genome.fa.s9580.2.7.7.80.10.50.1000.3.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: VEPZ01009580.1 Hibiscus syriacus cultivar Beakdansim tig00116954_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1633873

Tables:   1   2   3   4   5   6   

This is table  3  of  6  ( 709 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)
386203--386314	35	3.2	35	78	5	118	36	1	19	41	1.62
386500--386530	15	2.1	15	100	0	62	25	22	6	45	1.76
402845--403018	84	2.1	84	80	9	203	22	14	36	25	1.93
409643--410014	184	2.0	187	98	1	723	31	19	25	23	1.98
431594--431622	2	14.5	2	100	0	58	48	0	0	51	1.00
434523--434571	24	2.0	24	100	0	98	24	20	16	38	1.92
437940--437975	2	18.0	2	88	11	56	50	2	0	47	1.15
440771--440898	64	2.0	63	83	1	157	39	20	17	22	1.92
445895--446063	80	2.1	80	93	5	290	38	12	5	43	1.65
445928--446054	39	3.2	39	63	12	105	38	12	5	43	1.66
452725--452765	5	7.6	5	84	15	55	19	56	19	4	1.60
452794--452858	29	2.2	29	84	7	87	30	6	23	40	1.79
452807--452983	29	6.1	29	81	3	124	36	2	14	46	1.59
453847--453906	29	2.1	29	90	0	93	30	6	21	41	1.79
453952--454007	29	1.9	29	92	0	94	32	0	14	53	1.41
454925--455044	42	2.9	42	91	2	188	19	24	23	33	1.97
456001--456034	17	1.9	18	88	5	52	58	2	2	35	1.28
458752--458802	24	2.1	25	85	3	68	39	1	1	56	1.22
460465--460526	22	2.7	22	90	7	88	38	11	0	50	1.39
477686--477718	17	1.9	17	100	0	66	33	18	18	30	1.94
484557--484601	21	2.1	21	87	0	63	31	28	24	15	1.96
485801--485839	21	2.0	21	85	10	55	30	2	5	61	1.31
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
486264--486314	19	2.7	18	76	8	57	56	0	0	43	0.99
486802--486836	18	1.9	18	88	0	52	48	2	0	48	1.16
487272--487312	19	2.2	19	86	8	57	29	2	0	68	1.03
487273--487314	6	6.8	6	81	13	50	30	2	0	66	1.04
488189--488328	63	2.2	63	80	2	147	32	15	17	34	1.92
488176--488340	32	5.2	32	72	5	93	30	16	17	34	1.93
492232--492283	24	2.2	24	100	0	104	40	32	11	15	1.83
492249--492337	24	3.7	23	77	5	79	48	28	10	13	1.75
495176--495215	20	2.0	20	100	0	80	25	30	30	15	1.95
495803--495984	91	2.0	91	97	0	346	41	23	5	30	1.77
496092--496169	23	3.3	23	85	1	102	33	23	19	24	1.97
496179--496393	103	2.1	103	91	0	358	36	23	13	26	1.91
511542--511590	21	2.3	21	89	0	71	44	10	16	28	1.80
516142--516189	21	2.3	21	92	0	78	41	10	18	29	1.84
520868--520906	19	2.1	19	95	0	69	25	20	23	30	1.98
521577--521634	21	2.8	20	84	5	64	37	20	24	17	1.93
521643--521688	21	2.2	21	96	0	83	21	23	26	28	1.99
522936--523077	70	2.0	70	100	0	284	38	17	19	24	1.93
527056--527146	45	2.0	45	100	0	182	23	24	15	37	1.93
528107--528150	23	1.9	23	81	9	54	22	25	22	29	1.99
531843--531903	23	2.7	23	86	0	86	27	27	24	19	1.99
532011--532046	18	2.0	18	94	0	63	33	30	22	13	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
533332--533375	21	2.1	21	86	0	61	15	27	27	29	1.96
537181--537376	62	3.2	63	65	20	153	37	23	14	25	1.92
537160--537389	121	1.9	121	94	0	406	36	23	14	25	1.93
553450--553606	73	2.2	73	95	0	278	21	24	11	42	1.85
560706--560740	11	3.2	11	92	8	54	45	0	0	54	0.99
561600--561695	50	1.9	51	85	10	135	45	5	2	46	1.37
562391--562424	6	5.8	6	86	6	52	85	0	14	0	0.60
562391--562422	16	1.9	16	93	6	55	84	0	15	0	0.63
564223--564310	43	2.0	43	100	0	176	35	11	20	32	1.88
567768--567830	28	2.4	25	82	12	74	30	17	14	38	1.89
567815--567908	39	2.4	38	81	10	118	40	13	10	35	1.80
575886--575918	2	16.5	2	100	0	66	51	0	48	0	1.00
576384--576518	65	2.1	66	97	1	254	42	10	7	39	1.67
577151--577199	2	25.0	2	95	4	91	48	0	0	51	1.00
577384--577436	21	2.5	21	81	0	61	20	24	18	35	1.95
577426--577471	20	2.3	20	88	7	67	39	21	17	21	1.93
578334--578387	24	2.2	24	90	0	81	22	18	18	40	1.91
580801--580892	20	4.6	20	89	2	141	34	23	21	19	1.96
580801--580903	40	2.5	40	90	4	154	34	21	23	20	1.96
580866--580961	33	2.8	33	84	3	111	42	18	22	15	1.88
581087--581123	14	2.6	14	86	0	56	48	21	0	29	1.50
582475--582584	42	2.6	42	75	5	107	22	19	37	20	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
583066--583152	20	4.3	20	85	0	102	39	19	18	22	1.93
583126--583199	33	2.2	34	82	2	87	43	21	18	16	1.88
583286--583335	20	2.5	20	86	0	73	26	18	20	36	1.95
585264--585312	20	2.5	20	82	0	62	22	20	22	34	1.97
585876--585929	20	2.7	20	100	0	108	29	20	24	25	1.99
585918--585968	20	2.5	20	100	0	102	19	21	21	37	1.95
585965--586011	21	2.2	22	88	3	69	40	17	25	17	1.90
594616--594655	20	2.0	20	90	4	64	32	0	2	65	1.06
595947--595974	2	14.0	2	100	0	56	50	0	0	50	1.00
607097--607157	24	2.5	24	97	0	113	32	21	22	22	1.98
607713--607763	17	2.8	18	85	8	77	17	25	31	25	1.97
607629--607947	160	2.0	158	95	4	579	29	16	25	28	1.97
607873--607940	18	3.8	18	84	9	95	17	23	33	25	1.96
607873--607940	35	1.9	35	85	8	93	17	23	33	25	1.96
608756--608829	18	3.9	18	80	13	85	28	33	22	14	1.94
608744--608852	40	2.7	40	94	0	182	29	30	22	18	1.97
608744--608874	22	6.3	22	76	13	143	29	29	22	18	1.97
609408--609566	63	2.5	63	82	3	176	26	18	22	33	1.96
611997--612184	22	8.7	22	82	4	231	31	28	21	18	1.97
611977--612181	62	3.2	62	83	4	232	32	28	20	18	1.97
612711--612867	63	2.5	64	84	1	190	27	19	21	31	1.97
613640--613697	27	2.1	27	81	6	64	31	6	17	44	1.75
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
614290--614322	14	2.3	15	89	5	50	30	3	9	57	1.45
615389--615447	26	2.3	26	78	0	64	33	11	18	35	1.88
618978--619031	2	27.5	2	92	3	92	51	0	0	48	1.00
619560--619592	14	2.4	14	85	5	50	66	0	33	0	0.92
620501--620538	17	2.4	17	86	8	53	21	0	7	71	1.11
632484--632548	33	2.0	33	100	0	130	12	15	15	56	1.67
639128--639161	4	8.5	4	100	0	68	23	0	0	76	0.79
640287--640349	23	2.6	22	80	14	63	15	4	71	7	1.27
643812--643838	2	13.5	2	100	0	54	48	0	0	51	1.00
643821--643886	24	2.6	25	79	15	75	45	0	0	54	0.99
644501--644535	16	2.2	16	89	0	52	57	8	14	20	1.63
645535--645837	155	2.0	155	96	0	561	23	19	16	40	1.91
659558--659586	2	14.5	2	100	0	58	48	0	0	51	1.00
669619--669728	55	2.0	54	98	1	211	32	7	20	40	1.80
673480--673530	15	3.4	15	75	0	57	31	3	9	54	1.51
673525--673564	14	2.9	14	92	0	62	30	17	12	40	1.86
673538--673570	14	2.5	13	90	9	50	33	18	9	39	1.82
678994--679265	135	2.0	134	93	6	471	35	23	13	27	1.92
680472--680620	31	4.9	31	75	8	83	34	23	19	22	1.96
680526--680620	31	3.1	31	80	3	111	34	21	17	26	1.95
681788--681948	64	2.5	63	83	5	189	26	20	18	34	1.95
682884--682938	2	27.5	2	100	0	110	49	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
682984--683024	20	2.2	18	86	8	55	12	26	0	60	1.31
685026--685174	31	4.9	31	75	9	85	34	24	18	22	1.96
685080--685174	31	3.1	31	80	3	111	34	21	17	26	1.95
686238--686357	64	1.9	64	87	3	179	28	20	15	35	1.93
690646--690688	20	2.2	20	86	0	59	34	20	13	30	1.92
691078--691107	15	1.9	16	93	6	53	26	50	0	23	1.50
695405--695447	20	2.2	20	86	0	59	34	20	13	30	1.92
697673--697703	2	15.5	2	93	0	53	48	0	3	48	1.17
697782--697817	2	18.0	2	100	0	72	50	0	0	50	1.00
699433--699466	2	17.0	2	100	0	68	50	0	0	50	1.00

Tables:   1   2   3   4   5   6