AutoCloner

Multiple sequence alignment - TraesCS2D01G173700

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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	TraesCS2D01G173700	chr2D	100.000	4636	0	0	1	4636	117230477	117225842	0.000000e+00	8562.0
1	TraesCS2D01G173700	chr2D	88.287	572	41	17	3934	4497	542728972	542729525	0.000000e+00	662.0
2	TraesCS2D01G173700	chr2B	95.673	3906	125	21	1	3882	167801438	167797553	0.000000e+00	6237.0
3	TraesCS2D01G173700	chr2A	96.961	2073	55	7	1772	3838	118672725	118670655	0.000000e+00	3472.0
4	TraesCS2D01G173700	chr2A	91.502	812	45	12	397	1203	118674023	118673231	0.000000e+00	1096.0
5	TraesCS2D01G173700	chr2A	90.845	568	46	3	1204	1765	118673378	118672811	0.000000e+00	756.0
6	TraesCS2D01G173700	chr2A	87.738	367	19	16	1	349	118674598	118674240	5.590000e-109	405.0
7	TraesCS2D01G173700	chr2A	89.552	67	4	2	3828	3894	118670255	118670192	1.070000e-11	82.4
8	TraesCS2D01G173700	chr6D	97.147	701	19	1	3937	4636	126423154	126422454	0.000000e+00	1182.0
9	TraesCS2D01G173700	chr6D	86.905	672	66	19	3937	4599	41244605	41245263	0.000000e+00	734.0
10	TraesCS2D01G173700	chr6D	90.536	560	31	17	3938	4493	46863031	46863572	0.000000e+00	721.0
11	TraesCS2D01G173700	chr5D	92.978	712	36	6	3937	4636	334944646	334945355	0.000000e+00	1026.0
12	TraesCS2D01G173700	chr7A	90.909	715	34	13	3937	4636	692282106	692282804	0.000000e+00	931.0
13	TraesCS2D01G173700	chr7A	83.382	686	69	26	3938	4602	213115613	213116274	1.110000e-165	593.0
14	TraesCS2D01G173700	chr7A	82.553	619	70	26	3938	4548	176277701	176277113	1.150000e-140	510.0
15	TraesCS2D01G173700	chr7A	79.237	655	82	36	3973	4598	439803870	439803241	1.550000e-109	407.0
16	TraesCS2D01G173700	chr1D	87.351	672	63	19	3937	4599	491932916	491933574	0.000000e+00	750.0
17	TraesCS2D01G173700	chr4A	86.507	667	75	13	3938	4599	616795241	616795897	0.000000e+00	719.0
18	TraesCS2D01G173700	chr4A	93.333	375	23	2	4262	4636	321941650	321941278	1.880000e-153	553.0
19	TraesCS2D01G173700	chr3D	89.212	584	41	18	3938	4516	11403095	11403661	0.000000e+00	710.0
20	TraesCS2D01G173700	chr7D	91.928	446	25	10	3937	4379	30007169	30006732	8.530000e-172	614.0
21	TraesCS2D01G173700	chr7D	85.095	577	53	25	3938	4497	554843272	554842712	4.050000e-155	558.0
22	TraesCS2D01G173700	chr5B	91.964	224	18	0	4413	4636	543852910	543853133	9.680000e-82	315.0

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	TraesCS2D01G173700	chr2D	117225842	117230477	4635	True	8562.00	8562	100.0000	1	4636	1	chr2D.!!$R1	4635
1	TraesCS2D01G173700	chr2D	542728972	542729525	553	False	662.00	662	88.2870	3934	4497	1	chr2D.!!$F1	563
2	TraesCS2D01G173700	chr2B	167797553	167801438	3885	True	6237.00	6237	95.6730	1	3882	1	chr2B.!!$R1	3881
3	TraesCS2D01G173700	chr2A	118670192	118674598	4406	True	1162.28	3472	91.3196	1	3894	5	chr2A.!!$R1	3893
4	TraesCS2D01G173700	chr6D	126422454	126423154	700	True	1182.00	1182	97.1470	3937	4636	1	chr6D.!!$R1	699
5	TraesCS2D01G173700	chr6D	41244605	41245263	658	False	734.00	734	86.9050	3937	4599	1	chr6D.!!$F1	662
6	TraesCS2D01G173700	chr6D	46863031	46863572	541	False	721.00	721	90.5360	3938	4493	1	chr6D.!!$F2	555
7	TraesCS2D01G173700	chr5D	334944646	334945355	709	False	1026.00	1026	92.9780	3937	4636	1	chr5D.!!$F1	699
8	TraesCS2D01G173700	chr7A	692282106	692282804	698	False	931.00	931	90.9090	3937	4636	1	chr7A.!!$F2	699
9	TraesCS2D01G173700	chr7A	213115613	213116274	661	False	593.00	593	83.3820	3938	4602	1	chr7A.!!$F1	664
10	TraesCS2D01G173700	chr7A	176277113	176277701	588	True	510.00	510	82.5530	3938	4548	1	chr7A.!!$R1	610
11	TraesCS2D01G173700	chr7A	439803241	439803870	629	True	407.00	407	79.2370	3973	4598	1	chr7A.!!$R2	625
12	TraesCS2D01G173700	chr1D	491932916	491933574	658	False	750.00	750	87.3510	3937	4599	1	chr1D.!!$F1	662
13	TraesCS2D01G173700	chr4A	616795241	616795897	656	False	719.00	719	86.5070	3938	4599	1	chr4A.!!$F1	661
14	TraesCS2D01G173700	chr3D	11403095	11403661	566	False	710.00	710	89.2120	3938	4516	1	chr3D.!!$F1	578
15	TraesCS2D01G173700	chr7D	554842712	554843272	560	True	558.00	558	85.0950	3938	4497	1	chr7D.!!$R2	559

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
151	155	0.034089	GCTAGAACCCCACTGCCATT	60.034	55.0	0.00	0.00	0.00	3.16	F
2045	2346	0.321021	AGGACTCTGAGCTTGCACAG	59.679	55.0	12.61	12.61	35.72	3.66	F

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability	Orientation
2129	2430	1.052287	CGGCAACAGATTTTTCGTGC	58.948	50.0	0.0	0.0	0.00	5.34	R
3920	4632	0.251653	ACAGAAGGAGGACTACGCCA	60.252	55.0	0.0	0.0	42.23	5.69	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
151	155	0.034089	GCTAGAACCCCACTGCCATT	60.034	55.000	0.00	0.00	0.00	3.16
157	161	3.323691	AGAACCCCACTGCCATTAAAAAC	59.676	43.478	0.00	0.00	0.00	2.43
223	240	2.288961	ATTTCACCGTGCTAGGTACG	57.711	50.000	3.43	1.50	43.89	3.67
246	263	4.494855	GGTTAGTCATGAAATCTCAAGCGC	60.495	45.833	0.00	0.00	34.49	5.92
669	869	1.942657	CAGTCGGTGGCAATGATTAGG	59.057	52.381	0.00	0.00	0.00	2.69
681	881	0.396435	TGATTAGGGCATGTAGGGCG	59.604	55.000	0.00	0.00	0.00	6.13
704	904	5.334879	CGGGATCAGTAAAGTTCTTTTGGTG	60.335	44.000	3.12	0.50	0.00	4.17
705	905	5.768164	GGGATCAGTAAAGTTCTTTTGGTGA	59.232	40.000	3.12	5.18	0.00	4.02
706	906	6.294010	GGGATCAGTAAAGTTCTTTTGGTGAC	60.294	42.308	3.12	0.00	29.70	3.67
707	907	6.486993	GGATCAGTAAAGTTCTTTTGGTGACT	59.513	38.462	3.12	0.00	29.70	3.41
708	908	6.677781	TCAGTAAAGTTCTTTTGGTGACTG	57.322	37.500	14.11	14.11	34.86	3.51
709	909	5.065988	TCAGTAAAGTTCTTTTGGTGACTGC	59.934	40.000	14.89	0.00	34.13	4.40
710	910	4.947388	AGTAAAGTTCTTTTGGTGACTGCA	59.053	37.500	3.12	0.00	0.00	4.41
711	911	5.594317	AGTAAAGTTCTTTTGGTGACTGCAT	59.406	36.000	3.12	0.00	0.00	3.96
712	912	6.770785	AGTAAAGTTCTTTTGGTGACTGCATA	59.229	34.615	3.12	0.00	0.00	3.14
713	913	6.655078	AAAGTTCTTTTGGTGACTGCATAT	57.345	33.333	0.00	0.00	0.00	1.78
714	914	5.633830	AGTTCTTTTGGTGACTGCATATG	57.366	39.130	0.00	0.00	0.00	1.78
822	1022	6.145534	GCAAAATAAGTTTGGGCTACTGTTTC	59.854	38.462	2.81	0.00	45.79	2.78
823	1023	5.622770	AATAAGTTTGGGCTACTGTTTCG	57.377	39.130	0.00	0.00	0.00	3.46
842	1042	4.159377	TCGCAGCTTCCTAATTGTTTTG	57.841	40.909	0.00	0.00	0.00	2.44
854	1054	8.801882	TCCTAATTGTTTTGTTCCATACTAGG	57.198	34.615	0.00	0.00	0.00	3.02
855	1055	8.607713	TCCTAATTGTTTTGTTCCATACTAGGA	58.392	33.333	0.00	0.00	35.41	2.94
856	1056	9.238368	CCTAATTGTTTTGTTCCATACTAGGAA	57.762	33.333	0.00	0.00	45.12	3.36
926	1132	6.985117	TCTTCTTGCTTGAATTTGTGCTATT	58.015	32.000	0.00	0.00	0.00	1.73
978	1192	7.665559	ACTTTCATTACACAATCTTTAGGAGCA	59.334	33.333	0.00	0.00	0.00	4.26
981	1195	8.044060	TCATTACACAATCTTTAGGAGCAAAG	57.956	34.615	0.00	0.00	36.95	2.77
989	1203	4.938080	TCTTTAGGAGCAAAGATAGCGAG	58.062	43.478	0.00	0.00	39.13	5.03
1034	1248	8.345724	ACTCATGCATCTGAAGAAAATAACTT	57.654	30.769	0.00	0.00	0.00	2.66
1122	1336	3.742786	CAACGGTGGTCACGAAAATATG	58.257	45.455	0.00	0.00	34.93	1.78
1252	1466	1.337823	CCCTGGAAGTCAGTAACGGTG	60.338	57.143	0.00	0.00	41.83	4.94
1286	1500	3.051081	AGATGCACACAAGGAGAAGTC	57.949	47.619	0.00	0.00	0.00	3.01
1307	1521	1.607178	CCCAAGCAGCCACATTGGA	60.607	57.895	11.83	0.00	45.19	3.53
1384	1598	7.016153	TCACAGGTATTGGTAAAGTCTCATT	57.984	36.000	0.00	0.00	0.00	2.57
1496	1710	2.284699	CTCCGGGAAGGGTCAGGT	60.285	66.667	0.00	0.00	41.52	4.00
1596	1810	8.462016	GCTGTAAAACCAAAAGTGATAGATGAT	58.538	33.333	0.00	0.00	0.00	2.45
1907	2208	5.596836	TTCCACAATGCAAAGAAGAACTT	57.403	34.783	0.00	0.00	40.98	2.66
1949	2250	3.323979	AGTCACGGGTACTTGATGAACTT	59.676	43.478	0.00	0.00	0.00	2.66
1961	2262	9.909644	GTACTTGATGAACTTGAGACTACTAAA	57.090	33.333	0.00	0.00	0.00	1.85
2045	2346	0.321021	AGGACTCTGAGCTTGCACAG	59.679	55.000	12.61	12.61	35.72	3.66
2129	2430	1.508632	TGGAAGTCGCGAAAGAAAGG	58.491	50.000	12.06	0.00	0.00	3.11
2220	2521	5.813157	GCTACCTTAGTCAATGAAAGAGACC	59.187	44.000	0.00	0.00	32.82	3.85
2369	2670	2.230508	TGCTGAAGAACGTAGAATCGGT	59.769	45.455	0.00	0.00	34.94	4.69
2370	2671	3.441222	TGCTGAAGAACGTAGAATCGGTA	59.559	43.478	0.00	0.00	34.94	4.02
2409	2710	1.481871	AGATTGCCTTGCTTGGGATG	58.518	50.000	0.00	0.00	0.00	3.51
2600	2901	3.260740	CAAGGAGCATGAGTCTGAAGAC	58.739	50.000	0.00	2.06	45.08	3.01
3129	3430	0.178981	AGAAAGCAAAGAGGCCAGCA	60.179	50.000	5.01	0.00	0.00	4.41
3380	3681	0.826256	GGGCAAACGAGGGGAAACTT	60.826	55.000	0.00	0.00	0.00	2.66
3383	3684	1.318576	CAAACGAGGGGAAACTTGCT	58.681	50.000	0.00	0.00	0.00	3.91
3410	3711	2.877300	GCAGCAACTGAGGAAATGGAGA	60.877	50.000	0.00	0.00	32.44	3.71
3446	3747	1.993369	GCCGGAAAATTCAGGAGGCG	61.993	60.000	15.25	0.00	44.03	5.52
3449	3750	0.965363	GGAAAATTCAGGAGGCGGCA	60.965	55.000	13.08	0.00	0.00	5.69
3485	3786	2.555227	CCCTGTGAGTAGCCCATTTGTT	60.555	50.000	0.00	0.00	0.00	2.83
3518	3819	1.195115	AAGAGCAGGATTCACGGCTA	58.805	50.000	0.00	0.00	36.59	3.93
3626	3927	1.590792	GTCGAGAAATACCCCGGCG	60.591	63.158	0.00	0.00	0.00	6.46
3654	3955	8.706322	AACATAAGGAAACAGGTCATAAAAGT	57.294	30.769	0.00	0.00	0.00	2.66
3656	3957	7.724061	ACATAAGGAAACAGGTCATAAAAGTGT	59.276	33.333	0.00	0.00	0.00	3.55
3748	4049	9.485591	CTAAGCTGTAATTTGTTGGTATAAACG	57.514	33.333	0.00	0.00	32.47	3.60
3883	4595	6.870769	AGGACAATGCCTCTTTTAATTGATG	58.129	36.000	0.00	0.00	34.75	3.07
3884	4596	6.044682	GGACAATGCCTCTTTTAATTGATGG	58.955	40.000	0.00	0.00	34.75	3.51
3885	4597	5.981174	ACAATGCCTCTTTTAATTGATGGG	58.019	37.500	0.00	0.00	34.75	4.00
3886	4598	5.484998	ACAATGCCTCTTTTAATTGATGGGT	59.515	36.000	0.00	0.00	34.75	4.51
3887	4599	6.013466	ACAATGCCTCTTTTAATTGATGGGTT	60.013	34.615	0.00	0.00	34.75	4.11
3888	4600	6.625532	ATGCCTCTTTTAATTGATGGGTTT	57.374	33.333	0.00	0.00	0.00	3.27
3889	4601	6.432403	TGCCTCTTTTAATTGATGGGTTTT	57.568	33.333	0.00	0.00	0.00	2.43
3890	4602	7.546250	TGCCTCTTTTAATTGATGGGTTTTA	57.454	32.000	0.00	0.00	0.00	1.52
3891	4603	7.967908	TGCCTCTTTTAATTGATGGGTTTTAA	58.032	30.769	0.00	0.00	0.00	1.52
3892	4604	8.601546	TGCCTCTTTTAATTGATGGGTTTTAAT	58.398	29.630	0.00	0.00	0.00	1.40
3893	4605	9.448438	GCCTCTTTTAATTGATGGGTTTTAATT	57.552	29.630	0.00	0.00	0.00	1.40
3903	4615	7.986553	TGATGGGTTTTAATTGATGGGTTAT	57.013	32.000	0.00	0.00	0.00	1.89
3922	4634	9.771534	TGGGTTATAATTCTTTTCTGTTTTTGG	57.228	29.630	0.00	0.00	0.00	3.28
3923	4635	8.717821	GGGTTATAATTCTTTTCTGTTTTTGGC	58.282	33.333	0.00	0.00	0.00	4.52
3924	4636	8.432359	GGTTATAATTCTTTTCTGTTTTTGGCG	58.568	33.333	0.00	0.00	0.00	5.69
3925	4637	8.974408	GTTATAATTCTTTTCTGTTTTTGGCGT	58.026	29.630	0.00	0.00	0.00	5.68
3927	4639	8.742554	ATAATTCTTTTCTGTTTTTGGCGTAG	57.257	30.769	0.00	0.00	0.00	3.51
3928	4640	5.570234	TTCTTTTCTGTTTTTGGCGTAGT	57.430	34.783	0.00	0.00	0.00	2.73
3929	4641	5.164606	TCTTTTCTGTTTTTGGCGTAGTC	57.835	39.130	0.00	0.00	0.00	2.59
3930	4642	3.974871	TTTCTGTTTTTGGCGTAGTCC	57.025	42.857	0.00	0.00	0.00	3.85
3931	4643	2.922740	TCTGTTTTTGGCGTAGTCCT	57.077	45.000	0.00	0.00	0.00	3.85
3932	4644	2.762745	TCTGTTTTTGGCGTAGTCCTC	58.237	47.619	0.00	0.00	0.00	3.71
3933	4645	1.804748	CTGTTTTTGGCGTAGTCCTCC	59.195	52.381	0.00	0.00	0.00	4.30
3934	4646	1.418637	TGTTTTTGGCGTAGTCCTCCT	59.581	47.619	0.00	0.00	0.00	3.69
3935	4647	2.158726	TGTTTTTGGCGTAGTCCTCCTT	60.159	45.455	0.00	0.00	0.00	3.36
4200	4930	4.344865	GGCCACCGTCACCATGGT	62.345	66.667	13.00	13.00	43.46	3.55
4241	4971	5.128827	TCGAGCCACAAGAAGAAGGTAATAT	59.871	40.000	0.00	0.00	0.00	1.28
4386	5124	4.783227	TCCTCAAGAACCCTAACTGCTAAT	59.217	41.667	0.00	0.00	0.00	1.73
4557	5313	4.373116	GCGCGTTCACCCTGGAGA	62.373	66.667	8.43	0.00	0.00	3.71

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
199	216	3.454375	ACCTAGCACGGTGAAATATTCG	58.546	45.455	13.29	0.00	35.52	3.34
223	240	4.494855	GCGCTTGAGATTTCATGACTAACC	60.495	45.833	0.00	0.00	32.27	2.85
519	719	6.316319	CAACCAAATAAAGCATGCCATTTTC	58.684	36.000	15.66	0.00	0.00	2.29
585	785	1.681264	GCACCCAACCTTATGTATGCC	59.319	52.381	0.00	0.00	0.00	4.40
669	869	2.032681	GATCCCGCCCTACATGCC	59.967	66.667	0.00	0.00	0.00	4.40
681	881	5.768164	TCACCAAAAGAACTTTACTGATCCC	59.232	40.000	0.14	0.00	31.63	3.85
712	912	8.656845	ATAGATGACTATGTGCAGCAAATGCAT	61.657	37.037	8.50	8.86	46.68	3.96
714	914	5.048921	ATAGATGACTATGTGCAGCAAATGC	60.049	40.000	8.50	0.00	44.76	3.56
717	917	5.882000	ACAATAGATGACTATGTGCAGCAAA	59.118	36.000	0.00	0.00	39.04	3.68
822	1022	3.900941	ACAAAACAATTAGGAAGCTGCG	58.099	40.909	0.00	0.00	0.00	5.18
823	1023	4.686091	GGAACAAAACAATTAGGAAGCTGC	59.314	41.667	0.00	0.00	0.00	5.25
861	1061	7.217200	TGTGGGAAGTATCATTAGCATTAGAC	58.783	38.462	0.00	0.00	0.00	2.59
863	1063	7.663081	ACATGTGGGAAGTATCATTAGCATTAG	59.337	37.037	0.00	0.00	0.00	1.73
866	1066	5.945310	ACATGTGGGAAGTATCATTAGCAT	58.055	37.500	0.00	0.00	0.00	3.79
869	1071	6.425114	GCACTACATGTGGGAAGTATCATTAG	59.575	42.308	14.25	0.00	46.27	1.73
875	1077	3.519510	ACTGCACTACATGTGGGAAGTAT	59.480	43.478	14.25	0.00	46.27	2.12
926	1132	4.944619	ATCATGCTCCAAGAGACGAATA	57.055	40.909	0.00	0.00	0.00	1.75
978	1192	1.694696	CCTTAGGCCCTCGCTATCTTT	59.305	52.381	0.00	0.00	34.44	2.52
981	1195	1.339097	TTCCTTAGGCCCTCGCTATC	58.661	55.000	0.00	0.00	34.44	2.08
988	1202	1.512735	GACTCCATTCCTTAGGCCCT	58.487	55.000	0.00	0.00	0.00	5.19
989	1203	0.106894	CGACTCCATTCCTTAGGCCC	59.893	60.000	0.00	0.00	0.00	5.80
1034	1248	3.964411	TCTACCGGAGATGACTCTTTCA	58.036	45.455	9.46	0.00	42.28	2.69
1122	1336	4.151157	GCTGACTTTTCCATGTTTGCATTC	59.849	41.667	0.00	0.00	31.99	2.67
1191	1405	8.884124	AAATATCTGGATTTTCTGAACCTTCA	57.116	30.769	0.00	0.00	35.57	3.02
1224	1438	1.142870	CTGACTTCCAGGGTTGGTGAA	59.857	52.381	0.00	0.00	45.26	3.18
1252	1466	9.229784	CTTGTGTGCATCTATATTTTTGTGATC	57.770	33.333	0.00	0.00	0.00	2.92
1286	1500	2.280552	AATGTGGCTGCTTGGGCTG	61.281	57.895	0.00	0.00	39.59	4.85
1307	1521	5.744300	GCAACTGACAGGCCATTAGAGATAT	60.744	44.000	5.01	0.00	0.00	1.63
1384	1598	1.133216	GTCGTGCTCTGCTACATCAGA	59.867	52.381	0.00	0.00	40.50	3.27
1496	1710	7.558081	CGGGATATACTGAAGAGGAATGATCTA	59.442	40.741	0.00	0.00	0.00	1.98
1596	1810	3.020984	ACTTTCGGGTTTTGCTTCTGAA	58.979	40.909	0.00	0.00	0.00	3.02
1834	2135	1.321743	GTATGAACTTGCGTCTCTGCG	59.678	52.381	0.00	0.00	37.81	5.18
1907	2208	2.124983	GCCATCTCTGCGGCTTCA	60.125	61.111	0.00	0.00	45.29	3.02
1928	2229	3.314541	AGTTCATCAAGTACCCGTGAC	57.685	47.619	0.00	0.00	31.79	3.67
1961	2262	8.209584	TCATGCTTGAGCTCTTCTATAATTCTT	58.790	33.333	16.19	0.00	42.66	2.52
1979	2280	2.555325	TGCTTTCTCCAGTTCATGCTTG	59.445	45.455	0.00	0.00	0.00	4.01
2045	2346	1.888512	TCAATTTCTTGCACCCTGAGC	59.111	47.619	0.00	0.00	32.11	4.26
2129	2430	1.052287	CGGCAACAGATTTTTCGTGC	58.948	50.000	0.00	0.00	0.00	5.34
2220	2521	1.167851	TCAGCCCTTTTGATTGCTCG	58.832	50.000	0.00	0.00	30.08	5.03
2369	2670	1.890489	TGCTCTTTCGCCAGTACTGTA	59.110	47.619	21.18	4.04	0.00	2.74
2370	2671	0.679505	TGCTCTTTCGCCAGTACTGT	59.320	50.000	21.18	0.00	0.00	3.55
2409	2710	1.003233	GTGCCTGGACCAACTCTCC	60.003	63.158	0.00	0.00	0.00	3.71
2600	2901	3.190079	TGAGCTGCTAATTTGTCTAGCG	58.810	45.455	0.15	0.00	43.95	4.26
3410	3711	1.523258	GCGCTGCTCATGGTCAGAT	60.523	57.895	16.01	0.00	32.26	2.90
3449	3750	1.228033	AGGGTTAACCGCACGCTTT	60.228	52.632	18.39	0.00	46.96	3.51
3485	3786	3.198635	CCTGCTCTTTCAGGTAAGGATCA	59.801	47.826	0.00	0.00	46.59	2.92
3518	3819	0.979665	AGCTACTGCCTGACATGTGT	59.020	50.000	1.15	0.00	40.80	3.72
3626	3927	4.846779	TGACCTGTTTCCTTATGTTTGC	57.153	40.909	0.00	0.00	0.00	3.68
3654	3955	0.450583	GTACAGCTCGTCGATCCACA	59.549	55.000	0.00	0.00	0.00	4.17
3656	3957	1.389555	ATGTACAGCTCGTCGATCCA	58.610	50.000	0.33	0.00	0.00	3.41
3709	4010	7.817418	ATTACAGCTTAGAACCAGAAACAAA	57.183	32.000	0.00	0.00	0.00	2.83
3748	4049	1.931635	TGTGGAAAAATACCCCCTGC	58.068	50.000	0.00	0.00	0.00	4.85
3865	4577	6.625532	AAACCCATCAATTAAAAGAGGCAT	57.374	33.333	0.00	0.00	0.00	4.40
3876	4588	7.269522	ACCCATCAATTAAAACCCATCAATT	57.730	32.000	0.00	0.00	0.00	2.32
3877	4589	6.889595	ACCCATCAATTAAAACCCATCAAT	57.110	33.333	0.00	0.00	0.00	2.57
3903	4615	7.708998	ACTACGCCAAAAACAGAAAAGAATTA	58.291	30.769	0.00	0.00	0.00	1.40
3908	4620	4.036380	AGGACTACGCCAAAAACAGAAAAG	59.964	41.667	0.00	0.00	0.00	2.27
3909	4621	3.949113	AGGACTACGCCAAAAACAGAAAA	59.051	39.130	0.00	0.00	0.00	2.29
3910	4622	3.547746	AGGACTACGCCAAAAACAGAAA	58.452	40.909	0.00	0.00	0.00	2.52
3911	4623	3.135994	GAGGACTACGCCAAAAACAGAA	58.864	45.455	0.00	0.00	0.00	3.02
3912	4624	2.549349	GGAGGACTACGCCAAAAACAGA	60.549	50.000	0.00	0.00	39.13	3.41
3913	4625	1.804748	GGAGGACTACGCCAAAAACAG	59.195	52.381	0.00	0.00	39.13	3.16
3914	4626	1.418637	AGGAGGACTACGCCAAAAACA	59.581	47.619	0.00	0.00	42.23	2.83
3915	4627	2.180432	AGGAGGACTACGCCAAAAAC	57.820	50.000	0.00	0.00	42.23	2.43
3916	4628	2.370849	AGAAGGAGGACTACGCCAAAAA	59.629	45.455	0.00	0.00	42.23	1.94
3917	4629	1.975680	AGAAGGAGGACTACGCCAAAA	59.024	47.619	0.00	0.00	42.23	2.44
3918	4630	1.275291	CAGAAGGAGGACTACGCCAAA	59.725	52.381	0.00	0.00	42.23	3.28
3919	4631	0.895530	CAGAAGGAGGACTACGCCAA	59.104	55.000	0.00	0.00	42.23	4.52
3920	4632	0.251653	ACAGAAGGAGGACTACGCCA	60.252	55.000	0.00	0.00	42.23	5.69
3921	4633	0.896226	AACAGAAGGAGGACTACGCC	59.104	55.000	0.00	0.00	39.70	5.68
3922	4634	2.099427	CCTAACAGAAGGAGGACTACGC	59.901	54.545	0.00	0.00	39.15	4.42
3923	4635	3.618351	TCCTAACAGAAGGAGGACTACG	58.382	50.000	0.00	0.00	40.86	3.51
3924	4636	5.202004	TCATCCTAACAGAAGGAGGACTAC	58.798	45.833	3.28	0.00	46.61	2.73
3925	4637	5.467668	TCATCCTAACAGAAGGAGGACTA	57.532	43.478	3.28	0.00	46.61	2.59
3926	4638	4.338795	TCATCCTAACAGAAGGAGGACT	57.661	45.455	3.28	0.00	46.61	3.85
4103	4817	1.903978	TAGGGGATGTAGGTGGGGCA	61.904	60.000	0.00	0.00	0.00	5.36
4104	4818	1.074014	TAGGGGATGTAGGTGGGGC	60.074	63.158	0.00	0.00	0.00	5.80
4241	4971	1.369692	CGGCAACAGTGGTGGTAGA	59.630	57.895	10.86	0.00	0.00	2.59

Based at the University of Bristol with support from BBSRC.

AutoCloner maintained by Alex Coulton.