diff test-data/test_out/select_snps/select_snps.wsf @ 0:879cbc69a0ee default tip

Uploaded

--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/test-data/test_out/select_snps/select_snps.wsf	Thu Apr 05 15:28:27 2012 -0400
@@ -0,0 +1,102 @@
+#{"column_names":["scaf","pos","A","B","qual","ref","rpos","rnuc","1A","1B","1G","1Q","2A","2B","2G","2Q","3A","3B","3G","3Q","4A","4B","4G","4Q","5A","5B","5G","5Q","6A","6B","6G","6Q","pair","dist",
+#"prim","rflp"],"dbkey":"canFam2","individuals":[["PB1",9],["PB2",13],["PB3",17],["PB4",21],["PB6",25],["PB8",29]],"pos":2,"rPos":7,"ref":6,"scaffold":1,"species":"bear"}
+Contig161_chr1_4641264_4641879	115	C	T	73.5	chr1	4641382	C	6	0	2	45	8	0	2	51	15	0	2	72	5	0	2	42	6	0	2	45	10	0	2	57	Y	54	0.323	0
+Contig86_chr1_30984450_30985684	670	C	T	365.0	chr1	30985133	C	9	0	2	54	10	0	2	57	13	0	2	66	3	0	2	36	9	0	2	54	7	0	2	48	Y	145	0.031	0
+Contig21_chr1_60697952_60699446	307	G	A	51.9	chr1	60698265	G	12	0	2	63	9	0	2	54	4	0	2	39	6	0	2	45	9	0	2	54	4	0	2	39	Y	98	0.507	0
+Contig64_chr1_87343284_87345672	163	T	A	3.76	chr1	87343443	C	0	2	2	1	0	0	-1	0	5	0	2	42	2	0	2	33	0	1	2	14	0	0	-1	0	N	3	0.039	2
+Contig20_chr1_110679280_110679687	181	C	T	87.4	chr1	110679454	-	1	0	2	30	7	0	2	48	4	0	2	39	2	0	2	33	2	0	2	33	0	0	-1	0	N	31	0.660	2
+Contig222_chr2_9817738_9818143	220	C	T	888.0	chr2	9817960	C	17	0	2	78	12	0	2	63	20	0	2	87	8	0	2	51	11	0	2	60	12	0	2	63	Y	76	0.093	1
+Contig47_chr2_25470778_25471576	126	G	A	888.0	chr2	25470896	G	12	0	2	63	14	0	2	69	14	0	2	69	10	0	2	57	18	0	2	81	13	0	2	66	N	11	0.289	1
+Contig6_chr2_56859179_56859956	671	T	C	999.9	chr2	56859851	T	15	0	2	72	18	0	2	81	20	0	2	90	19	0	2	84	19	0	2	84	24	0	2	99	N	28	5.308	1
+Contig163_chr2_76402959_76404830	221	C	T	127.0	chr2	76403181	C	4	0	2	42	10	0	2	57	9	0	2	54	11	0	2	60	7	0	2	48	9	0	2	54	Y	54	0.178	1
+Contig56_chr3_17326225_17327548	387	G	C	91.2	chr3	17326591	G	14	0	2	69	13	0	2	66	15	0	2	72	15	0	2	72	13	0	2	66	12	0	2	63	Y	20	0.225	3
+Contig108_chr3_46210055_46210874	367	A	G	21.0	chr3	46210423	A	19	0	2	84	10	0	2	57	16	0	2	75	14	0	2	69	20	0	2	87	11	0	2	60	N	236	0.028	1
+Contig1_chr3_51588422_51589409	926	A	G	51.0	chr3	51589353	G	2	0	2	33	2	0	2	33	6	0	2	45	4	0	2	39	9	0	2	54	11	0	2	60	N	21	1.147	0
+Contig65_chr3_80727952_80728283	39	T	C	71.2	chr3	80727990	T	7	0	2	48	3	0	2	36	8	0	2	51	6	0	2	45	8	0	2	51	11	0	2	60	N	22	7.078	0
+Contig134_chr4_12145648_12148225	1326	C	T	164.0	chr4	12146961	C	9	0	2	54	8	0	2	51	7	0	2	48	3	0	2	36	5	0	2	42	5	0	2	42	Y	4	0.080	1
+Contig19_chr4_26233601_26233991	146	G	C	51.6	chr4	26233744	G	10	0	2	57	8	0	2	51	9	0	2	54	5	0	2	42	9	0	2	54	4	0	2	39	N	41	0.163	3
+Contig17_chr4_61310346_61311158	267	C	T	49.9	chr4	61310604	T	10	0	2	57	7	0	2	48	9	0	2	54	10	0	2	57	14	0	2	69	7	0	2	48	Y	219	0.098	0
+Contig31_chr5_4734956_4736547	1166	C	T	133.0	chr5	4736132	C	14	0	2	69	8	0	2	51	17	0	2	78	4	0	2	39	9	0	2	54	12	0	2	63	Y	1	0.021	0
+Contig6_chr5_26899813_26900498	97	A	C	88.6	chr5	26899910	A	15	0	2	72	14	0	2	69	27	0	2	108	15	0	2	72	13	0	2	69	12	0	2	63	Y	92	7.370	3
+Contig45_chr5_50892738_50892968	169	C	A	25.8	chr5	50892911	C	10	0	2	57	7	0	2	48	10	0	2	60	6	0	2	45	6	0	2	45	13	0	2	66	N	244	0.497	1
+Contig45_chr5_76133561_76134403	388	A	G	103.0	chr5	76133941	G	3	0	2	36	8	0	2	51	8	0	2	51	5	0	2	42	6	0	2	45	7	0	2	48	Y	57	0.038	0
+Contig111_chr6_5821219_5822519	1060	A	G	68.1	chr6	5822321	T	7	0	2	48	6	0	2	45	11	0	2	60	9	0	2	54	3	0	2	36	12	0	2	63	Y	7	0.231	1
+Contig102_chr6_30271329_30271577	39	T	G	139.0	chr6	30271371	G	3	0	2	36	4	0	2	39	6	0	2	45	1	0	2	30	4	0	2	39	4	0	2	39	N	15	1.159	0
+Contig112_chr6_51024554_51024851	100	A	G	121.0	chr6	51024654	A	10	0	2	57	12	0	2	63	9	0	2	54	13	0	2	66	14	0	2	69	17	0	2	78	N	75	4.287	0
+Contig84_chr7_6648683_6650255	1297	G	A	110.0	chr7	6649988	G	18	0	2	81	9	0	2	54	22	0	2	77	16	0	2	75	20	0	2	87	6	0	2	45	Y	83	0.166	0
+Contig206_chr7_26281823_26282074	103	C	A	101.0	chr7	26281925	T	11	0	2	60	16	0	2	61	19	0	2	84	6	0	2	45	19	0	2	84	16	0	2	75	N	-1	0.947	1
+Contig38_chr7_50681997_50682600	42	T	C	92.4	chr7	50682037	G	6	0	2	45	2	0	2	33	10	0	2	57	12	0	2	63	5	0	2	42	6	0	2	45	Y	94	0.146	0
+Contig91_chr8_12804505_12805470	409	C	A	111.0	chr8	12804906	C	8	0	2	51	10	0	2	57	15	0	2	72	12	0	2	63	14	0	2	69	15	0	2	72	N	145	0.175	0
+Contig8_chr8_27811135_27812620	333	C	T	37.9	chr8	27811458	C	4	0	2	39	11	0	2	60	18	0	2	81	5	0	2	42	6	0	2	45	5	0	2	42	Y	1	0.272	0
+Contig17_chr8_57490059_57490498	69	G	T	97.4	chr8	57490127	A	2	0	2	33	11	0	2	60	15	0	2	72	16	0	2	75	8	0	2	51	10	0	2	57	N	40	0.522	5
+Contig73_chr9_29451535_29452248	616	A	G	24.7	chr9	29452127	G	4	0	2	39	7	0	2	48	1	0	2	30	4	0	2	39	7	0	2	48	6	0	2	45	N	49	0.448	4
+Contig96_chr9_39008495_39009278	215	A	C	98.7	chr9	39008708	C	7	0	2	48	13	0	2	66	28	0	2	111	16	0	2	75	17	0	2	78	17	0	2	78	Y	8	0.427	1
+Contig22_chr10_15505382_15505589	172	T	C	38.5	chr10	15505548	T	2	0	2	33	6	0	2	45	8	0	2	51	8	0	2	51	9	0	2	54	12	0	2	63	N	284	2.861	0
+Contig69_chr10_40547265_40548153	371	G	A	58.1	chr10	40547649	A	9	0	2	54	8	0	2	51	8	0	2	51	9	0	2	54	4	0	2	39	5	0	2	42	Y	20	0.138	4
+Contig9_chr10_51475063_51476054	770	C	T	57.3	chr10	51475839	C	6	0	2	45	16	0	2	75	16	0	2	75	13	0	2	66	9	0	2	54	9	2	2	21	N	80	0.394	0
+Contig72_chr11_7142765_7143772	146	G	A	152.0	chr11	7142911	A	8	0	2	51	8	0	2	51	24	0	2	99	10	0	2	57	17	0	2	78	11	0	2	60	Y	90	1.137	0
+Contig7_chr11_40017076_40017630	352	C	T	46.3	chr11	40017422	C	7	0	2	48	9	0	2	54	6	0	2	45	8	0	2	51	16	0	2	75	9	0	2	54	Y	44	0.336	0
+Contig16_chr11_53408448_53408790	187	A	G	153.0	chr11	53408638	A	7	0	2	48	9	0	2	54	18	0	2	81	10	0	2	57	11	0	2	60	12	0	2	63	Y	116	1.367	0
+Contig21_chr12_18403415_18404381	586	G	T	34.5	chr12	18403983	-	13	0	2	66	16	0	2	75	25	0	2	102	12	0	2	63	12	0	2	63	14	0	2	69	Y	12	0.068	0
+Contig41_chr12_25565452_25566993	475	G	T	6.29	chr12	25565926	G	15	0	2	72	14	0	2	69	10	0	2	57	15	0	2	72	18	0	2	81	19	0	2	84	N	10	2.231	1
+Contig5_chr12_53880670_53882675	1221	A	C	99.4	chr12	53881888	A	16	0	2	75	18	0	2	81	23	0	2	96	10	0	2	57	15	0	2	72	17	0	2	78	Y	31	0.061	0
+Contig107_chr13_26045881_26046290	341	C	G	81.4	chr13	26046230	C	16	0	2	75	20	0	2	90	14	0	2	69	15	0	2	72	9	0	2	54	9	0	2	54	Y	51	4.510	0
+Contig251_chr13_28498333_28501066	864	T	G	296.0	chr13	28499180	T	3	0	2	36	5	0	2	42	4	0	2	39	2	0	2	33	5	0	2	42	6	0	2	45	Y	9	0.068	0
+Contig55_chr13_53467708_53468101	221	T	G	132.0	chr13	53467925	T	25	0	2	102	12	0	2	63	26	0	2	105	7	0	2	48	16	0	2	75	16	0	2	75	N	20	5.717	1
+Contig48_chr14_11839435_11843272	3014	A	G	163.0	chr14	11842446	A	10	0	2	57	8	0	2	51	13	0	2	66	10	0	2	57	5	0	2	42	10	0	2	57	Y	31	0.908	0
+Contig28_chr14_26905747_26909514	975	G	C	3.13	chr14	26906723	G	16	0	2	75	10	0	2	57	12	0	2	63	15	0	2	72	10	0	2	57	7	0	2	48	N	287	0.117	2
+Contig64_chr14_56768376_56768902	473	C	T	29.0	chr14	56768832	C	15	0	2	72	11	0	2	60	14	0	2	69	14	0	2	69	7	0	2	48	9	0	2	54	Y	91	8.281	0
+Contig60_chr15_18493036_18494316	150	G	A	92.6	chr15	18493188	G	9	0	2	54	13	0	2	66	9	0	2	54	6	0	2	45	5	0	2	42	12	0	2	63	Y	45	0.125	0
+Contig112_chr15_26772864_26773267	374	C	T	21.6	chr15	26773244	C	4	0	2	39	4	0	2	39	5	0	2	42	2	0	2	33	4	0	2	39	3	0	2	36	N	18	+99.	0
+Contig119_chr16_6160274_6160477	180	G	A	54.8	chr16	6160457	G	7	0	2	48	6	0	2	45	12	0	2	63	3	0	2	36	11	0	2	60	10	0	2	57	N	42	+99.	0
+Contig60_chr16_28079136_28080263	588	T	G	157.0	chr16	28079739	T	22	0	2	93	20	0	2	87	22	0	2	93	17	0	2	78	12	0	2	63	10	0	2	57	Y	105	5.999	1
+Contig31_chr17_12128267_12129637	205	G	A	90.5	chr17	12128484	G	7	0	2	48	6	0	2	45	6	0	2	45	11	0	2	60	7	0	2	48	4	0	2	39	Y	10	0.246	0
+Contig99_chr17_26021506_26022200	505	C	T	88.8	chr17	26022017	T	15	0	2	72	13	0	2	66	19	0	2	84	9	0	2	54	10	0	2	57	11	0	2	60	Y	1	0.172	1
+Contig27_chr17_61713766_61716585	1056	G	C	40.0	chr17	61714821	G	4	0	2	39	8	0	2	51	10	0	2	57	6	0	2	45	6	0	2	45	3	0	2	36	N	6	2.200	4
+Contig229_chr18_3706523_3708577	1076	A	G	83.9	chr18	3707630	A	11	0	2	60	13	0	2	66	26	0	2	105	11	0	2	60	15	0	2	72	17	0	2	78	Y	63	0.445	0
+Contig82_chr18_27305489_27306229	566	C	T	49.5	chr18	27306051	A	6	0	2	45	6	0	2	45	10	0	2	57	11	0	2	60	6	0	2	45	7	0	2	48	N	1	0.349	0
+Contig64_chr18_55979770_55980315	49	G	A	89.1	chr18	55979824	G	3	0	2	36	9	0	2	54	7	0	2	51	4	0	2	39	3	0	2	36	3	0	2	36	Y	-1	2.124	0
+Contig146_chr19_5221790_5223013	143	A	G	114.0	chr19	5221916	-	1	0	2	30	4	0	2	39	3	0	2	36	5	0	2	42	2	0	2	33	5	0	2	42	Y	12	0.870	0
+Contig129_chr19_25541958_25542221	202	T	C	68.1	chr19	25542154	C	11	0	2	60	19	0	2	84	10	0	2	60	17	0	2	78	9	0	2	54	12	0	2	63	N	-1	2.551	1
+Contig60_chr19_54013816_54014398	281	A	G	138.0	chr19	54014103	C	6	0	2	45	15	0	2	72	7	0	2	48	10	0	2	57	15	0	2	72	10	0	2	57	Y	188	1.271	0
+Contig50_chr20_12138509_12141975	3206	C	A	248.0	chr20	12141763	C	8	0	2	51	15	0	2	72	14	0	2	69	6	0	2	45	10	0	2	57	7	0	2	48	Y	2	0.384	0
+Contig36_chr20_32631363_32632049	176	G	A	24.1	chr20	32631526	G	7	0	2	48	14	0	2	69	19	0	2	84	14	0	2	69	15	0	2	72	16	0	2	75	N	50	1.150	0
+Contig50_chr21_4178523_4178687	121	G	A	362.0	chr21	4178640	G	8	0	2	51	14	0	2	69	5	0	2	42	3	0	2	36	11	0	2	60	4	0	2	39	N	392	0.483	0
+Contig129_chr21_31045749_31046924	381	A	G	129.0	chr21	31046141	A	19	0	2	84	8	0	2	51	23	0	2	96	12	0	2	63	15	0	2	72	18	0	2	81	Y	69	0.028	2
+Contig159_chr22_7896450_7896974	109	G	C	151.0	chr22	7896570	G	16	0	2	75	5	7	1	62	14	0	2	69	16	0	2	75	13	0	2	66	13	0	2	66	Y	16	0.465	0
+Contig23_chr22_34612023_34612568	167	C	G	92.3	chr22	34612181	C	11	0	2	60	18	0	2	81	13	0	2	66	8	0	2	51	12	0	2	63	14	0	2	69	Y	7	0.409	0
+Contig26_chr22_57817664_57819633	1453	A	G	150.0	chr22	57819121	G	9	0	2	54	9	0	2	54	13	0	2	66	15	0	2	72	11	0	2	60	14	0	2	69	N	15	0.471	1
+Contig133_chr23_3525134_3526502	1223	A	G	201.0	chr23	3526387	A	11	0	2	60	13	0	2	66	23	0	2	96	21	0	2	90	13	0	2	66	10	0	2	57	Y	61	1.359	0
+Contig35_chr23_28447813_28449115	70	T	A	21.3	chr23	28447881	T	9	0	2	54	8	0	2	51	10	0	2	57	9	0	2	54	10	0	2	57	12	0	2	63	N	251	0.163	1
+Contig50_chr24_22515247_22516072	761	C	T	243.0	chr24	22515981	T	11	0	2	60	10	0	2	57	8	0	2	51	9	0	2	54	18	0	2	81	8	0	2	51	Y	1	0.190	0
+Contig84_chr24_29196623_29199644	466	C	T	126.0	chr24	29197091	T	7	0	2	48	11	0	2	60	8	0	2	51	7	0	2	48	11	0	2	60	15	0	2	72	Y	42	0.215	0
+Contig144_chr25_4011170_4013134	541	A	G	160.0	chr25	4011690	A	12	0	2	63	17	0	2	78	13	0	2	66	13	0	2	66	13	0	2	66	13	0	2	66	Y	5	0.087	0
+Contig103_chr25_38891221_38892140	407	G	A	131.0	chr25	38891644	G	8	0	2	51	14	0	2	69	18	0	2	81	8	0	2	51	8	0	2	51	11	0	2	60	Y	149	0.167	4
+Contig204_chr26_4311195_4311778	170	C	T	16.9	chr26	4311363	T	20	0	2	87	8	0	2	51	13	0	2	66	18	0	2	81	11	0	2	60	14	0	2	69	N	35	0.085	0
+Contig146_chr26_26622638_26623906	574	G	A	186.0	chr26	26623219	A	11	0	2	60	12	0	2	63	9	0	2	54	11	0	2	60	9	0	2	54	12	0	2	63	Y	1	0.318	0
+Contig135_chr27_6853874_6854079	158	C	T	116.0	chr27	6854032	T	18	0	2	81	19	0	2	84	13	0	2	66	7	0	2	48	8	0	2	51	11	0	2	60	N	4	0.060	1
+Contig64_chr27_34654435_34654621	132	C	A	115.0	chr27	34654567	T	2	0	2	33	2	0	2	33	5	0	2	42	3	0	2	36	3	0	2	36	8	0	2	51	N	12	0.297	1
+Contig131_chr28_6481806_6483783	138	C	T	36.2	chr28	6481953	C	12	0	2	63	12	0	2	63	20	0	2	87	11	0	2	60	10	0	2	57	12	0	2	63	Y	10	0.387	0
+Contig60_chr28_30197166_30197364	92	T	C	164.0	chr28	30197258	T	10	0	2	57	13	0	2	66	15	0	2	72	16	0	2	75	12	0	2	63	11	0	2	60	N	369	1.139	0
+Contig29_chr29_4726399_4727143	559	A	T	163.0	chr29	4726955	A	15	0	2	72	18	0	2	81	18	0	2	81	16	0	2	75	11	0	2	60	14	0	2	72	Y	161	3.114	0
+Contig1_chr30_5992217_5993068	106	C	T	129.0	chr30	5992319	C	10	0	2	57	11	0	2	60	7	0	2	48	11	0	2	60	10	0	2	57	12	0	2	63	Y	76	1.079	0
+Contig165_chr30_25804389_25804926	190	T	C	126.0	chr30	25804592	C	3	0	2	36	8	0	2	51	7	0	2	48	10	0	2	57	7	0	2	48	4	0	2	39	Y	113	0.329	0
+Contig38_chr31_5164423_5166573	2074	C	T	134.0	chr31	5166501	T	13	0	2	66	10	0	2	57	17	0	2	78	11	0	2	60	17	0	2	78	10	0	2	57	Y	58	+99.	0
+Contig17_chr31_26433828_26434459	498	T	C	9.79	chr31	26434322	T	18	0	2	81	10	0	2	57	15	0	2	72	13	0	2	66	16	0	2	75	15	0	2	72	Y	137	4.814	0
+Contig9_chr32_19479532_19479735	12	A	G	20.7	chr32	19479544	A	1	0	2	30	2	0	2	33	1	0	2	30	5	0	2	42	3	0	2	36	3	0	2	36	N	17	+99.	0
+Contig30_chr32_25902721_25905783	208	C	G	162.0	chr32	25902927	G	11	0	2	60	13	0	2	66	11	0	2	60	12	0	2	63	7	0	2	48	11	0	2	60	Y	145	0.322	2
+Contig18_chr33_22207246_22209159	1363	G	T	51.5	chr33	22208619	-	16	0	2	75	8	0	2	51	11	0	2	60	10	0	2	57	15	0	2	72	12	0	2	63	Y	59	2.560	0
+Contig170_chr33_26189421_26189940	292	T	C	98.4	chr33	26189703	T	21	0	2	90	13	0	2	66	15	0	2	72	13	0	2	66	19	0	2	84	13	0	2	66	Y	23	0.307	0
+Contig113_chr34_13341080_13341643	236	C	T	90.7	chr34	13341316	C	4	0	2	39	2	0	2	33	8	0	2	51	4	0	2	39	8	0	2	51	3	0	2	36	Y	47	0.412	3
+Contig152_chr34_31794848_31795540	242	G	A	93.2	chr34	31795093	G	11	0	2	60	24	0	2	99	17	0	2	78	15	0	2	72	18	0	2	81	17	0	2	78	Y	123	2.780	0
+Contig47_chr35_3666773_3667898	348	G	T	124.0	chr35	3667121	G	9	0	2	54	20	0	2	87	18	0	2	81	15	0	2	72	12	0	2	63	14	0	2	69	Y	285	0.235	0
+Contig74_chr35_25394343_25394813	303	A	T	221.0	chr35	25394646	G	23	0	2	96	15	0	2	72	25	0	2	105	7	7	1	49	18	0	2	81	16	0	2	75	Y	58	4.298	0
+Contig5_chr36_4562983_4563634	343	C	T	151.0	chr36	4563324	T	20	0	2	87	20	0	2	87	23	0	2	96	24	0	2	99	9	0	2	54	8	0	2	51	Y	40	1.169	0
+Contig133_chr36_32954045_32955409	136	A	G	116.0	chr36	32954182	A	16	0	2	75	15	0	2	72	20	0	2	87	11	0	2	60	18	0	2	81	13	0	2	66	Y	74	3.772	1
+Contig53_chr37_6665763_6665919	116	C	T	111.0	chr37	6665875	C	9	0	2	54	9	0	2	54	5	0	2	42	9	0	2	54	8	0	2	51	10	0	2	57	N	15	10.875	1
+Contig2_chr37_31197993_31198256	182	C	T	39.6	chr37	31198171	T	6	0	2	45	10	0	2	57	7	0	2	48	9	0	2	54	10	0	2	57	12	0	2	63	N	2	0.595	0
+Contig7_chr38_12217200_12218387	1163	A	T	44.4	chr38	12218353	A	11	0	2	60	13	0	2	66	17	0	2	78	10	0	2	57	11	0	2	60	11	0	2	60	Y	67	+99.	0
+Contig265_chrX_2689247_2689484	114	C	G	103.0	chrX	2689356	C	11	0	2	60	9	0	2	54	13	0	2	66	16	0	2	75	14	0	2	69	10	0	2	57	N	2	9.232	1
+Contig113_chrX_26287829_26288398	385	C	T	59.6	chrX	26288213	C	9	0	2	54	9	0	2	54	17	0	2	78	11	0	2	60	3	8	1	44	4	0	2	39	N	13	0.077	0
+Contig90_chrX_57430715_57431566	548	C	T	116.0	chrX	57431266	T	9	0	2	54	18	0	2	81	13	0	2	66	14	0	2	69	8	0	2	54	7	0	2	48	Y	261	0.154	1
+Contig133_chrX_84833782_84834125	182	G	A	69.7	chrX	84833962	G	5	0	2	42	18	0	2	81	12	0	2	63	19	0	2	84	6	3	1	27	7	0	2	48	N	619	0.278	0