genome.fa.s8323.2.7.7.80.10.50.1000.6.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: VEPZ01008323.1 Hibiscus syriacus cultivar Beakdansim tig00111027_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  5101972

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   

This is table  6  of  26  ( 3017 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)
994774--994819	19	2.4	19	85	3	56	21	17	30	30	1.96
994785--994821	19	1.9	19	94	0	65	21	16	29	32	1.95
997176--997229	20	2.7	20	94	0	90	50	18	20	11	1.77
997220--997310	20	4.4	21	86	9	125	37	26	19	16	1.93
998176--998208	6	5.5	6	100	0	66	0	15	51	33	1.43
998319--998530	20	10.4	20	74	10	180	16	23	24	35	1.95
998319--998508	40	4.7	40	95	1	317	16	23	23	36	1.94
998521--998574	20	2.7	20	91	0	81	12	20	16	50	1.78
1006082--1006170	29	3.1	29	85	0	124	17	40	28	13	1.88
1006387--1006470	29	2.9	29	83	0	96	13	29	39	17	1.88
1008515--1008572	2	29.5	2	96	3	109	50	0	0	50	1.00
1009012--1009097	43	2.0	43	86	4	120	19	31	32	16	1.94
1012688--1012713	11	2.4	11	100	0	52	65	0	0	34	0.93
1012690--1012741	19	2.8	18	80	8	59	57	1	3	36	1.28
1013092--1013170	2	39.0	2	81	7	79	50	6	1	41	1.36
1013106--1013188	41	2.0	41	100	0	166	50	12	2	34	1.52
1013422--1013497	29	2.6	30	87	6	111	56	0	6	36	1.25
1013400--1013541	64	2.2	62	84	9	180	53	0	6	39	1.31
1013638--1013704	29	2.5	25	78	17	80	68	2	1	26	1.12
1013648--1013708	29	2.1	29	96	0	113	68	3	1	26	1.14
1015627--1015659	16	2.1	16	88	5	50	24	12	36	27	1.91
1015969--1016017	16	3.2	15	83	11	55	44	0	0	55	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1017326--1017356	14	2.3	13	94	5	53	48	0	0	51	1.00
1017321--1017366	14	3.6	13	80	11	51	47	0	0	52	1.00
1019382--1019498	60	1.9	59	80	10	130	41	1	3	52	1.28
1020102--1020127	2	13.0	2	100	0	52	50	0	0	50	1.00
1020170--1020258	43	2.0	44	97	2	171	51	4	11	32	1.57
1020170--1020239	24	3.1	24	64	19	69	50	4	12	32	1.60
1020285--1020318	2	17.5	2	93	6	61	50	0	0	50	1.00
1021119--1021150	2	16.0	2	100	0	64	50	0	0	50	1.00
1025161--1025239	40	2.0	40	97	0	149	30	24	13	31	1.94
1027755--1027803	2	24.5	2	100	0	98	51	0	0	48	1.00
1034295--1034328	18	1.9	18	88	5	52	8	44	11	35	1.72
1036612--1036654	17	2.5	17	96	0	77	39	20	18	20	1.93
1038055--1038095	21	2.0	21	85	9	57	43	4	19	31	1.72
1038280--1038337	21	2.8	21	83	0	80	27	18	29	24	1.98
1042006--1042053	25	1.9	25	83	8	62	62	2	2	33	1.18
1042186--1042274	20	4.6	19	79	6	81	35	21	14	28	1.93
1043174--1043220	24	2.0	24	91	0	76	29	21	14	34	1.93
1043300--1043849	273	2.0	276	97	1	1052	41	12	21	25	1.88
1046089--1046127	20	2.0	20	100	0	78	25	20	20	33	1.97
1046215--1046263	25	2.0	25	92	4	82	26	8	22	42	1.81
1046650--1046686	18	2.1	18	89	0	56	32	5	10	51	1.60
1046642--1046694	24	2.2	24	86	0	70	35	3	13	47	1.61
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1047329--1047469	61	2.2	63	83	8	171	50	17	1	31	1.54
1048883--1048936	21	2.6	21	82	11	74	24	14	33	27	1.94
1051554--1051598	20	2.2	20	96	0	81	15	15	24	44	1.85
1051590--1051635	21	2.2	21	92	0	74	34	17	26	21	1.95
1058831--1058883	21	2.5	21	84	0	70	20	26	18	33	1.96
1058873--1058986	20	5.7	20	87	2	156	35	20	21	22	1.96
1058873--1059006	40	3.3	40	87	3	171	34	20	20	23	1.97
1059181--1059242	22	3.0	21	72	18	58	25	37	16	20	1.93
1059569--1059637	20	3.5	20	88	2	104	11	15	23	49	1.77
1059602--1059645	20	2.2	20	87	0	61	13	13	20	52	1.74
1061491--1061633	20	7.5	20	83	10	192	39	21	19	19	1.93
1061491--1061633	39	3.7	37	84	11	157	39	21	19	19	1.93
1061491--1061671	93	2.0	92	91	1	290	39	20	20	18	1.93
1062151--1062231	21	3.9	21	73	0	72	22	35	18	23	1.95
1062153--1062235	42	2.0	42	83	4	105	21	38	18	21	1.93
1063680--1063881	20	10.9	19	75	14	127	15	22	19	42	1.89
1063680--1063786	19	5.8	19	79	12	134	15	21	15	46	1.83
1063791--1063879	40	2.2	40	94	4	153	16	22	25	34	1.95
1066306--1066359	24	2.2	24	93	0	90	40	20	18	20	1.91
1066306--1066373	24	2.8	24	84	0	64	38	20	17	23	1.93
1067205--1067320	20	5.8	20	86	2	105	25	20	18	35	1.96
1067215--1067320	40	2.7	40	94	2	160	24	19	18	36	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1067310--1067362	21	2.5	21	84	0	70	33	18	26	20	1.96
1073270--1073340	37	1.9	37	82	5	90	36	5	15	42	1.71
1080766--1080820	15	3.4	16	85	7	76	12	30	30	25	1.93
1080858--1080911	15	3.5	15	80	9	72	16	25	35	22	1.95
1086674--1086706	7	5.0	7	96	3	52	15	15	15	54	1.71
1086674--1086710	19	1.9	19	89	10	58	16	16	16	51	1.77
1089639--1089891	124	2.0	125	87	3	368	30	16	28	24	1.96
1091528--1092759	105	11.7	105	81	7	1282	34	18	24	22	1.96
1091529--1092751	579	2.1	584	90	1	1954	34	18	23	22	1.96
1091529--1092759	54	23.3	54	80	7	1285	34	18	24	22	1.96
1092746--1093114	109	3.4	109	89	3	530	33	15	21	28	1.94
1092746--1093114	55	6.7	55	89	3	525	33	15	21	28	1.94
1092746--1093114	164	2.2	164	87	4	539	33	15	21	28	1.94
1097891--1097950	23	2.7	22	84	5	75	23	21	30	25	1.99
1097874--1097950	22	3.6	22	80	11	81	20	22	31	25	1.98
1101540--1101573	17	2.1	16	88	5	50	76	0	8	14	1.01
1105385--1105440	19	2.9	19	76	12	60	69	0	14	16	1.19
1105397--1105439	20	2.2	20	87	4	61	72	0	9	18	1.11
1106246--1106291	21	2.4	18	80	19	65	26	23	23	26	2.00
1106251--1106300	21	2.4	21	100	0	100	28	24	26	22	1.99
1110378--1110411	17	2.1	16	88	5	50	76	0	8	14	1.01
1119122--1119255	60	2.2	60	78	5	146	34	15	15	34	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1126780--1126976	89	2.2	91	90	5	319	20	23	26	28	1.99
1136556--1136593	9	4.2	9	87	12	60	10	52	0	36	1.36
1137289--1137543	136	1.9	137	85	5	363	36	16	18	28	1.93
1138093--1138227	43	3.2	42	83	5	164	20	22	17	39	1.93
1139723--1139770	22	2.2	21	85	3	60	64	12	10	12	1.50
1141798--1141860	33	1.9	33	90	0	99	60	17	9	12	1.58
1146751--1146776	13	2.0	13	100	0	52	46	0	0	53	1.00
1153079--1153410	178	1.8	183	93	5	586	31	10	7	50	1.65
1154637--1154678	21	2.0	21	90	9	68	19	23	23	33	1.97
1154710--1154774	17	4.0	16	86	8	78	27	15	30	26	1.96
1154711--1154774	32	2.0	32	84	6	85	28	15	29	26	1.96
1154878--1154946	29	2.3	30	85	9	88	46	15	4	33	1.66
1154889--1154947	29	2.0	30	93	6	102	44	16	3	35	1.65
1154889--1154947	30	2.0	28	90	9	91	44	16	3	35	1.65
1163921--1164169	123	2.0	123	100	0	498	22	11	28	37	1.89
1164391--1164419	10	2.9	10	100	0	58	41	51	0	6	1.28
1164778--1164826	23	2.1	23	85	7	64	28	2	12	57	1.46
1165302--1165343	16	2.6	16	88	7	59	14	4	0	80	0.86
1171632--1171683	26	2.0	26	85	7	70	13	23	0	63	1.29
1174766--1174814	23	2.1	23	85	7	64	28	2	12	57	1.46
1180226--1180271	23	2.0	23	91	0	74	28	26	23	21	1.99
1180251--1180552	149	2.0	149	96	0	559	35	20	15	28	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1181994--1182038	21	2.1	21	91	0	72	15	22	28	33	1.95
1184920--1184963	23	1.9	23	90	0	70	25	25	27	22	2.00
1184932--1185232	139	2.1	142	89	8	454	34	20	16	27	1.95
1186658--1186702	21	2.1	21	91	0	72	15	22	28	33	1.95
1192029--1192708	333	2.0	332	91	3	1109	42	4	8	44	1.54
1192783--1192839	10	5.5	10	76	12	53	21	3	5	70	1.22
1192782--1192841	11	5.6	11	73	15	54	21	3	5	70	1.22
1193073--1193129	10	5.5	10	76	12	53	21	3	5	70	1.22
1193072--1193131	11	5.6	11	73	15	54	21	3	5	70	1.22
1193159--1193214	10	5.4	10	75	12	51	21	3	5	69	1.24

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26