AutoCloner

Multiple sequence alignment - TraesCS2D01G471300

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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	TraesCS2D01G471300	chr2D	100.000	2483	0	0	1	2483	575346244	575348726	0.000000e+00	4586.0
1	TraesCS2D01G471300	chr2D	81.534	352	48	10	1835	2176	591268963	591268619	8.750000e-70	274.0
2	TraesCS2D01G471300	chr2D	77.566	419	79	12	1875	2289	110029657	110029250	3.190000e-59	239.0
3	TraesCS2D01G471300	chr2D	73.282	655	142	18	1835	2470	493179381	493180021	2.500000e-50	209.0
4	TraesCS2D01G471300	chr2B	93.381	1390	82	3	1	1380	691356917	691358306	0.000000e+00	2049.0
5	TraesCS2D01G471300	chr2B	86.124	1326	125	26	1173	2481	691446725	691448008	0.000000e+00	1375.0
6	TraesCS2D01G471300	chr2B	92.510	721	45	4	1	712	691428638	691429358	0.000000e+00	1024.0
7	TraesCS2D01G471300	chr2B	84.365	307	46	2	2176	2481	691362760	691363065	1.440000e-77	300.0
8	TraesCS2D01G471300	chr2B	74.734	657	110	27	1836	2475	69405076	69404459	2.470000e-60	243.0
9	TraesCS2D01G471300	chr2B	75.338	592	98	28	1893	2470	458070402	458069845	8.870000e-60	241.0
10	TraesCS2D01G471300	chr2B	94.304	158	7	2	1021	1177	691429605	691429761	8.870000e-60	241.0
11	TraesCS2D01G471300	chr2A	92.094	721	48	5	1	712	713535828	713536548	0.000000e+00	1007.0
12	TraesCS2D01G471300	chr2A	94.249	539	23	1	1052	1582	713536936	713537474	0.000000e+00	817.0
13	TraesCS2D01G471300	chr2A	97.500	40	0	1	998	1036	713536899	713536938	1.590000e-07	67.6
14	TraesCS2D01G471300	chr4D	78.995	557	105	12	1875	2425	499253601	499254151	1.080000e-98	370.0
15	TraesCS2D01G471300	chr7D	77.742	620	99	18	1836	2443	104363417	104362825	6.570000e-91	344.0
16	TraesCS2D01G471300	chr7D	76.220	656	138	11	1831	2477	549879597	549878951	5.120000e-87	331.0
17	TraesCS2D01G471300	chrUn	76.783	659	103	30	1835	2476	39247354	39246729	8.570000e-85	324.0
18	TraesCS2D01G471300	chr5B	76.220	656	106	28	1834	2474	560001991	560002611	4.010000e-78	302.0
19	TraesCS2D01G471300	chr6A	79.187	418	77	9	1876	2289	611510043	611510454	5.230000e-72	281.0
20	TraesCS2D01G471300	chr5D	75.492	661	115	25	1834	2480	325666224	325666851	1.880000e-71	279.0
21	TraesCS2D01G471300	chr5D	75.152	660	119	28	1835	2479	42044755	42044126	4.070000e-68	268.0
22	TraesCS2D01G471300	chr4B	76.134	595	102	21	1893	2476	527122695	527122130	2.430000e-70	276.0
23	TraesCS2D01G471300	chr4B	78.393	361	63	11	1835	2183	636648495	636648138	1.160000e-53	220.0
24	TraesCS2D01G471300	chr3A	75.248	606	116	23	1872	2471	681555966	681556543	8.810000e-65	257.0
25	TraesCS2D01G471300	chr3D	75.040	629	110	25	1836	2449	556607897	556607301	5.300000e-62	248.0
26	TraesCS2D01G471300	chr3D	76.555	418	91	6	1875	2289	140781070	140781483	3.210000e-54	222.0
27	TraesCS2D01G471300	chr1B	78.409	352	61	10	2013	2360	629516942	629517282	5.380000e-52	215.0
28	TraesCS2D01G471300	chr1B	79.348	276	56	1	2197	2471	584136648	584136923	2.520000e-45	193.0

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	TraesCS2D01G471300	chr2D	575346244	575348726	2482	False	4586.000000	4586	100.000000	1	2483	1	chr2D.!!$F2	2482
1	TraesCS2D01G471300	chr2D	493179381	493180021	640	False	209.000000	209	73.282000	1835	2470	1	chr2D.!!$F1	635
2	TraesCS2D01G471300	chr2B	691356917	691358306	1389	False	2049.000000	2049	93.381000	1	1380	1	chr2B.!!$F1	1379
3	TraesCS2D01G471300	chr2B	691446725	691448008	1283	False	1375.000000	1375	86.124000	1173	2481	1	chr2B.!!$F3	1308
4	TraesCS2D01G471300	chr2B	691428638	691429761	1123	False	632.500000	1024	93.407000	1	1177	2	chr2B.!!$F4	1176
5	TraesCS2D01G471300	chr2B	69404459	69405076	617	True	243.000000	243	74.734000	1836	2475	1	chr2B.!!$R1	639
6	TraesCS2D01G471300	chr2B	458069845	458070402	557	True	241.000000	241	75.338000	1893	2470	1	chr2B.!!$R2	577
7	TraesCS2D01G471300	chr2A	713535828	713537474	1646	False	630.533333	1007	94.614333	1	1582	3	chr2A.!!$F1	1581
8	TraesCS2D01G471300	chr4D	499253601	499254151	550	False	370.000000	370	78.995000	1875	2425	1	chr4D.!!$F1	550
9	TraesCS2D01G471300	chr7D	104362825	104363417	592	True	344.000000	344	77.742000	1836	2443	1	chr7D.!!$R1	607
10	TraesCS2D01G471300	chr7D	549878951	549879597	646	True	331.000000	331	76.220000	1831	2477	1	chr7D.!!$R2	646
11	TraesCS2D01G471300	chrUn	39246729	39247354	625	True	324.000000	324	76.783000	1835	2476	1	chrUn.!!$R1	641
12	TraesCS2D01G471300	chr5B	560001991	560002611	620	False	302.000000	302	76.220000	1834	2474	1	chr5B.!!$F1	640
13	TraesCS2D01G471300	chr5D	325666224	325666851	627	False	279.000000	279	75.492000	1834	2480	1	chr5D.!!$F1	646
14	TraesCS2D01G471300	chr5D	42044126	42044755	629	True	268.000000	268	75.152000	1835	2479	1	chr5D.!!$R1	644
15	TraesCS2D01G471300	chr4B	527122130	527122695	565	True	276.000000	276	76.134000	1893	2476	1	chr4B.!!$R1	583
16	TraesCS2D01G471300	chr3A	681555966	681556543	577	False	257.000000	257	75.248000	1872	2471	1	chr3A.!!$F1	599
17	TraesCS2D01G471300	chr3D	556607301	556607897	596	True	248.000000	248	75.040000	1836	2449	1	chr3D.!!$R1	613

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
575	576	0.096976	CGGTGCACAAATCGTCCATC	59.903	55.0	20.43	0.0	0.0	3.51	F

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability	Orientation
2056	2231	0.100503	GTTGTTGTTCTGGTGCGCTT	59.899	50.0	9.73	0.0	0.0	4.68	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
389	390	2.031012	CCGCTGCACTTGGTCTCA	59.969	61.111	0.00	0.00	0.00	3.27
401	402	1.937191	TGGTCTCATGCTGGTACTCA	58.063	50.000	0.00	0.00	0.00	3.41
422	423	3.457625	CTCTGCCTCCATGAGCCGG	62.458	68.421	0.00	0.00	0.00	6.13
424	425	3.008517	TGCCTCCATGAGCCGGAA	61.009	61.111	5.05	0.00	30.33	4.30
451	452	2.024871	CAGGTCCGCGATCTCGAC	59.975	66.667	8.23	5.68	43.02	4.20
525	526	0.108585	GAACTGCCTGAACAGGTCCA	59.891	55.000	19.97	10.78	46.67	4.02
532	533	1.202651	CCTGAACAGGTCCACGTTCTT	60.203	52.381	19.42	0.00	43.61	2.52
562	563	2.517402	GGTGTCCAAACCGGTGCA	60.517	61.111	8.52	0.00	35.57	4.57
575	576	0.096976	CGGTGCACAAATCGTCCATC	59.903	55.000	20.43	0.00	0.00	3.51
578	579	1.806542	GTGCACAAATCGTCCATCAGT	59.193	47.619	13.17	0.00	0.00	3.41
594	595	3.407967	GTTCCCTGGGGATCGGCA	61.408	66.667	14.00	0.00	44.74	5.69
633	634	2.967076	CCGCCGAATCGTCATGGG	60.967	66.667	0.82	0.00	0.00	4.00
659	669	4.827087	CCGGCGCAGAGATGCTGT	62.827	66.667	10.83	0.00	46.62	4.40
780	864	6.726490	ATATACGAACACTATGAACACCCT	57.274	37.500	0.00	0.00	0.00	4.34
783	867	2.233922	CGAACACTATGAACACCCTCCT	59.766	50.000	0.00	0.00	0.00	3.69
785	869	2.902608	ACACTATGAACACCCTCCTGA	58.097	47.619	0.00	0.00	0.00	3.86
786	870	3.454858	ACACTATGAACACCCTCCTGAT	58.545	45.455	0.00	0.00	0.00	2.90
835	923	1.798079	GCGCGAGTCCGAATTAGTCTT	60.798	52.381	12.10	0.00	38.22	3.01
893	1001	1.688627	GGATTCCTACTCCGACTGGGT	60.689	57.143	0.00	0.00	37.00	4.51
955	1069	0.317479	AGGTCCTCGTCAAACCTTCG	59.683	55.000	0.00	0.00	40.53	3.79
1065	1212	4.196108	ACGTCGTCGGTGTGCACA	62.196	61.111	17.42	17.42	41.85	4.57
1359	1506	4.261405	CCGTTGCTGATCCAAAAGTTTACA	60.261	41.667	0.00	0.00	0.00	2.41
1393	1540	3.586470	TTGGTTATGGCAATATCCGGT	57.414	42.857	0.00	0.00	32.67	5.28
1413	1560	1.055849	TGGCTCACAAGTCCAAGCTA	58.944	50.000	0.00	0.00	35.12	3.32
1548	1704	3.515071	GTGTAAACACAGTTGTAGCCG	57.485	47.619	8.35	0.00	45.75	5.52
1552	1708	1.865865	AACACAGTTGTAGCCGACAG	58.134	50.000	0.00	0.00	39.88	3.51
1555	1711	1.792949	CACAGTTGTAGCCGACAGAAC	59.207	52.381	0.00	0.00	39.88	3.01
1584	1740	7.913297	ACGATGATTTTATTCATTGTAAACCCG	59.087	33.333	5.69	0.00	45.02	5.28
1600	1756	1.903860	ACCCGGTTGTAAGCTGTATGA	59.096	47.619	0.00	0.00	0.00	2.15
1604	1760	4.382254	CCCGGTTGTAAGCTGTATGAACTA	60.382	45.833	0.00	0.00	0.00	2.24
1605	1761	4.565564	CCGGTTGTAAGCTGTATGAACTAC	59.434	45.833	0.00	0.00	0.00	2.73
1606	1762	5.408356	CGGTTGTAAGCTGTATGAACTACT	58.592	41.667	0.00	0.00	0.00	2.57
1607	1763	5.288712	CGGTTGTAAGCTGTATGAACTACTG	59.711	44.000	0.00	0.00	33.62	2.74
1631	1787	5.334802	GCATGTAGCAGTTCATGTGTGTTTA	60.335	40.000	0.00	0.00	44.79	2.01
1632	1788	5.922739	TGTAGCAGTTCATGTGTGTTTAG	57.077	39.130	0.00	0.00	0.00	1.85
1633	1789	3.904136	AGCAGTTCATGTGTGTTTAGC	57.096	42.857	0.00	0.00	0.00	3.09
1634	1790	3.480470	AGCAGTTCATGTGTGTTTAGCT	58.520	40.909	0.00	0.00	0.00	3.32
1635	1791	3.499918	AGCAGTTCATGTGTGTTTAGCTC	59.500	43.478	0.00	0.00	0.00	4.09
1636	1792	3.250762	GCAGTTCATGTGTGTTTAGCTCA	59.749	43.478	0.00	0.00	0.00	4.26
1637	1793	4.261155	GCAGTTCATGTGTGTTTAGCTCAA	60.261	41.667	0.00	0.00	0.00	3.02
1638	1794	5.563475	GCAGTTCATGTGTGTTTAGCTCAAT	60.563	40.000	0.00	0.00	0.00	2.57
1639	1795	5.854866	CAGTTCATGTGTGTTTAGCTCAATG	59.145	40.000	0.00	0.00	0.00	2.82
1640	1796	5.532406	AGTTCATGTGTGTTTAGCTCAATGT	59.468	36.000	0.00	0.00	0.00	2.71
1641	1797	6.039717	AGTTCATGTGTGTTTAGCTCAATGTT	59.960	34.615	0.00	0.00	0.00	2.71
1642	1798	6.389830	TCATGTGTGTTTAGCTCAATGTTT	57.610	33.333	0.00	0.00	0.00	2.83
1643	1799	6.804677	TCATGTGTGTTTAGCTCAATGTTTT	58.195	32.000	0.00	0.00	0.00	2.43
1644	1800	7.264221	TCATGTGTGTTTAGCTCAATGTTTTT	58.736	30.769	0.00	0.00	0.00	1.94
1647	1803	7.990917	TGTGTGTTTAGCTCAATGTTTTTCTA	58.009	30.769	0.00	0.00	0.00	2.10
1677	1833	9.996554	TGAAAGTAATAGACAGATTGAGTTTCA	57.003	29.630	0.00	0.00	0.00	2.69
1689	1845	5.475909	AGATTGAGTTTCATGCATGACAGTT	59.524	36.000	28.72	13.48	36.36	3.16
1704	1860	6.701400	GCATGACAGTTGTTTTATTCCAAACT	59.299	34.615	0.00	0.00	37.51	2.66
1749	1913	9.442047	CTTTAGATCAATTACTCACACTTCCTT	57.558	33.333	0.00	0.00	0.00	3.36
1760	1924	3.144506	CACACTTCCTTCTCACAATGCT	58.855	45.455	0.00	0.00	0.00	3.79
1777	1941	6.749118	CACAATGCTTTTCTAGTAATGCCTTC	59.251	38.462	14.62	0.00	0.00	3.46
1783	1947	6.151144	GCTTTTCTAGTAATGCCTTCTGGAAA	59.849	38.462	8.30	0.00	37.07	3.13
1786	1950	5.186198	TCTAGTAATGCCTTCTGGAAAAGC	58.814	41.667	0.00	0.00	34.57	3.51
1788	1952	0.244721	AATGCCTTCTGGAAAAGCGC	59.755	50.000	0.00	0.00	34.57	5.92
1790	1954	2.870372	CCTTCTGGAAAAGCGCCG	59.130	61.111	2.29	0.00	34.57	6.46
1812	1976	4.694509	CGACGTTATACCTCCATAGCTAGT	59.305	45.833	0.00	0.00	0.00	2.57
1819	1983	3.982516	ACCTCCATAGCTAGTGTGAGAA	58.017	45.455	0.00	0.00	0.00	2.87
1820	1984	4.551671	ACCTCCATAGCTAGTGTGAGAAT	58.448	43.478	0.00	0.00	0.00	2.40
1891	2062	7.096551	TCTTCGATCAGTACAATGAACATTCA	58.903	34.615	0.00	0.00	42.14	2.57
1997	2171	1.379176	CCCTCTCTCGCCAGAGTCA	60.379	63.158	8.28	0.00	45.92	3.41
2000	2174	0.393673	CTCTCTCGCCAGAGTCAGGA	60.394	60.000	8.28	0.00	45.92	3.86
2013	2188	5.125417	CCAGAGTCAGGAAAACTTGTTGAAA	59.875	40.000	0.00	0.00	0.00	2.69
2043	2218	4.973168	TCAAGAAGTTGTCATGCTAAGGT	58.027	39.130	0.00	0.00	34.98	3.50
2044	2219	5.376625	TCAAGAAGTTGTCATGCTAAGGTT	58.623	37.500	0.00	0.00	34.98	3.50
2056	2231	3.186283	TGCTAAGGTTCCATAGGACCAA	58.814	45.455	0.00	0.00	0.00	3.67
2057	2232	3.589735	TGCTAAGGTTCCATAGGACCAAA	59.410	43.478	0.00	0.00	0.00	3.28
2093	2272	2.029838	ACCGCCATTGATGAAGAGAC	57.970	50.000	0.00	0.00	0.00	3.36
2102	2281	5.461407	CCATTGATGAAGAGACGTGTAGATG	59.539	44.000	0.00	0.00	0.00	2.90
2215	2415	2.230025	CGAGATCCGCTGGAGATACATT	59.770	50.000	3.76	0.00	34.05	2.71
2227	2427	0.655733	GATACATTTCCACACGCCCG	59.344	55.000	0.00	0.00	0.00	6.13
2256	2465	1.736032	GCTAGACGCACCATCGAAACT	60.736	52.381	0.00	0.00	38.92	2.66
2322	2531	0.957888	GTTCCACCTTCCTGAGCAGC	60.958	60.000	0.00	0.00	0.00	5.25
2480	2696	4.762251	CAGAGGAACCCTAACTTTTTGGAG	59.238	45.833	0.00	0.00	31.76	3.86
2481	2697	4.663592	AGAGGAACCCTAACTTTTTGGAGA	59.336	41.667	0.00	0.00	31.76	3.71
2482	2698	5.133830	AGAGGAACCCTAACTTTTTGGAGAA	59.866	40.000	0.00	0.00	31.76	2.87

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
340	341	1.647545	CGGCCACGTAGTCGAGGTTA	61.648	60.000	0.45	0.00	46.52	2.85
376	377	0.607217	CCAGCATGAGACCAAGTGCA	60.607	55.000	0.00	0.00	39.69	4.57
389	390	1.474677	GCAGAGCATGAGTACCAGCAT	60.475	52.381	0.00	0.00	0.00	3.79
422	423	3.050275	GACCTGCTGCCCGTGTTC	61.050	66.667	0.00	0.00	0.00	3.18
525	526	2.728383	CGACGTCGGCAAGAACGT	60.728	61.111	29.70	0.00	38.56	3.99
562	563	2.305927	AGGGAACTGATGGACGATTTGT	59.694	45.455	0.00	0.00	41.13	2.83
610	611	4.814294	ACGATTCGGCGGGACTGC	62.814	66.667	7.21	0.00	35.12	4.40
615	616	2.967076	CCATGACGATTCGGCGGG	60.967	66.667	7.21	9.44	37.93	6.13
780	864	4.665833	AAATCGTTCCGTATCATCAGGA	57.334	40.909	0.00	0.00	0.00	3.86
783	867	7.310664	GGTCTATAAATCGTTCCGTATCATCA	58.689	38.462	0.00	0.00	0.00	3.07
785	869	6.072286	ACGGTCTATAAATCGTTCCGTATCAT	60.072	38.462	4.56	0.00	45.97	2.45
786	870	5.239306	ACGGTCTATAAATCGTTCCGTATCA	59.761	40.000	4.56	0.00	45.97	2.15
835	923	2.202866	GGACTGGATTCCGAGCTGA	58.797	57.895	0.00	0.00	0.00	4.26
893	1001	3.054655	CCCCAAGGAAACGAAAGAGGATA	60.055	47.826	0.00	0.00	33.47	2.59
955	1069	1.950909	CTGGAGACTCTCGGATGGTAC	59.049	57.143	1.74	0.00	0.00	3.34
983	1130	1.683365	ATGCTGGCAAATTCCCGCT	60.683	52.632	0.00	0.00	0.00	5.52
1359	1506	5.484715	CCATAACCAATATTACCGTCCGAT	58.515	41.667	0.00	0.00	0.00	4.18
1393	1540	0.183492	AGCTTGGACTTGTGAGCCAA	59.817	50.000	0.00	0.00	37.00	4.52
1413	1560	2.637383	GGTGAAGCGGTCTCCTCGT	61.637	63.158	0.00	0.00	37.01	4.18
1528	1684	3.060070	GTCGGCTACAACTGTGTTTACAC	60.060	47.826	6.07	6.07	46.59	2.90
1540	1696	1.774639	GTTCGTTCTGTCGGCTACAA	58.225	50.000	0.00	0.00	37.74	2.41
1548	1704	7.453034	TGAATAAAATCATCGTTCGTTCTGTC	58.547	34.615	0.00	0.00	0.00	3.51
1552	1708	8.601243	ACAATGAATAAAATCATCGTTCGTTC	57.399	30.769	0.00	0.00	39.08	3.95
1582	1738	3.596214	AGTTCATACAGCTTACAACCGG	58.404	45.455	0.00	0.00	0.00	5.28
1584	1740	5.063564	GCAGTAGTTCATACAGCTTACAACC	59.936	44.000	0.00	0.00	42.11	3.77
1607	1763	2.485426	ACACACATGAACTGCTACATGC	59.515	45.455	0.00	0.00	45.03	4.06
1608	1764	4.754372	AACACACATGAACTGCTACATG	57.246	40.909	0.00	0.00	46.11	3.21
1612	1768	4.641396	AGCTAAACACACATGAACTGCTA	58.359	39.130	0.00	0.00	0.00	3.49
1631	1787	8.854117	ACTTTCAGAATAGAAAAACATTGAGCT	58.146	29.630	0.00	0.00	37.09	4.09
1656	1812	8.201554	TGCATGAAACTCAATCTGTCTATTAC	57.798	34.615	0.00	0.00	0.00	1.89
1676	1832	6.157904	TGGAATAAAACAACTGTCATGCATG	58.842	36.000	21.07	21.07	0.00	4.06
1677	1833	6.343716	TGGAATAAAACAACTGTCATGCAT	57.656	33.333	0.00	0.00	0.00	3.96
1678	1834	5.781210	TGGAATAAAACAACTGTCATGCA	57.219	34.783	0.00	0.00	0.00	3.96
1679	1835	6.701400	AGTTTGGAATAAAACAACTGTCATGC	59.299	34.615	2.97	0.00	41.56	4.06
1689	1845	7.234577	AGGAAATAGGCAGTTTGGAATAAAACA	59.765	33.333	2.97	0.00	41.56	2.83
1704	1860	8.472007	TCTAAAGTTTTTCAAGGAAATAGGCA	57.528	30.769	0.00	0.00	31.34	4.75
1738	1894	3.141398	GCATTGTGAGAAGGAAGTGTGA	58.859	45.455	0.00	0.00	0.00	3.58
1739	1895	3.144506	AGCATTGTGAGAAGGAAGTGTG	58.855	45.455	0.00	0.00	0.00	3.82
1741	1897	4.843220	AAAGCATTGTGAGAAGGAAGTG	57.157	40.909	0.00	0.00	0.00	3.16
1742	1898	5.136105	AGAAAAGCATTGTGAGAAGGAAGT	58.864	37.500	0.00	0.00	0.00	3.01
1743	1899	5.702349	AGAAAAGCATTGTGAGAAGGAAG	57.298	39.130	0.00	0.00	0.00	3.46
1744	1900	6.299141	ACTAGAAAAGCATTGTGAGAAGGAA	58.701	36.000	0.00	0.00	0.00	3.36
1749	1913	6.094048	GGCATTACTAGAAAAGCATTGTGAGA	59.906	38.462	0.00	0.00	0.00	3.27
1760	1924	7.309194	GCTTTTCCAGAAGGCATTACTAGAAAA	60.309	37.037	0.00	12.30	33.74	2.29
1777	1941	1.286354	TAACGTCGGCGCTTTTCCAG	61.286	55.000	10.50	0.00	42.83	3.86
1783	1947	0.248784	GAGGTATAACGTCGGCGCTT	60.249	55.000	10.50	5.85	42.83	4.68
1786	1950	0.313043	ATGGAGGTATAACGTCGGCG	59.687	55.000	8.42	8.42	44.93	6.46
1788	1952	2.818432	AGCTATGGAGGTATAACGTCGG	59.182	50.000	0.00	0.00	34.08	4.79
1790	1954	5.472820	ACACTAGCTATGGAGGTATAACGTC	59.527	44.000	0.00	0.00	35.17	4.34
1812	1976	8.450578	AAAATACAGACTTCAACATTCTCACA	57.549	30.769	0.00	0.00	0.00	3.58
1861	2027	5.836347	TCATTGTACTGATCGAAGATGAGG	58.164	41.667	0.00	0.00	45.12	3.86
1997	2171	8.912988	TGATTGTCTATTTCAACAAGTTTTCCT	58.087	29.630	0.00	0.00	38.66	3.36
2043	2218	0.326595	TGCGCTTTGGTCCTATGGAA	59.673	50.000	9.73	0.00	31.38	3.53
2044	2219	0.392461	GTGCGCTTTGGTCCTATGGA	60.392	55.000	9.73	0.00	0.00	3.41
2056	2231	0.100503	GTTGTTGTTCTGGTGCGCTT	59.899	50.000	9.73	0.00	0.00	4.68
2057	2232	1.724582	GGTTGTTGTTCTGGTGCGCT	61.725	55.000	9.73	0.00	0.00	5.92
2093	2272	2.361119	TCGGATCCTTTCCATCTACACG	59.639	50.000	10.75	0.00	45.78	4.49
2102	2281	3.005472	TGTCGTCATATCGGATCCTTTCC	59.995	47.826	10.75	0.00	41.59	3.13
2113	2292	5.395778	GTCTACATTCGTGTGTCGTCATATC	59.604	44.000	0.00	0.00	40.80	1.63
2116	2295	3.057806	TGTCTACATTCGTGTGTCGTCAT	60.058	43.478	0.00	0.00	40.80	3.06
2120	2299	4.442705	GTTTTGTCTACATTCGTGTGTCG	58.557	43.478	0.00	0.00	41.41	4.35
2256	2465	1.684734	GTTCTCCCCGCCCAGACTA	60.685	63.158	0.00	0.00	0.00	2.59
2305	2514	1.842920	TGCTGCTCAGGAAGGTGGA	60.843	57.895	0.00	0.00	0.00	4.02
2322	2531	9.522804	TTTATTAGTTTTGTTAGGCTTTGTGTG	57.477	29.630	0.00	0.00	0.00	3.82
2360	2571	1.502690	TAATAGCGGGAGGGCTTCAA	58.497	50.000	0.00	0.00	41.39	2.69
2406	2620	1.950748	ATCTCCGGTGGCTCTAGGGT	61.951	60.000	0.00	0.00	0.00	4.34

Based at the University of Bristol with support from BBSRC.

AutoCloner maintained by Alex Coulton.