AutoCloner

Multiple sequence alignment - TraesCS5A01G253600

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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	TraesCS5A01G253600	chr5A	100.000	2468	0	0	1	2468	469664377	469666844	0.000000e+00	4558.0
1	TraesCS5A01G253600	chr5A	90.209	1195	113	2	280	1473	138081404	138080213	0.000000e+00	1555.0
2	TraesCS5A01G253600	chr5B	90.909	1496	125	7	271	1759	491849758	491851249	0.000000e+00	1999.0
3	TraesCS5A01G253600	chr5B	90.575	1496	130	4	271	1759	419521274	419522765	0.000000e+00	1971.0
4	TraesCS5A01G253600	chr5B	92.610	433	24	7	1763	2191	435169360	435169788	1.250000e-172	616.0
5	TraesCS5A01G253600	chr5B	92.883	281	18	2	2187	2466	435169999	435170278	8.220000e-110	407.0
6	TraesCS5A01G253600	chr5B	90.182	275	21	3	1	274	435169088	435169357	1.090000e-93	353.0
7	TraesCS5A01G253600	chr2D	90.575	1496	130	4	271	1759	617966001	617967492	0.000000e+00	1971.0
8	TraesCS5A01G253600	chr2D	83.582	67	10	1	178	243	619385486	619385420	7.370000e-06	62.1
9	TraesCS5A01G253600	chr2B	90.575	1496	130	4	271	1759	795981013	795982504	0.000000e+00	1971.0
10	TraesCS5A01G253600	chr5D	89.346	1483	140	12	285	1759	467262822	467264294	0.000000e+00	1847.0
11	TraesCS5A01G253600	chr5D	89.552	402	35	4	2070	2468	367756162	367756559	1.020000e-138	503.0
12	TraesCS5A01G253600	chr5D	92.835	321	21	2	1766	2084	367754511	367754831	4.810000e-127	464.0
13	TraesCS5A01G253600	chr5D	92.222	90	7	0	185	274	367754416	367754505	7.160000e-26	128.0
14	TraesCS5A01G253600	chr7B	88.677	1466	152	8	285	1749	664079214	664077762	0.000000e+00	1775.0
15	TraesCS5A01G253600	chr7A	89.602	1356	126	8	406	1751	727382174	727380824	0.000000e+00	1709.0
16	TraesCS5A01G253600	chr3A	90.365	1204	112	2	271	1473	34993658	34992458	0.000000e+00	1578.0
17	TraesCS5A01G253600	chrUn	92.949	468	25	6	1299	1759	8840144	8839678	0.000000e+00	675.0
18	TraesCS5A01G253600	chr4B	76.000	225	46	6	1884	2102	67340567	67340345	2.590000e-20	110.0

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	TraesCS5A01G253600	chr5A	469664377	469666844	2467	False	4558.000000	4558	100.000000	1	2468	1	chr5A.!!$F1	2467
1	TraesCS5A01G253600	chr5A	138080213	138081404	1191	True	1555.000000	1555	90.209000	280	1473	1	chr5A.!!$R1	1193
2	TraesCS5A01G253600	chr5B	491849758	491851249	1491	False	1999.000000	1999	90.909000	271	1759	1	chr5B.!!$F2	1488
3	TraesCS5A01G253600	chr5B	419521274	419522765	1491	False	1971.000000	1971	90.575000	271	1759	1	chr5B.!!$F1	1488
4	TraesCS5A01G253600	chr5B	435169088	435170278	1190	False	458.666667	616	91.891667	1	2466	3	chr5B.!!$F3	2465
5	TraesCS5A01G253600	chr2D	617966001	617967492	1491	False	1971.000000	1971	90.575000	271	1759	1	chr2D.!!$F1	1488
6	TraesCS5A01G253600	chr2B	795981013	795982504	1491	False	1971.000000	1971	90.575000	271	1759	1	chr2B.!!$F1	1488
7	TraesCS5A01G253600	chr5D	467262822	467264294	1472	False	1847.000000	1847	89.346000	285	1759	1	chr5D.!!$F1	1474
8	TraesCS5A01G253600	chr5D	367754416	367756559	2143	False	365.000000	503	91.536333	185	2468	3	chr5D.!!$F2	2283
9	TraesCS5A01G253600	chr7B	664077762	664079214	1452	True	1775.000000	1775	88.677000	285	1749	1	chr7B.!!$R1	1464
10	TraesCS5A01G253600	chr7A	727380824	727382174	1350	True	1709.000000	1709	89.602000	406	1751	1	chr7A.!!$R1	1345
11	TraesCS5A01G253600	chr3A	34992458	34993658	1200	True	1578.000000	1578	90.365000	271	1473	1	chr3A.!!$R1	1202

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
485	990	0.035317	TGCACTGTCTGCCTTCGATT	59.965	50.0	0.0	0.0	46.51	3.34	F

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability	Orientation
2292	3400	0.098025	GGAGAGAGAAGAGCGTGACG	59.902	60.0	0.0	0.0	0.0	4.35	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
17	18	2.621000	CGCAATCCTACGCTTCGC	59.379	61.111	0.00	0.00	0.00	4.70
18	19	2.871427	CGCAATCCTACGCTTCGCC	61.871	63.158	0.00	0.00	0.00	5.54
21	22	0.876342	CAATCCTACGCTTCGCCCTC	60.876	60.000	0.00	0.00	0.00	4.30
40	41	1.617018	CCATCCCAGAGTCGCCTTGA	61.617	60.000	0.00	0.00	0.00	3.02
51	52	2.897969	AGTCGCCTTGAAAACCTCTCTA	59.102	45.455	0.00	0.00	0.00	2.43
59	60	3.347216	TGAAAACCTCTCTAGCCAATGC	58.653	45.455	0.00	0.00	37.95	3.56
81	82	1.167851	CAATTCTTCTTGCGCCCTCA	58.832	50.000	4.18	0.00	0.00	3.86
86	87	1.372087	CTTCTTGCGCCCTCATCCAC	61.372	60.000	4.18	0.00	0.00	4.02
96	97	1.765314	CCCTCATCCACTACCCTTCTG	59.235	57.143	0.00	0.00	0.00	3.02
113	114	5.493809	CCTTCTGTTTTCGGGGTTTATCTA	58.506	41.667	0.00	0.00	0.00	1.98
122	123	4.970711	TCGGGGTTTATCTACAACACAAA	58.029	39.130	0.00	0.00	0.00	2.83
135	136	9.793252	ATCTACAACACAAATCATTCATAAAGC	57.207	29.630	0.00	0.00	0.00	3.51
136	137	8.243426	TCTACAACACAAATCATTCATAAAGCC	58.757	33.333	0.00	0.00	0.00	4.35
137	138	6.996509	ACAACACAAATCATTCATAAAGCCT	58.003	32.000	0.00	0.00	0.00	4.58
179	180	3.432890	GGAACACAAGGATCAGAGATCCC	60.433	52.174	19.58	5.35	38.98	3.85
197	198	5.533154	AGATCCCGTTGTTATCAAACACAAA	59.467	36.000	0.00	0.00	45.18	2.83
253	255	3.273434	GCAGAGATGCCAACTGTTATCA	58.727	45.455	0.00	0.00	34.60	2.15
254	256	3.311871	GCAGAGATGCCAACTGTTATCAG	59.688	47.826	0.00	0.00	46.18	2.90
256	258	5.366460	CAGAGATGCCAACTGTTATCAGAT	58.634	41.667	7.81	0.00	43.76	2.90
277	525	9.685276	TCAGATCTTTTTCTTTATTATGAGGCA	57.315	29.630	0.00	0.00	0.00	4.75
327	832	0.178921	AGCAGACTGTCTCCAAGGGA	60.179	55.000	7.49	0.00	0.00	4.20
333	838	3.692406	GTCTCCAAGGGACGCCGT	61.692	66.667	0.00	0.00	0.00	5.68
349	854	4.397832	GTTCGCCGCCCCCTACAA	62.398	66.667	0.00	0.00	0.00	2.41
390	895	4.424711	GTGCGGCATTCCCCTCCA	62.425	66.667	5.72	0.00	0.00	3.86
415	920	1.202698	GGCTGTGAGACAGGTGTTTCT	60.203	52.381	5.90	0.00	46.01	2.52
437	942	1.813178	GTGTCTCTGTCGAGGTCATCA	59.187	52.381	0.00	0.00	37.86	3.07
473	978	1.475751	GGATCCAATCCGATGCACTGT	60.476	52.381	6.95	0.00	40.13	3.55
485	990	0.035317	TGCACTGTCTGCCTTCGATT	59.965	50.000	0.00	0.00	46.51	3.34
491	996	1.087501	GTCTGCCTTCGATTTGGACC	58.912	55.000	4.14	0.00	0.00	4.46
612	1117	0.108585	ATGTGCAGTTCCGGTCTGTT	59.891	50.000	22.61	9.34	35.60	3.16
621	1126	1.079127	CCGGTCTGTTTCGGCTGAT	60.079	57.895	0.00	0.00	39.78	2.90
622	1127	0.673644	CCGGTCTGTTTCGGCTGATT	60.674	55.000	0.00	0.00	39.78	2.57
734	1239	3.339141	CCACTCTTTCCAAACTAGAGGC	58.661	50.000	0.00	0.00	39.73	4.70
756	1261	1.141019	GCCGGATGTGTCTTCGCTA	59.859	57.895	5.05	0.00	0.00	4.26
758	1263	0.172578	CCGGATGTGTCTTCGCTACA	59.827	55.000	0.00	0.00	0.00	2.74
780	1285	2.642311	TGAGCTTCAGATTGGGGTTGTA	59.358	45.455	0.00	0.00	0.00	2.41
782	1287	2.375174	AGCTTCAGATTGGGGTTGTACA	59.625	45.455	0.00	0.00	0.00	2.90
793	1298	2.026262	GGGGTTGTACATGATGTGTCCT	60.026	50.000	8.61	0.00	42.29	3.85
821	1326	0.463474	GAGATCCAGGTTGGCTCTGC	60.463	60.000	6.22	0.00	42.55	4.26
835	1340	1.382557	TCTGCCGATGGGGAAGCTA	60.383	57.895	0.00	0.00	41.95	3.32
868	1373	2.297698	TCTCTCCCCTCGTGTTACAA	57.702	50.000	0.00	0.00	0.00	2.41
909	1414	1.741401	CGTGCCGATTGCTTCCAGA	60.741	57.895	0.00	0.00	42.00	3.86
940	1484	2.599281	TTGAGGTCGTGGCTCCGA	60.599	61.111	0.00	0.00	33.79	4.55
1012	1556	3.494398	GCCTATTTCGATGGTGCTTCCTA	60.494	47.826	0.00	0.00	37.07	2.94
1088	1757	0.904865	TCATTGGAGCCGAGTCAGGT	60.905	55.000	0.00	0.00	0.00	4.00
1125	1794	2.597510	GGAGGTTTGGCGGTTGCT	60.598	61.111	0.00	0.00	42.25	3.91
1127	1796	2.123897	AGGTTTGGCGGTTGCTGT	60.124	55.556	0.00	0.00	42.25	4.40
1200	1940	3.397955	AGGTTGATGAGGTAGGTGGTTTT	59.602	43.478	0.00	0.00	0.00	2.43
1288	2028	1.608025	GCATTGACGAGGTGGTCTTCA	60.608	52.381	0.00	0.00	37.81	3.02
1289	2029	2.936993	GCATTGACGAGGTGGTCTTCAT	60.937	50.000	0.00	0.00	33.66	2.57
1295	2035	3.403038	ACGAGGTGGTCTTCATGAAAAG	58.597	45.455	9.88	0.00	0.00	2.27
1409	2149	5.221322	GCAAAATGAAGAAGGTGAAGAAGGT	60.221	40.000	0.00	0.00	0.00	3.50
1442	2182	1.000283	AGGCAAGAAGAGTGACGTCAG	60.000	52.381	20.73	5.60	0.00	3.51
1524	2408	0.036164	TGACTCGTGGATTTGGTGGG	59.964	55.000	0.00	0.00	0.00	4.61
1525	2409	0.036306	GACTCGTGGATTTGGTGGGT	59.964	55.000	0.00	0.00	0.00	4.51
1538	2426	1.038681	GGTGGGTGTTCGGTGGTTTT	61.039	55.000	0.00	0.00	0.00	2.43
1554	2442	3.258622	TGGTTTTGTTGAGGGTTTCGTTT	59.741	39.130	0.00	0.00	0.00	3.60
1620	2508	2.517402	GTTGGGTTGACCGTGGCA	60.517	61.111	0.00	0.00	44.64	4.92
1644	2532	5.734720	TCATGGAGTTTCTTTCTTAGCGAT	58.265	37.500	0.00	0.00	0.00	4.58
1759	2647	4.525912	ATCTTTTGCCTTCGCTTCAAAT	57.474	36.364	0.00	0.00	35.36	2.32
1760	2648	4.320608	TCTTTTGCCTTCGCTTCAAATT	57.679	36.364	0.00	0.00	35.36	1.82
1761	2649	4.692228	TCTTTTGCCTTCGCTTCAAATTT	58.308	34.783	0.00	0.00	35.36	1.82
1794	2682	9.777297	AAGCCAATTGTTAAACAAGTCATTTAT	57.223	25.926	4.43	0.00	41.94	1.40
1909	2797	2.097036	TCATCATGCAAGCAGAAAGGG	58.903	47.619	0.00	0.00	0.00	3.95
1927	2815	5.474578	AAGGGCATTTCTTTTCTCCTTTC	57.525	39.130	0.00	0.00	29.85	2.62
1952	2840	6.183347	CACCCTCTCCTCAACAAATTATCTT	58.817	40.000	0.00	0.00	0.00	2.40
1965	2853	7.671495	ACAAATTATCTTTGGTCAAAATGCC	57.329	32.000	3.09	0.00	33.92	4.40
2008	2897	6.547510	ACATAAAAACTTTCACTCTGGAAGCT	59.452	34.615	0.00	0.00	0.00	3.74
2127	3019	8.829373	AAGACCATTTTATTCTGCCTCTATTT	57.171	30.769	0.00	0.00	0.00	1.40
2129	3021	9.920946	AGACCATTTTATTCTGCCTCTATTTTA	57.079	29.630	0.00	0.00	0.00	1.52
2153	3045	0.991355	AACACCACCCCCTCACAAGA	60.991	55.000	0.00	0.00	0.00	3.02
2157	3049	0.838122	CCACCCCCTCACAAGACTCT	60.838	60.000	0.00	0.00	0.00	3.24
2163	3055	4.016479	ACCCCCTCACAAGACTCTCTAATA	60.016	45.833	0.00	0.00	0.00	0.98
2165	3057	5.604650	CCCCCTCACAAGACTCTCTAATATT	59.395	44.000	0.00	0.00	0.00	1.28
2166	3058	6.782988	CCCCCTCACAAGACTCTCTAATATTA	59.217	42.308	0.00	0.00	0.00	0.98
2217	3325	8.887264	ATAGAGTTCTCCTAAAAGAGACTGAA	57.113	34.615	0.00	0.00	42.56	3.02
2245	3353	7.042523	CCAAACCTTTTCTAAACATTTCAGCTG	60.043	37.037	7.63	7.63	0.00	4.24
2262	3370	4.637534	TCAGCTGCTGATTTGTTCTTATCC	59.362	41.667	27.35	0.00	35.39	2.59
2270	3378	6.601217	GCTGATTTGTTCTTATCCTCTCCTTT	59.399	38.462	0.00	0.00	0.00	3.11
2292	3400	3.485947	TTTGAGTTCCATTGCGTATGC	57.514	42.857	0.00	0.00	43.20	3.14
2316	3424	4.037446	GTCACGCTCTTCTCTCTCCATTAT	59.963	45.833	0.00	0.00	0.00	1.28
2317	3425	5.239744	GTCACGCTCTTCTCTCTCCATTATA	59.760	44.000	0.00	0.00	0.00	0.98
2412	3521	6.267471	AGTGTTCATTTAAGATTTGCCCTTGA	59.733	34.615	0.00	0.00	0.00	3.02
2444	3553	5.014858	TCTAGACCTCAAACATACGACCTT	58.985	41.667	0.00	0.00	0.00	3.50
2454	3563	4.537135	ACATACGACCTTCAATGTCTGT	57.463	40.909	0.00	0.00	0.00	3.41

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
13	14	2.040442	TCTGGGATGGAGGGCGAA	59.960	61.111	0.00	0.00	0.00	4.70
15	16	2.765807	ACTCTGGGATGGAGGGCG	60.766	66.667	0.00	0.00	35.34	6.13
16	17	2.801631	CGACTCTGGGATGGAGGGC	61.802	68.421	0.00	0.00	35.34	5.19
17	18	2.801631	GCGACTCTGGGATGGAGGG	61.802	68.421	0.00	0.00	35.34	4.30
18	19	2.801631	GGCGACTCTGGGATGGAGG	61.802	68.421	0.00	0.00	35.34	4.30
21	22	1.153289	CAAGGCGACTCTGGGATGG	60.153	63.158	0.00	0.00	42.68	3.51
59	60	1.815003	AGGGCGCAAGAAGAATTGAAG	59.185	47.619	10.83	0.00	43.02	3.02
73	74	2.109181	GGTAGTGGATGAGGGCGC	59.891	66.667	0.00	0.00	0.00	6.53
81	82	3.307480	CCGAAAACAGAAGGGTAGTGGAT	60.307	47.826	0.00	0.00	0.00	3.41
86	87	2.109425	CCCCGAAAACAGAAGGGTAG	57.891	55.000	0.00	0.00	42.26	3.18
96	97	5.239087	TGTGTTGTAGATAAACCCCGAAAAC	59.761	40.000	0.00	0.00	0.00	2.43
113	114	6.996509	AGGCTTTATGAATGATTTGTGTTGT	58.003	32.000	0.00	0.00	0.00	3.32
155	156	4.651503	GGATCTCTGATCCTTGTGTTCCTA	59.348	45.833	16.79	0.00	35.36	2.94
171	172	4.935808	GTGTTTGATAACAACGGGATCTCT	59.064	41.667	0.00	0.00	45.33	3.10
179	180	8.687301	GGAATAGTTTTGTGTTTGATAACAACG	58.313	33.333	0.00	0.00	45.33	4.10
238	240	7.395489	AGAAAAAGATCTGATAACAGTTGGCAT	59.605	33.333	0.00	0.00	43.81	4.40
256	258	9.685276	TCAGATGCCTCATAATAAAGAAAAAGA	57.315	29.630	0.00	0.00	0.00	2.52
267	269	5.011431	TCGAGAACATCAGATGCCTCATAAT	59.989	40.000	23.02	4.25	34.77	1.28
277	525	3.428725	GCTCACACTCGAGAACATCAGAT	60.429	47.826	21.68	0.00	34.79	2.90
333	838	4.397832	GTTGTAGGGGGCGGCGAA	62.398	66.667	12.98	0.00	0.00	4.70
342	847	0.794473	GGCGACGAAAAGTTGTAGGG	59.206	55.000	0.00	0.00	36.60	3.53
349	854	0.036306	ATGGAAGGGCGACGAAAAGT	59.964	50.000	0.00	0.00	0.00	2.66
390	895	2.341543	CTGTCTCACAGCCACGCT	59.658	61.111	0.00	0.00	39.62	5.07
400	905	1.837439	ACACCAGAAACACCTGTCTCA	59.163	47.619	0.00	0.00	32.43	3.27
473	978	0.984230	AGGTCCAAATCGAAGGCAGA	59.016	50.000	0.00	0.00	0.00	4.26
491	996	0.028242	ACGACAGAAGCGAGCGATAG	59.972	55.000	0.00	0.00	0.00	2.08
612	1117	0.899720	ACCCGACTTAATCAGCCGAA	59.100	50.000	0.00	0.00	0.00	4.30
621	1126	0.688487	CCTCCACCAACCCGACTTAA	59.312	55.000	0.00	0.00	0.00	1.85
622	1127	0.178926	TCCTCCACCAACCCGACTTA	60.179	55.000	0.00	0.00	0.00	2.24
721	1226	1.295423	GCACCGCCTCTAGTTTGGA	59.705	57.895	3.96	0.00	0.00	3.53
734	1239	2.047274	AAGACACATCCGGCACCG	60.047	61.111	1.02	1.02	39.44	4.94
756	1261	1.637553	ACCCCAATCTGAAGCTCATGT	59.362	47.619	0.00	0.00	0.00	3.21
758	1263	2.042162	ACAACCCCAATCTGAAGCTCAT	59.958	45.455	0.00	0.00	0.00	2.90
782	1287	0.682209	GGGCAGCAAGGACACATCAT	60.682	55.000	0.00	0.00	0.00	2.45
793	1298	2.586245	CTGGATCTCGGGCAGCAA	59.414	61.111	0.00	0.00	0.00	3.91
821	1326	0.604780	CATGCTAGCTTCCCCATCGG	60.605	60.000	17.23	0.00	0.00	4.18
868	1373	2.620112	GCAGCGGCAACTGACATGT	61.620	57.895	3.18	0.00	40.25	3.21
909	1414	3.809832	CGACCTCAACAATGACTTCACTT	59.190	43.478	0.00	0.00	0.00	3.16
964	1508	0.905357	GGCTTCCCACAGAGCTTCTA	59.095	55.000	0.00	0.00	0.00	2.10
979	1523	1.751437	GAAATAGGCGAAGTGGGCTT	58.249	50.000	0.00	0.00	43.33	4.35
1125	1794	0.034476	CAGGTGAGAGAGCAGCAACA	59.966	55.000	0.00	0.00	38.68	3.33
1127	1796	0.607112	CTCAGGTGAGAGAGCAGCAA	59.393	55.000	0.22	0.00	44.74	3.91
1164	1904	2.665165	TCAACCTCAGCACCAACAAAT	58.335	42.857	0.00	0.00	0.00	2.32
1166	1906	1.955778	CATCAACCTCAGCACCAACAA	59.044	47.619	0.00	0.00	0.00	2.83
1269	2009	2.455674	TGAAGACCACCTCGTCAATG	57.544	50.000	0.00	0.00	34.79	2.82
1409	2149	6.156949	ACTCTTCTTGCCTATGTTCCTGATAA	59.843	38.462	0.00	0.00	0.00	1.75
1442	2182	4.867599	CCGCGGACGCCTTCCTAC	62.868	72.222	24.07	0.00	43.25	3.18
1512	2390	0.538516	CCGAACACCCACCAAATCCA	60.539	55.000	0.00	0.00	0.00	3.41
1513	2391	0.538746	ACCGAACACCCACCAAATCC	60.539	55.000	0.00	0.00	0.00	3.01
1514	2392	0.596082	CACCGAACACCCACCAAATC	59.404	55.000	0.00	0.00	0.00	2.17
1524	2408	2.478879	CCTCAACAAAACCACCGAACAC	60.479	50.000	0.00	0.00	0.00	3.32
1525	2409	1.746220	CCTCAACAAAACCACCGAACA	59.254	47.619	0.00	0.00	0.00	3.18
1538	2426	1.935199	GTCGAAACGAAACCCTCAACA	59.065	47.619	0.00	0.00	37.72	3.33
1554	2442	1.136774	CCTCGCAGAATGACGTCGA	59.863	57.895	11.62	1.87	39.69	4.20
1620	2508	5.734720	TCGCTAAGAAAGAAACTCCATGAT	58.265	37.500	0.00	0.00	0.00	2.45
1644	2532	4.517832	ACATATAGACGACATGCGGACTAA	59.482	41.667	12.85	7.99	46.49	2.24
1657	2545	4.322804	GGCGAAAACCGATACATATAGACG	59.677	45.833	0.00	0.00	41.76	4.18
1683	2571	8.840833	AATTGCCCAGTTAATTAACGAAAAAT	57.159	26.923	19.92	14.57	40.96	1.82
1761	2649	9.660180	ACTTGTTTAACAATTGGCTTAAGAAAA	57.340	25.926	11.12	0.00	37.48	2.29
1849	2737	5.999205	TTTTTGGATGTCATGTGGCTAAT	57.001	34.783	0.00	0.00	0.00	1.73
1872	2760	5.970317	TGATGAAAGCATTGATCACTTGT	57.030	34.783	0.00	0.00	34.11	3.16
1909	2797	4.560128	GGTGGAAAGGAGAAAAGAAATGC	58.440	43.478	0.00	0.00	0.00	3.56
1927	2815	2.887151	ATTTGTTGAGGAGAGGGTGG	57.113	50.000	0.00	0.00	0.00	4.61
1965	2853	0.954452	GTGGCTGGTGTTGAGAAAGG	59.046	55.000	0.00	0.00	0.00	3.11
2098	2987	8.056407	AGAGGCAGAATAAAATGGTCTTTAAC	57.944	34.615	0.00	0.00	0.00	2.01
2100	2989	9.920946	AATAGAGGCAGAATAAAATGGTCTTTA	57.079	29.630	0.00	0.00	0.00	1.85
2127	3019	2.447429	TGAGGGGGTGGTGTTGAATTAA	59.553	45.455	0.00	0.00	0.00	1.40
2129	3021	0.856982	TGAGGGGGTGGTGTTGAATT	59.143	50.000	0.00	0.00	0.00	2.17
2217	3325	6.883744	TGAAATGTTTAGAAAAGGTTTGGCT	58.116	32.000	0.00	0.00	0.00	4.75
2245	3353	5.679601	AGGAGAGGATAAGAACAAATCAGC	58.320	41.667	0.00	0.00	0.00	4.26
2270	3378	4.233789	GCATACGCAATGGAACTCAAAAA	58.766	39.130	1.04	0.00	38.36	1.94
2292	3400	0.098025	GGAGAGAGAAGAGCGTGACG	59.902	60.000	0.00	0.00	0.00	4.35
2334	3443	3.817084	CCGATCATGCAACCATATCACTT	59.183	43.478	0.00	0.00	0.00	3.16
2335	3444	3.405831	CCGATCATGCAACCATATCACT	58.594	45.455	0.00	0.00	0.00	3.41
2412	3521	5.590818	TGTTTGAGGTCTAGAGGGTATCTT	58.409	41.667	0.00	0.00	39.64	2.40

Based at the University of Bristol with support from BBSRC.

AutoCloner maintained by Alex Coulton.