genome.fa.s9610.2.7.7.80.10.50.1000.1.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: VEPZ01009610.1 Hibiscus syriacus cultivar Beakdansim tig00116996_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3811333

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

This is table  1  of  18  ( 2160 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)
4127--4185	29	2.0	29	96	0	109	22	13	13	50	1.76
9040--9099	23	2.6	23	89	0	84	21	26	25	26	2.00
14749--14910	63	2.5	64	82	6	179	33	21	18	25	1.96
15560--15611	23	2.3	23	89	0	86	21	26	23	28	1.99
19520--19636	3	39.0	3	100	0	234	66	0	0	33	0.92
31871--31896	2	13.0	2	100	0	52	50	0	0	50	1.00
33171--33212	15	2.8	15	88	0	57	11	11	54	21	1.68
37161--37259	45	2.2	44	82	3	117	35	20	19	25	1.95
37247--37323	20	3.7	20	77	14	75	27	23	24	24	2.00
42621--42660	21	1.9	21	89	0	62	10	30	22	37	1.87
42999--43038	18	2.2	18	95	0	71	22	17	32	27	1.96
44394--44726	111	3.0	111	95	0	594	45	10	7	36	1.66
44944--45060	50	2.4	47	79	14	128	21	32	30	15	1.94
44974--45099	50	2.5	50	86	0	171	22	29	33	15	1.94
52561--52623	21	3.0	21	86	9	92	38	1	1	58	1.17
53346--53461	60	1.9	61	91	1	189	32	15	12	39	1.84
63094--63148	28	2.0	26	86	10	74	52	9	9	29	1.63
78274--78353	41	2.0	41	89	0	124	20	6	16	57	1.60
79399--79501	24	4.3	24	77	7	77	36	15	18	29	1.92
79433--79496	25	2.6	25	85	4	87	32	15	18	32	1.93
84327--84367	2	20.5	2	100	0	82	51	0	0	48	1.00
85174--85230	28	2.0	28	96	0	105	28	17	22	31	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
85375--85522	59	2.5	60	84	3	174	37	16	14	31	1.90
87415--87446	2	16.0	2	100	0	64	50	0	0	50	1.00
88594--88636	18	2.4	18	88	0	59	44	6	37	11	1.68
88594--88636	12	3.6	12	77	0	50	44	6	37	11	1.68
92045--92074	9	3.3	9	95	0	51	40	10	23	26	1.86
94723--94802	35	2.3	35	81	12	94	55	10	8	26	1.62
95012--95083	18	4.2	18	82	10	96	13	33	19	33	1.91
95012--95086	9	8.3	9	78	0	78	13	33	20	33	1.91
96920--97252	111	3.0	111	95	0	594	44	10	7	37	1.67
97521--97645	50	2.5	50	80	1	144	20	27	35	17	1.95
104780--104848	23	3.0	23	71	0	66	20	23	24	31	1.98
106849--106891	15	2.9	15	85	0	50	39	9	20	30	1.84
107144--107223	21	3.8	21	73	8	81	22	20	27	30	1.98
107304--107388	42	2.0	41	97	2	161	45	9	20	24	1.80
107311--107377	20	3.2	20	68	15	64	46	7	20	25	1.77
107478--107534	6	9.7	6	80	3	62	43	3	21	31	1.69
108439--108496	26	2.3	26	84	3	82	17	13	22	46	1.83
108801--109209	204	2.0	205	96	3	754	30	11	15	42	1.83
115853--115920	27	2.6	27	95	4	122	30	11	16	41	1.84
122246--122276	15	2.1	15	93	0	53	54	0	0	45	0.99
126238--126479	73	3.4	71	93	4	396	50	4	9	35	1.58
128519--128543	12	2.1	12	100	0	50	40	8	12	40	1.72
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
130747--131035	153	1.9	161	89	7	472	31	9	7	51	1.61
131480--131637	77	2.0	78	98	1	309	44	18	17	18	1.87
132434--132495	13	4.5	13	79	15	70	46	4	17	30	1.69
132435--132491	30	1.9	30	96	0	105	45	5	17	31	1.71
132633--132695	29	2.2	29	80	5	74	30	6	4	58	1.43
133436--133502	27	2.5	27	90	0	116	28	16	17	37	1.92
133799--133868	32	2.2	31	94	5	122	41	5	2	50	1.41
136682--136885	103	2.0	100	97	2	381	25	22	24	27	2.00
138642--138734	21	4.5	21	78	4	100	39	18	24	17	1.91
138642--138734	41	2.3	41	100	0	186	39	18	24	17	1.91
138661--138795	41	3.3	41	84	4	148	37	21	20	20	1.94
138723--138816	20	4.7	20	80	7	91	32	25	17	24	1.96
139003--139046	22	2.0	22	90	0	70	20	43	15	20	1.88
140571--140615	18	2.5	18	88	0	72	28	46	13	11	1.77
141081--141182	19	5.6	19	76	13	79	41	23	21	13	1.89
141190--141326	18	7.9	18	77	13	137	10	21	24	43	1.85
141190--141305	50	2.3	51	92	3	189	11	21	24	43	1.85
141270--141324	19	2.8	19	86	5	74	14	25	25	34	1.94
143266--143336	19	3.7	19	92	0	106	46	18	22	12	1.82
143266--143348	38	2.3	36	86	10	109	44	19	22	13	1.85
143368--143422	19	2.9	19	94	0	92	12	23	23	40	1.89
144409--144461	23	2.3	23	84	9	72	26	16	18	37	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
144631--144655	12	2.1	12	100	0	50	72	0	28	0	0.86
146898--147025	32	4.0	31	81	11	152	40	20	22	16	1.91
146898--147026	65	2.0	63	93	3	222	40	20	22	17	1.91
147019--147061	20	2.2	20	87	4	61	16	18	23	41	1.89
147047--147080	14	2.4	14	85	0	50	8	23	20	47	1.78
147202--147237	13	2.6	14	86	8	56	47	25	0	27	1.52
148553--148619	21	3.2	21	68	4	55	19	20	35	23	1.95
148553--148675	42	2.9	41	79	7	104	23	17	36	22	1.94
150653--150764	19	6.1	19	78	12	117	43	21	22	12	1.86
150760--150826	19	3.5	19	85	2	89	10	16	25	47	1.78
151349--151426	41	1.9	41	89	0	120	23	15	23	38	1.92
151330--151423	20	4.7	20	79	7	91	25	17	24	32	1.96
151349--151444	41	2.3	41	82	3	113	21	18	22	36	1.95
157061--157090	2	15.5	2	93	6	53	50	0	0	50	1.00
159377--159401	3	8.3	3	100	0	50	32	0	0	68	0.90
161641--161714	35	2.1	35	85	7	96	47	1	4	47	1.29
163330--163366	20	1.9	19	89	10	58	48	13	0	37	1.43
163845--164054	31	6.8	31	95	0	366	39	21	18	20	1.93
165005--165070	17	3.9	17	72	20	59	22	33	27	16	1.96
175636--175669	2	17.0	2	100	0	68	50	0	0	50	1.00
177482--177530	19	2.7	17	84	9	53	26	18	30	24	1.98
177482--177637	64	2.5	62	81	8	172	29	16	26	28	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
177608--177665	19	3.1	19	97	0	107	24	15	39	20	1.91
177546--177730	83	2.2	85	82	6	216	25	15	27	31	1.95
177691--177730	21	1.9	21	94	0	71	22	15	30	32	1.94
180393--180449	21	2.7	19	77	17	60	15	26	28	29	1.96
184236--184275	21	1.9	21	85	10	55	35	10	2	52	1.48
189264--189840	289	2.0	289	97	0	1082	26	18	19	34	1.95
191414--191469	28	2.0	28	85	0	76	53	0	5	41	1.24
191807--191846	6	6.7	6	100	0	80	32	35	0	32	1.58
196480--196506	2	13.5	2	100	0	54	48	0	0	51	1.00
198672--198788	60	2.0	60	81	3	137	25	22	23	29	1.99
198875--198913	19	2.1	19	95	0	69	33	28	20	17	1.96
199279--200726	724	2.0	723	97	0	2761	32	17	19	31	1.94
204756--204785	2	15.5	2	93	6	53	50	0	0	50	1.00
205616--205663	21	2.3	22	75	7	55	60	2	0	37	1.09
232357--232381	4	6.2	4	100	0	50	24	0	0	76	0.80
234069--234141	21	3.5	20	87	5	101	38	24	19	17	1.93
234457--234527	21	3.5	20	75	12	72	18	19	23	38	1.93
234473--234527	21	2.6	21	85	0	74	16	21	25	36	1.94
236400--236431	15	2.1	15	94	0	55	28	43	15	12	1.83
236434--236488	25	2.2	24	78	9	58	20	34	25	20	1.96
239617--239771	79	1.9	80	86	2	222	48	2	3	45	1.32
239614--239772	40	4.0	40	80	3	176	48	2	3	45	1.31
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
239821--239852	16	1.9	17	93	6	57	53	0	3	43	1.16
241771--241856	43	2.0	43	100	0	172	37	18	2	41	1.63
243412--243484	24	3.0	24	84	7	94	34	16	16	32	1.91
243412--243489	25	3.3	24	84	7	97	35	16	16	30	1.92
245064--245092	3	9.7	3	100	0	58	0	31	0	68	0.89
246623--248130	563	2.7	565	95	1	2710	30	12	15	41	1.83
252286--253012	362	2.0	362	96	1	1332	25	13	19	41	1.87
260669--261092	209	2.0	212	92	1	701	25	15	16	42	1.87
261745--262040	152	1.9	152	87	4	427	37	12	21	27	1.90
263362--263391	8	3.8	8	95	0	51	3	36	0	60	1.14

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