AutoCloner

Multiple sequence alignment - TraesCS4B01G292000

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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	TraesCS4B01G292000	chr4B	100.000	1461	0	0	912	2372	577063387	577061927	0.000000e+00	2699
1	TraesCS4B01G292000	chr4B	100.000	446	0	0	1	446	577064298	577063853	0.000000e+00	824
2	TraesCS4B01G292000	chr1D	93.910	936	51	4	914	1846	491907966	491907034	0.000000e+00	1408
3	TraesCS4B01G292000	chr1D	92.814	167	11	1	1681	1847	260983558	260983723	8.470000e-60	241
4	TraesCS4B01G292000	chr5D	93.844	926	50	3	924	1843	53756524	53757448	0.000000e+00	1387
5	TraesCS4B01G292000	chr5D	92.383	919	62	6	926	1843	497305385	497304474	0.000000e+00	1303
6	TraesCS4B01G292000	chr5D	92.377	892	51	5	966	1843	397098263	397099151	0.000000e+00	1254
7	TraesCS4B01G292000	chr5D	91.176	442	31	7	1938	2372	379392495	379392055	5.640000e-166	593
8	TraesCS4B01G292000	chr5D	92.971	313	17	2	136	445	53755550	53755860	3.600000e-123	451
9	TraesCS4B01G292000	chr5D	95.636	275	12	0	171	445	84406850	84407124	2.160000e-120	442
10	TraesCS4B01G292000	chr5D	94.982	279	12	2	167	445	359546430	359546706	1.010000e-118	436
11	TraesCS4B01G292000	chr5B	92.308	949	53	3	915	1843	517572336	517571388	0.000000e+00	1330
12	TraesCS4B01G292000	chr5B	91.929	954	54	8	912	1843	56361502	56362454	0.000000e+00	1314
13	TraesCS4B01G292000	chr5B	92.088	910	55	5	948	1843	297042230	297043136	0.000000e+00	1266
14	TraesCS4B01G292000	chr5B	91.158	475	29	6	1911	2372	411945487	411945961	1.200000e-177	632
15	TraesCS4B01G292000	chr5B	92.922	438	25	4	1938	2370	691771314	691771750	1.200000e-177	632
16	TraesCS4B01G292000	chr5B	94.444	180	8	1	1	178	352299083	352299262	2.320000e-70	276
17	TraesCS4B01G292000	chr7A	93.541	867	41	3	991	1843	700256754	700257619	0.000000e+00	1277
18	TraesCS4B01G292000	chr7A	89.362	470	39	10	1911	2372	643025289	643024823	4.390000e-162	580
19	TraesCS4B01G292000	chr7A	95.506	178	6	2	1	178	650462014	650461839	1.390000e-72	283
20	TraesCS4B01G292000	chr6B	90.784	944	70	9	916	1843	38941985	38942927	0.000000e+00	1245
21	TraesCS4B01G292000	chr6B	89.184	527	25	12	1847	2364	719857084	719857587	1.550000e-176	628
22	TraesCS4B01G292000	chr6B	95.714	280	10	2	166	445	38933298	38933575	1.290000e-122	449
23	TraesCS4B01G292000	chr6B	95.652	161	7	0	1683	1843	4470901	4471061	2.340000e-65	259
24	TraesCS4B01G292000	chr6B	83.436	163	19	4	926	1080	475034247	475034085	6.830000e-31	145
25	TraesCS4B01G292000	chr4D	92.378	879	51	4	981	1843	92671304	92670426	0.000000e+00	1238
26	TraesCS4B01G292000	chr4D	89.417	652	51	6	1207	1843	314522111	314521463	0.000000e+00	806
27	TraesCS4B01G292000	chr3A	90.252	913	66	10	947	1845	79335249	79334346	0.000000e+00	1171
28	TraesCS4B01G292000	chr1B	93.148	540	27	5	1843	2372	307432298	307432837	0.000000e+00	784
29	TraesCS4B01G292000	chr1B	96.648	179	4	2	1	178	307432130	307432307	1.780000e-76	296
30	TraesCS4B01G292000	chr1B	94.475	181	7	1	1	178	350413807	350413627	2.320000e-70	276
31	TraesCS4B01G292000	chr3B	91.158	475	24	10	1911	2372	147659774	147659305	1.550000e-176	628
32	TraesCS4B01G292000	chr3B	96.000	275	11	0	171	445	207205130	207204856	4.650000e-122	448
33	TraesCS4B01G292000	chr3B	94.972	179	8	1	1	178	733584614	733584792	1.800000e-71	279
34	TraesCS4B01G292000	chr2B	89.722	467	31	9	1914	2370	764495881	764495422	4.390000e-162	580
35	TraesCS4B01G292000	chr2B	94.944	178	8	1	1	178	676769607	676769431	6.460000e-71	278
36	TraesCS4B01G292000	chr6D	88.773	481	32	16	1911	2372	457348581	457348104	9.510000e-159	569
37	TraesCS4B01G292000	chr3D	98.106	264	3	1	171	434	124069449	124069710	2.150000e-125	459
38	TraesCS4B01G292000	chr3D	96.364	275	6	1	171	445	486147831	486147561	1.290000e-122	449
39	TraesCS4B01G292000	chr3D	94.944	178	7	2	1	178	89934218	89934043	6.460000e-71	278
40	TraesCS4B01G292000	chr4A	96.364	275	8	2	171	445	274637189	274637461	3.600000e-123	451
41	TraesCS4B01G292000	chr7D	94.643	280	13	2	166	445	549747877	549747600	1.300000e-117	433
42	TraesCS4B01G292000	chr7D	94.505	182	5	3	1	178	30239346	30239526	2.320000e-70	276
43	TraesCS4B01G292000	chr7B	94.475	181	7	2	1	178	89036367	89036547	2.320000e-70	276

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	TraesCS4B01G292000	chr4B	577061927	577064298	2371	True	1761.5	2699	100.0000	1	2372	2	chr4B.!!$R1	2371
1	TraesCS4B01G292000	chr1D	491907034	491907966	932	True	1408.0	1408	93.9100	914	1846	1	chr1D.!!$R1	932
2	TraesCS4B01G292000	chr5D	497304474	497305385	911	True	1303.0	1303	92.3830	926	1843	1	chr5D.!!$R2	917
3	TraesCS4B01G292000	chr5D	397098263	397099151	888	False	1254.0	1254	92.3770	966	1843	1	chr5D.!!$F3	877
4	TraesCS4B01G292000	chr5D	53755550	53757448	1898	False	919.0	1387	93.4075	136	1843	2	chr5D.!!$F4	1707
5	TraesCS4B01G292000	chr5B	517571388	517572336	948	True	1330.0	1330	92.3080	915	1843	1	chr5B.!!$R1	928
6	TraesCS4B01G292000	chr5B	56361502	56362454	952	False	1314.0	1314	91.9290	912	1843	1	chr5B.!!$F1	931
7	TraesCS4B01G292000	chr5B	297042230	297043136	906	False	1266.0	1266	92.0880	948	1843	1	chr5B.!!$F2	895
8	TraesCS4B01G292000	chr7A	700256754	700257619	865	False	1277.0	1277	93.5410	991	1843	1	chr7A.!!$F1	852
9	TraesCS4B01G292000	chr6B	38941985	38942927	942	False	1245.0	1245	90.7840	916	1843	1	chr6B.!!$F3	927
10	TraesCS4B01G292000	chr6B	719857084	719857587	503	False	628.0	628	89.1840	1847	2364	1	chr6B.!!$F4	517
11	TraesCS4B01G292000	chr4D	92670426	92671304	878	True	1238.0	1238	92.3780	981	1843	1	chr4D.!!$R1	862
12	TraesCS4B01G292000	chr4D	314521463	314522111	648	True	806.0	806	89.4170	1207	1843	1	chr4D.!!$R2	636
13	TraesCS4B01G292000	chr3A	79334346	79335249	903	True	1171.0	1171	90.2520	947	1845	1	chr3A.!!$R1	898
14	TraesCS4B01G292000	chr1B	307432130	307432837	707	False	540.0	784	94.8980	1	2372	2	chr1B.!!$F1	2371

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
302	304	2.032178	GCCTCCTCGTGATGTAAAATGC	59.968	50.0	0.0	0.0	0.0	3.56	F
1124	1322	0.612732	TGGATCGACACGTACCCCTT	60.613	55.0	0.0	0.0	0.0	3.95	F

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability	Orientation
1198	1398	0.173708	GCCCGACTCTCGATCTTTGT	59.826	55.000	0.0	0.0	43.74	2.83	R
2227	2517	3.012274	TCATCTCCTCCACTCTTCTCCTT	59.988	47.826	0.0	0.0	0.00	3.36	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
42	43	6.946340	TCCAACAACATCTACTACACATGAT	58.054	36.000	0.00	0.00	0.00	2.45
43	44	6.818142	TCCAACAACATCTACTACACATGATG	59.182	38.462	0.00	0.00	41.24	3.07
44	45	6.037500	CCAACAACATCTACTACACATGATGG	59.962	42.308	0.00	0.00	40.18	3.51
45	46	6.544928	ACAACATCTACTACACATGATGGA	57.455	37.500	0.00	0.00	40.18	3.41
46	47	7.129457	ACAACATCTACTACACATGATGGAT	57.871	36.000	0.00	0.00	40.18	3.41
47	48	7.212976	ACAACATCTACTACACATGATGGATC	58.787	38.462	0.00	0.00	40.18	3.36
48	49	6.983906	ACATCTACTACACATGATGGATCA	57.016	37.500	0.00	0.00	40.18	2.92
49	50	6.753180	ACATCTACTACACATGATGGATCAC	58.247	40.000	0.00	0.00	40.03	3.06
50	51	6.324770	ACATCTACTACACATGATGGATCACA	59.675	38.462	0.00	0.00	40.03	3.58
51	52	6.983906	TCTACTACACATGATGGATCACAT	57.016	37.500	0.00	0.00	44.18	3.21
64	65	5.952526	TGGATCACATCATATCAACATGC	57.047	39.130	0.00	0.00	0.00	4.06
65	66	5.378332	TGGATCACATCATATCAACATGCA	58.622	37.500	0.00	0.00	0.00	3.96
66	67	6.007703	TGGATCACATCATATCAACATGCAT	58.992	36.000	0.00	0.00	0.00	3.96
67	68	6.492087	TGGATCACATCATATCAACATGCATT	59.508	34.615	0.00	0.00	0.00	3.56
68	69	7.666388	TGGATCACATCATATCAACATGCATTA	59.334	33.333	0.00	0.00	0.00	1.90
69	70	8.683615	GGATCACATCATATCAACATGCATTAT	58.316	33.333	0.00	0.00	0.00	1.28
94	95	9.768662	ATATCAAAATAAAATCCTCCAACATGC	57.231	29.630	0.00	0.00	0.00	4.06
95	96	7.002250	TCAAAATAAAATCCTCCAACATGCA	57.998	32.000	0.00	0.00	0.00	3.96
96	97	7.622713	TCAAAATAAAATCCTCCAACATGCAT	58.377	30.769	0.00	0.00	0.00	3.96
97	98	7.765360	TCAAAATAAAATCCTCCAACATGCATC	59.235	33.333	0.00	0.00	0.00	3.91
98	99	6.795144	AATAAAATCCTCCAACATGCATCA	57.205	33.333	0.00	0.00	0.00	3.07
99	100	6.989155	ATAAAATCCTCCAACATGCATCAT	57.011	33.333	0.00	0.00	0.00	2.45
100	101	8.481492	AATAAAATCCTCCAACATGCATCATA	57.519	30.769	0.00	0.00	0.00	2.15
101	102	6.989155	AAAATCCTCCAACATGCATCATAT	57.011	33.333	0.00	0.00	0.00	1.78
102	103	6.585695	AAATCCTCCAACATGCATCATATC	57.414	37.500	0.00	0.00	0.00	1.63
103	104	4.710313	TCCTCCAACATGCATCATATCA	57.290	40.909	0.00	0.00	0.00	2.15
104	105	5.251182	TCCTCCAACATGCATCATATCAT	57.749	39.130	0.00	0.00	0.00	2.45
105	106	5.250982	TCCTCCAACATGCATCATATCATC	58.749	41.667	0.00	0.00	0.00	2.92
106	107	5.007682	CCTCCAACATGCATCATATCATCA	58.992	41.667	0.00	0.00	0.00	3.07
107	108	5.475564	CCTCCAACATGCATCATATCATCAA	59.524	40.000	0.00	0.00	0.00	2.57
108	109	6.152831	CCTCCAACATGCATCATATCATCAAT	59.847	38.462	0.00	0.00	0.00	2.57
109	110	7.309805	CCTCCAACATGCATCATATCATCAATT	60.310	37.037	0.00	0.00	0.00	2.32
110	111	7.958088	TCCAACATGCATCATATCATCAATTT	58.042	30.769	0.00	0.00	0.00	1.82
111	112	9.080097	TCCAACATGCATCATATCATCAATTTA	57.920	29.630	0.00	0.00	0.00	1.40
112	113	9.869757	CCAACATGCATCATATCATCAATTTAT	57.130	29.630	0.00	0.00	0.00	1.40
156	157	9.171877	AGAGTTCATCTTGAATGTATTTTCTCC	57.828	33.333	0.00	0.00	38.79	3.71
157	158	8.868522	AGTTCATCTTGAATGTATTTTCTCCA	57.131	30.769	0.00	0.00	38.79	3.86
158	159	9.300681	AGTTCATCTTGAATGTATTTTCTCCAA	57.699	29.630	0.00	0.00	38.79	3.53
159	160	9.912634	GTTCATCTTGAATGTATTTTCTCCAAA	57.087	29.630	0.00	0.00	38.79	3.28
160	161	9.912634	TTCATCTTGAATGTATTTTCTCCAAAC	57.087	29.630	0.00	0.00	30.26	2.93
161	162	9.076781	TCATCTTGAATGTATTTTCTCCAAACA	57.923	29.630	0.00	0.00	0.00	2.83
163	164	9.696917	ATCTTGAATGTATTTTCTCCAAACAAC	57.303	29.630	0.00	0.00	0.00	3.32
164	165	8.690884	TCTTGAATGTATTTTCTCCAAACAACA	58.309	29.630	0.00	0.00	31.42	3.33
165	166	9.480053	CTTGAATGTATTTTCTCCAAACAACAT	57.520	29.630	0.00	0.00	36.51	2.71
166	167	9.474920	TTGAATGTATTTTCTCCAAACAACATC	57.525	29.630	0.00	0.00	35.02	3.06
167	168	8.859090	TGAATGTATTTTCTCCAAACAACATCT	58.141	29.630	0.00	0.00	35.02	2.90
169	170	9.696917	AATGTATTTTCTCCAAACAACATCTTC	57.303	29.630	0.00	0.00	35.02	2.87
267	269	2.747446	ACAGACGGTCCATATGCAAAAC	59.253	45.455	4.14	0.00	0.00	2.43
301	303	2.614057	GGCCTCCTCGTGATGTAAAATG	59.386	50.000	0.00	0.00	0.00	2.32
302	304	2.032178	GCCTCCTCGTGATGTAAAATGC	59.968	50.000	0.00	0.00	0.00	3.56
311	313	4.320129	CGTGATGTAAAATGCAACACCTCA	60.320	41.667	0.00	0.00	36.64	3.86
316	318	2.995466	AAATGCAACACCTCACGATG	57.005	45.000	0.00	0.00	0.00	3.84
331	333	5.388786	CCTCACGATGCAAATATACATCACG	60.389	44.000	11.63	0.00	42.28	4.35
961	1153	3.374402	CACCGTCCGGCTCTGTCT	61.374	66.667	5.47	0.00	39.32	3.41
1004	1202	3.461773	CCACCGCTCTCCGATGGT	61.462	66.667	0.00	0.00	46.07	3.55
1124	1322	0.612732	TGGATCGACACGTACCCCTT	60.613	55.000	0.00	0.00	0.00	3.95
1198	1398	0.675083	TCGGTCGCACCTCAACTTTA	59.325	50.000	4.21	0.00	35.66	1.85
1314	1521	1.227556	GGTTGTCGTCAGTGCTGGT	60.228	57.895	0.00	0.00	0.00	4.00
1330	1537	0.331616	TGGTGAGACCGATGAGGAGA	59.668	55.000	0.00	0.00	42.58	3.71
1369	1576	2.406205	GAGCATCCGGAGTACGTCT	58.594	57.895	11.34	0.00	42.24	4.18
1383	1590	0.178987	ACGTCTAGGCCGAGATGGAT	60.179	55.000	31.16	14.44	42.00	3.41
1389	1596	4.951094	GTCTAGGCCGAGATGGATTACTAT	59.049	45.833	19.25	0.00	42.00	2.12
1403	1611	2.596904	TACTATTGGAAGCGTGAGGC	57.403	50.000	0.00	0.00	44.05	4.70
1520	1738	1.939082	CGGAGGAGGAGGAGGAGGAA	61.939	65.000	0.00	0.00	0.00	3.36
1562	1780	1.349357	GAGGAGTTCTGGGAGCAGTTT	59.651	52.381	0.00	0.00	0.00	2.66
1639	1863	8.236586	TGAAGTTGATGTATGAAACTATGTTGC	58.763	33.333	0.00	0.00	33.09	4.17
1778	2059	3.123050	GCTCCAAAACGCACTTTTTGAT	58.877	40.909	12.39	0.00	45.54	2.57
1879	2160	4.826274	ACATGCATCCACTACACTAACT	57.174	40.909	0.00	0.00	0.00	2.24
2153	2443	4.953579	AGTTTGCAAAAACTACTTGGAGGA	59.046	37.500	14.67	0.00	40.89	3.71
2158	2448	5.596361	TGCAAAAACTACTTGGAGGAATTGA	59.404	36.000	0.00	0.00	0.00	2.57
2227	2517	3.762407	TGAAGAAACGGTGAAGATCCA	57.238	42.857	0.00	0.00	0.00	3.41
2233	2523	1.938585	ACGGTGAAGATCCAAGGAGA	58.061	50.000	0.00	0.00	0.00	3.71
2256	2546	2.174639	GAGTGGAGGAGATGAGAGAGGA	59.825	54.545	0.00	0.00	0.00	3.71
2294	2584	1.293498	GAAGAGGAACTGCCAGCGA	59.707	57.895	0.00	0.00	41.55	4.93
2295	2585	0.320771	GAAGAGGAACTGCCAGCGAA	60.321	55.000	0.00	0.00	41.55	4.70
2320	2610	0.710588	GGGAGGGGTGGGAAGAAAAT	59.289	55.000	0.00	0.00	0.00	1.82
2325	2615	1.632589	GGGTGGGAAGAAAATGCAGT	58.367	50.000	0.00	0.00	0.00	4.40

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
42	43	5.378332	TGCATGTTGATATGATGTGATCCA	58.622	37.500	0.00	0.00	0.00	3.41
43	44	5.952526	TGCATGTTGATATGATGTGATCC	57.047	39.130	0.00	0.00	0.00	3.36
68	69	9.768662	GCATGTTGGAGGATTTTATTTTGATAT	57.231	29.630	0.00	0.00	0.00	1.63
69	70	8.756927	TGCATGTTGGAGGATTTTATTTTGATA	58.243	29.630	0.00	0.00	0.00	2.15
70	71	7.622713	TGCATGTTGGAGGATTTTATTTTGAT	58.377	30.769	0.00	0.00	0.00	2.57
71	72	7.002250	TGCATGTTGGAGGATTTTATTTTGA	57.998	32.000	0.00	0.00	0.00	2.69
72	73	7.549842	TGATGCATGTTGGAGGATTTTATTTTG	59.450	33.333	2.46	0.00	0.00	2.44
73	74	7.622713	TGATGCATGTTGGAGGATTTTATTTT	58.377	30.769	2.46	0.00	0.00	1.82
74	75	7.185318	TGATGCATGTTGGAGGATTTTATTT	57.815	32.000	2.46	0.00	0.00	1.40
75	76	6.795144	TGATGCATGTTGGAGGATTTTATT	57.205	33.333	2.46	0.00	0.00	1.40
76	77	6.989155	ATGATGCATGTTGGAGGATTTTAT	57.011	33.333	2.46	0.00	0.00	1.40
77	78	7.724951	TGATATGATGCATGTTGGAGGATTTTA	59.275	33.333	2.46	0.00	0.00	1.52
78	79	6.551975	TGATATGATGCATGTTGGAGGATTTT	59.448	34.615	2.46	0.00	0.00	1.82
79	80	6.072649	TGATATGATGCATGTTGGAGGATTT	58.927	36.000	2.46	0.00	0.00	2.17
80	81	5.637127	TGATATGATGCATGTTGGAGGATT	58.363	37.500	2.46	0.00	0.00	3.01
81	82	5.251182	TGATATGATGCATGTTGGAGGAT	57.749	39.130	2.46	0.00	0.00	3.24
82	83	4.710313	TGATATGATGCATGTTGGAGGA	57.290	40.909	2.46	0.00	0.00	3.71
83	84	5.007682	TGATGATATGATGCATGTTGGAGG	58.992	41.667	2.46	0.00	0.00	4.30
84	85	6.569179	TTGATGATATGATGCATGTTGGAG	57.431	37.500	2.46	0.00	0.00	3.86
85	86	7.533289	AATTGATGATATGATGCATGTTGGA	57.467	32.000	2.46	0.00	0.00	3.53
86	87	9.869757	ATAAATTGATGATATGATGCATGTTGG	57.130	29.630	2.46	0.00	0.00	3.77
130	131	9.171877	GGAGAAAATACATTCAAGATGAACTCT	57.828	33.333	0.00	0.00	39.45	3.24
131	132	8.950210	TGGAGAAAATACATTCAAGATGAACTC	58.050	33.333	0.00	0.00	39.45	3.01
132	133	8.868522	TGGAGAAAATACATTCAAGATGAACT	57.131	30.769	0.00	0.00	39.45	3.01
133	134	9.912634	TTTGGAGAAAATACATTCAAGATGAAC	57.087	29.630	0.00	0.00	39.45	3.18
134	135	9.912634	GTTTGGAGAAAATACATTCAAGATGAA	57.087	29.630	0.00	0.00	41.09	2.57
139	140	8.870160	TGTTGTTTGGAGAAAATACATTCAAG	57.130	30.769	0.00	0.00	0.00	3.02
145	146	8.231692	TGAAGATGTTGTTTGGAGAAAATACA	57.768	30.769	0.00	0.00	32.87	2.29
146	147	8.567948	TCTGAAGATGTTGTTTGGAGAAAATAC	58.432	33.333	0.00	0.00	0.00	1.89
148	149	7.587037	TCTGAAGATGTTGTTTGGAGAAAAT	57.413	32.000	0.00	0.00	0.00	1.82
151	152	4.516698	GCTCTGAAGATGTTGTTTGGAGAA	59.483	41.667	0.00	0.00	0.00	2.87
154	155	3.819368	TGCTCTGAAGATGTTGTTTGGA	58.181	40.909	0.00	0.00	0.00	3.53
155	156	4.458295	AGATGCTCTGAAGATGTTGTTTGG	59.542	41.667	0.00	0.00	0.00	3.28
156	157	5.391736	GGAGATGCTCTGAAGATGTTGTTTG	60.392	44.000	0.00	0.00	0.00	2.93
157	158	4.699257	GGAGATGCTCTGAAGATGTTGTTT	59.301	41.667	0.00	0.00	0.00	2.83
158	159	4.260170	GGAGATGCTCTGAAGATGTTGTT	58.740	43.478	0.00	0.00	0.00	2.83
159	160	3.262660	TGGAGATGCTCTGAAGATGTTGT	59.737	43.478	0.00	0.00	0.00	3.32
160	161	3.870274	TGGAGATGCTCTGAAGATGTTG	58.130	45.455	0.00	0.00	0.00	3.33
161	162	4.564782	TTGGAGATGCTCTGAAGATGTT	57.435	40.909	0.00	0.00	0.00	2.71
163	164	6.099159	TCTATTGGAGATGCTCTGAAGATG	57.901	41.667	0.00	0.00	0.00	2.90
164	165	6.938698	ATCTATTGGAGATGCTCTGAAGAT	57.061	37.500	0.00	0.00	43.71	2.40
267	269	3.051392	GAGGCCGCGGTCCAATTTG	62.051	63.158	31.19	5.23	0.00	2.32
294	296	3.889196	TCGTGAGGTGTTGCATTTTAC	57.111	42.857	0.00	0.00	0.00	2.01
301	303	0.310543	TTTGCATCGTGAGGTGTTGC	59.689	50.000	0.00	0.00	46.24	4.17
302	304	2.995466	ATTTGCATCGTGAGGTGTTG	57.005	45.000	0.00	0.00	46.24	3.33
311	313	5.528870	TCTCGTGATGTATATTTGCATCGT	58.471	37.500	9.07	0.00	45.03	3.73
1035	1233	2.357034	TGCCTCACGCCGAAGAAC	60.357	61.111	0.00	0.00	36.24	3.01
1198	1398	0.173708	GCCCGACTCTCGATCTTTGT	59.826	55.000	0.00	0.00	43.74	2.83
1314	1521	0.252197	TCGTCTCCTCATCGGTCTCA	59.748	55.000	0.00	0.00	0.00	3.27
1330	1537	1.741770	GAGCAAACCTCGCCATCGT	60.742	57.895	0.00	0.00	36.96	3.73
1369	1576	4.466370	CCAATAGTAATCCATCTCGGCCTA	59.534	45.833	0.00	0.00	33.14	3.93
1383	1590	2.737359	CGCCTCACGCTTCCAATAGTAA	60.737	50.000	0.00	0.00	34.21	2.24
1389	1596	2.048222	CTCGCCTCACGCTTCCAA	60.048	61.111	0.00	0.00	43.23	3.53
1403	1611	1.449246	CCCCTTCTGCTTCTGCTCG	60.449	63.158	0.00	0.00	40.48	5.03
1457	1666	2.043227	GAAGAGGACTCGATGGGGATT	58.957	52.381	0.00	0.00	34.09	3.01
1778	2059	6.739331	ACTGGAAATGTAAAATTTGGACCA	57.261	33.333	0.00	0.00	0.00	4.02
1879	2160	5.128171	GTGTAGTGTAGTGGATGTGGGATAA	59.872	44.000	0.00	0.00	0.00	1.75
2070	2359	9.933723	CCTCATCTTTTTAAACTTTGATTGGAT	57.066	29.630	0.00	0.00	0.00	3.41
2084	2373	7.537596	TTTGCTTGAATCCCTCATCTTTTTA	57.462	32.000	0.00	0.00	32.78	1.52
2153	2443	7.401246	AGAGAGAAACATAAGCTCCTTCAATT	58.599	34.615	0.00	0.00	0.00	2.32
2158	2448	5.942826	CCAAAGAGAGAAACATAAGCTCCTT	59.057	40.000	0.00	0.00	0.00	3.36
2227	2517	3.012274	TCATCTCCTCCACTCTTCTCCTT	59.988	47.826	0.00	0.00	0.00	3.36
2233	2523	3.373001	CCTCTCTCATCTCCTCCACTCTT	60.373	52.174	0.00	0.00	0.00	2.85
2256	2546	4.806339	CCCCCTCGCCCCTCTCTT	62.806	72.222	0.00	0.00	0.00	2.85
2294	2584	4.371231	CCACCCCTCCCCCTCCTT	62.371	72.222	0.00	0.00	0.00	3.36

Based at the University of Bristol with support from BBSRC.

AutoCloner maintained by Alex Coulton.