genome.fa.s389.2.7.7.80.10.50.1000.8.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: VEPZ01000389.1 Hibiscus syriacus cultivar Beakdansim tig00000715_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2672246

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

This is table  8  of  15  ( 1688 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)
1040008--1040079	22	3.7	22	66	28	63	31	0	8	59	1.27
1039993--1040056	9	7.1	9	72	19	53	29	0	3	67	1.06
1046124--1046155	13	2.5	13	100	0	64	0	46	12	40	1.42
1047112--1047141	15	2.0	15	100	0	60	66	0	0	33	0.92
1047145--1047189	24	1.9	24	82	13	58	55	8	0	35	1.31
1047219--1047380	66	2.5	65	81	14	192	42	6	6	44	1.56
1047219--1047390	33	5.2	32	78	15	165	41	6	5	45	1.53
1047319--1047343	12	2.1	12	100	0	50	40	8	8	44	1.63
1048109--1048475	82	4.4	84	79	7	401	23	21	26	27	1.99
1048075--1048451	161	2.3	164	87	5	521	23	21	27	28	1.99
1053537--1053592	27	2.1	26	80	9	60	71	0	5	23	1.06
1054895--1054925	3	10.3	3	100	0	62	67	0	0	32	0.91
1054986--1055175	71	2.7	73	83	9	218	44	7	5	42	1.56
1055073--1055097	11	2.3	11	100	0	50	44	8	8	40	1.63
1055110--1055134	12	2.1	12	100	0	50	40	8	8	44	1.63
1055005--1055200	108	1.8	105	84	5	268	41	6	5	45	1.53
1055003--1055175	34	4.9	34	77	16	176	43	6	5	43	1.55
1055255--1055301	18	2.6	18	83	6	60	38	0	12	48	1.41
1059760--1059786	2	13.5	2	100	0	54	51	0	0	48	1.00
1061691--1061801	30	3.5	30	69	17	98	38	15	17	28	1.90
1061654--1061980	133	2.5	133	92	1	521	38	15	17	27	1.91
1061654--1061980	66	4.9	67	88	3	471	38	15	17	27	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1061920--1062009	37	2.5	36	81	1	99	41	18	15	24	1.90
1061879--1062185	103	3.0	102	77	8	316	39	14	16	28	1.88
1061923--1062185	104	2.6	101	79	7	287	39	15	16	28	1.89
1063927--1063997	18	3.9	18	98	0	124	16	22	36	23	1.94
1065341--1065392	22	2.4	22	87	9	72	50	36	7	5	1.55
1065777--1065913	21	6.6	21	83	9	174	30	26	21	21	1.98
1065928--1065975	21	2.3	21	100	0	96	18	18	33	29	1.95
1066769--1066988	21	10.6	21	82	11	258	30	26	20	22	1.98
1066769--1066968	83	2.4	83	96	0	364	32	26	20	22	1.98
1066810--1067030	104	2.1	105	89	4	340	28	25	20	25	1.99
1066978--1067050	20	3.6	20	79	17	96	23	21	19	35	1.96
1066971--1067098	41	3.1	41	94	3	213	24	22	21	32	1.98
1066784--1067098	21	15.2	21	79	15	216	28	24	20	26	1.99
1066997--1067112	21	5.6	21	77	16	116	22	22	24	31	1.99
1067789--1067826	10	3.8	10	83	10	51	81	5	2	10	0.94
1068165--1068235	21	3.2	22	67	21	67	30	7	2	59	1.39
1068152--1068244	44	2.1	44	100	0	186	31	7	4	56	1.46
1068687--1068716	2	15.0	2	100	0	60	50	0	0	50	1.00
1071336--1071387	24	2.1	25	82	10	63	40	3	5	50	1.45
1071451--1071504	28	2.0	28	92	3	92	33	0	3	62	1.12
1071464--1071505	14	3.0	14	76	10	50	28	0	4	66	1.12
1071448--1071508	27	2.3	25	84	13	86	34	0	3	62	1.12
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1073976--1074034	29	2.0	29	83	6	75	47	3	0	49	1.18
1076210--1076270	24	2.5	24	94	0	113	18	42	11	27	1.84
1089260--1089342	41	2.0	41	85	0	112	36	7	10	45	1.67
1099185--1099225	16	2.5	17	88	8	66	14	17	26	41	1.88
1099319--1099380	25	2.4	25	94	2	106	46	4	9	38	1.58
1100218--1100261	20	2.3	19	85	11	63	20	25	9	45	1.80
1100224--1100261	20	1.9	20	94	0	67	21	23	10	44	1.83
1103040--1103081	18	2.3	19	80	12	52	54	2	2	40	1.26
1103203--1103286	40	2.1	41	84	4	109	45	26	4	23	1.73
1103200--1103287	39	2.3	37	79	11	95	43	25	4	27	1.74
1104908--1104971	32	2.0	31	88	8	94	39	0	0	60	0.97
1104908--1104971	31	2.0	30	91	8	101	39	0	0	60	0.97
1104928--1105014	18	5.0	18	69	17	51	36	1	1	60	1.11
1105124--1105177	17	3.2	17	72	0	54	31	0	3	64	1.11
1106708--1106747	21	1.9	21	84	0	53	25	35	12	27	1.92
1106729--1106846	42	2.8	42	82	7	141	20	33	23	22	1.97
1106753--1106846	21	4.5	21	89	5	136	19	34	26	20	1.96
1107369--1107452	39	2.1	39	91	2	132	59	3	0	36	1.15
1107397--1107471	33	2.2	34	85	2	98	57	2	2	37	1.27
1107587--1107616	14	2.1	14	93	0	51	60	10	0	30	1.30
1107871--1108878	128	7.9	128	94	1	1717	31	20	25	23	1.98
1107871--1108871	254	3.9	256	95	1	1755	31	20	25	22	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1108949--1108989	8	5.2	8	82	5	57	36	29	0	34	1.58
1113263--1113319	16	3.5	16	83	9	71	38	0	3	57	1.16
1113263--1113306	17	2.7	16	89	6	70	38	0	2	59	1.10
1115383--1115413	12	2.6	12	89	0	53	35	22	32	9	1.87
1122557--1122619	31	2.0	31	90	0	99	26	33	9	30	1.88
1132673--1132702	7	4.3	7	100	0	60	53	0	46	0	1.00
1138385--1138539	76	2.0	77	81	3	179	23	25	20	31	1.98
1146125--1146195	21	3.3	22	70	20	60	30	23	18	26	1.97
1146134--1146233	21	4.7	21	71	11	78	31	27	18	24	1.97
1146129--1146233	43	2.5	43	78	4	106	30	26	18	24	1.98
1146302--1146386	41	2.1	41	100	0	170	30	16	9	43	1.79
1146792--1146934	54	2.6	54	91	2	234	30	23	18	27	1.98
1151417--1151554	73	1.9	73	92	0	231	26	16	22	34	1.95
1152699--1152734	2	18.0	2	100	0	72	50	0	0	50	1.00
1153138--1153209	21	3.4	22	70	12	69	30	23	18	27	1.97
1153147--1153246	21	4.7	22	73	18	79	32	29	17	22	1.96
1153380--1153426	21	2.3	20	85	3	58	36	17	6	40	1.75
1153751--1153893	54	2.6	54	91	2	234	30	23	18	27	1.98
1154750--1154782	17	1.9	17	93	0	57	48	18	6	27	1.71
1156599--1156637	19	2.1	19	85	9	53	12	17	0	69	1.19
1157485--1157524	22	1.9	21	85	10	55	52	0	0	47	1.00
1158314--1158340	2	13.5	2	100	0	54	0	48	0	51	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1167899--1168131	83	2.8	81	78	6	236	28	15	21	34	1.94
1171352--1171684	43	7.8	42	80	3	317	27	21	18	32	1.97
1183342--1183406	23	2.9	22	84	8	78	10	7	4	76	1.13
1183345--1183397	22	2.4	22	87	9	72	9	7	5	77	1.12
1183477--1183508	15	2.0	17	88	11	50	50	6	12	31	1.65
1186224--1186278	25	2.2	25	84	12	69	10	14	32	41	1.81
1186404--1186444	17	2.7	14	80	20	55	46	34	14	4	1.66
1196897--1196975	31	2.5	31	95	0	140	31	17	12	37	1.88
1197211--1197344	59	2.2	60	80	10	150	30	18	15	35	1.92
1197823--1197877	22	2.5	22	96	0	101	21	43	16	18	1.88
1198251--1198288	20	1.9	20	88	0	58	15	13	21	50	1.78
1199709--1199807	42	2.4	42	82	3	119	28	32	18	21	1.96
1200188--1200229	12	3.5	12	83	6	50	23	0	7	69	1.13
1200378--1200413	19	1.9	19	94	5	65	22	36	16	25	1.94
1200376--1200446	21	3.5	21	77	11	76	23	35	21	19	1.96
1201948--1201994	20	2.3	21	71	10	53	38	19	23	19	1.93
1203882--1203931	2	25.0	2	95	0	91	50	2	0	48	1.12
1204202--1204330	30	4.3	30	96	1	224	29	25	23	21	1.99
1204202--1204420	30	7.2	30	84	6	147	31	23	21	23	1.98
1204202--1204355	60	2.6	60	88	2	220	30	25	22	20	1.98
1204313--1204441	63	2.1	61	87	7	188	32	20	20	27	1.97
1204316--1204443	31	4.1	31	80	9	152	33	21	18	26	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1205138--1205179	22	2.0	22	85	4	59	33	23	0	42	1.55
1205629--1205673	21	2.1	21	83	0	54	13	24	31	31	1.93
1208485--1208533	2	24.5	2	100	0	98	51	0	0	48	1.00
1208815--1208943	30	4.3	30	95	1	215	30	25	22	21	1.99
1208815--1209001	30	6.2	30	86	3	126	31	24	20	23	1.98
1208815--1208965	60	2.5	60	86	2	205	31	25	22	21	1.98
1208929--1209056	31	4.1	31	76	7	125	33	20	19	26	1.96
1209750--1209791	22	2.0	22	85	4	59	33	26	0	40	1.56
1210241--1210285	21	2.1	21	83	0	54	13	24	31	31	1.93
1213167--1213219	20	2.6	21	82	5	65	30	11	26	32	1.91

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