AutoCloner

Multiple sequence alignment - TraesCS6B01G401600

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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	TraesCS6B01G401600	chr6B	100.000	2456	0	0	1	2456	678091174	678093629	0.000000e+00	4536.0
1	TraesCS6B01G401600	chr6B	88.211	1230	77	27	690	1883	678357862	678356665	0.000000e+00	1406.0
2	TraesCS6B01G401600	chr6B	84.304	1236	111	42	690	1873	678175601	678174397	0.000000e+00	1131.0
3	TraesCS6B01G401600	chr6B	84.679	1201	88	44	715	1873	676864992	676866138	0.000000e+00	1110.0
4	TraesCS6B01G401600	chr6B	84.461	1049	84	41	690	1694	677044732	677045745	0.000000e+00	961.0
5	TraesCS6B01G401600	chr6B	88.727	754	57	16	978	1705	677087709	677088460	0.000000e+00	896.0
6	TraesCS6B01G401600	chr6B	84.072	948	72	38	690	1595	678543533	678542623	0.000000e+00	841.0
7	TraesCS6B01G401600	chr6B	88.397	655	49	15	3	644	678176244	678175604	0.000000e+00	763.0
8	TraesCS6B01G401600	chr6B	89.681	533	19	11	1956	2456	677337412	677337940	0.000000e+00	647.0
9	TraesCS6B01G401600	chr6B	89.662	503	35	12	1409	1899	677336679	677337176	2.070000e-175	625.0
10	TraesCS6B01G401600	chr6B	90.024	411	26	6	236	633	676864579	676864987	3.620000e-143	518.0
11	TraesCS6B01G401600	chr6B	89.731	409	22	7	241	633	677087099	677087503	2.820000e-139	505.0
12	TraesCS6B01G401600	chr6B	88.863	422	26	8	228	633	677777288	677777704	1.310000e-137	499.0
13	TraesCS6B01G401600	chr6B	88.998	409	25	7	241	633	677909581	677909985	2.840000e-134	488.0
14	TraesCS6B01G401600	chr6B	83.120	468	38	19	694	1144	676729940	676730383	2.960000e-104	388.0
15	TraesCS6B01G401600	chr6B	94.505	182	8	2	1	181	677079526	677079706	1.860000e-71	279.0
16	TraesCS6B01G401600	chr6B	93.956	182	9	2	1	181	677906570	677906750	8.650000e-70	274.0
17	TraesCS6B01G401600	chr6B	93.407	182	10	2	1	181	676859243	676859423	4.030000e-68	268.0
18	TraesCS6B01G401600	chr6B	93.855	179	9	2	1	178	677774462	677774639	4.030000e-68	268.0
19	TraesCS6B01G401600	chr6B	84.404	218	23	6	1931	2140	678174103	678173889	1.150000e-48	204.0
20	TraesCS6B01G401600	chr6B	89.744	156	14	2	2251	2406	676868937	676869090	5.360000e-47	198.0
21	TraesCS6B01G401600	chr6B	90.226	133	12	1	692	823	677777723	677777855	3.250000e-39	172.0
22	TraesCS6B01G401600	chr6B	90.226	133	12	1	692	823	677910004	677910136	3.250000e-39	172.0
23	TraesCS6B01G401600	chr6B	89.922	129	12	1	692	819	677087522	677087650	5.430000e-37	165.0
24	TraesCS6B01G401600	chr6B	78.000	200	25	9	2217	2414	676045858	676045676	9.290000e-20	108.0
25	TraesCS6B01G401600	chr6B	87.342	79	7	3	1804	1881	676730875	676730951	1.210000e-13	87.9
26	TraesCS6B01G401600	chr6B	88.000	75	6	2	2342	2415	678311614	678311542	4.350000e-13	86.1
27	TraesCS6B01G401600	chr6B	94.340	53	3	0	2351	2403	678173727	678173675	5.630000e-12	82.4
28	TraesCS6B01G401600	chr6B	85.294	68	9	1	2253	2320	676035493	676035427	4.380000e-08	69.4
29	TraesCS6B01G401600	chr6B	90.909	44	3	1	651	694	678091750	678091792	9.490000e-05	58.4
30	TraesCS6B01G401600	chr6A	79.940	1989	202	107	1	1873	594320813	594318906	0.000000e+00	1280.0
31	TraesCS6B01G401600	chr6A	86.766	1005	99	15	690	1689	594253372	594254347	0.000000e+00	1088.0
32	TraesCS6B01G401600	chr6A	85.812	1022	108	27	691	1701	593991522	593992517	0.000000e+00	1050.0
33	TraesCS6B01G401600	chr6A	87.194	859	67	25	817	1653	594366451	594365614	0.000000e+00	937.0
34	TraesCS6B01G401600	chr6A	86.085	539	49	16	129	646	593990983	593991516	7.670000e-155	556.0
35	TraesCS6B01G401600	chr6A	80.791	531	46	31	690	1182	593929056	593929568	4.990000e-97	364.0
36	TraesCS6B01G401600	chr6A	76.770	551	66	32	654	1177	569678226	569678741	4.050000e-63	252.0
37	TraesCS6B01G401600	chr6A	87.952	83	6	2	1804	1882	593930167	593930249	7.230000e-16	95.3
38	TraesCS6B01G401600	chr6A	91.045	67	5	1	2350	2415	594318175	594318109	3.360000e-14	89.8
39	TraesCS6B01G401600	chr6A	94.545	55	3	0	1829	1883	594365051	594364997	4.350000e-13	86.1
40	TraesCS6B01G401600	chr6D	88.539	890	63	22	853	1705	447278126	447279013	0.000000e+00	1042.0
41	TraesCS6B01G401600	chr6D	87.540	618	54	12	35	642	447277243	447277847	0.000000e+00	693.0
42	TraesCS6B01G401600	chr6D	90.717	474	36	7	35	507	447739266	447738800	2.070000e-175	625.0
43	TraesCS6B01G401600	chr6D	81.720	279	39	6	690	964	447277852	447278122	3.180000e-54	222.0
44	TraesCS6B01G401600	chr6D	83.333	144	12	6	1754	1885	447279023	447279166	3.320000e-24	122.0
45	TraesCS6B01G401600	chr6D	84.404	109	7	4	2192	2300	447279723	447279821	5.590000e-17	99.0
46	TraesCS6B01G401600	chr6D	87.879	66	8	0	1824	1889	447214060	447214125	7.280000e-11	78.7
47	TraesCS6B01G401600	chr7A	80.447	358	35	23	311	644	19013401	19013055	8.780000e-60	241.0
48	TraesCS6B01G401600	chr7A	79.144	374	50	16	817	1177	19012955	19012597	1.470000e-57	233.0
49	TraesCS6B01G401600	chr7A	75.510	147	21	12	654	800	19013119	19012988	9.490000e-05	58.4

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	TraesCS6B01G401600	chr6B	678091174	678093629	2455	False	2297.200000	4536	95.454500	1	2456	2	chr6B.!!$F10	2455
1	TraesCS6B01G401600	chr6B	678356665	678357862	1197	True	1406.000000	1406	88.211000	690	1883	1	chr6B.!!$R4	1193
2	TraesCS6B01G401600	chr6B	677044732	677045745	1013	False	961.000000	961	84.461000	690	1694	1	chr6B.!!$F2	1004
3	TraesCS6B01G401600	chr6B	678542623	678543533	910	True	841.000000	841	84.072000	690	1595	1	chr6B.!!$R5	905
4	TraesCS6B01G401600	chr6B	677336679	677337940	1261	False	636.000000	647	89.671500	1409	2456	2	chr6B.!!$F7	1047
5	TraesCS6B01G401600	chr6B	676864579	676869090	4511	False	608.666667	1110	88.149000	236	2406	3	chr6B.!!$F5	2170
6	TraesCS6B01G401600	chr6B	678173675	678176244	2569	True	545.100000	1131	87.861250	3	2403	4	chr6B.!!$R6	2400
7	TraesCS6B01G401600	chr6B	677087099	677088460	1361	False	522.000000	896	89.460000	241	1705	3	chr6B.!!$F6	1464
8	TraesCS6B01G401600	chr6B	677774462	677777855	3393	False	313.000000	499	90.981333	1	823	3	chr6B.!!$F8	822
9	TraesCS6B01G401600	chr6B	677906570	677910136	3566	False	311.333333	488	91.060000	1	823	3	chr6B.!!$F9	822
10	TraesCS6B01G401600	chr6B	676729940	676730951	1011	False	237.950000	388	85.231000	694	1881	2	chr6B.!!$F4	1187
11	TraesCS6B01G401600	chr6A	594253372	594254347	975	False	1088.000000	1088	86.766000	690	1689	1	chr6A.!!$F2	999
12	TraesCS6B01G401600	chr6A	593990983	593992517	1534	False	803.000000	1050	85.948500	129	1701	2	chr6A.!!$F4	1572
13	TraesCS6B01G401600	chr6A	594318109	594320813	2704	True	684.900000	1280	85.492500	1	2415	2	chr6A.!!$R1	2414
14	TraesCS6B01G401600	chr6A	594364997	594366451	1454	True	511.550000	937	90.869500	817	1883	2	chr6A.!!$R2	1066
15	TraesCS6B01G401600	chr6A	569678226	569678741	515	False	252.000000	252	76.770000	654	1177	1	chr6A.!!$F1	523
16	TraesCS6B01G401600	chr6A	593929056	593930249	1193	False	229.650000	364	84.371500	690	1882	2	chr6A.!!$F3	1192
17	TraesCS6B01G401600	chr6D	447277243	447279821	2578	False	435.600000	1042	85.107200	35	2300	5	chr6D.!!$F2	2265

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
346	3144	0.320374	TCGGAGAATTTCTGCCGTGT	59.68	50.0	23.99	0.0	37.94	4.49	F

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability	Orientation
1964	8690	0.178995	TGTGCCAGCTTGACCATCAA	60.179	50.0	0.0	0.0	34.79	2.57	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
46	58	3.433173	GCCGTCCCTCAAAATAGTACCAT	60.433	47.826	0.00	0.00	0.00	3.55
198	2409	5.423610	TCTTCAGAATCGAGGGATTTCTCTT	59.576	40.000	0.00	0.00	42.86	2.85
252	3050	8.426569	ACCACTACCTATTAGTACTTCACAAA	57.573	34.615	0.00	0.00	39.18	2.83
271	3069	6.036470	CACAAACAGGGAAAGAAGAAGAAAC	58.964	40.000	0.00	0.00	0.00	2.78
301	3099	2.390599	ATCAGTTGCGCGCGTCATT	61.391	52.632	32.35	16.73	0.00	2.57
302	3100	1.911293	ATCAGTTGCGCGCGTCATTT	61.911	50.000	32.35	16.40	0.00	2.32
346	3144	0.320374	TCGGAGAATTTCTGCCGTGT	59.680	50.000	23.99	0.00	37.94	4.49
479	3282	1.690633	AGGGGCGAGACACATCCAT	60.691	57.895	0.00	0.00	0.00	3.41
501	3328	6.148480	CCATACTCCAGAAACAGAAACAGAAG	59.852	42.308	0.00	0.00	0.00	2.85
502	3329	3.879892	ACTCCAGAAACAGAAACAGAAGC	59.120	43.478	0.00	0.00	0.00	3.86
503	3330	3.879295	CTCCAGAAACAGAAACAGAAGCA	59.121	43.478	0.00	0.00	0.00	3.91
504	3331	3.879295	TCCAGAAACAGAAACAGAAGCAG	59.121	43.478	0.00	0.00	0.00	4.24
505	3332	3.879295	CCAGAAACAGAAACAGAAGCAGA	59.121	43.478	0.00	0.00	0.00	4.26
506	3333	4.336433	CCAGAAACAGAAACAGAAGCAGAA	59.664	41.667	0.00	0.00	0.00	3.02
507	3334	5.163622	CCAGAAACAGAAACAGAAGCAGAAA	60.164	40.000	0.00	0.00	0.00	2.52
508	3335	5.970023	CAGAAACAGAAACAGAAGCAGAAAG	59.030	40.000	0.00	0.00	0.00	2.62
509	3336	5.649831	AGAAACAGAAACAGAAGCAGAAAGT	59.350	36.000	0.00	0.00	0.00	2.66
510	3337	5.904362	AACAGAAACAGAAGCAGAAAGTT	57.096	34.783	0.00	0.00	0.00	2.66
529	3356	2.522836	TGTTGTTGCGGCAAATCATT	57.477	40.000	18.23	0.00	0.00	2.57
575	3411	4.272018	GTCAACAGATCAGATGCATGTACC	59.728	45.833	2.46	0.00	0.00	3.34
601	3439	4.516698	GTGTCTCCAATTTGTCACTCATGT	59.483	41.667	0.00	0.00	0.00	3.21
602	3440	5.700832	GTGTCTCCAATTTGTCACTCATGTA	59.299	40.000	0.00	0.00	0.00	2.29
603	3441	6.372659	GTGTCTCCAATTTGTCACTCATGTAT	59.627	38.462	0.00	0.00	0.00	2.29
604	3442	6.942005	TGTCTCCAATTTGTCACTCATGTATT	59.058	34.615	0.00	0.00	0.00	1.89
605	3443	7.094677	TGTCTCCAATTTGTCACTCATGTATTG	60.095	37.037	0.00	0.00	0.00	1.90
606	3444	7.119699	GTCTCCAATTTGTCACTCATGTATTGA	59.880	37.037	0.00	0.00	0.00	2.57
607	3445	7.830697	TCTCCAATTTGTCACTCATGTATTGAT	59.169	33.333	0.00	0.00	32.72	2.57
608	3446	9.112725	CTCCAATTTGTCACTCATGTATTGATA	57.887	33.333	0.00	0.00	32.72	2.15
609	3447	9.631257	TCCAATTTGTCACTCATGTATTGATAT	57.369	29.630	0.00	0.00	32.72	1.63
625	3463	9.913310	TGTATTGATATACATCCAGAACCAAAA	57.087	29.630	0.00	0.00	41.23	2.44
628	3466	9.645128	ATTGATATACATCCAGAACCAAAATCA	57.355	29.630	0.00	0.00	0.00	2.57
629	3467	9.473007	TTGATATACATCCAGAACCAAAATCAA	57.527	29.630	0.00	0.00	0.00	2.57
630	3468	9.123902	TGATATACATCCAGAACCAAAATCAAG	57.876	33.333	0.00	0.00	0.00	3.02
631	3469	6.780457	ATACATCCAGAACCAAAATCAAGG	57.220	37.500	0.00	0.00	0.00	3.61
632	3470	3.834231	ACATCCAGAACCAAAATCAAGGG	59.166	43.478	0.00	0.00	0.00	3.95
633	3471	2.247358	TCCAGAACCAAAATCAAGGGC	58.753	47.619	0.00	0.00	0.00	5.19
634	3472	2.158325	TCCAGAACCAAAATCAAGGGCT	60.158	45.455	0.00	0.00	0.00	5.19
635	3473	3.075283	TCCAGAACCAAAATCAAGGGCTA	59.925	43.478	0.00	0.00	0.00	3.93
636	3474	4.026052	CCAGAACCAAAATCAAGGGCTAT	58.974	43.478	0.00	0.00	0.00	2.97
637	3475	5.044476	TCCAGAACCAAAATCAAGGGCTATA	60.044	40.000	0.00	0.00	0.00	1.31
638	3476	5.067805	CCAGAACCAAAATCAAGGGCTATAC	59.932	44.000	0.00	0.00	0.00	1.47
639	3477	5.652014	CAGAACCAAAATCAAGGGCTATACA	59.348	40.000	0.00	0.00	0.00	2.29
640	3478	5.652452	AGAACCAAAATCAAGGGCTATACAC	59.348	40.000	0.00	0.00	0.00	2.90
641	3479	4.929479	ACCAAAATCAAGGGCTATACACA	58.071	39.130	0.00	0.00	0.00	3.72
642	3480	4.949856	ACCAAAATCAAGGGCTATACACAG	59.050	41.667	0.00	0.00	0.00	3.66
643	3481	4.202050	CCAAAATCAAGGGCTATACACAGC	60.202	45.833	0.00	0.00	41.02	4.40
644	3482	4.510167	AAATCAAGGGCTATACACAGCT	57.490	40.909	0.00	0.00	41.50	4.24
645	3483	5.630415	AAATCAAGGGCTATACACAGCTA	57.370	39.130	0.00	0.00	41.50	3.32
646	3484	5.832539	AATCAAGGGCTATACACAGCTAT	57.167	39.130	0.00	0.00	41.50	2.97
647	3485	4.873746	TCAAGGGCTATACACAGCTATC	57.126	45.455	0.00	0.00	41.50	2.08
648	3486	3.578716	TCAAGGGCTATACACAGCTATCC	59.421	47.826	0.00	0.00	41.50	2.59
649	3487	3.260269	AGGGCTATACACAGCTATCCA	57.740	47.619	0.00	0.00	41.50	3.41
682	3523	9.112725	CTCCAATTTGTCACTCATGTATTGATA	57.887	33.333	0.00	0.00	32.72	2.15
741	3629	1.077357	GGAGCAGAGAGGACGAGGA	60.077	63.158	0.00	0.00	0.00	3.71
742	3630	0.681564	GGAGCAGAGAGGACGAGGAA	60.682	60.000	0.00	0.00	0.00	3.36
743	3631	0.454196	GAGCAGAGAGGACGAGGAAC	59.546	60.000	0.00	0.00	0.00	3.62
783	3672	1.683629	GGAGCGGAGAGGAAGAAGAGA	60.684	57.143	0.00	0.00	0.00	3.10
786	3675	1.822371	GCGGAGAGGAAGAAGAGACTT	59.178	52.381	0.00	0.00	0.00	3.01
1058	4192	3.059982	CTCCACCACTCGCTTCCA	58.940	61.111	0.00	0.00	0.00	3.53
1299	4457	0.610232	GTTCCTTGTGGAGGCTGCAT	60.610	55.000	13.12	0.00	45.87	3.96
1350	4508	1.153369	CATGCAGGACCGACGGATT	60.153	57.895	23.38	0.00	0.00	3.01
1538	4784	2.026822	TGAGAGATTGGAAAGGTGGAGC	60.027	50.000	0.00	0.00	0.00	4.70
1540	4786	0.035056	AGATTGGAAAGGTGGAGCGG	60.035	55.000	0.00	0.00	0.00	5.52
1541	4787	1.657751	GATTGGAAAGGTGGAGCGGC	61.658	60.000	0.00	0.00	0.00	6.53
1568	4844	0.107361	GGCGGTGGCTTAGGTATGTT	60.107	55.000	0.00	0.00	39.81	2.71
1569	4845	1.680860	GGCGGTGGCTTAGGTATGTTT	60.681	52.381	0.00	0.00	39.81	2.83
1581	4864	2.301870	AGGTATGTTTGTTGAGCTCCGA	59.698	45.455	12.15	0.00	0.00	4.55
1585	4868	1.202758	TGTTTGTTGAGCTCCGATGGT	60.203	47.619	12.15	0.00	0.00	3.55
1746	5280	1.350071	TAAACTGGGGGTTACAGCGA	58.650	50.000	0.00	0.00	39.55	4.93
1773	5490	4.357947	GGCGTCTGAGCACACCGA	62.358	66.667	3.21	0.00	39.27	4.69
1904	5664	9.069082	TGCTAGTTCTACTAATAGTCAAGATCC	57.931	37.037	0.00	0.00	29.00	3.36
1964	8690	2.280592	GGAACGTTCAGTGCGGGT	60.281	61.111	28.24	0.00	0.00	5.28
1983	8720	0.178995	TTGATGGTCAAGCTGGCACA	60.179	50.000	0.00	0.00	31.83	4.57
2323	9140	0.179043	GCCTTCCTCCGATTCTTCCC	60.179	60.000	0.00	0.00	0.00	3.97
2327	9144	3.372025	CCTTCCTCCGATTCTTCCCATTT	60.372	47.826	0.00	0.00	0.00	2.32
2329	9146	5.437060	CTTCCTCCGATTCTTCCCATTTTA	58.563	41.667	0.00	0.00	0.00	1.52
2393	9210	2.073816	TCCGTTTCTCATTCGCTTTCC	58.926	47.619	0.00	0.00	0.00	3.13
2406	9223	1.827681	GCTTTCCCTTCCTGTCTTCC	58.172	55.000	0.00	0.00	0.00	3.46
2410	9227	1.645710	TCCCTTCCTGTCTTCCTGTC	58.354	55.000	0.00	0.00	0.00	3.51
2438	9270	1.530293	GATGATGATCGACAAGCTGCC	59.470	52.381	0.00	0.00	0.00	4.85
2448	9280	3.646715	AAGCTGCCGCCCTTGGTA	61.647	61.111	0.00	0.00	36.60	3.25

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
46	58	7.228507	TGCTATTTTACTGTTCTTTCAGAGCAA	59.771	33.333	0.65	0.00	35.04	3.91
110	122	3.074412	GGATTTTTCTTCGTCCTGCTCA	58.926	45.455	0.00	0.00	0.00	4.26
252	3050	5.073428	GGATGTTTCTTCTTCTTTCCCTGT	58.927	41.667	0.00	0.00	0.00	4.00
271	3069	1.667724	GCAACTGATGAACCGAGGATG	59.332	52.381	0.00	0.00	0.00	3.51
301	3099	4.482386	CGACGAGATTTCTGTGGAACTAA	58.518	43.478	0.00	0.00	38.04	2.24
302	3100	3.119602	CCGACGAGATTTCTGTGGAACTA	60.120	47.826	0.00	0.00	38.04	2.24
455	3258	1.070786	GTGTCTCGCCCCTGTTTCA	59.929	57.895	0.00	0.00	0.00	2.69
479	3282	5.057149	GCTTCTGTTTCTGTTTCTGGAGTA	58.943	41.667	0.00	0.00	0.00	2.59
501	3328	1.199624	CCGCAACAACAACTTTCTGC	58.800	50.000	0.00	0.00	0.00	4.26
502	3329	1.199624	GCCGCAACAACAACTTTCTG	58.800	50.000	0.00	0.00	0.00	3.02
503	3330	0.814457	TGCCGCAACAACAACTTTCT	59.186	45.000	0.00	0.00	0.00	2.52
504	3331	1.634702	TTGCCGCAACAACAACTTTC	58.365	45.000	0.38	0.00	0.00	2.62
505	3332	2.086054	TTTGCCGCAACAACAACTTT	57.914	40.000	4.98	0.00	0.00	2.66
506	3333	2.200899	GATTTGCCGCAACAACAACTT	58.799	42.857	4.98	0.00	0.00	2.66
507	3334	1.135915	TGATTTGCCGCAACAACAACT	59.864	42.857	4.98	0.00	0.00	3.16
508	3335	1.565305	TGATTTGCCGCAACAACAAC	58.435	45.000	4.98	0.00	0.00	3.32
509	3336	2.522836	ATGATTTGCCGCAACAACAA	57.477	40.000	4.98	0.00	0.00	2.83
510	3337	2.223900	TGAATGATTTGCCGCAACAACA	60.224	40.909	4.98	6.89	0.00	3.33
529	3356	3.181440	GGGAGGCTTATCCATTCACATGA	60.181	47.826	0.00	0.00	41.52	3.07
575	3411	4.516321	TGAGTGACAAATTGGAGACACATG	59.484	41.667	13.50	0.00	42.67	3.21
602	3440	9.645128	TGATTTTGGTTCTGGATGTATATCAAT	57.355	29.630	1.63	0.00	34.90	2.57
603	3441	9.473007	TTGATTTTGGTTCTGGATGTATATCAA	57.527	29.630	1.63	0.00	34.90	2.57
604	3442	9.123902	CTTGATTTTGGTTCTGGATGTATATCA	57.876	33.333	1.63	0.00	34.90	2.15
605	3443	8.571336	CCTTGATTTTGGTTCTGGATGTATATC	58.429	37.037	0.00	0.00	0.00	1.63
606	3444	7.506938	CCCTTGATTTTGGTTCTGGATGTATAT	59.493	37.037	0.00	0.00	0.00	0.86
607	3445	6.833416	CCCTTGATTTTGGTTCTGGATGTATA	59.167	38.462	0.00	0.00	0.00	1.47
608	3446	5.658190	CCCTTGATTTTGGTTCTGGATGTAT	59.342	40.000	0.00	0.00	0.00	2.29
609	3447	5.016173	CCCTTGATTTTGGTTCTGGATGTA	58.984	41.667	0.00	0.00	0.00	2.29
610	3448	3.834231	CCCTTGATTTTGGTTCTGGATGT	59.166	43.478	0.00	0.00	0.00	3.06
611	3449	3.368739	GCCCTTGATTTTGGTTCTGGATG	60.369	47.826	0.00	0.00	0.00	3.51
612	3450	2.833943	GCCCTTGATTTTGGTTCTGGAT	59.166	45.455	0.00	0.00	0.00	3.41
613	3451	2.158325	AGCCCTTGATTTTGGTTCTGGA	60.158	45.455	0.00	0.00	0.00	3.86
614	3452	2.250924	AGCCCTTGATTTTGGTTCTGG	58.749	47.619	0.00	0.00	0.00	3.86
615	3453	5.652014	TGTATAGCCCTTGATTTTGGTTCTG	59.348	40.000	0.00	0.00	0.00	3.02
616	3454	5.652452	GTGTATAGCCCTTGATTTTGGTTCT	59.348	40.000	0.00	0.00	0.00	3.01
617	3455	5.417580	TGTGTATAGCCCTTGATTTTGGTTC	59.582	40.000	0.00	0.00	0.00	3.62
618	3456	5.329399	TGTGTATAGCCCTTGATTTTGGTT	58.671	37.500	0.00	0.00	0.00	3.67
619	3457	4.929479	TGTGTATAGCCCTTGATTTTGGT	58.071	39.130	0.00	0.00	0.00	3.67
620	3458	4.202050	GCTGTGTATAGCCCTTGATTTTGG	60.202	45.833	0.00	0.00	37.73	3.28
621	3459	4.641989	AGCTGTGTATAGCCCTTGATTTTG	59.358	41.667	0.00	0.00	44.76	2.44
622	3460	4.860022	AGCTGTGTATAGCCCTTGATTTT	58.140	39.130	0.00	0.00	44.76	1.82
623	3461	4.510167	AGCTGTGTATAGCCCTTGATTT	57.490	40.909	0.00	0.00	44.76	2.17
624	3462	5.280215	GGATAGCTGTGTATAGCCCTTGATT	60.280	44.000	0.00	0.00	44.76	2.57
625	3463	4.223923	GGATAGCTGTGTATAGCCCTTGAT	59.776	45.833	0.00	0.00	44.76	2.57
626	3464	3.578716	GGATAGCTGTGTATAGCCCTTGA	59.421	47.826	0.00	0.00	44.76	3.02
627	3465	3.324846	TGGATAGCTGTGTATAGCCCTTG	59.675	47.826	0.00	0.00	44.76	3.61
628	3466	3.587498	TGGATAGCTGTGTATAGCCCTT	58.413	45.455	0.00	0.00	44.76	3.95
629	3467	3.260269	TGGATAGCTGTGTATAGCCCT	57.740	47.619	0.00	0.00	44.76	5.19
630	3468	4.559862	ATTGGATAGCTGTGTATAGCCC	57.440	45.455	0.00	0.00	44.76	5.19
631	3469	5.765182	ACAAATTGGATAGCTGTGTATAGCC	59.235	40.000	0.00	0.00	44.76	3.93
632	3470	6.708054	AGACAAATTGGATAGCTGTGTATAGC	59.292	38.462	0.00	0.00	44.01	2.97
633	3471	7.386299	GGAGACAAATTGGATAGCTGTGTATAG	59.614	40.741	0.00	0.00	0.00	1.31
634	3472	7.147567	TGGAGACAAATTGGATAGCTGTGTATA	60.148	37.037	0.00	0.00	37.44	1.47
635	3473	6.058183	GGAGACAAATTGGATAGCTGTGTAT	58.942	40.000	0.00	0.00	0.00	2.29
636	3474	5.045942	TGGAGACAAATTGGATAGCTGTGTA	60.046	40.000	0.00	0.00	37.44	2.90
637	3475	4.263462	TGGAGACAAATTGGATAGCTGTGT	60.263	41.667	0.00	0.00	37.44	3.72
638	3476	4.264253	TGGAGACAAATTGGATAGCTGTG	58.736	43.478	0.00	0.00	37.44	3.66
639	3477	4.574674	TGGAGACAAATTGGATAGCTGT	57.425	40.909	0.00	0.00	37.44	4.40
682	3523	5.959594	AGCTCTCATCCTCTCTGCATATAAT	59.040	40.000	0.00	0.00	0.00	1.28
684	3525	4.933134	AGCTCTCATCCTCTCTGCATATA	58.067	43.478	0.00	0.00	0.00	0.86
685	3526	3.765511	GAGCTCTCATCCTCTCTGCATAT	59.234	47.826	6.43	0.00	0.00	1.78
686	3527	3.156293	GAGCTCTCATCCTCTCTGCATA	58.844	50.000	6.43	0.00	0.00	3.14
687	3528	1.965643	GAGCTCTCATCCTCTCTGCAT	59.034	52.381	6.43	0.00	0.00	3.96
688	3529	1.341778	TGAGCTCTCATCCTCTCTGCA	60.342	52.381	16.19	0.00	34.14	4.41
919	3873	5.291178	ACGTACATACTGCACAAAGTGTAA	58.709	37.500	0.00	0.00	35.75	2.41
1267	4425	2.669569	GGAACGCAAGCAGCAGGA	60.670	61.111	0.00	0.00	46.13	3.86
1271	4429	1.370900	CACAAGGAACGCAAGCAGC	60.371	57.895	0.00	0.00	45.62	5.25
1299	4457	3.691342	CACCCTGGCTCGTTCCGA	61.691	66.667	0.00	0.00	0.00	4.55
1311	4469	4.626402	TCCCCGACGAACCACCCT	62.626	66.667	0.00	0.00	0.00	4.34
1415	4630	4.742201	GCGTCAAGCTCTCCGCCA	62.742	66.667	11.47	0.00	44.04	5.69
1443	4658	0.693622	TTCCCAACTACCAATCCGCA	59.306	50.000	0.00	0.00	0.00	5.69
1505	4720	2.414058	ATCTCTCATCATGTCGACGC	57.586	50.000	11.62	0.00	0.00	5.19
1547	4793	2.449450	ATACCTAAGCCACCGCCCC	61.449	63.158	0.00	0.00	34.57	5.80
1568	4844	2.151202	GAAACCATCGGAGCTCAACAA	58.849	47.619	17.19	0.00	0.00	2.83
1569	4845	1.808411	GAAACCATCGGAGCTCAACA	58.192	50.000	17.19	0.00	0.00	3.33
1581	4864	1.901464	AAACCGGCAGCGAAACCAT	60.901	52.632	0.00	0.00	0.00	3.55
1585	4868	2.677765	TACCCAAACCGGCAGCGAAA	62.678	55.000	0.00	0.00	0.00	3.46
1746	5280	4.457496	CAGACGCCCACCGCATCT	62.457	66.667	0.00	0.00	41.76	2.90
1947	8673	1.890510	AACCCGCACTGAACGTTCC	60.891	57.895	24.78	8.87	0.00	3.62
1962	8688	0.895100	TGCCAGCTTGACCATCAACC	60.895	55.000	0.00	0.00	32.21	3.77
1964	8690	0.178995	TGTGCCAGCTTGACCATCAA	60.179	50.000	0.00	0.00	34.79	2.57
2106	8858	4.436584	GGCGATTGATGCTGATGCTATAAC	60.437	45.833	0.00	0.00	40.48	1.89
2323	9140	1.338389	ACCACCCGGTCGACTAAAATG	60.338	52.381	16.46	7.81	44.71	2.32
2344	9161	0.472471	AAAGAGACGCCCACCTTTCA	59.528	50.000	0.00	0.00	0.00	2.69
2393	9210	2.353208	CGAAGACAGGAAGACAGGAAGG	60.353	54.545	0.00	0.00	0.00	3.46
2406	9223	5.172951	GTCGATCATCATCTTTCGAAGACAG	59.827	44.000	0.00	0.00	41.69	3.51
2410	9227	5.556006	GCTTGTCGATCATCATCTTTCGAAG	60.556	44.000	0.00	0.00	41.69	3.79

Based at the University of Bristol with support from BBSRC.

AutoCloner maintained by Alex Coulton.