genome.fa.s5876.2.7.7.80.10.50.1000.3.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: VEPZ01005876.1 Hibiscus syriacus cultivar Beakdansim tig00013808_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  777889

Tables:   1   2   3   4   5   

This is table  3  of  5  ( 503 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)
372141--372184	22	2.0	22	95	0	79	18	15	45	20	1.85
372372--372465	20	4.7	20	80	2	89	23	18	24	34	1.96
372352--372466	20	5.7	20	78	5	88	23	17	23	35	1.95
372392--372487	41	2.3	41	82	3	113	20	18	21	38	1.93
372455--372506	21	2.5	21	84	3	70	17	23	19	40	1.91
372867--372969	20	5.1	20	85	2	152	14	23	21	40	1.90
372871--372986	41	2.9	41	84	6	148	15	21	22	40	1.91
372870--373010	61	2.3	61	84	7	171	16	21	21	41	1.90
373115--373165	6	8.5	6	100	0	102	33	50	15	0	1.44
373761--373845	19	4.3	19	76	8	98	42	20	18	18	1.90
373761--373885	60	2.1	60	89	7	191	41	20	20	17	1.90
373858--374037	41	4.4	41	79	2	209	38	23	19	18	1.93
373878--374034	21	7.6	21	76	2	122	37	24	18	19	1.94
373858--374033	61	2.9	62	86	1	237	38	23	19	18	1.93
374846--374963	60	2.0	60	89	0	182	36	11	5	45	1.65
375612--375654	20	2.1	21	91	4	70	53	6	0	39	1.28
380927--381007	41	2.0	41	90	0	126	45	14	16	23	1.84
381064--381094	16	1.9	16	100	0	62	35	12	6	45	1.68
381122--381174	17	3.1	17	76	13	63	39	3	11	45	1.58
390095--390134	21	1.9	21	90	10	64	35	15	17	32	1.91
396936--397010	24	3.3	23	71	17	68	29	18	26	25	1.98
396939--397036	44	2.2	44	83	7	119	28	19	24	27	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
400835--400874	21	1.9	21	90	10	64	30	5	7	57	1.48
402782--402906	65	1.9	62	82	10	153	28	16	24	30	1.97
403739--403801	16	3.6	17	76	8	56	14	11	15	58	1.63
404872--404923	26	2.0	27	88	3	79	42	0	0	57	0.98
405494--405666	87	2.0	87	87	4	251	31	10	24	32	1.90
409113--409155	2	21.5	2	100	0	86	48	0	0	51	1.00
409401--409446	24	2.0	23	82	4	56	67	4	0	28	1.10
409642--409690	22	2.1	22	88	7	71	55	0	6	38	1.25
410098--410139	2	21.0	2	100	0	84	50	0	0	50	1.00
411472--411526	2	27.5	2	100	0	110	49	0	0	50	1.00
411690--411740	25	2.0	25	85	7	68	54	0	5	39	1.24
411686--411743	25	2.4	25	73	15	61	56	0	5	37	1.21
416701--416734	9	3.9	9	88	3	52	76	0	2	20	0.92
416940--416965	3	8.7	3	100	0	52	69	0	0	30	0.89
417223--417290	9	7.7	9	73	11	52	73	1	7	17	1.13
417689--417731	21	2.0	21	86	8	61	46	13	2	37	1.57
418398--418508	21	5.4	21	79	4	118	23	21	21	33	1.97
418610--418652	6	7.2	6	89	0	68	34	34	2	27	1.70
418610--418664	18	3.1	18	89	0	74	34	38	5	21	1.77
418619--418669	12	4.2	12	89	0	66	33	43	7	15	1.76
418637--418680	6	7.5	6	84	2	54	29	52	13	4	1.60
419358--419407	6	8.5	6	85	10	52	4	14	52	30	1.59
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
419558--419597	21	1.9	21	100	0	80	30	30	20	20	1.97
422722--422751	12	2.6	12	94	5	53	30	0	0	70	0.88
422768--422840	14	5.1	15	79	15	66	39	4	0	56	1.19
422771--422845	20	3.8	19	84	8	82	40	4	1	54	1.27
422791--422845	2	28.0	2	83	10	69	43	3	1	50	1.30
422850--422967	42	2.9	41	81	9	134	30	5	0	62	1.24
422871--422968	41	2.5	38	85	6	124	32	3	1	63	1.17
422941--423029	46	1.9	46	82	8	110	25	4	1	68	1.15
423013--423056	23	1.9	23	90	0	70	25	0	2	72	0.96
423101--423134	18	1.9	17	88	5	50	17	8	0	73	1.08
423088--423134	17	2.7	17	78	12	51	17	10	0	72	1.12
427718--427775	11	4.9	11	77	20	55	79	1	13	5	0.98
427733--427799	15	4.8	14	76	22	61	79	1	11	7	1.00
427723--427772	13	3.9	13	83	16	61	80	0	14	6	0.90
427741--427795	19	2.7	21	76	21	55	78	1	10	9	1.05
427723--427786	13	4.9	12	79	12	56	79	1	12	6	0.98
427749--427799	20	2.5	22	78	12	63	80	1	11	5	0.97
428918--429029	31	3.5	32	84	6	138	31	14	18	35	1.91
429605--429821	106	2.0	106	85	0	290	32	24	20	21	1.98
430731--431113	206	1.8	212	85	4	555	34	23	19	22	1.96
430726--431137	106	3.9	106	84	4	505	35	23	19	22	1.96
431417--431575	85	1.9	85	81	5	196	35	18	16	28	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
432600--432651	25	2.3	22	72	18	52	21	5	1	71	1.17
432723--432799	38	2.1	37	88	9	113	27	5	1	66	1.21
432795--432912	4	27.8	4	70	16	51	26	3	0	69	1.10
432759--432829	22	3.2	22	75	9	65	26	4	0	69	1.07
432759--432902	42	3.3	42	73	20	111	26	4	0	68	1.12
432957--432991	18	1.9	18	88	0	52	14	11	0	74	1.08
433488--433531	2	22.5	2	95	4	81	50	0	0	50	1.00
433827--434339	157	3.3	155	86	3	652	49	6	17	26	1.71
441777--441948	46	3.8	46	86	1	220	40	13	18	27	1.88
443291--443330	21	1.9	21	90	10	64	30	0	5	65	1.14
450239--450275	15	2.5	15	100	0	74	0	43	24	32	1.55
454652--454686	11	3.2	11	83	0	52	31	0	2	65	1.07
454971--455043	36	2.0	37	91	2	121	53	19	4	23	1.62
458408--458441	17	1.9	18	88	5	52	47	0	0	52	1.00
458455--458484	15	2.0	15	93	0	51	40	0	3	56	1.16
462705--463279	186	3.1	185	92	2	940	46	9	3	41	1.53
467866--467931	18	3.6	19	89	4	75	31	30	18	19	1.96
467861--467931	36	2.0	36	86	5	99	29	30	18	21	1.97
476964--477002	11	3.5	11	85	0	60	33	10	12	43	1.77
487744--487768	13	1.9	13	100	0	50	64	0	0	36	0.94
491308--491355	24	2.0	24	100	0	96	29	16	16	37	1.91
494325--494358	4	8.5	4	93	0	59	26	2	23	47	1.66
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
496556--496589	17	2.0	17	94	0	59	32	0	14	52	1.42
496898--496963	27	2.4	27	94	0	114	39	15	18	27	1.90
497269--497316	16	3.1	16	87	3	62	20	22	18	37	1.94
497275--497319	16	2.8	16	86	0	63	17	22	20	40	1.92
505772--505803	13	2.5	13	94	0	55	25	31	3	40	1.71
517196--522197	4	1276.0	4	95	4	9024	49	0	24	25	1.51
522430--522498	34	2.0	34	100	0	138	31	21	8	37	1.84
524694--524927	75	3.1	75	85	2	326	26	20	26	27	1.99
528206--528368	2	82.5	2	81	4	188	49	3	2	44	1.31
528669--528699	2	15.5	2	100	0	62	48	0	0	51	1.00
530446--530473	2	14.0	2	100	0	56	50	0	0	50	1.00
531097--531140	19	2.5	17	80	16	54	47	11	18	22	1.80
542671--543005	167	2.0	167	98	1	654	37	18	10	32	1.85
545197--545277	24	3.4	24	78	0	63	44	18	18	18	1.87
546517--546562	20	2.3	20	88	0	65	21	19	23	34	1.96
546709--546758	18	2.8	18	100	0	100	42	6	20	32	1.76
548455--548581	20	6.4	20	86	2	141	47	22	16	14	1.82
549146--549301	20	7.7	20	78	7	134	30	18	25	26	1.98
549256--549344	40	2.2	40	80	9	101	29	17	26	25	1.98
552393--553529	432	2.6	437	89	9	1715	39	4	7	48	1.54
553241--553266	6	4.3	6	100	0	52	15	0	0	84	0.62
553482--553579	50	2.0	49	92	7	164	31	8	9	51	1.63
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
553825--553874	20	2.5	20	96	0	91	36	28	14	22	1.92
553926--553976	19	2.6	19	84	9	59	41	27	19	11	1.86
553926--554114	20	9.6	20	77	7	120	35	26	19	18	1.95
553926--554115	39	4.8	39	78	7	181	35	26	19	18	1.95
553926--554115	59	3.2	58	79	4	211	35	26	19	18	1.95
553926--554073	79	1.9	79	85	5	210	34	26	20	18	1.96
554493--554563	33	2.2	33	92	0	115	11	22	18	47	1.80
554743--554860	14	7.1	18	67	25	80	10	24	21	44	1.83
554765--554854	14	5.7	14	74	23	81	8	25	23	42	1.83
554748--554862	33	3.5	33	95	0	212	9	24	20	45	1.81

Tables:   1   2   3   4   5