AutoCloner

Multiple sequence alignment - TraesCS6D01G318400

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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	TraesCS6D01G318400	chr6D	100.000	2632	0	0	1	2632	426894500	426891869	0.000000e+00	4861
1	TraesCS6D01G318400	chr6D	99.093	992	7	2	1	991	20132685	20133675	0.000000e+00	1781
2	TraesCS6D01G318400	chr7D	98.891	992	9	2	1	990	100459457	100460448	0.000000e+00	1770
3	TraesCS6D01G318400	chr7D	98.790	992	10	2	1	990	123459644	123460635	0.000000e+00	1764
4	TraesCS6D01G318400	chr7D	98.098	999	12	4	1	998	81793828	81794820	0.000000e+00	1733
5	TraesCS6D01G318400	chr7D	76.923	598	98	20	2069	2629	490209127	490208533	1.180000e-78	303
6	TraesCS6D01G318400	chr7D	91.919	99	8	0	1798	1896	620088836	620088934	3.530000e-29	139
7	TraesCS6D01G318400	chr7D	89.796	98	10	0	1276	1373	602951573	602951476	2.750000e-25	126
8	TraesCS6D01G318400	chr7D	83.740	123	14	3	1000	1118	572657624	572657504	7.700000e-21	111
9	TraesCS6D01G318400	chr1D	98.691	993	11	2	1	991	296590983	296591975	0.000000e+00	1760
10	TraesCS6D01G318400	chr1D	80.332	422	68	2	2077	2483	472344003	472344424	3.290000e-79	305
11	TraesCS6D01G318400	chr5D	98.193	996	15	3	1	994	275577747	275576753	0.000000e+00	1736
12	TraesCS6D01G318400	chr5D	80.535	411	65	5	2088	2483	373767524	373767114	4.260000e-78	302
13	TraesCS6D01G318400	chr5D	81.951	205	35	1	2077	2279	27666902	27667106	3.480000e-39	172
14	TraesCS6D01G318400	chr5D	89.583	96	10	0	1286	1381	297738426	297738331	3.560000e-24	122
15	TraesCS6D01G318400	chr2D	96.985	995	23	5	1	991	535556607	535555616	0.000000e+00	1664
16	TraesCS6D01G318400	chr2D	77.969	581	95	19	2077	2629	42042280	42042855	1.510000e-87	333
17	TraesCS6D01G318400	chr3D	96.970	990	24	4	1	989	601620147	601621131	0.000000e+00	1657
18	TraesCS6D01G318400	chr3D	77.500	360	64	11	1417	1764	436179897	436179543	1.600000e-47	200
19	TraesCS6D01G318400	chr1A	96.065	991	33	5	1	989	522192404	522193390	0.000000e+00	1609
20	TraesCS6D01G318400	chr6A	91.674	1093	52	9	1369	2425	571650827	571649738	0.000000e+00	1478
21	TraesCS6D01G318400	chr6A	98.658	298	4	0	990	1287	571651123	571650826	1.790000e-146	529
22	TraesCS6D01G318400	chr6A	91.398	93	6	2	1286	1377	4286700	4286791	2.750000e-25	126
23	TraesCS6D01G318400	chr6A	91.398	93	6	2	1286	1377	4357299	4357390	2.750000e-25	126
24	TraesCS6D01G318400	chr6A	91.398	93	6	2	1286	1377	4415628	4415719	2.750000e-25	126
25	TraesCS6D01G318400	chr6B	90.304	887	72	10	1752	2632	642383361	642382483	0.000000e+00	1149
26	TraesCS6D01G318400	chr6B	97.704	392	9	0	1369	1760	642384588	642384197	0.000000e+00	675
27	TraesCS6D01G318400	chr6B	97.333	300	8	0	990	1289	642384887	642384588	6.500000e-141	510
28	TraesCS6D01G318400	chr6B	79.111	450	78	5	2077	2511	23453649	23453201	1.980000e-76	296
29	TraesCS6D01G318400	chr3B	81.306	444	65	5	2077	2503	820559923	820560365	6.970000e-91	344
30	TraesCS6D01G318400	chr4A	80.813	443	68	4	2077	2503	649023026	649023467	5.430000e-87	331
31	TraesCS6D01G318400	chr2A	80.825	412	64	3	2077	2473	54671324	54670913	2.540000e-80	309
32	TraesCS6D01G318400	chrUn	77.500	520	89	17	2079	2574	211086763	211087278	1.190000e-73	287
33	TraesCS6D01G318400	chrUn	91.398	93	6	2	1286	1377	62345010	62344919	2.750000e-25	126
34	TraesCS6D01G318400	chrUn	91.398	93	6	2	1286	1377	62462051	62461960	2.750000e-25	126
35	TraesCS6D01G318400	chrUn	91.398	93	6	2	1286	1377	62534063	62533972	2.750000e-25	126
36	TraesCS6D01G318400	chr4D	79.215	433	72	8	2069	2484	107724470	107724901	4.290000e-73	285
37	TraesCS6D01G318400	chr7A	84.247	292	41	3	1000	1287	661827939	661827649	1.990000e-71	279
38	TraesCS6D01G318400	chr7B	77.432	514	81	25	2083	2566	737004913	737005421	9.280000e-70	274
39	TraesCS6D01G318400	chr7B	83.278	299	45	3	994	1287	629412171	629412469	1.200000e-68	270
40	TraesCS6D01G318400	chr7B	83.246	191	31	1	1777	1966	512058806	512058996	9.680000e-40	174
41	TraesCS6D01G318400	chr5B	83.534	249	33	7	1764	2011	185548419	185548660	2.640000e-55	226
42	TraesCS6D01G318400	chr1B	91.667	96	8	0	1279	1374	526194601	526194696	1.640000e-27	134

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	TraesCS6D01G318400	chr6D	426891869	426894500	2631	True	4861.0	4861	100.000000	1	2632	1	chr6D.!!$R1	2631
1	TraesCS6D01G318400	chr6D	20132685	20133675	990	False	1781.0	1781	99.093000	1	991	1	chr6D.!!$F1	990
2	TraesCS6D01G318400	chr7D	100459457	100460448	991	False	1770.0	1770	98.891000	1	990	1	chr7D.!!$F2	989
3	TraesCS6D01G318400	chr7D	123459644	123460635	991	False	1764.0	1764	98.790000	1	990	1	chr7D.!!$F3	989
4	TraesCS6D01G318400	chr7D	81793828	81794820	992	False	1733.0	1733	98.098000	1	998	1	chr7D.!!$F1	997
5	TraesCS6D01G318400	chr7D	490208533	490209127	594	True	303.0	303	76.923000	2069	2629	1	chr7D.!!$R1	560
6	TraesCS6D01G318400	chr1D	296590983	296591975	992	False	1760.0	1760	98.691000	1	991	1	chr1D.!!$F1	990
7	TraesCS6D01G318400	chr5D	275576753	275577747	994	True	1736.0	1736	98.193000	1	994	1	chr5D.!!$R1	993
8	TraesCS6D01G318400	chr2D	535555616	535556607	991	True	1664.0	1664	96.985000	1	991	1	chr2D.!!$R1	990
9	TraesCS6D01G318400	chr2D	42042280	42042855	575	False	333.0	333	77.969000	2077	2629	1	chr2D.!!$F1	552
10	TraesCS6D01G318400	chr3D	601620147	601621131	984	False	1657.0	1657	96.970000	1	989	1	chr3D.!!$F1	988
11	TraesCS6D01G318400	chr1A	522192404	522193390	986	False	1609.0	1609	96.065000	1	989	1	chr1A.!!$F1	988
12	TraesCS6D01G318400	chr6A	571649738	571651123	1385	True	1003.5	1478	95.166000	990	2425	2	chr6A.!!$R1	1435
13	TraesCS6D01G318400	chr6B	642382483	642384887	2404	True	778.0	1149	95.113667	990	2632	3	chr6B.!!$R2	1642
14	TraesCS6D01G318400	chrUn	211086763	211087278	515	False	287.0	287	77.500000	2079	2574	1	chrUn.!!$F1	495
15	TraesCS6D01G318400	chr7B	737004913	737005421	508	False	274.0	274	77.432000	2083	2566	1	chr7B.!!$F3	483

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
648	654	0.034756	ATACAACTGTGCTGCGGTCA	59.965	50.0	0.0	0.0	35.19	4.02	F

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability	Orientation
2410	3296	0.037419	GCGTCGGTAACCCCTTTGTA	60.037	55.0	0.0	0.0	0.0	2.41	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
648	654	0.034756	ATACAACTGTGCTGCGGTCA	59.965	50.000	0.00	0.00	35.19	4.02
1004	1010	9.847224	GTATTTACCTCTAATTTTCTCCATGGA	57.153	33.333	15.27	15.27	0.00	3.41
1288	1294	5.869888	GCTGCTGTATCAGTTACTTGTTACT	59.130	40.000	0.00	0.00	36.49	2.24
1289	1295	6.035112	GCTGCTGTATCAGTTACTTGTTACTC	59.965	42.308	0.00	0.00	36.49	2.59
1290	1296	6.395629	TGCTGTATCAGTTACTTGTTACTCC	58.604	40.000	0.00	0.00	33.43	3.85
1291	1297	5.811100	GCTGTATCAGTTACTTGTTACTCCC	59.189	44.000	0.00	0.00	33.43	4.30
1292	1298	6.351117	GCTGTATCAGTTACTTGTTACTCCCT	60.351	42.308	0.00	0.00	33.43	4.20
1293	1299	7.166691	TGTATCAGTTACTTGTTACTCCCTC	57.833	40.000	0.00	0.00	0.00	4.30
1294	1300	5.678955	ATCAGTTACTTGTTACTCCCTCC	57.321	43.478	0.00	0.00	0.00	4.30
1295	1301	3.508793	TCAGTTACTTGTTACTCCCTCCG	59.491	47.826	0.00	0.00	0.00	4.63
1296	1302	3.257624	CAGTTACTTGTTACTCCCTCCGT	59.742	47.826	0.00	0.00	0.00	4.69
1297	1303	3.509184	AGTTACTTGTTACTCCCTCCGTC	59.491	47.826	0.00	0.00	0.00	4.79
1298	1304	1.264295	ACTTGTTACTCCCTCCGTCC	58.736	55.000	0.00	0.00	0.00	4.79
1299	1305	0.535797	CTTGTTACTCCCTCCGTCCC	59.464	60.000	0.00	0.00	0.00	4.46
1300	1306	0.178926	TTGTTACTCCCTCCGTCCCA	60.179	55.000	0.00	0.00	0.00	4.37
1301	1307	0.042131	TGTTACTCCCTCCGTCCCAT	59.958	55.000	0.00	0.00	0.00	4.00
1302	1308	1.288633	TGTTACTCCCTCCGTCCCATA	59.711	52.381	0.00	0.00	0.00	2.74
1303	1309	2.292389	TGTTACTCCCTCCGTCCCATAA	60.292	50.000	0.00	0.00	0.00	1.90
1304	1310	2.970640	GTTACTCCCTCCGTCCCATAAT	59.029	50.000	0.00	0.00	0.00	1.28
1305	1311	1.424638	ACTCCCTCCGTCCCATAATG	58.575	55.000	0.00	0.00	0.00	1.90
1306	1312	1.344087	ACTCCCTCCGTCCCATAATGT	60.344	52.381	0.00	0.00	0.00	2.71
1307	1313	2.090943	ACTCCCTCCGTCCCATAATGTA	60.091	50.000	0.00	0.00	0.00	2.29
1308	1314	2.969950	CTCCCTCCGTCCCATAATGTAA	59.030	50.000	0.00	0.00	0.00	2.41
1309	1315	2.969950	TCCCTCCGTCCCATAATGTAAG	59.030	50.000	0.00	0.00	0.00	2.34
1310	1316	2.969950	CCCTCCGTCCCATAATGTAAGA	59.030	50.000	0.00	0.00	0.00	2.10
1311	1317	3.583086	CCCTCCGTCCCATAATGTAAGAT	59.417	47.826	0.00	0.00	0.00	2.40
1312	1318	4.563580	CCCTCCGTCCCATAATGTAAGATG	60.564	50.000	0.00	0.00	0.00	2.90
1313	1319	4.040461	CCTCCGTCCCATAATGTAAGATGT	59.960	45.833	0.00	0.00	0.00	3.06
1314	1320	5.209818	TCCGTCCCATAATGTAAGATGTC	57.790	43.478	0.00	0.00	0.00	3.06
1315	1321	4.899457	TCCGTCCCATAATGTAAGATGTCT	59.101	41.667	0.00	0.00	0.00	3.41
1316	1322	5.365605	TCCGTCCCATAATGTAAGATGTCTT	59.634	40.000	0.45	0.45	39.85	3.01
1317	1323	6.055588	CCGTCCCATAATGTAAGATGTCTTT	58.944	40.000	0.00	0.00	37.40	2.52
1318	1324	6.542370	CCGTCCCATAATGTAAGATGTCTTTT	59.458	38.462	0.00	0.00	37.40	2.27
1319	1325	7.409697	CGTCCCATAATGTAAGATGTCTTTTG	58.590	38.462	0.00	0.00	37.40	2.44
1320	1326	7.279981	CGTCCCATAATGTAAGATGTCTTTTGA	59.720	37.037	0.00	0.00	37.40	2.69
1321	1327	9.125026	GTCCCATAATGTAAGATGTCTTTTGAT	57.875	33.333	0.00	0.00	37.40	2.57
1328	1334	7.751047	TGTAAGATGTCTTTTGATACTACGC	57.249	36.000	0.00	0.00	37.40	4.42
1329	1335	7.544622	TGTAAGATGTCTTTTGATACTACGCT	58.455	34.615	0.00	0.00	37.40	5.07
1330	1336	8.680001	TGTAAGATGTCTTTTGATACTACGCTA	58.320	33.333	0.00	0.00	37.40	4.26
1331	1337	9.171701	GTAAGATGTCTTTTGATACTACGCTAG	57.828	37.037	0.00	0.00	37.40	3.42
1332	1338	7.336161	AGATGTCTTTTGATACTACGCTAGT	57.664	36.000	0.00	3.71	42.68	2.57
1333	1339	7.197017	AGATGTCTTTTGATACTACGCTAGTG	58.803	38.462	0.59	0.59	39.81	2.74
1334	1340	6.263516	TGTCTTTTGATACTACGCTAGTGT	57.736	37.500	14.41	14.41	39.81	3.55
1335	1341	6.320171	TGTCTTTTGATACTACGCTAGTGTC	58.680	40.000	13.25	11.95	44.30	3.67
1342	1348	6.793479	GATACTACGCTAGTGTCAGAAAAC	57.207	41.667	13.25	0.00	43.73	2.43
1343	1349	3.562505	ACTACGCTAGTGTCAGAAAACG	58.437	45.455	13.25	0.00	37.69	3.60
1344	1350	2.503920	ACGCTAGTGTCAGAAAACGT	57.496	45.000	2.24	0.00	0.00	3.99
1345	1351	2.391879	ACGCTAGTGTCAGAAAACGTC	58.608	47.619	2.24	0.00	0.00	4.34
1346	1352	2.034305	ACGCTAGTGTCAGAAAACGTCT	59.966	45.455	2.24	0.00	36.88	4.18
1347	1353	3.050619	CGCTAGTGTCAGAAAACGTCTT	58.949	45.455	0.00	0.00	32.70	3.01
1348	1354	4.224433	CGCTAGTGTCAGAAAACGTCTTA	58.776	43.478	0.00	0.00	32.70	2.10
1349	1355	4.857588	CGCTAGTGTCAGAAAACGTCTTAT	59.142	41.667	0.00	0.00	32.70	1.73
1350	1356	6.025896	CGCTAGTGTCAGAAAACGTCTTATA	58.974	40.000	0.00	0.00	32.70	0.98
1351	1357	6.691818	CGCTAGTGTCAGAAAACGTCTTATAT	59.308	38.462	0.00	0.00	32.70	0.86
1352	1358	7.220300	CGCTAGTGTCAGAAAACGTCTTATATT	59.780	37.037	0.00	0.00	32.70	1.28
1353	1359	9.512435	GCTAGTGTCAGAAAACGTCTTATATTA	57.488	33.333	0.00	0.00	32.70	0.98
1364	1370	9.751542	AAAACGTCTTATATTATGAGACAGAGG	57.248	33.333	21.66	11.85	43.73	3.69
1365	1371	7.455641	ACGTCTTATATTATGAGACAGAGGG	57.544	40.000	21.66	11.59	43.73	4.30
1366	1372	7.232188	ACGTCTTATATTATGAGACAGAGGGA	58.768	38.462	21.66	0.00	43.73	4.20
1367	1373	7.392113	ACGTCTTATATTATGAGACAGAGGGAG	59.608	40.741	21.66	10.57	43.73	4.30
1389	1395	8.371699	GGGAGTAGTTGATAAGCAGAGATTAAT	58.628	37.037	0.00	0.00	0.00	1.40
1674	1680	0.590195	GCCGGATGTGCTCATGAATC	59.410	55.000	5.05	0.00	34.06	2.52
1830	2680	5.575157	TGTTTCCTTGTATAATTGAGGCCA	58.425	37.500	5.01	0.00	0.00	5.36
1844	2694	4.488790	GCCATGGGCTACATCCTG	57.511	61.111	15.13	0.00	46.69	3.86
1916	2768	4.691216	GCCTTCCGATATGGTATCAGTTTC	59.309	45.833	0.00	0.00	39.52	2.78
2037	2889	2.444895	CTCCTTCCCCTAGCCGCT	60.445	66.667	0.00	0.00	0.00	5.52
2079	2931	3.917760	CCTCCTCCCGATCGCCAC	61.918	72.222	10.32	0.00	0.00	5.01
2080	2932	3.917760	CTCCTCCCGATCGCCACC	61.918	72.222	10.32	0.00	0.00	4.61
2081	2933	4.458829	TCCTCCCGATCGCCACCT	62.459	66.667	10.32	0.00	0.00	4.00
2083	2935	2.835431	CTCCCGATCGCCACCTCT	60.835	66.667	10.32	0.00	0.00	3.69
2084	2936	3.144120	CTCCCGATCGCCACCTCTG	62.144	68.421	10.32	0.00	0.00	3.35
2085	2937	4.227134	CCCGATCGCCACCTCTGG	62.227	72.222	10.32	0.00	41.13	3.86
2086	2938	3.461773	CCGATCGCCACCTCTGGT	61.462	66.667	10.32	0.00	40.17	4.00
2099	2970	3.572682	CACCTCTGGTTACTGTGTCTACA	59.427	47.826	0.00	0.00	31.02	2.74
2154	3025	0.323360	CAACCCATGGTGTCCCGATT	60.323	55.000	11.73	0.00	35.34	3.34
2160	3031	0.984230	ATGGTGTCCCGATTCAGTGT	59.016	50.000	0.00	0.00	0.00	3.55
2200	3071	3.183259	GCTAACGCCATCGCCAAA	58.817	55.556	0.00	0.00	39.84	3.28
2302	3188	1.714899	CCAACCCCGTTCATCATCGC	61.715	60.000	0.00	0.00	0.00	4.58
2371	3257	2.602878	GCTCTCGGACATTTTCGTGTA	58.397	47.619	0.00	0.00	31.16	2.90
2378	3264	4.028383	CGGACATTTTCGTGTATTGCATC	58.972	43.478	0.00	0.00	31.16	3.91
2410	3296	1.064505	CAGCAATTCGCCGATGTCATT	59.935	47.619	0.00	0.00	44.04	2.57
2445	3331	3.490249	CCGACGCATACATTTGAGGAGTA	60.490	47.826	0.00	0.00	0.00	2.59
2484	3370	1.080501	CAGGTGACGCATCGACTGT	60.081	57.895	0.00	0.00	0.00	3.55
2566	3464	5.099042	TGTTTCCTTATAGAGTTGAGGCC	57.901	43.478	0.00	0.00	0.00	5.19

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
648	654	4.821589	GCTCGCGGCTAGCCAGTT	62.822	66.667	32.47	0.00	44.76	3.16
954	960	2.033299	CGTTGGTGCTTGAACTTGTCAT	59.967	45.455	0.00	0.00	35.70	3.06
1234	1240	3.088532	ACACAAGCACTCAGAAAAACCA	58.911	40.909	0.00	0.00	0.00	3.67
1288	1294	2.779429	TACATTATGGGACGGAGGGA	57.221	50.000	0.00	0.00	0.00	4.20
1289	1295	2.969950	TCTTACATTATGGGACGGAGGG	59.030	50.000	0.00	0.00	0.00	4.30
1290	1296	4.040461	ACATCTTACATTATGGGACGGAGG	59.960	45.833	0.00	0.00	0.00	4.30
1291	1297	5.011125	AGACATCTTACATTATGGGACGGAG	59.989	44.000	0.00	0.00	0.00	4.63
1292	1298	4.899457	AGACATCTTACATTATGGGACGGA	59.101	41.667	0.00	0.00	0.00	4.69
1293	1299	5.215252	AGACATCTTACATTATGGGACGG	57.785	43.478	0.00	0.00	0.00	4.79
1294	1300	7.279981	TCAAAAGACATCTTACATTATGGGACG	59.720	37.037	0.00	0.00	34.61	4.79
1295	1301	8.506168	TCAAAAGACATCTTACATTATGGGAC	57.494	34.615	0.00	0.00	34.61	4.46
1302	1308	8.818057	GCGTAGTATCAAAAGACATCTTACATT	58.182	33.333	0.00	0.00	34.61	2.71
1303	1309	8.198109	AGCGTAGTATCAAAAGACATCTTACAT	58.802	33.333	0.00	0.00	34.61	2.29
1304	1310	7.544622	AGCGTAGTATCAAAAGACATCTTACA	58.455	34.615	0.00	0.00	34.61	2.41
1305	1311	7.988904	AGCGTAGTATCAAAAGACATCTTAC	57.011	36.000	0.00	0.00	34.61	2.34
1306	1312	8.900781	ACTAGCGTAGTATCAAAAGACATCTTA	58.099	33.333	0.00	0.00	37.23	2.10
1307	1313	7.702772	CACTAGCGTAGTATCAAAAGACATCTT	59.297	37.037	0.00	0.00	37.23	2.40
1308	1314	7.148052	ACACTAGCGTAGTATCAAAAGACATCT	60.148	37.037	0.00	0.00	37.23	2.90
1309	1315	6.973474	ACACTAGCGTAGTATCAAAAGACATC	59.027	38.462	0.00	0.00	37.23	3.06
1310	1316	6.864342	ACACTAGCGTAGTATCAAAAGACAT	58.136	36.000	0.00	0.00	37.23	3.06
1311	1317	6.072342	TGACACTAGCGTAGTATCAAAAGACA	60.072	38.462	4.39	0.00	39.11	3.41
1312	1318	6.320171	TGACACTAGCGTAGTATCAAAAGAC	58.680	40.000	4.39	0.00	39.11	3.01
1313	1319	6.373495	TCTGACACTAGCGTAGTATCAAAAGA	59.627	38.462	7.30	1.28	41.25	2.52
1314	1320	6.552629	TCTGACACTAGCGTAGTATCAAAAG	58.447	40.000	7.30	0.00	41.25	2.27
1315	1321	6.505044	TCTGACACTAGCGTAGTATCAAAA	57.495	37.500	7.30	0.00	41.25	2.44
1316	1322	6.505044	TTCTGACACTAGCGTAGTATCAAA	57.495	37.500	7.30	3.94	41.25	2.69
1317	1323	6.505044	TTTCTGACACTAGCGTAGTATCAA	57.495	37.500	7.30	0.00	41.25	2.57
1318	1324	6.320171	GTTTTCTGACACTAGCGTAGTATCA	58.680	40.000	6.16	6.16	39.70	2.15
1319	1325	5.451662	CGTTTTCTGACACTAGCGTAGTATC	59.548	44.000	0.00	0.00	37.23	2.24
1320	1326	5.106396	ACGTTTTCTGACACTAGCGTAGTAT	60.106	40.000	0.00	0.00	37.23	2.12
1321	1327	4.214119	ACGTTTTCTGACACTAGCGTAGTA	59.786	41.667	0.00	0.00	37.23	1.82
1322	1328	3.004106	ACGTTTTCTGACACTAGCGTAGT	59.996	43.478	0.00	0.00	40.28	2.73
1323	1329	3.562505	ACGTTTTCTGACACTAGCGTAG	58.437	45.455	0.00	0.00	0.00	3.51
1324	1330	3.251729	AGACGTTTTCTGACACTAGCGTA	59.748	43.478	0.00	0.00	31.12	4.42
1325	1331	2.034305	AGACGTTTTCTGACACTAGCGT	59.966	45.455	0.00	0.00	31.12	5.07
1326	1332	2.662700	AGACGTTTTCTGACACTAGCG	58.337	47.619	0.00	0.00	31.12	4.26
1327	1333	7.988904	ATATAAGACGTTTTCTGACACTAGC	57.011	36.000	0.00	0.00	33.46	3.42
1338	1344	9.751542	CCTCTGTCTCATAATATAAGACGTTTT	57.248	33.333	0.00	0.00	41.84	2.43
1339	1345	8.361139	CCCTCTGTCTCATAATATAAGACGTTT	58.639	37.037	0.00	0.00	41.84	3.60
1340	1346	7.724506	TCCCTCTGTCTCATAATATAAGACGTT	59.275	37.037	0.00	0.00	41.84	3.99
1341	1347	7.232188	TCCCTCTGTCTCATAATATAAGACGT	58.768	38.462	0.00	0.00	41.84	4.34
1342	1348	7.392113	ACTCCCTCTGTCTCATAATATAAGACG	59.608	40.741	0.00	0.00	41.84	4.18
1343	1349	8.644374	ACTCCCTCTGTCTCATAATATAAGAC	57.356	38.462	0.00	0.00	39.87	3.01
1344	1350	9.967451	CTACTCCCTCTGTCTCATAATATAAGA	57.033	37.037	0.00	0.00	0.00	2.10
1345	1351	9.747898	ACTACTCCCTCTGTCTCATAATATAAG	57.252	37.037	0.00	0.00	0.00	1.73
1347	1353	9.521841	CAACTACTCCCTCTGTCTCATAATATA	57.478	37.037	0.00	0.00	0.00	0.86
1348	1354	8.228206	TCAACTACTCCCTCTGTCTCATAATAT	58.772	37.037	0.00	0.00	0.00	1.28
1349	1355	7.583625	TCAACTACTCCCTCTGTCTCATAATA	58.416	38.462	0.00	0.00	0.00	0.98
1350	1356	6.436027	TCAACTACTCCCTCTGTCTCATAAT	58.564	40.000	0.00	0.00	0.00	1.28
1351	1357	5.827756	TCAACTACTCCCTCTGTCTCATAA	58.172	41.667	0.00	0.00	0.00	1.90
1352	1358	5.452341	TCAACTACTCCCTCTGTCTCATA	57.548	43.478	0.00	0.00	0.00	2.15
1353	1359	4.323569	TCAACTACTCCCTCTGTCTCAT	57.676	45.455	0.00	0.00	0.00	2.90
1354	1360	3.808834	TCAACTACTCCCTCTGTCTCA	57.191	47.619	0.00	0.00	0.00	3.27
1355	1361	5.221165	GCTTATCAACTACTCCCTCTGTCTC	60.221	48.000	0.00	0.00	0.00	3.36
1356	1362	4.647399	GCTTATCAACTACTCCCTCTGTCT	59.353	45.833	0.00	0.00	0.00	3.41
1357	1363	4.402793	TGCTTATCAACTACTCCCTCTGTC	59.597	45.833	0.00	0.00	0.00	3.51
1358	1364	4.353777	TGCTTATCAACTACTCCCTCTGT	58.646	43.478	0.00	0.00	0.00	3.41
1359	1365	4.646945	TCTGCTTATCAACTACTCCCTCTG	59.353	45.833	0.00	0.00	0.00	3.35
1360	1366	4.873010	TCTGCTTATCAACTACTCCCTCT	58.127	43.478	0.00	0.00	0.00	3.69
1361	1367	4.890581	TCTCTGCTTATCAACTACTCCCTC	59.109	45.833	0.00	0.00	0.00	4.30
1362	1368	4.873010	TCTCTGCTTATCAACTACTCCCT	58.127	43.478	0.00	0.00	0.00	4.20
1363	1369	5.799827	ATCTCTGCTTATCAACTACTCCC	57.200	43.478	0.00	0.00	0.00	4.30
1364	1370	9.202273	CATTAATCTCTGCTTATCAACTACTCC	57.798	37.037	0.00	0.00	0.00	3.85
1365	1371	9.757227	ACATTAATCTCTGCTTATCAACTACTC	57.243	33.333	0.00	0.00	0.00	2.59
1366	1372	9.539825	CACATTAATCTCTGCTTATCAACTACT	57.460	33.333	0.00	0.00	0.00	2.57
1367	1373	9.534565	TCACATTAATCTCTGCTTATCAACTAC	57.465	33.333	0.00	0.00	0.00	2.73
1389	1395	8.726988	GCCTATAGAACATAAAACAGTTTCACA	58.273	33.333	0.00	0.00	0.00	3.58
1788	2638	1.766496	CAGGAGGCGGGGTTTATTAGA	59.234	52.381	0.00	0.00	0.00	2.10
1844	2694	9.151752	GATACATACACGCACGTATATATGTAC	57.848	37.037	22.72	16.91	37.97	2.90
1916	2768	1.054231	GGTTTAGGATCGGGGTAGGG	58.946	60.000	0.00	0.00	0.00	3.53
2037	2889	3.261315	TAGGGTAGGGTGGGCTGCA	62.261	63.158	0.50	0.00	0.00	4.41
2079	2931	5.171476	CAATGTAGACACAGTAACCAGAGG	58.829	45.833	0.00	0.00	38.30	3.69
2080	2932	5.171476	CCAATGTAGACACAGTAACCAGAG	58.829	45.833	0.00	0.00	38.30	3.35
2081	2933	4.020573	CCCAATGTAGACACAGTAACCAGA	60.021	45.833	0.00	0.00	38.30	3.86
2083	2935	3.558321	GCCCAATGTAGACACAGTAACCA	60.558	47.826	0.00	0.00	38.30	3.67
2084	2936	3.007635	GCCCAATGTAGACACAGTAACC	58.992	50.000	0.00	0.00	38.30	2.85
2085	2937	3.007635	GGCCCAATGTAGACACAGTAAC	58.992	50.000	0.00	0.00	38.30	2.50
2086	2938	2.354303	CGGCCCAATGTAGACACAGTAA	60.354	50.000	0.00	0.00	38.30	2.24
2099	2970	1.270305	CGATATGAGTGACGGCCCAAT	60.270	52.381	0.00	0.00	0.00	3.16
2154	3025	1.476891	GATACTCGGCCTCAACACTGA	59.523	52.381	0.00	0.00	0.00	3.41
2200	3071	3.446442	AGTTGTTGGAGCCATGAAGAT	57.554	42.857	0.00	0.00	0.00	2.40
2214	3085	0.183492	TGCAGCTCCTGGAAGTTGTT	59.817	50.000	0.00	0.00	30.87	2.83
2215	3086	0.536006	GTGCAGCTCCTGGAAGTTGT	60.536	55.000	0.00	0.00	32.80	3.32
2246	3119	3.119602	CGCAGTAGACAACAGTAGCCTTA	60.120	47.826	0.00	0.00	0.00	2.69
2302	3188	0.041839	GCTCAATATGCTTCGTGCGG	60.042	55.000	0.00	0.00	46.63	5.69
2371	3257	0.106819	GAGCAGTGGGGAGATGCAAT	60.107	55.000	0.00	0.00	42.45	3.56
2378	3264	0.323178	AATTGCTGAGCAGTGGGGAG	60.323	55.000	7.39	0.00	40.61	4.30
2410	3296	0.037419	GCGTCGGTAACCCCTTTGTA	60.037	55.000	0.00	0.00	0.00	2.41
2445	3331	1.307097	GACGCATAGACTAGACCGGT	58.693	55.000	6.92	6.92	0.00	5.28
2484	3370	1.134401	GCGATGATTCAACTCCCCTCA	60.134	52.381	0.00	0.00	0.00	3.86

Based at the University of Bristol with support from BBSRC.

AutoCloner maintained by Alex Coulton.