AutoCloner

Multiple sequence alignment - TraesCS3D01G399400

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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	TraesCS3D01G399400	chr3D	100.000	5713	0	0	1	5713	514277283	514271571	0.000000e+00	10551.0
1	TraesCS3D01G399400	chr3D	90.283	247	22	2	2798	3043	514274243	514273998	7.140000e-84	322.0
2	TraesCS3D01G399400	chr3D	90.283	247	22	2	3041	3286	514274486	514274241	7.140000e-84	322.0
3	TraesCS3D01G399400	chr3D	89.450	218	9	9	50	263	514277171	514276964	4.390000e-66	263.0
4	TraesCS3D01G399400	chr3D	89.450	218	9	9	113	320	514277234	514277021	4.390000e-66	263.0
5	TraesCS3D01G399400	chr3D	84.177	158	7	9	50	203	514277107	514276964	2.780000e-28	137.0
6	TraesCS3D01G399400	chr3D	84.177	158	7	9	177	320	514277234	514277081	2.780000e-28	137.0
7	TraesCS3D01G399400	chr3D	81.481	135	17	8	1809	1939	514275342	514275472	2.820000e-18	104.0
8	TraesCS3D01G399400	chr3A	95.495	3996	121	37	50	4021	649037987	649034027	0.000000e+00	6327.0
9	TraesCS3D01G399400	chr3A	93.147	1678	71	23	4072	5713	649033168	649031499	0.000000e+00	2422.0
10	TraesCS3D01G399400	chr3A	85.000	480	37	17	5267	5713	649030099	649029622	6.750000e-124	455.0
11	TraesCS3D01G399400	chr3A	91.935	248	16	4	3041	3286	649035245	649035000	1.520000e-90	344.0
12	TraesCS3D01G399400	chr3A	85.321	327	30	13	1	322	649038771	649038458	7.140000e-84	322.0
13	TraesCS3D01G399400	chr3A	89.474	247	24	2	2798	3043	649035002	649034757	1.550000e-80	311.0
14	TraesCS3D01G399400	chr3A	84.307	274	21	13	45	311	649038669	649038411	1.230000e-61	248.0
15	TraesCS3D01G399400	chr3A	86.854	213	13	10	50	258	649038606	649038405	2.070000e-54	224.0
16	TraesCS3D01G399400	chr3A	87.958	191	13	7	131	320	649038025	649037844	3.470000e-52	217.0
17	TraesCS3D01G399400	chr3A	81.526	249	22	15	67	310	649038025	649037796	3.520000e-42	183.0
18	TraesCS3D01G399400	chr3A	89.189	148	10	5	177	322	649038721	649038578	4.550000e-41	180.0
19	TraesCS3D01G399400	chr3A	80.000	210	18	16	45	247	649037934	649037742	3.590000e-27	134.0
20	TraesCS3D01G399400	chr3A	84.496	129	8	7	50	174	649037870	649037750	3.620000e-22	117.0
21	TraesCS3D01G399400	chr3A	95.238	63	2	1	258	320	649038022	649037961	1.310000e-16	99.0
22	TraesCS3D01G399400	chr3A	78.788	132	18	7	1809	1939	649036109	649036231	4.750000e-11	80.5
23	TraesCS3D01G399400	chr3A	97.872	47	0	1	1829	1874	649036155	649036201	4.750000e-11	80.5
24	TraesCS3D01G399400	chr3B	92.699	2123	109	17	1900	4021	676629363	676627286	0.000000e+00	3020.0
25	TraesCS3D01G399400	chr3B	96.280	1640	40	12	176	1798	676631017	676629382	0.000000e+00	2671.0
26	TraesCS3D01G399400	chr3B	92.972	1679	72	23	4072	5713	676626736	676625067	0.000000e+00	2405.0
27	TraesCS3D01G399400	chr3B	92.276	246	18	1	3041	3286	676628487	676628243	1.180000e-91	348.0
28	TraesCS3D01G399400	chr3B	88.710	248	25	3	2798	3043	676628245	676627999	3.350000e-77	300.0
29	TraesCS3D01G399400	chr3B	90.722	97	7	2	4157	4252	676626858	676626763	1.670000e-25	128.0
30	TraesCS3D01G399400	chr1A	90.226	133	13	0	3506	3638	457958201	457958069	2.120000e-39	174.0
31	TraesCS3D01G399400	chr1D	86.250	160	21	1	3479	3638	356870014	356869856	7.610000e-39	172.0

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	TraesCS3D01G399400	chr3D	514271571	514277283	5712	True	1713.571429	10551	89.688571	1	5713	7	chr3D.!!$R1	5712
1	TraesCS3D01G399400	chr3A	649029622	649038771	9149	True	827.357143	6327	87.852857	1	5713	14	chr3A.!!$R1	5712
2	TraesCS3D01G399400	chr3B	676625067	676631017	5950	True	1478.666667	3020	92.276500	176	5713	6	chr3B.!!$R1	5537

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	Hairpin	End Stability	Orientation
825	1562	0.745845	CTCCTGGTCCTTGCCAATCG	60.746	60.000	0.00	38.18	3.34	F
2627	3383	4.035558	GGTAATGCAGATTCAAGCAATCGA	59.964	41.667	7.71	45.20	3.59	F
4064	4854	0.249911	GGGCTATCCGCGTTGAATCT	60.250	55.000	4.92	40.44	2.40	F

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Hairpin	End Stability	Orientation
2809	3568	2.161609	GTCAGGTAAAAATGGGACTGCG	59.838	50.000	0.00	0.00	5.18	R
4129	5708	1.403249	CGTCCAAGGGTAACACCGTAG	60.403	57.143	0.00	39.83	3.51	R
5375	6962	0.255318	AAGAGGCAGGCTCTCAATGG	59.745	55.000	25.98	33.92	3.16	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
39	41	4.125097	GCGCGTCAACCGTAACCG	62.125	66.667	8.43	0.00	39.32	4.44
61	63	6.985645	ACCGGGGTATTTGTTTTTAAAAGTTC	59.014	34.615	6.32	0.00	0.00	3.01
64	66	6.345961	GGGGTATTTGTTTTTAAAAGTTCGCG	60.346	38.462	0.00	0.00	0.00	5.87
69	71	4.856664	TGTTTTTAAAAGTTCGCGCCATA	58.143	34.783	0.00	0.00	0.00	2.74
75	77	3.609103	AAAGTTCGCGCCATATTCATC	57.391	42.857	0.00	0.00	0.00	2.92
87	89	5.463392	CGCCATATTCATCTATCCCATAACG	59.537	44.000	0.00	0.00	0.00	3.18
105	107	7.659799	CCCATAACGACTCATGGTATTCATTTA	59.340	37.037	0.00	0.00	40.17	1.40
151	265	5.463392	CGCCATATTCATCTATCCCATAACG	59.537	44.000	0.00	0.00	0.00	3.18
163	277	5.825593	ATCCCATAACGACTCATGGTATT	57.174	39.130	0.00	0.00	40.17	1.89
215	329	5.463392	CGCCATATTCATCTATCCCATAACG	59.537	44.000	0.00	0.00	0.00	3.18
274	771	4.996758	CGCCACATTCATCTATCCATAACA	59.003	41.667	0.00	0.00	0.00	2.41
306	803	8.744568	TGGCATTCCTTATTTTTCAAAAGTTT	57.255	26.923	0.00	0.00	0.00	2.66
323	852	6.407475	AAAGTTTGCGCCATATTCATTTTC	57.593	33.333	4.18	0.00	0.00	2.29
376	1105	7.805163	ACATATCTCATGTACATTTTCCCTCA	58.195	34.615	5.37	0.00	0.00	3.86
506	1239	1.873591	CAACACCGTTGAAGGAGGAAG	59.126	52.381	0.46	0.00	34.73	3.46
518	1251	1.847088	AGGAGGAAGATTTACAGGGGC	59.153	52.381	0.00	0.00	0.00	5.80
825	1562	0.745845	CTCCTGGTCCTTGCCAATCG	60.746	60.000	0.00	0.00	38.18	3.34
1541	2290	9.678941	TGATTGTACTTTCTGTCATATCGTATC	57.321	33.333	0.00	0.00	0.00	2.24
2136	2892	9.787435	AAATATACTTGTAACTTGTCCAGTTCA	57.213	29.630	0.00	0.00	42.62	3.18
2351	3107	7.443272	AGTTGTAAATATAACGATTACTGCCCC	59.557	37.037	0.00	0.00	33.27	5.80
2627	3383	4.035558	GGTAATGCAGATTCAAGCAATCGA	59.964	41.667	7.71	0.00	45.20	3.59
2908	3667	5.221422	TGCAACTAACAAAAGATCCCTTTGG	60.221	40.000	17.63	2.49	41.46	3.28
2943	3702	6.824196	TGTTGTGTTGTAGTTACTTGATCCAA	59.176	34.615	0.00	0.00	0.00	3.53
3145	3904	4.215399	TCCTTGCAACTAACAAAGAATCCG	59.785	41.667	0.00	0.00	0.00	4.18
3189	3948	6.258947	GCCTTGTAGTTACTTGATCCAGATTC	59.741	42.308	0.00	0.00	0.00	2.52
3197	3956	5.003096	ACTTGATCCAGATTCAACCCTTT	57.997	39.130	0.00	0.00	0.00	3.11
3423	4183	4.802563	GTGGACAAGTATCCTAACGTAAGC	59.197	45.833	0.00	0.00	39.67	3.09
3477	4237	5.611796	TTAATGTGCTGTGTCTTGTCATC	57.388	39.130	0.00	0.00	0.00	2.92
3501	4261	8.231692	TCAATGATTTACACTCTTTTGTCCAA	57.768	30.769	0.00	0.00	0.00	3.53
3674	4434	5.241403	TCTCCAGTTCCTGATTTTAGCAA	57.759	39.130	0.00	0.00	32.44	3.91
3953	4713	5.048782	GCACCTGCGGATATTTTATCATTCA	60.049	40.000	0.00	0.00	0.00	2.57
4064	4854	0.249911	GGGCTATCCGCGTTGAATCT	60.250	55.000	4.92	0.00	40.44	2.40
4066	4856	2.547218	GGGCTATCCGCGTTGAATCTTA	60.547	50.000	4.92	0.00	40.44	2.10
4067	4857	3.326747	GGCTATCCGCGTTGAATCTTAT	58.673	45.455	4.92	0.00	40.44	1.73
4068	4858	3.746492	GGCTATCCGCGTTGAATCTTATT	59.254	43.478	4.92	0.00	40.44	1.40
4070	4860	3.609103	ATCCGCGTTGAATCTTATTGC	57.391	42.857	4.92	0.00	0.00	3.56
4149	5728	0.602562	TACGGTGTTACCCTTGGACG	59.397	55.000	0.00	0.00	33.75	4.79
4150	5729	2.030958	CGGTGTTACCCTTGGACGC	61.031	63.158	0.00	0.00	33.75	5.19
4215	5795	9.443283	GCTTTCTTGTATTTATCTGTTGCATAG	57.557	33.333	0.00	0.00	0.00	2.23
4517	6097	0.804989	CGCTCCCATTTTGTCTCCAC	59.195	55.000	0.00	0.00	0.00	4.02
4553	6133	3.686726	CCTTTCTAACCAGTGCTGTCATC	59.313	47.826	0.00	0.00	0.00	2.92
4658	6238	4.693915	AGCCCCCACCTTAGCCCA	62.694	66.667	0.00	0.00	0.00	5.36
4717	6297	0.392060	AAAACGGGGCGGTGATCTAC	60.392	55.000	0.00	0.00	0.00	2.59
4721	6301	0.391927	CGGGGCGGTGATCTACAAAA	60.392	55.000	0.00	0.00	0.00	2.44
4779	6359	0.102844	ATTGGTGTTGCATATGCCGC	59.897	50.000	24.54	15.79	41.18	6.53
4862	6442	1.811558	CGTGGGCGAATGATGATCCTT	60.812	52.381	0.00	0.00	41.33	3.36
5026	6606	2.496899	AGGTATTGTGTGCCTGGAAG	57.503	50.000	0.00	0.00	41.91	3.46
5287	6873	5.531659	AGGATCATAGTGTCGTAAGGTACTG	59.468	44.000	0.00	0.00	40.86	2.74
5288	6874	5.298777	GGATCATAGTGTCGTAAGGTACTGT	59.701	44.000	0.00	0.00	40.86	3.55
5289	6875	5.808042	TCATAGTGTCGTAAGGTACTGTC	57.192	43.478	0.00	0.00	40.86	3.51
5317	6904	2.722094	TGGGAATACTGACAACCATGC	58.278	47.619	0.00	0.00	0.00	4.06
5375	6962	6.796629	CAAGCAAACTTGTCTAACTTTGTC	57.203	37.500	0.00	0.00	46.84	3.18
5376	6963	5.500645	AGCAAACTTGTCTAACTTTGTCC	57.499	39.130	0.00	0.00	0.00	4.02
5377	6964	4.947388	AGCAAACTTGTCTAACTTTGTCCA	59.053	37.500	0.00	0.00	0.00	4.02
5380	6967	6.198966	GCAAACTTGTCTAACTTTGTCCATTG	59.801	38.462	0.00	0.00	0.00	2.82
5381	6968	7.479980	CAAACTTGTCTAACTTTGTCCATTGA	58.520	34.615	0.00	0.00	0.00	2.57
5382	6969	6.867662	ACTTGTCTAACTTTGTCCATTGAG	57.132	37.500	0.00	0.00	0.00	3.02
5501	8990	7.423844	GGATTGAATCCTATGGGAACTTTTT	57.576	36.000	16.79	0.00	45.78	1.94
5561	9066	3.146847	GTGTCCACTCCAACCTTTTAGG	58.853	50.000	0.00	0.00	42.49	2.69
5569	9074	4.352893	ACTCCAACCTTTTAGGCTCCTTTA	59.647	41.667	0.00	0.00	39.63	1.85
5587	9092	7.125792	TCCTTTAGTTCATAGGACAGGAATC	57.874	40.000	0.00	0.00	33.23	2.52
5597	9102	3.648739	AGGACAGGAATCTCTTAGGGAC	58.351	50.000	0.00	0.00	0.00	4.46
5600	9105	3.379452	ACAGGAATCTCTTAGGGACAGG	58.621	50.000	0.00	0.00	0.00	4.00
5611	9116	4.658901	TCTTAGGGACAGGAAACTTGTCTT	59.341	41.667	12.25	5.74	40.21	3.01
5649	9158	5.586877	TCACAGTACCCAAGTAGTTATCCT	58.413	41.667	0.00	0.00	29.18	3.24
5661	9170	3.810310	AGTTATCCTTTGAGAGCCTCG	57.190	47.619	0.00	0.00	32.35	4.63
5672	9181	3.738982	TGAGAGCCTCGTTGATTTGAAA	58.261	40.909	0.00	0.00	32.35	2.69

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
16	17	3.091022	CGGTTGACGCGCTTTTGC	61.091	61.111	5.73	0.00	43.23	3.68
32	34	4.502171	AAAAACAAATACCCCGGTTACG	57.498	40.909	0.00	0.00	40.55	3.18
39	41	6.345961	CGCGAACTTTTAAAAACAAATACCCC	60.346	38.462	0.00	0.00	0.00	4.95
45	47	3.924686	TGGCGCGAACTTTTAAAAACAAA	59.075	34.783	12.10	0.00	0.00	2.83
61	63	2.205074	GGGATAGATGAATATGGCGCG	58.795	52.381	0.00	0.00	0.00	6.86
64	66	6.480320	GTCGTTATGGGATAGATGAATATGGC	59.520	42.308	0.00	0.00	0.00	4.40
69	71	6.918067	TGAGTCGTTATGGGATAGATGAAT	57.082	37.500	0.00	0.00	0.00	2.57
75	77	4.873746	ACCATGAGTCGTTATGGGATAG	57.126	45.455	11.56	0.00	46.43	2.08
117	171	3.398954	TGAATATGGCGCGAACTTTTC	57.601	42.857	12.10	7.44	0.00	2.29
176	290	2.279582	TGGCGCGAACTTTTCAAAAA	57.720	40.000	12.10	0.00	0.00	1.94
177	291	2.500509	ATGGCGCGAACTTTTCAAAA	57.499	40.000	12.10	0.00	0.00	2.44
178	292	3.840890	ATATGGCGCGAACTTTTCAAA	57.159	38.095	12.10	0.00	0.00	2.69
179	293	3.189495	TGAATATGGCGCGAACTTTTCAA	59.811	39.130	12.10	0.00	0.00	2.69
180	294	2.744741	TGAATATGGCGCGAACTTTTCA	59.255	40.909	12.10	10.20	0.00	2.69
181	295	3.398954	TGAATATGGCGCGAACTTTTC	57.601	42.857	12.10	7.44	0.00	2.29
182	296	3.627577	AGATGAATATGGCGCGAACTTTT	59.372	39.130	12.10	0.00	0.00	2.27
274	771	7.678837	TGAAAAATAAGGAATGCCATGAGTTT	58.321	30.769	0.00	0.00	36.29	2.66
306	803	4.362932	TTTCGAAAATGAATATGGCGCA	57.637	36.364	10.83	0.00	0.00	6.09
323	852	2.919666	AATTCATCGGGTGCTTTTCG	57.080	45.000	0.00	0.00	0.00	3.46
393	1123	8.432110	AAATGGTTTGAAGGAAAAATGTACAC	57.568	30.769	0.00	0.00	0.00	2.90
506	1239	1.100510	GGTTTCCGCCCCTGTAAATC	58.899	55.000	0.00	0.00	0.00	2.17
518	1251	6.876760	GCTGAAAATCACAGACGGTTTCCG	62.877	50.000	6.64	6.64	42.76	4.30
825	1562	3.491792	CCCGAAATCTAGAAGTGAGGAGC	60.492	52.174	0.00	0.00	0.00	4.70
1399	2146	8.236084	AGATGTAAAATTGTACACACGTCTAC	57.764	34.615	10.72	0.00	36.83	2.59
1482	2231	5.951747	AGCATCTAAAATAACCAGAAGGCAA	59.048	36.000	0.00	0.00	39.06	4.52
1541	2290	5.699915	ACTCTGTTGTTCACATGAGAGATTG	59.300	40.000	16.99	0.00	36.16	2.67
1892	2642	8.793592	GGTGAAACAGATTAAACTAAAGACCAT	58.206	33.333	0.00	0.00	39.98	3.55
1893	2643	7.229907	GGGTGAAACAGATTAAACTAAAGACCA	59.770	37.037	0.00	0.00	39.98	4.02
1894	2644	7.447545	AGGGTGAAACAGATTAAACTAAAGACC	59.552	37.037	0.00	0.00	39.98	3.85
1895	2645	8.392372	AGGGTGAAACAGATTAAACTAAAGAC	57.608	34.615	0.00	0.00	39.98	3.01
2136	2892	4.159557	AGGGCAAAGTTATTTGTGACCAT	58.840	39.130	0.00	0.00	46.26	3.55
2266	3022	5.053145	AGCAAGTAGAGACTTTCACAGTTG	58.947	41.667	0.00	0.00	43.70	3.16
2351	3107	3.826157	TGTCCTGCACTAAATTGGGAAAG	59.174	43.478	0.00	0.00	0.00	2.62
2627	3383	8.246430	AGCAATTCAATCTCAATGGTAATCAT	57.754	30.769	0.00	0.00	37.79	2.45
2809	3568	2.161609	GTCAGGTAAAAATGGGACTGCG	59.838	50.000	0.00	0.00	0.00	5.18
3189	3948	7.224557	CCTTGACAAAATTAGTTGAAAGGGTTG	59.775	37.037	14.69	1.11	39.52	3.77
3197	3956	6.601613	ACTGTGTCCTTGACAAAATTAGTTGA	59.398	34.615	0.00	0.00	44.49	3.18
3357	4117	3.380479	TTCTTGACAACAGGAGTACCG	57.620	47.619	0.00	0.00	41.83	4.02
3423	4183	5.841957	AGAAAGCCCTAAAGTAATGCATG	57.158	39.130	0.00	0.00	0.00	4.06
3501	4261	4.454504	CGGCCAACAAAGTTGAACTAGTAT	59.545	41.667	11.19	0.00	0.00	2.12
3674	4434	2.561478	ACTGTCCAATGGTTTAGCGT	57.439	45.000	0.00	0.00	0.00	5.07
3988	4748	6.102663	GCTAGTGCTCAGTTCTCAGAATAAA	58.897	40.000	0.00	0.00	36.03	1.40
4046	4836	1.583054	AAGATTCAACGCGGATAGCC	58.417	50.000	12.47	0.00	44.76	3.93
4066	4856	6.154021	ATCAGATTTGAAAAGCCTACAGCAAT	59.846	34.615	0.00	0.00	39.71	3.56
4067	4857	5.477984	ATCAGATTTGAAAAGCCTACAGCAA	59.522	36.000	0.00	0.00	39.71	3.91
4068	4858	5.012239	ATCAGATTTGAAAAGCCTACAGCA	58.988	37.500	0.00	0.00	39.71	4.41
4070	4860	7.856145	ACTATCAGATTTGAAAAGCCTACAG	57.144	36.000	0.00	0.00	36.78	2.74
4129	5708	1.403249	CGTCCAAGGGTAACACCGTAG	60.403	57.143	0.00	0.00	39.83	3.51
4150	5729	2.271800	ACTAAAGAGCGAGGCATTTCG	58.728	47.619	0.00	0.77	43.23	3.46
4316	5896	9.906660	CAGCTTCTCTTCCTATATTACAGTAAG	57.093	37.037	0.00	0.00	0.00	2.34
4517	6097	2.009774	AGAAAGGGCATGTCGAAATCG	58.990	47.619	0.00	0.00	41.45	3.34
4553	6133	1.966354	TCCATGGACTCATCCTGATCG	59.034	52.381	11.44	0.00	46.43	3.69
4717	6297	6.038603	TCAGATTCAGACAGACCAAGTTTTTG	59.961	38.462	0.00	0.00	0.00	2.44
4721	6301	4.963318	TCAGATTCAGACAGACCAAGTT	57.037	40.909	0.00	0.00	0.00	2.66
4779	6359	0.390492	TAGGCCAGCACTCATCATCG	59.610	55.000	5.01	0.00	0.00	3.84
4862	6442	2.299582	CAAACATCAATCAAGCCCACCA	59.700	45.455	0.00	0.00	0.00	4.17
4933	6513	6.183361	ACCCCAAACCAATAAACAATGTCAAT	60.183	34.615	0.00	0.00	0.00	2.57
5287	6873	5.308014	TGTCAGTATTCCCATATGCATGAC	58.692	41.667	10.16	5.59	36.08	3.06
5288	6874	5.565455	TGTCAGTATTCCCATATGCATGA	57.435	39.130	10.16	0.00	33.67	3.07
5289	6875	5.048504	GGTTGTCAGTATTCCCATATGCATG	60.049	44.000	10.16	0.00	0.00	4.06
5317	6904	8.754991	TTCTAGTAGGAGACAATTCTTCCTAG	57.245	38.462	8.64	0.00	34.72	3.02
5375	6962	0.255318	AAGAGGCAGGCTCTCAATGG	59.745	55.000	25.98	0.00	33.92	3.16
5376	6963	1.743958	CAAAGAGGCAGGCTCTCAATG	59.256	52.381	25.98	19.87	33.92	2.82
5377	6964	1.632409	TCAAAGAGGCAGGCTCTCAAT	59.368	47.619	25.98	13.09	33.92	2.57
5380	6967	2.416680	AATCAAAGAGGCAGGCTCTC	57.583	50.000	25.98	13.14	0.00	3.20
5381	6968	2.040813	TCAAATCAAAGAGGCAGGCTCT	59.959	45.455	20.80	20.80	0.00	4.09
5382	6969	2.440409	TCAAATCAAAGAGGCAGGCTC	58.560	47.619	16.35	16.35	0.00	4.70
5501	8990	7.775053	AATTTAGTGCAAAGTAATCCTTGGA	57.225	32.000	0.00	0.00	32.32	3.53
5531	9036	4.825085	GGTTGGAGTGGACACTAAAATTCA	59.175	41.667	4.73	0.00	42.66	2.57
5561	9066	4.406003	TCCTGTCCTATGAACTAAAGGAGC	59.594	45.833	0.00	0.00	40.06	4.70
5569	9074	6.553100	CCTAAGAGATTCCTGTCCTATGAACT	59.447	42.308	0.00	0.00	0.00	3.01
5587	9092	4.284746	AGACAAGTTTCCTGTCCCTAAGAG	59.715	45.833	0.00	0.00	33.40	2.85
5597	9102	8.683615	ACCTAAAAAGTTAAGACAAGTTTCCTG	58.316	33.333	0.00	0.00	0.00	3.86
5611	9116	8.658619	TGGGTACTGTGATAACCTAAAAAGTTA	58.341	33.333	0.00	0.00	32.57	2.24
5626	9131	5.586877	AGGATAACTACTTGGGTACTGTGA	58.413	41.667	0.00	0.00	0.00	3.58
5629	9134	6.942976	TCAAAGGATAACTACTTGGGTACTG	58.057	40.000	0.00	0.00	0.00	2.74
5630	9135	6.958192	TCTCAAAGGATAACTACTTGGGTACT	59.042	38.462	0.00	0.00	0.00	2.73
5631	9136	7.179076	TCTCAAAGGATAACTACTTGGGTAC	57.821	40.000	0.00	0.00	0.00	3.34
5634	9143	5.119694	GCTCTCAAAGGATAACTACTTGGG	58.880	45.833	0.00	0.00	0.00	4.12
5649	9158	3.738982	TCAAATCAACGAGGCTCTCAAA	58.261	40.909	13.50	0.00	0.00	2.69
5672	9181	9.987726	ATCCTCTAGAATTCCTTTGAAAAATCT	57.012	29.630	0.65	0.00	33.32	2.40

Based at the University of Bristol with support from BBSRC.

AutoCloner maintained by Alex Coulton.