genome.fa.s4862.2.7.7.80.10.50.1000.3.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: VEPZ01004862.1 Hibiscus syriacus cultivar Beakdansim tig00010968_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2846896

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   

This is table  3  of  13  ( 1530 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)
446723--446842	16	7.4	16	73	17	74	54	5	1	39	1.32
446723--446842	5	23.4	5	66	25	56	54	5	1	39	1.32
446723--446839	15	7.5	15	75	18	89	53	5	1	39	1.33
447466--447849	54	7.1	54	88	2	531	30	17	19	32	1.95
450620--450664	21	2.1	21	100	0	90	28	26	6	37	1.82
454088--454460	54	6.9	54	89	1	543	31	18	18	31	1.95
455946--456123	2	97.0	2	68	22	97	56	2	1	39	1.21
455946--456122	41	4.3	39	77	17	164	57	2	1	38	1.21
455960--456153	41	4.9	39	71	18	95	55	4	1	38	1.28
455961--456150	20	9.5	19	73	18	84	55	4	1	38	1.29
455945--456122	7	25.1	7	75	17	147	57	2	1	38	1.21
455952--456167	93	2.4	91	81	14	236	55	3	1	38	1.28
458488--458527	12	3.3	12	85	0	53	12	2	2	82	0.87
461499--461699	15	13.7	15	80	10	229	50	0	0	48	1.07
461499--461743	30	8.1	30	79	13	229	48	0	2	49	1.12
461551--461743	45	4.2	45	87	6	246	48	0	1	50	1.10
461707--461742	14	2.5	14	95	4	63	41	0	0	58	0.98
461722--461873	32	5.4	32	69	28	146	34	0	11	53	1.38
461745--461786	22	1.9	22	100	0	84	30	0	16	52	1.44
461698--462334	54	12.0	53	73	15	428	33	0	13	52	1.42
461799--461841	22	2.0	22	100	0	86	34	0	13	51	1.42
461844--461916	22	3.3	22	69	16	53	28	0	16	54	1.42
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
461821--462007	80	2.3	83	91	5	299	32	0	13	53	1.41
461722--462190	188	2.5	187	96	2	883	33	0	13	53	1.41
461900--462061	32	5.7	32	71	26	166	33	0	12	53	1.40
461933--461975	22	2.0	22	100	0	86	34	0	13	51	1.42
461987--462029	22	2.0	22	100	0	86	34	0	13	51	1.42
462032--462104	22	3.3	22	69	16	53	28	0	16	54	1.42
462119--462161	20	2.1	20	95	4	77	34	0	13	51	1.42
462110--462161	21	2.5	21	90	3	79	32	0	13	53	1.40
461767--462334	161	3.5	166	78	13	605	33	0	13	52	1.42
462140--462222	32	2.7	31	94	3	141	33	0	13	53	1.40
462163--462218	18	3.3	18	69	19	57	28	0	14	57	1.38
462009--462319	80	3.9	80	87	9	479	32	0	14	52	1.44
467773--467848	29	2.6	29	97	0	143	13	36	28	21	1.91
468560--468605	21	2.3	19	80	20	58	8	28	41	21	1.83
468565--468605	21	2.0	21	90	9	66	9	26	39	24	1.86
469891--469968	22	3.5	22	79	8	59	43	1	1	53	1.16
469882--469957	35	2.2	36	79	11	86	44	1	1	52	1.17
469905--469976	23	3.1	22	78	7	81	44	0	0	55	0.99
470098--470160	23	2.7	24	72	13	60	55	0	1	42	1.09
470118--470171	26	2.0	27	85	7	74	53	0	1	44	1.11
470124--470224	27	3.7	27	76	14	91	49	0	1	48	1.12
470391--470442	24	2.2	24	86	3	70	50	7	17	25	1.72
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
473895--473952	21	2.7	21	82	10	73	60	1	3	34	1.24
473883--474012	33	3.9	34	74	15	92	58	3	3	33	1.34
473896--474038	7	19.9	7	66	19	55	55	5	2	36	1.38
473883--474407	20	25.2	21	76	17	192	59	2	5	32	1.33
474052--474406	5	72.6	5	92	5	358	61	0	6	31	1.22
473997--474064	26	2.7	25	78	17	61	48	13	1	36	1.51
477200--477243	20	2.3	19	81	11	54	34	4	0	61	1.16
485529--485602	30	2.5	30	84	0	94	27	5	22	44	1.74
485526--485599	15	4.9	15	73	6	69	27	4	22	45	1.70
485715--485802	25	3.6	25	90	1	133	18	25	25	31	1.97
491744--491902	33	4.9	32	68	21	107	27	9	19	43	1.82
491736--491958	98	2.3	98	95	2	398	25	8	21	43	1.81
492010--492111	28	3.5	28	71	17	80	14	6	28	50	1.69
492007--492077	33	2.2	33	84	5	99	14	8	32	45	1.74
493278--493312	14	2.5	14	95	0	61	25	14	34	25	1.94
493678--493761	15	5.6	15	69	16	66	28	7	22	41	1.80
493682--493760	30	2.6	30	91	0	122	29	7	22	40	1.82
493864--493937	24	3.0	25	80	5	89	22	24	21	31	1.99
493939--493990	24	2.2	24	82	0	59	23	15	26	34	1.94
496145--496195	22	2.3	22	93	0	84	19	7	21	50	1.72
496973--497011	20	1.9	21	94	5	71	38	17	10	33	1.84
496978--497032	20	2.8	20	81	13	60	30	20	10	38	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
500016--500049	17	2.0	17	88	0	50	38	8	23	29	1.85
500464--500522	15	3.9	15	77	0	64	27	11	25	35	1.91
500455--500531	30	2.6	30	85	0	100	25	9	25	38	1.85
507277--507333	15	3.8	15	79	9	71	22	5	28	43	1.75
507269--507368	30	3.3	30	84	2	121	25	9	23	43	1.82
507477--507540	25	2.6	25	82	2	85	17	25	21	35	1.95
507477--507548	25	2.9	26	76	12	80	18	23	23	34	1.96
517679--517765	29	2.9	30	76	8	81	37	17	4	40	1.70
518663--518727	24	2.8	24	83	6	71	49	13	24	12	1.77
520064--520091	13	2.2	13	100	0	56	7	42	14	35	1.73
520206--520327	32	3.8	32	72	8	95	40	17	9	32	1.82
520616--520712	22	4.3	23	77	16	57	44	2	9	44	1.47
520650--520708	22	2.7	22	91	0	91	42	3	10	44	1.55
523250--523321	33	2.1	34	82	7	85	27	15	6	50	1.69
529275--529616	104	3.3	103	76	8	300	35	23	13	26	1.93
529822--529851	3	10.3	3	92	7	53	36	0	0	63	0.95
530803--530842	20	2.1	19	85	4	53	22	15	12	50	1.77
534873--534912	20	2.1	19	85	4	53	20	17	12	50	1.78
538463--538491	14	2.1	14	100	0	58	51	6	0	41	1.28
540131--540169	20	2.0	20	89	0	60	33	23	10	33	1.88
541216--541241	11	2.4	11	100	0	52	7	26	46	19	1.77
555899--556003	43	2.5	42	79	1	129	21	21	7	48	1.75
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
557243--557279	13	2.8	14	88	8	51	62	0	2	35	1.10
557260--557527	143	1.8	146	82	7	341	52	5	4	37	1.46
557260--557545	144	2.0	144	80	8	323	52	5	4	37	1.45
557206--557546	72	4.7	71	69	14	198	51	5	4	38	1.45
558039--558104	31	2.2	30	81	10	73	42	6	18	33	1.75
560294--560354	29	2.1	30	81	3	70	39	4	18	37	1.72
562290--562355	26	2.5	26	97	0	123	18	22	12	46	1.81
562260--562483	72	2.9	73	82	12	215	22	20	11	45	1.83
562322--562699	46	8.4	46	84	6	506	23	20	10	45	1.82
562406--562479	37	2.0	37	89	0	112	25	18	12	43	1.85
562564--562688	20	5.7	20	69	20	79	24	24	8	42	1.83
562316--562692	183	2.1	176	85	5	497	23	21	10	44	1.83
569381--569592	20	9.6	20	69	24	126	19	25	10	44	1.82
569368--569603	46	5.2	46	88	5	338	20	22	10	46	1.81
570643--570719	31	2.4	31	84	4	100	12	11	18	57	1.65
572497--572522	13	2.0	13	100	0	52	38	7	23	30	1.83
580640--580706	17	3.9	17	88	5	100	46	13	1	38	1.52
581548--581650	39	2.6	39	73	15	113	37	16	0	45	1.48
585606--585699	46	2.0	46	89	0	143	24	21	24	29	1.99
594523--594552	14	2.2	14	94	5	53	83	3	0	13	0.77
594795--594868	27	2.7	27	91	0	112	33	18	14	32	1.92
600452--600535	40	2.1	40	93	0	141	32	4	22	40	1.75
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
601068--601105	11	3.5	11	88	0	58	47	18	7	26	1.76
601135--601192	30	2.0	30	86	10	84	10	12	5	72	1.26
603649--603678	15	2.0	15	93	0	51	40	3	0	56	1.16
604935--604965	16	1.9	16	93	0	53	51	12	3	32	1.56
611075--611116	16	2.4	18	84	11	52	2	16	2	78	0.96
613999--614034	14	2.6	14	95	0	63	86	0	2	11	0.68
627459--627501	12	3.7	12	84	12	54	67	0	20	11	1.22
627991--628094	42	2.5	41	80	11	124	54	0	14	30	1.40
629470--629509	21	1.9	21	84	0	53	40	12	22	25	1.89
632253--632278	13	2.0	13	100	0	52	30	15	23	30	1.95

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13