AutoCloner

Multiple sequence alignment - TraesCS3B01G351900

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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	TraesCS3B01G351900	chr3B	100.000	2401	0	0	1	2401	561591592	561593992	0.000000e+00	4434.0
1	TraesCS3B01G351900	chr3B	91.726	1124	49	14	528	1623	561840316	561841423	0.000000e+00	1520.0
2	TraesCS3B01G351900	chr3B	94.567	773	41	1	1624	2396	817282966	817283737	0.000000e+00	1194.0
3	TraesCS3B01G351900	chr3B	94.301	772	44	0	1625	2396	51124346	51125117	0.000000e+00	1182.0
4	TraesCS3B01G351900	chr3B	79.915	946	98	53	708	1608	561888893	561889791	5.670000e-171	610.0
5	TraesCS3B01G351900	chr3B	82.550	447	53	14	973	1402	561044761	561044323	1.050000e-98	370.0
6	TraesCS3B01G351900	chr3B	82.984	429	52	11	978	1404	561039106	561038697	3.770000e-98	368.0
7	TraesCS3B01G351900	chr3B	93.617	188	12	0	9	196	561695142	561695329	5.050000e-72	281.0
8	TraesCS3B01G351900	chr3D	91.010	1079	51	16	568	1623	429636845	429637900	0.000000e+00	1413.0
9	TraesCS3B01G351900	chr3D	80.293	888	85	59	608	1449	429647108	429647951	2.660000e-164	588.0
10	TraesCS3B01G351900	chr3D	82.110	436	51	17	971	1404	428994403	428993993	4.910000e-92	348.0
11	TraesCS3B01G351900	chr3D	93.596	203	6	1	1	196	429633775	429633977	1.800000e-76	296.0
12	TraesCS3B01G351900	chr3A	87.948	1145	70	26	528	1623	556341132	556340007	0.000000e+00	1288.0
13	TraesCS3B01G351900	chr3A	88.111	1085	64	29	567	1623	556354400	556353353	0.000000e+00	1229.0
14	TraesCS3B01G351900	chr3A	79.292	961	110	56	708	1622	556261163	556260246	7.390000e-165	590.0
15	TraesCS3B01G351900	chr3A	87.463	335	13	12	1	311	556355165	556354836	2.270000e-95	359.0
16	TraesCS3B01G351900	chr3A	81.699	459	58	15	966	1404	556678410	556678862	2.270000e-95	359.0
17	TraesCS3B01G351900	chr3A	82.114	123	12	3	407	522	556341326	556341207	1.960000e-16	97.1
18	TraesCS3B01G351900	chr4D	95.078	772	38	0	1625	2396	342538016	342538787	0.000000e+00	1216.0
19	TraesCS3B01G351900	chr5B	94.942	771	39	0	1629	2399	154033241	154032471	0.000000e+00	1208.0
20	TraesCS3B01G351900	chr5B	94.452	775	43	0	1625	2399	55644793	55644019	0.000000e+00	1194.0
21	TraesCS3B01G351900	chr6B	94.430	772	42	1	1625	2396	453281782	453282552	0.000000e+00	1186.0
22	TraesCS3B01G351900	chr4A	94.301	772	44	0	1625	2396	733795662	733796433	0.000000e+00	1182.0
23	TraesCS3B01G351900	chr6D	94.065	775	46	0	1625	2399	368119756	368118982	0.000000e+00	1177.0
24	TraesCS3B01G351900	chr5D	94.171	772	45	0	1625	2396	439297330	439298101	0.000000e+00	1177.0

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	TraesCS3B01G351900	chr3B	561591592	561593992	2400	False	4434.00	4434	100.000	1	2401	1	chr3B.!!$F2	2400
1	TraesCS3B01G351900	chr3B	561840316	561841423	1107	False	1520.00	1520	91.726	528	1623	1	chr3B.!!$F4	1095
2	TraesCS3B01G351900	chr3B	817282966	817283737	771	False	1194.00	1194	94.567	1624	2396	1	chr3B.!!$F6	772
3	TraesCS3B01G351900	chr3B	51124346	51125117	771	False	1182.00	1182	94.301	1625	2396	1	chr3B.!!$F1	771
4	TraesCS3B01G351900	chr3B	561888893	561889791	898	False	610.00	610	79.915	708	1608	1	chr3B.!!$F5	900
5	TraesCS3B01G351900	chr3D	429633775	429637900	4125	False	854.50	1413	92.303	1	1623	2	chr3D.!!$F2	1622
6	TraesCS3B01G351900	chr3D	429647108	429647951	843	False	588.00	588	80.293	608	1449	1	chr3D.!!$F1	841
7	TraesCS3B01G351900	chr3A	556353353	556355165	1812	True	794.00	1229	87.787	1	1623	2	chr3A.!!$R3	1622
8	TraesCS3B01G351900	chr3A	556340007	556341326	1319	True	692.55	1288	85.031	407	1623	2	chr3A.!!$R2	1216
9	TraesCS3B01G351900	chr3A	556260246	556261163	917	True	590.00	590	79.292	708	1622	1	chr3A.!!$R1	914
10	TraesCS3B01G351900	chr4D	342538016	342538787	771	False	1216.00	1216	95.078	1625	2396	1	chr4D.!!$F1	771
11	TraesCS3B01G351900	chr5B	154032471	154033241	770	True	1208.00	1208	94.942	1629	2399	1	chr5B.!!$R2	770
12	TraesCS3B01G351900	chr5B	55644019	55644793	774	True	1194.00	1194	94.452	1625	2399	1	chr5B.!!$R1	774
13	TraesCS3B01G351900	chr6B	453281782	453282552	770	False	1186.00	1186	94.430	1625	2396	1	chr6B.!!$F1	771
14	TraesCS3B01G351900	chr4A	733795662	733796433	771	False	1182.00	1182	94.301	1625	2396	1	chr4A.!!$F1	771
15	TraesCS3B01G351900	chr6D	368118982	368119756	774	True	1177.00	1177	94.065	1625	2399	1	chr6D.!!$R1	774
16	TraesCS3B01G351900	chr5D	439297330	439298101	771	False	1177.00	1177	94.171	1625	2396	1	chr5D.!!$F1	771

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
333	2154	0.621571	AGGGGGAGCTGTGATTGCTA	60.622	55.0	0.0	0.0	41.3	3.49	F

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability	Orientation
1926	4739	0.178973	TTCGATCCGCCCCTCATCTA	60.179	55.0	0.0	0.0	0.0	1.98	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
126	127	2.628657	GCCTGGATGGTAGGTAGTACTG	59.371	54.545	5.39	0.00	37.64	2.74
192	200	4.020307	TGTTCAGGCAACAGAGTATCATGA	60.020	41.667	0.00	0.00	40.29	3.07
196	204	7.071069	TCAGGCAACAGAGTATCATGATATT	57.929	36.000	18.18	14.22	37.82	1.28
282	1697	4.098894	AGTAAGACGGTATTTTCAGGGGA	58.901	43.478	0.00	0.00	0.00	4.81
284	1699	4.376225	AAGACGGTATTTTCAGGGGAAA	57.624	40.909	0.00	0.00	41.13	3.13
289	1704	3.190535	CGGTATTTTCAGGGGAAACTGTG	59.809	47.826	0.00	0.00	42.48	3.66
295	1710	0.890683	CAGGGGAAACTGTGATTGGC	59.109	55.000	0.00	0.00	33.81	4.52
311	1726	9.537192	CTGTGATTGGCATATTTTGACATATTT	57.463	29.630	0.00	0.00	44.92	1.40
312	1727	9.887629	TGTGATTGGCATATTTTGACATATTTT	57.112	25.926	0.00	0.00	44.92	1.82
316	2137	8.945481	TTGGCATATTTTGACATATTTTCAGG	57.055	30.769	0.00	0.00	44.92	3.86
318	2139	6.930722	GGCATATTTTGACATATTTTCAGGGG	59.069	38.462	0.00	0.00	31.51	4.79
326	2147	2.806945	TATTTTCAGGGGGAGCTGTG	57.193	50.000	0.00	0.00	0.00	3.66
328	2149	1.075601	TTTTCAGGGGGAGCTGTGAT	58.924	50.000	0.00	0.00	0.00	3.06
332	2153	1.927527	AGGGGGAGCTGTGATTGCT	60.928	57.895	0.00	0.00	44.24	3.91
333	2154	0.621571	AGGGGGAGCTGTGATTGCTA	60.622	55.000	0.00	0.00	41.30	3.49
336	2157	2.551071	GGGGGAGCTGTGATTGCTATAC	60.551	54.545	0.00	0.00	41.30	1.47
339	2160	2.805099	GGAGCTGTGATTGCTATACTGC	59.195	50.000	0.00	0.00	41.30	4.40
340	2161	2.474359	GAGCTGTGATTGCTATACTGCG	59.526	50.000	0.00	0.00	41.99	5.18
342	2163	2.609459	GCTGTGATTGCTATACTGCGTT	59.391	45.455	0.00	0.00	35.36	4.84
343	2164	3.302740	GCTGTGATTGCTATACTGCGTTC	60.303	47.826	0.00	0.00	35.36	3.95
344	2165	2.857748	TGTGATTGCTATACTGCGTTCG	59.142	45.455	0.00	0.00	35.36	3.95
345	2166	2.858344	GTGATTGCTATACTGCGTTCGT	59.142	45.455	0.00	0.00	35.36	3.85
346	2167	2.857748	TGATTGCTATACTGCGTTCGTG	59.142	45.455	0.00	0.00	35.36	4.35
347	2168	0.996462	TTGCTATACTGCGTTCGTGC	59.004	50.000	0.00	0.00	35.36	5.34
348	2169	0.804544	TGCTATACTGCGTTCGTGCC	60.805	55.000	0.00	0.00	35.36	5.01
350	2171	0.921347	CTATACTGCGTTCGTGCCAC	59.079	55.000	0.00	0.00	0.00	5.01
364	2485	0.881159	TGCCACCTTTTCCGTACACG	60.881	55.000	0.00	0.00	39.44	4.49
384	2505	1.346365	GCTGCGTTCTCGTGTGATTA	58.654	50.000	0.00	0.00	39.49	1.75
385	2506	1.059264	GCTGCGTTCTCGTGTGATTAC	59.941	52.381	0.00	0.00	39.49	1.89
387	2508	2.324860	TGCGTTCTCGTGTGATTACAG	58.675	47.619	0.00	0.00	37.52	2.74
419	3012	9.832445	TTCTTTTTCTATCACTGAACTACACTT	57.168	29.630	0.00	0.00	0.00	3.16
442	3035	2.603412	CCGCACAGATCGAGAGTGATAC	60.603	54.545	16.05	1.43	35.33	2.24
443	3036	2.289274	CGCACAGATCGAGAGTGATACT	59.711	50.000	16.05	0.00	35.33	2.12
444	3037	3.626977	GCACAGATCGAGAGTGATACTG	58.373	50.000	16.05	0.00	35.33	2.74
470	3063	2.228822	ACAATCGCATTTCACACCTTCC	59.771	45.455	0.00	0.00	0.00	3.46
480	3073	6.587608	GCATTTCACACCTTCCTTTTCTTATG	59.412	38.462	0.00	0.00	0.00	1.90
481	3074	7.661040	CATTTCACACCTTCCTTTTCTTATGT	58.339	34.615	0.00	0.00	0.00	2.29
485	3085	8.934023	TCACACCTTCCTTTTCTTATGTAAAT	57.066	30.769	0.00	0.00	0.00	1.40
514	3114	0.721718	GATCTGTGTACAGGTTGCGC	59.278	55.000	11.76	0.00	43.91	6.09
517	3117	1.568612	CTGTGTACAGGTTGCGCAGG	61.569	60.000	11.31	4.45	40.20	4.85
559	3233	5.017490	CCTACTGTCCTCTCTCCTTTGTTA	58.983	45.833	0.00	0.00	0.00	2.41
562	3236	2.561419	TGTCCTCTCTCCTTTGTTACGG	59.439	50.000	0.00	0.00	0.00	4.02
577	3251	2.288961	TACGGTCGATTCCTTCTTGC	57.711	50.000	0.00	0.00	0.00	4.01
691	3376	1.442017	GTCAAAATCACACGGCGGC	60.442	57.895	13.24	0.00	0.00	6.53
773	3462	3.551846	CCGGCCTGTAAATGTTAGGAAT	58.448	45.455	0.00	0.00	33.33	3.01
806	3499	1.662629	CCGTTCTCAGCATAAGCAGTG	59.337	52.381	0.00	0.00	45.49	3.66
837	3530	3.379445	GGACGCCGTCTCCAAGGA	61.379	66.667	17.76	0.00	32.47	3.36
1080	3826	3.554692	GCCGACGCCAAGATCACG	61.555	66.667	0.00	0.00	0.00	4.35
1488	4295	1.515304	GTCGCTCTGACGCTCTTCC	60.515	63.158	0.00	0.00	37.96	3.46
1490	4297	2.883253	GCTCTGACGCTCTTCCGC	60.883	66.667	0.00	0.00	0.00	5.54
1491	4298	2.568612	CTCTGACGCTCTTCCGCA	59.431	61.111	0.00	0.00	0.00	5.69
1493	4300	0.382158	CTCTGACGCTCTTCCGCATA	59.618	55.000	0.00	0.00	0.00	3.14
1494	4301	1.000827	CTCTGACGCTCTTCCGCATAT	60.001	52.381	0.00	0.00	0.00	1.78
1495	4302	1.135046	CTGACGCTCTTCCGCATATG	58.865	55.000	0.00	0.00	0.00	1.78
1496	4303	0.875908	TGACGCTCTTCCGCATATGC	60.876	55.000	18.08	18.08	37.78	3.14
1497	4304	1.560860	GACGCTCTTCCGCATATGCC	61.561	60.000	21.77	5.02	37.91	4.40
1498	4305	1.301244	CGCTCTTCCGCATATGCCT	60.301	57.895	21.77	0.00	37.91	4.75
1499	4306	1.287730	CGCTCTTCCGCATATGCCTC	61.288	60.000	21.77	2.85	37.91	4.70
1523	4330	4.569162	CCGCCATTATTCGAGTTGAGTTTA	59.431	41.667	0.00	0.00	0.00	2.01
1524	4331	5.490213	CGCCATTATTCGAGTTGAGTTTAC	58.510	41.667	0.00	0.00	0.00	2.01
1550	4357	2.304761	TGTACTTCCCTCGCAAAAGGAT	59.695	45.455	0.00	0.00	38.87	3.24
1551	4358	2.115343	ACTTCCCTCGCAAAAGGATC	57.885	50.000	0.00	0.00	38.87	3.36
1552	4359	1.009829	CTTCCCTCGCAAAAGGATCG	58.990	55.000	0.00	0.00	38.87	3.69
1553	4360	0.611200	TTCCCTCGCAAAAGGATCGA	59.389	50.000	0.00	0.00	38.87	3.59
1554	4361	0.175760	TCCCTCGCAAAAGGATCGAG	59.824	55.000	4.13	4.13	46.44	4.04
1556	4363	3.741029	CTCGCAAAAGGATCGAGGA	57.259	52.632	3.26	0.00	44.06	3.71
1557	4364	2.231215	CTCGCAAAAGGATCGAGGAT	57.769	50.000	3.26	0.00	44.06	3.24
1600	4413	1.032014	GTCTTTGTGCCAGCTTTGGA	58.968	50.000	0.00	0.00	0.00	3.53
1603	4416	2.699846	TCTTTGTGCCAGCTTTGGATTT	59.300	40.909	0.00	0.00	0.00	2.17
1647	4460	0.987294	CAACACCTCTCTGGATGGGT	59.013	55.000	0.00	0.00	39.71	4.51
1734	4547	1.203052	CAAAATTGCAGAGACCCGCAT	59.797	47.619	0.00	0.00	38.10	4.73
1740	4553	1.486310	TGCAGAGACCCGCATCTTATT	59.514	47.619	0.00	0.00	31.95	1.40
1786	4599	7.951347	AAATCAATCTAATGAGAAGGTTGCT	57.049	32.000	0.00	0.00	34.61	3.91
1793	4606	2.910688	TGAGAAGGTTGCTCGTCTTT	57.089	45.000	0.00	0.00	35.15	2.52
1826	4639	6.031964	AGGAGATCAAATACTACCAGAGGA	57.968	41.667	0.00	0.00	0.00	3.71
1847	4660	4.633565	GGACCAAAGCTGACTTCATTCTAG	59.366	45.833	0.00	0.00	34.05	2.43
1905	4718	3.495100	GCCAATGGTCGACATAGGAAGAT	60.495	47.826	18.91	0.00	39.40	2.40
1913	4726	8.873186	TGGTCGACATAGGAAGATATGTATTA	57.127	34.615	18.91	0.00	44.47	0.98
1951	4764	2.107141	GGGCGGATCGAAGGTCAG	59.893	66.667	0.00	0.00	0.00	3.51
2019	4832	1.776034	GCGTCGGATGAAGGGAATGC	61.776	60.000	0.33	0.00	0.00	3.56
2036	4849	2.584391	GCCACCCTTGACGAGACCT	61.584	63.158	0.00	0.00	0.00	3.85
2063	4876	5.937540	ACAAATGATATTCCACAAGTCACGA	59.062	36.000	0.00	0.00	0.00	4.35
2066	4879	4.888917	TGATATTCCACAAGTCACGACAA	58.111	39.130	0.00	0.00	0.00	3.18
2074	4887	4.494199	CCACAAGTCACGACAAAAGAGAAC	60.494	45.833	0.00	0.00	0.00	3.01
2075	4888	4.330074	CACAAGTCACGACAAAAGAGAACT	59.670	41.667	0.00	0.00	0.00	3.01
2251	5064	1.590238	CTTCATGCCGATCGACTTGAC	59.410	52.381	18.66	0.00	0.00	3.18
2284	5097	8.527810	AGGATAAATTTTGGCGAGATTGTTTTA	58.472	29.630	0.00	0.00	0.00	1.52
2347	5160	6.042093	TCAGACCCATATGTCTCCTTAATGTC	59.958	42.308	1.24	0.00	43.63	3.06
2396	5210	8.426489	TGGCTACGAATAGGTTAAACTTGATAT	58.574	33.333	0.00	0.00	0.00	1.63

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
126	127	9.982651	TGTAACACTCTTTATCTAATGGATAGC	57.017	33.333	0.00	0.00	38.07	2.97
192	200	8.806146	ACTTCAAAAGTGCTGTCCAATTAATAT	58.194	29.630	0.00	0.00	41.01	1.28
282	1697	6.757237	TGTCAAAATATGCCAATCACAGTTT	58.243	32.000	0.00	0.00	0.00	2.66
284	1699	5.981088	TGTCAAAATATGCCAATCACAGT	57.019	34.783	0.00	0.00	0.00	3.55
295	1710	8.248904	TCCCCCTGAAAATATGTCAAAATATG	57.751	34.615	0.00	0.00	0.00	1.78
311	1726	0.329261	CAATCACAGCTCCCCCTGAA	59.671	55.000	0.00	0.00	36.67	3.02
312	1727	1.993653	CAATCACAGCTCCCCCTGA	59.006	57.895	0.00	0.00	36.67	3.86
313	1728	1.751927	GCAATCACAGCTCCCCCTG	60.752	63.158	0.00	0.00	38.78	4.45
316	2137	2.370189	AGTATAGCAATCACAGCTCCCC	59.630	50.000	0.00	0.00	42.32	4.81
318	2139	2.805099	GCAGTATAGCAATCACAGCTCC	59.195	50.000	0.00	0.00	42.32	4.70
326	2147	2.347661	GCACGAACGCAGTATAGCAATC	60.348	50.000	0.00	0.00	45.00	2.67
328	2149	0.996462	GCACGAACGCAGTATAGCAA	59.004	50.000	0.00	0.00	45.00	3.91
332	2153	0.458889	GGTGGCACGAACGCAGTATA	60.459	55.000	12.17	0.00	45.00	1.47
333	2154	1.740296	GGTGGCACGAACGCAGTAT	60.740	57.895	12.17	0.00	45.00	2.12
336	2157	2.058829	AAAAGGTGGCACGAACGCAG	62.059	55.000	12.17	0.00	0.00	5.18
339	2160	1.281656	GGAAAAGGTGGCACGAACG	59.718	57.895	12.17	0.00	0.00	3.95
340	2161	1.281656	CGGAAAAGGTGGCACGAAC	59.718	57.895	12.17	0.00	0.00	3.95
342	2163	0.600782	GTACGGAAAAGGTGGCACGA	60.601	55.000	12.17	0.00	0.00	4.35
343	2164	0.881159	TGTACGGAAAAGGTGGCACG	60.881	55.000	12.17	0.15	0.00	5.34
344	2165	0.589708	GTGTACGGAAAAGGTGGCAC	59.410	55.000	9.70	9.70	0.00	5.01
345	2166	0.881159	CGTGTACGGAAAAGGTGGCA	60.881	55.000	0.00	0.00	35.37	4.92
346	2167	1.864176	CGTGTACGGAAAAGGTGGC	59.136	57.895	0.00	0.00	35.37	5.01
364	2485	1.291877	AATCACACGAGAACGCAGCC	61.292	55.000	0.00	0.00	43.96	4.85
384	2505	9.396022	TCAGTGATAGAAAAAGAAGAAAACTGT	57.604	29.630	0.00	0.00	33.58	3.55
405	2526	2.729882	GTGCGGTAAGTGTAGTTCAGTG	59.270	50.000	0.00	0.00	0.00	3.66
419	3012	0.733150	CACTCTCGATCTGTGCGGTA	59.267	55.000	0.00	0.00	0.00	4.02
442	3035	3.236816	GTGAAATGCGATTGTTGTCCAG	58.763	45.455	0.00	0.00	0.00	3.86
443	3036	2.620585	TGTGAAATGCGATTGTTGTCCA	59.379	40.909	0.00	0.00	0.00	4.02
444	3037	2.979813	GTGTGAAATGCGATTGTTGTCC	59.020	45.455	0.00	0.00	0.00	4.02
485	3085	6.427441	ACCTGTACACAGATCAGAGAGATTA	58.573	40.000	10.96	0.00	46.59	1.75
517	3117	0.527385	GATCAGAGAGACAGGCACGC	60.527	60.000	0.00	0.00	0.00	5.34
522	3122	3.882888	GACAGTAGGATCAGAGAGACAGG	59.117	52.174	0.00	0.00	0.00	4.00
524	3124	3.525609	AGGACAGTAGGATCAGAGAGACA	59.474	47.826	0.00	0.00	0.00	3.41
525	3125	4.134563	GAGGACAGTAGGATCAGAGAGAC	58.865	52.174	0.00	0.00	0.00	3.36
526	3126	4.044308	AGAGGACAGTAGGATCAGAGAGA	58.956	47.826	0.00	0.00	0.00	3.10
559	3233	0.608640	AGCAAGAAGGAATCGACCGT	59.391	50.000	0.00	0.00	34.73	4.83
562	3236	2.933260	GGAGAAGCAAGAAGGAATCGAC	59.067	50.000	0.00	0.00	0.00	4.20
577	3251	1.287730	GCGCAGTGACAGTGGAGAAG	61.288	60.000	12.19	0.00	0.00	2.85
636	3310	1.670811	CACTCACGTTGCTCACCTTTT	59.329	47.619	0.00	0.00	0.00	2.27
640	3314	1.860676	TTACACTCACGTTGCTCACC	58.139	50.000	0.00	0.00	0.00	4.02
664	3348	0.173255	GTGATTTTGACCGGGCATGG	59.827	55.000	13.08	0.00	0.00	3.66
665	3349	0.887247	TGTGATTTTGACCGGGCATG	59.113	50.000	13.08	0.00	0.00	4.06
691	3376	7.277981	ACTGCTTTGTACTGTAATATTCTTCGG	59.722	37.037	0.00	0.00	0.00	4.30
773	3462	2.829120	TGAGAACGGTATGGACATGTCA	59.171	45.455	26.47	13.45	0.00	3.58
806	3499	3.790177	GTCCAATGTACGGGCGAC	58.210	61.111	0.00	0.00	0.00	5.19
837	3530	1.224592	GTGGAGATTCCGGCCATGT	59.775	57.895	2.24	0.00	40.17	3.21
1073	3819	4.479993	GCAGCTGCCCCGTGATCT	62.480	66.667	28.76	0.00	34.31	2.75
1442	4249	6.712547	AGCCTCCTTTATTCATGCATAAGTAC	59.287	38.462	0.00	0.00	0.00	2.73
1496	4303	0.393077	ACTCGAATAATGGCGGGAGG	59.607	55.000	0.00	0.00	0.00	4.30
1497	4304	1.867233	CAACTCGAATAATGGCGGGAG	59.133	52.381	0.00	0.00	0.00	4.30
1498	4305	1.483004	TCAACTCGAATAATGGCGGGA	59.517	47.619	0.00	0.00	0.00	5.14
1499	4306	1.867233	CTCAACTCGAATAATGGCGGG	59.133	52.381	0.00	0.00	0.00	6.13
1523	4330	4.546829	TTGCGAGGGAAGTACAAATAGT	57.453	40.909	0.00	0.00	0.00	2.12
1524	4331	5.163754	CCTTTTGCGAGGGAAGTACAAATAG	60.164	44.000	0.00	0.00	32.94	1.73
1551	4358	2.223525	GGACTACAACCTCGAATCCTCG	60.224	54.545	0.00	0.00	46.87	4.63
1552	4359	2.223525	CGGACTACAACCTCGAATCCTC	60.224	54.545	0.00	0.00	0.00	3.71
1553	4360	1.749634	CGGACTACAACCTCGAATCCT	59.250	52.381	0.00	0.00	0.00	3.24
1554	4361	1.475682	ACGGACTACAACCTCGAATCC	59.524	52.381	0.00	0.00	0.00	3.01
1555	4362	2.163010	TGACGGACTACAACCTCGAATC	59.837	50.000	0.00	0.00	0.00	2.52
1556	4363	2.094854	GTGACGGACTACAACCTCGAAT	60.095	50.000	0.00	0.00	0.00	3.34
1557	4364	1.267806	GTGACGGACTACAACCTCGAA	59.732	52.381	0.00	0.00	0.00	3.71
1674	4487	5.247084	TGGTATAAAGGCGTTGCTTTTCTA	58.753	37.500	2.01	0.00	38.67	2.10
1684	4497	5.470098	GTCATCAATGATGGTATAAAGGCGT	59.530	40.000	21.58	0.00	40.15	5.68
1692	4505	4.344968	TGTCGAGGTCATCAATGATGGTAT	59.655	41.667	21.58	8.71	40.15	2.73
1786	4599	1.611977	TCCTCTTCTCGCAAAAGACGA	59.388	47.619	0.00	0.00	38.02	4.20
1793	4606	3.961480	TTTGATCTCCTCTTCTCGCAA	57.039	42.857	0.00	0.00	0.00	4.85
1826	4639	4.999950	CACTAGAATGAAGTCAGCTTTGGT	59.000	41.667	0.00	0.00	34.61	3.67
1865	4678	2.288666	GGCGAGCAATTGGAAGTATCA	58.711	47.619	7.72	0.00	0.00	2.15
1913	4726	5.151454	CCCCTCATCTAGTTGGAGACTATT	58.849	45.833	1.00	0.00	40.01	1.73
1926	4739	0.178973	TTCGATCCGCCCCTCATCTA	60.179	55.000	0.00	0.00	0.00	1.98
1927	4740	1.457643	TTCGATCCGCCCCTCATCT	60.458	57.895	0.00	0.00	0.00	2.90
1951	4764	5.760743	GGTGATATAGTTTTTGAGCTCCCTC	59.239	44.000	12.15	0.00	38.62	4.30
2019	4832	1.185618	TCAGGTCTCGTCAAGGGTGG	61.186	60.000	0.00	0.00	0.00	4.61
2036	4849	7.572910	CGTGACTTGTGGAATATCATTTGTTCA	60.573	37.037	0.00	0.00	0.00	3.18
2063	4876	7.093902	TGTCGTGAGGATATAGTTCTCTTTTGT	60.094	37.037	0.00	0.00	0.00	2.83
2066	4879	6.183360	GGTGTCGTGAGGATATAGTTCTCTTT	60.183	42.308	0.00	0.00	0.00	2.52
2074	4887	5.299531	TGAGAAAGGTGTCGTGAGGATATAG	59.700	44.000	0.00	0.00	0.00	1.31
2075	4888	5.198207	TGAGAAAGGTGTCGTGAGGATATA	58.802	41.667	0.00	0.00	0.00	0.86
2196	5009	1.547372	CCAAAAGGTCAGGCTTGATGG	59.453	52.381	0.30	1.00	35.39	3.51
2204	5017	3.287222	TGAACAACTCCAAAAGGTCAGG	58.713	45.455	0.00	0.00	0.00	3.86
2251	5064	6.486657	TCTCGCCAAAATTTATCCTGAATAGG	59.513	38.462	0.00	0.00	46.06	2.57
2284	5097	2.173569	AGCCTCCTTAATCTTCGGCAAT	59.826	45.455	0.00	0.00	39.91	3.56
2347	5160	6.643770	CCACTTTGGTGAAAATCTTGAAGATG	59.356	38.462	8.68	0.00	45.61	2.90

Based at the University of Bristol with support from BBSRC.

AutoCloner maintained by Alex Coulton.