genome.fa.s8745.2.7.7.80.10.50.1000.5.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: VEPZ01008745.1 Hibiscus syriacus cultivar Beakdansim tig00111834_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1915556

Tables:   1   2   3   4   5   6   7   8   

This is table  5  of  8  ( 927 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)
1061761--1061803	22	2.0	22	90	0	68	32	2	16	48	1.58
1061842--1061920	32	2.5	32	97	0	149	32	0	11	55	1.35
1062047--1062105	31	1.9	31	89	0	91	44	10	5	40	1.60
1070994--1071028	2	17.5	2	100	0	70	51	0	0	48	1.00
1074837--1074894	23	2.6	23	94	5	102	39	3	12	44	1.58
1074908--1074942	12	2.9	12	91	0	61	54	0	0	45	0.99
1077929--1077969	8	5.2	8	82	5	57	34	0	29	36	1.58
1078037--1078640	126	4.8	126	98	0	1147	21	26	19	32	1.98
1079053--1079115	28	2.2	28	83	8	65	36	1	4	57	1.30
1079635--1079727	21	4.5	21	89	8	120	20	26	34	18	1.96
1079731--1079778	21	2.3	21	85	0	60	22	12	39	25	1.89
1081498--1081570	15	4.8	15	72	18	53	58	1	0	39	1.06
1081534--1081599	34	1.9	34	82	11	82	63	6	0	30	1.18
1082609--1082656	23	2.1	23	88	0	69	35	8	18	37	1.81
1082782--1082825	21	2.0	22	82	4	54	20	4	6	68	1.31
1083083--1083145	23	2.7	23	95	0	108	39	20	3	36	1.69
1082723--1083689	424	2.3	408	92	5	1595	38	12	7	40	1.71
1083497--1083548	23	2.3	22	90	6	77	44	19	1	34	1.62
1083507--1083561	23	2.4	23	93	0	92	38	20	5	36	1.75
1086192--1086684	184	2.7	183	92	2	821	33	16	15	34	1.90
1088165--1088209	3	15.0	3	85	0	63	26	33	2	37	1.69
1088169--1088257	12	7.4	12	81	0	79	21	33	8	35	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1088181--1088257	36	2.1	36	88	4	111	20	33	10	35	1.87
1088169--1088260	6	15.3	6	76	0	58	20	33	8	36	1.84
1089719--1092281	399	6.4	400	98	1	4884	30	17	15	36	1.90
1089719--1092281	200	12.9	200	97	1	4884	30	17	15	36	1.90
1092400--1092448	19	2.6	19	90	6	73	55	10	2	32	1.45
1094232--1094296	33	2.0	33	90	3	105	23	47	0	29	1.52
1094330--1094373	21	2.1	21	91	0	70	15	31	11	40	1.83
1096675--1096721	20	2.3	20	89	10	78	17	17	10	55	1.69
1096536--1096730	106	1.8	106	94	0	345	25	16	13	44	1.84
1096770--1097259	228	2.1	227	95	1	883	39	8	7	44	1.63
1098200--1098267	27	2.5	27	83	7	75	38	0	1	60	1.06
1098385--1098460	33	2.3	33	78	13	84	30	0	3	65	1.10
1098395--1098472	33	2.5	31	70	24	74	30	0	5	64	1.15
1100019--1100091	21	3.5	21	88	7	112	17	34	27	20	1.95
1100607--1100704	33	3.0	33	80	8	119	56	4	1	38	1.25
1101096--1102202	126	8.8	128	92	4	1803	31	21	25	22	1.98
1102280--1102318	15	2.6	15	79	0	51	35	30	0	33	1.58
1110939--1110979	21	2.0	21	85	0	55	12	31	34	21	1.91
1111661--1111686	2	13.0	2	100	0	52	50	0	0	50	1.00
1112496--1112777	123	2.3	124	87	3	392	42	9	20	27	1.84
1113412--1113502	19	4.4	19	73	16	74	34	6	29	29	1.83
1115784--1115847	29	2.2	29	100	0	128	39	12	3	45	1.58
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1125314--1130669	384	13.9	384	94	0	9197	36	8	12	42	1.73
1137184--1137278	30	3.1	30	80	5	111	45	3	3	48	1.34
1137182--1137282	21	4.9	21	86	4	127	45	2	2	48	1.32
1147658--1147701	2	22.5	2	95	4	81	50	0	0	50	1.00
1151376--1151424	24	2.0	25	84	4	64	53	0	2	44	1.12
1159047--1159097	23	2.2	23	96	0	93	23	49	1	25	1.61
1165244--1165290	20	2.3	20	81	0	58	55	0	0	44	0.99
1165698--1165773	31	2.4	32	82	10	86	31	10	2	55	1.48
1166501--1166542	15	2.7	16	82	14	52	33	2	2	61	1.21
1168204--1168259	28	2.0	28	85	3	76	55	12	5	26	1.58
1170537--1170795	96	2.7	96	89	4	382	38	20	11	29	1.88
1170883--1171371	133	3.5	135	78	12	425	45	20	12	21	1.84
1171128--1171420	151	1.9	151	88	4	439	46	20	10	22	1.81
1172037--1172074	2	19.0	2	100	0	76	0	50	0	50	1.00
1179607--1179699	21	4.5	21	78	4	100	39	18	24	17	1.91
1179607--1179699	41	2.3	41	100	0	186	39	18	24	17	1.91
1179626--1179760	41	3.3	41	83	4	139	37	21	21	19	1.94
1179730--1179782	20	2.7	20	90	0	79	24	26	20	28	1.99
1180300--1180366	19	3.5	19	85	2	89	47	25	16	10	1.78
1180362--1180527	20	9.1	19	74	16	136	12	22	22	43	1.86
1180367--1180443	39	2.0	39	89	5	120	9	20	25	44	1.81
1180415--1180502	33	2.6	33	90	1	131	11	23	25	39	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1182353--1182475	42	2.9	42	80	2	122	22	36	17	22	1.95
1182409--1182475	21	3.2	21	66	6	55	23	35	20	19	1.95
1183833--1183869	14	2.6	14	86	0	56	32	0	21	45	1.52
1183976--1184029	20	2.8	19	91	5	90	46	20	20	12	1.83
1184034--1184184	19	8.7	19	64	21	80	15	22	20	41	1.89
1184038--1184164	33	3.9	32	87	8	193	14	22	19	42	1.88
1184031--1184163	66	2.0	66	97	0	248	16	22	19	41	1.90
1186455--1186479	12	2.1	12	100	0	50	0	28	0	72	0.86
1186666--1186712	24	2.0	24	91	0	76	34	17	19	29	1.94
1186670--1186721	24	2.2	24	82	0	59	36	19	17	26	1.94
1187808--1187881	19	4.5	16	83	16	66	13	20	18	47	1.82
1187804--1187871	19	3.8	19	87	12	101	13	22	17	47	1.82
1189435--1189515	42	2.0	42	87	2	119	22	13	41	22	1.88
1189884--1189950	19	3.5	19	83	4	89	37	23	23	14	1.93
1189939--1189996	14	3.9	14	79	16	71	48	25	17	8	1.75
1189923--1190001	32	2.4	33	95	2	142	46	24	18	10	1.80
1190030--1190087	14	3.9	14	79	16	71	10	17	24	48	1.78
1190013--1190099	32	2.7	33	94	3	158	11	18	21	48	1.79
1190076--1190131	20	2.9	19	75	2	58	16	21	21	41	1.90
1190623--1190667	18	2.5	18	88	0	72	13	15	44	26	1.83
1191988--1192025	20	1.9	20	88	0	58	50	21	15	13	1.78
1192289--1192332	22	2.0	22	95	0	79	18	15	45	20	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1192520--1192613	20	4.7	20	80	2	89	23	18	24	34	1.96
1192500--1192614	20	5.7	20	78	5	88	23	17	23	35	1.95
1192603--1192695	20	4.5	21	78	4	100	17	24	18	39	1.91
1192542--1192676	41	3.3	41	82	4	139	19	21	20	38	1.94
1192603--1192695	41	2.3	41	100	0	186	17	24	18	39	1.91
1203151--1203221	34	2.1	34	100	0	142	43	28	2	25	1.68
1203594--1203656	33	1.9	33	93	0	108	44	0	3	52	1.17
1209732--1209796	22	3.0	21	77	6	67	40	4	50	4	1.43
1209732--1209813	42	1.9	44	85	5	114	39	3	52	4	1.41
1209785--1209818	15	2.2	16	89	5	52	35	2	55	5	1.39
1212969--1213105	27	5.1	27	97	0	256	23	26	31	18	1.98
1216100--1216182	43	1.9	43	87	0	121	38	28	15	16	1.90
1231349--1231381	17	1.9	17	93	0	57	12	12	24	51	1.73
1238877--1238942	27	2.6	27	74	13	68	56	3	1	39	1.24
1241210--1241256	20	2.3	20	89	10	78	55	10	17	17	1.69
1240998--1241470	181	2.6	182	88	1	671	42	13	16	26	1.86
1241391--1241437	20	2.4	19	82	10	67	53	10	17	19	1.72
1241400--1241442	20	2.3	19	88	11	63	51	11	16	20	1.75
1243670--1243734	21	3.1	21	79	0	76	38	13	30	16	1.88
1243768--1243833	33	2.0	33	93	0	114	30	0	46	22	1.52
1245625--1245673	19	2.6	19	93	0	80	30	2	10	57	1.43
1245792--1247351	198	7.9	198	97	1	2785	36	15	16	31	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1245792--1247352	397	3.9	398	96	1	2804	36	15	16	31	1.90
1245792--1247352	595	2.6	595	96	1	2825	36	15	16	31	1.90
1248825--1248892	3	22.7	3	76	0	64	35	5	33	25	1.80
1248812--1248854	12	3.6	12	77	0	50	34	11	34	18	1.87
1248812--1248867	27	2.2	25	84	9	69	35	10	33	19	1.87
1250389--1250877	183	2.7	182	95	1	861	34	15	16	33	1.90
1253343--1253407	25	2.6	25	80	0	85	35	9	13	41	1.77
1253754--1253826	23	3.2	23	88	0	101	34	4	21	39	1.73
1254254--1254290	18	2.1	18	89	0	56	32	5	10	51	1.60
1254246--1254292	24	2.0	24	86	0	67	34	4	14	46	1.64

Tables:   1   2   3   4   5   6   7   8