genome.fa.s6655.2.7.7.80.10.50.1000.1.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: VEPZ01006655.1 Hibiscus syriacus cultivar Beakdansim tig00016430_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  456786

Tables:   1   2   3   

This is table  1  of  3  ( 283 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)
449--494	24	1.9	24	90	0	74	36	2	10	50	1.50
2219--2257	20	1.9	20	84	5	51	7	35	5	51	1.53
18841--18866	5	5.2	5	100	0	52	80	0	0	19	0.71
19576--19631	29	2.0	28	86	6	78	16	26	7	50	1.70
21929--21994	33	2.0	32	85	2	87	40	9	12	37	1.74
23842--23877	16	2.2	17	90	5	56	44	19	0	36	1.51
25704--25840	59	2.3	60	78	7	145	35	16	16	32	1.91
30110--30163	19	2.6	21	82	17	76	22	0	11	66	1.22
30152--30224	10	7.1	10	75	17	69	17	0	15	67	1.24
30152--30201	23	2.2	23	96	0	91	18	0	14	68	1.22
30161--30201	13	3.4	13	80	19	61	19	0	14	65	1.26
30172--30243	29	2.5	29	100	0	144	20	0	13	65	1.27
30213--30256	19	2.3	19	88	4	61	27	2	9	61	1.38
30198--30344	65	2.3	63	80	11	165	25	1	11	61	1.37
31492--31530	16	2.4	16	91	0	60	20	28	17	33	1.96
34583--34630	2	24.0	2	91	0	78	47	2	2	47	1.25
35229--35253	6	4.2	6	100	0	50	20	16	64	0	1.30
35317--35360	13	3.5	13	90	6	72	18	52	15	13	1.75
35362--35433	36	2.0	35	81	10	83	55	0	0	44	0.99
35409--35455	23	2.0	23	91	0	76	53	0	0	46	1.00
35473--35518	12	3.9	12	88	2	67	30	47	10	10	1.73
35473--35518	24	2.0	24	91	4	76	30	47	10	10	1.73
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
36280--36310	16	1.9	16	93	0	53	38	6	6	48	1.55
36291--36345	28	2.0	28	82	7	67	49	3	5	41	1.43
36356--36380	7	3.6	7	100	0	50	44	44	0	12	1.41
36555--36605	20	2.6	20	84	3	68	43	3	7	45	1.51
36581--36660	18	4.3	19	73	20	71	46	2	5	46	1.38
36578--36660	19	4.3	20	74	22	88	45	2	4	46	1.37
36674--36719	14	3.3	14	84	0	56	47	26	2	23	1.63
36736--37016	20	14.1	20	68	18	108	43	5	4	46	1.49
36732--36855	22	5.2	25	71	20	70	44	3	3	49	1.34
36827--36902	39	1.9	39	84	5	100	40	7	5	46	1.56
36359--37002	349	1.9	347	89	8	1015	43	9	4	42	1.55
36951--37016	22	3.1	22	79	16	93	45	6	3	45	1.43
37019--37478	204	2.2	202	88	7	658	28	13	8	49	1.70
38646--38689	23	1.9	23	90	0	70	54	2	0	43	1.12
39222--39278	30	1.9	30	88	0	87	59	3	5	31	1.36
39787--40635	216	3.9	216	96	0	1522	24	9	16	48	1.76
42877--42924	21	2.3	20	82	10	60	18	0	8	72	1.08
48692--48730	17	2.4	17	95	4	71	43	0	5	51	1.24
49421--49496	40	1.9	38	86	5	107	48	10	13	27	1.75
50438--50484	23	2.0	23	95	0	85	25	10	8	55	1.62
51966--51997	16	2.0	16	93	0	55	56	0	15	28	1.40
54592--54626	18	1.9	18	88	0	52	60	0	0	40	0.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
56337--56393	24	2.4	23	77	5	60	47	15	12	24	1.80
56706--56744	2	19.5	2	94	0	69	51	0	0	48	1.00
56706--56749	12	3.7	12	93	0	61	52	0	0	47	1.00
63524--63685	80	2.0	81	93	1	281	25	20	22	31	1.98
64467--64513	15	3.1	15	87	0	58	8	17	63	10	1.49
73292--73336	14	3.1	15	75	12	58	51	15	22	11	1.75
73292--73349	28	2.1	28	90	6	91	55	15	18	10	1.68
74362--74419	2	29.0	2	100	0	116	50	0	0	50	1.00
74764--75083	160	2.0	159	88	3	473	49	8	16	25	1.74
75231--75316	31	2.6	33	90	5	131	48	4	2	44	1.36
77760--77795	19	1.9	18	94	5	63	2	44	0	52	1.15
77768--77821	24	2.2	25	77	9	58	3	51	0	44	1.19
78515--78605	33	2.8	33	93	0	128	25	27	38	8	1.85
78515--78601	10	8.1	10	69	14	57	25	27	37	9	1.86
78607--78675	29	2.3	30	85	5	104	20	30	33	15	1.94
78656--78723	29	2.3	30	87	5	102	16	32	30	20	1.94
78726--78808	33	2.5	33	92	0	130	9	38	25	26	1.86
78730--78893	10	15.1	10	65	15	58	12	33	28	25	1.92
78774--78826	23	2.3	23	93	0	88	16	30	26	26	1.97
78820--78871	20	2.6	20	87	0	77	13	26	34	25	1.93
79194--79253	29	2.1	29	96	0	111	18	35	31	15	1.91
80158--80573	147	2.8	147	78	5	401	33	14	25	25	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
83799--83878	39	2.1	39	97	0	151	33	21	20	25	1.97
90986--91036	26	2.1	25	82	13	63	29	13	39	17	1.88
94647--94688	2	21.0	2	100	0	84	50	0	0	50	1.00
97248--97292	23	2.0	23	81	0	54	22	6	11	60	1.54
97702--97774	21	3.5	22	81	7	73	45	1	1	52	1.18
97702--97779	11	7.5	11	71	16	58	46	1	1	51	1.17
97654--97769	31	3.7	30	76	7	99	43	1	6	48	1.37
98552--98623	24	2.9	24	89	4	108	30	18	12	38	1.87
102978--103073	43	2.2	43	90	1	147	48	29	5	16	1.68
107798--107831	16	2.1	16	94	0	59	32	8	26	32	1.87
113489--113550	31	2.0	32	87	6	92	53	9	6	30	1.59
113656--113761	42	2.5	42	98	0	203	49	20	7	22	1.74
113682--113750	23	3.2	23	65	23	58	46	20	10	23	1.80
113663--113727	19	3.2	19	65	23	51	52	20	6	21	1.68
116276--116329	24	2.3	23	90	3	81	50	9	7	33	1.62
119179--119215	18	2.0	18	89	5	56	27	18	18	35	1.95
133021--133134	24	4.8	24	84	6	133	24	14	18	42	1.88
133070--133143	24	3.1	24	84	7	80	21	14	17	45	1.84
136314--136357	20	2.1	21	83	4	54	31	25	0	43	1.55
139324--139445	60	2.1	59	85	4	165	31	18	20	29	1.97
139337--139466	60	2.2	60	84	2	163	30	16	21	30	1.96
140497--140572	39	1.9	39	97	0	143	35	21	5	38	1.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
151346--151459	61	1.9	60	81	1	138	33	18	13	35	1.89
153106--153156	20	2.6	20	90	3	77	49	17	17	15	1.81
153230--153567	20	16.5	20	78	9	335	35	27	17	19	1.95
153230--153565	82	4.1	81	83	6	385	35	27	17	19	1.94
153249--153547	122	2.4	122	86	4	424	35	27	17	19	1.94
153936--154025	14	5.7	14	69	23	63	8	24	21	45	1.80
153926--154033	33	3.3	33	97	0	207	9	24	18	48	1.77
153926--154011	19	5.1	19	67	24	75	9	23	19	47	1.78
155801--155927	64	2.0	64	90	1	202	22	11	15	51	1.75
156037--156093	14	3.7	14	75	20	60	43	21	24	10	1.83
156019--156112	33	2.8	33	93	0	161	44	23	22	9	1.82
156019--156117	19	5.7	18	72	22	70	45	23	22	9	1.80
156124--156239	19	6.6	18	71	19	77	10	18	25	45	1.81
156127--156223	33	2.9	33	90	0	149	9	19	23	47	1.78
156620--156738	42	2.8	42	81	5	107	23	36	17	22	1.95
158094--158123	14	2.1	14	93	0	51	36	0	20	43	1.52
158027--158207	86	2.1	84	97	2	344	35	2	18	43	1.63
158175--158210	14	2.6	14	95	0	63	33	0	22	44	1.53
158317--158381	19	3.7	19	76	19	86	44	18	23	13	1.85
158393--158480	14	5.6	14	71	23	68	11	23	19	45	1.83
158386--158499	33	3.5	33	100	0	228	12	23	18	45	1.83
158407--158518	19	6.4	19	76	19	136	13	22	17	46	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
158440--158538	52	1.9	52	95	0	180	14	22	18	45	1.85
161911--162143	20	11.5	20	78	6	173	20	15	23	40	1.91
161949--162042	21	4.6	21	75	13	79	18	14	23	43	1.87
161911--162144	41	5.8	41	79	7	210	20	15	23	40	1.90
161911--162123	61	3.5	59	75	9	205	20	15	23	39	1.92
162090--162163	20	3.8	19	85	8	96	14	16	20	48	1.81
164493--164531	20	2.0	20	85	10	53	20	25	15	38	1.92
167459--167502	22	2.0	22	100	0	88	36	0	13	50	1.42
167526--167584	31	1.9	31	89	6	93	40	10	6	42	1.65
167256--167871	223	2.8	222	95	1	1108	36	5	11	46	1.64

Tables:   1   2   3