genome.fa.s8209.2.7.7.80.10.50.1000.16.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: VEPZ01008209.1 Hibiscus syriacus cultivar Beakdansim tig00110831_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  6561538

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   30   

This is table  16  of  30  ( 3569 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)
3839495--3839641	60	2.5	60	82	6	165	32	12	20	34	1.91
3841890--3842053	48	3.5	46	72	9	136	15	32	27	25	1.95
3841877--3842020	45	3.1	45	69	9	110	13	32	27	25	1.94
3841867--3842058	93	2.1	93	91	0	312	15	32	26	26	1.95
3841921--3842058	45	3.0	45	69	9	134	15	31	26	26	1.96
3841984--3842130	72	2.0	72	90	0	231	15	32	27	24	1.95
3843907--3843979	21	3.2	22	69	18	60	43	2	1	52	1.24
3844097--3844137	20	2.0	20	90	0	64	53	2	0	43	1.13
3844276--3844336	30	2.1	29	84	3	77	37	11	4	45	1.62
3850123--3850148	13	2.0	13	100	0	52	30	23	7	38	1.83
3850810--3850871	16	3.9	16	89	0	97	56	20	11	11	1.65
3854537--3854583	23	2.0	23	100	0	94	17	36	29	17	1.92
3856903--3856935	14	2.3	15	94	5	59	57	12	0	30	1.35
3857052--3857098	20	2.3	21	85	10	62	65	4	0	29	1.11
3857097--3857134	20	1.9	20	100	0	76	71	0	15	13	1.16
3859682--3859719	18	2.1	19	90	5	60	36	13	5	44	1.66
3867163--3867264	50	2.0	50	88	0	150	19	15	30	34	1.93
3867419--3867508	20	4.5	20	92	2	137	25	14	25	34	1.94
3868452--3868506	23	2.3	25	75	12	69	40	21	14	23	1.90
3868459--3868545	23	3.8	23	87	0	102	33	25	16	25	1.96
3868568--3868624	21	2.7	21	81	5	71	31	19	19	29	1.96
3871444--3871557	21	5.4	21	83	0	129	34	26	16	22	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3872560--3872657	20	4.8	20	78	2	115	33	17	19	29	1.95
3872560--3872676	61	1.9	60	84	6	155	35	15	20	29	1.93
3872562--3872705	20	6.9	22	74	7	81	31	15	23	29	1.95
3874743--3874788	23	2.0	22	83	4	56	17	6	6	69	1.32
3879146--3879211	24	2.8	23	75	6	60	16	22	22	37	1.93
3881083--3881127	6	7.5	6	84	0	63	44	0	51	4	1.21
3881083--3881127	18	2.5	18	96	0	81	44	0	51	4	1.21
3887574--3887672	23	4.3	23	75	5	92	18	22	25	34	1.96
3887578--3887667	46	2.0	46	86	4	128	18	23	23	34	1.96
3890919--3890967	17	2.8	18	93	3	82	30	8	30	30	1.86
3896336--3896596	138	1.9	138	79	11	293	28	13	24	34	1.93
3898077--3898114	19	2.0	19	89	0	58	36	18	23	21	1.95
3914576--3914615	14	2.9	14	88	7	55	82	0	0	17	0.67
3914577--3914616	18	2.2	18	95	0	71	80	0	0	20	0.72
3914577--3914611	10	3.7	10	85	14	56	82	0	0	17	0.66
3914636--3914661	13	2.0	13	100	0	52	76	0	0	23	0.78
3926487--3926540	24	2.2	24	96	0	99	29	3	18	48	1.65
3928023--3928158	60	2.3	60	80	5	141	36	11	13	38	1.80
3928816--3929230	44	9.9	44	74	12	288	49	7	17	26	1.72
3928815--3929065	87	2.9	88	80	7	278	47	8	18	26	1.77
3928948--3929168	121	1.9	120	81	4	261	50	6	17	24	1.70
3929069--3929209	41	3.4	40	77	8	124	52	6	16	24	1.67
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3929137--3929270	41	3.2	41	78	14	123	56	4	11	27	1.53
3931344--3931386	23	2.0	23	81	9	54	48	0	2	48	1.14
3932857--3932928	3	24.0	3	100	0	144	66	0	0	33	0.92
3933110--3933926	76	10.8	76	97	0	1517	34	21	19	24	1.96
3934604--3934682	22	3.6	22	92	0	131	41	13	10	34	1.79
3939267--3939304	17	2.2	18	86	9	53	0	26	0	73	0.83
3942117--3942172	27	2.1	27	89	0	85	60	7	12	19	1.55
3942146--3942173	12	2.3	12	100	0	56	53	7	14	25	1.66
3942232--3942273	7	6.0	7	78	10	50	54	14	16	14	1.71
3944334--3944376	23	2.0	23	81	9	54	48	0	2	48	1.14
3944211--3944471	144	1.8	143	80	5	321	44	8	6	40	1.60
3945850--3945883	3	11.0	3	87	6	50	64	0	0	35	0.94
3955182--3955366	48	3.9	48	75	7	169	27	34	19	19	1.96
3955157--3955369	96	2.2	94	84	6	259	27	34	19	18	1.95
3958823--3958885	20	3.1	20	93	2	99	36	33	15	14	1.88
3958903--3959046	64	2.3	64	82	1	191	38	34	12	15	1.85
3960222--3960300	33	2.4	33	82	4	88	27	27	17	26	1.98
3961362--3961501	36	3.9	36	85	3	201	27	15	15	41	1.88
3962902--3963039	36	3.9	36	92	0	224	27	15	14	42	1.85
3969374--3969505	36	3.7	36	85	0	192	27	15	14	42	1.86
3971088--3971139	21	2.5	21	96	0	95	17	19	32	30	1.95
3971205--3971353	65	2.3	64	82	3	174	28	18	23	30	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3974019--3974099	23	3.6	22	83	6	110	25	24	25	23	2.00
3981966--3981999	15	2.3	15	90	5	52	55	0	0	44	0.99
3984058--3984083	12	2.2	12	100	0	52	15	38	7	38	1.76
3985075--3985113	17	2.3	17	86	8	53	15	51	17	15	1.77
3985115--3985300	57	3.3	55	83	7	214	37	6	20	35	1.78
3985115--3985303	86	2.2	85	87	5	274	37	6	20	36	1.78
3985115--3985300	29	6.6	29	81	8	206	37	6	20	35	1.78
3992523--3992683	29	5.6	29	84	7	168	39	4	19	35	1.74
3992543--3992683	59	2.4	57	84	6	176	42	4	18	34	1.72
3994619--3994669	17	2.9	17	80	13	59	72	0	1	25	0.95
3994619--3994688	16	4.3	17	72	18	60	68	0	2	28	1.04
3994716--3994758	18	2.4	18	92	0	68	72	0	6	20	1.08
3996009--3996065	15	3.6	15	77	13	60	45	24	8	21	1.80
3995988--3996147	33	4.9	33	80	6	130	43	24	9	23	1.83
3995979--3996050	18	4.2	18	69	16	62	41	25	9	23	1.84
3996009--3996148	65	2.1	65	82	7	167	43	25	8	22	1.81
3996466--3996505	2	20.5	2	94	5	73	50	0	0	50	1.00
3997424--3997456	13	2.5	13	95	0	57	39	0	15	45	1.46
3998115--3998168	20	2.5	20	79	8	63	9	20	18	51	1.73
3998842--3998888	20	2.3	21	81	3	60	46	0	4	48	1.21
4000088--4000125	18	2.2	18	85	4	51	42	21	13	23	1.88
4000612--4000804	41	4.4	42	70	14	122	47	8	18	25	1.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4000645--4000906	90	3.0	86	82	6	269	46	8	18	26	1.77
4000611--4000990	42	8.5	43	75	13	243	47	8	18	25	1.77
4000646--4000906	87	3.0	85	82	6	247	46	8	18	26	1.77
4000956--4001024	34	2.0	34	82	0	84	50	7	18	23	1.71
4000765--4001037	138	2.0	135	83	8	344	48	8	19	23	1.76
4001478--4001512	18	1.9	18	88	0	52	25	28	22	22	1.99
4001483--4001538	18	3.1	18	74	5	51	35	23	16	25	1.94
4001463--4001631	69	2.4	68	78	7	178	34	23	15	27	1.94
4005856--4005957	33	3.1	33	86	0	132	28	26	20	24	1.99
4005879--4005928	15	3.1	15	73	15	55	26	28	22	24	1.99
4005870--4005922	18	3.1	18	71	15	58	22	26	22	28	1.99
4006056--4006099	18	2.4	18	84	0	61	31	27	13	27	1.94
4006077--4006304	33	6.8	33	73	11	160	39	25	11	22	1.88
4006063--4006191	69	1.9	69	86	3	188	35	27	13	23	1.92
4007972--4008024	22	2.5	22	93	3	90	30	28	11	30	1.91
4008141--4008194	20	2.6	21	82	8	74	20	9	33	37	1.84
4008384--4008438	21	2.6	21	75	16	60	52	0	0	47	1.00
4008791--4008831	13	3.2	13	90	10	59	80	0	9	9	0.91
4012985--4013029	3	15.3	3	86	4	65	62	2	0	35	1.08
4013221--4013551	134	2.5	133	78	5	348	26	15	31	26	1.95
4013221--4013564	131	2.6	132	78	5	354	26	15	31	27	1.96
4013571--4013919	65	5.4	65	92	0	590	41	14	20	24	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4015459--4015529	13	5.7	12	71	15	63	1	8	8	81	0.93
4015447--4015519	35	2.1	34	87	7	103	2	9	8	79	1.03
4020758--4020820	3	21.3	3	96	3	119	66	0	0	33	0.92
4021460--4021509	25	2.0	25	96	0	91	30	12	28	30	1.92
4026126--4026722	112	5.3	112	89	2	860	32	11	12	43	1.78
4026802--4026980	77	2.4	73	89	4	259	34	12	16	36	1.87
4027185--4027232	23	2.1	23	84	0	60	31	18	10	39	1.85
4027195--4027244	23	2.2	23	85	0	64	32	14	14	40	1.85
4027066--4027403	158	2.1	158	90	1	525	33	12	11	42	1.79
4033051--4033092	22	2.0	21	85	4	57	23	2	30	42	1.67

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   30