AutoCloner

Multiple sequence alignment - TraesCS1A01G428200

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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	TraesCS1A01G428200	chr1A	100.000	2825	0	0	1	2825	582228481	582225657	0.000000e+00	5217.0
1	TraesCS1A01G428200	chr1A	80.637	377	63	7	694	1062	582295604	582295230	1.660000e-72	283.0
2	TraesCS1A01G428200	chr1A	76.364	605	82	35	516	1062	582415886	582415285	4.640000e-68	268.0
3	TraesCS1A01G428200	chr1A	77.726	431	66	19	626	1053	582242266	582241863	1.310000e-58	237.0
4	TraesCS1A01G428200	chr1A	83.613	238	32	6	596	826	582282218	582281981	1.700000e-52	217.0
5	TraesCS1A01G428200	chr1A	81.319	273	37	6	553	819	582259745	582259481	2.850000e-50	209.0
6	TraesCS1A01G428200	chr1A	94.000	50	2	1	2200	2249	582226000	582225952	1.090000e-09	75.0
7	TraesCS1A01G428200	chr1A	94.000	50	2	1	2482	2530	582226282	582226233	1.090000e-09	75.0
8	TraesCS1A01G428200	chr1B	86.610	1658	155	34	903	2535	675321018	675319403	0.000000e+00	1770.0
9	TraesCS1A01G428200	chr1B	93.980	299	18	0	2527	2825	675318833	675318535	1.190000e-123	453.0
10	TraesCS1A01G428200	chr1B	82.751	458	30	24	222	673	675321461	675321047	2.070000e-96	363.0
11	TraesCS1A01G428200	chr1B	77.593	540	60	35	429	923	675555698	675555175	1.290000e-68	270.0
12	TraesCS1A01G428200	chr1B	87.892	223	16	4	1	221	675321719	675321506	4.670000e-63	252.0
13	TraesCS1A01G428200	chr1B	82.642	265	45	1	624	887	675549906	675549642	1.690000e-57	233.0
14	TraesCS1A01G428200	chr1B	75.758	462	76	21	603	1062	675364684	675364257	1.720000e-47	200.0
15	TraesCS1A01G428200	chr1B	89.474	152	16	0	1	152	675322691	675322540	2.870000e-45	193.0
16	TraesCS1A01G428200	chr1B	94.000	50	2	1	2200	2249	675319456	675319408	1.090000e-09	75.0
17	TraesCS1A01G428200	chr1B	94.000	50	2	1	2482	2530	675319758	675319709	1.090000e-09	75.0
18	TraesCS1A01G428200	chr1B	97.059	34	1	0	1223	1256	675091953	675091920	1.090000e-04	58.4
19	TraesCS1A01G428200	chr1D	88.742	1288	72	35	182	1453	485037872	485036642	0.000000e+00	1507.0
20	TraesCS1A01G428200	chr1D	97.041	845	24	1	1448	2291	485031449	485030605	0.000000e+00	1421.0
21	TraesCS1A01G428200	chr1D	77.138	643	130	14	1392	2022	484822012	484822649	9.620000e-95	357.0
22	TraesCS1A01G428200	chr1D	76.320	701	89	48	427	1067	485103281	485102598	1.270000e-78	303.0
23	TraesCS1A01G428200	chr1D	80.159	378	65	8	693	1062	485093114	485092739	9.970000e-70	274.0
24	TraesCS1A01G428200	chr1D	76.242	463	74	18	602	1062	485043558	485043130	2.200000e-51	213.0

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	TraesCS1A01G428200	chr1A	582225657	582228481	2824	True	1789.000000	5217	96.000000	1	2825	3	chr1A.!!$R6	2824
1	TraesCS1A01G428200	chr1A	582415285	582415886	601	True	268.000000	268	76.364000	516	1062	1	chr1A.!!$R5	546
2	TraesCS1A01G428200	chr1B	675318535	675322691	4156	True	454.428571	1770	89.815286	1	2825	7	chr1B.!!$R5	2824
3	TraesCS1A01G428200	chr1B	675555175	675555698	523	True	270.000000	270	77.593000	429	923	1	chr1B.!!$R4	494
4	TraesCS1A01G428200	chr1D	485036642	485037872	1230	True	1507.000000	1507	88.742000	182	1453	1	chr1D.!!$R2	1271
5	TraesCS1A01G428200	chr1D	485030605	485031449	844	True	1421.000000	1421	97.041000	1448	2291	1	chr1D.!!$R1	843
6	TraesCS1A01G428200	chr1D	484822012	484822649	637	False	357.000000	357	77.138000	1392	2022	1	chr1D.!!$F1	630
7	TraesCS1A01G428200	chr1D	485102598	485103281	683	True	303.000000	303	76.320000	427	1067	1	chr1D.!!$R5	640

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
506	1534	0.038890	GCTGCCCCCTTCTTCTTCTT	59.961	55.0	0.00	0.00	0.00	2.52	F
1275	2367	0.320247	CAGAGAGCGGTGGCCATATC	60.320	60.0	9.72	4.93	41.24	1.63	F

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability	Orientation
1516	2608	0.107654	AGAGCCCAAACCGATAGCAC	60.108	55.000	0.00	0.0	0.0	4.40	R
2382	3499	1.067565	TGAAGAGCTAGCAAGTGACCG	60.068	52.381	18.83	0.0	0.0	4.79	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
82	1055	1.029681	AAAACTGTGGTTTCTCGCCC	58.970	50.000	0.00	0.00	43.90	6.13
84	1057	2.742372	CTGTGGTTTCTCGCCCGG	60.742	66.667	0.00	0.00	0.00	5.73
87	1060	1.004679	GTGGTTTCTCGCCCGGTAA	60.005	57.895	0.00	0.00	0.00	2.85
107	1080	8.485591	CCGGTAAATATTACTTGTTCGATCTTC	58.514	37.037	0.00	0.00	0.00	2.87
123	1096	0.326264	CTTCCCCCACTCTTGACAGG	59.674	60.000	0.00	0.00	0.00	4.00
124	1097	0.401395	TTCCCCCACTCTTGACAGGT	60.401	55.000	0.00	0.00	0.00	4.00
140	1113	9.739276	TCTTGACAGGTACTCAAATAAATTGAT	57.261	29.630	0.00	0.00	46.62	2.57
147	1120	9.247861	AGGTACTCAAATAAATTGATTGAAGCT	57.752	29.630	0.00	0.00	46.62	3.74
157	1130	7.958053	AAATTGATTGAAGCTGAAAGGAAAG	57.042	32.000	0.00	0.00	0.00	2.62
158	1131	6.906157	ATTGATTGAAGCTGAAAGGAAAGA	57.094	33.333	0.00	0.00	0.00	2.52
159	1132	6.906157	TTGATTGAAGCTGAAAGGAAAGAT	57.094	33.333	0.00	0.00	0.00	2.40
161	1134	8.408043	TTGATTGAAGCTGAAAGGAAAGATTA	57.592	30.769	0.00	0.00	0.00	1.75
162	1135	8.585471	TGATTGAAGCTGAAAGGAAAGATTAT	57.415	30.769	0.00	0.00	0.00	1.28
163	1136	9.685276	TGATTGAAGCTGAAAGGAAAGATTATA	57.315	29.630	0.00	0.00	0.00	0.98
253	1272	1.680522	GCATCTTGGGCCGAGAGAGA	61.681	60.000	26.94	11.88	0.00	3.10
254	1273	1.047002	CATCTTGGGCCGAGAGAGAT	58.953	55.000	26.94	13.49	0.00	2.75
255	1274	1.415659	CATCTTGGGCCGAGAGAGATT	59.584	52.381	26.94	8.75	0.00	2.40
256	1275	1.115467	TCTTGGGCCGAGAGAGATTC	58.885	55.000	19.96	0.00	0.00	2.52
258	1277	0.325671	TTGGGCCGAGAGAGATTCCT	60.326	55.000	0.00	0.00	0.00	3.36
259	1278	0.757188	TGGGCCGAGAGAGATTCCTC	60.757	60.000	0.00	0.00	39.72	3.71
320	1344	3.355378	TCCAATCCAAATACAGCACCTG	58.645	45.455	0.00	0.00	37.52	4.00
323	1347	3.719268	ATCCAAATACAGCACCTGTCA	57.281	42.857	0.48	0.00	41.21	3.58
329	1353	1.995376	TACAGCACCTGTCACTCTCA	58.005	50.000	0.48	0.00	41.21	3.27
367	1392	2.359230	GACAGCAGCCTCCACCAC	60.359	66.667	0.00	0.00	0.00	4.16
369	1394	3.957586	CAGCAGCCTCCACCACCA	61.958	66.667	0.00	0.00	0.00	4.17
370	1395	3.958860	AGCAGCCTCCACCACCAC	61.959	66.667	0.00	0.00	0.00	4.16
372	1397	3.569210	CAGCCTCCACCACCACCA	61.569	66.667	0.00	0.00	0.00	4.17
373	1398	3.252284	AGCCTCCACCACCACCAG	61.252	66.667	0.00	0.00	0.00	4.00
402	1427	0.671781	CTCTGTTCCCCGCACTCTTG	60.672	60.000	0.00	0.00	0.00	3.02
494	1522	2.203480	TGTGAGGTTTGCTGCCCC	60.203	61.111	0.00	0.00	0.00	5.80
496	1524	3.185203	TGAGGTTTGCTGCCCCCT	61.185	61.111	0.00	0.00	0.00	4.79
502	1530	0.540597	GTTTGCTGCCCCCTTCTTCT	60.541	55.000	0.00	0.00	0.00	2.85
503	1531	0.188342	TTTGCTGCCCCCTTCTTCTT	59.812	50.000	0.00	0.00	0.00	2.52
504	1532	0.251341	TTGCTGCCCCCTTCTTCTTC	60.251	55.000	0.00	0.00	0.00	2.87
505	1533	1.136329	TGCTGCCCCCTTCTTCTTCT	61.136	55.000	0.00	0.00	0.00	2.85
506	1534	0.038890	GCTGCCCCCTTCTTCTTCTT	59.961	55.000	0.00	0.00	0.00	2.52
507	1535	1.952839	GCTGCCCCCTTCTTCTTCTTC	60.953	57.143	0.00	0.00	0.00	2.87
508	1536	1.632920	CTGCCCCCTTCTTCTTCTTCT	59.367	52.381	0.00	0.00	0.00	2.85
509	1537	2.040947	CTGCCCCCTTCTTCTTCTTCTT	59.959	50.000	0.00	0.00	0.00	2.52
510	1538	2.040412	TGCCCCCTTCTTCTTCTTCTTC	59.960	50.000	0.00	0.00	0.00	2.87
511	1539	2.307392	GCCCCCTTCTTCTTCTTCTTCT	59.693	50.000	0.00	0.00	0.00	2.85
512	1540	3.245087	GCCCCCTTCTTCTTCTTCTTCTT	60.245	47.826	0.00	0.00	0.00	2.52
535	1563	8.798402	TCTTCTTCTTCTTCTTCTAATCTTCGT	58.202	33.333	0.00	0.00	0.00	3.85
538	1566	7.394923	TCTTCTTCTTCTTCTAATCTTCGTCCT	59.605	37.037	0.00	0.00	0.00	3.85
965	2047	1.063174	CATTCTCCTAAACTGCTGCGC	59.937	52.381	0.00	0.00	0.00	6.09
1003	2085	2.355010	AGGCTGGAATAGAACCATGC	57.645	50.000	0.00	0.00	36.79	4.06
1109	2201	2.689658	TCCCTACATCTACATGGTGGG	58.310	52.381	0.00	4.82	43.08	4.61
1134	2226	1.741706	CATGTAACCTGGAGCTGCAAG	59.258	52.381	9.92	5.71	0.00	4.01
1267	2359	1.363744	GATTTCCACAGAGAGCGGTG	58.636	55.000	0.00	0.00	39.51	4.94
1275	2367	0.320247	CAGAGAGCGGTGGCCATATC	60.320	60.000	9.72	4.93	41.24	1.63
1295	2387	1.832883	GTGGCATATGGTGGTGAACA	58.167	50.000	4.56	0.00	0.00	3.18
1297	2389	2.094752	GTGGCATATGGTGGTGAACAAC	60.095	50.000	4.56	0.00	37.28	3.32
1338	2430	7.924358	TTATACCCTGTATTTCAGAGCCTAA	57.076	36.000	0.00	0.00	46.27	2.69
1352	2444	3.839490	AGAGCCTAAGATCATGGAGATGG	59.161	47.826	0.00	0.00	37.00	3.51
1365	2457	1.349357	GGAGATGGCAGGTTCTATCCC	59.651	57.143	0.00	0.00	0.00	3.85
1367	2459	2.038295	GAGATGGCAGGTTCTATCCCAG	59.962	54.545	0.00	0.00	0.00	4.45
1386	2478	2.789323	GGGGGAGACTAATACCCTCA	57.211	55.000	0.00	0.00	43.33	3.86
1493	2585	3.006537	CAGGGACACTTATACGGTATGGG	59.993	52.174	10.86	5.91	0.00	4.00
1516	2608	4.849926	GCATAGAGCATGTTAATGATTGCG	59.150	41.667	8.12	0.00	44.79	4.85
1532	2624	3.098555	CGTGCTATCGGTTTGGGC	58.901	61.111	0.00	0.00	0.00	5.36
1546	2638	3.885901	GGTTTGGGCTCTCAAGGATTATC	59.114	47.826	0.00	0.00	0.00	1.75
1548	2640	2.057922	TGGGCTCTCAAGGATTATCCC	58.942	52.381	7.76	0.00	37.19	3.85
1732	2824	8.515414	CGTATGATATGGATAGTCAGAAACTGA	58.485	37.037	0.00	0.00	39.11	3.41
1761	2853	2.668457	CTGCACTCTTGACGATTACCAC	59.332	50.000	0.00	0.00	0.00	4.16
2129	3230	5.123186	TGTTGTAGTCACTTGTTTGTTCCTG	59.877	40.000	0.00	0.00	0.00	3.86
2291	3392	2.175202	TGGTGCACTGGAAAGTGTTTT	58.825	42.857	17.98	0.00	41.53	2.43
2378	3495	8.984891	TTTTTGATTCCTGTGCATACTAATTG	57.015	30.769	0.00	0.00	0.00	2.32
2382	3499	2.945008	TCCTGTGCATACTAATTGCTGC	59.055	45.455	0.00	0.00	40.77	5.25
2383	3500	2.286595	CCTGTGCATACTAATTGCTGCG	60.287	50.000	0.00	0.00	40.77	5.18
2392	3509	0.521291	TAATTGCTGCGGTCACTTGC	59.479	50.000	0.00	0.00	0.00	4.01
2446	3563	8.954834	ATGGGCATAATGTTTGGAATTATCTA	57.045	30.769	0.00	0.00	29.65	1.98
2462	3579	9.336171	GGAATTATCTACATTTTCAGCTCTCTT	57.664	33.333	0.00	0.00	0.00	2.85
2469	3586	6.112927	ACATTTTCAGCTCTCTTTCTCTCT	57.887	37.500	0.00	0.00	0.00	3.10
2557	4256	9.142515	TGATGCATTTGAAATTGTTATTCTCAC	57.857	29.630	0.00	0.00	0.00	3.51
2574	4273	9.709495	TTATTCTCACTTTTCATTTGAAATGGG	57.291	29.630	17.01	15.34	42.83	4.00
2590	4289	9.581289	TTTGAAATGGGATCTCTTTTTGTAGTA	57.419	29.630	7.80	0.00	0.00	1.82
2591	4290	9.581289	TTGAAATGGGATCTCTTTTTGTAGTAA	57.419	29.630	7.80	0.00	0.00	2.24
2624	4323	6.239858	CCTTGGGGTTGACTTTTTATTGGATT	60.240	38.462	0.00	0.00	0.00	3.01
2663	4362	2.930682	GTTCCTCTAGTGAAATCCGCAC	59.069	50.000	0.00	0.00	36.53	5.34
2664	4363	2.176045	TCCTCTAGTGAAATCCGCACA	58.824	47.619	0.00	0.00	38.70	4.57
2669	4368	1.167851	AGTGAAATCCGCACACATGG	58.832	50.000	0.00	0.00	38.70	3.66
2771	4470	1.479323	CCAAGTCAAATCTGGGCATGG	59.521	52.381	0.00	0.00	0.00	3.66
2775	4474	2.025037	AGTCAAATCTGGGCATGGCTAA	60.025	45.455	19.78	7.11	0.00	3.09
2792	4491	3.254166	GGCTAATAACTCATGCCATGTGG	59.746	47.826	11.11	5.50	42.79	4.17
2805	4504	3.818210	TGCCATGTGGTACTTTGTGTTAG	59.182	43.478	0.35	0.00	37.57	2.34

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
6	7	7.919091	GTGCTTCATTATCAATGTGTCATCATT	59.081	33.333	0.00	0.00	39.87	2.57
82	1055	8.485591	GGAAGATCGAACAAGTAATATTTACCG	58.514	37.037	0.00	0.00	0.00	4.02
84	1057	8.771766	GGGGAAGATCGAACAAGTAATATTTAC	58.228	37.037	0.00	0.00	0.00	2.01
87	1060	6.126594	TGGGGGAAGATCGAACAAGTAATATT	60.127	38.462	0.00	0.00	0.00	1.28
107	1080	0.613777	GTACCTGTCAAGAGTGGGGG	59.386	60.000	0.00	0.00	0.00	5.40
253	1272	4.971282	TGGACCTGATGATAACAGAGGAAT	59.029	41.667	7.60	0.00	37.54	3.01
254	1273	4.361783	TGGACCTGATGATAACAGAGGAA	58.638	43.478	7.60	0.00	37.54	3.36
255	1274	3.994317	TGGACCTGATGATAACAGAGGA	58.006	45.455	7.60	0.00	37.54	3.71
256	1275	4.970860	ATGGACCTGATGATAACAGAGG	57.029	45.455	0.00	0.00	37.54	3.69
258	1277	6.720309	TCAAAATGGACCTGATGATAACAGA	58.280	36.000	0.00	0.00	37.54	3.41
259	1278	7.423199	CATCAAAATGGACCTGATGATAACAG	58.577	38.462	13.67	0.00	46.14	3.16
260	1279	7.337480	CATCAAAATGGACCTGATGATAACA	57.663	36.000	13.67	0.00	46.14	2.41
340	1364	2.680339	GAGGCTGCTGTCTTTGGATTAC	59.320	50.000	0.00	0.00	0.00	1.89
341	1365	2.356125	GGAGGCTGCTGTCTTTGGATTA	60.356	50.000	0.00	0.00	0.00	1.75
367	1392	1.034838	AGAGTAGAGCGAGCTGGTGG	61.035	60.000	0.84	0.00	0.00	4.61
369	1394	0.322997	ACAGAGTAGAGCGAGCTGGT	60.323	55.000	0.84	0.00	0.00	4.00
370	1395	0.814457	AACAGAGTAGAGCGAGCTGG	59.186	55.000	0.84	0.00	0.00	4.85
371	1396	1.202245	GGAACAGAGTAGAGCGAGCTG	60.202	57.143	0.84	0.00	0.00	4.24
372	1397	1.099689	GGAACAGAGTAGAGCGAGCT	58.900	55.000	0.00	0.00	0.00	4.09
373	1398	0.101579	GGGAACAGAGTAGAGCGAGC	59.898	60.000	0.00	0.00	0.00	5.03
374	1399	0.741915	GGGGAACAGAGTAGAGCGAG	59.258	60.000	0.00	0.00	0.00	5.03
402	1427	4.475135	GGAGGCGAGCTGGAACCC	62.475	72.222	0.00	0.00	0.00	4.11
471	1497	0.947244	CAGCAAACCTCACACCTGAC	59.053	55.000	0.00	0.00	0.00	3.51
494	1522	8.150296	AGAAGAAGAAGAAGAAGAAGAAGAAGG	58.850	37.037	0.00	0.00	0.00	3.46
496	1524	9.541143	GAAGAAGAAGAAGAAGAAGAAGAAGAA	57.459	33.333	0.00	0.00	0.00	2.52
508	1536	9.632807	CGAAGATTAGAAGAAGAAGAAGAAGAA	57.367	33.333	0.00	0.00	0.00	2.52
509	1537	8.798402	ACGAAGATTAGAAGAAGAAGAAGAAGA	58.202	33.333	0.00	0.00	0.00	2.87
510	1538	8.980143	ACGAAGATTAGAAGAAGAAGAAGAAG	57.020	34.615	0.00	0.00	0.00	2.85
511	1539	8.030106	GGACGAAGATTAGAAGAAGAAGAAGAA	58.970	37.037	0.00	0.00	0.00	2.52
512	1540	7.394923	AGGACGAAGATTAGAAGAAGAAGAAGA	59.605	37.037	0.00	0.00	0.00	2.87
538	1566	1.075226	CTCCCGGATCCCTTCCTCA	60.075	63.158	0.73	0.00	42.99	3.86
1003	2085	3.122948	CACACGAAGTATTCCGGAACTTG	59.877	47.826	23.13	17.14	43.81	3.16
1041	2130	2.478989	CAGCACTGCCCAGATCTTG	58.521	57.895	1.69	0.00	0.00	3.02
1109	2201	0.811281	GCTCCAGGTTACATGTTGGC	59.189	55.000	2.30	0.00	0.00	4.52
1117	2209	1.807142	GAACTTGCAGCTCCAGGTTAC	59.193	52.381	4.95	0.00	35.50	2.50
1134	2226	3.517602	GGGGTTGAAACACAAACAGAAC	58.482	45.455	0.00	0.00	46.90	3.01
1257	2349	1.810606	CGATATGGCCACCGCTCTCT	61.811	60.000	8.16	0.00	34.44	3.10
1275	2367	0.732571	GTTCACCACCATATGCCACG	59.267	55.000	0.00	0.00	0.00	4.94
1320	2412	6.166984	TGATCTTAGGCTCTGAAATACAGG	57.833	41.667	0.00	0.00	45.76	4.00
1338	2430	1.817087	ACCTGCCATCTCCATGATCT	58.183	50.000	0.00	0.00	32.05	2.75
1352	2444	1.839894	CCCCTGGGATAGAACCTGC	59.160	63.158	16.20	0.00	37.50	4.85
1365	2457	2.090719	TGAGGGTATTAGTCTCCCCCTG	60.091	54.545	0.00	0.00	45.76	4.45
1367	2459	2.789323	TGAGGGTATTAGTCTCCCCC	57.211	55.000	0.00	0.00	41.95	5.40
1373	2465	9.490379	CCACTGTAAATATTGAGGGTATTAGTC	57.510	37.037	0.00	0.00	0.00	2.59
1386	2478	4.178540	CGTCCGTGTCCACTGTAAATATT	58.821	43.478	0.00	0.00	0.00	1.28
1493	2585	4.849926	CGCAATCATTAACATGCTCTATGC	59.150	41.667	0.00	0.00	40.59	3.14
1516	2608	0.107654	AGAGCCCAAACCGATAGCAC	60.108	55.000	0.00	0.00	0.00	4.40
1532	2624	3.969976	TCCACTGGGATAATCCTTGAGAG	59.030	47.826	0.00	0.00	38.64	3.20
1546	2638	0.478507	AAGGTCCACTTTCCACTGGG	59.521	55.000	0.00	0.00	35.35	4.45
1548	2640	4.642885	TGTTTTAAGGTCCACTTTCCACTG	59.357	41.667	0.00	0.00	40.64	3.66
1732	2824	2.987149	CGTCAAGAGTGCAGATAACGTT	59.013	45.455	5.88	5.88	0.00	3.99
1761	2853	0.670546	AAGGTCGGAGCGTTGACATG	60.671	55.000	0.96	0.00	36.83	3.21
2129	3230	1.337354	CCATTGTTTTTACCCCGCACC	60.337	52.381	0.00	0.00	0.00	5.01
2357	3473	5.297527	CAGCAATTAGTATGCACAGGAATCA	59.702	40.000	0.00	0.00	46.22	2.57
2378	3495	2.744768	GCTAGCAAGTGACCGCAGC	61.745	63.158	10.63	1.47	0.00	5.25
2382	3499	1.067565	TGAAGAGCTAGCAAGTGACCG	60.068	52.381	18.83	0.00	0.00	4.79
2383	3500	2.751166	TGAAGAGCTAGCAAGTGACC	57.249	50.000	18.83	0.00	0.00	4.02
2392	3509	6.115446	TCACATTTACCCAATGAAGAGCTAG	58.885	40.000	1.59	0.00	44.78	3.42
2446	3563	6.014327	AGAGAGAGAAAGAGAGCTGAAAATGT	60.014	38.462	0.00	0.00	0.00	2.71
2552	4251	6.975196	TCCCATTTCAAATGAAAAGTGAGA	57.025	33.333	11.98	1.96	45.81	3.27
2557	4256	9.498176	AAAAGAGATCCCATTTCAAATGAAAAG	57.502	29.630	11.98	8.17	45.81	2.27
2624	4323	3.773119	GGAACCTCCCTGTCTATACAACA	59.227	47.826	0.00	0.00	34.49	3.33
2663	4362	8.016694	TGACATCATCAATGGAACACCATGTG	62.017	42.308	2.42	4.41	42.78	3.21
2664	4363	6.040871	TGACATCATCAATGGAACACCATGT	61.041	40.000	2.42	0.00	42.78	3.21
2691	4390	8.409358	AGCAAAGTCACTAAAGGAACATATTT	57.591	30.769	0.00	0.00	0.00	1.40
2743	4442	4.706476	CCCAGATTTGACTTGGCTTCATTA	59.294	41.667	0.00	0.00	0.00	1.90
2747	4446	1.203287	GCCCAGATTTGACTTGGCTTC	59.797	52.381	0.00	0.00	42.85	3.86
2771	4470	3.885297	ACCACATGGCATGAGTTATTAGC	59.115	43.478	32.74	0.00	39.32	3.09
2775	4474	4.778213	AGTACCACATGGCATGAGTTAT	57.222	40.909	32.74	16.93	39.32	1.89
2792	4491	7.428472	GCTCAAAACTGAACTAACACAAAGTAC	59.572	37.037	0.00	0.00	0.00	2.73

Based at the University of Bristol with support from BBSRC.

AutoCloner maintained by Alex Coulton.