genome.fa.s8912.2.7.7.80.10.50.1000.7.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: VEPZ01008912.1 Hibiscus syriacus cultivar Beakdansim tig00112215_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3753803

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

This is table  7  of  18  ( 2121 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)
1083480--1083576	32	3.0	32	75	0	104	25	21	19	32	1.97
1084147--1084184	16	2.3	17	86	4	51	78	7	2	10	1.04
1086721--1086761	6	6.8	6	79	20	50	48	0	2	48	1.14
1086736--1086761	13	2.0	13	100	0	52	46	0	0	53	1.00
1092895--1092970	34	2.2	33	83	4	89	35	23	15	25	1.94
1093133--1093223	32	2.8	32	71	0	83	26	23	20	29	1.99
1093290--1093441	32	4.8	32	77	10	152	32	21	16	29	1.95
1093281--1093405	63	2.0	63	81	4	146	32	23	15	28	1.95
1093273--1093440	32	5.3	34	75	11	135	32	21	14	30	1.94
1093452--1093497	24	1.9	24	95	0	83	26	15	15	43	1.85
1095276--1095321	2	23.0	2	100	0	92	50	0	0	50	1.00
1102412--1102605	97	2.0	97	98	0	379	36	12	19	30	1.90
1116086--1116128	17	2.6	17	85	7	63	65	0	0	34	0.93
1116080--1116126	17	2.7	18	86	6	53	65	0	0	34	0.93
1116459--1116487	9	3.3	9	95	4	51	55	0	0	44	0.99
1116466--1116869	38	10.9	38	74	11	286	46	2	8	43	1.47
1116622--1116669	2	24.0	2	100	0	96	50	0	0	50	1.00
1116459--1116817	182	2.0	177	83	8	447	47	1	7	42	1.42
1116882--1116923	16	2.7	15	85	3	57	16	4	0	78	0.91
1116882--1116923	8	5.4	8	77	5	50	16	4	0	78	0.91
1124449--1124490	22	1.9	22	95	0	75	28	19	30	21	1.97
1125501--1125700	38	5.3	37	82	11	219	45	4	7	42	1.52
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1125498--1125711	76	2.9	75	85	6	274	45	4	7	42	1.53
1125727--1125782	22	2.4	24	85	8	80	14	3	1	80	0.93
1125730--1125781	8	6.6	8	78	12	63	11	3	1	82	0.88
1137525--1137587	31	2.0	31	100	0	126	31	6	20	41	1.77
1141399--1141447	5	10.6	5	81	16	52	4	14	0	81	0.83
1141400--1141447	13	3.5	13	85	5	60	4	14	0	81	0.84
1141399--1141443	22	2.0	22	86	0	63	4	13	0	82	0.82
1147341--1147372	5	6.4	5	100	0	64	37	0	0	62	0.95
1148681--1148721	23	1.9	22	85	14	59	34	9	21	34	1.87
1161462--1161499	20	1.9	20	84	10	51	15	18	26	39	1.91
1161516--1161553	17	2.2	17	100	0	76	18	47	23	10	1.79
1166224--1166273	18	2.8	18	75	21	52	42	2	2	54	1.23
1166286--1166320	18	1.9	18	94	0	61	40	5	0	54	1.24
1166311--1166342	15	2.2	14	94	5	55	28	0	0	71	0.86
1166362--1166445	37	2.3	36	83	8	98	41	1	1	55	1.15
1169847--1170025	38	4.9	38	77	11	162	42	3	7	46	1.48
1169917--1169961	16	2.9	15	75	18	56	42	0	4	53	1.21
1169885--1170022	69	2.0	69	90	2	215	42	2	6	47	1.44
1169917--1169984	31	2.2	31	86	2	93	44	1	4	50	1.31
1170668--1170714	13	3.6	13	97	0	85	27	25	23	23	2.00
1177454--1177487	18	1.9	18	88	5	52	50	0	20	29	1.49
1183128--1183158	15	2.1	15	100	0	62	25	32	16	25	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1186598--1186646	21	2.3	21	96	0	89	26	18	40	14	1.89
1186997--1187045	21	2.3	21	96	0	89	14	40	18	26	1.89
1188506--1188541	18	2.0	18	94	0	63	30	19	11	38	1.86
1192837--1192887	25	2.0	26	92	3	86	45	7	7	39	1.62
1193548--1193659	43	2.6	44	82	4	129	33	16	16	32	1.92
1193769--1193928	43	3.7	43	74	5	133	31	21	16	30	1.95
1193681--1193928	132	1.9	131	83	3	318	33	20	16	29	1.94
1194476--1194532	19	2.9	19	76	2	60	1	21	0	77	0.86
1195215--1195258	14	3.2	14	87	3	63	0	20	0	79	0.73
1195220--1195266	19	2.5	19	80	13	60	0	19	2	78	0.85
1196408--1196432	11	2.3	11	100	0	50	52	12	8	28	1.66
1216417--1216480	32	2.0	32	96	0	119	15	14	12	57	1.65
1220072--1220123	25	2.0	26	88	3	79	48	9	7	34	1.65
1223699--1223747	23	2.1	23	84	0	62	67	6	24	2	1.24
1223755--1223962	42	5.0	41	83	4	175	32	16	23	27	1.96
1223755--1223962	84	2.5	84	83	0	245	32	16	23	27	1.96
1227226--1227256	16	2.0	16	93	6	55	51	0	3	45	1.17
1228573--1228663	3	30.3	3	100	0	182	32	0	0	67	0.91
1228818--1228870	17	3.1	17	83	2	61	33	5	7	52	1.53
1228964--1228997	3	11.3	3	100	0	68	32	0	0	67	0.91
1228996--1229021	3	8.7	3	100	0	52	0	0	30	69	0.89
1229649--1229877	76	3.0	75	86	3	298	29	1	13	55	1.49
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1229851--1229894	19	2.2	20	84	8	54	31	0	13	54	1.39
1230589--1230629	19	2.2	19	86	4	57	24	4	0	70	1.06
1236258--1236288	15	2.1	15	93	0	53	61	9	19	9	1.54
1238054--1238282	76	3.0	74	87	6	316	29	1	13	55	1.46
1238168--1238214	19	2.5	19	79	3	51	29	0	14	55	1.40
1238058--1238298	75	3.2	75	85	5	315	29	1	13	55	1.46
1240499--1240533	2	17.5	2	100	0	70	51	0	0	48	1.00
1246001--1246068	34	2.0	34	100	0	136	50	20	2	26	1.63
1246235--1246338	36	2.9	35	90	4	154	28	19	12	39	1.88
1246237--1246332	21	5.1	21	59	27	54	29	19	13	37	1.90
1246496--1246642	67	2.2	66	86	6	199	28	19	12	39	1.88
1246643--1247003	131	2.7	133	82	3	431	27	32	15	24	1.96
1248759--1248804	2	24.0	2	86	8	69	47	0	0	52	1.00
1248764--1248814	16	3.2	15	86	10	66	43	0	0	56	0.99
1251115--1251196	32	2.6	32	90	0	119	21	23	32	21	1.98
1251108--1251210	32	3.2	31	82	5	116	23	21	33	22	1.98
1257891--1257945	22	2.5	22	81	0	65	38	14	20	27	1.91
1257930--1257978	18	2.7	19	73	20	59	36	14	18	30	1.90
1259798--1260290	232	2.2	223	86	8	676	27	11	18	41	1.86
1264867--1266580	855	2.0	854	93	1	2905	27	13	23	35	1.92
1267659--1267816	35	4.6	35	78	3	162	48	16	9	25	1.76
1267760--1267830	32	2.3	30	81	13	81	54	16	4	23	1.59
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1283912--1284004	47	2.0	48	89	2	143	36	7	17	38	1.78
1288355--1288397	20	2.3	19	84	11	61	25	30	6	37	1.82
1291218--1291257	21	1.9	21	84	0	53	30	27	12	30	1.93
1302815--1302889	33	2.3	33	95	0	132	28	28	14	29	1.95
1302828--1302897	33	2.1	33	91	0	113	31	27	15	25	1.96
1306310--1306375	33	2.0	33	84	0	87	31	25	15	27	1.95
1312385--1312421	2	18.5	2	100	0	74	51	0	0	48	1.00
1313031--1313098	30	2.3	30	89	0	100	55	11	7	25	1.61
1315138--1315170	11	3.1	11	82	8	50	42	0	6	51	1.26
1315146--1315191	15	3.0	15	81	6	56	39	0	2	58	1.10
1318795--1318879	15	5.4	15	70	10	71	18	24	30	25	1.98
1318795--1318880	32	2.7	32	88	0	136	19	24	30	25	1.98
1319438--1319546	37	2.9	37	87	0	164	45	13	7	33	1.71
1319990--1320052	14	4.5	13	78	18	65	31	1	0	66	1.01
1319994--1320055	16	4.0	16	82	16	76	30	1	0	67	1.00
1320083--1320144	19	3.4	18	82	17	83	35	8	1	54	1.39
1320075--1320144	36	1.9	36	88	11	108	37	7	1	54	1.37
1320075--1320161	35	2.3	37	79	18	99	35	6	2	55	1.40
1320225--1320283	16	3.6	16	78	15	50	15	10	3	71	1.26
1324624--1324713	32	2.8	32	86	5	119	27	13	21	37	1.91
1324611--1324732	32	3.8	32	76	11	90	27	13	21	36	1.92
1325899--1326020	36	3.4	36	75	8	122	22	20	14	41	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1326027--1326084	29	2.0	29	82	3	71	39	13	12	34	1.82
1326089--1326344	83	3.1	83	78	7	259	34	21	19	24	1.96
1326831--1326942	37	3.0	37	92	0	179	41	13	15	30	1.85
1327391--1327432	14	2.9	14	86	10	50	35	0	0	64	0.94
1327499--1327554	2	28.5	2	81	16	64	42	3	0	53	1.18
1327498--1327581	35	2.3	35	86	10	107	39	7	1	52	1.37
1327660--1327719	16	3.6	16	78	13	50	15	11	3	70	1.30
1332337--1332380	19	2.3	18	82	17	54	50	9	0	40	1.34
1342258--1342319	26	2.3	27	97	2	117	48	12	9	29	1.73
1347794--1347908	59	1.9	60	81	8	137	40	18	13	26	1.88

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