AutoCloner

Multiple sequence alignment - TraesCS3B01G091600

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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	TraesCS3B01G091600	chr3B	100.000	2729	0	0	1	2729	60631194	60628466	0.000000e+00	5040
1	TraesCS3B01G091600	chr3A	90.090	2220	144	24	2	2213	48049626	48047475	0.000000e+00	2811
2	TraesCS3B01G091600	chr3A	89.157	747	62	10	181	919	49447831	49447096	0.000000e+00	913
3	TraesCS3B01G091600	chr3A	87.176	733	62	19	1490	2219	49338456	49337753	0.000000e+00	804
4	TraesCS3B01G091600	chr3D	92.462	1897	98	17	334	2220	38007218	38005357	0.000000e+00	2669
5	TraesCS3B01G091600	chr7B	91.406	512	36	2	2219	2729	545989738	545989234	0.000000e+00	695
6	TraesCS3B01G091600	chr6B	90.570	509	40	2	2221	2729	551971827	551971327	0.000000e+00	667
7	TraesCS3B01G091600	chr6B	91.204	216	12	2	2514	2729	551965083	551964875	1.240000e-73	287
8	TraesCS3B01G091600	chr6B	91.204	216	12	2	2514	2729	551967881	551967673	1.240000e-73	287
9	TraesCS3B01G091600	chr6B	91.204	216	12	2	2514	2729	551968292	551968084	1.240000e-73	287
10	TraesCS3B01G091600	chr6B	91.204	216	12	2	2514	2729	551968703	551968495	1.240000e-73	287
11	TraesCS3B01G091600	chr6B	91.204	216	12	2	2514	2729	551969525	551969317	1.240000e-73	287
12	TraesCS3B01G091600	chr6B	91.204	216	12	2	2514	2729	551969955	551969747	1.240000e-73	287
13	TraesCS3B01G091600	chr6B	91.121	214	12	2	2514	2727	551965494	551965288	1.600000e-72	283
14	TraesCS3B01G091600	chr6B	91.080	213	12	2	2517	2729	551969111	551968906	5.750000e-72	281
15	TraesCS3B01G091600	chr7A	82.759	696	106	11	2	694	117352938	117353622	2.320000e-170	608
16	TraesCS3B01G091600	chr1D	82.703	688	109	7	2	687	124916877	124917556	1.080000e-168	603
17	TraesCS3B01G091600	chr1D	83.388	614	92	8	10	619	342846400	342845793	6.600000e-156	560
18	TraesCS3B01G091600	chr5D	82.712	671	101	12	2	668	241956179	241956838	1.410000e-162	582
19	TraesCS3B01G091600	chr1A	81.358	692	115	13	1	687	203810635	203811317	3.970000e-153	551
20	TraesCS3B01G091600	chr6D	80.725	690	121	11	10	693	27116189	27115506	6.690000e-146	527
21	TraesCS3B01G091600	chr2D	81.057	681	109	14	19	693	633454739	633454073	2.410000e-145	525
22	TraesCS3B01G091600	chr2D	84.333	517	53	10	2222	2729	471070259	471069762	5.290000e-132	481
23	TraesCS3B01G091600	chr2A	73.563	1131	233	40	1085	2175	759319551	759320655	3.320000e-99	372

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	TraesCS3B01G091600	chr3B	60628466	60631194	2728	True	5040.000000	5040	100.000000	1	2729	1	chr3B.!!$R1	2728
1	TraesCS3B01G091600	chr3A	48047475	48049626	2151	True	2811.000000	2811	90.090000	2	2213	1	chr3A.!!$R1	2211
2	TraesCS3B01G091600	chr3A	49447096	49447831	735	True	913.000000	913	89.157000	181	919	1	chr3A.!!$R3	738
3	TraesCS3B01G091600	chr3A	49337753	49338456	703	True	804.000000	804	87.176000	1490	2219	1	chr3A.!!$R2	729
4	TraesCS3B01G091600	chr3D	38005357	38007218	1861	True	2669.000000	2669	92.462000	334	2220	1	chr3D.!!$R1	1886
5	TraesCS3B01G091600	chr7B	545989234	545989738	504	True	695.000000	695	91.406000	2219	2729	1	chr7B.!!$R1	510
6	TraesCS3B01G091600	chr6B	551964875	551971827	6952	True	328.111111	667	91.110556	2221	2729	9	chr6B.!!$R1	508
7	TraesCS3B01G091600	chr7A	117352938	117353622	684	False	608.000000	608	82.759000	2	694	1	chr7A.!!$F1	692
8	TraesCS3B01G091600	chr1D	124916877	124917556	679	False	603.000000	603	82.703000	2	687	1	chr1D.!!$F1	685
9	TraesCS3B01G091600	chr1D	342845793	342846400	607	True	560.000000	560	83.388000	10	619	1	chr1D.!!$R1	609
10	TraesCS3B01G091600	chr5D	241956179	241956838	659	False	582.000000	582	82.712000	2	668	1	chr5D.!!$F1	666
11	TraesCS3B01G091600	chr1A	203810635	203811317	682	False	551.000000	551	81.358000	1	687	1	chr1A.!!$F1	686
12	TraesCS3B01G091600	chr6D	27115506	27116189	683	True	527.000000	527	80.725000	10	693	1	chr6D.!!$R1	683
13	TraesCS3B01G091600	chr2D	633454073	633454739	666	True	525.000000	525	81.057000	19	693	1	chr2D.!!$R2	674
14	TraesCS3B01G091600	chr2A	759319551	759320655	1104	False	372.000000	372	73.563000	1085	2175	1	chr2A.!!$F1	1090

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
106	108	0.038159	ACCTTTCCGCTCGTCTCTTG	60.038	55.0	0.0	0.0	0.0	3.02	F

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability	Orientation
1958	2022	0.176449	TCCACCATGCATCACTCTCG	59.824	55.0	0.0	0.0	0.0	4.04	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
106	108	0.038159	ACCTTTCCGCTCGTCTCTTG	60.038	55.000	0.00	0.00	0.00	3.02
107	109	0.038159	CCTTTCCGCTCGTCTCTTGT	60.038	55.000	0.00	0.00	0.00	3.16
111	113	0.387929	TCCGCTCGTCTCTTGTTTGT	59.612	50.000	0.00	0.00	0.00	2.83
112	114	1.202486	TCCGCTCGTCTCTTGTTTGTT	60.202	47.619	0.00	0.00	0.00	2.83
134	136	3.348554	TAGCGGCGGGTCTCTGGTA	62.349	63.158	9.78	0.00	0.00	3.25
169	171	1.895020	TTTAGATGCCAGGGCGACGT	61.895	55.000	5.74	0.00	45.51	4.34
171	174	4.148825	GATGCCAGGGCGACGTCT	62.149	66.667	14.70	0.00	45.51	4.18
205	208	1.447217	CGGTGCTCATGGGCATAGA	59.553	57.895	25.81	0.00	44.34	1.98
219	222	1.112113	CATAGACCGTGGCTAGGTGT	58.888	55.000	9.07	7.85	43.01	4.16
229	232	1.220749	GCTAGGTGTTGCCCGATGA	59.779	57.895	0.00	0.00	38.26	2.92
231	240	0.806102	CTAGGTGTTGCCCGATGACG	60.806	60.000	0.00	0.00	38.26	4.35
237	246	0.460284	GTTGCCCGATGACGATGACT	60.460	55.000	0.00	0.00	42.66	3.41
252	261	0.613572	TGACTATGTGGGCGGAGTGA	60.614	55.000	0.00	0.00	0.00	3.41
253	262	0.179108	GACTATGTGGGCGGAGTGAC	60.179	60.000	0.00	0.00	0.00	3.67
273	282	2.280524	CCGAGGTGTGGCGTTTGA	60.281	61.111	0.00	0.00	0.00	2.69
323	332	3.637229	ACATGTTCTATCTTCGGACGGAT	59.363	43.478	0.00	0.00	0.00	4.18
384	393	3.567797	GCTCTCATTGCCCGTCGC	61.568	66.667	0.00	0.00	38.31	5.19
389	398	4.459331	CATTGCCCGTCGCGTTGG	62.459	66.667	5.77	9.36	42.08	3.77
401	410	1.304134	GCGTTGGTCCAGGGGAAAT	60.304	57.895	0.00	0.00	31.38	2.17
494	504	2.485903	TGGTTCGTCGTATGTTGCTTT	58.514	42.857	0.00	0.00	0.00	3.51
576	589	2.425773	GTTGCTGCGCTCAACACG	60.426	61.111	28.33	5.56	42.35	4.49
598	618	2.281692	TGTCATGCCTTGCGTGCT	60.282	55.556	3.43	0.00	44.29	4.40
606	630	1.226101	CCTTGCGTGCTTGCGTATG	60.226	57.895	0.00	0.00	37.81	2.39
607	631	1.864750	CTTGCGTGCTTGCGTATGC	60.865	57.895	0.00	0.00	43.20	3.14
623	653	0.250901	ATGCTGTGGTTGTGGAGACC	60.251	55.000	0.00	0.00	37.69	3.85
809	841	1.693062	TGTACAAGGAAGGCAACCGTA	59.307	47.619	0.00	0.00	37.17	4.02
810	842	2.071540	GTACAAGGAAGGCAACCGTAC	58.928	52.381	0.00	0.00	37.17	3.67
811	843	0.601841	ACAAGGAAGGCAACCGTACG	60.602	55.000	8.69	8.69	37.17	3.67
812	844	0.601841	CAAGGAAGGCAACCGTACGT	60.602	55.000	15.21	0.00	37.17	3.57
836	868	4.227538	CGTGTTACTATAGGATTCAGGCG	58.772	47.826	4.43	0.00	0.00	5.52
837	869	4.261489	CGTGTTACTATAGGATTCAGGCGT	60.261	45.833	4.43	0.00	0.00	5.68
838	870	5.049198	CGTGTTACTATAGGATTCAGGCGTA	60.049	44.000	4.43	0.00	0.00	4.42
921	953	6.882140	TGCATCCGATCCCGTTTATATTATTT	59.118	34.615	0.00	0.00	0.00	1.40
922	954	7.148323	TGCATCCGATCCCGTTTATATTATTTG	60.148	37.037	0.00	0.00	0.00	2.32
923	955	7.148306	GCATCCGATCCCGTTTATATTATTTGT	60.148	37.037	0.00	0.00	0.00	2.83
924	956	9.373603	CATCCGATCCCGTTTATATTATTTGTA	57.626	33.333	0.00	0.00	0.00	2.41
925	957	8.991243	TCCGATCCCGTTTATATTATTTGTAG	57.009	34.615	0.00	0.00	0.00	2.74
926	958	8.587608	TCCGATCCCGTTTATATTATTTGTAGT	58.412	33.333	0.00	0.00	0.00	2.73
927	959	9.859427	CCGATCCCGTTTATATTATTTGTAGTA	57.141	33.333	0.00	0.00	0.00	1.82
980	1012	1.681538	ACCGCACGAGACATAGATCT	58.318	50.000	0.00	0.00	0.00	2.75
1034	1066	2.859032	GCGACATGGATACCGTCTCTTC	60.859	54.545	0.00	0.00	36.21	2.87
1044	1078	0.815734	CCGTCTCTTCACCGTACCAT	59.184	55.000	0.00	0.00	0.00	3.55
1065	1099	2.033424	TGCCATCTTCGACATACTCTCG	59.967	50.000	0.00	0.00	0.00	4.04
1231	1268	2.606213	TGGGAGGCCGTGACATGA	60.606	61.111	0.00	0.00	0.00	3.07
1336	1373	2.434185	TCATCTGCGTCAACGGCC	60.434	61.111	4.54	0.00	40.23	6.13
1419	1467	2.270986	GGTGGACGTGGTAGACCGT	61.271	63.158	0.00	0.00	40.54	4.83
1450	1498	2.222953	CCTTTTGCTGCGATACGTTACC	60.223	50.000	0.00	0.00	0.00	2.85
1558	1607	3.065510	CACATTAGGAGACGACGACAGAT	59.934	47.826	0.00	0.00	0.00	2.90
1585	1634	0.109597	GAAAGCACATGCACTTCCGG	60.110	55.000	6.64	0.00	45.16	5.14
1713	1771	2.332654	GCAATGGAAGCCCGACGTT	61.333	57.895	0.00	0.00	34.29	3.99
1727	1785	1.399440	CGACGTTCTCGAAGGACCATA	59.601	52.381	6.38	0.00	46.14	2.74
1934	1998	3.531538	CATACACTTTACCGATGGCACT	58.468	45.455	0.00	0.00	0.00	4.40
1935	1999	1.808411	ACACTTTACCGATGGCACTG	58.192	50.000	0.00	0.00	0.00	3.66
1958	2022	2.549633	GCATGCCGTTATATGCCATC	57.450	50.000	6.36	0.00	42.88	3.51
1962	2026	1.616374	TGCCGTTATATGCCATCGAGA	59.384	47.619	0.00	0.00	0.00	4.04
2053	2117	5.003872	CAGATCTACGATCTTCACACAAACG	59.996	44.000	3.72	0.00	0.00	3.60
2153	2224	2.817258	TGTCCGCCAAGAATTTGTTAGG	59.183	45.455	0.00	0.00	32.21	2.69
2255	2327	0.179062	GAGAGCGGTGGCATCTGAAT	60.179	55.000	0.00	0.00	43.41	2.57
2264	2336	4.996758	CGGTGGCATCTGAATATGTTATCA	59.003	41.667	0.00	0.00	0.00	2.15
2270	2342	6.094603	GGCATCTGAATATGTTATCATGGTCC	59.905	42.308	0.00	0.00	35.70	4.46
2321	2393	4.807443	TGTGACCGTTTGACATAATACGA	58.193	39.130	0.00	0.00	36.16	3.43
2354	2426	8.420374	AAAATCGATTGTCTGACGTTATACAT	57.580	30.769	12.25	0.00	0.00	2.29
2436	2508	1.641140	CGTCACGAAAAGCAGTGCA	59.359	52.632	19.20	0.00	38.19	4.57
2468	2540	1.129251	TCGTATGTTCACCGTCTCGTC	59.871	52.381	0.00	0.00	0.00	4.20
2486	2558	3.299977	ACCTGTACACAGCGCCGA	61.300	61.111	2.29	0.00	42.47	5.54
2540	2613	0.948623	GTGACTGCATACACACGGCA	60.949	55.000	15.36	0.00	37.05	5.69
2552	2625	0.112412	ACACGGCATTTCTCCCCTTT	59.888	50.000	0.00	0.00	0.00	3.11
2576	9101	1.390565	CAACCTCCCTATCTCGACGT	58.609	55.000	0.00	0.00	0.00	4.34

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
37	38	2.829592	CCGAGACCCAATAGGCCC	59.170	66.667	0.00	0.00	40.58	5.80
81	83	4.625800	GAGCGGAAAGGTCATGCT	57.374	55.556	0.00	0.00	46.08	3.79
106	108	2.559330	CGCCGCTACCCAACAAAC	59.441	61.111	0.00	0.00	0.00	2.93
107	109	2.670251	CCGCCGCTACCCAACAAA	60.670	61.111	0.00	0.00	0.00	2.83
130	132	1.513858	ACCTTGACACCACCTTACCA	58.486	50.000	0.00	0.00	0.00	3.25
134	136	4.513406	TCTAAAACCTTGACACCACCTT	57.487	40.909	0.00	0.00	0.00	3.50
169	171	2.646175	GCGCTACCACCACCAGAGA	61.646	63.158	0.00	0.00	0.00	3.10
171	174	4.063967	CGCGCTACCACCACCAGA	62.064	66.667	5.56	0.00	0.00	3.86
202	205	0.892755	CAACACCTAGCCACGGTCTA	59.107	55.000	0.00	0.00	30.82	2.59
205	208	2.032071	GCAACACCTAGCCACGGT	59.968	61.111	0.00	0.00	34.38	4.83
219	222	1.107945	TAGTCATCGTCATCGGGCAA	58.892	50.000	0.00	0.00	37.69	4.52
226	229	1.269778	CGCCCACATAGTCATCGTCAT	60.270	52.381	0.00	0.00	0.00	3.06
229	232	1.040893	TCCGCCCACATAGTCATCGT	61.041	55.000	0.00	0.00	0.00	3.73
231	240	0.753262	ACTCCGCCCACATAGTCATC	59.247	55.000	0.00	0.00	0.00	2.92
237	246	1.897423	CTGTCACTCCGCCCACATA	59.103	57.895	0.00	0.00	0.00	2.29
271	280	0.463654	GCCAACTATCACCGCCATCA	60.464	55.000	0.00	0.00	0.00	3.07
273	282	1.152963	GGCCAACTATCACCGCCAT	60.153	57.895	0.00	0.00	39.50	4.40
384	393	1.173913	GAATTTCCCCTGGACCAACG	58.826	55.000	0.00	0.00	0.00	4.10
389	398	2.511637	AGGATCAGAATTTCCCCTGGAC	59.488	50.000	0.00	0.00	32.05	4.02
401	410	1.372582	GCACGATGCAAGGATCAGAA	58.627	50.000	0.00	0.00	44.26	3.02
574	587	1.086696	GCAAGGCATGACACATACGT	58.913	50.000	0.00	0.00	0.00	3.57
576	589	1.086696	ACGCAAGGCATGACACATAC	58.913	50.000	0.00	0.00	46.39	2.39
585	598	4.409218	CGCAAGCACGCAAGGCAT	62.409	61.111	0.00	0.00	46.39	4.40
598	618	0.590682	CACAACCACAGCATACGCAA	59.409	50.000	0.00	0.00	42.27	4.85
606	630	0.886490	CAGGTCTCCACAACCACAGC	60.886	60.000	0.00	0.00	39.39	4.40
607	631	0.886490	GCAGGTCTCCACAACCACAG	60.886	60.000	0.00	0.00	39.39	3.66
623	653	1.665679	AGCAATCCGATACAAACGCAG	59.334	47.619	0.00	0.00	0.00	5.18
700	732	0.392461	AGGCGCGGTTCAATGTGTAT	60.392	50.000	8.83	0.00	0.00	2.29
809	841	6.017605	CCTGAATCCTATAGTAACACGTACGT	60.018	42.308	16.72	16.72	37.81	3.57
810	842	6.369005	CCTGAATCCTATAGTAACACGTACG	58.631	44.000	15.01	15.01	37.81	3.67
811	843	6.148264	GCCTGAATCCTATAGTAACACGTAC	58.852	44.000	0.00	0.00	0.00	3.67
812	844	5.049198	CGCCTGAATCCTATAGTAACACGTA	60.049	44.000	0.00	0.00	0.00	3.57
836	868	1.725164	GCTGAAGTTGGCACGTACTAC	59.275	52.381	0.00	0.00	0.00	2.73
837	869	1.337447	GGCTGAAGTTGGCACGTACTA	60.337	52.381	0.00	0.00	0.00	1.82
838	870	0.602905	GGCTGAAGTTGGCACGTACT	60.603	55.000	0.00	0.00	0.00	2.73
866	898	5.071923	GCCAAAGGACTCTACCATACCTTAT	59.928	44.000	0.00	0.00	39.59	1.73
934	966	8.301730	TCGATGTATTTTGATCGGGTTATAAC	57.698	34.615	7.09	7.09	41.46	1.89
941	973	4.551990	CGGTTTCGATGTATTTTGATCGGG	60.552	45.833	0.00	0.00	41.46	5.14
1034	1066	1.299541	GAAGATGGCATGGTACGGTG	58.700	55.000	3.81	0.00	0.00	4.94
1044	1078	3.717400	GAGAGTATGTCGAAGATGGCA	57.283	47.619	0.00	0.00	40.67	4.92
1065	1099	1.153686	GGACTTTACCGGCGTCCTC	60.154	63.158	19.69	3.64	42.99	3.71
1231	1268	1.524002	CGTCCATGTCCATGAGCCT	59.476	57.895	8.82	0.00	41.20	4.58
1419	1467	0.667993	CAGCAAAAGGAAAGGCGTCA	59.332	50.000	0.00	0.00	0.00	4.35
1450	1498	1.361668	CCGAAGCCGAAGATGGTGTG	61.362	60.000	0.00	0.00	38.22	3.82
1546	1595	1.618861	CTCCAACATCTGTCGTCGTC	58.381	55.000	0.00	0.00	0.00	4.20
1547	1596	0.243907	CCTCCAACATCTGTCGTCGT	59.756	55.000	0.00	0.00	0.00	4.34
1548	1597	0.526211	TCCTCCAACATCTGTCGTCG	59.474	55.000	0.00	0.00	0.00	5.12
1558	1607	0.961019	GCATGTGCTTTCCTCCAACA	59.039	50.000	0.00	0.00	38.21	3.33
1585	1634	1.001760	TAGAGCAGGGGTGGACCTC	59.998	63.158	0.00	0.00	39.34	3.85
1713	1771	4.401519	ACGAATTTCTATGGTCCTTCGAGA	59.598	41.667	12.54	0.00	38.92	4.04
1727	1785	0.249398	CTCCACCCCGACGAATTTCT	59.751	55.000	0.00	0.00	0.00	2.52
1753	1811	3.101019	GGATTGCCGTTGTTTTCCG	57.899	52.632	0.00	0.00	0.00	4.30
1934	1998	1.872952	GCATATAACGGCATGCTGTCA	59.127	47.619	31.48	19.69	43.38	3.58
1935	1999	1.197721	GGCATATAACGGCATGCTGTC	59.802	52.381	31.48	17.68	45.50	3.51
1958	2022	0.176449	TCCACCATGCATCACTCTCG	59.824	55.000	0.00	0.00	0.00	4.04
1962	2026	0.986527	TCTGTCCACCATGCATCACT	59.013	50.000	0.00	0.00	0.00	3.41
2053	2117	3.579709	CTCCCACGATATCTATGCACAC	58.420	50.000	0.34	0.00	0.00	3.82
2153	2224	1.519408	TGCTTGGTCTAGAAAACGCC	58.481	50.000	0.00	0.00	0.00	5.68
2216	2288	0.320697	AGTAACGCCGCTCTCCTTTT	59.679	50.000	0.00	0.00	0.00	2.27
2255	2327	9.547279	ACATGTATCTAGGACCATGATAACATA	57.453	33.333	17.58	0.00	38.40	2.29
2270	2342	6.489603	ACCAGATCCCTAGACATGTATCTAG	58.510	44.000	12.55	12.55	45.38	2.43
2298	2370	5.412640	TCGTATTATGTCAAACGGTCACAT	58.587	37.500	3.67	3.67	36.08	3.21
2301	2373	5.106038	ACTCTCGTATTATGTCAAACGGTCA	60.106	40.000	0.00	0.00	36.08	4.02
2309	2381	9.447040	CGATTTTCTTACTCTCGTATTATGTCA	57.553	33.333	0.00	0.00	0.00	3.58
2321	2393	6.528423	CGTCAGACAATCGATTTTCTTACTCT	59.472	38.462	25.02	6.42	0.00	3.24
2354	2426	1.536766	CCGTACGTCACTGTTCACCTA	59.463	52.381	15.21	0.00	0.00	3.08
2382	2454	4.980805	GCTCGTCACCGTTGCCCA	62.981	66.667	0.00	0.00	35.01	5.36
2413	2485	0.600255	CTGCTTTTCGTGACGGAGGT	60.600	55.000	4.70	0.00	0.00	3.85
2436	2508	5.300752	GTGAACATACGATTCTGATCCCAT	58.699	41.667	0.00	0.00	0.00	4.00
2468	2540	3.112075	CGGCGCTGTGTACAGGTG	61.112	66.667	8.45	0.03	43.94	4.00
2486	2558	5.121142	CCGGTCAACATTTACTAATCGTTGT	59.879	40.000	0.00	0.00	35.97	3.32
2536	2609	1.037579	GGGAAAGGGGAGAAATGCCG	61.038	60.000	0.00	0.00	0.00	5.69
2540	2613	1.078823	GTTGGGGGAAAGGGGAGAAAT	59.921	52.381	0.00	0.00	0.00	2.17
2552	2625	0.267960	GAGATAGGGAGGTTGGGGGA	59.732	60.000	0.00	0.00	0.00	4.81
2576	9101	1.582610	GCCATGGTTTCGCCTTTCGA	61.583	55.000	14.67	0.00	46.88	3.71
2579	9104	2.635443	CCGCCATGGTTTCGCCTTT	61.635	57.895	14.67	0.00	38.35	3.11
2602	9127	2.721231	CCATACCATTTGCCGCCG	59.279	61.111	0.00	0.00	0.00	6.46
2603	9128	2.417097	GCCATACCATTTGCCGCC	59.583	61.111	0.00	0.00	0.00	6.13
2604	9129	1.999071	TTCGCCATACCATTTGCCGC	61.999	55.000	0.00	0.00	0.00	6.53
2605	9130	0.029300	CTTCGCCATACCATTTGCCG	59.971	55.000	0.00	0.00	0.00	5.69
2606	9131	1.102978	ACTTCGCCATACCATTTGCC	58.897	50.000	0.00	0.00	0.00	4.52
2607	9132	2.923020	CAAACTTCGCCATACCATTTGC	59.077	45.455	0.00	0.00	0.00	3.68
2608	9133	2.923020	GCAAACTTCGCCATACCATTTG	59.077	45.455	0.00	0.00	0.00	2.32

Based at the University of Bristol with support from BBSRC.

AutoCloner maintained by Alex Coulton.