genome.fa.s8105.2.7.7.80.10.50.1000.20.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: VEPZ01008105.1 Hibiscus syriacus cultivar Beakdansim tig00110637_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  5962497

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   30   

This is table  20  of  30  ( 3521 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)
3695955--3696076	44	2.8	42	72	15	104	25	20	27	27	1.99
3699886--3699925	21	1.9	21	90	10	64	37	10	0	52	1.35
3701872--3702081	64	3.2	62	74	12	181	26	15	26	31	1.95
3701978--3702028	19	2.7	19	79	8	61	25	13	35	25	1.93
3702042--3702081	21	1.9	21	100	0	80	25	15	27	32	1.95
3706009--3706079	22	3.2	21	84	4	61	35	19	19	25	1.96
3706042--3706094	22	2.4	22	84	9	63	39	18	15	26	1.90
3711765--3711934	27	6.4	27	82	8	174	18	28	21	31	1.97
3715733--3715759	5	5.4	5	100	0	54	81	0	0	18	0.69
3716454--3716734	135	2.1	135	93	0	481	40	17	12	30	1.86
3716776--3716838	28	2.2	30	80	11	78	55	6	1	36	1.35
3719876--3719983	31	3.5	31	90	0	162	29	17	6	46	1.73
3723452--3724033	193	3.0	193	92	3	938	31	18	9	40	1.83
3731832--3731870	14	2.6	15	84	12	53	7	20	2	69	1.26
3731985--3732024	15	2.6	16	88	7	57	20	2	2	75	1.04
3732092--3732214	9	13.6	8	72	22	77	76	0	0	22	0.84
3732071--3732210	33	4.2	34	76	16	98	72	0	0	25	0.94
3732130--3732206	4	18.8	4	81	10	77	77	1	0	20	0.83
3732087--3732228	27	5.2	27	76	18	118	75	2	0	21	0.95
3732087--3732212	22	5.7	21	74	17	96	76	0	0	23	0.84
3733743--3734171	124	3.5	124	87	0	624	26	17	23	33	1.96
3734228--3734635	110	3.5	110	71	13	350	24	19	23	33	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3734064--3734640	240	2.4	244	88	2	858	25	18	23	32	1.97
3735743--3735999	96	2.7	95	86	4	329	31	18	16	33	1.94
3738215--3738290	38	2.0	37	85	7	100	47	0	3	48	1.20
3740351--3740431	40	2.0	40	95	2	146	37	9	25	27	1.88
3740406--3740442	20	1.9	19	89	10	58	45	10	24	18	1.81
3743931--3743970	20	2.0	21	95	5	73	32	22	20	25	1.98
3745228--3745275	19	2.5	20	86	3	62	47	6	14	31	1.69
3746763--3746802	20	2.0	21	95	5	73	32	20	20	27	1.97
3748348--3748396	16	3.2	16	77	11	57	28	2	24	44	1.65
3749586--3749669	26	3.5	23	80	16	91	38	14	17	29	1.90
3749586--3749669	22	3.5	22	79	19	82	38	14	17	29	1.90
3758502--3758571	32	2.2	32	100	0	140	38	14	17	30	1.89
3760781--3760830	23	2.1	24	85	10	68	46	2	0	52	1.12
3760789--3760838	12	4.2	12	80	12	59	46	2	0	52	1.12
3760958--3761025	19	3.6	18	70	29	52	47	1	1	50	1.19
3761021--3761065	23	2.0	23	86	0	63	53	2	2	42	1.25
3761152--3761185	14	2.4	14	85	0	50	67	0	0	32	0.91
3761168--3761227	28	2.1	30	87	12	90	53	0	0	46	1.00
3770275--3770311	20	1.9	19	89	10	58	21	21	10	45	1.82
3770974--3771040	3	22.0	3	76	14	66	37	0	1	61	1.05
3770976--3771015	20	2.0	21	90	5	64	37	0	2	60	1.11
3770974--3771018	23	1.9	24	90	4	74	35	0	2	62	1.08
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3777864--3777902	20	2.0	19	85	5	51	82	2	12	2	0.89
3779992--3780169	93	1.9	92	87	3	259	32	14	20	32	1.93
3782658--3782712	22	2.5	22	90	0	92	34	10	12	41	1.78
3783222--3784393	76	15.5	76	97	1	2104	23	21	20	35	1.96
3784521--3784585	3	21.0	3	81	6	76	38	0	1	60	1.07
3795000--3795062	21	3.0	21	81	4	72	25	25	22	26	2.00
3797824--3797905	26	3.2	26	94	0	137	41	20	6	31	1.77
3798137--3798184	12	3.8	12	76	17	53	29	2	0	68	1.01
3798310--3798334	13	1.9	13	100	0	50	16	8	0	76	1.02
3799402--3799466	31	2.1	31	82	5	78	50	0	3	46	1.17
3799474--3799523	17	2.9	17	75	0	55	60	0	4	36	1.16
3799620--3799677	29	2.0	29	83	6	73	50	0	3	46	1.18
3801345--3801389	18	2.5	18	92	0	72	31	46	8	13	1.74
3801742--3801826	42	2.0	42	100	0	170	40	14	7	38	1.73
3802203--3802245	16	2.6	16	85	7	52	58	4	4	32	1.39
3804918--3804981	3	22.0	3	78	12	71	67	1	3	28	1.15
3804920--3804983	32	2.0	32	90	6	103	65	3	4	26	1.27
3805181--3805390	89	2.4	91	88	3	302	25	19	29	26	1.98
3816478--3816521	17	2.6	17	96	0	79	36	22	4	36	1.75
3817393--3817435	16	2.6	16	85	7	52	58	4	4	32	1.39
3820109--3820169	3	21.0	3	77	12	65	67	1	3	27	1.16
3820858--3820911	28	1.9	28	92	0	90	22	7	16	53	1.67
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3824386--3824460	12	6.3	12	72	26	54	46	1	2	49	1.24
3829975--3830014	20	2.0	20	90	0	62	25	0	37	37	1.56
3833323--3833355	16	2.1	16	100	0	66	45	6	18	30	1.73
3834942--3834967	2	13.0	2	100	0	52	50	0	0	50	1.00
3835437--3835613	88	2.0	88	95	3	320	32	15	23	29	1.95
3838233--3838306	21	3.5	22	80	10	66	33	14	24	27	1.94
3838966--3839009	21	2.0	23	86	8	65	43	2	20	34	1.64
3839230--3839290	28	2.2	27	82	8	77	14	18	29	37	1.90
3839269--3839306	18	2.1	18	95	0	67	15	18	34	31	1.92
3843280--3843323	21	2.0	23	82	8	56	43	2	18	36	1.63
3843583--3843631	18	2.7	18	93	0	80	16	24	32	26	1.96
3843825--3843973	3	50.0	3	95	1	273	66	0	0	32	0.97
3847304--3847351	6	8.5	6	97	2	75	29	54	16	0	1.43
3848108--3848284	21	8.4	21	75	14	168	38	23	18	19	1.93
3848104--3848480	42	8.7	42	79	14	335	36	23	19	21	1.95
3848255--3848318	33	1.9	33	100	0	128	37	26	18	17	1.93
3848286--3848472	21	9.0	19	73	17	149	33	22	19	23	1.97
3848148--3848480	138	2.5	135	80	12	347	36	23	19	21	1.95
3848101--3848472	63	6.1	61	77	14	311	35	23	19	21	1.96
3848476--3848528	21	2.5	21	90	0	79	16	18	32	32	1.94
3848756--3848879	45	2.8	46	75	9	121	41	14	18	25	1.88
3862579--3863040	229	2.0	233	97	1	887	30	20	18	30	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3867233--3867262	15	2.0	15	100	0	60	20	6	40	33	1.78
3869787--3870664	440	2.0	438	86	4	1223	26	20	15	37	1.93
3878135--3878164	14	2.1	14	100	0	60	53	0	13	33	1.40
3886311--3886374	30	2.1	30	88	5	94	25	23	4	46	1.71
3887706--3887757	19	2.8	19	73	2	52	51	1	5	40	1.37
3896397--3896602	110	1.9	111	92	1	351	33	19	14	32	1.92
3903706--3903850	42	3.4	42	69	7	128	22	22	16	38	1.93
3903653--3903907	88	2.9	88	86	2	343	24	21	15	39	1.91
3903692--3903827	46	3.0	46	64	8	118	24	20	16	38	1.93
3904085--3904166	20	4.1	20	87	0	119	39	21	15	23	1.92
3904774--3904847	22	3.4	22	83	11	98	36	13	13	36	1.84
3904791--3904859	22	3.1	22	81	8	61	37	11	13	37	1.80
3909875--3909923	19	2.5	19	93	3	80	34	18	12	34	1.88
3911143--3911171	14	2.0	15	93	6	51	55	0	0	44	0.99
3916277--3916330	23	2.4	22	76	14	56	70	5	1	22	1.18
3919934--3920044	24	4.6	24	77	4	107	48	17	13	20	1.80
3919934--3920044	48	2.3	48	87	3	152	48	17	13	20	1.80
3924421--3924492	24	3.0	24	89	0	117	50	18	12	19	1.78
3924423--3924492	12	5.8	12	70	6	52	50	18	12	18	1.78
3924421--3924527	48	2.2	48	81	6	119	47	18	14	19	1.82
3928235--3928287	21	2.6	20	88	5	79	45	18	9	26	1.80
3929525--3929580	14	3.9	14	95	2	94	46	14	25	14	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3936161--3936191	8	4.0	8	95	4	55	61	12	0	25	1.32
3936318--3936438	31	3.9	31	89	3	172	39	19	15	24	1.91
3937100--3937142	19	2.4	17	88	11	59	27	18	13	39	1.89
3938501--3938554	21	2.6	21	96	0	99	33	14	25	25	1.95
3939828--3939868	14	2.9	14	92	7	66	48	7	19	24	1.74
3939877--3939931	28	2.0	28	96	0	101	50	18	0	30	1.47
3939877--3939928	14	3.7	14	89	0	86	51	15	0	32	1.43
3940077--3940413	168	2.0	168	97	0	629	46	7	9	36	1.64
3941824--3942014	99	1.9	99	89	2	294	30	17	17	35	1.93
3944988--3945013	6	4.3	6	100	0	52	50	0	0	50	1.00

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   30