genome.fa.s7718.2.7.7.80.10.50.1000.1.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: VEPZ01007718.1 Hibiscus syriacus cultivar Beakdansim tig00109949_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1062497

Tables:   1   2   3   4   5   6   

This is table  1  of  6  ( 633 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)
1932--1971	20	2.0	20	95	0	71	32	10	27	30	1.89
2820--2869	26	1.9	26	84	8	66	18	10	4	68	1.34
6458--6542	5	17.0	5	70	4	55	67	3	8	21	1.33
6507--6541	11	3.3	11	84	8	54	74	2	8	14	1.17
10649--10696	21	2.3	21	85	0	60	20	25	14	39	1.91
11716--12206	76	6.5	75	78	4	413	40	18	10	31	1.84
12546--12587	19	2.1	21	83	16	54	21	19	9	50	1.75
16307--16387	28	2.7	31	77	11	96	18	35	23	22	1.95
16658--17209	76	7.3	76	84	2	644	41	19	10	28	1.84
28121--28209	31	2.9	30	80	5	97	14	26	29	29	1.95
29145--29193	22	2.2	23	85	7	66	46	4	0	48	1.20
29287--29348	31	2.1	29	85	11	81	54	1	3	40	1.26
33400--33452	24	2.3	23	80	6	63	13	43	20	22	1.86
38464--38499	2	18.0	2	94	0	63	47	0	2	50	1.15
42838--43062	69	3.3	69	79	2	247	24	25	20	29	1.99
42838--43090	69	3.7	69	75	9	185	24	25	21	28	1.99
55217--55284	30	2.3	30	89	5	102	35	20	23	20	1.96
56812--56934	63	2.0	63	83	0	156	27	26	17	28	1.97
60105--60575	43	10.9	43	87	0	546	22	25	19	32	1.97
61941--62182	43	5.6	43	89	0	349	24	23	24	27	2.00
61955--62223	129	2.1	129	81	5	312	26	21	24	27	1.99
62335--62393	21	2.8	21	84	0	73	55	20	5	18	1.61
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
64342--64606	41	6.4	41	83	1	314	35	18	18	27	1.95
64325--64606	125	2.3	125	89	1	424	34	18	19	27	1.95
66589--66652	28	2.3	28	86	5	85	25	3	20	51	1.62
67845--68078	45	5.4	44	65	17	123	30	20	18	30	1.96
67777--68112	85	4.0	85	75	6	266	30	19	18	31	1.96
94404--94631	65	3.4	65	73	11	194	23	27	20	28	1.99
94820--95343	76	6.9	76	86	1	642	41	19	10	27	1.85
94868--95343	228	2.1	228	89	0	711	41	20	10	27	1.84
95291--95401	58	1.9	58	90	7	181	39	17	11	31	1.85
95216--95477	134	2.0	134	83	6	334	40	19	11	29	1.85
95355--95641	76	3.8	76	85	5	357	39	19	10	30	1.85
95134--95553	210	2.0	210	84	3	551	40	19	11	28	1.86
95610--95705	25	3.8	25	95	1	165	36	26	6	31	1.81
95467--95839	201	1.9	202	86	2	545	40	21	8	30	1.83
95657--95871	76	2.8	76	77	4	227	40	20	10	28	1.85
100219--100327	21	5.0	21	73	16	91	31	26	16	25	1.97
100255--100302	22	2.1	23	88	3	71	31	29	18	20	1.97
100461--100512	21	2.5	21	87	0	77	26	19	11	42	1.85
100514--100553	21	1.9	21	85	10	55	47	10	7	35	1.65
100701--100797	48	2.0	48	96	4	178	37	20	11	30	1.88
100940--101018	42	1.9	42	84	5	108	25	35	12	26	1.92
103786--103815	15	2.0	15	93	0	51	80	0	10	10	0.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
104341--104382	15	2.9	15	76	16	52	52	0	0	47	1.00
104879--104982	39	2.7	40	89	3	149	37	15	0	47	1.46
110672--110749	18	4.5	18	82	12	92	3	16	1	78	0.97
110666--110749	23	3.7	22	79	16	91	3	16	1	78	0.95
110664--110759	28	3.4	26	82	16	104	3	15	2	79	0.96
110667--110779	39	2.9	37	79	17	124	3	15	2	78	0.99
113584--113817	47	5.5	41	86	6	228	33	20	8	37	1.83
113706--113831	38	3.3	38	97	0	234	30	21	8	39	1.83
114300--114365	29	2.3	29	82	7	80	33	21	6	39	1.78
120480--120514	18	1.9	18	88	0	52	28	17	0	54	1.43
121757--121821	28	2.3	28	100	0	130	29	21	26	23	1.99
121857--121912	19	2.9	19	83	0	76	5	30	37	26	1.79
121879--121919	19	2.2	19	86	0	55	7	36	34	21	1.82
121923--121999	31	2.5	31	87	4	111	6	33	37	22	1.80
121923--121999	9	7.7	9	75	21	64	6	33	37	22	1.80
121931--121996	13	5.0	13	76	10	71	6	31	39	22	1.79
121925--122000	22	3.6	22	81	13	88	7	32	36	22	1.83
125697--125731	18	1.9	18	88	0	52	28	17	0	54	1.43
127043--127098	19	2.9	19	91	0	94	5	30	41	23	1.76
127133--127177	22	2.0	22	86	0	63	6	33	37	22	1.80
130830--130885	26	2.2	26	83	0	67	35	14	5	44	1.68
135977--136118	73	1.9	73	88	0	212	40	14	14	30	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
137833--137976	21	6.9	21	77	0	153	39	1	25	34	1.64
137833--137973	63	2.2	64	82	3	187	39	1	24	34	1.64
138365--138448	21	4.0	21	76	0	87	33	22	2	41	1.67
141041--141075	18	1.9	18	88	0	52	28	17	0	54	1.43
142319--142383	28	2.3	28	91	0	103	30	21	24	23	1.99
142420--142472	19	2.8	19	85	0	61	11	30	32	26	1.91
142505--142592	9	10.0	9	77	9	58	6	30	37	25	1.82
142492--142557	22	3.0	22	82	4	80	7	30	39	22	1.82
142492--142593	35	2.9	36	85	5	120	8	29	37	24	1.86
142512--142587	13	6.2	13	76	11	70	5	30	38	26	1.78
146294--146328	18	1.9	18	88	0	52	28	17	0	54	1.43
147488--147552	28	2.3	28	100	0	130	29	21	26	23	1.99
147589--147641	19	2.8	19	82	0	61	9	30	33	26	1.88
147725--147779	9	6.2	9	81	8	60	3	32	38	25	1.73
147663--147776	13	8.6	13	72	12	72	7	30	36	24	1.84
147663--147779	22	5.3	22	76	8	112	7	31	35	24	1.84
148763--148833	34	2.1	34	82	12	85	30	29	8	30	1.87
152392--152425	16	2.1	16	89	10	52	26	0	14	58	1.36
152437--152479	16	2.6	17	77	3	52	58	0	0	41	0.98
153277--153459	21	8.9	21	75	7	133	42	2	23	31	1.68
153277--153423	42	3.6	42	76	5	156	41	2	26	29	1.67
155011--155176	21	7.9	21	74	5	138	31	22	2	42	1.67
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
155009--155176	63	2.7	62	82	5	178	32	22	2	42	1.66
162358--162409	20	2.6	19	79	8	59	65	1	0	32	1.04
162542--162573	3	10.7	3	93	0	55	62	0	3	34	1.11
163910--163988	3	26.0	3	87	12	117	67	0	0	32	0.91
164321--164871	225	2.5	225	88	3	794	29	19	13	37	1.90
164321--164879	113	5.0	113	85	3	715	30	18	13	37	1.89
164320--164871	226	2.5	222	87	4	790	29	19	13	37	1.90
165571--165793	114	2.0	114	90	0	356	30	22	14	32	1.94
166087--166135	16	2.8	17	78	12	55	46	6	10	36	1.63
173879--173910	15	2.1	15	94	0	55	46	9	18	25	1.79
177836--177887	20	2.6	19	79	8	59	65	1	0	32	1.04
178025--178060	18	2.0	18	89	10	56	47	2	0	50	1.15
178016--178057	22	2.0	22	85	4	59	50	2	0	47	1.14
179438--179507	3	23.0	3	86	13	99	67	0	0	32	0.91
183384--183559	68	2.6	68	87	0	244	39	12	7	40	1.72
183438--183503	29	2.3	29	83	0	78	40	12	6	40	1.67
183554--183612	18	3.3	18	69	21	61	45	6	10	37	1.65
183556--183617	21	3.3	21	62	29	57	45	6	11	37	1.66
183543--183631	35	2.5	35	100	0	178	41	8	12	37	1.74
183572--183629	17	3.4	17	69	21	57	44	8	10	36	1.69
183999--184036	20	1.9	20	100	0	76	57	0	10	31	1.32
188871--188976	31	3.4	31	71	18	85	13	12	35	38	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
196236--196287	21	2.5	21	81	3	61	38	19	25	17	1.93
196276--196369	20	4.7	20	80	7	91	31	25	19	23	1.98
196537--196580	22	2.0	22	90	0	70	20	43	15	20	1.88
196843--196901	20	3.0	20	87	0	73	16	18	22	42	1.89
197038--197092	25	2.2	24	78	15	58	20	9	18	52	1.71
198213--198257	18	2.5	18	88	0	72	26	44	15	13	1.83
198623--198816	99	2.0	99	100	0	388	19	11	17	51	1.75
198849--198904	20	2.8	20	81	2	69	39	21	23	16	1.92
198893--198950	14	3.9	14	75	16	62	48	22	17	12	1.80
198877--198969	32	2.8	33	93	3	161	46	20	19	13	1.84

Tables:   1   2   3   4   5   6