genome.fa.s9247.2.7.7.80.10.50.1000.6.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: VEPZ01009247.1 Hibiscus syriacus cultivar Beakdansim tig00112888_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1479039

Tables:   1   2   3   4   5   6   7   8   

This is table  6  of  8  ( 948 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)
933416--933537	45	2.7	45	69	14	106	50	1	4	44	1.31
933581--933626	22	2.1	22	88	8	67	67	4	0	28	1.10
934983--935061	3	27.3	3	73	16	69	65	0	2	31	1.06
934983--935064	17	4.8	17	75	23	66	65	0	2	31	1.05
939059--939122	29	2.2	30	85	2	85	54	4	1	39	1.31
939960--940547	253	2.3	253	90	2	903	23	12	28	36	1.91
941091--941133	18	2.5	17	88	7	61	27	27	4	39	1.76
943880--943994	60	1.9	60	84	7	153	33	22	4	39	1.74
945474--945516	22	2.0	22	86	4	61	32	0	2	65	1.06
955589--955789	41	4.8	41	76	8	190	31	21	17	28	1.97
959053--959446	185	2.1	186	90	6	620	47	7	3	41	1.49
962524--962752	126	1.8	125	85	1	325	38	13	14	33	1.85
965985--966025	3	13.7	3	85	10	57	31	2	0	65	1.05
966466--966993	145	3.6	143	79	6	483	31	22	24	21	1.98
974233--974304	32	2.2	32	85	0	90	36	8	23	31	1.85
974246--974307	32	1.9	32	93	0	106	30	8	25	35	1.85
974583--974706	43	2.9	42	80	4	140	30	29	19	20	1.97
974918--975041	43	2.9	43	83	0	158	30	28	18	22	1.97
974468--975225	335	2.3	335	94	0	1354	33	24	18	23	1.97
975471--975584	42	2.7	41	76	2	111	26	21	20	31	1.98
975679--976202	134	3.9	134	90	2	786	30	22	17	28	1.97
976871--977407	145	3.7	145	78	4	417	32	21	23	21	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
982500--982525	2	13.0	2	100	0	52	50	0	0	50	1.00
984773--984808	19	1.9	19	88	5	56	25	22	0	52	1.47
989739--990174	59	7.4	58	76	5	280	36	10	22	30	1.87
989746--990110	118	3.1	118	90	2	529	36	10	22	30	1.87
990302--990411	44	2.5	44	86	4	141	38	5	21	34	1.77
994837--994895	20	3.0	20	87	0	82	23	28	30	16	1.97
995889--995961	30	2.4	30	93	0	119	31	24	19	24	1.98
995889--995988	30	3.3	30	85	1	83	33	25	19	23	1.97
996789--996838	19	2.6	19	100	0	100	22	32	16	30	1.95
1003286--1003329	22	2.0	22	86	0	61	59	0	4	36	1.18
1003309--1003347	17	2.3	17	86	8	53	66	0	7	25	1.18
1008641--1008893	126	2.0	127	92	1	427	41	12	14	31	1.82
1011164--1011244	37	2.1	39	82	8	96	44	2	2	50	1.28
1011396--1011438	20	2.3	19	80	11	52	23	27	6	41	1.80
1018579--1018631	21	2.5	21	87	0	70	39	26	11	22	1.88
1024846--1024886	17	2.4	17	95	0	73	51	9	0	39	1.35
1033510--1033555	19	2.4	19	100	0	92	52	13	6	28	1.65
1038781--1038828	25	1.9	25	91	0	78	20	22	29	27	1.99
1039934--1039967	13	2.8	12	82	8	50	38	26	0	35	1.57
1040778--1040830	25	2.1	25	96	0	97	41	26	0	32	1.56
1043285--1043353	18	3.7	18	72	14	68	28	31	21	17	1.96
1046973--1047029	20	2.8	20	97	0	105	28	15	19	36	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1048519--1048622	31	3.4	30	87	11	140	36	19	18	25	1.94
1048694--1048753	21	2.9	21	97	0	111	43	20	3	33	1.68
1050830--1050868	18	2.2	18	86	9	53	33	12	5	48	1.63
1058944--1058983	21	1.9	21	89	0	62	25	40	25	10	1.86
1062398--1062483	31	2.8	31	87	0	118	38	18	15	27	1.91
1062559--1062616	21	2.8	21	97	0	107	44	18	3	32	1.67
1069089--1069121	3	11.3	3	87	6	50	39	0	27	33	1.57
1072562--1072590	2	14.5	2	100	0	58	51	0	0	48	1.00
1075314--1075595	41	6.9	41	66	14	132	30	18	20	30	1.96
1079089--1079135	3	16.0	3	79	20	55	34	0	0	65	0.93
1079093--1079135	20	2.2	19	88	12	61	32	0	0	67	0.91
1079089--1079135	17	2.8	18	84	12	64	34	0	0	65	0.93
1079185--1079255	33	2.2	33	94	0	124	42	18	9	29	1.82
1079554--1079616	26	2.4	25	77	12	65	23	6	0	69	1.11
1079633--1079689	25	2.2	26	84	6	71	36	1	0	61	1.07
1079649--1079687	14	2.9	14	82	17	55	35	0	0	64	0.94
1083396--1083816	110	3.9	110	90	3	611	34	22	18	24	1.96
1083939--1084217	84	3.4	83	76	6	287	30	23	20	25	1.99
1084217--1084672	84	5.5	83	75	5	343	31	24	18	25	1.97
1084014--1084404	204	1.9	204	95	0	701	31	23	19	25	1.98
1084361--1084676	165	1.9	164	84	1	418	31	25	19	24	1.98
1084998--1085048	5	10.4	5	85	12	54	35	0	0	64	0.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1084998--1085057	10	5.4	12	74	25	53	36	0	0	63	0.95
1084999--1085070	33	2.2	34	80	16	89	33	0	0	66	0.92
1084999--1085076	31	2.5	31	77	18	83	32	0	0	67	0.90
1085456--1085524	26	2.6	26	76	14	70	21	7	0	71	1.10
1085522--1085573	25	2.1	25	82	13	63	26	3	1	67	1.18
1085555--1085593	14	2.9	14	82	17	55	35	0	0	64	0.94
1086708--1086820	43	2.7	43	83	1	129	29	22	15	32	1.95
1088056--1088100	21	2.1	21	100	0	90	28	8	13	48	1.72
1089020--1089054	18	1.9	18	100	0	70	17	11	45	25	1.81
1090789--1090860	3	24.0	3	81	0	72	43	0	1	55	1.08
1090789--1090864	24	3.0	24	84	9	98	44	0	1	53	1.08
1090790--1090864	27	3.0	25	79	9	89	45	0	1	53	1.08
1090984--1091029	19	2.4	19	88	0	65	15	45	19	19	1.85
1102253--1102328	40	1.9	40	91	0	125	31	14	23	30	1.94
1102719--1102773	22	2.5	22	90	0	92	34	12	14	38	1.84
1103175--1103857	114	6.0	113	90	4	1041	37	14	19	28	1.91
1103203--1103861	234	2.9	229	93	3	1139	37	14	19	28	1.91
1104187--1104258	3	24.0	3	82	0	90	41	0	0	58	0.98
1104187--1104253	24	2.8	24	93	0	116	41	0	0	58	0.98
1104201--1104280	9	9.1	9	77	13	60	47	1	0	51	1.08
1104382--1104427	19	2.4	19	88	0	65	15	45	19	19	1.85
1108877--1108903	14	1.9	14	100	0	54	37	7	0	55	1.28
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1122421--1122454	14	2.4	14	100	0	68	58	0	0	41	0.98
1125390--1125420	15	2.1	15	100	0	62	16	6	6	70	1.29
1132054--1132096	16	2.7	16	92	0	68	48	4	2	44	1.36
1135499--1135534	2	18.0	2	100	0	72	50	0	0	50	1.00
1135794--1135837	21	2.0	21	87	12	63	75	2	11	11	1.15
1135792--1135841	20	2.5	19	77	22	50	76	2	12	10	1.11
1135820--1135869	17	2.8	18	80	17	59	78	0	14	8	0.97
1135778--1135888	29	3.9	27	73	17	91	76	3	13	6	1.11
1135792--1135884	16	5.2	17	70	22	57	77	1	13	7	1.03
1135844--1135889	17	2.9	16	87	6	58	78	0	19	2	0.86
1137528--1140692	4	805.8	4	93	5	5381	49	24	0	25	1.54
1141712--1142506	139	5.8	139	79	6	721	35	17	20	26	1.95
1142496--1142612	42	2.8	41	83	10	134	32	23	15	29	1.95
1142800--1142876	3	24.3	3	76	10	73	33	2	1	62	1.17
1142800--1142844	19	2.4	19	88	0	63	33	0	2	64	1.06
1146453--1146478	2	13.0	2	100	0	52	50	0	0	50	1.00
1150996--1151056	24	2.5	24	94	0	104	22	18	22	36	1.95
1157525--1157765	76	3.2	71	63	27	168	54	6	9	30	1.56
1157467--1157783	158	2.0	159	99	0	627	53	6	10	30	1.59
1159833--1159892	12	5.3	12	73	15	65	3	38	10	48	1.53
1159827--1159885	10	5.5	10	73	15	55	5	37	8	49	1.55
1159819--1159891	22	3.3	22	98	0	137	4	39	9	46	1.56
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1160317--1160369	18	2.9	18	83	5	54	26	28	20	24	1.99
1161464--1161500	20	1.9	20	88	5	58	43	8	5	43	1.57
1171004--1171056	21	2.5	21	84	9	63	54	30	1	13	1.49
1172923--1173005	21	3.9	21	82	6	94	16	27	32	22	1.96
1177561--1177635	23	3.2	22	75	17	55	53	18	0	28	1.45
1177638--1177680	22	2.0	22	100	0	86	51	13	0	34	1.42
1177640--1177688	22	2.2	22	88	3	71	55	14	0	30	1.40
1177588--1178025	54	8.1	54	80	11	427	52	13	0	34	1.43
1177643--1177792	80	1.9	80	97	0	282	52	15	0	32	1.43
1177694--1177768	22	3.2	23	71	17	73	54	16	0	29	1.42

Tables:   1   2   3   4   5   6   7   8