AutoCloner

Multiple sequence alignment - TraesCS4B01G271400

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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	TraesCS4B01G271400	chr4B	100.000	2438	0	0	1	2438	547410163	547407726	0.000000e+00	4503.0
1	TraesCS4B01G271400	chr4B	93.778	1977	92	15	1	1959	455978617	455980580	0.000000e+00	2940.0
2	TraesCS4B01G271400	chr6B	97.042	1961	56	1	1	1959	22171382	22173342	0.000000e+00	3299.0
3	TraesCS4B01G271400	chr6B	90.659	1927	134	23	1	1917	114733763	114731873	0.000000e+00	2519.0
4	TraesCS4B01G271400	chr6B	94.194	155	9	0	380	534	148307191	148307037	1.130000e-58	237.0
5	TraesCS4B01G271400	chr2B	95.376	1514	64	5	449	1958	50247314	50248825	0.000000e+00	2403.0
6	TraesCS4B01G271400	chr2B	88.420	829	61	10	1152	1959	411889935	411890749	0.000000e+00	966.0
7	TraesCS4B01G271400	chr2B	95.154	454	16	3	1	454	50224967	50225414	0.000000e+00	712.0
8	TraesCS4B01G271400	chr2B	83.249	794	106	21	1658	2437	22384107	22384887	0.000000e+00	704.0
9	TraesCS4B01G271400	chr2B	93.207	368	23	2	1598	1963	719583501	719583134	7.670000e-150	540.0
10	TraesCS4B01G271400	chr4D	90.871	1435	83	17	555	1958	46138719	46137302	0.000000e+00	1881.0
11	TraesCS4B01G271400	chr4D	94.179	481	28	0	1958	2438	421356698	421356218	0.000000e+00	734.0
12	TraesCS4B01G271400	chr2D	89.563	1466	82	22	523	1958	582871452	582872876	0.000000e+00	1794.0
13	TraesCS4B01G271400	chr5D	90.046	1306	96	17	680	1960	399706708	399705412	0.000000e+00	1661.0
14	TraesCS4B01G271400	chr5D	90.633	1217	82	9	540	1726	13172561	13171347	0.000000e+00	1587.0
15	TraesCS4B01G271400	chr5D	88.660	485	27	1	8	492	13173018	13172562	1.270000e-157	566.0
16	TraesCS4B01G271400	chr5A	89.321	1311	107	11	680	1958	288890505	288891814	0.000000e+00	1615.0
17	TraesCS4B01G271400	chr5A	89.076	119	10	2	377	495	155590749	155590864	7.030000e-31	145.0
18	TraesCS4B01G271400	chr3A	89.362	1269	90	7	719	1958	678042622	678041370	0.000000e+00	1554.0
19	TraesCS4B01G271400	chr3A	93.681	364	20	2	1598	1958	298800459	298800822	2.130000e-150	542.0
20	TraesCS4B01G271400	chr3A	94.161	137	6	2	380	515	678042762	678042627	8.830000e-50	207.0
21	TraesCS4B01G271400	chr5B	92.282	907	63	3	1053	1958	571952650	571953550	0.000000e+00	1280.0
22	TraesCS4B01G271400	chr7D	94.191	482	28	0	1957	2438	488636638	488637119	0.000000e+00	736.0
23	TraesCS4B01G271400	chr7D	94.191	482	26	2	1958	2438	247285081	247284601	0.000000e+00	734.0
24	TraesCS4B01G271400	chr7D	93.971	481	28	1	1958	2437	416738756	416738276	0.000000e+00	726.0
25	TraesCS4B01G271400	chr7D	95.868	121	5	0	375	495	11435373	11435253	1.910000e-46	196.0
26	TraesCS4B01G271400	chr3D	93.983	482	28	1	1958	2438	253404162	253403681	0.000000e+00	728.0
27	TraesCS4B01G271400	chr3D	93.983	482	28	1	1958	2438	268515958	268516439	0.000000e+00	728.0
28	TraesCS4B01G271400	chr3D	89.655	116	9	2	380	495	10934348	10934236	7.030000e-31	145.0
29	TraesCS4B01G271400	chr3D	89.076	119	10	2	377	495	588695222	588695337	7.030000e-31	145.0
30	TraesCS4B01G271400	chr1D	93.971	481	29	0	1958	2438	442555923	442555443	0.000000e+00	728.0
31	TraesCS4B01G271400	chr2A	93.789	483	29	1	1957	2438	646732209	646732691	0.000000e+00	725.0
32	TraesCS4B01G271400	chr3B	96.026	151	6	0	485	635	10190284	10190434	1.870000e-61	246.0
33	TraesCS4B01G271400	chr1A	93.377	151	10	0	485	635	523756347	523756197	8.770000e-55	224.0
34	TraesCS4B01G271400	chr7A	90.351	114	11	0	382	495	673509715	673509828	1.510000e-32	150.0
35	TraesCS4B01G271400	chr7A	97.727	44	1	0	1	44	17844741	17844698	2.600000e-10	76.8
36	TraesCS4B01G271400	chr6D	87.931	116	11	2	380	495	372614652	372614540	1.520000e-27	134.0
37	TraesCS4B01G271400	chr6D	85.714	119	14	3	377	495	163425137	163425252	3.290000e-24	122.0

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	TraesCS4B01G271400	chr4B	547407726	547410163	2437	True	4503.0	4503	100.0000	1	2438	1	chr4B.!!$R1	2437
1	TraesCS4B01G271400	chr4B	455978617	455980580	1963	False	2940.0	2940	93.7780	1	1959	1	chr4B.!!$F1	1958
2	TraesCS4B01G271400	chr6B	22171382	22173342	1960	False	3299.0	3299	97.0420	1	1959	1	chr6B.!!$F1	1958
3	TraesCS4B01G271400	chr6B	114731873	114733763	1890	True	2519.0	2519	90.6590	1	1917	1	chr6B.!!$R1	1916
4	TraesCS4B01G271400	chr2B	50247314	50248825	1511	False	2403.0	2403	95.3760	449	1958	1	chr2B.!!$F3	1509
5	TraesCS4B01G271400	chr2B	411889935	411890749	814	False	966.0	966	88.4200	1152	1959	1	chr2B.!!$F4	807
6	TraesCS4B01G271400	chr2B	22384107	22384887	780	False	704.0	704	83.2490	1658	2437	1	chr2B.!!$F1	779
7	TraesCS4B01G271400	chr4D	46137302	46138719	1417	True	1881.0	1881	90.8710	555	1958	1	chr4D.!!$R1	1403
8	TraesCS4B01G271400	chr2D	582871452	582872876	1424	False	1794.0	1794	89.5630	523	1958	1	chr2D.!!$F1	1435
9	TraesCS4B01G271400	chr5D	399705412	399706708	1296	True	1661.0	1661	90.0460	680	1960	1	chr5D.!!$R1	1280
10	TraesCS4B01G271400	chr5D	13171347	13173018	1671	True	1076.5	1587	89.6465	8	1726	2	chr5D.!!$R2	1718
11	TraesCS4B01G271400	chr5A	288890505	288891814	1309	False	1615.0	1615	89.3210	680	1958	1	chr5A.!!$F2	1278
12	TraesCS4B01G271400	chr3A	678041370	678042762	1392	True	880.5	1554	91.7615	380	1958	2	chr3A.!!$R1	1578
13	TraesCS4B01G271400	chr5B	571952650	571953550	900	False	1280.0	1280	92.2820	1053	1958	1	chr5B.!!$F1	905

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
349	378	0.318275	GACTGGGAGATGATCGTCGC	60.318	60.0	9.96	9.96	0.0	5.19	F

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability	Orientation
2198	2318	0.973632	AGTCCACACATCAACCGCTA	59.026	50.0	0.0	0.0	0.0	4.26	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
138	139	5.309638	TCCCATTGTCGACAATTACAAGAA	58.690	37.500	35.15	16.81	43.48	2.52
152	153	1.145119	ACAAGAAGGGACCCAACTTCC	59.855	52.381	14.60	0.00	43.10	3.46
239	240	2.982470	GTTGCACTGTTTAATCAGCTGC	59.018	45.455	21.53	21.53	39.91	5.25
270	271	8.698973	TTCTAAAAATTCAGTGATGGTGGTAA	57.301	30.769	0.00	0.00	0.00	2.85
349	378	0.318275	GACTGGGAGATGATCGTCGC	60.318	60.000	9.96	9.96	0.00	5.19
948	979	6.443934	TTTTTCCGTGTCATTCTTCTGAAA	57.556	33.333	0.00	0.00	35.63	2.69
1032	1063	1.444553	CGAGAGGTTCGTGGACTGC	60.445	63.158	0.00	0.00	44.27	4.40
1089	1120	1.950216	CTGCTGCTCGTCATCTACCTA	59.050	52.381	0.00	0.00	0.00	3.08
1139	1170	4.779733	AGACACCCCGAGCCCGAT	62.780	66.667	0.00	0.00	38.22	4.18
1209	1241	9.932207	TTCTAAATCTGAATCTTAACGGTGTTA	57.068	29.630	0.00	0.00	0.00	2.41
1657	1717	9.850198	TGTGTGATAGAATGGAATTGATTGATA	57.150	29.630	0.00	0.00	36.07	2.15
1786	1865	2.036958	TTAGTAGTAGCGCGGGTACA	57.963	50.000	8.83	0.00	38.76	2.90
1787	1866	2.036958	TAGTAGTAGCGCGGGTACAA	57.963	50.000	8.83	0.00	38.76	2.41
1977	2096	5.079643	AGTGTTTGGCCAACTAGATTGATT	58.920	37.500	20.35	0.00	41.23	2.57
1986	2105	6.158598	GCCAACTAGATTGATTTTTCTTGCA	58.841	36.000	0.00	0.00	41.23	4.08
1990	2109	9.414295	CAACTAGATTGATTTTTCTTGCAATGA	57.586	29.630	0.00	0.00	41.23	2.57
1995	2114	8.244802	AGATTGATTTTTCTTGCAATGAGAGAG	58.755	33.333	0.00	0.00	31.65	3.20
1998	2117	6.942005	TGATTTTTCTTGCAATGAGAGAGGTA	59.058	34.615	0.00	0.00	0.00	3.08
2023	2142	1.000274	GCTTTGGGTTCAATCTTGCGT	60.000	47.619	0.00	0.00	32.28	5.24
2024	2143	2.664916	CTTTGGGTTCAATCTTGCGTG	58.335	47.619	0.00	0.00	32.28	5.34
2025	2144	1.974265	TTGGGTTCAATCTTGCGTGA	58.026	45.000	0.00	0.00	0.00	4.35
2027	2146	2.513753	TGGGTTCAATCTTGCGTGATT	58.486	42.857	0.00	0.00	37.16	2.57
2028	2147	2.890311	TGGGTTCAATCTTGCGTGATTT	59.110	40.909	1.85	0.00	34.77	2.17
2029	2148	3.057596	TGGGTTCAATCTTGCGTGATTTC	60.058	43.478	1.85	0.00	34.77	2.17
2030	2149	3.057596	GGGTTCAATCTTGCGTGATTTCA	60.058	43.478	1.85	0.00	34.77	2.69
2041	2161	2.217750	CGTGATTTCACCCAGTGACAA	58.782	47.619	5.17	0.00	42.60	3.18
2042	2162	2.616376	CGTGATTTCACCCAGTGACAAA	59.384	45.455	5.17	0.00	42.60	2.83
2043	2163	3.303990	CGTGATTTCACCCAGTGACAAAG	60.304	47.826	5.17	0.00	42.60	2.77
2044	2164	3.632145	GTGATTTCACCCAGTGACAAAGT	59.368	43.478	0.00	0.00	42.60	2.66
2045	2165	4.819630	GTGATTTCACCCAGTGACAAAGTA	59.180	41.667	0.00	0.00	42.60	2.24
2047	2167	3.485463	TTCACCCAGTGACAAAGTAGG	57.515	47.619	0.00	0.00	42.60	3.18
2048	2168	1.697432	TCACCCAGTGACAAAGTAGGG	59.303	52.381	0.00	0.00	37.67	3.53
2049	2169	1.064825	ACCCAGTGACAAAGTAGGGG	58.935	55.000	0.00	0.00	40.64	4.79
2050	2170	1.064825	CCCAGTGACAAAGTAGGGGT	58.935	55.000	0.00	0.00	32.59	4.95
2054	2174	1.549170	AGTGACAAAGTAGGGGTAGCG	59.451	52.381	0.00	0.00	0.00	4.26
2057	2177	2.097825	GACAAAGTAGGGGTAGCGAGA	58.902	52.381	0.00	0.00	0.00	4.04
2063	2183	2.174210	AGTAGGGGTAGCGAGACATGTA	59.826	50.000	0.00	0.00	0.00	2.29
2067	2187	2.364324	GGGGTAGCGAGACATGTATTGA	59.636	50.000	12.01	0.00	0.00	2.57
2080	2200	6.153170	AGACATGTATTGAATTGTTGCCATCA	59.847	34.615	0.00	0.00	0.00	3.07
2091	2211	7.387397	TGAATTGTTGCCATCAAGGATAAAAAC	59.613	33.333	0.00	0.00	41.22	2.43
2098	2218	4.443315	CCATCAAGGATAAAAACATGGGGC	60.443	45.833	0.00	0.00	41.22	5.80
2101	2221	4.843516	TCAAGGATAAAAACATGGGGCTTT	59.156	37.500	0.00	0.00	0.00	3.51
2102	2222	5.046663	TCAAGGATAAAAACATGGGGCTTTC	60.047	40.000	0.00	0.00	0.00	2.62
2105	2225	6.201591	AGGATAAAAACATGGGGCTTTCATA	58.798	36.000	0.00	0.00	0.00	2.15
2106	2226	6.324770	AGGATAAAAACATGGGGCTTTCATAG	59.675	38.462	0.00	0.00	0.00	2.23
2113	2233	3.951563	TGGGGCTTTCATAGTATTGCT	57.048	42.857	0.00	0.00	0.00	3.91
2130	2250	8.268878	AGTATTGCTTGAGTTTATCCCTCTAT	57.731	34.615	0.00	0.00	0.00	1.98
2153	2273	9.295214	CTATATCATGTCATCTTACTTAAGGCG	57.705	37.037	7.53	0.00	34.14	5.52
2160	2280	5.747675	GTCATCTTACTTAAGGCGTTACTCC	59.252	44.000	7.53	0.00	34.14	3.85
2167	2287	2.538512	AAGGCGTTACTCCGTTCTTT	57.461	45.000	0.00	0.00	0.00	2.52
2168	2288	3.665745	AAGGCGTTACTCCGTTCTTTA	57.334	42.857	0.00	0.00	0.00	1.85
2169	2289	2.951726	AGGCGTTACTCCGTTCTTTAC	58.048	47.619	0.00	0.00	0.00	2.01
2194	2314	6.865726	CGAACTTAATACTCTAGATGCATGCT	59.134	38.462	20.33	4.11	0.00	3.79
2195	2315	7.148836	CGAACTTAATACTCTAGATGCATGCTG	60.149	40.741	20.33	4.23	0.00	4.41
2198	2318	5.758790	AATACTCTAGATGCATGCTGGAT	57.241	39.130	20.33	3.62	0.00	3.41
2199	2319	6.864151	AATACTCTAGATGCATGCTGGATA	57.136	37.500	20.33	5.84	0.00	2.59
2200	2320	4.804868	ACTCTAGATGCATGCTGGATAG	57.195	45.455	20.33	14.76	0.00	2.08
2216	2336	1.933853	GATAGCGGTTGATGTGTGGAC	59.066	52.381	0.00	0.00	0.00	4.02
2239	2359	4.881019	AATAGTAGTAGATGCAGGCAGG	57.119	45.455	0.00	0.00	0.00	4.85
2254	2374	1.174783	GCAGGAGTCGGTCTACTTGA	58.825	55.000	0.00	0.00	34.61	3.02
2255	2375	1.135344	GCAGGAGTCGGTCTACTTGAC	60.135	57.143	0.00	0.00	44.63	3.18
2275	2395	4.040339	TGACACGGACATGATGCCTATATT	59.960	41.667	0.00	0.00	0.00	1.28
2279	2399	6.070824	ACACGGACATGATGCCTATATTCATA	60.071	38.462	0.00	0.00	0.00	2.15
2288	2408	8.229253	TGATGCCTATATTCATAATCATTGCC	57.771	34.615	0.00	0.00	0.00	4.52
2289	2409	8.057011	TGATGCCTATATTCATAATCATTGCCT	58.943	33.333	0.00	0.00	0.00	4.75
2290	2410	8.834004	ATGCCTATATTCATAATCATTGCCTT	57.166	30.769	0.00	0.00	0.00	4.35
2291	2411	8.058667	TGCCTATATTCATAATCATTGCCTTG	57.941	34.615	0.00	0.00	0.00	3.61
2298	2418	6.990341	TCATAATCATTGCCTTGGATATCG	57.010	37.500	0.00	0.00	0.00	2.92
2303	2423	4.717877	TCATTGCCTTGGATATCGTCATT	58.282	39.130	0.00	0.00	0.00	2.57
2307	2427	5.290493	TGCCTTGGATATCGTCATTACTT	57.710	39.130	0.00	0.00	0.00	2.24
2311	2431	5.333339	CCTTGGATATCGTCATTACTTTGCG	60.333	44.000	0.00	0.00	0.00	4.85
2321	2441	5.672856	CGTCATTACTTTGCGCTTTTCTATC	59.327	40.000	9.73	0.00	0.00	2.08
2322	2442	6.455646	CGTCATTACTTTGCGCTTTTCTATCT	60.456	38.462	9.73	0.00	0.00	1.98
2327	2447	6.743575	ACTTTGCGCTTTTCTATCTATTGT	57.256	33.333	9.73	0.00	0.00	2.71
2329	2449	7.244192	ACTTTGCGCTTTTCTATCTATTGTTC	58.756	34.615	9.73	0.00	0.00	3.18
2334	2454	6.631847	CGCTTTTCTATCTATTGTTCGACAG	58.368	40.000	0.00	0.00	0.00	3.51
2351	2471	3.813166	CGACAGTAATTTGTTGACCCACT	59.187	43.478	0.00	0.00	34.93	4.00
2357	2477	7.940137	ACAGTAATTTGTTGACCCACTGTATTA	59.060	33.333	2.82	0.00	42.31	0.98
2358	2478	8.956426	CAGTAATTTGTTGACCCACTGTATTAT	58.044	33.333	0.00	0.00	0.00	1.28
2362	2482	5.637006	TGTTGACCCACTGTATTATTTGC	57.363	39.130	0.00	0.00	0.00	3.68
2363	2483	4.461081	TGTTGACCCACTGTATTATTTGCC	59.539	41.667	0.00	0.00	0.00	4.52
2365	2485	4.929479	TGACCCACTGTATTATTTGCCTT	58.071	39.130	0.00	0.00	0.00	4.35
2366	2486	4.947388	TGACCCACTGTATTATTTGCCTTC	59.053	41.667	0.00	0.00	0.00	3.46
2367	2487	4.929479	ACCCACTGTATTATTTGCCTTCA	58.071	39.130	0.00	0.00	0.00	3.02
2368	2488	5.329399	ACCCACTGTATTATTTGCCTTCAA	58.671	37.500	0.00	0.00	0.00	2.69
2379	2499	1.356124	TGCCTTCAAGAGAGAAGCCT	58.644	50.000	0.00	0.00	42.84	4.58
2409	2529	0.840722	CTATGGCCCCCGGGTCTATT	60.841	60.000	21.85	3.54	41.25	1.73
2412	2532	1.152819	GGCCCCCGGGTCTATTTTC	60.153	63.158	21.85	0.00	36.84	2.29
2413	2533	1.152819	GCCCCCGGGTCTATTTTCC	60.153	63.158	21.85	0.00	37.65	3.13
2421	2541	5.516591	CCCCGGGTCTATTTTCCATCATATT	60.517	44.000	21.85	0.00	0.00	1.28
2422	2542	6.010219	CCCGGGTCTATTTTCCATCATATTT	58.990	40.000	14.18	0.00	0.00	1.40

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
6	7	4.060900	GAGATGTGAAACTCTGTCAGCAA	58.939	43.478	0.00	0.00	38.04	3.91
138	139	0.193574	TCTCTGGAAGTTGGGTCCCT	59.806	55.000	10.00	0.00	33.89	4.20
152	153	2.751806	GAGAAACCATTTGGCCTCTCTG	59.248	50.000	3.32	0.00	40.43	3.35
239	240	8.954350	ACCATCACTGAATTTTTAGAATGAGAG	58.046	33.333	0.00	0.00	0.00	3.20
270	271	5.047448	TCTGTACTCTGTACTCTGTACTCGT	60.047	44.000	17.09	6.15	36.98	4.18
598	627	8.000709	TCAAAGCATGGTTAGATAAGATCCAAT	58.999	33.333	11.15	0.00	0.00	3.16
948	979	6.360618	ACAGAGGTTCAGAAACTTCAGATTT	58.639	36.000	1.12	0.00	42.36	2.17
1032	1063	3.434319	GGCAGCCATGACACCGTG	61.434	66.667	6.55	0.00	33.09	4.94
1089	1120	2.979676	CGTGTGCTGGTGTGCCAT	60.980	61.111	0.00	0.00	45.05	4.40
1209	1241	2.677228	CCCGCACCCTGAAATCCT	59.323	61.111	0.00	0.00	0.00	3.24
1542	1580	1.663388	TTGTGCGTGTCAGCTACCG	60.663	57.895	0.00	0.00	38.13	4.02
1786	1865	2.747446	CAACCCACGCTACTGCTATTTT	59.253	45.455	0.00	0.00	36.97	1.82
1787	1866	2.356135	CAACCCACGCTACTGCTATTT	58.644	47.619	0.00	0.00	36.97	1.40
1965	2084	9.635520	CTCATTGCAAGAAAAATCAATCTAGTT	57.364	29.630	4.94	0.00	0.00	2.24
1977	2096	5.869579	AGTACCTCTCTCATTGCAAGAAAA	58.130	37.500	4.94	0.00	0.00	2.29
1986	2105	5.104735	CCCAAAGCTAAGTACCTCTCTCATT	60.105	44.000	0.00	0.00	0.00	2.57
1990	2109	3.792515	ACCCAAAGCTAAGTACCTCTCT	58.207	45.455	0.00	0.00	0.00	3.10
1995	2114	5.254115	AGATTGAACCCAAAGCTAAGTACC	58.746	41.667	0.00	0.00	35.67	3.34
1998	2117	4.021981	GCAAGATTGAACCCAAAGCTAAGT	60.022	41.667	0.00	0.00	35.67	2.24
2023	2142	3.897239	ACTTTGTCACTGGGTGAAATCA	58.103	40.909	1.77	0.00	44.49	2.57
2024	2143	4.455877	CCTACTTTGTCACTGGGTGAAATC	59.544	45.833	1.77	0.00	44.49	2.17
2025	2144	4.398319	CCTACTTTGTCACTGGGTGAAAT	58.602	43.478	1.77	0.00	44.49	2.17
2027	2146	2.105821	CCCTACTTTGTCACTGGGTGAA	59.894	50.000	1.77	0.00	44.49	3.18
2028	2147	1.697432	CCCTACTTTGTCACTGGGTGA	59.303	52.381	0.00	0.00	40.50	4.02
2029	2148	1.271379	CCCCTACTTTGTCACTGGGTG	60.271	57.143	0.00	0.00	33.13	4.61
2030	2149	1.064825	CCCCTACTTTGTCACTGGGT	58.935	55.000	0.00	0.00	33.13	4.51
2041	2161	2.032620	CATGTCTCGCTACCCCTACTT	58.967	52.381	0.00	0.00	0.00	2.24
2042	2162	1.063867	ACATGTCTCGCTACCCCTACT	60.064	52.381	0.00	0.00	0.00	2.57
2043	2163	1.400737	ACATGTCTCGCTACCCCTAC	58.599	55.000	0.00	0.00	0.00	3.18
2044	2164	3.520691	ATACATGTCTCGCTACCCCTA	57.479	47.619	0.00	0.00	0.00	3.53
2045	2165	2.365617	CAATACATGTCTCGCTACCCCT	59.634	50.000	0.00	0.00	0.00	4.79
2047	2167	3.728076	TCAATACATGTCTCGCTACCC	57.272	47.619	0.00	0.00	0.00	3.69
2048	2168	5.523916	ACAATTCAATACATGTCTCGCTACC	59.476	40.000	0.00	0.00	0.00	3.18
2049	2169	6.589830	ACAATTCAATACATGTCTCGCTAC	57.410	37.500	0.00	0.00	0.00	3.58
2050	2170	6.456853	GCAACAATTCAATACATGTCTCGCTA	60.457	38.462	0.00	0.00	0.00	4.26
2080	2200	4.843516	TGAAAGCCCCATGTTTTTATCCTT	59.156	37.500	0.00	0.00	0.00	3.36
2091	2211	4.147321	AGCAATACTATGAAAGCCCCATG	58.853	43.478	0.00	0.00	0.00	3.66
2101	2221	8.034313	AGGGATAAACTCAAGCAATACTATGA	57.966	34.615	0.00	0.00	0.00	2.15
2102	2222	8.153550	AGAGGGATAAACTCAAGCAATACTATG	58.846	37.037	0.00	0.00	37.43	2.23
2105	2225	6.567602	AGAGGGATAAACTCAAGCAATACT	57.432	37.500	0.00	0.00	37.43	2.12
2113	2233	9.379770	TGACATGATATAGAGGGATAAACTCAA	57.620	33.333	0.00	0.00	37.43	3.02
2130	2250	7.050970	ACGCCTTAAGTAAGATGACATGATA	57.949	36.000	0.00	0.00	35.33	2.15
2144	2264	2.560105	AGAACGGAGTAACGCCTTAAGT	59.440	45.455	0.97	0.00	45.00	2.24
2150	2270	1.650645	CGTAAAGAACGGAGTAACGCC	59.349	52.381	0.00	0.00	45.00	5.68
2167	2287	7.808381	GCATGCATCTAGAGTATTAAGTTCGTA	59.192	37.037	14.21	0.00	0.00	3.43
2168	2288	6.642950	GCATGCATCTAGAGTATTAAGTTCGT	59.357	38.462	14.21	0.00	0.00	3.85
2169	2289	6.865726	AGCATGCATCTAGAGTATTAAGTTCG	59.134	38.462	21.98	0.00	0.00	3.95
2194	2314	1.406751	CCACACATCAACCGCTATCCA	60.407	52.381	0.00	0.00	0.00	3.41
2195	2315	1.134521	TCCACACATCAACCGCTATCC	60.135	52.381	0.00	0.00	0.00	2.59
2198	2318	0.973632	AGTCCACACATCAACCGCTA	59.026	50.000	0.00	0.00	0.00	4.26
2199	2319	0.973632	TAGTCCACACATCAACCGCT	59.026	50.000	0.00	0.00	0.00	5.52
2200	2320	1.803334	TTAGTCCACACATCAACCGC	58.197	50.000	0.00	0.00	0.00	5.68
2216	2336	5.712446	TCCTGCCTGCATCTACTACTATTAG	59.288	44.000	0.00	0.00	0.00	1.73
2254	2374	4.040339	TGAATATAGGCATCATGTCCGTGT	59.960	41.667	0.00	0.00	0.00	4.49
2255	2375	4.568956	TGAATATAGGCATCATGTCCGTG	58.431	43.478	0.00	0.00	0.00	4.94
2256	2376	4.890158	TGAATATAGGCATCATGTCCGT	57.110	40.909	0.00	0.00	0.00	4.69
2262	2382	8.857098	GGCAATGATTATGAATATAGGCATCAT	58.143	33.333	0.00	0.00	37.54	2.45
2275	2395	6.475504	ACGATATCCAAGGCAATGATTATGA	58.524	36.000	0.00	0.00	0.00	2.15
2279	2399	4.717877	TGACGATATCCAAGGCAATGATT	58.282	39.130	0.00	0.00	0.00	2.57
2285	2405	4.955811	AGTAATGACGATATCCAAGGCA	57.044	40.909	0.00	0.00	0.00	4.75
2286	2406	5.560953	GCAAAGTAATGACGATATCCAAGGC	60.561	44.000	0.00	0.00	0.00	4.35
2288	2408	5.670097	CGCAAAGTAATGACGATATCCAAG	58.330	41.667	0.00	0.00	0.00	3.61
2289	2409	4.025229	GCGCAAAGTAATGACGATATCCAA	60.025	41.667	0.30	0.00	0.00	3.53
2290	2410	3.493129	GCGCAAAGTAATGACGATATCCA	59.507	43.478	0.30	0.00	0.00	3.41
2291	2411	3.741344	AGCGCAAAGTAATGACGATATCC	59.259	43.478	11.47	0.00	0.00	2.59
2296	2416	3.496884	AGAAAAGCGCAAAGTAATGACGA	59.503	39.130	11.47	0.00	0.00	4.20
2297	2417	3.810373	AGAAAAGCGCAAAGTAATGACG	58.190	40.909	11.47	0.00	0.00	4.35
2298	2418	6.776094	AGATAGAAAAGCGCAAAGTAATGAC	58.224	36.000	11.47	0.00	0.00	3.06
2303	2423	7.843490	ACAATAGATAGAAAAGCGCAAAGTA	57.157	32.000	11.47	0.00	0.00	2.24
2307	2427	5.579119	TCGAACAATAGATAGAAAAGCGCAA	59.421	36.000	11.47	0.00	0.00	4.85
2311	2431	7.527084	ACTGTCGAACAATAGATAGAAAAGC	57.473	36.000	0.00	0.00	31.36	3.51
2321	2441	7.744715	GGTCAACAAATTACTGTCGAACAATAG	59.255	37.037	0.00	0.00	0.00	1.73
2322	2442	7.308109	GGGTCAACAAATTACTGTCGAACAATA	60.308	37.037	0.00	0.00	0.00	1.90
2327	2447	4.273969	GTGGGTCAACAAATTACTGTCGAA	59.726	41.667	0.00	0.00	0.00	3.71
2329	2449	3.813166	AGTGGGTCAACAAATTACTGTCG	59.187	43.478	0.00	0.00	0.00	4.35
2344	2464	4.947388	TGAAGGCAAATAATACAGTGGGTC	59.053	41.667	0.00	0.00	0.00	4.46
2351	2471	7.066284	GCTTCTCTCTTGAAGGCAAATAATACA	59.934	37.037	6.42	0.00	42.53	2.29
2362	2482	4.023291	ACTAGAGGCTTCTCTCTTGAAGG	58.977	47.826	0.00	0.00	43.99	3.46
2363	2483	4.704540	TCACTAGAGGCTTCTCTCTTGAAG	59.295	45.833	0.00	0.00	43.99	3.02
2365	2485	4.308526	TCACTAGAGGCTTCTCTCTTGA	57.691	45.455	0.00	0.90	43.99	3.02
2366	2486	5.167845	GTTTCACTAGAGGCTTCTCTCTTG	58.832	45.833	0.00	0.00	43.99	3.02
2367	2487	4.221924	GGTTTCACTAGAGGCTTCTCTCTT	59.778	45.833	0.00	0.00	43.99	2.85
2368	2488	3.767131	GGTTTCACTAGAGGCTTCTCTCT	59.233	47.826	0.00	0.00	43.99	3.10
2379	2499	2.124411	GGGGCCATAGGTTTCACTAGA	58.876	52.381	4.39	0.00	0.00	2.43

Based at the University of Bristol with support from BBSRC.

AutoCloner maintained by Alex Coulton.