genome.fa.s9614.2.7.7.80.10.50.1000.3.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: VEPZ01009614.1 Hibiscus syriacus cultivar Beakdansim tig00117000_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2129691

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

This is table  3  of  10  ( 1149 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)
516997--517045	19	2.6	19	90	3	73	30	2	10	57	1.43
517988--518698	198	3.6	194	79	6	660	40	14	14	30	1.85
533448--533511	29	2.2	30	83	8	78	26	7	9	56	1.58
533759--533793	15	2.3	15	90	0	52	34	0	0	65	0.93
534380--534407	5	5.6	5	100	0	56	35	21	0	42	1.53
539348--539377	15	2.1	14	93	6	51	80	3	0	16	0.85
540827--540879	24	2.2	24	89	0	79	39	0	3	56	1.17
540902--541026	27	4.4	27	70	22	80	57	1	4	36	1.27
540876--541025	57	2.6	59	73	15	143	56	1	6	36	1.33
541924--541955	15	2.1	15	94	0	55	34	0	40	25	1.56
543470--543516	22	2.1	22	84	11	60	25	10	6	57	1.56
560487--562715	663	3.4	651	83	5	2499	35	19	16	28	1.93
575298--575358	3	21.0	3	77	12	65	27	3	1	67	1.16
583491--583536	4	12.0	4	90	9	78	50	23	0	26	1.50
583614--583661	5	9.6	5	97	0	78	85	0	0	14	0.60
584018--584256	105	2.3	102	83	9	281	31	19	11	37	1.88
584202--584321	36	3.4	36	79	6	113	30	20	12	35	1.90
584580--584647	25	2.5	26	86	11	93	26	11	14	47	1.79
584566--584660	28	3.5	26	79	13	102	26	10	14	48	1.76
584656--584758	52	2.0	53	94	1	181	32	14	17	35	1.90
585300--585671	43	8.7	42	74	10	256	25	31	20	23	1.98
585341--585760	130	3.2	127	91	3	660	26	29	19	24	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
585310--585760	129	3.5	128	90	3	679	26	29	19	24	1.99
585962--586019	3	20.0	3	76	13	59	27	3	1	67	1.17
590914--590956	22	2.0	22	95	0	77	25	37	6	30	1.82
595102--595131	10	3.0	10	100	0	60	50	0	20	30	1.49
595631--595667	15	2.5	15	100	0	74	35	43	5	16	1.71
597562--597593	15	2.1	15	100	0	64	18	25	12	43	1.85
598883--598936	14	3.9	14	73	9	56	31	3	24	40	1.72
599195--599231	2	19.0	2	94	5	67	51	0	0	48	1.00
607549--607593	18	2.6	18	85	3	56	53	2	6	37	1.40
609662--609855	4	45.8	4	71	13	104	65	5	3	24	1.30
609661--609739	31	2.6	32	82	8	101	64	8	1	25	1.30
609747--609812	27	2.4	27	84	0	87	66	4	3	25	1.25
609697--609855	23	6.9	22	74	12	115	65	5	4	25	1.32
618002--618063	3	19.3	3	84	15	72	32	0	0	67	0.91
618001--618061	10	6.2	10	88	11	99	31	0	0	68	0.89
618002--618063	19	3.2	19	93	6	99	32	0	0	67	0.91
618005--618071	16	4.4	15	83	14	84	31	0	1	67	1.00
618002--618075	19	4.2	17	85	13	80	32	0	1	66	1.00
629447--630151	167	4.2	164	79	6	659	45	15	13	26	1.82
629907--629956	21	2.4	21	76	3	57	46	18	6	30	1.73
629613--630624	541	1.9	543	87	4	1524	44	15	13	26	1.83
630168--630688	167	3.2	163	81	5	579	44	16	12	26	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
630457--630503	21	2.2	21	85	7	60	42	21	8	27	1.81
639878--639913	12	2.8	13	87	12	56	75	0	0	25	0.81
639878--639913	13	2.8	12	91	8	54	75	0	0	25	0.81
641334--641392	13	4.6	14	76	23	51	66	0	15	18	1.26
641337--641370	13	2.8	12	91	8	59	67	0	14	17	1.23
641430--641493	32	2.1	32	91	5	105	48	7	3	40	1.48
641531--641582	25	2.2	25	86	6	72	44	11	3	40	1.59
641524--641583	25	2.4	27	75	16	65	45	10	3	41	1.54
641619--641801	36	5.0	36	79	5	179	42	10	2	43	1.54
641619--641801	74	2.5	75	84	7	241	42	10	2	43	1.54
641756--641852	51	1.9	50	87	6	142	43	8	2	46	1.45
641779--641816	13	2.8	14	84	8	51	39	7	5	47	1.55
644837--644862	2	13.0	2	100	0	52	50	0	0	50	1.00
645802--646145	38	9.0	36	74	12	226	44	4	9	40	1.59
645807--646146	39	8.9	38	75	13	247	44	4	9	41	1.57
645842--646183	39	8.8	38	74	12	143	43	4	9	42	1.58
646550--646589	21	1.9	21	85	10	55	40	27	25	7	1.82
672911--673237	36	9.2	36	79	9	284	33	20	23	22	1.97
672910--673235	72	4.6	72	77	6	317	33	21	23	22	1.97
672910--673236	174	1.9	175	87	4	482	33	21	23	22	1.97
673851--673985	35	3.8	35	81	9	159	21	19	20	38	1.94
673851--673994	71	2.0	71	87	2	209	20	19	19	40	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
676697--676733	10	3.8	10	80	20	51	37	10	18	32	1.86
678715--679041	163	2.0	164	99	0	647	26	18	23	30	1.98
702480--702663	92	2.0	92	100	0	368	39	22	17	20	1.93
703591--703766	84	2.1	84	91	2	282	20	34	21	23	1.97
706022--706440	208	2.0	208	97	0	784	36	23	12	27	1.90
711394--711437	13	3.4	13	80	0	61	38	20	9	31	1.84
714159--714204	15	3.1	14	84	12	56	39	2	15	43	1.59
719446--719500	2	27.5	2	100	0	110	49	0	0	50	1.00
719616--719651	15	2.5	15	91	8	58	47	0	0	52	1.00
721012--721146	68	2.0	70	83	2	175	37	11	8	42	1.72
723495--723529	2	17.5	2	100	0	70	48	0	0	51	1.00
723999--724046	18	2.7	18	90	3	71	29	20	8	41	1.81
724312--724352	21	2.0	21	90	0	64	17	26	17	39	1.91
724313--724359	21	2.2	21	84	0	58	21	25	19	34	1.96
724349--724438	20	4.4	20	90	1	135	37	21	21	20	1.94
725018--725096	20	3.9	21	86	5	94	51	17	18	11	1.75
725073--725153	33	2.5	33	85	0	99	48	19	18	13	1.81
725149--725280	19	7.1	19	73	11	94	15	21	18	44	1.86
725201--725271	20	3.6	19	78	12	72	15	22	21	40	1.90
727159--727225	21	3.2	21	66	6	55	23	35	20	19	1.95
727132--727225	42	2.2	42	81	7	102	22	35	21	21	1.96
728714--728764	14	3.1	17	72	21	54	45	17	23	13	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
728714--728793	33	2.4	33	93	0	133	46	21	21	11	1.82
728714--728772	19	3.4	19	73	22	74	45	18	22	13	1.84
728799--728941	19	7.9	19	68	17	99	13	23	19	43	1.86
728803--728983	33	5.3	33	81	9	218	14	23	18	43	1.87
728801--729010	106	2.0	106	85	3	289	16	22	19	41	1.90
728976--729049	20	3.7	20	71	16	62	27	14	25	32	1.95
729609--729661	21	2.5	21	84	0	70	33	18	26	20	1.96
731585--731630	20	2.3	19	89	10	74	54	10	17	17	1.70
731749--731795	20	2.4	19	89	10	76	55	10	17	17	1.69
731753--731800	20	2.6	18	84	15	62	56	10	14	18	1.66
734006--734070	21	3.1	21	80	6	69	40	15	29	15	1.88
734103--734168	33	2.0	33	90	0	105	28	0	48	22	1.51
735964--736006	18	2.4	18	92	0	68	30	2	11	55	1.48
736125--737691	199	7.9	199	97	1	2869	37	15	16	31	1.90
739152--739219	21	3.4	18	69	21	55	36	8	35	19	1.83
739152--739231	6	13.3	6	79	0	61	36	7	35	21	1.82
739167--739244	3	26.0	3	77	0	75	35	5	34	24	1.78
739155--739243	42	2.1	42	91	0	142	35	6	34	22	1.81
739155--739244	18	5.0	18	79	0	81	35	6	34	23	1.81
740709--741192	184	2.6	184	98	0	923	34	15	16	34	1.90
741793--741857	25	2.6	25	80	0	85	35	9	13	41	1.77
742145--742208	23	2.8	23	87	0	92	35	6	20	37	1.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
742145--742217	23	3.2	23	82	7	85	34	5	20	39	1.76
742486--742536	25	2.0	25	92	0	84	33	7	19	39	1.81
742831--742867	18	2.1	18	89	0	56	32	5	10	51	1.60
742823--742869	24	2.0	24	86	0	67	34	4	14	46	1.64
743127--743213	39	2.2	39	93	0	147	49	19	13	17	1.79
743617--743680	23	2.8	23	87	0	92	35	6	20	37	1.78
743617--743689	23	3.2	23	82	7	85	34	5	20	39	1.76
744669--744714	24	1.9	24	86	8	67	47	2	6	43	1.41
745237--745271	17	2.0	18	88	5	54	28	14	0	57	1.38
750238--750375	50	2.8	50	77	9	131	43	6	6	43	1.56

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