AutoCloner

Multiple sequence alignment - TraesCS5D01G351300

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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	TraesCS5D01G351300	chr5D	100.000	2451	0	0	1	2451	435154000	435156450	0.000000e+00	4527
1	TraesCS5D01G351300	chr5D	94.828	1276	44	11	605	1875	565841274	565842532	0.000000e+00	1971
2	TraesCS5D01G351300	chr3D	95.572	1852	76	6	604	2451	70093969	70095818	0.000000e+00	2961
3	TraesCS5D01G351300	chr3D	93.361	723	30	8	604	1324	590028811	590029517	0.000000e+00	1053
4	TraesCS5D01G351300	chr1D	95.657	1842	71	9	613	2451	22594392	22592557	0.000000e+00	2950
5	TraesCS5D01G351300	chr1D	94.258	1846	66	10	611	2451	395450046	395448236	0.000000e+00	2785
6	TraesCS5D01G351300	chr7A	94.900	1843	85	9	613	2451	668988053	668986216	0.000000e+00	2874
7	TraesCS5D01G351300	chr7A	91.892	1665	90	21	595	2256	695378932	695380554	0.000000e+00	2285
8	TraesCS5D01G351300	chr7A	95.522	536	22	2	1	535	55158627	55159161	0.000000e+00	856
9	TraesCS5D01G351300	chr7A	92.609	230	17	0	306	535	8749111	8749340	5.050000e-87	331
10	TraesCS5D01G351300	chr7D	95.085	1831	69	12	605	2432	503923853	503925665	0.000000e+00	2863
11	TraesCS5D01G351300	chr7D	94.948	1841	68	13	598	2432	69201976	69200155	0.000000e+00	2861
12	TraesCS5D01G351300	chr7D	96.493	1283	35	5	1176	2451	4429142	4430421	0.000000e+00	2111
13	TraesCS5D01G351300	chr7D	95.482	1173	46	7	1262	2432	564083082	564084249	0.000000e+00	1866
14	TraesCS5D01G351300	chr7D	92.339	496	21	7	594	1087	4428277	4428757	0.000000e+00	689
15	TraesCS5D01G351300	chr3A	94.111	1851	95	8	605	2451	699108759	699110599	0.000000e+00	2802
16	TraesCS5D01G351300	chr5A	93.780	1656	81	7	800	2451	639271975	639270338	0.000000e+00	2468
17	TraesCS5D01G351300	chr5A	94.776	268	13	1	1	267	154482034	154481767	1.360000e-112	416
18	TraesCS5D01G351300	chr5A	90.741	270	25	0	266	535	154481859	154481590	6.440000e-96	361
19	TraesCS5D01G351300	chr6D	95.896	536	20	1	1	536	161153150	161153683	0.000000e+00	867
20	TraesCS5D01G351300	chr6A	94.981	538	23	3	1	535	78028504	78029040	0.000000e+00	841
21	TraesCS5D01G351300	chr6A	94.963	536	24	3	1	535	77894098	77894631	0.000000e+00	837
22	TraesCS5D01G351300	chr6A	94.434	539	27	2	1	536	80494367	80494905	0.000000e+00	826
23	TraesCS5D01G351300	chr4A	94.963	536	23	3	1	535	94767152	94767684	0.000000e+00	837
24	TraesCS5D01G351300	chr1B	93.855	537	32	1	1	536	651884085	651884621	0.000000e+00	808
25	TraesCS5D01G351300	chr2D	93.657	268	16	1	1	267	29649445	29649712	1.370000e-107	399

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	TraesCS5D01G351300	chr5D	435154000	435156450	2450	False	4527	4527	100.000	1	2451	1	chr5D.!!$F1	2450
1	TraesCS5D01G351300	chr5D	565841274	565842532	1258	False	1971	1971	94.828	605	1875	1	chr5D.!!$F2	1270
2	TraesCS5D01G351300	chr3D	70093969	70095818	1849	False	2961	2961	95.572	604	2451	1	chr3D.!!$F1	1847
3	TraesCS5D01G351300	chr3D	590028811	590029517	706	False	1053	1053	93.361	604	1324	1	chr3D.!!$F2	720
4	TraesCS5D01G351300	chr1D	22592557	22594392	1835	True	2950	2950	95.657	613	2451	1	chr1D.!!$R1	1838
5	TraesCS5D01G351300	chr1D	395448236	395450046	1810	True	2785	2785	94.258	611	2451	1	chr1D.!!$R2	1840
6	TraesCS5D01G351300	chr7A	668986216	668988053	1837	True	2874	2874	94.900	613	2451	1	chr7A.!!$R1	1838
7	TraesCS5D01G351300	chr7A	695378932	695380554	1622	False	2285	2285	91.892	595	2256	1	chr7A.!!$F3	1661
8	TraesCS5D01G351300	chr7A	55158627	55159161	534	False	856	856	95.522	1	535	1	chr7A.!!$F2	534
9	TraesCS5D01G351300	chr7D	503923853	503925665	1812	False	2863	2863	95.085	605	2432	1	chr7D.!!$F1	1827
10	TraesCS5D01G351300	chr7D	69200155	69201976	1821	True	2861	2861	94.948	598	2432	1	chr7D.!!$R1	1834
11	TraesCS5D01G351300	chr7D	564083082	564084249	1167	False	1866	1866	95.482	1262	2432	1	chr7D.!!$F2	1170
12	TraesCS5D01G351300	chr7D	4428277	4430421	2144	False	1400	2111	94.416	594	2451	2	chr7D.!!$F3	1857
13	TraesCS5D01G351300	chr3A	699108759	699110599	1840	False	2802	2802	94.111	605	2451	1	chr3A.!!$F1	1846
14	TraesCS5D01G351300	chr5A	639270338	639271975	1637	True	2468	2468	93.780	800	2451	1	chr5A.!!$R1	1651
15	TraesCS5D01G351300	chr6D	161153150	161153683	533	False	867	867	95.896	1	536	1	chr6D.!!$F1	535
16	TraesCS5D01G351300	chr6A	78028504	78029040	536	False	841	841	94.981	1	535	1	chr6A.!!$F2	534
17	TraesCS5D01G351300	chr6A	77894098	77894631	533	False	837	837	94.963	1	535	1	chr6A.!!$F1	534
18	TraesCS5D01G351300	chr6A	80494367	80494905	538	False	826	826	94.434	1	536	1	chr6A.!!$F3	535
19	TraesCS5D01G351300	chr4A	94767152	94767684	532	False	837	837	94.963	1	535	1	chr4A.!!$F1	534
20	TraesCS5D01G351300	chr1B	651884085	651884621	536	False	808	808	93.855	1	536	1	chr1B.!!$F1	535

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
585	594	0.108207	CCAAAGCCCATGCCAACAAA	59.892	50.0	0.0	0.0	38.69	2.83	F

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability	Orientation
1952	2315	1.273327	GTCTCAATTTGGGCCTGGTTG	59.727	52.381	4.53	7.04	0.0	3.77	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
37	38	6.056090	TGGTATGGTTACTTGCAAGACATA	57.944	37.500	32.50	25.73	0.00	2.29
58	59	3.885724	TCGCAGAATCCACATAGAACA	57.114	42.857	0.00	0.00	0.00	3.18
131	132	6.780522	AGCTTGAATACCCTTTAAACTTTCCA	59.219	34.615	0.00	0.00	0.00	3.53
211	213	5.376625	TCTTACCACTGCAGAAACTTCAAT	58.623	37.500	23.35	0.00	0.00	2.57
263	267	5.069119	TGTGTGAGCTCTCTTTGTCTTTCTA	59.931	40.000	16.19	0.00	0.00	2.10
394	401	7.012327	CCTTCTAGTGTTTTGTGTTTCAGATGA	59.988	37.037	0.00	0.00	0.00	2.92
447	456	6.817765	ATTTAGCTCTTCCGAAATTTGTCA	57.182	33.333	0.00	0.00	0.00	3.58
536	545	1.605992	GCACCCCAACCCCTAGTAC	59.394	63.158	0.00	0.00	0.00	2.73
537	546	0.912968	GCACCCCAACCCCTAGTACT	60.913	60.000	0.00	0.00	0.00	2.73
538	547	1.201424	CACCCCAACCCCTAGTACTC	58.799	60.000	0.00	0.00	0.00	2.59
539	548	0.794934	ACCCCAACCCCTAGTACTCA	59.205	55.000	0.00	0.00	0.00	3.41
540	549	1.273666	ACCCCAACCCCTAGTACTCAG	60.274	57.143	0.00	0.00	0.00	3.35
541	550	1.497161	CCCAACCCCTAGTACTCAGG	58.503	60.000	0.00	5.07	0.00	3.86
542	551	1.007963	CCCAACCCCTAGTACTCAGGA	59.992	57.143	15.87	0.00	34.91	3.86
543	552	2.561297	CCCAACCCCTAGTACTCAGGAA	60.561	54.545	15.87	0.00	34.91	3.36
544	553	3.178865	CCAACCCCTAGTACTCAGGAAA	58.821	50.000	15.87	0.00	34.91	3.13
545	554	3.055312	CCAACCCCTAGTACTCAGGAAAC	60.055	52.174	15.87	0.00	34.91	2.78
546	555	3.555117	ACCCCTAGTACTCAGGAAACA	57.445	47.619	15.87	0.00	34.91	2.83
547	556	3.171528	ACCCCTAGTACTCAGGAAACAC	58.828	50.000	15.87	0.00	34.91	3.32
548	557	3.170717	CCCCTAGTACTCAGGAAACACA	58.829	50.000	15.87	0.00	34.91	3.72
549	558	3.195825	CCCCTAGTACTCAGGAAACACAG	59.804	52.174	15.87	0.00	34.91	3.66
550	559	4.087182	CCCTAGTACTCAGGAAACACAGA	58.913	47.826	15.87	0.00	34.91	3.41
551	560	4.527038	CCCTAGTACTCAGGAAACACAGAA	59.473	45.833	15.87	0.00	34.91	3.02
552	561	5.187967	CCCTAGTACTCAGGAAACACAGAAT	59.812	44.000	15.87	0.00	34.91	2.40
553	562	6.334202	CCTAGTACTCAGGAAACACAGAATC	58.666	44.000	0.00	0.00	34.91	2.52
554	563	5.808366	AGTACTCAGGAAACACAGAATCA	57.192	39.130	0.00	0.00	0.00	2.57
555	564	5.542779	AGTACTCAGGAAACACAGAATCAC	58.457	41.667	0.00	0.00	0.00	3.06
556	565	3.393800	ACTCAGGAAACACAGAATCACG	58.606	45.455	0.00	0.00	0.00	4.35
557	566	2.738846	CTCAGGAAACACAGAATCACGG	59.261	50.000	0.00	0.00	0.00	4.94
558	567	2.367241	TCAGGAAACACAGAATCACGGA	59.633	45.455	0.00	0.00	0.00	4.69
559	568	3.007940	TCAGGAAACACAGAATCACGGAT	59.992	43.478	0.00	0.00	0.00	4.18
560	569	3.125829	CAGGAAACACAGAATCACGGATG	59.874	47.826	0.00	0.00	0.00	3.51
561	570	2.420022	GGAAACACAGAATCACGGATGG	59.580	50.000	0.00	0.00	0.00	3.51
562	571	2.859165	AACACAGAATCACGGATGGT	57.141	45.000	0.00	0.00	0.00	3.55
563	572	2.386661	ACACAGAATCACGGATGGTC	57.613	50.000	0.00	0.00	0.00	4.02
564	573	1.066143	ACACAGAATCACGGATGGTCC	60.066	52.381	0.00	0.00	0.00	4.46
576	585	3.978193	TGGTCCGCCAAAGCCCAT	61.978	61.111	0.00	0.00	42.83	4.00
577	586	3.451894	GGTCCGCCAAAGCCCATG	61.452	66.667	0.00	0.00	34.57	3.66
578	587	4.133796	GTCCGCCAAAGCCCATGC	62.134	66.667	0.00	0.00	34.57	4.06
581	590	3.693471	CGCCAAAGCCCATGCCAA	61.693	61.111	0.00	0.00	38.69	4.52
582	591	2.046988	GCCAAAGCCCATGCCAAC	60.047	61.111	0.00	0.00	38.69	3.77
583	592	2.881528	GCCAAAGCCCATGCCAACA	61.882	57.895	0.00	0.00	38.69	3.33
584	593	1.753470	CCAAAGCCCATGCCAACAA	59.247	52.632	0.00	0.00	38.69	2.83
585	594	0.108207	CCAAAGCCCATGCCAACAAA	59.892	50.000	0.00	0.00	38.69	2.83
586	595	1.476471	CCAAAGCCCATGCCAACAAAA	60.476	47.619	0.00	0.00	38.69	2.44
587	596	2.295885	CAAAGCCCATGCCAACAAAAA	58.704	42.857	0.00	0.00	38.69	1.94
588	597	1.965935	AAGCCCATGCCAACAAAAAC	58.034	45.000	0.00	0.00	38.69	2.43
589	598	0.835941	AGCCCATGCCAACAAAAACA	59.164	45.000	0.00	0.00	38.69	2.83
590	599	1.211457	AGCCCATGCCAACAAAAACAA	59.789	42.857	0.00	0.00	38.69	2.83
591	600	2.019984	GCCCATGCCAACAAAAACAAA	58.980	42.857	0.00	0.00	0.00	2.83
592	601	2.223456	GCCCATGCCAACAAAAACAAAC	60.223	45.455	0.00	0.00	0.00	2.93
637	646	2.061773	CTGTGCGACGTCTTTGAGATT	58.938	47.619	14.70	0.00	0.00	2.40
866	876	2.183478	TATCCACATAAGCATGCCCG	57.817	50.000	15.66	2.67	35.39	6.13
868	878	0.463654	TCCACATAAGCATGCCCGAC	60.464	55.000	15.66	0.00	35.39	4.79
870	880	1.152963	ACATAAGCATGCCCGACCC	60.153	57.895	15.66	0.00	35.39	4.46
871	881	2.111043	ATAAGCATGCCCGACCCG	59.889	61.111	15.66	0.00	0.00	5.28
872	882	2.439960	ATAAGCATGCCCGACCCGA	61.440	57.895	15.66	0.00	0.00	5.14
873	883	2.383245	ATAAGCATGCCCGACCCGAG	62.383	60.000	15.66	0.00	0.00	4.63
879	889	4.603946	GCCCGACCCGAGCCATAC	62.604	72.222	0.00	0.00	0.00	2.39
880	890	3.151710	CCCGACCCGAGCCATACA	61.152	66.667	0.00	0.00	0.00	2.29
881	891	2.106332	CCGACCCGAGCCATACAC	59.894	66.667	0.00	0.00	0.00	2.90
882	892	2.278596	CGACCCGAGCCATACACG	60.279	66.667	0.00	0.00	0.00	4.49
883	893	2.767445	CGACCCGAGCCATACACGA	61.767	63.158	0.00	0.00	33.84	4.35
884	894	1.065928	GACCCGAGCCATACACGAG	59.934	63.158	0.00	0.00	33.84	4.18
885	895	1.664321	GACCCGAGCCATACACGAGT	61.664	60.000	0.00	0.00	33.84	4.18
1099	1157	1.220206	CGCATGGAGCCTCTGAAGT	59.780	57.895	0.00	0.00	41.38	3.01
1138	1196	1.468506	GGAAAATGGCAACCGTGGGT	61.469	55.000	0.00	0.00	37.65	4.51
1222	1576	4.509600	CCAAGTAGCTGGATCGATTTCTTC	59.490	45.833	0.00	0.00	38.96	2.87
1372	1726	3.565516	GTTGAAATTCGAGGCTTCAACC	58.434	45.455	24.37	14.30	46.87	3.77
1441	1802	0.478072	ACATTTGGTGGACAGAGCCA	59.522	50.000	0.00	0.00	35.02	4.75
1614	1977	7.022979	TGTTCATCAATCGCTAGAAATTGTTG	58.977	34.615	15.59	15.59	35.42	3.33
1685	2048	9.856488	CTAGTTTCAGTTATTGTGTCTAGCTAA	57.144	33.333	0.00	0.00	0.00	3.09
1820	2183	1.921982	ATGTGCACCATGCCAAGTTA	58.078	45.000	15.69	0.00	44.23	2.24
1827	2190	4.465660	TGCACCATGCCAAGTTATTGTAAT	59.534	37.500	0.00	0.00	44.23	1.89
1854	2217	3.316588	TCGAAGCAGAGATATCCAGTGTC	59.683	47.826	0.00	0.00	0.00	3.67
1952	2315	0.958822	ATGTTGGGCCGTGAGAAAAC	59.041	50.000	0.00	0.00	0.00	2.43
2340	2711	6.882140	TCGCTTGAAATAGGTCCAAGAAAATA	59.118	34.615	0.00	0.00	39.55	1.40
2409	2780	8.189119	ACCAATATTTTTAGGAGCACAGAAAA	57.811	30.769	0.00	0.00	0.00	2.29

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
37	38	4.375272	CTGTTCTATGTGGATTCTGCGAT	58.625	43.478	0.00	0.00	0.00	4.58
58	59	0.482446	TGTGAGGAAAATGCCACCCT	59.518	50.000	0.00	0.00	0.00	4.34
131	132	5.009610	ACCAAAACAATAAGAGCACAACGAT	59.990	36.000	0.00	0.00	0.00	3.73
263	267	7.651808	CAGTGGTAAGAATTCAACATTCAACT	58.348	34.615	8.44	3.38	0.00	3.16
319	326	8.538701	AGAGAGAGTTCACACATTCTCATTATT	58.461	33.333	3.52	0.00	38.78	1.40
328	335	5.543507	AAGACAGAGAGAGTTCACACATT	57.456	39.130	0.00	0.00	0.00	2.71
394	401	6.885922	ACGCTTAAATACAAGGAGATTAGGT	58.114	36.000	0.00	0.00	0.00	3.08
447	456	3.016736	CGCCCATTCCACTTACTTTCAT	58.983	45.455	0.00	0.00	0.00	2.57
520	529	0.794934	TGAGTACTAGGGGTTGGGGT	59.205	55.000	0.00	0.00	0.00	4.95
536	545	2.738846	CCGTGATTCTGTGTTTCCTGAG	59.261	50.000	0.00	0.00	0.00	3.35
537	546	2.367241	TCCGTGATTCTGTGTTTCCTGA	59.633	45.455	0.00	0.00	0.00	3.86
538	547	2.766313	TCCGTGATTCTGTGTTTCCTG	58.234	47.619	0.00	0.00	0.00	3.86
539	548	3.338249	CATCCGTGATTCTGTGTTTCCT	58.662	45.455	0.00	0.00	0.00	3.36
540	549	2.420022	CCATCCGTGATTCTGTGTTTCC	59.580	50.000	0.00	0.00	0.00	3.13
541	550	3.074412	ACCATCCGTGATTCTGTGTTTC	58.926	45.455	0.00	0.00	0.00	2.78
542	551	3.074412	GACCATCCGTGATTCTGTGTTT	58.926	45.455	0.00	0.00	0.00	2.83
543	552	2.615493	GGACCATCCGTGATTCTGTGTT	60.615	50.000	0.00	0.00	0.00	3.32
544	553	1.066143	GGACCATCCGTGATTCTGTGT	60.066	52.381	0.00	0.00	0.00	3.72
545	554	1.656652	GGACCATCCGTGATTCTGTG	58.343	55.000	0.00	0.00	0.00	3.66
560	569	3.451894	CATGGGCTTTGGCGGACC	61.452	66.667	0.00	0.00	39.81	4.46
561	570	4.133796	GCATGGGCTTTGGCGGAC	62.134	66.667	0.00	0.00	39.81	4.79
564	573	3.693471	TTGGCATGGGCTTTGGCG	61.693	61.111	0.00	0.00	42.19	5.69
565	574	2.046988	GTTGGCATGGGCTTTGGC	60.047	61.111	0.00	6.79	40.87	4.52
566	575	0.108207	TTTGTTGGCATGGGCTTTGG	59.892	50.000	0.00	0.00	40.87	3.28
567	576	1.964552	TTTTGTTGGCATGGGCTTTG	58.035	45.000	0.00	0.00	40.87	2.77
568	577	2.296792	GTTTTTGTTGGCATGGGCTTT	58.703	42.857	0.00	0.00	40.87	3.51
569	578	1.211457	TGTTTTTGTTGGCATGGGCTT	59.789	42.857	0.00	0.00	40.87	4.35
570	579	0.835941	TGTTTTTGTTGGCATGGGCT	59.164	45.000	0.00	0.00	40.87	5.19
571	580	1.673168	TTGTTTTTGTTGGCATGGGC	58.327	45.000	0.00	0.00	40.13	5.36
572	581	3.012518	TGTTTGTTTTTGTTGGCATGGG	58.987	40.909	0.00	0.00	0.00	4.00
573	582	4.096081	ACATGTTTGTTTTTGTTGGCATGG	59.904	37.500	0.00	0.00	37.40	3.66
574	583	5.232610	ACATGTTTGTTTTTGTTGGCATG	57.767	34.783	0.00	0.00	38.57	4.06
575	584	5.893897	AACATGTTTGTTTTTGTTGGCAT	57.106	30.435	4.92	0.00	43.57	4.40
587	596	5.869649	AAGCCCTAGAAAAACATGTTTGT	57.130	34.783	23.93	19.13	37.82	2.83
588	597	7.702348	GCTATAAGCCCTAGAAAAACATGTTTG	59.298	37.037	23.93	11.09	34.48	2.93
589	598	7.772166	GCTATAAGCCCTAGAAAAACATGTTT	58.228	34.615	18.13	18.13	34.48	2.83
590	599	7.334844	GCTATAAGCCCTAGAAAAACATGTT	57.665	36.000	4.92	4.92	34.48	2.71
591	600	6.944234	GCTATAAGCCCTAGAAAAACATGT	57.056	37.500	0.00	0.00	34.48	3.21
637	646	1.754803	ACGTCGCTCCTCATCCAATTA	59.245	47.619	0.00	0.00	0.00	1.40
866	876	1.065928	CTCGTGTATGGCTCGGGTC	59.934	63.158	0.00	0.00	35.12	4.46
868	878	1.065928	GACTCGTGTATGGCTCGGG	59.934	63.158	0.00	0.00	40.11	5.14
870	880	1.298413	CGGACTCGTGTATGGCTCG	60.298	63.158	0.00	0.00	35.64	5.03
871	881	0.029567	CTCGGACTCGTGTATGGCTC	59.970	60.000	0.00	0.00	37.69	4.70
872	882	2.005960	GCTCGGACTCGTGTATGGCT	62.006	60.000	0.00	0.00	37.69	4.75
873	883	1.589196	GCTCGGACTCGTGTATGGC	60.589	63.158	0.00	0.00	37.69	4.40
874	884	1.065928	GGCTCGGACTCGTGTATGG	59.934	63.158	0.00	0.00	37.69	2.74
875	885	0.248661	CTGGCTCGGACTCGTGTATG	60.249	60.000	0.00	0.00	37.69	2.39
876	886	2.005960	GCTGGCTCGGACTCGTGTAT	62.006	60.000	0.00	0.00	37.69	2.29
877	887	2.697761	GCTGGCTCGGACTCGTGTA	61.698	63.158	0.00	0.00	37.69	2.90
878	888	4.057428	GCTGGCTCGGACTCGTGT	62.057	66.667	0.00	0.00	37.69	4.49
879	889	4.803426	GGCTGGCTCGGACTCGTG	62.803	72.222	0.00	0.00	37.69	4.35
882	892	4.459089	GTGGGCTGGCTCGGACTC	62.459	72.222	0.00	0.00	0.00	3.36
1026	1084	1.155889	CGTAGTGCAGCCATGTTTGA	58.844	50.000	0.00	0.00	0.00	2.69
1030	1088	1.079127	GACCGTAGTGCAGCCATGT	60.079	57.895	0.00	0.00	0.00	3.21
1099	1157	3.054728	TCCTCCTTCACACAAGTCAAACA	60.055	43.478	0.00	0.00	0.00	2.83
1138	1196	1.069973	CAAGCATTTGACGAACTCGCA	60.070	47.619	0.00	0.00	44.43	5.10
1222	1576	2.666022	GCCCAAATTCGACGGAAAAATG	59.334	45.455	0.00	0.00	35.40	2.32
1372	1726	5.410439	CCCAAAATTGAAATTGAGCTCTTGG	59.590	40.000	16.19	14.92	0.00	3.61
1441	1802	1.487976	AGCACTGTCCATCATCGGATT	59.512	47.619	0.00	0.00	37.41	3.01
1614	1977	4.201618	GCTTGACAAACAAACTGAAACTGC	60.202	41.667	0.00	0.00	38.08	4.40
1685	2048	7.682787	ATGATCCCTGACTTACTGAAACTAT	57.317	36.000	0.00	0.00	0.00	2.12
1807	2170	6.849085	TCAATTACAATAACTTGGCATGGT	57.151	33.333	5.31	0.22	36.64	3.55
1820	2183	7.798596	ATCTCTGCTTCGATTCAATTACAAT	57.201	32.000	0.00	0.00	0.00	2.71
1827	2190	5.069648	ACTGGATATCTCTGCTTCGATTCAA	59.930	40.000	2.05	0.00	0.00	2.69
1854	2217	3.817084	TGAAGAACAAGAACAGAGCATGG	59.183	43.478	0.00	0.00	0.00	3.66
1912	2275	6.704310	ACATCTATTTGGCAGCAAGATTTTT	58.296	32.000	0.00	0.00	0.00	1.94
1913	2276	6.290294	ACATCTATTTGGCAGCAAGATTTT	57.710	33.333	0.00	0.00	0.00	1.82
1952	2315	1.273327	GTCTCAATTTGGGCCTGGTTG	59.727	52.381	4.53	7.04	0.00	3.77
2135	2504	2.162608	CGGCCCAACATTTATTCGACAA	59.837	45.455	0.00	0.00	0.00	3.18
2409	2780	5.008911	GCAACTGAAATGCCCAAAAGAAATT	59.991	36.000	0.00	0.00	37.85	1.82

Based at the University of Bristol with support from BBSRC.

AutoCloner maintained by Alex Coulton.