AutoCloner

Multiple sequence alignment - TraesCS2B01G076500

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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	TraesCS2B01G076500	chr2B	100.000	3313	0	0	1	3313	41416186	41419498	0.000000e+00	6119.0
1	TraesCS2B01G076500	chr2B	87.793	1409	97	24	990	2396	41604757	41606092	0.000000e+00	1580.0
2	TraesCS2B01G076500	chr2B	85.551	526	41	9	2449	2966	41606284	41606782	4.900000e-143	518.0
3	TraesCS2B01G076500	chr2B	93.884	327	15	5	243	564	41437552	41437878	3.840000e-134	488.0
4	TraesCS2B01G076500	chr2B	87.879	165	19	1	3143	3306	41152045	41151881	3.370000e-45	193.0
5	TraesCS2B01G076500	chr2B	90.411	146	14	0	2253	2398	41606124	41606269	3.370000e-45	193.0
6	TraesCS2B01G076500	chr2B	75.792	442	65	22	2645	3057	41439579	41440007	5.650000e-43	185.0
7	TraesCS2B01G076500	chr2B	85.987	157	21	1	2752	2908	41664414	41664569	2.040000e-37	167.0
8	TraesCS2B01G076500	chr2B	77.931	290	30	12	1767	2054	41152761	41152504	2.060000e-32	150.0
9	TraesCS2B01G076500	chr2D	90.863	2189	116	30	1124	3308	26469781	26467673	0.000000e+00	2857.0
10	TraesCS2B01G076500	chr2D	86.479	1494	116	26	919	2398	26035656	26034235	0.000000e+00	1561.0
11	TraesCS2B01G076500	chr2D	89.532	1175	60	35	4	1144	26470948	26469803	0.000000e+00	1430.0
12	TraesCS2B01G076500	chr2D	84.800	875	87	14	2449	3307	26034041	26033197	0.000000e+00	837.0
13	TraesCS2B01G076500	chr2D	83.250	603	61	27	33	603	26346141	26345547	4.900000e-143	518.0
14	TraesCS2B01G076500	chr2D	77.273	836	99	56	2527	3310	25654485	25655281	1.110000e-109	407.0
15	TraesCS2B01G076500	chr2D	81.314	487	49	12	2513	2963	25748114	25747634	1.130000e-94	357.0
16	TraesCS2B01G076500	chr2D	92.466	146	11	0	2253	2398	26034205	26034060	3.350000e-50	209.0
17	TraesCS2B01G076500	chr2D	78.298	235	32	8	1809	2043	25654212	25654427	2.070000e-27	134.0
18	TraesCS2B01G076500	chr2A	90.834	1931	111	22	1124	3051	28692980	28691113	0.000000e+00	2525.0
19	TraesCS2B01G076500	chr2A	85.873	1805	173	34	919	2694	28212560	28210809	0.000000e+00	1845.0
20	TraesCS2B01G076500	chr2A	83.518	631	46	21	18	601	28659447	28658828	1.350000e-148	536.0
21	TraesCS2B01G076500	chr2A	85.922	412	49	5	2683	3090	28209629	28209223	6.570000e-117	431.0
22	TraesCS2B01G076500	chr2A	78.911	716	90	33	2637	3310	28142724	28142028	2.360000e-116	429.0
23	TraesCS2B01G076500	chr2A	89.318	337	27	5	85	419	28694892	28694563	6.610000e-112	414.0
24	TraesCS2B01G076500	chr2A	86.508	252	19	4	905	1144	28693246	28692998	2.540000e-66	263.0
25	TraesCS2B01G076500	chr2A	83.775	302	19	9	3042	3313	28689925	28689624	3.280000e-65	259.0
26	TraesCS2B01G076500	chr2A	78.043	419	55	28	416	818	28693999	28693602	2.570000e-56	230.0
27	TraesCS2B01G076500	chr2A	80.351	285	37	8	1038	1322	764379780	764380045	7.250000e-47	198.0
28	TraesCS2B01G076500	chr2A	80.351	285	37	6	1038	1322	764430085	764430350	7.250000e-47	198.0
29	TraesCS2B01G076500	chr2A	85.556	180	22	3	66	244	28660767	28660591	5.650000e-43	185.0
30	TraesCS2B01G076500	chr2A	79.204	226	21	11	2836	3060	27979084	27978884	2.070000e-27	134.0
31	TraesCS2B01G076500	chr2A	93.976	83	3	2	840	920	28693348	28693266	1.250000e-24	124.0
32	TraesCS2B01G076500	chr2A	83.333	96	16	0	2170	2265	29334752	29334847	4.550000e-14	89.8
33	TraesCS2B01G076500	chr2A	83.333	96	16	0	2170	2265	29350878	29350973	4.550000e-14	89.8
34	TraesCS2B01G076500	chr2A	83.333	96	16	0	2170	2265	29363869	29363964	4.550000e-14	89.8
35	TraesCS2B01G076500	chr2A	91.837	49	3	1	770	818	28658644	28658597	2.130000e-07	67.6
36	TraesCS2B01G076500	chr2A	100.000	29	0	0	2013	2041	28657356	28657328	2.000000e-03	54.7
37	TraesCS2B01G076500	chr4A	81.250	192	30	2	979	1170	433732889	433733074	2.060000e-32	150.0
38	TraesCS2B01G076500	chr4A	100.000	28	0	0	978	1005	433638424	433638451	6.000000e-03	52.8
39	TraesCS2B01G076500	chr3B	82.184	174	26	4	3144	3313	126370102	126369930	9.580000e-31	145.0
40	TraesCS2B01G076500	chrUn	85.057	87	13	0	2179	2265	333543988	333543902	4.550000e-14	89.8

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	TraesCS2B01G076500	chr2B	41416186	41419498	3312	False	6119.000000	6119	100.000000	1	3313	1	chr2B.!!$F1	3312
1	TraesCS2B01G076500	chr2B	41604757	41606782	2025	False	763.666667	1580	87.918333	990	2966	3	chr2B.!!$F4	1976
2	TraesCS2B01G076500	chr2B	41437552	41440007	2455	False	336.500000	488	84.838000	243	3057	2	chr2B.!!$F3	2814
3	TraesCS2B01G076500	chr2D	26467673	26470948	3275	True	2143.500000	2857	90.197500	4	3308	2	chr2D.!!$R4	3304
4	TraesCS2B01G076500	chr2D	26033197	26035656	2459	True	869.000000	1561	87.915000	919	3307	3	chr2D.!!$R3	2388
5	TraesCS2B01G076500	chr2D	26345547	26346141	594	True	518.000000	518	83.250000	33	603	1	chr2D.!!$R2	570
6	TraesCS2B01G076500	chr2D	25654212	25655281	1069	False	270.500000	407	77.785500	1809	3310	2	chr2D.!!$F1	1501
7	TraesCS2B01G076500	chr2A	28209223	28212560	3337	True	1138.000000	1845	85.897500	919	3090	2	chr2A.!!$R3	2171
8	TraesCS2B01G076500	chr2A	28689624	28694892	5268	True	635.833333	2525	87.075667	85	3313	6	chr2A.!!$R5	3228
9	TraesCS2B01G076500	chr2A	28142028	28142724	696	True	429.000000	429	78.911000	2637	3310	1	chr2A.!!$R2	673
10	TraesCS2B01G076500	chr2A	28657328	28660767	3439	True	210.825000	536	90.227750	18	2041	4	chr2A.!!$R4	2023

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	Hairpin	End Stability	Orientation
189	1497	0.032403	TAATAACGATCCGCCACCCG	59.968	55.0	0.00	0.00	5.28	F
683	2648	0.247460	TTCCATGGCGTGAGAGTGAG	59.753	55.0	6.96	0.00	3.51	F
1609	4099	0.113776	TGGGGTAAGACCGTCAGAGT	59.886	55.0	0.40	39.83	3.24	F

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability	Orientation
1233	3671	0.388134	GCGTCGCTAGTCAAGTTGGA	60.388	55.0	10.68	0.0	0.00	3.53	R
2283	4898	0.527385	GTCGCTGCTAGCCTCTTGAG	60.527	60.0	13.29	2.4	38.18	3.02	R
2480	5297	1.450025	GTGCCTTAACACTGGGCTAC	58.550	55.0	4.51	0.0	45.45	3.58	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
127	1435	2.842208	TTTGCTGTTCGTCTTGGTTG	57.158	45.000	0.00	0.00	0.00	3.77
162	1470	3.496711	CGCGAGCTGGGCATTTTA	58.503	55.556	0.00	0.00	0.00	1.52
163	1471	1.062525	CGCGAGCTGGGCATTTTAC	59.937	57.895	0.00	0.00	0.00	2.01
164	1472	1.369091	CGCGAGCTGGGCATTTTACT	61.369	55.000	0.00	0.00	0.00	2.24
168	1476	2.414559	CGAGCTGGGCATTTTACTGTTG	60.415	50.000	0.00	0.00	0.00	3.33
172	1480	5.016173	AGCTGGGCATTTTACTGTTGATAA	58.984	37.500	0.00	0.00	0.00	1.75
174	1482	6.833416	AGCTGGGCATTTTACTGTTGATAATA	59.167	34.615	0.00	0.00	0.00	0.98
175	1483	7.341769	AGCTGGGCATTTTACTGTTGATAATAA	59.658	33.333	0.00	0.00	0.00	1.40
176	1484	7.435192	GCTGGGCATTTTACTGTTGATAATAAC	59.565	37.037	0.00	0.00	0.00	1.89
189	1497	0.032403	TAATAACGATCCGCCACCCG	59.968	55.000	0.00	0.00	0.00	5.28
195	1503	4.096003	ATCCGCCACCCGTTCCTG	62.096	66.667	0.00	0.00	34.38	3.86
219	1528	2.402388	CGCTGCCATTTGAGCTCG	59.598	61.111	9.64	0.00	32.70	5.03
654	2618	1.692749	AGGGTGTGGTGACTGTGGT	60.693	57.895	0.00	0.00	0.00	4.16
679	2644	1.078918	TGCTTCCATGGCGTGAGAG	60.079	57.895	6.96	6.60	0.00	3.20
683	2648	0.247460	TTCCATGGCGTGAGAGTGAG	59.753	55.000	6.96	0.00	0.00	3.51
719	2684	0.380378	ACTCTTGCTCGCTCGATCTC	59.620	55.000	0.00	0.00	0.00	2.75
735	2700	0.884514	TCTCAGCAAGTCTGACGGAG	59.115	55.000	1.52	6.23	46.34	4.63
739	2704	1.216710	GCAAGTCTGACGGAGGAGG	59.783	63.158	1.52	0.00	0.00	4.30
741	2706	0.814457	CAAGTCTGACGGAGGAGGAG	59.186	60.000	1.52	0.00	0.00	3.69
831	2832	4.083862	GGAAGAAGCGAGGCGGGT	62.084	66.667	0.00	0.00	0.00	5.28
923	3180	5.424757	ACGCCAAATCTGTATACAAAGCTA	58.575	37.500	7.06	0.00	0.00	3.32
929	3186	7.254455	CCAAATCTGTATACAAAGCTAACTCGG	60.254	40.741	7.06	0.00	0.00	4.63
950	3207	3.119708	GGTTTTAGCAAGTCTGGCTCATG	60.120	47.826	4.55	0.00	42.62	3.07
958	3215	1.168714	GTCTGGCTCATGGAAACCAC	58.831	55.000	0.00	0.00	35.80	4.16
964	3221	1.586154	CTCATGGAAACCACACGCCC	61.586	60.000	0.00	0.00	35.80	6.13
1027	3342	5.039333	GCACAGAATTTTATGAGACCATGC	58.961	41.667	0.00	0.00	34.31	4.06
1070	3394	3.005050	GCTGAGACTGAGGATGATCTGAG	59.995	52.174	0.00	0.00	0.00	3.35
1074	3398	2.036217	GACTGAGGATGATCTGAGCCAG	59.964	54.545	0.00	0.00	0.00	4.85
1188	3626	6.239289	GGTTTCAGACTTTGGAATCAATGGAA	60.239	38.462	0.00	0.00	33.78	3.53
1233	3671	4.020128	GTCCTCCTACTTTTGTGATGGACT	60.020	45.833	0.00	0.00	38.57	3.85
1245	3683	3.901222	TGTGATGGACTCCAACTTGACTA	59.099	43.478	0.66	0.00	36.95	2.59
1273	3711	4.778143	GCCAGTCCCATCGCCGTT	62.778	66.667	0.00	0.00	0.00	4.44
1360	3798	7.886970	AGATCCAGCAGTAATGTTGCATTATAT	59.113	33.333	1.06	0.00	43.92	0.86
1361	3799	9.166173	GATCCAGCAGTAATGTTGCATTATATA	57.834	33.333	1.06	0.00	43.92	0.86
1438	3890	0.469494	TGTTCTTGCAGCTCCACTCA	59.531	50.000	0.00	0.00	0.00	3.41
1498	3988	4.479993	AGGATCCAGCTGCCACGC	62.480	66.667	15.82	0.00	0.00	5.34
1533	4023	3.334054	AGGTGCAAGAGAGGCCCC	61.334	66.667	0.00	0.00	0.00	5.80
1602	4092	0.399075	ACCACTTTGGGGTAAGACCG	59.601	55.000	0.00	0.00	43.37	4.79
1603	4093	0.399075	CCACTTTGGGGTAAGACCGT	59.601	55.000	0.00	0.00	39.83	4.83
1604	4094	1.609841	CCACTTTGGGGTAAGACCGTC	60.610	57.143	0.00	0.00	39.83	4.79
1605	4095	1.071071	CACTTTGGGGTAAGACCGTCA	59.929	52.381	0.40	0.00	39.83	4.35
1606	4096	1.346722	ACTTTGGGGTAAGACCGTCAG	59.653	52.381	0.40	0.00	39.83	3.51
1607	4097	1.621814	CTTTGGGGTAAGACCGTCAGA	59.378	52.381	0.40	0.00	39.83	3.27
1608	4098	1.263356	TTGGGGTAAGACCGTCAGAG	58.737	55.000	0.40	0.00	39.83	3.35
1609	4099	0.113776	TGGGGTAAGACCGTCAGAGT	59.886	55.000	0.40	0.00	39.83	3.24
1610	4100	0.816373	GGGGTAAGACCGTCAGAGTC	59.184	60.000	0.40	0.00	39.83	3.36
1611	4101	1.542492	GGGTAAGACCGTCAGAGTCA	58.458	55.000	0.40	0.00	39.83	3.41
1612	4102	2.100989	GGGTAAGACCGTCAGAGTCAT	58.899	52.381	0.40	0.00	39.83	3.06
1613	4103	2.159226	GGGTAAGACCGTCAGAGTCATG	60.159	54.545	0.40	0.00	39.83	3.07
1614	4104	2.492484	GGTAAGACCGTCAGAGTCATGT	59.508	50.000	0.40	0.00	36.68	3.21
1615	4105	2.732412	AAGACCGTCAGAGTCATGTG	57.268	50.000	0.40	0.00	36.68	3.21
1616	4106	1.621992	AGACCGTCAGAGTCATGTGT	58.378	50.000	0.40	0.00	36.68	3.72
1617	4107	2.791655	AGACCGTCAGAGTCATGTGTA	58.208	47.619	0.40	0.00	36.68	2.90
1618	4108	3.357203	AGACCGTCAGAGTCATGTGTAT	58.643	45.455	0.40	0.00	36.68	2.29
1619	4109	4.524053	AGACCGTCAGAGTCATGTGTATA	58.476	43.478	0.40	0.00	36.68	1.47
1620	4110	5.133941	AGACCGTCAGAGTCATGTGTATAT	58.866	41.667	0.40	0.00	36.68	0.86
1621	4111	6.296803	AGACCGTCAGAGTCATGTGTATATA	58.703	40.000	0.40	0.00	36.68	0.86
1622	4112	6.771267	AGACCGTCAGAGTCATGTGTATATAA	59.229	38.462	0.40	0.00	36.68	0.98
1623	4113	6.736123	ACCGTCAGAGTCATGTGTATATAAC	58.264	40.000	0.00	0.00	0.00	1.89
1624	4114	6.546403	ACCGTCAGAGTCATGTGTATATAACT	59.454	38.462	0.00	0.00	0.00	2.24
1625	4115	7.718314	ACCGTCAGAGTCATGTGTATATAACTA	59.282	37.037	0.00	0.00	0.00	2.24
1672	4170	7.475015	TCAACAAATTACTTAGAGATGCATGC	58.525	34.615	11.82	11.82	0.00	4.06
1719	4218	6.476706	CACCCTTTTGAGTTCAGAATTTTCAC	59.523	38.462	0.00	0.00	0.00	3.18
1754	4254	5.039920	CATCAATGGACTACTCCCAATGA	57.960	43.478	0.00	0.00	44.79	2.57
1755	4255	5.439721	CATCAATGGACTACTCCCAATGAA	58.560	41.667	4.30	0.00	44.14	2.57
1756	4256	5.102953	TCAATGGACTACTCCCAATGAAG	57.897	43.478	0.00	0.00	39.79	3.02
1757	4257	4.536090	TCAATGGACTACTCCCAATGAAGT	59.464	41.667	0.00	0.00	39.79	3.01
1758	4258	4.762289	ATGGACTACTCCCAATGAAGTC	57.238	45.455	0.00	0.00	37.22	3.01
1759	4259	3.791320	TGGACTACTCCCAATGAAGTCT	58.209	45.455	0.00	0.00	37.36	3.24
1760	4260	4.942944	TGGACTACTCCCAATGAAGTCTA	58.057	43.478	0.00	0.00	37.36	2.59
1761	4261	5.529289	TGGACTACTCCCAATGAAGTCTAT	58.471	41.667	0.00	0.00	37.36	1.98
1762	4262	5.363868	TGGACTACTCCCAATGAAGTCTATG	59.636	44.000	0.00	0.00	37.36	2.23
1774	4274	7.919091	CCAATGAAGTCTATGTCCAATGAATTG	59.081	37.037	0.00	0.00	37.52	2.32
1828	4328	1.604378	CTCCGGGATGCACCTTCTT	59.396	57.895	0.00	0.00	38.98	2.52
2141	4754	4.402056	AATCATACACGGTAAGACCTGG	57.598	45.455	0.00	0.00	35.66	4.45
2177	4790	6.506500	AGTGTAATTCCATCAGCTTTTGAG	57.493	37.500	0.00	0.00	39.68	3.02
2195	4809	0.929244	AGCTAATTGGGGAGCACCAT	59.071	50.000	1.58	0.00	40.91	3.55
2361	5156	5.574443	GCAAGAGTCATTGTTTAGGATTTGC	59.426	40.000	0.00	0.00	32.56	3.68
2402	5205	0.526662	AGCTTGAATCAGCAGCTTGC	59.473	50.000	3.76	0.47	45.46	4.01
2414	5231	1.003116	GCAGCTTGCATTGTATCTCCG	60.003	52.381	0.00	0.00	44.26	4.63
2442	5259	2.680841	GTGCCATGCAAATTACCGACTA	59.319	45.455	0.00	0.00	41.47	2.59
2480	5297	9.790344	AGATCATTGTCTCCTAATCCATTTTAG	57.210	33.333	0.00	0.00	0.00	1.85
2549	5366	2.813754	GCAGTGCCTGAAAACACTATGA	59.186	45.455	2.85	0.00	45.15	2.15
2553	5370	5.877012	CAGTGCCTGAAAACACTATGAGTAT	59.123	40.000	0.00	0.00	45.15	2.12
2689	6738	5.594317	GGCAAGCAAAAGGATCTTAAGGATA	59.406	40.000	1.85	0.00	34.33	2.59
2731	6786	7.816945	CATTGTGATTCCAAAATGGTAGAAC	57.183	36.000	0.00	0.00	41.93	3.01
2772	6861	5.810525	TCAAAATAATCGCTAAGCAGCTTC	58.189	37.500	12.07	0.00	46.26	3.86
2896	6996	3.758554	GGTATCCAATGCACAACTGAACT	59.241	43.478	0.00	0.00	0.00	3.01
3073	8375	1.287146	ACACGGTACCACCTATCTCCT	59.713	52.381	13.54	0.00	35.66	3.69
3094	8405	1.603456	TTTTCATGCACGCTCCTTCA	58.397	45.000	0.00	0.00	0.00	3.02
3096	8407	1.300971	TTCATGCACGCTCCTTCAGC	61.301	55.000	0.00	0.00	45.85	4.26
3097	8408	2.437359	ATGCACGCTCCTTCAGCC	60.437	61.111	0.00	0.00	46.74	4.85
3099	8410	1.617018	ATGCACGCTCCTTCAGCCTA	61.617	55.000	0.00	0.00	46.74	3.93
3109	8420	5.277538	CGCTCCTTCAGCCTATTTTTACATC	60.278	44.000	0.00	0.00	46.74	3.06
3159	8509	0.596577	TCGTGTTGTCCTCTTCCTCG	59.403	55.000	0.00	0.00	0.00	4.63
3310	8687	0.625316	CATCCCATGTTCCACCCTGA	59.375	55.000	0.00	0.00	0.00	3.86

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
1	2	1.967319	GTTCAACCTGGAACTGAGCA	58.033	50.000	0.00	0.00	42.98	4.26
45	1349	1.822114	TTTGTGTCGAGGATCCGCCA	61.822	55.000	10.18	0.00	40.02	5.69
48	1352	2.196749	CTGATTTGTGTCGAGGATCCG	58.803	52.381	5.98	0.00	0.00	4.18
57	1365	1.237285	ACCGGCTGCTGATTTGTGTC	61.237	55.000	10.70	0.00	0.00	3.67
149	1457	2.875296	TCAACAGTAAAATGCCCAGCT	58.125	42.857	0.00	0.00	0.00	4.24
152	1460	7.337184	TCGTTATTATCAACAGTAAAATGCCCA	59.663	33.333	0.00	0.00	0.00	5.36
160	1468	5.693104	GGCGGATCGTTATTATCAACAGTAA	59.307	40.000	0.00	0.00	0.00	2.24
162	1470	4.056050	GGCGGATCGTTATTATCAACAGT	58.944	43.478	0.00	0.00	0.00	3.55
163	1471	4.055360	TGGCGGATCGTTATTATCAACAG	58.945	43.478	0.00	0.00	0.00	3.16
164	1472	3.805422	GTGGCGGATCGTTATTATCAACA	59.195	43.478	0.00	0.00	0.00	3.33
168	1476	2.344025	GGGTGGCGGATCGTTATTATC	58.656	52.381	0.00	0.00	0.00	1.75
172	1480	1.963464	AACGGGTGGCGGATCGTTAT	61.963	55.000	0.00	0.00	42.82	1.89
174	1482	3.945304	GAACGGGTGGCGGATCGTT	62.945	63.158	7.27	7.27	46.45	3.85
175	1483	4.446413	GAACGGGTGGCGGATCGT	62.446	66.667	0.00	0.00	37.45	3.73
189	1497	3.044059	GCAGCGCATCCACAGGAAC	62.044	63.158	11.47	0.00	34.34	3.62
195	1503	1.517694	CAAATGGCAGCGCATCCAC	60.518	57.895	20.52	2.01	34.81	4.02
219	1528	1.670406	CACTGAGCTGAGCACACCC	60.670	63.158	7.39	0.00	0.00	4.61
248	1588	2.100989	GTTCCTCATGGACTACGGTCT	58.899	52.381	0.00	0.00	43.06	3.85
679	2644	1.609794	AGTTCCTCCGTCCCCTCAC	60.610	63.158	0.00	0.00	0.00	3.51
683	2648	3.319198	TGCAGTTCCTCCGTCCCC	61.319	66.667	0.00	0.00	0.00	4.81
719	2684	0.108898	CTCCTCCGTCAGACTTGCTG	60.109	60.000	0.00	0.00	46.31	4.41
735	2700	1.783071	CCTACTCCTTCACCTCCTCC	58.217	60.000	0.00	0.00	0.00	4.30
739	2704	2.420687	CCAATGCCTACTCCTTCACCTC	60.421	54.545	0.00	0.00	0.00	3.85
741	2706	1.559682	TCCAATGCCTACTCCTTCACC	59.440	52.381	0.00	0.00	0.00	4.02
831	2832	1.078347	GATTTCCCCACCCTGCCAA	59.922	57.895	0.00	0.00	0.00	4.52
923	3180	3.139077	CCAGACTTGCTAAAACCGAGTT	58.861	45.455	0.00	0.00	0.00	3.01
929	3186	3.119708	CCATGAGCCAGACTTGCTAAAAC	60.120	47.826	0.13	0.00	39.69	2.43
950	3207	1.066752	GTTTGGGCGTGTGGTTTCC	59.933	57.895	0.00	0.00	0.00	3.13
958	3215	1.178534	AACATCAGGGTTTGGGCGTG	61.179	55.000	0.00	0.00	0.00	5.34
964	3221	5.768317	ACAACGAAATAACATCAGGGTTTG	58.232	37.500	0.00	0.00	32.29	2.93
1027	3342	1.139654	TCGGGCTCCTTTGATGATGAG	59.860	52.381	0.00	0.00	0.00	2.90
1070	3394	4.737054	CATCATACCTTCAAACAACTGGC	58.263	43.478	0.00	0.00	0.00	4.85
1074	3398	5.355350	AGCTAGCATCATACCTTCAAACAAC	59.645	40.000	18.83	0.00	0.00	3.32
1162	3600	4.829064	TTGATTCCAAAGTCTGAAACCG	57.171	40.909	0.00	0.00	0.00	4.44
1188	3626	1.271656	GAATGAAGCTGCAAGTTGGCT	59.728	47.619	0.00	2.79	37.99	4.75
1233	3671	0.388134	GCGTCGCTAGTCAAGTTGGA	60.388	55.000	10.68	0.00	0.00	3.53
1263	3701	2.819595	CACCCTCAACGGCGATGG	60.820	66.667	16.62	9.53	0.00	3.51
1297	3735	4.880120	CAGTACCTATCAAGTCTACCGTCA	59.120	45.833	0.00	0.00	0.00	4.35
1308	3746	5.932619	ATAGCACACACAGTACCTATCAA	57.067	39.130	0.00	0.00	0.00	2.57
1360	3798	7.168219	AGAGTCCATGACAATTTTAAGTGCTA	58.832	34.615	0.00	0.00	34.60	3.49
1361	3799	6.006449	AGAGTCCATGACAATTTTAAGTGCT	58.994	36.000	0.00	0.00	34.60	4.40
1382	3820	5.640189	TTCCAAAGTCGGAACTAGTAGAG	57.360	43.478	3.59	0.00	40.20	2.43
1406	3858	2.507484	CAAGAACAGCTTCATCCACCA	58.493	47.619	0.00	0.00	33.60	4.17
1438	3890	6.007076	TCTCGATCATATAAGCAGAAGGACT	58.993	40.000	0.00	0.00	0.00	3.85
1511	4001	1.984570	CCTCTCTTGCACCTCCGGA	60.985	63.158	2.93	2.93	0.00	5.14
1533	4023	1.299541	ATGGTATTCTTCGCTTGCGG	58.700	50.000	15.10	0.07	0.00	5.69
1672	4170	7.596248	GGGTGCACAATATATAGAAAAATGCTG	59.404	37.037	20.43	0.00	0.00	4.41
1746	4246	5.191522	TCATTGGACATAGACTTCATTGGGA	59.808	40.000	0.00	0.00	0.00	4.37
1747	4247	5.439721	TCATTGGACATAGACTTCATTGGG	58.560	41.667	0.00	0.00	0.00	4.12
1748	4248	7.578310	ATTCATTGGACATAGACTTCATTGG	57.422	36.000	0.00	0.00	0.00	3.16
1749	4249	8.464404	ACAATTCATTGGACATAGACTTCATTG	58.536	33.333	4.58	0.00	41.96	2.82
1750	4250	8.585471	ACAATTCATTGGACATAGACTTCATT	57.415	30.769	4.58	0.00	41.96	2.57
1751	4251	9.857656	ATACAATTCATTGGACATAGACTTCAT	57.142	29.630	4.58	0.00	41.96	2.57
1752	4252	9.112725	CATACAATTCATTGGACATAGACTTCA	57.887	33.333	4.58	0.00	41.96	3.02
1753	4253	9.113838	ACATACAATTCATTGGACATAGACTTC	57.886	33.333	4.58	0.00	41.96	3.01
1754	4254	9.113838	GACATACAATTCATTGGACATAGACTT	57.886	33.333	4.58	0.00	41.96	3.01
1755	4255	7.439356	CGACATACAATTCATTGGACATAGACT	59.561	37.037	4.58	0.00	41.96	3.24
1756	4256	7.224753	ACGACATACAATTCATTGGACATAGAC	59.775	37.037	4.58	0.00	41.96	2.59
1757	4257	7.272244	ACGACATACAATTCATTGGACATAGA	58.728	34.615	4.58	0.00	41.96	1.98
1758	4258	7.482654	ACGACATACAATTCATTGGACATAG	57.517	36.000	4.58	0.00	41.96	2.23
1759	4259	7.201688	CCAACGACATACAATTCATTGGACATA	60.202	37.037	4.58	0.00	41.96	2.29
1760	4260	6.404623	CCAACGACATACAATTCATTGGACAT	60.405	38.462	4.58	0.00	41.96	3.06
1761	4261	5.106357	CCAACGACATACAATTCATTGGACA	60.106	40.000	4.58	0.00	41.96	4.02
1762	4262	5.106317	ACCAACGACATACAATTCATTGGAC	60.106	40.000	6.68	0.00	41.96	4.02
1774	4274	4.911053	TGTTCAAACAACCAACGACATAC	58.089	39.130	0.00	0.00	35.67	2.39
1828	4328	0.882927	CGGTTTCGGCCTTCACTTGA	60.883	55.000	0.00	0.00	0.00	3.02
1964	4464	4.439552	TGTCTGATCTGTTCGATCTGGCT	61.440	47.826	12.42	0.00	46.67	4.75
2141	4754	6.970484	TGGAATTACACTTTCTTTTCAGAGC	58.030	36.000	0.00	0.00	0.00	4.09
2177	4790	2.106511	TCTATGGTGCTCCCCAATTAGC	59.893	50.000	1.59	0.00	38.20	3.09
2283	4898	0.527385	GTCGCTGCTAGCCTCTTGAG	60.527	60.000	13.29	2.40	38.18	3.02
2361	5156	1.132643	GCTACTGACCACTCTACACCG	59.867	57.143	0.00	0.00	0.00	4.94
2402	5205	3.393800	CACTTAGGCCGGAGATACAATG	58.606	50.000	5.05	0.00	0.00	2.82
2442	5259	8.105829	AGGAGACAATGATCTACTTCATTTGTT	58.894	33.333	0.00	0.00	42.29	2.83
2480	5297	1.450025	GTGCCTTAACACTGGGCTAC	58.550	55.000	4.51	0.00	45.45	3.58
2549	5366	6.390461	TCCAGAAGACTAGGAAGGTAGATACT	59.610	42.308	0.00	0.00	0.00	2.12
2553	5370	5.735733	ATCCAGAAGACTAGGAAGGTAGA	57.264	43.478	0.00	0.00	34.62	2.59
2625	5479	4.778579	ACATGATCCCTTGTGAAGATCAG	58.221	43.478	0.00	3.64	46.92	2.90
2714	6763	8.840321	CAGAATATCGTTCTACCATTTTGGAAT	58.160	33.333	0.00	0.00	40.96	3.01
2731	6786	5.723492	TTTGAGTCATGTGCAGAATATCG	57.277	39.130	0.00	0.00	0.00	2.92
2772	6861	8.539770	TTTCTTGTGAATTAGTTCTAGAGCTG	57.460	34.615	18.47	0.00	35.33	4.24
2784	6873	9.311916	CACCATCTTTTGTTTTCTTGTGAATTA	57.688	29.630	0.00	0.00	31.56	1.40
3094	8405	3.065371	GCGTGCAGATGTAAAAATAGGCT	59.935	43.478	0.00	0.00	0.00	4.58
3096	8407	4.260784	GGAGCGTGCAGATGTAAAAATAGG	60.261	45.833	0.00	0.00	0.00	2.57
3097	8408	4.572389	AGGAGCGTGCAGATGTAAAAATAG	59.428	41.667	0.00	0.00	0.00	1.73
3099	8410	3.347216	AGGAGCGTGCAGATGTAAAAAT	58.653	40.909	0.00	0.00	0.00	1.82
3159	8509	1.939255	GGAGCAGAGTTAGCATGAAGC	59.061	52.381	0.00	0.00	46.19	3.86

Based at the University of Bristol with support from BBSRC.

AutoCloner maintained by Alex Coulton.