genome.fa.s9580.2.7.7.80.10.50.1000.2.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: VEPZ01009580.1 Hibiscus syriacus cultivar Beakdansim tig00116954_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1633873

Tables:   1   2   3   4   5   6   

This is table  2  of  6  ( 709 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)
155594--155696	52	2.0	52	86	7	147	30	8	9	51	1.65
163263--163294	2	17.0	2	87	12	50	50	0	0	50	1.00
163263--163293	13	2.4	13	94	0	53	48	0	0	51	1.00
166534--166574	21	1.9	22	90	5	66	39	9	31	19	1.84
168395--168430	18	2.0	18	88	0	54	16	66	0	16	1.25
170547--170613	19	3.5	19	87	2	89	40	20	17	20	1.92
172857--173040	96	1.9	96	98	1	361	52	8	16	22	1.71
176238--176398	85	1.9	86	92	1	270	45	4	11	39	1.60
176639--176689	23	2.3	22	86	6	68	56	11	1	29	1.46
177636--177682	24	2.0	24	100	0	94	38	8	36	17	1.80
180215--180267	21	2.5	21	81	6	63	39	0	1	58	1.09
180268--180306	18	2.2	18	90	4	62	46	15	5	33	1.68
180998--181022	13	1.9	13	100	0	50	80	0	8	12	0.92
186258--186417	80	2.0	80	100	0	320	46	23	8	21	1.79
188099--188252	77	2.0	77	100	0	308	38	10	10	40	1.74
190281--190321	20	2.0	20	85	4	55	26	29	4	39	1.77
194266--194298	16	2.1	16	94	5	59	27	24	24	24	2.00
202992--203043	23	2.3	23	80	6	72	21	36	21	21	1.95
203024--203063	21	1.9	21	85	10	55	25	37	25	12	1.91
205293--205332	19	2.1	19	100	0	80	40	0	17	42	1.49
206590--206659	32	2.2	32	94	0	122	31	10	21	37	1.86
213148--213224	37	2.1	37	85	4	102	48	1	3	46	1.28
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
213370--213407	20	1.9	20	88	0	58	21	26	10	42	1.85
216822--217051	65	3.6	64	78	8	200	27	17	24	30	1.97
216952--217000	19	2.7	18	84	9	64	24	16	34	24	1.95
223431--223470	21	1.9	21	85	10	55	35	10	2	52	1.48
225004--225129	64	2.0	65	87	1	182	29	17	23	29	1.97
225135--225171	19	1.9	19	94	0	65	24	16	37	21	1.93
225025--225185	66	2.5	65	85	4	209	27	15	25	31	1.96
230716--230785	14	5.1	14	81	16	85	15	12	15	55	1.69
230717--230776	24	2.4	24	91	5	93	16	11	15	56	1.67
231041--231100	24	2.5	24	94	2	104	5	11	25	58	1.53
231049--231103	10	5.1	10	77	16	56	5	12	23	58	1.55
231169--231201	16	2.1	16	100	0	66	6	12	24	57	1.57
243938--243995	20	2.9	20	100	0	116	25	29	18	25	1.98
250308--250352	23	2.0	23	100	0	90	40	0	31	28	1.57
250577--250604	9	3.1	9	100	0	56	46	0	10	42	1.38
252270--252308	2	19.5	2	100	0	78	48	0	0	51	1.00
254182--254341	65	2.5	63	85	6	205	30	23	19	26	1.98
254313--254361	19	2.6	19	84	9	57	24	28	20	26	1.99
260051--260134	23	3.6	23	93	4	134	21	25	25	28	1.99
261663--261705	21	2.0	21	81	0	50	9	44	16	30	1.79
262817--262923	45	2.4	45	87	4	144	28	21	20	28	1.98
262893--262941	19	2.6	19	84	9	57	24	28	20	26	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
270146--270313	48	3.5	48	91	0	264	19	33	19	27	1.96
270245--270705	207	2.2	207	87	0	654	21	35	18	23	1.96
280612--280692	36	2.2	36	84	2	108	50	7	6	35	1.55
282521--282594	35	2.1	35	100	0	148	50	5	5	39	1.48
289291--290050	384	2.0	375	95	3	1382	32	19	21	26	1.97
291930--291957	2	14.0	2	100	0	56	50	0	0	50	1.00
292196--292220	2	12.5	2	100	0	50	52	0	0	48	1.00
293526--293627	34	2.8	37	86	10	149	43	13	13	29	1.83
293526--293661	37	3.8	35	81	9	150	41	13	13	30	1.83
297423--297519	23	4.1	23	75	13	72	76	6	16	1	1.04
297423--297494	8	9.3	7	79	20	65	77	5	16	0	0.94
297465--297521	27	2.1	27	84	12	73	75	7	15	1	1.10
297449--297522	16	4.5	16	70	11	51	75	6	16	1	1.08
298141--298195	22	2.5	22	90	0	83	36	21	12	29	1.91
298599--298634	18	2.0	18	88	0	54	19	8	30	41	1.81
299004--299253	37	7.1	36	76	14	177	28	18	14	39	1.89
298990--299314	138	2.4	138	84	1	422	28	18	13	39	1.88
299128--299251	36	3.4	36	85	3	169	25	20	14	39	1.90
299209--299383	65	2.6	65	84	4	224	33	21	9	36	1.85
299987--300543	105	5.3	105	86	4	705	34	25	17	22	1.96
301090--301191	34	2.8	37	88	10	158	43	14	13	28	1.84
301090--301225	37	3.8	35	83	9	159	41	13	13	30	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
301857--301909	22	2.3	23	78	18	58	28	5	0	66	1.15
301927--302004	4	20.2	4	78	10	65	20	2	2	74	1.06
302900--302946	2	25.0	2	87	12	73	51	0	0	48	1.00
304001--304029	2	14.5	2	100	0	58	0	48	0	51	1.00
304029--304090	2	31.0	2	100	0	124	50	0	0	50	1.00
305122--305163	20	2.1	20	86	0	57	40	7	0	52	1.29
305767--305818	21	2.5	21	87	3	79	38	19	25	17	1.93
305807--305941	20	6.7	20	77	4	92	34	22	17	25	1.95
305807--305900	41	2.3	40	83	1	107	36	22	17	24	1.95
305786--305935	61	2.5	61	81	4	160	36	22	17	23	1.94
307357--307402	20	2.3	20	84	0	56	36	23	21	17	1.94
307368--307411	20	2.2	20	88	4	63	36	20	25	18	1.95
307396--307492	19	5.7	18	72	22	93	44	21	20	13	1.86
307413--307468	14	3.6	14	74	21	58	50	23	16	10	1.76
307396--307487	33	2.8	32	95	3	157	45	21	19	13	1.84
307499--307638	20	7.9	18	72	18	89	12	20	22	44	1.85
307504--307596	33	2.8	33	93	1	161	12	19	21	46	1.83
309497--309535	14	2.8	14	84	0	51	35	0	17	46	1.49
309662--309715	14	3.5	14	75	22	54	50	20	18	11	1.77
309671--309720	14	2.9	18	72	27	63	50	18	20	12	1.78
312974--313100	33	3.8	33	90	0	200	43	19	22	14	1.87
312974--313104	19	7.7	19	64	23	76	43	19	22	13	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
312975--313103	66	2.0	66	95	0	231	42	20	23	13	1.88
313263--313299	14	2.6	14	91	0	65	45	24	0	29	1.53
314693--314772	42	1.9	42	84	0	106	22	17	38	21	1.93
314994--315178	91	2.0	90	91	6	300	47	18	12	21	1.82
316866--316918	20	2.7	20	96	0	97	47	15	22	15	1.82
316889--316985	33	2.9	33	85	1	122	42	18	24	14	1.88
316986--317033	20	2.5	19	77	12	53	10	16	27	45	1.80
317553--317606	20	2.7	19	85	5	63	20	18	24	37	1.94
317571--317618	20	2.3	20	82	3	60	18	22	18	39	1.92
317550--317692	76	1.9	76	79	5	164	26	18	18	36	1.94
325268--326451	296	4.0	296	91	1	1910	23	12	20	43	1.86
325268--326451	593	2.0	590	91	2	1926	23	12	20	43	1.86
336631--336669	20	2.0	20	89	0	60	25	7	48	17	1.74
340178--340481	42	7.3	42	84	5	314	41	4	3	50	1.41
340136--340481	14	24.8	14	75	9	260	42	4	3	49	1.39
343261--343341	32	2.6	31	90	2	117	38	23	24	13	1.91
354896--354929	6	5.7	6	100	0	68	0	14	52	32	1.42
364822--364871	21	2.4	21	93	0	82	22	16	4	58	1.55
365078--365113	16	2.2	16	90	5	54	27	5	0	66	1.13
366098--366131	10	3.4	10	87	0	50	20	5	0	73	1.04
376216--376990	105	7.4	105	95	0	1336	32	26	18	22	1.97
376216--376935	314	2.3	315	96	0	1334	32	26	18	22	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
378797--378845	21	2.3	21	92	0	80	20	16	4	59	1.53
378962--378986	6	4.2	6	100	0	50	16	0	16	68	1.22
379051--379086	16	2.2	16	90	5	54	27	5	0	66	1.13
381534--381583	17	2.8	18	78	18	52	22	6	2	70	1.20
381541--381587	20	2.4	19	79	10	51	19	6	2	72	1.17
382134--382234	35	2.9	35	82	2	114	43	21	1	32	1.64
383565--383607	21	2.0	21	81	0	50	30	30	25	13	1.94
384142--384440	148	2.0	147	93	4	514	27	15	21	36	1.93
385711--385758	24	2.0	24	100	0	96	41	4	29	25	1.74
386133--386206	35	2.1	35	89	0	112	44	18	1	35	1.59

Tables:   1   2   3   4   5   6