	21	185	2732	76157471	76160016	0.000000e+00	3812.0
11	TraesCS5D01G017900	chr5B	88.393	560	56	7	1071	1623	634279270	634278713	0.000000e+00	665.0
12	TraesCS5D01G017900	chr3A	96.051	1646	53	8	195	1835	107618805	107617167	0.000000e+00	2669.0
13	TraesCS5D01G017900	chr3A	96.744	645	12	3	1823	2466	107615939	107615303	0.000000e+00	1066.0
14	TraesCS5D01G017900	chr3A	80.026	766	91	35	987	1719	627275621	627276357	6.750000e-141	510.0
15	TraesCS5D01G017900	chr3A	96.175	183	7	0	2546	2728	107615305	107615123	1.590000e-77	300.0
16	TraesCS5D01G017900	chr3A	97.917	48	0	1	185	231	472570835	472570882	6.270000e-12	82.4
17	TraesCS5D01G017900	chr4D	89.464	560	50	7	1071	1623	188963973	188964530	0.000000e+00	699.0
18	TraesCS5D01G017900	chr4D	95.556	45	1	1	186	229	12515092	12515048	1.360000e-08	71.3
19	TraesCS5D01G017900	chr6D	88.566	516	48	8	1072	1578	443355406	443355919	1.390000e-172	616.0
20	TraesCS5D01G017900	chr1D	87.276	558	48	12	2024	2579	61768583	61768047	1.390000e-172	616.0
21	TraesCS5D01G017900	chr5A	85.533	553	56	13	2030	2579	636187857	636187326	8.550000e-155	556.0
22	TraesCS5D01G017900	chr5A	96.203	79	3	0	65	143	8224798	8224720	2.210000e-26	130.0
23	TraesCS5D01G017900	chr5A	85.882	85	6	3	185	268	12228384	12228305	4.850000e-13	86.1
24	TraesCS5D01G017900	chr4A	86.492	496	48	9	2033	2527	123805651	123806128	6.700000e-146	527.0
25	TraesCS5D01G017900	chr3D	84.201	538	63	13	2198	2732	556176563	556177081	1.130000e-138	503.0
26	TraesCS5D01G017900	chr3D	79.070	774	105	30	999	1737	484345585	484346336	1.900000e-131	479.0
27	TraesCS5D01G017900	chr3D	96.000	50	1	1	183	231	499978998	499979047	2.260000e-11	80.5
28	TraesCS5D01G017900	chr3B	84.171	537	64	14	2198	2732	739176320	739176837	4.060000e-138	501.0
29	TraesCS5D01G017900	chr3B	81.994	311	39	11	929	1224	647177814	647178122	5.840000e-62	248.0
30	TraesCS5D01G017900	chr3B	96.078	51	1	1	186	235	559108046	559107996	6.270000e-12	82.4
31	TraesCS5D01G017900	chr7A	85.079	315	38	7	1019	1326	317691538	317691850	2.040000e-81	313.0
32	TraesCS5D01G017900	chr7B	79.433	423	57	14	2294	2703	77916845	77917250	3.470000e-69	272.0
33	TraesCS5D01G017900	chr1B	91.860	86	6	1	187	271	463547990	463547905	4.780000e-23	119.0

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	TraesCS5D01G017900	chr5D	10493907	10496638	2731	True	5046	5046	100.000000	1	2732	1	chr5D.!!$R1	2731
1	TraesCS5D01G017900	chr5D	511489138	511491639	2501	True	942	1953	94.887000	256	2732	4	chr5D.!!$R2	2476
2	TraesCS5D01G017900	chr2D	33336728	33339269	2541	True	4495	4495	98.551000	185	2732	1	chr2D.!!$R1	2547
3	TraesCS5D01G017900	chr2D	288161558	288162114	556	True	682	682	88.929000	1071	1623	1	chr2D.!!$R2	552
4	TraesCS5D01G017900	chr2D	493886317	493886854	537	False	623	623	87.455000	2024	2579	1	chr2D.!!$F1	555
5	TraesCS5D01G017900	chr7D	2871287	2873575	2288	True	4015	4015	98.344000	445	2732	1	chr7D.!!$R1	2287
6	TraesCS5D01G017900	chr5B	76157471	76160016	2545	False	3812	3812	93.740000	185	2732	1	chr5B.!!$F1	2547
7	TraesCS5D01G017900	chr5B	634278713	634279270	557	True	665	665	88.393000	1071	1623	1	chr5B.!!$R1	552
8	TraesCS5D01G017900	chr3A	107615123	107618805	3682	True	1345	2669	96.323333	195	2728	3	chr3A.!!$R1	2533
9	TraesCS5D01G017900	chr3A	627275621	627276357	736	False	510	510	80.026000	987	1719	1	chr3A.!!$F2	732
10	TraesCS5D01G017900	chr4D	188963973	188964530	557	False	699	699	89.464000	1071	1623	1	chr4D.!!$F1	552
11	TraesCS5D01G017900	chr6D	443355406	443355919	513	False	616	616	88.566000	1072	1578	1	chr6D.!!$F1	506
12	TraesCS5D01G017900	chr1D	61768047	61768583	536	True	616	616	87.276000	2024	2579	1	chr1D.!!$R1	555
13	TraesCS5D01G017900	chr5A	636187326	636187857	531	True	556	556	85.533000	2030	2579	1	chr5A.!!$R3	549
14	TraesCS5D01G017900	chr3D	556176563	556177081	518	False	503	503	84.201000	2198	2732	1	chr3D.!!$F3	534
15	TraesCS5D01G017900	chr3D	484345585	484346336	751	False	479	479	79.070000	999	1737	1	chr3D.!!$F1	738
16	TraesCS5D01G017900	chr3B	739176320	739176837	517	False	501	501	84.171000	2198	2732	1	chr3B.!!$F2	534

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
122	123	0.038709	GCATGCGCTAGCTAGCTACT	60.039	55.0	36.02	20.77	46.85	2.57	F
388	392	0.944311	GTCGTCACACAGGTCGCAAT	60.944	55.0	0.00	0.00	0.00	3.56	F

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability	Orientation
1306	1370	1.531578	GAGCACGTCCAACTTCTTTCC	59.468	52.381	0.0	0.0	0.00	3.13	R
2173	3536	0.393820	GGACGTGGGTTTGACACCTA	59.606	55.000	0.0	0.0	46.38	3.08	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
39	40	3.767230	CGTGCTCGTGTCGGCTTG	61.767	66.667	0.00	0.00	0.00	4.01
40	41	4.077188	GTGCTCGTGTCGGCTTGC	62.077	66.667	0.00	0.00	0.00	4.01
57	58	3.533720	CCGGCCGGAGAGATACAA	58.466	61.111	41.82	0.00	37.50	2.41
58	59	2.050269	CCGGCCGGAGAGATACAAT	58.950	57.895	41.82	0.00	37.50	2.71
59	60	0.393077	CCGGCCGGAGAGATACAATT	59.607	55.000	41.82	0.00	37.50	2.32
60	61	1.616865	CCGGCCGGAGAGATACAATTA	59.383	52.381	41.82	0.00	37.50	1.40
61	62	2.233922	CCGGCCGGAGAGATACAATTAT	59.766	50.000	41.82	0.00	37.50	1.28
62	63	3.306780	CCGGCCGGAGAGATACAATTATT	60.307	47.826	41.82	0.00	37.50	1.40
63	64	3.927142	CGGCCGGAGAGATACAATTATTC	59.073	47.826	20.10	0.00	0.00	1.75
64	65	3.927142	GGCCGGAGAGATACAATTATTCG	59.073	47.826	5.05	0.00	0.00	3.34
65	66	3.927142	GCCGGAGAGATACAATTATTCGG	59.073	47.826	5.05	0.00	37.15	4.30
66	67	3.927142	CCGGAGAGATACAATTATTCGGC	59.073	47.826	0.00	0.00	0.00	5.54
67	68	4.556233	CGGAGAGATACAATTATTCGGCA	58.444	43.478	0.00	0.00	0.00	5.69
68	69	4.386049	CGGAGAGATACAATTATTCGGCAC	59.614	45.833	0.00	0.00	0.00	5.01
69	70	4.691216	GGAGAGATACAATTATTCGGCACC	59.309	45.833	0.00	0.00	0.00	5.01
70	71	4.307432	AGAGATACAATTATTCGGCACCG	58.693	43.478	1.73	1.73	41.35	4.94
71	72	4.056050	GAGATACAATTATTCGGCACCGT	58.944	43.478	9.23	0.00	40.74	4.83
72	73	4.056050	AGATACAATTATTCGGCACCGTC	58.944	43.478	9.23	0.00	40.74	4.79
73	74	1.375551	ACAATTATTCGGCACCGTCC	58.624	50.000	9.23	0.00	40.74	4.79
85	86	4.438346	CCGTCCGGTTCATCCATC	57.562	61.111	0.00	0.00	35.57	3.51
86	87	1.520192	CCGTCCGGTTCATCCATCA	59.480	57.895	0.00	0.00	35.57	3.07
87	88	0.530650	CCGTCCGGTTCATCCATCAG	60.531	60.000	0.00	0.00	35.57	2.90
88	89	1.154205	CGTCCGGTTCATCCATCAGC	61.154	60.000	0.00	0.00	35.57	4.26
89	90	1.143838	TCCGGTTCATCCATCAGCG	59.856	57.895	0.00	0.00	35.57	5.18
90	91	1.153369	CCGGTTCATCCATCAGCGT	60.153	57.895	0.00	0.00	35.57	5.07
91	92	1.154205	CCGGTTCATCCATCAGCGTC	61.154	60.000	0.00	0.00	35.57	5.19
92	93	1.482621	CGGTTCATCCATCAGCGTCG	61.483	60.000	0.00	0.00	35.57	5.12
93	94	1.638467	GTTCATCCATCAGCGTCGC	59.362	57.895	9.80	9.80	0.00	5.19
94	95	1.878069	TTCATCCATCAGCGTCGCG	60.878	57.895	12.30	0.00	0.00	5.87
112	113	4.529219	CCCGGTCTGCATGCGCTA	62.529	66.667	14.09	0.00	39.64	4.26
113	114	2.963854	CCGGTCTGCATGCGCTAG	60.964	66.667	14.09	5.09	39.64	3.42
114	115	3.634072	CGGTCTGCATGCGCTAGC	61.634	66.667	14.09	13.58	45.41	3.42
115	116	2.202987	GGTCTGCATGCGCTAGCT	60.203	61.111	21.66	0.00	45.42	3.32
116	117	1.068083	GGTCTGCATGCGCTAGCTA	59.932	57.895	21.66	1.70	45.42	3.32
117	118	0.943359	GGTCTGCATGCGCTAGCTAG	60.943	60.000	16.84	16.84	45.42	3.42
118	119	1.300465	TCTGCATGCGCTAGCTAGC	60.300	57.895	31.88	31.88	45.42	3.42
119	120	1.300775	CTGCATGCGCTAGCTAGCT	60.301	57.895	36.02	23.12	46.85	3.32
120	121	0.038801	CTGCATGCGCTAGCTAGCTA	60.039	55.000	36.02	26.89	46.85	3.32
121	122	0.319040	TGCATGCGCTAGCTAGCTAC	60.319	55.000	36.02	28.74	46.85	3.58
122	123	0.038709	GCATGCGCTAGCTAGCTACT	60.039	55.000	36.02	20.77	46.85	2.57
123	124	1.695813	CATGCGCTAGCTAGCTACTG	58.304	55.000	36.02	26.25	46.85	2.74
124	125	1.000827	CATGCGCTAGCTAGCTACTGT	60.001	52.381	36.02	20.41	46.85	3.55
125	126	1.963172	TGCGCTAGCTAGCTACTGTA	58.037	50.000	36.02	21.09	46.85	2.74
126	127	1.874231	TGCGCTAGCTAGCTACTGTAG	59.126	52.381	36.02	22.73	46.85	2.74
127	128	2.144730	GCGCTAGCTAGCTACTGTAGA	58.855	52.381	36.02	0.23	46.85	2.59
128	129	2.158841	GCGCTAGCTAGCTACTGTAGAG	59.841	54.545	36.02	21.46	46.85	2.43
129	130	3.655486	CGCTAGCTAGCTACTGTAGAGA	58.345	50.000	36.02	0.00	46.85	3.10
130	131	4.059511	CGCTAGCTAGCTACTGTAGAGAA	58.940	47.826	36.02	0.00	46.85	2.87
131	132	4.084223	CGCTAGCTAGCTACTGTAGAGAAC	60.084	50.000	36.02	9.22	46.85	3.01
132	133	4.817464	GCTAGCTAGCTACTGTAGAGAACA	59.183	45.833	33.71	0.00	45.62	3.18
133	134	5.277634	GCTAGCTAGCTACTGTAGAGAACAC	60.278	48.000	33.71	3.16	45.62	3.32
134	135	4.590918	AGCTAGCTACTGTAGAGAACACA	58.409	43.478	17.69	0.00	33.45	3.72
135	136	4.396790	AGCTAGCTACTGTAGAGAACACAC	59.603	45.833	17.69	0.00	33.45	3.82
136	137	4.396790	GCTAGCTACTGTAGAGAACACACT	59.603	45.833	18.64	5.90	33.45	3.55
137	138	5.448089	GCTAGCTACTGTAGAGAACACACTC	60.448	48.000	18.64	0.00	37.19	3.51
138	139	4.658063	AGCTACTGTAGAGAACACACTCT	58.342	43.478	18.64	0.00	46.97	3.24
139	140	5.806818	AGCTACTGTAGAGAACACACTCTA	58.193	41.667	18.64	0.00	44.17	2.43
146	147	4.955925	AGAGAACACACTCTACGAGATG	57.044	45.455	0.00	0.00	44.17	2.90
147	148	3.127895	AGAGAACACACTCTACGAGATGC	59.872	47.826	0.00	0.00	44.17	3.91
148	149	2.164624	AGAACACACTCTACGAGATGCC	59.835	50.000	0.00	0.00	33.32	4.40
149	150	1.545841	ACACACTCTACGAGATGCCA	58.454	50.000	0.00	0.00	33.32	4.92
150	151	1.893137	ACACACTCTACGAGATGCCAA	59.107	47.619	0.00	0.00	33.32	4.52
151	152	2.497675	ACACACTCTACGAGATGCCAAT	59.502	45.455	0.00	0.00	33.32	3.16
152	153	3.055819	ACACACTCTACGAGATGCCAATT	60.056	43.478	0.00	0.00	33.32	2.32
153	154	3.935203	CACACTCTACGAGATGCCAATTT	59.065	43.478	0.00	0.00	33.32	1.82
154	155	4.393062	CACACTCTACGAGATGCCAATTTT	59.607	41.667	0.00	0.00	33.32	1.82
155	156	5.003804	ACACTCTACGAGATGCCAATTTTT	58.996	37.500	0.00	0.00	33.32	1.94
271	273	1.261938	TACATCCTCCCACCCACGTG	61.262	60.000	9.08	9.08	39.91	4.49
387	391	1.590525	GTCGTCACACAGGTCGCAA	60.591	57.895	0.00	0.00	0.00	4.85
388	392	0.944311	GTCGTCACACAGGTCGCAAT	60.944	55.000	0.00	0.00	0.00	3.56
795	809	2.046700	GGATCGCCGGTTCCAACA	60.047	61.111	1.90	0.00	33.08	3.33
1306	1370	0.390472	GTTCTTCAGGTGGAGGAGCG	60.390	60.000	0.00	0.00	32.66	5.03
2170	3533	9.524106	TCATTTAAAATGTGCAGATGATCATTC	57.476	29.630	10.14	3.48	31.41	2.67
2171	3534	9.308318	CATTTAAAATGTGCAGATGATCATTCA	57.692	29.630	10.14	5.95	36.00	2.57
2173	3536	9.878667	TTTAAAATGTGCAGATGATCATTCATT	57.121	25.926	10.14	12.17	42.73	2.57
2723	4194	9.967451	TCCTGTCAAAATGACCATTACTATTTA	57.033	29.630	7.94	0.00	46.40	1.40

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
22	23	3.767230	CAAGCCGACACGAGCACG	61.767	66.667	0.76	0.76	45.75	5.34
23	24	4.077188	GCAAGCCGACACGAGCAC	62.077	66.667	0.00	0.00	0.00	4.40
36	37	2.498941	TATCTCTCCGGCCGGCAAG	61.499	63.158	39.89	33.81	34.68	4.01
37	38	2.443203	TATCTCTCCGGCCGGCAA	60.443	61.111	39.89	26.90	34.68	4.52
38	39	3.224324	GTATCTCTCCGGCCGGCA	61.224	66.667	39.89	26.14	34.68	5.69
39	40	2.100879	ATTGTATCTCTCCGGCCGGC	62.101	60.000	39.89	23.41	34.68	6.13
40	41	0.393077	AATTGTATCTCTCCGGCCGG	59.607	55.000	39.13	39.13	0.00	6.13
41	42	3.594603	ATAATTGTATCTCTCCGGCCG	57.405	47.619	21.04	21.04	0.00	6.13
42	43	3.927142	CGAATAATTGTATCTCTCCGGCC	59.073	47.826	0.00	0.00	0.00	6.13
43	44	3.927142	CCGAATAATTGTATCTCTCCGGC	59.073	47.826	0.00	0.00	0.00	6.13
44	45	3.927142	GCCGAATAATTGTATCTCTCCGG	59.073	47.826	0.00	0.00	36.63	5.14
45	46	4.386049	GTGCCGAATAATTGTATCTCTCCG	59.614	45.833	0.00	0.00	0.00	4.63
46	47	4.691216	GGTGCCGAATAATTGTATCTCTCC	59.309	45.833	0.00	0.00	0.00	3.71
47	48	4.386049	CGGTGCCGAATAATTGTATCTCTC	59.614	45.833	4.35	0.00	42.83	3.20
48	49	4.202223	ACGGTGCCGAATAATTGTATCTCT	60.202	41.667	18.16	0.00	42.83	3.10
49	50	4.056050	ACGGTGCCGAATAATTGTATCTC	58.944	43.478	18.16	0.00	42.83	2.75
50	51	4.056050	GACGGTGCCGAATAATTGTATCT	58.944	43.478	18.16	0.00	42.83	1.98
51	52	3.185797	GGACGGTGCCGAATAATTGTATC	59.814	47.826	18.16	0.08	42.83	2.24
52	53	3.135994	GGACGGTGCCGAATAATTGTAT	58.864	45.455	18.16	0.00	42.83	2.29
53	54	2.553086	GGACGGTGCCGAATAATTGTA	58.447	47.619	18.16	0.00	42.83	2.41
54	55	1.375551	GGACGGTGCCGAATAATTGT	58.624	50.000	18.16	0.00	42.83	2.71
68	69	0.530650	CTGATGGATGAACCGGACGG	60.531	60.000	9.46	9.56	42.61	4.79
69	70	1.154205	GCTGATGGATGAACCGGACG	61.154	60.000	9.46	0.00	42.61	4.79
70	71	1.154205	CGCTGATGGATGAACCGGAC	61.154	60.000	9.46	1.77	42.61	4.79
71	72	1.143838	CGCTGATGGATGAACCGGA	59.856	57.895	9.46	0.00	42.61	5.14
72	73	1.153369	ACGCTGATGGATGAACCGG	60.153	57.895	0.00	0.00	42.61	5.28
73	74	1.482621	CGACGCTGATGGATGAACCG	61.483	60.000	0.00	0.00	42.61	4.44
74	75	1.766143	GCGACGCTGATGGATGAACC	61.766	60.000	13.73	0.00	39.54	3.62
75	76	1.638467	GCGACGCTGATGGATGAAC	59.362	57.895	13.73	0.00	0.00	3.18
76	77	1.878069	CGCGACGCTGATGGATGAA	60.878	57.895	19.02	0.00	0.00	2.57
77	78	2.278792	CGCGACGCTGATGGATGA	60.279	61.111	19.02	0.00	0.00	2.92
95	96	4.529219	TAGCGCATGCAGACCGGG	62.529	66.667	19.57	0.00	46.23	5.73
96	97	2.963854	CTAGCGCATGCAGACCGG	60.964	66.667	19.57	0.00	46.23	5.28
97	98	2.683820	TAGCTAGCGCATGCAGACCG	62.684	60.000	19.57	1.33	46.23	4.79
98	99	0.943359	CTAGCTAGCGCATGCAGACC	60.943	60.000	19.57	2.43	46.23	3.85
99	100	1.555741	GCTAGCTAGCGCATGCAGAC	61.556	60.000	28.89	6.36	46.23	3.51
100	101	1.300465	GCTAGCTAGCGCATGCAGA	60.300	57.895	28.89	11.67	46.23	4.26
101	102	3.242151	GCTAGCTAGCGCATGCAG	58.758	61.111	28.89	18.11	46.23	4.41
108	109	6.477355	TGTTCTCTACAGTAGCTAGCTAGCG	61.477	48.000	34.01	24.02	42.02	4.26
109	110	4.817464	TGTTCTCTACAGTAGCTAGCTAGC	59.183	45.833	33.96	33.96	39.71	3.42
110	111	5.818336	TGTGTTCTCTACAGTAGCTAGCTAG	59.182	44.000	24.78	16.84	37.45	3.42
111	112	5.585445	GTGTGTTCTCTACAGTAGCTAGCTA	59.415	44.000	20.67	20.67	37.45	3.32
112	113	4.396790	GTGTGTTCTCTACAGTAGCTAGCT	59.603	45.833	23.12	23.12	37.45	3.32
113	114	4.396790	AGTGTGTTCTCTACAGTAGCTAGC	59.603	45.833	6.62	6.62	37.45	3.42
114	115	5.878116	AGAGTGTGTTCTCTACAGTAGCTAG	59.122	44.000	2.26	0.00	42.18	3.42
115	116	5.806818	AGAGTGTGTTCTCTACAGTAGCTA	58.193	41.667	2.26	0.00	42.18	3.32
116	117	4.658063	AGAGTGTGTTCTCTACAGTAGCT	58.342	43.478	2.26	0.00	42.18	3.32
193	194	7.541162	TCACGAGTTCGATTCTCCTTTAATAA	58.459	34.615	8.72	0.00	43.02	1.40
380	384	2.348104	GGGGTTGGGAATTGCGACC	61.348	63.158	11.22	11.22	0.00	4.79
387	391	3.739613	GGGCGAGGGGTTGGGAAT	61.740	66.667	0.00	0.00	0.00	3.01
441	445	2.362736	CAGAGGATCATGTGTGGGTTG	58.637	52.381	0.00	0.00	37.82	3.77
795	809	0.179084	CTCCACCGTGTTCACACTGT	60.179	55.000	8.41	5.01	43.47	3.55
1306	1370	1.531578	GAGCACGTCCAACTTCTTTCC	59.468	52.381	0.00	0.00	0.00	3.13
1722	1802	6.380095	TTTAAGCGGTGAAATTACTTGTGT	57.620	33.333	0.00	0.00	0.00	3.72
2170	3533	2.482721	GACGTGGGTTTGACACCTAATG	59.517	50.000	0.00	0.00	46.38	1.90
2171	3534	2.551504	GGACGTGGGTTTGACACCTAAT	60.552	50.000	0.00	0.00	46.38	1.73
2172	3535	1.202675	GGACGTGGGTTTGACACCTAA	60.203	52.381	0.00	0.00	46.38	2.69
2173	3536	0.393820	GGACGTGGGTTTGACACCTA	59.606	55.000	0.00	0.00	46.38	3.08
2404	3769	8.324163	TGCATCAATTCTCAGAATCATATCAG	57.676	34.615	0.00	0.00	0.00	2.90

Based at the University of Bristol with support from BBSRC.

AutoCloner maintained by Alex Coulton.