genome.fa.s7883.2.7.7.80.10.50.1000.6.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: VEPZ01007883.1 Hibiscus syriacus cultivar Beakdansim tig00110263_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1590433

Tables:   1   2   3   4   5   6   7   8   9   

This is table  6  of  9  ( 970 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)
942689--942766	3	27.0	3	75	12	74	39	0	1	58	1.06
942689--942766	24	3.1	25	77	15	90	39	0	1	58	1.06
943878--943933	20	3.2	16	71	28	51	26	3	1	67	1.16
943942--943978	11	3.3	11	88	3	56	29	2	0	67	1.04
944222--944256	14	2.5	14	85	0	52	40	0	0	60	0.97
952884--952927	3	14.7	3	100	0	88	65	0	0	34	0.93
954330--954470	74	1.9	74	94	0	246	37	14	12	35	1.84
961284--961328	21	2.1	22	87	4	65	33	13	28	24	1.93
968244--968275	13	2.3	15	89	10	50	50	0	12	37	1.41
968356--968443	23	3.9	23	74	15	94	21	19	27	31	1.97
970244--970360	58	2.0	58	100	0	234	42	11	13	31	1.81
972197--972284	45	2.0	45	95	0	158	40	17	20	21	1.91
980234--980267	17	2.0	17	94	0	59	14	17	32	35	1.91
984430--984471	14	3.0	14	100	0	84	28	21	21	28	1.99
984760--984818	31	1.9	31	89	6	93	40	5	10	44	1.60
986526--986573	25	1.9	25	91	0	78	50	10	8	31	1.66
990060--990122	2	31.5	2	100	0	126	49	0	0	50	1.00
994554--994637	29	2.9	29	87	0	114	22	28	35	13	1.92
995126--995169	21	2.1	21	86	0	61	31	0	13	54	1.39
995139--995204	28	2.4	28	80	10	89	33	0	12	54	1.37
995534--995583	17	3.1	17	94	5	86	72	4	24	0	1.02
999046--999110	23	2.9	23	95	4	116	35	7	9	47	1.64
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
999254--999307	14	4.1	14	74	13	60	44	0	11	44	1.39
999254--999311	25	2.3	25	93	0	98	43	0	12	44	1.41
999265--999435	11	14.6	11	68	21	64	42	0	10	46	1.42
999279--999438	59	2.7	59	95	0	275	41	0	10	46	1.43
999247--999420	21	8.4	22	67	24	69	41	0	10	47	1.42
999742--999802	21	3.0	20	75	20	54	42	0	8	49	1.32
999782--999831	14	3.7	13	82	17	57	52	0	8	40	1.31
999858--999896	16	2.4	16	91	0	60	41	5	10	43	1.61
1002226--1002260	8	4.4	8	96	0	61	62	14	0	22	1.31
1002208--1002252	16	2.9	16	87	9	58	60	8	0	31	1.28
1002296--1002366	30	2.4	30	84	9	85	46	9	0	43	1.37
1002560--1002599	21	1.9	21	94	0	71	55	15	2	27	1.53
1002727--1002760	15	2.3	15	89	0	50	0	38	0	61	0.96
1003027--1003095	29	2.4	29	87	2	95	15	21	42	20	1.89
1005362--1005406	21	2.1	21	87	0	63	31	26	8	33	1.87
1005887--1005966	42	1.9	42	82	5	99	35	30	6	28	1.82
1007735--1007807	31	2.4	31	78	0	83	52	13	8	26	1.68
1011263--1011291	13	2.3	13	94	5	51	68	0	13	17	1.20
1014290--1014315	11	2.4	11	100	0	52	0	7	0	92	0.39
1014278--1014329	15	3.3	15	76	7	50	3	3	7	84	0.85
1017223--1017265	13	3.2	13	83	6	59	41	0	2	55	1.12
1018575--1018742	59	2.8	59	100	0	336	23	7	20	48	1.74
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1022423--1022459	15	2.4	16	86	4	58	59	0	2	37	1.12
1027861--1027906	23	2.0	23	91	8	76	15	15	4	65	1.43
1032665--1032717	16	3.3	16	77	12	56	60	7	15	16	1.57
1038251--1038346	33	2.9	33	88	1	138	37	22	13	26	1.91
1042262--1042357	33	2.9	33	88	1	138	37	22	13	26	1.91
1043009--1043099	33	2.7	33	91	1	146	39	25	12	23	1.89
1053469--1053570	50	2.0	50	100	0	204	27	19	13	39	1.90
1054149--1054188	21	1.9	21	89	0	62	42	10	10	37	1.72
1059177--1059240	23	2.8	23	85	0	101	31	26	26	15	1.96
1064292--1064334	20	2.2	20	87	4	61	48	2	2	46	1.27
1064364--1064496	30	4.6	29	68	16	96	50	1	0	48	1.10
1064400--1064466	34	2.0	34	82	11	84	47	0	0	52	1.00
1065657--1065701	21	2.1	21	87	0	63	31	28	24	15	1.96
1065726--1065789	22	2.9	22	95	0	110	25	32	29	12	1.92
1066307--1066341	18	1.9	18	88	11	54	54	5	17	22	1.64
1066398--1066441	22	2.0	22	86	4	63	45	0	22	31	1.53
1066990--1067034	23	2.0	23	82	8	56	20	22	28	28	1.98
1070168--1070212	21	2.1	21	87	0	63	31	28	24	15	1.96
1070796--1070830	18	1.9	18	88	11	54	54	5	17	22	1.64
1070887--1070930	22	2.0	22	86	4	63	45	0	22	31	1.53
1071481--1071525	23	2.0	23	81	0	54	22	24	26	26	2.00
1072232--1072302	36	2.0	36	97	2	135	33	2	19	43	1.66
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1073559--1073641	43	1.9	44	92	2	141	50	15	7	26	1.70
1079608--1079655	18	2.7	18	87	3	71	35	8	27	29	1.86
1080010--1080616	262	2.4	245	82	12	711	40	18	12	28	1.87
1085220--1085282	29	2.2	29	85	5	83	44	12	3	39	1.59
1086548--1086681	60	2.2	60	84	2	171	35	13	14	36	1.85
1086691--1086737	21	2.2	22	80	7	60	36	0	4	59	1.17
1091469--1091667	56	3.6	56	77	6	188	28	16	13	41	1.86
1092489--1092546	29	2.0	29	100	0	116	48	6	6	37	1.57
1099842--1099960	62	1.9	63	82	5	152	36	20	20	23	1.95
1100305--1100373	30	2.3	30	87	5	95	40	4	24	30	1.74
1100584--1100697	23	5.0	23	93	0	174	21	27	25	25	2.00
1112486--1112558	24	3.2	24	63	21	66	41	0	28	30	1.57
1112478--1112566	44	2.0	44	100	0	178	35	0	32	31	1.58
1113035--1113089	21	2.6	21	94	0	101	27	25	27	20	1.99
1116141--1116282	63	2.2	64	82	5	162	34	20	19	25	1.96
1116163--1116282	63	1.9	64	84	5	163	35	20	20	23	1.96
1116917--1116998	23	3.6	23	85	5	112	19	26	24	29	1.98
1119705--1119749	22	2.0	22	91	0	72	24	22	28	24	1.99
1119714--1119785	37	1.9	37	94	0	126	23	20	27	27	1.99
1127033--1127083	20	2.5	20	87	6	68	29	31	15	23	1.95
1135276--1135325	23	2.3	23	82	6	59	20	38	22	20	1.94
1136024--1136063	21	1.9	21	84	0	53	37	32	0	30	1.58
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1137305--1137338	16	2.0	18	88	11	54	26	0	20	52	1.46
1139895--1139920	12	2.2	12	100	0	52	53	0	7	38	1.30
1144114--1144188	19	3.9	19	92	0	123	32	25	16	26	1.96
1144214--1144387	20	8.6	20	71	12	131	32	25	17	24	1.97
1144314--1144409	41	2.3	41	85	3	131	34	23	15	26	1.95
1144253--1144387	61	2.2	61	90	2	209	31	27	17	23	1.96
1144553--1144599	22	2.1	22	100	0	94	23	44	12	19	1.85
1144978--1145094	20	6.2	20	70	11	68	20	18	21	39	1.93
1144977--1145116	73	1.9	73	85	2	192	23	17	19	40	1.91
1147077--1147184	20	5.8	19	73	18	75	42	20	18	18	1.89
1147195--1147231	19	1.9	19	94	0	65	5	16	27	51	1.66
1147196--1147275	33	2.4	33	87	0	106	10	20	22	47	1.79
1147191--1147262	19	4.0	18	70	18	53	9	16	22	51	1.73
1147822--1147921	21	4.8	21	72	4	67	23	32	18	27	1.97
1147831--1147931	42	2.4	42	83	0	112	22	36	15	24	1.94
1149476--1149529	20	2.7	20	82	5	65	42	24	18	14	1.88
1149538--1149674	34	3.9	34	75	16	116	21	18	23	35	1.96
1149572--1149710	20	7.2	20	77	9	146	25	19	22	32	1.97
1149628--1149654	14	1.9	14	100	0	54	7	14	29	48	1.71
1149532--1149710	74	2.4	74	87	1	252	24	18	21	34	1.96
1149646--1149722	40	1.9	40	89	0	118	31	18	18	32	1.95
1152072--1152108	14	2.6	14	91	4	56	5	21	21	51	1.68
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1152292--1152345	24	2.2	24	93	0	90	40	20	18	20	1.91
1153180--1153255	21	3.7	21	82	7	93	21	18	25	35	1.95
1153243--1153289	20	2.2	20	85	7	58	21	23	19	36	1.95
1153370--1153415	19	2.4	19	85	3	56	21	17	30	30	1.96
1153381--1153417	19	1.9	19	94	0	65	21	16	29	32	1.95
1155628--1155679	15	3.5	15	86	0	77	9	15	67	7	1.41
1158379--1158404	13	2.0	13	100	0	52	23	15	0	61	1.33
1161353--1161383	7	4.4	7	100	0	62	25	29	29	16	1.96
1161380--1161459	5	14.8	5	75	14	70	8	22	50	18	1.74
1161373--1161459	22	4.0	22	96	0	165	10	22	48	18	1.78

Tables:   1   2   3   4   5   6   7   8   9