genome.fa.s9267.2.7.7.80.10.50.1000.2.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: VEPZ01009267.1 Hibiscus syriacus cultivar Beakdansim tig00112925_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1725308

Tables:   1   2   3   4   5   6   7   8   9   10   

This is table  2  of  10  ( 1110 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)
215417--215484	23	3.0	23	72	12	68	5	14	1	77	1.02
215464--215498	18	1.9	18	100	0	70	0	20	0	80	0.72
215484--215537	26	2.0	26	92	3	90	5	14	11	68	1.37
215824--215876	2	26.5	2	100	0	106	50	0	0	49	1.00
217589--217627	8	5.1	8	81	12	55	61	10	15	12	1.56
217589--217627	15	2.6	15	91	0	60	61	10	15	12	1.56
219119--219174	19	3.1	18	82	14	62	71	0	1	26	0.96
219649--219703	27	2.0	27	86	6	76	50	0	1	47	1.11
219759--219809	20	2.6	19	81	9	66	66	1	0	31	1.03
219958--219992	16	2.2	16	90	10	54	40	0	0	60	0.97
219993--220041	12	4.2	11	87	10	53	67	0	4	28	1.09
220008--220088	29	2.8	29	77	9	85	62	0	6	30	1.19
221339--221400	3	22.0	3	75	18	53	66	4	0	29	1.12
221339--221391	19	2.8	19	79	0	61	66	3	0	30	1.10
221339--221402	22	2.9	21	75	9	65	65	4	0	29	1.13
222735--222798	27	2.4	27	91	0	101	43	14	9	32	1.77
227538--227697	43	3.7	43	82	3	171	25	13	26	34	1.93
227531--227768	86	2.8	85	76	4	217	27	15	23	32	1.96
227624--227868	43	5.8	42	77	5	179	22	17	23	36	1.95
227624--227868	127	1.9	128	81	4	298	22	17	23	36	1.95
227798--227880	43	1.9	43	85	4	114	21	15	24	38	1.92
237189--237272	41	2.0	41	88	4	125	33	16	16	33	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
237197--237282	41	2.1	41	84	4	111	38	19	16	25	1.92
239083--239385	166	1.8	164	80	8	362	32	22	16	28	1.95
239077--239416	83	4.1	81	76	8	274	32	22	16	28	1.95
244217--244246	15	2.0	15	100	0	60	13	46	26	13	1.80
253885--253932	19	2.5	19	83	12	62	41	6	14	37	1.71
255422--255467	24	1.9	24	82	8	58	32	23	17	26	1.97
258110--258161	19	2.6	20	90	6	79	44	7	13	34	1.72
266030--266105	21	3.5	21	74	13	73	25	19	22	32	1.97
266046--266092	24	2.0	24	86	0	67	27	19	23	29	1.98
271922--272085	65	2.5	66	79	5	183	27	16	25	31	1.96
279070--279109	21	1.9	21	89	0	62	25	40	25	10	1.86
283629--283690	31	2.0	31	83	0	79	33	9	20	35	1.86
289845--289903	22	2.6	21	77	20	57	33	0	1	64	1.04
291130--291184	21	2.6	21	88	0	74	5	23	36	34	1.78
291477--291812	137	2.5	137	88	1	469	27	19	13	38	1.90
291744--292311	123	4.7	123	85	5	671	25	18	15	40	1.90
292502--292563	22	2.8	22	92	0	97	33	14	14	37	1.87
292896--292943	20	2.4	20	75	0	60	27	18	16	37	1.92
293579--293633	10	5.4	10	81	16	69	9	12	0	78	0.97
300880--300943	12	5.3	13	81	7	66	34	1	3	60	1.22
300888--300943	3	18.7	3	85	7	69	33	1	3	60	1.24
303846--303928	30	2.8	30	78	10	89	13	8	15	62	1.53
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
303967--304070	30	3.5	30	70	12	81	23	10	9	56	1.62
309077--309155	12	6.5	12	72	17	56	77	2	10	10	1.09
309106--309155	12	3.9	13	77	12	59	82	2	8	8	0.93
310168--310398	32	7.2	32	93	1	363	29	14	24	31	1.95
310516--310643	36	3.4	37	83	5	134	30	19	13	36	1.90
310665--310904	43	5.3	43	75	13	230	27	12	30	29	1.93
310717--310964	43	5.0	53	76	13	203	28	13	29	28	1.94
310665--310957	141	2.1	141	90	3	475	28	12	29	29	1.94
310665--311001	141	2.4	140	86	3	412	28	12	28	30	1.93
310992--311393	90	4.5	90	91	1	655	24	19	21	34	1.96
314539--314621	30	2.8	30	78	10	89	13	8	15	62	1.53
314660--314763	30	3.5	30	70	12	81	23	10	9	56	1.62
314660--314783	30	4.2	30	68	10	76	21	8	8	60	1.54
315355--315386	16	2.1	16	88	11	50	31	3	12	53	1.54
319905--319956	14	3.6	15	77	12	56	34	0	1	63	1.06
321209--321289	21	4.0	21	87	3	112	8	24	34	32	1.86
321209--321289	41	2.0	41	85	4	110	8	24	34	32	1.86
323979--324031	21	2.5	21	90	0	88	28	26	16	28	1.97
324066--324106	20	2.0	20	85	4	55	36	24	14	24	1.93
325842--325890	19	2.6	18	84	15	55	55	2	10	32	1.45
327566--327606	21	2.0	21	90	4	66	39	26	14	19	1.90
328364--328481	60	2.0	60	84	3	157	40	13	14	31	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
329551--329656	43	2.5	43	98	0	203	27	16	14	42	1.86
330619--330666	20	2.4	20	92	0	78	37	20	4	37	1.72
331275--331403	48	2.6	48	76	6	125	34	28	17	19	1.94
334502--334586	28	3.0	28	94	0	143	31	17	15	35	1.91
335671--335739	27	2.5	27	95	2	120	20	0	31	47	1.50
336268--336321	28	1.9	27	82	14	65	44	1	24	29	1.64
339262--339403	24	5.9	24	85	4	189	38	17	16	28	1.91
339367--339418	24	2.2	24	85	0	68	46	17	11	25	1.81
340191--340229	19	2.1	19	100	0	78	35	23	10	30	1.88
344241--344407	24	7.0	24	84	2	201	40	18	13	26	1.88
344237--344407	72	2.4	72	84	5	229	40	18	13	27	1.88
346785--346832	22	2.2	22	88	3	71	25	20	31	22	1.98
348998--349164	48	3.5	48	86	3	219	40	18	14	26	1.89
349001--349182	24	7.6	24	85	2	195	41	18	13	26	1.87
353381--353446	35	1.9	34	96	3	123	46	3	9	40	1.51
353898--353943	25	1.9	23	82	8	56	54	2	2	41	1.25
355053--355206	82	1.9	83	83	6	206	31	18	19	31	1.96
355053--355258	82	2.5	81	80	9	202	33	16	18	31	1.94
358274--358347	30	2.5	30	97	0	139	24	20	31	24	1.98
358657--358881	43	5.2	42	83	5	220	25	24	18	31	1.98
358674--358881	86	2.4	86	80	4	244	26	24	17	31	1.97
359936--360028	42	2.2	43	90	1	143	39	5	7	47	1.55
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
360433--360466	11	2.9	12	86	8	52	50	0	2	47	1.16
360940--360991	24	2.2	24	82	0	59	11	15	25	48	1.78
360961--360991	14	2.2	14	94	0	53	9	12	22	54	1.67
360950--361011	24	2.6	24	89	5	90	12	12	19	54	1.70
361734--361792	10	5.7	10	73	15	57	10	11	20	57	1.63
361740--361796	16	3.7	16	88	4	82	10	10	19	59	1.59
361857--361889	16	2.1	16	100	0	66	6	12	24	57	1.57
362133--362182	2	25.5	2	91	4	84	50	2	0	48	1.12
365639--365678	5	8.0	5	94	0	71	77	0	22	0	0.77
369907--369942	18	2.0	18	88	0	54	50	0	44	5	1.25
375795--375844	25	1.9	27	84	8	68	36	18	0	46	1.49
383933--383971	20	2.0	20	94	0	69	17	15	28	38	1.91
385613--385681	23	3.0	23	82	0	93	34	24	21	18	1.96
386192--386242	2	26.0	2	96	4	95	49	0	0	50	1.00
391954--393486	578	2.6	584	96	1	2753	40	16	7	35	1.77
393027--393176	80	1.9	80	88	1	228	36	22	7	33	1.82
395318--395375	28	2.1	28	78	9	66	51	8	0	39	1.33
399297--399426	64	2.0	64	93	0	224	16	13	23	46	1.83
414674--415426	373	2.0	373	97	2	1422	34	18	15	31	1.93
422034--422193	78	2.1	78	98	0	311	26	13	14	46	1.81
423111--423153	22	2.0	21	86	13	61	58	4	0	37	1.19
423725--423749	8	3.1	8	100	0	50	0	12	0	88	0.53
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
424730--424788	23	2.6	23	78	7	59	11	10	13	64	1.50
426036--426121	45	1.9	45	90	2	138	30	45	9	15	1.77
426097--426179	21	4.0	21	87	0	121	27	42	16	13	1.86
426097--426179	42	2.0	42	92	0	139	27	42	16	13	1.86
427214--427297	2	42.0	2	100	0	168	50	0	0	50	1.00
427323--427364	22	1.9	22	85	0	57	42	16	4	35	1.69
427974--428036	28	2.2	28	100	0	126	31	3	20	44	1.67
429727--429839	58	1.9	58	85	0	154	48	7	9	33	1.65
435751--435799	24	2.0	24	92	0	80	36	10	12	40	1.77
436936--436976	16	2.6	16	92	0	64	29	34	7	29	1.84

Tables:   1   2   3   4   5   6   7   8   9   10