AutoCloner

Multiple sequence alignment - TraesCS5D01G397900

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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	TraesCS5D01G397900	chr5D	100.000	2837	0	0	1	2837	464394828	464397664	0.000000e+00	5240.0
1	TraesCS5D01G397900	chr5D	87.090	488	59	2	1352	1837	464347634	464348119	1.490000e-152	549.0
2	TraesCS5D01G397900	chr5D	77.020	396	62	21	987	1375	464407018	464407391	1.720000e-47	200.0
3	TraesCS5D01G397900	chr5B	89.897	1643	124	20	218	1837	571490421	571492044	0.000000e+00	2076.0
4	TraesCS5D01G397900	chr5B	85.919	1399	159	24	457	1837	571484127	571485505	0.000000e+00	1458.0
5	TraesCS5D01G397900	chr5B	87.080	1130	97	21	355	1464	571508716	571509816	0.000000e+00	1232.0
6	TraesCS5D01G397900	chr5B	90.727	550	39	7	1881	2420	216838226	216837679	0.000000e+00	723.0
7	TraesCS5D01G397900	chr5B	89.000	400	36	6	1480	1878	571510083	571510475	3.280000e-134	488.0
8	TraesCS5D01G397900	chr5B	94.595	148	8	0	86	233	571490257	571490404	2.200000e-56	230.0
9	TraesCS5D01G397900	chr5B	87.500	64	6	1	1	64	571490194	571490255	3.920000e-09	73.1
10	TraesCS5D01G397900	chr5A	83.122	1499	180	35	419	1878	584718943	584720407	0.000000e+00	1299.0
11	TraesCS5D01G397900	chr5A	91.082	841	56	9	2014	2837	619857169	619856331	0.000000e+00	1120.0
12	TraesCS5D01G397900	chr5A	80.272	882	138	29	1973	2837	617326540	617325678	1.430000e-177	632.0
13	TraesCS5D01G397900	chr5A	87.770	139	11	4	114	246	584718241	584718379	1.050000e-34	158.0
14	TraesCS5D01G397900	chr5A	71.638	818	157	42	577	1346	584791741	584792531	3.780000e-34	156.0
15	TraesCS5D01G397900	chr5A	85.484	124	12	5	1713	1833	584859279	584859399	1.070000e-24	124.0
16	TraesCS5D01G397900	chr4A	89.765	977	74	15	1881	2837	152742146	152743116	0.000000e+00	1227.0
17	TraesCS5D01G397900	chr4A	100.000	30	0	0	14	43	352130795	352130766	3.950000e-04	56.5
18	TraesCS5D01G397900	chr6B	89.549	976	81	15	1881	2837	28037470	28036497	0.000000e+00	1218.0
19	TraesCS5D01G397900	chr6B	88.302	966	80	22	1889	2837	42201496	42200547	0.000000e+00	1127.0
20	TraesCS5D01G397900	chr2A	88.934	976	67	16	1881	2837	744996168	744997121	0.000000e+00	1166.0
21	TraesCS5D01G397900	chr7B	91.566	830	57	9	2020	2837	623816545	623815717	0.000000e+00	1133.0
22	TraesCS5D01G397900	chr7A	87.890	834	66	17	2014	2837	694115472	694114664	0.000000e+00	948.0
23	TraesCS5D01G397900	chr2B	89.873	553	42	7	1881	2420	53969479	53970030	0.000000e+00	699.0
24	TraesCS5D01G397900	chr4B	89.587	557	42	10	1875	2417	73466590	73467144	0.000000e+00	693.0
25	TraesCS5D01G397900	chr1D	74.969	799	147	31	591	1374	243462658	243461898	4.560000e-83	318.0
26	TraesCS5D01G397900	chr1D	83.429	175	23	3	1432	1606	243461882	243461714	1.050000e-34	158.0
27	TraesCS5D01G397900	chr4D	80.833	120	23	0	1255	1374	84789978	84790097	8.370000e-16	95.3

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	TraesCS5D01G397900	chr5D	464394828	464397664	2836	False	5240.000000	5240	100.000	1	2837	1	chr5D.!!$F2	2836
1	TraesCS5D01G397900	chr5B	571484127	571485505	1378	False	1458.000000	1458	85.919	457	1837	1	chr5B.!!$F1	1380
2	TraesCS5D01G397900	chr5B	571508716	571510475	1759	False	860.000000	1232	88.040	355	1878	2	chr5B.!!$F3	1523
3	TraesCS5D01G397900	chr5B	571490194	571492044	1850	False	793.033333	2076	90.664	1	1837	3	chr5B.!!$F2	1836
4	TraesCS5D01G397900	chr5B	216837679	216838226	547	True	723.000000	723	90.727	1881	2420	1	chr5B.!!$R1	539
5	TraesCS5D01G397900	chr5A	619856331	619857169	838	True	1120.000000	1120	91.082	2014	2837	1	chr5A.!!$R2	823
6	TraesCS5D01G397900	chr5A	584718241	584720407	2166	False	728.500000	1299	85.446	114	1878	2	chr5A.!!$F3	1764
7	TraesCS5D01G397900	chr5A	617325678	617326540	862	True	632.000000	632	80.272	1973	2837	1	chr5A.!!$R1	864
8	TraesCS5D01G397900	chr4A	152742146	152743116	970	False	1227.000000	1227	89.765	1881	2837	1	chr4A.!!$F1	956
9	TraesCS5D01G397900	chr6B	28036497	28037470	973	True	1218.000000	1218	89.549	1881	2837	1	chr6B.!!$R1	956
10	TraesCS5D01G397900	chr6B	42200547	42201496	949	True	1127.000000	1127	88.302	1889	2837	1	chr6B.!!$R2	948
11	TraesCS5D01G397900	chr2A	744996168	744997121	953	False	1166.000000	1166	88.934	1881	2837	1	chr2A.!!$F1	956
12	TraesCS5D01G397900	chr7B	623815717	623816545	828	True	1133.000000	1133	91.566	2020	2837	1	chr7B.!!$R1	817
13	TraesCS5D01G397900	chr7A	694114664	694115472	808	True	948.000000	948	87.890	2014	2837	1	chr7A.!!$R1	823
14	TraesCS5D01G397900	chr2B	53969479	53970030	551	False	699.000000	699	89.873	1881	2420	1	chr2B.!!$F1	539
15	TraesCS5D01G397900	chr4B	73466590	73467144	554	False	693.000000	693	89.587	1875	2417	1	chr4B.!!$F1	542
16	TraesCS5D01G397900	chr1D	243461714	243462658	944	True	238.000000	318	79.199	591	1606	2	chr1D.!!$R1	1015

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
90	91	0.249784	AGCTATGGTGCGAGCATGAG	60.25	55.0	0.0	0.0	41.36	2.90	F
616	1078	0.389817	TGGAGTTTGGAGACGATGCG	60.39	55.0	0.0	0.0	0.00	4.73	F

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability	Orientation
1631	2384	0.466189	ATCATTGGTCCATGGGTCGC	60.466	55.0	13.02	0.0	0.00	5.19	R
1918	2676	0.548510	AGCAAGGGAGGAATAGTGCC	59.451	55.0	0.00	0.0	32.38	5.01	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
64	65	8.976986	TTTTATAAAGAACACGAGGTAGTCTC	57.023	34.615	0.00	0.00	39.10	3.36
65	66	7.934855	TTATAAAGAACACGAGGTAGTCTCT	57.065	36.000	0.00	0.00	40.30	3.10
66	67	4.506886	AAAGAACACGAGGTAGTCTCTG	57.493	45.455	0.00	0.00	40.30	3.35
67	68	1.813786	AGAACACGAGGTAGTCTCTGC	59.186	52.381	0.00	0.00	40.30	4.26
68	69	0.889306	AACACGAGGTAGTCTCTGCC	59.111	55.000	0.00	0.00	40.30	4.85
69	70	1.306642	ACACGAGGTAGTCTCTGCCG	61.307	60.000	0.00	0.00	41.15	5.69
70	71	1.749638	ACGAGGTAGTCTCTGCCGG	60.750	63.158	0.00	0.00	41.15	6.13
71	72	1.451567	CGAGGTAGTCTCTGCCGGA	60.452	63.158	5.05	0.00	41.15	5.14
72	73	1.440938	CGAGGTAGTCTCTGCCGGAG	61.441	65.000	5.05	0.00	41.15	4.63
73	74	1.730451	GAGGTAGTCTCTGCCGGAGC	61.730	65.000	5.05	0.00	41.15	4.70
74	75	1.755008	GGTAGTCTCTGCCGGAGCT	60.755	63.158	5.05	0.00	41.60	4.09
75	76	0.465824	GGTAGTCTCTGCCGGAGCTA	60.466	60.000	5.05	0.00	41.60	3.32
76	77	1.611519	GTAGTCTCTGCCGGAGCTAT	58.388	55.000	5.05	0.00	41.60	2.97
77	78	1.268352	GTAGTCTCTGCCGGAGCTATG	59.732	57.143	5.05	0.00	41.60	2.23
78	79	1.112315	AGTCTCTGCCGGAGCTATGG	61.112	60.000	5.05	0.00	41.60	2.74
79	80	1.075970	TCTCTGCCGGAGCTATGGT	60.076	57.895	5.05	0.00	41.60	3.55
80	81	1.068753	CTCTGCCGGAGCTATGGTG	59.931	63.158	5.05	0.37	40.80	4.17
81	82	2.590007	CTGCCGGAGCTATGGTGC	60.590	66.667	5.05	0.00	40.80	5.01
82	83	4.529219	TGCCGGAGCTATGGTGCG	62.529	66.667	5.05	3.85	43.83	5.34
83	84	4.221422	GCCGGAGCTATGGTGCGA	62.221	66.667	5.05	0.00	46.84	5.10
84	85	2.028190	CCGGAGCTATGGTGCGAG	59.972	66.667	11.78	0.00	46.84	5.03
90	91	0.249784	AGCTATGGTGCGAGCATGAG	60.250	55.000	0.00	0.00	41.36	2.90
108	109	8.092521	AGCATGAGAATCGGATTATTTTGTAG	57.907	34.615	2.65	0.00	38.61	2.74
109	110	7.933577	AGCATGAGAATCGGATTATTTTGTAGA	59.066	33.333	2.65	0.00	38.61	2.59
325	728	1.837439	TGACCTAGGTTGCATCCGAAT	59.163	47.619	17.53	0.00	0.00	3.34
481	927	5.018539	TGGTAAATCGGTAGATTCAGGTG	57.981	43.478	0.00	0.00	45.66	4.00
482	928	4.141801	TGGTAAATCGGTAGATTCAGGTGG	60.142	45.833	0.00	0.00	45.66	4.61
525	973	3.734776	CCGGTTCGGTCTGTAAAATTC	57.265	47.619	0.00	0.00	42.73	2.17
550	999	3.698539	TCGATTCACATCTCTTGAGAGCT	59.301	43.478	6.49	0.00	41.80	4.09
593	1048	6.546484	GGAGAGGATTGGAATTGGATTATCA	58.454	40.000	0.00	0.00	0.00	2.15
610	1072	6.094186	GGATTATCAAGTTGGAGTTTGGAGAC	59.906	42.308	2.34	0.00	0.00	3.36
616	1078	0.389817	TGGAGTTTGGAGACGATGCG	60.390	55.000	0.00	0.00	0.00	4.73
741	1215	1.954528	CACTCAAAGCAGCACAGGG	59.045	57.895	0.00	0.00	0.00	4.45
761	1241	4.081917	AGGGTGCAAAAACGAAGAAGAAAA	60.082	37.500	0.00	0.00	0.00	2.29
1014	1496	3.341629	CCCATGACCCAGGCCAGT	61.342	66.667	5.01	0.00	0.00	4.00
1528	2281	1.153289	CTTGACCTGCCCGAGGATG	60.153	63.158	0.00	0.00	46.33	3.51
1631	2384	1.269998	GGTGCGCCTACCTAGAGTATG	59.730	57.143	9.68	0.00	37.74	2.39
1645	2398	0.980754	AGTATGCGACCCATGGACCA	60.981	55.000	15.22	0.00	35.34	4.02
1647	2400	0.843309	TATGCGACCCATGGACCAAT	59.157	50.000	15.22	2.77	35.34	3.16
1665	2418	0.105760	ATGATGAGGACGGCTCTCCT	60.106	55.000	2.65	2.65	44.00	3.69
1675	2428	0.603707	CGGCTCTCCTTGCACTTCAA	60.604	55.000	0.00	0.00	0.00	2.69
1686	2439	3.057969	TGCACTTCAAATGAGGACGAT	57.942	42.857	0.00	0.00	0.00	3.73
1772	2525	4.560856	CGGCGAGGCTCCTCTTCG	62.561	72.222	9.32	12.23	40.69	3.79
1776	2529	1.657556	CGAGGCTCCTCTTCGGATC	59.342	63.158	9.32	0.00	42.12	3.36
1803	2556	3.439476	AGCACAAGTCTAGACGTTACGAT	59.561	43.478	17.07	1.83	36.20	3.73
1838	2591	3.181465	ACCATGAAGTCCGTGCTATAAGG	60.181	47.826	0.00	0.00	0.00	2.69
1842	2595	1.070957	GTCCGTGCTATAAGGCCCC	59.929	63.158	0.00	0.00	0.00	5.80
1844	2597	0.189080	TCCGTGCTATAAGGCCCCTA	59.811	55.000	0.00	0.00	0.00	3.53
1847	2600	2.354805	CCGTGCTATAAGGCCCCTATTC	60.355	54.545	0.00	0.00	0.00	1.75
1854	2607	4.899898	ATAAGGCCCCTATTCCTTTTGT	57.100	40.909	0.00	0.00	42.32	2.83
1863	2616	5.480073	CCCCTATTCCTTTTGTGTCAAATGA	59.520	40.000	8.84	1.99	0.00	2.57
1869	2622	6.647334	TCCTTTTGTGTCAAATGAATGCTA	57.353	33.333	8.84	0.00	0.00	3.49
1886	2639	8.703604	TGAATGCTATTAAGTTACAGACAGTC	57.296	34.615	0.00	0.00	0.00	3.51
1918	2676	4.553815	CACACGTACTGAAGTAACAGATCG	59.446	45.833	0.00	0.00	40.63	3.69
1923	2681	2.563179	ACTGAAGTAACAGATCGGCACT	59.437	45.455	0.00	0.00	40.63	4.40
1934	2692	1.694696	GATCGGCACTATTCCTCCCTT	59.305	52.381	0.00	0.00	0.00	3.95
1963	2723	4.994907	TGCATGCATTAGCTTCATCTTT	57.005	36.364	18.46	0.00	42.74	2.52
2125	2896	4.519730	TCAAACCGTTGGTCCGATTAAAAT	59.480	37.500	0.00	0.00	33.12	1.82
2154	2926	2.942376	TCACATAAAGATTTGCCGCGAT	59.058	40.909	8.23	0.00	0.00	4.58
2164	2936	2.166130	TTGCCGCGATGAGACCTTCA	62.166	55.000	8.23	0.00	40.85	3.02
2168	2940	1.804151	CCGCGATGAGACCTTCAAAAA	59.196	47.619	8.23	0.00	39.77	1.94
2182	2954	7.675619	AGACCTTCAAAAATAGATCCCATGTTT	59.324	33.333	0.00	0.00	0.00	2.83
2190	2962	9.801873	AAAAATAGATCCCATGTTTGTATTTCG	57.198	29.630	0.00	0.00	0.00	3.46
2191	2963	8.746052	AAATAGATCCCATGTTTGTATTTCGA	57.254	30.769	0.00	0.00	0.00	3.71
2192	2964	7.730364	ATAGATCCCATGTTTGTATTTCGAC	57.270	36.000	0.00	0.00	0.00	4.20
2193	2965	4.570772	AGATCCCATGTTTGTATTTCGACG	59.429	41.667	0.00	0.00	0.00	5.12
2196	2974	5.662456	TCCCATGTTTGTATTTCGACGATA	58.338	37.500	0.00	0.00	0.00	2.92
2221	3000	6.452494	TTTTTCGGGTCAAAAGTTATCACA	57.548	33.333	0.00	0.00	0.00	3.58
2477	3271	1.959747	TGCGACGAGACTTACGAAAG	58.040	50.000	0.00	0.00	38.77	2.62
2643	3449	1.002888	TGGGACAAATTTACCGCGGTA	59.997	47.619	33.45	33.45	31.92	4.02
2791	3621	9.909644	ATGAATTATCAAGTCTATGGTACGTAC	57.090	33.333	17.56	17.56	39.49	3.67

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
20	21	0.397564	AAGGCTTCCGTCCCGTTTTA	59.602	50.000	0.00	0.00	0.00	1.52
22	23	0.466739	AAAAGGCTTCCGTCCCGTTT	60.467	50.000	0.00	0.00	0.00	3.60
23	24	0.466739	AAAAAGGCTTCCGTCCCGTT	60.467	50.000	0.00	0.00	0.00	4.44
24	25	0.397564	TAAAAAGGCTTCCGTCCCGT	59.602	50.000	0.00	0.00	0.00	5.28
25	26	1.746470	ATAAAAAGGCTTCCGTCCCG	58.254	50.000	0.00	0.00	0.00	5.14
28	29	6.800408	GTGTTCTTTATAAAAAGGCTTCCGTC	59.200	38.462	0.00	0.00	42.09	4.79
29	30	6.567132	CGTGTTCTTTATAAAAAGGCTTCCGT	60.567	38.462	0.00	0.00	42.09	4.69
30	31	5.793457	CGTGTTCTTTATAAAAAGGCTTCCG	59.207	40.000	0.00	0.00	42.09	4.30
31	32	6.905578	TCGTGTTCTTTATAAAAAGGCTTCC	58.094	36.000	0.00	0.00	42.09	3.46
32	33	7.021790	CCTCGTGTTCTTTATAAAAAGGCTTC	58.978	38.462	0.00	0.00	42.09	3.86
64	65	2.590007	GCACCATAGCTCCGGCAG	60.590	66.667	0.00	0.00	41.70	4.85
65	66	4.529219	CGCACCATAGCTCCGGCA	62.529	66.667	0.00	0.00	41.70	5.69
66	67	4.221422	TCGCACCATAGCTCCGGC	62.221	66.667	0.00	0.00	39.06	6.13
67	68	2.028190	CTCGCACCATAGCTCCGG	59.972	66.667	0.00	0.00	0.00	5.14
68	69	2.659897	GCTCGCACCATAGCTCCG	60.660	66.667	0.00	0.00	35.80	4.63
69	70	1.070445	ATGCTCGCACCATAGCTCC	59.930	57.895	0.00	0.00	39.53	4.70
70	71	0.249615	TCATGCTCGCACCATAGCTC	60.250	55.000	0.00	0.00	39.53	4.09
71	72	0.249784	CTCATGCTCGCACCATAGCT	60.250	55.000	0.00	0.00	39.53	3.32
72	73	0.249615	TCTCATGCTCGCACCATAGC	60.250	55.000	0.00	0.00	39.25	2.97
73	74	2.229675	TTCTCATGCTCGCACCATAG	57.770	50.000	0.00	0.00	0.00	2.23
74	75	2.759191	GATTCTCATGCTCGCACCATA	58.241	47.619	0.00	0.00	0.00	2.74
75	76	1.590932	GATTCTCATGCTCGCACCAT	58.409	50.000	0.00	0.00	0.00	3.55
76	77	0.807275	CGATTCTCATGCTCGCACCA	60.807	55.000	0.00	0.00	0.00	4.17
77	78	1.493950	CCGATTCTCATGCTCGCACC	61.494	60.000	0.00	0.00	0.00	5.01
78	79	0.528466	TCCGATTCTCATGCTCGCAC	60.528	55.000	0.00	0.00	0.00	5.34
79	80	0.390492	ATCCGATTCTCATGCTCGCA	59.610	50.000	0.00	0.00	0.00	5.10
80	81	1.506493	AATCCGATTCTCATGCTCGC	58.494	50.000	0.00	0.00	0.00	5.03
81	82	5.852738	AAATAATCCGATTCTCATGCTCG	57.147	39.130	0.00	0.00	0.00	5.03
82	83	6.963796	ACAAAATAATCCGATTCTCATGCTC	58.036	36.000	0.00	0.00	0.00	4.26
83	84	6.949352	ACAAAATAATCCGATTCTCATGCT	57.051	33.333	0.00	0.00	0.00	3.79
84	85	8.012241	GTCTACAAAATAATCCGATTCTCATGC	58.988	37.037	0.00	0.00	0.00	4.06
90	91	7.903431	GTGTGTGTCTACAAAATAATCCGATTC	59.097	37.037	0.00	0.00	38.82	2.52
108	109	4.336532	AGAAAACTCGTTTGTGTGTGTC	57.663	40.909	0.00	0.00	32.36	3.67
109	110	5.866335	TTAGAAAACTCGTTTGTGTGTGT	57.134	34.783	0.00	0.00	32.36	3.72
249	288	8.995027	AATACCTGTCATTTGCTATGGAATAA	57.005	30.769	0.00	0.00	0.00	1.40
325	728	1.075542	CGGCGCAGTGAGATTTGTTA	58.924	50.000	10.83	0.00	0.00	2.41
481	927	0.733150	GGGCTTCGCAGAACAATACC	59.267	55.000	0.00	0.00	45.90	2.73
482	928	0.733150	GGGGCTTCGCAGAACAATAC	59.267	55.000	0.00	0.00	45.90	1.89
525	973	2.788233	CTCAAGAGATGTGAATCGAGCG	59.212	50.000	0.00	0.00	0.00	5.03
550	999	0.537600	CGTCTAGCTAGCCTGGCCTA	60.538	60.000	16.57	8.95	0.00	3.93
593	1048	3.403038	CATCGTCTCCAAACTCCAACTT	58.597	45.455	0.00	0.00	0.00	2.66
610	1072	3.659089	AACCGAGGGGAACGCATCG	62.659	63.158	16.33	16.33	46.88	3.84
616	1078	1.810755	GATTCACAAACCGAGGGGAAC	59.189	52.381	0.00	0.00	36.97	3.62
667	1130	4.436998	AGCCGGTGCAGCGAGTAC	62.437	66.667	37.48	22.80	41.13	2.73
668	1131	4.435436	CAGCCGGTGCAGCGAGTA	62.435	66.667	37.48	0.00	41.13	2.59
741	1215	5.755330	TGTTTTCTTCTTCGTTTTTGCAC	57.245	34.783	0.00	0.00	0.00	4.57
970	1451	1.639635	ATGCAGTAAGGGCCCTGAGG	61.640	60.000	29.50	14.72	0.00	3.86
1035	1517	1.065345	AGAGTCGATCCTCGGTCTTCA	60.065	52.381	0.00	0.00	40.88	3.02
1263	1754	2.202703	GCCGTGTCGAAGGCGTAT	60.203	61.111	11.29	0.00	44.22	3.06
1395	1897	2.203625	GGGAGCAAGTGGCCCAAA	60.204	61.111	0.00	0.00	46.50	3.28
1402	1904	2.743928	GCAGACCGGGAGCAAGTG	60.744	66.667	6.32	0.00	0.00	3.16
1528	2281	2.029470	CGGCTATCATCCTCCTCTTGTC	60.029	54.545	0.00	0.00	0.00	3.18
1631	2384	0.466189	ATCATTGGTCCATGGGTCGC	60.466	55.000	13.02	0.00	0.00	5.19
1645	2398	0.755686	GGAGAGCCGTCCTCATCATT	59.244	55.000	3.57	0.00	43.31	2.57
1647	2400	1.307986	AGGAGAGCCGTCCTCATCA	59.692	57.895	0.00	0.00	44.25	3.07
1665	2418	2.844946	TCGTCCTCATTTGAAGTGCAA	58.155	42.857	0.00	0.00	33.88	4.08
1675	2428	5.128499	GGAGATCCATCATATCGTCCTCATT	59.872	44.000	0.00	0.00	35.64	2.57
1686	2439	2.300152	GTCGCCAAGGAGATCCATCATA	59.700	50.000	0.92	0.00	38.89	2.15
1772	2525	4.808364	GTCTAGACTTGTGCTTGATGATCC	59.192	45.833	15.91	0.00	0.00	3.36
1776	2529	3.579709	ACGTCTAGACTTGTGCTTGATG	58.420	45.455	20.34	3.20	32.72	3.07
1803	2556	8.316214	ACGGACTTCATGGTATACTCTTTTAAA	58.684	33.333	2.25	0.00	0.00	1.52
1838	2591	2.802719	TGACACAAAAGGAATAGGGGC	58.197	47.619	0.00	0.00	0.00	5.80
1842	2595	7.816031	AGCATTCATTTGACACAAAAGGAATAG	59.184	33.333	17.89	14.95	44.39	1.73
1844	2597	6.527423	AGCATTCATTTGACACAAAAGGAAT	58.473	32.000	15.10	15.10	46.07	3.01
1847	2600	7.894376	AATAGCATTCATTTGACACAAAAGG	57.106	32.000	0.00	0.00	0.00	3.11
1863	2616	7.852263	AGGACTGTCTGTAACTTAATAGCATT	58.148	34.615	7.85	0.00	0.00	3.56
1869	2622	8.312564	GGAAGTTAGGACTGTCTGTAACTTAAT	58.687	37.037	28.66	18.22	35.99	1.40
1878	2631	3.654414	GTGTGGAAGTTAGGACTGTCTG	58.346	50.000	7.85	0.00	35.91	3.51
1879	2632	2.296471	CGTGTGGAAGTTAGGACTGTCT	59.704	50.000	7.85	0.00	35.91	3.41
1886	2639	3.928727	TCAGTACGTGTGGAAGTTAGG	57.071	47.619	0.00	0.00	0.00	2.69
1918	2676	0.548510	AGCAAGGGAGGAATAGTGCC	59.451	55.000	0.00	0.00	32.38	5.01
1923	2681	2.658285	CATGCAAGCAAGGGAGGAATA	58.342	47.619	0.00	0.00	0.00	1.75
1968	2728	2.750166	TGGACACGCACAGAAAAAGAAA	59.250	40.909	0.00	0.00	0.00	2.52
1971	2731	1.268539	GGTGGACACGCACAGAAAAAG	60.269	52.381	0.00	0.00	0.00	2.27
2125	2896	7.081349	CGGCAAATCTTTATGTGAAAACAGTA	58.919	34.615	0.00	0.00	0.00	2.74
2148	2920	1.438651	TTTTGAAGGTCTCATCGCGG	58.561	50.000	6.13	0.00	32.78	6.46
2154	2926	6.387192	TGGGATCTATTTTTGAAGGTCTCA	57.613	37.500	0.00	0.00	30.77	3.27
2164	2936	9.801873	CGAAATACAAACATGGGATCTATTTTT	57.198	29.630	0.00	0.00	0.00	1.94
2168	2940	6.423905	CGTCGAAATACAAACATGGGATCTAT	59.576	38.462	0.00	0.00	0.00	1.98
2402	3194	9.678260	GATCAGATGGATGCTTTAACCTATAAT	57.322	33.333	0.00	0.00	36.00	1.28
2477	3271	9.593134	GTCAGAACATATCAATATGGGATCTAC	57.407	37.037	13.18	9.02	43.38	2.59
2531	3327	2.683742	GCTGATTTACTTAGCCCAGGCA	60.684	50.000	12.03	0.00	44.88	4.75
2624	3429	1.736612	TACCGCGGTAAATTTGTCCC	58.263	50.000	34.79	0.00	0.00	4.46
2643	3449	1.130373	CATGGTAACTCGCGCACAAAT	59.870	47.619	8.75	0.00	37.61	2.32
2791	3621	7.526608	ACTTCCGTACAAATGTCACAATAATG	58.473	34.615	0.00	0.00	0.00	1.90
2797	3627	5.346551	CGATAACTTCCGTACAAATGTCACA	59.653	40.000	0.00	0.00	0.00	3.58

Based at the University of Bristol with support from BBSRC.

AutoCloner maintained by Alex Coulton.