AutoCloner

Multiple sequence alignment - TraesCS4B01G163200

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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	TraesCS4B01G163200	chr4B	100.000	2792	0	0	1	2792	332574119	332576910	0.000000e+00	5156
1	TraesCS4B01G163200	chr4B	78.846	520	105	4	2235	2751	244656703	244656186	2.060000e-91	346
2	TraesCS4B01G163200	chr4B	78.462	520	107	4	2235	2751	244644782	244644265	4.460000e-88	335
3	TraesCS4B01G163200	chr4D	95.858	2028	70	6	211	2231	118551853	118549833	0.000000e+00	3267
4	TraesCS4B01G163200	chr4D	89.908	109	11	0	2	110	118551962	118551854	1.040000e-29	141
5	TraesCS4B01G163200	chr4A	90.866	1489	87	17	5	1491	615222561	615221120	0.000000e+00	1951
6	TraesCS4B01G163200	chr4A	95.374	454	18	3	1495	1947	615219174	615218723	0.000000e+00	719
7	TraesCS4B01G163200	chr4A	96.939	294	6	1	1942	2232	615218696	615218403	8.990000e-135	490
8	TraesCS4B01G163200	chr5A	90.654	1498	86	19	2	1491	482741534	482740083	0.000000e+00	1941
9	TraesCS4B01G163200	chr5A	94.714	454	21	3	1498	1950	482738135	482737684	0.000000e+00	702
10	TraesCS4B01G163200	chr5A	94.444	180	6	2	1942	2118	482737660	482737482	9.850000e-70	274
11	TraesCS4B01G163200	chr3A	89.632	1495	100	22	2	1491	322330267	322328823	0.000000e+00	1851
12	TraesCS4B01G163200	chr3A	89.245	1060	65	12	2	1060	180128102	180127091	0.000000e+00	1280
13	TraesCS4B01G163200	chr3A	93.677	775	44	3	718	1491	238190195	238189425	0.000000e+00	1155
14	TraesCS4B01G163200	chr3A	95.374	454	18	3	1495	1947	180126824	180126373	0.000000e+00	719
15	TraesCS4B01G163200	chr3A	94.714	454	20	4	1495	1947	322326880	322326430	0.000000e+00	702
16	TraesCS4B01G163200	chr3A	96.928	293	6	1	1942	2231	180126346	180126054	3.230000e-134	488
17	TraesCS4B01G163200	chr3A	91.321	265	20	2	1683	1947	238187591	238187330	2.640000e-95	359
18	TraesCS4B01G163200	chr2A	89.692	1494	94	24	2	1491	604627404	604625967	0.000000e+00	1851
19	TraesCS4B01G163200	chr2A	94.934	454	20	3	1495	1947	604624021	604623570	0.000000e+00	708
20	TraesCS4B01G163200	chr2A	96.271	295	7	2	1942	2233	604623543	604623250	5.410000e-132	481
21	TraesCS4B01G163200	chr5B	89.611	1492	91	21	2	1491	24175172	24176601	0.000000e+00	1838
22	TraesCS4B01G163200	chr5B	94.934	454	19	4	1495	1947	24178544	24178994	0.000000e+00	708
23	TraesCS4B01G163200	chr7A	89.057	1060	67	12	2	1060	577148440	577147429	0.000000e+00	1269
24	TraesCS4B01G163200	chr7A	95.154	454	19	3	1495	1947	577147162	577146711	0.000000e+00	713
25	TraesCS4B01G163200	chr7A	96.928	293	6	1	1942	2231	577146684	577146392	3.230000e-134	488
26	TraesCS4B01G163200	chr7A	87.619	105	13	0	196	300	9013483	9013379	3.780000e-24	122
27	TraesCS4B01G163200	chr5D	83.274	562	89	5	2232	2792	148490648	148490091	1.920000e-141	512
28	TraesCS4B01G163200	chr5D	77.647	510	104	9	2250	2752	96644525	96645031	4.520000e-78	302
29	TraesCS4B01G163200	chr5D	77.059	510	106	10	2250	2752	96650511	96651016	1.640000e-72	283
30	TraesCS4B01G163200	chr3D	82.028	562	99	2	2232	2792	265939051	265939611	7.000000e-131	477
31	TraesCS4B01G163200	chr7B	81.851	562	93	7	2232	2792	346603542	346604095	5.450000e-127	464
32	TraesCS4B01G163200	chr2B	81.532	509	88	6	2234	2738	316146557	316146051	5.560000e-112	414
33	TraesCS4B01G163200	chr1D	78.339	554	116	4	2241	2792	155218805	155218254	3.420000e-94	355
34	TraesCS4B01G163200	chr2D	92.784	194	14	0	2038	2231	82738708	82738515	5.890000e-72	281
35	TraesCS4B01G163200	chr1B	90.206	194	19	0	2038	2231	358708894	358709087	1.280000e-63	254
36	TraesCS4B01G163200	chrUn	96.460	113	1	3	1495	1606	480551244	480551354	1.710000e-42	183

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	TraesCS4B01G163200	chr4B	332574119	332576910	2791	False	5156.000000	5156	100.000000	1	2792	1	chr4B.!!$F1	2791
1	TraesCS4B01G163200	chr4B	244656186	244656703	517	True	346.000000	346	78.846000	2235	2751	1	chr4B.!!$R2	516
2	TraesCS4B01G163200	chr4B	244644265	244644782	517	True	335.000000	335	78.462000	2235	2751	1	chr4B.!!$R1	516
3	TraesCS4B01G163200	chr4D	118549833	118551962	2129	True	1704.000000	3267	92.883000	2	2231	2	chr4D.!!$R1	2229
4	TraesCS4B01G163200	chr4A	615218403	615222561	4158	True	1053.333333	1951	94.393000	5	2232	3	chr4A.!!$R1	2227
5	TraesCS4B01G163200	chr5A	482737482	482741534	4052	True	972.333333	1941	93.270667	2	2118	3	chr5A.!!$R1	2116
6	TraesCS4B01G163200	chr3A	322326430	322330267	3837	True	1276.500000	1851	92.173000	2	1947	2	chr3A.!!$R3	1945
7	TraesCS4B01G163200	chr3A	180126054	180128102	2048	True	829.000000	1280	93.849000	2	2231	3	chr3A.!!$R1	2229
8	TraesCS4B01G163200	chr3A	238187330	238190195	2865	True	757.000000	1155	92.499000	718	1947	2	chr3A.!!$R2	1229
9	TraesCS4B01G163200	chr2A	604623250	604627404	4154	True	1013.333333	1851	93.632333	2	2233	3	chr2A.!!$R1	2231
10	TraesCS4B01G163200	chr5B	24175172	24178994	3822	False	1273.000000	1838	92.272500	2	1947	2	chr5B.!!$F1	1945
11	TraesCS4B01G163200	chr7A	577146392	577148440	2048	True	823.333333	1269	93.713000	2	2231	3	chr7A.!!$R2	2229
12	TraesCS4B01G163200	chr5D	148490091	148490648	557	True	512.000000	512	83.274000	2232	2792	1	chr5D.!!$R1	560
13	TraesCS4B01G163200	chr5D	96644525	96645031	506	False	302.000000	302	77.647000	2250	2752	1	chr5D.!!$F1	502
14	TraesCS4B01G163200	chr5D	96650511	96651016	505	False	283.000000	283	77.059000	2250	2752	1	chr5D.!!$F2	502
15	TraesCS4B01G163200	chr3D	265939051	265939611	560	False	477.000000	477	82.028000	2232	2792	1	chr3D.!!$F1	560
16	TraesCS4B01G163200	chr7B	346603542	346604095	553	False	464.000000	464	81.851000	2232	2792	1	chr7B.!!$F1	560
17	TraesCS4B01G163200	chr2B	316146051	316146557	506	True	414.000000	414	81.532000	2234	2738	1	chr2B.!!$R1	504
18	TraesCS4B01G163200	chr1D	155218254	155218805	551	True	355.000000	355	78.339000	2241	2792	1	chr1D.!!$R1	551

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
365	439	0.044855	ATGTAGGTGCCTTCCTCCCT	59.955	55.0	0.0	0.0	38.86	4.2	F

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability	Orientation
2247	4330	0.407528	TCAATGCCTTGGGGTTGCTA	59.592	50.0	1.68	0.0	32.95	3.49	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
21	22	2.100916	GCTCCTAGATCCGTAGCAACAA	59.899	50.000	0.00	0.00	33.38	2.83
24	25	4.215908	TCCTAGATCCGTAGCAACAAGAT	58.784	43.478	0.00	0.00	0.00	2.40
33	34	4.094887	CCGTAGCAACAAGATAAGCACAAT	59.905	41.667	0.00	0.00	0.00	2.71
34	35	5.293324	CCGTAGCAACAAGATAAGCACAATA	59.707	40.000	0.00	0.00	0.00	1.90
48	49	1.933853	CACAATACCGTAGCTCAAGGC	59.066	52.381	0.00	0.00	42.19	4.35
81	82	4.037565	ACGCTGATGCATCAAATTCATCAT	59.962	37.500	28.39	5.84	43.63	2.45
82	83	5.239963	ACGCTGATGCATCAAATTCATCATA	59.760	36.000	28.39	2.97	43.63	2.15
86	87	7.336161	TGATGCATCAAATTCATCATACACA	57.664	32.000	26.87	0.00	40.91	3.72
125	126	2.227089	GACGGCCATCACCTCGTCTT	62.227	60.000	2.24	0.00	45.61	3.01
129	130	1.689273	GGCCATCACCTCGTCTTCTAT	59.311	52.381	0.00	0.00	0.00	1.98
151	166	1.524621	CATCCATCTCCACGGTGCC	60.525	63.158	1.68	0.00	0.00	5.01
165	204	0.258774	GGTGCCCTCTCTCTCTCTCT	59.741	60.000	0.00	0.00	0.00	3.10
166	205	1.680338	GTGCCCTCTCTCTCTCTCTC	58.320	60.000	0.00	0.00	0.00	3.20
167	206	1.212935	GTGCCCTCTCTCTCTCTCTCT	59.787	57.143	0.00	0.00	0.00	3.10
168	207	1.490490	TGCCCTCTCTCTCTCTCTCTC	59.510	57.143	0.00	0.00	0.00	3.20
170	209	2.224402	GCCCTCTCTCTCTCTCTCTCTC	60.224	59.091	0.00	0.00	0.00	3.20
171	210	3.312890	CCCTCTCTCTCTCTCTCTCTCT	58.687	54.545	0.00	0.00	0.00	3.10
172	211	3.323403	CCCTCTCTCTCTCTCTCTCTCTC	59.677	56.522	0.00	0.00	0.00	3.20
173	212	4.222336	CCTCTCTCTCTCTCTCTCTCTCT	58.778	52.174	0.00	0.00	0.00	3.10
174	213	4.280677	CCTCTCTCTCTCTCTCTCTCTCTC	59.719	54.167	0.00	0.00	0.00	3.20
175	214	5.136068	TCTCTCTCTCTCTCTCTCTCTCT	57.864	47.826	0.00	0.00	0.00	3.10
176	215	5.136828	TCTCTCTCTCTCTCTCTCTCTCTC	58.863	50.000	0.00	0.00	0.00	3.20
177	216	5.103728	TCTCTCTCTCTCTCTCTCTCTCTCT	60.104	48.000	0.00	0.00	0.00	3.10
178	217	5.136828	TCTCTCTCTCTCTCTCTCTCTCTC	58.863	50.000	0.00	0.00	0.00	3.20
179	218	3.885901	TCTCTCTCTCTCTCTCTCTCTCG	59.114	52.174	0.00	0.00	0.00	4.04
180	219	3.632333	TCTCTCTCTCTCTCTCTCTCGT	58.368	50.000	0.00	0.00	0.00	4.18
181	220	3.381590	TCTCTCTCTCTCTCTCTCTCGTG	59.618	52.174	0.00	0.00	0.00	4.35
182	221	3.361786	TCTCTCTCTCTCTCTCTCGTGA	58.638	50.000	0.00	0.00	0.00	4.35
183	222	3.960755	TCTCTCTCTCTCTCTCTCGTGAT	59.039	47.826	0.00	0.00	0.00	3.06
184	223	4.405680	TCTCTCTCTCTCTCTCTCGTGATT	59.594	45.833	0.00	0.00	0.00	2.57
185	224	5.596772	TCTCTCTCTCTCTCTCTCGTGATTA	59.403	44.000	0.00	0.00	0.00	1.75
186	225	6.267699	TCTCTCTCTCTCTCTCTCGTGATTAT	59.732	42.308	0.00	0.00	0.00	1.28
187	226	6.455647	TCTCTCTCTCTCTCTCGTGATTATC	58.544	44.000	0.00	0.00	0.00	1.75
188	227	5.547465	TCTCTCTCTCTCTCGTGATTATCC	58.453	45.833	0.00	0.00	0.00	2.59
281	330	2.047560	GGCCACCACCACGTAGTC	60.048	66.667	0.00	0.00	41.61	2.59
282	331	2.047560	GCCACCACCACGTAGTCC	60.048	66.667	0.00	0.00	41.61	3.85
283	332	2.260434	CCACCACCACGTAGTCCG	59.740	66.667	0.00	0.00	41.61	4.79
284	333	2.260434	CACCACCACGTAGTCCGG	59.740	66.667	0.00	0.00	41.61	5.14
285	334	3.688159	ACCACCACGTAGTCCGGC	61.688	66.667	0.00	0.00	41.61	6.13
286	335	3.687102	CCACCACGTAGTCCGGCA	61.687	66.667	0.00	0.00	41.61	5.69
287	336	2.126071	CACCACGTAGTCCGGCAG	60.126	66.667	0.00	0.00	41.61	4.85
365	439	0.044855	ATGTAGGTGCCTTCCTCCCT	59.955	55.000	0.00	0.00	38.86	4.20
412	486	1.229359	CACCTAGCCGTCCTCCCTA	59.771	63.158	0.00	0.00	0.00	3.53
439	523	3.551407	CCCCGCCCCTCTTCTAGC	61.551	72.222	0.00	0.00	0.00	3.42
441	525	2.444895	CCGCCCCTCTTCTAGCCT	60.445	66.667	0.00	0.00	0.00	4.58
489	573	4.163649	ACATCTTCTGCTGATGGAGATTGA	59.836	41.667	8.32	0.00	43.88	2.57
496	580	3.654321	TGCTGATGGAGATTGACCCATAT	59.346	43.478	0.00	0.00	42.80	1.78
558	643	8.190784	TGTATGTCTCACATGTAGTATCTTGTG	58.809	37.037	0.00	0.00	39.53	3.33
617	702	9.286946	GTCATGAAGCTGAAATTTTAGATTGAG	57.713	33.333	17.00	7.59	0.00	3.02
678	763	2.021457	AGTTGTTTTTGGTCGACCCTG	58.979	47.619	31.19	0.00	34.29	4.45
681	766	0.466739	GTTTTTGGTCGACCCTGGGT	60.467	55.000	31.19	20.72	39.44	4.51
733	818	7.515586	ACTGTTCATCAATCATCATCCACTAT	58.484	34.615	0.00	0.00	0.00	2.12
764	850	5.006386	GGGAGATTCAGTTCTGAATTGTGT	58.994	41.667	23.18	12.28	38.50	3.72
1102	1197	8.150945	ACTGTACTGTACTGATGAACAAAATCT	58.849	33.333	25.41	2.07	0.00	2.40
1149	1244	6.520021	TGTAGATCCTTGATCCATTGGATT	57.480	37.500	19.13	2.32	43.27	3.01
1150	1245	7.631510	TGTAGATCCTTGATCCATTGGATTA	57.368	36.000	19.13	12.66	43.27	1.75
1151	1246	8.044574	TGTAGATCCTTGATCCATTGGATTAA	57.955	34.615	19.13	18.92	43.27	1.40
1183	1278	1.222936	GCAGCAGCCTAGTCACCAT	59.777	57.895	0.00	0.00	33.58	3.55
1207	1302	0.898320	ACTCTGACATCCCCTCAACG	59.102	55.000	0.00	0.00	0.00	4.10
1216	1311	1.672356	CCCCTCAACGTGAAGCTGG	60.672	63.158	0.00	0.00	0.00	4.85
1221	1316	0.750249	TCAACGTGAAGCTGGTGAGA	59.250	50.000	0.00	0.00	0.00	3.27
1256	1351	4.292186	GGCTGAGCCCATGAATATAGAA	57.708	45.455	13.77	0.00	44.06	2.10
1296	1391	2.738846	GACAGCGAAGAAGATGAAGCAA	59.261	45.455	0.00	0.00	0.00	3.91
1627	3673	1.000283	AGCGCATCACACTATAGAGGC	60.000	52.381	11.47	0.00	38.12	4.70
1811	3857	8.125448	GGAGTCAATAAATTATGTCAAGTGAGC	58.875	37.037	0.00	0.00	0.00	4.26
1887	3933	7.589958	TGTCCTTATTAAATGTGGTGTTTGT	57.410	32.000	0.00	0.00	0.00	2.83
1890	3936	9.567848	GTCCTTATTAAATGTGGTGTTTGTATG	57.432	33.333	0.00	0.00	0.00	2.39
1891	3937	9.521841	TCCTTATTAAATGTGGTGTTTGTATGA	57.478	29.630	0.00	0.00	0.00	2.15
1931	3977	6.968904	CGTGTGCTCAAGCTATTCAATATTTT	59.031	34.615	3.32	0.00	42.66	1.82
2278	4361	3.204306	AGGCATTGATGATCATGACGT	57.796	42.857	14.30	0.00	0.00	4.34
2311	4394	1.068083	CATCTGATCCACGACCCCG	59.932	63.158	0.00	0.00	42.50	5.73
2314	4397	2.758327	TGATCCACGACCCCGGAG	60.758	66.667	0.73	0.00	40.78	4.63
2316	4399	1.833049	GATCCACGACCCCGGAGAT	60.833	63.158	0.73	0.00	40.78	2.75
2333	4416	5.337554	CGGAGATATCAACGTCAAGTGTTA	58.662	41.667	5.32	0.00	0.00	2.41
2334	4417	5.977725	CGGAGATATCAACGTCAAGTGTTAT	59.022	40.000	5.32	0.00	0.00	1.89
2357	4440	1.226435	CGAGAGGAAGGAAGACGCG	60.226	63.158	3.53	3.53	0.00	6.01
2366	4449	1.738099	GGAAGACGCGCACATCACT	60.738	57.895	5.73	0.00	0.00	3.41
2368	4451	0.640768	GAAGACGCGCACATCACTAC	59.359	55.000	5.73	0.00	0.00	2.73
2403	4486	0.388649	GACACGCCGTCAGTCAGATT	60.389	55.000	3.16	0.00	44.69	2.40
2436	4519	1.403647	CCAATGTCGACGAACCTGCTA	60.404	52.381	11.62	0.00	0.00	3.49
2437	4520	2.540515	CAATGTCGACGAACCTGCTAT	58.459	47.619	11.62	0.00	0.00	2.97
2438	4521	2.209838	ATGTCGACGAACCTGCTATG	57.790	50.000	11.62	0.00	0.00	2.23
2513	4596	1.185618	TGCGACAAGTCTAGTGGCCT	61.186	55.000	3.32	0.00	39.56	5.19
2516	4599	1.546476	CGACAAGTCTAGTGGCCTTCT	59.454	52.381	3.32	5.19	0.00	2.85
2632	4716	1.345112	GGGGGAAGGGATGAGAAGGTA	60.345	57.143	0.00	0.00	0.00	3.08
2659	4743	3.584848	ACAACTACCTCTCATTGGCTCTT	59.415	43.478	0.00	0.00	0.00	2.85
2685	4773	2.354704	CGAACATGAGGTCCTGGCTAAA	60.355	50.000	0.00	0.00	0.00	1.85
2688	4776	1.211457	CATGAGGTCCTGGCTAAAGCT	59.789	52.381	0.00	0.00	41.70	3.74
2740	4828	2.600388	CTTGTGCAACGAGTTCGGA	58.400	52.632	6.48	0.00	43.59	4.55
2752	4840	1.079336	GTTCGGAGGCGCCTTTACT	60.079	57.895	33.34	7.90	0.00	2.24
2754	4842	1.537814	TTCGGAGGCGCCTTTACTGA	61.538	55.000	33.34	24.86	0.00	3.41
2758	4846	0.815615	GAGGCGCCTTTACTGATGGG	60.816	60.000	33.34	0.00	0.00	4.00
2785	4873	3.118531	AGAACCAAGATGGCCTAGTGAT	58.881	45.455	3.32	0.00	42.67	3.06

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
0	1	1.681793	TGTTGCTACGGATCTAGGAGC	59.318	52.381	15.88	15.88	0.00	4.70
11	12	4.661993	TTGTGCTTATCTTGTTGCTACG	57.338	40.909	0.00	0.00	0.00	3.51
13	14	5.293324	CGGTATTGTGCTTATCTTGTTGCTA	59.707	40.000	0.00	0.00	0.00	3.49
21	22	4.341235	TGAGCTACGGTATTGTGCTTATCT	59.659	41.667	1.79	0.00	33.83	1.98
24	25	4.430007	CTTGAGCTACGGTATTGTGCTTA	58.570	43.478	1.79	0.00	33.83	3.09
48	49	1.409064	TGCATCAGCGTTACCTAGGAG	59.591	52.381	17.98	4.88	46.23	3.69
81	82	0.107831	GCTGGTGTCTGGGTTGTGTA	59.892	55.000	0.00	0.00	0.00	2.90
82	83	1.152963	GCTGGTGTCTGGGTTGTGT	60.153	57.895	0.00	0.00	0.00	3.72
86	87	2.113986	GCTGCTGGTGTCTGGGTT	59.886	61.111	0.00	0.00	0.00	4.11
125	126	3.092301	CGTGGAGATGGATGGCTATAGA	58.908	50.000	3.21	0.00	0.00	1.98
129	130	0.398522	ACCGTGGAGATGGATGGCTA	60.399	55.000	0.00	0.00	31.82	3.93
151	166	4.222336	AGAGAGAGAGAGAGAGAGAGAGG	58.778	52.174	0.00	0.00	0.00	3.69
165	204	5.512404	GGGATAATCACGAGAGAGAGAGAGA	60.512	48.000	0.00	0.00	33.27	3.10
166	205	4.695455	GGGATAATCACGAGAGAGAGAGAG	59.305	50.000	0.00	0.00	33.27	3.20
167	206	4.505918	GGGGATAATCACGAGAGAGAGAGA	60.506	50.000	0.00	0.00	33.27	3.10
168	207	3.756434	GGGGATAATCACGAGAGAGAGAG	59.244	52.174	0.00	0.00	33.27	3.20
170	209	3.756434	GAGGGGATAATCACGAGAGAGAG	59.244	52.174	0.00	0.00	33.27	3.20
171	210	3.396276	AGAGGGGATAATCACGAGAGAGA	59.604	47.826	0.00	0.00	34.56	3.10
172	211	3.761897	AGAGGGGATAATCACGAGAGAG	58.238	50.000	0.00	0.00	0.00	3.20
173	212	3.885976	AGAGGGGATAATCACGAGAGA	57.114	47.619	0.00	0.00	0.00	3.10
174	213	3.891977	TGAAGAGGGGATAATCACGAGAG	59.108	47.826	0.00	0.00	0.00	3.20
175	214	3.910989	TGAAGAGGGGATAATCACGAGA	58.089	45.455	0.00	0.00	0.00	4.04
176	215	4.626042	CTTGAAGAGGGGATAATCACGAG	58.374	47.826	0.00	0.00	0.00	4.18
177	216	3.181465	GCTTGAAGAGGGGATAATCACGA	60.181	47.826	0.00	0.00	0.00	4.35
178	217	3.134458	GCTTGAAGAGGGGATAATCACG	58.866	50.000	0.00	0.00	0.00	4.35
179	218	3.134458	CGCTTGAAGAGGGGATAATCAC	58.866	50.000	0.00	0.00	34.83	3.06
180	219	3.038280	TCGCTTGAAGAGGGGATAATCA	58.962	45.455	0.00	0.00	38.75	2.57
181	220	3.070302	AGTCGCTTGAAGAGGGGATAATC	59.930	47.826	0.00	0.00	38.75	1.75
182	221	3.041946	AGTCGCTTGAAGAGGGGATAAT	58.958	45.455	0.00	0.00	38.75	1.28
183	222	2.467880	AGTCGCTTGAAGAGGGGATAA	58.532	47.619	0.00	0.00	38.75	1.75
184	223	2.160721	AGTCGCTTGAAGAGGGGATA	57.839	50.000	0.00	0.00	38.75	2.59
185	224	2.035632	CTAGTCGCTTGAAGAGGGGAT	58.964	52.381	0.00	0.00	38.75	3.85
186	225	1.005569	TCTAGTCGCTTGAAGAGGGGA	59.994	52.381	0.00	0.00	38.75	4.81
187	226	1.475403	TCTAGTCGCTTGAAGAGGGG	58.525	55.000	0.00	0.00	38.75	4.79
188	227	3.594603	TTTCTAGTCGCTTGAAGAGGG	57.405	47.619	0.00	0.00	39.55	4.30
215	255	0.470268	GGTCGGCTTCTCCTATCCCT	60.470	60.000	0.00	0.00	0.00	4.20
263	312	3.927163	GACTACGTGGTGGTGGCCG	62.927	68.421	10.14	0.00	0.00	6.13
264	313	2.047560	GACTACGTGGTGGTGGCC	60.048	66.667	10.14	0.00	0.00	5.36
265	314	2.047560	GGACTACGTGGTGGTGGC	60.048	66.667	10.14	0.00	0.00	5.01
268	317	3.688159	GCCGGACTACGTGGTGGT	61.688	66.667	10.14	0.00	42.24	4.16
269	318	3.642778	CTGCCGGACTACGTGGTGG	62.643	68.421	10.14	6.68	42.24	4.61
270	319	2.126071	CTGCCGGACTACGTGGTG	60.126	66.667	10.14	0.00	42.24	4.17
344	418	0.464554	GGAGGAAGGCACCTACATGC	60.465	60.000	7.89	0.00	45.34	4.06
345	419	0.181350	GGGAGGAAGGCACCTACATG	59.819	60.000	13.52	0.00	42.38	3.21
346	420	0.044855	AGGGAGGAAGGCACCTACAT	59.955	55.000	13.52	5.03	42.38	2.29
349	423	1.306997	CCAGGGAGGAAGGCACCTA	60.307	63.158	3.36	0.00	40.73	3.08
423	507	2.658321	TAGGCTAGAAGAGGGGCGGG	62.658	65.000	0.00	0.00	0.00	6.13
424	508	0.543174	ATAGGCTAGAAGAGGGGCGG	60.543	60.000	0.00	0.00	0.00	6.13
425	509	1.001406	CAATAGGCTAGAAGAGGGGCG	59.999	57.143	0.00	0.00	0.00	6.13
426	510	1.349357	CCAATAGGCTAGAAGAGGGGC	59.651	57.143	0.00	0.00	0.00	5.80
439	523	1.611673	CGGAGCATAAGGGCCAATAGG	60.612	57.143	6.18	0.94	38.23	2.57
441	525	0.400213	CCGGAGCATAAGGGCCAATA	59.600	55.000	6.18	0.00	0.00	1.90
489	573	4.425772	TCCAATCTCCATCGTATATGGGT	58.574	43.478	4.27	0.00	39.60	4.51
496	580	5.739959	TCACAAATTCCAATCTCCATCGTA	58.260	37.500	0.00	0.00	0.00	3.43
558	643	1.065928	CTGGACGCCGATCAGTACC	59.934	63.158	0.00	0.00	0.00	3.34
617	702	8.668510	AATTGTGGATGATGATCAGTACTAAC	57.331	34.615	0.09	0.00	0.00	2.34
651	736	6.140786	GGTCGACCAAAAACAACTAAATCTC	58.859	40.000	29.75	0.00	35.64	2.75
678	763	7.226523	ACAATCAATCTAAAAGTTTGCAAACCC	59.773	33.333	33.09	14.44	39.71	4.11
1183	1278	2.314852	TGAGGGGATGTCAGAGTAGGAA	59.685	50.000	0.00	0.00	0.00	3.36
1216	1311	3.639094	AGCCTGTGATACTGGTATCTCAC	59.361	47.826	17.93	12.49	41.80	3.51
1221	1316	2.366916	GCTCAGCCTGTGATACTGGTAT	59.633	50.000	0.00	0.00	39.17	2.73
1252	1347	7.615757	TGTCTTCCTCTATGACAACTGATTCTA	59.384	37.037	0.00	0.00	38.82	2.10
1256	1351	5.395103	GCTGTCTTCCTCTATGACAACTGAT	60.395	44.000	0.00	0.00	40.59	2.90
1296	1391	3.569701	TCTGCTTCATTTTCTTCCGCTTT	59.430	39.130	0.00	0.00	0.00	3.51
1580	3625	6.795114	CAGAAACACATACGACAACCATAAAC	59.205	38.462	0.00	0.00	0.00	2.01
1627	3673	5.633830	TGTAGTAAGTACAGAAGGAACCG	57.366	43.478	0.00	0.00	36.67	4.44
1811	3857	9.840427	AATTTATTGACTACGAAATTTGTCTGG	57.160	29.630	0.00	0.00	29.38	3.86
1887	3933	6.036470	CACACGCTTGAAGAGAGTATTCATA	58.964	40.000	2.19	0.00	36.14	2.15
1890	3936	3.061429	GCACACGCTTGAAGAGAGTATTC	59.939	47.826	2.19	0.00	36.14	1.75
1891	3937	2.996621	GCACACGCTTGAAGAGAGTATT	59.003	45.455	2.19	0.00	36.14	1.89
2247	4330	0.407528	TCAATGCCTTGGGGTTGCTA	59.592	50.000	1.68	0.00	32.95	3.49
2278	4361	2.028876	CAGATGAAGCCATTGATGCCA	58.971	47.619	0.00	0.00	32.09	4.92
2311	4394	6.978659	TCATAACACTTGACGTTGATATCTCC	59.021	38.462	3.98	0.00	0.00	3.71
2314	4397	7.305475	CGTCTCATAACACTTGACGTTGATATC	60.305	40.741	0.00	0.00	43.43	1.63
2316	4399	5.798434	CGTCTCATAACACTTGACGTTGATA	59.202	40.000	0.00	0.00	43.43	2.15
2333	4416	3.020984	GTCTTCCTTCCTCTCGTCTCAT	58.979	50.000	0.00	0.00	0.00	2.90
2334	4417	2.438411	GTCTTCCTTCCTCTCGTCTCA	58.562	52.381	0.00	0.00	0.00	3.27
2340	4423	1.517475	GCGCGTCTTCCTTCCTCTC	60.517	63.158	8.43	0.00	0.00	3.20
2341	4424	2.276116	TGCGCGTCTTCCTTCCTCT	61.276	57.895	8.43	0.00	0.00	3.69
2357	4440	1.005340	GCTGCTCAGTAGTGATGTGC	58.995	55.000	0.00	2.05	37.60	4.57
2366	4449	0.953960	TCTCGTGACGCTGCTCAGTA	60.954	55.000	0.00	0.00	0.00	2.74
2368	4451	1.799519	GTCTCGTGACGCTGCTCAG	60.800	63.158	0.00	0.00	33.15	3.35
2418	4501	2.165641	TCATAGCAGGTTCGTCGACATT	59.834	45.455	17.16	0.00	0.00	2.71
2436	4519	2.584608	GTACCCGCCAGCACTCAT	59.415	61.111	0.00	0.00	0.00	2.90
2437	4520	3.702048	GGTACCCGCCAGCACTCA	61.702	66.667	0.00	0.00	0.00	3.41
2438	4521	3.391382	AGGTACCCGCCAGCACTC	61.391	66.667	8.74	0.00	0.00	3.51
2513	4596	4.102524	TCAGGCTTGAAGGTGTAAGAAGAA	59.897	41.667	0.00	0.00	0.00	2.52
2516	4599	3.391296	AGTCAGGCTTGAAGGTGTAAGAA	59.609	43.478	0.00	0.00	34.49	2.52
2604	4687	3.350163	CCCTTCCCCCAGTGGCAT	61.350	66.667	2.61	0.00	0.00	4.40
2605	4688	3.908712	ATCCCTTCCCCCAGTGGCA	62.909	63.158	2.61	0.00	0.00	4.92
2632	4716	4.804261	GCCAATGAGAGGTAGTTGTCAAGT	60.804	45.833	0.00	0.00	0.00	3.16
2637	4721	3.177228	AGAGCCAATGAGAGGTAGTTGT	58.823	45.455	0.00	0.00	0.00	3.32
2659	4743	1.207089	CAGGACCTCATGTTCGGCTTA	59.793	52.381	0.00	0.00	0.00	3.09
2685	4773	1.524482	GAATCCTCCGGCAAGAGCT	59.476	57.895	0.00	0.00	41.70	4.09
2739	4827	0.815615	CCCATCAGTAAAGGCGCCTC	60.816	60.000	32.93	18.36	0.00	4.70
2740	4828	1.224592	CCCATCAGTAAAGGCGCCT	59.775	57.895	27.08	27.08	0.00	5.52
2752	4840	1.281867	CTTGGTTCTAGGTGCCCATCA	59.718	52.381	0.00	0.00	0.00	3.07
2754	4842	1.668826	TCTTGGTTCTAGGTGCCCAT	58.331	50.000	0.00	0.00	0.00	4.00
2758	4846	1.383523	GCCATCTTGGTTCTAGGTGC	58.616	55.000	0.00	0.00	40.46	5.01
2763	4851	3.719871	TCACTAGGCCATCTTGGTTCTA	58.280	45.455	5.01	0.00	40.46	2.10
2771	4859	1.798626	TGCAGATCACTAGGCCATCT	58.201	50.000	5.01	0.04	0.00	2.90

Based at the University of Bristol with support from BBSRC.

AutoCloner maintained by Alex Coulton.