genome.fa.s1677.2.7.7.80.10.50.1000.1.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: VEPZ01001677.1 Hibiscus syriacus cultivar Beakdansim tig00003354_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  162409

Tables:   1   2   

This is table  1  of  2  ( 132 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)
2--59	25	2.3	25	79	11	64	37	6	10	44	1.65
1257--1287	2	16.0	2	93	6	55	48	0	0	51	1.00
10464--10490	13	2.1	13	100	0	54	0	0	7	92	0.38
10593--10882	39	7.6	38	77	12	249	47	3	6	42	1.44
12758--12959	99	2.0	99	91	0	323	33	17	18	30	1.94
14339--14656	85	3.8	85	81	4	313	37	17	17	27	1.93
15789--15925	34	3.9	36	77	13	151	48	2	8	40	1.45
15746--15925	36	5.0	34	76	14	159	47	2	8	41	1.49
15854--15984	59	2.2	61	85	12	173	46	3	8	41	1.52
15889--15947	24	2.5	24	91	5	95	44	3	8	44	1.51
15914--16015	37	2.9	35	90	8	163	47	4	6	41	1.52
17286--17413	16	7.8	16	69	16	57	21	3	0	73	1.04
17315--17411	11	8.7	11	72	20	69	23	2	0	74	0.93
17291--17411	24	5.5	22	75	21	78	22	4	0	72	1.06
17340--17403	8	8.2	8	76	10	53	28	0	0	71	0.86
17341--17402	24	2.5	24	86	7	79	29	0	0	70	0.87
17338--17411	35	2.2	32	82	15	89	25	0	0	74	0.82
17315--17411	32	3.3	29	69	18	67	23	2	0	74	0.93
27540--27589	26	1.9	26	95	0	91	54	0	2	44	1.11
31342--31383	14	3.0	14	82	10	50	21	21	30	26	1.98
31361--31410	14	3.5	15	81	10	52	18	22	28	32	1.97
33922--34120	98	2.0	98	93	0	335	21	20	16	41	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
34636--34675	2	20.0	2	100	0	80	50	0	0	50	1.00
37578--37640	31	2.0	31	84	6	81	38	12	26	22	1.90
42356--42433	26	3.2	25	67	22	76	24	23	10	42	1.85
43059--43102	14	3.2	14	81	12	56	72	4	20	2	1.13
44280--44323	4	12.0	4	81	18	60	50	25	0	25	1.50
44284--44323	14	2.9	14	92	0	71	50	25	0	25	1.50
44268--44323	18	3.2	17	85	5	69	50	26	0	23	1.50
44268--44322	10	5.1	10	82	12	65	50	27	0	21	1.49
44673--44862	105	1.8	105	87	2	283	31	18	11	37	1.87
44873--44976	36	3.0	36	81	4	124	33	19	10	36	1.86
45221--45317	27	3.5	27	82	10	115	25	12	14	47	1.79
45235--45321	30	3.1	29	88	8	126	29	12	12	44	1.79
45400--45536	30	4.3	30	72	17	116	35	11	13	39	1.82
45423--45589	67	2.5	67	94	1	284	30	12	11	45	1.77
45423--45653	67	3.5	65	85	4	196	30	12	12	45	1.79
46551--46633	28	2.9	28	84	15	107	25	14	13	46	1.80
46589--46643	28	2.0	28	88	0	83	30	14	10	43	1.80
46677--47151	40	10.9	41	66	21	191	25	33	18	22	1.97
46659--47142	134	3.6	134	93	1	767	25	32	19	22	1.97
46659--47142	267	1.8	268	89	2	776	25	32	19	22	1.97
47068--47190	40	3.0	40	77	7	122	21	33	20	24	1.97
47341--47389	3	16.7	3	82	4	64	32	4	2	61	1.26
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
47831--47893	31	2.0	31	84	6	81	38	12	26	22	1.90
53219--53395	88	2.0	88	89	0	273	22	16	20	39	1.92
60901--60947	18	2.6	18	86	6	60	55	6	10	27	1.58
62372--62403	2	16.5	2	93	6	57	46	0	0	53	1.00
63785--63843	31	1.9	31	92	0	100	42	5	8	44	1.57
63867--64401	22	24.4	22	88	1	763	47	11	0	41	1.39
71444--71518	31	2.4	31	82	4	89	25	10	17	46	1.80
73582--73673	46	2.0	45	85	4	123	21	22	23	31	1.98
73887--73930	18	2.4	18	80	0	52	47	2	18	31	1.61
74467--74526	31	2.0	30	83	9	77	56	1	1	40	1.19
74518--74584	25	2.6	26	77	17	77	55	0	2	41	1.15
74537--74604	25	2.8	23	82	17	77	52	0	4	42	1.21
74519--74593	22	3.1	24	85	11	84	53	0	4	42	1.19
74537--74615	25	3.3	24	76	16	67	51	0	5	43	1.23
82356--82390	10	3.7	9	88	11	52	22	0	0	77	0.78
83167--83242	38	2.0	38	97	0	143	17	17	23	42	1.89
83453--83523	10	7.3	9	78	10	52	21	0	2	76	0.92
85937--85977	17	2.5	17	88	4	57	39	0	2	58	1.11
86053--86093	15	2.7	16	85	7	50	29	0	2	68	1.03
86069--86100	3	10.7	3	100	0	64	34	0	0	65	0.93
87025--87066	22	1.9	22	85	9	59	28	4	2	64	1.26
87279--87347	32	2.2	32	97	0	129	30	15	11	42	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
88761--88797	19	1.9	19	94	0	65	37	8	16	37	1.78
92004--92090	45	1.9	45	92	0	147	19	26	33	20	1.97
92120--92176	23	2.4	24	88	2	80	17	24	28	29	1.97
93303--93339	19	1.9	19	100	0	74	37	5	16	40	1.71
93720--93786	32	2.1	32	97	0	125	29	8	20	40	1.83
94941--95046	52	2.0	52	96	0	194	28	27	6	37	1.82
97831--98085	27	9.4	27	88	1	314	24	39	17	18	1.92
98044--98109	27	2.4	27	84	0	78	27	42	10	19	1.84
98222--98290	24	2.9	24	95	0	120	21	30	11	36	1.89
101454--101496	23	1.9	23	85	4	61	41	2	2	53	1.26
102429--102550	32	3.8	32	95	1	210	24	20	21	33	1.97
102782--102819	17	2.3	16	86	13	51	55	0	10	34	1.34
105831--105864	16	2.1	16	88	0	50	76	5	11	5	1.14
107241--107310	34	2.1	32	89	5	104	21	31	15	31	1.95
107658--107719	20	3.1	20	92	0	97	14	29	40	16	1.88
109198--109245	19	2.5	20	82	3	62	29	12	6	52	1.63
110521--110560	20	2.0	20	95	0	71	15	25	42	17	1.88
110890--110967	37	2.1	37	95	0	138	16	14	26	42	1.86
110996--111114	3	41.3	3	81	17	146	65	0	0	34	0.93
111120--111215	16	5.5	17	74	20	65	45	8	1	44	1.40
111139--111198	20	3.0	20	76	16	70	48	5	1	45	1.34
111122--111199	18	4.3	18	76	17	72	46	5	1	47	1.33
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
111138--111199	21	3.2	20	82	11	83	46	4	1	46	1.33
111180--111207	14	2.0	14	100	0	56	50	7	0	42	1.30
111834--111869	4	9.0	4	100	0	72	25	0	25	50	1.50
117611--117635	2	12.5	2	100	0	50	52	0	0	48	1.00
118704--118732	5	5.8	5	100	0	58	41	20	0	37	1.53
120705--120742	19	2.0	19	100	0	76	26	0	36	36	1.57
122564--122621	21	2.8	21	75	0	62	27	15	20	36	1.93
129017--129078	15	4.3	15	74	12	58	35	46	3	14	1.61
129009--129078	21	3.3	21	77	0	68	35	45	2	15	1.61
129022--129082	27	2.3	27	100	0	122	36	45	3	14	1.62
131887--131925	19	2.1	19	85	0	51	53	2	5	38	1.37
132566--132648	31	2.7	31	100	0	166	45	4	26	22	1.72
135111--135183	24	3.0	24	88	4	67	10	15	24	49	1.76
135121--135176	14	4.3	14	82	17	75	8	14	25	51	1.70
135122--135196	24	3.1	23	90	3	96	12	12	21	54	1.69
135926--135993	16	4.3	16	92	1	102	10	10	19	60	1.57
135924--135984	32	1.9	32	96	0	113	8	13	22	55	1.64
136055--136087	16	2.1	16	100	0	66	6	12	24	57	1.57
136191--136236	3	15.3	3	100	0	92	67	0	0	32	0.91
136241--136291	26	2.0	25	81	11	59	54	5	0	39	1.24
136275--136369	24	4.2	23	76	14	81	42	7	3	47	1.47
136315--136369	22	2.5	21	79	8	56	40	5	3	50	1.43
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
138553--138630	6	14.0	6	69	15	60	34	47	2	15	1.59
138551--138626	21	3.6	21	80	0	71	35	46	2	15	1.60
138564--138630	27	2.5	27	100	0	134	35	46	2	14	1.61
141451--141508	29	2.0	29	82	0	71	18	34	22	24	1.96
141548--141618	10	6.7	10	73	23	56	25	36	26	11	1.90
141551--141578	14	2.0	14	100	0	56	21	42	28	7	1.79
141565--141618	20	2.7	20	88	0	90	25	35	27	11	1.90
141707--141762	29	1.9	29	96	0	103	19	30	37	12	1.89
141791--141815	12	2.1	12	100	0	50	16	36	8	40	1.77
141833--141889	29	2.0	29	92	0	96	19	28	35	17	1.94

Tables:   1   2