AutoCloner

Multiple sequence alignment - TraesCS7A01G255100

Loading Multiple Alignment...

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	TraesCS7A01G255100	chr7A	100.000	2312	0	0	1	2312	242621652	242619341	0.000000e+00	4270
1	TraesCS7A01G255100	chr7A	88.259	1729	142	24	177	1868	199319958	199321662	0.000000e+00	2012
2	TraesCS7A01G255100	chr7A	88.232	1725	146	22	177	1868	199313057	199314757	0.000000e+00	2008
3	TraesCS7A01G255100	chr7A	88.044	1723	141	22	179	1868	199315364	199317054	0.000000e+00	1980
4	TraesCS7A01G255100	chr7A	87.703	1724	147	21	179	1868	199317661	199319353	0.000000e+00	1949
5	TraesCS7A01G255100	chr7A	87.212	1259	118	12	638	1868	199311219	199312462	0.000000e+00	1393
6	TraesCS7A01G255100	chr7A	86.035	1246	122	23	654	1869	568903235	568904458	0.000000e+00	1290
7	TraesCS7A01G255100	chr7A	85.554	1246	126	23	654	1868	526860668	526859446	0.000000e+00	1254
8	TraesCS7A01G255100	chr3A	96.113	1775	49	8	109	1867	576911208	576912978	0.000000e+00	2878
9	TraesCS7A01G255100	chr3A	99.099	111	0	1	1	110	65345870	65345760	5.040000e-47	198
10	TraesCS7A01G255100	chr6B	90.629	1526	95	24	382	1868	262865387	262866903	0.000000e+00	1982
11	TraesCS7A01G255100	chr6B	98.261	115	2	0	4	118	679091034	679090920	3.900000e-48	202
12	TraesCS7A01G255100	chr6B	95.868	121	3	2	1	119	599445728	599445608	6.520000e-46	195
13	TraesCS7A01G255100	chr2A	90.195	1489	124	15	177	1660	615120689	615119218	0.000000e+00	1921
14	TraesCS7A01G255100	chr2A	95.041	121	5	1	2	121	79319151	79319271	3.030000e-44	189
15	TraesCS7A01G255100	chr1D	92.485	1131	74	6	177	1300	70121273	70122399	0.000000e+00	1607
16	TraesCS7A01G255100	chr1D	92.485	1131	74	6	177	1300	70129134	70130260	0.000000e+00	1607
17	TraesCS7A01G255100	chr1D	92.396	1131	75	6	177	1300	70112319	70113445	0.000000e+00	1602
18	TraesCS7A01G255100	chr1D	96.421	447	15	1	1867	2312	62493115	62493561	0.000000e+00	736
19	TraesCS7A01G255100	chr1D	83.981	206	13	6	1455	1657	70131496	70131684	1.830000e-41	180
20	TraesCS7A01G255100	chr3B	90.244	615	55	5	1701	2312	546786199	546785587	0.000000e+00	798
21	TraesCS7A01G255100	chr1B	93.800	500	26	5	1818	2312	77886981	77887480	0.000000e+00	747
22	TraesCS7A01G255100	chr1B	89.437	568	51	7	1748	2312	235064090	235064651	0.000000e+00	708
23	TraesCS7A01G255100	chr1B	96.667	120	2	2	3	120	187465666	187465547	5.040000e-47	198
24	TraesCS7A01G255100	chr1B	98.131	107	2	0	4	110	8679433	8679539	1.090000e-43	187
25	TraesCS7A01G255100	chr7D	96.644	447	14	1	1867	2312	73072095	73071649	0.000000e+00	741
26	TraesCS7A01G255100	chr7D	93.360	497	29	4	1818	2312	97410192	97409698	0.000000e+00	732
27	TraesCS7A01G255100	chr7D	84.211	285	26	9	1693	1958	175767503	175767219	2.280000e-65	259
28	TraesCS7A01G255100	chr6D	96.421	447	14	2	1867	2312	289885336	289885781	0.000000e+00	736
29	TraesCS7A01G255100	chr6D	96.421	447	15	1	1867	2312	417918478	417918924	0.000000e+00	736
30	TraesCS7A01G255100	chr4D	96.421	447	15	1	1867	2312	364379455	364379009	0.000000e+00	736
31	TraesCS7A01G255100	chr4A	99.099	111	1	0	2	112	575976169	575976059	1.400000e-47	200
32	TraesCS7A01G255100	chr4A	98.198	111	2	0	1	111	96321319	96321209	6.520000e-46	195
33	TraesCS7A01G255100	chr5B	95.902	122	4	1	2	122	710922396	710922517	1.810000e-46	196

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	TraesCS7A01G255100	chr7A	242619341	242621652	2311	True	4270.0	4270	100.000	1	2312	1	chr7A.!!$R1	2311
1	TraesCS7A01G255100	chr7A	199311219	199321662	10443	False	1868.4	2012	87.890	177	1868	5	chr7A.!!$F2	1691
2	TraesCS7A01G255100	chr7A	568903235	568904458	1223	False	1290.0	1290	86.035	654	1869	1	chr7A.!!$F1	1215
3	TraesCS7A01G255100	chr7A	526859446	526860668	1222	True	1254.0	1254	85.554	654	1868	1	chr7A.!!$R2	1214
4	TraesCS7A01G255100	chr3A	576911208	576912978	1770	False	2878.0	2878	96.113	109	1867	1	chr3A.!!$F1	1758
5	TraesCS7A01G255100	chr6B	262865387	262866903	1516	False	1982.0	1982	90.629	382	1868	1	chr6B.!!$F1	1486
6	TraesCS7A01G255100	chr2A	615119218	615120689	1471	True	1921.0	1921	90.195	177	1660	1	chr2A.!!$R1	1483
7	TraesCS7A01G255100	chr1D	70121273	70122399	1126	False	1607.0	1607	92.485	177	1300	1	chr1D.!!$F3	1123
8	TraesCS7A01G255100	chr1D	70112319	70113445	1126	False	1602.0	1602	92.396	177	1300	1	chr1D.!!$F2	1123
9	TraesCS7A01G255100	chr1D	70129134	70131684	2550	False	893.5	1607	88.233	177	1657	2	chr1D.!!$F4	1480
10	TraesCS7A01G255100	chr3B	546785587	546786199	612	True	798.0	798	90.244	1701	2312	1	chr3B.!!$R1	611
11	TraesCS7A01G255100	chr1B	235064090	235064651	561	False	708.0	708	89.437	1748	2312	1	chr1B.!!$F3	564

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
101	102	1.060122	GCGACAAGTAATTCCGAACGG	59.940	52.381	6.94	6.94	0.0	4.44	F
1130	8530	0.472471	AAAGAAGTGGGCGAAGGTCA	59.528	50.000	0.00	0.00	0.0	4.02	F

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability	Orientation
1237	9838	0.766131	CCCTCGAGTAGCCTAGGAGA	59.234	60.0	14.75	0.0	0.00	3.71	R
1988	11825	1.191489	TCGATGGTCCAAGTGGCTGA	61.191	55.0	0.00	0.0	34.44	4.26	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
20	21	2.301346	GTATACTCCCTCCGTTCGGAA	58.699	52.381	14.79	0.00	33.41	4.30
21	22	2.083628	ATACTCCCTCCGTTCGGAAT	57.916	50.000	14.79	2.14	33.41	3.01
22	23	1.856629	TACTCCCTCCGTTCGGAATT	58.143	50.000	14.79	0.00	33.41	2.17
24	25	1.479730	ACTCCCTCCGTTCGGAATTAC	59.520	52.381	14.79	0.00	33.41	1.89
27	28	2.093869	TCCCTCCGTTCGGAATTACTTG	60.094	50.000	14.79	1.97	33.41	3.16
29	30	2.928116	CCTCCGTTCGGAATTACTTGTC	59.072	50.000	14.79	0.00	33.41	3.18
30	31	3.368116	CCTCCGTTCGGAATTACTTGTCT	60.368	47.826	14.79	0.00	33.41	3.41
31	32	3.841643	TCCGTTCGGAATTACTTGTCTC	58.158	45.455	11.66	0.00	0.00	3.36
32	33	2.597305	CCGTTCGGAATTACTTGTCTCG	59.403	50.000	5.19	0.00	0.00	4.04
33	34	2.597305	CGTTCGGAATTACTTGTCTCGG	59.403	50.000	0.00	0.00	0.00	4.63
34	35	3.671433	CGTTCGGAATTACTTGTCTCGGA	60.671	47.826	0.00	0.00	0.00	4.55
36	37	4.524316	TCGGAATTACTTGTCTCGGAAA	57.476	40.909	0.00	0.00	0.00	3.13
37	38	5.080969	TCGGAATTACTTGTCTCGGAAAT	57.919	39.130	0.00	0.00	0.00	2.17
38	39	4.868171	TCGGAATTACTTGTCTCGGAAATG	59.132	41.667	0.00	0.00	0.00	2.32
39	40	4.034048	CGGAATTACTTGTCTCGGAAATGG	59.966	45.833	0.00	0.00	0.00	3.16
40	41	5.183228	GGAATTACTTGTCTCGGAAATGGA	58.817	41.667	0.00	0.00	0.00	3.41
41	42	5.823045	GGAATTACTTGTCTCGGAAATGGAT	59.177	40.000	0.00	0.00	0.00	3.41
42	43	6.238484	GGAATTACTTGTCTCGGAAATGGATG	60.238	42.308	0.00	0.00	0.00	3.51
43	44	3.703001	ACTTGTCTCGGAAATGGATGT	57.297	42.857	0.00	0.00	0.00	3.06
44	45	4.819105	ACTTGTCTCGGAAATGGATGTA	57.181	40.909	0.00	0.00	0.00	2.29
45	46	5.359194	ACTTGTCTCGGAAATGGATGTAT	57.641	39.130	0.00	0.00	0.00	2.29
46	47	5.360591	ACTTGTCTCGGAAATGGATGTATC	58.639	41.667	0.00	0.00	0.00	2.24
47	48	5.129485	ACTTGTCTCGGAAATGGATGTATCT	59.871	40.000	0.00	0.00	0.00	1.98
48	49	6.323996	ACTTGTCTCGGAAATGGATGTATCTA	59.676	38.462	0.00	0.00	0.00	1.98
49	50	6.332735	TGTCTCGGAAATGGATGTATCTAG	57.667	41.667	0.00	0.00	0.00	2.43
51	52	6.549736	TGTCTCGGAAATGGATGTATCTAGAA	59.450	38.462	0.00	0.00	0.00	2.10
52	53	6.864165	GTCTCGGAAATGGATGTATCTAGAAC	59.136	42.308	0.00	0.00	0.00	3.01
54	55	7.942894	TCTCGGAAATGGATGTATCTAGAACTA	59.057	37.037	0.00	0.00	0.00	2.24
55	56	8.473358	TCGGAAATGGATGTATCTAGAACTAA	57.527	34.615	0.00	0.00	0.00	2.24
56	57	8.920174	TCGGAAATGGATGTATCTAGAACTAAA	58.080	33.333	0.00	0.00	0.00	1.85
57	58	9.542462	CGGAAATGGATGTATCTAGAACTAAAA	57.458	33.333	0.00	0.00	0.00	1.52
83	84	6.603237	TGTCTAGATACATCCATTTTTGCG	57.397	37.500	0.00	0.00	0.00	4.85
85	86	6.257849	TGTCTAGATACATCCATTTTTGCGAC	59.742	38.462	0.00	0.00	0.00	5.19
86	87	6.257849	GTCTAGATACATCCATTTTTGCGACA	59.742	38.462	0.00	0.00	0.00	4.35
87	88	5.895636	AGATACATCCATTTTTGCGACAA	57.104	34.783	0.00	0.00	0.00	3.18
88	89	5.883661	AGATACATCCATTTTTGCGACAAG	58.116	37.500	0.00	0.00	0.00	3.16
90	91	6.597672	AGATACATCCATTTTTGCGACAAGTA	59.402	34.615	0.00	0.00	0.00	2.24
91	92	5.446143	ACATCCATTTTTGCGACAAGTAA	57.554	34.783	0.00	0.00	0.00	2.24
93	94	6.454795	ACATCCATTTTTGCGACAAGTAATT	58.545	32.000	0.00	0.00	0.00	1.40
94	95	6.586082	ACATCCATTTTTGCGACAAGTAATTC	59.414	34.615	0.00	0.00	0.00	2.17
95	96	5.465935	TCCATTTTTGCGACAAGTAATTCC	58.534	37.500	0.00	0.00	0.00	3.01
96	97	4.323336	CCATTTTTGCGACAAGTAATTCCG	59.677	41.667	0.00	0.00	0.00	4.30
98	99	4.815040	TTTTGCGACAAGTAATTCCGAA	57.185	36.364	0.00	0.00	0.00	4.30
99	100	3.799137	TTGCGACAAGTAATTCCGAAC	57.201	42.857	0.00	0.00	0.00	3.95
100	101	1.722464	TGCGACAAGTAATTCCGAACG	59.278	47.619	0.00	0.00	0.00	3.95
101	102	1.060122	GCGACAAGTAATTCCGAACGG	59.940	52.381	6.94	6.94	0.00	4.44
103	104	2.597305	CGACAAGTAATTCCGAACGGAG	59.403	50.000	15.34	5.60	46.06	4.63
105	106	2.277084	CAAGTAATTCCGAACGGAGGG	58.723	52.381	15.34	0.00	46.06	4.30
108	109	1.479730	GTAATTCCGAACGGAGGGAGT	59.520	52.381	15.34	4.12	46.06	3.85
109	110	1.856629	AATTCCGAACGGAGGGAGTA	58.143	50.000	15.34	1.05	46.06	2.59
157	158	6.209391	CCCATCTAGTGAGTTGACCAATTTTT	59.791	38.462	0.00	0.00	0.00	1.94
472	4444	1.494721	TGGTTCCATTATGCTCCCTCC	59.505	52.381	0.00	0.00	0.00	4.30
483	4455	2.917933	TGCTCCCTCCGTTCAATAATG	58.082	47.619	0.00	0.00	0.00	1.90
670	4643	9.734620	GCATAATCTATGACACATTTTTGCTAA	57.265	29.630	0.00	0.00	38.45	3.09
723	4710	6.866010	TCCATAAATACACAGTGATGCATC	57.134	37.500	20.14	20.14	0.00	3.91
967	6067	6.119240	TGAGAACTGATGATCCAAAGAAGT	57.881	37.500	0.00	0.00	0.00	3.01
1071	8469	2.102420	CCGTGGTTACATGCATCCTAGA	59.898	50.000	0.00	0.00	32.11	2.43
1128	8528	1.605753	GAAAAGAAGTGGGCGAAGGT	58.394	50.000	0.00	0.00	0.00	3.50
1130	8530	0.472471	AAAGAAGTGGGCGAAGGTCA	59.528	50.000	0.00	0.00	0.00	4.02
1236	9837	2.026262	TGATTTGAACCTGCCCTACTCC	60.026	50.000	0.00	0.00	0.00	3.85
1237	9838	1.742308	TTTGAACCTGCCCTACTCCT	58.258	50.000	0.00	0.00	0.00	3.69
1248	9861	2.350419	CCCTACTCCTCTCCTAGGCTA	58.650	57.143	2.96	0.00	46.10	3.93
1365	11103	7.812309	TGATCTTCTCTATAAAACGTGTGTG	57.188	36.000	0.00	0.00	0.00	3.82
1382	11129	2.430367	GGCAAGGGACGTGGAACT	59.570	61.111	0.00	0.00	38.52	3.01
1385	11132	0.534203	GCAAGGGACGTGGAACTTGA	60.534	55.000	17.22	0.00	42.07	3.02
1406	11153	4.163078	TGATTCAGGGAAGAAGAGATGGAC	59.837	45.833	0.00	0.00	0.00	4.02
1516	11300	2.465860	AGCATGTAAACGTGTGGCTA	57.534	45.000	4.36	0.00	35.38	3.93
1673	11506	2.832129	GTCCATGTAGTCCTTCCTGTGA	59.168	50.000	0.00	0.00	0.00	3.58
1729	11564	9.773328	CGTGACATCATAAAAGTTCAATATTGT	57.227	29.630	14.97	0.00	0.00	2.71
1910	11747	6.206243	GGTATATGATGAATTGCAGACTGCTT	59.794	38.462	26.94	14.77	45.31	3.91
1911	11748	6.710597	ATATGATGAATTGCAGACTGCTTT	57.289	33.333	26.94	19.78	45.31	3.51
1918	11755	3.969117	TTGCAGACTGCTTTTACTGTG	57.031	42.857	26.94	0.00	45.31	3.66
1929	11766	4.881273	TGCTTTTACTGTGTGATGAGTTGT	59.119	37.500	0.00	0.00	0.00	3.32
1979	11816	2.691409	TTCAGGTGGTGCTGCTATAC	57.309	50.000	0.00	0.00	0.00	1.47
1988	11825	6.070767	AGGTGGTGCTGCTATACGATAATAAT	60.071	38.462	0.00	0.00	0.00	1.28
2069	11906	5.927954	TGCGTTCTTCGTTTAAATTAGGT	57.072	34.783	0.00	0.00	42.13	3.08
2160	11997	6.152492	TGCATTTTGAGCAAATAGTGATGGTA	59.848	34.615	0.00	0.00	39.39	3.25
2227	12064	9.584839	GTGATGTTTGCAAGTCAAATTAATTTC	57.415	29.630	10.53	1.32	45.43	2.17
2246	12083	3.029483	TCCATATGGGCAGCAAAATGA	57.971	42.857	21.78	0.00	36.21	2.57
2303	12142	7.828717	TGATCATACCAAGATAAGCTGAAAACA	59.171	33.333	0.00	0.00	0.00	2.83

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
3	4	1.856629	AATTCCGAACGGAGGGAGTA	58.143	50.000	15.34	1.05	46.06	2.59
4	5	1.479730	GTAATTCCGAACGGAGGGAGT	59.520	52.381	15.34	4.12	46.06	3.85
5	6	1.755380	AGTAATTCCGAACGGAGGGAG	59.245	52.381	15.34	0.00	46.06	4.30
9	10	3.846360	AGACAAGTAATTCCGAACGGAG	58.154	45.455	15.34	5.60	46.06	4.63
11	12	2.597305	CGAGACAAGTAATTCCGAACGG	59.403	50.000	6.94	6.94	0.00	4.44
12	13	2.597305	CCGAGACAAGTAATTCCGAACG	59.403	50.000	0.00	0.00	0.00	3.95
13	14	3.841643	TCCGAGACAAGTAATTCCGAAC	58.158	45.455	0.00	0.00	0.00	3.95
14	15	4.524316	TTCCGAGACAAGTAATTCCGAA	57.476	40.909	0.00	0.00	0.00	4.30
15	16	4.524316	TTTCCGAGACAAGTAATTCCGA	57.476	40.909	0.00	0.00	0.00	4.55
16	17	4.034048	CCATTTCCGAGACAAGTAATTCCG	59.966	45.833	0.00	0.00	0.00	4.30
17	18	5.183228	TCCATTTCCGAGACAAGTAATTCC	58.817	41.667	0.00	0.00	0.00	3.01
20	21	5.745227	ACATCCATTTCCGAGACAAGTAAT	58.255	37.500	0.00	0.00	0.00	1.89
21	22	5.160607	ACATCCATTTCCGAGACAAGTAA	57.839	39.130	0.00	0.00	0.00	2.24
22	23	4.819105	ACATCCATTTCCGAGACAAGTA	57.181	40.909	0.00	0.00	0.00	2.24
24	25	5.605534	AGATACATCCATTTCCGAGACAAG	58.394	41.667	0.00	0.00	0.00	3.16
27	28	6.576662	TCTAGATACATCCATTTCCGAGAC	57.423	41.667	0.00	0.00	0.00	3.36
29	30	6.987386	AGTTCTAGATACATCCATTTCCGAG	58.013	40.000	0.00	0.00	0.00	4.63
30	31	6.978674	AGTTCTAGATACATCCATTTCCGA	57.021	37.500	0.00	0.00	0.00	4.55
31	32	9.542462	TTTTAGTTCTAGATACATCCATTTCCG	57.458	33.333	0.00	0.00	0.00	4.30
57	58	8.939929	CGCAAAAATGGATGTATCTAGACATAT	58.060	33.333	0.00	0.00	40.18	1.78
58	59	8.147704	TCGCAAAAATGGATGTATCTAGACATA	58.852	33.333	0.00	0.00	40.18	2.29
59	60	6.992123	TCGCAAAAATGGATGTATCTAGACAT	59.008	34.615	0.00	0.00	42.82	3.06
60	61	6.257849	GTCGCAAAAATGGATGTATCTAGACA	59.742	38.462	0.00	0.00	0.00	3.41
61	62	6.257849	TGTCGCAAAAATGGATGTATCTAGAC	59.742	38.462	0.00	0.00	0.00	2.59
63	64	6.603237	TGTCGCAAAAATGGATGTATCTAG	57.397	37.500	0.00	0.00	0.00	2.43
64	65	6.597672	ACTTGTCGCAAAAATGGATGTATCTA	59.402	34.615	0.00	0.00	0.00	1.98
65	66	5.415701	ACTTGTCGCAAAAATGGATGTATCT	59.584	36.000	0.00	0.00	0.00	1.98
66	67	5.640732	ACTTGTCGCAAAAATGGATGTATC	58.359	37.500	0.00	0.00	0.00	2.24
67	68	5.643379	ACTTGTCGCAAAAATGGATGTAT	57.357	34.783	0.00	0.00	0.00	2.29
68	69	6.561737	TTACTTGTCGCAAAAATGGATGTA	57.438	33.333	0.00	0.00	0.00	2.29
70	71	6.034898	GGAATTACTTGTCGCAAAAATGGATG	59.965	38.462	0.00	0.00	0.00	3.51
71	72	6.099341	GGAATTACTTGTCGCAAAAATGGAT	58.901	36.000	0.00	0.00	0.00	3.41
72	73	5.465935	GGAATTACTTGTCGCAAAAATGGA	58.534	37.500	0.00	0.00	0.00	3.41
74	75	5.150683	TCGGAATTACTTGTCGCAAAAATG	58.849	37.500	0.00	0.00	0.00	2.32
75	76	5.365403	TCGGAATTACTTGTCGCAAAAAT	57.635	34.783	0.00	0.00	0.00	1.82
76	77	4.815040	TCGGAATTACTTGTCGCAAAAA	57.185	36.364	0.00	0.00	0.00	1.94
77	78	4.529446	GTTCGGAATTACTTGTCGCAAAA	58.471	39.130	0.00	0.00	0.00	2.44
80	81	1.722464	CGTTCGGAATTACTTGTCGCA	59.278	47.619	0.00	0.00	0.00	5.10
81	82	1.060122	CCGTTCGGAATTACTTGTCGC	59.940	52.381	5.19	0.00	0.00	5.19
82	83	2.597305	CTCCGTTCGGAATTACTTGTCG	59.403	50.000	14.79	0.00	33.41	4.35
83	84	2.928116	CCTCCGTTCGGAATTACTTGTC	59.072	50.000	14.79	0.00	33.41	3.18
85	86	2.093869	TCCCTCCGTTCGGAATTACTTG	60.094	50.000	14.79	1.97	33.41	3.16
86	87	2.167900	CTCCCTCCGTTCGGAATTACTT	59.832	50.000	14.79	0.00	33.41	2.24
87	88	1.755380	CTCCCTCCGTTCGGAATTACT	59.245	52.381	14.79	0.00	33.41	2.24
88	89	1.479730	ACTCCCTCCGTTCGGAATTAC	59.520	52.381	14.79	0.00	33.41	1.89
90	91	1.856629	TACTCCCTCCGTTCGGAATT	58.143	50.000	14.79	0.00	33.41	2.17
91	92	1.856629	TTACTCCCTCCGTTCGGAAT	58.143	50.000	14.79	2.09	33.41	3.01
93	94	2.734755	TATTACTCCCTCCGTTCGGA	57.265	50.000	13.34	13.34	0.00	4.55
94	95	4.056050	CAAATATTACTCCCTCCGTTCGG	58.944	47.826	4.74	4.74	0.00	4.30
95	96	4.743644	GTCAAATATTACTCCCTCCGTTCG	59.256	45.833	0.00	0.00	0.00	3.95
96	97	5.522824	GTGTCAAATATTACTCCCTCCGTTC	59.477	44.000	0.00	0.00	0.00	3.95
98	99	4.715297	AGTGTCAAATATTACTCCCTCCGT	59.285	41.667	0.00	0.00	0.00	4.69
99	100	5.277857	AGTGTCAAATATTACTCCCTCCG	57.722	43.478	0.00	0.00	0.00	4.63
100	101	6.890293	AGAAGTGTCAAATATTACTCCCTCC	58.110	40.000	0.00	0.00	0.00	4.30
101	102	7.556844	TGAGAAGTGTCAAATATTACTCCCTC	58.443	38.462	0.00	1.08	0.00	4.30
103	104	7.556844	TCTGAGAAGTGTCAAATATTACTCCC	58.443	38.462	0.00	0.00	0.00	4.30
108	109	9.396022	GGGAAATCTGAGAAGTGTCAAATATTA	57.604	33.333	0.00	0.00	0.00	0.98
109	110	7.890127	TGGGAAATCTGAGAAGTGTCAAATATT	59.110	33.333	0.00	0.00	0.00	1.28
175	176	9.427821	AGAACTTCCATATCATACTTACTCTGT	57.572	33.333	0.00	0.00	0.00	3.41
967	6067	2.046285	TGATGCTCGAGCTCCGACA	61.046	57.895	35.27	23.34	43.23	4.35
1071	8469	4.349503	TGCACCGCTGCCTCCAAT	62.350	61.111	0.00	0.00	43.51	3.16
1236	9837	1.271163	CCCTCGAGTAGCCTAGGAGAG	60.271	61.905	14.75	9.92	0.00	3.20
1237	9838	0.766131	CCCTCGAGTAGCCTAGGAGA	59.234	60.000	14.75	0.00	0.00	3.71
1248	9861	4.443266	GCGCTGAAGCCCTCGAGT	62.443	66.667	12.31	0.00	37.91	4.18
1278	9896	3.520696	TCTGATTCTTCCTTCCCTGTCA	58.479	45.455	0.00	0.00	0.00	3.58
1365	11103	1.228154	AAGTTCCACGTCCCTTGCC	60.228	57.895	0.00	0.00	0.00	4.52
1382	11129	4.784838	TCCATCTCTTCTTCCCTGAATCAA	59.215	41.667	0.00	0.00	0.00	2.57
1385	11132	3.457749	GGTCCATCTCTTCTTCCCTGAAT	59.542	47.826	0.00	0.00	0.00	2.57
1406	11153	1.201181	CTGGTCTCTTCTCTCACGTGG	59.799	57.143	17.00	6.71	0.00	4.94
1531	11330	5.964758	TCCAAAAGCAATATAGCAGGTTTG	58.035	37.500	0.00	0.00	36.85	2.93
1673	11506	4.621991	CATAGAACCATAACACTAGCGCT	58.378	43.478	17.26	17.26	0.00	5.92
1882	11719	6.148976	CAGTCTGCAATTCATCATATACCAGG	59.851	42.308	0.00	0.00	0.00	4.45
1910	11747	7.095229	GCTCATAACAACTCATCACACAGTAAA	60.095	37.037	0.00	0.00	0.00	2.01
1911	11748	6.368791	GCTCATAACAACTCATCACACAGTAA	59.631	38.462	0.00	0.00	0.00	2.24
1918	11755	3.937706	AGCAGCTCATAACAACTCATCAC	59.062	43.478	0.00	0.00	0.00	3.06
1979	11816	4.452455	GGTCCAAGTGGCTGATTATTATCG	59.548	45.833	0.00	0.00	32.27	2.92
1988	11825	1.191489	TCGATGGTCCAAGTGGCTGA	61.191	55.000	0.00	0.00	34.44	4.26
2024	11861	7.699391	CGCATGACTCACATTTAAATGAAGAAT	59.301	33.333	30.18	18.45	39.67	2.40
2042	11879	5.607119	ATTTAAACGAAGAACGCATGACT	57.393	34.783	0.00	0.00	46.94	3.41
2227	12064	3.823281	TTCATTTTGCTGCCCATATGG	57.177	42.857	15.41	15.41	37.09	2.74

Based at the University of Bristol with support from BBSRC.

AutoCloner maintained by Alex Coulton.