AutoCloner

Multiple sequence alignment - TraesCS3B01G115700

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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	TraesCS3B01G115700	chr3B	100.000	2276	0	0	1	2276	82431959	82434234	0.000000e+00	4204
1	TraesCS3B01G115700	chr3B	92.264	879	58	6	1400	2276	14264004	14264874	0.000000e+00	1238
2	TraesCS3B01G115700	chr3B	91.156	882	61	10	1403	2276	407204641	407203769	0.000000e+00	1181
3	TraesCS3B01G115700	chr3B	97.906	573	11	1	1	572	82424952	82425524	0.000000e+00	990
4	TraesCS3B01G115700	chr3B	97.028	572	16	1	1	572	569495311	569495881	0.000000e+00	961
5	TraesCS3B01G115700	chr3B	83.421	573	78	12	1405	1971	141753121	141753682	1.210000e-142	516
6	TraesCS3B01G115700	chr7B	95.222	879	38	3	1400	2276	15308875	15309751	0.000000e+00	1387
7	TraesCS3B01G115700	chr7B	90.847	885	62	12	1400	2276	678100012	678100885	0.000000e+00	1168
8	TraesCS3B01G115700	chr7B	90.252	872	71	10	1410	2276	134320531	134319669	0.000000e+00	1127
9	TraesCS3B01G115700	chr7B	96.181	576	16	4	1	571	617849263	617849837	0.000000e+00	937
10	TraesCS3B01G115700	chr7B	96.792	530	17	0	1747	2276	680722196	680722725	0.000000e+00	885
11	TraesCS3B01G115700	chr5B	94.898	882	37	5	1398	2276	109899903	109899027	0.000000e+00	1373
12	TraesCS3B01G115700	chr5B	93.190	881	47	6	1400	2276	177127662	177128533	0.000000e+00	1282
13	TraesCS3B01G115700	chr5B	90.194	877	73	11	1403	2276	415774997	415774131	0.000000e+00	1131
14	TraesCS3B01G115700	chr2B	97.015	737	21	1	571	1306	417497327	417496591	0.000000e+00	1238
15	TraesCS3B01G115700	chr2B	96.684	573	17	2	1	572	669388326	669388897	0.000000e+00	952
16	TraesCS3B01G115700	chr4B	95.640	734	31	1	571	1304	635323741	635323009	0.000000e+00	1177
17	TraesCS3B01G115700	chr2D	93.061	735	48	3	571	1304	116762439	116763171	0.000000e+00	1072
18	TraesCS3B01G115700	chr6B	92.769	733	47	1	571	1303	522024434	522023708	0.000000e+00	1055
19	TraesCS3B01G115700	chr6B	92.360	733	54	2	571	1303	218017744	218017014	0.000000e+00	1042
20	TraesCS3B01G115700	chr6B	96.684	573	17	2	1	572	640564019	640564590	0.000000e+00	952
21	TraesCS3B01G115700	chr6B	96.335	573	18	2	1	570	637164221	637164793	0.000000e+00	939
22	TraesCS3B01G115700	chr6B	96.322	571	20	1	1	570	640571043	640571613	0.000000e+00	937
23	TraesCS3B01G115700	chr3D	92.194	743	50	4	571	1306	595113019	595113760	0.000000e+00	1044
24	TraesCS3B01G115700	chr3D	82.872	578	80	16	1398	1968	34700858	34701423	3.380000e-138	501
25	TraesCS3B01G115700	chr2A	91.859	737	57	3	571	1305	769613546	769614281	0.000000e+00	1026
26	TraesCS3B01G115700	chr6A	91.723	737	58	3	571	1305	510872781	510873516	0.000000e+00	1020
27	TraesCS3B01G115700	chr5A	91.701	735	59	2	571	1304	79273731	79274464	0.000000e+00	1018
28	TraesCS3B01G115700	chr5A	84.123	907	92	25	1400	2276	523619478	523620362	0.000000e+00	830
29	TraesCS3B01G115700	chrUn	96.167	574	19	3	1	572	47525353	47524781	0.000000e+00	935
30	TraesCS3B01G115700	chr3A	96.161	573	20	2	1	572	678648007	678647436	0.000000e+00	935
31	TraesCS3B01G115700	chr3A	83.811	908	93	27	1400	2276	60828485	60827601	0.000000e+00	813
32	TraesCS3B01G115700	chr7A	83.736	910	92	28	1398	2276	665976935	665977819	0.000000e+00	809
33	TraesCS3B01G115700	chr4D	86.505	578	63	9	1400	1971	496005533	496006101	2.480000e-174	621

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	TraesCS3B01G115700	chr3B	82431959	82434234	2275	False	4204	4204	100.000	1	2276	1	chr3B.!!$F3	2275
1	TraesCS3B01G115700	chr3B	14264004	14264874	870	False	1238	1238	92.264	1400	2276	1	chr3B.!!$F1	876
2	TraesCS3B01G115700	chr3B	407203769	407204641	872	True	1181	1181	91.156	1403	2276	1	chr3B.!!$R1	873
3	TraesCS3B01G115700	chr3B	82424952	82425524	572	False	990	990	97.906	1	572	1	chr3B.!!$F2	571
4	TraesCS3B01G115700	chr3B	569495311	569495881	570	False	961	961	97.028	1	572	1	chr3B.!!$F5	571
5	TraesCS3B01G115700	chr3B	141753121	141753682	561	False	516	516	83.421	1405	1971	1	chr3B.!!$F4	566
6	TraesCS3B01G115700	chr7B	15308875	15309751	876	False	1387	1387	95.222	1400	2276	1	chr7B.!!$F1	876
7	TraesCS3B01G115700	chr7B	678100012	678100885	873	False	1168	1168	90.847	1400	2276	1	chr7B.!!$F3	876
8	TraesCS3B01G115700	chr7B	134319669	134320531	862	True	1127	1127	90.252	1410	2276	1	chr7B.!!$R1	866
9	TraesCS3B01G115700	chr7B	617849263	617849837	574	False	937	937	96.181	1	571	1	chr7B.!!$F2	570
10	TraesCS3B01G115700	chr7B	680722196	680722725	529	False	885	885	96.792	1747	2276	1	chr7B.!!$F4	529
11	TraesCS3B01G115700	chr5B	109899027	109899903	876	True	1373	1373	94.898	1398	2276	1	chr5B.!!$R1	878
12	TraesCS3B01G115700	chr5B	177127662	177128533	871	False	1282	1282	93.190	1400	2276	1	chr5B.!!$F1	876
13	TraesCS3B01G115700	chr5B	415774131	415774997	866	True	1131	1131	90.194	1403	2276	1	chr5B.!!$R2	873
14	TraesCS3B01G115700	chr2B	417496591	417497327	736	True	1238	1238	97.015	571	1306	1	chr2B.!!$R1	735
15	TraesCS3B01G115700	chr2B	669388326	669388897	571	False	952	952	96.684	1	572	1	chr2B.!!$F1	571
16	TraesCS3B01G115700	chr4B	635323009	635323741	732	True	1177	1177	95.640	571	1304	1	chr4B.!!$R1	733
17	TraesCS3B01G115700	chr2D	116762439	116763171	732	False	1072	1072	93.061	571	1304	1	chr2D.!!$F1	733
18	TraesCS3B01G115700	chr6B	522023708	522024434	726	True	1055	1055	92.769	571	1303	1	chr6B.!!$R2	732
19	TraesCS3B01G115700	chr6B	218017014	218017744	730	True	1042	1042	92.360	571	1303	1	chr6B.!!$R1	732
20	TraesCS3B01G115700	chr6B	640564019	640564590	571	False	952	952	96.684	1	572	1	chr6B.!!$F2	571
21	TraesCS3B01G115700	chr6B	637164221	637164793	572	False	939	939	96.335	1	570	1	chr6B.!!$F1	569
22	TraesCS3B01G115700	chr6B	640571043	640571613	570	False	937	937	96.322	1	570	1	chr6B.!!$F3	569
23	TraesCS3B01G115700	chr3D	595113019	595113760	741	False	1044	1044	92.194	571	1306	1	chr3D.!!$F2	735
24	TraesCS3B01G115700	chr3D	34700858	34701423	565	False	501	501	82.872	1398	1968	1	chr3D.!!$F1	570
25	TraesCS3B01G115700	chr2A	769613546	769614281	735	False	1026	1026	91.859	571	1305	1	chr2A.!!$F1	734
26	TraesCS3B01G115700	chr6A	510872781	510873516	735	False	1020	1020	91.723	571	1305	1	chr6A.!!$F1	734
27	TraesCS3B01G115700	chr5A	79273731	79274464	733	False	1018	1018	91.701	571	1304	1	chr5A.!!$F1	733
28	TraesCS3B01G115700	chr5A	523619478	523620362	884	False	830	830	84.123	1400	2276	1	chr5A.!!$F2	876
29	TraesCS3B01G115700	chrUn	47524781	47525353	572	True	935	935	96.167	1	572	1	chrUn.!!$R1	571
30	TraesCS3B01G115700	chr3A	678647436	678648007	571	True	935	935	96.161	1	572	1	chr3A.!!$R2	571
31	TraesCS3B01G115700	chr3A	60827601	60828485	884	True	813	813	83.811	1400	2276	1	chr3A.!!$R1	876
32	TraesCS3B01G115700	chr7A	665976935	665977819	884	False	809	809	83.736	1398	2276	1	chr7A.!!$F1	878
33	TraesCS3B01G115700	chr4D	496005533	496006101	568	False	621	621	86.505	1400	1971	1	chr4D.!!$F1	571

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
347	360	0.612732	TCTCCCGTCCCGTATGTGTT	60.613	55.0	0.0	0.0	0.0	3.32	F

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability	Orientation
1514	1536	0.104487	TGGTCGGCGTTTCTGTGTTA	59.896	50.0	6.85	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
286	299	1.688197	TCGTGCTGCTGGATCATCATA	59.312	47.619	0.00	0.00	0.00	2.15
347	360	0.612732	TCTCCCGTCCCGTATGTGTT	60.613	55.000	0.00	0.00	0.00	3.32
445	458	2.843912	ATCCCCTTGCAAGCTTCCGG	62.844	60.000	21.43	15.43	0.00	5.14
655	669	0.753262	GTGGGCTATCTGGACGTCAT	59.247	55.000	18.91	4.93	0.00	3.06
897	911	3.008375	ACTCCACTTTTAGAGCTGCATGA	59.992	43.478	1.02	0.00	33.18	3.07
1020	1038	0.911769	TGGAATCCGACTGCTTGGAT	59.088	50.000	0.00	0.00	46.89	3.41
1326	1347	9.462606	AAAATAATCTCCATTCTAAAACCGACT	57.537	29.630	0.00	0.00	0.00	4.18
1327	1348	9.462606	AAATAATCTCCATTCTAAAACCGACTT	57.537	29.630	0.00	0.00	0.00	3.01
1328	1349	6.986904	AATCTCCATTCTAAAACCGACTTC	57.013	37.500	0.00	0.00	0.00	3.01
1329	1350	5.740290	TCTCCATTCTAAAACCGACTTCT	57.260	39.130	0.00	0.00	0.00	2.85
1330	1351	5.721232	TCTCCATTCTAAAACCGACTTCTC	58.279	41.667	0.00	0.00	0.00	2.87
1331	1352	4.828829	TCCATTCTAAAACCGACTTCTCC	58.171	43.478	0.00	0.00	0.00	3.71
1332	1353	3.939592	CCATTCTAAAACCGACTTCTCCC	59.060	47.826	0.00	0.00	0.00	4.30
1333	1354	3.690475	TTCTAAAACCGACTTCTCCCC	57.310	47.619	0.00	0.00	0.00	4.81
1334	1355	2.612000	TCTAAAACCGACTTCTCCCCA	58.388	47.619	0.00	0.00	0.00	4.96
1335	1356	2.974099	TCTAAAACCGACTTCTCCCCAA	59.026	45.455	0.00	0.00	0.00	4.12
1336	1357	1.977056	AAAACCGACTTCTCCCCAAC	58.023	50.000	0.00	0.00	0.00	3.77
1337	1358	0.109913	AAACCGACTTCTCCCCAACC	59.890	55.000	0.00	0.00	0.00	3.77
1338	1359	1.057851	AACCGACTTCTCCCCAACCA	61.058	55.000	0.00	0.00	0.00	3.67
1339	1360	1.057851	ACCGACTTCTCCCCAACCAA	61.058	55.000	0.00	0.00	0.00	3.67
1340	1361	0.605589	CCGACTTCTCCCCAACCAAC	60.606	60.000	0.00	0.00	0.00	3.77
1341	1362	0.605589	CGACTTCTCCCCAACCAACC	60.606	60.000	0.00	0.00	0.00	3.77
1342	1363	0.476771	GACTTCTCCCCAACCAACCA	59.523	55.000	0.00	0.00	0.00	3.67
1343	1364	0.185175	ACTTCTCCCCAACCAACCAC	59.815	55.000	0.00	0.00	0.00	4.16
1344	1365	0.889186	CTTCTCCCCAACCAACCACG	60.889	60.000	0.00	0.00	0.00	4.94
1345	1366	2.282180	CTCCCCAACCAACCACGG	60.282	66.667	0.00	0.00	0.00	4.94
1346	1367	4.589675	TCCCCAACCAACCACGGC	62.590	66.667	0.00	0.00	0.00	5.68
1347	1368	4.596585	CCCCAACCAACCACGGCT	62.597	66.667	0.00	0.00	0.00	5.52
1348	1369	2.520741	CCCAACCAACCACGGCTT	60.521	61.111	0.00	0.00	0.00	4.35
1349	1370	2.561037	CCCAACCAACCACGGCTTC	61.561	63.158	0.00	0.00	0.00	3.86
1350	1371	2.637025	CAACCAACCACGGCTTCG	59.363	61.111	0.00	0.00	40.22	3.79
1351	1372	1.890041	CAACCAACCACGGCTTCGA	60.890	57.895	0.00	0.00	37.63	3.71
1352	1373	1.890510	AACCAACCACGGCTTCGAC	60.891	57.895	0.00	0.00	37.63	4.20
1353	1374	3.047877	CCAACCACGGCTTCGACC	61.048	66.667	0.00	0.00	37.63	4.79
1354	1375	2.280524	CAACCACGGCTTCGACCA	60.281	61.111	0.00	0.00	37.63	4.02
1355	1376	2.030562	AACCACGGCTTCGACCAG	59.969	61.111	0.00	0.00	37.63	4.00
1356	1377	4.681978	ACCACGGCTTCGACCAGC	62.682	66.667	0.20	0.20	39.28	4.85
1357	1378	4.680237	CCACGGCTTCGACCAGCA	62.680	66.667	11.06	0.00	42.10	4.41
1358	1379	3.114616	CACGGCTTCGACCAGCAG	61.115	66.667	11.06	9.27	42.10	4.24
1362	1383	2.437359	GCTTCGACCAGCAGCCAT	60.437	61.111	4.21	0.00	39.83	4.40
1363	1384	2.758089	GCTTCGACCAGCAGCCATG	61.758	63.158	4.21	0.00	39.83	3.66
1364	1385	2.046023	TTCGACCAGCAGCCATGG	60.046	61.111	7.63	7.63	43.87	3.66
1365	1386	2.526450	CTTCGACCAGCAGCCATGGA	62.526	60.000	18.40	0.00	40.51	3.41
1366	1387	2.803155	TTCGACCAGCAGCCATGGAC	62.803	60.000	18.40	7.03	40.51	4.02
1367	1388	2.821366	GACCAGCAGCCATGGACG	60.821	66.667	18.40	6.15	40.51	4.79
1368	1389	3.612247	GACCAGCAGCCATGGACGT	62.612	63.158	18.40	0.36	40.51	4.34
1369	1390	2.360350	CCAGCAGCCATGGACGTT	60.360	61.111	18.40	0.00	40.51	3.99
1370	1391	2.401766	CCAGCAGCCATGGACGTTC	61.402	63.158	18.40	0.00	40.51	3.95
1371	1392	2.045926	AGCAGCCATGGACGTTCC	60.046	61.111	18.40	0.00	36.96	3.62
1372	1393	3.499737	GCAGCCATGGACGTTCCG	61.500	66.667	18.40	0.00	40.17	4.30
1373	1394	3.499737	CAGCCATGGACGTTCCGC	61.500	66.667	18.40	0.00	40.17	5.54
1377	1398	3.853330	CATGGACGTTCCGCGCAG	61.853	66.667	8.75	0.00	46.11	5.18
1430	1451	3.689161	CACTGTTTTGACCTTGTCACAGA	59.311	43.478	15.84	0.00	42.60	3.41
1547	1570	0.438830	CGACCAAGCTAGCGTTTCAC	59.561	55.000	9.55	0.19	0.00	3.18
1607	1630	1.070786	GCCCACAGTCAGTCCGAAA	59.929	57.895	0.00	0.00	0.00	3.46
1646	1669	1.908065	GGCACATATGAAACGCCAAC	58.092	50.000	10.38	0.00	42.50	3.77
1729	1765	1.826921	GTCCACTCTATCGCCCCGA	60.827	63.158	0.00	0.00	41.13	5.14
1731	1767	2.728817	CACTCTATCGCCCCGACC	59.271	66.667	0.00	0.00	39.18	4.79
1808	1846	3.199508	CCTCCCCAGATCTGCTATATTGG	59.800	52.174	17.76	10.71	0.00	3.16
2033	2130	6.770286	ATTGGATTTAGAGAGAGCCCATTA	57.230	37.500	0.00	0.00	0.00	1.90
2041	2138	7.931015	TTAGAGAGAGCCCATTATTTAGGAA	57.069	36.000	0.00	0.00	0.00	3.36
2127	2224	8.878769	GTTGAAAAGAATTGTTGTTGGTAATGT	58.121	29.630	0.00	0.00	0.00	2.71
2173	2284	8.993424	AGGGATAATTTGTAGTAGTTCTCACAT	58.007	33.333	0.00	0.00	0.00	3.21

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
286	299	1.076438	CAAGGGGGAAGGAGAGGTTT	58.924	55.000	0.00	0.00	0.00	3.27
347	360	2.011222	GACAACACCTCCACGTTCAAA	58.989	47.619	0.00	0.00	0.00	2.69
445	458	4.995124	ACATACCACTTGTAGATCACGTC	58.005	43.478	0.00	0.00	31.61	4.34
655	669	9.851686	ACCTTTATCATGAGTTAGATTATTGCA	57.148	29.630	0.09	0.00	0.00	4.08
897	911	6.465321	CGGTAATCCCCTGATAAGGTTTACAT	60.465	42.308	12.55	0.00	38.92	2.29
1020	1038	2.095212	CGAGTTCCAGAGATTGACGACA	60.095	50.000	0.00	0.00	0.00	4.35
1191	1209	4.555511	GCAGAGTCAAACCAACATTCTGTC	60.556	45.833	0.00	0.00	34.55	3.51
1307	1328	5.337330	GGAGAAGTCGGTTTTAGAATGGAGA	60.337	44.000	0.00	0.00	0.00	3.71
1308	1329	4.870991	GGAGAAGTCGGTTTTAGAATGGAG	59.129	45.833	0.00	0.00	0.00	3.86
1309	1330	4.323257	GGGAGAAGTCGGTTTTAGAATGGA	60.323	45.833	0.00	0.00	0.00	3.41
1310	1331	3.939592	GGGAGAAGTCGGTTTTAGAATGG	59.060	47.826	0.00	0.00	0.00	3.16
1311	1332	3.939592	GGGGAGAAGTCGGTTTTAGAATG	59.060	47.826	0.00	0.00	0.00	2.67
1312	1333	3.585732	TGGGGAGAAGTCGGTTTTAGAAT	59.414	43.478	0.00	0.00	0.00	2.40
1313	1334	2.974099	TGGGGAGAAGTCGGTTTTAGAA	59.026	45.455	0.00	0.00	0.00	2.10
1314	1335	2.612000	TGGGGAGAAGTCGGTTTTAGA	58.388	47.619	0.00	0.00	0.00	2.10
1315	1336	3.072211	GTTGGGGAGAAGTCGGTTTTAG	58.928	50.000	0.00	0.00	0.00	1.85
1316	1337	2.224597	GGTTGGGGAGAAGTCGGTTTTA	60.225	50.000	0.00	0.00	0.00	1.52
1317	1338	1.478105	GGTTGGGGAGAAGTCGGTTTT	60.478	52.381	0.00	0.00	0.00	2.43
1318	1339	0.109913	GGTTGGGGAGAAGTCGGTTT	59.890	55.000	0.00	0.00	0.00	3.27
1319	1340	1.057851	TGGTTGGGGAGAAGTCGGTT	61.058	55.000	0.00	0.00	0.00	4.44
1320	1341	1.057851	TTGGTTGGGGAGAAGTCGGT	61.058	55.000	0.00	0.00	0.00	4.69
1321	1342	0.605589	GTTGGTTGGGGAGAAGTCGG	60.606	60.000	0.00	0.00	0.00	4.79
1322	1343	0.605589	GGTTGGTTGGGGAGAAGTCG	60.606	60.000	0.00	0.00	0.00	4.18
1323	1344	0.476771	TGGTTGGTTGGGGAGAAGTC	59.523	55.000	0.00	0.00	0.00	3.01
1324	1345	0.185175	GTGGTTGGTTGGGGAGAAGT	59.815	55.000	0.00	0.00	0.00	3.01
1325	1346	0.889186	CGTGGTTGGTTGGGGAGAAG	60.889	60.000	0.00	0.00	0.00	2.85
1326	1347	1.149627	CGTGGTTGGTTGGGGAGAA	59.850	57.895	0.00	0.00	0.00	2.87
1327	1348	2.824880	CCGTGGTTGGTTGGGGAGA	61.825	63.158	0.00	0.00	0.00	3.71
1328	1349	2.282180	CCGTGGTTGGTTGGGGAG	60.282	66.667	0.00	0.00	0.00	4.30
1329	1350	4.589675	GCCGTGGTTGGTTGGGGA	62.590	66.667	0.00	0.00	0.00	4.81
1330	1351	4.596585	AGCCGTGGTTGGTTGGGG	62.597	66.667	0.00	0.00	0.00	4.96
1331	1352	2.520741	AAGCCGTGGTTGGTTGGG	60.521	61.111	0.00	0.00	0.00	4.12
1332	1353	2.903547	CGAAGCCGTGGTTGGTTGG	61.904	63.158	0.00	0.00	0.00	3.77
1333	1354	1.890041	TCGAAGCCGTGGTTGGTTG	60.890	57.895	0.00	0.00	37.05	3.77
1334	1355	1.890510	GTCGAAGCCGTGGTTGGTT	60.891	57.895	0.00	0.00	37.05	3.67
1335	1356	2.280592	GTCGAAGCCGTGGTTGGT	60.281	61.111	0.00	0.00	37.05	3.67
1336	1357	3.047877	GGTCGAAGCCGTGGTTGG	61.048	66.667	0.00	0.00	37.05	3.77
1337	1358	2.280524	TGGTCGAAGCCGTGGTTG	60.281	61.111	0.00	0.00	37.05	3.77
1338	1359	2.030562	CTGGTCGAAGCCGTGGTT	59.969	61.111	0.00	0.00	37.05	3.67
1339	1360	4.681978	GCTGGTCGAAGCCGTGGT	62.682	66.667	0.00	0.00	37.20	4.16
1340	1361	4.680237	TGCTGGTCGAAGCCGTGG	62.680	66.667	6.64	0.00	42.83	4.94
1341	1362	3.114616	CTGCTGGTCGAAGCCGTG	61.115	66.667	6.64	0.00	42.83	4.94
1345	1366	2.437359	ATGGCTGCTGGTCGAAGC	60.437	61.111	2.02	2.02	43.82	3.86
1346	1367	2.110967	CCATGGCTGCTGGTCGAAG	61.111	63.158	0.00	0.00	0.00	3.79
1347	1368	2.046023	CCATGGCTGCTGGTCGAA	60.046	61.111	0.00	0.00	0.00	3.71
1348	1369	3.002583	TCCATGGCTGCTGGTCGA	61.003	61.111	6.96	0.00	35.19	4.20
1349	1370	2.821366	GTCCATGGCTGCTGGTCG	60.821	66.667	6.96	0.00	35.19	4.79
1350	1371	2.821366	CGTCCATGGCTGCTGGTC	60.821	66.667	6.96	2.13	35.19	4.02
1351	1372	3.196207	AACGTCCATGGCTGCTGGT	62.196	57.895	6.96	0.00	35.19	4.00
1352	1373	2.360350	AACGTCCATGGCTGCTGG	60.360	61.111	6.96	0.00	34.93	4.85
1353	1374	2.401766	GGAACGTCCATGGCTGCTG	61.402	63.158	6.96	0.00	36.28	4.41
1354	1375	2.045926	GGAACGTCCATGGCTGCT	60.046	61.111	6.96	0.00	36.28	4.24
1395	1416	4.520846	CAGTGAATTCGGCCGCGC	62.521	66.667	23.51	13.48	0.00	6.86
1396	1417	2.182614	AAACAGTGAATTCGGCCGCG	62.183	55.000	23.51	0.00	0.00	6.46
1406	1427	4.075682	TGTGACAAGGTCAAAACAGTGAA	58.924	39.130	0.00	0.00	44.49	3.18
1430	1451	5.049886	GTCGGGTTCAGTTTTCGACTAAAAT	60.050	40.000	0.00	0.00	44.38	1.82
1514	1536	0.104487	TGGTCGGCGTTTCTGTGTTA	59.896	50.000	6.85	0.00	0.00	2.41
1547	1570	2.008697	CGGCGTTTCTTTGTTGGCG	61.009	57.895	0.00	0.00	42.05	5.69
1607	1630	3.343421	GTCAGCGAAAACGGCGGT	61.343	61.111	13.24	0.00	40.43	5.68
1646	1669	2.742372	CCAGAAACGCCAGGGTCG	60.742	66.667	0.00	1.55	0.00	4.79
1720	1746	3.366739	GAAGAACGGTCGGGGCGAT	62.367	63.158	0.00	0.00	38.42	4.58
1721	1747	4.060038	GAAGAACGGTCGGGGCGA	62.060	66.667	0.00	0.00	0.00	5.54
1725	1761	1.215647	CCAGAGAAGAACGGTCGGG	59.784	63.158	0.00	0.00	0.00	5.14
1729	1765	0.597072	GTCGTCCAGAGAAGAACGGT	59.403	55.000	0.00	0.00	35.89	4.83
1731	1767	0.516001	TCGTCGTCCAGAGAAGAACG	59.484	55.000	0.00	0.00	32.03	3.95
1808	1846	3.843426	CGATCTACTCGTTTTGATGGC	57.157	47.619	0.00	0.00	42.56	4.40
1946	1986	9.228949	CCCCAAAATATTCATCAAACAAATCAA	57.771	29.630	0.00	0.00	0.00	2.57
2127	2224	7.606135	TCCCTAAGATATAAATCACGAACCA	57.394	36.000	0.00	0.00	34.28	3.67

Based at the University of Bristol with support from BBSRC.

AutoCloner maintained by Alex Coulton.