AutoCloner

Multiple sequence alignment - TraesCS3D01G365000

Loading Multiple Alignment...

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	TraesCS3D01G365000	chr3D	100.000	3691	0	0	1	3691	479449397	479453087	0.000000e+00	6817
1	TraesCS3D01G365000	chr3D	91.616	2815	208	10	886	3691	479914863	479912068	0.000000e+00	3866
2	TraesCS3D01G365000	chr3D	86.059	3443	344	64	324	3688	478737845	478741229	0.000000e+00	3574
3	TraesCS3D01G365000	chr3D	91.826	2190	169	10	1504	3691	479894850	479892669	0.000000e+00	3044
4	TraesCS3D01G365000	chr3D	86.343	1728	186	27	1968	3688	479213666	479215350	0.000000e+00	1838
5	TraesCS3D01G365000	chr3D	88.956	1159	116	11	2540	3688	479122403	479123559	0.000000e+00	1421
6	TraesCS3D01G365000	chr3D	92.833	893	47	11	1	886	479919243	479918361	0.000000e+00	1279
7	TraesCS3D01G365000	chr3D	83.755	1305	190	19	829	2119	479856361	479855065	0.000000e+00	1216
8	TraesCS3D01G365000	chr3D	87.156	218	21	3	3481	3691	479855071	479854854	1.320000e-59	241
9	TraesCS3D01G365000	chr3B	84.349	3003	333	67	324	3272	639148634	639151553	0.000000e+00	2815
10	TraesCS3D01G365000	chr3B	84.133	3000	356	59	324	3272	639552861	639555791	0.000000e+00	2793
11	TraesCS3D01G365000	chr3B	86.415	2488	242	42	338	2799	639753499	639755916	0.000000e+00	2634
12	TraesCS3D01G365000	chr3B	85.011	2622	292	43	327	2903	639398409	639400974	0.000000e+00	2571
13	TraesCS3D01G365000	chr3B	86.538	208	23	3	1	204	638952466	638952672	1.330000e-54	224
14	TraesCS3D01G365000	chr3B	84.762	210	24	4	1	204	639745762	639745969	1.740000e-48	204
15	TraesCS3D01G365000	chr3B	83.810	210	26	4	1	204	639385432	639385639	3.760000e-45	193
16	TraesCS3D01G365000	chr3B	89.552	134	14	0	1	134	639385091	639385224	1.760000e-38	171
17	TraesCS3D01G365000	chr3A	91.603	1953	158	5	1739	3688	622710636	622712585	0.000000e+00	2693
18	TraesCS3D01G365000	chr3A	90.821	1950	153	5	1740	3688	622719359	622721283	0.000000e+00	2586
19	TraesCS3D01G365000	chr3A	90.457	1949	159	6	1742	3688	622900263	622902186	0.000000e+00	2543
20	TraesCS3D01G365000	chr3A	90.364	1951	164	3	1739	3688	622819043	622820970	0.000000e+00	2540
21	TraesCS3D01G365000	chr3A	91.363	1783	152	2	1907	3688	622891720	622893501	0.000000e+00	2438
22	TraesCS3D01G365000	chr3A	90.171	1699	157	10	1	1694	622817347	622819040	0.000000e+00	2204
23	TraesCS3D01G365000	chr3A	90.106	1698	163	5	1	1694	622717659	622719355	0.000000e+00	2200
24	TraesCS3D01G365000	chr3A	89.894	1702	150	11	1	1694	622708946	622710633	0.000000e+00	2170
25	TraesCS3D01G365000	chr3A	89.265	1714	150	11	1	1694	622898558	622900257	0.000000e+00	2115
26	TraesCS3D01G365000	chr3A	91.809	1172	93	3	1907	3078	622801595	622802763	0.000000e+00	1629

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	TraesCS3D01G365000	chr3D	479449397	479453087	3690	False	6817.0	6817	100.0000	1	3691	1	chr3D.!!$F4	3690
1	TraesCS3D01G365000	chr3D	478737845	478741229	3384	False	3574.0	3574	86.0590	324	3688	1	chr3D.!!$F1	3364
2	TraesCS3D01G365000	chr3D	479892669	479894850	2181	True	3044.0	3044	91.8260	1504	3691	1	chr3D.!!$R1	2187
3	TraesCS3D01G365000	chr3D	479912068	479919243	7175	True	2572.5	3866	92.2245	1	3691	2	chr3D.!!$R3	3690
4	TraesCS3D01G365000	chr3D	479213666	479215350	1684	False	1838.0	1838	86.3430	1968	3688	1	chr3D.!!$F3	1720
5	TraesCS3D01G365000	chr3D	479122403	479123559	1156	False	1421.0	1421	88.9560	2540	3688	1	chr3D.!!$F2	1148
6	TraesCS3D01G365000	chr3D	479854854	479856361	1507	True	728.5	1216	85.4555	829	3691	2	chr3D.!!$R2	2862
7	TraesCS3D01G365000	chr3B	639148634	639151553	2919	False	2815.0	2815	84.3490	324	3272	1	chr3B.!!$F2	2948
8	TraesCS3D01G365000	chr3B	639552861	639555791	2930	False	2793.0	2793	84.1330	324	3272	1	chr3B.!!$F4	2948
9	TraesCS3D01G365000	chr3B	639753499	639755916	2417	False	2634.0	2634	86.4150	338	2799	1	chr3B.!!$F6	2461
10	TraesCS3D01G365000	chr3B	639398409	639400974	2565	False	2571.0	2571	85.0110	327	2903	1	chr3B.!!$F3	2576
11	TraesCS3D01G365000	chr3A	622891720	622893501	1781	False	2438.0	2438	91.3630	1907	3688	1	chr3A.!!$F2	1781
12	TraesCS3D01G365000	chr3A	622708946	622712585	3639	False	2431.5	2693	90.7485	1	3688	2	chr3A.!!$F3	3687
13	TraesCS3D01G365000	chr3A	622717659	622721283	3624	False	2393.0	2586	90.4635	1	3688	2	chr3A.!!$F4	3687
14	TraesCS3D01G365000	chr3A	622817347	622820970	3623	False	2372.0	2540	90.2675	1	3688	2	chr3A.!!$F5	3687
15	TraesCS3D01G365000	chr3A	622898558	622902186	3628	False	2329.0	2543	89.8610	1	3688	2	chr3A.!!$F6	3687
16	TraesCS3D01G365000	chr3A	622801595	622802763	1168	False	1629.0	1629	91.8090	1907	3078	1	chr3A.!!$F1	1171

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
408	416	0.339859	TCTAGATGGTCCAGGGCTGT	59.660	55.0	0.0	0.0	0.0	4.40	F
1596	5154	0.037326	GGACGCTTGGACAGATGACA	60.037	55.0	0.0	0.0	0.0	3.58	F

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability	Orientation
2019	5622	0.600255	CGGCTGACTCACGGTTCTTT	60.600	55.0	0.0	0.0	0.0	2.52	R
3235	6912	0.179084	CCTCCGATGCACAACCGTAT	60.179	55.0	0.0	0.0	0.0	3.06	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
36	37	5.541845	CAGAGTTAGTGGAACATGAGACAA	58.458	41.667	0.00	0.00	44.52	3.18
150	151	0.979187	CCCTTGCTAACCCCCTACGA	60.979	60.000	0.00	0.00	0.00	3.43
164	166	4.593634	CCCCCTACGATTTTCTAATCCTCT	59.406	45.833	0.00	0.00	37.46	3.69
238	241	3.660501	ACACGCAAGAGTCAGTATGAA	57.339	42.857	0.00	0.00	46.31	2.57
309	313	4.646945	AGGGTATGAGATCAGTATATGCCG	59.353	45.833	0.00	0.00	0.00	5.69
407	415	1.047002	CTCTAGATGGTCCAGGGCTG	58.953	60.000	0.00	0.00	0.00	4.85
408	416	0.339859	TCTAGATGGTCCAGGGCTGT	59.660	55.000	0.00	0.00	0.00	4.40
412	420	2.330924	GATGGTCCAGGGCTGTAGGC	62.331	65.000	0.00	0.00	40.90	3.93
428	438	5.512404	GCTGTAGGCCCAAAAATAAAAGGTT	60.512	40.000	0.00	0.00	34.27	3.50
436	446	5.181056	CCCAAAAATAAAAGGTTGACATGCC	59.819	40.000	0.00	0.00	0.00	4.40
554	576	4.808364	CCATTTTTGATGACACCACGTTTT	59.192	37.500	0.00	0.00	0.00	2.43
685	717	4.034048	CACACGGTTTACTCATATCCTTGC	59.966	45.833	0.00	0.00	0.00	4.01
700	732	1.078759	CTTGCCTCTCACGCTAACGG	61.079	60.000	0.00	0.00	46.04	4.44
719	751	0.457853	GGCGTAATGCTCAGTCGTCA	60.458	55.000	0.00	0.00	45.43	4.35
720	752	1.560923	GCGTAATGCTCAGTCGTCAT	58.439	50.000	0.00	0.00	41.73	3.06
735	768	1.534175	CGTCATTACTGAGGCGTCTCC	60.534	57.143	15.72	0.00	39.23	3.71
964	4499	5.032327	ACTGATGCTTATCTCTTGCATGA	57.968	39.130	4.36	1.92	45.90	3.07
967	4502	5.374071	TGATGCTTATCTCTTGCATGATGT	58.626	37.500	2.33	0.00	45.90	3.06
983	4518	6.443527	TGCATGATGTAGGCTATAAATAGGGA	59.556	38.462	0.00	0.00	36.92	4.20
1146	4701	1.187087	GTGTTCTCGGAGGTGAGGAT	58.813	55.000	4.96	0.00	36.61	3.24
1193	4751	2.508891	CCATCTTCGCGCTGACGTC	61.509	63.158	9.11	9.11	42.83	4.34
1272	4830	3.943381	TGGATGAGTTCATGAGCAACATC	59.057	43.478	25.77	25.77	37.07	3.06
1303	4861	1.301716	GAGTTCCAAGCAGCGACCA	60.302	57.895	0.00	0.00	0.00	4.02
1331	4889	3.338250	GGTGGGCATGGAGGTGGA	61.338	66.667	0.00	0.00	0.00	4.02
1351	4909	2.525124	CCTGTGGTGGGTGCTGGTA	61.525	63.158	0.00	0.00	0.00	3.25
1375	4933	1.377202	GGAGGTGGCGAAGATGCAA	60.377	57.895	0.00	0.00	36.28	4.08
1382	4940	0.729690	GGCGAAGATGCAAGAGGAAC	59.270	55.000	0.00	0.00	36.28	3.62
1404	4962	1.687146	CCTAGCCTGGCAGGAGTCA	60.687	63.158	37.07	16.09	37.67	3.41
1421	4979	0.549902	TCATTCTCCTTGCCTCCCCA	60.550	55.000	0.00	0.00	0.00	4.96
1432	4990	4.421515	CTCCCCAGCTGTGCCAGG	62.422	72.222	13.81	5.95	31.21	4.45
1453	5011	2.603473	CGGTGGAGGAGGTGTGGA	60.603	66.667	0.00	0.00	0.00	4.02
1535	5093	1.613630	AGATTCCCGTCCAGCCACT	60.614	57.895	0.00	0.00	0.00	4.00
1588	5146	3.637273	AGTGGGGGACGCTTGGAC	61.637	66.667	0.00	0.00	43.80	4.02
1596	5154	0.037326	GGACGCTTGGACAGATGACA	60.037	55.000	0.00	0.00	0.00	3.58
1618	5176	3.898123	ACTAGAGCAGTTCCTTGTCAAGA	59.102	43.478	14.42	0.00	31.59	3.02
1694	5255	1.561542	GGTCCATGGACAGATGAACCT	59.438	52.381	38.83	0.00	46.20	3.50
1710	5313	2.913578	CTTGTGCAGCAGGGGCAA	60.914	61.111	0.00	0.00	43.91	4.52
1723	5326	2.439156	GGCAACAGCCTAGCCCAG	60.439	66.667	0.00	0.00	45.21	4.45
1809	5412	1.520787	CAACGGGTACGCAGGGATC	60.521	63.158	10.84	0.00	46.04	3.36
1913	5516	2.094894	CGCAGGTTGACATGATGAACTC	59.905	50.000	0.00	0.00	0.00	3.01
1945	5548	1.521457	GCGATGATGGAGAACGGCA	60.521	57.895	0.00	0.00	0.00	5.69
2019	5622	1.153188	CTGCCACCACCGCATGATA	60.153	57.895	0.00	0.00	35.25	2.15
2039	5642	2.432628	GAACCGTGAGTCAGCCGG	60.433	66.667	17.97	17.97	46.93	6.13
2159	5770	3.305471	GGTGACACTTACACTCTCTGTCC	60.305	52.174	5.39	0.00	38.20	4.02
2262	5873	2.100989	AGGAGGTACGGAGTTGCTTAG	58.899	52.381	0.00	0.00	37.78	2.18
2278	5890	3.253188	TGCTTAGCAGTGAAAACCATGAC	59.747	43.478	1.39	0.00	33.32	3.06
2284	5896	5.051816	AGCAGTGAAAACCATGACAAAATG	58.948	37.500	0.00	0.00	0.00	2.32
2295	5907	6.114767	ACCATGACAAAATGCAGTTTTCTTT	58.885	32.000	9.83	0.00	37.93	2.52
2303	5915	9.213799	ACAAAATGCAGTTTTCTTTGTCTTTTA	57.786	25.926	9.83	0.00	37.93	1.52
2411	6023	1.475280	CACCTTCATGTGGCAATCCTG	59.525	52.381	7.28	0.00	32.50	3.86
2472	6089	6.173339	TCTAAATGCTAGGTCTTCAAACAGG	58.827	40.000	0.00	0.00	0.00	4.00
2686	6326	8.898728	AGGAGGATGAGAATGAATTATGGTTAT	58.101	33.333	0.00	0.00	0.00	1.89
2704	6344	4.254492	GTTATCTTTCCTTTCCAGAGCGT	58.746	43.478	0.00	0.00	0.00	5.07
2769	6412	6.012858	AGGACCCAAATGTCAGTGTTTATCTA	60.013	38.462	0.00	0.00	36.97	1.98
2823	6466	8.658840	ATTGTTTATAGGTACATGGGTTTGTT	57.341	30.769	0.00	0.00	0.00	2.83
2919	6565	3.225940	TGCAATGTGTGTGGTCCATTTA	58.774	40.909	0.00	0.00	0.00	1.40
2979	6649	3.190744	GGAGATGACACACGAGTTGAGTA	59.809	47.826	0.00	0.00	0.00	2.59
3130	6802	1.153647	CGCGATGCTTGGGTAGTCA	60.154	57.895	0.00	0.00	0.00	3.41
3172	6844	4.311700	TCACTGCTTGAGGGTCCA	57.688	55.556	0.00	0.00	0.00	4.02
3234	6911	4.098044	ACGTCGATCATCAACCTCATACTT	59.902	41.667	0.00	0.00	0.00	2.24
3235	6912	5.298527	ACGTCGATCATCAACCTCATACTTA	59.701	40.000	0.00	0.00	0.00	2.24
3315	6998	4.202346	ACACTTACCAGCATTTGCCAATTT	60.202	37.500	0.00	0.00	43.38	1.82
3321	7004	3.071479	CAGCATTTGCCAATTTCTTGCT	58.929	40.909	0.00	0.00	43.38	3.91
3338	7021	5.509498	TCTTGCTAGAACCTAATTGCCAAT	58.491	37.500	0.00	0.00	0.00	3.16
3414	7106	7.639113	TTTTTACAACTGGTGAAGAAGATGT	57.361	32.000	0.00	0.00	0.00	3.06
3415	7107	7.639113	TTTTACAACTGGTGAAGAAGATGTT	57.361	32.000	0.00	0.00	0.00	2.71
3442	7134	3.119245	CCAAAGGAGAACATCAATGCCAG	60.119	47.826	0.00	0.00	0.00	4.85
3514	7214	3.382546	CCATTCAACTTCCATAGCCTTGG	59.617	47.826	0.00	0.00	38.18	3.61
3580	7289	1.000385	TGCAACTACAGCAACAATGGC	60.000	47.619	0.00	0.00	39.39	4.40
3589	7298	0.179156	GCAACAATGGCGGTGATGAG	60.179	55.000	2.33	0.00	0.00	2.90
3598	7307	1.202580	GGCGGTGATGAGAGCAGTTAT	60.203	52.381	0.00	0.00	0.00	1.89
3681	7391	8.738645	AAGACCCAAATATCAGTGTTTATCTC	57.261	34.615	0.00	0.00	0.00	2.75
3688	7398	8.873830	CAAATATCAGTGTTTATCTCGTCAAGT	58.126	33.333	0.00	0.00	0.00	3.16

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
13	14	5.139435	TGTCTCATGTTCCACTAACTCTG	57.861	43.478	0.00	0.00	38.99	3.35
36	37	2.096980	CGCACAAACATGCATCATCTCT	59.903	45.455	0.00	0.00	46.47	3.10
176	179	3.507622	GTCCCTTCAAGGAGTGGAAAATG	59.492	47.826	4.43	0.00	37.67	2.32
238	241	8.050778	TGACTCTTGTGTGTTCTACAAAAATT	57.949	30.769	0.00	0.00	41.89	1.82
319	325	4.816385	CCCACAGCTACACCAATATAGTTG	59.184	45.833	0.00	0.00	36.15	3.16
407	415	5.929992	GTCAACCTTTTATTTTTGGGCCTAC	59.070	40.000	4.53	0.00	0.00	3.18
408	416	5.602978	TGTCAACCTTTTATTTTTGGGCCTA	59.397	36.000	4.53	0.00	0.00	3.93
412	420	5.181056	GGCATGTCAACCTTTTATTTTTGGG	59.819	40.000	0.00	0.00	0.00	4.12
428	438	1.962100	TGCATGTGAAAAGGCATGTCA	59.038	42.857	0.00	0.00	43.04	3.58
436	446	4.761235	AGTGAGACATGCATGTGAAAAG	57.239	40.909	35.92	6.73	41.95	2.27
500	519	9.449719	AATAGATAGGTGACAAAAGGTAAAGTG	57.550	33.333	0.00	0.00	0.00	3.16
554	576	5.877012	GTGCTCTTCAATTCATAGAGGTGAA	59.123	40.000	0.00	0.00	41.88	3.18
685	717	2.202756	GCCCGTTAGCGTGAGAGG	60.203	66.667	0.00	0.00	36.15	3.69
700	732	0.457853	TGACGACTGAGCATTACGCC	60.458	55.000	0.00	0.00	44.04	5.68
827	862	5.162637	TGGATAGATAGGGTACTGCCAAAT	58.837	41.667	0.00	0.00	39.65	2.32
888	4423	5.360714	TGATTGATGAAAAAGGTGGGCTATC	59.639	40.000	0.00	0.00	0.00	2.08
943	4478	5.470437	ACATCATGCAAGAGATAAGCATCAG	59.530	40.000	0.00	0.00	46.39	2.90
964	4499	4.141914	GCGCTCCCTATTTATAGCCTACAT	60.142	45.833	0.00	0.00	0.00	2.29
967	4502	2.426024	CGCGCTCCCTATTTATAGCCTA	59.574	50.000	5.56	0.00	0.00	3.93
1157	4715	3.858868	GAAGACTGTCGTGCCGGCA	62.859	63.158	29.03	29.03	39.83	5.69
1193	4751	1.202973	CGAGTATTGCAGCTCGTCCG	61.203	60.000	21.35	4.55	46.45	4.79
1254	4812	3.008266	TCCAGATGTTGCTCATGAACTCA	59.992	43.478	0.00	0.00	36.83	3.41
1272	4830	1.272092	TGGAACTCCTTGGCATTCCAG	60.272	52.381	13.99	0.00	44.43	3.86
1303	4861	1.719063	ATGCCCACCAAGACACCACT	61.719	55.000	0.00	0.00	0.00	4.00
1331	4889	2.759114	CAGCACCCACCACAGGAT	59.241	61.111	0.00	0.00	0.00	3.24
1375	4933	1.280457	CAGGCTAGGTTGGTTCCTCT	58.720	55.000	0.00	0.00	38.86	3.69
1382	4940	2.262774	CTCCTGCCAGGCTAGGTTGG	62.263	65.000	22.39	11.76	34.61	3.77
1404	4962	1.931007	GCTGGGGAGGCAAGGAGAAT	61.931	60.000	0.00	0.00	0.00	2.40
1432	4990	1.606889	ACACCTCCTCCACCGTCTC	60.607	63.158	0.00	0.00	0.00	3.36
1453	5011	0.908198	GGCTCCCTGTTGATCTCAGT	59.092	55.000	14.11	0.00	0.00	3.41
1509	5067	4.077184	ACGGGAATCTGCGGCGAA	62.077	61.111	12.98	0.00	0.00	4.70
1535	5093	2.282816	CACCACCATTTCCCGCCA	60.283	61.111	0.00	0.00	0.00	5.69
1588	5146	3.446873	AGGAACTGCTCTAGTGTCATCTG	59.553	47.826	0.00	0.00	40.26	2.90
1596	5154	3.898123	TCTTGACAAGGAACTGCTCTAGT	59.102	43.478	15.13	0.00	40.86	2.57
1694	5255	3.225798	GTTGCCCCTGCTGCACAA	61.226	61.111	0.00	0.00	38.72	3.33
1710	5313	0.911525	ACATCACTGGGCTAGGCTGT	60.912	55.000	16.80	12.35	0.00	4.40
1717	5320	0.691078	ATCGGGTACATCACTGGGCT	60.691	55.000	0.00	0.00	0.00	5.19
1761	5364	2.035469	ATGCCGTTGCCCATCACA	59.965	55.556	0.00	0.00	36.33	3.58
1771	5374	2.359478	GACGAACCCCATGCCGTT	60.359	61.111	0.00	0.00	35.22	4.44
2019	5622	0.600255	CGGCTGACTCACGGTTCTTT	60.600	55.000	0.00	0.00	0.00	2.52
2039	5642	0.924090	CTTCCTAGCACGCGATTGTC	59.076	55.000	15.93	0.00	0.00	3.18
2108	5712	2.373335	ACCAGTTACCACCATTGCAA	57.627	45.000	0.00	0.00	0.00	4.08
2262	5873	4.318974	GCATTTTGTCATGGTTTTCACTGC	60.319	41.667	0.00	0.00	0.00	4.40
2284	5896	8.689251	AGAACTTAAAAGACAAAGAAAACTGC	57.311	30.769	0.00	0.00	0.00	4.40
2303	5915	8.722480	AAACAGTTTAGTAACGGTAAGAACTT	57.278	30.769	0.00	0.00	40.97	2.66
2411	6023	1.002366	CAAGTGATGGCGAGTGTAGC	58.998	55.000	0.00	0.00	0.00	3.58
2472	6089	1.267533	TCATCAGCACACACACATTGC	59.732	47.619	0.00	0.00	36.45	3.56
2523	6145	2.762887	TCATCTTCTCCACCAGCTGTAG	59.237	50.000	13.81	4.21	0.00	2.74
2686	6326	1.270839	CCACGCTCTGGAAAGGAAAGA	60.271	52.381	0.00	0.00	43.95	2.52
2704	6344	8.752005	ACTACTAGTAAATTACGATACCACCA	57.248	34.615	3.76	0.00	0.00	4.17
2799	6442	9.233649	CTAACAAACCCATGTACCTATAAACAA	57.766	33.333	0.00	0.00	32.02	2.83
2812	6455	6.039270	TGTCTGAAGTTTCTAACAAACCCATG	59.961	38.462	0.00	0.00	0.00	3.66
2823	6466	7.873719	TTGTTCCATTTGTCTGAAGTTTCTA	57.126	32.000	0.00	0.00	0.00	2.10
2919	6565	0.625849	AAAGGCGAAGACCCCATCAT	59.374	50.000	0.00	0.00	31.70	2.45
2979	6649	0.320421	AAGTGCGCCTACGTGACAAT	60.320	50.000	4.18	0.00	42.83	2.71
3115	6787	2.952310	GGGAATTGACTACCCAAGCATC	59.048	50.000	0.00	0.00	42.81	3.91
3130	6802	1.306633	GCGGAGGGGAAAGGGAATT	59.693	57.895	0.00	0.00	0.00	2.17
3172	6844	1.743252	GCGCAACTGAAGGCTAGCT	60.743	57.895	15.72	0.00	0.00	3.32
3209	6885	1.202143	TGAGGTTGATGATCGACGTCG	60.202	52.381	31.30	31.30	44.47	5.12
3234	6911	1.067974	CCTCCGATGCACAACCGTATA	59.932	52.381	0.00	0.00	0.00	1.47
3235	6912	0.179084	CCTCCGATGCACAACCGTAT	60.179	55.000	0.00	0.00	0.00	3.06
3315	6998	4.568072	TGGCAATTAGGTTCTAGCAAGA	57.432	40.909	0.00	0.00	0.00	3.02
3321	7004	8.303876	GTTTTCAGAATTGGCAATTAGGTTCTA	58.696	33.333	24.39	6.25	0.00	2.10
3414	7106	4.365514	TGATGTTCTCCTTTGGCTGTAA	57.634	40.909	0.00	0.00	0.00	2.41
3415	7107	4.365514	TTGATGTTCTCCTTTGGCTGTA	57.634	40.909	0.00	0.00	0.00	2.74
3514	7214	0.980423	AGTCCTCTTCCTCTTGCCAC	59.020	55.000	0.00	0.00	0.00	5.01
3520	7220	3.774216	CCAGATTCAAGTCCTCTTCCTCT	59.226	47.826	0.00	0.00	0.00	3.69
3580	7289	3.170791	ACATAACTGCTCTCATCACCG	57.829	47.619	0.00	0.00	0.00	4.94
3589	7298	6.562825	GCTTTGCAAAGAAAACATAACTGCTC	60.563	38.462	37.14	13.59	38.28	4.26
3598	7307	1.478510	TCCCGCTTTGCAAAGAAAACA	59.521	42.857	37.14	16.54	38.28	2.83

Based at the University of Bristol with support from BBSRC.

AutoCloner maintained by Alex Coulton.