AutoCloner

Multiple sequence alignment - TraesCS1A01G295500

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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	TraesCS1A01G295500	chr1A	100.000	2261	0	0	1	2261	490471402	490469142	0.000000e+00	4176
1	TraesCS1A01G295500	chr1A	93.653	646	31	8	759	1400	558016883	558016244	0.000000e+00	957
2	TraesCS1A01G295500	chr1A	93.291	313	19	2	461	772	558017487	558017176	5.690000e-126	460
3	TraesCS1A01G295500	chr1A	90.268	298	25	3	1967	2261	372904240	372903944	9.790000e-104	387
4	TraesCS1A01G295500	chr1A	89.597	298	27	3	1967	2261	308796578	308796282	2.120000e-100	375
5	TraesCS1A01G295500	chr7D	92.731	963	39	7	461	1418	221991733	221990797	0.000000e+00	1362
6	TraesCS1A01G295500	chr7D	88.333	300	29	6	1967	2261	336237875	336237577	2.760000e-94	355
7	TraesCS1A01G295500	chr4A	92.373	944	45	11	461	1400	420016437	420017357	0.000000e+00	1319
8	TraesCS1A01G295500	chr6D	94.680	827	27	4	1438	2261	38473419	38472607	0.000000e+00	1267
9	TraesCS1A01G295500	chr6D	92.829	753	47	5	1438	2186	365028662	365027913	0.000000e+00	1085
10	TraesCS1A01G295500	chr6D	93.750	240	12	3	1962	2199	365027912	365027674	7.680000e-95	357
11	TraesCS1A01G295500	chr5B	90.466	965	48	12	461	1422	166591255	166592178	0.000000e+00	1232
12	TraesCS1A01G295500	chr5B	90.674	579	48	5	1438	2013	79817124	79817699	0.000000e+00	765
13	TraesCS1A01G295500	chr2B	85.614	994	78	12	463	1429	15466050	15465095	0.000000e+00	983
14	TraesCS1A01G295500	chr2B	92.117	444	27	3	1	444	601736978	601737413	8.870000e-174	619
15	TraesCS1A01G295500	chr2B	91.111	90	6	2	1438	1525	782975460	782975549	1.100000e-23	121
16	TraesCS1A01G295500	chr2B	91.111	90	6	2	1438	1525	782990429	782990518	1.100000e-23	121
17	TraesCS1A01G295500	chr5D	82.268	970	113	30	461	1418	196319663	196320585	0.000000e+00	784
18	TraesCS1A01G295500	chr5D	93.665	442	25	3	3	444	369025394	369025832	0.000000e+00	658
19	TraesCS1A01G295500	chr5D	86.385	426	36	11	700	1109	527080594	527080175	1.590000e-121	446
20	TraesCS1A01G295500	chr5D	79.832	357	37	26	1105	1430	527045862	527045510	6.280000e-56	228
21	TraesCS1A01G295500	chr5D	82.313	147	21	5	1334	1477	207020745	207020601	3.050000e-24	122
22	TraesCS1A01G295500	chr6A	96.629	445	13	2	1	444	30522380	30522823	0.000000e+00	737
23	TraesCS1A01G295500	chr6A	85.935	583	48	17	1612	2182	68529620	68529060	1.930000e-165	592
24	TraesCS1A01G295500	chr6A	93.651	252	13	3	1	252	585969984	585970232	7.630000e-100	374
25	TraesCS1A01G295500	chr6A	90.576	191	18	0	254	444	585970359	585970549	1.040000e-63	254
26	TraesCS1A01G295500	chr1B	82.231	771	85	34	700	1428	62430345	62429585	3.190000e-173	617
27	TraesCS1A01G295500	chr1B	82.129	761	84	34	700	1418	229526251	229525501	2.480000e-169	604
28	TraesCS1A01G295500	chr1B	90.268	298	25	3	1967	2261	298117118	298116822	9.790000e-104	387
29	TraesCS1A01G295500	chr7A	87.207	555	47	12	700	1237	123205684	123206231	5.340000e-171	610
30	TraesCS1A01G295500	chrUn	86.278	583	46	15	1612	2182	250550623	250551183	8.930000e-169	603
31	TraesCS1A01G295500	chrUn	86.278	583	46	15	1612	2182	261964708	261965268	8.930000e-169	603
32	TraesCS1A01G295500	chrUn	86.278	583	46	15	1612	2182	273752350	273751790	8.930000e-169	603
33	TraesCS1A01G295500	chrUn	90.000	90	7	2	1378	1466	250546824	250546912	5.100000e-22	115
34	TraesCS1A01G295500	chr2A	85.838	579	56	16	1612	2182	3285490	3284930	1.930000e-165	592
35	TraesCS1A01G295500	chr2A	80.851	141	23	4	1290	1428	376796333	376796195	8.540000e-20	108
36	TraesCS1A01G295500	chr3A	89.189	444	38	5	1	444	719762590	719763023	1.530000e-151	545
37	TraesCS1A01G295500	chr3A	91.260	389	29	5	1438	1825	12732402	12732786	1.990000e-145	525
38	TraesCS1A01G295500	chr3A	88.737	293	28	3	1972	2261	131299438	131299148	9.930000e-94	353
39	TraesCS1A01G295500	chr3A	83.942	137	8	7	1378	1512	184655352	184655476	3.950000e-23	119
40	TraesCS1A01G295500	chr3D	83.986	587	39	28	700	1237	593316012	593316592	1.550000e-141	512
41	TraesCS1A01G295500	chr3D	87.129	101	11	2	1426	1525	351932861	351932960	1.840000e-21	113
42	TraesCS1A01G295500	chr4B	91.946	298	20	3	1	298	466692911	466693204	4.490000e-112	414
43	TraesCS1A01G295500	chr6B	89.933	298	26	3	1967	2261	511344372	511344668	4.560000e-102	381
44	TraesCS1A01G295500	chr6B	87.500	96	8	3	1378	1473	430581424	430581515	8.540000e-20	108
45	TraesCS1A01G295500	chr2D	89.298	299	28	3	1967	2261	216958849	216958551	2.740000e-99	372
46	TraesCS1A01G295500	chr2D	86.552	290	22	11	700	978	610357897	610358180	1.010000e-78	303
47	TraesCS1A01G295500	chr2D	79.720	143	23	6	1334	1472	245321422	245321282	5.140000e-17	99
48	TraesCS1A01G295500	chr5A	88.291	316	25	4	129	444	560466144	560465841	3.550000e-98	368
49	TraesCS1A01G295500	chr5A	83.824	136	14	5	1378	1512	219226804	219226676	3.050000e-24	122

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	TraesCS1A01G295500	chr1A	490469142	490471402	2260	True	4176.0	4176	100.0000	1	2261	1	chr1A.!!$R3	2260
1	TraesCS1A01G295500	chr1A	558016244	558017487	1243	True	708.5	957	93.4720	461	1400	2	chr1A.!!$R4	939
2	TraesCS1A01G295500	chr7D	221990797	221991733	936	True	1362.0	1362	92.7310	461	1418	1	chr7D.!!$R1	957
3	TraesCS1A01G295500	chr4A	420016437	420017357	920	False	1319.0	1319	92.3730	461	1400	1	chr4A.!!$F1	939
4	TraesCS1A01G295500	chr6D	38472607	38473419	812	True	1267.0	1267	94.6800	1438	2261	1	chr6D.!!$R1	823
5	TraesCS1A01G295500	chr6D	365027674	365028662	988	True	721.0	1085	93.2895	1438	2199	2	chr6D.!!$R2	761
6	TraesCS1A01G295500	chr5B	166591255	166592178	923	False	1232.0	1232	90.4660	461	1422	1	chr5B.!!$F2	961
7	TraesCS1A01G295500	chr5B	79817124	79817699	575	False	765.0	765	90.6740	1438	2013	1	chr5B.!!$F1	575
8	TraesCS1A01G295500	chr2B	15465095	15466050	955	True	983.0	983	85.6140	463	1429	1	chr2B.!!$R1	966
9	TraesCS1A01G295500	chr5D	196319663	196320585	922	False	784.0	784	82.2680	461	1418	1	chr5D.!!$F1	957
10	TraesCS1A01G295500	chr6A	68529060	68529620	560	True	592.0	592	85.9350	1612	2182	1	chr6A.!!$R1	570
11	TraesCS1A01G295500	chr6A	585969984	585970549	565	False	314.0	374	92.1135	1	444	2	chr6A.!!$F2	443
12	TraesCS1A01G295500	chr1B	62429585	62430345	760	True	617.0	617	82.2310	700	1428	1	chr1B.!!$R1	728
13	TraesCS1A01G295500	chr1B	229525501	229526251	750	True	604.0	604	82.1290	700	1418	1	chr1B.!!$R2	718
14	TraesCS1A01G295500	chr7A	123205684	123206231	547	False	610.0	610	87.2070	700	1237	1	chr7A.!!$F1	537
15	TraesCS1A01G295500	chrUn	261964708	261965268	560	False	603.0	603	86.2780	1612	2182	1	chrUn.!!$F1	570
16	TraesCS1A01G295500	chrUn	273751790	273752350	560	True	603.0	603	86.2780	1612	2182	1	chrUn.!!$R1	570
17	TraesCS1A01G295500	chrUn	250546824	250551183	4359	False	359.0	603	88.1390	1378	2182	2	chrUn.!!$F2	804
18	TraesCS1A01G295500	chr2A	3284930	3285490	560	True	592.0	592	85.8380	1612	2182	1	chr2A.!!$R1	570
19	TraesCS1A01G295500	chr3D	593316012	593316592	580	False	512.0	512	83.9860	700	1237	1	chr3D.!!$F2	537

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
446	572	0.320421	GCCTGTCACTAACTGCCGAA	60.32	55.0	0.0	0.0	0.0	4.3	F

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability	Orientation
1825	6049	0.256464	GGAGGGAGAGGTCGAGAGAA	59.744	60.0	0.0	0.0	45.01	2.87	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
107	108	9.554395	TTCACTAGAAAAATGTTCATCACTACA	57.446	29.630	0.00	0.00	0.00	2.74
156	157	4.072131	GCATCAGTCCTTACAAAACCTGA	58.928	43.478	0.00	0.00	0.00	3.86
175	176	4.938226	CCTGAACTAGATGGTTTTGACTCC	59.062	45.833	0.00	0.00	0.00	3.85
204	205	6.878389	TCAAAGGCAATGTTGTTTTTCTTTCT	59.122	30.769	0.00	0.00	0.00	2.52
215	216	9.304731	TGTTGTTTTTCTTTCTCATTCTCATTG	57.695	29.630	0.00	0.00	0.00	2.82
252	253	6.954487	ACCTTGTTAAACTGGTAGGAAAAG	57.046	37.500	0.00	0.00	0.00	2.27
296	422	3.269347	GCGCGCGGTGGTATTCAT	61.269	61.111	33.06	0.00	0.00	2.57
298	424	1.591594	CGCGCGGTGGTATTCATCT	60.592	57.895	24.84	0.00	0.00	2.90
322	448	3.362262	TCGTGGGTTCGACTCCTG	58.638	61.111	5.91	0.00	34.85	3.86
346	472	4.799678	TGGCGCTTCATTTTATTTTTCGA	58.200	34.783	7.64	0.00	0.00	3.71
350	476	6.691388	GGCGCTTCATTTTATTTTTCGATAGT	59.309	34.615	7.64	0.00	37.40	2.12
375	501	1.891178	TCACGCGATAGAACTGAACG	58.109	50.000	15.93	0.00	39.76	3.95
390	516	0.571197	GAACGAGCGGTTTATCGAGC	59.429	55.000	1.13	0.00	41.40	5.03
410	536	3.027449	GAGAAGCGGATCGAGCGC	61.027	66.667	0.00	0.00	40.04	5.92
434	560	1.577922	GAGTCGTACGTGCCTGTCA	59.422	57.895	16.05	0.00	0.00	3.58
444	570	1.005037	TGCCTGTCACTAACTGCCG	60.005	57.895	0.00	0.00	0.00	5.69
445	571	1.292223	GCCTGTCACTAACTGCCGA	59.708	57.895	0.00	0.00	0.00	5.54
446	572	0.320421	GCCTGTCACTAACTGCCGAA	60.320	55.000	0.00	0.00	0.00	4.30
447	573	1.876416	GCCTGTCACTAACTGCCGAAA	60.876	52.381	0.00	0.00	0.00	3.46
448	574	2.489971	CCTGTCACTAACTGCCGAAAA	58.510	47.619	0.00	0.00	0.00	2.29
449	575	3.074412	CCTGTCACTAACTGCCGAAAAT	58.926	45.455	0.00	0.00	0.00	1.82
450	576	4.250464	CCTGTCACTAACTGCCGAAAATA	58.750	43.478	0.00	0.00	0.00	1.40
451	577	4.330074	CCTGTCACTAACTGCCGAAAATAG	59.670	45.833	0.00	0.00	0.00	1.73
452	578	3.682858	TGTCACTAACTGCCGAAAATAGC	59.317	43.478	0.00	0.00	0.00	2.97
453	579	3.682858	GTCACTAACTGCCGAAAATAGCA	59.317	43.478	0.00	0.00	37.46	3.49
454	580	4.332819	GTCACTAACTGCCGAAAATAGCAT	59.667	41.667	0.00	0.00	38.56	3.79
455	581	4.941263	TCACTAACTGCCGAAAATAGCATT	59.059	37.500	0.00	0.00	38.56	3.56
456	582	5.064707	TCACTAACTGCCGAAAATAGCATTC	59.935	40.000	0.00	0.00	38.56	2.67
457	583	5.065218	CACTAACTGCCGAAAATAGCATTCT	59.935	40.000	0.00	0.00	38.56	2.40
458	584	4.622701	AACTGCCGAAAATAGCATTCTC	57.377	40.909	0.00	0.00	38.56	2.87
459	585	2.609459	ACTGCCGAAAATAGCATTCTCG	59.391	45.455	0.00	0.00	38.56	4.04
551	680	2.895404	GGAACTTTACCCCACCCTTTTC	59.105	50.000	0.00	0.00	0.00	2.29
553	682	1.148446	ACTTTACCCCACCCTTTTCCC	59.852	52.381	0.00	0.00	0.00	3.97
560	689	1.152355	CACCCTTTTCCCCAGCCAA	60.152	57.895	0.00	0.00	0.00	4.52
561	690	0.545071	CACCCTTTTCCCCAGCCAAT	60.545	55.000	0.00	0.00	0.00	3.16
608	737	0.861837	AAAGAACGCAACTCTCGCAG	59.138	50.000	0.00	0.00	0.00	5.18
618	747	3.849911	CAACTCTCGCAGGATTTCTACA	58.150	45.455	0.00	0.00	0.00	2.74
621	750	3.129638	ACTCTCGCAGGATTTCTACACTC	59.870	47.826	0.00	0.00	0.00	3.51
625	759	2.482142	CGCAGGATTTCTACACTCCCTC	60.482	54.545	0.00	0.00	0.00	4.30
643	777	6.721208	ACTCCCTCTTTTTGAGCAAAATGATA	59.279	34.615	18.52	10.44	40.92	2.15
781	1256	1.485066	GAACCCTAGCCCGATTCTCAA	59.515	52.381	0.00	0.00	0.00	3.02
801	1280	1.684049	CGTCTGCCTCCCTCCTCTT	60.684	63.158	0.00	0.00	0.00	2.85
945	1433	2.039624	TCCTCCTCCCTCTGTGCC	59.960	66.667	0.00	0.00	0.00	5.01
986	1503	1.905215	CTCTTTCTCTTCCCTGCTGGA	59.095	52.381	11.88	0.66	43.18	3.86
1052	1569	4.778143	GGTTGCCCTCGCCGATGT	62.778	66.667	0.00	0.00	0.00	3.06
1129	1646	0.480690	TTCTTGCTACCCCCTGCAAA	59.519	50.000	0.00	0.00	46.55	3.68
1343	1900	0.702316	AGGGGGTGTGGGTTGATTAC	59.298	55.000	0.00	0.00	0.00	1.89
1365	1923	5.837829	ACATAAAAATTCAGGGGCCTCTTA	58.162	37.500	0.00	0.00	0.00	2.10
1373	1931	4.938575	TCAGGGGCCTCTTACAAAAATA	57.061	40.909	0.00	0.00	0.00	1.40
1489	5584	8.552865	GGGCGAAAAATAAAATGTAACTTGTTT	58.447	29.630	0.00	0.00	0.00	2.83
1513	5727	4.861462	CACGTGCCATTATGCAACATTTAA	59.139	37.500	0.82	0.00	44.11	1.52
1686	5904	0.679640	TTGGCGATGGTCCATTGTCC	60.680	55.000	19.30	18.99	29.44	4.02
1687	5905	1.224592	GGCGATGGTCCATTGTCCT	59.775	57.895	18.76	0.00	0.00	3.85
1777	5996	0.764890	TCCCCATTCCGCAATCTAGG	59.235	55.000	0.00	0.00	0.00	3.02
1833	6057	4.728110	TCCGGCCGGTTCTCTCGA	62.728	66.667	41.57	19.37	36.47	4.04
1850	6074	3.615811	ACCTCTCCCTCCCCTGCA	61.616	66.667	0.00	0.00	0.00	4.41
1970	6195	1.269448	GACGGCATCCAAAAGCTTCAA	59.731	47.619	0.00	0.00	0.00	2.69
1982	6207	6.373774	TCCAAAAGCTTCAATTTTTCTTGCAA	59.626	30.769	0.00	0.00	0.00	4.08
2096	6550	6.759827	TCAGTGTAAAAGTCAACCTACTCAAC	59.240	38.462	0.00	0.00	0.00	3.18

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
52	53	7.391148	ACATTCCGCTTACATTGAATAAAGT	57.609	32.000	0.00	0.00	0.00	2.66
61	62	7.826690	AGTGAAATAAACATTCCGCTTACATT	58.173	30.769	0.00	0.00	0.00	2.71
66	67	7.681939	TTCTAGTGAAATAAACATTCCGCTT	57.318	32.000	0.00	0.00	0.00	4.68
127	128	3.208594	TGTAAGGACTGATGCATCATGC	58.791	45.455	28.81	21.76	45.29	4.06
140	141	6.371825	CCATCTAGTTCAGGTTTTGTAAGGAC	59.628	42.308	0.00	0.00	0.00	3.85
156	157	4.351111	ACCTGGAGTCAAAACCATCTAGTT	59.649	41.667	0.00	0.00	35.54	2.24
171	172	1.145738	ACATTGCCTTTGACCTGGAGT	59.854	47.619	0.00	0.00	0.00	3.85
175	176	3.457610	AACAACATTGCCTTTGACCTG	57.542	42.857	0.00	0.00	0.00	4.00
230	231	6.996282	TCTCTTTTCCTACCAGTTTAACAAGG	59.004	38.462	0.00	1.44	0.00	3.61
232	233	7.830201	TGTTCTCTTTTCCTACCAGTTTAACAA	59.170	33.333	0.00	0.00	0.00	2.83
285	411	4.235360	CGACCGATTAGATGAATACCACC	58.765	47.826	0.00	0.00	0.00	4.61
290	416	3.893200	ACCCACGACCGATTAGATGAATA	59.107	43.478	0.00	0.00	0.00	1.75
291	417	2.698797	ACCCACGACCGATTAGATGAAT	59.301	45.455	0.00	0.00	0.00	2.57
296	422	0.452987	CGAACCCACGACCGATTAGA	59.547	55.000	0.00	0.00	35.09	2.10
298	424	2.565647	TCGAACCCACGACCGATTA	58.434	52.632	0.00	0.00	37.37	1.75
322	448	5.117897	TCGAAAAATAAAATGAAGCGCCAAC	59.882	36.000	2.29	0.00	0.00	3.77
360	486	0.840729	CGCTCGTTCAGTTCTATCGC	59.159	55.000	0.00	0.00	0.00	4.58
363	489	3.314541	AAACCGCTCGTTCAGTTCTAT	57.685	42.857	0.00	0.00	31.78	1.98
375	501	2.917656	CGCGCTCGATAAACCGCTC	61.918	63.158	5.56	0.00	43.84	5.03
392	518	2.723995	CGCTCGATCCGCTTCTCG	60.724	66.667	0.00	0.00	36.25	4.04
410	536	2.276493	CACGTACGACTCGCGAGG	60.276	66.667	36.93	23.70	44.57	4.63
415	541	1.511464	GACAGGCACGTACGACTCG	60.511	63.158	24.41	8.26	0.00	4.18
434	560	5.186198	AGAATGCTATTTTCGGCAGTTAGT	58.814	37.500	0.00	0.00	41.88	2.24
444	570	9.774742	ATTTCAGTTAACGAGAATGCTATTTTC	57.225	29.630	14.48	0.00	0.00	2.29
447	573	9.378551	TGTATTTCAGTTAACGAGAATGCTATT	57.621	29.630	14.48	0.00	0.00	1.73
448	574	8.942338	TGTATTTCAGTTAACGAGAATGCTAT	57.058	30.769	14.48	9.31	0.00	2.97
449	575	8.407457	CTGTATTTCAGTTAACGAGAATGCTA	57.593	34.615	14.48	3.87	39.17	3.49
450	576	7.295952	CTGTATTTCAGTTAACGAGAATGCT	57.704	36.000	14.48	7.73	39.17	3.79
538	666	2.371811	TGGGGAAAAGGGTGGGGT	60.372	61.111	0.00	0.00	0.00	4.95
551	680	1.035139	GACTGCATTATTGGCTGGGG	58.965	55.000	0.00	0.00	34.89	4.96
553	682	1.035139	GGGACTGCATTATTGGCTGG	58.965	55.000	0.00	0.00	34.89	4.85
560	689	0.998928	TGGTGTGGGGACTGCATTAT	59.001	50.000	0.00	0.00	0.00	1.28
561	690	0.037590	GTGGTGTGGGGACTGCATTA	59.962	55.000	0.00	0.00	0.00	1.90
608	737	6.238648	TCAAAAAGAGGGAGTGTAGAAATCC	58.761	40.000	0.00	0.00	0.00	3.01
618	747	4.895297	TCATTTTGCTCAAAAAGAGGGAGT	59.105	37.500	11.23	0.00	44.86	3.85
621	750	7.779073	AGATATCATTTTGCTCAAAAAGAGGG	58.221	34.615	15.20	4.49	44.86	4.30
625	759	8.689972	AGGGTAGATATCATTTTGCTCAAAAAG	58.310	33.333	11.23	7.71	42.71	2.27
781	1256	1.456705	GAGGAGGGAGGCAGACGAT	60.457	63.158	0.00	0.00	0.00	3.73
789	1264	0.766288	GGGGATCAAGAGGAGGGAGG	60.766	65.000	0.00	0.00	0.00	4.30
790	1265	0.267356	AGGGGATCAAGAGGAGGGAG	59.733	60.000	0.00	0.00	0.00	4.30
791	1266	0.266152	GAGGGGATCAAGAGGAGGGA	59.734	60.000	0.00	0.00	0.00	4.20
792	1267	1.118356	CGAGGGGATCAAGAGGAGGG	61.118	65.000	0.00	0.00	0.00	4.30
801	1280	1.381327	GGTGAGGTCGAGGGGATCA	60.381	63.158	0.00	0.00	0.00	2.92
917	1405	1.668101	GGAGGAGGAGAACGTGCGAT	61.668	60.000	0.00	0.00	0.00	4.58
945	1433	3.866582	GAGAGTGGGGCGATGGGG	61.867	72.222	0.00	0.00	0.00	4.96
986	1503	1.379576	GCCATGGCTTCCTTCAGCT	60.380	57.895	29.98	0.00	39.97	4.24
1129	1646	4.760047	GACCATGGCGACGCAGGT	62.760	66.667	24.63	24.63	33.73	4.00
1254	1772	0.874390	ATTGTTGCGCTCGTCACATT	59.126	45.000	9.73	0.00	0.00	2.71
1328	1885	8.091449	TGAATTTTTATGTAATCAACCCACACC	58.909	33.333	0.00	0.00	0.00	4.16
1343	1900	5.656416	TGTAAGAGGCCCCTGAATTTTTATG	59.344	40.000	0.00	0.00	0.00	1.90
1433	1991	2.544267	GCACGGGCATTTGTACTATCTC	59.456	50.000	3.77	0.00	40.72	2.75
1489	5584	1.528129	TGTTGCATAATGGCACGTGA	58.472	45.000	22.23	0.00	44.86	4.35
1651	5867	6.348376	CCATCGCCAAAAATAGTGCAATTTTT	60.348	34.615	13.60	13.60	45.42	1.94
1654	5870	4.183101	CCATCGCCAAAAATAGTGCAATT	58.817	39.130	0.00	0.00	0.00	2.32
1655	5871	3.195396	ACCATCGCCAAAAATAGTGCAAT	59.805	39.130	0.00	0.00	0.00	3.56
1686	5904	4.331968	TGGACTTAGTACATGGCCAAAAG	58.668	43.478	10.96	5.45	36.54	2.27
1687	5905	4.331968	CTGGACTTAGTACATGGCCAAAA	58.668	43.478	10.96	0.00	38.96	2.44
1777	5996	0.445436	CATCGCCTTCAGCAGTTCAC	59.555	55.000	0.00	0.00	44.04	3.18
1825	6049	0.256464	GGAGGGAGAGGTCGAGAGAA	59.744	60.000	0.00	0.00	45.01	2.87
1833	6057	3.615811	TGCAGGGGAGGGAGAGGT	61.616	66.667	0.00	0.00	0.00	3.85
1970	6195	8.767085	CAAACATACTCACATTGCAAGAAAAAT	58.233	29.630	4.94	0.00	0.00	1.82
2234	6695	3.591695	TGGGAGCATATGCATTGGTTA	57.408	42.857	28.62	6.22	45.16	2.85

Based at the University of Bristol with support from BBSRC.

AutoCloner maintained by Alex Coulton.