AutoCloner

Multiple sequence alignment - TraesCS3D01G129700

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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	TraesCS3D01G129700	chr3D	100.000	3935	0	0	1	3935	89800040	89803974	0.000000e+00	7267.0
1	TraesCS3D01G129700	chr3D	83.173	624	84	12	1009	1611	44203344	44203967	5.750000e-153	551.0
2	TraesCS3D01G129700	chr3D	77.629	523	90	22	2085	2598	44210062	44210566	3.850000e-75	292.0
3	TraesCS3D01G129700	chr3B	96.013	1555	56	6	1603	3151	139222869	139224423	0.000000e+00	2523.0
4	TraesCS3D01G129700	chr3B	97.250	800	20	2	3136	3935	139224712	139225509	0.000000e+00	1354.0
5	TraesCS3D01G129700	chr3B	98.431	765	11	1	848	1611	139222071	139222835	0.000000e+00	1345.0
6	TraesCS3D01G129700	chr3B	86.699	827	75	23	12	819	139199848	139200658	0.000000e+00	885.0
7	TraesCS3D01G129700	chr3B	100.000	28	0	0	3136	3163	139224591	139224618	7.000000e-03	52.8
8	TraesCS3D01G129700	chr3A	96.087	1099	42	1	2043	3140	106402514	106403612	0.000000e+00	1790.0
9	TraesCS3D01G129700	chr3A	95.319	769	30	5	843	1611	106401321	106402083	0.000000e+00	1216.0
10	TraesCS3D01G129700	chr3A	94.805	616	28	4	3321	3935	106404172	106404784	0.000000e+00	957.0
11	TraesCS3D01G129700	chr3A	96.766	402	13	0	1603	2004	106402117	106402518	0.000000e+00	671.0
12	TraesCS3D01G129700	chr3A	80.410	439	75	11	1	434	106400405	106400837	1.360000e-84	324.0
13	TraesCS3D01G129700	chr3A	89.706	204	18	2	3136	3337	106403788	106403990	1.400000e-64	257.0
14	TraesCS3D01G129700	chr7D	80.275	436	65	9	1105	1540	486107908	486107494	3.820000e-80	309.0
15	TraesCS3D01G129700	chr7D	79.016	386	58	14	1165	1541	486242827	486242456	3.930000e-60	243.0
16	TraesCS3D01G129700	chr7D	77.746	346	66	5	1108	1449	486307023	486307361	6.670000e-48	202.0
17	TraesCS3D01G129700	chr6B	79.867	452	55	22	1109	1548	567844254	567844681	8.270000e-77	298.0
18	TraesCS3D01G129700	chr7B	79.710	414	63	11	1105	1518	513771538	513771146	2.990000e-71	279.0
19	TraesCS3D01G129700	chr6D	79.452	438	48	18	1110	1547	380576964	380576569	5.010000e-69	272.0
20	TraesCS3D01G129700	chr6D	77.801	473	73	23	1086	1548	380495594	380496044	3.020000e-66	263.0
21	TraesCS3D01G129700	chr6D	77.976	336	59	13	1119	1445	39488526	39488855	3.100000e-46	196.0
22	TraesCS3D01G129700	chr7A	77.701	435	83	7	1110	1540	554502714	554502290	1.810000e-63	254.0
23	TraesCS3D01G129700	chr6A	76.712	438	70	25	1114	1532	51480104	51479680	8.560000e-52	215.0
24	TraesCS3D01G129700	chr6A	80.087	231	29	11	1117	1346	19829076	19829290	5.260000e-34	156.0
25	TraesCS3D01G129700	chr5A	77.259	343	59	16	1117	1445	47120847	47121184	2.420000e-42	183.0

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	TraesCS3D01G129700	chr3D	89800040	89803974	3934	False	7267.000000	7267	100.000000	1	3935	1	chr3D.!!$F3	3934
1	TraesCS3D01G129700	chr3D	44203344	44203967	623	False	551.000000	551	83.173000	1009	1611	1	chr3D.!!$F1	602
2	TraesCS3D01G129700	chr3D	44210062	44210566	504	False	292.000000	292	77.629000	2085	2598	1	chr3D.!!$F2	513
3	TraesCS3D01G129700	chr3B	139222071	139225509	3438	False	1318.700000	2523	97.923500	848	3935	4	chr3B.!!$F2	3087
4	TraesCS3D01G129700	chr3B	139199848	139200658	810	False	885.000000	885	86.699000	12	819	1	chr3B.!!$F1	807
5	TraesCS3D01G129700	chr3A	106400405	106404784	4379	False	869.166667	1790	92.182167	1	3935	6	chr3A.!!$F1	3934

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
52	54	1.816074	TCTTCCGAAAAATGTCCCGG	58.184	50.0	0.00	0.00	43.02	5.73	F
1885	2060	0.111061	TTCACCAGCTGCAGATTGGT	59.889	50.0	28.02	28.02	45.77	3.67	F

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability	Orientation
2027	2248	1.138069	ACACATCAGTTGACACACCGA	59.862	47.619	0.0	0.0	0.00	4.69	R
3399	4135	0.815213	GTGGCTGCACACTGAGTTGA	60.815	55.000	0.5	0.0	38.32	3.18	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	9.624697	TTTTTAAATGACATGAAGATTCTTCCG	57.375	29.630	20.87	15.07	0.00	4.30
48	50	7.308435	ACATGAAGATTCTTCCGAAAAATGTC	58.692	34.615	20.87	0.00	31.91	3.06
52	54	1.816074	TCTTCCGAAAAATGTCCCGG	58.184	50.000	0.00	0.00	43.02	5.73
170	174	9.804758	TGATTCAACCAACTTTTTAATTACGTT	57.195	25.926	0.00	0.00	0.00	3.99
621	670	6.639671	TTTTTCAAATGGTTCGAACACTTG	57.360	33.333	28.24	24.06	0.00	3.16
628	677	4.619437	TGGTTCGAACACTTGTTAAACC	57.381	40.909	28.24	21.40	45.11	3.27
631	680	3.929417	TCGAACACTTGTTAAACCACG	57.071	42.857	0.00	0.00	38.56	4.94
637	686	3.127376	ACACTTGTTAAACCACGTGAACC	59.873	43.478	19.30	0.00	36.90	3.62
677	727	8.504812	AACTGTTTTTGCAAAATGTTTCAAAG	57.495	26.923	24.39	14.91	31.20	2.77
678	728	7.083230	ACTGTTTTTGCAAAATGTTTCAAAGG	58.917	30.769	24.39	7.26	31.20	3.11
685	735	4.819088	GCAAAATGTTTCAAAGGCCCTTTA	59.181	37.500	8.75	0.00	31.96	1.85
825	904	3.420893	TCGGCAAGAACATTCCATCTTT	58.579	40.909	0.00	0.00	33.73	2.52
1612	1787	3.194308	GAGCTCAGCTTGCTCGCC	61.194	66.667	18.90	2.30	45.73	5.54
1718	1893	3.700109	TCCTCTGGGAGTGCTTCG	58.300	61.111	0.00	0.00	36.57	3.79
1766	1941	2.032860	GCTCCTGGAGCGGCTCATTA	62.033	60.000	31.03	14.94	45.85	1.90
1885	2060	0.111061	TTCACCAGCTGCAGATTGGT	59.889	50.000	28.02	28.02	45.77	3.67
1968	2143	9.687210	CATATTCCAATCTGTATCCACATTTTG	57.313	33.333	0.00	0.00	33.14	2.44
1970	2145	7.773489	TTCCAATCTGTATCCACATTTTGAA	57.227	32.000	0.00	0.00	32.31	2.69
2004	2225	2.497138	CATGGCCTCTTCATTATGCGA	58.503	47.619	3.32	0.00	0.00	5.10
2005	2226	2.936919	TGGCCTCTTCATTATGCGAT	57.063	45.000	3.32	0.00	0.00	4.58
2006	2227	2.497138	TGGCCTCTTCATTATGCGATG	58.503	47.619	3.32	0.00	0.00	3.84
2007	2228	1.198637	GGCCTCTTCATTATGCGATGC	59.801	52.381	0.00	0.00	0.00	3.91
2008	2229	1.875514	GCCTCTTCATTATGCGATGCA	59.124	47.619	0.00	0.00	44.86	3.96
2009	2230	2.350197	GCCTCTTCATTATGCGATGCAC	60.350	50.000	0.00	0.00	43.04	4.57
2010	2231	2.874086	CCTCTTCATTATGCGATGCACA	59.126	45.455	0.00	0.00	43.04	4.57
2011	2232	3.501062	CCTCTTCATTATGCGATGCACAT	59.499	43.478	0.00	0.00	43.04	3.21
2012	2233	4.692155	CCTCTTCATTATGCGATGCACATA	59.308	41.667	0.00	0.00	43.04	2.29
2013	2234	5.163884	CCTCTTCATTATGCGATGCACATAG	60.164	44.000	0.00	0.00	43.04	2.23
2014	2235	4.152938	TCTTCATTATGCGATGCACATAGC	59.847	41.667	8.57	8.57	43.04	2.97
2029	2250	4.790140	GCACATAGCAAAACATTTCTCTCG	59.210	41.667	0.00	0.00	44.79	4.04
2030	2251	5.327091	CACATAGCAAAACATTTCTCTCGG	58.673	41.667	0.00	0.00	0.00	4.63
2031	2252	5.003804	ACATAGCAAAACATTTCTCTCGGT	58.996	37.500	0.00	0.00	0.00	4.69
2032	2253	3.904136	AGCAAAACATTTCTCTCGGTG	57.096	42.857	0.00	0.00	0.00	4.94
2033	2254	3.214328	AGCAAAACATTTCTCTCGGTGT	58.786	40.909	0.00	0.00	0.00	4.16
2034	2255	3.003689	AGCAAAACATTTCTCTCGGTGTG	59.996	43.478	0.00	0.00	0.00	3.82
2035	2256	3.243068	GCAAAACATTTCTCTCGGTGTGT	60.243	43.478	0.00	0.00	0.00	3.72
2036	2257	4.527564	CAAAACATTTCTCTCGGTGTGTC	58.472	43.478	0.00	0.00	0.00	3.67
2037	2258	3.469008	AACATTTCTCTCGGTGTGTCA	57.531	42.857	0.00	0.00	0.00	3.58
2038	2259	3.469008	ACATTTCTCTCGGTGTGTCAA	57.531	42.857	0.00	0.00	0.00	3.18
2039	2260	3.131396	ACATTTCTCTCGGTGTGTCAAC	58.869	45.455	0.00	0.00	0.00	3.18
2040	2261	3.181465	ACATTTCTCTCGGTGTGTCAACT	60.181	43.478	0.00	0.00	0.00	3.16
2041	2262	2.509052	TTCTCTCGGTGTGTCAACTG	57.491	50.000	0.00	0.00	0.00	3.16
2042	2263	1.687563	TCTCTCGGTGTGTCAACTGA	58.312	50.000	0.00	0.00	34.30	3.41
2043	2264	2.239400	TCTCTCGGTGTGTCAACTGAT	58.761	47.619	0.00	0.00	34.95	2.90
2044	2265	2.029918	TCTCTCGGTGTGTCAACTGATG	60.030	50.000	0.00	0.00	34.95	3.07
2045	2266	1.686587	TCTCGGTGTGTCAACTGATGT	59.313	47.619	0.00	0.00	34.95	3.06
2046	2267	1.794701	CTCGGTGTGTCAACTGATGTG	59.205	52.381	0.00	0.00	34.95	3.21
2059	2280	7.445096	TGTCAACTGATGTGTGAATCTTGTATT	59.555	33.333	0.00	0.00	0.00	1.89
2073	2294	8.611757	TGAATCTTGTATTTGATCATTGTACCG	58.388	33.333	0.00	0.00	0.00	4.02
2077	2298	5.412640	TGTATTTGATCATTGTACCGACGT	58.587	37.500	0.00	0.00	0.00	4.34
2108	2331	7.108847	AGTATGATCTCTCTTTCTTTTGGTGG	58.891	38.462	0.00	0.00	0.00	4.61
2220	2443	3.832175	AGGTCAAGATGCTGGCCT	58.168	55.556	3.32	0.00	46.90	5.19
2222	2445	1.001641	GGTCAAGATGCTGGCCTGT	60.002	57.895	11.69	0.00	38.13	4.00
2287	2510	3.071167	GTGACTTCTTTGTACCCTCCTGT	59.929	47.826	0.00	0.00	0.00	4.00
2395	2628	2.601194	TTTGCAGTCTGTCACGGCCA	62.601	55.000	2.24	0.00	45.00	5.36
2408	2641	1.303236	CGGCCAATGAACCCACTGA	60.303	57.895	2.24	0.00	0.00	3.41
2410	2643	1.560505	GGCCAATGAACCCACTGAAT	58.439	50.000	0.00	0.00	0.00	2.57
2719	2952	1.373812	GTGGCGGGTCCTAAAGTGT	59.626	57.895	0.00	0.00	35.26	3.55
3044	3277	1.226859	CAGCATTCCATGGCTTGCG	60.227	57.895	24.31	18.01	38.56	4.85
3097	3330	6.770785	GCCAATTCAACCCAGAGTATACAATA	59.229	38.462	5.50	0.00	0.00	1.90
3264	3802	5.654209	AGGGCCATATTCAGAAGAAGAAAAC	59.346	40.000	6.18	0.00	37.14	2.43
3266	3804	6.071391	GGGCCATATTCAGAAGAAGAAAACAA	60.071	38.462	4.39	0.00	37.14	2.83
3267	3805	7.031975	GGCCATATTCAGAAGAAGAAAACAAG	58.968	38.462	0.00	0.00	37.14	3.16
3338	4074	6.363577	CACATCAGTAGTGTTCAAGTTTGT	57.636	37.500	0.00	0.00	32.44	2.83
3399	4135	3.093814	TGCCTCAATGATTGCTTCATGT	58.906	40.909	0.00	0.00	44.51	3.21
3490	4226	1.776662	TCGTCTGACCCTTATCCCAG	58.223	55.000	1.55	0.00	0.00	4.45
3491	4227	1.286849	TCGTCTGACCCTTATCCCAGA	59.713	52.381	1.55	0.00	33.72	3.86

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
70	72	9.270640	TGTTTACGCAAATAGAAAACCTTAGTA	57.729	29.630	0.00	0.00	30.75	1.82
71	73	8.156994	TGTTTACGCAAATAGAAAACCTTAGT	57.843	30.769	0.00	0.00	30.75	2.24
72	74	9.620660	AATGTTTACGCAAATAGAAAACCTTAG	57.379	29.630	0.00	0.00	30.75	2.18
85	88	8.156553	CGTTGCATTTTATAATGTTTACGCAAA	58.843	29.630	7.59	0.00	42.56	3.68
90	93	8.580431	GTGTCCGTTGCATTTTATAATGTTTAC	58.420	33.333	7.59	3.59	42.56	2.01
109	113	7.013464	TGTTCATGTAATTTAAAAGGTGTCCGT	59.987	33.333	0.00	0.00	0.00	4.69
253	258	7.270579	GTGTTCGGAGCATTCTAAAAATTGTAC	59.729	37.037	0.00	0.00	0.00	2.90
621	670	7.488792	ACATTAAAAAGGTTCACGTGGTTTAAC	59.511	33.333	17.00	12.28	0.00	2.01
628	677	7.513190	TTGAAACATTAAAAAGGTTCACGTG	57.487	32.000	9.94	9.94	0.00	4.49
631	680	8.931775	ACAGTTTGAAACATTAAAAAGGTTCAC	58.068	29.630	11.02	0.00	0.00	3.18
835	914	4.455533	CGAGATGGAATGTTCTTTTGTCCA	59.544	41.667	0.00	0.00	42.38	4.02
836	915	4.142600	CCGAGATGGAATGTTCTTTTGTCC	60.143	45.833	0.00	0.00	42.00	4.02
837	916	4.455877	ACCGAGATGGAATGTTCTTTTGTC	59.544	41.667	0.00	0.00	42.00	3.18
838	917	4.216257	CACCGAGATGGAATGTTCTTTTGT	59.784	41.667	0.00	0.00	42.00	2.83
839	918	4.379813	CCACCGAGATGGAATGTTCTTTTG	60.380	45.833	0.00	0.00	43.02	2.44
840	919	3.758554	CCACCGAGATGGAATGTTCTTTT	59.241	43.478	0.00	0.00	43.02	2.27
841	920	3.009033	TCCACCGAGATGGAATGTTCTTT	59.991	43.478	1.01	0.00	46.08	2.52
1612	1787	3.068691	TCGAGAACGGGGCTGGAG	61.069	66.667	0.00	0.00	40.21	3.86
1885	2060	6.222038	GGTAGTACCTTGATGACATTCTCA	57.778	41.667	12.41	0.00	34.73	3.27
1968	2143	4.068599	GGCCATGCTCCTTCTAGTATTTC	58.931	47.826	0.00	0.00	0.00	2.17
1970	2145	3.321950	AGGCCATGCTCCTTCTAGTATT	58.678	45.455	5.01	0.00	0.00	1.89
2006	2227	4.790140	CGAGAGAAATGTTTTGCTATGTGC	59.210	41.667	0.00	0.00	43.25	4.57
2007	2228	5.106555	ACCGAGAGAAATGTTTTGCTATGTG	60.107	40.000	0.00	0.00	0.00	3.21
2008	2229	5.003804	ACCGAGAGAAATGTTTTGCTATGT	58.996	37.500	0.00	0.00	0.00	2.29
2009	2230	5.106555	ACACCGAGAGAAATGTTTTGCTATG	60.107	40.000	0.00	0.00	0.00	2.23
2010	2231	5.003804	ACACCGAGAGAAATGTTTTGCTAT	58.996	37.500	0.00	0.00	0.00	2.97
2011	2232	4.213270	CACACCGAGAGAAATGTTTTGCTA	59.787	41.667	0.00	0.00	0.00	3.49
2012	2233	3.003689	CACACCGAGAGAAATGTTTTGCT	59.996	43.478	0.00	0.00	0.00	3.91
2013	2234	3.243068	ACACACCGAGAGAAATGTTTTGC	60.243	43.478	0.00	0.00	0.00	3.68
2014	2235	4.035091	TGACACACCGAGAGAAATGTTTTG	59.965	41.667	0.00	0.00	0.00	2.44
2015	2236	4.196193	TGACACACCGAGAGAAATGTTTT	58.804	39.130	0.00	0.00	0.00	2.43
2016	2237	3.804036	TGACACACCGAGAGAAATGTTT	58.196	40.909	0.00	0.00	0.00	2.83
2017	2238	3.469008	TGACACACCGAGAGAAATGTT	57.531	42.857	0.00	0.00	0.00	2.71
2018	2239	3.131396	GTTGACACACCGAGAGAAATGT	58.869	45.455	0.00	0.00	0.00	2.71
2019	2240	3.185188	CAGTTGACACACCGAGAGAAATG	59.815	47.826	0.00	0.00	0.00	2.32
2020	2241	3.069586	TCAGTTGACACACCGAGAGAAAT	59.930	43.478	0.00	0.00	0.00	2.17
2021	2242	2.429250	TCAGTTGACACACCGAGAGAAA	59.571	45.455	0.00	0.00	0.00	2.52
2022	2243	2.028876	TCAGTTGACACACCGAGAGAA	58.971	47.619	0.00	0.00	0.00	2.87
2023	2244	1.687563	TCAGTTGACACACCGAGAGA	58.312	50.000	0.00	0.00	0.00	3.10
2024	2245	2.288457	ACATCAGTTGACACACCGAGAG	60.288	50.000	0.00	0.00	0.00	3.20
2025	2246	1.686587	ACATCAGTTGACACACCGAGA	59.313	47.619	0.00	0.00	0.00	4.04
2026	2247	1.794701	CACATCAGTTGACACACCGAG	59.205	52.381	0.00	0.00	0.00	4.63
2027	2248	1.138069	ACACATCAGTTGACACACCGA	59.862	47.619	0.00	0.00	0.00	4.69
2028	2249	1.261354	CACACATCAGTTGACACACCG	59.739	52.381	0.00	0.00	0.00	4.94
2029	2250	2.560504	TCACACATCAGTTGACACACC	58.439	47.619	0.00	0.00	0.00	4.16
2030	2251	4.512944	AGATTCACACATCAGTTGACACAC	59.487	41.667	0.00	0.00	0.00	3.82
2031	2252	4.707105	AGATTCACACATCAGTTGACACA	58.293	39.130	0.00	0.00	0.00	3.72
2032	2253	5.008019	ACAAGATTCACACATCAGTTGACAC	59.992	40.000	0.00	0.00	0.00	3.67
2033	2254	5.125356	ACAAGATTCACACATCAGTTGACA	58.875	37.500	0.00	0.00	0.00	3.58
2034	2255	5.679734	ACAAGATTCACACATCAGTTGAC	57.320	39.130	0.00	0.00	0.00	3.18
2035	2256	7.984422	AATACAAGATTCACACATCAGTTGA	57.016	32.000	0.00	0.00	0.00	3.18
2036	2257	8.291740	TCAAATACAAGATTCACACATCAGTTG	58.708	33.333	0.00	0.00	0.00	3.16
2037	2258	8.394971	TCAAATACAAGATTCACACATCAGTT	57.605	30.769	0.00	0.00	0.00	3.16
2038	2259	7.984422	TCAAATACAAGATTCACACATCAGT	57.016	32.000	0.00	0.00	0.00	3.41
2039	2260	8.671028	TGATCAAATACAAGATTCACACATCAG	58.329	33.333	0.00	0.00	0.00	2.90
2040	2261	8.564509	TGATCAAATACAAGATTCACACATCA	57.435	30.769	0.00	0.00	0.00	3.07
2042	2263	9.797556	CAATGATCAAATACAAGATTCACACAT	57.202	29.630	0.00	0.00	0.00	3.21
2043	2264	8.795513	ACAATGATCAAATACAAGATTCACACA	58.204	29.630	0.00	0.00	0.00	3.72
2046	2267	9.722056	GGTACAATGATCAAATACAAGATTCAC	57.278	33.333	0.00	0.00	0.00	3.18
2059	2280	5.652518	TCATTACGTCGGTACAATGATCAA	58.347	37.500	0.00	0.00	0.00	2.57
2073	2294	9.176181	GAAAGAGAGATCATACTTCATTACGTC	57.824	37.037	0.00	0.00	0.00	4.34
2108	2331	2.359848	TGTATCAGGCTGCAATGCAATC	59.640	45.455	9.92	4.33	38.41	2.67
2220	2443	1.003580	GGGAAAGCATCTGAGGACACA	59.996	52.381	0.00	0.00	0.00	3.72
2222	2445	0.250234	CGGGAAAGCATCTGAGGACA	59.750	55.000	0.00	0.00	0.00	4.02
2287	2510	3.866066	GCTGACTGAAGGAATGTGCAGTA	60.866	47.826	0.00	0.00	41.30	2.74
2395	2628	2.299867	GGTGCAATTCAGTGGGTTCATT	59.700	45.455	0.00	0.00	0.00	2.57
2514	2747	4.637276	TGCTAACAAACTCGAGGAATTCA	58.363	39.130	18.41	1.36	0.00	2.57
2719	2952	1.904287	CGGAAGTTCCAACCATCCAA	58.096	50.000	21.76	0.00	35.91	3.53
2991	3224	3.253188	TGGATGAAACAGAAAAAGGAGCG	59.747	43.478	0.00	0.00	0.00	5.03
3044	3277	5.050490	GTGGTCGGCACATATATGATATCC	58.950	45.833	19.63	11.98	0.00	2.59
3097	3330	4.833478	AATTCATCACACTGGCTAGAGT	57.167	40.909	3.17	0.00	0.00	3.24
3104	3337	2.092212	AGGGGCTAATTCATCACACTGG	60.092	50.000	0.00	0.00	0.00	4.00
3108	3341	2.204463	TCCAGGGGCTAATTCATCACA	58.796	47.619	0.00	0.00	0.00	3.58
3109	3342	3.181440	TGATCCAGGGGCTAATTCATCAC	60.181	47.826	0.00	0.00	0.00	3.06
3264	3802	2.490903	CAAAGGCATCTCCTCAACCTTG	59.509	50.000	0.00	0.00	46.94	3.61
3266	3804	1.988107	TCAAAGGCATCTCCTCAACCT	59.012	47.619	0.00	0.00	46.94	3.50
3267	3805	2.087646	GTCAAAGGCATCTCCTCAACC	58.912	52.381	0.00	0.00	46.94	3.77
3283	3822	6.558771	ATTGAGTGAAAACATGATCGTCAA	57.441	33.333	0.00	8.42	0.00	3.18
3374	4110	4.309099	TGAAGCAATCATTGAGGCAAAAC	58.691	39.130	0.00	4.78	31.50	2.43
3399	4135	0.815213	GTGGCTGCACACTGAGTTGA	60.815	55.000	0.50	0.00	38.32	3.18
3490	4226	5.214417	GGTTGGAAAATGCAGCAAAATTTC	58.786	37.500	17.26	17.26	0.00	2.17
3491	4227	4.643784	TGGTTGGAAAATGCAGCAAAATTT	59.356	33.333	0.00	1.16	0.00	1.82
3881	4617	2.677228	CCAGGAACCTTGGGCGAT	59.323	61.111	0.00	0.00	0.00	4.58

Based at the University of Bristol with support from BBSRC.

AutoCloner maintained by Alex Coulton.