AutoCloner

Multiple sequence alignment - TraesCS2A01G056300

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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	TraesCS2A01G056300	chr2A	100.000	2784	0	0	1	2784	23966995	23969778	0.000000e+00	5142.0
1	TraesCS2A01G056300	chr2D	90.768	1094	75	13	769	1847	22151232	22152314	0.000000e+00	1437.0
2	TraesCS2A01G056300	chr2D	82.210	1231	148	39	1380	2578	22127877	22129068	0.000000e+00	994.0
3	TraesCS2A01G056300	chr2D	89.172	628	39	7	769	1383	22110425	22109814	0.000000e+00	756.0
4	TraesCS2A01G056300	chr2D	86.243	378	49	1	1447	1821	22109718	22109341	9.280000e-110	407.0
5	TraesCS2A01G056300	chr2D	91.391	151	5	1	87	229	44212018	44211868	1.690000e-47	200.0
6	TraesCS2A01G056300	chr2D	89.437	142	8	7	460	600	603988960	603988825	3.690000e-39	172.0
7	TraesCS2A01G056300	chr2D	84.571	175	14	6	771	932	22150793	22150967	7.980000e-36	161.0
8	TraesCS2A01G056300	chr2D	93.750	80	5	0	4	83	22150714	22150793	1.350000e-23	121.0
9	TraesCS2A01G056300	chr2D	92.683	82	6	0	4	85	22110503	22110422	4.870000e-23	119.0
10	TraesCS2A01G056300	chr2D	76.871	147	28	5	841	984	30456716	30456859	8.270000e-11	78.7
11	TraesCS2A01G056300	chr2B	89.377	1092	74	23	769	1834	35124584	35125659	0.000000e+00	1336.0
12	TraesCS2A01G056300	chr2B	90.690	870	58	17	1720	2578	35140143	35141000	0.000000e+00	1136.0
13	TraesCS2A01G056300	chr2B	92.157	204	15	1	2582	2784	35141038	35141241	1.260000e-73	287.0
14	TraesCS2A01G056300	chr2B	87.603	242	24	2	2300	2535	35273306	35273547	2.730000e-70	276.0
15	TraesCS2A01G056300	chr2B	90.361	83	6	2	4	85	35124506	35124587	1.050000e-19	108.0
16	TraesCS2A01G056300	chr2B	75.566	221	39	10	775	984	49909256	49909472	8.210000e-16	95.3
17	TraesCS2A01G056300	chr2B	88.235	68	3	3	705	768	764510691	764510625	2.970000e-10	76.8
18	TraesCS2A01G056300	chr5D	86.422	1090	110	17	769	1821	75919574	75920662	0.000000e+00	1158.0
19	TraesCS2A01G056300	chr5D	92.683	82	6	0	4	85	75919496	75919577	4.870000e-23	119.0
20	TraesCS2A01G056300	chr3B	97.222	684	11	6	87	769	267432310	267431634	0.000000e+00	1151.0
21	TraesCS2A01G056300	chr3B	96.637	684	11	6	87	769	267431000	267430328	0.000000e+00	1125.0
22	TraesCS2A01G056300	chr5B	90.895	626	44	1	769	1381	84626935	84627560	0.000000e+00	828.0
23	TraesCS2A01G056300	chr5B	79.130	230	18	23	565	769	709855198	709854974	6.260000e-27	132.0
24	TraesCS2A01G056300	chr5B	93.902	82	5	0	4	85	84626857	84626938	1.050000e-24	124.0
25	TraesCS2A01G056300	chr5A	90.484	620	46	5	769	1375	71397649	71398268	0.000000e+00	806.0
26	TraesCS2A01G056300	chr5A	83.819	686	82	27	87	751	699388037	699387360	2.350000e-175	625.0
27	TraesCS2A01G056300	chr5A	83.097	704	86	30	87	770	699367969	699367279	6.590000e-171	610.0
28	TraesCS2A01G056300	chr5A	87.302	378	45	3	1447	1821	71398359	71398736	1.980000e-116	429.0
29	TraesCS2A01G056300	chr5A	93.902	82	5	0	4	85	71397571	71397652	1.050000e-24	124.0
30	TraesCS2A01G056300	chr1B	90.656	610	31	22	87	686	6000900	6000307	0.000000e+00	787.0
31	TraesCS2A01G056300	chr7B	89.189	629	55	5	769	1384	681580047	681579419	0.000000e+00	773.0
32	TraesCS2A01G056300	chr7B	82.000	550	83	13	1447	1989	681579232	681578692	1.180000e-123	453.0
33	TraesCS2A01G056300	chr7B	100.000	33	0	0	53	85	681580076	681580044	8.330000e-06	62.1
34	TraesCS2A01G056300	chr7A	92.899	338	16	1	85	414	724312400	724312063	4.170000e-133	484.0
35	TraesCS2A01G056300	chr7A	91.393	244	6	9	531	768	11667543	11667777	1.240000e-83	320.0
36	TraesCS2A01G056300	chr7A	91.020	245	7	9	531	769	11664757	11664992	1.610000e-82	316.0
37	TraesCS2A01G056300	chr7A	91.020	245	7	9	531	769	11666150	11666385	1.610000e-82	316.0
38	TraesCS2A01G056300	chr7A	86.532	297	28	10	398	686	724310025	724309733	1.610000e-82	316.0
39	TraesCS2A01G056300	chr4A	90.547	201	17	2	189	388	615159897	615159698	5.910000e-67	265.0
40	TraesCS2A01G056300	chr4A	89.552	67	4	2	705	768	666449110	666449176	6.390000e-12	82.4
41	TraesCS2A01G056300	chr6D	89.796	147	5	7	533	675	14148663	14148803	2.200000e-41	180.0
42	TraesCS2A01G056300	chr3A	82.791	215	24	12	460	671	750641603	750641807	2.200000e-41	180.0
43	TraesCS2A01G056300	chrUn	79.874	159	17	12	96	245	311776197	311776045	4.910000e-18	102.0
44	TraesCS2A01G056300	chrUn	79.874	159	17	12	96	245	331231212	331231060	4.910000e-18	102.0
45	TraesCS2A01G056300	chr1D	94.030	67	3	1	703	769	46224774	46224839	1.760000e-17	100.0

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	TraesCS2A01G056300	chr2A	23966995	23969778	2783	False	5142.000000	5142	100.000000	1	2784	1	chr2A.!!$F1	2783
1	TraesCS2A01G056300	chr2D	22127877	22129068	1191	False	994.000000	994	82.210000	1380	2578	1	chr2D.!!$F1	1198
2	TraesCS2A01G056300	chr2D	22150714	22152314	1600	False	573.000000	1437	89.696333	4	1847	3	chr2D.!!$F3	1843
3	TraesCS2A01G056300	chr2D	22109341	22110503	1162	True	427.333333	756	89.366000	4	1821	3	chr2D.!!$R3	1817
4	TraesCS2A01G056300	chr2B	35124506	35125659	1153	False	722.000000	1336	89.869000	4	1834	2	chr2B.!!$F3	1830
5	TraesCS2A01G056300	chr2B	35140143	35141241	1098	False	711.500000	1136	91.423500	1720	2784	2	chr2B.!!$F4	1064
6	TraesCS2A01G056300	chr5D	75919496	75920662	1166	False	638.500000	1158	89.552500	4	1821	2	chr5D.!!$F1	1817
7	TraesCS2A01G056300	chr3B	267430328	267432310	1982	True	1138.000000	1151	96.929500	87	769	2	chr3B.!!$R1	682
8	TraesCS2A01G056300	chr5B	84626857	84627560	703	False	476.000000	828	92.398500	4	1381	2	chr5B.!!$F1	1377
9	TraesCS2A01G056300	chr5A	699387360	699388037	677	True	625.000000	625	83.819000	87	751	1	chr5A.!!$R2	664
10	TraesCS2A01G056300	chr5A	699367279	699367969	690	True	610.000000	610	83.097000	87	770	1	chr5A.!!$R1	683
11	TraesCS2A01G056300	chr5A	71397571	71398736	1165	False	453.000000	806	90.562667	4	1821	3	chr5A.!!$F1	1817
12	TraesCS2A01G056300	chr1B	6000307	6000900	593	True	787.000000	787	90.656000	87	686	1	chr1B.!!$R1	599
13	TraesCS2A01G056300	chr7B	681578692	681580076	1384	True	429.366667	773	90.396333	53	1989	3	chr7B.!!$R1	1936
14	TraesCS2A01G056300	chr7A	724309733	724312400	2667	True	400.000000	484	89.715500	85	686	2	chr7A.!!$R1	601
15	TraesCS2A01G056300	chr7A	11664757	11667777	3020	False	317.333333	320	91.144333	531	769	3	chr7A.!!$F1	238

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
586	4072	2.806929	CGAGAGGGCTGAGCAGAG	59.193	66.667	6.82	0.0	0.00	3.35	F
1607	7470	0.239879	GATGCGGGCAAACGAGAAAA	59.760	50.000	0.00	0.0	35.47	2.29	F

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability	Orientation
1645	7508	1.207488	TCCCCTCACCCATCACCTTG	61.207	60.0	0.00	0.00	0.0	3.61	R
2748	8686	6.924111	ACAAAGTTGGCCTATAAACTCAATG	58.076	36.0	3.32	8.15	35.6	2.82	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
586	4072	2.806929	CGAGAGGGCTGAGCAGAG	59.193	66.667	6.82	0.00	0.00	3.35
690	5912	3.262420	GTGTGTGTTCTTGTGTGAGACT	58.738	45.455	0.00	0.00	0.00	3.24
1140	6810	2.440796	ATGGCATGGCTGGAACGG	60.441	61.111	21.08	0.00	38.10	4.44
1149	6819	2.982130	CTGGAACGGCAGCCTACT	59.018	61.111	10.54	0.00	0.00	2.57
1150	6820	2.199117	CTGGAACGGCAGCCTACTA	58.801	57.895	10.54	0.00	0.00	1.82
1151	6821	0.753262	CTGGAACGGCAGCCTACTAT	59.247	55.000	10.54	0.00	0.00	2.12
1152	6822	0.750850	TGGAACGGCAGCCTACTATC	59.249	55.000	10.54	0.16	0.00	2.08
1233	6935	0.960364	TTGGAAATGGGCTCTGCGAC	60.960	55.000	0.00	0.00	0.00	5.19
1281	6983	3.513912	TGAGATCCAGCGAGGTAGAAAAA	59.486	43.478	0.00	0.00	39.02	1.94
1332	7034	4.415596	AGGAAAATGGATTACTTGTGCCA	58.584	39.130	0.00	0.00	34.45	4.92
1366	7068	0.613260	TGAGGTCTTGGCGCATAAGT	59.387	50.000	19.05	4.72	0.00	2.24
1376	7078	2.036733	TGGCGCATAAGTCCATAGGTAC	59.963	50.000	10.83	0.00	0.00	3.34
1384	7090	7.383029	CGCATAAGTCCATAGGTACGAAAAATA	59.617	37.037	0.00	0.00	0.00	1.40
1462	7324	4.983671	AACTTCAGGTTGTTTCTTGACC	57.016	40.909	0.00	0.00	36.70	4.02
1607	7470	0.239879	GATGCGGGCAAACGAGAAAA	59.760	50.000	0.00	0.00	35.47	2.29
1645	7508	2.512515	GTGGAGAGGTGCATCCGC	60.513	66.667	2.03	2.03	41.99	5.54
1663	7529	1.304282	CAAGGTGATGGGTGAGGGG	59.696	63.158	0.00	0.00	0.00	4.79
1723	7590	0.905809	TGGCAAAGGAGGCAATGCAT	60.906	50.000	7.79	0.00	41.47	3.96
1732	7599	1.041447	AGGCAATGCATGAAGGAGGC	61.041	55.000	7.79	0.00	0.00	4.70
1734	7601	0.179119	GCAATGCATGAAGGAGGCAC	60.179	55.000	0.00	0.00	45.91	5.01
1745	7612	3.809905	GAAGGAGGCACTTCGGATAAAT	58.190	45.455	6.26	0.00	40.41	1.40
1835	7702	7.593825	TCGATAGTCATATTGTGATTCATCGT	58.406	34.615	16.25	0.00	40.98	3.73
1941	7818	9.127277	ACTTTAATTTTCTTGTGTTAGTAGCCA	57.873	29.630	0.00	0.00	0.00	4.75
2048	7925	6.862711	AGGTGTAAGCTTTAGAGAACAAAC	57.137	37.500	3.20	0.00	46.63	2.93
2063	7940	6.372659	AGAGAACAAACGATGTAATGATGCTT	59.627	34.615	0.00	0.00	42.99	3.91
2064	7941	6.913170	AGAACAAACGATGTAATGATGCTTT	58.087	32.000	0.00	0.00	42.99	3.51
2066	7943	8.511321	AGAACAAACGATGTAATGATGCTTTAA	58.489	29.630	0.00	0.00	42.99	1.52
2067	7944	8.447787	AACAAACGATGTAATGATGCTTTAAC	57.552	30.769	0.00	0.00	42.99	2.01
2069	7946	8.079203	ACAAACGATGTAATGATGCTTTAACAA	58.921	29.630	0.00	0.00	41.63	2.83
2070	7947	8.910666	CAAACGATGTAATGATGCTTTAACAAA	58.089	29.630	0.00	0.00	0.00	2.83
2071	7948	8.447787	AACGATGTAATGATGCTTTAACAAAC	57.552	30.769	0.00	0.00	0.00	2.93
2072	7949	6.740905	ACGATGTAATGATGCTTTAACAAACG	59.259	34.615	0.00	0.00	0.00	3.60
2073	7950	6.958752	CGATGTAATGATGCTTTAACAAACGA	59.041	34.615	0.00	0.00	0.00	3.85
2074	7951	7.639850	CGATGTAATGATGCTTTAACAAACGAT	59.360	33.333	0.00	0.00	0.00	3.73
2075	7952	8.619146	ATGTAATGATGCTTTAACAAACGATG	57.381	30.769	0.00	0.00	0.00	3.84
2076	7953	7.589395	TGTAATGATGCTTTAACAAACGATGT	58.411	30.769	0.00	0.00	46.82	3.06
2077	7954	6.932901	AATGATGCTTTAACAAACGATGTG	57.067	33.333	0.00	0.00	42.99	3.21
2079	7956	6.252967	TGATGCTTTAACAAACGATGTGAT	57.747	33.333	0.00	0.00	42.99	3.06
2080	7957	6.085573	TGATGCTTTAACAAACGATGTGATG	58.914	36.000	0.00	0.00	42.99	3.07
2081	7958	5.681337	TGCTTTAACAAACGATGTGATGA	57.319	34.783	0.00	0.00	42.99	2.92
2083	7960	6.085573	TGCTTTAACAAACGATGTGATGATG	58.914	36.000	0.00	0.00	42.99	3.07
2085	7962	5.878332	TTAACAAACGATGTGATGATGCT	57.122	34.783	0.00	0.00	42.99	3.79
2097	7984	5.559770	TGTGATGATGCTTTAACTTGGAGA	58.440	37.500	0.00	0.00	0.00	3.71
2100	7987	7.177216	TGTGATGATGCTTTAACTTGGAGAAAT	59.823	33.333	0.00	0.00	0.00	2.17
2101	7988	8.031277	GTGATGATGCTTTAACTTGGAGAAATT	58.969	33.333	0.00	0.00	0.00	1.82
2102	7989	8.587608	TGATGATGCTTTAACTTGGAGAAATTT	58.412	29.630	0.00	0.00	0.00	1.82
2103	7990	8.767478	ATGATGCTTTAACTTGGAGAAATTTG	57.233	30.769	0.00	0.00	0.00	2.32
2105	7992	7.867403	TGATGCTTTAACTTGGAGAAATTTGAC	59.133	33.333	0.00	0.00	0.00	3.18
2106	7993	7.106439	TGCTTTAACTTGGAGAAATTTGACA	57.894	32.000	0.00	0.00	0.00	3.58
2180	8081	7.332678	CCAAAATTTAGAAAATCTGCCTCAAGG	59.667	37.037	0.00	0.00	38.53	3.61
2182	8083	7.544804	AATTTAGAAAATCTGCCTCAAGGTT	57.455	32.000	0.00	0.00	37.57	3.50
2226	8127	6.801539	TCAGACTTTACATCATTTGACACC	57.198	37.500	0.00	0.00	0.00	4.16
2601	8538	9.660180	ATTCCAGTACTTGAATTCTACTTCTTC	57.340	33.333	14.78	0.00	0.00	2.87
2660	8597	8.758633	TTCAGTTGTATGCTTCTACTTTACTC	57.241	34.615	0.00	0.00	0.00	2.59
2721	8658	6.945435	TGGCAGAATACAACTTGAAGGATTTA	59.055	34.615	0.00	0.00	0.00	1.40

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
280	290	4.308458	TCCAACGTGCCTGGTCGG	62.308	66.667	15.13	0.00	35.30	4.79
580	4066	3.743521	TGTGCTACATTGTTTCTCTGCT	58.256	40.909	0.00	0.00	0.00	4.24
690	5912	5.880887	TCGCACAACTCTCTATCTCTCTTTA	59.119	40.000	0.00	0.00	0.00	1.85
770	5992	0.660595	CACGCCTCGCCGTAGATAAG	60.661	60.000	0.00	0.00	39.83	1.73
771	5993	1.357690	CACGCCTCGCCGTAGATAA	59.642	57.895	0.00	0.00	39.83	1.75
772	5994	2.549198	CCACGCCTCGCCGTAGATA	61.549	63.158	0.00	0.00	39.83	1.98
990	6660	0.324368	TGGACTCCATGTACTCCGCT	60.324	55.000	0.00	0.00	0.00	5.52
1140	6810	2.485038	GACTACCGAGATAGTAGGCTGC	59.515	54.545	0.00	0.00	41.79	5.25
1142	6812	2.981081	AGGACTACCGAGATAGTAGGCT	59.019	50.000	3.95	0.00	44.06	4.58
1143	6813	3.337358	GAGGACTACCGAGATAGTAGGC	58.663	54.545	3.26	0.00	43.90	3.93
1144	6814	3.587923	CGAGGACTACCGAGATAGTAGG	58.412	54.545	3.26	0.00	41.28	3.18
1145	6815	2.995258	GCGAGGACTACCGAGATAGTAG	59.005	54.545	0.00	0.00	42.42	2.57
1146	6816	2.608998	CGCGAGGACTACCGAGATAGTA	60.609	54.545	0.00	0.00	41.83	1.82
1147	6817	1.873069	CGCGAGGACTACCGAGATAGT	60.873	57.143	0.00	0.00	41.83	2.12
1148	6818	0.791422	CGCGAGGACTACCGAGATAG	59.209	60.000	0.00	0.00	41.83	2.08
1149	6819	0.105593	ACGCGAGGACTACCGAGATA	59.894	55.000	15.93	0.00	41.83	1.98
1150	6820	1.153208	ACGCGAGGACTACCGAGAT	60.153	57.895	15.93	0.00	41.83	2.75
1151	6821	1.812922	GACGCGAGGACTACCGAGA	60.813	63.158	15.93	0.00	41.83	4.04
1152	6822	2.708255	GACGCGAGGACTACCGAG	59.292	66.667	15.93	0.00	41.83	4.63
1233	6935	0.393537	AGAGAAATGGCTTGCCGGAG	60.394	55.000	5.05	0.00	0.00	4.63
1281	6983	9.327628	CATCTGTCATTGAGTTCTTCAGATATT	57.672	33.333	12.31	0.00	38.54	1.28
1297	6999	4.773674	TCCATTTTCCTTGCATCTGTCATT	59.226	37.500	0.00	0.00	0.00	2.57
1366	7068	5.901276	ACTCCCTATTTTTCGTACCTATGGA	59.099	40.000	0.00	0.00	0.00	3.41
1462	7324	1.811266	CGAGTTCCATCCGCAGTGG	60.811	63.158	0.00	0.00	38.11	4.00
1598	7461	2.158813	TCCTCACCAAGCTTTTCTCGTT	60.159	45.455	0.00	0.00	0.00	3.85
1607	7470	1.614824	CCTCCCTCCTCACCAAGCT	60.615	63.158	0.00	0.00	0.00	3.74
1645	7508	1.207488	TCCCCTCACCCATCACCTTG	61.207	60.000	0.00	0.00	0.00	3.61
1656	7519	1.763545	GGTACTCATCCTTCCCCTCAC	59.236	57.143	0.00	0.00	0.00	3.51
1663	7529	4.662145	CATTTTTGCGGTACTCATCCTTC	58.338	43.478	0.00	0.00	0.00	3.46
1723	7590	1.860641	TATCCGAAGTGCCTCCTTCA	58.139	50.000	8.15	0.00	40.72	3.02
1794	7661	5.844004	ACTATCGAGTGGTTGTGGATAATC	58.156	41.667	0.00	0.00	33.41	1.75
1941	7818	7.995289	TCGATATAAAATTGGATTTGTGCAGT	58.005	30.769	0.00	0.00	31.77	4.40
2048	7925	6.958752	TCGTTTGTTAAAGCATCATTACATCG	59.041	34.615	0.00	0.00	0.00	3.84
2063	7940	5.878332	AGCATCATCACATCGTTTGTTAA	57.122	34.783	0.00	0.00	36.00	2.01
2064	7941	5.878332	AAGCATCATCACATCGTTTGTTA	57.122	34.783	0.00	0.00	36.00	2.41
2066	7943	4.771590	AAAGCATCATCACATCGTTTGT	57.228	36.364	0.00	0.00	39.91	2.83
2067	7944	6.317088	AGTTAAAGCATCATCACATCGTTTG	58.683	36.000	0.00	0.00	0.00	2.93
2069	7946	6.317088	CAAGTTAAAGCATCATCACATCGTT	58.683	36.000	0.00	0.00	0.00	3.85
2070	7947	5.163723	CCAAGTTAAAGCATCATCACATCGT	60.164	40.000	0.00	0.00	0.00	3.73
2071	7948	5.065090	TCCAAGTTAAAGCATCATCACATCG	59.935	40.000	0.00	0.00	0.00	3.84
2072	7949	6.317140	TCTCCAAGTTAAAGCATCATCACATC	59.683	38.462	0.00	0.00	0.00	3.06
2073	7950	6.182627	TCTCCAAGTTAAAGCATCATCACAT	58.817	36.000	0.00	0.00	0.00	3.21
2074	7951	5.559770	TCTCCAAGTTAAAGCATCATCACA	58.440	37.500	0.00	0.00	0.00	3.58
2075	7952	6.500684	TTCTCCAAGTTAAAGCATCATCAC	57.499	37.500	0.00	0.00	0.00	3.06
2076	7953	7.707624	ATTTCTCCAAGTTAAAGCATCATCA	57.292	32.000	0.00	0.00	0.00	3.07
2077	7954	8.866956	CAAATTTCTCCAAGTTAAAGCATCATC	58.133	33.333	0.00	0.00	0.00	2.92
2079	7956	7.867403	GTCAAATTTCTCCAAGTTAAAGCATCA	59.133	33.333	0.00	0.00	0.00	3.07
2080	7957	7.867403	TGTCAAATTTCTCCAAGTTAAAGCATC	59.133	33.333	0.00	0.00	0.00	3.91
2081	7958	7.725251	TGTCAAATTTCTCCAAGTTAAAGCAT	58.275	30.769	0.00	0.00	0.00	3.79
2083	7960	8.419076	TTTGTCAAATTTCTCCAAGTTAAAGC	57.581	30.769	0.00	0.00	0.00	3.51
2100	7987	8.147704	GGGATAAACAGAGGAAATTTTGTCAAA	58.852	33.333	0.00	0.00	0.00	2.69
2101	7988	7.288852	TGGGATAAACAGAGGAAATTTTGTCAA	59.711	33.333	0.00	0.00	0.00	3.18
2102	7989	6.780031	TGGGATAAACAGAGGAAATTTTGTCA	59.220	34.615	0.00	0.00	0.00	3.58
2103	7990	7.227049	TGGGATAAACAGAGGAAATTTTGTC	57.773	36.000	0.00	0.00	0.00	3.18
2172	8073	7.210174	ACTTTTTAAATCAGAAACCTTGAGGC	58.790	34.615	0.00	0.00	39.32	4.70
2206	8107	6.621596	GCTCTGGTGTCAAATGATGTAAAGTC	60.622	42.308	0.00	0.00	0.00	3.01
2208	8109	5.392380	GGCTCTGGTGTCAAATGATGTAAAG	60.392	44.000	0.00	0.00	0.00	1.85
2226	8127	3.944015	CCATTTTGTTAGGAGAGGCTCTG	59.056	47.826	24.21	3.25	0.00	3.35
2294	8195	8.894768	ATTTCCTACTATTTCTGATGTGTAGC	57.105	34.615	0.00	0.00	0.00	3.58
2415	8317	7.822822	AGATTGCAAACTCTAATACCGTAAACT	59.177	33.333	1.71	0.00	0.00	2.66
2416	8318	7.971455	AGATTGCAAACTCTAATACCGTAAAC	58.029	34.615	1.71	0.00	0.00	2.01
2417	8319	8.556213	AAGATTGCAAACTCTAATACCGTAAA	57.444	30.769	9.90	0.00	0.00	2.01
2459	8362	9.710979	TGAAACACGAGTTACTTTTAATTTCAG	57.289	29.630	0.00	0.00	36.84	3.02
2583	8520	9.868277	CAGAGTATGAAGAAGTAGAATTCAAGT	57.132	33.333	8.44	0.00	36.59	3.16
2748	8686	6.924111	ACAAAGTTGGCCTATAAACTCAATG	58.076	36.000	3.32	8.15	35.60	2.82

Based at the University of Bristol with support from BBSRC.

AutoCloner maintained by Alex Coulton.