genome.fa.s8885.2.7.7.80.10.50.1000.3.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: VEPZ01008885.1 Hibiscus syriacus cultivar Beakdansim tig00112131_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  671647

Tables:   1   2   3   

This is table  3  of  3  ( 360 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)
512293--512348	26	2.2	26	84	12	73	26	1	1	69	1.08
516585--516637	26	2.0	26	85	7	72	15	7	22	54	1.65
530513--530581	29	2.3	29	85	2	93	36	2	8	52	1.47
530526--530584	29	2.0	30	93	3	102	35	0	8	55	1.30
531019--531045	13	2.1	13	100	0	54	22	11	44	22	1.84
540652--540703	22	2.3	23	80	12	63	32	19	17	30	1.95
552092--552134	15	2.9	15	82	0	59	39	16	37	6	1.75
555069--555271	61	3.3	61	95	0	361	26	12	13	47	1.78
561611--561658	23	2.1	23	88	0	69	35	12	18	33	1.89
562075--562126	23	2.3	22	90	6	77	44	19	1	34	1.62
562085--562147	23	2.7	23	90	0	90	38	19	4	38	1.73
562506--562557	23	2.3	22	90	6	77	44	19	1	34	1.62
561732--562784	431	2.4	430	97	0	1982	39	11	7	41	1.70
562516--562578	23	2.7	23	90	0	90	38	19	4	38	1.73
562920--562984	25	2.6	25	90	0	103	38	10	9	41	1.72
563642--564134	183	2.7	183	97	0	925	32	17	15	34	1.91
564526--564576	23	2.2	23	89	6	77	41	15	5	37	1.72
566174--566218	3	15.0	3	85	0	63	26	33	2	37	1.69
566174--566247	18	4.1	18	80	0	67	22	32	6	37	1.81
566178--566247	6	11.7	6	81	0	59	21	32	7	38	1.81
567711--568684	200	4.9	199	96	0	1770	31	17	14	37	1.90
567711--568684	399	2.4	399	97	0	1815	31	17	14	37	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
568803--568851	19	2.6	19	93	0	80	57	10	2	30	1.43
570638--570703	33	2.0	33	90	0	105	22	48	0	28	1.51
570737--570780	21	2.1	21	91	0	70	15	31	11	40	1.83
572797--572849	24	2.2	24	83	6	63	26	7	13	52	1.66
572994--573040	20	2.4	19	79	10	58	21	17	8	53	1.70
572961--573429	181	2.6	181	88	3	687	27	16	12	43	1.85
574400--574445	22	2.0	23	83	4	58	47	0	4	47	1.21
576325--576361	2	18.5	2	100	0	74	51	0	0	48	1.00
576790--576864	20	3.4	24	64	21	63	50	1	2	45	1.24
576777--576868	42	2.2	42	96	0	166	51	3	2	43	1.30
576912--576961	9	6.1	8	74	21	50	28	0	2	70	0.99
590624--590672	19	2.6	19	96	0	89	51	18	0	30	1.47
592895--592957	26	2.4	26	97	0	117	26	11	23	38	1.89
593430--593466	19	1.9	19	94	0	65	43	5	0	51	1.24
594218--594326	57	1.9	56	88	1	164	52	10	11	25	1.69
599050--599172	16	7.8	16	71	23	91	79	4	1	14	0.95
599073--599175	18	5.6	17	81	13	98	81	2	0	14	0.86
599050--599181	31	4.3	31	79	12	121	79	4	1	14	0.96
599050--599129	23	3.3	23	75	13	81	77	5	2	15	1.04
599077--599175	12	8.3	11	77	14	83	81	3	1	14	0.86
599050--599190	19	7.6	18	72	15	83	78	4	1	14	0.98
599050--599182	18	7.2	19	70	19	75	79	4	1	14	0.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
599068--599190	9	13.2	9	70	25	53	79	4	0	14	0.94
599187--599247	21	3.2	21	62	33	55	52	14	3	29	1.58
599204--599262	18	3.3	18	73	17	68	50	16	1	30	1.55
599187--599306	36	3.4	36	88	8	178	49	17	3	30	1.63
599212--599322	32	3.4	31	87	7	132	46	20	2	29	1.64
599342--599404	31	2.0	31	90	6	101	46	22	4	26	1.72
599259--599470	82	2.5	82	88	6	291	51	18	4	25	1.64
599534--599586	7	7.4	7	85	8	63	83	9	1	5	0.89
599600--599655	18	3.1	18	84	7	69	76	8	3	10	1.12
599615--599689	25	3.0	23	81	13	71	74	6	4	14	1.17
600482--600541	31	2.0	30	87	9	86	81	8	3	6	0.96
600482--600585	27	3.8	26	74	17	70	77	10	2	8	1.08
600520--600572	27	1.9	28	85	11	74	73	9	5	11	1.24
600459--600591	50	2.7	49	80	15	136	76	10	4	8	1.13
600473--600589	57	2.0	59	80	9	134	77	9	3	9	1.09
600793--600823	16	1.9	16	93	0	53	38	6	38	16	1.74
600904--600940	16	2.3	16	90	0	56	48	2	35	13	1.57
601493--602198	2	353.0	2	63	23	145	43	4	4	47	1.43
601574--602200	11	57.1	11	64	21	80	44	4	4	47	1.43
601786--602198	9	45.3	9	66	26	107	43	3	4	47	1.42
601816--601960	67	2.1	73	85	7	203	43	2	3	50	1.33
601787--602201	59	7.0	60	71	19	204	43	3	4	47	1.42
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
601975--602110	66	2.1	64	91	2	218	43	6	6	43	1.56
605359--605413	2	28.5	2	92	7	96	50	0	0	49	1.00
610348--610384	2	19.5	2	89	10	60	51	0	0	48	1.00
610544--610740	20	9.7	20	71	10	80	36	25	17	20	1.95
610524--610681	21	7.8	20	72	7	95	38	24	17	19	1.92
610648--610821	40	4.3	40	81	3	172	36	25	19	18	1.95
610648--610821	60	2.9	60	81	0	213	36	25	19	18	1.95
610648--610798	20	7.6	20	84	3	187	34	25	20	19	1.96
611204--611274	33	2.2	33	86	0	97	12	21	16	49	1.79
611357--611429	21	3.5	21	83	3	103	47	16	24	10	1.78
611414--611469	14	3.7	14	78	17	67	42	23	25	8	1.82
611406--611485	32	2.5	33	91	4	135	46	22	22	8	1.79
611481--611608	19	7.1	19	71	19	87	10	25	18	45	1.82
611503--611559	14	3.7	14	75	20	60	8	24	22	43	1.81
611486--611608	33	3.5	33	88	10	165	10	24	18	46	1.81
611544--611608	21	3.1	21	82	4	96	10	26	15	47	1.78
613307--613775	93	5.1	93	99	0	922	21	12	19	46	1.83
613823--613937	19	6.3	19	85	10	159	46	30	15	7	1.74
613933--614086	19	8.6	19	75	14	148	11	19	22	46	1.82
613955--614011	14	3.7	14	77	20	60	10	21	22	45	1.82
613938--614068	33	3.8	33	87	7	181	10	19	22	47	1.80
616011--616046	14	2.6	14	95	0	63	33	0	22	44	1.53
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
616153--616250	19	5.4	19	84	13	143	45	17	22	14	1.84
616153--616269	53	2.2	53	98	1	227	44	17	23	13	1.85
616259--616461	19	11.7	19	74	20	203	14	21	18	45	1.85
616259--616433	52	3.3	52	97	0	323	14	22	17	45	1.85
616265--616475	33	6.2	33	76	14	223	13	21	18	45	1.84
618758--618782	12	2.1	12	100	0	50	0	28	0	72	0.86
618957--619003	24	2.0	24	87	8	69	38	21	14	25	1.92
619686--619915	20	11.5	20	83	3	212	20	17	24	37	1.94
619902--619984	21	4.0	21	75	6	78	25	15	24	34	1.95
619882--619980	42	2.4	43	77	11	100	21	17	23	38	1.93
634336--634677	170	2.0	170	100	0	684	38	14	9	37	1.80
636042--636090	24	2.0	24	100	0	98	48	4	4	42	1.40
646006--646031	11	2.4	11	100	0	52	46	0	15	38	1.46
646175--646225	16	3.1	16	75	10	57	21	21	17	39	1.93
654315--654359	20	2.2	20	80	7	56	40	4	2	53	1.33
655436--655511	23	3.3	23	73	8	57	50	17	10	22	1.76
655376--655512	69	2.0	68	81	1	157	48	15	10	25	1.77
665800--665892	21	4.6	20	78	4	96	38	18	24	18	1.92
665797--665892	41	2.3	41	98	0	183	39	17	23	18	1.92
665800--665892	20	4.6	20	78	4	96	38	18	24	18	1.92
665819--665953	41	3.3	41	81	6	123	37	20	21	20	1.94
665881--665974	20	4.7	20	80	2	89	34	24	18	23	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
666495--666546	18	2.7	19	88	5	61	46	23	19	11	1.82
666493--666557	19	3.4	18	83	8	76	47	24	16	10	1.79
666515--666557	18	2.3	18	92	4	68	46	27	16	9	1.77
666553--666622	19	3.7	19	98	0	131	11	21	21	45	1.83
666553--666633	38	2.1	38	88	4	119	9	24	22	43	1.83
666605--666692	33	2.6	33	89	1	131	13	26	20	39	1.90
668702--668824	42	2.9	42	79	7	115	23	35	17	23	1.95
668758--668824	21	3.2	21	66	6	55	23	35	19	20	1.95
670165--670200	14	2.6	14	95	0	63	30	0	25	44	1.54
670378--670429	19	2.7	19	81	3	59	15	21	23	40	1.91

Tables:   1   2   3

The End!