genome.fa.s8111.2.7.7.80.10.50.1000.5.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: VEPZ01008111.1 Hibiscus syriacus cultivar Beakdansim tig00110647_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1666726

Tables:   1   2   3   4   5   6   7   8   9   

This is table  5  of  9  ( 1021 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)
891036--891160	37	3.4	36	86	3	187	41	17	18	22	1.90
891203--891899	55	12.7	54	79	7	665	30	20	20	27	1.98
892207--892256	25	2.0	26	88	7	77	46	2	8	44	1.44
892199--892372	70	2.4	73	91	6	277	47	0	12	39	1.45
892277--892326	25	2.0	26	88	7	77	46	0	10	44	1.37
892199--892404	73	2.9	74	87	7	257	47	0	10	40	1.45
900436--900528	20	4.7	20	93	0	159	22	27	24	24	2.00
901215--901257	20	2.1	21	83	12	54	39	6	0	53	1.28
902502--902573	23	3.2	23	62	33	57	33	19	4	43	1.70
902466--902579	44	2.6	44	92	1	192	33	23	5	37	1.77
902663--902823	57	2.8	57	89	0	232	27	25	19	27	1.99
903854--903926	20	3.7	20	90	0	101	32	23	26	17	1.97
903943--904002	21	2.9	21	94	0	102	26	18	35	20	1.95
906245--906314	34	2.1	32	84	5	86	24	28	14	32	1.94
906681--906733	20	2.7	20	90	0	88	28	22	30	18	1.98
906753--906874	20	5.8	19	67	18	64	25	19	31	23	1.98
906752--906874	43	2.8	43	90	1	192	26	19	30	23	1.98
906773--906874	23	4.7	23	73	18	92	26	19	30	23	1.98
924631--924788	81	2.0	81	92	0	262	15	30	22	31	1.95
924904--925204	55	5.5	54	80	6	309	24	25	22	26	2.00
924907--925171	27	9.5	28	66	19	110	24	26	22	26	2.00
924907--925148	112	2.2	113	87	3	357	25	26	22	25	2.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
924904--925208	54	5.5	53	79	7	252	25	25	21	26	2.00
924907--925204	109	2.7	110	83	4	332	24	26	22	26	2.00
929220--929271	27	1.9	28	84	7	72	63	15	11	9	1.52
949682--949710	12	2.4	12	100	0	58	27	17	48	6	1.72
949740--949771	11	2.9	11	95	0	55	25	18	53	3	1.59
950950--951064	45	2.6	45	85	2	151	26	26	14	32	1.95
950960--951078	45	2.6	45	85	5	143	25	25	15	34	1.94
952408--952534	62	2.1	61	90	1	200	29	10	27	33	1.90
959111--959451	43	7.9	42	83	4	387	32	18	22	25	1.97
959111--959451	85	4.0	85	81	4	400	32	18	22	25	1.97
962679--962895	82	2.7	82	72	13	187	30	17	18	34	1.94
965924--965970	23	2.0	23	87	0	67	23	25	23	27	2.00
967034--967342	154	2.0	155	99	0	611	31	9	27	31	1.89
970810--970899	45	2.0	46	88	2	137	26	17	25	30	1.98
973525--973569	18	2.5	18	96	0	81	40	4	33	22	1.74
979047--979137	45	2.0	45	89	2	137	26	19	26	27	1.99
979157--979194	20	1.9	20	94	0	67	18	15	34	31	1.92
981375--981445	22	3.2	22	89	2	106	26	28	23	21	1.99
982953--982996	21	2.2	20	87	4	61	15	25	27	31	1.96
984310--984427	59	2.0	57	96	3	218	36	22	6	34	1.80
986114--986180	22	3.0	22	95	2	116	25	28	26	19	1.99
987856--987899	20	2.1	21	87	4	63	15	22	29	31	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
989355--989473	64	1.9	63	82	1	148	39	19	15	26	1.91
990145--990205	23	2.7	23	72	10	70	22	26	24	26	2.00
996136--996181	18	2.5	19	79	13	51	78	0	10	10	0.97
996129--996178	26	1.9	26	84	8	66	78	0	10	12	0.98
997023--997055	13	2.6	13	90	4	50	9	15	0	75	1.03
998970--999441	181	2.6	181	88	1	678	42	13	16	27	1.86
999362--999408	20	2.4	19	82	10	67	53	10	17	19	1.72
999373--999413	20	2.2	19	83	12	50	51	14	17	17	1.77
1002848--1003023	86	2.0	87	98	1	345	47	11	10	30	1.74
1006146--1006184	17	2.3	17	86	8	53	38	0	2	58	1.12
1006312--1006350	17	2.3	17	91	8	62	61	0	0	38	0.96
1008327--1008364	12	3.2	12	85	7	60	57	0	0	42	0.98
1011457--1012057	125	4.8	126	97	1	1138	22	26	19	31	1.97
1012444--1012543	33	3.0	34	83	2	139	39	3	4	54	1.35
1013063--1013156	21	4.5	21	90	5	120	20	25	35	19	1.96
1013160--1013207	21	2.3	21	85	0	60	22	12	39	25	1.89
1014923--1015011	34	2.7	31	81	6	97	59	2	0	38	1.10
1014923--1015002	34	2.4	33	83	8	101	61	1	0	37	1.04
1015744--1015772	15	1.9	15	100	0	58	27	13	20	37	1.91
1019336--1019393	20	2.9	21	76	7	66	36	31	12	20	1.89
1019376--1019550	40	4.4	40	77	10	153	41	23	14	20	1.89
1019401--1019550	60	2.5	60	77	8	153	42	24	14	20	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1019376--1019593	20	10.8	20	73	12	133	41	22	14	22	1.89
1023221--1023328	26	4.2	25	92	3	171	34	29	13	22	1.93
1026400--1026430	13	2.3	14	94	5	55	22	6	29	41	1.78
1032831--1032868	15	2.5	15	84	16	51	26	7	0	65	1.19
1033083--1033348	65	4.2	65	84	6	357	32	19	13	34	1.91
1033083--1033306	124	1.8	123	89	4	353	33	18	12	35	1.89
1034724--1034764	16	2.6	16	100	0	82	26	14	29	29	1.95
1043598--1043632	17	1.9	19	88	11	56	34	5	5	54	1.48
1043735--1043887	64	2.4	64	85	3	191	29	22	20	27	1.99
1045822--1045861	21	1.9	21	89	0	62	55	7	7	30	1.56
1049696--1049771	23	3.4	23	71	20	79	27	21	22	28	1.99
1052418--1052566	65	2.3	65	81	3	167	31	22	18	28	1.97
1052411--1052566	64	2.4	64	80	3	179	31	21	18	28	1.97
1053607--1053649	19	2.3	19	95	0	77	25	18	18	37	1.94
1054646--1054681	13	2.8	13	100	0	72	41	13	22	22	1.89
1058345--1058415	35	2.0	36	94	2	126	35	15	15	33	1.89
1072331--1072496	54	3.1	54	94	0	287	36	16	24	22	1.94
1072849--1072927	22	3.6	22	89	0	113	32	16	13	36	1.88
1073357--1073447	39	2.5	35	89	8	130	49	9	19	20	1.77
1073395--1074248	113	7.6	112	82	8	926	38	13	17	29	1.89
1073395--1074126	225	3.3	222	91	3	1114	38	13	17	30	1.89
1074048--1074336	123	2.4	123	86	6	387	41	14	18	25	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1076884--1076912	2	15.0	2	92	7	51	48	0	0	51	1.00
1076941--1076993	27	2.0	27	84	0	70	41	3	3	50	1.38
1076968--1077147	37	4.7	37	82	10	211	42	3	6	47	1.44
1076953--1077147	76	2.5	75	84	8	234	42	3	6	48	1.45
1077125--1077201	31	2.4	32	85	10	95	37	2	6	53	1.41
1077300--1077348	3	15.7	3	80	16	55	26	4	0	69	1.06
1077292--1077362	16	4.7	15	79	19	76	22	4	0	73	1.01
1077295--1077348	19	2.8	20	78	18	60	25	3	0	70	1.04
1077306--1077347	22	1.9	22	90	0	66	26	4	0	69	1.08
1078432--1078466	13	2.9	12	88	12	54	17	8	0	74	1.06
1078555--1078593	21	1.9	19	85	10	51	12	25	5	56	1.57
1078757--1078811	27	2.0	29	85	7	78	18	7	1	72	1.16
1083983--1085219	84	14.9	84	82	3	1360	30	24	20	25	1.98
1083983--1085219	333	3.7	331	83	4	1542	30	24	20	25	1.98
1085808--1085858	4	12.5	4	95	4	93	50	23	0	25	1.49
1085857--1086107	37	6.5	38	80	9	253	44	3	6	45	1.46
1085999--1086095	45	2.2	44	92	3	160	45	2	5	47	1.36
1086072--1086134	26	2.4	27	89	7	94	44	3	7	44	1.49
1086116--1086200	31	2.6	32	85	11	109	40	2	5	51	1.39
1086282--1086355	22	3.5	21	79	13	73	20	4	0	75	0.96
1086282--1086336	13	3.7	15	77	22	62	25	3	0	70	1.03
1087461--1087495	12	2.8	12	91	4	52	11	11	0	77	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1087573--1087611	21	1.9	19	85	10	51	15	23	5	56	1.59
1087789--1087836	24	2.0	23	84	11	62	8	12	0	79	0.94
1088300--1088454	80	2.0	75	85	8	204	36	13	17	32	1.89
1091071--1091096	5	5.2	5	100	0	52	57	0	0	42	0.98
1091070--1091104	15	2.3	15	85	0	52	51	0	0	48	1.00
1092772--1092889	29	4.1	29	100	0	236	13	31	37	17	1.89
1092911--1092952	18	2.3	18	95	0	75	35	23	23	16	1.95
1092986--1093162	15	11.1	15	75	14	158	20	7	53	18	1.69
1092973--1093103	64	2.0	65	94	2	228	23	9	50	16	1.74
1092977--1093098	33	3.8	33	83	12	171	22	9	51	16	1.72

Tables:   1   2   3   4   5   6   7   8   9