genome.fa.s8460.2.7.7.80.10.50.1000.3.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: VEPZ01008460.1 Hibiscus syriacus cultivar Beakdansim tig00111273_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2854393

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   

This is table  3  of  15  ( 1744 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)
355067--355142	21	3.7	21	87	3	93	43	17	22	17	1.88
355176--355221	19	2.3	20	85	7	67	19	17	34	28	1.94
355572--355624	22	2.5	21	82	8	72	28	9	37	24	1.86
355580--355621	22	1.9	22	95	0	75	23	11	38	26	1.90
355788--355833	20	2.3	20	92	0	74	21	13	21	43	1.86
355824--355986	20	8.1	20	93	0	263	20	19	23	36	1.95
356559--356630	35	2.1	35	94	0	126	30	22	19	27	1.98
357469--357504	2	18.0	2	100	0	72	50	0	0	50	1.00
357723--357841	43	2.8	44	83	6	131	72	3	7	16	1.22
357737--357861	43	3.0	42	77	4	117	72	3	8	16	1.22
357926--357996	7	9.3	7	73	21	54	77	0	4	18	0.93
357920--358006	11	8.0	11	71	16	65	77	0	3	19	0.92
359982--361148	83	13.9	83	89	1	1569	24	18	21	34	1.96
359988--361148	336	3.4	335	87	2	1623	24	18	21	35	1.96
359988--361148	419	2.8	420	89	1	1720	24	18	21	35	1.96
361998--362040	20	2.2	20	100	0	86	34	16	13	34	1.88
362160--362352	99	1.9	99	88	4	291	32	18	17	32	1.94
364979--365071	43	2.1	44	84	9	120	72	2	7	18	1.19
365020--365082	21	3.0	21	77	13	67	76	1	4	17	1.04
365106--365155	24	2.0	25	84	3	66	76	4	2	18	1.04
365093--365153	18	3.4	18	72	20	56	73	3	1	21	1.06
365145--365233	42	2.3	38	81	12	94	67	0	11	21	1.21
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
366438--366473	18	1.9	19	88	5	56	30	25	8	36	1.85
369876--369963	28	3.1	28	68	18	83	31	3	2	62	1.24
369751--369976	56	3.8	61	77	15	201	30	3	3	63	1.25
369886--369973	18	4.8	18	70	27	60	27	4	2	65	1.23
370034--370135	51	1.9	53	80	9	120	15	6	4	72	1.23
370203--370238	14	2.6	14	91	8	56	11	13	0	75	1.06
373965--374031	30	2.2	31	83	2	82	37	22	20	19	1.95
373978--374071	31	3.1	31	79	1	100	35	22	18	24	1.96
373993--374113	31	3.9	32	76	7	97	33	18	18	30	1.94
374410--374487	2	38.5	2	97	2	147	48	1	0	50	1.09
374742--374785	19	2.2	20	84	4	54	31	13	9	45	1.75
376190--376224	17	2.2	17	90	10	56	20	8	5	65	1.40
377865--377925	21	2.9	21	87	4	86	24	26	22	26	2.00
377867--377925	22	2.8	21	87	5	82	23	27	23	25	2.00
378488--378534	22	2.2	21	85	11	60	19	23	29	27	1.98
378576--378619	22	2.0	22	90	0	70	20	18	18	43	1.89
382435--382477	23	1.9	23	90	4	70	16	30	20	32	1.95
382436--382495	22	2.7	22	84	7	68	16	28	20	35	1.94
383817--383873	22	2.5	24	86	13	84	12	14	5	68	1.37
389055--389088	13	2.8	12	86	8	50	79	0	20	0	0.73
392305--392333	15	2.0	15	93	6	51	17	0	6	75	1.01
392353--392415	20	3.0	21	77	15	58	34	3	1	60	1.22
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
392388--392493	2	55.5	2	76	15	73	38	4	0	55	1.27
392491--392588	4	25.2	4	70	20	50	18	3	2	76	1.01
392493--392604	15	7.0	15	70	18	66	16	3	2	76	1.04
392481--392562	37	2.2	38	84	6	114	23	1	1	74	0.96
392481--392601	46	2.7	44	78	13	122	19	3	2	74	1.08
392543--392600	26	2.2	27	82	14	77	17	5	3	74	1.15
392654--392711	23	2.6	22	81	10	66	13	10	3	72	1.24
395123--395157	16	2.2	16	90	10	54	31	5	2	60	1.35
402575--402613	20	2.0	20	89	0	60	28	20	17	33	1.96
402867--402892	3	8.7	3	100	0	52	34	0	0	65	0.93
409828--409867	21	1.9	21	89	0	62	25	40	25	10	1.86
413751--413785	16	2.2	16	90	10	54	31	5	2	60	1.35
416847--416919	30	2.4	31	84	9	87	49	1	2	46	1.24
419736--419763	12	2.3	12	100	0	56	7	17	14	60	1.55
424532--424980	229	2.0	227	94	2	785	44	8	7	39	1.62
425046--425091	20	2.3	19	89	10	74	54	10	17	17	1.70
425213--425259	20	2.4	19	79	10	58	55	8	17	19	1.67
427124--427611	184	2.7	184	97	0	895	35	14	15	34	1.88
428094--428157	23	2.8	23	87	0	92	35	6	20	37	1.78
428094--428166	23	3.2	23	82	7	85	34	5	20	39	1.76
428525--428588	23	2.8	23	87	0	92	37	6	18	37	1.76
427995--429449	431	3.4	431	99	0	2892	40	8	13	38	1.74
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
428956--429019	23	2.8	23	87	0	92	35	6	20	37	1.78
428956--429028	23	3.2	23	82	7	85	34	5	20	39	1.76
429387--429451	23	2.8	23	90	0	94	35	7	18	38	1.80
429655--429691	18	2.1	18	89	0	56	32	5	10	51	1.60
429647--429693	24	2.0	24	86	0	67	34	4	14	46	1.64
438102--438177	28	2.6	29	81	8	91	26	10	13	50	1.73
446204--446253	14	3.6	14	76	15	50	44	0	0	56	0.99
446289--446414	13	9.8	13	73	22	65	37	1	0	61	1.06
446321--446426	16	6.8	16	76	15	96	34	0	0	63	1.08
446328--446420	13	7.5	13	74	17	74	34	0	1	64	1.01
446298--446422	32	3.8	32	76	13	112	36	1	0	61	1.11
447723--447755	18	1.9	17	88	11	50	30	9	24	36	1.86
449248--449275	2	14.0	2	100	0	56	50	0	0	50	1.00
456274--456315	13	3.2	13	77	9	50	28	4	0	66	1.12
456798--456968	60	2.8	60	81	9	170	33	20	5	39	1.77
457513--457601	37	2.4	37	96	0	160	44	3	8	42	1.52
462545--462597	16	3.2	16	68	5	52	47	0	5	47	1.26
462529--462600	33	2.2	33	100	0	144	48	0	5	45	1.25
462547--462600	17	3.2	17	68	5	56	48	0	5	46	1.25
462690--462767	29	2.7	29	90	5	124	48	7	5	38	1.54
464213--464252	18	2.2	19	86	4	55	60	2	0	37	1.11
471522--471551	2	15.0	2	100	0	60	50	0	50	0	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
475874--475982	32	3.5	31	77	15	82	37	0	3	58	1.16
475909--475982	32	2.4	31	84	11	89	40	0	1	58	1.07
475899--475982	32	2.7	29	80	9	87	40	0	2	57	1.12
476680--476711	15	2.1	15	100	0	64	15	12	37	34	1.85
477716--477763	21	2.3	21	85	0	60	25	39	12	22	1.89
477767--477862	21	4.5	21	84	10	131	18	34	27	19	1.96
477767--477862	44	2.2	44	92	3	160	18	34	27	19	1.96
478345--478423	28	2.8	28	82	5	88	53	5	1	40	1.31
478370--478439	34	2.1	34	88	0	104	52	4	4	38	1.41
478345--478448	28	3.5	28	73	15	84	50	5	2	40	1.41
478346--478446	34	3.2	32	74	17	102	52	5	2	38	1.41
481524--481574	19	2.5	20	84	15	68	54	0	0	45	0.99
481514--481573	23	2.6	23	79	10	61	55	0	0	45	0.99
484840--484919	35	2.3	35	83	12	94	27	10	8	53	1.63
489103--489153	2	25.5	2	95	0	93	49	0	1	49	1.12
489211--489240	15	2.0	15	93	0	51	46	3	6	43	1.46
490708--490784	31	2.5	31	93	0	127	40	19	15	24	1.90
495369--495456	43	2.1	42	86	2	122	35	11	12	40	1.79
500912--501041	24	5.4	24	76	6	102	43	16	10	30	1.82
511066--511135	22	3.2	22	100	0	140	17	28	18	35	1.93
512481--512523	17	2.6	18	85	14	65	65	2	0	32	1.06
512689--512800	49	2.3	49	100	0	224	24	22	33	20	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
520825--520915	42	2.2	42	94	2	157	50	3	3	42	1.35
520826--520901	15	5.3	15	71	15	61	52	2	2	42	1.29
520909--520948	20	2.0	21	90	5	64	37	5	2	55	1.35
523033--523172	69	2.0	69	95	0	253	47	19	10	23	1.79
524558--524594	20	1.9	19	89	10	58	45	5	24	24	1.74
525242--525270	9	3.3	9	95	4	51	31	0	0	68	0.89
525781--525847	2	33.5	2	100	0	134	49	0	0	50	1.00
525932--525988	30	1.9	29	82	10	71	33	1	1	63	1.15
528873--528920	23	2.1	23	88	0	69	35	12	18	33	1.89
529297--529350	23	2.5	20	75	18	54	42	18	1	37	1.61

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15