genome.fa.s9604.2.7.7.80.10.50.1000.6.html

Tandem Repeats Finder Program written by:

Gary Benson
Program in Bioinformatics
Boston University
Version 4.09

Please cite:
G. Benson,
"Tandem repeats finder: a program to analyze DNA sequences"
Nucleic Acid Research(1999)
Vol. 27, No. 2, pp. 573-580.

Sequence: VEPZ01009604.1 Hibiscus syriacus cultivar Beakdansim tig00116984_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3548142

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   

This is table  6  of  17  ( 1985 repeats found )

Click on indices to view alignment

Table Explanation

Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
991029--991070	13	3.1	13	89	6	57	45	7	4	42	1.52
991023--991072	15	3.4	15	78	13	59	46	6	6	42	1.53
991119--991153	17	2.1	17	94	0	61	42	5	5	45	1.51
992409--992468	4	14.0	4	80	13	50	26	1	0	71	0.95
992409--992468	9	6.4	9	81	14	68	26	1	0	71	0.95
992379--992470	25	3.6	25	81	8	78	32	2	0	65	1.05
1001407--1001466	21	2.8	22	82	5	86	23	31	26	18	1.97
1002983--1003035	18	2.9	19	81	10	58	56	22	18	1	1.51
1005462--1005501	16	2.6	16	84	4	55	62	5	7	25	1.42
1005528--1005597	31	2.3	30	80	5	77	41	2	22	32	1.69
1005704--1005984	127	2.2	129	85	6	376	46	14	16	22	1.83
1008831--1008905	33	2.3	33	92	0	123	24	17	12	46	1.81
1024973--1025077	56	1.9	55	90	2	165	26	11	28	33	1.91
1026135--1026165	13	2.4	13	94	0	53	38	35	0	25	1.56
1030720--1030794	30	2.5	30	82	4	89	40	8	20	32	1.81
1031976--1032019	9	4.9	9	83	8	54	22	2	20	54	1.56
1033072--1033286	31	6.9	31	88	4	308	22	16	23	37	1.93
1033356--1033416	30	2.0	30	87	0	86	39	11	18	31	1.86
1033365--1033432	30	2.3	30	81	0	82	41	10	19	29	1.84
1033559--1033659	6	16.8	6	73	8	62	38	2	21	36	1.69
1033560--1033659	18	5.6	18	78	0	119	38	3	22	37	1.69
1033558--1033659	36	2.8	36	98	0	195	38	3	21	36	1.72
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1036030--1036239	65	3.2	64	79	8	221	26	19	24	30	1.98
1036140--1036178	19	2.1	19	90	0	60	25	15	33	25	1.95
1044716--1044755	19	2.1	19	90	0	62	25	15	32	27	1.95
1044650--1044806	65	2.4	64	81	10	178	25	17	24	31	1.97
1047734--1047924	64	3.0	62	74	11	181	29	24	18	28	1.98
1055306--1055491	64	2.9	65	81	8	186	30	24	17	27	1.97
1057873--1058123	31	8.1	31	88	0	367	25	18	21	34	1.96
1058186--1058266	30	2.7	31	78	5	94	41	11	17	29	1.84
1058392--1058497	18	5.6	17	68	27	63	38	3	21	35	1.72
1058391--1058455	24	2.7	24	80	4	78	36	3	23	36	1.70
1058416--1058497	36	2.3	36	93	0	137	39	3	21	35	1.71
1063006--1063030	6	4.2	6	100	0	50	0	0	16	84	0.63
1065707--1065731	5	5.0	5	100	0	50	20	0	0	80	0.72
1068606--1068744	69	2.0	69	98	0	269	25	23	7	43	1.79
1073201--1073232	11	2.9	11	100	0	64	18	9	6	65	1.42
1077352--1077422	34	2.1	33	86	2	97	30	14	29	25	1.94
1083318--1083353	2	18.0	2	100	0	72	50	0	0	50	1.00
1083401--1083475	2	37.5	2	100	0	150	49	0	0	50	1.00
1086254--1086279	2	13.0	2	100	0	52	50	0	0	50	1.00
1095754--1095784	16	1.9	16	100	0	62	48	12	0	38	1.42
1098866--1098918	23	2.4	23	84	12	67	22	24	24	28	2.00
1114054--1114091	2	19.0	2	100	0	76	50	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1118621--1118674	19	2.8	21	81	13	71	53	0	3	42	1.18
1120106--1120180	26	2.9	26	100	0	150	30	0	18	50	1.47
1120358--1120417	15	4.1	14	79	12	59	31	0	0	68	0.90
1125516--1125556	10	4.1	10	84	12	57	31	29	0	39	1.57
1125566--1125606	14	3.2	14	83	16	54	29	4	0	65	1.13
1125681--1125901	110	2.0	111	93	0	381	35	8	9	46	1.67
1131531--1131637	51	2.1	51	89	6	166	29	19	20	29	1.97
1131547--1131650	49	2.1	51	83	7	133	32	17	19	30	1.95
1134515--1134624	56	2.0	55	89	1	166	26	18	21	33	1.96
1146494--1146549	20	2.8	20	88	0	85	28	21	25	25	1.99
1154397--1154438	13	3.3	13	80	6	50	47	7	4	40	1.52
1162593--1162617	4	6.2	4	100	0	50	52	0	0	48	1.00
1162576--1162614	21	1.9	20	84	5	51	46	0	0	53	1.00
1164334--1164434	42	2.4	42	86	0	130	22	31	18	26	1.97
1164436--1164493	21	2.8	21	75	0	62	27	29	22	20	1.99
1164431--1164504	21	3.5	21	69	7	60	22	28	24	24	2.00
1165008--1165047	10	4.2	10	76	23	50	32	0	12	55	1.38
1165007--1165042	18	2.1	17	94	5	63	27	0	13	58	1.36
1165058--1165136	24	3.3	23	67	13	61	44	13	5	36	1.67
1165266--1165304	20	2.0	20	94	0	69	48	5	7	38	1.54
1168952--1168985	14	2.5	14	85	4	52	47	29	0	23	1.52
1172612--1172650	19	2.1	19	90	0	60	35	25	15	23	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1172672--1172728	20	2.8	21	74	15	57	21	21	19	38	1.93
1172754--1172800	20	2.3	20	92	0	76	29	25	19	25	1.98
1172762--1172801	20	2.0	20	100	0	80	25	30	20	25	1.99
1173619--1173672	24	2.2	24	93	0	90	20	18	20	40	1.91
1173861--1173897	14	2.6	14	91	4	56	51	21	21	5	1.68
1175932--1175966	18	1.9	18	88	0	52	51	25	2	20	1.61
1176134--1176284	20	7.8	20	80	8	170	32	22	19	25	1.97
1176335--1176400	20	3.3	20	87	4	80	13	15	24	46	1.81
1176452--1176629	71	2.6	69	83	12	199	51	16	2	29	1.56
1177921--1178014	42	2.3	41	83	7	118	20	17	40	22	1.91
1177924--1177993	21	3.3	21	77	0	77	20	20	37	22	1.95
1178517--1178560	20	2.2	20	95	0	79	50	22	13	13	1.77
1178547--1178613	20	3.4	19	89	8	98	38	25	17	17	1.92
1178620--1178671	20	2.7	20	84	3	70	48	23	15	13	1.80
1179510--1179563	24	2.2	24	93	0	90	20	18	20	40	1.91
1179753--1179789	14	2.6	14	91	4	56	51	21	21	5	1.68
1182028--1182178	20	7.8	20	83	8	188	31	23	19	25	1.98
1182036--1182217	40	4.9	37	79	9	142	33	22	20	23	1.97
1182035--1182222	54	3.4	54	78	10	200	32	22	20	24	1.97
1182233--1182294	20	3.1	21	88	4	76	16	14	22	46	1.83
1182346--1182524	71	2.6	69	83	12	201	51	16	2	29	1.56
1183844--1183938	21	4.6	21	74	7	68	25	14	37	22	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1184411--1184454	20	2.2	20	95	0	79	50	22	13	13	1.77
1184441--1184507	20	3.3	20	87	8	100	37	25	19	17	1.94
1184514--1184565	20	2.7	20	84	3	70	48	23	15	13	1.80
1184421--1184583	40	4.3	39	67	13	106	40	24	17	17	1.91
1185406--1185459	24	2.2	24	93	0	90	20	18	20	40	1.91
1185634--1185660	3	9.0	3	100	0	54	66	0	33	0	0.92
1185652--1185688	14	2.6	14	91	4	56	51	21	21	5	1.68
1187725--1187759	18	1.9	18	88	0	52	51	25	2	20	1.61
1187927--1188063	20	6.8	20	89	0	202	29	21	20	27	1.98
1188114--1188165	20	2.6	20	90	0	77	15	15	21	48	1.81
1188114--1188179	20	3.3	20	79	12	73	15	15	24	45	1.84
1188231--1188409	71	2.6	69	83	12	201	51	16	2	29	1.56
1189703--1189772	21	3.3	21	77	0	77	20	20	37	22	1.95
1190297--1190340	20	2.2	20	95	0	79	50	22	13	13	1.77
1190327--1190393	20	3.3	20	87	8	100	37	25	19	17	1.94
1190439--1190477	20	2.0	20	89	0	60	15	20	15	48	1.81
1190443--1190518	33	2.3	34	79	2	91	15	19	17	47	1.83
1192452--1192525	20	3.7	20	83	0	85	43	22	16	17	1.88
1192906--1192958	22	2.4	22	87	0	79	18	18	41	20	1.91
1193487--1193515	11	2.7	11	94	5	51	27	0	20	51	1.47
1196470--1196603	60	2.2	60	82	5	164	33	17	16	32	1.92
1196827--1196940	60	1.9	60	83	3	149	36	13	14	35	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1196814--1196951	60	2.3	59	78	12	145	34	13	16	35	1.87
1202975--1203015	18	2.3	18	100	0	82	21	14	29	34	1.93
1203170--1203216	3	15.7	3	100	0	94	65	0	0	34	0.93
1203263--1203292	2	15.5	2	93	6	53	50	0	0	50	1.00
1205301--1205359	28	2.1	28	93	0	100	18	6	22	52	1.68
1206402--1206440	16	2.4	16	82	0	51	41	15	10	33	1.81
1207878--1207945	34	2.0	35	91	2	111	35	2	8	52	1.47
1210814--1210844	2	15.5	2	100	0	62	51	0	0	48	1.00
1214192--1214263	25	3.0	23	77	22	76	44	5	0	50	1.25
1214203--1214263	23	2.6	23	87	7	95	44	4	0	50	1.23

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17