AutoCloner

Multiple sequence alignment - TraesCS1B01G298600

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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	TraesCS1B01G298600	chr1B	100.000	2249	0	0	1	2249	520244092	520241844	0.000000e+00	4154
1	TraesCS1B01G298600	chr1B	85.332	1084	77	30	994	2063	520145208	520144193	0.000000e+00	1046
2	TraesCS1B01G298600	chr1B	96.429	392	11	3	607	996	520145642	520145252	0.000000e+00	643
3	TraesCS1B01G298600	chr1B	94.850	233	10	2	379	610	222210037	222210268	1.640000e-96	363
4	TraesCS1B01G298600	chr1B	87.879	264	26	4	994	1251	520277136	520276873	2.810000e-79	305
5	TraesCS1B01G298600	chr1B	81.783	258	24	13	1582	1830	520276330	520276087	6.340000e-46	195
6	TraesCS1B01G298600	chr1B	95.745	94	3	1	2155	2248	520144098	520144006	1.390000e-32	150
7	TraesCS1B01G298600	chr1B	94.937	79	3	1	1518	1596	520276697	520276620	3.030000e-24	122
8	TraesCS1B01G298600	chr1B	94.030	67	2	2	2083	2147	520144201	520144135	1.420000e-17	100
9	TraesCS1B01G298600	chr2A	100.000	610	0	0	1	610	461412201	461411592	0.000000e+00	1127
10	TraesCS1B01G298600	chr1A	98.867	618	7	0	1	618	64843447	64842830	0.000000e+00	1103
11	TraesCS1B01G298600	chr1A	83.646	1278	80	56	994	2248	486581333	486580162	0.000000e+00	1083
12	TraesCS1B01G298600	chr1A	89.710	379	28	4	610	986	486581739	486581370	7.270000e-130	473
13	TraesCS1B01G298600	chr1A	85.560	277	21	14	994	1258	486598475	486598206	2.850000e-69	272
14	TraesCS1B01G298600	chr3B	99.832	596	1	0	1	596	568296729	568297324	0.000000e+00	1096
15	TraesCS1B01G298600	chr3B	94.872	234	10	2	379	611	331543838	331543606	4.560000e-97	364
16	TraesCS1B01G298600	chr1D	84.975	1178	68	51	987	2152	386750056	386748976	0.000000e+00	1094
17	TraesCS1B01G298600	chr1D	90.196	612	42	9	2	610	467357632	467357036	0.000000e+00	782
18	TraesCS1B01G298600	chr1D	89.034	611	40	8	2	610	476218819	476219404	0.000000e+00	732
19	TraesCS1B01G298600	chr1D	88.235	391	21	8	611	996	386750468	386750098	5.700000e-121	444
20	TraesCS1B01G298600	chr1D	81.121	535	33	37	1308	1828	386786738	386786258	1.270000e-97	366
21	TraesCS1B01G298600	chr1D	86.594	276	25	9	988	1251	386787032	386786757	6.070000e-76	294
22	TraesCS1B01G298600	chr5B	94.290	613	21	3	2	612	530921849	530921249	0.000000e+00	926
23	TraesCS1B01G298600	chr2D	89.853	611	47	6	2	610	601057316	601057913	0.000000e+00	771
24	TraesCS1B01G298600	chr4A	88.052	611	57	6	2	610	532160938	532160342	0.000000e+00	710
25	TraesCS1B01G298600	chr7D	89.464	560	45	4	54	612	332691366	332690820	0.000000e+00	695
26	TraesCS1B01G298600	chr6B	94.894	235	10	2	379	612	699003290	699003523	1.270000e-97	366
27	TraesCS1B01G298600	chr5A	94.894	235	10	2	379	612	328702575	328702342	1.270000e-97	366
28	TraesCS1B01G298600	chr5A	94.850	233	10	2	379	610	675491613	675491382	1.640000e-96	363

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	TraesCS1B01G298600	chr1B	520241844	520244092	2248	True	4154.000000	4154	100.000000	1	2249	1	chr1B.!!$R1	2248
1	TraesCS1B01G298600	chr1B	520144006	520145642	1636	True	484.750000	1046	92.884000	607	2248	4	chr1B.!!$R2	1641
2	TraesCS1B01G298600	chr1B	520276087	520277136	1049	True	207.333333	305	88.199667	994	1830	3	chr1B.!!$R3	836
3	TraesCS1B01G298600	chr2A	461411592	461412201	609	True	1127.000000	1127	100.000000	1	610	1	chr2A.!!$R1	609
4	TraesCS1B01G298600	chr1A	64842830	64843447	617	True	1103.000000	1103	98.867000	1	618	1	chr1A.!!$R1	617
5	TraesCS1B01G298600	chr1A	486580162	486581739	1577	True	778.000000	1083	86.678000	610	2248	2	chr1A.!!$R3	1638
6	TraesCS1B01G298600	chr3B	568296729	568297324	595	False	1096.000000	1096	99.832000	1	596	1	chr3B.!!$F1	595
7	TraesCS1B01G298600	chr1D	467357036	467357632	596	True	782.000000	782	90.196000	2	610	1	chr1D.!!$R1	608
8	TraesCS1B01G298600	chr1D	386748976	386750468	1492	True	769.000000	1094	86.605000	611	2152	2	chr1D.!!$R2	1541
9	TraesCS1B01G298600	chr1D	476218819	476219404	585	False	732.000000	732	89.034000	2	610	1	chr1D.!!$F1	608
10	TraesCS1B01G298600	chr1D	386786258	386787032	774	True	330.000000	366	83.857500	988	1828	2	chr1D.!!$R3	840
11	TraesCS1B01G298600	chr5B	530921249	530921849	600	True	926.000000	926	94.290000	2	612	1	chr5B.!!$R1	610
12	TraesCS1B01G298600	chr2D	601057316	601057913	597	False	771.000000	771	89.853000	2	610	1	chr2D.!!$F1	608
13	TraesCS1B01G298600	chr4A	532160342	532160938	596	True	710.000000	710	88.052000	2	610	1	chr4A.!!$R1	608
14	TraesCS1B01G298600	chr7D	332690820	332691366	546	True	695.000000	695	89.464000	54	612	1	chr7D.!!$R1	558

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
982	1015	1.299468	CTCGCAGCGTGGAGGATAC	60.299	63.158	15.93	0.0	0.0	2.24	F

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability	Orientation
1874	2311	0.682852	ACACGATCCCCTTTGTCGAA	59.317	50.0	0.69	0.0	38.63	3.71	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
722	726	4.028490	TACAAGGCGGCCCCACAG	62.028	66.667	17.02	3.79	35.39	3.66
793	803	3.556306	CCCCACGTGACACCTGGT	61.556	66.667	19.30	0.00	0.00	4.00
935	946	2.909577	GCTCTGCTCTCTGCCCAT	59.090	61.111	0.00	0.00	42.00	4.00
982	1015	1.299468	CTCGCAGCGTGGAGGATAC	60.299	63.158	15.93	0.00	0.00	2.24
986	1019	1.443407	CAGCGTGGAGGATACCCAG	59.557	63.158	0.00	0.00	37.56	4.45
992	1054	4.601042	GAGGATACCCAGCCTCGA	57.399	61.111	0.00	0.00	46.88	4.04
1029	1091	2.671070	GGCTACCAGGCTCAAGCA	59.329	61.111	12.69	0.00	44.36	3.91
1129	1209	2.899339	GCGGCCAGATCAAGGAGC	60.899	66.667	2.24	8.41	0.00	4.70
1252	1332	2.280524	CCGACGCCAAGTGAACCA	60.281	61.111	0.00	0.00	0.00	3.67
1289	1385	4.427661	GCTCGCTCGGTGTGCTCT	62.428	66.667	4.84	0.00	31.18	4.09
1290	1386	2.202544	CTCGCTCGGTGTGCTCTC	60.203	66.667	0.00	0.00	0.00	3.20
1291	1387	3.691744	CTCGCTCGGTGTGCTCTCC	62.692	68.421	0.00	0.00	0.00	3.71
1292	1388	3.753434	CGCTCGGTGTGCTCTCCT	61.753	66.667	5.43	0.00	0.00	3.69
1293	1389	2.659610	GCTCGGTGTGCTCTCCTT	59.340	61.111	5.43	0.00	0.00	3.36
1294	1390	1.739562	GCTCGGTGTGCTCTCCTTG	60.740	63.158	5.43	0.00	0.00	3.61
1295	1391	1.739562	CTCGGTGTGCTCTCCTTGC	60.740	63.158	5.43	0.00	0.00	4.01
1296	1392	2.743928	CGGTGTGCTCTCCTTGCC	60.744	66.667	5.43	0.00	0.00	4.52
1297	1393	2.753029	GGTGTGCTCTCCTTGCCT	59.247	61.111	0.00	0.00	0.00	4.75
1298	1394	1.376553	GGTGTGCTCTCCTTGCCTC	60.377	63.158	0.00	0.00	0.00	4.70
1299	1395	1.739562	GTGTGCTCTCCTTGCCTCG	60.740	63.158	0.00	0.00	0.00	4.63
1300	1396	2.210013	TGTGCTCTCCTTGCCTCGT	61.210	57.895	0.00	0.00	0.00	4.18
1301	1397	1.446966	GTGCTCTCCTTGCCTCGTC	60.447	63.158	0.00	0.00	0.00	4.20
1302	1398	2.202676	GCTCTCCTTGCCTCGTCG	60.203	66.667	0.00	0.00	0.00	5.12
1303	1399	2.701780	GCTCTCCTTGCCTCGTCGA	61.702	63.158	0.00	0.00	0.00	4.20
1304	1400	2.010582	GCTCTCCTTGCCTCGTCGAT	62.011	60.000	0.00	0.00	0.00	3.59
1305	1401	0.030101	CTCTCCTTGCCTCGTCGATC	59.970	60.000	0.00	0.00	0.00	3.69
1306	1402	0.394488	TCTCCTTGCCTCGTCGATCT	60.394	55.000	0.00	0.00	0.00	2.75
1379	1476	7.358830	CCGGAGCAAAATACTACTACTACTAC	58.641	42.308	0.00	0.00	0.00	2.73
1381	1478	8.281893	CGGAGCAAAATACTACTACTACTACTC	58.718	40.741	0.00	0.00	0.00	2.59
1382	1479	9.341078	GGAGCAAAATACTACTACTACTACTCT	57.659	37.037	0.00	0.00	0.00	3.24
1384	1481	9.683870	AGCAAAATACTACTACTACTACTCTGT	57.316	33.333	0.00	0.00	0.00	3.41
1385	1482	9.719279	GCAAAATACTACTACTACTACTCTGTG	57.281	37.037	0.00	0.00	0.00	3.66
1386	1483	9.719279	CAAAATACTACTACTACTACTCTGTGC	57.281	37.037	0.00	0.00	0.00	4.57
1387	1484	9.683870	AAAATACTACTACTACTACTCTGTGCT	57.316	33.333	0.00	0.00	0.00	4.40
1388	1485	8.891671	AATACTACTACTACTACTCTGTGCTC	57.108	38.462	0.00	0.00	0.00	4.26
1389	1486	6.297080	ACTACTACTACTACTCTGTGCTCA	57.703	41.667	0.00	0.00	0.00	4.26
1390	1487	6.891388	ACTACTACTACTACTCTGTGCTCAT	58.109	40.000	0.00	0.00	0.00	2.90
1391	1488	7.340256	ACTACTACTACTACTCTGTGCTCATT	58.660	38.462	0.00	0.00	0.00	2.57
1392	1489	6.443934	ACTACTACTACTCTGTGCTCATTG	57.556	41.667	0.00	0.00	0.00	2.82
1393	1490	5.946972	ACTACTACTACTCTGTGCTCATTGT	59.053	40.000	0.00	0.00	0.00	2.71
1394	1491	7.110810	ACTACTACTACTCTGTGCTCATTGTA	58.889	38.462	0.00	0.00	0.00	2.41
1395	1492	6.443934	ACTACTACTCTGTGCTCATTGTAG	57.556	41.667	18.45	18.45	36.41	2.74
1396	1493	5.946972	ACTACTACTCTGTGCTCATTGTAGT	59.053	40.000	24.09	24.09	41.05	2.73
1397	1494	7.110810	ACTACTACTCTGTGCTCATTGTAGTA	58.889	38.462	23.88	23.88	39.97	1.82
1398	1495	6.443934	ACTACTCTGTGCTCATTGTAGTAG	57.556	41.667	21.64	19.39	38.90	2.57
1399	1496	5.946972	ACTACTCTGTGCTCATTGTAGTAGT	59.053	40.000	21.64	19.81	41.86	2.73
1407	1506	8.615878	TGTGCTCATTGTAGTAGTTTGTTAAT	57.384	30.769	0.00	0.00	0.00	1.40
1433	1532	4.059136	GCGTCAGCGTCAGTACTC	57.941	61.111	0.00	0.00	40.81	2.59
1434	1533	1.209383	GCGTCAGCGTCAGTACTCA	59.791	57.895	0.00	0.00	40.81	3.41
1435	1534	0.794981	GCGTCAGCGTCAGTACTCAG	60.795	60.000	0.00	0.00	40.81	3.35
1443	1542	1.819288	CGTCAGTACTCAGTGGTGGAT	59.181	52.381	0.00	0.00	0.00	3.41
1462	1561	5.827797	GTGGATGGATTCAGTTGCCTTATTA	59.172	40.000	0.00	0.00	0.00	0.98
1643	2060	1.021202	CGTCTTCATCTCCTCGAGCT	58.979	55.000	6.99	0.00	0.00	4.09
1680	2098	1.884235	CCAGGTCTTCAGGTTGTGTC	58.116	55.000	0.00	0.00	0.00	3.67
1681	2099	1.417890	CCAGGTCTTCAGGTTGTGTCT	59.582	52.381	0.00	0.00	0.00	3.41
1682	2100	2.158755	CCAGGTCTTCAGGTTGTGTCTT	60.159	50.000	0.00	0.00	0.00	3.01
1683	2101	2.874701	CAGGTCTTCAGGTTGTGTCTTG	59.125	50.000	0.00	0.00	0.00	3.02
1684	2102	2.505819	AGGTCTTCAGGTTGTGTCTTGT	59.494	45.455	0.00	0.00	0.00	3.16
1685	2103	2.614057	GGTCTTCAGGTTGTGTCTTGTG	59.386	50.000	0.00	0.00	0.00	3.33
1697	2115	0.040603	GTCTTGTGTGCTGCTTGCTC	60.041	55.000	0.00	1.48	43.37	4.26
1752	2178	4.098894	ACTGTAAAAAGGAGGGACGGATA	58.901	43.478	0.00	0.00	0.00	2.59
1830	2261	6.838198	TTATGGTCCGTTCTTATCAAATCG	57.162	37.500	0.00	0.00	0.00	3.34
1857	2294	7.907214	ACTACTGGTTACTCTTAAGCATTTG	57.093	36.000	0.00	0.00	43.16	2.32
1858	2295	6.879458	ACTACTGGTTACTCTTAAGCATTTGG	59.121	38.462	0.00	0.00	43.16	3.28
1859	2296	5.010282	ACTGGTTACTCTTAAGCATTTGGG	58.990	41.667	0.00	0.00	43.16	4.12
1860	2297	4.340617	TGGTTACTCTTAAGCATTTGGGG	58.659	43.478	0.00	0.00	40.09	4.96
1861	2298	4.202631	TGGTTACTCTTAAGCATTTGGGGT	60.203	41.667	0.00	0.00	40.09	4.95
1862	2299	4.398358	GGTTACTCTTAAGCATTTGGGGTC	59.602	45.833	0.00	0.00	35.99	4.46
1863	2300	2.711542	ACTCTTAAGCATTTGGGGTCG	58.288	47.619	0.00	0.00	0.00	4.79
1864	2301	2.039879	ACTCTTAAGCATTTGGGGTCGT	59.960	45.455	0.00	0.00	0.00	4.34
1865	2302	2.420022	CTCTTAAGCATTTGGGGTCGTG	59.580	50.000	0.00	0.00	0.00	4.35
1866	2303	2.159382	CTTAAGCATTTGGGGTCGTGT	58.841	47.619	0.00	0.00	0.00	4.49
1867	2304	2.279935	TAAGCATTTGGGGTCGTGTT	57.720	45.000	0.00	0.00	0.00	3.32
1868	2305	2.279935	AAGCATTTGGGGTCGTGTTA	57.720	45.000	0.00	0.00	0.00	2.41
1869	2306	2.279935	AGCATTTGGGGTCGTGTTAA	57.720	45.000	0.00	0.00	0.00	2.01
1870	2307	2.802719	AGCATTTGGGGTCGTGTTAAT	58.197	42.857	0.00	0.00	0.00	1.40
1871	2308	3.161866	AGCATTTGGGGTCGTGTTAATT	58.838	40.909	0.00	0.00	0.00	1.40
1872	2309	3.576550	AGCATTTGGGGTCGTGTTAATTT	59.423	39.130	0.00	0.00	0.00	1.82
1873	2310	4.039852	AGCATTTGGGGTCGTGTTAATTTT	59.960	37.500	0.00	0.00	0.00	1.82
1874	2311	4.752604	GCATTTGGGGTCGTGTTAATTTTT	59.247	37.500	0.00	0.00	0.00	1.94
1975	2418	5.544650	CTTGACCTCTGCATTTCCATTTTT	58.455	37.500	0.00	0.00	0.00	1.94
2042	2485	2.357517	GTCCTGTCACCTGCGTGG	60.358	66.667	0.00	0.00	40.65	4.94
2057	2500	1.003262	CGTGGCGCAAGGAAAACATG	61.003	55.000	10.83	0.00	38.28	3.21
2171	2645	1.070134	ACTGTTGGCGCTCAAGTCTTA	59.930	47.619	7.64	0.00	35.80	2.10
2191	2665	2.277008	ATCCATCTCCCACAGACCTT	57.723	50.000	0.00	0.00	32.26	3.50
2248	2722	3.381136	GCCGATGCCAAAAGCCCA	61.381	61.111	0.00	0.00	42.71	5.36

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
722	726	4.390909	ACATCTAAATTTTGGACGGTCGAC	59.609	41.667	7.13	7.13	0.00	4.20
793	803	1.132977	TCTCAGTGACAGGTGGGGTAA	60.133	52.381	0.00	0.00	0.00	2.85
935	946	1.091537	GTTAAATAGGCGGCTGTGCA	58.908	50.000	23.55	0.57	36.28	4.57
964	975	1.299468	GTATCCTCCACGCTGCGAG	60.299	63.158	30.47	21.26	0.00	5.03
982	1015	1.961180	ATTCTTCCGTCGAGGCTGGG	61.961	60.000	0.00	0.00	40.77	4.45
986	1019	2.174319	GCCATTCTTCCGTCGAGGC	61.174	63.158	0.00	0.00	40.77	4.70
992	1054	0.609131	CTTGGTGGCCATTCTTCCGT	60.609	55.000	9.72	0.00	31.53	4.69
1129	1209	2.223805	TGATCACGTCCTTGATGATCCG	60.224	50.000	10.16	0.00	45.41	4.18
1252	1332	2.606826	GTGGAGGAGAACGGGGGT	60.607	66.667	0.00	0.00	0.00	4.95
1278	1374	2.343758	GCAAGGAGAGCACACCGA	59.656	61.111	0.00	0.00	32.13	4.69
1279	1375	2.743928	GGCAAGGAGAGCACACCG	60.744	66.667	0.00	0.00	32.13	4.94
1280	1376	1.376553	GAGGCAAGGAGAGCACACC	60.377	63.158	0.00	0.00	0.00	4.16
1281	1377	1.739562	CGAGGCAAGGAGAGCACAC	60.740	63.158	0.00	0.00	0.00	3.82
1282	1378	2.159819	GACGAGGCAAGGAGAGCACA	62.160	60.000	0.00	0.00	0.00	4.57
1283	1379	1.446966	GACGAGGCAAGGAGAGCAC	60.447	63.158	0.00	0.00	0.00	4.40
1284	1380	2.973899	GACGAGGCAAGGAGAGCA	59.026	61.111	0.00	0.00	0.00	4.26
1285	1381	2.010582	ATCGACGAGGCAAGGAGAGC	62.011	60.000	3.01	0.00	0.00	4.09
1286	1382	0.030101	GATCGACGAGGCAAGGAGAG	59.970	60.000	3.01	0.00	0.00	3.20
1287	1383	0.394488	AGATCGACGAGGCAAGGAGA	60.394	55.000	3.01	0.00	0.00	3.71
1288	1384	0.030101	GAGATCGACGAGGCAAGGAG	59.970	60.000	3.01	0.00	0.00	3.69
1289	1385	1.715862	CGAGATCGACGAGGCAAGGA	61.716	60.000	3.01	0.00	43.02	3.36
1290	1386	1.298713	CGAGATCGACGAGGCAAGG	60.299	63.158	3.01	0.00	43.02	3.61
1291	1387	0.590230	GACGAGATCGACGAGGCAAG	60.590	60.000	18.74	0.00	43.02	4.01
1292	1388	1.428219	GACGAGATCGACGAGGCAA	59.572	57.895	18.74	0.00	43.02	4.52
1293	1389	2.470362	GGACGAGATCGACGAGGCA	61.470	63.158	18.74	0.00	43.02	4.75
1294	1390	2.108344	GAGGACGAGATCGACGAGGC	62.108	65.000	18.74	0.00	43.02	4.70
1295	1391	0.531090	AGAGGACGAGATCGACGAGG	60.531	60.000	18.74	0.00	43.02	4.63
1296	1392	0.579630	CAGAGGACGAGATCGACGAG	59.420	60.000	18.74	0.00	43.02	4.18
1297	1393	0.108281	ACAGAGGACGAGATCGACGA	60.108	55.000	18.74	0.00	43.02	4.20
1298	1394	0.727970	AACAGAGGACGAGATCGACG	59.272	55.000	9.58	12.30	43.02	5.12
1299	1395	1.795889	GCAACAGAGGACGAGATCGAC	60.796	57.143	9.58	2.41	43.02	4.20
1300	1396	0.452184	GCAACAGAGGACGAGATCGA	59.548	55.000	9.58	0.00	43.02	3.59
1301	1397	0.453793	AGCAACAGAGGACGAGATCG	59.546	55.000	0.00	0.00	46.33	3.69
1302	1398	2.685897	AGTAGCAACAGAGGACGAGATC	59.314	50.000	0.00	0.00	0.00	2.75
1303	1399	2.685897	GAGTAGCAACAGAGGACGAGAT	59.314	50.000	0.00	0.00	0.00	2.75
1304	1400	2.085320	GAGTAGCAACAGAGGACGAGA	58.915	52.381	0.00	0.00	0.00	4.04
1305	1401	2.088423	AGAGTAGCAACAGAGGACGAG	58.912	52.381	0.00	0.00	0.00	4.18
1306	1402	1.813178	CAGAGTAGCAACAGAGGACGA	59.187	52.381	0.00	0.00	0.00	4.20
1379	1476	5.928839	ACAAACTACTACAATGAGCACAGAG	59.071	40.000	0.00	0.00	0.00	3.35
1381	1478	6.545504	AACAAACTACTACAATGAGCACAG	57.454	37.500	0.00	0.00	0.00	3.66
1382	1479	8.615878	ATTAACAAACTACTACAATGAGCACA	57.384	30.769	0.00	0.00	0.00	4.57
1383	1480	9.893305	AAATTAACAAACTACTACAATGAGCAC	57.107	29.630	0.00	0.00	0.00	4.40
1388	1485	9.887406	ACGGAAAATTAACAAACTACTACAATG	57.113	29.630	0.00	0.00	0.00	2.82
1390	1487	8.274939	CGACGGAAAATTAACAAACTACTACAA	58.725	33.333	0.00	0.00	0.00	2.41
1391	1488	7.569226	GCGACGGAAAATTAACAAACTACTACA	60.569	37.037	0.00	0.00	0.00	2.74
1392	1489	6.733725	GCGACGGAAAATTAACAAACTACTAC	59.266	38.462	0.00	0.00	0.00	2.73
1393	1490	6.399880	CGCGACGGAAAATTAACAAACTACTA	60.400	38.462	0.00	0.00	0.00	1.82
1394	1491	5.613142	CGCGACGGAAAATTAACAAACTACT	60.613	40.000	0.00	0.00	0.00	2.57
1395	1492	4.546941	CGCGACGGAAAATTAACAAACTAC	59.453	41.667	0.00	0.00	0.00	2.73
1396	1493	4.210955	ACGCGACGGAAAATTAACAAACTA	59.789	37.500	15.93	0.00	0.00	2.24
1397	1494	3.002553	ACGCGACGGAAAATTAACAAACT	59.997	39.130	15.93	0.00	0.00	2.66
1398	1495	3.290748	ACGCGACGGAAAATTAACAAAC	58.709	40.909	15.93	0.00	0.00	2.93
1399	1496	3.002042	TGACGCGACGGAAAATTAACAAA	59.998	39.130	15.93	0.00	0.00	2.83
1429	1528	3.449918	TGAATCCATCCACCACTGAGTA	58.550	45.455	0.00	0.00	0.00	2.59
1430	1529	2.238144	CTGAATCCATCCACCACTGAGT	59.762	50.000	0.00	0.00	0.00	3.41
1431	1530	2.238144	ACTGAATCCATCCACCACTGAG	59.762	50.000	0.00	0.00	0.00	3.35
1432	1531	2.269023	ACTGAATCCATCCACCACTGA	58.731	47.619	0.00	0.00	0.00	3.41
1433	1532	2.751259	CAACTGAATCCATCCACCACTG	59.249	50.000	0.00	0.00	0.00	3.66
1434	1533	2.881403	GCAACTGAATCCATCCACCACT	60.881	50.000	0.00	0.00	0.00	4.00
1435	1534	1.474077	GCAACTGAATCCATCCACCAC	59.526	52.381	0.00	0.00	0.00	4.16
1462	1561	1.562783	GGAGACCAGTTGCTACCTCT	58.437	55.000	0.00	0.00	0.00	3.69
1522	1621	0.374063	CAGCAGCAGCAAGAAGATCG	59.626	55.000	3.17	0.00	45.49	3.69
1643	2060	1.381928	GGCTACGATCGACCAGACCA	61.382	60.000	24.34	0.00	0.00	4.02
1697	2115	1.358759	GAGCACACAACCAAACCCG	59.641	57.895	0.00	0.00	0.00	5.28
1752	2178	4.642429	GGATCGGACCATAATACTTGCTT	58.358	43.478	0.00	0.00	0.00	3.91
1830	2261	9.819267	AAATGCTTAAGAGTAACCAGTAGTATC	57.181	33.333	6.67	0.00	0.00	2.24
1871	2308	2.550606	CACGATCCCCTTTGTCGAAAAA	59.449	45.455	0.00	0.00	38.63	1.94
1872	2309	2.147958	CACGATCCCCTTTGTCGAAAA	58.852	47.619	0.69	0.00	38.63	2.29
1873	2310	1.071071	ACACGATCCCCTTTGTCGAAA	59.929	47.619	0.69	0.00	38.63	3.46
1874	2311	0.682852	ACACGATCCCCTTTGTCGAA	59.317	50.000	0.69	0.00	38.63	3.71
1875	2312	0.682852	AACACGATCCCCTTTGTCGA	59.317	50.000	0.69	0.00	38.63	4.20
1876	2313	2.373540	TAACACGATCCCCTTTGTCG	57.626	50.000	0.00	0.00	40.91	4.35
1877	2314	6.110707	TCTAATTAACACGATCCCCTTTGTC	58.889	40.000	0.00	0.00	0.00	3.18
1878	2315	6.057321	TCTAATTAACACGATCCCCTTTGT	57.943	37.500	0.00	0.00	0.00	2.83
1879	2316	6.995511	TTCTAATTAACACGATCCCCTTTG	57.004	37.500	0.00	0.00	0.00	2.77
1880	2317	6.376299	GGTTTCTAATTAACACGATCCCCTTT	59.624	38.462	0.00	0.00	0.00	3.11
1881	2318	5.884232	GGTTTCTAATTAACACGATCCCCTT	59.116	40.000	0.00	0.00	0.00	3.95
1882	2319	5.434408	GGTTTCTAATTAACACGATCCCCT	58.566	41.667	0.00	0.00	0.00	4.79
1883	2320	4.577693	GGGTTTCTAATTAACACGATCCCC	59.422	45.833	0.00	0.00	0.00	4.81
2042	2485	0.733909	GAGCCATGTTTTCCTTGCGC	60.734	55.000	0.00	0.00	0.00	6.09
2054	2497	2.099263	CCTCAATCAAAGCTGAGCCATG	59.901	50.000	0.00	0.00	38.19	3.66
2057	2500	1.101331	CCCTCAATCAAAGCTGAGCC	58.899	55.000	0.00	0.00	38.19	4.70
2171	2645	2.240667	CAAGGTCTGTGGGAGATGGATT	59.759	50.000	0.00	0.00	31.63	3.01
2191	2665	2.485479	GGAGACTTGACTTGGACAAGCA	60.485	50.000	11.73	8.20	45.66	3.91

Based at the University of Bristol with support from BBSRC.

AutoCloner maintained by Alex Coulton.