AutoCloner

Multiple sequence alignment - TraesCS2B01G498300

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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	TraesCS2B01G498300	chr2B	100.000	3734	0	0	1	3734	694942747	694946480	0.000000e+00	6896
1	TraesCS2B01G498300	chr2B	91.522	1439	122	0	1312	2750	615736000	615737438	0.000000e+00	1982
2	TraesCS2B01G498300	chr2B	91.061	1432	125	3	1324	2754	615788433	615789862	0.000000e+00	1932
3	TraesCS2B01G498300	chr2B	90.449	178	13	3	1	176	694664182	694664357	8.070000e-57	231
4	TraesCS2B01G498300	chr2A	94.393	2051	85	11	769	2809	715806237	715808267	0.000000e+00	3123
5	TraesCS2B01G498300	chr2A	90.096	1464	140	5	1287	2749	667959410	667960869	0.000000e+00	1895
6	TraesCS2B01G498300	chr2A	82.053	1237	200	17	1361	2586	667964302	667965527	0.000000e+00	1035
7	TraesCS2B01G498300	chr2A	79.015	1401	265	26	1355	2736	667942226	667943616	0.000000e+00	931
8	TraesCS2B01G498300	chr2A	86.412	471	46	14	160	626	715803029	715803485	2.000000e-137	499
9	TraesCS2B01G498300	chr2A	92.364	275	13	4	2797	3064	715808288	715808561	5.850000e-103	385
10	TraesCS2B01G498300	chr2D	94.625	1935	74	9	1136	3063	577609567	577607656	0.000000e+00	2970
11	TraesCS2B01G498300	chr2D	90.664	1521	133	7	1237	2754	522689271	522690785	0.000000e+00	2013
12	TraesCS2B01G498300	chr2D	90.922	1410	123	3	1347	2754	522749256	522750662	0.000000e+00	1890
13	TraesCS2B01G498300	chr2D	82.305	1215	195	14	1361	2565	522752626	522753830	0.000000e+00	1035
14	TraesCS2B01G498300	chr2D	86.139	606	62	17	160	753	577611270	577610675	5.260000e-178	634
15	TraesCS2B01G498300	chr2D	91.205	307	17	4	750	1047	577609919	577609614	3.470000e-110	409
16	TraesCS2B01G498300	chr2D	75.364	686	91	37	3062	3734	512838479	512839099	3.700000e-65	259
17	TraesCS2B01G498300	chr2D	89.726	146	11	2	1	145	577611468	577611326	2.290000e-42	183
18	TraesCS2B01G498300	chr5D	91.113	1339	86	12	1355	2681	551892007	551890690	0.000000e+00	1783
19	TraesCS2B01G498300	chr4D	79.272	632	69	27	3064	3687	26913096	26913673	5.850000e-103	385
20	TraesCS2B01G498300	chr4D	76.296	675	88	41	3063	3725	69941390	69942004	1.010000e-75	294
21	TraesCS2B01G498300	chr7D	77.536	690	116	26	3061	3734	41696435	41697101	2.720000e-101	379
22	TraesCS2B01G498300	chr7D	74.266	443	86	16	3063	3497	543243411	543242989	1.070000e-35	161
23	TraesCS2B01G498300	chr6D	77.712	673	110	21	3067	3725	303063968	303064614	3.520000e-100	375
24	TraesCS2B01G498300	chr3D	77.741	602	85	30	3054	3644	550268116	550268679	1.290000e-84	324
25	TraesCS2B01G498300	chr7A	76.100	682	120	23	3063	3734	29842962	29843610	2.160000e-82	316
26	TraesCS2B01G498300	chr7A	75.499	551	99	22	3189	3726	360229331	360229858	1.730000e-58	237
27	TraesCS2B01G498300	chr1D	76.489	638	105	27	3063	3683	26285327	26285936	4.690000e-79	305
28	TraesCS2B01G498300	chr1D	79.950	404	63	14	3063	3455	226470979	226471375	7.900000e-72	281
29	TraesCS2B01G498300	chr1D	78.238	386	60	16	3061	3441	475824525	475824891	3.750000e-55	226
30	TraesCS2B01G498300	chr5A	77.088	467	80	20	3064	3516	699688343	699687890	1.040000e-60	244
31	TraesCS2B01G498300	chr3A	78.571	392	58	17	3056	3438	687101520	687101894	6.230000e-58	235
32	TraesCS2B01G498300	chr3A	74.401	543	92	25	3060	3586	104114138	104114649	4.920000e-44	189
33	TraesCS2B01G498300	chr3A	86.992	123	15	1	3064	3186	743374395	743374274	1.810000e-28	137
34	TraesCS2B01G498300	chr4A	74.487	682	100	36	3063	3734	522171618	522172235	1.040000e-55	228
35	TraesCS2B01G498300	chr6A	73.152	663	113	37	3065	3698	399723581	399724207	1.070000e-40	178
36	TraesCS2B01G498300	chrUn	75.921	353	66	15	3280	3625	28710323	28710663	2.980000e-36	163
37	TraesCS2B01G498300	chr5B	79.661	236	29	13	3509	3733	596983711	596983484	6.460000e-33	152

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	TraesCS2B01G498300	chr2B	694942747	694946480	3733	False	6896.000000	6896	100.000000	1	3734	1	chr2B.!!$F4	3733
1	TraesCS2B01G498300	chr2B	615736000	615737438	1438	False	1982.000000	1982	91.522000	1312	2750	1	chr2B.!!$F1	1438
2	TraesCS2B01G498300	chr2B	615788433	615789862	1429	False	1932.000000	1932	91.061000	1324	2754	1	chr2B.!!$F2	1430
3	TraesCS2B01G498300	chr2A	667959410	667965527	6117	False	1465.000000	1895	86.074500	1287	2749	2	chr2A.!!$F2	1462
4	TraesCS2B01G498300	chr2A	715803029	715808561	5532	False	1335.666667	3123	91.056333	160	3064	3	chr2A.!!$F3	2904
5	TraesCS2B01G498300	chr2A	667942226	667943616	1390	False	931.000000	931	79.015000	1355	2736	1	chr2A.!!$F1	1381
6	TraesCS2B01G498300	chr2D	522689271	522690785	1514	False	2013.000000	2013	90.664000	1237	2754	1	chr2D.!!$F2	1517
7	TraesCS2B01G498300	chr2D	522749256	522753830	4574	False	1462.500000	1890	86.613500	1347	2754	2	chr2D.!!$F3	1407
8	TraesCS2B01G498300	chr2D	577607656	577611468	3812	True	1049.000000	2970	90.423750	1	3063	4	chr2D.!!$R1	3062
9	TraesCS2B01G498300	chr2D	512838479	512839099	620	False	259.000000	259	75.364000	3062	3734	1	chr2D.!!$F1	672
10	TraesCS2B01G498300	chr5D	551890690	551892007	1317	True	1783.000000	1783	91.113000	1355	2681	1	chr5D.!!$R1	1326
11	TraesCS2B01G498300	chr4D	26913096	26913673	577	False	385.000000	385	79.272000	3064	3687	1	chr4D.!!$F1	623
12	TraesCS2B01G498300	chr4D	69941390	69942004	614	False	294.000000	294	76.296000	3063	3725	1	chr4D.!!$F2	662
13	TraesCS2B01G498300	chr7D	41696435	41697101	666	False	379.000000	379	77.536000	3061	3734	1	chr7D.!!$F1	673
14	TraesCS2B01G498300	chr6D	303063968	303064614	646	False	375.000000	375	77.712000	3067	3725	1	chr6D.!!$F1	658
15	TraesCS2B01G498300	chr3D	550268116	550268679	563	False	324.000000	324	77.741000	3054	3644	1	chr3D.!!$F1	590
16	TraesCS2B01G498300	chr7A	29842962	29843610	648	False	316.000000	316	76.100000	3063	3734	1	chr7A.!!$F1	671
17	TraesCS2B01G498300	chr7A	360229331	360229858	527	False	237.000000	237	75.499000	3189	3726	1	chr7A.!!$F2	537
18	TraesCS2B01G498300	chr1D	26285327	26285936	609	False	305.000000	305	76.489000	3063	3683	1	chr1D.!!$F1	620
19	TraesCS2B01G498300	chr4A	522171618	522172235	617	False	228.000000	228	74.487000	3063	3734	1	chr4A.!!$F1	671

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
109	111	0.958091	CCAAAAGCCATCAACGTCCA	59.042	50.0	0.0	0.0	0.0	4.02	F
1004	3718	0.740737	GGCATTTCGTGGAAGATGGG	59.259	55.0	0.0	0.0	0.0	4.00	F

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability	Orientation
1289	4008	0.102120	GAGTGGCCGATGAGACTGAG	59.898	60.000	0.00	0.0	0.00	3.35	R
2736	5485	1.135053	TCGGCATCATGGCATTTTGTG	60.135	47.619	12.41	0.0	43.94	3.33	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
44	45	6.854578	TGGAATAAAACTCCCTTTTACCTCA	58.145	36.000	0.00	0.00	37.19	3.86
50	51	6.860790	AAACTCCCTTTTACCTCACAAAAA	57.139	33.333	0.00	0.00	0.00	1.94
78	80	4.699257	AGATCATGAGCCTTCTTTGTGTTC	59.301	41.667	7.49	0.00	0.00	3.18
79	81	4.090761	TCATGAGCCTTCTTTGTGTTCT	57.909	40.909	0.00	0.00	0.00	3.01
80	82	3.817084	TCATGAGCCTTCTTTGTGTTCTG	59.183	43.478	0.00	0.00	0.00	3.02
100	102	2.170187	TGTGTCAAAAGCCAAAAGCCAT	59.830	40.909	0.00	0.00	45.47	4.40
101	103	2.802247	GTGTCAAAAGCCAAAAGCCATC	59.198	45.455	0.00	0.00	45.47	3.51
102	104	2.433604	TGTCAAAAGCCAAAAGCCATCA	59.566	40.909	0.00	0.00	45.47	3.07
103	105	3.118482	TGTCAAAAGCCAAAAGCCATCAA	60.118	39.130	0.00	0.00	45.47	2.57
109	111	0.958091	CCAAAAGCCATCAACGTCCA	59.042	50.000	0.00	0.00	0.00	4.02
110	112	1.545582	CCAAAAGCCATCAACGTCCAT	59.454	47.619	0.00	0.00	0.00	3.41
116	118	2.439507	AGCCATCAACGTCCATATCCTT	59.560	45.455	0.00	0.00	0.00	3.36
123	125	1.283613	ACGTCCATATCCTTGCCCAAA	59.716	47.619	0.00	0.00	0.00	3.28
145	147	7.257722	CAAATAGTGTGTCAAGTGTTCCTTTT	58.742	34.615	0.00	0.00	0.00	2.27
146	148	7.404671	AATAGTGTGTCAAGTGTTCCTTTTT	57.595	32.000	0.00	0.00	0.00	1.94
148	150	6.190954	AGTGTGTCAAGTGTTCCTTTTTAC	57.809	37.500	0.00	0.00	0.00	2.01
151	153	7.039993	AGTGTGTCAAGTGTTCCTTTTTACTTT	60.040	33.333	0.00	0.00	31.47	2.66
152	154	7.597369	GTGTGTCAAGTGTTCCTTTTTACTTTT	59.403	33.333	0.00	0.00	31.47	2.27
154	156	8.432359	GTGTCAAGTGTTCCTTTTTACTTTTTG	58.568	33.333	0.00	0.00	31.47	2.44
155	157	7.117092	TGTCAAGTGTTCCTTTTTACTTTTTGC	59.883	33.333	0.00	0.00	31.47	3.68
156	158	6.592220	TCAAGTGTTCCTTTTTACTTTTTGCC	59.408	34.615	0.00	0.00	31.47	4.52
157	159	5.106442	AGTGTTCCTTTTTACTTTTTGCCG	58.894	37.500	0.00	0.00	0.00	5.69
158	160	4.269123	GTGTTCCTTTTTACTTTTTGCCGG	59.731	41.667	0.00	0.00	0.00	6.13
200	243	8.250143	TCTCTTGATGATATAGCCAGTTTACA	57.750	34.615	0.00	0.00	0.00	2.41
323	368	5.809562	CCAACTGACTGAGACAGTGAATATC	59.190	44.000	17.55	0.00	45.44	1.63
328	375	7.386299	ACTGACTGAGACAGTGAATATCAAAAC	59.614	37.037	16.26	0.00	45.44	2.43
332	379	9.071276	ACTGAGACAGTGAATATCAAAACAATT	57.929	29.630	0.00	0.00	43.63	2.32
432	481	1.270358	ACTGAAGTCAAGCGAAGGGAC	60.270	52.381	0.00	0.00	0.00	4.46
447	496	1.226717	GGACGTGAGATGAGCCGAC	60.227	63.158	0.00	0.00	0.00	4.79
462	511	2.231235	AGCCGACCCATTTAAGCTTTTG	59.769	45.455	3.20	0.20	0.00	2.44
464	513	3.574614	CCGACCCATTTAAGCTTTTGTG	58.425	45.455	3.20	0.77	0.00	3.33
466	515	2.986479	GACCCATTTAAGCTTTTGTGCG	59.014	45.455	3.20	0.00	38.13	5.34
477	526	6.489127	AAGCTTTTGTGCGTTGTACATATA	57.511	33.333	0.00	0.00	38.13	0.86
696	2063	9.013229	AGTCCAAATTTTCTTCAAAAGCTTTTT	57.987	25.926	21.70	4.96	34.92	1.94
697	2064	9.064804	GTCCAAATTTTCTTCAAAAGCTTTTTG	57.935	29.630	21.70	16.21	34.92	2.44
742	2111	8.800031	TCGAAAAACTTAGAATTTTGGAAAACG	58.200	29.630	8.93	0.00	32.64	3.60
780	3492	1.486211	CGGGTGTCCTTACTCCAGAT	58.514	55.000	0.00	0.00	40.41	2.90
861	3573	5.138125	TGAATTGATTGAAGGAAACCAGC	57.862	39.130	0.00	0.00	0.00	4.85
884	3596	4.053295	GACGCAACAACTAACTACTTCCA	58.947	43.478	0.00	0.00	0.00	3.53
928	3640	6.394809	TCAACTCGTCTACTTGCATGATTTA	58.605	36.000	6.60	0.00	0.00	1.40
1004	3718	0.740737	GGCATTTCGTGGAAGATGGG	59.259	55.000	0.00	0.00	0.00	4.00
1030	3744	6.537301	CCTGGTAAGTGTATTAATCTGCGAAA	59.463	38.462	0.00	0.00	0.00	3.46
1039	3754	5.659048	ATTAATCTGCGAAAATCTCCGAC	57.341	39.130	0.00	0.00	0.00	4.79
1051	3766	2.893215	TCTCCGACCCTGAGAAACTA	57.107	50.000	0.00	0.00	35.98	2.24
1068	3783	9.256228	TGAGAAACTACTACCTCTGTATCAAAT	57.744	33.333	0.00	0.00	0.00	2.32
1143	3859	4.403752	ACACCGAGGAGTACTAAATTACCC	59.596	45.833	0.00	0.00	0.00	3.69
1144	3860	4.648307	CACCGAGGAGTACTAAATTACCCT	59.352	45.833	0.00	0.00	0.00	4.34
1163	3879	1.482593	CTAGATTTGGAGCGTCACCCT	59.517	52.381	0.00	0.00	0.00	4.34
1190	3906	4.574674	TGCTCTGAACCTGGATGTAATT	57.425	40.909	0.00	0.00	0.00	1.40
1192	3908	5.324409	TGCTCTGAACCTGGATGTAATTTT	58.676	37.500	0.00	0.00	0.00	1.82
1223	3939	2.345244	AGCTTCCGCTGTGACCTG	59.655	61.111	0.00	0.00	46.86	4.00
1224	3940	3.426568	GCTTCCGCTGTGACCTGC	61.427	66.667	0.00	0.00	0.00	4.85
1225	3941	2.345244	CTTCCGCTGTGACCTGCT	59.655	61.111	0.00	0.00	33.71	4.24
1226	3942	1.739562	CTTCCGCTGTGACCTGCTC	60.740	63.158	0.00	0.00	33.71	4.26
1227	3943	2.164865	CTTCCGCTGTGACCTGCTCT	62.165	60.000	0.00	0.00	33.71	4.09
1228	3944	2.433838	CCGCTGTGACCTGCTCTG	60.434	66.667	0.00	0.00	33.71	3.35
1229	3945	3.117171	CGCTGTGACCTGCTCTGC	61.117	66.667	0.00	0.00	33.71	4.26
1230	3946	2.346739	GCTGTGACCTGCTCTGCT	59.653	61.111	0.00	0.00	33.74	4.24
1251	3967	1.949257	CGTTGGCCTCTGGTTTGTC	59.051	57.895	3.32	0.00	0.00	3.18
1271	3990	2.903784	TCCACTGCCGCCTACATATAAT	59.096	45.455	0.00	0.00	0.00	1.28
1272	3991	4.081862	GTCCACTGCCGCCTACATATAATA	60.082	45.833	0.00	0.00	0.00	0.98
1273	3992	4.528987	TCCACTGCCGCCTACATATAATAA	59.471	41.667	0.00	0.00	0.00	1.40
1282	4001	4.090930	GCCTACATATAATAACGTGCCGTG	59.909	45.833	0.94	0.00	39.99	4.94
1337	4061	2.142220	ACCACAGAACGGTGATGGT	58.858	52.632	6.66	0.00	41.32	3.55
1413	4137	2.116125	GGCCACCTCAACCAGCTT	59.884	61.111	0.00	0.00	0.00	3.74
1773	4499	4.749310	CTGCTCAACGGCGAGGCT	62.749	66.667	16.62	0.00	33.36	4.58
2409	5158	2.032634	GGCGGCGTTCATGAGTCAA	61.033	57.895	9.37	0.00	0.00	3.18
2874	6530	8.539544	TCCTTTGATAATTCATGTGTCAGACTA	58.460	33.333	1.31	0.00	0.00	2.59
2994	6737	6.443849	AGAGATGACCTACCCAAAAATACTGA	59.556	38.462	0.00	0.00	0.00	3.41
3023	6766	5.408909	TCAACAACTAAATGCAAATGCCATG	59.591	36.000	2.46	0.00	41.18	3.66
3236	7265	6.344936	CCGTGAACAATTTTCAAATTCGTGAG	60.345	38.462	5.12	0.00	36.52	3.51
3244	7273	6.959671	TTTTCAAATTCGTGAGCACTTTTT	57.040	29.167	0.00	0.00	0.00	1.94

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
51	52	6.041296	ACACAAAGAAGGCTCATGATCTTTTT	59.959	34.615	16.00	9.74	39.43	1.94
78	80	2.204237	GGCTTTTGGCTTTTGACACAG	58.796	47.619	0.00	0.00	37.04	3.66
79	81	1.552337	TGGCTTTTGGCTTTTGACACA	59.448	42.857	0.00	0.00	46.20	3.72
80	82	2.307934	TGGCTTTTGGCTTTTGACAC	57.692	45.000	0.00	0.00	46.20	3.67
100	102	1.134220	GGGCAAGGATATGGACGTTGA	60.134	52.381	0.00	0.00	35.89	3.18
101	103	1.308998	GGGCAAGGATATGGACGTTG	58.691	55.000	0.00	0.00	36.58	4.10
102	104	0.916086	TGGGCAAGGATATGGACGTT	59.084	50.000	0.00	0.00	0.00	3.99
103	105	0.916086	TTGGGCAAGGATATGGACGT	59.084	50.000	0.00	0.00	0.00	4.34
109	111	5.129368	ACACACTATTTGGGCAAGGATAT	57.871	39.130	0.00	0.00	27.52	1.63
110	112	4.018870	TGACACACTATTTGGGCAAGGATA	60.019	41.667	0.00	0.00	27.52	2.59
116	118	2.884012	CACTTGACACACTATTTGGGCA	59.116	45.455	0.00	0.00	27.52	5.36
123	125	7.773690	AGTAAAAAGGAACACTTGACACACTAT	59.226	33.333	0.00	0.00	39.96	2.12
145	147	4.398673	ACAACACTTACCGGCAAAAAGTAA	59.601	37.500	0.00	0.00	32.35	2.24
146	148	3.946558	ACAACACTTACCGGCAAAAAGTA	59.053	39.130	0.00	0.00	32.35	2.24
148	150	3.112580	CACAACACTTACCGGCAAAAAG	58.887	45.455	0.00	2.87	0.00	2.27
151	153	1.402259	CACACAACACTTACCGGCAAA	59.598	47.619	0.00	0.00	0.00	3.68
152	154	1.018148	CACACAACACTTACCGGCAA	58.982	50.000	0.00	0.00	0.00	4.52
154	156	0.865769	CTCACACAACACTTACCGGC	59.134	55.000	0.00	0.00	0.00	6.13
155	157	2.234300	ACTCACACAACACTTACCGG	57.766	50.000	0.00	0.00	0.00	5.28
156	158	3.454375	AGAACTCACACAACACTTACCG	58.546	45.455	0.00	0.00	0.00	4.02
157	159	4.694339	AGAGAACTCACACAACACTTACC	58.306	43.478	4.64	0.00	0.00	2.85
158	160	5.810587	TCAAGAGAACTCACACAACACTTAC	59.189	40.000	4.64	0.00	0.00	2.34
249	292	0.032813	CTCCATGGGGGTGCTGAAAT	60.033	55.000	13.02	0.00	38.11	2.17
351	399	5.186198	AGGAAATGTCATTAGAAGAACCGG	58.814	41.667	0.00	0.00	0.00	5.28
352	400	8.438676	AATAGGAAATGTCATTAGAAGAACCG	57.561	34.615	0.00	0.00	0.00	4.44
432	481	2.021068	ATGGGTCGGCTCATCTCACG	62.021	60.000	0.00	0.00	27.20	4.35
447	496	3.025287	ACGCACAAAAGCTTAAATGGG	57.975	42.857	0.00	9.15	0.00	4.00
462	511	6.764877	AACTAGCATATATGTACAACGCAC	57.235	37.500	14.14	0.00	0.00	5.34
464	513	7.069569	CCAAAACTAGCATATATGTACAACGC	58.930	38.462	14.14	0.00	0.00	4.84
466	515	8.671384	TCCCAAAACTAGCATATATGTACAAC	57.329	34.615	14.14	0.00	0.00	3.32
477	526	3.542969	AAGGGTTCCCAAAACTAGCAT	57.457	42.857	10.73	0.00	0.00	3.79
499	1859	1.280457	AACCAAACCAAAACCTGCCA	58.720	45.000	0.00	0.00	0.00	4.92
673	2040	8.969121	ACAAAAAGCTTTTGAAGAAAATTTGG	57.031	26.923	24.50	0.00	34.50	3.28
717	2085	8.588789	ACGTTTTCCAAAATTCTAAGTTTTTCG	58.411	29.630	0.00	0.00	0.00	3.46
724	2092	7.227992	TGCAAACGTTTTCCAAAATTCTAAG	57.772	32.000	11.66	0.00	0.00	2.18
725	2093	7.778470	ATGCAAACGTTTTCCAAAATTCTAA	57.222	28.000	11.66	0.00	0.00	2.10
742	2111	3.108144	CCGCAGTGCTTATAATGCAAAC	58.892	45.455	14.33	1.41	41.36	2.93
861	3573	3.120782	GGAAGTAGTTAGTTGTTGCGTCG	59.879	47.826	0.00	0.00	0.00	5.12
884	3596	2.237392	GAGGACTTGGCCTGTCAGTTAT	59.763	50.000	23.78	9.55	38.73	1.89
928	3640	5.334105	GGTCGCAATTCGCAGATTTATACAT	60.334	40.000	1.75	0.00	42.60	2.29
941	3655	1.157870	AATAGCCGGGTCGCAATTCG	61.158	55.000	10.79	0.00	40.15	3.34
945	3659	2.822255	GCAATAGCCGGGTCGCAA	60.822	61.111	10.79	0.00	33.58	4.85
957	3671	2.732844	TGGCTCATGTCATGGCAATA	57.267	45.000	20.77	0.00	33.38	1.90
1004	3718	4.211374	CGCAGATTAATACACTTACCAGGC	59.789	45.833	0.00	0.00	0.00	4.85
1030	3744	2.541466	AGTTTCTCAGGGTCGGAGATT	58.459	47.619	0.00	0.00	40.82	2.40
1039	3754	4.345854	ACAGAGGTAGTAGTTTCTCAGGG	58.654	47.826	0.00	0.00	0.00	4.45
1102	3817	9.418045	CCTCGGTGTCAAAATATAAAACATTTT	57.582	29.630	0.00	0.00	36.31	1.82
1104	3819	8.343168	TCCTCGGTGTCAAAATATAAAACATT	57.657	30.769	0.00	0.00	0.00	2.71
1106	3821	6.938030	ACTCCTCGGTGTCAAAATATAAAACA	59.062	34.615	0.00	0.00	0.00	2.83
1107	3822	7.373778	ACTCCTCGGTGTCAAAATATAAAAC	57.626	36.000	0.00	0.00	0.00	2.43
1112	3828	5.934402	AGTACTCCTCGGTGTCAAAATAT	57.066	39.130	0.00	0.00	0.00	1.28
1121	3837	4.648307	AGGGTAATTTAGTACTCCTCGGTG	59.352	45.833	0.00	0.00	0.00	4.94
1143	3859	1.482593	AGGGTGACGCTCCAAATCTAG	59.517	52.381	0.00	0.00	0.00	2.43
1144	3860	1.568504	AGGGTGACGCTCCAAATCTA	58.431	50.000	0.00	0.00	0.00	1.98
1163	3879	4.225942	ACATCCAGGTTCAGAGCAAATCTA	59.774	41.667	0.00	0.00	36.10	1.98
1190	3906	0.332632	AGCTTCCTGGCCATGCTAAA	59.667	50.000	5.51	0.00	31.71	1.85
1192	3908	0.107017	GAAGCTTCCTGGCCATGCTA	60.107	55.000	15.97	3.54	33.28	3.49
1222	3938	3.663176	GCCAACGCAAGCAGAGCA	61.663	61.111	0.00	0.00	45.62	4.26
1223	3939	4.410743	GGCCAACGCAAGCAGAGC	62.411	66.667	0.00	0.00	45.62	4.09
1224	3940	2.670934	AGGCCAACGCAAGCAGAG	60.671	61.111	5.01	0.00	45.62	3.35
1225	3941	2.669569	GAGGCCAACGCAAGCAGA	60.670	61.111	5.01	0.00	45.62	4.26
1226	3942	2.670934	AGAGGCCAACGCAAGCAG	60.671	61.111	5.01	0.00	45.62	4.24
1227	3943	2.979676	CAGAGGCCAACGCAAGCA	60.980	61.111	5.01	0.00	45.62	3.91
1228	3944	3.741476	CCAGAGGCCAACGCAAGC	61.741	66.667	5.01	0.00	45.62	4.01
1230	3946	1.454847	AAACCAGAGGCCAACGCAA	60.455	52.632	5.01	0.00	36.38	4.85
1251	3967	2.831685	TTATATGTAGGCGGCAGTGG	57.168	50.000	13.08	0.00	0.00	4.00
1282	4001	1.520342	GATGAGACTGAGCGGCACC	60.520	63.158	1.45	0.00	0.00	5.01
1289	4008	0.102120	GAGTGGCCGATGAGACTGAG	59.898	60.000	0.00	0.00	0.00	3.35
1337	4061	1.150827	CATTGCGTGCTTCTCTGTCA	58.849	50.000	0.00	0.00	0.00	3.58
1524	4250	1.186267	GGAACTGGACGGACTGGAGT	61.186	60.000	0.00	0.00	0.00	3.85
1760	4486	2.736995	CGAAAGCCTCGCCGTTGA	60.737	61.111	0.00	0.00	41.49	3.18
1844	4570	1.671379	GTGAAGACCAGGCCGTTCC	60.671	63.158	0.00	0.00	0.00	3.62
1886	4612	2.125912	CGCACTCCAGGAACTCCG	60.126	66.667	0.00	0.00	42.08	4.63
2409	5158	2.125512	GTCGAGTTCCAGCCGCAT	60.126	61.111	0.00	0.00	0.00	4.73
2736	5485	1.135053	TCGGCATCATGGCATTTTGTG	60.135	47.619	12.41	0.00	43.94	3.33
2874	6530	1.270907	ACTGAAATGTCCGAGCTCCT	58.729	50.000	8.47	0.00	0.00	3.69
2994	6737	6.073112	GCATTTGCATTTAGTTGTTGACCATT	60.073	34.615	0.00	0.00	41.59	3.16
3102	6899	7.703621	GTCATGACCATTGGAGTTTATGATTTG	59.296	37.037	15.31	0.00	0.00	2.32
3211	7223	5.457148	TCACGAATTTGAAAATTGTTCACGG	59.543	36.000	5.76	0.00	38.64	4.94
3361	7397	7.080353	TGTTCGTCGATTCTAGAAATAGTCA	57.920	36.000	9.71	0.00	0.00	3.41
3365	7401	9.967245	CAAAAATGTTCGTCGATTCTAGAAATA	57.033	29.630	9.71	0.00	0.00	1.40

Based at the University of Bristol with support from BBSRC.

AutoCloner maintained by Alex Coulton.