genome.fa.s417.2.7.7.80.10.50.1000.4.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: VEPZ01000417.1 Hibiscus syriacus cultivar Beakdansim tig00000764_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2005044

Tables:   1   2   3   4   5   6   7   8   9   

This is table  4  of  9  ( 1058 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)
625735--625817	20	4.6	19	81	15	113	14	24	18	43	1.87
625924--625960	14	2.6	14	91	0	65	45	21	0	32	1.52
627913--627969	14	3.7	14	77	20	60	45	22	21	10	1.82
627894--627986	33	2.8	33	95	0	168	47	21	20	10	1.80
627857--627991	19	7.6	19	76	16	128	45	23	19	11	1.82
627987--628115	19	7.3	19	75	17	125	8	17	28	45	1.77
627987--628078	33	2.8	33	93	3	150	7	18	28	45	1.76
628159--628537	92	4.1	93	98	0	735	46	18	12	22	1.83
628159--628537	185	2.0	185	98	1	733	46	18	12	22	1.83
630242--630331	14	5.7	14	74	23	81	42	23	25	8	1.83
630234--630348	33	3.5	33	95	0	212	45	20	24	9	1.81
630241--630353	19	6.8	18	72	23	88	43	22	24	9	1.83
630365--630419	14	3.6	14	73	21	56	9	25	23	41	1.83
630349--630419	33	2.2	33	94	0	124	8	22	25	43	1.81
630360--630441	33	2.5	33	89	2	119	9	25	21	42	1.84
630372--630460	20	4.8	20	72	19	75	12	24	19	43	1.85
630540--630610	33	2.2	33	92	0	115	47	18	22	11	1.80
630792--630846	22	2.5	22	81	0	74	20	16	40	23	1.91
630992--631184	20	9.6	20	82	5	219	19	19	25	35	1.95
630992--631184	60	3.2	60	83	0	251	19	19	25	35	1.95
633992--634025	17	2.0	17	100	0	68	35	5	17	41	1.74
640632--640657	3	8.7	3	100	0	52	0	0	30	69	0.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
641626--641761	69	2.0	69	97	0	254	26	19	21	33	1.97
654906--654932	6	4.5	6	100	0	54	18	18	0	62	1.32
664253--664446	99	2.0	95	93	4	334	32	11	17	38	1.86
665968--666003	3	12.0	3	93	0	63	0	30	0	69	0.89
667528--667556	13	2.3	13	94	5	51	51	0	0	48	1.00
680641--680692	9	6.1	9	76	13	56	34	0	1	63	1.06
680640--680689	17	3.0	17	91	2	75	36	0	4	60	1.16
694880--694924	14	2.9	16	81	15	51	48	4	0	46	1.22
702811--702849	18	2.2	18	86	4	53	61	0	5	33	1.18
704089--704162	30	2.5	30	93	0	130	47	6	24	21	1.75
713958--714008	2	25.5	2	100	0	102	50	0	0	49	1.00
719994--720046	13	4.0	13	80	2	61	64	13	3	18	1.43
720955--720999	23	2.0	23	86	0	63	26	28	24	20	1.99
720978--721278	149	2.0	146	94	1	521	36	21	14	26	1.93
727927--728230	149	2.0	149	96	0	554	36	21	15	26	1.93
747149--747183	14	2.5	14	95	0	61	37	17	5	40	1.73
754341--754380	10	4.0	10	84	12	55	32	27	0	40	1.57
754491--754704	111	1.9	111	96	0	392	37	7	9	44	1.67
756582--756621	21	1.9	21	94	0	71	32	17	37	12	1.87
756831--756915	35	2.5	33	78	14	91	27	8	9	55	1.60
771222--771328	53	2.0	53	94	3	189	49	9	5	35	1.59
772092--772130	20	2.0	20	100	0	78	35	5	28	30	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
772645--772681	19	1.9	19	88	0	56	32	13	18	35	1.90
776419--776480	31	2.0	31	90	0	97	25	35	14	24	1.93
781612--781761	79	1.9	80	83	1	194	42	5	5	47	1.49
781705--781729	12	2.1	12	100	0	50	48	0	0	52	1.00
781818--781842	12	2.1	12	100	0	50	52	0	0	48	1.00
794771--794824	26	2.2	23	83	9	63	35	3	7	53	1.47
794778--794838	26	2.3	27	83	5	81	32	6	8	52	1.57
798615--798640	7	3.7	7	100	0	52	0	23	0	76	0.78
800223--800284	27	2.3	27	83	8	74	32	11	4	51	1.59
802647--802715	38	1.9	36	83	13	90	57	10	7	24	1.56
808266--808338	30	2.4	30	100	0	146	28	27	30	13	1.94
811291--811352	19	3.3	19	70	4	63	24	3	27	45	1.68
811292--811367	37	2.1	37	97	0	143	22	3	27	46	1.70
818207--818232	3	8.7	3	100	0	52	0	0	30	69	0.89
831381--831422	21	2.0	21	95	0	75	30	14	7	47	1.71
831417--831509	32	3.0	32	83	11	115	33	6	15	45	1.71
835511--835558	21	2.3	21	96	0	87	41	12	18	27	1.86
849780--850073	38	8.2	36	73	17	195	46	2	7	43	1.45
849780--849968	74	2.6	70	76	12	166	45	2	8	43	1.48
849846--850140	64	4.0	75	74	19	234	46	2	7	43	1.46
849951--850010	25	2.3	26	91	2	95	46	0	6	46	1.29
849887--850075	102	1.9	100	90	4	299	46	2	7	43	1.43
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
849999--850023	13	1.9	13	100	0	50	48	4	8	40	1.51
849913--850048	64	2.1	63	95	1	245	45	1	8	44	1.42
849976--850140	39	4.2	38	78	11	172	45	3	6	44	1.45
850023--850118	44	2.3	42	87	10	135	46	3	5	44	1.41
849976--850143	81	2.1	77	79	9	198	45	2	6	45	1.44
850244--850309	12	5.1	12	78	12	51	19	6	0	74	1.03
850264--850296	14	2.4	14	85	5	50	6	12	0	81	0.85
851375--851407	17	1.9	17	93	0	57	9	15	0	75	1.03
851665--851691	12	2.2	12	100	0	54	37	7	0	55	1.28
857793--857843	2	25.5	2	100	0	102	49	0	0	50	1.00
866595--866654	20	2.9	20	73	14	59	31	16	5	46	1.69
884301--884330	15	2.0	15	100	0	60	6	13	66	13	1.43
890660--890706	12	3.9	12	75	10	51	46	0	2	51	1.13
890660--890705	24	2.0	24	91	4	76	47	0	2	50	1.13
894932--894956	10	2.5	10	100	0	50	36	20	0	44	1.52
895004--895044	18	2.3	18	91	4	66	29	4	2	63	1.28
900272--900338	19	3.5	19	76	11	57	43	1	1	53	1.19
900278--900337	29	2.0	30	84	9	79	40	0	1	58	1.08
900271--900326	28	2.0	28	86	6	78	42	1	3	51	1.29
903867--903982	38	3.1	38	96	0	205	13	25	28	32	1.94
903911--903972	20	3.2	20	65	17	58	14	25	24	35	1.93
906523--906555	13	2.4	14	90	5	50	24	0	30	45	1.53
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
907170--907268	19	4.9	19	76	13	90	32	6	29	32	1.82
907563--907587	6	4.2	6	100	0	50	0	16	48	36	1.46
907618--907949	40	8.3	40	69	8	165	26	18	24	30	1.98
907618--907709	20	4.6	20	81	5	114	26	20	23	29	1.99
907658--907993	80	4.2	80	98	0	636	26	18	24	30	1.98
907776--907990	20	10.8	20	65	10	82	26	18	25	29	1.98
907684--907989	40	7.7	40	70	5	224	27	18	25	29	1.98
907975--908011	19	1.9	19	88	0	56	24	16	27	32	1.96
908189--908213	2	12.5	2	100	0	50	52	0	0	48	1.00
914275--914407	42	3.2	42	97	0	248	38	19	14	27	1.91
927763--927943	94	1.9	94	90	2	292	30	21	17	29	1.96
941619--941659	21	2.0	21	86	9	59	7	14	12	65	1.45
942327--942359	3	11.3	3	93	6	59	69	0	0	30	0.88
942514--942788	128	2.2	125	91	2	433	26	18	31	23	1.98
942541--942956	168	2.5	169	85	5	545	24	18	33	23	1.97
942541--943012	40	11.1	43	76	12	230	23	19	33	23	1.97
942686--943019	129	2.6	130	86	6	447	23	19	33	24	1.97
943050--943111	28	2.2	28	88	5	90	51	12	11	24	1.72
943129--943307	66	2.8	64	78	9	186	38	13	20	27	1.90
943282--943375	35	2.7	35	79	11	104	41	12	17	28	1.86
943734--943856	61	2.0	62	88	3	187	43	11	13	30	1.80
944078--944311	67	3.5	67	94	1	382	46	10	12	30	1.75
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
944161--944281	37	3.5	37	68	15	112	47	9	11	32	1.71
944198--944328	30	4.1	30	70	12	109	45	12	9	32	1.75
944275--944336	30	2.1	30	87	3	90	50	14	8	27	1.71
944316--944418	52	2.0	53	94	1	181	36	16	13	33	1.88
944429--944722	28	10.5	29	74	13	233	44	15	9	30	1.79
944414--944722	29	11.0	29	73	15	204	44	14	9	30	1.78
944368--944752	165	2.3	167	90	6	578	44	15	11	29	1.81
944969--945072	36	3.0	36	81	4	124	35	11	20	32	1.88
944970--945088	36	3.4	36	79	6	111	36	12	21	30	1.90
945039--945271	104	2.3	101	83	8	285	36	12	20	31	1.89

Tables:   1   2   3   4   5   6   7   8   9