AutoCloner

Multiple sequence alignment - TraesCS3B01G503400

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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	TraesCS3B01G503400	chr3B	100.000	2339	0	0	1	2339	747503170	747500832	0.000000e+00	4320.0
1	TraesCS3B01G503400	chr3B	93.865	978	54	5	538	1515	744397406	744398377	0.000000e+00	1469.0
2	TraesCS3B01G503400	chr3B	95.097	673	22	4	1674	2339	744398373	744399041	0.000000e+00	1050.0
3	TraesCS3B01G503400	chr3B	91.566	747	61	2	614	1360	270217062	270216318	0.000000e+00	1029.0
4	TraesCS3B01G503400	chr3B	90.457	744	70	1	616	1359	418735101	418734359	0.000000e+00	979.0
5	TraesCS3B01G503400	chr3B	99.263	543	3	1	1	543	744393381	744393922	0.000000e+00	979.0
6	TraesCS3B01G503400	chr3B	91.429	70	3	2	2270	2339	214543720	214543786	2.470000e-15	93.5
7	TraesCS3B01G503400	chr3B	90.000	70	3	2	2270	2339	729736738	729736803	1.150000e-13	87.9
8	TraesCS3B01G503400	chr5D	93.396	742	47	2	620	1360	273068167	273067427	0.000000e+00	1098.0
9	TraesCS3B01G503400	chr6D	91.555	746	61	2	616	1360	413277443	413278187	0.000000e+00	1027.0
10	TraesCS3B01G503400	chr6D	88.235	187	20	2	1512	1697	452949796	452949611	3.030000e-54	222.0
11	TraesCS3B01G503400	chr1B	91.141	745	65	1	616	1360	611790203	611790946	0.000000e+00	1009.0
12	TraesCS3B01G503400	chr2D	90.701	742	66	3	620	1360	273018532	273019271	0.000000e+00	985.0
13	TraesCS3B01G503400	chr2D	92.727	165	12	0	1514	1678	446317643	446317807	3.000000e-59	239.0
14	TraesCS3B01G503400	chr2D	92.683	164	12	0	1517	1680	571949919	571950082	1.080000e-58	237.0
15	TraesCS3B01G503400	chr6A	90.336	745	70	2	616	1360	371338099	371338841	0.000000e+00	976.0
16	TraesCS3B01G503400	chr4B	90.336	745	71	1	616	1360	182287134	182286391	0.000000e+00	976.0
17	TraesCS3B01G503400	chr3A	93.557	357	20	2	241	597	696314897	696315250	1.590000e-146	529.0
18	TraesCS3B01G503400	chr3A	87.531	409	41	6	1665	2064	696316922	696317329	4.550000e-127	464.0
19	TraesCS3B01G503400	chr3A	88.811	143	14	2	1368	1510	696316790	696316930	8.590000e-40	174.0
20	TraesCS3B01G503400	chr7B	92.216	167	13	0	1513	1679	697371556	697371390	1.080000e-58	237.0
21	TraesCS3B01G503400	chr7B	88.770	187	18	3	1497	1680	577752767	577752581	2.340000e-55	226.0
22	TraesCS3B01G503400	chr7B	91.429	70	2	2	2270	2339	131090470	131090405	2.470000e-15	93.5
23	TraesCS3B01G503400	chr5B	92.169	166	13	0	1514	1679	162728425	162728590	3.890000e-58	235.0
24	TraesCS3B01G503400	chr5B	91.765	170	13	1	1511	1680	532308889	532309057	3.890000e-58	235.0
25	TraesCS3B01G503400	chr5B	92.857	70	1	2	2270	2339	656802322	656802387	5.320000e-17	99.0
26	TraesCS3B01G503400	chr5B	91.304	69	2	2	2270	2338	493883699	493883635	8.900000e-15	91.6
27	TraesCS3B01G503400	chr1D	91.667	168	14	0	1511	1678	81276352	81276519	1.400000e-57	233.0
28	TraesCS3B01G503400	chr4A	89.130	184	16	4	1498	1678	755045	755227	2.340000e-55	226.0
29	TraesCS3B01G503400	chr5A	91.667	72	2	2	2267	2338	528952394	528952461	1.910000e-16	97.1
30	TraesCS3B01G503400	chr7A	89.855	69	3	2	2270	2338	731293558	731293494	4.140000e-13	86.1

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	TraesCS3B01G503400	chr3B	747500832	747503170	2338	True	4320	4320	100.000000	1	2339	1	chr3B.!!$R3	2338
1	TraesCS3B01G503400	chr3B	744393381	744399041	5660	False	1166	1469	96.075000	1	2339	3	chr3B.!!$F3	2338
2	TraesCS3B01G503400	chr3B	270216318	270217062	744	True	1029	1029	91.566000	614	1360	1	chr3B.!!$R1	746
3	TraesCS3B01G503400	chr3B	418734359	418735101	742	True	979	979	90.457000	616	1359	1	chr3B.!!$R2	743
4	TraesCS3B01G503400	chr5D	273067427	273068167	740	True	1098	1098	93.396000	620	1360	1	chr5D.!!$R1	740
5	TraesCS3B01G503400	chr6D	413277443	413278187	744	False	1027	1027	91.555000	616	1360	1	chr6D.!!$F1	744
6	TraesCS3B01G503400	chr1B	611790203	611790946	743	False	1009	1009	91.141000	616	1360	1	chr1B.!!$F1	744
7	TraesCS3B01G503400	chr2D	273018532	273019271	739	False	985	985	90.701000	620	1360	1	chr2D.!!$F1	740
8	TraesCS3B01G503400	chr6A	371338099	371338841	742	False	976	976	90.336000	616	1360	1	chr6A.!!$F1	744
9	TraesCS3B01G503400	chr4B	182286391	182287134	743	True	976	976	90.336000	616	1360	1	chr4B.!!$R1	744
10	TraesCS3B01G503400	chr3A	696314897	696317329	2432	False	389	529	89.966333	241	2064	3	chr3A.!!$F1	1823

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
550	551	0.462047	AAAAGTAGATGAGCCGCCGG	60.462	55.0	0.0	0.0	0.0	6.13	F

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability	Orientation
1376	6210	0.038159	CCAAGACCGAGTGTGGACTC	60.038	60.0	0.0	0.0	44.7	3.36	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
190	191	1.608109	ACTGCATGCATGACGTTTGAA	59.392	42.857	30.64	0.00	0.00	2.69
320	321	6.653320	TGGATAGCACGTTTCTAAAAACTCAT	59.347	34.615	0.00	0.00	42.18	2.90
403	404	4.096231	TCCTCACATTATCGTTGCCATTTG	59.904	41.667	0.00	0.00	0.00	2.32
547	548	3.665173	CTTGAAAAGTAGATGAGCCGC	57.335	47.619	0.00	0.00	39.70	6.53
548	549	2.024176	TGAAAAGTAGATGAGCCGCC	57.976	50.000	0.00	0.00	0.00	6.13
549	550	0.931005	GAAAAGTAGATGAGCCGCCG	59.069	55.000	0.00	0.00	0.00	6.46
550	551	0.462047	AAAAGTAGATGAGCCGCCGG	60.462	55.000	0.00	0.00	0.00	6.13
551	552	1.614241	AAAGTAGATGAGCCGCCGGT	61.614	55.000	4.45	0.00	0.00	5.28
552	553	2.279517	GTAGATGAGCCGCCGGTG	60.280	66.667	8.42	8.42	0.00	4.94
553	554	4.221422	TAGATGAGCCGCCGGTGC	62.221	66.667	10.27	9.98	0.00	5.01
691	4180	7.687941	ACCAAAATGTTCGAGAAATGATAGT	57.312	32.000	0.00	0.00	0.00	2.12
718	4207	6.143206	TCTCAACTTGGTATCTATGATGGGA	58.857	40.000	0.00	0.00	0.00	4.37
748	4238	7.093945	ACGGAAATTAGTGCACAAGGAATTAAT	60.094	33.333	21.04	9.35	0.00	1.40
830	4321	4.521639	GCATCATCTTCAAAGGCATCCATA	59.478	41.667	0.00	0.00	0.00	2.74
1027	4521	4.335037	CAGAGGCCTTAGCTCTCAAATTTC	59.665	45.833	6.77	0.00	38.22	2.17
1161	5194	6.095300	TGGCAATTTTCGATGACTGTTATCAT	59.905	34.615	12.31	0.00	42.15	2.45
1455	6289	3.253230	CCAAATCTTCCAAATTGACGGC	58.747	45.455	0.00	0.00	0.00	5.68
1510	6344	3.425162	CCTTGTAGGCCAAAGAAGTCT	57.575	47.619	5.01	0.00	31.20	3.24
1515	6349	5.656213	TGTAGGCCAAAGAAGTCTAGTAC	57.344	43.478	5.01	0.00	0.00	2.73
1516	6350	5.331069	TGTAGGCCAAAGAAGTCTAGTACT	58.669	41.667	5.01	0.00	41.49	2.73
1517	6351	5.418209	TGTAGGCCAAAGAAGTCTAGTACTC	59.582	44.000	5.01	0.00	37.50	2.59
1518	6352	3.770388	AGGCCAAAGAAGTCTAGTACTCC	59.230	47.826	5.01	0.00	37.50	3.85
1519	6353	3.514309	GGCCAAAGAAGTCTAGTACTCCA	59.486	47.826	0.00	0.00	37.50	3.86
1520	6354	4.162509	GGCCAAAGAAGTCTAGTACTCCAT	59.837	45.833	0.00	0.00	37.50	3.41
1521	6355	5.353111	GCCAAAGAAGTCTAGTACTCCATC	58.647	45.833	0.00	0.00	37.50	3.51
1522	6356	5.682730	GCCAAAGAAGTCTAGTACTCCATCC	60.683	48.000	0.00	0.00	37.50	3.51
1523	6357	5.450688	CCAAAGAAGTCTAGTACTCCATCCG	60.451	48.000	0.00	0.00	37.50	4.18
1524	6358	4.506937	AGAAGTCTAGTACTCCATCCGT	57.493	45.455	0.00	0.00	37.50	4.69
1525	6359	4.857679	AGAAGTCTAGTACTCCATCCGTT	58.142	43.478	0.00	0.00	37.50	4.44
1526	6360	4.883006	AGAAGTCTAGTACTCCATCCGTTC	59.117	45.833	0.00	0.00	37.50	3.95
1527	6361	4.506937	AGTCTAGTACTCCATCCGTTCT	57.493	45.455	0.00	0.00	30.33	3.01
1528	6362	4.857679	AGTCTAGTACTCCATCCGTTCTT	58.142	43.478	0.00	0.00	30.33	2.52
1529	6363	5.999044	AGTCTAGTACTCCATCCGTTCTTA	58.001	41.667	0.00	0.00	30.33	2.10
1530	6364	6.421485	AGTCTAGTACTCCATCCGTTCTTAA	58.579	40.000	0.00	0.00	30.33	1.85
1531	6365	6.888632	AGTCTAGTACTCCATCCGTTCTTAAA	59.111	38.462	0.00	0.00	30.33	1.52
1532	6366	7.560626	AGTCTAGTACTCCATCCGTTCTTAAAT	59.439	37.037	0.00	0.00	30.33	1.40
1533	6367	8.844244	GTCTAGTACTCCATCCGTTCTTAAATA	58.156	37.037	0.00	0.00	0.00	1.40
1534	6368	9.584008	TCTAGTACTCCATCCGTTCTTAAATAT	57.416	33.333	0.00	0.00	0.00	1.28
1537	6371	9.326413	AGTACTCCATCCGTTCTTAAATATTTG	57.674	33.333	11.05	0.00	0.00	2.32
1538	6372	9.106070	GTACTCCATCCGTTCTTAAATATTTGT	57.894	33.333	11.05	0.00	0.00	2.83
1539	6373	8.209917	ACTCCATCCGTTCTTAAATATTTGTC	57.790	34.615	11.05	0.00	0.00	3.18
1540	6374	8.047310	ACTCCATCCGTTCTTAAATATTTGTCT	58.953	33.333	11.05	0.00	0.00	3.41
1541	6375	8.801882	TCCATCCGTTCTTAAATATTTGTCTT	57.198	30.769	11.05	0.00	0.00	3.01
1542	6376	9.238368	TCCATCCGTTCTTAAATATTTGTCTTT	57.762	29.630	11.05	0.00	0.00	2.52
1543	6377	9.855021	CCATCCGTTCTTAAATATTTGTCTTTT	57.145	29.630	11.05	0.00	0.00	2.27
1567	6401	9.886132	TTTTAGAGATTCTAAATGGACTACCAC	57.114	33.333	10.97	0.00	45.24	4.16
1568	6402	8.603898	TTAGAGATTCTAAATGGACTACCACA	57.396	34.615	0.00	0.00	40.20	4.17
1569	6403	9.042450	TTAGAGATTCTAAATGGACTACCACAA	57.958	33.333	0.00	0.00	40.20	3.33
1619	6453	6.415573	AGTGTAGATTCACTCATTTTACCCC	58.584	40.000	0.00	0.00	44.07	4.95
1620	6454	6.215636	AGTGTAGATTCACTCATTTTACCCCT	59.784	38.462	0.00	0.00	44.07	4.79
1621	6455	6.884836	GTGTAGATTCACTCATTTTACCCCTT	59.115	38.462	0.00	0.00	35.68	3.95
1622	6456	8.044908	GTGTAGATTCACTCATTTTACCCCTTA	58.955	37.037	0.00	0.00	35.68	2.69
1623	6457	8.778059	TGTAGATTCACTCATTTTACCCCTTAT	58.222	33.333	0.00	0.00	0.00	1.73
1630	6464	9.442062	TCACTCATTTTACCCCTTATATAGTCA	57.558	33.333	0.00	0.00	0.00	3.41
1672	6506	8.947115	AGAAAGACAAATATTTAGGAACGAAGG	58.053	33.333	0.00	0.00	0.00	3.46
1673	6507	7.625828	AAGACAAATATTTAGGAACGAAGGG	57.374	36.000	0.00	0.00	0.00	3.95
1674	6508	6.954232	AGACAAATATTTAGGAACGAAGGGA	58.046	36.000	0.00	0.00	0.00	4.20
1675	6509	7.048512	AGACAAATATTTAGGAACGAAGGGAG	58.951	38.462	0.00	0.00	0.00	4.30
1676	6510	6.718294	ACAAATATTTAGGAACGAAGGGAGT	58.282	36.000	0.00	0.00	0.00	3.85
1677	6511	7.854337	ACAAATATTTAGGAACGAAGGGAGTA	58.146	34.615	0.00	0.00	0.00	2.59
1697	6531	4.588951	AGTAATCTCCTGATGGTGCGATTA	59.411	41.667	0.00	0.00	32.62	1.75
1699	6533	1.067060	TCTCCTGATGGTGCGATTACG	59.933	52.381	0.00	0.00	37.31	3.18
1717	6551	7.618139	GCGATTACGTACAATCTCATCATCAAG	60.618	40.741	8.91	0.00	41.98	3.02
1851	6691	4.415596	TCCAAGGCTTGTTGTATGGATTT	58.584	39.130	24.57	0.00	32.28	2.17
1904	6745	5.592104	AAGGACAATGTCTTTCGGTTTTT	57.408	34.783	13.53	0.00	32.47	1.94
1970	6812	2.277084	GCCAACAGTAATGGAGGTACG	58.723	52.381	0.00	0.00	40.56	3.67
2095	6941	2.760092	CACAATACCCAAACCTCCCATG	59.240	50.000	0.00	0.00	0.00	3.66
2131	6977	7.835822	TGTGAACAAGGTCCCATATTATTTTG	58.164	34.615	0.00	0.00	0.00	2.44
2260	7106	1.164411	TGGCTTTGCGAAATGACGAT	58.836	45.000	0.00	0.00	35.09	3.73
2266	7112	4.259135	GCTTTGCGAAATGACGATCAATTG	60.259	41.667	0.00	0.00	35.09	2.32
2268	7114	2.161211	TGCGAAATGACGATCAATTGCA	59.839	40.909	0.00	2.60	35.59	4.08
2287	7133	2.025887	GCATCCTCCTCCTCCAAGAAAA	60.026	50.000	0.00	0.00	0.00	2.29
2317	7163	4.373116	GGTTCGTGCCTCTCGCCA	62.373	66.667	0.00	0.00	36.24	5.69

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
320	321	6.139679	AGGTTTGGGATGAGAGAAATACAA	57.860	37.500	0.00	0.00	0.00	2.41
547	548	3.604667	TTTGCAAGCTGGCACCGG	61.605	61.111	17.50	0.00	44.86	5.28
548	549	2.354074	AAGTTTGCAAGCTGGCACCG	62.354	55.000	17.50	0.00	44.86	4.94
549	550	0.877213	CAAGTTTGCAAGCTGGCACC	60.877	55.000	17.50	9.71	44.86	5.01
550	551	0.877213	CCAAGTTTGCAAGCTGGCAC	60.877	55.000	17.50	5.26	44.86	5.01
551	552	1.442567	CCAAGTTTGCAAGCTGGCA	59.557	52.632	13.10	13.10	43.19	4.92
552	553	1.957695	GCCAAGTTTGCAAGCTGGC	60.958	57.895	27.39	27.39	0.00	4.85
553	554	0.034337	ATGCCAAGTTTGCAAGCTGG	59.966	50.000	17.08	18.85	42.92	4.85
554	555	2.728690	TATGCCAAGTTTGCAAGCTG	57.271	45.000	17.08	10.53	42.92	4.24
557	558	5.527951	TGTAGTTTATGCCAAGTTTGCAAG	58.472	37.500	5.64	0.00	42.92	4.01
604	4093	5.047235	AGGTATTCCATTGTCGTAGATAGGC	60.047	44.000	0.00	0.00	35.59	3.93
691	4180	8.597167	CCCATCATAGATACCAAGTTGAGATAA	58.403	37.037	3.87	0.00	0.00	1.75
699	4188	6.463049	CGTCTTTCCCATCATAGATACCAAGT	60.463	42.308	0.00	0.00	0.00	3.16
718	4207	4.023193	CCTTGTGCACTAATTTCCGTCTTT	60.023	41.667	19.41	0.00	0.00	2.52
748	4238	3.891366	TGATATCTGAGTCGCATCCTGAA	59.109	43.478	3.98	0.00	0.00	3.02
839	4331	1.142688	AGGAGGACATTGCCAACCCT	61.143	55.000	0.00	0.00	0.00	4.34
942	4435	7.790782	TCCTCCTGCAATAAACCTAATTTTT	57.209	32.000	0.00	0.00	0.00	1.94
946	4440	6.324770	CCATTTCCTCCTGCAATAAACCTAAT	59.675	38.462	0.00	0.00	0.00	1.73
1027	4521	0.229753	CTTCGCGCTAATGTTAGGCG	59.770	55.000	19.99	19.99	44.36	5.52
1161	5194	7.337480	AGTCATGATAAAAGCACATGCATAA	57.663	32.000	6.64	0.00	45.16	1.90
1207	5580	6.209391	AGTTCATGTGCTACTTTATTTGCCTT	59.791	34.615	0.00	0.00	0.00	4.35
1366	6200	2.888414	GAGTGTGGACTCTAGATAGGCC	59.112	54.545	0.00	0.00	45.93	5.19
1371	6205	2.240160	AGACCGAGTGTGGACTCTAGAT	59.760	50.000	0.00	0.00	45.80	1.98
1373	6207	2.116827	AGACCGAGTGTGGACTCTAG	57.883	55.000	0.00	0.00	45.80	2.43
1374	6208	2.160205	CAAGACCGAGTGTGGACTCTA	58.840	52.381	0.00	0.00	45.80	2.43
1375	6209	0.962489	CAAGACCGAGTGTGGACTCT	59.038	55.000	0.00	0.00	45.80	3.24
1376	6210	0.038159	CCAAGACCGAGTGTGGACTC	60.038	60.000	0.00	0.00	44.70	3.36
1422	6256	3.051392	GATTTGGGCGCCGTCAAGG	62.051	63.158	22.54	0.00	44.97	3.61
1455	6289	5.006386	ACCTGAGTTGCTTCCTTTATGAAG	58.994	41.667	0.00	0.00	43.71	3.02
1473	6307	2.203337	GCCCAACTGTGCACCTGA	60.203	61.111	15.69	0.00	0.00	3.86
1515	6349	8.438676	AGACAAATATTTAAGAACGGATGGAG	57.561	34.615	0.00	0.00	0.00	3.86
1516	6350	8.801882	AAGACAAATATTTAAGAACGGATGGA	57.198	30.769	0.00	0.00	0.00	3.41
1517	6351	9.855021	AAAAGACAAATATTTAAGAACGGATGG	57.145	29.630	0.00	0.00	0.00	3.51
1543	6377	8.603898	TGTGGTAGTCCATTTAGAATCTCTAA	57.396	34.615	0.00	0.00	46.20	2.10
1544	6378	8.603898	TTGTGGTAGTCCATTTAGAATCTCTA	57.396	34.615	0.00	0.00	46.20	2.43
1545	6379	7.496346	TTGTGGTAGTCCATTTAGAATCTCT	57.504	36.000	0.00	0.00	46.20	3.10
1546	6380	8.616076	CATTTGTGGTAGTCCATTTAGAATCTC	58.384	37.037	0.00	0.00	46.20	2.75
1547	6381	7.557719	CCATTTGTGGTAGTCCATTTAGAATCT	59.442	37.037	0.00	0.00	46.20	2.40
1548	6382	7.556275	TCCATTTGTGGTAGTCCATTTAGAATC	59.444	37.037	0.00	0.00	46.20	2.52
1549	6383	7.410174	TCCATTTGTGGTAGTCCATTTAGAAT	58.590	34.615	0.00	0.00	46.20	2.40
1550	6384	6.785076	TCCATTTGTGGTAGTCCATTTAGAA	58.215	36.000	0.00	0.00	46.20	2.10
1551	6385	6.381498	TCCATTTGTGGTAGTCCATTTAGA	57.619	37.500	0.00	0.00	46.20	2.10
1552	6386	6.603201	ACATCCATTTGTGGTAGTCCATTTAG	59.397	38.462	0.00	0.00	46.20	1.85
1553	6387	6.489603	ACATCCATTTGTGGTAGTCCATTTA	58.510	36.000	0.00	0.00	46.20	1.40
1554	6388	5.332743	ACATCCATTTGTGGTAGTCCATTT	58.667	37.500	0.00	0.00	46.20	2.32
1555	6389	4.934356	ACATCCATTTGTGGTAGTCCATT	58.066	39.130	0.00	0.00	46.20	3.16
1556	6390	4.591321	ACATCCATTTGTGGTAGTCCAT	57.409	40.909	0.00	0.00	46.20	3.41
1557	6391	5.708736	ATACATCCATTTGTGGTAGTCCA	57.291	39.130	0.00	0.00	42.05	4.02
1558	6392	8.812972	TCTATATACATCCATTTGTGGTAGTCC	58.187	37.037	0.00	0.00	0.00	3.85
1559	6393	9.640963	GTCTATATACATCCATTTGTGGTAGTC	57.359	37.037	0.00	0.00	0.00	2.59
1560	6394	9.154632	TGTCTATATACATCCATTTGTGGTAGT	57.845	33.333	0.00	0.00	0.00	2.73
1596	6430	6.415573	AGGGGTAAAATGAGTGAATCTACAC	58.584	40.000	0.00	0.00	40.60	2.90
1597	6431	6.636454	AGGGGTAAAATGAGTGAATCTACA	57.364	37.500	0.00	0.00	0.00	2.74
1604	6438	9.442062	TGACTATATAAGGGGTAAAATGAGTGA	57.558	33.333	0.00	0.00	0.00	3.41
1646	6480	8.947115	CCTTCGTTCCTAAATATTTGTCTTTCT	58.053	33.333	11.05	0.00	0.00	2.52
1647	6481	8.182227	CCCTTCGTTCCTAAATATTTGTCTTTC	58.818	37.037	11.05	0.00	0.00	2.62
1648	6482	7.886446	TCCCTTCGTTCCTAAATATTTGTCTTT	59.114	33.333	11.05	0.00	0.00	2.52
1649	6483	7.399634	TCCCTTCGTTCCTAAATATTTGTCTT	58.600	34.615	11.05	0.00	0.00	3.01
1650	6484	6.954232	TCCCTTCGTTCCTAAATATTTGTCT	58.046	36.000	11.05	0.00	0.00	3.41
1651	6485	6.822170	ACTCCCTTCGTTCCTAAATATTTGTC	59.178	38.462	11.05	0.00	0.00	3.18
1652	6486	6.718294	ACTCCCTTCGTTCCTAAATATTTGT	58.282	36.000	11.05	0.00	0.00	2.83
1653	6487	8.726870	TTACTCCCTTCGTTCCTAAATATTTG	57.273	34.615	11.05	1.40	0.00	2.32
1654	6488	9.557061	GATTACTCCCTTCGTTCCTAAATATTT	57.443	33.333	5.89	5.89	0.00	1.40
1655	6489	8.935741	AGATTACTCCCTTCGTTCCTAAATATT	58.064	33.333	0.00	0.00	0.00	1.28
1656	6490	8.493787	AGATTACTCCCTTCGTTCCTAAATAT	57.506	34.615	0.00	0.00	0.00	1.28
1657	6491	7.909485	AGATTACTCCCTTCGTTCCTAAATA	57.091	36.000	0.00	0.00	0.00	1.40
1658	6492	6.809976	AGATTACTCCCTTCGTTCCTAAAT	57.190	37.500	0.00	0.00	0.00	1.40
1659	6493	6.218108	GAGATTACTCCCTTCGTTCCTAAA	57.782	41.667	0.00	0.00	37.19	1.85
1660	6494	5.848833	GAGATTACTCCCTTCGTTCCTAA	57.151	43.478	0.00	0.00	37.19	2.69
1673	6507	2.362397	TCGCACCATCAGGAGATTACTC	59.638	50.000	0.00	0.00	41.94	2.59
1674	6508	2.388735	TCGCACCATCAGGAGATTACT	58.611	47.619	0.00	0.00	38.69	2.24
1675	6509	2.890808	TCGCACCATCAGGAGATTAC	57.109	50.000	0.00	0.00	38.69	1.89
1676	6510	4.558697	CGTAATCGCACCATCAGGAGATTA	60.559	45.833	0.00	0.00	37.77	1.75
1677	6511	3.733337	GTAATCGCACCATCAGGAGATT	58.267	45.455	0.00	0.00	38.96	2.40
1697	6531	5.344743	ACCTTGATGATGAGATTGTACGT	57.655	39.130	0.00	0.00	0.00	3.57
1699	6533	5.352284	ACGACCTTGATGATGAGATTGTAC	58.648	41.667	0.00	0.00	0.00	2.90
1717	6551	3.312697	GGGCTTAAATCTCAATGACGACC	59.687	47.826	0.00	0.00	0.00	4.79
1851	6691	2.622942	ACAATCTCCAAGCGAAAAAGCA	59.377	40.909	0.00	0.00	40.15	3.91
1904	6745	3.089838	CTCCATGGCTTGGGGTCA	58.910	61.111	18.35	0.00	46.45	4.02
1970	6812	5.609423	AGTGACATGGATCTCTTTATGAGC	58.391	41.667	0.00	0.00	42.38	4.26
2038	6880	1.600636	CCGTGGCTTGCTTGGAAGA	60.601	57.895	6.07	0.00	0.00	2.87
2095	6941	3.194755	ACCTTGTTCACAAACCAAAGGAC	59.805	43.478	11.99	0.00	39.34	3.85
2131	6977	2.229784	CAGTGTCAAAGGAGGGAAATGC	59.770	50.000	0.00	0.00	0.00	3.56
2260	7106	1.492176	GGAGGAGGAGGATGCAATTGA	59.508	52.381	10.34	0.00	0.00	2.57
2266	7112	1.207791	TTCTTGGAGGAGGAGGATGC	58.792	55.000	0.00	0.00	0.00	3.91
2287	7133	3.817084	GGCACGAACCCTAACTAACTTTT	59.183	43.478	0.00	0.00	0.00	2.27
2290	7136	2.233186	GAGGCACGAACCCTAACTAACT	59.767	50.000	0.00	0.00	31.41	2.24
2291	7137	2.233186	AGAGGCACGAACCCTAACTAAC	59.767	50.000	0.00	0.00	31.41	2.34
2292	7138	2.494870	GAGAGGCACGAACCCTAACTAA	59.505	50.000	0.00	0.00	31.41	2.24
2293	7139	2.097825	GAGAGGCACGAACCCTAACTA	58.902	52.381	0.00	0.00	31.41	2.24

Based at the University of Bristol with support from BBSRC.

AutoCloner maintained by Alex Coulton.