AutoCloner

Multiple sequence alignment - TraesCS3B01G372400

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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	TraesCS3B01G372400	chr3B	100.000	2621	0	0	1	2621	585024425	585021805	0.000000e+00	4841
1	TraesCS3B01G372400	chr3B	87.201	1172	107	25	931	2079	585139066	585137915	0.000000e+00	1293
2	TraesCS3B01G372400	chr3B	85.461	846	78	26	968	1785	584985200	584984372	0.000000e+00	839
3	TraesCS3B01G372400	chr3B	82.027	523	76	16	2104	2621	585137925	585137416	1.860000e-116	429
4	TraesCS3B01G372400	chr5D	97.228	938	25	1	1	938	321691924	321692860	0.000000e+00	1587
5	TraesCS3B01G372400	chr5D	96.774	930	30	0	1	930	408227671	408228600	0.000000e+00	1552
6	TraesCS3B01G372400	chr5D	82.449	490	86	0	15	504	478571920	478572409	1.860000e-116	429
7	TraesCS3B01G372400	chr7A	96.989	930	28	0	1	930	735987994	735987065	0.000000e+00	1563
8	TraesCS3B01G372400	chr7A	95.812	191	8	0	741	931	735991904	735991714	2.530000e-80	309
9	TraesCS3B01G372400	chr1A	96.667	930	31	0	1	930	79115365	79116294	0.000000e+00	1546
10	TraesCS3B01G372400	chr3D	96.474	936	32	1	1	936	566133676	566132742	0.000000e+00	1544
11	TraesCS3B01G372400	chr3D	90.391	1176	93	13	949	2107	446110101	446108929	0.000000e+00	1528
12	TraesCS3B01G372400	chr3D	90.691	1085	77	11	931	1997	446191779	446190701	0.000000e+00	1423
13	TraesCS3B01G372400	chr3D	86.512	860	78	23	949	1785	446075596	446074752	0.000000e+00	911
14	TraesCS3B01G372400	chr3D	82.051	507	59	13	2115	2619	446190627	446190151	1.130000e-108	403
15	TraesCS3B01G372400	chr1B	96.344	930	31	2	1	930	22955104	22956030	0.000000e+00	1526
16	TraesCS3B01G372400	chr3A	89.991	1139	86	18	931	2051	587966500	587965372	0.000000e+00	1447
17	TraesCS3B01G372400	chr3A	90.289	1071	83	16	950	2004	587906306	587905241	0.000000e+00	1382
18	TraesCS3B01G372400	chr3A	86.914	810	67	25	1000	1785	587884712	587883918	0.000000e+00	872
19	TraesCS3B01G372400	chr3A	89.362	141	13	2	2462	2601	587965229	587965090	2.680000e-40	176
20	TraesCS3B01G372400	chr5A	94.652	935	34	8	1	933	632438196	632437276	0.000000e+00	1435
21	TraesCS3B01G372400	chr4B	89.592	932	91	6	1	930	473841977	473842904	0.000000e+00	1179

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	TraesCS3B01G372400	chr3B	585021805	585024425	2620	True	4841.0	4841	100.0000	1	2621	1	chr3B.!!$R2	2620
1	TraesCS3B01G372400	chr3B	585137416	585139066	1650	True	861.0	1293	84.6140	931	2621	2	chr3B.!!$R3	1690
2	TraesCS3B01G372400	chr3B	584984372	584985200	828	True	839.0	839	85.4610	968	1785	1	chr3B.!!$R1	817
3	TraesCS3B01G372400	chr5D	321691924	321692860	936	False	1587.0	1587	97.2280	1	938	1	chr5D.!!$F1	937
4	TraesCS3B01G372400	chr5D	408227671	408228600	929	False	1552.0	1552	96.7740	1	930	1	chr5D.!!$F2	929
5	TraesCS3B01G372400	chr7A	735987065	735991904	4839	True	936.0	1563	96.4005	1	931	2	chr7A.!!$R1	930
6	TraesCS3B01G372400	chr1A	79115365	79116294	929	False	1546.0	1546	96.6670	1	930	1	chr1A.!!$F1	929
7	TraesCS3B01G372400	chr3D	566132742	566133676	934	True	1544.0	1544	96.4740	1	936	1	chr3D.!!$R3	935
8	TraesCS3B01G372400	chr3D	446108929	446110101	1172	True	1528.0	1528	90.3910	949	2107	1	chr3D.!!$R2	1158
9	TraesCS3B01G372400	chr3D	446190151	446191779	1628	True	913.0	1423	86.3710	931	2619	2	chr3D.!!$R4	1688
10	TraesCS3B01G372400	chr3D	446074752	446075596	844	True	911.0	911	86.5120	949	1785	1	chr3D.!!$R1	836
11	TraesCS3B01G372400	chr1B	22955104	22956030	926	False	1526.0	1526	96.3440	1	930	1	chr1B.!!$F1	929
12	TraesCS3B01G372400	chr3A	587905241	587906306	1065	True	1382.0	1382	90.2890	950	2004	1	chr3A.!!$R2	1054
13	TraesCS3B01G372400	chr3A	587883918	587884712	794	True	872.0	872	86.9140	1000	1785	1	chr3A.!!$R1	785
14	TraesCS3B01G372400	chr3A	587965090	587966500	1410	True	811.5	1447	89.6765	931	2601	2	chr3A.!!$R3	1670
15	TraesCS3B01G372400	chr5A	632437276	632438196	920	True	1435.0	1435	94.6520	1	933	1	chr5A.!!$R1	932
16	TraesCS3B01G372400	chr4B	473841977	473842904	927	False	1179.0	1179	89.5920	1	930	1	chr4B.!!$F1	929

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
959	4875	0.108186	CCGACCAATCAGCTACAGCA	60.108	55.0	3.7	0.0	45.16	4.41	F

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability	Orientation
2516	6514	1.002502	GGGTAGTGGTGTTCCAGGC	60.003	63.158	0.0	0.0	45.24	4.85	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
132	4044	0.809385	AGTAGTCACCGACGGTCATG	59.191	55.000	18.72	6.60	37.67	3.07
256	4168	3.740128	GATCTGGGGCGCATGACGT	62.740	63.158	10.83	0.00	46.11	4.34
298	4210	5.271598	AGATAGAGCCATAGATCCAAGAGG	58.728	45.833	0.00	0.00	0.00	3.69
429	4341	2.591715	AACAGCTCGCGCCAGTTT	60.592	55.556	0.00	0.00	32.93	2.66
763	4677	6.109156	TGTAATGTAATATGATCGGGCTGT	57.891	37.500	0.00	0.00	0.00	4.40
776	4690	1.318576	GGGCTGTTAAAGTGCACACT	58.681	50.000	21.04	7.82	44.94	3.55
876	4792	9.216148	ACCTTATATGGTAACCAACTATACACA	57.784	33.333	8.51	0.00	38.79	3.72
917	4833	2.300723	CGATCCGGTTGGGGATACATAA	59.699	50.000	0.00	0.00	46.75	1.90
945	4861	2.185310	AACACTCATCCAGCCCGACC	62.185	60.000	0.00	0.00	0.00	4.79
947	4863	1.918293	ACTCATCCAGCCCGACCAA	60.918	57.895	0.00	0.00	0.00	3.67
956	4872	1.220749	GCCCGACCAATCAGCTACA	59.779	57.895	0.00	0.00	0.00	2.74
959	4875	0.108186	CCGACCAATCAGCTACAGCA	60.108	55.000	3.70	0.00	45.16	4.41
966	4882	1.407936	ATCAGCTACAGCATCTCCGT	58.592	50.000	3.70	0.00	45.16	4.69
967	4883	0.741326	TCAGCTACAGCATCTCCGTC	59.259	55.000	3.70	0.00	45.16	4.79
968	4884	0.743688	CAGCTACAGCATCTCCGTCT	59.256	55.000	3.70	0.00	45.16	4.18
969	4885	1.028905	AGCTACAGCATCTCCGTCTC	58.971	55.000	3.70	0.00	45.16	3.36
980	4896	0.967887	CTCCGTCTCCAGCTCCTTCA	60.968	60.000	0.00	0.00	0.00	3.02
984	4900	0.980423	GTCTCCAGCTCCTTCAACCT	59.020	55.000	0.00	0.00	0.00	3.50
998	4928	3.710326	TCAACCTTGATCGATACTCCG	57.290	47.619	0.00	0.00	31.01	4.63
1147	5080	0.464735	CAAGGGGTTCACGGTGTTCA	60.465	55.000	8.17	0.00	0.00	3.18
1149	5082	0.476771	AGGGGTTCACGGTGTTCAAT	59.523	50.000	8.17	0.00	0.00	2.57
1150	5083	1.700739	AGGGGTTCACGGTGTTCAATA	59.299	47.619	8.17	0.00	0.00	1.90
1331	5264	0.031043	CGTCCCGTGTACACAGTCAA	59.969	55.000	24.98	3.40	0.00	3.18
1575	5520	2.959071	GTGGCGCTCGAGCAGATC	60.959	66.667	34.69	20.60	42.21	2.75
1648	5610	4.503767	TGTTTGTTTGTTACGTCTCGAC	57.496	40.909	0.00	0.00	0.00	4.20
1728	5699	0.179100	ATTGTGATGGCGAGAGTCGG	60.179	55.000	0.00	0.00	40.84	4.79
1735	5706	2.328639	GCGAGAGTCGGTCGATCC	59.671	66.667	6.01	0.00	40.84	3.36
1748	5719	3.118454	GATCCGTGTGTGTGGGCG	61.118	66.667	0.00	0.00	0.00	6.13
1789	5762	2.955660	TCGATGATGCCCCCAAAATTAC	59.044	45.455	0.00	0.00	0.00	1.89
1793	5766	2.291282	TGATGCCCCCAAAATTACGAGT	60.291	45.455	0.00	0.00	0.00	4.18
1845	5818	1.337821	CTACTGCGTTTCTGTCGGTC	58.662	55.000	0.00	0.00	0.00	4.79
1875	5848	9.759473	ATATTCTTTGAATTCTTGAAGAAGGGA	57.241	29.630	23.49	16.75	40.30	4.20
1880	5853	7.687941	TTGAATTCTTGAAGAAGGGATGTAC	57.312	36.000	13.56	0.00	37.69	2.90
1886	5859	6.640518	TCTTGAAGAAGGGATGTACATGTAC	58.359	40.000	25.99	25.99	36.63	2.90
2005	5996	7.970614	GTGTTGTCTTTGATCTTCTTTCAAACT	59.029	33.333	0.00	0.00	37.97	2.66
2012	6003	9.884465	CTTTGATCTTCTTTCAAACTTTCGTAT	57.116	29.630	0.00	0.00	37.97	3.06
2041	6032	0.306533	TTCGTGGCTTGCGAGTTTTC	59.693	50.000	2.14	0.00	39.61	2.29
2073	6064	3.467374	TTTTTGGGCAAAAGAATCGCT	57.533	38.095	0.00	0.00	40.83	4.93
2117	6112	4.963878	GGAATCGCCCATGTGACT	57.036	55.556	0.00	0.00	32.92	3.41
2226	6224	2.799562	GCTTGGCAGTTCAGGTTTTCAC	60.800	50.000	0.00	0.00	0.00	3.18
2227	6225	2.435372	TGGCAGTTCAGGTTTTCACT	57.565	45.000	0.00	0.00	0.00	3.41
2236	6234	2.960384	TCAGGTTTTCACTAGTCGGACA	59.040	45.455	11.27	0.00	0.00	4.02
2247	6245	4.158025	CACTAGTCGGACAGTAGGTTCATT	59.842	45.833	11.27	0.00	32.72	2.57
2253	6251	3.435671	CGGACAGTAGGTTCATTTGGTTC	59.564	47.826	0.00	0.00	0.00	3.62
2254	6252	4.394729	GGACAGTAGGTTCATTTGGTTCA	58.605	43.478	0.00	0.00	0.00	3.18
2259	6257	3.302365	AGGTTCATTTGGTTCAATGCG	57.698	42.857	0.00	0.00	0.00	4.73
2267	6265	3.296322	TTGGTTCAATGCGGATTCAAC	57.704	42.857	7.88	7.88	0.00	3.18
2268	6266	2.234143	TGGTTCAATGCGGATTCAACA	58.766	42.857	17.39	5.46	24.48	3.33
2297	6295	9.919348	CAATTTTGTTTTGCATATAATGTAGCC	57.081	29.630	0.00	0.00	0.00	3.93
2309	6307	9.401058	GCATATAATGTAGCCCAGATAGAAATT	57.599	33.333	0.00	0.00	0.00	1.82
2337	6335	7.896894	TGTTTAATACGGAAAACAAAACAAGC	58.103	30.769	0.00	0.00	41.34	4.01
2338	6336	7.010275	TGTTTAATACGGAAAACAAAACAAGCC	59.990	33.333	0.00	0.00	41.34	4.35
2339	6337	4.929819	ATACGGAAAACAAAACAAGCCT	57.070	36.364	0.00	0.00	0.00	4.58
2340	6338	6.394025	AATACGGAAAACAAAACAAGCCTA	57.606	33.333	0.00	0.00	0.00	3.93
2341	6339	4.301637	ACGGAAAACAAAACAAGCCTAG	57.698	40.909	0.00	0.00	0.00	3.02
2342	6340	3.049912	CGGAAAACAAAACAAGCCTAGC	58.950	45.455	0.00	0.00	0.00	3.42
2343	6341	3.243401	CGGAAAACAAAACAAGCCTAGCT	60.243	43.478	0.00	0.00	42.56	3.32
2352	6350	2.251818	ACAAGCCTAGCTCTCAGTTGA	58.748	47.619	0.00	0.00	38.25	3.18
2364	6362	2.642311	TCTCAGTTGACTATTGGGCCAA	59.358	45.455	23.33	23.33	0.00	4.52
2389	6387	2.365105	CCCCTCGGCCTCTAACCA	60.365	66.667	0.00	0.00	0.00	3.67
2391	6389	1.987855	CCCTCGGCCTCTAACCACA	60.988	63.158	0.00	0.00	0.00	4.17
2394	6392	1.065418	CCTCGGCCTCTAACCACAATT	60.065	52.381	0.00	0.00	0.00	2.32
2410	6408	3.377172	CACAATTACCTGGGTTCGATTCC	59.623	47.826	0.00	0.00	0.00	3.01
2430	6428	3.197766	TCCCTTGAGAAGCACGTGATTAT	59.802	43.478	20.45	17.35	0.00	1.28
2431	6429	3.310774	CCCTTGAGAAGCACGTGATTATG	59.689	47.826	19.42	4.20	0.00	1.90
2435	6433	5.530519	TGAGAAGCACGTGATTATGAAAC	57.469	39.130	19.42	5.46	0.00	2.78
2440	6438	4.569943	AGCACGTGATTATGAAACTGTCT	58.430	39.130	22.23	0.00	0.00	3.41
2441	6439	4.389992	AGCACGTGATTATGAAACTGTCTG	59.610	41.667	22.23	0.00	0.00	3.51
2455	6453	9.899226	ATGAAACTGTCTGATTAGCTTAAAAAC	57.101	29.630	0.00	0.00	0.00	2.43
2461	6459	6.945435	TGTCTGATTAGCTTAAAAACCCATCA	59.055	34.615	0.00	0.00	0.00	3.07
2472	6470	3.593442	AAACCCATCAAGACAAGACCA	57.407	42.857	0.00	0.00	0.00	4.02
2516	6514	3.003378	TCGCATTATGTCGTGGACTCTAG	59.997	47.826	8.35	0.00	33.15	2.43
2534	6532	1.002502	GCCTGGAACACCACTACCC	60.003	63.158	0.00	0.00	0.00	3.69
2535	6533	1.683441	CCTGGAACACCACTACCCC	59.317	63.158	0.00	0.00	0.00	4.95
2583	6581	5.067805	GGAATAAACATGGCCACCTTTAGAG	59.932	44.000	8.16	0.00	0.00	2.43
2601	6599	3.798202	AGAGCAGAAAGAACAACGACTT	58.202	40.909	0.00	0.00	0.00	3.01
2606	6604	5.049405	AGCAGAAAGAACAACGACTTATTGG	60.049	40.000	0.00	0.00	0.00	3.16

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
60	3972	0.392863	TGGATGTTGGCCAGACGATG	60.393	55.000	5.11	0.00	0.00	3.84
298	4210	1.799121	GCGACGACTACACGGTTCC	60.799	63.158	0.00	0.00	37.61	3.62
429	4341	1.116536	TGACCGCCTCCAACTACACA	61.117	55.000	0.00	0.00	0.00	3.72
776	4690	9.948964	ATATACCAATCAATGAGATCAATCGAA	57.051	29.630	0.00	0.00	35.39	3.71
875	4791	4.084276	TCGACCACGTGTTGTAATTGATTG	60.084	41.667	15.65	0.00	40.69	2.67
876	4792	4.059511	TCGACCACGTGTTGTAATTGATT	58.940	39.130	15.65	0.00	40.69	2.57
917	4833	5.128919	GGCTGGATGAGTGTTAGATGATTT	58.871	41.667	0.00	0.00	0.00	2.17
945	4861	2.133553	CGGAGATGCTGTAGCTGATTG	58.866	52.381	5.38	0.00	42.66	2.67
947	4863	1.339610	GACGGAGATGCTGTAGCTGAT	59.660	52.381	5.38	0.00	42.66	2.90
956	4872	1.381056	AGCTGGAGACGGAGATGCT	60.381	57.895	0.00	0.00	39.98	3.79
959	4875	0.032615	AAGGAGCTGGAGACGGAGAT	60.033	55.000	0.00	0.00	39.98	2.75
966	4882	1.349026	CAAGGTTGAAGGAGCTGGAGA	59.651	52.381	0.00	0.00	0.00	3.71
967	4883	1.349026	TCAAGGTTGAAGGAGCTGGAG	59.651	52.381	0.00	0.00	33.55	3.86
968	4884	1.434188	TCAAGGTTGAAGGAGCTGGA	58.566	50.000	0.00	0.00	33.55	3.86
969	4885	2.363683	GATCAAGGTTGAAGGAGCTGG	58.636	52.381	0.00	0.00	41.13	4.85
980	4896	1.754803	TGCGGAGTATCGATCAAGGTT	59.245	47.619	0.00	0.00	34.37	3.50
984	4900	1.605457	GCCATGCGGAGTATCGATCAA	60.605	52.381	0.00	0.00	34.37	2.57
1086	5019	2.657296	CACACCGTGAGCGTCGTT	60.657	61.111	5.28	0.00	35.23	3.85
1095	5028	4.012895	GACTTGCGCCACACCGTG	62.013	66.667	4.18	0.00	0.00	4.94
1147	5080	0.614697	GCCAGGTTGCCCTTGGTATT	60.615	55.000	3.99	0.00	39.89	1.89
1149	5082	2.438795	GCCAGGTTGCCCTTGGTA	59.561	61.111	3.99	0.00	39.89	3.25
1150	5083	4.621087	GGCCAGGTTGCCCTTGGT	62.621	66.667	0.00	0.00	46.11	3.67
1314	5247	0.032952	GCTTGACTGTGTACACGGGA	59.967	55.000	32.69	19.29	41.89	5.14
1404	5349	2.682494	GCGTAGGACCCCTCCACA	60.682	66.667	0.00	0.00	39.39	4.17
1475	5420	4.796231	CGACCACCTCCTTCGGCG	62.796	72.222	0.00	0.00	0.00	6.46
1684	5653	1.075151	TCCAACCCAACCCCAAACC	60.075	57.895	0.00	0.00	0.00	3.27
1728	5699	1.736645	CCCACACACACGGATCGAC	60.737	63.158	0.00	0.00	0.00	4.20
1735	5706	3.337889	CTCACGCCCACACACACG	61.338	66.667	0.00	0.00	0.00	4.49
1748	5719	0.108424	ACAGATCGGCTTGCTCTCAC	60.108	55.000	0.00	0.00	0.00	3.51
1914	5887	7.170320	TGAGAACCGTATACAAAAGAACTGTTC	59.830	37.037	12.54	12.54	36.75	3.18
2005	5996	8.373048	AGCCACGAAATATGAATTATACGAAA	57.627	30.769	0.00	0.00	0.00	3.46
2012	6003	4.572795	TCGCAAGCCACGAAATATGAATTA	59.427	37.500	0.00	0.00	36.44	1.40
2041	6032	9.311916	TCTTTTGCCCAAAAATCAAATATATCG	57.688	29.630	7.50	0.00	39.49	2.92
2057	6048	1.838112	ATGAGCGATTCTTTTGCCCA	58.162	45.000	0.00	0.00	35.03	5.36
2059	6050	6.892310	AAAAATATGAGCGATTCTTTTGCC	57.108	33.333	0.00	0.00	35.03	4.52
2107	6102	7.963361	ATGTCTAGATCTCTCTAGTCACATGGG	60.963	44.444	0.00	0.00	46.07	4.00
2108	6103	6.942005	ATGTCTAGATCTCTCTAGTCACATGG	59.058	42.308	0.00	0.00	46.07	3.66
2109	6104	7.809665	CATGTCTAGATCTCTCTAGTCACATG	58.190	42.308	19.34	19.34	46.86	3.21
2110	6105	6.942005	CCATGTCTAGATCTCTCTAGTCACAT	59.058	42.308	0.00	9.88	46.07	3.21
2111	6106	6.100424	TCCATGTCTAGATCTCTCTAGTCACA	59.900	42.308	0.00	8.43	46.07	3.58
2112	6107	6.426937	GTCCATGTCTAGATCTCTCTAGTCAC	59.573	46.154	0.00	4.08	46.07	3.67
2116	6111	9.330578	AGGGTGTCCATGTCTAGATCTCTCTAG	62.331	48.148	0.00	3.71	42.69	2.43
2117	6112	5.456907	GGGTGTCCATGTCTAGATCTCTCTA	60.457	48.000	0.00	0.00	32.66	2.43
2156	6151	7.376615	AGTAGTTATACATTCGATGGTAAGCC	58.623	38.462	1.44	0.00	34.07	4.35
2170	6166	8.124823	CCGAAAACTATGACGAGTAGTTATACA	58.875	37.037	10.55	0.00	40.49	2.29
2171	6167	8.338259	TCCGAAAACTATGACGAGTAGTTATAC	58.662	37.037	10.55	6.42	40.49	1.47
2172	6168	8.338259	GTCCGAAAACTATGACGAGTAGTTATA	58.662	37.037	10.55	0.00	40.49	0.98
2226	6224	4.985538	AATGAACCTACTGTCCGACTAG	57.014	45.455	0.00	0.00	0.00	2.57
2227	6225	4.081862	CCAAATGAACCTACTGTCCGACTA	60.082	45.833	0.00	0.00	0.00	2.59
2236	6234	4.082787	CGCATTGAACCAAATGAACCTACT	60.083	41.667	1.22	0.00	39.46	2.57
2247	6245	2.625314	TGTTGAATCCGCATTGAACCAA	59.375	40.909	0.00	0.00	35.78	3.67
2253	6251	6.890663	AAATTGTATGTTGAATCCGCATTG	57.109	33.333	0.00	0.00	0.00	2.82
2254	6252	6.873076	ACAAAATTGTATGTTGAATCCGCATT	59.127	30.769	0.00	0.00	40.16	3.56
2259	6257	8.341173	TGCAAAACAAAATTGTATGTTGAATCC	58.659	29.630	15.68	4.78	41.31	3.01
2288	6286	9.474313	ACAAAAATTTCTATCTGGGCTACATTA	57.526	29.630	0.00	0.00	0.00	1.90
2321	6319	3.049912	GCTAGGCTTGTTTTGTTTTCCG	58.950	45.455	0.00	0.00	0.00	4.30
2332	6330	2.028567	GTCAACTGAGAGCTAGGCTTGT	60.029	50.000	0.00	0.00	39.88	3.16
2333	6331	2.233431	AGTCAACTGAGAGCTAGGCTTG	59.767	50.000	0.00	0.00	39.88	4.01
2335	6333	2.230130	AGTCAACTGAGAGCTAGGCT	57.770	50.000	0.00	0.00	43.88	4.58
2336	6334	4.367450	CAATAGTCAACTGAGAGCTAGGC	58.633	47.826	0.00	0.00	0.00	3.93
2337	6335	4.202202	CCCAATAGTCAACTGAGAGCTAGG	60.202	50.000	0.00	0.00	0.00	3.02
2338	6336	4.739137	GCCCAATAGTCAACTGAGAGCTAG	60.739	50.000	0.00	0.00	0.00	3.42
2339	6337	3.133003	GCCCAATAGTCAACTGAGAGCTA	59.867	47.826	0.00	0.00	0.00	3.32
2340	6338	2.093235	GCCCAATAGTCAACTGAGAGCT	60.093	50.000	0.00	0.00	0.00	4.09
2341	6339	2.284190	GCCCAATAGTCAACTGAGAGC	58.716	52.381	0.00	0.00	0.00	4.09
2342	6340	2.237143	TGGCCCAATAGTCAACTGAGAG	59.763	50.000	0.00	0.00	0.00	3.20
2343	6341	2.265367	TGGCCCAATAGTCAACTGAGA	58.735	47.619	0.00	0.00	0.00	3.27
2352	6350	3.096852	GGCTTAAACTTGGCCCAATAGT	58.903	45.455	0.00	0.00	39.96	2.12
2389	6387	3.617284	GGAATCGAACCCAGGTAATTGT	58.383	45.455	0.00	0.00	0.00	2.71
2391	6389	3.292492	GGGAATCGAACCCAGGTAATT	57.708	47.619	21.26	0.00	46.05	1.40
2410	6408	4.183865	TCATAATCACGTGCTTCTCAAGG	58.816	43.478	11.67	0.00	0.00	3.61
2430	6428	8.349983	GGTTTTTAAGCTAATCAGACAGTTTCA	58.650	33.333	0.00	0.00	0.00	2.69
2431	6429	7.808381	GGGTTTTTAAGCTAATCAGACAGTTTC	59.192	37.037	0.00	0.00	0.00	2.78
2435	6433	6.817765	TGGGTTTTTAAGCTAATCAGACAG	57.182	37.500	0.00	0.00	0.00	3.51
2440	6438	7.450014	TGTCTTGATGGGTTTTTAAGCTAATCA	59.550	33.333	0.00	0.00	33.43	2.57
2441	6439	7.826690	TGTCTTGATGGGTTTTTAAGCTAATC	58.173	34.615	0.00	0.00	0.00	1.75
2450	6448	4.099419	GTGGTCTTGTCTTGATGGGTTTTT	59.901	41.667	0.00	0.00	0.00	1.94
2455	6453	2.816087	CAAGTGGTCTTGTCTTGATGGG	59.184	50.000	0.00	0.00	44.09	4.00
2516	6514	1.002502	GGGTAGTGGTGTTCCAGGC	60.003	63.158	0.00	0.00	45.24	4.85
2534	6532	1.145738	AGCCATGTTGCTATAAGGGGG	59.854	52.381	0.00	0.00	40.56	5.40
2535	6533	2.233271	CAGCCATGTTGCTATAAGGGG	58.767	52.381	0.00	0.00	40.32	4.79
2583	6581	5.049680	TCCAATAAGTCGTTGTTCTTTCTGC	60.050	40.000	0.00	0.00	0.00	4.26
2601	6599	2.128771	GCTGTTGGCCTTCTCCAATA	57.871	50.000	3.32	0.00	46.64	1.90

Based at the University of Bristol with support from BBSRC.

AutoCloner maintained by Alex Coulton.