genome.fa.s7802.2.7.7.80.10.50.1000.2.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: VEPZ01007802.1 Hibiscus syriacus cultivar Beakdansim tig00110120_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  449556

Tables:   1   2   3   

This is table  2  of  3  ( 287 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)
157671--157918	29	8.4	29	83	10	211	33	4	15	47	1.65
157671--157918	58	4.2	58	81	7	261	33	4	15	47	1.65
160815--160841	10	2.7	10	100	0	54	74	0	25	0	0.83
161191--161234	21	2.0	22	83	12	56	79	2	2	15	0.93
162390--162440	14	3.6	14	77	12	52	66	1	0	31	1.03
163844--163926	6	12.1	7	78	19	70	74	1	0	24	0.89
163839--163918	3	28.0	3	73	12	62	71	1	1	26	1.01
163839--163927	34	2.8	32	77	8	92	73	1	1	24	0.98
163846--163934	25	3.5	24	76	14	81	75	1	1	22	0.94
163857--163927	13	5.5	13	72	14	67	77	1	0	21	0.85
164283--165065	112	6.8	114	84	8	696	26	19	15	38	1.91
164521--165078	112	5.0	113	90	3	815	27	19	15	37	1.92
165437--165491	22	2.5	22	90	0	83	43	10	10	34	1.75
165859--165966	54	2.0	54	88	0	162	27	24	12	35	1.92
166256--166311	27	2.1	27	100	0	112	30	14	17	37	1.90
166799--166967	75	2.3	75	89	0	248	31	22	15	30	1.95
170712--170741	8	3.8	8	90	0	51	50	6	0	43	1.28
174270--174338	36	1.9	36	85	5	95	31	11	14	42	1.82
175194--175236	22	1.9	23	85	4	61	69	2	0	27	1.00
175204--175300	29	3.4	29	75	13	78	60	1	6	31	1.28
175216--175273	28	2.2	26	84	6	71	60	1	5	32	1.29
176125--176175	14	3.6	14	77	12	52	66	1	0	31	1.03
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
177527--177597	3	26.0	3	78	18	68	69	1	0	29	0.98
177531--177594	8	8.0	8	76	13	69	70	1	0	28	0.97
177528--177597	26	2.7	27	85	14	94	70	1	0	28	0.96
177528--177607	20	4.2	18	74	13	70	71	2	0	26	0.99
177528--177599	11	6.2	11	75	12	72	70	1	0	27	0.95
182917--182958	17	2.4	18	88	4	59	71	0	4	23	1.05
184093--184146	19	2.7	19	85	5	63	37	9	14	38	1.79
184162--184214	20	2.7	20	96	0	97	39	13	18	28	1.88
184162--184223	9	6.4	9	75	14	61	38	12	19	29	1.89
184282--184336	21	2.8	20	83	8	76	38	21	9	30	1.85
192136--192178	15	2.9	15	96	0	77	32	41	4	20	1.73
196254--196329	21	3.8	20	74	8	75	40	11	13	34	1.81
196273--196358	21	3.9	23	81	3	90	33	15	16	34	1.90
205303--205346	22	1.9	24	86	9	65	61	4	22	11	1.48
205970--206102	66	2.0	66	100	0	266	16	23	13	46	1.82
211968--212016	24	2.0	25	88	4	73	42	10	4	42	1.57
214554--214623	31	2.3	31	92	0	113	41	11	12	34	1.79
214554--214632	31	2.5	31	85	4	106	39	13	12	34	1.83
215233--215304	31	2.3	31	85	0	90	36	11	11	41	1.76
219839--219877	12	3.2	12	85	7	51	15	46	20	17	1.84
219836--219879	13	3.5	13	84	6	63	15	45	22	15	1.85
221198--221232	18	1.9	18	88	0	52	54	0	17	28	1.43
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
222335--222396	24	2.6	24	80	10	72	20	12	17	48	1.80
224824--224984	64	2.5	64	82	6	175	34	18	19	27	1.96
225558--225592	18	1.9	18	94	0	61	20	20	34	25	1.96
231740--231858	63	1.9	63	85	3	168	35	21	17	26	1.95
233347--233382	3	12.0	3	100	0	72	66	0	0	33	0.92
251453--251492	21	1.9	21	89	0	62	50	10	10	30	1.69
254601--254658	20	2.8	20	82	12	64	22	20	31	25	1.98
255290--255334	23	2.0	23	86	0	63	26	28	24	20	1.99
255313--255616	149	2.0	149	98	0	581	36	20	15	27	1.93
256095--256135	21	2.0	21	85	0	55	9	34	31	24	1.88
256096--256247	67	2.3	67	94	1	259	15	26	28	30	1.96
258988--259021	15	2.3	15	94	0	59	41	0	8	50	1.34
259493--259525	2	16.5	2	100	0	66	48	0	0	51	1.00
259404--259526	60	2.0	60	81	6	140	43	4	2	49	1.34
267732--267789	28	2.1	28	96	0	107	22	8	25	43	1.82
270504--270548	23	2.0	23	82	8	56	35	0	6	57	1.25
273535--273573	18	2.2	17	86	9	51	33	0	0	66	0.92
273544--273577	16	2.2	16	90	10	54	32	0	0	67	0.91
277785--277814	11	2.8	11	95	5	53	76	0	16	6	0.99
279074--279105	16	1.9	17	93	6	57	50	6	18	25	1.70
279536--279572	19	1.9	19	94	0	65	75	0	10	13	1.04
279831--280138	154	2.0	154	99	0	607	38	11	12	37	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
280135--280274	65	2.2	65	96	0	253	38	14	18	28	1.90
285924--285981	20	2.6	22	89	10	84	25	22	20	31	1.98
285969--286109	64	2.2	62	83	7	176	26	23	17	31	1.97
289440--289512	30	2.4	30	93	0	119	34	23	17	24	1.96
289440--289539	30	3.3	30	87	1	92	36	24	17	23	1.95
289498--289590	31	3.0	31	77	3	89	34	20	17	27	1.95
290278--290315	20	1.9	20	94	0	67	26	23	18	31	1.97
290323--290463	64	2.2	62	83	7	176	27	22	17	32	1.96
290943--290968	3	8.7	3	100	0	52	65	0	34	0	0.93
293803--293875	30	2.4	30	95	0	128	30	24	20	24	1.99
293849--293942	31	3.1	30	75	4	89	30	23	18	27	1.97
293858--293953	31	3.1	30	74	12	88	32	20	19	27	1.97
294644--294681	20	1.9	20	100	0	76	23	21	21	34	1.97
294644--294701	20	2.7	20	86	10	71	25	20	20	32	1.97
295306--295336	3	10.3	3	100	0	62	67	0	32	0	0.91
296033--296062	11	2.8	11	95	5	53	76	0	16	6	0.99
296180--296254	27	3.0	25	77	11	73	49	6	6	37	1.55
298880--299004	64	2.0	64	93	0	214	20	12	26	40	1.87
307442--307500	27	2.2	27	96	3	111	25	16	15	42	1.88
316627--316699	14	5.2	14	77	6	76	9	10	20	58	1.59
316627--316700	28	2.6	28	87	4	96	9	10	20	59	1.58
316901--316948	23	2.1	23	88	0	69	10	14	16	58	1.63
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
317756--317806	2	25.5	2	100	0	102	49	0	0	50	1.00
318389--318775	185	2.1	181	89	4	591	44	3	6	45	1.46
326542--326669	65	2.0	65	90	1	204	39	13	24	23	1.90
326997--327177	89	2.0	89	97	0	344	34	19	23	22	1.97
328722--328767	22	2.0	23	83	4	58	63	8	4	23	1.42
330774--330813	19	2.1	20	86	9	57	25	27	20	27	1.99
331120--331197	35	2.2	34	82	10	95	44	19	0	35	1.51
331199--331266	35	1.9	35	90	0	109	30	0	23	45	1.53
335273--335342	18	4.0	17	81	5	86	38	14	8	38	1.77
335273--335342	35	2.0	35	83	5	88	38	14	8	38	1.77
335739--335784	24	1.9	24	90	0	74	36	15	10	36	1.82
335749--335795	24	2.0	24	86	0	67	36	17	12	34	1.87
336410--336590	74	2.5	74	94	0	328	18	26	17	37	1.93
336849--336914	3	22.0	3	80	11	73	37	0	1	60	1.06
336849--336925	24	3.0	26	92	7	99	40	0	1	58	1.06
337647--337671	13	1.9	13	100	0	50	0	24	64	12	1.27
339162--339208	16	2.9	16	76	17	51	25	0	2	72	0.96
343553--343598	2	23.0	2	100	0	92	50	0	0	50	1.00
343892--343954	4	15.8	4	75	18	51	82	0	17	0	0.67
343896--343956	11	5.9	10	78	18	54	83	0	16	0	0.64
343908--343963	17	3.2	18	87	12	73	83	0	16	0	0.64
343892--343956	8	8.1	8	81	10	62	83	0	16	0	0.66
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
343899--343963	29	2.2	30	86	2	96	81	0	18	0	0.69
346287--346505	93	2.4	94	89	3	347	31	12	21	35	1.91
349137--349191	22	2.5	22	93	0	101	34	10	14	40	1.81
349608--350270	112	5.9	113	85	4	829	38	14	19	27	1.91
350678--351011	76	4.4	76	96	1	609	21	21	21	35	1.96
350678--351011	153	2.2	151	95	1	607	21	21	21	35	1.96
351136--351201	3	22.0	3	77	11	64	37	0	3	59	1.13
351130--351168	18	2.2	18	95	0	69	38	0	2	58	1.12
351136--351212	24	3.0	25	90	7	111	40	0	2	57	1.13
356686--356738	25	2.1	26	92	3	90	30	20	13	35	1.91

Tables:   1   2   3