genome.fa.s9152.2.7.7.80.10.50.1000.2.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: VEPZ01009152.1 Hibiscus syriacus cultivar Beakdansim tig00112678_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  885575

Tables:   1   2   3   4   

This is table  2  of  4  ( 366 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)
183338--183383	21	2.1	23	88	8	69	39	4	13	43	1.63
183790--183834	23	2.0	23	100	0	90	44	6	13	35	1.70
199001--199030	16	1.9	15	93	6	51	43	0	6	50	1.28
200364--200709	139	2.5	140	85	5	445	27	18	13	40	1.89
200638--201325	123	5.7	122	87	5	916	26	20	15	38	1.92
200638--201315	245	2.8	243	87	5	928	25	20	15	38	1.92
201376--201548	73	2.4	73	91	1	276	30	21	21	26	1.98
202204--202258	22	2.5	22	87	0	83	36	14	16	32	1.89
206917--207045	7	18.7	7	89	3	190	0	21	0	78	0.75
209240--209284	18	2.4	19	82	17	51	51	0	2	46	1.13
209123--209361	127	1.9	129	83	8	319	46	7	7	39	1.60
209349--209386	11	3.5	11	86	13	53	65	0	0	34	0.93
209497--209541	2	22.5	2	100	0	90	51	0	0	48	1.00
211705--211774	36	1.9	36	100	0	140	40	8	15	35	1.78
222407--222435	15	1.9	15	100	0	58	62	10	6	20	1.50
222537--222578	16	2.6	16	88	0	66	26	9	19	45	1.80
223796--223830	18	1.9	18	88	0	52	51	17	0	31	1.45
227445--227505	29	2.1	29	85	11	81	21	13	8	57	1.62
227597--227632	16	2.2	16	90	0	54	16	2	2	77	1.00
231770--231806	19	2.1	18	90	10	58	37	10	5	45	1.62
244395--244462	23	3.0	22	85	8	84	36	26	19	17	1.94
244594--244662	29	2.4	29	95	4	122	30	20	14	34	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
262137--262496	55	6.6	55	85	2	456	33	13	19	33	1.91
262711--263184	68	7.0	68	88	1	639	31	14	23	31	1.94
262710--263184	135	3.5	136	87	1	659	31	14	23	30	1.94
262710--263184	203	2.3	203	85	1	657	31	14	23	30	1.94
263209--263395	45	4.1	46	89	4	265	46	11	22	19	1.81
263294--263451	45	3.5	45	85	0	138	41	13	22	22	1.88
263220--263439	90	2.4	90	81	3	226	44	11	24	19	1.84
268294--268379	32	2.8	30	74	11	84	32	29	25	12	1.93
268522--268592	12	5.9	12	79	0	79	54	16	14	14	1.70
268522--268592	24	3.0	24	85	0	97	54	16	14	14	1.70
269964--269988	13	1.9	13	100	0	50	40	20	24	16	1.91
269984--270039	17	3.3	18	78	12	64	30	26	25	17	1.97
272412--272449	15	2.5	15	100	0	76	36	10	34	18	1.85
281769--281875	12	8.9	12	77	4	81	55	14	17	13	1.70
283244--283270	13	2.1	13	100	0	54	37	22	25	14	1.93
283321--283359	18	2.2	18	95	0	69	17	33	28	20	1.96
284298--284499	55	3.7	54	92	2	323	32	14	19	34	1.92
284710--285253	68	8.0	68	88	0	775	30	14	24	30	1.95
285274--285418	46	3.2	45	85	2	209	48	10	20	20	1.79
285343--285490	45	3.3	44	81	6	138	39	11	25	23	1.88
290081--291297	293	4.1	293	78	6	1205	35	15	16	32	1.90
290077--291326	602	2.1	587	78	7	1279	35	15	16	32	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
291533--291690	39	4.0	39	77	11	160	39	15	14	31	1.87
291495--291692	81	2.4	81	86	1	254	40	14	14	30	1.86
293239--293384	73	2.0	73	98	0	283	30	10	13	46	1.76
296262--296294	2	16.5	2	100	0	66	48	0	0	51	1.00
296748--296776	2	14.5	2	100	0	58	48	0	0	51	1.00
297760--297965	54	3.8	54	77	6	209	34	22	21	21	1.96
314012--314080	32	2.2	32	86	0	93	46	8	14	30	1.75
327769--327831	24	2.6	24	92	0	99	20	14	14	50	1.77
327769--327829	12	5.0	13	71	15	58	19	14	14	50	1.77
336151--336211	23	2.8	21	79	15	70	21	22	32	22	1.98
355099--355136	19	2.0	20	89	5	60	55	5	2	36	1.37
357971--358016	8	6.5	8	72	27	50	15	39	23	21	1.92
357966--357996	12	2.5	13	94	5	55	16	45	25	12	1.83
357971--358016	20	2.2	21	92	7	76	15	39	23	21	1.92
358164--358202	18	2.2	18	90	0	60	20	48	17	12	1.80
358150--358186	13	2.8	13	83	0	56	18	48	18	13	1.80
360703--360818	24	4.8	24	82	6	137	25	15	18	41	1.89
360704--360818	48	2.4	48	85	7	153	24	15	18	41	1.89
367737--367819	42	1.9	44	95	4	152	39	3	31	25	1.73
372979--373094	43	2.7	42	83	2	142	32	18	12	35	1.89
373723--373747	13	1.9	13	100	0	50	16	16	16	52	1.76
373898--373977	36	2.2	36	85	10	103	2	20	2	75	1.04
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
373928--373977	6	8.3	6	75	16	50	2	18	2	78	0.95
373915--374044	20	6.2	20	68	22	61	3	21	3	72	1.12
373905--373981	26	3.1	26	80	10	74	2	19	2	75	1.04
373933--374001	30	2.2	33	84	7	90	4	18	1	75	1.05
374010--374054	18	2.4	18	92	3	72	0	20	4	75	0.97
373894--374066	89	1.9	89	84	11	230	4	19	2	73	1.12
374759--374835	23	3.3	23	73	10	68	12	9	1	76	1.07
375013--375093	5	16.6	5	80	15	55	7	16	0	76	1.00
375013--375092	15	5.5	14	79	8	65	7	16	0	76	1.00
375013--375093	14	5.5	15	73	17	64	7	16	0	76	1.00
375886--375927	16	2.6	16	88	7	59	76	0	7	16	1.00
375936--375966	2	15.5	2	100	0	62	51	0	0	48	1.00
375964--376031	18	3.9	17	74	14	59	64	2	5	26	1.30
376218--376250	2	17.0	2	93	6	59	51	0	0	48	1.00
376795--376891	37	2.6	37	80	6	124	35	10	15	39	1.81
377623--379844	106	21.0	106	88	1	3071	24	17	23	34	1.96
380647--380745	22	4.5	22	92	0	162	22	15	26	36	1.93
381337--381417	23	3.5	22	76	14	83	6	13	8	71	1.29
381350--381422	16	4.7	15	68	17	51	5	13	8	72	1.25
381337--381426	46	2.0	46	93	4	155	6	13	8	71	1.31
381507--381608	34	2.8	37	88	10	158	43	14	13	28	1.84
381507--381642	37	3.8	35	82	9	159	41	13	13	30	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
381993--382035	18	2.5	18	81	7	54	23	4	2	69	1.18
387258--387318	16	3.6	16	73	18	52	73	0	4	21	1.01
387370--387412	22	2.0	22	81	9	52	62	0	6	30	1.21
387549--387589	2	20.5	2	100	0	82	51	0	0	48	1.00
394635--394678	22	2.0	22	86	8	63	65	0	11	22	1.24
395523--395568	22	2.1	22	84	8	58	58	2	10	28	1.43
396484--396534	21	2.4	21	96	0	93	15	43	15	25	1.86
397780--397880	37	2.7	37	85	0	130	44	12	12	29	1.80
398236--398278	18	2.5	17	85	7	61	25	4	2	67	1.22
398235--398344	56	2.0	53	81	13	125	31	3	1	62	1.23
398822--398862	22	1.9	22	85	5	57	17	9	0	73	1.09
402861--403397	183	2.9	182	92	1	871	27	20	20	31	1.97
404520--404691	72	2.3	76	80	10	185	27	17	10	44	1.81
404767--405080	101	3.1	104	86	5	442	31	19	11	37	1.87
404980--405055	36	2.1	36	90	0	116	22	21	15	40	1.90
405222--405878	105	6.3	104	88	4	875	34	26	17	21	1.96
405222--405878	209	3.2	207	87	4	880	34	26	17	21	1.96
406421--406525	37	2.8	37	85	0	138	41	14	14	29	1.85
406878--406917	18	2.3	18	83	8	57	25	5	2	67	1.23
406946--406998	17	3.2	16	76	10	54	30	3	0	66	1.10
407160--407215	21	2.7	20	75	8	58	25	3	0	71	1.02
407340--407415	38	2.1	38	83	14	97	31	5	7	55	1.51
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
411693--411823	67	2.0	67	90	0	208	23	11	22	41	1.86
427504--427591	41	2.1	41	81	8	99	26	23	19	30	1.98
429369--429502	65	2.1	64	84	6	173	29	21	17	30	1.97
429507--429579	19	3.8	19	96	0	137	20	34	23	21	1.97
435600--435637	14	2.7	14	91	0	58	42	28	7	21	1.81
442270--442319	25	2.0	25	100	0	100	24	4	28	44	1.72
450318--450427	47	2.4	45	83	7	141	39	5	20	34	1.76
457408--457437	14	2.1	14	93	0	51	40	3	6	50	1.45
458905--459522	81	7.7	81	87	3	834	36	10	21	31	1.88
463143--463338	96	2.0	96	89	1	295	30	11	15	42	1.82

Tables:   1   2   3   4