genome.fa.s8128.2.7.7.80.10.50.1000.5.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: VEPZ01008128.1 Hibiscus syriacus cultivar Beakdansim tig00110683_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  4987688

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   

This is table  5  of  20  ( 2387 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)
1101609--1101648	21	1.9	21	89	0	62	55	0	5	40	1.22
1104398--1104458	3	20.0	3	80	15	72	65	0	0	34	0.93
1104402--1104459	19	3.1	19	85	7	82	67	0	0	32	0.91
1104673--1105133	123	3.8	123	93	2	743	28	17	14	39	1.89
1104666--1105578	123	7.8	117	82	10	726	29	18	13	38	1.90
1105040--1105599	113	5.0	111	83	7	652	30	18	13	37	1.90
1105040--1105591	226	2.5	218	87	5	750	29	19	13	37	1.90
1106811--1106859	16	2.8	17	78	12	55	46	6	10	36	1.63
1110705--1110739	10	3.6	10	88	7	54	68	0	8	22	1.16
1110705--1110739	9	3.7	9	88	11	52	68	0	8	22	1.16
1119864--1119921	3	19.0	3	80	16	66	65	0	0	34	0.93
1119868--1119922	19	3.1	19	82	10	71	67	0	0	32	0.91
1129246--1129284	15	2.6	15	100	0	78	35	12	33	17	1.88
1133275--1133360	19	4.3	19	80	12	75	24	30	29	16	1.96
1133277--1133360	20	4.1	20	80	11	82	23	30	28	16	1.96
1137988--1138026	21	1.9	20	89	5	60	35	23	12	28	1.91
1165939--1166105	32	5.2	32	78	0	145	38	12	14	33	1.84
1165939--1166101	64	2.5	64	78	3	166	39	12	14	33	1.85
1165923--1166141	96	2.3	96	76	3	217	39	13	13	33	1.84
1169832--1169861	2	15.0	2	100	0	60	50	0	0	50	1.00
1169829--1169899	22	3.2	22	80	11	74	39	0	9	50	1.36
1178209--1178273	32	2.0	33	84	3	87	32	24	15	27	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1178728--1178768	20	2.0	20	85	0	55	24	21	17	36	1.94
1180390--1180445	24	2.3	24	90	0	85	28	26	7	37	1.83
1182474--1182896	112	3.8	110	87	2	567	29	16	23	30	1.96
1182474--1182895	224	1.9	224	87	2	625	29	16	23	30	1.96
1186237--1186343	40	2.7	40	98	0	205	22	17	28	31	1.97
1186391--1186516	47	2.8	45	84	5	155	40	7	22	29	1.82
1189800--1189961	40	4.1	40	94	0	288	23	17	26	32	1.97
1191542--1191572	12	2.5	13	94	5	55	3	16	0	80	0.83
1191538--1191584	15	3.3	15	76	11	53	4	17	0	78	0.90
1191538--1191600	28	2.2	28	83	5	74	6	15	0	77	0.96
1191578--1191608	12	2.6	12	94	0	53	16	9	0	74	1.07
1194935--1195269	129	2.6	129	81	2	393	41	15	10	32	1.81
1197175--1197213	3	13.0	3	89	10	62	64	0	0	35	0.94
1197175--1197210	14	2.5	14	95	4	63	63	0	0	36	0.94
1207541--1207596	11	4.8	11	72	20	51	1	16	3	78	0.97
1208310--1208361	20	2.6	20	96	0	95	42	5	13	38	1.68
1210421--1210482	22	2.8	22	82	4	72	33	16	12	37	1.87
1210468--1210517	25	2.0	25	100	0	100	36	24	12	28	1.91
1213362--1213436	25	3.0	25	92	5	125	37	21	14	26	1.92
1215756--1215800	14	3.1	14	87	9	56	37	4	4	53	1.41
1227492--1227767	130	2.1	129	79	10	305	26	29	19	25	1.99
1227613--1227824	89	2.4	90	87	3	295	27	29	18	24	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1228019--1228076	3	20.0	3	72	13	50	27	3	3	65	1.25
1228158--1228280	25	5.0	25	94	4	207	35	21	14	27	1.93
1246042--1246091	23	2.2	23	100	0	100	16	12	32	40	1.84
1247389--1247446	30	2.0	29	86	10	82	39	15	18	25	1.91
1256573--1256685	33	3.5	33	74	9	106	39	15	1	43	1.57
1265060--1265177	33	3.6	33	72	10	91	35	18	3	42	1.67
1267114--1267181	31	2.2	31	87	12	97	50	0	4	45	1.22
1267127--1267181	18	3.3	18	72	27	59	47	0	3	49	1.19
1267453--1267499	20	2.2	21	78	17	53	44	2	0	53	1.12
1268993--1269300	136	2.2	136	89	2	465	43	13	12	30	1.81
1269644--1269684	14	2.8	15	85	3	57	53	0	14	31	1.41
1269630--1269682	14	3.7	14	82	7	54	52	1	16	28	1.54
1271121--1271175	17	3.3	17	67	12	51	23	21	18	36	1.95
1271550--1271599	18	2.6	20	90	6	77	32	16	6	46	1.71
1272761--1273086	45	7.2	45	85	0	409	24	20	12	42	1.87
1275059--1275123	27	2.4	27	79	5	69	20	12	1	66	1.32
1278249--1278750	139	3.6	138	78	5	447	47	13	10	28	1.77
1279617--1279798	94	1.9	95	82	3	224	32	15	25	26	1.96
1279783--1279836	22	2.5	22	96	0	99	33	14	24	27	1.94
1280625--1280744	46	2.6	46	88	5	172	34	19	19	27	1.96
1283388--1283468	23	3.6	23	74	15	71	23	20	24	30	1.99
1285689--1285731	18	2.4	18	80	7	52	39	2	6	51	1.42
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1288898--1289169	113	2.4	112	89	2	427	33	16	20	29	1.95
1289072--1289239	65	2.6	65	93	0	282	29	17	23	29	1.97
1288964--1289347	178	2.2	178	90	1	592	30	16	22	29	1.96
1289137--1289505	111	3.3	112	92	2	600	30	16	24	28	1.97
1303379--1303455	15	4.9	15	68	14	57	28	2	2	66	1.18
1303412--1303468	29	2.0	28	83	16	73	29	5	0	64	1.15
1303415--1303468	27	1.9	29	85	14	78	29	5	0	64	1.16
1304272--1304312	18	2.3	18	91	8	66	21	2	0	75	0.92
1304284--1304352	15	4.9	15	70	20	51	30	0	1	68	0.99
1304276--1304335	25	2.4	26	83	5	79	26	1	0	71	0.95
1304271--1304320	18	2.8	18	75	19	52	24	2	0	74	0.93
1305749--1305790	15	3.0	14	83	10	50	19	19	7	54	1.66
1313015--1313069	22	2.5	22	84	0	74	32	14	16	36	1.89
1313470--1314013	112	4.9	112	87	1	691	38	14	19	28	1.91
1313470--1314013	225	2.4	223	86	1	730	38	14	19	28	1.91
1313966--1314029	19	3.3	19	65	26	53	46	7	26	18	1.76
1313965--1314032	22	3.3	22	66	26	67	48	7	26	17	1.73
1313953--1314052	39	2.6	39	98	0	191	46	8	23	23	1.78
1313843--1314161	150	2.1	151	92	1	525	40	11	19	27	1.86
1313731--1314535	262	3.1	263	93	0	1335	39	12	19	28	1.88
1313992--1314276	112	2.5	112	95	1	509	39	11	19	29	1.87
1314228--1314295	22	3.3	22	64	26	58	48	5	26	19	1.71
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1314216--1314315	39	2.6	39	98	0	191	46	7	24	23	1.77
1314255--1314550	111	2.6	112	90	2	461	39	11	19	29	1.87
1314104--1314423	150	2.1	151	94	1	554	41	10	20	28	1.85
1314255--1314556	112	2.7	111	88	2	444	39	11	19	30	1.87
1315730--1315806	15	4.9	15	68	14	57	28	2	2	66	1.18
1315763--1315819	29	2.0	28	83	16	73	29	5	0	64	1.15
1315766--1315819	27	1.9	29	85	14	78	29	5	0	64	1.16
1321739--1321804	22	3.0	22	82	10	75	28	18	25	27	1.98
1322581--1322833	45	5.6	45	84	2	271	39	9	22	28	1.85
1322608--1322833	89	2.5	89	83	7	262	40	9	21	28	1.84
1322618--1322878	90	2.9	87	71	18	212	40	8	20	30	1.82
1329107--1329151	22	2.0	23	95	4	83	31	13	26	28	1.94
1329562--1329712	79	1.9	79	94	0	266	35	9	27	27	1.89
1329650--1329928	45	6.2	45	84	4	285	39	9	21	29	1.84
1329687--1329905	91	2.4	91	85	2	280	42	9	20	28	1.82
1329690--1329945	136	1.9	135	83	4	336	41	8	19	30	1.81
1330592--1330636	15	2.9	16	80	3	56	51	0	22	26	1.49
1342106--1342147	21	2.0	21	90	0	66	30	16	30	21	1.95
1342287--1342335	20	2.5	20	89	0	71	28	14	26	30	1.95
1343943--1343991	21	2.3	21	100	0	98	20	0	12	67	1.22
1344664--1344701	2	19.0	2	100	0	76	50	0	0	50	1.00
1346753--1346845	21	4.5	21	78	4	100	39	18	24	17	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1346753--1346845	41	2.3	41	100	0	186	39	18	24	17	1.91
1346772--1346906	41	3.3	41	84	4	148	37	21	20	20	1.94
1346834--1346927	20	4.7	20	80	7	91	32	25	17	24	1.96
1347115--1347158	22	2.0	22	95	0	79	20	45	15	18	1.85
1348676--1348720	18	2.5	18	85	0	63	26	46	15	11	1.79
1349203--1349258	20	2.8	20	81	2	69	39	21	23	16	1.92
1349247--1349304	14	3.9	14	79	16	71	50	25	15	8	1.73
1349231--1349321	32	2.8	33	91	3	157	48	23	17	10	1.79
1349211--1349326	19	6.6	19	68	21	74	43	23	20	12	1.85
1349338--1349395	14	3.9	14	79	16	71	10	17	24	48	1.78

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20