genome.fa.s8796.2.7.7.80.10.50.1000.5.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: VEPZ01008796.1 Hibiscus syriacus cultivar Beakdansim tig00111941_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1607457

Tables:   1   2   3   4   5   6   7   

This is table  5  of  7  ( 838 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)
963125--963156	2	16.0	2	100	0	64	50	0	0	50	1.00
964058--964262	75	2.7	76	88	3	290	21	24	31	22	1.98
964854--964897	17	2.6	17	85	7	63	56	29	0	13	1.38
964849--964900	9	6.4	8	77	18	54	59	26	0	13	1.34
966823--966895	22	3.3	23	79	9	73	15	21	42	20	1.89
972677--972880	74	2.7	76	85	5	263	21	24	31	23	1.98
975200--975355	31	5.0	31	92	0	231	40	21	17	20	1.91
978758--978806	3	17.0	3	83	8	66	65	2	0	32	1.04
978758--978807	19	2.5	20	83	9	66	64	2	0	34	1.05
978760--978813	9	5.8	10	79	16	55	64	1	0	33	1.04
979031--979328	134	2.2	135	86	1	402	22	19	32	25	1.97
979031--979365	134	2.5	134	83	3	361	23	18	31	26	1.97
979373--979435	28	2.2	28	88	0	90	42	17	11	28	1.83
979444--979628	66	2.8	63	72	13	153	32	11	22	32	1.91
979963--980038	31	2.5	31	82	8	84	40	11	17	30	1.85
980122--980372	29	8.4	29	71	15	136	42	13	13	30	1.82
980240--980372	29	4.4	30	82	10	146	42	13	15	29	1.85
980236--980372	63	2.3	58	81	10	150	40	13	15	30	1.85
980326--980555	66	3.6	62	79	12	234	41	13	11	33	1.81
980716--980853	36	3.8	35	83	7	170	35	9	18	36	1.84
980820--981032	106	2.0	105	85	4	286	39	10	17	32	1.84
980996--981134	36	3.9	36	89	6	201	38	10	19	30	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
980994--981136	71	2.0	72	90	1	225	39	10	19	30	1.85
981637--981671	14	2.3	15	90	9	54	28	28	8	34	1.87
988126--988174	3	17.0	3	85	8	57	65	4	0	30	1.11
988132--988180	22	2.2	22	85	3	62	65	4	0	30	1.11
996814--996868	28	2.0	28	85	0	74	29	12	23	34	1.92
1007431--1007459	14	2.1	14	100	0	58	41	13	13	31	1.84
1007484--1008368	240	3.8	229	80	7	905	31	10	13	44	1.78
1006956--1008368	258	5.8	240	80	7	1322	31	10	13	44	1.79
1006956--1008368	472	2.9	472	80	8	1506	31	10	13	44	1.79
1008861--1008922	29	2.1	30	87	3	90	14	20	19	45	1.85
1009972--1009997	13	2.0	13	100	0	52	69	0	7	23	1.14
1012630--1012687	14	4.1	14	77	2	62	63	10	0	25	1.26
1016948--1016984	19	1.9	19	88	0	56	21	27	18	32	1.97
1019154--1019214	26	2.3	26	91	0	95	21	4	29	44	1.73
1020192--1020261	23	3.1	22	78	13	72	20	17	11	51	1.75
1020649--1020748	40	2.5	40	86	3	148	20	28	39	13	1.89
1025120--1025341	111	2.0	111	94	0	390	45	11	8	35	1.70
1025627--1025733	50	2.2	49	83	3	135	22	28	32	15	1.95
1025640--1025747	50	2.2	48	79	6	117	22	30	33	13	1.93
1027517--1027547	15	2.1	15	100	0	62	32	22	12	32	1.92
1031666--1031741	19	3.8	19	75	14	64	40	1	1	56	1.16
1032524--1032553	14	2.1	15	93	6	53	56	0	0	43	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1033485--1033529	22	2.0	22	95	0	81	48	11	0	40	1.39
1033483--1033535	22	2.4	22	87	6	72	52	9	0	37	1.34
1033475--1033737	54	5.0	54	85	5	317	52	10	0	36	1.35
1033547--1033632	18	4.8	18	68	23	56	53	10	0	36	1.35
1033566--1033644	18	4.4	18	66	23	58	55	8	0	35	1.31
1033678--1033817	22	6.2	22	78	4	145	51	9	0	39	1.34
1033762--1033946	15	11.5	15	78	15	192	50	3	0	45	1.19
1033736--1033946	52	4.3	52	87	8	284	50	5	0	44	1.24
1035445--1035606	32	5.7	32	72	26	175	51	12	0	35	1.39
1035531--1035573	22	2.0	22	100	0	86	51	13	0	34	1.42
1035533--1035581	22	2.2	22	88	3	71	55	14	0	30	1.40
1035413--1035698	54	5.4	54	84	6	397	53	11	0	35	1.37
1035616--1035675	22	2.7	22	94	0	102	53	11	0	35	1.38
1035590--1035684	22	4.3	21	77	9	57	53	14	0	31	1.41
1035678--1035743	15	4.5	15	92	1	107	53	0	0	46	1.00
1035810--1035840	10	3.1	10	100	0	62	38	9	19	32	1.84
1039611--1040101	268	1.8	269	97	0	939	28	14	15	41	1.86
1040801--1040861	23	2.7	23	89	0	95	26	27	26	19	1.99
1040972--1041008	18	2.1	18	94	0	65	35	29	21	13	1.92
1040868--1041231	121	3.0	121	95	0	640	35	25	14	24	1.94
1041093--1041128	18	2.0	18	100	0	72	33	33	22	11	1.89
1040980--1041164	59	3.1	59	65	23	150	37	24	15	22	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1040920--1041226	62	5.0	62	65	23	202	34	25	15	24	1.95
1042509--1042552	21	2.1	21	87	8	63	15	25	25	34	1.95
1046294--1046354	23	2.7	23	79	5	70	27	26	24	21	1.99
1046465--1046500	18	2.0	18	100	0	72	33	33	22	11	1.89
1046473--1046657	59	3.1	58	66	23	157	37	24	15	22	1.93
1046374--1046724	121	2.9	121	96	0	630	36	25	13	24	1.93
1046391--1046719	62	5.4	63	65	23	186	36	24	14	24	1.93
1046586--1046621	18	2.0	18	100	0	72	33	33	22	11	1.89
1066926--1067032	20	5.3	20	91	0	169	40	17	19	22	1.92
1066900--1067050	60	2.5	60	80	8	189	35	21	20	23	1.96
1067230--1067294	22	3.0	22	88	0	94	24	38	13	23	1.91
1067610--1067682	33	2.2	34	85	7	96	13	20	26	39	1.90
1067653--1067702	20	2.5	20	90	0	73	18	18	28	36	1.94
1069537--1069673	20	7.5	20	73	21	104	41	21	18	18	1.90
1069540--1069694	34	4.4	34	74	13	152	43	20	19	16	1.88
1069718--1069786	20	3.5	20	91	0	111	18	20	24	36	1.95
1069718--1069796	20	4.0	20	83	3	70	18	18	22	39	1.93
1070079--1070132	14	3.5	14	73	22	54	11	24	20	44	1.83
1070057--1070152	33	2.8	33	90	3	138	13	21	20	43	1.86
1070124--1070212	20	4.5	19	86	8	124	17	20	25	35	1.95
1070124--1070212	40	2.2	40	92	4	144	17	20	25	35	1.95
1073765--1073798	17	2.0	17	94	0	59	14	23	41	20	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1076444--1076524	21	3.8	21	76	9	67	16	23	35	24	1.94
1083000--1083046	20	2.3	20	92	0	76	21	19	27	31	1.97
1083033--1083185	20	7.7	20	93	0	261	20	18	19	41	1.91
1086283--1086343	30	2.0	30	87	0	86	31	14	13	40	1.84
1090380--1090407	2	14.0	2	100	0	56	50	0	0	50	1.00
1091464--1091494	16	2.0	16	93	6	55	0	19	0	80	0.71
1091464--1091494	5	6.0	5	92	7	53	0	19	0	80	0.71
1095269--1095434	83	2.0	83	89	0	251	35	13	18	32	1.90
1104593--1104643	19	2.7	19	81	0	66	39	0	1	58	1.09
1125961--1126000	20	2.0	20	85	9	55	20	17	15	47	1.83
1129392--1129418	2	13.5	2	100	0	54	0	48	0	51	1.00
1135343--1135373	6	5.3	6	92	7	55	35	48	16	0	1.46
1135343--1135373	11	2.7	12	90	10	55	35	48	16	0	1.46
1135557--1135596	20	2.0	20	90	0	62	40	20	25	15	1.90
1139251--1139320	14	5.1	14	67	10	54	42	25	2	28	1.69
1141542--1141593	19	2.7	19	90	0	86	26	21	28	23	1.99
1141651--1141687	19	1.9	19	94	0	65	24	27	24	24	2.00
1155128--1155187	20	2.8	21	80	10	59	46	20	1	31	1.60
1155150--1155193	20	2.1	21	87	4	63	45	15	2	36	1.59
1155331--1155398	2	34.0	2	100	0	136	50	0	0	50	1.00
1155468--1155506	2	19.5	2	100	0	78	51	0	0	48	1.00
1156386--1156428	23	2.0	23	86	9	63	11	6	55	25	1.60
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1160777--1160832	22	2.5	21	80	8	58	64	0	1	33	1.04
1160783--1160844	14	4.3	14	75	15	54	64	0	1	33	1.03
1162804--1162839	2	18.5	2	94	5	65	47	0	0	52	1.00
1162864--1162920	24	2.3	26	81	9	73	42	5	3	49	1.42
1162875--1162921	24	1.9	25	91	4	78	42	4	4	48	1.42
1165591--1165639	12	3.8	12	77	15	53	30	0	0	69	0.89
1165598--1165636	21	1.9	20	84	5	51	33	0	0	66	0.92
1165917--1165950	17	2.0	17	94	0	59	38	11	11	38	1.79
1166670--1166768	33	3.0	33	94	1	164	45	15	7	32	1.73
1166763--1166804	21	2.0	21	95	0	75	47	7	14	30	1.71

Tables:   1   2   3   4   5   6   7