genome.fa.s8526.2.7.7.80.10.50.1000.5.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: VEPZ01008526.1 Hibiscus syriacus cultivar Beakdansim tig00111398_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3043201

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   

This is table  5  of  12  ( 1346 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)
1180344--1180418	21	3.7	20	70	22	57	68	0	5	26	1.11
1180484--1180542	17	3.7	16	72	22	52	69	3	5	22	1.23
1180484--1180542	16	3.7	16	73	15	50	69	3	5	22	1.23
1180749--1180785	2	18.5	2	100	0	74	51	0	0	48	1.00
1181649--1181747	10	10.3	9	76	12	90	15	27	28	29	1.96
1181649--1181747	19	5.2	19	80	13	89	15	27	28	29	1.96
1181648--1181747	29	3.4	30	85	9	127	16	27	28	29	1.97
1181743--1181798	17	3.3	17	97	0	103	19	46	21	12	1.83
1181788--1181818	7	4.4	7	100	0	62	16	29	29	25	1.96
1182692--1182764	31	2.3	32	83	2	94	15	26	32	26	1.95
1183020--1183073	27	2.0	28	85	3	74	42	1	1	53	1.22
1183010--1183161	35	4.5	33	78	17	154	45	3	1	48	1.32
1183146--1183174	2	15.0	2	92	7	51	51	0	0	48	1.00
1184207--1184655	229	2.0	227	93	2	776	44	7	7	39	1.62
1184721--1184766	20	2.3	19	89	10	74	54	10	17	17	1.70
1184888--1184934	20	2.4	19	79	10	58	55	8	17	19	1.67
1187236--1187301	33	2.0	33	87	0	96	28	1	45	24	1.62
1189092--1189135	19	2.4	19	92	3	72	31	2	9	56	1.43
1189217--1190636	198	7.1	200	97	0	2651	37	15	15	32	1.88
1191657--1192144	184	2.7	184	97	0	904	35	14	15	34	1.88
1193618--1193681	23	2.8	23	87	0	92	35	6	20	37	1.78
1193618--1193690	23	3.2	23	82	7	85	34	5	20	39	1.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1193836--1193902	30	2.2	30	82	10	75	52	4	0	43	1.21
1194047--1194110	23	2.8	23	87	0	92	35	6	20	37	1.78
1194047--1194119	23	3.2	23	82	7	85	34	5	20	39	1.76
1194475--1194538	23	2.8	23	87	0	92	35	6	20	37	1.78
1194475--1194547	23	3.2	23	82	7	85	34	5	20	39	1.76
1194693--1194759	30	2.2	30	82	10	75	52	4	0	43	1.21
1194905--1194968	23	2.8	23	87	0	92	35	6	20	37	1.78
1194905--1194977	23	3.2	23	82	7	85	34	5	20	39	1.76
1193522--1197970	429	10.4	431	98	0	8701	40	8	13	38	1.74
1195336--1195399	23	2.8	23	87	0	92	35	6	20	37	1.78
1195336--1195408	23	3.2	23	82	7	85	34	5	20	39	1.76
1193522--1197970	857	5.2	861	98	0	8672	40	8	13	38	1.74
1195765--1195827	22	2.8	23	87	4	92	36	6	20	36	1.78
1195765--1195836	23	3.2	23	88	4	101	34	5	20	38	1.76
1196191--1196254	23	2.8	23	87	0	92	35	6	20	37	1.78
1196191--1196263	23	3.2	23	82	7	85	34	5	20	39	1.76
1196620--1196683	23	2.8	23	87	0	92	35	6	20	37	1.78
1196620--1196692	23	3.2	23	82	7	85	34	5	20	39	1.76
1197051--1197114	23	2.8	23	87	0	92	35	6	20	37	1.78
1197051--1197123	23	3.2	23	82	7	85	34	5	20	39	1.76
1197478--1197541	23	2.8	23	87	0	92	35	6	20	37	1.78
1197478--1197550	23	3.2	23	82	7	85	34	5	20	39	1.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1197908--1197972	23	2.8	23	90	0	94	35	7	18	38	1.80
1198168--1198214	24	2.0	24	86	0	67	34	2	14	48	1.56
1201002--1201100	23	4.4	23	77	6	87	58	15	11	15	1.63
1201008--1201100	47	2.0	47	84	0	123	58	15	11	15	1.64
1201264--1201330	14	5.1	14	70	14	52	61	14	8	14	1.56
1201282--1201338	24	2.4	24	100	0	114	63	15	8	12	1.52
1201834--1201873	19	2.1	19	86	9	55	30	5	2	62	1.29
1207190--1207230	6	6.8	6	100	0	82	14	68	0	17	1.22
1207860--1207908	5	9.8	5	78	8	55	73	0	6	20	1.04
1207860--1207908	20	2.4	22	74	19	61	73	0	6	20	1.04
1212364--1212476	21	5.4	21	90	6	151	39	21	21	17	1.92
1212364--1212506	21	6.8	21	87	8	145	39	23	19	18	1.93
1217263--1217423	70	2.3	71	86	8	220	35	25	18	20	1.95
1217270--1217457	36	5.2	36	85	4	220	36	23	19	21	1.95
1217271--1217457	70	2.6	70	83	7	198	36	23	19	20	1.95
1217839--1218726	51	16.8	51	80	8	720	32	18	25	23	1.97
1217839--1218397	155	3.6	156	87	3	770	32	20	25	21	1.97
1218396--1218938	55	10.1	55	84	7	473	30	15	27	27	1.96
1218396--1218938	106	5.0	109	77	11	489	30	15	27	27	1.96
1218415--1218895	215	2.2	217	77	13	508	31	15	27	26	1.96
1222649--1222738	29	3.0	30	75	16	80	66	3	1	28	1.14
1222764--1222805	3	14.3	3	80	14	52	66	2	0	30	1.04
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1224032--1224142	42	2.6	43	90	5	163	55	2	14	27	1.52
1224708--1224741	2	17.0	2	100	0	68	50	0	0	50	1.00
1227308--1227364	26	2.2	25	79	11	62	49	1	0	49	1.11
1227920--1228003	29	3.0	29	68	14	68	51	13	4	30	1.61
1232997--1233063	24	2.8	23	80	8	80	58	17	13	10	1.63
1233000--1233044	14	3.2	14	87	0	54	57	22	13	6	1.59
1233230--1233265	14	2.5	15	91	8	58	61	13	5	19	1.52
1238738--1238804	21	3.0	21	72	10	62	41	0	0	58	0.98
1241012--1241133	63	1.9	63	98	0	235	34	11	14	39	1.82
1246453--1246685	109	2.1	109	95	0	421	33	14	6	45	1.69
1249605--1249642	12	3.2	12	82	14	51	81	15	2	0	0.80
1255715--1255761	20	2.4	20	85	3	60	12	34	23	29	1.92
1258793--1258837	22	2.0	22	91	8	74	64	2	0	33	1.06
1259491--1259547	2	28.5	2	100	0	114	50	0	0	49	1.00
1262969--1263028	17	3.5	17	71	8	50	36	21	6	35	1.80
1269478--1269538	25	2.5	26	84	10	83	11	32	13	42	1.79
1271205--1271290	23	3.7	23	89	6	111	46	12	24	16	1.82
1277806--1277872	20	3.3	20	87	0	98	28	25	19	26	1.99
1278104--1278154	22	2.3	22	90	6	77	21	45	15	17	1.86
1278509--1278550	19	2.2	19	86	0	57	14	21	23	40	1.90
1278516--1278561	19	2.4	19	100	0	92	10	15	26	47	1.78
1278583--1278631	20	2.5	20	89	0	71	18	18	26	36	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1278616--1278654	20	2.0	20	100	0	78	10	10	23	56	1.63
1278516--1278578	19	3.3	18	91	4	81	11	14	25	49	1.76
1280409--1280457	20	2.5	20	86	0	62	36	22	20	20	1.95
1280604--1280647	20	2.2	20	91	0	70	13	11	22	52	1.72
1282742--1282815	20	3.7	20	83	3	78	43	24	17	14	1.87
1282858--1282954	20	4.8	20	85	0	122	28	19	18	32	1.96
1283125--1283159	18	1.9	18	94	0	61	17	2	25	54	1.57
1283742--1283795	24	2.2	24	86	0	72	42	18	16	22	1.89
1284444--1284481	17	2.2	17	100	0	76	26	5	36	31	1.79
1284627--1284711	20	4.3	20	71	11	77	28	20	25	25	1.99
1284726--1284771	19	2.4	19	88	3	65	23	17	28	30	1.97
1284735--1284773	19	2.1	19	95	0	69	23	15	28	33	1.95
1288295--1288347	28	2.0	26	85	7	70	50	1	0	47	1.12
1289914--1289960	20	2.3	20	96	0	85	48	8	21	21	1.76
1290089--1290127	2	19.5	2	100	0	78	48	0	0	51	1.00
1290168--1290237	37	1.9	36	82	2	86	50	4	2	42	1.37
1293674--1293708	6	5.8	6	100	0	70	34	0	65	0	0.93
1295148--1295222	19	3.9	19	96	0	123	29	30	16	24	1.96
1295267--1295320	21	2.6	21	85	8	74	27	20	20	31	1.97
1295351--1295414	20	3.2	20	82	8	85	26	26	20	26	1.99
1295577--1295656	22	3.6	22	81	0	106	20	41	17	21	1.91
1296016--1296103	20	4.4	20	81	1	88	18	21	21	38	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1296070--1296113	20	2.2	20	83	0	52	11	18	18	52	1.74
1298126--1298262	34	3.9	34	74	11	130	37	21	21	19	1.95
1298125--1298262	74	1.9	74	93	0	240	36	21	21	20	1.95
1298107--1298266	20	8.6	20	65	15	83	38	21	20	19	1.94
1298272--1298352	33	2.4	34	87	2	119	16	19	23	40	1.90
1298363--1298402	20	2.0	20	95	0	71	15	7	25	52	1.68
1298890--1298971	42	2.0	42	87	0	119	23	39	15	21	1.92
1298908--1298990	42	2.0	42	83	4	105	25	37	16	20	1.93
1300364--1300429	30	2.2	30	94	0	114	28	1	15	54	1.50
1300579--1300817	20	12.9	20	70	15	163	24	19	20	35	1.95

Tables:   1   2   3   4   5   6   7   8   9   10   11   12