AutoCloner

Multiple sequence alignment - TraesCS5A01G217500

Loading Multiple Alignment...

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	TraesCS5A01G217500	chr5A	100.000	2465	0	0	1	2465	435474795	435477259	0.000000e+00	4553.0
1	TraesCS5A01G217500	chr5A	82.270	282	32	13	1000	1278	662064160	662063894	6.860000e-56	228.0
2	TraesCS5A01G217500	chr5A	89.441	161	16	1	541	700	518028435	518028595	4.160000e-48	202.0
3	TraesCS5A01G217500	chr5A	89.865	148	11	4	1103	1247	661666749	661666895	1.160000e-43	187.0
4	TraesCS5A01G217500	chr5A	90.152	132	11	2	1102	1232	662052922	662052792	1.170000e-38	171.0
5	TraesCS5A01G217500	chr5A	81.739	115	10	7	761	873	662064396	662064291	4.370000e-13	86.1
6	TraesCS5A01G217500	chr5A	100.000	28	0	0	1069	1096	328828000	328828027	4.000000e-03	52.8
7	TraesCS5A01G217500	chr5D	91.730	1572	69	15	728	2276	333978646	333980179	0.000000e+00	2126.0
8	TraesCS5A01G217500	chr5D	80.319	188	23	6	2278	2465	333982763	333982936	1.990000e-26	130.0
9	TraesCS5A01G217500	chr2A	98.716	701	9	0	1	701	180226683	180227383	0.000000e+00	1245.0
10	TraesCS5A01G217500	chr2A	98.851	435	5	0	1	435	192206267	192206701	0.000000e+00	776.0
11	TraesCS5A01G217500	chr2A	97.436	156	4	0	543	698	192206702	192206857	1.450000e-67	267.0
12	TraesCS5A01G217500	chr2A	88.194	144	13	3	2322	2465	558465263	558465402	4.220000e-38	169.0
13	TraesCS5A01G217500	chr7B	98.571	700	10	0	1	700	192767938	192767239	0.000000e+00	1238.0
14	TraesCS5A01G217500	chr7B	89.048	420	41	3	1	415	652185820	652185401	1.310000e-142	516.0
15	TraesCS5A01G217500	chr7B	90.968	155	12	2	548	701	576919162	576919009	8.930000e-50	207.0
16	TraesCS5A01G217500	chr7B	88.194	144	15	2	2322	2465	484632864	484632723	1.170000e-38	171.0
17	TraesCS5A01G217500	chr7B	87.500	144	16	2	2322	2465	336659370	336659511	5.450000e-37	165.0
18	TraesCS5A01G217500	chr5B	92.651	762	37	5	728	1477	390523646	390524400	0.000000e+00	1079.0
19	TraesCS5A01G217500	chr5B	92.388	762	39	5	728	1477	390402781	390403535	0.000000e+00	1068.0
20	TraesCS5A01G217500	chr5B	87.952	332	19	5	1505	1816	390524399	390524729	2.990000e-99	372.0
21	TraesCS5A01G217500	chr5B	87.349	332	21	5	1505	1816	390403534	390403864	6.480000e-96	361.0
22	TraesCS5A01G217500	chr5B	83.333	156	18	4	1965	2112	390404016	390404171	1.190000e-28	137.0
23	TraesCS5A01G217500	chr5B	83.333	156	18	4	1965	2112	390524881	390525036	1.190000e-28	137.0
24	TraesCS5A01G217500	chr5B	82.759	87	6	3	1825	1911	390403955	390404032	4.400000e-08	69.4
25	TraesCS5A01G217500	chr5B	82.759	87	6	3	1825	1911	390524820	390524897	4.400000e-08	69.4
26	TraesCS5A01G217500	chrUn	93.318	449	11	5	778	1214	475903559	475903118	0.000000e+00	645.0
27	TraesCS5A01G217500	chr2B	90.736	421	29	9	8	423	286517640	286517225	9.960000e-154	553.0
28	TraesCS5A01G217500	chr1D	90.215	419	37	3	1	415	202311771	202311353	6.000000e-151	544.0
29	TraesCS5A01G217500	chr1D	90.585	393	36	1	1	392	393436176	393435784	1.010000e-143	520.0
30	TraesCS5A01G217500	chr6D	90.025	401	38	2	1	400	21081089	21080690	3.630000e-143	518.0
31	TraesCS5A01G217500	chr7A	89.109	404	42	2	1	402	33742483	33742886	3.660000e-138	501.0
32	TraesCS5A01G217500	chr7A	89.677	155	16	0	553	707	95890963	95890809	5.380000e-47	198.0
33	TraesCS5A01G217500	chr7A	88.194	144	15	2	2322	2465	380514083	380514224	1.170000e-38	171.0
34	TraesCS5A01G217500	chr4B	87.186	398	40	5	315	701	240178405	240178008	2.250000e-120	442.0
35	TraesCS5A01G217500	chr4B	82.624	282	34	7	1000	1278	609575075	609575344	4.100000e-58	235.0
36	TraesCS5A01G217500	chr4B	89.189	148	12	4	1103	1247	610244401	610244255	5.420000e-42	182.0
37	TraesCS5A01G217500	chr4B	87.234	141	15	3	1103	1241	610098131	610097992	9.130000e-35	158.0
38	TraesCS5A01G217500	chr4B	100.000	28	0	0	1069	1096	22266593	22266620	4.000000e-03	52.8
39	TraesCS5A01G217500	chr6A	91.525	177	15	0	534	710	428662713	428662889	6.810000e-61	244.0
40	TraesCS5A01G217500	chr6A	86.111	144	18	2	2322	2465	878880	879021	1.180000e-33	154.0
41	TraesCS5A01G217500	chr4D	83.396	265	29	9	1000	1261	481338663	481338915	5.300000e-57	231.0
42	TraesCS5A01G217500	chr4D	87.293	181	12	7	541	711	481551468	481551289	1.930000e-46	196.0
43	TraesCS5A01G217500	chr4D	88.194	144	15	2	2322	2465	297380773	297380914	1.170000e-38	171.0
44	TraesCS5A01G217500	chr1A	89.583	144	13	2	2322	2465	27314441	27314300	5.420000e-42	182.0
45	TraesCS5A01G217500	chr6B	88.889	144	14	2	2322	2465	705856144	705856003	2.520000e-40	176.0
46	TraesCS5A01G217500	chr3D	88.194	144	15	2	2322	2465	584687240	584687381	1.170000e-38	171.0
47	TraesCS5A01G217500	chr1B	88.194	144	15	2	2322	2465	194779698	194779839	1.170000e-38	171.0
48	TraesCS5A01G217500	chr1B	86.111	144	18	2	2322	2465	114443166	114443307	1.180000e-33	154.0

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	TraesCS5A01G217500	chr5A	435474795	435477259	2464	False	4553.00	4553	100.00000	1	2465	1	chr5A.!!$F2	2464
1	TraesCS5A01G217500	chr5D	333978646	333982936	4290	False	1128.00	2126	86.02450	728	2465	2	chr5D.!!$F1	1737
2	TraesCS5A01G217500	chr2A	180226683	180227383	700	False	1245.00	1245	98.71600	1	701	1	chr2A.!!$F1	700
3	TraesCS5A01G217500	chr2A	192206267	192206857	590	False	521.50	776	98.14350	1	698	2	chr2A.!!$F3	697
4	TraesCS5A01G217500	chr7B	192767239	192767938	699	True	1238.00	1238	98.57100	1	700	1	chr7B.!!$R1	699
5	TraesCS5A01G217500	chr5B	390523646	390525036	1390	False	414.35	1079	86.67375	728	2112	4	chr5B.!!$F2	1384
6	TraesCS5A01G217500	chr5B	390402781	390404171	1390	False	408.85	1068	86.45725	728	2112	4	chr5B.!!$F1	1384

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
798	801	1.438651	GCCACAGACGTAGCAAATGA	58.561	50.0	0.0	0.0	29.21	2.57	F

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability	Orientation
2319	5024	0.179103	CAGGCCAATCAAAATCCCGC	60.179	55.0	5.01	0.0	0.0	6.13	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
198	199	9.594478	TTGATCGAGCAATTATTTCTACTGTAA	57.406	29.630	12.91	0.00	0.00	2.41
276	277	3.385111	CCTAGAAATTCTGCTAGACGGGT	59.615	47.826	5.64	0.00	36.97	5.28
693	694	5.183140	CCAATCCGTGCTTTATTATTAGGGG	59.817	44.000	0.00	0.00	0.00	4.79
701	702	7.881232	CGTGCTTTATTATTAGGGGGAGATTAA	59.119	37.037	0.00	0.00	0.00	1.40
702	703	9.582648	GTGCTTTATTATTAGGGGGAGATTAAA	57.417	33.333	0.00	0.00	0.00	1.52
743	744	7.483580	AGGGAAAGATTATTATACTCCGGAG	57.516	40.000	30.11	30.11	0.00	4.63
798	801	1.438651	GCCACAGACGTAGCAAATGA	58.561	50.000	0.00	0.00	29.21	2.57
850	853	1.446792	CACAGGCTGCGGTCACTAG	60.447	63.158	15.89	0.00	0.00	2.57
900	903	1.689813	TGTGGCACGTGGGGTATATAG	59.310	52.381	18.88	0.00	0.00	1.31
928	943	4.870123	TTGCTTAGCACCACAAATCATT	57.130	36.364	6.34	0.00	38.71	2.57
987	1004	4.453819	ACACGTAGTCACTTACTGTAGGTC	59.546	45.833	0.00	0.00	41.61	3.85
1025	1042	0.035056	CAGGTAAACTGGGAGCAGGG	60.035	60.000	0.00	0.00	43.70	4.45
1146	1163	3.869272	CGCATGTTCCGCAGCTCC	61.869	66.667	0.00	0.00	0.00	4.70
1311	1328	2.474816	GGTGACAGCGACTTCATATCC	58.525	52.381	0.00	0.00	0.00	2.59
1319	1336	1.335964	CGACTTCATATCCGCGGATGT	60.336	52.381	43.28	36.64	36.17	3.06
1331	1348	1.519455	CGGATGTGAAGGCGAGGAC	60.519	63.158	0.00	0.00	0.00	3.85
1339	1356	3.591254	AAGGCGAGGACAACGGAGC	62.591	63.158	0.00	0.00	0.00	4.70
1347	1364	2.665185	ACAACGGAGCCGCTCAAC	60.665	61.111	21.76	4.72	44.19	3.18
1348	1365	2.664851	CAACGGAGCCGCTCAACA	60.665	61.111	21.76	0.00	44.19	3.33
1370	1387	1.449070	CTGCTCCGATGCTTGCTGA	60.449	57.895	0.00	0.00	0.00	4.26
1371	1388	1.429927	CTGCTCCGATGCTTGCTGAG	61.430	60.000	0.00	0.00	0.00	3.35
1512	1529	6.402550	CGACAACTTTACTTGATTGCTAGCAT	60.403	38.462	20.13	8.84	0.00	3.79
1515	1532	7.809806	ACAACTTTACTTGATTGCTAGCATTTC	59.190	33.333	20.13	18.29	0.00	2.17
1516	1533	6.856895	ACTTTACTTGATTGCTAGCATTTCC	58.143	36.000	20.13	8.58	0.00	3.13
1552	1569	0.592637	TCTGCTTTGCGGTTCATGTG	59.407	50.000	0.00	0.00	36.18	3.21
1902	2020	2.359230	GCCAGCTGCCGAAACTCT	60.359	61.111	8.66	0.00	0.00	3.24
1911	2029	2.229062	CTGCCGAAACTCTACTGTCTCA	59.771	50.000	0.00	0.00	0.00	3.27
1912	2030	2.030185	TGCCGAAACTCTACTGTCTCAC	60.030	50.000	0.00	0.00	0.00	3.51
1931	2049	0.404040	CCAAGGGGTCAGCTTGGTAA	59.596	55.000	0.00	0.00	41.79	2.85
1932	2050	1.614317	CCAAGGGGTCAGCTTGGTAAG	60.614	57.143	0.00	0.00	41.79	2.34
1936	2054	1.065636	GGGGTCAGCTTGGTAAGGTAC	60.066	57.143	0.00	0.00	37.49	3.34
2000	2118	2.619646	TCTAAGTTCCAAAAACGTGCCC	59.380	45.455	0.00	0.00	0.00	5.36
2002	2120	0.748729	AGTTCCAAAAACGTGCCCGA	60.749	50.000	0.00	0.00	37.88	5.14
2024	2142	6.456501	CGAAATATACTGAGGTAGGGAAAGG	58.543	44.000	0.00	0.00	0.00	3.11
2093	2213	9.823647	ATCTAAGATACAGTGTAAAAGGATGTG	57.176	33.333	7.16	0.00	0.00	3.21
2124	2244	9.639601	AGGCAGTTTATAAGATTTTTGTTTAGC	57.360	29.630	0.00	0.00	0.00	3.09
2136	2256	4.543590	TTTGTTTAGCTGGAGGAGAGAG	57.456	45.455	0.00	0.00	0.00	3.20
2141	2261	5.071788	TGTTTAGCTGGAGGAGAGAGAAAAA	59.928	40.000	0.00	0.00	0.00	1.94
2160	2282	5.952526	AAAAACGGGGTGTAGAATTACAG	57.047	39.130	0.00	0.00	40.33	2.74
2165	2287	2.158798	GGGGTGTAGAATTACAGAGGGC	60.159	54.545	0.00	0.00	40.33	5.19
2206	2329	6.513180	ACATCTTTTGTGAGAGAGAAACGTA	58.487	36.000	0.00	0.00	37.11	3.57
2213	2336	4.337274	TGTGAGAGAGAAACGTAGAACACA	59.663	41.667	0.00	0.00	33.30	3.72
2246	2369	8.743714	TGGCACAACATACAAATATGATTAACA	58.256	29.630	1.40	0.00	41.33	2.41
2276	2399	5.666462	TGAGTGCGCTATTAATTAGGTTGA	58.334	37.500	9.73	0.00	0.00	3.18
2289	4994	2.233305	AGGTTGACAGAGTACCGGAT	57.767	50.000	9.46	0.00	37.04	4.18
2319	5024	5.240891	ATGACAACATGTACTCAAGTGGAG	58.759	41.667	0.00	0.00	41.30	3.86
2320	5025	6.314152	ATGACAACATGTACTCAAGTGGAGC	61.314	44.000	0.00	0.00	40.18	4.70
2327	5032	3.558674	CTCAAGTGGAGCGGGATTT	57.441	52.632	0.00	0.00	36.69	2.17
2328	5033	1.826385	CTCAAGTGGAGCGGGATTTT	58.174	50.000	0.00	0.00	36.69	1.82
2329	5034	1.470098	CTCAAGTGGAGCGGGATTTTG	59.530	52.381	0.00	0.00	36.69	2.44
2332	5037	2.493278	CAAGTGGAGCGGGATTTTGATT	59.507	45.455	0.00	0.00	0.00	2.57
2333	5038	2.094675	AGTGGAGCGGGATTTTGATTG	58.905	47.619	0.00	0.00	0.00	2.67
2335	5040	0.103026	GGAGCGGGATTTTGATTGGC	59.897	55.000	0.00	0.00	0.00	4.52
2336	5041	0.103026	GAGCGGGATTTTGATTGGCC	59.897	55.000	0.00	0.00	0.00	5.36
2337	5042	0.324645	AGCGGGATTTTGATTGGCCT	60.325	50.000	3.32	0.00	0.00	5.19
2338	5043	0.179103	GCGGGATTTTGATTGGCCTG	60.179	55.000	3.32	0.00	0.00	4.85
2339	5044	0.179103	CGGGATTTTGATTGGCCTGC	60.179	55.000	3.32	0.00	0.00	4.85
2340	5045	0.179103	GGGATTTTGATTGGCCTGCG	60.179	55.000	3.32	0.00	0.00	5.18
2341	5046	0.807275	GGATTTTGATTGGCCTGCGC	60.807	55.000	3.32	0.00	0.00	6.09
2355	5060	1.382522	CTGCGCCTTAATGTCATGGT	58.617	50.000	4.18	0.00	0.00	3.55
2376	5081	4.814771	GGTAACATCTTCTATCCCGTTTGG	59.185	45.833	0.00	0.00	0.00	3.28
2392	5097	4.460505	CGTTTGGATTCGGTTAACTTGAC	58.539	43.478	5.42	0.00	0.00	3.18
2394	5099	5.449304	GTTTGGATTCGGTTAACTTGACAG	58.551	41.667	5.42	0.00	0.00	3.51
2398	5103	5.221561	TGGATTCGGTTAACTTGACAGAAGA	60.222	40.000	5.42	0.00	35.32	2.87
2408	5113	5.053978	ACTTGACAGAAGAAAGGGATGTT	57.946	39.130	0.00	0.00	0.00	2.71
2431	5136	6.408858	TTTTCGCTGAAATCTCACTACATC	57.591	37.500	4.91	0.00	31.34	3.06
2433	5138	6.451064	TTCGCTGAAATCTCACTACATCTA	57.549	37.500	0.00	0.00	0.00	1.98
2445	5150	7.293828	TCTCACTACATCTAGATCCTTCACAT	58.706	38.462	1.03	0.00	0.00	3.21
2448	5153	8.200120	TCACTACATCTAGATCCTTCACATTTG	58.800	37.037	1.03	0.00	0.00	2.32
2451	5156	6.950842	ACATCTAGATCCTTCACATTTGACA	58.049	36.000	1.03	0.00	0.00	3.58
2456	5161	8.200120	TCTAGATCCTTCACATTTGACACTATG	58.800	37.037	0.00	0.00	0.00	2.23
2460	5165	6.170506	TCCTTCACATTTGACACTATGTACC	58.829	40.000	2.87	0.00	33.42	3.34

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
198	199	2.596046	TGCGACGTGGCCCAAAAT	60.596	55.556	20.26	0.00	0.00	1.82
276	277	7.908082	CGAATTTTCTTATGTTAATCCGCTTCA	59.092	33.333	0.00	0.00	0.00	3.02
716	717	9.556772	TCCGGAGTATAATAATCTTTCCCTAAT	57.443	33.333	0.00	0.00	0.00	1.73
717	718	8.961293	TCCGGAGTATAATAATCTTTCCCTAA	57.039	34.615	0.00	0.00	0.00	2.69
718	719	8.175431	ACTCCGGAGTATAATAATCTTTCCCTA	58.825	37.037	35.59	0.00	40.43	3.53
719	720	7.017531	ACTCCGGAGTATAATAATCTTTCCCT	58.982	38.462	35.59	3.83	40.43	4.20
720	721	7.242322	ACTCCGGAGTATAATAATCTTTCCC	57.758	40.000	35.59	0.00	40.43	3.97
726	727	9.939802	ACCAAATAACTCCGGAGTATAATAATC	57.060	33.333	36.42	0.00	41.58	1.75
756	757	2.032681	AAGAGCACCTGGCCGAAC	59.967	61.111	0.00	0.00	46.50	3.95
850	853	1.880340	CTGTTCCTCGCGATCAGGC	60.880	63.158	10.36	0.00	35.47	4.85
900	903	2.360801	TGTGGTGCTAAGCAAAGGAAAC	59.639	45.455	0.00	0.00	41.47	2.78
928	943	0.244994	GCGTGAGAGAAAGAGAGCCA	59.755	55.000	0.00	0.00	0.00	4.75
987	1004	2.507484	TGTTCCATTGAAGGCACAGAG	58.493	47.619	0.00	0.00	29.72	3.35
1009	1026	1.745489	CGCCCTGCTCCCAGTTTAC	60.745	63.158	0.00	0.00	37.38	2.01
1040	1057	2.286523	CGGAGGGTGAGCTCAAGGT	61.287	63.158	20.19	5.21	0.00	3.50
1133	1150	4.020617	CCTGGGAGCTGCGGAACA	62.021	66.667	0.00	0.00	0.00	3.18
1290	1307	2.120232	GATATGAAGTCGCTGTCACCG	58.880	52.381	0.00	0.00	0.00	4.94
1293	1310	1.536072	GCGGATATGAAGTCGCTGTCA	60.536	52.381	0.00	0.00	44.10	3.58
1311	1328	3.257561	CTCGCCTTCACATCCGCG	61.258	66.667	0.00	0.00	45.76	6.46
1319	1336	2.154798	CTCCGTTGTCCTCGCCTTCA	62.155	60.000	0.00	0.00	0.00	3.02
1331	1348	2.664851	TGTTGAGCGGCTCCGTTG	60.665	61.111	26.00	0.00	42.09	4.10
1347	1364	4.827087	AGCATCGGAGCAGCGGTG	62.827	66.667	10.98	10.98	36.85	4.94
1348	1365	4.087892	AAGCATCGGAGCAGCGGT	62.088	61.111	3.00	0.00	36.85	5.68
1354	1371	0.532417	ATCTCAGCAAGCATCGGAGC	60.532	55.000	0.00	0.00	0.00	4.70
1516	1533	2.223340	GCAGACATTGGCATACCGAAAG	60.223	50.000	0.00	0.00	39.70	2.62
1552	1569	8.862550	AGAGTCTGAAACAAACAATTCATTTC	57.137	30.769	0.00	0.00	35.20	2.17
1821	1857	3.381949	GTCCAGTTAAATCGATCGGGAG	58.618	50.000	16.41	0.00	0.00	4.30
1889	2007	1.067495	AGACAGTAGAGTTTCGGCAGC	60.067	52.381	0.00	0.00	0.00	5.25
1892	2010	2.597520	GTGAGACAGTAGAGTTTCGGC	58.402	52.381	0.00	0.00	0.00	5.54
1894	2012	3.917329	TGGTGAGACAGTAGAGTTTCG	57.083	47.619	0.00	0.00	0.00	3.46
1895	2013	4.561105	CCTTGGTGAGACAGTAGAGTTTC	58.439	47.826	0.00	0.00	0.00	2.78
1902	2020	3.884467	ACCCCTTGGTGAGACAGTA	57.116	52.632	0.00	0.00	45.58	2.74
1967	2085	4.417437	TGGAACTTAGAGGCAGTAGAGTT	58.583	43.478	0.00	0.00	0.00	3.01
1968	2086	4.048970	TGGAACTTAGAGGCAGTAGAGT	57.951	45.455	0.00	0.00	0.00	3.24
1969	2087	5.407407	TTTGGAACTTAGAGGCAGTAGAG	57.593	43.478	0.00	0.00	0.00	2.43
1977	2095	3.304458	GGCACGTTTTTGGAACTTAGAGG	60.304	47.826	0.00	0.00	0.00	3.69
2000	2118	6.267014	TCCTTTCCCTACCTCAGTATATTTCG	59.733	42.308	0.00	0.00	0.00	3.46
2002	2120	8.019652	AGATCCTTTCCCTACCTCAGTATATTT	58.980	37.037	0.00	0.00	0.00	1.40
2119	2239	5.825593	TTTTTCTCTCTCCTCCAGCTAAA	57.174	39.130	0.00	0.00	0.00	1.85
2141	2261	3.197116	CCTCTGTAATTCTACACCCCGTT	59.803	47.826	0.00	0.00	34.28	4.44
2143	2263	2.102588	CCCTCTGTAATTCTACACCCCG	59.897	54.545	0.00	0.00	34.28	5.73
2160	2282	0.682292	GAGCCCATACTACAGCCCTC	59.318	60.000	0.00	0.00	0.00	4.30
2165	2287	3.389329	AGATGTTGGAGCCCATACTACAG	59.611	47.826	0.00	0.00	30.37	2.74
2171	2293	3.763360	CACAAAAGATGTTGGAGCCCATA	59.237	43.478	0.00	0.00	41.46	2.74
2206	2329	6.832520	TGTTGTGCCATTAATATGTGTTCT	57.167	33.333	0.00	0.00	0.00	3.01
2245	2368	9.533983	CTAATTAATAGCGCACTCATACAATTG	57.466	33.333	11.47	3.24	0.00	2.32
2246	2369	8.721478	CCTAATTAATAGCGCACTCATACAATT	58.279	33.333	11.47	6.61	0.00	2.32
2249	2372	6.755206	ACCTAATTAATAGCGCACTCATACA	58.245	36.000	11.47	0.00	0.00	2.29
2250	2373	7.384115	TCAACCTAATTAATAGCGCACTCATAC	59.616	37.037	11.47	0.00	0.00	2.39
2254	2377	5.522460	TGTCAACCTAATTAATAGCGCACTC	59.478	40.000	11.47	0.00	0.00	3.51
2259	2382	7.381678	GGTACTCTGTCAACCTAATTAATAGCG	59.618	40.741	0.00	0.00	0.00	4.26
2276	2399	4.468510	TCATAACCAAATCCGGTACTCTGT	59.531	41.667	0.00	0.00	38.76	3.41
2289	4994	7.500892	ACTTGAGTACATGTTGTCATAACCAAA	59.499	33.333	2.30	0.00	31.81	3.28
2319	5024	0.179103	CAGGCCAATCAAAATCCCGC	60.179	55.000	5.01	0.00	0.00	6.13
2320	5025	0.179103	GCAGGCCAATCAAAATCCCG	60.179	55.000	5.01	0.00	0.00	5.14
2323	5028	2.669419	GCGCAGGCCAATCAAAATC	58.331	52.632	5.01	0.00	0.00	2.17
2324	5029	4.917474	GCGCAGGCCAATCAAAAT	57.083	50.000	5.01	0.00	0.00	1.82
2335	5040	0.664761	CCATGACATTAAGGCGCAGG	59.335	55.000	10.83	0.00	0.00	4.85
2336	5041	1.382522	ACCATGACATTAAGGCGCAG	58.617	50.000	10.83	0.00	0.00	5.18
2337	5042	2.680841	GTTACCATGACATTAAGGCGCA	59.319	45.455	10.83	0.00	0.00	6.09
2338	5043	2.680841	TGTTACCATGACATTAAGGCGC	59.319	45.455	0.00	0.00	0.00	6.53
2339	5044	4.816385	AGATGTTACCATGACATTAAGGCG	59.184	41.667	0.00	0.00	37.83	5.52
2340	5045	6.543831	AGAAGATGTTACCATGACATTAAGGC	59.456	38.462	0.00	0.00	37.83	4.35
2341	5046	9.784531	ATAGAAGATGTTACCATGACATTAAGG	57.215	33.333	0.00	0.00	37.83	2.69
2343	5048	9.778741	GGATAGAAGATGTTACCATGACATTAA	57.221	33.333	0.00	0.00	37.83	1.40
2344	5049	8.375506	GGGATAGAAGATGTTACCATGACATTA	58.624	37.037	0.00	0.00	37.83	1.90
2345	5050	7.227156	GGGATAGAAGATGTTACCATGACATT	58.773	38.462	0.00	0.00	37.83	2.71
2346	5051	6.519043	CGGGATAGAAGATGTTACCATGACAT	60.519	42.308	0.00	0.00	40.27	3.06
2347	5052	5.221441	CGGGATAGAAGATGTTACCATGACA	60.221	44.000	0.00	0.00	0.00	3.58
2348	5053	5.221461	ACGGGATAGAAGATGTTACCATGAC	60.221	44.000	0.00	0.00	0.00	3.06
2349	5054	4.899457	ACGGGATAGAAGATGTTACCATGA	59.101	41.667	0.00	0.00	0.00	3.07
2350	5055	5.215252	ACGGGATAGAAGATGTTACCATG	57.785	43.478	0.00	0.00	0.00	3.66
2355	5060	5.943349	TCCAAACGGGATAGAAGATGTTA	57.057	39.130	0.00	0.00	42.15	2.41
2370	5075	4.024725	TGTCAAGTTAACCGAATCCAAACG	60.025	41.667	0.88	0.00	0.00	3.60
2376	5081	6.780706	TTCTTCTGTCAAGTTAACCGAATC	57.219	37.500	0.88	0.00	0.00	2.52
2382	5087	6.486993	ACATCCCTTTCTTCTGTCAAGTTAAC	59.513	38.462	0.00	0.00	0.00	2.01
2392	5097	4.022849	AGCGAAAAACATCCCTTTCTTCTG	60.023	41.667	0.00	0.00	30.80	3.02
2394	5099	4.023193	TCAGCGAAAAACATCCCTTTCTTC	60.023	41.667	0.00	0.00	30.80	2.87
2398	5103	4.664150	TTTCAGCGAAAAACATCCCTTT	57.336	36.364	0.00	0.00	0.00	3.11
2408	5113	6.166279	AGATGTAGTGAGATTTCAGCGAAAA	58.834	36.000	7.59	0.00	35.11	2.29
2431	5136	7.984050	ACATAGTGTCAAATGTGAAGGATCTAG	59.016	37.037	0.00	0.00	35.06	2.43
2433	5138	6.715280	ACATAGTGTCAAATGTGAAGGATCT	58.285	36.000	0.00	0.00	35.06	2.75

Based at the University of Bristol with support from BBSRC.

AutoCloner maintained by Alex Coulton.