genome.fa.s8029.2.7.7.80.10.50.1000.6.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: VEPZ01008029.1 Hibiscus syriacus cultivar Beakdansim tig00110505_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3983240

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   

This is table  6  of  18  ( 2124 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)
1046721--1046747	13	2.1	13	100	0	54	48	22	14	14	1.81
1059671--1059729	30	1.9	31	86	13	86	40	8	20	30	1.82
1059723--1059801	32	2.4	33	89	6	124	12	10	36	40	1.77
1060366--1060411	18	2.6	18	96	0	83	30	28	2	39	1.69
1060417--1060578	80	2.0	80	92	0	270	37	18	17	26	1.93
1063338--1063605	69	4.0	68	84	6	377	28	12	12	46	1.77
1063338--1063605	130	2.0	134	86	6	375	28	12	12	46	1.77
1064005--1064106	29	3.6	28	75	20	97	75	2	5	15	1.12
1064060--1064116	6	10.0	6	75	17	59	78	0	3	17	0.88
1064006--1064119	27	4.1	27	75	16	99	75	2	4	17	1.08
1064026--1064109	39	2.2	39	87	8	118	77	2	4	15	1.04
1064037--1064119	16	5.1	16	76	17	73	77	1	3	18	0.99
1064123--1064183	15	4.0	15	79	14	54	70	3	8	18	1.26
1064232--1064295	25	2.5	26	77	10	69	68	7	7	15	1.36
1065978--1066727	84	9.0	84	84	1	880	24	18	24	33	1.97
1065978--1066727	168	4.5	167	86	1	975	24	18	24	33	1.97
1067866--1068125	95	2.7	94	84	9	303	33	15	16	34	1.90
1071951--1072029	5	14.8	5	73	21	63	79	2	2	15	0.94
1071959--1072021	6	11.2	6	80	13	64	82	0	3	14	0.79
1071963--1072036	22	3.3	23	76	12	75	81	1	2	14	0.88
1071965--1072100	29	4.6	29	70	15	84	74	2	5	17	1.13
1071963--1072036	17	4.5	16	80	15	80	81	1	2	14	0.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1071963--1072029	27	2.5	28	85	9	86	82	1	2	13	0.86
1075038--1075064	14	1.9	14	100	0	54	59	0	0	40	0.98
1077622--1077651	2	15.0	2	100	0	60	50	0	0	50	1.00
1085653--1085692	14	2.9	14	88	0	53	72	0	12	15	1.12
1086729--1086800	35	2.1	35	91	0	117	29	19	9	41	1.83
1087279--1088122	106	8.0	105	82	5	942	24	18	22	34	1.96
1087426--1088027	305	2.0	306	87	1	884	24	18	21	35	1.95
1089069--1089110	16	2.6	16	81	11	50	4	9	4	80	0.99
1096976--1097002	2	13.5	2	100	0	54	51	0	0	48	1.00
1097055--1097090	18	2.1	18	89	5	56	66	2	5	25	1.27
1097469--1097540	35	2.1	35	94	0	126	26	19	11	43	1.84
1099870--1099920	19	2.7	20	79	11	63	45	7	0	47	1.32
1101153--1101208	22	2.5	22	91	0	85	28	21	25	25	1.99
1102028--1102142	59	2.0	56	89	5	176	31	24	15	28	1.96
1103367--1103465	49	2.0	49	96	0	180	35	21	7	36	1.81
1103840--1103896	30	1.9	30	82	7	71	38	21	8	31	1.84
1105592--1105630	16	2.5	15	84	12	51	35	25	0	38	1.56
1109002--1109074	36	2.0	36	89	5	112	20	35	17	26	1.95
1114274--1114384	22	5.3	22	85	10	160	24	22	29	23	1.99
1114304--1114361	17	3.1	17	76	21	62	25	20	29	24	1.99
1114274--1114383	39	2.7	39	88	7	157	23	22	30	23	1.99
1115360--1115387	2	14.0	2	100	0	56	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)
1116154--1116195	17	2.5	17	100	0	84	52	19	16	11	1.74
1119002--1119029	12	2.3	12	100	0	56	25	17	25	32	1.97
1135569--1135725	81	1.9	81	89	0	242	17	29	21	30	1.97
1135842--1135976	55	2.5	55	92	2	218	24	28	21	25	1.99
1135845--1135976	27	4.8	27	70	15	110	24	28	21	25	1.99
1142681--1143053	41	9.3	41	73	10	184	29	18	16	36	1.92
1142881--1142946	33	2.0	33	87	0	96	28	21	18	31	1.96
1142800--1143022	115	1.9	114	82	6	272	28	18	15	37	1.91
1143025--1143126	42	2.5	40	78	9	125	25	12	19	42	1.87
1145133--1145164	16	2.1	15	94	5	55	62	3	12	21	1.43
1149817--1149855	3	13.0	3	88	0	60	33	0	33	33	1.58
1149959--1149984	13	2.0	13	100	0	52	23	0	0	76	0.78
1150039--1150104	25	2.6	25	70	13	64	19	3	10	66	1.35
1153340--1153378	19	2.0	18	85	14	51	64	2	0	33	1.08
1154019--1154052	12	2.8	12	100	0	68	5	26	26	41	1.78
1154065--1154261	41	4.8	41	96	0	358	14	21	25	38	1.91
1154109--1154271	21	7.9	21	69	19	119	15	21	25	36	1.93
1154351--1154389	6	6.5	6	100	0	78	33	51	15	0	1.44
1154888--1154932	6	7.7	6	97	2	83	0	17	51	31	1.46
1161225--1161294	32	2.2	32	92	0	113	37	0	32	30	1.58
1161361--1161538	90	2.0	87	84	5	232	40	20	13	25	1.89
1163428--1163563	32	4.3	32	88	3	197	25	19	20	34	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1164237--1164285	22	2.2	22	85	7	64	26	22	28	22	1.99
1164309--1164353	22	2.0	23	86	8	65	24	17	15	42	1.88
1165099--1165180	27	3.0	27	87	3	83	6	53	3	36	1.43
1165114--1165180	27	2.4	27	92	2	107	4	53	4	37	1.41
1166779--1166954	60	2.9	60	79	8	180	34	5	26	32	1.80
1168002--1168087	24	3.6	24	83	10	88	45	19	13	20	1.85
1168008--1168104	47	2.1	46	80	5	106	45	18	13	22	1.84
1169061--1169113	19	2.8	19	97	0	97	11	49	20	18	1.78
1169258--1169302	18	2.4	18	82	10	56	62	0	33	4	1.15
1171000--1171041	22	1.9	22	95	0	75	33	23	19	23	1.97
1171652--1171702	19	2.7	19	93	0	84	25	25	19	29	1.99
1175231--1175260	2	15.5	2	93	6	53	50	0	0	50	1.00
1177142--1177180	19	2.0	21	85	10	55	64	5	0	30	1.15
1189598--1189624	2	13.5	2	100	0	54	51	0	0	48	1.00
1193727--1193782	27	2.1	27	100	0	112	33	14	17	33	1.90
1200478--1200573	49	2.0	49	97	0	183	37	9	17	35	1.82
1200850--1201070	122	1.8	122	86	0	325	28	14	19	37	1.91
1201221--1201251	16	1.9	16	100	0	62	61	0	32	6	1.21
1209584--1209893	155	2.0	155	96	0	575	33	15	10	40	1.81
1210430--1210461	12	2.7	12	95	0	55	59	0	37	3	1.13
1215606--1215675	20	3.5	20	80	5	63	35	30	11	22	1.90
1215624--1215695	20	3.6	20	83	3	74	34	29	11	25	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1215642--1215697	20	2.8	20	88	0	76	30	28	10	30	1.91
1215903--1215951	22	2.2	22	88	0	71	16	42	22	18	1.88
1216364--1216429	34	1.9	34	84	0	87	13	15	25	45	1.83
1217928--1218075	42	3.5	42	91	0	215	25	38	16	19	1.92
1217987--1218054	21	3.2	21	64	22	52	26	36	17	19	1.94
1218175--1218239	21	3.1	21	76	8	69	21	12	33	32	1.90
1218256--1218349	42	2.2	43	80	14	115	21	11	34	32	1.89
1218184--1218365	63	2.9	63	75	6	172	20	14	33	31	1.93
1218273--1218365	21	4.4	21	75	5	89	19	13	31	35	1.91
1218275--1218364	42	2.1	42	81	4	101	18	14	32	34	1.91
1218651--1218713	21	3.0	21	88	0	90	26	28	9	34	1.88
1218664--1218760	21	4.6	21	76	5	70	24	35	12	27	1.92
1222890--1222943	24	2.2	24	93	0	90	40	16	18	24	1.90
1223071--1223104	12	2.8	12	90	0	50	14	0	29	55	1.40
1223902--1224058	40	3.9	41	79	12	148	38	11	22	28	1.89
1223902--1223998	20	4.8	20	75	11	65	38	12	22	26	1.90
1223909--1224058	80	1.9	80	82	8	189	37	11	23	28	1.89
1224043--1224263	101	2.2	98	79	11	241	26	13	26	33	1.93
1224130--1224263	20	6.7	20	75	9	103	24	11	27	35	1.91
1227015--1227254	131	1.8	129	84	5	331	27	16	30	26	1.97
1227278--1227613	64	5.2	65	83	5	351	40	13	19	26	1.88
1227283--1227613	128	2.5	131	83	5	411	41	13	19	25	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1227606--1227702	38	2.6	37	79	6	106	38	10	17	34	1.84
1232988--1233054	29	2.3	29	84	5	82	50	22	2	23	1.62
1235054--1235107	23	2.5	23	91	8	87	22	22	35	20	1.96
1235054--1235129	20	3.4	22	84	15	86	22	22	35	19	1.96
1240913--1240971	20	2.9	20	94	2	100	13	23	33	28	1.93
1241416--1241480	31	2.2	31	86	5	89	64	9	15	10	1.49
1241424--1241486	31	2.1	31	96	3	119	60	9	15	14	1.59
1242527--1242564	16	2.4	16	86	8	51	57	5	5	31	1.43
1245431--1245554	18	6.9	18	83	0	158	29	31	20	18	1.96
1245431--1245554	54	2.3	54	87	0	176	29	31	20	18	1.96

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18