genome.fa.s893.2.7.7.80.10.50.1000.2.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: VEPZ01000893.1 Hibiscus syriacus cultivar Beakdansim tig00001750_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  734264

Tables:   1   2   3   

This is table  2  of  3  ( 359 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)
193233--193322	46	2.0	43	83	10	110	48	15	22	13	1.79
211335--211408	28	2.6	29	95	2	132	37	8	12	41	1.72
211335--211421	28	3.1	27	85	8	95	39	9	10	41	1.71
213734--213818	37	2.3	37	89	2	127	43	18	4	32	1.71
218255--218373	37	3.3	37	88	5	172	44	19	5	31	1.72
218254--218373	35	3.3	36	89	5	181	44	20	5	30	1.72
230049--230081	17	1.9	17	93	0	57	15	3	6	75	1.11
232715--232762	19	2.5	20	86	3	62	47	6	14	31	1.69
233583--233631	14	3.4	14	75	10	53	28	6	10	55	1.57
234905--234980	13	5.5	13	77	14	80	15	42	22	19	1.89
234905--234980	31	2.7	26	76	18	80	15	42	22	19	1.89
234901--234969	31	2.2	31	89	0	102	17	44	20	17	1.86
234923--234959	18	2.1	18	94	0	65	16	40	24	18	1.90
237428--237490	24	2.6	24	78	9	65	22	12	17	47	1.81
240159--240192	17	2.0	17	94	0	59	38	29	14	17	1.90
250142--250221	31	2.6	30	80	11	90	42	2	3	51	1.33
250961--251036	31	2.4	32	83	12	88	50	5	1	43	1.33
254508--254540	16	2.1	16	94	0	57	36	6	15	42	1.71
256606--256661	20	2.8	20	88	0	76	17	21	19	41	1.91
257541--257881	45	7.6	45	90	3	472	29	19	11	39	1.86
268519--268580	4	15.5	4	100	0	124	0	24	0	75	0.80
268751--270466	853	2.0	855	92	1	2823	32	17	18	31	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
271587--271652	31	2.1	31	82	0	78	34	12	10	42	1.77
272183--272389	105	2.0	104	87	2	299	37	12	11	39	1.78
272883--272917	3	11.3	3	93	6	61	31	0	2	65	1.07
280669--280719	24	2.2	23	86	6	68	23	19	3	52	1.62
283333--283380	24	2.1	24	84	7	64	27	14	4	54	1.59
290323--290400	29	2.8	26	85	12	102	24	3	10	61	1.45
292148--292194	24	2.0	24	87	8	69	42	0	2	55	1.12
292152--292206	24	2.3	24	78	6	58	47	3	3	45	1.38
293220--293306	28	3.1	28	86	1	122	44	3	8	43	1.50
294341--294411	33	2.2	33	94	0	124	28	16	32	22	1.96
298847--298966	52	2.2	55	89	7	183	18	23	11	46	1.81
303544--303583	21	1.9	21	90	10	64	32	37	15	15	1.88
306441--306540	48	2.1	48	92	0	164	22	12	20	46	1.83
313331--313721	129	3.0	130	72	12	431	30	6	29	33	1.82
313149--313674	132	4.0	133	78	9	612	29	7	29	34	1.84
313706--313747	3	14.0	3	100	0	84	33	0	66	0	0.92
316627--316674	20	2.4	21	75	10	55	31	14	31	22	1.94
317076--317168	47	2.0	47	87	4	134	22	11	19	46	1.82
324294--324429	20	6.7	20	74	9	114	27	18	24	30	1.98
324288--324367	41	2.0	40	85	2	106	31	17	22	28	1.97
324294--324429	61	2.2	61	86	0	191	27	18	24	30	1.98
325023--325172	32	4.7	32	78	1	124	31	16	12	39	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
325881--325929	19	2.6	18	81	9	62	73	2	4	20	1.10
328332--328392	5	12.2	5	80	13	54	70	0	9	19	1.15
328335--328375	14	2.9	14	81	0	55	70	0	9	19	1.14
328334--328397	11	6.3	11	77	12	57	70	1	10	17	1.24
331158--331224	5	13.0	5	73	17	57	71	0	2	25	1.00
331164--331201	19	2.0	20	89	5	60	76	0	2	21	0.91
331184--331219	16	2.3	15	90	4	54	66	0	2	30	1.06
331249--331298	19	2.6	19	81	12	66	74	0	4	22	0.99
332523--332579	19	2.8	20	73	5	53	56	14	0	29	1.39
337732--337840	32	3.4	32	69	14	89	32	15	12	39	1.85
338155--338220	28	2.4	28	92	0	105	18	9	16	56	1.66
338819--338874	20	2.7	21	83	2	69	25	19	25	30	1.98
340146--340393	117	2.1	117	84	5	313	27	12	6	54	1.62
348172--348210	15	2.7	14	80	7	51	46	0	5	48	1.24
358029--358063	12	2.9	12	84	16	54	57	22	0	20	1.41
369829--369905	31	2.5	30	87	6	102	29	6	1	62	1.28
369984--370074	29	3.1	29	70	17	80	42	3	2	51	1.30
369988--370095	59	1.9	57	83	14	143	40	5	0	52	1.31
370130--370206	30	2.6	30	93	4	129	59	2	3	33	1.29
371736--371780	3	15.0	3	90	9	74	33	0	0	66	0.92
372960--373066	37	2.9	37	98	0	205	35	7	19	37	1.80
375794--375876	41	2.0	41	100	0	166	40	4	16	37	1.70
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
376508--376648	70	2.0	70	98	0	273	46	22	12	17	1.82
381648--381696	25	2.0	25	95	0	89	32	18	16	32	1.93
401308--401337	12	2.5	12	100	0	60	6	40	0	53	1.27
408556--409166	306	2.0	305	98	1	1190	31	23	18	27	1.97
410040--410078	20	2.0	20	89	0	60	33	10	23	33	1.88
411495--411537	22	2.0	22	81	9	52	27	23	0	48	1.51
414904--415044	2	71.0	2	77	12	112	44	0	4	49	1.29
418533--418568	19	1.9	19	88	5	56	22	22	8	47	1.77
422411--422448	19	2.0	20	84	5	51	15	26	15	42	1.87
422513--422633	20	5.3	20	68	24	80	22	25	10	41	1.86
422398--422646	91	2.7	93	90	5	391	22	24	11	41	1.87
422526--422613	27	3.5	27	69	20	82	22	25	11	40	1.87
422398--422646	47	5.4	47	90	4	400	22	24	11	41	1.87
428986--429295	47	6.6	47	90	3	464	22	24	10	42	1.84
429683--429736	20	2.6	20	85	5	63	27	22	14	35	1.93
429717--429904	95	2.0	95	85	4	254	30	27	15	27	1.96
432736--432771	14	2.6	14	90	0	54	25	19	30	25	1.98
448100--448146	20	2.2	22	85	11	62	0	12	10	76	1.02
460205--460324	59	2.0	59	95	0	213	40	8	14	37	1.76
464468--464507	14	2.8	15	85	11	57	42	22	15	20	1.88
465168--465208	2	21.0	2	95	5	75	48	0	0	51	1.00
465446--465495	10	5.0	10	92	0	73	38	0	0	62	0.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
465445--465492	15	3.2	15	78	0	60	33	0	0	66	0.92
465691--466150	232	2.0	232	92	0	776	36	17	18	26	1.93
472002--472051	19	2.7	18	82	17	66	8	14	6	72	1.27
472038--472071	16	2.3	14	90	10	50	0	14	2	82	0.79
476252--476337	43	2.0	43	93	0	145	53	9	9	27	1.63
480108--480140	2	16.5	2	100	0	66	48	0	0	51	1.00
480936--480977	22	2.0	20	82	17	50	14	19	26	40	1.89
481441--481715	3	92.7	3	64	25	63	55	4	2	37	1.33
481504--481699	5	38.4	5	68	23	83	56	4	1	37	1.29
481508--481539	13	2.5	13	94	0	55	65	0	0	34	0.93
481507--481713	26	7.4	27	66	25	60	55	5	1	37	1.32
482306--482353	18	2.7	18	93	0	78	6	31	29	33	1.82
482342--482462	49	2.4	51	80	9	135	27	17	19	36	1.94
492565--492602	20	1.9	20	84	10	51	73	2	13	10	1.19
494593--494678	7	12.1	7	71	11	68	50	5	2	41	1.39
494584--494674	28	3.2	27	74	19	87	50	6	2	40	1.41
494563--494662	8	12.1	9	69	18	58	53	5	1	41	1.30
501059--501103	2	22.5	2	100	0	90	51	0	0	48	1.00
501274--501318	4	10.8	4	90	4	63	75	0	2	22	0.91
502375--502442	28	2.5	27	81	9	75	73	2	4	19	1.13
502518--502892	37	10.2	37	83	9	393	45	5	3	45	1.44
502510--502887	38	10.4	36	82	11	380	44	5	3	46	1.43
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
504488--504884	41	9.7	41	77	8	308	28	19	20	31	1.97
504488--504884	40	9.7	41	77	5	302	28	19	20	31	1.97
504508--504906	82	4.9	82	80	7	359	29	19	20	31	1.97
504506--504849	122	2.8	120	78	9	311	30	19	19	30	1.96
506185--506239	23	2.4	23	87	0	74	34	0	0	65	0.93
512749--512808	6	10.3	6	84	12	54	58	0	0	41	0.98
512749--512798	14	3.6	14	84	7	59	58	0	0	42	0.98
512761--512805	3	15.7	3	81	9	58	60	0	0	40	0.97
512766--512808	11	4.1	11	85	11	63	62	0	0	37	0.95
512761--512805	20	2.2	20	92	0	72	60	0	0	40	0.97

Tables:   1   2   3