genome.fa.s1470.2.7.7.80.10.50.1000.6.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: VEPZ01001470.1 Hibiscus syriacus cultivar Beakdansim tig00002847_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1178067

Tables:   1   2   3   4   5   6   7   

This is table  6  of  7  ( 779 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)
958028--958290	85	3.1	85	85	3	359	30	29	11	29	1.91
958021--958288	128	2.1	128	84	6	348	31	28	11	28	1.91
958343--958594	40	6.3	40	96	0	443	41	12	16	29	1.85
964465--964525	29	2.2	28	82	11	72	60	11	8	19	1.55
965598--965633	3	12.0	3	93	0	63	66	2	0	30	1.06
967793--967835	22	2.0	22	86	9	61	13	13	4	67	1.38
972668--972712	23	2.0	23	81	0	54	77	4	11	6	1.09
977179--977880	55	12.7	54	77	10	613	34	17	11	37	1.86
977179--977880	165	4.2	164	74	12	678	34	17	11	37	1.86
977360--977431	36	2.0	36	94	0	126	29	16	13	40	1.87
977305--977473	91	1.9	91	91	2	277	30	16	11	40	1.84
981959--982019	3	20.3	3	93	0	104	63	0	3	32	1.10
984808--984884	32	2.3	36	78	14	85	33	0	15	50	1.44
990571--990595	10	2.5	10	100	0	50	60	8	12	20	1.57
990698--990732	17	2.2	16	90	10	54	51	17	0	31	1.45
991323--991368	19	2.4	19	96	0	83	28	26	4	41	1.74
996229--996266	18	2.1	18	85	9	51	2	18	0	78	0.86
996238--996281	11	3.9	11	81	3	52	6	13	0	79	0.92
996637--996671	12	2.9	12	95	0	61	0	25	17	57	1.40
1001852--1001906	18	3.2	17	78	19	53	45	10	0	43	1.39
1001851--1001901	16	3.1	17	76	18	54	47	9	0	43	1.36
1001883--1001978	29	3.4	28	75	15	90	46	6	0	46	1.27
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1001878--1001939	26	2.5	25	80	12	74	46	4	0	48	1.23
1001966--1002027	28	2.2	28	83	11	83	40	9	4	45	1.58
1001903--1001998	36	2.9	36	80	16	109	44	6	1	47	1.35
1001962--1002038	28	2.6	29	73	8	75	42	7	3	45	1.51
1013967--1014004	20	1.9	20	100	0	76	31	18	21	28	1.97
1014486--1014532	18	2.6	18	96	0	85	36	25	12	25	1.92
1019185--1019223	18	2.2	18	95	0	69	43	23	7	25	1.80
1031995--1032063	29	2.5	27	85	4	93	60	2	0	36	1.11
1032845--1032907	20	3.2	20	65	17	60	39	9	7	42	1.67
1032841--1032916	38	2.0	38	100	0	152	39	10	7	42	1.69
1033986--1034045	24	2.5	23	74	12	59	41	5	6	46	1.52
1034010--1034069	31	1.9	31	86	0	84	45	1	6	46	1.39
1034621--1034668	21	2.2	23	81	7	55	58	35	2	4	1.29
1035257--1035294	2	19.0	2	100	0	76	50	0	0	50	1.00
1039653--1040910	84	15.2	84	79	6	1273	30	25	19	24	1.98
1039670--1040853	331	3.6	326	84	5	1422	29	25	19	24	1.98
1039671--1040910	248	5.0	244	80	6	1286	30	25	19	24	1.98
1041533--1041787	35	7.1	35	70	21	172	44	4	8	43	1.54
1041736--1041795	24	2.5	23	74	12	59	41	5	6	46	1.52
1041760--1041817	31	1.9	31	82	6	75	43	1	5	50	1.35
1045365--1045423	29	2.1	29	87	3	84	32	3	6	57	1.41
1045374--1045435	29	2.1	29	82	5	72	32	4	8	54	1.51
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1046071--1046129	27	2.2	27	87	6	84	54	10	3	32	1.51
1047387--1047421	13	2.8	13	91	4	54	57	0	0	42	0.99
1050561--1050638	33	2.4	31	85	6	93	60	1	0	38	1.05
1050595--1050670	33	2.2	34	82	11	93	64	3	0	31	1.12
1050622--1050670	16	2.9	17	76	17	57	65	4	0	30	1.11
1053779--1053808	15	2.0	15	100	0	60	20	20	33	26	1.97
1058160--1058235	6	12.7	6	76	8	57	72	1	7	18	1.16
1058149--1058235	18	4.9	18	69	15	65	73	1	9	16	1.14
1058195--1058250	22	2.5	21	80	8	58	75	3	7	14	1.16
1058282--1058315	13	2.7	13	86	4	52	70	0	5	23	1.09
1064651--1064723	17	4.2	17	69	17	51	75	0	9	15	1.04
1064681--1064788	29	3.5	29	76	13	92	71	0	6	22	1.09
1064692--1064758	11	6.1	11	77	16	59	74	0	4	20	0.99
1064823--1064877	20	2.8	19	77	22	60	76	7	0	16	1.00
1070153--1070202	2	26.0	2	92	8	86	52	0	0	48	1.00
1070887--1071036	75	2.0	75	100	0	300	22	24	20	33	1.97
1071005--1071066	21	2.9	21	82	2	79	22	24	14	38	1.91
1071072--1071140	20	3.5	20	91	0	120	39	20	20	20	1.93
1071694--1071772	20	3.9	21	86	5	94	51	17	18	11	1.75
1071754--1071818	14	4.3	14	73	17	58	46	20	23	10	1.81
1071749--1071818	33	2.1	33	94	0	122	47	18	22	11	1.81
1071846--1071901	14	3.6	14	74	21	58	8	25	23	42	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1071829--1071922	33	2.8	33	95	1	161	10	23	22	43	1.84
1071829--1071950	20	6.8	19	71	20	102	9	24	19	45	1.80
1073534--1073832	93	3.2	92	90	4	469	20	11	18	49	1.78
1073920--1074035	19	6.3	19	82	13	134	49	23	19	7	1.74
1074041--1074143	18	5.7	19	71	16	94	11	20	22	45	1.83
1074534--1074626	42	2.2	42	82	0	114	23	38	13	23	1.91
1074596--1074656	21	3.0	20	71	7	59	24	37	18	19	1.94
1076003--1076038	14	2.6	14	86	0	54	36	0	22	41	1.54
1076145--1076239	19	5.3	19	76	14	78	47	23	15	13	1.81
1076235--1076385	19	8.7	19	65	21	89	11	23	19	45	1.84
1076239--1076365	33	3.8	33	95	0	227	11	23	18	45	1.83
1076260--1076347	14	5.6	14	67	23	50	11	23	19	45	1.83
1076352--1076392	20	2.0	20	90	0	64	19	19	21	39	1.93
1076359--1076431	20	3.6	20	70	17	60	23	17	24	34	1.96
1079180--1079224	23	2.0	23	86	0	63	26	26	26	20	1.99
1079332--1079382	25	2.0	26	96	3	95	33	23	23	19	1.97
1084304--1084348	23	2.0	23	86	0	63	26	26	26	20	1.99
1086130--1086174	21	2.1	21	83	0	54	15	22	28	33	1.95
1087236--1087289	24	2.2	24	93	0	90	40	20	18	20	1.91
1087236--1087303	24	2.8	24	84	0	64	38	20	17	23	1.93
1087936--1087979	22	2.0	21	82	4	52	27	11	40	20	1.86
1088147--1088332	20	9.2	20	88	3	275	23	19	18	38	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1088336--1088376	21	1.9	21	85	5	55	34	17	29	19	1.94
1088693--1088745	21	2.5	21	78	6	63	22	24	18	33	1.97
1088735--1088783	21	2.4	20	86	3	62	38	16	22	22	1.92
1088775--1088843	20	3.5	20	87	0	84	26	26	20	27	1.99
1088789--1088852	20	3.2	20	90	0	92	25	26	20	28	1.99
1088816--1088861	20	2.3	20	84	0	56	30	26	19	23	1.98
1088771--1088861	40	2.3	40	74	0	92	31	23	19	25	1.98
1089075--1089130	20	2.8	20	94	0	94	41	23	21	14	1.89
1089136--1089209	34	2.2	34	87	0	103	13	21	24	40	1.89
1090758--1090850	42	2.2	42	82	0	114	21	12	41	23	1.88
1090786--1090846	21	2.9	21	75	0	68	22	11	40	24	1.87
1091191--1091276	40	2.2	40	82	4	102	34	25	20	18	1.96
1091191--1091276	20	4.3	20	83	2	84	34	25	20	18	1.96
1091211--1091285	20	3.8	20	89	1	98	34	22	25	17	1.96
1091250--1091330	19	4.5	19	79	16	91	43	18	22	16	1.88
1091286--1091344	14	3.9	14	74	20	55	50	18	16	13	1.77
1091270--1091349	33	2.4	33	93	0	133	48	18	18	13	1.80
1091358--1091458	19	5.5	19	79	12	113	14	21	20	42	1.88
1091423--1091466	20	2.3	19	92	4	70	20	25	18	36	1.95
1091989--1092036	18	2.7	18	93	0	87	14	12	45	27	1.81
1093342--1093400	20	3.0	20	87	0	73	44	22	18	15	1.87
1093663--1093706	22	2.0	22	95	0	79	18	15	45	20	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1093913--1093990	41	1.9	41	91	0	129	19	16	25	38	1.92
1093893--1093987	20	4.7	20	79	7	102	21	17	26	34	1.95
1093974--1094032	22	2.7	22	92	2	93	22	22	16	38	1.93
1094039--1094091	21	2.5	22	81	6	74	33	18	26	20	1.96
1097963--1098013	10	5.1	10	87	0	75	29	29	1	39	1.68
1098041--1098081	16	2.6	16	81	14	50	34	0	0	65	0.93
1098032--1098081	23	2.1	25	88	7	77	34	0	0	66	0.92
1098047--1098093	21	2.1	23	84	7	62	34	2	0	63	1.06
1099778--1099841	33	1.9	33	87	6	94	14	42	18	25	1.88
1100265--1100308	13	3.4	13	80	0	52	15	2	13	68	1.31

Tables:   1   2   3   4   5   6   7