AutoCloner

Multiple sequence alignment - TraesCS5A01G032100

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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	TraesCS5A01G032100	chr5A	100.000	2183	0	0	1	2183	29638078	29635896	0.000000e+00	4032.0
1	TraesCS5A01G032100	chr5B	87.500	904	109	3	1281	2183	35455341	35454441	0.000000e+00	1040.0
2	TraesCS5A01G032100	chr5B	87.225	908	108	6	1281	2183	35452128	35451224	0.000000e+00	1027.0
3	TraesCS5A01G032100	chr5B	86.349	901	112	5	1287	2183	35369364	35368471	0.000000e+00	972.0
4	TraesCS5A01G032100	chr5B	86.536	765	76	8	1	762	35321544	35320804	0.000000e+00	817.0
5	TraesCS5A01G032100	chr5B	87.946	589	70	1	175	762	35301370	35300782	0.000000e+00	693.0
6	TraesCS5A01G032100	chr5B	83.007	765	97	15	1	762	35452854	35452120	0.000000e+00	662.0
7	TraesCS5A01G032100	chr5B	82.904	737	115	8	22	757	35370093	35369367	0.000000e+00	652.0
8	TraesCS5A01G032100	chr5B	84.337	498	75	3	266	762	35455828	35455333	3.260000e-133	484.0
9	TraesCS5A01G032100	chr5B	88.530	279	30	2	1907	2183	35300348	35300070	9.650000e-89	337.0
10	TraesCS5A01G032100	chr5B	87.967	241	27	2	1907	2146	35320371	35320132	1.280000e-72	283.0
11	TraesCS5A01G032100	chr5B	80.702	342	54	6	1620	1951	35383406	35383067	2.780000e-64	255.0
12	TraesCS5A01G032100	chr5B	94.737	114	5	1	153	266	35497323	35497211	2.230000e-40	176.0
13	TraesCS5A01G032100	chr5B	83.696	92	15	0	1524	1615	450837066	450837157	1.070000e-13	87.9
14	TraesCS5A01G032100	chr1A	98.482	527	8	0	753	1279	240674208	240674734	0.000000e+00	929.0
15	TraesCS5A01G032100	chr4A	98.282	524	9	0	753	1276	595062382	595062905	0.000000e+00	918.0
16	TraesCS5A01G032100	chr4A	100.000	31	0	0	662	692	687354049	687354019	8.420000e-05	58.4
17	TraesCS5A01G032100	chr2A	98.282	524	9	0	753	1276	377817092	377816569	0.000000e+00	918.0
18	TraesCS5A01G032100	chr6A	98.092	524	10	0	753	1276	453902881	453903404	0.000000e+00	913.0
19	TraesCS5A01G032100	chrUn	97.905	525	11	0	753	1277	210180716	210180192	0.000000e+00	909.0
20	TraesCS5A01G032100	chrUn	97.524	525	13	0	753	1277	210615486	210614962	0.000000e+00	898.0
21	TraesCS5A01G032100	chrUn	97.333	525	14	0	753	1277	325157603	325158127	0.000000e+00	893.0
22	TraesCS5A01G032100	chrUn	97.333	525	14	0	753	1277	374588760	374588236	0.000000e+00	893.0
23	TraesCS5A01G032100	chr2D	96.762	525	17	0	752	1276	318334915	318335439	0.000000e+00	876.0
24	TraesCS5A01G032100	chr3D	80.000	140	28	0	1725	1864	25281904	25281765	1.070000e-18	104.0
25	TraesCS5A01G032100	chr7D	79.286	140	29	0	1725	1864	37538659	37538798	4.960000e-17	99.0

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	TraesCS5A01G032100	chr5A	29635896	29638078	2182	True	4032.00	4032	100.00000	1	2183	1	chr5A.!!$R1	2182
1	TraesCS5A01G032100	chr5B	35368471	35370093	1622	True	812.00	972	84.62650	22	2183	2	chr5B.!!$R5	2161
2	TraesCS5A01G032100	chr5B	35451224	35455828	4604	True	803.25	1040	85.51725	1	2183	4	chr5B.!!$R6	2182
3	TraesCS5A01G032100	chr5B	35320132	35321544	1412	True	550.00	817	87.25150	1	2146	2	chr5B.!!$R4	2145
4	TraesCS5A01G032100	chr5B	35300070	35301370	1300	True	515.00	693	88.23800	175	2183	2	chr5B.!!$R3	2008
5	TraesCS5A01G032100	chr1A	240674208	240674734	526	False	929.00	929	98.48200	753	1279	1	chr1A.!!$F1	526
6	TraesCS5A01G032100	chr4A	595062382	595062905	523	False	918.00	918	98.28200	753	1276	1	chr4A.!!$F1	523
7	TraesCS5A01G032100	chr2A	377816569	377817092	523	True	918.00	918	98.28200	753	1276	1	chr2A.!!$R1	523
8	TraesCS5A01G032100	chr6A	453902881	453903404	523	False	913.00	913	98.09200	753	1276	1	chr6A.!!$F1	523
9	TraesCS5A01G032100	chrUn	210180192	210180716	524	True	909.00	909	97.90500	753	1277	1	chrUn.!!$R1	524
10	TraesCS5A01G032100	chrUn	210614962	210615486	524	True	898.00	898	97.52400	753	1277	1	chrUn.!!$R2	524
11	TraesCS5A01G032100	chrUn	325157603	325158127	524	False	893.00	893	97.33300	753	1277	1	chrUn.!!$F1	524
12	TraesCS5A01G032100	chrUn	374588236	374588760	524	True	893.00	893	97.33300	753	1277	1	chrUn.!!$R3	524
13	TraesCS5A01G032100	chr2D	318334915	318335439	524	False	876.00	876	96.76200	752	1276	1	chr2D.!!$F1	524

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
217	3191	0.171455	AGAAAGCTCGTGTCGGCTAG	59.829	55.0	0.0	0.0	37.87	3.42	F

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability	Orientation
2063	5228	0.034574	TTGCGGGGTGAGTTATGCAT	60.035	50.0	3.79	3.79	31.7	3.96	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
36	3010	4.066139	GGCCATTGGGAGGGTGCT	62.066	66.667	4.53	0.00	35.59	4.40
49	3023	2.187946	GTGCTGCCGTGCCTCTAT	59.812	61.111	0.00	0.00	0.00	1.98
65	3039	3.387374	CCTCTATGATGACAAGAGCAGGT	59.613	47.826	0.00	0.00	36.29	4.00
66	3040	4.141756	CCTCTATGATGACAAGAGCAGGTT	60.142	45.833	0.00	0.00	36.29	3.50
67	3041	5.016051	TCTATGATGACAAGAGCAGGTTC	57.984	43.478	0.00	0.00	0.00	3.62
68	3042	3.708403	ATGATGACAAGAGCAGGTTCA	57.292	42.857	0.00	0.00	0.00	3.18
69	3043	3.049708	TGATGACAAGAGCAGGTTCAG	57.950	47.619	0.00	0.00	0.00	3.02
70	3044	1.736681	GATGACAAGAGCAGGTTCAGC	59.263	52.381	0.00	0.00	0.00	4.26
71	3045	0.250467	TGACAAGAGCAGGTTCAGCC	60.250	55.000	0.00	0.00	37.58	4.85
72	3046	1.294659	GACAAGAGCAGGTTCAGCCG	61.295	60.000	0.00	0.00	43.70	5.52
123	3097	1.092345	GTGATCCCGCTGAAGGCTTC	61.092	60.000	20.27	20.27	39.13	3.86
207	3181	0.744281	GGAGGAGAGGAGAAAGCTCG	59.256	60.000	0.00	0.00	42.25	5.03
209	3183	1.134175	GAGGAGAGGAGAAAGCTCGTG	59.866	57.143	0.00	0.00	42.25	4.35
217	3191	0.171455	AGAAAGCTCGTGTCGGCTAG	59.829	55.000	0.00	0.00	37.87	3.42
242	3216	4.431809	CTCAAAGCCTCAGATAGACACAG	58.568	47.826	0.00	0.00	0.00	3.66
315	3291	4.206958	GCATGTGCATGTCTCGGA	57.793	55.556	12.96	0.00	40.80	4.55
346	3322	2.267324	GGGACTCTCAGCTGGCAC	59.733	66.667	15.13	1.54	0.00	5.01
381	3357	2.181021	CCGTGGCGACTGTACTCC	59.819	66.667	0.00	0.00	0.00	3.85
424	3400	3.844090	GCTCTCTCCCCGTCCAGC	61.844	72.222	0.00	0.00	0.00	4.85
473	3449	7.173390	AGCAAGGTCAGAAACATAAAACTAGTC	59.827	37.037	0.00	0.00	0.00	2.59
513	3489	6.753279	TCTCGTCGTAAAATAATTTCCGATGT	59.247	34.615	9.42	0.00	35.85	3.06
528	3505	1.524355	CGATGTCTTTCATGCCTAGCG	59.476	52.381	0.00	0.00	36.83	4.26
601	3578	2.290916	TCCGATCATCGTTGCTAGAGTC	59.709	50.000	6.25	0.00	38.40	3.36
613	3590	5.408909	CGTTGCTAGAGTCTATAGGAATCGA	59.591	44.000	11.07	0.00	43.01	3.59
618	3595	6.128391	GCTAGAGTCTATAGGAATCGACACTG	60.128	46.154	0.00	0.00	43.01	3.66
622	3599	6.358178	AGTCTATAGGAATCGACACTGAGAA	58.642	40.000	0.00	0.00	31.76	2.87
633	3610	3.674682	CGACACTGAGAAGCTCTAAAGGG	60.675	52.174	0.00	0.00	0.00	3.95
634	3611	3.243724	ACACTGAGAAGCTCTAAAGGGT	58.756	45.455	0.00	0.00	0.00	4.34
646	3623	7.676683	AGCTCTAAAGGGTCTGTATTTATCA	57.323	36.000	0.00	0.00	0.00	2.15
648	3625	7.988028	AGCTCTAAAGGGTCTGTATTTATCAAC	59.012	37.037	0.00	0.00	0.00	3.18
735	3712	4.634012	TCTGTAGCCAGGTATGTTTTGT	57.366	40.909	0.00	0.00	39.31	2.83
1333	4310	8.235359	TGTCATATATAGGCTCTCATCTCATG	57.765	38.462	0.00	0.00	0.00	3.07
1378	4355	2.490509	CCCGGTTTTAACAAGGACATCC	59.509	50.000	0.00	0.00	32.28	3.51
1401	4378	3.120321	AGTTAGCGAATGTTCACCACA	57.880	42.857	0.00	0.00	40.71	4.17
1403	4380	3.250040	AGTTAGCGAATGTTCACCACAAC	59.750	43.478	0.00	0.00	39.50	3.32
1420	4397	1.815613	CAACGGGTGGCATATGTGAAA	59.184	47.619	4.29	0.00	0.00	2.69
1451	4428	5.815740	GTGACAGTTTTAGTTGTGAGGAAGA	59.184	40.000	0.00	0.00	0.00	2.87
1457	4434	5.623956	TTTAGTTGTGAGGAAGAGGTGAA	57.376	39.130	0.00	0.00	0.00	3.18
1459	4436	2.147150	GTTGTGAGGAAGAGGTGAAGC	58.853	52.381	0.00	0.00	0.00	3.86
1474	4454	3.555518	GTGAAGCGTGACATTTTCTTCC	58.444	45.455	0.00	0.00	33.99	3.46
1480	4460	1.533731	GTGACATTTTCTTCCGGCGAA	59.466	47.619	9.30	0.00	0.00	4.70
1496	4476	2.814336	GGCGAAATGACAGTTTCTTCCT	59.186	45.455	0.00	0.00	36.25	3.36
1512	4495	3.604582	CTTCCTGAGAAGGCGATTTTCT	58.395	45.455	0.00	0.00	44.97	2.52
1521	4504	9.196552	CTGAGAAGGCGATTTTCTTTTAAAAAT	57.803	29.630	1.66	0.00	40.60	1.82
1528	4511	8.059502	GGCGATTTTCTTTTAAAAATTGTCGTT	58.940	29.630	16.57	0.00	40.14	3.85
1573	4556	1.001974	ACTGCCAGCAGATAACGTTCA	59.998	47.619	25.66	0.00	46.30	3.18
1596	4579	2.284921	CACCCCTCTCCCAGCTGA	60.285	66.667	17.39	0.00	0.00	4.26
1649	4632	1.388837	GGAACCGTGGCCAAACACTT	61.389	55.000	7.24	0.00	39.19	3.16
1670	4653	5.785940	ACTTTGGACCCTTAGTCTAGACATT	59.214	40.000	24.44	7.73	45.54	2.71
1725	4710	9.554395	TCTGTTTAAGACACACTAAAATCATCA	57.446	29.630	0.00	0.00	33.82	3.07
1730	4715	9.725019	TTAAGACACACTAAAATCATCAGTCAT	57.275	29.630	0.00	0.00	0.00	3.06
1749	4734	7.828717	TCAGTCATCAAATAGGCTACAAAATCA	59.171	33.333	0.00	0.00	0.00	2.57
1753	4738	8.623903	TCATCAAATAGGCTACAAAATCATGTC	58.376	33.333	0.00	0.00	34.75	3.06
1755	4740	6.038161	TCAAATAGGCTACAAAATCATGTCCG	59.962	38.462	0.00	0.00	34.75	4.79
1761	4746	4.496341	GCTACAAAATCATGTCCGTCCATG	60.496	45.833	5.44	5.44	42.89	3.66
1767	4752	1.086696	CATGTCCGTCCATGAACCAC	58.913	55.000	5.81	0.00	43.99	4.16
1779	4764	2.512692	TGAACCACATAGCATGGCTT	57.487	45.000	0.00	0.00	41.31	4.35
1791	4776	1.560923	CATGGCTTCCTTAGACGACG	58.439	55.000	0.00	0.00	32.99	5.12
1795	4780	1.134560	GGCTTCCTTAGACGACGACAT	59.865	52.381	0.00	0.00	0.00	3.06
1808	4793	4.245660	ACGACGACATCATCAAAAGACAT	58.754	39.130	0.00	0.00	0.00	3.06
1814	4799	7.099764	ACGACATCATCAAAAGACATAAGAGT	58.900	34.615	0.00	0.00	0.00	3.24
1828	4813	7.721402	AGACATAAGAGTATGAGCAGGTTTAG	58.279	38.462	0.87	0.00	39.72	1.85
1831	4816	8.414778	ACATAAGAGTATGAGCAGGTTTAGTAC	58.585	37.037	0.87	0.00	39.72	2.73
1837	4822	7.796054	AGTATGAGCAGGTTTAGTACAATCAT	58.204	34.615	0.00	0.00	0.00	2.45
1839	4824	6.048732	TGAGCAGGTTTAGTACAATCATGA	57.951	37.500	0.00	0.00	0.00	3.07
1858	4843	4.811555	TGAGGACAAAACACGATTTGAG	57.188	40.909	16.00	4.83	41.73	3.02
1874	4859	5.231147	CGATTTGAGCTTCAGTAAGACTAGC	59.769	44.000	0.00	0.00	34.37	3.42
1880	4865	3.386402	GCTTCAGTAAGACTAGCTGGGAT	59.614	47.826	0.85	0.00	34.37	3.85
1883	4868	4.211125	TCAGTAAGACTAGCTGGGATGAG	58.789	47.826	0.85	0.00	0.00	2.90
1894	4879	6.881602	ACTAGCTGGGATGAGAAACTAAAAAG	59.118	38.462	0.85	0.00	0.00	2.27
1912	4897	1.609208	AGCTCATTGAAAGCACCGTT	58.391	45.000	1.33	0.00	42.35	4.44
1929	5093	8.905103	AGCACCGTTAAATTTGAACATAATAC	57.095	30.769	0.00	0.00	0.00	1.89
1977	5141	5.598417	AGGTTGCTTCACCTTCAATTTTACT	59.402	36.000	0.00	0.00	45.76	2.24
1980	5144	7.254421	GGTTGCTTCACCTTCAATTTTACTTTG	60.254	37.037	0.00	0.00	33.50	2.77
2041	5206	2.983030	GTGGCCATTGCGGTGACA	60.983	61.111	9.72	0.00	38.85	3.58
2081	5246	0.747644	CATGCATAACTCACCCCGCA	60.748	55.000	0.00	0.00	0.00	5.69
2115	5280	2.356667	CTTTGGGTCCTCCTGGCC	59.643	66.667	0.00	0.00	36.20	5.36
2147	5312	2.351276	GCACGTCCCATCCTTGGT	59.649	61.111	0.00	0.00	41.91	3.67

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
20	2994	2.757099	CAGCACCCTCCCAATGGC	60.757	66.667	0.00	0.00	0.00	4.40
36	3010	0.104855	GTCATCATAGAGGCACGGCA	59.895	55.000	0.00	0.00	0.00	5.69
49	3023	2.873245	GCTGAACCTGCTCTTGTCATCA	60.873	50.000	0.00	0.00	0.00	3.07
70	3044	0.250295	TCCTTGAAGTGCCTGAACGG	60.250	55.000	0.00	0.00	0.00	4.44
71	3045	1.264288	GTTCCTTGAAGTGCCTGAACG	59.736	52.381	0.00	0.00	0.00	3.95
72	3046	1.264288	CGTTCCTTGAAGTGCCTGAAC	59.736	52.381	0.00	0.00	0.00	3.18
85	3059	2.668550	GAACCTGCGCCGTTCCTT	60.669	61.111	20.95	0.00	34.75	3.36
112	3086	1.134670	ACGACATAGGAAGCCTTCAGC	60.135	52.381	6.80	0.00	44.25	4.26
123	3097	1.134788	GGTCCTTGTCCACGACATAGG	60.135	57.143	12.81	12.81	42.40	2.57
207	3181	1.997669	CTTTGAGGTCTAGCCGACAC	58.002	55.000	6.15	1.16	44.68	3.67
209	3183	0.460459	GGCTTTGAGGTCTAGCCGAC	60.460	60.000	0.00	0.00	44.39	4.79
217	3191	3.449018	TGTCTATCTGAGGCTTTGAGGTC	59.551	47.826	0.00	0.00	0.00	3.85
230	3204	1.746727	GCGTGCGCTGTGTCTATCTG	61.747	60.000	9.73	0.00	38.26	2.90
242	3216	0.234884	GGTAATATGGAAGCGTGCGC	59.765	55.000	8.67	8.67	42.33	6.09
280	3254	1.611419	CATCCTGGCATGAGGGTGT	59.389	57.895	5.68	0.00	39.17	4.16
315	3291	2.982488	AGAGTCCCTCTGAAAACCATGT	59.018	45.455	0.00	0.00	39.62	3.21
338	3314	1.674651	CAGCATCACTGTGCCAGCT	60.675	57.895	13.18	13.18	46.19	4.24
352	3328	2.436469	CCACGGCTATGCACAGCA	60.436	61.111	20.36	0.00	43.67	4.41
358	3334	2.622903	TACAGTCGCCACGGCTATGC	62.623	60.000	6.48	0.00	40.90	3.14
361	3337	1.651240	GAGTACAGTCGCCACGGCTA	61.651	60.000	6.48	0.00	40.90	3.93
362	3338	2.989824	AGTACAGTCGCCACGGCT	60.990	61.111	6.48	0.00	44.88	5.52
424	3400	2.437396	GGAGGCCATGGCAATTGGG	61.437	63.158	36.56	0.58	44.11	4.12
513	3489	4.260985	TGAAAATCGCTAGGCATGAAAGA	58.739	39.130	0.00	0.00	0.00	2.52
528	3505	6.970484	AGTGTCCGCCATATTTATGAAAATC	58.030	36.000	0.00	0.00	36.67	2.17
578	3555	1.001268	TCTAGCAACGATGATCGGAGC	60.001	52.381	19.82	20.36	45.59	4.70
601	3578	5.240623	AGCTTCTCAGTGTCGATTCCTATAG	59.759	44.000	0.00	0.00	0.00	1.31
613	3590	3.243724	ACCCTTTAGAGCTTCTCAGTGT	58.756	45.455	0.00	0.00	32.06	3.55
618	3595	5.862678	ATACAGACCCTTTAGAGCTTCTC	57.137	43.478	0.00	0.00	0.00	2.87
622	3599	7.676683	TGATAAATACAGACCCTTTAGAGCT	57.323	36.000	0.00	0.00	0.00	4.09
633	3610	6.255020	CACGTACCCAGTTGATAAATACAGAC	59.745	42.308	0.00	0.00	0.00	3.51
634	3611	6.334989	CACGTACCCAGTTGATAAATACAGA	58.665	40.000	0.00	0.00	0.00	3.41
646	3623	0.605319	CATGTGGCACGTACCCAGTT	60.605	55.000	12.81	0.00	31.89	3.16
648	3625	0.321210	TTCATGTGGCACGTACCCAG	60.321	55.000	12.81	0.00	31.89	4.45
1089	4066	1.079197	TCGCATGACAATCGCCACT	60.079	52.632	0.00	0.00	0.00	4.00
1160	4137	8.086522	ACAATTACTCTCGCGGTATTACATTAT	58.913	33.333	6.13	0.00	0.00	1.28
1306	4283	8.462589	TGAGATGAGAGCCTATATATGACATC	57.537	38.462	0.00	0.00	34.01	3.06
1378	4355	4.688879	TGTGGTGAACATTCGCTAACTAAG	59.311	41.667	5.24	0.00	37.80	2.18
1383	4360	2.222213	CGTTGTGGTGAACATTCGCTAA	59.778	45.455	5.24	0.00	38.99	3.09
1385	4362	0.586319	CGTTGTGGTGAACATTCGCT	59.414	50.000	5.24	0.00	38.99	4.93
1401	4378	2.091541	CTTTCACATATGCCACCCGTT	58.908	47.619	1.58	0.00	0.00	4.44
1403	4380	2.036958	TCTTTCACATATGCCACCCG	57.963	50.000	1.58	0.00	0.00	5.28
1420	4397	8.050778	TCACAACTAAAACTGTCACAAAATCT	57.949	30.769	0.00	0.00	0.00	2.40
1451	4428	2.851195	AGAAAATGTCACGCTTCACCT	58.149	42.857	0.00	0.00	0.00	4.00
1457	4434	1.156736	CCGGAAGAAAATGTCACGCT	58.843	50.000	0.00	0.00	0.00	5.07
1459	4436	0.179225	CGCCGGAAGAAAATGTCACG	60.179	55.000	5.05	0.00	0.00	4.35
1474	4454	2.412847	GGAAGAAACTGTCATTTCGCCG	60.413	50.000	0.00	0.00	42.37	6.46
1496	4476	9.541143	AATTTTTAAAAGAAAATCGCCTTCTCA	57.459	25.926	0.14	0.00	38.04	3.27
1521	4504	2.479837	AGCGAGATCAAACAACGACAA	58.520	42.857	0.00	0.00	0.00	3.18
1528	4511	3.466836	AGTTGTCAAGCGAGATCAAACA	58.533	40.909	0.00	0.00	0.00	2.83
1573	4556	2.936032	GGGAGAGGGGTGGCAAGT	60.936	66.667	0.00	0.00	0.00	3.16
1596	4579	2.358322	AAATGTTCCCTGGTGAACGT	57.642	45.000	17.48	15.62	46.04	3.99
1649	4632	5.338632	TCAATGTCTAGACTAAGGGTCCAA	58.661	41.667	23.01	0.00	45.54	3.53
1701	4685	9.337396	ACTGATGATTTTAGTGTGTCTTAAACA	57.663	29.630	0.00	0.00	34.78	2.83
1702	4686	9.813080	GACTGATGATTTTAGTGTGTCTTAAAC	57.187	33.333	0.00	0.00	29.45	2.01
1723	4708	7.828717	TGATTTTGTAGCCTATTTGATGACTGA	59.171	33.333	0.00	0.00	0.00	3.41
1725	4710	8.627403	CATGATTTTGTAGCCTATTTGATGACT	58.373	33.333	0.00	0.00	0.00	3.41
1730	4715	6.038161	CGGACATGATTTTGTAGCCTATTTGA	59.962	38.462	0.00	0.00	0.00	2.69
1749	4734	0.690192	TGTGGTTCATGGACGGACAT	59.310	50.000	0.00	0.00	0.00	3.06
1753	4738	1.299541	GCTATGTGGTTCATGGACGG	58.700	55.000	0.00	0.00	37.22	4.79
1755	4740	3.976793	CATGCTATGTGGTTCATGGAC	57.023	47.619	0.00	0.00	37.22	4.02
1761	4746	1.678101	GGAAGCCATGCTATGTGGTTC	59.322	52.381	13.99	13.99	38.25	3.62
1767	4752	3.062763	CGTCTAAGGAAGCCATGCTATG	58.937	50.000	0.00	0.00	38.25	2.23
1779	4764	3.275999	TGATGATGTCGTCGTCTAAGGA	58.724	45.455	14.08	0.00	42.32	3.36
1795	4780	8.260114	TGCTCATACTCTTATGTCTTTTGATGA	58.740	33.333	0.00	0.00	37.06	2.92
1808	4793	7.949690	TGTACTAAACCTGCTCATACTCTTA	57.050	36.000	0.00	0.00	0.00	2.10
1814	4799	7.791029	TCATGATTGTACTAAACCTGCTCATA	58.209	34.615	0.00	0.00	0.00	2.15
1828	4813	5.178623	TCGTGTTTTGTCCTCATGATTGTAC	59.821	40.000	0.00	0.00	0.00	2.90
1831	4816	4.747540	TCGTGTTTTGTCCTCATGATTG	57.252	40.909	0.00	0.00	0.00	2.67
1837	4822	3.003275	GCTCAAATCGTGTTTTGTCCTCA	59.997	43.478	3.98	0.00	37.73	3.86
1839	4824	3.214328	AGCTCAAATCGTGTTTTGTCCT	58.786	40.909	3.98	0.52	37.73	3.85
1858	4843	2.761208	TCCCAGCTAGTCTTACTGAAGC	59.239	50.000	3.91	0.00	31.61	3.86
1874	4859	5.707298	TGAGCTTTTTAGTTTCTCATCCCAG	59.293	40.000	0.00	0.00	0.00	4.45
1880	4865	7.649306	GCTTTCAATGAGCTTTTTAGTTTCTCA	59.351	33.333	0.00	0.00	38.05	3.27
1883	4868	7.306807	GGTGCTTTCAATGAGCTTTTTAGTTTC	60.307	37.037	0.00	0.00	40.75	2.78
1894	4879	3.552604	TTAACGGTGCTTTCAATGAGC	57.447	42.857	0.00	0.00	40.53	4.26
1929	5093	1.962807	TGAAGTCACCCCTGCAAATTG	59.037	47.619	0.00	0.00	0.00	2.32
1933	5097	0.823356	GCTTGAAGTCACCCCTGCAA	60.823	55.000	0.00	0.00	0.00	4.08
1935	5099	1.228245	TGCTTGAAGTCACCCCTGC	60.228	57.895	0.00	0.00	0.00	4.85
1987	5151	7.865385	GCATAAAACAAACCATGAACTTGACTA	59.135	33.333	0.00	0.00	0.00	2.59
2041	5206	1.630126	CCTAGGTCAGGTGCATGCCT	61.630	60.000	16.68	2.40	39.91	4.75
2055	5220	2.498167	GTGAGTTATGCATGGCCTAGG	58.502	52.381	10.16	3.67	0.00	3.02
2063	5228	0.034574	TTGCGGGGTGAGTTATGCAT	60.035	50.000	3.79	3.79	31.70	3.96
2096	5261	2.911926	GCCAGGAGGACCCAAAGCT	61.912	63.158	0.00	0.00	36.89	3.74
2104	5269	1.274703	TGAGGATTGGCCAGGAGGAC	61.275	60.000	5.11	0.00	46.36	3.85
2115	5280	1.499056	GTGCGTGCAGTGAGGATTG	59.501	57.895	0.00	0.00	0.00	2.67
2147	5312	4.888823	CCATGATTGTTGTGATGGTATCCA	59.111	41.667	0.00	0.00	38.19	3.41

Based at the University of Bristol with support from BBSRC.

AutoCloner maintained by Alex Coulton.