AutoCloner

Multiple sequence alignment - TraesCS5B01G004900

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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	TraesCS5B01G004900	chr5B	100.000	3785	0	0	1	3785	6623129	6626913	0.000000e+00	6990
1	TraesCS5B01G004900	chr5B	86.182	1527	189	13	1666	3171	31142509	31144034	0.000000e+00	1631
2	TraesCS5B01G004900	chr5B	85.585	1436	199	3	1681	3108	6474723	6476158	0.000000e+00	1498
3	TraesCS5B01G004900	chr5B	83.551	918	133	13	726	1633	6473696	6474605	0.000000e+00	843
4	TraesCS5B01G004900	chr5D	95.027	2976	112	19	2	2953	5276719	5273756	0.000000e+00	4643
5	TraesCS5B01G004900	chr5D	89.744	663	61	5	2989	3650	5273756	5273100	0.000000e+00	841
6	TraesCS5B01G004900	chr5A	92.406	2186	135	12	1609	3782	3515056	3517222	0.000000e+00	3088
7	TraesCS5B01G004900	chr5A	92.958	1633	77	21	1	1615	3504922	3506534	0.000000e+00	2344
8	TraesCS5B01G004900	chr5A	78.671	933	143	24	2627	3537	3615201	3614303	1.530000e-158	569
9	TraesCS5B01G004900	chr5A	91.667	132	6	5	2817	2945	700175657	700175528	1.080000e-40	178
10	TraesCS5B01G004900	chr5A	82.812	192	29	3	3178	3366	3518298	3518488	6.500000e-38	169
11	TraesCS5B01G004900	chr4D	89.408	1114	116	2	1653	2765	503998621	503997509	0.000000e+00	1402
12	TraesCS5B01G004900	chr4D	85.482	861	111	12	752	1608	503999663	503998813	0.000000e+00	885
13	TraesCS5B01G004900	chr4B	89.128	1113	121	0	1653	2765	650408569	650407457	0.000000e+00	1386
14	TraesCS5B01G004900	chr4B	89.128	1113	121	0	1653	2765	650528753	650527641	0.000000e+00	1386
15	TraesCS5B01G004900	chr4B	88.949	1113	123	0	1653	2765	650488947	650487835	0.000000e+00	1375
16	TraesCS5B01G004900	chr4B	85.444	845	107	14	769	1608	650529778	650528945	0.000000e+00	865
17	TraesCS5B01G004900	chr4B	85.325	845	108	14	769	1608	650409594	650408761	0.000000e+00	859
18	TraesCS5B01G004900	chr4B	85.217	805	104	11	754	1554	650457737	650456944	0.000000e+00	813
19	TraesCS5B01G004900	chr4B	86.924	543	64	7	1070	1608	650504347	650503808	1.490000e-173	619
20	TraesCS5B01G004900	chrUn	87.683	1161	132	10	1650	2803	110472949	110474105	0.000000e+00	1341
21	TraesCS5B01G004900	chrUn	83.053	714	106	12	909	1615	110472031	110472736	5.330000e-178	634
22	TraesCS5B01G004900	chrUn	80.925	346	51	10	2822	3156	110474259	110474600	3.750000e-65	259
23	TraesCS5B01G004900	chr3D	83.673	196	26	6	2822	3015	388518946	388519137	3.000000e-41	180
24	TraesCS5B01G004900	chr3D	81.865	193	23	6	3558	3739	417910783	417910592	6.550000e-33	152
25	TraesCS5B01G004900	chr3D	80.311	193	26	6	3558	3739	417966397	417966206	6.590000e-28	135
26	TraesCS5B01G004900	chr3A	83.152	184	27	4	2822	3004	509567119	509567299	8.410000e-37	165

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	TraesCS5B01G004900	chr5B	6623129	6626913	3784	False	6990.000000	6990	100.0000	1	3785	1	chr5B.!!$F1	3784
1	TraesCS5B01G004900	chr5B	31142509	31144034	1525	False	1631.000000	1631	86.1820	1666	3171	1	chr5B.!!$F2	1505
2	TraesCS5B01G004900	chr5B	6473696	6476158	2462	False	1170.500000	1498	84.5680	726	3108	2	chr5B.!!$F3	2382
3	TraesCS5B01G004900	chr5D	5273100	5276719	3619	True	2742.000000	4643	92.3855	2	3650	2	chr5D.!!$R1	3648
4	TraesCS5B01G004900	chr5A	3504922	3506534	1612	False	2344.000000	2344	92.9580	1	1615	1	chr5A.!!$F1	1614
5	TraesCS5B01G004900	chr5A	3515056	3518488	3432	False	1628.500000	3088	87.6090	1609	3782	2	chr5A.!!$F2	2173
6	TraesCS5B01G004900	chr5A	3614303	3615201	898	True	569.000000	569	78.6710	2627	3537	1	chr5A.!!$R1	910
7	TraesCS5B01G004900	chr4D	503997509	503999663	2154	True	1143.500000	1402	87.4450	752	2765	2	chr4D.!!$R1	2013
8	TraesCS5B01G004900	chr4B	650487835	650488947	1112	True	1375.000000	1375	88.9490	1653	2765	1	chr4B.!!$R2	1112
9	TraesCS5B01G004900	chr4B	650527641	650529778	2137	True	1125.500000	1386	87.2860	769	2765	2	chr4B.!!$R5	1996
10	TraesCS5B01G004900	chr4B	650407457	650409594	2137	True	1122.500000	1386	87.2265	769	2765	2	chr4B.!!$R4	1996
11	TraesCS5B01G004900	chr4B	650456944	650457737	793	True	813.000000	813	85.2170	754	1554	1	chr4B.!!$R1	800
12	TraesCS5B01G004900	chr4B	650503808	650504347	539	True	619.000000	619	86.9240	1070	1608	1	chr4B.!!$R3	538
13	TraesCS5B01G004900	chrUn	110472031	110474600	2569	False	744.666667	1341	83.8870	909	3156	3	chrUn.!!$F1	2247

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
356	362	0.970427	TCAGCCATACCGACAGCTCA	60.970	55.0	0.0	0.0	31.93	4.26	F
1894	2204	0.674534	ACTCGGATATGAGGTTCGGC	59.325	55.0	0.0	0.0	40.39	5.54	F

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability	Orientation
2072	2382	0.387202	CTGTAGTGCATCCTCCTCGG	59.613	60.000	0.00	0.0	0.00	4.63	R
3669	4208	1.691434	AGCATAGAGGCCAAGCTCTAC	59.309	52.381	5.01	0.0	35.34	2.59	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
51	52	2.297597	ACTGAGAACAGAGCGCTAGTTT	59.702	45.455	23.49	11.92	46.03	2.66
52	53	2.920490	CTGAGAACAGAGCGCTAGTTTC	59.080	50.000	23.49	18.62	46.03	2.78
106	108	2.413837	CTTTTGAGTCCGTGTAGTGGG	58.586	52.381	0.00	0.00	0.00	4.61
204	206	2.025321	GTGATTCTTCCCCCTTTAGCCA	60.025	50.000	0.00	0.00	0.00	4.75
221	225	6.730960	TTAGCCAACGTTTCTTATTACTGG	57.269	37.500	0.00	0.00	0.00	4.00
321	327	2.942376	GTCTTGTTGTGTCATGTCCACA	59.058	45.455	14.24	14.24	40.87	4.17
336	342	5.957842	TGTCCACATCTACAAAATCAACC	57.042	39.130	0.00	0.00	0.00	3.77
356	362	0.970427	TCAGCCATACCGACAGCTCA	60.970	55.000	0.00	0.00	31.93	4.26
399	405	7.344612	TGATCTCACTTAGTTAGCTTATTCCCA	59.655	37.037	0.00	0.00	0.00	4.37
401	407	6.439375	TCTCACTTAGTTAGCTTATTCCCACA	59.561	38.462	0.00	0.00	0.00	4.17
402	408	7.011499	TCACTTAGTTAGCTTATTCCCACAA	57.989	36.000	0.00	0.00	0.00	3.33
406	412	8.573885	ACTTAGTTAGCTTATTCCCACAAAAAC	58.426	33.333	0.00	0.00	0.00	2.43
413	419	5.411361	GCTTATTCCCACAAAAACAAATCCC	59.589	40.000	0.00	0.00	0.00	3.85
442	451	3.713826	TTTCTTAGGCCTTAGGTGGTG	57.286	47.619	18.42	0.00	0.00	4.17
447	456	2.767644	AGGCCTTAGGTGGTGTTTTT	57.232	45.000	0.00	0.00	0.00	1.94
448	457	2.594131	AGGCCTTAGGTGGTGTTTTTC	58.406	47.619	0.00	0.00	0.00	2.29
457	466	3.056465	AGGTGGTGTTTTTCTTTTTGCGA	60.056	39.130	0.00	0.00	0.00	5.10
494	503	3.067601	TGTCAAAGCTCTAGTTCGTGACA	59.932	43.478	15.18	15.18	41.01	3.58
540	549	3.525800	ATTTTTGGCCCACAGAGTACT	57.474	42.857	0.00	0.00	0.00	2.73
550	559	2.028020	CCACAGAGTACTTTCTGACCCC	60.028	54.545	16.66	0.00	45.95	4.95
565	574	2.104170	GACCCCTGTTTTGTTCAACCA	58.896	47.619	0.00	0.00	0.00	3.67
566	575	2.498078	GACCCCTGTTTTGTTCAACCAA	59.502	45.455	0.00	0.00	0.00	3.67
672	696	8.166422	AGTGTTATTTCCTCAAAAACCTACAG	57.834	34.615	0.00	0.00	0.00	2.74
700	724	6.595716	AGCACTTACAAGTTGTGAGATAATCC	59.404	38.462	28.73	12.66	36.22	3.01
723	747	2.559668	CTGTCCTTGATGCAACCAACAT	59.440	45.455	0.00	0.00	0.00	2.71
1057	1104	6.992715	GGCCATAGCTCTCTTTTTCATAACTA	59.007	38.462	0.00	0.00	39.73	2.24
1156	1203	1.825474	TCCTTGCTCTCTTACCTTCGG	59.175	52.381	0.00	0.00	0.00	4.30
1194	1241	7.123547	GGTTTTGGGGTTACAATCAATGATCTA	59.876	37.037	0.00	0.00	0.00	1.98
1293	1340	1.747924	GCTCATTTCTTCCAAGGGCTC	59.252	52.381	0.00	0.00	0.00	4.70
1402	1449	2.096218	CGCAGTGAGCAAGTAAACTTCC	60.096	50.000	0.00	0.00	46.13	3.46
1414	1461	7.995488	AGCAAGTAAACTTCCTGCTTGATATAT	59.005	33.333	6.76	0.00	38.90	0.86
1511	1558	5.309543	TCACTTTATTTTGACTCCCTCTGGA	59.690	40.000	0.00	0.00	38.75	3.86
1809	2119	2.086610	ACTTTGCAAACTGGGGACAT	57.913	45.000	8.05	0.00	41.51	3.06
1894	2204	0.674534	ACTCGGATATGAGGTTCGGC	59.325	55.000	0.00	0.00	40.39	5.54
1921	2231	7.925483	AGATGATGCTGAAAGAAGTATACTCAC	59.075	37.037	5.70	4.02	34.07	3.51
2015	2325	2.512745	ACGCGACAAGGCACACAA	60.513	55.556	15.93	0.00	0.00	3.33
2072	2382	1.811679	GCAGGAGTTCTAGCCGTGC	60.812	63.158	0.00	0.00	0.00	5.34
2136	2446	1.514087	TGGTCGCTCCATAACGGAC	59.486	57.895	0.00	0.00	41.93	4.79
2195	2505	3.690460	CTGGAAAACACCCAAGCTCTAT	58.310	45.455	0.00	0.00	32.53	1.98
2211	2521	7.147983	CCAAGCTCTATCACTAGTATATGGACC	60.148	44.444	0.00	0.00	0.00	4.46
2332	2642	4.901849	CCTTGTTAGAGATGGATACCCTGA	59.098	45.833	0.00	0.00	0.00	3.86
2456	2766	2.047061	TGACATACCTGGAGGGCATAC	58.953	52.381	0.00	0.00	40.27	2.39
2475	2785	1.134907	ACTGTTGTAATCCCTACGGCG	60.135	52.381	4.80	4.80	32.65	6.46
2504	2814	0.661020	AAGCTGGCACACGTTTACAC	59.339	50.000	0.00	0.00	0.00	2.90
2556	2866	1.062505	GGTCCTGGAAGAGAGGAGGAT	60.063	57.143	0.00	0.00	40.42	3.24
2962	3412	5.551233	CCTTCCTTTGTTGATCAGTACAGA	58.449	41.667	0.00	0.00	0.00	3.41
3042	3499	1.142465	CTGTGCCAAGGATGCCTATCT	59.858	52.381	0.00	0.00	31.13	1.98
3052	3509	2.961062	GGATGCCTATCTGCAATGGTTT	59.039	45.455	0.00	0.00	45.84	3.27
3120	3651	3.274288	CCTTACAAGAGGTGAATGGAGC	58.726	50.000	0.00	0.00	31.89	4.70
3178	3710	5.759273	AGCACTACACGGAGACTAACTATAG	59.241	44.000	0.00	0.00	35.14	1.31
3203	3735	9.457436	AGGACATTTCAAACCGTAAACTATATT	57.543	29.630	0.00	0.00	0.00	1.28
3240	3772	8.383175	TGGAGACTTATTAGACATTTCAAACCT	58.617	33.333	0.00	0.00	0.00	3.50
3285	3817	2.435372	AGACTTCCACACCTTGCAAA	57.565	45.000	0.00	0.00	0.00	3.68
3308	3840	4.527944	TCCACCACAAGATAAACACACAA	58.472	39.130	0.00	0.00	0.00	3.33
3402	3936	2.870411	GACCAATTATAGGGCACGACAC	59.130	50.000	0.00	0.00	33.02	3.67
3403	3937	2.237643	ACCAATTATAGGGCACGACACA	59.762	45.455	0.00	0.00	0.00	3.72
3430	3965	3.740321	CGCGTCTCTACCCTACTAGTAAG	59.260	52.174	3.76	0.00	0.00	2.34
3473	4008	1.679944	GCCTCTGGCTAACTTCATGCA	60.680	52.381	0.73	0.00	46.69	3.96
3474	4009	2.928334	CCTCTGGCTAACTTCATGCAT	58.072	47.619	0.00	0.00	0.00	3.96
3475	4010	2.617308	CCTCTGGCTAACTTCATGCATG	59.383	50.000	21.07	21.07	0.00	4.06
3476	4011	3.276857	CTCTGGCTAACTTCATGCATGT	58.723	45.455	25.43	9.58	0.00	3.21
3481	4016	4.096833	TGGCTAACTTCATGCATGTTGATC	59.903	41.667	25.43	10.23	0.00	2.92
3513	4048	0.320374	TGTGTTCTGGTCCCGATGTC	59.680	55.000	0.00	0.00	0.00	3.06
3517	4052	0.904865	TTCTGGTCCCGATGTCTGCT	60.905	55.000	0.00	0.00	0.00	4.24
3550	4085	3.734293	CGAGATTTCGGGTCCTACAACTC	60.734	52.174	0.00	0.00	43.05	3.01
3569	4104	5.064441	ACTCGTTTGTACTACATGGTACC	57.936	43.478	4.43	4.43	40.72	3.34
3570	4105	4.082026	ACTCGTTTGTACTACATGGTACCC	60.082	45.833	10.07	0.00	40.72	3.69
3571	4106	3.119531	TCGTTTGTACTACATGGTACCCG	60.120	47.826	10.07	2.83	40.72	5.28
3593	4128	0.162294	GCGTTGCTGCAGAAATTTGC	59.838	50.000	20.43	15.21	44.33	3.68
3624	4159	8.193250	AGAGTTGATGCAATGATAAATTTTGC	57.807	30.769	0.00	0.00	44.59	3.68
3662	4201	6.683974	AACATATACTTGTTAGCTGGCTTG	57.316	37.500	0.00	0.00	38.04	4.01
3683	4222	2.202946	GCCGTAGAGCTTGGCCTC	60.203	66.667	3.32	0.00	43.06	4.70
3684	4223	2.726351	GCCGTAGAGCTTGGCCTCT	61.726	63.158	3.32	0.00	43.06	3.69
3685	4224	1.392710	GCCGTAGAGCTTGGCCTCTA	61.393	60.000	3.32	0.00	43.06	2.43
3688	4227	1.604185	CGTAGAGCTTGGCCTCTATGC	60.604	57.143	3.32	0.00	43.97	3.14
3700	4239	3.330267	GCCTCTATGCTTGCTATGTACC	58.670	50.000	0.00	0.00	0.00	3.34
3701	4240	3.007398	GCCTCTATGCTTGCTATGTACCT	59.993	47.826	0.00	0.00	0.00	3.08
3715	4254	0.527565	GTACCTGTTGCATGGCCTTG	59.472	55.000	14.22	14.22	0.00	3.61
3723	4262	3.085119	GCATGGCCTTGGGTGATGC	62.085	63.158	19.47	12.87	34.27	3.91
3728	4267	0.323360	GGCCTTGGGTGATGCAGTTA	60.323	55.000	0.00	0.00	0.00	2.24
3749	4288	9.826574	CAGTTATTGGCTATAGGTAAAGTGTTA	57.173	33.333	1.04	0.00	0.00	2.41
3758	4298	9.490379	GCTATAGGTAAAGTGTTAATGCAGTAT	57.510	33.333	1.04	0.00	0.00	2.12

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
22	23	4.489810	CGCTCTGTTCTCAGTATTCAGTT	58.510	43.478	0.00	0.00	41.91	3.16
39	40	1.446272	GCCACGAAACTAGCGCTCT	60.446	57.895	16.34	0.00	0.00	4.09
51	52	2.449031	AATGCGAACTCCAGCCACGA	62.449	55.000	0.00	0.00	0.00	4.35
52	53	2.034879	AATGCGAACTCCAGCCACG	61.035	57.895	0.00	0.00	0.00	4.94
80	81	1.147600	ACGGACTCAAAAGCGGGTT	59.852	52.632	0.00	0.00	0.00	4.11
179	181	2.059756	AAGGGGGAAGAATCACTCCA	57.940	50.000	4.18	0.00	24.83	3.86
248	252	1.922545	GTCGAGTGCCGTTTATACACC	59.077	52.381	0.00	0.00	39.75	4.16
321	327	4.922206	TGGCTGAGGTTGATTTTGTAGAT	58.078	39.130	0.00	0.00	0.00	1.98
336	342	0.249238	GAGCTGTCGGTATGGCTGAG	60.249	60.000	0.00	0.00	35.01	3.35
356	362	7.289782	AGTGAGATCATAATTTGTCCTCTAGCT	59.710	37.037	0.00	0.00	0.00	3.32
385	391	8.601845	ATTTGTTTTTGTGGGAATAAGCTAAC	57.398	30.769	0.00	0.00	0.00	2.34
399	405	9.853555	GAAATTTTTCTTGGGATTTGTTTTTGT	57.146	25.926	0.00	0.00	34.41	2.83
433	439	4.865365	CGCAAAAAGAAAAACACCACCTAA	59.135	37.500	0.00	0.00	0.00	2.69
442	451	6.325849	TGCTAGTTTCGCAAAAAGAAAAAC	57.674	33.333	0.00	0.00	39.03	2.43
457	466	5.049828	GCTTTGACATGGTTTTGCTAGTTT	58.950	37.500	0.00	0.00	0.00	2.66
518	527	4.993028	AGTACTCTGTGGGCCAAAAATTA	58.007	39.130	8.40	0.00	0.00	1.40
540	549	3.702792	TGAACAAAACAGGGGTCAGAAA	58.297	40.909	0.00	0.00	0.00	2.52
645	657	8.973182	TGTAGGTTTTTGAGGAAATAACACTTT	58.027	29.630	0.00	0.00	0.00	2.66
666	679	2.289694	ACTTGTAAGTGCTGGCTGTAGG	60.290	50.000	0.00	0.00	37.98	3.18
667	680	3.045601	ACTTGTAAGTGCTGGCTGTAG	57.954	47.619	0.00	0.00	37.98	2.74
672	696	1.946768	TCACAACTTGTAAGTGCTGGC	59.053	47.619	0.00	0.00	39.66	4.85
700	724	0.251297	TGGTTGCATCAAGGACAGGG	60.251	55.000	0.00	0.00	0.00	4.45
740	764	0.525761	CCATACAAGGCCGTGGTTTG	59.474	55.000	23.09	15.42	0.00	2.93
853	879	3.555956	GTGAGATGACAAAACTGACGTGT	59.444	43.478	0.00	0.00	0.00	4.49
939	981	1.096967	CCAATATGACTGGCGCTGCA	61.097	55.000	7.64	0.41	0.00	4.41
950	992	5.132502	CAGCCAACTATGAACCCAATATGA	58.867	41.667	0.00	0.00	0.00	2.15
1063	1110	7.094205	GCTTTTCCATCTTGAAATCTTAGTGGA	60.094	37.037	0.00	0.00	34.41	4.02
1156	1203	6.837471	AACCCCAAAACCCTTTTTAAAAAC	57.163	33.333	9.31	0.00	32.90	2.43
1194	1241	1.621814	ACACTGCCGTACCTTGTGTAT	59.378	47.619	6.75	0.00	39.65	2.29
1293	1340	4.116747	ACCAAAGCTAATCTCTGACTCG	57.883	45.455	0.00	0.00	0.00	4.18
1402	1449	7.692460	TGGATGGCTTTAATATATCAAGCAG	57.308	36.000	22.20	0.00	44.04	4.24
1414	1461	2.509569	TCGCAACTTGGATGGCTTTAA	58.490	42.857	0.00	0.00	0.00	1.52
1621	1672	9.635520	ACACATGTACTTGTATAGTCAACTTAC	57.364	33.333	13.51	0.00	38.33	2.34
1637	1690	4.083324	CCATCTTGCGAAAACACATGTACT	60.083	41.667	0.00	0.00	0.00	2.73
1809	2119	7.774625	TCATGTTTAAGATCAACTATGCCATCA	59.225	33.333	0.00	0.00	0.00	3.07
1894	2204	7.924947	TGAGTATACTTCTTTCAGCATCATCTG	59.075	37.037	6.88	0.00	35.46	2.90
2015	2325	7.118723	TGTGGTGAATATTTCTTTCAGCCTAT	58.881	34.615	11.66	0.00	46.10	2.57
2072	2382	0.387202	CTGTAGTGCATCCTCCTCGG	59.613	60.000	0.00	0.00	0.00	4.63
2136	2446	2.094675	ACCATGCCAGAAATTTCTCCG	58.905	47.619	17.91	11.83	34.74	4.63
2195	2505	3.074094	AGCTCCGGTCCATATACTAGTGA	59.926	47.826	5.39	0.00	0.00	3.41
2211	2521	1.159285	TGCTCAACATGAAAGCTCCG	58.841	50.000	15.87	0.00	36.96	4.63
2332	2642	2.369860	TCGCCTCCTTGATGCATCTATT	59.630	45.455	26.32	0.00	0.00	1.73
2475	2785	3.308530	GTGTGCCAGCTTATTGTTGAAC	58.691	45.455	0.00	0.00	0.00	3.18
2504	2814	3.553715	CGGATCATACACATGAGGGTCAG	60.554	52.174	0.00	0.00	44.30	3.51
2556	2866	5.881923	AAGAGTACTCACCACCAACTTTA	57.118	39.130	24.44	0.00	0.00	1.85
2962	3412	6.491403	AGTGAAAATAGATTCAACTTGGCTGT	59.509	34.615	0.00	0.00	40.76	4.40
3042	3499	7.976135	AATTTATGCTTTACAAACCATTGCA	57.024	28.000	0.00	0.00	40.34	4.08
3113	3644	9.289782	GTTTGATATGTCTTATAAGGCTCCATT	57.710	33.333	17.59	0.00	0.00	3.16
3163	3695	7.273320	TGAAATGTCCTATAGTTAGTCTCCG	57.727	40.000	0.00	0.00	0.00	4.63
3203	3735	5.957771	AATAAGTCTCCATGCACCTCTTA	57.042	39.130	0.00	0.00	0.00	2.10
3285	3817	4.724399	TGTGTGTTTATCTTGTGGTGGAT	58.276	39.130	0.00	0.00	0.00	3.41
3358	3892	9.821662	GGTCTGTTGTTATATTTGTAACTCAAC	57.178	33.333	0.00	0.00	35.94	3.18
3382	3916	2.237643	TGTGTCGTGCCCTATAATTGGT	59.762	45.455	0.00	0.00	0.00	3.67
3402	3936	2.181021	GGTAGAGACGCGGTGGTG	59.819	66.667	12.47	0.00	0.00	4.17
3403	3937	2.202236	TAGGGTAGAGACGCGGTGGT	62.202	60.000	12.47	0.00	43.15	4.16
3430	3965	7.807687	GCATGTATCATGCCTCATAATTTTC	57.192	36.000	19.88	0.00	39.01	2.29
3473	4008	4.877823	ACACGCACATGAATAGATCAACAT	59.122	37.500	0.00	0.00	42.54	2.71
3474	4009	4.093261	CACACGCACATGAATAGATCAACA	59.907	41.667	0.00	0.00	42.54	3.33
3475	4010	4.093408	ACACACGCACATGAATAGATCAAC	59.907	41.667	0.00	0.00	42.54	3.18
3476	4011	4.252878	ACACACGCACATGAATAGATCAA	58.747	39.130	0.00	0.00	42.54	2.57
3481	4016	3.181517	CCAGAACACACGCACATGAATAG	60.182	47.826	0.00	0.00	0.00	1.73
3517	4052	1.710013	GAAATCTCGTCGGTGCTCAA	58.290	50.000	0.00	0.00	0.00	3.02
3571	4106	3.615536	ATTTCTGCAGCAACGCGCC	62.616	57.895	9.47	0.00	44.04	6.53
3586	4121	5.105797	TGCATCAACTCTTATCCGCAAATTT	60.106	36.000	0.00	0.00	0.00	1.82
3593	4128	5.936686	ATCATTGCATCAACTCTTATCCG	57.063	39.130	0.00	0.00	0.00	4.18
3662	4201	2.754995	GCCAAGCTCTACGGCAAGC	61.755	63.158	10.58	0.00	45.52	4.01
3669	4208	1.691434	AGCATAGAGGCCAAGCTCTAC	59.309	52.381	5.01	0.00	35.34	2.59
3683	4222	4.024556	GCAACAGGTACATAGCAAGCATAG	60.025	45.833	0.00	0.00	0.00	2.23
3684	4223	3.876914	GCAACAGGTACATAGCAAGCATA	59.123	43.478	0.00	0.00	0.00	3.14
3685	4224	2.684881	GCAACAGGTACATAGCAAGCAT	59.315	45.455	0.00	0.00	0.00	3.79
3688	4227	3.065786	CCATGCAACAGGTACATAGCAAG	59.934	47.826	5.74	2.38	35.45	4.01
3700	4239	1.909781	ACCCAAGGCCATGCAACAG	60.910	57.895	5.01	0.00	0.00	3.16
3701	4240	2.200930	ACCCAAGGCCATGCAACA	59.799	55.556	5.01	0.00	0.00	3.33
3715	4254	1.767759	AGCCAATAACTGCATCACCC	58.232	50.000	0.00	0.00	0.00	4.61
3723	4262	8.732746	AACACTTTACCTATAGCCAATAACTG	57.267	34.615	0.00	0.00	0.00	3.16
3728	4267	7.777910	TGCATTAACACTTTACCTATAGCCAAT	59.222	33.333	0.00	0.00	0.00	3.16
3749	4288	9.838339	AGCTACTAAACTAAATCATACTGCATT	57.162	29.630	0.00	0.00	0.00	3.56

Based at the University of Bristol with support from BBSRC.

AutoCloner maintained by Alex Coulton.