AutoCloner

Multiple sequence alignment - TraesCS2A01G160900

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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	TraesCS2A01G160900	chr2A	100.000	2549	0	0	1	2549	111917880	111920428	0.000000e+00	4708.0
1	TraesCS2A01G160900	chr2A	93.722	1577	97	2	1	1576	468319945	468321520	0.000000e+00	2362.0
2	TraesCS2A01G160900	chr2A	87.136	1578	199	2	2	1575	46102490	46100913	0.000000e+00	1786.0
3	TraesCS2A01G160900	chr2A	90.000	110	10	1	1780	1888	112740227	112740336	9.510000e-30	141.0
4	TraesCS2A01G160900	chr2A	100.000	47	0	0	2227	2273	111920022	111920068	1.260000e-13	87.9
5	TraesCS2A01G160900	chr2A	100.000	47	0	0	2143	2189	111920106	111920152	1.260000e-13	87.9
6	TraesCS2A01G160900	chr1B	92.821	1574	105	3	3	1576	473234657	473236222	0.000000e+00	2274.0
7	TraesCS2A01G160900	chr7D	91.497	1576	134	0	1	1576	408467868	408469443	0.000000e+00	2169.0
8	TraesCS2A01G160900	chr4B	91.244	1576	118	4	1	1575	519499521	519497965	0.000000e+00	2128.0
9	TraesCS2A01G160900	chr1A	88.053	1582	176	10	1	1580	491308532	491310102	0.000000e+00	1862.0
10	TraesCS2A01G160900	chr1A	84.976	1451	216	2	2	1451	573918648	573920097	0.000000e+00	1471.0
11	TraesCS2A01G160900	chr3B	82.524	1585	267	5	1	1576	707255101	707253518	0.000000e+00	1384.0
12	TraesCS2A01G160900	chr6D	91.222	900	79	0	679	1578	20785890	20784991	0.000000e+00	1225.0
13	TraesCS2A01G160900	chr3A	85.867	1125	156	2	454	1576	711282123	711283246	0.000000e+00	1194.0
14	TraesCS2A01G160900	chr2D	93.128	422	20	3	1780	2200	111577081	111577494	6.030000e-171	610.0
15	TraesCS2A01G160900	chr2D	93.165	278	11	5	2275	2548	111578647	111578920	3.950000e-108	401.0
16	TraesCS2A01G160900	chr2D	86.452	155	13	6	1575	1721	111576793	111576947	2.030000e-36	163.0
17	TraesCS2A01G160900	chr2D	84.127	126	16	3	1780	1905	112094443	112094564	4.450000e-23	119.0
18	TraesCS2A01G160900	chr2D	97.917	48	1	0	2226	2273	111577436	111577483	1.630000e-12	84.2
19	TraesCS2A01G160900	chr2B	89.744	429	27	6	1780	2200	161719347	161719766	1.340000e-147	532.0
20	TraesCS2A01G160900	chr2B	90.253	277	20	6	2274	2547	161720910	161721182	3.120000e-94	355.0
21	TraesCS2A01G160900	chr2B	94.737	114	6	0	1575	1688	161719061	161719174	7.250000e-41	178.0
22	TraesCS2A01G160900	chr2B	100.000	36	0	0	1686	1721	161719187	161719222	1.640000e-07	67.6

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	TraesCS2A01G160900	chr2A	111917880	111920428	2548	False	1627.933333	4708	100.0000	1	2549	3	chr2A.!!$F3	2548
1	TraesCS2A01G160900	chr2A	468319945	468321520	1575	False	2362.000000	2362	93.7220	1	1576	1	chr2A.!!$F2	1575
2	TraesCS2A01G160900	chr2A	46100913	46102490	1577	True	1786.000000	1786	87.1360	2	1575	1	chr2A.!!$R1	1573
3	TraesCS2A01G160900	chr1B	473234657	473236222	1565	False	2274.000000	2274	92.8210	3	1576	1	chr1B.!!$F1	1573
4	TraesCS2A01G160900	chr7D	408467868	408469443	1575	False	2169.000000	2169	91.4970	1	1576	1	chr7D.!!$F1	1575
5	TraesCS2A01G160900	chr4B	519497965	519499521	1556	True	2128.000000	2128	91.2440	1	1575	1	chr4B.!!$R1	1574
6	TraesCS2A01G160900	chr1A	491308532	491310102	1570	False	1862.000000	1862	88.0530	1	1580	1	chr1A.!!$F1	1579
7	TraesCS2A01G160900	chr1A	573918648	573920097	1449	False	1471.000000	1471	84.9760	2	1451	1	chr1A.!!$F2	1449
8	TraesCS2A01G160900	chr3B	707253518	707255101	1583	True	1384.000000	1384	82.5240	1	1576	1	chr3B.!!$R1	1575
9	TraesCS2A01G160900	chr6D	20784991	20785890	899	True	1225.000000	1225	91.2220	679	1578	1	chr6D.!!$R1	899
10	TraesCS2A01G160900	chr3A	711282123	711283246	1123	False	1194.000000	1194	85.8670	454	1576	1	chr3A.!!$F1	1122
11	TraesCS2A01G160900	chr2D	111576793	111578920	2127	False	314.550000	610	92.6655	1575	2548	4	chr2D.!!$F2	973
12	TraesCS2A01G160900	chr2B	161719061	161721182	2121	False	283.150000	532	93.6835	1575	2547	4	chr2B.!!$F1	972

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
285	286	0.455005	CCCGTCTAAACCGAGTCTCC	59.545	60.0	0.0	0.0	0.0	3.71	F

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability	Orientation
2046	2161	0.321653	AAAGAGATCAAAGCGGCGGT	60.322	50.0	5.44	5.44	0.0	5.68	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
109	110	4.145365	CTGGATACGGTATTTCCCAACA	57.855	45.455	1.57	0.00	42.51	3.33
110	111	3.875134	CTGGATACGGTATTTCCCAACAC	59.125	47.826	1.57	0.00	42.51	3.32
117	118	3.621214	CGGTATTTCCCAACACTGGATCA	60.621	47.826	0.00	0.00	46.92	2.92
285	286	0.455005	CCCGTCTAAACCGAGTCTCC	59.545	60.000	0.00	0.00	0.00	3.71
313	314	0.632835	AGATGGGAATGGTGCATGGT	59.367	50.000	0.00	0.00	0.00	3.55
364	365	4.098960	GGCAGATGGACATTGATCACATTT	59.901	41.667	0.00	0.00	0.00	2.32
416	417	5.779241	TGTGATTTTATCTCCTGGTTCCT	57.221	39.130	0.00	0.00	0.00	3.36
503	504	2.481854	CTTCGCAGGAGGATCATCTTG	58.518	52.381	14.49	14.49	36.25	3.02
577	584	4.517285	GGTGCCACAGAAGATGAAGATAA	58.483	43.478	0.00	0.00	0.00	1.75
648	655	6.452494	AAGTACAGACATGTATCTAAGCGT	57.548	37.500	0.00	0.00	43.62	5.07
766	773	3.917760	GGCCTCTCCCGTCGGATG	61.918	72.222	14.39	4.93	37.60	3.51
826	833	3.055312	TCTGCTCACTCAATGCTCTGATT	60.055	43.478	0.00	0.00	0.00	2.57
1006	1015	6.811665	AGAAATACTAAAAGGAAAAATGCCGC	59.188	34.615	0.00	0.00	0.00	6.53
1176	1191	3.629883	TACGGTACTGTTGGCGGCG	62.630	63.158	13.66	0.51	0.00	6.46
1204	1219	6.869388	TCGCTACATGTTTAACTGTAATGACA	59.131	34.615	2.30	0.00	0.00	3.58
1294	1309	1.007734	GTTGTGCAGTCGGACTCGA	60.008	57.895	7.89	0.00	43.86	4.04
1386	1403	9.225436	GAGATTAAAGAGTTGATGAAGGAAAGT	57.775	33.333	0.00	0.00	0.00	2.66
1424	1441	8.525316	TCAGAAATTACACCGTAGTCAGAATAA	58.475	33.333	0.00	0.00	0.00	1.40
1490	1507	1.961277	CTGTGTGGGTTCACTCGGC	60.961	63.158	0.00	0.00	43.94	5.54
1565	1588	4.081309	GCAATAAAACTCCCTTTTACCCCC	60.081	45.833	0.00	0.00	37.19	5.40
1728	1797	4.184629	GCAGAAAAAGCTAAGATCTCGGA	58.815	43.478	0.00	0.00	0.00	4.55
1731	1800	4.223032	AGAAAAAGCTAAGATCTCGGACCA	59.777	41.667	0.00	0.00	0.00	4.02
1734	1803	2.741145	AGCTAAGATCTCGGACCAGTT	58.259	47.619	0.00	0.00	0.00	3.16
1736	1805	2.541999	GCTAAGATCTCGGACCAGTTCG	60.542	54.545	0.00	0.00	0.00	3.95
1752	1825	5.714806	ACCAGTTCGAAAAATACAATGGGAT	59.285	36.000	0.00	0.00	0.00	3.85
1763	1836	8.846943	AAAATACAATGGGATGGAAAAGAAAC	57.153	30.769	0.00	0.00	0.00	2.78
1767	1840	6.022315	ACAATGGGATGGAAAAGAAACCATA	58.978	36.000	0.00	0.00	45.41	2.74
1875	1989	2.231716	TCAACCAGGCTCTAGCAGTA	57.768	50.000	4.07	0.00	44.36	2.74
1884	1998	1.382695	TCTAGCAGTACCTGGGCCC	60.383	63.158	17.59	17.59	31.21	5.80
1906	2020	2.280524	CCGAGGAACACGTGGCAA	60.281	61.111	21.57	0.00	41.73	4.52
1985	2100	2.033372	TGACAACGTGGAGTGTTAGGA	58.967	47.619	0.00	0.00	0.00	2.94
1987	2102	1.269413	ACAACGTGGAGTGTTAGGACG	60.269	52.381	0.00	0.00	36.14	4.79
2006	2121	1.675641	GGGGCACATTTGTCGCTCT	60.676	57.895	0.00	0.00	37.32	4.09
2023	2138	4.953010	TCGACCGACCCACCGACA	62.953	66.667	0.00	0.00	0.00	4.35
2070	2185	4.438744	CCGCCGCTTTGATCTCTTTATTTT	60.439	41.667	0.00	0.00	0.00	1.82
2108	2223	9.647797	AAATCTCACGTCAAATACTACATTACA	57.352	29.630	0.00	0.00	0.00	2.41
2149	2271	0.034896	TTGTTTCTGCCCTCGAGTCC	59.965	55.000	12.31	2.01	0.00	3.85
2196	2318	1.403647	CCAGTGCCACGTCGATTCTAA	60.404	52.381	0.00	0.00	0.00	2.10
2200	2322	1.067142	TGCCACGTCGATTCTAAGCTT	60.067	47.619	3.48	3.48	0.00	3.74
2201	2323	2.164827	TGCCACGTCGATTCTAAGCTTA	59.835	45.455	5.94	5.94	0.00	3.09
2202	2324	2.789893	GCCACGTCGATTCTAAGCTTAG	59.210	50.000	24.90	24.90	0.00	2.18
2203	2325	3.488721	GCCACGTCGATTCTAAGCTTAGA	60.489	47.826	28.47	28.47	37.97	2.10
2204	2326	4.283678	CCACGTCGATTCTAAGCTTAGAG	58.716	47.826	29.78	21.04	40.57	2.43
2205	2327	4.283678	CACGTCGATTCTAAGCTTAGAGG	58.716	47.826	29.78	23.32	40.57	3.69
2206	2328	3.946558	ACGTCGATTCTAAGCTTAGAGGT	59.053	43.478	29.78	23.64	40.57	3.85
2207	2329	4.201930	ACGTCGATTCTAAGCTTAGAGGTG	60.202	45.833	29.78	23.20	40.57	4.00
2208	2330	4.035324	CGTCGATTCTAAGCTTAGAGGTGA	59.965	45.833	29.78	24.65	40.57	4.02
2209	2331	5.448768	CGTCGATTCTAAGCTTAGAGGTGAA	60.449	44.000	29.78	18.80	40.57	3.18
2212	2334	7.492994	GTCGATTCTAAGCTTAGAGGTGAAATT	59.507	37.037	29.78	12.73	40.57	1.82
2217	2339	9.959721	TTCTAAGCTTAGAGGTGAAATTATGTT	57.040	29.630	29.78	0.00	40.57	2.71
2219	2341	7.396540	AAGCTTAGAGGTGAAATTATGTTGG	57.603	36.000	0.00	0.00	0.00	3.77
2222	2344	3.365472	AGAGGTGAAATTATGTTGGGCC	58.635	45.455	0.00	0.00	0.00	5.80
2224	2346	2.831526	AGGTGAAATTATGTTGGGCCAC	59.168	45.455	5.23	1.85	0.00	5.01
2225	2347	2.416701	GGTGAAATTATGTTGGGCCACG	60.417	50.000	5.23	0.00	0.00	4.94
2226	2348	2.230266	GTGAAATTATGTTGGGCCACGT	59.770	45.455	5.23	5.86	0.00	4.49
2227	2349	2.490115	TGAAATTATGTTGGGCCACGTC	59.510	45.455	5.23	0.00	0.00	4.34
2228	2350	1.091537	AATTATGTTGGGCCACGTCG	58.908	50.000	5.23	0.00	0.00	5.12
2229	2351	0.250793	ATTATGTTGGGCCACGTCGA	59.749	50.000	5.23	0.00	0.00	4.20
2230	2352	0.390603	TTATGTTGGGCCACGTCGAG	60.391	55.000	5.23	0.00	0.00	4.04
2232	2354	2.737376	GTTGGGCCACGTCGAGTC	60.737	66.667	5.23	0.00	0.00	3.36
2233	2355	3.998672	TTGGGCCACGTCGAGTCC	61.999	66.667	5.23	0.94	0.00	3.85
2240	2362	1.442857	CACGTCGAGTCCAGAGCAC	60.443	63.158	0.00	0.00	0.00	4.40
2243	2365	2.983592	TCGAGTCCAGAGCACGCA	60.984	61.111	0.00	0.00	0.00	5.24
2244	2366	2.807045	CGAGTCCAGAGCACGCAC	60.807	66.667	0.00	0.00	0.00	5.34
2245	2367	2.433318	GAGTCCAGAGCACGCACC	60.433	66.667	0.00	0.00	0.00	5.01
2247	2369	2.031163	GTCCAGAGCACGCACCTT	59.969	61.111	0.00	0.00	0.00	3.50
2248	2370	2.031012	TCCAGAGCACGCACCTTG	59.969	61.111	0.00	0.00	0.00	3.61
2249	2371	3.052082	CCAGAGCACGCACCTTGG	61.052	66.667	0.00	0.00	0.00	3.61
2250	2372	3.730761	CAGAGCACGCACCTTGGC	61.731	66.667	0.00	0.00	0.00	4.52
2251	2373	4.254709	AGAGCACGCACCTTGGCA	62.255	61.111	0.00	0.00	0.00	4.92
2252	2374	4.030452	GAGCACGCACCTTGGCAC	62.030	66.667	0.00	0.00	0.00	5.01
2253	2375	4.873810	AGCACGCACCTTGGCACA	62.874	61.111	0.00	0.00	0.00	4.57
2266	2388	3.368571	GCACAAGGAGGCCAGTGC	61.369	66.667	17.24	17.24	45.19	4.40
2396	3604	9.877178	TTTTGGTCATATTTGTGTTGTTTTACT	57.123	25.926	0.00	0.00	0.00	2.24
2410	3618	9.418045	GTGTTGTTTTACTTACATGGCATATTT	57.582	29.630	0.00	0.00	0.00	1.40
2483	3695	8.443953	TTTTTGGTTTTGATTTTACATCCTGG	57.556	30.769	0.00	0.00	0.00	4.45
2484	3696	5.146010	TGGTTTTGATTTTACATCCTGGC	57.854	39.130	0.00	0.00	0.00	4.85
2485	3697	4.590647	TGGTTTTGATTTTACATCCTGGCA	59.409	37.500	0.00	0.00	0.00	4.92
2486	3698	5.248020	TGGTTTTGATTTTACATCCTGGCAT	59.752	36.000	0.00	0.00	0.00	4.40
2490	3702	9.213799	GTTTTGATTTTACATCCTGGCATTTTA	57.786	29.630	0.00	0.00	0.00	1.52
2501	3713	6.699575	TCCTGGCATTTTATTTCTTCTAGC	57.300	37.500	0.00	0.00	0.00	3.42

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
109	110	0.904865	TTCCAGACCGCTGATCCAGT	60.905	55.000	0.00	0.00	45.17	4.00
110	111	0.250234	TTTCCAGACCGCTGATCCAG	59.750	55.000	0.00	0.00	45.17	3.86
117	118	0.831307	GGATACCTTTCCAGACCGCT	59.169	55.000	0.00	0.00	35.72	5.52
270	271	3.129988	GGAAATCGGAGACTCGGTTTAGA	59.870	47.826	9.59	0.00	42.58	2.10
313	314	1.878211	TGTGACAGCCTATCCATCCA	58.122	50.000	0.00	0.00	0.00	3.41
364	365	4.521256	CCTTGGGGACGTTCTTATTTTCAA	59.479	41.667	0.00	0.00	33.58	2.69
416	417	2.978156	AAACAGCCCATTCTTCTCCA	57.022	45.000	0.00	0.00	0.00	3.86
503	504	0.529378	CCTGCCATTTGGTGCTTCTC	59.471	55.000	0.00	0.00	37.57	2.87
577	584	1.152839	CCACCACCTTCCAAACCGT	60.153	57.895	0.00	0.00	0.00	4.83
648	655	1.134521	CCACATAGCGGGCAAGTAGAA	60.135	52.381	0.00	0.00	0.00	2.10
669	676	4.203226	GGAATTCATTCTCCTCCTCAACC	58.797	47.826	7.93	0.00	37.00	3.77
766	773	1.871080	CCGGTATTGATCAGCAGTCC	58.129	55.000	0.00	0.00	0.00	3.85
826	833	7.879677	CAGCATGATTACCATATCTCAAACCTA	59.120	37.037	0.00	0.00	39.69	3.08
925	933	7.159322	ACTTGTAGTAACTGTCCAGATACTG	57.841	40.000	20.94	10.85	43.77	2.74
1006	1015	2.554462	TGTCCGTCTTCTGTTCTGAGAG	59.446	50.000	0.00	0.00	0.00	3.20
1138	1153	5.475220	CCGTACCTGACTCATCTCTCAATAT	59.525	44.000	0.00	0.00	0.00	1.28
1176	1191	9.027129	TCATTACAGTTAAACATGTAGCGATAC	57.973	33.333	3.32	3.32	33.66	2.24
1204	1219	2.044793	TGGATCTCCACCTCCAAAGT	57.955	50.000	0.00	0.00	42.01	2.66
1294	1309	0.687354	AACACTGAGAGGCCAATCGT	59.313	50.000	5.01	2.33	0.00	3.73
1386	1403	8.776470	CGGTGTAATTTCTGAGGTAAAAACTTA	58.224	33.333	0.00	0.00	0.00	2.24
1387	1404	7.283807	ACGGTGTAATTTCTGAGGTAAAAACTT	59.716	33.333	0.00	0.00	0.00	2.66
1424	1441	3.610040	TTGTCAACCGATCTGCTACAT	57.390	42.857	0.00	0.00	0.00	2.29
1490	1507	5.365021	AAGATCCTCAATACAAGGTGGAG	57.635	43.478	0.00	0.00	35.29	3.86
1587	1610	1.682849	CCCCCTGGAAACATCGTCA	59.317	57.895	0.00	0.00	41.51	4.35
1728	1797	5.074115	TCCCATTGTATTTTTCGAACTGGT	58.926	37.500	0.00	0.00	0.00	4.00
1731	1800	5.949354	TCCATCCCATTGTATTTTTCGAACT	59.051	36.000	0.00	0.00	0.00	3.01
1734	1803	6.842437	TTTCCATCCCATTGTATTTTTCGA	57.158	33.333	0.00	0.00	0.00	3.71
1736	1805	9.500785	TTTCTTTTCCATCCCATTGTATTTTTC	57.499	29.630	0.00	0.00	0.00	2.29
1752	1825	6.712998	TCTCACGAATTATGGTTTCTTTTCCA	59.287	34.615	0.00	0.00	38.14	3.53
1763	1836	3.689161	TGTTTGCCTCTCACGAATTATGG	59.311	43.478	0.00	0.00	0.00	2.74
1767	1840	3.476552	TCTTGTTTGCCTCTCACGAATT	58.523	40.909	0.00	0.00	0.00	2.17
1884	1998	4.657824	ACGTGTTCCTCGGTGCCG	62.658	66.667	3.94	3.94	41.35	5.69
1977	2092	2.046604	GTGCCCCCGTCCTAACAC	60.047	66.667	0.00	0.00	0.00	3.32
1985	2100	2.671619	CGACAAATGTGCCCCCGT	60.672	61.111	0.00	0.00	0.00	5.28
1987	2102	2.676471	AGCGACAAATGTGCCCCC	60.676	61.111	0.00	0.00	0.00	5.40
2006	2121	4.953010	TGTCGGTGGGTCGGTCGA	62.953	66.667	0.00	0.00	0.00	4.20
2023	2138	4.157120	GGTACGCGGGGCTCACAT	62.157	66.667	12.47	0.00	0.00	3.21
2046	2161	0.321653	AAAGAGATCAAAGCGGCGGT	60.322	50.000	5.44	5.44	0.00	5.68
2070	2185	7.107639	TGACGTGAGATTTATAGTGATTCCA	57.892	36.000	0.00	0.00	0.00	3.53
2125	2240	1.134220	TCGAGGGCAGAAACAACACTT	60.134	47.619	0.00	0.00	0.00	3.16
2140	2255	2.487428	CGTGCTCTGGACTCGAGG	59.513	66.667	18.41	0.00	0.00	4.63
2141	2256	2.202544	GCGTGCTCTGGACTCGAG	60.203	66.667	11.84	11.84	0.00	4.04
2149	2271	3.730761	GCCAAGGTGCGTGCTCTG	61.731	66.667	0.00	0.00	0.00	3.35
2196	2318	5.888161	CCCAACATAATTTCACCTCTAAGCT	59.112	40.000	0.00	0.00	0.00	3.74
2200	2322	4.017958	TGGCCCAACATAATTTCACCTCTA	60.018	41.667	0.00	0.00	0.00	2.43
2201	2323	3.245586	TGGCCCAACATAATTTCACCTCT	60.246	43.478	0.00	0.00	0.00	3.69
2202	2324	3.096092	TGGCCCAACATAATTTCACCTC	58.904	45.455	0.00	0.00	0.00	3.85
2203	2325	2.831526	GTGGCCCAACATAATTTCACCT	59.168	45.455	0.00	0.00	0.00	4.00
2204	2326	2.416701	CGTGGCCCAACATAATTTCACC	60.417	50.000	0.00	0.00	0.00	4.02
2205	2327	2.230266	ACGTGGCCCAACATAATTTCAC	59.770	45.455	0.00	0.00	0.00	3.18
2206	2328	2.490115	GACGTGGCCCAACATAATTTCA	59.510	45.455	0.00	0.00	0.00	2.69
2207	2329	2.477189	CGACGTGGCCCAACATAATTTC	60.477	50.000	0.00	0.00	0.00	2.17
2208	2330	1.470890	CGACGTGGCCCAACATAATTT	59.529	47.619	0.00	0.00	0.00	1.82
2209	2331	1.091537	CGACGTGGCCCAACATAATT	58.908	50.000	0.00	0.00	0.00	1.40
2212	2334	1.216977	CTCGACGTGGCCCAACATA	59.783	57.895	0.00	0.00	0.00	2.29
2216	2338	3.998672	GGACTCGACGTGGCCCAA	61.999	66.667	10.81	0.00	0.00	4.12
2219	2341	3.343788	CTCTGGACTCGACGTGGCC	62.344	68.421	14.95	14.95	0.00	5.36
2222	2344	1.442857	GTGCTCTGGACTCGACGTG	60.443	63.158	0.00	0.00	0.00	4.49
2224	2346	2.202362	CGTGCTCTGGACTCGACG	60.202	66.667	0.00	0.00	0.00	5.12
2225	2347	2.505118	GCGTGCTCTGGACTCGAC	60.505	66.667	0.00	0.00	0.00	4.20
2226	2348	2.983592	TGCGTGCTCTGGACTCGA	60.984	61.111	0.00	0.00	0.00	4.04
2227	2349	2.807045	GTGCGTGCTCTGGACTCG	60.807	66.667	0.00	0.00	0.00	4.18
2228	2350	2.433318	GGTGCGTGCTCTGGACTC	60.433	66.667	0.00	0.00	0.00	3.36
2229	2351	2.511452	AAGGTGCGTGCTCTGGACT	61.511	57.895	0.00	0.00	0.00	3.85
2230	2352	2.031163	AAGGTGCGTGCTCTGGAC	59.969	61.111	0.00	0.00	0.00	4.02
2232	2354	3.052082	CCAAGGTGCGTGCTCTGG	61.052	66.667	0.00	0.00	0.00	3.86
2233	2355	3.730761	GCCAAGGTGCGTGCTCTG	61.731	66.667	0.00	0.00	0.00	3.35
2234	2356	4.254709	TGCCAAGGTGCGTGCTCT	62.255	61.111	0.00	0.00	0.00	4.09
2240	2362	2.594303	TCCTTGTGCCAAGGTGCG	60.594	61.111	24.54	7.74	38.55	5.34
2243	2365	2.116125	GCCTCCTTGTGCCAAGGT	59.884	61.111	24.54	0.00	38.55	3.50
2249	2371	3.368571	GCACTGGCCTCCTTGTGC	61.369	66.667	17.23	17.23	42.85	4.57
2259	2381	0.673644	ATACAAGACGTGGCACTGGC	60.674	55.000	16.72	11.49	40.13	4.85
2260	2382	1.337728	TGATACAAGACGTGGCACTGG	60.338	52.381	16.72	3.31	0.00	4.00
2261	2383	2.078849	TGATACAAGACGTGGCACTG	57.921	50.000	16.72	9.53	0.00	3.66
2262	2384	3.334583	AATGATACAAGACGTGGCACT	57.665	42.857	16.72	2.45	0.00	4.40
2263	2385	4.419522	AAAATGATACAAGACGTGGCAC	57.580	40.909	7.79	7.79	0.00	5.01
2264	2386	4.998033	TGTAAAATGATACAAGACGTGGCA	59.002	37.500	0.00	0.00	33.02	4.92
2266	2388	8.192068	TGTATGTAAAATGATACAAGACGTGG	57.808	34.615	0.00	0.00	39.12	4.94
2267	2389	9.636965	CATGTATGTAAAATGATACAAGACGTG	57.363	33.333	0.00	10.83	38.29	4.49
2268	2390	8.826710	CCATGTATGTAAAATGATACAAGACGT	58.173	33.333	0.00	0.00	38.29	4.34
2269	2391	9.040939	TCCATGTATGTAAAATGATACAAGACG	57.959	33.333	0.00	0.00	38.29	4.18
2298	3504	9.995003	AAATTTGTCATGCTTTGTATAGGAAAA	57.005	25.926	0.00	0.00	0.00	2.29
2396	3604	8.147058	AGTGTTTGAACAAAATATGCCATGTAA	58.853	29.630	1.47	0.00	41.21	2.41
2410	3618	2.241176	AGTGAGGGGAGTGTTTGAACAA	59.759	45.455	0.00	0.00	41.21	2.83
2479	3691	6.705863	AGCTAGAAGAAATAAAATGCCAGG	57.294	37.500	0.00	0.00	0.00	4.45
2501	3713	8.950210	TGCCAAGAAAATGTAGAGAGAATAAAG	58.050	33.333	0.00	0.00	0.00	1.85

Based at the University of Bristol with support from BBSRC.

AutoCloner maintained by Alex Coulton.