AutoCloner

Multiple sequence alignment - TraesCS5D01G314700

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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	TraesCS5D01G314700	chr5D	100.000	2468	0	0	1	2468	409293146	409290679	0.000000e+00	4558
1	TraesCS5D01G314700	chr5D	96.214	898	30	3	1	896	72490158	72489263	0.000000e+00	1467
2	TraesCS5D01G314700	chr5D	84.965	858	92	15	1609	2431	3768937	3768082	0.000000e+00	835
3	TraesCS5D01G314700	chr7B	94.649	897	46	2	1	896	153597361	153596466	0.000000e+00	1389
4	TraesCS5D01G314700	chr7B	83.669	894	111	12	1609	2468	203288371	203287479	0.000000e+00	809
5	TraesCS5D01G314700	chr7B	80.294	817	140	12	1645	2452	436790798	436791602	4.540000e-167	597
6	TraesCS5D01G314700	chr4B	94.426	897	49	1	1	896	34049917	34050813	0.000000e+00	1378
7	TraesCS5D01G314700	chrUn	94.085	896	51	2	1	895	112621348	112622242	0.000000e+00	1360
8	TraesCS5D01G314700	chr7A	91.622	740	58	4	1	739	118316389	118315653	0.000000e+00	1020
9	TraesCS5D01G314700	chr7A	91.509	742	59	2	1	739	118313110	118312370	0.000000e+00	1018
10	TraesCS5D01G314700	chr7A	78.606	832	153	14	1630	2452	693990344	693991159	6.050000e-146	527
11	TraesCS5D01G314700	chr7A	83.969	262	38	2	78	335	118312936	118312675	5.270000e-62	248
12	TraesCS5D01G314700	chr5B	92.751	676	39	3	937	1604	491077111	491076438	0.000000e+00	968
13	TraesCS5D01G314700	chr7D	85.123	894	95	19	1609	2468	532024458	532023569	0.000000e+00	880
14	TraesCS5D01G314700	chr7D	82.661	669	87	12	1828	2468	628817485	628816818	1.280000e-157	566
15	TraesCS5D01G314700	chr1D	85.325	845	98	13	1641	2462	78068207	78069048	0.000000e+00	850
16	TraesCS5D01G314700	chr5A	93.405	561	28	2	937	1491	520445459	520444902	0.000000e+00	822
17	TraesCS5D01G314700	chr1A	83.953	860	103	15	1644	2468	504426939	504426080	0.000000e+00	791
18	TraesCS5D01G314700	chr1A	85.561	561	75	2	1914	2468	504520790	504520230	1.270000e-162	582
19	TraesCS5D01G314700	chr2A	82.346	793	119	9	1621	2393	769962490	769963281	0.000000e+00	669
20	TraesCS5D01G314700	chr2A	82.648	559	73	8	1914	2466	745260654	745260114	7.990000e-130	473
21	TraesCS5D01G314700	chr2A	78.107	708	142	8	1752	2451	746680983	746681685	1.050000e-118	436
22	TraesCS5D01G314700	chr3D	86.606	545	63	4	1914	2451	446195828	446196369	5.880000e-166	593
23	TraesCS5D01G314700	chr3D	79.828	813	137	16	1650	2452	98542354	98543149	3.560000e-158	568
24	TraesCS5D01G314700	chr3D	84.397	423	43	6	429	848	327459233	327459635	6.400000e-106	394
25	TraesCS5D01G314700	chr2B	77.900	819	158	16	1649	2451	751289383	751290194	2.850000e-134	488
26	TraesCS5D01G314700	chr2B	77.694	798	158	12	1649	2431	751312027	751312819	1.030000e-128	470
27	TraesCS5D01G314700	chr3B	84.871	271	40	1	50	319	828912692	828912962	3.130000e-69	272
28	TraesCS5D01G314700	chr3B	84.586	266	29	10	172	432	828912622	828912880	1.130000e-63	254
29	TraesCS5D01G314700	chr3A	90.541	148	14	0	579	726	441138375	441138522	1.940000e-46	196
30	TraesCS5D01G314700	chr3A	91.566	83	5	1	431	513	441094965	441095045	2.010000e-21	113

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	TraesCS5D01G314700	chr5D	409290679	409293146	2467	True	4558	4558	100.000000	1	2468	1	chr5D.!!$R3	2467
1	TraesCS5D01G314700	chr5D	72489263	72490158	895	True	1467	1467	96.214000	1	896	1	chr5D.!!$R2	895
2	TraesCS5D01G314700	chr5D	3768082	3768937	855	True	835	835	84.965000	1609	2431	1	chr5D.!!$R1	822
3	TraesCS5D01G314700	chr7B	153596466	153597361	895	True	1389	1389	94.649000	1	896	1	chr7B.!!$R1	895
4	TraesCS5D01G314700	chr7B	203287479	203288371	892	True	809	809	83.669000	1609	2468	1	chr7B.!!$R2	859
5	TraesCS5D01G314700	chr7B	436790798	436791602	804	False	597	597	80.294000	1645	2452	1	chr7B.!!$F1	807
6	TraesCS5D01G314700	chr4B	34049917	34050813	896	False	1378	1378	94.426000	1	896	1	chr4B.!!$F1	895
7	TraesCS5D01G314700	chrUn	112621348	112622242	894	False	1360	1360	94.085000	1	895	1	chrUn.!!$F1	894
8	TraesCS5D01G314700	chr7A	118312370	118316389	4019	True	762	1020	89.033333	1	739	3	chr7A.!!$R1	738
9	TraesCS5D01G314700	chr7A	693990344	693991159	815	False	527	527	78.606000	1630	2452	1	chr7A.!!$F1	822
10	TraesCS5D01G314700	chr5B	491076438	491077111	673	True	968	968	92.751000	937	1604	1	chr5B.!!$R1	667
11	TraesCS5D01G314700	chr7D	532023569	532024458	889	True	880	880	85.123000	1609	2468	1	chr7D.!!$R1	859
12	TraesCS5D01G314700	chr7D	628816818	628817485	667	True	566	566	82.661000	1828	2468	1	chr7D.!!$R2	640
13	TraesCS5D01G314700	chr1D	78068207	78069048	841	False	850	850	85.325000	1641	2462	1	chr1D.!!$F1	821
14	TraesCS5D01G314700	chr5A	520444902	520445459	557	True	822	822	93.405000	937	1491	1	chr5A.!!$R1	554
15	TraesCS5D01G314700	chr1A	504426080	504426939	859	True	791	791	83.953000	1644	2468	1	chr1A.!!$R1	824
16	TraesCS5D01G314700	chr1A	504520230	504520790	560	True	582	582	85.561000	1914	2468	1	chr1A.!!$R2	554
17	TraesCS5D01G314700	chr2A	769962490	769963281	791	False	669	669	82.346000	1621	2393	1	chr2A.!!$F2	772
18	TraesCS5D01G314700	chr2A	745260114	745260654	540	True	473	473	82.648000	1914	2466	1	chr2A.!!$R1	552
19	TraesCS5D01G314700	chr2A	746680983	746681685	702	False	436	436	78.107000	1752	2451	1	chr2A.!!$F1	699
20	TraesCS5D01G314700	chr3D	446195828	446196369	541	False	593	593	86.606000	1914	2451	1	chr3D.!!$F3	537
21	TraesCS5D01G314700	chr3D	98542354	98543149	795	False	568	568	79.828000	1650	2452	1	chr3D.!!$F1	802
22	TraesCS5D01G314700	chr2B	751289383	751290194	811	False	488	488	77.900000	1649	2451	1	chr2B.!!$F1	802
23	TraesCS5D01G314700	chr2B	751312027	751312819	792	False	470	470	77.694000	1649	2431	1	chr2B.!!$F2	782

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
498	3785	0.249114	GGTAGGCTCTTAGCACGCTC	60.249	60.0	0.0	0.0	44.75	5.03	F

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability	Orientation
2139	5493	0.531532	CATGCCGAGACATCCCAGAC	60.532	60.0	0.0	0.0	0.0	3.51	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
133	135	2.545106	CAGCAAACCAAAACTCCATTGC	59.455	45.455	0.00	0.00	42.48	3.56
199	201	5.715434	ACGGTGGTTGTAGCAAAAATTAT	57.285	34.783	0.00	0.00	0.00	1.28
224	226	1.470805	GCTTCCAGCAAACCAAAACGT	60.471	47.619	0.00	0.00	41.89	3.99
266	270	1.398692	TTGGGTGTTCTTCCAGCAAC	58.601	50.000	0.00	0.00	34.56	4.17
267	271	0.550914	TGGGTGTTCTTCCAGCAACT	59.449	50.000	0.00	0.00	34.56	3.16
338	343	6.128063	GCAAAATGCCATTGGTAGCAAAAATA	60.128	34.615	12.00	0.00	43.36	1.40
348	353	8.997323	CATTGGTAGCAAAAATACAAAATTGGA	58.003	29.630	12.00	0.00	0.00	3.53
498	3785	0.249114	GGTAGGCTCTTAGCACGCTC	60.249	60.000	0.00	0.00	44.75	5.03
906	4193	5.608676	GAAAGGTTTCCCGACTCTAAAAG	57.391	43.478	0.00	0.00	35.12	2.27
907	4194	3.055209	AGGTTTCCCGACTCTAAAAGC	57.945	47.619	0.00	0.00	35.12	3.51
908	4195	2.370849	AGGTTTCCCGACTCTAAAAGCA	59.629	45.455	0.00	0.00	32.91	3.91
909	4196	3.143728	GGTTTCCCGACTCTAAAAGCAA	58.856	45.455	0.00	0.00	0.00	3.91
910	4197	3.058432	GGTTTCCCGACTCTAAAAGCAAC	60.058	47.826	0.00	0.00	0.00	4.17
911	4198	2.467566	TCCCGACTCTAAAAGCAACC	57.532	50.000	0.00	0.00	0.00	3.77
912	4199	1.695242	TCCCGACTCTAAAAGCAACCA	59.305	47.619	0.00	0.00	0.00	3.67
913	4200	2.105134	TCCCGACTCTAAAAGCAACCAA	59.895	45.455	0.00	0.00	0.00	3.67
914	4201	2.225727	CCCGACTCTAAAAGCAACCAAC	59.774	50.000	0.00	0.00	0.00	3.77
915	4202	2.875933	CCGACTCTAAAAGCAACCAACA	59.124	45.455	0.00	0.00	0.00	3.33
916	4203	3.303791	CCGACTCTAAAAGCAACCAACAC	60.304	47.826	0.00	0.00	0.00	3.32
917	4204	3.303791	CGACTCTAAAAGCAACCAACACC	60.304	47.826	0.00	0.00	0.00	4.16
918	4205	3.626930	ACTCTAAAAGCAACCAACACCA	58.373	40.909	0.00	0.00	0.00	4.17
919	4206	3.380320	ACTCTAAAAGCAACCAACACCAC	59.620	43.478	0.00	0.00	0.00	4.16
920	4207	2.356382	TCTAAAAGCAACCAACACCACG	59.644	45.455	0.00	0.00	0.00	4.94
921	4208	0.892063	AAAAGCAACCAACACCACGT	59.108	45.000	0.00	0.00	0.00	4.49
922	4209	1.752683	AAAGCAACCAACACCACGTA	58.247	45.000	0.00	0.00	0.00	3.57
923	4210	1.018910	AAGCAACCAACACCACGTAC	58.981	50.000	0.00	0.00	0.00	3.67
924	4211	1.155424	AGCAACCAACACCACGTACG	61.155	55.000	15.01	15.01	0.00	3.67
925	4212	1.277440	CAACCAACACCACGTACGC	59.723	57.895	16.72	0.00	0.00	4.42
926	4213	1.153409	AACCAACACCACGTACGCA	60.153	52.632	16.72	0.00	0.00	5.24
927	4214	1.430707	AACCAACACCACGTACGCAC	61.431	55.000	16.72	0.00	0.00	5.34
928	4215	1.593209	CCAACACCACGTACGCACT	60.593	57.895	16.72	0.00	0.00	4.40
929	4216	0.318869	CCAACACCACGTACGCACTA	60.319	55.000	16.72	0.00	0.00	2.74
930	4217	0.780002	CAACACCACGTACGCACTAC	59.220	55.000	16.72	0.00	0.00	2.73
941	4228	3.539107	GCACTACGTACACGCCGC	61.539	66.667	0.85	0.00	44.43	6.53
949	4236	1.587876	GTACACGCCGCATCGATCA	60.588	57.895	0.00	0.00	0.00	2.92
951	4238	2.000215	TACACGCCGCATCGATCACT	62.000	55.000	0.00	0.00	0.00	3.41
955	4242	2.589492	GCCGCATCGATCACTTCCG	61.589	63.158	0.00	0.00	0.00	4.30
956	4243	1.226974	CCGCATCGATCACTTCCGT	60.227	57.895	0.00	0.00	0.00	4.69
960	4247	1.590238	GCATCGATCACTTCCGTCTTG	59.410	52.381	0.00	0.00	0.00	3.02
965	4252	0.603569	ATCACTTCCGTCTTGCTCGT	59.396	50.000	0.00	0.00	0.00	4.18
974	4261	0.250338	GTCTTGCTCGTTCCCCACTT	60.250	55.000	0.00	0.00	0.00	3.16
975	4262	0.472471	TCTTGCTCGTTCCCCACTTT	59.528	50.000	0.00	0.00	0.00	2.66
1083	4376	2.049627	GCATCTGCGGGGAAGAGGAT	62.050	60.000	0.00	0.00	0.00	3.24
1095	4388	0.914417	AAGAGGATGCGGGGGAGAAA	60.914	55.000	0.00	0.00	0.00	2.52
1105	4398	2.342648	GGGAGAAACACGGCGAGT	59.657	61.111	16.62	9.75	0.00	4.18
1137	4430	0.611340	ACGACTACCTGGTGTCCTCC	60.611	60.000	10.23	0.00	0.00	4.30
1139	4432	0.611340	GACTACCTGGTGTCCTCCGT	60.611	60.000	10.23	0.00	0.00	4.69
1157	4450	4.690719	CGGGTACGTGCCCTGCAA	62.691	66.667	34.76	0.00	46.47	4.08
1193	4486	2.675772	GAGGGACGACAGGGACGT	60.676	66.667	0.00	0.00	46.58	4.34
1440	4733	3.272334	GACGGCCATAGCTTGCGG	61.272	66.667	2.24	0.00	39.73	5.69
1473	4766	0.464554	ATCCCAGCGCCTAAAGCTTC	60.465	55.000	2.29	0.00	44.06	3.86
1502	4797	8.380644	ACTCGTTTTATGAAATCAGTGATTACG	58.619	33.333	18.56	20.02	31.46	3.18
1504	4799	8.377681	TCGTTTTATGAAATCAGTGATTACGAC	58.622	33.333	23.73	14.91	32.22	4.34
1515	4810	6.884832	TCAGTGATTACGACCCTATTTTGAT	58.115	36.000	0.00	0.00	0.00	2.57
1520	4815	8.283291	GTGATTACGACCCTATTTTGATCAATC	58.717	37.037	9.40	0.89	0.00	2.67
1560	4855	7.087409	TGTCTACATCTTGTTATGCAAATGG	57.913	36.000	0.00	0.00	36.53	3.16
1577	4872	0.850100	TGGTGGGTGTGAACTCCATT	59.150	50.000	4.11	0.00	32.71	3.16
1578	4873	2.058705	TGGTGGGTGTGAACTCCATTA	58.941	47.619	4.11	0.00	32.71	1.90
1613	4908	4.451900	AGGCCAACTCTAATTAACCGATG	58.548	43.478	5.01	0.00	0.00	3.84
1618	4913	4.073293	ACTCTAATTAACCGATGCCCTG	57.927	45.455	0.00	0.00	0.00	4.45
1619	4914	3.181454	ACTCTAATTAACCGATGCCCTGG	60.181	47.826	0.00	0.00	0.00	4.45
1633	4928	1.705873	CCCTGGACTTAGCGGAGTAT	58.294	55.000	0.00	0.00	0.00	2.12
1677	4973	2.641197	GGCCACCGAAACACATCTT	58.359	52.632	0.00	0.00	0.00	2.40
1748	5059	9.162764	TCACCAATTATTTACTAGAAGAGCAAC	57.837	33.333	0.00	0.00	0.00	4.17
1749	5060	8.398665	CACCAATTATTTACTAGAAGAGCAACC	58.601	37.037	0.00	0.00	0.00	3.77
1755	5066	3.141767	ACTAGAAGAGCAACCCCAAAC	57.858	47.619	0.00	0.00	0.00	2.93
2015	5359	7.568199	ACCGATGTATTCTTTTTCCCAATAG	57.432	36.000	0.00	0.00	0.00	1.73
2044	5388	2.138320	GCATCCATCATCCTACACACG	58.862	52.381	0.00	0.00	0.00	4.49
2069	5414	1.221414	GAGTATCAATGAGCCACCGC	58.779	55.000	0.00	0.00	33.17	5.68
2110	5463	5.705902	ACCGAATTAAAACAAGCACATACC	58.294	37.500	0.00	0.00	0.00	2.73
2139	5493	3.634568	TGTGCATTTTAAGAACACCCG	57.365	42.857	0.00	0.00	0.00	5.28
2285	5642	2.864343	GCTGTGTATTTATCGGCGAACT	59.136	45.455	15.93	0.00	0.00	3.01
2290	5647	3.861113	TGTATTTATCGGCGAACTGACAC	59.139	43.478	15.93	8.73	32.77	3.67
2295	5652	4.309950	GGCGAACTGACACCGGGT	62.310	66.667	6.32	0.00	0.00	5.28
2387	5747	0.743097	GCTTCCTGACCAATCCATGC	59.257	55.000	0.00	0.00	0.00	4.06
2401	5761	2.116772	ATGCCAAGGTGCAGCTGT	59.883	55.556	20.97	6.98	45.93	4.40
2406	5766	1.394266	CCAAGGTGCAGCTGTTGGTT	61.394	55.000	22.97	4.26	35.65	3.67

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
15	16	0.326927	TTGCTACAACTAGCCACCCC	59.673	55.000	0.00	0.00	44.45	4.95
44	46	5.904362	AGAACATCACCCTATTTTTGCTC	57.096	39.130	0.00	0.00	0.00	4.26
133	135	5.702209	ACTCCCAATTTTGCATTTTTGCTAG	59.298	36.000	0.00	0.00	35.49	3.42
224	226	7.361127	CAATTTTGCATTTTTGCTACCAATGA	58.639	30.769	0.00	0.00	35.49	2.57
405	410	0.598942	AACCGGCGTTTTGATTTGCC	60.599	50.000	6.01	0.00	44.09	4.52
476	481	1.327690	CGTGCTAAGAGCCTACCCCA	61.328	60.000	0.00	0.00	41.51	4.96
498	3785	1.040646	TGCTTAGCTCCCCTACATCG	58.959	55.000	5.60	0.00	0.00	3.84
552	3839	4.697756	AGCTGCGGCGGTGCTTAA	62.698	61.111	12.87	0.00	44.37	1.85
805	4092	1.066303	GATCGAACTGACCAGAGCGAT	59.934	52.381	21.42	21.42	44.13	4.58
896	4183	3.630312	TGGTGTTGGTTGCTTTTAGAGTC	59.370	43.478	0.00	0.00	0.00	3.36
897	4184	3.380320	GTGGTGTTGGTTGCTTTTAGAGT	59.620	43.478	0.00	0.00	0.00	3.24
898	4185	3.548014	CGTGGTGTTGGTTGCTTTTAGAG	60.548	47.826	0.00	0.00	0.00	2.43
899	4186	2.356382	CGTGGTGTTGGTTGCTTTTAGA	59.644	45.455	0.00	0.00	0.00	2.10
900	4187	2.098443	ACGTGGTGTTGGTTGCTTTTAG	59.902	45.455	0.00	0.00	0.00	1.85
901	4188	2.093106	ACGTGGTGTTGGTTGCTTTTA	58.907	42.857	0.00	0.00	0.00	1.52
902	4189	0.892063	ACGTGGTGTTGGTTGCTTTT	59.108	45.000	0.00	0.00	0.00	2.27
903	4190	1.402613	GTACGTGGTGTTGGTTGCTTT	59.597	47.619	0.00	0.00	0.00	3.51
904	4191	1.018910	GTACGTGGTGTTGGTTGCTT	58.981	50.000	0.00	0.00	0.00	3.91
905	4192	1.155424	CGTACGTGGTGTTGGTTGCT	61.155	55.000	7.22	0.00	0.00	3.91
906	4193	1.277440	CGTACGTGGTGTTGGTTGC	59.723	57.895	7.22	0.00	0.00	4.17
907	4194	1.277440	GCGTACGTGGTGTTGGTTG	59.723	57.895	17.90	0.00	0.00	3.77
908	4195	1.153409	TGCGTACGTGGTGTTGGTT	60.153	52.632	17.90	0.00	0.00	3.67
909	4196	1.884004	GTGCGTACGTGGTGTTGGT	60.884	57.895	17.90	0.00	0.00	3.67
910	4197	0.318869	TAGTGCGTACGTGGTGTTGG	60.319	55.000	17.90	0.00	0.00	3.77
911	4198	0.780002	GTAGTGCGTACGTGGTGTTG	59.220	55.000	17.90	0.00	0.00	3.33
912	4199	3.184094	GTAGTGCGTACGTGGTGTT	57.816	52.632	17.90	0.00	0.00	3.32
913	4200	4.950744	GTAGTGCGTACGTGGTGT	57.049	55.556	17.90	0.22	0.00	4.16
924	4211	3.539107	GCGGCGTGTACGTAGTGC	61.539	66.667	9.37	0.00	45.73	4.40
925	4212	1.469126	GATGCGGCGTGTACGTAGTG	61.469	60.000	9.37	0.00	45.73	2.74
927	4214	2.283757	CGATGCGGCGTGTACGTAG	61.284	63.158	9.37	2.09	42.22	3.51
928	4215	2.050639	ATCGATGCGGCGTGTACGTA	62.051	55.000	9.37	0.00	42.22	3.57
929	4216	3.405592	ATCGATGCGGCGTGTACGT	62.406	57.895	9.37	0.00	42.22	3.57
930	4217	2.636227	GATCGATGCGGCGTGTACG	61.636	63.158	9.37	9.96	43.27	3.67
931	4218	1.587876	TGATCGATGCGGCGTGTAC	60.588	57.895	9.37	0.00	0.00	2.90
932	4219	1.587876	GTGATCGATGCGGCGTGTA	60.588	57.895	9.37	0.00	0.00	2.90
933	4220	2.835701	AAGTGATCGATGCGGCGTGT	62.836	55.000	9.37	0.00	0.00	4.49
934	4221	2.082437	GAAGTGATCGATGCGGCGTG	62.082	60.000	9.37	0.00	0.00	5.34
935	4222	1.878522	GAAGTGATCGATGCGGCGT	60.879	57.895	9.37	0.00	0.00	5.68
951	4238	1.005394	GGGAACGAGCAAGACGGAA	60.005	57.895	0.00	0.00	34.93	4.30
955	4242	0.250338	AAGTGGGGAACGAGCAAGAC	60.250	55.000	0.00	0.00	0.00	3.01
956	4243	0.472471	AAAGTGGGGAACGAGCAAGA	59.528	50.000	0.00	0.00	0.00	3.02
960	4247	2.954611	GCAAAGTGGGGAACGAGC	59.045	61.111	0.00	0.00	0.00	5.03
1020	4313	2.697425	CAGAAGTTGATCGCCGCG	59.303	61.111	6.39	6.39	0.00	6.46
1083	4376	4.323477	CCGTGTTTCTCCCCCGCA	62.323	66.667	0.00	0.00	0.00	5.69
1095	4388	2.651361	CAGGAGAACTCGCCGTGT	59.349	61.111	0.00	0.00	40.98	4.49
1105	4398	0.627451	TAGTCGTAGGGGCAGGAGAA	59.373	55.000	0.00	0.00	0.00	2.87
1473	4766	7.273188	TCACTGATTTCATAAAACGAGTACG	57.727	36.000	0.00	0.00	45.75	3.67
1515	4810	8.463930	AGACAAACATCTAAACCTTTGATTGA	57.536	30.769	0.00	0.00	0.00	2.57
1560	4855	6.827727	AGTATATAATGGAGTTCACACCCAC	58.172	40.000	0.00	0.00	32.07	4.61
1598	4893	3.071023	TCCAGGGCATCGGTTAATTAGAG	59.929	47.826	0.00	0.00	0.00	2.43
1604	4899	0.988832	AAGTCCAGGGCATCGGTTAA	59.011	50.000	0.00	0.00	0.00	2.01
1605	4900	1.760613	CTAAGTCCAGGGCATCGGTTA	59.239	52.381	0.00	0.00	0.00	2.85
1606	4901	0.541863	CTAAGTCCAGGGCATCGGTT	59.458	55.000	0.00	0.00	0.00	4.44
1607	4902	1.972660	GCTAAGTCCAGGGCATCGGT	61.973	60.000	0.00	0.00	0.00	4.69
1613	4908	1.041447	TACTCCGCTAAGTCCAGGGC	61.041	60.000	0.00	0.00	0.00	5.19
1642	4938	2.805099	TGGCCGAAATTGAAATGCAAAC	59.195	40.909	0.00	0.00	40.48	2.93
1735	5046	2.441750	TGTTTGGGGTTGCTCTTCTAGT	59.558	45.455	0.00	0.00	0.00	2.57
1748	5059	3.618690	TGGTTCTTGTTTTGTTTGGGG	57.381	42.857	0.00	0.00	0.00	4.96
1749	5060	7.800155	AATTATGGTTCTTGTTTTGTTTGGG	57.200	32.000	0.00	0.00	0.00	4.12
1793	5104	7.124052	ACTAGTGGGAGCAGTTATAGAAGTTA	58.876	38.462	0.00	0.00	0.00	2.24
1836	5151	3.444916	GCAGATCAACAATGAAGGCATG	58.555	45.455	0.00	0.00	39.49	4.06
1925	5268	8.887717	GTTGCTAGAAATGAGTCTAAACATGAT	58.112	33.333	0.00	0.00	29.74	2.45
1990	5334	6.850752	ATTGGGAAAAAGAATACATCGGTT	57.149	33.333	0.00	0.00	0.00	4.44
2015	5359	2.542411	GGATGATGGATGCTCGTTTTGC	60.542	50.000	0.00	0.00	0.00	3.68
2044	5388	5.233988	GGTGGCTCATTGATACTCATCTAC	58.766	45.833	0.00	0.00	31.93	2.59
2094	5445	3.692101	CGATGGGGTATGTGCTTGTTTTA	59.308	43.478	0.00	0.00	0.00	1.52
2110	5463	4.804108	TCTTAAAATGCACAAACGATGGG	58.196	39.130	0.00	0.00	34.65	4.00
2139	5493	0.531532	CATGCCGAGACATCCCAGAC	60.532	60.000	0.00	0.00	0.00	3.51
2150	5507	1.560923	CGAGTTTCTACCATGCCGAG	58.439	55.000	0.00	0.00	0.00	4.63
2285	5642	1.216977	CTAATCGCACCCGGTGTCA	59.783	57.895	18.95	6.25	35.75	3.58
2290	5647	1.227263	CCACTCTAATCGCACCCGG	60.227	63.158	0.00	0.00	34.56	5.73
2295	5652	1.957177	CCTCTAGCCACTCTAATCGCA	59.043	52.381	0.00	0.00	0.00	5.10
2357	5716	1.978617	CAGGAAGCGGCCCACAAAT	60.979	57.895	0.00	0.00	0.00	2.32
2387	5747	1.394266	AACCAACAGCTGCACCTTGG	61.394	55.000	24.81	24.81	39.35	3.61

Based at the University of Bristol with support from BBSRC.

AutoCloner maintained by Alex Coulton.