AutoCloner

Multiple sequence alignment - TraesCS4A01G428100

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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	TraesCS4A01G428100	chr4A	100.000	2594	0	0	1	2594	698920902	698918309	0.000000e+00	4791.0
1	TraesCS4A01G428100	chr4A	89.176	1820	129	29	1	1767	698935148	698933344	0.000000e+00	2207.0
2	TraesCS4A01G428100	chr4A	89.653	1730	115	30	92	1767	698804979	698803260	0.000000e+00	2145.0
3	TraesCS4A01G428100	chr4A	88.284	1818	149	23	1	1767	698170807	698169003	0.000000e+00	2119.0
4	TraesCS4A01G428100	chr4A	87.295	913	74	12	871	1748	698926088	698925183	0.000000e+00	1005.0
5	TraesCS4A01G428100	chr4A	87.778	540	51	8	1	525	698826424	698825885	3.670000e-173	617.0
6	TraesCS4A01G428100	chr4A	87.387	333	29	7	1407	1738	698800758	698800438	1.130000e-98	370.0
7	TraesCS4A01G428100	chr4A	90.991	111	8	1	1647	1757	698825889	698825781	5.780000e-32	148.0
8	TraesCS4A01G428100	chr4A	97.297	37	1	0	1731	1767	698799538	698799502	2.160000e-06	63.9
9	TraesCS4A01G428100	chr4A	100.000	30	0	0	392	421	703605772	703605743	3.610000e-04	56.5
10	TraesCS4A01G428100	chr4A	100.000	30	0	0	392	421	703652025	703651996	3.610000e-04	56.5
11	TraesCS4A01G428100	chr4A	100.000	30	0	0	392	421	703707595	703707566	3.610000e-04	56.5
12	TraesCS4A01G428100	chr7A	88.332	1817	131	22	1	1767	30651455	30653240	0.000000e+00	2106.0
13	TraesCS4A01G428100	chr7A	90.079	252	24	1	634	884	30500647	30500396	2.490000e-85	326.0
14	TraesCS4A01G428100	chr7A	87.843	255	12	10	1016	1270	30457034	30456799	5.470000e-72	281.0
15	TraesCS4A01G428100	chr7D	87.872	1814	145	30	1	1767	30264646	30266431	0.000000e+00	2061.0
16	TraesCS4A01G428100	chr7D	84.054	740	77	19	443	1142	30130754	30130016	0.000000e+00	675.0
17	TraesCS4A01G428100	chr7D	87.842	584	48	8	1023	1584	30104585	30105167	0.000000e+00	664.0
18	TraesCS4A01G428100	chr7D	81.404	855	101	15	1777	2594	204019918	204020751	0.000000e+00	645.0
19	TraesCS4A01G428100	chr7D	83.962	530	48	4	1948	2440	20890261	20890790	8.400000e-130	473.0
20	TraesCS4A01G428100	chr7D	100.000	30	0	0	392	421	27243726	27243697	3.610000e-04	56.5
21	TraesCS4A01G428100	chr2D	79.764	1695	230	67	1	1605	565052175	565053846	0.000000e+00	1125.0
22	TraesCS4A01G428100	chr2D	79.705	1695	231	67	1	1605	565076844	565078515	0.000000e+00	1120.0
23	TraesCS4A01G428100	chr2D	85.797	866	78	14	1767	2594	42890275	42891133	0.000000e+00	876.0
24	TraesCS4A01G428100	chr2D	83.405	934	93	32	676	1577	565090941	565091844	0.000000e+00	809.0
25	TraesCS4A01G428100	chr2D	82.267	547	72	9	2073	2594	542498918	542499464	1.420000e-122	449.0
26	TraesCS4A01G428100	chr5B	85.497	855	83	17	1777	2594	539767355	539766505	0.000000e+00	854.0
27	TraesCS4A01G428100	chr6A	84.912	855	91	6	1777	2594	601485084	601484231	0.000000e+00	830.0
28	TraesCS4A01G428100	chr2A	82.784	970	105	27	676	1605	705531999	705532946	0.000000e+00	809.0
29	TraesCS4A01G428100	chr2A	76.714	846	133	41	1791	2594	605368303	605369126	1.860000e-111	412.0
30	TraesCS4A01G428100	chr2A	85.075	402	54	5	1	397	705531244	705531644	3.110000e-109	405.0
31	TraesCS4A01G428100	chr4B	84.266	858	94	13	1777	2594	671726366	671725510	0.000000e+00	798.0
32	TraesCS4A01G428100	chr6B	83.294	856	101	17	1777	2594	34509079	34508228	0.000000e+00	750.0
33	TraesCS4A01G428100	chr6D	83.314	845	95	29	1791	2594	108156022	108155183	0.000000e+00	737.0
34	TraesCS4A01G428100	chr7B	84.722	504	59	9	1777	2267	84670848	84671346	3.000000e-134	488.0
35	TraesCS4A01G428100	chr7B	83.592	451	52	9	1768	2207	745808313	745808752	1.120000e-108	403.0
36	TraesCS4A01G428100	chr7B	83.333	444	50	8	1777	2207	745925130	745925562	3.130000e-104	388.0
37	TraesCS4A01G428100	chr7B	82.705	451	56	10	1768	2207	745842322	745842761	5.240000e-102	381.0
38	TraesCS4A01G428100	chr7B	80.813	443	63	10	1777	2207	745890226	745890658	6.920000e-86	327.0
39	TraesCS4A01G428100	chr5A	83.836	464	49	11	2156	2594	709717268	709716806	3.990000e-113	418.0
40	TraesCS4A01G428100	chr5A	84.026	457	48	9	2163	2594	709466656	709466200	1.440000e-112	416.0
41	TraesCS4A01G428100	chr2B	85.101	396	56	2	1	393	676746987	676747382	4.020000e-108	401.0
42	TraesCS4A01G428100	chr1D	83.738	412	42	6	2208	2594	360851435	360851024	1.470000e-97	366.0
43	TraesCS4A01G428100	chr1D	80.396	454	62	13	2167	2594	3821294	3821746	1.160000e-83	320.0

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	TraesCS4A01G428100	chr4A	698918309	698920902	2593	True	4791.000000	4791	100.000000	1	2594	1	chr4A.!!$R2	2593
1	TraesCS4A01G428100	chr4A	698933344	698935148	1804	True	2207.000000	2207	89.176000	1	1767	1	chr4A.!!$R4	1766
2	TraesCS4A01G428100	chr4A	698169003	698170807	1804	True	2119.000000	2119	88.284000	1	1767	1	chr4A.!!$R1	1766
3	TraesCS4A01G428100	chr4A	698925183	698926088	905	True	1005.000000	1005	87.295000	871	1748	1	chr4A.!!$R3	877
4	TraesCS4A01G428100	chr4A	698799502	698804979	5477	True	859.633333	2145	91.445667	92	1767	3	chr4A.!!$R8	1675
5	TraesCS4A01G428100	chr4A	698825781	698826424	643	True	382.500000	617	89.384500	1	1757	2	chr4A.!!$R9	1756
6	TraesCS4A01G428100	chr7A	30651455	30653240	1785	False	2106.000000	2106	88.332000	1	1767	1	chr7A.!!$F1	1766
7	TraesCS4A01G428100	chr7D	30264646	30266431	1785	False	2061.000000	2061	87.872000	1	1767	1	chr7D.!!$F3	1766
8	TraesCS4A01G428100	chr7D	30130016	30130754	738	True	675.000000	675	84.054000	443	1142	1	chr7D.!!$R2	699
9	TraesCS4A01G428100	chr7D	30104585	30105167	582	False	664.000000	664	87.842000	1023	1584	1	chr7D.!!$F2	561
10	TraesCS4A01G428100	chr7D	204019918	204020751	833	False	645.000000	645	81.404000	1777	2594	1	chr7D.!!$F4	817
11	TraesCS4A01G428100	chr7D	20890261	20890790	529	False	473.000000	473	83.962000	1948	2440	1	chr7D.!!$F1	492
12	TraesCS4A01G428100	chr2D	565052175	565053846	1671	False	1125.000000	1125	79.764000	1	1605	1	chr2D.!!$F3	1604
13	TraesCS4A01G428100	chr2D	565076844	565078515	1671	False	1120.000000	1120	79.705000	1	1605	1	chr2D.!!$F4	1604
14	TraesCS4A01G428100	chr2D	42890275	42891133	858	False	876.000000	876	85.797000	1767	2594	1	chr2D.!!$F1	827
15	TraesCS4A01G428100	chr2D	565090941	565091844	903	False	809.000000	809	83.405000	676	1577	1	chr2D.!!$F5	901
16	TraesCS4A01G428100	chr2D	542498918	542499464	546	False	449.000000	449	82.267000	2073	2594	1	chr2D.!!$F2	521
17	TraesCS4A01G428100	chr5B	539766505	539767355	850	True	854.000000	854	85.497000	1777	2594	1	chr5B.!!$R1	817
18	TraesCS4A01G428100	chr6A	601484231	601485084	853	True	830.000000	830	84.912000	1777	2594	1	chr6A.!!$R1	817
19	TraesCS4A01G428100	chr2A	705531244	705532946	1702	False	607.000000	809	83.929500	1	1605	2	chr2A.!!$F2	1604
20	TraesCS4A01G428100	chr2A	605368303	605369126	823	False	412.000000	412	76.714000	1791	2594	1	chr2A.!!$F1	803
21	TraesCS4A01G428100	chr4B	671725510	671726366	856	True	798.000000	798	84.266000	1777	2594	1	chr4B.!!$R1	817
22	TraesCS4A01G428100	chr6B	34508228	34509079	851	True	750.000000	750	83.294000	1777	2594	1	chr6B.!!$R1	817
23	TraesCS4A01G428100	chr6D	108155183	108156022	839	True	737.000000	737	83.314000	1791	2594	1	chr6D.!!$R1	803

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
622	688	0.106419	AACACGAACACCACCCCATT	60.106	50.0	0.0	0.0	0.0	3.16	F

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability	Orientation
1624	1835	0.24912	TTGTACCCGAGCAGGACATG	59.751	55.0	0.0	0.0	45.0	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
397	402	0.238289	GTTCACCACCATGCTCGTTG	59.762	55.000	0.00	0.00	0.00	4.10
398	403	0.107643	TTCACCACCATGCTCGTTGA	59.892	50.000	0.00	0.00	0.00	3.18
418	423	2.920524	AGCTTGATGATGAGCTCCTTG	58.079	47.619	12.15	0.00	45.68	3.61
419	424	2.504585	AGCTTGATGATGAGCTCCTTGA	59.495	45.455	12.15	0.00	45.68	3.02
420	425	2.873472	GCTTGATGATGAGCTCCTTGAG	59.127	50.000	12.15	1.52	36.01	3.02
478	516	4.419921	ATTTGGTCCCGACGGCCC	62.420	66.667	8.86	11.12	0.00	5.80
575	635	2.223688	GCTCGCTCTCTTCTTGCTATGA	60.224	50.000	0.00	0.00	0.00	2.15
576	636	3.552684	GCTCGCTCTCTTCTTGCTATGAT	60.553	47.826	0.00	0.00	0.00	2.45
581	641	5.299148	GCTCTCTTCTTGCTATGATGTCAT	58.701	41.667	0.68	0.68	40.22	3.06
611	677	2.547798	GGCGACGGAAACACGAAC	59.452	61.111	0.00	0.00	37.61	3.95
622	688	0.106419	AACACGAACACCACCCCATT	60.106	50.000	0.00	0.00	0.00	3.16
659	764	0.674895	GAGCTTTGATGTGGCCGACT	60.675	55.000	0.00	0.00	0.00	4.18
663	768	0.888736	TTTGATGTGGCCGACTGTGG	60.889	55.000	0.00	0.00	0.00	4.17
664	769	1.763546	TTGATGTGGCCGACTGTGGA	61.764	55.000	0.00	0.00	0.00	4.02
665	770	1.448540	GATGTGGCCGACTGTGGAG	60.449	63.158	0.00	0.00	0.00	3.86
666	771	2.859273	GATGTGGCCGACTGTGGAGG	62.859	65.000	0.00	0.00	0.00	4.30
670	775	4.008933	GCCGACTGTGGAGGCTGT	62.009	66.667	10.21	0.00	46.83	4.40
671	776	2.047844	CCGACTGTGGAGGCTGTG	60.048	66.667	0.00	0.00	0.00	3.66
672	777	2.047844	CGACTGTGGAGGCTGTGG	60.048	66.667	0.00	0.00	0.00	4.17
673	778	2.574018	CGACTGTGGAGGCTGTGGA	61.574	63.158	0.00	0.00	0.00	4.02
674	779	1.004440	GACTGTGGAGGCTGTGGAC	60.004	63.158	0.00	0.00	0.00	4.02
677	794	2.048127	GTGGAGGCTGTGGACGTC	60.048	66.667	7.13	7.13	0.00	4.34
725	852	2.569059	CACGACTACGGGGATCTAGAA	58.431	52.381	0.00	0.00	44.46	2.10
770	901	1.141019	GCAGCGTATCGGGAACTCA	59.859	57.895	0.00	0.00	0.00	3.41
1095	1258	1.366319	AGACCAGCAACATCCTCCTT	58.634	50.000	0.00	0.00	0.00	3.36
1217	1386	4.338710	GGGCACGCAGGGTTACCA	62.339	66.667	2.98	0.00	40.13	3.25
1296	1465	1.373497	CGTCGTCCTGCTTCAGCTT	60.373	57.895	0.00	0.00	42.66	3.74
1297	1466	1.347817	CGTCGTCCTGCTTCAGCTTC	61.348	60.000	0.00	0.00	42.66	3.86
1519	1730	3.825160	TTGAGGTGTGTGGCTCGGC	62.825	63.158	0.00	0.00	0.00	5.54
1605	1816	2.835764	AGGACATTAAACTGCGACCCTA	59.164	45.455	0.00	0.00	0.00	3.53
1607	1818	2.608090	GACATTAAACTGCGACCCTAGC	59.392	50.000	0.00	0.00	0.00	3.42
1608	1819	2.236395	ACATTAAACTGCGACCCTAGCT	59.764	45.455	0.00	0.00	35.28	3.32
1610	1821	1.552578	TAAACTGCGACCCTAGCTCA	58.447	50.000	0.00	0.00	35.28	4.26
1611	1822	0.247736	AAACTGCGACCCTAGCTCAG	59.752	55.000	0.00	0.00	35.28	3.35
1612	1823	1.608717	AACTGCGACCCTAGCTCAGG	61.609	60.000	0.00	0.00	45.07	3.86
1613	1824	3.438017	CTGCGACCCTAGCTCAGGC	62.438	68.421	0.00	0.00	43.98	4.85
1716	4776	3.561725	GCATCCTATAGACTTGTGTTGCC	59.438	47.826	0.00	0.00	0.00	4.52
1758	5725	4.385358	AAAACAAACATCCACAGGTGTC	57.615	40.909	0.00	0.00	0.00	3.67
1767	5734	3.380479	TCCACAGGTGTCTCTAAAACG	57.620	47.619	0.00	0.00	0.00	3.60
1768	5735	2.036733	TCCACAGGTGTCTCTAAAACGG	59.963	50.000	0.00	0.00	0.00	4.44
1769	5736	1.798813	CACAGGTGTCTCTAAAACGGC	59.201	52.381	0.00	0.00	0.00	5.68
1770	5737	1.692519	ACAGGTGTCTCTAAAACGGCT	59.307	47.619	0.00	0.00	0.00	5.52
1771	5738	2.104281	ACAGGTGTCTCTAAAACGGCTT	59.896	45.455	0.00	0.00	0.00	4.35
1772	5739	2.737252	CAGGTGTCTCTAAAACGGCTTC	59.263	50.000	0.00	0.00	0.00	3.86
1773	5740	2.367567	AGGTGTCTCTAAAACGGCTTCA	59.632	45.455	0.00	0.00	0.00	3.02
1774	5741	3.008049	AGGTGTCTCTAAAACGGCTTCAT	59.992	43.478	0.00	0.00	0.00	2.57
1775	5742	3.751698	GGTGTCTCTAAAACGGCTTCATT	59.248	43.478	0.00	0.00	0.00	2.57
1784	5751	2.361104	GGCTTCATTGGGTCCGCA	60.361	61.111	0.00	0.00	0.00	5.69
1823	5790	4.169696	CGCCGGCCCTAATGGACA	62.170	66.667	23.46	0.00	45.87	4.02
1945	5917	4.966274	ACGCCCCAGGTGGTGGTA	62.966	66.667	11.13	0.00	46.37	3.25
1946	5918	4.404098	CGCCCCAGGTGGTGGTAC	62.404	72.222	0.00	0.00	46.37	3.34
1991	5963	0.106719	GGCTATACCTGCTTTGCCCA	60.107	55.000	0.00	0.00	34.81	5.36
2033	6005	2.281761	CCTTGGCAGCGGTCACTT	60.282	61.111	0.00	0.00	0.00	3.16
2045	6020	2.114411	TCACTTTTCCGGTGGCCC	59.886	61.111	0.00	0.00	35.61	5.80
2075	6062	0.701731	TAAGGTTGGTGATGGTGGGG	59.298	55.000	0.00	0.00	0.00	4.96
2140	6127	4.068599	AGAAGAAGAAACTGCCTTGCTAC	58.931	43.478	0.00	0.00	0.00	3.58
2233	6221	3.626924	GTGACCGGTGACTGCCCT	61.627	66.667	17.69	0.00	0.00	5.19
2237	6225	2.681778	CCGGTGACTGCCCTCTCT	60.682	66.667	0.00	0.00	0.00	3.10
2262	6251	1.637035	GGTCCTAAGCCAGGGGTTAAA	59.363	52.381	10.82	0.75	45.58	1.52
2269	6258	5.247337	CCTAAGCCAGGGGTTAAAATTTTCA	59.753	40.000	6.72	0.00	41.26	2.69
2274	6263	5.221641	GCCAGGGGTTAAAATTTTCAGAGTT	60.222	40.000	6.72	0.00	0.00	3.01
2425	6439	3.708403	ATCAGTGGCATCTTGACAAGA	57.292	42.857	19.85	19.85	36.98	3.02
2507	6521	1.279271	GTGGGGTATGTGCAGAGTTCT	59.721	52.381	0.00	0.00	0.00	3.01
2509	6523	1.279271	GGGGTATGTGCAGAGTTCTGT	59.721	52.381	10.57	0.00	45.45	3.41
2524	6538	6.313905	CAGAGTTCTGTGTACCAACATTATCC	59.686	42.308	0.91	0.00	38.08	2.59
2555	6569	1.490490	TGAGTGGAAGGAGCAACAACT	59.510	47.619	0.00	0.00	0.00	3.16

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
402	407	3.870274	CAACTCAAGGAGCTCATCATCA	58.130	45.455	17.19	0.00	32.04	3.07
403	408	2.613133	GCAACTCAAGGAGCTCATCATC	59.387	50.000	17.19	0.00	32.04	2.92
405	410	1.339438	GGCAACTCAAGGAGCTCATCA	60.339	52.381	17.19	0.00	32.04	3.07
409	414	1.743252	CCGGCAACTCAAGGAGCTC	60.743	63.158	4.71	4.71	32.04	4.09
413	418	2.347490	GCTCCGGCAACTCAAGGA	59.653	61.111	0.00	0.00	38.54	3.36
415	420	1.743252	GAGGCTCCGGCAACTCAAG	60.743	63.158	2.15	0.00	40.87	3.02
416	421	2.347490	GAGGCTCCGGCAACTCAA	59.653	61.111	2.15	0.00	40.87	3.02
417	422	3.706373	GGAGGCTCCGGCAACTCA	61.706	66.667	19.53	0.00	40.87	3.41
498	554	2.343758	CCGACAGTGACCCACCAG	59.656	66.667	0.00	0.00	34.49	4.00
600	660	1.449726	GGGGTGGTGTTCGTGTTTCC	61.450	60.000	0.00	0.00	0.00	3.13
611	677	3.384532	GCCTGCAATGGGGTGGTG	61.385	66.667	0.00	0.00	0.00	4.17
636	723	1.136147	GCCACATCAAAGCTCGCTG	59.864	57.895	0.00	0.00	0.00	5.18
639	726	1.741401	TCGGCCACATCAAAGCTCG	60.741	57.895	2.24	0.00	0.00	5.03
659	764	2.842462	ACGTCCACAGCCTCCACA	60.842	61.111	0.00	0.00	0.00	4.17
667	772	4.778415	CCTCGCGGACGTCCACAG	62.778	72.222	32.80	22.90	41.18	3.66
725	852	2.093447	CGAGAAACCTGATGTAGCCCTT	60.093	50.000	0.00	0.00	0.00	3.95
1217	1386	4.430765	CCACGTACTCGGGCGCTT	62.431	66.667	7.64	0.00	39.39	4.68
1296	1465	2.683933	GCCTCCTTCCCGGACAGA	60.684	66.667	0.73	0.00	36.69	3.41
1297	1466	4.148825	CGCCTCCTTCCCGGACAG	62.149	72.222	0.73	0.00	36.69	3.51
1343	1533	0.388649	CACCTTCCCGTCGTTCTCAG	60.389	60.000	0.00	0.00	0.00	3.35
1346	1536	1.835712	ACCACCTTCCCGTCGTTCT	60.836	57.895	0.00	0.00	0.00	3.01
1402	1592	2.780094	CCAGCAGATCGTCCTCGCT	61.780	63.158	0.00	0.00	36.96	4.93
1458	1669	2.775032	CCACGTCCAACGGGTACTGG	62.775	65.000	4.37	0.00	44.93	4.00
1607	1818	2.169352	ACATGCAGTAGGTAAGCCTGAG	59.831	50.000	0.00	0.00	46.47	3.35
1608	1819	2.168521	GACATGCAGTAGGTAAGCCTGA	59.831	50.000	0.00	0.00	46.47	3.86
1611	1822	1.486726	AGGACATGCAGTAGGTAAGCC	59.513	52.381	0.00	0.00	0.00	4.35
1612	1823	2.555199	CAGGACATGCAGTAGGTAAGC	58.445	52.381	0.00	0.00	0.00	3.09
1624	1835	0.249120	TTGTACCCGAGCAGGACATG	59.751	55.000	0.00	0.00	45.00	3.21
1625	1836	1.204146	ATTGTACCCGAGCAGGACAT	58.796	50.000	0.00	0.00	45.00	3.06
1639	4697	7.672240	TGTGTCACTAATGTGGACTTATTGTA	58.328	34.615	4.27	0.00	43.94	2.41
1716	4776	7.546316	TGTTTTATTTGATTGATGATGGTGCTG	59.454	33.333	0.00	0.00	0.00	4.41
1758	5725	3.081804	ACCCAATGAAGCCGTTTTAGAG	58.918	45.455	0.00	0.00	0.00	2.43
1767	5734	2.361104	TGCGGACCCAATGAAGCC	60.361	61.111	0.00	0.00	0.00	4.35
1768	5735	2.877691	GTGCGGACCCAATGAAGC	59.122	61.111	0.00	0.00	0.00	3.86
1769	5736	2.398554	CCGTGCGGACCCAATGAAG	61.399	63.158	4.35	0.00	37.50	3.02
1770	5737	2.359354	CCGTGCGGACCCAATGAA	60.359	61.111	4.35	0.00	37.50	2.57
1771	5738	3.315140	TCCGTGCGGACCCAATGA	61.315	61.111	9.48	0.00	39.76	2.57
1784	5751	4.630069	CGACTCCTTCAACAAAATATCCGT	59.370	41.667	0.00	0.00	0.00	4.69
1941	5913	2.103094	GCTGCTGTGATATCCAGTACCA	59.897	50.000	17.32	9.65	32.41	3.25
1945	5917	1.474677	GCAGCTGCTGTGATATCCAGT	60.475	52.381	31.33	1.67	38.21	4.00
1946	5918	1.227639	GCAGCTGCTGTGATATCCAG	58.772	55.000	31.33	13.78	38.21	3.86
1991	5963	1.666011	CTGTGTCTACAGCCACCGT	59.334	57.895	0.00	0.00	46.93	4.83
2045	6020	1.561542	ACCAACCTTAGCAGATCCAGG	59.438	52.381	0.00	0.00	0.00	4.45
2051	6026	1.985159	ACCATCACCAACCTTAGCAGA	59.015	47.619	0.00	0.00	0.00	4.26
2075	6062	4.179579	GCCATCCGCTTTGTCCGC	62.180	66.667	0.00	0.00	0.00	5.54
2173	6160	8.916654	CAGTAGTCACAAAGTTCATTAGTACAG	58.083	37.037	0.00	0.00	0.00	2.74
2233	6221	1.183549	GGCTTAGGACCGACAAGAGA	58.816	55.000	7.48	0.00	0.00	3.10
2262	6251	5.663456	TCTTTGCAGCAAACTCTGAAAATT	58.337	33.333	16.93	0.00	39.98	1.82
2269	6258	3.282021	TCAACTCTTTGCAGCAAACTCT	58.718	40.909	16.93	0.00	32.17	3.24
2274	6263	4.389890	AAACATCAACTCTTTGCAGCAA	57.610	36.364	2.83	2.83	32.17	3.91
2308	6298	0.998928	TGGGTCATAGGTGCCACATT	59.001	50.000	0.00	0.00	0.00	2.71
2425	6439	2.840651	CCTTGTAAGTCTGGTCCTCCAT	59.159	50.000	0.00	0.00	43.43	3.41
2463	6477	9.674824	CACTTAAGAATATGCAATTGATCCTTC	57.325	33.333	10.34	6.41	0.00	3.46
2464	6478	8.636213	CCACTTAAGAATATGCAATTGATCCTT	58.364	33.333	10.34	5.58	0.00	3.36
2507	6521	3.265737	AGCCAGGATAATGTTGGTACACA	59.734	43.478	0.00	0.00	39.29	3.72
2509	6523	4.584638	AAGCCAGGATAATGTTGGTACA	57.415	40.909	0.00	0.00	38.95	2.90
2524	6538	2.005451	CTTCCACTCATCGAAAGCCAG	58.995	52.381	0.00	0.00	0.00	4.85
2555	6569	5.516984	CCTTCTCTAAAGGTGTACCCTCTA	58.483	45.833	3.68	0.00	45.47	2.43

Based at the University of Bristol with support from BBSRC.

AutoCloner maintained by Alex Coulton.