AutoCloner

Multiple sequence alignment - TraesCS2A01G273900

Loading Multiple Alignment...

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	TraesCS2A01G273900	chr2A	100.000	2794	0	0	1	2794	448497366	448500159	0.000000e+00	5160.0
1	TraesCS2A01G273900	chr2D	96.002	2026	62	9	781	2794	338665052	338667070	0.000000e+00	3275.0
2	TraesCS2A01G273900	chr2D	92.353	340	18	6	428	765	338664734	338665067	7.000000e-131	477.0
3	TraesCS2A01G273900	chr2B	93.028	1420	75	13	781	2183	405269868	405271280	0.000000e+00	2052.0
4	TraesCS2A01G273900	chr2B	89.911	337	24	5	428	762	405269552	405269880	2.570000e-115	425.0
5	TraesCS2A01G273900	chr2B	92.558	215	14	1	2559	2773	405271445	405271657	9.720000e-80	307.0
6	TraesCS2A01G273900	chr2B	82.955	88	10	3	328	413	642449485	642449569	1.070000e-09	75.0
7	TraesCS2A01G273900	chr3A	90.668	793	50	10	1414	2183	176148234	176149025	0.000000e+00	1033.0
8	TraesCS2A01G273900	chr3A	97.034	472	14	0	950	1421	176147534	176148005	0.000000e+00	795.0
9	TraesCS2A01G273900	chr3A	90.547	201	14	5	428	627	176146413	176146609	7.680000e-66	261.0
10	TraesCS2A01G273900	chr3A	93.421	152	10	0	2643	2794	176149327	176149478	2.800000e-55	226.0
11	TraesCS2A01G273900	chr3A	94.681	94	5	0	781	874	176147152	176147245	2.240000e-31	147.0
12	TraesCS2A01G273900	chr3A	96.203	79	3	0	873	951	176147406	176147484	2.260000e-26	130.0
13	TraesCS2A01G273900	chr3A	90.909	88	3	1	675	762	176147082	176147164	2.270000e-21	113.0
14	TraesCS2A01G273900	chr3D	90.573	785	44	9	1414	2183	153506998	153506229	0.000000e+00	1013.0
15	TraesCS2A01G273900	chr3D	96.398	472	17	0	950	1421	153507699	153507228	0.000000e+00	778.0
16	TraesCS2A01G273900	chr3D	95.395	152	6	1	2643	2794	153506018	153505868	1.000000e-59	241.0
17	TraesCS2A01G273900	chr3D	90.683	161	12	3	430	589	153508531	153508373	7.840000e-51	211.0
18	TraesCS2A01G273900	chr3D	94.845	97	5	0	781	877	153508112	153508016	4.820000e-33	152.0
19	TraesCS2A01G273900	chr3D	96.203	79	3	0	873	951	153507860	153507782	2.260000e-26	130.0
20	TraesCS2A01G273900	chr3D	95.652	69	3	0	697	765	153508165	153508097	8.180000e-21	111.0
21	TraesCS2A01G273900	chr3B	93.740	607	33	5	1414	2015	225173172	225172566	0.000000e+00	905.0
22	TraesCS2A01G273900	chr3B	95.339	472	19	1	950	1421	225173870	225173402	0.000000e+00	747.0
23	TraesCS2A01G273900	chr3B	90.566	159	8	3	2643	2794	225172385	225172227	1.310000e-48	204.0
24	TraesCS2A01G273900	chr3B	86.364	154	11	5	428	573	225174881	225174730	2.880000e-35	159.0
25	TraesCS2A01G273900	chr3B	94.845	97	5	0	781	877	225174294	225174198	4.820000e-33	152.0
26	TraesCS2A01G273900	chr3B	84.328	134	13	5	276	407	56747028	56747155	1.050000e-24	124.0
27	TraesCS2A01G273900	chr3B	94.937	79	4	0	873	951	225174042	225173964	1.050000e-24	124.0
28	TraesCS2A01G273900	chr3B	90.323	93	4	1	673	765	225174366	225174279	1.760000e-22	117.0
29	TraesCS2A01G273900	chr3B	76.543	162	21	13	8	155	119418258	119418416	3.860000e-09	73.1
30	TraesCS2A01G273900	chrUn	96.978	364	11	0	950	1313	480868200	480867837	1.840000e-171	612.0
31	TraesCS2A01G273900	chrUn	81.646	158	24	4	2249	2402	480163470	480163314	2.920000e-25	126.0
32	TraesCS2A01G273900	chr5D	85.514	428	44	9	1	414	50029277	50029700	5.530000e-117	431.0
33	TraesCS2A01G273900	chr5A	84.359	390	43	8	28	401	39218440	39218827	1.580000e-97	366.0
34	TraesCS2A01G273900	chr5A	82.990	388	52	5	28	401	39109336	39109723	3.450000e-89	339.0
35	TraesCS2A01G273900	chr5A	81.818	154	21	5	2249	2396	660831250	660831098	3.780000e-24	122.0
36	TraesCS2A01G273900	chr5A	90.164	61	3	3	1	60	273446047	273446105	2.980000e-10	76.8
37	TraesCS2A01G273900	chr7B	82.599	431	52	16	1	414	593066905	593067329	2.650000e-95	359.0
38	TraesCS2A01G273900	chr7B	77.751	418	71	15	1	413	593067961	593068361	1.290000e-58	237.0
39	TraesCS2A01G273900	chr7B	89.362	94	4	6	326	414	593067327	593067419	2.270000e-21	113.0
40	TraesCS2A01G273900	chr7B	77.160	162	24	11	6	155	133767576	133767416	6.410000e-12	82.4
41	TraesCS2A01G273900	chr1A	83.766	154	18	6	2249	2396	459273383	459273231	3.750000e-29	139.0
42	TraesCS2A01G273900	chr1A	81.646	158	24	4	2249	2402	486340773	486340617	2.920000e-25	126.0
43	TraesCS2A01G273900	chr1B	82.911	158	22	2	2248	2400	130540321	130540164	1.350000e-28	137.0
44	TraesCS2A01G273900	chr1B	81.013	158	25	4	2249	2402	518808039	518807883	1.360000e-23	121.0
45	TraesCS2A01G273900	chr1D	81.646	158	24	4	2249	2402	386432108	386431952	2.920000e-25	126.0
46	TraesCS2A01G273900	chr5B	86.207	116	13	2	2279	2392	605786549	605786435	3.780000e-24	122.0
47	TraesCS2A01G273900	chr6B	88.235	68	6	2	89	155	179384973	179385039	2.310000e-11	80.5

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	TraesCS2A01G273900	chr2A	448497366	448500159	2793	False	5160.000000	5160	100.000000	1	2794	1	chr2A.!!$F1	2793
1	TraesCS2A01G273900	chr2D	338664734	338667070	2336	False	1876.000000	3275	94.177500	428	2794	2	chr2D.!!$F1	2366
2	TraesCS2A01G273900	chr2B	405269552	405271657	2105	False	928.000000	2052	91.832333	428	2773	3	chr2B.!!$F2	2345
3	TraesCS2A01G273900	chr3A	176146413	176149478	3065	False	386.428571	1033	93.351857	428	2794	7	chr3A.!!$F1	2366
4	TraesCS2A01G273900	chr3D	153505868	153508531	2663	True	376.571429	1013	94.249857	430	2794	7	chr3D.!!$R1	2364
5	TraesCS2A01G273900	chr3B	225172227	225174881	2654	True	344.000000	905	92.302000	428	2794	7	chr3B.!!$R1	2366
6	TraesCS2A01G273900	chr7B	593066905	593068361	1456	False	236.333333	359	83.237333	1	414	3	chr7B.!!$F1	413

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
364	467	0.237235	TTTAAAGGTTGCTGCGCTCG	59.763	50.0	9.73	0.0	0.0	5.03	F
470	594	0.257039	AAAGGCTGCGATCCATTCCT	59.743	50.0	0.00	0.0	0.0	3.36	F

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability	Orientation
1766	3130	0.107993	GCTCCATGTCAGCTGCAGTA	60.108	55.0	16.64	0.0	33.75	2.74	R
2439	3963	1.848652	TTTCGCTGCCTAGTAGGAGT	58.151	50.0	21.02	0.0	37.67	3.85	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
83	94	7.640852	TCAAAAGCATTGAACATTTTCCATTG	58.359	30.769	2.79	0.00	0.00	2.82
109	120	6.198966	ACTGTTTGCAAAATCGATGAACTTTC	59.801	34.615	14.67	0.00	0.00	2.62
111	122	7.421599	TGTTTGCAAAATCGATGAACTTTCTA	58.578	30.769	14.67	0.00	0.00	2.10
143	154	7.428020	TGTGAACTTTTCTTCAGAAATGATGG	58.572	34.615	17.63	4.62	42.83	3.51
146	157	7.285172	TGAACTTTTCTTCAGAAATGATGGACA	59.715	33.333	17.63	9.44	42.83	4.02
166	177	6.043012	TGGACATTTTCAAATCCAGGATGTTT	59.957	34.615	1.44	0.00	0.00	2.83
192	203	9.912634	TTAAAAATAATTCAGAACTCCAAGCTG	57.087	29.630	0.00	0.00	0.00	4.24
205	216	3.897325	TCCAAGCTGTATAATAGACGCG	58.103	45.455	3.53	3.53	0.00	6.01
209	220	1.067776	GCTGTATAATAGACGCGGCCT	60.068	52.381	9.25	8.65	0.00	5.19
210	221	2.864968	CTGTATAATAGACGCGGCCTC	58.135	52.381	9.25	0.00	0.00	4.70
224	235	1.859080	CGGCCTCGCTTGTTCTTATAC	59.141	52.381	0.00	0.00	0.00	1.47
225	236	2.210961	GGCCTCGCTTGTTCTTATACC	58.789	52.381	0.00	0.00	0.00	2.73
226	237	2.419574	GGCCTCGCTTGTTCTTATACCA	60.420	50.000	0.00	0.00	0.00	3.25
232	243	3.376859	CGCTTGTTCTTATACCATTGGCA	59.623	43.478	1.54	0.00	0.00	4.92
240	251	7.444183	TGTTCTTATACCATTGGCACTATTAGC	59.556	37.037	1.54	0.00	0.00	3.09
242	253	6.934645	TCTTATACCATTGGCACTATTAGCAC	59.065	38.462	1.54	0.00	0.00	4.40
243	254	3.652057	ACCATTGGCACTATTAGCACT	57.348	42.857	1.54	0.00	0.00	4.40
244	255	3.282021	ACCATTGGCACTATTAGCACTG	58.718	45.455	1.54	0.00	0.00	3.66
245	256	3.054434	ACCATTGGCACTATTAGCACTGA	60.054	43.478	1.54	0.00	0.00	3.41
247	258	2.691409	TGGCACTATTAGCACTGACC	57.309	50.000	0.00	0.00	0.00	4.02
249	260	2.304470	TGGCACTATTAGCACTGACCAA	59.696	45.455	0.00	0.00	0.00	3.67
250	261	3.054434	TGGCACTATTAGCACTGACCAAT	60.054	43.478	0.00	0.00	0.00	3.16
251	262	3.313526	GGCACTATTAGCACTGACCAATG	59.686	47.826	0.00	0.00	0.00	2.82
252	263	4.191544	GCACTATTAGCACTGACCAATGA	58.808	43.478	0.00	0.00	0.00	2.57
254	265	5.423015	CACTATTAGCACTGACCAATGACT	58.577	41.667	0.00	0.00	0.00	3.41
259	270	4.357918	AGCACTGACCAATGACTAGTTT	57.642	40.909	0.00	0.00	0.00	2.66
262	273	4.153117	GCACTGACCAATGACTAGTTTCTG	59.847	45.833	0.00	0.00	0.00	3.02
271	282	5.818678	ATGACTAGTTTCTGTGGTGGTTA	57.181	39.130	0.00	0.00	0.00	2.85
272	283	5.818678	TGACTAGTTTCTGTGGTGGTTAT	57.181	39.130	0.00	0.00	0.00	1.89
275	286	6.182507	ACTAGTTTCTGTGGTGGTTATTGA	57.817	37.500	0.00	0.00	0.00	2.57
290	301	2.442236	ATTGAAGGTCGGCCAATGAT	57.558	45.000	9.71	0.00	37.19	2.45
291	302	1.462616	TTGAAGGTCGGCCAATGATG	58.537	50.000	9.71	0.00	37.19	3.07
311	322	1.356938	GAACCACCCGAGTTCGAATC	58.643	55.000	0.00	0.00	43.02	2.52
315	326	0.530744	CACCCGAGTTCGAATCCTGA	59.469	55.000	0.00	0.00	43.02	3.86
317	328	1.204941	ACCCGAGTTCGAATCCTGAAG	59.795	52.381	0.00	0.00	43.02	3.02
318	329	1.471676	CCCGAGTTCGAATCCTGAAGG	60.472	57.143	0.00	0.00	43.02	3.46
364	467	0.237235	TTTAAAGGTTGCTGCGCTCG	59.763	50.000	9.73	0.00	0.00	5.03
445	569	2.818714	TCTCGTCCTCGTCTCGCC	60.819	66.667	0.00	0.00	38.33	5.54
449	573	3.148279	GTCCTCGTCTCGCCCCAT	61.148	66.667	0.00	0.00	0.00	4.00
453	577	1.218047	CTCGTCTCGCCCCATCAAA	59.782	57.895	0.00	0.00	0.00	2.69
470	594	0.257039	AAAGGCTGCGATCCATTCCT	59.743	50.000	0.00	0.00	0.00	3.36
567	699	2.388232	CCGTCCGCAAGCAAGGTAC	61.388	63.158	0.00	0.00	0.00	3.34
593	725	1.456705	GGCCATCTCTCCTCGGTCT	60.457	63.158	0.00	0.00	0.00	3.85
621	753	2.559840	CTCAGTTGCTTGCTGCCG	59.440	61.111	0.00	0.00	42.00	5.69
687	1250	6.280643	CCCGTACTGTATTTTGATCTCATCA	58.719	40.000	0.00	0.00	37.55	3.07
744	1307	2.829720	GGTTAATCCCCCTCACCAAAAC	59.170	50.000	0.00	0.00	0.00	2.43
903	1628	2.802247	GGAATGCAGAAAAAGGCACAAC	59.198	45.455	0.00	0.00	43.75	3.32
1165	2023	2.237143	CTGAACAAGTGGCCTGATCCTA	59.763	50.000	3.32	0.00	0.00	2.94
1330	2188	2.906389	AGGTACCATCTTCAAGTGCTCA	59.094	45.455	15.94	0.00	0.00	4.26
1361	2219	7.492344	GGTTTTGATGTTTCTTCTTGTTCATGT	59.508	33.333	0.00	0.00	0.00	3.21
1434	2797	8.352201	GCTAATACTTTTGATATGTTGGCATCA	58.648	33.333	0.00	0.00	36.58	3.07
1531	2895	9.282569	GAAAATTATCTCATACTGCTCTCCAAT	57.717	33.333	0.00	0.00	0.00	3.16
1766	3130	0.036765	TTTACGCCGATGGTTCAGCT	60.037	50.000	0.00	0.00	0.00	4.24
1883	3250	4.563337	TCCGACATGGATACTTCGTAAG	57.437	45.455	0.00	0.00	43.74	2.34
1945	3312	7.317390	TGATCGCAATAAGTAACTTCAGTGTA	58.683	34.615	0.00	0.00	0.00	2.90
2056	3455	3.568007	TGAAATCAACAGTGTAACCTGCC	59.432	43.478	0.00	0.00	37.80	4.85
2073	3472	3.535561	CTGCCGTTTGGTCTATTCTCAT	58.464	45.455	0.00	0.00	37.67	2.90
2143	3552	0.578683	CATATGAACAGCTCGCCACG	59.421	55.000	0.00	0.00	0.00	4.94
2187	3711	2.917227	TGTCCGCTGCTGACTGGA	60.917	61.111	21.87	7.37	33.83	3.86
2316	3840	8.526667	AGATGTATGTAGATGTGTTCTAGTGT	57.473	34.615	0.00	0.00	37.62	3.55
2333	3857	9.783256	GTTCTAGTGTGTTTGTTCACTTATTTT	57.217	29.630	3.25	0.00	43.39	1.82
2334	3858	9.781834	TTCTAGTGTGTTTGTTCACTTATTTTG	57.218	29.630	3.25	0.00	43.39	2.44
2339	3863	5.457473	GTGTTTGTTCACTTATTTTGGTCCG	59.543	40.000	0.00	0.00	35.68	4.79
2455	3980	1.609555	CCTTACTCCTACTAGGCAGCG	59.390	57.143	0.00	0.00	34.61	5.18
2572	4112	4.318903	CGCTTGTGTAACGTTAATGTCCAA	60.319	41.667	10.11	7.67	42.39	3.53
2622	4162	4.822896	TGGTGTTTGTGGGTGTAGAAATAC	59.177	41.667	0.00	0.00	0.00	1.89

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
73	75	6.998968	TTTTGCAAACAGTCAATGGAAAAT	57.001	29.167	12.39	0.00	38.76	1.82
78	80	4.297510	TCGATTTTGCAAACAGTCAATGG	58.702	39.130	12.39	3.25	0.00	3.16
83	94	5.215160	AGTTCATCGATTTTGCAAACAGTC	58.785	37.500	12.39	9.56	0.00	3.51
143	154	7.967890	AAAACATCCTGGATTTGAAAATGTC	57.032	32.000	6.42	0.00	0.00	3.06
166	177	9.912634	CAGCTTGGAGTTCTGAATTATTTTTAA	57.087	29.630	0.00	0.00	0.00	1.52
183	194	3.914966	CGCGTCTATTATACAGCTTGGAG	59.085	47.826	0.00	0.00	0.00	3.86
186	197	2.408704	GCCGCGTCTATTATACAGCTTG	59.591	50.000	4.92	0.00	0.00	4.01
192	203	1.892468	CGAGGCCGCGTCTATTATAC	58.108	55.000	21.77	0.00	0.00	1.47
205	216	2.210961	GGTATAAGAACAAGCGAGGCC	58.789	52.381	0.00	0.00	0.00	5.19
209	220	3.625764	GCCAATGGTATAAGAACAAGCGA	59.374	43.478	0.00	0.00	0.00	4.93
210	221	3.376859	TGCCAATGGTATAAGAACAAGCG	59.623	43.478	0.00	0.00	0.00	4.68
224	235	3.313526	GTCAGTGCTAATAGTGCCAATGG	59.686	47.826	0.00	0.00	0.00	3.16
225	236	3.313526	GGTCAGTGCTAATAGTGCCAATG	59.686	47.826	0.00	0.00	0.00	2.82
226	237	3.054434	TGGTCAGTGCTAATAGTGCCAAT	60.054	43.478	0.00	0.00	29.99	3.16
232	243	5.683876	AGTCATTGGTCAGTGCTAATAGT	57.316	39.130	0.00	0.00	0.00	2.12
240	251	5.178252	CACAGAAACTAGTCATTGGTCAGTG	59.822	44.000	0.00	0.00	0.00	3.66
242	253	4.692625	CCACAGAAACTAGTCATTGGTCAG	59.307	45.833	0.00	0.00	0.00	3.51
243	254	4.102524	ACCACAGAAACTAGTCATTGGTCA	59.897	41.667	0.00	0.00	32.25	4.02
244	255	4.452455	CACCACAGAAACTAGTCATTGGTC	59.548	45.833	10.20	0.00	34.37	4.02
245	256	4.389374	CACCACAGAAACTAGTCATTGGT	58.611	43.478	0.00	2.39	36.06	3.67
247	258	4.389374	ACCACCACAGAAACTAGTCATTG	58.611	43.478	0.00	0.00	0.00	2.82
249	260	4.706842	AACCACCACAGAAACTAGTCAT	57.293	40.909	0.00	0.00	0.00	3.06
250	261	5.818678	ATAACCACCACAGAAACTAGTCA	57.181	39.130	0.00	0.00	0.00	3.41
251	262	6.228258	TCAATAACCACCACAGAAACTAGTC	58.772	40.000	0.00	0.00	0.00	2.59
252	263	6.182507	TCAATAACCACCACAGAAACTAGT	57.817	37.500	0.00	0.00	0.00	2.57
254	265	6.001460	CCTTCAATAACCACCACAGAAACTA	58.999	40.000	0.00	0.00	0.00	2.24
259	270	3.556213	CGACCTTCAATAACCACCACAGA	60.556	47.826	0.00	0.00	0.00	3.41
262	273	2.081462	CCGACCTTCAATAACCACCAC	58.919	52.381	0.00	0.00	0.00	4.16
271	282	2.026641	CATCATTGGCCGACCTTCAAT	58.973	47.619	0.00	0.00	36.63	2.57
272	283	1.462616	CATCATTGGCCGACCTTCAA	58.537	50.000	0.00	0.00	36.63	2.69
275	286	0.331278	TTCCATCATTGGCCGACCTT	59.669	50.000	0.00	0.00	43.29	3.50
290	301	1.401318	TTCGAACTCGGGTGGTTCCA	61.401	55.000	0.00	0.00	39.65	3.53
291	302	0.036671	ATTCGAACTCGGGTGGTTCC	60.037	55.000	0.00	0.00	39.65	3.62
292	303	1.356938	GATTCGAACTCGGGTGGTTC	58.643	55.000	0.00	0.00	40.29	3.62
311	322	1.308998	AAAAGTGCGTGTCCTTCAGG	58.691	50.000	0.00	0.00	35.34	3.86
356	459	3.570638	CATGAAGGCCGAGCGCAG	61.571	66.667	11.47	2.34	40.31	5.18
406	509	2.095161	CGAGAGCTCCTGTTAGTTTCGT	60.095	50.000	10.93	0.00	0.00	3.85
445	569	1.450531	GGATCGCAGCCTTTGATGGG	61.451	60.000	0.00	0.00	41.71	4.00
449	573	1.382522	GAATGGATCGCAGCCTTTGA	58.617	50.000	0.00	0.00	0.00	2.69
453	577	0.179034	GAAGGAATGGATCGCAGCCT	60.179	55.000	0.00	0.00	0.00	4.58
458	582	1.822250	GCGTCGAAGGAATGGATCGC	61.822	60.000	0.00	0.00	32.72	4.58
545	676	4.697756	TTGCTTGCGGACGGGGAG	62.698	66.667	0.00	0.00	0.00	4.30
567	699	2.770048	AGAGATGGCCGGGGAAGG	60.770	66.667	2.18	0.00	0.00	3.46
621	753	1.817099	AGCAATAGCAGCGGCAGAC	60.817	57.895	12.44	0.00	45.49	3.51
687	1250	7.888021	TGGTATTTTGGACATTTGAGATACTGT	59.112	33.333	0.00	0.00	0.00	3.55
744	1307	8.807118	TGAGGATAGGTTCTGCTATGTTAATAG	58.193	37.037	0.00	0.00	39.12	1.73
780	1343	5.104900	CCACTAACCTAGGTTCTGCTATGTT	60.105	44.000	30.38	5.51	39.31	2.71
781	1344	4.406003	CCACTAACCTAGGTTCTGCTATGT	59.594	45.833	30.38	14.84	39.31	2.29
782	1345	4.649674	TCCACTAACCTAGGTTCTGCTATG	59.350	45.833	30.38	18.22	39.31	2.23
783	1346	4.880164	TCCACTAACCTAGGTTCTGCTAT	58.120	43.478	30.38	7.89	39.31	2.97
784	1347	4.279145	CTCCACTAACCTAGGTTCTGCTA	58.721	47.826	30.38	12.02	39.31	3.49
785	1348	3.100671	CTCCACTAACCTAGGTTCTGCT	58.899	50.000	30.38	9.48	39.31	4.24
786	1349	2.168728	CCTCCACTAACCTAGGTTCTGC	59.831	54.545	30.38	0.00	39.31	4.26
787	1350	2.168728	GCCTCCACTAACCTAGGTTCTG	59.831	54.545	30.38	23.72	39.31	3.02
788	1351	2.468915	GCCTCCACTAACCTAGGTTCT	58.531	52.381	30.38	14.22	39.31	3.01
789	1352	1.485480	GGCCTCCACTAACCTAGGTTC	59.515	57.143	30.38	13.25	39.31	3.62
790	1353	1.080666	AGGCCTCCACTAACCTAGGTT	59.919	52.381	29.46	29.46	41.65	3.50
791	1354	0.717196	AGGCCTCCACTAACCTAGGT	59.283	55.000	9.21	9.21	0.00	3.08
792	1355	1.880941	AAGGCCTCCACTAACCTAGG	58.119	55.000	5.23	7.41	0.00	3.02
793	1356	3.610911	CAAAAGGCCTCCACTAACCTAG	58.389	50.000	5.23	0.00	0.00	3.02
795	1358	1.075536	CCAAAAGGCCTCCACTAACCT	59.924	52.381	5.23	0.00	0.00	3.50
1330	2188	7.729116	ACAAGAAGAAACATCAAAACCATGAT	58.271	30.769	0.00	0.00	40.64	2.45
1361	2219	4.908601	TTCAGCTAATCTGGTTCAAGGA	57.091	40.909	0.00	0.00	43.06	3.36
1552	2916	3.662759	TTCCTGGTTCCACTTTCTGTT	57.337	42.857	0.00	0.00	0.00	3.16
1553	2917	3.288092	GTTTCCTGGTTCCACTTTCTGT	58.712	45.455	0.00	0.00	0.00	3.41
1766	3130	0.107993	GCTCCATGTCAGCTGCAGTA	60.108	55.000	16.64	0.00	33.75	2.74
1883	3250	3.105937	GTTTTCGCTGGAACAAGTTCAC	58.894	45.455	14.25	5.19	41.20	3.18
2073	3472	9.825109	TGAATCACAAGTCCGTATATATGAAAA	57.175	29.630	3.36	0.00	0.00	2.29
2187	3711	2.564062	CCCAAAAGGACACATTCAGCAT	59.436	45.455	0.00	0.00	38.24	3.79
2316	3840	5.125739	ACGGACCAAAATAAGTGAACAAACA	59.874	36.000	0.00	0.00	0.00	2.83
2380	3904	6.543100	AGAGAAATACTACTACCTCCGTTCTG	59.457	42.308	0.00	0.00	0.00	3.02
2381	3905	6.661777	AGAGAAATACTACTACCTCCGTTCT	58.338	40.000	0.00	0.00	0.00	3.01
2439	3963	1.848652	TTTCGCTGCCTAGTAGGAGT	58.151	50.000	21.02	0.00	37.67	3.85
2455	3980	6.912591	CACCATGTAGTTCACAGAAAGTTTTC	59.087	38.462	0.00	0.00	41.51	2.29
2581	4121	6.899393	ACACCAGAAAAGCAGATGAAATAA	57.101	33.333	0.00	0.00	0.00	1.40
2622	4162	2.861935	ACGAACTGTCTTAACACAACCG	59.138	45.455	0.00	0.00	0.00	4.44

Based at the University of Bristol with support from BBSRC.

AutoCloner maintained by Alex Coulton.