genome.fa.s2648.2.7.7.80.10.50.1000.2.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: VEPZ01002648.1 Hibiscus syriacus cultivar Beakdansim tig00005411_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  636717

Tables:   1   2   3   4   

This is table  2  of  4  ( 408 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)
168077--168127	23	2.2	23	85	0	66	47	0	1	50	1.12
168076--168149	35	2.1	34	83	11	89	47	0	2	50	1.15
168294--168340	22	2.1	23	88	4	69	53	0	2	44	1.12
168302--168345	22	2.0	22	82	8	54	54	0	2	43	1.12
168262--168411	53	2.9	53	73	14	125	48	0	2	48	1.20
168571--168658	42	2.1	42	91	4	142	48	13	14	22	1.79
175112--175181	20	3.5	20	72	2	59	30	24	17	28	1.97
188652--188742	30	3.0	29	82	9	119	34	19	19	26	1.96
188652--188742	31	3.0	31	85	4	114	34	19	19	26	1.96
193719--193810	30	3.0	29	81	9	112	35	21	16	26	1.94
193719--193809	31	3.0	31	85	7	116	36	20	16	26	1.94
195259--195292	17	1.9	18	88	5	52	64	5	0	29	1.17
196213--196261	24	2.1	23	92	3	80	38	0	0	61	0.96
201005--201095	30	3.0	30	82	6	121	35	19	18	26	1.95
201005--201095	31	3.0	31	86	1	130	35	19	18	26	1.95
205728--205761	2	17.0	2	100	0	68	50	0	0	50	1.00
206089--206179	30	3.0	30	83	4	112	36	20	16	26	1.94
215018--215240	112	2.0	112	94	0	394	46	11	7	34	1.68
215508--215633	50	2.5	50	82	0	153	19	26	36	17	1.94
216582--216682	38	2.7	38	89	4	152	13	11	37	36	1.82
217260--217316	16	3.6	16	81	6	62	36	15	1	45	1.57
219941--219979	13	2.9	13	88	3	51	46	0	0	53	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
221418--221461	24	1.9	22	90	9	70	38	6	4	50	1.50
222605--222663	16	3.7	16	97	0	109	55	23	11	8	1.63
234029--234074	23	2.0	23	83	8	58	32	2	6	58	1.36
235102--235147	16	2.8	16	93	3	74	47	23	19	8	1.77
237311--237368	2	29.0	2	100	0	116	50	0	0	50	1.00
242828--242887	24	2.5	24	94	0	102	38	25	16	20	1.93
246263--246433	45	3.8	45	82	2	218	30	20	7	41	1.80
248152--248268	56	2.1	56	96	0	216	38	13	5	42	1.67
250583--250636	25	2.1	26	86	3	74	33	1	0	64	1.04
252865--252896	2	16.0	2	100	0	64	50	0	0	50	1.00
256628--256701	20	3.7	20	80	10	87	28	21	28	21	1.99
256619--256701	41	2.0	41	88	4	123	26	24	27	21	1.99
256740--256800	22	2.8	22	94	0	104	19	21	32	26	1.97
256722--256842	64	1.9	64	83	6	156	22	19	33	24	1.97
256787--256842	21	2.7	21	91	0	94	23	16	35	25	1.94
256922--256979	30	2.0	29	86	10	82	44	18	3	32	1.67
256922--256981	29	2.0	30	90	6	95	43	18	5	33	1.72
272678--272733	12	4.8	11	82	10	67	3	16	5	75	1.13
272672--272746	23	3.2	24	84	5	100	2	12	9	76	1.13
272679--272743	11	5.7	11	77	10	60	3	12	6	78	1.05
277935--277991	10	5.5	11	74	19	52	73	1	15	8	1.16
277947--277988	19	2.2	19	83	8	50	78	0	14	7	0.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
278012--278053	18	2.3	18	95	0	75	47	16	19	16	1.83
278952--279107	67	2.3	69	83	3	190	35	25	20	18	1.95
278979--279129	67	2.3	67	83	0	194	32	27	20	19	1.97
279088--279348	71	3.7	71	78	4	258	30	26	22	20	1.98
279088--279348	141	1.9	141	79	1	299	30	26	22	20	1.98
279398--279431	17	2.0	17	100	0	68	29	23	29	17	1.97
279584--279685	3	32.3	3	73	13	64	39	1	0	57	1.16
279585--279628	23	1.9	23	90	9	72	36	0	0	63	0.95
279608--279648	17	2.5	17	92	4	66	41	0	2	56	1.13
279585--279687	20	5.1	19	75	15	82	37	2	0	58	1.20
279586--279672	13	6.9	12	78	12	79	39	1	1	58	1.13
281947--281989	22	2.0	22	95	0	77	34	4	20	39	1.74
286673--286707	18	1.9	18	88	0	52	25	20	22	31	1.98
292496--292535	18	2.3	18	86	4	55	32	20	22	25	1.98
295159--295256	45	2.2	44	80	12	112	29	20	22	27	1.98
299057--299096	21	1.9	21	89	0	62	30	7	7	55	1.56
309294--310063	381	2.0	383	96	3	1435	35	13	14	36	1.86
312276--312305	15	2.0	15	100	0	60	46	0	13	40	1.43
312275--312308	15	2.4	14	90	9	59	44	0	14	41	1.45
312497--312550	17	3.3	17	80	14	60	57	0	0	42	0.98
315875--315915	2	20.5	2	100	0	82	51	0	0	48	1.00
320572--320639	21	3.2	21	72	12	57	29	1	22	47	1.60
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
322189--322222	17	2.0	17	100	0	68	52	5	0	41	1.25
324540--324976	218	2.0	218	96	2	808	26	11	20	41	1.86
325022--325071	19	2.6	19	100	0	100	42	24	10	24	1.85
335257--335361	2	53.0	2	98	1	203	49	0	0	50	1.00
340764--340799	2	17.5	2	94	5	63	50	2	0	47	1.15
344140--344187	13	3.7	13	91	0	69	27	20	16	35	1.94
344140--344194	13	4.2	13	88	0	65	25	21	16	36	1.94
346490--346795	152	2.0	154	98	1	598	35	15	17	30	1.91
347993--348149	64	2.5	63	78	10	167	26	19	19	34	1.96
354334--354364	15	2.1	15	93	0	53	32	32	22	12	1.92
354452--354532	29	2.8	29	96	3	146	17	22	16	44	1.86
354907--355051	64	2.3	63	78	7	159	26	17	18	36	1.94
358807--359024	31	7.0	31	94	1	366	20	18	22	38	1.93
362800--362836	19	1.9	19	100	0	74	16	27	32	24	1.96
363416--363602	31	6.0	31	94	1	304	20	18	21	38	1.93
364565--364594	16	1.9	15	93	6	51	66	0	33	0	0.92
366531--366621	21	4.4	21	93	5	150	18	20	30	29	1.97
366515--366718	40	4.7	40	78	13	174	21	19	25	34	1.96
366597--366657	30	2.0	30	96	0	113	21	18	24	36	1.95
366627--366685	19	2.8	20	73	16	66	22	20	25	32	1.98
366576--366672	51	1.9	50	85	8	133	20	18	26	34	1.96
366627--366693	21	3.2	21	72	16	57	20	19	25	34	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
366627--366718	42	2.2	42	92	0	148	22	18	22	35	1.95
366536--366710	93	1.9	90	84	6	235	20	19	25	34	1.96
371081--371120	21	1.9	21	84	0	53	50	0	0	50	1.00
372757--372812	21	2.8	20	76	10	60	30	17	21	30	1.96
372800--372985	95	1.9	96	84	3	250	34	17	20	27	1.95
373355--373527	59	3.0	59	89	1	260	35	12	17	34	1.88
373785--374017	68	3.4	68	87	1	324	30	14	25	29	1.95
373785--374058	68	4.0	68	83	5	311	32	14	24	29	1.94
373990--374234	81	3.0	81	89	0	373	39	11	21	27	1.88
378404--378457	21	2.7	20	80	5	63	33	12	18	35	1.89
378980--379139	59	2.7	59	90	0	241	36	11	16	35	1.86
379433--379665	68	3.4	68	86	2	297	32	14	22	30	1.94
379512--379683	68	2.5	68	85	0	173	31	14	23	29	1.94
379617--380011	81	4.9	81	88	1	562	39	13	20	26	1.89
379619--380011	161	2.4	161	89	1	581	39	12	20	26	1.89
380027--380169	59	2.4	59	92	1	243	30	12	18	38	1.88
380427--380645	68	3.2	68	89	0	321	30	16	23	29	1.96
380427--380671	68	3.6	68	86	2	303	31	15	23	28	1.96
380427--380700	68	4.0	68	83	3	221	31	15	23	28	1.95
380427--380700	136	2.0	136	80	2	309	31	15	23	28	1.95
380633--381034	81	5.0	81	86	2	533	40	12	19	27	1.87
381006--381065	29	2.1	29	87	0	84	43	6	23	26	1.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
382113--382144	2	16.0	2	100	0	64	50	0	0	50	1.00
383483--383519	18	2.1	18	94	0	65	40	10	27	21	1.86
383538--383623	32	2.7	32	87	0	136	44	5	16	33	1.71
387957--387989	17	2.0	17	88	5	50	39	0	0	60	0.97
393583--393644	2	31.0	2	77	6	63	40	1	0	58	1.08
393592--393668	38	2.1	36	88	9	111	32	2	0	64	1.07
393576--393725	48	3.1	49	79	14	136	27	3	0	68	1.10
393642--393730	27	3.7	22	70	22	63	17	5	1	75	1.06
393607--393727	4	30.5	4	75	18	78	23	3	0	72	1.04
396628--396691	13	4.9	13	84	5	85	78	3	17	1	0.96

Tables:   1   2   3   4