genome.fa.s7859.2.7.7.80.10.50.1000.5.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: VEPZ01007859.1 Hibiscus syriacus cultivar Beakdansim tig00110221_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3538007

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   

This is table  5  of  18  ( 2075 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)
935577--935622	19	2.3	20	88	7	76	54	23	15	6	1.64
935618--935726	19	5.7	19	94	2	191	11	20	22	46	1.81
935618--935726	39	2.8	38	93	2	191	11	20	22	46	1.81
935623--935737	58	2.0	58	91	3	187	9	20	24	46	1.80
935709--935796	33	2.6	33	87	1	113	13	25	21	39	1.90
937829--937947	42	2.8	42	81	5	107	23	36	18	21	1.95
939303--939338	14	2.6	14	95	0	63	30	0	25	44	1.54
939445--939498	20	2.8	19	86	5	81	48	20	18	12	1.81
939507--939633	33	3.9	32	85	8	184	15	22	19	42	1.89
939500--939632	66	2.0	66	95	0	239	17	21	19	41	1.90
941925--941949	12	2.1	12	100	0	50	0	28	0	72	0.86
943234--943291	20	2.9	20	100	0	116	36	25	22	15	1.94
943314--943387	19	4.5	16	83	16	66	13	20	18	47	1.82
943310--943377	19	3.8	19	87	12	101	13	22	17	47	1.82
943494--943530	14	2.6	14	86	0	56	48	21	0	29	1.50
945250--945317	20	3.5	19	78	6	73	39	23	22	14	1.91
945365--945422	14	3.9	14	79	16	71	10	17	24	48	1.78
945348--945438	32	2.8	33	94	3	166	12	18	21	47	1.81
945423--945477	20	2.8	19	83	8	65	16	23	23	36	1.94
945959--946003	18	2.5	18	88	0	72	13	15	44	26	1.83
947323--947360	20	1.9	20	88	0	58	50	21	15	13	1.78
947625--947668	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)
947856--947925	20	3.5	20	92	0	113	25	18	28	27	1.98
947856--947970	20	5.7	20	80	6	106	24	17	26	32	1.97
947959--948051	20	4.5	21	75	4	91	18	24	17	39	1.91
947959--948051	41	2.3	41	98	0	141	18	24	17	39	1.91
948781--948821	21	2.0	21	85	0	55	17	43	12	26	1.84
970368--970426	24	2.5	24	88	2	84	38	25	16	18	1.92
970393--970487	46	2.0	46	82	9	113	35	25	22	16	1.95
970393--970487	23	4.1	23	81	6	95	35	25	22	16	1.95
975843--976047	103	2.0	101	87	1	293	27	26	19	26	1.99
979605--979946	171	2.0	171	98	0	666	28	21	12	37	1.90
981122--981172	22	2.3	22	82	3	66	33	19	21	25	1.97
990531--990589	29	2.0	29	93	0	100	22	15	25	37	1.93
991239--991264	12	2.2	12	100	0	52	7	50	0	42	1.31
993150--993257	23	4.7	23	82	0	126	35	23	25	16	1.95
993160--993257	46	2.1	46	88	3	144	34	23	25	16	1.95
993344--993382	15	2.7	15	88	7	55	43	17	5	33	1.72
999860--999889	16	1.9	16	93	6	53	40	6	20	33	1.78
1001246--1001308	23	2.7	23	72	20	58	22	7	11	58	1.58
1003991--1004283	148	2.0	148	94	0	514	48	9	6	35	1.62
1004438--1004533	35	2.7	35	85	0	111	33	1	25	40	1.62
1004838--1004866	2	14.5	2	100	0	58	51	0	0	48	1.00
1007585--1007625	17	2.4	17	91	0	64	21	9	24	43	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1015216--1015393	65	2.8	64	80	11	177	28	21	16	33	1.96
1021124--1021188	24	3.0	21	75	16	69	30	21	21	26	1.98
1021123--1021267	46	3.2	44	83	6	168	29	24	18	27	1.98
1021145--1021270	23	5.5	23	84	4	159	28	25	18	27	1.98
1023910--1024017	45	2.4	46	87	7	159	30	24	14	30	1.95
1027664--1027744	13	6.6	13	76	22	77	76	0	23	0	0.79
1027664--1027752	16	5.5	16	74	24	80	77	0	22	0	0.77
1027659--1027752	23	4.2	23	76	19	92	78	0	21	0	0.75
1027673--1027762	17	5.1	17	83	12	96	78	0	20	1	0.81
1027657--1027753	42	2.3	42	86	10	135	78	0	21	0	0.75
1027660--1027758	24	4.2	23	77	18	96	78	0	20	1	0.80
1027689--1027771	17	4.8	17	83	12	82	79	0	16	3	0.87
1027658--1027769	22	4.8	22	75	9	89	79	0	18	1	0.82
1027657--1027758	12	8.5	11	76	14	78	78	0	20	0	0.81
1029712--1030199	124	3.9	124	86	0	638	37	14	20	26	1.92
1030245--1030577	124	2.7	122	84	3	427	41	15	17	24	1.89
1029960--1030484	285	1.8	285	84	3	716	38	16	19	25	1.92
1030398--1030439	22	2.0	21	86	13	59	42	9	28	19	1.82
1029836--1030787	409	2.3	409	84	3	1256	38	15	19	27	1.91
1030245--1030625	123	3.1	122	84	5	473	40	16	17	25	1.90
1030493--1030824	161	2.1	161	84	4	429	37	14	18	29	1.91
1030747--1030860	44	2.6	43	82	8	115	31	15	19	33	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1030842--1030986	43	3.4	43	89	1	202	32	10	19	37	1.85
1034266--1034295	15	2.1	14	93	6	51	70	0	23	6	1.11
1039210--1039267	2	29.5	2	96	3	109	51	0	0	48	1.00
1039250--1039346	39	2.4	40	88	8	144	48	3	5	43	1.40
1039326--1039360	2	17.5	2	100	0	70	51	0	0	48	1.00
1040639--1040699	23	2.6	22	76	19	61	14	3	0	81	0.80
1040644--1040699	6	9.5	6	85	14	73	14	3	0	82	0.81
1052218--1052350	34	3.9	34	81	13	141	48	2	5	44	1.37
1052246--1052439	92	2.1	91	85	10	252	47	3	6	43	1.44
1052316--1052369	21	2.4	23	87	12	85	46	0	7	46	1.31
1052316--1052369	22	2.4	22	90	9	83	46	0	7	46	1.31
1052291--1052408	56	2.1	58	87	6	170	47	3	5	44	1.42
1052339--1052504	35	4.6	34	76	19	144	46	3	6	43	1.45
1052347--1052506	34	4.4	37	80	17	183	47	3	6	43	1.44
1052431--1052533	51	2.0	51	90	3	163	46	1	6	44	1.41
1052347--1052510	42	4.3	40	79	16	165	47	3	6	43	1.43
1052240--1052533	161	1.8	161	83	10	395	47	2	6	43	1.42
1052539--1052587	21	2.3	22	79	13	57	44	2	2	51	1.24
1053750--1053817	9	7.3	9	73	16	59	22	2	0	75	0.94
1053749--1053818	23	3.0	23	75	12	70	21	2	0	75	0.93
1053748--1053817	11	6.9	10	76	13	56	21	2	0	75	0.93
1053749--1053818	5	13.8	5	77	14	56	21	2	0	75	0.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1053752--1053826	29	2.7	29	83	8	93	22	2	0	74	0.94
1059205--1059249	3	14.7	3	95	4	81	66	0	0	33	0.92
1059625--1059683	17	3.4	16	74	21	57	22	15	1	61	1.43
1061482--1061524	22	2.0	22	81	9	52	34	11	20	32	1.89
1064626--1065069	40	10.7	39	74	17	292	46	3	6	43	1.47
1064651--1064801	76	2.0	76	90	0	239	47	3	5	42	1.46
1064703--1064898	97	2.0	98	93	1	340	46	5	6	41	1.52
1064742--1064864	58	2.1	61	84	4	162	47	4	5	42	1.48
1064907--1064931	2	12.5	2	100	0	50	52	0	0	48	1.00
1065135--1065182	22	2.1	23	85	11	64	56	0	0	43	0.99
1066068--1066102	18	1.9	18	88	0	52	11	40	0	48	1.39
1076406--1076723	156	2.0	156	100	0	636	23	10	26	38	1.87
1084392--1084441	25	2.0	25	96	0	91	46	20	14	20	1.84
1090356--1090789	202	2.1	203	82	3	525	33	10	19	35	1.87
1090503--1091569	530	2.0	530	94	1	1854	34	10	18	35	1.86
1093120--1093154	14	2.6	13	86	8	52	20	0	0	80	0.72
1093801--1093843	3	14.3	3	80	0	50	34	32	2	30	1.71
1095292--1095334	18	2.4	18	88	3	70	69	4	0	25	1.07
1095291--1095358	19	3.6	19	77	16	70	69	7	0	23	1.14
1097888--1097932	21	2.1	21	95	0	81	40	0	0	60	0.97
1100768--1100839	24	3.0	24	89	0	99	34	20	12	31	1.90
1102320--1102426	52	2.0	53	98	1	207	42	22	5	28	1.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1109639--1109992	175	2.0	174	92	0	591	31	13	19	36	1.90
1110655--1110768	56	2.0	56	94	0	201	34	26	17	21	1.96
1110796--1110886	39	2.3	39	90	3	139	30	20	28	19	1.97
1111036--1111084	26	2.0	25	88	8	73	53	8	8	30	1.60
1111704--1112013	21	14.9	21	76	11	198	22	18	24	34	1.96
1111709--1111985	61	4.4	61	78	9	251	22	17	25	34	1.96
1111811--1112006	63	3.1	63	88	5	283	21	18	22	37	1.94
1112103--1112144	6	7.5	6	94	5	63	35	47	16	0	1.47
1112105--1112162	5	11.0	5	92	1	53	36	39	24	0	1.55
1112778--1112810	5	6.6	5	93	6	50	0	39	24	36	1.56

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18