genome.fa.s7744.2.7.7.80.10.50.1000.5.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: VEPZ01007744.1 Hibiscus syriacus cultivar Beakdansim tig00110007_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  4276731

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   

This is table  5  of  16  ( 1862 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)
1079214--1079289	27	2.8	26	78	11	82	34	10	1	53	1.43
1079397--1079439	22	2.0	21	90	4	68	37	4	0	58	1.19
1079266--1079596	133	2.5	136	78	13	348	37	9	2	51	1.46
1079398--1079600	27	7.9	27	66	23	91	38	8	1	51	1.44
1079437--1079517	29	2.8	29	76	12	78	39	14	1	44	1.54
1079539--1079600	2	31.0	2	78	12	65	41	3	1	53	1.27
1079541--1079675	27	4.9	27	75	13	105	40	5	2	51	1.39
1079624--1079716	20	4.7	20	71	12	75	46	3	4	46	1.38
1079687--1079735	17	2.7	18	84	9	55	48	4	2	44	1.33
1079764--1079816	22	2.5	21	84	9	63	47	5	1	45	1.37
1079863--1079932	2	34.0	2	80	11	70	44	2	4	48	1.37
1079847--1079912	20	3.2	20	77	8	69	39	4	7	48	1.52
1080096--1081157	2	535.0	2	62	22	155	41	5	3	49	1.42
1080082--1080133	25	2.2	25	86	6	72	40	3	0	55	1.18
1080130--1080262	59	2.2	60	77	15	143	38	5	3	53	1.39
1079949--1080476	8	65.2	8	68	20	162	37	5	2	53	1.38
1080002--1080316	116	2.6	115	76	14	280	37	5	2	54	1.36
1080019--1080315	76	3.9	75	74	17	197	37	5	2	54	1.36
1079948--1080661	22	29.5	24	67	21	197	37	6	2	53	1.41
1080473--1080512	17	2.3	18	86	4	55	32	10	5	52	1.56
1080706--1080792	11	8.3	10	68	21	54	48	3	2	45	1.32
1080759--1080973	75	2.8	76	79	9	211	44	5	4	46	1.46
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1080858--1081014	57	2.9	54	77	13	162	45	4	3	46	1.41
1083702--1084071	132	2.8	132	86	4	500	39	17	12	30	1.86
1086066--1086117	3	17.3	3	95	0	95	65	0	1	32	1.04
1086305--1086747	135	3.4	130	78	7	456	31	13	23	30	1.94
1087897--1087928	14	2.3	15	89	10	50	12	6	0	81	0.87
1087942--1088037	6	16.2	6	70	21	51	4	16	2	77	1.03
1087953--1088023	23	3.2	23	92	4	110	4	15	2	77	1.04
1087942--1088043	23	4.6	22	86	7	109	3	16	1	77	1.01
1087945--1088036	27	3.6	27	77	16	90	4	16	2	77	1.03
1087969--1088037	14	4.9	14	75	20	54	4	17	1	76	1.02
1094856--1094916	29	2.1	30	87	3	88	36	14	4	44	1.67
1100296--1100335	20	2.0	20	95	0	71	30	15	32	22	1.94
1101762--1101805	19	2.3	19	88	11	72	25	4	0	70	1.06
1101768--1101799	10	3.3	10	91	8	57	28	0	0	71	0.86
1114154--1114202	22	2.2	22	78	7	55	24	10	22	42	1.84
1115362--1115411	20	2.6	19	83	3	55	6	6	2	86	0.79
1115358--1115413	25	2.4	25	85	8	73	7	7	1	83	0.86
1115588--1115621	3	11.0	3	93	6	59	32	0	0	67	0.91
1122547--1122948	201	2.0	200	99	0	795	29	10	20	39	1.87
1124931--1124966	10	3.5	10	88	3	54	5	13	27	52	1.63
1125103--1125468	184	2.0	181	91	3	592	21	13	25	39	1.90
1126790--1126892	15	6.7	15	74	20	88	47	0	1	50	1.12
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1126790--1126941	67	2.3	68	81	10	183	44	0	5	50	1.24
1126883--1126981	22	5.4	18	65	31	52	35	0	13	51	1.41
1126850--1127088	52	4.6	52	76	21	229	34	0	13	52	1.41
1126835--1126928	22	4.3	22	72	4	82	39	0	8	52	1.32
1126985--1127071	31	2.8	32	86	8	128	32	0	13	54	1.40
1126913--1127150	108	2.2	110	88	8	366	32	0	15	51	1.46
1127133--1127171	21	2.0	21	90	10	64	35	0	15	48	1.45
1126913--1127350	184	2.4	180	85	11	586	33	0	14	52	1.44
1126958--1127272	108	2.9	107	82	9	331	33	0	13	52	1.44
1127149--1127255	32	3.7	32	72	23	126	36	0	11	52	1.37
1127170--1127250	18	4.5	18	67	22	62	35	0	11	53	1.37
1127181--1127223	22	2.0	22	95	0	77	37	0	11	51	1.39
1127099--1127272	54	3.3	54	95	3	302	35	0	12	51	1.43
1127203--1127350	80	1.9	78	92	2	251	33	0	14	52	1.41
1127315--1127357	21	2.1	21	91	4	70	37	0	13	48	1.43
1127380--1127436	30	1.9	30	88	0	87	43	8	7	40	1.63
1127974--1128094	39	3.1	38	61	13	93	22	12	24	40	1.88
1127972--1128123	78	1.9	78	100	0	304	20	11	24	43	1.85
1129038--1129068	3	10.3	3	100	0	62	64	0	0	35	0.94
1129318--1129410	38	2.4	38	98	0	177	19	23	11	45	1.83
1129394--1129621	105	2.2	105	88	4	334	23	20	15	39	1.91
1129562--1129622	20	3.3	20	67	21	60	26	21	11	40	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1129562--1129906	136	2.6	134	87	5	484	27	22	15	34	1.94
1129936--1130018	42	2.0	42	85	4	114	36	22	15	25	1.94
1130139--1131162	39	26.3	39	92	0	1645	35	15	19	30	1.92
1131588--1131676	44	2.0	44	97	0	169	10	30	10	49	1.69
1132661--1132738	40	2.0	40	97	0	147	30	12	17	38	1.88
1133023--1133050	14	2.0	14	100	0	56	71	7	7	14	1.29
1134926--1135089	63	2.6	63	86	1	213	41	15	19	23	1.89
1138367--1138406	2	20.0	2	100	0	80	50	0	0	50	1.00
1139475--1139503	2	14.5	2	100	0	58	48	0	0	51	1.00
1151225--1151312	8	10.1	8	73	19	61	77	1	10	11	1.05
1151249--1151291	20	2.2	20	91	4	70	83	0	6	9	0.80
1151223--1151309	28	3.2	28	88	7	119	78	1	10	10	1.03
1151224--1151310	45	2.0	44	86	6	122	78	1	9	11	1.03
1151223--1151312	9	10.2	9	77	13	89	76	1	11	11	1.07
1152325--1152618	117	2.6	112	85	7	375	39	14	21	24	1.91
1156918--1156951	3	11.3	3	100	0	68	64	0	0	35	0.94
1163767--1163845	7	11.3	7	73	0	59	24	0	29	46	1.53
1163773--1163845	21	3.5	21	77	15	71	24	0	28	46	1.53
1163766--1163841	28	2.7	28	81	4	82	26	0	27	46	1.53
1163952--1164014	11	5.9	11	73	14	60	39	1	1	57	1.18
1164878--1164919	19	2.2	19	95	0	75	21	11	9	57	1.63
1167015--1167060	20	2.3	20	96	0	83	43	13	26	17	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1169082--1169120	19	2.1	19	95	0	69	53	0	0	46	1.00
1169637--1169687	26	2.0	26	84	0	66	62	1	0	35	1.06
1170094--1170219	44	2.8	44	81	6	137	38	7	15	37	1.77
1170995--1171027	16	2.0	17	88	5	50	45	9	33	12	1.73
1174410--1174502	3	31.0	3	79	8	100	35	0	2	62	1.07
1175836--1175872	2	19.0	2	94	5	67	51	0	0	48	1.00
1175879--1176151	142	2.0	140	87	6	403	37	5	7	48	1.56
1181404--1181435	11	2.8	11	95	4	55	78	0	21	0	0.76
1181401--1181498	14	7.3	14	76	17	73	81	0	17	1	0.74
1181400--1181498	5	21.0	5	75	17	81	81	0	17	1	0.74
1181398--1181496	16	6.2	17	72	11	84	80	0	18	1	0.76
1181400--1181498	31	3.2	31	81	4	110	81	0	17	1	0.74
1183024--1183192	39	4.3	39	90	1	250	33	15	21	28	1.94
1183565--1183779	54	4.0	54	92	0	324	36	14	20	27	1.92
1184824--1184918	42	2.2	42	84	1	118	26	20	21	32	1.97
1184966--1185050	42	2.0	42	88	0	125	27	20	21	31	1.97
1184834--1185346	132	3.9	132	89	1	807	28	19	20	31	1.97
1184834--1185343	262	1.9	263	91	0	833	28	19	20	32	1.96
1185682--1185752	15	4.8	14	81	8	63	35	0	1	63	1.03
1185692--1185752	3	20.3	3	83	6	79	39	0	0	60	0.97
1185692--1185768	25	3.2	25	81	7	70	44	0	0	55	0.99
1190121--1190160	19	2.1	19	85	0	53	17	35	32	15	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1196615--1196664	21	2.3	23	86	6	68	66	4	8	22	1.35
1198431--1198464	15	2.3	15	94	0	59	29	0	8	61	1.26
1199497--1199596	45	2.3	44	85	3	130	37	23	5	35	1.76
1203610--1203755	38	3.9	37	85	9	190	43	3	6	46	1.45
1204704--1204764	4	16.0	4	80	19	53	22	4	0	72	1.04
1220085--1220174	39	2.3	39	80	3	101	18	25	22	33	1.97
1220109--1220210	39	2.6	39	83	6	109	17	23	22	36	1.95
1234363--1234400	3	13.0	3	94	5	69	34	0	0	65	0.93
1234820--1234987	39	4.3	39	85	0	210	15	29	24	30	1.96
1236136--1236175	21	1.9	21	84	0	53	37	25	15	22	1.93

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16