genome.fa.s8312.2.7.7.80.10.50.1000.5.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: VEPZ01008312.1 Hibiscus syriacus cultivar Beakdansim tig00111005_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1258310

Tables:   1   2   3   4   5   6   

This is table  5  of  6  ( 670 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)
860276--860383	57	1.9	57	81	7	130	33	15	6	44	1.72
860292--860387	19	5.1	19	79	2	95	34	16	6	42	1.73
870322--870386	28	2.4	28	97	2	123	32	3	12	52	1.54
881492--881521	15	1.9	16	93	6	53	46	20	6	26	1.75
881755--881839	2	42.5	2	100	0	170	49	0	0	50	1.00
881952--881987	2	18.5	2	94	5	65	50	0	0	50	1.00
882060--882089	15	2.0	15	93	0	51	63	10	0	26	1.26
891147--891194	23	2.0	25	84	8	64	50	0	8	41	1.33
891425--891468	11	3.9	11	80	13	54	65	0	2	31	1.05
891413--891468	10	5.3	10	76	23	53	67	0	1	30	1.01
891413--891469	12	5.3	11	76	17	57	68	0	1	29	1.00
891743--891787	20	2.2	20	88	4	63	48	0	4	46	1.22
892174--892219	20	2.3	20	100	0	92	23	0	32	43	1.54
892758--892798	16	2.6	16	88	3	57	36	12	21	29	1.90
896417--896460	15	2.8	16	79	6	54	40	2	2	54	1.25
897145--897183	6	6.5	6	90	0	60	15	35	0	48	1.45
904967--905187	64	3.5	63	83	4	257	33	19	19	27	1.96
905844--906015	31	5.5	31	99	0	335	18	19	22	39	1.92
906996--907292	36	8.6	35	68	20	126	46	4	3	45	1.40
906997--907277	102	2.8	100	74	10	255	46	4	3	44	1.42
907119--907246	66	2.0	65	84	1	166	46	7	2	43	1.43
907088--907344	36	7.1	37	72	13	144	45	6	3	44	1.45
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
907178--907344	37	4.4	37	76	8	158	47	5	2	44	1.41
907184--907344	76	2.1	72	85	5	187	46	5	3	44	1.42
907365--907392	12	2.3	12	100	0	56	50	7	7	35	1.57
911745--911833	38	2.3	38	88	3	126	11	10	37	41	1.75
927413--927442	14	2.1	14	93	0	51	23	0	26	50	1.50
944546--944591	22	2.0	24	83	8	60	43	2	15	39	1.59
947526--947581	2	28.0	2	100	0	112	50	0	0	50	1.00
949442--949496	25	2.2	25	100	0	110	18	10	16	54	1.70
949977--950011	16	2.2	16	100	0	70	37	17	20	25	1.94
956211--956241	4	7.8	4	100	0	62	25	0	0	74	0.82
957086--957152	24	2.8	24	77	6	75	46	1	1	50	1.19
957613--957747	63	2.1	64	86	6	182	52	4	8	34	1.53
965532--965572	22	1.9	22	90	5	66	26	9	2	60	1.40
966920--966958	11	3.5	11	85	0	51	17	10	15	56	1.66
969283--969414	67	2.0	67	95	0	237	15	13	21	49	1.79
970934--970970	17	2.2	17	90	0	56	37	13	0	48	1.43
973645--973715	22	3.3	20	78	16	54	32	2	0	64	1.08
973648--973725	12	7.0	10	72	23	50	33	2	0	64	1.08
975663--975714	27	1.9	27	100	0	104	25	15	11	48	1.78
977303--977383	39	2.1	39	100	0	162	43	9	22	24	1.83
978148--978243	26	3.7	26	92	0	165	11	26	31	31	1.91
978232--978322	36	2.6	36	91	8	145	7	27	28	36	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
979233--979324	14	7.3	14	71	22	87	40	4	5	50	1.45
979308--979355	23	2.2	20	77	19	60	41	4	4	50	1.41
979224--979296	23	3.1	23	98	2	137	45	4	4	46	1.41
981549--981907	173	2.1	173	93	1	612	37	18	4	39	1.71
982361--982404	23	1.9	23	100	0	88	25	40	25	9	1.84
982500--982584	34	2.5	34	98	0	161	35	23	24	16	1.95
982650--982710	30	2.0	30	87	6	88	31	31	22	14	1.94
984068--984274	102	2.0	102	93	0	351	35	14	22	28	1.93
988767--988902	60	2.2	60	83	3	166	37	11	11	39	1.77
990921--990997	23	3.3	23	88	1	109	32	25	18	23	1.97
1005437--1005513	31	2.5	31	84	0	100	42	9	15	32	1.78
1007216--1007516	151	2.0	151	98	0	575	42	8	17	31	1.79
1007851--1007886	2	18.0	2	100	0	72	50	0	0	50	1.00
1008564--1008610	25	1.9	24	91	4	76	51	2	10	36	1.49
1018622--1018662	20	2.0	20	100	0	82	39	12	4	43	1.63
1018896--1018955	23	2.8	22	76	11	63	58	1	0	40	1.08
1023298--1023327	15	2.0	15	100	0	60	13	13	6	66	1.43
1023626--1023653	14	2.0	14	100	0	56	42	14	28	14	1.84
1034440--1034514	2	38.0	2	91	2	125	50	0	2	46	1.15
1035286--1035326	18	2.2	18	86	8	55	31	4	0	63	1.15
1037322--1037670	174	2.0	178	88	7	532	43	9	3	42	1.55
1038072--1038397	43	7.7	43	85	3	369	34	19	23	22	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1038072--1038397	85	3.8	85	81	6	349	34	19	23	22	1.97
1038080--1038405	42	7.7	42	81	6	167	34	18	23	24	1.96
1038567--1038596	16	1.9	15	93	6	51	60	3	0	36	1.14
1039629--1039703	29	2.5	30	95	2	134	21	24	25	29	1.99
1043239--1043296	29	2.0	28	80	9	64	51	3	15	29	1.60
1047465--1047496	2	16.0	2	100	0	64	50	0	50	0	1.00
1051401--1051444	22	2.0	22	90	0	70	29	27	4	38	1.76
1051464--1051845	188	2.0	188	97	2	723	33	19	7	40	1.79
1054758--1054811	20	2.6	20	85	5	72	25	14	16	42	1.87
1060602--1060628	14	1.9	14	100	0	54	7	7	29	55	1.55
1060602--1060666	24	2.7	24	90	0	103	9	10	26	53	1.65
1060615--1060673	10	5.5	10	79	15	64	10	11	23	54	1.67
1060592--1060665	34	2.2	34	83	9	89	10	12	27	50	1.73
1060601--1060654	14	4.1	14	77	18	53	9	12	25	51	1.70
1060615--1060686	34	2.1	34	94	0	126	12	11	20	55	1.67
1061602--1061656	16	3.4	16	92	0	92	7	14	23	54	1.65
1061936--1062015	30	2.8	28	79	11	90	23	10	13	52	1.71
1062592--1062623	2	16.0	2	100	0	64	50	0	0	50	1.00
1074724--1074821	49	2.0	49	100	0	196	30	24	8	36	1.85
1083893--1083945	21	2.5	22	84	6	65	69	11	5	13	1.34
1084003--1084044	18	2.4	18	84	4	50	52	2	0	45	1.13
1093629--1093797	60	2.8	59	75	12	157	33	20	5	40	1.75
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1093629--1093770	59	2.4	59	81	8	146	33	21	5	39	1.77
1093848--1093992	60	2.4	59	79	7	152	37	5	19	37	1.75
1093844--1093992	59	2.5	60	77	9	153	37	6	19	36	1.77
1107737--1107766	15	2.0	15	93	0	51	56	0	0	43	0.99
1113530--1113573	20	2.3	19	85	11	63	20	25	9	45	1.80
1113536--1113573	20	1.9	20	94	0	67	21	23	10	44	1.83
1113641--1113709	30	2.3	30	97	0	129	17	36	18	27	1.94
1114205--1114237	16	2.1	16	88	5	50	24	24	9	42	1.83
1120815--1120942	60	2.1	60	86	0	175	35	9	15	39	1.80
1121005--1121081	37	2.1	37	87	4	111	40	3	11	44	1.59
1124770--1124799	15	2.0	15	100	0	60	60	0	20	20	1.37
1124773--1124807	15	2.3	15	90	0	52	65	0	17	17	1.27
1124818--1124897	11	7.5	11	67	20	53	70	1	10	18	1.22
1124854--1124908	23	2.4	23	77	14	69	72	0	9	18	1.10
1124801--1125000	5	40.6	5	67	22	50	73	1	7	19	1.12
1124933--1125000	25	2.8	24	77	16	68	75	1	1	22	0.97
1124940--1125045	39	2.6	41	78	11	128	70	0	2	25	1.06
1124931--1125031	30	3.3	31	78	12	93	72	0	1	24	1.02
1124914--1124998	25	3.6	22	73	18	66	75	1	3	20	1.02
1124882--1125008	9	13.4	9	67	18	53	75	0	5	18	1.04
1124944--1125045	36	2.5	40	80	16	113	70	0	2	25	1.07
1124967--1125065	40	2.7	34	77	14	92	64	1	2	32	1.11
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1125056--1125127	24	2.9	25	71	21	69	68	2	4	25	1.21
1125398--1125518	33	3.7	33	73	23	121	31	14	10	42	1.80
1131340--1131404	32	2.0	32	90	3	103	41	9	0	49	1.35
1131318--1131404	33	2.7	33	83	1	113	41	8	2	48	1.45
1134929--1134967	17	2.4	17	91	4	62	53	2	0	43	1.14
1136152--1136218	31	2.2	31	97	0	125	34	19	5	40	1.76
1136241--1136287	24	2.0	24	82	0	58	46	21	2	29	1.63
1137631--1137659	15	1.9	15	100	0	58	48	6	0	44	1.29
1142071--1142109	14	2.8	14	96	0	69	43	15	0	41	1.46
1143283--1143311	11	2.7	11	94	5	51	20	0	6	72	1.07

Tables:   1   2   3   4   5   6