AutoCloner

Multiple sequence alignment - TraesCS6D01G084100

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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	TraesCS6D01G084100	chr6D	100.000	2433	0	0	1	2433	48970070	48972502	0.000000e+00	4494
1	TraesCS6D01G084100	chr6D	92.484	2315	106	32	1	2275	37478909	37481195	0.000000e+00	3249
2	TraesCS6D01G084100	chr6D	89.260	689	30	19	1614	2275	9802238	9801567	0.000000e+00	822
3	TraesCS6D01G084100	chr2D	92.894	2308	121	28	1	2275	40405282	40402985	0.000000e+00	3314
4	TraesCS6D01G084100	chr2D	91.751	994	39	16	1309	2275	599579017	599579994	0.000000e+00	1341
5	TraesCS6D01G084100	chr2D	98.113	159	3	0	2275	2433	323471102	323471260	6.630000e-71	278
6	TraesCS6D01G084100	chr2D	98.113	159	3	0	2275	2433	368448956	368449114	6.630000e-71	278
7	TraesCS6D01G084100	chr7D	92.938	2308	94	28	1	2275	117569258	117571529	0.000000e+00	3295
8	TraesCS6D01G084100	chr7D	92.364	2305	125	28	1	2275	584364733	584362450	0.000000e+00	3234
9	TraesCS6D01G084100	chr7D	93.418	2036	118	14	1	2025	473126817	473124787	0.000000e+00	3003
10	TraesCS6D01G084100	chr7D	92.708	1632	76	18	670	2275	607287699	607289313	0.000000e+00	2314
11	TraesCS6D01G084100	chr7D	99.367	158	0	1	2276	2433	345453494	345453338	3.960000e-73	285
12	TraesCS6D01G084100	chr1B	92.755	2305	123	26	1	2275	592832944	592830654	0.000000e+00	3291
13	TraesCS6D01G084100	chr1B	92.628	2306	129	21	1	2275	452116840	452119135	0.000000e+00	3278
14	TraesCS6D01G084100	chr6A	92.401	2303	141	17	1	2275	268358038	268360334	0.000000e+00	3253
15	TraesCS6D01G084100	chr6A	92.314	2303	132	20	1	2275	152264929	152267214	0.000000e+00	3230
16	TraesCS6D01G084100	chr4A	92.395	2301	137	20	1	2275	431592178	431594466	0.000000e+00	3245
17	TraesCS6D01G084100	chr3A	92.112	2320	120	31	1	2272	99974789	99977093	0.000000e+00	3212
18	TraesCS6D01G084100	chr2A	92.538	2238	115	26	1	2209	543043207	543040993	0.000000e+00	3160
19	TraesCS6D01G084100	chr2A	92.531	2236	116	26	1	2209	543056993	543054782	0.000000e+00	3157
20	TraesCS6D01G084100	chr3D	92.110	1673	80	20	643	2275	299047188	299048848	0.000000e+00	2311
21	TraesCS6D01G084100	chr1A	90.263	380	9	11	1923	2275	338112196	338111818	2.830000e-129	472
22	TraesCS6D01G084100	chr4D	98.734	158	2	0	2276	2433	48253086	48253243	5.120000e-72	281
23	TraesCS6D01G084100	chr4D	98.101	158	3	0	2276	2433	84951329	84951486	2.380000e-70	276
24	TraesCS6D01G084100	chr4D	98.101	158	3	0	2276	2433	463850952	463850795	2.380000e-70	276
25	TraesCS6D01G084100	chr4D	98.101	158	3	0	2276	2433	494404309	494404152	2.380000e-70	276
26	TraesCS6D01G084100	chr2B	98.742	159	1	1	2276	2433	666573739	666573581	5.120000e-72	281
27	TraesCS6D01G084100	chr1D	93.370	181	9	3	2255	2433	99033328	99033507	5.160000e-67	265

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	TraesCS6D01G084100	chr6D	48970070	48972502	2432	False	4494	4494	100.000	1	2433	1	chr6D.!!$F2	2432
1	TraesCS6D01G084100	chr6D	37478909	37481195	2286	False	3249	3249	92.484	1	2275	1	chr6D.!!$F1	2274
2	TraesCS6D01G084100	chr6D	9801567	9802238	671	True	822	822	89.260	1614	2275	1	chr6D.!!$R1	661
3	TraesCS6D01G084100	chr2D	40402985	40405282	2297	True	3314	3314	92.894	1	2275	1	chr2D.!!$R1	2274
4	TraesCS6D01G084100	chr2D	599579017	599579994	977	False	1341	1341	91.751	1309	2275	1	chr2D.!!$F3	966
5	TraesCS6D01G084100	chr7D	117569258	117571529	2271	False	3295	3295	92.938	1	2275	1	chr7D.!!$F1	2274
6	TraesCS6D01G084100	chr7D	584362450	584364733	2283	True	3234	3234	92.364	1	2275	1	chr7D.!!$R3	2274
7	TraesCS6D01G084100	chr7D	473124787	473126817	2030	True	3003	3003	93.418	1	2025	1	chr7D.!!$R2	2024
8	TraesCS6D01G084100	chr7D	607287699	607289313	1614	False	2314	2314	92.708	670	2275	1	chr7D.!!$F2	1605
9	TraesCS6D01G084100	chr1B	592830654	592832944	2290	True	3291	3291	92.755	1	2275	1	chr1B.!!$R1	2274
10	TraesCS6D01G084100	chr1B	452116840	452119135	2295	False	3278	3278	92.628	1	2275	1	chr1B.!!$F1	2274
11	TraesCS6D01G084100	chr6A	268358038	268360334	2296	False	3253	3253	92.401	1	2275	1	chr6A.!!$F2	2274
12	TraesCS6D01G084100	chr6A	152264929	152267214	2285	False	3230	3230	92.314	1	2275	1	chr6A.!!$F1	2274
13	TraesCS6D01G084100	chr4A	431592178	431594466	2288	False	3245	3245	92.395	1	2275	1	chr4A.!!$F1	2274
14	TraesCS6D01G084100	chr3A	99974789	99977093	2304	False	3212	3212	92.112	1	2272	1	chr3A.!!$F1	2271
15	TraesCS6D01G084100	chr2A	543040993	543043207	2214	True	3160	3160	92.538	1	2209	1	chr2A.!!$R1	2208
16	TraesCS6D01G084100	chr2A	543054782	543056993	2211	True	3157	3157	92.531	1	2209	1	chr2A.!!$R2	2208
17	TraesCS6D01G084100	chr3D	299047188	299048848	1660	False	2311	2311	92.110	643	2275	1	chr3D.!!$F1	1632

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
853	907	0.456142	CGATCCGCGAGACTTGTTGA	60.456	55.0	8.23	0.0	44.57	3.18	F

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability	Orientation
2371	2507	0.107831	TTTCTGGGTCGTGTGGGAAG	59.892	55.0	0.0	0.0	0.0	3.46	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
239	247	5.105392	TCACTTTGAAATCAAGCTTTGGTGT	60.105	36.000	0.00	0.00	37.15	4.16
574	598	7.377662	ACGAACGACAAAGGTTTCATATTTTTC	59.622	33.333	0.14	0.00	0.00	2.29
701	726	1.003223	CGTCAGCCGTACGATCATACA	60.003	52.381	18.76	0.00	42.90	2.29
813	838	1.819632	GGCTCCGCATCGTTGGATT	60.820	57.895	0.00	0.00	32.83	3.01
853	907	0.456142	CGATCCGCGAGACTTGTTGA	60.456	55.000	8.23	0.00	44.57	3.18
986	1048	2.093553	CCTCTGCTTCTTCTTCTCCAGG	60.094	54.545	0.00	0.00	0.00	4.45
987	1049	2.830923	CTCTGCTTCTTCTTCTCCAGGA	59.169	50.000	0.00	0.00	0.00	3.86
1003	1065	2.421388	CCAGGAACTTTGGGCGATATGA	60.421	50.000	0.00	0.00	34.60	2.15
1058	1120	2.403252	CAGTATGGTCCACTTCCCAC	57.597	55.000	0.00	0.00	32.49	4.61
1082	1144	1.679311	GATGTCCTGACTGCCCACA	59.321	57.895	0.00	0.00	0.00	4.17
1195	1257	5.009410	GGGCAGGTTAGATCTCATGATTTTG	59.991	44.000	0.00	0.00	32.19	2.44
1204	1266	7.499321	AGATCTCATGATTTTGCTCTGATTC	57.501	36.000	0.00	0.00	32.19	2.52
1363	1427	0.883814	GGGAGCTCAATCTGCCATCG	60.884	60.000	17.19	0.00	43.22	3.84
1364	1428	0.105593	GGAGCTCAATCTGCCATCGA	59.894	55.000	17.19	0.00	0.00	3.59
1456	1523	6.874288	AGAAGATGAACAAGAACTTGAAGG	57.126	37.500	19.35	0.00	42.93	3.46
1478	1545	5.126707	AGGAGATGATTCAATTGAACAAGCC	59.873	40.000	22.71	19.99	36.80	4.35
1628	1697	6.165577	GGTTAAATTTGTGGATCATGTGCTT	58.834	36.000	0.00	0.00	0.00	3.91
1810	1897	2.279918	AGACAACACCGACCGCAC	60.280	61.111	0.00	0.00	0.00	5.34
1848	1938	2.442413	TCTAGGGCCCAAATTGAAACG	58.558	47.619	27.56	0.00	0.00	3.60
1857	1947	2.982470	CCAAATTGAAACGAAGCTCTGC	59.018	45.455	0.00	0.00	0.00	4.26
2007	2097	6.641169	TTTATTGTTGGACTTGCACATGTA	57.359	33.333	0.00	0.00	0.00	2.29
2079	2194	8.308207	ACATGCGGGTATTATAAACAAGTTTTT	58.692	29.630	3.25	0.00	34.23	1.94
2275	2411	3.118811	GCACCATATCCATCTAGAGAGCC	60.119	52.174	0.00	0.00	0.00	4.70
2276	2412	4.092279	CACCATATCCATCTAGAGAGCCA	58.908	47.826	0.00	0.00	0.00	4.75
2277	2413	4.081752	CACCATATCCATCTAGAGAGCCAC	60.082	50.000	0.00	0.00	0.00	5.01
2278	2414	4.202770	ACCATATCCATCTAGAGAGCCACT	60.203	45.833	0.00	0.00	0.00	4.00
2279	2415	4.160065	CCATATCCATCTAGAGAGCCACTG	59.840	50.000	0.00	0.00	0.00	3.66
2280	2416	2.079170	TCCATCTAGAGAGCCACTGG	57.921	55.000	0.00	0.00	0.00	4.00
2281	2417	1.289231	TCCATCTAGAGAGCCACTGGT	59.711	52.381	0.00	0.00	0.00	4.00
2282	2418	1.411977	CCATCTAGAGAGCCACTGGTG	59.588	57.143	0.00	0.00	0.00	4.17
2283	2419	1.118838	ATCTAGAGAGCCACTGGTGC	58.881	55.000	0.00	0.00	0.00	5.01
2284	2420	1.140589	CTAGAGAGCCACTGGTGCG	59.859	63.158	0.00	0.00	0.00	5.34
2285	2421	2.897641	CTAGAGAGCCACTGGTGCGC	62.898	65.000	0.00	0.00	0.00	6.09
2296	2432	4.424566	GGTGCGCGTCGGTCCTAA	62.425	66.667	8.43	0.00	0.00	2.69
2297	2433	2.431260	GTGCGCGTCGGTCCTAAA	60.431	61.111	8.43	0.00	0.00	1.85
2298	2434	2.431260	TGCGCGTCGGTCCTAAAC	60.431	61.111	8.43	0.00	0.00	2.01
2299	2435	2.431260	GCGCGTCGGTCCTAAACA	60.431	61.111	8.43	0.00	0.00	2.83
2300	2436	2.023223	GCGCGTCGGTCCTAAACAA	61.023	57.895	8.43	0.00	0.00	2.83
2301	2437	1.559149	GCGCGTCGGTCCTAAACAAA	61.559	55.000	8.43	0.00	0.00	2.83
2302	2438	1.073177	CGCGTCGGTCCTAAACAAAT	58.927	50.000	0.00	0.00	0.00	2.32
2303	2439	1.201877	CGCGTCGGTCCTAAACAAATG	60.202	52.381	0.00	0.00	0.00	2.32
2304	2440	1.129811	GCGTCGGTCCTAAACAAATGG	59.870	52.381	0.00	0.00	0.00	3.16
2305	2441	2.419667	CGTCGGTCCTAAACAAATGGT	58.580	47.619	0.00	0.00	0.00	3.55
2306	2442	2.809696	CGTCGGTCCTAAACAAATGGTT	59.190	45.455	0.00	0.00	42.98	3.67
2322	2458	2.443887	GGTTTTTAACCCCTTTCCGC	57.556	50.000	0.00	0.00	46.12	5.54
2323	2459	1.336148	GGTTTTTAACCCCTTTCCGCG	60.336	52.381	0.00	0.00	46.12	6.46
2324	2460	1.608109	GTTTTTAACCCCTTTCCGCGA	59.392	47.619	8.23	0.00	0.00	5.87
2325	2461	1.237533	TTTTAACCCCTTTCCGCGAC	58.762	50.000	8.23	0.00	0.00	5.19
2326	2462	0.950071	TTTAACCCCTTTCCGCGACG	60.950	55.000	8.23	0.00	0.00	5.12
2336	2472	4.812476	CCGCGACGGCATCTGGAA	62.812	66.667	8.23	0.00	41.17	3.53
2337	2473	3.554692	CGCGACGGCATCTGGAAC	61.555	66.667	0.00	0.00	39.92	3.62
2338	2474	3.195698	GCGACGGCATCTGGAACC	61.196	66.667	0.00	0.00	39.62	3.62
2342	2478	2.885644	CGGCATCTGGAACCGTCG	60.886	66.667	7.10	0.00	42.01	5.12
2343	2479	3.195698	GGCATCTGGAACCGTCGC	61.196	66.667	0.00	0.00	0.00	5.19
2344	2480	3.195698	GCATCTGGAACCGTCGCC	61.196	66.667	0.00	0.00	0.00	5.54
2345	2481	2.264480	CATCTGGAACCGTCGCCA	59.736	61.111	0.00	0.00	0.00	5.69
2346	2482	1.375396	CATCTGGAACCGTCGCCAA	60.375	57.895	0.00	0.00	32.95	4.52
2347	2483	1.079127	ATCTGGAACCGTCGCCAAG	60.079	57.895	0.00	0.00	32.95	3.61
2348	2484	1.827399	ATCTGGAACCGTCGCCAAGT	61.827	55.000	0.00	0.00	32.95	3.16
2349	2485	2.280524	TGGAACCGTCGCCAAGTG	60.281	61.111	0.00	0.00	0.00	3.16
2350	2486	2.029964	GGAACCGTCGCCAAGTGA	59.970	61.111	0.00	0.00	0.00	3.41
2351	2487	2.027625	GGAACCGTCGCCAAGTGAG	61.028	63.158	0.00	0.00	0.00	3.51
2352	2488	1.300697	GAACCGTCGCCAAGTGAGT	60.301	57.895	0.00	0.00	0.00	3.41
2353	2489	1.557443	GAACCGTCGCCAAGTGAGTG	61.557	60.000	0.00	0.00	0.00	3.51
2354	2490	2.029073	CCGTCGCCAAGTGAGTGT	59.971	61.111	0.00	0.00	0.00	3.55
2355	2491	2.310233	CCGTCGCCAAGTGAGTGTG	61.310	63.158	0.00	0.00	0.00	3.82
2356	2492	2.310233	CGTCGCCAAGTGAGTGTGG	61.310	63.158	0.00	0.00	38.00	4.17
2357	2493	1.961277	GTCGCCAAGTGAGTGTGGG	60.961	63.158	0.00	0.00	35.28	4.61
2358	2494	3.357079	CGCCAAGTGAGTGTGGGC	61.357	66.667	0.00	0.00	41.20	5.36
2359	2495	3.357079	GCCAAGTGAGTGTGGGCG	61.357	66.667	0.00	0.00	35.28	6.13
2360	2496	2.425592	CCAAGTGAGTGTGGGCGA	59.574	61.111	0.00	0.00	0.00	5.54
2361	2497	1.003355	CCAAGTGAGTGTGGGCGAT	60.003	57.895	0.00	0.00	0.00	4.58
2362	2498	0.249120	CCAAGTGAGTGTGGGCGATA	59.751	55.000	0.00	0.00	0.00	2.92
2363	2499	1.645034	CAAGTGAGTGTGGGCGATAG	58.355	55.000	0.00	0.00	0.00	2.08
2364	2500	0.537188	AAGTGAGTGTGGGCGATAGG	59.463	55.000	0.00	0.00	0.00	2.57
2365	2501	1.144057	GTGAGTGTGGGCGATAGGG	59.856	63.158	0.00	0.00	0.00	3.53
2366	2502	2.063979	TGAGTGTGGGCGATAGGGG	61.064	63.158	0.00	0.00	0.00	4.79
2367	2503	2.768344	AGTGTGGGCGATAGGGGG	60.768	66.667	0.00	0.00	0.00	5.40
2384	2520	2.346365	GGTCCTTCCCACACGACC	59.654	66.667	0.00	0.00	38.18	4.79
2385	2521	2.346365	GTCCTTCCCACACGACCC	59.654	66.667	0.00	0.00	0.00	4.46
2386	2522	2.122769	TCCTTCCCACACGACCCA	60.123	61.111	0.00	0.00	0.00	4.51
2387	2523	2.214216	TCCTTCCCACACGACCCAG	61.214	63.158	0.00	0.00	0.00	4.45
2388	2524	2.214216	CCTTCCCACACGACCCAGA	61.214	63.158	0.00	0.00	0.00	3.86
2389	2525	1.752198	CTTCCCACACGACCCAGAA	59.248	57.895	0.00	0.00	0.00	3.02
2390	2526	0.107831	CTTCCCACACGACCCAGAAA	59.892	55.000	0.00	0.00	0.00	2.52
2391	2527	0.179040	TTCCCACACGACCCAGAAAC	60.179	55.000	0.00	0.00	0.00	2.78
2392	2528	1.599797	CCCACACGACCCAGAAACC	60.600	63.158	0.00	0.00	0.00	3.27
2393	2529	1.147376	CCACACGACCCAGAAACCA	59.853	57.895	0.00	0.00	0.00	3.67
2394	2530	0.250727	CCACACGACCCAGAAACCAT	60.251	55.000	0.00	0.00	0.00	3.55
2395	2531	1.156736	CACACGACCCAGAAACCATC	58.843	55.000	0.00	0.00	0.00	3.51
2396	2532	0.320421	ACACGACCCAGAAACCATCG	60.320	55.000	0.00	0.00	38.71	3.84
2397	2533	1.019278	CACGACCCAGAAACCATCGG	61.019	60.000	0.00	0.00	37.11	4.18
2398	2534	1.449601	CGACCCAGAAACCATCGGG	60.450	63.158	0.00	0.00	43.41	5.14
2404	2540	2.783135	CCAGAAACCATCGGGGATATG	58.217	52.381	0.84	0.00	39.50	1.78
2405	2541	2.154462	CAGAAACCATCGGGGATATGC	58.846	52.381	0.84	0.00	41.15	3.14
2406	2542	1.073923	AGAAACCATCGGGGATATGCC	59.926	52.381	4.31	4.31	41.15	4.40
2422	2558	3.941188	CCCTCCTGGCACACACGT	61.941	66.667	0.00	0.00	0.00	4.49
2423	2559	2.111043	CCTCCTGGCACACACGTT	59.889	61.111	0.00	0.00	0.00	3.99
2424	2560	1.961277	CCTCCTGGCACACACGTTC	60.961	63.158	0.00	0.00	0.00	3.95
2425	2561	2.279851	TCCTGGCACACACGTTCG	60.280	61.111	0.00	0.00	0.00	3.95
2426	2562	3.345808	CCTGGCACACACGTTCGG	61.346	66.667	0.00	0.00	0.00	4.30
2427	2563	4.012895	CTGGCACACACGTTCGGC	62.013	66.667	0.00	0.00	0.00	5.54
2428	2564	4.840005	TGGCACACACGTTCGGCA	62.840	61.111	0.00	0.00	0.00	5.69
2429	2565	3.578272	GGCACACACGTTCGGCAA	61.578	61.111	0.00	0.00	0.00	4.52
2430	2566	2.405594	GCACACACGTTCGGCAAA	59.594	55.556	0.00	0.00	0.00	3.68
2431	2567	1.226435	GCACACACGTTCGGCAAAA	60.226	52.632	0.00	0.00	0.00	2.44
2432	2568	0.593773	GCACACACGTTCGGCAAAAT	60.594	50.000	0.00	0.00	0.00	1.82

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
166	172	7.455641	TCCATTTTCATATGGTAAACGTGTT	57.544	32.000	2.13	0.00	44.48	3.32
619	644	1.305201	GTTTTGAGCTGGTCAACGGA	58.695	50.000	20.72	5.15	45.23	4.69
691	716	1.029681	TGGCGCTAGTGTATGATCGT	58.970	50.000	7.64	0.00	0.00	3.73
715	740	0.543749	AGACCACATCTAAGGGCTGC	59.456	55.000	0.00	0.00	43.20	5.25
723	748	8.915036	GGAATTACTTCTAGAAGACCACATCTA	58.085	37.037	33.94	13.82	40.79	1.98
853	907	1.614317	CGAAGAAAGGGGAGGCACAAT	60.614	52.381	0.00	0.00	0.00	2.71
986	1048	2.540101	CTCGTCATATCGCCCAAAGTTC	59.460	50.000	0.00	0.00	0.00	3.01
987	1049	2.550978	CTCGTCATATCGCCCAAAGTT	58.449	47.619	0.00	0.00	0.00	2.66
1003	1065	1.882989	GAGGCTGAAGTGGAGCTCGT	61.883	60.000	7.83	0.00	36.63	4.18
1058	1120	1.226802	CAGTCAGGACATCGCTCCG	60.227	63.158	1.84	0.00	35.20	4.63
1082	1144	2.092291	CGTATCAGTGGCGCGTTGT	61.092	57.895	8.43	0.00	0.00	3.32
1240	1303	5.291293	ACGAAAACATGAACCCTAAATCG	57.709	39.130	0.00	0.00	0.00	3.34
1291	1354	1.202417	ACGTAGTCATCCAGCCATTCG	60.202	52.381	0.00	0.00	29.74	3.34
1363	1427	4.272504	TCAGAGACCAAATTCGTTGTTGTC	59.727	41.667	0.00	0.00	35.23	3.18
1364	1428	4.196193	TCAGAGACCAAATTCGTTGTTGT	58.804	39.130	0.00	0.00	35.23	3.32
1456	1523	5.032863	CGGCTTGTTCAATTGAATCATCTC	58.967	41.667	23.05	10.22	36.33	2.75
1478	1545	2.989840	CCTAAAGCTATCAGATTCGCCG	59.010	50.000	0.00	0.00	0.00	6.46
1751	1829	6.539324	TGAAAGTGTACAAAACTGACGAAAG	58.461	36.000	0.00	0.00	0.00	2.62
1848	1938	3.130160	CGGCCCAAGCAGAGCTTC	61.130	66.667	0.00	0.00	46.77	3.86
1857	1947	1.033746	ATGCAATGAGACGGCCCAAG	61.034	55.000	0.00	0.00	0.00	3.61
2279	2415	3.919973	TTTAGGACCGACGCGCACC	62.920	63.158	5.73	2.46	0.00	5.01
2280	2416	2.431260	TTTAGGACCGACGCGCAC	60.431	61.111	5.73	0.00	0.00	5.34
2281	2417	2.431260	GTTTAGGACCGACGCGCA	60.431	61.111	5.73	0.00	0.00	6.09
2282	2418	1.559149	TTTGTTTAGGACCGACGCGC	61.559	55.000	5.73	0.00	0.00	6.86
2283	2419	1.073177	ATTTGTTTAGGACCGACGCG	58.927	50.000	3.53	3.53	0.00	6.01
2284	2420	1.129811	CCATTTGTTTAGGACCGACGC	59.870	52.381	0.00	0.00	0.00	5.19
2285	2421	2.419667	ACCATTTGTTTAGGACCGACG	58.580	47.619	0.00	0.00	0.00	5.12
2286	2422	4.841443	AAACCATTTGTTTAGGACCGAC	57.159	40.909	0.00	0.00	45.28	4.79
2287	2423	5.855740	AAAAACCATTTGTTTAGGACCGA	57.144	34.783	0.00	0.00	46.39	4.69
2288	2424	7.397512	GTTAAAAACCATTTGTTTAGGACCG	57.602	36.000	0.00	0.00	46.39	4.79
2304	2440	1.608109	TCGCGGAAAGGGGTTAAAAAC	59.392	47.619	6.13	0.00	0.00	2.43
2305	2441	1.608109	GTCGCGGAAAGGGGTTAAAAA	59.392	47.619	6.13	0.00	0.00	1.94
2306	2442	1.237533	GTCGCGGAAAGGGGTTAAAA	58.762	50.000	6.13	0.00	0.00	1.52
2307	2443	0.950071	CGTCGCGGAAAGGGGTTAAA	60.950	55.000	6.13	0.00	0.00	1.52
2308	2444	1.374505	CGTCGCGGAAAGGGGTTAA	60.375	57.895	6.13	0.00	0.00	2.01
2309	2445	2.262292	CGTCGCGGAAAGGGGTTA	59.738	61.111	6.13	0.00	0.00	2.85
2320	2456	3.554692	GTTCCAGATGCCGTCGCG	61.555	66.667	0.00	0.00	38.08	5.87
2321	2457	3.195698	GGTTCCAGATGCCGTCGC	61.196	66.667	0.00	0.00	0.00	5.19
2322	2458	2.885644	CGGTTCCAGATGCCGTCG	60.886	66.667	0.00	0.00	40.53	5.12
2326	2462	3.195698	GCGACGGTTCCAGATGCC	61.196	66.667	0.00	0.00	0.00	4.40
2327	2463	3.195698	GGCGACGGTTCCAGATGC	61.196	66.667	0.00	0.00	0.00	3.91
2328	2464	1.361668	CTTGGCGACGGTTCCAGATG	61.362	60.000	0.00	0.00	33.32	2.90
2329	2465	1.079127	CTTGGCGACGGTTCCAGAT	60.079	57.895	0.00	0.00	33.32	2.90
2330	2466	2.342279	CTTGGCGACGGTTCCAGA	59.658	61.111	0.00	0.00	33.32	3.86
2331	2467	2.030562	ACTTGGCGACGGTTCCAG	59.969	61.111	0.00	0.00	33.32	3.86
2332	2468	2.280524	CACTTGGCGACGGTTCCA	60.281	61.111	0.00	0.00	0.00	3.53
2333	2469	2.027625	CTCACTTGGCGACGGTTCC	61.028	63.158	0.00	0.00	0.00	3.62
2334	2470	1.300697	ACTCACTTGGCGACGGTTC	60.301	57.895	0.00	0.00	0.00	3.62
2335	2471	1.594293	CACTCACTTGGCGACGGTT	60.594	57.895	0.00	0.00	0.00	4.44
2336	2472	2.029073	CACTCACTTGGCGACGGT	59.971	61.111	0.00	0.00	0.00	4.83
2337	2473	2.029073	ACACTCACTTGGCGACGG	59.971	61.111	0.00	0.00	0.00	4.79
2338	2474	2.310233	CCACACTCACTTGGCGACG	61.310	63.158	0.00	0.00	0.00	5.12
2339	2475	1.961277	CCCACACTCACTTGGCGAC	60.961	63.158	0.00	0.00	0.00	5.19
2340	2476	2.425592	CCCACACTCACTTGGCGA	59.574	61.111	0.00	0.00	0.00	5.54
2341	2477	3.357079	GCCCACACTCACTTGGCG	61.357	66.667	0.00	0.00	31.55	5.69
2342	2478	3.357079	CGCCCACACTCACTTGGC	61.357	66.667	0.00	0.00	38.74	4.52
2343	2479	0.249120	TATCGCCCACACTCACTTGG	59.751	55.000	0.00	0.00	0.00	3.61
2344	2480	1.645034	CTATCGCCCACACTCACTTG	58.355	55.000	0.00	0.00	0.00	3.16
2345	2481	0.537188	CCTATCGCCCACACTCACTT	59.463	55.000	0.00	0.00	0.00	3.16
2346	2482	1.330655	CCCTATCGCCCACACTCACT	61.331	60.000	0.00	0.00	0.00	3.41
2347	2483	1.144057	CCCTATCGCCCACACTCAC	59.856	63.158	0.00	0.00	0.00	3.51
2348	2484	2.063979	CCCCTATCGCCCACACTCA	61.064	63.158	0.00	0.00	0.00	3.41
2349	2485	2.808206	CCCCCTATCGCCCACACTC	61.808	68.421	0.00	0.00	0.00	3.51
2350	2486	2.768344	CCCCCTATCGCCCACACT	60.768	66.667	0.00	0.00	0.00	3.55
2367	2503	2.346365	GGTCGTGTGGGAAGGACC	59.654	66.667	0.78	0.78	45.07	4.46
2368	2504	2.346365	GGGTCGTGTGGGAAGGAC	59.654	66.667	0.00	0.00	34.86	3.85
2369	2505	2.122769	TGGGTCGTGTGGGAAGGA	60.123	61.111	0.00	0.00	0.00	3.36
2370	2506	1.764571	TTCTGGGTCGTGTGGGAAGG	61.765	60.000	0.00	0.00	0.00	3.46
2371	2507	0.107831	TTTCTGGGTCGTGTGGGAAG	59.892	55.000	0.00	0.00	0.00	3.46
2372	2508	0.179040	GTTTCTGGGTCGTGTGGGAA	60.179	55.000	0.00	0.00	0.00	3.97
2373	2509	1.448497	GTTTCTGGGTCGTGTGGGA	59.552	57.895	0.00	0.00	0.00	4.37
2374	2510	1.599797	GGTTTCTGGGTCGTGTGGG	60.600	63.158	0.00	0.00	0.00	4.61
2375	2511	0.250727	ATGGTTTCTGGGTCGTGTGG	60.251	55.000	0.00	0.00	0.00	4.17
2376	2512	1.156736	GATGGTTTCTGGGTCGTGTG	58.843	55.000	0.00	0.00	0.00	3.82
2377	2513	0.320421	CGATGGTTTCTGGGTCGTGT	60.320	55.000	0.00	0.00	0.00	4.49
2378	2514	1.019278	CCGATGGTTTCTGGGTCGTG	61.019	60.000	0.00	0.00	0.00	4.35
2379	2515	1.295423	CCGATGGTTTCTGGGTCGT	59.705	57.895	0.00	0.00	0.00	4.34
2380	2516	1.449601	CCCGATGGTTTCTGGGTCG	60.450	63.158	0.00	0.00	35.01	4.79
2381	2517	1.077716	CCCCGATGGTTTCTGGGTC	60.078	63.158	0.00	0.00	42.48	4.46
2382	2518	0.919289	ATCCCCGATGGTTTCTGGGT	60.919	55.000	2.57	0.00	46.38	4.51
2384	2520	2.783135	CATATCCCCGATGGTTTCTGG	58.217	52.381	0.00	0.00	34.77	3.86
2385	2521	2.154462	GCATATCCCCGATGGTTTCTG	58.846	52.381	0.00	0.00	34.77	3.02
2386	2522	1.073923	GGCATATCCCCGATGGTTTCT	59.926	52.381	0.00	0.00	34.77	2.52
2387	2523	1.534729	GGCATATCCCCGATGGTTTC	58.465	55.000	0.00	0.00	34.77	2.78
2388	2524	3.745723	GGCATATCCCCGATGGTTT	57.254	52.632	0.00	0.00	34.77	3.27
2405	2541	3.476031	AACGTGTGTGCCAGGAGGG	62.476	63.158	0.00	0.00	40.85	4.30
2406	2542	1.961277	GAACGTGTGTGCCAGGAGG	60.961	63.158	0.00	0.00	38.23	4.30
2407	2543	2.310233	CGAACGTGTGTGCCAGGAG	61.310	63.158	0.00	0.00	33.18	3.69
2408	2544	2.279851	CGAACGTGTGTGCCAGGA	60.280	61.111	0.00	0.00	33.18	3.86
2409	2545	3.345808	CCGAACGTGTGTGCCAGG	61.346	66.667	0.00	0.00	35.07	4.45
2410	2546	4.012895	GCCGAACGTGTGTGCCAG	62.013	66.667	0.00	0.00	0.00	4.85
2411	2547	4.840005	TGCCGAACGTGTGTGCCA	62.840	61.111	0.00	0.00	0.00	4.92
2412	2548	2.600122	TTTTGCCGAACGTGTGTGCC	62.600	55.000	0.00	0.00	0.00	5.01
2413	2549	0.593773	ATTTTGCCGAACGTGTGTGC	60.594	50.000	0.00	0.00	0.00	4.57
2414	2550	3.542825	ATTTTGCCGAACGTGTGTG	57.457	47.368	0.00	0.00	0.00	3.82

Based at the University of Bristol with support from BBSRC.

AutoCloner maintained by Alex Coulton.