genome.fa.s8128.2.7.7.80.10.50.1000.18.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: VEPZ01008128.1 Hibiscus syriacus cultivar Beakdansim tig00110683_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  4987688

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   

This is table  18  of  20  ( 2387 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)
4306503--4306538	18	2.0	18	100	0	72	16	16	11	55	1.68
4307022--4307070	18	2.7	18	81	6	55	42	2	6	48	1.39
4308466--4308512	22	2.1	23	84	11	62	42	2	4	51	1.33
4308629--4308697	19	3.6	18	71	21	52	49	1	1	47	1.19
4308692--4308736	23	2.0	23	86	0	63	53	2	2	42	1.25
4308801--4308884	28	3.0	28	77	8	73	53	0	0	46	1.00
4308995--4309028	14	2.4	14	90	0	50	47	5	5	41	1.52
4319537--4319638	39	2.6	39	90	0	159	32	10	9	47	1.71
4323955--4323988	17	2.0	17	88	11	52	26	23	5	44	1.76
4325500--4325547	24	2.0	24	83	4	60	58	4	10	27	1.49
4328210--4328258	13	3.7	13	83	2	62	71	12	0	16	1.14
4328688--4328755	33	2.1	33	83	5	84	17	13	45	23	1.84
4333642--4333674	12	2.8	12	90	9	50	0	36	3	60	1.12
4336445--4336651	110	1.9	110	88	0	315	21	18	23	36	1.95
4337738--4337774	10	3.5	11	85	14	51	0	0	16	83	0.64
4337739--4337778	16	2.6	16	92	7	66	0	0	17	82	0.67
4344149--4344204	16	3.5	16	100	0	112	23	25	7	44	1.78
4347007--4347036	9	3.3	9	100	0	60	90	0	0	10	0.47
4347959--4348021	29	2.2	29	82	5	74	68	0	14	17	1.22
4348148--4348179	15	2.1	15	94	0	55	78	0	9	12	0.97
4355099--4355153	24	2.3	24	90	0	83	14	9	20	56	1.65
4361947--4361979	17	1.9	17	93	0	57	45	6	9	39	1.61
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4366972--4367004	14	2.3	15	89	5	50	6	0	12	81	0.85
4367621--4367661	21	2.0	21	85	9	57	29	12	19	39	1.88
4368217--4368249	17	1.9	17	93	0	57	45	6	9	39	1.61
4369555--4369600	24	1.9	24	86	0	65	21	17	15	45	1.85
4369706--4369775	24	2.9	24	80	0	77	21	18	18	41	1.91
4386155--4386435	83	3.4	81	80	2	276	30	14	20	34	1.93
4387835--4387981	42	3.5	42	84	2	197	31	21	17	29	1.96
4390028--4390057	2	15.0	2	100	0	60	50	0	0	50	1.00
4390464--4390497	2	17.0	2	100	0	68	50	0	0	50	1.00
4390699--4390734	2	18.0	2	100	0	72	50	0	0	50	1.00
4393197--4393460	83	3.2	81	79	2	267	30	13	21	34	1.92
4394854--4395000	42	3.5	42	83	2	197	31	21	17	29	1.96
4395264--4395362	42	2.4	41	79	3	117	30	18	18	33	1.94
4397415--4397446	16	2.0	16	100	0	64	43	0	6	50	1.27
4398060--4398090	2	16.0	2	93	6	55	51	0	0	48	1.00
4402300--4402644	172	2.0	173	99	0	683	29	11	13	45	1.79
4404540--4404689	44	3.4	44	85	0	192	31	27	14	27	1.94
4404714--4404839	43	2.9	43	81	6	139	32	17	19	30	1.95
4407476--4407584	55	1.9	56	87	7	159	37	9	20	33	1.84
4407845--4409787	68	28.8	68	86	2	2579	32	13	23	30	1.93
4409739--4409935	80	2.4	79	81	5	225	39	11	20	28	1.88
4409739--4409948	81	2.6	80	81	3	199	40	10	20	29	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4410074--4410358	46	6.3	46	91	4	449	41	9	25	23	1.85
4410072--4410356	66	4.2	66	75	19	245	41	9	25	23	1.84
4413807--4413878	20	3.6	20	98	0	135	30	19	27	22	1.98
4414013--4414072	20	2.9	21	72	7	59	35	13	23	28	1.92
4413847--4414068	95	2.3	95	83	0	282	34	16	22	26	1.95
4414372--4414486	55	2.1	55	86	4	160	33	9	18	38	1.83
4414714--4414814	49	2.1	49	94	0	175	31	12	22	32	1.92
4414763--4415674	68	13.5	68	87	2	1257	32	15	23	29	1.95
4415625--4415787	81	2.0	80	89	1	245	38	10	23	28	1.88
4416005--4416298	26	12.5	26	76	18	256	41	9	24	24	1.84
4416051--4416318	46	5.7	46	87	8	380	41	9	24	24	1.84
4416593--4416635	21	2.0	21	95	0	77	37	4	34	23	1.76
4417585--4417622	20	1.9	20	94	0	67	31	34	15	18	1.92
4417642--4417732	46	2.0	46	91	2	148	27	25	19	27	1.99
4425221--4425264	21	2.1	21	86	0	61	9	40	15	34	1.79
4426451--4426541	46	2.0	46	89	2	139	27	24	19	28	1.99
4432613--4432654	22	1.9	22	85	0	57	57	11	11	19	1.65
4435792--4435941	64	2.4	64	82	7	166	32	20	6	42	1.76
4441199--4441258	18	3.3	18	65	17	52	38	15	13	33	1.86
4441200--4441275	36	2.1	36	100	0	152	35	17	14	32	1.90
4442360--4442406	23	2.0	23	84	8	60	44	2	0	53	1.12
4445384--4445464	3	27.0	3	100	0	162	33	0	0	66	0.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4446918--4446985	8	8.5	8	75	16	61	23	1	2	72	1.07
4446918--4446985	24	2.8	25	75	18	72	23	1	2	72	1.07
4446918--4446985	23	2.9	21	76	24	57	23	1	2	72	1.07
4448527--4448570	21	2.1	21	83	8	54	27	6	4	61	1.41
4455968--4456320	81	4.4	81	87	3	453	27	23	12	36	1.91
4455968--4456320	162	2.2	162	88	2	512	27	23	12	36	1.91
4465216--4465277	28	2.2	28	97	0	115	25	25	22	25	2.00
4465151--4465330	93	1.9	91	82	9	222	29	23	17	29	1.97
4466339--4466462	55	2.3	55	81	2	142	33	17	10	38	1.84
4466375--4466486	55	2.0	55	89	3	172	30	20	12	36	1.90
4466828--4466879	19	2.5	21	84	9	63	28	21	17	32	1.96
4466901--4466956	20	2.8	20	76	10	60	26	26	16	30	1.96
4470895--4471018	46	2.6	45	77	15	126	29	21	4	44	1.73
4471039--4471859	81	10.1	81	87	0	1097	29	24	10	35	1.89
4472017--4472138	55	2.2	54	84	2	154	34	19	12	33	1.89
4472039--4472151	55	2.1	55	89	0	172	35	18	12	33	1.88
4475788--4475839	4	12.8	4	84	15	63	78	0	21	0	0.74
4475783--4475855	10	7.2	10	82	17	89	79	0	19	1	0.81
4475780--4475849	13	5.2	13	77	14	70	78	0	20	1	0.83
4475780--4475842	18	3.5	17	85	14	83	79	0	20	0	0.73
4475780--4475856	9	8.9	8	79	14	66	79	0	19	1	0.81
4475789--4475855	14	4.8	15	79	20	58	79	0	19	1	0.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4476895--4477127	91	2.6	91	87	6	348	36	15	24	23	1.94
4477409--4477451	3	14.3	3	85	0	59	39	0	0	60	0.97
4477409--4477454	18	2.6	18	89	0	65	43	0	0	56	0.99
4478901--4478966	7	8.3	7	78	17	51	18	4	3	74	1.12
4478898--4478980	8	10.4	8	75	16	57	22	3	2	71	1.14
4480243--4480270	14	2.0	14	100	0	56	35	7	14	42	1.73
4481770--4481838	30	2.3	31	80	5	88	34	5	18	40	1.75
4482695--4482754	26	2.4	26	86	5	88	23	13	30	33	1.93
4482730--4482810	40	2.1	38	83	4	99	23	16	29	30	1.96
4483306--4483743	172	2.6	173	81	5	473	31	20	15	31	1.94
4487254--4487333	41	1.9	42	87	2	117	26	16	1	56	1.48
4492705--4492757	20	2.7	20	90	0	88	28	22	30	18	1.98
4492821--4492876	21	2.7	21	97	0	103	25	19	33	21	1.97
4493099--4493135	18	2.1	18	89	0	56	48	8	13	29	1.71
4501682--4501734	20	2.7	20	84	0	70	28	18	30	22	1.98
4507200--4507233	16	2.1	16	94	0	59	64	11	8	14	1.49
4507200--4507239	15	2.7	15	88	7	55	60	15	10	15	1.60
4508781--4508833	20	2.7	20	100	0	106	16	16	37	28	1.91
4509429--4509550	59	2.1	59	84	0	154	29	23	17	29	1.97
4514937--4514970	15	2.3	15	100	0	68	32	35	11	20	1.89
4516685--4516798	60	1.9	60	96	0	210	28	17	17	35	1.93
4516890--4516919	13	2.3	13	100	0	60	63	10	6	20	1.47
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4517374--4517502	59	2.2	59	84	0	159	28	25	17	28	1.97
4521283--4521760	81	5.9	81	89	0	670	28	23	12	36	1.90
4522173--4522408	55	4.3	55	87	1	323	25	19	17	37	1.94
4522812--4522865	20	2.7	20	83	8	65	22	27	16	33	1.95
4526961--4527521	81	7.0	81	85	2	713	29	23	11	34	1.90
4527933--4528112	55	3.3	54	88	3	254	24	18	19	37	1.94
4527999--4528087	29	3.2	29	65	26	82	28	17	17	35	1.94
4531481--4531524	23	2.0	22	86	4	61	59	9	9	22	1.56
4532835--4532973	50	2.8	51	80	8	153	41	17	22	18	1.91
4533615--4533652	13	2.8	14	88	8	60	55	18	7	18	1.66

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20