genome.fa.s9067.2.7.7.80.10.50.1000.5.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: VEPZ01009067.1 Hibiscus syriacus cultivar Beakdansim tig00112491_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2329927

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

This is table  5  of  10  ( 1150 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)
944520--944763	29	8.1	29	73	15	147	36	6	0	55	1.32
944695--944750	28	2.0	28	85	0	76	42	3	0	53	1.18
944763--945277	173	2.9	180	93	5	899	50	1	4	43	1.31
944996--945046	25	2.0	27	84	7	70	58	0	5	35	1.22
945385--945460	30	2.6	30	87	2	118	65	1	5	27	1.22
951241--951427	39	4.8	39	92	0	302	35	17	0	47	1.48
951241--951424	78	2.4	78	97	0	341	35	17	0	46	1.48
951645--951947	151	2.0	152	96	1	556	33	8	13	44	1.74
955395--955458	26	2.4	26	82	10	67	26	23	20	29	1.99
960807--960894	45	2.0	45	84	4	115	27	23	18	30	1.97
960806--960905	45	2.2	45	78	15	109	27	22	18	33	1.96
961000--961049	21	2.4	21	93	0	82	26	24	26	24	2.00
961288--962061	389	2.0	391	87	6	1124	28	15	18	37	1.92
962061--962196	18	7.1	18	70	17	87	48	5	2	43	1.40
962086--962261	13	12.8	13	67	16	72	46	5	5	42	1.49
962138--962204	18	3.8	17	80	9	71	49	4	1	44	1.31
962063--962241	96	1.9	96	91	3	297	46	5	4	43	1.45
962234--962383	70	2.1	70	91	1	237	47	2	5	44	1.40
962533--962594	7	9.0	7	76	3	54	22	0	30	46	1.52
962824--962894	20	3.7	19	72	16	58	26	29	1	42	1.64
962969--963010	2	21.5	2	86	13	61	50	0	2	47	1.14
963442--963473	2	16.0	2	100	0	64	50	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
964104--964150	14	3.7	14	71	26	50	51	4	0	44	1.21
964102--964151	23	2.1	24	96	3	93	48	4	0	48	1.20
964190--964216	13	2.1	13	100	0	54	44	0	0	55	0.99
964402--964452	16	3.2	16	94	0	93	39	13	21	25	1.90
965069--965154	15	5.5	15	73	9	66	46	18	31	3	1.66
968461--968523	32	2.0	32	96	0	117	49	4	6	39	1.49
970335--970391	22	2.4	23	77	11	62	36	1	26	35	1.67
970493--970534	17	2.4	18	88	4	59	19	16	33	30	1.94
971879--971923	21	2.1	21	83	0	54	22	26	17	33	1.96
971913--972070	20	7.9	20	84	2	183	36	20	20	22	1.95
971913--972091	40	4.5	40	83	4	209	35	20	20	24	1.96
972065--972135	20	3.5	20	80	3	81	25	18	19	36	1.94
971913--972070	60	2.6	60	86	4	228	36	20	20	22	1.95
972993--973046	24	2.2	24	90	0	81	24	14	18	42	1.88
975517--975580	14	4.2	14	74	18	56	43	20	23	12	1.85
975610--975650	19	2.2	19	100	0	82	9	14	24	51	1.72
975620--975713	33	2.8	33	87	3	127	13	20	20	45	1.84
975820--975856	14	2.6	14	91	0	65	45	21	0	32	1.52
977190--977256	21	3.2	21	68	4	55	19	20	35	23	1.95
977190--977312	42	2.9	41	79	7	113	22	18	36	21	1.95
979501--979592	19	4.7	19	78	15	84	11	19	19	48	1.79
979501--979590	39	2.3	39	86	7	121	12	20	20	47	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
979505--979593	20	4.6	19	79	9	99	12	17	20	49	1.79
980150--980296	20	7.3	20	78	11	133	20	17	24	37	1.94
980148--980296	40	3.7	40	85	2	183	20	18	24	36	1.94
980293--980337	20	2.2	21	88	4	65	37	17	26	17	1.93
984339--984573	21	11.3	20	75	13	183	21	20	24	34	1.96
984323--984577	42	6.2	42	86	6	335	21	19	23	35	1.96
985408--985674	21	12.8	21	75	11	128	35	25	16	21	1.94
985458--985584	61	2.0	62	90	3	202	38	23	16	21	1.93
985405--985668	42	6.4	39	72	16	158	35	25	16	22	1.95
985925--985976	27	1.9	27	84	0	68	59	0	3	36	1.16
986152--986201	17	3.0	17	91	5	84	40	22	8	30	1.82
986155--986207	16	3.2	16	91	2	79	37	18	11	32	1.87
986792--987149	179	2.0	179	100	0	716	22	24	26	27	2.00
987179--987269	21	4.4	21	76	5	105	30	24	23	21	1.99
987172--987342	40	4.3	40	73	12	122	35	20	21	22	1.96
987245--987312	35	1.9	35	84	0	91	38	16	20	25	1.92
987172--987333	21	8.3	19	71	14	80	35	19	22	22	1.96
999296--999363	33	2.1	33	89	5	104	45	7	0	47	1.31
999294--999369	33	2.4	30	83	10	98	42	6	1	50	1.37
999411--999478	29	2.4	28	82	2	82	41	8	2	47	1.50
999291--999574	30	9.4	31	73	13	127	40	7	2	50	1.43
999504--999574	32	2.3	31	90	4	108	43	4	1	50	1.30
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
999671--999779	27	3.7	29	77	10	98	55	1	6	36	1.37
999671--999831	56	2.9	54	81	10	171	54	1	5	38	1.35
999765--999807	21	2.0	21	86	8	61	55	2	0	41	1.12
1030404--1030446	18	2.3	18	88	4	59	41	16	34	6	1.75
1031435--1031524	24	3.7	24	72	22	71	60	5	0	34	1.20
1031419--1031513	43	2.2	44	86	5	131	60	6	0	33	1.22
1031413--1031485	19	3.6	19	70	25	60	58	6	0	34	1.24
1031706--1031753	14	3.7	14	73	21	59	14	14	14	56	1.68
1031706--1031752	24	2.0	24	95	0	85	14	14	12	57	1.66
1032016--1032069	10	5.1	10	78	12	63	9	9	20	61	1.54
1032016--1032069	23	2.5	20	88	8	72	9	9	20	61	1.54
1042878--1042920	17	2.4	18	80	7	52	34	0	0	65	0.93
1044394--1044458	22	3.0	22	65	17	55	27	6	13	52	1.64
1044376--1044468	42	2.2	43	88	1	134	31	4	13	50	1.61
1046347--1046423	23	3.4	21	75	20	66	50	2	1	45	1.23
1049785--1049828	20	2.1	20	83	8	52	45	2	11	40	1.53
1049788--1049868	36	2.3	35	85	10	121	46	3	12	37	1.59
1052622--1052689	22	3.0	22	93	2	118	26	26	26	20	1.99
1052909--1052968	30	2.0	31	90	3	95	33	23	6	36	1.81
1052983--1053054	29	2.5	29	93	0	117	38	12	9	38	1.76
1053357--1053530	67	2.6	66	85	5	206	17	27	27	28	1.98
1060735--1060776	20	2.1	20	86	0	57	69	0	2	28	1.01
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1070567--1070621	24	2.3	24	84	6	67	45	0	1	52	1.11
1071084--1071138	20	2.8	20	97	0	101	38	5	25	30	1.79
1074444--1074501	15	3.6	16	82	13	66	75	0	0	24	0.80
1074674--1074739	2	33.5	2	96	3	125	51	0	0	48	1.00
1074716--1074820	46	2.4	42	80	15	99	61	3	2	31	1.28
1074744--1074808	15	4.1	18	73	26	58	64	3	4	27	1.28
1074770--1074808	12	3.4	11	82	10	51	66	2	5	25	1.25
1075166--1075270	37	2.8	37	83	0	129	29	13	14	42	1.83
1075813--1076976	106	11.0	106	93	0	1908	22	18	25	33	1.96
1077176--1077251	36	2.1	36	85	0	98	39	14	22	23	1.91
1077151--1077468	104	3.1	103	91	3	482	36	11	20	31	1.88
1077370--1077534	90	1.8	89	93	1	285	38	12	21	27	1.89
1077585--1077699	36	3.2	36	75	2	124	46	13	14	25	1.82
1077554--1077714	72	2.2	74	85	8	213	41	12	18	27	1.86
1078783--1079002	64	3.5	64	83	4	241	33	18	19	28	1.95
1079682--1079740	30	2.0	30	82	0	73	20	20	23	35	1.96
1079746--1079836	15	6.1	15	96	0	164	13	24	34	28	1.93
1083335--1083559	64	3.5	64	82	8	248	32	19	19	28	1.96
1084298--1084398	15	6.7	15	95	0	184	12	24	33	28	1.92
1086018--1086553	183	2.9	183	93	0	914	31	20	20	27	1.97
1091140--1091231	47	2.0	47	80	6	107	59	1	6	32	1.30
1091256--1091291	18	2.1	18	89	5	56	66	2	5	25	1.27
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1098425--1098468	3	14.7	3	95	0	70	68	4	0	27	1.09
1099714--1099768	21	2.6	22	77	8	60	72	0	5	21	1.04
1099705--1099777	39	1.9	36	83	8	92	75	0	5	19	0.99
1099861--1100144	34	8.1	33	75	19	204	43	7	3	45	1.50
1099856--1100070	102	2.1	104	80	10	259	44	7	3	44	1.50
1099861--1100152	36	8.2	37	76	12	222	43	7	3	45	1.49
1100741--1102126	248	5.6	247	83	4	1660	25	18	24	31	1.98
1100741--1102124	331	4.2	330	86	3	1764	25	18	24	31	1.98
1100741--1102126	84	16.7	84	84	3	1680	25	18	24	31	1.98
1102569--1102616	21	2.3	21	100	0	96	29	18	25	27	1.98

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