AutoCloner

Multiple sequence alignment - TraesCS7B01G154400

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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	TraesCS7B01G154400	chr7B	100.000	6635	0	0	1	6635	205717689	205724323	0.000000e+00	12253.0
1	TraesCS7B01G154400	chr7B	100.000	577	0	0	6783	7359	205724471	205725047	0.000000e+00	1066.0
2	TraesCS7B01G154400	chr7B	94.747	533	26	2	6783	7315	725972850	725973380	0.000000e+00	828.0
3	TraesCS7B01G154400	chr7B	95.019	261	12	1	6375	6635	725972552	725972811	6.870000e-110	409.0
4	TraesCS7B01G154400	chr7B	90.299	134	9	4	4313	4445	366050618	366050748	9.820000e-39	172.0
5	TraesCS7B01G154400	chr7B	97.872	47	1	0	7313	7359	725973467	725973513	1.700000e-11	82.4
6	TraesCS7B01G154400	chr7D	96.569	4692	104	23	1713	6374	234131599	234136263	0.000000e+00	7720.0
7	TraesCS7B01G154400	chr7D	98.605	1721	24	0	1	1721	234129507	234131227	0.000000e+00	3046.0
8	TraesCS7B01G154400	chr7D	80.899	89	14	3	4310	4397	311870393	311870479	4.760000e-07	67.6
9	TraesCS7B01G154400	chr7D	90.909	44	3	1	7316	7359	13900009	13899967	2.870000e-04	58.4
10	TraesCS7B01G154400	chr7D	89.362	47	4	1	7313	7359	604054854	604054899	2.870000e-04	58.4
11	TraesCS7B01G154400	chr7A	90.299	2443	159	37	214	2609	247065930	247068341	0.000000e+00	3127.0
12	TraesCS7B01G154400	chr7A	90.981	1652	106	16	2647	4271	247068453	247070088	0.000000e+00	2185.0
13	TraesCS7B01G154400	chr7A	91.993	1124	66	11	4442	5560	247070094	247071198	0.000000e+00	1555.0
14	TraesCS7B01G154400	chr7A	89.043	575	36	12	5811	6375	247071648	247072205	0.000000e+00	688.0
15	TraesCS7B01G154400	chr7A	92.453	265	16	3	5574	5834	247071379	247071643	6.970000e-100	375.0
16	TraesCS7B01G154400	chr7A	88.664	247	17	3	1	236	247065478	247065724	2.600000e-74	291.0
17	TraesCS7B01G154400	chr1B	96.187	577	22	0	6783	7359	487943324	487943900	0.000000e+00	944.0
18	TraesCS7B01G154400	chr1B	81.955	133	17	7	4312	4441	369606933	369606805	1.010000e-18	106.0
19	TraesCS7B01G154400	chr5B	96.756	524	17	0	6836	7359	479843420	479842897	0.000000e+00	874.0
20	TraesCS7B01G154400	chr5B	96.981	265	7	1	6371	6635	479843937	479843674	1.880000e-120	444.0
21	TraesCS7B01G154400	chr4B	96.060	533	21	0	6783	7315	134117177	134116645	0.000000e+00	869.0
22	TraesCS7B01G154400	chr4B	96.935	261	8	0	6375	6635	134117476	134117216	8.770000e-119	438.0
23	TraesCS7B01G154400	chr4B	94.737	95	4	1	4348	4441	53595578	53595672	5.950000e-31	147.0
24	TraesCS7B01G154400	chr4B	81.818	121	6	5	4312	4432	53595135	53595239	3.660000e-13	87.9
25	TraesCS7B01G154400	chr5A	95.872	533	20	2	6783	7315	216989342	216989872	0.000000e+00	861.0
26	TraesCS7B01G154400	chr5A	97.388	268	5	2	6368	6635	216989038	216989303	8.700000e-124	455.0
27	TraesCS7B01G154400	chr5A	95.472	265	10	2	6370	6634	601405329	601405591	8.830000e-114	422.0
28	TraesCS7B01G154400	chr5A	89.362	47	4	1	7313	7359	601406236	601406281	2.870000e-04	58.4
29	TraesCS7B01G154400	chr3B	95.685	533	23	0	6783	7315	93456636	93456104	0.000000e+00	857.0
30	TraesCS7B01G154400	chr3B	95.497	533	24	0	6783	7315	93357060	93356528	0.000000e+00	852.0
31	TraesCS7B01G154400	chr3B	94.934	533	27	0	6783	7315	93416517	93415985	0.000000e+00	835.0
32	TraesCS7B01G154400	chr3B	95.785	261	10	1	6375	6635	93357358	93357099	3.170000e-113	420.0
33	TraesCS7B01G154400	chr3B	95.019	261	12	1	6375	6635	93317425	93317166	6.870000e-110	409.0
34	TraesCS7B01G154400	chr3B	93.976	249	14	1	3051	3299	551015029	551014782	6.970000e-100	375.0
35	TraesCS7B01G154400	chr6A	94.953	535	25	1	6783	7315	32695647	32696181	0.000000e+00	837.0
36	TraesCS7B01G154400	chr6A	81.761	159	27	2	1311	1469	5133071	5132915	1.670000e-26	132.0
37	TraesCS7B01G154400	chr6A	89.362	47	4	1	7313	7359	32696268	32696313	2.870000e-04	58.4
38	TraesCS7B01G154400	chr6A	94.595	37	1	1	7316	7352	426216576	426216541	1.000000e-03	56.5
39	TraesCS7B01G154400	chr6B	96.241	266	6	3	6370	6635	551004203	551004464	4.080000e-117	433.0
40	TraesCS7B01G154400	chr6B	85.496	131	13	6	4317	4445	396933276	396933150	1.670000e-26	132.0
41	TraesCS7B01G154400	chr6B	91.489	47	3	1	7313	7359	551021259	551021304	6.160000e-06	63.9
42	TraesCS7B01G154400	chr5D	94.717	265	11	2	6371	6635	14534357	14534096	6.870000e-110	409.0
43	TraesCS7B01G154400	chr1D	90.756	119	9	2	4313	4431	52343524	52343640	2.750000e-34	158.0
44	TraesCS7B01G154400	chr1D	89.655	58	6	0	4355	4412	182034097	182034154	2.850000e-09	75.0
45	TraesCS7B01G154400	chr4A	89.344	122	11	1	4313	4434	360655661	360655780	1.280000e-32	152.0
46	TraesCS7B01G154400	chr4A	84.091	132	15	6	4313	4441	356554505	356554633	1.000000e-23	122.0
47	TraesCS7B01G154400	chr6D	86.260	131	12	6	4317	4445	193238286	193238412	3.580000e-28	137.0
48	TraesCS7B01G154400	chr2A	87.179	117	9	6	4327	4441	320191843	320191955	2.160000e-25	128.0
49	TraesCS7B01G154400	chr4D	83.333	132	16	6	4313	4441	241797425	241797297	4.660000e-22	117.0
50	TraesCS7B01G154400	chr4D	86.667	75	7	3	4313	4386	374116201	374116129	6.120000e-11	80.5
51	TraesCS7B01G154400	chr3D	84.426	122	15	4	4325	4444	196950999	196950880	4.660000e-22	117.0
52	TraesCS7B01G154400	chr3D	82.645	121	16	5	4327	4445	484195932	484195815	1.310000e-17	102.0

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	TraesCS7B01G154400	chr7B	205717689	205725047	7358	False	6659.500000	12253	100.000000	1	7359	2	chr7B.!!$F2	7358
1	TraesCS7B01G154400	chr7B	725972552	725973513	961	False	439.800000	828	95.879333	6375	7359	3	chr7B.!!$F3	984
2	TraesCS7B01G154400	chr7D	234129507	234136263	6756	False	5383.000000	7720	97.587000	1	6374	2	chr7D.!!$F3	6373
3	TraesCS7B01G154400	chr7A	247065478	247072205	6727	False	1370.166667	3127	90.572167	1	6375	6	chr7A.!!$F1	6374
4	TraesCS7B01G154400	chr1B	487943324	487943900	576	False	944.000000	944	96.187000	6783	7359	1	chr1B.!!$F1	576
5	TraesCS7B01G154400	chr5B	479842897	479843937	1040	True	659.000000	874	96.868500	6371	7359	2	chr5B.!!$R1	988
6	TraesCS7B01G154400	chr4B	134116645	134117476	831	True	653.500000	869	96.497500	6375	7315	2	chr4B.!!$R1	940
7	TraesCS7B01G154400	chr5A	216989038	216989872	834	False	658.000000	861	96.630000	6368	7315	2	chr5A.!!$F1	947
8	TraesCS7B01G154400	chr5A	601405329	601406281	952	False	240.200000	422	92.417000	6370	7359	2	chr5A.!!$F2	989
9	TraesCS7B01G154400	chr3B	93456104	93456636	532	True	857.000000	857	95.685000	6783	7315	1	chr3B.!!$R3	532
10	TraesCS7B01G154400	chr3B	93415985	93416517	532	True	835.000000	835	94.934000	6783	7315	1	chr3B.!!$R2	532
11	TraesCS7B01G154400	chr3B	93356528	93357358	830	True	636.000000	852	95.641000	6375	7315	2	chr3B.!!$R5	940
12	TraesCS7B01G154400	chr6A	32695647	32696313	666	False	447.700000	837	92.157500	6783	7359	2	chr6A.!!$F1	576

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	Hairpin	End Stability	Orientation
756	1002	0.534877	ACTCATGTGGCAGTTTGCGA	60.535	50.000	0.00	46.21	5.10	F
1619	1894	1.269051	CGCACAACCCTTTTCAGTTCC	60.269	52.381	0.00	0.00	3.62	F
2757	3495	0.109532	TGAACCTTGGAATGCGTGGA	59.890	50.000	0.00	0.00	4.02	F
4054	4818	2.200067	GTCAATGGACATCAGCTCTCG	58.800	52.381	0.00	43.73	4.04	F
5386	6156	1.069513	ACACAAATGCTGCTGTGCAAT	59.930	42.857	17.27	45.56	3.56	F
6069	7049	0.034059	CAAGTGAGCGGGACAGACTT	59.966	55.000	0.00	0.00	3.01	F

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability	Orientation
2098	2753	1.213296	AAGGCCTATGATGTCGGGTT	58.787	50.000	5.16	0.0	0.00	4.11	R
3603	4356	4.286032	TCCCTCTTGATTTTTCTTCCTCGA	59.714	41.667	0.00	0.0	0.00	4.04	R
4355	5119	4.354387	TGGGGTACAAGGAAAGGAAACATA	59.646	41.667	0.00	0.0	0.00	2.29	R
5834	6814	0.393537	AGAATGAGGCGGCTTTCTGG	60.394	55.000	21.27	0.0	32.87	3.86	R
6318	7318	0.449388	CTTTTGCAGGCATCTCGTCC	59.551	55.000	0.00	0.0	0.00	4.79	R
7310	8365	0.835941	GATCTGGCAGGTCTGTGGAT	59.164	55.000	20.46	0.6	0.00	3.41	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
359	600	5.104527	TGGAAGAAGAAAGAAGTCACCTGAA	60.105	40.000	0.00	0.00	0.00	3.02
756	1002	0.534877	ACTCATGTGGCAGTTTGCGA	60.535	50.000	0.00	0.00	46.21	5.10
861	1107	4.829064	TTGCAGAATGTGGTAACTTCAC	57.171	40.909	0.00	0.00	39.31	3.18
1313	1587	8.815565	TTTAATTGCAAATATAGGGAGACACA	57.184	30.769	1.71	0.00	0.00	3.72
1438	1713	3.817647	GCTTCTGGAACATGAAAGTGACT	59.182	43.478	0.00	0.00	38.20	3.41
1445	1720	4.816385	GGAACATGAAAGTGACTCAGACAA	59.184	41.667	0.00	0.00	0.00	3.18
1481	1756	7.038373	ACCATTGGTAGGTTTTCTTATGCAATT	60.038	33.333	6.54	0.00	35.33	2.32
1491	1766	9.202273	GGTTTTCTTATGCAATTGTGATTTGTA	57.798	29.630	7.40	0.00	0.00	2.41
1530	1805	7.766283	TCTGATGTGTCTTATTCTACACTCAG	58.234	38.462	18.50	18.50	44.99	3.35
1619	1894	1.269051	CGCACAACCCTTTTCAGTTCC	60.269	52.381	0.00	0.00	0.00	3.62
1787	2442	5.008619	TGCATTGTCATGTCAAACACTTT	57.991	34.783	9.41	0.00	32.28	2.66
2098	2753	2.234414	GAGAAAAATTGCTGCCCCATCA	59.766	45.455	0.00	0.00	0.00	3.07
2101	2756	0.614812	AAATTGCTGCCCCATCAACC	59.385	50.000	0.00	0.00	0.00	3.77
2103	2758	4.738998	TGCTGCCCCATCAACCCG	62.739	66.667	0.00	0.00	0.00	5.28
2218	2874	4.080356	TGTCAAATAGCTATCCTGCCAACT	60.080	41.667	6.72	0.00	0.00	3.16
2306	2962	3.077359	CCTAACACTTCAGGGAGCAAAG	58.923	50.000	0.00	0.00	0.00	2.77
2441	3105	3.892588	TCTGGGAAAATTTGCCGTTAAGT	59.107	39.130	11.57	0.00	45.31	2.24
2467	3131	7.661437	TCTGATCACTTGCTACATTTAACAGTT	59.339	33.333	0.00	0.00	0.00	3.16
2521	3185	7.856145	ACAAATGACCAAAAGTTGCAAATAA	57.144	28.000	0.00	0.00	0.00	1.40
2522	3186	7.693020	ACAAATGACCAAAAGTTGCAAATAAC	58.307	30.769	0.00	0.00	0.00	1.89
2676	3414	7.434492	TGCTTTTGAATAAAAATCCAACGGTA	58.566	30.769	0.00	0.00	37.14	4.02
2757	3495	0.109532	TGAACCTTGGAATGCGTGGA	59.890	50.000	0.00	0.00	0.00	4.02
3023	3774	5.895928	TGATATCTCAGTCCTTTCTTGTCG	58.104	41.667	3.98	0.00	0.00	4.35
3239	3990	2.356135	ACAAGTGCACACGTTTTCTCT	58.644	42.857	21.04	0.00	36.20	3.10
3254	4005	5.519927	CGTTTTCTCTTTTGCCATTGTTTCT	59.480	36.000	0.00	0.00	0.00	2.52
3510	4263	9.959749	TTTGTACCTTGTTTTGAATAGATGTTC	57.040	29.630	0.00	0.00	0.00	3.18
3603	4356	3.432252	GCACTACATAAGTCAAAGCGTGT	59.568	43.478	0.00	0.00	35.76	4.49
4054	4818	2.200067	GTCAATGGACATCAGCTCTCG	58.800	52.381	0.00	0.00	43.73	4.04
4160	4924	9.594478	CTTATTTGTTGTTTTTGTAAAGAGGGT	57.406	29.630	0.00	0.00	0.00	4.34
4262	5026	4.574892	TCAACTCATGTCGGCTATTTTCA	58.425	39.130	0.00	0.00	0.00	2.69
4322	5086	5.023533	TGTACTCATGGATGTTAGGAAGC	57.976	43.478	0.00	0.00	0.00	3.86
4345	5109	6.706270	AGCATTAGTATTGGTTTAGGATGTCG	59.294	38.462	0.00	0.00	0.00	4.35
4355	5119	5.129815	TGGTTTAGGATGTCGTTATTAGCCT	59.870	40.000	0.00	0.00	0.00	4.58
4566	5333	7.461749	TGATAAGGTCCCATTGAATCTAATCC	58.538	38.462	0.00	0.00	0.00	3.01
4727	5494	5.162936	TGTCTATATCTCTCCACAGACCCAT	60.163	44.000	0.00	0.00	33.15	4.00
4976	5745	2.069273	GCGAGACACTACATTGCTTGT	58.931	47.619	0.00	0.00	42.62	3.16
5312	6082	5.287274	TGTTGACTGTTTTGCACAATTAACG	59.713	36.000	0.00	0.00	33.87	3.18
5347	6117	1.371337	GCTCTGCCGCATCACAATCA	61.371	55.000	0.00	0.00	0.00	2.57
5355	6125	3.251729	GCCGCATCACAATCATGATTACT	59.748	43.478	20.32	6.32	37.20	2.24
5356	6126	4.452114	GCCGCATCACAATCATGATTACTA	59.548	41.667	20.32	9.07	37.20	1.82
5357	6127	5.615544	GCCGCATCACAATCATGATTACTAC	60.616	44.000	20.32	7.72	37.20	2.73
5358	6128	5.698089	CCGCATCACAATCATGATTACTACT	59.302	40.000	20.32	2.72	37.20	2.57
5359	6129	6.347160	CCGCATCACAATCATGATTACTACTG	60.347	42.308	20.32	14.33	37.20	2.74
5386	6156	1.069513	ACACAAATGCTGCTGTGCAAT	59.930	42.857	17.27	0.00	45.56	3.56
5422	6192	6.405953	GCAGATAACTGAAACTAGCCTGTCTA	60.406	42.308	3.85	0.00	46.03	2.59
5834	6814	7.376336	CGATATGCTACGTATGGCTATTTAGTC	59.624	40.741	8.13	0.00	32.44	2.59
5851	6831	0.678048	GTCCAGAAAGCCGCCTCATT	60.678	55.000	0.00	0.00	0.00	2.57
5900	6880	1.823899	GGGTAATCTGCAAGGCGGG	60.824	63.158	0.00	0.00	35.34	6.13
6066	7046	1.533033	TCCAAGTGAGCGGGACAGA	60.533	57.895	0.00	0.00	0.00	3.41
6069	7049	0.034059	CAAGTGAGCGGGACAGACTT	59.966	55.000	0.00	0.00	0.00	3.01
6075	7055	1.079750	GCGGGACAGACTTCACTCC	60.080	63.158	0.00	0.00	0.00	3.85
6200	7183	2.577059	GGCACGGCACTGTAGCTA	59.423	61.111	0.00	0.00	34.17	3.32
6249	7236	5.280945	CCCTGTAACTGAACAAATTGTGTG	58.719	41.667	0.00	0.00	40.60	3.82
6250	7237	4.739716	CCTGTAACTGAACAAATTGTGTGC	59.260	41.667	0.00	0.00	40.60	4.57
6251	7238	4.346970	TGTAACTGAACAAATTGTGTGCG	58.653	39.130	0.00	0.00	38.88	5.34
6252	7239	2.490328	ACTGAACAAATTGTGTGCGG	57.510	45.000	0.00	0.52	46.72	5.69
6253	7240	2.490328	CTGAACAAATTGTGTGCGGT	57.510	45.000	0.00	0.00	38.88	5.68
6254	7241	2.118683	CTGAACAAATTGTGTGCGGTG	58.881	47.619	0.00	0.00	38.88	4.94
6255	7242	1.202348	TGAACAAATTGTGTGCGGTGG	60.202	47.619	0.00	0.00	38.88	4.61
6256	7243	0.103937	AACAAATTGTGTGCGGTGGG	59.896	50.000	0.00	0.00	40.60	4.61
6257	7244	0.753479	ACAAATTGTGTGCGGTGGGA	60.753	50.000	0.00	0.00	39.72	4.37
6258	7245	0.387202	CAAATTGTGTGCGGTGGGAA	59.613	50.000	0.00	0.00	0.00	3.97
6259	7246	0.387565	AAATTGTGTGCGGTGGGAAC	59.612	50.000	0.00	0.00	0.00	3.62
6260	7247	1.791103	AATTGTGTGCGGTGGGAACG	61.791	55.000	0.00	0.00	0.00	3.95
6261	7248	2.668185	ATTGTGTGCGGTGGGAACGA	62.668	55.000	0.00	0.00	0.00	3.85
6262	7249	2.358247	GTGTGCGGTGGGAACGAT	60.358	61.111	0.00	0.00	0.00	3.73
6263	7250	2.358125	TGTGCGGTGGGAACGATG	60.358	61.111	0.00	0.00	0.00	3.84
6264	7251	2.358247	GTGCGGTGGGAACGATGT	60.358	61.111	0.00	0.00	0.00	3.06
6265	7252	1.079681	GTGCGGTGGGAACGATGTA	60.080	57.895	0.00	0.00	0.00	2.29
6266	7253	0.461339	GTGCGGTGGGAACGATGTAT	60.461	55.000	0.00	0.00	0.00	2.29
6281	7268	7.169982	GGAACGATGTATTCCAGTAAATCTCAG	59.830	40.741	0.00	0.00	44.42	3.35
6286	7273	9.213799	GATGTATTCCAGTAAATCTCAGGATTC	57.786	37.037	0.00	0.00	40.86	2.52
6289	7276	5.263968	TCCAGTAAATCTCAGGATTCGTC	57.736	43.478	0.00	0.00	40.86	4.20
6318	7318	6.074034	GGTGTACGGAAATCAAAACAAAATGG	60.074	38.462	0.00	0.00	0.00	3.16
6337	7337	0.449388	GGACGAGATGCCTGCAAAAG	59.551	55.000	0.00	0.00	0.00	2.27
6361	7361	2.184830	CCGAGCTGTGATGCCATGG	61.185	63.158	7.63	7.63	0.00	3.66
6556	7556	4.263025	CCATACAATCCATACTAGGCAGCA	60.263	45.833	0.00	0.00	0.00	4.41
6910	7963	0.537143	TCGTTGCCACAGAAGCCATT	60.537	50.000	0.00	0.00	0.00	3.16
7051	8104	0.034337	CCCGAAGAACTTGAACCGGA	59.966	55.000	9.46	0.00	39.31	5.14
7201	8254	3.152400	GCCGACCCGTACCTCCAT	61.152	66.667	0.00	0.00	0.00	3.41
7293	8348	0.250513	GGTCTGCAGAGAACCGGATT	59.749	55.000	18.89	0.00	28.33	3.01

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
13	14	9.138062	GAATACATCTGATATTGTACAGAGCAG	57.862	37.037	15.38	15.38	44.50	4.24
221	462	4.556233	TCAATACAGAACTCAGTTGGACG	58.444	43.478	0.00	0.00	0.00	4.79
359	600	4.921644	TCTCTAAGGGTTTTCGGGAAAT	57.078	40.909	0.00	0.00	0.00	2.17
1438	1713	5.363562	AATGGTAGCTGATCATTGTCTGA	57.636	39.130	0.00	0.00	37.49	3.27
1530	1805	5.792741	AGCTCTGCTGAGGAATATATCAAC	58.207	41.667	20.66	1.32	40.53	3.18
1635	1910	4.609947	CACTAACATGCAAGTTGCTTCAA	58.390	39.130	27.17	8.72	45.31	2.69
1787	2442	6.790232	AATCAGAACAGGAGGTTTGAAAAA	57.210	33.333	0.00	0.00	40.63	1.94
1866	2521	3.049912	TCTCACTTCGTTTGATGTGTCG	58.950	45.455	10.02	4.91	45.59	4.35
2098	2753	1.213296	AAGGCCTATGATGTCGGGTT	58.787	50.000	5.16	0.00	0.00	4.11
2101	2756	2.917933	TCAAAAGGCCTATGATGTCGG	58.082	47.619	5.16	0.00	0.00	4.79
2103	2758	5.841957	ACATTCAAAAGGCCTATGATGTC	57.158	39.130	18.92	0.00	0.00	3.06
2218	2874	1.762370	TCAAGTGCAGACTTCCAGACA	59.238	47.619	0.00	0.00	40.68	3.41
2306	2962	2.029470	AGCACTGCACAGACTCTTAGAC	60.029	50.000	4.31	0.00	0.00	2.59
2415	3079	2.896685	ACGGCAAATTTTCCCAGATGAA	59.103	40.909	0.98	0.00	0.00	2.57
2417	3081	3.317603	AACGGCAAATTTTCCCAGATG	57.682	42.857	0.98	0.00	0.00	2.90
2441	3105	7.161404	ACTGTTAAATGTAGCAAGTGATCAGA	58.839	34.615	0.00	0.00	0.00	3.27
2521	3185	5.048504	CACATGACTTGCCTTATTCAACAGT	60.049	40.000	0.00	0.00	0.00	3.55
2522	3186	5.048504	ACACATGACTTGCCTTATTCAACAG	60.049	40.000	0.00	0.00	0.00	3.16
2676	3414	6.535865	TGTAAGTTACGTGACACAAAACTGAT	59.464	34.615	18.32	9.87	31.09	2.90
2757	3495	5.770162	CCCTCTGTTTCTTTTTGTGAGGTAT	59.230	40.000	0.00	0.00	38.24	2.73
3023	3774	9.326413	AGACTTAACCATATAACATGCTAACAC	57.674	33.333	0.00	0.00	0.00	3.32
3239	3990	5.212532	AGCATACAGAAACAATGGCAAAA	57.787	34.783	0.00	0.00	0.00	2.44
3528	4281	4.749598	CCTTGCAGGAATGGTAAACAAAAC	59.250	41.667	0.00	0.00	37.67	2.43
3603	4356	4.286032	TCCCTCTTGATTTTTCTTCCTCGA	59.714	41.667	0.00	0.00	0.00	4.04
4089	4853	7.547370	GCTCATAGGATATGTAAAACAGCCTAG	59.453	40.741	0.00	0.00	35.37	3.02
4160	4924	4.558226	TCTTTAGCAGCTTGAATCCTCA	57.442	40.909	0.00	0.00	0.00	3.86
4262	5026	9.624373	AATAGAAGATATGAGTTGCATTTGACT	57.376	29.630	0.00	0.00	38.44	3.41
4322	5086	8.433421	AACGACATCCTAAACCAATACTAATG	57.567	34.615	0.00	0.00	0.00	1.90
4345	5109	8.406297	CAAGGAAAGGAAACATAGGCTAATAAC	58.594	37.037	0.00	0.00	0.00	1.89
4355	5119	4.354387	TGGGGTACAAGGAAAGGAAACATA	59.646	41.667	0.00	0.00	0.00	2.29
4566	5333	9.878599	AACATCAAAGTTTCAAAGTATTAGTCG	57.121	29.630	0.00	0.00	0.00	4.18
4727	5494	8.978874	AAAGGATGTATTGTTGCATGTAGATA	57.021	30.769	0.00	0.00	0.00	1.98
4976	5745	4.776349	TGTAAGTCTTTTCAGCAGTCCAA	58.224	39.130	0.00	0.00	0.00	3.53
5217	5987	8.601845	TGTGATTCTTTTTCAGATTTCGTAGA	57.398	30.769	0.00	0.00	0.00	2.59
5312	6082	3.242446	GCAGAGCGTAGAAGGTTTATTGC	60.242	47.826	0.00	0.00	0.00	3.56
5355	6125	5.473162	AGCAGCATTTGTGTGAAATACAGTA	59.527	36.000	0.00	0.00	39.76	2.74
5356	6126	4.279169	AGCAGCATTTGTGTGAAATACAGT	59.721	37.500	0.00	0.00	39.76	3.55
5357	6127	4.619760	CAGCAGCATTTGTGTGAAATACAG	59.380	41.667	0.00	0.00	39.76	2.74
5358	6128	4.037803	ACAGCAGCATTTGTGTGAAATACA	59.962	37.500	0.00	0.00	35.61	2.29
5359	6129	4.383649	CACAGCAGCATTTGTGTGAAATAC	59.616	41.667	5.94	0.00	39.27	1.89
5386	6156	3.055458	TCAGTTATCTGCATGGACCGAAA	60.055	43.478	0.00	0.00	41.10	3.46
5422	6192	3.073062	AGAAACTAAGCATCCTGGTGTGT	59.927	43.478	0.00	0.00	0.00	3.72
5482	6262	5.660460	ACTACAAAACCCAAGCTGAAAAAG	58.340	37.500	0.00	0.00	0.00	2.27
5483	6263	5.420739	AGACTACAAAACCCAAGCTGAAAAA	59.579	36.000	0.00	0.00	0.00	1.94
5484	6264	4.953579	AGACTACAAAACCCAAGCTGAAAA	59.046	37.500	0.00	0.00	0.00	2.29
5485	6265	4.338118	CAGACTACAAAACCCAAGCTGAAA	59.662	41.667	0.00	0.00	0.00	2.69
5486	6266	3.882888	CAGACTACAAAACCCAAGCTGAA	59.117	43.478	0.00	0.00	0.00	3.02
5487	6267	3.476552	CAGACTACAAAACCCAAGCTGA	58.523	45.455	0.00	0.00	0.00	4.26
5488	6268	2.554032	CCAGACTACAAAACCCAAGCTG	59.446	50.000	0.00	0.00	0.00	4.24
5495	6275	3.146847	CCCAGTTCCAGACTACAAAACC	58.853	50.000	0.00	0.00	36.65	3.27
5834	6814	0.393537	AGAATGAGGCGGCTTTCTGG	60.394	55.000	21.27	0.00	32.87	3.86
5851	6831	2.173782	TGTTAAACAGCAGGGGTTGAGA	59.826	45.455	0.00	0.00	0.00	3.27
5900	6880	1.205893	CACAGCTCCAGGAACTCTACC	59.794	57.143	0.00	0.00	34.60	3.18
6066	7046	2.298729	GTGAAGCAGAGAGGAGTGAAGT	59.701	50.000	0.00	0.00	0.00	3.01
6069	7049	1.261480	GGTGAAGCAGAGAGGAGTGA	58.739	55.000	0.00	0.00	0.00	3.41
6075	7055	3.870419	GCTCTTAATGGTGAAGCAGAGAG	59.130	47.826	12.35	12.35	31.14	3.20
6191	7174	5.539979	TCGACGAGATCTATTAGCTACAGT	58.460	41.667	0.00	0.00	0.00	3.55
6200	7183	4.594970	AGATCCCATCGACGAGATCTATT	58.405	43.478	20.45	4.03	42.76	1.73
6249	7236	0.935196	GAATACATCGTTCCCACCGC	59.065	55.000	0.00	0.00	0.00	5.68
6250	7237	1.134640	TGGAATACATCGTTCCCACCG	60.135	52.381	2.73	0.00	43.60	4.94
6251	7238	2.093128	ACTGGAATACATCGTTCCCACC	60.093	50.000	2.73	0.00	43.60	4.61
6252	7239	3.261981	ACTGGAATACATCGTTCCCAC	57.738	47.619	2.73	0.00	43.60	4.61
6253	7240	5.423704	TTTACTGGAATACATCGTTCCCA	57.576	39.130	2.73	0.00	43.60	4.37
6254	7241	6.289064	AGATTTACTGGAATACATCGTTCCC	58.711	40.000	2.73	0.00	43.60	3.97
6255	7242	6.984474	TGAGATTTACTGGAATACATCGTTCC	59.016	38.462	0.00	0.00	44.32	3.62
6256	7243	7.169982	CCTGAGATTTACTGGAATACATCGTTC	59.830	40.741	0.00	0.00	0.00	3.95
6257	7244	6.986817	CCTGAGATTTACTGGAATACATCGTT	59.013	38.462	0.00	0.00	0.00	3.85
6258	7245	6.323996	TCCTGAGATTTACTGGAATACATCGT	59.676	38.462	0.00	0.00	33.64	3.73
6259	7246	6.749139	TCCTGAGATTTACTGGAATACATCG	58.251	40.000	0.00	0.00	33.64	3.84
6260	7247	9.213799	GAATCCTGAGATTTACTGGAATACATC	57.786	37.037	0.00	0.00	42.93	3.06
6261	7248	7.875041	CGAATCCTGAGATTTACTGGAATACAT	59.125	37.037	0.00	0.00	42.93	2.29
6262	7249	7.147724	ACGAATCCTGAGATTTACTGGAATACA	60.148	37.037	0.00	0.00	42.93	2.29
6263	7250	7.210873	ACGAATCCTGAGATTTACTGGAATAC	58.789	38.462	0.00	0.00	42.93	1.89
6264	7251	7.361457	ACGAATCCTGAGATTTACTGGAATA	57.639	36.000	0.00	0.00	42.93	1.75
6265	7252	6.240549	ACGAATCCTGAGATTTACTGGAAT	57.759	37.500	0.00	0.00	42.93	3.01
6266	7253	5.661458	GACGAATCCTGAGATTTACTGGAA	58.339	41.667	0.00	0.00	42.93	3.53
6281	7268	1.875364	GTACACCGCCGACGAATCC	60.875	63.158	0.00	0.00	43.93	3.01
6286	7273	3.895102	TTTCCGTACACCGCCGACG	62.895	63.158	0.00	0.00	39.67	5.12
6289	7276	1.015085	TTGATTTCCGTACACCGCCG	61.015	55.000	0.00	0.00	34.38	6.46
6300	7299	5.293560	TCGTCCCATTTTGTTTTGATTTCC	58.706	37.500	0.00	0.00	0.00	3.13
6318	7318	0.449388	CTTTTGCAGGCATCTCGTCC	59.551	55.000	0.00	0.00	0.00	4.79
6337	7337	1.156645	GCATCACAGCTCGGTCATCC	61.157	60.000	0.00	0.00	0.00	3.51
6343	7343	2.184830	CCATGGCATCACAGCTCGG	61.185	63.158	0.00	0.00	34.17	4.63
6393	7393	3.713858	TTATCAATGAAATGCCAGCGG	57.286	42.857	0.00	0.00	0.00	5.52
6508	7508	0.911769	TGTGCTGCAGCTATTAGGGT	59.088	50.000	36.61	0.00	42.66	4.34
6556	7556	3.432588	CGTCGGAGTCGGAGCTGT	61.433	66.667	0.00	0.00	35.06	4.40
6910	7963	4.544047	TGCAGCTGGACGTGCACA	62.544	61.111	18.64	0.00	44.70	4.57
7051	8104	3.198853	GGGAATCTTCACAGCCTCTACTT	59.801	47.826	0.00	0.00	0.00	2.24
7310	8365	0.835941	GATCTGGCAGGTCTGTGGAT	59.164	55.000	20.46	0.60	0.00	3.41

Based at the University of Bristol with support from BBSRC.

AutoCloner maintained by Alex Coulton.