AutoCloner

Multiple sequence alignment - TraesCS1B01G224000

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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	TraesCS1B01G224000	chr1B	100.000	2460	0	0	1	2460	402052206	402049747	0.000000e+00	4543
1	TraesCS1B01G224000	chr1B	93.398	621	38	2	1	619	45206581	45205962	0.000000e+00	917
2	TraesCS1B01G224000	chr1B	90.338	621	59	1	1	621	537466462	537465843	0.000000e+00	813
3	TraesCS1B01G224000	chr1B	78.846	208	40	4	1964	2169	484465586	484465791	1.190000e-28	137
4	TraesCS1B01G224000	chr1D	96.595	1263	30	5	670	1919	298620567	298619305	0.000000e+00	2082
5	TraesCS1B01G224000	chr1D	91.176	544	32	6	1918	2460	298609121	298608593	0.000000e+00	725
6	TraesCS1B01G224000	chr1D	79.231	260	48	4	1195	1451	298635694	298635950	2.510000e-40	176
7	TraesCS1B01G224000	chr1D	90.909	88	8	0	1865	1952	385053342	385053255	4.300000e-23	119
8	TraesCS1B01G224000	chr1D	79.762	168	29	4	1288	1451	298574058	298573892	1.550000e-22	117
9	TraesCS1B01G224000	chr1A	93.682	1013	44	10	667	1664	372468371	372467364	0.000000e+00	1498
10	TraesCS1B01G224000	chr1A	92.857	294	21	0	1674	1967	372465268	372464975	6.290000e-116	427
11	TraesCS1B01G224000	chr1A	79.781	183	27	8	1274	1451	372530488	372530665	9.240000e-25	124
12	TraesCS1B01G224000	chr1A	92.045	88	7	0	1865	1952	485215993	485215906	9.240000e-25	124
13	TraesCS1B01G224000	chr7B	93.366	618	40	1	3	620	548167874	548168490	0.000000e+00	913
14	TraesCS1B01G224000	chr7B	92.432	621	45	2	1	621	746164829	746165447	0.000000e+00	885
15	TraesCS1B01G224000	chr7B	85.743	505	52	8	1964	2460	176761796	176762288	1.300000e-142	516
16	TraesCS1B01G224000	chr2B	90.968	620	55	1	1	620	571259901	571260519	0.000000e+00	833
17	TraesCS1B01G224000	chr2B	90.545	624	55	3	1	621	380257880	380258502	0.000000e+00	822
18	TraesCS1B01G224000	chr2B	85.060	502	65	10	1966	2460	44024739	44024241	1.020000e-138	503
19	TraesCS1B01G224000	chr6B	89.839	620	62	1	1	620	88186784	88186166	0.000000e+00	795
20	TraesCS1B01G224000	chr6B	82.460	496	77	9	1970	2460	211814358	211813868	2.260000e-115	425
21	TraesCS1B01G224000	chr3B	89.839	620	59	4	1	620	381031181	381031796	0.000000e+00	793
22	TraesCS1B01G224000	chr3B	89.694	621	61	3	1	620	783105452	783104834	0.000000e+00	789
23	TraesCS1B01G224000	chr7D	85.487	503	67	5	1964	2460	223097365	223096863	1.010000e-143	520
24	TraesCS1B01G224000	chr7D	81.675	191	33	2	1964	2153	187266456	187266267	9.110000e-35	158
25	TraesCS1B01G224000	chr2D	90.133	375	33	4	2089	2460	8057581	8057954	3.680000e-133	484
26	TraesCS1B01G224000	chr6A	83.400	500	76	7	1964	2460	148004255	148003760	8.020000e-125	457
27	TraesCS1B01G224000	chr4B	83.300	503	67	14	1964	2460	483647191	483646700	4.830000e-122	448
28	TraesCS1B01G224000	chr6D	88.427	337	30	6	2126	2460	119820520	119820191	4.930000e-107	398
29	TraesCS1B01G224000	chr5D	79.832	238	42	6	1964	2198	341560620	341560386	4.210000e-38	169
30	TraesCS1B01G224000	chrUn	80.851	188	31	5	1964	2148	87225310	87225495	2.550000e-30	143

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	TraesCS1B01G224000	chr1B	402049747	402052206	2459	True	4543.0	4543	100.0000	1	2460	1	chr1B.!!$R2	2459
1	TraesCS1B01G224000	chr1B	45205962	45206581	619	True	917.0	917	93.3980	1	619	1	chr1B.!!$R1	618
2	TraesCS1B01G224000	chr1B	537465843	537466462	619	True	813.0	813	90.3380	1	621	1	chr1B.!!$R3	620
3	TraesCS1B01G224000	chr1D	298619305	298620567	1262	True	2082.0	2082	96.5950	670	1919	1	chr1D.!!$R3	1249
4	TraesCS1B01G224000	chr1D	298608593	298609121	528	True	725.0	725	91.1760	1918	2460	1	chr1D.!!$R2	542
5	TraesCS1B01G224000	chr1A	372464975	372468371	3396	True	962.5	1498	93.2695	667	1967	2	chr1A.!!$R2	1300
6	TraesCS1B01G224000	chr7B	548167874	548168490	616	False	913.0	913	93.3660	3	620	1	chr7B.!!$F2	617
7	TraesCS1B01G224000	chr7B	746164829	746165447	618	False	885.0	885	92.4320	1	621	1	chr7B.!!$F3	620
8	TraesCS1B01G224000	chr2B	571259901	571260519	618	False	833.0	833	90.9680	1	620	1	chr2B.!!$F2	619
9	TraesCS1B01G224000	chr2B	380257880	380258502	622	False	822.0	822	90.5450	1	621	1	chr2B.!!$F1	620
10	TraesCS1B01G224000	chr6B	88186166	88186784	618	True	795.0	795	89.8390	1	620	1	chr6B.!!$R1	619
11	TraesCS1B01G224000	chr3B	381031181	381031796	615	False	793.0	793	89.8390	1	620	1	chr3B.!!$F1	619
12	TraesCS1B01G224000	chr3B	783104834	783105452	618	True	789.0	789	89.6940	1	620	1	chr3B.!!$R1	619
13	TraesCS1B01G224000	chr7D	223096863	223097365	502	True	520.0	520	85.4870	1964	2460	1	chr7D.!!$R2	496

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
503	507	0.108186	TCGCCAGCATACACTCTTGG	60.108	55.0	0.0	0.0	0.0	3.61	F
639	643	0.411452	AAGAGGAGTGGAGAGCAGGA	59.589	55.0	0.0	0.0	0.0	3.86	F

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability	Orientation
1372	1394	1.221021	GGGGACGTTGAGGTGGATC	59.779	63.158	0.0	0.0	0.00	3.36	R
2062	4174	1.271597	GGTCTGTTTGCAGGGTCTGAT	60.272	52.381	0.0	0.0	42.78	2.90	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
35	36	1.156645	GGCTGCTGCACTTAGATCGG	61.157	60.000	17.89	0.00	41.91	4.18
165	166	0.961019	GGCAATTCAGTGCTGGAACA	59.039	50.000	0.00	0.00	44.31	3.18
265	266	2.538512	TTGATCATCGATGGAGCCAG	57.461	50.000	24.61	0.00	0.00	4.85
299	300	2.437359	GGCACCAGATCGCTGCTT	60.437	61.111	10.80	0.00	40.91	3.91
503	507	0.108186	TCGCCAGCATACACTCTTGG	60.108	55.000	0.00	0.00	0.00	3.61
509	513	1.486726	AGCATACACTCTTGGTAGGCC	59.513	52.381	0.00	0.00	46.46	5.19
637	641	3.415457	AAAAAGAGGAGTGGAGAGCAG	57.585	47.619	0.00	0.00	0.00	4.24
638	642	1.274712	AAAGAGGAGTGGAGAGCAGG	58.725	55.000	0.00	0.00	0.00	4.85
639	643	0.411452	AAGAGGAGTGGAGAGCAGGA	59.589	55.000	0.00	0.00	0.00	3.86
640	644	0.411452	AGAGGAGTGGAGAGCAGGAA	59.589	55.000	0.00	0.00	0.00	3.36
641	645	1.203237	AGAGGAGTGGAGAGCAGGAAA	60.203	52.381	0.00	0.00	0.00	3.13
642	646	1.625818	GAGGAGTGGAGAGCAGGAAAA	59.374	52.381	0.00	0.00	0.00	2.29
643	647	2.238395	GAGGAGTGGAGAGCAGGAAAAT	59.762	50.000	0.00	0.00	0.00	1.82
644	648	3.452627	GAGGAGTGGAGAGCAGGAAAATA	59.547	47.826	0.00	0.00	0.00	1.40
645	649	3.454082	AGGAGTGGAGAGCAGGAAAATAG	59.546	47.826	0.00	0.00	0.00	1.73
646	650	3.198853	GGAGTGGAGAGCAGGAAAATAGT	59.801	47.826	0.00	0.00	0.00	2.12
647	651	4.323868	GGAGTGGAGAGCAGGAAAATAGTT	60.324	45.833	0.00	0.00	0.00	2.24
648	652	4.583871	AGTGGAGAGCAGGAAAATAGTTG	58.416	43.478	0.00	0.00	0.00	3.16
649	653	4.042187	AGTGGAGAGCAGGAAAATAGTTGT	59.958	41.667	0.00	0.00	0.00	3.32
650	654	5.248477	AGTGGAGAGCAGGAAAATAGTTGTA	59.752	40.000	0.00	0.00	0.00	2.41
651	655	5.582665	GTGGAGAGCAGGAAAATAGTTGTAG	59.417	44.000	0.00	0.00	0.00	2.74
652	656	5.119694	GGAGAGCAGGAAAATAGTTGTAGG	58.880	45.833	0.00	0.00	0.00	3.18
653	657	4.518249	AGAGCAGGAAAATAGTTGTAGGC	58.482	43.478	0.00	0.00	0.00	3.93
654	658	3.270877	AGCAGGAAAATAGTTGTAGGCG	58.729	45.455	0.00	0.00	0.00	5.52
655	659	3.055385	AGCAGGAAAATAGTTGTAGGCGA	60.055	43.478	0.00	0.00	0.00	5.54
656	660	3.063588	GCAGGAAAATAGTTGTAGGCGAC	59.936	47.826	0.00	0.00	0.00	5.19
657	661	4.250464	CAGGAAAATAGTTGTAGGCGACA	58.750	43.478	0.00	0.00	35.78	4.35
658	662	4.693566	CAGGAAAATAGTTGTAGGCGACAA	59.306	41.667	9.20	9.20	46.03	3.18
664	668	3.314083	TTGTAGGCGACAATGTGCA	57.686	47.368	9.20	0.00	43.30	4.57
665	669	1.819928	TTGTAGGCGACAATGTGCAT	58.180	45.000	9.20	0.00	43.30	3.96
674	678	2.615447	CGACAATGTGCATAGCTTGGAT	59.385	45.455	0.00	0.00	0.00	3.41
685	689	4.996758	GCATAGCTTGGATGGTTTTTGTTT	59.003	37.500	0.00	0.00	0.00	2.83
686	690	5.469760	GCATAGCTTGGATGGTTTTTGTTTT	59.530	36.000	0.00	0.00	0.00	2.43
719	723	6.148948	TCTTCCAACGCATTAAACATTTCAG	58.851	36.000	0.00	0.00	0.00	3.02
720	724	4.804108	TCCAACGCATTAAACATTTCAGG	58.196	39.130	0.00	0.00	0.00	3.86
723	727	4.434713	ACGCATTAAACATTTCAGGGAC	57.565	40.909	0.00	0.00	0.00	4.46
744	748	5.870978	GGACAACTTGGAATCAATTTGATGG	59.129	40.000	12.50	4.46	42.50	3.51
771	775	3.759581	ACATCATGGATGACCTAATGCC	58.240	45.455	12.79	0.00	42.09	4.40
777	781	1.475034	GGATGACCTAATGCCGCAAGA	60.475	52.381	0.00	0.00	43.02	3.02
787	794	3.971032	ATGCCGCAAGAAATTAGCTAC	57.029	42.857	0.00	0.00	43.02	3.58
808	815	9.130661	AGCTACTAGAATATACTCCATATGCAG	57.869	37.037	0.00	0.00	28.24	4.41
837	844	3.472652	ACAAAGTGAAGTCCATTACGCA	58.527	40.909	0.00	0.00	0.00	5.24
844	851	4.154195	GTGAAGTCCATTACGCAGTTCAAT	59.846	41.667	0.00	0.00	37.78	2.57
895	902	4.778958	TGCTCATCCAAATCCAAGGAAAAT	59.221	37.500	0.00	0.00	37.48	1.82
925	939	1.154197	CGCGAATGCATGATCCTGAT	58.846	50.000	0.00	0.00	42.97	2.90
983	997	1.623811	ACGTGTAGACTCCCATTTGCT	59.376	47.619	0.00	0.00	0.00	3.91
1092	1108	3.056107	AGTCGCTAACACTTGCTCCATTA	60.056	43.478	0.00	0.00	0.00	1.90
1592	1617	2.787601	TGTACGTTCTCGCTTTCACT	57.212	45.000	0.00	0.00	41.18	3.41
1809	3921	3.077556	CCTGACCTCTGGGGACGG	61.078	72.222	0.00	0.00	38.76	4.79
1899	4011	0.528017	TGCAACCGTGTTGCTTTTGA	59.472	45.000	29.23	14.90	45.13	2.69
1968	4080	3.945285	GCGGAGATTGGGTCAAATAAGAA	59.055	43.478	0.00	0.00	0.00	2.52
1972	4084	6.458751	CGGAGATTGGGTCAAATAAGAACATG	60.459	42.308	0.00	0.00	0.00	3.21
1978	4090	7.016153	TGGGTCAAATAAGAACATGTCTAGT	57.984	36.000	0.00	0.00	34.56	2.57
1996	4108	6.000219	GTCTAGTAGACCCCGTATAACATCA	59.000	44.000	18.10	0.00	39.28	3.07
2022	4134	2.464744	GCAAAACGCGTTTACAATTCGT	59.535	40.909	34.89	15.92	34.63	3.85
2024	4136	3.589061	AAACGCGTTTACAATTCGTGA	57.411	38.095	34.04	0.00	38.25	4.35
2069	4195	2.892425	CGGCCGCAGAATCAGACC	60.892	66.667	14.67	0.00	0.00	3.85
2070	4196	2.514824	GGCCGCAGAATCAGACCC	60.515	66.667	0.00	0.00	0.00	4.46
2071	4197	2.586792	GCCGCAGAATCAGACCCT	59.413	61.111	0.00	0.00	0.00	4.34
2072	4198	1.817099	GCCGCAGAATCAGACCCTG	60.817	63.158	0.00	0.00	0.00	4.45
2078	4204	2.507484	CAGAATCAGACCCTGCAAACA	58.493	47.619	0.00	0.00	0.00	2.83
2079	4205	2.486982	CAGAATCAGACCCTGCAAACAG	59.513	50.000	0.00	0.00	44.05	3.16
2143	4269	1.896660	GCTTTGCGGGGTCTGTTCA	60.897	57.895	0.00	0.00	0.00	3.18
2174	4301	1.418342	CGCCGGTCCGTAAACAGATG	61.418	60.000	11.06	0.00	0.00	2.90
2386	4517	2.285024	GCCAGCCCTTTGCCAATGA	61.285	57.895	0.00	0.00	42.71	2.57
2388	4519	1.779221	CCAGCCCTTTGCCAATGATA	58.221	50.000	0.00	0.00	42.71	2.15
2412	4543	4.550669	TCAATGAGATCCTCCTGAAGCTA	58.449	43.478	0.00	0.00	0.00	3.32
2433	4564	6.371271	AGCTAAAAGTGTGTGTTTGCATTTTT	59.629	30.769	0.00	0.00	37.90	1.94

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
35	36	3.053455	GAGTCTATCGTTGCACCATAGC	58.947	50.000	0.00	0.00	0.00	2.97
149	150	3.508793	CCATCTTGTTCCAGCACTGAATT	59.491	43.478	0.00	0.00	0.00	2.17
165	166	0.257039	CCTAGCCAGGTTGCCATCTT	59.743	55.000	0.00	0.00	37.15	2.40
265	266	4.785453	CCTTCCTCGTGCCTGGGC	62.785	72.222	4.43	4.43	42.35	5.36
299	300	5.127519	CCAGATTTGCCAGACCATCAAAATA	59.872	40.000	0.00	0.00	34.00	1.40
492	496	1.120530	CCGGCCTACCAAGAGTGTAT	58.879	55.000	0.00	0.00	34.57	2.29
503	507	2.826725	AGAGATTACATAGCCGGCCTAC	59.173	50.000	26.15	6.34	0.00	3.18
509	513	4.855715	TGGAGAAGAGATTACATAGCCG	57.144	45.455	0.00	0.00	0.00	5.52
622	626	1.270907	TTTCCTGCTCTCCACTCCTC	58.729	55.000	0.00	0.00	0.00	3.71
623	627	1.734655	TTTTCCTGCTCTCCACTCCT	58.265	50.000	0.00	0.00	0.00	3.69
624	628	2.797177	ATTTTCCTGCTCTCCACTCC	57.203	50.000	0.00	0.00	0.00	3.85
625	629	4.479786	ACTATTTTCCTGCTCTCCACTC	57.520	45.455	0.00	0.00	0.00	3.51
626	630	4.042187	ACAACTATTTTCCTGCTCTCCACT	59.958	41.667	0.00	0.00	0.00	4.00
627	631	4.327680	ACAACTATTTTCCTGCTCTCCAC	58.672	43.478	0.00	0.00	0.00	4.02
628	632	4.640771	ACAACTATTTTCCTGCTCTCCA	57.359	40.909	0.00	0.00	0.00	3.86
629	633	5.119694	CCTACAACTATTTTCCTGCTCTCC	58.880	45.833	0.00	0.00	0.00	3.71
630	634	4.572795	GCCTACAACTATTTTCCTGCTCTC	59.427	45.833	0.00	0.00	0.00	3.20
631	635	4.518249	GCCTACAACTATTTTCCTGCTCT	58.482	43.478	0.00	0.00	0.00	4.09
632	636	3.309954	CGCCTACAACTATTTTCCTGCTC	59.690	47.826	0.00	0.00	0.00	4.26
633	637	3.055385	TCGCCTACAACTATTTTCCTGCT	60.055	43.478	0.00	0.00	0.00	4.24
634	638	3.063588	GTCGCCTACAACTATTTTCCTGC	59.936	47.826	0.00	0.00	0.00	4.85
635	639	4.250464	TGTCGCCTACAACTATTTTCCTG	58.750	43.478	0.00	0.00	34.29	3.86
636	640	4.546829	TGTCGCCTACAACTATTTTCCT	57.453	40.909	0.00	0.00	34.29	3.36
647	651	2.549926	CTATGCACATTGTCGCCTACA	58.450	47.619	0.00	0.00	35.88	2.74
648	652	1.261619	GCTATGCACATTGTCGCCTAC	59.738	52.381	0.00	0.00	0.00	3.18
649	653	1.138859	AGCTATGCACATTGTCGCCTA	59.861	47.619	0.00	3.69	0.00	3.93
650	654	0.107508	AGCTATGCACATTGTCGCCT	60.108	50.000	0.00	2.90	0.00	5.52
651	655	0.734889	AAGCTATGCACATTGTCGCC	59.265	50.000	0.00	0.00	0.00	5.54
652	656	1.532505	CCAAGCTATGCACATTGTCGC	60.533	52.381	0.00	4.81	0.00	5.19
653	657	2.009051	TCCAAGCTATGCACATTGTCG	58.991	47.619	0.00	0.00	0.00	4.35
654	658	3.243301	CCATCCAAGCTATGCACATTGTC	60.243	47.826	0.00	0.00	0.00	3.18
655	659	2.691526	CCATCCAAGCTATGCACATTGT	59.308	45.455	0.00	0.00	0.00	2.71
656	660	2.691526	ACCATCCAAGCTATGCACATTG	59.308	45.455	0.00	0.00	0.00	2.82
657	661	3.022557	ACCATCCAAGCTATGCACATT	57.977	42.857	0.00	0.00	0.00	2.71
658	662	2.742428	ACCATCCAAGCTATGCACAT	57.258	45.000	0.00	0.00	0.00	3.21
659	663	2.512692	AACCATCCAAGCTATGCACA	57.487	45.000	0.00	0.00	0.00	4.57
660	664	3.874392	AAAACCATCCAAGCTATGCAC	57.126	42.857	0.00	0.00	0.00	4.57
661	665	3.577848	ACAAAAACCATCCAAGCTATGCA	59.422	39.130	0.00	0.00	0.00	3.96
662	666	4.192429	ACAAAAACCATCCAAGCTATGC	57.808	40.909	0.00	0.00	0.00	3.14
663	667	7.495135	AAAAACAAAAACCATCCAAGCTATG	57.505	32.000	0.00	0.00	0.00	2.23
664	668	9.791801	AATAAAAACAAAAACCATCCAAGCTAT	57.208	25.926	0.00	0.00	0.00	2.97
665	669	9.267084	GAATAAAAACAAAAACCATCCAAGCTA	57.733	29.630	0.00	0.00	0.00	3.32
674	678	5.908341	AGAGGCGAATAAAAACAAAAACCA	58.092	33.333	0.00	0.00	0.00	3.67
685	689	1.735571	GCGTTGGAAGAGGCGAATAAA	59.264	47.619	0.00	0.00	0.00	1.40
686	690	1.338294	TGCGTTGGAAGAGGCGAATAA	60.338	47.619	0.00	0.00	33.34	1.40
744	748	6.757897	TTAGGTCATCCATGATGTTGTTTC	57.242	37.500	0.00	0.00	40.55	2.78
755	759	0.473755	TGCGGCATTAGGTCATCCAT	59.526	50.000	0.00	0.00	35.89	3.41
787	794	8.473219	TCTTGCTGCATATGGAGTATATTCTAG	58.527	37.037	23.28	13.02	35.78	2.43
808	815	5.689383	TGGACTTCACTTTGTATTCTTGC	57.311	39.130	0.00	0.00	0.00	4.01
837	844	3.890756	TGCATGGTTTGTCTCATTGAACT	59.109	39.130	0.00	0.00	0.00	3.01
844	851	2.221169	GTGAGTGCATGGTTTGTCTCA	58.779	47.619	0.00	0.00	36.68	3.27
895	902	1.570347	GCATTCGCGTTGTGGTGGTA	61.570	55.000	5.77	0.00	0.00	3.25
925	939	2.359850	ATTTTCCGAGCTGGCGCA	60.360	55.556	10.83	0.00	39.10	6.09
983	997	0.257905	TAGCTAGGCCTTCGACCTCA	59.742	55.000	12.58	0.00	38.81	3.86
1092	1108	2.237143	ACCATGGCCATCGATCGATATT	59.763	45.455	28.94	7.12	32.93	1.28
1372	1394	1.221021	GGGGACGTTGAGGTGGATC	59.779	63.158	0.00	0.00	0.00	3.36
1571	1596	2.987149	AGTGAAAGCGAGAACGTACATG	59.013	45.455	0.00	0.00	41.98	3.21
1664	1690	1.780503	AGTAGCAAATTGGGATGCCC	58.219	50.000	0.00	0.00	43.57	5.36
1809	3921	2.400269	TAGGCCAACACCAACGGGAC	62.400	60.000	5.01	0.00	38.05	4.46
1899	4011	7.122055	GGTTGAATCAGAGATAGATACGGAGAT	59.878	40.741	0.00	0.00	0.00	2.75
1968	4080	2.822707	ACGGGGTCTACTAGACATGT	57.177	50.000	16.49	0.00	46.79	3.21
1972	4084	6.000219	TGATGTTATACGGGGTCTACTAGAC	59.000	44.000	7.60	7.60	44.32	2.59
1978	4090	3.642848	GGGTTGATGTTATACGGGGTCTA	59.357	47.826	0.00	0.00	0.00	2.59
2062	4174	1.271597	GGTCTGTTTGCAGGGTCTGAT	60.272	52.381	0.00	0.00	42.78	2.90
2069	4195	2.684001	TATACGGGTCTGTTTGCAGG	57.316	50.000	0.00	0.00	42.78	4.85
2070	4196	4.142687	CCTTTTATACGGGTCTGTTTGCAG	60.143	45.833	0.00	0.00	43.87	4.41
2071	4197	3.754323	CCTTTTATACGGGTCTGTTTGCA	59.246	43.478	0.00	0.00	0.00	4.08
2072	4198	4.004982	TCCTTTTATACGGGTCTGTTTGC	58.995	43.478	0.00	0.00	0.00	3.68
2073	4199	8.446599	AATATCCTTTTATACGGGTCTGTTTG	57.553	34.615	0.00	0.00	0.00	2.93
2074	4200	9.774413	CTAATATCCTTTTATACGGGTCTGTTT	57.226	33.333	0.00	0.00	0.00	2.83
2075	4201	7.876582	GCTAATATCCTTTTATACGGGTCTGTT	59.123	37.037	0.00	0.00	0.00	3.16
2076	4202	7.015877	TGCTAATATCCTTTTATACGGGTCTGT	59.984	37.037	0.00	0.00	0.00	3.41
2077	4203	7.383687	TGCTAATATCCTTTTATACGGGTCTG	58.616	38.462	0.00	0.00	0.00	3.51
2078	4204	7.453752	TCTGCTAATATCCTTTTATACGGGTCT	59.546	37.037	0.00	0.00	0.00	3.85
2079	4205	7.609056	TCTGCTAATATCCTTTTATACGGGTC	58.391	38.462	0.00	0.00	0.00	4.46
2080	4206	7.549147	TCTGCTAATATCCTTTTATACGGGT	57.451	36.000	0.00	0.00	0.00	5.28
2081	4207	8.311836	TCTTCTGCTAATATCCTTTTATACGGG	58.688	37.037	0.00	0.00	0.00	5.28
2165	4291	4.574892	TCAGATCAAACCGCATCTGTTTA	58.425	39.130	8.75	0.00	44.43	2.01
2174	4301	3.914364	GTGTCAAATTCAGATCAAACCGC	59.086	43.478	0.00	0.00	0.00	5.68
2303	4433	8.465999	TCATGTGTGATTTGTATTTGGGATAAC	58.534	33.333	0.00	0.00	0.00	1.89
2306	4436	7.479352	TTCATGTGTGATTTGTATTTGGGAT	57.521	32.000	0.00	0.00	33.56	3.85
2355	4485	1.686587	GGGCTGGCAGTAACAAAACTT	59.313	47.619	17.16	0.00	0.00	2.66
2386	4517	5.011943	GCTTCAGGAGGATCTCATTGAGTAT	59.988	44.000	13.23	6.04	31.13	2.12
2388	4519	3.134442	GCTTCAGGAGGATCTCATTGAGT	59.866	47.826	13.23	1.42	31.13	3.41
2412	4543	9.905171	AAATTAAAAATGCAAACACACACTTTT	57.095	22.222	0.00	0.00	0.00	2.27
2433	4564	9.284968	CTTTTCTTCAGACCTACAAGGAAATTA	57.715	33.333	0.00	0.00	37.67	1.40

Based at the University of Bristol with support from BBSRC.

AutoCloner maintained by Alex Coulton.