AutoCloner

Multiple sequence alignment - TraesCS5D01G128100

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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	TraesCS5D01G128100	chr5D	100.000	2648	0	0	1	2648	199883416	199886063	0.000000e+00	4891.0
1	TraesCS5D01G128100	chr5D	100.000	31	0	0	566	596	56930379	56930349	1.020000e-04	58.4
2	TraesCS5D01G128100	chr5B	94.942	1206	36	6	918	2112	210734481	210735672	0.000000e+00	1866.0
3	TraesCS5D01G128100	chr5B	96.846	539	16	1	2111	2648	210735768	210736306	0.000000e+00	900.0
4	TraesCS5D01G128100	chr5B	86.325	585	49	15	16	574	210581782	210582361	2.250000e-170	608.0
5	TraesCS5D01G128100	chr5B	89.655	116	12	0	606	721	210732614	210732729	5.910000e-32	148.0
6	TraesCS5D01G128100	chr5A	94.118	1071	37	5	852	1919	217146535	217147582	0.000000e+00	1605.0
7	TraesCS5D01G128100	chr5A	92.572	552	18	5	2103	2648	217148028	217148562	0.000000e+00	771.0
8	TraesCS5D01G128100	chr5A	83.533	583	59	14	16	574	217138590	217139159	6.540000e-141	510.0
9	TraesCS5D01G128100	chr5A	92.908	141	9	1	603	742	217139711	217139851	1.240000e-48	204.0
10	TraesCS5D01G128100	chr5A	87.234	47	6	0	550	596	633965750	633965796	1.000000e-03	54.7
11	TraesCS5D01G128100	chr1D	78.299	576	86	21	16	574	222349870	222349317	4.220000e-88	335.0
12	TraesCS5D01G128100	chr1D	86.869	99	12	1	385	483	193202578	193202481	2.790000e-20	110.0
13	TraesCS5D01G128100	chr6B	77.682	578	81	32	35	574	447948577	447948010	2.560000e-80	309.0
14	TraesCS5D01G128100	chr6B	75.258	582	95	33	35	574	568266261	568265687	5.700000e-57	231.0
15	TraesCS5D01G128100	chr2B	77.861	533	67	19	39	541	278407114	278406603	1.550000e-72	283.0
16	TraesCS5D01G128100	chr4D	75.455	550	83	30	16	515	212831167	212831714	1.230000e-53	220.0
17	TraesCS5D01G128100	chr4B	81.226	261	41	8	35	291	136065776	136066032	1.240000e-48	204.0
18	TraesCS5D01G128100	chr4B	78.947	285	51	9	17	295	89064909	89065190	4.500000e-43	185.0
19	TraesCS5D01G128100	chr4B	77.011	261	43	16	326	574	182786241	182785986	1.650000e-27	134.0
20	TraesCS5D01G128100	chr3D	80.385	260	45	6	35	290	95889601	95889858	2.690000e-45	193.0
21	TraesCS5D01G128100	chr3D	79.699	266	48	6	35	295	251028906	251028642	1.250000e-43	187.0
22	TraesCS5D01G128100	chr3D	94.737	38	1	1	560	596	36015654	36015617	1.020000e-04	58.4
23	TraesCS5D01G128100	chr3D	94.595	37	0	2	561	596	16318155	16318190	3.680000e-04	56.5
24	TraesCS5D01G128100	chr3B	80.833	240	40	6	38	273	242908972	242909209	1.620000e-42	183.0
25	TraesCS5D01G128100	chr3B	97.143	35	1	0	566	600	738697165	738697199	2.850000e-05	60.2
26	TraesCS5D01G128100	chr7D	81.977	172	20	6	357	519	338855800	338855969	4.600000e-28	135.0
27	TraesCS5D01G128100	chr7D	79.558	181	28	6	345	518	389087484	389087306	1.290000e-23	121.0
28	TraesCS5D01G128100	chr4A	77.095	179	25	12	356	523	545201122	545200949	3.630000e-14	89.8
29	TraesCS5D01G128100	chr4A	100.000	31	0	0	566	596	119696744	119696774	1.020000e-04	58.4
30	TraesCS5D01G128100	chr2D	97.222	36	0	1	561	596	6663521	6663487	2.850000e-05	60.2
31	TraesCS5D01G128100	chr1B	100.000	31	0	0	566	596	14503712	14503742	1.020000e-04	58.4
32	TraesCS5D01G128100	chr6D	90.698	43	2	2	556	596	469577315	469577273	3.680000e-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	TraesCS5D01G128100	chr5D	199883416	199886063	2647	False	4891.000000	4891	100.000000	1	2648	1	chr5D.!!$F1	2647
1	TraesCS5D01G128100	chr5B	210732614	210736306	3692	False	971.333333	1866	93.814333	606	2648	3	chr5B.!!$F2	2042
2	TraesCS5D01G128100	chr5B	210581782	210582361	579	False	608.000000	608	86.325000	16	574	1	chr5B.!!$F1	558
3	TraesCS5D01G128100	chr5A	217146535	217148562	2027	False	1188.000000	1605	93.345000	852	2648	2	chr5A.!!$F3	1796
4	TraesCS5D01G128100	chr5A	217138590	217139851	1261	False	357.000000	510	88.220500	16	742	2	chr5A.!!$F2	726
5	TraesCS5D01G128100	chr1D	222349317	222349870	553	True	335.000000	335	78.299000	16	574	1	chr1D.!!$R2	558
6	TraesCS5D01G128100	chr6B	447948010	447948577	567	True	309.000000	309	77.682000	35	574	1	chr6B.!!$R1	539
7	TraesCS5D01G128100	chr6B	568265687	568266261	574	True	231.000000	231	75.258000	35	574	1	chr6B.!!$R2	539
8	TraesCS5D01G128100	chr2B	278406603	278407114	511	True	283.000000	283	77.861000	39	541	1	chr2B.!!$R1	502
9	TraesCS5D01G128100	chr4D	212831167	212831714	547	False	220.000000	220	75.455000	16	515	1	chr4D.!!$F1	499

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
777	1381	0.24912	CATCCTACGTGCTTGGTGGA	59.751	55.0	0.0	0.0	0.0	4.02	F

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability	Orientation
2494	5239	0.251341	ACCATGTGGAGGAAAGGTGC	60.251	55.0	5.96	0.0	38.94	5.01	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
27	28	7.659799	TCCTCGATCTTTTAGTGTCAAATCAAA	59.340	33.333	0.00	0.00	0.00	2.69
29	30	9.107367	CTCGATCTTTTAGTGTCAAATCAAAAC	57.893	33.333	0.00	0.00	0.00	2.43
157	166	0.863956	TGTGGATGGTTTCCCCCTTT	59.136	50.000	0.00	0.00	44.77	3.11
231	241	2.201732	GACGGCGAGCAATTATTCTCA	58.798	47.619	16.62	0.00	0.00	3.27
545	623	9.639563	TGCACCAGATCCATATAGAATTAAAAA	57.360	29.630	0.00	0.00	0.00	1.94
583	663	6.134754	ACTTCATAAGTTATACTCCCTCCGT	58.865	40.000	0.00	0.00	39.04	4.69
584	664	6.264970	ACTTCATAAGTTATACTCCCTCCGTC	59.735	42.308	0.00	0.00	39.04	4.79
586	666	2.378378	AGTTATACTCCCTCCGTCCC	57.622	55.000	0.00	0.00	0.00	4.46
587	667	1.572415	AGTTATACTCCCTCCGTCCCA	59.428	52.381	0.00	0.00	0.00	4.37
591	1056	1.961133	TACTCCCTCCGTCCCAAAAT	58.039	50.000	0.00	0.00	0.00	1.82
599	1064	1.276989	TCCGTCCCAAAATAAGTCGCT	59.723	47.619	0.00	0.00	0.00	4.93
600	1065	1.396996	CCGTCCCAAAATAAGTCGCTG	59.603	52.381	0.00	0.00	0.00	5.18
604	1069	0.523335	CCAAAATAAGTCGCTGCCGC	60.523	55.000	0.00	0.00	0.00	6.53
626	1230	1.410517	CTCTGGCGTGATGGATGTAGT	59.589	52.381	0.00	0.00	0.00	2.73
627	1231	1.136891	TCTGGCGTGATGGATGTAGTG	59.863	52.381	0.00	0.00	0.00	2.74
673	1277	1.067250	GAGAGAGGAGATGCACGCC	59.933	63.158	0.00	0.00	38.77	5.68
728	1332	1.497991	TTCGCACGAGGTTGAAGAAG	58.502	50.000	0.00	0.00	0.00	2.85
742	1346	1.735018	GAAGAAGAAAGCGAAGAGGGC	59.265	52.381	0.00	0.00	0.00	5.19
743	1347	0.687354	AGAAGAAAGCGAAGAGGGCA	59.313	50.000	0.00	0.00	0.00	5.36
744	1348	1.082690	GAAGAAAGCGAAGAGGGCAG	58.917	55.000	0.00	0.00	0.00	4.85
745	1349	0.957888	AAGAAAGCGAAGAGGGCAGC	60.958	55.000	0.00	0.00	0.00	5.25
746	1350	2.743928	AAAGCGAAGAGGGCAGCG	60.744	61.111	0.00	0.00	34.34	5.18
747	1351	3.537206	AAAGCGAAGAGGGCAGCGT	62.537	57.895	0.00	0.00	34.34	5.07
748	1352	4.749310	AGCGAAGAGGGCAGCGTG	62.749	66.667	0.00	0.00	34.34	5.34
750	1354	4.069232	CGAAGAGGGCAGCGTGGA	62.069	66.667	0.00	0.00	0.00	4.02
751	1355	2.586792	GAAGAGGGCAGCGTGGAT	59.413	61.111	0.00	0.00	0.00	3.41
752	1356	1.817099	GAAGAGGGCAGCGTGGATG	60.817	63.158	0.00	0.00	0.00	3.51
753	1357	3.335356	AAGAGGGCAGCGTGGATGG	62.335	63.158	0.00	0.00	0.00	3.51
763	1367	4.195334	GTGGATGGCCCGCATCCT	62.195	66.667	18.74	0.00	46.56	3.24
764	1368	2.447572	TGGATGGCCCGCATCCTA	60.448	61.111	18.74	5.66	46.56	2.94
765	1369	2.032681	GGATGGCCCGCATCCTAC	59.967	66.667	12.39	0.00	43.88	3.18
766	1370	2.357517	GATGGCCCGCATCCTACG	60.358	66.667	0.00	0.00	0.00	3.51
767	1371	3.161450	ATGGCCCGCATCCTACGT	61.161	61.111	0.00	0.00	0.00	3.57
768	1372	3.460672	ATGGCCCGCATCCTACGTG	62.461	63.158	0.00	0.00	0.00	4.49
770	1374	4.530857	GCCCGCATCCTACGTGCT	62.531	66.667	0.00	0.00	40.37	4.40
771	1375	2.186903	CCCGCATCCTACGTGCTT	59.813	61.111	0.00	0.00	40.37	3.91
772	1376	2.173669	CCCGCATCCTACGTGCTTG	61.174	63.158	0.00	0.00	40.37	4.01
773	1377	2.173669	CCGCATCCTACGTGCTTGG	61.174	63.158	0.00	0.00	40.37	3.61
774	1378	1.447838	CGCATCCTACGTGCTTGGT	60.448	57.895	0.00	0.00	40.37	3.67
775	1379	1.695893	CGCATCCTACGTGCTTGGTG	61.696	60.000	0.00	0.00	40.37	4.17
776	1380	1.369091	GCATCCTACGTGCTTGGTGG	61.369	60.000	0.00	0.00	39.45	4.61
777	1381	0.249120	CATCCTACGTGCTTGGTGGA	59.751	55.000	0.00	0.00	0.00	4.02
778	1382	1.134401	CATCCTACGTGCTTGGTGGAT	60.134	52.381	0.00	0.00	34.98	3.41
779	1383	0.249120	TCCTACGTGCTTGGTGGATG	59.751	55.000	0.00	0.00	0.00	3.51
780	1384	0.744414	CCTACGTGCTTGGTGGATGG	60.744	60.000	0.00	0.00	0.00	3.51
781	1385	1.369091	CTACGTGCTTGGTGGATGGC	61.369	60.000	0.00	0.00	0.00	4.40
782	1386	2.813226	TACGTGCTTGGTGGATGGCC	62.813	60.000	0.00	0.00	0.00	5.36
783	1387	3.443045	GTGCTTGGTGGATGGCCG	61.443	66.667	0.00	0.00	36.79	6.13
784	1388	4.738998	TGCTTGGTGGATGGCCGG	62.739	66.667	0.00	0.00	36.79	6.13
818	1422	2.084610	GGTCGGCCGGGTATATAAAC	57.915	55.000	27.83	12.52	0.00	2.01
819	1423	1.669795	GGTCGGCCGGGTATATAAACG	60.670	57.143	27.83	0.00	0.00	3.60
820	1424	1.000274	GTCGGCCGGGTATATAAACGT	60.000	52.381	27.83	0.00	0.00	3.99
821	1425	2.227865	GTCGGCCGGGTATATAAACGTA	59.772	50.000	27.83	0.00	0.00	3.57
822	1426	3.088532	TCGGCCGGGTATATAAACGTAT	58.911	45.455	27.83	0.00	0.00	3.06
823	1427	3.509575	TCGGCCGGGTATATAAACGTATT	59.490	43.478	27.83	0.00	0.00	1.89
826	1434	5.288472	CGGCCGGGTATATAAACGTATTAAC	59.712	44.000	20.10	0.00	0.00	2.01
844	1452	6.916360	ATTAACAAAGCTCCCAATCTTCAA	57.084	33.333	0.00	0.00	0.00	2.69
846	1454	5.612725	AACAAAGCTCCCAATCTTCAAAA	57.387	34.783	0.00	0.00	0.00	2.44
847	1455	5.612725	ACAAAGCTCCCAATCTTCAAAAA	57.387	34.783	0.00	0.00	0.00	1.94
885	1493	0.661020	AGGCGGTTGTTGTTTTCTCG	59.339	50.000	0.00	0.00	0.00	4.04
961	3206	2.012902	ATTCGCGGAGGGTCTAACGG	62.013	60.000	6.13	0.00	42.82	4.44
1038	3283	1.802715	CAAATCGCAGCCAAAGCCG	60.803	57.895	0.00	0.00	41.25	5.52
1081	3326	4.103103	CACTCTCGCTGCCGTCGA	62.103	66.667	0.00	0.00	35.54	4.20
1082	3327	4.104417	ACTCTCGCTGCCGTCGAC	62.104	66.667	5.18	5.18	35.54	4.20
1210	3464	2.262915	CTCCTCGCACCACCTCAC	59.737	66.667	0.00	0.00	0.00	3.51
1272	3526	2.176273	CCCCAAGAGCAATCTCGCG	61.176	63.158	0.00	0.00	44.02	5.87
1675	3929	2.029623	GGGCGGACTACACAGAGATAA	58.970	52.381	0.00	0.00	0.00	1.75
1676	3930	2.034812	GGGCGGACTACACAGAGATAAG	59.965	54.545	0.00	0.00	0.00	1.73
1677	3931	2.688958	GGCGGACTACACAGAGATAAGT	59.311	50.000	0.00	0.00	0.00	2.24
1709	3963	8.781196	CAATAATTAACATGTCTGATCCTCTGG	58.219	37.037	0.00	0.00	0.00	3.86
1755	4010	1.003839	TTGCTGGGGTCACATCGAC	60.004	57.895	0.00	0.00	44.57	4.20
1828	4083	2.703798	ATGAACAGCATGCGCCACC	61.704	57.895	13.01	2.70	42.53	4.61
1863	4118	3.317711	TGCTTTCGTTTGTTCATGGATGT	59.682	39.130	0.00	0.00	0.00	3.06
1885	4140	3.621268	TGTGTGTCTCGAGAAAAGTTTGG	59.379	43.478	18.55	0.00	0.00	3.28
1999	4387	1.282875	GAAGTTGTTGCGGGAGTGC	59.717	57.895	0.00	0.00	0.00	4.40
2018	4406	1.674817	GCCGTATGCTACACCTGTTGT	60.675	52.381	0.00	0.00	42.84	3.32
2063	4451	4.020307	CCCCATGAATTAGCACCAAACTTT	60.020	41.667	0.00	0.00	0.00	2.66
2088	4476	3.692257	AGTGATCACCCTATATGCAGC	57.308	47.619	22.21	0.00	0.00	5.25
2097	4485	3.757493	ACCCTATATGCAGCGTACTACTC	59.243	47.826	0.00	0.00	0.00	2.59
2116	4854	2.356069	CTCTGCGCAGACACATAGTAGA	59.644	50.000	35.30	11.59	33.22	2.59
2135	4873	3.015327	AGATGGCATTGCAGAGAAGAAC	58.985	45.455	11.39	0.00	0.00	3.01
2369	5113	1.405661	GGTCGCTCCTAAAGGACCTTG	60.406	57.143	7.72	0.00	39.96	3.61
2370	5114	0.249398	TCGCTCCTAAAGGACCTTGC	59.751	55.000	7.72	5.45	39.78	4.01
2430	5175	3.350909	TTGATCAGCCGGTCGGTCG	62.351	63.158	11.25	2.87	37.65	4.79
2494	5239	0.465705	ATAGGTGTCCATGTGCTCGG	59.534	55.000	0.00	0.00	0.00	4.63

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
0	1	7.331026	TGATTTGACACTAAAAGATCGAGGAT	58.669	34.615	0.00	0.00	0.00	3.24
1	2	6.697395	TGATTTGACACTAAAAGATCGAGGA	58.303	36.000	0.00	0.00	0.00	3.71
2	3	6.968131	TGATTTGACACTAAAAGATCGAGG	57.032	37.500	0.00	0.00	0.00	4.63
3	4	9.107367	GTTTTGATTTGACACTAAAAGATCGAG	57.893	33.333	0.00	0.00	0.00	4.04
4	5	8.616942	TGTTTTGATTTGACACTAAAAGATCGA	58.383	29.630	0.00	0.00	0.00	3.59
5	6	8.781067	TGTTTTGATTTGACACTAAAAGATCG	57.219	30.769	0.00	0.00	0.00	3.69
11	12	9.311916	CCTCATTTGTTTTGATTTGACACTAAA	57.688	29.630	0.00	0.00	0.00	1.85
12	13	8.690884	TCCTCATTTGTTTTGATTTGACACTAA	58.309	29.630	0.00	0.00	0.00	2.24
13	14	8.231692	TCCTCATTTGTTTTGATTTGACACTA	57.768	30.769	0.00	0.00	0.00	2.74
14	15	7.068593	TCTCCTCATTTGTTTTGATTTGACACT	59.931	33.333	0.00	0.00	0.00	3.55
27	28	6.429385	GTGTTTGATCTCTCTCCTCATTTGTT	59.571	38.462	0.00	0.00	0.00	2.83
29	30	5.936372	TGTGTTTGATCTCTCTCCTCATTTG	59.064	40.000	0.00	0.00	0.00	2.32
105	112	1.510492	TCATCCTTGCTGCCTCCATA	58.490	50.000	0.00	0.00	0.00	2.74
220	230	8.457261	CCTCCAGAAAGAAACTGAGAATAATTG	58.543	37.037	0.00	0.00	37.54	2.32
574	654	2.238898	ACTTATTTTGGGACGGAGGGAG	59.761	50.000	0.00	0.00	0.00	4.30
575	655	2.237893	GACTTATTTTGGGACGGAGGGA	59.762	50.000	0.00	0.00	0.00	4.20
576	656	2.640184	GACTTATTTTGGGACGGAGGG	58.360	52.381	0.00	0.00	0.00	4.30
577	657	2.277084	CGACTTATTTTGGGACGGAGG	58.723	52.381	0.00	0.00	0.00	4.30
578	658	1.664151	GCGACTTATTTTGGGACGGAG	59.336	52.381	0.00	0.00	0.00	4.63
579	659	1.276989	AGCGACTTATTTTGGGACGGA	59.723	47.619	0.00	0.00	0.00	4.69
580	660	1.396996	CAGCGACTTATTTTGGGACGG	59.603	52.381	0.00	0.00	0.00	4.79
581	661	1.202031	GCAGCGACTTATTTTGGGACG	60.202	52.381	0.00	0.00	0.00	4.79
583	663	1.459450	GGCAGCGACTTATTTTGGGA	58.541	50.000	0.00	0.00	0.00	4.37
584	664	0.098728	CGGCAGCGACTTATTTTGGG	59.901	55.000	0.00	0.00	0.00	4.12
586	666	2.930168	GCGGCAGCGACTTATTTTG	58.070	52.632	0.00	0.00	0.00	2.44
604	1069	0.463204	ACATCCATCACGCCAGAGAG	59.537	55.000	0.00	0.00	0.00	3.20
728	1332	2.744768	CGCTGCCCTCTTCGCTTTC	61.745	63.158	0.00	0.00	0.00	2.62
757	1361	1.369091	CCACCAAGCACGTAGGATGC	61.369	60.000	0.00	0.00	43.74	3.91
758	1362	0.249120	TCCACCAAGCACGTAGGATG	59.751	55.000	0.00	0.00	0.00	3.51
759	1363	1.134401	CATCCACCAAGCACGTAGGAT	60.134	52.381	0.00	0.00	0.00	3.24
760	1364	0.249120	CATCCACCAAGCACGTAGGA	59.751	55.000	0.00	0.00	0.00	2.94
761	1365	0.744414	CCATCCACCAAGCACGTAGG	60.744	60.000	0.00	0.00	0.00	3.18
762	1366	1.369091	GCCATCCACCAAGCACGTAG	61.369	60.000	0.00	0.00	0.00	3.51
763	1367	1.376683	GCCATCCACCAAGCACGTA	60.377	57.895	0.00	0.00	0.00	3.57
764	1368	2.672996	GCCATCCACCAAGCACGT	60.673	61.111	0.00	0.00	0.00	4.49
765	1369	3.443045	GGCCATCCACCAAGCACG	61.443	66.667	0.00	0.00	0.00	5.34
766	1370	3.443045	CGGCCATCCACCAAGCAC	61.443	66.667	2.24	0.00	0.00	4.40
767	1371	4.738998	CCGGCCATCCACCAAGCA	62.739	66.667	2.24	0.00	0.00	3.91
814	1418	7.608761	AGATTGGGAGCTTTGTTAATACGTTTA	59.391	33.333	0.00	0.00	0.00	2.01
816	1420	5.944007	AGATTGGGAGCTTTGTTAATACGTT	59.056	36.000	0.00	0.00	0.00	3.99
817	1421	5.497474	AGATTGGGAGCTTTGTTAATACGT	58.503	37.500	0.00	0.00	0.00	3.57
818	1422	6.093495	TGAAGATTGGGAGCTTTGTTAATACG	59.907	38.462	0.00	0.00	30.22	3.06
819	1423	7.391148	TGAAGATTGGGAGCTTTGTTAATAC	57.609	36.000	0.00	0.00	30.22	1.89
820	1424	8.415950	TTTGAAGATTGGGAGCTTTGTTAATA	57.584	30.769	0.00	0.00	30.22	0.98
821	1425	6.916360	TTGAAGATTGGGAGCTTTGTTAAT	57.084	33.333	0.00	0.00	30.22	1.40
822	1426	6.723298	TTTGAAGATTGGGAGCTTTGTTAA	57.277	33.333	0.00	0.00	30.22	2.01
823	1427	6.723298	TTTTGAAGATTGGGAGCTTTGTTA	57.277	33.333	0.00	0.00	30.22	2.41
857	1465	2.511600	CAACCGCCTTCCTAGCCG	60.512	66.667	0.00	0.00	0.00	5.52
961	3206	1.144936	CGGGGAGTTGGAGATCAGC	59.855	63.158	0.00	0.00	0.00	4.26
1272	3526	0.759436	TGGACGAGGAGATAAGGCCC	60.759	60.000	0.00	0.00	0.00	5.80
1490	3744	0.676466	CATGCGGCTGGAGTTGGTTA	60.676	55.000	0.00	0.00	0.00	2.85
1540	3794	1.275291	GAGGAACCTGATGACACGGAA	59.725	52.381	0.00	0.00	0.00	4.30
1709	3963	2.049618	TGCCATTTTTCGCGGTGC	60.050	55.556	6.13	0.00	0.00	5.01
1755	4010	2.733552	CCGGATGACGCTAATCAGATTG	59.266	50.000	5.85	0.00	42.52	2.67
1756	4011	2.628178	TCCGGATGACGCTAATCAGATT	59.372	45.455	0.00	0.20	42.52	2.40
1828	4083	4.322101	ACGAAAGCACACTAATTAAGCG	57.678	40.909	0.00	0.00	0.00	4.68
1863	4118	3.621268	CCAAACTTTTCTCGAGACACACA	59.379	43.478	16.36	0.00	0.00	3.72
1885	4140	2.939460	ACTGTGTTGCCAGAAACAAC	57.061	45.000	0.00	0.00	46.05	3.32
1999	4387	2.380084	ACAACAGGTGTAGCATACGG	57.620	50.000	0.00	0.00	46.99	4.02
2018	4406	2.203280	CCACCCACGCTCACCAAA	60.203	61.111	0.00	0.00	0.00	3.28
2041	4429	4.806640	AAGTTTGGTGCTAATTCATGGG	57.193	40.909	0.00	0.00	0.00	4.00
2063	4451	4.408596	TGCATATAGGGTGATCACTTGACA	59.591	41.667	24.50	8.82	0.00	3.58
2088	4476	0.446616	TGTCTGCGCAGAGTAGTACG	59.553	55.000	38.98	10.97	38.27	3.67
2097	4485	2.851805	TCTACTATGTGTCTGCGCAG	57.148	50.000	31.53	31.53	38.63	5.18
2104	4745	4.129380	TGCAATGCCATCTACTATGTGTC	58.871	43.478	1.53	0.00	0.00	3.67
2116	4854	2.799017	TGTTCTTCTCTGCAATGCCAT	58.201	42.857	1.53	0.00	0.00	4.40
2135	4873	4.090066	GGCGTCGTGCTACATATTCTTATG	59.910	45.833	0.00	0.00	45.43	1.90
2369	5113	4.951094	ACCGAGGATCCAAGATACTATAGC	59.049	45.833	15.82	0.00	0.00	2.97
2370	5114	6.127591	CCAACCGAGGATCCAAGATACTATAG	60.128	46.154	15.82	0.00	0.00	1.31
2430	5175	1.444895	CGCCCATTTGAGCACTTGC	60.445	57.895	0.00	0.00	42.49	4.01
2465	5210	6.311200	GCACATGGACACCTATGAAATTTTTC	59.689	38.462	0.00	0.00	37.69	2.29
2468	5213	5.018809	AGCACATGGACACCTATGAAATTT	58.981	37.500	0.00	0.00	0.00	1.82
2494	5239	0.251341	ACCATGTGGAGGAAAGGTGC	60.251	55.000	5.96	0.00	38.94	5.01

Based at the University of Bristol with support from BBSRC.

AutoCloner maintained by Alex Coulton.