genome.fa.s8822.2.7.7.80.10.50.1000.3.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: VEPZ01008822.1 Hibiscus syriacus cultivar Beakdansim tig00111990_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  699754

Tables:   1   2   3   4   

This is table  3  of  4  ( 416 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)
346795--346874	44	1.9	39	83	14	99	27	16	18	37	1.92
347174--347539	204	1.8	199	90	5	551	39	15	13	31	1.86
347362--347925	261	2.2	257	92	4	929	39	19	12	28	1.87
352209--352256	21	2.3	21	92	0	78	25	33	12	29	1.92
366416--366467	23	2.3	23	80	6	72	21	40	19	19	1.92
366926--366964	2	19.5	2	100	0	78	48	0	0	51	1.00
374555--374622	20	3.4	20	66	22	61	30	14	19	35	1.92
379412--379447	2	18.5	2	94	5	65	50	0	0	50	1.00
379627--379672	21	2.2	21	84	7	58	19	0	10	69	1.17
391257--391385	55	2.2	58	82	10	174	36	20	18	24	1.95
391351--391650	121	2.5	121	84	2	359	35	24	16	23	1.95
393493--393543	2	25.5	2	100	0	102	49	0	0	50	1.00
395553--395608	25	2.2	25	83	0	67	21	10	16	51	1.74
399231--399279	21	2.3	21	100	0	98	26	8	26	38	1.84
424909--424963	24	2.3	24	93	0	92	16	10	18	54	1.70
429037--429102	16	4.3	16	86	7	93	10	9	18	62	1.53
429164--429195	16	2.0	16	100	0	64	6	12	25	56	1.59
441047--441195	77	1.9	79	83	5	196	40	8	5	46	1.56
441863--441981	30	3.9	29	68	16	78	17	7	17	57	1.63
441971--442043	23	3.1	23	74	2	74	30	13	12	43	1.81
442336--442403	12	5.7	12	79	10	59	42	13	19	25	1.87
443842--444066	112	2.0	112	100	0	450	43	12	13	31	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
445357--445407	18	3.1	16	81	13	59	21	3	0	74	0.98
445357--445407	16	3.0	17	75	16	52	21	3	0	74	0.98
445468--445530	18	3.7	16	77	12	63	25	1	1	71	1.04
445484--445532	25	1.9	26	83	4	64	24	2	0	73	0.94
445514--445552	21	1.9	21	89	5	62	17	5	0	76	0.96
445475--445551	10	7.5	10	70	18	52	22	3	0	74	0.98
445561--445603	2	21.5	2	100	0	86	48	0	0	51	1.00
445861--446029	5	32.0	5	69	19	53	16	9	2	71	1.22
445975--446081	38	2.8	37	80	16	119	18	7	1	71	1.18
449163--449205	13	3.3	13	93	0	77	16	44	23	16	1.86
449141--449186	18	2.6	18	100	0	92	17	52	21	8	1.71
451715--451784	23	3.0	24	87	4	106	24	18	21	35	1.95
451715--451796	24	3.5	24	84	3	112	26	18	19	35	1.95
451874--451948	35	2.1	35	97	0	141	9	29	28	33	1.88
453911--453953	13	3.3	13	93	0	77	16	44	23	16	1.86
456441--456531	24	3.8	24	80	2	103	27	16	18	37	1.92
456609--456681	34	2.1	35	92	5	123	10	27	27	34	1.90
459204--459399	93	2.1	93	89	0	293	35	16	16	31	1.92
460585--461335	85	8.8	85	83	1	869	36	18	17	27	1.93
460585--461335	170	4.4	170	84	1	961	36	18	17	27	1.93
464710--464774	17	3.6	18	75	22	64	23	1	0	75	0.89
464714--464779	4	15.8	4	83	13	80	22	3	0	74	0.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
464935--464965	2	15.5	2	100	0	62	48	0	0	51	1.00
465239--465287	22	2.1	24	85	7	66	14	6	6	73	1.22
465275--465336	5	12.4	5	83	10	65	20	6	0	72	1.06
465276--465341	9	6.9	9	77	16	62	21	6	0	72	1.05
465215--465367	54	2.8	55	71	15	127	14	9	2	73	1.18
466626--466656	16	1.9	16	93	0	53	54	3	0	41	1.16
467502--467554	21	2.5	21	93	0	88	28	30	22	18	1.98
467563--467846	42	6.9	40	88	3	361	21	19	23	35	1.95
467588--467846	82	3.2	82	89	3	414	21	18	23	36	1.95
467589--467846	122	2.1	124	91	1	421	21	18	23	36	1.95
467588--467846	40	6.3	42	90	3	404	21	18	23	36	1.95
468252--468333	41	2.0	41	100	0	164	31	34	7	26	1.84
470659--470743	40	2.0	41	76	17	77	29	1	4	64	1.21
470680--470737	16	3.6	16	77	13	64	31	0	1	67	1.01
471009--471045	14	2.5	15	91	4	58	10	13	0	75	1.04
474204--474243	21	1.9	21	90	10	64	20	10	5	65	1.42
481333--481376	15	3.0	15	83	6	54	77	0	20	2	0.88
481416--481458	16	2.7	15	86	10	59	81	2	16	0	0.79
481300--481458	81	2.0	80	85	8	214	60	9	20	9	1.55
482564--482821	110	2.4	110	81	5	294	33	24	18	23	1.96
484835--484866	2	16.5	2	93	6	57	46	0	0	53	1.00
485143--485179	14	2.5	15	91	4	58	10	13	0	75	1.04
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
495941--495980	21	1.9	21	94	0	71	30	15	7	47	1.72
495975--496071	33	3.0	32	89	7	144	32	7	15	44	1.74
496301--496357	21	2.7	21	86	0	87	21	26	24	28	1.99
496522--496575	14	3.6	14	80	11	63	31	12	12	42	1.81
496541--496572	16	2.0	16	100	0	64	37	12	12	37	1.81
496666--496697	16	2.0	17	88	11	50	43	21	21	12	1.86
502743--502860	57	2.1	57	96	0	218	38	11	5	44	1.63
512681--512725	23	2.0	23	90	0	72	37	22	17	22	1.94
519010--519072	21	3.0	21	79	9	76	23	28	26	20	1.99
519094--519171	22	3.6	22	86	6	108	21	21	32	24	1.98
519160--519213	21	2.6	21	79	5	65	29	20	29	20	1.98
519293--519350	30	2.0	29	90	10	91	44	17	5	32	1.70
519293--519352	29	2.0	30	93	6	104	43	16	6	33	1.74
520590--520636	20	2.4	19	82	10	51	29	14	4	51	1.62
521932--522005	20	3.7	20	83	3	94	29	24	27	18	1.98
521924--522005	41	2.0	41	88	4	121	28	25	26	19	1.99
521924--521987	21	3.1	21	80	8	78	25	26	28	20	1.99
522026--522124	21	4.7	21	80	8	112	21	18	35	25	1.95
522193--522261	30	2.3	30	82	9	79	47	13	4	34	1.62
522204--522263	30	2.0	30	90	6	95	43	13	6	36	1.70
526825--526910	6	14.2	6	83	11	70	75	0	5	18	1.00
526825--526891	18	3.9	18	82	11	79	76	0	7	16	1.01
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
526834--526910	15	4.6	16	72	20	68	76	0	5	18	0.96
527009--527071	27	2.2	29	80	5	67	39	9	3	47	1.52
527038--527226	38	5.2	36	84	5	213	43	8	2	45	1.46
527577--527654	3	26.0	3	82	10	97	37	0	1	61	1.04
533072--533155	24	3.5	23	79	6	87	19	15	17	47	1.83
533091--533160	12	5.8	12	73	6	61	17	14	18	50	1.79
533091--533162	24	3.0	24	87	0	108	18	13	18	50	1.79
534779--535079	148	2.0	150	92	1	498	28	11	23	36	1.90
535128--535190	28	2.3	28	97	2	119	12	9	34	42	1.76
535306--535370	28	2.4	28	97	2	123	13	9	32	44	1.76
535062--535434	181	2.0	188	88	7	562	21	12	30	35	1.91
535916--535960	18	2.7	16	80	19	56	31	24	6	37	1.81
540349--540383	18	2.0	17	88	5	52	45	0	0	54	0.99
548113--548184	24	3.0	24	83	2	101	51	18	11	19	1.75
548117--548184	12	5.8	12	72	10	50	51	19	11	17	1.75
549304--549337	17	1.9	18	88	5	52	29	14	0	55	1.40
550639--550681	13	3.3	13	90	0	68	16	23	41	18	1.89
552710--552816	24	4.6	23	78	10	110	45	17	14	21	1.85
552714--552777	12	5.5	11	78	10	65	50	18	14	17	1.79
554085--554120	18	2.0	18	88	0	54	30	16	0	52	1.44
555383--555423	18	2.2	19	91	4	66	12	17	46	24	1.82
555376--555440	31	2.1	31	85	0	85	15	18	44	21	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
559980--560132	81	1.9	81	90	2	245	29	22	11	37	1.88
560478--560628	46	3.3	46	85	3	223	21	19	10	47	1.80
565754--565904	46	3.3	46	85	3	223	22	19	10	47	1.80
566649--566699	21	2.4	21	90	0	75	15	27	13	43	1.85
570004--570125	40	3.0	40	98	0	235	22	18	26	32	1.97
576356--576477	40	3.0	40	96	0	208	22	16	27	33	1.95
576581--576706	47	2.8	45	83	5	155	40	7	23	29	1.81
580273--580311	19	2.1	19	100	0	78	17	41	10	30	1.83
580771--580811	18	2.3	18	87	8	57	65	2	31	0	1.05
586451--586503	22	2.4	22	74	0	52	28	16	20	33	1.95

Tables:   1   2   3   4