AutoCloner

Multiple sequence alignment - TraesCS2B01G188400

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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	TraesCS2B01G188400	chr2B	100.000	3311	0	0	1	3311	163976255	163979565	0.000000e+00	6115.0
1	TraesCS2B01G188400	chr2B	93.622	1411	78	5	921	2326	163741709	163743112	0.000000e+00	2097.0
2	TraesCS2B01G188400	chr2B	95.916	808	31	2	2504	3311	164068449	164069254	0.000000e+00	1308.0
3	TraesCS2B01G188400	chr2B	92.716	810	57	2	2504	3311	139622660	139623469	0.000000e+00	1168.0
4	TraesCS2B01G188400	chr2B	92.469	810	59	2	2504	3311	139644785	139645594	0.000000e+00	1157.0
5	TraesCS2B01G188400	chr2B	89.941	169	15	2	569	736	163736759	163736926	2.000000e-52	217.0
6	TraesCS2B01G188400	chr2B	88.710	62	4	2	464	525	163736698	163736756	4.580000e-09	73.1
7	TraesCS2B01G188400	chr2D	95.795	1736	50	11	785	2507	113480285	113482010	0.000000e+00	2780.0
8	TraesCS2B01G188400	chr2D	93.211	1414	79	5	923	2326	113091278	113092684	0.000000e+00	2063.0
9	TraesCS2B01G188400	chr2D	96.835	316	7	1	410	725	113479978	113480290	2.930000e-145	525.0
10	TraesCS2B01G188400	chr2D	95.941	271	7	4	1	270	113478330	113478597	1.410000e-118	436.0
11	TraesCS2B01G188400	chr2D	94.928	138	6	1	259	395	113479855	113479992	7.200000e-52	215.0
12	TraesCS2B01G188400	chr2D	94.737	57	2	1	523	579	166176343	166176398	1.640000e-13	87.9
13	TraesCS2B01G188400	chr2A	93.957	1539	63	6	804	2332	115094582	115096100	0.000000e+00	2300.0
14	TraesCS2B01G188400	chr2A	92.629	1004	66	5	1325	2327	114498414	114497418	0.000000e+00	1437.0
15	TraesCS2B01G188400	chr2A	90.398	427	21	9	923	1334	114499323	114498902	8.080000e-151	544.0
16	TraesCS2B01G188400	chr2A	94.857	175	6	3	2336	2508	115096205	115096378	1.510000e-68	270.0
17	TraesCS2B01G188400	chr2A	90.526	190	13	3	569	753	115094382	115094571	2.550000e-61	246.0
18	TraesCS2B01G188400	chr2A	95.385	65	1	2	462	525	115094316	115094379	5.850000e-18	102.0
19	TraesCS2B01G188400	chr2A	96.226	53	2	0	521	573	688974004	688974056	1.640000e-13	87.9
20	TraesCS2B01G188400	chr3A	85.788	1365	138	26	967	2316	100847760	100849083	0.000000e+00	1395.0
21	TraesCS2B01G188400	chr3A	89.299	271	29	0	1876	2146	100869738	100870008	1.140000e-89	340.0
22	TraesCS2B01G188400	chr3B	88.757	1094	118	5	1224	2316	132910201	132911290	0.000000e+00	1334.0
23	TraesCS2B01G188400	chr3B	86.782	1044	127	6	1280	2316	132052916	132051877	0.000000e+00	1153.0
24	TraesCS2B01G188400	chr3B	92.157	816	59	4	2498	3311	276847247	276846435	0.000000e+00	1147.0
25	TraesCS2B01G188400	chr3B	91.985	811	60	5	2504	3311	813319833	813320641	0.000000e+00	1133.0
26	TraesCS2B01G188400	chr3B	91.728	810	64	3	2504	3311	276833451	276832643	0.000000e+00	1122.0
27	TraesCS2B01G188400	chr3B	91.708	808	67	0	2504	3311	335681621	335680814	0.000000e+00	1122.0
28	TraesCS2B01G188400	chr3B	86.792	1007	128	5	1182	2187	132956159	132957161	0.000000e+00	1118.0
29	TraesCS2B01G188400	chr3B	92.982	57	4	0	517	573	647548019	647548075	2.120000e-12	84.2
30	TraesCS2B01G188400	chr7B	92.213	809	61	2	2504	3311	60333321	60334128	0.000000e+00	1144.0
31	TraesCS2B01G188400	chr7B	96.154	52	2	0	520	571	744201291	744201342	5.890000e-13	86.1
32	TraesCS2B01G188400	chr5B	91.708	808	65	1	2504	3311	217947399	217948204	0.000000e+00	1120.0
33	TraesCS2B01G188400	chrUn	81.673	1315	183	31	1000	2311	34465372	34464113	0.000000e+00	1040.0
34	TraesCS2B01G188400	chrUn	81.700	1306	180	31	1010	2311	34009660	34010910	0.000000e+00	1033.0
35	TraesCS2B01G188400	chr3D	81.325	1328	188	30	1000	2321	1196972	1195699	0.000000e+00	1024.0
36	TraesCS2B01G188400	chr7D	97.959	49	1	0	523	571	163058834	163058882	5.890000e-13	86.1
37	TraesCS2B01G188400	chr1A	96.154	52	2	0	523	574	522503511	522503562	5.890000e-13	86.1
38	TraesCS2B01G188400	chr1A	89.394	66	5	2	509	573	532441183	532441247	7.620000e-12	82.4
39	TraesCS2B01G188400	chr6D	94.545	55	2	1	520	574	389646571	389646624	2.120000e-12	84.2

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	TraesCS2B01G188400	chr2B	163976255	163979565	3310	False	6115.0	6115	100.00000	1	3311	1	chr2B.!!$F4	3310
1	TraesCS2B01G188400	chr2B	163741709	163743112	1403	False	2097.0	2097	93.62200	921	2326	1	chr2B.!!$F3	1405
2	TraesCS2B01G188400	chr2B	164068449	164069254	805	False	1308.0	1308	95.91600	2504	3311	1	chr2B.!!$F5	807
3	TraesCS2B01G188400	chr2B	139622660	139623469	809	False	1168.0	1168	92.71600	2504	3311	1	chr2B.!!$F1	807
4	TraesCS2B01G188400	chr2B	139644785	139645594	809	False	1157.0	1157	92.46900	2504	3311	1	chr2B.!!$F2	807
5	TraesCS2B01G188400	chr2D	113091278	113092684	1406	False	2063.0	2063	93.21100	923	2326	1	chr2D.!!$F1	1403
6	TraesCS2B01G188400	chr2D	113478330	113482010	3680	False	989.0	2780	95.87475	1	2507	4	chr2D.!!$F3	2506
7	TraesCS2B01G188400	chr2A	114497418	114499323	1905	True	990.5	1437	91.51350	923	2327	2	chr2A.!!$R1	1404
8	TraesCS2B01G188400	chr2A	115094316	115096378	2062	False	729.5	2300	93.68125	462	2508	4	chr2A.!!$F2	2046
9	TraesCS2B01G188400	chr3A	100847760	100849083	1323	False	1395.0	1395	85.78800	967	2316	1	chr3A.!!$F1	1349
10	TraesCS2B01G188400	chr3B	132910201	132911290	1089	False	1334.0	1334	88.75700	1224	2316	1	chr3B.!!$F1	1092
11	TraesCS2B01G188400	chr3B	132051877	132052916	1039	True	1153.0	1153	86.78200	1280	2316	1	chr3B.!!$R1	1036
12	TraesCS2B01G188400	chr3B	276846435	276847247	812	True	1147.0	1147	92.15700	2498	3311	1	chr3B.!!$R3	813
13	TraesCS2B01G188400	chr3B	813319833	813320641	808	False	1133.0	1133	91.98500	2504	3311	1	chr3B.!!$F4	807
14	TraesCS2B01G188400	chr3B	276832643	276833451	808	True	1122.0	1122	91.72800	2504	3311	1	chr3B.!!$R2	807
15	TraesCS2B01G188400	chr3B	335680814	335681621	807	True	1122.0	1122	91.70800	2504	3311	1	chr3B.!!$R4	807
16	TraesCS2B01G188400	chr3B	132956159	132957161	1002	False	1118.0	1118	86.79200	1182	2187	1	chr3B.!!$F2	1005
17	TraesCS2B01G188400	chr7B	60333321	60334128	807	False	1144.0	1144	92.21300	2504	3311	1	chr7B.!!$F1	807
18	TraesCS2B01G188400	chr5B	217947399	217948204	805	False	1120.0	1120	91.70800	2504	3311	1	chr5B.!!$F1	807
19	TraesCS2B01G188400	chrUn	34464113	34465372	1259	True	1040.0	1040	81.67300	1000	2311	1	chrUn.!!$R1	1311
20	TraesCS2B01G188400	chrUn	34009660	34010910	1250	False	1033.0	1033	81.70000	1010	2311	1	chrUn.!!$F1	1301
21	TraesCS2B01G188400	chr3D	1195699	1196972	1273	True	1024.0	1024	81.32500	1000	2321	1	chr3D.!!$R1	1321

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
115	116	0.047176	AGGGAGGGAGAGAGAGGAGA	59.953	60.0	0.00	0.0	0.00	3.71	F
764	2046	0.248539	CAGGCGGCTTCTACGTCTAC	60.249	60.0	9.66	0.0	45.54	2.59	F

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability	Orientation
1725	3556	3.553095	GAACAAGACCGGGCTGCCT	62.553	63.158	12.91	0.0	0.00	4.75	R
2618	4567	0.105913	GGGAGAGGGAGTTCGGAGAT	60.106	60.000	0.00	0.0	35.04	2.75	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
87	88	1.124477	AGAGGAGCCATCGGGAATCC	61.124	60.000	0.00	0.00	40.28	3.01
114	115	0.478507	GAGGGAGGGAGAGAGAGGAG	59.521	65.000	0.00	0.00	0.00	3.69
115	116	0.047176	AGGGAGGGAGAGAGAGGAGA	59.953	60.000	0.00	0.00	0.00	3.71
116	117	0.478507	GGGAGGGAGAGAGAGGAGAG	59.521	65.000	0.00	0.00	0.00	3.20
117	118	1.518367	GGAGGGAGAGAGAGGAGAGA	58.482	60.000	0.00	0.00	0.00	3.10
118	119	1.421646	GGAGGGAGAGAGAGGAGAGAG	59.578	61.905	0.00	0.00	0.00	3.20
119	120	1.421646	GAGGGAGAGAGAGGAGAGAGG	59.578	61.905	0.00	0.00	0.00	3.69
120	121	0.478507	GGGAGAGAGAGGAGAGAGGG	59.521	65.000	0.00	0.00	0.00	4.30
215	221	6.953520	AGATTTCAGGATTTGTTAATGGGTCA	59.046	34.615	0.00	0.00	0.00	4.02
271	1546	8.616799	AAGGATCTTGGACTAGAGAAAGTTAT	57.383	34.615	0.00	0.00	0.00	1.89
316	1592	2.029844	GAGCGAGAGTGTGTTGGGC	61.030	63.158	0.00	0.00	0.00	5.36
317	1593	2.031163	GCGAGAGTGTGTTGGGCT	59.969	61.111	0.00	0.00	0.00	5.19
378	1654	7.664318	CCTAAACCTGGTAAAGTACATGTTTCT	59.336	37.037	2.30	0.00	31.93	2.52
381	1657	6.597562	ACCTGGTAAAGTACATGTTTCTCAA	58.402	36.000	2.30	0.00	0.00	3.02
402	1678	3.256704	ACTCTGAATTGAGTTACCCCCA	58.743	45.455	0.00	0.00	44.01	4.96
403	1679	3.655777	ACTCTGAATTGAGTTACCCCCAA	59.344	43.478	0.00	0.00	44.01	4.12
404	1680	4.105697	ACTCTGAATTGAGTTACCCCCAAA	59.894	41.667	0.00	0.00	44.01	3.28
405	1681	5.068215	TCTGAATTGAGTTACCCCCAAAA	57.932	39.130	0.00	0.00	0.00	2.44
406	1682	5.459505	TCTGAATTGAGTTACCCCCAAAAA	58.540	37.500	0.00	0.00	0.00	1.94
513	1790	2.028112	GGTCATGAAGGCACTAGTCACA	60.028	50.000	0.00	0.00	38.49	3.58
542	1819	3.143728	GCTACTCCCTCCGTTTCAAAAA	58.856	45.455	0.00	0.00	0.00	1.94
637	1915	3.658709	CCAGCTCGTTTCTTCTTCTTCT	58.341	45.455	0.00	0.00	0.00	2.85
753	2035	2.203394	CAATATGGGCAGGCGGCT	60.203	61.111	5.25	5.25	44.01	5.52
754	2036	1.829533	CAATATGGGCAGGCGGCTT	60.830	57.895	9.66	0.00	44.01	4.35
755	2037	1.529244	AATATGGGCAGGCGGCTTC	60.529	57.895	9.66	3.69	44.01	3.86
756	2038	1.999634	AATATGGGCAGGCGGCTTCT	62.000	55.000	9.66	0.00	44.01	2.85
757	2039	1.127567	ATATGGGCAGGCGGCTTCTA	61.128	55.000	9.66	2.79	44.01	2.10
758	2040	2.040009	TATGGGCAGGCGGCTTCTAC	62.040	60.000	9.66	2.60	44.01	2.59
761	2043	2.886124	GCAGGCGGCTTCTACGTC	60.886	66.667	9.66	0.00	40.25	4.34
763	2045	2.001361	GCAGGCGGCTTCTACGTCTA	62.001	60.000	9.66	0.00	45.54	2.59
764	2046	0.248539	CAGGCGGCTTCTACGTCTAC	60.249	60.000	9.66	0.00	45.54	2.59
765	2047	1.298190	GGCGGCTTCTACGTCTACG	60.298	63.158	0.00	0.04	46.33	3.51
780	2062	4.845387	CGTCTACGTCTGTATGCTATTGT	58.155	43.478	0.00	0.00	34.11	2.71
781	2063	5.271625	CGTCTACGTCTGTATGCTATTGTT	58.728	41.667	0.00	0.00	34.11	2.83
782	2064	5.395778	CGTCTACGTCTGTATGCTATTGTTC	59.604	44.000	0.00	0.00	34.11	3.18
783	2065	5.395778	GTCTACGTCTGTATGCTATTGTTCG	59.604	44.000	0.00	0.00	0.00	3.95
834	2116	2.443255	AGGTTATTCCGCCCTTGATGAT	59.557	45.455	0.00	0.00	41.99	2.45
902	2184	8.908172	ATTTGTTAACGCTCTACTACTTACTC	57.092	34.615	0.26	0.00	0.00	2.59
1725	3556	3.005472	CCGACTTCTTCAACACCAGTCTA	59.995	47.826	0.00	0.00	33.12	2.59
1755	3586	3.589654	CTTGTTCGGCTCCCTCGCA	62.590	63.158	0.00	0.00	0.00	5.10
1770	3601	2.749441	GCAGAGCTGGTCCCAAGC	60.749	66.667	2.76	0.00	0.00	4.01
2268	4105	1.225855	TGCTGTTTGACATCACCGTC	58.774	50.000	0.00	0.00	36.40	4.79
2332	4278	4.330250	AGGTCTGAAGCTTACTACGTACA	58.670	43.478	0.00	0.00	0.00	2.90
2333	4279	4.155644	AGGTCTGAAGCTTACTACGTACAC	59.844	45.833	0.00	0.00	0.00	2.90
2334	4280	4.155644	GGTCTGAAGCTTACTACGTACACT	59.844	45.833	0.00	0.00	0.00	3.55
2335	4281	5.352569	GGTCTGAAGCTTACTACGTACACTA	59.647	44.000	0.00	0.00	0.00	2.74
2336	4282	6.456718	GGTCTGAAGCTTACTACGTACACTAG	60.457	46.154	0.00	0.00	0.00	2.57
2337	4283	6.091986	GTCTGAAGCTTACTACGTACACTAGT	59.908	42.308	0.00	0.00	0.00	2.57
2338	4284	7.276658	GTCTGAAGCTTACTACGTACACTAGTA	59.723	40.741	0.00	0.00	0.00	1.82
2339	4285	7.276658	TCTGAAGCTTACTACGTACACTAGTAC	59.723	40.741	0.00	0.00	45.67	2.73
2427	4373	3.448093	TCCATGTTCATTGCCCTGTTA	57.552	42.857	0.00	0.00	0.00	2.41
2429	4375	3.700539	TCCATGTTCATTGCCCTGTTATG	59.299	43.478	0.00	0.00	0.00	1.90
2486	4435	6.750501	TGACACAGTTATAAGAATCGTAGCAC	59.249	38.462	0.00	0.00	0.00	4.40
2502	4451	0.109319	GCACCGTTTACAAGCATGGG	60.109	55.000	0.00	0.00	0.00	4.00
2559	4508	1.607801	CCTGCATCTCCCTCGACACA	61.608	60.000	0.00	0.00	0.00	3.72
2618	4567	3.427638	CGAAGATAAGGTGAACTCGCTCA	60.428	47.826	0.00	0.00	0.00	4.26
2660	4609	3.556999	ACTCACGAGACATGGCTACTAT	58.443	45.455	0.00	0.00	0.00	2.12
2669	4618	5.561679	AGACATGGCTACTATCTCATACGA	58.438	41.667	0.00	0.00	0.00	3.43
2841	4790	0.106619	CCCCTAGAGGTCGCTACAGT	60.107	60.000	0.00	0.00	0.00	3.55
2937	4886	4.148825	GGACGACCGAGCCAGCAT	62.149	66.667	0.00	0.00	0.00	3.79
2993	4942	0.822164	GGAAATCCGAGGAAGTCCGA	59.178	55.000	8.22	0.00	42.08	4.55
2997	4946	2.280823	ATCCGAGGAAGTCCGAACGC	62.281	60.000	0.00	0.00	42.08	4.84
3169	5122	1.767759	GCCCCTCATTTGCACTATGT	58.232	50.000	7.63	0.00	0.00	2.29

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
38	39	2.018086	CCCCTCCCTCCTCTCCTCT	61.018	68.421	0.00	0.00	0.00	3.69
114	115	2.040359	CCCCTCCCTTCCCCTCTC	60.040	72.222	0.00	0.00	0.00	3.20
115	116	3.711782	CCCCCTCCCTTCCCCTCT	61.712	72.222	0.00	0.00	0.00	3.69
116	117	3.707189	TCCCCCTCCCTTCCCCTC	61.707	72.222	0.00	0.00	0.00	4.30
117	118	3.711782	CTCCCCCTCCCTTCCCCT	61.712	72.222	0.00	0.00	0.00	4.79
118	119	3.707189	TCTCCCCCTCCCTTCCCC	61.707	72.222	0.00	0.00	0.00	4.81
119	120	2.040359	CTCTCCCCCTCCCTTCCC	60.040	72.222	0.00	0.00	0.00	3.97
120	121	2.040359	CCTCTCCCCCTCCCTTCC	60.040	72.222	0.00	0.00	0.00	3.46
152	158	7.420800	CATGAATAAAATAGCAAGTGGAGACC	58.579	38.462	0.00	0.00	0.00	3.85
215	221	6.382919	TTTACTGTTAGAAGTAATGGGCCT	57.617	37.500	4.53	0.00	41.17	5.19
316	1592	3.829886	TGCGGCATCTCTAACAAAAAG	57.170	42.857	0.00	0.00	0.00	2.27
317	1593	3.316588	TGTTGCGGCATCTCTAACAAAAA	59.683	39.130	2.28	0.00	0.00	1.94
405	1681	7.862873	GCACAAGTACTCAATTTAGAGCTTTTT	59.137	33.333	0.00	0.00	39.26	1.94
406	1682	7.229506	AGCACAAGTACTCAATTTAGAGCTTTT	59.770	33.333	0.00	0.00	39.26	2.27
407	1683	6.712547	AGCACAAGTACTCAATTTAGAGCTTT	59.287	34.615	0.00	0.00	39.26	3.51
408	1684	6.234177	AGCACAAGTACTCAATTTAGAGCTT	58.766	36.000	0.00	0.00	39.26	3.74
409	1685	5.799213	AGCACAAGTACTCAATTTAGAGCT	58.201	37.500	0.00	0.00	39.26	4.09
410	1686	6.487689	AAGCACAAGTACTCAATTTAGAGC	57.512	37.500	0.00	0.00	39.26	4.09
411	1687	8.087982	TGAAAGCACAAGTACTCAATTTAGAG	57.912	34.615	0.00	0.00	41.44	2.43
412	1688	8.445275	TTGAAAGCACAAGTACTCAATTTAGA	57.555	30.769	0.00	0.00	0.00	2.10
415	1691	7.809806	GCTATTGAAAGCACAAGTACTCAATTT	59.190	33.333	0.00	0.00	42.30	1.82
416	1692	7.175641	AGCTATTGAAAGCACAAGTACTCAATT	59.824	33.333	0.00	0.00	45.30	2.32
417	1693	6.656693	AGCTATTGAAAGCACAAGTACTCAAT	59.343	34.615	0.00	2.00	45.30	2.57
418	1694	5.997746	AGCTATTGAAAGCACAAGTACTCAA	59.002	36.000	0.00	0.00	45.30	3.02
419	1695	5.551233	AGCTATTGAAAGCACAAGTACTCA	58.449	37.500	0.00	0.00	45.30	3.41
420	1696	6.487689	AAGCTATTGAAAGCACAAGTACTC	57.512	37.500	0.00	0.00	45.30	2.59
421	1697	6.347725	CGAAAGCTATTGAAAGCACAAGTACT	60.348	38.462	0.00	0.00	45.30	2.73
439	1715	2.359230	GCTCACCTGCCGAAAGCT	60.359	61.111	0.00	0.00	44.23	3.74
513	1790	2.100989	CGGAGGGAGTAGCTAACACTT	58.899	52.381	0.00	0.00	0.00	3.16
547	1824	8.782339	TGCTAAAGTTAGTATAAAGTTGGGTC	57.218	34.615	0.32	0.00	33.32	4.46
548	1825	9.006839	GTTGCTAAAGTTAGTATAAAGTTGGGT	57.993	33.333	0.32	0.00	33.32	4.51
549	1826	9.227777	AGTTGCTAAAGTTAGTATAAAGTTGGG	57.772	33.333	0.32	0.00	33.32	4.12
564	1841	7.506971	AGGTTTAGTAGTTCAGTTGCTAAAGT	58.493	34.615	0.00	0.00	34.75	2.66
637	1915	3.092301	TGCAGAGCTAGAGCAAAGACTA	58.908	45.455	4.01	0.00	45.16	2.59
748	2030	4.281946	CGTAGACGTAGAAGCCGC	57.718	61.111	0.00	0.00	34.11	6.53
758	2040	4.845387	ACAATAGCATACAGACGTAGACG	58.155	43.478	0.00	0.00	46.33	4.18
759	2041	5.395778	CGAACAATAGCATACAGACGTAGAC	59.604	44.000	0.00	0.00	0.00	2.59
761	2043	5.271625	ACGAACAATAGCATACAGACGTAG	58.728	41.667	0.00	0.00	0.00	3.51
762	2044	5.239359	ACGAACAATAGCATACAGACGTA	57.761	39.130	0.00	0.00	0.00	3.57
763	2045	4.106029	ACGAACAATAGCATACAGACGT	57.894	40.909	0.00	0.00	0.00	4.34
764	2046	4.675565	CCTACGAACAATAGCATACAGACG	59.324	45.833	0.00	0.00	0.00	4.18
765	2047	4.444720	GCCTACGAACAATAGCATACAGAC	59.555	45.833	0.00	0.00	0.00	3.51
766	2048	4.617959	GCCTACGAACAATAGCATACAGA	58.382	43.478	0.00	0.00	0.00	3.41
767	2049	3.425525	CGCCTACGAACAATAGCATACAG	59.574	47.826	0.00	0.00	43.93	2.74
768	2050	3.181484	ACGCCTACGAACAATAGCATACA	60.181	43.478	0.00	0.00	43.93	2.29
769	2051	3.378339	ACGCCTACGAACAATAGCATAC	58.622	45.455	0.00	0.00	43.93	2.39
770	2052	3.720949	ACGCCTACGAACAATAGCATA	57.279	42.857	0.00	0.00	43.93	3.14
771	2053	2.596904	ACGCCTACGAACAATAGCAT	57.403	45.000	0.00	0.00	43.93	3.79
772	2054	2.797087	GCTACGCCTACGAACAATAGCA	60.797	50.000	0.00	0.00	43.93	3.49
773	2055	1.785430	GCTACGCCTACGAACAATAGC	59.215	52.381	0.00	0.00	43.93	2.97
774	2056	3.074504	TGCTACGCCTACGAACAATAG	57.925	47.619	0.00	0.00	43.93	1.73
775	2057	3.441163	CTTGCTACGCCTACGAACAATA	58.559	45.455	0.00	0.00	43.93	1.90
776	2058	2.268298	CTTGCTACGCCTACGAACAAT	58.732	47.619	0.00	0.00	43.93	2.71
777	2059	1.670674	CCTTGCTACGCCTACGAACAA	60.671	52.381	0.00	0.00	43.93	2.83
778	2060	0.108992	CCTTGCTACGCCTACGAACA	60.109	55.000	0.00	0.00	43.93	3.18
779	2061	1.419107	GCCTTGCTACGCCTACGAAC	61.419	60.000	0.00	0.00	43.93	3.95
780	2062	1.153706	GCCTTGCTACGCCTACGAA	60.154	57.895	0.00	0.00	43.93	3.85
781	2063	2.001361	GAGCCTTGCTACGCCTACGA	62.001	60.000	0.00	0.00	39.83	3.43
782	2064	1.589196	GAGCCTTGCTACGCCTACG	60.589	63.158	0.00	0.00	39.88	3.51
783	2065	1.227292	GGAGCCTTGCTACGCCTAC	60.227	63.158	0.00	0.00	39.88	3.18
851	2133	3.694535	ACACTACTCCGATCTTTAGCG	57.305	47.619	0.00	0.00	0.00	4.26
902	2184	5.922544	GGTTTCACCAAGAATGAATGACAAG	59.077	40.000	0.00	0.00	38.42	3.16
927	2209	8.567948	TGAAACTTGCAAGTCTTTTTATAGGAG	58.432	33.333	31.20	0.61	38.57	3.69
1173	2504	6.637795	CTGGAAGACGTCGTGGAATAACCA	62.638	50.000	9.23	7.16	41.48	3.67
1725	3556	3.553095	GAACAAGACCGGGCTGCCT	62.553	63.158	12.91	0.00	0.00	4.75
1755	3586	3.710722	CCGCTTGGGACCAGCTCT	61.711	66.667	2.60	0.00	38.47	4.09
2332	4278	4.040095	GGACACCCACAAGAAAGTACTAGT	59.960	45.833	0.00	0.00	0.00	2.57
2333	4279	4.039973	TGGACACCCACAAGAAAGTACTAG	59.960	45.833	0.00	0.00	37.58	2.57
2334	4280	3.968649	TGGACACCCACAAGAAAGTACTA	59.031	43.478	0.00	0.00	37.58	1.82
2335	4281	2.775384	TGGACACCCACAAGAAAGTACT	59.225	45.455	0.00	0.00	37.58	2.73
2336	4282	3.202829	TGGACACCCACAAGAAAGTAC	57.797	47.619	0.00	0.00	37.58	2.73
2337	4283	3.815809	CTTGGACACCCACAAGAAAGTA	58.184	45.455	0.00	0.00	45.22	2.24
2338	4284	2.654863	CTTGGACACCCACAAGAAAGT	58.345	47.619	0.00	0.00	45.22	2.66
2339	4285	1.338020	GCTTGGACACCCACAAGAAAG	59.662	52.381	8.45	0.00	45.22	2.62
2427	4373	2.555732	AAATGCCAACCATCCTCCAT	57.444	45.000	0.00	0.00	31.43	3.41
2429	4375	2.167075	CTGAAAATGCCAACCATCCTCC	59.833	50.000	0.00	0.00	31.43	4.30
2486	4435	1.529226	TCACCCATGCTTGTAAACGG	58.471	50.000	0.00	0.00	0.00	4.44
2559	4508	2.815589	GCTCTTGTCATGGGTCCAAGTT	60.816	50.000	12.05	0.00	37.45	2.66
2595	4544	2.159226	AGCGAGTTCACCTTATCTTCGG	60.159	50.000	0.00	0.00	0.00	4.30
2618	4567	0.105913	GGGAGAGGGAGTTCGGAGAT	60.106	60.000	0.00	0.00	35.04	2.75
2660	4609	6.113411	TCACACATAGAGTCTTCGTATGAGA	58.887	40.000	0.00	0.00	0.00	3.27
2669	4618	4.382470	GCACCTGATCACACATAGAGTCTT	60.382	45.833	0.00	0.00	0.00	3.01
2841	4790	0.901124	GCCTGCCTCTCTTCTCTTGA	59.099	55.000	0.00	0.00	0.00	3.02
2993	4942	4.868116	AACACTGGCACGGGCGTT	62.868	61.111	2.17	0.00	42.47	4.84
2997	4946	2.203139	TGTGAACACTGGCACGGG	60.203	61.111	6.51	0.00	40.47	5.28
3007	4956	4.221924	TCCGTAGATTCCATTCTGTGAACA	59.778	41.667	0.00	0.00	0.00	3.18
3169	5122	5.632118	AGGTGCGAGAGGTCTATTTATAGA	58.368	41.667	0.00	0.00	37.07	1.98
3187	5140	1.964933	CTAACCCTAGCTAGGAGGTGC	59.035	57.143	36.80	0.00	46.63	5.01

Based at the University of Bristol with support from BBSRC.

AutoCloner maintained by Alex Coulton.