genome.fa.s9078.2.7.7.80.10.50.1000.3.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: VEPZ01009078.1 Hibiscus syriacus cultivar Beakdansim tig00112517_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  829977

Tables:   1   2   3   4   

This is table  3  of  4  ( 393 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)
484433--484513	30	2.7	30	86	3	110	28	30	22	18	1.97
488244--488386	61	2.3	62	95	1	261	15	18	16	48	1.81
489306--489345	19	2.1	19	100	0	80	32	20	10	37	1.85
509541--509611	30	2.4	30	80	0	88	61	4	8	25	1.42
512730--512792	20	3.1	20	80	13	74	30	25	7	36	1.84
512736--512864	40	3.2	40	81	3	116	29	23	10	36	1.89
512775--512841	20	3.3	20	71	8	64	26	22	13	37	1.91
512754--512864	40	2.8	40	81	1	132	30	22	10	36	1.88
512849--512883	18	1.9	18	94	0	61	31	17	8	42	1.79
513021--513058	16	2.5	15	84	12	51	28	5	0	65	1.14
513654--513687	12	2.8	12	90	0	50	55	29	0	14	1.40
513813--513866	24	2.2	24	93	0	90	20	18	20	40	1.91
516398--516433	18	2.0	18	88	0	54	52	25	5	16	1.65
516821--516988	64	2.6	64	93	0	282	53	16	2	27	1.55
518611--518662	21	2.5	21	80	0	59	32	26	15	25	1.95
520088--520127	21	1.9	21	89	0	62	27	27	17	27	1.98
520233--520287	19	2.9	19	88	0	74	36	10	12	40	1.79
520260--520298	19	2.1	19	85	0	51	43	7	7	41	1.62
520363--520422	29	2.0	31	87	6	88	41	18	6	33	1.76
521428--521484	20	2.8	20	91	0	96	52	19	19	8	1.71
521493--521541	20	2.5	20	96	0	89	10	18	24	46	1.79
521880--521942	22	2.9	22	87	0	81	23	15	38	22	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
522105--522194	20	4.5	20	78	10	94	25	17	21	35	1.95
531323--531424	35	2.9	36	94	2	179	42	17	16	23	1.89
546327--546398	22	3.3	22	80	3	83	23	20	26	29	1.99
546379--546414	18	2.0	18	94	0	63	19	19	33	27	1.96
547247--547280	18	1.9	18	88	5	52	23	17	32	26	1.97
547365--547409	20	2.2	20	84	0	54	35	20	15	28	1.93
556945--556987	20	2.2	20	84	8	54	41	0	0	58	0.98
556955--556986	15	2.0	17	88	11	50	37	0	0	62	0.95
557086--557214	60	2.2	60	80	5	154	31	20	14	33	1.93
562950--563036	36	2.4	36	82	0	102	32	25	17	25	1.97
572100--572141	23	1.9	21	90	9	66	50	2	0	47	1.14
572285--572369	21	4.0	21	75	13	66	48	1	2	48	1.22
572299--572345	23	1.9	26	87	12	73	51	0	2	46	1.13
572285--572346	23	2.8	21	79	15	63	51	0	1	46	1.10
572498--572565	25	2.8	25	80	4	68	41	0	2	55	1.15
574103--574168	27	2.3	27	79	10	69	28	6	3	62	1.34
574131--574222	22	4.1	22	74	4	69	25	3	7	64	1.35
574065--574191	4	31.0	4	70	10	51	22	3	7	66	1.34
574172--574225	22	2.5	21	87	6	72	24	1	9	64	1.32
574626--574710	13	5.9	14	71	16	50	25	0	8	65	1.20
574626--574693	23	3.0	22	76	16	68	25	0	5	69	1.11
576050--576100	18	2.9	17	74	5	57	37	3	5	52	1.44
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
576725--576792	18	3.8	18	76	7	75	30	32	16	20	1.94
577562--577590	14	2.0	15	93	6	51	6	24	0	68	1.13
579344--579432	23	3.8	24	76	10	103	16	23	25	33	1.96
580140--580181	22	2.0	22	85	4	59	16	21	35	26	1.94
582052--582114	32	2.0	32	87	0	90	41	19	20	19	1.91
588060--588100	21	2.0	21	90	0	64	24	24	24	26	2.00
588122--588165	21	2.1	21	91	0	70	22	22	27	27	1.99
592702--592745	21	2.1	21	91	0	70	22	22	25	29	1.99
601859--601897	20	2.0	20	94	0	69	17	23	23	35	1.95
602406--602460	10	5.3	10	74	8	56	32	12	9	45	1.74
602404--602460	21	2.7	21	100	0	114	31	12	8	47	1.72
602416--602454	11	3.6	11	79	6	53	25	15	10	48	1.76
602996--603046	21	2.4	21	100	0	102	15	3	15	64	1.43
606033--606075	20	2.2	20	87	8	61	39	9	6	44	1.64
606880--606918	20	2.0	20	100	0	78	25	33	30	10	1.89
612816--612856	20	2.0	20	86	9	57	39	9	7	43	1.65
613716--613755	21	1.9	21	89	0	62	25	35	30	10	1.88
616085--616131	10	5.0	9	89	5	58	70	0	14	14	1.18
616085--616131	19	2.5	19	80	10	60	70	0	14	14	1.18
619658--619696	21	1.9	20	84	5	51	10	0	20	69	1.17
621729--621767	2	19.5	2	100	0	78	51	0	48	0	1.00
622678--622709	2	16.5	2	93	6	57	50	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
623065--623100	14	2.5	15	86	13	58	58	0	0	41	0.98
629137--629194	21	2.8	21	83	0	71	34	32	8	24	1.86
630592--630651	25	2.4	25	94	0	102	23	23	25	28	2.00
630643--630702	23	2.6	23	89	0	84	28	18	20	33	1.96
632214--632328	21	5.5	21	73	4	88	25	2	28	43	1.68
632215--632328	7	16.3	7	77	0	66	24	2	28	43	1.67
632510--632556	20	2.3	21	82	14	62	12	4	4	78	1.04
638978--639060	29	2.8	30	92	5	143	33	14	18	33	1.91
642006--642077	13	5.8	13	78	15	64	62	2	0	34	1.10
642069--642126	27	2.1	27	81	12	66	60	0	1	37	1.07
642013--642119	47	2.2	49	80	11	123	59	0	0	38	1.10
642164--642204	21	2.0	21	85	9	57	58	0	0	41	0.98
644552--644601	14	3.6	14	76	15	50	44	2	2	52	1.24
646490--646677	83	2.2	83	89	1	277	20	18	27	33	1.96
646679--646769	28	3.1	28	78	17	94	34	9	17	38	1.83
646667--646785	33	3.8	32	84	11	149	32	10	20	36	1.86
646839--646943	37	2.9	36	86	2	138	40	15	20	22	1.90
646959--648237	105	12.2	106	93	1	2095	22	18	25	32	1.97
646959--648237	211	6.1	211	93	2	2079	22	18	25	32	1.97
651892--651937	3	15.7	3	82	13	60	65	0	2	32	1.05
651921--651977	23	2.4	25	80	11	75	73	1	8	15	1.16
651863--652007	12	12.0	12	69	18	61	73	1	5	19	1.10
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
651863--652000	15	10.2	13	70	18	61	73	1	5	19	1.09
651960--651999	14	2.8	14	88	11	55	80	0	5	15	0.88
651915--652000	28	3.2	28	70	20	74	74	1	6	17	1.10
651939--652007	29	2.3	29	74	18	70	76	0	8	14	1.00
654713--654797	16	5.4	16	74	17	72	35	1	2	61	1.17
654754--654786	13	2.5	13	95	0	57	27	0	3	69	1.03
655277--655359	15	5.6	14	68	9	58	42	4	0	53	1.22
655277--655361	29	2.9	30	94	3	154	41	5	0	52	1.25
662922--662966	20	2.2	20	96	0	81	15	4	33	46	1.66
675470--675511	15	2.8	15	96	0	75	19	19	38	23	1.93
679435--679489	22	2.6	21	83	8	67	63	1	0	34	1.05
679448--679490	22	2.0	22	95	0	77	62	2	0	34	1.08
679448--679498	25	2.2	22	86	10	66	62	1	0	35	1.06
680916--680994	37	2.1	37	100	0	158	37	25	12	24	1.90
682434--682488	19	2.8	20	75	8	58	49	0	1	49	1.11
698334--698403	13	5.4	13	89	0	95	28	21	15	34	1.94
698326--698403	26	3.0	26	86	3	104	28	20	16	34	1.94
698379--698536	85	1.9	84	86	1	226	31	20	18	29	1.97
699972--700538	285	2.0	282	98	1	1107	39	20	13	26	1.90
701461--701523	3	21.3	3	84	9	85	34	1	0	63	1.04
702203--702237	14	2.5	14	100	0	70	5	34	37	22	1.78
702727--702757	13	2.3	14	94	5	55	25	0	0	74	0.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
702847--703076	113	2.1	110	81	6	259	38	7	8	46	1.62
703032--703086	27	2.0	27	86	6	76	49	1	1	47	1.23
703564--703592	15	2.0	15	93	6	51	27	3	0	68	1.05
713848--713904	13	4.3	13	84	10	71	85	0	12	1	0.66
713859--713902	1	44.0	1	81	0	52	90	0	9	0	0.44
713851--713904	9	6.0	9	89	8	83	87	0	11	1	0.63
714581--714625	23	2.0	23	86	0	63	24	24	26	24	2.00
716218--716262	21	2.1	21	87	0	63	15	24	28	31	1.96
717664--717887	114	2.0	114	91	1	369	33	15	20	30	1.94
718601--719263	116	5.9	112	88	7	843	36	14	18	30	1.91

Tables:   1   2   3   4