AutoCloner

Multiple sequence alignment - TraesCS7A01G105400

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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	TraesCS7A01G105400	chr7A	100.000	2735	0	0	1	2735	64195687	64198421	0.000000e+00	5051.0
1	TraesCS7A01G105400	chr7A	92.489	679	46	4	1	676	40283689	40284365	0.000000e+00	966.0
2	TraesCS7A01G105400	chr7B	93.609	798	36	7	874	1659	1767168	1766374	0.000000e+00	1177.0
3	TraesCS7A01G105400	chr7B	89.919	863	70	9	1656	2502	1766110	1765249	0.000000e+00	1096.0
4	TraesCS7A01G105400	chr7B	92.448	384	27	2	1857	2238	2320865	2321248	5.150000e-152	547.0
5	TraesCS7A01G105400	chr7B	94.091	220	13	0	2516	2735	1765145	1764926	4.360000e-88	335.0
6	TraesCS7A01G105400	chr7B	87.029	239	26	4	2269	2502	2322434	2322672	5.810000e-67	265.0
7	TraesCS7A01G105400	chr7B	91.979	187	14	1	1656	1841	2320702	2320888	7.510000e-66	261.0
8	TraesCS7A01G105400	chr7B	92.258	155	12	0	676	830	1767453	1767299	1.270000e-53	220.0
9	TraesCS7A01G105400	chr7B	84.071	226	24	6	2516	2735	2322776	2322995	9.930000e-50	207.0
10	TraesCS7A01G105400	chr7B	94.444	36	2	0	678	713	707431806	707431771	3.800000e-04	56.5
11	TraesCS7A01G105400	chr7D	88.294	897	73	19	1656	2521	60059404	60060299	0.000000e+00	1046.0
12	TraesCS7A01G105400	chr7D	89.268	792	50	10	874	1659	60058398	60059160	0.000000e+00	959.0
13	TraesCS7A01G105400	chr7D	91.458	679	54	3	1	676	599732315	599731638	0.000000e+00	929.0
14	TraesCS7A01G105400	chr7D	91.083	157	10	1	678	830	60058126	60058282	2.760000e-50	209.0
15	TraesCS7A01G105400	chr3A	92.070	681	47	6	1	677	26499594	26500271	0.000000e+00	952.0
16	TraesCS7A01G105400	chr2D	92.047	679	49	4	1	676	15977818	15978494	0.000000e+00	950.0
17	TraesCS7A01G105400	chr2D	91.618	680	53	3	1	677	15987977	15988655	0.000000e+00	937.0
18	TraesCS7A01G105400	chr4A	91.900	679	51	3	1	676	478400337	478399660	0.000000e+00	946.0
19	TraesCS7A01G105400	chr5D	91.740	678	52	3	1	676	423235818	423236493	0.000000e+00	939.0
20	TraesCS7A01G105400	chr6D	91.508	683	54	3	1	680	6421504	6422185	0.000000e+00	937.0
21	TraesCS7A01G105400	chr5A	91.483	681	50	5	1	676	601253222	601252545	0.000000e+00	929.0

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	TraesCS7A01G105400	chr7A	64195687	64198421	2734	False	5051	5051	100.000000	1	2735	1	chr7A.!!$F2	2734
1	TraesCS7A01G105400	chr7A	40283689	40284365	676	False	966	966	92.489000	1	676	1	chr7A.!!$F1	675
2	TraesCS7A01G105400	chr7B	1764926	1767453	2527	True	707	1177	92.469250	676	2735	4	chr7B.!!$R2	2059
3	TraesCS7A01G105400	chr7B	2320702	2322995	2293	False	320	547	88.881750	1656	2735	4	chr7B.!!$F1	1079
4	TraesCS7A01G105400	chr7D	599731638	599732315	677	True	929	929	91.458000	1	676	1	chr7D.!!$R1	675
5	TraesCS7A01G105400	chr7D	60058126	60060299	2173	False	738	1046	89.548333	678	2521	3	chr7D.!!$F1	1843
6	TraesCS7A01G105400	chr3A	26499594	26500271	677	False	952	952	92.070000	1	677	1	chr3A.!!$F1	676
7	TraesCS7A01G105400	chr2D	15977818	15978494	676	False	950	950	92.047000	1	676	1	chr2D.!!$F1	675
8	TraesCS7A01G105400	chr2D	15987977	15988655	678	False	937	937	91.618000	1	677	1	chr2D.!!$F2	676
9	TraesCS7A01G105400	chr4A	478399660	478400337	677	True	946	946	91.900000	1	676	1	chr4A.!!$R1	675
10	TraesCS7A01G105400	chr5D	423235818	423236493	675	False	939	939	91.740000	1	676	1	chr5D.!!$F1	675
11	TraesCS7A01G105400	chr6D	6421504	6422185	681	False	937	937	91.508000	1	680	1	chr6D.!!$F1	679
12	TraesCS7A01G105400	chr5A	601252545	601253222	677	True	929	929	91.483000	1	676	1	chr5A.!!$R1	675

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
273	274	0.380378	GCTGCTGTTTGGTTCAACGA	59.62	50.0	0.0	0.0	0.0	3.85	F

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability	Orientation
1878	2269	0.03563	GACCATTCACCTGCTGCTCT	60.036	55.0	0.0	0.0	0.0	4.09	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
87	88	0.613012	AGCTGGTTTGAGGATTGGGC	60.613	55.000	0.00	0.00	0.00	5.36
99	100	1.188863	GATTGGGCCAGTGAAGCATT	58.811	50.000	6.15	0.00	0.00	3.56
104	105	2.225467	GGGCCAGTGAAGCATTAGATC	58.775	52.381	4.39	0.00	0.00	2.75
122	123	5.495926	AGATCTGAGAGTGGTTTTGTCAT	57.504	39.130	0.00	0.00	0.00	3.06
143	144	1.530293	CTCTGACTGCTGCTGTTTCAC	59.470	52.381	13.49	1.78	0.00	3.18
170	171	4.283722	AGAGTAGTTTTGGGAGACGAACAT	59.716	41.667	0.00	0.00	0.00	2.71
174	175	5.183014	AGTTTTGGGAGACGAACATTTTC	57.817	39.130	0.00	0.00	0.00	2.29
199	200	3.355378	AGGCAAATGATGTCCGATTGAA	58.645	40.909	0.00	0.00	32.58	2.69
241	242	7.284919	TGTCAAGAACTCATGTGTCTACTTA	57.715	36.000	0.03	0.00	0.00	2.24
243	244	8.367911	TGTCAAGAACTCATGTGTCTACTTATT	58.632	33.333	0.03	0.00	0.00	1.40
255	256	6.644592	TGTGTCTACTTATTTGCCAAATTTGC	59.355	34.615	12.92	8.88	32.38	3.68
270	271	3.540314	ATTTGCTGCTGTTTGGTTCAA	57.460	38.095	0.00	0.00	0.00	2.69
273	274	0.380378	GCTGCTGTTTGGTTCAACGA	59.620	50.000	0.00	0.00	0.00	3.85
311	312	8.964476	TTGCAAAATATTGAAGGGTACAAAAA	57.036	26.923	0.00	0.00	38.94	1.94
432	433	6.246919	AGGTTCTAGAGCAGACTTTGTACTA	58.753	40.000	8.96	0.00	31.12	1.82
460	461	5.339008	TCTCATAGTAAAGTTGCGTGGAT	57.661	39.130	0.00	0.00	0.00	3.41
527	533	4.655440	TTCCACGTTAAATCATGTGTCG	57.345	40.909	0.00	0.00	32.51	4.35
565	571	4.823157	TGTGTTATTCCGCTGCTTACTTA	58.177	39.130	0.00	0.00	0.00	2.24
611	617	2.116125	ACAAGTGAAGGGGGCTGC	59.884	61.111	0.00	0.00	0.00	5.25
651	657	3.666638	CGTGTCGATAAATTTGTGCAGCA	60.667	43.478	0.00	0.00	0.00	4.41
785	791	3.179830	CCGTAGATCTGTTGTGCAGTAC	58.820	50.000	5.18	0.00	45.23	2.73
786	792	3.366985	CCGTAGATCTGTTGTGCAGTACA	60.367	47.826	5.18	0.00	45.23	2.90
816	826	7.572759	TCTGTCGTGTAATCAAACAGATTTTC	58.427	34.615	0.00	0.00	44.48	2.29
892	993	5.439721	TGATTCCATTCAGATCCGAACAAT	58.560	37.500	0.00	0.00	0.00	2.71
898	999	6.377996	TCCATTCAGATCCGAACAATGATTTT	59.622	34.615	0.00	0.00	0.00	1.82
968	1075	4.054780	TCTTACTCTGCGACAACAACTT	57.945	40.909	0.00	0.00	0.00	2.66
980	1087	3.161866	ACAACAACTTTTCCCACTGTGT	58.838	40.909	7.08	0.00	0.00	3.72
981	1088	3.056891	ACAACAACTTTTCCCACTGTGTG	60.057	43.478	7.08	0.00	0.00	3.82
1000	1107	3.031736	GTGGTTCTACTCTCTGCCCATA	58.968	50.000	0.00	0.00	0.00	2.74
1130	1237	5.003804	ACATTGTAAAGGCGAAGATTCAGT	58.996	37.500	0.00	0.00	0.00	3.41
1137	1244	1.789464	GGCGAAGATTCAGTATCAGCG	59.211	52.381	0.00	0.00	35.59	5.18
1329	1443	0.677288	ACCGTCGACAATGTCAAGGA	59.323	50.000	17.16	5.74	32.09	3.36
1340	1454	5.801205	GACAATGTCAAGGACAAGATCCAGA	60.801	44.000	8.74	0.00	45.96	3.86
1353	1467	4.116747	AGATCCAGATCGAGTTGAACAC	57.883	45.455	0.00	0.00	42.48	3.32
1375	1489	1.228367	AGTGGACCTGCAAAGGCTG	60.228	57.895	0.00	0.00	41.91	4.85
1427	1541	0.982852	CACCCTGGAGGAGTATGGCA	60.983	60.000	0.00	0.00	39.89	4.92
1633	1748	7.801716	ATGTATATTATGTGCCGTTTGTCTT	57.198	32.000	0.00	0.00	0.00	3.01
1643	1758	0.307760	CGTTTGTCTTGTCCTGTGGC	59.692	55.000	0.00	0.00	0.00	5.01
1647	1762	0.254462	TGTCTTGTCCTGTGGCACAA	59.746	50.000	22.31	4.63	44.16	3.33
1699	2081	0.944311	CGGAGTGGAGTTGAACACGG	60.944	60.000	0.00	0.00	42.25	4.94
1707	2089	2.681344	GGAGTTGAACACGGACAAACTT	59.319	45.455	0.00	0.00	0.00	2.66
1744	2126	9.521503	CTAATGATTCTGATATACGTATGGTGG	57.478	37.037	18.37	6.27	0.00	4.61
1745	2127	6.911250	TGATTCTGATATACGTATGGTGGT	57.089	37.500	18.37	0.00	0.00	4.16
1798	2188	2.283298	ACGCAGGAAGCACATATCTTG	58.717	47.619	0.00	0.00	46.13	3.02
1816	2207	2.050350	GTCAGCCATGCATGCACCT	61.050	57.895	25.37	16.57	0.00	4.00
1834	2225	1.472201	CCTCATGCACTGCACTATCGT	60.472	52.381	5.67	0.00	43.04	3.73
1897	2288	0.035630	AGAGCAGCAGGTGAATGGTC	60.036	55.000	3.02	6.68	40.79	4.02
1901	2292	0.036952	CAGCAGGTGAATGGTCGACT	60.037	55.000	16.46	0.00	0.00	4.18
1902	2293	0.247736	AGCAGGTGAATGGTCGACTC	59.752	55.000	16.46	5.91	0.00	3.36
1954	2345	1.281867	CCATCCACTAGCTGTTTCCCA	59.718	52.381	0.00	0.00	0.00	4.37
2010	2402	4.218417	ACCTCCTTTTTGTGGATCATTTCG	59.782	41.667	0.00	0.00	32.56	3.46
2015	2407	7.891561	TCCTTTTTGTGGATCATTTCGTTTAT	58.108	30.769	0.00	0.00	0.00	1.40
2022	2414	8.554835	TGTGGATCATTTCGTTTATACTTTCA	57.445	30.769	0.00	0.00	0.00	2.69
2026	2418	8.173130	GGATCATTTCGTTTATACTTTCAACGT	58.827	33.333	6.55	0.00	43.03	3.99
2124	2516	8.073467	TCTTCTTTTTCAGTAATTTGGGTTGT	57.927	30.769	0.00	0.00	0.00	3.32
2127	2519	6.975772	TCTTTTTCAGTAATTTGGGTTGTTCG	59.024	34.615	0.00	0.00	0.00	3.95
2135	2527	0.250381	TTGGGTTGTTCGCCACGTAT	60.250	50.000	0.00	0.00	0.00	3.06
2173	2565	4.047822	CCTCTTTCTATGACATCGCAGAC	58.952	47.826	0.00	0.00	42.51	3.51
2188	2580	1.248486	CAGACCGAGGTGAAGAGTGA	58.752	55.000	0.00	0.00	0.00	3.41
2245	2637	1.427368	TGCCTTTTAGCCCCTTCTTGA	59.573	47.619	0.00	0.00	0.00	3.02
2257	3790	3.370953	CCCCTTCTTGACATAGACAAGGG	60.371	52.174	7.48	7.48	43.11	3.95
2287	3834	2.102420	TCTGACAACGTTGATGGTGTCT	59.898	45.455	33.66	9.45	0.00	3.41
2299	3846	1.606889	GGTGTCTGAGGGGTCGACT	60.607	63.158	16.46	0.00	0.00	4.18
2300	3847	1.587054	GTGTCTGAGGGGTCGACTG	59.413	63.158	16.46	0.00	0.00	3.51
2361	3908	6.050432	AGATCTTCATCTGTTGAATGAGAGC	58.950	40.000	1.91	0.15	43.30	4.09
2364	3911	3.603532	TCATCTGTTGAATGAGAGCACC	58.396	45.455	0.00	0.00	0.00	5.01
2365	3912	3.008266	TCATCTGTTGAATGAGAGCACCA	59.992	43.478	0.00	0.00	0.00	4.17
2430	3982	3.326747	GGAGAATAGTTGTTGCACGAGT	58.673	45.455	0.00	0.00	0.00	4.18
2438	3990	8.542497	AATAGTTGTTGCACGAGTAAGAAATA	57.458	30.769	3.81	3.81	30.61	1.40
2441	3993	6.874134	AGTTGTTGCACGAGTAAGAAATATCT	59.126	34.615	0.00	0.00	37.57	1.98
2442	3994	6.887376	TGTTGCACGAGTAAGAAATATCTC	57.113	37.500	0.00	0.00	33.77	2.75
2445	3997	5.833082	TGCACGAGTAAGAAATATCTCTCC	58.167	41.667	0.00	0.00	33.77	3.71
2446	3998	4.912766	GCACGAGTAAGAAATATCTCTCCG	59.087	45.833	0.00	0.00	33.77	4.63
2447	3999	5.277876	GCACGAGTAAGAAATATCTCTCCGA	60.278	44.000	0.00	0.00	33.77	4.55
2449	4001	6.017770	CACGAGTAAGAAATATCTCTCCGACT	60.018	42.308	0.00	0.00	33.77	4.18
2451	4008	7.714377	ACGAGTAAGAAATATCTCTCCGACTAA	59.286	37.037	0.00	0.00	33.77	2.24
2466	4023	7.855545	TCTCCGACTAATACAGTTAACGATAC	58.144	38.462	0.00	0.00	37.72	2.24
2472	4029	7.198390	ACTAATACAGTTAACGATACGCATGT	58.802	34.615	0.00	0.00	31.59	3.21
2503	4060	6.014242	TGAGGAACATTGTTCAGATCAGTACT	60.014	38.462	26.27	13.36	0.00	2.73
2504	4061	7.178451	TGAGGAACATTGTTCAGATCAGTACTA	59.822	37.037	26.27	6.12	0.00	1.82
2569	4216	2.093711	GCGCAACCTCCCCAAATTTAAT	60.094	45.455	0.30	0.00	0.00	1.40

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
87	88	5.163426	ACTCTCAGATCTAATGCTTCACTGG	60.163	44.000	0.00	0.00	0.00	4.00
99	100	6.438741	AGATGACAAAACCACTCTCAGATCTA	59.561	38.462	0.00	0.00	0.00	1.98
104	105	4.689812	CAGAGATGACAAAACCACTCTCAG	59.310	45.833	0.00	0.00	33.35	3.35
122	123	1.413812	TGAAACAGCAGCAGTCAGAGA	59.586	47.619	0.00	0.00	0.00	3.10
143	144	3.741344	CGTCTCCCAAAACTACTCTGTTG	59.259	47.826	0.00	0.00	0.00	3.33
170	171	4.035091	CGGACATCATTTGCCTATCGAAAA	59.965	41.667	0.00	0.00	0.00	2.29
174	175	2.754472	TCGGACATCATTTGCCTATCG	58.246	47.619	0.00	0.00	0.00	2.92
176	177	4.717877	TCAATCGGACATCATTTGCCTAT	58.282	39.130	0.00	0.00	0.00	2.57
199	200	6.550854	TCTTGACATCCTTTCCAAATTTCAGT	59.449	34.615	0.00	0.00	0.00	3.41
241	242	2.853705	ACAGCAGCAAATTTGGCAAAT	58.146	38.095	19.39	19.39	0.00	2.32
243	244	2.328819	AACAGCAGCAAATTTGGCAA	57.671	40.000	19.47	0.00	0.00	4.52
255	256	3.354089	AATCGTTGAACCAAACAGCAG	57.646	42.857	0.00	0.00	0.00	4.24
270	271	4.829064	TTGCAAACTGCTCTTAAATCGT	57.171	36.364	0.00	0.00	45.31	3.73
273	274	9.709495	TCAATATTTTGCAAACTGCTCTTAAAT	57.291	25.926	12.39	1.11	45.31	1.40
311	312	3.947834	AGCAAAGCAGAGTTTACACAGTT	59.052	39.130	0.00	0.00	0.00	3.16
312	313	3.313526	CAGCAAAGCAGAGTTTACACAGT	59.686	43.478	0.00	0.00	0.00	3.55
432	433	7.201644	CCACGCAACTTTACTATGAGAATGATT	60.202	37.037	0.00	0.00	0.00	2.57
527	533	2.203401	ACACAAACAACATGCACATGC	58.797	42.857	10.50	0.00	42.39	4.06
565	571	2.957402	TGAGGACAGCTTCAACCAAT	57.043	45.000	0.00	0.00	0.00	3.16
731	737	6.884187	TCTTTATCTTTTCAGAAACGAACCG	58.116	36.000	6.20	0.00	30.76	4.44
785	791	2.946564	TGATTACACGACAGAGCTGTG	58.053	47.619	9.74	9.74	45.05	3.66
786	792	9.819793	ATCTGTTTGATTACACGACAGAGCTGT	62.820	40.741	2.20	2.20	44.64	4.40
816	826	3.538591	TGCCATTGAGCTATCTGAACAG	58.461	45.455	0.00	0.00	0.00	3.16
892	993	1.337118	GGTGGCCTGGTGAAAAATCA	58.663	50.000	3.32	0.00	0.00	2.57
898	999	1.080638	ATTAAGGGTGGCCTGGTGAA	58.919	50.000	3.32	0.00	0.00	3.18
980	1087	2.254152	ATGGGCAGAGAGTAGAACCA	57.746	50.000	0.00	0.00	0.00	3.67
981	1088	3.567397	TCTATGGGCAGAGAGTAGAACC	58.433	50.000	0.00	0.00	0.00	3.62
993	1100	9.041354	ACCAAAAATTAGTTATTTCTATGGGCA	57.959	29.630	13.82	0.00	37.98	5.36
1000	1107	9.301897	AGAGAGCACCAAAAATTAGTTATTTCT	57.698	29.630	0.00	0.00	35.39	2.52
1130	1237	4.693283	CCAAAGATAAGACACCGCTGATA	58.307	43.478	0.00	0.00	0.00	2.15
1137	1244	2.026262	TCCCTGCCAAAGATAAGACACC	60.026	50.000	0.00	0.00	0.00	4.16
1216	1323	1.665442	GGGGCGCAAATCAAGTTGT	59.335	52.632	10.83	0.00	0.00	3.32
1329	1443	4.021104	TGTTCAACTCGATCTGGATCTTGT	60.021	41.667	8.65	4.81	35.72	3.16
1357	1471	1.228367	CAGCCTTTGCAGGTCCACT	60.228	57.895	0.00	0.00	43.18	4.00
1375	1489	2.949451	TCTGTCTCGAGGCAAAGATC	57.051	50.000	21.89	0.00	0.00	2.75
1427	1541	2.730934	ATGATGTCCTGCTGCTTGAT	57.269	45.000	0.00	0.00	0.00	2.57
1475	1589	4.042809	TGAAATCTGGGAAGCACTCCTTAA	59.957	41.667	4.98	0.00	44.68	1.85
1535	1649	5.156355	CGCTAGGTTTTTACACGACTAGAA	58.844	41.667	0.00	0.00	31.86	2.10
1643	1758	0.746063	TGGCTTTTCACTGGCTTGTG	59.254	50.000	5.15	5.15	39.15	3.33
1647	1762	1.999648	TGATTGGCTTTTCACTGGCT	58.000	45.000	0.00	0.00	0.00	4.75
1699	2081	7.648142	TCATTAGTTGTTGGATGAAGTTTGTC	58.352	34.615	0.00	0.00	0.00	3.18
1739	2121	3.390521	CTCGCTGGGCTACCACCA	61.391	66.667	0.00	0.00	43.37	4.17
1744	2126	1.859383	GAGATTTCTCGCTGGGCTAC	58.141	55.000	0.00	0.00	32.78	3.58
1798	2188	2.001361	GAGGTGCATGCATGGCTGAC	62.001	60.000	25.64	8.76	0.00	3.51
1834	2225	6.672266	TGTGTTGGGGAAATTAGCAATTTA	57.328	33.333	6.78	0.00	40.97	1.40
1878	2269	0.035630	GACCATTCACCTGCTGCTCT	60.036	55.000	0.00	0.00	0.00	4.09
1902	2293	0.393537	GGACTGTGGCATCCAGAAGG	60.394	60.000	11.62	0.00	32.34	3.46
1954	2345	3.055094	ACGAACAAAGGCTGATCTATGGT	60.055	43.478	0.00	0.00	0.00	3.55
2010	2402	8.220618	ACTCGAGTAACGTTGAAAGTATAAAC	57.779	34.615	18.46	0.00	43.13	2.01
2015	2407	4.516698	AGGACTCGAGTAACGTTGAAAGTA	59.483	41.667	20.09	0.00	43.13	2.24
2022	2414	2.620115	TGTTGAGGACTCGAGTAACGTT	59.380	45.455	20.09	5.88	43.13	3.99
2026	2418	5.299531	CCTATGATGTTGAGGACTCGAGTAA	59.700	44.000	20.09	6.19	31.45	2.24
2111	2503	2.668250	GTGGCGAACAACCCAAATTAC	58.332	47.619	0.00	0.00	31.90	1.89
2135	2527	2.280797	GGAAGCAGCCACGTGTCA	60.281	61.111	15.65	0.00	0.00	3.58
2173	2565	1.550524	TGGATTCACTCTTCACCTCGG	59.449	52.381	0.00	0.00	0.00	4.63
2188	2580	6.573289	GCTGACTACGATATTCAGGATGGATT	60.573	42.308	11.45	0.00	34.80	3.01
2245	2637	0.254178	CAGCAGCCCCTTGTCTATGT	59.746	55.000	0.00	0.00	0.00	2.29
2257	3790	0.671781	ACGTTGTCAGATCAGCAGCC	60.672	55.000	0.00	0.00	0.00	4.85
2287	3834	2.265904	CGTCACAGTCGACCCCTCA	61.266	63.158	13.01	0.00	31.91	3.86
2361	3908	1.336517	CCAAACTGCTGATGCTTGGTG	60.337	52.381	0.00	0.00	37.30	4.17
2364	3911	0.245539	CCCCAAACTGCTGATGCTTG	59.754	55.000	0.00	0.00	40.48	4.01
2365	3912	0.901580	CCCCCAAACTGCTGATGCTT	60.902	55.000	0.00	0.00	40.48	3.91
2388	3935	8.474710	TCTCCCTAGTAATTGTTGTACTATCC	57.525	38.462	0.00	0.00	34.39	2.59
2396	3948	9.449719	AACAACTATTCTCCCTAGTAATTGTTG	57.550	33.333	18.55	18.55	44.49	3.33
2415	3967	8.033038	AGATATTTCTTACTCGTGCAACAACTA	58.967	33.333	0.00	0.00	35.74	2.24
2438	3990	6.765036	TCGTTAACTGTATTAGTCGGAGAGAT	59.235	38.462	3.71	0.00	39.18	2.75
2441	3993	6.932356	ATCGTTAACTGTATTAGTCGGAGA	57.068	37.500	3.71	0.00	39.18	3.71
2442	3994	6.789403	CGTATCGTTAACTGTATTAGTCGGAG	59.211	42.308	3.71	0.00	39.18	4.63
2445	3997	5.903530	TGCGTATCGTTAACTGTATTAGTCG	59.096	40.000	3.71	0.00	39.18	4.18
2446	3998	7.377928	ACATGCGTATCGTTAACTGTATTAGTC	59.622	37.037	3.71	0.00	39.18	2.59
2447	3999	7.198390	ACATGCGTATCGTTAACTGTATTAGT	58.802	34.615	3.71	0.00	42.89	2.24
2449	4001	7.420002	AGACATGCGTATCGTTAACTGTATTA	58.580	34.615	3.71	0.00	0.00	0.98
2451	4008	5.828747	AGACATGCGTATCGTTAACTGTAT	58.171	37.500	3.71	0.00	0.00	2.29
2456	4013	3.615496	ACCAAGACATGCGTATCGTTAAC	59.385	43.478	0.00	0.00	0.00	2.01
2466	4023	0.798776	GTTCCTCACCAAGACATGCG	59.201	55.000	0.00	0.00	0.00	4.73
2472	4029	4.136796	CTGAACAATGTTCCTCACCAAGA	58.863	43.478	21.75	0.78	0.00	3.02
2503	4060	8.599792	GCTCCCTGGGTTTATAACATAGTATTA	58.400	37.037	13.56	0.00	0.00	0.98
2504	4061	7.073215	TGCTCCCTGGGTTTATAACATAGTATT	59.927	37.037	13.56	0.00	0.00	1.89
2512	4071	3.054655	TCTGTGCTCCCTGGGTTTATAAC	60.055	47.826	13.56	4.91	0.00	1.89
2695	4349	0.818938	GTTCCTTCTCCCTCTCCGAC	59.181	60.000	0.00	0.00	0.00	4.79
2696	4350	0.324460	GGTTCCTTCTCCCTCTCCGA	60.324	60.000	0.00	0.00	0.00	4.55
2705	4363	3.889520	ACTAACCATCGGTTCCTTCTC	57.110	47.619	0.72	0.00	43.05	2.87

Based at the University of Bristol with support from BBSRC.

AutoCloner maintained by Alex Coulton.