genome.fa.s9055.2.7.7.80.10.50.1000.2.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: VEPZ01009055.1 Hibiscus syriacus cultivar Beakdansim tig00112470_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  451578

Tables:   1   2   3   

This is table  2  of  3  ( 259 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)
130671--130707	19	1.9	19	94	0	65	37	8	2	51	1.46
139284--139595	153	2.0	154	99	0	617	33	10	17	38	1.84
139972--140016	22	2.0	22	95	0	81	33	13	0	53	1.40
140222--140284	31	2.0	31	100	0	126	41	19	7	31	1.80
140776--140845	34	2.1	32	86	5	95	34	15	28	21	1.94
141281--141371	31	3.0	31	96	3	168	32	6	17	42	1.75
141436--141485	19	2.6	19	93	0	82	42	8	12	38	1.71
143433--143465	15	2.2	15	94	0	57	54	0	0	45	0.99
144267--144291	2	12.5	2	100	0	50	52	0	0	48	1.00
146653--146726	33	2.3	33	90	4	116	29	8	12	50	1.68
147070--147178	39	2.8	39	76	13	116	36	17	1	44	1.60
147674--147743	32	2.2	32	94	2	122	48	8	5	37	1.58
152802--152843	20	2.1	20	86	0	57	9	9	16	64	1.49
161214--161250	17	2.2	17	90	0	56	16	45	16	21	1.84
165201--165270	12	5.8	12	76	6	70	51	18	14	15	1.77
165201--165270	24	2.9	24	84	0	95	51	18	14	15	1.77
165199--165281	24	3.5	24	81	0	94	49	18	13	19	1.79
169444--169501	12	4.8	12	78	0	62	51	18	13	15	1.76
172252--172290	18	2.2	18	90	0	60	12	20	46	20	1.83
182821--182968	39	4.0	39	78	14	163	51	2	2	43	1.27
183211--183262	21	2.5	21	81	3	61	38	19	25	17	1.93
183248--183325	41	1.9	41	89	0	120	38	23	15	23	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
183251--183344	20	4.7	20	80	7	91	32	25	17	24	1.96
184236--184358	42	2.9	42	80	2	122	22	36	17	22	1.95
184292--184358	21	3.2	21	66	6	55	23	35	20	19	1.95
185717--185752	14	2.6	14	95	0	63	30	0	25	44	1.54
185860--185924	34	1.9	33	93	3	112	46	20	23	10	1.81
185932--186082	19	8.7	19	63	21	71	15	23	20	41	1.90
185936--186062	33	3.8	33	87	8	204	14	23	19	41	1.89
185929--186061	66	2.0	66	98	0	257	16	23	19	40	1.91
186853--186945	20	4.6	20	78	7	80	24	16	25	33	1.96
186935--187027	20	4.5	21	78	4	100	17	24	18	39	1.91
186874--187008	41	3.3	41	84	4	148	20	20	21	37	1.94
186935--187027	41	2.3	41	100	0	186	17	24	18	39	1.91
202682--202756	36	2.1	36	87	0	105	25	12	46	16	1.81
207247--207390	28	5.2	28	68	20	88	48	4	0	46	1.26
207309--207358	21	2.4	21	89	0	82	44	4	0	52	1.20
207699--207852	21	7.5	19	70	18	94	20	20	22	36	1.95
207680--207853	42	4.2	42	94	2	291	21	18	23	35	1.96
208607--208676	21	3.4	21	66	7	63	37	28	14	20	1.91
208548--208754	40	5.1	40	84	3	245	41	21	14	23	1.89
210656--210689	15	2.3	15	94	0	59	55	0	0	44	0.99
223611--223665	26	2.1	26	96	3	101	29	5	7	58	1.48
231282--231354	30	2.4	30	93	0	119	31	24	19	24	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
231340--231432	31	3.0	31	75	9	91	33	21	18	26	1.96
235301--235392	30	3.1	30	98	0	175	33	23	18	23	1.97
235301--235428	60	2.1	61	85	1	168	33	24	18	23	1.97
238664--238706	18	2.4	19	80	11	54	41	2	23	32	1.67
239439--239563	31	4.0	30	78	10	126	29	19	20	31	1.97
240412--240462	23	2.0	27	85	14	74	47	11	1	39	1.52
242608--242636	2	14.5	2	100	0	58	48	0	0	51	1.00
243158--243209	21	2.3	22	81	18	63	28	0	3	67	1.08
243165--243216	21	2.4	21	81	15	54	26	1	3	67	1.18
246955--247027	37	2.0	37	97	0	137	30	27	8	34	1.86
247054--247099	22	2.1	21	84	4	56	41	0	6	52	1.27
250284--250317	17	1.9	18	88	5	52	44	8	2	44	1.50
250308--250338	5	6.2	5	96	0	53	38	3	0	58	1.15
250495--250771	139	2.0	138	92	2	457	23	31	16	28	1.96
254989--255038	14	3.7	14	77	17	52	54	0	2	44	1.11
256468--256495	13	2.2	13	100	0	56	14	0	35	50	1.43
262465--262500	13	2.8	13	100	0	72	25	8	0	66	1.19
266605--266663	31	1.9	31	89	0	91	55	10	3	30	1.49
267914--267946	15	2.1	16	94	5	59	9	0	30	60	1.27
271148--271173	9	2.9	9	100	0	52	80	0	0	19	0.71
273311--273477	82	2.0	83	88	1	246	45	7	12	34	1.70
280407--280516	54	2.0	54	98	0	211	11	5	56	26	1.57
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
282293--282379	32	2.8	31	85	3	120	54	9	16	20	1.69
292952--293024	28	2.6	28	97	0	137	35	19	30	15	1.92
293614--293719	33	3.2	33	90	2	142	12	34	30	22	1.91
293756--293813	29	2.0	29	86	0	80	24	27	34	13	1.93
303501--303551	3	17.3	3	84	15	63	31	0	0	68	0.90
303609--303677	33	2.1	33	91	0	111	46	14	8	30	1.75
303609--303694	33	2.6	33	87	3	102	41	15	11	31	1.82
304359--304392	2	17.0	2	100	0	68	50	0	0	50	1.00
304392--304544	9	15.8	9	70	16	65	20	5	0	73	1.03
304406--304566	4	39.8	4	67	19	52	22	6	0	71	1.08
304432--304566	32	4.1	32	71	17	82	22	6	0	70	1.10
304518--304566	24	2.1	22	85	7	62	24	4	0	71	1.03
304432--304556	65	1.9	65	80	6	146	23	7	0	69	1.13
305274--305303	3	10.0	3	100	0	60	66	0	0	33	0.92
305302--305370	3	23.0	3	100	0	138	33	0	0	66	0.92
306553--306580	14	2.0	14	100	0	56	50	0	0	50	1.00
306851--306921	31	2.3	31	87	2	99	45	4	5	45	1.46
307018--307047	14	2.1	14	93	0	51	56	0	0	43	0.99
313806--313832	14	1.9	14	100	0	54	18	59	0	22	1.38
315552--315621	29	2.4	29	84	9	90	37	0	18	44	1.50
318265--318311	18	2.7	17	83	3	58	27	27	8	36	1.86
323039--323075	12	2.8	14	84	16	60	54	0	0	45	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
323191--323244	24	2.2	24	93	3	90	31	0	7	61	1.24
338552--338610	31	2.0	30	83	9	77	54	18	3	23	1.59
340626--340733	33	2.9	39	77	17	113	22	9	26	41	1.84
340616--340720	39	3.0	34	79	14	122	20	9	28	40	1.84
342974--343030	29	2.0	29	82	0	69	29	7	14	49	1.69
343875--343953	26	2.9	27	76	14	90	32	16	15	35	1.90
345385--345553	84	2.0	84	98	0	329	42	21	13	22	1.88
363496--363560	22	3.0	22	81	2	78	53	16	12	16	1.72
372416--372455	2	20.0	2	100	0	80	50	0	0	50	1.00
391325--391394	36	2.0	35	85	2	95	44	1	4	50	1.30
391585--391762	59	3.0	60	74	13	179	32	19	4	43	1.71
393642--393728	28	3.2	26	70	20	63	48	2	0	49	1.13
393691--393754	15	4.1	15	71	28	53	53	0	0	46	1.00
393685--393748	32	2.1	33	78	21	77	51	0	0	48	1.00
393727--393901	13	13.4	14	65	23	53	47	1	1	49	1.22
394181--394258	29	2.6	30	83	2	95	38	7	6	47	1.58
394203--394265	14	4.4	14	75	11	56	33	6	6	53	1.51
394179--394268	30	3.0	30	83	1	110	36	7	5	50	1.55
399851--399890	20	2.0	20	100	0	80	25	20	30	25	1.99
403535--403567	16	2.1	16	88	5	50	27	6	6	60	1.44
404300--404468	17	9.7	17	77	7	160	33	10	12	43	1.77
404324--404468	35	4.2	35	85	5	206	33	8	13	44	1.74
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
404324--404460	52	2.6	52	80	6	143	34	8	13	43	1.74
406692--406777	32	2.7	32	94	0	145	27	17	19	34	1.95
407576--407631	23	2.4	23	93	3	94	32	7	17	42	1.77
407915--407945	2	15.5	2	100	0	62	51	0	0	48	1.00
409012--409049	14	2.7	14	95	0	67	21	42	26	10	1.85
409026--409098	33	2.2	33	87	2	101	23	32	31	12	1.91
409051--409144	33	2.8	33	81	0	98	26	24	37	11	1.90
409251--409334	29	2.9	29	85	3	107	25	28	30	15	1.96
410865--410902	20	1.9	19	94	5	67	36	10	28	23	1.88
411050--411131	37	2.2	38	80	12	98	50	3	1	45	1.27

Tables:   1   2   3