AutoCloner

Multiple sequence alignment - TraesCS2A01G047700

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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	TraesCS2A01G047700	chr2A	100.000	3383	0	0	1	3383	18493034	18496416	0.000000e+00	6248.0
1	TraesCS2A01G047700	chr2A	79.192	2326	293	102	587	2815	18469390	18467159	0.000000e+00	1437.0
2	TraesCS2A01G047700	chr2A	84.058	552	53	18	2351	2893	18465780	18465255	1.810000e-137	499.0
3	TraesCS2A01G047700	chr2D	90.275	3095	202	47	1	3027	16887352	16884289	0.000000e+00	3956.0
4	TraesCS2A01G047700	chr2D	87.947	1369	122	18	1161	2505	16960418	16959069	0.000000e+00	1574.0
5	TraesCS2A01G047700	chr2D	80.069	2318	278	95	587	2815	16981821	16984043	0.000000e+00	1552.0
6	TraesCS2A01G047700	chr2D	87.070	1338	129	19	1	1312	16961758	16960439	0.000000e+00	1472.0
7	TraesCS2A01G047700	chr2D	82.027	1480	175	47	1869	3308	16944388	16942960	0.000000e+00	1175.0
8	TraesCS2A01G047700	chr2D	80.409	1077	138	37	1202	2244	16728924	16727887	0.000000e+00	752.0
9	TraesCS2A01G047700	chr2D	82.022	801	99	18	2436	3218	16948065	16947292	1.020000e-179	640.0
10	TraesCS2A01G047700	chr2D	79.443	754	97	25	551	1265	16729685	16728951	6.570000e-132	481.0
11	TraesCS2A01G047700	chr2D	83.152	552	59	18	2351	2893	16985424	16985950	1.100000e-129	473.0
12	TraesCS2A01G047700	chr2D	83.265	490	51	18	1098	1563	16895471	16895953	4.040000e-114	422.0
13	TraesCS2A01G047700	chr2D	79.137	556	88	18	1717	2259	16896081	16896621	3.210000e-95	359.0
14	TraesCS2A01G047700	chr2D	84.000	325	34	11	696	1004	16895159	16895481	2.550000e-76	296.0
15	TraesCS2A01G047700	chr2B	87.540	1894	173	32	1161	3026	28841889	28840031	0.000000e+00	2132.0
16	TraesCS2A01G047700	chr2B	80.921	2301	268	87	587	2813	28873621	28875824	0.000000e+00	1659.0
17	TraesCS2A01G047700	chr2B	85.821	1340	142	24	1	1312	28843229	28841910	0.000000e+00	1378.0
18	TraesCS2A01G047700	chr2B	76.693	1403	193	65	921	2244	28813919	28812572	0.000000e+00	656.0
19	TraesCS2A01G047700	chr2B	82.671	554	61	19	2351	2893	28877212	28877741	3.080000e-125	459.0
20	TraesCS2A01G047700	chr2B	88.166	338	31	6	2987	3323	28839895	28839566	8.800000e-106	394.0
21	TraesCS2A01G047700	chrUn	90.026	1173	87	13	1757	2910	361988638	361989799	0.000000e+00	1491.0
22	TraesCS2A01G047700	chrUn	89.701	602	46	9	2314	2910	321113992	321113402	0.000000e+00	754.0
23	TraesCS2A01G047700	chrUn	89.701	602	46	9	2314	2910	405150827	405150237	0.000000e+00	754.0
24	TraesCS2A01G047700	chrUn	100.000	34	0	0	3350	3383	321113034	321113001	2.820000e-06	63.9
25	TraesCS2A01G047700	chrUn	95.000	40	2	0	3344	3383	361990161	361990200	2.820000e-06	63.9
26	TraesCS2A01G047700	chrUn	100.000	34	0	0	3350	3383	405149869	405149836	2.820000e-06	63.9
27	TraesCS2A01G047700	chr7B	77.784	1733	219	77	588	2235	584224199	584225850	0.000000e+00	915.0
28	TraesCS2A01G047700	chr7B	80.825	485	78	9	4	481	297406266	297405790	1.920000e-97	366.0
29	TraesCS2A01G047700	chr7A	79.446	866	127	27	1271	2115	622806028	622806863	1.760000e-157	566.0
30	TraesCS2A01G047700	chr7A	79.099	866	124	32	1271	2115	622819865	622820694	8.260000e-151	544.0
31	TraesCS2A01G047700	chr7A	77.366	1025	103	45	653	1615	622832991	622833948	3.920000e-134	488.0
32	TraesCS2A01G047700	chr7A	81.070	486	73	12	1	480	468937676	468937204	1.480000e-98	370.0
33	TraesCS2A01G047700	chr6B	82.292	480	75	7	1	476	230629556	230629083	1.130000e-109	407.0
34	TraesCS2A01G047700	chr3B	81.607	473	76	8	1	468	381979573	381979107	6.850000e-102	381.0
35	TraesCS2A01G047700	chr3B	80.658	486	83	8	1	481	582414745	582414266	1.920000e-97	366.0
36	TraesCS2A01G047700	chr3B	80.698	487	71	16	1	481	25493170	25492701	1.150000e-94	357.0
37	TraesCS2A01G047700	chr3B	97.561	41	1	0	502	542	210787318	210787358	1.680000e-08	71.3
38	TraesCS2A01G047700	chr3D	81.250	480	80	7	1	476	568387137	568386664	2.460000e-101	379.0
39	TraesCS2A01G047700	chr3D	97.368	38	1	0	502	539	87508678	87508715	7.840000e-07	65.8
40	TraesCS2A01G047700	chr3D	97.368	38	1	0	502	539	327158962	327158999	7.840000e-07	65.8
41	TraesCS2A01G047700	chr4A	81.186	489	71	14	1	481	210798906	210798431	1.150000e-99	374.0
42	TraesCS2A01G047700	chr3A	80.658	486	83	8	1	481	749456925	749456446	1.920000e-97	366.0
43	TraesCS2A01G047700	chr5B	95.238	42	2	0	501	542	187351948	187351907	2.180000e-07	67.6
44	TraesCS2A01G047700	chr7D	97.368	38	1	0	502	539	60523736	60523773	7.840000e-07	65.8
45	TraesCS2A01G047700	chr4D	97.368	38	1	0	502	539	437128513	437128550	7.840000e-07	65.8
46	TraesCS2A01G047700	chr4B	95.122	41	2	0	502	542	527197015	527196975	7.840000e-07	65.8
47	TraesCS2A01G047700	chr1D	95.122	41	2	0	502	542	428795782	428795742	7.840000e-07	65.8

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	TraesCS2A01G047700	chr2A	18493034	18496416	3382	False	6248.000000	6248	100.000000	1	3383	1	chr2A.!!$F1	3382
1	TraesCS2A01G047700	chr2A	18465255	18469390	4135	True	968.000000	1437	81.625000	587	2893	2	chr2A.!!$R1	2306
2	TraesCS2A01G047700	chr2D	16884289	16887352	3063	True	3956.000000	3956	90.275000	1	3027	1	chr2D.!!$R1	3026
3	TraesCS2A01G047700	chr2D	16959069	16961758	2689	True	1523.000000	1574	87.508500	1	2505	2	chr2D.!!$R4	2504
4	TraesCS2A01G047700	chr2D	16981821	16985950	4129	False	1012.500000	1552	81.610500	587	2893	2	chr2D.!!$F2	2306
5	TraesCS2A01G047700	chr2D	16942960	16948065	5105	True	907.500000	1175	82.024500	1869	3308	2	chr2D.!!$R3	1439
6	TraesCS2A01G047700	chr2D	16727887	16729685	1798	True	616.500000	752	79.926000	551	2244	2	chr2D.!!$R2	1693
7	TraesCS2A01G047700	chr2D	16895159	16896621	1462	False	359.000000	422	82.134000	696	2259	3	chr2D.!!$F1	1563
8	TraesCS2A01G047700	chr2B	28839566	28843229	3663	True	1301.333333	2132	87.175667	1	3323	3	chr2B.!!$R2	3322
9	TraesCS2A01G047700	chr2B	28873621	28877741	4120	False	1059.000000	1659	81.796000	587	2893	2	chr2B.!!$F1	2306
10	TraesCS2A01G047700	chr2B	28812572	28813919	1347	True	656.000000	656	76.693000	921	2244	1	chr2B.!!$R1	1323
11	TraesCS2A01G047700	chrUn	361988638	361990200	1562	False	777.450000	1491	92.513000	1757	3383	2	chrUn.!!$F1	1626
12	TraesCS2A01G047700	chrUn	321113001	321113992	991	True	408.950000	754	94.850500	2314	3383	2	chrUn.!!$R1	1069
13	TraesCS2A01G047700	chrUn	405149836	405150827	991	True	408.950000	754	94.850500	2314	3383	2	chrUn.!!$R2	1069
14	TraesCS2A01G047700	chr7B	584224199	584225850	1651	False	915.000000	915	77.784000	588	2235	1	chr7B.!!$F1	1647
15	TraesCS2A01G047700	chr7A	622806028	622806863	835	False	566.000000	566	79.446000	1271	2115	1	chr7A.!!$F1	844
16	TraesCS2A01G047700	chr7A	622819865	622820694	829	False	544.000000	544	79.099000	1271	2115	1	chr7A.!!$F2	844
17	TraesCS2A01G047700	chr7A	622832991	622833948	957	False	488.000000	488	77.366000	653	1615	1	chr7A.!!$F3	962

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
319	320	0.386476	TGAACCGAGCGTGTACAACT	59.614	50.0	0.0	0.0	0.0	3.16	F
1948	3767	1.104630	GCAGCTTCTACGTCCCTACT	58.895	55.0	0.0	0.0	0.0	2.57	F

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability	Orientation
2065	3902	0.250467	GCATCCCTGCGTATGTGGAT	60.250	55.000	0.00	0.0	38.92	3.41	R
3170	5955	1.466167	GATTACCATGCCATGCTAGCG	59.534	52.381	10.77	0.0	0.00	4.26	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
44	45	9.469097	ACAAAATATTATAAGTAACACCTGGCA	57.531	29.630	0.00	0.00	0.00	4.92
54	55	3.317603	AACACCTGGCATTTGCATAAC	57.682	42.857	4.74	0.00	44.36	1.89
86	87	6.511416	CACATAACCAAACATCAAAAGTCCA	58.489	36.000	0.00	0.00	0.00	4.02
135	136	7.834881	ATAAATCGACCATTGTAGACTCCTA	57.165	36.000	0.00	0.00	0.00	2.94
144	145	7.766628	ACCATTGTAGACTCCTATATAGACCA	58.233	38.462	11.53	0.00	0.00	4.02
212	213	1.784358	CTGCCATCCATGTTGGGAAT	58.216	50.000	12.46	0.00	41.12	3.01
217	218	4.533707	TGCCATCCATGTTGGGAATAAAAA	59.466	37.500	12.46	0.00	41.12	1.94
219	220	5.108517	CCATCCATGTTGGGAATAAAAACG	58.891	41.667	4.38	0.00	41.12	3.60
220	221	5.337169	CCATCCATGTTGGGAATAAAAACGT	60.337	40.000	4.38	0.00	41.12	3.99
223	224	5.302059	TCCATGTTGGGAATAAAAACGTTCA	59.698	36.000	0.00	0.00	38.32	3.18
225	226	7.176865	TCCATGTTGGGAATAAAAACGTTCATA	59.823	33.333	0.00	0.00	38.32	2.15
226	227	7.487829	CCATGTTGGGAATAAAAACGTTCATAG	59.512	37.037	0.00	0.00	32.67	2.23
228	229	5.570234	TGGGAATAAAAACGTTCATAGCC	57.430	39.130	0.00	4.21	0.00	3.93
300	301	3.628942	TCGTTGTAGCGTAGACCATGTAT	59.371	43.478	0.00	0.00	0.00	2.29
304	305	4.928601	TGTAGCGTAGACCATGTATGAAC	58.071	43.478	0.00	0.00	0.00	3.18
309	310	2.604046	AGACCATGTATGAACCGAGC	57.396	50.000	0.00	0.00	0.00	5.03
319	320	0.386476	TGAACCGAGCGTGTACAACT	59.614	50.000	0.00	0.00	0.00	3.16
329	330	6.346758	CCGAGCGTGTACAACTAAAAATAACA	60.347	38.462	0.00	0.00	0.00	2.41
433	437	8.266473	TCCCCTTATTAGCGTTTTGAAACTATA	58.734	33.333	5.21	0.00	36.77	1.31
744	766	6.913170	AGTTTTTATCACTTGTACAGCATGG	58.087	36.000	0.00	0.00	43.62	3.66
804	852	4.259970	CGTAGAAGTTTCCAGCGAATCATG	60.260	45.833	0.00	0.00	0.00	3.07
981	1053	3.751175	CGCCACCGTATAAATTGATCCAT	59.249	43.478	0.00	0.00	0.00	3.41
1564	1905	2.586357	GGCGTCAAGATCCCTCGC	60.586	66.667	11.73	11.73	44.95	5.03
1566	1907	3.082579	GCGTCAAGATCCCTCGCCT	62.083	63.158	9.81	0.00	40.83	5.52
1713	2090	5.067153	TCCACACAACACTTATTTCACAAGG	59.933	40.000	0.00	0.00	0.00	3.61
1945	3764	2.711922	CGGCAGCTTCTACGTCCCT	61.712	63.158	0.00	0.00	0.00	4.20
1948	3767	1.104630	GCAGCTTCTACGTCCCTACT	58.895	55.000	0.00	0.00	0.00	2.57
1968	3787	2.716017	GCTCAGGGGACGTCCTCAG	61.716	68.421	35.27	28.01	39.62	3.35
2068	3905	1.527370	GTCCTACCTGGTGCCATCC	59.473	63.158	10.23	0.00	37.07	3.51
2069	3906	1.082019	TCCTACCTGGTGCCATCCA	59.918	57.895	10.23	0.00	37.07	3.41
2070	3907	1.224592	CCTACCTGGTGCCATCCAC	59.775	63.158	10.23	0.00	43.90	4.02
2071	3908	1.561769	CCTACCTGGTGCCATCCACA	61.562	60.000	10.23	0.00	46.50	4.17
2072	3909	0.548031	CTACCTGGTGCCATCCACAT	59.452	55.000	10.23	0.00	46.50	3.21
2228	4068	1.613255	GGAGCATTTTTCTCCGGTGGA	60.613	52.381	0.00	0.00	40.51	4.02
2264	4108	3.878527	GCCCTGAGAGTGTCCTAGTTACT	60.879	52.174	0.00	0.00	0.00	2.24
2271	4126	8.143673	TGAGAGTGTCCTAGTTACTAGTAGAA	57.856	38.462	17.00	0.00	32.62	2.10
2275	4130	8.149631	AGTGTCCTAGTTACTAGTAGAACTCT	57.850	38.462	17.00	12.01	37.16	3.24
2281	4136	7.499895	CCTAGTTACTAGTAGAACTCTGGGAAG	59.500	44.444	17.00	5.80	37.16	3.46
2282	4137	6.792424	AGTTACTAGTAGAACTCTGGGAAGT	58.208	40.000	3.59	0.00	29.85	3.01
2292	4147	0.836606	TCTGGGAAGTGTGTGCTCAA	59.163	50.000	0.00	0.00	0.00	3.02
2316	4184	4.574892	TGATGCGAGATTTGGTCTGTTTA	58.425	39.130	0.00	0.00	37.29	2.01
2333	4201	5.854338	TCTGTTTATTTTGATTTCGGCGAAC	59.146	36.000	23.64	12.64	0.00	3.95
2396	4267	9.226606	AGTTGTTAATTAATTCCAGTTCGATCA	57.773	29.630	3.39	0.00	0.00	2.92
2448	4322	6.485830	TCTCAAGATCGATTTATTCCTGGT	57.514	37.500	0.00	0.00	0.00	4.00
2478	4357	6.969828	ATAACAGAACCTTCTTCGTGAATC	57.030	37.500	0.00	0.00	34.74	2.52
2479	4358	4.336889	ACAGAACCTTCTTCGTGAATCA	57.663	40.909	0.00	0.00	34.74	2.57
2480	4359	4.310769	ACAGAACCTTCTTCGTGAATCAG	58.689	43.478	0.00	0.00	34.74	2.90
2481	4360	4.202264	ACAGAACCTTCTTCGTGAATCAGT	60.202	41.667	0.00	0.00	34.74	3.41
2491	4370	6.741109	TCTTCGTGAATCAGTGTACTACAAA	58.259	36.000	0.00	0.00	0.00	2.83
2529	4425	6.159398	AGGAAGATTTCAGTTGGATGGACTAT	59.841	38.462	0.00	0.00	0.00	2.12
2530	4426	6.830838	GGAAGATTTCAGTTGGATGGACTATT	59.169	38.462	0.00	0.00	0.00	1.73
2531	4427	7.012799	GGAAGATTTCAGTTGGATGGACTATTC	59.987	40.741	0.00	0.00	0.00	1.75
2532	4428	7.205515	AGATTTCAGTTGGATGGACTATTCT	57.794	36.000	0.00	0.00	0.00	2.40
2533	4429	8.324191	AGATTTCAGTTGGATGGACTATTCTA	57.676	34.615	0.00	0.00	0.00	2.10
2534	4430	8.943085	AGATTTCAGTTGGATGGACTATTCTAT	58.057	33.333	0.00	0.00	0.00	1.98
2574	4473	4.033709	AGCTAGGTACTGTGTCATCCATT	58.966	43.478	0.00	0.00	41.52	3.16
2583	4482	7.968405	GGTACTGTGTCATCCATTTTATGTTTC	59.032	37.037	0.00	0.00	0.00	2.78
2612	4511	4.460263	TGCAATCCATGTTATCTGGGTAC	58.540	43.478	0.00	0.00	34.36	3.34
2616	4515	6.680378	GCAATCCATGTTATCTGGGTACAAAC	60.680	42.308	0.00	0.00	34.36	2.93
2617	4516	4.850680	TCCATGTTATCTGGGTACAAACC	58.149	43.478	0.00	0.00	45.97	3.27
2672	4574	7.867305	TGTTTGTTAGTTCAGGATTTGTACA	57.133	32.000	0.00	0.00	30.17	2.90
2694	4597	6.403878	ACATAATCCTTACGATTTATCCCCG	58.596	40.000	0.00	0.00	41.58	5.73
2695	4598	4.968971	AATCCTTACGATTTATCCCCGT	57.031	40.909	0.00	0.00	38.02	5.28
2733	4636	3.752412	TGTACGTAGGATTCACAGTCG	57.248	47.619	0.00	0.00	0.00	4.18
2757	4660	7.558807	TCGGTCTGATCTTAGTTAAGTATTCCA	59.441	37.037	0.00	0.00	34.93	3.53
2775	4682	4.431416	TCCACTGCACTTCCTTTCTTAA	57.569	40.909	0.00	0.00	0.00	1.85
2776	4683	4.134563	TCCACTGCACTTCCTTTCTTAAC	58.865	43.478	0.00	0.00	0.00	2.01
3045	5152	5.456548	TGTAACCTGACGATTTACAGTCA	57.543	39.130	0.00	0.00	44.11	3.41
3114	5561	6.553476	TCTTTGGATGATACTCCCGAGAATAA	59.447	38.462	0.00	0.00	34.12	1.40
3188	5973	0.180171	ACGCTAGCATGGCATGGTAA	59.820	50.000	31.86	19.52	46.25	2.85
3224	6018	5.105187	CCTCTTCTTGTGGTATGATGACTCA	60.105	44.000	0.00	0.00	35.41	3.41
3252	6046	2.132740	AAGAATTGAAAAGCGCGCAA	57.867	40.000	35.10	19.02	0.00	4.85
3274	6068	2.066340	CCACCCTTAGCACACTCCA	58.934	57.895	0.00	0.00	0.00	3.86
3341	6135	7.916914	AAAACAATGAGTATACACTGGTACC	57.083	36.000	4.43	4.43	34.21	3.34

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
44	45	3.605634	TGTGCGTCCTAGTTATGCAAAT	58.394	40.909	9.99	0.00	40.37	2.32
54	55	3.331150	TGTTTGGTTATGTGCGTCCTAG	58.669	45.455	0.00	0.00	0.00	3.02
135	136	7.798710	ACATAGGCATAGTGTTGGTCTATAT	57.201	36.000	0.00	0.00	0.00	0.86
144	145	4.094887	CGCTTTCAACATAGGCATAGTGTT	59.905	41.667	0.00	1.93	36.57	3.32
212	213	6.759827	GGAGTAGATGGCTATGAACGTTTTTA	59.240	38.462	0.46	0.00	0.00	1.52
217	218	3.296854	TGGAGTAGATGGCTATGAACGT	58.703	45.455	0.00	0.00	0.00	3.99
219	220	4.381411	GGTTGGAGTAGATGGCTATGAAC	58.619	47.826	0.00	0.00	0.00	3.18
220	221	3.069586	CGGTTGGAGTAGATGGCTATGAA	59.930	47.826	0.00	0.00	0.00	2.57
223	224	1.344763	GCGGTTGGAGTAGATGGCTAT	59.655	52.381	0.00	0.00	0.00	2.97
225	226	1.522569	GCGGTTGGAGTAGATGGCT	59.477	57.895	0.00	0.00	0.00	4.75
226	227	1.883084	CGCGGTTGGAGTAGATGGC	60.883	63.158	0.00	0.00	0.00	4.40
228	229	1.133598	TGTACGCGGTTGGAGTAGATG	59.866	52.381	12.47	0.00	31.22	2.90
300	301	0.386476	AGTTGTACACGCTCGGTTCA	59.614	50.000	0.00	0.00	0.00	3.18
304	305	4.657075	ATTTTTAGTTGTACACGCTCGG	57.343	40.909	0.00	0.00	0.00	4.63
309	310	8.012809	TCTGCATGTTATTTTTAGTTGTACACG	58.987	33.333	0.00	0.00	0.00	4.49
319	320	8.054152	TGCTTCTCATCTGCATGTTATTTTTA	57.946	30.769	0.00	0.00	0.00	1.52
433	437	8.780616	TGATCATTGGTTGGATGGTATTTTAT	57.219	30.769	0.00	0.00	0.00	1.40
744	766	0.318762	AAAGCAGAGACAGGTCGGAC	59.681	55.000	0.00	0.00	34.09	4.79
804	852	2.754002	ACGGCCTGTCTAACTTCTACTC	59.246	50.000	0.00	0.00	0.00	2.59
831	881	0.541863	CCCTCAACCGTTAGATGCCT	59.458	55.000	0.00	0.00	0.00	4.75
981	1053	4.424711	GAGATGGCCGGGGTGCAA	62.425	66.667	2.18	0.00	0.00	4.08
1081	1157	2.939103	GGAATGTCAATCTCTGGTTCCG	59.061	50.000	0.00	0.00	0.00	4.30
1249	1586	0.523072	AGATCCAAACACGCATGCAC	59.477	50.000	19.57	0.00	0.00	4.57
1566	1907	3.065306	CAAGGACCTGCCCGTACA	58.935	61.111	0.00	0.00	37.37	2.90
1732	2109	1.367429	GCCGTCGACGTCGTAGATC	60.367	63.158	34.40	19.53	40.67	2.75
1883	3702	0.892755	TCCAACATCGTAAGCTCGGT	59.107	50.000	0.00	0.00	37.18	4.69
1945	3764	1.748122	GACGTCCCCTGAGCGAGTA	60.748	63.158	3.51	0.00	0.00	2.59
1948	3767	4.361971	AGGACGTCCCCTGAGCGA	62.362	66.667	30.82	0.00	34.68	4.93
2023	3842	6.324512	TCAGGTTTAAGTGTAAGTGACCAGTA	59.675	38.462	0.00	0.00	0.00	2.74
2027	3855	4.995487	CCTCAGGTTTAAGTGTAAGTGACC	59.005	45.833	0.00	0.00	0.00	4.02
2065	3902	0.250467	GCATCCCTGCGTATGTGGAT	60.250	55.000	0.00	0.00	38.92	3.41
2228	4068	4.778143	GGGCGTTCCTGGCGTCAT	62.778	66.667	0.00	0.00	35.44	3.06
2239	4081	0.251653	TAGGACACTCTCAGGGCGTT	60.252	55.000	0.00	0.00	0.00	4.84
2264	4108	4.523173	CACACACTTCCCAGAGTTCTACTA	59.477	45.833	0.00	0.00	0.00	1.82
2271	4126	0.394565	GAGCACACACTTCCCAGAGT	59.605	55.000	0.00	0.00	0.00	3.24
2275	4130	1.955778	CATTTGAGCACACACTTCCCA	59.044	47.619	0.00	0.00	0.00	4.37
2281	4136	1.197492	TCGCATCATTTGAGCACACAC	59.803	47.619	0.00	0.00	0.00	3.82
2282	4137	1.465777	CTCGCATCATTTGAGCACACA	59.534	47.619	0.00	0.00	0.00	3.72
2292	4147	3.614092	ACAGACCAAATCTCGCATCATT	58.386	40.909	0.00	0.00	34.41	2.57
2316	4184	2.981400	ACGTTCGCCGAAATCAAAAT	57.019	40.000	0.00	0.00	40.70	1.82
2326	4194	1.334992	CGATAGCCATACGTTCGCCG	61.335	60.000	0.00	0.00	44.03	6.46
2333	4201	3.425525	CAGTAGCAAACGATAGCCATACG	59.574	47.826	0.00	0.00	42.67	3.06
2440	4314	7.127339	AGGTTCTGTTATACATGTACCAGGAAT	59.873	37.037	20.43	5.14	0.00	3.01
2448	4322	7.758076	CACGAAGAAGGTTCTGTTATACATGTA	59.242	37.037	8.27	8.27	37.65	2.29
2480	4359	7.328737	CCTGTATTCTCAGTGTTTGTAGTACAC	59.671	40.741	1.43	0.00	44.81	2.90
2481	4360	7.231925	TCCTGTATTCTCAGTGTTTGTAGTACA	59.768	37.037	0.00	0.00	34.02	2.90
2491	4370	7.009179	TGAAATCTTCCTGTATTCTCAGTGT	57.991	36.000	0.00	0.00	34.02	3.55
2499	4386	6.604795	CCATCCAACTGAAATCTTCCTGTATT	59.395	38.462	0.00	0.00	0.00	1.89
2533	4429	9.219715	ACCTAGCTTAAGAGAGGAAATAGAAAT	57.780	33.333	23.14	2.16	33.04	2.17
2534	4430	8.611051	ACCTAGCTTAAGAGAGGAAATAGAAA	57.389	34.615	23.14	0.00	33.04	2.52
2545	4441	5.567430	TGACACAGTACCTAGCTTAAGAGA	58.433	41.667	6.67	0.00	0.00	3.10
2558	4454	7.968405	GGAAACATAAAATGGATGACACAGTAC	59.032	37.037	0.00	0.00	33.60	2.73
2574	4473	5.483231	TGGATTGCATTCCTGGAAACATAAA	59.517	36.000	24.22	4.76	41.51	1.40
2583	4482	4.831155	AGATAACATGGATTGCATTCCTGG	59.169	41.667	24.22	18.61	36.68	4.45
2645	4547	9.394477	GTACAAATCCTGAACTAACAAACAATC	57.606	33.333	0.00	0.00	0.00	2.67
2672	4574	6.616237	ACGGGGATAAATCGTAAGGATTAT	57.384	37.500	0.00	0.00	44.59	1.28
2682	4584	2.319136	TCCACAACGGGGATAAATCG	57.681	50.000	0.00	0.00	34.36	3.34
2694	4597	2.100087	ACAAAACCGGACATTCCACAAC	59.900	45.455	9.46	0.00	35.91	3.32
2695	4598	2.379972	ACAAAACCGGACATTCCACAA	58.620	42.857	9.46	0.00	35.91	3.33
2733	4636	8.697292	AGTGGAATACTTAACTAAGATCAGACC	58.303	37.037	3.50	0.00	35.67	3.85
2757	4660	5.036117	TCTGTTAAGAAAGGAAGTGCAGT	57.964	39.130	0.00	0.00	0.00	4.40
3045	5152	6.877236	AGCCCAAACGAAATCAATTCATATT	58.123	32.000	0.00	0.00	37.96	1.28
3091	5538	6.740944	TTATTCTCGGGAGTATCATCCAAA	57.259	37.500	0.00	0.00	41.52	3.28
3159	5944	2.097396	CCATGCTAGCGTAAATCGAACG	60.097	50.000	9.63	3.80	42.86	3.95
3170	5955	1.466167	GATTACCATGCCATGCTAGCG	59.534	52.381	10.77	0.00	0.00	4.26
3224	6018	5.863935	GCGCTTTTCAATTCTTTGATTAGGT	59.136	36.000	0.00	0.00	41.38	3.08
3248	6042	2.690778	GCTAAGGGTGGCACTTGCG	61.691	63.158	18.45	4.04	43.26	4.85
3274	6068	5.565439	GCAAGGTCATGCTTTTTAGACATGT	60.565	40.000	0.00	0.00	43.06	3.21
3323	6117	7.124052	ACTGTTAGGTACCAGTGTATACTCAT	58.876	38.462	15.94	0.00	34.07	2.90
3324	6118	6.487828	ACTGTTAGGTACCAGTGTATACTCA	58.512	40.000	15.94	0.00	34.07	3.41
3341	6135	4.556233	TGTCAGAATCGACCAACTGTTAG	58.444	43.478	0.00	0.00	34.88	2.34
3348	6142	2.083774	GGCAATGTCAGAATCGACCAA	58.916	47.619	0.00	0.00	34.88	3.67

Based at the University of Bristol with support from BBSRC.

AutoCloner maintained by Alex Coulton.