AutoCloner

Multiple sequence alignment - TraesCS1D01G130600

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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	TraesCS1D01G130600	chr1D	100.000	3810	0	0	1	3810	144305173	144301364	0.000000e+00	7036
1	TraesCS1D01G130600	chr1B	96.434	2412	75	8	785	3189	193636545	193634138	0.000000e+00	3967
2	TraesCS1D01G130600	chr1B	91.627	633	36	10	1	624	193638430	193637806	0.000000e+00	859
3	TraesCS1D01G130600	chr1B	89.157	249	21	4	289	535	423584107	423584351	4.780000e-79	305
4	TraesCS1D01G130600	chr1B	93.143	175	9	2	613	786	193636975	193636803	1.760000e-63	254
5	TraesCS1D01G130600	chr2D	93.087	622	35	7	3196	3810	276935677	276936297	0.000000e+00	904
6	TraesCS1D01G130600	chr2D	92.038	628	43	6	3189	3810	285350089	285349463	0.000000e+00	876
7	TraesCS1D01G130600	chr2D	92.071	618	44	4	3196	3810	566485203	566485818	0.000000e+00	865
8	TraesCS1D01G130600	chr6D	91.943	633	41	9	3185	3810	446133047	446133676	0.000000e+00	878
9	TraesCS1D01G130600	chr6D	91.787	621	44	6	3196	3810	313021520	313020901	0.000000e+00	857
10	TraesCS1D01G130600	chr1A	89.915	704	27	11	616	1304	145198767	145199441	0.000000e+00	867
11	TraesCS1D01G130600	chr1A	93.846	390	14	5	2800	3179	145199991	145200380	2.550000e-161	579
12	TraesCS1D01G130600	chr1A	96.463	311	10	1	2399	2709	145199521	145199830	2.620000e-141	512
13	TraesCS1D01G130600	chr1A	91.720	157	12	1	61	216	145172310	145172466	2.300000e-52	217
14	TraesCS1D01G130600	chr7D	91.935	620	44	5	3196	3810	375299639	375299021	0.000000e+00	863
15	TraesCS1D01G130600	chr7D	91.547	627	43	8	3193	3810	616464833	616465458	0.000000e+00	856
16	TraesCS1D01G130600	chr6B	91.693	626	45	6	3189	3810	626809174	626809796	0.000000e+00	861
17	TraesCS1D01G130600	chr5D	91.256	629	49	5	3187	3810	547821657	547821030	0.000000e+00	852
18	TraesCS1D01G130600	chr6A	89.328	253	20	6	286	534	512837908	512838157	1.030000e-80	311
19	TraesCS1D01G130600	chr4A	89.286	252	22	3	289	538	97576504	97576256	1.030000e-80	311
20	TraesCS1D01G130600	chr4A	89.113	248	22	3	290	535	63717904	63718148	1.720000e-78	303
21	TraesCS1D01G130600	chr5A	88.889	252	20	6	289	538	71469218	71468973	1.720000e-78	303
22	TraesCS1D01G130600	chr2B	88.281	256	24	4	286	538	200861390	200861138	6.190000e-78	302
23	TraesCS1D01G130600	chr3A	88.235	255	24	4	286	538	672953171	672952921	2.220000e-77	300
24	TraesCS1D01G130600	chr2A	88.031	259	22	5	283	535	103816615	103816870	8.000000e-77	298

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	TraesCS1D01G130600	chr1D	144301364	144305173	3809	True	7036.000000	7036	100.000000	1	3810	1	chr1D.!!$R1	3809
1	TraesCS1D01G130600	chr1B	193634138	193638430	4292	True	1693.333333	3967	93.734667	1	3189	3	chr1B.!!$R1	3188
2	TraesCS1D01G130600	chr2D	276935677	276936297	620	False	904.000000	904	93.087000	3196	3810	1	chr2D.!!$F1	614
3	TraesCS1D01G130600	chr2D	285349463	285350089	626	True	876.000000	876	92.038000	3189	3810	1	chr2D.!!$R1	621
4	TraesCS1D01G130600	chr2D	566485203	566485818	615	False	865.000000	865	92.071000	3196	3810	1	chr2D.!!$F2	614
5	TraesCS1D01G130600	chr6D	446133047	446133676	629	False	878.000000	878	91.943000	3185	3810	1	chr6D.!!$F1	625
6	TraesCS1D01G130600	chr6D	313020901	313021520	619	True	857.000000	857	91.787000	3196	3810	1	chr6D.!!$R1	614
7	TraesCS1D01G130600	chr1A	145198767	145200380	1613	False	652.666667	867	93.408000	616	3179	3	chr1A.!!$F2	2563
8	TraesCS1D01G130600	chr7D	375299021	375299639	618	True	863.000000	863	91.935000	3196	3810	1	chr7D.!!$R1	614
9	TraesCS1D01G130600	chr7D	616464833	616465458	625	False	856.000000	856	91.547000	3193	3810	1	chr7D.!!$F1	617
10	TraesCS1D01G130600	chr6B	626809174	626809796	622	False	861.000000	861	91.693000	3189	3810	1	chr6B.!!$F1	621
11	TraesCS1D01G130600	chr5D	547821030	547821657	627	True	852.000000	852	91.256000	3187	3810	1	chr5D.!!$R1	623

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
694	1546	0.389391	AAGCATACCATCCGTCCTCG	59.611	55.0	0.0	0.0	0.00	4.63	F
2188	3315	0.320697	GTTCTTGCGGGACAGGTACT	59.679	55.0	0.0	0.0	43.88	2.73	F

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability	Orientation
2190	3317	0.520404	TCCGCTCGTGAACTACAGAC	59.480	55.0	0.00	0.0	0.00	3.51	R
3584	4846	0.036164	TTGCCGTGTACCTCTGCAAT	59.964	50.0	10.93	0.0	37.04	3.56	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
50	51	0.880441	TGGCATTGACCATGACGTTG	59.120	50.000	0.00	0.00	45.35	4.10
83	84	0.531657	TCATCCAATGGCCAAAAGCG	59.468	50.000	10.96	0.00	45.17	4.68
84	85	1.085501	CATCCAATGGCCAAAAGCGC	61.086	55.000	10.96	0.00	45.17	5.92
89	90	3.609214	ATGGCCAAAAGCGCGTTCG	62.609	57.895	10.96	0.00	45.17	3.95
194	196	6.830324	ACTCATAGGTGCAACAAATATCACAT	59.170	34.615	3.64	0.00	39.98	3.21
221	223	1.374560	TCGTTGTTTGTCACCACCAG	58.625	50.000	0.00	0.00	0.00	4.00
270	278	5.187967	ACTCTTGACTAATGATTTCGAGGGT	59.812	40.000	0.00	0.00	30.66	4.34
298	306	2.384433	GGAACCTTAGGCCCCTCCC	61.384	68.421	0.00	0.00	34.51	4.30
312	320	0.918983	CCTCCCAATGCTCCACCTTA	59.081	55.000	0.00	0.00	0.00	2.69
341	349	2.095212	GCTAAGGTTGCCAACTAAGCAC	60.095	50.000	18.04	0.00	40.69	4.40
355	363	5.186996	ACTAAGCACAAAGTTTGATGTGG	57.813	39.130	22.23	8.45	45.46	4.17
387	395	7.874252	AGTTAAGAAGGGAGAGAGTAGTATGA	58.126	38.462	0.00	0.00	0.00	2.15
393	401	4.667858	AGGGAGAGAGTAGTATGATGACCT	59.332	45.833	0.00	0.00	0.00	3.85
394	402	5.852807	AGGGAGAGAGTAGTATGATGACCTA	59.147	44.000	0.00	0.00	0.00	3.08
395	403	6.012858	AGGGAGAGAGTAGTATGATGACCTAG	60.013	46.154	0.00	0.00	0.00	3.02
400	408	8.282982	AGAGAGTAGTATGATGACCTAGGAAAA	58.717	37.037	17.98	0.00	0.00	2.29
425	435	1.475280	TGCTAAGCACGTGTACCTAGG	59.525	52.381	18.38	7.41	31.71	3.02
439	449	6.461927	CGTGTACCTAGGTGGAAGCATAATTA	60.462	42.308	25.33	0.00	39.71	1.40
440	450	6.704937	GTGTACCTAGGTGGAAGCATAATTAC	59.295	42.308	25.33	9.98	39.71	1.89
464	474	7.960793	ACGAGTCTACAACTAATTAAATGCAC	58.039	34.615	0.00	0.00	38.74	4.57
466	476	7.008901	CGAGTCTACAACTAATTAAATGCACGA	59.991	37.037	0.00	0.00	38.74	4.35
467	477	8.542497	AGTCTACAACTAATTAAATGCACGAA	57.458	30.769	0.00	0.00	36.07	3.85
468	478	8.656849	AGTCTACAACTAATTAAATGCACGAAG	58.343	33.333	0.00	0.00	36.07	3.79
469	479	7.425595	GTCTACAACTAATTAAATGCACGAAGC	59.574	37.037	0.00	0.00	45.96	3.86
470	480	6.254281	ACAACTAATTAAATGCACGAAGCT	57.746	33.333	0.00	0.00	45.94	3.74
471	481	6.677913	ACAACTAATTAAATGCACGAAGCTT	58.322	32.000	0.00	0.00	45.94	3.74
472	482	7.812648	ACAACTAATTAAATGCACGAAGCTTA	58.187	30.769	0.00	0.00	45.94	3.09
473	483	8.458843	ACAACTAATTAAATGCACGAAGCTTAT	58.541	29.630	0.00	0.00	45.94	1.73
514	524	4.982999	CATCTTTGCATTGGAGACTTGAG	58.017	43.478	0.00	0.00	0.00	3.02
588	598	1.804601	AGCCTAGGTACAAAACACGC	58.195	50.000	11.31	0.00	0.00	5.34
590	600	2.564062	AGCCTAGGTACAAAACACGCTA	59.436	45.455	11.31	0.00	0.00	4.26
594	604	3.096489	AGGTACAAAACACGCTAACGA	57.904	42.857	0.00	0.00	43.93	3.85
694	1546	0.389391	AAGCATACCATCCGTCCTCG	59.611	55.000	0.00	0.00	0.00	4.63
751	1603	1.553706	TCTTGTACTCCCTCCGTTCC	58.446	55.000	0.00	0.00	0.00	3.62
758	1611	6.204852	TGTACTCCCTCCGTTCCTTATATA	57.795	41.667	0.00	0.00	0.00	0.86
1011	2138	8.218488	AGTACTAACTAATCCCATTCATTTCCC	58.782	37.037	0.00	0.00	32.84	3.97
1232	2359	3.573491	GGGCGTGGCGTATTCTGC	61.573	66.667	0.00	0.00	0.00	4.26
1333	2460	2.823147	CCTACTCCCTCGACGCGT	60.823	66.667	13.85	13.85	0.00	6.01
1335	2462	1.062206	CTACTCCCTCGACGCGTTC	59.938	63.158	15.53	5.86	0.00	3.95
1348	2475	1.493311	GCGTTCTTCAAGACTGCCG	59.507	57.895	0.00	0.00	0.00	5.69
1427	2554	3.838795	CGCGAGCCTTTTCGTCGG	61.839	66.667	0.00	0.00	42.38	4.79
1644	2771	2.511600	CGCCACCTCATTCGGACC	60.512	66.667	0.00	0.00	0.00	4.46
1764	2891	2.031163	GCACTGGAGGAGCGTGTT	59.969	61.111	0.00	0.00	0.00	3.32
2045	3172	1.813192	GGAGAGACTTCGGCCTGAG	59.187	63.158	0.00	0.12	0.00	3.35
2046	3173	1.140804	GAGAGACTTCGGCCTGAGC	59.859	63.158	0.00	0.00	38.76	4.26
2067	3194	4.697756	TTGCAGGAACGGGGCTCG	62.698	66.667	4.58	4.58	45.88	5.03
2188	3315	0.320697	GTTCTTGCGGGACAGGTACT	59.679	55.000	0.00	0.00	43.88	2.73
2190	3317	0.320374	TCTTGCGGGACAGGTACTTG	59.680	55.000	2.98	2.98	34.60	3.16
2216	3343	0.442699	GTTCACGAGCGGATGGAAAC	59.557	55.000	0.00	0.00	0.00	2.78
2352	3479	1.773496	CCTGTTCTTCGCGTTCGAC	59.227	57.895	5.77	2.15	45.43	4.20
2353	3480	1.615107	CCTGTTCTTCGCGTTCGACC	61.615	60.000	5.77	0.00	45.43	4.79
2391	3518	3.011517	ATCTTCCAGGCACGGGCT	61.012	61.111	10.74	1.05	45.49	5.19
2430	3557	4.988029	AGGTCTATATGGAGAGCGTAAGT	58.012	43.478	0.00	0.00	46.39	2.24
2599	3726	1.227527	TGGAGACACCACGTTGCTG	60.228	57.895	0.00	0.00	44.64	4.41
2617	3744	1.142465	CTGTTCTAGGCCATGGCAGAT	59.858	52.381	36.56	23.76	44.11	2.90
2662	3789	2.513204	CGGCAGCTGGATGGACAG	60.513	66.667	17.12	0.00	41.41	3.51
2767	4006	8.840200	ATTTATCTACCAGGGTATCGATGTAT	57.160	34.615	8.54	0.00	0.00	2.29
2781	4020	4.429108	TCGATGTATTGAGATGTCGCAAA	58.571	39.130	3.39	0.00	39.01	3.68
2798	4037	6.526325	TGTCGCAAAATGAGCATAATACAAAC	59.474	34.615	0.00	0.00	0.00	2.93
2820	4059	1.720852	GCATTTTGGTTCACGATGCAC	59.279	47.619	0.00	0.00	41.92	4.57
2866	4105	4.222366	TGCAGCATGGTCCAAATGAAATTA	59.778	37.500	0.00	0.00	32.29	1.40
3000	4239	2.123077	ATGGGGCGGAGAGAGAGG	60.123	66.667	0.00	0.00	0.00	3.69
3041	4288	2.436417	GCGCACATGAACCCCATATAT	58.564	47.619	0.30	0.00	33.31	0.86
3053	4300	3.851976	ACCCCATATATGCAGGCAGAATA	59.148	43.478	16.19	1.20	0.00	1.75
3071	4319	6.256757	GCAGAATAGATCTCAAGTAAAGCGTT	59.743	38.462	0.00	0.00	35.73	4.84
3162	4411	5.751509	GCCAACCGGGATATTTGATTTTTAC	59.248	40.000	6.32	0.00	40.01	2.01
3179	4428	5.786264	TTTTACGTGAAGGAGAGAGAAGT	57.214	39.130	0.00	0.00	0.00	3.01
3253	4502	2.125147	CCACACGCATGGATCCGT	60.125	61.111	7.39	3.27	43.02	4.69
3309	4558	2.203728	TGCCACGTAGGACTGGGT	60.204	61.111	8.04	0.00	41.22	4.51
3312	4561	1.823169	GCCACGTAGGACTGGGTTGA	61.823	60.000	8.04	0.00	41.22	3.18
3325	4574	0.975887	GGGTTGATGTGTGGGCATTT	59.024	50.000	0.00	0.00	0.00	2.32
3400	4653	4.555709	AGTTCGCCCACACGCCAA	62.556	61.111	0.00	0.00	0.00	4.52
3438	4694	1.616159	GGCTGGTGTGTGGTATTTGT	58.384	50.000	0.00	0.00	0.00	2.83
3473	4730	2.701780	CCGTCTCCTCTCCCACACG	61.702	68.421	0.00	0.00	0.00	4.49
3485	4742	4.034258	CACACGCAAGCTGCCAGG	62.034	66.667	0.00	0.00	41.12	4.45
3500	4757	1.363443	CAGGTGCCATGCGTTTTGT	59.637	52.632	0.00	0.00	0.00	2.83
3584	4846	5.583061	CCGAACAAGTAAGTTGCCATATGTA	59.417	40.000	1.24	0.00	40.15	2.29
3591	4853	6.356556	AGTAAGTTGCCATATGTATTGCAGA	58.643	36.000	1.24	0.00	36.01	4.26
3625	4888	1.003118	TGCCCTAGTGTGCTTGTAAGG	59.997	52.381	0.00	0.00	0.00	2.69
3641	4904	4.579869	TGTAAGGAGATGGCAACTCTTTC	58.420	43.478	22.17	15.14	35.77	2.62
3686	4950	3.119291	CCATGTCTCTTTGTAGCGCTAG	58.881	50.000	19.48	8.15	0.00	3.42
3689	4953	2.817844	TGTCTCTTTGTAGCGCTAGACA	59.182	45.455	26.60	26.60	40.60	3.41
3731	4995	4.665833	GGTGGCAACTCCTAAAGTTTTT	57.334	40.909	0.00	0.00	46.26	1.94

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
50	51	1.813178	TGGATGACGAGCTCGGATATC	59.187	52.381	36.93	31.13	44.95	1.63
89	90	1.062587	CGCATTTTCACATCTCGTCCC	59.937	52.381	0.00	0.00	0.00	4.46
90	91	1.062587	CCGCATTTTCACATCTCGTCC	59.937	52.381	0.00	0.00	0.00	4.79
114	115	9.962783	TTTCTTACGAAATCTATAACTCCTAGC	57.037	33.333	0.00	0.00	34.35	3.42
127	129	5.890424	TGGGTGGATTTTCTTACGAAATC	57.110	39.130	0.00	0.00	38.81	2.17
194	196	4.395231	TGGTGACAAACAACGAATTGTACA	59.605	37.500	0.00	0.00	42.32	2.90
240	242	9.521503	TCGAAATCATTAGTCAAGAGTTATCAG	57.478	33.333	0.00	0.00	0.00	2.90
257	265	1.819632	GCGCCACCCTCGAAATCAT	60.820	57.895	0.00	0.00	0.00	2.45
270	278	2.463589	CTAAGGTTCCACCAGCGCCA	62.464	60.000	2.29	0.00	41.95	5.69
291	299	2.276740	GTGGAGCATTGGGAGGGG	59.723	66.667	0.00	0.00	0.00	4.79
298	306	4.261322	GCACATGTATAAGGTGGAGCATTG	60.261	45.833	0.00	0.00	33.25	2.82
312	320	3.364460	TGGCAACCTTAGCACATGTAT	57.636	42.857	0.00	0.00	0.00	2.29
329	337	4.040445	TCAAACTTTGTGCTTAGTTGGC	57.960	40.909	1.44	0.00	34.95	4.52
341	349	3.034721	AGCATGCCACATCAAACTTTG	57.965	42.857	15.66	0.00	0.00	2.77
355	363	4.100189	TCTCTCCCTTCTTAACTAGCATGC	59.900	45.833	10.51	10.51	0.00	4.06
407	417	2.159282	CCACCTAGGTACACGTGCTTAG	60.159	54.545	15.80	10.14	0.00	2.18
425	435	6.270815	TGTAGACTCGTAATTATGCTTCCAC	58.729	40.000	0.00	0.00	0.00	4.02
439	449	7.201410	CGTGCATTTAATTAGTTGTAGACTCGT	60.201	37.037	0.00	0.00	39.86	4.18
440	450	7.008901	TCGTGCATTTAATTAGTTGTAGACTCG	59.991	37.037	0.00	0.00	39.86	4.18
469	479	5.064707	TGCTAAGCTTTTCGGTGCTAATAAG	59.935	40.000	3.20	0.00	38.75	1.73
470	480	4.938832	TGCTAAGCTTTTCGGTGCTAATAA	59.061	37.500	3.20	0.00	38.75	1.40
471	481	4.509616	TGCTAAGCTTTTCGGTGCTAATA	58.490	39.130	3.20	0.00	38.75	0.98
472	482	3.343617	TGCTAAGCTTTTCGGTGCTAAT	58.656	40.909	3.20	0.00	38.75	1.73
473	483	2.773487	TGCTAAGCTTTTCGGTGCTAA	58.227	42.857	3.20	0.00	38.75	3.09
538	548	1.141858	CTAAGACCTCCTCCAATGCCC	59.858	57.143	0.00	0.00	0.00	5.36
574	584	2.796593	GTCGTTAGCGTGTTTTGTACCT	59.203	45.455	0.00	0.00	39.49	3.08
588	598	0.242825	TGGAACTCAGCCGTCGTTAG	59.757	55.000	0.00	0.00	0.00	2.34
590	600	0.034896	ATTGGAACTCAGCCGTCGTT	59.965	50.000	0.00	0.00	0.00	3.85
594	604	0.034896	AACGATTGGAACTCAGCCGT	59.965	50.000	0.00	0.00	37.02	5.68
758	1611	5.970640	TCCCCTCTATTCACAAATACTCCTT	59.029	40.000	0.00	0.00	0.00	3.36
1011	2138	5.245977	AGAAGAGAAGAGAACAGAGGGAAAG	59.754	44.000	0.00	0.00	0.00	2.62
1232	2359	3.254654	CGTACACATCGCTGGCCG	61.255	66.667	0.00	0.00	38.61	6.13
1333	2460	0.179032	TTGGCGGCAGTCTTGAAGAA	60.179	50.000	12.87	0.00	0.00	2.52
1335	2462	0.603707	TCTTGGCGGCAGTCTTGAAG	60.604	55.000	12.87	4.88	0.00	3.02
1348	2475	3.804193	CGCGCCCTTCTTCTTGGC	61.804	66.667	0.00	0.00	41.85	4.52
1427	2554	3.053896	CCTTCACCGCGGAAACCC	61.054	66.667	35.90	0.00	0.00	4.11
1624	2751	2.436646	CCGAATGAGGTGGCGCTT	60.437	61.111	7.64	0.00	0.00	4.68
1644	2771	2.368105	GCGCGCCGTGATCTCATAG	61.368	63.158	23.24	0.00	0.00	2.23
1784	2911	4.477975	GGAGGTCGTCGAGCGTGG	62.478	72.222	17.95	0.00	42.13	4.94
1791	2918	1.507174	GGAGAAGTGGAGGTCGTCG	59.493	63.158	0.00	0.00	0.00	5.12
1800	2927	1.376037	GTTGAGGCCGGAGAAGTGG	60.376	63.158	5.05	0.00	0.00	4.00
2040	3167	0.529378	GTTCCTGCAAATGGCTCAGG	59.471	55.000	1.29	1.29	46.60	3.86
2045	3172	2.573340	CCCGTTCCTGCAAATGGC	59.427	61.111	4.11	0.00	45.13	4.40
2046	3173	3.005540	GCCCCGTTCCTGCAAATGG	62.006	63.158	2.78	2.78	35.44	3.16
2075	3202	3.854459	CTTCGAAGAAGCGGCGCC	61.854	66.667	30.40	19.07	45.90	6.53
2100	3227	2.091112	CGGCACTGTCTTGAGCTCG	61.091	63.158	9.64	0.00	0.00	5.03
2158	3285	2.174349	CAAGAACTTGCCGAGCGC	59.826	61.111	0.00	0.00	33.45	5.92
2188	3315	1.335597	CCGCTCGTGAACTACAGACAA	60.336	52.381	0.00	0.00	0.00	3.18
2190	3317	0.520404	TCCGCTCGTGAACTACAGAC	59.480	55.000	0.00	0.00	0.00	3.51
2216	3343	3.488090	GCCTTCCGAAGAACGCCG	61.488	66.667	9.87	0.00	41.07	6.46
2323	3450	2.094894	CGAAGAACAGGCAATGCAGTAG	59.905	50.000	7.79	0.00	0.00	2.57
2430	3557	1.884075	CGTCTTCCCCGTCCATGTCA	61.884	60.000	0.00	0.00	0.00	3.58
2599	3726	3.710209	ATATCTGCCATGGCCTAGAAC	57.290	47.619	33.44	5.22	41.09	3.01
2617	3744	3.872603	ATGCCGCCGCCTGGAATA	61.873	61.111	0.00	0.00	37.49	1.75
2662	3789	9.569122	AACTAATAACATACCCACATACATTCC	57.431	33.333	0.00	0.00	0.00	3.01
2746	3985	6.253758	TCAATACATCGATACCCTGGTAGAT	58.746	40.000	0.00	0.00	33.77	1.98
2767	4006	2.813172	TGCTCATTTTGCGACATCTCAA	59.187	40.909	0.00	0.00	0.00	3.02
2781	4020	5.772825	ATGCGGTTTGTATTATGCTCATT	57.227	34.783	0.00	0.00	0.00	2.57
2798	4037	1.616620	CATCGTGAACCAAAATGCGG	58.383	50.000	0.00	0.00	0.00	5.69
2919	4158	5.163854	CGACAAAGATCAAGTGGAATGTACC	60.164	44.000	0.00	0.00	0.00	3.34
3000	4239	0.753848	CTCCCTCCCGTTCTCTCTCC	60.754	65.000	0.00	0.00	0.00	3.71
3041	4288	3.453717	ACTTGAGATCTATTCTGCCTGCA	59.546	43.478	0.00	0.00	33.74	4.41
3053	4300	3.003480	GCCAACGCTTTACTTGAGATCT	58.997	45.455	0.00	0.00	0.00	2.75
3105	4353	2.151202	CGGCTGATTGTACACCTTGTT	58.849	47.619	0.00	0.00	0.00	2.83
3144	4393	6.910433	CCTTCACGTAAAAATCAAATATCCCG	59.090	38.462	0.00	0.00	0.00	5.14
3162	4411	2.163412	CTCCACTTCTCTCTCCTTCACG	59.837	54.545	0.00	0.00	0.00	4.35
3194	4443	2.983907	TGTGGACGTTAGTGTTTCCA	57.016	45.000	0.00	0.00	35.71	3.53
3253	4502	2.115911	GTGCACCCACAAACGGACA	61.116	57.895	5.22	0.00	41.67	4.02
3309	4558	3.130164	CCGAATAAATGCCCACACATCAA	59.870	43.478	0.00	0.00	0.00	2.57
3312	4561	2.687935	GACCGAATAAATGCCCACACAT	59.312	45.455	0.00	0.00	0.00	3.21
3367	4620	1.170290	AACTGCTAAACGCCCACACC	61.170	55.000	0.00	0.00	38.05	4.16
3400	4653	1.608590	CCCTTGTGCGTGAGTGAAAAT	59.391	47.619	0.00	0.00	0.00	1.82
3438	4694	4.451150	GGCGTGTGGGCGAGATGA	62.451	66.667	0.00	0.00	0.00	2.92
3485	4742	1.001815	ACACTACAAAACGCATGGCAC	60.002	47.619	0.00	0.00	0.00	5.01
3567	4829	6.356556	TCTGCAATACATATGGCAACTTACT	58.643	36.000	7.80	0.00	41.77	2.24
3570	4832	4.581824	CCTCTGCAATACATATGGCAACTT	59.418	41.667	7.80	0.00	41.77	2.66
3584	4846	0.036164	TTGCCGTGTACCTCTGCAAT	59.964	50.000	10.93	0.00	37.04	3.56
3625	4888	5.106118	GGGTAAAAGAAAGAGTTGCCATCTC	60.106	44.000	0.00	0.00	0.00	2.75
3641	4904	5.276631	GCAAAACAACATGTTCGGGTAAAAG	60.277	40.000	8.48	0.00	40.14	2.27
3686	4950	1.884235	AACACTAGGCAGTTGCTGTC	58.116	50.000	3.88	0.00	41.70	3.51
3689	4953	3.195825	CCTACTAACACTAGGCAGTTGCT	59.804	47.826	3.88	0.00	41.70	3.91
3725	4989	7.951591	ACTACAGTTGCCATGATTTAAAAACT	58.048	30.769	0.00	0.00	0.00	2.66
3731	4995	6.943146	TGGTTTACTACAGTTGCCATGATTTA	59.057	34.615	0.00	0.00	0.00	1.40

Based at the University of Bristol with support from BBSRC.

AutoCloner maintained by Alex Coulton.