genome.fa.s1470.2.7.7.80.10.50.1000.1.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: VEPZ01001470.1 Hibiscus syriacus cultivar Beakdansim tig00002847_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1178067

Tables:   1   2   3   4   5   6   7   

This is table  1  of  7  ( 779 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)
13807--13852	2	23.0	2	100	0	92	50	0	0	50	1.00
16231--16280	20	2.5	21	80	6	59	40	0	6	54	1.25
16304--16338	2	17.5	2	100	0	70	51	0	0	48	1.00
17967--18330	20	18.5	20	84	5	429	34	26	19	20	1.96
19011--19057	24	2.0	24	87	8	69	25	14	21	38	1.92
21533--21852	19	18.4	19	77	18	351	47	18	20	13	1.82
21533--21833	33	8.8	33	83	12	225	47	18	20	13	1.82
21616--21874	33	7.6	34	81	13	229	47	17	20	14	1.83
21561--21874	52	6.0	52	83	10	410	46	17	21	14	1.83
21881--21982	19	5.6	19	81	12	133	16	22	16	44	1.87
21947--21990	19	2.3	19	88	0	61	20	18	15	45	1.85
22089--22125	14	2.6	14	91	0	65	45	21	0	32	1.52
24040--24168	19	7.3	19	75	17	125	45	28	17	8	1.77
24076--24168	33	2.8	32	91	4	150	46	27	18	7	1.76
24040--24168	52	2.5	52	74	14	140	45	28	17	8	1.77
24164--24280	18	6.8	18	75	17	106	8	19	25	46	1.78
24186--24242	14	3.7	14	72	20	51	7	19	28	45	1.76
24169--24296	33	3.8	33	83	7	150	9	17	26	46	1.79
24328--24790	92	5.0	93	97	2	882	46	19	12	21	1.83
26488--26577	14	5.7	14	74	23	81	42	23	25	8	1.83
26480--26594	33	3.5	33	95	0	212	45	20	24	9	1.81
26487--26599	19	6.8	18	72	23	88	43	22	24	9	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
26611--26665	14	3.6	14	73	21	56	9	25	23	41	1.83
26595--26665	33	2.2	33	94	0	124	8	22	25	43	1.81
26606--26687	33	2.5	33	89	2	119	9	25	21	42	1.84
26651--26711	20	3.0	20	85	2	77	13	26	16	44	1.84
26785--26855	33	2.2	33	92	0	115	47	18	22	11	1.80
27035--27089	22	2.5	22	81	0	74	20	16	40	23	1.91
27234--27426	20	9.6	20	82	5	219	19	19	25	35	1.95
27234--27426	60	3.2	60	83	0	251	19	19	25	35	1.95
27482--27533	20	2.6	20	96	0	95	21	13	26	38	1.90
34165--34211	22	2.1	23	84	4	60	51	4	0	44	1.21
36365--36415	12	4.3	12	76	18	54	31	0	1	66	1.03
36396--36466	12	5.8	13	73	18	55	45	0	1	53	1.09
36437--36486	19	2.6	19	83	3	55	42	2	2	54	1.23
36456--36504	19	2.6	20	84	9	59	44	2	0	53	1.12
36653--36678	7	3.7	7	100	0	52	73	0	0	26	0.84
36992--37051	31	1.9	31	89	0	93	41	10	8	40	1.69
38934--38972	18	2.2	18	90	0	60	30	30	15	23	1.95
43520--43601	32	2.6	32	86	0	92	35	18	12	34	1.88
43557--43609	16	3.2	18	71	20	60	32	16	13	37	1.88
43547--43627	32	2.5	32	89	0	117	33	12	13	40	1.82
45373--45412	21	2.0	21	95	5	73	25	27	12	35	1.92
49313--49369	15	3.7	15	77	9	69	22	35	26	15	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
49316--49378	32	2.0	32	93	0	108	25	34	22	17	1.95
49313--49381	15	4.3	16	75	10	52	23	33	26	17	1.96
49417--49459	15	2.8	16	85	7	61	25	30	30	13	1.94
53105--53471	114	3.3	113	92	1	603	44	13	15	25	1.84
53329--53761	182	2.4	182	94	0	749	42	13	16	27	1.85
53588--53925	162	2.1	162	94	0	595	42	12	17	28	1.85
53988--54052	25	2.6	25	97	0	121	38	12	15	33	1.85
54818--54865	23	2.1	23	92	0	78	37	18	8	35	1.81
55056--55082	14	1.9	14	100	0	54	40	7	14	37	1.74
57125--57150	2	13.0	2	100	0	52	50	0	0	50	1.00
57604--57656	21	2.5	21	84	0	70	22	24	18	33	1.97
57646--57734	20	4.4	20	92	0	142	35	21	20	22	1.96
57646--57749	20	5.2	20	87	4	108	35	21	19	24	1.96
57631--57773	40	3.6	39	80	8	137	34	20	19	25	1.96
58627--58686	24	2.5	24	88	0	93	25	16	18	40	1.91
61220--61306	14	5.5	14	69	24	57	43	19	25	11	1.84
61233--61331	19	5.7	18	69	24	79	45	19	24	11	1.82
61220--61327	33	3.3	33	97	0	198	44	19	25	11	1.83
61337--61416	33	2.4	33	93	0	133	11	21	21	46	1.82
61358--61416	19	3.4	19	73	22	74	13	22	18	45	1.84
61366--61416	17	3.1	17	69	25	54	13	23	17	45	1.84
61523--61559	14	2.6	14	91	0	65	45	21	0	32	1.52
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
64830--64882	20	2.7	20	82	11	81	39	20	26	13	1.89
64907--64951	19	2.4	19	88	0	63	11	13	26	48	1.75
64950--65028	20	3.9	21	85	5	85	11	17	17	53	1.73
65563--65714	20	7.6	20	87	2	90	21	20	20	38	1.94
65580--65705	20	6.2	20	87	1	144	21	19	18	40	1.92
65710--65756	21	2.2	21	81	7	60	38	14	25	21	1.92
70110--70151	21	2.0	21	86	9	59	23	45	4	26	1.73
70284--70341	21	2.8	21	78	0	62	31	0	5	63	1.16
70505--70542	14	2.6	14	91	4	58	34	0	5	60	1.19
72493--72564	9	8.3	9	72	9	51	37	2	41	18	1.65
72495--72572	36	2.1	38	88	7	115	38	3	39	17	1.68
72536--72585	24	2.1	24	84	0	64	36	4	44	16	1.66
73372--73445	31	2.3	32	93	2	123	18	6	20	54	1.66
73493--73544	26	2.0	27	88	3	79	19	1	21	57	1.50
74447--74888	83	5.4	83	84	2	498	28	20	17	33	1.95
78697--78792	47	2.0	47	87	0	138	36	11	7	44	1.68
83548--83578	16	1.9	16	93	0	53	35	0	0	64	0.94
83538--83592	26	2.1	27	83	10	69	32	1	0	65	1.03
83566--83609	19	2.2	21	84	8	56	43	2	0	54	1.12
90589--90630	18	2.6	16	81	11	50	30	16	0	52	1.44
95804--95849	22	2.1	22	87	0	65	26	26	26	21	2.00
99052--99168	62	1.9	62	82	7	148	34	18	20	26	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
108452--108503	24	2.2	24	90	10	81	69	7	7	15	1.35
111885--111914	15	2.0	15	93	0	51	50	0	3	46	1.18
113379--113442	30	2.1	30	85	0	83	34	28	18	18	1.95
114126--114249	64	1.9	65	86	4	180	26	18	17	37	1.93
114126--114266	64	2.2	63	83	7	169	26	19	17	36	1.94
114257--114336	34	2.4	34	100	0	160	28	20	12	38	1.89
116420--116487	34	2.0	35	91	2	111	57	17	13	11	1.65
116425--116533	57	1.9	58	84	5	150	56	17	11	13	1.66
116707--116748	22	1.9	22	85	0	57	50	19	11	19	1.78
116993--117024	14	2.2	15	94	5	57	31	43	15	9	1.78
119939--119983	2	22.5	2	95	0	81	46	0	2	51	1.13
120782--120816	15	2.3	15	90	0	52	37	8	5	48	1.58
123761--123787	11	2.5	11	100	0	54	14	0	0	85	0.61
130581--130626	24	1.9	24	86	8	67	54	0	8	36	1.32
131627--131711	3	27.7	3	85	4	116	37	0	1	61	1.04
137126--137157	15	2.1	15	94	0	55	25	18	9	46	1.79
144483--144567	10	8.7	10	75	19	81	84	0	15	0	0.62
144488--144566	6	11.9	7	75	18	80	84	0	15	0	0.61
144480--144567	12	6.8	12	80	18	97	84	0	15	0	0.63
144480--144567	26	3.4	26	86	10	119	84	0	15	0	0.63
144481--144567	34	2.5	36	81	10	110	83	0	16	0	0.64
144485--144558	1	74.0	1	72	0	58	86	0	13	0	0.57
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
146611--147607	113	8.8	113	96	0	1748	37	16	20	25	1.93
147543--147677	36	3.7	38	88	9	192	49	8	22	18	1.75
147593--147677	17	4.9	16	70	25	66	50	9	20	20	1.75
147436--147791	182	1.9	188	84	5	474	42	12	19	25	1.86
148031--148113	3	27.0	3	85	4	112	38	0	0	61	0.96
169168--169208	18	2.3	18	91	4	66	63	2	4	29	1.28
169250--169289	10	4.0	10	83	0	53	42	0	27	30	1.56
178584--178660	3	27.3	3	79	12	92	2	29	0	67	1.04
178584--178683	34	2.9	34	91	7	148	5	29	0	66	1.13
179570--179618	16	3.2	15	83	11	64	69	0	28	2	1.00

Tables:   1   2   3   4   5   6   7