AutoCloner

Multiple sequence alignment - TraesCS4A01G383600

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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	TraesCS4A01G383600	chr4A	100.000	2316	0	0	987	3302	661280762	661278447	0.000000e+00	4277.0
1	TraesCS4A01G383600	chr4A	93.573	2334	118	18	987	3302	648795334	648793015	0.000000e+00	3450.0
2	TraesCS4A01G383600	chr4A	100.000	596	0	0	1	596	661281748	661281153	0.000000e+00	1101.0
3	TraesCS4A01G383600	chr4A	95.010	501	18	3	1	501	648795871	648795378	0.000000e+00	780.0
4	TraesCS4A01G383600	chr4A	76.459	497	86	19	1761	2231	80406	79915	1.180000e-59	241.0
5	TraesCS4A01G383600	chr7A	93.476	2330	122	15	987	3302	41048803	41046490	0.000000e+00	3434.0
6	TraesCS4A01G383600	chr7A	88.281	256	26	4	12	267	41049652	41049401	1.490000e-78	303.0
7	TraesCS4A01G383600	chr7A	91.228	57	5	0	286	342	41049415	41049359	9.820000e-11	78.7
8	TraesCS4A01G383600	chr7A	91.837	49	3	1	429	477	41049229	41049182	2.130000e-07	67.6
9	TraesCS4A01G383600	chr7D	93.985	1330	67	5	991	2313	41601871	41600548	0.000000e+00	2001.0
10	TraesCS4A01G383600	chr7D	92.958	994	53	10	2319	3302	41600499	41599513	0.000000e+00	1432.0
11	TraesCS4A01G383600	chr7D	87.179	195	20	5	12	206	41603844	41603655	2.000000e-52	217.0
12	TraesCS4A01G383600	chr7D	84.946	93	11	2	429	521	41601965	41601876	1.260000e-14	91.6
13	TraesCS4A01G383600	chr7D	94.737	57	3	0	286	342	41602171	41602115	4.540000e-14	89.8
14	TraesCS4A01G383600	chr1D	83.275	574	60	16	2459	3019	26268812	26268262	2.290000e-136	496.0
15	TraesCS4A01G383600	chr1B	82.842	577	63	17	2459	3019	41841947	41842503	4.950000e-133	484.0
16	TraesCS4A01G383600	chr1A	82.090	469	59	12	2459	2916	27329618	27330072	8.650000e-101	377.0
17	TraesCS4A01G383600	chr1A	85.149	101	8	5	2921	3019	27330315	27330410	2.710000e-16	97.1
18	TraesCS4A01G383600	chr6B	75.923	569	110	18	1696	2247	4487209	4486651	1.950000e-67	267.0
19	TraesCS4A01G383600	chr6B	78.593	327	50	11	2698	3019	4485736	4485425	7.230000e-47	198.0
20	TraesCS4A01G383600	chr3D	83.509	285	42	4	1043	1326	520595042	520595322	9.090000e-66	261.0
21	TraesCS4A01G383600	chr3D	81.250	320	47	8	1013	1324	569132393	569132707	2.540000e-61	246.0
22	TraesCS4A01G383600	chr3D	86.878	221	23	3	1013	1227	520426586	520426806	3.290000e-60	243.0
23	TraesCS4A01G383600	chr3D	78.963	328	50	12	1013	1326	565641910	565642232	4.320000e-49	206.0
24	TraesCS4A01G383600	chr3D	73.423	666	124	40	1821	2444	567906851	567907505	2.010000e-47	200.0
25	TraesCS4A01G383600	chr3D	71.513	509	131	13	1646	2147	579399169	579399670	1.240000e-24	124.0
26	TraesCS4A01G383600	chr3D	95.455	44	2	0	1378	1421	564151211	564151254	1.640000e-08	71.3
27	TraesCS4A01G383600	chr3D	93.182	44	3	0	1378	1421	565088309	565088352	7.650000e-07	65.8
28	TraesCS4A01G383600	chr4B	76.660	497	85	19	1761	2231	121723	121232	2.540000e-61	246.0
29	TraesCS4A01G383600	chr3A	88.500	200	23	0	1018	1217	66914219	66914020	3.290000e-60	243.0
30	TraesCS4A01G383600	chr3A	80.546	293	52	4	1034	1325	700739300	700739588	1.540000e-53	220.0
31	TraesCS4A01G383600	chr3A	77.957	186	27	9	1378	1556	699533663	699533841	1.620000e-18	104.0
32	TraesCS4A01G383600	chr3A	94.737	38	2	0	1384	1421	698739990	698740027	3.560000e-05	60.2
33	TraesCS4A01G383600	chr6A	80.634	284	37	8	2541	2820	794305	794036	1.550000e-48	204.0
34	TraesCS4A01G383600	chr6A	78.947	190	27	6	2701	2878	793257	793069	2.080000e-22	117.0
35	TraesCS4A01G383600	chr2B	80.669	269	35	11	2689	2944	773352586	773352850	3.360000e-45	193.0
36	TraesCS4A01G383600	chr2B	98.611	72	1	0	525	596	96117907	96117836	9.620000e-26	128.0
37	TraesCS4A01G383600	chr2B	94.521	73	3	1	524	596	96244090	96244019	9.690000e-21	111.0
38	TraesCS4A01G383600	chr6D	81.250	176	22	8	2648	2818	472763393	472763224	7.430000e-27	132.0
39	TraesCS4A01G383600	chr6D	81.343	134	21	3	2459	2592	472763537	472763408	4.510000e-19	106.0
40	TraesCS4A01G383600	chr3B	77.723	202	41	4	1951	2151	773882205	773882007	1.610000e-23	121.0
41	TraesCS4A01G383600	chr3B	94.872	39	2	0	1383	1421	751943140	751943178	9.890000e-06	62.1
42	TraesCS4A01G383600	chr3B	79.167	96	11	7	1387	1473	753561328	753561423	1.280000e-04	58.4

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	TraesCS4A01G383600	chr4A	661278447	661281748	3301	True	2689.000	4277	100.0000	1	3302	2	chr4A.!!$R3	3301
1	TraesCS4A01G383600	chr4A	648793015	648795871	2856	True	2115.000	3450	94.2915	1	3302	2	chr4A.!!$R2	3301
2	TraesCS4A01G383600	chr7A	41046490	41049652	3162	True	970.825	3434	91.2055	12	3302	4	chr7A.!!$R1	3290
3	TraesCS4A01G383600	chr7D	41599513	41603844	4331	True	766.280	2001	90.7610	12	3302	5	chr7D.!!$R1	3290
4	TraesCS4A01G383600	chr1D	26268262	26268812	550	True	496.000	496	83.2750	2459	3019	1	chr1D.!!$R1	560
5	TraesCS4A01G383600	chr1B	41841947	41842503	556	False	484.000	484	82.8420	2459	3019	1	chr1B.!!$F1	560
6	TraesCS4A01G383600	chr1A	27329618	27330410	792	False	237.050	377	83.6195	2459	3019	2	chr1A.!!$F1	560
7	TraesCS4A01G383600	chr6B	4485425	4487209	1784	True	232.500	267	77.2580	1696	3019	2	chr6B.!!$R1	1323

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
548	2452	0.32446	AGGCCGTTAGCTCTAGTGGT	60.324	55.0	0.0	1.72	43.05	4.16	F

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability	Orientation
2511	4641	0.516877	CACCGAACGATGCAACACAT	59.483	50.0	0.0	0.0	43.54	3.21	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
48	49	2.034221	GGTTTCTTCGGCTGGGCT	59.966	61.111	0.00	0.00	0.00	5.19
56	57	4.320456	CGGCTGGGCTGTGTGAGT	62.320	66.667	0.00	0.00	0.00	3.41
278	1716	0.400213	GATGTTATCGGATGCCCCCA	59.600	55.000	0.00	0.00	0.00	4.96
279	1717	1.004745	GATGTTATCGGATGCCCCCAT	59.995	52.381	0.00	0.00	0.00	4.00
522	2426	1.669115	CACAACTCCGCCACTCCTG	60.669	63.158	0.00	0.00	0.00	3.86
523	2427	2.046892	CAACTCCGCCACTCCTGG	60.047	66.667	0.00	0.00	41.13	4.45
524	2428	3.322466	AACTCCGCCACTCCTGGG	61.322	66.667	0.00	0.00	38.13	4.45
529	2433	3.636231	CGCCACTCCTGGGGTCAA	61.636	66.667	0.00	0.00	44.02	3.18
530	2434	2.352805	GCCACTCCTGGGGTCAAG	59.647	66.667	0.00	0.00	38.13	3.02
531	2435	3.081554	CCACTCCTGGGGTCAAGG	58.918	66.667	0.00	0.00	33.23	3.61
532	2436	2.352805	CACTCCTGGGGTCAAGGC	59.647	66.667	0.00	0.00	0.00	4.35
533	2437	2.936032	ACTCCTGGGGTCAAGGCC	60.936	66.667	0.00	0.00	0.00	5.19
534	2438	4.101448	CTCCTGGGGTCAAGGCCG	62.101	72.222	0.00	0.00	0.00	6.13
535	2439	4.974438	TCCTGGGGTCAAGGCCGT	62.974	66.667	0.00	0.00	0.00	5.68
536	2440	3.966543	CCTGGGGTCAAGGCCGTT	61.967	66.667	0.00	0.00	0.00	4.44
537	2441	2.598787	CCTGGGGTCAAGGCCGTTA	61.599	63.158	0.00	0.00	0.00	3.18
538	2442	1.078426	CTGGGGTCAAGGCCGTTAG	60.078	63.158	0.00	0.00	0.00	2.34
539	2443	2.437895	GGGGTCAAGGCCGTTAGC	60.438	66.667	0.00	0.00	42.60	3.09
540	2444	2.669240	GGGTCAAGGCCGTTAGCT	59.331	61.111	0.00	0.00	43.05	3.32
541	2445	1.449778	GGGTCAAGGCCGTTAGCTC	60.450	63.158	0.00	0.00	43.05	4.09
542	2446	1.597461	GGTCAAGGCCGTTAGCTCT	59.403	57.895	0.00	0.00	43.05	4.09
543	2447	0.822164	GGTCAAGGCCGTTAGCTCTA	59.178	55.000	0.00	0.00	43.05	2.43
544	2448	1.202428	GGTCAAGGCCGTTAGCTCTAG	60.202	57.143	0.00	0.00	43.05	2.43
545	2449	1.477295	GTCAAGGCCGTTAGCTCTAGT	59.523	52.381	0.00	0.00	43.05	2.57
546	2450	1.476891	TCAAGGCCGTTAGCTCTAGTG	59.523	52.381	0.00	0.00	43.05	2.74
547	2451	0.824759	AAGGCCGTTAGCTCTAGTGG	59.175	55.000	0.00	0.00	43.05	4.00
548	2452	0.324460	AGGCCGTTAGCTCTAGTGGT	60.324	55.000	0.00	1.72	43.05	4.16
549	2453	0.535797	GGCCGTTAGCTCTAGTGGTT	59.464	55.000	1.33	0.00	43.05	3.67
550	2454	1.753073	GGCCGTTAGCTCTAGTGGTTA	59.247	52.381	1.33	0.00	43.05	2.85
551	2455	2.223758	GGCCGTTAGCTCTAGTGGTTAG	60.224	54.545	1.33	0.00	43.05	2.34
552	2456	2.686915	GCCGTTAGCTCTAGTGGTTAGA	59.313	50.000	1.33	0.00	38.99	2.10
560	2464	3.996921	TCTAGTGGTTAGAGAGGTCGT	57.003	47.619	0.00	0.00	33.42	4.34
562	2466	4.764172	TCTAGTGGTTAGAGAGGTCGTAC	58.236	47.826	0.00	0.00	33.42	3.67
563	2467	3.430042	AGTGGTTAGAGAGGTCGTACA	57.570	47.619	0.00	0.00	0.00	2.90
564	2468	3.965694	AGTGGTTAGAGAGGTCGTACAT	58.034	45.455	0.00	0.00	0.00	2.29
565	2469	3.695060	AGTGGTTAGAGAGGTCGTACATG	59.305	47.826	0.00	0.00	0.00	3.21
566	2470	3.021695	TGGTTAGAGAGGTCGTACATGG	58.978	50.000	0.00	0.00	0.00	3.66
567	2471	3.285484	GGTTAGAGAGGTCGTACATGGA	58.715	50.000	0.00	0.00	0.00	3.41
568	2472	3.698040	GGTTAGAGAGGTCGTACATGGAA	59.302	47.826	0.00	0.00	0.00	3.53
569	2473	4.439837	GGTTAGAGAGGTCGTACATGGAAC	60.440	50.000	0.00	0.00	0.00	3.62
570	2474	1.743958	AGAGAGGTCGTACATGGAACG	59.256	52.381	14.61	14.61	41.64	3.95
571	2475	1.741706	GAGAGGTCGTACATGGAACGA	59.258	52.381	18.19	18.19	46.35	3.85
577	2481	2.883574	TCGTACATGGAACGAACATCC	58.116	47.619	19.37	0.00	45.62	3.51
578	2482	2.494471	TCGTACATGGAACGAACATCCT	59.506	45.455	19.37	0.00	45.62	3.24
579	2483	2.603110	CGTACATGGAACGAACATCCTG	59.397	50.000	15.43	0.00	42.90	3.86
580	2484	3.674955	CGTACATGGAACGAACATCCTGA	60.675	47.826	15.43	0.00	42.90	3.86
581	2485	2.977914	ACATGGAACGAACATCCTGAG	58.022	47.619	0.00	0.00	37.85	3.35
582	2486	2.303022	ACATGGAACGAACATCCTGAGT	59.697	45.455	0.00	0.00	37.85	3.41
583	2487	3.244561	ACATGGAACGAACATCCTGAGTT	60.245	43.478	0.00	0.00	37.85	3.01
584	2488	3.040147	TGGAACGAACATCCTGAGTTC	57.960	47.619	0.00	0.00	41.41	3.01
585	2489	2.367241	TGGAACGAACATCCTGAGTTCA	59.633	45.455	8.56	0.00	44.22	3.18
586	2490	3.181459	TGGAACGAACATCCTGAGTTCAA	60.181	43.478	8.56	0.00	44.22	2.69
587	2491	3.813166	GGAACGAACATCCTGAGTTCAAA	59.187	43.478	8.56	0.00	44.22	2.69
588	2492	4.455877	GGAACGAACATCCTGAGTTCAAAT	59.544	41.667	8.56	0.00	44.22	2.32
589	2493	5.390991	GGAACGAACATCCTGAGTTCAAATC	60.391	44.000	8.56	1.97	44.22	2.17
590	2494	4.899502	ACGAACATCCTGAGTTCAAATCT	58.100	39.130	6.83	0.00	44.22	2.40
591	2495	5.308825	ACGAACATCCTGAGTTCAAATCTT	58.691	37.500	6.83	0.00	44.22	2.40
592	2496	5.180117	ACGAACATCCTGAGTTCAAATCTTG	59.820	40.000	6.83	0.00	44.22	3.02
593	2497	5.180117	CGAACATCCTGAGTTCAAATCTTGT	59.820	40.000	6.83	0.00	44.22	3.16
594	2498	5.954296	ACATCCTGAGTTCAAATCTTGTG	57.046	39.130	0.00	0.00	0.00	3.33
595	2499	4.763793	ACATCCTGAGTTCAAATCTTGTGG	59.236	41.667	0.00	0.00	0.00	4.17
1191	3099	3.314331	CTCCTGTCCCACCACGCT	61.314	66.667	0.00	0.00	0.00	5.07
1227	3135	0.539051	CCCTCCTCTACAGCCACAAG	59.461	60.000	0.00	0.00	0.00	3.16
1570	3481	0.865111	TGAAACAGATCAACGTGCCG	59.135	50.000	0.00	0.00	0.00	5.69
1578	3489	1.588404	GATCAACGTGCCGTCTATGTG	59.412	52.381	0.00	0.00	39.99	3.21
1785	3699	1.753930	TTGCTATGGGTGACATGCTG	58.246	50.000	0.00	0.00	40.82	4.41
1837	3751	3.896888	GGCCATTGATATTTGGGTGATGA	59.103	43.478	0.00	0.00	33.40	2.92
1908	3822	0.982852	TTGCCGAGATCAGGGACCAT	60.983	55.000	6.27	0.00	0.00	3.55
1932	3846	9.241317	CATTGTCAAAATTCTAGCCATATTGAC	57.759	33.333	15.35	15.35	43.22	3.18
2009	3926	3.679389	ACTGGCTGTTTCAGGTTGATAG	58.321	45.455	0.00	0.00	36.62	2.08
2013	3930	3.437049	GGCTGTTTCAGGTTGATAGTGAC	59.563	47.826	0.00	0.00	31.21	3.67
2152	4069	4.163441	TCACCTTTCATTTGACCAGACA	57.837	40.909	0.00	0.00	0.00	3.41
2174	4098	4.616181	ATTATGTTGTCAACGCTTAGGC	57.384	40.909	11.03	0.00	0.00	3.93
2219	4271	1.289160	TTGGCCTAGCTCTCCATGTT	58.711	50.000	3.32	0.00	0.00	2.71
2273	4332	7.088589	TCCATTATTAAGCTTCTTTGTGCTC	57.911	36.000	0.00	0.00	38.75	4.26
2289	4348	8.886719	TCTTTGTGCTCTGTTGATGAATATAAG	58.113	33.333	0.00	0.00	0.00	1.73
2562	4903	4.956085	TCACTTCACTTTAGCTGCTAACA	58.044	39.130	20.95	11.63	0.00	2.41
2566	4907	5.237344	ACTTCACTTTAGCTGCTAACAACTG	59.763	40.000	20.95	13.13	0.00	3.16
2567	4908	4.956085	TCACTTTAGCTGCTAACAACTGA	58.044	39.130	20.95	14.90	0.00	3.41
2568	4909	5.551233	TCACTTTAGCTGCTAACAACTGAT	58.449	37.500	20.95	0.43	0.00	2.90
2612	4953	8.834465	CATCTGGTGTTTGATCTTAAGATAAGG	58.166	37.037	17.94	2.45	34.37	2.69
2637	4978	7.230222	GTCGAGAAATGAAACTTGTACTGATG	58.770	38.462	0.00	0.00	0.00	3.07
2930	5661	3.531538	TGAAATAGTTGCCTGTCGATCC	58.468	45.455	0.00	0.00	0.00	3.36
2952	5685	2.555757	GCCTCATGTCTCTGCTTGTTTT	59.444	45.455	0.00	0.00	0.00	2.43
2955	5688	4.461405	CTCATGTCTCTGCTTGTTTTTCG	58.539	43.478	0.00	0.00	0.00	3.46
3092	5830	8.839343	GGAATTCAAAAATCAATTCTTGGTGTT	58.161	29.630	7.93	0.00	38.53	3.32

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
278	1716	6.650120	ACAATAACATCGAAACTGTCCCTAT	58.350	36.000	0.00	0.00	0.00	2.57
279	1717	6.045072	ACAATAACATCGAAACTGTCCCTA	57.955	37.500	0.00	0.00	0.00	3.53
403	2257	0.975040	CTACTGCTGCCTCCCACTCT	60.975	60.000	0.00	0.00	0.00	3.24
404	2258	0.972983	TCTACTGCTGCCTCCCACTC	60.973	60.000	0.00	0.00	0.00	3.51
513	2410	2.352805	CTTGACCCCAGGAGTGGC	59.647	66.667	0.00	0.00	43.44	5.01
522	2426	2.437895	GCTAACGGCCTTGACCCC	60.438	66.667	0.00	0.00	34.27	4.95
523	2427	1.449778	GAGCTAACGGCCTTGACCC	60.450	63.158	0.00	0.00	43.05	4.46
524	2428	0.822164	TAGAGCTAACGGCCTTGACC	59.178	55.000	0.00	0.00	43.05	4.02
525	2429	1.477295	ACTAGAGCTAACGGCCTTGAC	59.523	52.381	0.00	0.00	43.05	3.18
526	2430	1.476891	CACTAGAGCTAACGGCCTTGA	59.523	52.381	0.00	0.00	43.05	3.02
527	2431	1.471676	CCACTAGAGCTAACGGCCTTG	60.472	57.143	0.00	0.00	43.05	3.61
528	2432	0.824759	CCACTAGAGCTAACGGCCTT	59.175	55.000	0.00	0.00	43.05	4.35
529	2433	0.324460	ACCACTAGAGCTAACGGCCT	60.324	55.000	0.00	0.00	43.05	5.19
530	2434	0.535797	AACCACTAGAGCTAACGGCC	59.464	55.000	0.00	0.00	43.05	6.13
531	2435	2.686915	TCTAACCACTAGAGCTAACGGC	59.313	50.000	0.00	0.00	42.19	5.68
532	2436	4.555348	CTCTAACCACTAGAGCTAACGG	57.445	50.000	0.00	0.00	45.60	4.44
540	2444	3.996921	ACGACCTCTCTAACCACTAGA	57.003	47.619	0.00	0.00	35.27	2.43
541	2445	4.511527	TGTACGACCTCTCTAACCACTAG	58.488	47.826	0.00	0.00	0.00	2.57
542	2446	4.558226	TGTACGACCTCTCTAACCACTA	57.442	45.455	0.00	0.00	0.00	2.74
543	2447	3.430042	TGTACGACCTCTCTAACCACT	57.570	47.619	0.00	0.00	0.00	4.00
544	2448	3.181489	CCATGTACGACCTCTCTAACCAC	60.181	52.174	0.00	0.00	0.00	4.16
545	2449	3.021695	CCATGTACGACCTCTCTAACCA	58.978	50.000	0.00	0.00	0.00	3.67
546	2450	3.285484	TCCATGTACGACCTCTCTAACC	58.715	50.000	0.00	0.00	0.00	2.85
547	2451	4.670347	GTTCCATGTACGACCTCTCTAAC	58.330	47.826	0.00	0.00	0.00	2.34
548	2452	3.376234	CGTTCCATGTACGACCTCTCTAA	59.624	47.826	11.01	0.00	41.33	2.10
549	2453	2.941064	CGTTCCATGTACGACCTCTCTA	59.059	50.000	11.01	0.00	41.33	2.43
550	2454	1.743958	CGTTCCATGTACGACCTCTCT	59.256	52.381	11.01	0.00	41.33	3.10
551	2455	1.741706	TCGTTCCATGTACGACCTCTC	59.258	52.381	14.14	0.00	42.51	3.20
552	2456	1.830279	TCGTTCCATGTACGACCTCT	58.170	50.000	14.14	0.00	42.51	3.69
553	2457	2.257034	GTTCGTTCCATGTACGACCTC	58.743	52.381	16.85	9.15	46.50	3.85
554	2458	1.614903	TGTTCGTTCCATGTACGACCT	59.385	47.619	16.85	0.00	46.50	3.85
555	2459	2.068837	TGTTCGTTCCATGTACGACC	57.931	50.000	16.85	12.24	46.50	4.79
556	2460	2.601763	GGATGTTCGTTCCATGTACGAC	59.398	50.000	16.85	13.13	46.50	4.34
557	2461	2.494471	AGGATGTTCGTTCCATGTACGA	59.506	45.455	14.14	14.14	45.34	3.43
558	2462	2.603110	CAGGATGTTCGTTCCATGTACG	59.397	50.000	10.39	10.39	40.23	3.67
559	2463	3.857052	TCAGGATGTTCGTTCCATGTAC	58.143	45.455	0.00	0.00	37.40	2.90
560	2464	3.513912	ACTCAGGATGTTCGTTCCATGTA	59.486	43.478	0.00	0.00	37.40	2.29
561	2465	2.303022	ACTCAGGATGTTCGTTCCATGT	59.697	45.455	0.00	0.00	37.40	3.21
562	2466	2.977914	ACTCAGGATGTTCGTTCCATG	58.022	47.619	0.00	0.00	37.40	3.66
563	2467	3.007940	TGAACTCAGGATGTTCGTTCCAT	59.992	43.478	0.00	0.00	44.67	3.41
564	2468	2.367241	TGAACTCAGGATGTTCGTTCCA	59.633	45.455	0.00	0.00	44.67	3.53
565	2469	3.040147	TGAACTCAGGATGTTCGTTCC	57.960	47.619	0.00	0.00	44.67	3.62
566	2470	5.409826	AGATTTGAACTCAGGATGTTCGTTC	59.590	40.000	0.00	0.00	44.67	3.95
567	2471	5.308825	AGATTTGAACTCAGGATGTTCGTT	58.691	37.500	0.00	0.00	44.67	3.85
568	2472	4.899502	AGATTTGAACTCAGGATGTTCGT	58.100	39.130	0.00	0.00	44.67	3.85
569	2473	5.180117	ACAAGATTTGAACTCAGGATGTTCG	59.820	40.000	0.00	0.00	44.67	3.95
570	2474	6.376978	CACAAGATTTGAACTCAGGATGTTC	58.623	40.000	0.00	0.00	42.77	3.18
571	2475	5.242393	CCACAAGATTTGAACTCAGGATGTT	59.758	40.000	0.00	0.00	37.40	2.71
572	2476	4.763793	CCACAAGATTTGAACTCAGGATGT	59.236	41.667	0.00	0.00	37.40	3.06
573	2477	5.306532	CCACAAGATTTGAACTCAGGATG	57.693	43.478	0.00	0.00	37.54	3.51
987	2891	0.177604	GGAGATCTGTGCCAGGAGTG	59.822	60.000	0.00	0.00	31.51	3.51
988	2892	0.252421	TGGAGATCTGTGCCAGGAGT	60.252	55.000	0.00	0.00	31.51	3.85
989	2893	0.177604	GTGGAGATCTGTGCCAGGAG	59.822	60.000	0.00	0.00	31.18	3.69
990	2894	1.267574	GGTGGAGATCTGTGCCAGGA	61.268	60.000	0.00	0.00	31.18	3.86
991	2895	1.222936	GGTGGAGATCTGTGCCAGG	59.777	63.158	0.00	0.00	31.18	4.45
992	2896	0.177604	GAGGTGGAGATCTGTGCCAG	59.822	60.000	0.00	0.00	31.18	4.85
993	2897	1.267574	GGAGGTGGAGATCTGTGCCA	61.268	60.000	0.00	0.00	0.00	4.92
1353	3261	4.573162	GTGAAACTCCCGTCCTCG	57.427	61.111	0.00	0.00	0.00	4.63
1451	3362	1.834263	GGGGAGCATACTGTTGAGTCT	59.166	52.381	0.00	0.00	33.21	3.24
1570	3481	4.333926	GGAGCCAATTGAGAACACATAGAC	59.666	45.833	7.12	0.00	0.00	2.59
1578	3489	2.229784	CTGGTTGGAGCCAATTGAGAAC	59.770	50.000	7.12	2.25	38.18	3.01
1610	3521	2.520536	GGATCAGGGCGCCCTATGT	61.521	63.158	46.42	33.20	46.28	2.29
1785	3699	6.949352	TCATCATTAAGAAAGAAGATGCCC	57.051	37.500	0.00	0.00	34.42	5.36
1837	3751	0.544595	ACCTCGCCTTGGTAGTCCTT	60.545	55.000	0.00	0.00	35.80	3.36
1908	3822	7.335673	TCGTCAATATGGCTAGAATTTTGACAA	59.664	33.333	24.72	14.70	41.84	3.18
1932	3846	4.454161	TCACCATTAACAACCATCACTTCG	59.546	41.667	0.00	0.00	0.00	3.79
2078	3995	6.565999	CGGAAAGAAGGTATGTTGAACAAGAC	60.566	42.308	0.62	3.62	0.00	3.01
2152	4069	4.457603	TGCCTAAGCGTTGACAACATAATT	59.542	37.500	18.09	8.80	44.31	1.40
2174	4098	6.317789	AGAAACACCACAACACTCAATATG	57.682	37.500	0.00	0.00	0.00	1.78
2219	4271	5.976458	TGATACATACAACAGCTCATGTGA	58.024	37.500	10.46	0.00	43.00	3.58
2289	4348	6.593382	AGTCACAGCTTCTTGATCATACTTTC	59.407	38.462	0.00	0.00	0.00	2.62
2346	4470	1.134521	ACTCACGTCAGCCACTTCAAA	60.135	47.619	0.00	0.00	0.00	2.69
2511	4641	0.516877	CACCGAACGATGCAACACAT	59.483	50.000	0.00	0.00	43.54	3.21
2562	4903	6.664816	TGAAGCATTGATCCCTTAAATCAGTT	59.335	34.615	0.00	0.00	34.76	3.16
2566	4907	7.368833	CAGATGAAGCATTGATCCCTTAAATC	58.631	38.462	0.00	0.00	39.69	2.17
2567	4908	6.267014	CCAGATGAAGCATTGATCCCTTAAAT	59.733	38.462	0.00	0.00	39.69	1.40
2568	4909	5.595542	CCAGATGAAGCATTGATCCCTTAAA	59.404	40.000	0.00	0.00	39.69	1.52
2612	4953	6.764877	TCAGTACAAGTTTCATTTCTCGAC	57.235	37.500	0.00	0.00	0.00	4.20
2645	4986	3.950395	GAGCCAGACAATGATAGCCTTTT	59.050	43.478	0.00	0.00	0.00	2.27
2662	5003	0.689055	ACAATCTGTGAGCTGAGCCA	59.311	50.000	0.00	0.00	0.00	4.75
2733	5207	5.049828	GCCTAATTCATACACATTTTGCCC	58.950	41.667	0.00	0.00	0.00	5.36
2738	5212	4.078630	AGGGGGCCTAATTCATACACATTT	60.079	41.667	0.84	0.00	28.47	2.32
2792	5272	6.032717	GCCAAAGCTTCTTGATCATAACTTC	58.967	40.000	0.00	0.00	35.50	3.01
2889	5381	0.099791	AACGCCGACCAAAACAACAG	59.900	50.000	0.00	0.00	0.00	3.16
2930	5661	0.390866	ACAAGCAGAGACATGAGGCG	60.391	55.000	0.00	0.00	0.00	5.52
2952	5685	4.321899	CCAAGGCAATTCTTCATTTCCGAA	60.322	41.667	0.00	0.00	33.55	4.30
2955	5688	4.541973	ACCAAGGCAATTCTTCATTTCC	57.458	40.909	0.00	0.00	0.00	3.13
3026	5763	9.257651	GCGAATTTATATAACACAGTAGGTTCT	57.742	33.333	0.00	0.00	0.00	3.01
3092	5830	2.104967	CTTACCCGGTGGTCAGTCATA	58.895	52.381	0.00	0.00	43.06	2.15
3172	5910	8.975439	CATGTCCTGAAAAAGAAAGAAATTCAG	58.025	33.333	6.80	6.80	44.05	3.02
3282	6020	0.319211	CACTGGGCTTGTGCATGTTG	60.319	55.000	0.00	0.00	41.91	3.33

Based at the University of Bristol with support from BBSRC.

AutoCloner maintained by Alex Coulton.