AutoCloner

Multiple sequence alignment - TraesCS6D01G085000

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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	TraesCS6D01G085000	chr6D	100.000	3011	0	0	792	3802	50604069	50607079	0.000000e+00	5561
1	TraesCS6D01G085000	chr6D	89.843	1851	156	12	1664	3514	49182630	49184448	0.000000e+00	2348
2	TraesCS6D01G085000	chr6D	86.149	1379	177	9	1811	3179	50179786	50181160	0.000000e+00	1476
3	TraesCS6D01G085000	chr6D	87.355	862	85	10	792	1651	49181696	49182535	0.000000e+00	966
4	TraesCS6D01G085000	chr6D	100.000	426	0	0	1	426	50603278	50603703	0.000000e+00	787
5	TraesCS6D01G085000	chr6D	88.477	486	42	8	3237	3714	50181269	50181748	3.290000e-160	575
6	TraesCS6D01G085000	chr6D	91.667	72	5	1	3728	3799	49192321	49192391	8.690000e-17	99
7	TraesCS6D01G085000	chr6A	93.864	3015	174	7	792	3802	64680662	64677655	0.000000e+00	4532
8	TraesCS6D01G085000	chr6A	83.823	1533	196	27	1670	3164	577723486	577721968	0.000000e+00	1410
9	TraesCS6D01G085000	chr6A	85.126	1385	192	9	1814	3189	64908461	64907082	0.000000e+00	1404
10	TraesCS6D01G085000	chr6A	90.000	480	40	6	3237	3714	64906983	64906510	6.980000e-172	614
11	TraesCS6D01G085000	chr6A	91.388	418	34	1	1	418	64681130	64680715	4.260000e-159	571
12	TraesCS6D01G085000	chrUn	93.975	2307	130	5	1498	3802	277360990	277363289	0.000000e+00	3482
13	TraesCS6D01G085000	chrUn	94.028	1574	85	5	792	2361	373934007	373932439	0.000000e+00	2377
14	TraesCS6D01G085000	chrUn	95.443	395	17	1	1103	1496	478961343	478960949	2.490000e-176	628
15	TraesCS6D01G085000	chrUn	93.116	276	17	1	1	276	71749345	71749618	1.640000e-108	403
16	TraesCS6D01G085000	chr7A	88.456	2053	214	9	1664	3714	591024068	591026099	0.000000e+00	2457
17	TraesCS6D01G085000	chr7A	81.125	853	118	24	792	1640	591023150	591023963	0.000000e+00	643
18	TraesCS6D01G085000	chr7A	87.339	387	44	4	1	384	591022700	591023084	4.510000e-119	438
19	TraesCS6D01G085000	chr7A	80.697	373	65	6	1281	1651	551543179	551542812	2.240000e-72	283
20	TraesCS6D01G085000	chr7A	78.870	407	82	4	799	1204	616444909	616444506	4.840000e-69	272
21	TraesCS6D01G085000	chr7A	77.396	407	89	3	799	1204	615784936	615785340	4.910000e-59	239
22	TraesCS6D01G085000	chr6B	90.016	1853	162	10	1664	3514	121960240	121958409	0.000000e+00	2375
23	TraesCS6D01G085000	chr6B	88.991	1853	166	17	1664	3514	122186779	122184963	0.000000e+00	2257
24	TraesCS6D01G085000	chr6B	84.336	1513	196	19	1754	3229	649832648	649831140	0.000000e+00	1443
25	TraesCS6D01G085000	chr6B	85.947	861	99	8	792	1651	121961174	121960335	0.000000e+00	900
26	TraesCS6D01G085000	chr6B	88.358	481	46	9	3237	3714	121431228	121430755	1.530000e-158	569
27	TraesCS6D01G085000	chr6B	86.331	417	56	1	1	416	122188182	122187766	1.610000e-123	453
28	TraesCS6D01G085000	chr6B	95.522	201	9	0	3514	3714	121863305	121863105	4.740000e-84	322
29	TraesCS6D01G085000	chr7D	81.551	374	59	8	1281	1651	484072171	484071805	2.220000e-77	300
30	TraesCS6D01G085000	chr7D	82.749	342	51	6	1281	1621	489311037	489310703	7.980000e-77	298
31	TraesCS6D01G085000	chr7B	81.233	373	53	11	1281	1651	509737168	509736811	6.220000e-73	285

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	TraesCS6D01G085000	chr6D	50603278	50607079	3801	False	3174.000000	5561	100.0000	1	3802	2	chr6D.!!$F4	3801
1	TraesCS6D01G085000	chr6D	49181696	49184448	2752	False	1657.000000	2348	88.5990	792	3514	2	chr6D.!!$F2	2722
2	TraesCS6D01G085000	chr6D	50179786	50181748	1962	False	1025.500000	1476	87.3130	1811	3714	2	chr6D.!!$F3	1903
3	TraesCS6D01G085000	chr6A	64677655	64681130	3475	True	2551.500000	4532	92.6260	1	3802	2	chr6A.!!$R2	3801
4	TraesCS6D01G085000	chr6A	577721968	577723486	1518	True	1410.000000	1410	83.8230	1670	3164	1	chr6A.!!$R1	1494
5	TraesCS6D01G085000	chr6A	64906510	64908461	1951	True	1009.000000	1404	87.5630	1814	3714	2	chr6A.!!$R3	1900
6	TraesCS6D01G085000	chrUn	277360990	277363289	2299	False	3482.000000	3482	93.9750	1498	3802	1	chrUn.!!$F2	2304
7	TraesCS6D01G085000	chrUn	373932439	373934007	1568	True	2377.000000	2377	94.0280	792	2361	1	chrUn.!!$R1	1569
8	TraesCS6D01G085000	chr7A	591022700	591026099	3399	False	1179.333333	2457	85.6400	1	3714	3	chr7A.!!$F2	3713
9	TraesCS6D01G085000	chr6B	121958409	121961174	2765	True	1637.500000	2375	87.9815	792	3514	2	chr6B.!!$R4	2722
10	TraesCS6D01G085000	chr6B	649831140	649832648	1508	True	1443.000000	1443	84.3360	1754	3229	1	chr6B.!!$R3	1475
11	TraesCS6D01G085000	chr6B	122184963	122188182	3219	True	1355.000000	2257	87.6610	1	3514	2	chr6B.!!$R5	3513

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
276	279	0.601558	CTCGTTCGGAACCTTCCTCA	59.398	55.0	14.83	0.00	45.33	3.86	F
986	991	0.944311	CGTGGACGACAACAAGGAGG	60.944	60.0	0.00	0.00	43.02	4.30	F
999	1004	0.991920	AAGGAGGATTTTGAGGCCGA	59.008	50.0	0.00	0.00	0.00	5.54	F
2386	2549	1.031571	GCAATGAACTCGGATGGCCA	61.032	55.0	8.56	8.56	0.00	5.36	F

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability	Orientation
2184	2347	0.737715	GCACGACGCTTCTGAGGAAT	60.738	55.000	0.00	0.00	37.77	3.01	R
2681	2847	0.319900	GCTCGTCCACGCCATCATAT	60.320	55.000	0.00	0.00	39.60	1.78	R
2682	2848	1.067416	GCTCGTCCACGCCATCATA	59.933	57.895	0.00	0.00	39.60	2.15	R
3760	4024	2.045536	CAGGTTCTCTGGCAGCCC	60.046	66.667	9.64	6.92	39.76	5.19	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
194	195	5.480058	TTCATCCATTAATTCCCCAAGGA	57.520	39.130	0.00	0.00	41.88	3.36
208	209	4.791334	TCCCCAAGGACAATACCAGAAATA	59.209	41.667	0.00	0.00	37.19	1.40
211	214	5.470098	CCCAAGGACAATACCAGAAATATCG	59.530	44.000	0.00	0.00	0.00	2.92
276	279	0.601558	CTCGTTCGGAACCTTCCTCA	59.398	55.000	14.83	0.00	45.33	3.86
290	293	2.671070	CTCATGCCTTCCACCGGT	59.329	61.111	0.00	0.00	0.00	5.28
295	298	4.309950	GCCTTCCACCGGTCGTGT	62.310	66.667	2.59	0.00	41.26	4.49
350	353	1.565390	CCCTCCTGCCTTCACATGGA	61.565	60.000	0.00	0.00	0.00	3.41
391	395	2.124109	TCGCACCCACTTGCCAAA	60.124	55.556	0.00	0.00	39.53	3.28
418	423	3.458487	ACCTTCTACCCCGCTTCATTAAT	59.542	43.478	0.00	0.00	0.00	1.40
419	424	4.079958	ACCTTCTACCCCGCTTCATTAATT	60.080	41.667	0.00	0.00	0.00	1.40
420	425	4.887655	CCTTCTACCCCGCTTCATTAATTT	59.112	41.667	0.00	0.00	0.00	1.82
815	820	3.385749	AAGGTACCAGCGGCCATCG	62.386	63.158	15.94	0.00	42.76	3.84
985	990	1.557443	GCGTGGACGACAACAAGGAG	61.557	60.000	2.73	0.00	43.02	3.69
986	991	0.944311	CGTGGACGACAACAAGGAGG	60.944	60.000	0.00	0.00	43.02	4.30
988	993	1.002087	GTGGACGACAACAAGGAGGAT	59.998	52.381	0.00	0.00	0.00	3.24
989	994	1.697432	TGGACGACAACAAGGAGGATT	59.303	47.619	0.00	0.00	0.00	3.01
990	995	2.105821	TGGACGACAACAAGGAGGATTT	59.894	45.455	0.00	0.00	0.00	2.17
991	996	3.146847	GGACGACAACAAGGAGGATTTT	58.853	45.455	0.00	0.00	0.00	1.82
993	998	3.813166	GACGACAACAAGGAGGATTTTGA	59.187	43.478	0.00	0.00	0.00	2.69
994	999	3.815401	ACGACAACAAGGAGGATTTTGAG	59.185	43.478	0.00	0.00	0.00	3.02
996	1001	2.893489	ACAACAAGGAGGATTTTGAGGC	59.107	45.455	0.00	0.00	0.00	4.70
998	1003	1.098050	CAAGGAGGATTTTGAGGCCG	58.902	55.000	0.00	0.00	0.00	6.13
999	1004	0.991920	AAGGAGGATTTTGAGGCCGA	59.008	50.000	0.00	0.00	0.00	5.54
1000	1005	0.991920	AGGAGGATTTTGAGGCCGAA	59.008	50.000	0.00	0.00	0.00	4.30
1001	1006	1.566231	AGGAGGATTTTGAGGCCGAAT	59.434	47.619	0.00	0.00	0.00	3.34
1075	1101	1.141858	GGGTGGATGAGAAGGATGACC	59.858	57.143	0.00	0.00	0.00	4.02
1101	1127	1.738350	GAGGTCGTCGAGATCAAGTCA	59.262	52.381	0.00	0.00	30.60	3.41
1107	1133	2.926200	CGTCGAGATCAAGTCATTTGCT	59.074	45.455	0.00	0.00	36.70	3.91
1140	1166	1.062121	TCCCTCTCCCAAGGTATCAGG	60.062	57.143	0.00	0.00	34.34	3.86
1265	1291	8.704849	TCATTTGATTTGGTAGGAAGAGAAAA	57.295	30.769	0.00	0.00	0.00	2.29
1336	1362	5.837437	TGTTTGTGTAGCGATTTTGGATTT	58.163	33.333	0.00	0.00	0.00	2.17
1405	1431	4.578516	CCATTTGTCTGTTGTGGTCAGTTA	59.421	41.667	0.00	0.00	34.86	2.24
1429	1455	2.024414	GGCTGTTTTTGACACTGTCCT	58.976	47.619	6.72	0.00	33.82	3.85
1526	1553	8.154856	GGTGATCCATAAGCTTACCATTTAGTA	58.845	37.037	8.70	0.00	0.00	1.82
1561	1588	2.588464	TCCGTGAAAAGGCCCAAATA	57.412	45.000	0.00	0.00	34.48	1.40
1565	1592	4.080243	TCCGTGAAAAGGCCCAAATATCTA	60.080	41.667	0.00	0.00	34.48	1.98
1613	1640	8.297426	CCTCTTAAATTGTTTCCTTGTTAGGTC	58.703	37.037	0.00	0.00	42.60	3.85
1622	1649	4.510038	TCCTTGTTAGGTCGTTGTAGTC	57.490	45.455	0.00	0.00	42.60	2.59
1656	1753	4.659111	TGTTCTAGACTTGGTTTCGTCA	57.341	40.909	0.00	0.00	32.68	4.35
1718	1830	4.003648	GTCTTGTTTATCAGGACCCTGTG	58.996	47.826	15.06	0.00	44.13	3.66
1833	1980	7.342541	TGGTTCATTGTTCATTACCATCATCAT	59.657	33.333	0.00	0.00	31.14	2.45
1915	2063	1.560923	CGTGTTGATCCCTCTTAGCG	58.439	55.000	0.00	0.00	0.00	4.26
1971	2125	3.821033	GACTACTGCAGGTTTTGATGGTT	59.179	43.478	19.93	0.00	0.00	3.67
2179	2342	5.362717	CCAAGGTTAACTTTCCAAAGGAACT	59.637	40.000	5.42	3.12	41.87	3.01
2184	2347	9.871175	AGGTTAACTTTCCAAAGGAACTAATAA	57.129	29.630	5.42	0.00	41.87	1.40
2223	2386	1.153086	CGCCCTGCTGCTCCTAAAT	60.153	57.895	0.00	0.00	0.00	1.40
2386	2549	1.031571	GCAATGAACTCGGATGGCCA	61.032	55.000	8.56	8.56	0.00	5.36
2409	2572	6.127535	CCATGTTGAAGCCTCTGTTATGAATT	60.128	38.462	0.00	0.00	0.00	2.17
2575	2738	5.295292	CCTATAACTCAGTTGTGATTGCTGG	59.705	44.000	0.00	0.00	30.18	4.85
2610	2776	1.136828	ACTTGCCCAGAGTAACACCA	58.863	50.000	0.00	0.00	0.00	4.17
2681	2847	3.773119	AGGCTTGGACGAGGTTTCTTATA	59.227	43.478	0.00	0.00	0.00	0.98
2682	2848	4.409247	AGGCTTGGACGAGGTTTCTTATAT	59.591	41.667	0.00	0.00	0.00	0.86
2734	2900	4.409570	CTTCTGAATTTTGATGTGCCTCG	58.590	43.478	0.00	0.00	0.00	4.63
2807	2973	4.157656	TGTGGCGAATTTTTCTAAGGGATG	59.842	41.667	0.00	0.00	0.00	3.51
2823	2990	2.639839	GGGATGCACACCCTGTATATCT	59.360	50.000	19.83	0.00	43.65	1.98
2871	3039	2.693069	CATGTCCAGTCTGAGGTTGAC	58.307	52.381	0.00	0.35	34.88	3.18
2915	3084	4.320608	TTGTGTTCCATTTTTCAGGAGC	57.679	40.909	0.00	0.00	34.91	4.70
2919	3088	3.321682	TGTTCCATTTTTCAGGAGCAAGG	59.678	43.478	0.00	0.00	41.33	3.61
2925	3094	3.719268	TTTTCAGGAGCAAGGCTATGA	57.281	42.857	0.00	0.00	39.88	2.15
2952	3121	2.489938	GGAAGCACCCTATTGTCACA	57.510	50.000	0.00	0.00	0.00	3.58
3046	3229	3.328050	CCCTTTCCCTACTCAACTGTCTT	59.672	47.826	0.00	0.00	0.00	3.01
3048	3231	4.998033	CCTTTCCCTACTCAACTGTCTTTC	59.002	45.833	0.00	0.00	0.00	2.62
3098	3287	7.584123	CGTTGTCTTTATCTTCTGTCAACTTTG	59.416	37.037	0.00	0.00	33.99	2.77
3137	3326	4.754372	TCTGAATGTGAACAGCATGAAC	57.246	40.909	0.00	0.00	39.69	3.18
3413	3670	1.151668	GATGCGTGGTCATATGGAGC	58.848	55.000	2.13	2.80	44.35	4.70
3445	3702	4.175787	ACATGTAGTTCTTCTCACCGAC	57.824	45.455	0.00	0.00	0.00	4.79
3715	3979	8.294954	TCTTGATTAGAGGGTCAACTAGTTAG	57.705	38.462	8.04	3.38	31.55	2.34
3716	3980	7.342284	TCTTGATTAGAGGGTCAACTAGTTAGG	59.658	40.741	8.04	0.00	31.55	2.69
3739	4003	6.490381	AGGTTCATGGAAGGAAAAACTTCTAC	59.510	38.462	5.99	0.00	38.90	2.59
3745	4009	5.299279	TGGAAGGAAAAACTTCTACTGCTTG	59.701	40.000	5.99	0.00	44.82	4.01
3760	4024	5.762825	ACTGCTTGCCTATTACATTCATG	57.237	39.130	0.00	0.00	0.00	3.07
3769	4033	1.766494	TTACATTCATGGGCTGCCAG	58.234	50.000	22.05	9.82	0.00	4.85
3778	4042	2.596851	GGGCTGCCAGAGAACCTGA	61.597	63.158	22.05	0.00	45.78	3.86
3797	4061	7.863901	ACCTGAAAGATATATGAGCTAGGTT	57.136	36.000	0.00	0.00	34.07	3.50

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
48	49	1.253593	ACTCTCCGTCCGGGTTTACC	61.254	60.000	0.00	0.00	37.00	2.85
120	121	6.035327	GGCAAGCAAACATTTATTAGCTCAAG	59.965	38.462	0.00	0.00	0.00	3.02
194	195	5.992217	GGAGAAGCGATATTTCTGGTATTGT	59.008	40.000	0.00	0.00	35.14	2.71
276	279	3.319198	ACGACCGGTGGAAGGCAT	61.319	61.111	24.54	0.00	0.00	4.40
312	315	2.676471	GCTTGCGGTGGGTCCAAT	60.676	61.111	0.00	0.00	35.57	3.16
336	339	1.012086	CGATGTCCATGTGAAGGCAG	58.988	55.000	0.00	0.00	0.00	4.85
350	353	3.439476	GCGAGTCCCTATATACACGATGT	59.561	47.826	0.00	0.00	32.46	3.06
391	395	2.590114	GCGGGGTAGAAGGTGTGGT	61.590	63.158	0.00	0.00	0.00	4.16
797	802	2.590092	GATGGCCGCTGGTACCTT	59.410	61.111	14.36	0.00	0.00	3.50
955	960	4.682334	TCCACGCCGTGTCCCCTA	62.682	66.667	16.99	0.00	0.00	3.53
963	968	3.719883	TTGTTGTCGTCCACGCCGT	62.720	57.895	0.00	0.00	39.60	5.68
985	990	1.762708	TCCATTCGGCCTCAAAATCC	58.237	50.000	0.00	0.00	0.00	3.01
986	991	3.016736	TCTTCCATTCGGCCTCAAAATC	58.983	45.455	0.00	0.00	0.00	2.17
988	993	2.159382	GTCTTCCATTCGGCCTCAAAA	58.841	47.619	0.00	0.00	0.00	2.44
989	994	1.351017	AGTCTTCCATTCGGCCTCAAA	59.649	47.619	0.00	0.00	0.00	2.69
990	995	0.984230	AGTCTTCCATTCGGCCTCAA	59.016	50.000	0.00	0.00	0.00	3.02
991	996	0.984230	AAGTCTTCCATTCGGCCTCA	59.016	50.000	0.00	0.00	0.00	3.86
993	998	0.108138	CGAAGTCTTCCATTCGGCCT	60.108	55.000	7.01	0.00	43.42	5.19
994	999	0.108329	TCGAAGTCTTCCATTCGGCC	60.108	55.000	7.01	0.00	46.28	6.13
996	1001	1.204941	ACCTCGAAGTCTTCCATTCGG	59.795	52.381	7.01	3.51	46.28	4.30
998	1003	2.163815	TCGACCTCGAAGTCTTCCATTC	59.836	50.000	12.17	0.00	46.30	2.67
999	1004	2.168496	TCGACCTCGAAGTCTTCCATT	58.832	47.619	12.17	0.00	46.30	3.16
1000	1005	1.835494	TCGACCTCGAAGTCTTCCAT	58.165	50.000	12.17	0.00	46.30	3.41
1001	1006	3.334413	TCGACCTCGAAGTCTTCCA	57.666	52.632	12.17	0.00	46.30	3.53
1045	1071	2.365635	ATCCACCCTAGTGCGCCT	60.366	61.111	4.18	3.99	43.09	5.52
1107	1133	3.249189	AGGGAACTCTTGGCGGCA	61.249	61.111	7.97	7.97	32.90	5.69
1140	1166	2.579684	CTAGTCCAAGCGACCCAGGC	62.580	65.000	0.00	0.00	43.08	4.85
1198	1224	4.801330	TCACACAATCTCTTGGTACGAT	57.199	40.909	0.00	0.00	36.64	3.73
1200	1226	4.093408	CCAATCACACAATCTCTTGGTACG	59.907	45.833	0.00	0.00	36.64	3.67
1265	1291	1.547675	CCAACAGCAACCCCTACACAT	60.548	52.381	0.00	0.00	0.00	3.21
1336	1362	8.461222	CCAAATAAACTTCTTGATAGCACATCA	58.539	33.333	0.00	0.00	0.00	3.07
1405	1431	3.877508	GACAGTGTCAAAAACAGCCTACT	59.122	43.478	18.54	0.00	38.97	2.57
1429	1455	6.337356	ACCAAAATCGCTTCTTTGAAAGAAA	58.663	32.000	19.62	7.32	46.13	2.52
1526	1553	5.245584	TCACGGATTTACTACCCCTTTTT	57.754	39.130	0.00	0.00	0.00	1.94
1561	1588	3.197983	AGGCCTCTAAGCAAAACGTAGAT	59.802	43.478	0.00	0.00	38.47	1.98
1565	1592	1.880027	CAAGGCCTCTAAGCAAAACGT	59.120	47.619	5.23	0.00	0.00	3.99
1613	1640	1.002142	TCCTCACACACGACTACAACG	60.002	52.381	0.00	0.00	0.00	4.10
1622	1649	3.921021	GTCTAGAACAATCCTCACACACG	59.079	47.826	0.00	0.00	0.00	4.49
1656	1753	8.525316	TCTGACATCATTCTACAATTGCATTTT	58.475	29.630	5.05	0.00	0.00	1.82
1878	2026	2.788786	CACGCAAAAACATCTTCCACAC	59.211	45.455	0.00	0.00	0.00	3.82
1888	2036	2.028130	AGGGATCAACACGCAAAAACA	58.972	42.857	0.00	0.00	0.00	2.83
1915	2063	6.981762	AGTCATCTGAAGATCAATGTCAAC	57.018	37.500	0.00	0.00	31.21	3.18
1971	2125	6.122277	TCTTTCTCTTCCTTTTTGCTGAAGA	58.878	36.000	0.00	0.00	41.50	2.87
2111	2274	4.260132	CGTGCTTCAACATCATAAGCTCTC	60.260	45.833	7.68	0.00	44.66	3.20
2179	2342	5.041287	CACGACGCTTCTGAGGAATTATTA	58.959	41.667	0.00	0.00	0.00	0.98
2184	2347	0.737715	GCACGACGCTTCTGAGGAAT	60.738	55.000	0.00	0.00	37.77	3.01
2223	2386	1.234615	GCCACGCTTAGCTTTGGTGA	61.235	55.000	18.77	0.00	33.60	4.02
2365	2528	1.027357	GCCATCCGAGTTCATTGCAT	58.973	50.000	0.00	0.00	0.00	3.96
2378	2541	1.818555	GGCTTCAACATGGCCATCC	59.181	57.895	17.61	8.59	44.69	3.51
2386	2549	6.183360	CGAATTCATAACAGAGGCTTCAACAT	60.183	38.462	6.22	0.00	0.00	2.71
2409	2572	2.291346	TGATTCCCTGGTCAGAGTACGA	60.291	50.000	0.00	0.00	0.00	3.43
2575	2738	2.008329	CAAGTGCAGATTCAGCTCCTC	58.992	52.381	2.60	0.00	0.00	3.71
2610	2776	3.149196	CATGAGGCACCACTAAGTTGTT	58.851	45.455	0.00	0.00	0.00	2.83
2681	2847	0.319900	GCTCGTCCACGCCATCATAT	60.320	55.000	0.00	0.00	39.60	1.78
2682	2848	1.067416	GCTCGTCCACGCCATCATA	59.933	57.895	0.00	0.00	39.60	2.15
2734	2900	1.137479	CCATGTTGCCAATGACATCCC	59.863	52.381	0.00	0.00	34.42	3.85
2807	2973	5.483685	TTATCCAGATATACAGGGTGTGC	57.516	43.478	0.00	0.00	0.00	4.57
2871	3039	8.616076	ACAAAGTTAAGAGTGATGAAAAGACTG	58.384	33.333	0.00	0.00	0.00	3.51
2915	3084	4.699257	GCTTCCCAATATCTCATAGCCTTG	59.301	45.833	0.00	0.00	0.00	3.61
2919	3088	4.006319	GGTGCTTCCCAATATCTCATAGC	58.994	47.826	0.00	0.00	0.00	2.97
3046	3229	3.084536	TCATAAATGGCTGCCACAGAA	57.915	42.857	25.99	10.41	35.80	3.02
3048	3231	2.953648	TCATCATAAATGGCTGCCACAG	59.046	45.455	25.99	12.03	35.80	3.66
3098	3287	4.371786	TCAGAAATGGTAGCGATGACATC	58.628	43.478	5.28	5.28	0.00	3.06
3137	3326	8.830580	CATAGATTAACACAAACTGGACATAGG	58.169	37.037	0.00	0.00	0.00	2.57
3193	3384	7.558444	AGGTTACTTCTGTCACCAATTAAACAA	59.442	33.333	2.94	0.00	41.61	2.83
3231	3422	8.014517	GCACACAACCATAAATTTACCAAATTG	58.985	33.333	0.00	4.45	40.05	2.32
3413	3670	5.263968	AGAACTACATGTAGATGGAACGG	57.736	43.478	34.16	10.19	36.97	4.44
3420	3677	5.886474	TCGGTGAGAAGAACTACATGTAGAT	59.114	40.000	34.16	25.15	36.97	1.98
3715	3979	5.791336	AGAAGTTTTTCCTTCCATGAACC	57.209	39.130	0.00	0.00	41.45	3.62
3716	3980	7.363431	CAGTAGAAGTTTTTCCTTCCATGAAC	58.637	38.462	0.00	0.00	41.45	3.18
3739	4003	4.022589	CCCATGAATGTAATAGGCAAGCAG	60.023	45.833	0.00	0.00	0.00	4.24
3745	4009	2.229784	GCAGCCCATGAATGTAATAGGC	59.770	50.000	0.00	0.00	39.25	3.93
3760	4024	2.045536	CAGGTTCTCTGGCAGCCC	60.046	66.667	9.64	6.92	39.76	5.19
3769	4033	8.250332	CCTAGCTCATATATCTTTCAGGTTCTC	58.750	40.741	0.00	0.00	0.00	2.87

Based at the University of Bristol with support from BBSRC.

AutoCloner maintained by Alex Coulton.