AutoCloner

Multiple sequence alignment - TraesCS1D01G141400

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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	TraesCS1D01G141400	chr1D	100.000	4208	0	0	1	4208	194928444	194924237	0.000000e+00	7771.0
1	TraesCS1D01G141400	chr1D	98.189	773	11	1	3439	4208	225440341	225439569	0.000000e+00	1347.0
2	TraesCS1D01G141400	chr1D	97.698	782	12	1	3433	4208	414143823	414143042	0.000000e+00	1339.0
3	TraesCS1D01G141400	chr1D	78.221	551	116	4	1126	1674	296489233	296489781	2.410000e-92	350.0
4	TraesCS1D01G141400	chr1D	93.333	45	0	2	180	221	261215747	261215791	3.510000e-06	63.9
5	TraesCS1D01G141400	chr1D	92.857	42	0	2	184	223	406665020	406665060	1.630000e-04	58.4
6	TraesCS1D01G141400	chr1A	93.652	2426	63	33	229	2604	243163747	243161363	0.000000e+00	3542.0
7	TraesCS1D01G141400	chr1A	92.786	804	38	9	2659	3446	243161357	243160558	0.000000e+00	1146.0
8	TraesCS1D01G141400	chr1A	77.798	554	115	7	1126	1675	369322680	369323229	6.740000e-88	335.0
9	TraesCS1D01G141400	chr1A	86.070	201	20	7	10	206	243164117	243163921	4.260000e-50	209.0
10	TraesCS1D01G141400	chr1B	93.270	2110	80	22	240	2308	270791845	270793933	0.000000e+00	3053.0
11	TraesCS1D01G141400	chr1B	94.587	1127	39	12	2334	3446	270794385	270795503	0.000000e+00	1724.0
12	TraesCS1D01G141400	chr1B	78.403	551	115	4	1126	1674	398006018	398006566	5.170000e-94	355.0
13	TraesCS1D01G141400	chr5D	98.570	769	11	0	3440	4208	99334156	99334924	0.000000e+00	1360.0
14	TraesCS1D01G141400	chr5D	89.474	57	3	3	160	214	515669212	515669267	7.550000e-08	69.4
15	TraesCS1D01G141400	chr5D	100.000	32	0	0	191	222	367516280	367516249	4.540000e-05	60.2
16	TraesCS1D01G141400	chr5D	97.143	35	0	1	189	223	97275008	97274975	1.630000e-04	58.4
17	TraesCS1D01G141400	chr5D	92.857	42	0	2	184	223	209317018	209317058	1.630000e-04	58.4
18	TraesCS1D01G141400	chr2D	98.570	769	11	0	3440	4208	125441392	125442160	0.000000e+00	1360.0
19	TraesCS1D01G141400	chr6D	98.440	769	12	0	3440	4208	210876250	210877018	0.000000e+00	1354.0
20	TraesCS1D01G141400	chr6D	98.194	775	11	1	3437	4208	158211770	158210996	0.000000e+00	1351.0
21	TraesCS1D01G141400	chr6D	98.309	769	12	1	3440	4208	473243495	473242728	0.000000e+00	1347.0
22	TraesCS1D01G141400	chr6D	82.602	615	101	6	1128	1739	463549412	463548801	4.790000e-149	538.0
23	TraesCS1D01G141400	chr6D	90.000	60	3	3	157	214	377341740	377341682	1.620000e-09	75.0
24	TraesCS1D01G141400	chr6D	90.909	44	3	1	171	214	295046626	295046584	1.630000e-04	58.4
25	TraesCS1D01G141400	chr3D	98.184	771	14	0	3438	4208	329692675	329691905	0.000000e+00	1347.0
26	TraesCS1D01G141400	chr7D	97.938	776	15	1	3433	4208	245313028	245312254	0.000000e+00	1343.0
27	TraesCS1D01G141400	chr7D	84.722	72	6	4	156	223	220647244	220647314	2.720000e-07	67.6
28	TraesCS1D01G141400	chr4A	80.509	1257	184	43	1105	2308	684271355	684270107	0.000000e+00	907.0
29	TraesCS1D01G141400	chr4D	80.578	1246	182	37	1121	2309	477508642	477507400	0.000000e+00	905.0
30	TraesCS1D01G141400	chr4D	81.329	557	96	6	1126	1678	504328866	504329418	2.980000e-121	446.0
31	TraesCS1D01G141400	chr4D	100.000	28	0	0	189	216	91237998	91238025	8.000000e-03	52.8
32	TraesCS1D01G141400	chr4B	80.270	1257	190	36	1105	2308	602450600	602449349	0.000000e+00	894.0
33	TraesCS1D01G141400	chr4B	84.746	59	6	3	157	213	412591821	412591878	5.880000e-04	56.5
34	TraesCS1D01G141400	chr6B	83.362	589	94	4	1123	1709	706910965	706911551	3.700000e-150	542.0
35	TraesCS1D01G141400	chr6A	83.562	584	90	6	1128	1708	610203852	610204432	3.700000e-150	542.0
36	TraesCS1D01G141400	chr6A	89.855	69	3	4	157	223	460643434	460643368	7.500000e-13	86.1
37	TraesCS1D01G141400	chr6A	88.333	60	4	3	157	214	518785632	518785574	7.550000e-08	69.4
38	TraesCS1D01G141400	chr3B	91.111	45	1	3	189	231	485366062	485366105	1.630000e-04	58.4
39	TraesCS1D01G141400	chrUn	100.000	28	0	0	187	214	29183206	29183233	8.000000e-03	52.8
40	TraesCS1D01G141400	chrUn	94.286	35	0	2	188	222	41890414	41890382	8.000000e-03	52.8

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	TraesCS1D01G141400	chr1D	194924237	194928444	4207	True	7771.000000	7771	100.0000	1	4208	1	chr1D.!!$R1	4207
1	TraesCS1D01G141400	chr1D	225439569	225440341	772	True	1347.000000	1347	98.1890	3439	4208	1	chr1D.!!$R2	769
2	TraesCS1D01G141400	chr1D	414143042	414143823	781	True	1339.000000	1339	97.6980	3433	4208	1	chr1D.!!$R3	775
3	TraesCS1D01G141400	chr1D	296489233	296489781	548	False	350.000000	350	78.2210	1126	1674	1	chr1D.!!$F2	548
4	TraesCS1D01G141400	chr1A	243160558	243164117	3559	True	1632.333333	3542	90.8360	10	3446	3	chr1A.!!$R1	3436
5	TraesCS1D01G141400	chr1A	369322680	369323229	549	False	335.000000	335	77.7980	1126	1675	1	chr1A.!!$F1	549
6	TraesCS1D01G141400	chr1B	270791845	270795503	3658	False	2388.500000	3053	93.9285	240	3446	2	chr1B.!!$F2	3206
7	TraesCS1D01G141400	chr1B	398006018	398006566	548	False	355.000000	355	78.4030	1126	1674	1	chr1B.!!$F1	548
8	TraesCS1D01G141400	chr5D	99334156	99334924	768	False	1360.000000	1360	98.5700	3440	4208	1	chr5D.!!$F1	768
9	TraesCS1D01G141400	chr2D	125441392	125442160	768	False	1360.000000	1360	98.5700	3440	4208	1	chr2D.!!$F1	768
10	TraesCS1D01G141400	chr6D	210876250	210877018	768	False	1354.000000	1354	98.4400	3440	4208	1	chr6D.!!$F1	768
11	TraesCS1D01G141400	chr6D	158210996	158211770	774	True	1351.000000	1351	98.1940	3437	4208	1	chr6D.!!$R1	771
12	TraesCS1D01G141400	chr6D	473242728	473243495	767	True	1347.000000	1347	98.3090	3440	4208	1	chr6D.!!$R5	768
13	TraesCS1D01G141400	chr6D	463548801	463549412	611	True	538.000000	538	82.6020	1128	1739	1	chr6D.!!$R4	611
14	TraesCS1D01G141400	chr3D	329691905	329692675	770	True	1347.000000	1347	98.1840	3438	4208	1	chr3D.!!$R1	770
15	TraesCS1D01G141400	chr7D	245312254	245313028	774	True	1343.000000	1343	97.9380	3433	4208	1	chr7D.!!$R1	775
16	TraesCS1D01G141400	chr4A	684270107	684271355	1248	True	907.000000	907	80.5090	1105	2308	1	chr4A.!!$R1	1203
17	TraesCS1D01G141400	chr4D	477507400	477508642	1242	True	905.000000	905	80.5780	1121	2309	1	chr4D.!!$R1	1188
18	TraesCS1D01G141400	chr4D	504328866	504329418	552	False	446.000000	446	81.3290	1126	1678	1	chr4D.!!$F2	552
19	TraesCS1D01G141400	chr4B	602449349	602450600	1251	True	894.000000	894	80.2700	1105	2308	1	chr4B.!!$R1	1203
20	TraesCS1D01G141400	chr6B	706910965	706911551	586	False	542.000000	542	83.3620	1123	1709	1	chr6B.!!$F1	586
21	TraesCS1D01G141400	chr6A	610203852	610204432	580	False	542.000000	542	83.5620	1128	1708	1	chr6A.!!$F1	580

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
23	24	0.250038	ACAGTCAGCATCTGCACGTT	60.250	50.000	4.79	45.16	3.99	F
813	1010	0.457851	AGTGATCTCAGTGCCGTAGC	59.542	55.000	0.00	40.48	3.58	F
1684	1906	1.269723	GCCATGATCGTCGGAGTCATA	59.730	52.381	0.00	31.74	2.15	F
2293	2584	0.884704	ATTTCACCGACGCACAAGCT	60.885	50.000	0.00	39.10	3.74	F

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Hairpin	End Stability	Orientation
1684	1906	0.251341	GGAGGATGCAGGTGTTGGTT	60.251	55.000	0.00	0.00	3.67	R
2121	2412	0.612174	CTTCACCACCTCCTCCTCGA	60.612	60.000	0.00	0.00	4.04	R
3050	3775	0.880278	ACGTGTTGCACTACTGCTGG	60.880	55.000	0.00	44.57	4.85	R
3239	3969	1.605710	CGACCGGGTAATCATCTACGT	59.394	52.381	6.32	0.00	3.57	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
23	24	0.250038	ACAGTCAGCATCTGCACGTT	60.250	50.000	4.79	0.00	45.16	3.99
26	27	1.151668	GTCAGCATCTGCACGTTCTT	58.848	50.000	4.79	0.00	45.16	2.52
45	46	8.041323	ACGTTCTTGTTGATAGGAATGAGTAAT	58.959	33.333	0.00	0.00	0.00	1.89
47	48	9.167311	GTTCTTGTTGATAGGAATGAGTAATGT	57.833	33.333	0.00	0.00	0.00	2.71
50	51	8.722480	TTGTTGATAGGAATGAGTAATGTGAG	57.278	34.615	0.00	0.00	0.00	3.51
54	55	3.736094	AGGAATGAGTAATGTGAGGGGA	58.264	45.455	0.00	0.00	0.00	4.81
60	61	7.559897	GGAATGAGTAATGTGAGGGGATAAAAA	59.440	37.037	0.00	0.00	0.00	1.94
62	63	7.265599	TGAGTAATGTGAGGGGATAAAAAGA	57.734	36.000	0.00	0.00	0.00	2.52
73	74	9.325248	TGAGGGGATAAAAAGAAGAAATGAAAT	57.675	29.630	0.00	0.00	0.00	2.17
103	106	9.667107	CTAAACAAAGACTCAACCTTATATCCA	57.333	33.333	0.00	0.00	0.00	3.41
147	150	9.923143	TGACATAACAGTGTTATATATAGCCAC	57.077	33.333	24.54	13.06	31.16	5.01
166	169	1.142748	CTGCTGGCTACTCCCTTCG	59.857	63.158	0.00	0.00	0.00	3.79
167	170	1.304962	TGCTGGCTACTCCCTTCGA	60.305	57.895	0.00	0.00	0.00	3.71
168	171	0.687757	TGCTGGCTACTCCCTTCGAT	60.688	55.000	0.00	0.00	0.00	3.59
171	174	2.102588	GCTGGCTACTCCCTTCGATAAA	59.897	50.000	0.00	0.00	0.00	1.40
173	176	4.743955	GCTGGCTACTCCCTTCGATAAAAT	60.744	45.833	0.00	0.00	0.00	1.82
295	446	1.003839	CAAGTGCTCCGGTTAGCCA	60.004	57.895	12.28	0.00	42.05	4.75
301	452	1.041437	GCTCCGGTTAGCCATAGAGT	58.959	55.000	0.00	0.00	36.45	3.24
355	506	2.457366	AAATAGCCCGATCCTAAGCG	57.543	50.000	0.00	0.00	0.00	4.68
414	572	4.700365	TGCCACTCGTCAGTCGCG	62.700	66.667	0.00	0.00	39.49	5.87
421	580	4.813526	CGTCAGTCGCGAGGTCCG	62.814	72.222	10.24	6.40	42.21	4.79
422	581	3.735029	GTCAGTCGCGAGGTCCGT	61.735	66.667	10.24	0.00	41.15	4.69
443	602	1.410365	GCTCCTGCTCCTACTCCTACA	60.410	57.143	0.00	0.00	36.03	2.74
447	606	1.008403	TGCTCCTACTCCTACACCCT	58.992	55.000	0.00	0.00	0.00	4.34
459	618	0.623723	TACACCCTTGGAATCCCAGC	59.376	55.000	0.00	0.00	44.60	4.85
677	865	1.291132	GTGCTGATCCTCTAAACCGC	58.709	55.000	0.00	0.00	0.00	5.68
690	882	1.926511	AAACCGCTGCATGCTGCTAC	61.927	55.000	36.37	16.63	45.31	3.58
691	883	2.513204	CCGCTGCATGCTGCTACT	60.513	61.111	36.37	0.00	45.31	2.57
694	886	0.580578	CGCTGCATGCTGCTACTTAG	59.419	55.000	36.37	21.78	45.31	2.18
800	997	4.637574	CTGACGAACAGTTTGAGTGATC	57.362	45.455	7.60	0.00	41.30	2.92
813	1010	0.457851	AGTGATCTCAGTGCCGTAGC	59.542	55.000	0.00	0.00	40.48	3.58
831	1030	6.686630	CCGTAGCTGAGAGATTAATCTTCAT	58.313	40.000	18.88	8.67	37.25	2.57
895	1098	4.099266	TGCAACTTGTAGCCATCAGTTTTT	59.901	37.500	0.00	0.00	0.00	1.94
907	1110	3.492102	TCAGTTTTTGGGACTCTCCTG	57.508	47.619	0.00	0.00	36.57	3.86
943	1146	2.099098	AGTTTCTGTTTCTTTGCACCGG	59.901	45.455	0.00	0.00	0.00	5.28
972	1175	6.520272	GCAGGATCTAATCTAAGCAAGAAGA	58.480	40.000	0.00	0.00	37.89	2.87
1057	1260	5.063204	TCGGCTGAATTTCTTTCTTCTTCA	58.937	37.500	0.00	0.00	35.23	3.02
1058	1261	5.049405	TCGGCTGAATTTCTTTCTTCTTCAC	60.049	40.000	0.00	0.00	35.23	3.18
1059	1262	5.277974	CGGCTGAATTTCTTTCTTCTTCACA	60.278	40.000	0.00	0.00	35.23	3.58
1078	1299	3.064682	CACAACAACAAGTGTCAATCGGA	59.935	43.478	0.00	0.00	40.60	4.55
1080	1301	1.873591	ACAACAAGTGTCAATCGGAGC	59.126	47.619	0.00	0.00	34.38	4.70
1684	1906	1.269723	GCCATGATCGTCGGAGTCATA	59.730	52.381	0.00	0.00	31.74	2.15
2121	2412	1.939769	GACGAGAAGGAGAAGCCGCT	61.940	60.000	0.00	0.00	43.43	5.52
2158	2449	3.646162	TGAAGCAGAAGAAGTGGAAGGTA	59.354	43.478	0.00	0.00	0.00	3.08
2293	2584	0.884704	ATTTCACCGACGCACAAGCT	60.885	50.000	0.00	0.00	39.10	3.74
2612	3331	3.575687	CTCTTTCTTTCCCAATGTTGCCT	59.424	43.478	0.00	0.00	0.00	4.75
2711	3432	3.007398	GTGATTCTAGGATAGCCAGGTGG	59.993	52.174	0.00	0.00	38.99	4.61
2885	3607	2.817396	GGCTCAGCTGCGAACCTC	60.817	66.667	9.47	0.00	0.00	3.85
2891	3613	1.153745	AGCTGCGAACCTCATCGTC	60.154	57.895	0.00	0.00	44.49	4.20
3025	3747	3.057736	GTCGTTAGCTACTGAACTGGACA	60.058	47.826	0.00	0.00	0.00	4.02
3050	3775	1.529865	GGAACAACTCCTACGTTGCAC	59.470	52.381	0.00	0.00	46.21	4.57
3115	3845	1.184970	AGCAACCGTGAAAATGGGGG	61.185	55.000	0.00	0.00	0.00	5.40
3125	3855	4.142249	CGTGAAAATGGGGGAATTTACCTC	60.142	45.833	0.00	0.00	0.00	3.85
3126	3856	5.023452	GTGAAAATGGGGGAATTTACCTCT	58.977	41.667	0.00	0.00	0.00	3.69
3127	3857	6.192044	GTGAAAATGGGGGAATTTACCTCTA	58.808	40.000	0.00	0.00	0.00	2.43
3221	3951	4.201970	GCTAAAGCAAATAATGGGCGTGTA	60.202	41.667	0.00	0.00	41.59	2.90
3236	3966	2.818121	CGTGTATTGTACGTGTGTTGC	58.182	47.619	0.00	0.00	36.83	4.17
3238	3968	3.120820	CGTGTATTGTACGTGTGTTGCAT	60.121	43.478	0.00	0.00	36.83	3.96
3239	3969	4.090210	CGTGTATTGTACGTGTGTTGCATA	59.910	41.667	0.00	0.00	36.83	3.14
3409	4146	2.200370	TGGACCGGTGGAGAGTGT	59.800	61.111	14.63	0.00	0.00	3.55
3419	4156	3.535561	GGTGGAGAGTGTGGTCAATATG	58.464	50.000	0.00	0.00	0.00	1.78
3513	4250	2.237893	CCTACCCCAAGTCGGTTTGTAT	59.762	50.000	0.00	0.00	34.66	2.29
3527	4264	9.364653	AGTCGGTTTGTATCCTCTTATATACTT	57.635	33.333	0.00	0.00	31.24	2.24
3619	4356	0.835276	GGTTTAGGGTATGGCTCCGT	59.165	55.000	0.00	0.00	0.00	4.69
4117	4863	2.368439	GCAATATGGTGCAAGGAGACA	58.632	47.619	0.00	0.00	44.29	3.41
4189	4935	0.914551	CGAACTCGGCGATACAGTTG	59.085	55.000	11.27	0.00	35.37	3.16

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
1	2	1.805869	GTGCAGATGCTGACTGTTCT	58.194	50.000	6.35	0.00	42.66	3.01
2	3	0.441533	CGTGCAGATGCTGACTGTTC	59.558	55.000	6.35	0.00	42.66	3.18
4	5	0.250038	AACGTGCAGATGCTGACTGT	60.250	50.000	6.35	0.00	42.66	3.55
6	7	0.319728	AGAACGTGCAGATGCTGACT	59.680	50.000	6.35	2.47	42.66	3.41
7	8	1.136141	CAAGAACGTGCAGATGCTGAC	60.136	52.381	6.35	0.00	42.66	3.51
8	9	1.150827	CAAGAACGTGCAGATGCTGA	58.849	50.000	6.35	0.00	42.66	4.26
18	19	5.639506	ACTCATTCCTATCAACAAGAACGTG	59.360	40.000	0.00	0.00	0.00	4.49
23	24	8.539544	TCACATTACTCATTCCTATCAACAAGA	58.460	33.333	0.00	0.00	0.00	3.02
26	27	7.275183	CCTCACATTACTCATTCCTATCAACA	58.725	38.462	0.00	0.00	0.00	3.33
45	46	7.237982	TCATTTCTTCTTTTTATCCCCTCACA	58.762	34.615	0.00	0.00	0.00	3.58
47	48	8.719645	TTTCATTTCTTCTTTTTATCCCCTCA	57.280	30.769	0.00	0.00	0.00	3.86
88	91	4.137543	GCAGGGTTGGATATAAGGTTGAG	58.862	47.826	0.00	0.00	0.00	3.02
103	106	9.869757	GTTATGTCATAAAAATTAAGCAGGGTT	57.130	29.630	6.85	0.00	0.00	4.11
145	148	1.557269	AAGGGAGTAGCCAGCAGGTG	61.557	60.000	0.00	0.00	38.95	4.00
146	149	1.229658	AAGGGAGTAGCCAGCAGGT	60.230	57.895	0.00	0.00	38.95	4.00
147	150	1.524482	GAAGGGAGTAGCCAGCAGG	59.476	63.158	0.00	0.00	38.95	4.85
229	233	9.945904	AGCAAGCTTAGTAGTATTATATTTCCC	57.054	33.333	0.00	0.00	0.00	3.97
234	238	9.646427	GCAAGAGCAAGCTTAGTAGTATTATAT	57.354	33.333	0.00	0.00	41.58	0.86
237	241	6.281405	GGCAAGAGCAAGCTTAGTAGTATTA	58.719	40.000	0.00	0.00	44.61	0.98
242	393	2.284190	GGGCAAGAGCAAGCTTAGTAG	58.716	52.381	0.00	0.00	44.61	2.57
278	429	1.139058	CTATGGCTAACCGGAGCACTT	59.861	52.381	9.46	3.14	44.76	3.16
295	446	1.133790	GTACGTGTTCCGGCACTCTAT	59.866	52.381	5.66	0.00	42.24	1.98
301	452	1.537814	ATCCTGTACGTGTTCCGGCA	61.538	55.000	0.00	0.00	42.24	5.69
414	572	3.363844	GAGCAGGAGCACGGACCTC	62.364	68.421	0.00	0.00	45.49	3.85
421	580	0.686112	AGGAGTAGGAGCAGGAGCAC	60.686	60.000	0.00	0.00	45.49	4.40
422	581	0.927029	TAGGAGTAGGAGCAGGAGCA	59.073	55.000	0.00	0.00	45.49	4.26
423	582	1.324383	GTAGGAGTAGGAGCAGGAGC	58.676	60.000	0.00	0.00	42.56	4.70
424	583	2.303175	GTGTAGGAGTAGGAGCAGGAG	58.697	57.143	0.00	0.00	0.00	3.69
425	584	1.063867	GGTGTAGGAGTAGGAGCAGGA	60.064	57.143	0.00	0.00	0.00	3.86
426	585	1.404843	GGTGTAGGAGTAGGAGCAGG	58.595	60.000	0.00	0.00	0.00	4.85
443	602	1.693640	CTGCTGGGATTCCAAGGGT	59.306	57.895	9.23	0.00	43.51	4.34
447	606	1.377202	GTCGCTGCTGGGATTCCAA	60.377	57.895	13.35	0.00	43.51	3.53
690	882	0.873743	GTGCCTGCGCTCTAGCTAAG	60.874	60.000	9.73	0.00	39.32	2.18
691	883	1.141881	GTGCCTGCGCTCTAGCTAA	59.858	57.895	9.73	0.00	39.32	3.09
831	1030	5.423290	AGACACAGTGAGGTCAATCATGATA	59.577	40.000	9.04	0.00	38.01	2.15
895	1098	1.833630	CAATAGTGCAGGAGAGTCCCA	59.166	52.381	0.00	0.00	37.19	4.37
907	1110	4.083110	ACAGAAACTGCATGTCAATAGTGC	60.083	41.667	0.00	0.00	39.26	4.40
943	1146	3.991121	GCTTAGATTAGATCCTGCGGAAC	59.009	47.826	0.00	0.00	34.34	3.62
1024	1227	4.519437	TCAGCCGATGGAGCGCAG	62.519	66.667	11.47	0.00	34.64	5.18
1057	1260	3.275143	TCCGATTGACACTTGTTGTTGT	58.725	40.909	0.00	0.00	39.17	3.32
1058	1261	3.849645	GCTCCGATTGACACTTGTTGTTG	60.850	47.826	0.00	0.00	39.17	3.33
1059	1262	2.290641	GCTCCGATTGACACTTGTTGTT	59.709	45.455	0.00	0.00	39.17	2.83
1098	1319	1.220169	CTCAAGCGCCATCTCCGATG	61.220	60.000	2.29	0.00	0.00	3.84
1684	1906	0.251341	GGAGGATGCAGGTGTTGGTT	60.251	55.000	0.00	0.00	0.00	3.67
2121	2412	0.612174	CTTCACCACCTCCTCCTCGA	60.612	60.000	0.00	0.00	0.00	4.04
2309	2600	8.841444	TCGAGAATTTTGAAAAACTTCAGAAG	57.159	30.769	8.77	8.77	30.21	2.85
2310	2601	9.450807	GATCGAGAATTTTGAAAAACTTCAGAA	57.549	29.630	6.73	0.00	31.87	3.02
2312	2603	8.899776	CAGATCGAGAATTTTGAAAAACTTCAG	58.100	33.333	6.73	1.88	31.87	3.02
2314	2605	7.148902	GGCAGATCGAGAATTTTGAAAAACTTC	60.149	37.037	0.00	0.00	0.00	3.01
2382	3099	2.936498	AGTACGATACCTGCATGCAAAC	59.064	45.455	22.88	4.91	0.00	2.93
2612	3331	6.711277	AGGATAAACTACTTGCATTGACTGA	58.289	36.000	0.00	0.00	0.00	3.41
2652	3373	9.013229	TCAAGTCTAACAACAAAATATCTGCAT	57.987	29.630	0.00	0.00	0.00	3.96
2711	3432	8.682936	ATGATTCCCAGATAACATGTTTAGTC	57.317	34.615	17.78	12.47	0.00	2.59
3050	3775	0.880278	ACGTGTTGCACTACTGCTGG	60.880	55.000	0.00	0.00	44.57	4.85
3187	3917	2.315246	GCTTTAGCAGATGGGCGAG	58.685	57.895	0.00	0.00	41.59	5.03
3221	3951	3.061322	ACGTATGCAACACACGTACAAT	58.939	40.909	14.81	0.00	46.23	2.71
3236	3966	4.670992	CGACCGGGTAATCATCTACGTATG	60.671	50.000	6.32	0.00	0.00	2.39
3238	3968	2.807967	CGACCGGGTAATCATCTACGTA	59.192	50.000	6.32	0.00	0.00	3.57
3239	3969	1.605710	CGACCGGGTAATCATCTACGT	59.394	52.381	6.32	0.00	0.00	3.57
3241	3971	2.350197	CGTCGACCGGGTAATCATCTAC	60.350	54.545	10.58	0.00	0.00	2.59
3242	3972	1.875514	CGTCGACCGGGTAATCATCTA	59.124	52.381	10.58	0.00	0.00	1.98
3246	3976	1.875420	TTGCGTCGACCGGGTAATCA	61.875	55.000	10.58	0.00	36.94	2.57
3409	4146	6.545666	ACAAGAGTGTTGAAACATATTGACCA	59.454	34.615	7.07	0.00	41.59	4.02
3513	4250	8.755028	TGCGGCATATAAAAGTATATAAGAGGA	58.245	33.333	0.00	0.00	32.15	3.71
3527	4264	4.582240	TGATGATTTGGTGCGGCATATAAA	59.418	37.500	5.72	8.68	0.00	1.40
3530	4267	2.585330	TGATGATTTGGTGCGGCATAT	58.415	42.857	5.72	0.00	0.00	1.78
4117	4863	1.768888	AGAACAGGTTCACCGGGGT	60.769	57.895	2.12	0.00	41.84	4.95
4189	4935	3.741029	TGATTAGCTGTGAGTCGCC	57.259	52.632	0.00	0.00	0.00	5.54

Based at the University of Bristol with support from BBSRC.

AutoCloner maintained by Alex Coulton.