AutoCloner

Multiple sequence alignment - TraesCS3D01G292400

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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	TraesCS3D01G292400	chr3D	100.000	2899	0	0	1	2899	402538855	402535957	0.000000e+00	5354
1	TraesCS3D01G292400	chr3D	93.252	1067	52	14	418	1476	416996955	416998009	0.000000e+00	1554
2	TraesCS3D01G292400	chr3D	94.450	991	44	9	1398	2379	332615969	332616957	0.000000e+00	1515
3	TraesCS3D01G292400	chr3D	92.681	1052	51	7	1339	2387	416998044	416999072	0.000000e+00	1493
4	TraesCS3D01G292400	chr3D	94.776	402	18	2	1	399	577479351	577478950	8.820000e-175	623
5	TraesCS3D01G292400	chr5A	89.315	1928	127	40	477	2379	207174424	207172551	0.000000e+00	2346
6	TraesCS3D01G292400	chr3A	88.983	1779	101	41	629	2379	467367383	467365672	0.000000e+00	2111
7	TraesCS3D01G292400	chr3A	93.133	1063	53	13	422	1476	217702918	217703968	0.000000e+00	1541
8	TraesCS3D01G292400	chr3A	90.846	1005	68	16	478	1476	403924632	403923646	0.000000e+00	1325
9	TraesCS3D01G292400	chr7D	94.799	1346	54	7	1050	2379	581612684	581611339	0.000000e+00	2084
10	TraesCS3D01G292400	chr7D	92.764	1078	60	8	422	1493	259963424	259962359	0.000000e+00	1543
11	TraesCS3D01G292400	chr7D	95.675	948	34	3	1432	2379	572476831	572477771	0.000000e+00	1517
12	TraesCS3D01G292400	chr7D	92.898	1042	51	4	1339	2379	129102933	129101914	0.000000e+00	1493
13	TraesCS3D01G292400	chr7D	95.739	399	14	2	1	396	572475251	572475649	8.760000e-180	640
14	TraesCS3D01G292400	chr4D	93.161	1082	55	12	422	1496	369990284	369989215	0.000000e+00	1570
15	TraesCS3D01G292400	chr4D	92.726	1086	61	14	422	1493	246480930	246482011	0.000000e+00	1552
16	TraesCS3D01G292400	chr4D	93.397	1045	47	3	1339	2382	369989218	369988195	0.000000e+00	1528
17	TraesCS3D01G292400	chr4D	92.823	1059	60	12	422	1476	159758024	159756978	0.000000e+00	1520
18	TraesCS3D01G292400	chr4D	93.307	1031	48	2	1349	2379	33036789	33037798	0.000000e+00	1502
19	TraesCS3D01G292400	chr4D	94.015	518	31	0	2380	2897	327926363	327926880	0.000000e+00	785
20	TraesCS3D01G292400	chr4D	94.015	518	31	0	2380	2897	363916736	363917253	0.000000e+00	785
21	TraesCS3D01G292400	chr4D	93.834	519	31	1	2380	2897	359214448	359214966	0.000000e+00	780
22	TraesCS3D01G292400	chr5D	92.984	1069	56	15	422	1476	222124573	222123510	0.000000e+00	1541
23	TraesCS3D01G292400	chr5D	93.822	518	32	0	2380	2897	170331419	170331936	0.000000e+00	780
24	TraesCS3D01G292400	chr5D	93.822	518	32	0	2380	2897	450708171	450707654	0.000000e+00	780
25	TraesCS3D01G292400	chr5D	95.767	378	13	2	21	396	360128610	360128986	8.880000e-170	606
26	TraesCS3D01G292400	chr2D	92.844	1062	54	14	422	1476	240628991	240627945	0.000000e+00	1520
27	TraesCS3D01G292400	chr2D	93.678	522	32	1	2377	2897	239747322	239747843	0.000000e+00	780
28	TraesCS3D01G292400	chr6D	92.561	1062	59	14	422	1476	30919853	30920901	0.000000e+00	1506
29	TraesCS3D01G292400	chr6D	94.015	518	29	2	2380	2897	49480400	49479885	0.000000e+00	784
30	TraesCS3D01G292400	chr6D	95.238	399	15	3	1	396	61990016	61990413	1.900000e-176	628
31	TraesCS3D01G292400	chr6D	93.701	381	22	1	21	399	372423788	372423408	1.170000e-158	569
32	TraesCS3D01G292400	chr1A	92.925	1046	51	4	1339	2383	520164044	520163021	0.000000e+00	1500
33	TraesCS3D01G292400	chr1A	92.126	381	26	3	21	399	520174032	520173654	4.250000e-148	534
34	TraesCS3D01G292400	chr1D	92.706	1042	51	5	1339	2379	483538282	483539299	0.000000e+00	1480
35	TraesCS3D01G292400	chr1D	93.810	517	32	0	2381	2897	250278243	250278759	0.000000e+00	778
36	TraesCS3D01G292400	chr2A	91.101	854	63	10	629	1476	269655873	269655027	0.000000e+00	1144
37	TraesCS3D01G292400	chr2A	93.734	399	22	2	1	396	59582653	59583051	1.920000e-166	595
38	TraesCS3D01G292400	chr2A	94.000	100	5	1	1	99	360762592	360762493	1.800000e-32	150
39	TraesCS3D01G292400	chr7A	91.749	812	48	13	672	1476	46039467	46040266	0.000000e+00	1110
40	TraesCS3D01G292400	chrUn	90.035	863	61	16	629	1476	7380964	7380112	0.000000e+00	1094
41	TraesCS3D01G292400	chr5B	89.895	861	66	15	629	1476	58297642	58298494	0.000000e+00	1088
42	TraesCS3D01G292400	chr7B	94.208	518	29	1	2380	2897	515649314	515649830	0.000000e+00	789
43	TraesCS3D01G292400	chr4A	95.706	326	12	2	71	394	676926682	676927007	9.200000e-145	523
44	TraesCS3D01G292400	chr2B	94.172	326	17	1	71	394	670846058	670846383	2.010000e-136	496
45	TraesCS3D01G292400	chr2B	91.270	126	10	1	1	125	701706245	701706370	1.380000e-38	171

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	TraesCS3D01G292400	chr3D	402535957	402538855	2898	True	5354.0	5354	100.0000	1	2899	1	chr3D.!!$R1	2898
1	TraesCS3D01G292400	chr3D	416996955	416999072	2117	False	1523.5	1554	92.9665	418	2387	2	chr3D.!!$F2	1969
2	TraesCS3D01G292400	chr3D	332615969	332616957	988	False	1515.0	1515	94.4500	1398	2379	1	chr3D.!!$F1	981
3	TraesCS3D01G292400	chr5A	207172551	207174424	1873	True	2346.0	2346	89.3150	477	2379	1	chr5A.!!$R1	1902
4	TraesCS3D01G292400	chr3A	467365672	467367383	1711	True	2111.0	2111	88.9830	629	2379	1	chr3A.!!$R2	1750
5	TraesCS3D01G292400	chr3A	217702918	217703968	1050	False	1541.0	1541	93.1330	422	1476	1	chr3A.!!$F1	1054
6	TraesCS3D01G292400	chr3A	403923646	403924632	986	True	1325.0	1325	90.8460	478	1476	1	chr3A.!!$R1	998
7	TraesCS3D01G292400	chr7D	581611339	581612684	1345	True	2084.0	2084	94.7990	1050	2379	1	chr7D.!!$R3	1329
8	TraesCS3D01G292400	chr7D	259962359	259963424	1065	True	1543.0	1543	92.7640	422	1493	1	chr7D.!!$R2	1071
9	TraesCS3D01G292400	chr7D	129101914	129102933	1019	True	1493.0	1493	92.8980	1339	2379	1	chr7D.!!$R1	1040
10	TraesCS3D01G292400	chr7D	572475251	572477771	2520	False	1078.5	1517	95.7070	1	2379	2	chr7D.!!$F1	2378
11	TraesCS3D01G292400	chr4D	246480930	246482011	1081	False	1552.0	1552	92.7260	422	1493	1	chr4D.!!$F2	1071
12	TraesCS3D01G292400	chr4D	369988195	369990284	2089	True	1549.0	1570	93.2790	422	2382	2	chr4D.!!$R2	1960
13	TraesCS3D01G292400	chr4D	159756978	159758024	1046	True	1520.0	1520	92.8230	422	1476	1	chr4D.!!$R1	1054
14	TraesCS3D01G292400	chr4D	33036789	33037798	1009	False	1502.0	1502	93.3070	1349	2379	1	chr4D.!!$F1	1030
15	TraesCS3D01G292400	chr4D	327926363	327926880	517	False	785.0	785	94.0150	2380	2897	1	chr4D.!!$F3	517
16	TraesCS3D01G292400	chr4D	363916736	363917253	517	False	785.0	785	94.0150	2380	2897	1	chr4D.!!$F5	517
17	TraesCS3D01G292400	chr4D	359214448	359214966	518	False	780.0	780	93.8340	2380	2897	1	chr4D.!!$F4	517
18	TraesCS3D01G292400	chr5D	222123510	222124573	1063	True	1541.0	1541	92.9840	422	1476	1	chr5D.!!$R1	1054
19	TraesCS3D01G292400	chr5D	170331419	170331936	517	False	780.0	780	93.8220	2380	2897	1	chr5D.!!$F1	517
20	TraesCS3D01G292400	chr5D	450707654	450708171	517	True	780.0	780	93.8220	2380	2897	1	chr5D.!!$R2	517
21	TraesCS3D01G292400	chr2D	240627945	240628991	1046	True	1520.0	1520	92.8440	422	1476	1	chr2D.!!$R1	1054
22	TraesCS3D01G292400	chr2D	239747322	239747843	521	False	780.0	780	93.6780	2377	2897	1	chr2D.!!$F1	520
23	TraesCS3D01G292400	chr6D	30919853	30920901	1048	False	1506.0	1506	92.5610	422	1476	1	chr6D.!!$F1	1054
24	TraesCS3D01G292400	chr6D	49479885	49480400	515	True	784.0	784	94.0150	2380	2897	1	chr6D.!!$R1	517
25	TraesCS3D01G292400	chr1A	520163021	520164044	1023	True	1500.0	1500	92.9250	1339	2383	1	chr1A.!!$R1	1044
26	TraesCS3D01G292400	chr1D	483538282	483539299	1017	False	1480.0	1480	92.7060	1339	2379	1	chr1D.!!$F2	1040
27	TraesCS3D01G292400	chr1D	250278243	250278759	516	False	778.0	778	93.8100	2381	2897	1	chr1D.!!$F1	516
28	TraesCS3D01G292400	chr2A	269655027	269655873	846	True	1144.0	1144	91.1010	629	1476	1	chr2A.!!$R1	847
29	TraesCS3D01G292400	chr7A	46039467	46040266	799	False	1110.0	1110	91.7490	672	1476	1	chr7A.!!$F1	804
30	TraesCS3D01G292400	chrUn	7380112	7380964	852	True	1094.0	1094	90.0350	629	1476	1	chrUn.!!$R1	847
31	TraesCS3D01G292400	chr5B	58297642	58298494	852	False	1088.0	1088	89.8950	629	1476	1	chr5B.!!$F1	847
32	TraesCS3D01G292400	chr7B	515649314	515649830	516	False	789.0	789	94.2080	2380	2897	1	chr7B.!!$F1	517

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
154	158	0.040058	TAGGAGGTTAGCCGGTGACA	59.960	55.0	1.9	0.0	40.5	3.58	F
1226	1365	0.039180	TTGAGCGAGGAGGAGGTGTA	59.961	55.0	0.0	0.0	0.0	2.90	F

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability	Orientation
1755	2305	1.425267	TTGAAGTGTGTGCGACCGTG	61.425	55.0	0.00	0.0	0.00	4.94	R
2694	3290	0.880278	TATGGCTTGCCGATTCTCGC	60.880	55.0	7.18	0.0	38.82	5.03	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
37	39	2.037367	AGAGGCGTAGACCAGGCA	59.963	61.111	0.00	0.00	39.87	4.75
54	56	1.156645	GCATGAGTTGGGCTAGAGCG	61.157	60.000	0.00	0.00	43.26	5.03
64	66	1.134670	GGGCTAGAGCGGGCATATTAG	60.135	57.143	0.00	0.00	43.26	1.73
73	75	2.483889	GCGGGCATATTAGATAGAGGCC	60.484	54.545	0.00	0.00	39.18	5.19
154	158	0.040058	TAGGAGGTTAGCCGGTGACA	59.960	55.000	1.90	0.00	40.50	3.58
193	197	1.535462	CCGGCCGTTAATGGAATGATC	59.465	52.381	26.12	0.00	0.00	2.92
215	219	3.330267	GACCCAAATCGCTATCCATCTC	58.670	50.000	0.00	0.00	0.00	2.75
226	230	4.252073	GCTATCCATCTCATGCTGTTAGG	58.748	47.826	0.00	0.00	0.00	2.69
299	303	6.674419	AGAGTTGTATCTGATCTAAAAGGGGT	59.326	38.462	0.00	0.00	0.00	4.95
322	326	7.597369	GGGTGTGTTTGCCTTTTATAGTTTTAG	59.403	37.037	0.00	0.00	0.00	1.85
396	400	2.096713	GTGAATCTTGTGTCGTGCTGTC	60.097	50.000	0.00	0.00	0.00	3.51
399	403	3.660501	ATCTTGTGTCGTGCTGTCTTA	57.339	42.857	0.00	0.00	0.00	2.10
400	404	3.660501	TCTTGTGTCGTGCTGTCTTAT	57.339	42.857	0.00	0.00	0.00	1.73
401	405	3.990092	TCTTGTGTCGTGCTGTCTTATT	58.010	40.909	0.00	0.00	0.00	1.40
403	407	5.720202	TCTTGTGTCGTGCTGTCTTATTAT	58.280	37.500	0.00	0.00	0.00	1.28
404	408	5.576774	TCTTGTGTCGTGCTGTCTTATTATG	59.423	40.000	0.00	0.00	0.00	1.90
405	409	3.616821	TGTGTCGTGCTGTCTTATTATGC	59.383	43.478	0.00	0.00	0.00	3.14
406	410	3.001330	GTGTCGTGCTGTCTTATTATGCC	59.999	47.826	0.00	0.00	0.00	4.40
407	411	3.194861	GTCGTGCTGTCTTATTATGCCA	58.805	45.455	0.00	0.00	0.00	4.92
408	412	3.621268	GTCGTGCTGTCTTATTATGCCAA	59.379	43.478	0.00	0.00	0.00	4.52
410	414	4.332543	TCGTGCTGTCTTATTATGCCAAAG	59.667	41.667	0.00	0.00	0.00	2.77
412	416	4.399303	GTGCTGTCTTATTATGCCAAAGGT	59.601	41.667	0.00	0.00	0.00	3.50
413	417	4.398988	TGCTGTCTTATTATGCCAAAGGTG	59.601	41.667	0.00	0.00	0.00	4.00
595	709	7.181569	TGTGTATTCTCTATGATGTGAACCA	57.818	36.000	0.00	0.00	0.00	3.67
799	927	1.801512	GTTTTCTTCATGCGGCGGC	60.802	57.895	9.78	9.68	40.52	6.53
934	1067	2.548057	GTCGGAATTCAACAAGCTGACA	59.452	45.455	7.93	0.00	35.49	3.58
1136	1275	1.879380	TGTCAACAAAGCGGAAGATGG	59.121	47.619	0.00	0.00	0.00	3.51
1226	1365	0.039180	TTGAGCGAGGAGGAGGTGTA	59.961	55.000	0.00	0.00	0.00	2.90
1267	1406	1.299850	CCACGTGCTGACTTCGTCA	60.300	57.895	10.91	0.00	40.50	4.35
1369	1526	9.772973	ATTTGATGATATGCATGCTTTATTGTT	57.227	25.926	20.33	5.49	37.34	2.83
1380	1537	9.173021	TGCATGCTTTATTGTTATACTTAGTGT	57.827	29.630	20.33	0.00	0.00	3.55
1389	1546	8.743085	ATTGTTATACTTAGTGTAGAGTCCGA	57.257	34.615	0.00	0.00	34.24	4.55
1390	1547	8.743085	TTGTTATACTTAGTGTAGAGTCCGAT	57.257	34.615	0.00	0.00	34.24	4.18
1391	1548	8.151141	TGTTATACTTAGTGTAGAGTCCGATG	57.849	38.462	0.00	0.00	34.24	3.84
1392	1549	7.989170	TGTTATACTTAGTGTAGAGTCCGATGA	59.011	37.037	0.00	0.00	34.24	2.92
1393	1550	9.001542	GTTATACTTAGTGTAGAGTCCGATGAT	57.998	37.037	0.00	0.00	34.24	2.45
1461	1965	9.973450	ATATGCTTAGTGAATCCGATGATATAC	57.027	33.333	0.00	0.00	0.00	1.47
1467	1971	7.410120	AGTGAATCCGATGATATACATGCTA	57.590	36.000	0.00	0.00	39.56	3.49
1496	2043	7.862873	TGAATCCGATGATATATATGCTTCGTC	59.137	37.037	18.19	11.39	0.00	4.20
1651	2201	7.537596	TTCTTATTCAGGAATTGCCAAAGAA	57.462	32.000	10.58	10.58	40.02	2.52
1680	2230	3.618690	AGAGTTGTGGTATCAAGCCTC	57.381	47.619	0.00	0.00	0.00	4.70
1698	2248	2.433604	CCTCATGAAGAAGGCTCTGCTA	59.566	50.000	0.00	0.00	30.03	3.49
1709	2259	1.887198	GGCTCTGCTAGAATACGCCTA	59.113	52.381	0.00	0.00	31.38	3.93
1790	2340	0.179040	TCAACTCGGTTGGGTGGAAC	60.179	55.000	14.23	0.00	42.99	3.62
1858	2408	2.038863	ACTATCAGGAACACCCACCA	57.961	50.000	0.00	0.00	37.41	4.17
2230	2825	7.719871	AGTAGTAGCATTGGTAGAGAAAGAA	57.280	36.000	0.00	0.00	0.00	2.52
2393	2989	5.880887	TCTAGTAGTGCTTCTCTCGAATTGA	59.119	40.000	0.00	0.00	0.00	2.57
2408	3004	6.873605	TCTCGAATTGAAAAGTAGCTCATCAA	59.126	34.615	0.00	0.00	34.80	2.57
2410	3006	7.870826	TCGAATTGAAAAGTAGCTCATCAAAA	58.129	30.769	0.00	0.00	34.09	2.44
2597	3193	4.460382	ACGAACCTACGAACTATGAGGAAA	59.540	41.667	0.00	0.00	37.03	3.13
2648	3244	2.723322	TGAGGCCATGAAATCTGAGG	57.277	50.000	5.01	0.00	0.00	3.86
2694	3290	1.021202	TGGACTTTGGTTGACTTGCG	58.979	50.000	0.00	0.00	0.00	4.85
2698	3294	0.384725	CTTTGGTTGACTTGCGCGAG	60.385	55.000	23.34	23.34	0.00	5.03
2699	3295	0.812014	TTTGGTTGACTTGCGCGAGA	60.812	50.000	31.19	6.82	0.00	4.04
2831	3427	4.079970	AGGAGTTGACTACGATGAGACAA	58.920	43.478	0.00	0.00	0.00	3.18
2857	3453	1.488527	CCGTAGCGATGCTTAAGTCC	58.511	55.000	4.02	0.00	40.44	3.85
2897	3494	8.524870	AGAAATTGCCGCATTTTATGATTATC	57.475	30.769	12.08	0.23	0.00	1.75
2898	3495	8.143193	AGAAATTGCCGCATTTTATGATTATCA	58.857	29.630	12.08	0.00	0.00	2.15

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
27	29	0.911769	CCCAACTCATGCCTGGTCTA	59.088	55.000	0.00	0.00	0.00	2.59
37	39	1.690219	CCCGCTCTAGCCCAACTCAT	61.690	60.000	0.00	0.00	37.91	2.90
54	56	4.033709	TCTGGCCTCTATCTAATATGCCC	58.966	47.826	3.32	0.00	36.58	5.36
64	66	0.249657	CAACCGCTCTGGCCTCTATC	60.250	60.000	3.32	0.00	43.94	2.08
73	75	0.169672	CCTTTGCATCAACCGCTCTG	59.830	55.000	0.00	0.00	0.00	3.35
154	158	1.153289	GTGCTGGTGGATCGATGCT	60.153	57.895	18.23	0.00	0.00	3.79
193	197	2.069273	GATGGATAGCGATTTGGGTCG	58.931	52.381	0.00	0.00	44.14	4.79
215	219	0.184451	ATGGGCTCCCTAACAGCATG	59.816	55.000	6.50	0.00	38.77	4.06
226	230	5.555966	TGAAATTTACCAAAAATGGGCTCC	58.444	37.500	0.00	0.00	0.00	4.70
396	400	5.598005	TCCATTCCACCTTTGGCATAATAAG	59.402	40.000	0.00	0.00	43.56	1.73
399	403	3.992999	TCCATTCCACCTTTGGCATAAT	58.007	40.909	0.00	0.00	43.56	1.28
400	404	3.464720	TCCATTCCACCTTTGGCATAA	57.535	42.857	0.00	0.00	43.56	1.90
401	405	3.053019	TCATCCATTCCACCTTTGGCATA	60.053	43.478	0.00	0.00	43.56	3.14
403	407	1.076841	TCATCCATTCCACCTTTGGCA	59.923	47.619	0.00	0.00	43.56	4.92
404	408	1.851304	TCATCCATTCCACCTTTGGC	58.149	50.000	0.00	0.00	43.56	4.52
405	409	3.434309	AGTTCATCCATTCCACCTTTGG	58.566	45.455	0.00	0.00	45.56	3.28
406	410	5.256474	AGTAGTTCATCCATTCCACCTTTG	58.744	41.667	0.00	0.00	0.00	2.77
407	411	5.520748	AGTAGTTCATCCATTCCACCTTT	57.479	39.130	0.00	0.00	0.00	3.11
408	412	5.520748	AAGTAGTTCATCCATTCCACCTT	57.479	39.130	0.00	0.00	0.00	3.50
410	414	5.622233	GCAAAAGTAGTTCATCCATTCCACC	60.622	44.000	0.00	0.00	0.00	4.61
412	416	5.324409	AGCAAAAGTAGTTCATCCATTCCA	58.676	37.500	0.00	0.00	0.00	3.53
413	417	5.904362	AGCAAAAGTAGTTCATCCATTCC	57.096	39.130	0.00	0.00	0.00	3.01
415	419	6.655078	ACAAGCAAAAGTAGTTCATCCATT	57.345	33.333	0.00	0.00	0.00	3.16
416	420	6.655078	AACAAGCAAAAGTAGTTCATCCAT	57.345	33.333	0.00	0.00	0.00	3.41
418	422	5.175673	GCAAACAAGCAAAAGTAGTTCATCC	59.824	40.000	0.00	0.00	0.00	3.51
419	423	5.979517	AGCAAACAAGCAAAAGTAGTTCATC	59.020	36.000	0.00	0.00	36.85	2.92
934	1067	4.285863	CCTCAAAGGTCATAGAGTCTCCT	58.714	47.826	0.00	0.00	0.00	3.69
1038	1173	1.451207	GGTGATACGCATGTGGGCA	60.451	57.895	11.65	2.62	0.00	5.36
1136	1275	3.922910	TCATCATCCTCATCATCTTCGC	58.077	45.455	0.00	0.00	0.00	4.70
1226	1365	4.714632	CGGAATTATGTCCCATAGGTTGT	58.285	43.478	0.00	0.00	33.74	3.32
1267	1406	2.351276	GGTCACGAATGGCACCCT	59.649	61.111	0.00	0.00	29.15	4.34
1461	1965	8.883954	ATATATCATCGGATTCACTTAGCATG	57.116	34.615	0.00	0.00	34.89	4.06
1467	1971	9.539825	GAAGCATATATATCATCGGATTCACTT	57.460	33.333	0.00	0.00	34.89	3.16
1575	2125	8.773645	CACACATTCTACACTATCAAAAGACAA	58.226	33.333	0.00	0.00	0.00	3.18
1638	2188	7.554476	ACTCTTAGATAGGTTCTTTGGCAATTC	59.446	37.037	0.00	0.00	35.79	2.17
1651	2201	7.418025	GCTTGATACCACAACTCTTAGATAGGT	60.418	40.741	0.00	0.00	0.00	3.08
1680	2230	3.815856	TCTAGCAGAGCCTTCTTCATG	57.184	47.619	0.00	0.00	0.00	3.07
1755	2305	1.425267	TTGAAGTGTGTGCGACCGTG	61.425	55.000	0.00	0.00	0.00	4.94
1790	2340	2.048222	TTGCCGACGAGGAAGCTG	60.048	61.111	0.00	0.00	45.00	4.24
1858	2408	1.918262	TCATCATCCTCAAGCCTTGGT	59.082	47.619	4.30	0.00	0.00	3.67
2215	2810	3.618690	AGCGCTTCTTTCTCTACCAAT	57.381	42.857	2.64	0.00	0.00	3.16
2230	2825	7.140048	CAGCTAAAATACTTAGTAGTAGCGCT	58.860	38.462	17.26	17.26	40.09	5.92
2410	3006	2.632512	AGGCATCACGGGAACAATTTTT	59.367	40.909	0.00	0.00	0.00	1.94
2597	3193	1.071385	GGAATCTGGGCTCATCATCGT	59.929	52.381	0.00	0.00	0.00	3.73
2648	3244	4.422073	TGTTCTCATACATGGATCCCAC	57.578	45.455	9.90	0.00	35.80	4.61
2694	3290	0.880278	TATGGCTTGCCGATTCTCGC	60.880	55.000	7.18	0.00	38.82	5.03
2698	3294	2.533266	TCTCTATGGCTTGCCGATTC	57.467	50.000	7.18	0.00	0.00	2.52
2699	3295	3.498774	ATTCTCTATGGCTTGCCGATT	57.501	42.857	7.18	0.00	0.00	3.34
2736	3332	2.279582	ACCATCAGCGTTAGTCTTCG	57.720	50.000	0.00	0.00	0.00	3.79
2744	3340	4.575885	ACAGTAACATTACCATCAGCGTT	58.424	39.130	0.00	0.00	34.19	4.84
2831	3427	1.109920	AGCATCGCTACGGGTCAGAT	61.110	55.000	0.00	0.00	36.99	2.90
2857	3453	5.452302	GGCAATTTCTAACATGATTCGAACG	59.548	40.000	0.00	0.00	0.00	3.95

Based at the University of Bristol with support from BBSRC.

AutoCloner maintained by Alex Coulton.