AutoCloner

Multiple sequence alignment - TraesCS2A01G215400

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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	TraesCS2A01G215400	chr2A	100.000	3165	0	0	1	3165	202211024	202214188	0.000000e+00	5845
1	TraesCS2A01G215400	chr2A	93.378	2522	113	8	666	3165	184517049	184514560	0.000000e+00	3683
2	TraesCS2A01G215400	chr2A	93.955	1919	79	17	663	2565	751417381	751415484	0.000000e+00	2867
3	TraesCS2A01G215400	chr2A	92.739	1818	98	10	665	2469	54414728	54416524	0.000000e+00	2595
4	TraesCS2A01G215400	chr2A	92.952	979	56	4	665	1630	54411401	54412379	0.000000e+00	1413
5	TraesCS2A01G215400	chr2A	93.125	640	9	6	29	667	202077483	202078088	0.000000e+00	905
6	TraesCS2A01G215400	chr2A	91.595	583	25	3	2592	3165	751415515	751414948	0.000000e+00	784
7	TraesCS2A01G215400	chr4A	87.823	2554	218	56	667	3165	37984867	37982352	0.000000e+00	2907
8	TraesCS2A01G215400	chrUn	95.580	1810	72	4	666	2469	112556594	112554787	0.000000e+00	2892
9	TraesCS2A01G215400	chrUn	90.395	583	32	2	2592	3165	112554736	112554169	0.000000e+00	745
10	TraesCS2A01G215400	chr5B	87.739	2561	184	69	667	3165	547624682	547622190	0.000000e+00	2870
11	TraesCS2A01G215400	chr5B	82.988	723	70	26	2467	3165	692429150	692429843	3.490000e-169	604
12	TraesCS2A01G215400	chr3D	93.842	1835	81	10	667	2469	447609823	447607989	0.000000e+00	2734
13	TraesCS2A01G215400	chr3D	90.254	1847	114	36	666	2469	374010879	374009056	0.000000e+00	2353
14	TraesCS2A01G215400	chr3D	92.281	583	36	1	2592	3165	447607938	447607356	0.000000e+00	819
15	TraesCS2A01G215400	chr3D	92.710	535	30	1	2640	3165	580650278	580649744	0.000000e+00	763
16	TraesCS2A01G215400	chr3D	89.030	629	46	12	2558	3165	155677686	155678312	0.000000e+00	758
17	TraesCS2A01G215400	chr3D	88.742	151	9	3	2552	2694	603107969	603107819	9.020000e-41	178
18	TraesCS2A01G215400	chr6A	93.189	1806	102	13	667	2469	454845795	454844008	0.000000e+00	2634
19	TraesCS2A01G215400	chr6A	90.409	636	52	2	2539	3165	68887094	68887729	0.000000e+00	828
20	TraesCS2A01G215400	chr6D	88.015	1844	120	30	666	2469	387624678	387622896	0.000000e+00	2087
21	TraesCS2A01G215400	chr6D	92.735	1115	61	7	1373	2469	445277391	445276279	0.000000e+00	1592
22	TraesCS2A01G215400	chr6D	88.854	628	49	11	2558	3165	387622879	387622253	0.000000e+00	752
23	TraesCS2A01G215400	chr6D	88.076	629	52	12	2558	3165	445208166	445207540	0.000000e+00	725
24	TraesCS2A01G215400	chr7B	92.688	1313	75	5	1174	2469	66321419	66322727	0.000000e+00	1873
25	TraesCS2A01G215400	chr7B	89.643	589	46	6	2592	3165	11699689	11699101	0.000000e+00	736
26	TraesCS2A01G215400	chr1D	92.825	1115	60	7	1373	2469	422850084	422848972	0.000000e+00	1598
27	TraesCS2A01G215400	chr5A	92.807	862	54	6	666	1520	395004058	395004918	0.000000e+00	1242
28	TraesCS2A01G215400	chr2D	88.712	629	47	14	2558	3165	207004396	207003771	0.000000e+00	747
29	TraesCS2A01G215400	chr2D	88.712	629	48	12	2558	3165	535664157	535664783	0.000000e+00	747
30	TraesCS2A01G215400	chr2D	89.280	597	41	8	2592	3165	633748913	633749509	0.000000e+00	726
31	TraesCS2A01G215400	chr2D	95.455	220	6	4	2	220	188514922	188515138	6.500000e-92	348
32	TraesCS2A01G215400	chr2D	94.554	202	6	2	453	649	188515282	188515483	1.100000e-79	307
33	TraesCS2A01G215400	chr2D	93.130	131	1	1	269	399	188515138	188515260	5.390000e-43	185
34	TraesCS2A01G215400	chr5D	87.917	629	53	16	2558	3165	504763252	504763878	0.000000e+00	719
35	TraesCS2A01G215400	chr2B	82.402	483	31	15	171	645	244776741	244777177	3.860000e-99	372
36	TraesCS2A01G215400	chr2B	93.706	143	8	1	1	143	244776599	244776740	2.470000e-51	213
37	TraesCS2A01G215400	chr2B	78.827	307	18	13	228	532	244781169	244781430	2.530000e-36	163

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	TraesCS2A01G215400	chr2A	202211024	202214188	3164	False	5845.000000	5845	100.000000	1	3165	1	chr2A.!!$F2	3164
1	TraesCS2A01G215400	chr2A	184514560	184517049	2489	True	3683.000000	3683	93.378000	666	3165	1	chr2A.!!$R1	2499
2	TraesCS2A01G215400	chr2A	54411401	54416524	5123	False	2004.000000	2595	92.845500	665	2469	2	chr2A.!!$F3	1804
3	TraesCS2A01G215400	chr2A	751414948	751417381	2433	True	1825.500000	2867	92.775000	663	3165	2	chr2A.!!$R2	2502
4	TraesCS2A01G215400	chr2A	202077483	202078088	605	False	905.000000	905	93.125000	29	667	1	chr2A.!!$F1	638
5	TraesCS2A01G215400	chr4A	37982352	37984867	2515	True	2907.000000	2907	87.823000	667	3165	1	chr4A.!!$R1	2498
6	TraesCS2A01G215400	chrUn	112554169	112556594	2425	True	1818.500000	2892	92.987500	666	3165	2	chrUn.!!$R1	2499
7	TraesCS2A01G215400	chr5B	547622190	547624682	2492	True	2870.000000	2870	87.739000	667	3165	1	chr5B.!!$R1	2498
8	TraesCS2A01G215400	chr5B	692429150	692429843	693	False	604.000000	604	82.988000	2467	3165	1	chr5B.!!$F1	698
9	TraesCS2A01G215400	chr3D	374009056	374010879	1823	True	2353.000000	2353	90.254000	666	2469	1	chr3D.!!$R1	1803
10	TraesCS2A01G215400	chr3D	447607356	447609823	2467	True	1776.500000	2734	93.061500	667	3165	2	chr3D.!!$R4	2498
11	TraesCS2A01G215400	chr3D	580649744	580650278	534	True	763.000000	763	92.710000	2640	3165	1	chr3D.!!$R2	525
12	TraesCS2A01G215400	chr3D	155677686	155678312	626	False	758.000000	758	89.030000	2558	3165	1	chr3D.!!$F1	607
13	TraesCS2A01G215400	chr6A	454844008	454845795	1787	True	2634.000000	2634	93.189000	667	2469	1	chr6A.!!$R1	1802
14	TraesCS2A01G215400	chr6A	68887094	68887729	635	False	828.000000	828	90.409000	2539	3165	1	chr6A.!!$F1	626
15	TraesCS2A01G215400	chr6D	445276279	445277391	1112	True	1592.000000	1592	92.735000	1373	2469	1	chr6D.!!$R2	1096
16	TraesCS2A01G215400	chr6D	387622253	387624678	2425	True	1419.500000	2087	88.434500	666	3165	2	chr6D.!!$R3	2499
17	TraesCS2A01G215400	chr6D	445207540	445208166	626	True	725.000000	725	88.076000	2558	3165	1	chr6D.!!$R1	607
18	TraesCS2A01G215400	chr7B	66321419	66322727	1308	False	1873.000000	1873	92.688000	1174	2469	1	chr7B.!!$F1	1295
19	TraesCS2A01G215400	chr7B	11699101	11699689	588	True	736.000000	736	89.643000	2592	3165	1	chr7B.!!$R1	573
20	TraesCS2A01G215400	chr1D	422848972	422850084	1112	True	1598.000000	1598	92.825000	1373	2469	1	chr1D.!!$R1	1096
21	TraesCS2A01G215400	chr5A	395004058	395004918	860	False	1242.000000	1242	92.807000	666	1520	1	chr5A.!!$F1	854
22	TraesCS2A01G215400	chr2D	207003771	207004396	625	True	747.000000	747	88.712000	2558	3165	1	chr2D.!!$R1	607
23	TraesCS2A01G215400	chr2D	535664157	535664783	626	False	747.000000	747	88.712000	2558	3165	1	chr2D.!!$F1	607
24	TraesCS2A01G215400	chr2D	633748913	633749509	596	False	726.000000	726	89.280000	2592	3165	1	chr2D.!!$F2	573
25	TraesCS2A01G215400	chr2D	188514922	188515483	561	False	280.000000	348	94.379667	2	649	3	chr2D.!!$F3	647
26	TraesCS2A01G215400	chr5D	504763252	504763878	626	False	719.000000	719	87.917000	2558	3165	1	chr5D.!!$F1	607
27	TraesCS2A01G215400	chr2B	244776599	244781430	4831	False	249.333333	372	84.978333	1	645	3	chr2B.!!$F1	644

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
759	900	0.389391	AGCTACCGCGCATTCAGTAT	59.611	50.0	8.75	0.0	42.32	2.12	F

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability	Orientation
2172	6709	4.348486	AGCAAGAGTACTCTTCTCCATGA	58.652	43.478	30.95	0.0	46.13	3.07	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
66	67	5.384063	AATGATAGTGATAGCTGGACGAG	57.616	43.478	0.00	0.00	0.00	4.18
344	346	2.031012	TTCGTGCTGCCCTGTGAG	59.969	61.111	0.00	0.00	0.00	3.51
345	347	3.535629	TTCGTGCTGCCCTGTGAGG	62.536	63.158	0.00	0.00	34.30	3.86
381	383	1.600916	GCATAACCGGCCATCTCCC	60.601	63.158	0.00	0.00	0.00	4.30
420	422	3.535561	CGCTAGTGATCAAAATCCCAGT	58.464	45.455	0.00	0.00	0.00	4.00
422	424	4.517285	GCTAGTGATCAAAATCCCAGTCA	58.483	43.478	0.00	0.00	0.00	3.41
434	436	2.202987	CAGTCATCCTCCCAGCGC	60.203	66.667	0.00	0.00	0.00	5.92
498	500	2.358737	CTTCCAAGCCGACGCCTT	60.359	61.111	0.00	0.00	34.57	4.35
513	515	2.224281	ACGCCTTGAGAGATTTGTGTGA	60.224	45.455	0.00	0.00	0.00	3.58
517	519	2.455674	TGAGAGATTTGTGTGACCGG	57.544	50.000	0.00	0.00	0.00	5.28
534	536	1.679680	CCGGAGTTAATCAGTAGGCGA	59.320	52.381	0.00	0.00	0.00	5.54
539	541	3.978687	AGTTAATCAGTAGGCGAATCGG	58.021	45.455	4.35	0.00	0.00	4.18
550	559	2.271173	GAATCGGTCCGGGGCTTT	59.729	61.111	12.29	0.00	0.00	3.51
567	576	2.636778	TTTGCGAGACCACGAGTGCA	62.637	55.000	0.00	0.00	35.09	4.57
568	577	2.807045	GCGAGACCACGAGTGCAG	60.807	66.667	0.00	0.00	35.09	4.41
569	578	2.126307	CGAGACCACGAGTGCAGG	60.126	66.667	0.00	0.00	35.09	4.85
570	579	2.433318	GAGACCACGAGTGCAGGC	60.433	66.667	0.00	0.00	0.00	4.85
584	593	4.473520	AGGCGGTGCAAGGATCGG	62.474	66.667	0.00	0.00	0.00	4.18
591	600	2.007608	GGTGCAAGGATCGGTTAGTTC	58.992	52.381	0.00	0.00	0.00	3.01
597	606	1.004595	GGATCGGTTAGTTCGTTGGC	58.995	55.000	0.00	0.00	0.00	4.52
603	612	2.344025	GGTTAGTTCGTTGGCTAGGTG	58.656	52.381	0.00	0.00	0.00	4.00
604	613	2.289257	GGTTAGTTCGTTGGCTAGGTGT	60.289	50.000	0.00	0.00	0.00	4.16
622	631	6.588719	AGGTGTATGATCTCAGCTAGATTC	57.411	41.667	13.10	0.00	45.35	2.52
625	634	5.863397	GTGTATGATCTCAGCTAGATTCTGC	59.137	44.000	0.00	0.00	45.35	4.26
641	650	4.783764	TTCTGCTCGAACAGTGAAGATA	57.216	40.909	15.10	0.00	38.84	1.98
642	651	4.991153	TCTGCTCGAACAGTGAAGATAT	57.009	40.909	15.10	0.00	38.84	1.63
644	653	6.451064	TCTGCTCGAACAGTGAAGATATTA	57.549	37.500	15.10	0.00	38.84	0.98
645	654	7.043961	TCTGCTCGAACAGTGAAGATATTAT	57.956	36.000	15.10	0.00	38.84	1.28
646	655	7.492524	TCTGCTCGAACAGTGAAGATATTATT	58.507	34.615	15.10	0.00	38.84	1.40
647	656	7.649705	TCTGCTCGAACAGTGAAGATATTATTC	59.350	37.037	15.10	0.00	38.84	1.75
650	791	6.522054	TCGAACAGTGAAGATATTATTCCCC	58.478	40.000	0.00	0.00	0.00	4.81
652	793	6.992715	CGAACAGTGAAGATATTATTCCCCTT	59.007	38.462	0.00	0.00	0.00	3.95
743	884	4.229876	GTCGCTAATCTTTTGCAAAAGCT	58.770	39.130	36.33	28.59	43.85	3.74
759	900	0.389391	AGCTACCGCGCATTCAGTAT	59.611	50.000	8.75	0.00	42.32	2.12
799	940	4.481112	CCTGTCATTTGGCGCGGC	62.481	66.667	27.61	27.61	0.00	6.53
815	956	2.125106	GCTGAGGGCGTTTCCGAT	60.125	61.111	0.00	0.00	35.63	4.18
853	997	1.603678	GGTGTGTCATAACGGACGTGT	60.604	52.381	0.00	0.00	40.72	4.49
879	1023	0.803380	CGCCGTTACCTTAAGACCGG	60.803	60.000	3.36	0.00	38.45	5.28
905	1049	2.041686	GGGTCGCGAGAGACAGACT	61.042	63.158	10.24	0.00	43.49	3.24
1221	1426	3.585862	GGTCTTGCTGACGACTTGAATA	58.414	45.455	0.00	0.00	46.24	1.75
1242	1447	6.989155	ATATGATTTGTGAGCATGGGAATT	57.011	33.333	0.00	0.00	0.00	2.17
1307	1512	1.081242	GTTCATTGCCTGTGCCACG	60.081	57.895	0.00	0.00	36.33	4.94
1425	5271	9.483489	TTCATGTTCTAGGGTTCATAGTTACTA	57.517	33.333	0.00	0.00	0.00	1.82
1503	5378	9.268282	ACTGAATTTAGTTCTAGGGTTCATAGA	57.732	33.333	0.00	0.00	37.72	1.98
1626	5526	8.514330	TTAAACTGACATTTTCTGTTGTAGGT	57.486	30.769	0.00	0.00	43.54	3.08
1831	6257	7.392673	ACATATGAGAAGCTTGTTGAAGATGTT	59.607	33.333	10.38	0.00	0.00	2.71
1876	6302	0.251165	GCCAGCCTGAGGTAAACCAA	60.251	55.000	0.00	0.00	38.89	3.67
2079	6560	5.045286	AGAGGACTTTGGAGATTTGCTATGT	60.045	40.000	0.00	0.00	0.00	2.29
2162	6699	3.072944	GCTGAGCTGATGAAACTGAAGT	58.927	45.455	0.00	0.00	0.00	3.01
2172	6709	7.118971	GCTGATGAAACTGAAGTAGAAGTTGAT	59.881	37.037	0.00	0.00	36.75	2.57
2532	7801	7.796054	AGTAGATAGCAACCATAACTGAACAT	58.204	34.615	0.00	0.00	0.00	2.71
2533	7802	8.924303	AGTAGATAGCAACCATAACTGAACATA	58.076	33.333	0.00	0.00	0.00	2.29
2537	7806	9.929180	GATAGCAACCATAACTGAACATAGATA	57.071	33.333	0.00	0.00	0.00	1.98
2580	7849	6.989169	AGATAGCAAGCAGAACTTAACATAGG	59.011	38.462	0.00	0.00	36.04	2.57
2596	7865	5.122512	ACATAGGTAGCAAGTACATAGCG	57.877	43.478	0.00	0.00	31.60	4.26
2741	8140	9.495754	CAAAACTGAACTTTTTCTTCTACTGAG	57.504	33.333	0.00	0.00	32.36	3.35
2750	8149	9.620259	ACTTTTTCTTCTACTGAGAAAACTGAT	57.380	29.630	10.54	0.00	41.23	2.90
2947	8346	4.272489	CAGCTTATCCACTTCAATTGGGA	58.728	43.478	5.42	4.58	34.56	4.37
3069	8495	5.027460	TCAGAGGAGTAGTAGTCAGACTCT	58.973	45.833	6.27	7.02	39.66	3.24
3088	8514	2.033675	TCTTCAGCGTTGTAGTCGTCAA	59.966	45.455	5.84	0.00	0.00	3.18
3097	8529	2.497138	TGTAGTCGTCAAAGGACTCGA	58.503	47.619	5.64	0.00	41.79	4.04
3101	8533	3.174790	CGTCAAAGGACTCGACGTT	57.825	52.632	13.11	0.00	45.59	3.99

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
11	12	9.677567	TCGATCAAAACTGGAATTTCTTTAAAG	57.322	29.630	9.04	9.04	0.00	1.85
66	67	8.568794	AGAATTGGACTGAAGTTAAACTTTAGC	58.431	33.333	0.00	0.00	43.25	3.09
344	346	0.389948	CGGACTAACCTGTCACAGCC	60.390	60.000	0.00	0.00	38.61	4.85
345	347	1.014564	GCGGACTAACCTGTCACAGC	61.015	60.000	0.00	0.00	38.61	4.40
420	422	3.074369	TTCGCGCTGGGAGGATGA	61.074	61.111	5.56	0.00	0.00	2.92
422	424	3.854669	CCTTCGCGCTGGGAGGAT	61.855	66.667	5.56	0.00	0.00	3.24
434	436	2.895372	CGCCCGGGAATTCCTTCG	60.895	66.667	29.31	18.50	35.95	3.79
496	498	2.738846	CCGGTCACACAAATCTCTCAAG	59.261	50.000	0.00	0.00	0.00	3.02
497	499	2.367241	TCCGGTCACACAAATCTCTCAA	59.633	45.455	0.00	0.00	0.00	3.02
498	500	1.967779	TCCGGTCACACAAATCTCTCA	59.032	47.619	0.00	0.00	0.00	3.27
513	515	1.407979	CGCCTACTGATTAACTCCGGT	59.592	52.381	0.00	0.00	0.00	5.28
517	519	3.982058	CCGATTCGCCTACTGATTAACTC	59.018	47.826	0.00	0.00	0.00	3.01
534	536	2.045340	CAAAGCCCCGGACCGATT	60.045	61.111	17.49	1.44	0.00	3.34
539	541	4.388499	TCTCGCAAAGCCCCGGAC	62.388	66.667	0.73	0.00	0.00	4.79
550	559	3.558099	CTGCACTCGTGGTCTCGCA	62.558	63.158	0.00	0.00	0.00	5.10
567	576	4.473520	CCGATCCTTGCACCGCCT	62.474	66.667	0.00	0.00	0.00	5.52
568	577	2.862674	TAACCGATCCTTGCACCGCC	62.863	60.000	0.00	0.00	0.00	6.13
569	578	1.429148	CTAACCGATCCTTGCACCGC	61.429	60.000	0.00	0.00	0.00	5.68
570	579	0.108329	ACTAACCGATCCTTGCACCG	60.108	55.000	0.00	0.00	0.00	4.94
578	587	1.004595	GCCAACGAACTAACCGATCC	58.995	55.000	0.00	0.00	0.00	3.36
580	589	2.159142	CCTAGCCAACGAACTAACCGAT	60.159	50.000	0.00	0.00	0.00	4.18
584	593	3.036075	ACACCTAGCCAACGAACTAAC	57.964	47.619	0.00	0.00	0.00	2.34
591	600	3.068165	TGAGATCATACACCTAGCCAACG	59.932	47.826	0.00	0.00	0.00	4.10
597	606	7.611467	AGAATCTAGCTGAGATCATACACCTAG	59.389	40.741	0.00	3.58	44.68	3.02
603	612	6.271488	AGCAGAATCTAGCTGAGATCATAC	57.729	41.667	0.00	0.00	44.68	2.39
604	613	5.123661	CGAGCAGAATCTAGCTGAGATCATA	59.876	44.000	10.93	0.00	44.68	2.15
622	631	7.095857	GGAATAATATCTTCACTGTTCGAGCAG	60.096	40.741	25.50	25.50	41.92	4.24
625	634	6.647067	GGGGAATAATATCTTCACTGTTCGAG	59.353	42.308	1.55	0.00	0.00	4.04
641	650	6.476378	CAATCCGACTATCAAGGGGAATAAT	58.524	40.000	0.00	0.00	34.36	1.28
642	651	5.221843	CCAATCCGACTATCAAGGGGAATAA	60.222	44.000	0.00	0.00	34.36	1.40
644	653	3.073062	CCAATCCGACTATCAAGGGGAAT	59.927	47.826	0.00	0.00	34.36	3.01
645	654	2.438021	CCAATCCGACTATCAAGGGGAA	59.562	50.000	0.00	0.00	34.36	3.97
646	655	2.047061	CCAATCCGACTATCAAGGGGA	58.953	52.381	0.00	0.00	34.93	4.81
647	656	2.037772	CTCCAATCCGACTATCAAGGGG	59.962	54.545	0.00	0.00	0.00	4.79
650	791	4.655762	TCACTCCAATCCGACTATCAAG	57.344	45.455	0.00	0.00	0.00	3.02
652	793	5.359756	CAATTCACTCCAATCCGACTATCA	58.640	41.667	0.00	0.00	0.00	2.15
743	884	3.720949	ACTTATACTGAATGCGCGGTA	57.279	42.857	8.83	0.00	34.38	4.02
815	956	1.390125	CCAAATTGGGCCCCACCTA	59.610	57.895	22.27	0.00	39.10	3.08
841	985	1.213537	CCGTCCACACGTCCGTTAT	59.786	57.895	0.00	0.00	45.17	1.89
1221	1426	5.687166	AAATTCCCATGCTCACAAATCAT	57.313	34.783	0.00	0.00	0.00	2.45
1242	1447	6.894654	TCAAATGCAACATATTTCCTCCCTAA	59.105	34.615	0.00	0.00	0.00	2.69
1307	1512	6.679327	AGACACAACTTGAAACTTACTTCC	57.321	37.500	0.00	0.00	0.00	3.46
1603	5503	7.093945	ACAACCTACAACAGAAAATGTCAGTTT	60.094	33.333	0.00	0.00	43.00	2.66
1626	5526	4.749099	GCACTAATCCACAATTTGCAACAA	59.251	37.500	0.00	0.00	33.24	2.83
1702	5701	4.784838	TGGCTATCCTCATACATAAGGCAT	59.215	41.667	0.00	0.00	32.37	4.40
1766	5769	4.541973	TCTGCTGTGTCAGATTGTGTAT	57.458	40.909	0.66	0.00	38.11	2.29
1876	6302	7.039923	ACTGAAATGTTCTCAGCATCATTCTTT	60.040	33.333	0.00	0.00	43.48	2.52
1957	6438	5.596845	TGAATTTGCTTTAACTGGTCAACC	58.403	37.500	0.00	0.00	0.00	3.77
2079	6560	5.307976	TCATCCTTCTCTTTCTTCAGGTCAA	59.692	40.000	0.00	0.00	0.00	3.18
2162	6699	7.836685	AGTACTCTTCTCCATGATCAACTTCTA	59.163	37.037	0.00	0.00	0.00	2.10
2172	6709	4.348486	AGCAAGAGTACTCTTCTCCATGA	58.652	43.478	30.95	0.00	46.13	3.07
2537	7806	8.183104	TGCTATCTACTTGCTATGTACTTGAT	57.817	34.615	0.00	0.00	0.00	2.57
2542	7811	6.216569	TGCTTGCTATCTACTTGCTATGTAC	58.783	40.000	0.00	0.00	0.00	2.90
2545	7814	5.536260	TCTGCTTGCTATCTACTTGCTATG	58.464	41.667	0.00	0.00	0.00	2.23
2580	7849	5.670149	TCTACTCGCTATGTACTTGCTAC	57.330	43.478	0.00	0.00	0.00	3.58
2947	8346	0.329596	GTGGAGGGGCAGAAGAACAT	59.670	55.000	0.00	0.00	0.00	2.71
3069	8495	2.495409	TTGACGACTACAACGCTGAA	57.505	45.000	0.00	0.00	0.00	3.02
3097	8529	0.795085	CCAGACGACGACTCTAACGT	59.205	55.000	0.00	0.00	46.58	3.99
3101	8533	1.748122	GGGCCAGACGACGACTCTA	60.748	63.158	4.39	0.00	0.00	2.43

Based at the University of Bristol with support from BBSRC.

AutoCloner maintained by Alex Coulton.