genome.fa.s8345.2.7.7.80.10.50.1000.1.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: VEPZ01008345.1 Hibiscus syriacus cultivar Beakdansim tig00111073_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  297766

Tables:   1   2   

This is table  1  of  2  ( 170 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)
11153--11198	22	2.1	22	100	0	92	54	21	8	15	1.68
17426--17465	21	1.9	21	89	0	62	22	10	27	40	1.86
25239--25278	14	2.8	14	92	3	62	62	2	5	30	1.29
26535--26585	20	2.5	21	81	6	70	52	0	0	47	1.00
27254--27290	19	1.9	19	88	0	56	43	0	5	51	1.24
28878--28911	16	2.1	17	88	5	52	44	20	2	32	1.67
31659--31699	21	1.9	22	85	5	57	53	2	31	12	1.51
33931--33988	29	2.0	29	100	0	116	24	6	24	44	1.77
35280--35337	29	2.0	29	100	0	116	24	6	24	44	1.77
38548--38588	21	1.9	22	90	5	66	51	2	34	12	1.52
47524--47637	60	1.9	60	85	3	158	35	11	3	49	1.56
47527--47696	60	2.8	59	79	8	157	34	16	4	44	1.69
47686--47768	29	2.9	29	94	0	139	33	25	7	33	1.83
50711--50772	19	3.2	19	69	13	54	37	1	1	59	1.17
51440--51487	2	24.0	2	100	0	96	50	0	0	50	1.00
52183--52235	8	6.6	8	97	0	88	26	13	32	28	1.93
52230--52254	8	3.1	8	100	0	50	36	24	12	28	1.91
52190--52254	16	4.1	16	89	0	67	29	16	26	27	1.97
52190--52243	24	2.2	24	90	0	81	27	14	29	27	1.95
52198--52251	24	2.2	24	86	0	72	29	16	27	25	1.97
54851--54875	2	12.5	2	100	0	50	52	0	48	0	1.00
55926--55982	30	1.9	30	86	10	82	50	3	3	42	1.36
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
60055--60132	31	2.5	32	79	8	97	28	29	26	15	1.96
66482--66536	28	2.0	28	100	0	110	25	21	10	41	1.86
71510--71583	23	3.2	23	70	14	80	39	6	20	33	1.79
71492--71596	46	2.3	46	95	1	185	42	5	17	34	1.73
71774--71838	17	3.6	17	72	22	60	20	24	30	24	1.98
71745--71840	38	2.5	38	93	0	165	25	23	28	22	2.00
71753--71821	21	3.5	21	70	22	67	24	27	26	21	1.99
71995--72036	20	2.0	21	90	4	68	42	7	9	40	1.65
78372--78474	51	2.0	51	96	0	188	41	5	19	33	1.75
78643--78725	38	2.2	38	93	0	139	25	22	30	21	1.99
78880--78922	20	2.1	20	86	4	59	41	6	11	39	1.68
81180--81216	16	2.4	16	90	4	58	18	18	54	8	1.68
81302--81340	9	3.8	10	84	15	53	41	0	2	56	1.13
81336--81392	3	19.0	3	88	0	87	61	0	3	35	1.13
81717--82491	113	6.9	112	95	1	1302	29	18	14	38	1.90
84269--84305	16	2.3	16	90	9	58	54	5	8	32	1.53
84624--84678	1	55.0	1	81	0	65	0	9	0	90	0.44
84626--84681	22	2.6	21	91	5	85	0	10	0	89	0.49
84627--84676	10	4.9	10	92	7	75	0	10	0	90	0.47
95329--95378	15	3.5	15	72	10	50	64	0	4	32	1.12
95285--95399	28	4.1	29	75	14	98	64	2	4	28	1.26
97245--97281	16	2.4	16	90	4	58	18	18	54	8	1.68
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
97367--97405	9	3.8	10	84	15	53	41	0	2	56	1.13
97401--97495	3	32.0	3	95	2	174	65	0	1	33	1.00
100932--100967	2	18.0	2	100	0	72	50	0	0	50	1.00
101762--101787	2	13.0	2	100	0	52	50	0	0	50	1.00
109619--109956	39	8.7	39	92	0	523	28	18	15	37	1.91
109944--110039	36	2.7	35	82	6	120	26	18	16	38	1.92
109987--110134	74	2.0	76	83	2	192	29	18	14	37	1.91
109992--110156	75	2.2	73	80	9	172	31	18	13	36	1.89
113578--113627	25	2.0	25	96	0	91	44	22	8	26	1.80
114016--114051	18	2.0	18	94	0	63	19	2	22	55	1.56
116116--116140	6	4.2	6	100	0	50	0	20	0	80	0.72
117110--117147	16	2.5	15	84	12	51	65	0	5	28	1.14
119268--119294	5	5.4	5	100	0	54	40	0	40	18	1.51
124974--125057	37	2.3	37	85	0	105	47	10	19	22	1.80
125495--125532	14	2.5	16	79	16	53	60	5	23	10	1.50
125502--125533	14	2.3	14	94	0	55	56	6	28	9	1.55
129220--129303	21	3.9	22	75	14	68	14	25	35	25	1.93
137657--137750	20	4.6	20	66	23	70	40	3	4	52	1.37
137642--137765	62	2.0	63	90	3	196	40	3	4	51	1.39
137821--137889	35	1.9	37	88	5	106	36	5	4	53	1.45
137940--138219	147	1.9	145	89	4	429	41	6	8	42	1.63
139205--139250	18	2.5	19	82	6	60	67	2	4	26	1.21
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
140682--140741	20	3.0	20	85	2	77	3	31	0	65	1.09
140682--140743	27	2.3	27	82	15	76	3	32	0	64	1.09
142521--142578	24	2.3	25	80	11	66	50	5	1	43	1.35
146794--146845	27	1.9	27	88	0	77	48	9	19	23	1.78
150102--150139	15	2.5	15	95	0	67	39	7	21	31	1.82
152375--152439	33	2.0	33	90	0	103	15	38	4	41	1.68
153211--153244	17	2.0	17	88	11	52	38	0	8	52	1.33
161404--161532	21	6.0	21	76	13	77	28	25	20	25	1.99
161434--161481	21	2.3	21	92	0	78	37	25	16	20	1.93
161441--161484	21	2.1	21	100	0	88	38	22	18	20	1.93
165327--165381	29	1.9	28	85	3	74	21	14	12	50	1.76
167445--167482	15	2.4	17	87	12	55	31	5	18	44	1.72
168675--168716	21	2.0	21	90	4	68	23	21	30	23	1.99
170351--170488	36	3.7	35	69	15	107	29	14	13	42	1.83
170351--170528	76	2.3	75	85	3	232	30	15	12	41	1.84
170530--171084	39	14.2	39	92	0	903	30	19	15	34	1.93
170628--170692	22	3.2	22	62	20	59	30	20	16	32	1.95
171701--171803	34	3.1	34	81	5	102	19	41	6	32	1.78
172476--172541	21	3.3	21	72	8	57	18	1	6	74	1.10
176573--176665	21	4.5	21	78	4	100	39	18	24	17	1.91
176573--176665	41	2.3	41	100	0	186	39	18	24	17	1.91
176592--176726	41	3.3	41	82	6	132	38	20	21	19	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
176654--176748	20	4.7	20	80	2	91	34	24	17	23	1.96
176936--176979	22	2.0	22	95	0	79	20	45	15	18	1.85
177223--177266	20	2.2	20	87	0	61	11	18	20	50	1.77
178553--178597	18	2.5	18	88	0	72	26	44	15	13	1.83
179090--179199	19	6.1	19	77	15	72	42	20	21	14	1.88
179090--179145	20	2.8	20	81	2	69	39	21	23	16	1.92
179118--179199	19	4.6	19	76	17	104	45	20	20	13	1.85
179255--179309	20	2.8	19	86	5	74	18	25	23	32	1.97
179206--179309	19	5.7	19	71	18	78	13	21	24	41	1.88
181177--181212	14	2.6	14	90	0	54	30	0	22	47	1.52
181298--181335	20	1.9	20	88	0	58	36	23	23	15	1.94
181332--181397	19	3.7	19	82	17	97	48	18	19	13	1.81
181423--181493	20	3.5	20	100	0	142	15	23	26	33	1.95
181404--181491	40	2.4	34	75	20	95	13	25	23	37	1.92
182580--182633	24	2.2	24	90	0	81	24	16	20	38	1.92
185127--185191	19	3.7	19	74	19	77	44	20	23	12	1.84
185107--185189	33	2.3	36	78	18	100	40	21	22	14	1.90
185187--185229	20	2.2	20	87	4	61	16	18	23	41	1.89
185369--185405	14	2.6	14	91	0	65	45	24	0	29	1.53
186763--186829	21	3.2	21	68	4	55	19	20	35	23	1.95
186763--186885	42	2.9	41	80	7	113	22	17	36	22	1.95
188910--188997	33	2.6	33	92	1	140	39	25	23	11	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
188885--189069	19	10.1	19	75	14	165	44	21	21	12	1.85
188980--189069	39	2.3	38	92	1	144	46	21	20	12	1.82
189065--189131	19	3.5	19	85	2	89	10	16	25	47	1.78
189648--189700	20	2.7	20	93	0	88	26	20	28	24	1.99
189709--189762	20	2.7	20	97	0	99	25	18	24	31	1.97
189649--189765	61	1.9	61	85	0	162	23	17	24	33	1.97
189649--189783	61	2.2	61	81	2	155	22	20	24	32	1.98
192594--192644	24	2.1	24	96	0	93	21	21	19	37	1.95
193082--193402	58	5.5	58	82	4	340	36	11	23	28	1.90
193136--193232	30	3.3	30	62	21	78	35	10	24	29	1.89

Tables:   1   2