genome.fa.s8423.2.7.7.80.10.50.1000.2.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: VEPZ01008423.1 Hibiscus syriacus cultivar Beakdansim tig00111206_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1633377

Tables:   1   2   3   4   5   6   7   8   

This is table  2  of  8  ( 890 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)
199380--199434	16	3.2	18	80	14	55	76	1	1	20	0.97
201364--201477	59	1.9	59	85	3	158	30	15	25	28	1.96
201491--201743	39	6.5	39	81	4	287	36	14	17	31	1.90
201491--201743	118	2.2	116	84	4	321	36	14	17	31	1.90
201827--201913	41	2.1	42	82	2	104	33	20	19	26	1.97
201977--202066	38	2.4	38	86	0	126	32	16	18	32	1.94
202319--202410	38	2.4	38	94	0	157	34	16	16	32	1.91
202478--202599	41	3.0	40	79	5	120	29	22	22	26	1.99
201898--202865	343	2.8	341	89	2	1449	33	19	18	29	1.95
202658--202752	38	2.5	38	89	6	156	32	18	15	32	1.93
202670--202736	19	3.5	19	71	15	66	29	16	17	35	1.92
202910--203013	38	2.7	38	91	4	165	33	17	17	31	1.93
202916--203011	19	5.1	19	63	22	58	35	16	17	30	1.93
202583--203125	261	2.1	259	89	3	824	32	19	17	30	1.95
203262--203464	58	3.6	56	75	15	188	40	20	9	29	1.84
203264--203464	110	1.8	109	83	8	264	40	20	9	28	1.84
207597--207646	14	3.7	14	73	10	59	44	18	4	34	1.68
207816--207861	18	2.6	18	82	3	58	34	28	17	19	1.94
208767--208819	21	2.5	22	84	9	74	28	24	15	32	1.95
226391--226444	26	2.1	26	85	0	72	24	12	24	38	1.90
229899--229942	18	2.4	18	84	3	61	56	6	0	36	1.26
230425--230475	23	2.2	23	78	0	57	37	21	21	19	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
230562--230591	16	1.9	15	93	6	51	43	23	6	26	1.78
233160--233209	25	2.0	25	88	0	73	44	22	8	26	1.80
234234--234503	29	9.3	29	88	3	346	48	15	1	34	1.54
234351--234403	17	3.4	17	65	24	53	49	16	3	30	1.64
234246--234503	89	3.0	85	86	3	363	48	15	1	34	1.55
237620--237694	31	2.4	32	81	2	89	16	24	32	28	1.96
242307--242390	24	3.5	24	83	3	114	22	17	21	38	1.94
244746--244785	19	2.0	20	90	4	64	37	15	0	47	1.45
245934--245965	11	2.9	11	95	0	55	71	18	6	3	1.20
247321--247978	181	3.6	182	87	4	920	41	13	16	27	1.87
250232--250268	9	4.1	9	85	0	56	27	8	54	10	1.63
250234--250272	18	2.2	18	95	0	69	30	7	51	10	1.64
250301--250334	15	2.3	15	94	0	59	23	5	58	11	1.55
250454--250584	65	2.0	66	82	4	158	29	1	44	25	1.63
250675--250709	17	2.1	17	94	0	61	57	0	37	5	1.23
254742--255853	200	5.6	199	86	3	1432	39	14	15	30	1.87
260246--260276	15	2.1	15	100	0	62	48	19	6	25	1.72
260387--260957	199	2.9	198	87	2	806	38	12	14	34	1.84
261128--261187	23	2.6	23	86	0	75	35	13	8	43	1.74
265984--266009	7	3.7	7	100	0	52	11	0	0	88	0.52
267351--267392	20	2.2	20	91	4	68	23	28	23	23	2.00
273816--273871	29	2.0	28	85	3	76	33	1	1	62	1.16
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
274915--274955	15	2.6	16	81	18	50	24	0	7	68	1.15
278013--278054	15	2.8	15	85	0	57	26	11	2	59	1.45
280498--280541	15	2.9	15	86	0	61	36	2	0	61	1.09
280591--280626	18	1.9	19	88	5	56	52	38	0	8	1.32
283237--283289	2	26.5	2	100	0	106	49	0	0	50	1.00
300237--300773	60	8.9	60	89	0	761	35	13	22	28	1.92
301920--302030	53	2.1	53	98	0	213	44	27	7	21	1.78
302502--302771	134	2.0	134	94	1	470	41	8	4	44	1.56
305661--305714	3	18.0	3	84	7	74	27	1	0	70	0.98
305661--305714	12	4.5	12	92	0	90	27	1	0	70	0.98
307076--307121	2	23.0	2	100	0	92	50	0	0	50	1.00
308445--308476	2	16.0	2	100	0	64	50	0	0	50	1.00
312441--312690	89	2.9	88	82	8	298	32	17	15	34	1.91
315206--315935	123	6.0	123	88	1	977	39	16	19	25	1.92
316068--316118	3	17.0	3	76	15	52	29	3	0	66	1.09
316068--316110	12	3.6	12	96	0	77	25	4	0	69	1.07
319766--319802	6	6.2	6	90	0	56	18	32	2	45	1.64
333859--333912	22	2.5	22	84	0	81	35	12	20	31	1.90
334537--334894	68	5.2	68	86	0	473	30	14	23	32	1.94
334928--335215	81	3.6	81	87	2	391	35	11	23	29	1.91
335062--335520	143	3.0	145	80	12	485	34	10	23	31	1.89
335233--335615	81	4.7	81	88	2	547	34	10	24	30	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
335021--335630	224	2.6	232	86	6	776	35	10	23	30	1.89
334937--335520	305	1.9	305	86	3	836	34	11	23	30	1.90
335601--335690	29	3.1	29	83	3	119	42	8	24	24	1.83
340632--341153	68	7.7	68	87	0	713	30	14	23	31	1.95
340632--341153	203	2.6	203	86	1	704	30	14	23	31	1.95
341106--342298	81	14.7	81	87	1	1503	35	12	22	29	1.91
342284--342373	29	3.1	29	83	0	117	41	7	24	26	1.82
346485--346520	14	2.6	14	95	0	63	38	13	22	25	1.91
347327--347784	68	6.7	68	91	0	738	30	15	24	29	1.96
347734--348941	81	14.9	81	82	2	1341	35	10	22	31	1.88
348910--348995	29	3.0	29	91	3	138	40	8	23	27	1.83
354796--354827	17	1.9	16	93	6	55	40	0	15	43	1.47
355608--355642	15	2.3	15	90	0	52	45	0	2	51	1.16
355682--355720	21	1.9	20	84	5	51	33	2	0	64	1.08
356364--356396	16	1.9	17	88	11	50	36	0	3	60	1.12
356359--356398	17	2.3	19	79	16	50	32	0	2	65	1.06
357532--357573	2	21.0	2	100	0	84	50	0	0	50	1.00
358180--358235	27	2.1	27	83	6	69	19	37	16	26	1.92
363385--363489	28	3.8	28	83	0	120	27	16	20	35	1.94
364487--364520	16	2.1	16	88	0	50	50	0	0	50	1.00
364563--364596	16	2.0	18	88	11	54	26	2	5	64	1.30
365068--365315	130	1.9	130	93	0	424	35	12	15	36	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
368126--368185	21	2.9	21	92	0	93	15	16	23	45	1.85
368299--368425	63	2.0	63	100	0	254	36	11	9	42	1.74
369316--369361	19	2.4	19	100	0	92	36	4	0	58	1.18
369894--369950	25	2.2	27	81	6	64	50	19	1	28	1.57
369893--369950	26	2.2	27	78	3	64	51	18	1	27	1.56
372082--372133	14	3.8	14	78	17	56	78	7	3	9	1.06
380858--380896	13	3.0	13	100	0	78	0	53	0	46	1.00
381034--381107	31	2.5	29	79	14	80	32	1	2	63	1.17
381318--381366	17	2.8	17	84	3	53	42	0	2	55	1.11
382320--382356	16	2.3	16	100	0	74	37	13	13	35	1.84
383986--384019	16	2.1	16	100	0	68	29	11	0	58	1.33
393800--393920	54	2.2	54	91	0	188	32	27	17	23	1.96
400479--400516	12	3.2	12	96	0	67	31	55	0	13	1.38
401874--401904	13	2.3	14	94	5	55	25	0	9	64	1.24
402411--402454	22	2.0	22	86	4	61	27	29	22	20	1.99
402417--402602	74	2.5	74	83	3	239	33	26	16	23	1.96
406180--406478	122	2.4	121	83	5	343	34	17	14	33	1.90
410520--410544	10	2.5	10	100	0	50	0	20	0	80	0.72
419917--419986	28	2.5	28	84	9	106	18	28	20	32	1.96
420017--420065	26	2.0	25	84	11	66	18	22	22	36	1.95
420027--420145	26	4.5	26	77	8	123	18	21	21	38	1.93
419952--420119	54	3.1	54	85	2	214	20	22	19	38	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
420027--420175	80	1.9	80	86	0	217	20	21	18	39	1.92
422115--422160	15	3.1	15	81	6	58	4	19	0	76	0.96
422121--422164	23	2.0	23	86	13	65	6	15	0	77	0.97
422136--422183	16	3.0	16	84	6	62	14	12	0	72	1.11
422129--422171	22	1.9	23	85	4	61	9	16	0	74	1.06
422121--422170	23	2.2	23	82	13	59	8	16	0	76	1.02
422395--422514	44	2.7	44	77	0	114	31	15	16	36	1.90
422903--423263	104	3.5	101	81	9	382	39	9	14	35	1.79
452941--453030	44	2.0	44	87	4	128	32	6	16	44	1.74
455742--455809	28	2.4	28	85	0	82	17	17	10	54	1.70

Tables:   1   2   3   4   5   6   7   8