AutoCloner

Multiple sequence alignment - TraesCS7D01G516700

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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	TraesCS7D01G516700	chr7D	100.000	2423	0	0	1	2423	616067180	616069602	0.000000e+00	4475
1	TraesCS7D01G516700	chr7D	85.596	1208	101	21	457	1622	616102583	616103759	0.000000e+00	1199
2	TraesCS7D01G516700	chr7D	84.225	1122	114	20	568	1657	616055152	616056242	0.000000e+00	1033
3	TraesCS7D01G516700	chr7D	85.000	780	100	10	888	1655	616174087	616174861	0.000000e+00	776
4	TraesCS7D01G516700	chr7D	88.042	577	58	11	1111	1680	616075963	616076535	0.000000e+00	673
5	TraesCS7D01G516700	chr7D	88.411	535	60	2	1878	2411	34315235	34315768	0.000000e+00	643
6	TraesCS7D01G516700	chr7D	81.818	429	42	16	1	419	616102064	616102466	6.460000e-86	327
7	TraesCS7D01G516700	chr7D	92.073	164	11	2	420	582	616054970	616055132	1.870000e-56	230
8	TraesCS7D01G516700	chr7D	83.766	154	18	6	269	420	616166793	616166941	3.250000e-29	139
9	TraesCS7D01G516700	chr7B	86.460	1130	88	26	601	1699	709258218	709259313	0.000000e+00	1179
10	TraesCS7D01G516700	chr7B	85.272	1066	122	18	617	1655	709322868	709323925	0.000000e+00	1066
11	TraesCS7D01G516700	chr7B	91.190	420	34	3	1	419	709353622	709354039	3.500000e-158	568
12	TraesCS7D01G516700	chr7B	93.827	243	6	2	503	737	709354145	709354386	8.240000e-95	357
13	TraesCS7D01G516700	chr7B	85.263	190	14	9	406	586	709257978	709258162	1.480000e-42	183
14	TraesCS7D01G516700	chr7B	92.708	96	6	1	1	95	709257774	709257869	1.170000e-28	137
15	TraesCS7D01G516700	chr7A	86.229	1111	96	23	575	1655	708912817	708913900	0.000000e+00	1151
16	TraesCS7D01G516700	chr7A	89.782	871	73	9	776	1646	709028446	709029300	0.000000e+00	1101
17	TraesCS7D01G516700	chr7A	93.653	646	36	3	1782	2423	708920188	708920832	0.000000e+00	961
18	TraesCS7D01G516700	chr7A	84.298	898	110	15	776	1655	709141809	709142693	0.000000e+00	848
19	TraesCS7D01G516700	chr7A	80.851	1081	134	46	510	1551	709121410	709122456	0.000000e+00	782
20	TraesCS7D01G516700	chr7A	83.168	909	98	34	776	1655	709129343	709130225	0.000000e+00	780
21	TraesCS7D01G516700	chr7A	88.361	421	41	5	1	419	708918440	708918854	1.290000e-137	499
22	TraesCS7D01G516700	chr7A	88.000	425	38	6	1	419	708912140	708912557	7.780000e-135	490
23	TraesCS7D01G516700	chr7A	82.796	279	17	19	406	657	709028113	709028387	1.130000e-53	220
24	TraesCS7D01G516700	chr7A	84.043	188	19	7	581	765	708919110	708919289	1.150000e-38	171
25	TraesCS7D01G516700	chr1A	87.709	537	58	6	1878	2411	53416333	53416864	9.520000e-174	619
26	TraesCS7D01G516700	chr1A	84.423	520	70	9	1895	2411	516577339	516576828	3.600000e-138	501
27	TraesCS7D01G516700	chr1B	87.942	481	52	4	1933	2411	547598697	547599173	1.630000e-156	562
28	TraesCS7D01G516700	chr1B	85.287	401	52	2	2011	2404	28328643	28329043	8.070000e-110	407
29	TraesCS7D01G516700	chr3D	83.685	521	76	4	1892	2410	369807232	369806719	1.300000e-132	483
30	TraesCS7D01G516700	chr6D	78.231	294	58	6	1894	2185	88881422	88881133	1.480000e-42	183

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	TraesCS7D01G516700	chr7D	616067180	616069602	2422	False	4475.000000	4475	100.000000	1	2423	1	chr7D.!!$F2	2422
1	TraesCS7D01G516700	chr7D	616174087	616174861	774	False	776.000000	776	85.000000	888	1655	1	chr7D.!!$F5	767
2	TraesCS7D01G516700	chr7D	616102064	616103759	1695	False	763.000000	1199	83.707000	1	1622	2	chr7D.!!$F7	1621
3	TraesCS7D01G516700	chr7D	616075963	616076535	572	False	673.000000	673	88.042000	1111	1680	1	chr7D.!!$F3	569
4	TraesCS7D01G516700	chr7D	34315235	34315768	533	False	643.000000	643	88.411000	1878	2411	1	chr7D.!!$F1	533
5	TraesCS7D01G516700	chr7D	616054970	616056242	1272	False	631.500000	1033	88.149000	420	1657	2	chr7D.!!$F6	1237
6	TraesCS7D01G516700	chr7B	709322868	709323925	1057	False	1066.000000	1066	85.272000	617	1655	1	chr7B.!!$F1	1038
7	TraesCS7D01G516700	chr7B	709257774	709259313	1539	False	499.666667	1179	88.143667	1	1699	3	chr7B.!!$F2	1698
8	TraesCS7D01G516700	chr7B	709353622	709354386	764	False	462.500000	568	92.508500	1	737	2	chr7B.!!$F3	736
9	TraesCS7D01G516700	chr7A	709141809	709142693	884	False	848.000000	848	84.298000	776	1655	1	chr7A.!!$F3	879
10	TraesCS7D01G516700	chr7A	708912140	708913900	1760	False	820.500000	1151	87.114500	1	1655	2	chr7A.!!$F4	1654
11	TraesCS7D01G516700	chr7A	709121410	709122456	1046	False	782.000000	782	80.851000	510	1551	1	chr7A.!!$F1	1041
12	TraesCS7D01G516700	chr7A	709129343	709130225	882	False	780.000000	780	83.168000	776	1655	1	chr7A.!!$F2	879
13	TraesCS7D01G516700	chr7A	709028113	709029300	1187	False	660.500000	1101	86.289000	406	1646	2	chr7A.!!$F6	1240
14	TraesCS7D01G516700	chr7A	708918440	708920832	2392	False	543.666667	961	88.685667	1	2423	3	chr7A.!!$F5	2422
15	TraesCS7D01G516700	chr1A	53416333	53416864	531	False	619.000000	619	87.709000	1878	2411	1	chr1A.!!$F1	533
16	TraesCS7D01G516700	chr1A	516576828	516577339	511	True	501.000000	501	84.423000	1895	2411	1	chr1A.!!$R1	516
17	TraesCS7D01G516700	chr3D	369806719	369807232	513	True	483.000000	483	83.685000	1892	2410	1	chr3D.!!$R1	518

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
281	298	0.241213	GGGCGACAAGAAAAAGCTCC	59.759	55.0	0.0	0.0	0.0	4.7	F

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability	Orientation
1733	2259	0.381909	CTACGTACGTACTACCGCGC	60.382	60.0	23.6	0.0	0.0	6.86	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
50	56	6.212888	ACAAAGACTTGCAGAAAAATCAGT	57.787	33.333	0.00	0.00	35.84	3.41
100	113	2.279136	CGTACGCAGCTATCACTTTCAC	59.721	50.000	0.52	0.00	0.00	3.18
158	171	8.149973	TCAGATAACCACAAACACTAAAGAAC	57.850	34.615	0.00	0.00	0.00	3.01
162	175	4.976987	ACCACAAACACTAAAGAACAACG	58.023	39.130	0.00	0.00	0.00	4.10
175	188	1.607148	GAACAACGAGTCCCCAAAAGG	59.393	52.381	0.00	0.00	0.00	3.11
251	267	4.786425	AGGAAAAATCTACCATGCCTCTC	58.214	43.478	0.00	0.00	0.00	3.20
252	268	3.885901	GGAAAAATCTACCATGCCTCTCC	59.114	47.826	0.00	0.00	0.00	3.71
277	294	1.028905	TGTGGGGCGACAAGAAAAAG	58.971	50.000	0.00	0.00	0.00	2.27
281	298	0.241213	GGGCGACAAGAAAAAGCTCC	59.759	55.000	0.00	0.00	0.00	4.70
322	339	5.952033	AGTCGACCTACAGTATGAAAAGAC	58.048	41.667	13.01	0.00	39.69	3.01
326	343	5.800941	CGACCTACAGTATGAAAAGACAGAC	59.199	44.000	0.00	0.00	39.69	3.51
442	521	0.601057	GTTGGGGGAATCCAAACACG	59.399	55.000	0.09	0.00	46.54	4.49
599	760	5.687730	CACAGCTAGACTTTATATGTCGTGG	59.312	44.000	0.00	0.00	39.24	4.94
731	923	3.149981	CCTTGTTGGGGAAGAGAAGTTC	58.850	50.000	0.00	0.00	0.00	3.01
815	1052	7.393216	AGCTCACACATAATCTTCTTCTTCTT	58.607	34.615	0.00	0.00	0.00	2.52
836	1073	3.198068	TCGCATCTTTGTGGAGATAAGC	58.802	45.455	0.00	0.00	34.68	3.09
841	1078	4.801330	TCTTTGTGGAGATAAGCTCGAA	57.199	40.909	0.00	0.00	44.91	3.71
880	1119	3.391382	CACAGACCCCTCCGTCCC	61.391	72.222	0.00	0.00	32.91	4.46
953	1221	3.793559	ACAGTGCAACGAAGAAGTACTT	58.206	40.909	8.13	8.13	45.86	2.24
960	1228	4.671068	GCAACGAAGAAGTACTTTGCTTTC	59.329	41.667	16.75	13.38	42.17	2.62
991	1259	2.757868	ACTCAAGAACAGAGATCGGAGG	59.242	50.000	0.00	0.00	36.91	4.30
993	1261	3.636300	CTCAAGAACAGAGATCGGAGGAT	59.364	47.826	0.00	0.00	35.09	3.24
1040	1318	4.875713	GGCGGCGGTGATGGGATT	62.876	66.667	9.78	0.00	0.00	3.01
1536	2061	2.121786	GACTGTCTTGCAACGTACGAA	58.878	47.619	24.41	4.46	0.00	3.85
1711	2237	7.061557	GTGTAGCTCTTTTTCTGAATGATTTGC	59.938	37.037	0.00	0.00	0.00	3.68
1722	2248	4.740268	TGAATGATTTGCAGATTGCTCAC	58.260	39.130	2.48	0.00	45.31	3.51
1732	2258	1.589716	GATTGCTCACCACACCTGCC	61.590	60.000	0.00	0.00	0.00	4.85
1733	2259	4.624364	TGCTCACCACACCTGCCG	62.624	66.667	0.00	0.00	0.00	5.69
1747	2273	4.236416	GCCGCGCGGTAGTACGTA	62.236	66.667	45.02	0.00	37.65	3.57
1748	2274	2.351210	CCGCGCGGTAGTACGTAC	60.351	66.667	39.71	18.10	35.98	3.67
1749	2275	2.715077	CGCGCGGTAGTACGTACG	60.715	66.667	24.84	15.01	35.98	3.67
1750	2276	2.399611	GCGCGGTAGTACGTACGT	59.600	61.111	25.98	25.98	35.98	3.57
1751	2277	1.634225	GCGCGGTAGTACGTACGTA	59.366	57.895	23.60	23.60	35.98	3.57
1752	2278	0.381909	GCGCGGTAGTACGTACGTAG	60.382	60.000	27.48	16.43	35.98	3.51
1753	2279	0.381909	CGCGGTAGTACGTACGTAGC	60.382	60.000	27.48	23.44	35.98	3.58
1754	2280	0.931005	GCGGTAGTACGTACGTAGCT	59.069	55.000	27.48	25.29	35.98	3.32
1755	2281	1.071173	GCGGTAGTACGTACGTAGCTC	60.071	57.143	27.48	16.22	35.98	4.09
1756	2282	2.464865	CGGTAGTACGTACGTAGCTCT	58.535	52.381	27.48	21.87	31.59	4.09
1757	2283	2.469516	CGGTAGTACGTACGTAGCTCTC	59.530	54.545	27.48	15.52	31.59	3.20
1758	2284	3.712187	GGTAGTACGTACGTAGCTCTCT	58.288	50.000	27.48	21.21	31.59	3.10
1759	2285	4.116238	GGTAGTACGTACGTAGCTCTCTT	58.884	47.826	27.48	10.21	31.59	2.85
1760	2286	4.568760	GGTAGTACGTACGTAGCTCTCTTT	59.431	45.833	27.48	8.99	31.59	2.52
1761	2287	4.596801	AGTACGTACGTAGCTCTCTTTG	57.403	45.455	27.48	0.00	0.00	2.77
1762	2288	4.248859	AGTACGTACGTAGCTCTCTTTGA	58.751	43.478	27.48	1.40	0.00	2.69
1763	2289	4.874966	AGTACGTACGTAGCTCTCTTTGAT	59.125	41.667	27.48	0.00	0.00	2.57
1764	2290	6.045318	AGTACGTACGTAGCTCTCTTTGATA	58.955	40.000	27.48	0.70	0.00	2.15
1765	2291	5.808042	ACGTACGTAGCTCTCTTTGATAA	57.192	39.130	21.41	0.00	0.00	1.75
1766	2292	6.374565	ACGTACGTAGCTCTCTTTGATAAT	57.625	37.500	21.41	0.00	0.00	1.28
1767	2293	6.793349	ACGTACGTAGCTCTCTTTGATAATT	58.207	36.000	21.41	0.00	0.00	1.40
1768	2294	6.691818	ACGTACGTAGCTCTCTTTGATAATTG	59.308	38.462	21.41	0.00	0.00	2.32
1769	2295	6.910972	CGTACGTAGCTCTCTTTGATAATTGA	59.089	38.462	7.22	0.00	0.00	2.57
1770	2296	7.431376	CGTACGTAGCTCTCTTTGATAATTGAA	59.569	37.037	7.22	0.00	0.00	2.69
1771	2297	7.763172	ACGTAGCTCTCTTTGATAATTGAAG	57.237	36.000	0.00	0.00	0.00	3.02
1772	2298	6.758886	ACGTAGCTCTCTTTGATAATTGAAGG	59.241	38.462	0.00	0.00	0.00	3.46
1773	2299	6.980978	CGTAGCTCTCTTTGATAATTGAAGGA	59.019	38.462	0.00	0.00	0.00	3.36
1774	2300	7.492669	CGTAGCTCTCTTTGATAATTGAAGGAA	59.507	37.037	0.00	0.00	0.00	3.36
1775	2301	9.336171	GTAGCTCTCTTTGATAATTGAAGGAAT	57.664	33.333	0.00	0.00	0.00	3.01
1776	2302	8.820153	AGCTCTCTTTGATAATTGAAGGAATT	57.180	30.769	0.00	0.00	37.96	2.17
1777	2303	9.252635	AGCTCTCTTTGATAATTGAAGGAATTT	57.747	29.630	0.00	0.00	35.74	1.82
1778	2304	9.298774	GCTCTCTTTGATAATTGAAGGAATTTG	57.701	33.333	0.00	0.00	35.74	2.32
1786	2312	8.966868	TGATAATTGAAGGAATTTGTTACCTCC	58.033	33.333	0.00	0.00	35.74	4.30
1815	2341	1.603802	CGTTTCTTCCTTGCAAGCTGA	59.396	47.619	21.43	14.33	0.00	4.26
1868	2394	6.258727	CCACAGTACATTAATCCATGTCAGTC	59.741	42.308	0.00	0.00	38.40	3.51
1872	2398	8.554528	CAGTACATTAATCCATGTCAGTCATTC	58.445	37.037	0.00	0.00	38.40	2.67
1876	2402	7.067859	ACATTAATCCATGTCAGTCATTCCTTG	59.932	37.037	0.00	0.00	31.26	3.61
1882	2408	5.922544	CCATGTCAGTCATTCCTTGTTTTTC	59.077	40.000	0.00	0.00	34.09	2.29
2109	2640	1.345741	CACAGGTGAAAGAGGCAGAGA	59.654	52.381	0.00	0.00	0.00	3.10
2193	2724	2.214181	CTGTAGAACAGGCGCTCGGT	62.214	60.000	7.64	1.02	42.35	4.69
2231	2762	2.828549	GATGTTCCCCGCGCCAAT	60.829	61.111	0.00	0.00	0.00	3.16
2254	2785	4.406972	TCTGGATCCAGATCTGACGAATTT	59.593	41.667	35.92	0.00	46.80	1.82
2411	2944	1.069090	TCTGAACGAACGGCAAGCT	59.931	52.632	0.00	0.00	0.00	3.74

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
50	56	1.026182	GCAATGATCTGCCGTGACCA	61.026	55.000	0.00	0.00	36.25	4.02
100	113	3.411351	CCCACAAACTCGTCCGCG	61.411	66.667	0.00	0.00	39.92	6.46
131	144	8.378172	TCTTTAGTGTTTGTGGTTATCTGAAG	57.622	34.615	0.00	0.00	0.00	3.02
158	171	1.524008	GGCCTTTTGGGGACTCGTTG	61.524	60.000	0.00	0.00	40.82	4.10
162	175	0.679505	GTTTGGCCTTTTGGGGACTC	59.320	55.000	3.32	0.00	40.82	3.36
175	188	4.094739	GCCACATATTTTCCATTGTTTGGC	59.905	41.667	0.00	0.00	46.01	4.52
197	213	1.824230	TGGGCTAATTGATTGTGTGGC	59.176	47.619	0.00	0.00	0.00	5.01
208	224	1.202639	TGCGACGATGATGGGCTAATT	60.203	47.619	0.00	0.00	0.00	1.40
251	267	3.520862	GTCGCCCCACATGCATGG	61.521	66.667	29.41	15.39	39.71	3.66
252	268	2.274232	CTTGTCGCCCCACATGCATG	62.274	60.000	25.09	25.09	0.00	4.06
462	543	9.823647	TCAATATTGCCAACTTGTTTTAGAAAA	57.176	25.926	10.76	0.00	0.00	2.29
464	545	9.255304	GTTCAATATTGCCAACTTGTTTTAGAA	57.745	29.630	10.76	0.00	0.00	2.10
787	1010	5.188555	AGAAGAAGATTATGTGTGAGCTCCA	59.811	40.000	12.15	6.01	0.00	3.86
815	1052	3.118629	AGCTTATCTCCACAAAGATGCGA	60.119	43.478	0.00	0.00	36.66	5.10
836	1073	0.809385	TCGTACTCCCAGCTTTCGAG	59.191	55.000	0.00	0.00	0.00	4.04
841	1078	1.889530	GCCACTCGTACTCCCAGCTT	61.890	60.000	0.00	0.00	0.00	3.74
849	1087	0.826256	TCTGTGGTGCCACTCGTACT	60.826	55.000	20.46	0.00	46.30	2.73
880	1119	2.613977	CCGCTGGATTTATAGGAGCTGG	60.614	54.545	0.00	0.00	0.00	4.85
885	1136	1.000506	GACGCCGCTGGATTTATAGGA	59.999	52.381	0.00	0.00	0.00	2.94
960	1228	2.414481	CTGTTCTTGAGTGCTTGATCCG	59.586	50.000	0.00	0.00	0.00	4.18
991	1259	2.243407	GAACGTAGCCATCGATCGATC	58.757	52.381	27.20	17.11	31.62	3.69
993	1261	3.839654	GAACGTAGCCATCGATCGA	57.160	52.632	21.86	21.86	0.00	3.59
1536	2061	2.933287	TGGGCCGTCCAATCCTGT	60.933	61.111	0.00	0.00	43.84	4.00
1587	2112	5.938125	AGATCTTTAAAAACGCCTCTTGCTA	59.062	36.000	0.00	0.00	38.05	3.49
1659	2185	6.879458	AGTATATATTCCTTGGCCGTTGATTC	59.121	38.462	0.00	0.00	0.00	2.52
1663	2189	5.179368	CACAGTATATATTCCTTGGCCGTTG	59.821	44.000	0.00	0.00	0.00	4.10
1711	2237	1.162698	CAGGTGTGGTGAGCAATCTG	58.837	55.000	0.00	0.00	0.00	2.90
1732	2258	2.073188	TACGTACGTACTACCGCGCG	62.073	60.000	25.67	25.67	35.45	6.86
1733	2259	0.381909	CTACGTACGTACTACCGCGC	60.382	60.000	23.60	0.00	0.00	6.86
1734	2260	0.381909	GCTACGTACGTACTACCGCG	60.382	60.000	23.60	13.21	0.00	6.46
1735	2261	0.931005	AGCTACGTACGTACTACCGC	59.069	55.000	23.60	22.70	0.00	5.68
1736	2262	2.464865	AGAGCTACGTACGTACTACCG	58.535	52.381	23.60	14.59	0.00	4.02
1737	2263	3.712187	AGAGAGCTACGTACGTACTACC	58.288	50.000	23.60	17.43	0.00	3.18
1738	2264	5.289675	TCAAAGAGAGCTACGTACGTACTAC	59.710	44.000	23.60	19.02	0.00	2.73
1739	2265	5.410924	TCAAAGAGAGCTACGTACGTACTA	58.589	41.667	23.60	6.61	0.00	1.82
1740	2266	4.248859	TCAAAGAGAGCTACGTACGTACT	58.751	43.478	23.60	22.69	0.00	2.73
1741	2267	4.590400	TCAAAGAGAGCTACGTACGTAC	57.410	45.455	23.60	18.90	0.00	3.67
1742	2268	6.908870	TTATCAAAGAGAGCTACGTACGTA	57.091	37.500	25.41	25.41	0.00	3.57
1743	2269	5.808042	TTATCAAAGAGAGCTACGTACGT	57.192	39.130	25.98	25.98	0.00	3.57
1744	2270	6.910972	TCAATTATCAAAGAGAGCTACGTACG	59.089	38.462	15.01	15.01	0.00	3.67
1745	2271	8.630278	TTCAATTATCAAAGAGAGCTACGTAC	57.370	34.615	0.00	0.00	0.00	3.67
1746	2272	7.921214	CCTTCAATTATCAAAGAGAGCTACGTA	59.079	37.037	0.00	0.00	0.00	3.57
1747	2273	6.758886	CCTTCAATTATCAAAGAGAGCTACGT	59.241	38.462	0.00	0.00	0.00	3.57
1748	2274	6.980978	TCCTTCAATTATCAAAGAGAGCTACG	59.019	38.462	0.00	0.00	0.00	3.51
1749	2275	8.723942	TTCCTTCAATTATCAAAGAGAGCTAC	57.276	34.615	0.00	0.00	0.00	3.58
1750	2276	9.911788	AATTCCTTCAATTATCAAAGAGAGCTA	57.088	29.630	0.00	0.00	32.48	3.32
1751	2277	8.820153	AATTCCTTCAATTATCAAAGAGAGCT	57.180	30.769	0.00	0.00	32.48	4.09
1752	2278	9.298774	CAAATTCCTTCAATTATCAAAGAGAGC	57.701	33.333	0.00	0.00	33.16	4.09
1760	2286	8.966868	GGAGGTAACAAATTCCTTCAATTATCA	58.033	33.333	0.00	0.00	33.16	2.15
1761	2287	8.966868	TGGAGGTAACAAATTCCTTCAATTATC	58.033	33.333	0.00	0.00	34.33	1.75
1762	2288	8.893563	TGGAGGTAACAAATTCCTTCAATTAT	57.106	30.769	0.00	0.00	34.33	1.28
1763	2289	7.396055	CCTGGAGGTAACAAATTCCTTCAATTA	59.604	37.037	0.00	0.00	36.55	1.40
1764	2290	6.211384	CCTGGAGGTAACAAATTCCTTCAATT	59.789	38.462	0.00	0.00	36.55	2.32
1765	2291	5.716703	CCTGGAGGTAACAAATTCCTTCAAT	59.283	40.000	0.00	0.00	36.55	2.57
1766	2292	5.076873	CCTGGAGGTAACAAATTCCTTCAA	58.923	41.667	0.00	0.00	36.55	2.69
1767	2293	4.662278	CCTGGAGGTAACAAATTCCTTCA	58.338	43.478	0.00	0.00	35.75	3.02
1782	2308	0.905357	AGAAACGATGGACCTGGAGG	59.095	55.000	0.00	0.00	42.17	4.30
1783	2309	2.622436	GAAGAAACGATGGACCTGGAG	58.378	52.381	0.00	0.00	0.00	3.86
1784	2310	1.278127	GGAAGAAACGATGGACCTGGA	59.722	52.381	0.00	0.00	0.00	3.86
1785	2311	1.279271	AGGAAGAAACGATGGACCTGG	59.721	52.381	0.00	0.00	0.00	4.45
1786	2312	2.744202	CAAGGAAGAAACGATGGACCTG	59.256	50.000	0.00	0.00	0.00	4.00
1853	2379	6.484288	ACAAGGAATGACTGACATGGATTAA	58.516	36.000	0.00	0.00	39.39	1.40
1924	2451	2.778299	AGTTTCCGCATGTATGTGTGT	58.222	42.857	4.88	0.00	36.60	3.72
2109	2640	2.104622	CCTGGATTTTGGTTTGCTGGTT	59.895	45.455	0.00	0.00	0.00	3.67
2193	2724	2.048597	GGTCGACACGCCACATCA	60.049	61.111	18.91	0.00	0.00	3.07

Based at the University of Bristol with support from BBSRC.

AutoCloner maintained by Alex Coulton.