AutoCloner

Multiple sequence alignment - TraesCS1D01G315200

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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	TraesCS1D01G315200	chr1D	100.000	2351	0	0	326	2676	410491779	410489429	0.000000e+00	4342.0
1	TraesCS1D01G315200	chr1D	86.552	1279	106	31	867	2103	410483031	410481777	0.000000e+00	1349.0
2	TraesCS1D01G315200	chr1D	87.597	1032	91	20	728	1738	410472538	410471523	0.000000e+00	1162.0
3	TraesCS1D01G315200	chr1D	81.469	572	66	23	2119	2676	410481715	410481170	1.470000e-117	433.0
4	TraesCS1D01G315200	chr1D	85.634	355	50	1	329	683	353569580	353569227	3.250000e-99	372.0
5	TraesCS1D01G315200	chr1D	83.062	307	51	1	381	687	451038598	451038293	7.300000e-71	278.0
6	TraesCS1D01G315200	chr1D	89.865	148	15	0	381	528	451038918	451038771	9.780000e-45	191.0
7	TraesCS1D01G315200	chr1D	100.000	47	0	0	1	47	410492104	410492058	1.320000e-13	87.9
8	TraesCS1D01G315200	chr1A	89.994	1589	98	26	352	1900	506489973	506488406	0.000000e+00	1997.0
9	TraesCS1D01G315200	chr1A	94.123	1208	41	15	708	1895	506474480	506473283	0.000000e+00	1810.0
10	TraesCS1D01G315200	chr1A	93.052	1209	61	12	704	1893	506493966	506492762	0.000000e+00	1746.0
11	TraesCS1D01G315200	chr1A	93.121	785	39	4	1047	1819	506481145	506480364	0.000000e+00	1136.0
12	TraesCS1D01G315200	chr1A	84.896	960	97	23	729	1679	506309137	506308217	0.000000e+00	926.0
13	TraesCS1D01G315200	chr1A	88.548	489	48	7	2192	2676	506368057	506367573	1.070000e-163	586.0
14	TraesCS1D01G315200	chr1A	92.448	384	29	0	326	709	506475936	506475553	1.400000e-152	549.0
15	TraesCS1D01G315200	chr1A	82.512	406	43	11	729	1126	506294537	506294152	5.520000e-87	331.0
16	TraesCS1D01G315200	chr1A	91.398	93	8	0	1765	1857	506477616	506477524	7.780000e-26	128.0
17	TraesCS1D01G315200	chr1B	89.206	1436	111	18	704	2113	553136479	553135062	0.000000e+00	1753.0
18	TraesCS1D01G315200	chr1B	87.344	1043	81	34	729	1738	553025525	553024501	0.000000e+00	1147.0
19	TraesCS1D01G315200	chr1B	83.160	576	71	16	2119	2676	553135010	553134443	1.110000e-138	503.0
20	TraesCS1D01G315200	chr1B	76.761	142	24	7	1960	2096	626679719	626679856	1.330000e-08	71.3
21	TraesCS1D01G315200	chr4A	85.223	291	43	0	332	622	173653340	173653050	1.560000e-77	300.0
22	TraesCS1D01G315200	chr4B	86.170	282	31	5	329	610	578047895	578047622	5.600000e-77	298.0
23	TraesCS1D01G315200	chr4B	75.258	291	46	9	326	592	614679181	614679469	6.050000e-22	115.0
24	TraesCS1D01G315200	chr4D	86.809	235	29	2	332	565	305151060	305150827	7.350000e-66	261.0
25	TraesCS1D01G315200	chr4D	81.013	237	31	11	2448	2676	437822278	437822048	2.740000e-40	176.0
26	TraesCS1D01G315200	chr4D	91.111	45	4	0	434	478	433107885	433107929	8.000000e-06	62.1
27	TraesCS1D01G315200	chr5B	83.594	256	30	3	337	592	351487523	351487766	2.070000e-56	230.0
28	TraesCS1D01G315200	chr5B	83.190	232	27	9	2421	2645	352143035	352142809	4.520000e-48	202.0
29	TraesCS1D01G315200	chr6A	81.545	233	32	9	2421	2649	555320868	555321093	5.880000e-42	182.0
30	TraesCS1D01G315200	chrUn	80.567	247	33	13	2440	2676	342705256	342705015	2.740000e-40	176.0
31	TraesCS1D01G315200	chrUn	80.567	247	33	13	2440	2676	366519435	366519194	2.740000e-40	176.0
32	TraesCS1D01G315200	chrUn	80.162	247	34	12	2440	2676	342707107	342706866	1.270000e-38	171.0
33	TraesCS1D01G315200	chrUn	79.602	201	36	2	1913	2111	154594257	154594454	3.590000e-29	139.0
34	TraesCS1D01G315200	chrUn	78.974	195	34	5	1920	2111	94859616	94859806	2.800000e-25	126.0
35	TraesCS1D01G315200	chr6B	80.478	251	31	15	2438	2676	612846230	612846474	2.740000e-40	176.0
36	TraesCS1D01G315200	chr3B	84.746	118	17	1	1997	2113	702649689	702649572	1.680000e-22	117.0
37	TraesCS1D01G315200	chr3B	87.500	80	6	4	2033	2110	783110651	783110728	3.670000e-14	89.8
38	TraesCS1D01G315200	chr7D	79.375	160	28	2	1941	2098	14174143	14173987	1.010000e-19	108.0
39	TraesCS1D01G315200	chr7D	76.471	170	32	7	1944	2110	477388628	477388464	4.750000e-13	86.1
40	TraesCS1D01G315200	chr2B	77.000	200	39	5	1914	2111	698971608	698971414	1.010000e-19	108.0

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	TraesCS1D01G315200	chr1D	410489429	410492104	2675	True	2214.95	4342	100.0000	1	2676	2	chr1D.!!$R4	2675
1	TraesCS1D01G315200	chr1D	410471523	410472538	1015	True	1162.00	1162	87.5970	728	1738	1	chr1D.!!$R2	1010
2	TraesCS1D01G315200	chr1D	410481170	410483031	1861	True	891.00	1349	84.0105	867	2676	2	chr1D.!!$R3	1809
3	TraesCS1D01G315200	chr1D	451038293	451038918	625	True	234.50	278	86.4635	381	687	2	chr1D.!!$R5	306
4	TraesCS1D01G315200	chr1A	506488406	506493966	5560	True	1871.50	1997	91.5230	352	1900	2	chr1A.!!$R5	1548
5	TraesCS1D01G315200	chr1A	506308217	506309137	920	True	926.00	926	84.8960	729	1679	1	chr1A.!!$R2	950
6	TraesCS1D01G315200	chr1A	506473283	506481145	7862	True	905.75	1810	92.7725	326	1895	4	chr1A.!!$R4	1569
7	TraesCS1D01G315200	chr1B	553024501	553025525	1024	True	1147.00	1147	87.3440	729	1738	1	chr1B.!!$R1	1009
8	TraesCS1D01G315200	chr1B	553134443	553136479	2036	True	1128.00	1753	86.1830	704	2676	2	chr1B.!!$R2	1972

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
536	5421	0.161658	GATAATCGTCGTGCATGGCG	59.838	55.0	26.45	26.45	0.0	5.69	F

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability	Orientation
2015	8449	0.537371	TGTGCCGACTCAGTCTCTCA	60.537	55.0	2.61	0.0	0.0	3.27	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
24	25	7.093322	CTTCCCCATTCTTAAATGAGACTTG	57.907	40.000	0.00	0.00	44.25	3.16
28	29	4.706476	CCATTCTTAAATGAGACTTGCCCA	59.294	41.667	0.00	0.00	44.25	5.36
29	30	5.361857	CCATTCTTAAATGAGACTTGCCCAT	59.638	40.000	0.00	0.00	44.25	4.00
30	31	6.460676	CCATTCTTAAATGAGACTTGCCCATC	60.461	42.308	0.00	0.00	44.25	3.51
32	33	4.228210	TCTTAAATGAGACTTGCCCATCCT	59.772	41.667	0.00	0.00	0.00	3.24
33	34	5.428457	TCTTAAATGAGACTTGCCCATCCTA	59.572	40.000	0.00	0.00	0.00	2.94
35	36	2.550277	TGAGACTTGCCCATCCTAGA	57.450	50.000	0.00	0.00	0.00	2.43
36	37	2.392662	TGAGACTTGCCCATCCTAGAG	58.607	52.381	0.00	0.00	0.00	2.43
38	39	0.833287	GACTTGCCCATCCTAGAGCA	59.167	55.000	0.00	0.00	0.00	4.26
39	40	1.210478	GACTTGCCCATCCTAGAGCAA	59.790	52.381	0.00	0.00	42.60	3.91
40	41	1.635487	ACTTGCCCATCCTAGAGCAAA	59.365	47.619	0.00	0.00	44.02	3.68
41	42	2.243221	ACTTGCCCATCCTAGAGCAAAT	59.757	45.455	0.00	0.00	44.02	2.32
42	43	3.459598	ACTTGCCCATCCTAGAGCAAATA	59.540	43.478	0.00	0.00	44.02	1.40
43	44	4.105377	ACTTGCCCATCCTAGAGCAAATAT	59.895	41.667	0.00	0.00	44.02	1.28
45	46	3.245016	TGCCCATCCTAGAGCAAATATGG	60.245	47.826	0.00	0.00	34.85	2.74
379	5264	5.036117	TCCAATAATGTCAGGAGCTTACC	57.964	43.478	0.00	0.00	0.00	2.85
396	5281	2.693762	CCGCTTCTACACGACCCGA	61.694	63.158	0.00	0.00	0.00	5.14
470	5355	6.938030	ACGGGTGTGAAAATCTTAACTATGAA	59.062	34.615	0.00	0.00	0.00	2.57
491	5376	5.346281	TGAACAATTTTCGGTGTGTTTTGAC	59.654	36.000	0.00	0.00	34.44	3.18
519	5404	0.620410	TGACCCAAGATGGACGGGAT	60.620	55.000	0.00	0.00	43.21	3.85
520	5405	1.343580	TGACCCAAGATGGACGGGATA	60.344	52.381	0.00	0.00	43.21	2.59
536	5421	0.161658	GATAATCGTCGTGCATGGCG	59.838	55.000	26.45	26.45	0.00	5.69
537	5422	0.529773	ATAATCGTCGTGCATGGCGT	60.530	50.000	30.05	16.23	0.00	5.68
555	5440	3.119637	GGCGTTGCATGTAATAGGTGTTT	60.120	43.478	0.00	0.00	0.00	2.83
556	5441	4.095610	GCGTTGCATGTAATAGGTGTTTC	58.904	43.478	0.00	0.00	0.00	2.78
567	5452	7.396418	TGTAATAGGTGTTTCGAAAATAGGGT	58.604	34.615	13.10	0.00	0.00	4.34
612	5497	0.396435	TGGCCCGCCTAATCACTATG	59.604	55.000	7.35	0.00	36.94	2.23
613	5498	0.955919	GGCCCGCCTAATCACTATGC	60.956	60.000	0.00	0.00	0.00	3.14
647	5532	2.379634	CGCGTCCGCAGACATTTCA	61.380	57.895	12.58	0.00	43.73	2.69
697	5582	7.148171	GCTGTAGATGCTGTAAGAGGAATTTTT	60.148	37.037	0.00	0.00	34.07	1.94
700	5585	7.150783	AGATGCTGTAAGAGGAATTTTTGTC	57.849	36.000	0.00	0.00	34.07	3.18
715	6674	4.566545	TTTTGTCAGTACATGCTGGTTG	57.433	40.909	0.00	0.00	37.12	3.77
755	6714	3.996124	CGAGAGCGGGCTATGGGG	61.996	72.222	0.00	0.00	0.00	4.96
756	6715	4.321966	GAGAGCGGGCTATGGGGC	62.322	72.222	0.00	0.00	40.05	5.80
984	6958	0.457851	TCTCTTCCTGCGCTAGCTTC	59.542	55.000	13.93	5.02	45.42	3.86
1012	6989	2.419990	CCTTGAGTAATGGCGACCATGA	60.420	50.000	11.38	2.41	44.40	3.07
1040	7017	3.479269	CTCCTTCGCCGTCGTTGC	61.479	66.667	0.00	0.00	36.96	4.17
1178	7155	4.587262	TGGCTAGTGTTACTTCAAGACTCA	59.413	41.667	0.00	0.00	39.83	3.41
1226	7209	0.743701	GCAGCCTGACATGGACTCAG	60.744	60.000	0.00	0.91	35.78	3.35
1413	7414	4.404098	GGTGGGATTCGTGGCGGT	62.404	66.667	0.00	0.00	0.00	5.68
1534	7535	4.927782	TCGTTGGTGCCGCTGCTT	62.928	61.111	0.70	0.00	38.71	3.91
1735	7755	4.682778	AGAACTAACTGTTGTAGCCACA	57.317	40.909	2.69	0.00	39.30	4.17
1908	8329	7.148407	CCTCTTGCGGTTATATATTTGATGACC	60.148	40.741	0.00	0.00	31.26	4.02
1911	8332	6.530120	TGCGGTTATATATTTGATGACCACT	58.470	36.000	0.00	0.00	33.58	4.00
1955	8380	6.188400	TCAAATGCAAACGCTCATACATAA	57.812	33.333	0.00	0.00	0.00	1.90
1973	8398	6.102897	ACATAAGCATATACACTCACTCCC	57.897	41.667	0.00	0.00	0.00	4.30
1974	8399	3.735237	AAGCATATACACTCACTCCCG	57.265	47.619	0.00	0.00	0.00	5.14
1975	8400	1.964223	AGCATATACACTCACTCCCGG	59.036	52.381	0.00	0.00	0.00	5.73
1988	8413	3.135712	TCACTCCCGGTATAAATGCACAT	59.864	43.478	0.00	0.00	0.00	3.21
2015	8449	5.686124	GCACCCTATCTCTATGAGCACTTTT	60.686	44.000	0.00	0.00	0.00	2.27
2028	8462	3.987220	GAGCACTTTTGAGAGACTGAGTC	59.013	47.826	3.98	3.98	0.00	3.36
2051	8485	4.386711	GGCACATCATCATGAGATTGAGA	58.613	43.478	0.09	0.00	33.72	3.27
2103	8538	4.879598	GAGAACGTCTTCTCCCACTAAAA	58.120	43.478	6.04	0.00	44.82	1.52
2114	8595	4.074970	CTCCCACTAAAAGCACATCACTT	58.925	43.478	0.00	0.00	0.00	3.16
2117	8598	4.278170	CCCACTAAAAGCACATCACTTTGA	59.722	41.667	0.00	0.00	37.42	2.69
2124	8605	6.787085	AAAGCACATCACTTTGACTAGTAC	57.213	37.500	0.00	0.00	36.04	2.73
2183	8664	8.140628	ACTCATATGTCTACTTTGACTATGCTG	58.859	37.037	1.90	0.00	37.79	4.41
2247	8730	4.142924	CGTGAAAATTAAATTTGGGCCAGC	60.143	41.667	6.23	0.00	31.77	4.85
2251	8734	2.849294	TTAAATTTGGGCCAGCCAAC	57.151	45.000	6.23	0.00	37.98	3.77
2259	8742	0.541998	GGGCCAGCCAACTTTTAGGT	60.542	55.000	11.50	0.00	37.98	3.08
2271	8754	7.286775	AGCCAACTTTTAGGTTGTTGATTTCTA	59.713	33.333	6.65	0.00	43.36	2.10
2286	8840	8.227791	TGTTGATTTCTACTTTAAGATTCGTGC	58.772	33.333	0.00	0.00	0.00	5.34
2317	8872	5.970317	TTTCTACATTAGTCTCCGTGTCA	57.030	39.130	0.00	0.00	0.00	3.58
2319	8874	6.525578	TTCTACATTAGTCTCCGTGTCATT	57.474	37.500	0.00	0.00	0.00	2.57
2322	8877	7.383687	TCTACATTAGTCTCCGTGTCATTTTT	58.616	34.615	0.00	0.00	0.00	1.94
2358	8920	2.632377	ACGCATATTTGGGTCAGTCAG	58.368	47.619	0.00	0.00	45.01	3.51
2369	8931	2.036862	GGGTCAGTCAGTTCTTAACGGT	59.963	50.000	0.00	0.00	36.23	4.83
2370	8932	3.256631	GGGTCAGTCAGTTCTTAACGGTA	59.743	47.826	0.00	0.00	36.23	4.02
2388	8950	2.167900	GGTACGAAGCCTATTCCAGTGT	59.832	50.000	0.00	0.00	0.00	3.55
2412	8974	6.147985	GTGACATAACCTTGTTCTTTCTCCTC	59.852	42.308	0.00	0.00	0.00	3.71
2476	9433	9.797556	TTTCTTTCCTTTAGTAGTTTCTTTTGC	57.202	29.630	0.00	0.00	0.00	3.68
2655	12693	8.506168	TTCTTAAGGAATTACCAATGCACTAG	57.494	34.615	1.85	0.00	42.04	2.57
2659	12756	5.815581	AGGAATTACCAATGCACTAGTTCA	58.184	37.500	0.00	0.00	42.04	3.18
2662	12759	7.067494	AGGAATTACCAATGCACTAGTTCATTC	59.933	37.037	16.52	6.10	42.04	2.67

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
1	2	5.418840	GCAAGTCTCATTTAAGAATGGGGAA	59.581	40.000	0.00	0.00	42.82	3.97
2	3	4.949856	GCAAGTCTCATTTAAGAATGGGGA	59.050	41.667	0.00	0.00	42.82	4.81
5	6	4.706476	TGGGCAAGTCTCATTTAAGAATGG	59.294	41.667	0.00	0.00	42.36	3.16
7	8	5.595952	GGATGGGCAAGTCTCATTTAAGAAT	59.404	40.000	0.00	0.00	0.00	2.40
8	9	4.949856	GGATGGGCAAGTCTCATTTAAGAA	59.050	41.667	0.00	0.00	0.00	2.52
9	10	4.228210	AGGATGGGCAAGTCTCATTTAAGA	59.772	41.667	0.00	0.00	0.00	2.10
10	11	4.530875	AGGATGGGCAAGTCTCATTTAAG	58.469	43.478	0.00	0.00	0.00	1.85
13	14	3.782523	TCTAGGATGGGCAAGTCTCATTT	59.217	43.478	0.00	0.00	0.00	2.32
14	15	3.387962	TCTAGGATGGGCAAGTCTCATT	58.612	45.455	0.00	0.00	0.00	2.57
15	16	2.971330	CTCTAGGATGGGCAAGTCTCAT	59.029	50.000	0.00	0.00	0.00	2.90
18	19	1.127343	GCTCTAGGATGGGCAAGTCT	58.873	55.000	0.00	0.00	0.00	3.24
20	21	1.289160	TTGCTCTAGGATGGGCAAGT	58.711	50.000	0.00	0.00	39.33	3.16
21	22	2.425143	TTTGCTCTAGGATGGGCAAG	57.575	50.000	2.08	0.00	43.84	4.01
22	23	4.401022	CATATTTGCTCTAGGATGGGCAA	58.599	43.478	0.00	0.00	41.90	4.52
23	24	3.245016	CCATATTTGCTCTAGGATGGGCA	60.245	47.826	0.00	0.00	31.95	5.36
24	25	3.350833	CCATATTTGCTCTAGGATGGGC	58.649	50.000	0.00	0.00	31.95	5.36
379	5264	1.513586	GTCGGGTCGTGTAGAAGCG	60.514	63.158	0.00	0.00	0.00	4.68
386	5271	2.417787	GGCTTAAATAGTCGGGTCGTGT	60.418	50.000	0.00	0.00	0.00	4.49
396	5281	3.243334	GCTAGTCGACCGGCTTAAATAGT	60.243	47.826	13.01	0.00	0.00	2.12
470	5355	4.810790	TGTCAAAACACACCGAAAATTGT	58.189	34.783	0.00	0.00	0.00	2.71
519	5404	0.738063	AACGCCATGCACGACGATTA	60.738	50.000	12.59	0.00	0.00	1.75
520	5405	2.032634	AACGCCATGCACGACGATT	61.033	52.632	12.59	0.16	0.00	3.34
536	5421	5.539582	TCGAAACACCTATTACATGCAAC	57.460	39.130	0.00	0.00	0.00	4.17
537	5422	6.561737	TTTCGAAACACCTATTACATGCAA	57.438	33.333	6.47	0.00	0.00	4.08
555	5440	5.432645	TGCAATCACATACCCTATTTTCGA	58.567	37.500	0.00	0.00	0.00	3.71
556	5441	5.749596	TGCAATCACATACCCTATTTTCG	57.250	39.130	0.00	0.00	0.00	3.46
627	5512	1.897398	GAAATGTCTGCGGACGCGTT	61.897	55.000	20.49	13.61	44.83	4.84
641	5526	1.917273	CAAATCTGGCGCCTGAAATG	58.083	50.000	35.38	29.98	0.00	2.32
642	5527	0.174162	GCAAATCTGGCGCCTGAAAT	59.826	50.000	35.38	25.12	0.00	2.17
647	5532	2.639327	GGTTGCAAATCTGGCGCCT	61.639	57.895	29.70	3.84	0.00	5.52
697	5582	2.368548	AGACAACCAGCATGTACTGACA	59.631	45.455	2.22	0.00	40.25	3.58
700	5585	4.081972	AGACTAGACAACCAGCATGTACTG	60.082	45.833	0.00	0.00	37.42	2.74
715	6674	4.789802	GCCAAAAAGTGCACAAGACTAGAC	60.790	45.833	21.04	0.00	0.00	2.59
1012	6989	1.028868	GCGAAGGAGCTCAAAGCCAT	61.029	55.000	17.19	0.00	43.77	4.40
1217	7200	0.908198	GTCTCCTTGGCTGAGTCCAT	59.092	55.000	0.00	0.00	35.77	3.41
1218	7201	1.536073	CGTCTCCTTGGCTGAGTCCA	61.536	60.000	0.00	0.00	0.00	4.02
1219	7202	1.216710	CGTCTCCTTGGCTGAGTCC	59.783	63.158	0.00	0.00	0.00	3.85
1220	7203	0.109039	GTCGTCTCCTTGGCTGAGTC	60.109	60.000	0.00	0.00	0.00	3.36
1221	7204	1.867919	CGTCGTCTCCTTGGCTGAGT	61.868	60.000	0.00	0.00	0.00	3.41
1222	7205	1.153939	CGTCGTCTCCTTGGCTGAG	60.154	63.158	0.00	0.00	0.00	3.35
1226	7209	2.507324	GCTCGTCGTCTCCTTGGC	60.507	66.667	0.00	0.00	0.00	4.52
1252	7235	4.083862	GTGCCCAGGGACGAGGAC	62.084	72.222	10.89	0.00	0.00	3.85
1470	7471	3.909651	GGAACCAGCCCAACCCCA	61.910	66.667	0.00	0.00	0.00	4.96
1471	7472	3.590574	AGGAACCAGCCCAACCCC	61.591	66.667	0.00	0.00	0.00	4.95
1475	7476	2.081787	TCACCAGGAACCAGCCCAA	61.082	57.895	0.00	0.00	0.00	4.12
1716	7736	4.023193	GCAATGTGGCTACAACAGTTAGTT	60.023	41.667	7.10	0.00	40.84	2.24
1922	8343	7.649705	TGAGCGTTTGCATTTGAACTATTTTAA	59.350	29.630	0.00	0.00	46.23	1.52
1923	8344	7.142021	TGAGCGTTTGCATTTGAACTATTTTA	58.858	30.769	0.00	0.00	46.23	1.52
1928	8349	4.764679	ATGAGCGTTTGCATTTGAACTA	57.235	36.364	0.00	0.00	46.23	2.24
1929	8350	3.648339	ATGAGCGTTTGCATTTGAACT	57.352	38.095	0.00	0.00	46.23	3.01
1930	8351	4.225984	TGTATGAGCGTTTGCATTTGAAC	58.774	39.130	0.00	0.00	46.23	3.18
1931	8352	4.495911	TGTATGAGCGTTTGCATTTGAA	57.504	36.364	0.00	0.00	46.23	2.69
1932	8353	4.700268	ATGTATGAGCGTTTGCATTTGA	57.300	36.364	0.00	0.00	46.23	2.69
1935	8356	4.096231	TGCTTATGTATGAGCGTTTGCATT	59.904	37.500	4.49	0.00	46.23	3.56
1937	8358	3.006247	TGCTTATGTATGAGCGTTTGCA	58.994	40.909	4.49	0.00	46.23	4.08
1955	8380	1.964223	CCGGGAGTGAGTGTATATGCT	59.036	52.381	0.00	0.00	0.00	3.79
1988	8413	4.464244	GTGCTCATAGAGATAGGGTGCATA	59.536	45.833	0.00	0.00	0.00	3.14
1998	8423	6.380846	AGTCTCTCAAAAGTGCTCATAGAGAT	59.619	38.462	0.00	0.00	39.89	2.75
2015	8449	0.537371	TGTGCCGACTCAGTCTCTCA	60.537	55.000	2.61	0.00	0.00	3.27
2028	8462	3.135994	TCAATCTCATGATGATGTGCCG	58.864	45.455	0.00	0.00	32.44	5.69
2100	8535	6.073765	CGTACTAGTCAAAGTGATGTGCTTTT	60.074	38.462	0.00	0.00	34.32	2.27
2103	8538	4.022242	ACGTACTAGTCAAAGTGATGTGCT	60.022	41.667	0.00	0.00	0.00	4.40
2114	8595	5.381174	AACATGTAGCACGTACTAGTCAA	57.619	39.130	0.00	0.00	32.19	3.18
2117	8598	7.194278	CAGATAAACATGTAGCACGTACTAGT	58.806	38.462	0.00	0.00	32.19	2.57
2124	8605	5.966636	TTAGCAGATAAACATGTAGCACG	57.033	39.130	0.00	0.00	0.00	5.34
2216	8697	7.409980	CCCAAATTTAATTTTCACGCGACTTAC	60.410	37.037	15.93	0.00	0.00	2.34
2225	8708	4.155826	GGCTGGCCCAAATTTAATTTTCAC	59.844	41.667	0.00	0.00	0.00	3.18
2298	8852	7.413000	CCAAAAATGACACGGAGACTAATGTAG	60.413	40.741	0.00	0.00	0.00	2.74
2299	8853	6.370442	CCAAAAATGACACGGAGACTAATGTA	59.630	38.462	0.00	0.00	0.00	2.29
2300	8854	5.181245	CCAAAAATGACACGGAGACTAATGT	59.819	40.000	0.00	0.00	0.00	2.71
2332	8887	1.063469	GACCCAAATATGCGTTCGGTG	59.937	52.381	0.00	0.00	0.00	4.94
2333	8888	1.339247	TGACCCAAATATGCGTTCGGT	60.339	47.619	0.00	0.00	0.00	4.69
2334	8889	1.330521	CTGACCCAAATATGCGTTCGG	59.669	52.381	0.00	0.00	0.00	4.30
2336	8891	3.006940	TGACTGACCCAAATATGCGTTC	58.993	45.455	0.00	0.00	0.00	3.95
2337	8892	3.009723	CTGACTGACCCAAATATGCGTT	58.990	45.455	0.00	0.00	0.00	4.84
2339	8894	2.632377	ACTGACTGACCCAAATATGCG	58.368	47.619	0.00	0.00	0.00	4.73
2340	8895	4.265073	AGAACTGACTGACCCAAATATGC	58.735	43.478	0.00	0.00	0.00	3.14
2358	8920	2.951726	AGGCTTCGTACCGTTAAGAAC	58.048	47.619	0.00	0.00	0.00	3.01
2369	8931	3.093814	TCACACTGGAATAGGCTTCGTA	58.906	45.455	0.00	0.00	0.00	3.43
2370	8932	1.899814	TCACACTGGAATAGGCTTCGT	59.100	47.619	0.00	0.00	0.00	3.85
2378	8940	6.121776	ACAAGGTTATGTCACACTGGAATA	57.878	37.500	0.00	0.00	0.00	1.75
2388	8950	6.043243	AGAGGAGAAAGAACAAGGTTATGTCA	59.957	38.462	0.00	0.00	31.81	3.58
2452	9397	7.255001	CCGCAAAAGAAACTACTAAAGGAAAGA	60.255	37.037	0.00	0.00	0.00	2.52
2463	9408	6.144886	CCAAAAATACCCGCAAAAGAAACTAC	59.855	38.462	0.00	0.00	0.00	2.73
2476	9433	3.093057	TCCAACATCCCAAAAATACCCG	58.907	45.455	0.00	0.00	0.00	5.28

Based at the University of Bristol with support from BBSRC.

AutoCloner maintained by Alex Coulton.