AutoCloner

Multiple sequence alignment - TraesCS4A01G362500

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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	TraesCS4A01G362500	chr4A	100.000	2756	0	0	1	2756	636114803	636112048	0.000000e+00	5090.0
1	TraesCS4A01G362500	chr4A	91.026	78	7	0	1613	1690	636042688	636042611	3.750000e-19	106.0
2	TraesCS4A01G362500	chr3A	98.341	904	14	1	1	904	93570526	93571428	0.000000e+00	1585.0
3	TraesCS4A01G362500	chr7A	98.011	905	15	3	1	903	84698096	84698999	0.000000e+00	1568.0
4	TraesCS4A01G362500	chr7A	97.235	904	11	8	1	903	47821476	47822366	0.000000e+00	1519.0
5	TraesCS4A01G362500	chr1A	96.909	906	24	3	1	903	6066386	6065482	0.000000e+00	1515.0
6	TraesCS4A01G362500	chr1A	83.333	78	9	4	865	940	363435644	363435719	4.920000e-08	69.4
7	TraesCS4A01G362500	chr1B	97.095	895	22	4	12	903	38587211	38586318	0.000000e+00	1506.0
8	TraesCS4A01G362500	chr2B	98.582	846	12	0	1911	2756	63165409	63166254	0.000000e+00	1496.0
9	TraesCS4A01G362500	chr2B	86.680	518	55	10	116	627	557347840	557348349	1.850000e-156	562.0
10	TraesCS4A01G362500	chr6A	98.454	841	12	1	1916	2756	91914452	91913613	0.000000e+00	1480.0
11	TraesCS4A01G362500	chr6A	97.628	843	20	0	1914	2756	34206814	34205972	0.000000e+00	1447.0
12	TraesCS4A01G362500	chr3D	97.024	840	24	1	1917	2756	56291631	56292469	0.000000e+00	1411.0
13	TraesCS4A01G362500	chr3D	96.782	839	26	1	1918	2756	11985245	11986082	0.000000e+00	1399.0
14	TraesCS4A01G362500	chr3D	87.066	518	54	9	116	627	462271442	462270932	8.560000e-160	573.0
15	TraesCS4A01G362500	chr4D	96.793	842	25	2	1915	2756	2811477	2812316	0.000000e+00	1404.0
16	TraesCS4A01G362500	chr6D	96.572	846	26	3	1912	2756	360677605	360678448	0.000000e+00	1399.0
17	TraesCS4A01G362500	chr1D	96.564	844	28	1	1913	2756	365912917	365912075	0.000000e+00	1397.0
18	TraesCS4A01G362500	chr2D	96.552	841	28	1	1916	2756	61348964	61349803	0.000000e+00	1391.0
19	TraesCS4A01G362500	chr5D	93.735	415	14	1	1039	1453	535728959	535729361	1.810000e-171	612.0
20	TraesCS4A01G362500	chr5D	95.021	241	12	0	1451	1691	535786450	535786690	2.000000e-101	379.0
21	TraesCS4A01G362500	chr5D	85.854	205	14	7	1691	1880	535787058	535787262	1.290000e-48	204.0
22	TraesCS4A01G362500	chr5D	91.447	152	6	3	903	1047	535728754	535728905	4.650000e-48	202.0
23	TraesCS4A01G362500	chr5D	100.000	38	0	0	1878	1915	535798114	535798151	1.370000e-08	71.3
24	TraesCS4A01G362500	chr3B	85.106	517	54	13	116	627	817432091	817432589	8.810000e-140	507.0
25	TraesCS4A01G362500	chrUn	84.574	376	38	11	537	903	30138603	30138239	3.380000e-94	355.0
26	TraesCS4A01G362500	chr4B	81.266	379	47	14	534	903	666965411	666965774	4.490000e-73	285.0
27	TraesCS4A01G362500	chr5B	84.082	245	35	4	369	610	382911515	382911272	1.650000e-57	233.0
28	TraesCS4A01G362500	chr5B	89.655	58	6	0	860	917	703335336	703335393	1.060000e-09	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	TraesCS4A01G362500	chr4A	636112048	636114803	2755	True	5090.0	5090	100.0000	1	2756	1	chr4A.!!$R2	2755
1	TraesCS4A01G362500	chr3A	93570526	93571428	902	False	1585.0	1585	98.3410	1	904	1	chr3A.!!$F1	903
2	TraesCS4A01G362500	chr7A	84698096	84698999	903	False	1568.0	1568	98.0110	1	903	1	chr7A.!!$F2	902
3	TraesCS4A01G362500	chr7A	47821476	47822366	890	False	1519.0	1519	97.2350	1	903	1	chr7A.!!$F1	902
4	TraesCS4A01G362500	chr1A	6065482	6066386	904	True	1515.0	1515	96.9090	1	903	1	chr1A.!!$R1	902
5	TraesCS4A01G362500	chr1B	38586318	38587211	893	True	1506.0	1506	97.0950	12	903	1	chr1B.!!$R1	891
6	TraesCS4A01G362500	chr2B	63165409	63166254	845	False	1496.0	1496	98.5820	1911	2756	1	chr2B.!!$F1	845
7	TraesCS4A01G362500	chr2B	557347840	557348349	509	False	562.0	562	86.6800	116	627	1	chr2B.!!$F2	511
8	TraesCS4A01G362500	chr6A	91913613	91914452	839	True	1480.0	1480	98.4540	1916	2756	1	chr6A.!!$R2	840
9	TraesCS4A01G362500	chr6A	34205972	34206814	842	True	1447.0	1447	97.6280	1914	2756	1	chr6A.!!$R1	842
10	TraesCS4A01G362500	chr3D	56291631	56292469	838	False	1411.0	1411	97.0240	1917	2756	1	chr3D.!!$F2	839
11	TraesCS4A01G362500	chr3D	11985245	11986082	837	False	1399.0	1399	96.7820	1918	2756	1	chr3D.!!$F1	838
12	TraesCS4A01G362500	chr3D	462270932	462271442	510	True	573.0	573	87.0660	116	627	1	chr3D.!!$R1	511
13	TraesCS4A01G362500	chr4D	2811477	2812316	839	False	1404.0	1404	96.7930	1915	2756	1	chr4D.!!$F1	841
14	TraesCS4A01G362500	chr6D	360677605	360678448	843	False	1399.0	1399	96.5720	1912	2756	1	chr6D.!!$F1	844
15	TraesCS4A01G362500	chr1D	365912075	365912917	842	True	1397.0	1397	96.5640	1913	2756	1	chr1D.!!$R1	843
16	TraesCS4A01G362500	chr2D	61348964	61349803	839	False	1391.0	1391	96.5520	1916	2756	1	chr2D.!!$F1	840
17	TraesCS4A01G362500	chr5D	535728754	535729361	607	False	407.0	612	92.5910	903	1453	2	chr5D.!!$F2	550
18	TraesCS4A01G362500	chr5D	535786450	535787262	812	False	291.5	379	90.4375	1451	1880	2	chr5D.!!$F3	429

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
241	245	0.66297	CTTAGCTGCTCGATCGCCTC	60.663	60.0	11.09	2.13	0.0	4.7	F

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability	Orientation
1770	2218	0.105964	TTGTAGTTTTGGCTGCCCCA	60.106	50.0	17.53	0.0	43.51	4.96	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
109	111	1.694150	TCCTTTCGGCATAGATCCCAG	59.306	52.381	0.00	0.00	0.00	4.45
130	132	6.119536	CCAGCACCTTGGTAATACTTGAATA	58.880	40.000	0.00	0.00	33.38	1.75
147	149	6.318144	ACTTGAATATGTCCTTGCATCTTCAG	59.682	38.462	0.00	0.00	40.50	3.02
241	245	0.662970	CTTAGCTGCTCGATCGCCTC	60.663	60.000	11.09	2.13	0.00	4.70
313	318	9.367444	CTTATTATAACCGTGATTGGGAGTATC	57.633	37.037	0.00	0.00	0.00	2.24
912	923	8.887717	ACGGGCGTTATACTAGTAATATCTAAG	58.112	37.037	6.70	0.00	0.00	2.18
913	924	8.887717	CGGGCGTTATACTAGTAATATCTAAGT	58.112	37.037	6.70	0.00	0.00	2.24
972	986	6.484643	AGATGAAATGACGAACATCCCTATTG	59.515	38.462	0.00	0.00	39.61	1.90
1054	1134	4.832248	TGTGAATTCTCGCTTACTTCCAT	58.168	39.130	7.05	0.00	32.95	3.41
1056	1136	5.705441	TGTGAATTCTCGCTTACTTCCATTT	59.295	36.000	7.05	0.00	32.95	2.32
1060	1140	6.575162	ATTCTCGCTTACTTCCATTTTTGT	57.425	33.333	0.00	0.00	0.00	2.83
1102	1182	1.267121	GACACTGCAGGAGGTCCTAA	58.733	55.000	19.93	0.00	46.65	2.69
1143	1223	7.370383	ACATAAACCATGAGCAACTAACAAAG	58.630	34.615	0.00	0.00	38.10	2.77
1144	1224	3.923017	ACCATGAGCAACTAACAAAGC	57.077	42.857	0.00	0.00	0.00	3.51
1145	1225	2.226437	ACCATGAGCAACTAACAAAGCG	59.774	45.455	0.00	0.00	0.00	4.68
1146	1226	2.226437	CCATGAGCAACTAACAAAGCGT	59.774	45.455	0.00	0.00	0.00	5.07
1147	1227	3.228749	CATGAGCAACTAACAAAGCGTG	58.771	45.455	0.00	0.00	0.00	5.34
1148	1228	2.285083	TGAGCAACTAACAAAGCGTGT	58.715	42.857	0.00	0.00	44.64	4.49
1149	1229	2.286833	TGAGCAACTAACAAAGCGTGTC	59.713	45.455	0.00	0.00	40.60	3.67
1150	1230	2.544267	GAGCAACTAACAAAGCGTGTCT	59.456	45.455	0.00	0.00	40.60	3.41
1151	1231	2.943033	AGCAACTAACAAAGCGTGTCTT	59.057	40.909	0.00	0.00	40.60	3.01
1152	1232	3.002348	AGCAACTAACAAAGCGTGTCTTC	59.998	43.478	0.00	0.00	40.60	2.87
1153	1233	3.531982	CAACTAACAAAGCGTGTCTTCG	58.468	45.455	0.00	0.00	40.60	3.79
1154	1234	3.088194	ACTAACAAAGCGTGTCTTCGA	57.912	42.857	0.00	0.00	40.60	3.71
1176	1256	7.701445	TCGAGGTACTTCTATACAAAGCTTAC	58.299	38.462	0.00	0.00	41.55	2.34
1198	1278	0.034670	AGGATGCCAGCAAAGTCCTC	60.035	55.000	7.34	0.00	34.26	3.71
1204	1284	0.879765	CCAGCAAAGTCCTCTTGCAG	59.120	55.000	9.93	2.08	33.79	4.41
1280	1360	5.698832	TCTAAAAGTGGTTGCATTTGATCG	58.301	37.500	0.00	0.00	0.00	3.69
1288	1368	1.750193	TGCATTTGATCGACCTTCCC	58.250	50.000	0.00	0.00	0.00	3.97
1299	1379	2.112998	CGACCTTCCCCACAGGTTATA	58.887	52.381	0.00	0.00	45.30	0.98
1370	1450	5.019470	AGGATGGATATTCTCGCACTCATA	58.981	41.667	0.00	0.00	0.00	2.15
1392	1472	2.014010	TTCTTGCAGGGCAGGAATTT	57.986	45.000	11.10	0.00	46.67	1.82
1418	1498	4.314440	GGCAGGTCGTGTGCTGGA	62.314	66.667	6.41	0.00	40.97	3.86
1453	1533	5.116882	ACTTTTATAGCTTTGGCCTCTACG	58.883	41.667	3.32	0.00	39.73	3.51
1474	1554	3.746949	GAGCTCCACTGGATGCCGG	62.747	68.421	0.87	0.00	35.68	6.13
1475	1555	4.864334	GCTCCACTGGATGCCGGG	62.864	72.222	2.18	0.00	33.40	5.73
1481	1561	4.864334	CTGGATGCCGGGGTGCTC	62.864	72.222	2.18	0.00	0.00	4.26
1484	1564	2.361104	GATGCCGGGGTGCTCAAA	60.361	61.111	2.18	0.00	0.00	2.69
1502	1582	1.229428	AAGTGCGTCACATTGGACTG	58.771	50.000	11.58	0.00	36.84	3.51
1548	1628	4.082026	CCTTCAGGGAAATTTGTTAGCCAG	60.082	45.833	0.00	0.00	37.23	4.85
1571	1651	6.148811	CAGGTTAATAAGAAACTCGCCTTTCA	59.851	38.462	7.21	0.00	33.26	2.69
1650	1730	8.579850	TCATTGCTAATAACAACCTCTTCATT	57.420	30.769	0.00	0.00	0.00	2.57
1724	2172	4.616835	GCCAATGACAACCTCTTCATCAAC	60.617	45.833	0.00	0.00	30.96	3.18
1732	2180	5.707298	ACAACCTCTTCATCAACGATTCAAT	59.293	36.000	0.00	0.00	0.00	2.57
1736	2184	3.063861	TCTTCATCAACGATTCAATGGCG	59.936	43.478	0.00	0.00	0.00	5.69
1737	2185	1.063912	TCATCAACGATTCAATGGCGC	59.936	47.619	0.00	0.00	0.00	6.53
1759	2207	2.288458	GCTGCATCTGAGAGCTGATTTC	59.712	50.000	13.34	0.00	31.23	2.17
1770	2218	0.610232	GCTGATTTCAGGGTGGTGCT	60.610	55.000	9.49	0.00	43.94	4.40
1794	2242	3.319689	GGGCAGCCAAAACTACAAACTTA	59.680	43.478	15.19	0.00	0.00	2.24
1800	2248	7.384932	GCAGCCAAAACTACAAACTTAATGATT	59.615	33.333	0.00	0.00	0.00	2.57
1801	2249	8.702438	CAGCCAAAACTACAAACTTAATGATTG	58.298	33.333	0.00	0.00	35.02	2.67
1802	2250	8.421002	AGCCAAAACTACAAACTTAATGATTGT	58.579	29.630	6.10	6.10	42.85	2.71
1813	2261	9.236691	CAAACTTAATGATTGTTTGGATATCGG	57.763	33.333	11.25	0.00	43.70	4.18
1826	2289	5.060427	TGGATATCGGTTCAATGGGATTT	57.940	39.130	0.00	0.00	0.00	2.17
1847	2310	1.181098	AGTTGTTGGCTGGGCATGTC	61.181	55.000	0.00	0.00	0.00	3.06
1862	2325	0.745845	ATGTCGGCAGCATGGAGTTC	60.746	55.000	0.00	0.00	35.86	3.01
1880	2343	6.535150	TGGAGTTCTTTTTAGTCGCTCATATG	59.465	38.462	0.00	0.00	0.00	1.78
1881	2344	6.351327	AGTTCTTTTTAGTCGCTCATATGC	57.649	37.500	0.00	0.00	0.00	3.14
1882	2345	6.109359	AGTTCTTTTTAGTCGCTCATATGCT	58.891	36.000	0.00	0.00	0.00	3.79
1883	2346	6.595716	AGTTCTTTTTAGTCGCTCATATGCTT	59.404	34.615	0.00	0.00	0.00	3.91
1884	2347	6.349973	TCTTTTTAGTCGCTCATATGCTTG	57.650	37.500	0.00	0.00	0.00	4.01
1885	2348	5.874810	TCTTTTTAGTCGCTCATATGCTTGT	59.125	36.000	0.00	0.00	0.00	3.16
1886	2349	5.469373	TTTTAGTCGCTCATATGCTTGTG	57.531	39.130	0.00	0.00	0.00	3.33
1887	2350	1.293924	AGTCGCTCATATGCTTGTGC	58.706	50.000	0.00	0.00	40.20	4.57
1890	2353	2.397751	GCTCATATGCTTGTGCGGT	58.602	52.632	0.00	0.00	43.34	5.68
1891	2354	0.305922	GCTCATATGCTTGTGCGGTC	59.694	55.000	0.00	0.00	43.34	4.79
1892	2355	1.945387	CTCATATGCTTGTGCGGTCT	58.055	50.000	0.00	0.00	43.34	3.85
1893	2356	1.863454	CTCATATGCTTGTGCGGTCTC	59.137	52.381	0.00	0.00	43.34	3.36
1894	2357	1.206849	TCATATGCTTGTGCGGTCTCA	59.793	47.619	0.00	0.00	43.34	3.27
1895	2358	2.158914	TCATATGCTTGTGCGGTCTCAT	60.159	45.455	0.00	0.00	43.34	2.90
1896	2359	2.401583	TATGCTTGTGCGGTCTCATT	57.598	45.000	0.00	0.00	43.34	2.57
1897	2360	1.538047	ATGCTTGTGCGGTCTCATTT	58.462	45.000	0.00	0.00	43.34	2.32
1898	2361	1.317613	TGCTTGTGCGGTCTCATTTT	58.682	45.000	0.00	0.00	43.34	1.82
1899	2362	2.499197	TGCTTGTGCGGTCTCATTTTA	58.501	42.857	0.00	0.00	43.34	1.52
1900	2363	2.483877	TGCTTGTGCGGTCTCATTTTAG	59.516	45.455	0.00	0.00	43.34	1.85
1901	2364	2.484264	GCTTGTGCGGTCTCATTTTAGT	59.516	45.455	0.00	0.00	0.00	2.24
1902	2365	3.058224	GCTTGTGCGGTCTCATTTTAGTT	60.058	43.478	0.00	0.00	0.00	2.24
1903	2366	4.153475	GCTTGTGCGGTCTCATTTTAGTTA	59.847	41.667	0.00	0.00	0.00	2.24
1904	2367	5.163754	GCTTGTGCGGTCTCATTTTAGTTAT	60.164	40.000	0.00	0.00	0.00	1.89
1905	2368	6.622896	GCTTGTGCGGTCTCATTTTAGTTATT	60.623	38.462	0.00	0.00	0.00	1.40
1906	2369	6.811253	TGTGCGGTCTCATTTTAGTTATTT	57.189	33.333	0.00	0.00	0.00	1.40
1907	2370	7.209471	TGTGCGGTCTCATTTTAGTTATTTT	57.791	32.000	0.00	0.00	0.00	1.82
1908	2371	7.081349	TGTGCGGTCTCATTTTAGTTATTTTG	58.919	34.615	0.00	0.00	0.00	2.44
1909	2372	6.526674	GTGCGGTCTCATTTTAGTTATTTTGG	59.473	38.462	0.00	0.00	0.00	3.28
1910	2373	6.207810	TGCGGTCTCATTTTAGTTATTTTGGT	59.792	34.615	0.00	0.00	0.00	3.67
1911	2374	6.526674	GCGGTCTCATTTTAGTTATTTTGGTG	59.473	38.462	0.00	0.00	0.00	4.17
2476	2941	1.202855	ACTGCACAAAGGAGCTGTCAT	60.203	47.619	0.00	0.00	38.08	3.06

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
109	111	7.255139	GGACATATTCAAGTATTACCAAGGTGC	60.255	40.741	1.07	0.00	0.00	5.01
130	132	6.182627	TGATTTACTGAAGATGCAAGGACAT	58.817	36.000	0.00	0.00	0.00	3.06
147	149	5.886960	AGTGAATCCAGTGCTTGATTTAC	57.113	39.130	10.75	10.75	37.60	2.01
313	318	1.227556	GTACATACGCAGGGGCAGG	60.228	63.158	0.00	0.00	41.24	4.85
912	923	3.056536	TGAGACAGCCATGACTTGAGTAC	60.057	47.826	0.00	0.00	31.34	2.73
913	924	3.165071	TGAGACAGCCATGACTTGAGTA	58.835	45.455	0.00	0.00	31.34	2.59
914	925	1.973515	TGAGACAGCCATGACTTGAGT	59.026	47.619	0.00	0.00	31.34	3.41
921	935	2.306805	ACCTGAAATGAGACAGCCATGA	59.693	45.455	0.00	0.00	33.40	3.07
958	972	2.332063	ACCAGCAATAGGGATGTTCG	57.668	50.000	0.00	0.00	0.00	3.95
972	986	2.139118	GAAGATGGCTTCGATACCAGC	58.861	52.381	13.08	13.08	42.74	4.85
993	1011	4.513442	TCCACATGTAGGTCATTACTTGC	58.487	43.478	0.00	0.00	34.04	4.01
994	1012	5.586243	CCTTCCACATGTAGGTCATTACTTG	59.414	44.000	0.00	0.00	35.78	3.16
1102	1182	6.486320	TGGTTTATGTCATTATCGATGCATGT	59.514	34.615	2.46	0.00	35.53	3.21
1143	1223	1.199558	AGAAGTACCTCGAAGACACGC	59.800	52.381	0.00	0.00	0.00	5.34
1144	1224	4.879104	ATAGAAGTACCTCGAAGACACG	57.121	45.455	0.00	0.00	0.00	4.49
1145	1225	6.674694	TGTATAGAAGTACCTCGAAGACAC	57.325	41.667	0.00	0.00	0.00	3.67
1146	1226	7.627939	GCTTTGTATAGAAGTACCTCGAAGACA	60.628	40.741	0.00	0.00	0.00	3.41
1147	1227	6.692249	GCTTTGTATAGAAGTACCTCGAAGAC	59.308	42.308	0.00	0.00	0.00	3.01
1148	1228	6.602406	AGCTTTGTATAGAAGTACCTCGAAGA	59.398	38.462	0.00	0.00	0.00	2.87
1149	1229	6.797454	AGCTTTGTATAGAAGTACCTCGAAG	58.203	40.000	0.00	0.00	0.00	3.79
1150	1230	6.770746	AGCTTTGTATAGAAGTACCTCGAA	57.229	37.500	0.00	0.00	0.00	3.71
1151	1231	6.770746	AAGCTTTGTATAGAAGTACCTCGA	57.229	37.500	0.00	0.00	0.00	4.04
1152	1232	6.916932	GGTAAGCTTTGTATAGAAGTACCTCG	59.083	42.308	3.20	0.00	29.65	4.63
1153	1233	7.147776	TGGGTAAGCTTTGTATAGAAGTACCTC	60.148	40.741	3.20	0.00	31.45	3.85
1154	1234	6.670902	TGGGTAAGCTTTGTATAGAAGTACCT	59.329	38.462	3.20	0.00	31.45	3.08
1176	1256	1.304713	ACTTTGCTGGCATCCTGGG	60.305	57.895	0.00	0.00	0.00	4.45
1288	1368	7.565680	AGATCCAAGTAAACTATAACCTGTGG	58.434	38.462	0.00	0.00	0.00	4.17
1299	1379	5.790593	TCACGCTTTAGATCCAAGTAAACT	58.209	37.500	4.58	0.00	0.00	2.66
1370	1450	0.185901	TTCCTGCCCTGCAAGAAAGT	59.814	50.000	0.00	0.00	36.27	2.66
1392	1472	2.279851	CGACCTGCCACAACACGA	60.280	61.111	0.00	0.00	0.00	4.35
1453	1533	1.028868	GGCATCCAGTGGAGCTCAAC	61.029	60.000	23.98	13.83	34.05	3.18
1474	1554	1.891919	TGACGCACTTTGAGCACCC	60.892	57.895	0.00	0.00	0.00	4.61
1475	1555	1.279840	GTGACGCACTTTGAGCACC	59.720	57.895	3.20	0.00	0.00	5.01
1481	1561	1.603802	AGTCCAATGTGACGCACTTTG	59.396	47.619	20.99	20.99	44.02	2.77
1484	1564	0.106708	ACAGTCCAATGTGACGCACT	59.893	50.000	10.54	0.00	40.26	4.40
1502	1582	0.250467	TCTCCTTGCAGCCAACTCAC	60.250	55.000	0.00	0.00	0.00	3.51
1528	1608	3.181423	ACCTGGCTAACAAATTTCCCTGA	60.181	43.478	0.00	0.00	0.00	3.86
1548	1628	6.490566	TGAAAGGCGAGTTTCTTATTAACC	57.509	37.500	10.25	0.00	37.34	2.85
1560	1640	1.742761	CATCACCATGAAAGGCGAGT	58.257	50.000	0.00	0.00	30.57	4.18
1650	1730	0.325602	TCAGATGCAGCACACCATCA	59.674	50.000	4.07	0.00	40.15	3.07
1724	2172	2.351548	CAGCGCGCCATTGAATCG	60.352	61.111	30.33	0.84	0.00	3.34
1736	2184	2.202905	AGCTCTCAGATGCAGCGC	60.203	61.111	0.00	0.00	38.26	5.92
1737	2185	0.249531	ATCAGCTCTCAGATGCAGCG	60.250	55.000	0.00	0.00	38.26	5.18
1770	2218	0.105964	TTGTAGTTTTGGCTGCCCCA	60.106	50.000	17.53	0.00	43.51	4.96
1794	2242	7.403312	TTGAACCGATATCCAAACAATCATT	57.597	32.000	0.00	0.00	0.00	2.57
1800	2248	3.951037	CCCATTGAACCGATATCCAAACA	59.049	43.478	0.00	0.00	0.00	2.83
1801	2249	4.204012	TCCCATTGAACCGATATCCAAAC	58.796	43.478	0.00	0.00	0.00	2.93
1802	2250	4.511786	TCCCATTGAACCGATATCCAAA	57.488	40.909	0.00	0.00	0.00	3.28
1804	2252	4.722526	AATCCCATTGAACCGATATCCA	57.277	40.909	0.00	0.00	0.00	3.41
1805	2253	5.070001	TGAAATCCCATTGAACCGATATCC	58.930	41.667	0.00	0.00	0.00	2.59
1806	2254	5.765182	ACTGAAATCCCATTGAACCGATATC	59.235	40.000	0.00	0.00	0.00	1.63
1807	2255	5.694995	ACTGAAATCCCATTGAACCGATAT	58.305	37.500	0.00	0.00	0.00	1.63
1808	2256	5.110814	ACTGAAATCCCATTGAACCGATA	57.889	39.130	0.00	0.00	0.00	2.92
1810	2258	3.433306	ACTGAAATCCCATTGAACCGA	57.567	42.857	0.00	0.00	0.00	4.69
1812	2260	4.871933	ACAACTGAAATCCCATTGAACC	57.128	40.909	0.00	0.00	0.00	3.62
1813	2261	4.990426	CCAACAACTGAAATCCCATTGAAC	59.010	41.667	0.00	0.00	0.00	3.18
1826	2289	1.153524	ATGCCCAGCCAACAACTGA	59.846	52.632	0.00	0.00	37.32	3.41
1847	2310	0.883833	AAAAGAACTCCATGCTGCCG	59.116	50.000	0.00	0.00	0.00	5.69
1862	2325	5.961843	CACAAGCATATGAGCGACTAAAAAG	59.038	40.000	6.97	0.00	40.15	2.27
1880	2343	2.484264	ACTAAAATGAGACCGCACAAGC	59.516	45.455	0.00	0.00	37.42	4.01
1881	2344	4.749245	AACTAAAATGAGACCGCACAAG	57.251	40.909	0.00	0.00	0.00	3.16
1882	2345	6.811253	AATAACTAAAATGAGACCGCACAA	57.189	33.333	0.00	0.00	0.00	3.33
1883	2346	6.811253	AAATAACTAAAATGAGACCGCACA	57.189	33.333	0.00	0.00	0.00	4.57
1884	2347	6.526674	CCAAAATAACTAAAATGAGACCGCAC	59.473	38.462	0.00	0.00	0.00	5.34
1885	2348	6.207810	ACCAAAATAACTAAAATGAGACCGCA	59.792	34.615	0.00	0.00	0.00	5.69
1886	2349	6.526674	CACCAAAATAACTAAAATGAGACCGC	59.473	38.462	0.00	0.00	0.00	5.68
1887	2350	7.590279	ACACCAAAATAACTAAAATGAGACCG	58.410	34.615	0.00	0.00	0.00	4.79
1888	2351	8.793592	AGACACCAAAATAACTAAAATGAGACC	58.206	33.333	0.00	0.00	0.00	3.85
2476	2941	6.918569	TCTCTTTTCGTTGTTTGTTTGTTCAA	59.081	30.769	0.00	0.00	0.00	2.69
2615	3080	4.069869	GCTTCTGCTTGTCTGGCA	57.930	55.556	0.00	0.00	38.10	4.92

Based at the University of Bristol with support from BBSRC.

AutoCloner maintained by Alex Coulton.