AutoCloner

Multiple sequence alignment - TraesCS5D01G262600

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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	TraesCS5D01G262600	chr5D	100.000	3721	0	0	1	3721	368367353	368363633	0.000000e+00	6872.0
1	TraesCS5D01G262600	chr5B	92.413	3638	230	24	1	3618	436284601	436280990	0.000000e+00	5147.0
2	TraesCS5D01G262600	chr5B	84.488	361	53	3	3362	3721	216758006	216758364	1.640000e-93	353.0
3	TraesCS5D01G262600	chr5B	90.000	110	5	3	3617	3721	436262042	436261934	1.800000e-28	137.0
4	TraesCS5D01G262600	chr5A	92.322	2084	129	17	3	2073	470244239	470242174	0.000000e+00	2933.0
5	TraesCS5D01G262600	chr5A	92.836	1675	105	5	2049	3721	470227033	470225372	0.000000e+00	2414.0
6	TraesCS5D01G262600	chr5A	92.776	1675	106	9	2049	3721	470242164	470240503	0.000000e+00	2409.0
7	TraesCS5D01G262600	chr5A	85.237	359	46	7	3365	3721	258112643	258112290	2.730000e-96	363.0
8	TraesCS5D01G262600	chr5A	88.525	122	12	2	1952	2073	470227162	470227043	2.990000e-31	147.0
9	TraesCS5D01G262600	chr1D	80.838	2171	343	58	856	2998	627004	624879	0.000000e+00	1637.0
10	TraesCS5D01G262600	chr1D	81.118	1986	311	53	822	2782	470432	472378	0.000000e+00	1531.0
11	TraesCS5D01G262600	chr1D	78.111	2170	398	56	843	2972	799559	797427	0.000000e+00	1304.0
12	TraesCS5D01G262600	chr1D	81.769	373	56	12	2466	2832	725890	725524	6.040000e-78	302.0
13	TraesCS5D01G262600	chr1D	79.391	427	74	11	336	754	896575	896155	4.700000e-74	289.0
14	TraesCS5D01G262600	chr1D	91.304	46	4	0	746	791	627130	627085	3.100000e-06	63.9
15	TraesCS5D01G262600	chr1B	79.148	2393	383	93	822	3174	4813372	4811056	0.000000e+00	1548.0
16	TraesCS5D01G262600	chr1B	77.814	1857	307	80	1358	3174	4206952	4208743	0.000000e+00	1050.0
17	TraesCS5D01G262600	chr1B	84.578	817	109	13	822	1629	4522782	4521974	0.000000e+00	795.0
18	TraesCS5D01G262600	chr1A	79.794	2232	370	64	822	3022	3464436	3462255	0.000000e+00	1548.0
19	TraesCS5D01G262600	chr1A	77.585	1499	259	60	843	2319	2550491	2551934	0.000000e+00	835.0
20	TraesCS5D01G262600	chr2A	83.433	839	116	13	827	1653	766326722	766327549	0.000000e+00	758.0
21	TraesCS5D01G262600	chr2A	89.264	503	54	0	2256	2758	766328056	766328558	6.780000e-177	630.0
22	TraesCS5D01G262600	chr2D	88.270	503	59	0	2256	2758	641067500	641068002	1.480000e-168	603.0
23	TraesCS5D01G262600	chr2B	87.230	509	59	3	2256	2763	800187967	800187464	3.220000e-160	575.0
24	TraesCS5D01G262600	chrUn	85.600	375	48	5	3347	3718	229253830	229254201	4.510000e-104	388.0
25	TraesCS5D01G262600	chr7D	88.235	68	5	3	1950	2015	372900149	372900083	1.110000e-10	78.7
26	TraesCS5D01G262600	chr7A	86.957	69	5	4	1950	2015	418103494	418103427	1.430000e-09	75.0

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	TraesCS5D01G262600	chr5D	368363633	368367353	3720	True	6872.00	6872	100.0000	1	3721	1	chr5D.!!$R1	3720
1	TraesCS5D01G262600	chr5B	436280990	436284601	3611	True	5147.00	5147	92.4130	1	3618	1	chr5B.!!$R2	3617
2	TraesCS5D01G262600	chr5A	470240503	470244239	3736	True	2671.00	2933	92.5490	3	3721	2	chr5A.!!$R3	3718
3	TraesCS5D01G262600	chr5A	470225372	470227162	1790	True	1280.50	2414	90.6805	1952	3721	2	chr5A.!!$R2	1769
4	TraesCS5D01G262600	chr1D	470432	472378	1946	False	1531.00	1531	81.1180	822	2782	1	chr1D.!!$F1	1960
5	TraesCS5D01G262600	chr1D	797427	799559	2132	True	1304.00	1304	78.1110	843	2972	1	chr1D.!!$R2	2129
6	TraesCS5D01G262600	chr1D	624879	627130	2251	True	850.45	1637	86.0710	746	2998	2	chr1D.!!$R4	2252
7	TraesCS5D01G262600	chr1B	4811056	4813372	2316	True	1548.00	1548	79.1480	822	3174	1	chr1B.!!$R2	2352
8	TraesCS5D01G262600	chr1B	4206952	4208743	1791	False	1050.00	1050	77.8140	1358	3174	1	chr1B.!!$F1	1816
9	TraesCS5D01G262600	chr1B	4521974	4522782	808	True	795.00	795	84.5780	822	1629	1	chr1B.!!$R1	807
10	TraesCS5D01G262600	chr1A	3462255	3464436	2181	True	1548.00	1548	79.7940	822	3022	1	chr1A.!!$R1	2200
11	TraesCS5D01G262600	chr1A	2550491	2551934	1443	False	835.00	835	77.5850	843	2319	1	chr1A.!!$F1	1476
12	TraesCS5D01G262600	chr2A	766326722	766328558	1836	False	694.00	758	86.3485	827	2758	2	chr2A.!!$F1	1931
13	TraesCS5D01G262600	chr2D	641067500	641068002	502	False	603.00	603	88.2700	2256	2758	1	chr2D.!!$F1	502
14	TraesCS5D01G262600	chr2B	800187464	800187967	503	True	575.00	575	87.2300	2256	2763	1	chr2B.!!$R1	507

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	End Stability	Orientation
516	534	0.189822	CCCTCCCCTCCCTCTCTTAG	59.810	65.0	2.18	F
517	535	1.236708	CCTCCCCTCCCTCTCTTAGA	58.763	60.0	2.10	F
1505	1576	0.396435	TGTACCTGCAAGTGGAGTGG	59.604	55.0	4.00	F

Position	MSA Position	Penalty	Sequence	TM	GC	Hairpin	End Stability	Orientation
1505	1576	1.673665	CTTGTCCAGGCACCAGCTC	60.674	63.158	41.7	4.09	R
1880	1966	1.996292	ACACGTCATTCATGTCCTCG	58.004	50.000	0.0	4.63	R
3435	3632	0.930310	CCATCACTACGTTCCATGCG	59.070	55.000	0.0	4.73	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
29	30	7.815840	TTCATTAGAAGGAACACAATTCACA	57.184	32.000	0.00	0.00	0.00	3.58
56	57	6.936279	ACTAATGGGAGGTGATTATATCGTG	58.064	40.000	0.00	0.00	0.00	4.35
97	98	4.864704	TTTTGTTCAATCCTTGCTACCC	57.135	40.909	0.00	0.00	0.00	3.69
98	99	3.806949	TTGTTCAATCCTTGCTACCCT	57.193	42.857	0.00	0.00	0.00	4.34
119	120	6.160459	ACCCTACCTTGGTTGAATCAATAGAT	59.840	38.462	0.00	0.00	30.92	1.98
121	122	5.841957	ACCTTGGTTGAATCAATAGATGC	57.158	39.130	0.00	0.00	33.90	3.91
122	123	5.513233	ACCTTGGTTGAATCAATAGATGCT	58.487	37.500	0.00	0.00	33.90	3.79
185	186	4.620982	ACTTTTAGCTTTGAACACATGCC	58.379	39.130	0.00	0.00	0.00	4.40
187	188	4.662468	TTTAGCTTTGAACACATGCCAA	57.338	36.364	0.00	0.00	0.00	4.52
200	201	3.056678	CACATGCCAATCTTTGCCAGTTA	60.057	43.478	0.00	0.00	0.00	2.24
209	210	6.808212	CCAATCTTTGCCAGTTAGTTTATGTG	59.192	38.462	0.00	0.00	0.00	3.21
238	239	3.310774	CCATTCTTGCATCTACTTGACCG	59.689	47.826	0.00	0.00	0.00	4.79
245	246	5.270893	TGCATCTACTTGACCGCTTAATA	57.729	39.130	0.00	0.00	0.00	0.98
404	405	5.229423	TGAACTTACATTTCCATTTGCAGC	58.771	37.500	0.00	0.00	0.00	5.25
430	431	6.059484	CACCACTCTTTTAAGACCTAAACCA	58.941	40.000	0.00	0.00	0.00	3.67
433	434	8.442374	ACCACTCTTTTAAGACCTAAACCATTA	58.558	33.333	0.00	0.00	0.00	1.90
436	437	7.118825	ACTCTTTTAAGACCTAAACCATTACGC	59.881	37.037	0.00	0.00	0.00	4.42
470	475	0.674581	TTCACGGATGAAGGCAGCAG	60.675	55.000	0.00	0.00	40.01	4.24
504	522	1.144298	GTACTCTCTCTCTCCCTCCCC	59.856	61.905	0.00	0.00	0.00	4.81
505	523	0.254107	ACTCTCTCTCTCCCTCCCCT	60.254	60.000	0.00	0.00	0.00	4.79
506	524	0.478507	CTCTCTCTCTCCCTCCCCTC	59.521	65.000	0.00	0.00	0.00	4.30
507	525	0.996762	TCTCTCTCTCCCTCCCCTCC	60.997	65.000	0.00	0.00	0.00	4.30
508	526	2.015726	TCTCTCTCCCTCCCCTCCC	61.016	68.421	0.00	0.00	0.00	4.30
509	527	2.018086	CTCTCTCCCTCCCCTCCCT	61.018	68.421	0.00	0.00	0.00	4.20
510	528	2.015726	TCTCTCCCTCCCCTCCCTC	61.016	68.421	0.00	0.00	0.00	4.30
511	529	2.018086	CTCTCCCTCCCCTCCCTCT	61.018	68.421	0.00	0.00	0.00	3.69
512	530	2.015726	TCTCCCTCCCCTCCCTCTC	61.016	68.421	0.00	0.00	0.00	3.20
513	531	2.018086	CTCCCTCCCCTCCCTCTCT	61.018	68.421	0.00	0.00	0.00	3.10
514	532	1.550374	TCCCTCCCCTCCCTCTCTT	60.550	63.158	0.00	0.00	0.00	2.85
515	533	0.254638	TCCCTCCCCTCCCTCTCTTA	60.255	60.000	0.00	0.00	0.00	2.10
516	534	0.189822	CCCTCCCCTCCCTCTCTTAG	59.810	65.000	0.00	0.00	0.00	2.18
517	535	1.236708	CCTCCCCTCCCTCTCTTAGA	58.763	60.000	0.00	0.00	0.00	2.10
518	536	1.792651	CCTCCCCTCCCTCTCTTAGAT	59.207	57.143	0.00	0.00	0.00	1.98
519	537	2.181196	CCTCCCCTCCCTCTCTTAGATT	59.819	54.545	0.00	0.00	0.00	2.40
520	538	3.375878	CCTCCCCTCCCTCTCTTAGATTT	60.376	52.174	0.00	0.00	0.00	2.17
521	539	4.140663	CCTCCCCTCCCTCTCTTAGATTTA	60.141	50.000	0.00	0.00	0.00	1.40
529	547	7.335924	CCTCCCTCTCTTAGATTTATCTCTACG	59.664	44.444	0.00	0.00	38.32	3.51
795	825	5.163764	GCGTAGGAATGACATCAAACATTGA	60.164	40.000	0.00	0.00	45.01	2.57
813	843	5.758296	ACATTGAGAAGCAAACTAGAAACGA	59.242	36.000	0.00	0.00	40.48	3.85
1097	1157	3.522750	ACCTCTCAAGAATCTGGAGCATT	59.477	43.478	9.79	0.00	31.90	3.56
1104	1164	6.656902	TCAAGAATCTGGAGCATTCTTACAT	58.343	36.000	8.23	0.00	45.04	2.29
1134	1194	4.346709	TGTCAAGATGGAGGACACTACAAA	59.653	41.667	0.00	0.00	41.95	2.83
1148	1208	9.349713	AGGACACTACAAATTAATTCAAGTTGA	57.650	29.630	0.08	0.08	43.30	3.18
1185	1245	9.599866	CAAACATATCACTGATCCTAGTAAACA	57.400	33.333	0.00	0.00	0.00	2.83
1503	1574	3.134804	GGATATGTACCTGCAAGTGGAGT	59.865	47.826	0.00	0.00	0.00	3.85
1505	1576	0.396435	TGTACCTGCAAGTGGAGTGG	59.604	55.000	0.00	0.00	0.00	4.00
1608	1679	7.973048	AGGTACAACATTCATCCTAGTCTAA	57.027	36.000	0.00	0.00	0.00	2.10
1682	1753	5.116882	AGTAGACAATACCCGCATCTTTTC	58.883	41.667	0.00	0.00	0.00	2.29
1684	1755	2.676342	GACAATACCCGCATCTTTTCGT	59.324	45.455	0.00	0.00	0.00	3.85
1801	1884	8.592105	TTTTCTAGCAGAAATGTGAAAAATGG	57.408	30.769	10.72	0.00	43.06	3.16
1823	1906	5.770663	TGGACTACATAGGTATTCTCTGAGC	59.229	44.000	0.00	0.00	31.73	4.26
1942	2031	9.346725	CATGGATAGAAAAAGTGAAAAACTAGC	57.653	33.333	0.00	0.00	38.56	3.42
2206	2352	7.894376	TGGTTACTATTTAATACGCTATGGC	57.106	36.000	0.00	0.00	0.00	4.40
2221	2367	6.902341	ACGCTATGGCATTTCATTATGTAAG	58.098	36.000	4.78	0.00	38.60	2.34
2266	2416	4.082245	GGAATTGTACACCACCCAAGATTG	60.082	45.833	0.00	0.00	0.00	2.67
2341	2497	8.642935	TCACAAATGTTATCAAACCCTCATTA	57.357	30.769	0.00	0.00	34.49	1.90
2376	2532	0.038166	TTCTGGAGATTGGGTGGTGC	59.962	55.000	0.00	0.00	0.00	5.01
2544	2709	9.384849	TCCCTGATTATGATGAGAAGAAATCTA	57.615	33.333	0.00	0.00	38.96	1.98
2567	2732	8.311836	TCTACCTACTTCAACCACATTAAGAAG	58.688	37.037	0.00	0.00	41.00	2.85
2602	2767	3.717707	GTCAAGCTTTTGACCCCTTTTC	58.282	45.455	7.23	0.00	44.06	2.29
2909	3092	2.353011	CCATTCCCAACATGACACTTGC	60.353	50.000	0.00	0.00	0.00	4.01
2972	3155	2.676839	CTCAGTGCAGCAAAGACCATAG	59.323	50.000	0.00	0.00	0.00	2.23
3207	3402	0.254747	TTGTGGGTAGGGCTATGCAC	59.745	55.000	0.00	0.00	0.00	4.57
3372	3569	1.442769	TGTCGGCAAGATCAAAGAGC	58.557	50.000	0.00	0.00	0.00	4.09
3376	3573	1.012841	GGCAAGATCAAAGAGCTCGG	58.987	55.000	8.37	2.24	0.00	4.63
3420	3617	3.055530	TGTTGAGCTTCTCCCTGATCTTC	60.056	47.826	0.00	0.00	0.00	2.87
3454	3651	0.930310	CGCATGGAACGTAGTGATGG	59.070	55.000	0.00	0.00	45.00	3.51
3455	3652	0.657840	GCATGGAACGTAGTGATGGC	59.342	55.000	0.00	0.00	45.00	4.40
3457	3654	0.180406	ATGGAACGTAGTGATGGCCC	59.820	55.000	0.00	0.00	45.00	5.80
3461	3658	1.755380	GAACGTAGTGATGGCCCTAGT	59.245	52.381	0.00	0.00	45.00	2.57
3463	3660	3.022557	ACGTAGTGATGGCCCTAGTTA	57.977	47.619	0.00	0.00	42.51	2.24
3464	3661	2.957006	ACGTAGTGATGGCCCTAGTTAG	59.043	50.000	0.00	0.00	42.51	2.34
3522	3719	6.262049	TGAAGTGTTGTATGTACTTGTGCAAT	59.738	34.615	0.00	0.00	34.99	3.56
3539	3736	1.557832	CAATGGTTCCCCCGACTTCTA	59.442	52.381	0.00	0.00	35.15	2.10
3559	3756	1.143684	ACACAAGGAGGTGCAGATTGT	59.856	47.619	0.00	0.00	42.55	2.71
3569	3766	0.040058	TGCAGATTGTTGGGCATCCT	59.960	50.000	0.00	0.00	0.00	3.24
3602	3799	3.338250	TCCTTGGAAGGCGCCCAT	61.338	61.111	26.15	13.52	46.06	4.00
3608	3805	1.321805	TGGAAGGCGCCCATGAATTG	61.322	55.000	26.15	0.00	0.00	2.32
3680	3877	1.315690	CATGAGCGAATGATGGGCTT	58.684	50.000	0.00	0.00	37.10	4.35

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
29	30	9.268282	ACGATATAATCACCTCCCATTAGTATT	57.732	33.333	0.00	0.00	0.00	1.89
97	98	6.769822	AGCATCTATTGATTCAACCAAGGTAG	59.230	38.462	0.15	0.00	0.00	3.18
98	99	6.543465	CAGCATCTATTGATTCAACCAAGGTA	59.457	38.462	0.15	0.00	0.00	3.08
121	122	5.995897	TCATTCATCTGTAGATTGCCATCAG	59.004	40.000	0.01	0.00	31.21	2.90
122	123	5.932455	TCATTCATCTGTAGATTGCCATCA	58.068	37.500	0.01	0.00	31.21	3.07
185	186	7.370383	ACACATAAACTAACTGGCAAAGATTG	58.630	34.615	0.00	0.00	0.00	2.67
187	188	7.230510	TGAACACATAAACTAACTGGCAAAGAT	59.769	33.333	0.00	0.00	0.00	2.40
200	201	6.350445	GCAAGAATGGGATGAACACATAAACT	60.350	38.462	0.00	0.00	42.39	2.66
209	210	5.128919	AGTAGATGCAAGAATGGGATGAAC	58.871	41.667	0.00	0.00	0.00	3.18
378	379	6.757237	TGCAAATGGAAATGTAAGTTCATGT	58.243	32.000	0.00	0.00	43.89	3.21
404	405	6.017357	GGTTTAGGTCTTAAAAGAGTGGTGTG	60.017	42.308	0.00	0.00	35.32	3.82
436	437	4.253685	TCCGTGAAATTAGCTCTGGAAAG	58.746	43.478	0.00	0.00	0.00	2.62
470	475	8.359642	AGAGAGAGAGTACATGAGAAATAATGC	58.640	37.037	0.00	0.00	0.00	3.56
504	522	7.881232	ACGTAGAGATAAATCTAAGAGAGGGAG	59.119	40.741	4.14	0.00	37.25	4.30
505	523	7.747690	ACGTAGAGATAAATCTAAGAGAGGGA	58.252	38.462	4.14	0.00	37.25	4.20
506	524	7.989416	ACGTAGAGATAAATCTAAGAGAGGG	57.011	40.000	4.14	0.00	37.25	4.30
515	533	9.436957	AACACATGAAAACGTAGAGATAAATCT	57.563	29.630	0.00	0.00	40.50	2.40
518	536	9.917129	TCTAACACATGAAAACGTAGAGATAAA	57.083	29.630	0.00	0.00	0.00	1.40
521	539	9.436957	AAATCTAACACATGAAAACGTAGAGAT	57.563	29.630	0.00	0.00	0.00	2.75
529	547	8.816640	ACATTCCAAATCTAACACATGAAAAC	57.183	30.769	0.00	0.00	0.00	2.43
712	742	9.234827	CTTGCAAATATATGATTGAGGTGGATA	57.765	33.333	0.00	0.00	0.00	2.59
717	747	8.696043	TTAGCTTGCAAATATATGATTGAGGT	57.304	30.769	0.00	0.00	0.00	3.85
795	825	3.067833	GCCTCGTTTCTAGTTTGCTTCT	58.932	45.455	0.00	0.00	0.00	2.85
984	1044	5.050091	GTGCCACATTGCATACTAGTGATAC	60.050	44.000	5.39	0.00	44.30	2.24
1104	1164	7.861629	AGTGTCCTCCATCTTGACAATAAATA	58.138	34.615	0.00	0.00	40.41	1.40
1148	1208	8.806429	TCAGTGATATGTTTGTATGTGGAATT	57.194	30.769	0.00	0.00	0.00	2.17
1503	1574	3.640407	GTCCAGGCACCAGCTCCA	61.640	66.667	0.00	0.00	41.70	3.86
1505	1576	1.673665	CTTGTCCAGGCACCAGCTC	60.674	63.158	0.00	0.00	41.70	4.09
1666	1737	4.699637	TCATACGAAAAGATGCGGGTATT	58.300	39.130	0.00	0.00	0.00	1.89
1682	1753	4.793071	TGCATTCAACAAAGGTTCATACG	58.207	39.130	0.00	0.00	34.21	3.06
1684	1755	5.638657	GCATTGCATTCAACAAAGGTTCATA	59.361	36.000	3.15	0.00	34.21	2.15
1735	1812	7.823745	ACAAGCCATTTTCTCTCTCTTTTTA	57.176	32.000	0.00	0.00	0.00	1.52
1783	1864	6.446318	TGTAGTCCATTTTTCACATTTCTGC	58.554	36.000	0.00	0.00	0.00	4.26
1801	1884	5.470777	ACGCTCAGAGAATACCTATGTAGTC	59.529	44.000	0.00	0.00	41.26	2.59
1819	1902	5.877564	TGAATTTATATGTGTTGGACGCTCA	59.122	36.000	0.00	0.00	0.00	4.26
1880	1966	1.996292	ACACGTCATTCATGTCCTCG	58.004	50.000	0.00	0.00	0.00	4.63
2041	2147	6.690098	CACATTAGCAAGTCATTCATGTTAGC	59.310	38.462	0.00	0.00	0.00	3.09
2050	2157	3.194116	CCAAGCCACATTAGCAAGTCATT	59.806	43.478	0.00	0.00	0.00	2.57
2198	2343	6.902341	ACTTACATAATGAAATGCCATAGCG	58.098	36.000	0.00	0.00	44.31	4.26
2238	2388	6.388689	TCTTGGGTGGTGTACAATTCCTATAT	59.611	38.462	0.00	0.00	0.00	0.86
2332	2488	4.631234	TGGATCCTGTAGTTAATGAGGGT	58.369	43.478	14.23	0.00	0.00	4.34
2376	2532	6.007936	TGGTTTTTCTAAATCATGACGGTG	57.992	37.500	0.00	0.00	29.53	4.94
2544	2709	6.838382	ACTTCTTAATGTGGTTGAAGTAGGT	58.162	36.000	0.00	0.00	43.45	3.08
2567	2732	2.152016	GCTTGACCCTTGGAGTTGTAC	58.848	52.381	0.00	0.00	0.00	2.90
2602	2767	2.028385	ACTAACTTGGCCACCTTAGTCG	60.028	50.000	21.37	12.93	0.00	4.18
2956	3139	2.877097	TTCCTATGGTCTTTGCTGCA	57.123	45.000	0.00	0.00	0.00	4.41
2972	3155	1.529309	GCCCAGAGAGGTCCATTCC	59.471	63.158	0.00	0.00	34.66	3.01
3166	3361	3.665443	TCCCCCATAGGCCTTATATAGC	58.335	50.000	12.58	0.00	0.00	2.97
3179	3374	1.700907	CCCTACCCACAATCCCCCATA	60.701	57.143	0.00	0.00	0.00	2.74
3207	3402	6.426328	GTCTCCAATGTATCATAGCTCCAAAG	59.574	42.308	0.00	0.00	0.00	2.77
3313	3508	3.715648	AGGAAGGAGGACACTGGATAT	57.284	47.619	0.00	0.00	0.00	1.63
3376	3573	2.502510	CAAGGTGCGCATCGTTGC	60.503	61.111	15.91	8.44	45.78	4.17
3435	3632	0.930310	CCATCACTACGTTCCATGCG	59.070	55.000	0.00	0.00	0.00	4.73
3441	3638	1.755380	ACTAGGGCCATCACTACGTTC	59.245	52.381	6.18	0.00	0.00	3.95
3457	3654	5.480772	ACATCCCCGATATTGACCTAACTAG	59.519	44.000	0.00	0.00	0.00	2.57
3461	3658	4.410883	ACAACATCCCCGATATTGACCTAA	59.589	41.667	0.00	0.00	31.17	2.69
3463	3660	2.777692	ACAACATCCCCGATATTGACCT	59.222	45.455	0.00	0.00	31.17	3.85
3464	3661	2.878406	CACAACATCCCCGATATTGACC	59.122	50.000	0.00	0.00	31.17	4.02
3539	3736	1.143684	ACAATCTGCACCTCCTTGTGT	59.856	47.619	0.00	0.00	38.52	3.72
3559	3756	2.361104	GCGACCAAGGATGCCCAA	60.361	61.111	0.00	0.00	33.88	4.12
3569	3766	1.072505	GGAGGGTTCAAGCGACCAA	59.927	57.895	0.00	0.00	38.98	3.67
3602	3799	4.521639	GGGATGATCTATGCAAGCAATTCA	59.478	41.667	0.00	0.84	0.00	2.57
3608	3805	3.682696	TCATGGGATGATCTATGCAAGC	58.317	45.455	0.00	0.00	33.59	4.01
3669	3866	3.518003	GCGCTCAAGCCCATCATT	58.482	55.556	0.00	0.00	37.91	2.57
3680	3877	2.361104	GGTTTCCCATGGCGCTCA	60.361	61.111	6.09	3.81	0.00	4.26
3702	3899	3.514777	CAGGAAGCGAGCACTTGTA	57.485	52.632	0.00	0.00	0.00	2.41

Based at the University of Bristol with support from BBSRC.

AutoCloner maintained by Alex Coulton.