AutoCloner

Multiple sequence alignment - TraesCS1D01G170900

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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	TraesCS1D01G170900	chr1D	100.000	2114	0	0	1	2114	244443753	244445866	0.000000e+00	3904
1	TraesCS1D01G170900	chr1D	94.947	2058	85	10	74	2114	394178682	394180737	0.000000e+00	3206
2	TraesCS1D01G170900	chr1D	95.551	1461	53	7	660	2114	483922592	483921138	0.000000e+00	2327
3	TraesCS1D01G170900	chr3B	95.129	2053	82	9	74	2114	201506351	201508397	0.000000e+00	3221
4	TraesCS1D01G170900	chr6D	94.886	2053	85	11	74	2114	431399802	431401846	0.000000e+00	3192
5	TraesCS1D01G170900	chr6D	94.737	76	4	0	4	79	274214189	274214114	3.680000e-23	119
6	TraesCS1D01G170900	chr6D	92.405	79	5	1	1	79	234320020	234319943	6.170000e-21	111
7	TraesCS1D01G170900	chrUn	94.752	2058	86	11	74	2114	317473418	317471366	0.000000e+00	3182
8	TraesCS1D01G170900	chrUn	95.085	1119	40	8	74	1179	404958006	404959122	0.000000e+00	1748
9	TraesCS1D01G170900	chrUn	95.362	733	21	6	74	798	53261865	53261138	0.000000e+00	1153
10	TraesCS1D01G170900	chr2D	94.442	2051	91	13	74	2114	334225697	334227734	0.000000e+00	3134
11	TraesCS1D01G170900	chr5D	94.396	2052	92	11	74	2114	6208042	6206003	0.000000e+00	3131
12	TraesCS1D01G170900	chr5D	96.054	1343	48	4	775	2114	554200522	554199182	0.000000e+00	2182
13	TraesCS1D01G170900	chr2A	94.244	2050	86	12	74	2111	335826051	335828080	0.000000e+00	3103
14	TraesCS1D01G170900	chr2A	93.614	642	29	5	74	708	276441301	276440665	0.000000e+00	948
15	TraesCS1D01G170900	chr7D	92.506	774	46	6	74	840	88605360	88606128	0.000000e+00	1098
16	TraesCS1D01G170900	chr7D	92.683	82	3	3	1	80	312764379	312764459	4.770000e-22	115
17	TraesCS1D01G170900	chr1A	94.515	711	26	6	74	775	256026395	256025689	0.000000e+00	1085
18	TraesCS1D01G170900	chr1A	95.890	73	3	0	5	77	364460953	364461025	3.680000e-23	119
19	TraesCS1D01G170900	chr5A	94.581	609	24	5	74	674	684325360	684325967	0.000000e+00	933
20	TraesCS1D01G170900	chr7A	94.805	77	3	1	1	77	402603081	402603156	3.680000e-23	119
21	TraesCS1D01G170900	chr2B	95.890	73	3	0	1	73	533524142	533524214	3.680000e-23	119
22	TraesCS1D01G170900	chr7B	92.500	80	5	1	1	80	722100217	722100139	1.710000e-21	113
23	TraesCS1D01G170900	chr4D	94.521	73	3	1	1	73	371497308	371497379	6.170000e-21	111
24	TraesCS1D01G170900	chr4A	94.444	72	4	0	5	76	180793592	180793663	6.170000e-21	111

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	TraesCS1D01G170900	chr1D	244443753	244445866	2113	False	3904	3904	100.000	1	2114	1	chr1D.!!$F1	2113
1	TraesCS1D01G170900	chr1D	394178682	394180737	2055	False	3206	3206	94.947	74	2114	1	chr1D.!!$F2	2040
2	TraesCS1D01G170900	chr1D	483921138	483922592	1454	True	2327	2327	95.551	660	2114	1	chr1D.!!$R1	1454
3	TraesCS1D01G170900	chr3B	201506351	201508397	2046	False	3221	3221	95.129	74	2114	1	chr3B.!!$F1	2040
4	TraesCS1D01G170900	chr6D	431399802	431401846	2044	False	3192	3192	94.886	74	2114	1	chr6D.!!$F1	2040
5	TraesCS1D01G170900	chrUn	317471366	317473418	2052	True	3182	3182	94.752	74	2114	1	chrUn.!!$R2	2040
6	TraesCS1D01G170900	chrUn	404958006	404959122	1116	False	1748	1748	95.085	74	1179	1	chrUn.!!$F1	1105
7	TraesCS1D01G170900	chrUn	53261138	53261865	727	True	1153	1153	95.362	74	798	1	chrUn.!!$R1	724
8	TraesCS1D01G170900	chr2D	334225697	334227734	2037	False	3134	3134	94.442	74	2114	1	chr2D.!!$F1	2040
9	TraesCS1D01G170900	chr5D	6206003	6208042	2039	True	3131	3131	94.396	74	2114	1	chr5D.!!$R1	2040
10	TraesCS1D01G170900	chr5D	554199182	554200522	1340	True	2182	2182	96.054	775	2114	1	chr5D.!!$R2	1339
11	TraesCS1D01G170900	chr2A	335826051	335828080	2029	False	3103	3103	94.244	74	2111	1	chr2A.!!$F1	2037
12	TraesCS1D01G170900	chr2A	276440665	276441301	636	True	948	948	93.614	74	708	1	chr2A.!!$R1	634
13	TraesCS1D01G170900	chr7D	88605360	88606128	768	False	1098	1098	92.506	74	840	1	chr7D.!!$F1	766
14	TraesCS1D01G170900	chr1A	256025689	256026395	706	True	1085	1085	94.515	74	775	1	chr1A.!!$R1	701
15	TraesCS1D01G170900	chr5A	684325360	684325967	607	False	933	933	94.581	74	674	1	chr5A.!!$F1	600

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
766	790	1.616159	TTGGTTTTCTACTGGCTGCC	58.384	50.0	12.87	12.87	0.0	4.85	F

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability	Orientation
1640	1686	4.932146	ACCAAAAAGAAGAAATGACACGG	58.068	39.13	0.0	0.0	0.0	4.94	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
25	26	7.587037	AGATTTTGAAAAATGAGTGTCAGGA	57.413	32.000	5.76	0.00	38.64	3.86
26	27	8.010733	AGATTTTGAAAAATGAGTGTCAGGAA	57.989	30.769	5.76	0.00	38.64	3.36
27	28	8.139989	AGATTTTGAAAAATGAGTGTCAGGAAG	58.860	33.333	5.76	0.00	38.64	3.46
28	29	5.772825	TTGAAAAATGAGTGTCAGGAAGG	57.227	39.130	0.00	0.00	0.00	3.46
29	30	5.047566	TGAAAAATGAGTGTCAGGAAGGA	57.952	39.130	0.00	0.00	0.00	3.36
30	31	5.445069	TGAAAAATGAGTGTCAGGAAGGAA	58.555	37.500	0.00	0.00	0.00	3.36
31	32	6.070656	TGAAAAATGAGTGTCAGGAAGGAAT	58.929	36.000	0.00	0.00	0.00	3.01
32	33	7.230747	TGAAAAATGAGTGTCAGGAAGGAATA	58.769	34.615	0.00	0.00	0.00	1.75
33	34	7.723616	TGAAAAATGAGTGTCAGGAAGGAATAA	59.276	33.333	0.00	0.00	0.00	1.40
34	35	7.454260	AAAATGAGTGTCAGGAAGGAATAAC	57.546	36.000	0.00	0.00	0.00	1.89
35	36	5.762179	ATGAGTGTCAGGAAGGAATAACA	57.238	39.130	0.00	0.00	0.00	2.41
36	37	5.560722	TGAGTGTCAGGAAGGAATAACAA	57.439	39.130	0.00	0.00	0.00	2.83
37	38	5.305585	TGAGTGTCAGGAAGGAATAACAAC	58.694	41.667	0.00	0.00	0.00	3.32
38	39	5.163248	TGAGTGTCAGGAAGGAATAACAACA	60.163	40.000	0.00	0.00	0.00	3.33
39	40	5.063880	AGTGTCAGGAAGGAATAACAACAC	58.936	41.667	0.00	0.00	35.81	3.32
40	41	4.819630	GTGTCAGGAAGGAATAACAACACA	59.180	41.667	0.00	0.00	35.69	3.72
41	42	5.298276	GTGTCAGGAAGGAATAACAACACAA	59.702	40.000	0.00	0.00	35.69	3.33
42	43	5.888724	TGTCAGGAAGGAATAACAACACAAA	59.111	36.000	0.00	0.00	0.00	2.83
43	44	6.378564	TGTCAGGAAGGAATAACAACACAAAA	59.621	34.615	0.00	0.00	0.00	2.44
44	45	7.093727	TGTCAGGAAGGAATAACAACACAAAAA	60.094	33.333	0.00	0.00	0.00	1.94
45	46	7.926018	GTCAGGAAGGAATAACAACACAAAAAT	59.074	33.333	0.00	0.00	0.00	1.82
46	47	8.482128	TCAGGAAGGAATAACAACACAAAAATT	58.518	29.630	0.00	0.00	0.00	1.82
47	48	8.550376	CAGGAAGGAATAACAACACAAAAATTG	58.450	33.333	0.00	0.00	0.00	2.32
48	49	8.482128	AGGAAGGAATAACAACACAAAAATTGA	58.518	29.630	0.00	0.00	0.00	2.57
49	50	9.271828	GGAAGGAATAACAACACAAAAATTGAT	57.728	29.630	0.00	0.00	0.00	2.57
68	69	6.371595	TTGATAATTCAATTTTGGGGCTGT	57.628	33.333	0.00	0.00	36.94	4.40
69	70	6.371595	TGATAATTCAATTTTGGGGCTGTT	57.628	33.333	0.00	0.00	0.00	3.16
70	71	7.487822	TGATAATTCAATTTTGGGGCTGTTA	57.512	32.000	0.00	0.00	0.00	2.41
71	72	7.327214	TGATAATTCAATTTTGGGGCTGTTAC	58.673	34.615	0.00	0.00	0.00	2.50
72	73	5.559148	AATTCAATTTTGGGGCTGTTACA	57.441	34.783	0.00	0.00	0.00	2.41
90	91	5.126222	TGTTACATTTCTTGACCAAACTGCA	59.874	36.000	0.00	0.00	0.00	4.41
91	92	4.311816	ACATTTCTTGACCAAACTGCAG	57.688	40.909	13.48	13.48	0.00	4.41
117	118	6.848296	GCGCAGAACTTTATGAGATGAAATAC	59.152	38.462	0.30	0.00	0.00	1.89
195	196	4.994852	CGAATCTACTTTGGTTGGAGTTCA	59.005	41.667	0.00	0.00	0.00	3.18
285	290	3.057245	GTGGAATGCTTTTGTTCTCCTCC	60.057	47.826	0.00	0.00	0.00	4.30
342	347	6.730977	AGAAGGAATAGGGGAATATTCGATCA	59.269	38.462	9.32	0.00	41.24	2.92
357	362	4.685169	TCGATCATTCACTCCAAAAAGC	57.315	40.909	0.00	0.00	0.00	3.51
538	546	6.819284	ACTCAATTGACAAATTCCACAACAT	58.181	32.000	3.38	0.00	33.59	2.71
598	606	8.327941	TCTGATGAATCCACTTTCTTTTACAG	57.672	34.615	0.00	0.00	0.00	2.74
766	790	1.616159	TTGGTTTTCTACTGGCTGCC	58.384	50.000	12.87	12.87	0.00	4.85
920	944	8.961634	AGACTAATTAGGAATTCTTTTCTTGGC	58.038	33.333	16.73	0.00	32.38	4.52
1057	1082	5.121925	GGCCTAATTCCTATTACTTTAGCGC	59.878	44.000	0.00	0.00	0.00	5.92
1088	1113	6.903419	TCGTGAATGTGTATTTGCAATACAA	58.097	32.000	17.58	11.49	36.40	2.41
1094	1119	4.214332	TGTGTATTTGCAATACAAGCGTGA	59.786	37.500	17.58	0.00	40.06	4.35
1179	1208	6.993079	AGGTCAAATTGAAATTGGAGTTACC	58.007	36.000	0.00	0.00	39.54	2.85
1212	1241	8.940768	TTTGTTAAGTTATTTTGCTCTGCTTT	57.059	26.923	0.00	0.00	0.00	3.51
1277	1306	1.003233	GACATCGGGTTTTGGAGACCT	59.997	52.381	0.00	0.00	37.34	3.85
1296	1325	1.986378	CTGCGTTCTACCGAACTGAAG	59.014	52.381	4.02	0.00	45.78	3.02
1380	1409	7.274033	CGTACGTATAGTCTCCACAAATTCAAA	59.726	37.037	7.22	0.00	0.00	2.69
1426	1455	2.806818	TCTCGTCGCTACTGCCTATAAG	59.193	50.000	0.00	0.00	35.36	1.73
1453	1482	7.068686	AGAAAGAAGTAATAGGTAGGGATGC	57.931	40.000	0.00	0.00	0.00	3.91
1457	1486	4.214993	AGTAATAGGTAGGGATGCCAGT	57.785	45.455	5.86	0.00	0.00	4.00
1466	1495	4.385310	GGTAGGGATGCCAGTATTTGAACT	60.385	45.833	5.86	0.00	0.00	3.01
1468	1497	5.450818	AGGGATGCCAGTATTTGAACTTA	57.549	39.130	5.86	0.00	0.00	2.24
1469	1498	5.193679	AGGGATGCCAGTATTTGAACTTAC	58.806	41.667	5.86	0.00	0.00	2.34
1504	1533	3.428316	CCAAAACAAACACGCTACCAAGT	60.428	43.478	0.00	0.00	0.00	3.16
1527	1556	2.415491	GCGCTACATCCCTTTTCCAAAC	60.415	50.000	0.00	0.00	0.00	2.93
1528	1557	2.163613	CGCTACATCCCTTTTCCAAACC	59.836	50.000	0.00	0.00	0.00	3.27
1534	1563	5.620206	ACATCCCTTTTCCAAACCAAATTC	58.380	37.500	0.00	0.00	0.00	2.17
1582	1611	6.505044	TCATGTCTTCTTTTCCACATCATG	57.495	37.500	0.00	0.00	33.74	3.07
1598	1627	8.301720	TCCACATCATGATTTTCTTCTTCTTTG	58.698	33.333	5.16	0.00	0.00	2.77
1667	1713	7.257722	GTGTCATTTCTTCTTTTTGGTCTCAA	58.742	34.615	0.00	0.00	0.00	3.02
1770	1816	5.860648	AGGAAGAAGGGGTCATCTTTTTA	57.139	39.130	0.00	0.00	36.08	1.52
1771	1817	6.408770	AGGAAGAAGGGGTCATCTTTTTAT	57.591	37.500	0.00	0.00	36.08	1.40
1886	1934	4.774200	ACAAGGAAGGAGGATTTTCAATGG	59.226	41.667	0.00	0.00	0.00	3.16
1889	1937	3.309848	GGAAGGAGGATTTTCAATGGGGA	60.310	47.826	0.00	0.00	0.00	4.81

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
0	1	8.010733	TCCTGACACTCATTTTTCAAAATCTT	57.989	30.769	0.00	0.00	36.52	2.40
1	2	7.587037	TCCTGACACTCATTTTTCAAAATCT	57.413	32.000	0.00	0.00	36.52	2.40
2	3	7.383300	CCTTCCTGACACTCATTTTTCAAAATC	59.617	37.037	0.00	0.00	36.52	2.17
3	4	7.069826	TCCTTCCTGACACTCATTTTTCAAAAT	59.930	33.333	0.00	0.00	39.07	1.82
4	5	6.379703	TCCTTCCTGACACTCATTTTTCAAAA	59.620	34.615	0.00	0.00	0.00	2.44
5	6	5.890985	TCCTTCCTGACACTCATTTTTCAAA	59.109	36.000	0.00	0.00	0.00	2.69
6	7	5.445069	TCCTTCCTGACACTCATTTTTCAA	58.555	37.500	0.00	0.00	0.00	2.69
7	8	5.047566	TCCTTCCTGACACTCATTTTTCA	57.952	39.130	0.00	0.00	0.00	2.69
8	9	6.581171	ATTCCTTCCTGACACTCATTTTTC	57.419	37.500	0.00	0.00	0.00	2.29
9	10	7.505585	TGTTATTCCTTCCTGACACTCATTTTT	59.494	33.333	0.00	0.00	0.00	1.94
10	11	7.004086	TGTTATTCCTTCCTGACACTCATTTT	58.996	34.615	0.00	0.00	0.00	1.82
11	12	6.542821	TGTTATTCCTTCCTGACACTCATTT	58.457	36.000	0.00	0.00	0.00	2.32
12	13	6.126863	TGTTATTCCTTCCTGACACTCATT	57.873	37.500	0.00	0.00	0.00	2.57
13	14	5.762179	TGTTATTCCTTCCTGACACTCAT	57.238	39.130	0.00	0.00	0.00	2.90
14	15	5.163248	TGTTGTTATTCCTTCCTGACACTCA	60.163	40.000	0.00	0.00	0.00	3.41
15	16	5.179555	GTGTTGTTATTCCTTCCTGACACTC	59.820	44.000	0.00	0.00	33.87	3.51
16	17	5.063880	GTGTTGTTATTCCTTCCTGACACT	58.936	41.667	0.00	0.00	33.87	3.55
17	18	4.819630	TGTGTTGTTATTCCTTCCTGACAC	59.180	41.667	0.00	0.00	36.37	3.67
18	19	5.042463	TGTGTTGTTATTCCTTCCTGACA	57.958	39.130	0.00	0.00	0.00	3.58
19	20	6.385649	TTTGTGTTGTTATTCCTTCCTGAC	57.614	37.500	0.00	0.00	0.00	3.51
20	21	7.411486	TTTTTGTGTTGTTATTCCTTCCTGA	57.589	32.000	0.00	0.00	0.00	3.86
21	22	8.550376	CAATTTTTGTGTTGTTATTCCTTCCTG	58.450	33.333	0.00	0.00	0.00	3.86
22	23	8.482128	TCAATTTTTGTGTTGTTATTCCTTCCT	58.518	29.630	0.00	0.00	0.00	3.36
23	24	8.655651	TCAATTTTTGTGTTGTTATTCCTTCC	57.344	30.769	0.00	0.00	0.00	3.46
46	47	6.371595	AACAGCCCCAAAATTGAATTATCA	57.628	33.333	0.00	0.00	0.00	2.15
47	48	7.327214	TGTAACAGCCCCAAAATTGAATTATC	58.673	34.615	0.00	0.00	0.00	1.75
48	49	7.251321	TGTAACAGCCCCAAAATTGAATTAT	57.749	32.000	0.00	0.00	0.00	1.28
49	50	6.672266	TGTAACAGCCCCAAAATTGAATTA	57.328	33.333	0.00	0.00	0.00	1.40
50	51	5.559148	TGTAACAGCCCCAAAATTGAATT	57.441	34.783	0.00	0.00	0.00	2.17
51	52	5.760484	ATGTAACAGCCCCAAAATTGAAT	57.240	34.783	0.00	0.00	0.00	2.57
52	53	5.559148	AATGTAACAGCCCCAAAATTGAA	57.441	34.783	0.00	0.00	0.00	2.69
53	54	5.306678	AGAAATGTAACAGCCCCAAAATTGA	59.693	36.000	0.00	0.00	0.00	2.57
54	55	5.550290	AGAAATGTAACAGCCCCAAAATTG	58.450	37.500	0.00	0.00	0.00	2.32
55	56	5.823861	AGAAATGTAACAGCCCCAAAATT	57.176	34.783	0.00	0.00	0.00	1.82
56	57	5.306678	TCAAGAAATGTAACAGCCCCAAAAT	59.693	36.000	0.00	0.00	0.00	1.82
57	58	4.651503	TCAAGAAATGTAACAGCCCCAAAA	59.348	37.500	0.00	0.00	0.00	2.44
58	59	4.038642	GTCAAGAAATGTAACAGCCCCAAA	59.961	41.667	0.00	0.00	0.00	3.28
59	60	3.572255	GTCAAGAAATGTAACAGCCCCAA	59.428	43.478	0.00	0.00	0.00	4.12
60	61	3.153919	GTCAAGAAATGTAACAGCCCCA	58.846	45.455	0.00	0.00	0.00	4.96
61	62	2.492088	GGTCAAGAAATGTAACAGCCCC	59.508	50.000	0.00	0.00	0.00	5.80
62	63	3.153919	TGGTCAAGAAATGTAACAGCCC	58.846	45.455	0.00	0.00	0.00	5.19
63	64	4.846779	TTGGTCAAGAAATGTAACAGCC	57.153	40.909	0.00	0.00	0.00	4.85
64	65	5.687285	CAGTTTGGTCAAGAAATGTAACAGC	59.313	40.000	0.00	0.00	0.00	4.40
65	66	5.687285	GCAGTTTGGTCAAGAAATGTAACAG	59.313	40.000	0.00	0.00	0.00	3.16
66	67	5.126222	TGCAGTTTGGTCAAGAAATGTAACA	59.874	36.000	0.00	0.00	0.00	2.41
67	68	5.587289	TGCAGTTTGGTCAAGAAATGTAAC	58.413	37.500	0.00	0.00	0.00	2.50
68	69	5.221224	CCTGCAGTTTGGTCAAGAAATGTAA	60.221	40.000	13.81	0.00	0.00	2.41
69	70	4.278170	CCTGCAGTTTGGTCAAGAAATGTA	59.722	41.667	13.81	0.00	0.00	2.29
70	71	3.068590	CCTGCAGTTTGGTCAAGAAATGT	59.931	43.478	13.81	0.00	0.00	2.71
71	72	3.645884	CCTGCAGTTTGGTCAAGAAATG	58.354	45.455	13.81	0.00	0.00	2.32
72	73	2.036346	GCCTGCAGTTTGGTCAAGAAAT	59.964	45.455	13.81	0.00	0.00	2.17
90	91	3.118629	TCATCTCATAAAGTTCTGCGCCT	60.119	43.478	4.18	0.00	0.00	5.52
91	92	3.198068	TCATCTCATAAAGTTCTGCGCC	58.802	45.455	4.18	0.00	0.00	6.53
117	118	6.090483	TCTATTCTATCTTCTGCCTTTCCG	57.910	41.667	0.00	0.00	0.00	4.30
257	262	2.306847	ACAAAAGCATTCCACGACCTT	58.693	42.857	0.00	0.00	0.00	3.50
342	347	1.886542	GACCCGCTTTTTGGAGTGAAT	59.113	47.619	0.00	0.00	0.00	2.57
357	362	8.135529	GGATAATTTCTTTTTCAATAGGACCCG	58.864	37.037	0.00	0.00	0.00	5.28
538	546	6.782988	AGTCCCTAATTCCGAATCAAGAGATA	59.217	38.462	0.00	0.00	33.08	1.98
920	944	8.607441	TCTAAATTATCCACGAATCTCAATGG	57.393	34.615	0.00	0.00	0.00	3.16
1070	1095	5.094812	CACGCTTGTATTGCAAATACACAT	58.905	37.500	16.36	0.00	36.53	3.21
1073	1098	4.142708	CCTCACGCTTGTATTGCAAATACA	60.143	41.667	1.71	10.12	36.53	2.29
1088	1113	1.137872	GATCCAACTGATCCTCACGCT	59.862	52.381	0.00	0.00	43.53	5.07
1203	1232	6.147492	CCATCTATCTTATGTCAAAGCAGAGC	59.853	42.308	0.00	0.00	0.00	4.09
1212	1241	6.015095	AGCGTGATTCCATCTATCTTATGTCA	60.015	38.462	0.00	0.00	0.00	3.58
1296	1325	5.221891	TGAATGAATGAAAGCGCTCTTAC	57.778	39.130	12.06	3.07	31.02	2.34
1338	1367	7.918536	ATACGTACGTGAGATACATTAGGAT	57.081	36.000	30.25	7.90	0.00	3.24
1426	1455	7.672122	TCCCTACCTATTACTTCTTTCTTCC	57.328	40.000	0.00	0.00	0.00	3.46
1453	1482	8.073768	ACAAAATGTCGTAAGTTCAAATACTGG	58.926	33.333	0.00	0.00	39.48	4.00
1457	1486	8.505625	GGGTACAAAATGTCGTAAGTTCAAATA	58.494	33.333	0.00	0.00	39.48	1.40
1504	1533	1.271652	TGGAAAAGGGATGTAGCGCAA	60.272	47.619	11.47	0.00	0.00	4.85
1527	1556	6.411630	CAATGGCATTGTACAAGAATTTGG	57.588	37.500	27.93	1.43	35.78	3.28
1561	1590	7.713734	AATCATGATGTGGAAAAGAAGACAT	57.286	32.000	9.46	0.00	0.00	3.06
1640	1686	4.932146	ACCAAAAAGAAGAAATGACACGG	58.068	39.130	0.00	0.00	0.00	4.94
1925	1973	6.294286	GCTAAAGCACCAAACCATAAAGTACA	60.294	38.462	0.00	0.00	41.59	2.90
2009	2058	6.013379	TCCCTCCCATAGCAATAACTAGAATG	60.013	42.308	0.00	0.00	0.00	2.67

Based at the University of Bristol with support from BBSRC.

AutoCloner maintained by Alex Coulton.