AutoCloner

Multiple sequence alignment - TraesCS5B01G555500

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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	TraesCS5B01G555500	chr5B	100.000	4968	0	0	1	4968	704721639	704726606	0.000000e+00	9175.0
1	TraesCS5B01G555500	chr5B	83.584	1730	221	36	1429	3109	704498106	704499821	0.000000e+00	1563.0
2	TraesCS5B01G555500	chr5B	84.688	1489	198	21	1631	3109	704760626	704759158	0.000000e+00	1459.0
3	TraesCS5B01G555500	chr5B	83.014	1513	231	15	1644	3149	704528565	704530058	0.000000e+00	1347.0
4	TraesCS5B01G555500	chr5B	82.808	1524	235	18	1633	3149	704824478	704822975	0.000000e+00	1338.0
5	TraesCS5B01G555500	chr5B	82.620	1542	236	24	1618	3149	704479160	704480679	0.000000e+00	1334.0
6	TraesCS5B01G555500	chr5B	93.111	479	29	2	954	1429	704824630	704824153	0.000000e+00	699.0
7	TraesCS5B01G555500	chr5B	88.978	499	43	8	954	1444	704479018	704479512	1.530000e-169	606.0
8	TraesCS5B01G555500	chr5B	81.516	541	84	7	3486	4025	704318502	704317977	9.880000e-117	431.0
9	TraesCS5B01G555500	chr5B	81.641	512	79	10	3489	3990	704530286	704530792	1.290000e-110	411.0
10	TraesCS5B01G555500	chr5B	82.997	347	46	6	1094	1429	704760634	704760290	8.080000e-78	302.0
11	TraesCS5B01G555500	chr5B	83.133	332	40	8	1535	1851	704528162	704528492	6.290000e-74	289.0
12	TraesCS5B01G555500	chr5B	96.512	172	5	1	4283	4454	27817177	27817007	2.930000e-72	283.0
13	TraesCS5B01G555500	chr5B	93.333	120	6	2	3280	3399	704724800	704724917	5.110000e-40	176.0
14	TraesCS5B01G555500	chr5B	93.333	120	6	2	3162	3279	704724918	704725037	5.110000e-40	176.0
15	TraesCS5B01G555500	chr5B	86.076	79	11	0	3158	3236	704822861	704822783	8.860000e-13	86.1
16	TraesCS5B01G555500	chr5B	83.721	86	4	8	3188	3272	704499946	704500022	6.900000e-09	73.1
17	TraesCS5B01G555500	chr5B	97.436	39	1	0	3308	3346	704499946	704499984	3.210000e-07	67.6
18	TraesCS5B01G555500	chr5B	100.000	35	0	0	4630	4664	704726118	704726152	1.150000e-06	65.8
19	TraesCS5B01G555500	chr5B	100.000	35	0	0	4480	4514	704726268	704726302	1.150000e-06	65.8
20	TraesCS5B01G555500	chr4A	97.805	4101	67	12	872	4968	611024913	611028994	0.000000e+00	7053.0
21	TraesCS5B01G555500	chr4A	84.686	1626	200	33	1517	3109	611073630	611072021	0.000000e+00	1578.0
22	TraesCS5B01G555500	chr4A	84.610	1488	200	18	1631	3109	610706864	610708331	0.000000e+00	1452.0
23	TraesCS5B01G555500	chr4A	94.464	867	31	6	1	856	611023995	611024855	0.000000e+00	1319.0
24	TraesCS5B01G555500	chr4A	82.523	1522	244	16	1633	3149	611203497	611201993	0.000000e+00	1317.0
25	TraesCS5B01G555500	chr4A	82.457	1522	245	16	1633	3149	610640290	610641794	0.000000e+00	1312.0
26	TraesCS5B01G555500	chr4A	82.560	1508	238	18	1644	3147	610818274	610816788	0.000000e+00	1304.0
27	TraesCS5B01G555500	chr4A	92.276	479	24	5	954	1429	611203640	611203172	0.000000e+00	667.0
28	TraesCS5B01G555500	chr4A	92.067	479	25	5	954	1429	610640147	610640615	0.000000e+00	662.0
29	TraesCS5B01G555500	chr4A	96.429	168	5	1	4286	4453	362068076	362067910	4.900000e-70	276.0
30	TraesCS5B01G555500	chr4A	80.473	338	44	10	1535	1851	610818686	610818350	6.430000e-59	239.0
31	TraesCS5B01G555500	chr4A	94.958	119	5	1	3162	3279	611027312	611027430	8.490000e-43	185.0
32	TraesCS5B01G555500	chr4A	93.333	120	6	2	3280	3399	611027194	611027311	5.110000e-40	176.0
33	TraesCS5B01G555500	chr4A	83.721	86	4	8	3188	3272	610708440	610708516	6.900000e-09	73.1
34	TraesCS5B01G555500	chr4A	97.436	39	1	0	3308	3346	610708440	610708478	3.210000e-07	67.6
35	TraesCS5B01G555500	chr4A	100.000	35	0	0	4480	4514	611028657	611028691	1.150000e-06	65.8
36	TraesCS5B01G555500	chr4A	100.000	32	0	0	4633	4664	611028510	611028541	5.370000e-05	60.2
37	TraesCS5B01G555500	chrUn	100.000	400	0	0	3714	4113	478707249	478706850	0.000000e+00	739.0
38	TraesCS5B01G555500	chr7D	97.006	167	4	1	4287	4453	192936020	192936185	3.790000e-71	279.0
39	TraesCS5B01G555500	chr7D	81.034	116	19	3	37	151	188570572	188570685	6.850000e-14	89.8
40	TraesCS5B01G555500	chr7A	95.429	175	6	2	4281	4454	6316660	6316833	1.360000e-70	278.0
41	TraesCS5B01G555500	chr7A	93.956	182	9	2	4286	4467	115807688	115807509	1.760000e-69	274.0
42	TraesCS5B01G555500	chr2D	95.402	174	6	2	4284	4457	560959482	560959653	4.900000e-70	276.0
43	TraesCS5B01G555500	chr1D	95.906	171	5	2	4286	4456	178466305	178466473	4.900000e-70	276.0
44	TraesCS5B01G555500	chr3B	94.382	178	8	2	4279	4456	571752696	571752521	6.340000e-69	272.0
45	TraesCS5B01G555500	chr2B	92.708	96	5	2	3394	3489	794694182	794694275	2.410000e-28	137.0
46	TraesCS5B01G555500	chr2B	92.708	96	5	2	3394	3489	794803083	794803176	2.410000e-28	137.0
47	TraesCS5B01G555500	chr2B	94.186	86	4	1	3402	3487	677805611	677805527	4.040000e-26	130.0
48	TraesCS5B01G555500	chr6D	92.135	89	6	1	3399	3487	39676412	39676499	1.880000e-24	124.0
49	TraesCS5B01G555500	chr6D	82.707	133	23	0	19	151	320214779	320214647	8.740000e-23	119.0
50	TraesCS5B01G555500	chr6D	84.821	112	14	3	3	114	320205280	320205388	5.260000e-20	110.0
51	TraesCS5B01G555500	chr5A	91.860	86	6	1	3402	3487	134085974	134086058	8.740000e-23	119.0
52	TraesCS5B01G555500	chr3D	91.011	89	7	1	3399	3487	437189806	437189893	8.740000e-23	119.0
53	TraesCS5B01G555500	chr3A	88.660	97	9	2	3399	3494	746207561	746207656	3.140000e-22	117.0
54	TraesCS5B01G555500	chr2A	90.909	88	7	1	3402	3489	570013501	570013415	3.140000e-22	117.0

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	TraesCS5B01G555500	chr5B	704721639	704726606	4967	False	1931.720000	9175	97.333200	1	4968	5	chr5B.!!$F4	4967
1	TraesCS5B01G555500	chr5B	704479018	704480679	1661	False	970.000000	1334	85.799000	954	3149	2	chr5B.!!$F1	2195
2	TraesCS5B01G555500	chr5B	704759158	704760634	1476	True	880.500000	1459	83.842500	1094	3109	2	chr5B.!!$R3	2015
3	TraesCS5B01G555500	chr5B	704822783	704824630	1847	True	707.700000	1338	87.331667	954	3236	3	chr5B.!!$R4	2282
4	TraesCS5B01G555500	chr5B	704528162	704530792	2630	False	682.333333	1347	82.596000	1535	3990	3	chr5B.!!$F3	2455
5	TraesCS5B01G555500	chr5B	704498106	704500022	1916	False	567.900000	1563	88.247000	1429	3346	3	chr5B.!!$F2	1917
6	TraesCS5B01G555500	chr5B	704317977	704318502	525	True	431.000000	431	81.516000	3486	4025	1	chr5B.!!$R2	539
7	TraesCS5B01G555500	chr4A	611072021	611073630	1609	True	1578.000000	1578	84.686000	1517	3109	1	chr4A.!!$R2	1592
8	TraesCS5B01G555500	chr4A	611023995	611028994	4999	False	1476.500000	7053	96.760000	1	4968	6	chr4A.!!$F3	4967
9	TraesCS5B01G555500	chr4A	611201993	611203640	1647	True	992.000000	1317	87.399500	954	3149	2	chr4A.!!$R4	2195
10	TraesCS5B01G555500	chr4A	610640147	610641794	1647	False	987.000000	1312	87.262000	954	3149	2	chr4A.!!$F1	2195
11	TraesCS5B01G555500	chr4A	610816788	610818686	1898	True	771.500000	1304	81.516500	1535	3147	2	chr4A.!!$R3	1612
12	TraesCS5B01G555500	chr4A	610706864	610708516	1652	False	530.900000	1452	88.589000	1631	3346	3	chr4A.!!$F2	1715

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	Hairpin	End Stability	Orientation
866	895	0.035458	GTGTGTGTGAAGAGGGGAGG	59.965	60.000	0.00	4.30	F
1398	1455	0.400213	AAAATCTCGTGGTCCAGCCA	59.600	50.000	46.95	4.75	F
1415	1472	1.233019	CCAGTCTGTTGGTTGCAGAG	58.767	55.000	42.80	3.35	F
2465	3158	1.617850	CCAGCCACCAATGCAGTTTAA	59.382	47.619	0.00	1.52	F

Position	MSA Position	Penalty	Sequence	TM	GC	Hairpin	End Stability	Orientation
1914	2568	2.026822	AGATGGAGCACGAGATTTTGGT	60.027	45.455	0.00	3.67	R
3362	4181	3.181516	GCGAGTTGGATAAAGAACAGCAG	60.182	47.826	32.05	4.24	R
3407	4226	5.962433	ACGATGTTATATTATGGGACGGAG	58.038	41.667	0.00	4.63	R
4460	5292	0.105039	GGATAGGAGACGGCAAGGTG	59.895	60.000	0.00	4.00	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	1.739466	GAGATGAAAGTTGGCGATGCA	59.261	47.619	0.00	0.00	0.00	3.96
53	54	1.081092	CAAGTGGGAGGGAGAGGGA	59.919	63.158	0.00	0.00	0.00	4.20
83	84	2.241430	GGATAGGCTAAGGTTGGGTTGT	59.759	50.000	0.00	0.00	0.00	3.32
86	87	0.250597	GGCTAAGGTTGGGTTGTCGT	60.251	55.000	0.00	0.00	0.00	4.34
222	223	5.015515	GGGTCCTAGCGGTTAGTCTTATAT	58.984	45.833	0.00	0.00	0.00	0.86
230	231	3.244078	CGGTTAGTCTTATATGGCAGGCA	60.244	47.826	0.00	0.00	0.00	4.75
254	255	2.332654	GGACGCGTCTGGGCATTTT	61.333	57.895	35.50	0.00	0.00	1.82
266	267	1.620822	GGCATTTTCATATCCGCCCT	58.379	50.000	0.00	0.00	33.31	5.19
270	271	2.561478	TTTTCATATCCGCCCTAGGC	57.439	50.000	2.05	0.00	46.75	3.93
303	304	1.866015	TGGGGACTGTCGATCAATCT	58.134	50.000	1.07	0.00	0.00	2.40
304	305	1.482182	TGGGGACTGTCGATCAATCTG	59.518	52.381	1.07	0.00	0.00	2.90
305	306	1.202580	GGGGACTGTCGATCAATCTGG	60.203	57.143	1.07	0.00	0.00	3.86
318	319	0.321298	AATCTGGACGTTTGGGTCGG	60.321	55.000	0.00	0.00	37.82	4.79
326	327	3.365264	GGACGTTTGGGTCGGATTTAAAC	60.365	47.826	0.00	0.00	37.82	2.01
336	337	1.726571	CGGATTTAAACGGCGTGGTTG	60.727	52.381	15.70	0.00	0.00	3.77
387	388	1.214589	GACAGCTCGTCGGGCTTTA	59.785	57.895	19.13	0.00	38.03	1.85
388	389	1.077089	GACAGCTCGTCGGGCTTTAC	61.077	60.000	19.13	8.02	38.03	2.01
389	390	1.810030	CAGCTCGTCGGGCTTTACC	60.810	63.158	19.13	0.00	38.03	2.85
513	515	1.340991	CCACCAGAATTCCCCATCGTT	60.341	52.381	0.65	0.00	0.00	3.85
608	610	4.457496	CACCCACCGCAGCTCGAT	62.457	66.667	7.07	0.00	41.67	3.59
721	730	1.715862	CGTTCGATCTCCCTGCTCGA	61.716	60.000	0.00	0.00	40.86	4.04
787	796	1.064621	CAAATCCATTGCCGCCTCG	59.935	57.895	0.00	0.00	31.00	4.63
864	893	1.208706	TTGTGTGTGTGAAGAGGGGA	58.791	50.000	0.00	0.00	0.00	4.81
866	895	0.035458	GTGTGTGTGAAGAGGGGAGG	59.965	60.000	0.00	0.00	0.00	4.30
867	896	1.127567	TGTGTGTGAAGAGGGGAGGG	61.128	60.000	0.00	0.00	0.00	4.30
868	897	1.128188	GTGTGTGAAGAGGGGAGGGT	61.128	60.000	0.00	0.00	0.00	4.34
870	899	0.836400	GTGTGAAGAGGGGAGGGTGA	60.836	60.000	0.00	0.00	0.00	4.02
1082	1139	3.178540	AACTCCACCCACGAGCCAC	62.179	63.158	0.00	0.00	0.00	5.01
1318	1375	4.386049	GTGGAGTTTTGTCTGACTACATCG	59.614	45.833	9.51	0.00	38.86	3.84
1319	1376	3.368236	GGAGTTTTGTCTGACTACATCGC	59.632	47.826	9.51	0.00	0.00	4.58
1390	1447	6.095160	AGAGGTACTACACTAAAATCTCGTGG	59.905	42.308	0.00	0.00	41.55	4.94
1398	1455	0.400213	AAAATCTCGTGGTCCAGCCA	59.600	50.000	0.00	0.00	46.95	4.75
1415	1472	1.233019	CCAGTCTGTTGGTTGCAGAG	58.767	55.000	0.00	0.00	42.80	3.35
1436	1493	9.857957	GCAGAGTACTAATTTCTACTACTTGTT	57.142	33.333	0.00	0.00	0.00	2.83
1855	2233	2.031870	TCTGACTACATCCATCACGGG	58.968	52.381	0.00	0.00	34.36	5.28
1914	2568	2.752358	CCTTCCAGAGGCACTGCA	59.248	61.111	6.40	0.00	44.52	4.41
1916	2570	1.673665	CTTCCAGAGGCACTGCACC	60.674	63.158	6.40	0.00	44.52	5.01
2383	3076	7.122055	GTGATGGTCAGTACAAATTCCCATTTA	59.878	37.037	0.00	0.00	31.62	1.40
2465	3158	1.617850	CCAGCCACCAATGCAGTTTAA	59.382	47.619	0.00	0.00	0.00	1.52
2841	3534	2.000447	GTGCAACATCTAACCCTCGAC	59.000	52.381	0.00	0.00	36.32	4.20
2894	3588	5.715439	TGGACCATCCTTTAAGTCATGAT	57.285	39.130	0.00	0.00	37.46	2.45
3362	4181	7.642082	TGGAGATACACTCTTAGACTTTACC	57.358	40.000	0.00	0.00	44.37	2.85
3407	4226	6.609533	GCTTTGTTTTTAAGCTACTACTCCC	58.390	40.000	0.00	0.00	43.56	4.30
4167	4997	7.554959	ACAACTCTATTTAAACCTCCTGAGA	57.445	36.000	0.00	0.00	0.00	3.27
4193	5023	1.000938	GCTTTCAGCCTTTCACTGTGG	60.001	52.381	8.11	0.00	34.48	4.17
4226	5056	0.836606	TGCTTTCTCCCTGTGTGACA	59.163	50.000	0.00	0.00	0.00	3.58
4256	5086	9.739276	ACAAAATCAAATCACAGGTCTTATCTA	57.261	29.630	0.00	0.00	0.00	1.98
4394	5226	4.691860	AGATTCACTCATTTTTGCTCCG	57.308	40.909	0.00	0.00	0.00	4.63
4401	5233	5.580691	TCACTCATTTTTGCTCCGTATGTAG	59.419	40.000	0.00	0.00	0.00	2.74
4403	5235	5.938125	ACTCATTTTTGCTCCGTATGTAGTT	59.062	36.000	0.00	0.00	0.00	2.24
4449	5281	7.882755	AGACAAATATTTAGGAATGGAGGGAA	58.117	34.615	0.00	0.00	0.00	3.97
4460	5292	9.862149	TTAGGAATGGAGGGAATAGTATTTTTC	57.138	33.333	0.00	0.00	0.00	2.29
4475	5307	0.472471	TTTTCACCTTGCCGTCTCCT	59.528	50.000	0.00	0.00	0.00	3.69
4476	5308	1.344065	TTTCACCTTGCCGTCTCCTA	58.656	50.000	0.00	0.00	0.00	2.94
4477	5309	1.568504	TTCACCTTGCCGTCTCCTAT	58.431	50.000	0.00	0.00	0.00	2.57
4478	5310	1.112113	TCACCTTGCCGTCTCCTATC	58.888	55.000	0.00	0.00	0.00	2.08
4479	5311	0.105039	CACCTTGCCGTCTCCTATCC	59.895	60.000	0.00	0.00	0.00	2.59
4480	5312	0.032017	ACCTTGCCGTCTCCTATCCT	60.032	55.000	0.00	0.00	0.00	3.24
4481	5313	1.217183	ACCTTGCCGTCTCCTATCCTA	59.783	52.381	0.00	0.00	0.00	2.94
4542	5374	0.957395	GACATCAGGTGTGGTGCTGG	60.957	60.000	0.00	0.00	42.36	4.85
4587	5419	2.125512	CGCCTGGCCAGTAGACAC	60.126	66.667	30.63	11.77	0.00	3.67
4608	5440	8.924303	AGACACTTACCTGCATCTAACAATATA	58.076	33.333	0.00	0.00	0.00	0.86
4696	5528	0.671781	CTCAGTGCAGGCTGTACCAC	60.672	60.000	28.54	20.84	43.14	4.16
4810	5642	1.933853	GGCTTGTCTGGTTATGTAGCG	59.066	52.381	0.00	0.00	0.00	4.26
4829	5661	5.905480	AGCGTTTAGATTTTGCCTTTTTG	57.095	34.783	0.00	0.00	0.00	2.44
4844	5676	4.618227	GCCTTTTTGTGTGTTTGACAGTCT	60.618	41.667	1.31	0.00	34.28	3.24
4952	5784	3.630312	GTGTTTGCCCTGAAGAAACTACA	59.370	43.478	0.00	0.00	32.01	2.74

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
11	12	0.729690	GCCAACTTTCATCTCCTCGC	59.270	55.000	0.00	0.00	0.00	5.03
36	37	0.252927	CTTCCCTCTCCCTCCCACTT	60.253	60.000	0.00	0.00	0.00	3.16
53	54	2.047830	CTTAGCCTATCCCCGTTCCTT	58.952	52.381	0.00	0.00	0.00	3.36
83	84	1.534595	GCTATTTAAGCCGGACGACGA	60.535	52.381	5.05	0.00	46.25	4.20
222	223	4.408821	GTCCGGTCATGCCTGCCA	62.409	66.667	0.00	0.00	34.25	4.92
230	231	4.129737	CCAGACGCGTCCGGTCAT	62.130	66.667	34.08	13.29	39.22	3.06
247	248	1.620822	AGGGCGGATATGAAAATGCC	58.379	50.000	0.00	0.00	41.72	4.40
250	251	3.073274	GCCTAGGGCGGATATGAAAAT	57.927	47.619	11.72	0.00	39.62	1.82
266	267	1.355381	CCATATTCAGCCCCATGCCTA	59.645	52.381	0.00	0.00	42.71	3.93
270	271	0.779358	TCCCCATATTCAGCCCCATG	59.221	55.000	0.00	0.00	0.00	3.66
273	274	0.111253	CAGTCCCCATATTCAGCCCC	59.889	60.000	0.00	0.00	0.00	5.80
303	304	0.108963	AAATCCGACCCAAACGTCCA	59.891	50.000	0.00	0.00	0.00	4.02
304	305	2.097680	TAAATCCGACCCAAACGTCC	57.902	50.000	0.00	0.00	0.00	4.79
305	306	3.665060	CGTTTAAATCCGACCCAAACGTC	60.665	47.826	9.12	0.00	43.76	4.34
318	319	1.401800	CCCAACCACGCCGTTTAAATC	60.402	52.381	0.00	0.00	0.00	2.17
326	327	2.046700	ATACACCCAACCACGCCG	60.047	61.111	0.00	0.00	0.00	6.46
336	337	1.897133	GGACCCAAAAACCATACACCC	59.103	52.381	0.00	0.00	0.00	4.61
613	615	3.296709	AAGAGGTACACCGGCAGCG	62.297	63.158	0.00	0.00	42.08	5.18
652	661	1.674651	GTGAAAGGCGGAGGGGTTC	60.675	63.158	0.00	0.00	0.00	3.62
721	730	3.443681	CAGAAACCAGTTGCCGGAATTAT	59.556	43.478	5.05	0.00	0.00	1.28
787	796	2.673368	CAGCGTGTACCCAGAATTTCTC	59.327	50.000	0.00	0.00	0.00	2.87
864	893	8.934023	TCTAACAAATTTTCATAAGTCACCCT	57.066	30.769	0.00	0.00	0.00	4.34
1041	1092	0.037447	TTGGATGGCAACGATCCACA	59.963	50.000	10.41	1.41	46.77	4.17
1318	1375	2.124983	TTCCTCTGCGCCATGAGC	60.125	61.111	4.18	0.00	38.52	4.26
1319	1376	1.817099	GGTTCCTCTGCGCCATGAG	60.817	63.158	4.18	10.05	0.00	2.90
1376	1433	2.354805	GGCTGGACCACGAGATTTTAGT	60.355	50.000	0.00	0.00	38.86	2.24
1398	1455	2.700897	AGTACTCTGCAACCAACAGACT	59.299	45.455	0.00	0.00	39.21	3.24
1436	1493	9.230122	TCAGTATTCATAAGAAATCAGTTGCAA	57.770	29.630	0.00	0.00	37.29	4.08
1514	1571	5.898120	TGGAGGATATGGAGAAAACCAAAA	58.102	37.500	0.00	0.00	43.47	2.44
1867	2521	5.419760	ACAGATCAATCGCTGATTCATTG	57.580	39.130	0.00	0.00	45.23	2.82
1914	2568	2.026822	AGATGGAGCACGAGATTTTGGT	60.027	45.455	0.00	0.00	0.00	3.67
1916	2570	2.283617	CGAGATGGAGCACGAGATTTTG	59.716	50.000	0.00	0.00	0.00	2.44
2383	3076	4.781934	ACACTGTCCTTGTCTAAAAGCTT	58.218	39.130	0.00	0.00	0.00	3.74
2841	3534	3.338249	CTCTGGTGGTTTACAGTCCATG	58.662	50.000	0.00	0.00	36.09	3.66
3100	3805	6.267471	ACCAGCAAAGAAGAAACCAATATGAA	59.733	34.615	0.00	0.00	0.00	2.57
3299	4118	8.542926	AGGACAGCATATGCAATAACATAGATA	58.457	33.333	28.62	0.00	45.16	1.98
3362	4181	3.181516	GCGAGTTGGATAAAGAACAGCAG	60.182	47.826	0.00	0.00	32.05	4.24
3407	4226	5.962433	ACGATGTTATATTATGGGACGGAG	58.038	41.667	0.00	0.00	0.00	4.63
4113	4943	4.276431	GGAGTACTGTAGAGAAGCGCTAAT	59.724	45.833	12.05	0.84	0.00	1.73
4193	5023	5.221126	GGGAGAAAGCATATGTCATCCAAAC	60.221	44.000	4.29	0.00	0.00	2.93
4226	5056	7.765695	AGACCTGTGATTTGATTTTGTACAT	57.234	32.000	0.00	0.00	0.00	2.29
4256	5086	2.102578	GGGCTGCATGTCTGGTAAAAT	58.897	47.619	0.50	0.00	0.00	1.82
4378	5210	4.685169	ACATACGGAGCAAAAATGAGTG	57.315	40.909	0.00	0.00	0.00	3.51
4426	5258	9.813826	CTATTCCCTCCATTCCTAAATATTTGT	57.186	33.333	11.05	0.00	0.00	2.83
4434	5266	9.862149	GAAAAATACTATTCCCTCCATTCCTAA	57.138	33.333	0.00	0.00	0.00	2.69
4449	5281	5.497474	AGACGGCAAGGTGAAAAATACTAT	58.503	37.500	0.00	0.00	0.00	2.12
4460	5292	0.105039	GGATAGGAGACGGCAAGGTG	59.895	60.000	0.00	0.00	0.00	4.00
4477	5309	9.251440	TCTGTAAGAACTTTAGCAAGTATAGGA	57.749	33.333	0.00	0.00	42.31	2.94
4542	5374	0.671163	TTGTGCGACCGGGTAACATC	60.671	55.000	6.32	0.00	39.74	3.06
4587	5419	8.783833	ATGCTATATTGTTAGATGCAGGTAAG	57.216	34.615	0.00	0.00	32.42	2.34
4608	5440	9.429359	GTATAGTAATATTGTGCTCAAGATGCT	57.571	33.333	9.20	12.04	35.94	3.79
4810	5642	7.302350	ACACACAAAAAGGCAAAATCTAAAC	57.698	32.000	0.00	0.00	0.00	2.01
4829	5661	5.330271	GACATACAGACTGTCAAACACAC	57.670	43.478	12.39	0.00	42.08	3.82
4844	5676	2.566913	ACAGCGGTGTTTTGACATACA	58.433	42.857	15.81	0.00	30.30	2.29

Based at the University of Bristol with support from BBSRC.

AutoCloner maintained by Alex Coulton.