AutoCloner

Multiple sequence alignment - TraesCS3B01G344400

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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	TraesCS3B01G344400	chr3B	100.000	6838	0	0	1	6838	553734323	553727486	0.000000e+00	12628.0
1	TraesCS3B01G344400	chr3B	90.092	434	40	1	2946	3379	553729916	553729486	1.670000e-155	560.0
2	TraesCS3B01G344400	chr3B	90.092	434	40	1	4408	4838	553731378	553730945	1.670000e-155	560.0
3	TraesCS3B01G344400	chr3B	89.189	259	25	3	1853	2111	553730947	553730692	3.080000e-83	320.0
4	TraesCS3B01G344400	chr3B	89.231	260	23	4	3377	3632	553732471	553732213	3.080000e-83	320.0
5	TraesCS3B01G344400	chr3B	84.585	253	39	0	1340	1592	553732525	553732273	1.140000e-62	252.0
6	TraesCS3B01G344400	chr3B	84.585	253	39	0	1799	2051	553732984	553732732	1.140000e-62	252.0
7	TraesCS3B01G344400	chr3B	95.699	93	4	0	3739	3831	802705151	802705059	4.270000e-32	150.0
8	TraesCS3B01G344400	chr3A	92.266	3116	180	19	653	3740	565792545	565795627	0.000000e+00	4362.0
9	TraesCS3B01G344400	chr3A	92.770	2448	143	19	4402	6838	565796273	565798697	0.000000e+00	3509.0
10	TraesCS3B01G344400	chr3A	83.104	1089	143	31	2311	3379	565795645	565796712	0.000000e+00	953.0
11	TraesCS3B01G344400	chr3A	93.771	594	32	3	3822	4415	565795626	565796214	0.000000e+00	887.0
12	TraesCS3B01G344400	chr3A	91.724	435	31	3	4408	4838	565794833	565795266	3.530000e-167	599.0
13	TraesCS3B01G344400	chr3A	92.000	300	21	2	1	298	565791903	565792201	1.060000e-112	418.0
14	TraesCS3B01G344400	chr3A	83.805	389	35	13	307	670	565792139	565792524	1.830000e-90	344.0
15	TraesCS3B01G344400	chr3A	89.961	259	23	3	3377	3632	565793733	565793991	1.420000e-86	331.0
16	TraesCS3B01G344400	chr3A	85.821	268	38	0	1775	2042	565793210	565793477	1.120000e-72	285.0
17	TraesCS3B01G344400	chr3A	84.898	245	37	0	1348	1592	565793687	565793931	1.470000e-61	248.0
18	TraesCS3B01G344400	chr3A	94.444	36	0	2	2800	2834	565794618	565794652	3.000000e-03	54.7
19	TraesCS3B01G344400	chr3D	93.546	2448	131	18	4402	6838	423014878	423017309	0.000000e+00	3620.0
20	TraesCS3B01G344400	chr3D	92.069	2131	135	15	2	2111	423010494	423012611	0.000000e+00	2968.0
21	TraesCS3B01G344400	chr3D	95.022	1627	63	8	2131	3740	423012603	423014228	0.000000e+00	2540.0
22	TraesCS3B01G344400	chr3D	83.838	1089	139	23	2311	3379	423014246	423015317	0.000000e+00	1002.0
23	TraesCS3B01G344400	chr3D	94.898	588	29	1	3822	4409	423014227	423014813	0.000000e+00	918.0
24	TraesCS3B01G344400	chr3D	89.401	434	43	1	4408	4838	423013434	423013867	1.680000e-150	544.0
25	TraesCS3B01G344400	chr3D	87.283	346	33	8	3374	3713	423012352	423012692	1.080000e-102	385.0
26	TraesCS3B01G344400	chr3D	88.803	259	26	3	1853	2111	423013865	423014120	1.430000e-81	315.0
27	TraesCS3B01G344400	chr5D	94.393	107	3	3	3734	3837	223649983	223649877	1.970000e-35	161.0
28	TraesCS3B01G344400	chr7B	95.918	98	3	1	3731	3828	654925860	654925764	2.550000e-34	158.0
29	TraesCS3B01G344400	chr6A	95.876	97	2	2	3739	3835	27342979	27342885	9.180000e-34	156.0
30	TraesCS3B01G344400	chr5B	95.876	97	3	1	3730	3825	711237872	711237968	9.180000e-34	156.0
31	TraesCS3B01G344400	chrUn	97.753	89	2	0	3738	3826	23900852	23900940	3.300000e-33	154.0
32	TraesCS3B01G344400	chr4A	96.774	93	2	1	3731	3823	614251423	614251514	3.300000e-33	154.0
33	TraesCS3B01G344400	chr2B	97.753	89	2	0	3738	3826	799161054	799161142	3.300000e-33	154.0
34	TraesCS3B01G344400	chr2B	97.753	89	2	0	3738	3826	799214210	799214298	3.300000e-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	TraesCS3B01G344400	chr3B	553727486	553734323	6837	True	12628.000000	12628	100.000000	1	6838	1	chr3B.!!$R1	6837
1	TraesCS3B01G344400	chr3B	553729486	553732984	3498	True	377.333333	560	87.962333	1340	4838	6	chr3B.!!$R3	3498
2	TraesCS3B01G344400	chr3A	565791903	565798697	6794	False	1090.063636	4362	89.505818	1	6838	11	chr3A.!!$F1	6837
3	TraesCS3B01G344400	chr3D	423010494	423017309	6815	False	1536.500000	3620	90.607500	2	6838	8	chr3D.!!$F1	6836

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
65	66	0.401395	TCCCCCTCCAACTCAACTGT	60.401	55.000	0.00	0.00	3.55	F
182	193	0.446222	TGTTAAGATGCGCCGAAAGC	59.554	50.000	4.18	38.52	3.51	F
192	203	0.669318	CGCCGAAAGCTTGACTGGTA	60.669	55.000	0.00	40.39	3.25	F
252	263	1.196766	AGGCAGCTCTCCACATGTCA	61.197	55.000	0.00	0.00	3.58	F
527	562	2.352503	GCAACCAATGCGACAGAAAT	57.647	45.000	0.00	46.87	2.17	F
1085	1161	3.202097	GTCTGCTTTCTAGGAATGAGCC	58.798	50.000	0.00	32.53	4.70	F
1087	1163	4.100189	GTCTGCTTTCTAGGAATGAGCCTA	59.900	45.833	0.00	39.50	3.93	F
1114	1190	5.385509	TTTTGCTAACCACCTTCTTATGC	57.614	39.130	0.00	0.00	3.14	F
4926	5107	5.431731	TCTGGCCCTCTTCCTATTTTGAATA	59.568	40.000	0.00	0.00	1.75	F

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Hairpin	End Stability	Orientation
1064	1140	3.118445	AGGCTCATTCCTAGAAAGCAGAC	60.118	47.826	0.00	33.95	3.51	R
1125	1201	3.678965	ATCCTTAGCACTCTCCTCTGA	57.321	47.619	0.00	0.00	3.27	R
1252	1328	4.989279	ATTCGTTGAATTTATGCCTGCT	57.011	36.364	0.00	0.00	4.24	R
1297	1374	5.306394	AGTGGTGAGTTTTTAGTAAGAGCC	58.694	41.667	0.00	0.00	4.70	R
4841	5022	3.193691	CCATAACAAGACCGACAGAGTCT	59.806	47.826	0.00	46.50	3.24	R
4891	5072	0.473886	AGGGCCAGATAATAGCGGGT	60.474	55.000	6.18	0.00	5.28	R
5048	5229	3.081804	GGTGGTGGTTCCTTCATTACTG	58.918	50.000	0.00	37.07	2.74	R
5430	5611	1.277557	AGTCTCTTCACCCACATCTGC	59.722	52.381	0.00	0.00	4.26	R
6645	6833	0.896940	TTCTCCAGTACGCCGACCTT	60.897	55.000	0.00	0.00	3.50	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
65	66	0.401395	TCCCCCTCCAACTCAACTGT	60.401	55.000	0.00	0.00	0.00	3.55
138	141	2.113243	AACCGGGAGACAAGGAGCAC	62.113	60.000	6.32	0.00	34.28	4.40
182	193	0.446222	TGTTAAGATGCGCCGAAAGC	59.554	50.000	4.18	0.00	38.52	3.51
192	203	0.669318	CGCCGAAAGCTTGACTGGTA	60.669	55.000	0.00	0.00	40.39	3.25
206	217	6.926272	GCTTGACTGGTAGAATTAGATACAGG	59.074	42.308	0.00	0.00	0.00	4.00
221	232	5.265191	AGATACAGGTCTAGCTTCACTGAA	58.735	41.667	12.43	0.00	33.57	3.02
252	263	1.196766	AGGCAGCTCTCCACATGTCA	61.197	55.000	0.00	0.00	0.00	3.58
264	275	5.014123	TCTCCACATGTCAAGGTTTTATCCT	59.986	40.000	0.00	0.00	39.84	3.24
298	309	3.325135	AGTCGGAAGTTTCTGTGGAATCT	59.675	43.478	0.96	0.00	34.18	2.40
483	518	7.745620	TTCAGGACCTGAAATCTTTAAGAAC	57.254	36.000	30.67	0.00	45.84	3.01
527	562	2.352503	GCAACCAATGCGACAGAAAT	57.647	45.000	0.00	0.00	46.87	2.17
533	568	4.805219	ACCAATGCGACAGAAATAAAACC	58.195	39.130	0.00	0.00	0.00	3.27
848	922	4.019321	TGCACCCTTTCTAGCTAATCTTGT	60.019	41.667	0.00	0.00	0.00	3.16
977	1051	5.788450	AGACTGTTCTCATTGGTCTTAGTG	58.212	41.667	0.00	0.00	34.13	2.74
985	1059	5.483937	TCTCATTGGTCTTAGTGCCTAAAGA	59.516	40.000	0.00	0.00	0.00	2.52
992	1066	3.838317	TCTTAGTGCCTAAAGAGCTTGGA	59.162	43.478	0.00	0.00	0.00	3.53
1064	1140	6.624352	AGGTATGCATGTTGCTAAATACTG	57.376	37.500	10.16	0.00	45.31	2.74
1085	1161	3.202097	GTCTGCTTTCTAGGAATGAGCC	58.798	50.000	0.00	0.00	32.53	4.70
1087	1163	4.100189	GTCTGCTTTCTAGGAATGAGCCTA	59.900	45.833	0.00	0.00	39.50	3.93
1104	1180	7.095695	TGAGCCTAAATATTTTGCTAACCAC	57.904	36.000	19.15	10.74	30.45	4.16
1114	1190	5.385509	TTTTGCTAACCACCTTCTTATGC	57.614	39.130	0.00	0.00	0.00	3.14
1122	1198	6.759497	AACCACCTTCTTATGCAATTCTAC	57.241	37.500	0.00	0.00	0.00	2.59
1125	1201	7.806180	ACCACCTTCTTATGCAATTCTACTAT	58.194	34.615	0.00	0.00	0.00	2.12
1200	1276	7.920160	TCACATGAGCTCAACAACATAAATA	57.080	32.000	22.50	0.00	0.00	1.40
1241	1317	5.547465	TCTGTTTCACGATATTTGTCCTGT	58.453	37.500	0.00	0.00	0.00	4.00
1243	1319	7.327975	TCTGTTTCACGATATTTGTCCTGTAT	58.672	34.615	0.00	0.00	0.00	2.29
1308	1385	7.603180	ATCATGTCATACTGGCTCTTACTAA	57.397	36.000	0.00	0.00	0.00	2.24
4841	5022	7.461749	GGGATAAGAAATCTGATGGTATCCAA	58.538	38.462	19.86	2.16	38.06	3.53
4891	5072	7.829211	CCATGGAGAAGATTTTACAGGTTTAGA	59.171	37.037	5.56	0.00	0.00	2.10
4926	5107	5.431731	TCTGGCCCTCTTCCTATTTTGAATA	59.568	40.000	0.00	0.00	0.00	1.75
4976	5157	7.801104	TCATAGAAGAATTACCTGCACCAATA	58.199	34.615	0.00	0.00	0.00	1.90
5022	5203	7.279615	TCAACCAGTAGAAGATTTTGTCAAGA	58.720	34.615	0.00	0.00	0.00	3.02
5430	5611	3.870299	GCTTCAGAAACCAACTCTAGGGG	60.870	52.174	0.00	0.00	0.00	4.79
5485	5666	5.928839	TGAGTACAGAAAGCATCAACTCTTC	59.071	40.000	14.67	0.00	36.40	2.87
5546	5727	0.331278	TCCCCATGACCAACATCACC	59.669	55.000	0.00	0.00	37.07	4.02
5588	5769	4.630644	AGCTGTGGAAGAATCTGAGAAA	57.369	40.909	0.00	0.00	0.00	2.52
5839	6020	1.995484	CACCACAGCTACGAACTGATG	59.005	52.381	10.26	5.77	38.55	3.07
5841	6022	1.995484	CCACAGCTACGAACTGATGTG	59.005	52.381	10.26	10.64	38.55	3.21
5860	6041	4.180057	TGTGTGGCTTCATTTGTTGTTTC	58.820	39.130	0.00	0.00	0.00	2.78
5977	6159	9.113838	GATACCACAACTTGTATTGATCAGAAT	57.886	33.333	0.00	0.00	33.57	2.40
5980	6162	8.641541	ACCACAACTTGTATTGATCAGAATTTT	58.358	29.630	0.00	0.00	33.57	1.82
6089	6271	4.151867	GGTTGTCGAGTTACAAACATCCTC	59.848	45.833	0.09	0.00	44.74	3.71
6091	6273	5.970317	TGTCGAGTTACAAACATCCTCTA	57.030	39.130	0.00	0.00	0.00	2.43
6093	6275	7.634671	TGTCGAGTTACAAACATCCTCTATA	57.365	36.000	0.00	0.00	0.00	1.31
6101	6283	9.740239	GTTACAAACATCCTCTATATACGACAA	57.260	33.333	0.00	0.00	0.00	3.18
6138	6320	5.070446	TCCGACATTAAATATCTCCACTGCT	59.930	40.000	0.00	0.00	0.00	4.24
6166	6348	6.491745	TGTTCTATGCCCAAAACAGACAAATA	59.508	34.615	0.00	0.00	0.00	1.40
6174	6356	6.980397	GCCCAAAACAGACAAATATCCATAAG	59.020	38.462	0.00	0.00	0.00	1.73
6203	6385	2.791383	TGACATGCCAAAAACTTCCG	57.209	45.000	0.00	0.00	0.00	4.30
6217	6399	7.148755	CCAAAAACTTCCGATTATCAAAAGCAG	60.149	37.037	4.21	0.00	0.00	4.24
6218	6400	5.567138	AACTTCCGATTATCAAAAGCAGG	57.433	39.130	4.21	0.00	0.00	4.85
6225	6407	5.584649	CCGATTATCAAAAGCAGGTTGAGTA	59.415	40.000	3.59	0.00	38.34	2.59
6277	6460	8.645487	CACTGGTTTATTTTAGTACGTTCTCTC	58.355	37.037	0.00	0.00	0.00	3.20
6278	6461	8.583296	ACTGGTTTATTTTAGTACGTTCTCTCT	58.417	33.333	0.00	0.00	0.00	3.10
6279	6462	9.420551	CTGGTTTATTTTAGTACGTTCTCTCTT	57.579	33.333	0.00	0.00	0.00	2.85
6304	6488	5.501156	AGAAAGGACAGAAACAACAGAACT	58.499	37.500	0.00	0.00	0.00	3.01
6354	6538	9.598517	ACTAAATTTTCAACATGAGAAGCAAAA	57.401	25.926	0.00	0.00	0.00	2.44
6361	6545	2.287788	ACATGAGAAGCAAAAGCCAACG	60.288	45.455	0.00	0.00	0.00	4.10
6365	6549	1.748493	AGAAGCAAAAGCCAACGTCAA	59.252	42.857	0.00	0.00	0.00	3.18
6372	6556	4.219033	CAAAAGCCAACGTCAATGTAGTC	58.781	43.478	0.00	0.00	0.00	2.59
6379	6563	0.992072	CGTCAATGTAGTCGGCACAG	59.008	55.000	0.00	0.00	0.00	3.66
6459	6643	6.074648	TCCACTAAAGTTGAACATGGGAATT	58.925	36.000	0.00	0.00	0.00	2.17
6554	6739	8.752766	ATTATTGACAATTCTGCTTCAAACAG	57.247	30.769	5.89	0.00	36.44	3.16
6558	6746	7.275888	TGACAATTCTGCTTCAAACAGTTAT	57.724	32.000	0.00	0.00	36.50	1.89
6577	6765	6.803320	CAGTTATTGCTCGAATTCACACATTT	59.197	34.615	6.22	0.00	0.00	2.32
6583	6771	6.142139	TGCTCGAATTCACACATTTAACAAG	58.858	36.000	6.22	0.00	0.00	3.16
6586	6774	7.801315	GCTCGAATTCACACATTTAACAAGTTA	59.199	33.333	6.22	0.00	0.00	2.24
6590	6778	9.191995	GAATTCACACATTTAACAAGTTAAGGG	57.808	33.333	0.00	5.25	36.52	3.95
6634	6822	5.411781	AGAAAATTAGTACTGCTCACGAGG	58.588	41.667	5.39	0.00	0.00	4.63
6640	6828	0.817654	TACTGCTCACGAGGTGATGG	59.182	55.000	0.00	0.00	41.94	3.51
6645	6833	0.608130	CTCACGAGGTGATGGGACAA	59.392	55.000	0.00	0.00	41.94	3.18
6673	6861	2.939103	GCGTACTGGAGAAGATGCAAAT	59.061	45.455	0.00	0.00	0.00	2.32
6678	6866	6.293081	CGTACTGGAGAAGATGCAAATAATGG	60.293	42.308	0.00	0.00	0.00	3.16
6772	6961	9.817809	AAATATCAGACGAACAATATGTACTGT	57.182	29.630	0.00	0.00	0.00	3.55

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
113	114	1.477923	CCTTGTCTCCCGGTTTTTCCA	60.478	52.381	0.00	0.00	35.57	3.53
152	155	4.752101	GCGCATCTTAACATATTCCAGTCT	59.248	41.667	0.30	0.00	0.00	3.24
182	193	8.012957	ACCTGTATCTAATTCTACCAGTCAAG	57.987	38.462	0.00	0.00	0.00	3.02
192	203	7.782644	AGTGAAGCTAGACCTGTATCTAATTCT	59.217	37.037	0.00	0.00	32.82	2.40
206	217	9.548208	GATAACAAAAATTCAGTGAAGCTAGAC	57.452	33.333	11.91	0.00	0.00	2.59
221	232	4.400567	GGAGAGCTGCCTGATAACAAAAAT	59.599	41.667	0.00	0.00	0.00	1.82
252	263	8.670490	ACTTTCTTCTTAGGAGGATAAAACCTT	58.330	33.333	0.00	0.00	40.73	3.50
264	275	5.803237	AACTTCCGACTTTCTTCTTAGGA	57.197	39.130	0.00	0.00	0.00	2.94
377	390	7.773864	TTCCATTTTGCTATGCATAACAATG	57.226	32.000	20.20	16.32	38.76	2.82
378	391	8.259411	TCTTTCCATTTTGCTATGCATAACAAT	58.741	29.630	20.20	6.73	38.76	2.71
379	392	7.609960	TCTTTCCATTTTGCTATGCATAACAA	58.390	30.769	16.66	16.66	38.76	2.83
483	518	7.464178	GCATGATCTACGTAACACTTAGGTTTG	60.464	40.741	0.00	0.00	35.94	2.93
527	562	5.938125	GCTGACTTGATGGTTCTAGGTTTTA	59.062	40.000	0.00	0.00	0.00	1.52
533	568	3.265791	GGTGCTGACTTGATGGTTCTAG	58.734	50.000	0.00	0.00	0.00	2.43
891	965	7.627697	ACTTATAGCCTATTATAAGCCATGGGA	59.372	37.037	15.13	0.00	43.02	4.37
977	1051	2.027653	ACTCAGTCCAAGCTCTTTAGGC	60.028	50.000	0.00	0.00	0.00	3.93
985	1059	2.269940	ACCCATTACTCAGTCCAAGCT	58.730	47.619	0.00	0.00	0.00	3.74
992	1066	5.072329	CCCATCTCATTACCCATTACTCAGT	59.928	44.000	0.00	0.00	0.00	3.41
1064	1140	3.118445	AGGCTCATTCCTAGAAAGCAGAC	60.118	47.826	0.00	0.00	33.95	3.51
1104	1180	9.421806	CTCTGATAGTAGAATTGCATAAGAAGG	57.578	37.037	0.00	0.00	0.00	3.46
1114	1190	6.265196	AGCACTCTCCTCTGATAGTAGAATTG	59.735	42.308	0.00	0.00	0.00	2.32
1122	1198	4.724399	TCCTTAGCACTCTCCTCTGATAG	58.276	47.826	0.00	0.00	0.00	2.08
1125	1201	3.678965	ATCCTTAGCACTCTCCTCTGA	57.321	47.619	0.00	0.00	0.00	3.27
1241	1317	9.752228	TGAATTTATGCCTGCTAAATATCCATA	57.248	29.630	6.86	0.00	30.55	2.74
1243	1319	8.359642	GTTGAATTTATGCCTGCTAAATATCCA	58.640	33.333	6.86	4.75	30.55	3.41
1247	1323	7.561021	TCGTTGAATTTATGCCTGCTAAATA	57.439	32.000	6.86	0.00	30.55	1.40
1248	1324	6.449635	TCGTTGAATTTATGCCTGCTAAAT	57.550	33.333	0.00	0.00	31.70	1.40
1249	1325	5.888691	TCGTTGAATTTATGCCTGCTAAA	57.111	34.783	0.00	0.00	0.00	1.85
1250	1326	5.888691	TTCGTTGAATTTATGCCTGCTAA	57.111	34.783	0.00	0.00	0.00	3.09
1251	1327	7.744087	ATATTCGTTGAATTTATGCCTGCTA	57.256	32.000	0.00	0.00	33.95	3.49
1252	1328	4.989279	ATTCGTTGAATTTATGCCTGCT	57.011	36.364	0.00	0.00	0.00	4.24
1253	1329	7.434897	TCAAATATTCGTTGAATTTATGCCTGC	59.565	33.333	0.00	0.00	33.95	4.85
1254	1330	8.854979	TCAAATATTCGTTGAATTTATGCCTG	57.145	30.769	0.00	0.00	33.95	4.85
1293	1370	6.042322	TGGTGAGTTTTTAGTAAGAGCCAGTA	59.958	38.462	0.00	0.00	0.00	2.74
1297	1374	5.306394	AGTGGTGAGTTTTTAGTAAGAGCC	58.694	41.667	0.00	0.00	0.00	4.70
1308	1385	7.402862	ACCATAGCTTTATAGTGGTGAGTTTT	58.597	34.615	0.00	0.00	41.38	2.43
4841	5022	3.193691	CCATAACAAGACCGACAGAGTCT	59.806	47.826	0.00	0.00	46.50	3.24
4891	5072	0.473886	AGGGCCAGATAATAGCGGGT	60.474	55.000	6.18	0.00	0.00	5.28
4897	5078	7.294720	TCAAAATAGGAAGAGGGCCAGATAATA	59.705	37.037	6.18	0.00	0.00	0.98
4926	5107	8.697507	ATGACTTCTTCATGTACCTTTTCTTT	57.302	30.769	0.00	0.00	43.87	2.52
5048	5229	3.081804	GGTGGTGGTTCCTTCATTACTG	58.918	50.000	0.00	0.00	37.07	2.74
5430	5611	1.277557	AGTCTCTTCACCCACATCTGC	59.722	52.381	0.00	0.00	0.00	4.26
5485	5666	6.619446	GCTGTGCTGTTCACTAGAATAACTTG	60.619	42.308	0.00	0.00	45.81	3.16
5546	5727	2.097036	TCATCTTTGGCTTGCATCAGG	58.903	47.619	0.00	0.00	0.00	3.86
5588	5769	1.625818	CTAGGGCTCAACAGTGGACTT	59.374	52.381	0.00	0.00	0.00	3.01
5694	5875	0.608035	AATGGCGACCACGTTCCAAT	60.608	50.000	0.50	0.00	41.98	3.16
5839	6020	3.555547	GGAAACAACAAATGAAGCCACAC	59.444	43.478	0.00	0.00	0.00	3.82
5841	6022	3.130633	GGGAAACAACAAATGAAGCCAC	58.869	45.455	0.00	0.00	0.00	5.01
5860	6041	4.467438	AGAAAATCAACCAGGCATTAAGGG	59.533	41.667	0.00	0.00	0.00	3.95
5984	6166	8.203485	TGGAACAAAAAGAGTAAGATGCAATTT	58.797	29.630	0.00	0.00	31.92	1.82
5985	6167	7.725251	TGGAACAAAAAGAGTAAGATGCAATT	58.275	30.769	0.00	0.00	31.92	2.32
5986	6168	7.288810	TGGAACAAAAAGAGTAAGATGCAAT	57.711	32.000	0.00	0.00	31.92	3.56
5987	6169	6.707440	TGGAACAAAAAGAGTAAGATGCAA	57.293	33.333	0.00	0.00	31.92	4.08
6005	6187	5.652014	TCCAAACCAGATACATTGATGGAAC	59.348	40.000	0.00	0.00	36.62	3.62
6093	6275	8.129840	GTCGGAATGCTATATATCTTGTCGTAT	58.870	37.037	0.00	0.00	0.00	3.06
6138	6320	4.037446	GTCTGTTTTGGGCATAGAACAACA	59.963	41.667	0.00	0.00	32.25	3.33
6166	6348	3.244318	TGTCATGCTCGCATCTTATGGAT	60.244	43.478	0.58	0.00	33.90	3.41
6203	6385	8.677300	TGATTACTCAACCTGCTTTTGATAATC	58.323	33.333	17.08	17.08	36.13	1.75
6251	6434	8.530269	AGAGAACGTACTAAAATAAACCAGTG	57.470	34.615	0.00	0.00	0.00	3.66
6277	6460	7.553881	TCTGTTGTTTCTGTCCTTTCTTAAG	57.446	36.000	0.00	0.00	0.00	1.85
6278	6461	7.610305	AGTTCTGTTGTTTCTGTCCTTTCTTAA	59.390	33.333	0.00	0.00	0.00	1.85
6279	6462	7.110155	AGTTCTGTTGTTTCTGTCCTTTCTTA	58.890	34.615	0.00	0.00	0.00	2.10
6280	6463	5.946377	AGTTCTGTTGTTTCTGTCCTTTCTT	59.054	36.000	0.00	0.00	0.00	2.52
6281	6464	5.501156	AGTTCTGTTGTTTCTGTCCTTTCT	58.499	37.500	0.00	0.00	0.00	2.52
6282	6465	5.819825	AGTTCTGTTGTTTCTGTCCTTTC	57.180	39.130	0.00	0.00	0.00	2.62
6337	6521	2.957680	TGGCTTTTGCTTCTCATGTTGA	59.042	40.909	0.00	0.00	46.54	3.18
6354	6538	1.671850	CCGACTACATTGACGTTGGCT	60.672	52.381	0.00	0.00	0.00	4.75
6361	6545	1.726791	CACTGTGCCGACTACATTGAC	59.273	52.381	0.00	0.00	32.40	3.18
6365	6549	4.081642	ACTTTATCACTGTGCCGACTACAT	60.082	41.667	2.12	0.00	0.00	2.29
6372	6556	2.351726	GGCTAACTTTATCACTGTGCCG	59.648	50.000	2.12	0.00	0.00	5.69
6379	6563	6.803154	ACTTTCAGTGGCTAACTTTATCAC	57.197	37.500	0.00	0.00	36.83	3.06
6554	6739	8.575454	GTTAAATGTGTGAATTCGAGCAATAAC	58.425	33.333	0.04	9.06	0.00	1.89
6558	6746	6.066054	TGTTAAATGTGTGAATTCGAGCAA	57.934	33.333	0.04	0.00	0.00	3.91
6586	6774	9.620259	CTTTCTCTAGCTTAAATATGAACCCTT	57.380	33.333	0.00	0.00	0.00	3.95
6618	6806	2.484742	TCACCTCGTGAGCAGTACTA	57.515	50.000	0.00	0.00	37.67	1.82
6623	6811	1.153489	CCCATCACCTCGTGAGCAG	60.153	63.158	0.55	0.00	46.04	4.24
6634	6822	1.305930	GCCGACCTTTGTCCCATCAC	61.306	60.000	0.00	0.00	38.32	3.06
6640	6828	1.012486	CAGTACGCCGACCTTTGTCC	61.012	60.000	0.00	0.00	38.32	4.02
6645	6833	0.896940	TTCTCCAGTACGCCGACCTT	60.897	55.000	0.00	0.00	0.00	3.50
6806	6998	7.632132	GCGATTATTTTCTGCAAAATTTACTGC	59.368	33.333	7.74	7.74	41.56	4.40
6813	7005	6.389091	TGTCTGCGATTATTTTCTGCAAAAT	58.611	32.000	2.16	2.16	43.39	1.82

Based at the University of Bristol with support from BBSRC.

AutoCloner maintained by Alex Coulton.