genome.fa.s4114.2.7.7.80.10.50.1000.2.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: VEPZ01004114.1 Hibiscus syriacus cultivar Beakdansim tig00009003_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1048340

Tables:   1   2   3   4   5   

This is table  2  of  5  ( 517 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)
338366--338654	146	2.0	147	86	2	411	27	18	13	39	1.89
348012--348036	13	1.9	13	100	0	50	44	8	8	40	1.63
349293--349330	20	1.9	20	94	0	67	31	18	21	28	1.97
357447--357485	12	3.5	11	86	10	53	43	5	0	51	1.24
361186--361287	37	2.8	35	83	7	123	22	9	34	33	1.87
362535--362637	3	34.3	3	100	0	206	33	0	0	66	0.92
363006--363042	19	1.9	19	100	0	74	29	21	10	37	1.88
370031--370060	2	15.0	2	100	0	60	50	0	0	50	1.00
370614--370659	20	2.2	22	81	14	53	45	0	4	50	1.21
374094--374121	2	14.0	2	100	0	56	50	0	0	50	1.00
376735--376917	89	2.1	89	88	0	267	31	21	22	24	1.98
377767--378159	42	9.1	42	80	5	385	33	20	22	23	1.97
377767--378159	85	4.6	83	79	5	390	33	20	22	23	1.97
381706--381982	82	3.4	82	82	3	324	32	18	19	29	1.95
381760--381982	41	5.4	42	71	11	131	35	19	17	28	1.94
381706--381933	41	5.6	40	70	11	147	31	17	20	30	1.96
382500--382569	11	6.2	12	79	17	71	78	5	14	1	1.00
382500--382555	11	5.3	11	83	14	73	76	5	16	1	1.05
382521--382573	19	3.0	17	86	8	63	83	3	11	1	0.87
382500--382570	13	5.2	13	79	17	74	78	5	14	1	0.99
382500--382596	30	3.2	30	74	14	83	76	7	15	1	1.06
383990--384082	36	2.6	36	86	3	116	34	20	10	34	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
384122--384441	65	5.0	65	90	1	502	25	20	13	41	1.88
384122--384442	129	2.5	128	89	2	500	25	19	13	41	1.88
384309--384405	29	3.1	29	68	27	81	26	21	14	37	1.92
384443--384785	130	2.6	130	80	4	384	25	29	17	27	1.98
384965--385004	3	13.3	3	91	0	62	35	2	0	62	1.09
392733--392805	33	2.2	33	87	2	101	36	20	16	26	1.93
394644--394713	34	2.1	34	97	0	131	35	11	4	48	1.59
396294--396497	75	2.7	77	90	5	317	26	22	9	41	1.84
398340--398397	22	2.8	20	80	14	57	24	0	5	70	1.07
398382--398414	16	2.0	17	88	5	50	30	0	0	69	0.88
398377--398434	23	2.5	22	81	8	62	29	0	1	68	0.99
398953--398999	20	2.4	19	86	10	67	55	8	17	19	1.67
398761--399212	163	2.7	162	85	6	517	42	14	17	26	1.87
399133--399179	20	2.4	19	82	10	67	53	10	17	19	1.72
399142--399184	20	2.3	19	88	11	63	51	11	16	20	1.75
401399--401463	21	3.1	21	93	0	103	40	12	29	18	1.87
401497--401562	33	2.0	33	90	0	105	28	0	48	22	1.51
403352--403400	19	2.6	19	96	0	89	32	2	10	55	1.45
403513--404278	200	3.8	200	94	1	1338	35	15	18	30	1.92
403513--404278	402	1.9	400	94	1	1356	35	15	18	30	1.92
405774--405885	6	18.7	6	79	0	80	38	8	33	19	1.83
405791--405886	3	32.0	3	76	0	84	37	7	33	21	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
405774--405879	48	2.2	48	94	0	185	38	9	33	18	1.83
405774--405885	12	9.3	12	83	0	116	38	8	33	19	1.83
407096--407483	183	2.1	183	97	0	731	35	14	16	33	1.89
410282--410354	23	3.2	23	92	0	119	34	5	21	38	1.77
410719--410791	23	3.2	23	86	0	101	35	5	19	39	1.75
410020--410901	437	2.0	438	97	0	1660	42	7	10	38	1.69
411266--411313	23	2.1	23	92	0	78	33	16	12	37	1.86
419518--420076	41	13.6	41	74	5	416	33	10	18	37	1.86
419518--420076	123	4.5	122	87	2	773	33	10	18	37	1.86
424365--424413	14	2.8	19	68	28	54	38	6	22	32	1.79
424375--424407	14	2.4	14	100	0	66	42	6	21	30	1.77
426105--426150	20	2.3	20	100	0	92	56	0	21	21	1.42
426218--426768	41	13.6	41	74	7	412	32	10	19	36	1.87
426218--426768	123	4.5	123	86	3	731	32	10	19	36	1.87
427262--427446	92	2.0	92	82	2	228	34	10	17	37	1.85
429699--430314	143	4.3	143	83	4	722	36	18	10	34	1.85
429701--430314	286	2.1	286	86	1	847	36	18	10	34	1.85
440026--440089	30	2.2	30	85	2	85	40	14	10	34	1.80
441321--441368	22	2.1	23	84	3	62	66	0	22	10	1.22
441343--441389	13	3.6	13	77	11	51	70	4	21	4	1.22
452046--452268	45	5.5	42	69	22	163	34	11	25	27	1.91
452091--452223	34	3.6	34	74	20	140	36	12	24	27	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
452037--452277	79	3.1	79	93	0	419	37	11	24	26	1.90
458318--458370	20	2.7	19	79	5	61	37	16	28	16	1.91
458794--458937	45	3.4	45	75	20	175	34	11	25	28	1.91
458839--459055	34	5.8	34	70	22	139	35	10	24	28	1.89
458788--459105	79	4.0	79	90	0	476	36	10	25	27	1.89
458788--459095	157	2.0	158	90	0	492	35	10	25	27	1.89
471281--471442	82	2.0	81	82	3	200	30	20	15	33	1.94
474800--475048	78	3.2	77	77	12	247	37	8	17	36	1.80
475010--475396	151	2.5	150	85	3	497	36	8	16	38	1.79
475010--475381	75	4.9	75	86	1	483	36	8	16	38	1.79
475703--476070	101	3.6	101	81	5	388	40	12	10	36	1.77
475703--476096	102	3.9	102	80	4	377	41	12	10	35	1.77
476310--476608	77	3.9	77	88	4	399	34	19	10	35	1.86
476445--476566	40	3.1	39	60	11	88	34	18	10	36	1.85
485033--485203	46	3.7	46	89	2	229	19	22	14	43	1.86
485033--485203	91	1.9	92	86	3	247	19	22	14	43	1.86
485125--485399	72	3.9	72	72	15	223	22	23	13	41	1.89
485079--485321	118	2.1	118	91	0	387	21	22	13	42	1.87
485218--485295	20	3.6	20	75	18	66	24	26	11	37	1.90
485190--485400	46	4.6	46	87	0	305	21	24	14	39	1.90
485308--485387	20	3.7	20	72	18	70	18	27	16	37	1.92
502468--502508	20	2.0	21	90	4	66	36	14	12	36	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
503393--503472	34	2.4	34	93	0	133	41	15	18	25	1.89
503480--503532	20	2.5	22	87	6	74	30	15	26	28	1.96
503858--504197	55	6.2	55	87	3	463	33	19	20	26	1.96
507108--507141	17	2.0	17	88	0	50	23	0	2	73	0.97
510020--510067	15	3.1	16	75	24	50	10	6	6	77	1.13
512828--512865	4	9.5	4	83	11	51	21	0	2	76	0.91
515193--515328	68	2.0	68	94	2	238	41	24	1	33	1.64
516818--516911	46	2.0	46	95	0	170	40	21	7	30	1.81
519221--519296	37	2.1	37	90	5	118	34	19	15	30	1.93
527149--527178	13	2.4	13	94	5	53	26	30	0	43	1.55
529796--529841	23	2.0	24	82	4	58	13	10	10	65	1.48
532233--532400	21	7.9	21	72	5	113	36	23	14	26	1.93
532239--532360	65	1.9	65	82	0	154	38	23	13	24	1.90
539345--539407	21	3.0	21	85	0	81	36	28	12	22	1.91
539447--539505	21	2.8	21	78	0	64	37	15	16	30	1.90
546007--546062	22	2.5	22	81	13	62	26	12	30	30	1.93
545994--546062	19	3.3	21	78	11	63	27	13	28	30	1.94
545920--546161	96	2.5	94	80	5	247	29	13	26	30	1.94
546110--546154	22	2.0	23	91	4	74	35	11	26	26	1.90
546108--546161	22	2.6	19	78	18	63	33	11	27	27	1.91
546609--546938	45	7.4	45	86	1	430	41	8	18	31	1.80
546611--546915	134	2.3	134	89	0	457	41	9	19	30	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
547537--547568	2	16.5	2	93	6	57	50	0	0	50	1.00
550849--550873	3	8.3	3	100	0	50	0	36	0	64	0.94
551447--551646	96	2.1	95	79	4	215	29	15	25	30	1.95
551588--551646	22	2.8	20	82	12	82	30	13	28	27	1.94
552094--552405	45	7.0	45	89	4	461	41	8	19	30	1.82
552098--552405	89	3.4	89	87	4	442	41	9	19	30	1.82
554623--554651	15	1.9	15	100	0	58	27	0	0	72	0.85
554620--554662	18	2.3	19	88	4	61	25	2	0	72	0.97
554768--554797	15	1.9	16	93	6	53	10	0	3	86	0.67
554874--554906	12	3.0	11	87	12	50	30	6	0	63	1.18

Tables:   1   2   3   4   5