AutoCloner

Multiple sequence alignment - TraesCS1B01G277000

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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	TraesCS1B01G277000	chr1B	100.000	4080	0	0	1	4080	484466233	484462154	0.000000e+00	7535.0
1	TraesCS1B01G277000	chr1B	91.272	1077	92	2	2480	3555	484691125	484690050	0.000000e+00	1467.0
2	TraesCS1B01G277000	chr1B	86.616	1046	86	23	797	1817	484693057	484692041	0.000000e+00	1107.0
3	TraesCS1B01G277000	chr1B	93.231	650	42	2	1	649	11366181	11366829	0.000000e+00	955.0
4	TraesCS1B01G277000	chr1B	76.797	612	102	24	1131	1710	664317874	664318477	1.420000e-79	307.0
5	TraesCS1B01G277000	chr1B	74.533	428	66	28	3648	4048	484689484	484689073	3.290000e-31	147.0
6	TraesCS1B01G277000	chr1B	78.873	142	30	0	2473	2614	656183488	656183629	3.360000e-16	97.1
7	TraesCS1B01G277000	chr1A	93.454	1543	69	19	639	2157	461524399	461522865	0.000000e+00	2261.0
8	TraesCS1B01G277000	chr1A	94.220	865	48	2	2361	3223	461522722	461521858	0.000000e+00	1319.0
9	TraesCS1B01G277000	chr1A	88.173	947	73	13	797	1726	461644164	461643240	0.000000e+00	1092.0
10	TraesCS1B01G277000	chr1A	86.233	799	101	9	2480	3273	461642418	461641624	0.000000e+00	857.0
11	TraesCS1B01G277000	chr1A	88.757	169	14	3	3460	3627	461521604	461521440	6.920000e-48	202.0
12	TraesCS1B01G277000	chr1A	96.639	119	3	1	2260	2377	461522860	461522742	3.220000e-46	196.0
13	TraesCS1B01G277000	chr1D	94.934	1441	49	10	652	2082	362013566	362012140	0.000000e+00	2235.0
14	TraesCS1B01G277000	chr1D	93.423	1186	72	5	2233	3416	362010944	362009763	0.000000e+00	1753.0
15	TraesCS1B01G277000	chr1D	87.140	1042	86	23	797	1817	362132773	362131759	0.000000e+00	1138.0
16	TraesCS1B01G277000	chr1D	88.000	650	76	2	2480	3128	362131013	362130365	0.000000e+00	767.0
17	TraesCS1B01G277000	chr1D	83.805	636	63	15	3457	4078	362009770	362009161	5.920000e-158	568.0
18	TraesCS1B01G277000	chr1D	78.268	612	101	17	1127	1710	476872643	476872036	8.330000e-97	364.0
19	TraesCS1B01G277000	chr1D	93.333	165	9	2	2068	2230	362012119	362011955	4.070000e-60	243.0
20	TraesCS1B01G277000	chr6B	94.777	651	33	1	1	650	710081863	710082513	0.000000e+00	1013.0
21	TraesCS1B01G277000	chr7B	94.769	650	33	1	1	649	627002817	627002168	0.000000e+00	1011.0
22	TraesCS1B01G277000	chrUn	94.172	652	34	4	1	649	87225959	87225309	0.000000e+00	990.0
23	TraesCS1B01G277000	chr2B	93.874	653	36	3	1	649	73552752	73553404	0.000000e+00	981.0
24	TraesCS1B01G277000	chr2B	100.000	29	0	0	623	651	789985289	789985261	2.000000e-03	54.7
25	TraesCS1B01G277000	chr5B	93.673	648	39	2	3	648	523379774	523380421	0.000000e+00	968.0
26	TraesCS1B01G277000	chr3B	93.564	637	38	3	1	636	706251409	706250775	0.000000e+00	946.0
27	TraesCS1B01G277000	chr3B	92.934	651	43	3	1	649	17700410	17699761	0.000000e+00	944.0
28	TraesCS1B01G277000	chr3D	93.417	638	37	5	1	636	534171542	534170908	0.000000e+00	941.0
29	TraesCS1B01G277000	chr3D	73.621	417	80	27	1127	1533	326121057	326120661	2.560000e-27	134.0
30	TraesCS1B01G277000	chr3A	73.621	417	80	27	1127	1533	438810238	438810634	2.560000e-27	134.0
31	TraesCS1B01G277000	chr5A	96.970	33	1	0	3382	3414	671864190	671864222	5.700000e-04	56.5
32	TraesCS1B01G277000	chr4D	96.970	33	1	0	3382	3414	490365602	490365634	5.700000e-04	56.5

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	TraesCS1B01G277000	chr1B	484462154	484466233	4079	True	7535.00	7535	100.000000	1	4080	1	chr1B.!!$R1	4079
1	TraesCS1B01G277000	chr1B	11366181	11366829	648	False	955.00	955	93.231000	1	649	1	chr1B.!!$F1	648
2	TraesCS1B01G277000	chr1B	484689073	484693057	3984	True	907.00	1467	84.140333	797	4048	3	chr1B.!!$R2	3251
3	TraesCS1B01G277000	chr1B	664317874	664318477	603	False	307.00	307	76.797000	1131	1710	1	chr1B.!!$F3	579
4	TraesCS1B01G277000	chr1A	461521440	461524399	2959	True	994.50	2261	93.267500	639	3627	4	chr1A.!!$R1	2988
5	TraesCS1B01G277000	chr1A	461641624	461644164	2540	True	974.50	1092	87.203000	797	3273	2	chr1A.!!$R2	2476
6	TraesCS1B01G277000	chr1D	362009161	362013566	4405	True	1199.75	2235	91.373750	652	4078	4	chr1D.!!$R2	3426
7	TraesCS1B01G277000	chr1D	362130365	362132773	2408	True	952.50	1138	87.570000	797	3128	2	chr1D.!!$R3	2331
8	TraesCS1B01G277000	chr1D	476872036	476872643	607	True	364.00	364	78.268000	1127	1710	1	chr1D.!!$R1	583
9	TraesCS1B01G277000	chr6B	710081863	710082513	650	False	1013.00	1013	94.777000	1	650	1	chr6B.!!$F1	649
10	TraesCS1B01G277000	chr7B	627002168	627002817	649	True	1011.00	1011	94.769000	1	649	1	chr7B.!!$R1	648
11	TraesCS1B01G277000	chrUn	87225309	87225959	650	True	990.00	990	94.172000	1	649	1	chrUn.!!$R1	648
12	TraesCS1B01G277000	chr2B	73552752	73553404	652	False	981.00	981	93.874000	1	649	1	chr2B.!!$F1	648
13	TraesCS1B01G277000	chr5B	523379774	523380421	647	False	968.00	968	93.673000	3	648	1	chr5B.!!$F1	645
14	TraesCS1B01G277000	chr3B	706250775	706251409	634	True	946.00	946	93.564000	1	636	1	chr3B.!!$R2	635
15	TraesCS1B01G277000	chr3B	17699761	17700410	649	True	944.00	944	92.934000	1	649	1	chr3B.!!$R1	648
16	TraesCS1B01G277000	chr3D	534170908	534171542	634	True	941.00	941	93.417000	1	636	1	chr3D.!!$R2	635

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
906	923	0.112025	AAGCTGAAGCAAAGAGGCCT	59.888	50.000	3.86	3.86	45.16	5.19	F
998	1030	0.527113	TCGAATTAACACCCGCTCGA	59.473	50.000	0.00	0.00	33.29	4.04	F
2935	4574	1.066071	GGGTTCAAGCTAGAGGTGGAC	60.066	57.143	0.00	0.00	0.00	4.02	F

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability	Orientation
1716	1775	0.179121	TATTAGTCGCTGTGGCACGG	60.179	55.000	22.11	22.11	38.60	4.94	R
2945	4584	0.320421	GCGCCCTTGTTCACTAGTGA	60.320	55.000	21.74	21.74	37.91	3.41	R
3996	6203	2.095314	CCAACAACATGCTAATCACGCA	60.095	45.455	0.00	0.00	42.25	5.24	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
120	122	6.834959	AGTTAATAGATGTTGATGCACTCG	57.165	37.500	0.00	0.00	0.00	4.18
142	144	8.407064	ACTCGTTAGTAGAATAGAAGACAATGG	58.593	37.037	0.00	0.00	32.84	3.16
242	244	3.436704	TCAAGAATCCGCAGATCAACAAC	59.563	43.478	0.00	0.00	0.00	3.32
251	253	2.672874	GCAGATCAACAACGAGTGCATA	59.327	45.455	0.00	0.00	31.92	3.14
352	354	7.719633	TGTTTTCTTTGGTCTTGCTATTCTAGT	59.280	33.333	0.00	0.00	0.00	2.57
612	620	4.386245	GCAAACACGTTTTGCGGA	57.614	50.000	22.83	0.00	44.13	5.54
614	622	0.524604	GCAAACACGTTTTGCGGACT	60.525	50.000	22.83	0.00	44.13	3.85
724	738	2.860009	CCAGTAAGCATGCATGGATCT	58.140	47.619	27.34	13.64	32.55	2.75
858	875	1.444933	TTGGAGGTCACATGGGTTCT	58.555	50.000	0.00	0.00	0.00	3.01
906	923	0.112025	AAGCTGAAGCAAAGAGGCCT	59.888	50.000	3.86	3.86	45.16	5.19
944	961	0.881796	GTAGCCAACAGAGCCAAACC	59.118	55.000	0.00	0.00	0.00	3.27
998	1030	0.527113	TCGAATTAACACCCGCTCGA	59.473	50.000	0.00	0.00	33.29	4.04
1716	1775	3.707793	CGCCAGAGATCAGGTAAAGTAC	58.292	50.000	0.00	0.00	0.00	2.73
1777	1909	4.832590	AGTCGATCTAACCGGACATTAG	57.167	45.455	9.46	6.18	0.00	1.73
1778	1910	4.205587	AGTCGATCTAACCGGACATTAGT	58.794	43.478	9.46	0.00	32.46	2.24
1780	1912	5.238214	AGTCGATCTAACCGGACATTAGTAC	59.762	44.000	9.46	4.28	32.46	2.73
1784	1916	4.210331	TCTAACCGGACATTAGTACTCCC	58.790	47.826	9.46	0.00	32.46	4.30
1785	1917	2.537633	ACCGGACATTAGTACTCCCA	57.462	50.000	9.46	0.00	0.00	4.37
1786	1918	2.105766	ACCGGACATTAGTACTCCCAC	58.894	52.381	9.46	0.00	0.00	4.61
1805	1938	6.785076	TCCCACAATTCCAGTTCTAACATAA	58.215	36.000	0.00	0.00	0.00	1.90
1915	2056	3.954904	TCTAGATAGCCACAGGAAGTCAC	59.045	47.826	0.00	0.00	0.00	3.67
1995	2512	1.346062	GCTCAGGGCCTCATCTATCA	58.654	55.000	0.95	0.00	34.27	2.15
2000	2517	2.564504	CAGGGCCTCATCTATCATTCGA	59.435	50.000	0.95	0.00	0.00	3.71
2082	2634	3.488489	CTTCAAAAATGGAACGGTAGCG	58.512	45.455	13.69	13.69	0.00	4.26
2192	2749	1.073199	CTTTGACAAGCTCGGGGGT	59.927	57.895	0.00	0.00	0.00	4.95
2219	2777	7.279313	AGCGTGTTAATAGTCGTTATCCAAATT	59.721	33.333	0.00	0.00	0.00	1.82
2339	3928	9.787532	TGAGCCGATTAAAAATTCTTATTTCTG	57.212	29.630	0.00	0.00	32.85	3.02
2393	4018	5.830912	TGCAACTTGGTTGATTAGAACAAG	58.169	37.500	13.63	0.00	45.28	3.16
2397	4022	7.648142	CAACTTGGTTGATTAGAACAAGCTAA	58.352	34.615	4.60	0.00	45.28	3.09
2729	4368	2.309755	TCATTTCCAGACCTGAAGGCAT	59.690	45.455	0.00	0.00	39.32	4.40
2818	4457	6.046593	CGTGGAGCTTACCATAAGAACAATA	58.953	40.000	0.00	0.00	42.17	1.90
2869	4508	1.299976	GGGGACGCTCCACAATCTT	59.700	57.895	6.41	0.00	40.54	2.40
2935	4574	1.066071	GGGTTCAAGCTAGAGGTGGAC	60.066	57.143	0.00	0.00	0.00	4.02
2945	4584	2.160721	AGAGGTGGACCGTGACATAT	57.839	50.000	0.00	0.00	42.08	1.78
2947	4586	1.754803	GAGGTGGACCGTGACATATCA	59.245	52.381	0.00	0.00	42.08	2.15
2962	4601	4.770795	ACATATCACTAGTGAACAAGGGC	58.229	43.478	28.43	0.00	43.58	5.19
3097	4736	1.067142	TGAGTTACTCACATCGGCCAC	60.067	52.381	11.42	0.00	35.39	5.01
3112	4752	2.111384	GGCCACTGAGAGGACATTAGA	58.889	52.381	0.00	0.00	33.02	2.10
3217	4859	9.487790	TTTCCCTTTTTATGCAAAATAAGTGAG	57.512	29.630	0.00	0.00	33.73	3.51
3277	4985	5.945784	TGATGAAACAACTTCCCCTCAATAG	59.054	40.000	0.00	0.00	32.53	1.73
3352	5060	3.694072	CCTCGACAATTCCTTTGGCATTA	59.306	43.478	0.00	0.00	44.25	1.90
3452	5160	2.030540	TGAAGTTCCAGGAAGTACGTCG	60.031	50.000	10.18	0.00	0.00	5.12
3453	5161	0.886563	AGTTCCAGGAAGTACGTCGG	59.113	55.000	7.88	0.00	0.00	4.79
3541	5252	5.681105	CGTACACAAAAAGAGTTCACCATTG	59.319	40.000	0.00	0.00	0.00	2.82
3547	5258	8.971321	CACAAAAAGAGTTCACCATTGATTAAG	58.029	33.333	0.00	0.00	0.00	1.85
3555	5708	8.934023	AGTTCACCATTGATTAAGTTTCCTAA	57.066	30.769	0.00	0.00	0.00	2.69
3582	5735	6.240549	AGAGGGTTGAGTCAATTATACCAG	57.759	41.667	9.18	0.00	0.00	4.00
3584	5737	5.990668	AGGGTTGAGTCAATTATACCAGTC	58.009	41.667	9.18	0.00	0.00	3.51
3609	5765	8.840321	TCTGAACTTTTTAACAAGGAATCTCTG	58.160	33.333	6.34	0.58	0.00	3.35
3646	5810	5.814705	CCATGGCTTGTTTGAGTTTGTAAAA	59.185	36.000	0.00	0.00	0.00	1.52
3655	5839	7.603651	TGTTTGAGTTTGTAAAAAGCCTTGTA	58.396	30.769	0.00	0.00	0.00	2.41
3671	5855	5.993106	CCTTGTAGAGTTTATAGCAAGGC	57.007	43.478	7.99	0.00	43.95	4.35
3682	5866	5.429681	TTATAGCAAGGCTGGACAACTTA	57.570	39.130	0.07	0.00	40.10	2.24
3696	5880	6.859017	TGGACAACTTAGAGTTTTCAAAACC	58.141	36.000	9.49	1.75	36.81	3.27
3787	5973	5.137551	TGATGGAGAGTTATATCGTGGTGA	58.862	41.667	0.00	0.00	0.00	4.02
3791	5977	6.124340	TGGAGAGTTATATCGTGGTGACTAA	58.876	40.000	0.00	0.00	0.00	2.24
3810	5996	9.372369	GTGACTAACATAAGCAAGAAGAATACT	57.628	33.333	0.00	0.00	0.00	2.12
3831	6017	4.823989	ACTAATAGATTGAAGGCATGCCAC	59.176	41.667	37.18	28.56	38.92	5.01
3836	6022	2.825836	GAAGGCATGCCACGAGGG	60.826	66.667	37.18	0.00	38.92	4.30
3873	6080	5.299279	AGTCTAACACTTCAATTTGGGTGTG	59.701	40.000	20.79	16.61	41.26	3.82
3911	6118	3.987868	GCTGTGAAGATTGTCGAAGTGTA	59.012	43.478	0.00	0.00	0.00	2.90
3915	6122	6.920817	TGTGAAGATTGTCGAAGTGTACTAT	58.079	36.000	0.00	0.00	0.00	2.12
3922	6129	4.197750	TGTCGAAGTGTACTATCCTCTCC	58.802	47.826	0.00	0.00	0.00	3.71
3923	6130	4.197750	GTCGAAGTGTACTATCCTCTCCA	58.802	47.826	0.00	0.00	0.00	3.86
3929	6136	6.212840	AGTGTACTATCCTCTCCATGAGAT	57.787	41.667	0.00	0.00	45.39	2.75
3942	6149	3.976793	CATGAGATGGTTGCATGGTAC	57.023	47.619	0.00	0.00	36.61	3.34
3973	6180	2.339769	GATGTGGCTTATCCCCTAGGT	58.660	52.381	8.29	0.00	0.00	3.08
3975	6182	1.843851	TGTGGCTTATCCCCTAGGTTG	59.156	52.381	8.29	0.00	0.00	3.77
3996	6203	6.349611	GGTTGCACACATGATTTTCTCTACAT	60.350	38.462	0.00	0.00	0.00	2.29
4078	6286	5.291905	ACATACCATACTAACTCTTGGGC	57.708	43.478	0.00	0.00	33.39	5.36
4079	6287	4.969359	ACATACCATACTAACTCTTGGGCT	59.031	41.667	0.00	0.00	33.39	5.19

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
120	122	7.043325	CGCACCATTGTCTTCTATTCTACTAAC	60.043	40.741	0.00	0.00	0.00	2.34
242	244	5.468592	AGCAATATCTTCTCTATGCACTCG	58.531	41.667	0.00	0.00	0.00	4.18
251	253	7.271511	CCACTAGTTGAAGCAATATCTTCTCT	58.728	38.462	0.00	6.67	42.15	3.10
412	417	8.866970	AAATTTGCACCTTAATTTGATCCAAT	57.133	26.923	6.12	0.00	33.84	3.16
463	469	3.785859	GCGGGGTCTGATCTGGCA	61.786	66.667	6.53	0.00	0.00	4.92
612	620	2.043248	ACCCCGCATCCGTCTAGT	60.043	61.111	0.00	0.00	0.00	2.57
614	622	2.125326	CAGACCCCGCATCCGTCTA	61.125	63.158	0.00	0.00	35.12	2.59
663	671	3.892588	TCACCGGGCTCAAAAGTTAATTT	59.107	39.130	6.32	0.00	0.00	1.82
666	674	2.642154	TCACCGGGCTCAAAAGTTAA	57.358	45.000	6.32	0.00	0.00	2.01
668	676	1.886542	GAATCACCGGGCTCAAAAGTT	59.113	47.619	6.32	0.00	0.00	2.66
669	677	1.534729	GAATCACCGGGCTCAAAAGT	58.465	50.000	6.32	0.00	0.00	2.66
670	678	0.811281	GGAATCACCGGGCTCAAAAG	59.189	55.000	6.32	0.00	0.00	2.27
671	679	0.404040	AGGAATCACCGGGCTCAAAA	59.596	50.000	6.32	0.00	44.74	2.44
709	723	2.872732	CCCTTAGATCCATGCATGCTT	58.127	47.619	21.69	10.16	0.00	3.91
724	738	3.078837	GTGACGATTCCTTTTGCCCTTA	58.921	45.455	0.00	0.00	0.00	2.69
880	897	1.795170	TTTGCTTCAGCTTGGGCGTC	61.795	55.000	0.00	0.00	44.37	5.19
944	961	3.371097	ATCGGCTGCGTACCAGTGG	62.371	63.158	7.91	7.91	43.71	4.00
998	1030	0.902531	AATCGGGAGGAACGACATGT	59.097	50.000	0.00	0.00	43.78	3.21
1716	1775	0.179121	TATTAGTCGCTGTGGCACGG	60.179	55.000	22.11	22.11	38.60	4.94
1777	1909	4.287766	AGAACTGGAATTGTGGGAGTAC	57.712	45.455	0.00	0.00	0.00	2.73
1778	1910	5.308497	TGTTAGAACTGGAATTGTGGGAGTA	59.692	40.000	0.00	0.00	0.00	2.59
1780	1912	4.651778	TGTTAGAACTGGAATTGTGGGAG	58.348	43.478	0.00	0.00	0.00	4.30
1805	1938	4.822896	TGTAGGTAAGCCGTTGTCATTTTT	59.177	37.500	0.00	0.00	40.50	1.94
1915	2056	7.921786	TTAACTTATCTTGGGAACATCACAG	57.078	36.000	0.00	0.00	42.32	3.66
1964	2476	1.765314	GCCCTGAGCCTCAAGATAAGA	59.235	52.381	0.00	0.00	34.35	2.10
1995	2512	5.643777	ACGAAAGAAAAGGACATGATCGAAT	59.356	36.000	0.00	0.00	0.00	3.34
2000	2517	9.626045	GATTTTTACGAAAGAAAAGGACATGAT	57.374	29.630	0.00	0.00	0.00	2.45
2073	2625	2.796593	GTTGTGTTAACTCGCTACCGTT	59.203	45.455	7.22	0.00	35.54	4.44
2082	2634	4.619437	TTTTGGACCGTTGTGTTAACTC	57.381	40.909	7.22	3.79	0.00	3.01
2183	2740	2.229690	TTAACACGCTACCCCCGAGC	62.230	60.000	0.00	0.00	36.54	5.03
2192	2749	6.375945	TGGATAACGACTATTAACACGCTA	57.624	37.500	0.00	0.00	0.00	4.26
2219	2777	8.982091	TTCGTTGATGGATGGGTAAATTTATA	57.018	30.769	0.31	0.00	0.00	0.98
2230	2788	1.368641	TCGCTTTCGTTGATGGATGG	58.631	50.000	0.00	0.00	36.96	3.51
2406	4031	4.891168	TGTGTGATATTCCTTAGGACGCTA	59.109	41.667	0.00	0.00	0.00	4.26
2474	4099	2.224523	CCTCCTTGACAACCTGCTTGTA	60.225	50.000	0.00	0.00	43.60	2.41
2680	4319	0.462047	CCGACCTAAAGAAGCGGCAT	60.462	55.000	1.45	0.00	35.17	4.40
2869	4508	1.271762	ACTCCGTGTAGGTAGCACTCA	60.272	52.381	0.00	0.00	41.99	3.41
2945	4584	0.320421	GCGCCCTTGTTCACTAGTGA	60.320	55.000	21.74	21.74	37.91	3.41
2947	4586	1.003718	GGCGCCCTTGTTCACTAGT	60.004	57.895	18.11	0.00	0.00	2.57
2950	4589	3.936203	TCGGCGCCCTTGTTCACT	61.936	61.111	23.46	0.00	0.00	3.41
2962	4601	4.103103	TCAGTGAGAGCGTCGGCG	62.103	66.667	4.29	4.29	46.35	6.46
3025	4664	2.135189	CCATCTTCCCCCTTGACCATA	58.865	52.381	0.00	0.00	0.00	2.74
3097	4736	5.128499	ACATCAAGGTCTAATGTCCTCTCAG	59.872	44.000	0.00	0.00	31.48	3.35
3112	4752	3.569701	GGTGTTGTGAATCACATCAAGGT	59.430	43.478	23.66	0.00	44.16	3.50
3133	4773	2.095768	TCGAACCTTGTAACGAGTACGG	60.096	50.000	0.00	0.00	44.46	4.02
3217	4859	8.153411	GTCGCACATATTGTATTTTGAAAACAC	58.847	33.333	0.00	0.00	0.00	3.32
3277	4985	8.234546	TCGAGCATAGTTTATTTTGGAAGAAAC	58.765	33.333	2.20	2.20	43.72	2.78
3352	5060	5.349270	CGTGATCAACAATTTTGGCATGAAT	59.651	36.000	0.00	0.00	0.00	2.57
3452	5160	4.082081	TGAAATGTTGATGATGGACAAGCC	60.082	41.667	0.00	0.00	37.10	4.35
3453	5161	5.063180	TGAAATGTTGATGATGGACAAGC	57.937	39.130	0.00	0.00	0.00	4.01
3487	5195	9.041354	AGCAAAGGGTAATTTGGTAAATTCATA	57.959	29.630	3.06	0.00	46.10	2.15
3502	5210	4.701765	TGTGTACGTTTAGCAAAGGGTAA	58.298	39.130	0.00	0.00	35.32	2.85
3541	5252	8.678199	CAACCCTCTTCATTAGGAAACTTAATC	58.322	37.037	0.00	0.00	43.67	1.75
3547	5258	5.561679	ACTCAACCCTCTTCATTAGGAAAC	58.438	41.667	0.00	0.00	36.08	2.78
3555	5708	7.092444	TGGTATAATTGACTCAACCCTCTTCAT	60.092	37.037	0.00	0.00	0.00	2.57
3582	5735	8.841300	AGAGATTCCTTGTTAAAAAGTTCAGAC	58.159	33.333	4.68	0.00	0.00	3.51
3584	5737	7.592903	GCAGAGATTCCTTGTTAAAAAGTTCAG	59.407	37.037	4.68	0.00	0.00	3.02
3609	5765	0.383231	GCCATGGTATGAGTGCTTGC	59.617	55.000	14.67	0.00	0.00	4.01
3646	5810	6.116126	CCTTGCTATAAACTCTACAAGGCTT	58.884	40.000	6.65	0.00	45.33	4.35
3655	5839	3.519510	TGTCCAGCCTTGCTATAAACTCT	59.480	43.478	0.00	0.00	36.40	3.24
3671	5855	6.972901	GGTTTTGAAAACTCTAAGTTGTCCAG	59.027	38.462	18.95	0.00	40.85	3.86
3682	5866	4.251103	ACCTCCTGGTTTTGAAAACTCT	57.749	40.909	18.95	0.00	46.05	3.24
3696	5880	5.556915	TGGTCTATGTTAAACAACCTCCTG	58.443	41.667	0.00	0.00	30.00	3.86
3810	5996	3.814842	CGTGGCATGCCTTCAATCTATTA	59.185	43.478	35.53	9.65	36.94	0.98
3819	6005	2.825836	CCCTCGTGGCATGCCTTC	60.826	66.667	35.53	25.82	36.94	3.46
3836	6022	3.123621	GTGTTAGACTATGCGGCATATGC	59.876	47.826	21.92	19.79	41.14	3.14
3893	6100	6.377429	AGGATAGTACACTTCGACAATCTTCA	59.623	38.462	0.00	0.00	0.00	3.02
3922	6129	3.548770	AGTACCATGCAACCATCTCATG	58.451	45.455	0.00	0.00	37.81	3.07
3923	6130	3.939740	AGTACCATGCAACCATCTCAT	57.060	42.857	0.00	0.00	0.00	2.90
3929	6136	6.061441	CCTATGAATAAGTACCATGCAACCA	58.939	40.000	0.00	0.00	0.00	3.67
3932	6139	7.445096	CACATCCTATGAATAAGTACCATGCAA	59.555	37.037	0.00	0.00	0.00	4.08
3933	6140	6.936335	CACATCCTATGAATAAGTACCATGCA	59.064	38.462	0.00	0.00	0.00	3.96
3940	6147	8.540388	GGATAAGCCACATCCTATGAATAAGTA	58.460	37.037	2.35	0.00	39.17	2.24
3942	6149	6.825721	GGGATAAGCCACATCCTATGAATAAG	59.174	42.308	8.32	0.00	41.55	1.73
3973	6180	6.614160	CATGTAGAGAAAATCATGTGTGCAA	58.386	36.000	0.00	0.00	34.73	4.08
3975	6182	5.032863	GCATGTAGAGAAAATCATGTGTGC	58.967	41.667	0.00	0.00	39.54	4.57
3996	6203	2.095314	CCAACAACATGCTAATCACGCA	60.095	45.455	0.00	0.00	42.25	5.24
4054	6262	6.069615	AGCCCAAGAGTTAGTATGGTATGTTT	60.070	38.462	0.00	0.00	0.00	2.83

Based at the University of Bristol with support from BBSRC.

AutoCloner maintained by Alex Coulton.