genome.fa.s9117.2.7.7.80.10.50.1000.2.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: VEPZ01009117.1 Hibiscus syriacus cultivar Beakdansim tig00112604_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  576650

Tables:   1   2   3   

This is table  2  of  3  ( 277 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)
253873--253916	20	2.2	20	91	0	70	22	13	25	38	1.91
253731--253924	60	3.2	60	82	7	182	21	14	24	40	1.90
253903--253967	32	2.0	32	90	0	103	35	15	23	26	1.94
257418--257473	27	2.1	27	96	0	103	30	8	14	46	1.75
258636--258700	17	3.8	17	83	0	67	18	26	26	29	1.98
262252--262386	35	3.8	35	89	5	198	29	14	18	37	1.91
262362--262446	25	3.4	25	93	0	143	23	18	17	40	1.92
268304--268343	20	1.9	20	85	10	53	32	7	32	27	1.85
272105--272144	20	1.9	20	85	10	53	32	7	32	27	1.85
273415--273528	35	3.3	35	92	1	176	31	13	18	36	1.89
273504--273563	25	2.4	25	97	0	111	23	20	18	38	1.93
274258--274300	21	2.0	21	95	0	77	23	32	23	20	1.98
277304--277328	12	2.1	12	100	0	50	40	24	16	20	1.91
283799--283828	15	2.1	15	93	6	53	0	10	6	83	0.81
284342--284422	3	26.7	3	94	2	144	65	0	1	33	1.01
284742--285380	114	5.6	114	94	0	1081	30	18	13	37	1.90
286146--286691	83	6.6	83	96	0	945	35	21	14	28	1.93
287629--287695	1	67.0	1	72	0	53	0	13	0	86	0.57
287628--287695	7	8.8	8	74	18	63	0	14	0	85	0.60
287634--287699	10	7.0	10	77	18	61	0	16	0	83	0.65
287631--287695	12	5.4	13	76	22	70	0	13	0	86	0.58
287631--287695	23	2.8	23	84	11	96	0	13	0	86	0.58
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
287620--287689	33	2.1	33	86	5	97	0	17	0	82	0.66
299973--300005	15	2.1	16	88	5	50	0	9	9	81	0.87
300523--300590	3	22.7	3	100	0	136	66	0	0	33	0.92
301605--301639	6	5.8	6	96	0	61	45	0	51	2	1.16
301677--301713	19	1.9	19	88	0	56	37	8	0	54	1.30
306157--306206	22	2.2	23	82	10	59	22	30	22	26	1.99
320159--320207	18	2.7	18	90	3	71	18	26	20	34	1.95
324169--324210	20	2.0	22	90	9	70	4	4	26	64	1.33
324572--324641	19	3.6	19	75	21	56	65	2	1	30	1.15
324572--324694	10	13.4	9	68	23	55	61	2	2	33	1.22
324587--324700	15	7.2	17	70	25	72	60	2	1	35	1.21
324634--324700	23	2.9	22	86	10	89	56	1	2	38	1.24
324608--324702	9	10.1	9	71	27	56	58	1	2	37	1.17
324614--324700	15	5.9	15	74	21	78	58	1	2	37	1.18
324694--324736	23	1.9	22	90	4	68	44	13	2	39	1.57
324702--324948	71	3.5	70	90	2	361	38	11	6	43	1.67
324702--324949	36	7.1	35	80	6	252	38	12	6	43	1.68
326486--326531	19	2.4	19	92	0	74	8	65	2	23	1.32
326652--326695	19	2.4	18	85	14	56	25	0	13	61	1.32
326697--326752	17	3.4	17	73	14	62	42	0	0	57	0.99
326689--326759	33	2.2	31	85	9	90	38	0	0	61	0.96
326698--326774	17	4.8	16	71	15	52	41	0	0	58	0.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
326736--326781	24	1.9	24	91	8	76	36	0	0	63	0.95
326714--326780	30	2.2	30	78	5	73	38	0	0	61	0.96
328545--328604	21	2.9	21	82	0	75	21	31	20	26	1.98
328542--328611	21	3.3	21	76	7	70	21	28	20	30	1.98
329617--330253	139	4.6	139	89	1	915	32	22	20	24	1.98
329618--330253	277	2.3	276	88	1	952	32	22	20	24	1.98
336795--336844	22	2.3	23	83	13	61	48	2	2	48	1.24
337887--337962	32	2.4	33	82	4	84	51	5	2	40	1.38
338434--338481	24	2.0	24	95	0	87	41	18	12	27	1.86
343510--343548	12	3.2	13	85	10	55	79	2	12	5	1.00
343513--343555	12	3.8	11	80	14	52	79	2	11	6	1.02
346211--346290	40	2.0	40	100	0	160	55	7	15	22	1.65
347287--347358	31	2.3	31	85	0	99	54	15	9	20	1.69
351245--351280	10	3.5	10	88	3	54	0	22	0	77	0.76
351527--351570	21	2.1	21	83	8	54	65	13	4	15	1.41
351930--351962	17	1.9	17	88	11	50	72	9	0	18	1.10
373545--373619	18	4.1	18	79	20	84	76	0	18	5	0.98
373552--373621	6	11.2	6	78	15	54	75	0	20	4	0.96
373566--373618	24	2.2	25	87	12	76	75	0	20	3	0.96
373547--373614	19	3.6	19	79	13	79	75	0	20	4	0.98
378244--378349	31	3.4	31	90	0	158	53	14	11	20	1.71
383862--383962	37	2.7	37	84	0	121	44	10	12	31	1.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
384307--384349	18	2.5	17	85	7	61	25	4	2	67	1.22
384299--384423	60	2.1	57	82	11	146	33	3	2	60	1.25
384845--384874	2	15.0	2	92	0	51	46	0	0	53	1.00
386472--386506	7	5.0	7	100	0	70	28	28	0	42	1.56
386854--386929	35	2.2	35	87	0	107	43	14	1	40	1.54
395287--395386	50	2.0	50	100	0	200	30	24	6	40	1.79
395891--396070	65	2.8	63	79	9	168	27	18	25	28	1.98
395910--396070	65	2.5	65	82	5	193	27	18	24	29	1.98
395911--396120	65	3.3	63	78	9	185	26	18	24	30	1.98
398767--398867	22	4.6	22	83	3	132	25	23	24	25	2.00
404656--404836	65	2.8	62	82	12	204	28	17	24	29	1.97
404677--404886	65	3.2	64	79	11	239	27	18	24	30	1.98
413429--413541	36	3.1	36	93	2	183	26	24	15	32	1.96
428901--428955	17	3.1	17	79	10	65	69	1	0	29	0.99
429350--429420	28	2.5	30	72	22	73	22	9	15	52	1.72
432905--432943	20	2.0	20	89	0	60	33	23	10	33	1.88
440855--440893	20	2.0	20	89	0	60	33	23	10	33	1.88
444368--444444	36	2.1	36	85	4	102	25	22	16	35	1.95
446173--446198	2	13.0	2	100	0	52	50	0	0	50	1.00
448543--448620	38	2.1	38	95	0	138	26	6	16	50	1.69
448676--449289	312	2.0	312	94	0	1084	23	23	9	43	1.83
450046--450261	116	1.9	112	83	7	274	31	12	3	51	1.57
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
451244--451286	10	4.3	10	87	0	68	30	37	0	32	1.58
451301--451344	22	2.0	23	86	4	63	36	0	2	61	1.09
453386--453436	6	8.5	6	80	0	57	35	15	31	17	1.92
453406--453451	3	15.3	3	81	0	56	32	6	34	26	1.82
453386--453448	12	5.2	12	84	0	63	33	12	33	20	1.90
453666--453750	38	2.4	32	76	17	89	27	8	8	56	1.57
458130--458204	2	37.5	2	100	0	150	0	50	0	49	1.00
460852--460894	3	14.3	3	85	0	59	0	39	0	60	0.97
460856--460893	15	2.5	15	95	0	67	0	42	0	57	0.98
462365--462422	20	2.8	20	75	17	55	62	1	3	32	1.22
463216--463333	61	1.9	61	87	0	173	27	27	16	27	1.97
470209--470429	117	1.9	119	83	1	293	34	19	8	38	1.82
486214--486261	20	2.4	20	100	0	96	35	10	35	18	1.85
487212--487254	20	2.3	19	80	11	52	23	30	6	39	1.81
489496--489651	30	5.3	30	71	9	113	55	12	16	16	1.70
490003--490038	14	2.6	14	95	0	63	47	8	11	33	1.69
491306--491360	3	19.0	3	83	7	69	61	1	1	34	1.17
491306--491360	14	3.8	15	80	9	69	61	1	1	34	1.17
491297--491360	20	3.1	20	79	14	67	62	1	1	34	1.14
491552--491905	134	2.6	134	87	4	489	25	17	29	26	1.97
492193--492276	30	2.8	30	87	3	125	46	14	11	27	1.79
492676--492795	36	3.4	35	89	4	179	35	11	18	34	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
492823--492921	37	2.6	38	80	6	112	42	14	15	28	1.85
492844--493189	153	2.3	153	96	0	629	43	12	13	29	1.81
493001--493074	37	2.0	37	81	5	87	41	14	13	29	1.85
493472--493510	4	9.8	4	83	10	53	28	0	23	48	1.51
493472--493510	16	2.4	16	91	8	62	28	0	23	48	1.51
498807--498876	30	2.4	29	76	9	79	61	7	17	14	1.54
498769--498875	30	3.6	29	76	15	78	57	11	16	14	1.64
500238--500272	18	1.9	18	88	0	52	8	14	48	28	1.73
500518--500587	3	24.3	3	85	8	101	64	1	0	34	1.03
504797--504844	6	8.0	6	88	0	69	16	14	33	35	1.89

Tables:   1   2   3