AutoCloner

Multiple sequence alignment - TraesCS7D01G112300

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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	TraesCS7D01G112300	chr7D	100.000	2300	0	0	1	2300	68915032	68912733	0.000000e+00	4248.0
1	TraesCS7D01G112300	chr7D	87.529	425	25	15	902	1307	68806059	68805644	1.240000e-127	466.0
2	TraesCS7D01G112300	chr7D	86.860	449	19	20	834	1242	68924347	68923899	1.240000e-127	466.0
3	TraesCS7D01G112300	chr7D	88.172	372	22	12	952	1304	66484750	66485118	7.600000e-115	424.0
4	TraesCS7D01G112300	chr7D	88.172	372	22	10	952	1304	68935177	68934809	7.600000e-115	424.0
5	TraesCS7D01G112300	chr7D	89.851	335	23	7	980	1310	66513513	66513840	9.830000e-114	420.0
6	TraesCS7D01G112300	chr7D	83.529	255	19	2	1	232	66540559	66540813	1.380000e-52	217.0
7	TraesCS7D01G112300	chr7D	82.812	256	19	4	1	232	66537238	66537492	3.000000e-49	206.0
8	TraesCS7D01G112300	chr7D	81.667	120	5	3	1334	1448	75271261	75271154	1.460000e-12	84.2
9	TraesCS7D01G112300	chr3D	95.678	856	34	3	1447	2299	503747529	503748384	0.000000e+00	1373.0
10	TraesCS7D01G112300	chr3D	94.399	857	45	3	1447	2300	191497074	191496218	0.000000e+00	1314.0
11	TraesCS7D01G112300	chr3D	92.155	854	61	6	1451	2300	3157191	3156340	0.000000e+00	1201.0
12	TraesCS7D01G112300	chr5D	94.854	855	41	3	1449	2300	460225865	460226719	0.000000e+00	1332.0
13	TraesCS7D01G112300	chr4B	94.626	856	43	3	1448	2300	635029592	635028737	0.000000e+00	1323.0
14	TraesCS7D01G112300	chr4D	93.412	850	42	5	1454	2300	260693315	260694153	0.000000e+00	1247.0
15	TraesCS7D01G112300	chr3A	92.991	856	56	4	1448	2300	467875468	467876322	0.000000e+00	1245.0
16	TraesCS7D01G112300	chr7B	92.523	856	59	5	1449	2300	374311456	374312310	0.000000e+00	1221.0
17	TraesCS7D01G112300	chr7B	92.693	479	23	7	977	1448	10174935	10174462	0.000000e+00	680.0
18	TraesCS7D01G112300	chr7B	88.352	352	36	5	382	731	10201100	10200752	3.530000e-113	418.0
19	TraesCS7D01G112300	chr7B	79.770	608	74	27	124	726	10235712	10235149	1.660000e-106	396.0
20	TraesCS7D01G112300	chr7B	85.202	223	22	7	372	593	7738063	7738275	3.850000e-53	219.0
21	TraesCS7D01G112300	chr7B	93.750	128	3	1	1321	1448	8446400	8446522	1.080000e-43	187.0
22	TraesCS7D01G112300	chr7B	81.333	225	25	11	672	889	8445842	8446056	1.410000e-37	167.0
23	TraesCS7D01G112300	chr7B	89.720	107	3	3	1	106	10205474	10205375	1.850000e-26	130.0
24	TraesCS7D01G112300	chr7B	85.366	123	13	3	115	232	10201242	10201120	3.100000e-24	122.0
25	TraesCS7D01G112300	chr2D	91.870	861	61	5	1448	2300	586288145	586287286	0.000000e+00	1194.0
26	TraesCS7D01G112300	chr7A	89.922	516	25	17	951	1446	74596510	74596002	6.930000e-180	640.0
27	TraesCS7D01G112300	chr7A	90.476	357	22	7	374	718	74598795	74598439	5.790000e-126	460.0
28	TraesCS7D01G112300	chr7A	84.369	499	35	19	834	1304	71118546	71119029	1.250000e-122	449.0
29	TraesCS7D01G112300	chr7A	83.685	521	31	26	834	1304	70894012	70894528	2.100000e-120	442.0
30	TraesCS7D01G112300	chr7A	89.008	373	20	13	953	1305	74610806	74610435	2.100000e-120	442.0
31	TraesCS7D01G112300	chr7A	80.886	361	33	13	952	1305	71110235	71110566	3.790000e-63	252.0
32	TraesCS7D01G112300	chr7A	86.574	216	19	6	372	586	70909489	70909695	1.780000e-56	230.0
33	TraesCS7D01G112300	chr7A	82.143	252	21	3	2	230	74599052	74598802	6.480000e-46	195.0
34	TraesCS7D01G112300	chr7A	97.436	39	1	0	1410	1448	79543731	79543693	1.470000e-07	67.6

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	TraesCS7D01G112300	chr7D	68912733	68915032	2299	True	4248.000000	4248	100.000000	1	2300	1	chr7D.!!$R2	2299
1	TraesCS7D01G112300	chr7D	66537238	66540813	3575	False	211.500000	217	83.170500	1	232	2	chr7D.!!$F3	231
2	TraesCS7D01G112300	chr3D	503747529	503748384	855	False	1373.000000	1373	95.678000	1447	2299	1	chr3D.!!$F1	852
3	TraesCS7D01G112300	chr3D	191496218	191497074	856	True	1314.000000	1314	94.399000	1447	2300	1	chr3D.!!$R2	853
4	TraesCS7D01G112300	chr3D	3156340	3157191	851	True	1201.000000	1201	92.155000	1451	2300	1	chr3D.!!$R1	849
5	TraesCS7D01G112300	chr5D	460225865	460226719	854	False	1332.000000	1332	94.854000	1449	2300	1	chr5D.!!$F1	851
6	TraesCS7D01G112300	chr4B	635028737	635029592	855	True	1323.000000	1323	94.626000	1448	2300	1	chr4B.!!$R1	852
7	TraesCS7D01G112300	chr4D	260693315	260694153	838	False	1247.000000	1247	93.412000	1454	2300	1	chr4D.!!$F1	846
8	TraesCS7D01G112300	chr3A	467875468	467876322	854	False	1245.000000	1245	92.991000	1448	2300	1	chr3A.!!$F1	852
9	TraesCS7D01G112300	chr7B	374311456	374312310	854	False	1221.000000	1221	92.523000	1449	2300	1	chr7B.!!$F2	851
10	TraesCS7D01G112300	chr7B	10235149	10235712	563	True	396.000000	396	79.770000	124	726	1	chr7B.!!$R3	602
11	TraesCS7D01G112300	chr2D	586287286	586288145	859	True	1194.000000	1194	91.870000	1448	2300	1	chr2D.!!$R1	852
12	TraesCS7D01G112300	chr7A	70894012	70894528	516	False	442.000000	442	83.685000	834	1304	1	chr7A.!!$F1	470
13	TraesCS7D01G112300	chr7A	74596002	74599052	3050	True	431.666667	640	87.513667	2	1446	3	chr7A.!!$R3	1444

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
938	3010	0.179043	TGCTTTCCCTACACGCACAA	60.179	50.0	0.0	0.0	0.0	3.33	F

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability	Orientation
2079	5074	1.49091	GGCCACTATTTGCTACCTCCT	59.509	52.381	0.0	0.0	0.0	3.69	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
25	26	3.823304	GCCCCTTGTCTCCATGAATATTC	59.177	47.826	8.60	8.60	0.00	1.75
32	33	6.550938	TGTCTCCATGAATATTCTGACACT	57.449	37.500	16.24	0.00	0.00	3.55
45	46	3.984200	GACACTAGGACGGCGTGGC	62.984	68.421	21.19	3.00	33.13	5.01
99	100	4.213513	CGGACCTAGACCATTAACCTAGT	58.786	47.826	0.00	0.00	0.00	2.57
106	107	7.344093	ACCTAGACCATTAACCTAGTTAACCTC	59.656	40.741	0.88	0.00	40.16	3.85
128	152	3.124921	CGCCGGTGCTAACCCAAG	61.125	66.667	0.00	0.00	44.42	3.61
183	207	1.805428	GAGATCGAGAGGGCTCCTGC	61.805	65.000	0.00	0.00	37.91	4.85
233	257	2.226315	AGAGCCACCAGGATGTGCA	61.226	57.895	0.00	0.00	36.89	4.57
245	269	2.967459	GATGTGCACATCGTGTTCAA	57.033	45.000	36.65	6.36	42.66	2.69
246	270	2.843077	GATGTGCACATCGTGTTCAAG	58.157	47.619	36.65	0.00	42.66	3.02
247	271	0.943673	TGTGCACATCGTGTTCAAGG	59.056	50.000	17.42	0.00	35.75	3.61
248	272	1.225855	GTGCACATCGTGTTCAAGGA	58.774	50.000	13.17	0.00	35.75	3.36
249	273	1.195448	GTGCACATCGTGTTCAAGGAG	59.805	52.381	13.17	0.00	35.75	3.69
250	274	1.069978	TGCACATCGTGTTCAAGGAGA	59.930	47.619	0.00	0.00	35.75	3.71
251	275	2.143122	GCACATCGTGTTCAAGGAGAA	58.857	47.619	0.00	0.00	35.75	2.87
252	276	2.158449	GCACATCGTGTTCAAGGAGAAG	59.842	50.000	0.00	0.00	36.78	2.85
253	277	2.158449	CACATCGTGTTCAAGGAGAAGC	59.842	50.000	0.00	0.00	36.78	3.86
254	278	1.734465	CATCGTGTTCAAGGAGAAGCC	59.266	52.381	0.00	0.00	36.78	4.35
264	288	4.930592	GAGAAGCCTCTCCACAGC	57.069	61.111	0.37	0.00	42.14	4.40
310	334	1.452108	GCCCACCATTCTCGGAAGG	60.452	63.158	0.00	0.00	0.00	3.46
321	345	3.543680	TCTCGGAAGGGAATCATTGTC	57.456	47.619	0.00	0.00	37.93	3.18
329	353	1.972872	GGAATCATTGTCCCTGCGAT	58.027	50.000	0.00	0.00	0.00	4.58
332	356	3.686726	GGAATCATTGTCCCTGCGATATC	59.313	47.826	0.00	0.00	0.00	1.63
343	367	3.192844	CCCTGCGATATCGGTAGTGTAAT	59.807	47.826	25.51	0.00	40.23	1.89
351	375	6.569801	CGATATCGGTAGTGTAATGACACCAT	60.570	42.308	17.51	0.00	45.28	3.55
357	381	2.022764	TGTAATGACACCATGCTCCG	57.977	50.000	0.00	0.00	32.36	4.63
358	382	0.657840	GTAATGACACCATGCTCCGC	59.342	55.000	0.00	0.00	32.36	5.54
359	383	0.251634	TAATGACACCATGCTCCGCA	59.748	50.000	0.00	0.00	44.86	5.69
397	421	4.800993	CCTTGTATGACACTTGACGAGATC	59.199	45.833	0.00	0.00	0.00	2.75
521	649	5.650543	AGTGTTTGAACAACTCCACAATTC	58.349	37.500	0.00	0.00	41.21	2.17
524	652	6.912591	GTGTTTGAACAACTCCACAATTCTAG	59.087	38.462	0.00	0.00	41.21	2.43
638	769	8.879427	AAAAATAGGCCAAATACTAGTGAACT	57.121	30.769	5.01	0.00	0.00	3.01
667	798	7.920151	TGAAATGAGGTAATCAAAAACACACAG	59.080	33.333	0.00	0.00	42.53	3.66
668	799	5.181690	TGAGGTAATCAAAAACACACAGC	57.818	39.130	0.00	0.00	34.02	4.40
696	830	8.850007	AAAAACTTAAGATCTACCTTGAGGAC	57.150	34.615	10.09	0.00	35.02	3.85
710	847	3.066291	TGAGGACGCATGTGGTTTTAT	57.934	42.857	11.65	0.00	0.00	1.40
732	2477	8.641499	TTATATCATTTGATTTGTTTTCCCGC	57.359	30.769	0.00	0.00	36.05	6.13
831	2830	1.139520	GCTGCGGCCATTTCGAATT	59.860	52.632	6.12	0.00	0.00	2.17
838	2837	2.358898	CGGCCATTTCGAATTGGAATCT	59.641	45.455	32.88	0.00	34.81	2.40
862	2871	1.546923	TCCGACTCGTTAATGGCTTCA	59.453	47.619	0.00	0.00	0.00	3.02
888	2952	2.964174	CCACACCACGCAATGCAT	59.036	55.556	5.91	0.00	0.00	3.96
890	2954	1.009903	CCACACCACGCAATGCATTG	61.010	55.000	30.92	30.92	40.66	2.82
892	2956	1.289694	CACCACGCAATGCATTGGT	59.710	52.632	34.23	27.09	42.87	3.67
893	2957	1.289694	ACCACGCAATGCATTGGTG	59.710	52.632	32.46	32.46	41.27	4.17
931	3003	1.427368	ACACCCAATGCTTTCCCTACA	59.573	47.619	0.00	0.00	0.00	2.74
932	3004	1.818674	CACCCAATGCTTTCCCTACAC	59.181	52.381	0.00	0.00	0.00	2.90
933	3005	1.094785	CCCAATGCTTTCCCTACACG	58.905	55.000	0.00	0.00	0.00	4.49
938	3010	0.179043	TGCTTTCCCTACACGCACAA	60.179	50.000	0.00	0.00	0.00	3.33
942	3014	2.851263	TTCCCTACACGCACAAATCT	57.149	45.000	0.00	0.00	0.00	2.40
943	3015	2.380084	TCCCTACACGCACAAATCTC	57.620	50.000	0.00	0.00	0.00	2.75
947	3019	2.596452	CTACACGCACAAATCTCGTCT	58.404	47.619	0.00	0.00	33.84	4.18
948	3020	1.419374	ACACGCACAAATCTCGTCTC	58.581	50.000	0.00	0.00	33.84	3.36
969	3065	0.250513	AAGAACCCACCTGCGATCTC	59.749	55.000	0.00	0.00	0.00	2.75
970	3066	0.616111	AGAACCCACCTGCGATCTCT	60.616	55.000	0.00	0.00	0.00	3.10
971	3067	0.460987	GAACCCACCTGCGATCTCTG	60.461	60.000	0.00	0.00	0.00	3.35
973	3069	2.362369	CCCACCTGCGATCTCTGGT	61.362	63.158	8.34	8.34	38.59	4.00
974	3070	4.509756	CACCTGCGATCTCTGGTG	57.490	61.111	22.41	22.41	45.28	4.17
978	3074	3.698765	TGCGATCTCTGGTGCAGA	58.301	55.556	0.00	0.00	38.25	4.26
1018	3150	0.179062	GATGAGCTCCAAGATGGCGT	60.179	55.000	12.15	0.00	37.47	5.68
1115	3388	1.066573	CACCATCGACCTCAAGCTCTT	60.067	52.381	0.00	0.00	0.00	2.85
1188	3461	3.064987	CTACCTCACCGAGCCCGTG	62.065	68.421	0.00	0.00	0.00	4.94
1200	3473	3.467226	CCCGTGGGCGTCTACCAT	61.467	66.667	0.00	0.00	40.70	3.55
1219	3492	4.148825	ACTGGATCGACGCCTGCC	62.149	66.667	11.45	0.00	0.00	4.85
1242	3515	2.315386	GGCCAACCAAGACGTCGAC	61.315	63.158	10.46	5.18	35.26	4.20
1243	3516	1.300697	GCCAACCAAGACGTCGACT	60.301	57.895	14.70	0.10	0.00	4.18
1244	3517	1.557443	GCCAACCAAGACGTCGACTG	61.557	60.000	14.70	9.79	0.00	3.51
1246	3519	0.597637	CAACCAAGACGTCGACTGCT	60.598	55.000	14.70	7.60	0.00	4.24
1247	3520	0.104304	AACCAAGACGTCGACTGCTT	59.896	50.000	14.70	13.29	0.00	3.91
1253	3541	0.507358	GACGTCGACTGCTTCAAACC	59.493	55.000	14.70	0.00	0.00	3.27
1405	3693	5.824624	ACATTAGATGGATGTAAGGCTGTTG	59.175	40.000	0.00	0.00	36.04	3.33
1488	3777	2.844362	CCCCGGCCTCTGCATCTA	60.844	66.667	0.00	0.00	40.13	1.98
1552	4049	8.594550	AGACCTTACAAAGTGATACAACAGTAT	58.405	33.333	0.00	0.00	0.00	2.12
1569	4066	3.611113	CAGTATGACTAAAACCACCGTCG	59.389	47.826	0.00	0.00	39.69	5.12
1971	4914	1.476488	GCACCGCTCCACCAAATAATT	59.524	47.619	0.00	0.00	0.00	1.40
1994	4989	3.999285	ACTGGTCCCTCGAGCCCT	61.999	66.667	6.99	0.00	35.55	5.19
2022	5017	2.350772	CCTTCAAGAATGACGCCACAAC	60.351	50.000	0.00	0.00	34.61	3.32
2027	5022	1.586154	GAATGACGCCACAACAGGGG	61.586	60.000	0.00	0.00	46.27	4.79
2079	5074	5.467668	TCTACTGATCTAGGGTTTCCTCA	57.532	43.478	0.00	0.00	43.66	3.86
2102	5097	2.170607	GAGGTAGCAAATAGTGGCCTGA	59.829	50.000	3.32	0.00	0.00	3.86
2122	5117	4.318332	TGAAACTTCTCAACATCGATGCT	58.682	39.130	25.11	10.78	0.00	3.79

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
25	26	1.154016	CACGCCGTCCTAGTGTCAG	60.154	63.158	0.00	0.00	0.00	3.51
45	46	1.458827	GTTCTTCTGCTCTTGAGCACG	59.541	52.381	19.87	15.57	40.23	5.34
80	81	7.194761	AGGTTAACTAGGTTAATGGTCTAGGT	58.805	38.462	5.42	0.00	39.64	3.08
99	100	4.090588	CCGGCGCCAGGAGGTTAA	62.091	66.667	28.98	0.00	37.19	2.01
128	152	1.767692	TCCAGGAGGAGGCAAAACC	59.232	57.895	0.00	0.00	39.61	3.27
168	192	2.042537	ATGCAGGAGCCCTCTCGA	60.043	61.111	0.00	0.00	40.26	4.04
233	257	2.417719	GCTTCTCCTTGAACACGATGT	58.582	47.619	0.00	0.00	0.00	3.06
237	261	3.614399	AGGCTTCTCCTTGAACACG	57.386	52.632	0.00	0.00	44.75	4.49
248	272	2.977178	CGCTGTGGAGAGGCTTCT	59.023	61.111	0.00	0.00	36.01	2.85
249	273	2.817396	GCGCTGTGGAGAGGCTTC	60.817	66.667	0.00	0.00	0.00	3.86
250	274	3.602513	CTGCGCTGTGGAGAGGCTT	62.603	63.158	9.73	0.00	38.54	4.35
251	275	4.079850	CTGCGCTGTGGAGAGGCT	62.080	66.667	9.73	0.00	38.54	4.58
273	297	4.457496	ACCTCCTGTCGCCGCATG	62.457	66.667	0.00	0.00	0.00	4.06
274	298	4.457496	CACCTCCTGTCGCCGCAT	62.457	66.667	0.00	0.00	0.00	4.73
310	334	1.972872	ATCGCAGGGACAATGATTCC	58.027	50.000	0.00	0.00	0.00	3.01
316	340	1.048601	ACCGATATCGCAGGGACAAT	58.951	50.000	19.78	0.00	38.18	2.71
317	341	1.611977	CTACCGATATCGCAGGGACAA	59.388	52.381	19.78	0.00	38.18	3.18
320	344	1.244816	CACTACCGATATCGCAGGGA	58.755	55.000	19.78	2.06	38.18	4.20
321	345	0.959553	ACACTACCGATATCGCAGGG	59.040	55.000	19.78	19.78	38.18	4.45
325	349	4.790878	TGTCATTACACTACCGATATCGC	58.209	43.478	19.78	1.85	38.18	4.58
354	378	2.632377	GTCCTTTTCTCATCATGCGGA	58.368	47.619	0.00	0.00	0.00	5.54
355	379	1.672881	GGTCCTTTTCTCATCATGCGG	59.327	52.381	0.00	0.00	0.00	5.69
356	380	2.636830	AGGTCCTTTTCTCATCATGCG	58.363	47.619	0.00	0.00	0.00	4.73
357	381	3.760684	ACAAGGTCCTTTTCTCATCATGC	59.239	43.478	0.00	0.00	0.00	4.06
358	382	6.825213	TCATACAAGGTCCTTTTCTCATCATG	59.175	38.462	0.00	0.00	0.00	3.07
359	383	6.825721	GTCATACAAGGTCCTTTTCTCATCAT	59.174	38.462	0.00	0.00	0.00	2.45
360	384	6.173339	GTCATACAAGGTCCTTTTCTCATCA	58.827	40.000	0.00	0.00	0.00	3.07
361	385	6.092807	GTGTCATACAAGGTCCTTTTCTCATC	59.907	42.308	0.00	0.00	0.00	2.92
362	386	5.940470	GTGTCATACAAGGTCCTTTTCTCAT	59.060	40.000	0.00	0.00	0.00	2.90
363	387	5.071788	AGTGTCATACAAGGTCCTTTTCTCA	59.928	40.000	0.00	0.00	0.00	3.27
364	388	5.552178	AGTGTCATACAAGGTCCTTTTCTC	58.448	41.667	0.00	0.00	0.00	2.87
365	389	5.568620	AGTGTCATACAAGGTCCTTTTCT	57.431	39.130	0.00	0.00	0.00	2.52
366	390	5.763204	TCAAGTGTCATACAAGGTCCTTTTC	59.237	40.000	0.00	0.00	0.00	2.29
367	391	5.531287	GTCAAGTGTCATACAAGGTCCTTTT	59.469	40.000	0.00	0.00	0.00	2.27
368	392	5.063880	GTCAAGTGTCATACAAGGTCCTTT	58.936	41.667	0.00	0.00	0.00	3.11
397	421	2.301296	TCCTTGTCAGAAGAAGCTCCTG	59.699	50.000	0.00	0.00	0.00	3.86
521	649	7.648039	ACTAGAAACCTGGATTCACTACTAG	57.352	40.000	17.56	12.08	0.00	2.57
524	652	8.475639	TCATTACTAGAAACCTGGATTCACTAC	58.524	37.037	17.56	0.00	0.00	2.73
600	730	9.579932	TTTGGCCTATTTTTATTGTCCAAAAAT	57.420	25.926	3.32	9.83	44.02	1.82
638	769	8.637099	TGTGTTTTTGATTACCTCATTTCATGA	58.363	29.630	0.00	0.00	37.76	3.07
696	830	8.578308	AATCAAATGATATAAAACCACATGCG	57.422	30.769	0.00	0.00	33.73	4.73
710	847	6.030548	TGCGGGAAAACAAATCAAATGATA	57.969	33.333	0.00	0.00	33.73	2.15
760	2505	4.708386	TCCGCGCGGTGGGAAAAT	62.708	61.111	44.16	0.00	36.47	1.82
784	2531	3.266686	TACGCATTGCTGGCTGGGT	62.267	57.895	7.12	8.86	40.95	4.51
813	2812	1.139520	AATTCGAAATGGCCGCAGC	59.860	52.632	0.00	0.00	38.76	5.25
826	2825	0.940126	CGGAGCCAGATTCCAATTCG	59.060	55.000	0.00	0.00	34.24	3.34
829	2828	1.139853	GAGTCGGAGCCAGATTCCAAT	59.860	52.381	0.00	0.00	34.24	3.16
831	2830	1.667154	CGAGTCGGAGCCAGATTCCA	61.667	60.000	4.10	0.00	34.24	3.53
838	2837	0.174845	CCATTAACGAGTCGGAGCCA	59.825	55.000	18.30	0.00	0.00	4.75
862	2871	3.294493	GTGGTGTGGCGGTGCAAT	61.294	61.111	0.00	0.00	0.00	3.56
919	2991	0.179043	TTGTGCGTGTAGGGAAAGCA	60.179	50.000	0.00	0.00	35.27	3.91
931	3003	0.240145	TCGAGACGAGATTTGTGCGT	59.760	50.000	0.00	0.00	41.45	5.24
932	3004	1.318785	CTTCGAGACGAGATTTGTGCG	59.681	52.381	0.00	0.00	37.14	5.34
933	3005	2.596452	TCTTCGAGACGAGATTTGTGC	58.404	47.619	0.00	0.00	37.14	4.57
938	3010	2.094649	GTGGGTTCTTCGAGACGAGATT	60.095	50.000	0.00	0.00	37.14	2.40
942	3014	0.538977	AGGTGGGTTCTTCGAGACGA	60.539	55.000	0.00	0.00	0.00	4.20
943	3015	0.388649	CAGGTGGGTTCTTCGAGACG	60.389	60.000	0.00	0.00	0.00	4.18
947	3019	1.541310	ATCGCAGGTGGGTTCTTCGA	61.541	55.000	0.00	0.00	0.00	3.71
948	3020	1.079127	ATCGCAGGTGGGTTCTTCG	60.079	57.895	0.00	0.00	0.00	3.79
969	3065	1.521010	CGCCATCTCTCTGCACCAG	60.521	63.158	0.00	0.00	0.00	4.00
970	3066	1.543944	TTCGCCATCTCTCTGCACCA	61.544	55.000	0.00	0.00	0.00	4.17
971	3067	0.809241	CTTCGCCATCTCTCTGCACC	60.809	60.000	0.00	0.00	0.00	5.01
973	3069	1.153489	GCTTCGCCATCTCTCTGCA	60.153	57.895	0.00	0.00	0.00	4.41
974	3070	2.236382	CGCTTCGCCATCTCTCTGC	61.236	63.158	0.00	0.00	0.00	4.26
1018	3150	4.129737	CGCCGGCTTCTTCCTCGA	62.130	66.667	26.68	0.00	0.00	4.04
1188	3461	1.144057	CCAGTCATGGTAGACGCCC	59.856	63.158	0.00	0.00	43.24	6.13
1200	3473	2.885113	CAGGCGTCGATCCAGTCA	59.115	61.111	0.00	0.00	0.00	3.41
1219	3492	0.535102	ACGTCTTGGTTGGCCTTCTG	60.535	55.000	3.32	0.00	35.27	3.02
1235	3508	0.179094	TGGTTTGAAGCAGTCGACGT	60.179	50.000	10.46	0.00	31.91	4.34
1242	3515	1.283793	CCGCTGTGGTTTGAAGCAG	59.716	57.895	0.00	0.00	37.04	4.24
1243	3516	2.844451	GCCGCTGTGGTTTGAAGCA	61.844	57.895	9.31	0.00	41.21	3.91
1244	3517	2.050077	GCCGCTGTGGTTTGAAGC	60.050	61.111	9.31	0.00	41.21	3.86
1246	3519	2.203084	TCGCCGCTGTGGTTTGAA	60.203	55.556	9.31	0.00	41.21	2.69
1247	3520	2.664851	CTCGCCGCTGTGGTTTGA	60.665	61.111	9.31	4.20	41.21	2.69
1269	3557	4.736631	TCGTCGTCGTCGCTGCTG	62.737	66.667	7.01	0.00	38.33	4.41
1270	3558	4.738345	GTCGTCGTCGTCGCTGCT	62.738	66.667	7.01	0.00	38.33	4.24
1336	3624	2.157085	GGACAAAGACGAATCGAACACC	59.843	50.000	10.55	0.00	0.00	4.16
1337	3625	2.157085	GGGACAAAGACGAATCGAACAC	59.843	50.000	10.55	0.00	0.00	3.32
1388	3676	1.767759	GGCAACAGCCTTACATCCAT	58.232	50.000	0.00	0.00	45.21	3.41
1405	3693	0.902531	TAGCAACAGGTCTACAGGGC	59.097	55.000	0.00	0.00	0.00	5.19
1488	3777	2.627515	AATGGCTACATGCATCGTCT	57.372	45.000	0.00	0.00	45.15	4.18
1552	4049	1.000060	CCTCGACGGTGGTTTTAGTCA	60.000	52.381	0.00	0.00	33.56	3.41
1971	4914	2.675423	CGAGGGACCAGTGGACGA	60.675	66.667	18.40	0.00	0.00	4.20
1994	4989	2.290367	CGTCATTCTTGAAGGTGTGCAA	59.710	45.455	0.00	0.00	32.48	4.08
2022	5017	2.862140	GCATTTTTGTGTCGTTCCCCTG	60.862	50.000	0.00	0.00	0.00	4.45
2079	5074	1.490910	GGCCACTATTTGCTACCTCCT	59.509	52.381	0.00	0.00	0.00	3.69
2102	5097	5.239306	TGAAAGCATCGATGTTGAGAAGTTT	59.761	36.000	25.47	9.72	0.00	2.66
2122	5117	2.018515	GGTGTCGTTCCCTTGTTGAAA	58.981	47.619	0.00	0.00	0.00	2.69

Based at the University of Bristol with support from BBSRC.

AutoCloner maintained by Alex Coulton.