genome.fa.s8290.2.7.7.80.10.50.1000.5.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: VEPZ01008290.1 Hibiscus syriacus cultivar Beakdansim tig00110954_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1890093

Tables:   1   2   3   4   5   6   7   8   9   

This is table  5  of  9  ( 972 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)
1026565--1026596	17	1.9	16	93	6	55	46	0	0	53	1.00
1051352--1051405	22	2.6	21	80	8	65	37	12	20	29	1.90
1051769--1052336	163	3.5	161	87	1	787	36	10	20	31	1.88
1051769--1052368	81	7.4	81	86	1	783	37	10	21	31	1.87
1055056--1055149	31	3.0	31	95	3	163	18	19	24	38	1.93
1055867--1055991	66	1.9	67	81	5	155	37	24	17	20	1.94
1056623--1056678	23	2.4	23	87	0	76	19	26	25	28	1.99
1063463--1063523	23	2.7	23	81	0	86	21	26	26	26	1.99
1069787--1069834	23	2.1	23	92	0	78	18	29	22	29	1.98
1069787--1069842	23	2.4	23	87	0	67	19	26	21	32	1.97
1084788--1084860	33	2.2	33	95	2	130	10	23	24	41	1.86
1085650--1085682	6	5.5	6	100	0	66	0	15	51	33	1.43
1085778--1085985	42	5.1	41	81	8	223	16	19	22	41	1.90
1085778--1085985	20	10.2	20	74	11	138	16	19	22	41	1.90
1089575--1089628	15	3.7	14	75	7	54	35	7	0	57	1.27
1089575--1089631	29	1.9	30	92	3	98	38	7	0	54	1.28
1089572--1089640	30	2.3	29	82	2	93	43	5	0	50	1.26
1090024--1090075	24	2.2	24	100	0	104	44	3	0	51	1.19
1091358--1091410	27	2.0	26	85	3	70	30	0	0	69	0.88
1093351--1093422	30	2.4	30	86	2	92	29	29	20	20	1.98
1093408--1093472	31	2.1	31	85	0	85	33	23	18	24	1.96
1094073--1094215	64	2.2	64	82	4	173	27	17	18	35	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1096233--1096365	30	4.5	30	80	5	146	16	12	11	60	1.59
1098711--1098757	24	2.0	24	86	0	67	51	0	0	48	1.00
1109470--1109551	37	2.3	36	87	6	114	31	4	19	43	1.72
1109482--1109551	37	1.9	37	91	2	115	30	4	20	45	1.70
1113042--1113166	48	2.8	45	83	8	155	40	8	19	32	1.80
1114064--1114117	28	2.0	27	92	3	90	50	7	3	38	1.48
1124558--1124724	88	1.9	86	84	9	225	34	13	21	29	1.92
1124990--1125379	185	2.1	185	90	3	608	45	8	3	42	1.50
1132029--1132062	17	1.9	18	88	5	52	55	0	0	44	0.99
1133000--1133096	40	2.4	40	87	1	131	14	20	22	42	1.88
1133025--1133116	20	4.6	20	97	0	166	9	22	21	45	1.81
1133823--1133909	6	14.5	6	100	0	174	0	16	50	33	1.45
1139529--1139573	21	2.1	21	95	0	81	51	2	33	13	1.53
1140468--1140529	31	2.0	31	96	0	115	40	19	27	12	1.88
1141746--1141801	28	2.0	28	100	0	112	42	10	10	35	1.74
1147465--1147771	88	3.5	86	76	8	289	24	16	5	52	1.66
1147532--1147772	131	1.8	130	80	7	290	25	17	6	50	1.70
1147465--1147771	43	7.1	43	78	8	300	24	16	5	52	1.66
1151665--1151723	3	20.3	3	80	19	72	30	0	0	69	0.89
1151668--1151723	15	3.9	15	86	13	82	30	0	0	69	0.89
1152371--1152419	24	2.1	23	85	7	64	18	0	4	77	0.92
1152370--1152444	39	2.0	38	82	12	93	20	2	2	74	1.06
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1152397--1152451	30	1.9	28	85	10	76	20	5	1	72	1.13
1157138--1157226	42	2.1	42	95	4	162	41	2	8	47	1.47
1168302--1168360	23	2.6	22	84	10	66	35	22	11	30	1.90
1174296--1174373	21	3.7	21	70	13	61	25	14	17	42	1.87
1174379--1174455	21	3.7	21	89	0	118	18	18	29	33	1.94
1175958--1176008	23	2.2	23	79	6	59	43	23	13	19	1.87
1175957--1176016	23	2.6	23	75	2	57	40	20	15	25	1.90
1177711--1177775	33	2.0	33	90	0	103	29	13	21	35	1.92
1177711--1177794	33	2.6	33	84	3	91	26	14	23	35	1.93
1180286--1180343	20	2.6	22	89	10	84	25	22	20	31	1.98
1184982--1185046	33	2.0	33	93	0	112	29	13	23	33	1.93
1184983--1185065	33	2.6	30	78	12	94	25	14	25	34	1.94
1204234--1204396	64	2.6	63	88	4	229	40	13	12	33	1.83
1209692--1209829	63	2.2	63	97	0	258	40	11	12	35	1.79
1209774--1209950	41	4.3	41	97	0	327	41	11	15	32	1.82
1217298--1217339	21	2.0	21	100	0	84	28	33	14	23	1.94
1219260--1219346	31	2.8	30	81	10	95	54	3	1	41	1.25
1219255--1219322	19	3.5	20	73	15	54	54	1	2	41	1.24
1219858--1219903	23	2.0	23	86	0	65	13	19	17	50	1.78
1220298--1220710	38	11.1	36	79	11	397	44	3	8	43	1.53
1220298--1220725	74	5.7	74	81	9	449	44	3	8	43	1.52
1225216--1225257	2	21.0	2	100	0	84	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)
1225797--1225868	29	2.5	29	81	0	81	48	18	18	15	1.81
1232922--1233037	31	3.7	31	90	1	169	56	10	16	17	1.67
1233352--1233415	31	2.0	33	87	6	96	37	3	1	57	1.24
1245096--1245138	21	2.0	21	81	0	50	27	27	25	18	1.98
1246085--1246568	30	16.1	30	96	0	896	23	22	23	31	1.99
1249893--1249935	21	2.0	21	81	0	50	27	27	25	18	1.98
1250883--1251336	30	15.1	30	97	0	863	23	22	23	31	1.99
1256985--1257353	20	18.5	20	85	4	458	34	26	18	20	1.96
1258027--1258073	24	2.0	24	87	8	69	25	14	21	38	1.92
1258248--1258272	12	2.1	12	100	0	50	72	0	28	0	0.86
1260576--1260843	19	15.4	19	76	19	291	46	18	20	13	1.83
1260576--1260865	33	8.5	32	75	17	146	46	18	21	14	1.84
1260604--1260865	52	5.0	52	94	2	456	46	17	21	14	1.84
1260872--1260973	19	5.6	19	85	12	151	14	23	17	44	1.86
1261080--1261116	14	2.6	14	91	0	65	45	21	0	32	1.52
1263078--1263133	14	3.7	14	80	17	67	44	23	21	10	1.83
1263059--1263150	32	2.8	33	91	3	159	46	21	20	10	1.81
1263022--1263155	19	7.6	19	78	15	119	45	23	19	11	1.82
1263151--1263279	19	7.3	19	75	17	125	8	17	28	45	1.77
1263151--1263242	33	2.8	33	93	3	150	7	18	28	45	1.76
1263323--1263793	93	5.1	93	98	1	921	46	19	12	21	1.83
1263323--1263793	184	2.5	186	98	1	921	46	19	12	21	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1265497--1265586	14	5.7	14	74	23	81	42	23	25	8	1.83
1265489--1265603	33	3.5	33	95	0	212	45	20	24	9	1.81
1265496--1265608	19	6.8	18	72	23	88	43	22	24	9	1.83
1265620--1265674	14	3.6	14	73	21	56	9	27	23	40	1.85
1265795--1265865	33	2.2	33	92	0	115	47	18	22	11	1.80
1266046--1266100	22	2.5	22	81	0	74	20	16	40	23	1.91
1266246--1266439	20	9.6	20	82	5	221	19	19	25	35	1.95
1266246--1266439	60	3.2	60	83	0	253	19	19	25	35	1.95
1266432--1266508	21	3.7	20	70	13	57	27	16	23	32	1.96
1266494--1266545	20	2.6	20	96	0	95	21	13	26	38	1.90
1269007--1269054	21	2.3	21	92	0	78	43	12	16	27	1.84
1273648--1273695	21	2.3	21	96	0	87	41	12	18	27	1.86
1277117--1277158	19	2.2	19	87	8	59	38	11	21	28	1.89
1277693--1278641	182	5.2	181	87	2	1359	43	14	15	26	1.85
1277693--1278641	363	2.6	364	91	0	1569	43	14	15	26	1.85
1279091--1279135	23	2.0	23	86	0	63	40	17	6	35	1.76
1288313--1288354	20	2.1	20	95	0	75	23	4	23	47	1.70
1288748--1288819	26	2.7	27	84	2	101	37	16	4	41	1.68
1289689--1289794	19	5.6	19	95	0	194	33	28	16	21	1.96
1298402--1298492	46	2.0	46	91	2	148	27	25	19	27	1.99
1300703--1300743	21	2.0	21	85	9	57	43	0	7	48	1.30
1302812--1302912	41	2.5	42	80	6	125	31	11	23	32	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1303430--1303523	40	2.3	42	85	5	129	27	12	26	32	1.93
1303474--1303639	82	2.0	82	84	5	201	36	20	19	24	1.95
1303517--1303809	41	7.1	40	76	13	165	35	18	18	28	1.94
1303503--1303674	82	2.1	80	84	8	229	37	20	17	25	1.94
1303654--1303814	82	2.0	82	86	4	227	34	14	19	31	1.91
1303654--1303815	41	3.9	42	87	4	206	34	14	19	32	1.91
1305191--1305538	41	8.4	41	77	10	289	29	16	17	36	1.92
1305190--1305538	82	4.2	82	76	9	327	28	16	17	36	1.92
1305487--1305581	43	2.3	42	88	3	138	29	12	17	40	1.87
1311327--1311371	3	14.7	3	86	4	63	35	0	0	64	0.94

Tables:   1   2   3   4   5   6   7   8   9