AutoCloner

Multiple sequence alignment - TraesCS1D01G074700

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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	TraesCS1D01G074700	chr1D	100.000	4150	0	0	1	4150	56431029	56426880	0.000000e+00	7664.0
1	TraesCS1D01G074700	chr1D	93.342	1517	80	12	1848	3357	56874417	56872915	0.000000e+00	2222.0
2	TraesCS1D01G074700	chr1D	92.527	1365	70	15	399	1735	56610981	56609621	0.000000e+00	1927.0
3	TraesCS1D01G074700	chr1D	92.819	1323	56	12	2396	3681	56529582	56528262	0.000000e+00	1881.0
4	TraesCS1D01G074700	chr1D	88.882	1556	104	33	223	1735	56531619	56530090	0.000000e+00	1851.0
5	TraesCS1D01G074700	chr1D	91.561	1339	64	11	1995	3323	56609460	56608161	0.000000e+00	1801.0
6	TraesCS1D01G074700	chr1D	88.735	1447	80	33	329	1735	56875897	56874494	0.000000e+00	1692.0
7	TraesCS1D01G074700	chr1D	94.647	411	20	2	3604	4013	56869027	56868618	1.630000e-178	636.0
8	TraesCS1D01G074700	chr1D	93.023	387	21	4	1	383	56618832	56618448	1.010000e-155	560.0
9	TraesCS1D01G074700	chr1D	86.157	484	47	10	135	602	56612821	56612342	4.790000e-139	505.0
10	TraesCS1D01G074700	chr1D	86.758	438	27	8	367	793	56618435	56618018	3.780000e-125	459.0
11	TraesCS1D01G074700	chr1D	94.636	261	14	0	3382	3642	56608151	56607891	5.000000e-109	405.0
12	TraesCS1D01G074700	chr1D	80.268	522	44	21	1905	2396	57073748	57073256	5.140000e-89	339.0
13	TraesCS1D01G074700	chr1D	83.554	377	41	11	1439	1811	57200749	57200390	2.390000e-87	333.0
14	TraesCS1D01G074700	chr1D	90.323	248	24	0	985	1232	57219350	57219103	4.000000e-85	326.0
15	TraesCS1D01G074700	chr1D	88.382	241	13	6	2090	2323	56529807	56529575	4.090000e-70	276.0
16	TraesCS1D01G074700	chr1D	96.835	158	5	0	3358	3515	56869542	56869385	8.850000e-67	265.0
17	TraesCS1D01G074700	chr1D	90.355	197	19	0	1245	1441	57212907	57212711	4.120000e-65	259.0
18	TraesCS1D01G074700	chr1D	88.406	138	11	3	206	338	56876310	56876173	1.190000e-35	161.0
19	TraesCS1D01G074700	chr1D	96.203	79	2	1	113	191	56612930	56612853	1.210000e-25	128.0
20	TraesCS1D01G074700	chr1D	92.045	88	7	0	1848	1935	56609544	56609457	1.570000e-24	124.0
21	TraesCS1D01G074700	chr1D	100.000	29	0	0	1758	1786	56530050	56530022	2.000000e-03	54.7
22	TraesCS1D01G074700	chr1A	96.047	2049	68	5	2091	4134	54459970	54462010	0.000000e+00	3323.0
23	TraesCS1D01G074700	chr1A	91.653	2432	128	26	1250	3642	56369549	56371944	0.000000e+00	3297.0
24	TraesCS1D01G074700	chr1A	88.146	1780	119	45	329	2044	56336704	56338455	0.000000e+00	2034.0
25	TraesCS1D01G074700	chr1A	87.698	1707	133	39	135	1785	54458050	54459735	0.000000e+00	1917.0
26	TraesCS1D01G074700	chr1A	94.278	1136	50	7	2090	3218	56338470	56339597	0.000000e+00	1724.0
27	TraesCS1D01G074700	chr1A	93.266	787	53	0	3217	4003	56340308	56341094	0.000000e+00	1160.0
28	TraesCS1D01G074700	chr1A	89.841	502	27	8	451	938	56368136	56368627	1.270000e-174	623.0
29	TraesCS1D01G074700	chr1A	89.097	321	29	3	135	449	56367776	56368096	1.080000e-105	394.0
30	TraesCS1D01G074700	chr1A	93.833	227	14	0	1010	1236	56369276	56369502	3.970000e-90	342.0
31	TraesCS1D01G074700	chr1A	85.517	290	25	11	64	338	56365270	56365557	1.890000e-73	287.0
32	TraesCS1D01G074700	chr1A	90.863	197	11	3	1	191	54457820	54458015	1.480000e-64	257.0
33	TraesCS1D01G074700	chr1A	92.727	165	10	2	27	191	56367581	56367743	1.930000e-58	237.0
34	TraesCS1D01G074700	chr1A	100.000	29	0	0	4122	4150	54462045	54462073	2.000000e-03	54.7
35	TraesCS1D01G074700	chr1B	93.443	2120	91	12	1902	4003	91881289	91879200	0.000000e+00	3101.0
36	TraesCS1D01G074700	chr1B	90.498	863	58	9	972	1824	91882368	91881520	0.000000e+00	1118.0
37	TraesCS1D01G074700	chr1B	84.906	583	37	17	325	892	91882938	91882392	3.650000e-150	542.0
38	TraesCS1D01G074700	chr1B	84.615	286	26	12	69	338	91883498	91883215	6.840000e-68	268.0
39	TraesCS1D01G074700	chr1B	87.379	103	11	2	1295	1396	608950044	608950145	2.620000e-22	117.0
40	TraesCS1D01G074700	chr7B	76.075	372	72	14	1295	1659	409712036	409711675	1.190000e-40	178.0
41	TraesCS1D01G074700	chr5D	85.135	74	9	2	1109	1181	315485471	315485399	1.600000e-09	75.0

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	TraesCS1D01G074700	chr1D	56426880	56431029	4149	True	7664.000000	7664	100.000000	1	4150	1	chr1D.!!$R1	4149
1	TraesCS1D01G074700	chr1D	56528262	56531619	3357	True	1015.675000	1881	92.520750	223	3681	4	chr1D.!!$R6	3458
2	TraesCS1D01G074700	chr1D	56868618	56876310	7692	True	995.200000	2222	92.393000	206	4013	5	chr1D.!!$R9	3807
3	TraesCS1D01G074700	chr1D	56607891	56612930	5039	True	815.000000	1927	92.188167	113	3642	6	chr1D.!!$R7	3529
4	TraesCS1D01G074700	chr1D	56618018	56618832	814	True	509.500000	560	89.890500	1	793	2	chr1D.!!$R8	792
5	TraesCS1D01G074700	chr1A	56336704	56341094	4390	False	1639.333333	2034	91.896667	329	4003	3	chr1A.!!$F2	3674
6	TraesCS1D01G074700	chr1A	54457820	54462073	4253	False	1387.925000	3323	93.652000	1	4150	4	chr1A.!!$F1	4149
7	TraesCS1D01G074700	chr1A	56365270	56371944	6674	False	863.333333	3297	90.444667	27	3642	6	chr1A.!!$F3	3615
8	TraesCS1D01G074700	chr1B	91879200	91883498	4298	True	1257.250000	3101	88.365500	69	4003	4	chr1B.!!$R1	3934

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
890	5211	0.035881	CGATGGGTGGAGCATAGCAT	59.964	55.000	0.00	0.00	3.79	F
914	5235	0.376152	GCTGATCACTCCATTGCACG	59.624	55.000	0.00	0.00	5.34	F
1752	6751	0.872021	GCTTACATGCGAGAGACCGG	60.872	60.000	0.00	0.00	5.28	F
2163	7419	1.682684	ACCGTGGCCTCTACCAGAG	60.683	63.158	3.32	41.46	3.35	F
2365	7626	2.119495	CACCAGGAGTACAAGGCCTAT	58.881	52.381	5.16	0.00	2.57	F

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Hairpin	End Stability	Orientation
2063	7311	0.389025	TCGTCTGTCTGTGTGCACAT	59.611	50.000	24.69	41.01	3.21	R
2717	7979	1.007336	GCGTGACGAGGACGAACATT	61.007	55.000	10.10	42.66	2.71	R
2819	8081	1.080025	GTAGTCCACCTGTGACCGC	60.080	63.158	0.00	0.00	5.68	R
2976	8245	1.670087	CGCAGACCTGTGGAAGTACTG	60.670	57.143	0.00	37.43	2.74	R
3759	13408	2.689983	GGTTGCTGCAGCCATAAACTAT	59.310	45.455	34.64	41.18	2.12	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
91	92	1.621992	AGAGAAGAGTGAGCACCGAA	58.378	50.000	0.00	0.00	0.00	4.30
174	185	1.436336	GCCCTCACATTGCTCATGC	59.564	57.895	0.00	0.00	36.14	4.06
188	378	4.384056	TGCTCATGCTCTAAATAGGCTTC	58.616	43.478	0.00	0.00	40.48	3.86
226	416	4.978580	GTGTTTCTTGTTTGATGGAAGCTC	59.021	41.667	0.00	0.00	0.00	4.09
232	422	2.087646	GTTTGATGGAAGCTCAGGGTC	58.912	52.381	0.00	0.00	0.00	4.46
235	425	1.280133	TGATGGAAGCTCAGGGTCTTG	59.720	52.381	0.00	0.00	0.00	3.02
322	512	2.789409	ATGAGGCCCAACAACTACTC	57.211	50.000	0.00	0.00	0.00	2.59
324	514	0.690762	GAGGCCCAACAACTACTCCA	59.309	55.000	0.00	0.00	0.00	3.86
326	516	1.710809	AGGCCCAACAACTACTCCAAT	59.289	47.619	0.00	0.00	0.00	3.16
327	517	2.092323	GGCCCAACAACTACTCCAATC	58.908	52.381	0.00	0.00	0.00	2.67
348	2971	7.920738	CAATCTGGCTATTGGAGTAGTAAAAC	58.079	38.462	5.54	0.00	33.95	2.43
466	3161	5.690409	CAGTGCATTTCATTATCCATCTTGC	59.310	40.000	0.00	0.00	0.00	4.01
545	4814	7.946381	AGTCCTTTTATTCCCAAAAGAGATC	57.054	36.000	9.34	0.00	44.68	2.75
546	4815	6.892456	AGTCCTTTTATTCCCAAAAGAGATCC	59.108	38.462	9.34	0.00	44.68	3.36
547	4816	6.663523	GTCCTTTTATTCCCAAAAGAGATCCA	59.336	38.462	9.34	0.00	44.68	3.41
548	4817	7.343057	GTCCTTTTATTCCCAAAAGAGATCCAT	59.657	37.037	9.34	0.00	44.68	3.41
549	4818	7.342799	TCCTTTTATTCCCAAAAGAGATCCATG	59.657	37.037	9.34	0.00	44.68	3.66
550	4819	7.124750	CCTTTTATTCCCAAAAGAGATCCATGT	59.875	37.037	9.34	0.00	44.68	3.21
551	4820	7.408756	TTTATTCCCAAAAGAGATCCATGTG	57.591	36.000	0.00	0.00	0.00	3.21
552	4821	2.726821	TCCCAAAAGAGATCCATGTGC	58.273	47.619	0.00	0.00	0.00	4.57
553	4822	2.041485	TCCCAAAAGAGATCCATGTGCA	59.959	45.455	0.00	0.00	0.00	4.57
584	4875	1.332686	CATGATCTGCAACATGTCCGG	59.667	52.381	15.48	0.00	38.98	5.14
681	4975	4.884744	CGGGGTGGATATGTTTACATTTGA	59.115	41.667	0.02	0.00	37.76	2.69
731	5025	5.049474	TCTCCTCACATCGTCAAAACAAATG	60.049	40.000	0.00	0.00	0.00	2.32
793	5092	1.753930	ATGCGTGCATTTCTGATGGA	58.246	45.000	0.51	0.00	31.82	3.41
794	5093	0.804364	TGCGTGCATTTCTGATGGAC	59.196	50.000	0.00	1.20	37.07	4.02
795	5094	0.099436	GCGTGCATTTCTGATGGACC	59.901	55.000	5.31	0.00	37.11	4.46
796	5095	0.374758	CGTGCATTTCTGATGGACCG	59.625	55.000	5.31	0.00	37.11	4.79
797	5096	0.734889	GTGCATTTCTGATGGACCGG	59.265	55.000	0.00	0.00	34.83	5.28
840	5143	3.888930	GTGGATTGAAACCTTGTTCCTCA	59.111	43.478	0.00	0.00	0.00	3.86
844	5150	1.133606	TGAAACCTTGTTCCTCACCCC	60.134	52.381	0.00	0.00	0.00	4.95
845	5151	0.930726	AAACCTTGTTCCTCACCCCA	59.069	50.000	0.00	0.00	0.00	4.96
848	5164	0.995024	CCTTGTTCCTCACCCCATCT	59.005	55.000	0.00	0.00	0.00	2.90
874	5190	1.386533	AATACACTCGTCCCGTCGAT	58.613	50.000	0.00	0.00	39.12	3.59
887	5208	0.319040	CGTCGATGGGTGGAGCATAG	60.319	60.000	0.00	0.00	0.00	2.23
888	5209	0.601311	GTCGATGGGTGGAGCATAGC	60.601	60.000	0.00	0.00	0.00	2.97
889	5210	1.048160	TCGATGGGTGGAGCATAGCA	61.048	55.000	0.00	0.00	0.00	3.49
890	5211	0.035881	CGATGGGTGGAGCATAGCAT	59.964	55.000	0.00	0.00	0.00	3.79
891	5212	1.276138	CGATGGGTGGAGCATAGCATA	59.724	52.381	0.00	0.00	0.00	3.14
908	5229	2.288702	GCATACTCGCTGATCACTCCAT	60.289	50.000	0.00	0.00	0.00	3.41
914	5235	0.376152	GCTGATCACTCCATTGCACG	59.624	55.000	0.00	0.00	0.00	5.34
931	5252	4.248402	GCACAACGCGGTAGTACA	57.752	55.556	12.47	0.00	0.00	2.90
932	5253	2.519826	GCACAACGCGGTAGTACAA	58.480	52.632	12.47	0.00	0.00	2.41
959	5309	3.622166	ACAACGGTAGGACCTAATTGG	57.378	47.619	18.75	6.95	42.93	3.16
961	5311	3.583966	ACAACGGTAGGACCTAATTGGAA	59.416	43.478	18.75	0.00	39.71	3.53
975	5325	6.824196	ACCTAATTGGAAAGAAACTAGCTAGC	59.176	38.462	20.91	6.62	39.71	3.42
1007	5360	1.153628	GGACGACGAAGATGGTGGG	60.154	63.158	0.00	0.00	0.00	4.61
1056	5972	2.036387	GTGGTAGGGTTTTTGGCAACT	58.964	47.619	0.00	0.00	37.61	3.16
1263	6222	1.261885	TGTACATGTTTGGTTCGTGCG	59.738	47.619	2.30	0.00	0.00	5.34
1536	6506	4.008933	GGCCACTCAGACCACGCT	62.009	66.667	0.00	0.00	0.00	5.07
1589	6559	1.527370	GGAGGGCCTACATGGTGAC	59.473	63.158	12.07	0.00	38.35	3.67
1741	6726	6.250527	GGTGCGTATTTTTACTTGCTTACATG	59.749	38.462	0.00	0.00	0.00	3.21
1750	6736	1.929836	CTTGCTTACATGCGAGAGACC	59.070	52.381	0.00	0.00	44.94	3.85
1752	6751	0.872021	GCTTACATGCGAGAGACCGG	60.872	60.000	0.00	0.00	0.00	5.28
1931	7174	5.049060	CACATCACAAATTGGACGGTTTCTA	60.049	40.000	0.00	0.00	0.00	2.10
1936	7179	2.799126	ATTGGACGGTTTCTATGGCA	57.201	45.000	0.00	0.00	0.00	4.92
2005	7249	8.253810	CCATTTCATAGAGTCGTGGTCATATAT	58.746	37.037	0.00	0.00	0.00	0.86
2023	7267	9.630098	GTCATATATTGGCTAAAAATGGATGTG	57.370	33.333	0.00	0.00	0.00	3.21
2063	7311	7.074653	AGAAAACTGAAGGTGGACTTGTATA	57.925	36.000	0.00	0.00	40.21	1.47
2163	7419	1.682684	ACCGTGGCCTCTACCAGAG	60.683	63.158	3.32	0.00	41.46	3.35
2255	7515	9.624697	TGTCACAATAATGAACAGAAAAATAGC	57.375	29.630	0.00	0.00	0.00	2.97
2256	7516	9.624697	GTCACAATAATGAACAGAAAAATAGCA	57.375	29.630	0.00	0.00	0.00	3.49
2292	7553	6.584563	TGTAAAGCAAACACTGAAACTTGTTC	59.415	34.615	0.00	0.00	34.82	3.18
2365	7626	2.119495	CACCAGGAGTACAAGGCCTAT	58.881	52.381	5.16	0.00	0.00	2.57
2492	7754	7.069344	TGATCCTAGTATTGGTCTGATGAAGA	58.931	38.462	0.00	0.00	0.00	2.87
2497	7759	6.805016	AGTATTGGTCTGATGAAGAGACAT	57.195	37.500	0.00	0.00	41.50	3.06
2819	8081	3.234041	CAGCTCGTCTCGTTCGCG	61.234	66.667	0.00	0.00	42.98	5.87
2999	8268	3.241530	TTCCACAGGTCTGCGCCT	61.242	61.111	4.18	0.00	39.99	5.52
3167	8443	3.809832	ACTGATGTTCCTGTTTTCAGTCG	59.190	43.478	0.00	0.00	42.40	4.18
3182	8458	1.931841	CAGTCGAGAGATGTGCAATGG	59.068	52.381	0.00	0.00	45.19	3.16
3294	9283	6.747280	ACTTTGAAAAGAACTTCAACATCACG	59.253	34.615	9.71	0.00	43.29	4.35
3759	13408	0.776810	ATGTGGTTCCATGGTCACCA	59.223	50.000	25.96	25.96	38.30	4.17
3819	13468	2.299975	GCCAATGGGAAGGCCATTT	58.700	52.632	5.01	0.00	45.18	2.32
4093	13743	4.728772	ACAATGATCAGAAAGTTGTCCCA	58.271	39.130	0.09	0.00	0.00	4.37

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
132	140	8.671028	GGCCGTCTAAGAAGAAAATATTTACAA	58.329	33.333	0.01	0.00	32.16	2.41
188	378	8.801715	ACAAGAAACACTGCAATACAATTAAG	57.198	30.769	0.00	0.00	0.00	1.85
226	416	8.915057	ATATAAATCAATGAGACAAGACCCTG	57.085	34.615	0.00	0.00	0.00	4.45
261	451	6.330278	ACTGGCAACTTTTCTGTTAGTTTTC	58.670	36.000	0.00	0.00	32.50	2.29
324	514	7.054751	GGTTTTACTACTCCAATAGCCAGATT	58.945	38.462	0.00	0.00	0.00	2.40
326	516	5.104652	GGGTTTTACTACTCCAATAGCCAGA	60.105	44.000	0.00	0.00	0.00	3.86
327	517	5.123936	GGGTTTTACTACTCCAATAGCCAG	58.876	45.833	0.00	0.00	0.00	4.85
348	2971	3.824133	TCTTGCACAATATGAGATGGGG	58.176	45.455	0.00	0.00	0.00	4.96
466	3161	6.813649	TCTTTGGAGATCGAAGAGTTAACATG	59.186	38.462	8.61	0.00	43.63	3.21
534	4803	2.165030	GGTGCACATGGATCTCTTTTGG	59.835	50.000	20.43	0.00	0.00	3.28
535	4804	2.159476	CGGTGCACATGGATCTCTTTTG	60.159	50.000	20.43	0.00	0.00	2.44
536	4805	2.086869	CGGTGCACATGGATCTCTTTT	58.913	47.619	20.43	0.00	0.00	2.27
537	4806	1.278985	TCGGTGCACATGGATCTCTTT	59.721	47.619	20.43	0.00	0.00	2.52
538	4807	0.904649	TCGGTGCACATGGATCTCTT	59.095	50.000	20.43	0.00	0.00	2.85
539	4808	1.126488	ATCGGTGCACATGGATCTCT	58.874	50.000	20.43	0.00	0.00	3.10
540	4809	2.820059	TATCGGTGCACATGGATCTC	57.180	50.000	20.43	0.00	0.00	2.75
541	4810	3.558931	TTTATCGGTGCACATGGATCT	57.441	42.857	20.43	1.51	0.00	2.75
542	4811	3.610114	GCATTTATCGGTGCACATGGATC	60.610	47.826	20.43	0.00	40.94	3.36
543	4812	2.294233	GCATTTATCGGTGCACATGGAT	59.706	45.455	20.43	18.72	40.94	3.41
544	4813	1.675483	GCATTTATCGGTGCACATGGA	59.325	47.619	20.43	12.85	40.94	3.41
545	4814	1.404748	TGCATTTATCGGTGCACATGG	59.595	47.619	20.43	7.33	45.60	3.66
546	4815	2.847959	TGCATTTATCGGTGCACATG	57.152	45.000	20.43	13.29	45.60	3.21
551	4820	3.818387	CAGATCATGCATTTATCGGTGC	58.182	45.455	0.00	0.00	41.61	5.01
577	4868	5.473504	GCCAGTTCATATATTTTCCGGACAT	59.526	40.000	1.83	1.30	0.00	3.06
584	4875	8.677148	TTCCTACAGCCAGTTCATATATTTTC	57.323	34.615	0.00	0.00	0.00	2.29
681	4975	0.108019	GACCTTCAGAAACCGGGTGT	59.892	55.000	6.32	0.00	0.00	4.16
731	5025	2.348872	CGCCATGCATGAACGAGTATTC	60.349	50.000	28.31	3.05	31.67	1.75
793	5092	3.639094	TGAATTGGTGAAACAAATCCGGT	59.361	39.130	0.00	0.00	40.31	5.28
794	5093	4.250116	TGAATTGGTGAAACAAATCCGG	57.750	40.909	0.00	0.00	40.31	5.14
795	5094	6.527722	CACTATGAATTGGTGAAACAAATCCG	59.472	38.462	0.00	0.00	40.31	4.18
796	5095	6.813152	CCACTATGAATTGGTGAAACAAATCC	59.187	38.462	0.00	0.00	40.31	3.01
797	5096	7.601856	TCCACTATGAATTGGTGAAACAAATC	58.398	34.615	0.00	0.00	40.31	2.17
840	5143	5.480772	CGAGTGTATTTATAGGAGATGGGGT	59.519	44.000	0.00	0.00	0.00	4.95
844	5150	6.622549	GGGACGAGTGTATTTATAGGAGATG	58.377	44.000	0.00	0.00	0.00	2.90
845	5151	6.837471	GGGACGAGTGTATTTATAGGAGAT	57.163	41.667	0.00	0.00	0.00	2.75
874	5190	1.694150	GAGTATGCTATGCTCCACCCA	59.306	52.381	0.00	0.00	36.20	4.51
878	5194	1.000171	CAGCGAGTATGCTATGCTCCA	60.000	52.381	7.00	0.00	45.23	3.86
887	5208	1.067669	TGGAGTGATCAGCGAGTATGC	59.932	52.381	0.00	0.00	0.00	3.14
888	5209	3.657015	ATGGAGTGATCAGCGAGTATG	57.343	47.619	0.00	0.00	0.00	2.39
889	5210	3.801638	GCAATGGAGTGATCAGCGAGTAT	60.802	47.826	0.00	0.00	0.00	2.12
890	5211	2.481969	GCAATGGAGTGATCAGCGAGTA	60.482	50.000	0.00	0.00	0.00	2.59
891	5212	1.741732	GCAATGGAGTGATCAGCGAGT	60.742	52.381	0.00	0.00	0.00	4.18
914	5235	1.073177	ATTGTACTACCGCGTTGTGC	58.927	50.000	4.92	4.96	41.47	4.57
926	5247	7.260603	GTCCTACCGTTGTATTGTATTGTACT	58.739	38.462	0.00	0.00	0.00	2.73
928	5249	6.380846	AGGTCCTACCGTTGTATTGTATTGTA	59.619	38.462	0.00	0.00	44.90	2.41
929	5250	5.188359	AGGTCCTACCGTTGTATTGTATTGT	59.812	40.000	0.00	0.00	44.90	2.71
930	5251	5.667466	AGGTCCTACCGTTGTATTGTATTG	58.333	41.667	0.00	0.00	44.90	1.90
931	5252	5.945144	AGGTCCTACCGTTGTATTGTATT	57.055	39.130	0.00	0.00	44.90	1.89
932	5253	7.607615	ATTAGGTCCTACCGTTGTATTGTAT	57.392	36.000	0.00	0.00	44.90	2.29
975	5325	0.729116	TCGTCCTCGGCGTTAACTAG	59.271	55.000	6.85	0.00	37.69	2.57
1007	5360	2.586357	GCAGCACCCTAGCGCTAC	60.586	66.667	14.45	3.14	36.50	3.58
1263	6222	2.286242	CGATCAAGCATGTCAGCATCAC	60.286	50.000	0.00	0.00	36.85	3.06
1741	6726	2.887568	CATGCACCGGTCTCTCGC	60.888	66.667	2.59	5.28	0.00	5.03
1750	6736	2.539274	CCAAAACTCAAAACATGCACCG	59.461	45.455	0.00	0.00	0.00	4.94
1752	6751	2.935201	TGCCAAAACTCAAAACATGCAC	59.065	40.909	0.00	0.00	0.00	4.57
1911	7091	4.457603	CCATAGAAACCGTCCAATTTGTGA	59.542	41.667	0.00	0.00	0.00	3.58
1970	7214	6.313905	ACGACTCTATGAAATGGTTTGCTAAG	59.686	38.462	0.00	0.00	0.00	2.18
2005	7249	9.956640	ATTAATTTCACATCCATTTTTAGCCAA	57.043	25.926	0.00	0.00	0.00	4.52
2063	7311	0.389025	TCGTCTGTCTGTGTGCACAT	59.611	50.000	24.69	0.00	41.01	3.21
2163	7419	2.829914	TGGCCGATGGAATGCTGC	60.830	61.111	0.00	0.00	0.00	5.25
2253	7513	9.703892	TGTTTGCTTTACAATAACAATAATGCT	57.296	25.926	0.00	0.00	38.31	3.79
2254	7514	9.739786	GTGTTTGCTTTACAATAACAATAATGC	57.260	29.630	0.00	0.00	38.31	3.56
2259	7519	9.593134	TTTCAGTGTTTGCTTTACAATAACAAT	57.407	25.926	0.00	0.00	38.31	2.71
2260	7520	8.865001	GTTTCAGTGTTTGCTTTACAATAACAA	58.135	29.630	0.00	0.00	38.31	2.83
2261	7521	8.247562	AGTTTCAGTGTTTGCTTTACAATAACA	58.752	29.630	0.00	0.00	38.31	2.41
2262	7522	8.628882	AGTTTCAGTGTTTGCTTTACAATAAC	57.371	30.769	0.00	0.00	38.31	1.89
2263	7523	9.081997	CAAGTTTCAGTGTTTGCTTTACAATAA	57.918	29.630	0.00	0.00	38.31	1.40
2278	7539	3.242739	CCTGTTCCGAACAAGTTTCAGTG	60.243	47.826	14.74	0.70	41.61	3.66
2292	7553	2.811317	GCAGCTCGTCCTGTTCCG	60.811	66.667	6.87	0.00	35.28	4.30
2492	7754	8.160106	AGTTCCTGAAGATAAAAGTTGATGTCT	58.840	33.333	0.00	0.00	0.00	3.41
2497	7759	8.156820	TCATCAGTTCCTGAAGATAAAAGTTGA	58.843	33.333	0.00	0.00	44.04	3.18
2507	7769	5.299531	CGGTATAGTCATCAGTTCCTGAAGA	59.700	44.000	0.00	0.00	44.04	2.87
2717	7979	1.007336	GCGTGACGAGGACGAACATT	61.007	55.000	10.10	0.00	42.66	2.71
2819	8081	1.080025	GTAGTCCACCTGTGACCGC	60.080	63.158	0.00	0.00	0.00	5.68
2976	8245	1.670087	CGCAGACCTGTGGAAGTACTG	60.670	57.143	0.00	0.00	37.43	2.74
2999	8268	2.927477	GCCGTCGATCACATTCAAGTTA	59.073	45.455	0.00	0.00	0.00	2.24
3182	8458	2.939460	AATTACAAGGACGGCATTGC	57.061	45.000	16.97	0.00	39.28	3.56
3294	9283	8.352942	GGGAATAAAATGTCATGTTGGACTATC	58.647	37.037	0.00	0.00	38.61	2.08
3759	13408	2.689983	GGTTGCTGCAGCCATAAACTAT	59.310	45.455	34.64	0.00	41.18	2.12
4093	13743	3.454858	TGCTTCCTAATTCTGGGAGACT	58.545	45.455	9.28	0.00	33.01	3.24

Based at the University of Bristol with support from BBSRC.

AutoCloner maintained by Alex Coulton.