AutoCloner

Multiple sequence alignment - TraesCS5A01G328300

Loading Multiple Alignment...

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	TraesCS5A01G328300	chr5A	100.000	2303	0	0	1	2303	537368062	537370364	0.000000e+00	4253.0
1	TraesCS5A01G328300	chr5B	91.969	1270	57	22	537	1796	511835058	511836292	0.000000e+00	1738.0
2	TraesCS5A01G328300	chr5B	94.563	515	15	5	1799	2303	511836576	511837087	0.000000e+00	784.0
3	TraesCS5A01G328300	chr5D	92.516	1216	58	15	543	1754	423964270	423965456	0.000000e+00	1711.0
4	TraesCS5A01G328300	chr5D	94.358	514	18	4	1799	2303	423965779	423966290	0.000000e+00	778.0
5	TraesCS5A01G328300	chr5D	92.652	313	14	4	826	1129	562709260	562708948	2.100000e-120	442.0
6	TraesCS5A01G328300	chr5D	82.405	449	56	14	2	442	423963099	423963532	1.010000e-98	370.0
7	TraesCS5A01G328300	chr5D	78.894	398	45	19	1891	2264	355431674	355431292	1.380000e-57	233.0
8	TraesCS5A01G328300	chr5D	100.000	29	0	0	1769	1797	423965454	423965482	1.000000e-03	54.7
9	TraesCS5A01G328300	chr7D	86.491	1140	78	27	696	1796	422152791	422151689	0.000000e+00	1182.0
10	TraesCS5A01G328300	chr7B	87.907	984	74	20	838	1796	438950442	438951405	0.000000e+00	1116.0
11	TraesCS5A01G328300	chr7A	88.337	926	57	27	616	1514	511011895	511012796	0.000000e+00	1064.0
12	TraesCS5A01G328300	chr7A	85.496	393	44	8	989	1374	679004277	679003891	4.610000e-107	398.0
13	TraesCS5A01G328300	chr7A	91.829	257	12	3	1540	1796	511012792	511013039	1.310000e-92	350.0
14	TraesCS5A01G328300	chr4B	94.030	603	22	5	1198	1797	4232161	4232752	0.000000e+00	902.0
15	TraesCS5A01G328300	chr4B	94.080	473	16	5	1799	2263	4233050	4233518	0.000000e+00	708.0
16	TraesCS5A01G328300	chr4A	93.575	607	24	8	1198	1800	663652674	663652079	0.000000e+00	891.0
17	TraesCS5A01G328300	chr4A	94.715	473	15	4	1799	2263	663651784	663651314	0.000000e+00	726.0
18	TraesCS5A01G328300	chr4A	88.971	136	11	3	1940	2071	59286720	59286585	5.090000e-37	165.0
19	TraesCS5A01G328300	chr6D	83.830	705	77	21	692	1374	37933790	37934479	8.970000e-179	636.0
20	TraesCS5A01G328300	chr6D	84.000	575	58	22	832	1374	38119713	38120285	2.620000e-144	521.0
21	TraesCS5A01G328300	chr6B	81.368	687	65	37	725	1374	88735883	88736543	3.420000e-138	501.0
22	TraesCS5A01G328300	chr6B	82.332	566	68	21	832	1374	88781201	88781757	1.610000e-126	462.0
23	TraesCS5A01G328300	chr6A	83.619	525	50	22	878	1374	49201970	49202486	5.800000e-126	460.0
24	TraesCS5A01G328300	chr3D	81.991	211	17	11	2016	2226	12523430	12523241	2.370000e-35	159.0
25	TraesCS5A01G328300	chr2D	81.991	211	17	11	2016	2226	229796368	229796179	2.370000e-35	159.0
26	TraesCS5A01G328300	chr1B	80.734	109	16	4	1802	1906	579939527	579939634	1.900000e-11	80.5
27	TraesCS5A01G328300	chr1D	79.817	109	17	4	1802	1906	427629157	427629264	8.820000e-10	75.0

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	TraesCS5A01G328300	chr5A	537368062	537370364	2302	False	4253.000	4253	100.00000	1	2303	1	chr5A.!!$F1	2302
1	TraesCS5A01G328300	chr5B	511835058	511837087	2029	False	1261.000	1738	93.26600	537	2303	2	chr5B.!!$F1	1766
2	TraesCS5A01G328300	chr5D	423963099	423966290	3191	False	728.425	1711	92.31975	2	2303	4	chr5D.!!$F1	2301
3	TraesCS5A01G328300	chr7D	422151689	422152791	1102	True	1182.000	1182	86.49100	696	1796	1	chr7D.!!$R1	1100
4	TraesCS5A01G328300	chr7B	438950442	438951405	963	False	1116.000	1116	87.90700	838	1796	1	chr7B.!!$F1	958
5	TraesCS5A01G328300	chr7A	511011895	511013039	1144	False	707.000	1064	90.08300	616	1796	2	chr7A.!!$F1	1180
6	TraesCS5A01G328300	chr4B	4232161	4233518	1357	False	805.000	902	94.05500	1198	2263	2	chr4B.!!$F1	1065
7	TraesCS5A01G328300	chr4A	663651314	663652674	1360	True	808.500	891	94.14500	1198	2263	2	chr4A.!!$R2	1065
8	TraesCS5A01G328300	chr6D	37933790	37934479	689	False	636.000	636	83.83000	692	1374	1	chr6D.!!$F1	682
9	TraesCS5A01G328300	chr6D	38119713	38120285	572	False	521.000	521	84.00000	832	1374	1	chr6D.!!$F2	542
10	TraesCS5A01G328300	chr6B	88735883	88736543	660	False	501.000	501	81.36800	725	1374	1	chr6B.!!$F1	649
11	TraesCS5A01G328300	chr6B	88781201	88781757	556	False	462.000	462	82.33200	832	1374	1	chr6B.!!$F2	542
12	TraesCS5A01G328300	chr6A	49201970	49202486	516	False	460.000	460	83.61900	878	1374	1	chr6A.!!$F1	496

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
832	1503	0.107848	TCCTCTCCGGCCGAAAATTC	60.108	55.0	30.73	0.0	0.0	2.17	F

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability	Orientation
1761	2560	1.931172	GCTGAATGCCATGCAAATCAC	59.069	47.619	0.0	0.0	43.62	3.06	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
147	151	6.745794	AAAAATTGGAGGAAAGGTCATGAA	57.254	33.333	0.00	0.00	0.00	2.57
151	155	5.726980	TTGGAGGAAAGGTCATGAATTTG	57.273	39.130	10.94	0.00	0.00	2.32
164	168	8.253113	AGGTCATGAATTTGAATAACATTCACC	58.747	33.333	0.00	0.00	32.62	4.02
172	176	9.492973	AATTTGAATAACATTCACCTGGAAAAG	57.507	29.630	0.00	0.00	39.39	2.27
173	177	7.831691	TTGAATAACATTCACCTGGAAAAGA	57.168	32.000	0.00	0.00	39.39	2.52
177	181	8.421249	AATAACATTCACCTGGAAAAGATTGA	57.579	30.769	0.00	0.00	39.39	2.57
182	186	7.712205	ACATTCACCTGGAAAAGATTGAAAAAG	59.288	33.333	0.00	0.00	39.39	2.27
256	264	8.942338	AAAGTTCACTAAATTTGGGAAAAGTC	57.058	30.769	6.50	0.00	32.04	3.01
259	267	7.230712	AGTTCACTAAATTTGGGAAAAGTCGAT	59.769	33.333	6.50	0.00	0.00	3.59
291	299	8.881743	TGAGATGAAAAAGTTCACAAAAATTGG	58.118	29.630	0.00	0.00	46.40	3.16
296	304	9.837525	TGAAAAAGTTCACAAAAATTGGAAATG	57.162	25.926	0.00	0.00	38.88	2.32
302	310	9.617523	AGTTCACAAAAATTGGAAATGATTTCT	57.382	25.926	16.58	0.00	39.59	2.52
334	342	6.538189	AAAAATAACACGCAATTGGGAAAG	57.462	33.333	27.32	17.89	0.00	2.62
337	345	0.673437	ACACGCAATTGGGAAAGGTG	59.327	50.000	27.32	16.89	0.00	4.00
338	346	0.667184	CACGCAATTGGGAAAGGTGC	60.667	55.000	27.32	0.00	0.00	5.01
345	353	4.382901	GCAATTGGGAAAGGTGCATGAATA	60.383	41.667	7.72	0.00	35.28	1.75
350	358	6.371595	TGGGAAAGGTGCATGAATAAAAAT	57.628	33.333	0.00	0.00	0.00	1.82
351	359	6.171921	TGGGAAAGGTGCATGAATAAAAATG	58.828	36.000	0.00	0.00	0.00	2.32
352	360	6.172630	GGGAAAGGTGCATGAATAAAAATGT	58.827	36.000	0.00	0.00	0.00	2.71
353	361	7.038729	TGGGAAAGGTGCATGAATAAAAATGTA	60.039	33.333	0.00	0.00	0.00	2.29
442	468	4.799564	TTGAAAAGAATGTACATGGGCC	57.200	40.909	9.63	0.00	0.00	5.80
443	469	2.752354	TGAAAAGAATGTACATGGGCCG	59.248	45.455	9.63	0.00	0.00	6.13
444	470	1.102978	AAAGAATGTACATGGGCCGC	58.897	50.000	9.63	0.00	0.00	6.53
445	471	0.751643	AAGAATGTACATGGGCCGCC	60.752	55.000	9.63	0.00	0.00	6.13
446	472	2.123897	AATGTACATGGGCCGCCC	60.124	61.111	22.81	22.81	45.71	6.13
455	481	4.130255	GGGCCGCCCATCTAGATA	57.870	61.111	24.62	0.00	44.65	1.98
456	482	2.372852	GGGCCGCCCATCTAGATAA	58.627	57.895	24.62	0.00	44.65	1.75
457	483	0.912486	GGGCCGCCCATCTAGATAAT	59.088	55.000	24.62	0.00	44.65	1.28
458	484	2.116238	GGGCCGCCCATCTAGATAATA	58.884	52.381	24.62	0.00	44.65	0.98
459	485	2.158943	GGGCCGCCCATCTAGATAATAC	60.159	54.545	24.62	0.00	44.65	1.89
460	486	2.766828	GGCCGCCCATCTAGATAATACT	59.233	50.000	4.54	0.00	0.00	2.12
461	487	3.958798	GGCCGCCCATCTAGATAATACTA	59.041	47.826	4.54	0.00	0.00	1.82
462	488	4.404715	GGCCGCCCATCTAGATAATACTAA	59.595	45.833	4.54	0.00	0.00	2.24
463	489	5.070580	GGCCGCCCATCTAGATAATACTAAT	59.929	44.000	4.54	0.00	0.00	1.73
464	490	5.986135	GCCGCCCATCTAGATAATACTAATG	59.014	44.000	4.54	0.00	0.00	1.90
465	491	5.986135	CCGCCCATCTAGATAATACTAATGC	59.014	44.000	4.54	0.00	0.00	3.56
466	492	5.986135	CGCCCATCTAGATAATACTAATGCC	59.014	44.000	4.54	0.00	0.00	4.40
467	493	6.183360	CGCCCATCTAGATAATACTAATGCCT	60.183	42.308	4.54	0.00	0.00	4.75
468	494	7.014326	CGCCCATCTAGATAATACTAATGCCTA	59.986	40.741	4.54	0.00	0.00	3.93
469	495	8.875168	GCCCATCTAGATAATACTAATGCCTAT	58.125	37.037	4.54	0.00	0.00	2.57
475	501	9.737427	CTAGATAATACTAATGCCTATTGACGG	57.263	37.037	0.00	0.00	0.00	4.79
476	502	7.556844	AGATAATACTAATGCCTATTGACGGG	58.443	38.462	0.00	0.00	0.00	5.28
477	503	2.930826	ACTAATGCCTATTGACGGGG	57.069	50.000	0.00	0.00	0.00	5.73
478	504	1.202770	ACTAATGCCTATTGACGGGGC	60.203	52.381	0.00	0.00	45.45	5.80
481	507	2.895372	GCCTATTGACGGGGCGTG	60.895	66.667	0.00	0.00	41.37	5.34
482	508	2.895372	CCTATTGACGGGGCGTGC	60.895	66.667	0.00	0.00	41.37	5.34
483	509	2.125310	CTATTGACGGGGCGTGCA	60.125	61.111	0.00	0.00	41.37	4.57
484	510	1.523711	CTATTGACGGGGCGTGCAT	60.524	57.895	0.00	0.00	41.37	3.96
485	511	1.498865	CTATTGACGGGGCGTGCATC	61.499	60.000	0.00	0.00	41.37	3.91
490	516	4.823419	CGGGGCGTGCATCGGTTA	62.823	66.667	10.02	0.00	40.26	2.85
491	517	2.895372	GGGGCGTGCATCGGTTAG	60.895	66.667	10.02	0.00	40.26	2.34
492	518	3.573491	GGGCGTGCATCGGTTAGC	61.573	66.667	10.02	0.00	40.26	3.09
493	519	2.817834	GGCGTGCATCGGTTAGCA	60.818	61.111	10.02	0.00	40.26	3.49
494	520	2.395360	GGCGTGCATCGGTTAGCAA	61.395	57.895	10.02	0.00	43.20	3.91
495	521	1.499949	GCGTGCATCGGTTAGCAAA	59.500	52.632	10.02	0.00	43.20	3.68
496	522	0.109964	GCGTGCATCGGTTAGCAAAA	60.110	50.000	10.02	0.00	43.20	2.44
497	523	1.467374	GCGTGCATCGGTTAGCAAAAT	60.467	47.619	10.02	0.00	43.20	1.82
498	524	2.176369	CGTGCATCGGTTAGCAAAATG	58.824	47.619	0.00	0.00	43.20	2.32
499	525	1.919918	GTGCATCGGTTAGCAAAATGC	59.080	47.619	0.00	6.50	43.20	3.56
510	536	1.708822	GCAAAATGCAACCTAACCGG	58.291	50.000	0.00	0.00	44.26	5.28
511	537	1.000394	GCAAAATGCAACCTAACCGGT	60.000	47.619	0.00	0.00	44.26	5.28
524	743	0.668401	AACCGGTCTTTAAGGCGTCG	60.668	55.000	8.04	0.00	0.00	5.12
589	1253	5.461078	CAGCCATTCACAAACTCTGAAAAAG	59.539	40.000	0.00	0.00	31.48	2.27
592	1256	6.534793	GCCATTCACAAACTCTGAAAAAGAAA	59.465	34.615	0.00	0.00	33.37	2.52
594	1258	9.101655	CCATTCACAAACTCTGAAAAAGAAATT	57.898	29.630	0.00	0.00	33.37	1.82
638	1302	6.901081	AAAACAAAATTCGAATCTCCCTCT	57.099	33.333	11.83	0.00	0.00	3.69
659	1324	2.511600	CGTCCCCTCGCACCAATC	60.512	66.667	0.00	0.00	0.00	2.67
660	1325	2.668632	GTCCCCTCGCACCAATCA	59.331	61.111	0.00	0.00	0.00	2.57
661	1326	1.745489	GTCCCCTCGCACCAATCAC	60.745	63.158	0.00	0.00	0.00	3.06
662	1327	2.438434	CCCCTCGCACCAATCACC	60.438	66.667	0.00	0.00	0.00	4.02
663	1328	2.350895	CCCTCGCACCAATCACCA	59.649	61.111	0.00	0.00	0.00	4.17
664	1329	1.303236	CCCTCGCACCAATCACCAA	60.303	57.895	0.00	0.00	0.00	3.67
668	1333	1.131126	CTCGCACCAATCACCAATGTC	59.869	52.381	0.00	0.00	0.00	3.06
714	1384	4.681978	CGCCCCGAATCCCGATCC	62.682	72.222	0.00	0.00	41.76	3.36
832	1503	0.107848	TCCTCTCCGGCCGAAAATTC	60.108	55.000	30.73	0.00	0.00	2.17
984	1681	3.470888	CCCCAATCCCGAGAGCGT	61.471	66.667	0.00	0.00	35.23	5.07
1006	1717	1.134848	AGCTCTTCTTCGAGATGGCAC	60.135	52.381	0.00	0.00	32.74	5.01
1158	1890	2.636412	CCTCTTCGCCGTGGAGTCA	61.636	63.158	7.86	0.00	0.00	3.41
1159	1891	1.289066	CTCTTCGCCGTGGAGTCAA	59.711	57.895	0.00	0.00	0.00	3.18
1379	2161	5.416271	TGGACTAGATTGGTTGGTTAGTC	57.584	43.478	0.00	2.24	39.48	2.59
1433	2225	2.875094	AGGAAATGAGCTGCTGAAGT	57.125	45.000	7.01	0.00	0.00	3.01
1518	2310	4.834496	TGAATTGGAATCTGGAACTTTGCT	59.166	37.500	0.00	0.00	0.00	3.91
1580	2373	0.251634	GCTTCTCCAGTTCTCCAGGG	59.748	60.000	0.00	0.00	0.00	4.45
1581	2374	0.908198	CTTCTCCAGTTCTCCAGGGG	59.092	60.000	0.00	0.00	0.00	4.79
1605	2398	5.178797	ACTGTGTGGCACTCTGAATTATAC	58.821	41.667	26.31	11.02	35.11	1.47
1761	2560	1.045911	GTAGAGGGAGCAGGAGGGTG	61.046	65.000	0.00	0.00	0.00	4.61
1797	2596	5.760253	GCATTCAGCACAATATACCAGTACT	59.240	40.000	0.00	0.00	44.79	2.73
1916	3015	2.291209	TGGTTAGGGTGTACGACTGA	57.709	50.000	0.00	0.00	0.00	3.41
1917	3016	2.811410	TGGTTAGGGTGTACGACTGAT	58.189	47.619	0.00	0.00	0.00	2.90
1918	3017	3.167485	TGGTTAGGGTGTACGACTGATT	58.833	45.455	0.00	0.00	0.00	2.57
1963	3063	6.314152	GTCTCCCTTTCTATAGTTTGTTCTGC	59.686	42.308	0.00	0.00	0.00	4.26
1966	3066	5.705441	CCCTTTCTATAGTTTGTTCTGCACA	59.295	40.000	0.00	0.00	0.00	4.57
2126	3233	5.122239	TCATGTTAGATTCAAGGAAGTTGCG	59.878	40.000	0.00	0.00	35.94	4.85

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
43	44	6.398095	TGTGATCTTCTTTCTAATCTGCGAA	58.602	36.000	0.00	0.00	0.00	4.70
137	141	9.643693	GTGAATGTTATTCAAATTCATGACCTT	57.356	29.630	5.86	0.00	41.11	3.50
140	144	9.079833	CAGGTGAATGTTATTCAAATTCATGAC	57.920	33.333	5.86	0.00	41.11	3.06
147	151	8.869109	TCTTTTCCAGGTGAATGTTATTCAAAT	58.131	29.630	5.86	0.00	31.67	2.32
151	155	8.522830	TCAATCTTTTCCAGGTGAATGTTATTC	58.477	33.333	0.00	0.00	31.67	1.75
253	261	9.442047	AACTTTTTCATCTCAAATCTATCGACT	57.558	29.630	0.00	0.00	0.00	4.18
254	262	9.695884	GAACTTTTTCATCTCAAATCTATCGAC	57.304	33.333	0.00	0.00	0.00	4.20
256	264	9.483062	GTGAACTTTTTCATCTCAAATCTATCG	57.517	33.333	0.00	0.00	43.72	2.92
311	319	5.468409	CCTTTCCCAATTGCGTGTTATTTTT	59.532	36.000	0.00	0.00	0.00	1.94
312	320	4.994217	CCTTTCCCAATTGCGTGTTATTTT	59.006	37.500	0.00	0.00	0.00	1.82
313	321	4.039852	ACCTTTCCCAATTGCGTGTTATTT	59.960	37.500	0.00	0.00	0.00	1.40
314	322	3.576550	ACCTTTCCCAATTGCGTGTTATT	59.423	39.130	0.00	0.00	0.00	1.40
315	323	3.056891	CACCTTTCCCAATTGCGTGTTAT	60.057	43.478	0.00	0.00	0.00	1.89
316	324	2.294791	CACCTTTCCCAATTGCGTGTTA	59.705	45.455	0.00	0.00	0.00	2.41
317	325	1.068434	CACCTTTCCCAATTGCGTGTT	59.932	47.619	0.00	0.00	0.00	3.32
318	326	0.673437	CACCTTTCCCAATTGCGTGT	59.327	50.000	0.00	0.00	0.00	4.49
319	327	0.667184	GCACCTTTCCCAATTGCGTG	60.667	55.000	0.00	0.52	0.00	5.34
320	328	1.112315	TGCACCTTTCCCAATTGCGT	61.112	50.000	0.00	0.00	35.90	5.24
321	329	0.247185	ATGCACCTTTCCCAATTGCG	59.753	50.000	0.00	0.00	35.90	4.85
322	330	1.275856	TCATGCACCTTTCCCAATTGC	59.724	47.619	0.00	0.00	0.00	3.56
323	331	3.681593	TTCATGCACCTTTCCCAATTG	57.318	42.857	0.00	0.00	0.00	2.32
326	334	5.815233	TTTTATTCATGCACCTTTCCCAA	57.185	34.783	0.00	0.00	0.00	4.12
398	424	9.883142	TCAATGGTTTTCTCATTTTGTTTACTT	57.117	25.926	0.00	0.00	33.08	2.24
399	425	9.883142	TTCAATGGTTTTCTCATTTTGTTTACT	57.117	25.926	0.00	0.00	33.08	2.24
419	445	5.111293	GGCCCATGTACATTCTTTTCAATG	58.889	41.667	5.37	0.00	39.35	2.82
420	446	4.142182	CGGCCCATGTACATTCTTTTCAAT	60.142	41.667	5.37	0.00	0.00	2.57
421	447	3.192422	CGGCCCATGTACATTCTTTTCAA	59.808	43.478	5.37	0.00	0.00	2.69
442	468	5.986135	GGCATTAGTATTATCTAGATGGGCG	59.014	44.000	15.79	0.00	0.00	6.13
443	469	7.130681	AGGCATTAGTATTATCTAGATGGGC	57.869	40.000	15.79	3.30	0.00	5.36
449	475	9.737427	CCGTCAATAGGCATTAGTATTATCTAG	57.263	37.037	0.00	0.00	0.00	2.43
450	476	8.692710	CCCGTCAATAGGCATTAGTATTATCTA	58.307	37.037	0.00	0.00	0.00	1.98
451	477	7.364762	CCCCGTCAATAGGCATTAGTATTATCT	60.365	40.741	0.00	0.00	0.00	1.98
452	478	6.761714	CCCCGTCAATAGGCATTAGTATTATC	59.238	42.308	0.00	0.00	0.00	1.75
453	479	6.650120	CCCCGTCAATAGGCATTAGTATTAT	58.350	40.000	0.00	0.00	0.00	1.28
454	480	5.570034	GCCCCGTCAATAGGCATTAGTATTA	60.570	44.000	0.00	0.00	46.34	0.98
455	481	4.806286	GCCCCGTCAATAGGCATTAGTATT	60.806	45.833	0.00	0.00	46.34	1.89
456	482	3.307480	GCCCCGTCAATAGGCATTAGTAT	60.307	47.826	0.00	0.00	46.34	2.12
457	483	2.038033	GCCCCGTCAATAGGCATTAGTA	59.962	50.000	0.00	0.00	46.34	1.82
458	484	1.202770	GCCCCGTCAATAGGCATTAGT	60.203	52.381	0.00	0.00	46.34	2.24
459	485	1.523758	GCCCCGTCAATAGGCATTAG	58.476	55.000	0.00	0.00	46.34	1.73
460	486	3.717842	GCCCCGTCAATAGGCATTA	57.282	52.632	0.00	0.00	46.34	1.90
461	487	4.579127	GCCCCGTCAATAGGCATT	57.421	55.556	0.00	0.00	46.34	3.56
464	490	2.895372	CACGCCCCGTCAATAGGC	60.895	66.667	0.00	0.00	38.32	3.93
465	491	2.895372	GCACGCCCCGTCAATAGG	60.895	66.667	0.00	0.00	38.32	2.57
466	492	1.498865	GATGCACGCCCCGTCAATAG	61.499	60.000	0.00	0.00	38.32	1.73
467	493	1.522806	GATGCACGCCCCGTCAATA	60.523	57.895	0.00	0.00	38.32	1.90
468	494	2.824041	GATGCACGCCCCGTCAAT	60.824	61.111	0.00	0.00	38.32	2.57
473	499	4.823419	TAACCGATGCACGCCCCG	62.823	66.667	0.00	0.00	41.07	5.73
474	500	2.895372	CTAACCGATGCACGCCCC	60.895	66.667	0.00	0.00	41.07	5.80
475	501	3.573491	GCTAACCGATGCACGCCC	61.573	66.667	0.00	0.00	41.07	6.13
476	502	1.917782	TTTGCTAACCGATGCACGCC	61.918	55.000	0.00	0.00	39.05	5.68
477	503	0.109964	TTTTGCTAACCGATGCACGC	60.110	50.000	0.00	0.00	39.05	5.34
478	504	2.176369	CATTTTGCTAACCGATGCACG	58.824	47.619	0.00	0.00	39.05	5.34
479	505	1.919918	GCATTTTGCTAACCGATGCAC	59.080	47.619	10.02	0.00	41.92	4.57
480	506	2.276472	GCATTTTGCTAACCGATGCA	57.724	45.000	10.02	0.00	41.92	3.96
481	507	2.276472	TGCATTTTGCTAACCGATGC	57.724	45.000	8.50	8.50	45.31	3.91
482	508	2.923020	GGTTGCATTTTGCTAACCGATG	59.077	45.455	13.89	0.00	45.31	3.84
483	509	3.230743	GGTTGCATTTTGCTAACCGAT	57.769	42.857	13.89	0.00	45.31	4.18
484	510	2.715737	GGTTGCATTTTGCTAACCGA	57.284	45.000	13.89	0.00	45.31	4.69
486	512	4.242475	GGTTAGGTTGCATTTTGCTAACC	58.758	43.478	18.12	18.12	45.83	2.85
487	513	3.917985	CGGTTAGGTTGCATTTTGCTAAC	59.082	43.478	0.75	0.00	45.31	2.34
488	514	3.057174	CCGGTTAGGTTGCATTTTGCTAA	60.057	43.478	0.00	0.00	38.72	3.09
489	515	2.490115	CCGGTTAGGTTGCATTTTGCTA	59.510	45.455	0.00	0.00	38.72	3.49
490	516	1.272212	CCGGTTAGGTTGCATTTTGCT	59.728	47.619	0.00	0.00	38.72	3.91
491	517	1.708822	CCGGTTAGGTTGCATTTTGC	58.291	50.000	0.00	0.00	38.52	3.68
503	529	2.265683	GACGCCTTAAAGACCGGTTAG	58.734	52.381	9.42	1.50	0.00	2.34
504	530	1.402720	CGACGCCTTAAAGACCGGTTA	60.403	52.381	9.42	0.00	0.00	2.85
505	531	0.668401	CGACGCCTTAAAGACCGGTT	60.668	55.000	9.42	0.00	0.00	4.44
506	532	1.080298	CGACGCCTTAAAGACCGGT	60.080	57.895	6.92	6.92	0.00	5.28
507	533	0.388907	TTCGACGCCTTAAAGACCGG	60.389	55.000	0.00	0.00	0.00	5.28
508	534	1.636988	ATTCGACGCCTTAAAGACCG	58.363	50.000	0.00	0.00	0.00	4.79
509	535	2.538861	GCTATTCGACGCCTTAAAGACC	59.461	50.000	0.00	0.00	0.00	3.85
510	536	3.184541	TGCTATTCGACGCCTTAAAGAC	58.815	45.455	0.00	0.00	0.00	3.01
511	537	3.119245	ACTGCTATTCGACGCCTTAAAGA	60.119	43.478	0.00	0.00	0.00	2.52
614	1278	7.996098	AGAGGGAGATTCGAATTTTGTTTTA	57.004	32.000	12.81	0.00	0.00	1.52
619	1283	5.005779	CGTGTAGAGGGAGATTCGAATTTTG	59.994	44.000	12.81	0.00	0.00	2.44
638	1302	3.376078	GGTGCGAGGGGACGTGTA	61.376	66.667	0.00	0.00	34.95	2.90
659	1324	1.709760	CGCGCTGTAGACATTGGTG	59.290	57.895	5.56	0.00	0.00	4.17
660	1325	2.100631	GCGCGCTGTAGACATTGGT	61.101	57.895	26.67	0.00	0.00	3.67
661	1326	1.756375	GAGCGCGCTGTAGACATTGG	61.756	60.000	41.82	0.00	0.00	3.16
662	1327	1.633171	GAGCGCGCTGTAGACATTG	59.367	57.895	41.82	0.00	0.00	2.82
663	1328	1.519455	GGAGCGCGCTGTAGACATT	60.519	57.895	41.82	11.78	0.00	2.71
664	1329	2.105128	GGAGCGCGCTGTAGACAT	59.895	61.111	41.82	12.72	0.00	3.06
685	1351	4.522975	GGGGCGGGGAGGGAAATG	62.523	72.222	0.00	0.00	0.00	2.32
714	1384	0.878416	TTCGCGAAATGTTTGGAGGG	59.122	50.000	21.14	0.00	0.00	4.30
952	1634	4.208686	GGGCTCGGCGAGGTACTG	62.209	72.222	35.03	12.98	41.55	2.74
984	1681	1.135915	GCCATCTCGAAGAAGAGCTGA	59.864	52.381	0.00	0.00	36.73	4.26
1006	1717	3.777925	CTTGTCGGCGCGGTCAAG	61.778	66.667	29.30	29.30	35.05	3.02
1433	2225	8.348285	TGAGGTTTCTCTTTCTTTTCTTTCAA	57.652	30.769	0.00	0.00	40.58	2.69
1692	2490	4.021719	AGCAGTTTCAACATCTTTCCATGG	60.022	41.667	4.97	4.97	0.00	3.66
1761	2560	1.931172	GCTGAATGCCATGCAAATCAC	59.069	47.619	0.00	0.00	43.62	3.06
1797	2596	3.378112	CCTCACTGAAGAGCAAAAACACA	59.622	43.478	0.00	0.00	34.26	3.72
1963	3063	6.557110	TCATCATGATTGCAAAGTACATGTG	58.443	36.000	24.22	21.64	37.22	3.21
1992	3092	6.095860	ACATGGTGTATTGACAAATGATGGAG	59.904	38.462	0.00	0.00	37.31	3.86
2126	3233	6.934645	TGAAATCTGTAATATGAATCGGACCC	59.065	38.462	0.00	0.00	0.00	4.46
2231	3339	5.789574	ACCCCATAAATCTGAGGTACAAA	57.210	39.130	0.00	0.00	0.00	2.83

Based at the University of Bristol with support from BBSRC.

AutoCloner maintained by Alex Coulton.