AutoCloner

Multiple sequence alignment - TraesCS3D01G286700

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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	TraesCS3D01G286700	chr3D	100.000	2240	0	0	1	2240	395645333	395643094	0.000000e+00	4137.0
1	TraesCS3D01G286700	chr3A	88.160	777	39	20	840	1591	515286009	515285261	0.000000e+00	876.0
2	TraesCS3D01G286700	chr3A	90.785	586	28	9	840	1422	515725879	515725317	0.000000e+00	760.0
3	TraesCS3D01G286700	chr3A	91.120	518	23	10	1745	2240	515284909	515284393	0.000000e+00	680.0
4	TraesCS3D01G286700	chr3A	90.385	520	26	4	1745	2240	515724888	515724369	0.000000e+00	662.0
5	TraesCS3D01G286700	chr3A	88.735	506	47	8	1	502	515726518	515726019	5.290000e-171	610.0
6	TraesCS3D01G286700	chr3A	91.369	336	22	4	1420	1749	515725261	515724927	9.430000e-124	453.0
7	TraesCS3D01G286700	chr3A	88.611	360	30	7	136	492	515589359	515589008	5.720000e-116	427.0
8	TraesCS3D01G286700	chr3A	88.554	166	13	2	1590	1749	515285113	515284948	1.750000e-46	196.0
9	TraesCS3D01G286700	chr3A	88.372	129	13	2	482	609	10694173	10694046	1.070000e-33	154.0
10	TraesCS3D01G286700	chr3A	95.556	45	2	0	748	792	515286111	515286067	3.090000e-09	73.1
11	TraesCS3D01G286700	chr3B	92.487	599	25	11	840	1422	520373356	520372762	0.000000e+00	839.0
12	TraesCS3D01G286700	chr3B	85.484	806	56	21	1482	2240	520447965	520447174	0.000000e+00	784.0
13	TraesCS3D01G286700	chr3B	93.196	485	23	7	944	1422	520448633	520448153	0.000000e+00	704.0
14	TraesCS3D01G286700	chr3B	90.734	518	26	2	1745	2240	520372357	520371840	0.000000e+00	671.0
15	TraesCS3D01G286700	chr3B	90.773	401	34	2	95	492	520449867	520449467	1.180000e-147	532.0
16	TraesCS3D01G286700	chr3B	85.177	479	50	9	12	476	520373887	520373416	2.600000e-129	472.0
17	TraesCS3D01G286700	chr3B	88.690	336	16	7	1420	1749	520372715	520372396	7.500000e-105	390.0
18	TraesCS3D01G286700	chr3B	89.474	114	12	0	605	718	520449468	520449355	6.450000e-31	145.0
19	TraesCS3D01G286700	chr3B	76.953	256	29	18	705	946	520449337	520449098	3.910000e-23	119.0
20	TraesCS3D01G286700	chr5A	90.984	122	11	0	488	609	611023183	611023304	4.950000e-37	165.0
21	TraesCS3D01G286700	chr5A	87.597	129	14	2	487	614	513817947	513818074	4.980000e-32	148.0
22	TraesCS3D01G286700	chr7D	89.764	127	10	3	486	610	101736237	101736362	2.300000e-35	159.0
23	TraesCS3D01G286700	chr7D	89.431	123	13	0	484	606	177118655	177118777	2.980000e-34	156.0
24	TraesCS3D01G286700	chr6B	89.916	119	12	0	491	609	601043175	601043057	1.070000e-33	154.0
25	TraesCS3D01G286700	chr2D	89.431	123	12	1	491	613	622831210	622831331	1.070000e-33	154.0
26	TraesCS3D01G286700	chr2D	92.105	38	3	0	744	781	372183131	372183094	1.000000e-03	54.7
27	TraesCS3D01G286700	chr2A	90.000	120	11	1	491	609	757643585	757643704	1.070000e-33	154.0
28	TraesCS3D01G286700	chr2B	88.710	124	13	1	485	607	87701616	87701493	1.390000e-32	150.0

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	TraesCS3D01G286700	chr3D	395643094	395645333	2239	True	4137.000	4137	100.0000	1	2240	1	chr3D.!!$R1	2239
1	TraesCS3D01G286700	chr3A	515724369	515726518	2149	True	621.250	760	90.3185	1	2240	4	chr3A.!!$R4	2239
2	TraesCS3D01G286700	chr3A	515284393	515286111	1718	True	456.275	876	90.8475	748	2240	4	chr3A.!!$R3	1492
3	TraesCS3D01G286700	chr3B	520371840	520373887	2047	True	593.000	839	89.2720	12	2240	4	chr3B.!!$R1	2228
4	TraesCS3D01G286700	chr3B	520447174	520449867	2693	True	456.800	784	87.1760	95	2240	5	chr3B.!!$R2	2145

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
682	735	0.608035	CACCACGTGCCCCTAACAAT	60.608	55.0	10.91	0.0	0.0	2.71	F

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability	Orientation
1689	2576	0.171007	ATTTCCAAGCGATTGTGCCG	59.829	50.0	13.05	0.0	34.65	5.69	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
27	29	4.262036	CGTATAGCCCACAATCTAGCAAGA	60.262	45.833	0.00	0.00	35.80	3.02
57	59	9.847224	ACTTGTTAGTCTAAGGATTCTTTTTGA	57.153	29.630	0.00	0.00	34.59	2.69
60	62	9.847224	TGTTAGTCTAAGGATTCTTTTTGAACT	57.153	29.630	0.00	0.00	37.52	3.01
63	65	8.171164	AGTCTAAGGATTCTTTTTGAACTTGG	57.829	34.615	0.00	0.00	37.52	3.61
93	95	4.663334	AGGGGTCTCCAAGTTTTGTATTC	58.337	43.478	0.00	0.00	38.24	1.75
102	116	4.799949	CCAAGTTTTGTATTCGCATGATGG	59.200	41.667	0.00	0.00	0.00	3.51
107	121	5.895636	TTTGTATTCGCATGATGGAAGTT	57.104	34.783	0.00	0.00	0.00	2.66
114	128	5.295431	TCGCATGATGGAAGTTTGTTTAG	57.705	39.130	0.00	0.00	0.00	1.85
119	133	6.374333	GCATGATGGAAGTTTGTTTAGACCTA	59.626	38.462	0.00	0.00	0.00	3.08
145	159	0.940126	GCGCACCATATTCCTGTCAG	59.060	55.000	0.30	0.00	0.00	3.51
150	164	3.193267	GCACCATATTCCTGTCAGCAAAA	59.807	43.478	0.00	0.00	0.00	2.44
206	221	7.884354	CCACTTTTAACACCCTACTTTGGTATA	59.116	37.037	0.00	0.00	33.84	1.47
311	328	2.887568	GTCGCACATGGCTCCTCG	60.888	66.667	0.00	0.00	41.67	4.63
328	345	4.578871	TCCTCGATTCATTCTTTTGCTGA	58.421	39.130	0.00	0.00	0.00	4.26
333	350	7.358683	CCTCGATTCATTCTTTTGCTGAAAAAC	60.359	37.037	0.00	0.00	34.08	2.43
374	391	4.725790	AAAATGATGCAACCTAGAAGCC	57.274	40.909	0.00	0.00	0.00	4.35
385	402	2.026822	ACCTAGAAGCCAATGTGGTGAG	60.027	50.000	0.00	0.00	40.46	3.51
424	441	3.689161	TCAACGAATAAGGAGTTGCATGG	59.311	43.478	0.00	0.00	43.35	3.66
502	519	8.909671	CCGTTATAAAATAATACTCACTCCGTC	58.090	37.037	0.00	0.00	0.00	4.79
504	521	8.909671	GTTATAAAATAATACTCACTCCGTCCG	58.090	37.037	0.00	0.00	0.00	4.79
505	522	4.317671	AAATAATACTCACTCCGTCCGG	57.682	45.455	0.00	0.00	0.00	5.14
506	523	2.715749	TAATACTCACTCCGTCCGGA	57.284	50.000	0.00	0.00	42.90	5.14
507	524	1.843368	AATACTCACTCCGTCCGGAA	58.157	50.000	5.23	0.00	44.66	4.30
508	525	1.843368	ATACTCACTCCGTCCGGAAA	58.157	50.000	5.23	0.00	44.66	3.13
509	526	1.843368	TACTCACTCCGTCCGGAAAT	58.157	50.000	5.23	0.00	44.66	2.17
510	527	1.843368	ACTCACTCCGTCCGGAAATA	58.157	50.000	5.23	0.00	44.66	1.40
511	528	1.475682	ACTCACTCCGTCCGGAAATAC	59.524	52.381	5.23	0.00	44.66	1.89
512	529	1.749634	CTCACTCCGTCCGGAAATACT	59.250	52.381	5.23	0.00	44.66	2.12
513	530	2.165845	CTCACTCCGTCCGGAAATACTT	59.834	50.000	5.23	0.00	44.66	2.24
514	531	2.094390	TCACTCCGTCCGGAAATACTTG	60.094	50.000	5.23	0.00	44.66	3.16
515	532	1.897802	ACTCCGTCCGGAAATACTTGT	59.102	47.619	5.23	0.00	44.66	3.16
516	533	2.094338	ACTCCGTCCGGAAATACTTGTC	60.094	50.000	5.23	0.00	44.66	3.18
517	534	2.165845	CTCCGTCCGGAAATACTTGTCT	59.834	50.000	5.23	0.00	44.66	3.41
518	535	2.564062	TCCGTCCGGAAATACTTGTCTT	59.436	45.455	5.23	0.00	42.05	3.01
519	536	3.763360	TCCGTCCGGAAATACTTGTCTTA	59.237	43.478	5.23	0.00	42.05	2.10
520	537	4.110482	CCGTCCGGAAATACTTGTCTTAG	58.890	47.826	5.23	0.00	37.50	2.18
521	538	4.142315	CCGTCCGGAAATACTTGTCTTAGA	60.142	45.833	5.23	0.00	37.50	2.10
522	539	5.404946	CGTCCGGAAATACTTGTCTTAGAA	58.595	41.667	5.23	0.00	0.00	2.10
523	540	5.865552	CGTCCGGAAATACTTGTCTTAGAAA	59.134	40.000	5.23	0.00	0.00	2.52
524	541	6.534079	CGTCCGGAAATACTTGTCTTAGAAAT	59.466	38.462	5.23	0.00	0.00	2.17
525	542	7.464178	CGTCCGGAAATACTTGTCTTAGAAATG	60.464	40.741	5.23	0.00	0.00	2.32
526	543	6.821665	TCCGGAAATACTTGTCTTAGAAATGG	59.178	38.462	0.00	0.00	0.00	3.16
527	544	6.821665	CCGGAAATACTTGTCTTAGAAATGGA	59.178	38.462	0.00	0.00	0.00	3.41
528	545	7.499232	CCGGAAATACTTGTCTTAGAAATGGAT	59.501	37.037	0.00	0.00	0.00	3.41
529	546	9.542462	CGGAAATACTTGTCTTAGAAATGGATA	57.458	33.333	0.00	0.00	0.00	2.59
599	652	7.712264	TTAAGACAAGTATTTTCGAACGGAA	57.288	32.000	0.00	0.00	0.00	4.30
615	668	5.334724	CGAACGGAAGGAGTAGTATATGACC	60.335	48.000	0.00	0.00	0.00	4.02
620	673	5.304614	GGAAGGAGTAGTATATGACCAAGCA	59.695	44.000	0.00	0.00	0.00	3.91
645	698	2.046892	CCCGCACTTGGTGAGAGG	60.047	66.667	1.57	1.92	35.44	3.69
655	708	3.960102	ACTTGGTGAGAGGAAAATTGCAA	59.040	39.130	0.00	0.00	0.00	4.08
682	735	0.608035	CACCACGTGCCCCTAACAAT	60.608	55.000	10.91	0.00	0.00	2.71
711	764	7.510685	AGACCTACCTGATAGATTGCTAAATGA	59.489	37.037	0.00	0.00	31.83	2.57
718	771	8.778358	CCTGATAGATTGCTAAATGAGGTAAAC	58.222	37.037	0.00	0.00	0.00	2.01
741	831	4.038804	CCTCCCCCTCCCCTCCAA	62.039	72.222	0.00	0.00	0.00	3.53
742	832	2.127297	CTCCCCCTCCCCTCCAAA	59.873	66.667	0.00	0.00	0.00	3.28
783	873	7.595130	GGATGAAAAACTGTTGAATGGAGTTAC	59.405	37.037	0.00	0.00	29.71	2.50
788	878	3.498397	ACTGTTGAATGGAGTTACTTGCG	59.502	43.478	0.00	0.00	0.00	4.85
792	882	3.734463	TGAATGGAGTTACTTGCGTCAA	58.266	40.909	0.00	0.00	0.00	3.18
793	883	4.323417	TGAATGGAGTTACTTGCGTCAAT	58.677	39.130	0.00	0.00	0.00	2.57
794	884	4.391830	TGAATGGAGTTACTTGCGTCAATC	59.608	41.667	0.00	0.00	0.00	2.67
795	885	2.695359	TGGAGTTACTTGCGTCAATCC	58.305	47.619	0.00	0.00	0.00	3.01
796	886	1.659098	GGAGTTACTTGCGTCAATCCG	59.341	52.381	0.00	0.00	0.00	4.18
833	923	6.811253	AGTTATTTGCGTCAACAGGAATTA	57.189	33.333	0.00	0.00	0.00	1.40
859	968	0.954452	GAAGGATAGCATTTGGCCCG	59.046	55.000	0.00	0.00	46.50	6.13
947	1060	1.376037	CTTCCTCACGTCAAGGCCC	60.376	63.158	0.00	0.00	33.65	5.80
948	1061	3.234630	TTCCTCACGTCAAGGCCCG	62.235	63.158	0.00	0.00	33.65	6.13
952	1533	2.978010	CACGTCAAGGCCCGCTTT	60.978	61.111	0.00	0.00	0.00	3.51
970	1551	2.760385	CCCCACCCTCTCGGAGTC	60.760	72.222	4.69	0.00	34.64	3.36
1209	1797	3.471806	GGCTCGTCCTCCCTTCCC	61.472	72.222	0.00	0.00	0.00	3.97
1312	1903	5.798125	TGTTCTCAGATTGGATAGCTAGG	57.202	43.478	0.00	0.00	0.00	3.02
1345	1945	7.448748	ACCCTAAATGTTGTTCTATGTCAAC	57.551	36.000	0.00	0.00	42.62	3.18
1369	1969	3.070018	CGATCCCTGGTTATGCTTGATC	58.930	50.000	0.00	0.00	0.00	2.92
1378	1978	5.128205	TGGTTATGCTTGATCTTCATCCTG	58.872	41.667	0.00	0.00	0.00	3.86
1379	1979	5.128919	GGTTATGCTTGATCTTCATCCTGT	58.871	41.667	0.00	0.00	0.00	4.00
1454	2115	6.993786	AAAGAAAGCTGCTACCTAGAAATC	57.006	37.500	0.90	0.00	0.00	2.17
1593	2472	0.471971	GGCCAGGCTCCATCCTAGTA	60.472	60.000	12.43	0.00	33.95	1.82
1636	2515	0.607217	TGAGCTGACCCTGCATTGTG	60.607	55.000	0.00	0.00	0.00	3.33
1702	2589	1.169661	TGGAAACGGCACAATCGCTT	61.170	50.000	0.00	0.00	0.00	4.68
1703	2590	0.729140	GGAAACGGCACAATCGCTTG	60.729	55.000	0.00	0.00	38.39	4.01
1743	2630	2.037772	CCAGCTCTTCTGTAGTGTTGGT	59.962	50.000	9.84	0.00	41.27	3.67
1962	2917	9.559732	ACTTTGCAATCACATTAGCTATACATA	57.440	29.630	0.00	0.00	0.00	2.29
2016	2971	1.080093	CGCTTCTTACCGAGCACCA	60.080	57.895	0.00	0.00	0.00	4.17

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
5	6	4.991687	GTCTTGCTAGATTGTGGGCTATAC	59.008	45.833	0.05	0.00	31.86	1.47
9	10	1.630369	TGTCTTGCTAGATTGTGGGCT	59.370	47.619	0.05	0.00	31.86	5.19
71	73	4.663334	GAATACAAAACTTGGAGACCCCT	58.337	43.478	0.00	0.00	35.38	4.79
75	77	4.742438	TGCGAATACAAAACTTGGAGAC	57.258	40.909	0.00	0.00	34.12	3.36
88	90	5.235305	ACAAACTTCCATCATGCGAATAC	57.765	39.130	0.00	0.00	0.00	1.89
93	95	5.088739	GTCTAAACAAACTTCCATCATGCG	58.911	41.667	0.00	0.00	0.00	4.73
102	116	9.326339	CGCTTAATTTAGGTCTAAACAAACTTC	57.674	33.333	5.43	0.00	37.80	3.01
107	121	6.348704	GGTGCGCTTAATTTAGGTCTAAACAA	60.349	38.462	9.73	3.31	37.80	2.83
114	128	5.941948	ATATGGTGCGCTTAATTTAGGTC	57.058	39.130	9.73	0.00	0.00	3.85
119	133	4.644685	ACAGGAATATGGTGCGCTTAATTT	59.355	37.500	9.73	0.00	0.00	1.82
126	140	0.940126	CTGACAGGAATATGGTGCGC	59.060	55.000	0.00	0.00	0.00	6.09
191	205	6.515512	AGCATCAATATACCAAAGTAGGGT	57.484	37.500	0.00	0.00	42.48	4.34
206	221	8.546083	TGTTAAATGGGGTAATTAGCATCAAT	57.454	30.769	16.07	4.85	0.00	2.57
209	224	9.830975	AAAATGTTAAATGGGGTAATTAGCATC	57.169	29.630	16.07	8.31	31.84	3.91
242	259	3.279434	GGAAATCGCTAAATGGGTGACT	58.721	45.455	0.00	0.00	0.00	3.41
311	328	8.134905	ACAGTTTTTCAGCAAAAGAATGAATC	57.865	30.769	8.75	0.00	34.90	2.52
328	345	7.329588	AGAAATAACTCCAACGACAGTTTTT	57.670	32.000	0.00	0.00	38.79	1.94
333	350	8.717821	TCATTTTAGAAATAACTCCAACGACAG	58.282	33.333	0.00	0.00	0.00	3.51
374	391	6.878923	TCACCTTATTCTTACTCACCACATTG	59.121	38.462	0.00	0.00	0.00	2.82
424	441	5.638783	CCTTGATGAGTTTCTTCTTCATGC	58.361	41.667	0.00	0.00	33.10	4.06
502	519	6.821665	TCCATTTCTAAGACAAGTATTTCCGG	59.178	38.462	0.00	0.00	0.00	5.14
577	594	5.178809	CCTTCCGTTCGAAAATACTTGTCTT	59.821	40.000	0.00	0.00	0.00	3.01
579	596	4.687483	TCCTTCCGTTCGAAAATACTTGTC	59.313	41.667	0.00	0.00	0.00	3.18
582	599	4.891260	ACTCCTTCCGTTCGAAAATACTT	58.109	39.130	0.00	0.00	0.00	2.24
585	602	5.649782	ACTACTCCTTCCGTTCGAAAATA	57.350	39.130	0.00	0.00	0.00	1.40
586	603	4.532314	ACTACTCCTTCCGTTCGAAAAT	57.468	40.909	0.00	0.00	0.00	1.82
588	605	6.543465	TCATATACTACTCCTTCCGTTCGAAA	59.457	38.462	0.00	0.00	0.00	3.46
589	606	6.017605	GTCATATACTACTCCTTCCGTTCGAA	60.018	42.308	0.00	0.00	0.00	3.71
591	608	5.334724	GGTCATATACTACTCCTTCCGTTCG	60.335	48.000	0.00	0.00	0.00	3.95
592	609	5.533903	TGGTCATATACTACTCCTTCCGTTC	59.466	44.000	0.00	0.00	0.00	3.95
593	610	5.452255	TGGTCATATACTACTCCTTCCGTT	58.548	41.667	0.00	0.00	0.00	4.44
599	652	7.220030	CAATTGCTTGGTCATATACTACTCCT	58.780	38.462	0.00	0.00	0.00	3.69
615	668	2.274645	TGCGGGGTCCAATTGCTTG	61.275	57.895	0.00	0.00	0.00	4.01
620	673	1.606313	CCAAGTGCGGGGTCCAATT	60.606	57.895	0.00	0.00	0.00	2.32
645	698	2.724174	GGTGTGCTACGTTGCAATTTTC	59.276	45.455	25.64	13.58	45.12	2.29
672	725	4.589374	CAGGTAGGTCTAGATTGTTAGGGG	59.411	50.000	0.00	0.00	0.00	4.79
682	735	6.207509	AGCAATCTATCAGGTAGGTCTAGA	57.792	41.667	0.00	0.00	0.00	2.43
726	816	1.071745	TTTTTGGAGGGGAGGGGGA	60.072	57.895	0.00	0.00	0.00	4.81
741	831	9.710900	GTTTTTCATCCAGATTACCTCATTTTT	57.289	29.630	0.00	0.00	0.00	1.94
742	832	9.093458	AGTTTTTCATCCAGATTACCTCATTTT	57.907	29.630	0.00	0.00	0.00	1.82
803	893	6.861055	CCTGTTGACGCAAATAACTACATTTT	59.139	34.615	0.00	0.00	0.00	1.82
804	894	6.205853	TCCTGTTGACGCAAATAACTACATTT	59.794	34.615	0.00	0.00	0.00	2.32
806	896	5.242434	TCCTGTTGACGCAAATAACTACAT	58.758	37.500	0.00	0.00	0.00	2.29
807	897	4.633175	TCCTGTTGACGCAAATAACTACA	58.367	39.130	0.00	0.00	0.00	2.74
809	899	6.811253	AATTCCTGTTGACGCAAATAACTA	57.189	33.333	0.00	0.00	0.00	2.24
810	900	5.705609	AATTCCTGTTGACGCAAATAACT	57.294	34.783	0.00	0.00	0.00	2.24
811	901	8.460831	AATTAATTCCTGTTGACGCAAATAAC	57.539	30.769	0.00	0.00	0.00	1.89
812	902	7.483375	CGAATTAATTCCTGTTGACGCAAATAA	59.517	33.333	20.01	0.00	33.28	1.40
813	903	6.964370	CGAATTAATTCCTGTTGACGCAAATA	59.036	34.615	20.01	0.00	33.28	1.40
815	905	5.049336	TCGAATTAATTCCTGTTGACGCAAA	60.049	36.000	20.01	0.00	33.28	3.68
816	906	4.452795	TCGAATTAATTCCTGTTGACGCAA	59.547	37.500	20.01	0.00	33.28	4.85
817	907	3.997681	TCGAATTAATTCCTGTTGACGCA	59.002	39.130	20.01	0.00	33.28	5.24
818	908	4.328983	TCTCGAATTAATTCCTGTTGACGC	59.671	41.667	20.01	0.00	33.28	5.19
819	909	6.403333	TTCTCGAATTAATTCCTGTTGACG	57.597	37.500	20.01	8.56	33.28	4.35
820	910	6.594159	TCCTTCTCGAATTAATTCCTGTTGAC	59.406	38.462	20.01	0.00	33.28	3.18
821	911	6.707290	TCCTTCTCGAATTAATTCCTGTTGA	58.293	36.000	20.01	11.27	33.28	3.18
822	912	6.985188	TCCTTCTCGAATTAATTCCTGTTG	57.015	37.500	20.01	7.89	33.28	3.33
833	923	4.276926	GCCAAATGCTATCCTTCTCGAATT	59.723	41.667	0.00	0.00	36.87	2.17
859	968	6.404734	CCTTTATGGGCTCACATTTTCTGTAC	60.405	42.308	0.00	0.00	35.91	2.90
947	1060	2.269241	GAGAGGGTGGGGAAAGCG	59.731	66.667	0.00	0.00	0.00	4.68
948	1061	2.269241	CGAGAGGGTGGGGAAAGC	59.731	66.667	0.00	0.00	0.00	3.51
981	1562	3.521796	GGATCGCCTTGCTTGCCC	61.522	66.667	0.00	0.00	0.00	5.36
1209	1797	4.421479	AAGCCGTCGCAGAGGTCG	62.421	66.667	0.00	0.00	41.34	4.79
1312	1903	5.354842	ACAACATTTAGGGTAGTCTAGCC	57.645	43.478	18.78	18.78	46.53	3.93
1345	1945	2.332063	AGCATAACCAGGGATCGTTG	57.668	50.000	0.00	0.00	0.00	4.10
1350	1950	4.166725	TGAAGATCAAGCATAACCAGGGAT	59.833	41.667	0.00	0.00	0.00	3.85
1369	1969	5.240183	ACATGAGTTTCACAACAGGATGAAG	59.760	40.000	0.00	0.00	39.69	3.02
1378	1978	6.603095	GGTGAATAGACATGAGTTTCACAAC	58.397	40.000	23.41	12.41	41.47	3.32
1379	1979	5.408299	CGGTGAATAGACATGAGTTTCACAA	59.592	40.000	23.41	0.00	41.47	3.33
1454	2115	3.792401	TGCGTACTGGAATAACATGAGG	58.208	45.455	0.00	0.00	0.00	3.86
1511	2241	8.821147	TTTATCGTTGACGCACCTATATATTT	57.179	30.769	0.00	0.00	39.60	1.40
1513	2243	8.248253	TCATTTATCGTTGACGCACCTATATAT	58.752	33.333	0.00	0.00	39.60	0.86
1514	2244	7.595604	TCATTTATCGTTGACGCACCTATATA	58.404	34.615	0.00	0.00	39.60	0.86
1515	2245	6.452242	TCATTTATCGTTGACGCACCTATAT	58.548	36.000	0.00	0.00	39.60	0.86
1516	2246	5.834169	TCATTTATCGTTGACGCACCTATA	58.166	37.500	0.00	0.00	39.60	1.31
1557	2287	1.405391	GGCCCATATGCAACACAAACC	60.405	52.381	0.00	0.00	0.00	3.27
1615	2494	0.322277	CAATGCAGGGTCAGCTCAGT	60.322	55.000	0.00	0.00	0.00	3.41
1689	2576	0.171007	ATTTCCAAGCGATTGTGCCG	59.829	50.000	13.05	0.00	34.65	5.69
1702	2589	5.336690	GCTGGAGCATTTTACAAGATTTCCA	60.337	40.000	0.00	0.00	41.59	3.53
1703	2590	5.105063	GCTGGAGCATTTTACAAGATTTCC	58.895	41.667	0.00	0.00	41.59	3.13
1743	2630	3.685139	CTGGCAGAGAAAACCAGTAGA	57.315	47.619	9.42	0.00	44.91	2.59
1962	2917	9.374838	GGAGAGAATTTGATGTAAAATGCAATT	57.625	29.630	0.00	0.00	38.98	2.32

Based at the University of Bristol with support from BBSRC.

AutoCloner maintained by Alex Coulton.