AutoCloner

Multiple sequence alignment - TraesCS5B01G528400

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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	TraesCS5B01G528400	chr5B	100.000	2622	0	0	1	2622	687211774	687214395	0.000000e+00	4843.0
1	TraesCS5B01G528400	chr5B	92.745	1406	63	12	731	2123	687223491	687224870	0.000000e+00	1995.0
2	TraesCS5B01G528400	chr5B	89.070	796	74	9	1182	1974	687326382	687327167	0.000000e+00	976.0
3	TraesCS5B01G528400	chr5B	95.130	616	23	2	1	609	687222650	687223265	0.000000e+00	965.0
4	TraesCS5B01G528400	chr5B	97.436	117	2	1	623	738	687223345	687223461	5.720000e-47	198.0
5	TraesCS5B01G528400	chr5B	93.701	127	8	0	2113	2239	687231311	687231437	9.580000e-45	191.0
6	TraesCS5B01G528400	chr5B	96.703	91	2	1	647	736	687325245	687325335	1.630000e-32	150.0
7	TraesCS5B01G528400	chr5B	91.509	106	6	2	2237	2342	687232767	687232869	2.720000e-30	143.0
8	TraesCS5B01G528400	chr5B	90.566	106	9	1	2517	2621	687233034	687233139	3.520000e-29	139.0
9	TraesCS5B01G528400	chr5B	95.890	73	1	2	647	717	687340250	687340322	1.650000e-22	117.0
10	TraesCS5B01G528400	chr5D	92.774	1716	86	12	731	2409	544798850	544800564	0.000000e+00	2447.0
11	TraesCS5B01G528400	chr5D	89.163	812	80	6	1182	1989	544817237	544818044	0.000000e+00	1005.0
12	TraesCS5B01G528400	chr5D	93.679	617	31	3	1	609	544798008	544798624	0.000000e+00	917.0
13	TraesCS5B01G528400	chr5D	83.654	416	42	14	731	1141	544816587	544816981	4.120000e-98	368.0
14	TraesCS5B01G528400	chr5D	96.711	152	4	1	2469	2619	544800808	544800959	4.330000e-63	252.0
15	TraesCS5B01G528400	chr5D	96.581	117	3	1	623	738	544798704	544798820	2.660000e-45	193.0
16	TraesCS5B01G528400	chr4A	89.391	1725	115	23	731	2402	624733022	624734731	0.000000e+00	2109.0
17	TraesCS5B01G528400	chr4A	88.848	807	82	6	1187	1989	624747261	624748063	0.000000e+00	985.0
18	TraesCS5B01G528400	chr4A	81.905	420	41	17	731	1141	624746608	624747001	3.260000e-84	322.0
19	TraesCS5B01G528400	chr4A	89.189	259	23	3	319	573	624732498	624732755	4.210000e-83	318.0
20	TraesCS5B01G528400	chr4A	82.519	389	38	17	764	1146	24935338	24935702	5.450000e-82	315.0
21	TraesCS5B01G528400	chr4A	84.416	308	36	6	845	1146	24919618	24919317	2.550000e-75	292.0
22	TraesCS5B01G528400	chr4A	89.103	156	12	1	1	156	624732334	624732484	3.440000e-44	189.0
23	TraesCS5B01G528400	chr4A	90.526	95	5	4	626	718	624732885	624732977	3.540000e-24	122.0
24	TraesCS5B01G528400	chr4A	94.595	74	2	2	647	718	624746490	624746563	2.130000e-21	113.0
25	TraesCS5B01G528400	chr1A	89.282	1726	116	24	731	2402	569377579	569375869	0.000000e+00	2098.0
26	TraesCS5B01G528400	chr1A	89.677	804	75	6	1190	1989	569355603	569354804	0.000000e+00	1018.0
27	TraesCS5B01G528400	chr1A	88.156	591	50	10	1	573	569378434	569377846	0.000000e+00	686.0
28	TraesCS5B01G528400	chr1A	83.173	416	41	15	735	1141	569356261	569355866	1.150000e-93	353.0
29	TraesCS5B01G528400	chr1A	92.079	101	4	4	623	721	569377719	569377621	3.520000e-29	139.0
30	TraesCS5B01G528400	chr1A	100.000	35	0	0	648	682	569356296	569356262	6.060000e-07	65.8
31	TraesCS5B01G528400	chr4B	84.552	1094	114	33	986	2027	547309456	547310546	0.000000e+00	1033.0
32	TraesCS5B01G528400	chr4B	83.548	310	29	10	845	1146	550502654	550502949	1.200000e-68	270.0
33	TraesCS5B01G528400	chr4B	82.903	310	29	12	845	1146	550488104	550487811	9.310000e-65	257.0
34	TraesCS5B01G528400	chr4B	79.389	393	48	19	757	1146	550433322	550432960	2.020000e-61	246.0
35	TraesCS5B01G528400	chr4B	81.778	225	26	7	731	944	547309229	547309449	9.650000e-40	174.0
36	TraesCS5B01G528400	chr4D	82.654	1055	131	24	845	1861	442395921	442396961	0.000000e+00	887.0
37	TraesCS5B01G528400	chr4D	77.820	523	67	34	648	1146	442215737	442215240	7.150000e-71	278.0
38	TraesCS5B01G528400	chr4D	92.391	92	1	3	648	738	441255523	441255609	2.740000e-25	126.0

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	TraesCS5B01G528400	chr5B	687211774	687214395	2621	False	4843.000000	4843	100.000000	1	2622	1	chr5B.!!$F1	2621
1	TraesCS5B01G528400	chr5B	687222650	687224870	2220	False	1052.666667	1995	95.103667	1	2123	3	chr5B.!!$F3	2122
2	TraesCS5B01G528400	chr5B	687325245	687327167	1922	False	563.000000	976	92.886500	647	1974	2	chr5B.!!$F5	1327
3	TraesCS5B01G528400	chr5D	544798008	544800959	2951	False	952.250000	2447	94.936250	1	2619	4	chr5D.!!$F1	2618
4	TraesCS5B01G528400	chr5D	544816587	544818044	1457	False	686.500000	1005	86.408500	731	1989	2	chr5D.!!$F2	1258
5	TraesCS5B01G528400	chr4A	624732334	624734731	2397	False	684.500000	2109	89.552250	1	2402	4	chr4A.!!$F2	2401
6	TraesCS5B01G528400	chr4A	624746490	624748063	1573	False	473.333333	985	88.449333	647	1989	3	chr4A.!!$F3	1342
7	TraesCS5B01G528400	chr1A	569375869	569378434	2565	True	974.333333	2098	89.839000	1	2402	3	chr1A.!!$R2	2401
8	TraesCS5B01G528400	chr1A	569354804	569356296	1492	True	478.933333	1018	90.950000	648	1989	3	chr1A.!!$R1	1341
9	TraesCS5B01G528400	chr4B	547309229	547310546	1317	False	603.500000	1033	83.165000	731	2027	2	chr4B.!!$F2	1296
10	TraesCS5B01G528400	chr4D	442395921	442396961	1040	False	887.000000	887	82.654000	845	1861	1	chr4D.!!$F2	1016

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
751	1251	1.08992	CGATCTTTGGAGGTTGCAGG	58.91	55.0	0.0	0.0	0.0	4.85	F

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability	Orientation
1930	2717	0.173481	TGAGTATGCGTCTGGACAGC	59.827	55.0	1.63	6.18	0.0	4.4	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
267	269	1.594397	TGCGCATCAGATTTCATCGAC	59.406	47.619	5.66	0.00	0.00	4.20
301	303	9.574516	GTGATTTTACAAGGATGGGATACTAAT	57.425	33.333	0.00	0.00	0.00	1.73
356	370	8.258007	TCAGTGAATAAAGATTCCTGATTACGT	58.742	33.333	11.54	0.00	40.57	3.57
385	399	7.132213	TCATAAAGAAAACGCTGAAGACTTTG	58.868	34.615	0.00	0.00	0.00	2.77
405	419	3.529533	TGGCCTCAAAAATTGTGTTGTG	58.470	40.909	3.32	0.00	0.00	3.33
609	645	6.244552	TCAGCTATCAAAGAGGTGAATCAT	57.755	37.500	2.25	0.00	45.75	2.45
610	646	6.286758	TCAGCTATCAAAGAGGTGAATCATC	58.713	40.000	2.25	0.00	45.75	2.92
611	647	6.053650	CAGCTATCAAAGAGGTGAATCATCA	58.946	40.000	0.00	0.00	43.59	3.07
613	649	6.054295	GCTATCAAAGAGGTGAATCATCAGT	58.946	40.000	0.00	0.00	35.88	3.41
618	720	6.655003	TCAAAGAGGTGAATCATCAGTTAACC	59.345	38.462	0.88	0.00	35.88	2.85
620	722	7.496346	AAGAGGTGAATCATCAGTTAACCTA	57.504	36.000	0.88	0.00	35.88	3.08
621	723	7.682787	AGAGGTGAATCATCAGTTAACCTAT	57.317	36.000	0.88	0.00	35.88	2.57
688	790	7.021196	CGGTTGTTCAGTTAACCTATCATTTG	58.979	38.462	0.88	0.00	43.24	2.32
689	791	7.094975	CGGTTGTTCAGTTAACCTATCATTTGA	60.095	37.037	0.88	0.00	43.24	2.69
693	795	9.295825	TGTTCAGTTAACCTATCATTTGAATGT	57.704	29.630	0.88	0.00	37.27	2.71
726	828	6.029346	AGAGACGAGGTAGTATAGTAGAGC	57.971	45.833	0.00	0.00	0.00	4.09
727	829	5.776716	AGAGACGAGGTAGTATAGTAGAGCT	59.223	44.000	0.00	0.00	0.00	4.09
728	830	6.029346	AGACGAGGTAGTATAGTAGAGCTC	57.971	45.833	5.27	5.27	33.98	4.09
731	833	5.151297	GAGGTAGTATAGTAGAGCTCGGT	57.849	47.826	8.37	0.00	0.00	4.69
732	834	5.151297	AGGTAGTATAGTAGAGCTCGGTC	57.849	47.826	8.37	2.93	0.00	4.79
733	835	3.925913	GGTAGTATAGTAGAGCTCGGTCG	59.074	52.174	8.37	0.00	0.00	4.79
751	1251	1.089920	CGATCTTTGGAGGTTGCAGG	58.910	55.000	0.00	0.00	0.00	4.85
791	1291	3.517602	CGTTGGAACCGTGATCTCATAA	58.482	45.455	0.00	0.00	0.00	1.90
800	1305	7.280205	GGAACCGTGATCTCATAAGTTAACATT	59.720	37.037	8.61	2.26	0.00	2.71
903	1431	4.664688	ATCATTCCTCACCTCCAAAACT	57.335	40.909	0.00	0.00	0.00	2.66
956	1486	1.294780	CTGCGAGGGAAGCTCAACT	59.705	57.895	0.00	0.00	35.28	3.16
1008	1553	0.322816	TCAGCAGAAAGATGGTGGCC	60.323	55.000	0.00	0.00	46.26	5.36
1070	1627	2.978010	CTTCGTGCCCGCCAAGTT	60.978	61.111	0.00	0.00	0.00	2.66
1147	1729	3.877508	CACAATGGGTAAGCTAGCTAACC	59.122	47.826	19.70	19.79	0.00	2.85
1282	2063	0.179468	CGGGGTACGGGATCAACAAT	59.821	55.000	0.00	0.00	39.42	2.71
1446	2228	2.599281	TCTCCCAGCGACAACGGA	60.599	61.111	0.00	0.00	40.15	4.69
1539	2321	3.782443	GGCATCGTCCCCGTCCTT	61.782	66.667	0.00	0.00	35.01	3.36
1635	2417	1.195442	TGGTGACTAACATGGCCGGA	61.195	55.000	5.05	0.00	0.00	5.14
1701	2483	1.152649	GGATCCCCATGTCCCAGAAT	58.847	55.000	0.00	0.00	0.00	2.40
1717	2499	0.679960	GAATTGGGGCGCTAACTGGT	60.680	55.000	7.64	0.00	0.00	4.00
1749	2531	1.518903	GGCTGAAAGGACAAGCGCTT	61.519	55.000	18.98	18.98	0.00	4.68
1806	2588	3.228017	TTCCAGGACGTCGTGCCA	61.228	61.111	28.27	16.23	0.00	4.92
1930	2717	1.145598	AGAGCGGACATGCATGGAG	59.854	57.895	29.41	19.96	37.31	3.86
1977	2772	4.161333	CCATTTTGATTGCTCAGTTCGTC	58.839	43.478	0.00	0.00	31.68	4.20
1980	2775	0.319469	TGATTGCTCAGTTCGTCGCA	60.319	50.000	0.00	0.00	0.00	5.10
2011	2809	9.774742	GAGTGGATGTAGATTTGAATTGTAAAC	57.225	33.333	0.00	0.00	0.00	2.01
2105	2905	1.005394	TGCGTCGTTTTCTCTCCCC	60.005	57.895	0.00	0.00	0.00	4.81
2116	2916	0.902531	TCTCTCCCCCGTTTCACATC	59.097	55.000	0.00	0.00	0.00	3.06
2232	3033	8.664211	AACAAATAGAGCTGTATAGTTTAGGC	57.336	34.615	3.44	0.00	0.00	3.93
2304	3112	4.944962	TGGCTTGACGAAATACATCTTG	57.055	40.909	0.00	0.00	0.00	3.02
2405	3232	5.222213	ACAATTTCCTCCTCACCTCTCAAAT	60.222	40.000	0.00	0.00	0.00	2.32
2409	3236	5.620738	TCCTCCTCACCTCTCAAATATTG	57.379	43.478	0.00	0.00	0.00	1.90
2410	3237	5.032846	TCCTCCTCACCTCTCAAATATTGT	58.967	41.667	0.00	0.00	0.00	2.71
2412	3239	6.098409	TCCTCCTCACCTCTCAAATATTGTAC	59.902	42.308	0.00	0.00	0.00	2.90
2413	3240	6.127054	CCTCCTCACCTCTCAAATATTGTACA	60.127	42.308	0.00	0.00	0.00	2.90
2414	3241	7.419518	CCTCCTCACCTCTCAAATATTGTACAT	60.420	40.741	0.00	0.00	0.00	2.29
2415	3242	7.861629	TCCTCACCTCTCAAATATTGTACATT	58.138	34.615	0.00	0.00	0.00	2.71
2417	3244	8.616076	CCTCACCTCTCAAATATTGTACATTTC	58.384	37.037	0.00	0.00	0.00	2.17
2418	3245	8.506168	TCACCTCTCAAATATTGTACATTTCC	57.494	34.615	0.00	0.00	0.00	3.13
2419	3246	8.106462	TCACCTCTCAAATATTGTACATTTCCA	58.894	33.333	0.00	0.00	0.00	3.53
2420	3247	8.184192	CACCTCTCAAATATTGTACATTTCCAC	58.816	37.037	0.00	0.00	0.00	4.02
2421	3248	8.109634	ACCTCTCAAATATTGTACATTTCCACT	58.890	33.333	0.00	0.00	0.00	4.00
2422	3249	9.613428	CCTCTCAAATATTGTACATTTCCACTA	57.387	33.333	0.00	0.00	0.00	2.74
2436	3263	8.443953	ACATTTCCACTATTCTTCTCTATTGC	57.556	34.615	0.00	0.00	0.00	3.56
2437	3264	8.049117	ACATTTCCACTATTCTTCTCTATTGCA	58.951	33.333	0.00	0.00	0.00	4.08
2438	3265	8.896744	CATTTCCACTATTCTTCTCTATTGCAA	58.103	33.333	0.00	0.00	0.00	4.08
2439	3266	8.862325	TTTCCACTATTCTTCTCTATTGCAAA	57.138	30.769	1.71	0.00	0.00	3.68
2440	3267	8.862325	TTCCACTATTCTTCTCTATTGCAAAA	57.138	30.769	1.71	0.00	0.00	2.44
2441	3268	8.498054	TCCACTATTCTTCTCTATTGCAAAAG	57.502	34.615	1.71	1.92	0.00	2.27
2442	3269	7.066284	TCCACTATTCTTCTCTATTGCAAAAGC	59.934	37.037	1.71	0.00	0.00	3.51
2443	3270	7.192232	CACTATTCTTCTCTATTGCAAAAGCC	58.808	38.462	1.71	0.00	0.00	4.35
2444	3271	5.588958	ATTCTTCTCTATTGCAAAAGCCC	57.411	39.130	1.71	0.00	0.00	5.19
2445	3272	3.356290	TCTTCTCTATTGCAAAAGCCCC	58.644	45.455	1.71	0.00	0.00	5.80
2446	3273	2.143876	TCTCTATTGCAAAAGCCCCC	57.856	50.000	1.71	0.00	0.00	5.40
2461	3288	4.335584	CCCCGCGCGCAAAAAGAA	62.336	61.111	32.61	0.00	0.00	2.52
2462	3289	2.800746	CCCGCGCGCAAAAAGAAG	60.801	61.111	32.61	11.84	0.00	2.85
2463	3290	2.251075	CCGCGCGCAAAAAGAAGA	59.749	55.556	32.61	0.00	0.00	2.87
2464	3291	1.369930	CCGCGCGCAAAAAGAAGAA	60.370	52.632	32.61	0.00	0.00	2.52
2465	3292	1.330080	CCGCGCGCAAAAAGAAGAAG	61.330	55.000	32.61	9.66	0.00	2.85
2466	3293	0.384230	CGCGCGCAAAAAGAAGAAGA	60.384	50.000	32.61	0.00	0.00	2.87
2467	3294	1.753956	GCGCGCAAAAAGAAGAAGAA	58.246	45.000	29.10	0.00	0.00	2.52
2497	3508	5.172687	TGTATTGACATAACCCTGAAGCA	57.827	39.130	0.00	0.00	0.00	3.91
2545	3556	1.973812	GGAAGGTTGCTCTGGTGGC	60.974	63.158	0.00	0.00	0.00	5.01
2579	3590	1.005275	CCGAGAGCATCATGGCGAT	60.005	57.895	0.00	0.00	37.82	4.58
2599	3611	1.069513	TGGTGAAGGTGAGTTGTACCG	59.930	52.381	0.00	0.00	43.06	4.02
2619	3631	1.880027	GGTTGAAGAAGTTGGCGATGT	59.120	47.619	0.00	0.00	0.00	3.06
2620	3632	2.095718	GGTTGAAGAAGTTGGCGATGTC	60.096	50.000	0.00	0.00	0.00	3.06
2621	3633	1.428448	TGAAGAAGTTGGCGATGTCG	58.572	50.000	0.00	0.00	43.27	4.35

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
96	97	2.436109	GTTGGGGAAGGCTGAGCA	59.564	61.111	6.82	0.00	0.00	4.26
142	144	8.267894	TGCAAGAAGCTAGGATAACTATCTTTT	58.732	33.333	0.00	0.00	45.94	2.27
193	195	1.067212	GCCCGATCTTCACATCGTAGT	59.933	52.381	2.46	0.00	43.53	2.73
267	269	6.968904	CCATCCTTGTAAAATCACTGAAATCG	59.031	38.462	0.00	0.00	0.00	3.34
301	303	4.788075	TCAACCCTTTGATCTCTCCCATTA	59.212	41.667	0.00	0.00	36.79	1.90
305	314	3.721087	TTCAACCCTTTGATCTCTCCC	57.279	47.619	0.00	0.00	41.50	4.30
306	315	4.848357	TGATTCAACCCTTTGATCTCTCC	58.152	43.478	0.00	0.00	41.50	3.71
354	368	7.955324	TCTTCAGCGTTTTCTTTATGAATAACG	59.045	33.333	15.93	15.93	43.43	3.18
356	370	8.999431	AGTCTTCAGCGTTTTCTTTATGAATAA	58.001	29.630	0.00	0.00	34.24	1.40
385	399	2.871633	CCACAACACAATTTTTGAGGCC	59.128	45.455	0.00	0.00	28.53	5.19
405	419	0.108945	GGTATACGGCCGCTATGTCC	60.109	60.000	28.58	21.13	0.00	4.02
609	645	4.716784	AGTGCTGGATGATAGGTTAACTGA	59.283	41.667	5.42	0.00	0.00	3.41
610	646	5.028549	AGTGCTGGATGATAGGTTAACTG	57.971	43.478	5.42	0.00	0.00	3.16
611	647	6.583562	GTTAGTGCTGGATGATAGGTTAACT	58.416	40.000	5.42	0.00	0.00	2.24
613	649	5.361571	TCGTTAGTGCTGGATGATAGGTTAA	59.638	40.000	0.00	0.00	0.00	2.01
618	720	4.038042	TCCTTCGTTAGTGCTGGATGATAG	59.962	45.833	0.00	0.00	0.00	2.08
620	722	2.766263	TCCTTCGTTAGTGCTGGATGAT	59.234	45.455	0.00	0.00	0.00	2.45
621	723	2.176045	TCCTTCGTTAGTGCTGGATGA	58.824	47.619	0.00	0.00	0.00	2.92
700	802	8.087750	GCTCTACTATACTACCTCGTCTCTTAA	58.912	40.741	0.00	0.00	0.00	1.85
702	804	6.268387	AGCTCTACTATACTACCTCGTCTCTT	59.732	42.308	0.00	0.00	0.00	2.85
704	806	6.029346	AGCTCTACTATACTACCTCGTCTC	57.971	45.833	0.00	0.00	0.00	3.36
705	807	5.335897	CGAGCTCTACTATACTACCTCGTCT	60.336	48.000	12.85	0.00	36.97	4.18
706	808	4.858692	CGAGCTCTACTATACTACCTCGTC	59.141	50.000	12.85	0.00	36.97	4.20
707	809	4.321899	CCGAGCTCTACTATACTACCTCGT	60.322	50.000	12.85	0.00	39.24	4.18
708	810	4.175516	CCGAGCTCTACTATACTACCTCG	58.824	52.174	12.85	0.00	40.22	4.63
709	811	5.151297	ACCGAGCTCTACTATACTACCTC	57.849	47.826	12.85	0.00	0.00	3.85
710	812	4.321899	CGACCGAGCTCTACTATACTACCT	60.322	50.000	12.85	0.00	0.00	3.08
711	813	3.925913	CGACCGAGCTCTACTATACTACC	59.074	52.174	12.85	0.00	0.00	3.18
713	815	5.418524	AGATCGACCGAGCTCTACTATACTA	59.581	44.000	12.85	0.00	35.87	1.82
714	816	4.221262	AGATCGACCGAGCTCTACTATACT	59.779	45.833	12.85	1.33	35.87	2.12
715	817	4.497300	AGATCGACCGAGCTCTACTATAC	58.503	47.826	12.85	0.00	35.87	1.47
716	818	4.804868	AGATCGACCGAGCTCTACTATA	57.195	45.455	12.85	0.00	35.87	1.31
717	819	3.688694	AGATCGACCGAGCTCTACTAT	57.311	47.619	12.85	0.68	35.87	2.12
718	820	3.472283	AAGATCGACCGAGCTCTACTA	57.528	47.619	12.85	0.00	40.26	1.82
719	821	2.335316	AAGATCGACCGAGCTCTACT	57.665	50.000	12.85	0.00	40.26	2.57
720	822	2.541999	CCAAAGATCGACCGAGCTCTAC	60.542	54.545	12.85	2.00	40.26	2.59
721	823	1.676529	CCAAAGATCGACCGAGCTCTA	59.323	52.381	12.85	0.00	40.26	2.43
722	824	0.457851	CCAAAGATCGACCGAGCTCT	59.542	55.000	12.85	0.36	40.26	4.09
723	825	0.456221	TCCAAAGATCGACCGAGCTC	59.544	55.000	10.67	2.73	40.26	4.09
724	826	0.457851	CTCCAAAGATCGACCGAGCT	59.542	55.000	4.21	4.21	43.27	4.09
725	827	0.528684	CCTCCAAAGATCGACCGAGC	60.529	60.000	0.00	0.00	0.00	5.03
726	828	0.818296	ACCTCCAAAGATCGACCGAG	59.182	55.000	0.00	0.00	0.00	4.63
727	829	1.067142	CAACCTCCAAAGATCGACCGA	60.067	52.381	0.00	0.00	0.00	4.69
728	830	1.359848	CAACCTCCAAAGATCGACCG	58.640	55.000	0.00	0.00	0.00	4.79
729	831	1.087501	GCAACCTCCAAAGATCGACC	58.912	55.000	0.00	0.00	0.00	4.79
731	833	1.339055	CCTGCAACCTCCAAAGATCGA	60.339	52.381	0.00	0.00	0.00	3.59
732	834	1.089920	CCTGCAACCTCCAAAGATCG	58.910	55.000	0.00	0.00	0.00	3.69
733	835	0.813821	GCCTGCAACCTCCAAAGATC	59.186	55.000	0.00	0.00	0.00	2.75
751	1251	1.217882	GGTCGTATAGGTGCACATGC	58.782	55.000	20.43	7.18	42.50	4.06
791	1291	9.739276	TGGAGAAGAATGATTGTAATGTTAACT	57.261	29.630	7.22	0.00	0.00	2.24
800	1305	7.809238	AGGAATGATGGAGAAGAATGATTGTA	58.191	34.615	0.00	0.00	0.00	2.41
903	1431	4.142665	GCTAGATATTGTGGCGATCGAGTA	60.143	45.833	21.57	0.12	0.00	2.59
956	1486	6.441924	AGAAAGAAACAGGGAGTGATCAGATA	59.558	38.462	0.00	0.00	0.00	1.98
1147	1729	1.153588	GCAAATTGATGGTGCCGGG	60.154	57.895	2.18	0.00	31.94	5.73
1635	2417	2.657237	CTCTTGACCGACCCGCTT	59.343	61.111	0.00	0.00	0.00	4.68
1701	2483	1.196104	ACTACCAGTTAGCGCCCCAA	61.196	55.000	2.29	0.00	0.00	4.12
1806	2588	2.113139	CCGAACAACCACCAGGCT	59.887	61.111	0.00	0.00	39.06	4.58
1918	2705	0.393402	TGGACAGCTCCATGCATGTC	60.393	55.000	24.58	15.63	42.15	3.06
1930	2717	0.173481	TGAGTATGCGTCTGGACAGC	59.827	55.000	1.63	6.18	0.00	4.40
2011	2809	2.359531	GAGGGAGTCGTGGATTACAGAG	59.640	54.545	0.00	0.00	0.00	3.35
2105	2905	5.108385	AGCAAAACTTAGATGTGAAACGG	57.892	39.130	0.00	0.00	42.39	4.44
2116	2916	8.831715	AATTTAACCATGGAAGCAAAACTTAG	57.168	30.769	21.47	0.00	39.29	2.18
2387	3214	5.032846	ACAATATTTGAGAGGTGAGGAGGA	58.967	41.667	0.00	0.00	0.00	3.71
2410	3237	9.547753	GCAATAGAGAAGAATAGTGGAAATGTA	57.452	33.333	0.00	0.00	0.00	2.29
2412	3239	8.442632	TGCAATAGAGAAGAATAGTGGAAATG	57.557	34.615	0.00	0.00	0.00	2.32
2413	3240	9.466497	TTTGCAATAGAGAAGAATAGTGGAAAT	57.534	29.630	0.00	0.00	34.09	2.17
2414	3241	8.862325	TTTGCAATAGAGAAGAATAGTGGAAA	57.138	30.769	0.00	0.00	35.78	3.13
2415	3242	8.862325	TTTTGCAATAGAGAAGAATAGTGGAA	57.138	30.769	0.00	0.00	0.00	3.53
2417	3244	7.192232	GCTTTTGCAATAGAGAAGAATAGTGG	58.808	38.462	19.53	0.00	46.58	4.00
2444	3271	4.335584	TTCTTTTTGCGCGCGGGG	62.336	61.111	33.06	14.24	0.00	5.73
2445	3272	2.725275	TTCTTCTTTTTGCGCGCGGG	62.725	55.000	33.06	20.05	0.00	6.13
2446	3273	1.330080	CTTCTTCTTTTTGCGCGCGG	61.330	55.000	33.06	13.92	0.00	6.46
2447	3274	0.384230	TCTTCTTCTTTTTGCGCGCG	60.384	50.000	28.44	28.44	0.00	6.86
2448	3275	1.710773	CTTCTTCTTCTTTTTGCGCGC	59.289	47.619	27.26	27.26	0.00	6.86
2449	3276	3.253371	TCTTCTTCTTCTTTTTGCGCG	57.747	42.857	0.00	0.00	0.00	6.86
2450	3277	5.273944	TCTTTCTTCTTCTTCTTTTTGCGC	58.726	37.500	0.00	0.00	0.00	6.09
2451	3278	7.433425	ACATTCTTTCTTCTTCTTCTTTTTGCG	59.567	33.333	0.00	0.00	0.00	4.85
2452	3279	8.640091	ACATTCTTTCTTCTTCTTCTTTTTGC	57.360	30.769	0.00	0.00	0.00	3.68
2458	3285	9.784531	TGTCAATACATTCTTTCTTCTTCTTCT	57.215	29.630	0.00	0.00	0.00	2.85
2464	3291	9.178758	GGGTTATGTCAATACATTCTTTCTTCT	57.821	33.333	0.00	0.00	44.07	2.85
2465	3292	9.178758	AGGGTTATGTCAATACATTCTTTCTTC	57.821	33.333	0.00	0.00	44.07	2.87
2466	3293	8.960591	CAGGGTTATGTCAATACATTCTTTCTT	58.039	33.333	0.00	0.00	44.07	2.52
2467	3294	8.328758	TCAGGGTTATGTCAATACATTCTTTCT	58.671	33.333	0.00	0.00	44.07	2.52
2545	3556	2.821366	GGACGCCAGCATCACCTG	60.821	66.667	0.00	0.00	0.00	4.00
2579	3590	1.069513	CGGTACAACTCACCTTCACCA	59.930	52.381	0.00	0.00	33.62	4.17
2599	3611	1.880027	ACATCGCCAACTTCTTCAACC	59.120	47.619	0.00	0.00	0.00	3.77

Based at the University of Bristol with support from BBSRC.

AutoCloner maintained by Alex Coulton.