AutoCloner

Multiple sequence alignment - TraesCS2A01G574900

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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	TraesCS2A01G574900	chr2A	100.000	2567	0	0	1	2567	769612685	769615251	0.000000e+00	4741.0
1	TraesCS2A01G574900	chr2A	97.365	1594	40	1	1	1594	596376300	596374709	0.000000e+00	2710.0
2	TraesCS2A01G574900	chr6A	97.690	1602	37	0	1	1602	510871920	510873521	0.000000e+00	2754.0
3	TraesCS2A01G574900	chr5A	97.180	1596	44	1	1	1596	79272870	79274464	0.000000e+00	2697.0
4	TraesCS2A01G574900	chr5A	84.908	868	81	20	1601	2456	224188092	224187263	0.000000e+00	832.0
5	TraesCS2A01G574900	chr2D	95.050	1596	77	2	1	1596	116761578	116763171	0.000000e+00	2508.0
6	TraesCS2A01G574900	chr2D	81.600	250	29	10	1601	1840	46900517	46900759	9.370000e-45	191.0
7	TraesCS2A01G574900	chr6B	92.785	1594	110	5	3	1595	218018603	218017014	0.000000e+00	2302.0
8	TraesCS2A01G574900	chr6B	92.095	1594	122	3	2	1595	119509680	119508091	0.000000e+00	2242.0
9	TraesCS2A01G574900	chr4A	91.672	1597	128	5	1	1596	660341828	660343420	0.000000e+00	2207.0
10	TraesCS2A01G574900	chr4A	85.088	114	14	2	2455	2567	179476326	179476437	2.090000e-21	113.0
11	TraesCS2A01G574900	chr2B	89.800	1598	154	9	3	1596	417498186	417496594	0.000000e+00	2039.0
12	TraesCS2A01G574900	chr2B	81.526	249	23	15	1605	1844	526410670	526410904	1.570000e-42	183.0
13	TraesCS2A01G574900	chr4B	88.882	1592	172	5	7	1596	635324597	635323009	0.000000e+00	1954.0
14	TraesCS2A01G574900	chr4B	86.111	108	12	2	2457	2563	626789488	626789593	2.090000e-21	113.0
15	TraesCS2A01G574900	chr7D	85.582	867	69	15	1614	2455	575662500	575661665	0.000000e+00	857.0
16	TraesCS2A01G574900	chr3A	86.272	794	78	19	1677	2455	575145198	575144421	0.000000e+00	833.0
17	TraesCS2A01G574900	chr1D	96.443	506	11	4	1601	2105	454514767	454515266	0.000000e+00	828.0
18	TraesCS2A01G574900	chr1D	84.810	869	75	18	1611	2455	121661048	121661883	0.000000e+00	821.0
19	TraesCS2A01G574900	chr1D	94.505	364	17	3	2094	2455	454522229	454522591	2.230000e-155	558.0
20	TraesCS2A01G574900	chr3B	88.553	629	47	12	1833	2455	823102937	823103546	0.000000e+00	739.0
21	TraesCS2A01G574900	chr3B	87.619	630	52	13	1833	2456	365282008	365281399	0.000000e+00	708.0
22	TraesCS2A01G574900	chr3B	85.350	314	23	9	1601	1906	365282271	365281973	1.150000e-78	303.0
23	TraesCS2A01G574900	chr3B	81.600	250	23	15	1605	1844	246488054	246487818	4.360000e-43	185.0
24	TraesCS2A01G574900	chr7B	87.937	630	52	11	1833	2456	696146684	696146073	0.000000e+00	721.0
25	TraesCS2A01G574900	chr7B	86.624	314	25	6	1601	1906	696146953	696146649	5.290000e-87	331.0
26	TraesCS2A01G574900	chr6D	87.424	493	34	14	1970	2455	298156357	298156828	2.250000e-150	542.0
27	TraesCS2A01G574900	chr6D	83.275	287	19	11	1601	1880	298155840	298156104	1.190000e-58	237.0
28	TraesCS2A01G574900	chr6D	82.558	258	17	11	1634	1884	298156346	298156110	4.330000e-48	202.0
29	TraesCS2A01G574900	chr5B	81.897	116	15	5	2455	2567	604997113	604997225	2.720000e-15	93.5

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	TraesCS2A01G574900	chr2A	769612685	769615251	2566	False	4741.0	4741	100.0000	1	2567	1	chr2A.!!$F1	2566
1	TraesCS2A01G574900	chr2A	596374709	596376300	1591	True	2710.0	2710	97.3650	1	1594	1	chr2A.!!$R1	1593
2	TraesCS2A01G574900	chr6A	510871920	510873521	1601	False	2754.0	2754	97.6900	1	1602	1	chr6A.!!$F1	1601
3	TraesCS2A01G574900	chr5A	79272870	79274464	1594	False	2697.0	2697	97.1800	1	1596	1	chr5A.!!$F1	1595
4	TraesCS2A01G574900	chr5A	224187263	224188092	829	True	832.0	832	84.9080	1601	2456	1	chr5A.!!$R1	855
5	TraesCS2A01G574900	chr2D	116761578	116763171	1593	False	2508.0	2508	95.0500	1	1596	1	chr2D.!!$F2	1595
6	TraesCS2A01G574900	chr6B	218017014	218018603	1589	True	2302.0	2302	92.7850	3	1595	1	chr6B.!!$R2	1592
7	TraesCS2A01G574900	chr6B	119508091	119509680	1589	True	2242.0	2242	92.0950	2	1595	1	chr6B.!!$R1	1593
8	TraesCS2A01G574900	chr4A	660341828	660343420	1592	False	2207.0	2207	91.6720	1	1596	1	chr4A.!!$F2	1595
9	TraesCS2A01G574900	chr2B	417496594	417498186	1592	True	2039.0	2039	89.8000	3	1596	1	chr2B.!!$R1	1593
10	TraesCS2A01G574900	chr4B	635323009	635324597	1588	True	1954.0	1954	88.8820	7	1596	1	chr4B.!!$R1	1589
11	TraesCS2A01G574900	chr7D	575661665	575662500	835	True	857.0	857	85.5820	1614	2455	1	chr7D.!!$R1	841
12	TraesCS2A01G574900	chr3A	575144421	575145198	777	True	833.0	833	86.2720	1677	2455	1	chr3A.!!$R1	778
13	TraesCS2A01G574900	chr1D	121661048	121661883	835	False	821.0	821	84.8100	1611	2455	1	chr1D.!!$F1	844
14	TraesCS2A01G574900	chr3B	823102937	823103546	609	False	739.0	739	88.5530	1833	2455	1	chr3B.!!$F1	622
15	TraesCS2A01G574900	chr3B	365281399	365282271	872	True	505.5	708	86.4845	1601	2456	2	chr3B.!!$R2	855
16	TraesCS2A01G574900	chr7B	696146073	696146953	880	True	526.0	721	87.2805	1601	2456	2	chr7B.!!$R1	855
17	TraesCS2A01G574900	chr6D	298155840	298156828	988	False	389.5	542	85.3495	1601	2455	2	chr6D.!!$F1	854

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
547	549	0.238553	CGCTCTCGTGACTCAGAACA	59.761	55.0	0.0	0.0	0.0	3.18	F

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability	Orientation
2456	2739	0.033503	TAGCGGTGTCATGAGGAGGA	60.034	55.0	0.0	0.0	0.0	3.71	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
26	27	3.399330	CTGCACCGAAAGTTAAAGGAGA	58.601	45.455	0.00	0.00	0.00	3.71
64	65	8.115490	AGACTTGCAACTCTTTAATTTAGCAT	57.885	30.769	0.00	0.00	0.00	3.79
124	125	2.142357	CTCTCTGTGTTCGCGGGTCA	62.142	60.000	6.13	0.00	0.00	4.02
310	312	4.841246	GGATCCCTGATACCAGAACTATGT	59.159	45.833	0.00	0.00	43.02	2.29
488	490	3.823281	TGATATTTTGGCATGGGCTTG	57.177	42.857	0.00	0.00	40.87	4.01
547	549	0.238553	CGCTCTCGTGACTCAGAACA	59.761	55.000	0.00	0.00	0.00	3.18
721	723	8.764287	CACTCAAATATCGACATATAGCAACAA	58.236	33.333	0.00	0.00	0.00	2.83
826	828	0.889186	TCAAGCTCCGGTTTGGCTTC	60.889	55.000	18.12	0.00	43.28	3.86
1113	1115	5.491982	GAGGTCAAGATAAACACTGATGGT	58.508	41.667	0.00	0.00	0.00	3.55
1243	1245	6.183361	CCTTATCTCTGAAACCCTAGCAATCT	60.183	42.308	0.00	0.00	0.00	2.40
1631	1635	0.945265	GCTGCGTGTACGTACCCAAA	60.945	55.000	22.43	1.04	42.22	3.28
1663	1674	3.118531	AGCCCATGTCTCATCTTTAGGT	58.881	45.455	0.00	0.00	0.00	3.08
1673	1684	2.232941	TCATCTTTAGGTCACCGTGGAC	59.767	50.000	0.00	0.00	37.06	4.02
1772	1792	4.034258	TCGACGGACGACACTGCC	62.034	66.667	0.00	0.00	46.45	4.85
1816	1837	1.000283	CAGCAAGCCCCTATCTCTACG	60.000	57.143	0.00	0.00	0.00	3.51
2029	2287	9.884465	GAGATGATTTATGGTATTTGCTTGTAC	57.116	33.333	0.00	0.00	0.00	2.90
2030	2288	9.407380	AGATGATTTATGGTATTTGCTTGTACA	57.593	29.630	0.00	0.00	0.00	2.90
2063	2325	0.252696	TCCTCCTCAGGCTGCCTTTA	60.253	55.000	20.79	9.48	40.12	1.85
2103	2366	2.186160	CGTTGCTTGCACCCTGTCA	61.186	57.895	0.00	0.00	0.00	3.58
2130	2393	2.905415	TCAATGGAAGCAGGGTTGAT	57.095	45.000	0.00	0.00	0.00	2.57
2131	2394	2.726821	TCAATGGAAGCAGGGTTGATC	58.273	47.619	0.00	0.00	0.00	2.92
2132	2395	1.753073	CAATGGAAGCAGGGTTGATCC	59.247	52.381	0.00	0.00	34.30	3.36
2189	2463	9.691362	TGAAAAATAAATAGCTCCAAAGTTCAC	57.309	29.630	0.00	0.00	0.00	3.18
2195	2469	3.515602	AGCTCCAAAGTTCACTTGGAT	57.484	42.857	4.83	0.00	36.12	3.41
2215	2489	9.265901	CTTGGATGAGATTATCTTATTGTTCGT	57.734	33.333	1.03	0.00	0.00	3.85
2237	2511	4.737855	TGATCTTGCTAGTTGTAGACCC	57.262	45.455	0.00	0.00	0.00	4.46
2277	2552	4.961438	AGGAAGGCATTTTGTGAATTGT	57.039	36.364	0.00	0.00	0.00	2.71
2278	2553	4.634199	AGGAAGGCATTTTGTGAATTGTG	58.366	39.130	0.00	0.00	0.00	3.33
2421	2703	6.516718	CATGTACTATCCTCATTTCCTTCGT	58.483	40.000	0.00	0.00	0.00	3.85
2438	2721	0.254747	CGTCCCCCTCATGCCTAAAA	59.745	55.000	0.00	0.00	0.00	1.52
2465	2748	2.771762	GCCCCTGCTCCTCCTCAT	60.772	66.667	0.00	0.00	33.53	2.90
2466	2749	3.117452	GCCCCTGCTCCTCCTCATG	62.117	68.421	0.00	0.00	33.53	3.07
2467	2750	1.383664	CCCCTGCTCCTCCTCATGA	60.384	63.158	0.00	0.00	0.00	3.07
2468	2751	1.694133	CCCCTGCTCCTCCTCATGAC	61.694	65.000	0.00	0.00	0.00	3.06
2469	2752	0.979709	CCCTGCTCCTCCTCATGACA	60.980	60.000	0.00	0.00	0.00	3.58
2470	2753	0.177604	CCTGCTCCTCCTCATGACAC	59.822	60.000	0.00	0.00	0.00	3.67
2471	2754	0.177604	CTGCTCCTCCTCATGACACC	59.822	60.000	0.00	0.00	0.00	4.16
2472	2755	1.142748	GCTCCTCCTCATGACACCG	59.857	63.158	0.00	0.00	0.00	4.94
2473	2756	1.142748	CTCCTCCTCATGACACCGC	59.857	63.158	0.00	0.00	0.00	5.68
2474	2757	1.305297	TCCTCCTCATGACACCGCT	60.305	57.895	0.00	0.00	0.00	5.52
2475	2758	0.033503	TCCTCCTCATGACACCGCTA	60.034	55.000	0.00	0.00	0.00	4.26
2476	2759	0.103208	CCTCCTCATGACACCGCTAC	59.897	60.000	0.00	0.00	0.00	3.58
2477	2760	0.817654	CTCCTCATGACACCGCTACA	59.182	55.000	0.00	0.00	0.00	2.74
2478	2761	1.204704	CTCCTCATGACACCGCTACAA	59.795	52.381	0.00	0.00	0.00	2.41
2479	2762	1.831106	TCCTCATGACACCGCTACAAT	59.169	47.619	0.00	0.00	0.00	2.71
2480	2763	2.236146	TCCTCATGACACCGCTACAATT	59.764	45.455	0.00	0.00	0.00	2.32
2481	2764	2.609459	CCTCATGACACCGCTACAATTC	59.391	50.000	0.00	0.00	0.00	2.17
2482	2765	2.609459	CTCATGACACCGCTACAATTCC	59.391	50.000	0.00	0.00	0.00	3.01
2483	2766	1.327460	CATGACACCGCTACAATTCCG	59.673	52.381	0.00	0.00	0.00	4.30
2484	2767	1.017177	TGACACCGCTACAATTCCGC	61.017	55.000	0.00	0.00	0.00	5.54
2485	2768	1.004320	ACACCGCTACAATTCCGCA	60.004	52.632	0.00	0.00	0.00	5.69
2486	2769	1.296056	ACACCGCTACAATTCCGCAC	61.296	55.000	0.00	0.00	0.00	5.34
2487	2770	1.743995	ACCGCTACAATTCCGCACC	60.744	57.895	0.00	0.00	0.00	5.01
2488	2771	2.469516	CCGCTACAATTCCGCACCC	61.470	63.158	0.00	0.00	0.00	4.61
2489	2772	1.449601	CGCTACAATTCCGCACCCT	60.450	57.895	0.00	0.00	0.00	4.34
2490	2773	1.705337	CGCTACAATTCCGCACCCTG	61.705	60.000	0.00	0.00	0.00	4.45
2491	2774	1.376609	GCTACAATTCCGCACCCTGG	61.377	60.000	0.00	0.00	0.00	4.45
2492	2775	1.376609	CTACAATTCCGCACCCTGGC	61.377	60.000	0.00	0.00	0.00	4.85
2493	2776	1.847798	TACAATTCCGCACCCTGGCT	61.848	55.000	0.00	0.00	0.00	4.75
2494	2777	2.361610	AATTCCGCACCCTGGCTG	60.362	61.111	0.00	0.00	0.00	4.85
2543	2826	3.499737	GCGTGCGCCTGTGCTATT	61.500	61.111	4.18	0.00	35.36	1.73
2544	2827	2.171079	GCGTGCGCCTGTGCTATTA	61.171	57.895	4.18	0.00	35.36	0.98
2545	2828	1.498865	GCGTGCGCCTGTGCTATTAT	61.499	55.000	4.18	0.00	35.36	1.28
2546	2829	0.233074	CGTGCGCCTGTGCTATTATG	59.767	55.000	4.18	0.00	35.36	1.90
2547	2830	0.040958	GTGCGCCTGTGCTATTATGC	60.041	55.000	4.18	0.00	35.36	3.14
2548	2831	0.179048	TGCGCCTGTGCTATTATGCT	60.179	50.000	4.18	0.00	35.36	3.79
2549	2832	0.236711	GCGCCTGTGCTATTATGCTG	59.763	55.000	0.00	0.00	34.43	4.41
2550	2833	0.870393	CGCCTGTGCTATTATGCTGG	59.130	55.000	0.00	0.00	34.43	4.85
2551	2834	0.595095	GCCTGTGCTATTATGCTGGC	59.405	55.000	0.00	0.00	37.36	4.85
2552	2835	1.971481	CCTGTGCTATTATGCTGGCA	58.029	50.000	0.00	0.00	0.00	4.92
2553	2836	2.511659	CCTGTGCTATTATGCTGGCAT	58.488	47.619	12.76	12.76	34.97	4.40
2554	2837	3.678289	CCTGTGCTATTATGCTGGCATA	58.322	45.455	10.75	10.75	34.97	3.14
2555	2838	3.688185	CCTGTGCTATTATGCTGGCATAG	59.312	47.826	13.80	7.27	40.14	2.23
2556	2839	4.564199	CCTGTGCTATTATGCTGGCATAGA	60.564	45.833	13.80	7.08	42.04	1.98
2557	2840	5.169992	TGTGCTATTATGCTGGCATAGAT	57.830	39.130	13.80	12.54	39.68	1.98
2558	2841	5.563592	TGTGCTATTATGCTGGCATAGATT	58.436	37.500	13.80	7.40	39.68	2.40
2559	2842	6.710278	TGTGCTATTATGCTGGCATAGATTA	58.290	36.000	13.80	7.99	39.68	1.75
2560	2843	6.595326	TGTGCTATTATGCTGGCATAGATTAC	59.405	38.462	13.80	11.36	39.68	1.89
2561	2844	6.595326	GTGCTATTATGCTGGCATAGATTACA	59.405	38.462	13.80	8.56	39.68	2.41
2562	2845	7.281774	GTGCTATTATGCTGGCATAGATTACAT	59.718	37.037	13.80	7.58	39.68	2.29
2563	2846	8.485392	TGCTATTATGCTGGCATAGATTACATA	58.515	33.333	13.80	8.19	39.68	2.29
2564	2847	8.986847	GCTATTATGCTGGCATAGATTACATAG	58.013	37.037	13.80	15.68	39.68	2.23
2566	2849	8.728337	ATTATGCTGGCATAGATTACATAGTG	57.272	34.615	13.80	0.00	39.68	2.74

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
12	13	7.112779	TGAATCCCATCTCTCCTTTAACTTTC	58.887	38.462	0.00	0.00	0.00	2.62
26	27	4.038271	TGCAAGTCTTTGAATCCCATCT	57.962	40.909	0.00	0.00	36.36	2.90
64	65	0.676466	CACCCATGCTTGCCGAGTAA	60.676	55.000	0.00	0.00	0.00	2.24
124	125	7.059156	CAGGAGTGGAAATATCTTCCTTTCAT	58.941	38.462	14.07	8.79	39.31	2.57
310	312	0.321564	CCAATGTGAGCAACCGGAGA	60.322	55.000	9.46	0.00	0.00	3.71
488	490	3.964031	AGTGTATGAACCAGATCTCTCCC	59.036	47.826	0.00	0.00	0.00	4.30
721	723	3.069872	TGACAAATTTTGCACTGGCTCAT	59.930	39.130	9.04	0.00	41.91	2.90
1113	1115	2.076100	CGAGCTTCCAATGCAACACTA	58.924	47.619	0.00	0.00	0.00	2.74
1243	1245	1.280710	AGCAAATATGACACCGTCCCA	59.719	47.619	0.00	0.00	0.00	4.37
1432	1435	0.473886	AGGTGAGCAGGGTAGTTGGT	60.474	55.000	0.00	0.00	0.00	3.67
1523	1527	2.559440	CAGAATCTGCAAGGAGGCTAC	58.441	52.381	0.00	0.00	34.04	3.58
1598	1602	1.065600	GCAGCGCCACAAAACTTCA	59.934	52.632	2.29	0.00	0.00	3.02
1631	1635	3.212377	CATGGGCTATGTTTGGGCT	57.788	52.632	2.19	0.00	31.92	5.19
1663	1674	1.950909	GGTCAAAATTGTCCACGGTGA	59.049	47.619	10.28	0.00	36.56	4.02
1673	1684	3.070015	ACAGGAAAGCTGGGTCAAAATTG	59.930	43.478	0.00	0.00	0.00	2.32
1795	1815	2.043227	GTAGAGATAGGGGCTTGCTGT	58.957	52.381	0.00	0.00	0.00	4.40
2029	2287	4.187694	GAGGAGGAAACAACAGCTAGATG	58.812	47.826	6.41	6.41	0.00	2.90
2030	2288	3.840666	TGAGGAGGAAACAACAGCTAGAT	59.159	43.478	0.00	0.00	0.00	1.98
2031	2289	3.239449	TGAGGAGGAAACAACAGCTAGA	58.761	45.455	0.00	0.00	0.00	2.43
2080	2343	1.008538	GGGTGCAAGCAACGTTCAG	60.009	57.895	0.00	0.00	33.76	3.02
2090	2353	4.701651	TGAAATAGAATGACAGGGTGCAAG	59.298	41.667	0.00	0.00	0.00	4.01
2091	2354	4.661222	TGAAATAGAATGACAGGGTGCAA	58.339	39.130	0.00	0.00	0.00	4.08
2103	2366	5.522641	ACCCTGCTTCCATTGAAATAGAAT	58.477	37.500	0.00	0.00	0.00	2.40
2130	2393	7.433708	AATATCATAAATTCACGAATGCGGA	57.566	32.000	0.00	0.00	43.17	5.54
2131	2394	7.591057	ACAAATATCATAAATTCACGAATGCGG	59.409	33.333	0.00	0.00	43.17	5.69
2132	2395	8.492920	ACAAATATCATAAATTCACGAATGCG	57.507	30.769	0.00	0.00	44.79	4.73
2189	2463	9.265901	ACGAACAATAAGATAATCTCATCCAAG	57.734	33.333	0.00	0.00	0.00	3.61
2191	2465	9.045223	CAACGAACAATAAGATAATCTCATCCA	57.955	33.333	0.00	0.00	0.00	3.41
2215	2489	4.530553	TGGGTCTACAACTAGCAAGATCAA	59.469	41.667	0.00	0.00	0.00	2.57
2237	2511	7.542025	CCTTCCTTTCTACAGGATTGAATTTG	58.458	38.462	0.00	0.00	42.89	2.32
2262	2537	9.881529	ATACATTTTTCACAATTCACAAAATGC	57.118	25.926	13.12	0.00	43.79	3.56
2393	2674	6.845908	AGGAAATGAGGATAGTACATGCAAT	58.154	36.000	0.00	0.00	0.00	3.56
2410	2692	0.618458	TGAGGGGGACGAAGGAAATG	59.382	55.000	0.00	0.00	0.00	2.32
2413	2695	1.910580	GCATGAGGGGGACGAAGGAA	61.911	60.000	0.00	0.00	0.00	3.36
2421	2703	0.629058	GGTTTTAGGCATGAGGGGGA	59.371	55.000	0.00	0.00	0.00	4.81
2456	2739	0.033503	TAGCGGTGTCATGAGGAGGA	60.034	55.000	0.00	0.00	0.00	3.71
2457	2740	0.103208	GTAGCGGTGTCATGAGGAGG	59.897	60.000	0.00	0.00	0.00	4.30
2458	2741	0.817654	TGTAGCGGTGTCATGAGGAG	59.182	55.000	0.00	0.00	0.00	3.69
2459	2742	1.262417	TTGTAGCGGTGTCATGAGGA	58.738	50.000	0.00	0.00	0.00	3.71
2460	2743	2.315925	ATTGTAGCGGTGTCATGAGG	57.684	50.000	0.00	0.00	0.00	3.86
2461	2744	2.609459	GGAATTGTAGCGGTGTCATGAG	59.391	50.000	0.00	0.00	0.00	2.90
2462	2745	2.627945	GGAATTGTAGCGGTGTCATGA	58.372	47.619	0.00	0.00	0.00	3.07
2463	2746	1.327460	CGGAATTGTAGCGGTGTCATG	59.673	52.381	0.00	0.00	0.00	3.07
2464	2747	1.651987	CGGAATTGTAGCGGTGTCAT	58.348	50.000	0.00	0.00	0.00	3.06
2465	2748	1.017177	GCGGAATTGTAGCGGTGTCA	61.017	55.000	0.00	0.00	0.00	3.58
2466	2749	1.017177	TGCGGAATTGTAGCGGTGTC	61.017	55.000	0.00	0.00	0.00	3.67
2467	2750	1.004320	TGCGGAATTGTAGCGGTGT	60.004	52.632	0.00	0.00	0.00	4.16
2468	2751	1.423845	GTGCGGAATTGTAGCGGTG	59.576	57.895	0.00	0.00	0.00	4.94
2469	2752	1.743995	GGTGCGGAATTGTAGCGGT	60.744	57.895	0.00	0.00	0.00	5.68
2470	2753	2.469516	GGGTGCGGAATTGTAGCGG	61.470	63.158	0.00	0.00	0.00	5.52
2471	2754	1.449601	AGGGTGCGGAATTGTAGCG	60.450	57.895	0.00	0.00	0.00	4.26
2472	2755	1.376609	CCAGGGTGCGGAATTGTAGC	61.377	60.000	0.00	0.00	0.00	3.58
2473	2756	1.376609	GCCAGGGTGCGGAATTGTAG	61.377	60.000	0.00	0.00	0.00	2.74
2474	2757	1.377987	GCCAGGGTGCGGAATTGTA	60.378	57.895	0.00	0.00	0.00	2.41
2475	2758	2.676471	GCCAGGGTGCGGAATTGT	60.676	61.111	0.00	0.00	0.00	2.71
2476	2759	2.361610	AGCCAGGGTGCGGAATTG	60.362	61.111	0.00	0.00	36.02	2.32
2477	2760	2.361610	CAGCCAGGGTGCGGAATT	60.362	61.111	5.50	0.00	36.02	2.17
2532	2815	0.595095	GCCAGCATAATAGCACAGGC	59.405	55.000	0.00	0.00	40.27	4.85
2533	2816	1.971481	TGCCAGCATAATAGCACAGG	58.029	50.000	0.00	0.00	36.85	4.00
2534	2817	4.572909	TCTATGCCAGCATAATAGCACAG	58.427	43.478	13.05	1.74	38.30	3.66
2535	2818	4.622260	TCTATGCCAGCATAATAGCACA	57.378	40.909	13.05	0.00	38.30	4.57
2536	2819	6.595326	TGTAATCTATGCCAGCATAATAGCAC	59.405	38.462	13.05	8.34	38.30	4.40
2537	2820	6.710278	TGTAATCTATGCCAGCATAATAGCA	58.290	36.000	13.05	6.63	38.30	3.49
2538	2821	7.798596	ATGTAATCTATGCCAGCATAATAGC	57.201	36.000	13.05	4.50	38.30	2.97
2540	2823	9.822185	CACTATGTAATCTATGCCAGCATAATA	57.178	33.333	13.05	5.51	38.30	0.98
2541	2824	8.728337	CACTATGTAATCTATGCCAGCATAAT	57.272	34.615	13.05	5.82	38.30	1.28

Based at the University of Bristol with support from BBSRC.

AutoCloner maintained by Alex Coulton.