genome.fa.s8824.2.7.7.80.10.50.1000.2.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: VEPZ01008824.1 Hibiscus syriacus cultivar Beakdansim tig00111996_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  4603428

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

This is table  2  of  19  ( 2203 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)
179194--179287	20	4.7	20	77	4	82	35	22	11	30	1.90
179197--179275	40	2.0	40	82	5	97	37	22	10	29	1.87
179318--179396	40	2.0	40	84	0	104	30	21	10	37	1.86
179331--179396	20	3.2	21	74	8	73	28	21	12	37	1.89
179341--179408	20	3.4	20	75	15	68	29	22	13	35	1.92
180347--180400	24	2.2	24	86	0	72	24	16	18	40	1.90
182323--182364	6	7.0	6	88	0	66	61	19	2	16	1.44
182323--182371	24	2.0	24	96	0	89	59	20	2	18	1.48
182323--182371	12	4.1	12	83	0	62	59	20	2	18	1.48
182608--182667	29	2.1	29	90	6	95	25	15	23	36	1.93
182615--182677	29	2.2	29	82	5	74	28	12	25	33	1.92
182740--182781	20	2.1	20	86	0	57	23	16	19	40	1.91
184259--184333	21	3.6	21	92	3	125	25	20	33	21	1.97
184635--184715	42	2.0	41	82	7	101	37	29	12	20	1.90
184743--184792	21	2.4	21	79	0	64	36	34	12	18	1.87
186459--186521	20	3.2	20	86	2	83	49	23	14	12	1.78
186528--186566	20	2.0	20	94	0	69	17	10	17	53	1.71
186530--186573	20	2.2	20	87	0	61	18	11	18	52	1.74
187037--187075	19	2.1	19	85	0	51	35	20	20	23	1.96
187091--187160	20	3.5	20	94	0	122	24	18	21	35	1.95
187194--187250	20	2.8	20	94	0	96	31	12	26	29	1.92
187205--187265	20	3.0	20	90	4	70	34	11	26	27	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
187381--187429	23	2.0	24	88	7	73	48	0	6	44	1.27
187415--187566	35	4.5	33	81	12	166	42	3	11	42	1.59
187414--187549	65	2.1	66	87	5	197	41	4	11	41	1.61
187585--187648	29	2.2	30	85	2	85	39	0	7	53	1.30
187648--187694	18	2.8	17	77	22	55	29	0	4	65	1.11
202100--202131	2	16.0	2	100	0	64	50	0	0	50	1.00
208596--208647	20	2.7	20	75	22	56	63	0	17	19	1.31
223832--223883	20	2.4	23	78	18	74	36	9	25	28	1.87
223841--223893	20	2.7	20	93	0	97	33	15	22	28	1.94
223933--223978	20	2.2	21	84	7	58	26	13	30	30	1.93
224395--224633	79	3.0	79	88	0	352	36	11	21	30	1.89
224400--224662	79	3.3	78	82	3	321	36	11	21	30	1.89
230803--230840	20	1.9	20	94	0	67	28	21	21	28	1.98
231505--231604	45	2.2	45	89	0	146	31	11	26	32	1.91
231458--231691	124	1.9	124	87	3	346	34	11	24	30	1.90
236777--236950	89	2.0	88	93	2	294	45	6	10	37	1.64
243701--243877	90	2.0	89	92	1	291	45	5	10	38	1.60
245352--245392	2	21.0	2	95	5	75	48	0	0	51	1.00
247097--247126	1	30.0	1	100	0	60	0	0	0	100	0.00
250729--250766	18	2.1	19	90	5	60	47	5	5	42	1.48
253095--253159	19	3.4	19	95	0	121	18	6	33	41	1.75
258108--258174	24	2.8	24	77	6	73	52	17	11	17	1.74
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
258115--258174	12	5.0	12	78	8	68	50	18	13	18	1.78
258155--258209	24	2.3	25	75	9	60	41	16	16	25	1.88
260690--260727	18	2.1	18	90	9	60	10	18	47	23	1.79
262483--262549	24	2.8	24	77	6	73	52	17	11	17	1.74
262490--262549	12	5.0	12	78	8	68	50	18	13	18	1.78
262530--262584	24	2.3	25	75	9	60	41	16	16	25	1.88
263247--263568	160	2.0	160	100	0	644	30	18	16	34	1.94
265072--265128	23	2.5	23	82	5	71	17	14	49	19	1.80
267270--267327	24	2.4	25	82	8	84	44	15	18	20	1.86
271616--271662	2	23.5	2	100	0	94	51	0	0	48	1.00
274403--274437	18	1.9	18	100	0	70	14	17	51	17	1.77
276267--276307	2	20.5	2	100	0	82	51	0	0	48	1.00
276468--276534	24	2.8	24	77	6	64	55	13	13	17	1.70
280000--280189	94	2.0	94	100	0	380	27	15	18	37	1.91
280937--281005	12	5.8	12	76	19	54	53	14	14	17	1.73
280931--281005	24	3.0	25	77	14	84	53	13	14	18	1.73
282648--282686	18	2.1	18	85	4	51	35	15	2	46	1.60
285631--285686	24	2.3	24	84	0	76	48	16	14	21	1.81
292362--292409	25	2.0	23	92	8	78	20	25	12	41	1.87
294555--294581	2	13.5	2	100	0	54	51	0	0	48	1.00
294760--294815	12	4.7	12	76	8	51	51	19	10	17	1.74
294783--294860	24	3.2	24	73	10	70	47	17	14	20	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
298596--298644	20	2.5	20	86	0	71	32	28	20	18	1.96
299393--299461	12	5.8	12	76	6	59	52	18	14	14	1.75
299393--299458	24	2.8	24	83	0	69	53	18	15	13	1.74
301951--302007	18	3.2	18	87	0	87	19	19	42	19	1.90
305603--305692	45	2.0	45	97	0	171	37	16	20	25	1.93
307197--307417	82	2.7	81	85	4	279	39	21	15	23	1.91
307763--307802	17	2.4	17	83	4	55	40	2	17	40	1.63
307764--307852	43	2.1	41	82	17	103	41	4	14	39	1.66
307824--307902	28	2.8	28	78	18	76	46	2	7	43	1.45
307913--307960	19	2.7	18	83	6	62	39	0	2	58	1.10
307913--307987	11	6.7	11	73	18	66	36	1	2	60	1.20
309887--309928	17	2.6	16	88	3	57	30	30	16	21	1.95
311148--311258	2	57.5	2	84	10	133	45	2	0	51	1.15
317575--317668	41	2.3	42	81	9	113	32	11	21	34	1.89
318922--319039	40	3.0	39	79	9	114	33	15	13	37	1.86
318971--319065	39	2.5	39	89	1	147	35	16	13	33	1.88
319041--319092	25	2.1	25	92	0	86	36	15	15	32	1.89
319002--319122	61	1.9	62	83	5	154	33	19	14	33	1.91
319066--319191	39	3.3	37	84	5	146	29	17	15	38	1.90
319066--319211	39	3.8	38	83	6	129	30	17	14	36	1.90
319210--319469	43	6.1	42	83	7	276	30	12	27	30	1.93
319224--319469	129	1.9	127	86	3	350	29	11	28	30	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
319410--319517	54	2.0	55	90	1	173	27	13	29	28	1.95
319519--319761	90	2.7	90	92	1	409	25	20	23	31	1.98
320112--320151	17	2.4	17	87	4	64	30	27	15	27	1.96
321358--321434	2	41.0	2	75	17	58	44	3	0	51	1.19
321363--321435	11	6.7	11	76	11	53	45	2	0	52	1.15
321404--321445	10	3.5	12	84	15	52	54	0	0	45	0.99
324624--324662	2	20.5	2	87	10	55	53	0	2	43	1.14
327204--327242	21	1.9	20	94	5	69	23	23	17	35	1.95
327208--327254	21	2.2	21	85	7	60	25	21	21	31	1.98
328107--328281	90	1.9	90	92	0	296	37	23	10	29	1.88
337117--337142	13	2.0	13	100	0	52	23	23	7	46	1.78
339586--339633	21	2.3	21	79	10	55	52	0	39	8	1.32
341725--341750	2	13.0	2	100	0	52	50	0	0	50	1.00
343276--343515	4	60.0	4	97	0	453	48	26	0	25	1.51
345076--345111	14	2.6	14	90	0	54	52	22	11	13	1.72
346765--346819	22	2.5	22	94	2	94	29	25	7	38	1.83
348225--348340	36	3.2	36	97	0	214	27	17	9	45	1.79
359743--359778	16	2.4	14	86	13	54	44	0	0	55	0.99
359745--359802	26	2.3	24	80	16	64	39	1	0	58	1.08
359784--359812	12	2.5	12	94	5	51	34	0	0	65	0.93
359790--359831	13	3.2	13	86	6	50	35	0	0	64	0.94
359896--359954	2	31.0	2	74	16	54	47	5	0	47	1.24
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
359826--359910	40	2.1	40	81	14	95	45	3	0	50	1.18
360027--360062	17	2.1	17	90	10	56	44	2	0	52	1.15
360229--360263	18	1.9	18	88	0	52	28	11	0	60	1.32
361798--361904	20	5.3	20	80	0	124	43	24	12	19	1.85
361942--362021	20	4.0	20	79	8	72	41	20	15	23	1.89
361992--362065	19	3.7	21	75	13	75	36	22	9	31	1.86
361992--362065	21	3.7	20	77	16	64	36	22	9	31	1.86
363015--363060	24	1.9	24	90	0	74	28	13	19	39	1.89
363020--363073	24	2.2	24	90	6	83	22	12	20	44	1.85
365344--365378	6	5.8	6	86	0	52	60	20	2	17	1.49

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