AutoCloner

Multiple sequence alignment - TraesCS2A01G047600

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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	TraesCS2A01G047600	chr2A	100.000	4350	0	0	1	4350	18425973	18421624	0.000000e+00	8034
1	TraesCS2A01G047600	chr2A	84.247	2444	305	36	996	3400	18544619	18547021	0.000000e+00	2307
2	TraesCS2A01G047600	chr2A	85.915	426	22	13	167	555	579838421	579837997	1.870000e-113	420
3	TraesCS2A01G047600	chr2D	95.217	3617	98	16	792	4350	17010836	17014435	0.000000e+00	5651
4	TraesCS2A01G047600	chr2D	84.862	1123	133	16	996	2100	16765264	16764161	0.000000e+00	1098
5	TraesCS2A01G047600	chr2D	83.969	131	16	4	660	788	175604719	175604846	2.120000e-23	121
6	TraesCS2A01G047600	chr2B	93.066	3173	165	18	811	3943	28882926	28886083	0.000000e+00	4590
7	TraesCS2A01G047600	chr2B	93.511	262	17	0	3928	4189	28886096	28886357	1.470000e-104	390
8	TraesCS2A01G047600	chr2B	82.090	134	19	3	661	791	785797229	785797098	4.600000e-20	110
9	TraesCS2A01G047600	chr6D	88.143	2429	221	34	996	3368	27056851	27059268	0.000000e+00	2828
10	TraesCS2A01G047600	chr6D	78.723	2491	446	63	998	3427	24377883	24375416	0.000000e+00	1587
11	TraesCS2A01G047600	chr6D	75.482	571	110	19	1137	1696	24294982	24294431	7.220000e-63	252
12	TraesCS2A01G047600	chr6B	88.049	1707	174	16	1523	3200	49306006	49307711	0.000000e+00	1995
13	TraesCS2A01G047600	chr6B	90.078	1290	120	6	2115	3398	49436673	49435386	0.000000e+00	1666
14	TraesCS2A01G047600	chr6B	89.945	1283	126	3	2117	3398	49537655	49538935	0.000000e+00	1652
15	TraesCS2A01G047600	chr6B	90.302	1258	119	3	2112	3368	49735160	49736415	0.000000e+00	1644
16	TraesCS2A01G047600	chr6B	84.873	1256	134	23	871	2098	49437949	49436722	0.000000e+00	1216
17	TraesCS2A01G047600	chr6B	85.538	1134	123	18	996	2098	49733991	49735114	0.000000e+00	1147
18	TraesCS2A01G047600	chr6B	77.028	949	177	31	1037	1957	39367185	39368120	1.400000e-139	507
19	TraesCS2A01G047600	chr6B	90.164	122	12	0	1964	2085	49536637	49536758	4.500000e-35	159
20	TraesCS2A01G047600	chr6B	91.667	96	8	0	675	770	184153630	184153535	2.730000e-27	134
21	TraesCS2A01G047600	chr6A	90.979	1297	111	6	2106	3398	28411635	28412929	0.000000e+00	1742
22	TraesCS2A01G047600	chr6A	78.115	2536	466	68	998	3470	22953048	22955557	0.000000e+00	1526
23	TraesCS2A01G047600	chr6A	84.710	1295	139	24	823	2086	28410320	28411586	0.000000e+00	1240
24	TraesCS2A01G047600	chr6A	90.682	440	25	4	357	788	91950290	91950721	4.880000e-159	571
25	TraesCS2A01G047600	chr6A	96.491	171	5	1	1	171	91949742	91949911	9.210000e-72	281
26	TraesCS2A01G047600	chr4A	93.349	436	22	3	360	788	597197493	597197928	4.740000e-179	638
27	TraesCS2A01G047600	chr4A	91.045	134	11	1	656	788	25785133	25785266	3.460000e-41	180
28	TraesCS2A01G047600	chr3A	87.349	498	24	9	167	625	681529740	681529243	6.400000e-148	534
29	TraesCS2A01G047600	chr3B	86.640	494	25	14	167	620	801185218	801185710	3.880000e-140	508
30	TraesCS2A01G047600	chr3B	89.151	212	12	2	582	788	447951780	447951985	2.010000e-63	254
31	TraesCS2A01G047600	chr7B	88.974	390	17	12	167	530	49216880	49217269	3.960000e-125	459
32	TraesCS2A01G047600	chr7B	84.833	389	21	13	167	518	126085407	126085020	1.490000e-94	357
33	TraesCS2A01G047600	chr7B	91.129	248	14	2	544	788	49217530	49217772	3.240000e-86	329
34	TraesCS2A01G047600	chr7B	96.491	171	5	1	1	171	49216557	49216726	9.210000e-72	281
35	TraesCS2A01G047600	chr7B	96.491	171	5	1	1	171	126085730	126085561	9.210000e-72	281
36	TraesCS2A01G047600	chr1A	86.130	447	24	13	167	576	563419804	563420249	8.580000e-122	448
37	TraesCS2A01G047600	chr1A	96.491	171	5	1	1	171	563419481	563419650	9.210000e-72	281
38	TraesCS2A01G047600	chr4D	79.395	694	70	42	167	795	500314646	500313961	5.200000e-114	422
39	TraesCS2A01G047600	chrUn	84.722	432	28	18	167	561	422670165	422669735	8.770000e-107	398
40	TraesCS2A01G047600	chrUn	94.071	253	12	1	360	609	399210060	399210312	8.830000e-102	381
41	TraesCS2A01G047600	chrUn	94.071	253	12	1	360	609	474517210	474516958	8.830000e-102	381
42	TraesCS2A01G047600	chrUn	89.764	254	13	3	544	789	361455569	361455321	3.270000e-81	313
43	TraesCS2A01G047600	chrUn	96.491	171	5	1	1	171	399209508	399209677	9.210000e-72	281
44	TraesCS2A01G047600	chrUn	96.491	171	5	1	1	171	422670488	422670319	9.210000e-72	281
45	TraesCS2A01G047600	chrUn	96.491	171	5	1	1	171	461623218	461623049	9.210000e-72	281
46	TraesCS2A01G047600	chr5B	84.974	386	22	16	167	516	278452799	278452414	4.140000e-95	359
47	TraesCS2A01G047600	chr5B	96.491	171	5	1	1	171	278453122	278452953	9.210000e-72	281
48	TraesCS2A01G047600	chr5B	94.118	68	4	0	721	788	509490128	509490061	2.140000e-18	104
49	TraesCS2A01G047600	chr5B	90.667	75	7	0	708	782	648746225	648746299	2.770000e-17	100
50	TraesCS2A01G047600	chr5A	95.853	217	9	0	360	576	634035081	634035297	6.920000e-93	351
51	TraesCS2A01G047600	chr5A	97.076	171	4	1	1	171	23877629	23877460	1.980000e-73	287
52	TraesCS2A01G047600	chr5A	92.000	75	6	0	708	782	633000239	633000165	5.950000e-19	106
53	TraesCS2A01G047600	chr1B	88.482	191	11	2	601	788	432306606	432306424	2.040000e-53	220

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	TraesCS2A01G047600	chr2A	18421624	18425973	4349	True	8034.000000	8034	100.0000	1	4350	1	chr2A.!!$R1	4349
1	TraesCS2A01G047600	chr2A	18544619	18547021	2402	False	2307.000000	2307	84.2470	996	3400	1	chr2A.!!$F1	2404
2	TraesCS2A01G047600	chr2D	17010836	17014435	3599	False	5651.000000	5651	95.2170	792	4350	1	chr2D.!!$F1	3558
3	TraesCS2A01G047600	chr2D	16764161	16765264	1103	True	1098.000000	1098	84.8620	996	2100	1	chr2D.!!$R1	1104
4	TraesCS2A01G047600	chr2B	28882926	28886357	3431	False	2490.000000	4590	93.2885	811	4189	2	chr2B.!!$F1	3378
5	TraesCS2A01G047600	chr6D	27056851	27059268	2417	False	2828.000000	2828	88.1430	996	3368	1	chr6D.!!$F1	2372
6	TraesCS2A01G047600	chr6D	24375416	24377883	2467	True	1587.000000	1587	78.7230	998	3427	1	chr6D.!!$R2	2429
7	TraesCS2A01G047600	chr6D	24294431	24294982	551	True	252.000000	252	75.4820	1137	1696	1	chr6D.!!$R1	559
8	TraesCS2A01G047600	chr6B	49306006	49307711	1705	False	1995.000000	1995	88.0490	1523	3200	1	chr6B.!!$F2	1677
9	TraesCS2A01G047600	chr6B	49435386	49437949	2563	True	1441.000000	1666	87.4755	871	3398	2	chr6B.!!$R2	2527
10	TraesCS2A01G047600	chr6B	49733991	49736415	2424	False	1395.500000	1644	87.9200	996	3368	2	chr6B.!!$F4	2372
11	TraesCS2A01G047600	chr6B	49536637	49538935	2298	False	905.500000	1652	90.0545	1964	3398	2	chr6B.!!$F3	1434
12	TraesCS2A01G047600	chr6B	39367185	39368120	935	False	507.000000	507	77.0280	1037	1957	1	chr6B.!!$F1	920
13	TraesCS2A01G047600	chr6A	22953048	22955557	2509	False	1526.000000	1526	78.1150	998	3470	1	chr6A.!!$F1	2472
14	TraesCS2A01G047600	chr6A	28410320	28412929	2609	False	1491.000000	1742	87.8445	823	3398	2	chr6A.!!$F2	2575
15	TraesCS2A01G047600	chr6A	91949742	91950721	979	False	426.000000	571	93.5865	1	788	2	chr6A.!!$F3	787
16	TraesCS2A01G047600	chr7B	49216557	49217772	1215	False	356.333333	459	92.1980	1	788	3	chr7B.!!$F1	787
17	TraesCS2A01G047600	chr7B	126085020	126085730	710	True	319.000000	357	90.6620	1	518	2	chr7B.!!$R1	517
18	TraesCS2A01G047600	chr1A	563419481	563420249	768	False	364.500000	448	91.3105	1	576	2	chr1A.!!$F1	575
19	TraesCS2A01G047600	chr4D	500313961	500314646	685	True	422.000000	422	79.3950	167	795	1	chr4D.!!$R1	628
20	TraesCS2A01G047600	chrUn	422669735	422670488	753	True	339.500000	398	90.6065	1	561	2	chrUn.!!$R4	560
21	TraesCS2A01G047600	chrUn	399209508	399210312	804	False	331.000000	381	95.2810	1	609	2	chrUn.!!$F1	608
22	TraesCS2A01G047600	chr5B	278452414	278453122	708	True	320.000000	359	90.7325	1	516	2	chr5B.!!$R2	515

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
905	1408	0.527817	GTACGTTGCGGCTGCTCTAT	60.528	55.000	20.27	4.62	43.34	1.98	F
1189	1699	0.396435	ATTCAACCTCACCTGCGACA	59.604	50.000	0.00	0.00	0.00	4.35	F
2167	3612	1.527034	TCTGTGCACATTCTTCAGGC	58.473	50.000	22.00	0.00	0.00	4.85	F
2489	3934	1.623311	TGGCGATCAAGAAGTCCAAGA	59.377	47.619	0.00	0.00	0.00	3.02	F

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability	Orientation
2492	3937	2.099921	CGTCAATCTCCCTCTGAATCGT	59.900	50.0	0.00	0.00	0.00	3.73	R
3222	4667	5.123820	TCCTTGTCATGCATTACAAAGCTAC	59.876	40.0	22.96	1.75	35.32	3.58	R
3243	4688	1.496060	TGGATACTTCGGCACATCCT	58.504	50.0	0.00	0.00	38.23	3.24	R
3572	5022	2.036556	ACGCTTGCATTTCTGTTTCG	57.963	45.0	0.00	0.00	0.00	3.46	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
22	23	2.722094	ACTCACAGAACTGCAAACCAA	58.278	42.857	1.46	0.00	0.00	3.67
119	120	4.159557	ACCCAACAGCTACCATGAATTTT	58.840	39.130	0.00	0.00	0.00	1.82
319	479	4.680537	AGAGTGGTCGGAGGCGGT	62.681	66.667	0.00	0.00	0.00	5.68
383	578	3.299977	CGGTGTCTGACGGGGTCA	61.300	66.667	2.98	0.00	40.50	4.02
450	645	4.175337	ATCGGATGTGGCGGGTGG	62.175	66.667	0.00	0.00	0.00	4.61
467	662	3.376078	GGTACACGAGGTGGGCGA	61.376	66.667	0.00	0.00	37.94	5.54
468	663	2.126189	GTACACGAGGTGGGCGAC	60.126	66.667	0.42	0.00	37.94	5.19
591	1070	2.852180	CGGTGATCGTATGGGGCGA	61.852	63.158	0.00	0.00	42.75	5.54
610	1089	4.007457	CGAGTAGACGGGGTGGAA	57.993	61.111	0.00	0.00	0.00	3.53
629	1108	2.064581	GGGCGAGTAGATGGGGTGT	61.065	63.158	0.00	0.00	0.00	4.16
651	1130	2.494918	GTAGATCGTGCGGGCAGT	59.505	61.111	0.00	0.00	0.00	4.40
652	1131	1.153628	GTAGATCGTGCGGGCAGTT	60.154	57.895	0.00	0.00	0.00	3.16
653	1132	0.739813	GTAGATCGTGCGGGCAGTTT	60.740	55.000	0.00	0.00	0.00	2.66
654	1133	0.739462	TAGATCGTGCGGGCAGTTTG	60.739	55.000	0.00	0.00	0.00	2.93
655	1134	2.281484	ATCGTGCGGGCAGTTTGT	60.281	55.556	0.00	0.00	0.00	2.83
656	1135	1.852067	GATCGTGCGGGCAGTTTGTT	61.852	55.000	0.00	0.00	0.00	2.83
657	1136	1.452145	ATCGTGCGGGCAGTTTGTTT	61.452	50.000	0.00	0.00	0.00	2.83
658	1137	0.814410	TCGTGCGGGCAGTTTGTTTA	60.814	50.000	0.00	0.00	0.00	2.01
690	1178	4.894203	CGCGGGGTCTACGTACGC	62.894	72.222	16.72	15.18	46.04	4.42
697	1185	0.950116	GGTCTACGTACGCCAGCTAT	59.050	55.000	16.72	0.00	0.00	2.97
905	1408	0.527817	GTACGTTGCGGCTGCTCTAT	60.528	55.000	20.27	4.62	43.34	1.98
920	1423	2.381911	CTCTATTGCAACCTGCCCAAT	58.618	47.619	0.00	0.00	44.23	3.16
1004	1510	7.272948	GGTATCATTTTACTATCCGACGATGAC	59.727	40.741	0.00	0.00	0.00	3.06
1189	1699	0.396435	ATTCAACCTCACCTGCGACA	59.604	50.000	0.00	0.00	0.00	4.35
1431	1959	4.680237	CAAGCCACGCTGGTCGGA	62.680	66.667	6.02	0.00	43.86	4.55
2100	3502	5.741388	GTGAGCACCAAGACCAATAATAG	57.259	43.478	0.00	0.00	0.00	1.73
2146	3587	4.898829	TCCTTCACAACAAAGACACATG	57.101	40.909	0.00	0.00	0.00	3.21
2167	3612	1.527034	TCTGTGCACATTCTTCAGGC	58.473	50.000	22.00	0.00	0.00	4.85
2489	3934	1.623311	TGGCGATCAAGAAGTCCAAGA	59.377	47.619	0.00	0.00	0.00	3.02
2492	3937	3.525537	GCGATCAAGAAGTCCAAGATCA	58.474	45.455	0.00	0.00	35.91	2.92
2546	3991	3.473647	TGGCCATCCTCTCGCAGG	61.474	66.667	0.00	0.00	45.15	4.85
3100	4545	2.757868	AGATCCTCAGGTCGTGAAAGAG	59.242	50.000	0.00	0.00	33.60	2.85
3243	4688	4.764308	TGGTAGCTTTGTAATGCATGACAA	59.236	37.500	23.41	23.41	33.81	3.18
3276	4721	6.467677	CGAAGTATCCAATGATTGAGGGTAT	58.532	40.000	6.76	0.00	32.18	2.73
3351	4796	0.116940	TCAAGGTACCCCCGGTAGTT	59.883	55.000	8.74	0.00	39.02	2.24
3476	4926	5.751990	TCTGAAGGAAACAACGAGACTTAAC	59.248	40.000	0.00	0.00	0.00	2.01
3572	5022	9.713740	CTGACAAATAAGAGAACTTGCATTATC	57.286	33.333	0.00	0.00	37.53	1.75
3783	5243	6.538381	GGAATGTTTCAACAACAATTTGAGGT	59.462	34.615	2.79	0.00	43.03	3.85
3820	5280	7.414540	GCAAATTCACCATCGAATACTTCTCTT	60.415	37.037	0.00	0.00	34.49	2.85
3821	5281	9.098355	CAAATTCACCATCGAATACTTCTCTTA	57.902	33.333	0.00	0.00	34.49	2.10
3822	5282	9.838339	AAATTCACCATCGAATACTTCTCTTAT	57.162	29.630	0.00	0.00	34.49	1.73
3823	5283	8.824159	ATTCACCATCGAATACTTCTCTTATG	57.176	34.615	0.00	0.00	33.82	1.90
3824	5284	6.216569	TCACCATCGAATACTTCTCTTATGC	58.783	40.000	0.00	0.00	0.00	3.14
3825	5285	5.985530	CACCATCGAATACTTCTCTTATGCA	59.014	40.000	0.00	0.00	0.00	3.96
3826	5286	5.986135	ACCATCGAATACTTCTCTTATGCAC	59.014	40.000	0.00	0.00	0.00	4.57
3827	5287	5.406780	CCATCGAATACTTCTCTTATGCACC	59.593	44.000	0.00	0.00	0.00	5.01
3828	5288	5.854010	TCGAATACTTCTCTTATGCACCT	57.146	39.130	0.00	0.00	0.00	4.00
3829	5289	5.833082	TCGAATACTTCTCTTATGCACCTC	58.167	41.667	0.00	0.00	0.00	3.85
3830	5290	5.594725	TCGAATACTTCTCTTATGCACCTCT	59.405	40.000	0.00	0.00	0.00	3.69
3831	5291	5.918011	CGAATACTTCTCTTATGCACCTCTC	59.082	44.000	0.00	0.00	0.00	3.20
3914	5386	2.596346	TCTCACCACACCAATGCATTT	58.404	42.857	9.83	0.00	0.00	2.32
3934	5434	9.202273	TGCATTTTTGTAGTTGGTTAATCATTC	57.798	29.630	0.00	0.00	0.00	2.67
4107	5608	6.863275	TCGATCTGTTCACTACACATTATGT	58.137	36.000	0.00	0.00	46.06	2.29
4138	5643	6.039270	TCACATCCCTTTTACACTTTGAGTTG	59.961	38.462	0.00	0.00	0.00	3.16
4199	5704	4.012374	ACAAGATTTGGCTGAGTACATGG	58.988	43.478	0.00	0.00	34.12	3.66
4207	5712	2.565841	GCTGAGTACATGGCCCTAAAG	58.434	52.381	0.00	0.00	0.00	1.85
4254	5759	4.523083	TCTTTGCAAGTTAAGGACACTGT	58.477	39.130	0.00	0.00	0.00	3.55
4262	5767	7.395206	TGCAAGTTAAGGACACTGTACTCTATA	59.605	37.037	0.00	0.00	0.00	1.31
4263	5768	7.701501	GCAAGTTAAGGACACTGTACTCTATAC	59.298	40.741	0.00	0.00	0.00	1.47
4264	5769	7.878547	AGTTAAGGACACTGTACTCTATACC	57.121	40.000	0.00	0.00	0.00	2.73
4265	5770	7.641249	AGTTAAGGACACTGTACTCTATACCT	58.359	38.462	0.00	0.00	0.00	3.08

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
77	78	4.457949	GGGTTCATGGATTACACGTCTTTT	59.542	41.667	0.00	0.00	0.00	2.27
119	120	6.100004	TGTTTGAACCATTGCGTTAAGAAAA	58.900	32.000	0.00	0.00	0.00	2.29
128	129	2.808244	AGTGTTGTTTGAACCATTGCG	58.192	42.857	0.00	0.00	0.00	4.85
156	157	3.584834	AGCAAGGTTTGTTTCACACAAC	58.415	40.909	0.00	0.00	45.54	3.32
296	455	1.609501	CTCCGACCACTCTCCCCAA	60.610	63.158	0.00	0.00	0.00	4.12
450	645	3.376078	TCGCCCACCTCGTGTACC	61.376	66.667	0.00	0.00	0.00	3.34
576	1052	2.852180	CGGTCGCCCCATACGATCA	61.852	63.158	0.00	0.00	40.68	2.92
610	1089	1.762460	CACCCCATCTACTCGCCCT	60.762	63.158	0.00	0.00	0.00	5.19
629	1108	4.201679	CCGCACGATCTACCCGCA	62.202	66.667	0.00	0.00	0.00	5.69
677	1165	1.097547	TAGCTGGCGTACGTAGACCC	61.098	60.000	17.90	9.49	0.00	4.46
719	1207	8.778059	AGATTGGTCATACAAAAGAAGGGTATA	58.222	33.333	0.00	0.00	33.48	1.47
732	1220	2.846206	AGAAGGGCAGATTGGTCATACA	59.154	45.455	0.00	0.00	0.00	2.29
804	1296	7.162761	GTCTAGGCTACACAGACATAGAGATA	58.837	42.308	9.70	0.00	38.82	1.98
805	1297	6.001460	GTCTAGGCTACACAGACATAGAGAT	58.999	44.000	9.70	0.00	38.82	2.75
806	1298	5.369833	GTCTAGGCTACACAGACATAGAGA	58.630	45.833	9.70	0.00	38.82	3.10
807	1299	4.517453	GGTCTAGGCTACACAGACATAGAG	59.483	50.000	15.12	0.00	40.38	2.43
808	1300	4.079958	TGGTCTAGGCTACACAGACATAGA	60.080	45.833	15.12	0.00	40.38	1.98
809	1301	4.207955	TGGTCTAGGCTACACAGACATAG	58.792	47.826	15.12	0.00	40.38	2.23
813	1305	1.751924	CCTGGTCTAGGCTACACAGAC	59.248	57.143	13.84	10.63	40.38	3.51
2100	3502	8.770438	AAGAGTCTCTGACATCTAAAATGAAC	57.230	34.615	2.28	0.00	34.60	3.18
2146	3587	2.351157	GCCTGAAGAATGTGCACAGAAC	60.351	50.000	25.84	17.43	0.00	3.01
2167	3612	2.699954	ACTCCAATGCCGACACTTAAG	58.300	47.619	0.00	0.00	0.00	1.85
2489	3934	3.963374	TCAATCTCCCTCTGAATCGTGAT	59.037	43.478	0.00	0.00	0.00	3.06
2492	3937	2.099921	CGTCAATCTCCCTCTGAATCGT	59.900	50.000	0.00	0.00	0.00	3.73
3222	4667	5.123820	TCCTTGTCATGCATTACAAAGCTAC	59.876	40.000	22.96	1.75	35.32	3.58
3243	4688	1.496060	TGGATACTTCGGCACATCCT	58.504	50.000	0.00	0.00	38.23	3.24
3276	4721	2.238521	GGCTTGTTTCCTCCATGTTCA	58.761	47.619	0.00	0.00	0.00	3.18
3554	5004	7.817478	TCTGTTTCGATAATGCAAGTTCTCTTA	59.183	33.333	0.00	0.00	32.07	2.10
3572	5022	2.036556	ACGCTTGCATTTCTGTTTCG	57.963	45.000	0.00	0.00	0.00	3.46
3715	5175	9.599866	TGTTATATTCGAAACTGTGATCATCTT	57.400	29.630	0.00	0.00	0.00	2.40
3783	5243	4.085009	TGGTGAATTTGCATCCATGTACA	58.915	39.130	0.00	0.00	0.00	2.90
3820	5280	5.326283	AGAGGTACATAGAGAGGTGCATA	57.674	43.478	0.00	0.00	0.00	3.14
3821	5281	4.191804	AGAGGTACATAGAGAGGTGCAT	57.808	45.455	0.00	0.00	0.00	3.96
3822	5282	3.671740	AGAGGTACATAGAGAGGTGCA	57.328	47.619	0.00	0.00	0.00	4.57
3823	5283	3.068873	CCAAGAGGTACATAGAGAGGTGC	59.931	52.174	0.00	0.00	0.00	5.01
3824	5284	4.927978	CCAAGAGGTACATAGAGAGGTG	57.072	50.000	0.00	0.00	0.00	4.00
3882	5354	4.051237	GTGTGGTGAGAAAGGAAAATTGC	58.949	43.478	0.00	0.00	0.00	3.56
3914	5386	8.684386	TCAGTGAATGATTAACCAACTACAAA	57.316	30.769	0.00	0.00	31.12	2.83
4107	5608	6.636454	AGTGTAAAAGGGATGTGAATCCTA	57.364	37.500	4.81	0.00	40.54	2.94
4262	5767	5.487488	TGTCCCTGATACTTTCATACAAGGT	59.513	40.000	0.00	0.00	32.72	3.50
4263	5768	5.989477	TGTCCCTGATACTTTCATACAAGG	58.011	41.667	0.00	0.00	32.72	3.61
4264	5769	6.878923	TGTTGTCCCTGATACTTTCATACAAG	59.121	38.462	0.00	0.00	34.60	3.16
4265	5770	6.774673	TGTTGTCCCTGATACTTTCATACAA	58.225	36.000	0.00	0.00	32.97	2.41
4319	5844	7.337184	TGTGTTGACTGTTTAGTAATGGTTTGA	59.663	33.333	0.00	0.00	37.25	2.69

Based at the University of Bristol with support from BBSRC.

AutoCloner maintained by Alex Coulton.