AutoCloner

Multiple sequence alignment - TraesCS7A01G032600

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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	TraesCS7A01G032600	chr7A	100.000	4778	0	0	1	4778	13827478	13832255	0.000000e+00	8824.0
1	TraesCS7A01G032600	chr7A	81.698	1437	234	26	2439	3863	63778405	63779824	0.000000e+00	1170.0
2	TraesCS7A01G032600	chr7D	95.730	4778	157	16	9	4778	14585739	14590477	0.000000e+00	7649.0
3	TraesCS7A01G032600	chr7D	81.705	1044	169	22	2826	3863	59415803	59416830	0.000000e+00	850.0
4	TraesCS7A01G032600	chr7D	89.669	242	18	4	650	885	16644501	16644261	7.770000e-78	302.0
5	TraesCS7A01G032600	chr7D	88.966	145	11	2	746	885	16655511	16655367	1.770000e-39	174.0
6	TraesCS7A01G032600	chr4A	94.865	4265	198	13	527	4778	722300360	722296104	0.000000e+00	6643.0
7	TraesCS7A01G032600	chr4A	95.043	3389	150	11	831	4210	722336173	722332794	0.000000e+00	5312.0
8	TraesCS7A01G032600	chr4A	90.803	598	43	7	333	926	722300949	722300360	0.000000e+00	789.0
9	TraesCS7A01G032600	chr4A	95.789	285	11	1	4495	4778	722295037	722294753	4.360000e-125	459.0
10	TraesCS7A01G032600	chrUn	95.236	2267	78	7	1693	3946	307995664	307993415	0.000000e+00	3561.0
11	TraesCS7A01G032600	chrUn	91.056	928	78	2	768	1691	376985088	376984162	0.000000e+00	1249.0
12	TraesCS7A01G032600	chrUn	93.835	811	43	5	3974	4778	307993420	307992611	0.000000e+00	1214.0
13	TraesCS7A01G032600	chrUn	100.000	410	0	0	2855	3264	477740225	477739816	0.000000e+00	758.0
14	TraesCS7A01G032600	chrUn	93.900	459	23	3	4035	4489	475545259	475544802	0.000000e+00	688.0
15	TraesCS7A01G032600	chrUn	84.007	544	80	7	2872	3409	15425460	15424918	2.550000e-142	516.0
16	TraesCS7A01G032600	chrUn	84.007	544	80	7	2872	3409	15583075	15582533	2.550000e-142	516.0
17	TraesCS7A01G032600	chrUn	93.175	337	22	1	333	669	376985727	376985392	1.190000e-135	494.0
18	TraesCS7A01G032600	chrUn	95.789	285	11	1	4495	4778	335449095	335448811	4.360000e-125	459.0
19	TraesCS7A01G032600	chrUn	90.083	242	17	4	650	885	241758769	241758529	1.670000e-79	307.0
20	TraesCS7A01G032600	chrUn	88.298	94	8	3	687	778	376985407	376985315	5.060000e-20	110.0
21	TraesCS7A01G032600	chr3D	80.088	914	158	16	2872	3783	15372166	15371275	0.000000e+00	658.0
22	TraesCS7A01G032600	chr3D	84.982	273	38	3	2439	2708	15348906	15348634	1.690000e-69	274.0
23	TraesCS7A01G032600	chr3D	86.975	238	30	1	2472	2708	15372555	15372318	2.830000e-67	267.0
24	TraesCS7A01G032600	chr5B	78.275	939	160	31	2867	3787	704303033	704303945	8.980000e-157	564.0
25	TraesCS7A01G032600	chr5B	79.389	131	21	6	9	136	370472666	370472793	2.370000e-13	87.9
26	TraesCS7A01G032600	chr3A	85.714	273	36	3	2439	2708	20933789	20934061	7.830000e-73	285.0
27	TraesCS7A01G032600	chr3B	86.328	256	35	0	2450	2705	22511854	22512109	3.640000e-71	279.0
28	TraesCS7A01G032600	chr3B	84.982	273	38	3	2439	2708	22473345	22473073	1.690000e-69	274.0
29	TraesCS7A01G032600	chr3B	87.705	122	12	2	16	136	4388663	4388782	6.450000e-29	139.0
30	TraesCS7A01G032600	chr5D	81.231	325	57	4	3467	3790	558346234	558345913	4.740000e-65	259.0
31	TraesCS7A01G032600	chr6D	80.769	130	23	2	9	136	55939244	55939373	3.040000e-17	100.0
32	TraesCS7A01G032600	chr6D	79.032	124	19	6	13	134	456562258	456562140	1.430000e-10	78.7
33	TraesCS7A01G032600	chr6A	81.356	118	20	2	9	125	3331062	3331178	1.420000e-15	95.3
34	TraesCS7A01G032600	chr7B	91.803	61	4	1	13	73	368201791	368201732	3.060000e-12	84.2
35	TraesCS7A01G032600	chr2D	94.872	39	2	0	13	51	622863271	622863309	1.440000e-05	62.1

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	TraesCS7A01G032600	chr7A	13827478	13832255	4777	False	8824.000000	8824	100.0000	1	4778	1	chr7A.!!$F1	4777
1	TraesCS7A01G032600	chr7A	63778405	63779824	1419	False	1170.000000	1170	81.6980	2439	3863	1	chr7A.!!$F2	1424
2	TraesCS7A01G032600	chr7D	14585739	14590477	4738	False	7649.000000	7649	95.7300	9	4778	1	chr7D.!!$F1	4769
3	TraesCS7A01G032600	chr7D	59415803	59416830	1027	False	850.000000	850	81.7050	2826	3863	1	chr7D.!!$F2	1037
4	TraesCS7A01G032600	chr4A	722332794	722336173	3379	True	5312.000000	5312	95.0430	831	4210	1	chr4A.!!$R1	3379
5	TraesCS7A01G032600	chr4A	722294753	722300949	6196	True	2630.333333	6643	93.8190	333	4778	3	chr4A.!!$R2	4445
6	TraesCS7A01G032600	chrUn	307992611	307995664	3053	True	2387.500000	3561	94.5355	1693	4778	2	chrUn.!!$R7	3085
7	TraesCS7A01G032600	chrUn	376984162	376985727	1565	True	617.666667	1249	90.8430	333	1691	3	chrUn.!!$R8	1358
8	TraesCS7A01G032600	chrUn	15424918	15425460	542	True	516.000000	516	84.0070	2872	3409	1	chrUn.!!$R1	537
9	TraesCS7A01G032600	chrUn	15582533	15583075	542	True	516.000000	516	84.0070	2872	3409	1	chrUn.!!$R2	537
10	TraesCS7A01G032600	chr3D	15371275	15372555	1280	True	462.500000	658	83.5315	2472	3783	2	chr3D.!!$R2	1311
11	TraesCS7A01G032600	chr5B	704303033	704303945	912	False	564.000000	564	78.2750	2867	3787	1	chr5B.!!$F2	920

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	Hairpin	End Stability	Orientation
390	391	0.036388	GCAGAAAGGACACGGATGGA	60.036	55.000	0.00	0.00	3.41	F
1316	1730	0.338467	TTCAGGGCTGCCTCCTACTA	59.662	55.000	19.68	32.49	1.82	F
1578	1992	0.172578	CGAAGGTGTACTCGATGGCA	59.827	55.000	0.00	0.00	4.92	F
2540	2963	1.466167	CACATTCAGGACAAGGCTTCG	59.534	52.381	0.00	0.00	3.79	F

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability	Orientation
1458	1872	0.321919	GCAGCTTGTGGATGAGACCA	60.322	55.000	0.00	0.00	37.63	4.02	R
2279	2694	1.145571	AGCCACCCTGTCCAAGTTTA	58.854	50.000	0.00	0.00	0.00	2.01	R
3264	3712	3.261981	ACACCAAAACTGAAGACGTCT	57.738	42.857	13.58	13.58	0.00	4.18	R
4389	4866	1.671379	GAAGGGTGAGACAACGGGC	60.671	63.158	0.00	0.00	0.00	6.13	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
34	35	2.093764	GCTCCAGTGCTTGTAGTCATCT	60.094	50.000	0.00	0.00	0.00	2.90
62	63	2.711542	GTCCATGGACCTGGTTGTAAG	58.288	52.381	31.37	0.00	39.08	2.34
73	74	6.238566	GGACCTGGTTGTAAGTTTTGTTACTC	60.239	42.308	0.00	0.00	34.51	2.59
91	92	3.441101	ACTCCTGGTGTTCTATGTGCTA	58.559	45.455	0.00	0.00	0.00	3.49
92	93	3.195825	ACTCCTGGTGTTCTATGTGCTAC	59.804	47.826	0.00	0.00	0.00	3.58
100	101	4.568359	GTGTTCTATGTGCTACCATGACAG	59.432	45.833	0.00	0.00	0.00	3.51
104	105	4.895297	TCTATGTGCTACCATGACAGATGA	59.105	41.667	0.00	0.00	0.00	2.92
113	114	6.589523	GCTACCATGACAGATGATGAATAGAC	59.410	42.308	0.00	0.00	0.00	2.59
174	175	6.306987	AGGTCACACAGAGAAAAATACCAAT	58.693	36.000	0.00	0.00	0.00	3.16
226	227	3.634397	ACAATACCATGAGACACCCAG	57.366	47.619	0.00	0.00	0.00	4.45
230	231	0.905357	ACCATGAGACACCCAGCTAC	59.095	55.000	0.00	0.00	0.00	3.58
255	256	5.064962	CACTAGTGAAACCAACGGTTACAAA	59.935	40.000	18.45	0.00	46.20	2.83
260	261	5.286797	GTGAAACCAACGGTTACAAAAGAAC	59.713	40.000	0.00	0.00	46.20	3.01
292	293	2.749076	GACTCACCAAGTGCATGCAATA	59.251	45.455	24.58	4.45	38.74	1.90
351	352	3.833650	TGATGGGGTACGTTCTAAACAGA	59.166	43.478	0.00	0.00	0.00	3.41
360	361	5.717078	ACGTTCTAAACAGATGTGAGGTA	57.283	39.130	0.00	0.00	0.00	3.08
390	391	0.036388	GCAGAAAGGACACGGATGGA	60.036	55.000	0.00	0.00	0.00	3.41
410	411	5.886609	TGGAGACCCATTTGAATTCTTGTA	58.113	37.500	7.05	0.00	37.58	2.41
445	450	7.330262	CAATAGTTCCAAAGGCACCATTTTAT	58.670	34.615	0.00	0.00	0.00	1.40
451	456	5.777732	TCCAAAGGCACCATTTTATTGTACT	59.222	36.000	0.00	0.00	0.00	2.73
521	526	8.862325	ATAGTGACACAATAATTTCTTGACCA	57.138	30.769	8.59	1.22	0.00	4.02
592	597	0.618458	GGTGGATAGTGAAGTGCCCA	59.382	55.000	0.00	0.00	0.00	5.36
619	624	6.092259	GTCAAGACGCTATGTGGAAATACTTT	59.908	38.462	0.00	0.00	0.00	2.66
711	716	1.425412	AGTACAACATTGACGTCCGC	58.575	50.000	14.12	0.00	0.00	5.54
787	1195	1.701847	ACCTGCTGAAGACCAACTCAT	59.298	47.619	0.00	0.00	0.00	2.90
806	1214	4.151121	TCATTGATTCCAGAAACCAAGCA	58.849	39.130	0.00	0.00	0.00	3.91
931	1345	0.900182	TTCTCTTCTCCAGGCGAGCA	60.900	55.000	0.00	0.00	38.62	4.26
1004	1418	3.326006	TGAGAGAAGAGGAACAACATGCT	59.674	43.478	0.00	0.00	0.00	3.79
1025	1439	2.874648	TTCGAGCAAGGCATGGCGAT	62.875	55.000	14.30	4.06	34.54	4.58
1064	1478	1.968540	GCAGCCTCACACTGTTCCC	60.969	63.158	0.00	0.00	37.47	3.97
1105	1519	2.035704	TGCGACAACGTTAAGGTCCTTA	59.964	45.455	7.29	7.29	41.98	2.69
1107	1521	2.989166	CGACAACGTTAAGGTCCTTACC	59.011	50.000	11.09	3.36	39.27	2.85
1126	1540	1.229177	GCCACCCTCCCCAACAAAT	60.229	57.895	0.00	0.00	0.00	2.32
1191	1605	1.743391	CCCCGACACCGTATATGCA	59.257	57.895	0.00	0.00	0.00	3.96
1194	1608	1.602165	CCCGACACCGTATATGCACTC	60.602	57.143	0.00	0.00	0.00	3.51
1316	1730	0.338467	TTCAGGGCTGCCTCCTACTA	59.662	55.000	19.68	0.00	32.49	1.82
1320	1734	1.373059	GGCTGCCTCCTACTATGCC	59.627	63.158	12.43	0.00	0.00	4.40
1335	1749	5.489792	ACTATGCCGATTGTATCCTCATT	57.510	39.130	0.00	0.00	0.00	2.57
1343	1757	6.038271	GCCGATTGTATCCTCATTTACAACTT	59.962	38.462	0.00	0.00	40.15	2.66
1359	1773	3.070018	CAACTTCAAAGACATCCTCGCT	58.930	45.455	0.00	0.00	0.00	4.93
1362	1776	0.537188	TCAAAGACATCCTCGCTCCC	59.463	55.000	0.00	0.00	0.00	4.30
1377	1791	2.158900	CGCTCCCTCATTCACCAATAGT	60.159	50.000	0.00	0.00	0.00	2.12
1431	1845	4.008074	TGAGAGGTGGAATGTCAGAAAC	57.992	45.455	0.00	0.00	0.00	2.78
1458	1872	2.125912	GACGTGCCGCTCATCACT	60.126	61.111	0.00	0.00	0.00	3.41
1578	1992	0.172578	CGAAGGTGTACTCGATGGCA	59.827	55.000	0.00	0.00	0.00	4.92
1770	2184	3.019003	GCCGCTAGCTCCAACTCCA	62.019	63.158	13.93	0.00	38.99	3.86
1879	2293	8.018677	CCTGATTGGTTGTTATCGTATATGTC	57.981	38.462	0.00	0.00	0.00	3.06
1957	2371	3.670091	GCTGCAGCAACATTTCTCTTCTC	60.670	47.826	33.36	0.00	41.59	2.87
2123	2538	1.561542	AGAGGGATTGTGCCGATTCTT	59.438	47.619	0.00	0.00	30.73	2.52
2124	2539	1.672881	GAGGGATTGTGCCGATTCTTG	59.327	52.381	0.00	0.00	30.73	3.02
2139	2554	5.235186	CCGATTCTTGATCATGTAGGTGAAC	59.765	44.000	8.33	0.00	34.23	3.18
2215	2630	5.436175	ACTAGTTTGGCAAGGCAAAAATTT	58.564	33.333	21.08	11.07	32.93	1.82
2412	2827	7.038373	ACAAAGGAGCCCACATTTATAACAATT	60.038	33.333	0.00	0.00	0.00	2.32
2422	2837	8.966868	CCACATTTATAACAATTGTTAGGAGGT	58.033	33.333	29.25	22.11	42.94	3.85
2540	2963	1.466167	CACATTCAGGACAAGGCTTCG	59.534	52.381	0.00	0.00	0.00	3.79
2840	3276	6.346838	GCACAAATTTTGATCAGTTAACCTGC	60.347	38.462	15.81	6.65	41.25	4.85
2853	3289	5.354234	CAGTTAACCTGCCGTATTTCTCATT	59.646	40.000	0.88	0.00	33.59	2.57
3264	3712	6.183360	CGGAGGGTGTCTTCTCTATTAAATCA	60.183	42.308	0.00	0.00	0.00	2.57
3313	3761	7.923414	ATTTTTGAGATACTTAGCGGAAAGT	57.077	32.000	7.22	7.22	42.31	2.66
3792	4265	6.879400	TCCTAGATAGTTTTTCTCTCCTTGC	58.121	40.000	0.00	0.00	0.00	4.01
3817	4290	4.724399	ACTATGTTTGTGATGTCCCAACA	58.276	39.130	0.00	0.00	40.38	3.33
3868	4341	9.048446	GTGTCAAAGTATAAGTTTAAGTGGTCA	57.952	33.333	0.00	0.00	0.00	4.02
4028	4501	2.979813	GGAACACGCATCACATTGTTTC	59.020	45.455	0.00	0.00	32.34	2.78
4237	4710	2.817844	GAGGTTCATACAACCACCAACC	59.182	50.000	6.30	0.00	42.69	3.77
4386	4863	3.706373	AAGCCGCTGGATCACCGT	61.706	61.111	0.00	0.00	39.42	4.83
4389	4866	2.815211	CCGCTGGATCACCGTGTG	60.815	66.667	0.00	0.00	39.42	3.82
4456	4933	4.453136	GCCGAAAAAGTTACCACTGATACA	59.547	41.667	0.00	0.00	31.60	2.29
4490	4967	7.827701	TGACACAAAAGTATGGTGTTGTAAAA	58.172	30.769	0.00	0.00	45.09	1.52
4522	6351	8.717821	GCAATATAATAGCCACGAAGTCATAAA	58.282	33.333	0.00	0.00	41.61	1.40
4560	6389	9.471702	AAAAGATGTTGTCCAATTGATAGATCT	57.528	29.630	7.12	0.00	0.00	2.75
4571	6400	7.835682	TCCAATTGATAGATCTTGTGTTGGAAT	59.164	33.333	18.80	0.00	39.48	3.01
4583	6412	5.867903	TGTGTTGGAATTTTCATTCAGGT	57.132	34.783	0.00	0.00	40.77	4.00
4656	6485	9.424319	TGGATTAACTAATTGCTCTATTCGATC	57.576	33.333	0.00	0.00	0.00	3.69
4677	6507	4.715523	GCCGGTTGGTAGCTGCCA	62.716	66.667	20.78	20.78	37.67	4.92
4702	6532	2.611974	AATTGTTTCATCGACACCGC	57.388	45.000	0.00	0.00	35.37	5.68

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
10	11	2.432456	TACAAGCACTGGAGCGCG	60.432	61.111	0.00	0.00	40.15	6.86
11	12	1.355066	GACTACAAGCACTGGAGCGC	61.355	60.000	0.00	0.00	40.05	5.92
62	63	6.485648	ACATAGAACACCAGGAGTAACAAAAC	59.514	38.462	0.00	0.00	0.00	2.43
73	74	2.236146	TGGTAGCACATAGAACACCAGG	59.764	50.000	0.00	0.00	32.47	4.45
91	92	6.744175	AGTCTATTCATCATCTGTCATGGT	57.256	37.500	0.00	0.00	0.00	3.55
92	93	9.205719	CTTTAGTCTATTCATCATCTGTCATGG	57.794	37.037	0.00	0.00	0.00	3.66
104	105	9.507329	TTGCAAGAGAAACTTTAGTCTATTCAT	57.493	29.630	0.00	0.00	36.61	2.57
174	175	2.096819	GCTGAAACTTCGGTGTCAAACA	59.903	45.455	0.47	0.00	41.18	2.83
226	227	2.735134	CGTTGGTTTCACTAGTGGTAGC	59.265	50.000	22.48	18.53	0.00	3.58
230	231	2.249844	ACCGTTGGTTTCACTAGTGG	57.750	50.000	22.48	5.82	27.29	4.00
255	256	2.104111	TGAGTCACATGGGTTCGTTCTT	59.896	45.455	0.00	0.00	0.00	2.52
260	261	0.034756	TGGTGAGTCACATGGGTTCG	59.965	55.000	24.20	0.00	35.86	3.95
292	293	9.723601	ATGGTTTCAATTTATTTGCATAGTTGT	57.276	25.926	0.00	0.00	35.16	3.32
351	352	5.717178	TCTGCTAGAAGTTTCTACCTCACAT	59.283	40.000	0.00	0.00	38.70	3.21
360	361	5.301555	GTGTCCTTTCTGCTAGAAGTTTCT	58.698	41.667	0.00	0.00	35.37	2.52
390	391	4.700213	CGGTACAAGAATTCAAATGGGTCT	59.300	41.667	8.44	0.00	0.00	3.85
410	411	3.692370	GAACTATTGGCCGGCCGGT	62.692	63.158	42.53	30.83	39.42	5.28
445	450	9.669353	CGACTGACTTACTAGTTAAAAGTACAA	57.331	33.333	9.07	0.02	33.72	2.41
451	456	7.042797	ACCACGACTGACTTACTAGTTAAAA	57.957	36.000	0.00	0.00	33.84	1.52
521	526	4.329545	ACCATTGCGTGCCGGTCT	62.330	61.111	1.90	0.00	0.00	3.85
592	597	3.678056	TTCCACATAGCGTCTTGACTT	57.322	42.857	0.00	0.00	0.00	3.01
758	763	3.462021	GTCTTCAGCAGGTATGGTCATC	58.538	50.000	0.00	0.00	34.07	2.92
771	1179	4.142513	GGAATCAATGAGTTGGTCTTCAGC	60.143	45.833	0.00	0.00	35.99	4.26
787	1195	6.855763	ATAATGCTTGGTTTCTGGAATCAA	57.144	33.333	0.00	0.00	0.00	2.57
806	1214	7.716799	TGGAACTAATCAAGGCAACAATAAT	57.283	32.000	0.00	0.00	41.41	1.28
907	1321	1.269309	CGCCTGGAGAAGAGAATACCG	60.269	57.143	0.00	0.00	0.00	4.02
908	1322	2.032620	TCGCCTGGAGAAGAGAATACC	58.967	52.381	0.00	0.00	0.00	2.73
931	1345	7.370383	CACTTATTTAACAGCAAGTCACCATT	58.630	34.615	0.00	0.00	0.00	3.16
1004	1418	2.334946	GCCATGCCTTGCTCGAACA	61.335	57.895	0.00	0.00	0.00	3.18
1025	1439	2.961741	CTGAGTAGGAGCAGCAGGATTA	59.038	50.000	0.00	0.00	0.00	1.75
1107	1521	3.801068	TTTGTTGGGGAGGGTGGCG	62.801	63.158	0.00	0.00	0.00	5.69
1126	1540	1.089978	TGTACTGGGGAAGAGGAGGA	58.910	55.000	0.00	0.00	0.00	3.71
1316	1730	5.620206	TGTAAATGAGGATACAATCGGCAT	58.380	37.500	0.00	0.00	41.41	4.40
1320	1734	8.196802	TGAAGTTGTAAATGAGGATACAATCG	57.803	34.615	2.16	0.00	42.21	3.34
1335	1749	4.451096	GCGAGGATGTCTTTGAAGTTGTAA	59.549	41.667	0.00	0.00	0.00	2.41
1343	1757	0.537188	GGGAGCGAGGATGTCTTTGA	59.463	55.000	0.00	0.00	0.00	2.69
1359	1773	5.277250	TCTGTACTATTGGTGAATGAGGGA	58.723	41.667	0.00	0.00	0.00	4.20
1362	1776	6.878317	TCCTTCTGTACTATTGGTGAATGAG	58.122	40.000	0.00	0.00	0.00	2.90
1377	1791	3.686016	GCCACCATTTTCTCCTTCTGTA	58.314	45.455	0.00	0.00	0.00	2.74
1458	1872	0.321919	GCAGCTTGTGGATGAGACCA	60.322	55.000	0.00	0.00	37.63	4.02
1488	1902	3.076092	CTGGCTGCCTTCTCCACT	58.924	61.111	21.03	0.00	0.00	4.00
1770	2184	3.201266	TGGACTTACTCTTGTGTTGGGTT	59.799	43.478	0.00	0.00	0.00	4.11
1879	2293	3.401033	TGTTCATACGCCCTGATATGG	57.599	47.619	0.00	0.00	30.98	2.74
2123	2538	5.163374	CCTCATCAGTTCACCTACATGATCA	60.163	44.000	0.00	0.00	0.00	2.92
2124	2539	5.163364	ACCTCATCAGTTCACCTACATGATC	60.163	44.000	0.00	0.00	0.00	2.92
2139	2554	5.814705	GTCTTGATCCTTGTAACCTCATCAG	59.185	44.000	0.00	0.00	0.00	2.90
2215	2630	5.163248	TGGAAGTCAAACACCATGAACTCTA	60.163	40.000	0.00	0.00	0.00	2.43
2279	2694	1.145571	AGCCACCCTGTCCAAGTTTA	58.854	50.000	0.00	0.00	0.00	2.01
2412	2827	7.174253	CACTTTGCACTATAAAACCTCCTAACA	59.826	37.037	0.00	0.00	0.00	2.41
2422	2837	5.278758	GGCACTTCCACTTTGCACTATAAAA	60.279	40.000	0.00	0.00	38.04	1.52
2490	2913	8.870075	AAGTCTTTTAACTGCTATCTCCAATT	57.130	30.769	0.00	0.00	0.00	2.32
2540	2963	8.100508	AGCTGGACTTCATTTTTAAACTCTAC	57.899	34.615	0.00	0.00	0.00	2.59
2853	3289	8.402798	ACACATCAGACAAACATTGGTATAAA	57.597	30.769	0.00	0.00	34.12	1.40
3264	3712	3.261981	ACACCAAAACTGAAGACGTCT	57.738	42.857	13.58	13.58	0.00	4.18
3442	3915	9.556030	GCAGTTTTAAGGTTATGTTATGTCTTC	57.444	33.333	0.00	0.00	0.00	2.87
3444	3917	8.630054	TGCAGTTTTAAGGTTATGTTATGTCT	57.370	30.769	0.00	0.00	0.00	3.41
3445	3918	9.685828	TTTGCAGTTTTAAGGTTATGTTATGTC	57.314	29.630	0.00	0.00	0.00	3.06
3446	3919	9.471084	GTTTGCAGTTTTAAGGTTATGTTATGT	57.529	29.630	0.00	0.00	0.00	2.29
3447	3920	9.469807	TGTTTGCAGTTTTAAGGTTATGTTATG	57.530	29.630	0.00	0.00	0.00	1.90
3448	3921	9.691362	CTGTTTGCAGTTTTAAGGTTATGTTAT	57.309	29.630	0.00	0.00	37.92	1.89
3792	4265	6.429692	TGTTGGGACATCACAAACATAGTAAG	59.570	38.462	0.00	0.00	41.48	2.34
3868	4341	9.651913	ACAACATAGTCTGTGAAAACAAAAATT	57.348	25.926	3.27	0.00	38.39	1.82
3872	4345	6.529829	GCAACAACATAGTCTGTGAAAACAAA	59.470	34.615	3.27	0.00	38.39	2.83
3874	4347	5.356751	AGCAACAACATAGTCTGTGAAAACA	59.643	36.000	3.27	0.00	38.39	2.83
3948	4421	8.827177	TGCTATAGATAAACCAATAAACCTCG	57.173	34.615	3.21	0.00	0.00	4.63
4077	4550	6.208988	ACTCGAGTCAGCTTATGATAAACA	57.791	37.500	13.58	0.00	40.92	2.83
4237	4710	8.633075	AACATCATTTACTTTTGTTGTCTGTG	57.367	30.769	0.00	0.00	0.00	3.66
4386	4863	2.110213	GGTGAGACAACGGGCACA	59.890	61.111	0.00	0.00	33.09	4.57
4389	4866	1.671379	GAAGGGTGAGACAACGGGC	60.671	63.158	0.00	0.00	0.00	6.13
4456	4933	8.030692	CACCATACTTTTGTGTCAAATCATCAT	58.969	33.333	0.00	0.00	0.00	2.45
4490	4967	8.413229	ACTTCGTGGCTATTATATTGCAATTTT	58.587	29.630	18.75	8.46	32.56	1.82
4493	4971	6.710295	TGACTTCGTGGCTATTATATTGCAAT	59.290	34.615	17.56	17.56	32.56	3.56
4560	6389	6.047870	CACCTGAATGAAAATTCCAACACAA	58.952	36.000	0.00	0.00	0.00	3.33
4571	6400	9.567776	TGAAATAACTACTCACCTGAATGAAAA	57.432	29.630	0.00	0.00	0.00	2.29
4656	6485	3.717294	AGCTACCAACCGGCAGGG	61.717	66.667	16.37	10.99	43.47	4.45
4702	6532	6.250527	GTCAATAAAATGGAAACCGTCAATCG	59.749	38.462	0.00	0.00	39.52	3.34

Based at the University of Bristol with support from BBSRC.

AutoCloner maintained by Alex Coulton.