AutoCloner

Multiple sequence alignment - TraesCS4B01G345800

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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	TraesCS4B01G345800	chr4B	100.000	3354	0	0	1	3354	639451139	639454492	0.000000e+00	6194.0
1	TraesCS4B01G345800	chr4B	90.155	1747	85	21	6	1734	667342713	667344390	0.000000e+00	2193.0
2	TraesCS4B01G345800	chr4B	88.917	794	50	17	1727	2501	667345371	667346145	0.000000e+00	944.0
3	TraesCS4B01G345800	chr4B	80.535	1197	164	35	1005	2168	626068855	626067695	0.000000e+00	856.0
4	TraesCS4B01G345800	chr4B	80.494	1133	145	37	1077	2185	489294396	489293316	0.000000e+00	798.0
5	TraesCS4B01G345800	chr4B	84.755	387	23	13	2664	3047	667346148	667346501	4.120000e-94	355.0
6	TraesCS4B01G345800	chr4B	85.145	276	17	10	10	284	626071399	626071147	9.230000e-66	261.0
7	TraesCS4B01G345800	chr4B	90.588	170	16	0	2499	2668	28724142	28724311	3.370000e-55	226.0
8	TraesCS4B01G345800	chr4B	91.045	134	10	2	3063	3196	667346579	667346710	2.660000e-41	180.0
9	TraesCS4B01G345800	chr4B	84.722	144	16	4	2014	2156	639323650	639323788	4.510000e-29	139.0
10	TraesCS4B01G345800	chr4B	94.030	67	4	0	2283	2349	489293300	489293234	5.920000e-18	102.0
11	TraesCS4B01G345800	chr4B	95.556	45	2	0	1157	1201	667263182	667263226	4.640000e-09	73.1
12	TraesCS4B01G345800	chr5A	93.143	3369	145	35	1	3354	706679507	706676210	0.000000e+00	4863.0
13	TraesCS4B01G345800	chr5A	86.432	199	18	3	223	421	670427263	670427074	3.390000e-50	209.0
14	TraesCS4B01G345800	chr5A	86.905	168	16	2	10	177	670427438	670427277	2.060000e-42	183.0
15	TraesCS4B01G345800	chrUn	94.925	1202	47	7	1	1196	30127637	30126444	0.000000e+00	1869.0
16	TraesCS4B01G345800	chrUn	90.420	762	46	4	1255	2010	30126437	30125697	0.000000e+00	977.0
17	TraesCS4B01G345800	chrUn	92.017	476	21	7	2541	3015	30125676	30125217	0.000000e+00	652.0
18	TraesCS4B01G345800	chrUn	93.574	249	7	1	3095	3343	30125227	30124988	2.460000e-96	363.0
19	TraesCS4B01G345800	chr4D	81.374	1208	172	28	1005	2197	488666080	488664911	0.000000e+00	935.0
20	TraesCS4B01G345800	chr4D	80.182	1206	150	40	1009	2184	397158318	397157172	0.000000e+00	821.0
21	TraesCS4B01G345800	chr4D	83.010	412	40	17	10	421	488667273	488666892	2.480000e-91	346.0
22	TraesCS4B01G345800	chr4A	80.351	1140	147	32	1075	2185	54405838	54404747	0.000000e+00	793.0
23	TraesCS4B01G345800	chr4A	93.056	72	5	0	2283	2354	54404731	54404660	4.580000e-19	106.0
24	TraesCS4B01G345800	chr1D	80.000	410	49	15	1031	1422	394263765	394263371	4.260000e-69	272.0
25	TraesCS4B01G345800	chr6A	92.638	163	12	0	2500	2662	442395555	442395717	5.590000e-58	235.0
26	TraesCS4B01G345800	chr5D	91.228	171	14	1	2495	2665	461072598	461072767	7.240000e-57	231.0
27	TraesCS4B01G345800	chr2D	91.566	166	14	0	2496	2661	624365938	624365773	2.600000e-56	230.0
28	TraesCS4B01G345800	chr1A	91.566	166	14	0	2496	2661	4312589	4312424	2.600000e-56	230.0
29	TraesCS4B01G345800	chr1A	90.964	166	15	0	2496	2661	4309790	4309625	1.210000e-54	224.0
30	TraesCS4B01G345800	chr7B	91.411	163	14	0	2500	2662	682239953	682239791	1.210000e-54	224.0
31	TraesCS4B01G345800	chr3A	89.595	173	16	2	2500	2670	600923240	600923068	5.630000e-53	219.0

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	TraesCS4B01G345800	chr4B	639451139	639454492	3353	False	6194.00	6194	100.0000	1	3354	1	chr4B.!!$F3	3353
1	TraesCS4B01G345800	chr4B	667342713	667346710	3997	False	918.00	2193	88.7180	6	3196	4	chr4B.!!$F5	3190
2	TraesCS4B01G345800	chr4B	626067695	626071399	3704	True	558.50	856	82.8400	10	2168	2	chr4B.!!$R2	2158
3	TraesCS4B01G345800	chr4B	489293234	489294396	1162	True	450.00	798	87.2620	1077	2349	2	chr4B.!!$R1	1272
4	TraesCS4B01G345800	chr5A	706676210	706679507	3297	True	4863.00	4863	93.1430	1	3354	1	chr5A.!!$R1	3353
5	TraesCS4B01G345800	chrUn	30124988	30127637	2649	True	965.25	1869	92.7340	1	3343	4	chrUn.!!$R1	3342
6	TraesCS4B01G345800	chr4D	397157172	397158318	1146	True	821.00	821	80.1820	1009	2184	1	chr4D.!!$R1	1175
7	TraesCS4B01G345800	chr4D	488664911	488667273	2362	True	640.50	935	82.1920	10	2197	2	chr4D.!!$R2	2187
8	TraesCS4B01G345800	chr4A	54404660	54405838	1178	True	449.50	793	86.7035	1075	2354	2	chr4A.!!$R1	1279
9	TraesCS4B01G345800	chr1A	4309625	4312589	2964	True	227.00	230	91.2650	2496	2661	2	chr1A.!!$R1	165

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
675	2432	0.941542	CGCCGGTCAAGAAACAAGAA	59.058	50.0	1.9	0.0	0.00	2.52	F
1960	4832	0.389426	CCATCACAGCAAAGGCAAGC	60.389	55.0	0.0	0.0	44.61	4.01	F

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability	Orientation
2240	5129	0.394488	CCCTAGACAGTCGGAGCTCA	60.394	60.0	17.19	0.0	0.0	4.26	R
3072	7345	0.175073	GAAGGCGGTAGTAGTGGTGG	59.825	60.0	0.00	0.0	0.0	4.61	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
59	60	1.105457	TATTCCAAGCTGCACATGCC	58.895	50.000	1.02	0.00	41.18	4.40
61	62	2.678934	CCAAGCTGCACATGCCCT	60.679	61.111	1.02	0.00	41.18	5.19
62	63	1.378911	CCAAGCTGCACATGCCCTA	60.379	57.895	1.02	0.00	41.18	3.53
63	64	1.381928	CCAAGCTGCACATGCCCTAG	61.382	60.000	1.02	0.00	41.18	3.02
361	1734	6.678900	GCCTCCAATACAATTGACAAGATGAC	60.679	42.308	13.59	0.00	0.00	3.06
474	1923	9.507329	CCAGATATACTTACAAATTACAGGCAT	57.493	33.333	0.00	0.00	0.00	4.40
491	1940	1.990799	CATGTTCGTCACGAGCCTTA	58.009	50.000	11.86	0.00	36.32	2.69
516	1965	1.135315	CAATCAGGACGGCTTTGCG	59.865	57.895	0.00	0.00	0.00	4.85
675	2432	0.941542	CGCCGGTCAAGAAACAAGAA	59.058	50.000	1.90	0.00	0.00	2.52
735	2497	6.636454	AGAGGTTTCAGGTATATTCACCAA	57.364	37.500	0.00	0.00	41.40	3.67
785	2547	1.609208	CTTGGTGTTCTTGGGTCTGG	58.391	55.000	0.00	0.00	0.00	3.86
788	2550	1.456287	GTGTTCTTGGGTCTGGGCT	59.544	57.895	0.00	0.00	0.00	5.19
858	2628	1.474855	GCAACCAAACCAATGGCTTGT	60.475	47.619	13.64	0.63	44.75	3.16
902	2696	8.774890	AGCACATGCATTTGTTTCAAATATAA	57.225	26.923	14.07	0.00	45.16	0.98
1073	2886	2.437651	GTCCCGTACCTCTACCTCTACT	59.562	54.545	0.00	0.00	0.00	2.57
1104	2917	2.031012	CAGTTCGCAGAGCCACCA	59.969	61.111	0.00	0.00	39.04	4.17
1143	2959	2.182537	CGGTACTACACGCCACCC	59.817	66.667	0.00	0.00	0.00	4.61
1155	2971	3.727258	CCACCCTTGCCGATCCCA	61.727	66.667	0.00	0.00	0.00	4.37
1234	3050	3.286915	AACCTACCGTTCGGACCGC	62.287	63.158	18.28	0.00	0.00	5.68
1318	3149	0.397941	CAGCACCCTCAACTTCTCCA	59.602	55.000	0.00	0.00	0.00	3.86
1467	3313	2.849007	CAGCAGCAGTTCGTGTCG	59.151	61.111	0.00	0.00	0.00	4.35
1503	3349	1.392589	CCGGCATTAAGAAGGTGCAT	58.607	50.000	0.00	0.00	40.53	3.96
1504	3350	1.066002	CCGGCATTAAGAAGGTGCATG	59.934	52.381	0.00	0.00	40.53	4.06
1505	3351	1.066002	CGGCATTAAGAAGGTGCATGG	59.934	52.381	0.00	0.00	40.53	3.66
1506	3352	1.202452	GGCATTAAGAAGGTGCATGGC	60.202	52.381	0.00	0.00	40.53	4.40
1507	3353	1.477700	GCATTAAGAAGGTGCATGGCA	59.522	47.619	0.00	0.00	38.68	4.92
1508	3354	2.094078	GCATTAAGAAGGTGCATGGCAA	60.094	45.455	0.00	0.00	41.47	4.52
1509	3355	3.777478	CATTAAGAAGGTGCATGGCAAG	58.223	45.455	0.00	0.00	41.47	4.01
1510	3356	2.877097	TAAGAAGGTGCATGGCAAGA	57.123	45.000	0.00	0.00	41.47	3.02
1511	3357	1.251251	AAGAAGGTGCATGGCAAGAC	58.749	50.000	0.00	0.00	41.47	3.01
1512	3358	0.403271	AGAAGGTGCATGGCAAGACT	59.597	50.000	0.00	0.00	41.47	3.24
1513	3359	1.630369	AGAAGGTGCATGGCAAGACTA	59.370	47.619	0.00	0.00	41.47	2.59
1514	3360	1.740025	GAAGGTGCATGGCAAGACTAC	59.260	52.381	0.00	0.00	41.47	2.73
1515	3361	0.987294	AGGTGCATGGCAAGACTACT	59.013	50.000	0.00	0.00	41.47	2.57
1516	3362	1.352352	AGGTGCATGGCAAGACTACTT	59.648	47.619	0.00	0.00	41.47	2.24
1517	3363	1.740025	GGTGCATGGCAAGACTACTTC	59.260	52.381	0.00	0.00	41.47	3.01
1518	3364	2.426522	GTGCATGGCAAGACTACTTCA	58.573	47.619	0.00	0.00	41.47	3.02
1519	3365	2.160417	GTGCATGGCAAGACTACTTCAC	59.840	50.000	0.00	0.00	41.47	3.18
1520	3366	2.038952	TGCATGGCAAGACTACTTCACT	59.961	45.455	0.00	0.00	34.76	3.41
1521	3367	2.417933	GCATGGCAAGACTACTTCACTG	59.582	50.000	0.00	0.00	33.70	3.66
1522	3368	2.169832	TGGCAAGACTACTTCACTGC	57.830	50.000	0.00	0.00	35.53	4.40
1523	3369	1.416030	TGGCAAGACTACTTCACTGCA	59.584	47.619	0.00	0.00	37.16	4.41
1684	3558	1.742880	GCAAGGCTCACGCAGATCA	60.743	57.895	0.00	0.00	38.10	2.92
1739	4604	1.966901	ATCCGCTGCCGACAATGGTA	61.967	55.000	0.00	0.00	36.29	3.25
1960	4832	0.389426	CCATCACAGCAAAGGCAAGC	60.389	55.000	0.00	0.00	44.61	4.01
2079	4968	8.224389	TCAGAAGATTGACATTTTCAGTTCAA	57.776	30.769	0.00	0.00	34.94	2.69
2220	5109	5.104235	GGTTAGGCCTTTCCCAACTTCTATA	60.104	44.000	12.58	0.00	34.51	1.31
2226	5115	8.606830	AGGCCTTTCCCAACTTCTATATATTAG	58.393	37.037	0.00	0.00	34.51	1.73
2227	5116	8.383947	GGCCTTTCCCAACTTCTATATATTAGT	58.616	37.037	0.00	0.00	0.00	2.24
2251	5140	1.620819	ACAAGAACATGAGCTCCGACT	59.379	47.619	12.15	5.29	0.00	4.18
2281	5170	7.803131	AGGGAAAACCATCTTTAGTAGTATCC	58.197	38.462	0.00	0.00	43.89	2.59
2308	5197	5.623956	TTGGTCACGGTATCCATTTCTAT	57.376	39.130	4.69	0.00	0.00	1.98
2452	5347	4.096532	TCGAATGTATTCTGTCGAGAAGCT	59.903	41.667	3.40	0.00	41.62	3.74
2454	5349	4.991153	ATGTATTCTGTCGAGAAGCTGA	57.009	40.909	0.00	0.00	41.62	4.26
2455	5350	4.991153	TGTATTCTGTCGAGAAGCTGAT	57.009	40.909	0.00	0.00	41.62	2.90
2456	5351	5.330455	TGTATTCTGTCGAGAAGCTGATT	57.670	39.130	0.00	0.00	41.62	2.57
2461	5356	4.631131	TCTGTCGAGAAGCTGATTTTTCA	58.369	39.130	0.00	0.00	0.00	2.69
2462	5357	4.449068	TCTGTCGAGAAGCTGATTTTTCAC	59.551	41.667	0.00	0.00	0.00	3.18
2463	5358	4.380531	TGTCGAGAAGCTGATTTTTCACT	58.619	39.130	0.00	0.00	0.00	3.41
2791	6922	5.495640	AGAGAGGGACAGAAATTCATCAAC	58.504	41.667	0.00	0.00	0.00	3.18
2837	6969	3.426159	CGACCATACAAACATTGTCTGCC	60.426	47.826	0.00	0.00	44.12	4.85
2873	7006	8.224025	TCTTATTTATGGATTCATGCCCAAGTA	58.776	33.333	0.00	0.00	35.85	2.24
2875	7008	7.860649	ATTTATGGATTCATGCCCAAGTATT	57.139	32.000	0.00	0.00	35.85	1.89
2876	7009	6.899393	TTATGGATTCATGCCCAAGTATTC	57.101	37.500	0.00	0.00	35.85	1.75
2877	7010	4.248174	TGGATTCATGCCCAAGTATTCA	57.752	40.909	0.00	0.00	0.00	2.57
2878	7011	4.806892	TGGATTCATGCCCAAGTATTCAT	58.193	39.130	0.00	0.00	0.00	2.57
2879	7012	5.951204	TGGATTCATGCCCAAGTATTCATA	58.049	37.500	0.00	0.00	0.00	2.15
2880	7013	6.554784	TGGATTCATGCCCAAGTATTCATAT	58.445	36.000	0.00	0.00	0.00	1.78
3016	7228	7.823745	AGCAGAATAGTTGAAGGAAGAAAAA	57.176	32.000	0.00	0.00	0.00	1.94
3041	7253	6.726764	AGGGTCAGGATTTATATACCTCAGTC	59.273	42.308	0.00	0.00	31.06	3.51
3042	7254	6.070710	GGGTCAGGATTTATATACCTCAGTCC	60.071	46.154	0.00	0.00	31.06	3.85
3043	7255	6.497259	GGTCAGGATTTATATACCTCAGTCCA	59.503	42.308	0.00	0.00	31.06	4.02
3044	7256	7.310113	GGTCAGGATTTATATACCTCAGTCCAG	60.310	44.444	0.00	0.00	31.06	3.86
3052	7264	1.687146	CCTCAGTCCAGCCAGCCTA	60.687	63.158	0.00	0.00	0.00	3.93
3053	7265	1.684386	CCTCAGTCCAGCCAGCCTAG	61.684	65.000	0.00	0.00	0.00	3.02
3054	7266	2.188994	CAGTCCAGCCAGCCTAGC	59.811	66.667	0.00	0.00	0.00	3.42
3056	7268	1.692042	AGTCCAGCCAGCCTAGCAT	60.692	57.895	0.00	0.00	0.00	3.79
3057	7269	1.225704	GTCCAGCCAGCCTAGCATT	59.774	57.895	0.00	0.00	0.00	3.56
3058	7270	1.099879	GTCCAGCCAGCCTAGCATTG	61.100	60.000	0.00	0.00	0.00	2.82
3060	7272	1.077212	CAGCCAGCCTAGCATTGGT	60.077	57.895	7.09	0.00	34.43	3.67
3061	7273	0.682209	CAGCCAGCCTAGCATTGGTT	60.682	55.000	0.00	0.00	34.43	3.67
3153	7449	1.377202	GATTCAAGAGCCCGCACCA	60.377	57.895	0.00	0.00	0.00	4.17
3154	7450	1.372087	GATTCAAGAGCCCGCACCAG	61.372	60.000	0.00	0.00	0.00	4.00
3351	7800	1.374758	CAGGTCGACCTTGGCTCAC	60.375	63.158	34.54	4.33	46.09	3.51

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
59	60	3.165058	TGTCGCATTGTTCTAGCTAGG	57.835	47.619	20.58	4.57	0.00	3.02
61	62	3.920446	TGTTGTCGCATTGTTCTAGCTA	58.080	40.909	0.00	0.00	0.00	3.32
62	63	2.766313	TGTTGTCGCATTGTTCTAGCT	58.234	42.857	0.00	0.00	0.00	3.32
63	64	3.125146	TCATGTTGTCGCATTGTTCTAGC	59.875	43.478	0.00	0.00	0.00	3.42
113	114	4.960469	AGTAATCCCATCAACGAGGTTAGA	59.040	41.667	0.00	0.00	0.00	2.10
219	220	4.640201	AGTGCAAATACAAGACAACTGTGT	59.360	37.500	0.00	0.00	42.10	3.72
474	1923	1.990799	CATAAGGCTCGTGACGAACA	58.009	50.000	9.64	0.00	34.74	3.18
491	1940	1.696336	AGCCGTCCTGATTGATAGCAT	59.304	47.619	0.00	0.00	0.00	3.79
516	1965	0.861450	GAACAACACGCACACACTGC	60.861	55.000	0.00	0.00	43.21	4.40
675	2432	0.676184	TGCGTTCTCTTCTCTGCTGT	59.324	50.000	0.00	0.00	0.00	4.40
735	2497	6.497259	TGGTCATGGAGAAGTAGTAGAGTTTT	59.503	38.462	0.00	0.00	0.00	2.43
858	2628	6.517605	TGTGCTTATATTATTACCGTCTGCA	58.482	36.000	0.00	0.00	0.00	4.41
910	2704	5.446473	GCACCATCTAAACTTTCAGATGTCG	60.446	44.000	9.91	3.14	44.38	4.35
983	2777	1.747355	ACATGAGCCATTGCAGTAAGC	59.253	47.619	0.00	0.00	45.96	3.09
1073	2886	3.258228	AACTGCTGCTCCATGCCGA	62.258	57.895	0.00	0.00	42.00	5.54
1155	2971	0.752658	TGCGAGATGGATTGGACGAT	59.247	50.000	0.00	0.00	0.00	3.73
1234	3050	4.796231	CTCGTTCTCCACCGGCGG	62.796	72.222	27.06	27.06	0.00	6.13
1318	3149	2.365370	CCTCCAGCAGGCTCCTCT	60.365	66.667	0.00	0.00	34.56	3.69
1402	3239	3.792047	GACATGCTCTTGCGCGCA	61.792	61.111	33.09	33.09	43.34	6.09
1467	3313	1.758122	GGGGATGATGGTGGCCAAC	60.758	63.158	15.99	15.99	36.95	3.77
1503	3349	1.416030	TGCAGTGAAGTAGTCTTGCCA	59.584	47.619	0.00	0.00	36.98	4.92
1504	3350	2.169832	TGCAGTGAAGTAGTCTTGCC	57.830	50.000	0.00	0.00	36.98	4.52
1505	3351	4.756084	AAATGCAGTGAAGTAGTCTTGC	57.244	40.909	0.00	0.00	37.77	4.01
1506	3352	7.118245	TCACATAAATGCAGTGAAGTAGTCTTG	59.882	37.037	3.44	0.00	39.15	3.02
1507	3353	7.161404	TCACATAAATGCAGTGAAGTAGTCTT	58.839	34.615	3.44	0.00	39.15	3.01
1508	3354	6.701340	TCACATAAATGCAGTGAAGTAGTCT	58.299	36.000	3.44	0.00	39.15	3.24
1509	3355	6.968131	TCACATAAATGCAGTGAAGTAGTC	57.032	37.500	3.44	0.00	39.15	2.59
1510	3356	7.065085	GTGATCACATAAATGCAGTGAAGTAGT	59.935	37.037	21.07	0.00	44.47	2.73
1511	3357	7.404985	GTGATCACATAAATGCAGTGAAGTAG	58.595	38.462	21.07	0.00	44.47	2.57
1512	3358	6.316140	GGTGATCACATAAATGCAGTGAAGTA	59.684	38.462	26.47	0.00	44.47	2.24
1513	3359	5.124457	GGTGATCACATAAATGCAGTGAAGT	59.876	40.000	26.47	0.00	44.47	3.01
1514	3360	5.124297	TGGTGATCACATAAATGCAGTGAAG	59.876	40.000	26.47	0.00	44.47	3.02
1515	3361	5.008980	TGGTGATCACATAAATGCAGTGAA	58.991	37.500	26.47	0.00	44.47	3.18
1516	3362	4.587891	TGGTGATCACATAAATGCAGTGA	58.412	39.130	26.47	8.03	45.26	3.41
1517	3363	4.201980	CCTGGTGATCACATAAATGCAGTG	60.202	45.833	26.47	12.17	34.67	3.66
1518	3364	3.949754	CCTGGTGATCACATAAATGCAGT	59.050	43.478	26.47	0.00	0.00	4.40
1519	3365	3.949754	ACCTGGTGATCACATAAATGCAG	59.050	43.478	26.47	20.03	0.00	4.41
1520	3366	3.966979	ACCTGGTGATCACATAAATGCA	58.033	40.909	26.47	12.49	0.00	3.96
1521	3367	4.275936	GGTACCTGGTGATCACATAAATGC	59.724	45.833	26.47	11.10	0.00	3.56
1522	3368	5.528690	CAGGTACCTGGTGATCACATAAATG	59.471	44.000	31.15	10.97	40.17	2.32
1523	3369	5.684704	CAGGTACCTGGTGATCACATAAAT	58.315	41.667	31.15	10.53	40.17	1.40
1678	3552	3.067883	ACACGATGGACTCTGATGATCTG	59.932	47.826	0.00	0.00	0.00	2.90
1684	3558	3.006859	TGTCAAACACGATGGACTCTGAT	59.993	43.478	0.00	0.00	0.00	2.90
1759	4624	1.377333	GCCCAGGTACCTGTTGCTC	60.377	63.158	34.49	17.50	42.15	4.26
1760	4625	2.757077	GCCCAGGTACCTGTTGCT	59.243	61.111	34.49	1.89	42.15	3.91
1763	4628	3.327404	CGGGCCCAGGTACCTGTT	61.327	66.667	34.49	3.51	42.15	3.16
1871	4742	2.266055	CAGGCCCTGGTTCTCGAC	59.734	66.667	1.63	0.00	0.00	4.20
1960	4832	0.868186	ATGTAGGAGGGTAGAGGGGG	59.132	60.000	0.00	0.00	0.00	5.40
2018	4905	3.764434	AGAGTTCTCCTAGCAAATCACGA	59.236	43.478	0.00	0.00	0.00	4.35
2079	4968	2.636830	CCCTCTTCGATCTGCACAAAT	58.363	47.619	0.00	0.00	0.00	2.32
2185	5074	5.437060	GAAAGGCCTAACCATCTGTCATTA	58.563	41.667	5.16	0.00	43.14	1.90
2193	5082	2.525105	TTGGGAAAGGCCTAACCATC	57.475	50.000	23.71	11.93	43.14	3.51
2226	5115	5.232414	GTCGGAGCTCATGTTCTTGTTATAC	59.768	44.000	17.19	0.00	0.00	1.47
2227	5116	5.127194	AGTCGGAGCTCATGTTCTTGTTATA	59.873	40.000	17.19	0.00	0.00	0.98
2228	5117	4.081420	AGTCGGAGCTCATGTTCTTGTTAT	60.081	41.667	17.19	0.00	0.00	1.89
2240	5129	0.394488	CCCTAGACAGTCGGAGCTCA	60.394	60.000	17.19	0.00	0.00	4.26
2251	5140	6.697641	ACTAAAGATGGTTTTCCCTAGACA	57.302	37.500	0.00	0.00	39.73	3.41
2281	5170	1.067425	TGGATACCGTGACCAAACTCG	60.067	52.381	0.00	0.00	0.00	4.18
2308	5197	3.610040	ACAGACTTCACACAACACTCA	57.390	42.857	0.00	0.00	0.00	3.41
2461	5356	3.983044	ACGGCTCTCCATTTTCTTAGT	57.017	42.857	0.00	0.00	0.00	2.24
2462	5357	7.378966	TCATATACGGCTCTCCATTTTCTTAG	58.621	38.462	0.00	0.00	0.00	2.18
2463	5358	7.297936	TCATATACGGCTCTCCATTTTCTTA	57.702	36.000	0.00	0.00	0.00	2.10
2651	5560	5.978814	TCTTCCTTTTCTTCTATTCCCTCG	58.021	41.667	0.00	0.00	0.00	4.63
2791	6922	4.252971	TCTCCCAGTAGTTTCAACTTCG	57.747	45.455	0.00	0.00	40.37	3.79
2837	6969	4.703897	TCCATAAATAAGAGCACTTCGGG	58.296	43.478	0.00	0.00	37.53	5.14
2873	7006	9.429359	CGAAGCAAGTTTCTCCTATATATGAAT	57.571	33.333	0.00	0.00	0.00	2.57
2875	7008	8.178313	TCGAAGCAAGTTTCTCCTATATATGA	57.822	34.615	0.00	0.00	0.00	2.15
2876	7009	8.818141	TTCGAAGCAAGTTTCTCCTATATATG	57.182	34.615	0.00	0.00	0.00	1.78
2877	7010	8.091449	CCTTCGAAGCAAGTTTCTCCTATATAT	58.909	37.037	19.99	0.00	0.00	0.86
2878	7011	7.434492	CCTTCGAAGCAAGTTTCTCCTATATA	58.566	38.462	19.99	0.00	0.00	0.86
2879	7012	6.284459	CCTTCGAAGCAAGTTTCTCCTATAT	58.716	40.000	19.99	0.00	0.00	0.86
2880	7013	5.661458	CCTTCGAAGCAAGTTTCTCCTATA	58.339	41.667	19.99	0.00	0.00	1.31
3016	7228	6.635021	ACTGAGGTATATAAATCCTGACCCT	58.365	40.000	0.00	0.00	0.00	4.34
3041	7253	1.826921	CCAATGCTAGGCTGGCTGG	60.827	63.158	23.69	19.09	0.00	4.85
3042	7254	0.682209	AACCAATGCTAGGCTGGCTG	60.682	55.000	23.69	14.12	33.19	4.85
3043	7255	0.918983	TAACCAATGCTAGGCTGGCT	59.081	50.000	23.69	9.28	33.19	4.75
3044	7256	1.025041	GTAACCAATGCTAGGCTGGC	58.975	55.000	16.77	16.77	33.19	4.85
3052	7264	0.392998	CTCCGCTGGTAACCAATGCT	60.393	55.000	0.00	0.00	30.80	3.79
3053	7265	1.993369	GCTCCGCTGGTAACCAATGC	61.993	60.000	0.00	0.00	30.80	3.56
3054	7266	1.376609	GGCTCCGCTGGTAACCAATG	61.377	60.000	0.00	0.00	30.80	2.82
3056	7268	2.349755	GGCTCCGCTGGTAACCAA	59.650	61.111	0.00	0.00	30.80	3.67
3057	7269	2.925706	TGGCTCCGCTGGTAACCA	60.926	61.111	0.00	0.00	0.00	3.67
3058	7270	2.436115	GTGGCTCCGCTGGTAACC	60.436	66.667	0.00	0.00	0.00	2.85
3060	7272	2.925706	TGGTGGCTCCGCTGGTAA	60.926	61.111	0.53	0.00	39.52	2.85
3061	7273	3.702048	GTGGTGGCTCCGCTGGTA	61.702	66.667	11.72	0.00	42.91	3.25
3072	7345	0.175073	GAAGGCGGTAGTAGTGGTGG	59.825	60.000	0.00	0.00	0.00	4.61
3215	7511	1.406065	ATCATGCTCCAGACCCTCCG	61.406	60.000	0.00	0.00	0.00	4.63

Based at the University of Bristol with support from BBSRC.

AutoCloner maintained by Alex Coulton.