genome.fa.s8213.2.7.7.80.10.50.1000.2.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: VEPZ01008213.1 Hibiscus syriacus cultivar Beakdansim tig00110839_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2348840

Tables:   1   2   3   4   5   6   7   8   9   

This is table  2  of  9  ( 1057 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)
219337--219627	154	1.9	149	84	8	390	36	28	13	20	1.91
219668--219800	24	5.5	24	86	1	144	51	16	12	18	1.75
219694--219755	12	5.2	12	75	7	63	50	19	14	16	1.79
226337--226392	22	2.5	22	97	0	103	42	5	23	28	1.76
228040--228080	21	2.0	21	85	0	55	73	0	2	24	0.96
229765--229793	2	14.5	2	100	0	58	51	0	0	48	1.00
233625--233658	15	2.2	16	89	5	52	26	0	2	70	1.01
233686--233724	14	2.8	14	80	0	51	33	0	7	58	1.26
234631--234666	2	18.0	2	94	0	63	47	0	2	50	1.15
241745--241790	3	15.3	3	95	0	83	32	2	0	65	1.05
242896--243028	70	1.9	70	85	0	185	32	11	21	34	1.89
243012--243055	13	3.1	15	81	18	58	43	4	15	36	1.68
243107--243206	49	2.0	49	92	0	164	48	18	11	23	1.79
248726--248823	24	4.1	24	82	5	108	23	17	21	37	1.94
248999--249025	2	13.5	2	100	0	54	0	0	48	51	1.00
253632--253699	29	2.3	30	77	7	77	44	22	5	27	1.76
253677--253787	29	3.8	29	90	1	168	45	21	9	22	1.81
253796--253848	18	2.9	18	100	0	106	15	22	45	16	1.85
261060--261127	29	2.3	29	82	0	82	45	20	7	26	1.77
261083--261214	29	4.6	29	89	0	183	46	24	7	21	1.77
261232--261268	13	2.8	13	100	0	74	10	24	48	16	1.77
261245--261307	18	3.5	18	91	0	99	12	19	49	19	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
261222--261286	31	2.1	30	88	2	94	15	21	44	18	1.86
268576--268686	29	3.8	29	85	0	159	43	20	10	25	1.84
268555--268686	58	2.3	58	85	0	174	42	21	9	25	1.84
270866--270953	24	3.7	24	85	0	122	25	20	19	35	1.96
271165--271194	2	15.0	2	100	0	60	50	0	0	50	1.00
271194--271312	2	59.5	2	100	0	238	0	0	49	50	1.00
272167--272343	88	2.0	88	98	0	345	37	13	18	29	1.89
274142--274310	47	3.6	47	84	0	212	39	15	8	35	1.79
274638--274735	51	1.9	51	83	8	128	24	23	15	36	1.93
274789--274868	25	3.2	24	67	13	63	41	15	13	30	1.85
274817--275021	75	2.7	74	85	2	268	41	17	10	30	1.83
274796--274947	26	6.1	25	69	7	94	40	17	11	29	1.85
276623--276674	17	3.0	17	76	13	52	11	25	0	63	1.28
277278--277358	25	3.2	25	92	0	126	45	16	14	23	1.84
277274--277400	50	2.5	50	80	2	130	40	18	15	25	1.89
277272--277403	25	5.3	25	80	1	77	40	18	16	24	1.90
280896--280941	21	2.2	21	92	0	74	34	10	26	28	1.90
282304--282363	8	7.4	8	76	10	50	3	13	5	78	1.04
282318--282355	18	2.2	18	85	4	51	5	13	5	76	1.13
282993--283102	46	2.4	46	84	0	139	32	9	27	30	1.88
287639--287773	46	2.9	46	83	0	189	31	7	29	31	1.85
298223--298276	22	2.4	21	79	14	54	20	11	11	57	1.63
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
298249--298648	43	9.3	43	80	6	398	26	18	6	49	1.70
298249--298666	129	3.2	130	81	6	456	26	17	6	49	1.70
304741--304780	20	2.0	20	90	9	64	22	0	5	72	1.04
305610--305656	13	3.7	13	83	8	53	44	0	6	48	1.28
305603--305663	2	31.0	2	79	9	63	45	0	4	49	1.23
305783--305823	18	2.4	17	87	4	55	48	0	2	48	1.14
305772--305875	44	2.4	43	80	15	115	47	1	4	46	1.35
305844--305902	13	4.4	13	81	8	73	47	5	3	44	1.42
306162--306265	20	5.1	21	76	16	94	42	6	7	43	1.59
306196--306266	22	3.3	22	71	23	60	43	7	4	45	1.50
306306--306372	7	9.6	7	71	0	53	43	7	2	46	1.47
306304--306372	21	3.3	21	85	0	75	43	7	2	46	1.46
306383--306433	15	3.3	15	71	15	50	41	3	3	50	1.39
306998--307030	16	2.1	16	94	0	57	57	21	12	9	1.62
307100--307160	16	3.8	16	95	0	113	55	22	13	8	1.64
307906--307961	14	4.3	14	80	17	66	53	25	12	8	1.67
307886--307960	24	3.1	24	88	3	98	56	21	10	12	1.66
308698--308756	23	2.5	24	89	8	95	44	11	0	44	1.41
308927--308970	19	2.3	19	84	7	54	43	11	0	45	1.40
312931--312986	20	2.8	20	86	2	67	33	25	17	23	1.96
312937--313011	20	3.7	21	85	7	93	34	21	17	26	1.95
315235--315287	25	2.1	25	82	6	63	43	13	13	30	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
317463--317512	21	2.5	19	80	6	55	32	22	8	38	1.83
318346--318384	20	2.0	19	85	5	51	30	20	15	33	1.94
318415--318466	20	2.6	20	81	0	59	40	23	7	28	1.82
327856--327909	22	2.5	22	84	3	74	29	18	16	35	1.93
329740--329781	21	2.0	22	81	13	52	14	0	26	59	1.35
330163--330238	24	3.3	23	85	12	95	35	7	6	50	1.58
336186--336364	95	1.9	94	85	4	245	34	17	17	30	1.93
337809--337895	37	2.4	37	86	1	113	26	19	13	40	1.89
337733--337956	102	2.2	102	96	0	412	29	19	13	36	1.91
337869--338035	80	2.1	80	96	0	307	28	19	14	37	1.92
337991--338076	36	2.4	36	84	3	111	23	22	15	39	1.91
337768--338103	182	1.8	182	92	2	568	29	19	14	36	1.91
338024--338199	97	1.8	96	85	3	246	30	19	13	36	1.90
338092--338228	65	2.1	65	85	8	179	27	20	13	38	1.90
338190--338412	37	6.4	36	75	14	180	25	21	13	39	1.90
338121--338414	138	2.1	138	92	0	489	26	20	12	39	1.89
338190--338313	36	3.4	36	82	7	153	25	20	13	39	1.90
340065--340102	2	19.0	2	100	0	76	50	0	0	50	1.00
340581--340631	5	10.2	5	83	8	68	17	3	0	78	0.90
340581--340631	16	3.4	15	86	7	68	17	3	0	78	0.90
350381--351796	706	2.0	706	98	0	2742	32	21	15	30	1.94
352085--352153	23	3.0	23	86	0	93	24	26	28	20	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
352177--352484	103	3.0	103	97	0	562	36	23	13	27	1.92
354750--354789	13	2.9	14	88	7	55	2	20	0	77	0.88
354746--354796	21	2.5	20	75	18	59	1	19	0	78	0.85
373228--373257	15	2.0	15	100	0	60	33	33	6	26	1.83
386141--386178	19	2.0	19	89	0	58	76	5	7	10	1.15
398523--398563	2	20.5	2	94	0	73	53	0	0	46	1.00
400132--400175	13	3.4	13	87	0	61	25	43	15	15	1.87
400763--400819	27	2.2	27	84	9	75	42	8	22	26	1.83
402546--402640	24	4.0	24	79	2	93	21	14	14	49	1.79
404690--404722	13	2.5	13	100	0	66	15	45	24	15	1.84
407234--407320	24	3.7	23	77	9	86	20	14	16	48	1.81
407265--407324	12	5.1	12	70	11	52	15	15	16	53	1.74
411751--411789	6	6.3	6	85	5	51	20	15	15	48	1.81
413994--414027	2	17.5	2	93	6	61	50	0	0	50	1.00
415774--415881	42	2.6	41	78	5	128	27	21	19	31	1.97
415774--415897	41	3.0	41	77	4	133	27	21	20	29	1.98
415775--416470	258	2.7	259	88	2	999	31	16	17	34	1.92
416295--416402	42	2.6	41	79	2	108	25	20	19	34	1.96
416774--417170	45	8.9	44	78	9	331	23	14	20	41	1.89
416759--417211	89	5.0	91	78	8	365	24	14	20	41	1.89
416759--417171	134	3.1	135	77	5	399	23	14	20	41	1.89
416759--417216	45	10.1	45	78	7	326	23	14	19	41	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
417139--417247	50	2.2	51	87	11	154	26	21	14	37	1.92
417139--417268	51	2.6	50	82	6	129	29	20	13	36	1.91
417818--418441	134	4.6	134	82	4	668	31	19	18	30	1.96
417863--418441	268	2.2	268	84	2	752	31	20	18	29	1.96
419816--419866	17	3.5	16	73	26	51	56	25	11	5	1.57
419834--419866	17	2.0	16	94	5	57	60	24	12	3	1.46
424664--424802	60	2.3	60	84	6	167	40	11	10	37	1.76
426402--426434	17	1.9	17	93	0	57	66	0	0	33	0.92
429583--429823	120	2.0	121	99	0	475	31	8	10	49	1.67
435383--435553	45	3.8	45	81	5	211	41	6	21	30	1.78

Tables:   1   2   3   4   5   6   7   8   9