AutoCloner

Multiple sequence alignment - TraesCS4D01G115400

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	TraesCS4D01G115400	chr4D	100.000	2843	0	0	1	2843	96522579	96525421	0.000000e+00	5251.0
1	TraesCS4D01G115400	chr4D	92.308	624	47	1	2220	2843	501038395	501037773	0.000000e+00	885.0
2	TraesCS4D01G115400	chr4A	91.670	2209	108	26	1	2168	482134528	482132355	0.000000e+00	2990.0
3	TraesCS4D01G115400	chr4A	91.667	48	3	1	1951	1998	596678383	596678337	6.570000e-07	65.8
4	TraesCS4D01G115400	chr4B	91.887	2046	85	34	1	2009	136531451	136533452	0.000000e+00	2784.0
5	TraesCS4D01G115400	chr4B	90.323	155	7	2	2019	2173	136533746	136533892	2.230000e-46	196.0
6	TraesCS4D01G115400	chrUn	92.937	623	44	0	2221	2843	110780341	110779719	0.000000e+00	907.0
7	TraesCS4D01G115400	chrUn	100.000	34	0	0	1308	1341	473127812	473127845	2.360000e-06	63.9
8	TraesCS4D01G115400	chrUn	97.297	37	1	0	1309	1345	473127891	473127927	2.360000e-06	63.9
9	TraesCS4D01G115400	chrUn	97.297	37	1	0	1309	1345	475075511	475075547	2.360000e-06	63.9
10	TraesCS4D01G115400	chr7A	92.160	625	48	1	2219	2843	13340849	13341472	0.000000e+00	881.0
11	TraesCS4D01G115400	chr7A	94.595	37	2	0	2187	2223	56720968	56720932	1.100000e-04	58.4
12	TraesCS4D01G115400	chr5D	92.026	627	49	1	2217	2843	376720098	376719473	0.000000e+00	880.0
13	TraesCS4D01G115400	chr5D	92.097	620	48	1	2221	2840	301630508	301629890	0.000000e+00	872.0
14	TraesCS4D01G115400	chr5D	82.090	67	8	4	1952	2016	318045975	318045911	1.000000e-03	54.7
15	TraesCS4D01G115400	chr6D	92.038	628	44	5	2217	2841	30534564	30533940	0.000000e+00	878.0
16	TraesCS4D01G115400	chr1D	91.707	627	51	1	2217	2843	191378185	191378810	0.000000e+00	869.0
17	TraesCS4D01G115400	chr2D	91.827	624	48	3	2220	2843	585207595	585208215	0.000000e+00	867.0
18	TraesCS4D01G115400	chr2D	97.222	36	1	0	1956	1991	596949074	596949109	8.500000e-06	62.1
19	TraesCS4D01G115400	chr7B	91.653	623	51	1	2221	2843	634288581	634287960	0.000000e+00	861.0
20	TraesCS4D01G115400	chr1B	97.368	76	2	0	1308	1383	592650907	592650982	2.300000e-26	130.0
21	TraesCS4D01G115400	chr1B	95.122	41	2	0	1308	1348	654526217	654526177	6.570000e-07	65.8
22	TraesCS4D01G115400	chr6B	98.276	58	1	0	1333	1390	151601926	151601869	5.010000e-18	102.0
23	TraesCS4D01G115400	chr6B	91.489	47	3	1	1952	1997	684977880	684977926	2.360000e-06	63.9
24	TraesCS4D01G115400	chr7D	94.872	39	2	0	1959	1997	553621578	553621540	8.500000e-06	62.1
25	TraesCS4D01G115400	chr7D	100.000	28	0	0	2146	2173	444351106	444351079	5.000000e-03	52.8
26	TraesCS4D01G115400	chr5B	91.304	46	3	1	1953	1997	60097538	60097493	8.500000e-06	62.1
27	TraesCS4D01G115400	chr5B	100.000	28	0	0	2146	2173	50231317	50231290	5.000000e-03	52.8
28	TraesCS4D01G115400	chr3D	94.872	39	2	0	1959	1997	257188418	257188380	8.500000e-06	62.1
29	TraesCS4D01G115400	chr3D	97.222	36	1	0	1956	1991	300789062	300789097	8.500000e-06	62.1
30	TraesCS4D01G115400	chr3D	100.000	28	0	0	2146	2173	573854725	573854698	5.000000e-03	52.8
31	TraesCS4D01G115400	chr2B	100.000	33	0	0	1308	1340	111369903	111369871	8.500000e-06	62.1
32	TraesCS4D01G115400	chr3B	96.970	33	1	0	2191	2223	155417734	155417702	3.960000e-04	56.5
33	TraesCS4D01G115400	chr3B	100.000	28	0	0	2146	2173	158328215	158328242	5.000000e-03	52.8
34	TraesCS4D01G115400	chr3A	96.875	32	1	0	2192	2223	724176812	724176781	1.000000e-03	54.7

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	TraesCS4D01G115400	chr4D	96522579	96525421	2842	False	5251	5251	100.000	1	2843	1	chr4D.!!$F1	2842
1	TraesCS4D01G115400	chr4D	501037773	501038395	622	True	885	885	92.308	2220	2843	1	chr4D.!!$R1	623
2	TraesCS4D01G115400	chr4A	482132355	482134528	2173	True	2990	2990	91.670	1	2168	1	chr4A.!!$R1	2167
3	TraesCS4D01G115400	chr4B	136531451	136533892	2441	False	1490	2784	91.105	1	2173	2	chr4B.!!$F1	2172
4	TraesCS4D01G115400	chrUn	110779719	110780341	622	True	907	907	92.937	2221	2843	1	chrUn.!!$R1	622
5	TraesCS4D01G115400	chr7A	13340849	13341472	623	False	881	881	92.160	2219	2843	1	chr7A.!!$F1	624
6	TraesCS4D01G115400	chr5D	376719473	376720098	625	True	880	880	92.026	2217	2843	1	chr5D.!!$R3	626
7	TraesCS4D01G115400	chr5D	301629890	301630508	618	True	872	872	92.097	2221	2840	1	chr5D.!!$R1	619
8	TraesCS4D01G115400	chr6D	30533940	30534564	624	True	878	878	92.038	2217	2841	1	chr6D.!!$R1	624
9	TraesCS4D01G115400	chr1D	191378185	191378810	625	False	869	869	91.707	2217	2843	1	chr1D.!!$F1	626
10	TraesCS4D01G115400	chr2D	585207595	585208215	620	False	867	867	91.827	2220	2843	1	chr2D.!!$F1	623
11	TraesCS4D01G115400	chr7B	634287960	634288581	621	True	861	861	91.653	2221	2843	1	chr7B.!!$R1	622

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
428	456	0.179020	CCAGGAGCACTTGACACCAA	60.179	55.0	0.00	0.0	0.00	3.67	F
885	932	0.698818	TTCCTGGCCTCTCCTTTTCC	59.301	55.0	3.32	0.0	35.26	3.13	F

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability	Orientation
1811	1862	0.179156	GTCGAGGCATGCATTGTTGG	60.179	55.0	21.36	1.12	0.00	3.77	R
2426	2769	0.530650	TTGTAGCTGCGCTAGGATGC	60.531	55.0	9.73	1.87	42.11	3.91	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
120	124	2.421619	CTGACCTTTCTGAAGTGAGGC	58.578	52.381	6.54	1.86	32.42	4.70
133	137	0.962356	GTGAGGCCTCAACCATGGTG	60.962	60.000	36.66	12.88	41.85	4.17
184	188	5.122082	GCATCAGATAGCTTTATTCTGCCTC	59.878	44.000	0.00	0.00	0.00	4.70
220	224	2.839486	TCGTTTGCTGAATCTGTCCT	57.161	45.000	0.00	0.00	0.00	3.85
270	280	9.470399	TTCTAACCTTTTCTACTTTGTTCCTTT	57.530	29.630	0.00	0.00	0.00	3.11
277	287	6.988622	TTCTACTTTGTTCCTTTTCGTTCA	57.011	33.333	0.00	0.00	0.00	3.18
347	357	5.818136	TTTCTGAAACAAGAACTCACTGG	57.182	39.130	0.00	0.00	35.92	4.00
361	371	3.703001	TCACTGGGAGAGGAATTGAAC	57.297	47.619	0.00	0.00	0.00	3.18
362	372	2.028112	TCACTGGGAGAGGAATTGAACG	60.028	50.000	0.00	0.00	0.00	3.95
428	456	0.179020	CCAGGAGCACTTGACACCAA	60.179	55.000	0.00	0.00	0.00	3.67
433	461	1.081242	GCACTTGACACCAATGCGG	60.081	57.895	0.00	0.00	42.50	5.69
503	537	5.279960	CCCATTTTCTCCCAGGGTTTTTAAG	60.280	44.000	5.01	0.00	34.75	1.85
504	538	5.306937	CCATTTTCTCCCAGGGTTTTTAAGT	59.693	40.000	5.01	0.00	0.00	2.24
505	539	6.183361	CCATTTTCTCCCAGGGTTTTTAAGTT	60.183	38.462	5.01	0.00	0.00	2.66
506	540	6.877668	TTTTCTCCCAGGGTTTTTAAGTTT	57.122	33.333	5.01	0.00	0.00	2.66
507	541	6.877668	TTTCTCCCAGGGTTTTTAAGTTTT	57.122	33.333	5.01	0.00	0.00	2.43
508	542	7.974730	TTTCTCCCAGGGTTTTTAAGTTTTA	57.025	32.000	5.01	0.00	0.00	1.52
509	543	7.974730	TTCTCCCAGGGTTTTTAAGTTTTAA	57.025	32.000	5.01	0.00	0.00	1.52
510	544	7.350744	TCTCCCAGGGTTTTTAAGTTTTAAC	57.649	36.000	5.01	0.00	0.00	2.01
511	545	6.324512	TCTCCCAGGGTTTTTAAGTTTTAACC	59.675	38.462	5.01	0.00	39.41	2.85
512	546	5.068855	TCCCAGGGTTTTTAAGTTTTAACCG	59.931	40.000	5.01	0.00	40.71	4.44
595	629	2.954318	CAGGAATGCCAACCTTATCAGG	59.046	50.000	0.00	0.00	40.90	3.86
609	643	4.384056	CTTATCAGGAATTCGGTGATGCT	58.616	43.478	22.95	8.42	33.05	3.79
750	797	3.703052	AGATGCACATTTCCATTTCCTCC	59.297	43.478	0.00	0.00	0.00	4.30
778	825	6.041637	CCAAGTTGCAGTAGGAGTATATACCA	59.958	42.308	9.32	0.00	0.00	3.25
783	830	5.010933	GCAGTAGGAGTATATACCAGCTCA	58.989	45.833	9.32	0.00	0.00	4.26
799	846	4.980434	CCAGCTCAACTTGTGAAATGAAAG	59.020	41.667	0.00	0.00	35.22	2.62
803	850	3.703556	TCAACTTGTGAAATGAAAGGCCA	59.296	39.130	5.01	0.00	31.51	5.36
804	851	4.161189	TCAACTTGTGAAATGAAAGGCCAA	59.839	37.500	5.01	0.00	31.51	4.52
805	852	4.751767	ACTTGTGAAATGAAAGGCCAAA	57.248	36.364	5.01	0.00	0.00	3.28
806	853	5.096443	ACTTGTGAAATGAAAGGCCAAAA	57.904	34.783	5.01	0.00	0.00	2.44
835	882	8.716646	AAACAAGAAACAAATTTCCGAATTCT	57.283	26.923	3.52	0.00	44.66	2.40
885	932	0.698818	TTCCTGGCCTCTCCTTTTCC	59.301	55.000	3.32	0.00	35.26	3.13
943	990	1.944024	AGCAAAATTCGACGGTCACAA	59.056	42.857	9.10	0.46	0.00	3.33
987	1038	1.072489	ACGTCTGACTGACTGAGGAGA	59.928	52.381	6.21	0.00	43.25	3.71
1098	1149	4.767255	CTGGAGGTGCTGTCGGCC	62.767	72.222	0.00	0.00	40.92	6.13
1111	1162	4.326766	CGGCCTGCAACAACCACG	62.327	66.667	0.00	0.00	0.00	4.94
1476	1527	1.218316	GGACGACATGGTCAGGGAC	59.782	63.158	0.00	0.00	38.70	4.46
1536	1587	2.650116	GGAGGAGGCAACGCTGAGA	61.650	63.158	0.00	0.00	46.39	3.27
1801	1852	1.486310	TGGGGGATCAAGAAGATGACG	59.514	52.381	0.00	0.00	37.00	4.35
1802	1853	1.762957	GGGGGATCAAGAAGATGACGA	59.237	52.381	0.00	0.00	37.00	4.20
1803	1854	2.483889	GGGGGATCAAGAAGATGACGAC	60.484	54.545	0.00	0.00	37.00	4.34
1806	1857	1.855360	GATCAAGAAGATGACGACCGC	59.145	52.381	0.00	0.00	37.00	5.68
1825	1876	1.079875	CGAAGCCAACAATGCATGCC	61.080	55.000	16.68	0.00	0.00	4.40
1857	1908	6.312399	TGCGCTTAGTTAATTATGAATGGG	57.688	37.500	9.73	0.00	0.00	4.00
1881	1932	4.006989	TGTAGTAATTCGCCATGCAAGTT	58.993	39.130	0.00	0.00	0.00	2.66
1967	2025	9.747898	TGCCTCTTGTTCCTTTTCTAAATATAA	57.252	29.630	0.00	0.00	0.00	0.98
2047	2389	9.758651	ACATACGAAGCAAAATATGTCTATACA	57.241	29.630	0.00	0.00	40.69	2.29
2173	2515	8.629158	AGTACATACAAAGCAAAATGAGTGAAA	58.371	29.630	0.00	0.00	0.00	2.69
2174	2516	9.243637	GTACATACAAAGCAAAATGAGTGAAAA	57.756	29.630	0.00	0.00	0.00	2.29
2175	2517	8.891671	ACATACAAAGCAAAATGAGTGAAAAT	57.108	26.923	0.00	0.00	0.00	1.82
2176	2518	9.979578	ACATACAAAGCAAAATGAGTGAAAATA	57.020	25.926	0.00	0.00	0.00	1.40
2179	2521	8.891671	ACAAAGCAAAATGAGTGAAAATATGT	57.108	26.923	0.00	0.00	0.00	2.29
2180	2522	8.981647	ACAAAGCAAAATGAGTGAAAATATGTC	58.018	29.630	0.00	0.00	0.00	3.06
2181	2523	9.199982	CAAAGCAAAATGAGTGAAAATATGTCT	57.800	29.630	0.00	0.00	0.00	3.41
2183	2525	9.846248	AAGCAAAATGAGTGAAAATATGTCTAC	57.154	29.630	0.00	0.00	0.00	2.59
2184	2526	8.462016	AGCAAAATGAGTGAAAATATGTCTACC	58.538	33.333	0.00	0.00	0.00	3.18
2185	2527	8.243426	GCAAAATGAGTGAAAATATGTCTACCA	58.757	33.333	0.00	0.00	0.00	3.25
2188	2530	9.911788	AAATGAGTGAAAATATGTCTACCATCT	57.088	29.630	0.00	0.00	34.86	2.90
2189	2531	8.899427	ATGAGTGAAAATATGTCTACCATCTG	57.101	34.615	0.00	0.00	34.86	2.90
2190	2532	7.851228	TGAGTGAAAATATGTCTACCATCTGT	58.149	34.615	0.00	0.00	34.86	3.41
2191	2533	8.977412	TGAGTGAAAATATGTCTACCATCTGTA	58.023	33.333	0.00	0.00	34.86	2.74
2192	2534	9.988815	GAGTGAAAATATGTCTACCATCTGTAT	57.011	33.333	0.00	0.00	34.86	2.29
2260	2602	3.066621	CACGTGTGGCATAATAGGCATTT	59.933	43.478	7.58	0.00	46.23	2.32
2322	2664	4.059459	GCTGTGTGTCGGCGAACG	62.059	66.667	12.92	4.53	46.11	3.95
2354	2696	3.931317	CACACGTGTGGGCGTAGCTAA	62.931	57.143	35.65	0.00	46.51	3.09
2366	2708	2.201732	CGTAGCTAATTCGTGCCACAT	58.798	47.619	0.00	0.00	0.00	3.21
2389	2731	4.227300	TGCCCAACAAGTACTATTCATCCT	59.773	41.667	0.00	0.00	0.00	3.24
2488	2832	4.808895	CGATTTAGTTGTCATCCGGAATGA	59.191	41.667	9.01	10.43	42.21	2.57
2599	2945	1.209127	GCAGTTGCCGCGTGTAATT	59.791	52.632	4.92	0.00	34.31	1.40
2611	2957	5.495502	CCGCGTGTAATTAAACCATAGTTC	58.504	41.667	4.92	0.00	34.19	3.01
2678	3026	3.818773	GCCATGTGTGTTTACCTAGTTGT	59.181	43.478	0.00	0.00	0.00	3.32
2694	3042	5.063438	CCTAGTTGTCATGTGTGGTTAATCG	59.937	44.000	0.00	0.00	0.00	3.34
2791	3139	5.676552	TGTCATGTGTGTTTACCTAGTTGT	58.323	37.500	0.00	0.00	0.00	3.32

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
120	124	0.538057	ACAGCACACCATGGTTGAGG	60.538	55.000	16.84	6.51	36.72	3.86
184	188	0.451783	CGAAAAGAATGAAGGGCGGG	59.548	55.000	0.00	0.00	0.00	6.13
258	268	4.844267	CGATGAACGAAAAGGAACAAAGT	58.156	39.130	0.00	0.00	45.77	2.66
277	287	4.494091	AAGAGTTGATGGTGGATTCGAT	57.506	40.909	0.00	0.00	0.00	3.59
327	337	3.454447	TCCCAGTGAGTTCTTGTTTCAGA	59.546	43.478	0.00	0.00	0.00	3.27
337	347	3.261897	TCAATTCCTCTCCCAGTGAGTTC	59.738	47.826	0.00	0.00	42.12	3.01
347	357	2.827652	CTAGCCGTTCAATTCCTCTCC	58.172	52.381	0.00	0.00	0.00	3.71
359	369	4.303257	GGCAGAAAGCTAGCCGTT	57.697	55.556	12.13	5.98	44.79	4.44
414	442	1.518056	CCGCATTGGTGTCAAGTGCT	61.518	55.000	0.00	0.00	36.35	4.40
428	456	0.036952	CTTGTCACTGAGGACCGCAT	60.037	55.000	0.00	0.00	36.97	4.73
433	461	2.072298	GATGCACTTGTCACTGAGGAC	58.928	52.381	0.00	0.00	38.29	3.85
559	593	5.105392	GGCATTCCTGTTGGTGAATGAATTA	60.105	40.000	14.51	0.00	46.89	1.40
595	629	1.230324	GCCCTAGCATCACCGAATTC	58.770	55.000	0.00	0.00	39.53	2.17
609	643	4.524802	ATTTGATGGTGATCTTGCCCTA	57.475	40.909	0.00	0.00	0.00	3.53
667	708	1.466856	TGTGATGGAAATCTGCAGGC	58.533	50.000	15.13	1.00	0.00	4.85
750	797	1.625818	ACTCCTACTGCAACTTGGGAG	59.374	52.381	16.29	16.29	43.99	4.30
778	825	4.500375	GCCTTTCATTTCACAAGTTGAGCT	60.500	41.667	10.54	0.00	34.94	4.09
783	830	4.751767	TTGGCCTTTCATTTCACAAGTT	57.248	36.364	3.32	0.00	0.00	2.66
799	846	5.871465	TGTTTCTTGTTTTTCTTTTGGCC	57.129	34.783	0.00	0.00	0.00	5.36
803	850	9.605955	CGGAAATTTGTTTCTTGTTTTTCTTTT	57.394	25.926	0.00	0.00	0.00	2.27
804	851	8.994170	TCGGAAATTTGTTTCTTGTTTTTCTTT	58.006	25.926	0.00	0.00	0.00	2.52
805	852	8.541133	TCGGAAATTTGTTTCTTGTTTTTCTT	57.459	26.923	0.00	0.00	0.00	2.52
806	853	8.541133	TTCGGAAATTTGTTTCTTGTTTTTCT	57.459	26.923	0.00	0.00	0.00	2.52
835	882	3.126858	GCTTTTATGTGGCTGTCGAATCA	59.873	43.478	0.00	0.00	0.00	2.57
885	932	6.597562	AGGAAGAGAGGTATATATAGCGAGG	58.402	44.000	14.61	0.00	35.98	4.63
987	1038	2.338015	CGCCATCCAACAAGCAGCT	61.338	57.895	0.00	0.00	0.00	4.24
1098	1149	3.215568	TGGGCGTGGTTGTTGCAG	61.216	61.111	0.00	0.00	0.00	4.41
1111	1162	2.924105	GCAGCTTCTTGTGGTGGGC	61.924	63.158	0.00	0.00	33.98	5.36
1273	1324	1.654954	TTCTCGGCCTGACTAGCGAC	61.655	60.000	0.00	0.00	0.00	5.19
1769	1820	2.498820	ATCCCCCAACTCCAGCTCCT	62.499	60.000	0.00	0.00	0.00	3.69
1770	1821	1.988982	GATCCCCCAACTCCAGCTCC	61.989	65.000	0.00	0.00	0.00	4.70
1771	1822	1.274703	TGATCCCCCAACTCCAGCTC	61.275	60.000	0.00	0.00	0.00	4.09
1801	1852	1.154225	CATTGTTGGCTTCGCGGTC	60.154	57.895	6.13	0.00	0.00	4.79
1802	1853	2.953821	CATTGTTGGCTTCGCGGT	59.046	55.556	6.13	0.00	0.00	5.68
1803	1854	2.504681	GCATTGTTGGCTTCGCGG	60.505	61.111	6.13	0.00	0.00	6.46
1806	1857	1.079875	GGCATGCATTGTTGGCTTCG	61.080	55.000	21.36	0.00	35.67	3.79
1811	1862	0.179156	GTCGAGGCATGCATTGTTGG	60.179	55.000	21.36	1.12	0.00	3.77
1825	1876	2.951745	CTAAGCGCAGGCGTCGAG	60.952	66.667	11.47	6.06	46.35	4.04
1857	1908	4.142687	ACTTGCATGGCGAATTACTACAAC	60.143	41.667	4.44	0.00	0.00	3.32
1881	1932	1.888512	GGATTCTGCAGGTTGAAGCAA	59.111	47.619	15.13	0.00	40.73	3.91
2014	2072	9.245962	ACATATTTTGCTTCGTATGTACTACTC	57.754	33.333	0.00	0.00	36.35	2.59
2015	2073	9.245962	GACATATTTTGCTTCGTATGTACTACT	57.754	33.333	0.00	0.00	37.76	2.57
2016	2074	9.245962	AGACATATTTTGCTTCGTATGTACTAC	57.754	33.333	0.00	0.00	37.76	2.73
2105	2447	9.869667	AGACTTACTACAATCCATCAGTAGTAT	57.130	33.333	11.18	0.28	45.47	2.12
2142	2484	6.714810	TCATTTTGCTTTGTATGTACTCCTGT	59.285	34.615	0.00	0.00	0.00	4.00
2143	2485	7.094634	ACTCATTTTGCTTTGTATGTACTCCTG	60.095	37.037	0.00	0.00	0.00	3.86
2201	2543	8.985805	CGGCGTCCTAAATATAAGTCTTTTTAT	58.014	33.333	0.00	0.00	0.00	1.40
2202	2544	8.196771	TCGGCGTCCTAAATATAAGTCTTTTTA	58.803	33.333	6.85	0.00	0.00	1.52
2203	2545	7.043565	TCGGCGTCCTAAATATAAGTCTTTTT	58.956	34.615	6.85	0.00	0.00	1.94
2204	2546	6.576185	TCGGCGTCCTAAATATAAGTCTTTT	58.424	36.000	6.85	0.00	0.00	2.27
2205	2547	6.152932	TCGGCGTCCTAAATATAAGTCTTT	57.847	37.500	6.85	0.00	0.00	2.52
2206	2548	5.779529	TCGGCGTCCTAAATATAAGTCTT	57.220	39.130	6.85	0.00	0.00	3.01
2207	2549	5.979288	ATCGGCGTCCTAAATATAAGTCT	57.021	39.130	6.85	0.00	0.00	3.24
2208	2550	6.916932	GGATATCGGCGTCCTAAATATAAGTC	59.083	42.308	6.85	0.00	0.00	3.01
2209	2551	6.379133	TGGATATCGGCGTCCTAAATATAAGT	59.621	38.462	14.96	0.00	35.49	2.24
2210	2552	6.696148	GTGGATATCGGCGTCCTAAATATAAG	59.304	42.308	14.96	0.00	35.49	1.73
2211	2553	6.406177	GGTGGATATCGGCGTCCTAAATATAA	60.406	42.308	14.96	0.00	35.49	0.98
2212	2554	5.068198	GGTGGATATCGGCGTCCTAAATATA	59.932	44.000	14.96	0.38	35.49	0.86
2213	2555	4.142004	GGTGGATATCGGCGTCCTAAATAT	60.142	45.833	14.96	6.43	35.49	1.28
2214	2556	3.194116	GGTGGATATCGGCGTCCTAAATA	59.806	47.826	14.96	1.77	35.49	1.40
2215	2557	2.028385	GGTGGATATCGGCGTCCTAAAT	60.028	50.000	14.96	0.00	35.49	1.40
2314	2656	1.347221	GCAATTCTACCGTTCGCCG	59.653	57.895	0.00	0.00	0.00	6.46
2322	2664	0.802494	CACGTGTGGGCAATTCTACC	59.198	55.000	7.58	0.00	0.00	3.18
2366	2708	4.227300	AGGATGAATAGTACTTGTTGGGCA	59.773	41.667	0.00	0.00	0.00	5.36
2426	2769	0.530650	TTGTAGCTGCGCTAGGATGC	60.531	55.000	9.73	1.87	42.11	3.91
2428	2771	2.918712	ATTTGTAGCTGCGCTAGGAT	57.081	45.000	9.73	0.00	42.11	3.24
2433	2776	2.483188	GGTACCTATTTGTAGCTGCGCT	60.483	50.000	9.73	8.09	43.41	5.92
2488	2832	4.281182	GTCATCCCGGATAACTACATCTGT	59.719	45.833	0.73	0.00	30.52	3.41
2538	2882	9.490379	CAACTATAGTTAACCAAAACAGAGAGT	57.510	33.333	17.62	0.00	36.32	3.24
2582	2928	2.884663	TTAATTACACGCGGCAACTG	57.115	45.000	12.47	0.56	0.00	3.16
2611	2957	7.119116	TGTGGCAAGTAGTTAATTACACATGAG	59.881	37.037	10.38	0.00	30.79	2.90
2678	3026	3.052455	ACTGCGATTAACCACACATGA	57.948	42.857	0.00	0.00	0.00	3.07
2694	3042	3.443681	AGGTAAACATACATGGCAACTGC	59.556	43.478	0.00	0.00	41.14	4.40
2791	3139	1.625759	CTGCAGTTGCGCGTACATGA	61.626	55.000	8.43	0.00	45.83	3.07

Based at the University of Bristol with support from BBSRC.

AutoCloner maintained by Alex Coulton.