AutoCloner

Multiple sequence alignment - TraesCS2A01G088600

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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	TraesCS2A01G088600	chr2A	100.000	3627	0	0	390	4016	41991956	41995582	0.000000e+00	6698
1	TraesCS2A01G088600	chr2A	94.575	1272	55	6	1803	3064	41756841	41755574	0.000000e+00	1954
2	TraesCS2A01G088600	chr2A	96.146	934	23	3	3085	4016	41999971	42000893	0.000000e+00	1513
3	TraesCS2A01G088600	chr2A	91.640	634	40	4	879	1508	41760514	41759890	0.000000e+00	865
4	TraesCS2A01G088600	chr2A	82.353	918	139	15	1818	2721	758469821	758468913	0.000000e+00	776
5	TraesCS2A01G088600	chr2A	85.163	674	91	4	1000	1667	758449707	758449037	0.000000e+00	682
6	TraesCS2A01G088600	chr2A	96.030	403	16	0	2616	3018	41745320	41744918	0.000000e+00	656
7	TraesCS2A01G088600	chr2A	100.000	174	0	0	1	174	41991567	41991740	5.010000e-84	322
8	TraesCS2A01G088600	chr2A	92.806	139	8	2	2843	2981	41745877	41745741	2.450000e-47	200
9	TraesCS2A01G088600	chr2D	95.152	2702	94	15	390	3070	37207450	37210135	0.000000e+00	4229
10	TraesCS2A01G088600	chr2D	92.620	1599	95	14	879	2468	37074615	37073031	0.000000e+00	2278
11	TraesCS2A01G088600	chr2D	91.828	1603	92	12	879	2468	37055986	37054410	0.000000e+00	2198
12	TraesCS2A01G088600	chr2D	94.403	536	28	2	2534	3069	37073038	37072505	0.000000e+00	822
13	TraesCS2A01G088600	chr2D	94.539	531	25	3	2534	3064	37054417	37053891	0.000000e+00	817
14	TraesCS2A01G088600	chr2D	93.125	160	9	1	17	174	37207254	37207413	2.410000e-57	233
15	TraesCS2A01G088600	chr2B	94.213	2713	99	30	390	3078	64855483	64858161	0.000000e+00	4087
16	TraesCS2A01G088600	chr2B	91.865	1598	95	21	879	2468	64778734	64777164	0.000000e+00	2198
17	TraesCS2A01G088600	chr2B	93.974	531	28	3	2534	3064	64777171	64776645	0.000000e+00	800
18	TraesCS2A01G088600	chr2B	87.330	663	78	3	1818	2474	770766834	770766172	0.000000e+00	754
19	TraesCS2A01G088600	chr2B	85.757	674	87	4	1000	1667	770767515	770766845	0.000000e+00	704
20	TraesCS2A01G088600	chr2B	88.715	319	35	1	2534	2852	770766095	770765778	4.870000e-104	388
21	TraesCS2A01G088600	chr2B	88.889	162	14	3	16	174	64855288	64855448	3.170000e-46	196
22	TraesCS2A01G088600	chr2B	87.500	144	14	3	2927	3070	64773140	64773001	3.210000e-36	163
23	TraesCS2A01G088600	chr3A	94.783	575	27	3	3444	4016	27595597	27596170	0.000000e+00	893
24	TraesCS2A01G088600	chr3A	94.241	573	32	1	3445	4016	595064234	595064806	0.000000e+00	874
25	TraesCS2A01G088600	chr5A	94.444	576	29	3	3444	4016	18859411	18859986	0.000000e+00	883
26	TraesCS2A01G088600	chr5D	94.580	572	25	6	3451	4016	547437283	547436712	0.000000e+00	880
27	TraesCS2A01G088600	chr7B	94.271	576	30	3	3444	4016	648698816	648698241	0.000000e+00	878
28	TraesCS2A01G088600	chr7A	94.097	576	31	3	3444	4016	19543362	19542787	0.000000e+00	872
29	TraesCS2A01G088600	chr6B	94.087	575	32	2	3444	4016	75953980	75953406	0.000000e+00	872
30	TraesCS2A01G088600	chr1A	93.913	575	33	2	3444	4016	497500779	497500205	0.000000e+00	867
31	TraesCS2A01G088600	chrUn	89.041	657	66	3	1818	2468	17299182	17298526	0.000000e+00	809
32	TraesCS2A01G088600	chrUn	85.693	678	91	3	1000	1671	17299866	17299189	0.000000e+00	710
33	TraesCS2A01G088600	chrUn	89.623	318	32	1	2534	2851	17298533	17298217	1.740000e-108	403
34	TraesCS2A01G088600	chr7D	96.636	327	10	1	3088	3413	402671721	402672047	3.530000e-150	542
35	TraesCS2A01G088600	chr7D	96.341	328	11	1	3088	3414	460639838	460640165	4.570000e-149	538
36	TraesCS2A01G088600	chr7D	96.024	327	12	1	3088	3413	505909771	505910097	7.640000e-147	531
37	TraesCS2A01G088600	chr7D	95.482	332	14	1	3088	3418	464035197	464034866	2.750000e-146	529
38	TraesCS2A01G088600	chr4D	96.364	330	11	1	3088	3416	488740532	488740861	3.530000e-150	542
39	TraesCS2A01G088600	chr4D	95.770	331	11	3	3088	3416	92080307	92080636	7.640000e-147	531
40	TraesCS2A01G088600	chr4A	95.796	333	12	2	3085	3415	705057547	705057879	1.640000e-148	536
41	TraesCS2A01G088600	chr3B	95.482	332	12	3	3085	3415	19901962	19902291	9.890000e-146	527

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	TraesCS2A01G088600	chr2A	41991567	41995582	4015	False	3510.000000	6698	100.000000	1	4016	2	chr2A.!!$F2	4015
1	TraesCS2A01G088600	chr2A	41999971	42000893	922	False	1513.000000	1513	96.146000	3085	4016	1	chr2A.!!$F1	931
2	TraesCS2A01G088600	chr2A	41755574	41760514	4940	True	1409.500000	1954	93.107500	879	3064	2	chr2A.!!$R4	2185
3	TraesCS2A01G088600	chr2A	758468913	758469821	908	True	776.000000	776	82.353000	1818	2721	1	chr2A.!!$R2	903
4	TraesCS2A01G088600	chr2A	758449037	758449707	670	True	682.000000	682	85.163000	1000	1667	1	chr2A.!!$R1	667
5	TraesCS2A01G088600	chr2A	41744918	41745877	959	True	428.000000	656	94.418000	2616	3018	2	chr2A.!!$R3	402
6	TraesCS2A01G088600	chr2D	37207254	37210135	2881	False	2231.000000	4229	94.138500	17	3070	2	chr2D.!!$F1	3053
7	TraesCS2A01G088600	chr2D	37072505	37074615	2110	True	1550.000000	2278	93.511500	879	3069	2	chr2D.!!$R2	2190
8	TraesCS2A01G088600	chr2D	37053891	37055986	2095	True	1507.500000	2198	93.183500	879	3064	2	chr2D.!!$R1	2185
9	TraesCS2A01G088600	chr2B	64855288	64858161	2873	False	2141.500000	4087	91.551000	16	3078	2	chr2B.!!$F1	3062
10	TraesCS2A01G088600	chr2B	64773001	64778734	5733	True	1053.666667	2198	91.113000	879	3070	3	chr2B.!!$R1	2191
11	TraesCS2A01G088600	chr2B	770765778	770767515	1737	True	615.333333	754	87.267333	1000	2852	3	chr2B.!!$R2	1852
12	TraesCS2A01G088600	chr3A	27595597	27596170	573	False	893.000000	893	94.783000	3444	4016	1	chr3A.!!$F1	572
13	TraesCS2A01G088600	chr3A	595064234	595064806	572	False	874.000000	874	94.241000	3445	4016	1	chr3A.!!$F2	571
14	TraesCS2A01G088600	chr5A	18859411	18859986	575	False	883.000000	883	94.444000	3444	4016	1	chr5A.!!$F1	572
15	TraesCS2A01G088600	chr5D	547436712	547437283	571	True	880.000000	880	94.580000	3451	4016	1	chr5D.!!$R1	565
16	TraesCS2A01G088600	chr7B	648698241	648698816	575	True	878.000000	878	94.271000	3444	4016	1	chr7B.!!$R1	572
17	TraesCS2A01G088600	chr7A	19542787	19543362	575	True	872.000000	872	94.097000	3444	4016	1	chr7A.!!$R1	572
18	TraesCS2A01G088600	chr6B	75953406	75953980	574	True	872.000000	872	94.087000	3444	4016	1	chr6B.!!$R1	572
19	TraesCS2A01G088600	chr1A	497500205	497500779	574	True	867.000000	867	93.913000	3444	4016	1	chr1A.!!$R1	572
20	TraesCS2A01G088600	chrUn	17298217	17299866	1649	True	640.666667	809	88.119000	1000	2851	3	chrUn.!!$R1	1851

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
982	1034	0.379669	CCTCGCGTACGTACCTCATT	59.620	55.0	19.67	0.0	41.18	2.57	F
1560	4420	0.254178	AGCAGATCGACAAGGCCATT	59.746	50.0	5.01	0.0	0.00	3.16	F

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability	Orientation
1877	4752	2.047274	ACCATCACCGGCTTCACG	60.047	61.111	0.00	0.0	0.0	4.35	R
3035	6026	4.020039	TGCCTGGCTCAAATCATCAAAAAT	60.020	37.500	21.03	0.0	0.0	1.82	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
135	137	2.534939	GCACGCGTACATCTTCACATTC	60.535	50.000	13.44	0.00	0.00	2.67
156	160	4.441792	TCTGTGCATGCATATAGTTTCGT	58.558	39.130	25.64	0.00	0.00	3.85
158	162	4.187694	TGTGCATGCATATAGTTTCGTGA	58.812	39.130	25.64	0.00	0.00	4.35
591	610	2.368875	ACGTCCTCACTCATGGAACTTT	59.631	45.455	0.00	0.00	33.72	2.66
592	611	3.181454	ACGTCCTCACTCATGGAACTTTT	60.181	43.478	0.00	0.00	33.72	2.27
593	612	3.433615	CGTCCTCACTCATGGAACTTTTC	59.566	47.826	0.00	0.00	33.72	2.29
609	634	7.117092	TGGAACTTTTCTTTTTGAAAGGAAACG	59.883	33.333	11.71	12.24	44.40	3.60
640	670	7.920682	GCTATTTTGTGAAGAAGAAGAAAACCA	59.079	33.333	0.00	0.00	0.00	3.67
733	768	5.026038	TCCGTATTAACACCCGATTCAAT	57.974	39.130	0.00	0.00	0.00	2.57
735	770	5.524646	TCCGTATTAACACCCGATTCAATTC	59.475	40.000	0.00	0.00	0.00	2.17
736	771	5.294799	CCGTATTAACACCCGATTCAATTCA	59.705	40.000	0.00	0.00	0.00	2.57
759	794	4.142687	ACAAACGAAATAATGCCTCTTCCG	60.143	41.667	0.00	0.00	0.00	4.30
760	795	3.536956	ACGAAATAATGCCTCTTCCGA	57.463	42.857	0.00	0.00	0.00	4.55
761	796	3.195661	ACGAAATAATGCCTCTTCCGAC	58.804	45.455	0.00	0.00	0.00	4.79
762	797	3.118738	ACGAAATAATGCCTCTTCCGACT	60.119	43.478	0.00	0.00	0.00	4.18
763	798	3.491267	CGAAATAATGCCTCTTCCGACTC	59.509	47.826	0.00	0.00	0.00	3.36
946	981	4.081917	TCAAACCACCCAAGAAAACAGTTC	60.082	41.667	0.00	0.00	0.00	3.01
980	1032	1.079197	TCCTCGCGTACGTACCTCA	60.079	57.895	19.67	2.82	41.18	3.86
981	1033	0.462581	TCCTCGCGTACGTACCTCAT	60.463	55.000	19.67	0.00	41.18	2.90
982	1034	0.379669	CCTCGCGTACGTACCTCATT	59.620	55.000	19.67	0.00	41.18	2.57
983	1035	1.596464	CCTCGCGTACGTACCTCATTC	60.596	57.143	19.67	2.16	41.18	2.67
984	1036	1.063027	CTCGCGTACGTACCTCATTCA	59.937	52.381	19.67	0.00	41.18	2.57
1107	1169	4.698625	ACCTTCGTCGGCTCCCCT	62.699	66.667	0.00	0.00	0.00	4.79
1108	1170	3.391382	CCTTCGTCGGCTCCCCTT	61.391	66.667	0.00	0.00	0.00	3.95
1109	1171	2.184579	CTTCGTCGGCTCCCCTTC	59.815	66.667	0.00	0.00	0.00	3.46
1272	1334	4.796231	CTCAACGCCGGCTACGCT	62.796	66.667	26.68	0.00	39.22	5.07
1560	4420	0.254178	AGCAGATCGACAAGGCCATT	59.746	50.000	5.01	0.00	0.00	3.16
1681	4541	1.156736	CCTCGCACCAAGGTTTGTAG	58.843	55.000	0.00	0.00	0.00	2.74
1683	4543	0.759959	TCGCACCAAGGTTTGTAGGA	59.240	50.000	0.00	0.00	0.00	2.94
1684	4544	1.156736	CGCACCAAGGTTTGTAGGAG	58.843	55.000	0.00	0.00	0.00	3.69
1685	4545	1.542547	CGCACCAAGGTTTGTAGGAGT	60.543	52.381	0.00	0.00	0.00	3.85
1686	4546	2.289195	CGCACCAAGGTTTGTAGGAGTA	60.289	50.000	0.00	0.00	0.00	2.59
2571	5557	2.279517	CAGTACGGCTCCATCGGC	60.280	66.667	0.00	0.00	0.00	5.54
2658	5644	2.978824	GACGGCAGCTTCCAGGTA	59.021	61.111	2.54	0.00	0.00	3.08
2940	5926	2.672996	GTGGTGGCGCACAAGGAT	60.673	61.111	10.83	0.00	35.86	3.24
3020	6011	1.375523	CCAACCCGCAGTAGACACC	60.376	63.158	0.00	0.00	0.00	4.16
3026	6017	0.179134	CCGCAGTAGACACCAGTAGC	60.179	60.000	0.00	0.00	0.00	3.58
3027	6018	0.526211	CGCAGTAGACACCAGTAGCA	59.474	55.000	0.00	0.00	0.00	3.49
3029	6020	1.819288	GCAGTAGACACCAGTAGCAGA	59.181	52.381	0.00	0.00	0.00	4.26
3030	6021	2.428890	GCAGTAGACACCAGTAGCAGAT	59.571	50.000	0.00	0.00	0.00	2.90
3032	6023	3.951037	CAGTAGACACCAGTAGCAGATCT	59.049	47.826	0.00	0.00	0.00	2.75
3033	6024	5.126779	CAGTAGACACCAGTAGCAGATCTA	58.873	45.833	0.00	0.00	0.00	1.98
3034	6025	5.238432	CAGTAGACACCAGTAGCAGATCTAG	59.762	48.000	0.00	0.00	0.00	2.43
3035	6026	4.511786	AGACACCAGTAGCAGATCTAGA	57.488	45.455	0.00	0.00	0.00	2.43
3053	9678	8.848182	AGATCTAGATTTTTGATGATTTGAGCC	58.152	33.333	6.70	0.00	0.00	4.70
3078	9703	7.227512	CCAGGCATTTTCGATTTACTAGAATCT	59.772	37.037	0.00	0.00	34.58	2.40
3079	9704	8.066595	CAGGCATTTTCGATTTACTAGAATCTG	58.933	37.037	0.00	0.00	34.58	2.90
3080	9705	7.770897	AGGCATTTTCGATTTACTAGAATCTGT	59.229	33.333	0.00	0.00	34.58	3.41
3081	9706	8.398665	GGCATTTTCGATTTACTAGAATCTGTT	58.601	33.333	0.00	0.00	34.58	3.16
3082	9707	9.774742	GCATTTTCGATTTACTAGAATCTGTTT	57.225	29.630	0.00	0.00	34.58	2.83
3086	9711	9.923143	TTTCGATTTACTAGAATCTGTTTCTCA	57.077	29.630	4.34	0.00	43.75	3.27
3287	9913	4.102524	AGAGGGTGTGTGTGTGAGAATTTA	59.897	41.667	0.00	0.00	0.00	1.40
3291	9917	5.240623	GGGTGTGTGTGTGAGAATTTAATGA	59.759	40.000	0.00	0.00	0.00	2.57
3412	10038	1.080025	GCACGGGCGTTCTTCTAGT	60.080	57.895	0.00	0.00	0.00	2.57
3413	10039	0.669625	GCACGGGCGTTCTTCTAGTT	60.670	55.000	0.00	0.00	0.00	2.24
3414	10040	1.403249	GCACGGGCGTTCTTCTAGTTA	60.403	52.381	0.00	0.00	0.00	2.24
3415	10041	2.737679	GCACGGGCGTTCTTCTAGTTAT	60.738	50.000	0.00	0.00	0.00	1.89
3416	10042	3.114065	CACGGGCGTTCTTCTAGTTATC	58.886	50.000	0.00	0.00	0.00	1.75
3417	10043	2.100418	ACGGGCGTTCTTCTAGTTATCC	59.900	50.000	0.00	0.00	0.00	2.59
3418	10044	2.100252	CGGGCGTTCTTCTAGTTATCCA	59.900	50.000	0.00	0.00	0.00	3.41
3419	10045	3.455327	GGGCGTTCTTCTAGTTATCCAC	58.545	50.000	0.00	0.00	0.00	4.02
3420	10046	3.132467	GGGCGTTCTTCTAGTTATCCACT	59.868	47.826	0.00	0.00	39.87	4.00
3421	10047	4.340381	GGGCGTTCTTCTAGTTATCCACTA	59.660	45.833	0.00	0.00	36.88	2.74
3422	10048	5.163478	GGGCGTTCTTCTAGTTATCCACTAA	60.163	44.000	0.00	0.00	37.54	2.24
3796	10424	2.562296	AGCCTAGATTTTCACCTGGGA	58.438	47.619	0.00	0.00	33.42	4.37
3966	10601	3.425713	CTTGCAGCACGGACGCAT	61.426	61.111	0.00	0.00	35.19	4.73
3980	10615	0.249120	ACGCATTGAATCCAGACCGA	59.751	50.000	0.00	0.00	0.00	4.69
3995	10630	1.410517	GACCGATGAGAGGATGCAGAA	59.589	52.381	0.00	0.00	0.00	3.02

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
5	6	9.883142	CAAGTTTCACTCTAAATCTCTATTCCT	57.117	33.333	0.00	0.00	0.00	3.36
6	7	9.877178	TCAAGTTTCACTCTAAATCTCTATTCC	57.123	33.333	0.00	0.00	0.00	3.01
106	108	2.096417	AGATGTACGCGTGCAACTTTTC	60.096	45.455	32.74	23.94	31.75	2.29
135	137	4.270808	TCACGAAACTATATGCATGCACAG	59.729	41.667	25.37	21.49	0.00	3.66
141	143	4.752101	GCCTCTTCACGAAACTATATGCAT	59.248	41.667	3.79	3.79	0.00	3.96
146	150	2.480759	GCCGCCTCTTCACGAAACTATA	60.481	50.000	0.00	0.00	0.00	1.31
156	160	4.920828	AAAAAGGCCGCCTCTTCA	57.079	50.000	13.72	0.00	30.89	3.02
546	565	4.322725	CCTGAAACTAGGTGCATCTACACA	60.323	45.833	1.47	0.66	42.55	3.72
591	610	5.119434	GCAACACGTTTCCTTTCAAAAAGAA	59.881	36.000	1.06	0.00	0.00	2.52
592	611	4.623595	GCAACACGTTTCCTTTCAAAAAGA	59.376	37.500	1.06	0.00	0.00	2.52
593	612	4.625311	AGCAACACGTTTCCTTTCAAAAAG	59.375	37.500	0.00	0.00	0.00	2.27
609	634	7.417612	TCTTCTTCTTCACAAAATAGCAACAC	58.582	34.615	0.00	0.00	0.00	3.32
733	768	5.957842	AGAGGCATTATTTCGTTTGTGAA	57.042	34.783	0.00	0.00	0.00	3.18
735	770	5.095490	GGAAGAGGCATTATTTCGTTTGTG	58.905	41.667	0.00	0.00	0.00	3.33
736	771	4.142687	CGGAAGAGGCATTATTTCGTTTGT	60.143	41.667	0.00	0.00	0.00	2.83
862	897	5.584649	TCAAGGACGGCAAGTAATAGAATTG	59.415	40.000	0.00	0.00	0.00	2.32
863	898	5.741011	TCAAGGACGGCAAGTAATAGAATT	58.259	37.500	0.00	0.00	0.00	2.17
946	981	2.279784	GAGCGATTGGGAGGCGAG	60.280	66.667	0.00	0.00	0.00	5.03
980	1032	2.104967	TGGTAGGTCGGTCGATTGAAT	58.895	47.619	0.00	0.00	0.00	2.57
981	1033	1.548081	TGGTAGGTCGGTCGATTGAA	58.452	50.000	0.00	0.00	0.00	2.69
982	1034	1.407618	CATGGTAGGTCGGTCGATTGA	59.592	52.381	0.00	0.00	0.00	2.57
983	1035	1.538204	CCATGGTAGGTCGGTCGATTG	60.538	57.143	2.57	0.00	0.00	2.67
984	1036	0.750850	CCATGGTAGGTCGGTCGATT	59.249	55.000	2.57	0.00	0.00	3.34
1407	1469	0.038892	TGCCGTAGTCGTTGGAGTTC	60.039	55.000	0.00	0.00	35.01	3.01
1560	4420	0.541998	TCTCCTTGAGAGCCGTGGAA	60.542	55.000	0.00	0.00	42.90	3.53
1683	4543	3.983044	AAAGAACGAAGGGAGCATACT	57.017	42.857	0.00	0.00	0.00	2.12
1684	4544	4.093556	CAGAAAAGAACGAAGGGAGCATAC	59.906	45.833	0.00	0.00	0.00	2.39
1685	4545	4.253685	CAGAAAAGAACGAAGGGAGCATA	58.746	43.478	0.00	0.00	0.00	3.14
1686	4546	3.077359	CAGAAAAGAACGAAGGGAGCAT	58.923	45.455	0.00	0.00	0.00	3.79
1760	4624	6.149973	CGTCAAATATATCTTCCCATGCATGT	59.850	38.462	24.58	8.14	0.00	3.21
1780	4655	2.478514	CACACGTCAATTCATCCGTCAA	59.521	45.455	0.00	0.00	0.00	3.18
1877	4752	2.047274	ACCATCACCGGCTTCACG	60.047	61.111	0.00	0.00	0.00	4.35
2408	5289	4.477975	CACGAGTCGCCCGTCTCC	62.478	72.222	13.59	0.00	38.29	3.71
3020	6011	8.883954	TCATCAAAAATCTAGATCTGCTACTG	57.116	34.615	5.51	0.00	0.00	2.74
3026	6017	9.666626	GCTCAAATCATCAAAAATCTAGATCTG	57.333	33.333	5.51	4.55	0.00	2.90
3027	6018	8.848182	GGCTCAAATCATCAAAAATCTAGATCT	58.152	33.333	5.51	0.00	0.00	2.75
3029	6020	8.529424	TGGCTCAAATCATCAAAAATCTAGAT	57.471	30.769	0.00	0.00	0.00	1.98
3030	6021	7.067859	CCTGGCTCAAATCATCAAAAATCTAGA	59.932	37.037	0.00	0.00	0.00	2.43
3032	6023	6.406177	GCCTGGCTCAAATCATCAAAAATCTA	60.406	38.462	12.43	0.00	0.00	1.98
3033	6024	5.626116	GCCTGGCTCAAATCATCAAAAATCT	60.626	40.000	12.43	0.00	0.00	2.40
3034	6025	4.569564	GCCTGGCTCAAATCATCAAAAATC	59.430	41.667	12.43	0.00	0.00	2.17
3035	6026	4.020039	TGCCTGGCTCAAATCATCAAAAAT	60.020	37.500	21.03	0.00	0.00	1.82
3053	9678	8.066595	CAGATTCTAGTAAATCGAAAATGCCTG	58.933	37.037	0.00	0.00	40.00	4.85
3078	9703	6.648192	ACATTGAAAACCCAAATGAGAAACA	58.352	32.000	1.89	0.00	0.00	2.83
3079	9704	8.831715	ATACATTGAAAACCCAAATGAGAAAC	57.168	30.769	1.89	0.00	0.00	2.78
3080	9705	9.487790	GAATACATTGAAAACCCAAATGAGAAA	57.512	29.630	1.89	0.00	0.00	2.52
3081	9706	8.869109	AGAATACATTGAAAACCCAAATGAGAA	58.131	29.630	1.89	0.00	0.00	2.87
3082	9707	8.421249	AGAATACATTGAAAACCCAAATGAGA	57.579	30.769	1.89	0.00	0.00	3.27
3111	9736	7.700656	AGAAACGGTGTTAAAAATGAGAAACAG	59.299	33.333	0.00	0.00	32.83	3.16
3796	10424	0.704813	ACCTCCCCTCCCCTGTTTTT	60.705	55.000	0.00	0.00	0.00	1.94
3852	10486	2.887568	CGGTGCATCGGCTCTGAC	60.888	66.667	12.68	0.00	41.33	3.51
3966	10601	2.432146	CCTCTCATCGGTCTGGATTCAA	59.568	50.000	0.00	0.00	0.00	2.69
3980	10615	3.181453	CCATCTGTTCTGCATCCTCTCAT	60.181	47.826	0.00	0.00	0.00	2.90
3995	10630	3.411517	CCGGCCCCTTCCATCTGT	61.412	66.667	0.00	0.00	0.00	3.41

Based at the University of Bristol with support from BBSRC.

AutoCloner maintained by Alex Coulton.