genome.fa.s8010.2.7.7.80.10.50.1000.3.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: VEPZ01008010.1 Hibiscus syriacus cultivar Beakdansim tig00110472_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3152856

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   

This is table  3  of  14  ( 1680 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)
284769--284799	7	4.4	7	100	0	62	25	29	29	16	1.96
284782--284848	22	3.0	22	93	4	107	11	23	46	17	1.82
284845--284943	9	10.3	9	77	10	90	29	28	27	15	1.96
284847--284944	19	5.1	19	80	13	101	29	28	25	16	1.97
284870--284944	29	2.5	31	91	8	129	29	28	26	16	1.96
286400--286438	20	1.9	21	94	5	71	46	23	15	15	1.83
286489--287311	199	4.1	198	87	2	1166	42	15	13	28	1.85
286489--287312	398	2.1	400	90	1	1296	42	15	13	28	1.85
287968--288155	31	6.0	32	74	12	158	32	18	16	31	1.93
288020--288158	32	4.4	31	77	8	147	34	17	15	31	1.92
288004--288158	63	2.5	63	95	0	274	32	18	15	32	1.92
289139--289295	64	2.5	64	75	10	151	26	19	20	33	1.97
292788--292969	32	5.8	31	82	8	224	32	18	16	32	1.93
292772--292989	63	3.5	63	97	0	400	32	18	16	33	1.93
292733--292989	31	8.2	31	78	8	254	31	18	17	32	1.94
295696--295888	30	6.4	30	96	0	341	32	22	20	24	1.98
295862--295955	31	3.1	30	75	4	89	30	23	18	27	1.97
295696--295913	90	2.4	90	91	0	310	33	22	19	23	1.97
295871--295966	31	3.1	30	74	12	88	32	20	19	27	1.97
297001--297097	43	2.3	41	82	8	108	26	24	21	26	1.99
297001--297097	20	4.7	20	82	10	106	26	24	21	26	1.99
299049--299729	198	3.4	197	81	6	716	40	14	14	31	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
299743--299787	23	2.0	23	95	0	81	37	20	8	33	1.83
301142--301629	131	3.7	131	84	3	608	35	12	11	40	1.79
301549--302204	199	3.3	198	90	2	996	33	12	13	40	1.82
305529--305596	35	1.9	35	88	8	102	27	19	29	23	1.98
306787--306922	68	2.0	68	98	0	263	36	2	25	34	1.71
307706--307799	20	4.7	20	72	15	77	28	10	12	47	1.75
320577--320624	16	3.0	16	78	0	51	22	12	14	50	1.77
325729--325780	25	2.1	25	86	10	72	46	15	0	38	1.46
329774--329833	22	2.7	22	82	5	68	28	23	25	23	2.00
329891--329924	17	2.1	17	88	5	52	32	23	5	38	1.79
361552--361607	24	2.3	25	78	9	71	21	16	16	46	1.84
373907--373999	9	10.0	9	83	6	123	34	21	32	11	1.90
373907--373995	6	14.8	6	81	0	79	34	21	32	11	1.89
374112--374183	26	3.0	24	68	27	62	26	6	4	62	1.39
374211--374290	35	2.3	35	80	20	96	27	8	7	56	1.57
377566--377602	12	2.9	13	84	15	51	62	5	2	29	1.31
377863--377974	51	2.2	51	82	3	127	26	27	29	16	1.97
377863--377989	51	2.5	51	78	5	114	25	26	32	15	1.96
378453--378479	14	1.9	14	100	0	54	29	0	7	62	1.22
390472--390516	23	2.0	23	82	8	56	11	20	11	57	1.63
391761--391809	19	2.7	17	84	9	53	26	20	28	24	1.99
400284--400332	19	2.7	17	84	9	53	26	20	28	24	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
400278--400463	65	2.9	64	80	7	216	26	19	23	29	1.98
400278--400513	129	1.8	130	81	8	293	26	19	23	30	1.98
400303--400513	65	3.3	63	78	12	214	27	18	23	30	1.98
405891--406227	125	2.7	125	96	0	620	37	16	20	25	1.93
411902--411968	23	2.9	23	81	0	80	29	23	22	23	1.99
411984--412201	103	2.1	103	96	0	400	36	23	14	25	1.92
421208--421233	13	2.0	13	100	0	52	38	15	0	46	1.46
421547--421610	21	3.0	21	90	2	92	28	28	21	21	1.99
422357--422422	24	2.8	24	81	6	82	27	19	27	25	1.99
423460--423499	21	1.9	21	90	10	64	22	27	35	15	1.94
424226--424277	26	1.9	28	84	7	72	30	5	1	61	1.30
425238--425285	19	2.5	20	89	3	71	47	2	0	50	1.12
425653--425688	9	4.0	9	85	0	54	72	0	0	27	0.85
442366--442400	2	18.0	2	94	5	63	48	0	0	51	1.00
442814--442859	2	24.0	2	84	8	51	56	0	0	43	0.99
443307--443389	3	27.7	3	90	0	130	62	0	3	33	1.12
443632--444180	113	4.9	113	89	0	805	28	19	13	38	1.89
444901--445194	50	5.9	50	100	0	588	38	23	13	23	1.91
446333--446387	19	2.9	18	82	12	58	3	16	0	80	0.86
456820--456854	18	1.9	18	88	11	54	60	2	5	31	1.35
459047--459129	3	27.7	3	92	0	139	63	0	2	33	1.07
467501--467537	19	1.9	19	94	0	65	21	37	16	24	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
467436--467582	64	2.2	65	82	9	174	33	23	15	27	1.95
473454--473533	24	3.5	22	78	14	92	22	26	23	27	2.00
475710--475762	26	2.0	26	100	0	106	30	3	35	30	1.75
479682--479762	20	3.8	20	78	10	81	17	22	32	28	1.96
489186--489249	23	2.8	23	80	2	58	35	3	4	56	1.36
490211--490247	4	9.2	4	100	0	74	24	0	27	48	1.51
491382--491422	2	20.5	2	100	0	82	51	0	0	48	1.00
495186--495322	21	6.6	21	74	8	100	29	22	21	25	1.99
495311--495385	20	3.8	19	75	12	64	24	20	24	32	1.98
495331--495395	21	3.2	21	68	6	55	27	21	24	26	1.99
496094--496182	21	4.2	21	83	0	115	26	20	23	29	1.99
496094--496266	42	4.1	42	76	7	138	28	19	23	28	1.98
496200--496270	21	3.4	21	90	3	108	25	21	25	28	1.99
496189--496282	21	4.5	21	77	5	91	30	21	21	26	1.98
496189--496286	42	2.3	41	81	8	126	31	21	21	25	1.98
501542--501567	7	3.7	7	100	0	52	53	15	30	0	1.42
504454--504499	20	2.3	20	85	7	58	26	4	10	58	1.50
509726--509819	36	2.6	36	91	0	152	29	12	31	25	1.93
514617--514691	20	3.7	19	76	13	60	28	24	25	22	2.00
515398--515494	22	4.6	22	84	6	130	15	24	30	28	1.96
515459--515493	18	1.9	18	94	0	61	17	22	31	28	1.96
524156--524194	20	2.0	20	89	0	60	12	28	35	23	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
526433--526479	23	2.0	23	95	0	85	23	23	31	21	1.98
531372--531409	20	1.9	20	100	0	76	10	21	42	26	1.85
534165--534211	21	2.2	21	84	0	67	68	0	17	14	1.22
534627--535925	646	2.0	649	98	0	2541	25	20	19	34	1.96
537340--537393	22	2.5	22	82	11	69	25	20	24	29	1.99
543507--543553	21	2.2	22	88	3	69	21	23	34	21	1.97
544013--544234	113	2.0	113	97	0	417	32	14	18	34	1.91
559497--559542	16	2.8	16	83	9	58	52	2	0	45	1.13
570712--570844	64	2.1	64	95	0	239	15	31	11	42	1.82
580250--580379	60	2.2	60	77	2	136	37	23	6	33	1.79
607386--607448	21	3.0	21	97	0	117	50	14	23	11	1.74
616924--616965	21	2.0	21	90	0	66	52	14	21	11	1.73
624238--624311	13	5.4	13	75	9	67	25	10	2	60	1.43
624240--624685	43	10.3	43	77	11	263	26	16	4	52	1.63
624240--624686	172	2.6	172	80	7	473	26	16	4	52	1.63
624283--624731	44	10.3	43	75	10	247	26	16	4	51	1.64
628930--628962	14	2.4	14	100	0	66	39	15	30	15	1.88
635717--635868	68	2.2	68	84	9	186	26	26	28	17	1.98
649565--649603	15	2.7	14	84	7	51	41	28	10	20	1.85
651430--651510	12	6.9	12	81	5	103	23	18	18	39	1.92
651420--651508	35	2.6	34	87	3	115	23	17	19	39	1.92
651420--651507	12	7.6	11	78	7	77	23	18	19	38	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
651430--651507	23	3.3	23	89	1	111	21	19	19	39	1.92
656959--657091	51	2.6	50	80	9	144	20	31	29	18	1.96
657103--657226	50	2.5	51	82	4	171	26	25	20	26	1.99
663075--663113	20	2.0	19	90	5	60	43	0	23	33	1.54
663195--663345	50	3.0	50	80	8	146	19	31	31	17	1.95
663196--663349	51	3.1	51	83	4	188	19	31	31	16	1.94
663972--664027	24	2.4	22	76	23	53	42	3	0	53	1.18
666475--666499	2	12.5	2	100	0	50	52	0	0	48	1.00
667255--667288	18	2.0	17	88	11	52	32	5	2	58	1.37
669151--669439	126	2.3	127	85	2	375	39	19	18	22	1.93

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14