genome.fa.s8439.2.7.7.80.10.50.1000.5.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: VEPZ01008439.1 Hibiscus syriacus cultivar Beakdansim tig00111238_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2703160

Tables:   1   2   3   4   5   6   7   8   9   

This is table  5  of  9  ( 1013 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)
1175432--1175460	3	9.7	3	100	0	58	34	0	0	65	0.93
1176295--1176342	21	2.3	21	96	0	87	52	10	31	6	1.60
1178215--1178372	21	7.8	20	72	7	86	38	25	17	18	1.92
1178339--1178532	20	9.6	20	81	5	221	35	25	19	19	1.95
1178339--1178532	60	3.2	60	83	0	253	35	25	19	19	1.95
1178915--1178983	32	2.2	32	91	0	111	11	21	20	46	1.82
1178915--1178964	18	3.0	18	69	22	54	12	22	22	44	1.85
1179066--1179175	21	5.8	20	74	17	108	45	18	24	11	1.83
1179059--1179175	41	3.1	38	81	14	145	46	17	25	11	1.81
1179126--1179182	14	3.7	14	75	20	60	43	22	24	8	1.81
1179118--1179187	33	2.1	33	100	0	140	47	20	24	8	1.78
1179124--1179195	33	2.2	33	94	0	126	47	23	20	8	1.77
1179216--1179272	14	3.7	14	75	20	60	8	24	22	43	1.81
1179199--1179280	33	2.5	33	97	0	155	10	23	18	47	1.80
1179257--1179321	21	3.1	21	77	4	87	12	26	15	46	1.81
1181018--1181486	93	5.1	93	99	0	913	21	13	19	45	1.84
1181534--1181662	19	7.3	19	73	17	116	46	28	16	8	1.76
1181570--1181662	33	2.8	32	90	4	141	47	27	17	7	1.74
1181534--1181662	52	2.5	52	75	12	147	46	28	16	8	1.76
1181658--1181830	19	9.6	19	76	12	159	10	18	23	46	1.81
1181680--1181736	14	3.7	14	77	20	60	10	21	22	45	1.82
1181663--1181755	33	2.8	33	95	0	168	10	20	21	47	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1181658--1181830	33	4.8	38	82	5	159	10	18	23	46	1.81
1183755--1183790	14	2.6	14	95	0	63	33	0	22	44	1.53
1183897--1183994	19	5.4	19	84	13	143	45	17	22	14	1.84
1183897--1184013	53	2.2	53	98	1	227	44	17	23	13	1.85
1184003--1184205	19	11.7	19	74	20	203	14	21	18	45	1.85
1184003--1184177	52	3.3	52	97	0	323	14	22	17	45	1.85
1184009--1184215	33	6.1	33	76	14	215	13	22	18	45	1.84
1186503--1186527	12	2.1	12	100	0	50	0	28	0	72	0.86
1186702--1186748	24	2.0	24	87	8	69	38	21	14	25	1.92
1187431--1187660	20	11.5	20	85	1	228	20	18	24	36	1.94
1187647--1187729	21	4.0	21	75	6	78	25	15	24	34	1.95
1187627--1187725	42	2.4	43	77	11	100	21	17	23	38	1.93
1192901--1192963	27	2.4	27	97	2	119	52	7	3	36	1.47
1209150--1209695	195	2.8	196	89	2	821	25	22	23	29	1.99
1214996--1215042	21	2.2	21	96	0	85	25	19	12	42	1.86
1216261--1216416	31	5.0	31	89	1	233	35	22	20	21	1.96
1216594--1216640	23	2.0	24	91	4	78	34	21	0	44	1.52
1217244--1217288	21	2.1	21	87	0	63	15	24	28	31	1.96
1222045--1222092	21	2.3	21	92	0	78	27	16	12	43	1.84
1230769--1231125	176	2.0	177	84	1	457	36	15	12	36	1.84
1231955--1231992	13	2.8	13	88	4	58	60	0	0	39	0.97
1234941--1234974	3	11.7	3	93	6	61	67	0	0	32	0.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1250198--1250443	118	2.0	122	93	6	421	55	14	11	19	1.69
1256640--1256701	29	2.2	27	75	11	63	35	4	16	43	1.69
1262762--1262903	60	2.4	59	82	5	153	30	22	4	41	1.75
1264846--1264875	2	15.5	2	93	6	53	53	0	0	46	1.00
1266896--1266944	23	2.1	23	85	7	64	71	2	4	22	1.13
1273367--1273405	14	2.7	14	92	4	60	43	33	2	20	1.65
1275487--1275551	31	2.1	31	85	5	87	21	15	9	53	1.69
1277469--1277935	239	2.0	239	99	0	918	27	14	24	33	1.94
1281503--1281622	42	2.9	42	90	3	181	15	15	19	49	1.80
1281810--1281893	36	2.3	38	82	14	104	53	1	1	44	1.16
1281867--1281961	27	3.5	27	78	11	97	46	1	2	50	1.20
1282123--1282192	20	3.5	20	92	0	122	37	14	8	40	1.76
1282123--1282201	40	2.0	40	87	0	113	36	15	7	40	1.75
1282175--1282254	15	5.4	15	87	3	117	35	18	7	38	1.79
1282175--1282254	30	2.7	30	94	1	135	35	18	7	38	1.79
1282175--1282261	45	2.0	44	90	2	138	33	18	6	41	1.77
1282952--1283006	18	3.3	17	85	9	69	14	47	3	34	1.62
1282952--1282994	6	7.3	6	86	2	61	13	48	2	34	1.56
1285862--1285919	22	2.6	22	91	0	98	22	46	13	17	1.83
1286301--1286333	14	2.4	14	100	0	66	15	12	18	54	1.71
1286329--1286386	19	3.0	20	79	5	73	12	17	20	50	1.78
1287697--1287732	18	1.9	19	94	5	65	30	47	11	11	1.74
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1287953--1288009	21	2.7	21	78	5	62	22	17	35	24	1.95
1288276--1288417	20	7.4	20	79	10	145	38	23	19	18	1.93
1288253--1288396	73	2.0	73	89	6	220	41	24	17	16	1.89
1288275--1288376	53	1.9	54	87	2	152	41	24	17	16	1.90
1288276--1288455	93	1.9	94	90	3	292	38	22	20	18	1.93
1288513--1288561	20	2.5	20	83	6	64	18	18	26	36	1.94
1289054--1289166	21	5.4	21	71	6	86	22	37	18	22	1.94
1293029--1293088	24	2.5	24	83	0	84	38	18	18	25	1.93
1293903--1294054	20	7.4	20	80	10	173	23	17	28	31	1.96
1293901--1294055	61	2.5	61	94	2	265	22	16	28	32	1.96
1294103--1294196	20	4.7	20	75	11	77	27	18	22	31	1.97
1294111--1294196	41	2.1	41	82	4	95	25	17	23	33	1.96
1305979--1306173	100	1.9	104	85	6	272	49	5	14	30	1.65
1309750--1309825	35	2.1	35	82	2	89	42	2	6	48	1.43
1311624--1311660	12	3.2	12	85	14	51	21	16	27	35	1.94
1312014--1312074	33	1.9	31	87	9	88	42	18	13	26	1.86
1322680--1322757	22	3.6	21	76	15	61	48	1	2	47	1.23
1322692--1322788	43	2.3	43	78	7	99	49	1	2	47	1.20
1322704--1322789	47	1.9	42	84	11	109	50	1	1	47	1.16
1322739--1322807	32	2.1	33	94	2	122	46	0	1	52	1.09
1322764--1322807	23	2.0	21	82	8	52	47	0	0	52	1.00
1329776--1330456	187	3.6	186	78	5	658	28	17	14	39	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1331124--1331170	24	2.0	25	84	16	64	17	23	21	38	1.93
1334992--1335047	3	18.7	3	78	7	51	5	32	0	62	1.18
1345831--1345863	3	11.0	3	93	0	57	63	0	0	36	0.95
1355077--1355363	108	2.6	108	84	4	346	39	10	13	36	1.79
1355994--1356202	100	2.1	100	88	3	305	32	11	13	42	1.81
1356118--1356354	76	3.1	76	85	2	305	32	13	10	43	1.77
1356271--1356461	100	1.9	100	83	2	249	32	11	10	44	1.76
1356206--1356528	176	1.8	176	86	5	465	33	12	11	43	1.78
1356371--1356605	76	3.1	75	81	2	272	32	13	12	41	1.82
1356018--1356874	252	3.4	250	85	2	1117	32	12	12	42	1.81
1356623--1356862	76	3.1	75	84	5	286	30	13	12	43	1.81
1356447--1356763	176	1.8	176	86	2	458	32	13	12	41	1.82
1367858--1367914	27	2.1	27	100	0	114	49	10	14	26	1.75
1370027--1370053	12	2.2	12	100	0	54	14	0	7	77	0.97
1370010--1370061	20	2.6	20	79	14	54	17	0	5	76	0.97
1370816--1370850	18	1.9	18	100	0	70	22	0	17	60	1.37
1372717--1372757	21	2.0	21	85	9	57	39	9	0	51	1.35
1372752--1372893	68	2.1	68	81	1	158	40	14	10	34	1.80
1375577--1375651	31	2.4	31	82	6	89	38	0	1	60	1.06
1375567--1375654	34	2.7	31	77	10	88	38	0	2	59	1.10
1377084--1377123	13	3.2	13	89	7	64	45	0	0	55	0.99
1377747--1377778	15	2.1	15	100	0	64	46	18	18	15	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1377999--1378029	14	2.1	15	94	5	55	19	0	3	77	0.90
1379598--1379676	26	3.0	26	94	0	131	43	22	16	17	1.88
1379627--1379720	21	4.1	21	78	9	71	37	21	21	20	1.95
1381290--1381330	6	6.7	6	97	2	73	36	14	31	17	1.90
1385140--1385229	15	6.5	15	81	15	122	44	0	0	55	0.99
1385232--1385274	22	2.0	22	100	0	86	34	0	13	51	1.42
1385209--1385622	32	12.4	32	66	23	167	33	0	13	52	1.41
1385209--1385435	54	4.1	54	80	18	288	33	0	13	53	1.40
1385231--1385639	80	5.2	79	77	15	359	33	0	14	52	1.42
1385254--1385498	112	2.2	112	98	0	472	31	0	15	53	1.42

Tables:   1   2   3   4   5   6   7   8   9