genome.fa.s7985.2.7.7.80.10.50.1000.3.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: VEPZ01007985.1 Hibiscus syriacus cultivar Beakdansim tig00110430_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2235968

Tables:   1   2   3   4   5   6   7   8   9   

This is table  3  of  9  ( 1062 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)
325395--325456	2	31.0	2	87	6	90	50	0	3	46	1.17
329732--329984	31	8.2	31	96	0	470	32	16	12	38	1.86
330542--330703	64	2.5	64	87	4	213	25	22	20	31	1.98
331959--332044	42	2.0	42	90	0	136	26	12	33	26	1.93
341438--341469	2	16.0	2	100	0	64	50	0	0	50	1.00
342878--342923	22	2.1	22	100	0	92	32	17	8	41	1.80
344173--344228	29	1.9	29	88	0	85	14	33	30	21	1.93
344239--344294	23	2.4	23	90	0	85	8	41	26	23	1.84
344253--344303	23	2.2	23	82	0	57	13	39	23	23	1.91
345628--345669	2	21.0	2	100	0	84	50	0	0	50	1.00
346297--346362	29	2.2	31	84	10	84	54	10	6	28	1.58
353892--353940	24	2.0	24	96	0	89	30	16	16	36	1.91
354779--354852	23	3.2	22	79	9	78	33	20	28	17	1.95
357709--357772	23	2.8	23	83	4	85	31	26	25	17	1.97
357875--357906	2	16.0	2	100	0	64	50	0	0	50	1.00
359212--359256	21	2.1	21	87	0	63	15	24	28	31	1.96
362095--362125	12	2.6	12	94	0	53	3	29	16	51	1.59
366536--366588	23	2.3	23	96	0	97	16	28	28	26	1.97
367721--367759	17	2.2	18	86	4	53	30	2	5	61	1.31
368901--368934	18	1.9	17	88	5	50	23	29	0	47	1.52
370005--370036	7	4.6	7	92	0	55	56	15	12	15	1.68
375463--375531	23	3.0	23	82	0	93	30	26	24	18	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
375469--375541	23	3.2	23	66	25	55	32	23	23	20	1.98
376955--376999	21	2.1	21	91	0	72	17	22	26	33	1.96
377884--377926	17	2.6	16	78	7	50	39	25	0	34	1.56
382051--382095	21	2.1	21	84	8	56	15	22	28	33	1.95
382904--382968	29	2.2	30	91	2	105	35	7	20	36	1.81
387334--387379	2	23.0	2	100	0	92	50	0	50	0	1.00
390578--390612	17	2.0	18	88	5	54	34	0	0	65	0.93
390610--390654	23	2.0	21	84	16	56	35	2	6	55	1.38
392329--392509	90	2.0	91	97	1	346	31	17	4	46	1.68
393091--393319	82	2.8	82	77	9	225	31	17	20	29	1.96
394541--394710	43	4.0	43	78	6	157	27	20	21	30	1.98
396234--396424	40	4.7	41	72	10	151	31	24	16	27	1.96
396233--396499	81	3.3	81	89	3	378	32	22	16	29	1.95
396307--396548	41	5.9	41	75	13	223	32	22	15	29	1.94
396233--396536	81	3.8	80	88	3	350	31	22	16	29	1.95
398424--398524	24	4.0	24	93	5	148	40	3	21	33	1.72
398672--398706	18	1.9	18	94	0	61	42	2	11	42	1.55
404222--404355	21	6.4	21	74	8	85	41	18	36	3	1.69
404715--404980	43	6.2	43	73	7	157	31	24	17	26	1.97
404715--404976	86	3.1	86	70	10	212	32	24	17	25	1.97
407639--407663	2	12.5	2	100	0	50	52	0	0	48	1.00
412340--412393	27	2.0	27	96	0	99	35	22	0	42	1.54
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
418019--418047	12	2.3	13	94	5	51	13	34	17	34	1.89
418178--418215	3	12.7	3	100	0	76	31	0	0	68	0.90
419630--419671	22	1.9	22	85	9	59	23	0	4	71	1.05
422139--422308	4	42.5	4	100	0	340	25	0	24	50	1.50
427719--427763	20	2.5	17	80	19	56	24	22	11	42	1.86
432642--432696	2	27.5	2	100	0	110	49	0	0	50	1.00
432774--432812	2	19.5	2	100	0	78	51	0	0	48	1.00
438404--438535	68	2.0	67	83	10	171	50	11	26	11	1.72
439295--440068	105	7.4	105	92	1	1239	33	25	17	22	1.96
439295--440068	313	2.5	314	92	1	1273	33	25	17	22	1.96
448915--449059	3	47.7	3	88	2	218	35	0	1	62	1.04
451214--451265	20	2.6	21	76	11	56	26	7	0	65	1.20
460362--460616	53	4.9	53	83	8	310	38	13	22	25	1.91
461652--462352	75	9.4	76	94	4	1234	21	21	21	35	1.96
461652--462352	223	3.1	226	94	4	1244	21	21	21	35	1.96
461652--462351	298	2.4	298	94	4	1220	21	21	21	35	1.96
462478--462684	3	71.7	3	80	8	234	33	0	2	62	1.17
463373--463400	13	2.2	13	100	0	56	0	32	60	7	1.24
467063--467105	21	2.0	22	82	13	54	27	0	4	67	1.10
470284--470310	14	1.9	14	100	0	54	29	22	18	29	1.97
471580--471709	59	2.2	59	79	4	145	38	16	12	32	1.86
471926--471963	18	2.1	19	85	5	51	50	18	5	26	1.68
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
473013--473059	19	2.5	19	100	0	94	27	14	0	57	1.38
473124--473179	15	3.9	15	68	27	50	33	0	5	60	1.19
495178--495216	15	2.7	15	92	4	62	43	7	15	33	1.75
501026--501057	2	16.0	2	100	0	64	50	0	0	50	1.00
504916--504947	17	1.9	17	93	6	57	31	28	25	15	1.96
505539--505570	2	16.0	2	100	0	64	50	0	0	50	1.00
526033--526074	21	2.0	21	85	0	57	28	21	23	26	1.99
526157--526205	19	2.6	19	96	0	89	34	20	6	38	1.77
527008--527057	23	2.1	25	85	7	68	22	28	26	24	1.99
528720--528810	43	2.1	44	83	2	112	24	19	17	38	1.93
532116--532142	2	13.5	2	100	0	54	48	0	0	51	1.00
536627--536713	44	2.0	44	84	4	113	44	12	9	33	1.74
537325--537369	23	2.0	23	86	0	63	48	0	4	46	1.22
543831--543869	18	2.2	18	90	0	60	10	41	7	41	1.68
553095--553169	35	2.1	35	92	0	123	33	29	28	9	1.88
553245--553326	24	3.5	24	84	3	112	35	19	18	26	1.95
555727--555756	13	2.3	13	94	0	51	16	23	43	16	1.87
555735--555808	17	4.4	18	70	19	70	13	20	47	18	1.82
555751--555783	13	2.5	13	95	0	57	15	21	48	15	1.81
557831--557905	35	2.1	35	92	0	123	33	29	28	9	1.88
557981--558062	24	3.5	24	84	3	112	35	19	18	26	1.95
560456--560485	13	2.3	13	94	0	51	16	23	43	16	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
560464--560537	17	4.4	18	70	19	70	13	20	47	18	1.82
560480--560512	13	2.5	13	95	0	57	15	21	48	15	1.81
573985--574075	45	2.0	45	100	0	182	39	4	8	47	1.55
573999--574071	22	3.2	24	69	11	80	41	5	8	45	1.57
583476--583531	27	2.1	27	96	0	103	25	23	25	26	2.00
583603--583708	29	3.7	29	91	2	151	21	29	33	16	1.95
583740--583772	13	2.6	13	95	4	59	15	36	18	30	1.91
583729--583818	45	2.0	46	93	2	155	15	31	20	33	1.93
587161--587244	42	2.0	42	92	0	141	27	15	36	20	1.93
590248--590333	33	2.7	31	75	16	86	45	5	1	47	1.34
593840--593879	15	2.6	16	84	8	55	35	7	10	47	1.65
599081--599129	24	2.0	24	100	0	98	40	4	8	46	1.52
613937--613973	19	1.9	19	94	0	65	2	5	29	62	1.31
614232--614283	20	2.7	20	93	3	88	42	7	13	36	1.73
614232--614289	20	3.0	20	82	12	75	43	8	15	32	1.77
620653--620704	20	2.6	20	96	0	95	38	26	13	21	1.90
620760--620953	20	9.6	20	76	8	76	35	25	19	19	1.95
620756--620953	40	5.0	39	81	4	200	35	26	19	19	1.95
620760--620952	60	3.2	60	83	0	251	35	25	19	19	1.95
621304--621374	33	2.2	33	92	0	115	11	22	18	47	1.80
621507--621554	19	2.5	19	100	0	96	45	22	20	10	1.81
621466--621584	52	2.3	53	89	1	177	45	21	22	10	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
621580--621677	19	5.7	19	70	22	81	10	24	22	42	1.84
621602--621691	14	5.7	14	74	23	81	8	25	23	42	1.83
621585--621699	33	3.5	33	95	0	212	9	24	20	45	1.81
623390--623860	185	2.6	184	98	0	906	22	12	18	46	1.83
623390--623860	93	5.1	93	97	1	894	22	12	18	46	1.83
623904--624032	19	7.3	19	75	17	125	45	28	17	8	1.77
623940--624032	33	2.8	32	91	4	150	46	27	18	7	1.76
623904--624032	52	2.5	52	74	14	140	45	28	17	8	1.77
624045--624104	14	3.9	14	78	19	66	10	20	21	48	1.78
624028--624143	17	6.8	18	75	20	99	10	19	22	47	1.80

Tables:   1   2   3   4   5   6   7   8   9