genome.fa.s851.2.7.7.80.10.50.1000.14.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: VEPZ01000851.1 Hibiscus syriacus cultivar Beakdansim tig00001644_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  7304151

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   31   

This is table  14  of  31  ( 3618 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)
3460876--3460924	19	2.6	19	73	23	57	77	2	2	18	0.96
3460865--3460915	7	7.0	7	82	6	57	76	1	1	19	0.98
3462447--3462626	66	2.7	65	88	3	245	41	15	19	23	1.90
3462574--3462869	37	8.3	37	83	9	339	39	14	19	27	1.90
3462513--3463034	175	3.1	173	82	10	666	38	13	19	27	1.90
3462611--3462880	138	1.9	139	90	2	427	39	13	19	27	1.89
3462762--3462836	22	3.8	21	69	25	65	42	16	18	22	1.88
3462775--3462836	20	3.3	19	67	28	51	43	14	19	22	1.87
3462824--3462853	15	2.0	15	93	0	51	40	10	20	30	1.85
3462766--3462884	21	6.1	21	68	24	82	39	15	19	26	1.91
3462701--3463007	160	1.9	159	91	0	497	38	14	19	27	1.91
3462839--3462893	21	2.6	21	85	0	56	36	12	21	29	1.91
3462907--3463033	36	3.5	37	82	5	143	36	13	22	28	1.92
3463583--3463622	21	1.9	22	90	10	66	12	10	40	37	1.77
3463650--3463692	21	2.0	21	95	0	77	27	27	20	23	1.99
3463728--3463769	20	2.1	20	100	0	84	14	28	42	14	1.84
3463826--3463870	15	3.0	15	100	0	90	13	26	33	26	1.93
3463856--3463896	20	2.0	20	90	0	64	14	29	34	21	1.93
3463986--3464042	28	1.9	31	86	10	84	40	19	7	33	1.78
3465213--3465260	19	2.5	20	82	3	62	29	12	6	52	1.63
3466120--3466189	34	2.1	32	86	5	95	22	31	14	31	1.94
3466404--3466443	21	1.9	22	90	10	66	12	10	40	37	1.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3466471--3466513	21	2.0	21	95	0	77	27	27	20	23	1.99
3466549--3466592	22	2.0	22	100	0	88	13	27	45	13	1.81
3466626--3466704	21	4.0	21	76	18	89	12	26	37	22	1.90
3466627--3466698	36	2.0	36	91	0	117	13	26	36	23	1.93
3466648--3466677	15	2.0	15	100	0	60	13	26	33	26	1.93
3466794--3466853	29	2.0	31	90	6	97	41	18	6	33	1.76
3466893--3467075	36	5.0	36	74	10	129	37	12	19	31	1.89
3467494--3467555	20	3.0	20	70	9	61	29	27	24	19	1.98
3467161--3467905	264	2.7	272	83	7	963	32	20	17	28	1.96
3467835--3468543	98	7.4	98	82	6	754	36	19	11	32	1.88
3468244--3468378	39	3.3	39	68	16	103	36	18	13	31	1.89
3468230--3468393	83	2.0	83	87	1	238	37	18	12	31	1.88
3468313--3468542	97	2.4	98	91	0	372	36	21	11	31	1.89
3469898--3469958	14	4.3	15	76	15	51	3	13	8	75	1.15
3469907--3469965	28	2.1	28	81	12	68	3	13	10	72	1.22
3469932--3469969	14	2.7	14	88	8	51	5	13	10	71	1.30
3473659--3473702	3	15.3	3	90	9	74	36	0	0	63	0.95
3475148--3475384	120	2.0	120	81	8	281	37	8	9	44	1.67
3475348--3475402	27	2.0	27	86	6	76	47	1	0	50	1.11
3475374--3475464	47	1.9	47	82	4	112	45	2	5	47	1.38
3482476--3482695	114	1.9	114	89	1	343	34	15	20	29	1.94
3483754--3483932	76	2.3	75	82	6	207	31	13	22	32	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3484777--3484934	54	3.0	53	81	9	189	36	14	22	26	1.93
3484780--3484930	50	2.9	50	85	5	169	35	14	23	26	1.93
3485301--3485377	22	3.5	22	96	0	145	33	11	14	40	1.82
3486054--3486858	76	10.6	76	93	0	1283	24	19	21	34	1.96
3486792--3486894	45	2.3	45	89	0	161	28	22	15	33	1.94
3487013--3487056	3	15.3	3	90	9	74	36	0	0	63	0.95
3488510--3488746	120	2.0	120	82	5	295	37	8	8	45	1.65
3488613--3488654	20	2.2	19	86	4	57	33	0	2	64	1.07
3488551--3488768	120	1.8	120	81	6	273	37	8	7	47	1.62
3488736--3488825	47	1.9	46	82	6	110	45	2	5	46	1.38
3489205--3489244	21	1.9	21	89	0	62	57	5	17	20	1.58
3490577--3490639	3	21.0	3	81	18	78	66	0	0	33	0.92
3490577--3490639	13	5.2	12	83	16	78	66	0	0	33	0.92
3490577--3490639	16	4.2	16	84	13	89	66	0	0	33	0.92
3501294--3501342	24	2.0	24	88	7	73	57	10	2	30	1.43
3506898--3506947	24	2.1	24	85	7	66	58	12	2	28	1.45
3514791--3515163	190	2.0	190	88	3	554	45	9	5	38	1.61
3518610--3518670	31	2.0	31	96	0	113	49	14	11	24	1.77
3519388--3519457	35	2.0	35	100	0	140	31	11	17	40	1.85
3528178--3528345	41	4.0	42	75	9	155	30	19	13	36	1.89
3529652--3529817	86	1.9	86	79	9	187	28	19	18	32	1.96
3535296--3535391	3	31.3	3	80	8	104	33	4	2	60	1.27
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3540593--3540726	51	2.7	49	75	13	128	42	12	8	36	1.73
3541582--3541689	48	2.2	48	83	4	137	31	9	8	50	1.64
3544386--3544533	60	2.5	60	82	4	167	43	3	18	33	1.67
3547653--3547702	24	2.1	24	85	7	66	24	2	14	60	1.45
3554480--3554534	21	2.5	22	77	16	60	16	14	0	69	1.20
3557846--3557895	24	2.1	24	85	7	66	24	2	14	60	1.45
3559783--3559825	6	7.2	6	86	0	59	2	48	0	48	1.14
3562073--3562108	16	2.2	16	90	0	54	36	25	13	25	1.93
3573050--3573095	19	2.5	19	82	3	58	32	6	0	60	1.22
3573707--3573761	23	2.4	23	78	3	58	40	27	9	23	1.85
3575555--3575630	22	3.4	22	76	18	59	50	1	1	47	1.18
3575665--3575711	21	2.2	22	81	11	62	44	4	4	46	1.42
3575715--3575923	6	34.7	6	88	2	186	56	11	10	22	1.63
3575920--3576055	12	11.4	12	83	1	130	41	13	8	36	1.75
3575859--3575935	18	4.2	17	78	18	68	61	15	2	20	1.46
3575920--3576055	18	7.6	18	83	1	121	41	13	8	36	1.75
3575957--3576055	6	16.7	6	88	2	137	39	15	11	34	1.82
3576075--3576330	2	127.0	2	65	21	90	47	4	4	44	1.42
3576076--3576330	9	27.8	9	66	24	65	47	4	4	43	1.42
3576073--3576117	23	2.0	23	82	8	56	51	6	0	42	1.28
3576157--3576194	11	3.5	11	88	0	58	44	2	2	50	1.30
3576076--3576276	40	5.0	40	71	14	114	47	3	3	45	1.36
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3576226--3576377	33	5.0	31	71	26	112	46	5	7	40	1.56
3576237--3576363	55	2.4	53	90	2	200	47	5	7	40	1.54
3576324--3576550	18	12.4	19	71	20	162	41	7	9	41	1.64
3576312--3576389	33	2.4	33	87	8	106	41	6	10	42	1.64
3576359--3576500	38	3.9	38	75	16	129	42	7	9	41	1.64
3576465--3576532	22	3.2	22	74	16	79	39	8	8	42	1.67
3576463--3576550	42	2.2	41	88	8	128	40	7	7	43	1.63
3576463--3576541	42	1.9	41	92	5	133	39	8	8	43	1.67
3576538--3576616	40	2.0	40	85	9	108	50	0	6	43	1.27
3576529--3576598	33	2.2	31	89	5	104	50	1	5	42	1.35
3576672--3576765	17	5.4	17	68	25	54	48	4	1	45	1.28
3576672--3577001	20	16.9	19	70	20	116	45	4	4	45	1.44
3576740--3576814	22	3.5	21	73	10	71	46	1	2	49	1.24
3576680--3576809	37	3.9	33	74	16	94	47	3	2	46	1.30
3576720--3576814	11	8.6	11	67	17	63	47	2	2	48	1.25
3576740--3576838	42	2.3	44	81	5	105	42	4	6	47	1.47
3576882--3577001	2	58.5	2	77	11	118	47	4	1	46	1.31
3577084--3577779	210	3.3	215	89	4	1034	29	11	8	50	1.67
3578474--3578539	30	2.2	30	81	10	82	36	12	3	48	1.56
3578498--3578747	29	8.4	29	71	13	116	36	6	2	54	1.39
3578641--3578696	25	2.2	25	90	0	85	37	5	1	55	1.33
3578498--3578760	30	8.9	29	71	16	139	36	6	1	54	1.38
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3581731--3581761	7	4.4	7	100	0	62	25	29	29	16	1.96
3581768--3581817	19	2.7	18	90	9	82	26	30	30	14	1.94
3581768--3581817	9	5.3	9	83	7	64	26	30	30	14	1.94
3584935--3584960	5	5.2	5	100	0	52	80	0	0	19	0.71
3586426--3586470	24	1.9	24	82	13	58	68	0	0	31	0.89
3586676--3587343	134	5.0	134	83	3	774	29	16	21	31	1.95
3586674--3587343	267	2.5	268	83	5	874	29	16	21	31	1.96
3591765--3591825	23	2.7	22	80	5	68	19	31	19	29	1.97
3594037--3594087	21	2.4	21	93	0	93	35	0	45	19	1.51
3596040--3596073	16	2.2	16	89	5	52	50	2	8	38	1.49

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   31