AutoCloner

Multiple sequence alignment - TraesCS2D01G563700

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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	TraesCS2D01G563700	chr2D	100.000	3129	0	0	1	3129	634823438	634826566	0.000000e+00	5779.0
1	TraesCS2D01G563700	chr2D	96.605	2003	50	6	1128	3129	634797215	634799200	0.000000e+00	3306.0
2	TraesCS2D01G563700	chr2D	96.477	1703	42	5	1428	3129	634809797	634811482	0.000000e+00	2796.0
3	TraesCS2D01G563700	chr4A	94.035	1140	36	11	3	1128	640936436	640937557	0.000000e+00	1700.0
4	TraesCS2D01G563700	chr4A	81.752	274	46	4	2854	3125	312714413	312714684	3.140000e-55	226.0
5	TraesCS2D01G563700	chr4D	96.211	1003	32	4	132	1128	428530861	428529859	0.000000e+00	1637.0
6	TraesCS2D01G563700	chr4D	95.385	195	4	3	1	190	436934816	436934622	3.920000e-79	305.0
7	TraesCS2D01G563700	chr4D	94.872	195	5	3	1	190	398985259	398985453	1.820000e-77	300.0
8	TraesCS2D01G563700	chr1D	96.032	1008	30	3	132	1129	475527290	475528297	0.000000e+00	1631.0
9	TraesCS2D01G563700	chr1D	85.271	516	64	9	1395	1905	240990094	240990602	3.580000e-144	521.0
10	TraesCS2D01G563700	chr1D	95.361	194	5	3	1	190	12355574	12355381	3.920000e-79	305.0
11	TraesCS2D01G563700	chr6D	95.738	1009	31	4	132	1128	472511971	472510963	0.000000e+00	1615.0
12	TraesCS2D01G563700	chr6D	95.441	1009	34	4	132	1128	7980034	7981042	0.000000e+00	1598.0
13	TraesCS2D01G563700	chr6D	95.333	1007	37	3	132	1128	306317193	306318199	0.000000e+00	1591.0
14	TraesCS2D01G563700	chr6D	95.020	1004	43	5	132	1128	367563534	367564537	0.000000e+00	1570.0
15	TraesCS2D01G563700	chr6D	95.385	195	4	3	1	190	306317099	306317293	3.920000e-79	305.0
16	TraesCS2D01G563700	chr6D	94.872	195	5	3	1	190	7979940	7980134	1.820000e-77	300.0
17	TraesCS2D01G563700	chr6D	94.872	195	5	3	1	190	29977677	29977871	1.820000e-77	300.0
18	TraesCS2D01G563700	chr6D	94.872	195	5	3	1	190	51500570	51500376	1.820000e-77	300.0
19	TraesCS2D01G563700	chr6D	90.164	61	5	1	2232	2291	106957827	106957767	9.300000e-11	78.7
20	TraesCS2D01G563700	chr3D	94.945	1009	39	5	132	1128	574855797	574856805	0.000000e+00	1570.0
21	TraesCS2D01G563700	chr3D	94.742	1008	43	3	132	1129	85227140	85226133	0.000000e+00	1559.0
22	TraesCS2D01G563700	chr5D	94.945	1009	38	6	132	1128	480823247	480824254	0.000000e+00	1568.0
23	TraesCS2D01G563700	chr2B	92.373	1062	62	8	1128	2188	777829407	777830450	0.000000e+00	1495.0
24	TraesCS2D01G563700	chr2B	89.488	761	58	11	1484	2238	777836791	777837535	0.000000e+00	942.0
25	TraesCS2D01G563700	chr2B	87.692	65	6	2	2232	2294	152706665	152706601	1.200000e-09	75.0
26	TraesCS2D01G563700	chr2A	92.476	1050	58	15	1128	2169	778723790	778722754	0.000000e+00	1482.0
27	TraesCS2D01G563700	chr2A	83.453	278	43	3	2849	3125	138146009	138145734	4.000000e-64	255.0
28	TraesCS2D01G563700	chr2A	83.453	278	43	3	2849	3125	695424028	695423753	4.000000e-64	255.0
29	TraesCS2D01G563700	chr5B	84.075	584	88	5	2539	3121	102433553	102432974	2.730000e-155	558.0
30	TraesCS2D01G563700	chr5B	89.706	68	4	2	2234	2298	38514664	38514597	2.000000e-12	84.2
31	TraesCS2D01G563700	chr5B	87.692	65	6	2	2232	2294	394756834	394756898	1.200000e-09	75.0
32	TraesCS2D01G563700	chrUn	83.904	584	89	5	2539	3121	199304620	199305199	1.270000e-153	553.0
33	TraesCS2D01G563700	chr1A	86.240	516	59	9	1395	1905	305607546	305608054	1.640000e-152	549.0
34	TraesCS2D01G563700	chr1B	85.356	519	64	9	1395	1908	333322808	333322297	7.690000e-146	527.0
35	TraesCS2D01G563700	chr1B	93.103	58	4	0	2234	2291	7869256	7869199	5.560000e-13	86.1
36	TraesCS2D01G563700	chr3A	82.809	477	53	18	2292	2768	12535859	12535412	1.750000e-107	399.0
37	TraesCS2D01G563700	chr3A	82.836	268	46	0	2854	3121	514397214	514397481	1.120000e-59	241.0
38	TraesCS2D01G563700	chr3A	81.818	275	47	1	2854	3125	12535409	12535135	8.730000e-56	228.0
39	TraesCS2D01G563700	chr7D	95.385	195	4	3	1	190	115101378	115101184	3.920000e-79	305.0
40	TraesCS2D01G563700	chr4B	88.235	68	5	2	2234	2298	603038832	603038899	9.300000e-11	78.7
41	TraesCS2D01G563700	chr6B	90.000	60	5	1	2233	2291	540573378	540573319	3.350000e-10	76.8

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	TraesCS2D01G563700	chr2D	634823438	634826566	3128	False	5779.0	5779	100.0000	1	3129	1	chr2D.!!$F3	3128
1	TraesCS2D01G563700	chr2D	634797215	634799200	1985	False	3306.0	3306	96.6050	1128	3129	1	chr2D.!!$F1	2001
2	TraesCS2D01G563700	chr2D	634809797	634811482	1685	False	2796.0	2796	96.4770	1428	3129	1	chr2D.!!$F2	1701
3	TraesCS2D01G563700	chr4A	640936436	640937557	1121	False	1700.0	1700	94.0350	3	1128	1	chr4A.!!$F2	1125
4	TraesCS2D01G563700	chr4D	428529859	428530861	1002	True	1637.0	1637	96.2110	132	1128	1	chr4D.!!$R1	996
5	TraesCS2D01G563700	chr1D	475527290	475528297	1007	False	1631.0	1631	96.0320	132	1129	1	chr1D.!!$F2	997
6	TraesCS2D01G563700	chr1D	240990094	240990602	508	False	521.0	521	85.2710	1395	1905	1	chr1D.!!$F1	510
7	TraesCS2D01G563700	chr6D	472510963	472511971	1008	True	1615.0	1615	95.7380	132	1128	1	chr6D.!!$R3	996
8	TraesCS2D01G563700	chr6D	367563534	367564537	1003	False	1570.0	1570	95.0200	132	1128	1	chr6D.!!$F2	996
9	TraesCS2D01G563700	chr6D	7979940	7981042	1102	False	949.0	1598	95.1565	1	1128	2	chr6D.!!$F3	1127
10	TraesCS2D01G563700	chr6D	306317099	306318199	1100	False	948.0	1591	95.3590	1	1128	2	chr6D.!!$F4	1127
11	TraesCS2D01G563700	chr3D	574855797	574856805	1008	False	1570.0	1570	94.9450	132	1128	1	chr3D.!!$F1	996
12	TraesCS2D01G563700	chr3D	85226133	85227140	1007	True	1559.0	1559	94.7420	132	1129	1	chr3D.!!$R1	997
13	TraesCS2D01G563700	chr5D	480823247	480824254	1007	False	1568.0	1568	94.9450	132	1128	1	chr5D.!!$F1	996
14	TraesCS2D01G563700	chr2B	777829407	777830450	1043	False	1495.0	1495	92.3730	1128	2188	1	chr2B.!!$F1	1060
15	TraesCS2D01G563700	chr2B	777836791	777837535	744	False	942.0	942	89.4880	1484	2238	1	chr2B.!!$F2	754
16	TraesCS2D01G563700	chr2A	778722754	778723790	1036	True	1482.0	1482	92.4760	1128	2169	1	chr2A.!!$R3	1041
17	TraesCS2D01G563700	chr5B	102432974	102433553	579	True	558.0	558	84.0750	2539	3121	1	chr5B.!!$R2	582
18	TraesCS2D01G563700	chrUn	199304620	199305199	579	False	553.0	553	83.9040	2539	3121	1	chrUn.!!$F1	582
19	TraesCS2D01G563700	chr1A	305607546	305608054	508	False	549.0	549	86.2400	1395	1905	1	chr1A.!!$F1	510
20	TraesCS2D01G563700	chr1B	333322297	333322808	511	True	527.0	527	85.3560	1395	1908	1	chr1B.!!$R2	513
21	TraesCS2D01G563700	chr3A	12535135	12535859	724	True	313.5	399	82.3135	2292	3125	2	chr3A.!!$R1	833

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
270	290	2.233271	GGTACTATACCTGCGGCACTA	58.767	52.381	0.0	0.0	45.52	2.74	F
1026	1068	0.388006	CAACGGGCGATTTGGGTTTC	60.388	55.000	0.0	0.0	0.00	2.78	F

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability	Orientation
1482	1528	0.750546	TCTCGTCCCCGTCGATCATT	60.751	55.0	0.00	0.0	36.73	2.57	R
2272	2335	1.151172	CCGCGCTGCAAAAGGTTTTT	61.151	50.0	5.56	0.0	0.00	1.94	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
103	104	9.632638	ATTGCAGTTCATCCTAAATAATACAGT	57.367	29.630	0.00	0.00	0.00	3.55
104	105	8.437360	TGCAGTTCATCCTAAATAATACAGTG	57.563	34.615	0.00	0.00	0.00	3.66
105	106	8.046708	TGCAGTTCATCCTAAATAATACAGTGT	58.953	33.333	0.00	0.00	0.00	3.55
106	107	9.542462	GCAGTTCATCCTAAATAATACAGTGTA	57.458	33.333	5.24	5.24	0.00	2.90
114	115	9.483489	TCCTAAATAATACAGTGTAGGTTCAGA	57.517	33.333	9.25	0.00	31.81	3.27
118	119	9.877178	AAATAATACAGTGTAGGTTCAGAAGAG	57.123	33.333	9.25	0.00	0.00	2.85
119	120	3.669251	ACAGTGTAGGTTCAGAAGAGC	57.331	47.619	0.00	0.00	0.00	4.09
120	121	2.965831	ACAGTGTAGGTTCAGAAGAGCA	59.034	45.455	0.00	0.00	0.00	4.26
121	122	3.388024	ACAGTGTAGGTTCAGAAGAGCAA	59.612	43.478	0.00	0.00	0.00	3.91
122	123	3.743396	CAGTGTAGGTTCAGAAGAGCAAC	59.257	47.826	0.00	0.00	0.00	4.17
123	124	3.643792	AGTGTAGGTTCAGAAGAGCAACT	59.356	43.478	0.00	0.00	0.00	3.16
124	125	4.101741	AGTGTAGGTTCAGAAGAGCAACTT	59.898	41.667	0.00	0.00	42.03	2.66
125	126	4.212214	GTGTAGGTTCAGAAGAGCAACTTG	59.788	45.833	1.06	0.00	39.13	3.16
126	127	3.567478	AGGTTCAGAAGAGCAACTTGT	57.433	42.857	1.06	0.00	39.13	3.16
127	128	3.471680	AGGTTCAGAAGAGCAACTTGTC	58.528	45.455	1.06	0.00	39.13	3.18
128	129	3.118261	AGGTTCAGAAGAGCAACTTGTCA	60.118	43.478	1.06	0.00	39.13	3.58
129	130	3.627577	GGTTCAGAAGAGCAACTTGTCAA	59.372	43.478	1.06	0.00	39.13	3.18
130	131	4.496507	GGTTCAGAAGAGCAACTTGTCAAC	60.497	45.833	1.06	0.92	39.13	3.18
138	139	9.236006	AGAAGAGCAACTTGTCAACATAATATT	57.764	29.630	1.06	0.00	39.13	1.28
143	144	7.809331	AGCAACTTGTCAACATAATATTGTGTG	59.191	33.333	17.35	11.84	32.63	3.82
153	154	7.391148	ACATAATATTGTGTGGGTTCAGAAC	57.609	36.000	16.11	4.52	31.01	3.01
270	290	2.233271	GGTACTATACCTGCGGCACTA	58.767	52.381	0.00	0.00	45.52	2.74
811	834	2.643551	CAGAGAGGAGAGGAGAGTGAC	58.356	57.143	0.00	0.00	0.00	3.67
921	963	2.335712	GGGTCGGTCCGAGTAACGT	61.336	63.158	15.95	0.00	40.78	3.99
1026	1068	0.388006	CAACGGGCGATTTGGGTTTC	60.388	55.000	0.00	0.00	0.00	2.78
1050	1092	1.884579	AGACAGCCGACGAGAAAAGTA	59.115	47.619	0.00	0.00	0.00	2.24
1144	1189	4.544689	CTCGACCTCGCCTCGCTG	62.545	72.222	0.00	0.00	39.60	5.18
1295	1340	3.164977	TGGGCGTGAACCACCTCA	61.165	61.111	0.00	0.00	31.83	3.86
1582	1628	2.141448	TTCCACCAGCGGTACCACA	61.141	57.895	13.54	0.00	32.11	4.17
1703	1749	3.254060	CGTTCCAGAAGTTCATCACGAT	58.746	45.455	5.50	0.00	0.00	3.73
1705	1751	4.245660	GTTCCAGAAGTTCATCACGATGA	58.754	43.478	5.62	5.62	45.30	2.92
1809	1855	1.371183	CTGGAACAAGGACTCGGCA	59.629	57.895	0.00	0.00	38.70	5.69
2055	2112	4.681978	GGCCTTGCGAGTGTCGGT	62.682	66.667	0.00	0.00	40.84	4.69
2284	2347	2.466205	CGTCACGCTAAAAACCTTTTGC	59.534	45.455	0.00	0.00	39.14	3.68
2291	2354	1.151172	AAAAACCTTTTGCAGCGCGG	61.151	50.000	8.83	2.11	0.00	6.46
2350	2413	0.743688	CTCGCACCATAGCTCTGTCT	59.256	55.000	0.00	0.00	0.00	3.41
2376	2439	0.676782	AACACCATCGGCTACCTTGC	60.677	55.000	0.00	0.00	0.00	4.01
2431	2494	1.629353	AGTCCCTATCGATCTCGCCTA	59.371	52.381	0.00	0.00	39.60	3.93
2443	2506	2.743538	CGCCTAGCTTGCAGCACA	60.744	61.111	0.00	0.00	45.56	4.57
2472	2535	3.997021	ACACTATTGTAGCTTGCAGACAC	59.003	43.478	0.00	0.00	32.60	3.67
2563	2626	1.874345	ATTTGACTCCGACGCCTCGT	61.874	55.000	4.43	0.00	45.10	4.18
2671	2734	4.798907	CGTCAGTTATAGCTTTCACGTCAT	59.201	41.667	0.00	0.00	0.00	3.06
3005	3068	2.437359	AGCTTCTGATGGCGCCAC	60.437	61.111	35.50	25.23	0.00	5.01
3098	3164	2.368188	GGGGGCATGGGGATTTGT	59.632	61.111	0.00	0.00	0.00	2.83

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
94	95	7.124298	TGCTCTTCTGAACCTACACTGTATTAT	59.876	37.037	0.00	0.00	0.00	1.28
95	96	6.436218	TGCTCTTCTGAACCTACACTGTATTA	59.564	38.462	0.00	0.00	0.00	0.98
96	97	5.246203	TGCTCTTCTGAACCTACACTGTATT	59.754	40.000	0.00	0.00	0.00	1.89
97	98	4.772624	TGCTCTTCTGAACCTACACTGTAT	59.227	41.667	0.00	0.00	0.00	2.29
98	99	4.149598	TGCTCTTCTGAACCTACACTGTA	58.850	43.478	0.00	0.00	0.00	2.74
99	100	2.965831	TGCTCTTCTGAACCTACACTGT	59.034	45.455	0.00	0.00	0.00	3.55
100	101	3.667497	TGCTCTTCTGAACCTACACTG	57.333	47.619	0.00	0.00	0.00	3.66
101	102	3.643792	AGTTGCTCTTCTGAACCTACACT	59.356	43.478	0.00	0.00	0.00	3.55
102	103	3.996480	AGTTGCTCTTCTGAACCTACAC	58.004	45.455	0.00	0.00	0.00	2.90
103	104	4.141711	ACAAGTTGCTCTTCTGAACCTACA	60.142	41.667	1.81	0.00	33.63	2.74
104	105	4.381411	ACAAGTTGCTCTTCTGAACCTAC	58.619	43.478	1.81	0.00	33.63	3.18
105	106	4.100963	TGACAAGTTGCTCTTCTGAACCTA	59.899	41.667	1.81	0.00	33.63	3.08
106	107	3.118261	TGACAAGTTGCTCTTCTGAACCT	60.118	43.478	1.81	0.00	33.63	3.50
107	108	3.206150	TGACAAGTTGCTCTTCTGAACC	58.794	45.455	1.81	0.00	33.63	3.62
108	109	4.094887	TGTTGACAAGTTGCTCTTCTGAAC	59.905	41.667	1.81	0.00	33.63	3.18
109	110	4.260985	TGTTGACAAGTTGCTCTTCTGAA	58.739	39.130	1.81	0.00	33.63	3.02
110	111	3.872696	TGTTGACAAGTTGCTCTTCTGA	58.127	40.909	1.81	0.00	33.63	3.27
111	112	4.825546	ATGTTGACAAGTTGCTCTTCTG	57.174	40.909	1.81	0.00	33.63	3.02
112	113	8.798859	ATATTATGTTGACAAGTTGCTCTTCT	57.201	30.769	1.81	0.00	33.63	2.85
113	114	9.282247	CAATATTATGTTGACAAGTTGCTCTTC	57.718	33.333	1.81	0.00	33.63	2.87
114	115	8.796475	ACAATATTATGTTGACAAGTTGCTCTT	58.204	29.630	8.63	0.00	36.75	2.85
115	116	8.239314	CACAATATTATGTTGACAAGTTGCTCT	58.761	33.333	8.63	0.00	0.00	4.09
116	117	8.023128	ACACAATATTATGTTGACAAGTTGCTC	58.977	33.333	8.63	0.83	0.00	4.26
117	118	7.809331	CACACAATATTATGTTGACAAGTTGCT	59.191	33.333	8.63	0.00	0.00	3.91
118	119	7.062138	CCACACAATATTATGTTGACAAGTTGC	59.938	37.037	8.63	0.00	0.00	4.17
119	120	7.541783	CCCACACAATATTATGTTGACAAGTTG	59.458	37.037	8.63	0.00	0.00	3.16
120	121	7.232534	ACCCACACAATATTATGTTGACAAGTT	59.767	33.333	8.63	0.00	0.00	2.66
121	122	6.719370	ACCCACACAATATTATGTTGACAAGT	59.281	34.615	8.63	0.00	0.00	3.16
122	123	7.156876	ACCCACACAATATTATGTTGACAAG	57.843	36.000	8.63	0.00	0.00	3.16
123	124	7.231519	TGAACCCACACAATATTATGTTGACAA	59.768	33.333	8.63	0.00	0.00	3.18
124	125	6.717084	TGAACCCACACAATATTATGTTGACA	59.283	34.615	8.63	0.00	0.00	3.58
125	126	7.120579	TCTGAACCCACACAATATTATGTTGAC	59.879	37.037	8.63	0.00	0.00	3.18
126	127	7.171653	TCTGAACCCACACAATATTATGTTGA	58.828	34.615	8.63	0.00	0.00	3.18
127	128	7.389803	TCTGAACCCACACAATATTATGTTG	57.610	36.000	0.00	0.13	0.00	3.33
128	129	7.450014	TGTTCTGAACCCACACAATATTATGTT	59.550	33.333	17.26	0.00	0.00	2.71
129	130	6.945435	TGTTCTGAACCCACACAATATTATGT	59.055	34.615	17.26	0.00	0.00	2.29
130	131	7.389803	TGTTCTGAACCCACACAATATTATG	57.610	36.000	17.26	0.00	0.00	1.90
138	139	0.254462	TGCTGTTCTGAACCCACACA	59.746	50.000	17.26	6.12	0.00	3.72
143	144	2.024414	ACAAGTTGCTGTTCTGAACCC	58.976	47.619	17.26	9.25	0.00	4.11
153	154	7.809331	ACACAATATTATGTTGACAAGTTGCTG	59.191	33.333	8.63	0.00	0.00	4.41
270	290	3.335579	GAAGGCGTTTCTATGGTTGTCT	58.664	45.455	0.00	0.00	32.83	3.41
811	834	1.268692	GCACTCATCTCTCTCTCGCTG	60.269	57.143	0.00	0.00	0.00	5.18
903	945	2.258580	GACGTTACTCGGACCGACCC	62.259	65.000	13.88	0.00	44.69	4.46
1026	1068	0.241213	TTCTCGTCGGCTGTCTCAAG	59.759	55.000	0.00	0.00	0.00	3.02
1156	1201	2.007641	GAACGCGTCGACGAACTGT	61.008	57.895	39.74	26.56	43.02	3.55
1295	1340	4.400961	GGCGAGCAGGAAGTGGCT	62.401	66.667	0.00	0.00	44.48	4.75
1480	1526	1.141019	CGTCCCCGTCGATCATTGT	59.859	57.895	0.00	0.00	0.00	2.71
1482	1528	0.750546	TCTCGTCCCCGTCGATCATT	60.751	55.000	0.00	0.00	36.73	2.57
1582	1628	1.201429	AAGGTGATGCCGGTCTCCTT	61.201	55.000	18.08	18.08	43.58	3.36
1703	1749	2.283529	GCCTCCCAGACGAACCTCA	61.284	63.158	0.00	0.00	0.00	3.86
1705	1751	3.382832	CGCCTCCCAGACGAACCT	61.383	66.667	0.00	0.00	0.00	3.50
1809	1855	1.754226	GAGAGCTGGTTCTCGAAGGAT	59.246	52.381	0.00	0.00	38.12	3.24
2007	2063	6.074782	CGCGTAATTGAGTTTTTAAAAAGGCA	60.075	34.615	13.58	11.47	0.00	4.75
2017	2074	3.000727	CTCTCCCGCGTAATTGAGTTTT	58.999	45.455	4.92	0.00	0.00	2.43
2055	2112	3.065925	CACACGAGATCTATGCACTCTCA	59.934	47.826	14.26	0.00	36.11	3.27
2264	2327	3.440228	TGCAAAAGGTTTTTAGCGTGAC	58.560	40.909	0.00	0.00	0.00	3.67
2266	2329	2.218530	GCTGCAAAAGGTTTTTAGCGTG	59.781	45.455	0.00	0.00	32.06	5.34
2267	2330	2.469826	GCTGCAAAAGGTTTTTAGCGT	58.530	42.857	0.00	0.00	32.06	5.07
2268	2331	1.451651	CGCTGCAAAAGGTTTTTAGCG	59.548	47.619	20.22	20.22	45.74	4.26
2269	2332	1.192312	GCGCTGCAAAAGGTTTTTAGC	59.808	47.619	0.00	9.57	35.82	3.09
2270	2333	1.451651	CGCGCTGCAAAAGGTTTTTAG	59.548	47.619	5.56	0.00	0.00	1.85
2271	2334	1.482278	CGCGCTGCAAAAGGTTTTTA	58.518	45.000	5.56	0.00	0.00	1.52
2272	2335	1.151172	CCGCGCTGCAAAAGGTTTTT	61.151	50.000	5.56	0.00	0.00	1.94
2273	2336	1.591327	CCGCGCTGCAAAAGGTTTT	60.591	52.632	5.56	0.00	0.00	2.43
2274	2337	2.027460	CCGCGCTGCAAAAGGTTT	59.973	55.556	5.56	0.00	0.00	3.27
2275	2338	4.645921	GCCGCGCTGCAAAAGGTT	62.646	61.111	19.50	0.00	0.00	3.50
2277	2340	4.766088	GAGCCGCGCTGCAAAAGG	62.766	66.667	25.81	8.78	39.88	3.11
2291	2354	1.802960	CACTAATCATCCATGGCGAGC	59.197	52.381	6.96	0.00	0.00	5.03
2350	2413	1.971167	GCCGATGGTGTTGCAAGGA	60.971	57.895	0.00	0.00	0.00	3.36
2376	2439	1.564207	ACGATGTCGACATGATGCTG	58.436	50.000	34.48	17.90	43.02	4.41
2443	2506	4.569943	CAAGCTACAATAGTGTGACACCT	58.430	43.478	12.81	2.57	38.82	4.00
2523	2586	2.034066	CCTCGGTGTGCCATGGTT	59.966	61.111	14.67	0.00	34.09	3.67
2563	2626	2.758327	CGACATCAGGGTCCCCGA	60.758	66.667	3.51	0.00	41.95	5.14
3005	3068	2.097038	CACCTTCGGAAGCTGCGAG	61.097	63.158	12.29	0.41	42.14	5.03
3098	3164	1.519246	CTCCCGCATGCTTCTCTCA	59.481	57.895	17.13	0.00	0.00	3.27

Based at the University of Bristol with support from BBSRC.

AutoCloner maintained by Alex Coulton.