AutoCloner

Multiple sequence alignment - TraesCS3B01G494300

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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	TraesCS3B01G494300	chr3B	100.000	3841	0	0	1	3841	739105040	739101200	0.000000e+00	7094
1	TraesCS3B01G494300	chr3B	83.296	892	115	11	1502	2365	739065767	739064882	0.000000e+00	791
2	TraesCS3B01G494300	chr3B	90.855	339	28	2	2626	2964	739070348	739070013	5.850000e-123	451
3	TraesCS3B01G494300	chr3B	93.173	249	15	2	931	1178	739071487	739071240	7.840000e-97	364
4	TraesCS3B01G494300	chr3B	93.220	236	13	2	945	1178	739066319	739066085	1.020000e-90	344
5	TraesCS3B01G494300	chr3B	86.420	243	25	8	1189	1430	739066038	739065803	3.810000e-65	259
6	TraesCS3B01G494300	chr3B	81.579	266	38	4	1821	2076	739033024	739032760	3.890000e-50	209
7	TraesCS3B01G494300	chr3B	88.000	175	21	0	998	1172	739033846	739033672	1.400000e-49	207
8	TraesCS3B01G494300	chr3A	93.568	2099	96	14	936	3022	693114056	693111985	0.000000e+00	3092
9	TraesCS3B01G494300	chr3A	80.415	1011	107	43	1502	2483	693073729	693072781	0.000000e+00	686
10	TraesCS3B01G494300	chr3A	86.417	427	36	4	3434	3841	1644274	1643851	7.570000e-122	448
11	TraesCS3B01G494300	chr3A	86.052	423	32	4	3443	3841	1635790	1635371	2.740000e-116	429
12	TraesCS3B01G494300	chr3A	82.081	519	71	10	1866	2365	693066853	693066338	1.280000e-114	424
13	TraesCS3B01G494300	chr3A	89.645	338	27	2	2627	2964	693072272	693071943	1.280000e-114	424
14	TraesCS3B01G494300	chr3A	88.406	345	24	3	3434	3765	1630058	1629717	5.980000e-108	401
15	TraesCS3B01G494300	chr3A	84.439	437	36	6	3434	3841	1637487	1637054	5.980000e-108	401
16	TraesCS3B01G494300	chr3A	87.032	347	27	4	3434	3765	1633291	1632948	3.620000e-100	375
17	TraesCS3B01G494300	chr3A	87.032	347	27	4	3434	3765	1638897	1638554	3.620000e-100	375
18	TraesCS3B01G494300	chr3A	84.224	393	50	4	183	563	693123803	693124195	4.690000e-99	372
19	TraesCS3B01G494300	chr3A	87.349	332	26	3	3434	3752	1641007	1640679	2.180000e-97	366
20	TraesCS3B01G494300	chr3A	87.349	332	24	4	3434	3750	1639421	1639093	7.840000e-97	364
21	TraesCS3B01G494300	chr3A	87.273	330	26	3	3434	3750	1643427	1643101	2.820000e-96	363
22	TraesCS3B01G494300	chr3A	91.418	268	18	5	916	1178	693074308	693074041	2.820000e-96	363
23	TraesCS3B01G494300	chr3A	86.087	345	32	4	3434	3765	1631086	1630745	1.310000e-94	357
24	TraesCS3B01G494300	chr3A	84.022	363	46	4	1502	1855	693067422	693067063	4.750000e-89	339
25	TraesCS3B01G494300	chr3A	86.454	251	22	7	3029	3269	693111948	693111700	8.180000e-67	265
26	TraesCS3B01G494300	chr3A	84.959	246	25	11	1189	1431	693067693	693067457	4.960000e-59	239
27	TraesCS3B01G494300	chr3A	85.837	233	24	4	1199	1431	693073984	693073761	4.960000e-59	239
28	TraesCS3B01G494300	chr3A	94.406	143	6	2	958	1098	693070438	693070296	6.460000e-53	219
29	TraesCS3B01G494300	chr3A	80.333	300	40	10	2710	3005	693072774	693072490	3.890000e-50	209
30	TraesCS3B01G494300	chr3A	89.873	158	16	0	1	158	693121676	693121833	1.810000e-48	204
31	TraesCS3B01G494300	chr3A	85.000	100	12	3	743	840	693125131	693125229	8.780000e-17	99
32	TraesCS3B01G494300	chr3D	94.972	1233	48	6	887	2112	556127300	556126075	0.000000e+00	1921
33	TraesCS3B01G494300	chr3D	90.369	1111	75	17	2186	3269	556126074	556124969	0.000000e+00	1430
34	TraesCS3B01G494300	chr3D	90.933	750	44	16	153	892	556128070	556127335	0.000000e+00	987
35	TraesCS3B01G494300	chr3D	82.498	1017	140	19	1478	2466	556099737	556098731	0.000000e+00	857
36	TraesCS3B01G494300	chr3D	77.963	1139	154	42	1478	2593	556102045	556100981	1.170000e-174	623
37	TraesCS3B01G494300	chr3D	91.254	343	29	1	2622	2964	556100985	556100644	2.090000e-127	466
38	TraesCS3B01G494300	chr3D	94.628	242	13	0	937	1178	556102577	556102336	3.620000e-100	375
39	TraesCS3B01G494300	chr3D	96.244	213	8	0	966	1178	556100240	556100028	2.200000e-92	350
40	TraesCS3B01G494300	chr3D	87.124	233	24	2	1199	1431	556102279	556102053	3.810000e-65	259
41	TraesCS3B01G494300	chr3D	85.490	255	28	6	2754	3005	556098502	556098254	1.370000e-64	257
42	TraesCS3B01G494300	chr3D	84.362	243	32	3	1189	1431	556099981	556099745	2.310000e-57	233
43	TraesCS3B01G494300	chr3D	93.038	158	11	0	1	158	556128507	556128350	8.300000e-57	231
44	TraesCS3B01G494300	chr3D	84.848	231	31	4	2500	2726	556098732	556098502	2.980000e-56	230
45	TraesCS3B01G494300	chr3D	88.000	175	21	0	998	1172	556034782	556034608	1.400000e-49	207
46	TraesCS3B01G494300	chr3D	85.714	126	4	5	3308	3431	556124862	556124749	1.870000e-23	121
47	TraesCS3B01G494300	chrUn	85.615	431	34	5	3435	3841	472082267	472081841	9.860000e-116	427
48	TraesCS3B01G494300	chrUn	87.536	345	27	3	3434	3765	464358828	464359169	6.020000e-103	385
49	TraesCS3B01G494300	chrUn	87.032	347	27	4	3434	3765	465031375	465031032	3.620000e-100	375

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	TraesCS3B01G494300	chr3B	739101200	739105040	3840	True	7094.000000	7094	100.000000	1	3841	1	chr3B.!!$R1	3840
1	TraesCS3B01G494300	chr3B	739064882	739071487	6605	True	441.800000	791	89.392800	931	2964	5	chr3B.!!$R3	2033
2	TraesCS3B01G494300	chr3B	739032760	739033846	1086	True	208.000000	209	84.789500	998	2076	2	chr3B.!!$R2	1078
3	TraesCS3B01G494300	chr3A	693111700	693114056	2356	True	1678.500000	3092	90.011000	936	3269	2	chr3A.!!$R3	2333
4	TraesCS3B01G494300	chr3A	1629717	1644274	14557	True	387.900000	448	86.743600	3434	3841	10	chr3A.!!$R1	407
5	TraesCS3B01G494300	chr3A	693066338	693074308	7970	True	349.111111	686	85.901778	916	3005	9	chr3A.!!$R2	2089
6	TraesCS3B01G494300	chr3A	693121676	693125229	3553	False	225.000000	372	86.365667	1	840	3	chr3A.!!$F1	839
7	TraesCS3B01G494300	chr3D	556124749	556128507	3758	True	938.000000	1921	91.005200	1	3431	5	chr3D.!!$R3	3430
8	TraesCS3B01G494300	chr3D	556098254	556102577	4323	True	405.555556	857	87.156778	937	3005	9	chr3D.!!$R2	2068

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	Hairpin	End Stability	Orientation
72	73	1.089123	TGCCCCAATAAGAAACCCCT	58.911	50.000	0.00	0.00	4.79	F
1185	9160	1.136329	AGGACTGTGGCTGGGACAAT	61.136	55.000	0.00	38.70	2.71	F
1883	9908	1.876156	GAGGTGCAACTGGAAGAACAG	59.124	52.381	10.28	44.03	3.16	F

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Hairpin	End Stability	Orientation
1481	9485	1.482278	GTTGATCTCATCGTCCGAGC	58.518	55.0	0.00	0.00	5.03	R
2182	12551	0.461693	GAGCACAGCCATGTCCTCTC	60.462	60.0	0.00	40.53	3.20	R
3269	15340	0.179020	GGCAGCCATATGTACCAGCA	60.179	55.0	6.55	0.00	4.41	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
64	65	3.430790	GGCTAAAGCTTTGCCCCAATAAG	60.431	47.826	28.19	15.14	40.71	1.73
69	70	2.567169	AGCTTTGCCCCAATAAGAAACC	59.433	45.455	0.00	0.00	0.00	3.27
72	73	1.089123	TGCCCCAATAAGAAACCCCT	58.911	50.000	0.00	0.00	0.00	4.79
142	143	6.156256	ACCTGTCCTTGTTAGTATAGCATTGA	59.844	38.462	0.00	0.00	29.90	2.57
259	2205	5.395324	CGGTTTAGAGAGCCTTTCTTCCATA	60.395	44.000	0.00	0.00	35.87	2.74
260	2206	6.596621	GGTTTAGAGAGCCTTTCTTCCATAT	58.403	40.000	0.00	0.00	35.87	1.78
345	2301	8.680039	TTCTCGGTTTTTGTCTATTTCCTTTA	57.320	30.769	0.00	0.00	0.00	1.85
370	2326	7.981475	TCTTTTCCCTTTCCTTTCCTTTTTA	57.019	32.000	0.00	0.00	0.00	1.52
371	2327	8.561536	TCTTTTCCCTTTCCTTTCCTTTTTAT	57.438	30.769	0.00	0.00	0.00	1.40
432	2389	9.566432	AATATTTTTGCAGTCCCACAATTTTTA	57.434	25.926	0.00	0.00	0.00	1.52
433	2390	6.917217	TTTTTGCAGTCCCACAATTTTTAG	57.083	33.333	0.00	0.00	0.00	1.85
434	2391	5.860941	TTTGCAGTCCCACAATTTTTAGA	57.139	34.783	0.00	0.00	0.00	2.10
435	2392	5.860941	TTGCAGTCCCACAATTTTTAGAA	57.139	34.783	0.00	0.00	0.00	2.10
436	2393	6.418057	TTGCAGTCCCACAATTTTTAGAAT	57.582	33.333	0.00	0.00	0.00	2.40
437	2394	7.531857	TTGCAGTCCCACAATTTTTAGAATA	57.468	32.000	0.00	0.00	0.00	1.75
438	2395	7.716799	TGCAGTCCCACAATTTTTAGAATAT	57.283	32.000	0.00	0.00	0.00	1.28
439	2396	7.546358	TGCAGTCCCACAATTTTTAGAATATG	58.454	34.615	0.00	0.00	0.00	1.78
440	2397	7.178274	TGCAGTCCCACAATTTTTAGAATATGT	59.822	33.333	0.00	0.00	0.00	2.29
441	2398	8.034804	GCAGTCCCACAATTTTTAGAATATGTT	58.965	33.333	0.00	0.00	0.00	2.71
771	3496	9.675464	AATTCATGCACATATTTTGAAATCCTT	57.325	25.926	1.13	0.00	30.81	3.36
775	3500	9.752961	CATGCACATATTTTGAAATCCTTGATA	57.247	29.630	0.00	0.00	0.00	2.15
824	3550	7.595819	AATTCCTGAACACTTTTACATTCCA	57.404	32.000	0.00	0.00	0.00	3.53
920	3686	2.096614	CCAAACCGACACATGTACGAAC	60.097	50.000	20.82	2.59	0.00	3.95
934	3703	3.148340	CGAACCCGTCCCCTAAAAG	57.852	57.895	0.00	0.00	0.00	2.27
1032	8959	3.692406	GACCGCCTGTCCGACCTT	61.692	66.667	0.00	0.00	38.09	3.50
1185	9160	1.136329	AGGACTGTGGCTGGGACAAT	61.136	55.000	0.00	0.00	38.70	2.71
1539	9546	1.878953	ACGTGTTCAACCTAGGCTTG	58.121	50.000	9.30	12.64	0.00	4.01
1590	9597	1.893808	CACCAACTGCAGCGACCTT	60.894	57.895	15.27	0.00	0.00	3.50
1597	9604	3.423154	GCAGCGACCTTGTTCCGG	61.423	66.667	0.00	0.00	0.00	5.14
1809	9834	6.296259	GGGACTTCATTAACACTTCCCTTCTA	60.296	42.308	0.00	0.00	38.59	2.10
1883	9908	1.876156	GAGGTGCAACTGGAAGAACAG	59.124	52.381	10.28	0.00	44.03	3.16
1924	9967	2.297895	ATAGTGGACAAGGCCGGCA	61.298	57.895	30.85	1.46	0.00	5.69
1995	12346	2.647158	GGTTCTCCGGCCGTTCTCT	61.647	63.158	26.12	0.00	0.00	3.10
2080	12431	8.239314	GCAATGATAGAGTGAACAAAATTCTGA	58.761	33.333	0.00	0.00	0.00	3.27
2182	12551	1.066645	AGCTAAACGTAAACCCCCTCG	60.067	52.381	0.00	0.00	0.00	4.63
2183	12552	1.066929	GCTAAACGTAAACCCCCTCGA	60.067	52.381	0.00	0.00	0.00	4.04
2259	12628	0.465097	CATCCTCCAGCGCCTTGAAT	60.465	55.000	2.29	0.00	0.00	2.57
2293	12662	1.131928	AGGCCCAAAGGTAAGACGGT	61.132	55.000	0.00	0.00	34.57	4.83
2314	12683	4.063967	AGTGGCGATCGCGAACCA	62.064	61.111	31.76	21.61	43.06	3.67
2389	12766	2.362736	TCACTACCTACACTACTGGCG	58.637	52.381	0.00	0.00	0.00	5.69
2409	12786	1.394917	GCGAGCACGATGATGAAAACT	59.605	47.619	8.01	0.00	42.66	2.66
2417	12794	3.686726	ACGATGATGAAAACTGCTTCCTC	59.313	43.478	0.00	0.00	0.00	3.71
2480	13277	0.609151	TAACCCGCCATCGAAACTCA	59.391	50.000	0.00	0.00	38.10	3.41
2513	13311	4.194640	CGATGTCACCTGAAGGAAATGAT	58.805	43.478	2.62	0.00	38.94	2.45
2526	13324	1.742831	GAAATGATGCCGCCAACTACA	59.257	47.619	0.00	0.00	0.00	2.74
2528	13326	1.094785	ATGATGCCGCCAACTACAAC	58.905	50.000	0.00	0.00	0.00	3.32
2550	13348	2.123251	TCTCCGAGATCCCTGGCC	60.123	66.667	0.00	0.00	0.00	5.36
2702	13500	5.350365	TGAAGAAATGTTTATCGAAGACGGG	59.650	40.000	0.00	0.00	42.51	5.28
2808	13610	2.100749	AGCTTTGTTGTGTTGCCCTTAC	59.899	45.455	0.00	0.00	0.00	2.34
2968	13791	6.128607	TGCATTTTGGTCAAAATATTTCAGCG	60.129	34.615	17.83	7.55	46.01	5.18
2969	13792	6.672836	GCATTTTGGTCAAAATATTTCAGCGG	60.673	38.462	17.83	7.00	46.01	5.52
3023	13958	8.474025	ACTTTTGTCTTAAATTGATGTTGGACA	58.526	29.630	0.00	0.00	0.00	4.02
3024	13959	8.641499	TTTTGTCTTAAATTGATGTTGGACAC	57.359	30.769	0.00	0.00	33.19	3.67
3079	14109	7.415653	GGTGCCACAAATATTTTTGAAACCAAA	60.416	33.333	21.46	0.00	44.11	3.28
3107	14343	3.186909	TGTCAGAACTGTTGTTGACTCG	58.813	45.455	23.77	1.74	36.39	4.18
3120	14356	3.504906	TGTTGACTCGTGGTTAGGTCTAG	59.495	47.826	0.00	0.00	0.00	2.43
3121	14357	3.708403	TGACTCGTGGTTAGGTCTAGA	57.292	47.619	0.00	0.00	0.00	2.43
3131	14367	7.039223	TCGTGGTTAGGTCTAGAAAATCTCTTT	60.039	37.037	0.00	0.00	35.41	2.52
3172	15234	7.462571	ACTAGCTCCGTCCAAAAATAAAAAT	57.537	32.000	0.00	0.00	0.00	1.82
3173	15235	8.570068	ACTAGCTCCGTCCAAAAATAAAAATA	57.430	30.769	0.00	0.00	0.00	1.40
3219	15283	6.411652	CGAAAAGCGTCTCATATTTTAGGAC	58.588	40.000	0.00	0.00	34.64	3.85
3243	15314	1.461127	GAAACATCACGCACTGACCTC	59.539	52.381	0.00	0.00	0.00	3.85
3269	15340	0.751643	AGCAAACTTTCCACGGTGCT	60.752	50.000	1.68	0.00	37.50	4.40
3270	15341	0.594796	GCAAACTTTCCACGGTGCTG	60.595	55.000	1.68	0.00	0.00	4.41
3290	15373	0.603707	CTGGTACATATGGCTGCCGG	60.604	60.000	14.98	0.00	38.20	6.13
3322	15461	1.855360	GCTCGACAAGGAGAATAAGCG	59.145	52.381	0.00	0.00	36.08	4.68
3373	15512	2.814805	ACTAGCCCATCAAGTGCATT	57.185	45.000	0.00	0.00	0.00	3.56
3375	15514	3.545703	ACTAGCCCATCAAGTGCATTAC	58.454	45.455	0.00	0.00	0.00	1.89
3376	15515	1.767759	AGCCCATCAAGTGCATTACC	58.232	50.000	0.00	0.00	0.00	2.85
3380	15519	3.055891	GCCCATCAAGTGCATTACCTTTT	60.056	43.478	0.00	0.00	0.00	2.27
3381	15520	4.563374	GCCCATCAAGTGCATTACCTTTTT	60.563	41.667	0.00	0.00	0.00	1.94
3382	15521	5.337169	GCCCATCAAGTGCATTACCTTTTTA	60.337	40.000	0.00	0.00	0.00	1.52
3386	15525	6.325919	TCAAGTGCATTACCTTTTTACAGG	57.674	37.500	0.00	0.00	40.23	4.00
3414	15553	1.228124	TGTGGGGCGGTGAGAAAAG	60.228	57.895	0.00	0.00	0.00	2.27
3415	15554	1.228154	GTGGGGCGGTGAGAAAAGT	60.228	57.895	0.00	0.00	0.00	2.66
3416	15555	1.072505	TGGGGCGGTGAGAAAAGTC	59.927	57.895	0.00	0.00	0.00	3.01
3420	15561	1.886542	GGGCGGTGAGAAAAGTCATTT	59.113	47.619	0.00	0.00	0.00	2.32
3437	15578	7.814264	AGTCATTTTTCTCAGCCAATATAGG	57.186	36.000	0.00	0.00	0.00	2.57
3484	15625	2.259511	GGTCGCGTCCTAACCGTT	59.740	61.111	15.41	0.00	0.00	4.44
3491	15632	1.060122	GCGTCCTAACCGTTCAATTCG	59.940	52.381	0.00	0.00	0.00	3.34
3497	15638	1.804601	AACCGTTCAATTCGGGTCTC	58.195	50.000	8.71	0.00	45.81	3.36
3508	17235	2.356673	GGGTCTCGCGAACCGTTT	60.357	61.111	24.34	0.00	37.25	3.60
3527	17254	6.102663	CCGTTTGATCTCTCTGTATTCACTT	58.897	40.000	0.00	0.00	0.00	3.16
3538	17265	2.007608	GTATTCACTTCGTTCCTGCCC	58.992	52.381	0.00	0.00	0.00	5.36
3539	17266	0.322546	ATTCACTTCGTTCCTGCCCC	60.323	55.000	0.00	0.00	0.00	5.80
3558	17285	1.524482	GCATCGAGCCTTCCTTCCT	59.476	57.895	0.00	0.00	37.23	3.36
3574	17301	4.069232	CTCCAACTCGCTCCGGCA	62.069	66.667	0.00	0.00	38.60	5.69
3646	17375	3.508840	CCTCCGCACCGCCAATTC	61.509	66.667	0.00	0.00	0.00	2.17
3658	20192	2.020559	CAATTCGCTGTCGCTCGC	59.979	61.111	0.00	0.00	35.26	5.03
3696	20885	4.006780	ACAAAAATTGCTTCCATGGTCC	57.993	40.909	12.58	1.84	0.00	4.46
3756	21468	0.777631	CAACCGATTGCAGCAAAACG	59.222	50.000	22.72	22.72	0.00	3.60
3788	22067	3.423154	GCACCCGCCTTGAAGTCG	61.423	66.667	0.00	0.00	0.00	4.18

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
8	9	2.158608	CCAGGGACCAAATCATACCCTC	60.159	54.545	0.00	0.00	46.70	4.30
64	65	0.033090	ACACGACGAAGAGGGGTTTC	59.967	55.000	0.00	0.00	0.00	2.78
69	70	1.937899	ACAAAAACACGACGAAGAGGG	59.062	47.619	0.00	0.00	0.00	4.30
72	73	2.619147	TGGACAAAAACACGACGAAGA	58.381	42.857	0.00	0.00	0.00	2.87
142	143	7.418368	CGACCTATATGGAAATATCAGGATGCT	60.418	40.741	0.00	0.00	39.71	3.79
202	2148	1.227234	CCCATATGTCGTGCGAGCA	60.227	57.895	1.24	0.00	0.00	4.26
235	2181	3.263261	GGAAGAAAGGCTCTCTAAACCG	58.737	50.000	0.00	0.00	31.02	4.44
316	2262	6.639686	GGAAATAGACAAAAACCGAGAAAACC	59.360	38.462	0.00	0.00	0.00	3.27
345	2301	7.451731	AAAAAGGAAAGGAAAGGGAAAAGAT	57.548	32.000	0.00	0.00	0.00	2.40
402	2359	7.473735	TTGTGGGACTGCAAAAATATTCATA	57.526	32.000	0.00	0.00	0.00	2.15
409	2366	7.278875	TCTAAAAATTGTGGGACTGCAAAAAT	58.721	30.769	0.00	0.00	0.00	1.82
437	2394	9.938280	ATTCATGAAATCAAGAAATGTCAACAT	57.062	25.926	13.09	0.00	38.41	2.71
569	2557	4.566004	TCACGGAACTCATAGACCAAAAG	58.434	43.478	0.00	0.00	0.00	2.27
579	2571	7.390440	TGAATACAAAAGAATCACGGAACTCAT	59.610	33.333	0.00	0.00	0.00	2.90
851	3577	1.200020	GCCTATGCGTGCTGTTCTTTT	59.800	47.619	0.00	0.00	0.00	2.27
857	3583	4.838152	CGGGCCTATGCGTGCTGT	62.838	66.667	0.84	0.00	38.85	4.40
920	3686	3.001514	TCTCCTTTTAGGGGACGGG	57.998	57.895	0.00	0.00	40.77	5.28
928	3694	1.804748	GCGTGTTGGGTCTCCTTTTAG	59.195	52.381	0.00	0.00	0.00	1.85
934	3703	2.100631	CGATGCGTGTTGGGTCTCC	61.101	63.158	0.00	0.00	0.00	3.71
981	8908	2.202703	GTCTACGTCGGCGGCAAT	60.203	61.111	16.39	0.40	43.45	3.56
1032	8959	3.729489	AGGAGGAGCTCGTCGGGA	61.729	66.667	25.58	0.00	0.00	5.14
1122	9049	3.028921	GCCTGAGGACTGCCAGAGG	62.029	68.421	0.65	0.00	37.70	3.69
1130	9057	2.280552	TTTACGGCGCCTGAGGACT	61.281	57.895	26.68	4.32	0.00	3.85
1185	9160	2.684104	CGGGAGGAGGAGAGGTCA	59.316	66.667	0.00	0.00	0.00	4.02
1381	9381	4.680237	CGCACGGTGGGAGAGCAA	62.680	66.667	19.28	0.00	31.21	3.91
1476	9480	3.781770	CTCATCGTCCGAGCAGGCC	62.782	68.421	0.00	0.00	40.77	5.19
1481	9485	1.482278	GTTGATCTCATCGTCCGAGC	58.518	55.000	0.00	0.00	0.00	5.03
1539	9546	3.644399	GAGGTTCTCCGACGGCACC	62.644	68.421	17.54	17.54	39.05	5.01
1792	9817	3.370209	GGCGGTAGAAGGGAAGTGTTAAT	60.370	47.826	0.00	0.00	0.00	1.40
1924	9967	2.822399	GATCTCCGCCGGGACAAT	59.178	61.111	1.90	0.00	37.43	2.71
2080	12431	3.605664	GGTTTGCTTGTGGCGGCT	61.606	61.111	11.43	0.00	45.43	5.52
2182	12551	0.461693	GAGCACAGCCATGTCCTCTC	60.462	60.000	0.00	0.00	40.53	3.20
2183	12552	1.196766	TGAGCACAGCCATGTCCTCT	61.197	55.000	1.41	0.00	43.56	3.69
2389	12766	1.394917	AGTTTTCATCATCGTGCTCGC	59.605	47.619	2.69	0.00	36.96	5.03
2417	12794	2.221981	GTCAGCACTGAACTTCCTTTCG	59.778	50.000	1.05	0.00	41.85	3.46
2513	13311	1.666553	CTCGTTGTAGTTGGCGGCA	60.667	57.895	7.97	7.97	0.00	5.69
2526	13324	0.752376	GGGATCTCGGAGACCTCGTT	60.752	60.000	10.41	0.00	0.00	3.85
2528	13326	1.149627	AGGGATCTCGGAGACCTCG	59.850	63.158	10.41	0.00	0.00	4.63
2550	13348	2.091112	CGAACGAGTGCTGGCTCAG	61.091	63.158	0.00	0.00	35.33	3.35
2702	13500	0.586802	GCTCCCACAACTTCGTGTTC	59.413	55.000	0.00	0.00	36.63	3.18
2808	13610	9.186323	CTCACTATTAATAGTCAAATCACCTCG	57.814	37.037	22.60	9.29	41.44	4.63
2993	13923	9.919348	CAACATCAATTTAAGACAAAAGTTTGG	57.081	29.630	8.55	0.00	42.34	3.28
3069	14099	7.556275	AGTTCTGACATAGTCTTTTGGTTTCAA	59.444	33.333	0.00	0.00	33.15	2.69
3079	14109	6.480320	GTCAACAACAGTTCTGACATAGTCTT	59.520	38.462	15.78	0.00	33.15	3.01
3196	15260	7.541122	AGTCCTAAAATATGAGACGCTTTTC	57.459	36.000	0.00	0.00	32.70	2.29
3201	15265	6.328641	TCCTAGTCCTAAAATATGAGACGC	57.671	41.667	0.00	0.00	32.70	5.19
3219	15283	2.668457	GTCAGTGCGTGATGTTTCCTAG	59.332	50.000	0.00	0.00	37.56	3.02
3269	15340	0.179020	GGCAGCCATATGTACCAGCA	60.179	55.000	6.55	0.00	0.00	4.41
3270	15341	1.230635	CGGCAGCCATATGTACCAGC	61.231	60.000	13.30	0.00	0.00	4.85
3322	15461	1.542108	GGATGAGGGTCTAGTGCATGC	60.542	57.143	11.82	11.82	0.00	4.06
3375	15514	7.499232	CCCACACTAATCTATCCTGTAAAAAGG	59.501	40.741	0.00	0.00	38.84	3.11
3376	15515	7.499232	CCCCACACTAATCTATCCTGTAAAAAG	59.501	40.741	0.00	0.00	0.00	2.27
3380	15519	4.347000	GCCCCACACTAATCTATCCTGTAA	59.653	45.833	0.00	0.00	0.00	2.41
3381	15520	3.901844	GCCCCACACTAATCTATCCTGTA	59.098	47.826	0.00	0.00	0.00	2.74
3382	15521	2.706190	GCCCCACACTAATCTATCCTGT	59.294	50.000	0.00	0.00	0.00	4.00
3386	15525	1.692519	ACCGCCCCACACTAATCTATC	59.307	52.381	0.00	0.00	0.00	2.08
3399	15538	0.322546	ATGACTTTTCTCACCGCCCC	60.323	55.000	0.00	0.00	0.00	5.80
3484	15625	0.734942	GTTCGCGAGACCCGAATTGA	60.735	55.000	9.59	0.00	45.10	2.57
3491	15632	2.356673	AAACGGTTCGCGAGACCC	60.357	61.111	24.86	18.45	41.84	4.46
3497	15638	0.640768	GAGAGATCAAACGGTTCGCG	59.359	55.000	0.00	0.00	0.00	5.87
3504	17231	6.021074	CGAAGTGAATACAGAGAGATCAAACG	60.021	42.308	0.00	0.00	0.00	3.60
3508	17235	6.404844	GGAACGAAGTGAATACAGAGAGATCA	60.405	42.308	0.00	0.00	45.00	2.92
3527	17254	4.467084	GATGCGGGGCAGGAACGA	62.467	66.667	0.00	0.00	43.65	3.85
3538	17265	1.884926	GAAGGAAGGCTCGATGCGG	60.885	63.158	0.00	0.00	44.05	5.69
3539	17266	1.884926	GGAAGGAAGGCTCGATGCG	60.885	63.158	0.00	0.00	44.05	4.73
3558	17285	4.373116	GTGCCGGAGCGAGTTGGA	62.373	66.667	5.05	0.00	44.31	3.53
3696	20885	3.895025	CAGATGCTGGAACCGGTG	58.105	61.111	8.52	0.00	0.00	4.94
3741	21453	0.661187	ACTGCGTTTTGCTGCAATCG	60.661	50.000	24.95	24.95	45.63	3.34

Based at the University of Bristol with support from BBSRC.

AutoCloner maintained by Alex Coulton.