genome.fa.s6023.2.7.7.80.10.50.1000.3.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: VEPZ01006023.1 Hibiscus syriacus cultivar Beakdansim tig00014213_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1315283

Tables:   1   2   3   4   5   6   7   8   

This is table  3  of  8  ( 899 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)
295215--295247	16	2.1	16	100	0	66	6	12	24	57	1.57
295770--295885	54	2.1	54	81	4	135	43	18	12	25	1.85
300224--300298	38	2.0	38	84	5	98	57	18	4	20	1.56
306775--306850	38	2.0	38	84	0	98	55	17	5	22	1.62
311062--311188	60	2.1	60	80	11	136	53	11	0	34	1.42
310844--311356	254	2.0	260	87	5	758	41	14	1	42	1.53
311132--311611	208	2.4	201	79	11	502	41	16	1	41	1.58
311131--311611	210	2.4	199	81	11	531	40	16	1	41	1.58
313356--313548	47	3.9	48	75	14	180	19	24	22	34	1.97
313464--313591	48	2.7	47	83	4	159	21	25	21	31	1.98
313817--313944	31	4.1	31	83	4	168	33	7	28	30	1.85
314487--314547	23	2.9	22	70	20	58	55	24	0	19	1.43
315631--315663	2	17.0	2	93	6	59	51	0	0	48	1.00
320654--320806	60	2.5	60	80	4	166	40	5	23	30	1.78
326366--326441	29	2.6	29	87	2	89	28	26	10	34	1.90
332717--332871	51	3.1	51	83	6	181	20	30	32	16	1.95
340184--340218	14	2.4	14	95	4	61	40	0	0	60	0.97
340335--340379	14	3.3	14	78	6	56	51	0	22	26	1.49
344407--344529	37	3.3	38	80	3	142	44	6	4	43	1.51
357382--357460	20	3.8	19	75	15	52	24	36	24	15	1.93
357376--357461	43	2.0	44	82	11	106	24	34	24	16	1.95
359705--359732	9	3.1	9	100	0	56	42	0	0	57	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
361323--361449	37	3.4	38	81	7	161	46	5	4	43	1.48
361638--361709	20	3.6	20	75	7	74	33	18	13	34	1.90
361828--361867	20	2.0	21	95	5	73	35	22	15	27	1.94
371159--371224	21	3.0	23	82	8	84	12	21	15	51	1.75
379224--379270	18	2.7	18	93	3	78	31	8	31	27	1.87
379260--379344	44	1.9	44	95	0	152	29	14	20	36	1.91
382088--382207	59	2.0	59	88	6	181	40	11	19	29	1.87
386861--386916	17	3.3	17	87	0	58	14	28	25	32	1.94
390262--390315	24	2.2	24	86	0	72	18	14	9	57	1.64
390460--390536	32	2.5	31	76	4	82	14	22	29	33	1.93
394841--394954	56	2.1	55	91	3	185	34	3	10	51	1.53
395137--395165	8	3.6	8	100	0	58	10	0	0	89	0.48
398340--398613	135	2.0	137	97	1	525	37	12	14	35	1.84
401186--401317	29	4.6	29	90	1	203	50	10	6	33	1.62
401186--401317	57	2.3	58	92	1	221	50	10	6	33	1.62
401344--401368	10	2.5	10	100	0	50	16	32	32	20	1.94
402432--402469	14	2.8	14	88	4	60	28	0	7	63	1.23
410922--411064	58	2.4	58	85	5	180	37	16	12	33	1.86
410931--411074	59	2.5	56	85	6	180	37	15	12	34	1.86
419378--419437	20	2.8	21	90	7	86	21	33	23	21	1.97
419420--419459	21	1.9	21	89	0	62	25	40	25	10	1.86
422933--422983	21	2.4	21	93	0	84	41	23	5	29	1.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
425271--425445	60	2.9	60	90	1	271	33	21	17	28	1.95
425271--425468	60	3.3	60	87	2	229	33	20	17	28	1.95
435092--435135	22	2.0	23	81	4	54	56	9	6	27	1.55
435971--436159	74	2.5	77	86	6	257	20	24	31	23	1.98
438721--438780	20	2.9	21	75	9	70	15	25	38	21	1.92
438721--438782	19	3.0	20	79	6	72	14	25	37	22	1.92
442589--442628	21	1.9	21	85	10	55	35	10	2	52	1.48
444551--444761	77	2.8	78	88	2	295	20	22	32	24	1.98
445364--445395	16	1.9	17	93	6	57	21	37	0	40	1.54
445710--445762	23	2.5	22	80	17	60	32	5	1	60	1.31
451436--451482	14	3.4	14	96	0	85	10	19	8	61	1.53
451882--451972	35	2.5	37	84	8	118	21	21	9	46	1.81
451919--452240	130	2.4	131	88	6	463	25	22	16	35	1.94
453130--453206	8	9.5	8	71	13	59	11	12	1	74	1.15
453141--453185	11	4.1	11	88	8	65	15	15	0	68	1.21
453144--453185	12	3.8	12	87	12	63	14	14	0	71	1.15
453130--453191	20	3.2	19	78	13	72	12	12	0	74	1.08
453141--453185	23	2.0	21	91	8	72	15	15	0	68	1.21
453133--453191	31	1.9	30	93	3	100	13	13	0	72	1.11
453157--453195	18	2.2	18	85	0	51	12	10	0	76	1.01
453136--453191	11	5.4	11	72	12	55	12	12	0	75	1.06
455642--455687	22	2.1	22	95	0	83	23	32	23	19	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
463056--463127	22	3.3	22	84	5	101	27	20	23	27	1.99
463064--463126	21	3.0	21	88	2	90	23	23	25	26	2.00
476335--476369	15	2.3	15	100	0	70	22	22	5	48	1.72
480479--480570	3	29.3	3	84	8	76	40	2	2	55	1.24
480479--480570	28	3.2	28	76	1	94	40	2	2	55	1.24
482956--482995	16	2.4	17	79	8	55	30	5	7	57	1.48
484247--484320	19	3.6	19	72	15	67	54	1	1	43	1.17
485410--485477	34	2.0	35	91	2	111	35	16	4	44	1.67
485412--485485	34	2.1	34	87	2	103	35	18	4	41	1.70
489806--489910	15	7.0	15	93	0	165	50	0	0	48	1.07
489898--489948	22	2.3	22	93	0	93	37	0	11	50	1.39
489959--490510	54	10.3	54	72	14	331	34	0	12	52	1.39
489959--490063	32	3.6	32	73	24	131	34	0	12	53	1.39
489909--490590	80	8.5	82	85	11	843	33	0	13	52	1.41
489989--490103	22	4.8	22	72	19	95	34	0	12	53	1.39
490087--490170	32	2.7	32	96	1	152	33	0	13	53	1.39
490150--490348	22	8.0	22	66	23	92	34	0	13	51	1.41
490198--490304	32	3.7	32	75	23	135	35	0	12	52	1.39
490326--490416	33	2.8	33	86	1	121	37	0	8	53	1.32
490250--490496	109	2.2	113	87	6	371	35	0	11	52	1.38
490384--490457	22	3.2	22	67	20	60	27	0	17	55	1.42
490553--490595	22	2.0	22	100	0	86	34	0	13	51	1.42
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
490620--490678	31	1.9	31	92	0	100	42	10	6	40	1.65
490696--490738	16	2.7	16	92	0	68	23	6	6	62	1.45
491282--491441	65	2.5	64	79	5	180	33	23	16	27	1.95
497255--497332	21	3.4	23	78	8	79	25	24	21	28	1.99
500028--500169	65	2.2	64	89	3	214	32	22	14	30	1.94
501735--501770	18	2.0	18	94	0	63	27	25	11	36	1.90
504391--504436	8	6.0	8	90	10	78	23	0	13	63	1.30
504382--504435	22	2.4	22	84	12	65	25	1	11	61	1.40
509486--509574	2	44.5	2	82	8	101	46	0	5	48	1.26
522916--523011	12	7.8	13	78	13	98	71	0	14	13	1.14
522916--522972	25	2.3	26	87	9	91	75	0	14	10	1.05
523527--523552	13	2.0	13	100	0	52	7	30	0	61	1.24
524037--524956	55	16.7	54	79	9	508	31	15	25	26	1.96
524034--524941	110	8.3	109	76	10	599	31	15	25	27	1.96
524034--524836	329	2.4	327	85	4	1037	32	15	25	26	1.96
524099--524671	54	10.5	53	80	10	391	32	16	24	25	1.96
524651--524941	112	2.6	110	87	2	402	30	13	25	29	1.94
525346--525424	2	39.5	2	80	9	81	45	0	6	48	1.28
525906--525948	19	2.3	19	95	0	77	55	27	16	0	1.41
529777--529825	2	24.5	2	95	0	89	51	0	2	46	1.12
530145--530197	19	2.8	19	97	0	97	47	0	0	52	1.00
530763--530799	19	1.9	19	88	0	56	32	27	16	24	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
530845--530885	21	2.0	21	95	0	73	26	17	19	36	1.94
531088--531165	22	3.5	22	84	5	95	20	39	16	23	1.92
531578--531633	20	2.8	20	86	0	67	12	14	19	53	1.72
533524--533593	20	3.5	20	90	0	113	41	22	20	15	1.90
533522--533608	40	2.2	40	82	0	111	37	20	18	22	1.94
533672--533766	33	2.8	33	90	1	145	14	18	23	43	1.87
533738--533806	20	3.5	20	93	0	120	14	17	26	42	1.87
534297--534401	21	5.0	21	77	4	113	20	34	19	26	1.96
534293--534399	42	2.5	42	79	7	126	19	34	19	26	1.96
535918--536054	34	3.9	34	75	12	123	23	20	21	35	1.96

Tables:   1   2   3   4   5   6   7   8