genome.fa.s9625.2.7.7.80.10.50.1000.1.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: VEPZ01009625.1 Hibiscus syriacus cultivar Beakdansim tig00117017_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  6938204

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   

This is table  1  of  25  ( 2922 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)
954--1013	23	2.7	23	85	12	81	16	25	36	21	1.94
954--1015	21	2.9	21	88	9	81	16	25	35	22	1.94
15300--15360	2	30.5	2	100	0	122	50	0	0	49	1.00
15843--15880	20	1.9	20	88	0	58	28	34	5	31	1.80
22491--22535	23	2.0	22	83	16	56	31	11	13	44	1.78
24274--24313	15	2.5	17	76	19	50	35	2	17	45	1.62
36079--36369	46	6.3	46	90	2	442	24	21	10	43	1.84
36760--36805	20	2.2	22	84	7	60	26	26	15	32	1.95
38048--38183	56	2.4	56	90	0	200	32	14	20	32	1.93
38704--38768	21	3.4	19	71	16	53	56	3	1	38	1.24
57160--57217	28	2.1	28	93	0	98	18	1	22	56	1.50
58722--58788	31	2.2	31	82	12	77	29	16	5	47	1.70
59115--59171	3	17.7	3	75	13	51	31	3	1	63	1.22
59112--59172	20	2.9	19	69	21	50	31	4	1	62	1.26
60542--60600	23	2.6	23	78	7	68	20	18	23	37	1.94
63197--63237	20	2.0	21	85	9	57	24	4	17	53	1.63
65662--65705	21	2.1	21	91	0	70	29	22	9	38	1.85
71657--71699	22	2.0	22	90	0	68	41	11	11	34	1.78
85046--85093	13	3.8	13	78	10	55	70	0	14	14	1.16
86565--86619	3	18.7	3	89	10	87	70	0	0	29	0.87
86562--86620	19	3.3	19	88	11	97	71	0	0	28	0.87
86564--86622	22	2.7	21	89	5	91	71	0	0	28	0.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
88169--88209	21	2.0	21	90	9	66	21	4	0	73	1.02
88162--88242	25	3.5	23	74	16	69	29	3	0	66	1.09
88208--88272	2	34.5	2	80	11	75	44	1	0	53	1.09
90506--90539	7	4.7	7	96	3	59	14	14	14	55	1.69
91699--91755	11	4.7	11	82	16	60	77	3	17	1	1.00
91706--91778	27	3.0	25	81	15	89	75	2	17	4	1.08
91706--91766	27	2.4	26	89	10	92	75	3	18	3	1.08
91838--91972	69	2.0	69	89	5	211	37	20	15	26	1.93
93503--93830	36	9.4	36	71	14	224	28	18	13	38	1.89
93416--93790	102	3.7	101	84	2	403	29	18	13	38	1.88
93621--93884	138	1.9	138	85	0	366	27	19	12	40	1.87
93792--93960	67	2.6	67	86	3	209	31	20	9	38	1.84
93792--93997	67	3.1	67	82	6	195	32	19	10	37	1.86
94670--94929	110	2.4	106	80	8	299	33	23	17	24	1.96
96350--96401	20	2.8	18	75	11	50	23	5	0	71	1.07
96397--96443	2	25.0	2	81	12	55	44	2	2	51	1.25
96950--96990	21	2.0	21	90	9	66	58	0	0	41	0.98
98654--98703	25	2.0	25	92	0	82	34	12	4	50	1.58
104424--104475	26	2.0	26	81	7	61	51	0	5	42	1.25
112367--112393	6	4.5	6	100	0	54	14	0	29	55	1.40
113154--113205	21	2.4	22	87	6	70	21	11	5	61	1.50
114149--114182	14	2.3	15	85	5	52	38	0	11	50	1.39
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
128873--128922	17	2.9	17	84	0	73	40	6	12	42	1.67
128929--128988	16	3.5	17	84	8	70	41	11	15	31	1.82
129493--129539	21	2.2	21	80	0	58	31	14	19	34	1.92
135956--136015	17	3.6	17	79	2	68	41	1	15	41	1.56
135966--136018	17	3.1	17	83	0	70	39	3	13	43	1.62
136025--136084	16	3.5	17	84	8	70	41	10	16	31	1.81
139080--139125	20	2.3	20	85	7	58	30	21	32	15	1.94
150917--150959	22	2.0	22	90	0	68	34	37	4	23	1.76
152214--152246	16	2.1	16	100	0	66	33	18	6	42	1.75
157777--157807	2	15.5	2	100	0	62	48	0	0	51	1.00
158366--159078	57	12.5	57	90	1	1034	32	18	10	37	1.86
158366--159078	227	3.1	228	90	2	1092	32	18	10	37	1.86
159419--159477	22	2.8	21	83	14	77	22	27	16	33	1.95
159419--159644	95	2.4	94	80	8	226	26	25	15	32	1.96
168576--168656	18	4.8	18	74	23	70	33	3	1	61	1.21
168589--168678	16	5.8	16	69	24	59	30	3	1	65	1.16
168659--168689	14	2.2	14	94	0	53	12	9	0	77	0.99
168660--168764	20	5.5	19	66	21	58	18	4	4	72	1.20
168582--168750	14	11.7	14	67	23	50	26	4	2	66	1.26
168685--168760	31	2.4	32	79	12	86	19	2	6	71	1.21
180190--180271	43	1.9	43	94	0	146	25	32	21	19	1.97
182080--182138	16	3.8	15	74	14	57	33	1	1	62	1.15
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
182121--182211	34	2.6	36	77	10	98	17	6	4	71	1.24
182218--182266	2	24.5	2	100	0	98	48	0	0	51	1.00
185798--185828	13	2.4	13	94	0	53	16	48	19	16	1.81
185831--185861	7	4.4	7	100	0	62	12	32	29	25	1.93
185861--185936	29	2.6	29	87	0	98	21	9	27	42	1.83
193043--193073	13	2.4	13	94	0	53	16	48	19	16	1.81
193099--193174	29	2.6	29	87	0	98	21	9	27	42	1.83
198446--198499	23	2.3	23	93	0	90	11	25	16	46	1.80
201995--202045	17	3.0	17	82	5	59	39	7	13	39	1.74
204209--204288	38	2.1	38	81	9	92	73	1	11	13	1.15
204335--204423	46	2.0	46	84	8	121	55	6	5	32	1.50
204900--204942	18	2.5	17	85	7	61	67	2	4	25	1.22
206234--206806	106	5.4	106	87	1	808	23	19	22	35	1.96
214655--214712	10	5.7	10	78	11	64	77	1	3	17	0.99
215609--215657	24	2.2	24	85	10	68	63	8	14	14	1.52
216023--216080	20	2.6	22	71	23	59	70	0	3	25	1.03
216264--216300	2	19.5	2	83	10	51	54	0	0	45	1.00
218791--218825	18	1.9	18	88	11	54	42	17	5	34	1.73
233336--233657	92	3.5	93	82	5	384	36	9	16	37	1.81
233336--233675	187	1.8	183	83	3	448	36	9	16	37	1.81
234075--234206	57	2.3	56	82	1	147	40	16	9	33	1.80
234179--234367	92	2.1	91	84	4	245	38	12	11	37	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
237327--237485	54	2.9	54	90	0	246	36	16	15	30	1.91
240678--240726	18	2.7	18	90	0	71	40	14	22	22	1.90
248067--248285	54	4.1	54	86	3	307	36	16	16	30	1.91
252035--252076	21	2.0	21	81	9	50	28	23	7	40	1.81
252111--252152	17	2.4	18	80	4	50	50	16	14	19	1.79
254539--254859	93	3.5	90	77	8	308	38	9	15	36	1.81
258001--258213	54	3.9	54	93	0	372	35	18	16	29	1.94
265500--265551	20	2.6	20	87	0	77	30	26	9	32	1.89
267715--268097	56	6.8	57	81	5	402	38	15	11	34	1.84
267714--268105	169	2.3	169	84	5	497	38	16	11	34	1.84
267715--268097	113	3.4	112	81	5	414	38	15	11	34	1.84
268207--268374	59	2.9	56	78	6	185	32	10	17	39	1.84
268185--268374	56	3.3	59	78	5	169	32	10	16	40	1.82
288721--289154	55	7.9	54	85	3	462	36	17	11	33	1.87
288755--289154	165	2.4	164	84	4	511	36	18	11	33	1.87
289597--289634	20	1.9	20	88	0	58	15	26	15	42	1.87
300956--301070	61	1.9	61	90	0	185	23	16	27	32	1.96
301178--301488	46	6.8	46	94	1	529	38	7	22	31	1.82
301178--301488	139	2.3	137	93	2	527	38	7	22	31	1.82
301178--301488	93	3.4	92	93	2	529	38	7	22	31	1.82
308646--308794	2	77.5	2	81	10	186	45	0	1	53	1.09
311399--311431	2	16.5	2	93	0	57	45	0	0	54	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
311395--311431	14	2.7	14	87	4	58	43	0	0	56	0.99
311735--311774	21	1.9	21	89	0	62	55	7	7	30	1.56
316052--316085	13	2.6	13	95	0	59	35	14	5	44	1.70
322405--322606	99	2.0	99	90	0	314	34	15	18	31	1.92
323652--323885	64	3.7	64	89	2	362	35	18	13	32	1.90
323528--323885	128	2.8	124	88	3	504	35	18	13	32	1.90
323969--324238	121	2.2	120	84	4	357	35	24	15	24	1.94
324207--324287	41	2.0	39	95	4	144	37	19	17	25	1.94
324217--324303	41	2.3	37	83	13	99	39	24	13	22	1.91
324446--324611	83	2.0	85	80	2	192	33	19	17	29	1.95

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