AutoCloner

Multiple sequence alignment - TraesCS4B01G227900

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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	TraesCS4B01G227900	chr4B	100.000	2941	0	0	1	2941	476572524	476569584	0.000000e+00	5432.0
1	TraesCS4B01G227900	chr4D	95.241	1597	74	2	911	2505	388250912	388249316	0.000000e+00	2527.0
2	TraesCS4B01G227900	chr4D	89.617	915	90	5	1	910	388251865	388250951	0.000000e+00	1158.0
3	TraesCS4B01G227900	chr4D	92.396	434	33	0	2508	2941	388249010	388248577	1.160000e-173	619.0
4	TraesCS4B01G227900	chr4D	92.574	202	14	1	2740	2941	117452946	117453146	3.710000e-74	289.0
5	TraesCS4B01G227900	chr4D	92.079	202	15	1	2740	2941	108272920	108272720	1.730000e-72	283.0
6	TraesCS4B01G227900	chr4A	93.938	1600	93	3	910	2505	69511186	69509587	0.000000e+00	2414.0
7	TraesCS4B01G227900	chr4A	93.438	1600	101	3	910	2505	69523888	69522289	0.000000e+00	2370.0
8	TraesCS4B01G227900	chr4A	89.059	914	94	6	1	909	69512136	69511224	0.000000e+00	1129.0
9	TraesCS4B01G227900	chr4A	88.390	913	102	4	1	909	69524839	69523927	0.000000e+00	1096.0
10	TraesCS4B01G227900	chr4A	90.698	430	36	3	2512	2941	69521980	69521555	1.180000e-158	569.0
11	TraesCS4B01G227900	chr4A	88.399	431	31	6	2512	2941	69509277	69508865	4.380000e-138	501.0
12	TraesCS4B01G227900	chr3D	89.795	1803	156	10	948	2736	78096968	78098756	0.000000e+00	2285.0
13	TraesCS4B01G227900	chr3D	89.123	1802	168	11	948	2736	77999275	78001061	0.000000e+00	2217.0
14	TraesCS4B01G227900	chr3D	97.297	37	1	0	910	946	77999248	77999284	2.450000e-06	63.9
15	TraesCS4B01G227900	chr3D	97.297	37	1	0	910	946	78096941	78096977	2.450000e-06	63.9
16	TraesCS4B01G227900	chr3A	87.354	1795	173	29	957	2736	91285685	91283930	0.000000e+00	2008.0
17	TraesCS4B01G227900	chr3A	92.079	202	14	2	2740	2941	376421482	376421681	1.730000e-72	283.0
18	TraesCS4B01G227900	chr7D	90.728	1359	102	13	910	2255	177169126	177170473	0.000000e+00	1790.0
19	TraesCS4B01G227900	chr7D	93.069	202	13	1	2740	2941	221289119	221288919	7.970000e-76	294.0
20	TraesCS4B01G227900	chr7D	85.000	80	11	1	338	416	177169041	177169120	2.430000e-11	80.5
21	TraesCS4B01G227900	chr7A	90.091	1322	117	5	948	2255	181050507	181051828	0.000000e+00	1703.0
22	TraesCS4B01G227900	chr7A	89.932	1321	120	8	948	2255	181014945	181016265	0.000000e+00	1690.0
23	TraesCS4B01G227900	chr3B	79.953	424	78	7	1	420	124120828	124120408	3.680000e-79	305.0
24	TraesCS4B01G227900	chr2D	93.035	201	11	3	2740	2939	198735788	198735590	1.030000e-74	291.0
25	TraesCS4B01G227900	chr7B	92.574	202	14	1	2740	2941	241423391	241423591	3.710000e-74	289.0
26	TraesCS4B01G227900	chr2A	92.574	202	14	1	2740	2941	597579402	597579202	3.710000e-74	289.0
27	TraesCS4B01G227900	chr5D	82.007	289	45	4	423	707	545237339	545237624	3.790000e-59	239.0
28	TraesCS4B01G227900	chr6D	85.030	167	22	2	500	663	330067384	330067218	1.810000e-37	167.0
29	TraesCS4B01G227900	chrUn	74.868	378	76	15	332	698	278995732	278996101	1.410000e-33	154.0
30	TraesCS4B01G227900	chrUn	74.868	378	76	15	332	698	280240703	280241072	1.410000e-33	154.0
31	TraesCS4B01G227900	chrUn	74.868	378	76	15	332	698	280247741	280248110	1.410000e-33	154.0
32	TraesCS4B01G227900	chrUn	74.677	387	79	15	332	707	284867549	284867171	1.410000e-33	154.0

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	TraesCS4B01G227900	chr4B	476569584	476572524	2940	True	5432.000000	5432	100.000000	1	2941	1	chr4B.!!$R1	2940
1	TraesCS4B01G227900	chr4D	388248577	388251865	3288	True	1434.666667	2527	92.418000	1	2941	3	chr4D.!!$R2	2940
2	TraesCS4B01G227900	chr4A	69508865	69512136	3271	True	1348.000000	2414	90.465333	1	2941	3	chr4A.!!$R1	2940
3	TraesCS4B01G227900	chr4A	69521555	69524839	3284	True	1345.000000	2370	90.842000	1	2941	3	chr4A.!!$R2	2940
4	TraesCS4B01G227900	chr3D	78096941	78098756	1815	False	1174.450000	2285	93.546000	910	2736	2	chr3D.!!$F2	1826
5	TraesCS4B01G227900	chr3D	77999248	78001061	1813	False	1140.450000	2217	93.210000	910	2736	2	chr3D.!!$F1	1826
6	TraesCS4B01G227900	chr3A	91283930	91285685	1755	True	2008.000000	2008	87.354000	957	2736	1	chr3A.!!$R1	1779
7	TraesCS4B01G227900	chr7D	177169041	177170473	1432	False	935.250000	1790	87.864000	338	2255	2	chr7D.!!$F1	1917
8	TraesCS4B01G227900	chr7A	181050507	181051828	1321	False	1703.000000	1703	90.091000	948	2255	1	chr7A.!!$F2	1307
9	TraesCS4B01G227900	chr7A	181014945	181016265	1320	False	1690.000000	1690	89.932000	948	2255	1	chr7A.!!$F1	1307

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
522	528	0.033504	CTCCATGTATCGGGGGAACG	59.966	60.0	0.0	0.0	0.0	3.95	F

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability	Orientation
2435	2498	0.036732	GAGTGCACAAGGTGGATGGA	59.963	55.0	21.04	0.0	36.11	3.41	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
56	57	1.920325	CAAGGCTCCCTGGAGGTGA	60.920	63.158	14.82	0.00	42.19	4.02
57	58	1.614824	AAGGCTCCCTGGAGGTGAG	60.615	63.158	14.82	6.01	42.19	3.51
58	59	3.086600	GGCTCCCTGGAGGTGAGG	61.087	72.222	14.82	0.00	42.19	3.86
59	60	2.284995	GCTCCCTGGAGGTGAGGT	60.285	66.667	14.82	0.00	42.19	3.85
60	61	2.664081	GCTCCCTGGAGGTGAGGTG	61.664	68.421	14.82	0.00	42.19	4.00
63	64	2.203998	CCTGGAGGTGAGGTGGGT	60.204	66.667	0.00	0.00	0.00	4.51
65	66	2.529136	TGGAGGTGAGGTGGGTGG	60.529	66.667	0.00	0.00	0.00	4.61
66	67	2.529389	GGAGGTGAGGTGGGTGGT	60.529	66.667	0.00	0.00	0.00	4.16
101	105	1.217244	GGTGACGTTGGTAGCCGAT	59.783	57.895	0.00	0.00	0.00	4.18
128	132	2.626467	GCATGGGGGAGGGGACTTT	61.626	63.158	0.00	0.00	44.43	2.66
129	133	1.307647	CATGGGGGAGGGGACTTTG	59.692	63.158	0.00	0.00	44.43	2.77
131	135	3.264845	GGGGGAGGGGACTTTGCA	61.265	66.667	0.00	0.00	44.43	4.08
163	167	4.798682	CGGGAGGCCAGTAGGGGT	62.799	72.222	5.01	0.00	37.04	4.95
166	170	1.615424	GGAGGCCAGTAGGGGTTCA	60.615	63.158	5.01	0.00	37.04	3.18
176	180	2.372172	AGTAGGGGTTCAGTTTGTCCTG	59.628	50.000	0.00	0.00	0.00	3.86
181	185	2.375146	GGTTCAGTTTGTCCTGGTTGT	58.625	47.619	0.00	0.00	33.14	3.32
182	186	2.357952	GGTTCAGTTTGTCCTGGTTGTC	59.642	50.000	0.00	0.00	33.14	3.18
185	189	0.107410	AGTTTGTCCTGGTTGTCGCA	60.107	50.000	0.00	0.00	0.00	5.10
242	246	3.376078	CCCGCTTGGCTGCATTGT	61.376	61.111	0.50	0.00	0.00	2.71
291	295	1.718280	CTTCCTCTAGGCCCCGTATT	58.282	55.000	0.00	0.00	34.44	1.89
314	318	2.785868	GCCTCAGTTTGGCGATGAT	58.214	52.632	0.00	0.00	41.03	2.45
329	333	2.684374	CGATGATGTTGATTCAAGGCCA	59.316	45.455	5.01	0.00	0.00	5.36
330	334	3.488047	CGATGATGTTGATTCAAGGCCAC	60.488	47.826	5.01	0.00	0.00	5.01
336	340	1.303317	GATTCAAGGCCACGGTGGT	60.303	57.895	26.86	6.75	40.46	4.16
361	365	0.469917	CTGGTGGACGGCAGGATTAT	59.530	55.000	0.00	0.00	0.00	1.28
372	376	2.421952	GGCAGGATTATTGGAGCACTCA	60.422	50.000	0.00	0.00	0.00	3.41
420	425	1.406341	GGTCGGGAAAATCCATGTCGA	60.406	52.381	0.00	0.00	38.64	4.20
427	432	3.941483	GGAAAATCCATGTCGACTCATGT	59.059	43.478	17.92	0.00	42.29	3.21
459	464	2.962253	GTCGCCTATGAGCACCGC	60.962	66.667	0.00	0.00	0.00	5.68
464	469	1.440060	CCTATGAGCACCGCCGTTA	59.560	57.895	0.00	0.00	0.00	3.18
512	518	1.355718	CCCCACTGCCCTCCATGTAT	61.356	60.000	0.00	0.00	0.00	2.29
514	520	0.250038	CCACTGCCCTCCATGTATCG	60.250	60.000	0.00	0.00	0.00	2.92
522	528	0.033504	CTCCATGTATCGGGGGAACG	59.966	60.000	0.00	0.00	0.00	3.95
546	552	1.316706	GGACTCGTCTAGGCAGCAGT	61.317	60.000	0.00	0.00	33.25	4.40
582	588	2.951642	CCTTCTTGAAGGTGTTGCTTGA	59.048	45.455	18.52	0.00	35.22	3.02
609	615	0.395586	TGCTTTGGTGTGCTTGGAGT	60.396	50.000	0.00	0.00	0.00	3.85
626	632	3.770040	TGCGGTGGGACATCTCCG	61.770	66.667	0.00	0.00	44.52	4.63
628	634	2.494918	CGGTGGGACATCTCCGTC	59.505	66.667	0.00	0.00	44.52	4.79
672	678	2.307309	CGTTTCGTCAAGCTGCCGA	61.307	57.895	0.00	0.00	0.00	5.54
694	700	6.148948	CGATGTTGGCATTTGTTTCTCTTTA	58.851	36.000	0.00	0.00	35.07	1.85
722	728	4.083324	TCTCATTTCAACGAGCATGTTTCC	60.083	41.667	0.00	0.00	0.00	3.13
745	751	6.318648	TCCAAATTATTGAAGTAATCAGCGCT	59.681	34.615	2.64	2.64	39.77	5.92
847	853	6.793505	ATTACATCTCGGTCTAGGAAACTT	57.206	37.500	0.00	0.00	43.67	2.66
904	910	3.548770	ACATCTGACTAATGTGGGCATG	58.451	45.455	0.00	0.00	36.04	4.06
960	1004	9.930693	CTACTTTCAGTTAACCTTCAGTTCTAT	57.069	33.333	0.88	0.00	40.05	1.98
1014	1071	4.030913	AGATTACCATGGACGGAGAGAAA	58.969	43.478	21.47	0.00	0.00	2.52
1068	1125	0.101040	CAAGCACACACAACCACCTG	59.899	55.000	0.00	0.00	0.00	4.00
1190	1247	4.696479	ACAATGATGGAGAGACCCATAC	57.304	45.455	0.00	0.00	46.34	2.39
1204	1261	3.110705	ACCCATACTGAGCAGAGAATGT	58.889	45.455	4.21	0.00	0.00	2.71
1346	1403	8.766000	TCATTAACGTGATATGTAGTGTGTTT	57.234	30.769	0.00	0.00	0.00	2.83
1350	1407	4.082625	ACGTGATATGTAGTGTGTTTCGGA	60.083	41.667	0.00	0.00	0.00	4.55
1367	1424	1.209504	CGGAACTGCCCTTATCCAGAA	59.790	52.381	0.00	0.00	33.40	3.02
1504	1562	6.899075	AGTTAGTTACATATGGGTCACCTACA	59.101	38.462	7.80	0.00	37.76	2.74
1509	1567	9.610104	AGTTACATATGGGTCACCTACAATATA	57.390	33.333	7.80	0.00	37.76	0.86
1512	1570	8.270137	ACATATGGGTCACCTACAATATACAA	57.730	34.615	7.80	0.00	37.76	2.41
1517	1575	9.959721	ATGGGTCACCTACAATATACAATTATC	57.040	33.333	0.00	0.00	37.76	1.75
1634	1693	6.986250	TGAACATGGTATCATACTCTGCTAG	58.014	40.000	0.00	0.00	31.33	3.42
1651	1710	7.497249	ACTCTGCTAGCCACTAATTAAAATGAG	59.503	37.037	13.29	0.00	0.00	2.90
1797	1856	2.877975	CTCAAATGCAGAGGGGTGG	58.122	57.895	0.00	0.00	0.00	4.61
1841	1900	2.167900	GGAGTTCCAACGCCTATACACT	59.832	50.000	5.06	0.00	44.32	3.55
1899	1958	4.654262	CCACTGCCTATCTTAAAGAGGGTA	59.346	45.833	0.00	0.00	0.00	3.69
1906	1965	5.011738	CCTATCTTAAAGAGGGTATTCGCCA	59.988	44.000	0.00	0.00	0.00	5.69
2014	2074	7.554959	AGTTTTACTTGGTTCCTCATCTAGA	57.445	36.000	0.00	0.00	0.00	2.43
2033	2093	4.454728	AGAAAATAATGCGCCATGTTGT	57.545	36.364	4.18	0.00	0.00	3.32
2063	2123	1.512926	ACATGACTTGGTCGCTTGTC	58.487	50.000	0.00	0.00	34.95	3.18
2283	2344	1.412079	AAGTTGCAAGGTGAATGCCA	58.588	45.000	0.00	0.00	43.16	4.92
2393	2456	7.620880	AGTAACATAAAGTGGTATGAGAGCAA	58.379	34.615	0.00	0.00	37.28	3.91
2435	2498	2.508526	GCTGGAAGTGAACCACAATCT	58.491	47.619	0.00	0.00	36.74	2.40
2603	2970	8.419922	AATTATGCCAAATGGGAAATTTTGTT	57.580	26.923	0.00	0.00	39.60	2.83
2707	3075	1.070134	TGGTGAACCTCTAGTGTGTGC	59.930	52.381	0.37	0.00	36.82	4.57
2736	3104	1.524621	GATGTGCATAGTGGCGGCT	60.525	57.895	11.43	0.00	36.28	5.52
2747	3115	2.100991	GGCGGCTTTGCTTCATCG	59.899	61.111	0.00	0.00	34.52	3.84
2821	3189	6.209391	AGCATAGCAACATTAGGTTCAACTTT	59.791	34.615	0.00	0.00	37.72	2.66
2827	3195	9.260002	AGCAACATTAGGTTCAACTTTAATTTG	57.740	29.630	0.00	3.08	37.72	2.32
2848	3216	0.033011	TCAGAGGGTCTAGGTGCTCC	60.033	60.000	0.00	0.00	0.00	4.70
2872	3240	8.311836	TCCAATGTTACTTTTTGTTAACCACAA	58.688	29.630	2.48	0.00	44.11	3.33
2898	3266	9.905713	ATTGAGACTTTAGCATGTTCCTTTATA	57.094	29.630	0.00	0.00	0.00	0.98
2922	3290	3.662759	ACAGGAAAAGGTGGTTTCTCA	57.337	42.857	0.00	0.00	37.60	3.27

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
47	48	2.596851	CCACCCACCTCACCTCCAG	61.597	68.421	0.00	0.00	0.00	3.86
57	58	4.699522	GAGACCGCACCACCCACC	62.700	72.222	0.00	0.00	0.00	4.61
58	59	3.626924	AGAGACCGCACCACCCAC	61.627	66.667	0.00	0.00	0.00	4.61
59	60	3.625897	CAGAGACCGCACCACCCA	61.626	66.667	0.00	0.00	0.00	4.51
60	61	4.394712	CCAGAGACCGCACCACCC	62.395	72.222	0.00	0.00	0.00	4.61
85	89	0.389296	CACATCGGCTACCAACGTCA	60.389	55.000	0.00	0.00	0.00	4.35
150	154	0.475828	AACTGAACCCCTACTGGCCT	60.476	55.000	3.32	0.00	0.00	5.19
163	167	2.285083	CGACAACCAGGACAAACTGAA	58.715	47.619	0.00	0.00	40.97	3.02
166	170	0.107410	TGCGACAACCAGGACAAACT	60.107	50.000	0.00	0.00	0.00	2.66
176	180	3.186047	CGACCGGATGCGACAACC	61.186	66.667	9.46	0.00	0.00	3.77
181	185	4.077184	AAAGCCGACCGGATGCGA	62.077	61.111	9.46	0.00	37.50	5.10
182	186	3.564027	GAAAGCCGACCGGATGCG	61.564	66.667	9.46	8.96	37.50	4.73
238	242	1.675641	GACCCGAGGCAGCAACAAT	60.676	57.895	0.00	0.00	0.00	2.71
291	295	4.421365	GCCAAACTGAGGCCATCA	57.579	55.556	5.01	5.02	46.50	3.07
314	318	0.179004	ACCGTGGCCTTGAATCAACA	60.179	50.000	3.32	0.00	0.00	3.33
329	333	4.269523	ACCAGCATGCACCACCGT	62.270	61.111	21.98	3.02	31.97	4.83
330	334	3.740397	CACCAGCATGCACCACCG	61.740	66.667	21.98	2.36	31.97	4.94
355	359	4.576463	ACGATTTGAGTGCTCCAATAATCC	59.424	41.667	0.00	0.00	0.00	3.01
361	365	1.798223	CGAACGATTTGAGTGCTCCAA	59.202	47.619	0.00	0.00	0.00	3.53
372	376	1.302993	CCACCACCCCGAACGATTT	60.303	57.895	0.00	0.00	0.00	2.17
420	425	2.217038	ACCTCGGTGCCACATGAGT	61.217	57.895	13.25	2.20	0.00	3.41
449	454	0.739813	GAAGTAACGGCGGTGCTCAT	60.740	55.000	17.57	0.33	0.00	2.90
459	464	2.474410	AGCCCTTCAAGAAGTAACGG	57.526	50.000	8.83	4.23	36.72	4.44
512	518	4.064768	TCCTAGGCGTTCCCCCGA	62.065	66.667	2.96	0.00	0.00	5.14
514	520	2.365237	AGTCCTAGGCGTTCCCCC	60.365	66.667	2.96	0.00	0.00	5.40
521	527	2.619362	CCTAGACGAGTCCTAGGCG	58.381	63.158	2.96	4.66	44.58	5.52
546	552	1.760613	AGAAGGAAGGTGACAACGACA	59.239	47.619	0.00	0.00	0.00	4.35
582	588	1.545582	GCACACCAAAGCACCACATAT	59.454	47.619	0.00	0.00	0.00	1.78
609	615	3.770040	CGGAGATGTCCCACCGCA	61.770	66.667	2.75	0.00	40.20	5.69
636	642	1.869690	GAAGAAGACCAGCAACCGC	59.130	57.895	0.00	0.00	38.99	5.68
644	650	2.875087	TGACGAAACGAAGAAGACCA	57.125	45.000	0.00	0.00	0.00	4.02
672	678	8.907222	AAATAAAGAGAAACAAATGCCAACAT	57.093	26.923	0.00	0.00	38.49	2.71
694	700	5.413833	ACATGCTCGTTGAAATGAGAGAAAT	59.586	36.000	14.98	1.85	43.22	2.17
711	717	9.638239	TTACTTCAATAATTTGGAAACATGCTC	57.362	29.630	0.00	0.00	42.32	4.26
722	728	8.551205	TCTAGCGCTGATTACTTCAATAATTTG	58.449	33.333	22.90	0.00	32.78	2.32
767	773	7.504238	ACATTAACATACTTTCCCAACTTCACA	59.496	33.333	0.00	0.00	0.00	3.58
817	823	7.058525	TCCTAGACCGAGATGTAATTGAGTAA	58.941	38.462	0.00	0.00	0.00	2.24
822	828	6.574350	AGTTTCCTAGACCGAGATGTAATTG	58.426	40.000	0.00	0.00	0.00	2.32
965	1009	8.411683	GCTATCATCAAAAAGAATGTCATTCCT	58.588	33.333	19.80	6.41	40.13	3.36
1014	1071	4.121317	CAAATTCATTGTGCACACCACTT	58.879	39.130	21.56	7.02	44.92	3.16
1068	1125	2.778299	TCACTATGGTTGTGCTGGAAC	58.222	47.619	0.00	0.00	35.58	3.62
1190	1247	2.756840	TGTGGACATTCTCTGCTCAG	57.243	50.000	0.00	0.00	0.00	3.35
1294	1351	6.650427	TGGATTAGTACACATCTTCGCTAT	57.350	37.500	0.00	0.00	0.00	2.97
1346	1403	0.830648	CTGGATAAGGGCAGTTCCGA	59.169	55.000	0.00	0.00	34.94	4.55
1350	1407	3.454858	TCTCTTCTGGATAAGGGCAGTT	58.545	45.455	0.00	0.00	0.00	3.16
1367	1424	1.203199	AGGTCCTTCCGGAGTTTCTCT	60.203	52.381	3.34	0.00	40.84	3.10
1509	1567	6.639632	AGAACAAAGTGTGCAGATAATTGT	57.360	33.333	6.19	6.19	0.00	2.71
1517	1575	8.556194	TGTACTATTTAAGAACAAAGTGTGCAG	58.444	33.333	0.00	0.00	0.00	4.41
1634	1693	6.265422	AGGTATGCCTCATTTTAATTAGTGGC	59.735	38.462	0.00	8.02	42.67	5.01
1651	1710	7.599998	CCTGCATTTATTAATTTCAGGTATGCC	59.400	37.037	11.56	0.00	37.26	4.40
1797	1856	4.377022	CGAAGTATGCTGTGTTTGTACCAC	60.377	45.833	0.00	0.00	0.00	4.16
1841	1900	4.964897	TCTTCCTTGAGCCTCATATTCTCA	59.035	41.667	0.00	0.00	35.30	3.27
1906	1965	2.307496	TGGGAGTGACATGCCATTTT	57.693	45.000	0.00	0.00	35.50	1.82
2014	2074	3.679025	CACACAACATGGCGCATTATTTT	59.321	39.130	10.83	0.00	0.00	1.82
2033	2093	5.222079	ACCAAGTCATGTACATACACACA	57.778	39.130	8.32	0.00	39.30	3.72
2063	2123	8.105829	ACCATGAGAGCCTATGGAAATAAATAG	58.894	37.037	10.00	0.00	45.32	1.73
2370	2433	8.264347	TGATTGCTCTCATACCACTTTATGTTA	58.736	33.333	0.00	0.00	32.17	2.41
2393	2456	3.181442	CCTTGGCTCCAGAAGATGATGAT	60.181	47.826	0.00	0.00	0.00	2.45
2435	2498	0.036732	GAGTGCACAAGGTGGATGGA	59.963	55.000	21.04	0.00	36.11	3.41
2494	2557	2.838637	ATATCTCCGGATCCTCCTCC	57.161	55.000	3.57	0.00	33.30	4.30
2507	2874	8.768955	CACCAAGTATTGCACTTCTTATATCTC	58.231	37.037	0.00	0.00	44.48	2.75
2510	2877	9.113838	CTTCACCAAGTATTGCACTTCTTATAT	57.886	33.333	0.00	0.00	44.48	0.86
2603	2970	4.395854	CCTGCACTTGCTTATTCACATGTA	59.604	41.667	0.00	0.00	42.66	2.29
2707	3075	2.343484	ATGCACATCATCTCTGGTGG	57.657	50.000	0.00	0.00	37.85	4.61
2747	3115	4.014847	TGCGCATGTTATTTACTTCTGC	57.985	40.909	5.66	0.00	0.00	4.26
2766	3134	7.763528	AGATCTCTTGGTCGATAATATTGATGC	59.236	37.037	0.00	0.00	0.00	3.91
2797	3165	5.567138	AGTTGAACCTAATGTTGCTATGC	57.433	39.130	0.00	0.00	37.29	3.14
2821	3189	5.570844	GCACCTAGACCCTCTGAACAAATTA	60.571	44.000	0.00	0.00	0.00	1.40
2827	3195	1.478916	GAGCACCTAGACCCTCTGAAC	59.521	57.143	0.00	0.00	0.00	3.18
2829	3197	0.033011	GGAGCACCTAGACCCTCTGA	60.033	60.000	0.00	0.00	0.00	3.27
2872	3240	8.814038	ATAAAGGAACATGCTAAAGTCTCAAT	57.186	30.769	0.00	0.00	0.00	2.57
2898	3266	5.125367	AGAAACCACCTTTTCCTGTTAGT	57.875	39.130	0.00	0.00	36.31	2.24

Based at the University of Bristol with support from BBSRC.

AutoCloner maintained by Alex Coulton.