AutoCloner

Multiple sequence alignment - TraesCS2B01G258100

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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	TraesCS2B01G258100	chr2B	100.000	2876	0	0	1	2876	311926180	311923305	0.000000e+00	5312
1	TraesCS2B01G258100	chr2B	97.270	806	21	1	2072	2876	291072449	291071644	0.000000e+00	1365
2	TraesCS2B01G258100	chr2B	96.902	807	24	1	2071	2876	291060250	291059444	0.000000e+00	1351
3	TraesCS2B01G258100	chr2B	96.650	806	26	1	2072	2876	271700033	271700838	0.000000e+00	1338
4	TraesCS2B01G258100	chr2B	96.406	807	28	1	2071	2876	271712045	271712851	0.000000e+00	1328
5	TraesCS2B01G258100	chr2B	96.035	807	31	1	2071	2876	311910303	311909497	0.000000e+00	1312
6	TraesCS2B01G258100	chr2B	96.035	807	25	5	2072	2876	541291420	541290619	0.000000e+00	1306
7	TraesCS2B01G258100	chr2B	96.025	805	25	5	2074	2876	541280750	541279951	0.000000e+00	1303
8	TraesCS2B01G258100	chr4B	98.210	1955	32	1	121	2072	167378904	167376950	0.000000e+00	3413
9	TraesCS2B01G258100	chr4B	95.331	1328	61	1	522	1849	273959158	273960484	0.000000e+00	2108
10	TraesCS2B01G258100	chr4B	96.402	806	28	1	2072	2876	406715868	406716673	0.000000e+00	1327
11	TraesCS2B01G258100	chr4B	86.613	493	56	8	123	610	273958809	273959296	1.170000e-148	536
12	TraesCS2B01G258100	chr7B	96.970	1551	46	1	522	2072	660101521	660103070	0.000000e+00	2603
13	TraesCS2B01G258100	chr7B	94.094	491	29	0	120	610	36238040	36237550	0.000000e+00	747
14	TraesCS2B01G258100	chr7B	93.673	490	31	0	121	610	660101171	660101660	0.000000e+00	734
15	TraesCS2B01G258100	chr6D	96.229	1591	54	4	484	2072	39065789	39064203	0.000000e+00	2601
16	TraesCS2B01G258100	chr6D	91.379	290	17	2	123	404	39066404	39066115	9.660000e-105	390
17	TraesCS2B01G258100	chr6A	95.685	1576	62	4	502	2072	603905442	603907016	0.000000e+00	2529
18	TraesCS2B01G258100	chr6A	90.068	443	33	6	111	551	603904674	603905107	5.380000e-157	564
19	TraesCS2B01G258100	chr3B	95.680	1551	45	2	522	2072	228014553	228016081	0.000000e+00	2473
20	TraesCS2B01G258100	chr1A	96.200	1500	39	6	578	2072	564160204	564158718	0.000000e+00	2438
21	TraesCS2B01G258100	chr4A	94.712	1513	51	7	471	1979	147536229	147534742	0.000000e+00	2324
22	TraesCS2B01G258100	chr4A	84.211	361	36	16	126	470	410962279	410961924	5.940000e-87	331
23	TraesCS2B01G258100	chr6B	97.578	1115	23	3	962	2072	18463701	18462587	0.000000e+00	1906
24	TraesCS2B01G258100	chr6B	97.130	1115	28	3	962	2072	18465676	18466790	0.000000e+00	1879
25	TraesCS2B01G258100	chr6B	97.855	746	14	1	173	916	18464416	18463671	0.000000e+00	1288
26	TraesCS2B01G258100	chr1B	95.415	807	30	4	2072	2876	205467783	205468584	0.000000e+00	1279
27	TraesCS2B01G258100	chr2D	90.850	459	32	7	122	576	618325475	618325023	8.810000e-170	606
28	TraesCS2B01G258100	chr3A	80.645	527	58	29	114	627	144696700	144697195	4.530000e-98	368

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	TraesCS2B01G258100	chr2B	311923305	311926180	2875	True	5312.0	5312	100.0000	1	2876	1	chr2B.!!$R4	2875
1	TraesCS2B01G258100	chr2B	291071644	291072449	805	True	1365.0	1365	97.2700	2072	2876	1	chr2B.!!$R2	804
2	TraesCS2B01G258100	chr2B	291059444	291060250	806	True	1351.0	1351	96.9020	2071	2876	1	chr2B.!!$R1	805
3	TraesCS2B01G258100	chr2B	271700033	271700838	805	False	1338.0	1338	96.6500	2072	2876	1	chr2B.!!$F1	804
4	TraesCS2B01G258100	chr2B	271712045	271712851	806	False	1328.0	1328	96.4060	2071	2876	1	chr2B.!!$F2	805
5	TraesCS2B01G258100	chr2B	311909497	311910303	806	True	1312.0	1312	96.0350	2071	2876	1	chr2B.!!$R3	805
6	TraesCS2B01G258100	chr2B	541290619	541291420	801	True	1306.0	1306	96.0350	2072	2876	1	chr2B.!!$R6	804
7	TraesCS2B01G258100	chr2B	541279951	541280750	799	True	1303.0	1303	96.0250	2074	2876	1	chr2B.!!$R5	802
8	TraesCS2B01G258100	chr4B	167376950	167378904	1954	True	3413.0	3413	98.2100	121	2072	1	chr4B.!!$R1	1951
9	TraesCS2B01G258100	chr4B	406715868	406716673	805	False	1327.0	1327	96.4020	2072	2876	1	chr4B.!!$F1	804
10	TraesCS2B01G258100	chr4B	273958809	273960484	1675	False	1322.0	2108	90.9720	123	1849	2	chr4B.!!$F2	1726
11	TraesCS2B01G258100	chr7B	660101171	660103070	1899	False	1668.5	2603	95.3215	121	2072	2	chr7B.!!$F1	1951
12	TraesCS2B01G258100	chr6D	39064203	39066404	2201	True	1495.5	2601	93.8040	123	2072	2	chr6D.!!$R1	1949
13	TraesCS2B01G258100	chr6A	603904674	603907016	2342	False	1546.5	2529	92.8765	111	2072	2	chr6A.!!$F1	1961
14	TraesCS2B01G258100	chr3B	228014553	228016081	1528	False	2473.0	2473	95.6800	522	2072	1	chr3B.!!$F1	1550
15	TraesCS2B01G258100	chr1A	564158718	564160204	1486	True	2438.0	2438	96.2000	578	2072	1	chr1A.!!$R1	1494
16	TraesCS2B01G258100	chr4A	147534742	147536229	1487	True	2324.0	2324	94.7120	471	1979	1	chr4A.!!$R1	1508
17	TraesCS2B01G258100	chr6B	18465676	18466790	1114	False	1879.0	1879	97.1300	962	2072	1	chr6B.!!$F1	1110
18	TraesCS2B01G258100	chr6B	18462587	18464416	1829	True	1597.0	1906	97.7165	173	2072	2	chr6B.!!$R1	1899
19	TraesCS2B01G258100	chr1B	205467783	205468584	801	False	1279.0	1279	95.4150	2072	2876	1	chr1B.!!$F1	804

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	End Stability	Orientation
44	45	0.032615	TGAAGGGAGGGAGAGAGAGC	60.033	60.0	4.09	F
97	98	0.111832	ATGCCGACCGACCTCCTATA	59.888	55.0	1.31	F
103	104	0.178958	ACCGACCTCCTATAGCCCAG	60.179	60.0	4.45	F
106	107	0.471971	GACCTCCTATAGCCCAGCCA	60.472	60.0	4.75	F

Position	MSA Position	Penalty	Sequence	TM	GC	Hairpin	End Stability	Orientation
1568	2259	0.249784	CTCTGACATGCTCCCATCCG	60.250	60.000	0.00	4.18	R
1574	2265	2.289945	ACTTCAACCTCTGACATGCTCC	60.290	50.000	32.21	4.70	R
1832	2524	5.748402	TGCACTCATCTTCCATTGTAGAAT	58.252	37.500	0.00	2.40	R
2159	2851	3.636231	CCACGGAGGACCTTGGCA	61.636	66.667	46.07	4.92	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
24	25	7.488187	TCTTCAGTTCTCTGTTGATGAAAAG	57.512	36.000	0.00	0.00	41.91	2.27
25	26	7.050377	TCTTCAGTTCTCTGTTGATGAAAAGT	58.950	34.615	0.00	0.00	41.91	2.66
26	27	6.609237	TCAGTTCTCTGTTGATGAAAAGTG	57.391	37.500	0.00	0.00	41.91	3.16
27	28	6.348498	TCAGTTCTCTGTTGATGAAAAGTGA	58.652	36.000	0.00	0.00	41.91	3.41
28	29	6.823182	TCAGTTCTCTGTTGATGAAAAGTGAA	59.177	34.615	0.00	0.00	41.91	3.18
29	30	7.011763	TCAGTTCTCTGTTGATGAAAAGTGAAG	59.988	37.037	0.50	0.00	41.91	3.02
30	31	6.261826	AGTTCTCTGTTGATGAAAAGTGAAGG	59.738	38.462	0.50	0.00	0.00	3.46
31	32	5.065914	TCTCTGTTGATGAAAAGTGAAGGG	58.934	41.667	0.00	0.00	0.00	3.95
32	33	5.047566	TCTGTTGATGAAAAGTGAAGGGA	57.952	39.130	0.00	0.00	0.00	4.20
33	34	5.065914	TCTGTTGATGAAAAGTGAAGGGAG	58.934	41.667	0.00	0.00	0.00	4.30
34	35	4.144297	TGTTGATGAAAAGTGAAGGGAGG	58.856	43.478	0.00	0.00	0.00	4.30
35	36	3.439857	TGATGAAAAGTGAAGGGAGGG	57.560	47.619	0.00	0.00	0.00	4.30
36	37	2.986019	TGATGAAAAGTGAAGGGAGGGA	59.014	45.455	0.00	0.00	0.00	4.20
37	38	3.009473	TGATGAAAAGTGAAGGGAGGGAG	59.991	47.826	0.00	0.00	0.00	4.30
38	39	2.701551	TGAAAAGTGAAGGGAGGGAGA	58.298	47.619	0.00	0.00	0.00	3.71
39	40	2.639839	TGAAAAGTGAAGGGAGGGAGAG	59.360	50.000	0.00	0.00	0.00	3.20
40	41	2.723530	AAAGTGAAGGGAGGGAGAGA	57.276	50.000	0.00	0.00	0.00	3.10
41	42	2.246091	AAGTGAAGGGAGGGAGAGAG	57.754	55.000	0.00	0.00	0.00	3.20
42	43	1.388174	AGTGAAGGGAGGGAGAGAGA	58.612	55.000	0.00	0.00	0.00	3.10
43	44	1.287739	AGTGAAGGGAGGGAGAGAGAG	59.712	57.143	0.00	0.00	0.00	3.20
44	45	0.032615	TGAAGGGAGGGAGAGAGAGC	60.033	60.000	0.00	0.00	0.00	4.09
45	46	1.076339	AAGGGAGGGAGAGAGAGCG	60.076	63.158	0.00	0.00	0.00	5.03
46	47	1.869824	AAGGGAGGGAGAGAGAGCGT	61.870	60.000	0.00	0.00	0.00	5.07
47	48	2.124693	GGGAGGGAGAGAGAGCGTG	61.125	68.421	0.00	0.00	0.00	5.34
48	49	2.781158	GGAGGGAGAGAGAGCGTGC	61.781	68.421	0.00	0.00	0.00	5.34
49	50	3.119709	GAGGGAGAGAGAGCGTGCG	62.120	68.421	0.00	0.00	0.00	5.34
50	51	4.863925	GGGAGAGAGAGCGTGCGC	62.864	72.222	8.67	8.67	42.33	6.09
51	52	4.863925	GGAGAGAGAGCGTGCGCC	62.864	72.222	13.21	5.06	43.17	6.53
52	53	4.863925	GAGAGAGAGCGTGCGCCC	62.864	72.222	13.21	0.73	43.17	6.13
54	55	4.742201	GAGAGAGCGTGCGCCCAA	62.742	66.667	13.21	0.00	43.17	4.12
76	77	1.303643	CCTCTTGGGCCTGACCAAC	60.304	63.158	4.53	0.00	45.19	3.77
77	78	1.303643	CTCTTGGGCCTGACCAACC	60.304	63.158	4.53	0.00	45.19	3.77
78	79	2.067932	CTCTTGGGCCTGACCAACCA	62.068	60.000	4.53	0.00	45.19	3.67
79	80	1.077265	CTTGGGCCTGACCAACCAT	59.923	57.895	4.53	0.00	45.19	3.55
80	81	1.228831	TTGGGCCTGACCAACCATG	60.229	57.895	4.53	0.00	45.19	3.66
81	82	3.070576	GGGCCTGACCAACCATGC	61.071	66.667	0.84	0.00	42.05	4.06
82	83	3.070576	GGCCTGACCAACCATGCC	61.071	66.667	0.00	0.00	39.86	4.40
83	84	3.443045	GCCTGACCAACCATGCCG	61.443	66.667	0.00	0.00	0.00	5.69
84	85	2.350895	CCTGACCAACCATGCCGA	59.649	61.111	0.00	0.00	0.00	5.54
85	86	2.040544	CCTGACCAACCATGCCGAC	61.041	63.158	0.00	0.00	0.00	4.79
86	87	2.033448	TGACCAACCATGCCGACC	59.967	61.111	0.00	0.00	0.00	4.79
87	88	3.124921	GACCAACCATGCCGACCG	61.125	66.667	0.00	0.00	0.00	4.79
88	89	3.599285	GACCAACCATGCCGACCGA	62.599	63.158	0.00	0.00	0.00	4.69
89	90	3.124921	CCAACCATGCCGACCGAC	61.125	66.667	0.00	0.00	0.00	4.79
90	91	3.124921	CAACCATGCCGACCGACC	61.125	66.667	0.00	0.00	0.00	4.79
91	92	3.319198	AACCATGCCGACCGACCT	61.319	61.111	0.00	0.00	0.00	3.85
92	93	3.310860	AACCATGCCGACCGACCTC	62.311	63.158	0.00	0.00	0.00	3.85
93	94	4.530857	CCATGCCGACCGACCTCC	62.531	72.222	0.00	0.00	0.00	4.30
94	95	3.461773	CATGCCGACCGACCTCCT	61.462	66.667	0.00	0.00	0.00	3.69
95	96	2.125326	CATGCCGACCGACCTCCTA	61.125	63.158	0.00	0.00	0.00	2.94
96	97	1.152525	ATGCCGACCGACCTCCTAT	60.153	57.895	0.00	0.00	0.00	2.57
97	98	0.111832	ATGCCGACCGACCTCCTATA	59.888	55.000	0.00	0.00	0.00	1.31
98	99	0.536687	TGCCGACCGACCTCCTATAG	60.537	60.000	0.00	0.00	0.00	1.31
99	100	1.864725	GCCGACCGACCTCCTATAGC	61.865	65.000	0.00	0.00	0.00	2.97
100	101	1.242665	CCGACCGACCTCCTATAGCC	61.243	65.000	0.00	0.00	0.00	3.93
101	102	1.242665	CGACCGACCTCCTATAGCCC	61.243	65.000	0.00	0.00	0.00	5.19
102	103	0.178970	GACCGACCTCCTATAGCCCA	60.179	60.000	0.00	0.00	0.00	5.36
103	104	0.178958	ACCGACCTCCTATAGCCCAG	60.179	60.000	0.00	0.00	0.00	4.45
104	105	1.536943	CCGACCTCCTATAGCCCAGC	61.537	65.000	0.00	0.00	0.00	4.85
105	106	1.536943	CGACCTCCTATAGCCCAGCC	61.537	65.000	0.00	0.00	0.00	4.85
106	107	0.471971	GACCTCCTATAGCCCAGCCA	60.472	60.000	0.00	0.00	0.00	4.75
107	108	0.764752	ACCTCCTATAGCCCAGCCAC	60.765	60.000	0.00	0.00	0.00	5.01
108	109	1.484444	CCTCCTATAGCCCAGCCACC	61.484	65.000	0.00	0.00	0.00	4.61
109	110	1.461461	TCCTATAGCCCAGCCACCC	60.461	63.158	0.00	0.00	0.00	4.61
110	111	1.770110	CCTATAGCCCAGCCACCCA	60.770	63.158	0.00	0.00	0.00	4.51
111	112	1.451936	CTATAGCCCAGCCACCCAC	59.548	63.158	0.00	0.00	0.00	4.61
112	113	2.056906	CTATAGCCCAGCCACCCACC	62.057	65.000	0.00	0.00	0.00	4.61
113	114	2.561378	TATAGCCCAGCCACCCACCT	62.561	60.000	0.00	0.00	0.00	4.00
114	115	2.561378	ATAGCCCAGCCACCCACCTA	62.561	60.000	0.00	0.00	0.00	3.08
115	116	2.561378	TAGCCCAGCCACCCACCTAT	62.561	60.000	0.00	0.00	0.00	2.57
146	147	5.204292	AGAGAATTCCTTATTTGGCCCTTC	58.796	41.667	0.00	0.00	0.00	3.46
360	373	1.462238	CGATTCCCCCATCTCCCCT	60.462	63.158	0.00	0.00	0.00	4.79
451	485	4.082523	CGACGCATGGAGGTGGGT	62.083	66.667	0.00	0.00	46.35	4.51
460	494	1.616628	GGAGGTGGGTGAGGTGGAT	60.617	63.158	0.00	0.00	0.00	3.41
570	604	2.451493	TGGCCAACCCAAGGAGGA	60.451	61.111	0.61	0.00	41.82	3.71
571	605	2.035783	GGCCAACCCAAGGAGGAC	59.964	66.667	0.00	0.00	41.22	3.85
572	606	2.359975	GCCAACCCAAGGAGGACG	60.360	66.667	1.88	0.00	41.22	4.79
573	607	2.351276	CCAACCCAAGGAGGACGG	59.649	66.667	0.00	0.00	41.22	4.79
574	608	2.351276	CAACCCAAGGAGGACGGG	59.649	66.667	0.00	0.00	46.22	5.28
575	609	3.647771	AACCCAAGGAGGACGGGC	61.648	66.667	0.00	0.00	44.49	6.13
578	612	4.148825	CCAAGGAGGACGGGCGAG	62.149	72.222	0.00	0.00	41.22	5.03
579	613	4.148825	CAAGGAGGACGGGCGAGG	62.149	72.222	0.00	0.00	0.00	4.63
627	1291	1.145377	AAACTGTTGACGACGGGCT	59.855	52.632	6.61	0.00	39.05	5.19
971	1636	4.166725	AGAGATGGATCCCAAATGCAACTA	59.833	41.667	9.90	0.00	36.95	2.24
1105	1775	9.753674	TCTGTTTTGATAAGGTTATTGATTCCT	57.246	29.630	0.00	0.00	0.00	3.36
1546	2225	3.821055	GCGAGGCTGAGAGCGAGT	61.821	66.667	0.00	0.00	43.62	4.18
1568	2259	2.107953	GAGCGAGGATGGGAGTGC	59.892	66.667	0.00	0.00	0.00	4.40
1574	2265	2.111878	GGATGGGAGTGCGGATGG	59.888	66.667	0.00	0.00	0.00	3.51
1813	2505	6.418101	TGTTCAAGAAGGGATGAAGATAAGG	58.582	40.000	0.00	0.00	36.31	2.69
2180	2872	1.752198	CAAGGTCCTCCGTGGTTCA	59.248	57.895	0.00	0.00	39.06	3.18
2440	3132	4.344865	GGGGTCTTTCCAGGCGCA	62.345	66.667	10.83	0.00	39.36	6.09
2442	3134	2.281484	GGTCTTTCCAGGCGCACA	60.281	61.111	10.83	0.00	35.97	4.57
2677	3370	4.228567	TGCGTTGCCACCTGTCGA	62.229	61.111	0.00	0.00	0.00	4.20
2815	3508	1.201429	ACCCCCGAGCAAGAACTCAT	61.201	55.000	0.00	0.00	36.42	2.90

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
0	1	7.011763	CACTTTTCATCAACAGAGAACTGAAGA	59.988	37.037	0.00	0.00	46.03	2.87
2	3	6.823182	TCACTTTTCATCAACAGAGAACTGAA	59.177	34.615	0.00	0.00	46.03	3.02
5	6	6.261826	CCTTCACTTTTCATCAACAGAGAACT	59.738	38.462	0.00	0.00	0.00	3.01
6	7	6.433766	CCTTCACTTTTCATCAACAGAGAAC	58.566	40.000	0.00	0.00	0.00	3.01
7	8	5.532406	CCCTTCACTTTTCATCAACAGAGAA	59.468	40.000	0.00	0.00	0.00	2.87
8	9	5.065914	CCCTTCACTTTTCATCAACAGAGA	58.934	41.667	0.00	0.00	0.00	3.10
9	10	5.065914	TCCCTTCACTTTTCATCAACAGAG	58.934	41.667	0.00	0.00	0.00	3.35
10	11	5.047566	TCCCTTCACTTTTCATCAACAGA	57.952	39.130	0.00	0.00	0.00	3.41
11	12	4.217118	CCTCCCTTCACTTTTCATCAACAG	59.783	45.833	0.00	0.00	0.00	3.16
12	13	4.144297	CCTCCCTTCACTTTTCATCAACA	58.856	43.478	0.00	0.00	0.00	3.33
13	14	3.507622	CCCTCCCTTCACTTTTCATCAAC	59.492	47.826	0.00	0.00	0.00	3.18
14	15	3.397618	TCCCTCCCTTCACTTTTCATCAA	59.602	43.478	0.00	0.00	0.00	2.57
15	16	2.986019	TCCCTCCCTTCACTTTTCATCA	59.014	45.455	0.00	0.00	0.00	3.07
16	17	3.264450	TCTCCCTCCCTTCACTTTTCATC	59.736	47.826	0.00	0.00	0.00	2.92
17	18	3.260205	TCTCCCTCCCTTCACTTTTCAT	58.740	45.455	0.00	0.00	0.00	2.57
18	19	2.639839	CTCTCCCTCCCTTCACTTTTCA	59.360	50.000	0.00	0.00	0.00	2.69
19	20	2.907042	TCTCTCCCTCCCTTCACTTTTC	59.093	50.000	0.00	0.00	0.00	2.29
20	21	2.909662	CTCTCTCCCTCCCTTCACTTTT	59.090	50.000	0.00	0.00	0.00	2.27
21	22	2.112691	TCTCTCTCCCTCCCTTCACTTT	59.887	50.000	0.00	0.00	0.00	2.66
22	23	1.719378	TCTCTCTCCCTCCCTTCACTT	59.281	52.381	0.00	0.00	0.00	3.16
23	24	1.287739	CTCTCTCTCCCTCCCTTCACT	59.712	57.143	0.00	0.00	0.00	3.41
24	25	1.775385	CTCTCTCTCCCTCCCTTCAC	58.225	60.000	0.00	0.00	0.00	3.18
25	26	0.032615	GCTCTCTCTCCCTCCCTTCA	60.033	60.000	0.00	0.00	0.00	3.02
26	27	1.106944	CGCTCTCTCTCCCTCCCTTC	61.107	65.000	0.00	0.00	0.00	3.46
27	28	1.076339	CGCTCTCTCTCCCTCCCTT	60.076	63.158	0.00	0.00	0.00	3.95
28	29	2.313427	ACGCTCTCTCTCCCTCCCT	61.313	63.158	0.00	0.00	0.00	4.20
29	30	2.124693	CACGCTCTCTCTCCCTCCC	61.125	68.421	0.00	0.00	0.00	4.30
30	31	2.781158	GCACGCTCTCTCTCCCTCC	61.781	68.421	0.00	0.00	0.00	4.30
31	32	2.804856	GCACGCTCTCTCTCCCTC	59.195	66.667	0.00	0.00	0.00	4.30
32	33	3.137459	CGCACGCTCTCTCTCCCT	61.137	66.667	0.00	0.00	0.00	4.20
33	34	4.863925	GCGCACGCTCTCTCTCCC	62.864	72.222	7.96	0.00	38.26	4.30
34	35	4.863925	GGCGCACGCTCTCTCTCC	62.864	72.222	15.36	0.00	41.60	3.71
35	36	4.863925	GGGCGCACGCTCTCTCTC	62.864	72.222	15.36	0.00	38.85	3.20
37	38	4.742201	TTGGGCGCACGCTCTCTC	62.742	66.667	16.79	0.00	43.18	3.20
58	59	1.303643	GTTGGTCAGGCCCAAGAGG	60.304	63.158	0.00	0.00	44.92	3.69
59	60	1.303643	GGTTGGTCAGGCCCAAGAG	60.304	63.158	0.00	0.00	44.92	2.85
60	61	1.434513	ATGGTTGGTCAGGCCCAAGA	61.435	55.000	0.00	0.00	44.92	3.02
61	62	1.077265	ATGGTTGGTCAGGCCCAAG	59.923	57.895	0.00	0.00	44.92	3.61
62	63	1.228831	CATGGTTGGTCAGGCCCAA	60.229	57.895	0.00	0.00	42.16	4.12
63	64	2.440147	CATGGTTGGTCAGGCCCA	59.560	61.111	0.00	0.00	36.04	5.36
64	65	3.070576	GCATGGTTGGTCAGGCCC	61.071	66.667	0.00	0.00	38.35	5.80
66	67	3.443045	CGGCATGGTTGGTCAGGC	61.443	66.667	0.00	0.00	42.85	4.85
67	68	2.040544	GTCGGCATGGTTGGTCAGG	61.041	63.158	0.00	0.00	0.00	3.86
68	69	2.040544	GGTCGGCATGGTTGGTCAG	61.041	63.158	0.00	0.00	0.00	3.51
69	70	2.033448	GGTCGGCATGGTTGGTCA	59.967	61.111	0.00	0.00	0.00	4.02
70	71	3.124921	CGGTCGGCATGGTTGGTC	61.125	66.667	0.00	0.00	0.00	4.02
71	72	3.632080	TCGGTCGGCATGGTTGGT	61.632	61.111	0.00	0.00	0.00	3.67
72	73	3.124921	GTCGGTCGGCATGGTTGG	61.125	66.667	0.00	0.00	0.00	3.77
73	74	3.124921	GGTCGGTCGGCATGGTTG	61.125	66.667	0.00	0.00	0.00	3.77
74	75	3.310860	GAGGTCGGTCGGCATGGTT	62.311	63.158	0.00	0.00	0.00	3.67
75	76	3.771160	GAGGTCGGTCGGCATGGT	61.771	66.667	0.00	0.00	0.00	3.55
76	77	4.530857	GGAGGTCGGTCGGCATGG	62.531	72.222	0.00	0.00	0.00	3.66
77	78	1.464376	ATAGGAGGTCGGTCGGCATG	61.464	60.000	0.00	0.00	0.00	4.06
78	79	0.111832	TATAGGAGGTCGGTCGGCAT	59.888	55.000	0.00	0.00	0.00	4.40
79	80	0.536687	CTATAGGAGGTCGGTCGGCA	60.537	60.000	0.00	0.00	0.00	5.69
80	81	1.864725	GCTATAGGAGGTCGGTCGGC	61.865	65.000	1.04	0.00	0.00	5.54
81	82	1.242665	GGCTATAGGAGGTCGGTCGG	61.243	65.000	1.04	0.00	0.00	4.79
82	83	1.242665	GGGCTATAGGAGGTCGGTCG	61.243	65.000	1.04	0.00	0.00	4.79
83	84	0.178970	TGGGCTATAGGAGGTCGGTC	60.179	60.000	1.04	0.00	0.00	4.79
84	85	0.178958	CTGGGCTATAGGAGGTCGGT	60.179	60.000	1.04	0.00	0.00	4.69
85	86	1.536943	GCTGGGCTATAGGAGGTCGG	61.537	65.000	1.04	0.00	0.00	4.79
86	87	1.536943	GGCTGGGCTATAGGAGGTCG	61.537	65.000	1.04	0.00	0.00	4.79
87	88	0.471971	TGGCTGGGCTATAGGAGGTC	60.472	60.000	1.04	0.00	0.00	3.85
88	89	0.764752	GTGGCTGGGCTATAGGAGGT	60.765	60.000	1.04	0.00	0.00	3.85
89	90	1.484444	GGTGGCTGGGCTATAGGAGG	61.484	65.000	1.04	0.00	0.00	4.30
90	91	1.484444	GGGTGGCTGGGCTATAGGAG	61.484	65.000	1.04	0.00	0.00	3.69
91	92	1.461461	GGGTGGCTGGGCTATAGGA	60.461	63.158	1.04	0.00	0.00	2.94
92	93	1.770110	TGGGTGGCTGGGCTATAGG	60.770	63.158	1.04	0.00	0.00	2.57
93	94	1.451936	GTGGGTGGCTGGGCTATAG	59.548	63.158	0.00	0.00	0.00	1.31
94	95	2.076184	GGTGGGTGGCTGGGCTATA	61.076	63.158	0.00	0.00	0.00	1.31
95	96	2.561378	TAGGTGGGTGGCTGGGCTAT	62.561	60.000	0.00	0.00	0.00	2.97
96	97	2.561378	ATAGGTGGGTGGCTGGGCTA	62.561	60.000	0.00	0.00	0.00	3.93
97	98	3.970363	ATAGGTGGGTGGCTGGGCT	62.970	63.158	0.00	0.00	0.00	5.19
98	99	2.514516	AAATAGGTGGGTGGCTGGGC	62.515	60.000	0.00	0.00	0.00	5.36
99	100	0.395724	GAAATAGGTGGGTGGCTGGG	60.396	60.000	0.00	0.00	0.00	4.45
100	101	0.625849	AGAAATAGGTGGGTGGCTGG	59.374	55.000	0.00	0.00	0.00	4.85
101	102	3.199946	TCTTAGAAATAGGTGGGTGGCTG	59.800	47.826	0.00	0.00	0.00	4.85
102	103	3.456277	CTCTTAGAAATAGGTGGGTGGCT	59.544	47.826	0.00	0.00	0.00	4.75
103	104	3.454812	TCTCTTAGAAATAGGTGGGTGGC	59.545	47.826	0.00	0.00	0.00	5.01
104	105	4.962995	TCTCTCTTAGAAATAGGTGGGTGG	59.037	45.833	0.00	0.00	0.00	4.61
105	106	6.546428	TTCTCTCTTAGAAATAGGTGGGTG	57.454	41.667	0.00	0.00	41.35	4.61
360	373	0.398664	GGGAGGAGAAGGGGAATCGA	60.399	60.000	0.00	0.00	0.00	3.59
436	470	2.927856	TCACCCACCTCCATGCGT	60.928	61.111	0.00	0.00	0.00	5.24
451	485	1.308128	ATGGCCCTCATCCACCTCA	60.308	57.895	0.00	0.00	36.26	3.86
551	585	2.283173	CTCCTTGGGTTGGCCACC	60.283	66.667	3.88	10.71	46.46	4.61
552	586	2.283173	CCTCCTTGGGTTGGCCAC	60.283	66.667	3.88	0.00	36.17	5.01
553	587	2.451493	TCCTCCTTGGGTTGGCCA	60.451	61.111	0.00	0.00	36.17	5.36
554	588	2.035783	GTCCTCCTTGGGTTGGCC	59.964	66.667	0.00	0.00	36.20	5.36
555	589	2.359975	CGTCCTCCTTGGGTTGGC	60.360	66.667	0.00	0.00	36.20	4.52
556	590	2.351276	CCGTCCTCCTTGGGTTGG	59.649	66.667	0.00	0.00	36.20	3.77
557	591	2.351276	CCCGTCCTCCTTGGGTTG	59.649	66.667	0.00	0.00	38.18	3.77
558	592	3.647771	GCCCGTCCTCCTTGGGTT	61.648	66.667	0.00	0.00	45.19	4.11
561	595	4.148825	CTCGCCCGTCCTCCTTGG	62.149	72.222	0.00	0.00	37.10	3.61
562	596	4.148825	CCTCGCCCGTCCTCCTTG	62.149	72.222	0.00	0.00	0.00	3.61
611	1275	0.038526	CTTAGCCCGTCGTCAACAGT	60.039	55.000	0.00	0.00	0.00	3.55
627	1291	4.122149	CCCCACCATGGCCGCTTA	62.122	66.667	13.04	0.00	35.79	3.09
800	1464	7.200434	TCTTCAAGGCCATCTCTAAGTAATT	57.800	36.000	5.01	0.00	0.00	1.40
1128	1798	4.820897	ACTGCTCTACGATTGATTCAACA	58.179	39.130	0.15	0.00	0.00	3.33
1515	2194	0.319727	CCTCGCTCTCATGATCAGGC	60.320	60.000	1.57	0.40	0.00	4.85
1546	2225	0.826715	CTCCCATCCTCGCTCTCAAA	59.173	55.000	0.00	0.00	0.00	2.69
1568	2259	0.249784	CTCTGACATGCTCCCATCCG	60.250	60.000	0.00	0.00	0.00	4.18
1574	2265	2.289945	ACTTCAACCTCTGACATGCTCC	60.290	50.000	0.00	0.00	32.21	4.70
1779	2471	6.620877	TCCCTTCTTGAACAATAAGCTCTA	57.379	37.500	7.01	0.00	0.00	2.43
1832	2524	5.748402	TGCACTCATCTTCCATTGTAGAAT	58.252	37.500	0.00	0.00	0.00	2.40
2159	2851	3.636231	CCACGGAGGACCTTGGCA	61.636	66.667	0.00	0.00	46.07	4.92
2180	2872	5.070847	ACTTTGTTCTTGAATGGCTCCAAAT	59.929	36.000	0.00	0.00	0.00	2.32
2440	3132	1.079543	GCACAGACTCTCGCCATGT	60.080	57.895	0.00	0.00	0.00	3.21
2442	3134	1.217511	CTGCACAGACTCTCGCCAT	59.782	57.895	0.00	0.00	0.00	4.40
2677	3370	5.134339	TCCTTTTATATGCTCAAGGGGTCAT	59.866	40.000	0.00	0.00	37.07	3.06
2815	3508	3.743521	ACTGCTGCTTGTCTGATTGTAA	58.256	40.909	0.00	0.00	0.00	2.41

Based at the University of Bristol with support from BBSRC.

AutoCloner maintained by Alex Coulton.