AutoCloner

Multiple sequence alignment - TraesCS4B01G136300

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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	TraesCS4B01G136300	chr4B	100.000	2438	0	0	1	2438	179843566	179841129	0.000000e+00	4503
1	TraesCS4B01G136300	chr4B	83.576	688	76	19	851	1517	179751011	179751682	5.760000e-171	610
2	TraesCS4B01G136300	chr4B	80.290	345	62	5	1636	1978	19983760	19983420	3.110000e-64	255
3	TraesCS4B01G136300	chr4D	94.707	1247	47	5	426	1666	117706926	117705693	0.000000e+00	1919
4	TraesCS4B01G136300	chr4D	92.082	783	57	5	1658	2438	117704329	117703550	0.000000e+00	1098
5	TraesCS4B01G136300	chr4D	83.140	688	80	18	851	1517	117663184	117662512	1.610000e-166	595
6	TraesCS4B01G136300	chr4D	87.288	236	1	3	1	236	117710310	117710104	2.420000e-60	243
7	TraesCS4B01G136300	chr4A	90.423	1253	90	16	625	1866	456293603	456294836	0.000000e+00	1622
8	TraesCS4B01G136300	chr4A	86.404	559	62	11	1000	1547	456336323	456336878	1.250000e-167	599
9	TraesCS4B01G136300	chr4A	87.174	499	55	6	1000	1489	457568311	457568809	2.120000e-155	558
10	TraesCS4B01G136300	chr7D	80.895	916	105	30	622	1486	611445523	611444627	0.000000e+00	658
11	TraesCS4B01G136300	chr7D	83.600	250	23	7	342	575	611468716	611468469	4.080000e-53	219
12	TraesCS4B01G136300	chr7D	88.889	99	4	4	147	238	611460305	611460207	5.510000e-22	115
13	TraesCS4B01G136300	chr7B	80.524	955	105	43	644	1546	700724652	700723727	0.000000e+00	658
14	TraesCS4B01G136300	chr7B	80.973	904	94	28	604	1454	700736598	700735720	0.000000e+00	645
15	TraesCS4B01G136300	chr7B	81.101	799	122	11	1642	2437	458458189	458457417	1.600000e-171	612
16	TraesCS4B01G136300	chr7B	84.330	619	71	15	914	1508	700630462	700629846	1.260000e-162	582
17	TraesCS4B01G136300	chr7B	78.039	510	108	4	1779	2284	597317181	597317690	3.910000e-83	318
18	TraesCS4B01G136300	chr7B	86.458	192	16	3	392	575	700682750	700682561	4.110000e-48	202
19	TraesCS4B01G136300	chr7B	86.179	123	9	5	147	267	700690698	700690582	2.540000e-25	126
20	TraesCS4B01G136300	chr7B	88.000	100	9	2	147	244	700739053	700738955	5.510000e-22	115
21	TraesCS4B01G136300	chr5A	80.531	791	147	7	1619	2405	619776478	619775691	3.470000e-168	601
22	TraesCS4B01G136300	chr5D	80.123	810	145	14	1639	2438	495789289	495788486	7.510000e-165	590
23	TraesCS4B01G136300	chr5D	76.721	799	171	12	1618	2406	322394928	322394135	4.820000e-117	431
24	TraesCS4B01G136300	chr5D	75.449	668	155	9	1618	2280	279204616	279205279	1.410000e-82	316
25	TraesCS4B01G136300	chr6D	85.366	328	43	3	1622	1944	105569846	105570173	3.880000e-88	335
26	TraesCS4B01G136300	chr6B	74.961	639	136	14	1775	2405	685628828	685628206	3.090000e-69	272
27	TraesCS4B01G136300	chr2D	78.043	419	81	7	1890	2301	591139489	591139075	1.120000e-63	254
28	TraesCS4B01G136300	chr7A	90.909	99	7	2	147	244	701475630	701475533	5.470000e-27	132
29	TraesCS4B01G136300	chr7A	87.879	99	5	4	147	238	701440095	701439997	2.560000e-20	110
30	TraesCS4B01G136300	chr7A	87.755	98	4	2	486	575	701459738	701459641	9.220000e-20	108

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	TraesCS4B01G136300	chr4B	179841129	179843566	2437	True	4503.000000	4503	100.0000	1	2438	1	chr4B.!!$R2	2437
1	TraesCS4B01G136300	chr4B	179751011	179751682	671	False	610.000000	610	83.5760	851	1517	1	chr4B.!!$F1	666
2	TraesCS4B01G136300	chr4D	117703550	117710310	6760	True	1086.666667	1919	91.3590	1	2438	3	chr4D.!!$R2	2437
3	TraesCS4B01G136300	chr4D	117662512	117663184	672	True	595.000000	595	83.1400	851	1517	1	chr4D.!!$R1	666
4	TraesCS4B01G136300	chr4A	456293603	456294836	1233	False	1622.000000	1622	90.4230	625	1866	1	chr4A.!!$F1	1241
5	TraesCS4B01G136300	chr4A	456336323	456336878	555	False	599.000000	599	86.4040	1000	1547	1	chr4A.!!$F2	547
6	TraesCS4B01G136300	chr7D	611444627	611445523	896	True	658.000000	658	80.8950	622	1486	1	chr7D.!!$R1	864
7	TraesCS4B01G136300	chr7B	700723727	700724652	925	True	658.000000	658	80.5240	644	1546	1	chr7B.!!$R5	902
8	TraesCS4B01G136300	chr7B	458457417	458458189	772	True	612.000000	612	81.1010	1642	2437	1	chr7B.!!$R1	795
9	TraesCS4B01G136300	chr7B	700629846	700630462	616	True	582.000000	582	84.3300	914	1508	1	chr7B.!!$R2	594
10	TraesCS4B01G136300	chr7B	700735720	700739053	3333	True	380.000000	645	84.4865	147	1454	2	chr7B.!!$R6	1307
11	TraesCS4B01G136300	chr7B	597317181	597317690	509	False	318.000000	318	78.0390	1779	2284	1	chr7B.!!$F1	505
12	TraesCS4B01G136300	chr5A	619775691	619776478	787	True	601.000000	601	80.5310	1619	2405	1	chr5A.!!$R1	786
13	TraesCS4B01G136300	chr5D	495788486	495789289	803	True	590.000000	590	80.1230	1639	2438	1	chr5D.!!$R2	799
14	TraesCS4B01G136300	chr5D	322394135	322394928	793	True	431.000000	431	76.7210	1618	2406	1	chr5D.!!$R1	788
15	TraesCS4B01G136300	chr5D	279204616	279205279	663	False	316.000000	316	75.4490	1618	2280	1	chr5D.!!$F1	662
16	TraesCS4B01G136300	chr6B	685628206	685628828	622	True	272.000000	272	74.9610	1775	2405	1	chr6B.!!$R1	630

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
367	1935	0.514691	CTTGCGAGGCAGTTGAGAAC	59.485	55.0	0.0	0.0	40.61	3.01	F

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability	Orientation
2064	8614	0.913934	TGAGGTGCTGGGGCTGATTA	60.914	55.0	0.0	0.0	39.59	1.75	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
67	68	6.510879	ACGTATATATCCATGTGTGATCGT	57.489	37.500	0.00	0.00	0.00	3.73
73	74	8.932945	ATATATCCATGTGTGATCGTTGATAC	57.067	34.615	0.00	0.00	0.00	2.24
121	122	5.047306	TCACATAAGACGAGGACACAGAAAT	60.047	40.000	0.00	0.00	0.00	2.17
122	123	5.639506	CACATAAGACGAGGACACAGAAATT	59.360	40.000	0.00	0.00	0.00	1.82
123	124	6.147821	CACATAAGACGAGGACACAGAAATTT	59.852	38.462	0.00	0.00	0.00	1.82
124	125	7.330946	CACATAAGACGAGGACACAGAAATTTA	59.669	37.037	0.00	0.00	0.00	1.40
125	126	7.876068	ACATAAGACGAGGACACAGAAATTTAA	59.124	33.333	0.00	0.00	0.00	1.52
126	127	8.883731	CATAAGACGAGGACACAGAAATTTAAT	58.116	33.333	0.00	0.00	0.00	1.40
128	129	7.829378	AGACGAGGACACAGAAATTTAATAC	57.171	36.000	0.00	0.00	0.00	1.89
129	130	7.612677	AGACGAGGACACAGAAATTTAATACT	58.387	34.615	0.00	0.00	0.00	2.12
130	131	8.746530	AGACGAGGACACAGAAATTTAATACTA	58.253	33.333	0.00	0.00	0.00	1.82
131	132	8.928270	ACGAGGACACAGAAATTTAATACTAG	57.072	34.615	0.00	0.00	0.00	2.57
132	133	8.529476	ACGAGGACACAGAAATTTAATACTAGT	58.471	33.333	0.00	0.00	0.00	2.57
237	238	6.126409	ACCTTGACCTTGTCTTTTCATAACA	58.874	36.000	0.00	0.00	33.15	2.41
240	241	8.454106	CCTTGACCTTGTCTTTTCATAACATAG	58.546	37.037	0.00	0.00	33.15	2.23
244	245	8.779354	ACCTTGTCTTTTCATAACATAGAGAC	57.221	34.615	0.00	0.00	34.24	3.36
245	246	7.545965	ACCTTGTCTTTTCATAACATAGAGACG	59.454	37.037	0.00	0.00	35.90	4.18
246	247	7.010552	CCTTGTCTTTTCATAACATAGAGACGG	59.989	40.741	0.00	0.00	35.90	4.79
247	248	7.165460	TGTCTTTTCATAACATAGAGACGGA	57.835	36.000	0.00	0.00	35.90	4.69
248	249	7.258441	TGTCTTTTCATAACATAGAGACGGAG	58.742	38.462	0.00	0.00	35.90	4.63
250	251	7.974501	GTCTTTTCATAACATAGAGACGGAGAA	59.025	37.037	0.00	0.00	0.00	2.87
275	276	5.529581	AAAGTGGGTTTGAACATCGAATT	57.470	34.783	0.00	0.00	0.00	2.17
276	277	5.529581	AAGTGGGTTTGAACATCGAATTT	57.470	34.783	0.00	0.00	0.00	1.82
307	324	7.530861	GGCTGACGAACGATATTGATTAATTTC	59.469	37.037	0.14	0.00	0.00	2.17
332	1900	8.660373	TCGTAAAAGCTACTACTAGTAACTGAC	58.340	37.037	3.76	0.62	28.46	3.51
367	1935	0.514691	CTTGCGAGGCAGTTGAGAAC	59.485	55.000	0.00	0.00	40.61	3.01
383	1951	4.911390	TGAGAACCTGATTTTTCTCTCCC	58.089	43.478	11.52	0.00	45.45	4.30
388	1956	3.075134	ACCTGATTTTTCTCTCCCTTGCT	59.925	43.478	0.00	0.00	0.00	3.91
389	1957	4.289672	ACCTGATTTTTCTCTCCCTTGCTA	59.710	41.667	0.00	0.00	0.00	3.49
390	1958	4.880696	CCTGATTTTTCTCTCCCTTGCTAG	59.119	45.833	0.00	0.00	0.00	3.42
391	1959	5.495640	CTGATTTTTCTCTCCCTTGCTAGT	58.504	41.667	0.00	0.00	0.00	2.57
393	1961	7.016153	TGATTTTTCTCTCCCTTGCTAGTAA	57.984	36.000	0.00	0.00	0.00	2.24
394	1962	7.633789	TGATTTTTCTCTCCCTTGCTAGTAAT	58.366	34.615	0.00	0.00	0.00	1.89
395	1963	8.109634	TGATTTTTCTCTCCCTTGCTAGTAATT	58.890	33.333	0.00	0.00	0.00	1.40
396	1964	9.614792	GATTTTTCTCTCCCTTGCTAGTAATTA	57.385	33.333	0.00	0.00	0.00	1.40
397	1965	9.975218	ATTTTTCTCTCCCTTGCTAGTAATTAA	57.025	29.630	0.00	0.00	0.00	1.40
398	1966	9.975218	TTTTTCTCTCCCTTGCTAGTAATTAAT	57.025	29.630	0.00	0.00	0.00	1.40
399	1967	9.975218	TTTTCTCTCCCTTGCTAGTAATTAATT	57.025	29.630	5.89	5.89	0.00	1.40
445	3489	2.327002	CTATGCCATGCCGTGCACAC	62.327	60.000	18.64	8.87	43.04	3.82
455	3499	2.124320	GTGCACACCACACCCAGT	60.124	61.111	13.17	0.00	44.06	4.00
561	5603	5.882000	CGCCATCTCATATCCATTAATCCAA	59.118	40.000	0.00	0.00	0.00	3.53
575	5619	7.560991	TCCATTAATCCAAGTGCTGTCATTAAT	59.439	33.333	0.00	0.00	33.16	1.40
576	5620	7.650504	CCATTAATCCAAGTGCTGTCATTAATG	59.349	37.037	9.29	9.29	40.79	1.90
577	5621	4.644103	ATCCAAGTGCTGTCATTAATGC	57.356	40.909	10.76	6.74	0.00	3.56
578	5622	3.689347	TCCAAGTGCTGTCATTAATGCT	58.311	40.909	10.76	0.00	0.00	3.79
579	5623	3.441222	TCCAAGTGCTGTCATTAATGCTG	59.559	43.478	10.76	10.50	0.00	4.41
580	5624	3.428452	CCAAGTGCTGTCATTAATGCTGG	60.428	47.826	10.76	5.25	0.00	4.85
581	5625	2.372264	AGTGCTGTCATTAATGCTGGG	58.628	47.619	10.76	2.54	0.00	4.45
582	5626	2.094675	GTGCTGTCATTAATGCTGGGT	58.905	47.619	10.76	0.00	0.00	4.51
583	5627	2.493278	GTGCTGTCATTAATGCTGGGTT	59.507	45.455	10.76	0.00	0.00	4.11
589	5633	4.165779	GTCATTAATGCTGGGTTGTTTCG	58.834	43.478	10.76	0.00	0.00	3.46
590	5634	3.823873	TCATTAATGCTGGGTTGTTTCGT	59.176	39.130	10.76	0.00	0.00	3.85
616	5660	0.899717	TGGGAGCATTTGACCCTTGC	60.900	55.000	0.00	0.00	43.59	4.01
634	5678	6.606796	ACCCTTGCACATAAAACATGATATCA	59.393	34.615	8.10	8.10	0.00	2.15
947	6037	1.289160	AGCTCCCATTTCAGCTGGTA	58.711	50.000	15.13	2.15	44.58	3.25
1122	6232	3.430497	TCCTAGGAGGAGGCGGCT	61.430	66.667	13.09	13.09	40.06	5.52
1169	6279	2.038837	GTGACGGGCTGCTAAACCC	61.039	63.158	0.00	0.00	43.25	4.11
1256	6393	2.584143	GGCGTTCGGGATGTACGG	60.584	66.667	0.00	0.00	41.13	4.02
1278	6418	0.038618	CGTCATCCACGGAAGACACA	60.039	55.000	18.61	0.00	45.46	3.72
1290	6430	2.413239	GGAAGACACAACGACGACGATA	60.413	50.000	15.32	0.00	42.66	2.92
1454	6608	4.217334	GGCATGATCATCGACTCTCTTCTA	59.783	45.833	4.86	0.00	0.00	2.10
1524	6682	7.599998	TGATCACATATGTATGTACAGTCATGC	59.400	37.037	19.29	1.57	44.57	4.06
1540	6698	6.093909	ACAGTCATGCGTTCATTCATTCATTA	59.906	34.615	0.00	0.00	0.00	1.90
1554	6712	4.338118	TCATTCATTATTTTGCCCGGAGAC	59.662	41.667	0.73	0.00	0.00	3.36
1566	6724	1.165284	CCGGAGACCGCTAGTAGGAC	61.165	65.000	12.38	6.99	46.86	3.85
1594	6753	6.207614	TGTTATAGTAGTAGCTGCCAGATGAG	59.792	42.308	0.00	0.00	0.00	2.90
1630	6789	5.415701	TGTGCAATCTCCTTCAAATAGGTTC	59.584	40.000	0.00	0.00	36.63	3.62
1632	6791	6.823689	GTGCAATCTCCTTCAAATAGGTTCTA	59.176	38.462	0.00	0.00	36.63	2.10
1688	8219	3.726557	TCAGCATCCAAACCTCTGATT	57.273	42.857	0.00	0.00	0.00	2.57
1709	8240	3.955543	AAATGACGGCCGGGGCAAT	62.956	57.895	31.76	14.66	44.11	3.56
1764	8307	9.286170	GGAATAAGAAGAAGAAAACACCTAGTT	57.714	33.333	0.00	0.00	43.89	2.24
1770	8313	5.193679	AGAAGAAAACACCTAGTTGTTGCT	58.806	37.500	6.41	4.89	41.19	3.91
1773	8316	4.096382	AGAAAACACCTAGTTGTTGCTGTG	59.904	41.667	6.41	0.00	41.19	3.66
1815	8358	2.655364	CGACGCGCTGTATCCAGG	60.655	66.667	5.73	0.00	39.22	4.45
1840	8383	1.278413	CATCCATCATGAGGCCGAGAT	59.722	52.381	0.73	0.00	33.80	2.75
1959	8506	7.760794	TCAATTACCATCTTATTACGTGTCGTT	59.239	33.333	0.00	0.00	41.54	3.85
1984	8531	1.126488	AGTCCATGACATCTCCGCAT	58.874	50.000	0.00	0.00	34.60	4.73
1995	8542	3.257393	CATCTCCGCATAGATAAGCCAC	58.743	50.000	0.00	0.00	34.40	5.01
2094	8645	1.368850	GCACCTCACGAACAAACGC	60.369	57.895	0.00	0.00	36.70	4.84
2312	8864	2.300967	GGGGTGGCAGATGACTGGA	61.301	63.158	0.00	0.00	43.62	3.86
2346	8898	0.232303	GTCGTGCTCACCGAAAACTG	59.768	55.000	0.00	0.00	35.89	3.16

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
67	68	5.585047	TGAGATTCTCTCGTTCTCGTATCAA	59.415	40.000	14.54	0.00	46.25	2.57
72	73	3.075148	TGTGAGATTCTCTCGTTCTCGT	58.925	45.455	14.54	0.00	46.25	4.18
73	74	3.748868	TGTGAGATTCTCTCGTTCTCG	57.251	47.619	14.54	0.00	46.25	4.04
126	127	9.013229	TGTCCTTACGAAAGAAACATACTAGTA	57.987	33.333	4.77	4.77	34.37	1.82
127	128	7.811713	GTGTCCTTACGAAAGAAACATACTAGT	59.188	37.037	0.00	0.00	33.56	2.57
128	129	7.008086	CGTGTCCTTACGAAAGAAACATACTAG	59.992	40.741	0.00	0.00	46.46	2.57
129	130	6.803320	CGTGTCCTTACGAAAGAAACATACTA	59.197	38.462	0.00	0.00	46.46	1.82
130	131	5.632347	CGTGTCCTTACGAAAGAAACATACT	59.368	40.000	0.00	0.00	46.46	2.12
131	132	5.164022	CCGTGTCCTTACGAAAGAAACATAC	60.164	44.000	0.00	0.00	46.46	2.39
132	133	4.925054	CCGTGTCCTTACGAAAGAAACATA	59.075	41.667	0.00	0.00	46.46	2.29
133	134	3.744426	CCGTGTCCTTACGAAAGAAACAT	59.256	43.478	0.00	0.00	46.46	2.71
134	135	3.125316	CCGTGTCCTTACGAAAGAAACA	58.875	45.455	0.00	0.00	46.46	2.83
135	136	3.383761	TCCGTGTCCTTACGAAAGAAAC	58.616	45.455	0.00	0.00	46.46	2.78
136	137	3.731652	TCCGTGTCCTTACGAAAGAAA	57.268	42.857	0.00	0.00	46.46	2.52
137	138	3.731652	TTCCGTGTCCTTACGAAAGAA	57.268	42.857	0.00	0.00	46.46	2.52
138	139	3.731652	TTTCCGTGTCCTTACGAAAGA	57.268	42.857	0.00	0.00	46.46	2.52
139	140	5.406175	TGTTATTTCCGTGTCCTTACGAAAG	59.594	40.000	0.00	0.00	46.46	2.62
140	141	5.177327	GTGTTATTTCCGTGTCCTTACGAAA	59.823	40.000	0.00	0.00	46.46	3.46
141	142	4.685628	GTGTTATTTCCGTGTCCTTACGAA	59.314	41.667	0.00	0.00	46.46	3.85
142	143	4.236935	GTGTTATTTCCGTGTCCTTACGA	58.763	43.478	0.00	0.00	46.46	3.43
143	144	3.368843	GGTGTTATTTCCGTGTCCTTACG	59.631	47.826	0.00	0.00	43.35	3.18
144	145	4.317488	TGGTGTTATTTCCGTGTCCTTAC	58.683	43.478	0.00	0.00	0.00	2.34
237	238	4.322801	CCCACTTTGTTTCTCCGTCTCTAT	60.323	45.833	0.00	0.00	0.00	1.98
240	241	2.143925	CCCACTTTGTTTCTCCGTCTC	58.856	52.381	0.00	0.00	0.00	3.36
244	245	2.685897	TCAAACCCACTTTGTTTCTCCG	59.314	45.455	0.00	0.00	40.35	4.63
245	246	4.081917	TGTTCAAACCCACTTTGTTTCTCC	60.082	41.667	0.00	0.00	40.35	3.71
246	247	5.066968	TGTTCAAACCCACTTTGTTTCTC	57.933	39.130	0.00	0.00	40.35	2.87
247	248	5.660460	GATGTTCAAACCCACTTTGTTTCT	58.340	37.500	0.00	0.00	40.35	2.52
248	249	4.502645	CGATGTTCAAACCCACTTTGTTTC	59.497	41.667	0.00	0.00	40.35	2.78
250	251	3.697045	TCGATGTTCAAACCCACTTTGTT	59.303	39.130	0.00	0.00	40.35	2.83
275	276	2.684001	ATCGTTCGTCAGCCCATAAA	57.316	45.000	0.00	0.00	0.00	1.40
276	277	4.055360	CAATATCGTTCGTCAGCCCATAA	58.945	43.478	0.00	0.00	0.00	1.90
307	324	8.663911	AGTCAGTTACTAGTAGTAGCTTTTACG	58.336	37.037	20.49	11.41	38.82	3.18
324	1892	7.432059	AGAAAACTACCACACTAGTCAGTTAC	58.568	38.462	0.00	0.00	30.46	2.50
332	1900	4.647291	CGCAAGAAAACTACCACACTAG	57.353	45.455	0.00	0.00	43.02	2.57
367	1935	3.694926	AGCAAGGGAGAGAAAAATCAGG	58.305	45.455	0.00	0.00	0.00	3.86
561	5603	2.291153	ACCCAGCATTAATGACAGCACT	60.291	45.455	19.73	2.53	0.00	4.40
575	5619	0.453793	CAACACGAAACAACCCAGCA	59.546	50.000	0.00	0.00	0.00	4.41
576	5620	0.454196	ACAACACGAAACAACCCAGC	59.546	50.000	0.00	0.00	0.00	4.85
577	5621	3.304391	CCATACAACACGAAACAACCCAG	60.304	47.826	0.00	0.00	0.00	4.45
578	5622	2.619177	CCATACAACACGAAACAACCCA	59.381	45.455	0.00	0.00	0.00	4.51
579	5623	2.030628	CCCATACAACACGAAACAACCC	60.031	50.000	0.00	0.00	0.00	4.11
580	5624	2.879646	TCCCATACAACACGAAACAACC	59.120	45.455	0.00	0.00	0.00	3.77
581	5625	3.608474	GCTCCCATACAACACGAAACAAC	60.608	47.826	0.00	0.00	0.00	3.32
582	5626	2.550606	GCTCCCATACAACACGAAACAA	59.449	45.455	0.00	0.00	0.00	2.83
583	5627	2.147958	GCTCCCATACAACACGAAACA	58.852	47.619	0.00	0.00	0.00	2.83
589	5633	3.119495	GGTCAAATGCTCCCATACAACAC	60.119	47.826	0.00	0.00	0.00	3.32
590	5634	3.088532	GGTCAAATGCTCCCATACAACA	58.911	45.455	0.00	0.00	0.00	3.33
634	5678	7.615365	TCCTTGAGTCAATTAATTAAGCACCAT	59.385	33.333	5.91	0.00	0.00	3.55
947	6037	6.440328	ACCTTATCACCAAATTTGCAGGTATT	59.560	34.615	12.92	0.06	33.49	1.89
1108	6218	2.759973	CACAGCCGCCTCCTCCTA	60.760	66.667	0.00	0.00	0.00	2.94
1149	6259	1.302192	GTTTAGCAGCCCGTCACCA	60.302	57.895	0.00	0.00	0.00	4.17
1169	6279	2.223479	GCTAGCCTCGAGAACTCTTCTG	60.223	54.545	15.71	0.00	40.87	3.02
1278	6418	2.111756	GGCGTAATTATCGTCGTCGTT	58.888	47.619	1.33	0.00	38.33	3.85
1290	6430	4.157120	AGGCTCGCCGGCGTAATT	62.157	61.111	44.16	27.00	44.22	1.40
1495	6651	9.480053	TGACTGTACATACATATGTGATCAATG	57.520	33.333	18.81	14.95	45.77	2.82
1498	6654	7.599998	GCATGACTGTACATACATATGTGATCA	59.400	37.037	18.81	9.78	45.77	2.92
1524	6682	6.291743	CGGGCAAAATAATGAATGAATGAACG	60.292	38.462	0.00	0.00	0.00	3.95
1554	6712	8.040132	ACTACTATAACATAGTCCTACTAGCGG	58.960	40.741	2.19	0.00	33.66	5.52
1566	6724	7.689446	TCTGGCAGCTACTACTATAACATAG	57.311	40.000	10.34	0.00	0.00	2.23
1594	6753	8.789825	AAGGAGATTGCACATATATCATCTTC	57.210	34.615	0.00	0.00	0.00	2.87
1630	6789	9.712359	GTTGTTTTATTTATAAAGCGGGACTAG	57.288	33.333	3.94	0.00	36.59	2.57
1632	6791	8.241367	CAGTTGTTTTATTTATAAAGCGGGACT	58.759	33.333	3.94	0.17	36.59	3.85
1688	8219	2.047443	GCCCCGGCCGTCATTTTTA	61.047	57.895	26.12	0.00	34.56	1.52
1770	8313	2.501223	CTTCGTAGGGCCGCTTCACA	62.501	60.000	0.00	0.00	0.00	3.58
1773	8316	1.518792	GTCTTCGTAGGGCCGCTTC	60.519	63.158	0.00	0.00	0.00	3.86
1815	8358	1.236628	GCCTCATGATGGATGTGCTC	58.763	55.000	13.48	0.00	33.29	4.26
1840	8383	1.447140	GGCAGCGTAACCGTGATCA	60.447	57.895	0.00	0.00	36.15	2.92
1938	8485	6.193514	TGAACGACACGTAATAAGATGGTA	57.806	37.500	0.00	0.00	39.99	3.25
1959	8506	4.740634	GCGGAGATGTCATGGACTTTATGA	60.741	45.833	0.00	0.00	33.15	2.15
1995	8542	5.277490	CCATACAAGACATCGCCACTTATTG	60.277	44.000	0.00	0.00	0.00	1.90
2064	8614	0.913934	TGAGGTGCTGGGGCTGATTA	60.914	55.000	0.00	0.00	39.59	1.75
2094	8645	4.087892	CAGTGCGGGTCCTCTGGG	62.088	72.222	0.00	0.00	0.00	4.45
2110	8661	2.447408	TCCTATTCTCCTGTACGGCA	57.553	50.000	0.00	0.00	0.00	5.69
2290	8842	0.915872	AGTCATCTGCCACCCCATGA	60.916	55.000	0.00	0.00	0.00	3.07
2312	8864	4.199310	AGCACGACATACCATGCTTTATT	58.801	39.130	0.00	0.00	46.06	1.40

Based at the University of Bristol with support from BBSRC.

AutoCloner maintained by Alex Coulton.