AutoCloner

Multiple sequence alignment - TraesCS2B01G203600

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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	TraesCS2B01G203600	chr2B	100.000	3025	0	0	1	3025	183210169	183213193	0.000000e+00	5587.0
1	TraesCS2B01G203600	chr2B	85.731	855	83	14	1372	2191	184663195	184662345	0.000000e+00	867.0
2	TraesCS2B01G203600	chr2B	84.310	580	91	0	1610	2189	765562111	765562690	4.880000e-158	568.0
3	TraesCS2B01G203600	chr2B	100.000	248	0	0	3122	3369	183213290	183213537	3.060000e-125	459.0
4	TraesCS2B01G203600	chr2B	98.883	179	2	0	2847	3025	183213290	183213468	1.510000e-83	320.0
5	TraesCS2B01G203600	chr2B	88.235	68	6	2	803	870	183195747	183195812	2.790000e-11	80.5
6	TraesCS2B01G203600	chr2D	94.890	861	38	3	1613	2467	129941614	129942474	0.000000e+00	1341.0
7	TraesCS2B01G203600	chr2D	88.422	1071	84	23	1339	2374	129837232	129838297	0.000000e+00	1254.0
8	TraesCS2B01G203600	chr2D	82.136	1058	141	29	1369	2384	131163971	131162920	0.000000e+00	863.0
9	TraesCS2B01G203600	chr2D	89.157	664	37	9	667	1304	129836583	129837237	0.000000e+00	795.0
10	TraesCS2B01G203600	chr2D	84.483	580	90	0	1610	2189	623791208	623791787	1.050000e-159	573.0
11	TraesCS2B01G203600	chr2D	84.192	582	79	5	1610	2189	616626672	616626102	1.370000e-153	553.0
12	TraesCS2B01G203600	chr2D	92.612	379	15	8	265	637	129834383	129834754	1.780000e-147	532.0
13	TraesCS2B01G203600	chr2D	82.669	577	95	3	1614	2189	73111929	73111357	1.080000e-139	507.0
14	TraesCS2B01G203600	chr2D	82.616	558	82	7	971	1516	129940987	129941541	2.350000e-131	479.0
15	TraesCS2B01G203600	chr2D	94.096	271	16	0	1	271	129833778	129834048	2.420000e-111	412.0
16	TraesCS2B01G203600	chr2D	82.906	117	13	5	768	883	136181927	136181817	7.690000e-17	99.0
17	TraesCS2B01G203600	chr6A	97.683	561	10	2	2466	3025	560435637	560435079	0.000000e+00	961.0
18	TraesCS2B01G203600	chr6A	96.959	559	16	1	2468	3025	4143114	4143672	0.000000e+00	937.0
19	TraesCS2B01G203600	chr6A	96.959	559	15	2	2468	3025	4193239	4193796	0.000000e+00	937.0
20	TraesCS2B01G203600	chr6A	96.619	562	15	4	2468	3025	4167962	4168523	0.000000e+00	929.0
21	TraesCS2B01G203600	chr6A	94.633	559	16	7	2468	3025	4218474	4219019	0.000000e+00	854.0
22	TraesCS2B01G203600	chr6A	97.717	219	2	3	3122	3338	560373397	560373180	1.140000e-99	374.0
23	TraesCS2B01G203600	chr6A	92.737	179	11	2	1189	1367	454185434	454185610	1.200000e-64	257.0
24	TraesCS2B01G203600	chr7B	97.312	558	15	0	2468	3025	403025927	403026484	0.000000e+00	948.0
25	TraesCS2B01G203600	chr5A	96.975	562	15	2	2464	3025	691299301	691299860	0.000000e+00	942.0
26	TraesCS2B01G203600	chr5A	98.131	214	1	3	3122	3334	691299684	691299895	1.480000e-98	370.0
27	TraesCS2B01G203600	chrUn	96.601	559	17	2	2468	3025	62718921	62718364	0.000000e+00	926.0
28	TraesCS2B01G203600	chrUn	96.509	401	14	0	2468	2868	399869939	399870339	0.000000e+00	664.0
29	TraesCS2B01G203600	chrUn	98.182	220	2	2	3122	3340	357010276	357010058	1.900000e-102	383.0
30	TraesCS2B01G203600	chr7A	95.203	542	8	5	2467	3008	686682801	686682278	0.000000e+00	841.0
31	TraesCS2B01G203600	chr7A	97.619	252	0	5	3122	3369	27447944	27447695	8.640000e-116	427.0
32	TraesCS2B01G203600	chr7A	95.595	227	2	3	3122	3348	696188105	696187887	1.150000e-94	357.0
33	TraesCS2B01G203600	chr2A	83.972	861	96	15	1369	2189	137260390	137259532	0.000000e+00	787.0
34	TraesCS2B01G203600	chr2A	84.828	580	88	0	1610	2189	755060869	755061448	4.840000e-163	584.0
35	TraesCS2B01G203600	chr7D	84.509	581	86	4	1610	2188	534655141	534654563	3.770000e-159	571.0
36	TraesCS2B01G203600	chr6B	100.000	248	0	0	3122	3369	679571051	679571298	3.060000e-125	459.0
37	TraesCS2B01G203600	chr6B	94.574	258	2	4	3122	3369	552760771	552760516	4.080000e-104	388.0
38	TraesCS2B01G203600	chr4A	96.813	251	2	4	3122	3369	648582203	648581956	6.730000e-112	414.0
39	TraesCS2B01G203600	chr3A	98.182	220	2	2	3122	3340	37207428	37207210	1.900000e-102	383.0
40	TraesCS2B01G203600	chr3A	94.175	103	6	0	1189	1291	638493040	638493142	1.250000e-34	158.0

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	TraesCS2B01G203600	chr2B	183210169	183213537	3368	False	2122.00	5587	99.627667	1	3369	3	chr2B.!!$F3	3368
1	TraesCS2B01G203600	chr2B	184662345	184663195	850	True	867.00	867	85.731000	1372	2191	1	chr2B.!!$R1	819
2	TraesCS2B01G203600	chr2B	765562111	765562690	579	False	568.00	568	84.310000	1610	2189	1	chr2B.!!$F2	579
3	TraesCS2B01G203600	chr2D	129940987	129942474	1487	False	910.00	1341	88.753000	971	2467	2	chr2D.!!$F3	1496
4	TraesCS2B01G203600	chr2D	131162920	131163971	1051	True	863.00	863	82.136000	1369	2384	1	chr2D.!!$R2	1015
5	TraesCS2B01G203600	chr2D	129833778	129838297	4519	False	748.25	1254	91.071750	1	2374	4	chr2D.!!$F2	2373
6	TraesCS2B01G203600	chr2D	623791208	623791787	579	False	573.00	573	84.483000	1610	2189	1	chr2D.!!$F1	579
7	TraesCS2B01G203600	chr2D	616626102	616626672	570	True	553.00	553	84.192000	1610	2189	1	chr2D.!!$R4	579
8	TraesCS2B01G203600	chr2D	73111357	73111929	572	True	507.00	507	82.669000	1614	2189	1	chr2D.!!$R1	575
9	TraesCS2B01G203600	chr6A	560435079	560435637	558	True	961.00	961	97.683000	2466	3025	1	chr6A.!!$R2	559
10	TraesCS2B01G203600	chr6A	4143114	4143672	558	False	937.00	937	96.959000	2468	3025	1	chr6A.!!$F1	557
11	TraesCS2B01G203600	chr6A	4193239	4193796	557	False	937.00	937	96.959000	2468	3025	1	chr6A.!!$F3	557
12	TraesCS2B01G203600	chr6A	4167962	4168523	561	False	929.00	929	96.619000	2468	3025	1	chr6A.!!$F2	557
13	TraesCS2B01G203600	chr6A	4218474	4219019	545	False	854.00	854	94.633000	2468	3025	1	chr6A.!!$F4	557
14	TraesCS2B01G203600	chr7B	403025927	403026484	557	False	948.00	948	97.312000	2468	3025	1	chr7B.!!$F1	557
15	TraesCS2B01G203600	chr5A	691299301	691299895	594	False	656.00	942	97.553000	2464	3334	2	chr5A.!!$F1	870
16	TraesCS2B01G203600	chrUn	62718364	62718921	557	True	926.00	926	96.601000	2468	3025	1	chrUn.!!$R1	557
17	TraesCS2B01G203600	chr7A	686682278	686682801	523	True	841.00	841	95.203000	2467	3008	1	chr7A.!!$R2	541
18	TraesCS2B01G203600	chr2A	137259532	137260390	858	True	787.00	787	83.972000	1369	2189	1	chr2A.!!$R1	820
19	TraesCS2B01G203600	chr2A	755060869	755061448	579	False	584.00	584	84.828000	1610	2189	1	chr2A.!!$F1	579
20	TraesCS2B01G203600	chr7D	534654563	534655141	578	True	571.00	571	84.509000	1610	2188	1	chr7D.!!$R1	578

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
913	3084	0.034896	GGGTCTCGAGTTGAAAGCCA	59.965	55.0	13.13	0.0	0.0	4.75	F

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability	Orientation
2410	4678	0.596577	TATAGTCTCGGTGCATCGGC	59.403	55.0	21.08	10.32	41.68	5.54	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
36	37	0.530650	AGCGTAATCTCCATGCACCG	60.531	55.000	0.00	0.00	0.00	4.94
93	94	1.302383	TTGCACGCCCACTAATTCCG	61.302	55.000	0.00	0.00	0.00	4.30
101	102	1.940613	CCCACTAATTCCGCTTGCTAC	59.059	52.381	0.00	0.00	0.00	3.58
109	110	2.325082	CCGCTTGCTACAACCGCTT	61.325	57.895	0.00	0.00	0.00	4.68
110	111	1.132640	CGCTTGCTACAACCGCTTC	59.867	57.895	0.00	0.00	0.00	3.86
149	150	1.611977	CACTGTAGGTCTGGTCAACGA	59.388	52.381	0.00	0.00	0.00	3.85
155	156	1.002087	AGGTCTGGTCAACGAATGGTC	59.998	52.381	0.00	0.00	0.00	4.02
183	184	2.359230	GTCGCTTGCTGCTTCCCT	60.359	61.111	0.00	0.00	40.11	4.20
200	201	6.069323	TGCTTCCCTGTTATAAATAAGGGACA	60.069	38.462	22.72	17.73	44.37	4.02
213	214	7.569599	AAATAAGGGACAGAGAAAGGAGTAA	57.430	36.000	0.00	0.00	0.00	2.24
221	222	6.147985	GGACAGAGAAAGGAGTAAATCACAAC	59.852	42.308	0.00	0.00	0.00	3.32
234	235	8.706322	AGTAAATCACAACTCCCTTGTTTTAT	57.294	30.769	0.00	0.00	41.50	1.40
246	247	6.088137	TCCCTTGTTTTATCCCCAAATTTCT	58.912	36.000	0.00	0.00	0.00	2.52
320	662	1.407979	CCGCCCGTGGAGTATATATCC	59.592	57.143	0.00	0.95	37.35	2.59
365	707	7.555087	AGTGAATTGAGAGAGGAAATGAGTAG	58.445	38.462	0.00	0.00	0.00	2.57
376	718	4.228210	AGGAAATGAGTAGGGCATCAAAGA	59.772	41.667	0.00	0.00	0.00	2.52
435	777	2.934932	TGGCTGGCCAGGATGACA	60.935	61.111	33.46	15.07	41.89	3.58
436	778	2.311070	TGGCTGGCCAGGATGACAT	61.311	57.895	33.46	0.00	41.89	3.06
449	791	0.442310	ATGACATTTGCGAACGACGG	59.558	50.000	0.00	0.00	42.83	4.79
486	828	4.837860	AGTGTTTGGGGATAGCATTTTTGA	59.162	37.500	0.00	0.00	0.00	2.69
487	829	4.929211	GTGTTTGGGGATAGCATTTTTGAC	59.071	41.667	0.00	0.00	0.00	3.18
488	830	4.590647	TGTTTGGGGATAGCATTTTTGACA	59.409	37.500	0.00	0.00	0.00	3.58
551	894	2.730928	CGAAAAACCGCTACCGTTAGAA	59.269	45.455	0.00	0.00	0.00	2.10
559	902	3.114065	CGCTACCGTTAGAACTTGATCC	58.886	50.000	0.00	0.00	0.00	3.36
560	903	3.181489	CGCTACCGTTAGAACTTGATCCT	60.181	47.826	0.00	0.00	0.00	3.24
626	974	6.407202	CCTAACATTCCCCTAGATTATTCCG	58.593	44.000	0.00	0.00	0.00	4.30
639	2767	8.804204	CCTAGATTATTCCGAGGTACTTTATGT	58.196	37.037	0.00	0.00	41.55	2.29
715	2865	2.041405	GAGGAGGGTGGGAGAGGG	60.041	72.222	0.00	0.00	0.00	4.30
719	2869	0.845102	GGAGGGTGGGAGAGGGAAAA	60.845	60.000	0.00	0.00	0.00	2.29
722	2872	0.481128	GGGTGGGAGAGGGAAAAACA	59.519	55.000	0.00	0.00	0.00	2.83
728	2878	0.612174	GAGAGGGAAAAACAGGGGCC	60.612	60.000	0.00	0.00	0.00	5.80
770	2920	1.451651	ACTTTCGTTAAACCGTACGCG	59.548	47.619	10.49	3.53	37.66	6.01
783	2933	1.733041	TACGCGTTCACTCAGCAGC	60.733	57.895	20.78	0.00	0.00	5.25
785	2935	2.597713	CGCGTTCACTCAGCAGCAA	61.598	57.895	0.00	0.00	0.00	3.91
805	2955	3.469008	ACATCTTTTGAGTCGTCACCA	57.531	42.857	0.00	0.00	30.10	4.17
834	2984	1.815003	CCAGTTGGATGCAAGGAGAAC	59.185	52.381	0.00	0.00	37.39	3.01
836	2986	2.886523	CAGTTGGATGCAAGGAGAACAA	59.113	45.455	0.00	0.00	0.00	2.83
837	2987	3.318839	CAGTTGGATGCAAGGAGAACAAA	59.681	43.478	0.00	0.00	0.00	2.83
838	2988	3.960102	AGTTGGATGCAAGGAGAACAAAA	59.040	39.130	0.00	0.00	0.00	2.44
839	2989	4.038402	AGTTGGATGCAAGGAGAACAAAAG	59.962	41.667	0.00	0.00	0.00	2.27
840	2990	2.892852	TGGATGCAAGGAGAACAAAAGG	59.107	45.455	0.00	0.00	0.00	3.11
841	2991	2.232208	GGATGCAAGGAGAACAAAAGGG	59.768	50.000	0.00	0.00	0.00	3.95
864	3014	2.989840	CACATGGAAAGACAGAGTCGAC	59.010	50.000	7.70	7.70	37.67	4.20
896	3067	2.757077	GAGGGGTTGGTCACTGGG	59.243	66.667	0.00	0.00	0.00	4.45
897	3068	2.038762	AGGGGTTGGTCACTGGGT	60.039	61.111	0.00	0.00	0.00	4.51
905	3076	0.469331	TGGTCACTGGGTCTCGAGTT	60.469	55.000	13.13	0.00	29.24	3.01
913	3084	0.034896	GGGTCTCGAGTTGAAAGCCA	59.965	55.000	13.13	0.00	0.00	4.75
920	3091	1.600413	CGAGTTGAAAGCCAGCCAAAC	60.600	52.381	0.00	0.00	0.00	2.93
921	3092	0.752658	AGTTGAAAGCCAGCCAAACC	59.247	50.000	0.00	0.00	0.00	3.27
922	3093	0.463620	GTTGAAAGCCAGCCAAACCA	59.536	50.000	0.00	0.00	0.00	3.67
923	3094	1.134551	GTTGAAAGCCAGCCAAACCAA	60.135	47.619	0.00	0.00	0.00	3.67
924	3095	1.198713	TGAAAGCCAGCCAAACCAAA	58.801	45.000	0.00	0.00	0.00	3.28
936	3107	3.038280	CCAAACCAAAAACCCTCTTCCT	58.962	45.455	0.00	0.00	0.00	3.36
947	3118	3.077556	TCTTCCTCCCTCTGCCGC	61.078	66.667	0.00	0.00	0.00	6.53
1040	3217	2.202810	CGCCCTTCTTCTCCTCGC	60.203	66.667	0.00	0.00	0.00	5.03
1113	3290	4.309950	GTGGTCTTGGTCGGCGGT	62.310	66.667	7.21	0.00	0.00	5.68
1163	3340	4.112341	GTGCTACCGGACGAGCGT	62.112	66.667	9.46	0.00	41.83	5.07
1184	3361	2.576615	AGTCGAAGAAAAAGCCAAGCT	58.423	42.857	0.00	0.00	38.82	3.74
1215	3392	3.382832	CTCGACGTGGCCCCTCTT	61.383	66.667	0.00	0.00	0.00	2.85
1241	3424	2.479650	CCTCGACGACGACCTGTC	59.520	66.667	5.75	0.00	43.81	3.51
1242	3425	2.033755	CCTCGACGACGACCTGTCT	61.034	63.158	5.75	0.00	45.87	3.41
1328	3511	2.747460	GCCACTGCGAATGCTGGA	60.747	61.111	0.26	0.00	43.66	3.86
1331	3514	2.110967	CACTGCGAATGCTGGAGGG	61.111	63.158	0.00	0.00	43.66	4.30
1488	3691	2.102252	ACTCTCTCCCGCTTGATTCATC	59.898	50.000	0.00	0.00	0.00	2.92
1536	3759	6.582636	TCTAACGAACTCAATATTGCATCCT	58.417	36.000	10.76	1.50	0.00	3.24
1538	3761	4.769688	ACGAACTCAATATTGCATCCTGA	58.230	39.130	10.76	0.00	0.00	3.86
1541	3764	5.985530	CGAACTCAATATTGCATCCTGAGTA	59.014	40.000	16.82	0.00	44.51	2.59
1594	3817	4.035102	GGCCCCACCTCCACTGAC	62.035	72.222	0.00	0.00	34.51	3.51
1606	3829	4.796231	ACTGACGATGACGCGCCC	62.796	66.667	5.73	0.00	43.96	6.13
1686	3921	0.737715	ATCCTCAAGTTCAGCGTCGC	60.738	55.000	9.80	9.80	0.00	5.19
1713	3948	2.048222	CCACGCCTTCTGCTCGAA	60.048	61.111	0.00	0.00	38.05	3.71
1841	4076	1.697284	CATCATCTCCTCGGACCTGA	58.303	55.000	0.00	0.00	0.00	3.86
1895	4130	4.329545	TCGGTGCCAAGAGGGTGC	62.330	66.667	0.00	0.00	39.65	5.01
1917	4152	0.613260	TGCCCGTACAGAGAATGCTT	59.387	50.000	0.00	0.00	0.00	3.91
2057	4292	0.979665	CAGGGAGTTTCAGGAGCTCA	59.020	55.000	17.19	0.00	0.00	4.26
2101	4336	2.108566	CTCCTGATGAGGCGGCTG	59.891	66.667	19.63	0.05	39.57	4.85
2390	4658	2.287915	CGATTCCTTTGGTTATGGAGCG	59.712	50.000	0.00	0.00	32.16	5.03
2410	4678	1.966451	GGGCTTTCACCAGTCACCG	60.966	63.158	0.00	0.00	0.00	4.94
2427	4695	2.805546	GCCGATGCACCGAGACTA	59.194	61.111	0.00	0.00	37.47	2.59
2606	4874	3.060615	ACGAGCTAAGCCGACGGT	61.061	61.111	16.73	0.00	0.00	4.83
2877	5145	2.034999	CCGCCTAAAACCTGGCCA	59.965	61.111	4.71	4.71	45.90	5.36
2879	5147	1.384222	CCGCCTAAAACCTGGCCATC	61.384	60.000	5.51	0.00	45.90	3.51
2920	5188	3.518590	CGTCGGCATAGGTAGACTTTTT	58.481	45.455	0.00	0.00	0.00	1.94

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
36	37	1.333791	GCCCATTATCGCGTTTGCTAC	60.334	52.381	5.77	0.00	39.65	3.58
57	58	1.600916	AAGTCAAGGCGCCTCCAAC	60.601	57.895	32.93	26.09	37.29	3.77
58	59	1.600636	CAAGTCAAGGCGCCTCCAA	60.601	57.895	32.93	15.73	37.29	3.53
93	94	0.166814	CTGAAGCGGTTGTAGCAAGC	59.833	55.000	3.70	1.45	37.01	4.01
101	102	1.237285	CCCCTTGACTGAAGCGGTTG	61.237	60.000	3.70	0.00	0.00	3.77
109	110	1.003580	GCACAGATTCCCCTTGACTGA	59.996	52.381	0.00	0.00	33.53	3.41
110	111	1.271543	TGCACAGATTCCCCTTGACTG	60.272	52.381	0.00	0.00	35.14	3.51
158	159	1.927210	CAGCAAGCGACGCGATATT	59.073	52.632	15.93	0.00	0.00	1.28
183	184	9.053472	TCCTTTCTCTGTCCCTTATTTATAACA	57.947	33.333	0.00	0.00	0.00	2.41
221	222	6.213397	AGAAATTTGGGGATAAAACAAGGGAG	59.787	38.462	0.00	0.00	0.00	4.30
234	235	1.919654	TCCGGATGAGAAATTTGGGGA	59.080	47.619	0.00	0.00	0.00	4.81
320	662	1.231221	TGATGTTTTTCACGGTCGGG	58.769	50.000	0.00	0.00	0.00	5.14
365	707	4.499696	CCAAATCGGTATTCTTTGATGCCC	60.500	45.833	0.00	0.00	32.83	5.36
429	771	1.526986	CCGTCGTTCGCAAATGTCATC	60.527	52.381	0.00	0.00	38.35	2.92
430	772	0.442310	CCGTCGTTCGCAAATGTCAT	59.558	50.000	0.00	0.00	38.35	3.06
431	773	0.597898	TCCGTCGTTCGCAAATGTCA	60.598	50.000	0.00	0.00	38.35	3.58
432	774	0.509499	TTCCGTCGTTCGCAAATGTC	59.491	50.000	0.00	0.00	38.35	3.06
433	775	0.233848	GTTCCGTCGTTCGCAAATGT	59.766	50.000	0.00	0.00	38.35	2.71
434	776	0.784250	CGTTCCGTCGTTCGCAAATG	60.784	55.000	0.00	0.00	38.35	2.32
435	777	1.489824	CGTTCCGTCGTTCGCAAAT	59.510	52.632	0.00	0.00	38.35	2.32
436	778	2.587679	CCGTTCCGTCGTTCGCAAA	61.588	57.895	0.00	0.00	38.35	3.68
449	791	3.368495	CAAACACTAAAACTGCCCGTTC	58.632	45.455	0.00	0.00	33.90	3.95
458	800	5.914898	ATGCTATCCCCAAACACTAAAAC	57.085	39.130	0.00	0.00	0.00	2.43
531	874	3.742882	AGTTCTAACGGTAGCGGTTTTTC	59.257	43.478	19.72	4.42	0.00	2.29
536	879	1.888512	TCAAGTTCTAACGGTAGCGGT	59.111	47.619	19.72	15.58	0.00	5.68
538	881	3.114065	GGATCAAGTTCTAACGGTAGCG	58.886	50.000	13.69	13.69	0.00	4.26
551	894	1.142465	CCCATAGCTGCAGGATCAAGT	59.858	52.381	17.12	0.00	0.00	3.16
578	922	1.558233	CGTAGGAGGAAGTTCCCAGT	58.442	55.000	18.65	5.56	37.19	4.00
639	2767	6.140110	GTCGCACAAAACAAAAGCTAAGATA	58.860	36.000	0.00	0.00	0.00	1.98
708	2858	0.612174	GCCCCTGTTTTTCCCTCTCC	60.612	60.000	0.00	0.00	0.00	3.71
715	2865	1.202348	CATCTTCGGCCCCTGTTTTTC	59.798	52.381	0.00	0.00	0.00	2.29
719	2869	0.909610	TCTCATCTTCGGCCCCTGTT	60.910	55.000	0.00	0.00	0.00	3.16
722	2872	2.427245	CGTCTCATCTTCGGCCCCT	61.427	63.158	0.00	0.00	0.00	4.79
728	2878	2.422479	TGGTAGGTTCGTCTCATCTTCG	59.578	50.000	0.00	0.00	0.00	3.79
770	2920	2.149578	AGATGTTGCTGCTGAGTGAAC	58.850	47.619	0.00	0.00	0.00	3.18
783	2933	3.559655	TGGTGACGACTCAAAAGATGTTG	59.440	43.478	0.00	0.00	0.00	3.33
785	2935	3.131396	GTGGTGACGACTCAAAAGATGT	58.869	45.455	0.00	0.00	0.00	3.06
834	2984	1.969923	TCTTTCCATGTGCCCCTTTTG	59.030	47.619	0.00	0.00	0.00	2.44
836	2986	1.133199	TGTCTTTCCATGTGCCCCTTT	60.133	47.619	0.00	0.00	0.00	3.11
837	2987	0.482446	TGTCTTTCCATGTGCCCCTT	59.518	50.000	0.00	0.00	0.00	3.95
838	2988	0.038744	CTGTCTTTCCATGTGCCCCT	59.961	55.000	0.00	0.00	0.00	4.79
839	2989	0.038166	TCTGTCTTTCCATGTGCCCC	59.962	55.000	0.00	0.00	0.00	5.80
840	2990	1.271597	ACTCTGTCTTTCCATGTGCCC	60.272	52.381	0.00	0.00	0.00	5.36
841	2991	2.079925	GACTCTGTCTTTCCATGTGCC	58.920	52.381	0.00	0.00	0.00	5.01
864	3014	2.639839	ACCCCTCGATCCCAATTATCTG	59.360	50.000	0.00	0.00	0.00	2.90
896	3067	0.793250	GCTGGCTTTCAACTCGAGAC	59.207	55.000	21.68	0.00	0.00	3.36
897	3068	0.320771	GGCTGGCTTTCAACTCGAGA	60.321	55.000	21.68	0.00	0.00	4.04
905	3076	1.198713	TTTGGTTTGGCTGGCTTTCA	58.801	45.000	2.00	0.00	0.00	2.69
913	3084	2.174685	AGAGGGTTTTTGGTTTGGCT	57.825	45.000	0.00	0.00	0.00	4.75
920	3091	1.429299	AGGGAGGAAGAGGGTTTTTGG	59.571	52.381	0.00	0.00	0.00	3.28
921	3092	2.376855	AGAGGGAGGAAGAGGGTTTTTG	59.623	50.000	0.00	0.00	0.00	2.44
922	3093	2.376855	CAGAGGGAGGAAGAGGGTTTTT	59.623	50.000	0.00	0.00	0.00	1.94
923	3094	1.988846	CAGAGGGAGGAAGAGGGTTTT	59.011	52.381	0.00	0.00	0.00	2.43
924	3095	1.662686	CAGAGGGAGGAAGAGGGTTT	58.337	55.000	0.00	0.00	0.00	3.27
947	3118	1.053048	CTAGTCGTGTGTTCAGTGCG	58.947	55.000	0.00	0.00	0.00	5.34
1026	3203	1.139947	GACGGCGAGGAGAAGAAGG	59.860	63.158	16.62	0.00	0.00	3.46
1163	3340	3.498397	CAGCTTGGCTTTTTCTTCGACTA	59.502	43.478	0.00	0.00	36.40	2.59
1184	3361	4.697756	CGAGGGCCGCCTTGTTCA	62.698	66.667	9.86	0.00	0.00	3.18
1343	3526	4.740235	GAGATGCTCCAGGCGTAC	57.260	61.111	0.00	0.00	45.43	3.67
1488	3691	3.117372	CTCCGCACCGTAGTAGGG	58.883	66.667	7.36	7.36	35.02	3.53
1538	3761	3.097614	ACGTTTCTGGCCTGAGTATACT	58.902	45.455	12.54	4.68	0.00	2.12
1541	3764	2.354805	GGAACGTTTCTGGCCTGAGTAT	60.355	50.000	12.54	0.00	0.00	2.12
1584	3807	1.517257	GCGTCATCGTCAGTGGAGG	60.517	63.158	0.00	0.00	39.49	4.30
1841	4076	1.064825	AGGAAACCCCACTTGTCGAT	58.935	50.000	0.00	0.00	37.41	3.59
1882	4117	2.113774	CAGTGCACCCTCTTGGCA	59.886	61.111	14.63	0.00	37.83	4.92
1895	4130	1.645034	CATTCTCTGTACGGGCAGTG	58.355	55.000	0.85	6.37	37.70	3.66
2131	4366	1.343142	TCCACGTACATCTTGCACTGT	59.657	47.619	0.00	0.00	0.00	3.55
2390	4658	0.606673	GGTGACTGGTGAAAGCCCTC	60.607	60.000	0.00	0.00	0.00	4.30
2397	4665	2.579657	ATCGGCGGTGACTGGTGAA	61.580	57.895	7.21	0.00	0.00	3.18
2410	4678	0.596577	TATAGTCTCGGTGCATCGGC	59.403	55.000	21.08	10.32	41.68	5.54
2449	4717	6.476378	GGTAGTGGATGAAGCCATGTATTAT	58.524	40.000	0.00	0.00	40.68	1.28
2606	4874	2.229543	GACATATGTATGCCGACGGGTA	59.770	50.000	17.22	0.00	37.19	3.69
2641	4909	2.037136	GCTGCTGTCGCCATGTTCT	61.037	57.895	0.00	0.00	34.43	3.01
2789	5057	1.035385	TCGGCTTAGCTCATGGACGA	61.035	55.000	3.59	0.00	0.00	4.20
2823	5091	0.806102	ATCGCTGACGTGGCATGTAC	60.806	55.000	13.23	7.28	41.18	2.90
3131	5399	3.131478	CAGGTTTTAGGCGGCGGG	61.131	66.667	9.78	0.00	0.00	6.13
3132	5400	3.131478	CCAGGTTTTAGGCGGCGG	61.131	66.667	9.78	0.00	0.00	6.13
3133	5401	3.810896	GCCAGGTTTTAGGCGGCG	61.811	66.667	0.51	0.51	41.70	6.46
3138	5406	0.613777	AGAGACGGCCAGGTTTTAGG	59.386	55.000	2.24	0.00	0.00	2.69

Based at the University of Bristol with support from BBSRC.

AutoCloner maintained by Alex Coulton.